Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 229 of 292
Found at i:66671268 original size:13 final size:13
Alignment explanation
Indices: 66671250--66671274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66671240 TTCATAACAA
66671250 AATAATAATAAAT
1 AATAATAATAAAT
66671263 AATAATAATAAA
1 AATAATAATAAA
66671275 CCAAATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:66673849 original size:29 final size:29
Alignment explanation
Indices: 66673815--66673874 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
66673805 ATGATGAGAG
66673815 TATACCCAAAATAATTTCAGACTCATGGA
1 TATACCCAAAATAATTTCAGACTCATGGA
66673844 TATACCCAAAATAATTTCAGACTCATGGA
1 TATACCCAAAATAATTTCAGACTCATGGA
66673873 TA
1 TA
66673875 CTTAGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (29 bp):
TATACCCAAAATAATTTCAGACTCATGGA
Found at i:66691687 original size:23 final size:23
Alignment explanation
Indices: 66691657--66691703 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
66691647 TTACATTCGC
66691657 AATTAGTAAAGGAGAAAAAGATA
1 AATTAGTAAAGGAGAAAAAGATA
66691680 AATTAGTAAAGGAGAAAAAGATA
1 AATTAGTAAAGGAGAAAAAGATA
66691703 A
1 A
66691704 GTCTTATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (23 bp):
AATTAGTAAAGGAGAAAAAGATA
Found at i:66693607 original size:29 final size:30
Alignment explanation
Indices: 66693554--66693610 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
66693544 ACGAGATTTG
66693554 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * *
66693584 GGGCAAAA-TGTAATTCTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
66693611 GGGTCAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:66700664 original size:5 final size:5
Alignment explanation
Indices: 66700654--66700687 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
66700644 TTAAGTATAT
66700654 TATTA TATTA TATTA TATTA TATTA TTATTA TAT
1 TATTA TATTA TATTA TATTA TATTA -TATTA TAT
66700688 ATAAAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:66700757 original size:31 final size:30
Alignment explanation
Indices: 66700722--66700782 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
66700712 GAAACAGAAT
*
66700722 GAAAGTAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
66700753 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
66700783 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.05, G:0.34, T:0.02
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:66702357 original size:39 final size:40
Alignment explanation
Indices: 66702250--66702360 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
66702240 GACCTCGAGT
* **
66702250 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
66702291 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
66702329 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
66702361 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:66702371 original size:39 final size:39
Alignment explanation
Indices: 66702250--66702384 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
66702240 GACCTCGAGT
* * *
66702250 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
66702291 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
66702329 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
66702368 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
66702385 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 4 0.06
41 15 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:66708025 original size:89 final size:89
Alignment explanation
Indices: 66707874--66708051 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
66707864 ATCACTCAAA
66707874 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAAGGATGATC
1 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAAGGATGATC
66707939 TCAGTTCTTGAAGTGATAGTTTTT
66 TCAGTTCTTGAAGTGATAGTTTTT
66707963 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAAGGATGATC
1 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAAGGATGATC
66708028 TCAGTTCTTGAAGTGATAGTTTTT
66 TCAGTTCTTGAAGTGATAGTTTTT
66708052 CTTTTGTGAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (89 bp):
ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAAGGATGATC
TCAGTTCTTGAAGTGATAGTTTTT
Found at i:66711534 original size:24 final size:24
Alignment explanation
Indices: 66711507--66711554 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66711497 TATGAAACCA
66711507 TAAATGTAATCATTTGAATTGAGG
1 TAAATGTAATCATTTGAATTGAGG
66711531 TAAATGTAATCATTTGAATTGAGG
1 TAAATGTAATCATTTGAATTGAGG
66711555 CTTATTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (24 bp):
TAAATGTAATCATTTGAATTGAGG
Found at i:66715363 original size:27 final size:27
Alignment explanation
Indices: 66715333--66715419 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
66715323 CTTTCTCAAC
*
66715333 AAAA-ATTCAAAATAAATTTTAAAATTT
1 AAAATATTCAAAA-AAATTCTAAAATTT
* *
66715360 AAAATATTTATAAAAATTCTAAAATTT
1 AAAATATTCAAAAAAATTCTAAAATTT
* * * * *
66715387 ATAATTTTTAAAAGAATTATAAGAATTTT
1 AAAATATTCAAAAAAATTCTAA-AA-TTT
66715416 AAAA
1 AAAA
66715420 AAATATTCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
27 34 0.71
28 8 0.17
29 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
AAAATATTCAAAAAAATTCTAAAATTT
Found at i:66722009 original size:22 final size:23
Alignment explanation
Indices: 66721981--66722031 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
66721971 ACTGCTTTTT
* *
66721981 TATTTCAGCGTTTTC-CATTATC
1 TATTTCACCCTTTTCTCATTATC
66722003 TATTTCACCCTTTTCTCATTATC
1 TATTTCACCCTTTTCTCATTATC
66722026 TATTTC
1 TATTTC
66722032 TTTCCCCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTTCACCCTTTTCTCATTATC
Found at i:66726241 original size:15 final size:15
Alignment explanation
Indices: 66726223--66726280 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
66726213 TTTTATTATT
66726223 AATATTTTAATAATA
1 AATATTTTAATAATA
*
66726238 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
66726257 AATATATTAATAATA
1 AATATTTTAATAATA
*
66726272 AATGTTTTA
1 AATATTTTA
66726281 TCTTATAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:66726447 original size:15 final size:15
Alignment explanation
Indices: 66726414--66726455 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
66726404 AATTGTTAAC
*
66726414 AATGTTAATTTTTTT
1 AATGTCAATTTTTTT
66726429 --TGTCAATTTTTTT
1 AATGTCAATTTTTTT
*
66726442 AATGTCACTTTTTT
1 AATGTCAATTTTTT
66726456 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.52
15 11 0.48
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (15 bp):
AATGTCAATTTTTTT
Found at i:66727655 original size:10 final size:10
Alignment explanation
Indices: 66727636--66727695 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
66727626 TTAAATTCTA
66727636 AAAGATAAAT
1 AAAGATAAAT
66727646 ACAA-ATAAAT
1 A-AAGATAAAT
*
66727656 AAAGATAATT
1 AAAGATAAAT
*
66727666 AAAGATAATT
1 AAAGATAAAT
66727676 AAAGATAAAT
1 AAAGATAAAT
*
66727686 AAAAATAAAT
1 AAAGATAAAT
66727696 CCTAAATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:66728331 original size:5 final size:5
Alignment explanation
Indices: 66728323--66728355 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
66728313 CTTTTTTTTT
66728323 TTTAA TTTAA TTTAA TTTAA TTTAA TTT-A TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
66728356 TTTTTACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:66728527 original size:96 final size:97
Alignment explanation
Indices: 66728352--66728533 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 97
66728342 ATTTAATTTA
* * * *
66728352 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAAAGAGAAGACCACCAAACACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGAGAAAAGAGAAGACCACCAAACACCCCA
* *
66728417 CCTCGGTTACTCAGCCCAACACACTCCTAATT
66 CCCCAGTTACTCAGCCCAACACACTCCTAATT
* * * *
66728449 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACGAGAAGAGAGATGA-CAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGAGAAAAGAGAAGACCA-CCAAACACCCC
*
66728512 ACCCCAGTTATTCAGCCCAACA
65 ACCCCAGTTACTCAGCCCAACA
66728534 TATTCTTAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
95 2 0.03
96 62 0.85
97 9 0.12
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGAGAAAAGAGAAGACCACCAAACACCCCA
CCCCAGTTACTCAGCCCAACACACTCCTAATT
Found at i:66729688 original size:15 final size:15
Alignment explanation
Indices: 66729670--66729752 Score: 59
Period size: 15 Copynumber: 5.4 Consensus size: 15
66729660 ATATCCAAAG
66729670 ATAAAATAATAAATA
1 ATAAAATAATAAATA
66729685 ATAAAAT-A-AAATAA
1 ATAAAATAATAAAT-A
66729699 GATAAAAT-A-AAATA
1 -ATAAAATAATAAATA
*
66729713 A-AAGTACTAATAAAATGA
1 ATAA--AATAAT-AAAT-A
66729731 AGTAAAATAATAAATA
1 A-TAAAATAATAAATA
66729747 ATAAAA
1 ATAAAA
66729753 ATTAAGAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 20
0.72 0.03 0.26
Matches are distributed among these distances:
12 2 0.04
13 5 0.09
14 5 0.09
15 25 0.45
16 2 0.04
17 8 0.14
18 7 0.12
20 2 0.04
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (15 bp):
ATAAAATAATAAATA
Found at i:66729692 original size:5 final size:5
Alignment explanation
Indices: 66729670--66729740 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
66729660 ATATCCAAAG
* * *
66729670 ATAAA ATAATA A-ATA ATAAA ATAAA ATAAG ATAAA ATAAA ATAAA AGTACTA
1 ATAAA ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A-TA-AA
* *
66729722 ATAAA ATGAA GTAAA ATAA
1 ATAAA ATAAA ATAAA ATAA
66729741 TAAATAATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
4 2 0.04
5 42 0.81
6 6 0.12
7 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:66735160 original size:43 final size:43
Alignment explanation
Indices: 66735099--66735188 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
66735089 GGATTAATGA
* ** *
66735099 GATTATGTATGAGACCATGTCTGGGACATTGGCATCATTATAT
1 GATTATGTATAAGACCATGTCAAGGACATTGACATCATTATAT
* * *
66735142 GATTATGTGTAAGACCATGTCAAGGACATTGACATCGTTATTT
1 GATTATGTATAAGACCATGTCAAGGACATTGACATCATTATAT
66735185 GATT
1 GATT
66735189 TCGAGTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (43 bp):
GATTATGTATAAGACCATGTCAAGGACATTGACATCATTATAT
Found at i:66735202 original size:43 final size:43
Alignment explanation
Indices: 66735112--66735202 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
66735102 TATGTATGAG
** * * *
66735112 ACCATGTCTGGGACATTGGCATCATTATATGATTATGTGTAAG
1 ACCATGTCAAGGACATTGACATCATTATATGATTATGAGTAAA
* *
66735155 ACCATGTCAAGGACATTGACATCGTTATTTGATT-TCGAGTAAA
1 ACCATGTCAAGGACATTGACATCATTATATGATTAT-GAGTAAA
66735198 ACCAT
1 ACCAT
66735203 AGCTGGGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.03
43 39 0.98
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (43 bp):
ACCATGTCAAGGACATTGACATCATTATATGATTATGAGTAAA
Found at i:66737892 original size:69 final size:71
Alignment explanation
Indices: 66737792--66737922 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 71
66737782 ATTAGTGAAA
* *
66737792 AATGGAGAAATGGGAAATCATTTGGAAATGATTAT-GTCTTTATCCAAAATGAAAATGAAAATAA
1 AATGGAGAAATGGGAAATCATTTGAAAATGATCATGGT-TTTATCCAAAATGAAAATGAAAATAA
66737856 AAATGAG
65 AAATGAG
*
66737863 AATGGAGAAAT-GGAAA-CATTTGAAAATGATCATGGTTTTCTCCAAAATGAAAATGAAAAT
1 AATGGAGAAATGGGAAATCATTTGAAAATGATCATGGTTTTATCCAAAATGAAAATGAAAAT
66737923 GGAGAAATGG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
69 38 0.68
70 7 0.12
71 11 0.20
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (71 bp):
AATGGAGAAATGGGAAATCATTTGAAAATGATCATGGTTTTATCCAAAATGAAAATGAAAATAAA
AATGAG
Found at i:66737916 original size:57 final size:57
Alignment explanation
Indices: 66737849--66737978 Score: 199
Period size: 57 Copynumber: 2.3 Consensus size: 57
66737839 AATGAAAATG
* * *
66737849 AAAATAAAAATGAGAATGGAGAAATGGAAACATTTGAAAATG-ATCATGGTTTTCTCC
1 AAAATGAAAATGAAAATGGAGAAATGGAAACATTTGAAAATGAAT-ATGGTTTTCTAC
* *
66737906 AAAATGAAAATGAAAATGGAGAAATGGAATCATTTGGAAATGAATATGGTTTTCTAC
1 AAAATGAAAATGAAAATGGAGAAATGGAAACATTTGAAAATGAATATGGTTTTCTAC
66737963 AAAATGAAAATGAAAA
1 AAAATGAAAATGAAAA
66737979 ATAAATTTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
57 65 0.97
58 2 0.03
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.25
Consensus pattern (57 bp):
AAAATGAAAATGAAAATGGAGAAATGGAAACATTTGAAAATGAATATGGTTTTCTAC
Found at i:66741322 original size:20 final size:21
Alignment explanation
Indices: 66741281--66741323 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
66741271 GGGAAAGTGA
*
66741281 GAAAGAGTAAAAGTTTTGGAG
1 GAAAGAGTAAAAATTTTGGAG
66741302 GAAA-AGTAAAAATATTT-GAG
1 GAAAGAGTAAAAAT-TTTGGAG
66741322 GA
1 GA
66741324 TTTGGTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (21 bp):
GAAAGAGTAAAAATTTTGGAG
Found at i:66757712 original size:2 final size:2
Alignment explanation
Indices: 66757700--66757739 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
66757690 AGAAGTAAAA
66757700 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66757740 AATAATACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 31 0.89
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66759480 original size:37 final size:37
Alignment explanation
Indices: 66759438--66759513 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
66759428 ATTTTATTAA
66759438 AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
1 AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
*
66759475 AAATATAAAAAAGATAAAAGTGTATTCATAATAATAT
1 AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
66759512 AA
1 AA
66759514 CTTATTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (37 bp):
AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
Found at i:66760538 original size:10 final size:10
Alignment explanation
Indices: 66760499--66760541 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
66760489 ATTTCTTTAT
66760499 TTTA-TTTTC
1 TTTATTTTTC
66760508 TTTTATTTTTC
1 -TTTATTTTTC
66760519 TTTATTTTTC
1 TTTATTTTTC
66760529 TTTATTTTTC
1 TTTATTTTTC
66760539 TTT
1 TTT
66760542 CTTCATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 27 0.84
11 5 0.16
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:66760550 original size:26 final size:26
Alignment explanation
Indices: 66760515--66760570 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
66760505 TTCTTTTATT
*
66760515 TTTCTTTAT-TTTTCTT-TATT-TTTC
1 TTTCTTCATATTTTCTTCT-TTCTTTC
66760539 TTTCTTCATATTTTCTTCTTTCTTTC
1 TTTCTTCATATTTTCTTCTTTCTTTC
66760565 TTTCTT
1 TTTCTT
66760571 TCTAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.29
25 9 0.32
26 11 0.39
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTCTTCATATTTTCTTCTTTCTTTC
Found at i:66760571 original size:12 final size:11
Alignment explanation
Indices: 66760515--66760573 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
66760505 TTCTTTTATT
*
66760515 TTTCTTTATT-
1 TTTCTTTCTTC
*
66760525 TTTCTTTATT-
1 TTTCTTTCTTC
66760535 TTTCTTTCTTC
1 TTTCTTTCTTC
*
66760546 ATAT-TTTCTTC
1 -TTTCTTTCTTC
66760557 TTTCTTTCTTTC
1 TTTCTTTC-TTC
66760569 TTTCT
1 TTTCT
66760574 AATTATACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 21 0.50
11 11 0.26
12 10 0.24
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTCTTTCTTC
Found at i:66760640 original size:21 final size:22
Alignment explanation
Indices: 66760593--66760645 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
66760583 TTTTTTTTCA
* *
66760593 TTTTCATTTTATTTTACCTTTT
1 TTTTCCTTTTATTTTACATTTT
*
66760615 GTTTCCTTTTATTTTA-ATTTT
1 TTTTCCTTTTATTTTACATTTT
66760636 TTTTCCTTTT
1 TTTTCCTTTT
66760646 TATTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTCCTTTTATTTTACATTTT
Found at i:66760656 original size:21 final size:20
Alignment explanation
Indices: 66760594--66760654 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
66760584 TTTTTTTCAT
*
66760594 TTTCATTTTATTTTACCTTTTG
1 TTTCCTTTTATTTTA--TTTTG
*
66760616 TTTCCTTTTATTTTAATTTTT
1 TTTCCTTTTATTTT-ATTTTG
*
66760637 TTTCCTTTT-TATTATTTT
1 TTTCCTTTTATTTTATTTT
66760655 TTCTTCTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.14
20 3 0.09
21 13 0.37
22 13 0.37
23 1 0.03
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTCCTTTTATTTTATTTTG
Found at i:66762382 original size:65 final size:65
Alignment explanation
Indices: 66762278--66762407 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
66762268 GACATTTTGG
*
66762278 TCTACGAAATTCAAGAGAACAAGTTCGGGAGTTGGTTACGTGCGAGGAAGGATTAGCACCCTCGA
1 TCTACGAAATTCAAGAGAACAAGTTCGGGAGTCGGTTACGTGCGAGGAAGGATTAGCACCCTCGA
66762343 TCTACGAAATTCAAGAGAACAAGTTCGGGAGTCGGTTACGTGCGAGGAAGGATTAGCACCCTCGA
1 TCTACGAAATTCAAGAGAACAAGTTCGGGAGTCGGTTACGTGCGAGGAAGGATTAGCACCCTCGA
66762408 CACACCCAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (65 bp):
TCTACGAAATTCAAGAGAACAAGTTCGGGAGTCGGTTACGTGCGAGGAAGGATTAGCACCCTCGA
Found at i:66763275 original size:22 final size:23
Alignment explanation
Indices: 66763242--66763295 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
66763232 GACATCAAAG
66763242 AAATA-AT-TAGTATATATAT-A
1 AAATAGATATAGTATATATATAA
66763262 AAATAGATATAGTATATATATAA
1 AAATAGATATAGTATATATATAA
66763285 AAATAGATATA
1 AAATAGATATA
66763296 ACAGTTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.16
21 2 0.06
22 12 0.39
23 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
AAATAGATATAGTATATATATAA
Found at i:66763663 original size:3 final size:3
Alignment explanation
Indices: 66763655--66763706 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
66763645 GAAATTTTAA
66763655 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66763703 AAT A
1 AAT A
66763707 TACAAAACAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66765811 original size:228 final size:226
Alignment explanation
Indices: 66765399--66765913 Score: 680
Period size: 228 Copynumber: 2.3 Consensus size: 226
66765389 ACTTTGCTGG
** * * *
66765399 AACTTCAAAGAGATAAGACTTGGTAATTTC-AAC-CT-CACTGCATCTTCAGGGAGATGAGGTTT
1 AACTTCAGGGAGATAAGACTTGGTAATTTCAAACTCTCCACTGTATCTTCAGGGAGATAAGGTTA
* * **
66765461 GTGACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATGGTAACTTGATCCGAC
66 ATGACTTCAATCTGCTACACTGCAACTTCAAAGAGATAAGATTCACCATGGTAACTTGATCCGAC
* *
66765526 CTACTGCAACTTCAGAGGTATAGGATTTATAGCCTTAATCTGCTCTACTACAACTTCAGAGAGAT
131 CCACTGCAACTTCAGAGGTATAGGACTTATAGCCTTAATCTGCTCTACTACAACTTCAGAGAGAT
66765591 AAGATTTGCTATCTTCAGTCTATTCCACT-C
196 AAGATTTGCTATCTTCAGTCTATTCCACTAC
* *
66765621 TAACTTCAGGGAGATAAGGCTTGGTAATTTCAAACTGCTCCACTGTATCTTCAGGGAGATAATGT
1 -AACTTCAGGGAGATAAGACTTGGTAATTTCAAACT-CTCCACTGTATCTTCAGGGAGATAAGGT
* * * * ** * *
66765686 TAATGGCTTTAATCTGCTATACTGCAACTTCAAAGAGATAATATTTGCCATGGTAGATTTGATCT
64 TAATGACTTCAATCTGCTACACTGCAACTTCAAAGAGATAAGATTCACCATGGTA-ACTTGATCC
* *
66765751 GACCCACTGTAACTTCAGAGGTATAGGACTTATAGCCTTAATCTGCTCTACTGCAACTTCAGAGA
128 GACCCACTGCAACTTCAGAGGTATAGGACTTATAGCCTTAATCTGCTCTACTACAACTTCAGAGA
*
66765816 GATAAGATTTGCTATCTTCAGTCTATTCCATTAC
193 GATAAGATTTGCTATCTTCAGTCTATTCCACTAC
* * * * * * *
66765850 AATTTCAGGGAAATAAGACTT-GTATTTTTAACCTACTCCACCGTAACTTCAGGGAGATAAGGTT
1 AACTTCAGGGAGATAAGACTTGGTAATTTCAAACT-CTCCACTGTATCTTCAGGGAGATAAGGTT
66765914 TGCCATTCTT
Statistics
Matches: 252, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
223 27 0.11
224 3 0.01
226 2 0.01
227 102 0.40
228 117 0.46
229 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (226 bp):
AACTTCAGGGAGATAAGACTTGGTAATTTCAAACTCTCCACTGTATCTTCAGGGAGATAAGGTTA
ATGACTTCAATCTGCTACACTGCAACTTCAAAGAGATAAGATTCACCATGGTAACTTGATCCGAC
CCACTGCAACTTCAGAGGTATAGGACTTATAGCCTTAATCTGCTCTACTACAACTTCAGAGAGAT
AAGATTTGCTATCTTCAGTCTATTCCACTAC
Found at i:66769421 original size:48 final size:48
Alignment explanation
Indices: 66769354--66769450 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
66769344 TGTAATTTAG
66769354 TCTTCCTAGGAAACCTCGAACTTCTTTTTGAGTGCGTGGCAGGGGTAA
1 TCTTCCTAGGAAACCTCGAACTTCTTTTTGAGTGCGTGGCAGGGGTAA
66769402 TCTTCCTAGGAAACCTCGAACTTCTTTTTGAGTGCGTGGCAGGGGTAA
1 TCTTCCTAGGAAACCTCGAACTTCTTTTTGAGTGCGTGGCAGGGGTAA
66769450 T
1 T
66769451 TCTTGTATAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (48 bp):
TCTTCCTAGGAAACCTCGAACTTCTTTTTGAGTGCGTGGCAGGGGTAA
Found at i:66776854 original size:13 final size:13
Alignment explanation
Indices: 66776836--66776860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66776826 AGAGGAAATG
66776836 CAATGAAATGATA
1 CAATGAAATGATA
66776849 CAATGAAATGAT
1 CAATGAAATGAT
66776861 CGTAAGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (13 bp):
CAATGAAATGATA
Found at i:66778370 original size:3 final size:3
Alignment explanation
Indices: 66778362--66778422 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
66778352 GAGATTTTAA
66778362 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66778410 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
66778423 TACAAAACAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66781128 original size:17 final size:17
Alignment explanation
Indices: 66781103--66781156 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
66781093 ATATTGATAT
66781103 ATAATTTAATAAATAAAA
1 ATAATTTAA-AAATAAAA
66781121 AT-ATTTAAAGAAT-AAA
1 ATAATTTAAA-AATAAAA
66781137 ATAATTTAAAATATAAAA
1 ATAATTTAAAA-ATAAAA
66781155 AT
1 AT
66781157 TCATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.22
17 18 0.56
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAATTTAAAAATAAAA
Found at i:66781180 original size:17 final size:16
Alignment explanation
Indices: 66781115--66781181 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 16
66781105 AATTTAATAA
66781115 ATAAAAATATTTAAAGA-
1 ATAAAAAT-TTTAAA-AT
*
66781132 ATAAAATAATTTAAAAT
1 ATAAAA-ATTTTAAAAT
*
66781149 ATAAAAATTCATAAAAT
1 ATAAAAATT-TTAAAAT
*
66781166 TTATAAAATTTTAAAA
1 ATA-AAAATTTTAAAA
66781182 ATTAATATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.07
17 31 0.76
18 7 0.17
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (16 bp):
ATAAAAATTTTAAAAT
Found at i:66785172 original size:15 final size:14
Alignment explanation
Indices: 66785126--66785173 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
66785116 GTCACACCTC
66785126 TTATTTTAATTTTT
1 TTATTTTAATTTTT
*
66785140 CGTTATTTTATATATTT
1 --TTATTTTA-ATTTTT
66785157 TTATTTTTAATTTTT
1 TTA-TTTTAATTTTT
66785172 TT
1 TT
66785174 CAAAAATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 10 0.36
16 13 0.46
17 5 0.18
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (14 bp):
TTATTTTAATTTTT
Found at i:66790099 original size:16 final size:15
Alignment explanation
Indices: 66790063--66790098 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
66790053 CAAAATCAAG
*
66790063 ATTTTTACAACATTT
1 ATTTTTACAACATTC
*
66790078 ATTTTTACAATATTC
1 ATTTTTACAACATTC
66790093 ATTTTT
1 ATTTTT
66790099 TTTCTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:66792153 original size:23 final size:22
Alignment explanation
Indices: 66792117--66792160 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
66792107 AGTTTTATAG
*
66792117 TAAAATTTCAAAAATTATTTTA
1 TAAAATTTCAAAAAATATTTTA
*
66792139 TAAATATTTCTAAAAATATTTT
1 TAAA-ATTTCAAAAAATATTTT
66792161 TTTCAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATTTCAAAAAATATTTTA
Found at i:66796145 original size:95 final size:95
Alignment explanation
Indices: 66796004--66796427 Score: 469
Period size: 95 Copynumber: 4.4 Consensus size: 95
66795994 GCTTCGAAAT
* *
66796004 ATGAGAGCT-GTGTAAGATCATGTCTAGGACATGGCATCGGTTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
* * * * * *
66796068 ATGTTTGGAATATGACATTGGCAGCGATAA
66 ATGTCTGGGATATGACATCGACACCGATAG
* * * *
66796098 ATGAGAGCTAGTGAAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
66796163 ATGTCTGGGATATGACATCGACACCGATAG
66 ATGTCTGGGATATGACATCGACACCGATAG
* * * * *
66796193 ATGAGAACTAGCGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTTAGCGTAAAACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
*
66796258 ATGTCTGGGATATGGCATCGACACCGATAG
66 ATGTCTGGGATATGACATCGACACCGATAG
* * * * *
66796288 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATACGAGAGTCAATGTA
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTTGATAT----GTGTCAGTGTA
* * ***
66796353 AGACCATGTTTGGGACATCG-CATCGACTTTGAT-G
61 AGACCATGTCTGGGATAT-GACATCGACACCGATAG
* * * * *
66796387 -GGCGAGCCAGTGTAAGACCATGTCCAGGACATGGCGTCGGC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
66796428 ACCTTACCCT
Statistics
Matches: 279, Mismatches: 44, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
94 9 0.03
95 195 0.70
96 7 0.03
97 1 0.00
98 33 0.12
99 1 0.00
100 32 0.11
101 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (95 bp):
ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
ATGTCTGGGATATGACATCGACACCGATAG
Found at i:66796163 original size:45 final size:45
Alignment explanation
Indices: 66796013--66796279 Score: 201
Period size: 45 Copynumber: 5.7 Consensus size: 45
66796003 TATGAGAGCT
* * * **
66796013 GTGTAAGATCATGTCTAGGACATGGCATCGGTTTGATATGTGTCA
1 GTGTAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCA
* * * * * ** * *
66796058 GTGTAAGACCATGTTTGGAATATGACATTGGCAGCGATAAATGAGAGCTA
1 GTGTAAGACCATGTCTGGGATATGGCATCGAC-TTGAT--ATGTG-TC-A
*
66796108 GTGAAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCA
1 GTGTAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCA
* ** * *
66796153 GTGTAAGACCATGTCTGGGATATGACATCGACACCGATAGATGAGAACTA
1 GTGTAAGACCATGTCTGGGATATGGCATCGAC-TTGAT--ATGTG-TC-A
* * * * *
66796203 GCGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTTA
1 GTGTAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCA
* *
66796248 GCGTAAAACCATGTCTGGGATATGGCATCGAC
1 GTGTAAGACCATGTCTGGGATATGGCATCGAC
66796280 ACCGATAGAT
Statistics
Matches: 170, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
45 84 0.49
46 7 0.04
47 8 0.05
48 8 0.05
49 8 0.05
50 55 0.32
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (45 bp):
GTGTAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCA
Found at i:66796232 original size:50 final size:49
Alignment explanation
Indices: 66796060--66796379 Score: 208
Period size: 50 Copynumber: 6.6 Consensus size: 49
66796050 ATGTGTCAGT
* * * * * * * * *
66796060 GTAAGACCATGTTTGGAATATGACATTGGCAGCGATAAATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGA-CTAGC
* * ** * * *
66796110 GAAAGACCATGTCTGGGATATGGCATCGAC-TTGAT--ATGTGTC-AGT
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGACTAGC
* *
66796155 GTAAGACCATGTCTGGGATATGACATCGACACCGATAGATGAGAACTAGC
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAG-ACTAGC
* * ** * *
66796205 GTAAGACCATGTCTAGGACATGGCATCGGC-TTGAT--ATGTG-TTAGC
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGACTAGC
* * *
66796250 GTAAAACCATGTCTGGGATATGGCATCGACACCGATAGATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGA-CTAGC
* * * * * **
66796300 GTAAGACCATGTTTGGGACATGGCATCGGC-CTCGATATACGAGAGTCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGACAC-CGATAGATGAGACT-AGC
* *
66796350 GTAAGACCATGTTTGGGACATCGCATCGAC
1 GTAAGACCATGTCTGGGACATGGCATCGAC
66796380 TTTGATGGGC
Statistics
Matches: 214, Mismatches: 44, Indels: 24
0.76 0.16 0.09
Matches are distributed among these distances:
45 61 0.29
46 7 0.03
47 8 0.04
48 8 0.04
49 9 0.04
50 121 0.57
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGACTAGC
Found at i:66801321 original size:39 final size:39
Alignment explanation
Indices: 66801265--66801460 Score: 338
Period size: 39 Copynumber: 5.0 Consensus size: 39
66801255 CAAGACACTA
66801265 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
66801304 GGAATGTATCCGCGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
66801343 GAAATGTATCCGGGCTAAAGTCCAGCAGGCTTCGTGGTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
66801382 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
66801421 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
66801460 G
1 G
66801461 TAATATAATT
Statistics
Matches: 147, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:66807003 original size:39 final size:39
Alignment explanation
Indices: 66806947--66807064 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
66806937 CAAGACACTA
* *
66806947 GAAATGTATCCGGGCTAAAGTCCCACAGGTTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
66806986 GGAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
66807025 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
66807064 G
1 G
66807065 TAATATAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:66820105 original size:32 final size:32
Alignment explanation
Indices: 66820059--66820120 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
66820049 CTTTGTTATT
*
66820059 TTTATAATTATATATACTGAATTTTTGAATGC
1 TTTAGAATTATATATACTGAATTTTTGAATGC
*
66820091 TTTAGAATTATATATATTGAATTTTTGAAT
1 TTTAGAATTATATATACTGAATTTTTGAAT
66820121 AATGCTAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (32 bp):
TTTAGAATTATATATACTGAATTTTTGAATGC
Found at i:66820269 original size:24 final size:24
Alignment explanation
Indices: 66820241--66820286 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
66820231 TATAACACTA
66820241 ATTAAGTGATAA-TTAATATAAAAT
1 ATTAAGT-ATAATTTAATATAAAAT
66820265 ATTAAGTATAATTTAATATAAA
1 ATTAAGTATAATTTAATATAAA
66820287 TCCGAAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
ATTAAGTATAATTTAATATAAAAT
Found at i:66820406 original size:6 final size:6
Alignment explanation
Indices: 66820353--66820405 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
66820343 TAAAATAAAT
* *
66820353 CTAATT CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATT
1 CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA
66820401 CTAAT
1 CTAAT
66820406 TATTGGATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (6 bp):
CTAATA
Found at i:66823941 original size:11 final size:11
Alignment explanation
Indices: 66823925--66823949 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66823915 ATATCTAGAA
66823925 TTCTCTTCATT
1 TTCTCTTCATT
66823936 TTCTCTTCATT
1 TTCTCTTCATT
66823947 TTC
1 TTC
66823950 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:66825231 original size:25 final size:25
Alignment explanation
Indices: 66825202--66825253 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
66825192 AAGAATAATT
**
66825202 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
66825227 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
66825252 TG
1 TG
66825254 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:66828173 original size:40 final size:40
Alignment explanation
Indices: 66828086--66828236 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
66828076 AATTGAATGA
* * * **
66828086 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * * *
66828126 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCA-TAC
*
66828167 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
66828206 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
66828237 AAATCGTGAT
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
39 5 0.05
40 84 0.92
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:66828250 original size:40 final size:40
Alignment explanation
Indices: 66828083--66828258 Score: 130
Period size: 40 Copynumber: 4.4 Consensus size: 40
66828073 AGAAATTGAA
* * *
66828083 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCG
* * * *
66828124 T-ATAACCGGGTTAAGACCCGAAGGCAATTGTGC---TAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * * *
66828160 TGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TGA-T--ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
**
66828203 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
*
66828243 TGATATCCGGGTTAAG
1 TGATATCCGGGCTAAG
66828259 TCTCGTAGGC
Statistics
Matches: 105, Mismatches: 21, Indels: 19
0.72 0.14 0.13
Matches are distributed among these distances:
34 1 0.01
36 1 0.01
37 3 0.03
38 3 0.03
39 2 0.02
40 91 0.87
41 1 0.01
42 1 0.01
43 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
Found at i:66831054 original size:76 final size:76
Alignment explanation
Indices: 66830964--66831126 Score: 290
Period size: 76 Copynumber: 2.1 Consensus size: 76
66830954 CCCCTTTGGT
* *
66830964 CTTGCACACATTTTACCATGGCTTTGTCATGATCACACACTTTATCATATTGCCATAGCTTAGCT
1 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTAGCT
66831029 ATGGTCTTACA
66 ATGGTCTTACA
* *
66831040 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTCTCACATTGCCATAGCTTAGTT
1 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTAGCT
66831105 ATGGTCTTACA
66 ATGGTCTTACA
66831116 CTTGCACACAT
1 CTTGCACACAT
66831127 ATATAACTGT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 83 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.36
Consensus pattern (76 bp):
CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTAGCT
ATGGTCTTACA
Found at i:66831126 original size:37 final size:37
Alignment explanation
Indices: 66831012--66831126 Score: 122
Period size: 37 Copynumber: 3.1 Consensus size: 37
66831002 ACTTTATCAT
66831012 ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
1 ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
* * * * * ** * *
66831049 ATTTTACCATGGCTTTGCCATGATCACACACTTTCTCAC
1 A--TTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
*
66831088 ATTGCCATAGCTTAGTTATGGTCTTACACTTGCACAC
1 ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
66831125 AT
1 AT
66831127 ATATAACTGT
Statistics
Matches: 57, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
37 29 0.51
39 28 0.49
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (37 bp):
ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
Found at i:66833808 original size:60 final size:60
Alignment explanation
Indices: 66833729--66833926 Score: 193
Period size: 60 Copynumber: 3.3 Consensus size: 60
66833719 TAACATTTAA
* *
66833729 CAAGTTTAGGTACCAAATTGAACATTAAAAAACTTTAGGTACCAAATTAAGAAAAAGTGT
1 CAAGTTTAAGTACCAAATTGAACATAAAAAAACTTTAGGTACCAAATTAAGAAAAAGTGT
* ** * * * *
66833789 CAAGTTTAAGTACTAAATTGGGCCAAAAAAAAAC-TAAGGTACCAAAGTAAGAAAAAGTCT
1 CAAGTTTAAGTACCAAATT-GAACATAAAAAAACTTTAGGTACCAAATTAAGAAAAAGTGT
* * * * *** * *
66833849 CAAGTTTAAGCATCAAATTAAAC-TAAAAAAAAGTTTAAACAACAAATTAAGAAAAAATGT
1 CAAGTTTAAGTACCAAATTGAACAT-AAAAAAACTTTAGGTACCAAATTAAGAAAAAGTGT
*
66833909 CAAATTTAAGTACCAAAT
1 CAAGTTTAAGTACCAAAT
66833927 ATTATATTAA
Statistics
Matches: 107, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
59 8 0.07
60 89 0.83
61 10 0.09
ACGTcount: A:0.52, C:0.12, G:0.13, T:0.24
Consensus pattern (60 bp):
CAAGTTTAAGTACCAAATTGAACATAAAAAAACTTTAGGTACCAAATTAAGAAAAAGTGT
Found at i:66836248 original size:2 final size:2
Alignment explanation
Indices: 66836243--66836276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
66836233 TACAAATAAC
66836243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66836277 CAGAATAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66839619 original size:26 final size:26
Alignment explanation
Indices: 66839557--66839665 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
66839547 TGATACAAAT
66839557 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
66839582 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
66839608 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
66839634 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
66839660 TGATAA
1 TGATAA
66839666 GAATTCATGT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:66845399 original size:26 final size:26
Alignment explanation
Indices: 66845362--66845445 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
66845352 TGATACAAAT
* *
66845362 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
66845388 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
66845414 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
66845440 TGATAA
1 TGATAA
66845446 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:66846963 original size:25 final size:26
Alignment explanation
Indices: 66846922--66846973 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
66846912 AATTACAGTT
66846922 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
66846947 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
66846973 T
1 T
66846974 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:66849230 original size:143 final size:141
Alignment explanation
Indices: 66848980--66849242 Score: 454
Period size: 143 Copynumber: 1.9 Consensus size: 141
66848970 GCTGCCACTA
* *
66848980 CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAGAGAAATTGCATAACAGGT
1 CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAAAAAAATTGCATAACAGGT
* * *
66849045 CCCTAAATCTTTTAAATCCTTATTATTTTTTTTTTATTGTTTTGGGTCAGAAATTCAAGATGATG
66 CCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTCAGAAATTCAAGATGATG
66849110 CTGCCACAGTG
131 CTGCCACAGTG
66849121 CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAAAAAAAAATTGCATAACAG
1 CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAAT--AAAAAAATTGCATAACAG
*
66849186 GTCCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTTAGAAATT
64 GTCCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTCAGAAATT
66849243 TAAGGTGGTG
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
141 45 0.39
143 69 0.61
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (141 bp):
CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAAAAAAATTGCATAACAGGT
CCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTCAGAAATTCAAGATGATG
CTGCCACAGTG
Found at i:66852149 original size:2 final size:2
Alignment explanation
Indices: 66852142--66852166 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66852132 ATCAATTTTG
66852142 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
66852167 TGATGGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66854726 original size:12 final size:12
Alignment explanation
Indices: 66854709--66854739 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
66854699 AACATAAGGG
66854709 AAAAAGAAAGAA
1 AAAAAGAAAGAA
66854721 AAAAAGAAAGAA
1 AAAAAGAAAGAA
66854733 AGAAAAG
1 A-AAAAG
66854740 TTAAAAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:66855670 original size:41 final size:40
Alignment explanation
Indices: 66855625--66855733 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 40
66855615 ACTTGGAGTT
* * **
66855625 GATGAGACACTAGGAGTCAATTTATTACTTCGGATTCATTC
1 GATGAGACACTGGGTGTCAATTTATTACTTC-GATTCAGCC
* * *
66855666 GATGAGGCACTGGGTGCCAA--T-TTACTTCGATTTAGCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGATTCAGCC
*
66855703 GATGAGACAATGGGTGTCAATTTATTACTTC
1 GATGAGACACTGGGTGTCAATTTATTACTTC
66855734 AAATTATCTA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
37 23 0.42
38 7 0.13
39 2 0.04
40 7 0.13
41 16 0.29
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATTACTTCGATTCAGCC
Found at i:66861469 original size:29 final size:28
Alignment explanation
Indices: 66861417--66861489 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
66861407 TCTATCTACT
* *
66861417 ATTATTATTA-TCTTATTTAAAATATTA
1 ATTATTATTATTATTATTTAAAATAATA
*
66861444 A-TATTATTATTATTATTTCCATAATAATA
1 ATTATTATTATTATTATTT--AAAATAATA
66861473 ATTATTA-TATTATTATT
1 ATTATTATTATTATTATT
66861490 CTTATTAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 8 0.21
27 8 0.21
29 18 0.46
30 5 0.13
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTATTATTATTATTATTTAAAATAATA
Found at i:66861654 original size:3 final size:3
Alignment explanation
Indices: 66861648--66861814 Score: 137
Period size: 3 Copynumber: 54.7 Consensus size: 3
66861638 CATCATCATC
66861648 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
66861696 ATT ATT ATT ATT CGTT AGT ATC ATT ATT AATT -TT ATCT -TT ATT -TT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT
* * * *
66861741 CTTT ACT ATT ATT -TT ATT ATC ATT ATTT ATTT ATTT ATTT ATT ACT
1 -ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT A-TT A-TT ATT ATT
* * *
66861787 ATT GTT ATT ATT ATT GTC A-T ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
66861815 ATATGCTTTA
Statistics
Matches: 135, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
2 8 0.06
3 104 0.77
4 23 0.17
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:66861975 original size:14 final size:15
Alignment explanation
Indices: 66861945--66861977 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66861935 TTCTCACTAT
*
66861945 TATTTATTTATTTCA
1 TATTTACTTATTTCA
66861960 TATTTACTTA-TTCA
1 TATTTACTTATTTCA
66861974 TATT
1 TATT
66861978 CATAAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTACTTATTTCA
Found at i:66865622 original size:19 final size:19
Alignment explanation
Indices: 66865598--66865649 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
66865588 CAACGCCTCT
*
66865598 TTTGCATT-CTTTTCATTCA
1 TTTGCATTACATTTCA-TCA
66865617 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
* *
66865636 TATGCATTAAATTT
1 TTTGCATTACATTT
66865650 TGCAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:66873783 original size:44 final size:44
Alignment explanation
Indices: 66873735--66874412 Score: 179
Period size: 44 Copynumber: 15.3 Consensus size: 44
66873725 AATTCACAAC
* *
66873735 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTCTCCTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* * * *
66873779 CTTATCT-TCCTAAGGTAGCGAGGAAGCATACTGAGGATTGAAGAT
1 CTTATCTCTCCTAAGGTAGCAAGG-AGCAGATTGAAGATTGAAG-T
* * * *
66873824 CTTA-CTC-CCTAAGCAGTAG--TGGAGCAGATCGAAGATGGCGAA-A
1 CTTATCTCTCCTAAG--GTAGCAAGGAGCAGATTGAAGAT--TGAAGT
* * ** * *
66873867 CTTATCT-TCCTAAGGTAGCAGGAGAGTAGATTTTAGCCACT--AGC
1 CTTATCTCTCCTAAGGTAGCAAG-GAGCAGATTGAAG--ATTGAAGT
* * *
66873911 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAATT
1 CTTATCTCTCCTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* *
66873955 CTTATCT-TCCTGAGGTAGCAAGGAAGCAGACTG-AGAATTGAAGAT
1 CTTATCTCTCCTAAGGTAGCAAGG-AGCAGATTGAAG-ATTGAAG-T
* * * *
66874000 CTTATCTC-CCTAAGCAGTAG--TGGAGCAGATCGAAGATGGCAAAT
1 CTTATCTCTCCTAAG--GTAGCAAGGAGCAGATTGAAGATTG-AAGT
* * * ** *
66874044 CTTATCT-TCCTGAGGTAGCAGGGGAGCATATTTTAGCCACT-AA-T
1 CTTATCTCTCCTAAGGTAGCA-AGGAGCAGATTGAAG--ATTGAAGT
* * * *
66874088 CTTGTCTC-CCTAAGCAGTAG--TGGAGCA-AGCTGAAGATTGTAGAT
1 CTTATCTCTCCTAAG--GTAGCAAGGAGCAGA-TTGAAGATTGAAG-T
* * *
66874132 CTTATCTC-CATGAGGTAGCAATGGAGCAGATCGAAGATGGTGAA-T
1 CTTATCTCTCCTAAGGTAGCAA-GGAGCAGATTGAAGAT--TGAAGT
* * * * * *
66874177 CTTATCTC-CCTGATGTAGCAAGGAAGCAAATTTAAGCCACT--AGC
1 CTTATCTCTCCTAAGGTAGCAAGG-AGCAGATTGAAG--ATTGAAGT
* * * * ** *
66874221 CTTGTCT-TCCTAA-GCAGGAGTGGAGCAGGCTGAAGATTGTAGAT
1 CTTATCTCTCCTAAGGTAGCA-AGGAGCAGATTGAAGATTGAAG-T
* * * * * *
66874265 CTTATATC-CATGAGGTAGCAATAGAGCAGATCGAAGACGTCGAA-T
1 CTTATCTCTCCTAAGGTAGCAA-GGAGCAGATTGAAGA--TTGAAGT
* * *
66874310 CTTATCTC-CCTGAGGTAACAAGGGAGCAGATTTAAGCCATT--AGT
1 CTTATCTCTCCTAAGGTAGCAA-GGAGCAGATTGAAG--ATTGAAGT
* *
66874354 CTTATCT-TCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCCTAAGGTAGCAAGG-AGCAGATTGAAGATTGAAG-T
66874399 CTTATCTC-CCTAAG
1 CTTATCTCTCCTAAG
66874413 CAGTAGTGGA
Statistics
Matches: 459, Mismatches: 105, Indels: 139
0.65 0.15 0.20
Matches are distributed among these distances:
41 4 0.01
42 19 0.04
43 48 0.10
44 215 0.47
45 150 0.33
46 9 0.02
47 14 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
CTTATCTCTCCTAAGGTAGCAAGGAGCAGATTGAAGATTGAAGT
Found at i:66874026 original size:88 final size:87
Alignment explanation
Indices: 66873758--66874163 Score: 296
Period size: 88 Copynumber: 4.6 Consensus size: 87
66873748 GGTAGCAAGA
* * * * *
66873758 GAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAGCGAGGAAGCATA-CTGAG-GATTGAA
1 GAGCAGGTTGAAGATTGAA-TCTTATCTTCCTGAGGTAGCAAGGAAGCAGATCTGAGCCACT--A
66873821 GATCTTA-CTCCCTAAGCAGTAGTG
63 GATCTTATCTCCCTAAGCAGTAGTG
* * * * * * * *
66873845 GAGCAGATCGAAGATGGCGAAACTTATCTTCCTAAGGTAGC-AGGAGAGTAGATTTTAGCCACTA
1 GAGCAGGTTGAAGAT--TGAATCTTATCTTCCTGAGGTAGCAAGGA-AGCAGATCTGAGCCACTA
* * * *
66873909 G-CCTTATCTCTCTGAG--GTAGCAAG
63 GATCTTATCTCCCTAAGCAGTAG--TG
* *
66873933 AGAGCAGGTTGAAGATTGAATTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA-CTGAG-AATTGA
1 -GAGCAGGTTGAAGATTGAA-TCTTATCTTCCTGAGGTAGCAAGGAAGCAGATCTGAGCCACT--
66873996 AGATCTTATCTCCCTAAGCAGTAGTG
62 AGATCTTATCTCCCTAAGCAGTAGTG
* * * * * * * *
66874022 GAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCACTA-
1 GAGCAGGTTGAAGATTG--AATCTTATCTTCCTGAGGTAGCAAGGAAGCAGATCTGAGCCACTAG
*
66874086 ATCTTGTCTCCCTAAGCAGTAGTG
64 ATCTTATCTCCCTAAGCAGTAGTG
* *
66874110 GAGCAAGCTGAAGATTGTAGATCTTATC-TCCATGAGGTAGCAATGG-AGCAGATC
1 GAGCAGGTTGAAGATTG-A-ATCTTATCTTCC-TGAGGTAGCAA-GGAAGCAGATC
66874164 GAAGATGGTG
Statistics
Matches: 248, Mismatches: 48, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
86 6 0.02
87 31 0.12
88 131 0.53
89 67 0.27
90 7 0.03
91 6 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (87 bp):
GAGCAGGTTGAAGATTGAATCTTATCTTCCTGAGGTAGCAAGGAAGCAGATCTGAGCCACTAGAT
CTTATCTCCCTAAGCAGTAGTG
Found at i:66874168 original size:45 final size:44
Alignment explanation
Indices: 66873911--66874407 Score: 163
Period size: 45 Copynumber: 11.2 Consensus size: 44
66873901 AGCCACTAGC
* *
66873911 CTTATCTCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTG-A-ATT
1 CTTATCTC-CTGAGGTAGCAATG-GAGCAGATCGAAGATTGTAGA-T
*
66873955 CTTATCTTCCTGAGGTAGCAA-GGAAGCAGA-CTG-AGAATTGAAGAT
1 CTTATC-TCCTGAGGTAGCAATGG-AGCAGATC-GAAG-ATTGTAGAT
* * * * * * *
66874000 CTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCAAAT
1 CTTATCT-CCTGAGGTAGCAATGGAGCAGATCGAAGATTGTAGAT
** * *** ****
66874044 CTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCACTA-AT
1 CTTATC-TCCTGAGGTAGCAATGGAGCAGATCGAAGATTGTAGAT
* * * * * *
66874088 CTTGTCTCCCT-AAGCAGTAGTGGAGCA-AGCTGAAGATTGTAGAT
1 CTTATCT-CCTGAGGTAGCAATGGAGCAGATC-GAAGATTGTAGAT
*
66874132 CTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGATGGT-GAAT
1 CTTATCTCC-TGAGGTAGCAATGGAGCAGATCGAAGATTGTAG-AT
* * ** **** *
66874177 CTTATCTCCCTGATGTAGCAA-GGAAGCAAATTTAAGCCACTAG-C
1 CTTATCT-CCTGAGGTAGCAATGG-AGCAGATCGAAGATTGTAGAT
* * * * * *
66874221 CTTGTCTTCCT-AAGCAGGAGTGGAGCAG-GCTGAAGATTGTAGAT
1 CTTATC-TCCTGAGGTAGCAATGGAGCAGATC-GAAGATTGTAGAT
* * * *
66874265 CTTATATCCATGAGGTAGCAATAGAGCAGATCGAAGA-CGTCGAAT
1 CTTATCTCC-TGAGGTAGCAATGGAGCAGATCGAAGATTGTAG-AT
* * **
66874310 CTTATCTCCCTGAGGTAACAAGGGAGCAGATTTAAGCCA-T-TAG-T
1 CTTATCT-CCTGAGGTAGCAATGGAGCAGATCGAAG--ATTGTAGAT
*
66874354 CTTATCTTCCTGAGGTAGCAA-GGAAGCAGA-CTGAAGATTGAAGAT
1 CTTATC-TCCTGAGGTAGCAATGG-AGCAGATC-GAAGATTGTAGAT
66874399 CTTATCTCC
1 CTTATCTCC
66874408 CTAAGCAGTA
Statistics
Matches: 327, Mismatches: 87, Indels: 78
0.66 0.18 0.16
Matches are distributed among these distances:
42 2 0.01
43 43 0.13
44 130 0.40
45 140 0.43
46 11 0.03
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
CTTATCTCCTGAGGTAGCAATGGAGCAGATCGAAGATTGTAGAT
Found at i:66874187 original size:177 final size:176
Alignment explanation
Indices: 66873732--66874161 Score: 541
Period size: 176 Copynumber: 2.4 Consensus size: 176
66873722 GTGAATTCAC
* * * * * *
66873732 AACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAG
1 AACCTTATCTCCCTAAGGTAG-AAGAGAGCAAGCTGAAGATTGAATTCTTATCTTCCTGAGGTAG
* * *
66873797 CGAGGAAGCATACTGAGGATTGAAGATCTTA-CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
65 CAAGGAAGCAGACTGAGAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
*
66873861 GCGAAACTTATCTTCCTAAGGTAGCAGGAGAGTAGATTTTAGCCACT
130 GCGAAACTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCACT
* * * * *
66873908 AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAATTCTTATCTTCCTGAGGTAG
1 AACCTTATCTCCCTAAGGTAG-AAGAGAGCAAGCTGAAGATTGAATTCTTATCTTCCTGAGGTAG
66873973 CAAGGAAGCAGACTGAGAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
65 CAAGGAAGCAGACTGAGAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
* * *
66874038 GC-AAATCTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCACT
130 GCGAAA-CTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCACT
* * *
66874085 AATCTTGTCTCCCTAAGCAGTAG-TG-GAGCAAGCTGAAGATTGTAGA-TCTTATC-TCCATGAG
1 AACCTTATCTCCCTAAG--GTAGAAGAGAGCAAGCTGAAGATTG-A-ATTCTTATCTTCC-TGAG
66874146 GTAGCAATGG-AGCAGA
61 GTAGCAA-GGAAGCAGA
66874162 TCGAAGATGG
Statistics
Matches: 228, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
176 111 0.49
177 110 0.48
178 3 0.01
179 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (176 bp):
AACCTTATCTCCCTAAGGTAGAAGAGAGCAAGCTGAAGATTGAATTCTTATCTTCCTGAGGTAGC
AAGGAAGCAGACTGAGAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
CGAAACTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCACT
Found at i:66874492 original size:133 final size:133
Alignment explanation
Indices: 66873955--66874493 Score: 517
Period size: 133 Copynumber: 4.1 Consensus size: 133
66873945 AGATTGAATT
* *
66873955 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG-AGAATTGAAGATCTTATCTCCCT-AAGCAGT
1 CTTATCTTCCTGAGGTAG-AAGGAAGCAGACTGAAG-ATTGAAGATCTTATCTCCATGAAGCAGC
* * * * *
66874018 AGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAGGTAGCAGGGGAGCATATTTT-AGCC
64 AATGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTTAAGCC
*
66874082 ACTAAT
129 ACT-AG
* * * * * * *
66874088 CTTGTCTCCCTAAGCAGTAG-TGG-AGCA-AGCTGAAGATTGTAGATCTTATCTCCATGAGGTAG
1 CTTATCTTCCTGAG--GTAGAAGGAAGCAGA-CTGAAGATTGAAGATCTTATCTCCATGAAGCAG
* * * *
66874150 CAATGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGATGTAGCAAGGAAGCA-AATTTAAGC
63 CAATGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTTAAGC
66874214 CACTAG
128 CACTAG
* * * * * * * * * *
66874220 CCTTGTCTTCCT-AAGCAGGAGTGGAGCAGGCTGAAGATTGTAGATCTTATATCCATGAGGTAGC
1 -CTTATCTTCCTGAGGTAGAAG-GAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGC
* * * *
66874284 AATAGAGCAGATCGAAGACGTCGAATCTTATCTCCCTGAGGTAACAAGGGAGCAGA-TTTAAGCC
64 AATGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTTAAGCC
*
66874348 ATTAG
129 ACTAG
* *
66874353 TCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT-AAGCAGT
1 -CTTATCTTCCTGAGGTAG-AAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGC
* * * *
66874417 AGTGGAGTAGATAGAAGATGGCGAATCTTATCTTCCC-GAGGTAGCAGGGGAGCAGATTTTAA-C
64 AATGGAGCAGATCGAAGATGGCGAATCTTATC-TCCCTGAGGTAGCAAGGGAGCAGATTTTAAGC
*
66874480 CACCAG
128 CACTAG
66874486 CATTATCT
1 C-TTATCT
66874494 AGTTGCAATA
Statistics
Matches: 334, Mismatches: 55, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
130 3 0.01
131 2 0.01
132 33 0.10
133 247 0.74
134 43 0.13
135 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (133 bp):
CTTATCTTCCTGAGGTAGAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGCAA
TGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTTAAGCCAC
TAG
Found at i:66874821 original size:140 final size:141
Alignment explanation
Indices: 66874658--66874975 Score: 514
Period size: 140 Copynumber: 2.3 Consensus size: 141
66874648 AATTACAAGT
*
66874658 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
* *
66874723 GTGGAACAAATTGAAGGTATAAATTACAAATCTTATCTCTCGAAATT-ACAATAGAGCAGAATTA
66 GTGGAACAAATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGA-AATAAAGCAGAATTA
66874787 AAGCT-AAAAAC
130 AAGCTAAAAAAC
66874798 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
* * *
66874863 GTGGAATAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGAAATAAAGTAGAATTAA
66 GTGGAACAAATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGAAATAAAGCAGAATTAA
66874928 AGCTAAAAAAC
131 AGCTAAAAAAC
* * ** *
66874939 CATATCTCCTTGAAGTTGCAACGAAGCAGACTGAAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
66874976 CAATAAATCC
Statistics
Matches: 165, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
140 126 0.76
141 39 0.24
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (141 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAAATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGAAATAAAGCAGAATTAA
AGCTAAAAAAC
Found at i:66874878 original size:45 final size:45
Alignment explanation
Indices: 66874614--66874878 Score: 187
Period size: 45 Copynumber: 5.8 Consensus size: 45
66874604 GGCCACTAAC
* ** * * *
66874614 CTTATCTCTCTGAAGTTATAGTAGAGCAGGTTGAA-ATTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAAT
* * *
66874658 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAAT
* * * *
66874703 CTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGGTATAAATTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-G-AT--A--GCAAAT
* * * * * * * * *
66874754 CTTATCTCTC-GAAATTACAATAGAGCAGAATTAAAGCTA-AAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGATAGCAAAT
* *
66874798 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAAT
* **
66874843 CTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
66874879 CTATAAATTA
Statistics
Matches: 169, Mismatches: 41, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
44 51 0.30
45 82 0.49
46 1 0.01
47 3 0.02
49 2 0.01
50 13 0.08
51 17 0.10
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAAT
Found at i:66875008 original size:141 final size:140
Alignment explanation
Indices: 66874660--66875019 Score: 434
Period size: 140 Copynumber: 2.6 Consensus size: 140
66874650 TTACAAGTCT
* ** * * * * ** *
66874660 TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGACAACAAATCCCATCTCCCTGAAGTTGCAGT
* * *
66874725 GGAACAAATTGAAGGTATAAATTACAAATCTTATCTCTCGAAATTACAATAGAGCAGAATTAAAG
66 GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTACAATAAAGCAGAATTAAAG
*
66874790 CTAAAAACCT
131 CTAAAAACCA
** * * * * ** *
66874800 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGACAACAAATCCCATCTCCCTGAAGTTGCAGT
* *
66874865 GGAATAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGA-AATAAAGTAGAATTAAA
66 GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATT-ACAATAAAGCAGAATTAAA
66874929 GCTAAAAAACCA
130 GCT-AAAAACCA
* * *
66874941 TATCTCCTTGAAGTTGCAACGAAGCAGACTGAAGACAATAAATCCCATCTCCCTGAAGTAGCAGT
1 TATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGACAACAAATCCCATCTCCCTGAAGTTGCAGT
*
66875006 GGAGCAGATTGAAG
66 GGAACAGATTGAAG
66875020 TTGAAGATCT
Statistics
Matches: 197, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
140 124 0.63
141 73 0.37
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (140 bp):
TATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGACAACAAATCCCATCTCCCTGAAGTTGCAGT
GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTACAATAAAGCAGAATTAAAG
CTAAAAACCA
Found at i:66876379 original size:3 final size:3
Alignment explanation
Indices: 66876364--66876563 Score: 83
Period size: 3 Copynumber: 65.7 Consensus size: 3
66876354 TTTCAAATTA
* * *
66876364 ATT ATT TTT ATT ATT A-T ATT TTT ATT ATT ATT A-T ATTT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
* * * * * *
66876408 ATT ATT ATT TTT ATT ATT ACT ACT CTT ACTT -TT TTT AATGC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT -AT-T ATT ATT
* * * * *
66876455 ACT ACT ACTT -TCT ATCT ATT ATT ATT A-T CTT ATT -TT AAAT ATT AAT
1 ATT ATT A-TT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * *
66876501 ATT ATT ATT ATT -TCC ATA ATT ATT ATT A-T ATT ATT ATT ATT CTT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
66876545 ATT AGT ACGTT ATT ATT AT
1 ATT ATT A--TT ATT ATT AT
66876564 CTTTTCTACT
Statistics
Matches: 149, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
2 13 0.09
3 119 0.80
4 15 0.10
5 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:66876546 original size:23 final size:22
Alignment explanation
Indices: 66876520--66876619 Score: 69
Period size: 23 Copynumber: 4.4 Consensus size: 22
66876510 ATTTCCATAA
66876520 TTATTATTATATTATTATTATTC
1 TTATTATTATATTATTATTA-TC
* **
66876543 TTATTAGTACGTTATTATTATC
1 TTATTATTATATTATTATTATC
* *
66876565 TTTTCTACTT-TATTACTATTAT-
1 TTAT-TA-TTATATTATTATTATC
* *
66876587 TGTATTGTTACTAATATTATTATC
1 T-TATTATTA-TATTATTATTATC
*
66876611 ATATTATTA
1 TTATTATTA
66876620 GGCTAATTAA
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
21 2 0.04
22 7 0.12
23 47 0.82
24 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (22 bp):
TTATTATTATATTATTATTATC
Found at i:66876577 original size:20 final size:23
Alignment explanation
Indices: 66876531--66876584 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 23
66876521 TATTATTATA
*
66876531 TTATTATTATTCTTATTAGTACG
1 TTATTATTATTCTTATTACTACG
*
66876554 TTATTATTA-TCTT-TT-CTACT
1 TTATTATTATTCTTATTACTACG
*
66876574 TTATTACTATT
1 TTATTATTATT
66876585 ATTGTATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.41
21 3 0.11
22 4 0.15
23 9 0.33
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (23 bp):
TTATTATTATTCTTATTACTACG
Found at i:66876706 original size:3 final size:3
Alignment explanation
Indices: 66876700--66876842 Score: 62
Period size: 3 Copynumber: 46.7 Consensus size: 3
66876690 CATCATCATC
* * * *
66876700 ATT ATT ATT ATT ATT ATT TTT ACT ATT ATT ATT -TAT ATT CGTT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT
* * * *
66876746 ATC ATT ATT AATT -TT ATCT -TT ATT -TT CTTT ACT ATT ATT TTT ATT
1 ATT ATT ATT -ATT ATT AT-T ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * * * *
66876791 ATC ATT ATTT ATTT ATTT ATT ACT ATT GTT ATT ATT ATT GTC A-T ATT
1 ATT ATT A-TT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
66876838 ATT AT
1 ATT AT
66876843 ATATGTTTTA
Statistics
Matches: 104, Mismatches: 25, Indels: 22
0.69 0.17 0.15
Matches are distributed among these distances:
2 7 0.07
3 77 0.74
4 20 0.19
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:66878217 original size:57 final size:57
Alignment explanation
Indices: 66878153--66878268 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
66878143 TGGGGCACTC
66878153 ATAACGCATATAATTCAAATGTGAAATACATTACAAATTCCCCAACTGGTTTTAGAA
1 ATAACGCATATAATTCAAATGTGAAATACATTACAAATTCCCCAACTGGTTTTAGAA
66878210 ATAACGCATATAATTCAAATGTGAAATACATTACAAATTCCCCAACTGGTTTTAGAA
1 ATAACGCATATAATTCAAATGTGAAATACATTACAAATTCCCCAACTGGTTTTAGAA
66878267 AT
1 AT
66878269 GGTAGAATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (57 bp):
ATAACGCATATAATTCAAATGTGAAATACATTACAAATTCCCCAACTGGTTTTAGAA
Found at i:66882702 original size:4 final size:5
Alignment explanation
Indices: 66882677--66882709 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
66882667 ATACATGTGA
66882677 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
66882710 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:66889112 original size:42 final size:42
Alignment explanation
Indices: 66889005--66889168 Score: 181
Period size: 43 Copynumber: 3.9 Consensus size: 42
66888995 TTTTGATATG
* *
66889005 TGATTTTGTGTAAGACCACATCTGGGACATTGGCATCG-ATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* * * *
66889046 TGAGATTTTGTGTAAGACCATGTCTGGGACATCGGCATTGTATT
1 T--GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
*
66889090 TGATTTCGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATT
* *
66889133 TGATTACATGTAAGACCACGTCCT-GGACATTGGCAT
1 TGATTTCGTGTAAGACCACGT-CTGGGACATTGGCAT
66889169 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 65 0.62
44 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
Found at i:66889145 original size:85 final size:85
Alignment explanation
Indices: 66889005--66889172 Score: 207
Period size: 85 Copynumber: 2.0 Consensus size: 85
66888995 TTTTGATATG
* * *** *
66889005 TGATTTTGTGTAAGACCACATCTGGGACATTGGCATCGATTTGAGATTTTGTGTAAGACCATGT-
1 TGATTTCGTGTAAGACCACATCTGGGACAATGGCATCGATTTGAGATTACATGTAAGACCACGTC
66889069 CTGGGACATCGGCATTGTATT
66 CT-GGACATCGGCATTGTATT
* *
66889090 TGATTTCGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATT-TGATTACATGTAAGACCACG
1 TGATTTCGTGTAAGACCAC-ATCTGGGACAATGGCATCGAT-TTGAGATTACATGTAAGACCACG
*
66889153 TCCTGGACATTGGCATTGTA
64 TCCTGGACATCGGCATTGTA
66889173 CGAGCTTTGC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
84 1 0.01
85 66 0.93
86 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (85 bp):
TGATTTCGTGTAAGACCACATCTGGGACAATGGCATCGATTTGAGATTACATGTAAGACCACGTC
CTGGACATCGGCATTGTATT
Found at i:66893503 original size:12 final size:12
Alignment explanation
Indices: 66893488--66893529 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
66893478 AGAAAGATAG
66893488 TTTTCTCCTCCA
1 TTTTCTCCTCCA
*
66893500 TTTTCATACCT-TA
1 TTTTC-T-CCTCCA
66893513 TTTTCTCCTCCA
1 TTTTCTCCTCCA
66893525 TTTTC
1 TTTTC
66893530 ATAACTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 3 0.12
12 12 0.48
13 7 0.28
14 3 0.12
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTCTCCTCCA
Found at i:66893522 original size:25 final size:25
Alignment explanation
Indices: 66893488--66893538 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
66893478 AGAAAGATAG
*
66893488 TTTTCTCCTCCATTTTCATACCTTA
1 TTTTCTCCTCCATTTTCATAACTTA
66893513 TTTTCTCCTCCATTTTCATAACTTA
1 TTTTCTCCTCCATTTTCATAACTTA
66893538 T
1 T
66893539 AACTATAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTTCTCCTCCATTTTCATAACTTA
Found at i:66895112 original size:13 final size:13
Alignment explanation
Indices: 66895080--66895114 Score: 56
Period size: 11 Copynumber: 2.8 Consensus size: 13
66895070 ACCCCACGAT
66895080 CATATACAGAACA
1 CATATACAGAACA
66895093 -A-ATACAGAACA
1 CATATACAGAACA
66895104 CATATACAGAA
1 CATATACAGAA
66895115 TTAACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.57, C:0.20, G:0.09, T:0.14
Consensus pattern (13 bp):
CATATACAGAACA
Found at i:66895975 original size:6 final size:6
Alignment explanation
Indices: 66895964--66896070 Score: 112
Period size: 6 Copynumber: 17.8 Consensus size: 6
66895954 AACCAAAATG
*
66895964 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * * *
66896012 AGTAA-C AGAATC AGCATC AGAATC AGTATT AGTAGC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
66896060 AGAATC AGAAT
1 AGAATC AGAAT
66896071 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
5 5 0.06
6 76 0.89
7 3 0.04
8 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:66895979 original size:30 final size:29
Alignment explanation
Indices: 66895943--66896070 Score: 123
Period size: 30 Copynumber: 4.3 Consensus size: 29
66895933 AAGAAACATT
* *
66895943 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGGAA-CAGAATCAGAATCAGA
* *
66895973 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGGAACAGAATCAGAATCAGA
* *
66896003 ATCA-ATATTAGTAACAGAATCAGCATCAGA
1 ATCAGA-ATT-GGAACAGAATCAGAATCAGA
* * *
66896033 ATCAGTATTAGTAGCAGAATCAGAATCAGA
1 ATCAGAATT-GGAACAGAATCAGAATCAGA
66896063 ATCAGAAT
1 ATCAGAAT
66896071 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.01
30 80 0.95
31 3 0.04
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGGAACAGAATCAGAATCAGA
Found at i:66896237 original size:27 final size:26
Alignment explanation
Indices: 66896192--66896261 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
66896182 TGGCTGCCAA
* * *
66896192 AACAGATATCGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
66896218 ATACAGATATTGTGGTAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
66896245 AATCAGATAATGTGGCA
1 AA-CAGATATTGTGGCA
66896262 AACCCACCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:66896268 original size:27 final size:27
Alignment explanation
Indices: 66896212--66896269 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
66896202 GTGACAGAGT
* * * *
66896212 CACCAGATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
66896239 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
66896266 CACC
1 CACC
66896270 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:66896474 original size:22 final size:22
Alignment explanation
Indices: 66896426--66896484 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
66896416 GTAAATACGT
*
66896426 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
66896448 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
66896470 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
66896485 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:66896883 original size:27 final size:27
Alignment explanation
Indices: 66896853--66897021 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 27
66896843 GGGGCAAAAT
* * *
66896853 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66896880 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66896907 AGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66896934 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66896961 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66896988 GGAAATTCTACCCTACAGGGCTAGTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66897015 AGTAATT
1 GGTAATT
66897022 TCACAATCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:66896981 original size:81 final size:81
Alignment explanation
Indices: 66896852--66897007 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
66896842 AGGGGCAAAA
* * * *
66896852 TGGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTA
1 TGGTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGAAATTCTA
66896917 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
* * * * *
66896933 TGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGAAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGAAATTCTA
66896998 CCCTACAGGG
66 CCCTACAGGG
66897008 CTAGTTCAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGAAATTCTA
CCCTACAGGGGTATTT
Found at i:66897576 original size:27 final size:27
Alignment explanation
Indices: 66897026--66897570 Score: 691
Period size: 27 Copynumber: 20.2 Consensus size: 27
66897016 GTAATTTCAC
* * *
66897026 AATCAAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
66897053 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
66897080 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * * **
66897107 CATCAAAGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66897134 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66897161 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66897188 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
66897215 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66897242 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
66897269 AATTGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66897296 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66897323 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
66897350 AATCGAGGATAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
66897377 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
66897404 AATCGAGGGTAAAACAGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
66897431 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66897458 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
66897485 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66897512 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66897539 AATCGAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66897566 AATCG
1 AATCG
66897571 GGAGTACTTT
Statistics
Matches: 454, Mismatches: 58, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
26 3 0.01
27 449 0.99
28 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:66899789 original size:56 final size:56
Alignment explanation
Indices: 66899703--66899816 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
66899693 ATGGAACAAG
*
66899703 ATGCAAATATCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
66899759 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
66899815 AT
1 AT
66899817 TGATATTGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (56 bp):
ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
Found at i:66904788 original size:35 final size:35
Alignment explanation
Indices: 66904742--66904814 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
66904732 CATTGCTTGC
66904742 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
1 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
66904777 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
1 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
66904812 AAA
1 AAA
66904815 AAACTCTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.27
Consensus pattern (35 bp):
AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
Found at i:66905673 original size:22 final size:20
Alignment explanation
Indices: 66905639--66905678 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
66905629 TCTAAATGTG
*
66905639 TTTTTTATTAATTTTTATAA
1 TTTTTTATTAATTATTATAA
66905659 TTTTTTATATAAATTATTAT
1 TTTTTTAT-T-AATTATTAT
66905679 TTTTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTATTAATTATTATAA
Found at i:66908794 original size:67 final size:69
Alignment explanation
Indices: 66908722--66908855 Score: 184
Period size: 67 Copynumber: 2.0 Consensus size: 69
66908712 TTTAATAGAT
* * * * *
66908722 TTAATATTTAATTTAGTTTAATACTTATCTT-A-ACAGTATTTTATTAA-TTAATATTAAATTGA
1 TTAATATTAAATTTAATCTAATACTTATCTTGATA-AGTATTATATTAATTTAATATTAAAGTGA
66908784 TTATC
65 TTATC
*
66908789 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
66908854 TA
66 TA
66908856 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 27 0.47
68 13 0.22
69 18 0.31
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:66908812 original size:17 final size:17
Alignment explanation
Indices: 66908765--66908813 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
66908755 CAGTATTTTA
66908765 TTAAT-TAATATTAAAT
1 TTAATCTAATATTAAAT
*
66908781 TGATTATCTTAATATTAAAT
1 T--TAATC-TAATATTAAAT
66908801 TTAATCTAATATT
1 TTAATCTAATATT
66908814 TATCTTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 7 0.26
20 12 0.44
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAATCTAATATTAAAT
Found at i:66911615 original size:21 final size:23
Alignment explanation
Indices: 66911591--66911656 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
66911581 ATTTTCAAAT
*
66911591 ATTTATAAAAAAATA-C-AAAAA
1 ATTTATAAAAAAAAATCTAAAAA
*
66911612 ATTTA-AAAAAAAAATCTAAAGA
1 ATTTATAAAAAAAAATCTAAAAA
* * *
66911634 ATATATAAAAAAAAGTTTAAAAA
1 ATTTATAAAAAAAAATCTAAAAA
66911657 TTTTTGAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 8 0.22
21 6 0.17
22 8 0.22
23 14 0.39
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (23 bp):
ATTTATAAAAAAAAATCTAAAAA
Found at i:66913259 original size:30 final size:30
Alignment explanation
Indices: 66913225--66913284 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
66913215 ACTTAACAAG
*
66913225 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
66913255 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
66913285 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:66918770 original size:28 final size:28
Alignment explanation
Indices: 66918738--66918793 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
66918728 GAGACGTAAA
**
66918738 CTTCAAAATTGGGAAGCCAGGAAACTTT
1 CTTCAAAATTAAGAAGCCAGGAAACTTT
*
66918766 CTTCAGAATTAAGAAGCCAGGAAACTTT
1 CTTCAAAATTAAGAAGCCAGGAAACTTT
66918794 TCTTTGTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (28 bp):
CTTCAAAATTAAGAAGCCAGGAAACTTT
Found at i:66920730 original size:3 final size:3
Alignment explanation
Indices: 66920722--66920753 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
66920712 TGAATGTACT
66920722 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
66920754 CAAAACAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:66921533 original size:15 final size:16
Alignment explanation
Indices: 66921513--66921545 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
66921503 ATATATTTTT
66921513 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
66921528 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
66921545 T
1 T
66921546 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:66921631 original size:22 final size:22
Alignment explanation
Indices: 66921592--66921650 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
66921582 GTTTTAAGAA
*
66921592 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
66921613 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
66921635 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
66921651 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:66921667 original size:26 final size:24
Alignment explanation
Indices: 66921621--66921680 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
66921611 ATTTGTTTTA
*
66921621 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
66921645 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
66921671 TTTTTTATTT
1 ATATTTATTT
66921681 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:66922619 original size:29 final size:29
Alignment explanation
Indices: 66922577--66922635 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
66922567 TGTCACATCA
*
66922577 TATTTTAAAAATGGAAGGACTTAACGAGT
1 TATTTTAAAAATGGAAGGAATTAACGAGT
*
66922606 TATTTTGAAAATGGAAGGAATTAACGAGT
1 TATTTTAAAAATGGAAGGAATTAACGAGT
66922635 T
1 T
66922636 TAACAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (29 bp):
TATTTTAAAAATGGAAGGAATTAACGAGT
Found at i:66926088 original size:24 final size:24
Alignment explanation
Indices: 66926056--66926103 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
66926046 CTCTAAGAAT
*
66926056 GTGAAGCATATTATGAGAGAGAGA
1 GTGAAGCATATTATCAGAGAGAGA
66926080 GTGAAGCATATTATCAGAGAGAGA
1 GTGAAGCATATTATCAGAGAGAGA
66926104 CTTCTATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.21
Consensus pattern (24 bp):
GTGAAGCATATTATCAGAGAGAGA
Found at i:66933130 original size:15 final size:16
Alignment explanation
Indices: 66933104--66933133 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66933094 GACTCGGTTG
66933104 TTTCTCAGGAAAACAT
1 TTTCTCAGGAAAACAT
66933120 TTTCT-AGGAAAACA
1 TTTCTCAGGAAAACA
66933134 CTCTTTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (16 bp):
TTTCTCAGGAAAACAT
Found at i:66934736 original size:21 final size:21
Alignment explanation
Indices: 66934710--66934752 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
66934700 TAGATTTTAC
66934710 ATTAAAATTATATATAAATAT
1 ATTAAAATTATATATAAATAT
66934731 ATTAAAATTATATATAAATAT
1 ATTAAAATTATATATAAATAT
66934752 A
1 A
66934753 ACTCTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTAAAATTATATATAAATAT
Found at i:66935265 original size:31 final size:31
Alignment explanation
Indices: 66935197--66935265 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
66935187 TCGGTAACTG
* **
66935197 AACTATTCGAAAGTTTTCATTTAAATCATTA
1 AACTATTCAAAAGTTTTCATTTAAATCACCA
* *
66935228 AACTATTCAAAAGTTTTTATTTAAGTCACCA
1 AACTATTCAAAAGTTTTCATTTAAATCACCA
*
66935259 AGCTATT
1 AACTATT
66935266 AAGTTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAATCACCA
Found at i:66937975 original size:3 final size:3
Alignment explanation
Indices: 66937959--66938022 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
66937949 CATTTTAAAG
*
66937959 TAT TAT TCT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66938006 TAT TAT TAT TAT ATAT T
1 TAT TAT TAT TAT -TAT T
66938023 TTTTATTTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66938284 original size:2 final size:2
Alignment explanation
Indices: 66938241--66938273 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
66938231 TTAGATTGTT
*
66938241 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66938274 CTTTTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66939215 original size:256 final size:256
Alignment explanation
Indices: 66938751--66939225 Score: 700
Period size: 256 Copynumber: 1.9 Consensus size: 256
66938741 CGTTTTATTC
* * **
66938751 AAAATAAGGCAACATTTCGTGTTTGGAAATTACGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
1 AAAACAAGGCAAAATTTCGTGTTCAGAAATTACGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
* * *
66938816 TTTATTATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATGCATAAGTTTTGGAAATCC
66 TTTATCATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCA
* *
66938881 TAAGATGATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTACTGGATGTGATATTTTATT
131 TAAGATAATTTTGGTATCGAAGGTTTGAAATACCATGTCCTACGTACTGGATGTGATATTTTATT
* *
66938946 TCTTCGAAACAAGAGAATCTTAATCGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
196 TCTCCGAAACAAGAAAATCTTAATCGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
* * *
66939007 AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAG-AAATTGTGCCCTACGTGTTGGGTTTCGA
1 AAAACAAGGCAAAATTTCGTGTTCAGAAATTACGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
* * * * *
66939071 TTTATCGTTTGACTGAACAACCGAATATCTTTTTTTAAAATTTCAATACATGAGTTTTGGAAATC
66 TTTATCATTTAACCGAACAACCGAATATC-CTTTTTAAAATTTCAATACATAAGTTTTGGAAATC
* * * * **
66939136 ATGAGATAATTTTGGTATCGGAGGTTTGAAATGCCGTGTCCTACGTGTTGGATGTGATATTTTAT
130 ATAAGATAATTTTGGTATCGAAGGTTTGAAATACCATGTCCTACGTACTGGATGTGATATTTTAT
*
66939201 TTCTCCGGAACAAGAAAATCTTAAT
195 TTCTCCGAAACAAGAAAATCTTAAT
66939226 ATCCACTTCA
Statistics
Matches: 192, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
255 51 0.27
256 141 0.73
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (256 bp):
AAAACAAGGCAAAATTTCGTGTTCAGAAATTACGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
TTTATCATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCA
TAAGATAATTTTGGTATCGAAGGTTTGAAATACCATGTCCTACGTACTGGATGTGATATTTTATT
TCTCCGAAACAAGAAAATCTTAATCGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
Found at i:66951001 original size:227 final size:227
Alignment explanation
Indices: 66950705--66951142 Score: 597
Period size: 227 Copynumber: 1.9 Consensus size: 227
66950695 TCTCATTTCC
* * * * * * *
66950705 CTGAATTTGCAGTGGGGCAGACCGAAAATAGTAGATCTTATGTCTCTGAAGTTGCAGTAGAGTAG
1 CTGAAGTTACAGTGGAGCAGACCGAAAATAGCAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAG
* * *
66950770 ATTAAAGCTATAAATCATATACCTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGGTGAAT
66 ATTAAAGCTATAAATCATATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAAT
* * * * * *
66950835 CCTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATTTCCCTGAAATTACAG
131 CCTACCTCCTTGAAGTTGCAGTGAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAG
*
66950900 TGGAGCAGGTTGAAGTTACGAGTCTTATCTTA
196 TGGAGCAGATTGAAGTTACGAGTCTTATCTTA
* * *
66950932 CTGAAGTTACAGTGGAGCAGACTGAAAATAGCGGATCTTATCTCTTTGAAGTTGCAGCAGAGCAG
1 CTGAAGTTACAGTGGAGCAGACCGAAAATAGCAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAG
* * *
66950997 ATTAAAGCTATAAATCCTATACCTTTGAAGTTACAACAGGTCGGATCAAATCTACCATGGCGAAT
66 ATTAAAGCTATAAATCATATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAAT
* * * *** * *
66951062 CTTACCTTCTTGAAGTTGCAGTGAAACAGATCGGAGCCACCAGTTTTATCTCACTGAAGTTGCAG
131 CCTACCTCCTTGAAGTTGCAGTGAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAG
66951127 TGGAGCAGATTGAAGT
196 TGGAGCAGATTGAAGT
66951143 CACAAACTTT
Statistics
Matches: 180, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
227 180 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (227 bp):
CTGAAGTTACAGTGGAGCAGACCGAAAATAGCAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAG
ATTAAAGCTATAAATCATATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAAT
CCTACCTCCTTGAAGTTGCAGTGAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAG
TGGAGCAGATTGAAGTTACGAGTCTTATCTTA
Found at i:66952790 original size:3 final size:3
Alignment explanation
Indices: 66952774--66952841 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
66952764 CATTTTAAAG
*
66952774 TAT TAT TCT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66952821 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
66952842 AATATTTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:66954035 original size:253 final size:253
Alignment explanation
Indices: 66953587--66954043 Score: 720
Period size: 253 Copynumber: 1.8 Consensus size: 253
66953577 AAGGCAACAT
* * *
66953587 TTCGTGTTTGGAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
1 TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCAATTTATCATTTAACCG
* * *
66953652 AACAACCGAATATCCTTTTTAAAATTTCAATGCGTAAGTTTTGGAAATCCTGAGATAATTTTGGT
66 AACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGGT
* *
66953717 ATCGAAGGTTTGAAATATTGTGTCCTACGTGCTGGATGTGATATTTTATTTCTTCGAAACAAGAG
131 ATCGAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGAG
66953782 AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
196 AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
* * * * * *
66953840 TTCGTGTTCGAAAATTTTGAG-AAATTGTGCCCTACGTGTTGGGTTTCAATTTATCGTTTGACTG
1 TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCAATTTATCATTTAACCG
*
66953904 AACAACCGAATATCCTTTTTTAAAATTTCAATACATGAGTTTTGGAAATCATGAGATAATTTTGG
66 AACAACCGAATATCC-TTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGG
* * *
66953969 TATC-AGAGGTTTGAAATGTCGTGTCCTACGTGTTGGATGTGATATTTTATTTCTCCGGAACAAG
130 TATCGA-AGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAG
66954033 AGAATCTTAAT
194 AGAATCTTAAT
66954044 ATCCACTTCA
Statistics
Matches: 184, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
252 53 0.29
253 131 0.71
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (253 bp):
TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCAATTTATCATTTAACCG
AACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGGT
ATCGAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGAG
AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
Done.