Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 67 of 378
Found at i:17425041 original size:26 final size:26
Alignment explanation
Indices: 17425005--17425114 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
17424995 CATGAAATTC
17425005 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
17425031 TTATCATGAAACACTAACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
17425057 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
17425083 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
17425109 TTATCA
1 TTATCA
17425115 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:17432983 original size:11 final size:12
Alignment explanation
Indices: 17432967--17432995 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17432957 TTATTAATGG
17432967 TGAATG-ATATT
1 TGAATGAATATT
17432978 TGAATGAATATT
1 TGAATGAATATT
17432990 TGAATG
1 TGAATG
17432996 TTCTTGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:17445562 original size:35 final size:35
Alignment explanation
Indices: 17445522--17445593 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
17445512 AAAAGAATAC
17445522 TAGGTAAGTTCGGATAACTTAAAGTAAACCCCTAA
1 TAGGTAAGTTCGGATAACTTAAAGTAAACCCCTAA
17445557 TAGGTAAGTTCGGATAACTTAAAGTAAACCCCTAA
1 TAGGTAAGTTCGGATAACTTAAAGTAAACCCCTAA
17445592 TA
1 TA
17445594 TGCATAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (35 bp):
TAGGTAAGTTCGGATAACTTAAAGTAAACCCCTAA
Found at i:17447762 original size:46 final size:46
Alignment explanation
Indices: 17447695--17447783 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
17447685 ATGGAGGTAT
17447695 AGGAGGTGCAGAGGATGTACCATCCTCTTGATCACTAGCTCTCTAC
1 AGGAGGTGCAGAGGATGTACCATCCTCTTGATCACTAGCTCTCTAC
*
17447741 AGGAGGTGCAGAGGATGTACCATCCTCTTGATCATTAGCTCTC
1 AGGAGGTGCAGAGGATGTACCATCCTCTTGATCACTAGCTCTC
17447784 ACACTAACAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (46 bp):
AGGAGGTGCAGAGGATGTACCATCCTCTTGATCACTAGCTCTCTAC
Found at i:17470173 original size:19 final size:19
Alignment explanation
Indices: 17470149--17470185 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17470139 AAGAAATACG
17470149 AAGTTCATCATAGAACAGT
1 AAGTTCATCATAGAACAGT
17470168 AAGTTCATCATAGAACAG
1 AAGTTCATCATAGAACAG
17470186 CTACCCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (19 bp):
AAGTTCATCATAGAACAGT
Found at i:17477633 original size:15 final size:15
Alignment explanation
Indices: 17477606--17477649 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
17477596 ATATATATAT
*
17477606 ATAAAAAGTAAAAGGA
1 ATAAAAAG-AAAAAGA
17477622 ATAAAAAGAAAAAGA
1 ATAAAAAGAAAAAGA
17477637 ATAGAAAAAGAAA
1 AT--AAAAAGAAA
17477650 GAAAGGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (15 bp):
ATAAAAAGAAAAAGA
Found at i:17477705 original size:16 final size:15
Alignment explanation
Indices: 17477678--17477716 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
17477668 AGAGAGCAGG
*
17477678 GGAAAGAAAGAAGGAA
1 GGAAA-AAAGAAAGAA
17477694 GGATAAAAAGAAAGAA
1 GGA-AAAAAGAAAGAA
17477710 GGAAAAA
1 GGAAAAA
17477717 GGGGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (15 bp):
GGAAAAAAGAAAGAA
Found at i:17479357 original size:53 final size:53
Alignment explanation
Indices: 17479300--17479421 Score: 217
Period size: 53 Copynumber: 2.3 Consensus size: 53
17479290 TGTCGGATAT
*
17479300 TGTTACTGTTACTGTTTCCGATTTGTTTCGATGAGGTACTCTGTGTACCGTAA
1 TGTTACTGTTACTGTTTCCGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
**
17479353 TGTTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
1 TGTTACTGTTACTGTTTCCGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
17479406 TGTTACTGTTACTGTT
1 TGTTACTGTTACTGTT
17479422 CCGGCTTCAG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (53 bp):
TGTTACTGTTACTGTTTCCGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
Found at i:17479590 original size:18 final size:17
Alignment explanation
Indices: 17479538--17479597 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
17479528 TGACTGATTA
*
17479538 TTACTGAATAATTGACTG
1 TTACTGGAT-ATTGACTG
*
17479556 TTACCGGATACTTGACTG
1 TTACTGGATA-TTGACTG
*
17479574 TTACTGGATATTAGACTA
1 TTACTGGATATT-GACTG
17479592 TTACTG
1 TTACTG
17479598 AATAACTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.08
18 33 0.92
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (17 bp):
TTACTGGATATTGACTG
Found at i:17479611 original size:18 final size:18
Alignment explanation
Indices: 17479592--17479729 Score: 111
Period size: 18 Copynumber: 7.7 Consensus size: 18
17479582 TATTAGACTA
*
17479592 TTACTGAATAACTGAATA
1 TTACTGAATAACTGAATG
* *
17479610 TTACTGAATAATTG-ATCA
1 TTACTGAATAACTGAAT-G
*
17479628 TTACTGAATAACTGATTG
1 TTACTGAATAACTGAATG
* *
17479646 TCACTGAATGAA-TGATTG
1 TTACTGAAT-AACTGAATG
*
17479664 TTACTGAATAACTTAATTG
1 TTACTGAATAACTGAA-TG
* *
17479683 TTACTGAATATCTG-ATT
1 TTACTGAATAACTGAATG
* * *
17479700 TTACTAAATAATTGACTG
1 TTACTGAATAACTGAATG
*
17479718 TTACTGGATAAC
1 TTACTGAATAAC
17479730 CGATCAATTG
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
17 16 0.17
18 62 0.65
19 17 0.18
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (18 bp):
TTACTGAATAACTGAATG
Found at i:17479720 original size:54 final size:55
Alignment explanation
Indices: 17479531--17479807 Score: 197
Period size: 54 Copynumber: 5.0 Consensus size: 55
17479521 TATAAAATGA
* * * *
17479531 CTGATTATTACTGAATAATTGACTGTTACCGGAT-ACTTGACTGTTACTGGATAT
1 CTGATTATTACTGAATAATTGACTGTTACTGAATAACTTGATTGTTACTGAATAT
* * * * ** *
17479585 -TAGACTATTACTGAATAACTGAATATTACTGAATAA-TTGATCATTACTGAATAA
1 CT-GATTATTACTGAATAATTGACTGTTACTGAATAACTTGATTGTTACTGAATAT
* * * *
17479639 CTGATTGTCACTGAATGAA-TGATTGTTACTGAATAACTTAATTGTTACTGAATAT
1 CTGATTATTACTGAAT-AATTGACTGTTACTGAATAACTTGATTGTTACTGAATAT
* * * * *
17479694 CTGATT-TTACTAAATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTGAATAA
1 CTGATTATTACTGAATAATTGACTGTTACTGAAT-A---A-C--TTGATTGTTACTGAATAT
* * * * * *
17479755 GTGGTTATTATTGAATAATTGATTGTTACCGAATAACTT-ACTGTTACTGAATA
1 CTGATTATTACTGAATAATTGACTGTTACTGAATAACTTGATTGTTACTGAATA
17479808 AATAATTGTT
Statistics
Matches: 171, Mismatches: 38, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
53 3 0.02
54 96 0.56
55 27 0.16
57 1 0.01
58 2 0.01
59 1 0.01
61 19 0.11
62 22 0.13
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (55 bp):
CTGATTATTACTGAATAATTGACTGTTACTGAATAACTTGATTGTTACTGAATAT
Found at i:17479806 original size:36 final size:36
Alignment explanation
Indices: 17479538--17479817 Score: 149
Period size: 36 Copynumber: 7.6 Consensus size: 36
17479528 TGACTGATTA
* * *
17479538 TTACTGAATAATTGACTGTTACCGGAT-ACTTGACTG
1 TTACTGAATAATTGATTGTTACTGAATAACTT-ACTG
* * * * * *
17479574 TTACTGGAT-ATTAGACTATTACTGAATAACTGAATA
1 TTACTGAATAATT-GATTGTTACTGAATAACTTACTG
** * *
17479610 TTACTGAATAATTGATCATTACTGAATAACTGATTG
1 TTACTGAATAATTGATTGTTACTGAATAACTTACTG
* *
17479646 TCACTGAATGAA-TGATTGTTACTGAATAACTTAATTG
1 TTACTGAAT-AATTGATTGTTACTGAATAACTT-ACTG
*
17479683 TTACTGAAT-ATCTGATT-TTACTAAATAA-TTGACTG
1 TTACTGAATAAT-TGATTGTTACTGAATAACTT-ACTG
* * * *** *
17479718 TTACTGGATAACCGATCAATTGATCGATACTGAATAAGTGGTTA
1 TTACT-G---A---AT-AATTGATTGTTACTGAATAACTTACTG
* *
17479762 TTATTGAATAATTGATTGTTACCGAATAACTTACTG
1 TTACTGAATAATTGATTGTTACTGAATAACTTACTG
* *
17479798 TTACTGAATAAATAATTGTT
1 TTACTGAATAATTGATTGTT
17479818 CTAACTGTTA
Statistics
Matches: 187, Mismatches: 39, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
35 14 0.07
36 120 0.64
37 27 0.14
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 16 0.09
45 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (36 bp):
TTACTGAATAATTGATTGTTACTGAATAACTTACTG
Found at i:17479817 original size:18 final size:18
Alignment explanation
Indices: 17479766--17479817 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
17479756 TGGTTATTAT
* *
17479766 TGAATAATTGATTGTTAC
1 TGAATAAATAATTGTTAC
* * * *
17479784 CGAATAACTTACTGTTAC
1 TGAATAAATAATTGTTAC
17479802 TGAATAAATAATTGTT
1 TGAATAAATAATTGTT
17479818 CTAACTGTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (18 bp):
TGAATAAATAATTGTTAC
Found at i:17481420 original size:14 final size:15
Alignment explanation
Indices: 17481396--17481435 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
17481386 TATCATCATC
17481396 TCATATTTTCATATA
1 TCATATTTTCATATA
*
17481411 TCAT-TTTTCATGTA
1 TCATATTTTCATATA
17481425 TCATCATTTTC
1 TCAT-ATTTTC
17481436 TTGTATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 13 0.59
15 4 0.18
16 5 0.23
ACGTcount: A:0.25, C:0.17, G:0.03, T:0.55
Consensus pattern (15 bp):
TCATATTTTCATATA
Found at i:17487961 original size:43 final size:41
Alignment explanation
Indices: 17487901--17488062 Score: 155
Period size: 43 Copynumber: 3.9 Consensus size: 41
17487891 TCACATATAT
*
17487901 CATACAATGCCAATGTCCCAGACGTGGTCTTACATGCTATCA
1 CATACAATGCCAATGTCCCAGACGTGGTCTTACACG-TATCA
* * * *
17487943 CATATCAATGCCACTGTCCCAGACAG-AGTCTTAGACGAATCA
1 CATA-CAATGCCAATGTCCCAGAC-GTGGTCTTACACGTATCA
* * * * *
17487985 AATACGATGCCAATGTCCTATACATGGTCTTACACGTAATCA
1 CATACAATGCCAATGTCCCAGACGTGGTCTTACACGT-ATCA
* * *
17488027 CATATCGATGCCAACGTCCCAGACGTGGTATTACAC
1 CATA-CAATGCCAATGTCCCAGACGTGGTCTTACAC
17488063 AAGAACACAT
Statistics
Matches: 95, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
41 24 0.25
42 18 0.19
43 52 0.55
44 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (41 bp):
CATACAATGCCAATGTCCCAGACGTGGTCTTACACGTATCA
Found at i:17494576 original size:40 final size:40
Alignment explanation
Indices: 17494521--17494827 Score: 409
Period size: 40 Copynumber: 7.5 Consensus size: 40
17494511 TATTCGGATG
17494521 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
17494561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
17494604 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
17494644 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
17494687 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
17494727 ATATTCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
17494767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
17494807 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
17494828 ATACTTGGGT
Statistics
Matches: 238, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
39 12 0.05
40 149 0.63
41 2 0.01
42 1 0.00
43 74 0.31
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:17494660 original size:83 final size:83
Alignment explanation
Indices: 17494521--17494827 Score: 462
Period size: 83 Copynumber: 3.7 Consensus size: 83
17494511 TATTCGGATG
*
17494521 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCA
17494586 TTTGTGCGAGTAGTTGCT
66 TTTGTGCGAGTAGTTGCT
17494604 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCA
17494669 TTTGTGCGAGTAGTTGCT
66 TTTGTGCGAGTAGTTGCT
* * *
17494687 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCA
**
17494752 TTCATGC---TAG-TGACT
66 TTTGTGCGAGTAGTTG-CT
* * * * * *
17494767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-TCCGGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAG
17494828 ATACTTGGGT
Statistics
Matches: 209, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
79 17 0.08
80 43 0.21
83 149 0.71
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTAGTTGCT
Found at i:17494745 original size:123 final size:124
Alignment explanation
Indices: 17494521--17494802 Score: 421
Period size: 123 Copynumber: 2.3 Consensus size: 124
17494511 TATTCGGATG
*
17494521 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACTATACCCGGGCTAAGTCCCGAAG
** *
17494583 GCATTTGTGCGAGTAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
66 GCATTTGTGC--GTAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACT
* *
17494644 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACTATACCCGGGCTAAGTCCCGAAG
* *
17494709 GCATTTGTGC-TAG-TGACTATATTCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
66 GCATTTGTGCGTAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACT
*
17494767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17494803 TGCTATATCC
Statistics
Matches: 145, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
122 2 0.01
123 105 0.72
124 1 0.01
126 37 0.26
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (124 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACTATACCCGGGCTAAGTCCCGAAG
GCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACT
Found at i:17500455 original size:8 final size:8
Alignment explanation
Indices: 17500442--17500467 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
17500432 CGGAGTACTC
17500442 ACCTTAAA
1 ACCTTAAA
17500450 ACCTTAAA
1 ACCTTAAA
17500458 ACCTTAAA
1 ACCTTAAA
17500466 AC
1 AC
17500468 TATCTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (8 bp):
ACCTTAAA
Found at i:17504120 original size:23 final size:23
Alignment explanation
Indices: 17504094--17504138 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17504084 TAGATATCTG
*
17504094 ATGACGTTATCTT-ATAAATATGA
1 ATGAAGTTATCTTGA-AAATATGA
*
17504117 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
17504139 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGA
Found at i:17504608 original size:45 final size:44
Alignment explanation
Indices: 17504466--17504725 Score: 203
Period size: 45 Copynumber: 5.9 Consensus size: 44
17504456 ATATCGAACA
* * *
17504466 ATGCCAACGTCCCAGACGTGGTCTTACATGC-TATCTCATA-A-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACA--CAAAACACATATATCG
* * * *
17504509 ATGCC-ACTGTACCAGACAG-GGTCTTACACGAATC-GA-ATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAACACATATATCG
* * * * *
17504550 ATGCCGATGTCCCAGACATGGTCTTACACATAACCACGTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACA-AAACACATATATCG
* * *
17504595 ATGCCAACGTCCCAGATGTGTTCTTACACGAAAACACATATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAACACATATATCG
* * * *
17504640 ATGCCAACATCCTAGATGTGGTCTTAGACAAAAACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAACACATATATCG
* *
17504685 ATGCCAACGTCCCAAACGTGGGCTTACACGAAAACACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAACACATAT
17504726 CGAAATCCTA
Statistics
Matches: 175, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 28 0.16
42 9 0.05
43 22 0.13
44 4 0.02
45 110 0.63
46 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAACACATATATCG
Found at i:17506642 original size:22 final size:20
Alignment explanation
Indices: 17506594--17506642 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
17506584 TCTTAACTAT
*
17506594 TCAAATCCATAGCCAAAACA
1 TCAAATCAATAGCCAAAACA
17506614 TACCAAATCAATATGCCAAAATCA
1 T--CAAATCAATA-GCCAAAA-CA
17506638 TCAAA
1 TCAAA
17506643 CTTACACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 13 0.54
23 7 0.29
24 3 0.12
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (20 bp):
TCAAATCAATAGCCAAAACA
Found at i:17507459 original size:43 final size:43
Alignment explanation
Indices: 17507394--17507566 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
17507384 AGCTAATACA
* * *
17507394 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *** * *
17507436 ATGCCACTGTCCCAGATAGGGTCTTACACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
17507479 ATGCCAATGTCCCAAACATGGTCTTACAAGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* * *
17507522 ATGCCAATGTCTCAGACATGGTCTTATATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
17507565 AT
1 AT
17507567 AATCCTAATG
Statistics
Matches: 103, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 6 0.06
43 96 0.93
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:17508475 original size:39 final size:38
Alignment explanation
Indices: 17508395--17508508 Score: 160
Period size: 39 Copynumber: 2.9 Consensus size: 38
17508385 ACGTAGCTTA
*
17508395 TTCAACCGTGTGTCCATGCCATAAT-CTTTCACTAACGC
1 TTCAACC-TGTGTCGATGCCATAATACTTTCACTAACGC
*
17508433 TTCAATCCTGTGTCGATGCCATAATACTTTCACTAACTC
1 TTCAA-CCTGTGTCGATGCCATAATACTTTCACTAACGC
17508472 TTCAAGGCC-GTGTCGATGCCATAATACTTTCACTAAC
1 TTCAA--CCTGTGTCGATGCCATAATACTTTCACTAAC
17508509 ACTATTCTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
38 21 0.30
39 47 0.67
40 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCAACCTGTGTCGATGCCATAATACTTTCACTAACGC
Found at i:17511885 original size:29 final size:29
Alignment explanation
Indices: 17511843--17511924 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
17511833 TGCCGTATTT
**
17511843 TTTCCAGCTTGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
17511872 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
17511901 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACTTAGTGCC
17511925 GATCTCGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:17519097 original size:29 final size:29
Alignment explanation
Indices: 17519069--17519170 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
17519059 CCTCCGAGCT
** * * *
17519069 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
17519098 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
17519127 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
17519156 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
17519171 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:17522862 original size:40 final size:40
Alignment explanation
Indices: 17522813--17522919 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
17522803 AAATTATTTT
* * *
17522813 CGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC-ATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGT--CATACTATC
*
17522853 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTCATTCTATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTCATACTATC
**
17522893 TAGGCTAAGACCCGAAGGCATTTGTGC
1 CGGGCTAAGACCCGAAGGCATTTGTGC
17522920 ACATGCTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 1 0.02
39 2 0.03
40 56 0.95
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTCATACTATC
Found at i:17530388 original size:32 final size:32
Alignment explanation
Indices: 17530337--17530437 Score: 94
Period size: 32 Copynumber: 3.2 Consensus size: 32
17530327 ATGCAGCTCT
* *
17530337 AAGCCTTCAATAGCGGTATTATAATTGGCACA
1 AAGCCATCAATAACGGTATTATAATTGGCACA
** * ** * *
17530369 AAGCCATCGGTAACTGTATTATGTTTAGTACA
1 AAGCCATCAATAACGGTATTATAATTGGCACA
* *
17530401 TAGCCATCAATAACGGTATTATAATCGGCACA
1 AAGCCATCAATAACGGTATTATAATTGGCACA
*
17530433 CAGCC
1 AAGCC
17530438 TTGGGTAAAT
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (32 bp):
AAGCCATCAATAACGGTATTATAATTGGCACA
Found at i:17530972 original size:27 final size:27
Alignment explanation
Indices: 17530919--17531056 Score: 104
Period size: 27 Copynumber: 5.1 Consensus size: 27
17530909 TAAAACAGTT
* *
17530919 ATTTTACCCTACAA-GGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCCGTA
17530945 ATTTTACACTACAAGGGTATTTCCGTA
1 ATTTTACACTACAAGGGTATTTCCGTA
* * **
17530972 ATTTTACA-AATCAGGGGTATTTTAGTA
1 ATTTTACACTA-CAAGGGTATTTCCGTA
* *
17530999 ATTTTACAAGT-CGAGGGTATTT-CGATA
1 ATTTTAC-ACTACAAGGGTATTTCCG-TA
* ** * *
17531026 ATTTCACAAAATAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCCGTA
17531053 ATTT
1 ATTT
17531057 CACAAATTAG
Statistics
Matches: 89, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
26 16 0.18
27 71 0.80
28 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCCGTA
Found at i:17531004 original size:54 final size:53
Alignment explanation
Indices: 17530933--17531113 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 53
17530923 TACCCTACAA
*
17530933 GGTATTTCGGTAATTTTACACTACAAGGGTATTTCCG-TAATTTTACAAATCAGG
1 GGTATTTCAGTAATTTTACA-TACAAGGGTATTT-CGATAATTTTACAAATCAGG
* * * *
17530987 GGTATTTTAGTAATTTTACA-AGTCGAGGGTATTTCGATAATTTCACAAAAT-AAG
1 GGTATTTCAGTAATTTTACATA--CAAGGGTATTTCGATAATTTTAC-AAATCAGG
* * * * * *
17531041 GGTATTTCGGTAATTTCACAAATTAGGGGTATTTCGATAATTTTACAACTC-GG
1 GGTATTTCAGTAATTTTACATA-CAAGGGTATTTCGATAATTTTACAAATCAGG
*
17531094 GGTATTTTAGTAATTTTACA
1 GGTATTTCAGTAATTTTACA
17531114 AGTTAAGGGT
Statistics
Matches: 104, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
52 1 0.01
53 23 0.22
54 75 0.72
55 5 0.05
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (53 bp):
GGTATTTCAGTAATTTTACATACAAGGGTATTTCGATAATTTTACAAATCAGG
Found at i:17531028 original size:81 final size:80
Alignment explanation
Indices: 17530933--17531114 Score: 224
Period size: 81 Copynumber: 2.3 Consensus size: 80
17530923 TACCCTACAA
* ** *
17530933 GGTATTTCGGTAATTTTACACTACAAGGGTATTTCCGTAATTTTACAAATCAGGGGTATTTTAG-
1 GGTATTTCGATAATTTTACAAAACAAGGGTATTTCCGTAATTTCACAAATCAGGGGTA-TTTAGA
*
17530997 TAATTTTACAAGTCGAG
65 TAATTTTACAACTCG-G
* * * * *
17531014 GGTATTTCGATAATTTCACAAAATAAGGGTATTTCGGTAATTTCACAAATTAGGGGTATTTCGAT
1 GGTATTTCGATAATTTTACAAAACAAGGGTATTTCCGTAATTTCACAAATCAGGGGTATTTAGAT
17531079 AATTTTACAACTCGG
66 AATTTTACAACTCGG
*
17531094 GGTATTT-TAGTAATTTTACAA
1 GGTATTTCGA-TAATTTTACAA
17531115 GTTAAGGGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 22 0.25
81 64 0.74
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (80 bp):
GGTATTTCGATAATTTTACAAAACAAGGGTATTTCCGTAATTTCACAAATCAGGGGTATTTAGAT
AATTTTACAACTCGG
Found at i:17531057 original size:27 final size:27
Alignment explanation
Indices: 17530933--17531123 Score: 145
Period size: 27 Copynumber: 7.1 Consensus size: 27
17530923 TACCCTACAA
** *
17530933 GGTATTTCGGTAATTTTACACTACAAG
1 GGTATTTCGGTAATTTTACAAAATAAG
* *
17530960 GGTATTTCCGTAATTTTAC-AAATCAGG
1 GGTATTTCGGTAATTTTACAAAAT-AAG
** * *
17530987 GGTATTTTAGTAATTTTAC-AAGTCGAG
1 GGTATTTCGGTAATTTTACAAAAT-AAG
* *
17531014 GGTATTTCGATAATTTCACAAAATAAG
1 GGTATTTCGGTAATTTTACAAAATAAG
* * *
17531041 GGTATTTCGGTAATTTCACAAATTAGG
1 GGTATTTCGGTAATTTTACAAAATAAG
* * **
17531068 GGTATTTCGATAATTTTAC-AACTCGG
1 GGTATTTCGGTAATTTTACAAAATAAG
** **
17531094 GGTATTTTAGTAATTTTACAAGTTAAG
1 GGTATTTCGGTAATTTTACAAAATAAG
17531121 GGT
1 GGT
17531124 CTTAACGACC
Statistics
Matches: 131, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
26 22 0.17
27 106 0.81
28 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAAATAAG
Found at i:17540983 original size:47 final size:47
Alignment explanation
Indices: 17540919--17541015 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
17540909 TGTTGAGATG
17540919 TTGTATTCTTGAGTTCGAAGGTACGTGGGAAAATTATTTGTCGTTGA
1 TTGTATTCTTGAGTTCGAAGGTACGTGGGAAAATTATTTGTCGTTGA
17540966 TTGTATTCTTGAGTTCGAAGGTACGTGGGAAAATTATTTGTCGTTGA
1 TTGTATTCTTGAGTTCGAAGGTACGTGGGAAAATTATTTGTCGTTGA
17541013 TTG
1 TTG
17541016 AATTTACGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (47 bp):
TTGTATTCTTGAGTTCGAAGGTACGTGGGAAAATTATTTGTCGTTGA
Found at i:17543049 original size:47 final size:47
Alignment explanation
Indices: 17542985--17543112 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
17542975 GTGTGAATAA
* * ** *
17542985 TACCTTTATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCGAGAGAAGT
* * * *
17543032 TACCTTGATTTGGCTACGGGCCATAATATGGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCGAGAGAAGT
*
17543079 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTA
17543113 GGTACTTATC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCGAGAGAAGT
Found at i:17546204 original size:60 final size:60
Alignment explanation
Indices: 17546132--17546245 Score: 219
Period size: 60 Copynumber: 1.9 Consensus size: 60
17546122 AAATGTGGTG
*
17546132 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTGCTAGTAATACATGTTAAATTCGGCTA
1 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTCGGCTA
17546192 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATT
1 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATT
17546246 TGGCCAAGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (60 bp):
GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTCGGCTA
Found at i:17550094 original size:47 final size:48
Alignment explanation
Indices: 17549988--17550118 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 48
17549978 GTACGAGTGA
** * * * * *
17549988 TACCTTGATTTCACTATGGGCCATGGTATGGGTATTTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAGAGAAGT
*
17550036 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAG-GATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAGAGAAGT
**
17550083 TACCTTGATTTGGCTACAAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
17550119 TATCAATTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 39 0.53
48 34 0.47
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAGAGAAGT
Found at i:17556957 original size:3 final size:3
Alignment explanation
Indices: 17556942--17556993 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
17556932 GAGGATGAAA
* * * * * *
17556942 ATG ATG GTG ATG ATG AGG ATG ACG ATG GTG ATG ATG ATT ATG ATG AAG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
17556990 ATG A
1 ATG A
17556994 GCCTACCAGA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:17560868 original size:2 final size:2
Alignment explanation
Indices: 17560861--17560899 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17560851 ATATTTGGTG
17560861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17560900 AATGTACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17562977 original size:30 final size:29
Alignment explanation
Indices: 17562883--17562984 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
17562873 TATAGTGAAT
* * *
17562883 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
17562912 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
17562940 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
17562970 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
17562985 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:17570863 original size:30 final size:29
Alignment explanation
Indices: 17570769--17570870 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
17570759 TATAGTGAAT
* * *
17570769 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
17570798 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
17570826 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
17570856 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
17570871 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:17572902 original size:3 final size:3
Alignment explanation
Indices: 17572888--17572919 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17572878 TAAACTTGCT
*
17572888 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
17572920 TTTGCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:17583268 original size:28 final size:28
Alignment explanation
Indices: 17583236--17583290 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
17583226 GCGTAGATCA
17583236 CGAAATTACCCCTAAAGAGCAAAATTAT
1 CGAAATTACCCCTAAAGAGCAAAATTAT
17583264 CGAAATTACCCCTAAAGAGCAAAATTA
1 CGAAATTACCCCTAAAGAGCAAAATTA
17583291 CCGATATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAT
Found at i:17591149 original size:28 final size:28
Alignment explanation
Indices: 17591117--17591175 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17591107 GCGTAGATCA
17591117 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
17591145 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
17591173 CGA
1 CGA
17591176 TATACCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:17591568 original size:31 final size:31
Alignment explanation
Indices: 17591518--17591605 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 31
17591508 TATGGGCCAC
* *
17591518 ACTGTTATGT-AAAAGGGGCTAAGGCCT-TGCT
1 ACTGTTATCTGAAAA-GGGCTTAGGCCTATG-T
*
17591549 ACTG-TATTCTGAAAAGGGCTTCGGCCTATGT
1 ACTGTTA-TCTGAAAAGGGCTTAGGCCTATGT
*
17591580 ACTGTTATCTGAATAGGGCTTAGGCC
1 ACTGTTATCTGAAAAGGGCTTAGGCC
17591606 CAATGGGCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
30 2 0.04
31 38 0.79
32 8 0.17
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (31 bp):
ACTGTTATCTGAAAAGGGCTTAGGCCTATGT
Found at i:17602936 original size:40 final size:40
Alignment explanation
Indices: 17602858--17603081 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
17602848 ACCCAAGTAT
* *
17602858 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
17602897 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
17602937 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17602977 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
17603020 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
17603060 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
17603082 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:17603054 original size:83 final size:80
Alignment explanation
Indices: 17602858--17603081 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
17602848 ACCCAAGTAT
* * * *
17602858 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
17602922 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
17602937 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
17603001 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
17603020 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
17603082 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:17604984 original size:36 final size:36
Alignment explanation
Indices: 17604937--17605008 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
17604927 GAGTCAGCAG
17604937 CTCAATCACTTTCAAATTACATCAAGCATCAAACTA
1 CTCAATCACTTTCAAATTACATCAAGCATCAAACTA
17604973 CTCAATCACTTTCAAATTACATCAAGCATCAAACTA
1 CTCAATCACTTTCAAATTACATCAAGCATCAAACTA
17605009 ACATAGTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.28, G:0.03, T:0.28
Consensus pattern (36 bp):
CTCAATCACTTTCAAATTACATCAAGCATCAAACTA
Found at i:17604997 original size:20 final size:20
Alignment explanation
Indices: 17604938--17604997 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
17604928 AGTCAGCAGC
17604938 TCAATCACTTTCAAATTACA
1 TCAATCACTTTCAAATTACA
* *
17604958 TCAAGCA---TCAAACTAC-
1 TCAATCACTTTCAAATTACA
17604974 TCAATCACTTTCAAATTACA
1 TCAATCACTTTCAAATTACA
17604994 TCAA
1 TCAA
17604998 GCATCAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 6 0.19
17 8 0.25
19 8 0.25
20 10 0.31
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.30
Consensus pattern (20 bp):
TCAATCACTTTCAAATTACA
Found at i:17608010 original size:8 final size:8
Alignment explanation
Indices: 17607997--17608026 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
17607987 TCAACATTTA
17607997 ATTTAAAT
1 ATTTAAAT
17608005 ATTTAAAT
1 ATTTAAAT
17608013 ATTTAAA-
1 ATTTAAAT
17608020 ATTTAAA
1 ATTTAAA
17608027 AAAAAAGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTAAAT
Found at i:17608018 original size:16 final size:15
Alignment explanation
Indices: 17607997--17608026 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
17607987 TCAACATTTA
17607997 ATTTAAATATTTAAAT
1 ATTTAAA-ATTTAAAT
17608013 ATTTAAAATTTAAA
1 ATTTAAAATTTAAA
17608027 AAAAAAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATTTAAAT
Found at i:17608470 original size:16 final size:16
Alignment explanation
Indices: 17608449--17608480 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17608439 TTTAGGAGAG
*
17608449 GCCAAAGTACAATTTT
1 GCCAAACTACAATTTT
17608465 GCCAAACTACAATTTT
1 GCCAAACTACAATTTT
17608481 ACCTTTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (16 bp):
GCCAAACTACAATTTT
Found at i:17611504 original size:22 final size:22
Alignment explanation
Indices: 17611479--17611529 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
17611469 CACTAGGGAC
17611479 TATGTGATCTGAGCTCATGAGT-
1 TATGTGATCTGAGCTCATGA-TA
* * *
17611501 TATGTGGTTTGAGTTCATGATA
1 TATGTGATCTGAGCTCATGATA
17611523 TATGTGA
1 TATGTGA
17611530 CACATGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (22 bp):
TATGTGATCTGAGCTCATGATA
Found at i:17613783 original size:3 final size:3
Alignment explanation
Indices: 17613759--17613808 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
17613749 GATTGGTGCC
* *
17613759 TAT T-T TAT TAT TGT TAT CAT TAT TAT TATT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
17613803 T-T TAT T
1 TAT TAT T
17613809 TTCCTTTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.15
3 30 0.77
4 3 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:17613796 original size:15 final size:15
Alignment explanation
Indices: 17613759--17613810 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
17613749 GATTGGTGCC
*
17613759 TATTTTATTATT-GT
1 TATTTTATTATTATT
*
17613773 TATCATTATTATTATT
1 TAT-TTTATTATTATT
17613789 TATTTTATTATTATTT
1 TATTTTATTATTA-TT
17613805 TATTTT
1 TATTTT
17613811 CCTTTGATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 3 0.09
15 17 0.53
16 12 0.38
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TATTTTATTATTATT
Found at i:17619454 original size:66 final size:67
Alignment explanation
Indices: 17619325--17619454 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
17619315 GGGATGTATC
*
17619325 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
17619390 AGGACA
62 AGGACA
* *
17619396 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
17619455 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:17641643 original size:19 final size:19
Alignment explanation
Indices: 17641619--17641665 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17641609 AATGCCTTTT
*
17641619 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
17641638 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
17641657 TATGCATTA
1 TTTGCATTA
17641666 AATTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:17644335 original size:45 final size:45
Alignment explanation
Indices: 17644284--17644370 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
17644274 AACATGTGTC
* * *
17644284 ACATATATCATGAACTTAGACCACAACTCAATGAGTTCAGATGTT
1 ACATATATCATGAACTCAGACCACAAATCAAAGAGTTCAGATGTT
17644329 ACATATATCATGAACTCAGACCACAAATCAAAGAGTTCAGAT
1 ACATATATCATGAACTCAGACCACAAATCAAAGAGTTCAGAT
17644371 CATGAACTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (45 bp):
ACATATATCATGAACTCAGACCACAAATCAAAGAGTTCAGATGTT
Found at i:17644374 original size:34 final size:34
Alignment explanation
Indices: 17644335--17644405 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
17644325 TGTTACATAT
17644335 ATCATGAACTCAGACCACAAATCAAAGAGTTCAG
1 ATCATGAACTCAGACCACAAATCAAAGAGTTCAG
*
17644369 ATCATGAACTCAGACCACAACTCAAAGAGTTCAG
1 ATCATGAACTCAGACCACAAATCAAAGAGTTCAG
17644403 ATC
1 ATC
17644406 GCATAATTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.18
Consensus pattern (34 bp):
ATCATGAACTCAGACCACAAATCAAAGAGTTCAG
Found at i:17655878 original size:44 final size:44
Alignment explanation
Indices: 17655815--17656109 Score: 272
Period size: 44 Copynumber: 6.5 Consensus size: 44
17655805 CATTATGGAA
* * **
17655815 AATCTTATCTCCCTGAAGTTGCTA-TAGAGCAGATTGAAGCCACT
1 AATCTTATCTCCTTGAAGTTGC-AGTGGAGCAGATTGAAGATACT
* *
17655859 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* *
17655903 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCG
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATA-CT
* ** * *
17655949 AATCTTATTTCCTTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT---G----AAGATACT
* * * * * *
17656000 AACCTTATCTCCATGAAGTTGCAGTGGAGTAGGTTGAAGTTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACT
*
17656044 AATCTTATCT-CTATGAAGTTGTAGTGGAGCAGATTGAAGATA-T
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATACT
*
17656087 AAGTCTTATCTCCCTGAAGTTGC
1 AA-TCTTATCTCCTTGAAGTTGC
17656110 GATGGAATGG
Statistics
Matches: 208, Mismatches: 30, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.02
44 94 0.45
45 72 0.35
48 2 0.01
51 31 0.15
52 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACT
Found at i:17656853 original size:3 final size:3
Alignment explanation
Indices: 17656845--17656897 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
17656835 TCTTATTTTA
*
17656845 AAT AAT AAT AAT AAA 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
17656893 AAT AA
1 AAT AA
17656898 AGAATAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17657945 original size:3 final size:3
Alignment explanation
Indices: 17657921--17657970 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
17657911 GATTGGTGCC
* *
17657921 TAT T-T TAT TAT TGT TAT CAT TAT TAT TATT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
17657965 T-T TAT T
1 TAT TAT T
17657971 TTCCTTTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.15
3 30 0.77
4 3 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:17657958 original size:15 final size:15
Alignment explanation
Indices: 17657921--17657972 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
17657911 GATTGGTGCC
*
17657921 TATTTTATTATT-GT
1 TATTTTATTATTATT
*
17657935 TATCATTATTATTATT
1 TAT-TTTATTATTATT
17657951 TATTTTATTATTATTT
1 TATTTTATTATTA-TT
17657967 TATTTT
1 TATTTT
17657973 CCTTTGATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 3 0.09
15 17 0.53
16 12 0.38
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TATTTTATTATTATT
Found at i:17668791 original size:19 final size:17
Alignment explanation
Indices: 17668769--17668816 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
17668759 TTTTTTAATT
17668769 TTTTTAAAAATTAATTTTA
1 TTTTT-AAAA-TAATTTTA
*
17668788 TTTTTTAAATAATTTTA
1 TTTTTAAAATAATTTTA
*
17668805 TATTTTTAAATA
1 T-TTTTAAAATA
17668817 TTACAGGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.33
18 13 0.48
19 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAAATAATTTTA
Found at i:17668802 original size:17 final size:18
Alignment explanation
Indices: 17668780--17668816 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17668770 TTTTAAAAAT
17668780 TAATTTTAT-TTTTTAAA
1 TAATTTTATATTTTTAAA
17668797 TAATTTTATATTTTTAAA
1 TAATTTTATATTTTTAAA
17668815 TA
1 TA
17668817 TTACAGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATTTTATATTTTTAAA
Found at i:17669348 original size:34 final size:34
Alignment explanation
Indices: 17669300--17669366 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
17669290 TGGCTTCAGA
17669300 TGAAAGGCTATTTAAGAATCTTGACAGAAGGTTG
1 TGAAAGGCTATTTAAGAATCTTGACAGAAGGTTG
*
17669334 TGAAAGGCTGTTTAAGAATCTTGACAGAAGGTT
1 TGAAAGGCTATTTAAGAATCTTGACAGAAGGTT
17669367 TACTTCCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (34 bp):
TGAAAGGCTATTTAAGAATCTTGACAGAAGGTTG
Found at i:17674646 original size:22 final size:21
Alignment explanation
Indices: 17674620--17674669 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
17674610 ATATACATAG
17674620 TTCATT-TTAAATGGTTTTATAT
1 TTCATTGTTAAAT--TTTTATAT
17674642 TTCATTTGTTAAATTTTTATAT
1 TTCA-TTGTTAAATTTTTATAT
*
17674664 ATCATT
1 TTCATT
17674670 AAACTGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 2 0.08
24 6 0.24
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (21 bp):
TTCATTGTTAAATTTTTATAT
Found at i:17674877 original size:28 final size:28
Alignment explanation
Indices: 17674832--17674916 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
17674822 TATATATATA
*
17674832 TATATATATCTTTC-ATTTTAAACTATTT
1 TATATATAT-TATCTATTTTAAACTATTT
17674860 TATATATATTATCTATTTTAAA--ATTT
1 TATATATATTATCTATTTTAAACTATTT
* * * *
17674886 T-TATATGTTATTTA-GTTATACTATTT
1 TATATATATTATCTATTTTAAACTATTT
17674912 TATAT
1 TATAT
17674917 GTCAATTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 4 0.08
25 11 0.23
26 10 0.21
27 6 0.12
28 17 0.35
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (28 bp):
TATATATATTATCTATTTTAAACTATTT
Found at i:17674994 original size:25 final size:25
Alignment explanation
Indices: 17674846--17674995 Score: 67
Period size: 25 Copynumber: 5.8 Consensus size: 25
17674836 TATATCTTTC
* *
17674846 ATTTTAAACTATTTTATATATATTATCT
1 ATTTTAAAATA-TTT-T-TATATTATTT
*
17674874 ATTTTAAAAT-TTTTATATGTTATTT
1 ATTTTAAAATATTTT-TATATTATTT
* * * *
17674899 A-GTTATACTA-TTTTATATGTCAATT
1 ATTTTAAAATATTTTTATAT-T-ATTT
*
17674924 A-TTTAAAATTCATTTTCATTATTATTT
1 ATTTTAAAA-T-ATTTTTA-TATTATTT
* * **
17674951 ACTTTAAACT-TTCCATATATTATTT
1 ATTTTAAAATATT-TTTATATTATTT
17674976 ATTTTAAAATATTTTTATAT
1 ATTTTAAAATATTTTTATAT
17674996 ATTCTTTATT
Statistics
Matches: 91, Mismatches: 21, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
23 4 0.04
24 9 0.10
25 42 0.46
26 7 0.08
27 6 0.07
28 20 0.22
29 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTTTAAAATATTTTTATATTATTT
Found at i:17675015 original size:27 final size:26
Alignment explanation
Indices: 17674863--17675112 Score: 115
Period size: 25 Copynumber: 9.7 Consensus size: 26
17674853 ACTATTTTAT
* *
17674863 ATATATTATCTATTTTAAAAT-TTTT
1 ATATATTATTTATTTTAAAATATTTC
* * * * *
17674888 ATATGTTATTTA-GTTATACTATTTT
1 ATATATTATTTATTTTAAAATATTTC
* * *
17674913 ATATGTCAATTA-TTTAAAATTCATTTTC
1 ATATATTATTTATTTTAAAA-T-A-TTTC
* * *
17674941 AT-TATTATTTACTTTAAACT-TTCC
1 ATATATTATTTATTTTAAAATATTTC
*
17674965 ATATATTATTTATTTTAAAATATTTTT
1 ATATATTATTTATTTTAAAATA-TTTC
* * *
17674992 ATATATTCTTTATTTTAGATTATTTC
1 ATATATTATTTATTTTAAAATATTTC
** *
17675018 ATATATTACCTA-TTCAAAAT-TTTC
1 ATATATTATTTATTTTAAAATATTTC
* * * *
17675042 ATGTATAGTATTTAATTTAAACTGCTTT-
1 A--TATATTATTTATTTTAAAAT-ATTTC
* * * *
17675070 A-ATGTTATTAATTTTGAAAT-TTTA
1 ATATATTATTTATTTTAAAATATTTC
17675094 ATATATTATTTATTTTAAA
1 ATATATTATTTATTTTAAA
17675113 GCTCCTTTTA
Statistics
Matches: 166, Mismatches: 44, Indels: 30
0.69 0.18 0.12
Matches are distributed among these distances:
23 3 0.02
24 16 0.10
25 76 0.46
26 21 0.13
27 35 0.21
28 12 0.07
29 3 0.02
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.56
Consensus pattern (26 bp):
ATATATTATTTATTTTAAAATATTTC
Found at i:17678962 original size:9 final size:10
Alignment explanation
Indices: 17678944--17678989 Score: 62
Period size: 9 Copynumber: 4.8 Consensus size: 10
17678934 AACGCCTCTT
17678944 TTTGCATTCA
1 TTTGCATTCA
17678954 TTT-CATTCA
1 TTTGCATTCA
17678963 TTTGCATTACA
1 TTTGCATT-CA
17678974 TTT-CA-TCA
1 TTTGCATTCA
17678982 TTTGCATT
1 TTTGCATT
17678990 AAATTTCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 5 0.16
9 12 0.38
10 10 0.31
11 5 0.16
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTGCATTCA
Found at i:17678968 original size:19 final size:19
Alignment explanation
Indices: 17678944--17678998 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
17678934 AACGCCTCTT
17678944 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTTCA-TCA
17678963 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
*
17678982 TTTGCATTAAATTTCAT
1 TTTGCATTACATTTCAT
17678999 GTTAATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 27 0.79
20 7 0.21
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:17684813 original size:39 final size:39
Alignment explanation
Indices: 17684759--17684911 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
17684749 GAATGTTCGA
*
17684759 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
17684798 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
17684837 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
17684876 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
17684912 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:17684927 original size:40 final size:39
Alignment explanation
Indices: 17684760--17684941 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
17684750 AATGTTCGAG
* *
17684760 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
17684799 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
17684838 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
17684877 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
17684917 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
17684942 TGTTTGAACG
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:17690372 original size:45 final size:45
Alignment explanation
Indices: 17690316--17690621 Score: 262
Period size: 45 Copynumber: 6.7 Consensus size: 45
17690306 TAAAGCCCCC
17690316 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACA
* *
17690361 AATCTTATCTCCCTGAAGTT-ACAGTGGAGCAGACTGTAGATAACG
1 AATCTTATCTCCCTGAAGTTGA-AGTGGAGCAGACTGAAGATAACA
* *
17690406 AATCTTATCTCCCTGAAGTT-ACAGTGGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGA-AGTGGAGCAGACTGAAGATAACA
* * * * *
17690451 AATCTTATCTCCCTGAAGTTGCAA-TGGGGGAAATTGAAGCTACAAATCACA
1 AATCTTATCTCCCTGAAGTTG-AAGTGGAGCAGACTGAAG------ATAACA
* * ** * ** *
17690502 AACCTTATCTCCCTAAAGTTGCGGTGGAGCATA-TAGAA-ACCACT
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGACT-GAAGATAACA
* * * * *
17690546 AGTCTCATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACA
* * *
17690591 AATCTTATCTCTCTGAAGTTGCAGTAGAGCA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCA
17690622 TATTAAAGCT
Statistics
Matches: 212, Mismatches: 36, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
44 34 0.16
45 144 0.68
46 1 0.00
47 1 0.00
50 1 0.00
51 31 0.15
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACA
Found at i:17690811 original size:44 final size:44
Alignment explanation
Indices: 17690687--17690851 Score: 131
Period size: 44 Copynumber: 3.7 Consensus size: 44
17690677 CCATGGTGAA
* * * **
17690687 TCTTATCTCCCTAAAGTTGTAGTAGAGTAGATTGAAGCCACAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * *
17690730 ACTTTATCCCCCTGAAGTTGCAGT-GAGGCA-AGTTGAAGTTACAAG
1 TC-TTATCTCCCTAAAGTTGCAGTGGA-GCAGA-TTGAAGATACAAG
*
17690775 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC-AG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA-CAAG
* * * *
17690819 ATCTTATCTCCTTGAAGTTACAATGGAGCAGAT
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
17690852 CAAGCTACAA
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.04
44 61 0.63
45 32 0.33
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
Found at i:17692519 original size:22 final size:21
Alignment explanation
Indices: 17692492--17692541 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
17692482 ATATACATAG
17692492 TTCATT-TTAAATGGTTTTATAT
1 TTCATTGTTAAAT--TTTTATAT
17692514 TTCATTTGTTAAATTTTTATAT
1 TTCA-TTGTTAAATTTTTATAT
*
17692536 GTCATT
1 TTCATT
17692542 AAACTGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 2 0.08
24 6 0.24
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (21 bp):
TTCATTGTTAAATTTTTATAT
Found at i:17692655 original size:25 final size:25
Alignment explanation
Indices: 17692627--17692698 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 25
17692617 ACTATTGCCC
*
17692627 ATTTTAAACTTTATATATATTATTT
1 ATTTTAAACTTTATATATATTACTT
* *
17692652 ATTTTTAAATTATTATACATATTACTT
1 A-TTTTAAACT-TTATATATATTACTT
***
17692679 ATTTTGGTCTTTATATATAT
1 ATTTTAAACTTTATATATAT
17692699 ATATATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 10 0.27
26 13 0.35
27 14 0.38
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (25 bp):
ATTTTAAACTTTATATATATTACTT
Found at i:17692673 original size:27 final size:26
Alignment explanation
Indices: 17692628--17692683 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
17692618 CTATTGCCCA
* *
17692628 TTTTAAACTTTATATATATTATTTAT
1 TTTTAAACTTTATACATATTACTTAT
*
17692654 TTTTAAATTATTATACATATTACTTAT
1 TTTTAAACT-TTATACATATTACTTAT
17692681 TTT
1 TTT
17692684 GGTCTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTAAACTTTATACATATTACTTAT
Found at i:17692871 original size:27 final size:27
Alignment explanation
Indices: 17692715--17692884 Score: 95
Period size: 25 Copynumber: 6.5 Consensus size: 27
17692705 ATATCTTTCG
* *
17692715 TTTTAAACTATTTTATATATATTATCTA
1 TTTTAAAATATTTT-TATATATTATTTA
*
17692743 TTTT-AAA-ATTTTTATATGTTATTTA
1 TTTTAAAATATTTTTATATATTATTTA
* * * * * * *
17692768 -GTTATACTA-TTTTATATGTCA-ATC
1 TTTTAAAATATTTTTATATATTATTTA
* *
17692792 GTTTAAAATTCATTTTCAT-TATTATTTA
1 TTTTAAAA-T-ATTTTTATATATTATTTA
* * **
17692820 CTTT-AAA-CTTTCCATATATTATTTA
1 TTTTAAAATATTTTTATATATTATTTA
*
17692845 TTTTAAAATATTTTTATATATTCTTTA
1 TTTTAAAATATTTTTATATATTATTTA
*
17692872 TTTTAGAATATTT
1 TTTTAAAATATTT
17692885 CATATAATAC
Statistics
Matches: 106, Mismatches: 26, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
24 9 0.08
25 39 0.37
26 10 0.09
27 35 0.33
28 13 0.12
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (27 bp):
TTTTAAAATATTTTTATATATTATTTA
Found at i:17696111 original size:4 final size:5
Alignment explanation
Indices: 17696079--17696118 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
17696069 TATATGTATG
*
17696079 TATTG TATTT TATTT TATTT TATTT TA-TT TA-TT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA
17696119 AGAACAAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:17700607 original size:31 final size:31
Alignment explanation
Indices: 17700571--17700632 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
17700561 TTAAAAGTTT
17700571 AAGGAATTTACCAAATTGTTCATCTGAGTGG
1 AAGGAATTTACCAAATTGTTCATCTGAGTGG
17700602 AAGGAATTTACCAAATTGTTCATCTGAGTGG
1 AAGGAATTTACCAAATTGTTCATCTGAGTGG
17700633 TCTTACCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (31 bp):
AAGGAATTTACCAAATTGTTCATCTGAGTGG
Found at i:17716686 original size:15 final size:15
Alignment explanation
Indices: 17716666--17716695 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17716656 CATTTTATTT
*
17716666 ATATTAGGATAATTA
1 ATATTAAGATAATTA
17716681 ATATTAAGATAATTA
1 ATATTAAGATAATTA
17716696 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:17716723 original size:27 final size:27
Alignment explanation
Indices: 17716662--17716740 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
17716652 ACTTCATTTT
* *
17716662 ATTTATATTAGGA-TAATTAATATTAAG
1 ATTTTTATTAGGATTATTTAAT-TTAAG
** *
17716689 ATAATTATTAGGATTATTTAATTTTAG
1 ATTTTTATTAGGATTATTTAATTTAAG
* * *
17716716 ATTTTTATTTGAATTATTTTATTTA
1 ATTTTTATTAGGATTATTTAATTTA
17716741 TCTTTAATTA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
27 33 0.82
28 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (27 bp):
ATTTTTATTAGGATTATTTAATTTAAG
Found at i:17720309 original size:7 final size:7
Alignment explanation
Indices: 17720297--17720369 Score: 73
Period size: 7 Copynumber: 10.7 Consensus size: 7
17720287 GAGGCAATCC
17720297 ATTTTTT
1 ATTTTTT
17720304 ATTTTTT
1 ATTTTTT
17720311 ATTTTTT
1 ATTTTTT
17720318 A-TTTTT
1 ATTTTTT
17720324 A-TTTTT
1 ATTTTTT
*
17720330 A-GTTTT
1 ATTTTTT
17720336 ATTTTATT
1 ATTTT-TT
*
17720344 -TTATTT
1 ATTTTTT
17720350 ATTTTATT
1 ATTTT-TT
*
17720358 ATTTATT
1 ATTTTTT
17720365 ATTTT
1 ATTTT
17720370 CAGATATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
6 19 0.34
7 29 0.52
8 8 0.14
ACGTcount: A:0.19, C:0.00, G:0.01, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:17720315 original size:5 final size:5
Alignment explanation
Indices: 17720300--17720357 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
17720290 GCAATCCATT
17720300 TTTTA TTTT- TTATT- TTTTA TTTTTA TTTTTA GTTTTA TTTTA TTTTA
1 TTTTA TTTTA TT-TTA TTTTA -TTTTA -TTTTA -TTTTA TTTTA TTTTA
17720347 -TTTA TTTTA TT
1 TTTTA TTTTA TT
17720358 ATTTATTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
4 8 0.17
5 24 0.50
6 16 0.33
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:17720322 original size:12 final size:12
Alignment explanation
Indices: 17720300--17720364 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
17720290 GCAATCCATT
17720300 TTTTATTTTTTA
1 TTTTATTTTTTA
*
17720312 TTTTTTATTTTTA
1 TTTTAT-TTTTTA
*
17720325 TTTT-TAGTTTTA
1 TTTTAT-TTTTTA
17720337 TTTTATTTTATTTA
1 TTTTA-TTT-TTTA
*
17720351 TTTTATTATTTA
1 TTTTATTTTTTA
17720363 TT
1 TT
17720365 ATTTTCAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 22 0.49
13 13 0.29
14 10 0.22
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:17720336 original size:32 final size:32
Alignment explanation
Indices: 17720300--17720362 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
17720290 GCAATCCATT
*
17720300 TTTTATTTT-TTATTTTTTATTTTTATT-TTTAG
1 TTTTATTTTATT-TTATTTA-TTTTATTATTTAG
17720332 TTTTATTTTATTTTATTTATTTTATTATTTA
1 TTTTATTTTATTTTATTTATTTTATTATTTA
17720363 TTATTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 7 0.25
32 19 0.68
33 2 0.07
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (32 bp):
TTTTATTTTATTTTATTTATTTTATTATTTAG
Found at i:17721926 original size:15 final size:15
Alignment explanation
Indices: 17721906--17721935 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17721896 CATTTTATTT
*
17721906 ATATTAGGATAATTA
1 ATATTAAGATAATTA
17721921 ATATTAAGATAATTA
1 ATATTAAGATAATTA
17721936 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:17721963 original size:27 final size:26
Alignment explanation
Indices: 17721902--17721964 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
17721892 ACTCCATTTT
17721902 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
17721929 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
17721957 ATTTTATT
1 ATTTTATT
17721965 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:17728159 original size:13 final size:13
Alignment explanation
Indices: 17728141--17728165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17728131 AAAGCACGAC
17728141 TCACACGGGCGTT
1 TCACACGGGCGTT
17728154 TCACACGGGCGT
1 TCACACGGGCGT
17728166 GTCCTTGCCG
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:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
TCACACGGGCGTT
Found at i:17740871 original size:13 final size:14
Alignment explanation
Indices: 17740853--17740884 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
17740843 AAGGTAACTT
17740853 AAAATAAAAAAT-G
1 AAAATAAAAAATGG
17740866 AAAATAAAAAATGG
1 AAAATAAAAAATGG
17740880 AAAAT
1 AAAAT
17740885 GCATAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (14 bp):
AAAATAAAAAATGG
Found at i:17740986 original size:25 final size:24
Alignment explanation
Indices: 17740934--17740994 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 24
17740924 TAAAAATAAT
17740934 AAAAGAAATAATAAAATAACAAGTAC
1 AAAA-AAA-AATAAAATAACAAGTAC
*
17740960 AAAATAAAAATAAAATAATAA-TGAC
1 AAAA-AAAAATAAAATAACAAGT-AC
*
17740985 AATAAAAAAT
1 AAAAAAAAAT
17740995 GCACAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 17 0.55
26 7 0.23
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (24 bp):
AAAAAAAAATAAAATAACAAGTAC
Found at i:17750250 original size:20 final size:20
Alignment explanation
Indices: 17750225--17750276 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
17750215 TTGAAGTGTC
17750225 ACACGCCCGTGTGACTTGGG
1 ACACGCCCGTGTGACTTGGG
17750245 ACACGCCCGTGTGACTTGGG
1 ACACGCCCGTGTGACTTGGG
17750265 ACACGCCCGTGT
1 ACACGCCCGTGT
17750277 CCAAGACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGACTTGGG
Found at i:17756753 original size:46 final size:45
Alignment explanation
Indices: 17756655--17756781 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 45
17756645 ATACTGTTAG
* *
17756655 GATATTATTAT-GAGATCTTATCATTTAGCAATTTGATTTCTAATAA
1 GATATTATTATAG-GATATTATC-TTTAGCAATTTGATTCCTAATAA
17756701 G--A-TATTATAGGATATTATCTCTTAGCAATTTGATTCCTAATAA
1 GATATTATTATAGGATATTATCT-TTAGCAATTTGATTCCTAATAA
* *
17756744 GATATTATTATGAGG-TATTCTCTTTTAACAATTTGATT
1 GATATTATTAT-AGGATATTATC-TTTAGCAATTTGATT
17756782 TCTATGCAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
42 1 0.01
43 36 0.51
44 2 0.03
45 1 0.01
46 26 0.37
47 4 0.06
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (45 bp):
GATATTATTATAGGATATTATCTTTAGCAATTTGATTCCTAATAA
Found at i:17769414 original size:18 final size:18
Alignment explanation
Indices: 17769375--17769416 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17769365 TATGAACTGT
* *
17769375 TGTTTGATAGCTCTTCTT
1 TGTTTGATAGATCTTCTG
17769393 TGTTTGAT-GATCTTCATG
1 TGTTTGATAGATCTTC-TG
17769411 TGTTTG
1 TGTTTG
17769417 GTTGCTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (18 bp):
TGTTTGATAGATCTTCTG
Found at i:17770349 original size:6 final size:6
Alignment explanation
Indices: 17770334--17770369 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
17770324 AAACTTAACC
17770334 AAAT-A AAATAA AAATAA AAAT-A AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA
17770370 CCAATACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:17770350 original size:11 final size:11
Alignment explanation
Indices: 17770334--17770369 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
17770324 AAACTTAACC
17770334 AAAT-AAAATAA
1 AAATAAAAAT-A
17770345 AAATAAAAATA
1 AAATAAAAATA
17770356 AAATAAAAATA
1 AAATAAAAATA
17770367 AAA
1 AAA
17770370 CCAATACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:17770354 original size:17 final size:17
Alignment explanation
Indices: 17770334--17770369 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
17770324 AAACTTAACC
17770334 AAATAAAATAAAAATAA
1 AAATAAAATAAAAATAA
17770351 AAATAAAATAAAAATAA
1 AAATAAAATAAAAATAA
17770368 AA
1 AA
17770370 CCAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:17775636 original size:18 final size:18
Alignment explanation
Indices: 17775615--17775653 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17775605 CATTGAAAAA
17775615 AAATT-GAATTATGAATAG
1 AAATTGGAATTATG-ATAG
*
17775633 AAATTGGAATTGTGATAG
1 AAATTGGAATTATGATAG
17775651 AAA
1 AAA
17775654 GAGAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (18 bp):
AAATTGGAATTATGATAG
Found at i:17781559 original size:21 final size:21
Alignment explanation
Indices: 17781520--17781583 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
17781510 TATAATGATT
*
17781520 ATTATTATGGTT-TTATAATAA
1 ATTATTATGATTATT-TAATAA
*
17781541 ATTATTATGATTATTTAATTA
1 ATTATTATGATTATTTAATAA
* *
17781562 A-TAATAT-ATTA-TAAATAA
1 ATTATTATGATTATTTAATAA
17781580 ATTA
1 ATTA
17781584 AATAGTAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 6 0.17
19 6 0.17
20 5 0.14
21 17 0.47
22 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTATTATGATTATTTAATAA
Found at i:17781705 original size:8 final size:8
Alignment explanation
Indices: 17781692--17781716 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17781682 AGATATTTGT
17781692 TAATTAAA
1 TAATTAAA
17781700 TAATTAAA
1 TAATTAAA
17781708 TAATTAAA
1 TAATTAAA
17781716 T
1 T
17781717 TATGAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATTAAA
Found at i:17781897 original size:25 final size:25
Alignment explanation
Indices: 17781869--17781916 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17781859 AAATATAACA
* *
17781869 TAAAAGAAATAAAACAAATGAAACG
1 TAAAAGAAATAAAAAAAAGGAAACG
*
17781894 TAAAAGAAGTAAAAAAAAGGAAA
1 TAAAAGAAATAAAAAAAAGGAAA
17781917 GAAAGTTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.71, C:0.04, G:0.15, T:0.10
Consensus pattern (25 bp):
TAAAAGAAATAAAAAAAAGGAAACG
Found at i:17782784 original size:17 final size:17
Alignment explanation
Indices: 17782746--17782784 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17782736 ATTTGAATTG
17782746 TGAATTGAAAGTGATAT
1 TGAATTGAAAGTGATAT
*
17782763 AGAATTGAGAAGTGA-AT
1 TGAATTGA-AAGTGATAT
17782780 TGAAT
1 TGAAT
17782785 ACCCTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.31
Consensus pattern (17 bp):
TGAATTGAAAGTGATAT
Found at i:17783125 original size:18 final size:18
Alignment explanation
Indices: 17783102--17783140 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17783092 TTGAAAAAAA
17783102 AAATT-GAATTATGAATAG
1 AAATTGGAATTATG-ATAG
*
17783120 AAATTGGAATTGTGATAG
1 AAATTGGAATTATGATAG
17783138 AAA
1 AAA
17783141 GAGAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (18 bp):
AAATTGGAATTATGATAG
Found at i:17784640 original size:46 final size:46
Alignment explanation
Indices: 17784539--17784668 Score: 194
Period size: 43 Copynumber: 2.9 Consensus size: 46
17784529 GAGGGGGTGT
*
17784539 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTTCTAA
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAA
* * *
17784585 TAAGATATTA-TA-G-GATATTATCTCTTACCAATTTGATTCCTAA
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAA
*
17784628 TAGGATATTATTATGAGATATTATATTTTAGCAATTTGATT
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATT
17784669 TCTATGCAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 36 0.49
44 3 0.04
45 3 0.04
46 31 0.42
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (46 bp):
TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAA
Found at i:17784850 original size:42 final size:42
Alignment explanation
Indices: 17784784--17784878 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
17784774 AAGAAATATA
* *
17784784 TATTATTTTATACAATAGCATGAAATGCATGGAATGATTAAT
1 TATTATATTATACAATAGCATGAAATGCATGGAAAGATTAAT
* *
17784826 TTTTATATTATACAATGGCATGAAATGCATGGAAAGATTAAT
1 TATTATATTATACAATAGCATGAAATGCATGGAAAGATTAAT
*
17784868 TATTATGTTAT
1 TATTATATTAT
17784879 TACAGTATAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (42 bp):
TATTATATTATACAATAGCATGAAATGCATGGAAAGATTAAT
Found at i:17788304 original size:101 final size:102
Alignment explanation
Indices: 17788128--17788333 Score: 405
Period size: 101 Copynumber: 2.0 Consensus size: 102
17788118 AATTTTCAGC
17788128 TATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAACTTCAT
1 TATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAACTTCAT
17788193 ATTTCATCCATTTAATTCTTTAATACAAAAGACATGA
66 ATTTCATCCATTTAATTCTTTAATACAAAAGACATGA
17788230 TATGATGAACAAAGATGGACAAAACTTTGTTC-TTTCACCCCTTTTTCTTTTAATAAAACTTCAT
1 TATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAACTTCAT
17788294 ATTTCATCCATTTAATTCTTTAATACAAAAGACATGA
66 ATTTCATCCATTTAATTCTTTAATACAAAAGACATGA
17788331 TAT
1 TAT
17788334 TCTTATCATG
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 72 0.69
102 32 0.31
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.39
Consensus pattern (102 bp):
TATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAACTTCAT
ATTTCATCCATTTAATTCTTTAATACAAAAGACATGA
Found at i:17788374 original size:26 final size:26
Alignment explanation
Indices: 17788336--17788419 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
17788326 CATGATATTC
* *
17788336 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
17788362 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
17788388 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
17788414 TTATCA
1 TTATCA
17788420 ATTTGTATCA
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:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:17791396 original size:18 final size:18
Alignment explanation
Indices: 17791361--17791398 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17791351 GTAAGTTTGC
*
17791361 ATATGATATTGATTCTGT
1 ATATGATATTGATACTGT
17791379 ATATGATA-TGCATACTGT
1 ATATGATATTG-ATACTGT
17791397 AT
1 AT
17791399 CGGCTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (18 bp):
ATATGATATTGATACTGT
Found at i:17796638 original size:46 final size:45
Alignment explanation
Indices: 17796588--17796716 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 45
17796578 GGTGTTAGGT
17796588 TATTATTATGAGATATTATCTTTGAGCAATTTGATTTCTAATAAGA
1 TATTATTATGAGATATTATCTTT-AGCAATTTGATTTCTAATAAGA
* *
17796634 TATTA-TA-G-GATATTATCTCTTAGCAATTTGATTCCTAATATGA
1 TATTATTATGAGATATTATCT-TTAGCAATTTGATTTCTAATAAGA
* * *
17796677 TATTATTATGAGATATTATATTTTACCAATTTTATTTCTA
1 TATTATTATGAGATATTAT-CTTTAGCAATTTGATTTCTA
17796717 CGCAACTACT
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 35 0.49
44 5 0.07
45 3 0.04
46 28 0.39
47 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (45 bp):
TATTATTATGAGATATTATCTTTAGCAATTTGATTTCTAATAAGA
Found at i:17798577 original size:32 final size:32
Alignment explanation
Indices: 17798536--17798600 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
17798526 TTGTAACAAA
17798536 TTACTCGATGCGCTTTGTAATTGGTCTCTTTC
1 TTACTCGATGCGCTTTGTAATTGGTCTCTTTC
17798568 TTACTCGATGCGCTTTGTAATTGGTCTCTTTC
1 TTACTCGATGCGCTTTGTAATTGGTCTCTTTC
17798600 T
1 T
17798601 AAGTGTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (32 bp):
TTACTCGATGCGCTTTGTAATTGGTCTCTTTC
Found at i:17798713 original size:2 final size:2
Alignment explanation
Indices: 17798706--17798736 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17798696 TTCTTTGTCA
17798706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17798737 CCATTAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17798844 original size:22 final size:22
Alignment explanation
Indices: 17798816--17798858 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17798806 AAGAAATAAA
17798816 TATTATATTATACAATAGCATT
1 TATTATATTATACAATAGCATT
*
17798838 TATTATATTATACAATGGCAT
1 TATTATATTATACAATAGCAT
17798859 GAAATGCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
TATTATATTATACAATAGCATT
Found at i:17798895 original size:42 final size:42
Alignment explanation
Indices: 17798837--17798925 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
17798827 ACAATAGCAT
*
17798837 TTATTATATTATACAATGGCATGAAATGCATGGAATGATTAA
1 TTATTATATTATACAATAGCATGAAATGCATGGAATGATTAA
*
17798879 TTATTATATTATACAATAGCATGAAATGCATGGGATGATTAA
1 TTATTATATTATACAATAGCATGAAATGCATGGAATGATTAA
17798921 TTATT
1 TTATT
17798926 CTGTTATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (42 bp):
TTATTATATTATACAATAGCATGAAATGCATGGAATGATTAA
Found at i:17799330 original size:31 final size:32
Alignment explanation
Indices: 17799278--17799352 Score: 125
Period size: 31 Copynumber: 2.3 Consensus size: 32
17799268 GATATTATTA
*
17799278 TAAGATATTATCTTTTAGCAATTTGATTTCTAT
1 TAAGATATTATC-TTTAGCAATTTAATTTCTAT
17799311 TAAGATATTATC-TTAGCAATTTAATTTCTAT
1 TAAGATATTATCTTTAGCAATTTAATTTCTAT
17799342 TAAGATATTAT
1 TAAGATATTAT
17799353 AAGATACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 29 0.71
33 12 0.29
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (32 bp):
TAAGATATTATCTTTAGCAATTTAATTTCTAT
Found at i:17799375 original size:43 final size:45
Alignment explanation
Indices: 17799321--17799430 Score: 134
Period size: 43 Copynumber: 2.5 Consensus size: 45
17799311 TAAGATATTA
17799321 TCTTAGCAATTTAATTTCTATTAAGATATTAT-A-AGATACTATC
1 TCTTAGCAATTTAATTTCTATTAAGATATTATAAGAGATACTATC
* * * **
17799364 TCTTAGCAATTTGATTCCTAATAAGATATTATAATGAGATTTTATC
1 TCTTAGCAATTTAATTTCTATTAAGATATTATAA-GAGATACTATC
* *
17799410 TTTTAGCAATTTCATTTCTAT
1 TCTTAGCAATTTAATTTCTAT
17799431 GCAACTACTA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
43 29 0.53
44 1 0.02
46 25 0.45
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (45 bp):
TCTTAGCAATTTAATTTCTATTAAGATATTATAAGAGATACTATC
Found at i:17804378 original size:13 final size:13
Alignment explanation
Indices: 17804360--17804393 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
17804350 ACAAATTATT
17804360 ATTATTATTTTAC
1 ATTATTATTTTAC
*
17804373 ATTATTATTTTAT
1 ATTATTATTTTAC
17804386 ATTATTAT
1 ATTATTAT
17804394 ATCTTACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:17804392 original size:16 final size:17
Alignment explanation
Indices: 17804303--17804393 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 17
17804293 ACATTATAAA
*
17804303 ATTATT-TTACTATATAT
1 ATTATTATTATTAT-TAT
17804320 ATTATTATTATTTATTAT
1 ATTATTATTA-TTATTAT
* * * *
17804338 A-TCTTATTGTTCA-CAA
1 ATTATTATTATT-ATTAT
*
17804354 ATTATTATTATTATTTT
1 ATTATTATTATTATTAT
*
17804371 A-CATTATTATT-TTAT
1 ATTATTATTATTATTAT
17804386 ATTATTAT
1 ATTATTAT
17804394 ATCTTACTTG
Statistics
Matches: 55, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
15 4 0.07
16 19 0.35
17 22 0.40
18 7 0.13
19 3 0.05
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (17 bp):
ATTATTATTATTATTAT
Found at i:17804949 original size:2 final size:2
Alignment explanation
Indices: 17804909--17804935 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17804899 CTCATTTCAT
17804909 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17804936 CATGTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17805076 original size:32 final size:29
Alignment explanation
Indices: 17805013--17805069 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
17805003 GTAGTACTCT
*
17805013 TTTTTGTATGTCATGCATTATTTTATTAC
1 TTTTTGTATATCATGCATTATTTTATTAC
* *
17805042 TTTTTGTATATCATGTATTATTTAATTA
1 TTTTTGTATATCATGCATTATTTTATTA
17805070 TTACTTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.60
Consensus pattern (29 bp):
TTTTTGTATATCATGCATTATTTTATTAC
Done.