Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 49 of 79
Found at i:16382399 original size:22 final size:22
Alignment explanation
Indices: 16382374--16382424 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
16382364 TCTCAATTTC
16382374 CTCTCAATTTCCATCCAAAATT
1 CTCTCAATTTCCATCCAAAATT
*
16382396 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCATCCAAAATT
16382418 CTCTCAA
1 CTCTCAA
16382425 ATCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCTCAATTTCCATCCAAAATT
Found at i:16382522 original size:14 final size:15
Alignment explanation
Indices: 16382493--16382526 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16382483 AAATTTTAAA
16382493 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
16382508 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
16382522 TTTTA
1 TTTTA
16382527 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:16383494 original size:7 final size:7
Alignment explanation
Indices: 16383482--16383506 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16383472 AGTCGATTGA
16383482 TATTTAG
1 TATTTAG
16383489 TATTTAG
1 TATTTAG
16383496 TATTTAG
1 TATTTAG
16383503 TATT
1 TATT
16383507 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:16384184 original size:18 final size:18
Alignment explanation
Indices: 16384158--16384192 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16384148 AGGTGCGTTT
*
16384158 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
16384176 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
16384193 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:16384672 original size:43 final size:45
Alignment explanation
Indices: 16384615--16384700 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 45
16384605 ATATTTTGAA
* * *
16384615 TATTTTGATTTTATTTTATGTAA-ACAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
16384658 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
16384701 TGTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 21 0.57
44 11 0.30
45 5 0.14
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:16384702 original size:25 final size:25
Alignment explanation
Indices: 16384668--16384780 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 25
16384658 TATTTTGATA
16384668 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
16384693 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* ***
16384718 TT-TTTCGA-GT--T--ATTTTCA-T
1 TTATTT-GATGTAATAAAATAGAAGT
* *
16384737 ATTATTTGATGTAATAAAACATAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
16384763 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
16384781 ACCCTAACCT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.01
20 7 0.10
21 5 0.07
22 1 0.01
23 1 0.01
24 5 0.07
25 49 0.70
26 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:16384739 original size:70 final size:69
Alignment explanation
Indices: 16384624--16384780 Score: 253
Period size: 70 Copynumber: 2.3 Consensus size: 69
16384614 ATATTTTGAT
* * * *
16384624 TTTATTTTATGTAA-ACAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTTATTTGATGTAATAAAATAGAAATTTTTTGAGTTATTTTCATATTATTTGATGTAATAAAACA
16384688 GAAG
66 GAAG
16384692 TTTATTTGATGTAATAAAATAGAAATTTTTTCGAGTTATTTTCATATTATTTGATGTAATAAAAC
1 TTTATTTGATGTAATAAAATAGAAATTTTTT-GAGTTATTTTCATATTATTTGATGTAATAAAAC
*
16384757 ATAAG
65 AGAAG
16384762 TTTATTTGATGTAATAAAA
1 TTTATTTGATGTAATAAAA
16384781 ACCCTAACCT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
68 13 0.16
69 15 0.18
70 54 0.66
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (69 bp):
TTTATTTGATGTAATAAAATAGAAATTTTTTGAGTTATTTTCATATTATTTGATGTAATAAAACA
GAAG
Found at i:16384806 original size:23 final size:23
Alignment explanation
Indices: 16384776--16384835 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
16384766 TTTGATGTAA
16384776 TAAAAACCCTAACCTAATTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
*
16384800 T-TAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
16384822 TAAAAACCCTAACC
1 TAAAAACCCTAACC
16384836 CTAACCCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 2 0.06
23 30 0.91
24 1 0.03
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:16384872 original size:30 final size:30
Alignment explanation
Indices: 16384796--16384873 Score: 77
Period size: 35 Copynumber: 2.4 Consensus size: 30
16384786 AACCTAATTT
* *
16384796 AACTTTAAACCCTAACCTAATTTAATTAAA
1 AACTATAAACCCTAACCTAATTCAATTAAA
16384826 AACCCTA-ACCCTAACCCTAACCTAATTCAATTAAA
1 AA--CTATA----AACCCTAACCTAATTCAATTAAA
16384861 AACTATAAACCCT
1 AACTATAAACCCT
16384874 TAACTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
30 8 0.21
31 1 0.03
32 2 0.05
33 3 0.08
34 1 0.03
35 24 0.62
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (30 bp):
AACTATAAACCCTAACCTAATTCAATTAAA
Found at i:16384904 original size:23 final size:23
Alignment explanation
Indices: 16384842--16384952 Score: 122
Period size: 23 Copynumber: 4.9 Consensus size: 23
16384832 AACCCTAACC
*
16384842 CTAACCTAATTCAATTAAAAACT
1 CTAACCTAATTTAATTAAAAACT
* *
16384865 ATAAACC---CTTAACTTAAAAACT
1 CT-AACCTAATTTAA-TTAAAAACT
* *
16384887 CTAACCTAATTTAATTAAATACC
1 CTAACCTAATTTAATTAAAAACT
16384910 CTAACCTAATTTAATTAAAAAC-
1 CTAACCTAATTTAATTAAAAACT
16384932 CTTAACCTAATTTAATTAAAA
1 C-TAACCTAATTTAATTAAAA
16384953 TAGAAATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
21 7 0.09
22 11 0.15
23 48 0.65
24 8 0.11
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (23 bp):
CTAACCTAATTTAATTAAAAACT
Found at i:16385013 original size:25 final size:25
Alignment explanation
Indices: 16384979--16385091 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 25
16384969 TATTTTGATA
16384979 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
16385004 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* ***
16385029 TT-TTTCGA-GT--T--ATTTTCA-T
1 TTATTT-GATGTAATAAAATAGAAGT
* *
16385048 ATTATTTGATGTAATAAAACATAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
16385074 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
16385092 ACCCTAACCT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.01
20 7 0.10
21 5 0.07
22 1 0.01
23 1 0.01
24 5 0.07
25 49 0.70
26 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:16385060 original size:70 final size:69
Alignment explanation
Indices: 16384948--16385091 Score: 252
Period size: 70 Copynumber: 2.1 Consensus size: 69
16384938 CTAATTTAAT
* *
16384948 TAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGAT
1 TAAAATAGAAATTTTTTGAGTTATTTTCATATTATTTGATGTAATAAAACAGAAGTTTATTTGAT
16385013 GTAA
66 GTAA
*
16385017 TAAAATAGAAATTTTTTCGAGTTATTTTCATATTATTTGATGTAATAAAACATAAGTTTATTTGA
1 TAAAATAGAAATTTTTT-GAGTTATTTTCATATTATTTGATGTAATAAAACAGAAGTTTATTTGA
16385082 TGTAA
65 TGTAA
16385087 TAAAA
1 TAAAA
16385092 ACCCTAACCT
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 17 0.24
70 54 0.76
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (69 bp):
TAAAATAGAAATTTTTTGAGTTATTTTCATATTATTTGATGTAATAAAACAGAAGTTTATTTGAT
GTAA
Found at i:16385117 original size:23 final size:23
Alignment explanation
Indices: 16385087--16385188 Score: 124
Period size: 23 Copynumber: 4.5 Consensus size: 23
16385077 TTTGATGTAA
16385087 TAAAAACCCTAACCTAATTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
*
16385111 T-TAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
16385133 TAAAAACCCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
16385154 TTAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
16385177 TAAAAACCCTAA
1 TAAAAACCCTAA
16385189 ACCTTAACTT
Statistics
Matches: 67, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
20 8 0.12
21 10 0.15
22 2 0.03
23 38 0.57
24 9 0.13
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:16385161 original size:21 final size:21
Alignment explanation
Indices: 16385128--16385199 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
16385118 CTAACCTAAT
16385128 TTAA-TTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAAACC
*
16385148 TTAACTTTAAAACCCT-AACC
1 TTAACTTAAAAACCCTAAACC
16385168 TAATTTAA-TTAAAAACCCTAAACC
1 ----TTAACTTAAAAACCCTAAACC
16385192 TTAACTTA
1 TTAACTTA
16385200 TATAATTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
20 12 0.28
21 13 0.30
23 10 0.23
24 8 0.19
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.31
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:16385168 original size:44 final size:43
Alignment explanation
Indices: 16385105--16385198 Score: 179
Period size: 44 Copynumber: 2.2 Consensus size: 43
16385095 CTAACCTAAT
16385105 TTAACTTTAAACCCTAACCTAATTTAATTAAAAACCCTAAACC
1 TTAACTTTAAACCCTAACCTAATTTAATTAAAAACCCTAAACC
16385148 TTAACTTTAAAACCCTAACCTAATTTAATTAAAAACCCTAAACC
1 TTAACTTT-AAACCCTAACCTAATTTAATTAAAAACCCTAAACC
16385192 TTAACTT
1 TTAACTT
16385199 ATATAATTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 8 0.16
44 42 0.84
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (43 bp):
TTAACTTTAAACCCTAACCTAATTTAATTAAAAACCCTAAACC
Found at i:16385453 original size:37 final size:37
Alignment explanation
Indices: 16385412--16385580 Score: 96
Period size: 37 Copynumber: 4.4 Consensus size: 37
16385402 GTTTTGACTG
16385412 TTACTAACAATTAATAATTTTATATAATTTGATAATT
1 TTACTAACAATTAATAATTTTATATAATTTGATAATT
* *
16385449 TTACTAATC-ATTAATACAATTTT-TA-GAGTTGATAATT
1 TTACTAA-CAATTAAT--AATTTTATATAATTTGATAATT
* * ** * * * * *
16385486 TTACATTCACATAATGTTAGATTTGGA-AAAATGTT-TTCACTG
1 TTAC--TAACA-ATTAATA-ATTT-TATATAAT-TTGAT-AATT
*
16385528 GTACTAACAATTAATAATTTTATATAATTTGATAATT
1 TTACTAACAATTAATAATTTTATATAATTTGATAATT
*
16385565 TTACTAACCATTAATA
1 TTACTAACAATTAATA
16385581 CAATTTTTTG
Statistics
Matches: 93, Mismatches: 24, Indels: 30
0.63 0.16 0.20
Matches are distributed among these distances:
37 46 0.49
38 14 0.15
39 16 0.17
40 8 0.09
41 2 0.02
42 7 0.08
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (37 bp):
TTACTAACAATTAATAATTTTATATAATTTGATAATT
Found at i:16385464 original size:116 final size:116
Alignment explanation
Indices: 16385197--16385598 Score: 628
Period size: 116 Copynumber: 3.4 Consensus size: 116
16385187 AAACCTTAAC
16385197 TTATATAATTTGATAATTTTACTAACCATTAATAC-ATTTTTTG-CTTGTTAATAATTTTACATT
1 TTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC---TTAATAATTTTACATT
* ** * *
16385260 CACATAATGTTAGATTTGGAAAAATATTTTGGTTTTTTACTAACAATTAATATTT
63 CACATAATGTTAGATTTGGAAAAATGTTTT-GACTGTTACTAACAATTAATAATT
*
16385315 TTATATAATTTGATAATTTTACTATCCATTAATACAATTTTTTGACTTAATAATTTTACATTCAC
1 TTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCAC
*
16385380 GTAATGTTAGATTTGGAAAAATGTTTTGACTGTTACTAACAATTAATAATT
66 ATAATGTTAGATTTGGAAAAATGTTTTGACTGTTACTAACAATTAATAATT
* * * *
16385431 TTATATAATTTGATAATTTTACTAATCATTAATACAATTTTTAGAGTTGATAATTTTACATTCAC
1 TTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCAC
* *
16385496 ATAATGTTAGATTTGGAAAAATGTTTTCACTGGTACTAACAATTAATAATT
66 ATAATGTTAGATTTGGAAAAATGTTTTGACTGTTACTAACAATTAATAATT
*
16385547 TTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAGTTAATA
1 TTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATA
16385599 CAATTTATCA
Statistics
Matches: 264, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
116 177 0.67
117 44 0.17
118 34 0.13
119 8 0.03
120 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.47
Consensus pattern (116 bp):
TTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCAC
ATAATGTTAGATTTGGAAAAATGTTTTGACTGTTACTAACAATTAATAATT
Found at i:16385615 original size:17 final size:18
Alignment explanation
Indices: 16385574--16385615 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16385564 TTTACTAACC
* *
16385574 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
16385592 GTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
16385609 ATTAATA
1 ATTAATA
16385616 ATTGCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:16388412 original size:126 final size:126
Alignment explanation
Indices: 16388187--16388540 Score: 573
Period size: 126 Copynumber: 2.8 Consensus size: 126
16388177 CCCAAACATG
*
16388187 CTACTATAGCAACAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
16388252 TAGAAGCAATTTTATACTATTTTCTCAAAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAAATATTTCTTCCGTGAC
* * *
16388313 CTACTGTAGCAAAAACGCGTCCACGAGTGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
16388378 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAAATGTTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAAATATTTCTTCCGTGAC
* * * *
16388439 ATACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCCCAAATAGCATCCTAC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
16388504 TAGAAGCGATTTTATACTATTTGATCAGAAAAGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
16388541 CTCGAAATTA
Statistics
Matches: 210, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 210 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (126 bp):
CTACTATAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAAATATTTCTTCCGTGAC
Found at i:16400466 original size:2 final size:2
Alignment explanation
Indices: 16400461--16400489 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16400451 GCATATATCG
16400461 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 A
16400490 AAAGGTAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16408815 original size:19 final size:20
Alignment explanation
Indices: 16408791--16408829 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16408781 ATAACTACTC
16408791 ACATTAAG-TTACATATTTA
1 ACATTAAGTTTACATATTTA
*
16408810 ACATTATGTTTTACATATTT
1 ACATTAAG-TTTACATATTT
16408830 TTTCTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
ACATTAAGTTTACATATTTA
Found at i:16412015 original size:28 final size:28
Alignment explanation
Indices: 16411975--16412063 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
16411965 TGTGCCCTAT
* *
16411975 TTTTTTAGATTTTACAGTTTTA-CACATG
1 TTTTTCAGATTTTACAGTTTTATC-CATA
* *
16412003 TTTTTCAGATTTTACATTTTTATCCTTA
1 TTTTTCAGATTTTACAGTTTTATCCATA
* * *
16412031 TTTTTCAAATTTTATAGTTTTGACCCATA
1 TTTTTCAGATTTTACAGTTTT-ATCCATA
16412060 TTTT
1 TTTT
16412064 ATGTTTTGAC
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
28 40 0.80
29 10 0.20
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTTTCAGATTTTACAGTTTTATCCATA
Found at i:16420004 original size:28 final size:28
Alignment explanation
Indices: 16419891--16420041 Score: 148
Period size: 28 Copynumber: 5.4 Consensus size: 28
16419881 TTTTTTAAAG
* *
16419891 TTTATAGTTTTTCCCATATTTCTCAGA-
1 TTTACAGTTTTTCCCATATTTTTCAGAT
* * *
16419918 TTTATAGTTTTTCCC-TATTTCTCATAT
1 TTTACAGTTTTTCCCATATTTTTCAGAT
* * *
16419945 TTTATAGTTTTGCCCCTATTTTTTCTA-AT
1 TTTACAGTTTTTCCCATA-TTTTTC-AGAT
* *
16419974 TTTACAATTTTTCCCATGTTTTT-ATGAT
1 TTTACAGTTTTTCCCATATTTTTCA-GAT
*
16420002 TTTACAGTTTTTCCCCTATTTTTCAGAT
1 TTTACAGTTTTTCCCATATTTTTCAGAT
16420030 TTTACAGTTTTT
1 TTTACAGTTTTT
16420042 TTCTCCTGCT
Statistics
Matches: 106, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.10
27 29 0.27
28 44 0.42
29 21 0.20
30 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTACAGTTTTTCCCATATTTTTCAGAT
Found at i:16420766 original size:84 final size:86
Alignment explanation
Indices: 16420599--16420766 Score: 223
Period size: 84 Copynumber: 2.0 Consensus size: 86
16420589 AAAAAAAGTG
* * * * *
16420599 GTGGCTCATCCATGAAACCTAGTGATAGTTTGTTTTATCCGCAAATATGTTGTGTACTCACAACA
1 GTGGCTCATCCATGAAACCCAGTGACAGTTTGTTTAATCCGCAAACATGTTGTGCACTCACAACA
* *
16420664 AGTGACAATAATTGCAAATAT
66 AGTGACAATAACTACAAATAT
* *
16420685 GTGGCTCATCCAT-AAACCCAGTG-CAGTTTGTTTAATCTGCAACCATGTTGTGCACTCACAACA
1 GTGGCTCATCCATGAAACCCAGTGACAGTTTGTTTAATCCGCAAACATGTTGTGCACTCACAACA
**
16420748 AGTGGTAATAACTACAAAT
66 AGTGACAATAACTACAAAT
16420767 GCTGTTATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 49 0.69
85 9 0.13
86 13 0.18
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (86 bp):
GTGGCTCATCCATGAAACCCAGTGACAGTTTGTTTAATCCGCAAACATGTTGTGCACTCACAACA
AGTGACAATAACTACAAATAT
Found at i:16422567 original size:17 final size:17
Alignment explanation
Indices: 16422547--16422593 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
16422537 ATCAACATAT
16422547 TTCAT-TTGATATTTAAG
1 TTCATATTGA-ATTTAAG
16422564 TTCATATTGAATTTAA-
1 TTCATATTGAATTTAAG
*
16422580 TT-ATATTAAATTTA
1 TTCATATTGAATTTA
16422594 GATGCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
17 11 0.39
18 4 0.14
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
TTCATATTGAATTTAAG
Found at i:16424135 original size:21 final size:21
Alignment explanation
Indices: 16424109--16424148 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16424099 TTTTACATAA
* *
16424109 TTATAATTTTACAAAATAATT
1 TTATAATTTCAAAAAATAATT
16424130 TTATAATTTCAAAAAATAA
1 TTATAATTTCAAAAAATAA
16424149 ATACCGAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATAATTTCAAAAAATAATT
Found at i:16431102 original size:42 final size:42
Alignment explanation
Indices: 16430998--16431105 Score: 162
Period size: 42 Copynumber: 2.6 Consensus size: 42
16430988 CGACCAAGTT
**
16430998 ACACGCTCGTGTGCCAGGCCACGTACCCTTCGAAGTAATCCC
1 ACACGCTCGTGTGCCAGGCCGTGTACCCTTCGAAGTAATCCC
* * *
16431040 ACACGCTCATGCGCCAGGCCGTGTACCCTTCGAAGTAATTCC
1 ACACGCTCGTGTGCCAGGCCGTGTACCCTTCGAAGTAATCCC
*
16431082 ACACGCCCGTGTGCCAGGCCGTGT
1 ACACGCTCGTGTGCCAGGCCGTGT
16431106 GCTAGGTCGT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.19, C:0.37, G:0.24, T:0.19
Consensus pattern (42 bp):
ACACGCTCGTGTGCCAGGCCGTGTACCCTTCGAAGTAATCCC
Found at i:16442266 original size:45 final size:45
Alignment explanation
Indices: 16442173--16442354 Score: 201
Period size: 45 Copynumber: 4.1 Consensus size: 45
16442163 AACAGATACA
* * * * *
16442173 CGGTGG-ATCATCACATAAC-ACCACCCTTATAGTCAAT-GATACT
1 CGGTGGAATCAGCACACAACAACCACCTTTATAATCAATAG-TACC
* * *
16442216 CGGTGGAATCAGCACATAGA-AACCACCTTCAGAATCAATAGTACC
1 CGGTGGAATCAGCACACA-ACAACCACCTTTATAATCAATAGTACC
* *
16442261 TGGTGGAATCAGCACACAACAACCACCTTTATAATCAATAATACC
1 CGGTGGAATCAGCACACAACAACCACCTTTATAATCAATAGTACC
* * *
16442306 CGGTGGAATTAGCACACAACAACCACCTTTATAATCAATGGTACT
1 CGGTGGAATCAGCACACAACAACCACCTTTATAATCAATAGTACC
16442351 CGGT
1 CGGT
16442355 ACACGTAGTA
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
43 6 0.05
44 11 0.09
45 100 0.85
46 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (45 bp):
CGGTGGAATCAGCACACAACAACCACCTTTATAATCAATAGTACC
Found at i:16444018 original size:24 final size:24
Alignment explanation
Indices: 16443991--16444036 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16443981 TGCGCACCAA
* *
16443991 TATATGAAATCCCTTTAGGGGTAG
1 TATATGAAAGCCCTTTAAGGGTAG
16444015 TATATGAAAGCCCTTTAAGGGT
1 TATATGAAAGCCCTTTAAGGGT
16444037 GGTAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (24 bp):
TATATGAAAGCCCTTTAAGGGTAG
Found at i:16449948 original size:22 final size:21
Alignment explanation
Indices: 16449923--16449966 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
16449913 TGATAAAAAT
16449923 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
16449945 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
16449966 T
1 T
16449967 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:16452131 original size:50 final size:49
Alignment explanation
Indices: 16452072--16452254 Score: 186
Period size: 50 Copynumber: 3.7 Consensus size: 49
16452062 TTCAATATAT
* *
16452072 GTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCAGTTCAC
1 GTAGTAGCCTGCACATAGTACTACACACGTGATCAAAC-TTTCGGTTCAC
* * * *
16452122 GTAGTAGCCTGCGCATAGTACTACACACGTGATCGAAGCTATCTGGTTCGC
1 GTAGTAGCCTGCACATAGTACTACACACGTGATC-AAACTTTC-GGTTCAC
* * * * *** * *
16452173 ATAGTAGCCTGCACATAGTACTACACATGCGACCTTTCATTCCGGTACAC
1 GTAGTAGCCTGCACATAGTACTACACACGTGATCAAAC-TTTCGGTTCAC
*
16452223 GTAGTAGCCTACACATAGTACTACACACGTGA
1 GTAGTAGCCTGCACATAGTACTACACACGTGA
16452255 CCATCACTTT
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
50 69 0.64
51 39 0.36
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
GTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTTTCGGTTCAC
Found at i:16457769 original size:50 final size:50
Alignment explanation
Indices: 16457690--16457929 Score: 218
Period size: 50 Copynumber: 4.8 Consensus size: 50
16457680 TTAAGGGAAT
* * * **
16457690 GAGGTCTCATGTAAGACTATGTCTAGGACATGGCATTGGCACTGAGATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATAA
* * *
16457740 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATAA
** * *
16457790 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGACACCAATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCAAGATAA
** * * * * *
16457840 GAACTCGCATGTAAGATCATATCTGGGACATGACATTGGGACTACAAGA-AA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC--CAAGATAA
* * * *
16457891 CA--TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16457930 TGTTATATTC
Statistics
Matches: 155, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 32 0.21
50 114 0.74
51 5 0.03
52 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATAA
Found at i:16465219 original size:50 final size:50
Alignment explanation
Indices: 16465160--16465280 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 50
16465150 AATGAGGTCA
* *
16465160 CATGTAAGACCATGTCTGGGAAATGGCGTTGG-CACCGAGATAAG-ACGTCC
1 CATGTAAGACCATGTCTGGGAAATGGC-ATGGACACCAAGATAAGAAC-TCC
* ** *
16465210 CATGTAAGACCATGTCTGGGACATGGCATGGACACCAATTTGAGAACTCC
1 CATGTAAGACCATGTCTGGGAAATGGCATGGACACCAAGATAAGAACTCC
*
16465260 CATGTAAGACCATATCTGGGA
1 CATGTAAGACCATGTCTGGGA
16465281 TATGTCATTG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 3 0.05
50 57 0.92
51 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGAAATGGCATGGACACCAAGATAAGAACTCC
Found at i:16466959 original size:28 final size:25
Alignment explanation
Indices: 16466928--16466988 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
16466918 TATCAAAATC
16466928 AAAATCAAAAACAAAAAAGAAAAAAGAA
1 AAAATCAAAAAC--AAAAGAAAAAAG-A
**
16466956 AAAATCAAAGTCAAAAGAAAAAAGA
1 AAAATCAAAAACAAAAGAAAAAAGA
*
16466981 GAAATCAA
1 AAAATCAA
16466989 TTAAAGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 8 0.27
26 12 0.40
28 10 0.33
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.07
Consensus pattern (25 bp):
AAAATCAAAAACAAAAGAAAAAAGA
Found at i:16467005 original size:29 final size:26
Alignment explanation
Indices: 16466942--16467015 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 26
16466932 TCAAAAACAA
16466942 AAAAGAAAAAAGAAAAAATCAAAGTC
1 AAAAGAAAAAAGAAAAAATCAAAGTC
*
16466968 AAAAGAAAAAAGAGAAATCAATTAAAGTC
1 AAAAGAAAAAAGA-AAA--AATCAAAGTC
*
16466997 AAAATAAAAATATGAAAAA
1 AAAAGAAAAA-A-GAAAAA
16467016 GAGAAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 13 0.32
27 3 0.07
28 1 0.02
29 18 0.44
30 4 0.10
31 2 0.05
ACGTcount: A:0.72, C:0.05, G:0.11, T:0.12
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAATCAAAGTC
Found at i:16467852 original size:14 final size:15
Alignment explanation
Indices: 16467825--16467861 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
16467815 ATTTCAAAAA
16467825 AAAAAGGTGAAAAATG
1 AAAAA-GTGAAAAATG
16467841 AAAAAGTG-AAAATG
1 AAAAAGTGAAAAATG
16467855 AAAAAGT
1 AAAAAGT
16467862 ACAAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 3 0.14
16 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.14
Consensus pattern (15 bp):
AAAAAGTGAAAAATG
Found at i:16469185 original size:44 final size:44
Alignment explanation
Indices: 16469137--16469451 Score: 129
Period size: 44 Copynumber: 7.2 Consensus size: 44
16469127 GAGCAGCAGC
* *
16469137 GGAGCAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGT
1 GGAGCAGATTGAAGACTGTAGATCTTATCTCCCTAAGTAGTAGT
** * * * *
16469181 GGAGCAGATCAAAGACGGCAAATCTTATCTTCCCT-AGGAGTAG-
1 GGAGCAGATTGAAGACTGTAGATCTTATC-TCCCTAAGTAGTAGT
* * * *** * * * * * *
16469224 GGAAACAGATTTAAGCCACAAG-CCTTGTCTCCCTGAGCAGCAGC
1 GG-AGCAGATTGAAGACTGTAGATCTTATCTCCCTAAGTAGTAGT
* *
16469268 GGAGCAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGT
1 GGAGCAGATTGAAGACTGTAGATCTTATCTCCCTAAGTAGTAGT
* ** * * * * *
16469312 GGAACAGATCAAAAACGGAAAATCTTATCTTCCCT-AGGAGTAG-
1 GGAGCAGATTGAAGACTGTAGATCTTATC-TCCCTAAGTAGTAGT
* * * * *** * * * * * *
16469355 GGAAACAAATTTAAGCCACAAG-CCTTGTCTCCCTGAGCAGCAGC
1 GG-AGCAGATTGAAGACTGTAGATCTTATCTCCCTAAGTAGTAGT
* * *
16469399 GGAGCAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGATTGAAGACTGTAGATCTTATCTCCCTAAGTAGTAGT
*
16469443 GGAGTAGAT
1 GGAGCAGAT
16469452 CAAAGACGAC
Statistics
Matches: 189, Mismatches: 72, Indels: 20
0.67 0.26 0.07
Matches are distributed among these distances:
42 10 0.05
43 47 0.25
44 122 0.65
45 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (44 bp):
GGAGCAGATTGAAGACTGTAGATCTTATCTCCCTAAGTAGTAGT
Found at i:16469212 original size:131 final size:131
Alignment explanation
Indices: 16469019--16469605 Score: 847
Period size: 131 Copynumber: 4.5 Consensus size: 131
16469009 ATAAGTTTGG
* * * * * *
16469019 AGATTGCAGATCTTATCTCCCTAAGAAATAGTGGATG--GATCGAAGATGACAAATCTTATCTTC
1 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGA-GCAGATCAAAGACGGCAAATCTTATCTTC
16469082 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTT
65 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTT
16469147 GA
130 GA
*
16469149 AGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTCC
1 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTCC
*
16469214 CTAGGAGTAGGGAAACAGATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTG
66 CCAGGAGTAGGGAAACAGATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTG
16469279 A
131 A
* * * *
16469280 AGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAACAGATCAAAAACGGAAAATCTTATCTTCC
1 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTCC
* *
16469345 CTAGGAGTAGGGAAACAAATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTG
66 CCAGGAGTAGGGAAACAGATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTG
16469410 A
131 A
* *
16469411 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGACAAATCTTATCTTCC
1 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTCC
* ** * * * * **
16469476 TCAGGAGTAGGGAAACAGATTTAAGCCACAATTCTTATGTCCCTGACCAGCAGTGGAATAGGTTG
66 CCAGGAGTAGGGAAACAGATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTT-
16469541 GA
130 GA
** * * * **
16469543 A-ATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTC
1 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTC
16469606 AAGTGTAAGA
Statistics
Matches: 419, Mismatches: 35, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
129 1 0.00
130 32 0.08
131 383 0.91
132 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (131 bp):
AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTCC
CCAGGAGTAGGGAAACAGATTTAAGCCACAAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTG
A
Found at i:16469780 original size:44 final size:43
Alignment explanation
Indices: 16469723--16470048 Score: 180
Period size: 44 Copynumber: 7.7 Consensus size: 43
16469713 GCATCCAGTT
*
16469723 TTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAAAATCAATC
1 TTATCTCCCT-AAGTTGCAGTGGAGCAGACGAAAAACATCAATC
* ** *
16469767 CTATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAACCA-CAGATC
1 TTATCTCCCT-AAGTTGCAGTGGAGCAG-ACGAAAAACATCA-ATC
* ** * *
16469811 TTATCTCCGTAAGCAGTAGTGGAGCAGATC-----ACATCCAGTC
1 TTATCTCCCTAAGTTGCAGTGGAGCAGA-CGAAAAACAT-CAATC
** * *
16469851 TTATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAAAAATCAATC
1 TTATCTCCCTAAGTTGCAGTGGAGCAGACGAAAAACATCAATC
* * ** *
16469893 CTATTTCCCTAAAGTTGCAGTGGAGC-GAATTAAAACCA-CAGATC
1 TTATCTCCCT-AAGTTGCAGTGGAGCAG-ACGAAAAACATCA-ATC
** * *
16469937 TTATCTCCCTAAGCAGTAGTGGAGCAGATCG-----CATCCAGTC
1 TTATCTCCCTAAGTTGCAGTGGAGCAGA-CGAAAAACAT-CAATC
*
16469977 TTATCTCCCTAAGTTGTAGTGGAGCAGACGAAAGAA-ATCAATC
1 TTATCTCCCTAAGTTGCAGTGGAGCAGACGAAA-AACATCAATC
* * *
16470020 CTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TTATCTCCCT-AAGTTGCAGTGGAGCAGA
16470049 TCGCATCAAG
Statistics
Matches: 218, Mismatches: 39, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
39 7 0.03
40 57 0.26
41 4 0.02
42 13 0.06
43 59 0.27
44 78 0.36
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (43 bp):
TTATCTCCCTAAGTTGCAGTGGAGCAGACGAAAAACATCAATC
Found at i:16469853 original size:40 final size:40
Alignment explanation
Indices: 16469809--16470004 Score: 164
Period size: 40 Copynumber: 4.8 Consensus size: 40
16469799 AAACCACAGA
* *
16469809 TCTTATCTCCGTAAGCAGTAGTGGAGCAGATCACATCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAG
*
16469849 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAAAAT-CAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----AAATCCAG
* * ** * * *
16469891 TCCTATTTCCCTAAAGTTGCAGTGGAGC-GAATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAG-A-TCAAATC-CAG
**
16469934 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAG
**
16469975 TCTTATCTCCCTAAGTTGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
16470005 CGAAAGAAAT
Statistics
Matches: 122, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.01
40 57 0.47
41 6 0.05
42 16 0.13
43 31 0.25
44 11 0.09
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAG
Found at i:16469910 original size:126 final size:127
Alignment explanation
Indices: 16469634--16470045 Score: 565
Period size: 126 Copynumber: 3.2 Consensus size: 127
16469624 TGAAGCCGAT
* * * *** * * * **
16469634 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTACCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCCCT-AAGCAG
* * ** * *
16469699 CAGTAGAGTGGATCGCATCCAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAAAATC
65 TAGTGGAGCAGATCGCATCCAGTCTTATCTCCCT-AAGTTGTAGTGGAGCAGACGAAAAAAATC
*
16469763 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCCGTAAGCAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCCCTAAGCAGT
* **
16469828 AGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAAAAATC
66 AGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTTGTAGTGGAGCAGACGAAAAAAATC
* *
16469889 AATCCTATTTCCCTAAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCCCTAAGCAGT
*
16469954 AGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTTGTAGTGGAGCAGACGAAAGAAATC
66 AGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTTGTAGTGGAGCAGACGAAAAAAATC
* *
16470016 AATCCTATCTCTCTGAAGTTGCAGTAGAGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGC
16470046 AGATCGCATC
Statistics
Matches: 250, Mismatches: 32, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
126 120 0.48
127 50 0.20
128 32 0.13
129 48 0.19
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (127 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTTGTAGTGGAGCAGACGAAAAAAATC
Found at i:16475221 original size:39 final size:39
Alignment explanation
Indices: 16475180--16475394 Score: 331
Period size: 39 Copynumber: 5.5 Consensus size: 39
16475170 ATTCACTTTT
* *
16475180 AAGCATATATCACAATACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
16475219 AAGCATATATCACAATATTCATATAATTACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
16475258 AAGCATACATCACAATACTCATATAGTCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
16475297 AAACATATATCATAATACTCATGTAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
16475336 AAGCATACATCACAATACTCATATAATCAAATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
16475375 AAGCATATATCACAATACTC
1 AAGCATATATCACAATACTC
16475395 GAATACATGT
Statistics
Matches: 157, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 157 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:16477389 original size:50 final size:50
Alignment explanation
Indices: 16477272--16477513 Score: 245
Period size: 50 Copynumber: 4.7 Consensus size: 50
16477262 GATAATAACA
* * * * * *
16477272 TGCCAAAGCCATGTCCCAGACATGGTCTTACGTGGGATG-TTTCTTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATATCAG
* * * * *
16477321 TGCCAATGCCATATCCCAGATATGGTCTTACATGGCAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCAG
** * * *
16477371 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCAG
16477421 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATAATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC-A-G
* *
16477476 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
16477514 TCTCATTCCC
Statistics
Matches: 160, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 84 0.52
53 2 0.01
55 1 0.01
56 35 0.22
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCAG
Found at i:16477453 original size:100 final size:105
Alignment explanation
Indices: 16477321--16477510 Score: 273
Period size: 100 Copynumber: 1.8 Consensus size: 105
16477311 TTTCTTGTAC
* * *
16477321 TGCCAATGCCATATCCCAGATATGGTCTTACATGGCAGTTCTCAT-A-TC-A-G-TGCCAACGCC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGCAGCTCTCATAACTCAATGATGCCAACGCC
*
16477381 ATGTCCCAGACATGGTCTTACATGAAACCTCTCATCTCGG
66 ATGTCCCAAACATGGTCTTACATGAAACCTCTCATCTCGG
* * *
16477421 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGCAGCTCTCATAA-CTCAATGATGCCAACGC
16477486 CATGTCCCAAACATGGTCTTACATG
65 CATGTCCCAAACATGGTCTTACATG
16477511 GGATCTCATT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
100 40 0.52
101 1 0.01
103 2 0.03
104 1 0.01
105 1 0.01
106 32 0.42
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (105 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGCAGCTCTCATAACTCAATGATGCCAACGCC
ATGTCCCAAACATGGTCTTACATGAAACCTCTCATCTCGG
Found at i:16480011 original size:51 final size:50
Alignment explanation
Indices: 16479850--16480026 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 50
16479840 AGTGAAAGTG
* *
16479850 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGATATTA
* * * * *
16479900 AAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGCTT-
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAC-GGATA--TTA
* *
16479952 -CGAG-CACGTGTGTAGTACTATGTGCAGGCCACTACGTGTATCGGATATTA
1 ATG-GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGATATTA
*
16480002 ATGGTCACGTGTGTAGTATTATGTG
1 ATGGTCACGTGTGTAGTACTATGTG
16480027 ACTACAAACG
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
49 3 0.03
50 39 0.38
51 58 0.56
52 2 0.02
53 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (50 bp):
ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATATTA
Found at i:16485525 original size:51 final size:50
Alignment explanation
Indices: 16485365--16485542 Score: 162
Period size: 51 Copynumber: 3.5 Consensus size: 50
16485355 AGTGAAAGTG
* * *
16485365 ATGGTCACATGTGTAATACTATGTGTAGACTACTACGTGTACCGGA-ATGA
1 ATGGTCACATGTGTAGTACTATGTGAAG-CTACTACGTGTACCGGATATTA
* * * * * *
16485415 AAGGTCGCATGTGTAGTACTATGTGGAGGCTACTATGCGTACCGGATAGCT-
1 ATGGTCACATGTGTAGTACTATGT-GAAGCTACTACGTGTACCGGATA-TTA
** * * *
16485466 CCGATCACGTGTGTAGTACTATGTACAAGCTACTACGTGTACCGGATATTA
1 ATGGTCACATGTGTAGTACTATGT-GAAGCTACTACGTGTACCGGATATTA
* *
16485517 ATGGTCACGTGTTTAGTACTATGTGA
1 ATGGTCACATGTGTAGTACTATGTGA
16485543 CTACGCACGT
Statistics
Matches: 99, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
50 38 0.38
51 61 0.62
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGAAGCTACTACGTGTACCGGATATTA
Found at i:16494841 original size:50 final size:50
Alignment explanation
Indices: 16494736--16494980 Score: 202
Period size: 50 Copynumber: 4.7 Consensus size: 50
16494726 TTGTACTGCC
* * * ** * * * *
16494736 AATGCCATATCCCAGATATGGTTTTACATGGGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGATGCG
* * **
16494786 CATGCCATGTCCCAGACATGGTCCTACGGGGGACCTCTAATCTCGATGCG
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGATGCG
* * * *
16494836 AATGCCATGTCCTAGAAATGGTCTTACATGGGACCTTTCATCTCGATGTCGATG
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGATG-C---G
* * *
16494890 CCAATTCCATGTCCCAAACATGGTCTTACATGGGACCTTTCATAATCTCAATGATGCC
1 --AATGCCATGTCCCAGACATGGTCTTACATGGGACC--TC-TAATCTC---GATGCG
16494948 AATGCCATGTCCCAGACATGGTCTTACATGGGA
1 AATGCCATGTCCCAGACATGGTCTTACATGGGA
16494981 TCTCATTCCC
Statistics
Matches: 153, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
50 77 0.50
51 1 0.01
54 1 0.01
56 62 0.41
58 1 0.01
59 6 0.04
61 1 0.01
62 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGATGCG
Found at i:16494863 original size:100 final size:106
Alignment explanation
Indices: 16494732--16494980 Score: 267
Period size: 106 Copynumber: 2.3 Consensus size: 106
16494722 TTTATTGTAC
* * * * *
16494732 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGA-GT-TCTC-ATATCGGTGCCCATGCCAT
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGACGTATCTCGATATCGATGCCAATGCCAT
* *
16494794 GTCCCAGACATGGTCCTACGGGGGACC-TC-TAATCTC-GA
66 GTCCCAAACATGGTCCTACAGGGGACCTTCATAATCTCAGA
* * * * *
16494832 TGCGAATGCCATGTCCTAGAAATGGTCTTACATGGGACCTTTCATCTCGATGTCGATGCCAATTC
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGA-C-GT-ATCTCGATATCGATGCCAATGC
* *
16494897 CATGTCCCAAACATGGTCTTACATGGGACCTTTCATAATCTCAATGA
63 CATGTCCCAAACATGGTCCTACAGGGGACC-TTCATAATCTC-A-GA
*
16494944 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGA
16494981 TCTCATTCCC
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
100 32 0.27
103 1 0.01
105 4 0.03
106 38 0.32
108 2 0.02
109 7 0.06
112 36 0.30
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (106 bp):
TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGACGTATCTCGATATCGATGCCAATGCCAT
GTCCCAAACATGGTCCTACAGGGGACCTTCATAATCTCAGA
Found at i:16494889 original size:56 final size:55
Alignment explanation
Indices: 16494732--16494980 Score: 202
Period size: 56 Copynumber: 4.7 Consensus size: 55
16494722 TTTATTGTAC
* * * * *
16494732 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGA---GT---TCTCATATCGG
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTCAATCTCA-ATCGA
* * * ** *
16494782 TGCCCATGCCATGTCCCAGACATGGTCCTACGGGGGACCTCT-AA--TC--TCGA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTCAATCTCAATCGA
* * *
16494832 TGCGAATGCCATGTCCTAGAAATGGTCTTACATGGGACCTTTC-ATCTCGATGTCGA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTCAATCTC-A-ATCGA
*
16494888 TGCCAATTCCATGTCCCA-AACATGGTCTTACATGGGACCTTTCATAATCTCAAT-GA
1 TGCCAATGCCATGTCCCAGAA-ATGGTCTTACATGGGACCTTTC--AATCTCAATCGA
*
16494944 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGA
16494981 TCTCATTCCC
Statistics
Matches: 159, Mismatches: 23, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
50 68 0.43
52 2 0.01
53 3 0.02
55 2 0.01
56 76 0.48
57 2 0.01
58 1 0.01
59 5 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (55 bp):
TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTCAATCTCAATCGA
Found at i:16499211 original size:39 final size:39
Alignment explanation
Indices: 16499167--16499342 Score: 318
Period size: 39 Copynumber: 4.5 Consensus size: 39
16499157 ATTCACTTTT
*
16499167 AAGCATATATCACATTACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
16499206 AAGCATATATCACAATACT-ATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
16499244 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
16499283 AATCGTATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
16499322 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
16499343 AATACAAATT
Statistics
Matches: 131, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
38 38 0.29
39 93 0.71
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:16499253 original size:77 final size:78
Alignment explanation
Indices: 16499167--16499342 Score: 318
Period size: 77 Copynumber: 2.3 Consensus size: 78
16499157 ATTCACTTTT
*
16499167 AAGCATATATCACATTACTCATATAATCACATAACATTCAAGCATATATCACAATACT-ATATAA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
16499231 TCACATAACATTC
66 TCACATAACATTC
* *
16499244 AAGCATATATCACAATACTCATATAATCACATAACATTCAATCGTATATCACAATACTCATATAA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
16499309 TCACATAACATTC
66 TCACATAACATTC
16499322 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
16499343 AATACAAATT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 55 0.58
78 40 0.42
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (78 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
TCACATAACATTC
Found at i:16500101 original size:37 final size:35
Alignment explanation
Indices: 16500060--16500154 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 35
16500050 TGTCACATTT
* * *
16500060 GGCATGTTGAACATGCGAATCAGATAATATCGTGTAG
1 GGCATGTTTAACATGC-AATCAGAT-ATATCCTGCAG
**
16500097 GGCATGTTTTAACATGCAAATTGGATATATCCTGCAG
1 GGCATG-TTTAACATGC-AATCAGATATATCCTGCAG
16500134 GGCATGTTTAACATGCAATCA
1 GGCATGTTTAACATGCAATCA
16500155 AACATCAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
35 3 0.06
36 10 0.20
37 21 0.43
38 15 0.31
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (35 bp):
GGCATGTTTAACATGCAATCAGATATATCCTGCAG
Found at i:16503741 original size:20 final size:20
Alignment explanation
Indices: 16503718--16503755 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16503708 GAGTATAAAT
16503718 AGGGGCACAAAAGTACAATA
1 AGGGGCACAAAAGTACAATA
* *
16503738 AGGGGTACCAAAGTACAA
1 AGGGGCACAAAAGTACAA
16503756 ACAGGGGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGCACAAAAGTACAATA
Found at i:16503761 original size:20 final size:19
Alignment explanation
Indices: 16503703--16503762 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
16503693 GATTTAGAGT
* *
16503703 TACCAGAGTATAAATAGGGG
1 TACCAAAGTACAAA-AGGGG
* *
16503723 CACAAAAGTACAATAAGGGG
1 TACCAAAGTACAA-AAGGGG
16503743 TACCAAAGTACAAACAGGGG
1 TACCAAAGTACAAA-AGGGG
16503763 ACATAAGTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.13
Consensus pattern (19 bp):
TACCAAAGTACAAAAGGGG
Found at i:16512458 original size:45 final size:45
Alignment explanation
Indices: 16512394--16512482 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
16512384 AACAGATACT
* * *
16512394 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGTC
16512439 CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGT
16512483 TCTGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGTC
Found at i:16512587 original size:51 final size:50
Alignment explanation
Indices: 16512489--16512602 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 50
16512479 ATGTTCTGTT
* *
16512489 CACATAGTAGCCTACATATAGTACTACACATGTGACAATTACCATCCGATA
1 CACATAGTAGCCTACACATAGTACTACACAGGTGACAA-TACCATCCGATA
* * *
16512540 CACGTAGTAGCCTACACATAGTACTACACAGGTGATCGAA-ACTATCCGGTA
1 CACATAGTAGCCTACACATAGTACTACACAGGTGA-C-AATACCATCCGATA
*
16512591 CGCATAGTAGCC
1 CACATAGTAGCC
16512603 ATCACTTTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 51 0.94
52 1 0.02
53 2 0.04
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTACACATAGTACTACACAGGTGACAATACCATCCGATA
Found at i:16512869 original size:30 final size:30
Alignment explanation
Indices: 16512833--16512889 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16512823 AGAATCATAC
16512833 TTTCACAAAATTAC-ATTTTTGCCCCTAAAA
1 TTTCACAAAATTACGA-TTTTGCCCCTAAAA
16512863 TTTCACAAAATTACGATTTTGCCCCTA
1 TTTCACAAAATTACGATTTTGCCCCTA
16512890 GCTCGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
TTTCACAAAATTACGATTTTGCCCCTAAAA
Found at i:16519154 original size:45 final size:45
Alignment explanation
Indices: 16519085--16519170 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
16519075 AGATACTAGA
* * *
16519085 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCTGG
1 TGGAATCAGCAAATAGCAACCACCTTACTAATCAATGATGTCTGG
16519130 TGGAATCAGCAAATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCAAATAGCAACCACCTTACTAATCAATGATGT
16519171 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (45 bp):
TGGAATCAGCAAATAGCAACCACCTTACTAATCAATGATGTCTGG
Found at i:16519535 original size:30 final size:30
Alignment explanation
Indices: 16519494--16519550 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
16519484 AAAATAATAC
* *
16519494 TTTCCCAAAATTATGTTTTTGCCCCTAAAG
1 TTTCACAAAATTATGATTTTGCCCCTAAAG
16519524 TTTCACAAAATTATGATTTTGCCCCTA
1 TTTCACAAAATTATGATTTTGCCCCTA
16519551 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTCACAAAATTATGATTTTGCCCCTAAAG
Found at i:16525460 original size:20 final size:20
Alignment explanation
Indices: 16525428--16525483 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
16525418 GATTGCACTA
* *
16525428 CCTCTGATTGCACTTCAGTG
1 CCTCTGTTTGCACTTCAATG
*
16525448 -CTATTGTTTGCACTTCAATG
1 CCT-CTGTTTGCACTTCAATG
16525468 CCTCTGTTTGCACTTC
1 CCTCTGTTTGCACTTC
16525484 GGTGTCTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.14, C:0.29, G:0.16, T:0.41
Consensus pattern (20 bp):
CCTCTGTTTGCACTTCAATG
Found at i:16542443 original size:30 final size:30
Alignment explanation
Indices: 16542407--16542476 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
16542397 ATATGCAGCT
** *
16542407 GTGTCACCTGGCCGTGTGTCACACA-GAACC
1 GTGTCACCTAACCATGTGTCACACATG-ACC
16542437 GTGTCACCTAACCATGTGTCACACATGACC
1 GTGTCACCTAACCATGTGTCACACATGACC
*
16542467 ATGTCACCTA
1 GTGTCACCTA
16542477 GTCGTCTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (30 bp):
GTGTCACCTAACCATGTGTCACACATGACC
Found at i:16542797 original size:30 final size:30
Alignment explanation
Indices: 16542761--16542836 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
16542751 TGGTTGACAC
* **
16542761 ATCCCTTTTCGTAATTCGATAATTGAAGTT
1 ATCCCTTTTCATAATTCGATAACCGAAGTT
* * *
16542791 ATCCCTTTTCATAGTTTGATAGCCGAAGTT
1 ATCCCTTTTCATAATTCGATAACCGAAGTT
16542821 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
16542837 TGATGGCCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAACCGAAGTT
Found at i:16542899 original size:90 final size:90
Alignment explanation
Indices: 16542791--16543069 Score: 325
Period size: 90 Copynumber: 3.1 Consensus size: 90
16542781 AATTGAAGTT
* * * * *
16542791 ATCCCTTTTCATAGTTTGATAGCCGAAGTTATCCCTTTTCATA-ATTTGATGGCCGCCA-CCATC
1 ATCCCTTTTCATAATTTGATAGCAGAAGCTATCCCTTTTCATAGA-TTGATAGCCG-AAGCCATC
* * *
16542854 CCTTTTCATAGTTCAATGGTTGTCACC
64 CCTTTTCATAGTTCGATAGTCGTCACC
* * *
16542881 ATCCCTTTTCATAATTTGATAACAGAAGCTATCCCTTTTTATAGATTGATAGTCGAAGCCATCCC
1 ATCCCTTTTCATAATTTGATAGCAGAAGCTATCCCTTTTCATAGATTGATAGCCGAAGCCATCCC
* *
16542946 TTTTTATAGATT-GATAGTCG-AAGCC
66 TTTTCATAG-TTCGATAGTCGTCA-CC
* *
16542971 ATCCCTTTTCATAGA-TTGATAGCTGAAGCCATCCCTTTTCATAGATTGATAGCCGAAGCCATCC
1 ATCCCTTTTCATA-ATTTGATAGCAGAAGCTATCCCTTTTCATAGATTGATAGCCGAAGCCATCC
* *
16543035 TTTTTCATAGTTCGATCGTCGTCACC
65 CTTTTCATAGTTCGATAGTCGTCACC
16543061 ATCCCTTTT
1 ATCCCTTTT
16543070 TATAGTTCGA
Statistics
Matches: 160, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
89 4 0.03
90 151 0.94
91 5 0.03
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (90 bp):
ATCCCTTTTCATAATTTGATAGCAGAAGCTATCCCTTTTCATAGATTGATAGCCGAAGCCATCCC
TTTTCATAGTTCGATAGTCGTCACC
Found at i:16543044 original size:30 final size:30
Alignment explanation
Indices: 16542791--16543044 Score: 257
Period size: 30 Copynumber: 8.5 Consensus size: 30
16542781 AATTGAAGTT
* **
16542791 ATCCCTTTTCATAGTTTGATAGCCGAAGTT
1 ATCCCTTTTCATAGATTGATAGCCGAAGCC
* *
16542821 ATCCCTTTTCATA-ATTTGATGGCCGCCA-CC
1 ATCCCTTTTCATAGA-TTGATAGCCG-AAGCC
* * ** *
16542851 ATCCCTTTTCATAG-TTCAATGGTTGTCA-CC
1 ATCCCTTTTCATAGATT-GATAGCCG-AAGCC
* * *
16542881 ATCCCTTTTCATA-ATTTGATAACAGAAGCT
1 ATCCCTTTTCATAGA-TTGATAGCCGAAGCC
* *
16542911 ATCCCTTTTTATAGATTGATAGTCGAAGCC
1 ATCCCTTTTCATAGATTGATAGCCGAAGCC
* *
16542941 ATCCCTTTTTATAGATTGATAGTCGAAGCC
1 ATCCCTTTTCATAGATTGATAGCCGAAGCC
*
16542971 ATCCCTTTTCATAGATTGATAGCTGAAGCC
1 ATCCCTTTTCATAGATTGATAGCCGAAGCC
16543001 ATCCCTTTTCATAGATTGATAGCCGAAGCC
1 ATCCCTTTTCATAGATTGATAGCCGAAGCC
*
16543031 ATCCTTTTTCATAG
1 ATCCCTTTTCATAG
16543045 TTCGATCGTC
Statistics
Matches: 190, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.02
30 183 0.96
31 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAGATTGATAGCCGAAGCC
Found at i:16543063 original size:30 final size:30
Alignment explanation
Indices: 16543029--16543103 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
16543019 ATAGCCGAAG
16543029 CCATCCTTTTTCATAGTTCGATCGTCGTCA
1 CCATCCTTTTTCATAGTTCGATCGTCGTCA
*
16543059 CCATCCCTTTTT-ATAGTTCGATGGTCGTCA
1 CCAT-CCTTTTTCATAGTTCGATCGTCGTCA
*
16543089 CCATCCCTTTTCATA
1 CCATCCTTTTTCATA
16543104 ATCGATAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 6 0.15
30 28 0.68
31 7 0.17
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (30 bp):
CCATCCTTTTTCATAGTTCGATCGTCGTCA
Found at i:16543063 original size:60 final size:62
Alignment explanation
Indices: 16542791--16543074 Score: 261
Period size: 60 Copynumber: 4.7 Consensus size: 62
16542781 AATTGAAGTT
* * ** * *
16542791 ATCCCTTTTCATAGTTTGATAGCCG-AAGTTATCCCTTTTCATA-ATTTGATGGCCGCCA-CC
1 ATCCCTTTTCATAGATTGATAGTCGTAAGCCATCCCTTTTCATAGATTTGATAGCCG-AAGCC
* * * * * * *
16542851 ATCCCTTTTCATAG-TTCAATGGTTGTCA-CCATCCCTTTTCATA-ATTTGATAACAGAAGCT
1 ATCCCTTTTCATAGATT-GATAGTCGTAAGCCATCCCTTTTCATAGATTTGATAGCCGAAGCC
* * *
16542911 ATCCCTTTTTATAGATTGATAGTCG-AAGCCATCCCTTTTTATAGA-TTGATAGTCGAAGCC
1 ATCCCTTTTCATAGATTGATAGTCGTAAGCCATCCCTTTTCATAGATTTGATAGCCGAAGCC
16542971 ATCCCTTTTCATAGATTGATAG-C-TGAAGCCATCCCTTTTCATAGA-TTGATAGCCGAAGCC
1 ATCCCTTTTCATAGATTGATAGTCGT-AAGCCATCCCTTTTCATAGATTTGATAGCCGAAGCC
* * * *
16543031 ATCCTTTTTCATAG-TTCGATCGTCGTCA-CCATCCCTTTTTATAG
1 ATCCCTTTTCATAGATT-GATAGTCGTAAGCCATCCCTTTTCATAG
16543075 TTCGATGGTC
Statistics
Matches: 184, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
59 7 0.04
60 170 0.92
61 6 0.03
62 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (62 bp):
ATCCCTTTTCATAGATTGATAGTCGTAAGCCATCCCTTTTCATAGATTTGATAGCCGAAGCC
Found at i:16552669 original size:12 final size:14
Alignment explanation
Indices: 16552654--16552685 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16552644 CTTTTTCTAC
16552654 TCTTTTTG-A-TTT
1 TCTTTTTGAATTTT
16552666 TCTTTTTGAATTTT
1 TCTTTTTGAATTTT
16552680 TCTTTT
1 TCTTTT
16552686 GTTGCACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 1 0.06
14 9 0.50
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.75
Consensus pattern (14 bp):
TCTTTTTGAATTTT
Found at i:16561239 original size:39 final size:39
Alignment explanation
Indices: 16561198--16561413 Score: 353
Period size: 39 Copynumber: 5.5 Consensus size: 39
16561188 ATTCACTTTT
* *
16561198 AAGCATATATCACATTACTCATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
16561237 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
16561276 AAGCACATATCA-ACATACTCATATAATCACATAACATTC
1 AAGCATATATCACA-ATACTCATATAATCACATAACATTC
16561315 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
16561354 AAGCGTATATCACAATACTCATATAATCATAGAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
16561393 AAGTATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
16561414 AAGACAAATT
Statistics
Matches: 166, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.01
39 164 0.99
40 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:16562189 original size:38 final size:37
Alignment explanation
Indices: 16562129--16562219 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 37
16562119 TTGTCACATT
* * *
16562129 GGGCATGTTGAACATGCGAATCGAATAATATCATGTG
1 GGGCATGTTTAACATGCAAATCGAATAATATCATGTA
*
16562166 GGGCATGTTTTAACATGCAAATCGAATAATATCCTGTA
1 GGGCATG-TTTAACATGCAAATCGAATAATATCATGTA
16562204 GGGCATGTTTAACATG
1 GGGCATGTTTAACATG
16562220 TAGTCAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 16 0.33
38 33 0.67
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (37 bp):
GGGCATGTTTAACATGCAAATCGAATAATATCATGTA
Found at i:16565852 original size:40 final size:40
Alignment explanation
Indices: 16565808--16565966 Score: 219
Period size: 40 Copynumber: 4.0 Consensus size: 40
16565798 GTGCAACAAA
* * *
16565808 GGGTACCGGAGTACAAGTAGGGGCACGTAAGTGGAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAATCAG
* * *
16565848 GGGTACCGAAGTACAAATAGGGGAACGTAAATGCAATTAG
1 GGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAATCAG
* *
16565888 GGGTACCGAAGTACAAATAGGGGCATGTAAGTACAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAATCAG
* * *
16565928 GGGTACCGAAGAACAAACAGGGGCACATAAGTGCAATCA
1 GGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAATCA
16565967 TTGAATAATT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.15
Consensus pattern (40 bp):
GGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAATCAG
Found at i:16565869 original size:20 final size:20
Alignment explanation
Indices: 16565846--16565950 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 20
16565836 AAGTGGAATC
16565846 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAT
* * * *
16565866 AGGGG-AACGTAAATGCAATT
1 AGGGGTACCG-AAGTACAAAT
16565886 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAT
* *
16565906 AGGGGCA-TGTAAGTAC-AAT
1 AGGGGTACCG-AAGTACAAAT
* *
16565925 CAGGGGTACCGAAGAACAAAC
1 -AGGGGTACCGAAGTACAAAT
16565946 AGGGG
1 AGGGG
16565951 CACATAAGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
19 7 0.11
20 52 0.80
21 6 0.09
ACGTcount: A:0.39, C:0.14, G:0.32, T:0.14
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAT
Found at i:16577197 original size:20 final size:20
Alignment explanation
Indices: 16577144--16577198 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
16577134 AGATTGCACA
* *
16577144 GCCTATGATTGCACTTCAGT
1 GCCTATGTTTGCACTTCAAT
*
16577164 -CCTTTGTTTGCACTTCAAT
1 GCCTATGTTTGCACTTCAAT
*
16577183 GCCTATGTTTACACTT
1 GCCTATGTTTGCACTT
16577199 TGGTGTCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (20 bp):
GCCTATGTTTGCACTTCAAT
Found at i:16583960 original size:44 final size:43
Alignment explanation
Indices: 16583901--16583984 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 43
16583891 AAAATCTGCC
* * *
16583901 TAAAAAACAGGAGAAGATAATCTTGGGTTGTTGAAAAAAGAATT
1 TAAAAAAAAGAAGAAGATAATCATGGGTTGTT-AAAAAAGAATT
16583945 TAAAAAAAAGAAGAAGATAATCATGGGTTGTTAAAAAAGA
1 TAAAAAAAAGAAGAAGATAATCATGGGTTGTTAAAAAAGA
16583985 GAAGAAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 8 0.22
44 29 0.78
ACGTcount: A:0.52, C:0.04, G:0.21, T:0.23
Consensus pattern (43 bp):
TAAAAAAAAGAAGAAGATAATCATGGGTTGTTAAAAAAGAATT
Found at i:16583987 original size:28 final size:31
Alignment explanation
Indices: 16583944--16584007 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
16583934 AAAAAAGAAT
* *
16583944 TTAAAAAAAAGAAGAAGATAATCATGGGTTG
1 TTAAAAAAGAGAAGAAGATAAACATGGGTTG
16583975 TTAAAAAAGAGAAGAAGATAAACATGGGTTG
1 TTAAAAAAGAGAAGAAGATAAACATGGGTTG
16584006 TT
1 TT
16584008 GGATTTACCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.23
Consensus pattern (31 bp):
TTAAAAAAGAGAAGAAGATAAACATGGGTTG
Found at i:16588442 original size:35 final size:35
Alignment explanation
Indices: 16588403--16588469 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
16588393 TTAAGATCAC
16588403 AAAGGAAGGAACAATGTAAGGCCATCACTCTTCAT
1 AAAGGAAGGAACAATGTAAGGCCATCACTCTTCAT
16588438 AAAGGAAGGAACAATGTAAGGCCATCACTCTT
1 AAAGGAAGGAACAATGTAAGGCCATCACTCTT
16588470 AGAAGCGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (35 bp):
AAAGGAAGGAACAATGTAAGGCCATCACTCTTCAT
Found at i:16592300 original size:42 final size:42
Alignment explanation
Indices: 16592254--16592391 Score: 213
Period size: 42 Copynumber: 3.3 Consensus size: 42
16592244 ATAGCCAGCT
* *
16592254 ATGGTCTTACACGAATCTTATATCGATGCCAATGTCTTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCTCAGAC
* *
16592296 ATGGTCTTACACGAATATCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCTCAGAC
* * *
16592338 ATGGTCTTACACGAATCACAAAACGATGCCAATGTCTCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCTCAGAC
16592380 ATGGTCTTACAC
1 ATGGTCTTACAC
16592392 ATAATCACAT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCTCAGAC
Found at i:16592505 original size:43 final size:43
Alignment explanation
Indices: 16592451--16592573 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 43
16592441 AAAATCTAGC
*
16592451 TAAAAAGGAGGAGAAGATAATCTTGGGTTGTTGGAAAATGAATT
1 TAAAAAAGAGGAGAAGATAATCTTGGGTTGTTGGAAAAT-AATT
* * **
16592495 T-AGAAAGAGGAGAAGATAATTTTGGGTTGTTCAAAAAAATAATT
1 TAAAAAAGAGGAGAAGATAATCTTGGGTTGTT--GGAAAATAATT
* *
16592539 TAAAAAAGAGGAGAAGATAAACATGGGTTGTTGGA
1 TAAAAAAGAGGAGAAGATAATCTTGGGTTGTTGGA
16592574 TTTACCTTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
43 28 0.43
44 6 0.09
45 31 0.48
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (43 bp):
TAAAAAAGAGGAGAAGATAATCTTGGGTTGTTGGAAAATAATT
Found at i:16613165 original size:51 final size:50
Alignment explanation
Indices: 16613060--16613182 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 50
16613050 TGTCTACAAA
* * * * *
16613060 TCAGTGGTGGCATGTTCACAAAATTATATTAGTGGCAGTATATCTTAAAT
1 TCAGTGGTGGCTTGTCCACAAAATTATATTAGTGGCAATATATCTGAAAG
* *
16613110 TCAGTGGTGGCTTGTCCACAAAAGTGT-TATTAGTGGCAATTTATCTGCAAG
1 TCAGTGGTGGCTTGTCCACAAAA-T-TATATTAGTGGCAATATATCTGAAAG
* *
16613161 TCAGTGATGGCTTGTGCACAAA
1 TCAGTGGTGGCTTGTCCACAAA
16613183 TGGTGTTTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 21 0.34
51 40 0.65
52 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (50 bp):
TCAGTGGTGGCTTGTCCACAAAATTATATTAGTGGCAATATATCTGAAAG
Found at i:16648733 original size:41 final size:41
Alignment explanation
Indices: 16648682--16648843 Score: 252
Period size: 41 Copynumber: 4.0 Consensus size: 41
16648672 ATAGATTCAT
* *
16648682 CGGCACTTAGCCTGCTAGGCTTATAGCCTGGTTTAGATCAC
1 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCAC
* * * *
16648723 CGGCATTTAGCGTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCAC
16648764 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCAC
1 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCAC
* *
16648805 TGGCACTTAGCTTGCTAGGCTTATAGCCTGATTCAGATC
1 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATC
16648844 GCATAATATA
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 109 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (41 bp):
CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCAC
Found at i:16656636 original size:17 final size:17
Alignment explanation
Indices: 16656614--16656649 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
16656604 ATATAAAGTC
*
16656614 AAAGATATGTGTATCAA
1 AAAGATATGGGTATCAA
16656631 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
16656648 AA
1 AA
16656650 TCTGAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:16665039 original size:35 final size:35
Alignment explanation
Indices: 16664989--16665082 Score: 134
Period size: 35 Copynumber: 2.7 Consensus size: 35
16664979 GATAATCAAT
* *
16664989 TTCACATGTTAAGCATGCTACTATACTAATTTTGA
1 TTCACATGTTAAGCATGCCACTATACTAATTCTGA
* * *
16665024 TTCGCATGTTAAGCATGCCAGTATACTGATTCTGA
1 TTCACATGTTAAGCATGCCACTATACTAATTCTGA
*
16665059 TTCACATGTAAAGCATGCCACTAT
1 TTCACATGTTAAGCATGCCACTAT
16665083 GTTAAATCGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (35 bp):
TTCACATGTTAAGCATGCCACTATACTAATTCTGA
Found at i:16667883 original size:69 final size:69
Alignment explanation
Indices: 16667795--16667929 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 69
16667785 TGTAAGACCA
* * *
16667795 TAGCTCGGCTATGACAACC-ATTAGAGTCCCCCGGGACAATAAACACAGGGAATATAAGGTGTAA
1 TAGCTCAGCTAAGAAAACCAATT-GAGTCCCCCGGGACAATAAACACAGGGAATATAAGGTGTAA
16667859 GAAAT
65 GAAAT
***** *
16667864 TAGCTCAGCTAAGAAAACCAATTGAGTTTGTTGGGACAATAAACACTGGGAATATAAGGTGTAAG
1 TAGCTCAGCTAAGAAAACCAATTGAGTCCCCCGGGACAATAAACACAGGGAATATAAGGTGTAAG
16667929 A
66 A
16667930 CCATAGCTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 53 0.95
70 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (69 bp):
TAGCTCAGCTAAGAAAACCAATTGAGTCCCCCGGGACAATAAACACAGGGAATATAAGGTGTAAG
AAAT
Found at i:16675761 original size:14 final size:14
Alignment explanation
Indices: 16675742--16675768 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16675732 AATTTCTTGG
16675742 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
16675756 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
16675769 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:16675898 original size:19 final size:19
Alignment explanation
Indices: 16675874--16675915 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
16675864 ATAATTCTCG
*
16675874 GTTTTGCGCTTTTAGCAGT
1 GTTTTGCGCTTCTAGCAGT
16675893 GTTTTGCGCTTCTAGCAGT
1 GTTTTGCGCTTCTAGCAGT
16675912 GTTT
1 GTTT
16675916 GCTGAGCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.17, G:0.26, T:0.48
Consensus pattern (19 bp):
GTTTTGCGCTTCTAGCAGT
Found at i:16683130 original size:13 final size:13
Alignment explanation
Indices: 16683112--16683145 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
16683102 CTCTGTTTTC
16683112 CCATTTCCCTTGT
1 CCATTTCCCTTGT
16683125 CCATTT-CCTTGT
1 CCATTTCCCTTGT
*
16683137 CGATTTCCC
1 CCATTTCCC
16683146 CTATCGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.09, C:0.38, G:0.09, T:0.44
Consensus pattern (13 bp):
CCATTTCCCTTGT
Found at i:16688426 original size:16 final size:17
Alignment explanation
Indices: 16688395--16688427 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16688385 TATCATTCAT
*
16688395 TTCATATTCATGTATCA
1 TTCATATTCATATATCA
16688412 TTCAT-TTCATATATCA
1 TTCATATTCATATATCA
16688428 ATATATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (17 bp):
TTCATATTCATATATCA
Found at i:16697180 original size:9 final size:9
Alignment explanation
Indices: 16697166--16697191 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16697156 ATTCATTAAT
16697166 TTTTAGTTA
1 TTTTAGTTA
16697175 TTTTAGTTA
1 TTTTAGTTA
16697184 TTTTAGTT
1 TTTTAGTT
16697192 TGTGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (9 bp):
TTTTAGTTA
Found at i:16713951 original size:8 final size:7
Alignment explanation
Indices: 16713924--16713950 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16713914 AGTACCTATA
16713924 AAAAAAT
1 AAAAAAT
16713931 AAAAAAT
1 AAAAAAT
16713938 AAAAAAT
1 AAAAAAT
16713945 AAAAAA
1 AAAAAA
16713951 ACCAACCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:16726791 original size:188 final size:188
Alignment explanation
Indices: 16726463--16726840 Score: 740
Period size: 188 Copynumber: 2.0 Consensus size: 188
16726453 ACATTGGATC
16726463 TTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGCTAATCAAAGGGGATTTAAT
1 TTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGCTAATCAAAGGGGATTTAAT
16726528 CTGCAATCTCATTTTGAGTCTTTGGAGTTAGAAAAGAGGGACTATTCCTAACCAAAAGCTCAGTT
66 CTGCAATCTCATTTTGAGTCTTTGGAGTTAGAAAAGAGGGACTATTCCTAACCAAAAGCTCAGTT
16726593 GATGGAGCCACCTAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATACGTTTAT
131 GATGGAGCCACCTAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATACGTTTAT
16726651 TTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGCTAATCAAAGGGGATTTAAT
1 TTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGCTAATCAAAGGGGATTTAAT
16726716 CTGCAATCTCATTTTGAGTCTTTGGAGTTAGAAAAGAGGGACTATTCCTAACCAAAAGCGTCAGT
66 CTGCAATCTCATTTTGAGTCTTTGGAGTTAGAAAAGAGGGACTATTCCTAACCAAAAGC-TCAGT
16726781 TGAT-GAGCCACCTAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATACGTTTAT
130 TGATGGAGCCACCTAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATACGTTTAT
16726839 TT
1 TT
16726841 AGGTAACGCT
Statistics
Matches: 189, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
188 180 0.95
189 9 0.05
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (188 bp):
TTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGCTAATCAAAGGGGATTTAAT
CTGCAATCTCATTTTGAGTCTTTGGAGTTAGAAAAGAGGGACTATTCCTAACCAAAAGCTCAGTT
GATGGAGCCACCTAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATACGTTTAT
Found at i:16737334 original size:15 final size:16
Alignment explanation
Indices: 16737314--16737343 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16737304 TTGAATTTTG
16737314 TTAAGTATG-ATAAAT
1 TTAAGTATGAATAAAT
16737329 TTAAGTATGAATAAA
1 TTAAGTATGAATAAA
16737344 GTTTGATTAT
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:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TTAAGTATGAATAAAT
Found at i:16743012 original size:28 final size:28
Alignment explanation
Indices: 16742972--16743125 Score: 227
Period size: 28 Copynumber: 5.5 Consensus size: 28
16742962 TGACTTTCGA
*
16742972 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
16743000 CACTAAGTGTGCGAGTTTAATTGTAAAT
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
16743028 CACTAAGTGTGCGAGTTTCATTGTAAAT
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
16743056 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
16743084 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
16743112 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
16743126 AATTATTAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 115 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:16743934 original size:23 final size:23
Alignment explanation
Indices: 16743904--16744242 Score: 224
Period size: 23 Copynumber: 14.6 Consensus size: 23
16743894 AATGTTCTCC
**
16743904 AATTTTGTATATACGTGCTGTCA
1 AATTTTGTATATAAATGCTGTCA
* ** *
16743927 AATTTTGTGTATATGTGTTGTCCA
1 AATTTTGTATATAAATGCTGT-CA
* * *
16743951 AA-TTGGTATATATATGCTGTCC
1 AATTTTGTATATAAATGCTGTCA
* *
16743973 AATTTTGGTGA-ATAAATGTTGTCC
1 AATTTT-GT-ATATAAATGCTGTCA
*
16743997 AATTTTGTATATACATGCTGTCA
1 AATTTTGTATATAAATGCTGTCA
* * *
16744020 AATTTTGTGTATAAGTGTTGTCCA
1 AATTTTGTATATAAATGCTGT-CA
* * * *
16744044 AA-TTGGTATATATATGCTGCCC
1 AATTTTGTATATAAATGCTGTCA
*
16744066 AATTTTGGTGA-ATAAATGCTGTCC
1 AATTTT-GT-ATATAAATGCTGTCA
* * *
16744090 AACTTTGTATATACATGCCGTCA
1 AATTTTGTATATAAATGCTGTCA
* *
16744113 AATTTTGTGTATAAGTGCTGTCCA
1 AATTTTGTATATAAATGCTGT-CA
* * * * *
16744137 AA-TTGGTATTTATATGCTGCCC
1 AATTTTGTATATAAATGCTGTCA
*
16744159 AATTTTGGTGA-ATAAATGCTGTCC
1 AATTTT-GT-ATATAAATGCTGTCA
*
16744183 AATTTTGTATAT-CATGCTGTCAA
1 AATTTTGTATATAAATGCTGTC-A
* *
16744206 AATTTTGGTGTATAAATGCTGTCC
1 AATTTT-GTATATAAATGCTGTCA
16744230 AATTTTGTATATA
1 AATTTTGTATATA
16744243 TATATATGCT
Statistics
Matches: 244, Mismatches: 54, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
22 20 0.08
23 135 0.55
24 78 0.32
25 11 0.05
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (23 bp):
AATTTTGTATATAAATGCTGTCA
Found at i:16743976 original size:93 final size:93
Alignment explanation
Indices: 16743856--16744245 Score: 611
Period size: 93 Copynumber: 4.2 Consensus size: 93
16743846 AAATGCTGCT
* * * * *
16743856 CAAATTGGTATCTATATGCTACCCAATTTTGGTGAATAAATGTTCTCCAATTTTGTATATACGTG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATG
* *
16743921 CTGTCAAATTTTGTGTATATGTGTTGTC
66 CTGTCAAATTTTGTGTATAAGTGCTGTC
* *
16743949 CAAATTGGTATATATATGCTGTCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATG
*
16744014 CTGTCAAATTTTGTGTATAAGTGTTGTC
66 CTGTCAAATTTTGTGTATAAGTGCTGTC
*
16744042 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAACTTTGTATATACATG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATG
*
16744107 CCGTCAAATTTTGTGTATAAGTGCTGTC
66 CTGTCAAATTTTGTGTATAAGTGCTGTC
*
16744135 CAAATTGGTATTTATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATAT-CATG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATG
*
16744199 CTGTCAAAATTTTGGTGTATAAATGCTGTC
66 CTGTC-AAATTTT-GTGTATAAGTGCTGTC
* *
16744229 CAATTTTGTATATATAT
1 CAAATTGGTATATATAT
16744246 ATATGCTGCT
Statistics
Matches: 277, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
92 8 0.03
93 240 0.87
94 29 0.10
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (93 bp):
CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATG
CTGTCAAATTTTGTGTATAAGTGCTGTC
Found at i:16744183 original size:47 final size:47
Alignment explanation
Indices: 16743846--16744245 Score: 389
Period size: 47 Copynumber: 8.6 Consensus size: 47
16743836 TTTTATGCTA
* * * *
16743846 AAATGCTG-CTCAAATTGGTATCTATATGCTACCCAATTTTGGTGAAT
1 AAATGCTGTC-CAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * ** * *
16743893 AAATGTTCTCCAATTTTGTATATACGTGCTGTCAAATTTT-GTGTAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
** * *
16743939 ATGTGTTGTCCAAATTGGTATATATATGCTGTCC-AATTTTGGTGAAT
1 AAATGCTGTCCAAATTTGTATATATATGCTG-CCAAATTTTGGTGAAT
* * * * *
16743986 AAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTT-GTGTAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * *
16744032 AAGTGTTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * * *
16744079 AAATGCTGTCCAACTTTGTATATACATGCCGTCAAATTTT-GTGTAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * *
16744125 AAGTGCTGTCCAAATTGGTATTTATATGCTGCCCAATTTTGGTGAAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * *
16744172 AAATGCTGTCCAATTTTGTATAT-CATGCTGTCAAAATTTTGGTGTAT
1 AAATGCTGTCCAAATTTGTATATATATGCTG-CCAAATTTTGGTGAAT
*
16744219 AAATGCTGTCCAATTTTGTATATATAT
1 AAATGCTGTCCAAATTTGTATATATAT
16744246 ATATGCTGCT
Statistics
Matches: 284, Mismatches: 61, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
46 118 0.42
47 163 0.57
48 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (47 bp):
AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
Found at i:16750512 original size:28 final size:27
Alignment explanation
Indices: 16750472--16750567 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 27
16750462 GACTTTCGAT
* *
16750472 ACTAAGTGCGCGAATTTAATTGTAAAGC
1 ACTAAGTGTGCGAGTTT-ATTGTAAAGC
16750500 ACTAAGTGTGCGAGTTTATTAGTAAAGC
1 ACTAAGTGTGCGAGTTTATT-GTAAAGC
* **
16750528 ACTAAGTGTGCGAGTTTGATTATTGAGC
1 ACTAAGTGTGCGAGTTT-ATTGTAAAGC
16750556 ACTAAGTGTGCG
1 ACTAAGTGTGCG
16750568 GACTTATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 3 0.05
28 55 0.90
29 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGAGTTTATTGTAAAGC
Found at i:16751354 original size:47 final size:47
Alignment explanation
Indices: 16751313--16751746 Score: 486
Period size: 47 Copynumber: 9.4 Consensus size: 47
16751303 AAATGCTACT
*
16751313 CAAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCTGTC
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
* * * * * * **
16751360 CAATTTTGTATATATGTGCTG-TCAA-ATT-GTGTATATCTGCTGTC
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
*
16751404 CAAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCTGTC
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
* * * * * * * *
16751451 CAATTTTGTGTATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTC
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
*
16751497 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAGTGCTGTC
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
*
16751544 CAAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCTGTC
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
* * * * * * * *
16751591 CAATTTTGTGTATACATGCTGTCAAATTTT-GTGTATAAGTGCTG-C
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
16751636 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
* * * * * *
16751683 TAATTTTGG-ATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTC
1 CAA-ATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
* *
16751730 CAATTTTGTATATATAT
1 CAAATTGGTATATATAT
16751747 ATATATATAT
Statistics
Matches: 317, Mismatches: 62, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
44 30 0.09
45 30 0.09
46 71 0.22
47 182 0.57
48 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (47 bp):
CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
Found at i:16751502 original size:93 final size:94
Alignment explanation
Indices: 16751313--16751746 Score: 504
Period size: 93 Copynumber: 4.7 Consensus size: 94
16751303 AAATGCTACT
* *
16751313 CAAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATGTG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATATG
* * **
16751378 CTGTCAAA--TT-GTGTATATCTGCTGTC
66 CTGCCAAATTTTGGTGAATAAATGCTGTC
* * *
16751404 CAAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATACATG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATATG
* * *
16751469 CTGTCAAATTTT-GTGTATAAGTGCTGTC
66 CTGCCAAATTTTGGTGAATAAATGCTGTC
* * *
16751497 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAGTGCTGTCCAAATTGGTATATATATG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATATG
* *
16751562 CTACCCAATTTTGGTGAATAAATGCTGTC
66 CTGCCAAATTTTGGTGAATAAATGCTGTC
* * * * * * * * * *
16751591 CAATTTTGTGTATACATGCTGTCAAATTTT-GTGTATAAGTGCTG-CCAAATTGGTATATATATG
1 CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATATG
*
16751654 CTGCCCAATTTTGGTGAATAAATGCTGTC
66 CTGCCAAATTTTGGTGAATAAATGCTGTC
* * * * * *
16751683 TAATTTTGG-ATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATAT
1 CAA-ATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATAT
16751747 ATATATATAT
Statistics
Matches: 307, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
91 70 0.23
92 69 0.22
93 114 0.37
94 54 0.18
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (94 bp):
CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATATG
CTGCCAAATTTTGGTGAATAAATGCTGTC
Found at i:16751661 original size:23 final size:23
Alignment explanation
Indices: 16751313--16751746 Score: 232
Period size: 23 Copynumber: 18.7 Consensus size: 23
16751303 AAATGCTACT
**
16751313 CAAATTGGTATATATATGCTACC
1 CAAATTGGTATATATATGCTGTC
* *
16751336 CAATTTTGGTGA-ATAAATGCTGTC
1 CAA-ATTGGT-ATATATATGCTGTC
* * *
16751360 CAATTTTGTATATATGTGCTGT-
1 CAAATTGGTATATATATGCTGTC
* *
16751382 CAAATT-GTGTATATCTGCTGTC
1 CAAATTGGTATATATATGCTGTC
**
16751404 CAAATTGGTATATATATGCTACC
1 CAAATTGGTATATATATGCTGTC
* *
16751427 CAATTTTGGTGA-ATAAATGCTGTC
1 CAA-ATTGGT-ATATATATGCTGTC
* * * *
16751451 CAATTTTGTGTATACATGCTGT-
1 CAAATTGGTATATATATGCTGTC
* *
16751473 CAAATTTTGTGTATA-AGTGCTGTC
1 CAAA-TTGGTATATATA-TGCTGTC
*
16751497 CAAATTGGTATATATATGCTGCC
1 CAAATTGGTATATATATGCTGTC
*
16751520 CAATTTTGGTGA-ATA-AGTGCTGTC
1 CAA-ATTGGT-ATATATA-TGCTGTC
**
16751544 CAAATTGGTATATATATGCTACC
1 CAAATTGGTATATATATGCTGTC
* *
16751567 CAATTTTGGTGA-ATAAATGCTGTC
1 CAA-ATTGGT-ATATATATGCTGTC
* * * *
16751591 CAATTTTGTGTATACATGCTGT-
1 CAAATTGGTATATATATGCTGTC
* *
16751613 CAAATTTTGTGTATA-AGTGCTG-C
1 CAAA-TTGGTATATATA-TGCTGTC
*
16751636 CAAATTGGTATATATATGCTGCC
1 CAAATTGGTATATATATGCTGTC
* *
16751659 CAATTTTGGTGA-ATAAATGCTGTC
1 CAA-ATTGGT-ATATATATGCTGTC
* * *
16751683 TAATTTTGG-ATATACATGCTGT-
1 CAA-ATTGGTATATATATGCTGTC
* *
16751705 CAAATTTTGGTGTATAAATGCTGTC
1 CAAA--TTGGTATATATATGCTGTC
* *
16751730 CAATTTTGTATATATAT
1 CAAATTGGTATATATAT
16751747 ATATATATAT
Statistics
Matches: 326, Mismatches: 53, Indels: 64
0.74 0.12 0.14
Matches are distributed among these distances:
21 13 0.04
22 37 0.11
23 160 0.49
24 108 0.33
25 8 0.02
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (23 bp):
CAAATTGGTATATATATGCTGTC
Found at i:16760126 original size:28 final size:28
Alignment explanation
Indices: 16760086--16760141 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
16760076 GGATAAATAC
*
16760086 TTCTTTAGAAAGAAAAAGACTAAGTGAT
1 TTCTTAAGAAAGAAAAAGACTAAGTGAT
16760114 TTCTTAAGAAAGAAAAAGACTAAGTGAT
1 TTCTTAAGAAAGAAAAAGACTAAGTGAT
16760142 GTGGCAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (28 bp):
TTCTTAAGAAAGAAAAAGACTAAGTGAT
Found at i:16764866 original size:33 final size:33
Alignment explanation
Indices: 16764829--16764901 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
16764819 AAACCACCAT
*
16764829 ATCACCATAATTCAACCACCTTACCACCAACAC
1 ATCACCATAATTCAACCACCTGACCACCAACAC
* * * *
16764862 ATCACTATCATTCAACCACCTGAGCACCACCAC
1 ATCACCATAATTCAACCACCTGACCACCAACAC
*
16764895 ACCACCA
1 ATCACCA
16764902 AATCACAATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.44, G:0.03, T:0.16
Consensus pattern (33 bp):
ATCACCATAATTCAACCACCTGACCACCAACAC
Found at i:16767132 original size:15 final size:15
Alignment explanation
Indices: 16767114--16767143 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16767104 TTTTAGGTTC
16767114 GTTTGTTTTGTTCAT
1 GTTTGTTTTGTTCAT
16767129 GTTTGTTTTGTTCAT
1 GTTTGTTTTGTTCAT
16767144 TGGACTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.20, T:0.67
Consensus pattern (15 bp):
GTTTGTTTTGTTCAT
Found at i:16770225 original size:30 final size:29
Alignment explanation
Indices: 16770185--16770283 Score: 80
Period size: 30 Copynumber: 3.4 Consensus size: 29
16770175 ATCACCCACG
16770185 TATATA-TATATACACAAC-CCCACTCATA
1 TATATATTATATACACAACACCCACT-ATA
** *
16770213 TATATATGTATATTAC-CAACTTCC-CTATT
1 TATATAT-TATA-TACACAACACCCACTATA
* *
16770242 TATATATTATATATATAACACCCACTAATA
1 TATATATTATATACACAACACCCACT-ATA
*
16770272 TATATAATATAT
1 TATATATTATAT
16770284 TGTATACACA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
27 2 0.04
28 15 0.27
29 11 0.20
30 23 0.41
31 5 0.09
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.38
Consensus pattern (29 bp):
TATATATTATATACACAACACCCACTATA
Found at i:16774888 original size:26 final size:26
Alignment explanation
Indices: 16774852--16775028 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
16774842 GCCGTAACGG
*
16774852 GGGTAAATTATCAAAATACCCTGGAT
1 GGGTAAATTATCAAAATACCCTCGAT
* *
16774878 GGGTAAATTATCGAAATACCCTCTAT
1 GGGTAAATTATCAAAATACCCTCGAT
16774904 GGGTAAATTATCAAAATACCCTCGAT
1 GGGTAAATTATCAAAATACCCTCGAT
* *
16774930 GGGTAAATTATCGAAATAACCTCGAT
1 GGGTAAATTATCAAAATACCCTCGAT
* *
16774956 GGGTAAATTACCAAAATAACCTCGAT
1 GGGTAAATTATCAAAATACCCTCGAT
* *
16774982 GGGTAAATTACCAAAATACCCTCAAT
1 GGGTAAATTATCAAAATACCCTCGAT
* *
16775008 GGGTATATTACCAAAATACCC
1 GGGTAAATTATCAAAATACCC
16775029 CTAAAGGGTA
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 139 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (26 bp):
GGGTAAATTATCAAAATACCCTCGAT
Found at i:16775038 original size:52 final size:52
Alignment explanation
Indices: 16774852--16775055 Score: 257
Period size: 52 Copynumber: 3.9 Consensus size: 52
16774842 GCCGTAACGG
* * * *
16774852 GGGTAAATTATCAAAATACCCTGGATGGGTAAATTATCGAAATACCCTCTAT
1 GGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAATACCCTCAAT
* * * *
16774904 GGGTAAATTATCAAAATACCCTCGATGGGTAAATTATCGAAATAACCTCGAT
1 GGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAATACCCTCAAT
* *
16774956 GGGTAAATTACCAAAATAACCTCGATGGGTAAATTACCAAAATACCCTCAAT
1 GGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAATACCCTCAAT
* * * *
16775008 GGGTATATTACCAAAATACCC-CTAAAGGGTAATATTACTGAAATACCC
1 GGGTAAATTACCAAAATACCCTC-GATGGGTAA-ATTACCGAAATACCC
16775056 CCGAAGGGTA
Statistics
Matches: 135, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
51 1 0.01
52 121 0.90
53 13 0.10
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (52 bp):
GGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAATACCCTCAAT
Found at i:16775042 original size:27 final size:26
Alignment explanation
Indices: 16774852--16775065 Score: 178
Period size: 26 Copynumber: 8.2 Consensus size: 26
16774842 GCCGTAACGG
* ** *
16774852 GGGTAAATTATCAAAATACCCTGGAT
1 GGGTAAATTACCAAAATACCCTCAAA
* * * *
16774878 GGGTAAATTATCGAAATACCCTCTAT
1 GGGTAAATTACCAAAATACCCTCAAA
* * *
16774904 GGGTAAATTATCAAAATACCCTCGAT
1 GGGTAAATTACCAAAATACCCTCAAA
* * * * *
16774930 GGGTAAATTATCGAAATAACCTCGAT
1 GGGTAAATTACCAAAATACCCTCAAA
* * *
16774956 GGGTAAATTACCAAAATAACCTCGAT
1 GGGTAAATTACCAAAATACCCTCAAA
*
16774982 GGGTAAATTACCAAAATACCCTCAAT
1 GGGTAAATTACCAAAATACCCTCAAA
*
16775008 GGGTATATTACCAAAATACCC-CTAAA
1 GGGTAAATTACCAAAATACCCTC-AAA
** * *
16775034 GGGTAATATTACTGAAATACCCCCGAA
1 GGGTAA-ATTACCAAAATACCCTCAAA
16775061 GGGTA
1 GGGTA
16775066 GAATGACTGT
Statistics
Matches: 168, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
25 1 0.01
26 146 0.87
27 20 0.12
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (26 bp):
GGGTAAATTACCAAAATACCCTCAAA
Found at i:16775074 original size:27 final size:27
Alignment explanation
Indices: 16774995--16775083 Score: 65
Period size: 27 Copynumber: 3.3 Consensus size: 27
16774985 TAAATTACCA
* * * **
16774995 AAATACCCTCAATGGGT-ATATTACCA
1 AAATACCCCCAAAGGGTAATATGACTG
* *
16775021 AAATACCCCTAAAGGGTAATATTACTG
1 AAATACCCCCAAAGGGTAATATGACTG
*
16775048 AAATACCCCCGAAGGGTAGA-ATGACTG
1 AAATACCCCCAAAGGGTA-ATATGACTG
**
16775075 TTATACCCC
1 AAATACCCC
16775084 TAGGAGATGA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
26 14 0.27
27 36 0.71
28 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATACCCCCAAAGGGTAATATGACTG
Found at i:16782465 original size:26 final size:26
Alignment explanation
Indices: 16782428--16782628 Score: 235
Period size: 26 Copynumber: 7.7 Consensus size: 26
16782418 GTAATGGGCC
*
16782428 TAAATTATCGAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* *
16782454 TATATTACCGAAAAACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* *
16782480 TAAATTATCGAAATACCCACGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* **
16782506 TAAATAATTGAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* *
16782532 TAAATTACCAAAATACCTTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* *
16782558 TAAATTATCGAAATACACTC-AGTGGG
1 TAAATTACCGAAATACCCTCGA-TGGG
*
16782584 TAAATTACCGAAATACCCCCG-TAGGG
1 TAAATTACCGAAATACCCTCGAT-GGG
*
16782610 TAAAATTACTGAAATACCC
1 T-AAATTACCGAAATACCC
16782629 CCGAAAGGTA
Statistics
Matches: 148, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 130 0.88
27 16 0.11
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (26 bp):
TAAATTACCGAAATACCCTCGATGGG
Found at i:16782638 original size:27 final size:27
Alignment explanation
Indices: 16782585--16782656 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
16782575 CTCAGTGGGT
* *
16782585 AAATTACCGAAATACCCCCGTAGGGTA
1 AAATTACCGAAATACCCCCGAAAGGTA
*
16782612 AAATTACTGAAATACCCCCGAAAGGTA
1 AAATTACCGAAATACCCCCGAAAGGTA
* * **
16782639 GAATAACCGTTATACCCC
1 AAATTACCGAAATACCCC
16782657 TAGGGGATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.19
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCGAAAGGTA
Found at i:16783064 original size:28 final size:28
Alignment explanation
Indices: 16783024--16783079 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
16783014 CACCATATGA
* *
16783024 TACTATATTGGGCTTAGGCCCACACTGT
1 TACTATAATGGGCTGAGGCCCACACTGT
* *
16783052 TACTATAATGGGCTGGGGTCCACACTGT
1 TACTATAATGGGCTGAGGCCCACACTGT
16783080 ACTGATACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (28 bp):
TACTATAATGGGCTGAGGCCCACACTGT
Found at i:16788401 original size:30 final size:30
Alignment explanation
Indices: 16788367--16788424 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
16788357 CTGAGCTTTG
*
16788367 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATCCAAAAGTTTAA
* * *
16788397 GGGCAAAATTGTAATTTTCCAAAAGTTT
1 GGGCAAAAGTGTAAATATCCAAAAGTTT
16788425 GAGTTAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATCCAAAAGTTTAA
Found at i:16788797 original size:26 final size:26
Alignment explanation
Indices: 16788761--16788813 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
16788751 TATGATAAAA
16788761 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* **
16788787 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
16788813 A
1 A
16788814 ATTCTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:16788837 original size:42 final size:43
Alignment explanation
Indices: 16788790--16789012 Score: 196
Period size: 43 Copynumber: 5.3 Consensus size: 43
16788780 TTCCCCGAGG
* * *
16788790 GGTTGCTAAGTGTTGATTCCCCGAATTC-TTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTCATTGATTGTAAAGGT
16788832 GGTTGCTAAGTGCTGATTCCACCGTA-T-ATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTCA-TTGATTGT-AAAGGT
* * * * * *
16788875 GTTTGCTATGTGCTGATTCCCCATA-TCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTCATTGATTGTAAAGGT
* *
16788917 GGTTGCTAAGTGTTGATTCCACCGTA-TCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTCATTGATTGT-AAAGGT
* * *
16788960 GGTTGCTATGTGCTGATTCCTCGTA-TCACTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTCATTG-ATTGTAAAGGT
16789001 GGTTGCTAAGTG
1 GGTTGCTAAGTG
16789013 TTGAATCCAC
Statistics
Matches: 148, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
40 4 0.03
41 16 0.11
42 56 0.38
43 62 0.42
44 10 0.07
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.37
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTCATTGATTGTAAAGGT
Found at i:16788935 original size:85 final size:84
Alignment explanation
Indices: 16788825--16789023 Score: 326
Period size: 85 Copynumber: 2.4 Consensus size: 84
16788815 TTCTTGATTC
* *
16788825 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGTTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
16788890 ATTCCCCATATCACTGAAT
66 ATTCCCCATATCACTGAAT
*
16788909 ATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCT
1 -TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCT
* *
16788974 GATTCCTCGTATCACTGAAT
65 GATTCCCCATATCACTGAAT
* *
16788994 TTAAGGTGGTTGCTAAGTGTTGAATCCACC
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACC
16789024 AAGTAACGGA
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 28 0.26
85 79 0.74
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (84 bp):
TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
ATTCCCCATATCACTGAAT
Found at i:16791136 original size:26 final size:26
Alignment explanation
Indices: 16791102--16791156 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
16791092 TTCATGTATG
*
16791102 AAAAGAGATGATCATAAGTTAAAAAA
1 AAAAAAGATGATCATAAGTTAAAAAA
16791128 AAAAAAGATGATCATAAGTTAAAAAA
1 AAAAAAGATGATCATAAGTTAAAAAA
16791154 AAA
1 AAA
16791157 GTTTTTGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.65, C:0.04, G:0.13, T:0.18
Consensus pattern (26 bp):
AAAAAAGATGATCATAAGTTAAAAAA
Found at i:16793214 original size:50 final size:50
Alignment explanation
Indices: 16793160--16793311 Score: 304
Period size: 50 Copynumber: 3.0 Consensus size: 50
16793150 TGAAACATCA
16793160 TTTATGATTCAGCCTGAGTTGAATAAAGAGTTATTGATTATCAACATACG
1 TTTATGATTCAGCCTGAGTTGAATAAAGAGTTATTGATTATCAACATACG
16793210 TTTATGATTCAGCCTGAGTTGAATAAAGAGTTATTGATTATCAACATACG
1 TTTATGATTCAGCCTGAGTTGAATAAAGAGTTATTGATTATCAACATACG
16793260 TTTATGATTCAGCCTGAGTTGAATAAAGAGTTATTGATTATCAACATACG
1 TTTATGATTCAGCCTGAGTTGAATAAAGAGTTATTGATTATCAACATACG
16793310 TT
1 TT
16793312 ACTGAACTGT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 102 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (50 bp):
TTTATGATTCAGCCTGAGTTGAATAAAGAGTTATTGATTATCAACATACG
Found at i:16794806 original size:26 final size:26
Alignment explanation
Indices: 16794759--16794811 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16794749 TTGGATAAAA
*
16794759 AGGGGTCGCTAAGTGCAAATTCTCCG
1 AGGGGTCGCTAAGTGCAAATTCCCCG
* **
16794785 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTCGCTAAGTGCAAATTCCCCG
16794811 A
1 A
16794812 ATTATTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.25
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAAATTCCCCG
Found at i:16794836 original size:42 final size:42
Alignment explanation
Indices: 16794788--16795014 Score: 223
Period size: 43 Copynumber: 5.4 Consensus size: 42
16794778 TTCTCCGAGG
* *
16794788 GGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
*
16794830 GGTTGCTAAGTGTTGATTCCACCGTA-TATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTGT-AAAGGT
* * * * * *
16794873 GGTTGCTATGTACTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
16794915 GGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAA-GT
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTGT-AAAGGT
* * * * *
16794958 GGTTGCTATGTGCTAATTCCCCATATCACTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTGTAAAGGT
16794999 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
16795015 ATCCACTGAG
Statistics
Matches: 151, Mismatches: 23, Indels: 23
0.77 0.12 0.12
Matches are distributed among these distances:
40 2 0.01
41 21 0.14
42 57 0.38
43 63 0.42
44 8 0.05
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
Found at i:16794932 original size:85 final size:84
Alignment explanation
Indices: 16794785--16795020 Score: 337
Period size: 85 Copynumber: 2.8 Consensus size: 84
16794775 AAATTCTCCG
* * * * * *
16794785 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
16794850 ACCGTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
*
16794870 AGGGGTTGCTATGTACTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
*
16794935 ACCGTATCTTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * * * *
16794955 AGTGGTTGCTATGTGCTAATTCCCCATATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
16795020 C
66 C
16795021 TGAGTAACGG
Statistics
Matches: 136, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 27 0.20
85 109 0.80
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:16798348 original size:7 final size:7
Alignment explanation
Indices: 16798336--16798366 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
16798326 TTCAGAGAAT
16798336 GACCTTG
1 GACCTTG
16798343 GACCTTG
1 GACCTTG
16798350 GACCTTG
1 GACCTTG
16798357 GACCTTG
1 GACCTTG
16798364 GAC
1 GAC
16798367 TACTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCTTG
Found at i:16803390 original size:18 final size:18
Alignment explanation
Indices: 16803355--16803390 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16803345 TCTAACACTT
*
16803355 TTGTCACATGCAGGGAAA
1 TTGTCACATGCAGAGAAA
*
16803373 TTGTCACATGTAGAGAAA
1 TTGTCACATGCAGAGAAA
16803391 ATTTTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (18 bp):
TTGTCACATGCAGAGAAA
Done.