Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 48 of 187
Found at i:14192628 original size:23 final size:22
Alignment explanation
Indices: 14192601--14192686 Score: 95
Period size: 23 Copynumber: 3.9 Consensus size: 22
14192591 TTTGCTGATT
14192601 AGGCACTTTATGTGTCGTATATC
1 AGGCACTTTATGTGTCGTAT-TC
14192624 AGGCACTTTATGTGTCGTATTCC
1 AGGCACTTTATGTGTCGTATT-C
** * **
14192647 AAACACCTCGTGTGTCGT-TTC
1 AGGCACTTTATGTGTCGTATTC
14192668 AGGCAC-TTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
14192687 ATTGATCAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
20 9 0.17
21 6 0.12
22 3 0.06
23 34 0.65
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGTATTC
Found at i:14201428 original size:11 final size:11
Alignment explanation
Indices: 14201412--14201451 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
14201402 TTCAAAAATT
14201412 CTCTTAAGTTA
1 CTCTTAAGTTA
*
14201423 CTCTTAAGTTC
1 CTCTTAAGTTA
*
14201434 CTCTTAAGTTT
1 CTCTTAAGTTA
14201445 CTCTTAA
1 CTCTTAA
14201452 CTCCCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (11 bp):
CTCTTAAGTTA
Found at i:14201496 original size:12 final size:12
Alignment explanation
Indices: 14201457--14201500 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
14201447 CTTAACTCCC
*
14201457 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
14201469 ATTTTAAAAATA
1 TTTTTTAAAATA
14201481 TTTTTTAAAAT-
1 TTTTTTAAAATA
14201492 TTTTTTAAA
1 TTTTTTAAA
14201501 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:14202422 original size:21 final size:20
Alignment explanation
Indices: 14202394--14202436 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14202384 TAATGAGGTG
*
14202394 AATTTTATATTAGA-TTTTAA
1 AATTTTAT-GTAGATTTTTAA
14202414 AATTATTATGTAGATTTTTAA
1 AATT-TTATGTAGATTTTTAA
14202435 AA
1 AA
14202437 ATAAAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (20 bp):
AATTTTATGTAGATTTTTAA
Found at i:14202613 original size:7 final size:7
Alignment explanation
Indices: 14202601--14202626 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14202591 TAGTCGATTG
14202601 GTATTTA
1 GTATTTA
14202608 GTATTTA
1 GTATTTA
14202615 GTATTTA
1 GTATTTA
14202622 GTATT
1 GTATT
14202627 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:14203304 original size:18 final size:18
Alignment explanation
Indices: 14203277--14203312 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14203267 CAGGTGCGTT
*
14203277 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
14203295 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
14203313 CCATTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:14203921 original size:45 final size:42
Alignment explanation
Indices: 14203838--14204400 Score: 432
Period size: 45 Copynumber: 12.6 Consensus size: 42
14203828 AATACCCTTA
*
14203838 AATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAACTT
1 AATTAAAAACCCTAACCT-A--AACTTAAAAACCCTAACCTAA-TT
* *
14203884 AATTAAAAATCCTAAACCCTAAACTTAAAAACCCTAACTTAATTT
1 AATTAAAAACCCT-AA-CCTAAACTTAAAAACCCTAACCTAA-TT
14203929 AATTAAAAA---T--CCTAAACTTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCTAAACTTAAAAACCCTAACCTAATT
*
14203966 AGATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA--
1 A-ATTAAAAACCCTAACCTAA---ACTTAAAAACCCT-AA-CCTAATT
* * *
14204012 ACTTAAAAACCATAACCTAATTAAATTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCT-A--AACTTAAAAACCCTAACCTAATT
* **
14204057 AAATTAAGAACCCTAAACCCTAAACTTAAAAACCCTAACC-CCTT
1 -AATTAAAAACCCT-AA-CCTAAACTTAAAAACCCTAACCTAATT
14204101 AACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCT-A--AACTTAAAAACCCTAACCTAATT
*
14204147 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAA--
1 -AATTAAAAACCCTAACCTAA---ACTTAAAAACCCT-AACC-TAATT
* * *
14204193 ACTTAAAAACCCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--
1 AATTAAAAA-CCCTAACCTAA---ACTTAAAAACCCT-AA-CCTAATT
* *
14204239 ACTTAAAAACCCTAACCCTCTTAACTTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAA--C-CTAAACTTAAAAACCCTAACCTAATT
* **
14204284 AACTTAAAAACCCTAACCTAATTAAATTAAAAATTCTAACCTAATTT
1 AA-TTAAAAACCCTAACCT-A--AACTTAAAAACCCTAACCTAA-TT
*
14204331 AATTAAAAACCGTAAACCCTAAACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCT-AA-CCTAAACTTAAAAACCCTAACCTAA-TT
*
14204376 AATTAAAAACCCTAAACTAAA-TTAA
1 AATTAAAAACCCTAACCTAAACTTAA
14204401 TAATTTTACT
Statistics
Matches: 437, Mismatches: 34, Indels: 96
0.77 0.06 0.17
Matches are distributed among these distances:
37 3 0.01
38 32 0.07
41 1 0.00
42 8 0.02
43 28 0.06
44 19 0.04
45 153 0.35
46 148 0.34
47 24 0.05
48 21 0.05
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (42 bp):
AATTAAAAACCCTAACCTAAACTTAAAAACCCTAACCTAATT
Found at i:14203924 original size:14 final size:15
Alignment explanation
Indices: 14203897--14203925 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14203887 TAAAAATCCT
14203897 AAACCCTAAACTTAA
1 AAACCCTAAACTTAA
14203912 AAACCCT-AACTTAA
1 AAACCCTAAACTTAA
14203926 TTTAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAAACTTAA
Found at i:14203950 original size:38 final size:38
Alignment explanation
Indices: 14203897--14203981 Score: 136
Period size: 38 Copynumber: 2.2 Consensus size: 38
14203887 TAAAAATCCT
*
14203897 AAACCCTAAACTTAAAAACCCTAACTTAATTTA-ATTAA
1 AAACCCTAAACTTAAAAACCCTAACCTAA-TTAGATTAA
*
14203935 AAATCCTAAACTTAAAAACCCTAACCTAATTAGATTAA
1 AAACCCTAAACTTAAAAACCCTAACCTAATTAGATTAA
14203973 AAACCCTAA
1 AAACCCTAA
14203982 CCTAATTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 3 0.07
38 40 0.93
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.26
Consensus pattern (38 bp):
AAACCCTAAACTTAAAAACCCTAACCTAATTAGATTAA
Found at i:14204401 original size:23 final size:22
Alignment explanation
Indices: 14203838--14204401 Score: 522
Period size: 23 Copynumber: 25.1 Consensus size: 22
14203828 AATACCCTTA
14203838 AATTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCTAATT
14203860 AAATTAAAAACCCTAACCTAACTT
1 -AATTAAAAACCCTAACCTAA-TT
*
14203884 AATTAAAAATCCTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* *
14203906 ACTTAAAAACCCTAACTTAATTT
1 AATTAAAAACCCTAACCTAA-TT
14203929 AATTAAAAA---T--CCTAA--
1 AATTAAAAACCCTAACCTAATT
*
14203944 ACTTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCTAATT
14203966 AGATTAAAAACCCTAACCTAATTT
1 A-ATTAAAAACCCTAACCTAA-TT
14203990 AATTAAAAACCCTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* *
14204012 ACTTAAAAACCATAACCTAATT
1 AATTAAAAACCCTAACCTAATT
14204034 AAATTAAAAACCCTAACCTAATT
1 -AATTAAAAACCCTAACCTAATT
*
14204057 AAATTAAGAACCCTAAACCCTAA--
1 -AATTAAAAACCCT-AA-CCTAATT
* **
14204080 ACTTAAAAACCCTAACC-CCTT
1 AATTAAAAACCCTAACCTAATT
14204101 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
14204124 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
14204147 AAATTAAAAACCCTAACCTAATTT
1 -AATTAAAAACCCTAACCTAA-TT
14204171 AATTAAAAACCCTAAACCTTAA--
1 AATTAAAAACCCT-AACC-TAATT
*
14204193 ACTTAAAAACCCCTAACCTAATTT
1 AATTAAAAA-CCCTAACCTAA-TT
*
14204217 AATTAAAAACCTTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* *
14204239 ACTTAAAAACCCTAACCCT-CTT
1 AATTAAAAACCCTAA-CCTAATT
14204261 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
14204284 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
**
14204307 AAATTAAAAATTCTAACCTAATTT
1 -AATTAAAAACCCTAACCTAA-TT
*
14204331 AATTAAAAACCGTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
*
14204353 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TT
*
14204376 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCT-AATT
14204399 AAT
1 AAT
14204402 AATTTTACTT
Statistics
Matches: 456, Mismatches: 37, Indels: 96
0.77 0.06 0.16
Matches are distributed among these distances:
15 8 0.02
18 5 0.01
20 22 0.05
21 18 0.04
22 87 0.19
23 251 0.55
24 37 0.08
25 28 0.06
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (22 bp):
AATTAAAAACCCTAACCTAATT
Found at i:14204401 original size:68 final size:65
Alignment explanation
Indices: 14203838--14204401 Score: 505
Period size: 68 Copynumber: 8.4 Consensus size: 65
14203828 AATACCCTTA
* *
14203838 AATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAACTTAATTAAAAATCCTAAACCC
1 AATTAAAAACCCTAACCTAATT-AATTAAAAACCCTAACCTAA---ACTTAAAAACCCT-AA-CC
14203903 TAA---
60 TAATTT
* *
14203906 ACTTAAAAACCCTAACTTAATTTAATTAAAAA---T--CCTAAACTTAAAAACCCTAACCTAA-T
1 AATTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAACCTAAACTTAAAAACCCTAACCTAATT
14203965 T
65 T
*
14203966 AGATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCATAACCTA
1 A-ATTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA-CCTAAACTTAAAAACCCTAACCTA
*
14204031 ATTA
62 ATTT
* *
14204035 AATTAAAAACCCTAACCTAATTAAATTAAGAACCCTAAACCCTAAACTTAAAAACCCTAACC--C
1 AATTAAAAACCCTAACCTAATT-AATTAAAAACCCT-AA-CCTAAACTTAAAAACCCTAACCTAA
*
14204098 CTT
63 TTT
*
14204101 AACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
1 AA-TTAAAAACCCTAACCTAATTAA-TTAAAAACCCTAACCT-A--AACTTAAAAACCCTAACCT
14204166 AATTT
61 AATTT
* * *
14204171 AATTAAAAACCCTAAACCTTAA--ACTTAAAAACCCCTAACCTAATTTAATTAAAAACCTTAAAC
1 AATTAAAAACCCT-AACC-TAATTAATTAAAAA-CCCTAACCTAA---ACTTAAAAACCCT-AA-
14204234 CCTAA---
58 CCTAATTT
* *
14204239 ACTTAAAAACCCTAACCCT-CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCT
1 AATTAAAAACCCTAA-CCTAATTAA-TTAAAAACCCTAACCT-A--AACTTAAAAACCCTAACCT
*
14204303 AATTA
61 AATTT
** *
14204308 AATTAAAAATTCTAACCTAATTTAATTAAAAACCGTAAACCCTAAACTTAAAAACCCTAACCTAA
1 AATTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA-CCTAAACTTAAAAACCCTAACCTAA
14204373 TTT
63 TTT
*
14204376 AATTAAAAACCCTAAACTAAATTAAT
1 AATTAAAAACCCTAACCT-AATTAAT
14204402 AATTTTACTT
Statistics
Matches: 420, Mismatches: 33, Indels: 86
0.78 0.06 0.16
Matches are distributed among these distances:
58 5 0.01
59 2 0.00
60 12 0.03
61 29 0.07
63 5 0.01
64 1 0.00
65 4 0.01
66 14 0.03
67 37 0.09
68 213 0.51
69 69 0.16
70 17 0.04
71 12 0.03
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (65 bp):
AATTAAAAACCCTAACCTAATTAATTAAAAACCCTAACCTAAACTTAAAAACCCTAACCTAATTT
Found at i:14204586 original size:61 final size:61
Alignment explanation
Indices: 14204511--14204702 Score: 177
Period size: 61 Copynumber: 3.2 Consensus size: 61
14204501 TACAATTTAT
*
14204511 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAA
* * * ** * ** * * *
14204572 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTTTTACTAACCAT-TAAT-AC-AAT-TTAT
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGA--AA-AATGTTTTGACTAGTACTAA
*
14204627 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTCGTACTAA
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAA
14204688 CAATTAATAATTTTA
1 CAATTAATAATTTTA
14204703 TATAATTTGA
Statistics
Matches: 95, Mismatches: 24, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
55 18 0.19
56 7 0.07
57 9 0.09
58 12 0.13
59 9 0.09
60 7 0.07
61 33 0.35
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (61 bp):
CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAA
Found at i:14204643 original size:116 final size:116
Alignment explanation
Indices: 14204395--14204753 Score: 648
Period size: 116 Copynumber: 3.1 Consensus size: 116
14204385 CCCTAAACTA
* **
14204395 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTTTCTGGTACTAACAA
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG--TTTTGACTGGTACTAACAA
*
14204460 TTAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
64 TTAATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
14204512 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
14204577 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
*
14204628 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTCGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
14204693 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
14204744 AATTAATAAT
1 AATTAATAAT
14204754 ATCACAAAAT
Statistics
Matches: 236, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
115 42 0.18
116 151 0.64
117 43 0.18
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:14208140 original size:125 final size:125
Alignment explanation
Indices: 14207763--14208114 Score: 614
Period size: 125 Copynumber: 2.8 Consensus size: 125
14207753 GCCAGACATG
* *
14207763 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTTACAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
*
14207828 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
* * *
14207888 CGACTATAGCAAAAGCGCGTCCACGAGGGCGTGATTTTACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
14207953 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
* *
14208013 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
* *
14208078 TAGAAGCGATTTTATACTATTTGATTAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
14208115 CTCGAAATTA
Statistics
Matches: 214, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 214 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
Found at i:14221336 original size:27 final size:28
Alignment explanation
Indices: 14221299--14221365 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
14221289 ACCAAAAATT
14221299 TATTTTAAAAATAAAAAA-ATAAAAAAAG
1 TATTTTAAAAATAAAAAATA-AAAAAAAG
14221327 TATTTTAAAAATAAAAAATAAAAAAAAG
1 TATTTTAAAAATAAAAAATAAAAAAAAG
14221355 TATTTTAAAAA
1 TATTTTAAAAA
14221366 GTATTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
TATTTTAAAAATAAAAAATAAAAAAAAG
Found at i:14221364 original size:11 final size:11
Alignment explanation
Indices: 14221350--14221415 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
14221340 AAAAATAAAA
14221350 AAAAGTATTTT
1 AAAAGTATTTT
14221361 AAAAAGTATTTT
1 -AAAAGTATTTT
14221373 -AAA--ATTTT
1 AAAAGTATTTT
***
14221381 AAAA--ATAAA
1 AAAAGTATTTT
14221390 AAAAGTATTTT
1 AAAAGTATTTT
14221401 AAAAGTATTTT
1 AAAAGTATTTT
14221412 AAAA
1 AAAA
14221416 TTAAGAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 5 0.11
9 9 0.20
10 3 0.07
11 17 0.38
12 11 0.24
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:14221364 original size:13 final size:13
Alignment explanation
Indices: 14221348--14221376 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14221338 TAAAAAATAA
14221348 AAAAAAGTATTTT
1 AAAAAAGTATTTT
14221361 -AAAAAGTATTTT
1 AAAAAAGTATTTT
14221373 AAAA
1 AAAA
14221377 TTTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (13 bp):
AAAAAAGTATTTT
Found at i:14221426 original size:40 final size:40
Alignment explanation
Indices: 14221321--14221424 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
14221311 AAAAAAATAA
*
14221321 AAAAAGTATTTTAAAAATAAAAAATAAAAAAAAGTATTTT
1 AAAAAGTATTTTAAAATTAAAAAATAAAAAAAAGTATTTT
*
14221361 AAAAAGTATTTTAAAATTTTAAAAAT-AAAAAAAGTATTTT
1 AAAAAGTATTTTAAAA-TTAAAAAATAAAAAAAAGTATTTT
14221401 -AAAAGTATTTTAAAATTAAGAAAA
1 AAAAAGTATTTTAAAATTAA-AAAA
14221425 ATCATGATGC
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
38 3 0.05
39 19 0.32
40 30 0.51
41 7 0.12
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (40 bp):
AAAAAGTATTTTAAAATTAAAAAATAAAAAAAAGTATTTT
Found at i:14222212 original size:33 final size:33
Alignment explanation
Indices: 14222145--14222217 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
14222135 GGGAGAAACC
*
14222145 AACAATAATCACTGTTTTAGTTCTCAAATATGAAA
1 AACAA-AATCACTGTTTTAGTTCCCAAATATG-AA
* *
14222180 AACAAAATGACTGTTTT-GTTCCCAAATCTGAA
1 AACAAAATCACTGTTTTAGTTCCCAAATATGAA
14222212 AACAAA
1 AACAAA
14222218 TAAGGTTGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 8 0.23
33 11 0.31
34 11 0.31
35 5 0.14
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (33 bp):
AACAAAATCACTGTTTTAGTTCCCAAATATGAA
Found at i:14228604 original size:28 final size:27
Alignment explanation
Indices: 14228567--14228625 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 27
14228557 AAAAAAATTT
14228567 TAAAAAAATAAAAAAAGTATTTTAAAAA
1 TAAAAAAATAAAAAAA-TATTTTAAAAA
14228595 TAAAAAAATAAAAAAATATTTTAAAAA
1 TAAAAAAATAAAAAAATATTTTAAAAA
14228622 TAAA
1 TAAA
14228626 TATATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (27 bp):
TAAAAAAATAAAAAAATATTTTAAAAA
Found at i:14228607 original size:27 final size:28
Alignment explanation
Indices: 14228567--14228625 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
14228557 AAAAAAATTT
*
14228567 TAAAAAAATAAAAAAAGTATTTTAAAAA
1 TAAAAAAATAAAAAAAATATTTTAAAAA
14228595 TAAAAAAAT-AAAAAAATATTTTAAAAA
1 TAAAAAAATAAAAAAAATATTTTAAAAA
14228622 TAAA
1 TAAA
14228626 TATATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (28 bp):
TAAAAAAATAAAAAAAATATTTTAAAAA
Found at i:14228621 original size:20 final size:19
Alignment explanation
Indices: 14228557--14228604 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
14228547 AATAAACACC
14228557 AAAAAAAT-TTTAAAAAAAT
1 AAAAAAATATTT-AAAAAAT
*
14228576 AAAAAAAGTATTTTAAAAAT
1 AAAAAAA-TATTTAAAAAAT
14228596 AAAAAAATA
1 AAAAAAATA
14228605 AAAAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 14 0.54
21 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAAATATTTAAAAAAT
Found at i:14231504 original size:26 final size:26
Alignment explanation
Indices: 14231475--14231540 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
14231465 TTTACATCGT
*
14231475 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATAGGCC
14231501 TGCTCACACGAGCTGTGAAATAGGCC
1 TGCTCACACGAGCTGTGAAATAGGCC
* *
14231527 TACTCACATGAGCT
1 TGCTCACACGAGCT
14231541 ATGGGTTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.21
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATAGGCC
Found at i:14235603 original size:42 final size:42
Alignment explanation
Indices: 14235547--14235631 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
14235537 TTGAAGTTTG
14235547 GAAAGAGGGGAGATCCACGTGGGGTCTGCCTGTAAAGTAAAA
1 GAAAGAGGGGAGATCCACGTGGGGTCTGCCTGTAAAGTAAAA
*
14235589 GAAAGAGTGGAGATCCACGTGGGGTCTGCCTGTAAAGTAAAA
1 GAAAGAGGGGAGATCCACGTGGGGTCTGCCTGTAAAGTAAAA
14235631 G
1 G
14235632 TTATAATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.35, T:0.18
Consensus pattern (42 bp):
GAAAGAGGGGAGATCCACGTGGGGTCTGCCTGTAAAGTAAAA
Found at i:14238535 original size:33 final size:33
Alignment explanation
Indices: 14238497--14238563 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
14238487 ATCTTTATGC
*
14238497 CTTAAATTCAAAATGATTTTTATCT-AGGGGGAG
1 CTTAAATTCAAAATGACTTTTAT-TAAGGGGGAG
**
14238530 CTTAAATTGGAAATGACTTTTATTAAGGGGGAG
1 CTTAAATTCAAAATGACTTTTATTAAGGGGGAG
14238563 C
1 C
14238564 AACCTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (33 bp):
CTTAAATTCAAAATGACTTTTATTAAGGGGGAG
Found at i:14241005 original size:33 final size:33
Alignment explanation
Indices: 14240967--14241033 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
14240957 ATCTTTATGC
*
14240967 CTTAAATTCAAAATGATTTTTATCT-AGGGGGAG
1 CTTAAATTCAAAATGACTTTTAT-TAAGGGGGAG
**
14241000 CTTAAATTGGAAATGACTTTTATTAAGGGGGAG
1 CTTAAATTCAAAATGACTTTTATTAAGGGGGAG
14241033 C
1 C
14241034 AACCTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (33 bp):
CTTAAATTCAAAATGACTTTTATTAAGGGGGAG
Found at i:14242388 original size:20 final size:20
Alignment explanation
Indices: 14242365--14242403 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14242355 TATCGAAACT
*
14242365 TTTCTTAAGGTATCGATATA
1 TTTCCTAAGGTATCGATATA
* *
14242385 TTTCCTATGGTATTGATAT
1 TTTCCTAAGGTATCGATAT
14242404 TCCTGCTCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTCCTAAGGTATCGATATA
Found at i:14247788 original size:69 final size:69
Alignment explanation
Indices: 14247707--14247839 Score: 257
Period size: 69 Copynumber: 1.9 Consensus size: 69
14247697 TAATCTTTGA
*
14247707 TAAGTCTAGATGTAATCAACCTGCTGGCAAATTACATACACAACTTTGAGTTTGCTATTTTTTTT
1 TAAGTCTAGATGTAATCAACCCGCTGGCAAATTACATACACAACTTTGAGTTTGCTATTTTTTTT
14247772 GATC
66 GATC
14247776 TAAGTCTAGATGTAATCAACCCGCTGGCAAATTACATACACAACTTTGAGTTTGCTATTTTTTT
1 TAAGTCTAGATGTAATCAACCCGCTGGCAAATTACATACACAACTTTGAGTTTGCTATTTTTTT
14247840 GGCATGAGGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (69 bp):
TAAGTCTAGATGTAATCAACCCGCTGGCAAATTACATACACAACTTTGAGTTTGCTATTTTTTTT
GATC
Found at i:14248035 original size:22 final size:20
Alignment explanation
Indices: 14247997--14248043 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
14247987 GGACGTACTT
14247997 TATAAAAATTTTAAAAAAAA
1 TATAAAAATTTTAAAAAAAA
* *
14248017 TATAAAATTATTTTTAAAAAAT
1 TATAAAA--ATTTTAAAAAAAA
14248039 TATAA
1 TATAA
14248044 TTTTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
22 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAATTTTAAAAAAAA
Found at i:14250442 original size:3 final size:3
Alignment explanation
Indices: 14250434--14250485 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
14250424 GAGTATACAA
*
14250434 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AGG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14250482 AAG A
1 AAG A
14250486 GTCAAAAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14260036 original size:20 final size:19
Alignment explanation
Indices: 14259998--14260038 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14259988 AAAGTAGTGA
*
14259998 AAATTTATTTTCTTAGAAT
1 AAATTTATTTTCTGAGAAT
*
14260017 AAATTCTATTTTCTGGGAAT
1 AAATT-TATTTTCTGAGAAT
14260037 AA
1 AA
14260039 TAATTTCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (19 bp):
AAATTTATTTTCTGAGAAT
Found at i:14262624 original size:20 final size:19
Alignment explanation
Indices: 14262595--14262638 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14262585 AAAAAAATCC
*
14262595 AAATAGTTTTCAGAAATTAA
1 AAATAATTTTCA-AAATTAA
*
14262615 AAATAATTTTTAAAATTAA
1 AAATAATTTTCAAAATTAA
14262634 AAATA
1 AAATA
14262639 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (19 bp):
AAATAATTTTCAAAATTAA
Found at i:14262641 original size:18 final size:19
Alignment explanation
Indices: 14262608--14262647 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
14262598 TAGTTTTCAG
*
14262608 AAATTAAAAATAATTTTTA
1 AAATTAAAAATAATTTATA
14262627 AAATTAAAAAT-ATTTATA
1 AAATTAAAAATAATTTATA
14262645 AAA
1 AAA
14262648 ATTCCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAAAAATAATTTATA
Found at i:14262692 original size:18 final size:18
Alignment explanation
Indices: 14262640--14262693 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
14262630 TTAAAAATAT
* *
14262640 TTATAAAAATTCCAAAAT
1 TTATAAAAATTTCAAAAA
* ** *
14262658 TTATATATTTTTTAAAAA
1 TTATAAAAATTTCAAAAA
14262676 TTATAAAAATTTCAAAAA
1 TTATAAAAATTTCAAAAA
14262694 AATCTAAAAA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
TTATAAAAATTTCAAAAA
Found at i:14264122 original size:2 final size:2
Alignment explanation
Indices: 14264115--14264145 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14264105 AAATTTTCCT
14264115 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
14264146 TTTTCTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14267864 original size:34 final size:34
Alignment explanation
Indices: 14267819--14267920 Score: 105
Period size: 34 Copynumber: 3.0 Consensus size: 34
14267809 GCATGTTCAA
** *
14267819 AACAGATCAATACGGTGGCATTTAATATGCTTTT
1 AACAGATCAATACGGTGGCAAATAATATGCTTAT
* * * **
14267853 AACAGAACAATATGGTAGCAACCAATATGCTTAT
1 AACAGATCAATACGGTGGCAAATAATATGCTTAT
* * *
14267887 AACAGTTCGATACGGTGGTAAATAATATGCTTAT
1 AACAGATCAATACGGTGGCAAATAATATGCTTAT
14267921 CATGTGGTTG
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (34 bp):
AACAGATCAATACGGTGGCAAATAATATGCTTAT
Found at i:14270714 original size:39 final size:39
Alignment explanation
Indices: 14270658--14270823 Score: 224
Period size: 39 Copynumber: 4.3 Consensus size: 39
14270648 TATATAATTA
* * * * *
14270658 TACCCCTGATCGCACTTACGTGCCCTTGTTGTATTTTGG
1 TACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCGG
* *
14270697 CACCCCTGATCGTACTTACCTGCCCCTATTGTACTTCGG
1 TACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCGG
* *
14270736 TACCCTTGATCGTACTTACGTGCCGCTATTGTACTTCGG
1 TACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCGG
* *
14270775 TACCCCTGATCGAACTTACGTGCCCCTGTTGTACTTCGG
1 TACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCGG
*
14270814 TACTCCTGAT
1 TACCCCTGAT
14270824 AGCACTTTCA
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.15, C:0.32, G:0.19, T:0.34
Consensus pattern (39 bp):
TACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCGG
Found at i:14270722 original size:20 final size:20
Alignment explanation
Indices: 14270699--14270802 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
14270689 TATTTTGGCA
*
14270699 CCCCTGATCGTACTTACCTG
1 CCCCTGATCGTACTTACGTG
* *
14270719 CCCCT-ATTGTACTT-CGGTA
1 CCCCTGATCGTACTTAC-GTG
*
14270738 CCCTTGATCGTACTTACGTG
1 CCCCTGATCGTACTTACGTG
* * *
14270758 CCGCT-ATTGTACTT-CGGTA
1 CCCCTGATCGTACTTAC-GTG
*
14270777 CCCCTGATCGAACTTACGTG
1 CCCCTGATCGTACTTACGTG
14270797 CCCCTG
1 CCCCTG
14270803 TTGTACTTCG
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
18 2 0.03
19 27 0.42
20 33 0.52
21 2 0.03
ACGTcount: A:0.15, C:0.35, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCCTGATCGTACTTACGTG
Found at i:14282244 original size:11 final size:11
Alignment explanation
Indices: 14282224--14282259 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
14282214 CGAATTTTTG
*
14282224 AAAACAAAATA
1 AAAATAAAATA
*
14282235 AAAATCAAATA
1 AAAATAAAATA
14282246 AAAATAAAATA
1 AAAATAAAATA
14282257 AAA
1 AAA
14282260 TCCCACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:14287549 original size:3 final size:3
Alignment explanation
Indices: 14287541--14287565 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14287531 GTGCAAACAA
14287541 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14287566 CTAAAGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14295452 original size:45 final size:46
Alignment explanation
Indices: 14295379--14295474 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 46
14295369 GCATTGACCT
* *
14295379 AAAATCAATAGTTCAATAACTTATATGCAA-AGAATTAACAAAA-AA
1 AAAATCAATAGTTCAACAACTTACATGCAACA-AATTAACAAAATAA
** *
14295424 AAAATCAATAGTTTGACAATTTACATGCAACAAATTAACAAAATAA
1 AAAATCAATAGTTCAACAACTTACATGCAACAAATTAACAAAATAA
14295470 AAAAT
1 AAAAT
14295475 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
45 36 0.82
46 8 0.18
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.25
Consensus pattern (46 bp):
AAAATCAATAGTTCAACAACTTACATGCAACAAATTAACAAAATAA
Found at i:14295500 original size:6 final size:7
Alignment explanation
Indices: 14295463--14295499 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
14295453 ACAAATTAAC
14295463 AAAATAA
1 AAAATAA
14295470 AAAATAA
1 AAAATAA
14295477 AAAATAA
1 AAAATAA
14295484 AAAAT-A
1 AAAATAA
14295490 AAAATAA
1 AAAATAA
14295497 AAA
1 AAA
14295500 TTCAAATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:14295884 original size:30 final size:30
Alignment explanation
Indices: 14295850--14295906 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14295840 TTAATTAATG
14295850 TTTCCTCTTCTTTCCTTATTTT-TTTTTGTT
1 TTTCCTCTTC-TTCCTTATTTTCTTTTTGTT
* *
14295880 TTTCCTGTTCTTCCTTCTTTTCTTTTT
1 TTTCCTCTTCTTCCTTATTTTCTTTTT
14295907 CATTTCCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.02, C:0.23, G:0.04, T:0.72
Consensus pattern (30 bp):
TTTCCTCTTCTTCCTTATTTTCTTTTTGTT
Found at i:14295917 original size:23 final size:25
Alignment explanation
Indices: 14295873--14295925 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
14295863 CCTTATTTTT
* * *
14295873 TTTTGTTTTTCCTGTTCTTCC-TTC
1 TTTTCTTTTTCATGTTCCTCCTTTC
14295897 TTTTCTTTTTCAT-TTCCTCCTTTC
1 TTTTCTTTTTCATGTTCCTCCTTTC
14295921 TTTTC
1 TTTTC
14295926 CAATTACTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.02, C:0.26, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTTCTTTTTCATGTTCCTCCTTTC
Found at i:14297125 original size:18 final size:18
Alignment explanation
Indices: 14297092--14297144 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
14297082 GTTCACCTAA
*
14297092 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
14297111 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
14297129 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
14297145 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:14297266 original size:9 final size:9
Alignment explanation
Indices: 14297248--14297332 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
14297238 GTAGTGATTC
*
14297248 AATTCAGTT
1 AATTCGGTT
14297257 AATTCGGTT
1 AATTCGGTT
* *
14297266 AATTTGGGT
1 AATTCGGTT
*
14297275 GATTCGGTT
1 AATTCGGTT
*
14297284 AATTCGGGT
1 AATTCGGTT
*
14297293 AATTTGGTT
1 AATTCGGTT
*
14297302 AATTCGATT
1 AATTCGGTT
14297311 AATTCGGTT
1 AATTCGGTT
14297320 AATTCGGTT
1 AATTCGGTT
14297329 AATT
1 AATT
14297333 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14304167 original size:5 final size:6
Alignment explanation
Indices: 14304152--14304176 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14304142 CGTTTTTCAA
14304152 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
14304177 TCCATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:14304246 original size:16 final size:16
Alignment explanation
Indices: 14304222--14304274 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
14304212 AAAAATATTA
*
14304222 ATATGTATACATACAT
1 ATATATATACATACAT
*
14304238 ATATATATACA-AGA-
1 ATATATATACATACAT
* *
14304252 ATAAATATATATACAT
1 ATATATATACATACAT
14304268 ATATATA
1 ATATATA
14304275 GATTATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 9 0.31
15 4 0.14
16 16 0.55
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:14304983 original size:28 final size:28
Alignment explanation
Indices: 14304939--14304993 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14304929 TCGTAGCATA
* **
14304939 TAGATAACAACATATAATGAAATAACTG
1 TAGATAACAACAGATAAACAAATAACTG
14304967 TAGATTAACAA-AGATAAACAAATAACT
1 TAGA-TAACAACAGATAAACAAATAACT
14304994 ATCAACCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.24
Consensus pattern (28 bp):
TAGATAACAACAGATAAACAAATAACTG
Found at i:14305965 original size:217 final size:216
Alignment explanation
Indices: 14305587--14306132 Score: 806
Period size: 217 Copynumber: 2.5 Consensus size: 216
14305577 CTGCAGTCCA
14305587 CTCCACTGCAA-TGTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 CTCCACTGCAACT-TCAGG-AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
*** * * ** *
14305651 AGATCTGTGATTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGCCTTAATCTGC
64 AGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATAATCAGCCTTAACCTGC
* * * **
14305716 TCCACTGTAATTTCAGGGAGATAAGATTTGCCATATTCAGTCTGCCTTACTGCAACTTCAGGAGG
129 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATATTCAGTCTACCCCACTGCAACTTCAGGAGG
*
14305781 ATAAGACTTGCTTACTTAGTTTG
194 ATAAGACTTGCTTACTTAGTCTG
* * *
14305804 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTTTCTGCAACTTCAGAAAGAAAA
1 CTCCACTGCAACTTC-AGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * *
14305869 GAGCCAAGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATAATCAGCTTTAACCTGCT
65 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATAATCAGCCTTAACCTGCT
* *
14305934 CCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTACCCCACTGCAACTTCAGGAGGA
130 CCACTGCAACTTCAGGGAGATAAGATTTGCCATATTCAGTCTACCCCACTGCAACTTCAGGAGGA
*
14305999 TAAGATTTGCTTACTTAGTCTG
195 TAAGACTTGCTTACTTAGTCTG
* * * *
14306021 CCCCACTGCACCTTCAGCGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTTAGAGAGATAA
1 CTCCACTGCAACTTCAG-GAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
14306086 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
65 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
14306133 TATTGGCCAC
Statistics
Matches: 294, Mismatches: 32, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
216 2 0.01
217 288 0.98
218 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (216 bp):
CTCCACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATAATCAGCCTTAACCTGCTC
CACTGCAACTTCAGGGAGATAAGATTTGCCATATTCAGTCTACCCCACTGCAACTTCAGGAGGAT
AAGACTTGCTTACTTAGTCTG
Found at i:14306036 original size:44 final size:45
Alignment explanation
Indices: 14305929--14306047 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
14305919 CAGCTTTAAC
* *
14305929 CTGCTCCACTGCAACTTCAGG-GAGATAAGGTTTGCCATCTTCAGT
1 CTGCCCCACTGCAACTTCAGGAG-GATAAGATTTGCCATCTTCAGT
* *
14305974 CTACCCCACTGCAACTTCAGGAGGATAAGATTTG-CTTACTT-AGT
1 CTGCCCCACTGCAACTTCAGGAGGATAAGATTTGCCAT-CTTCAGT
*
14306018 CTGCCCCACTGCACCTTCAGCGA-GATAAGA
1 CTGCCCCACTGCAACTTCAG-GAGGATAAGA
14306048 CTAGATGCGA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
44 30 0.46
45 34 0.52
46 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (45 bp):
CTGCCCCACTGCAACTTCAGGAGGATAAGATTTGCCATCTTCAGT
Found at i:14312531 original size:217 final size:217
Alignment explanation
Indices: 14312153--14312698 Score: 826
Period size: 217 Copynumber: 2.5 Consensus size: 217
14312143 CTGCAGTCCA
14312153 CTCCACTGCAA-TGTC-AGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
1 CTCCACTGCAACT-TCAAGG-AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
*** * * ** *
14312216 AAGATCTGTGATTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGCCTTAATCTG
64 AAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATAATCAGCCTTAACCTG
* * * **
14312281 CTCCACTGTAATTTCAGGGAGATAAGATTTGCCATATTCAGTCTGCCTTACTGCAACTTCAGGAG
129 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATATTCAGTCTACCCCACTGCAACTTCAGGAG
*
14312346 GATAAGACTTGCTTACTTAGTTTG
194 GATAAGACTTGCTTACTTAGTCTG
* * *
14312370 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTTTCTGCAACTTCAGAAAGAAAA
1 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * *
14312435 GAGCCAAGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATAATCAGCTTTAACCTGCT
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATAATCAGCCTTAACCTGCT
* *
14312500 CCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTACCCCACTGCAACTTCAGGAGGA
131 CCACTGCAACTTCAGGGAGATAAGATTTGCCATATTCAGTCTACCCCACTGCAACTTCAGGAGGA
*
14312565 TAAGATTTGCTTACTTAGTCTG
196 TAAGACTTGCTTACTTAGTCTG
* * *
14312587 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTTAGAGAGATAA
1 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
14312652 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
14312699 TATTGGCCAC
Statistics
Matches: 296, Mismatches: 31, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
217 292 0.99
218 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (217 bp):
CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATAATCAGCCTTAACCTGCT
CCACTGCAACTTCAGGGAGATAAGATTTGCCATATTCAGTCTACCCCACTGCAACTTCAGGAGGA
TAAGACTTGCTTACTTAGTCTG
Found at i:14312600 original size:44 final size:45
Alignment explanation
Indices: 14312190--14312613 Score: 194
Period size: 44 Copynumber: 9.7 Consensus size: 45
14312180 CTAGATGCGA
* * * ** * *
14312190 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGAT-TTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
* * * * *
14312233 TCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC--CTT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGCCATCTTCAG
* * *
14312277 TCTGCTCCACTGTAATTTCAGGGAGATAAGATTTGCCATATTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
* * *
14312322 TCTGC-CTTACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAG
* * * * *
14312366 TTTGCTCCACTGCAACTTCAAGGAGATAAGACTAG--A--TGC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
** ** * * *
14312406 ATCTGCT-TTCTGCAACTTCAGAAAGAAAAGA---GCCAAGAT-TTTAA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCC---ATCTTCAG
** * * * * *
14312450 TCCACTCCACTGCAACTTCAGGGAGATAGGATAAT--CAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGCCATCTTCAG
* *
14312494 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
* * *
14312539 TCTACCCCACTGCAACTTCA-GGAGGATAAGATTTG-CTTACTT-AG
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAG
14312583 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
14312614 CTAGATGCGA
Statistics
Matches: 288, Mismatches: 61, Indels: 63
0.70 0.15 0.15
Matches are distributed among these distances:
37 1 0.00
40 20 0.07
41 5 0.02
42 5 0.02
43 13 0.05
44 167 0.58
45 74 0.26
46 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
Found at i:14317820 original size:27 final size:26
Alignment explanation
Indices: 14317772--14317823 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
14317762 ACGCGCCCTT
* * *
14317772 CTTCTTTCCTGTCTTTTTTCTAGCTC
1 CTTCTTTCCTGTCCTCTGTCTAGCTC
14317798 CTTCTTTCTCTGTCCTCTGTCTAGCT
1 CTTCTTTC-CTGTCCTCTGTCTAGCT
14317824 TGTATCCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.04, C:0.33, G:0.10, T:0.54
Consensus pattern (26 bp):
CTTCTTTCCTGTCCTCTGTCTAGCTC
Found at i:14323252 original size:527 final size:527
Alignment explanation
Indices: 14322259--14323312 Score: 2108
Period size: 527 Copynumber: 2.0 Consensus size: 527
14322249 GCTACTATCT
14322259 CATTTAGTGGTGAATAATTTTCAGAGAAAACCCGATACGAAACCTTATCCACCTTCCAAAAGTGA
1 CATTTAGTGGTGAATAATTTTCAGAGAAAACCCGATACGAAACCTTATCCACCTTCCAAAAGTGA
14322324 CTGTGAAACCATACAAGTAGAAGCTGTGCACATCCAATAAATCTGCCCTCACCTGTTTCTCGGCA
66 CTGTGAAACCATACAAGTAGAAGCTGTGCACATCCAATAAATCTGCCCTCACCTGTTTCTCGGCA
14322389 TGCACTCAATAACCTGAAGGTTTCTGCCAAAATTACTGGAATCGGTGTAACCTTCTTATCGAGCC
131 TGCACTCAATAACCTGAAGGTTTCTGCCAAAATTACTGGAATCGGTGTAACCTTCTTATCGAGCC
14322454 GGTCAAATGAATCGGTGACTGCTTCATCCACATGCCCTAAGGCCTTGGGGAAGACAACCAAGCCA
196 GGTCAAATGAATCGGTGACTGCTTCATCCACATGCCCTAAGGCCTTGGGGAAGACAACCAAGCCA
14322519 TATATACTTAAAGCAAAGACATCTAACCTCTTTCTCACGTCTGGGTGCATTATAATTGCATCTTT
261 TATATACTTAAAGCAAAGACATCTAACCTCTTTCTCACGTCTGGGTGCATTATAATTGCATCTTT
14322584 CAAACTTCTCCAAGGAACGTATTTACTATCCCCTTTTTACTTAATCCGTGCAGCAACCCACTGCT
326 CAAACTTCTCCAAGGAACGTATTTACTATCCCCTTTTTACTTAATCCGTGCAGCAACCCACTGCT
14322649 CACTCCTCCCTGTTATACCCATCAGCTTCTTTGAAAAGGTTGGCATATTTACCGCTCTCGAGTAA
391 CACTCCTCCCTGTTATACCCATCAGCTTCTTTGAAAAGGTTGGCATATTTACCGCTCTCGAGTAA
14322714 ACCCTGTCCACTTGAAACTTTGAACATCGGAGTAAAGCCACATATTCTTCTATTGTAGGCACCAA
456 ACCCTGTCCACTTGAAACTTTGAACATCGGAGTAAAGCCACATATTCTTCTATTGTAGGCACCAA
14322779 ATTGACC
521 ATTGACC
14322786 CATTTAGTGGTGAATAATTTTCAGAGAAAACCCGATACGAAACCTTATCCACCTTCCAAAAGTGA
1 CATTTAGTGGTGAATAATTTTCAGAGAAAACCCGATACGAAACCTTATCCACCTTCCAAAAGTGA
14322851 CTGTGAAACCATACAAGTAGAAGCTGTGCACATCCAATAAATCTGCCCTCACCTGTTTCTCGGCA
66 CTGTGAAACCATACAAGTAGAAGCTGTGCACATCCAATAAATCTGCCCTCACCTGTTTCTCGGCA
14322916 TGCACTCAATAACCTGAAGGTTTCTGCCAAAATTACTGGAATCGGTGTAACCTTCTTATCGAGCC
131 TGCACTCAATAACCTGAAGGTTTCTGCCAAAATTACTGGAATCGGTGTAACCTTCTTATCGAGCC
14322981 GGTCAAATGAATCGGTGACTGCTTCATCCACATGCCCTAAGGCCTTGGGGAAGACAACCAAGCCA
196 GGTCAAATGAATCGGTGACTGCTTCATCCACATGCCCTAAGGCCTTGGGGAAGACAACCAAGCCA
14323046 TATATACTTAAAGCAAAGACATCTAACCTCTTTCTCACGTCTGGGTGCATTATAATTGCATCTTT
261 TATATACTTAAAGCAAAGACATCTAACCTCTTTCTCACGTCTGGGTGCATTATAATTGCATCTTT
14323111 CAAACTTCTCCAAGGAACGTATTTACTATCCCCTTTTTACTTAATCCGTGCAGCAACCCACTGCT
326 CAAACTTCTCCAAGGAACGTATTTACTATCCCCTTTTTACTTAATCCGTGCAGCAACCCACTGCT
14323176 CACTCCTCCCTGTTATACCCATCAGCTTCTTTGAAAAGGTTGGCATATTTACCGCTCTCGAGTAA
391 CACTCCTCCCTGTTATACCCATCAGCTTCTTTGAAAAGGTTGGCATATTTACCGCTCTCGAGTAA
14323241 ACCCTGTCCACTTGAAACTTTGAACATCGGAGTAAAGCCACATATTCTTCTATTGTAGGCACCAA
456 ACCCTGTCCACTTGAAACTTTGAACATCGGAGTAAAGCCACATATTCTTCTATTGTAGGCACCAA
14323306 ATTGACC
521 ATTGACC
14323313 TTCCCAAACG
Statistics
Matches: 527, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
527 527 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (527 bp):
CATTTAGTGGTGAATAATTTTCAGAGAAAACCCGATACGAAACCTTATCCACCTTCCAAAAGTGA
CTGTGAAACCATACAAGTAGAAGCTGTGCACATCCAATAAATCTGCCCTCACCTGTTTCTCGGCA
TGCACTCAATAACCTGAAGGTTTCTGCCAAAATTACTGGAATCGGTGTAACCTTCTTATCGAGCC
GGTCAAATGAATCGGTGACTGCTTCATCCACATGCCCTAAGGCCTTGGGGAAGACAACCAAGCCA
TATATACTTAAAGCAAAGACATCTAACCTCTTTCTCACGTCTGGGTGCATTATAATTGCATCTTT
CAAACTTCTCCAAGGAACGTATTTACTATCCCCTTTTTACTTAATCCGTGCAGCAACCCACTGCT
CACTCCTCCCTGTTATACCCATCAGCTTCTTTGAAAAGGTTGGCATATTTACCGCTCTCGAGTAA
ACCCTGTCCACTTGAAACTTTGAACATCGGAGTAAAGCCACATATTCTTCTATTGTAGGCACCAA
ATTGACC
Found at i:14325416 original size:16 final size:16
Alignment explanation
Indices: 14325392--14325444 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
14325382 AAAAATATTA
*
14325392 ATATGTATACATACAT
1 ATATATATACATACAT
*
14325408 ATATATATACA-AGA-
1 ATATATATACATACAT
* *
14325422 ATAAATATATATACAT
1 ATATATATACATACAT
14325438 ATATATA
1 ATATATA
14325445 GATTATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 9 0.31
15 4 0.14
16 16 0.55
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:14326130 original size:28 final size:28
Alignment explanation
Indices: 14326086--14326140 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
14326076 CCGTAGCATA
* *
14326086 TAGATAACAACATATAATGAAATAACTG
1 TAGATAACAACAGATAAAGAAATAACTG
14326114 TAGATTAACAA-AGATAAAGAAATAACT
1 TAGA-TAACAACAGATAAAGAAATAACT
14326141 ATCAACCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (28 bp):
TAGATAACAACAGATAAAGAAATAACTG
Found at i:14340249 original size:13 final size:13
Alignment explanation
Indices: 14340227--14340267 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
14340217 CATAATTTTT
14340227 TTTAAGTTTTTAC
1 TTTAAGTTTTTAC
14340240 TTTAA-TTTTT--
1 TTTAAGTTTTTAC
14340250 TTTAAGTTTTTAC
1 TTTAAGTTTTTAC
14340263 TTTAA
1 TTTAA
14340268 ATAATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.20
11 5 0.20
12 5 0.20
13 10 0.40
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (13 bp):
TTTAAGTTTTTAC
Found at i:14340249 original size:23 final size:23
Alignment explanation
Indices: 14340219--14340267 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
14340209 TAATCATACA
14340219 TAATTTTTTTTAAGTTTTTACTT
1 TAATTTTTTTTAAGTTTTTACTT
14340242 TAATTTTTTTTAAGTTTTTACTT
1 TAATTTTTTTTAAGTTTTTACTT
14340265 TAA
1 TAA
14340268 ATAATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
TAATTTTTTTTAAGTTTTTACTT
Found at i:14340454 original size:28 final size:27
Alignment explanation
Indices: 14340406--14340459 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
14340396 CCATCAAAAG
*
14340406 ATTAATTAGATCATTATTTTATATAAGA
1 ATTAATTAGATCATTAATTTA-ATAAGA
*
14340434 ATTAATTA-ATTACTTAATTTAATAAG
1 ATTAATTAGATCA-TTAATTTAATAAG
14340460 TTTTAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (27 bp):
ATTAATTAGATCATTAATTTAATAAGA
Found at i:14340808 original size:12 final size:12
Alignment explanation
Indices: 14340791--14340815 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14340781 TTTTCCCCTA
14340791 ATAATACATATT
1 ATAATACATATT
14340803 ATAATACATATT
1 ATAATACATATT
14340815 A
1 A
14340816 ATGTATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATACATATT
Found at i:14342711 original size:14 final size:15
Alignment explanation
Indices: 14342684--14342714 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14342674 AGTACAGTAA
14342684 AATATTTAAAAAAAT
1 AATATTTAAAAAAAT
14342699 AATATTTAAAAAAAT
1 AATATTTAAAAAAAT
14342714 A
1 A
14342715 TACGTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATTTAAAAAAAT
Found at i:14343793 original size:20 final size:18
Alignment explanation
Indices: 14343755--14343789 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
14343745 GTTCAAAACC
14343755 TTTCGGTTAACCGAAAAT
1 TTTCGGTTAACCGAAAAT
14343773 TTTCGGTTAACCGAAAA
1 TTTCGGTTAACCGAAAA
14343790 AATTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (18 bp):
TTTCGGTTAACCGAAAAT
Found at i:14344014 original size:9 final size:9
Alignment explanation
Indices: 14343998--14344049 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
14343988 GGTATTTTTC
14343998 GGTAATTCG
1 GGTAATTCG
*
14344007 GTTAATTCG
1 GGTAATTCG
*
14344016 GTTAATTCG
1 GGTAATTCG
14344025 GGTAATTCG
1 GGTAATTCG
14344034 GGTAATTCG
1 GGTAATTCG
14344043 GGTAATT
1 GGTAATT
14344050 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:14344227 original size:12 final size:12
Alignment explanation
Indices: 14344210--14344234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14344200 AGTAATTTCG
14344210 GGTCGGTTAACC
1 GGTCGGTTAACC
14344222 GGTCGGTTAACC
1 GGTCGGTTAACC
14344234 G
1 G
14344235 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:14355617 original size:31 final size:31
Alignment explanation
Indices: 14355582--14355652 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
14355572 ATATAGATGC
*
14355582 CACATGATACTTTTTAATTAAGTTAAAGTAT
1 CACATGACACTTTTTAATTAAGTTAAAGTAT
*
14355613 CACATGACACTTTTTAATTGAGTTAAAGTAT
1 CACATGACACTTTTTAATTAAGTTAAAGTAT
14355644 CACATGACA
1 CACATGACA
14355653 TTTAATTTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (31 bp):
CACATGACACTTTTTAATTAAGTTAAAGTAT
Found at i:14355870 original size:15 final size:15
Alignment explanation
Indices: 14355850--14355880 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14355840 GGAAAATGAC
14355850 TCATTTTCTTGATTA
1 TCATTTTCTTGATTA
*
14355865 TCATTTTTTTGATTA
1 TCATTTTCTTGATTA
14355880 T
1 T
14355881 GTACGTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TCATTTTCTTGATTA
Found at i:14370208 original size:9 final size:10
Alignment explanation
Indices: 14370188--14370216 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
14370178 CGAATAATGT
14370188 TAATAAATAA
1 TAATAAATAA
14370198 TAATAAA-AA
1 TAATAAATAA
14370207 TAATAAATAA
1 TAATAAATAA
14370217 ATACATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAATAAATAA
Found at i:14381895 original size:19 final size:18
Alignment explanation
Indices: 14381871--14381915 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
14381861 ATTATTGATA
*
14381871 ATTTTTTATAATAATTAAT
1 ATTTTTTA-AAAAATTAAT
14381890 ATTTTTTAAAAAATTAA-
1 ATTTTTTAAAAAATTAAT
*
14381907 ATTATTTAA
1 ATTTTTTAA
14381916 TTGTGAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTTAAAAAATTAAT
Found at i:14381904 original size:18 final size:17
Alignment explanation
Indices: 14381870--14381915 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
14381860 TATTATTGAT
*
14381870 AATTTTTTATAATAATTA
1 AATTTTTTA-AAAAATTA
14381888 ATATTTTTTAAAAAATTA
1 A-ATTTTTTAAAAAATTA
*
14381906 AATTATTTAA
1 AATTTTTTAA
14381916 TTGTGAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 9 0.36
19 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTTTTTAAAAAATTA
Found at i:14385876 original size:16 final size:18
Alignment explanation
Indices: 14385850--14385882 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14385840 TAAAATTGAG
14385850 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
14385867 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
14385883 GTTAATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:14387977 original size:5 final size:5
Alignment explanation
Indices: 14387967--14388002 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
14387957 ATAATAGATT
14387967 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
14388003 ATCACTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:14388978 original size:14 final size:16
Alignment explanation
Indices: 14388944--14388983 Score: 66
Period size: 14 Copynumber: 2.6 Consensus size: 16
14388934 TTTTTAATAT
14388944 AAATTCAATACCTATA
1 AAATTCAATACCTATA
14388960 AAATTCAATA-CTA-A
1 AAATTCAATACCTATA
14388974 AAATTCAATA
1 AAATTCAATA
14388984 TTTAAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 11 0.46
15 3 0.12
16 10 0.42
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTCAATACCTATA
Found at i:14389659 original size:24 final size:24
Alignment explanation
Indices: 14389605--14389678 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
14389595 ATGGATGTTC
*
14389605 AACCTTTCATCTTTCAT-TTCCCTT
1 AACCTTTCAACTTTCATCTT-CCTT
* * * *
14389629 GATCTTTCACCTTTCATCTTCTTT
1 AACCTTTCAACTTTCATCTTCCTT
14389653 AACCTTT-AACTTTCCATCTTCCTT
1 AACCTTTCAACTTT-CATCTTCCTT
14389677 AA
1 AA
14389679 GTTGTGCAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 5 0.12
24 33 0.82
25 2 0.05
ACGTcount: A:0.19, C:0.31, G:0.01, T:0.49
Consensus pattern (24 bp):
AACCTTTCAACTTTCATCTTCCTT
Found at i:14392926 original size:41 final size:41
Alignment explanation
Indices: 14392876--14393236 Score: 404
Period size: 41 Copynumber: 8.8 Consensus size: 41
14392866 TTAATTTAAA
* * *
14392876 CAGATTCACCGGTACTTAACCTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
14392918 CAGATCACCAGCACTTTGCCTGCTAGGCTTATAA-CCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* *
14392959 CAGATCACCGGCCCTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
14393000 CAGATCACCGGCACTGAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
14393041 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAA-CCCGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* ** * *
14393082 TAGATCACTAGCACTTAGCTTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
14393123 CAGATCACCGGCACTTAGCCTACTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * * *
14393164 CAGGTCACCGGCACTTAGCTTGCTAGGTTTTAAAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGG-CTTAAAGCCTGATT
* * * ** *
14393206 TAGTTCACCAGCTTTTAGCCTGCTAGACTTA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA
14393237 TAGTCTGAAA
Statistics
Matches: 270, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
40 2 0.01
41 231 0.86
42 37 0.14
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:14393100 original size:123 final size:123
Alignment explanation
Indices: 14392876--14393244 Score: 486
Period size: 123 Copynumber: 3.0 Consensus size: 123
14392866 TTAATTTAAA
* * * * * *
14392876 CAGATTCACCGGTACTTAACCTGTTAGGCTTAAAGCCTGATTCAGATCACCAGCACTTTGCCTGC
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGC
* * *
14392941 TAGGCTTATAACCTGATTCAGATCACCGGCCCTTAGCCTGCTAGGCTTATAGCCTGATT
65 TAGGCTTATAACCTGATTTAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
14393000 CAGATCACCGGCACTGAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCT
* * * *
14393065 AGGCTTATAACCCGGTTTAGATCACTAGCACTTAGCTTGCTAGGCTTATAGCCTGATT
66 AGGCTTATAACCTGATTTAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * * * *
14393123 CAGATCACCGGCACTTAGCCTACTAGGCTTATAACCTGGTTCAGGTCACCGGCACTTAGCTTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCT
* * * ** * *
14393188 AGGTTTTAAAACCTGATTTAGTTCACCAGCTTTTAGCCTGCTAGACTTATAGTCTGA
66 AGG-CTTATAACCTGATTTAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGA
14393245 AACGTTTCAT
Statistics
Matches: 213, Mismatches: 31, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
123 167 0.78
124 46 0.22
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (123 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCT
AGGCTTATAACCTGATTTAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:14394052 original size:78 final size:78
Alignment explanation
Indices: 14393834--14394336 Score: 706
Period size: 78 Copynumber: 6.5 Consensus size: 78
14393824 TATATTATAC
* * * *
14393834 ATATATATATGTAACATCCATACTTTTAA-TAAAATCCAAGAATTTATACTCA--TATATACATA
1 ATATATAAATATAACATACATACTTTTAACT-AAATTCAAGAATTTAT--TCATGTATATACATA
** * *
14393896 CCTATTCGAACCTCTTGT
63 TATATCCGAA-CT-TTAT
* * * * * *
14393914 A-A-ACATATATAACATTCA-AC-ATTAACTAAATTCAA-AACTTATTCATGTATATACACATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
14393974 ATCCGAACTTTAT
66 ATCCGAACTTTAT
14393987 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
14394052 ATCCGAACTTTAT
66 ATCCGAACTTTAT
* *
14394065 ATATATAAATATAACATACATACTTTTAGCTAAATTCAAGAATTTATTCATGTATATACGTATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
**
14394130 ATATGAACTTTAT
66 ATCCGAACTTTAT
14394143 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
14394208 ATCCGAACTTTAT
66 ATCCGAACTTTAT
14394221 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATG--TAT--ATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
*
14394282 ATCTGAACTTTAT
66 ATCCGAACTTTAT
14394295 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAA
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAA
14394337 ATACATATAT
Statistics
Matches: 389, Mismatches: 26, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
73 7 0.02
74 63 0.16
75 35 0.09
76 16 0.04
77 17 0.04
78 249 0.64
79 1 0.00
80 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.39
Consensus pattern (78 bp):
ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
ATCCGAACTTTAT
Found at i:14399621 original size:23 final size:22
Alignment explanation
Indices: 14399569--14399621 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
14399559 TCCACGTCTT
*
14399569 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
14399591 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
14399614 TTTCTTTT
1 TTTCTTTT
14399622 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:14402006 original size:12 final size:12
Alignment explanation
Indices: 14401986--14402021 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14401976 TTAAACTAAG
*
14401986 TAAATAAATAAA
1 TAAAAAAATAAA
14401998 TAAAAAAATAAA
1 TAAAAAAATAAA
*
14402010 AAAAAAAATAAA
1 TAAAAAAATAAA
14402022 ACTTTACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:14402022 original size:12 final size:12
Alignment explanation
Indices: 14401991--14402022 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
14401981 CTAAGTAAAT
*
14401991 AAATAAATAAAA
1 AAATAAAAAAAA
14402003 AAATAAAAAAAA
1 AAATAAAAAAAA
14402015 AAATAAAA
1 AAATAAAA
14402023 CTTTACAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (12 bp):
AAATAAAAAAAA
Found at i:14403678 original size:42 final size:44
Alignment explanation
Indices: 14403619--14403733 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
14403609 TCGACTCCAC
* * * * **
14403619 TGTCCCAAACAGGGTCTTACACGAAATCAT-ATA-CGATGCTGA
1 TGTCCCAGACATGGTCTTACACGAAATCATCAAATCAATGCCAA
*
14403661 TGTCCCAGGCATGGTCTTACACGTAAATC-TCAAATCAATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AAATCATCAAATCAATGCCAA
*
14403705 TGTCCCAGACGTGGTCTTACACGAAATCA
1 TGTCCCAGACATGGTCTTACACGAAATCA
14403734 CATATCGGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 21 0.35
43 12 0.20
44 27 0.45
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACACGAAATCATCAAATCAATGCCAA
Found at i:14403752 original size:44 final size:43
Alignment explanation
Indices: 14403581--14403752 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
14403571 GCCAACGACT
* * * *
14403581 CAGACGTGGTCTTACATGCAATCAAATATCGACTCC-ACTGTCC
1 CAGACGTGGTCTTACACGAAATCACATATCGAATCCTA-TGTCC
* * *
14403624 CAAACAG-GGTCTTACACGAAATCATATA-CG-ATGCTGATGTCC
1 CAGAC-GTGGTCTTACACGAAATCACATATCGAATCCT-ATGTCC
* * * * *
14403666 CAGGCATGGTCTTACACGTAAATCTCAAATC-AATGCCAATGTCC
1 CAGACGTGGTCTTACACG-AAATCACATATCGAAT-CCTATGTCC
14403710 CAGACGTGGTCTTACACGAAATCACATATCGGAATCCTATGTC
1 CAGACGTGGTCTTACACGAAATCACATATC-GAATCCTATGTC
14403753 ATGACATATG
Statistics
Matches: 100, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
41 2 0.02
42 21 0.21
43 40 0.40
44 33 0.33
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
CAGACGTGGTCTTACACGAAATCACATATCGAATCCTATGTCC
Found at i:14410932 original size:44 final size:43
Alignment explanation
Indices: 14410788--14410954 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
14410778 AAAGGTCGTA
* * *
14410788 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC-AAATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAAATCTAAA-AT
** * * * **
14410831 TGATGCC-ACTATCCCAAACAGGGTCTTACACGAAATC-ATTAT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCTAAAAT
* * * *
14410873 ACGATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT
1 -CAATGCCAACGTCCCAGACATGGTCTTACACG-AAATCTAAAAT
*
14410918 CAATGCCAACGTCCCAGATATGGTCTTACACGAAATC
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAAATC
14410955 ACATATCGGA
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 4 0.04
43 57 0.59
44 34 0.35
45 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGAAATCTAAAAT
Found at i:14414672 original size:15 final size:15
Alignment explanation
Indices: 14414637--14414688 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14414627 TTAAGAATTT
*
14414637 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14414651 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14414665 TATTTAATAATAAT-
1 TATTTAATTATAATA
14414679 TATGTTAATT
1 TAT-TTAATT
14414689 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14414722 original size:120 final size:120
Alignment explanation
Indices: 14414575--14414804 Score: 442
Period size: 120 Copynumber: 1.9 Consensus size: 120
14414565 TTTGAGTAAA
14414575 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
14414640 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
*
14414695 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
*
14414760 TAAATTATATATTTTAATTATAATATATTTAATAATATTTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
14414805 TAAATATGAT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 108 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:14414770 original size:61 final size:61
Alignment explanation
Indices: 14414585--14414772 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
14414575 TTATAGTATC
*
14414585 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
14414646 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
14414705 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
14414766 ATATATT
1 ATATATT
14414773 TTAATTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 25 0.26
61 36 0.38
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:14415034 original size:45 final size:43
Alignment explanation
Indices: 14414933--14415042 Score: 111
Period size: 45 Copynumber: 2.6 Consensus size: 43
14414923 TTTTCCATTA
14414933 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* ** ***
14414972 TACTATTACGTCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
14415017 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
14415043 CCTCTAATCC
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 16 0.29
45 22 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:14415044 original size:16 final size:16
Alignment explanation
Indices: 14415023--14415074 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14415013 GATTTGCTAT
*
14415023 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
14415039 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14415055 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14415071 TACA
1 TACA
14415075 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14416330 original size:6 final size:6
Alignment explanation
Indices: 14416321--14416390 Score: 140
Period size: 6 Copynumber: 11.7 Consensus size: 6
14416311 CTATTGCTAC
14416321 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
14416369 AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATA
14416391 GTTCATTAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:14417608 original size:7 final size:7
Alignment explanation
Indices: 14417596--14417641 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
14417586 TTAAGGAAGA
14417596 TGAAAGG
1 TGAAAGG
14417603 TGAAAGG
1 TGAAAGG
14417610 TGAAAGG
1 TGAAAGG
*
14417617 TTGAGGAAGA
1 -TGA--AAGG
14417627 TGAAAGG
1 TGAAAGG
14417634 TGAAAGG
1 TGAAAGG
14417641 T
1 T
14417642 TGGAGAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 25 0.74
8 3 0.09
9 3 0.09
10 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.17
Consensus pattern (7 bp):
TGAAAGG
Found at i:14417610 original size:31 final size:31
Alignment explanation
Indices: 14417572--14417641 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
14417562 TACAATAAGA
14417572 TGAAAGGTG-AAGAGTTAAGGAAGATGAAAGG
1 TGAAAGGTGAAAG-GTTAAGGAAGATGAAAGG
*
14417603 TGAAAGGTGAAAGGTTGAGGAAGATGAAAGG
1 TGAAAGGTGAAAGGTTAAGGAAGATGAAAGG
14417634 TGAAAGGT
1 TGAAAGGT
14417642 TGGAGAAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
31 34 0.92
32 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (31 bp):
TGAAAGGTGAAAGGTTAAGGAAGATGAAAGG
Found at i:14417630 original size:24 final size:24
Alignment explanation
Indices: 14417603--14417658 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 24
14417593 AGATGAAAGG
14417603 TGAAAGGTGAAAGGTT-GAGGAAGA
1 TGAAAGGTGAAAGGTTGGA-GAAGA
14417627 TGAAAGGTGAAAGGTTGGAGAAGA
1 TGAAAGGTGAAAGGTTGGAGAAGA
14417651 TGAAAGGT
1 TGAAAGGT
14417659 TGAACATCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (24 bp):
TGAAAGGTGAAAGGTTGGAGAAGA
Found at i:14417632 original size:17 final size:17
Alignment explanation
Indices: 14417589--14417634 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
14417579 TGAAGAGTTA
14417589 AGGAAGATGAAAGG-TG
1 AGGAAGATGAAAGGTTG
*
14417605 A--AAGGTGAAAGGTTG
1 AGGAAGATGAAAGGTTG
14417620 AGGAAGATGAAAGGT
1 AGGAAGATGAAAGGT
14417635 GAAAGGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 1 0.04
17 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.41, T:0.15
Consensus pattern (17 bp):
AGGAAGATGAAAGGTTG
Found at i:14418645 original size:71 final size:71
Alignment explanation
Indices: 14418522--14418663 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
14418512 AAATAATTTG
* * *
14418522 TACTAGTCGAATACAAATTCACTAGATGTAAATAAATAAATTTATTTAGTGTTTGAATACACCAC
1 TACTAGCCGAATACAAATTCACTAGACGTAAATAAATAAATTTATATAGTGTTTGAATACACCAC
14418587 AAATTA
66 AAATTA
* *
14418593 TACTAGCCGAATACAAATTCACTAGACGTAAATAAATAAGTTTATATGGTGTTTGAATACACCAC
1 TACTAGCCGAATACAAATTCACTAGACGTAAATAAATAAATTTATATAGTGTTTGAATACACCAC
14418658 AAATTA
66 AAATTA
14418664 ATCATTTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (71 bp):
TACTAGCCGAATACAAATTCACTAGACGTAAATAAATAAATTTATATAGTGTTTGAATACACCAC
AAATTA
Found at i:14419553 original size:37 final size:35
Alignment explanation
Indices: 14419484--14419575 Score: 87
Period size: 37 Copynumber: 2.5 Consensus size: 35
14419474 GAATATTTAA
*
14419484 TATTAAAATAATCACTTTAATACTAAATTAATA-AAATAC
1 TATTAAAATAAT-A--TTAA-ATTAAATTAATATAAA-AC
* *
14419523 TATTAAGATAAGTATTAAATTAAATTTAATATTAAAC
1 TATTAAAATAA-TATTAAATTAAA-TTAATATAAAAC
14419560 TATTAAAATAATATTA
1 TATTAAAATAATATTA
14419576 TTTTTGGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
36 10 0.22
37 22 0.48
38 2 0.04
39 11 0.24
40 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.39
Consensus pattern (35 bp):
TATTAAAATAATATTAAATTAAATTAATATAAAAC
Found at i:14419575 original size:48 final size:50
Alignment explanation
Indices: 14419443--14419575 Score: 130
Period size: 48 Copynumber: 2.6 Consensus size: 50
14419433 TAAACTTAAT
* *
14419443 CACTTTAATATTAAATCTTATTAAAATAATA-GAATATTTAATATTAAAATAA
1 CACTTTAATATTAAA-C-TATTAAAATAATATTAAGA-TTAATATTAAAATAA
* * * * *
14419495 TCACTTTAATACTAAATTAATAAAATACTATTAAGA-TAAGTATTAAATTAA
1 -CACTTTAATATTAAACTATTAAAATAATATTAAGATTAA-TATTAAAATAA
14419546 -A-TTTAATATTAAACTATTAAAATAATATTA
1 CACTTTAATATTAAACTATTAAAATAATATTA
14419576 TTTTTGGAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
48 25 0.37
49 1 0.01
50 3 0.04
51 21 0.31
52 3 0.04
53 14 0.21
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (50 bp):
CACTTTAATATTAAACTATTAAAATAATATTAAGATTAATATTAAAATAA
Found at i:14421168 original size:16 final size:16
Alignment explanation
Indices: 14421147--14421177 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14421137 CTATGCATGC
*
14421147 AAAATATAAAAGACAG
1 AAAATAAAAAAGACAG
14421163 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
14421178 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAG
Found at i:14421334 original size:24 final size:24
Alignment explanation
Indices: 14421278--14421346 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
14421268 TTCCCAACAT
* **
14421278 AAGGGAGATGAAAGGTTAAAGGTT
1 AAGGGAGATGAAAGGTGAAAGGCC
* * *
14421302 AAAGAAGATGAAAGGTGGAAGGCC
1 AAGGGAGATGAAAGGTGAAAGGCC
*
14421326 AAGGGAGATGAAAGATGAAAG
1 AAGGGAGATGAAAGGTGAAAG
14421347 ATGAAAGGTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.38, T:0.13
Consensus pattern (24 bp):
AAGGGAGATGAAAGGTGAAAGGCC
Found at i:14421496 original size:18 final size:18
Alignment explanation
Indices: 14421453--14421496 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14421443 CTTCTTTAAT
14421453 CTTTAACCTTCCATCTTC
1 CTTTAACCTTCCATCTTC
* *
14421471 CTTAAACCTTTCATC-TC
1 CTTTAACCTTCCATCTTC
14421488 CTTGTAACC
1 CTT-TAACC
14421497 ACTTTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.41
Consensus pattern (18 bp):
CTTTAACCTTCCATCTTC
Found at i:14422676 original size:22 final size:21
Alignment explanation
Indices: 14422634--14422678 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14422624 ATAAATCAAT
*
14422634 AAAAATAAACCTAATTAAATA
1 AAAAATAAACATAATTAAATA
* *
14422655 AAAAATATACATACTTATAATA
1 AAAAATAAACATAATTA-AATA
14422677 AA
1 AA
14422679 TATTAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATAAACATAATTAAATA
Found at i:14426343 original size:11 final size:11
Alignment explanation
Indices: 14426329--14426355 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14426319 TTAAAACATC
14426329 AAAAAAAAGAA
1 AAAAAAAAGAA
14426340 AAAAAAAAGAA
1 AAAAAAAAGAA
14426351 AAAAA
1 AAAAA
14426356 GAAATACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:14453153 original size:27 final size:27
Alignment explanation
Indices: 14453111--14453341 Score: 302
Period size: 27 Copynumber: 8.6 Consensus size: 27
14453101 CGGAAAGGTT
* *
14453111 GTAAAATGATCGTAATACCCATGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * * *
14453138 GTAAAATGACCATAAT-GCCCTGGAAG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
14453164 GTAAAATGACCGTAATACCCCTATTGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
14453191 GTAAAATGACCGTAATACCCCTTTAAG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
14453218 GTAAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
14453245 GTAAAATGACCGTAGTACCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
14453272 GTAAAATAACCGTAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
14453299 GTAGAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
14453326 GTAAAATGAACGTAAT
1 GTAAAATGACCGTAAT
14453342 GCCCTGGTGG
Statistics
Matches: 175, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 21 0.12
27 154 0.88
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:14453456 original size:24 final size:24
Alignment explanation
Indices: 14453381--14453463 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
14453371 CTCGAGGTCA
** * *
14453381 AATGACTGATTTATCTGTGGTT-A
1 AATGACTGATTCGTCTGTGTTTGG
*
14453404 AATCACTGATTCGTCTGTGTTTGG
1 AATGACTGATTCGTCTGTGTTTGG
* * *
14453428 TATGATTGATTTGTCTGTGATTT-G
1 AATGACTGATTCGTCTGTG-TTTGG
14453452 AATGACTGATTC
1 AATGACTGATTC
14453464 TGAGCATGGC
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
23 18 0.39
24 25 0.54
25 3 0.07
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.45
Consensus pattern (24 bp):
AATGACTGATTCGTCTGTGTTTGG
Found at i:14453675 original size:32 final size:32
Alignment explanation
Indices: 14453634--14453772 Score: 190
Period size: 32 Copynumber: 4.4 Consensus size: 32
14453624 GCTGTGATGC
* *
14453634 TACTGATGGCTTTGTGCTGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
14453666 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
14453698 TACTGATGGCTTTGTACCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
14453730 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
14453761 TACTTATGGCTT
1 TACTGATGGCTT
14453773 GTAGCCATTC
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 11 0.11
32 86 0.89
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:14453789 original size:22 final size:21
Alignment explanation
Indices: 14453764--14453827 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
14453754 ATTACTGTAC
14453764 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
14453786 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
14453808 TTACGACTCTTAGCCATTCT
1 TTATGGCT-TTAGCCATTCT
14453828 AACTACTGAC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.44
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:14457741 original size:342 final size:336
Alignment explanation
Indices: 14457129--14457786 Score: 824
Period size: 342 Copynumber: 1.9 Consensus size: 336
14457119 TCTGGCGCCC
* *
14457129 TAAGTGTAGTATTTTTGTCTAAGTACACTTGTAATTTTTTGAACAGATTGATTAATAAAACTATT
1 TAAGTGTAGTATTTTCGTCTAAGTACACTTGTAATTTTTTAAACAGATTGATTAATAAAACTATT
*
14457194 CATGAATTACATTAATACTTTGTATATTATCCTCAAATGGTTTTTGCACACAAAGAAAAATAGAA
66 CATGAATTACATTAATACTTTGAATATTATCCTCAAATGGTTTTTGCACACAAAGAAAAATAGAA
* * *
14457259 GCAAGTGTTGCTCATTGGTTGTCTATTGTTTAAACTGATACTAAGCATTATTATGTGGTCAAATC
131 GCAAGTGTTGCTCATTGGTTGTCTAATGTTTAAACTAATACTAAGCAGTATTATGTGGTCAAATC
* * * * * *
14457324 ATATTATAGAAAGACAACTTGTATTAGTAGATGAATCTAAAAATATCCTTAGTCTAAACAGAAAT
196 ATAGTAGAGAAAGAAAACTTATATTAGTAAACGAATCTAAAAATATCCTTAGTCTAAACAGAAAT
* * *
14457389 TAGAAAACCAATTGAAAGACTAATATATCATCTATCAAGTCCAATTAGGGAGATGCTTTTGTTGG
261 GAGAAAACCAATTAAAAGACTAATATATCATCTAACAAGTCCAATTAGGGAGATGCTTTTGTTGG
14457454 ATCTAATACCG
326 ATCTAATACCG
* * * * *
14457465 TAAGTGTAGTATTTTCGTCTAATTACACTTGTAATTTTTTTAAAATATATTGGTTATTAAAA-TA
1 TAAGTGTAGTATTTTCGTCTAAGTACACTTGTAA-TTTTTT-AAACAGATTGATTAATAAAACT-
* * *
14457529 AATTCATTG-ATTACAGTTAATATACTTTGAATTATTGTCCTCAAATGGTTTTTGGACACAAAGC
63 -ATTCA-TGAATTACA-TT-A-ATACTTTGAA-TATTATCCTCAAATGGTTTTTGCACACAAAGA
* * *
14457593 AAAATGGAAGCTAA-TGTTGCTTATTGGTTGTCTAATGTTT-AACTAATACTAAGCGGTATTATG
122 AAAATAGAAGC-AAGTGTTGCTCATTGGTTGTCTAATGTTTAAACTAATACTAAGCAGTATTATG
** * * * *
14457656 TGGTCGGATCGTAGTACGA-AAAGAAAACTTATATTAGTAAACGAATCTATACATGTCCTTAGTC
186 TGGTCAAATCATAGTA-GAGAAAGAAAACTTATATTAGTAAACGAATCTAAAAATATCCTTAGTC
* * * ** *
14457720 TAATC-GAAAATGAGCAAACCAATTAAAAGACTAATATGTTGTCTAACAAGTCTAATTAGGGAGA
250 TAAACAG-AAATGAGAAAACCAATTAAAAGACTAATATATCATCTAACAAGTCCAATTAGGGAGA
14457784 TGC
314 TGC
14457787 CTTATCTTGG
Statistics
Matches: 272, Mismatches: 38, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
336 32 0.12
337 7 0.03
338 15 0.06
339 11 0.04
340 4 0.01
341 2 0.01
342 135 0.50
343 64 0.24
344 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (336 bp):
TAAGTGTAGTATTTTCGTCTAAGTACACTTGTAATTTTTTAAACAGATTGATTAATAAAACTATT
CATGAATTACATTAATACTTTGAATATTATCCTCAAATGGTTTTTGCACACAAAGAAAAATAGAA
GCAAGTGTTGCTCATTGGTTGTCTAATGTTTAAACTAATACTAAGCAGTATTATGTGGTCAAATC
ATAGTAGAGAAAGAAAACTTATATTAGTAAACGAATCTAAAAATATCCTTAGTCTAAACAGAAAT
GAGAAAACCAATTAAAAGACTAATATATCATCTAACAAGTCCAATTAGGGAGATGCTTTTGTTGG
ATCTAATACCG
Found at i:14467603 original size:86 final size:85
Alignment explanation
Indices: 14467447--14467613 Score: 271
Period size: 86 Copynumber: 2.0 Consensus size: 85
14467437 AGGAAGGCCC
* *
14467447 TGCATGGGGGTCGCATGTAGTTGAAATTTTAGTAAAATGTCTGTAATGGGGATTCTAATGGAAAT
1 TGCATGGGGGTCGCATGTAGTTGAAATTTTAGTAAAATGTCTATAATAGGGATTCTAATGGAAAT
*
14467512 GTTATGATATTTTAAGTAGT
66 CTTATGATATTTTAAGTAGT
* *
14467532 TGCATGAGGGGTCGCATGTAGTTTAAATTTTAGTAAAATGTCTATAATAGGGATTTTAATGGAAA
1 TGCATG-GGGGTCGCATGTAGTTGAAATTTTAGTAAAATGTCTATAATAGGGATTCTAATGGAAA
*
14467597 TCTTATGATCTTTTAAG
65 TCTTATGATATTTTAAG
14467614 AACTTGCTAC
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
85 6 0.08
86 69 0.92
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.38
Consensus pattern (85 bp):
TGCATGGGGGTCGCATGTAGTTGAAATTTTAGTAAAATGTCTATAATAGGGATTCTAATGGAAAT
CTTATGATATTTTAAGTAGT
Found at i:14468397 original size:25 final size:25
Alignment explanation
Indices: 14468369--14468422 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
14468359 TAAACTCGAG
14468369 AATTCTCTAGAAAACCTTTATGGAA
1 AATTCTCTAGAAAACCTTTATGGAA
* * *
14468394 AATTCTCTAGAAAGCCTTTGTGGCA
1 AATTCTCTAGAAAACCTTTATGGAA
14468419 AATT
1 AATT
14468423 ATTTGGAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (25 bp):
AATTCTCTAGAAAACCTTTATGGAA
Found at i:14468431 original size:25 final size:25
Alignment explanation
Indices: 14468403--14468481 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
14468393 AAATTCTCTA
14468403 GAAAGCCTTTGTGGCAAATTATTTG
1 GAAAGCCTTTGTGGCAAATTATTTG
* *** *
14468428 GAAAGCAC-TTGTAGTGTATCATTTG
1 GAAAGC-CTTTGTGGCAAATTATTTG
*
14468453 GAAAGCCTTTGTGGCAAATTATCTG
1 GAAAGCCTTTGTGGCAAATTATTTG
14468478 GAAA
1 GAAA
14468482 CCCATGTGGT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCAAATTATTTG
Found at i:14470332 original size:2 final size:2
Alignment explanation
Indices: 14470327--14470352 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14470317 TAAAAAAATT
14470327 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
14470353 TAAACATGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14489274 original size:6 final size:6
Alignment explanation
Indices: 14489231--14489271 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
14489221 CTCGCCTCTT
*
14489231 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCT TCTTC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
14489272 TTCCTCGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
TCTTCC
Found at i:14504081 original size:5 final size:5
Alignment explanation
Indices: 14504073--14504100 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14504063 AATTCAATTC
14504073 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
14504101 AAGAAACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:14510791 original size:30 final size:29
Alignment explanation
Indices: 14510738--14510889 Score: 151
Period size: 29 Copynumber: 5.2 Consensus size: 29
14510728 GTGTGCTAAA
* * * * *
14510738 CGATGGTCAAAACAATTCATTTTCTTTAAT
1 CGATGGTCAAAACCATCCCTTTTC-ATATT
14510768 CGATGGTCAAAACCATCCCTTTTCATATT
1 CGATGGTCAAAACCATCCCTTTTCATATT
* * * *
14510797 CGATAGTTAAAGCCATCCCATTTCATATT
1 CGATGGTCAAAACCATCCCTTTTCATATT
* **
14510826 CGATGATCATCACCATCCCTTTTCATATT
1 CGATGGTCAAAACCATCCCTTTTCATATT
* ***
14510855 CGATGCTCGTCACCATCCCTTTTCATATT
1 CGATGGTCAAAACCATCCCTTTTCATATT
14510884 CGATGG
1 CGATGG
14510890 GCGTCGATAC
Statistics
Matches: 103, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 82 0.80
30 21 0.20
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (29 bp):
CGATGGTCAAAACCATCCCTTTTCATATT
Found at i:14518530 original size:20 final size:20
Alignment explanation
Indices: 14518486--14518604 Score: 89
Period size: 20 Copynumber: 6.0 Consensus size: 20
14518476 TACGTGATTT
* * *
14518486 GCACTTCGGTGCCTCTTTTT
1 GCACTTTGGTGCCTCTGTTC
* *
14518506 TCACTTTGGTGCCTTTGTTC
1 GCACTTTGGTGCCTCTGTTC
* * *
14518526 GCACTTCGGTGTCTCTATTC
1 GCACTTTGGTGCCTCTGTTC
**
14518546 GCACTACGGTGCCTCTGCTT-
1 GCACTTTGGTGCCTCTG-TTC
* * *
14518566 ACACATTT-GTGTCTCTGTTT
1 GCAC-TTTGGTGCCTCTGTTC
14518586 GCACTTTGGTGCCTCTGTT
1 GCACTTTGGTGCCTCTGTT
14518605 ATGCATCTAT
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
19 5 0.07
20 68 0.89
21 3 0.04
ACGTcount: A:0.08, C:0.28, G:0.21, T:0.43
Consensus pattern (20 bp):
GCACTTTGGTGCCTCTGTTC
Found at i:14518590 original size:60 final size:60
Alignment explanation
Indices: 14518486--14518601 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
14518476 TACGTGATTT
* ** * * *
14518486 GCACTTCGGTGCCTCTTTTTTCACTTTGGTGCCTTTGTTCGCACTTCGGTGTCTCTATTC
1 GCACTACGGTGCCTCTGCTTACACTTTGGTGCCTCTGTTCGCACTTCGGTGCCTCTATTC
* * *
14518546 GCACTACGGTGCCTCTGCTTACACATTT-GTGTCTCTGTTTGCACTTTGGTGCCTCT
1 GCACTACGGTGCCTCTGCTTACAC-TTTGGTGCCTCTGTTCGCACTTCGGTGCCTCT
14518602 GTTATGCATC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
60 43 0.93
61 3 0.07
ACGTcount: A:0.09, C:0.28, G:0.21, T:0.42
Consensus pattern (60 bp):
GCACTACGGTGCCTCTGCTTACACTTTGGTGCCTCTGTTCGCACTTCGGTGCCTCTATTC
Found at i:14518623 original size:22 final size:20
Alignment explanation
Indices: 14518578--14518623 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
14518568 ACATTTGTGT
* *
14518578 CTCTGTTTGCACTTTGGTGC
1 CTCTGTTTGCACTATGATGC
14518598 CTCTGTTATGCATCTATGATGC
1 CTCTGTT-TGCA-CTATGATGC
14518620 CTCT
1 CTCT
14518624 AGTGTGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (20 bp):
CTCTGTTTGCACTATGATGC
Found at i:14528130 original size:16 final size:17
Alignment explanation
Indices: 14528098--14528130 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14528088 AAAACAAGCC
14528098 TAAATTAGAAATAATTA
1 TAAATTAGAAATAATTA
*
14528115 TAAATTA-AATTAATTA
1 TAAATTAGAAATAATTA
14528131 ACATCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATTAGAAATAATTA
Found at i:14529523 original size:20 final size:21
Alignment explanation
Indices: 14529479--14529531 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
14529469 CACGCATCCT
14529479 TATGTTGAGCCACAACAACCC
1 TATGTTGAGCCACAACAACCC
* * *
14529500 TATGTTAAGCCAGATCAA-CC
1 TATGTTGAGCCACAACAACCC
14529520 TATGTTGAGCCA
1 TATGTTGAGCCA
14529532 TAAACTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (21 bp):
TATGTTGAGCCACAACAACCC
Found at i:14539924 original size:30 final size:33
Alignment explanation
Indices: 14539884--14539943 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 33
14539874 AAAATTTTAA
14539884 TAAATGAAAA-TA-TATAAA-ATTATTAAATAT
1 TAAATGAAAATTAGTATAAATATTATTAAATAT
* *
14539914 TAAATTAAAATTAGTATAAATATTTTTAAA
1 TAAATGAAAATTAGTATAAATATTATTAAA
14539944 AAGTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 2 0.08
32 6 0.24
33 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (33 bp):
TAAATGAAAATTAGTATAAATATTATTAAATAT
Found at i:14540612 original size:18 final size:18
Alignment explanation
Indices: 14540591--14540643 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
14540581 TTGAAACACG
14540591 TTGAAATGAAAAAATAAA
1 TTGAAATGAAAAAATAAA
* *
14540609 TTGAAAT-AAATCAATAAC
1 TTGAAATGAAA-AAATAAA
*
14540627 TTAAAATG-AAAAATAAA
1 TTGAAATGAAAAAATAAA
14540644 CTAAAAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (18 bp):
TTGAAATGAAAAAATAAA
Done.