Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 63 of 425
Found at i:17423408 original size:6 final size:7
Alignment explanation
Indices: 17423391--17423423 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
17423381 AATTTTTAAG
17423391 TTTTTTA
1 TTTTTTA
17423398 TTTTTTA
1 TTTTTTA
17423405 TTTTTTA
1 TTTTTTA
17423412 TTTTTTAA
1 TTTTTT-A
17423420 TTTT
1 TTTT
17423424 AAAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:17424051 original size:15 final size:15
Alignment explanation
Indices: 17424018--17424060 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
17424008 TTATCTCTTA
*
17424018 CATAAT-CATAAA-T
1 CATAATCCATAAACC
*
17424031 CATAATCCCTAAACC
1 CATAATCCATAAACC
17424046 CATAATCCATAAACC
1 CATAATCCATAAACC
17424061 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 6 0.24
14 5 0.20
15 14 0.56
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:17424096 original size:7 final size:7
Alignment explanation
Indices: 17424084--17424109 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17424074 TCATACACTT
17424084 TAAACCC
1 TAAACCC
17424091 TAAACCC
1 TAAACCC
17424098 TAAACCC
1 TAAACCC
17424105 TAAAC
1 TAAAC
17424110 TATAATGATA
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:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:17424247 original size:14 final size:14
Alignment explanation
Indices: 17424227--17424272 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
17424217 AACTTTTAAT
*
17424227 CCCTAAACCTTAAA
1 CCCTAAACCATAAA
* * *
17424241 CCTTAAAACATAAG
1 CCCTAAACCATAAA
17424255 CCCTAAACCATAAA
1 CCCTAAACCATAAA
17424269 CCCT
1 CCCT
17424273 TCACCCTTAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.20
Consensus pattern (14 bp):
CCCTAAACCATAAA
Found at i:17424284 original size:14 final size:14
Alignment explanation
Indices: 17424267--17424310 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
17424257 CTAAACCATA
* *
17424267 AACCCTTCACCCTT
1 AACCCTTAACCCCT
*
17424281 AACCCCTAACCCCT
1 AACCCTTAACCCCT
*
17424295 AACCCTTAACACCT
1 AACCCTTAACCCCT
17424309 AA
1 AA
17424311 ATCTAAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:17424596 original size:41 final size:40
Alignment explanation
Indices: 17424519--17424605 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
17424509 TCAAATTCAT
17424519 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATA
* * * **
17424560 TTAAAACAATTATTAAAACAATAGACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
17424600 ATAAAA
1 TTAAAA
17424606 AGTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.20
41 32 0.80
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:17424938 original size:41 final size:41
Alignment explanation
Indices: 17424831--17424999 Score: 243
Period size: 41 Copynumber: 4.1 Consensus size: 41
17424821 TATATGACTG
* * *
17424831 TTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTT
* * *
17424872 TTAGC-GCGTTTTACCGAAAGTGTCGCTAATGCTTTGGTTT
1 TTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTT
*
17424912 TTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTTTGGTTT
1 TTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTT
*
17424953 TTAGCGGCGTTTTACCAAAAGTG-CAGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTACCAAAAGCGTC-GCTAATGCTCTGGTTT
17424994 TTAGCG
1 TTAGCG
17425000 TCGCTAATGC
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 37 0.31
41 81 0.69
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
TTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTT
Found at i:17425007 original size:65 final size:65
Alignment explanation
Indices: 17424931--17425064 Score: 198
Period size: 65 Copynumber: 2.1 Consensus size: 65
17424921 TTTTACCAAA
* *
17424931 AGCGTCGCTAATGCTTTGGTTTTTAGCGGCG-TTTTACCAAAAGTGCAGCTAATGCTCTGGTTTT
1 AGCGTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTACCAAAA-TGCAGCTAATGCTCTGGTTTT
17424995 T
65 T
*** *
17424996 AGCGTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTGGTAAAATGCTGCTAATGCTCTGGTTTTT
1 AGCGTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTACCAAAATGCAGCTAATGCTCTGGTTTTT
17425061 AGCG
1 AGCG
17425065 GCGTTTTACC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
65 54 0.87
66 8 0.13
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (65 bp):
AGCGTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTACCAAAATGCAGCTAATGCTCTGGTTTTT
Found at i:17425016 original size:106 final size:105
Alignment explanation
Indices: 17424893--17425104 Score: 311
Period size: 106 Copynumber: 2.0 Consensus size: 105
17424883 TACCGAAAGT
* * *
17424893 GTCGCTAATGCTTTGGTTTTTAGCGGCG-TTTTACCAAAA-GCGTCGCTAATGCTTTGGTTTTTA
1 GTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTACCAAAATGC-T-GCTAATGCTCTGGTTTTTA
*
17424956 GCGGCGTTTTACCAAAAGTGCAGCTAATGCTCTGGTTTTTAGC
64 GCGGCGTTTTACCAAAAGCGCAGCTAATGCTCT-GTTTTTAGC
***
17424999 GTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTGGTAAAATGCTGCTAATGCTCTGGTTTTTAGC
1 GTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTACCAAAATGCTGCTAATGCTCTGGTTTTTAGC
*
17425064 GGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGC
66 GGCGTTTTACCAAAAGCGCAGCTAATGCTCTGTTTTTAGC
17425104 G
1 G
17425105 ACTTTTTAAC
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
105 10 0.10
106 75 0.78
107 9 0.09
108 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (105 bp):
GTCGCTAATGCTCTGGTTTTTAACGGCGTTTTTACCAAAATGCTGCTAATGCTCTGGTTTTTAGC
GGCGTTTTACCAAAAGCGCAGCTAATGCTCTGTTTTTAGC
Found at i:17425057 original size:147 final size:145
Alignment explanation
Indices: 17424850--17425145 Score: 400
Period size: 147 Copynumber: 2.0 Consensus size: 145
17424840 TTTTATCGAA
* * *
17424850 AGCGCCGCTAATGCTCTGGTTTTTAGCGCGTTTTACCGAAAGTGTCGCTAATGCTTTGGTTTTTA
1 AGCGCCGCTAATGCTCTGGTTTTTAACGCGTTTTACCGAAAATGTCGCTAATGCTCTGGTTTTTA
* * * * *
17424915 GCGGCGTTTTACCAAAAGCGTCGCTAATGCTTTGGTTTTTAGCGGCGTTTT-ACCAAAAGTGCAG
66 GCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGACGTTTTAACAAAAAATGCAG
17424979 CTAATGCTCTGGTTTTT
130 CTAATGCTCT-GTTTTT
* **
17424996 AGCGTCGCTAATGCTCTGGTTTTTAACGGCGTTTT-TGGTAAAATG-CTGCTAATGCTCTGGTTT
1 AGCGCCGCTAATGCTCTGGTTTTTAAC-GCGTTTTACCG-AAAATGTC-GCTAATGCTCTGGTTT
*
17425059 TTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGACTTTTTAACAAAAAATGC
63 TTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGACGTTTTAACAAAAAATGC
* *
17425124 CGCTATTGCTCTGTTTTT
128 AGCTAATGCTCTGTTTTT
17425142 AGCG
1 AGCG
17425146 GCATTTTTGA
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
146 52 0.39
147 80 0.61
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (145 bp):
AGCGCCGCTAATGCTCTGGTTTTTAACGCGTTTTACCGAAAATGTCGCTAATGCTCTGGTTTTTA
GCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGACGTTTTAACAAAAAATGCAGC
TAATGCTCTGTTTTT
Found at i:17425183 original size:41 final size:39
Alignment explanation
Indices: 17425001--17425181 Score: 166
Period size: 41 Copynumber: 4.5 Consensus size: 39
17424991 TTTTTAGCGT
* * *
17425001 CGCTAATGCTCTGGTTTTTAACGGCGTTTTTGGTAAAATGC
1 CGCTAATGCTCT-GTTTTTAGCGGC-TTTTTGATAAAACGC
* * *
17425042 TGCTAATGCTCTGGTTTTTAGCGGCGTTTT-ACCAAAAGCGC
1 CGCTAATGCTCT-GTTTTTAGCGGCTTTTTGA-TAAAA-CGC
* * * *
17425083 CGCTAATGCTCTGTTTTTAGCGACTTTTTAACAAAAAATGC
1 CGCTAATGCTCTGTTTTTAGCGGCTTTTT--GATAAAACGC
*
17425124 CGCTATTGCTCTGTTTTTAGCGGCATTTTTGATAAAACGC
1 CGCTAATGCTCTGTTTTTAGCGGC-TTTTTGATAAAACGC
* *
17425164 CGCTATTGCTCCGTTTTT
1 CGCTAATGCTCTGTTTTT
17425182 TATAATTTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
40 47 0.40
41 60 0.51
42 9 0.08
43 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (39 bp):
CGCTAATGCTCTGTTTTTAGCGGCTTTTTGATAAAACGC
Found at i:17425473 original size:81 final size:80
Alignment explanation
Indices: 17425333--17425565 Score: 351
Period size: 79 Copynumber: 2.9 Consensus size: 80
17425323 AAGTATTGAC
* * *
17425333 TTTTAATTGGTTATATTATGCATTGATAGTATCAATACACTATCGCAATTATGAATTGACTATTT
1 TTTTAATTGGTTATATTATGGATTGATAGTATCAATACACTGTCGCAATTATGGATTGACT-TTT
17425398 TTTTTTTCTAACAATA
65 TTTTTTTCTAACAATA
* * *
17425414 TTTTAATTGGTTATATTATGGATAGATAGTATCAATACACTGTGGCAATTATGGGTTGAC-TTTT
1 TTTTAATTGGTTATATTATGGATTGATAGTATCAATACACTGTCGCAATTATGGATTGACTTTTT
*
17425478 TTTTTCCTAACAATA
66 TTTTTTCTAACAATA
* *
17425493 TTTTATTTGGTTATATTATGGATTGATAGTATCAATACACTGTCACAATTATGGATTGACTTTTA
1 TTTTAATTGGTTATATTATGGATTGATAGTATCAATACACTGTCGCAATTATGGATTGACTTTT-
17425558 ATTTTTTT
65 -TTTTTTT
17425566 TCATTTTAAT
Statistics
Matches: 136, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
79 73 0.54
80 3 0.02
81 54 0.40
82 6 0.04
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (80 bp):
TTTTAATTGGTTATATTATGGATTGATAGTATCAATACACTGTCGCAATTATGGATTGACTTTTT
TTTTTTCTAACAATA
Found at i:17426560 original size:12 final size:12
Alignment explanation
Indices: 17426543--17426568 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17426533 CGATTTCTCC
17426543 TTAAACACATTA
1 TTAAACACATTA
17426555 TTAAACACATTA
1 TTAAACACATTA
17426567 TT
1 TT
17426569 GATTAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAACACATTA
Found at i:17427043 original size:43 final size:43
Alignment explanation
Indices: 17426977--17427059 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
17426967 TAGCGGAGCT
*
17426977 TTTACCGGCGCTTTTACCACAAACGCCGCTAAAGGTCATGGTC
1 TTTACCGGCGCTTTTACCACAAACGCCGCTAAAAGTCATGGTC
* *
17427020 TTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAAGTCATG
1 TTTACCGGCGCTTTTACCACAAACGCCGCTAAAAGTCATG
17427060 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (43 bp):
TTTACCGGCGCTTTTACCACAAACGCCGCTAAAAGTCATGGTC
Found at i:17427200 original size:6 final size:6
Alignment explanation
Indices: 17427189--17427242 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
17427179 ATTCATTATC
* * *
17427189 AAATAA AAATAA AAATAA AAATATA GAATCA AAATTA AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA A-AATAA
17427239 AAAT
1 AAAT
17427243 TAGATTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 31 0.76
7 10 0.24
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (6 bp):
AAATAA
Found at i:17427256 original size:18 final size:19
Alignment explanation
Indices: 17427189--17427257 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
17427179 ATTCATTATC
*
17427189 AAATAAA-AATAAAAATAA
1 AAATAAATAATAAAAATTA
* * *
17427207 AAATATAGAATCAAAATTA
1 AAATAAATAATAAAAATTA
17427226 AAATAAATAATAAAAATTA
1 AAATAAATAATAAAAATTA
* *
17427245 GATTAAAT-ATAAA
1 AAATAAATAATAAA
17427258 TATAGAATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.26
19 31 0.74
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATAAATAATAAAAATTA
Found at i:17427271 original size:19 final size:18
Alignment explanation
Indices: 17427200--17427277 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 18
17427190 AATAAAAATA
*
17427200 AAAATAAAAATATAGAAT
1 AAAATATAAATATAGAAT
17427218 CAAAAT-TAAA-ATA-AAT
1 -AAAATATAAATATAGAAT
*
17427234 --AATAAAAAT-TAG-AT
1 AAAATATAAATATAGAAT
*
17427248 TAAATATAAATATAGAAT
1 AAAATATAAATATAGAAT
17427266 CAAAATAATAAA
1 -AAAAT-ATAAA
17427278 GCACCAAACT
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
13 3 0.07
14 7 0.15
16 11 0.24
17 6 0.13
18 5 0.11
19 9 0.20
20 5 0.11
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAATATAAATATAGAAT
Found at i:17431616 original size:7 final size:7
Alignment explanation
Indices: 17431604--17431725 Score: 70
Period size: 7 Copynumber: 17.1 Consensus size: 7
17431594 ACTAATTAAT
17431604 CTAAACC
1 CTAAACC
17431611 CTAAACC
1 CTAAACC
*
17431618 TCTTAACCC
1 -C-TAAACC
*
17431627 CT-ATCC
1 CTAAACC
*
17431633 CATAAACA
1 C-TAAACC
*
17431641 CTAAACT
1 CTAAACC
17431648 CTAAACC
1 CTAAACC
*
17431655 CTTAACC
1 CTAAACC
*
17431662 CCAAACC
1 CTAAACC
*
17431669 CTTACACC
1 C-TAAACC
*
17431677 TTAAACTC
1 CTAAAC-C
17431685 C--AACC
1 CTAAACC
*
17431690 CTAACCC
1 CTAAACC
17431697 CTAAACC
1 CTAAACC
*
17431704 CTAAATC
1 CTAAACC
* *
17431711 ATAATCC
1 CTAAACC
17431718 CTAAACC
1 CTAAACC
17431725 C
1 C
17431726 ATAATTCATC
Statistics
Matches: 85, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 61 0.72
8 10 0.12
9 5 0.06
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:17431682 original size:36 final size:36
Alignment explanation
Indices: 17431604--17431705 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 36
17431594 ACTAATTAAT
* * * *
17431604 CTAAACCCTAAACCTCTTAACCCCTATCCCATAAACA
1 CTAAACTCTAAACC-CTTAACCCCAAACCCTTAAACA
*
17431641 CTAAACTCTAAACCCTTAACCCCAAACCCTTACAC-
1 CTAAACTCTAAACCCTTAACCCCAAACCCTTAAACA
*
17431676 CTTAAACTC-CAACCC-TAACCCCTAAACCCT
1 C-TAAACTCTAAACCCTTAACCCC-AAACCCT
17431706 AAATCATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
34 7 0.12
35 13 0.23
36 24 0.42
37 13 0.23
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (36 bp):
CTAAACTCTAAACCCTTAACCCCAAACCCTTAAACA
Found at i:17431775 original size:7 final size:7
Alignment explanation
Indices: 17431763--17431814 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
17431753 AGTTAACTCC
*
17431763 TAAACCT
1 TAAACCA
*
17431770 TAAACCC
1 TAAACCA
17431777 TAAACCA
1 TAAACCA
* * *
17431784 TATATCT
1 TAAACCA
17431791 TAAACCA
1 TAAACCA
17431798 TAAACCA
1 TAAACCA
*
17431805 TAAACTA
1 TAAACCA
17431812 TAA
1 TAA
17431815 TAATAATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:17432168 original size:40 final size:40
Alignment explanation
Indices: 17431971--17432148 Score: 270
Period size: 41 Copynumber: 4.4 Consensus size: 40
17431961 GTTATATGAC
*
17431971 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
17432012 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
17432053 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
* *
17432093 TTTTA-CGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGT
*
17432133 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
17432149 GGTAAAACGC
Statistics
Matches: 130, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
39 5 0.04
40 38 0.29
41 87 0.67
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
Found at i:17432178 original size:41 final size:41
Alignment explanation
Indices: 17431971--17432178 Score: 250
Period size: 41 Copynumber: 5.1 Consensus size: 41
17431961 GTTATATGAC
*
17431971 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG-G
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGTG
17432011 TTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTG-G
1 -TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGTG
17432052 TTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT-
1 -TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGTG
* *
17432093 TTTTA-CGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGT-
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGTG
* ** * *
17432133 TTTTAGTGGCGTTTTTGGTAAAA-CGCCGCTATTGCTATGTG
1 TTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTAATGCTCTGTG
17432174 TTTTA
1 TTTTA
17432179 CAATTTTTGC
Statistics
Matches: 155, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
39 5 0.03
40 57 0.37
41 93 0.60
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGTG
Found at i:17432217 original size:12 final size:12
Alignment explanation
Indices: 17432202--17432227 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17432192 GTTTTTTGAT
17432202 AAAACGCCGCTA
1 AAAACGCCGCTA
17432214 AAAACGCCGCTA
1 AAAACGCCGCTA
17432226 AA
1 AA
17432228 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:17435280 original size:15 final size:15
Alignment explanation
Indices: 17435262--17435312 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
17435252 TATATTAAGA
17435262 ATATTATTAAATTAT
1 ATATTATTAAATTAT
**
17435277 ATATTATTTTATTAT
1 ATATTATTAAATTAT
*
17435292 AT-TGTATTAAATAAT
1 ATAT-TATTAAATTAT
17435307 A-ATTAT
1 ATATTAT
17435313 GTTAAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATATTATTAAATTAT
Found at i:17435281 original size:58 final size:58
Alignment explanation
Indices: 17435209--17435347 Score: 142
Period size: 58 Copynumber: 2.4 Consensus size: 58
17435199 TATTATTTTT
* * *
17435209 ATAATATTATATATTATGATTTTTTA-ATT-CATGT-TATAATAATTATATTAAGAATATT
1 ATAAAATTATATATTAT-ATTTTTTATATTGCAT-TAAATAATAATTATATTAA-AATATG
* * * *
17435267 ATTAAATTATATATTAT-TTTATTATATTGTATTAAATAATAATTATGTTAAAATATG
1 ATAAAATTATATATTATATTTTTTATATTGCATTAAATAATAATTATATTAAAATATG
*
17435324 ATAAAATTATTTATTATTATTTTT
1 ATAAAATTATATATTA-TATTTTT
17435348 ATTAAAATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
56 6 0.09
57 23 0.35
58 33 0.50
59 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
ATAAAATTATATATTATATTTTTTATATTGCATTAAATAATAATTATATTAAAATATG
Found at i:17435362 original size:26 final size:25
Alignment explanation
Indices: 17435325--17435395 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
17435315 TAAAATATGA
** * *
17435325 TAAAATTATTTATTATTATTTTTAT
1 TAAAATTATTTAACAATAATTTTAT
17435350 TAAAATATATTTAACAATAATTTTAT
1 TAAAAT-TATTTAACAATAATTTTAT
*
17435376 TAAAATT-TAATAACAATAAT
1 TAAAATTAT-TTAACAATAAT
17435396 CATCAACCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 17 0.44
26 21 0.54
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAAATTATTTAACAATAATTTTAT
Found at i:17435379 original size:61 final size:57
Alignment explanation
Indices: 17435246--17435381 Score: 146
Period size: 61 Copynumber: 2.3 Consensus size: 57
17435236 TTCATGTTAT
* * * * * *
17435246 AATAATTATATTAAGAATATTATTAAATTATATATTATTTTATTATATTGTATTAAAT
1 AATAATTATATTAA-AATATGATAAAATTATATATTATTTTATTAAAATATATTAAAC
* *
17435304 AATAATTATGTTAAAATATGATAAAATTATTTATTATTATTTTTATTAAAATATATTTAAC
1 AATAATTATATTAAAATATGATAAAATTA--TA-TATTA-TTTTATTAAAATATATTAAAC
*
17435365 AATAATTTTATTAAAAT
1 AATAATTATATTAAAAT
17435382 TTAATAACAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
57 13 0.20
58 13 0.20
59 2 0.03
60 5 0.08
61 31 0.48
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (57 bp):
AATAATTATATTAAAATATGATAAAATTATATATTATTTTATTAAAATATATTAAAC
Found at i:17435395 original size:25 final size:26
Alignment explanation
Indices: 17435344--17435395 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17435334 TTATTATTAT
*
17435344 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATATATAACAATAA
*
17435370 TTTTATTAAAATTTA-ATAACAATAA
1 TTTTATTAAAATATATATAACAATAA
17435395 T
1 T
17435396 CATCAACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTTATTAAAATATATATAACAATAA
Found at i:17448302 original size:25 final size:25
Alignment explanation
Indices: 17448272--17448322 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
17448262 TGAAAAGAGC
17448272 AACAGAAGCTTCATAGAAAAGTCAG
1 AACAGAAGCTTCATAGAAAAGTCAG
*
17448297 AACAGAAGCTTCATTGAAAAGTCAG
1 AACAGAAGCTTCATAGAAAAGTCAG
17448322 A
1 A
17448323 CTACTTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (25 bp):
AACAGAAGCTTCATAGAAAAGTCAG
Found at i:17452904 original size:12 final size:12
Alignment explanation
Indices: 17452889--17452919 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17452879 CATGTCTTAG
17452889 CCCGTGTCCTAC
1 CCCGTGTCCTAC
17452901 CCCGTGTCCTAC
1 CCCGTGTCCTAC
17452913 CCCGTGT
1 CCCGTGT
17452920 AACTCTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.48, G:0.19, T:0.26
Consensus pattern (12 bp):
CCCGTGTCCTAC
Found at i:17455191 original size:21 final size:22
Alignment explanation
Indices: 17455139--17455191 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
17455129 TGGAGTGTTA
*
17455139 ATAAGTTAGTTTTAAAGTTTCG
1 ATAAGTTAATTTTAAAGTTTCG
* *
17455161 TTAAG-AAATTTTAAAGTTTCG
1 ATAAGTTAATTTTAAAGTTTCG
17455182 AT-AGTTAATT
1 ATAAGTTAATT
17455192 GAATAAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (22 bp):
ATAAGTTAATTTTAAAGTTTCG
Found at i:17456967 original size:51 final size:51
Alignment explanation
Indices: 17456816--17456970 Score: 265
Period size: 51 Copynumber: 3.0 Consensus size: 51
17456806 ACTTCTGATC
* ** *
17456816 AGTGACAAGTGATAAGTGGTAGCCTCCGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
17456867 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
17456918 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
17456969 AG
1 AG
17456971 CGATAAATGT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 99 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:17459082 original size:7 final size:7
Alignment explanation
Indices: 17459070--17459099 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
17459060 GTATAGGGTT
17459070 TTTAGGG
1 TTTAGGG
17459077 TTTAGGG
1 TTTAGGG
17459084 TTTAGGG
1 TTTAGGG
17459091 TTTAGGG
1 TTTAGGG
17459098 TT
1 TT
17459100 ATATTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:17459535 original size:27 final size:27
Alignment explanation
Indices: 17459497--17459615 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
17459487 AACACATTAG
17459497 GAAAGAATAGCCTTTATGGCAAACTAT
1 GAAAGAATAGCCTTTATGGCAAACTAT
* * *
17459524 GAAATAATAGCCTTTATGACAAACTGT
1 GAAAGAATAGCCTTTATGGCAAACTAT
* * * * *
17459551 GAAATAATAGTCTTTGTGTCGAACTAT
1 GAAAGAATAGCCTTTATGGCAAACTAT
* * *
17459578 GAAAGAATAGCCATTGTGGCAAATTAT
1 GAAAGAATAGCCTTTATGGCAAACTAT
*
17459605 GAAGGAATAGC
1 GAAAGAATAGC
17459616 TTTTGGTGGC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (27 bp):
GAAAGAATAGCCTTTATGGCAAACTAT
Found at i:17467301 original size:96 final size:92
Alignment explanation
Indices: 17467083--17467449 Score: 344
Period size: 96 Copynumber: 3.8 Consensus size: 92
17467073 GGTGAATTGT
* * *
17467083 CGATGCCATGTTCCAAACATGGTTTTACACTTGCTCATATGTCGAGGCTGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAAACATGGTCTTACAC-TGCTCATA--TC-ATGCCGATGCCATGTCCCAGA
* *
17467148 TATGGTCTTACACTGGCTCTCA-TA-ATGTGGC
62 CATGGTCTTACACTGGCTCTCATTACAT-T-AC
* * * ** ** *
17467179 CAATGCCATCTGCCCGACATTATCTTACACTAGCGTACATATCAATGTCGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACT-GC-T-CATATC-ATGCCGATGCCATGTCCCAGA
*
17467244 CATGGTCTTACAATGGCTCTCATTACATTAC
62 CATGGTCTTACACTGGCTCTCATTACATTAC
* * * *
17467275 CGATGTCATGTTCCAAACATGGTCTTACACTGACTCTCATATCGTGGCCAATGCCATGTCCCAAA
1 CGATGCCATGTTCCAAACATGGTCTTACACTG---CTCATATCAT-GCCGATGCCATGTCCCAGA
*
17467340 CATGGTCTTACACTGGCTCTTATTACATTAC
62 CATGGTCTTACACTGGCTCTCATTACATTAC
*
17467371 TGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATAT-AGTGGCCGATGCCATGTCCCAG
1 CGATGCCATGTTCCAAACATGGTCTTACACTG---CTCATATCA-T-GCCGATGCCATGTCCCAG
* *
17467435 ATATAGTCTTACACT
61 ACATGGTCTTACACT
17467450 AGCACACATA
Statistics
Matches: 225, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
95 3 0.01
96 210 0.93
97 5 0.02
98 7 0.03
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (92 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGCTCATATCATGCCGATGCCATGTCCCAGACATG
GTCTTACACTGGCTCTCATTACATTAC
Found at i:17467422 original size:144 final size:142
Alignment explanation
Indices: 17467080--17467449 Score: 383
Period size: 144 Copynumber: 2.6 Consensus size: 142
17467070 GAGGGTGAAT
* * * *
17467080 TGTCGATGCCATGTTCCAAACATGGTTTTACACTTGCTCAT-ATGTCGAGGCTGATGCCATGTCC
1 TGTCGATGCCATGTTCCAAACATGGTCTTACAC-TGCTC-TCAT-TAGTGGCCGATGCCATGTCC
* * *
17467144 CAGATATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCCATCTGCCCGACATTATCTTACAC
63 CAGATATGGTCTTACACTGACTCTCATAATGTGGCCAATGCCATCTGCCCAACATGATCTTACAC
17467209 TAGCGTACATATCAA
128 TAGCGTACATATCAA
* * * * ** * *
17467224 TGTCGATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATTACATTACCGATGTCATGTTCC
1 TGTCGATGCCATGTTCCAAACATGGTCTTACACT-GCTCTCATTA-GTGGCCGATGCCATGTCCC
* * * *
17467289 AAACATGGTCTTACACTGACTCTCAT-ATCGTGGCCAATGCCATGT-CCCAAACATGGTCTTACA
64 AGATATGGTCTTACACTGACTCTCATAAT-GTGGCCAATGCCATCTGCCC-AACATGATCTTACA
* * *
17467352 CTGGC-T-CTTATTACA
127 CTAGCGTACATATCA-A
17467367 T-TACTGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATATAGTGGCCGATGCCATGTC
1 TGT-C-GATGCCATGTTCCAAACATGGTCTTACACTG-CTCTCAT-TAGTGGCCGATGCCATGTC
*
17467431 CCAGATATAGTCTTACACT
62 CCAGATATGGTCTTACACT
17467450 AGCACACATA
Statistics
Matches: 183, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
142 6 0.03
143 13 0.07
144 162 0.89
145 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (142 bp):
TGTCGATGCCATGTTCCAAACATGGTCTTACACTGCTCTCATTAGTGGCCGATGCCATGTCCCAG
ATATGGTCTTACACTGACTCTCATAATGTGGCCAATGCCATCTGCCCAACATGATCTTACACTAG
CGTACATATCAA
Found at i:17467460 original size:48 final size:49
Alignment explanation
Indices: 17467083--17467449 Score: 281
Period size: 48 Copynumber: 7.6 Consensus size: 49
17467073 GGTGAATTGT
* * * * *
17467083 CGATGCCATGTTCCAAACATGGTTTTACACTTG--CTCATATGTCGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-AC-ATGGC
* * **
17467131 TGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATA-ATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGGC
* * ** * * *
17467179 CAATGCCATCTGCCC-GACATTATCTTACACTAGCGT-ACATAT-CAAT-GT
1 CGATGCCATGT-CCCAGACATGGTCTTACACTGGC-TCTCATATAC-ATGGC
* **
17467227 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCAT-TACATTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGGC
* * * * *
17467275 CGATGTCATGTTCCAAACATGGTCTTACACTGACTCTCATAT-CGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGGC
* * * **
17467323 CAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTAT-TACATTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGGC
* * * * *
17467371 TGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATATA-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGGC
* *
17467419 CGATGCCATGTCCCAGATATAGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
17467450 AGCACACATA
Statistics
Matches: 247, Mismatches: 58, Indels: 28
0.74 0.17 0.08
Matches are distributed among these distances:
47 8 0.03
48 225 0.91
49 8 0.03
50 6 0.02
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGGC
Found at i:17474880 original size:48 final size:47
Alignment explanation
Indices: 17474825--17475301 Score: 340
Period size: 48 Copynumber: 10.0 Consensus size: 47
17474815 GGGTGAATTA
* * * *
17474825 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATC-ATG
* * *
17474873 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATC-ATG
** * * * * *
17474921 TTGATGTCGTG-TCTCAGACATGGTCTTACATTGGCTCTCATAAT-GTGG
1 CCGATGCCATGTTC-CAGACATGGTCTTACACTAGCTCTCAT-ATCAT-G
* * * * * *
17474969 CTGATACCATG-TCTCAGACATCGTCTTACACTAGCGCACATATCAATA
1 CCGATGCCATGTTC-CAGACATGGTCTTACACTAGCTCTCATATC-ATG
* *
17475017 CCGATGCCATG-TCCTAGACATGGTCTTACATTGGCTCTCAT-TACATTG
1 CCGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCTCATAT-CA-TG
** * * * *
17475065 ATGCTGCCATATTCCAAACATGGTCTTACACTGGCTCTCATATCATGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCAT-G
* *
17475113 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAATG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCT-CTCATATC-ATG
* * *
17475161 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAT-CA-TG
* * * *
17475209 CTGATACCATGTTCCAAACATGGTCTTACACT-GACTCTCATATCGTGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAG-CTCTCATATCAT-G
** ** * * * *
17475257 TAGATGCCATGCCCCAGATATGGTTTTACACTAGCACACATATCA
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCA
17475302 CCCAAATGTC
Statistics
Matches: 339, Mismatches: 70, Indels: 40
0.76 0.16 0.09
Matches are distributed among these distances:
47 13 0.04
48 315 0.93
49 11 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCATG
Found at i:17475091 original size:144 final size:143
Alignment explanation
Indices: 17474827--17475301 Score: 578
Period size: 144 Copynumber: 3.3 Consensus size: 143
17474817 GTGAATTACC
* * * * * *
17474827 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
* * * * * * * * *
17474892 ATGGTCTTACACTAGCTCTCGTCT-CAATGTTGATGTCGTGTCTCAGACATGGTCTTACATTGGC
66 ATGGTCTTACACTGGCTCTCAT-TACATTGATGATGCCATTTC-CAAACATGGTCTTACACTGGC
17474956 TCTCATAAT-GTGGCT
129 TCTCAT-ATCGTGGCT
* * * * *
17474971 GATACCATGTCTCAGACATCGTCTTACACTAGCGCACATATCAATACCGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
* *
17475036 ATGGTCTTACATTGGCTCTCATTACATTGATGCTGCCATATTCCAAACATGGTCTTACACTGGCT
66 ATGGTCTTACACTGGCTCTCATTACATTGATGATGCCAT-TTCCAAACATGGTCTTACACTGGCT
* *
17475101 CTCATATCATGGCC
130 CTCATATCGTGGCT
* *
17475115 GATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAATGCCGATGTCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
* * *
17475180 ATGGTCTTACACTGGCTCTCATTACATTGCTGATACCATGTTCCAAACATGGTCTTACACTGACT
66 ATGGTCTTACACTGGCTCTCATTACATTGATGATGCCAT-TTCCAAACATGGTCTTACACTGGCT
17475245 CTCATATCGTGG-T
130 CTCATATCGTGGCT
* * * *
17475258 AGATGCCATGCCCCAGATATGGTTTTACACTAGCACACATATCA
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
17475302 CCCAAATGTC
Statistics
Matches: 283, Mismatches: 44, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
143 3 0.01
144 278 0.98
145 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (143 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCTCTCATTACATTGATGATGCCATTTCCAAACATGGTCTTACACTGGCTC
TCATATCGTGGCT
Found at i:17477889 original size:45 final size:45
Alignment explanation
Indices: 17477825--17477935 Score: 159
Period size: 45 Copynumber: 2.5 Consensus size: 45
17477815 AACGGTAGTA
* * * *
17477825 GTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
* *
17477870 GTAACAGTAATGGTAACAGTATTCTACACACAAAGTGTCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
*
17477915 GTAACAGTAACGGTAATAGTA
1 GTAACAGTAACGGTAACAGTA
17477936 ACAGTAATCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:17478185 original size:40 final size:40
Alignment explanation
Indices: 17478141--17478227 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
17478131 AATTCATTAC
* * *
17478141 TTCAGTAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
** ** *
17478181 TTCAGTAACTTCGGAATTCAATTTAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
17478221 TTCAGTA
1 TTCAGTA
17478228 TTCCATAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:17479350 original size:25 final size:23
Alignment explanation
Indices: 17479306--17479366 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
17479296 AGTTTGATTT
*
17479306 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
17479330 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
17479354 ATATAAATTATAT
1 AT-TTAATTATAT
17479367 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:17479369 original size:35 final size:35
Alignment explanation
Indices: 17479314--17479393 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
17479304 TTATTTAATA
* *
17479314 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
17479348 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
17479383 ATATAAT-TAAA
1 ATATAATATAAA
17479394 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:17484124 original size:5 final size:5
Alignment explanation
Indices: 17484114--17484153 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
17484104 AGTATAAATA
17484114 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17484154 AAAGAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:17486157 original size:2 final size:2
Alignment explanation
Indices: 17486150--17486175 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17486140 TTAGATGCTG
17486150 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17486176 TGTTTTATAG
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17486564 original size:84 final size:84
Alignment explanation
Indices: 17486423--17486579 Score: 251
Period size: 84 Copynumber: 1.9 Consensus size: 84
17486413 AAGTAATGAC
* * *
17486423 AGTTCTAGAAGAGATAGCAGATTATTTTGAAGATTACTCGGGACATGCAATGTTGCTATTAAGGA
1 AGTTCTAGAAGAGATAGCAGATTATTTTGAAGATTACTCGGGACACGCAATGCTGCTATTAAAGA
17486488 AGAAGTTAGGTAGTAGGAT
66 AGAAGTTAGGTAGTAGGAT
* * * *
17486507 AGTTCTAGAGGAGATATCAGATTATTTTGAAGATTATTCGGGATACGCAATGCTGCTATTAAAGA
1 AGTTCTAGAAGAGATAGCAGATTATTTTGAAGATTACTCGGGACACGCAATGCTGCTATTAAAGA
17486572 AGAAGTTA
66 AGAAGTTA
17486580 TTCACGAGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (84 bp):
AGTTCTAGAAGAGATAGCAGATTATTTTGAAGATTACTCGGGACACGCAATGCTGCTATTAAAGA
AGAAGTTAGGTAGTAGGAT
Found at i:17489713 original size:30 final size:30
Alignment explanation
Indices: 17489674--17489736 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
17489664 ATTTATTTTA
*
17489674 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTAAATTTTCTTATTATTTTAGAA-GCAT
*
17489704 TTGTAAATTTTTTTATTATTTTAGAAGCAT
1 TTGTAAATTTTCTTATTATTTTAGAAGCAT
17489734 TTG
1 TTG
17489737 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTAAATTTTCTTATTATTTTAGAAGCAT
Found at i:17490683 original size:5 final size:5
Alignment explanation
Indices: 17490673--17490712 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
17490663 AGTATAAATA
*
17490673 TATAT TATAT TATAT TATAT TATAT TATAA TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17490713 AAAACAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:17490800 original size:25 final size:25
Alignment explanation
Indices: 17490741--17490827 Score: 77
Period size: 30 Copynumber: 3.3 Consensus size: 25
17490731 ATAAATAAAT
*
17490741 AGAAATAGAAAAAGAAAAAGAAAGCTAA
1 AGAAA-AGAAAAAGAGAAAGAAAG--AA
* *
17490769 AGCAGAAATGAAACAGAGAAGGAAAGAA
1 AG-A-AAA-GAAAAAGAGAAAGAAAGAA
*
17490797 AGAAAAGAAAAAGAGAAAGAAAG-G
1 AGAAAAGAAAAAGAGAAAGAAAGAA
17490821 AGAAAAG
1 AGAAAAG
17490828 GCTAGGATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
24 7 0.14
25 15 0.30
26 3 0.06
27 1 0.02
28 6 0.12
29 2 0.04
30 16 0.32
ACGTcount: A:0.68, C:0.03, G:0.25, T:0.03
Consensus pattern (25 bp):
AGAAAAGAAAAAGAGAAAGAAAGAA
Found at i:17491277 original size:35 final size:34
Alignment explanation
Indices: 17491238--17491325 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 34
17491228 TTAGATAAAA
17491238 ATTGA-AATATTTAATATGAGATTGAATTGCGTTGT
1 ATTGAGAAT-TTTAAT-TGAGATTGAATTGCGTTGT
** *
17491273 ATTGATGAATTTTAATTGTTATTGAATTGTGTTGT
1 ATTGA-GAATTTTAATTGAGATTGAATTGCGTTGT
17491308 ATTGATGAATTTTAATTG
1 ATTGA-GAATTTTAATTG
17491326 TTTTAAATCC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 39 0.81
36 6 0.12
37 3 0.06
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (34 bp):
ATTGAGAATTTTAATTGAGATTGAATTGCGTTGT
Found at i:17491318 original size:18 final size:18
Alignment explanation
Indices: 17491260--17491318 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
17491250 AATATGAGAT
*
17491260 TGAATTGCGTTGTATTGA
1 TGAATTGTGTTGTATTGA
* *
17491278 TGAATTTTAATTG--TT-A
1 TGAATTGT-GTTGTATTGA
17491294 TTGAATTGTGTTGTATTGA
1 -TGAATTGTGTTGTATTGA
17491313 TGAATT
1 TGAATT
17491319 TTAATTGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
16 4 0.13
17 9 0.29
18 14 0.45
19 4 0.13
ACGTcount: A:0.25, C:0.02, G:0.22, T:0.51
Consensus pattern (18 bp):
TGAATTGTGTTGTATTGA
Found at i:17491326 original size:35 final size:35
Alignment explanation
Indices: 17491258--17491327 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
17491248 TTAATATGAG
17491258 ATTGAATTGCGTTGTATTGATGAATTTTAATTGTT
1 ATTGAATTGCGTTGTATTGATGAATTTTAATTGTT
*
17491293 ATTGAATTGTGTTGTATTGATGAATTTTAATTGTT
1 ATTGAATTGCGTTGTATTGATGAATTTTAATTGTT
17491328 TTAAATCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.01, G:0.20, T:0.53
Consensus pattern (35 bp):
ATTGAATTGCGTTGTATTGATGAATTTTAATTGTT
Found at i:17497504 original size:4 final size:4
Alignment explanation
Indices: 17497458--17497486 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
17497448 TAACCCGTAC
17497458 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
17497487 CATATGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:17504140 original size:23 final size:24
Alignment explanation
Indices: 17504109--17504157 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
17504099 CAATATGACT
17504109 TAACTTTTTTTTTGTTTCCCAAGG
1 TAACTTTTTTTTTGTTTCCCAAGG
17504133 TAAC-TTTTTTTTGTTTCCCAAGG
1 TAACTTTTTTTTTGTTTCCCAAGG
17504156 TA
1 TA
17504158 TTGATTTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.18, C:0.16, G:0.12, T:0.53
Consensus pattern (24 bp):
TAACTTTTTTTTTGTTTCCCAAGG
Found at i:17505662 original size:5 final size:5
Alignment explanation
Indices: 17505652--17505685 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
17505642 AAGAATTAAG
17505652 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
17505686 ATAAAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:17505783 original size:10 final size:11
Alignment explanation
Indices: 17505755--17505780 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17505745 ACAGAAGGGA
17505755 AAAAAGGAAAG
1 AAAAAGGAAAG
17505766 AAAAAGGAAAG
1 AAAAAGGAAAG
17505777 AAAA
1 AAAA
17505781 GGAGAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAAGGAAAG
Found at i:17507099 original size:17 final size:18
Alignment explanation
Indices: 17507074--17507107 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17507064 TGAATTGAAT
17507074 ATTGAATGACT-AATGTC
1 ATTGAATGACTGAATGTC
*
17507091 ATTGTATGACTGAATGT
1 ATTGAATGACTGAATGT
17507108 GGTTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (18 bp):
ATTGAATGACTGAATGTC
Found at i:17517024 original size:50 final size:50
Alignment explanation
Indices: 17516956--17517052 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
17516946 TTCTATAATA
17516956 CTTCAATATTTTGATATCATGGCATGCATTTCATAACAAATATATTTCTT
1 CTTCAATATTTTGATATCATGGCATGCATTTCATAACAAATATATTTCTT
*
17517006 CTTCAATATTTTGGTATCATGGCATGCATTTCATAACAAATATATTT
1 CTTCAATATTTTGATATCATGGCATGCATTTCATAACAAATATATTT
17517053 GCCATTTGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (50 bp):
CTTCAATATTTTGATATCATGGCATGCATTTCATAACAAATATATTTCTT
Found at i:17524554 original size:48 final size:48
Alignment explanation
Indices: 17524382--17524807 Score: 214
Period size: 48 Copynumber: 8.8 Consensus size: 48
17524372 GCGATATGAA
* * * * * *
17524382 AGCCAGTGTAAGACCATGCCTGGGACATGGCATCAGCCTCGA-TACGT-
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCAT-TATTATGTG
* * * * **
17524429 -GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGGTA-TATACG
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCA---TTATTATGTG
* ** * * * * *
17524478 AGCCACTGTAAGGCTATGTTTGGAACATGGAATCGGCATTTTTATGTG
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTATTATGTG
* * * * *
17524526 AGCCAGTGTAATACCATGTCTGGGACATGGCATCGGCCTCAATATGAG
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTATTATGTG
* * * *
17524574 AGCCAGTGTAAGACCATGT-TTGGATCATGGCATCAGCATTGTTATGTG
1 AGCCAGTGTAAAACCATGTCTGGGA-CATGGCATCGGCATTATTATGTG
* * * * * * * *
17524622 AGCCAGTGTAAAACCATGTCTAGGTCATGACATCAGCCTCAATATGCG
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTATTATGTG
*** * ** * ** * *
17524670 AGCCAGTGTAAGGTCATGTTTGAAACATGACATCAACATTGTTATATG
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTATTATGTG
* * * * * * ** *
17524718 CGTCAGTCTAAGACCATGTCTGGGGCATGGCATAGGCACCGATGTATGAG
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCA-TTAT-TATGTG
* * *
17524768 AGCCACTGTAAGACCATGCCTGGGACATGGCATCGGCATT
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATT
17524808 TTACCATTTT
Statistics
Matches: 276, Mismatches: 93, Indels: 18
0.71 0.24 0.05
Matches are distributed among these distances:
46 32 0.12
47 5 0.02
48 171 0.62
49 4 0.01
50 64 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTATTATGTG
Found at i:17524613 original size:96 final size:96
Alignment explanation
Indices: 17524375--17524807 Score: 376
Period size: 96 Copynumber: 4.5 Consensus size: 96
17524365 GACTATGGCG
* * * * * * * *
17524375 ATATGAAAGCCAGTGTAAGACCATGCCTGGGACATGGCATCAGCCTCGATACGT--GTCAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATG-TTTGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTA
* *
17524438 AGACCATGTCTGGGACATGGCATCGACACCGGT
65 AGACCATGTCTGGGACATGGCATCGGCACC-GA
* * * * * *
17524471 ATAT-ACGAGCCACTGTAAGGCTATGTTTGGAACATGGAATCGGCATTTTTATGTGAGCCAGTGT
1 ATATGA-GAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCAGCATTGTTATGTGAGCCAGTGT
*
17524535 AATACCATGTCTGGGACATGGCATCGGC-CTC-A
64 AAGACCATGTCTGGGACATGGCATCGGCAC-CGA
17524567 ATATGAGAGCCAGTGTAAGACCATGTTTGGATCATGGCATCAGCATTGTTATGTGAGCCAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGA-CATGGCATCAGCATTGTTATGTGAGCCAGTGTA
* * * * *
17524632 AAACCATGTCTAGGTCATGACATCAGC-CTC-A
65 AGACCATGTCTGGGACATGGCATCGGCAC-CGA
* ** * * * * * * *
17524663 ATATGCGAGCCAGTGTAAGGTCATGTTTGAAACATGACATCAACATTGTTATATGCGTCAGTCTA
1 ATATGAGAGCCAGTGTAAGACCATGTTTG-GACATGGCATCAGCATTGTTATGTGAGCCAGTGTA
* *
17524728 AGACCATGTCTGGGGCATGGCATAGGCACCGA
65 AGACCATGTCTGGGACATGGCATCGGCACCGA
* * * * *
17524760 TGTATGAGAGCCACTGTAAGACCATGCCTGGGACATGGCATCGGCATT
1 -ATATGAGAGCCAGTGTAAGACCATG-TTTGGACATGGCATCAGCATT
17524808 TTACCATTTT
Statistics
Matches: 270, Mismatches: 55, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
95 5 0.02
96 191 0.71
97 5 0.02
98 67 0.25
99 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (96 bp):
ATATGAGAGCCAGTGTAAGACCATGTTTGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAA
GACCATGTCTGGGACATGGCATCGGCACCGA
Found at i:17528609 original size:43 final size:44
Alignment explanation
Indices: 17528508--17528623 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 44
17528498 GGTTACCGAG
* *
17528508 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATA
*** * *
17528552 AT-TGATTTGGTGTAAGACCCTGTCTGGGACAGTGGTATCGAT-
1 ATGTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATA
* *
17528594 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
17528624 TATGACATTG
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 2 0.03
43 54 0.93
44 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATA
Found at i:17530894 original size:46 final size:45
Alignment explanation
Indices: 17530844--17531019 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
17530834 TGGTTGAGCA
17530844 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
17530890 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
17530937 TCCGAGCTCGTTGA-TTGGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCAAACTCGTTGAGTT-GAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
17530983 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17531020 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 29 0.27
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:17531000 original size:93 final size:93
Alignment explanation
Indices: 17530841--17531011 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
17530831 GGATGGTTGA
* *
17530841 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
17530906 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * * *
17530934 GCATCCGAGCTCGTTGA-TTGGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTT-GAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
17530998 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
17531012 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:17533749 original size:62 final size:62
Alignment explanation
Indices: 17533681--17533829 Score: 244
Period size: 62 Copynumber: 2.4 Consensus size: 62
17533671 AGTTATTATC
*
17533681 TTAATATTAAATTTAATTTAATGTTTATCTTGCAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTGCAGATAAACATTCTATTATTTTAATAAGAT
* * *
17533743 TTAATATTAAGTTTAATTTAATATTTATTTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTGCAGATAAACATTCTATTATTTTAATAAGAT
* *
17533805 TTAACATTAAATTAAATTTAATATT
1 TTAATATTAAATTTAATTTAATATT
17533830 AAAATTGATT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (62 bp):
TTAATATTAAATTTAATTTAATATTTATCTTGCAGATAAACATTCTATTATTTTAATAAGAT
Found at i:17534064 original size:10 final size:11
Alignment explanation
Indices: 17534041--17534070 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17534031 ACCCACAGGT
*
17534041 AAATTTTTGAA
1 AAATTTTCGAA
17534052 AAATTTTCGAA
1 AAATTTTCGAA
17534063 AAATTTTC
1 AAATTTTC
17534071 TAATTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (11 bp):
AAATTTTCGAA
Found at i:17539263 original size:39 final size:40
Alignment explanation
Indices: 17539214--17539320 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 40
17539204 GAAATTATAA
* *
17539214 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGA-GGCATACTAT
* *
17539253 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGGCATACTAT
*
17539293 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCAATTGTGC
17539321 ACATGGTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
38 5 0.08
39 26 0.44
40 26 0.44
41 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGGCATACTAT
Found at i:17539334 original size:40 final size:39
Alignment explanation
Indices: 17539208--17539336 Score: 132
Period size: 40 Copynumber: 3.3 Consensus size: 39
17539198 TTGCTGGAAA
* * * * *
17539208 TTATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
* * * * **
17539247 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
17539287 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
17539327 TTATATCCGG
1 TTATATCCGG
17539337 TTATATTCCG
Statistics
Matches: 69, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
39 29 0.42
40 40 0.58
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:17550682 original size:15 final size:15
Alignment explanation
Indices: 17550627--17550683 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
17550617 TTTATACTAC
17550627 AAAATATTTATTATT
1 AAAATATTTATTATT
* *
17550642 AACATATTTATAATTGT
1 AAAATATTTATTA-T-T
17550659 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
17550676 AAAATATT
1 AAAATATT
17550684 AATTTTGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:17550793 original size:22 final size:22
Alignment explanation
Indices: 17550747--17550808 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
17550737 TTAAAATTTA
* *
17550747 TTATTAAAATATTAA-ATA-AT
1 TTATTAAAATAATAATTTATAT
17550767 TTATTAAAATAATAATTTATAT
1 TTATTAAAATAATAATTTATAT
* *
17550789 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAATTTAT
17550809 TATATGACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.39
21 2 0.06
22 20 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAATTTATAT
Found at i:17552846 original size:6 final size:6
Alignment explanation
Indices: 17552835--17552869 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
17552825 AAACAAATAT
17552835 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
17552870 TAAAATGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:17553726 original size:18 final size:19
Alignment explanation
Indices: 17553703--17553738 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17553693 AAACTTTAGC
*
17553703 TTTTTC-TTTATTTACAAG
1 TTTTTCATTAATTTACAAG
17553721 TTTTTCATTAATTTACAA
1 TTTTTCATTAATTTACAA
17553739 TGAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTCATTAATTTACAAG
Found at i:17555383 original size:135 final size:136
Alignment explanation
Indices: 17555209--17555509 Score: 368
Period size: 135 Copynumber: 2.2 Consensus size: 136
17555199 ATTTCTAAGT
* * * *
17555209 TTTTTAAATTTTTAATT-ATTTTTTTAATATATTAATTACTTTGTTAGATGCTTATATAGTTGCA
1 TTTTT-AATTTTTAATTAATATTTTTAACATATTAATTACTTTGTTAGATGCTTAGATAGTTACA
* * *
17555273 ATTACATCCTT-AAGTCTTGAGTTTGA-TT-T-TTTTAATCATATTTTTATTTTTTATTTTATGT
65 ATTACATCCTTGAA-TCTTGAGTTTGATTTCTCTTTTAATAATATTTGTATTTTTTATTTCATGT
*
17555334 TGCTTAAA
129 TACTTAAA
* * *
17555342 CTTTTTCAATTTTTAATTAATATTTTTAACATATTAGTTACTTTTTTAGATGGTTAGATAGTTAC
1 -TTTTT-AATTTTTAATTAATATTTTTAACATATTAATTACTTTGTTAGATGCTTAGATAGTTAC
* *
17555407 AATTACATTCTTGAATCTTGAGTTTGATTTCTCTTTTACTAATATTTGTATTTTTTATTTCATGT
64 AATTACATCCTTGAATCTTGAGTTTGATTTCTCTTTTAATAATATTTGTATTTTTTATTTCATGT
*
17555472 TACTTTAA
129 TACTTAAA
*
17555480 --GTT--TTTTTAATTAATATTTTTAACATATTA
1 TTTTTAATTTTTAATTAATATTTTTAACATATTA
17555510 TCTCATTTTG
Statistics
Matches: 146, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
132 27 0.18
134 16 0.11
135 64 0.44
136 4 0.03
137 1 0.01
138 34 0.23
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.57
Consensus pattern (136 bp):
TTTTTAATTTTTAATTAATATTTTTAACATATTAATTACTTTGTTAGATGCTTAGATAGTTACAA
TTACATCCTTGAATCTTGAGTTTGATTTCTCTTTTAATAATATTTGTATTTTTTATTTCATGTTA
CTTAAA
Found at i:17555647 original size:13 final size:13
Alignment explanation
Indices: 17555629--17555653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17555619 TTTTTTTAAT
17555629 TTTTAATTAATAC
1 TTTTAATTAATAC
17555642 TTTTAATTAATA
1 TTTTAATTAATA
17555654 AATATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAATTAATAC
Found at i:17555985 original size:139 final size:138
Alignment explanation
Indices: 17555729--17556072 Score: 404
Period size: 139 Copynumber: 2.5 Consensus size: 138
17555719 ACAATATATT
* * * **
17555729 TATTAATTAAAAATAAAAAAGTTTGAAATAACATGAAATAAAAAATGCATTAATATACTTATAAA
1 TATTAATTAAAAATAAAAAAGCTTGAAGTAACATGAAATAAAAAATACA--AATATAAGTATAAA
* * * * * * *
17555794 AATAATGAAACTTCAGATTCAAAAATATAATTACAATTATCTAACCATCTAACAAAAAG-AGCTA
64 AAGAATCAAACTTAAGACTAAAAAATATAATTACAACTATCTAACCATCTAAC--AAAGTAACTA
17555858 ATATATTAAAAA
127 ATATATTAAAAA
* * *
17555870 TATTAATTAAAAATAAAAAAGCTGGAAGTAACATGGAATAAAAAATACAAATATAAGTA-AGAGA
1 TATTAATTAAAAATAAAAAAGCTTGAAGTAACATGAAATAAAAAATACAAATATAAGTATA-AAA
* * *
17555934 AGAATCAAAGTTAAGACTAAAAAATATAATTACAACTATCTAACCATCTAACCAAGTAACTCATA
65 AGAATCAAACTTAAGACTAAAAAATATAATTACAACTATCTAACCATCTAACAAAGTAACTAATA
17555999 TATTAAAAA
130 TATTAAAAA
* * * * * *
17556008 AATTAATTAAAATTTTAAAAAGCTTAAAGCAACATGAAATAAAAAATACAAATATAAGTAGAAAA
1 TATTAATTAAAA-ATAAAAAAGCTTGAAGTAACATGAAATAAAAAATACAAATATAAGTATAAAA
17556073 GGAGTCGAAC
Statistics
Matches: 173, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
137 3 0.02
138 27 0.16
139 98 0.57
140 1 0.01
141 44 0.25
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.26
Consensus pattern (138 bp):
TATTAATTAAAAATAAAAAAGCTTGAAGTAACATGAAATAAAAAATACAAATATAAGTATAAAAA
GAATCAAACTTAAGACTAAAAAATATAATTACAACTATCTAACCATCTAACAAAGTAACTAATAT
ATTAAAAA
Found at i:17556543 original size:14 final size:15
Alignment explanation
Indices: 17556516--17556544 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17556506 ATATTTTAAA
17556516 ATTTAAGATGTAGTG
1 ATTTAAGATGTAGTG
17556531 ATTTAAG-TGTAGTG
1 ATTTAAGATGTAGTG
17556545 TTTGTATTAT
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:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (15 bp):
ATTTAAGATGTAGTG
Found at i:17558456 original size:42 final size:42
Alignment explanation
Indices: 17558323--17558636 Score: 244
Period size: 43 Copynumber: 7.4 Consensus size: 42
17558313 AAAATGCCAT
* * * *
17558323 TATAGAACATGACCTTTAGCGGTGCTTTTCCCAAAAACGCCAC
1 TATAGAACATGACCTTTAGCGGCGCTTTT-CCACAAACACCGC
* * *
17558366 TATAGAATATGACTTTTAACGGCGCTTTTCCCACAAACACCGC
1 TATAGAACATGACCTTTAGCGGCGCTTTT-CCACAAACACCGC
* * * *
17558409 CATAGAACCTAACTTTTAGCGGCGCTTTTCCACAAACACCGC
1 TATAGAACATGACCTTTAGCGGCGCTTTTCCACAAACACCGC
* ***
17558451 TATAGAACATGACCTTTAGTGGTATTTTTTCCACAAA-AGCCGC
1 TATAGAACATGACCTTTAGCGG-CGCTTTTCCACAAACA-CCGC
* * * *
17558494 TATAGAATCA-GACCTTTAGCGGCGCTCTCCCACAAACGCAGC
1 TATAGAA-CATGACCTTTAGCGGCGCTTTTCCACAAACACCGC
* ** * * *
17558536 TATAAAACATGACCTTTAGCATCGCTTTTCC-CAAAAATGCAC
1 TATAGAACATGACCTTTAGCGGCGCTTTTCCACAAACA-CCGC
* * **
17558578 TATTA-AACA-GACCTTTAACGACGC-TTTCTCACAAACGTCGC
1 TA-TAGAACATGACCTTTAGCGGCGCTTTTC-CACAAACACCGC
*
17558619 TAAAGAACATGACCTTTA
1 TATAGAACATGACCTTTA
17558637 AAAAAATATT
Statistics
Matches: 214, Mismatches: 46, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
40 5 0.02
41 27 0.13
42 85 0.40
43 95 0.44
44 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (42 bp):
TATAGAACATGACCTTTAGCGGCGCTTTTCCACAAACACCGC
Found at i:17558512 original size:85 final size:84
Alignment explanation
Indices: 17558323--17558636 Score: 262
Period size: 85 Copynumber: 3.7 Consensus size: 84
17558313 AAAATGCCAT
* * * * * *
17558323 TATAGAACATGACCTTTAGCGGTGCTTTTCCCAAAAACGCCACTATAGAATATGACTTTTAACGG
1 TATAGAACA-GACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTATAGAACATGACCTTTAGCGG
*
17558388 CGCTTTTCCCACAAACACCGC
64 CACTTTTCCCACAAACACCGC
* * * *
17558409 CATAGAACCTA-ACTTTTAGCGGCGCTTTTCCACAAACACCGCTATAGAACATGACCTTTAGTGG
1 TATAGAA-C-AGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGAACATGACCTTTAGCGG
* * *
17558473 TATTTTTTCCACAAA-AGCCGC
64 CACTTTTCCCACAAACA-CCGC
* * * * **
17558494 TATAGAATCAGACCTTTAGCGGCGCTCTCCCACAAACGCAGCTATAAAACATGACCTTTAGCATC
1 TATAGAA-CAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGAACATGACCTTTAGCGGC
* * *
17558559 GCTTTTCCCA-AAA-ATGCAC
65 ACTTTTCCCACAAACA-CCGC
* * * *
17558578 TATTA-AACAGACCTTTAACGACGC-TTTCTCACAAACGTCGCTAAAGAACATGACCTTTA
1 TA-TAGAACAGACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTATAGAACATGACCTTTA
17558637 AAAAAATATT
Statistics
Matches: 182, Mismatches: 40, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
82 2 0.01
83 41 0.23
84 12 0.07
85 103 0.57
86 22 0.12
87 1 0.01
88 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (84 bp):
TATAGAACAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGAACATGACCTTTAGCGGCA
CTTTTCCCACAAACACCGC
Found at i:17559186 original size:2 final size:2
Alignment explanation
Indices: 17559179--17559213 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17559169 TTAAAAATAA
17559179 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17559214 AATAGCCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17562923 original size:15 final size:15
Alignment explanation
Indices: 17562897--17562932 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17562887 AATTATAAAT
17562897 CATAAA-CCATAATC
1 CATAAACCCATAATC
*
17562911 CCTAAACCCATAATC
1 CATAAACCCATAATC
17562926 CATAAAC
1 CATAAAC
17562933 TTTAAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (15 bp):
CATAAACCCATAATC
Found at i:17562980 original size:14 final size:14
Alignment explanation
Indices: 17562957--17563001 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
17562947 TCTTAAAACT
17562957 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* * *
17562971 TATACTCTAAATCA
1 TAAACCCTAAACCA
*
17562985 TAAACCCTAAACTA
1 TAAACCCTAAACCA
17562999 TAA
1 TAA
17563002 TGATAATTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:17563134 original size:40 final size:41
Alignment explanation
Indices: 17563079--17563185 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 41
17563069 AATTTTTTGC
*
17563079 GGCGTTTTTCAAAAAGCGCCGCTAGTGATCGACCTATAG-A
1 GGCGTTTTTCAAAAAGCGCCGCTAATGATCGACCTATAGCA
* *
17563119 GGCGTTTTTTAAAAAGCGCCGCTAATGATCGATCTATAGCA
1 GGCGTTTTTCAAAAAGCGCCGCTAATGATCGACCTATAGCA
* *
17563160 -ACGTTTTTCAAAAAGCGCTGCTAATG
1 GGCGTTTTTCAAAAAGCGCCGCTAATG
17563186 CCACTAAACT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 59 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GGCGTTTTTCAAAAAGCGCCGCTAATGATCGACCTATAGCA
Found at i:17563298 original size:154 final size:154
Alignment explanation
Indices: 17563011--17563335 Score: 426
Period size: 154 Copynumber: 2.1 Consensus size: 154
17563001 ATGATAATTA
* * * *
17563011 TTTCAAAAAGCGCCACTAATTCCACTAAAGCCCAACATAAAATGACGGCGTTGTGCTTAATTTTT
1 TTTCAAAAAGCGCCACTAATGCCACTAAAGCCCAACATAAAACGACGACGTTCTGCTTAATTTTT
* * *
17563076 TGCGGCGTTTTTCAAAAAGCGCCGCTAGTGATCGACCTATAGAGGCGTTTTTTAAAAAGCGCCGC
66 TGCAGCGTTTTTCAAAAAGCGCCGCTAATGATCGACCTATAGAAGCGTTTTTTAAAAAGCGCCGC
*
17563141 TAATGATCGATCTATAGCA-ACGTT
131 TAATGATCGATCTATAG-AGACATT
** *
17563165 TTTCAAAAAGCGCTGCTAATGCCACTAAA-CTTCAACATAAAACGACGACGTTCTGCTTAATTTT
1 TTTCAAAAAGCGCCACTAATGCCACTAAAGC-CCAACATAAAACGACGACGTTCTGCTTAATTTT
* * *
17563229 TT-CAGCGTTTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATA-ACAGTGTTTTTTAAAAAGTG
65 TTGCAGCG--TTTTTCAAAAAGCGCCGCTAATGATCGACCTATAGA-AGCGTTTTTTAAAAAGCG
* *
17563292 CC-CTAATGCTCGATCTATAGAGGCATT
127 CCGCTAATGATCGATCTATAGAGACATT
17563319 TTTCAAAAAGCGCCACT
1 TTTCAAAAAGCGCCACT
17563336 GATGTTCAAT
Statistics
Matches: 148, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
153 6 0.04
154 93 0.63
155 49 0.33
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (154 bp):
TTTCAAAAAGCGCCACTAATGCCACTAAAGCCCAACATAAAACGACGACGTTCTGCTTAATTTTT
TGCAGCGTTTTTCAAAAAGCGCCGCTAATGATCGACCTATAGAAGCGTTTTTTAAAAAGCGCCGC
TAATGATCGATCTATAGAGACATT
Found at i:17563310 original size:39 final size:38
Alignment explanation
Indices: 17563237--17563388 Score: 139
Period size: 38 Copynumber: 3.9 Consensus size: 38
17563227 TTTTCAGCGT
* *
17563237 TTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAACAGTG
1 TTTTTT-AAAAAGCGCCGCTAATGCTCGATCTAT-A-AGTG
*
17563278 TTTTTTAAAAAGTGCC-CTAATGCTCGATCTATAGAG-G
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA-AGTG
* * * * *
17563315 CATTTTTCAAAAAGCGCCACTGATGTTCAATCTAT-AGTG
1 --TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAAGTG
*
17563354 TGTTTTTCAAAAGCGCCGCTAATGCTCGATCTATA
1 T-TTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
17563389 GCGACGTTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
37 2 0.02
38 31 0.34
39 29 0.32
40 22 0.24
41 6 0.07
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (38 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAAGTG
Found at i:17563384 original size:78 final size:77
Alignment explanation
Indices: 17563238--17563389 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 77
17563228 TTTCAGCGTT
* * *
17563238 TTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAACAGTGTTTTTTAAAAAGTGCCCTAATGCTC
1 TTTTTCAAAAAGCGCCACTAATGGTCAACCTAT-A-AGTGTTTTTTAAAAAGCGCCCTAATGCTC
17563303 GATCTATAGAGGCA
64 GATCTATAGAGGCA
* * * *
17563317 TTTTTCAAAAAGCGCCACTGATGTTCAATCTAT-AGTGTGTTTTTCAAAAGCGCCGCTAATGCTC
1 TTTTTCAAAAAGCGCCACTAATGGTCAACCTATAAGTGT-TTTTTAAAAAGCGCC-CTAATGCTC
17563381 GATCTATAG
64 GATCTATAG
17563390 CGACGTTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 5 0.08
77 13 0.20
78 18 0.28
79 28 0.44
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (77 bp):
TTTTTCAAAAAGCGCCACTAATGGTCAACCTATAAGTGTTTTTTAAAAAGCGCCCTAATGCTCGA
TCTATAGAGGCA
Found at i:17563386 original size:38 final size:39
Alignment explanation
Indices: 17563238--17563389 Score: 157
Period size: 39 Copynumber: 3.9 Consensus size: 39
17563228 TTTCAGCGTT
* * **
17563238 TTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAACAGTG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTAT-AGTGTG
* * *
17563278 TTTTTTAAAAAGTGCC-CTAATGCTCGATCTATAGAG-G
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGTG
* * * *
17563315 CATTTTTCAAAAAGCGCCACTGATGTTCAATCTATAGTGTG
1 --TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGTG
17563356 TTTTTC-AAAAGCGCCGCTAATGCTCGATCTATAG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
17563390 CGACGTTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.01
38 27 0.29
39 34 0.37
40 30 0.32
41 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (39 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGTG
Found at i:17563478 original size:3 final size:3
Alignment explanation
Indices: 17563472--17563504 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
17563462 TGTTATTATA
17563472 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
17563505 TAGATAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:17566682 original size:27 final size:27
Alignment explanation
Indices: 17566634--17566735 Score: 129
Period size: 27 Copynumber: 3.8 Consensus size: 27
17566624 GCGAGGCTGC
* *
17566634 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
17566661 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
17566687 CAGATATGTGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
17566714 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
17566736 TAGGACGCTT
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
26 8 0.12
27 57 0.84
28 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:17567248 original size:27 final size:27
Alignment explanation
Indices: 17567218--17567271 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17567208 ATATGCTGAC
17567218 GAGATCCACACACGAACCGCCTACAAT
1 GAGATCCACACACGAACCGCCTACAAT
17567245 GAGATCCACACACGAACCGCCTACAAT
1 GAGATCCACACACGAACCGCCTACAAT
17567272 TGGATTACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.37, G:0.15, T:0.11
Consensus pattern (27 bp):
GAGATCCACACACGAACCGCCTACAAT
Found at i:17568395 original size:26 final size:26
Alignment explanation
Indices: 17568364--17568471 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
17568354 TGAAATGCCC
*
17568364 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
17568390 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
17568416 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17568442 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17568468 ATCA
1 ATCA
17568472 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17574735 original size:27 final size:26
Alignment explanation
Indices: 17574671--17574800 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 26
17574661 GCGAGGCTGC
* * *
17574671 CAGATATTGT-ACAAAGTCACCAGAT
1 CAGATATTGTGGCAGAGCCACCAGAT
17574696 ACA-ATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* *
17574722 CAGATAATTGTGGCATAGCCACTAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
17574749 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
17574776 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
17574801 GACGCTTCCT
Statistics
Matches: 89, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
25 9 0.10
26 20 0.22
27 56 0.63
28 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:17574762 original size:54 final size:53
Alignment explanation
Indices: 17574699--17574803 Score: 192
Period size: 54 Copynumber: 2.0 Consensus size: 53
17574689 ACCAGATACA
*
17574699 ATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACTAGGACAG
1 ATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGACAG
17574752 ATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 ATAT-TGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
17574804 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 4 0.08
54 46 0.92
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (53 bp):
ATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGACAG
Found at i:17576320 original size:26 final size:26
Alignment explanation
Indices: 17576289--17576395 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
17576279 TGAAATGCCC
*
17576289 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
17576315 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17576341 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17576367 ATCATGGAACATTTACCT-ACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17576392 ATCA
1 ATCA
17576396 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.13
26 66 0.87
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17578714 original size:37 final size:37
Alignment explanation
Indices: 17578650--17578725 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
17578640 TTACAAGCCA
17578650 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
17578687 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
17578724 AA
1 AA
17578726 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:17583337 original size:15 final size:15
Alignment explanation
Indices: 17583290--17583339 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
17583280 CAATTCAAAT
*
17583290 AATCAATATATATTC
1 AATCAATATAAATTC
17583305 AAT-ATATATACCAATTC
1 AATCA-ATATA--AATTC
17583322 AATCAATATAAATTC
1 AATCAATATAAATTC
17583337 AAT
1 AAT
17583340 AAATTCATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:17589426 original size:21 final size:19
Alignment explanation
Indices: 17589402--17589440 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
17589392 TTAACAAATT
17589402 CAAAACATGATCAAACACATC
1 CAAAACAT-ATCAAA-ACATC
*
17589423 CAAATCATATCAAAACAT
1 CAAAACATATCAAAACAT
17589441 ACATCCTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.18
Consensus pattern (19 bp):
CAAAACATATCAAAACATC
Found at i:17590326 original size:40 final size:39
Alignment explanation
Indices: 17590271--17590405 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
17590261 ACCAGTTTGG
*
17590271 CACCCAGTGGCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGGATAATTCGAAGT-ATAAATTGA
* * *
17590311 CACCCAGTGTCTCATCGGCTAAATCGAAG--TAAATTGG
1 CACCCAGTGTCTCATCGGATAATTCGAAGTATAAATTGA
* * * ** * *
17590348 CATCCAGTGCCTTATCAAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGGA-TAATTCGAAGTA-TAAATTGA
17590389 CACCCAGTGTCTCATCG
1 CACCCAGTGTCTCATCG
17590406 ACTCGAAGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
37 20 0.27
38 7 0.10
40 26 0.36
41 20 0.27
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (39 bp):
CACCCAGTGTCTCATCGGATAATTCGAAGTATAAATTGA
Found at i:17590560 original size:11 final size:12
Alignment explanation
Indices: 17590540--17590587 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 12
17590530 TTCAATTCAA
17590540 ATAA-TCAATAT
1 ATAATTCAATAT
17590551 AT-ATTCAATAT
1 ATAATTCAATAT
17590562 ATAATTCAATCAAT
1 ATAATTCAAT--AT
17590576 ATAAATTCAATA
1 AT-AATTCAATA
17590588 AATTCATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.03
11 11 0.34
12 7 0.22
13 1 0.03
14 4 0.12
15 8 0.25
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATTCAATAT
Found at i:17590584 original size:15 final size:15
Alignment explanation
Indices: 17590542--17590586 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
17590532 CAATTCAAAT
*
17590542 AATCAATATATATTC
1 AATCAATATAAATTC
17590557 AAT--ATAT-AATTC
1 AATCAATATAAATTC
17590569 AATCAATATAAATTC
1 AATCAATATAAATTC
17590584 AAT
1 AAT
17590587 AAATTCATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 7 0.27
13 4 0.15
14 4 0.15
15 11 0.42
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:17590593 original size:36 final size:32
Alignment explanation
Indices: 17590515--17590593 Score: 79
Period size: 36 Copynumber: 2.3 Consensus size: 32
17590505 CAAATACAAC
17590515 ATAAATTCAATTCAATTCAATTCAAATAATCA
1 ATAAATTCAATTCAATTCAATTCAAATAATCA
*
17590547 ATATATATTCAATATATAATTCAA-TCAATATAAATTCA
1 ATA-A-ATTCAAT-T-CAATTCAATTCAA-AT-AA-TCA
17590585 ATAAATTCA
1 ATAAATTCA
17590594 TCACATGCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
32 3 0.08
33 1 0.03
34 7 0.18
35 5 0.13
36 14 0.36
37 3 0.08
38 6 0.15
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.37
Consensus pattern (32 bp):
ATAAATTCAATTCAATTCAATTCAAATAATCA
Found at i:17591420 original size:8 final size:8
Alignment explanation
Indices: 17591366--17591430 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
17591356 ATATTTACTA
17591366 ATTATAAT
1 ATTATAAT
17591374 A-TATAAT
1 ATTATAAT
17591381 ATAATATAAAT
1 AT--TAT-AAT
*
17591392 ACT-TAAT
1 ATTATAAT
17591399 AATTA-AA-
1 -ATTATAAT
17591406 A-TATAAT
1 ATTATAAT
17591413 ATTATAAT
1 ATTATAAT
17591421 ATTATAAT
1 ATTATAAT
17591429 AT
1 AT
17591431 ATATTTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
5 2 0.04
6 3 0.07
7 11 0.24
8 22 0.48
9 1 0.02
10 3 0.07
11 4 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
ATTATAAT
Found at i:17591427 original size:27 final size:26
Alignment explanation
Indices: 17591366--17591431 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 26
17591356 ATATTTACTA
*
17591366 ATTATAATATATAATATAATATAAAT
1 ATTATAATATAAAATATAATATAAAT
17591392 ACTTAATAAT-TAAAATATAATATTATAAT
1 A-TT-ATAATATAAAATATAATA-TA-AAT
17591421 ATTATAATATA
1 ATTATAATATA
17591432 TATTTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.03
27 18 0.53
28 11 0.32
29 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTATAATATAAAATATAATATAAAT
Found at i:17594089 original size:2 final size:2
Alignment explanation
Indices: 17594082--17594118 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17594072 AGTCCAATTC
17594082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17594119 ATTTCACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17595502 original size:21 final size:21
Alignment explanation
Indices: 17595468--17595508 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17595458 TAAAATAATT
17595468 TAAAATTTTATTATATAAAAA
1 TAAAATTTTATTATATAAAAA
*
17595489 TAAATATTTT-TTATTTAAAA
1 TAAA-ATTTTATTATATAAAA
17595509 TAGTGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATTTTATTATATAAAAA
Found at i:17597621 original size:13 final size:13
Alignment explanation
Indices: 17597603--17597633 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
17597593 CTTTACTAGG
17597603 ATGTGATTGTAGT
1 ATGTGATTGTAGT
17597616 ATGTGATTGTAGT
1 ATGTGATTGTAGT
17597629 ATGTG
1 ATGTG
17597634 CTTATTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (13 bp):
ATGTGATTGTAGT
Found at i:17602965 original size:20 final size:20
Alignment explanation
Indices: 17602937--17603019 Score: 67
Period size: 20 Copynumber: 3.9 Consensus size: 20
17602927 CTAGGAACTA
*
17602937 TGTGATCTGAGCTCATGAGT
1 TGTGGTCTGAGCTCATGAGT
* *
17602957 TGTGGTCTGAGTTCATGATAT
1 TGTGGTCTGAGCTCATGA-GT
*
17602978 ATGTGGCATCTGAACTCATTGAGT
1 -TGTGG--TCTGAGCTCA-TGAGT
* *
17603002 TATGGTCTGAGTTCATGA
1 TGTGGTCTGAGCTCATGA
17603020 TGTATGTGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
20 19 0.39
21 9 0.18
22 5 0.10
23 4 0.08
24 9 0.18
25 3 0.06
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (20 bp):
TGTGGTCTGAGCTCATGAGT
Found at i:17603008 original size:45 final size:44
Alignment explanation
Indices: 17602941--17603027 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
17602931 GAACTATGTG
* *
17602941 ATCTGAGCTCATGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATGAGTTATGGTCTGAGTTCATGATATATGTGGC
*
17602985 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTCA-TGAGTTATGGTCTGAGTTCATGATATATGTG
17603028 ACACATGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 10 0.26
45 29 0.74
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.38
Consensus pattern (44 bp):
ATCTGAACTCATGAGTTATGGTCTGAGTTCATGATATATGTGGC
Found at i:17603390 original size:2 final size:2
Alignment explanation
Indices: 17603383--17603410 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17603373 TGTGGTAAGA
17603383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17603411 GAAGAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17609355 original size:12 final size:12
Alignment explanation
Indices: 17609338--17609372 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17609328 CAGTTGGGGA
*
17609338 CAAAGTATTTCT
1 CAAAGTATCTCT
17609350 CAAAGTATCTCT
1 CAAAGTATCTCT
*
17609362 CAAAGTTTCTC
1 CAAAGTATCTC
17609373 CTTGGAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (12 bp):
CAAAGTATCTCT
Found at i:17611407 original size:37 final size:37
Alignment explanation
Indices: 17611358--17611429 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
17611348 CATGGTAATT
**
17611358 ATTAGTATTGAATTGTATGAAAT-TAAATTGAATTGTG
1 ATTAGTATTGAATAAT-TGAAATGTAAATTGAATTGTG
*
17611395 ATTA-TATGTGAATAATTGAAATGTATATTGAATTG
1 ATTAGTAT-TGAATAATTGAAATGTAAATTGAATTG
17611430 AGAAAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (37 bp):
ATTAGTATTGAATAATTGAAATGTAAATTGAATTGTG
Found at i:17611980 original size:94 final size:93
Alignment explanation
Indices: 17611819--17612007 Score: 369
Period size: 94 Copynumber: 2.0 Consensus size: 93
17611809 GAGTCTGTTA
17611819 ATAGGGGTAATTAAAAGAAAAGTTAAGTTGAATAAAAGGAATTGGTTGAACCATTGAAAGAAATG
1 ATAGGGGTAATTAAAAGAAAAGTTAAGTTGAATAAAAGGAATTGGTTGAACCATTGAAAGAAATG
17611884 TGAAAATGGAACAGTGATTTGAAAATGTG
66 TGAAAATGGAACA-TGATTTGAAAATGTG
17611913 ATAGGGGTAATTAAAAGAAAAGTTAAGTTGAATAAAAGGAATTGGTTGAACCATTGAAAGAAATG
1 ATAGGGGTAATTAAAAGAAAAGTTAAGTTGAATAAAAGGAATTGGTTGAACCATTGAAAGAAATG
17611978 TGAAAATGGAACATGATTTGAAAATGTG
66 TGAAAATGGAACATGATTTGAAAATGTG
17612006 AT
1 AT
17612008 TTGAATGTGA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 17 0.18
94 78 0.82
ACGTcount: A:0.46, C:0.03, G:0.25, T:0.26
Consensus pattern (93 bp):
ATAGGGGTAATTAAAAGAAAAGTTAAGTTGAATAAAAGGAATTGGTTGAACCATTGAAAGAAATG
TGAAAATGGAACATGATTTGAAAATGTG
Found at i:17622890 original size:36 final size:36
Alignment explanation
Indices: 17622843--17622917 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
17622833 ATCGAATGAG
*
17622843 GCTGATGTGTTTTAAAAACTTCAAAACTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
*
17622879 GCTGATATGTTTTAAATACTTCAAAACTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
17622915 GCT
1 GCT
17622918 TACCTTTTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (36 bp):
GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
Found at i:17623249 original size:7 final size:6
Alignment explanation
Indices: 17623232--17623275 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
17623222 ACTCTCTATC
*
17623232 TCTTTT TCTTTT TCCTTT TC-TTT T-TTTT TCATTTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT TCTTTT TCT
17623276 CATTCTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
5 8 0.24
6 20 0.59
7 6 0.18
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:17623255 original size:17 final size:17
Alignment explanation
Indices: 17623235--17623273 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17623225 CTCTATCTCT
17623235 TTTTCTTTTTC-CTTTTC
1 TTTT-TTTTTCACTTTTC
*
17623252 TTTTTTTTTCATTTTTC
1 TTTTTTTTTCACTTTTC
17623269 TTTTT
1 TTTTT
17623274 CTCATTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTCACTTTTC
Found at i:17624197 original size:18 final size:17
Alignment explanation
Indices: 17624164--17624196 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17624154 ACTTCACCAT
*
17624164 TTTTTTTTATAATTTTG
1 TTTTTTTTAGAATTTTG
17624181 TTTTTTTTAGAATTTT
1 TTTTTTTTAGAATTTT
17624197 TTTCACAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTTTAGAATTTTG
Found at i:17631437 original size:27 final size:27
Alignment explanation
Indices: 17631407--17631460 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
17631397 ATTATTGCAT
*
17631407 ACTGTATCTG-ATGGGGCTAAGGCCCAA
1 ACTGAATCTGAAT-GGGCTAAGGCCCAA
*
17631434 ACTGAATCTGTAATGGGCTCAGGCCCA
1 ACTGAATCTG-AATGGGCTAAGGCCCA
17631461 GCCTATATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 12 0.52
29 2 0.09
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (27 bp):
ACTGAATCTGAATGGGCTAAGGCCCAA
Found at i:17631508 original size:14 final size:14
Alignment explanation
Indices: 17631489--17631516 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17631479 TCTGATGTAT
17631489 TTCTGTATGTATGC
1 TTCTGTATGTATGC
17631503 TTCTGTATGTATGC
1 TTCTGTATGTATGC
17631517 AGCGGAGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (14 bp):
TTCTGTATGTATGC
Found at i:17632417 original size:2 final size:2
Alignment explanation
Indices: 17632410--17632453 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
17632400 AAAAGAGTTA
17632410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17632452 AT
1 AT
17632454 GAAGATACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17638586 original size:49 final size:51
Alignment explanation
Indices: 17638461--17638688 Score: 174
Period size: 49 Copynumber: 4.6 Consensus size: 51
17638451 CTTAGGATCG
* * * * * *
17638461 AAACCATCATTTTCAGGCT-ATCTAGGATGGTAAGATATG-CAAATAGTAA
1 AAACCATCATTGTCTGGGTCATCTGGGATGGTAAAATATGACAAATAGTGA
* ** * * *
17638510 AAACCATCGTT-TCTAAGTCACCCGGGATGGTAAAATGTGA-AAATAGTGA
1 AAACCATCATTGTCTGGGTCATCTGGGATGGTAAAATATGACAAATAGTGA
* *
17638559 AAACCATCATTGT-TGGGTCATCTGGGATGGTAGAATATCGATATAAT-G-GA
1 AAACCATCATTGTCTGGGTCATCTGGGATGGTAAAATAT-GACA-AATAGTGA
* * * *
17638609 AAA-CATCATTGTC-GGGTCCT-TCGAGATGGTAGAATAT-ACAGATAGTGA
1 AAACCATCATTGTCTGGGTCATCT-GGGATGGTAAAATATGACAAATAGTGA
*
17638657 AAGCCATCATTGTCT-GGTCATCTGGGATGGTA
1 AAACCATCATTGTCTGGGTCATCTGGGATGGTA
17638689 GAATTCAAAA
Statistics
Matches: 141, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 8 0.06
49 114 0.81
50 9 0.06
51 2 0.01
52 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
AAACCATCATTGTCTGGGTCATCTGGGATGGTAAAATATGACAAATAGTGA
Found at i:17639327 original size:26 final size:26
Alignment explanation
Indices: 17639298--17639362 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
17639288 GGTTATAATG
* *
17639298 TTGAATTGGTTGATTTGGTACACAAA
1 TTGATTTGGATGATTTGGTACACAAA
*
17639324 TTGATTTGGATGATTTGGTATACAAA
1 TTGATTTGGATGATTTGGTACACAAA
17639350 TTGATTTGGATGA
1 TTGATTTGGATGA
17639363 ATGTTTTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.42
Consensus pattern (26 bp):
TTGATTTGGATGATTTGGTACACAAA
Found at i:17639940 original size:45 final size:45
Alignment explanation
Indices: 17639881--17640019 Score: 224
Period size: 45 Copynumber: 3.1 Consensus size: 45
17639871 ACTGCTACTG
* * *
17639881 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
*
17639926 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTATTGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
* *
17639971 TTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
17640016 TTAC
1 TTAC
17640020 TGTTATTGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
Done.