Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 71 of 213
Found at i:19252285 original size:116 final size:116
Alignment explanation
Indices: 19252081--19252313 Score: 394
Period size: 116 Copynumber: 2.0 Consensus size: 116
19252071 TATGTCCGAC
* *
19252081 CAATAGAAAGAGGTCGAGTGATGGATGTGTCATAGGAGGAAGAAGAACTTGGTCAAGGCTAAAAA
1 CAATAGAAAGAGGTCGAGTGATGGATGTGTCATAAGAGGAAGAAGAACTCGGTCAAGGCTAAAAA
19252146 ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
66 ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
* * *
19252197 CAATAGAAAGAGGTCGAGTGATGGATGTGTCGTAAGAGGAGGAAGAACTCGGTCATGGCTAAAAA
1 CAATAGAAAGAGGTCGAGTGATGGATGTGTCATAAGAGGAAGAAGAACTCGGTCAAGGCTAAAAA
* * *
19252262 ATCATTAGAATATAGGTTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
66 ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
19252313 C
1 C
19252314 CGAGTGATAG
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (116 bp):
CAATAGAAAGAGGTCGAGTGATGGATGTGTCATAAGAGGAAGAAGAACTCGGTCAAGGCTAAAAA
ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
Found at i:19252852 original size:9 final size:9
Alignment explanation
Indices: 19252795--19252905 Score: 64
Period size: 9 Copynumber: 12.2 Consensus size: 9
19252785 CTGCAGTGAT
19252795 AATAATAAA
1 AATAATAAA
* *
19252804 TATAATACA
1 AATAATAAA
*
19252813 AAGAATAAA
1 AATAATAAA
* * *
19252822 GACAATAAC
1 AATAATAAA
* **
19252831 AATAGTAGT
1 AATAATAAA
19252840 AATAATAAA
1 AATAATAAA
*
19252849 AATAAAAATA
1 AATAATAA-A
*
19252859 ACATAATAAT
1 A-ATAATAAA
*
19252869 AATACT-AA
1 AATAATAAA
19252877 AATAA-AACA
1 AATAATAA-A
19252886 AATAATAAA
1 AATAATAAA
*
19252895 AATACTAAA
1 AATAATAAA
19252904 AA
1 AA
19252906 GGAAAGGGAG
Statistics
Matches: 74, Mismatches: 23, Indels: 10
0.69 0.21 0.09
Matches are distributed among these distances:
8 6 0.08
9 57 0.77
10 5 0.07
11 6 0.08
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (9 bp):
AATAATAAA
Found at i:19252869 original size:23 final size:24
Alignment explanation
Indices: 19252839--19252898 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
19252829 ACAATAGTAG
*
19252839 TAATAATAAAAATAAAA-ATAACA
1 TAATAATAAAAATAAAATAAAACA
* *
19252862 TAATAATAATACTAAAATAAAACA
1 TAATAATAAAAATAAAATAAAACA
19252886 -AATAATAAAAATA
1 TAATAATAAAAATA
19252899 CTAAAAAGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (24 bp):
TAATAATAAAAATAAAATAAAACA
Found at i:19252890 original size:26 final size:28
Alignment explanation
Indices: 19252839--19252904 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 28
19252829 ACAATAGTAG
*
19252839 TAATAATA--AAAATAAAAATAACATAA
1 TAATAATACTAAAATAAAAACAACATAA
19252865 TAATAATACTAAAAT-AAAACAA-ATAA
1 TAATAATACTAAAATAAAAACAACATAA
*
19252891 TAAAAATACTAAAA
1 TAATAATACTAAAA
19252905 AGGAAAGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 25 0.69
27 6 0.17
28 5 0.14
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (28 bp):
TAATAATACTAAAATAAAAACAACATAA
Found at i:19253320 original size:22 final size:22
Alignment explanation
Indices: 19253295--19253337 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19253285 TATCCAAACA
19253295 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
19253317 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
19253338 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:19256154 original size:40 final size:40
Alignment explanation
Indices: 19256099--19256233 Score: 162
Period size: 40 Copynumber: 3.4 Consensus size: 40
19256089 ACTATGTTTA
* *
19256099 GCACTTAGTGTGCGATTCGAGATAGTTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATG
* * *
19256139 GCACTTAGTGTGCGATTGGAAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATG
** * * *
19256179 GCACTTAGTGTGCGAGACTGAGATAACTTCGGCTATGTAAG
1 GCACTTAGTGTGCGATTC-GAGATAGCTTCGGCTATATATG
*
19256220 ACACTTAGTGTGCG
1 GCACTTAGTGTGCG
19256234 GGGTGATAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 50 0.62
41 30 0.38
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATG
Found at i:19256226 original size:41 final size:41
Alignment explanation
Indices: 19256099--19256273 Score: 142
Period size: 40 Copynumber: 4.3 Consensus size: 41
19256089 ACTATGTTTA
** * *
19256099 GCACTTAGTGTGCGATTC-GAGATAGTTTCGGCTATTTATG
1 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATATG
* * *
19256139 GCACTTAGTGTGC--GATTGGAAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGAGACT-GAGATAGCTTCGGCTATATATG
* * *
19256179 GCACTTAGTGTGCGAGACTGAGATAACTTCGGCTATGTAAG
1 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATATG
* ** * **
19256220 ACACTTAGTGTGCG-GGGTGATAATAGCTTCGGCTATGCGATG
1 GCACTTAGTGTGCGAGACTGA-GATAGCTTCGGCTAT-ATATG
*
19256262 GCATTTAGTGTG
1 GCACTTAGTGTG
19256274 TGAAACATTG
Statistics
Matches: 106, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
40 48 0.45
41 43 0.41
42 15 0.14
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATATG
Found at i:19258817 original size:20 final size:20
Alignment explanation
Indices: 19258792--19258829 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19258782 GACTGTACAA
*
19258792 ATTAAATTAAAAACAAAACT
1 ATTAAAATAAAAACAAAACT
*
19258812 ATTAAAATAAAAATAAAA
1 ATTAAAATAAAAACAAAA
19258830 ATAGCTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
ATTAAAATAAAAACAAAACT
Found at i:19261975 original size:17 final size:16
Alignment explanation
Indices: 19261953--19261992 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
19261943 TCTATTATTT
*
19261953 TATATACATATTGTACA
1 TATATACATATT-TAAA
19261970 TATATACATATTTAAA
1 TATATACATATTTAAA
19261986 TATATAC
1 TATATAC
19261993 GAATGCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (16 bp):
TATATACATATTTAAA
Found at i:19265199 original size:40 final size:39
Alignment explanation
Indices: 19265140--19265246 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 39
19265130 GTTTGGACAA
*
19265140 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTACAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT-CAG
*
19265180 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTCAG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTCAG
*
19265219 AAAAGCGCCGTTAAAAAT-GAGCATTAGC
1 AAAA-CGCCGCTAAAAATCGAGCATTAGC
19265247 AGCATTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.26
40 46 0.74
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTCAG
Found at i:19265500 original size:41 final size:41
Alignment explanation
Indices: 19265311--19265506 Score: 213
Period size: 41 Copynumber: 4.8 Consensus size: 41
19265301 TGACCTTTCG
* * ** *
19265311 AGGC-TTTAGCGGTGTTTTTTAAAAAGCATCGCTGATGCTC
1 AGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
19265351 A-GATCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 AGGCT-TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
19265392 A-GATCTTTAGCGGCGCTTTTTCAAAAA-CGCCGCTAATGCTC
1 AGGCT-TTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTC
* * *
19265433 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTT
1 AGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
19265474 AGGCTTTTAGCGGCGTTTTT-AGAAAAGCGCCGC
1 AGGCTTTTAGCGGCGTTTTTGA-AAAAGCGCCGC
19265507 AAAAATATTT
Statistics
Matches: 134, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 12 0.09
41 109 0.81
42 12 0.09
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
AGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:19265781 original size:14 final size:14
Alignment explanation
Indices: 19265764--19265800 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
19265754 GGGTTTAATA
* *
19265764 TATATTGTTTAGGG
1 TATATGGTTTAAGG
19265778 TATATGGTTTAAGG
1 TATATGGTTTAAGG
19265792 TATATGGTT
1 TATATGGTT
19265801 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAAGG
Found at i:19265912 original size:7 final size:7
Alignment explanation
Indices: 19265900--19265931 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
19265890 GGGTTGTGAT
19265900 TTAGGGG
1 TTAGGGG
19265907 TTAGGGG
1 TTAGGGG
19265914 TTAGGGG
1 TTAGGGG
19265921 TTAGGGG
1 TTAGGGG
19265928 TTAG
1 TTAG
19265932 AGATTAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:19265944 original size:21 final size:21
Alignment explanation
Indices: 19265900--19265945 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
19265890 GGGTTGTGAT
* * * *
19265900 TTAGGGGTTAGGGGTTAGGGG
1 TTAGGGGTTAGAGATTAAGAG
19265921 TTAGGGGTTAGAGATTAAGAG
1 TTAGGGGTTAGAGATTAAGAG
19265942 TTAG
1 TTAG
19265946 TGATTTAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (21 bp):
TTAGGGGTTAGAGATTAAGAG
Found at i:19266085 original size:74 final size:76
Alignment explanation
Indices: 19265974--19266116 Score: 245
Period size: 74 Copynumber: 1.9 Consensus size: 76
19265964 TTCGATGTTA
19265974 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTTTAA-TT-TATATTAAATAAGGTTTAGGGG
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGG
19266037 TTAGGAATTTG
66 TTAGGAATTTG
* * *
19266048 GGTTAGGGTTTAGGGTTTAGATTAATTTGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGG
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGG
19266113 TTAG
66 TTAG
19266117 TAGTTAGGGG
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 36 0.56
75 2 0.03
76 26 0.41
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (76 bp):
GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAGGAATTTG
Found at i:19266136 original size:14 final size:14
Alignment explanation
Indices: 19266106--19266151 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
19266096 TAAATAAGGT
*
19266106 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
19266120 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
19266134 TTAGAGGTTAAGAG
1 TTAGGGGTTAGGAG
19266148 TTAG
1 TTAG
19266152 TGATTTAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:19266150 original size:21 final size:21
Alignment explanation
Indices: 19266106--19266151 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19266096 TAAATAAGGT
* *
19266106 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAAGAG
19266127 TTAGGGGTTAG-AGGTTAAGAG
1 TTAGGGGTTAGTA-GTTAAGAG
19266148 TTAG
1 TTAG
19266152 TGATTTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAAGAG
Found at i:19271232 original size:15 final size:15
Alignment explanation
Indices: 19271212--19271242 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19271202 GAGTTGAAAG
19271212 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
19271227 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
19271242 T
1 T
19271243 CCATATCCCT
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:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:19271557 original size:43 final size:43
Alignment explanation
Indices: 19271485--19271803 Score: 325
Period size: 43 Copynumber: 7.3 Consensus size: 43
19271475 TAATAGTACT
**** *
19271485 TTTAGCGGCGTTTGTAATCAAAGCATCGCTAAAGGTCTTGAG-C
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTG-GTC
* * * *
19271528 TATAGCGGCGTTTGTGGGAAAAACGTCGCTATAGGTCTGGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
* * ** * *
19271571 TTTAGCGGCATTTATGAAAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
** *
19271614 TTTAGCGGCACTTGTGGGAAAATCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
* * * *
19271657 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTATATGTGTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
* * * *
19271700 TTTAGCGGCGTTTATGGGAAAAGTGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
* *
19271743 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGTTAGTGACGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAG---GT--CTTGGTC
19271791 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
19271804 TTTCCGGCGC
Statistics
Matches: 226, Mismatches: 44, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
42 1 0.00
43 204 0.90
46 2 0.01
48 19 0.08
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
Found at i:19271715 original size:129 final size:129
Alignment explanation
Indices: 19271504--19271803 Score: 395
Period size: 129 Copynumber: 2.3 Consensus size: 129
19271494 GTTTGTAATC
* * *
19271504 AAAGCATCGCTAAAGGTCTTGAG-CTATAGCGGCGTTTGTGGGAAAAACGTCGCTATAGGTCTGG
1 AAAGCGTCGCTAAAGGTCTTG-GTCTTTAGCGGCGTTTGTGGGAAAAACGTCACTATAGGTCTGG
19271568 GTCTTTAGCGGCATTTATGAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCACTTGTGGGA
65 GTCTTTAGCGGCATTTATGAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCACTTGTGGGA
* * * * *
19271633 AAATCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTCACTATATGTGTTGG
1 AAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAACGTCACTATAGGTCTGGG
* ** * **
19271698 TCTTTAGCGGCGTTTATGGGAAAAGTGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGA
66 TCTTTAGCGGCATTTATGAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCACTTGTGGGA
* *
19271762 AAAGCGCCGCTAAAGTTAGTGACGTGGTCTTTAGCGGCGTTT
1 AAAGCGTCGCTAAAG---GT--CTTGGTCTTTAGCGGCGTTT
19271804 TTTCCGGCGC
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
128 1 0.01
129 126 0.85
132 2 0.01
134 19 0.13
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (129 bp):
AAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAACGTCACTATAGGTCTGGG
TCTTTAGCGGCATTTATGAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCACTTGTGGGA
Found at i:19273487 original size:30 final size:29
Alignment explanation
Indices: 19273423--19273495 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
19273413 TAAAGGCGCA
*
19273423 TTTTTTT-TAAATTTTTAAAAAATTAGCT
1 TTTTTTTGTAAATTTTTAAAAAATGAGCT
* *
19273451 TATTTTTGTAAATCTTTTTAAAAATGA-CAT
1 TTTTTTTGTAAAT-TTTTAAAAAATGAGC-T
*
19273481 TTTTTTTGGAAATTT
1 TTTTTTTGTAAATTT
19273496 AGTTATTGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 6 0.16
29 8 0.22
30 23 0.62
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (29 bp):
TTTTTTTGTAAATTTTTAAAAAATGAGCT
Found at i:19279889 original size:107 final size:107
Alignment explanation
Indices: 19279700--19279917 Score: 382
Period size: 107 Copynumber: 2.0 Consensus size: 107
19279690 AATCTGGACG
*
19279700 TGAACAAACCATAGCATACATGAGAGATCCCATTGCACTAGAGTATGGAACATGTGACATGTACT
1 TGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGAGTATGGAACATGTGACATGTACT
* * *
19279765 CAATCTTATCATCTGATTGTGGAGACAAAGCCGATGAAAGTT
66 CAATCTCATCATCTGATTATGAAGACAAAGCCGATGAAAGTT
*
19279807 TGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGATTATGGAACATGTGACATGTACT
1 TGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGAGTATGGAACATGTGACATGTACT
*
19279872 CAATCTCATCATTTGATTATGAAGACAAAGCCGATGAAAGTT
66 CAATCTCATCATCTGATTATGAAGACAAAGCCGATGAAAGTT
19279914 TGAA
1 TGAA
19279918 ATGGGCTGTT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (107 bp):
TGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGAGTATGGAACATGTGACATGTACT
CAATCTCATCATCTGATTATGAAGACAAAGCCGATGAAAGTT
Found at i:19283803 original size:10 final size:9
Alignment explanation
Indices: 19283766--19283801 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
19283756 TTTCTTTTCT
*
19283766 TTTTATAAT
1 TTTTATAAA
*
19283775 TTTTATATA
1 TTTTATAAA
19283784 TTTTATAAA
1 TTTTATAAA
19283793 TTTTATAAA
1 TTTTATAAA
19283802 ATCTTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTATAAA
Found at i:19288918 original size:15 final size:15
Alignment explanation
Indices: 19288884--19288919 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19288874 ATGAGATTAA
*
19288884 AAAAATCAAAAAATT
1 AAAAATCAAAAAAAT
19288899 AAAAATCAAAAAAAT
1 AAAAATCAAAAAAAT
*
19288914 GAAAAT
1 AAAAAT
19288920 GATGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAATCAAAAAAAT
Found at i:19288946 original size:18 final size:17
Alignment explanation
Indices: 19288924--19288968 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
19288914 GAAAATGATG
19288924 GAAAAAT-AAAAGAAAA
1 GAAAAATGAAAAGAAAA
19288940 TGAAAAATGAAAAGAAAA
1 -GAAAAATGAAAAGAAAA
*
19288958 GAAAAAGGAAA
1 GAAAAATGAAA
19288969 GGCCAAGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (17 bp):
GAAAAATGAAAAGAAAA
Found at i:19291282 original size:45 final size:45
Alignment explanation
Indices: 19291232--19291506 Score: 361
Period size: 45 Copynumber: 6.1 Consensus size: 45
19291222 GGAGTAGGTT
* * *
19291232 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
19291277 AAAGATAACAGATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
19291322 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCACCGAAGTAGACC
1 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
19291367 GAAGATAAAAGATCTTCTCTTCCTGTATTGGCAGCAAAGTAGATT
1 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
19291412 GAAGATAACAGATCTTGTCTTCCTGTATTGGCGGCGAAGTAGATT
1 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * ** * *
19291457 AAAGATAGCAGATCTTACCTTCCTATATTGGCAGCGAAGCAGATC
1 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
19291502 GAAGA
1 GAAGA
19291507 CACTAGCCTT
Statistics
Matches: 198, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 198 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:19291535 original size:44 final size:44
Alignment explanation
Indices: 19291487--19291630 Score: 130
Period size: 44 Copynumber: 3.2 Consensus size: 44
19291477 TCCTATATTG
*
19291487 GCAGCGAAGCAGATCGAAGACACTAGCCTTACCTCCCTGAGTTT
1 GCAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGAGTTT
* * * * ** * * *
19291531 GCAGCGGAGCAGA-CTAAAGATAGTAGATATTGCCTTCCTGTA-CTG
1 GCAGCGAAGCAGATC-GAAGACACTAG-CCTTGCCTCCCTG-AGTTT
* *
19291576 GCAGCGAAGCAGATCGAAAACACTAGCCTTGCCTCCCTAAGTTT
1 GCAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGAGTTT
*
19291620 GCAGCGGAGCA
1 GCAGCGAAGCA
19291631 AACTAAAGAT
Statistics
Matches: 73, Mismatches: 22, Indels: 10
0.70 0.21 0.10
Matches are distributed among these distances:
43 2 0.03
44 40 0.55
45 29 0.40
46 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.20
Consensus pattern (44 bp):
GCAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGAGTTT
Found at i:19291578 original size:89 final size:89
Alignment explanation
Indices: 19291456--19291705 Score: 338
Period size: 89 Copynumber: 2.8 Consensus size: 89
19291446 CGAAGTAGAT
* * *
19291456 TAAAGATAGCAGATCTTACCTTCCTATATTGGCAGCGAAGCAGATCGAAGACACTAGCCTTACCT
1 TAAAGATAGAAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACTAGCCTTACCT
* *
19291521 CCCTGAGTTTGCAGCGGAGCAGAC
66 CCCTAAGTTTGCAGCGGAGCAAAC
* * * * *
19291545 TAAAGATAGTAGATATTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAAACACTAGCCTTGCCT
1 TAAAGATAGAAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACTAGCCTTACCT
19291610 CCCTAAGTTTGCAGCGGAGCAAAC
66 CCCTAAGTTTGCAGCGGAGCAAAC
* * * * * * **
19291634 TAAAGATAGAAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGTCACAAGCCTTGTCT
1 TAAAGATAGAAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACTAGCCTTACCT
19291699 CCCTAAG
66 CCCTAAG
19291706 CAGTAGTGGA
Statistics
Matches: 141, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 141 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (89 bp):
TAAAGATAGAAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACTAGCCTTACCT
CCCTAAGTTTGCAGCGGAGCAAAC
Found at i:19291941 original size:132 final size:132
Alignment explanation
Indices: 19291694--19292122 Score: 612
Period size: 132 Copynumber: 3.2 Consensus size: 132
19291684 TCACAAGCCT
* *
19291694 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAAA-CTTATCTTCCCAATGTAGTAGG
1 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-AAAATCTTATCTTCCCAAGGTAGTAGG
* *
19291758 GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGTAGAAGAATAGGTT-AACGATTGTAG
65 GAAGCAAATTTAAGCCACCAATCCTATCTCCTTGAGCAGTAGAAGAATAGGTTGAA-GATTGTAG
*
19291822 ATCT
129 ATCC
*
19291826 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAAAATCTTATCTTCTCAAGGTAGTAGGG
1 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAAAATCTTATCTTCCCAAGGTAGTAGGG
* * * * *
19291891 AAGCAAATTTAAGCCACCAGTCCTATCTCCTTGAGCAGCAGTAGAGTAGGTTGAAGATTATAGAT
66 AAGCAAATTTAAGCCACCAATCCTATCTCCTTGAGCAGTAGAAGAATAGGTTGAAGATTGTAGAT
19291956 CC
131 CC
* * *** * * *
19291958 TATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGGCAGCAAATCCTATTTTCCCAAGGTAGTAGGG
1 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAAAATCTTATCTTCCCAAGGTAGTAGGG
* * *
19292023 AAGCAAATTTAAGCCACCAATCCCT-TCTTCTTGAGCAGTAGCAGATTAGGTTGAAGATTGTAGA
66 AAGCAAATTTAAGCCACCAAT-CCTATCTCCTTGAGCAGTAGAAGAATAGGTTGAAGATTGTAGA
19292087 TCC
130 TCC
19292090 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
19292123 GCAGCTAATC
Statistics
Matches: 266, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 258 0.97
133 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAAAATCTTATCTTCCCAAGGTAGTAGGG
AAGCAAATTTAAGCCACCAATCCTATCTCCTTGAGCAGTAGAAGAATAGGTTGAAGATTGTAGAT
CC
Found at i:19292465 original size:89 final size:89
Alignment explanation
Indices: 19292275--19292465 Score: 201
Period size: 89 Copynumber: 2.1 Consensus size: 89
19292265 TGAAGATATC
* * * * **
19292275 AATCTTATCTCCTTGAAGTTGTAGTGAGGCAGATTGAAGTTACAAGTCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGAGGCAGATTAAAGCCACAAGTCCTATCTCCCTGAAGTTG
*
19292340 CAGTAGAGTAGACTGAGGATGGCG
66 CAGTAGAGTAGACTGAGGATAGCG
**
19292364 AATCTTGCCTCCCTAAAGTTGCAGTG-GAGCAGATTAAAGCCA-ATAGTCCTA-CTTCCCTGAAG
1 AATCTTATCTCCCTAAAGTTGCAGTGAG-GCAGATTAAAGCCACA-AGTCCTATC-TCCCTGAAG
* ** *
19292426 TTGCAGTGGAGTAGGTTGAAGGA-AGTG
63 TTGCAGTAGAGTAGACTG-AGGATAGCG
19292453 AATCTTATCTCCC
1 AATCTTATCTCCC
19292466 CGAAGCTAGA
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
88 3 0.04
89 76 0.92
90 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTAAAGTTGCAGTGAGGCAGATTAAAGCCACAAGTCCTATCTCCCTGAAGTTG
CAGTAGAGTAGACTGAGGATAGCG
Found at i:19293643 original size:3 final size:3
Alignment explanation
Indices: 19293635--19293712 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
19293625 GTCCTGTTTG
* *
19293635 TTA TTA TTA TTA TTA TTA TTA TTA CCCTA TTG TTA TTA TT- TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TT-A TTA
* * * *
19293682 TAA TATA TT- TTA CTA TTA TTC TTA GTA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T
19293713 AGATTACTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
2 4 0.07
3 47 0.82
4 4 0.07
5 2 0.04
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:19295516 original size:22 final size:22
Alignment explanation
Indices: 19295474--19295514 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19295464 TGCCATTAGG
19295474 GTTCAAATGGAAAAAGGAAATT
1 GTTCAAATGGAAAAAGGAAATT
*
19295496 GTTC-AATTGAAAAAGGAAA
1 GTTCAAATGGAAAAAGGAAA
19295515 ATGAGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (22 bp):
GTTCAAATGGAAAAAGGAAATT
Found at i:19297039 original size:18 final size:18
Alignment explanation
Indices: 19297016--19297052 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19297006 ATAACTCGGA
19297016 CTCAACAATTGGCTTGGG
1 CTCAACAATTGGCTTGGG
19297034 CTCAACAATTGGCTTGGG
1 CTCAACAATTGGCTTGGG
19297052 C
1 C
19297053 AAAGGGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (18 bp):
CTCAACAATTGGCTTGGG
Found at i:19298903 original size:14 final size:15
Alignment explanation
Indices: 19298881--19298927 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
19298871 TAAATTTAAA
19298881 TTTAAA-TTTAATTT
1 TTTAAAGTTTAATTT
* * *
19298895 TTTATATTTTTATTT
1 TTTAAAGTTTAATTT
*
19298910 TTAAAAGTTTAATTT
1 TTTAAAGTTTAATTT
19298925 TTT
1 TTT
19298928 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTAAAGTTTAATTT
Found at i:19300190 original size:32 final size:31
Alignment explanation
Indices: 19300124--19300190 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
19300114 TGTATAAAAT
*
19300124 ATTTCAAAAAATTAAATATAAAAATAAATAA
1 ATTTCAAAAAATTAAATATAAAAAGAAATAA
* *
19300155 ATTTTAAATAAATT-AATATAAAACAGAAATCA
1 ATTTCAAA-AAATTAAATATAAAA-AGAAATAA
19300187 ATTT
1 ATTT
19300191 AATTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (31 bp):
ATTTCAAAAAATTAAATATAAAAAGAAATAA
Found at i:19304249 original size:21 final size:21
Alignment explanation
Indices: 19304209--19304249 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19304199 TTTAACCTAA
* *
19304209 AATATGAATTGGATTGAATTG
1 AATATGAACTGGATTAAATTG
*
19304230 AATATGAACTGTATTAAATT
1 AATATGAACTGGATTAAATT
19304250 AATTTAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.39
Consensus pattern (21 bp):
AATATGAACTGGATTAAATTG
Found at i:19304639 original size:24 final size:25
Alignment explanation
Indices: 19304592--19304639 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19304582 TTAGCCCCCT
* *
19304592 CGAGCTTCCCGTTATATAGTTCTTG
1 CGAGCTTCCCGCTATATAGCTCTTG
*
19304617 CGAGCTTCTCGCTA-ATAGCTCTT
1 CGAGCTTCCCGCTATATAGCTCTT
19304640 CGAAGCATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGCTATATAGCTCTTG
Found at i:19307311 original size:9 final size:9
Alignment explanation
Indices: 19307297--19307324 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
19307287 ACAGACGGTT
19307297 TCAAAGAAA
1 TCAAAGAAA
19307306 TCAAAGAAA
1 TCAAAGAAA
19307315 TCAAAGAAA
1 TCAAAGAAA
19307324 T
1 T
19307325 ATCATAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (9 bp):
TCAAAGAAA
Found at i:19325406 original size:18 final size:18
Alignment explanation
Indices: 19325385--19325441 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
19325375 TAATACAGAA
19325385 CACCAAATTAACATAGTT
1 CACCAAATTAACATAGTT
* * *
19325403 CACCATAA-TCATATAATT
1 CACCA-AATTAACATAGTT
* *
19325421 CACCAAGTTAACATGGTT
1 CACCAAATTAACATAGTT
19325439 CAC
1 CAC
19325442 AATATAACAC
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
17 1 0.03
18 26 0.90
19 2 0.07
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (18 bp):
CACCAAATTAACATAGTT
Found at i:19325761 original size:65 final size:63
Alignment explanation
Indices: 19325669--19325814 Score: 156
Period size: 65 Copynumber: 2.3 Consensus size: 63
19325659 AAACTCATAT
* * *
19325669 ACATATATATTATATA-AAATAAGACCCAT-ATATGCATATATA-TTATATATAATCAAAACTCA
1 ACATATATATTATATATAAACAAGACCCATCATAT--ATATATACATATATATAA-CAAAACCCA
19325731 C
63 C
*
19325732 ACATATATATTATATATACAACATA-ACCCATGCATATATTTATACATATATATAACAAAACCCA
1 ACATATATATTATATATA-AACA-AGACCCAT-CATATATATATACATATATATAACAAAACCCA
19325796 C
63 C
* *
19325797 GCATATATATTGTATATA
1 ACATATATATTATATATA
19325815 TATGCATACC
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
63 16 0.23
64 1 0.01
65 40 0.56
66 10 0.14
67 4 0.06
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (63 bp):
ACATATATATTATATATAAACAAGACCCATCATATATATATACATATATATAACAAAACCCAC
Found at i:19325775 original size:30 final size:30
Alignment explanation
Indices: 19325700--19325814 Score: 113
Period size: 34 Copynumber: 3.7 Consensus size: 30
19325690 AGACCCATAT
* *
19325700 ATGCATATATATTATATATAATCAAAACTC
1 ATGCATATATATTATATATAAACAAAACCC
** *
19325730 ACACATATATATTATATATACAACATAACCC
1 ATGCATATATATTATATATA-AACAAAACCC
*
19325761 ATGCATATATTTATACATATATATAACAAAACCC
1 ATGCATATA--TAT-TATATATA-AACAAAACCC
* *
19325795 ACGCATATATATTGTATATA
1 ATGCATATATATTATATATA
19325815 TATGCATACC
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
30 18 0.26
31 20 0.29
32 3 0.04
33 3 0.04
34 24 0.35
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (30 bp):
ATGCATATATATTATATATAAACAAAACCC
Found at i:19332406 original size:16 final size:16
Alignment explanation
Indices: 19332385--19332419 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
19332375 TCTCTCTTCA
19332385 TCTTCTTCCTCTCAAT
1 TCTTCTTCCTCTCAAT
19332401 TCTTCTTCCTCTCAAT
1 TCTTCTTCCTCTCAAT
19332417 TCT
1 TCT
19332420 CTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.51
Consensus pattern (16 bp):
TCTTCTTCCTCTCAAT
Found at i:19348751 original size:26 final size:26
Alignment explanation
Indices: 19348691--19348743 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
19348681 AAAAACTTCA
*
19348691 AAAATTAAAAAAATATATTTAAAATT
1 AAAATTAATAAAATATATTTAAAATT
*
19348717 AAAATTAATAAAATATATTTAACATT
1 AAAATTAATAAAATATATTTAAAATT
19348743 A
1 A
19348744 TTAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAATTAATAAAATATATTTAAAATT
Found at i:19349518 original size:20 final size:21
Alignment explanation
Indices: 19349478--19349524 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
19349468 TTTGTAATAT
*
19349478 TTTTATTAATTTTTTAAATAAA
1 TTTTATTAA-TTTTAAAATAAA
*
19349500 TTTTATTAA-TTTAAAATAAT
1 TTTTATTAATTTTAAAATAAA
19349520 TTTTA
1 TTTTA
19349525 AATTTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
22 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATTAATTTTAAAATAAA
Found at i:19350176 original size:30 final size:29
Alignment explanation
Indices: 19350142--19350199 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
19350132 AAGTAGAAGA
*
19350142 AGTTGTGTTT-GGGATTTGAGAAAAAATTAG
1 AGTTGTGTTTAAGG-TTTGA-AAAAAATTAG
19350172 AGTTGTGTTTAAGGTTTGAAAAAAATTA
1 AGTTGTGTTTAAGGTTTGAAAAAAATTA
19350200 ATCTAGAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 15 0.58
31 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (29 bp):
AGTTGTGTTTAAGGTTTGAAAAAAATTAG
Found at i:19350542 original size:49 final size:49
Alignment explanation
Indices: 19350475--19350603 Score: 213
Period size: 49 Copynumber: 2.6 Consensus size: 49
19350465 GAAAGAATAT
* *
19350475 TTTATTTTTTTATGTAATTTATTTGTCCTATGTGTTTTAGGTTTATTAGA
1 TTTA-TTTTTTATGTAATTTATTTGTCATATGTATTTTAGGTTTATTAGA
*
19350525 TTTATTTTTTATATAATTTATTTGTCATATGTATTTTAGGTTTATTAGA
1 TTTATTTTTTATGTAATTTATTTGTCATATGTATTTTAGGTTTATTAGA
*
19350574 TTTATTTTTTATGTAATTTATTTGGCATAT
1 TTTATTTTTTATGTAATTTATTTGTCATAT
19350604 TTTTATTATT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 70 0.95
50 4 0.05
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (49 bp):
TTTATTTTTTATGTAATTTATTTGTCATATGTATTTTAGGTTTATTAGA
Found at i:19350543 original size:16 final size:16
Alignment explanation
Indices: 19350524--19350596 Score: 51
Period size: 16 Copynumber: 4.5 Consensus size: 16
19350514 GGTTTATTAG
19350524 ATTTATTTTTTATATA
1 ATTTATTTTTTATATA
* * *
19350540 ATTTATTTGTCATATGT
1 ATTTATTTTTTATAT-A
**
19350557 ATTT-TAGGTTTAT-TA
1 ATTTAT-TTTTTATATA
*
19350572 GATTTATTTTTTATGTA
1 -ATTTATTTTTTATATA
19350589 ATTTATTT
1 ATTTATTT
19350597 GGCATATTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
16 32 0.76
17 10 0.24
ACGTcount: A:0.26, C:0.01, G:0.08, T:0.64
Consensus pattern (16 bp):
ATTTATTTTTTATATA
Found at i:19350690 original size:27 final size:27
Alignment explanation
Indices: 19350658--19350729 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
19350648 AAAAAATGAG
* *
19350658 ACCATTGAGATGGAATTTGTGAATGGA
1 ACCATTGAGTTGGAATTTGTGAATAGA
19350685 ACCATTGAGTTGGAATTTGTGAATAGA
1 ACCATTGAGTTGGAATTTGTGAATAGA
19350712 ACCATTGAGTTGGAATTT
1 ACCATTGAGTTGGAATTT
19350730 ATGAGATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.33
Consensus pattern (27 bp):
ACCATTGAGTTGGAATTTGTGAATAGA
Found at i:19352210 original size:14 final size:14
Alignment explanation
Indices: 19352191--19352218 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19352181 TTTTTCCAAT
19352191 GATACTATTCTAAC
1 GATACTATTCTAAC
19352205 GATACTATTCTAAC
1 GATACTATTCTAAC
19352219 ATGTAATTTG
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:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:19352860 original size:18 final size:18
Alignment explanation
Indices: 19352839--19352882 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19352829 ATACGAGCTA
* *
19352839 GAGCCTGAGCTAGAGCCC
1 GAGCCTGAGCCAGAGACC
*
19352857 GAGCCCGAGCCAGAGACC
1 GAGCCTGAGCCAGAGACC
*
19352875 GACCCTGA
1 GAGCCTGA
19352883 AATCGAGCCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.32, T:0.07
Consensus pattern (18 bp):
GAGCCTGAGCCAGAGACC
Found at i:19359967 original size:14 final size:15
Alignment explanation
Indices: 19359940--19359968 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19359930 ACAGTTAGAG
19359940 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
19359955 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
19359969 AAATGGAAAC
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:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:19369291 original size:169 final size:169
Alignment explanation
Indices: 19369012--19369350 Score: 570
Period size: 169 Copynumber: 2.0 Consensus size: 169
19369002 GGACCCCACC
* *
19369012 AGGTGGAGTCATTAGGGGGATCGCGAGCCCAGTTCACACATCCTTGGATGTCCACGAGCATAGGA
1 AGGTGGAGTAATTAGGGGGATCGCGAGCCCAGTTCACACATCCCTGGATGTCCACGAGCATAGGA
19369077 TACAAGGTCAAACGAATAAACCGATGAGCACCTGGACCAGTGAACACGTGTTGAGTTTAGGGTAA
66 TACAAGGTCAAACGAATAAACCGATGAGCACCTGGACCAGTGAACACGTGTTGAGTTTAGGGTAA
* *
19369142 CATACGTGTTGACATGCATGGAGCCTACCTAGAACGTCA
131 CATACATGTCGACATGCATGGAGCCTACCTAGAACGTCA
* * *
19369181 AGGTGGAGTAATTAGGGGGCTCGCGAGCCCAGTTCGCACATCCCTGGATGTCCACGAGCATAGGG
1 AGGTGGAGTAATTAGGGGGATCGCGAGCCCAGTTCACACATCCCTGGATGTCCACGAGCATAGGA
* * * * *
19369246 TACGAGGTCAAACGAATGAACTGATGAGCACCTGGACTAGTGAACATGTGTTGAGTTTAGGGTAA
66 TACAAGGTCAAACGAATAAACCGATGAGCACCTGGACCAGTGAACACGTGTTGAGTTTAGGGTAA
19369311 CATACATGTCGACATGCATGGAGCCTACCTAGAACGTCA
131 CATACATGTCGACATGCATGGAGCCTACCTAGAACGTCA
19369350 A
1 A
19369351 TTCCATGAAC
Statistics
Matches: 158, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
169 158 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (169 bp):
AGGTGGAGTAATTAGGGGGATCGCGAGCCCAGTTCACACATCCCTGGATGTCCACGAGCATAGGA
TACAAGGTCAAACGAATAAACCGATGAGCACCTGGACCAGTGAACACGTGTTGAGTTTAGGGTAA
CATACATGTCGACATGCATGGAGCCTACCTAGAACGTCA
Found at i:19375198 original size:16 final size:16
Alignment explanation
Indices: 19375161--19375202 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19375151 TTAATCATAT
*
19375161 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
19375177 TT-AAATATATTATAA
1 TTAAAATATATTATAA
19375192 TTAAAATATAT
1 TTAAAATATAT
19375203 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:19375209 original size:14 final size:15
Alignment explanation
Indices: 19375170--19375211 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19375160 TTTAAACATA
*
19375170 ATTATTATTAAATAT
1 ATTATAATTAAATAT
19375185 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
19375199 A-TATAATTTAATA
1 ATTATAATTAAATA
19375212 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:19375328 original size:14 final size:15
Alignment explanation
Indices: 19375276--19375330 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
19375266 TACTATAAAA
19375276 TATAATTAACATA-AT
1 TATAATTAA-ATATAT
*
19375291 TATTATTAAATATAT
1 TATAATTAAATATAT
19375306 TATAATTAAA-ATA-
1 TATAATTAAATATAT
*
19375319 TATAATTTAATA
1 TATAATTAAATA
19375331 AAATTCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 9 0.26
14 7 0.20
15 19 0.54
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATTAAATATAT
Found at i:19375427 original size:15 final size:15
Alignment explanation
Indices: 19375399--19375463 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
19375389 ATAAAATATA
19375399 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
19375414 TATTAAATATATTAT
1 AATTAAATATATTAT
19375429 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
19375442 AATTTAATAATATTAAT
1 AATTAAAT-ATATT-AT
19375459 AATTA
1 AATTA
19375464 TTAATACTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 9 0.22
14 6 0.15
15 19 0.46
16 1 0.02
17 6 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:19375492 original size:120 final size:120
Alignment explanation
Indices: 19375164--19375575 Score: 684
Period size: 120 Copynumber: 3.4 Consensus size: 120
19375154 ATCATATTTA
19375164 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
19375229 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAT-AATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
19375283 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
19375348 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* ** * *
19375403 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAATATTAATAATTATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * * *
19375468 TACTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * *
19375523 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
19375576 TAAAATAATT
Statistics
Matches: 277, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
119 115 0.42
120 160 0.58
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:19375646 original size:27 final size:28
Alignment explanation
Indices: 19375616--19375677 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
19375606 TATGAATTTG
*
19375616 TATAATTTAAAAATAAT-TATTATTACA
1 TATAATTTAAAAATAATATATAATTACA
* *
19375643 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAAAAATAATATATAATTACA
*
19375671 TAAAATT
1 TATAATT
19375678 CTTGATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TATAATTTAAAAATAATATATAATTACA
Found at i:19375753 original size:91 final size:92
Alignment explanation
Indices: 19375591--19375799 Score: 314
Period size: 91 Copynumber: 2.3 Consensus size: 92
19375581 TAATTATAAC
* * * *
19375591 TAAT-AATTTATCTTATATGAATTTGTATAATTTAAAAATAATTATTATTACATATAATTTAATA
1 TAATAAATTT-TCTTATATGAATTTATACAATTTAAAAATAATTAATATTAAATATAATTTAATA
*
19375655 ATAATATATAATTTCATAAAATTCTTGA
65 ATAATATATAATTTCATAAAATTCTTAA
*
19375683 TAATAAATTTTCTTATATTAATTTATACAATTT-AAAATAATTAATATTAAATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAAATAATTAATATTAAATATAATTTAATAA
*
19375747 TGATATATAATTTCATAAAATTCTTAA
66 TAATATATAATTTCATAAAATTCTTAA
*
19375774 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
19375800 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
91 58 0.55
92 43 0.41
93 5 0.05
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (92 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAAATAATTAATATTAAATATAATTTAATAA
TAATATATAATTTCATAAAATTCTTAA
Found at i:19379130 original size:6 final size:6
Alignment explanation
Indices: 19379119--19379144 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19379109 TAGTTTGAAC
19379119 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
19379145 ATAGTTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:19379617 original size:47 final size:49
Alignment explanation
Indices: 19379566--19379664 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 49
19379556 TATATATTAG
** *
19379566 TATCAATTTGTATGTACTCTTTATAT-TACTCTTTCACT-ATAATTATA
1 TATCAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAATTATA
* * *
19379613 TATCAATTTGTATCAATTTTTTTTATGTACGCTTTCACTAATAATTATA
1 TATCAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAATTATA
19379662 TAT
1 TAT
19379665 AGTAAAGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
47 21 0.48
48 11 0.25
49 12 0.27
ACGTcount: A:0.30, C:0.13, G:0.05, T:0.52
Consensus pattern (49 bp):
TATCAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAATTATA
Found at i:19380083 original size:3 final size:3
Alignment explanation
Indices: 19380075--19380103 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19380065 TAATTAGTGG
19380075 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19380104 GCTTTCCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19389082 original size:49 final size:49
Alignment explanation
Indices: 19388959--19389108 Score: 273
Period size: 49 Copynumber: 3.0 Consensus size: 49
19388949 AAATTAAAAG
19388959 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 ATTATACATACACCAACAATG-TTTTTAGGGTAAATAACATTAAACCAAC
*
19389009 AATTATACATACACCAACAATGTTTTTAAGGTAAATAACATTAAACCAAC
1 -ATTATACATACACCAACAATGTTTTTAGGGTAAATAACATTAAACCAAC
19389059 ATTATACATACACCAACAATGTTTTTAGGGTAAATAACATTAAACCAAC
1 ATTATACATACACCAACAATGTTTTTAGGGTAAATAACATTAAACCAAC
19389108 A
1 A
19389109 AGTAATTTTA
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
49 49 0.51
50 27 0.28
51 21 0.22
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (49 bp):
ATTATACATACACCAACAATGTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:19389139 original size:33 final size:33
Alignment explanation
Indices: 19389059--19389165 Score: 132
Period size: 33 Copynumber: 3.3 Consensus size: 33
19389049 TTAAACCAAC
19389059 ATTATACATACACCAACAATGT--TTTTAGGGT-A
1 ATTATACATACACCAACAA-GTAATTTTA-GGTCA
* *
19389091 AATA-ACATTAAACCAACAAGTAATTTTAGGTCA
1 ATTATACA-TACACCAACAAGTAATTTTAGGTCA
*
19389124 ATTATACATACACCAACAATTAATTTTAGGTCA
1 ATTATACATACACCAACAAGTAATTTTAGGTCA
19389157 ATTATACAT
1 ATTATACAT
19389166 GCTTTATAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
31 5 0.08
32 16 0.25
33 41 0.63
34 3 0.05
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (33 bp):
ATTATACATACACCAACAAGTAATTTTAGGTCA
Found at i:19392392 original size:16 final size:16
Alignment explanation
Indices: 19392358--19392399 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
19392348 ATTATTAAGA
19392358 ATTTTATTAAATTATAT
1 ATTTTATTAAA-TATAT
19392375 ATTTTAATTAAA-ATAT
1 ATTTT-ATTAAATATAT
19392391 A-TTTATTAA
1 ATTTTATTAA
19392400 TATTTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 3 0.12
16 5 0.21
17 5 0.21
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAATATAT
Found at i:19392400 original size:18 final size:18
Alignment explanation
Indices: 19392358--19392392 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19392348 ATTATTAAGA
*
19392358 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
19392375 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
19392393 TTATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:19392506 original size:18 final size:17
Alignment explanation
Indices: 19392478--19392512 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19392468 ATTATTAAGA
*
19392478 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19392495 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19392513 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19392512 original size:16 final size:16
Alignment explanation
Indices: 19392478--19392532 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
19392468 ATTATTAAGA
19392478 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
19392495 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
19392511 A-TTTAA-TAAAAAAT
1 ATTTTAATTAAAATAT
19392525 ATGTTTAA
1 AT-TTTAA
19392533 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:19392528 original size:120 final size:119
Alignment explanation
Indices: 19392305--19392529 Score: 387
Period size: 120 Copynumber: 1.9 Consensus size: 119
19392295 TATTAATTAT
19392305 AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
1 AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
* * **
19392370 TATATATTTTAATTAAAATATATTTATTAATATTTATGTTAATTTATATTTTAC
66 TATATATTTTAATTAAAATATATTTAATAAAAAATATGTTAATTTATATTTTAC
* *
19392424 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAATAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAA
19392489 TTATATATTTTAATTAAAATATATTTAATAAAAAATATGTT
65 TTATATATTTTAATTAAAATATATTTAATAAAAAATATGTT
19392530 TAAATATGAT
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 28 0.28
120 71 0.72
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (119 bp):
AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
TATATATTTTAATTAAAATATATTTAATAAAAAATATGTTAATTTATATTTTAC
Found at i:19392656 original size:156 final size:156
Alignment explanation
Indices: 19392466--19392937 Score: 890
Period size: 156 Copynumber: 3.0 Consensus size: 156
19392456 ATAAGAATAT
*
19392466 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAAATATGTTT
1 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
19392531 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
65 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
19392596 TAATCATTTACAAAAACAAATTTATGC
130 TAATCATTTACAAAAACAAATTTATGC
19392623 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTA
1 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTA
19392688 AATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
19392753 AATCATTTACAAAAACAAATTTATGC
131 AATCATTTACAAAAACAAATTTATGC
*
19392779 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTA
*
19392844 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
* *
19392909 AATCATTTACCAAAACAATTTTATGC
131 AATCATTTACAAAAACAAATTTATGC
19392935 TAA
1 TAA
19392938 GGGTATTCTA
Statistics
Matches: 310, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
156 304 0.98
157 6 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (156 bp):
TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTA
AATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATCATTTACAAAAACAAATTTATGC
Found at i:19392662 original size:18 final size:17
Alignment explanation
Indices: 19392634--19392668 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19392624 AATTATAAGA
*
19392634 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19392651 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19392669 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19392668 original size:16 final size:16
Alignment explanation
Indices: 19392634--19392688 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
19392624 AATTATAAGA
19392634 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
19392651 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
19392667 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
19392681 ATGTTTAA
1 AT-TTTAA
19392689 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:19392818 original size:18 final size:17
Alignment explanation
Indices: 19392790--19392824 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19392780 AATTATAAGA
*
19392790 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19392807 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19392825 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19393054 original size:44 final size:45
Alignment explanation
Indices: 19392989--19393079 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
19392979 ACCTCTATTC
* * *
19392989 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
19393033 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
19393078 CA
1 CA
19393080 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:19393081 original size:16 final size:16
Alignment explanation
Indices: 19393060--19393095 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19393050 GATTAGCTAT
19393060 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19393076 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19393092 TACA
1 TACA
19393096 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19399063 original size:17 final size:17
Alignment explanation
Indices: 19399029--19399060 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19399019 ATTAATCAAA
19399029 TTAATTAAATTAATTTC
1 TTAATTAAATTAATTTC
19399046 TTAATTAAA-TAATTT
1 TTAATTAAATTAATTT
19399061 TCTCAACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATTAAATTAATTTC
Found at i:19405359 original size:37 final size:37
Alignment explanation
Indices: 19405313--19405388 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 37
19405303 AATAATAATG
*
19405313 TAATCATA-TTTTAATATAAGTATTATTAAATATAAAT
1 TAATAATATTTTTAATATAAGTATTATTAAAT-TAAAT
* * *
19405350 TAATAATATTTTTAATATAATTATTTTTATATTAAAT
1 TAATAATATTTTTAATATAAGTATTATTAAATTAAAT
19405387 TA
1 TA
19405389 TATTAAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (37 bp):
TAATAATATTTTTAATATAAGTATTATTAAATTAAAT
Found at i:19405419 original size:34 final size:31
Alignment explanation
Indices: 19405374--19405482 Score: 112
Period size: 34 Copynumber: 3.3 Consensus size: 31
19405364 ATATAATTAT
*
19405374 TTTTATATTAAATTATATTAAAATGTTTAAAATA
1 TTTTATTTTAAATTATATTAAAA--TTT-AAATA
*
19405408 TTTTATTTTAAATTATATTTTGAAA-TTAAATA
1 TTTTATTTTAAATTATA--TTAAAATTTAAATA
*
19405440 TTTTATTTTAAATCATATTAAAACATTTTAAATA
1 TTTTATTTTAAATTATATT-AAA-A-TTTAAATA
19405474 TTTTATTTT
1 TTTTATTTT
19405483 TATATTTTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
30 2 0.03
31 2 0.03
32 22 0.34
33 2 0.03
34 32 0.49
36 5 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (31 bp):
TTTTATTTTAAATTATATTAAAATTTAAATA
Found at i:19408221 original size:16 final size:16
Alignment explanation
Indices: 19408200--19408233 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19408190 ATGTGAAAAT
* *
19408200 AATGAGTTTTAATTGA
1 AATGAGATTTAATAGA
19408216 AATGAGATTTAATAGA
1 AATGAGATTTAATAGA
19408232 AA
1 AA
19408234 AAGGGAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (16 bp):
AATGAGATTTAATAGA
Found at i:19412677 original size:43 final size:43
Alignment explanation
Indices: 19412629--19412936 Score: 323
Period size: 43 Copynumber: 7.2 Consensus size: 43
19412619 GCAAAGTTAT
* * * * *
19412629 TGACTTTTAGCGACGCTTTTCCTATAAACGCCGCTATATAACA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
* * *
19412672 TGACTTTTAGCGGCACTTTT-TCACAAACGCCGCTATAGAACA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
* * * * *
19412714 AGACATTTAGTGGCGTTTTTCCCACAAACGCCGCTATAAAACA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
* * * * * *
19412757 AGACCTTTAGCGGCACTTTTTCCGCAAGCGCCGCTACAGAACA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
* * * *
19412800 TGACCTTTAGCAGCGCTTTTCTCACAAATGCCGCTAAAGAACA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
* * * * *
19412843 AGACCTTTACCGGCGC-TTTCCCAAAAACGCCGCTACAGACCA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
* * *
19412885 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAATA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
19412928 TGACCTTTA
1 TGACCTTTA
19412937 AAAAATATTT
Statistics
Matches: 217, Mismatches: 46, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
42 68 0.31
43 149 0.69
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACA
Found at i:19412863 original size:128 final size:128
Alignment explanation
Indices: 19412634--19412936 Score: 347
Period size: 128 Copynumber: 2.4 Consensus size: 128
19412624 GTTATTGACT
* * * * * * * *
19412634 TTTAGCGACGCTTTTCCTATAAACGCCGCTATATAACATGACTTTTAGCGGCACTTTTTCACAAA
1 TTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTTCACAAA
* ** * * *
19412699 CGCCGCTATAGAACAAGACATTTAGTGGCGTTTTTCCCACAAACGCCGCTATAAAACAAGACC
66 CGCCGCTAAAGAACAAGACATTTACCGGCGTCTTTCCCAAAAACGCCGCTACAAAACAAGACC
* * * * *
19412762 TTTAGCGGCACTTTTTCCGCAAGCGCCGCTACAGAACATGACCTTTAGCAGCGCTTTTCTCACAA
1 TTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTT-TCACAA
* * * * *
19412827 ATGCCGCTAAAGAACAAGACCTTTACCGGCG-CTTTCCCAAAAACGCCGCTACAGACCATGACC
65 ACGCCGCTAAAGAACAAGACATTTACCGGCGTCTTTCCCAAAAACGCCGCTACAAAACAAGACC
* * *
19412890 TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAATATGACCTTTA
1 TTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
19412937 AAAAATATTT
Statistics
Matches: 144, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
128 112 0.78
129 32 0.22
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (128 bp):
TTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTTCACAAA
CGCCGCTAAAGAACAAGACATTTACCGGCGTCTTTCCCAAAAACGCCGCTACAAAACAAGACC
Found at i:19412922 original size:85 final size:85
Alignment explanation
Indices: 19412629--19412936 Score: 348
Period size: 85 Copynumber: 3.6 Consensus size: 85
19412619 GCAAAGTTAT
* * * * * * * * *
19412629 TGACTTTTAGCGACGCTTTTCCTATAAACGCCGCTATATAACATGACTTTTAGCGGCACTTTTTC
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCC
*
19412694 ACAAACGCCGCTATAGAACA
66 ACAAACGCCGCTACAGAACA
* * * *
19412714 AGACATTTAGTGGCGTTTTTCCCACAAACGCCGCTATAA-AACAAGACCTTTAGCGGCACTTTTT
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA-AAGAACAAGACCTTTAGCGGCAC-TTTT
* *
19412778 CCGCAAGCGCCGCTACAGAACA
64 CCACAAACGCCGCTACAGAACA
* * * * * *
19412800 TGACCTTTAGCAGCGCTTTTCTCACAAATGCCGCTAAAGAACAAGACCTTTACCGGCGCTTTCCC
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCC
* *
19412865 AAAAACGCCGCTACAGACCA
66 ACAAACGCCGCTACAGAACA
* * *
19412885 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAATATGACCTTTA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAGACCTTTA
19412937 AAAAATATTT
Statistics
Matches: 186, Mismatches: 34, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
85 116 0.62
86 70 0.38
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (85 bp):
TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCC
ACAAACGCCGCTACAGAACA
Found at i:19414955 original size:51 final size:51
Alignment explanation
Indices: 19414900--19415015 Score: 214
Period size: 51 Copynumber: 2.3 Consensus size: 51
19414890 CATAAACCAT
*
19414900 TTAAACCCTAAACCCATGATCCATAAACCTTAAAATAGTAACTCTTAAATC
1 TTAAACCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCTTAAATC
*
19414951 TTAAATCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCTTAAATC
1 TTAAACCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCTTAAATC
19415002 TTAAACCCTAAACC
1 TTAAACCCTAAACC
19415016 ATATACCCTA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.44, C:0.26, G:0.03, T:0.28
Consensus pattern (51 bp):
TTAAACCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCTTAAATC
Found at i:19415382 original size:40 final size:40
Alignment explanation
Indices: 19415338--19415439 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
19415328 AATATTTTTT
* * * *
19415338 GCGGCGTTTTTGATAAAGTGCCGCTAAAGCTCAATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAAAGCTCAACCTATA
* * **
19415378 GCGGCGTTTTTCAAAAAGCGCCGCTAATGGTTGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAAAGCTCAACCTATA
*
19415418 GCGGCGTTTTTCAAAAGGCGCC
1 GCGGCGTTTTTCAAAAAGCGCC
19415440 ACTAGTGGAG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAAAGCTCAACCTATA
Found at i:19415515 original size:40 final size:40
Alignment explanation
Indices: 19415455--19415539 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
19415445 TGGAGCGTCA
* * * *
19415455 TTTTTCAAAAAGCGCTACTAATGCTCGATTTATAGCGGCG
1 TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAGCAGCG
* *
19415495 TTTTTCAAAAGGCGCCACTAATGCTCAATCTATAGTAGCG
1 TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAGCAGCG
19415535 TTTTT
1 TTTTT
19415540 TATCCAACCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAGCAGCG
Found at i:19419621 original size:21 final size:21
Alignment explanation
Indices: 19419565--19419621 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
19419555 TGTGGATGAA
*
19419565 AGACATGCTCGTGTGACTGAT
1 AGACATGCTCGTGTGACTGAG
* * * *
19419586 ATACATGGC-CATGTGGCTGGG
1 AGACAT-GCTCGTGTGACTGAG
19419607 AGACATGCTCGTGTG
1 AGACATGCTCGTGTG
19419622 CGATCGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (21 bp):
AGACATGCTCGTGTGACTGAG
Found at i:19422497 original size:59 final size:59
Alignment explanation
Indices: 19422428--19422571 Score: 225
Period size: 59 Copynumber: 2.4 Consensus size: 59
19422418 GTGGAATCAT
*
19422428 GATGGTCATCACCATCTCGTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATAATTC
1 GATGGTCATCACCATCCCGTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATAATTC
** *
19422487 GATGGTCATCACCATCCCGTTTCATAATCGATATTCGAAGCTATCCCTTTTCATAATTT
1 GATGGTCATCACCATCCCGTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATAATTC
* * *
19422546 GATGGTCGTCACCATTCCTTTTCATA
1 GATGGTCATCACCATCCCGTTTCATA
19422572 GTTGATGGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.36
Consensus pattern (59 bp):
GATGGTCATCACCATCCCGTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATAATTC
Found at i:19422532 original size:29 final size:29
Alignment explanation
Indices: 19422445--19422543 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
19422435 ATCACCATCT
*
19422445 CGTTTCATAATCGATAGCCGAAGCTATCC
1 CGTTTCATAATCGATAGTCGAAGCTATCC
* * *
19422474 CTTTTCATAATTCGATGGTC-ATCA-CCATCC
1 CGTTTCATAA-TCGATAGTCGA--AGCTATCC
*
19422504 CGTTTCATAATCGATATTCGAAGCTATCC
1 CGTTTCATAATCGATAGTCGAAGCTATCC
*
19422533 CTTTTCATAAT
1 CGTTTCATAAT
19422544 TTGATGGTCG
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.02
29 32 0.57
30 22 0.39
31 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (29 bp):
CGTTTCATAATCGATAGTCGAAGCTATCC
Found at i:19422611 original size:29 final size:29
Alignment explanation
Indices: 19422470--19422611 Score: 126
Period size: 29 Copynumber: 4.8 Consensus size: 29
19422460 AGCCGAAGCT
**
19422470 ATCCCTTTTCATAATTCGATGGTCATCACC
1 ATCCCTTTTCATAA-TCGATGGTTGTCACC
* * * *
19422500 ATCCCGTTTCATAATCGAT-ATTCG-AAGCT
1 ATCCCTTTTCATAATCGATGGTT-GTCA-CC
* *
19422529 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAA-TCGATGGTTGTCACC
* * *
19422559 ATTCCTTTTCATAGTTGATGGTTGTCACC
1 ATCCCTTTTCATAATCGATGGTTGTCACC
*
19422588 ATCCCTTTTCATAATCGATAGTTG
1 ATCCCTTTTCATAATCGATGGTTG
19422612 AAGCTATCAC
Statistics
Matches: 88, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
28 2 0.02
29 53 0.60
30 31 0.35
31 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATGGTTGTCACC
Found at i:19429259 original size:10 final size:10
Alignment explanation
Indices: 19429240--19429286 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
19429230 AAATCTGTCG
19429240 AAAA-TAATA
1 AAAATTAATA
19429249 AAAATTAATA
1 AAAATTAATA
19429259 AAAATTAATTA
1 AAAATTAA-TA
*
19429270 TAAAATTAATT
1 -AAAATTAATA
19429281 AAAATT
1 AAAATT
19429287 CAACATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 19 0.56
11 3 0.09
12 8 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATA
Found at i:19429276 original size:12 final size:11
Alignment explanation
Indices: 19429247--19429284 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 11
19429237 TCGAAAATAA
19429247 TAAAAATTAA-
1 TAAAAATTAAT
19429257 TAAAAATTAAT
1 TAAAAATTAAT
19429268 TATAAAATTAAT
1 TA-AAAATTAAT
19429280 TAAAA
1 TAAAA
19429285 TTCAACATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 11 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATTAAT
Found at i:19429690 original size:9 final size:9
Alignment explanation
Indices: 19429678--19429720 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
19429668 AATAAATCAT
19429678 TAAAATTTA
1 TAAAATTTA
*
19429687 TAAAAGTTA
1 TAAAATTTA
*
19429696 TTAAATTTA
1 TAAAATTTA
* *
19429705 AAAAATATA
1 TAAAATTTA
19429714 TAAAATT
1 TAAAATT
19429721 AAGAAAAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TAAAATTTA
Found at i:19429719 original size:18 final size:19
Alignment explanation
Indices: 19429678--19429734 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
19429668 AATAAATCAT
* *
19429678 TAAAATTTATAAAAGT-TA
1 TAAAATTTAGAAAAATATA
*
19429696 TTAAATTTA-AAAAATATA
1 TAAAATTTAGAAAAATATA
*
19429714 TAAAATTAAGAAAAATA-A
1 TAAAATTTAGAAAAATATA
19429732 TAA
1 TAA
19429735 TAAAGTATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.15
18 21 0.64
19 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAATTTAGAAAAATATA
Found at i:19429788 original size:19 final size:19
Alignment explanation
Indices: 19429752--19429789 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19429742 TTGTAAAATT
*
19429752 TTATAAAAATCATTAAAAA
1 TTATAAAAATCATCAAAAA
19429771 TTAT-AAAATACATCAAAAA
1 TTATAAAAAT-CATCAAAAA
19429790 GACTCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
TTATAAAAATCATCAAAAA
Found at i:19430117 original size:10 final size:10
Alignment explanation
Indices: 19430034--19430160 Score: 50
Period size: 10 Copynumber: 12.6 Consensus size: 10
19430024 CTTTATAAAA
*
19430034 TTTTATAATTT
1 TTTTAT-ATAT
* *
19430045 TTTTCTACAT
1 TTTTATATAT
*
19430055 TTCTATATA-
1 TTTTATATAT
*
19430064 TTTTATAAAT
1 TTTTATATAT
*
19430074 TTTCGTTTACTAT
1 TTT--TATA-TAT
19430087 TTTTATACT-T
1 TTTTATA-TAT
*
19430097 TTTTCTA-AT
1 TTTTATATAT
19430106 TTTTATATAT
1 TTTTATATAT
*
19430116 TTTTAT-TAGA
1 TTTTATATA-T
*
19430126 ATTTA-ATCAT
1 TTTTATAT-AT
*
19430136 TTTTATAAAT
1 TTTTATATAT
*
19430146 TTTT-TTTAT
1 TTTTATATAT
19430155 TTTTAT
1 TTTTAT
19430161 TTTTTAACAT
Statistics
Matches: 85, Mismatches: 20, Indels: 23
0.66 0.16 0.18
Matches are distributed among these distances:
9 23 0.27
10 42 0.49
11 12 0.14
12 3 0.04
13 5 0.06
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:19430416 original size:90 final size:88
Alignment explanation
Indices: 19430237--19430489 Score: 287
Period size: 90 Copynumber: 2.8 Consensus size: 88
19430227 TTTAGGGGTG
* * * * *
19430237 GTTCAAATACCCAATTGAGTGCAACAAAAAAAGCAGGGGCTTACTTC-CTTTTTTAAAAAGTTAA
1 GTTCAAGTACCCAATTGAGTGC-A-AAAAAAAGTAGGGGCTTAATTCTCTTTTTGAAAAAGTTTA
* * * *
19430301 AGAGTCTTTTTTATTCATTTTGAAA
64 AGGGTCTTTTTGATGCATTGTGAAA
* * * *
19430326 GTTCAAGTACTCAATTAAGTGCAAAAAAAGAGTAAGGGCTTAATTGCTCTTTTTGAAAAAGTTTG
1 GTTCAAGTACCCAATTGAGTGCAAAAAAA-AGTAGGGGCTTAATT-CTCTTTTTGAAAAAGTTTA
19430391 AGGGTCTTTTTGATGCATTGTGAAA
64 AGGGTCTTTTTGATGCATTGTGAAA
* * *
19430416 GTTCAAGTACCCAAATGAGTACAAAAAAAAGTAGGGGCTTAATT-TCTTTTTCTGAAAAATTTTA
1 GTTCAAGTACCCAATTGAGTGCAAAAAAAAGTAGGGGCTTAATTCTC-TTTT-TGAAAAAGTTTA
19430480 AGGG-CTTTTT
64 AGGGTCTTTTT
19430490 ACACCCTTAA
Statistics
Matches: 139, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
87 8 0.06
88 23 0.17
89 48 0.35
90 60 0.43
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (88 bp):
GTTCAAGTACCCAATTGAGTGCAAAAAAAAGTAGGGGCTTAATTCTCTTTTTGAAAAAGTTTAAG
GGTCTTTTTGATGCATTGTGAAA
Found at i:19430868 original size:36 final size:36
Alignment explanation
Indices: 19430716--19431218 Score: 273
Period size: 36 Copynumber: 13.5 Consensus size: 36
19430706 GAAAAAATTT
* * * *
19430716 GTAAATCAGCAAACTGAAAAAATGACAGTTGTGATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
* * *
19430752 CTAAATTAGCGAACTGTAAAAATGACAGTCGAGATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
* * * *
19430788 GTAAATTAGCGAACTGCTAAAAAACCGA-AGGTCACAATA
1 GTAAATCAGCGAACTG-T-AAAAA-TGACA-GTCGCGATA
* *
19430827 GTAAATCAGC-AGACCGTAAAAATGACAGTTGCGATA
1 GTAAATCAGCGA-ACTGTAAAAATGACAGTCGCGATA
* * * * *
19430863 GTAAATCAACGAACTAATAGAAACCTGA-AGGTCGCAATC
1 GTAAATCAGCGAACT-GTA-AAA-ATGACA-GTCGCGATA
* *
19430902 GAAAATTAACAGGTCGTAAATTGTTAGAAAACTGA-AGGTCGCGATA
1 GTAAA-T--CA-G-CG--AACTG-TA-AAAA-TGACA-GTCGCGATA
** *
19430948 GTAAATCAGC-AGACCATAAAAATGACAGTCTCGATA
1 GTAAATCAGCGA-ACTGTAAAAATGACAGTCGCGATA
* * * * **
19430984 TTAAATCAACGAATTGT-AAAATGAAAGTCATGATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
* * *
19431019 GTAAATTAGCGAACTGTAAAAATGACAGTTGCAATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
* * *
19431055 GTAAATCAACGAAATGTTAGAAAACTGA-AGGTCGCAATA
1 GTAAATCAGCGAACTG-TA-AAAA-TGACA-GTCGCGATA
* ** * *
19431094 GTAAATCAGCGGACCATAAAAATGACAATCGCGAGA
1 GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
* * * * *
19431130 GTAAATCAGCGAATTGTAAAAAAGAAAATCACGATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
* * *
19431166 ATAAATTAGCGAACTGTAAAAATGACAGTCGCAATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
* **
19431202 GGAAATCAATGAACTGT
1 GTAAATCAGCGAACTGT
19431219 TAGAAAATCA
Statistics
Matches: 352, Mismatches: 86, Indels: 58
0.71 0.17 0.12
Matches are distributed among these distances:
35 28 0.08
36 188 0.53
37 23 0.07
38 22 0.06
39 56 0.16
40 1 0.00
41 1 0.00
42 3 0.01
43 2 0.01
44 2 0.01
45 1 0.00
46 25 0.07
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.21
Consensus pattern (36 bp):
GTAAATCAGCGAACTGTAAAAATGACAGTCGCGATA
Found at i:19430921 original size:75 final size:75
Alignment explanation
Indices: 19430767--19430913 Score: 170
Period size: 75 Copynumber: 2.0 Consensus size: 75
19430757 TTAGCGAACT
* * ** *
19430767 GTAAAAATGACAGTCGAGATAGTAAATTAGCGAACTGCTAAAAAACCGAAGGTCACAATAGTAAA
1 GTAAAAATGACAGTCGAGATAGTAAATCAACGAACTAATAAAAAACCGAAGGTCACAATAGAAAA
*
19430832 TCAGCAGACC
66 TCAACAGACC
* * * * *
19430842 GTAAAAATGACAGTTGCGATAGTAAATCAACGAACTAAT-AGAAACCTGAAGGTCGCAATCGAAA
1 GTAAAAATGACAGTCGAGATAGTAAATCAACGAACTAATAAAAAACC-GAAGGTCACAATAGAAA
*
19430906 ATTAACAG
65 ATCAACAG
19430914 GTCGTAAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 6 0.10
75 53 0.90
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (75 bp):
GTAAAAATGACAGTCGAGATAGTAAATCAACGAACTAATAAAAAACCGAAGGTCACAATAGAAAA
TCAACAGACC
Found at i:19431235 original size:147 final size:146
Alignment explanation
Indices: 19430923--19431258 Score: 485
Period size: 147 Copynumber: 2.3 Consensus size: 146
19430913 GGTCGTAAAT
* * * * * *
19430923 TGTTAGAAAACTGAAGGTCGCGATAGTAAATCAGCAGACCATAAAAATGACAGTCTCGATATTAA
1 TGTTAGAAAACTGAAGGTCGCAATAGTAAATCAGCGGACCATAAAAATGACAATCGCGAGAGTAA
* * * * *
19430988 ATCAACGAATTGTAAAATGAAAGTCATGATAGTAAATTAGCGAACTGTAAAAATGACAGTTGCAA
66 ATCAACGAATTGTAAAAAGAAAATCACGATAATAAATTAGCGAACTGTAAAAATGACAGTCGCAA
*
19431053 TAGTAAATCAACGAAA
131 TAGGAAATCAACGAAA
19431069 TGTTAGAAAACTGAAGGTCGCAATAGTAAATCAGCGGACCATAAAAATGACAATCGCGAGAGTAA
1 TGTTAGAAAACTGAAGGTCGCAATAGTAAATCAGCGGACCATAAAAATGACAATCGCGAGAGTAA
*
19431134 ATCAGCGAATTGTAAAAAAGAAAATCACGATAATAAATTAGCGAACTGTAAAAATGACAGTCGCA
66 ATCAACGAATTGT-AAAAAGAAAATCACGATAATAAATTAGCGAACTGTAAAAATGACAGTCGCA
* *
19431199 ATAGGAAATCAATGAAC
130 ATAGGAAATCAACGAAA
* * *
19431216 TGTTAGAAAA-TCAAAGGTCGCAATAGGAAATCAACGGACCATA
1 TGTTAGAAAACT-GAAGGTCGCAATAGTAAATCAGCGGACCATA
19431259 TGTAACAGCT
Statistics
Matches: 170, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
146 72 0.42
147 98 0.58
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (146 bp):
TGTTAGAAAACTGAAGGTCGCAATAGTAAATCAGCGGACCATAAAAATGACAATCGCGAGAGTAA
ATCAACGAATTGTAAAAAGAAAATCACGATAATAAATTAGCGAACTGTAAAAATGACAGTCGCAA
TAGGAAATCAACGAAA
Found at i:19432610 original size:25 final size:25
Alignment explanation
Indices: 19432590--19432654 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
19432580 TGGCTCGCAA
19432590 GAGCTTCCCGTTATACAGCTCATAT
1 GAGCTTCCCGTTATACAGCTCATAT
19432615 GAGCTTCCCGTTATACAGCTCATAT
1 GAGCTTCCCGTTATACAGCTCATAT
*
19432640 GAGCTTCCCATTATA
1 GAGCTTCCCGTTATA
19432655 TGTTTTGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATACAGCTCATAT
Found at i:19435841 original size:50 final size:49
Alignment explanation
Indices: 19435735--19435888 Score: 155
Period size: 50 Copynumber: 3.0 Consensus size: 49
19435725 GGGAATGAGA
**
19435735 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCT-GGACATGGCATTGGC---ACCGA-G--ATGAGAGG
* *
19435791 TCTCATGTAAGACCATGTCTCGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCT-GGACATGGCATTGGCACCGAGATGAGAGG
** * *
19435841 TCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCACCGATATGAGA
1 TCCCATGTAAGACCATGTCTGG-ACATGGCATTGGCACCGAGATGAGA
19435889 ACTGTAATGA
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
49 2 0.02
50 47 0.55
52 1 0.01
53 3 0.03
56 33 0.38
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:19436160 original size:24 final size:24
Alignment explanation
Indices: 19436133--19436194 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
19436123 TTTTTATGTT
*
19436133 TTATATATATTATTTTAT-TATATA
1 TTATATATATTATATTATAT-TATA
19436157 TTATATTATATTA-ATTATATTATA
1 TTATA-TATATTATATTATATTATA
19436181 TTATAT-TATTATAT
1 TTATATATATTATAT
19436195 ATTAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 18 0.53
25 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATATATATTATATTATATTATA
Found at i:19436161 original size:5 final size:5
Alignment explanation
Indices: 19436133--19436198 Score: 77
Period size: 5 Copynumber: 13.6 Consensus size: 5
19436123 TTTTTATGTT
*
19436133 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTA-A TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
19436181 TTATA TTAT- TATATA TTA
1 TTATA TTATA T-TATA TTA
19436199 AATAAACTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
4 10 0.19
5 42 0.78
6 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:19436179 original size:29 final size:28
Alignment explanation
Indices: 19436132--19436199 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
19436122 ATTTTTATGT
*
19436132 TTTATA-TATATTATTTTAT-TATATATTA
1 TTTATATTA-ATTATATTATAT-TATATTA
19436160 TATTATATTAATTATATTATATTATATTA
1 T-TTATATTAATTATATTATATTATATTA
19436189 TTATATATTAA
1 TT-TATATTAA
19436200 ATAAACTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 2 0.06
29 30 0.86
30 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTATATTAATTATATTATATTATATTA
Found at i:19436391 original size:22 final size:22
Alignment explanation
Indices: 19436352--19436399 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
19436342 AAACAAAAGA
19436352 AAAAGAAACAAAAGAAGA-ACAG
1 AAAAGAAACAAAAGAAGAGAC-G
*
19436374 AAAAGAAAC-AGAGAAAGAGACG
1 AAAAGAAACAAAAG-AAGAGACG
19436396 AAAA
1 AAAA
19436400 CAGGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAAGAAGAGACG
Found at i:19436781 original size:22 final size:24
Alignment explanation
Indices: 19436753--19436797 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
19436743 ATATGGCAAG
19436753 AAATTAAG-TAGAAAAG-AAGTAT
1 AAATTAAGTTAGAAAAGTAAGTAT
19436775 AAATTAAGTTAGAAAAGTAAGTA
1 AAATTAAGTTAGAAAAGTAAGTA
19436798 AGCTTAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (24 bp):
AAATTAAGTTAGAAAAGTAAGTAT
Found at i:19444712 original size:231 final size:230
Alignment explanation
Indices: 19444301--19444755 Score: 601
Period size: 231 Copynumber: 2.0 Consensus size: 230
19444291 TGGCTTCGGG
* * * *
19444301 AAGTTAGTTTTCTTGGGCATATAATATCTGCTGAAGGCATCAGAGTGGACCTGAATAAAATTTCA
1 AAGTGAGTTTTCTTGGGCACATAATATCGGCTGAAGGCATCAGAGTGGACCTAAATAAAATTTCA
* * *
19444366 GCAATTGTTAACTAGAAACCACCAAAAATGTATCTGAAGTCAGAAGTTTTCTGGGATTAGCTGGT
66 GCAATTGTGAACTAGAAACCACCAAAAATATATCTGAAGTCAGAAGTTTTCTAGGATTAGCTGGT
* * * * * *
19444431 TACTATCGGAGATTTGTAAAAGGATTTTCAATGATAGCCTCTCTGATGACACAATTGTTACAGAA
131 TACTATCGAAGATTAGTAAAAGGATTTTCAATGATAGCCTCACCGATGACACAACTATTACAGAA
*
19444496 AGATGTGAAGTTTGAATGGACTGATAAATTTTGGT
196 AGATGTGAAATTTGAATGGACTGATAAATTTTGGT
* * * *
19444531 AAGTGAGTTTTC-TGGGACACATAGTATCGGCTGAAGGTATTAGAGTTGATCC-AAATAAAATTT
1 AAGTGAGTTTTCTTGGG-CACATAATATCGGCTGAAGGCATCAGAGTGGA-CCTAAATAAAATTT
* * * *
19444594 CAGCTATTGTGAACTGGAAACCACCGAAAAGTATATCTGAAGTTAGAAGTTTTCTAGGATTAGCT
64 CAGCAATTGTGAACTAGAAACCACC-AAAAATATATCTGAAGTCAGAAGTTTTCTAGGATTAGCT
* * * *
19444659 GGTTATTATCGAAGATTAGTAAAAGGGTTTTCGATGATAG-CTACACCGATGACACGACTATTAC
128 GGTTACTATCGAAGATTAGTAAAAGGATTTTCAATGATAGCCT-CACCGATGACACAACTATTAC
**
19444723 AGAAAGATGTGAAATTTGAATGGTTTGATAAAT
192 AGAAAGATGTGAAATTTGAATGGACTGATAAAT
19444756 GTCAGCAAAG
Statistics
Matches: 193, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
229 4 0.02
230 71 0.37
231 118 0.61
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (230 bp):
AAGTGAGTTTTCTTGGGCACATAATATCGGCTGAAGGCATCAGAGTGGACCTAAATAAAATTTCA
GCAATTGTGAACTAGAAACCACCAAAAATATATCTGAAGTCAGAAGTTTTCTAGGATTAGCTGGT
TACTATCGAAGATTAGTAAAAGGATTTTCAATGATAGCCTCACCGATGACACAACTATTACAGAA
AGATGTGAAATTTGAATGGACTGATAAATTTTGGT
Found at i:19447808 original size:25 final size:25
Alignment explanation
Indices: 19447780--19447847 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
19447770 ATACACCATA
**
19447780 GCTCTCACGAGCTTCCCGATATTTG
1 GCTCTCACGAGCTTCCCGATAAATG
* *
19447805 GCTCTCTCGAGCTACCCGATAAATG
1 GCTCTCACGAGCTTCCCGATAAATG
* *
19447830 GCTCGCAAGAGCTTCCCG
1 GCTCTCACGAGCTTCCCG
19447848 TTATACAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.34, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCTCACGAGCTTCCCGATAAATG
Found at i:19447929 original size:50 final size:50
Alignment explanation
Indices: 19447819--19447929 Score: 111
Period size: 50 Copynumber: 2.2 Consensus size: 50
19447809 TCTCGAGCTA
* * *
19447819 CCCGATAA-ATGGCTCGCAAGAGCTTCCCGTTATACAACTCACATGAGTTT
1 CCCG-TAATATGGCTCGAAAGAACTTCCCGTTATACAACTCACATGAGATT
* * *
19447869 CCCGTTATATGGCTCGAAAGAACTTCCCGTT-TACATGCTCATATGAGCATT
1 CCCGTAATATGGCTCGAAAGAACTTCCCGTTATACA-ACTCACATGAG-ATT
*
19447920 CCTG-AATATG
1 CCCGTAATATG
19447930 AATTGATGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
49 6 0.12
50 39 0.78
51 5 0.10
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (50 bp):
CCCGTAATATGGCTCGAAAGAACTTCCCGTTATACAACTCACATGAGATT
Found at i:19448851 original size:56 final size:56
Alignment explanation
Indices: 19448760--19448865 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
19448750 TTGAATTGCT
* * * ** *
19448760 CACATGGCCTAGCACATGGGCGTGTGGTTTGGCCGTGTGACCTAAGTCAGTATACC
1 CACACGGCCTAGCACACGGGCGTATGACTTGGCCGTGTGACCCAAGTCAGTATACC
*
19448816 CACACGGCCTATCACACGGGCGTATGACTTGGCCGTGTGACCCAAGTCAG
1 CACACGGCCTAGCACACGGGCGTATGACTTGGCCGTGTGACCCAAGTCAG
19448866 AGAGCTTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (56 bp):
CACACGGCCTAGCACACGGGCGTATGACTTGGCCGTGTGACCCAAGTCAGTATACC
Found at i:19449343 original size:36 final size:36
Alignment explanation
Indices: 19449258--19449464 Score: 168
Period size: 36 Copynumber: 5.6 Consensus size: 36
19449248 TGACAGACGT
* * *
19449258 GATAGTAAATCAGTGAACTGCTAGAAAATTGA-ATGTCGC
1 GATAGTAAATTAGCGAACTG-TA-AAAA-TGATA-GTCAC
** * *
19449297 GATAAAAAATTAGTGAATTGTAAAAATGATAGTCAC
1 GATAGTAAATTAGCGAACTGTAAAAATGATAGTCAC
* *
19449333 GATAGTAAATTAGCGAACTGTTAGGAAATCGA-AGGTCAT
1 GATAGTAAATTAGCGAACTG-TA-AAAAT-GATA-GTCAC
* * *
19449372 GATCA-AAAATTAGCGGACTGTAAAAATGATAGTTAC
1 GAT-AGTAAATTAGCGAACTGTAAAAATGATAGTCAC
* * * *
19449408 AATAGTAAATAAGCAAACTGTAAAAATGATAGTCGC
1 GATAGTAAATTAGCGAACTGTAAAAATGATAGTCAC
19449444 GATAGTAAATTAGCGAACTGT
1 GATAGTAAATTAGCGAACTGT
19449465 TAGAAAATCA
Statistics
Matches: 134, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
35 1 0.01
36 73 0.54
37 12 0.09
38 9 0.07
39 38 0.28
40 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (36 bp):
GATAGTAAATTAGCGAACTGTAAAAATGATAGTCAC
Found at i:19449380 original size:75 final size:75
Alignment explanation
Indices: 19449258--19449464 Score: 206
Period size: 75 Copynumber: 2.8 Consensus size: 75
19449248 TGACAGACGT
* * * * * * * *
19449258 GATAGTAAATCAGTGAACTGCTAGAAAATTGAATGTCGCGATAAAAAATTAGTGAATTGTAAAAA
1 GATAGTAAATAAGCGAACTGTTAGAAAATCGAAGGTCACGATAAAAAATTAGCGAACTGTAAAAA
19449323 TGATAGTCAC
66 TGATAGTCAC
* * * * *
19449333 GATAGTAAATTAGCGAACTGTTAGGAAATCGAAGGTCATGATCAAAAATTAGCGGACTGTAAAAA
1 GATAGTAAATAAGCGAACTGTTAGAAAATCGAAGGTCACGATAAAAAATTAGCGAACTGTAAAAA
*
19449398 TGATAGTTAC
66 TGATAGTCAC
* * * **
19449408 AATAGTAAATAAGCAAACTG-TA-AAAAT-GATA-GTCGCGATAGTAAATTAGCGAACTGT
1 GATAGTAAATAAGCGAACTGTTAGAAAATCGA-AGGTCACGATAAAAAATTAGCGAACTGT
19449465 TAGAAAATCA
Statistics
Matches: 108, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
72 22 0.20
73 5 0.05
74 2 0.02
75 79 0.73
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (75 bp):
GATAGTAAATAAGCGAACTGTTAGAAAATCGAAGGTCACGATAAAAAATTAGCGAACTGTAAAAA
TGATAGTCAC
Found at i:19449606 original size:75 final size:75
Alignment explanation
Indices: 19449427--19449794 Score: 333
Period size: 75 Copynumber: 4.9 Consensus size: 75
19449417 TAAGCAAACT
* * * * *
19449427 GTAAAAATGATAGTCGCGATAGTAAATTAGCGAACTGTTAGAAAATCAAAGGTAAGGTGGCGATA
1 GTAAAAATGAAAGTCGCAATAGTAAATCAGCGAACTGTTAG--AA--AAATG-AAGGTCGCGATA
* *
19449492 ATAAATCAACGGACC
61 GTAAATCAACGTACC
* * *
19449507 GTAAAAAT-AACAGTCGCAATAGTAAATCAACGAACTGTTAGAAAAATGAAGGTCGCAATAGTAT
1 GTAAAAATGAA-AGTCGCAATAGTAAATCAGCGAACTGTTAGAAAAATGAAGGTCGCGATAGTAA
*
19449571 ATCCACGTACC
65 ATCAACGTACC
* ** *
19449582 GTAAAAATGAAAGTTGCAATAGTAAATCAGTTAATTG-T--AAAAATGACA-GTCGCGATAGTAA
1 GTAAAAATGAAAGTCGCAATAGTAAATCAGCGAACTGTTAGAAAAATGA-AGGTCGCGATAGTAA
*
19449643 ATCCACGTACC
65 ATCAACGTACC
* * * * * *
19449654 GTAAAAATGACAGTCGAAATAGTAAATCAGCAAACTGTTAGAAAACTAAAGGTCGCGATACTAAA
1 GTAAAAATGAAAGTCGCAATAGTAAATCAGCGAACTGTTAGAAAAATGAAGGTCGCGATAGTAAA
*
19449719 TCAATAG-ACC
66 TCAA-CGTACC
* * * *
19449729 GTAAAAATGACAGTCTCGAATAGTAAATCTGCGAACTG-T--AAAAATGACA-GTCGCAATAGTA
1 GTAAAAATGAAAGTCGC-AATAGTAAATCAGCGAACTGTTAGAAAAATGA-AGGTCGCGATAGTA
19449790 AATCA
64 AATCA
19449795 GGAAACTGTT
Statistics
Matches: 241, Mismatches: 37, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
72 61 0.25
73 23 0.10
74 3 0.01
75 91 0.38
76 25 0.10
78 2 0.01
79 1 0.00
80 35 0.15
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (75 bp):
GTAAAAATGAAAGTCGCAATAGTAAATCAGCGAACTGTTAGAAAAATGAAGGTCGCGATAGTAAA
TCAACGTACC
Found at i:19449675 original size:147 final size:148
Alignment explanation
Indices: 19449486--19449794 Score: 399
Period size: 147 Copynumber: 2.1 Consensus size: 148
19449476 AGGTAAGGTG
* * *
19449486 GCGATAATAAATCAACGGACCGTAAAAATAACAGTCGCAATAGTAAATCAACGAACTGTTAGAAA
1 GCGATAGTAAATCAACGGACCGTAAAAATAACAGTCGAAATAGTAAATCAACAAACTGTTAGAAA
* * * * * *
19449551 AATGAAGGTCGCAATAGTATATCCA-CGTACCGTAAAAATGAAAGT-T-GCAATAGTAAATCAGT
66 AATAAAGGTCGCAATACTAAATCAATAG-ACCGTAAAAATGAAAGTCTCG-AATAGTAAATCAGC
* *
19449613 TAATTGTAAAAATGACAGTC
129 GAACTGTAAAAATGACAGTC
* * * *
19449633 GCGATAGTAAATCCACGTACCGTAAAAATGACAGTCGAAATAGTAAATCAGCAAACTGTTAGAAA
1 GCGATAGTAAATCAACGGACCGTAAAAATAACAGTCGAAATAGTAAATCAACAAACTGTTAGAAA
* * * *
19449698 ACTAAAGGTCGCGATACTAAATCAATAGACCGTAAAAATGACAGTCTCGAATAGTAAATCTGCGA
66 AATAAAGGTCGCAATACTAAATCAATAGACCGTAAAAATGAAAGTCTCGAATAGTAAATCAGCGA
19449763 ACTGTAAAAATGACAGTC
131 ACTGTAAAAATGACAGTC
*
19449781 GCAATAGTAAATCA
1 GCGATAGTAAATCA
19449795 GGAAACTGTT
Statistics
Matches: 138, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
147 93 0.67
148 44 0.32
149 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (148 bp):
GCGATAGTAAATCAACGGACCGTAAAAATAACAGTCGAAATAGTAAATCAACAAACTGTTAGAAA
AATAAAGGTCGCAATACTAAATCAATAGACCGTAAAAATGAAAGTCTCGAATAGTAAATCAGCGA
ACTGTAAAAATGACAGTC
Found at i:19449802 original size:36 final size:35
Alignment explanation
Indices: 19449507--19449803 Score: 211
Period size: 36 Copynumber: 8.1 Consensus size: 35
19449497 TCAACGGACC
* *
19449507 GTAAAAATAACAGTCGCAATAGTAAATCAACGAACT
1 GTAAAAATGACAGTCGCAATAGTAAATC-AGGAACT
* * * *
19449543 GTTAGAAAAATGA-AGGTCGCAATAGTATATCCACGTACC
1 G-T--AAAAATGACA-GTCGCAATAGTAAAT-CAGGAACT
* * * *
19449582 GTAAAAATGAAAGTTGCAATAGTAAATCAGTTAATT
1 GTAAAAATGACAGTCGCAATAGTAAATCAG-GAACT
* * * *
19449618 GTAAAAATGACAGTCGCGATAGTAAATCCACGTACC
1 GTAAAAATGACAGTCGCAATAGTAAAT-CAGGAACT
* *
19449654 GTAAAAATGACAGTCGAAATAGTAAATCAGCAAACT
1 GTAAAAATGACAGTCGCAATAGTAAATCAG-GAACT
* * * ** *
19449690 GTTAGAAAACT-AAAGGTCGCGATACTAAATCAATAGACC
1 G-TA-AAAA-TGACA-GTCGCAATAGTAAATCAGGA-ACT
* *
19449729 GTAAAAATGACAGTCTCGAATAGTAAATCTGCGAACT
1 GTAAAAATGACAGTCGC-AATAGTAAATCAG-GAACT
19449766 GTAAAAATGACAGTCGCAATAGTAAATCAGGAAACT
1 GTAAAAATGACAGTCGCAATAGTAAATCAGG-AACT
19449802 GT
1 GT
19449804 TAGAAAACCG
Statistics
Matches: 201, Mismatches: 42, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
35 5 0.02
36 99 0.49
37 39 0.19
38 12 0.06
39 45 0.22
40 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.22
Consensus pattern (35 bp):
GTAAAAATGACAGTCGCAATAGTAAATCAGGAACT
Found at i:19453458 original size:50 final size:50
Alignment explanation
Indices: 19453401--19453679 Score: 231
Period size: 51 Copynumber: 5.5 Consensus size: 50
19453391 GATGGTCACG
* * *
19453401 TGTGTAGTACTATGTGTAGGGTACTACGTGTACCAGAATGATAGGCCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCA
* * * * * * * * *
19453451 TGTGTAGTACTATGTGCAAGCTACTATGCGTACC-GGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-ATAGGTCGCA
* * * *
19453502 TGTGTAGTACTATATGTAGGCTACTACGTGTACCAGAACGATAGGTCGTA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCA
* * * * * * * *
19453552 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-ATAGGTCGCA
* * *
19453603 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCA
*
19453654 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
19453680 TGTGAATCCG
Statistics
Matches: 176, Mismatches: 45, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
49 5 0.03
50 65 0.37
51 99 0.56
52 4 0.02
53 2 0.01
54 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCA
Found at i:19453511 original size:101 final size:101
Alignment explanation
Indices: 19453396--19453681 Score: 448
Period size: 101 Copynumber: 2.8 Consensus size: 101
19453386 AAAGTGATGG
* *
19453396 TCACGTGTGTAGTACTATGTGTAGGGTACTACGTGTACCAGAATGATAGGCCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
19453461 TATGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
* * *
19453497 TCACGTGTGTAGTACTATATGTAGGCTACTACGTGTACCAGAACGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
*
19453562 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
* * * *
19453598 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
*
19453662 ACTATGTGCATGCTACTATG
64 ACTATGTGCAAGCTACTATG
19453682 TGAATCCGCA
Statistics
Matches: 169, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
101 133 0.79
102 33 0.20
103 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
Found at i:19453525 original size:51 final size:50
Alignment explanation
Indices: 19453451--19453681 Score: 247
Period size: 51 Copynumber: 4.6 Consensus size: 50
19453441 ATAGGCCGCA
*
19453451 TGTGTAGTACTATGTGCAAGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGATCACG
* * * * *
19453502 TGTGTAGTACTATATGTAGGCTACTACGTGTACCAGAACGATAGGTCG-T-A--
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-G---GATAGTTCGATCACG
19453552 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGATCACG
* * * * *
19453603 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT--TCGATCACG
*
19453654 TGTGTAGTACTATGTGCATGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
19453682 TGAATCCGCA
Statistics
Matches: 151, Mismatches: 18, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
48 1 0.01
49 2 0.01
50 31 0.21
51 97 0.64
52 3 0.02
53 1 0.01
54 3 0.02
55 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTCGATCACG
Found at i:19453683 original size:26 final size:26
Alignment explanation
Indices: 19453603--19453683 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
19453593 TTCGATCACG
*
19453603 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
19453629 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
19453654 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
19453680 TGTG
1 TGTG
19453684 AATCCGCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:19453806 original size:41 final size:42
Alignment explanation
Indices: 19453691--19453817 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 42
19453681 GTGAATCCGC
* *
19453691 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAT
1 ATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
19453734 ATCCTTGACTGTGA-AAGG-GGTTGCTATGTGCTGATTCC-CCGT
1 ATCATTGA-T-T-ATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
19453776 ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
19453818 GTAACGGTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 20 0.28
42 14 0.19
43 26 0.36
44 4 0.06
45 1 0.01
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Done.