Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 93 of 444
Found at i:22367984 original size:26 final size:26
Alignment explanation
Indices: 22367955--22368038 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
22367945 CATGAAATTC
*
22367955 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
22367981 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
22368007 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
22368033 TTATCA
1 TTATCA
22368039 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 54 0.96
27 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:22372115 original size:14 final size:14
Alignment explanation
Indices: 22372092--22372124 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22372082 CTTATATACT
22372092 AAAT-ATAATAATA
1 AAATAATAATAATA
22372105 AAATAATAATAATA
1 AAATAATAATAATA
*
22372119 ATATAA
1 AAATAA
22372125 AAAAATCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:22372428 original size:22 final size:25
Alignment explanation
Indices: 22372380--22372430 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 25
22372370 CATTCCATCC
*
22372380 TTAAAATATTTGCACTATTGGTCCT
1 TTAAAATATTTGCACTATTGGTACT
*
22372405 TTAAAAT-TTT-CA-TATTTGTACT
1 TTAAAATATTTGCACTATTGGTACT
22372427 TTAA
1 TTAA
22372431 CCCCTCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
23 2 0.08
24 3 0.12
25 7 0.29
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (25 bp):
TTAAAATATTTGCACTATTGGTACT
Found at i:22375005 original size:50 final size:50
Alignment explanation
Indices: 22374941--22375041 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
22374931 ATTGTCTGAA
22374941 TTGTGTACAATGTCAAGGCCTATATATAGGCTAATTAAATAAATCTAAAC
1 TTGTGTACAATGTCAAGGCCTATATATAGGCTAATTAAATAAATCTAAAC
*
22374991 TTGTTTACAATGTCAAGGCCTATATATAGGCTAATTAAATAAATCTAAAC
1 TTGTGTACAATGTCAAGGCCTATATATAGGCTAATTAAATAAATCTAAAC
22375041 T
1 T
22375042 CTTAAGTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (50 bp):
TTGTGTACAATGTCAAGGCCTATATATAGGCTAATTAAATAAATCTAAAC
Found at i:22378587 original size:39 final size:38
Alignment explanation
Indices: 22378534--22378618 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 38
22378524 GCATGTATGA
*
22378534 TAAAAAATATTGAATCTAAATATTAAATTCATAAAATT
1 TAAAAAATACTGAATCTAAATATTAAATTCATAAAATT
22378572 TAAAAAATAACTGAATCTAAATATTAAATTCATAAAATT
1 TAAAAAAT-ACTGAATCTAAATATTAAATTCATAAAATT
22378611 TAAAAAAT
1 TAAAAAAT
22378619 GAATTAACTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 8 0.18
39 37 0.82
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (38 bp):
TAAAAAATACTGAATCTAAATATTAAATTCATAAAATT
Found at i:22381336 original size:19 final size:19
Alignment explanation
Indices: 22381308--22381356 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
22381298 ATTGATAAAG
*
22381308 TAATTGTATTATAAAGATA
1 TAATTTTATTATAAAGATA
* *
22381327 TAATTTTATTTTATAAATATG
1 TAATTTTA--TTATAAAGATA
22381348 TAATTTTAT
1 TAATTTTAT
22381357 GTAAAGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 8 0.32
21 17 0.68
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TAATTTTATTATAAAGATA
Found at i:22381342 original size:21 final size:21
Alignment explanation
Indices: 22381316--22381356 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22381306 AGTAATTGTA
22381316 TTATAAAGATATAATTTTATT
1 TTATAAAGATATAATTTTATT
* *
22381337 TTATAAATATGTAATTTTAT
1 TTATAAAGATATAATTTTAT
22381357 GTAAAGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TTATAAAGATATAATTTTATT
Found at i:22381445 original size:15 final size:15
Alignment explanation
Indices: 22381386--22381442 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
22381376 TAACATAATT
*
22381386 TTATGAAAGGATATT
1 TTATGAAAGGATATC
* *
22381401 TTATTAAAAGGTAGATC
1 TTA-TGAAAGG-ATATC
22381418 TTATGAAAGGATATC
1 TTATGAAAGGATATC
22381433 TTATGTAAAG
1 TTATG-AAAG
22381443 ATACAACTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 12 0.35
16 16 0.47
17 6 0.18
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (15 bp):
TTATGAAAGGATATC
Found at i:22381491 original size:2 final size:2
Alignment explanation
Indices: 22381484--22381526 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
22381474 AATACCAAAG
22381484 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22381526 T
1 T
22381527 GTTTTTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22386216 original size:20 final size:20
Alignment explanation
Indices: 22386193--22386231 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22386183 CGTGTGGAAA
* *
22386193 GTCACCTGGGCGTGTGAGAG
1 GTCACATGGGCGTGGGAGAG
*
22386213 GTCATATGGGCGTGGGAGA
1 GTCACATGGGCGTGGGAGA
22386232 AGCGAAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.46, T:0.21
Consensus pattern (20 bp):
GTCACATGGGCGTGGGAGAG
Found at i:22387905 original size:6 final size:6
Alignment explanation
Indices: 22387894--22387961 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
22387884 ATTGAGTCTA
* *
22387894 TTTATT TTTATT TTT-TAT TTTAGT TTTATT TTTAGTT TTTATT TCTATT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTA-TT TTTATT TTTATT
* * *
22387943 TTTCTG TTTATT TGTATT T
1 TTTATT TTTATT TTTATT T
22387962 CTCTAGACTT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 1 0.02
6 43 0.86
7 6 0.12
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:22387920 original size:12 final size:13
Alignment explanation
Indices: 22387894--22387937 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
22387884 ATTGAGTCTA
*
22387894 TTTATTTTTATTT
1 TTTATTTTTAGTT
22387907 TTTA-TTTTAG-T
1 TTTATTTTTAGTT
22387918 TTTATTTTTAGTT
1 TTTATTTTTAGTT
22387931 TTTATTT
1 TTTATTT
22387938 CTATTTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 5 0.18
12 11 0.39
13 12 0.43
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTATTTTTAGTT
Found at i:22395271 original size:7 final size:7
Alignment explanation
Indices: 22395261--22395292 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22395251 AAAGAAAAAC
*
22395261 AAAAGTA
1 AAAAATA
22395268 AAAAATA
1 AAAAATA
22395275 AAAAATA
1 AAAAATA
22395282 AAAAATA
1 AAAAATA
22395289 AAAA
1 AAAA
22395293 GAAGAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:22395277 original size:13 final size:13
Alignment explanation
Indices: 22395255--22395312 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
22395245 AGCCAAAAAG
* *
22395255 AAAAACAAAAGTA
1 AAAAATAAAAATA
22395268 AAAAATAAAAAATA
1 AAAAAT-AAAAATA
*
22395282 AAAAATAAAAA-G
1 AAAAATAAAAATA
*
22395294 AAGAATAAAAATA
1 AAAAATAAAAATA
22395307 ATAAAA
1 A-AAAA
22395313 CAAAGGTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
12 10 0.28
13 11 0.31
14 15 0.42
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:22395902 original size:12 final size:13
Alignment explanation
Indices: 22395871--22395912 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
22395861 ACAAAAAATC
22395871 AAAAATCAA-AAA
1 AAAAATCAATAAA
22395883 TCAAAAAT-AATAAA
1 --AAAAATCAATAAA
22395897 AAAAATCAATAAA
1 AAAAATCAATAAA
22395910 AAA
1 AAA
22395913 TAAAAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 11 0.42
14 9 0.35
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATCAATAAA
Found at i:22395902 original size:19 final size:20
Alignment explanation
Indices: 22395878--22395931 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
22395868 ATCAAAAATC
*
22395878 AAAAATCAA-AAATAATAAA
1 AAAAATCAATAAAAAATAAA
22395897 AAAAATCAATAAAAAAT-AA
1 AAAAATCAATAAAAAATAAA
*
22395916 AAAAATCATTAAAAAA
1 AAAAATCAATAAAAAA
22395932 AAGAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 26 0.81
20 6 0.19
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAATCAATAAAAAATAAA
Found at i:22395916 original size:7 final size:7
Alignment explanation
Indices: 22395857--22395919 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
22395847 CTTTAGACCC
*
22395857 AAAAACA
1 AAAAATA
*
22395864 AAAAATC
1 AAAAATA
*
22395871 AAAAATC
1 AAAAATA
*
22395878 AAAAATC
1 AAAAATA
22395885 AAAAATA
1 AAAAATA
22395892 ATAAAA-A
1 A-AAAATA
22395899 AAATCAATA
1 AAA--AATA
22395908 AAAAATA
1 AAAAATA
22395915 AAAAA
1 AAAAA
22395920 ATCATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.04
7 37 0.76
8 6 0.12
9 4 0.08
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:22397463 original size:134 final size:134
Alignment explanation
Indices: 22397320--22397613 Score: 428
Period size: 134 Copynumber: 2.2 Consensus size: 134
22397310 TTGAAGATTG
*
22397320 TAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAA-ACTGAAGATTGAAGATCTCATCTCCCTGAGA
1 TAGTCTTATCTTCCTGAGGTAGCAAGGAAG-AAGACTGAAGATTGAAGATCTCATCTCCCTGAGA
* * * * *
22397384 TAGTAGTAGAGTAGATCGAAGATGGCGAATCTTATATTCTCGAGGTAGTAGGGGAGCAGATTTTA
65 TAGCAATAGAGCAGATCGAAGATGGCAAATCTTATATTCTCGAGGTAGCAGGGGAGCAGATTTTA
*
22397449 GCCAT
130 GCCAC
* * *
22397454 TAGTCTTATCTTCTTGAGGTACCAAGGAAGAAGACTGAAGATTGAAGATCTCATCTCCTTGAGAT
1 TAGTCTTATCTTCCTGAGGTAGCAAGGAAGAAGACTGAAGATTGAAGATCTCATCTCCCTGAGAT
* * *
22397519 AGCAATGGAGCAGATCGAAGATGGCAAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTTAG
66 AGCAATAGAGCAGATCGAAGATGGCAAATCTTATATTCTCGAGGTAGCAGGGGAGCAGATTTTAG
22397584 CCAC
131 CCAC
* * *
22397588 CAGCCTTATCTCCCTGAGGTAGCAAG
1 TAGTCTTATCTTCCTGAGGTAGCAAG
22397614 AGAGCAGGTC
Statistics
Matches: 141, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
133 2 0.01
134 139 0.99
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (134 bp):
TAGTCTTATCTTCCTGAGGTAGCAAGGAAGAAGACTGAAGATTGAAGATCTCATCTCCCTGAGAT
AGCAATAGAGCAGATCGAAGATGGCAAATCTTATATTCTCGAGGTAGCAGGGGAGCAGATTTTAG
CCAC
Found at i:22397600 original size:89 final size:87
Alignment explanation
Indices: 22397506--22397962 Score: 249
Period size: 89 Copynumber: 5.1 Consensus size: 87
22397496 TGAAGATCTC
*
22397506 ATCTCCTTGAGATAGCAATGGAGCAGATCGAAGATGGCAAATCTTATCTTTTCGAGGTAGCAGGG
1 ATCTCCCTGAGATAGCAATGGAGCAGATCGAAGATGG-AAATCTTATCTTTTCGAGGTAGCAGGG
*
22397571 GAGCAGATTTTAGCCACCAGCCTT
65 GAGCAGATTTTAGCCA-AAGCCTT
* * * * * * * *
22397595 ATCTCCCTGAGGTAGCAA-GAGAGCAGGTCGAAGATTGTAGTCTTATC-TTCCTGAGTTAGCAAG
1 ATCTCCCTGAGATAGCAATG-GAGCAGATCGAAGATGGAAATCTTATCTTTTC-GAGGTAGCAGG
* * ** ** **
22397658 GAAGCAGACTGAAGATTAAAGATTTT
64 GGAGCAGATTTTAG-CCAAAG-CCTT
* * * * * *
22397684 ATCTCCCTGAGATAGTAGTAGAGCAGATCAAAGACGGTGAATCTTATCTTTTCGAGGTAGCAGGG
1 ATCTCCCTGAGATAGCAATGGAGCAGATCGAAGATGG-AAATCTTATCTTTTCGAGGTAGCAGGG
*
22397749 GAGCAGATTTTAGCCATTAGCCTT
65 GAGCAGATTTTAGCCA-AAGCCTT
* * * * * * * * * *
22397773 ATCTCCTTGAGGTAGCAAGGGGGCAG-GCTGAAGATTGTAGTCTTATC-TTCCTGAGGTAGCAAG
1 ATCTCCCTGAGATAGCAATGGAGCAGATC-GAAGATGGAAATCTTATCTTTTC-GAGGTAGCAGG
* * * ** *** **
22397836 GAAGTAGACTGAAGATTGAAGATTTT
64 GGAGCAGATTTTAG-CCAAAG-CCTT
* * * * * *
22397862 ATCTCCCTGA-ATTAGCAGTGGAGCAGATCGAAAAACGGTGAATTTTATCTTTCCGAGGTAGCAG
1 ATCTCCCTGAGA-TAGCAATGGAGCAGATCG-AAGATGG-AAATCTTATCTTTTCGAGGTAGCAG
* **
22397926 GGAAGCAGATTTTAGCCGCTAGCCTT
63 GGGAGCAGATTTTAGCC-AAAGCCTT
22397952 ATCTCCCTGAG
1 ATCTCCCTGAG
22397963 GTAGTAAGGG
Statistics
Matches: 260, Mismatches: 89, Indels: 36
0.68 0.23 0.09
Matches are distributed among these distances:
87 6 0.02
88 60 0.23
89 112 0.43
90 46 0.18
91 32 0.12
92 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (87 bp):
ATCTCCCTGAGATAGCAATGGAGCAGATCGAAGATGGAAATCTTATCTTTTCGAGGTAGCAGGGG
AGCAGATTTTAGCCAAAGCCTT
Found at i:22397609 original size:178 final size:178
Alignment explanation
Indices: 22397454--22398015 Score: 754
Period size: 178 Copynumber: 3.2 Consensus size: 178
22397444 TTTTAGCCAT
* * * * *
22397454 TAGTCTTATCTTCTTGAGGTACCAAGGAAGAAGACTGAAGATTGAAGATCTCATCTCCTTGAGAT
1 TAGTCTTATCTTCCTGAGGTAGCAAGGAAGAAGACTGAAGATTGAAGATTTTATCTCCCTGAGAT
* * **
22397519 AGCAATGGAGCAGATCGAAGATGGCAAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTTAG
66 AGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTTAG
* * * * *
22397584 CCACCAGCCTTATCTCCCTGAGGTAGCAAGAGAGCAGGTCGAAGATTG
131 CCACTAGCCTTATCTCCCTGAGGTAGTAGGGGAGCAGGTTGAAGATTG
* * *
22397632 TAGTCTTATCTTCCTGAGTTAGCAAGGAAGCAGACTGAAGATTAAAGATTTTATCTCCCTGAGAT
1 TAGTCTTATCTTCCTGAGGTAGCAAGGAAGAAGACTGAAGATTGAAGATTTTATCTCCCTGAGAT
* * *
22397697 AGTAGTAGAGCAGATCAAAGACGGTGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTTAG
66 AGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTTAG
* * * *
22397762 CCATTAGCCTTATCTCCTTGAGGTAGCAAGGGG-GCAGGCTGAAGATTG
131 CCACTAGCCTTATCTCCCTGAGGTAG-TAGGGGAGCAGGTTGAAGATTG
*
22397810 TAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATTGAAGATTTTATCTCCCTGA-AT
1 TAGTCTTATCTTCCTGAGGTAGCAAGGAAGAAGACTGAAGATTGAAGATTTTATCTCCCTGAGA-
* * * *
22397874 TAGCAGTGGAGCAGATCGAAAAACGGTGAATTTTATCTTTCCGAGGTAGCAGGGAAGCAGATTTT
65 TAGCAGTGGAGCAGATCG-AAGACGGTGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTT
* * * *
22397939 AGCCGCTAGCCTTATCTCCCTGAGGTAGTAAGGGG-CCAGGTTGGATATTG
129 AGCCACTAGCCTTATCTCCCTGAGGTAGT-AGGGGAGCAGGTTGAAGATTG
22397989 TAGTCTTATC-TCCTTGAGGTAGCAAGG
1 TAGTCTTATCTTCC-TGAGGTAGCAAGG
22398016 GGGCAGGCTG
Statistics
Matches: 338, Mismatches: 41, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
177 1 0.00
178 228 0.67
179 109 0.32
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (178 bp):
TAGTCTTATCTTCCTGAGGTAGCAAGGAAGAAGACTGAAGATTGAAGATTTTATCTCCCTGAGAT
AGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTTAG
CCACTAGCCTTATCTCCCTGAGGTAGTAGGGGAGCAGGTTGAAGATTG
Found at i:22397640 original size:44 final size:44
Alignment explanation
Indices: 22397592--22398064 Score: 180
Period size: 44 Copynumber: 10.6 Consensus size: 44
22397582 AGCCACCAGC
*
22397592 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGTCGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGTCGAAGATTGTAGT
* * * * **
22397636 CTTATCTTCCTGAGTTAGCAAGGAAGCA-GACTGAAGATTAAAGAT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGTC-GAAGATTGTAG-T
* * * * * * ** *
22397681 TTTATCTCCCTGAGATAG-TAGTAGAGCAGATCAAAGACGGTGAAT
1 CTTATCTCCCTGAGGTAGCAAG-GGAGCAGGTCGAAGATTGT-AGT
** * * *** *
22397726 CTTATCT-TTTCGAGGTAGCAGGGGAGCAGATTTTAGCCA-T-TAGC
1 CTTATCTCCCT-GAGGTAGCAAGGGAGCAGGTCGAAG--ATTGTAGT
* *
22397770 CTTATCTCCTTGAGGTAGCAAGGGGGCAGG-CTGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGTC-GAAGATTGTAGT
* * * * *
22397814 CTTATCTTCCTGAGGTAGCAAGGAAGTA-GACTGAAGATTGAAGAT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGTC-GAAGATTGTAG-T
* ** * * ** *
22397859 TTTATCTCCCTGAATTAGC-AGTGGAGCAGATCGAAAAACGGTGAAT
1 CTTATCTCCCTGAGGTAGCAAG-GGAGCAGGTCG-AAGATTGT-AGT
* * * *** ** *
22397905 TTTATCTTTCC-GAGGTAGC-AGGGAAGCAGATTTTAG-CCGCTAGC
1 CTTATC-TCCCTGAGGTAGCAAGGG-AGCAGGTCGAAGATTG-TAGT
* * * *
22397949 CTTATCTCCCTGAGGTAGTAAGGG-GCCAGGTTGGATATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAG-CAGGTCGAAGATTGTAGT
* * *
22397993 CTTATCTCCTTGAGGTAGCAAGGGGGCAGG-CTGGAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGTC-GAAGATTGTAGT
* *
22398037 CTTATCTTCCTGAGGTAGCAAGGAAGCA
1 CTTATCTCCCTGAGGTAGCAAGGGAGCA
22398065 AACTAAAGAT
Statistics
Matches: 312, Mismatches: 89, Indels: 56
0.68 0.19 0.12
Matches are distributed among these distances:
42 1 0.00
43 8 0.03
44 187 0.60
45 81 0.26
46 30 0.10
47 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAGGTAGCAAGGGAGCAGGTCGAAGATTGTAGT
Found at i:22397806 original size:312 final size:312
Alignment explanation
Indices: 22397187--22397834 Score: 928
Period size: 312 Copynumber: 2.1 Consensus size: 312
22397177 GTGAATTCAC
* *
22397187 AGATCTTATCT-CTATGAGGTAGTAATGGAGCAGATCGAAGATGGCGAATCTTAGCTTCCTGAGG
1 AGATCTTATCTCCT-TGAGGTAGCAATGGAGCAGATCGAAGATGGCAAATCTTAGCTTCCTGAGG
* * * * *
22397251 TAGTAGGGGAGCAGATTTTAGCCACTAGACTTATCTCCTTGGGGTAGCAATGGAGCAGGTTGAAG
65 TAGCAGGGGAGCAGATTTTAGCCACCAGACTTATCTCCCTGAGGTAGCAATGGAGCAGGTCGAAG
*
22397316 ATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAAACTGAAGATTGAAGATCTCATCTCCCTG
130 ATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTCATCTCCCTG
* * * *
22397381 AGATAGTAGTAGAGTAGATCGAAGATGGCGAATCTTATATTCTCGAGGTAGTAGGGGAGCAGATT
195 AGATAGTAGTAGAGCAGATCAAAGACGGCGAATCTTATATTCTCGAGGTAGCAGGGGAGCAGATT
* *
22397446 TTAGCCATTAGTCTTATCTTCTTGAGGTACCAAGGAAGAAGACTGAAGATTGA
260 TTAGCCATTAGCCTTATCTCCTTGAGGTACCAAGGAAGAAGACTGAAGATTGA
* * * *
22397499 AGATCTCATCTCCTTGAGATAGCAATGGAGCAGATCGAAGATGGCAAATCTTATCTT-TTCGAGG
1 AGATCTTATCTCCTTGAGGTAGCAATGGAGCAGATCGAAGATGGCAAATCTTAGCTTCCT-GAGG
*
22397563 TAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGGTAGCAA-GAGAGCAGGTCGAA
65 TAGCAGGGGAGCAGATTTTAGCCACCAGACTTATCTCCCTGAGGTAGCAATG-GAGCAGGTCGAA
* * * * *
22397627 GATTGTAGTCTTATCTTCCTGAGTTAGCAAGGAAGCAGACTGAAGATTAAAGATTTTATCTCCCT
129 GATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTCATCTCCCT
* * *
22397692 GAGATAGTAGTAGAGCAGATCAAAGACGGTGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGAT
194 GAGATAGTAGTAGAGCAGATCAAAGACGGCGAATCTTATATTCTCGAGGTAGCAGGGGAGCAGAT
* ** * * *
22397757 TTTAGCCATTAGCCTTATCTCCTTGAGGTAGCAAGGGGGCAGGCTGAAGATTGT
259 TTTAGCCATTAGCCTTATCTCCTTGAGGTACCAAGGAAGAAGACTGAAGATTGA
22397811 AG-TCTTATCTTCC-TGAGGTAGCAA
1 AGATCTTATC-TCCTTGAGGTAGCAA
22397835 GGAAGTAGAC
Statistics
Matches: 297, Mismatches: 35, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
311 18 0.06
312 277 0.93
313 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (312 bp):
AGATCTTATCTCCTTGAGGTAGCAATGGAGCAGATCGAAGATGGCAAATCTTAGCTTCCTGAGGT
AGCAGGGGAGCAGATTTTAGCCACCAGACTTATCTCCCTGAGGTAGCAATGGAGCAGGTCGAAGA
TTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTCATCTCCCTGA
GATAGTAGTAGAGCAGATCAAAGACGGCGAATCTTATATTCTCGAGGTAGCAGGGGAGCAGATTT
TAGCCATTAGCCTTATCTCCTTGAGGTACCAAGGAAGAAGACTGAAGATTGA
Found at i:22398011 original size:223 final size:222
Alignment explanation
Indices: 22397770--22398183 Score: 650
Period size: 223 Copynumber: 1.9 Consensus size: 222
22397760 AGCCATTAGC
22397770 CTTATCTCCTTGAGGTAGCAAGGGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCCTTGAGGTAGCAAGGGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
* * * * *
22397835 GGAAGTAGACTGAAGATTGAAGATTTTATCTCCCTGA-ATTAGCAGTGGAGCAGATCGAAAAACG
66 GGAAGCAAACTAAAGATTGAAGATATTATCTCCCTGAGA-TAGCAGTGGAGCAGATCG-AAAACA
* ** * * *
22397899 GTGAATTTTATCTTTCCGAGGTAGCAGGGAAGCAGATTTTAGCCGCTAGCCTTATCTCCCTGAGG
129 ATGAATCGTATCTTCCCGAGGTAGCAGGGAAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGG
22397964 TAGTAAGGGGCCAGGTTGGATATTGTAGT
194 TAGTAAGGGGCCAGGTTGGATATTGTAGT
*
22397993 CTTATCTCCTTGAGGTAGCAAGGGGGCAGGCTGGAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCCTTGAGGTAGCAAGGGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
* *
22398058 GGAAGCAAACTAAAGATTGAAGATATTATCTCCCTGAGATAGCAGTGGAGTAGATCGAAGACAAT
66 GGAAGCAAACTAAAGATTGAAGATATTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAAACAAT
* * *
22398123 GAATCGTATCTTCCCGAGGTAGGAGGGGAGCAGATTTTAGCCACCAGTCTTATCTCCCTGA
131 GAATCGTATCTTCCCGAGGTAGCAGGGAAGCAGATTTTAGCCACCAGCCTTATCTCCCTGA
22398184 AGTTGCAGCG
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
222 58 0.34
223 114 0.66
224 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (222 bp):
CTTATCTCCTTGAGGTAGCAAGGGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
GGAAGCAAACTAAAGATTGAAGATATTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAAACAAT
GAATCGTATCTTCCCGAGGTAGCAGGGAAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGGTA
GTAAGGGGCCAGGTTGGATATTGTAGT
Found at i:22398075 original size:44 final size:44
Alignment explanation
Indices: 22397985--22398101 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
22397975 CAGGTTGGAT
** ** **
22397985 ATTGTAGTCTTATC-TCCTTGAGGTAGCAAGGGGGCAGGCTGGAG
1 ATTGTAGTCTTATCTTCC-TGAGGTAGCAAGGAAGCAAACTAAAG
22398029 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAG
1 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAG
* * * *
22398073 ATTGAAGATATTATCTCCCTGAGATAGCA
1 ATTGTAG-TCTTATCTTCCTGAGGTAGCA
22398102 GTGGAGTAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 40 0.66
45 21 0.34
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAG
Found at i:22398221 original size:45 final size:45
Alignment explanation
Indices: 22398165--22398460 Score: 197
Period size: 45 Copynumber: 6.6 Consensus size: 45
22398155 GATTTTAGCC
* * *
22398165 ACCAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGATT
1 ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT
* * ** * *
22398210 ACCAATCTTATCTCCTTGAAGTTGCAGTAGAATAGATCGAAGA-A
1 ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT
* * * * * * *
22398254 AGCAAACCTTACCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGT
1 A-CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATT
* * * * * * * *
22398301 A--AGTTTTATCTTCTTGAAGTTGTAGTGGAGCAAACTGAAGAAT
1 ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT
* * * * *
22398344 ACACAAACCTTATCTCGCTGAAGTTGCAGTGGAACAGGTTGAAG-TG
1 AC-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT
* * ***
22398390 A-CAGGTCTTATCTCCCTGAAGCTGCAGTGGAGCATCCTGAAGATT
1 ACCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT
*
22398435 ACCAATCCTATCTCCCTGAAGTTGCA
1 ACCAATCTTATCTCCCTGAAGTTGCA
22398461 ACGGAGCGGA
Statistics
Matches: 186, Mismatches: 55, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
43 4 0.02
44 59 0.32
45 90 0.48
46 4 0.02
47 29 0.16
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT
Found at i:22398373 original size:91 final size:90
Alignment explanation
Indices: 22398248--22398460 Score: 236
Period size: 91 Copynumber: 2.4 Consensus size: 90
22398238 AGAATAGATC
* * * * *
22398248 GAAGAA-AGCAAACCTTACCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGTA-A-GTTTTAT
1 GAAGAATACCAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAGT-G-ACAGGTCTTAT
* * * *
22398310 CTTCTTGAAGTTGTAGTGGAGCAAACT
64 CTCCCTGAAGCTGCAGTGGAGCAAACT
* *
22398337 GAAGAATACACAAACCTTATCTCGCTGAAGTTGCAGTGGAACAGGTTGAAGTGACAGGTCTTATC
1 GAAGAATAC-CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAGTGACAGGTCTTATC
**
22398402 TCCCTGAAGCTGCAGTGGAGCATCCT
65 TCCCTGAAGCTGCAGTGGAGCAAACT
* *
22398428 GAAGATTACCAATCC-TATCTCCCTGAAGTTGCA
1 GAAGAATACCAAACCTTATCTCCCTGAAGTTGCA
22398461 ACGGAGCGGA
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
89 24 0.23
90 8 0.08
91 73 0.70
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (90 bp):
GAAGAATACCAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAGTGACAGGTCTTATCT
CCCTGAAGCTGCAGTGGAGCAAACT
Found at i:22399978 original size:29 final size:25
Alignment explanation
Indices: 22399916--22399968 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
22399906 TTAGATTCTT
22399916 TTCGAATTTCTTTATTTTTAAAATC
1 TTCGAATTTCTTTATTTTTAAAATC
22399941 TTCGAATTTCTTTATTTTTAAAATC
1 TTCGAATTTCTTTATTTTTAAAATC
22399966 TTC
1 TTC
22399969 CCTGGAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.04, T:0.57
Consensus pattern (25 bp):
TTCGAATTTCTTTATTTTTAAAATC
Found at i:22400326 original size:15 final size:16
Alignment explanation
Indices: 22400302--22400337 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
22400292 ATGTGAATAC
*
22400302 ATTTTTTAA-TTGTCT
1 ATTTTGTAATTTGTCT
22400317 ATTTTGTAATTTGTCT
1 ATTTTGTAATTTGTCT
22400333 ATTTT
1 ATTTT
22400338 AAAATTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.67
Consensus pattern (16 bp):
ATTTTGTAATTTGTCT
Found at i:22400526 original size:2 final size:2
Alignment explanation
Indices: 22400519--22400554 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
22400509 CCCTATTTTA
*
22400519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22400555 TTGTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22404994 original size:45 final size:45
Alignment explanation
Indices: 22404939--22405039 Score: 141
Period size: 45 Copynumber: 2.2 Consensus size: 45
22404929 GTACCTAAAT
22404939 AGTAATCAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATC
1 AGTAA-CAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATC
* * * *
22404985 TGTAACAGTAACGGTAATAGTATTCGACACACAAAGTGTCGAATC
1 AGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATC
22405030 AGTAACAGTA
1 AGTAACAGTA
22405040 GTCAGCACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 44 0.90
46 5 0.10
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (45 bp):
AGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATC
Found at i:22406053 original size:17 final size:18
Alignment explanation
Indices: 22406027--22406060 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22406017 TCTAGTTTTT
*
22406027 CCTTTTTCTTT-TCTTTC
1 CCTTTATCTTTCTCTTTC
22406044 CCTTTATCTTTCTCTTT
1 CCTTTATCTTTCTCTTT
22406061 TTCTCCTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (18 bp):
CCTTTATCTTTCTCTTTC
Found at i:22406620 original size:20 final size:19
Alignment explanation
Indices: 22406593--22406634 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
22406583 ATATAAAACT
22406593 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
22406612 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
22406632 ATA
1 ATA
22406635 TATAAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:22410242 original size:25 final size:23
Alignment explanation
Indices: 22410202--22410249 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
22410192 TGCATTATGG
22410202 AAGGAAAATAAAGAAATGAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAA
* *
22410227 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
22410250 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGGAAAATAAAGAAAAAAAAAA
Found at i:22422308 original size:12 final size:13
Alignment explanation
Indices: 22422285--22422313 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22422275 GTACCTAAAT
22422285 AGTAATCAGTAAC
1 AGTAATCAGTAAC
22422298 AGTAA-CAGTAAC
1 AGTAATCAGTAAC
22422310 AGTA
1 AGTA
22422314 TTCAACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (13 bp):
AGTAATCAGTAAC
Found at i:22422345 original size:45 final size:45
Alignment explanation
Indices: 22422288--22422403 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
22422278 CCTAAATAGT
* * * *
22422288 AATCAGTAACAGTAACAGTAACAGTATTCAACATACTAAGTGCTG
1 AATCAGTAACAGTAACGGTAATAGTATTCAACACACAAAGTGCTG
* * *
22422333 AATCTGTAACAGTAACGGTAATAGTATTCGACACACAAAGTGTTG
1 AATCAGTAACAGTAACGGTAATAGTATTCAACACACAAAGTGCTG
*
22422378 AATCGGTAACAGTAACGGTAATAGTA
1 AATCAGTAACAGTAACGGTAATAGTA
22422404 ACAATAGTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
AATCAGTAACAGTAACGGTAATAGTATTCAACACACAAAGTGCTG
Found at i:22422814 original size:16 final size:17
Alignment explanation
Indices: 22422793--22422824 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22422783 TACCACACAT
22422793 ACATATTAAAT-TAAAC
1 ACATATTAAATATAAAC
22422809 ACATATTAAATATAAA
1 ACATATTAAATATAAA
22422825 GCTTGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (17 bp):
ACATATTAAATATAAAC
Found at i:22428427 original size:2 final size:2
Alignment explanation
Indices: 22428415--22428445 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22428405 ACAAAATTTT
*
22428415 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22428446 TTTCAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22428828 original size:21 final size:21
Alignment explanation
Indices: 22428782--22428832 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
22428772 TTTATTGTTA
22428782 TTTATTTTAGACCTTTCATATG
1 TTTATTTTAGA-CTTTCATATG
*
22428804 -TTATTTTAGA-TTGTTATATG
1 TTTATTTTAGACTT-TCATATG
22428824 TTTATTTTA
1 TTTATTTTA
22428833 ATTCGCTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 6 0.23
21 18 0.69
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.61
Consensus pattern (21 bp):
TTTATTTTAGACTTTCATATG
Found at i:22430436 original size:17 final size:17
Alignment explanation
Indices: 22430414--22430446 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22430404 AAAATAGAAG
*
22430414 AAAAATTATAAAAATTA
1 AAAAATTAAAAAAATTA
22430431 AAAAATTAAAAAAATT
1 AAAAATTAAAAAAATT
22430447 TATGAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATTAAAAAAATTA
Found at i:22430443 original size:8 final size:8
Alignment explanation
Indices: 22430414--22430443 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
22430404 AAAATAGAAG
22430414 AAAAATTA
1 AAAAATTA
22430422 TAAAAATTA
1 -AAAAATTA
22430431 AAAAATTA
1 AAAAATTA
22430439 AAAAA
1 AAAAA
22430444 ATTTATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATTA
Found at i:22430444 original size:9 final size:9
Alignment explanation
Indices: 22430414--22430446 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
22430404 AAAATAGAAG
*
22430414 AAAAATTAT
1 AAAAATTAA
22430423 AAAAATT-A
1 AAAAATTAA
22430431 AAAAATTAA
1 AAAAATTAA
22430440 AAAAATT
1 AAAAATT
22430447 TATGAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAATTAA
Found at i:22443462 original size:2 final size:2
Alignment explanation
Indices: 22443455--22443484 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22443445 ACATATGCGC
*
22443455 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22443485 GAATTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22444518 original size:44 final size:44
Alignment explanation
Indices: 22444418--22444547 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 44
22444408 AGCTCGTACA
* * *
22444418 ATGCCTACGTCCCAGACGTGGTCTTACATGT-AATCA-ACTATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACAAGTAAATCACA-TATCG
* * * * *
22444461 ATGCCGATGTCCCAGATATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACAAGTAAATCACATATCG
*
22444505 ATGCCAACATCCCAGATGTGGTCTTACAAG-AAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACAAGTAAATCACATATCG
22444548 GAATTCTATG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
43 38 0.52
44 34 0.47
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGATGTGGTCTTACAAGTAAATCACATATCG
Found at i:22453124 original size:23 final size:26
Alignment explanation
Indices: 22453081--22453129 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
22453071 AAATAAATTT
22453081 TATAAAATATATAAATAAAAATTTTA
1 TATAAAATATATAAATAAAAATTTTA
22453107 TATAAAAT-TA-AAAT-AAAATTTTA
1 TATAAAATATATAAATAAAAATTTTA
22453130 ATTGAAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 4 0.17
25 2 0.09
26 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
TATAAAATATATAAATAAAAATTTTA
Found at i:22457856 original size:78 final size:77
Alignment explanation
Indices: 22457746--22457937 Score: 215
Period size: 78 Copynumber: 2.5 Consensus size: 77
22457736 ATTTGATGTG
* * * * * *
22457746 TATCCGGGCTTAAAGACCCGCAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGTCCCGCAGGC
1 TATCCGGG-TTAAAGTCTCGCAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGC
* *
22457811 TTCGCGCTGGTAATA
63 CTAGCGCTGGTAATA
22457826 TATCCGGGTTAAA-TCTCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTA
1 TATCCGGGTTAAAGTCTCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTA
* *
22457890 GTGCTGGTATTA
66 GCGCTGGTAATA
* * * *
22457902 TAACTGAGTTTAAAGTCTCGTAGGCTTCGTGCTGGT
1 TATCCG-GGTTAAAGTCTCGCAGGCTTCGTGCTGGT
22457938 GTTACACGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
76 25 0.26
77 12 0.12
78 46 0.48
79 5 0.05
80 8 0.08
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (77 bp):
TATCCGGGTTAAAGTCTCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTA
GCGCTGGTAATA
Found at i:22457858 original size:38 final size:39
Alignment explanation
Indices: 22457746--22457937 Score: 208
Period size: 38 Copynumber: 4.9 Consensus size: 39
22457736 ATTTGATGTG
* * *
22457746 TATCCGGGCTTAAAGACCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGG-TTAAAGTCCCGCAGGCTTCGTGCTGGTATTA
* * * *
22457786 TATCTGAGTTTAAAGTCCCGCAGGCTTCGCGCTGGTAATA
1 TATCCG-GGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTA
*
22457826 TATCCGGGTTAAA-TCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTA
* *
22457864 TATCCGGGTTAAA-TCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTA
* * * * *
22457902 TAACTGAGTTTAAAGTCTCGTAGGCTTCGTGCTGGT
1 TATCCG-GGTTAAAGTCCCGCAGGCTTCGTGCTGGT
22457938 GTTACACGAA
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
38 61 0.48
39 12 0.09
40 53 0.42
41 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTA
Found at i:22459007 original size:20 final size:20
Alignment explanation
Indices: 22458995--22459066 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
22458985 CAGGGGTATT
22458995 GAAGTACAAACAGGAGTACC
1 GAAGTACAAACAGGAGTACC
*
22459015 GAAGTACAAATAAGG-GTACC
1 GAAGTACAAA-CAGGAGTACC
* *
22459035 AAAGTACAAATA-GAGGTACC
1 GAAGTACAAACAGGA-GTACC
*
22459055 GAAATACAAACA
1 GAAGTACAAACA
22459067 ATGTAACACC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 38 0.88
21 3 0.07
ACGTcount: A:0.50, C:0.17, G:0.21, T:0.12
Consensus pattern (20 bp):
GAAGTACAAACAGGAGTACC
Found at i:22468633 original size:18 final size:18
Alignment explanation
Indices: 22468610--22468645 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22468600 GGAGGAGTAT
22468610 TTGCCATTAGCAAAGTTC
1 TTGCCATTAGCAAAGTTC
*
22468628 TTGCCATTAGCAGAGTTC
1 TTGCCATTAGCAAAGTTC
22468646 GCTTACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (18 bp):
TTGCCATTAGCAAAGTTC
Found at i:22481246 original size:61 final size:61
Alignment explanation
Indices: 22481174--22481297 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
22481164 TGACAGAGAA
22481174 TAAAGTAAGAAAATAATCTAATAAACCAATGAGAGAGACAATACCCAAGAAAGAATCCACC
1 TAAAGTAAGAAAATAATCTAATAAACCAATGAGAGAGACAATACCCAAGAAAGAATCCACC
*
22481235 TAAAGTAAGAAAATAATCTAATAAACCAATGAGAGAGATAATACCCAAGAAAGAATCCACC
1 TAAAGTAAGAAAATAATCTAATAAACCAATGAGAGAGACAATACCCAAGAAAGAATCCACC
22481296 TA
1 TA
22481298 GACTTCACCT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.54, C:0.17, G:0.13, T:0.16
Consensus pattern (61 bp):
TAAAGTAAGAAAATAATCTAATAAACCAATGAGAGAGACAATACCCAAGAAAGAATCCACC
Found at i:22484251 original size:27 final size:27
Alignment explanation
Indices: 22484218--22484611 Score: 452
Period size: 27 Copynumber: 14.6 Consensus size: 27
22484208 AAAGTACTCC
22484218 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
22484245 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* * **
22484272 CGATTTGTAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
22484299 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
22484326 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
22484353 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
22484380 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
22484407 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTATAGAATTACCGTTTTACCCT
* * * * *
22484433 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTATAGAATTACCGTTTTACCCT
* * *
22484461 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
22484488 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
22484515 CGATTTATAGTATTTCCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
22484542 CGATTTATAGAATTGCTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
22484569 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
22484596 CGATTTACAAAATTAC
1 CGATTTATAGAATTAC
22484612 TAAAATACCC
Statistics
Matches: 320, Mismatches: 41, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.01
27 314 0.98
28 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:22484620 original size:27 final size:27
Alignment explanation
Indices: 22484563--22484622 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
22484553 ATTGCTGTTT
* * ****
22484563 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
22484590 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
22484617 TACCCT
1 TACCCT
22484623 TGGTTTGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:22485880 original size:25 final size:25
Alignment explanation
Indices: 22485852--22485899 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22485842 TTATACCATG
* * *
22485852 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22485877 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22485900 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22485983 original size:11 final size:11
Alignment explanation
Indices: 22485947--22486002 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
22485937 TATGGTATGT
22485947 ATGATATGCAC
1 ATGATATGCAC
* *
22485958 ATGAAATG--T
1 ATGATATGCAC
22485967 ATGATATGCAC
1 ATGATATGCAC
*
22485978 ATGATATG--T
1 ATGATATGCAC
22485987 ATGATATGCAC
1 ATGATATGCAC
22485998 ATGAT
1 ATGAT
22486003 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:22486002 original size:20 final size:20
Alignment explanation
Indices: 22485942--22486002 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
22485932 ATAAATATGG
22485942 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
22485962 AATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
22485982 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
22486002 T
1 T
22486003 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:22486084 original size:24 final size:24
Alignment explanation
Indices: 22486052--22486194 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
22486042 GAGGAAGTGA
22486052 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
22486076 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
22486100 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
22486123 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
22486147 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
22486171 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22486195 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.70
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:22486145 original size:47 final size:47
Alignment explanation
Indices: 22486052--22486194 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
22486042 GAGGAAGTGA
22486052 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* *
22486100 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
22486147 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
22486195 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 42 0.49
48 34 0.40
49 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:22486168 original size:71 final size:72
Alignment explanation
Indices: 22486052--22486195 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
22486042 GAGGAAGTGA
*
22486052 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
22486115 CCAGTTAT
65 CCAGTTAT
* ** * *
22486123 AAAAGGGCTTATGCCCTAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
22486188 CAGTTAT
66 CAGTTAT
22486195 A
1 A
22486196 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:22486421 original size:31 final size:31
Alignment explanation
Indices: 22486386--22486449 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22486376 AGTTTACAGT
22486386 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
22486417 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22486448 AA
1 AA
22486450 CATGCAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22490607 original size:43 final size:42
Alignment explanation
Indices: 22490465--22490637 Score: 154
Period size: 43 Copynumber: 4.1 Consensus size: 42
22490455 AGTTATCAAG
* * * *
22490465 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGAATTGT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
* * *
22490507 ATTGAGATTACGTGTAAAACCATATCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCG-T
* * * *
22490551 AAT-TCACTT-CATGTAAGACCATGTCTAGGACAGTGGCATCGAT
1 -ATGTGA-TTACATGTAAGACCATATCTGGGACATTGGCATCG-T
* * *
22490594 ATGTGATAACATGTAAGACTATATCTGGGACA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
22490635 ATG
1 ATG
22490638 AGCTTATATG
Statistics
Matches: 104, Mismatches: 21, Indels: 13
0.75 0.15 0.09
Matches are distributed among these distances:
41 4 0.04
42 11 0.11
43 84 0.81
44 4 0.04
45 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
Found at i:22490619 original size:86 final size:85
Alignment explanation
Indices: 22490474--22490631 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 85
22490464 GATGTGATTA
* * * *
22490474 CATGTAAGACCATGTCTGAGACATTGGAATTGTATTGAGATTACGTGTAAAACCATATCTGGGAC
1 CATGTAAGACCATGTCTGAGACAGTGGAATCGTATTGAGATAACATGTAAAACCATATCTGGGAC
22490539 ATTGGCATCGTTAATTCACTT
66 A-TGGCATCGTTAATTCACTT
* * * *
22490560 CATGTAAGACCATGTCT-AGGACAGTGGCATCG-ATATGTGATAACATGTAAGACTATATCTGGG
1 CATGTAAGACCATGTCTGA-GACAGTGGAATCGTAT-TGAGATAACATGTAAAACCATATCTGGG
22490623 ACATGGCAT
64 ACATGGCAT
22490632 TGTATGAGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 9 0.15
86 53 0.85
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (85 bp):
CATGTAAGACCATGTCTGAGACAGTGGAATCGTATTGAGATAACATGTAAAACCATATCTGGGAC
ATGGCATCGTTAATTCACTT
Found at i:22492625 original size:13 final size:13
Alignment explanation
Indices: 22492607--22492635 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22492597 ATTTAAGAAA
22492607 ATATTATTATATT
1 ATATTATTATATT
22492620 ATATTATTATATT
1 ATATTATTATATT
22492633 ATA
1 ATA
22492636 GTATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:22494965 original size:25 final size:25
Alignment explanation
Indices: 22494937--22495005 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
22494927 CTGTGAACTA
*
22494937 GTATGCTCACTCAAGCTA-AAGATCG
1 GTATGCTCACACAAGCTATAA-ATCG
* *
22494962 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCACACAAGCTATAAATCG
* *
22494987 GTATGCTCATACGAGCTAT
1 GTATGCTCACACAAGCTAT
22495006 GGGTCGGGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACAAGCTATAAATCG
Found at i:22495012 original size:25 final size:25
Alignment explanation
Indices: 22494950--22495005 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
22494940 TGCTCACTCA
22494950 AGCTA-AAGATCGGTATGCTCTCACG
1 AGCTATAA-ATCGGTATGCTCTCACG
22494975 AGCTATAAATCGGTATGCTCAT-ACG
1 AGCTATAAATCGGTATGCTC-TCACG
22495000 AGCTAT
1 AGCTAT
22495006 GGGTCGGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCTATAAATCGGTATGCTCTCACG
Found at i:22508526 original size:25 final size:25
Alignment explanation
Indices: 22508479--22508526 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
22508469 TTATAATATG
* * *
22508479 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
22508504 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
22508527 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22508577 original size:9 final size:9
Alignment explanation
Indices: 22508565--22508621 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22508555 TTTGATAAAC
22508565 ATGATATGT
1 ATGATATGT
*
22508574 ATGATATGCAC
1 ATGATATG--T
*
22508585 ATGACATGT
1 ATGATATGT
*
22508594 ATGATATGCAC
1 ATGATATG--T
22508605 ATGATATGT
1 ATGATATGT
22508614 ATGATATG
1 ATGATATG
22508622 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:22508588 original size:20 final size:20
Alignment explanation
Indices: 22508563--22508625 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
22508553 ATTTTGATAA
22508563 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
22508583 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
22508603 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22508623 ACA
1 ACA
22508626 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22508758 original size:23 final size:24
Alignment explanation
Indices: 22508679--22508822 Score: 222
Period size: 24 Copynumber: 6.0 Consensus size: 24
22508669 GAGGAAGTGC
22508679 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22508703 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22508727 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22508751 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22508774 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
22508799 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22508823 ATGATAAAGC
Statistics
Matches: 113, Mismatches: 1, Indels: 11
0.90 0.01 0.09
Matches are distributed among these distances:
23 29 0.26
24 54 0.48
25 21 0.19
26 9 0.08
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:22509050 original size:31 final size:31
Alignment explanation
Indices: 22509015--22509078 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
22509005 CGGTTACAGT
22509015 AAAGGCCTCGGCCCAGTAATATGAAATATGA
1 AAAGGCCTCGGCCCAGTAATATGAAATATGA
* ** *
22509046 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCCTCGGCCCAGTAATATGAAATATGA
22509077 AA
1 AA
22509079 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCCTCGGCCCAGTAATATGAAATATGA
Found at i:22510270 original size:32 final size:32
Alignment explanation
Indices: 22510234--22510296 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
22510224 GGAGCGAGCG
*
22510234 GTGGTGGCTAGTCGGGTTGAGAGGGTGGTGCA
1 GTGGTGGCTAGTCGGGCTGAGAGGGTGGTGCA
*
22510266 GTGGTGGCTGGTCGGGCTGAGAGGGTGGTGC
1 GTGGTGGCTAGTCGGGCTGAGAGGGTGGTGC
22510297 GGGGTTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.10, C:0.11, G:0.56, T:0.24
Consensus pattern (32 bp):
GTGGTGGCTAGTCGGGCTGAGAGGGTGGTGCA
Found at i:22519291 original size:209 final size:210
Alignment explanation
Indices: 22518813--22519363 Score: 660
Period size: 209 Copynumber: 2.6 Consensus size: 210
22518803 TGTTCATGTC
* * *
22518813 TAAATTTCTTTGAGTTAGCTAATTTAATATCGCAACTCCTAAATAGCTCGC-AAGCCTACATTCA
1 TAAATTTCTTTGAGTTAGCTAATTTAATATCACAACTCCTAAACAGCTTGCTAA-CCTACATTCA
* * *
22518877 CAACTGGAACTATAAAAGTTAACTGATTTAAGATCGCAACCTAATTTTCTTTGAGTTA-ATTGAT
65 CAACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAACCTAAATTTCTTTGAGTTAGA-TGAT
* * *
22518941 TTAATATCACAACTCCTAAACAACTCGCAAACTTACATTCACAAATGGAATTATAAAGGTTATCT
129 TTAACATCACAACTCCTAAACAACTCGCAAACCTACATTCACAAATAGAATTATAAAGGTTATCT
* * *
22519006 GATTTAAGATTGCAGCC
194 GATTTAAGATCGCAACA
* ** * *
22519023 TAAATTTCGTTGAGTTAGCCGATTTAATATCACAACTCCTAAACAGCTTGTTGACCTACATTCAC
1 TAAATTTCTTTGAGTTAGCTAATTTAATATCACAACTCCTAAACAGCTTGCTAACCTACATTCAC
** * ** * *
22519088 GGCTAGAATTATAAAGGTTAGTTGATTTAAGATTGCAACCTAAACTTCTTTGAGTTAGATGATTT
66 AACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAACCTAAATTTCTTTGAGTTAGATGATTT
** * * ** * **
22519153 AACATTGCAACTCCTAAA-AGCTCTCTGACCTACGTTCACAGTTAGAATTATAAAGGTTAGT-TG
131 AACATCACAACTCCTAAACAACTCGCAAACCTACATTCACAAATAGAATTATAAAGGTTA-TCTG
22519216 ATTTAAGATCGCAACA
195 ATTTAAGATCGCAACA
** * * *
22519232 TAAATTTCTTTGAGTTAATTAATTCAAGATCACAACTCCTAAACAGTTTGCTAACCTACATTCAC
1 TAAATTTCTTTGAGTTAGCTAATTTAATATCACAACTCCTAAACAGCTTGCTAACCTACATTCAC
* * * * *
22519297 ACCTGGAATTATAAAGGTTAACTGATTTAATATCACAACCTAAATTTCTTTAAGTTAGCTGATTT
66 AACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAACCTAAATTTCTTTGAGTTAGATGATTT
22519362 AA
131 AA
22519364 GATAAACAAT
Statistics
Matches: 284, Mismatches: 54, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
209 158 0.56
210 124 0.44
211 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (210 bp):
TAAATTTCTTTGAGTTAGCTAATTTAATATCACAACTCCTAAACAGCTTGCTAACCTACATTCAC
AACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAACCTAAATTTCTTTGAGTTAGATGATTT
AACATCACAACTCCTAAACAACTCGCAAACCTACATTCACAAATAGAATTATAAAGGTTATCTGA
TTTAAGATCGCAACA
Found at i:22519366 original size:105 final size:105
Alignment explanation
Indices: 22518812--22519363 Score: 615
Period size: 105 Copynumber: 5.3 Consensus size: 105
22518802 ATGTTCATGT
* * * *
22518812 CTAAATTTCTTTGAGTTAGCTAATTTAATATCGCAACTCCTAAATAGCTCGC-AAGCCTACATTC
1 CTAAATTTCTTTGAGTTAGCTGATTTAATATCACAACTCCTAAACAGCTTGCTAA-CCTACATTC
* *
22518876 ACAACTGGAACTATAAAAGTTAACTGATTTAAGATCGCAAC
65 ACAACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAAC
* ** * * * *
22518917 CTAATTTTCTTTGAGTTAATTGATTTAATATCACAACTCCTAAACAACTCGCAAACTTACATTCA
1 CTAAATTTCTTTGAGTTAGCTGATTTAATATCACAACTCCTAAACAGCTTGCTAACCTACATTCA
* * * *
22518982 CAAATGGAATTATAAAGGTTATCTGATTTAAGATTGCAGC
66 CAACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAAC
* * * *
22519022 CTAAATTTCGTTGAGTTAGCCGATTTAATATCACAACTCCTAAACAGCTTGTTGACCTACATTCA
1 CTAAATTTCTTTGAGTTAGCTGATTTAATATCACAACTCCTAAACAGCTTGCTAACCTACATTCA
** * ** *
22519087 CGGCTAGAATTATAAAGGTTAGTTGATTTAAGATTGCAAC
66 CAACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAAC
* * * ** * *
22519127 CTAAACTTCTTTGAGTTAGATGATTTAACATTGCAACTCCTAAA-AGCTCT-CTGACCTACGTTC
1 CTAAATTTCTTTGAGTTAGCTGATTTAATATCACAACTCCTAAACAGCT-TGCTAACCTACATTC
** * **
22519190 ACAGTTAGAATTATAAAGGTTAGTTGATTTAAGATCGCAAC
65 ACAACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAAC
* ** * * * *
22519231 ATAAATTTCTTTGAGTTAATTAATTCAAGATCACAACTCCTAAACAGTTTGCTAACCTACATTCA
1 CTAAATTTCTTTGAGTTAGCTGATTTAATATCACAACTCCTAAACAGCTTGCTAACCTACATTCA
* * *
22519296 CACCTGGAATTATAAAGGTTAACTGATTTAATATCACAAC
66 CAACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAAC
*
22519336 CTAAATTTCTTTAAGTTAGCTGATTTAA
1 CTAAATTTCTTTGAGTTAGCTGATTTAA
22519364 GATAAACAAT
Statistics
Matches: 374, Mismatches: 69, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
104 89 0.24
105 283 0.76
106 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (105 bp):
CTAAATTTCTTTGAGTTAGCTGATTTAATATCACAACTCCTAAACAGCTTGCTAACCTACATTCA
CAACTGGAATTATAAAGGTTAACTGATTTAAGATCGCAAC
Found at i:22529477 original size:35 final size:35
Alignment explanation
Indices: 22529438--22529507 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
22529428 TTTCATACAG
*
22529438 ACAAAACACAGAACTCATGTTTGAAATTATACTTA
1 ACAAAACACAGAACTAATGTTTGAAATTATACTTA
22529473 ACAAAACACAGAACTAATGTTTGAAATTATACTTA
1 ACAAAACACAGAACTAATGTTTGAAATTATACTTA
22529508 GCTTATACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (35 bp):
ACAAAACACAGAACTAATGTTTGAAATTATACTTA
Found at i:22529884 original size:100 final size:100
Alignment explanation
Indices: 22529711--22529910 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
22529701 AAAAAAAAGA
*
22529711 AAAAAAGAAATTGATATATAAAAGAATTCATATGGTTAATATTCTTTCCACTATCAAGAGTAATA
1 AAAAAAGAAATTGATATACAAAAGAATTCATATGGTTAATATTCTTTCCACTATCAAGAGTAATA
22529776 GTAAATATGAAGCAATATAGTAGACCTCTCTTGCG
66 GTAAATATGAAGCAATATAGTAGACCTCTCTTGCG
22529811 AAAAAAGAAATTGATATACAAAAGAATTCATATGGTTAATATTCTTTCCACTATCAAGAGTAATA
1 AAAAAAGAAATTGATATACAAAAGAATTCATATGGTTAATATTCTTTCCACTATCAAGAGTAATA
22529876 GTAAATATGAAGCAATATAGTAGACCTCTCTTGCG
66 GTAAATATGAAGCAATATAGTAGACCTCTCTTGCG
22529911 GAACCAGCAG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (100 bp):
AAAAAAGAAATTGATATACAAAAGAATTCATATGGTTAATATTCTTTCCACTATCAAGAGTAATA
GTAAATATGAAGCAATATAGTAGACCTCTCTTGCG
Found at i:22532564 original size:16 final size:18
Alignment explanation
Indices: 22532539--22532581 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
22532529 AATTTCTTCA
22532539 AAAAATATT-AT-TAAATT
1 AAAAATATTAATGTAAA-T
22532556 AAAAA-ATTAATGTAAAT
1 AAAAATATTAATGTAAAT
22532573 AAAAATATT
1 AAAAATATT
22532582 TAACTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 13 0.57
18 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATATTAATGTAAAT
Found at i:22532713 original size:36 final size:36
Alignment explanation
Indices: 22532673--22532748 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
22532663 GTATAAATAT
* *
22532673 TAATATTAATACATTATAGTTTAAAACTATTATTAA
1 TAATATTAATACATTATAATTTAAAAATATTATTAA
*
22532709 TAATATTAATATATTATAATTTAAAAATATTATTAA
1 TAATATTAATACATTATAATTTAAAAATATTATTAA
22532745 TAAT
1 TAAT
22532749 TTCTTACAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (36 bp):
TAATATTAATACATTATAATTTAAAAATATTATTAA
Found at i:22542859 original size:26 final size:26
Alignment explanation
Indices: 22542830--22542880 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
22542820 TTATTCAAAT
* *
22542830 TATTATTTATTCTAACTTGTTTTATG
1 TATTATTTATTCAAAATTGTTTTATG
*
22542856 TATTGTTTATTCAAAATTGTTTTAT
1 TATTATTTATTCAAAATTGTTTTAT
22542881 TATGTATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (26 bp):
TATTATTTATTCAAAATTGTTTTATG
Found at i:22542907 original size:2 final size:2
Alignment explanation
Indices: 22542900--22542943 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
22542890 TAAATGACCT
*
22542900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22542942 TA
1 TA
22542944 AATCCACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22543462 original size:25 final size:25
Alignment explanation
Indices: 22543421--22543480 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 25
22543411 TGTAATATAG
* *
22543421 ATTTTAAAACTCTTTTA-CATTATTT
1 ATTTT-AAACTCCTTTAGCATTATTC
*
22543446 ATTTTAAACTCGCTTTATGTATTATTC
1 ATTTTAAACTC-CTTTA-GCATTATTC
22543473 ATTTTAAA
1 ATTTTAAA
22543481 TTGTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.21
25 9 0.31
27 14 0.48
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (25 bp):
ATTTTAAACTCCTTTAGCATTATTC
Found at i:22547424 original size:24 final size:24
Alignment explanation
Indices: 22547397--22547447 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
22547387 AAGAGAATGA
*
22547397 AAAAAAAGA-AAAAAAAAAGAAATT
1 AAAAAAACATAAAAAAAAA-AAATT
* *
22547421 AAAAGAACATAAAAGAAAAAAATT
1 AAAAAAACATAAAAAAAAAAAATT
22547445 AAA
1 AAA
22547448 TTGCTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (24 bp):
AAAAAAACATAAAAAAAAAAAATT
Found at i:22547713 original size:38 final size:38
Alignment explanation
Indices: 22547654--22547731 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
22547644 TAATCTGAAG
* *
22547654 TAAACAAAAGTGACAATTTTGATAATTTACCCAAGATA
1 TAAACAAAAGTAACAACTTTGATAATTTACCCAAGATA
* * * *
22547692 TAAACAAAAGTAACTACTTTGATAGTTTATCCAATATA
1 TAAACAAAAGTAACAACTTTGATAATTTACCCAAGATA
22547730 TA
1 TA
22547732 TACTACAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (38 bp):
TAAACAAAAGTAACAACTTTGATAATTTACCCAAGATA
Found at i:22554450 original size:40 final size:40
Alignment explanation
Indices: 22554405--22554484 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
22554395 ATTCACTACT
22554405 TTTATTTATAGGAATTTAGTCGCTCTACTTTTTAAATTAA
1 TTTATTTATAGGAATTTAGTCGCTCTACTTTTTAAATTAA
* *
22554445 TTTATTTATAGGGATTTAGTTGCTCTACTTTTTAAATTAA
1 TTTATTTATAGGAATTTAGTCGCTCTACTTTTTAAATTAA
22554485 AAAAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (40 bp):
TTTATTTATAGGAATTTAGTCGCTCTACTTTTTAAATTAA
Found at i:22556193 original size:19 final size:20
Alignment explanation
Indices: 22556164--22556202 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
22556154 TTCAAAATCT
*
22556164 AGGTATAGGTATCGATACCA
1 AGGTATAGGTACCGATACCA
22556184 AGGT-TAGGTACCGATACCA
1 AGGTATAGGTACCGATACCA
22556203 TTACTAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (20 bp):
AGGTATAGGTACCGATACCA
Found at i:22560222 original size:17 final size:17
Alignment explanation
Indices: 22560197--22560231 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22560187 AAAATATTAC
22560197 TATTATATTAGTTAAGT
1 TATTATATTAGTTAAGT
* *
22560214 TATTCTATTAGTTTAGT
1 TATTATATTAGTTAAGT
22560231 T
1 T
22560232 GTAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (17 bp):
TATTATATTAGTTAAGT
Found at i:22562468 original size:15 final size:15
Alignment explanation
Indices: 22562448--22562479 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
22562438 AAGTCAGCTC
22562448 AAGCCTATTGGGCCT
1 AAGCCTATTGGGCCT
22562463 AAGCCTATTGGGCCT
1 AAGCCTATTGGGCCT
22562478 AA
1 AA
22562480 ACCCATTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (15 bp):
AAGCCTATTGGGCCT
Found at i:22562903 original size:26 final size:26
Alignment explanation
Indices: 22562874--22562926 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
22562864 TCAAACATGC
*
22562874 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
22562900 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
22562926 A
1 A
22562927 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:22564434 original size:26 final size:26
Alignment explanation
Indices: 22564398--22564507 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
22564388 CATGAAATTC
22564398 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
22564424 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
22564450 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
22564476 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
22564502 TTATCA
1 TTATCA
22564508 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:22566962 original size:20 final size:20
Alignment explanation
Indices: 22566933--22566971 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22566923 TGGAGTAGGA
* *
22566933 ATATCGATACCTTAGGAAAT
1 ATATCAATACCTTAAGAAAT
22566953 ATATCAATACCTTAAGAAA
1 ATATCAATACCTTAAGAAA
22566972 AGTATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (20 bp):
ATATCAATACCTTAAGAAAT
Found at i:22567092 original size:21 final size:21
Alignment explanation
Indices: 22567033--22567081 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
22567023 GATATATTGT
22567033 AAAA-TATCGATACTTAGACA
1 AAAAGTATCGATACTTAGACA
22567053 AAAAGTATCGATACTTAGACA
1 AAAAGTATCGATACTTAGACA
22567074 AAAAGTAT
1 AAAAGTAT
22567082 TTATTTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (21 bp):
AAAAGTATCGATACTTAGACA
Found at i:22572076 original size:54 final size:54
Alignment explanation
Indices: 22571999--22572120 Score: 210
Period size: 54 Copynumber: 2.3 Consensus size: 54
22571989 CGTTTGTGAA
* * *
22571999 CCTATAATATTATG-AAAACCCATATTGCATGCAGACATGTGTCATATACGAAC
1 CCTATTATTTTATGCAAAACCCATATTGCATGCAAACATGTGTCATATACGAAC
22572052 CCTATTATTTTATGCAAAACCCATATTGCATGCAAACATGTGTCATATACGAAC
1 CCTATTATTTTATGCAAAACCCATATTGCATGCAAACATGTGTCATATACGAAC
22572106 CCTATTATTTTATGC
1 CCTATTATTTTATGC
22572121 TTGATGTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 12 0.18
54 53 0.82
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (54 bp):
CCTATTATTTTATGCAAAACCCATATTGCATGCAAACATGTGTCATATACGAAC
Found at i:22572621 original size:14 final size:14
Alignment explanation
Indices: 22572602--22572631 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22572592 GCAAACCCAT
*
22572602 TTATATGCGAATTG
1 TTATATGCGAACTG
22572616 TTATATGCGAACTG
1 TTATATGCGAACTG
22572630 TT
1 TT
22572632 TGTATGAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (14 bp):
TTATATGCGAACTG
Found at i:22585505 original size:44 final size:44
Alignment explanation
Indices: 22585446--22585631 Score: 212
Period size: 44 Copynumber: 4.2 Consensus size: 44
22585436 ACAAACTTGT
* * *
22585446 CTTATCAGAAGGGTTGAGGAACATAAGATATGTTCTCA-CCCACA
1 CTTATCAGAACGGTTGAGGAACATAAGATATGTTC-AAGACCACA
*
22585490 CTTACCAGAACGGTTGAGGAACATAAGATATGTTCAAGACCACA
1 CTTATCAGAACGGTTGAGGAACATAAGATATGTTCAAGACCACA
* * * * *
22585534 CTTATCAGAACAGATGAGGAACACAAGATATGTTCAAGTCTACA
1 CTTATCAGAACGGTTGAGGAACATAAGATATGTTCAAGACCACA
* * * ** * *
22585578 CTTATCAGAATGGCTGAGGAACACAAGGCATGTTTAAGCCCACA
1 CTTATCAGAACGGTTGAGGAACATAAGATATGTTCAAGACCACA
22585622 CTTATCAGAA
1 CTTATCAGAA
22585632 ATTTGTCTCG
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
43 1 0.01
44 122 0.99
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (44 bp):
CTTATCAGAACGGTTGAGGAACATAAGATATGTTCAAGACCACA
Found at i:22589955 original size:14 final size:14
Alignment explanation
Indices: 22589936--22589963 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22589926 CTACTAATCC
22589936 CGAACTTTTTCCTT
1 CGAACTTTTTCCTT
22589950 CGAACTTTTTCCTT
1 CGAACTTTTTCCTT
22589964 TCCTTGATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (14 bp):
CGAACTTTTTCCTT
Found at i:22598198 original size:39 final size:38
Alignment explanation
Indices: 22598150--22598284 Score: 121
Period size: 38 Copynumber: 3.5 Consensus size: 38
22598140 TTAGCAAAGA
* *
22598150 GAAAGGGACGGTGGGAGAGAAGGACAGGGTTAAAGTAGAG
1 GAAA-GGACGATGGG-GAGAAGGACAGGGTCAAAGTAGAG
* * * *
22598190 GAAAGGACGATGGGGAGAGGGAGAGGGTCGAAGTAGGG
1 GAAAGGACGATGGGGAGAAGGACAGGGTCAAAGTAGAG
* * * *
22598228 GGAAGGACGATGAGGGAGACA-GAGAGGATCAAAGTAGGGG
1 GAAAGGACGATG-GGGAGA-AGGACAGGGTCAAAGTA-GAG
22598268 GAAA-GACGATGGGGAGA
1 GAAAGGACGATGGGGAGA
22598285 GGGAGAAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 36 0.44
39 35 0.43
40 10 0.12
ACGTcount: A:0.36, C:0.06, G:0.50, T:0.08
Consensus pattern (38 bp):
GAAAGGACGATGGGGAGAAGGACAGGGTCAAAGTAGAG
Found at i:22598234 original size:38 final size:38
Alignment explanation
Indices: 22598155--22598290 Score: 155
Period size: 39 Copynumber: 3.5 Consensus size: 38
22598145 AAAGAGAAAG
* * * * * *
22598155 GGACGGTGGGAGAGAAGGACAGGGTTAAAGTAGAGGAAA
1 GGACGATGGG-GAGAGGGAGAGGGTCAAAGTAGGGGGAA
*
22598194 GGACGATGGGGAGAGGGAGAGGGTCGAAGTAGGGGGAA
1 GGACGATGGGGAGAGGGAGAGGGTCAAAGTAGGGGGAA
** *
22598232 GGACGATGAGGGAGACAGAGAGGATCAAAGTAGGGGGAA
1 GGACGATG-GGGAGAGGGAGAGGGTCAAAGTAGGGGGAA
*
22598271 AGACGATGGGGAGAGGGAGA
1 GGACGATGGGGAGAGGGAGA
22598291 AAATCGGAGT
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
38 40 0.49
39 42 0.51
ACGTcount: A:0.35, C:0.06, G:0.51, T:0.08
Consensus pattern (38 bp):
GGACGATGGGGAGAGGGAGAGGGTCAAAGTAGGGGGAA
Found at i:22598302 original size:38 final size:38
Alignment explanation
Indices: 22598189--22598307 Score: 148
Period size: 39 Copynumber: 3.1 Consensus size: 38
22598179 TTAAAGTAGA
*
22598189 GGAAAGGACGATGGGGAGAGGGAGAGGGTCGAAGTAGGG
1 GGAAA-GACGATGGGGAGAGGGAGAGGATCGAAGTAGGG
* ** *
22598228 GGAAGGACGATGAGGGAGACAGAGAGGATCAAAGTAGGG
1 GGAAAGACGATG-GGGAGAGGGAGAGGATCGAAGTAGGG
** *
22598267 GGAAAGACGATGGGGAGAGGGAGAAAATCGGAGTAGGG
1 GGAAAGACGATGGGGAGAGGGAGAGGATCGAAGTAGGG
22598305 GGA
1 GGA
22598308 TGATGGGAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
38 30 0.45
39 37 0.55
ACGTcount: A:0.35, C:0.06, G:0.51, T:0.08
Consensus pattern (38 bp):
GGAAAGACGATGGGGAGAGGGAGAGGATCGAAGTAGGG
Found at i:22604455 original size:1 final size:1
Alignment explanation
Indices: 22604449--22604473 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
22604439 AAGTCTCTGC
22604449 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
22604474 CAAAGCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22609873 original size:14 final size:14
Alignment explanation
Indices: 22609854--22609887 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22609844 AGAAATTAAG
22609854 ATGTTGTTCATTAC
1 ATGTTGTTCATTAC
* *
22609868 ATGTTGTTTATTGC
1 ATGTTGTTCATTAC
22609882 ATGTTG
1 ATGTTG
22609888 AAAGAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
ATGTTGTTCATTAC
Found at i:22610084 original size:20 final size:21
Alignment explanation
Indices: 22610052--22610108 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
22610042 AATATAATGC
22610052 AAAA-AAA-TAATTTACAT-A
1 AAAATAAAGTAATTTACATAA
22610070 AAAATAAAGTAATTTACATAA
1 AAAATAAAGTAATTTACATAA
22610091 AAAATAAAGTAATTTACA
1 AAAATAAAGTAATTTACA
22610109 ATACAAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 10 0.28
21 19 0.53
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATAAAGTAATTTACATAA
Found at i:22612434 original size:17 final size:16
Alignment explanation
Indices: 22612412--22612458 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
22612402 CAAAATTTAT
22612412 CAAATAATTCTAAATTA
1 CAAATAATT-TAAATTA
*
22612429 CAAATAATTTAATTTTA
1 CAAATAATTTAA-ATTA
22612446 -AAATAATTATAAA
1 CAAATAATT-TAAA
22612459 AATTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
CAAATAATTTAAATTA
Found at i:22612479 original size:3 final size:3
Alignment explanation
Indices: 22612471--22612505 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
22612461 TTTACTAACT
22612471 TTC TTC TTC TTC TTC TTTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TT
22612506 TTTTTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:22612490 original size:16 final size:16
Alignment explanation
Indices: 22612469--22612500 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22612459 AATTTACTAA
22612469 CTTTCTTCTTCTTCTT
1 CTTTCTTCTTCTTCTT
22612485 CTTTCTTCTTCTTCTT
1 CTTTCTTCTTCTTCTT
22612501 TTCTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTTTCTTCTTCTTCTT
Found at i:22612492 original size:13 final size:13
Alignment explanation
Indices: 22612474--22612501 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22612464 ACTAACTTTC
22612474 TTCTTCTTCTTCT
1 TTCTTCTTCTTCT
22612487 TTCTTCTTCTTCT
1 TTCTTCTTCTTCT
22612500 TT
1 TT
22612502 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTCTTCTTCT
Found at i:22612765 original size:3 final size:3
Alignment explanation
Indices: 22612757--22612791 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
22612747 TTTTTAAAAT
22612757 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22612792 TTAGAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22619718 original size:30 final size:32
Alignment explanation
Indices: 22619675--22619758 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 32
22619665 AATAGTCCAT
* * *
22619675 ATTTTTGTAATTTTT-AAACCATTAAATTA-A
1 ATTTTTATTATTTTTAAAACCATTAAAGTATA
**
22619705 ATTTTTATTATTTTTAAAAGGATTAAAGTATA
1 ATTTTTATTATTTTTAAAACCATTAAAGTATA
22619737 ATTTATTATTATTAATTTAAAA
1 ATTT-TTATTATT--TTTAAAA
22619759 TTTTATAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 13 0.30
31 11 0.25
32 5 0.11
33 8 0.18
35 7 0.16
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTTTTATTATTTTTAAAACCATTAAAGTATA
Found at i:22621890 original size:31 final size:31
Alignment explanation
Indices: 22621855--22621914 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
22621845 TGATTATTGG
22621855 ACTATTCAAAAGTTTTCATTTAAGTCATTAA
1 ACTATTCAAAAGTTTTCATTTAAGTCATTAA
** *
22621886 ACTATTTGAAAGTTTTTATTTAAGTCATT
1 ACTATTCAAAAGTTTTCATTTAAGTCATT
22621915 GGATTGCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (31 bp):
ACTATTCAAAAGTTTTCATTTAAGTCATTAA
Found at i:22623510 original size:96 final size:96
Alignment explanation
Indices: 22623334--22623524 Score: 310
Period size: 96 Copynumber: 2.0 Consensus size: 96
22623324 AGTAAACTTC
* *
22623334 TCAAAAATATTTGTATATGAACTTCCAAGCCATGCTCTATAAGACATCCCAAAAGTGGAACAACC
1 TCAAAAATATTCGTATATGAACTTCCAAGCCATGCTCTATAACACATCCCAAAAGTGGAACAACC
*
22623399 TAGGAATCTTACCATCTTTCCAAGGTTGTTT
66 TAGGAATCCTACCATCTTTCCAAGGTTGTTT
* * * *
22623430 TCAATAATATTCGTATCTGAACTTCCAAGCCATGCTCTATAACATATCCCAAAAGTGGAACAGCC
1 TCAAAAATATTCGTATATGAACTTCCAAGCCATGCTCTATAACACATCCCAAAAGTGGAACAACC
*
22623495 TAGGAATCCTGCCATCTTTCCAAGGTTGTT
66 TAGGAATCCTACCATCTTTCCAAGGTTGTT
22623525 CCCAACATAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (96 bp):
TCAAAAATATTCGTATATGAACTTCCAAGCCATGCTCTATAACACATCCCAAAAGTGGAACAACC
TAGGAATCCTACCATCTTTCCAAGGTTGTTT
Found at i:22623692 original size:45 final size:45
Alignment explanation
Indices: 22623641--22623730 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
22623631 CCTAATAAAC
*
22623641 ACTATCCCTTAATCAATTTCATATGTTCAATGGTTGTGATTTATT
1 ACTATCCCTTAATCAATTCCATATGTTCAATGGTTGTGATTTATT
*
22623686 ACTATCCTTTAATCAATTCCATATGTTCAATGGTTGTGATTTATT
1 ACTATCCCTTAATCAATTCCATATGTTCAATGGTTGTGATTTATT
22623731 GGAAGTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.47
Consensus pattern (45 bp):
ACTATCCCTTAATCAATTCCATATGTTCAATGGTTGTGATTTATT
Found at i:22630524 original size:24 final size:24
Alignment explanation
Indices: 22630492--22630569 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
22630482 CAGCTCCACC
* * *
22630492 TCCAACTCCTATGCCTCCACCAAT
1 TCCACCTCCTATACCTCCACCTAT
22630516 TCCACCTCCTATACCTCCACCTAT
1 TCCACCTCCTATACCTCCACCTAT
* *
22630540 TCCACCACCAATACCTCCACCTAT
1 TCCACCTCCTATACCTCCACCTAT
22630564 TCCACC
1 TCCACC
22630570 ACCACCTCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.24, C:0.50, G:0.01, T:0.24
Consensus pattern (24 bp):
TCCACCTCCTATACCTCCACCTAT
Found at i:22630547 original size:12 final size:12
Alignment explanation
Indices: 22630508--22630572 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
22630498 TCCTATGCCT
*
22630508 CCACCAATTCCA
1 CCACCTATTCCA
* * *
22630520 CCTCCTATACCT
1 CCACCTATTCCA
22630532 CCACCTATTCCA
1 CCACCTATTCCA
* * *
22630544 CCACCAATACCT
1 CCACCTATTCCA
22630556 CCACCTATTCCA
1 CCACCTATTCCA
22630568 CCACC
1 CCACC
22630573 ACCTCCAATT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.22
Consensus pattern (12 bp):
CCACCTATTCCA
Found at i:22630563 original size:36 final size:36
Alignment explanation
Indices: 22630499--22630572 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
22630489 ACCTCCAACT
* * * *
22630499 CCTATGCCTCCACCAATTCCACCTCCTATACCTCCA
1 CCTATGCCACCACCAATACCACCACCTATACCACCA
* * *
22630535 CCTATTCCACCACCAATACCTCCACCTATTCCACCA
1 CCTATGCCACCACCAATACCACCACCTATACCACCA
22630571 CC
1 CC
22630573 ACCTCCAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.24, C:0.51, G:0.01, T:0.23
Consensus pattern (36 bp):
CCTATGCCACCACCAATACCACCACCTATACCACCA
Found at i:22630621 original size:24 final size:24
Alignment explanation
Indices: 22630505--22630614 Score: 94
Period size: 24 Copynumber: 4.3 Consensus size: 24
22630495 AACTCCTATG
* * * *
22630505 CCTCCACCAATTCCACCTCCTATA
1 CCTCCACCTATTCCACCACCAACA
*
22630529 CCTCCACCTATTCCACCACCAATA
1 CCTCCACCTATTCCACCACCAACA
* *
22630553 CCTCCACCTATTCCACCACCACCT
1 CCTCCACCTATTCCACCACCAACA
*
22630577 CCAATTCCAATTCCTATACCACCACCAACA
1 CC---TCC-A--CCTATTCCACCACCAACA
22630607 CCTCCACC
1 CCTCCACC
22630615 AATACCAACT
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
24 46 0.65
26 1 0.01
27 6 0.08
28 1 0.01
30 17 0.24
ACGTcount: A:0.27, C:0.52, G:0.00, T:0.21
Consensus pattern (24 bp):
CCTCCACCTATTCCACCACCAACA
Found at i:22632939 original size:11 final size:11
Alignment explanation
Indices: 22632923--22632947 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22632913 AAACCATTGG
22632923 CCCCTAAGAAA
1 CCCCTAAGAAA
22632934 CCCCTAAGAAA
1 CCCCTAAGAAA
22632945 CCC
1 CCC
22632948 ATTGGAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.44, G:0.08, T:0.08
Consensus pattern (11 bp):
CCCCTAAGAAA
Found at i:22636540 original size:27 final size:28
Alignment explanation
Indices: 22636509--22636568 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
22636499 TTAATTAATT
* * *
22636509 AATAAAATTTAGTT-TTTAAATATTTTA
1 AATAAAATTTAATTATTAAAATATTTAA
22636536 AATAAAATTTAATTATTAAAATATTTAA
1 AATAAAATTTAATTATTAAAATATTTAA
22636564 AATAA
1 AATAA
22636569 GGGGAAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (28 bp):
AATAAAATTTAATTATTAAAATATTTAA
Found at i:22636954 original size:25 final size:24
Alignment explanation
Indices: 22636921--22636974 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
22636911 ATTTTGTATT
*
22636921 AATAGTTATATTAACATTAAATAA
1 AATAATTATATTAACATTAAATAA
*
22636945 ATATAATTATATTAATATTAAATAA
1 A-ATAATTATATTAACATTAAATAA
22636970 AATAA
1 AATAA
22636975 AAATCTCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AATAATTATATTAACATTAAATAA
Found at i:22639598 original size:16 final size:17
Alignment explanation
Indices: 22639572--22639607 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
22639562 TATAACATAC
22639572 TTAATGTAAATAATATT
1 TTAATGTAAATAATATT
22639589 TTAA-GTAAATAATATT
1 TTAATGTAAATAATATT
22639605 TTA
1 TTA
22639608 TGAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTAATGTAAATAATATT
Found at i:22643312 original size:41 final size:41
Alignment explanation
Indices: 22643266--22643347 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
22643256 CATTTTCTAC
22643266 CATTATACACAAATATATATCATGGGTAAAATTTTAAATTT
1 CATTATACACAAATATATATCATGGGTAAAATTTTAAATTT
22643307 CATTATACACAAATATATATCATGGGTAAAATTTTAAATTT
1 CATTATACACAAATATATATCATGGGTAAAATTTTAAATTT
22643348 TGGCAATACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (41 bp):
CATTATACACAAATATATATCATGGGTAAAATTTTAAATTT
Found at i:22644875 original size:25 final size:25
Alignment explanation
Indices: 22644847--22644919 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
22644837 TTTCTGACAC
*
22644847 TTAGCGCACATGAGCTTCCCGTTAT
1 TTAGCTCACATGAGCTTCCCGTTAT
22644872 TTAGCTCACATGAGCTTCCCGTTAT
1 TTAGCTCACATGAGCTTCCCGTTAT
* * *
22644897 TCAGCTCAGAGGAGCTTCCCGTT
1 TTAGCTCACATGAGCTTCCCGTT
22644920 TACAGCTCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.32
Consensus pattern (25 bp):
TTAGCTCACATGAGCTTCCCGTTAT
Found at i:22654174 original size:17 final size:18
Alignment explanation
Indices: 22654141--22654175 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22654131 CCATAATGTT
22654141 CGCCCATGTGAGCCCACA
1 CGCCCATGTGAGCCCACA
*
22654159 CGCCCGTGTG-GCCCACA
1 CGCCCATGTGAGCCCACA
22654176 TAGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.17, C:0.46, G:0.26, T:0.11
Consensus pattern (18 bp):
CGCCCATGTGAGCCCACA
Found at i:22656590 original size:14 final size:14
Alignment explanation
Indices: 22656573--22656641 Score: 106
Period size: 14 Copynumber: 5.1 Consensus size: 14
22656563 TTTGTATTTC
22656573 TGTATCTGTATATT
1 TGTATCTGTATATT
*
22656587 TGTATCTGTATATC
1 TGTATCTGTATATT
22656601 TGTATCTGTATATT
1 TGTATCTGTATATT
*
22656615 TGTTTCTGTATATT
1 TGTATCTGTATATT
22656629 TGTAT-T-TATATT
1 TGTATCTGTATATT
22656641 T
1 T
22656642 CTATATCTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.14
13 1 0.02
14 43 0.84
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTATCTGTATATT
Found at i:22656597 original size:28 final size:28
Alignment explanation
Indices: 22656565--22656641 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
22656555 TATCAATATT
22656565 TGTATTTCTGTATCTGTATATTTGTATC
1 TGTATTTCTGTATCTGTATATTTGTATC
* *
22656593 TGTATATCTGTATCTGTATATTTGTTTC
1 TGTATTTCTGTATCTGTATATTTGTATC
22656621 TGTATATT-TGTAT-T-TATATTT
1 TGTAT-TTCTGTATCTGTATATTT
22656642 CTATATCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 7 0.16
27 1 0.02
28 36 0.80
29 1 0.02
ACGTcount: A:0.19, C:0.08, G:0.13, T:0.60
Consensus pattern (28 bp):
TGTATTTCTGTATCTGTATATTTGTATC
Done.