Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 206 of 335
Found at i:61382573 original size:41 final size:43
Alignment explanation
Indices: 61382480--61382624 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 43
61382470 ACTCCAAAAA
*
61382480 GTCATGTTTTATAGCGGCGTTTGTGGGGAAAGCGCCA-CTAAAG
1 GTCATGTTCTATAGCGGCGTTTGTGGGGAAAGCG-CAGCTAAAG
** * *
61382523 GTCATGTTCTATAGCACCGTTTGT-TGGAAAGC-CGGCTAAAG
1 GTCATGTTCTATAGCGGCGTTTGTGGGGAAAGCGCAGCTAAAG
*
61382564 GTCATGTTCTATAGTGGCGTTTGTGGGGAAAGCGCAGCTAAAG
1 GTCATGTTCTATAGCGGCGTTTGTGGGGAAAGCGCAGCTAAAG
* *
61382607 GTAATGTTATATAGCGGC
1 GTCATGTTCTATAGCGGC
61382625 ATCTTTCCAT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.01
41 27 0.31
42 14 0.16
43 44 0.51
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
GTCATGTTCTATAGCGGCGTTTGTGGGGAAAGCGCAGCTAAAG
Found at i:61383543 original size:456 final size:444
Alignment explanation
Indices: 61382699--61383555 Score: 1383
Period size: 456 Copynumber: 1.9 Consensus size: 444
61382689 CTTGTAAAAA
*
61382699 CATGTTTTAGCTTGTTTGAATGTGTTTTCGAATGTTACTTGTGTGTGCATTGGTGTAGCATGAAA
1 CATGTTTTAGCTTGTTTGAATGTGTTTTCGAATGTTAATTGTGTGTGCATTGGTGTAGCATGAAA
* * *
61382764 TTGGTATAAGTTAGGTATTATTTGGAGGTAAAATTCATGCTTGAGAAGTTGCATTGTAGGTTTAG
66 TTGGTATAAGTTAAGTATTACTTGGAGGTAAAATTCATGCTTGAAAAGTTGCATTGTAGGTTTAG
* * *
61382829 TTTCAAGACATTAAGAACATGTCTCAAGATATTAAGAATAAAGATGACCAAATTGTGCATTTTTG
131 TTTCAAGACACTAAGAACATGTCTCAAAATATTAAGAATAAAGATGACCAAATTGTGCATTTTAG
*
61382894 GGTATAGGTCTCCAAACTTATCAAGAAAGTCTCGAGACATCATAATTCATGTCTCAAGATATAGT
196 GGTATAGGTCTCAAAACTTATCAAGAAAGTCTCGAGACATCATAATTCATGTCTCAAGATATAGT
* * *
61382959 GGCCTATGTCTCAAGAAAATAAGACATCAAAGCTAAATATGATTTGTTTTGTCTCAAGTCTCATG
261 GGCCTATGTCTCAAGAAAATAAGACACCAAAGATAAATATGATTTGTTCTGTCTCAAGTCTCA-G
* * *
61383024 ACTTGCACATATCGAAGCTAGGGATCTAAAAAAAGAGACTTGTAGGGTTTAATTCTTAAGATATG
325 ACTTGCACACATCAAAGCTAGGGATCTAAAAAAAGAGACTTGTAGGGTTTAATTCTCAAGATATG
61383089 TATTCCAATGTATAGGCCCAAAAAAACGTCATTAAAAACCTATTTTGTTATAGTG
390 TATTCCAATGTATAGGCCCAAAAAAACGTCATTAAAAACCTATTTTGTTATAGTG
*
61383144 CATGTTTTAGCTTGTTTGAATGTGTTTTTGAATGTTAATTGTGTGTGCATTGGTGTAGCATGAAA
1 CATGTTTTAGCTTGTTTGAATGTGTTTTCGAATGTTAATTGTGTGTGCATTGGTGTAGCATGAAA
*
61383209 TTGTTATAAGTTAAGTATTACTTGGAGGTAAAATTCATGCTTGAAAAGTTGCATTGTAGGTAAAG
66 TTGGTATAAGTTAAGTATTACTTGGAGGTAAAATTCATGCTTGAAAAGTTGCATTGTA-G----G
61383274 TTACCATTTAGTTTCAAGACACTAAGAACATGTCTCAAAATATTAAGAATAAAGATGACCAAATT
126 ------TTTAGTTTCAAGACACTAAGAACATGTCTCAAAATATTAAGAATAAAGATGACCAAATT
* *
61383339 GTGCATTTTAGGGTGTAGGTCTCAAAACTTATTAAGAAAGTCTCGAGACATCATAATTCATGTCT
185 GTGCATTTTAGGGTATAGGTCTCAAAACTTATCAAGAAAGTCTCGAGACATCATAATTCATGTCT
* *
61383404 CGAGATATAGTGGCCTATGTCTCAAGAAAATAAGACACCAAAGATAAATATTATTTGTTCTGTCT
250 CAAGATATAGTGGCCTATGTCTCAAGAAAATAAGACACCAAAGATAAATATGATTTGTTCTGTCT
* *
61383469 CAAGTCT-AGCAACTTGCACACATCAAAGCTAGGGATCTGAAAAAAGGGACTTGTAGGGTTTAAT
315 CAAGTCTCAG--ACTTGCACACATCAAAGCTAGGGATCTAAAAAAAGAGACTTGTAGGGTTTAAT
61383533 TCTCAAGATATGTATTCCAATGT
378 TCTCAAGATATGTATTCCAATGT
61383556 CTTAAGACAT
Statistics
Matches: 377, Mismatches: 22, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
445 117 0.31
446 1 0.00
450 1 0.00
454 1 0.00
455 1 0.00
456 256 0.68
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (444 bp):
CATGTTTTAGCTTGTTTGAATGTGTTTTCGAATGTTAATTGTGTGTGCATTGGTGTAGCATGAAA
TTGGTATAAGTTAAGTATTACTTGGAGGTAAAATTCATGCTTGAAAAGTTGCATTGTAGGTTTAG
TTTCAAGACACTAAGAACATGTCTCAAAATATTAAGAATAAAGATGACCAAATTGTGCATTTTAG
GGTATAGGTCTCAAAACTTATCAAGAAAGTCTCGAGACATCATAATTCATGTCTCAAGATATAGT
GGCCTATGTCTCAAGAAAATAAGACACCAAAGATAAATATGATTTGTTCTGTCTCAAGTCTCAGA
CTTGCACACATCAAAGCTAGGGATCTAAAAAAAGAGACTTGTAGGGTTTAATTCTCAAGATATGT
ATTCCAATGTATAGGCCCAAAAAAACGTCATTAAAAACCTATTTTGTTATAGTG
Found at i:61385717 original size:40 final size:40
Alignment explanation
Indices: 61385633--61385856 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
61385623 AACCCAAGTA
* * *
61385633 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCA-ACATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
61385671 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
61385711 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
61385754 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
61385794 CCTTTAGGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
61385834 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
61385857 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 98 0.60
43 36 0.22
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:61385771 original size:83 final size:82
Alignment explanation
Indices: 61385633--61385856 Score: 309
Period size: 83 Copynumber: 2.8 Consensus size: 82
61385623 AACCCAAGTA
* * *
61385633 CCTTCGGGATTTAG-CCGGATATAGCA--ACTCGCA-ACATGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
61385694 AGTCACTAGCACAAATG
66 AGTCACTAGCACAAATG
* *
61385711 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
61385776 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
** *
61385794 CCTTTAGGACTTAGCCCGGATATGGTCACTA---GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-CACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
61385856 T
65 T
61385857 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
78 13 0.10
79 10 0.08
80 32 0.25
82 7 0.05
83 67 0.52
84 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTCACTAGCACAAATG
Found at i:61390953 original size:2 final size:2
Alignment explanation
Indices: 61390946--61390998 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
61390936 CATTTTCCTT
61390946 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
61390988 AA AG AA AG AG A
1 AG AG AG AG AG A
61390999 TTTTAAGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61396837 original size:39 final size:39
Alignment explanation
Indices: 61396783--61396926 Score: 252
Period size: 39 Copynumber: 3.7 Consensus size: 39
61396773 GAATGTTCGA
61396783 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
61396822 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
61396861 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
61396900 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
61396927 CTTTGTGCGG
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 90 0.91
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:61400225 original size:39 final size:40
Alignment explanation
Indices: 61400167--61400373 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
61400157 CAATTGAATG
* * * *
61400167 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTA-TAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
61400206 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61400246 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61400286 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61400326 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
61400366 ATATCCGG
1 ATATCCGG
61400374 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 29 0.20
40 114 0.80
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:61408270 original size:80 final size:80
Alignment explanation
Indices: 61408132--61408339 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
61408122 CAATTGAATG
* * ** * * *
61408132 ACATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTATATCCGGGTTAAGACCCGAAGGC
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTAGTTATATCCGGGCTAACACCCGAAGGC
* *
61408196 AATTGTGCTAGT-GACT
65 AATTGTGCAACTCG-CT
* *
61408212 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAACACCCGAAGGCA
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAACACCCGAAGGCA
* *
61408277 TTTGTGCAACTCGTT
66 ATTGTGCAACTCGCT
* * *
61408292 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
61408340 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (80 bp):
ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAACACCCGAAGGCA
ATTGTGCAACTCGCT
Found at i:61408333 original size:40 final size:40
Alignment explanation
Indices: 61408134--61408339 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
61408124 ATTGAATGAC
* * ** **
61408134 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTGGTTAT
* * ** *
61408174 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTAT
* *
61408214 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
* * * *
61408254 ATCCGGGCTAACACCCGAAGGCATTTGTGCAACTCGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
*
61408294 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
61408334 ATCCGG
1 ATCCGG
61408340 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
Found at i:61411207 original size:46 final size:46
Alignment explanation
Indices: 61411072--61411247 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
61411062 TCACTTGTGT
* * * **
61411072 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAA
* * * * *
61411118 GAGCCAATGTAAGACCATGTTTAGGACATGGCATCGGCATCGAGACAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACAA
*
61411166 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACA-A
* * * * * *
61411213 -AGCCAATATAAGATATGTCTGGGATATGCCTCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
61411248 TACGAGATGT
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 56 0.54
47 25 0.24
48 23 0.22
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAA
Found at i:61414712 original size:39 final size:39
Alignment explanation
Indices: 61414657--61414794 Score: 181
Period size: 39 Copynumber: 3.5 Consensus size: 39
61414647 GGACTAAGAT
* *
61414657 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
61414696 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
61414736 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGTTAAGTC
* *
61414775 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
61414795 CGTTATATCC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 55 0.62
40 32 0.36
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:61422732 original size:40 final size:39
Alignment explanation
Indices: 61422696--61422802 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
61422686 ATATCCGGAC
*
61422696 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
61422736 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
61422775 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
61422803 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:61422803 original size:40 final size:40
Alignment explanation
Indices: 61422702--61422840 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
61422692 GGACTAAGAT
* * *
61422702 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
61422741 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
61422781 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
* *
61422821 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
61422841 CGTTATATCC
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.38
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:61422864 original size:79 final size:79
Alignment explanation
Indices: 61422701--61422866 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
61422691 CGGACTAAGA
* * *
61422701 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
61422766 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * *
61422780 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
61422843 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
61422859 TCCGAAGG
1 TCCGAAGG
61422867 TACGTGATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 40 0.56
80 32 0.44
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:61428757 original size:25 final size:25
Alignment explanation
Indices: 61428729--61428799 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
61428719 CCTCTTTAAT
**
61428729 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
61428754 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
61428779 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
61428800 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 33 0.77
26 10 0.23
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:61428854 original size:16 final size:16
Alignment explanation
Indices: 61428833--61428863 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61428823 ACCCAACCCA
*
61428833 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
61428849 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
61428864 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:61429692 original size:27 final size:27
Alignment explanation
Indices: 61429601--61429684 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
61429591 GGGCATATTC
* *
61429601 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
61429628 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
61429655 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
61429682 GTC
1 GTC
61429685 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:61429781 original size:27 final size:27
Alignment explanation
Indices: 61429724--61429946 Score: 162
Period size: 27 Copynumber: 8.3 Consensus size: 27
61429714 TTCATTCTAC
* * * * **
61429724 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAATT
61429751 AAGGGTATTTCT-GTAATTTTATAAATT
1 AAGGGTATTT-TGGTAATTTTATAAATT
*
61429778 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTATAAATT
* * * * * **
61429805 GAGGATATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTATAAATT
* * *
61429832 AATGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAATT
* * *
61429859 AGGGGTATTTTGGTAATTTTACT-GATC
1 AAGGGTATTTTGGTAATTTTA-TAAATT
* * * **
61429886 GAGGGGATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTATAAATT
* *
61429913 AAGGGTATTTTAGTAATTTTGTAAATT
1 AAGGGTATTTTGGTAATTTTATAAATT
*
61429940 GAGGGTA
1 AAGGGTA
61429947 AAACAGTAAT
Statistics
Matches: 155, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 152 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAATT
Found at i:61429783 original size:54 final size:54
Alignment explanation
Indices: 61429697--61429938 Score: 193
Period size: 54 Copynumber: 4.5 Consensus size: 54
61429687 TTTACCTAAT
* * ** * * *
61429697 AAGGGTATTTTAGTCATTTCAT-TCTACAAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTAGTAATTTTATAAAT-CAAGGGTATTTTGGTAATTTTACAAACC
* **
61429751 AAGGGTATTTCT-GTAATTTTATAAATTAAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTT-TAGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACC
* * ** * * * * *
61429805 GAGGATATTTCGGTAATTTCACAAACCAATGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTAGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACC
* * * * * **
61429859 AGGGGTATTTTGGTAATTTTACT-GATCGAGGGGATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTA-TAAATCAAGGGTATTTTGGTAATTTTACAAACC
*
61429913 AAGGGTATTTTAGTAATTTTGTAAAT
1 AAGGGTATTTTAGTAATTTTATAAAT
61429939 TGAGGGTAAA
Statistics
Matches: 146, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
53 1 0.01
54 143 0.98
55 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTTAGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACC
Found at i:61429820 original size:81 final size:81
Alignment explanation
Indices: 61429735--61429946 Score: 239
Period size: 81 Copynumber: 2.6 Consensus size: 81
61429725 AGGGTGTTTT
*
61429735 GGTAAATCTACAAACCAAGGGTATTTCT-GTAATTTTATAAATTAAGGGTATTTTGGTAATTTTA
1 GGTAAATTTACAAACCAAGGGTATTT-TAGTAATTTTATAAATTAAGGGTATTTTGGTAATTTTA
* *
61429799 CAAATTGAGGATATTTC
65 CAAATCGAGGAGATTTC
* * * * *
61429816 GGT-AATTTCACAAACCAATGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTA
1 GGTAAATTT-ACAAACCAAGGGTATTTTAGTAATTTTATAAATTAAGGGTATTTTGGTAATTTTA
** * *
61429880 CTGATCGAGGGGATTTT
65 CAAATCGAGGAGATTTC
* ** * *
61429897 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 GGTAAATTTACAAACCAAGGGTATTTTAGTAATTTTATAAATTAAGGGTA
61429947 AAACAGTAAT
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 5 0.05
81 98 0.92
82 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTAAATTTACAAACCAAGGGTATTTTAGTAATTTTATAAATTAAGGGTATTTTGGTAATTTTAC
AAATCGAGGAGATTTC
Found at i:61429954 original size:27 final size:27
Alignment explanation
Indices: 61429924--61430044 Score: 188
Period size: 27 Copynumber: 4.5 Consensus size: 27
61429914 AGGGTATTTT
* * *
61429924 AGTAATTTTGTAAATTGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
61429951 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
61429978 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
61430005 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
61430032 AGTAATTCTATAA
1 AGTAATTCTATAA
61430045 TTTGGTAATT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:61429956 original size:54 final size:54
Alignment explanation
Indices: 61429898--61430044 Score: 186
Period size: 54 Copynumber: 2.7 Consensus size: 54
61429888 GGGGATTTTG
* *** * * *
61429898 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACA
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
*
61429952 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
* * * *
61430006 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAA
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAA
61430045 TTTGGTAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:61430054 original size:16 final size:16
Alignment explanation
Indices: 61430033--61430064 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61430023 GGGTAAAACA
61430033 GTAATTCTATAATTTG
1 GTAATTCTATAATTTG
*
61430049 GTAATTTTATAATTTG
1 GTAATTCTATAATTTG
61430065 AGGGCATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (16 bp):
GTAATTCTATAATTTG
Found at i:61432713 original size:40 final size:41
Alignment explanation
Indices: 61432658--61432751 Score: 140
Period size: 40 Copynumber: 2.3 Consensus size: 41
61432648 CGACAAAGAT
*
61432658 TGGCACTAAGTGTGCG-GTTTAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGAG-TTAACATAGCTTCGGCTATATAA
*
61432698 TGGCACTAAGTGTGCGAGTTAGCATAGCTTCGGCTATATAA
1 TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTATATAA
61432739 -GGCACTAAGTGTG
1 TGGCACTAAGTGTG
61432752 TGATACCAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
40 47 0.94
41 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTATATAA
Found at i:61438019 original size:62 final size:62
Alignment explanation
Indices: 61437846--61438021 Score: 180
Period size: 62 Copynumber: 2.8 Consensus size: 62
61437836 TAGTTCGGCT
* * * * *
61437846 CTCTTGTAC-ACATGGTGAACACTTAGTACCA-CCATG-GACCTAGCCA-ATTTATCTCGTAG
1 CTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTAG
* * * * *
61437905 CTCTTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCCGTA
1 CTC-TTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
61437970 G
62 G
*
61437971 CTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 CTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT
61438022 CATAATGTCT
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
59 4 0.04
60 12 0.13
62 28 0.30
63 9 0.10
64 4 0.04
65 23 0.24
66 14 0.15
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (62 bp):
CTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTAG
Found at i:61442255 original size:40 final size:40
Alignment explanation
Indices: 61442200--61442386 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
61442190 ATAACCACAA
* *
61442200 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
61442240 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
61442280 ACACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
61442320 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
61442360 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
61442387 GTATCATTCA
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 9 0.07
40 123 0.92
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:61442317 original size:80 final size:79
Alignment explanation
Indices: 61442180--61442386 Score: 303
Period size: 80 Copynumber: 2.6 Consensus size: 79
61442170 ACTTAAGAAT
* * *
61442180 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
61442244 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
61442259 TTAGCCCGGATATAACAACTCA-CACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCA
1 TTAGCCCGGATATAAC-ACT-AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCA
61442323 CAAATGCCTTCGGGTC
64 CAAATGCCTTCGGGTC
* * *
61442339 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGG
61442387 GTATCATTCA
Statistics
Matches: 117, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
79 15 0.13
80 100 0.85
81 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:61451630 original size:40 final size:40
Alignment explanation
Indices: 61451572--61451773 Score: 237
Period size: 40 Copynumber: 5.0 Consensus size: 40
61451562 TGAATGATAC
* *
61451572 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* *
61451612 CCAGGCTAAGACCCGAAGGCATTCGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
* * *
61451652 CCGGGCTAAGACCTGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
61451692 CCGGGCTAAGACCCGAAGGCATTAGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
61451732 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
61451772 CC
1 CC
61451774 AGCTAAATTC
Statistics
Matches: 140, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 137 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:61451769 original size:80 final size:80
Alignment explanation
Indices: 61451568--61451779 Score: 275
Period size: 80 Copynumber: 2.7 Consensus size: 80
61451558 CATTTGAATG
* * * *
61451568 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCAGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCAGGCTAAGACCCGAAGGCA
* * *
61451633 TTCGTGTGAGTTGTT
66 TTAGTGCGAGTTGCT
* * * * *
61451648 ATATCCGGGCTAAGACCTGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCAGGCTAAGACCCGAAGGC
61451712 ATTAGTGCGAGTTGCT
65 ATTAGTGCGAGTTGCT
* *
61451728 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCA-GCTAA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCAGGCTAA
61451780 ATTCCGAAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 7 0.06
80 101 0.91
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCAGGCTAAGACCCGAAGGCA
TTAGTGCGAGTTGCT
Found at i:61452003 original size:24 final size:24
Alignment explanation
Indices: 61451969--61452034 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
61451959 TGTGTGTGTT
* *
61451969 TATGATGATGA-AGTGTGAAGTAA
1 TATGATTATGAGAATGTGAAGTAA
* *
61451992 GTATGATTATGAGAATGTGTATTAA
1 -TATGATTATGAGAATGTGAAGTAA
61452017 TATGATTATGAGAATGTG
1 TATGATTATGAGAATGTG
61452035 TATTAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 28 0.76
25 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGATTATGAGAATGTGAAGTAA
Found at i:61452035 original size:24 final size:24
Alignment explanation
Indices: 61451993--61452042 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
61451983 GTGAAGTAAG
61451993 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
61452017 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
61452041 TA
1 TA
61452043 AAGTGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATTATGAGAATGTGTATTAA
Found at i:61453841 original size:40 final size:40
Alignment explanation
Indices: 61453786--61453967 Score: 251
Period size: 40 Copynumber: 4.5 Consensus size: 40
61453776 ATAACCACAA
* * *
61453786 GCACAATTGCCTTCGGGTCTTAACCC-AAGTATAGCAACTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGA-TATAGCAACTC
* *
61453826 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
61453866 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
61453906 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
61453946 GCATAAATGCCTTCGGGGCTTA
1 GCACAAATGCCTTCGGGTCTTA
61453968 GCCTGGGTAT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
40 126 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:61453903 original size:80 final size:79
Alignment explanation
Indices: 61453766--61453967 Score: 282
Period size: 80 Copynumber: 2.5 Consensus size: 79
61453756 TCTTTGGAAT
* * *
61453766 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCAAGTATAGCAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCAAGTATAGCAACTCGCAC
61453830 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
61453845 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCC-GGATATAGCAACTCGCA
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCAAG-TATAGCAACTCGCA
61453909 CAAATGCCTTCGGGTC
64 CAAATGCCTTCGGGTC
* * *
61453925 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTA
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTA
61453968 GCCTGGGTAT
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
79 6 0.05
80 103 0.94
81 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCAAGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:61458118 original size:30 final size:30
Alignment explanation
Indices: 61458084--61458144 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61458074 TCCTTATCTC
61458084 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61458114 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61458144 A
1 A
61458145 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:61464644 original size:40 final size:40
Alignment explanation
Indices: 61464600--61464726 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
61464590 TCGTTCAAAC
* * *
61464600 GCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCGTAAAT
1 GCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCATAAAT
61464640 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
*
61464680 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
61464720 GCCTTCG
1 GCCTTCG
61464727 AATCTTAGTC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
Found at i:61464740 original size:40 final size:40
Alignment explanation
Indices: 61464595--61464780 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
61464585 GCTACTCGTT
* * * *
61464595 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
61464635 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
61464675 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * *
61464715 CAAATGCCTTC-GAATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
61464756 CAAA-GCCTTCGCGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61464781 CATCATTCGA
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 114 0.90
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61471028 original size:40 final size:39
Alignment explanation
Indices: 61470971--61471195 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 39
61470961 TCAAATGATG
* *
61470971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGTTACTAAA
* *
61471011 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTTACTAAA
* *
61471051 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTTACTAAA
* * *
61471091 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTTACTAAA
* *
61471130 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACTA-AA
*
61471171 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
61471196 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:61471131 original size:79 final size:80
Alignment explanation
Indices: 61470971--61471193 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 80
61470961 TCAAATGATG
* * *
61470971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
61471035 TGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
*
61471051 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
61471113 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
* * * * *
61471130 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
61471194 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.54
80 49 0.39
81 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:61471194 original size:119 final size:120
Alignment explanation
Indices: 61470971--61471195 Score: 307
Period size: 119 Copynumber: 1.9 Consensus size: 120
61470961 TCAAATGATG
* *
61470971 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
61471036 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAT
* * **
61471091 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* *
61471153 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
61471196 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
118 2 0.02
119 72 0.77
120 19 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAT
Found at i:61471217 original size:79 final size:79
Alignment explanation
Indices: 61470978--61471228 Score: 289
Period size: 79 Copynumber: 3.2 Consensus size: 79
61470968 ATGTCCGGGC
* *
61470978 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
61471041 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
*
61471058 TAAGAT-CCGAAGGCATTTGTGCAAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
61471120 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * * **
61471137 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
61471202 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
61471216 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
61471229 TACGTGATTC
Statistics
Matches: 149, Mismatches: 13, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
78 1 0.01
79 83 0.56
80 57 0.38
81 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:61472773 original size:47 final size:47
Alignment explanation
Indices: 61472700--61472875 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 47
61472690 TCACTTGTGT
* * *
61472700 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCA-CAATATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATCAAGACGA
**
61472746 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATTTG-CATCAAGACGA
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCATCAAGACGA
* * *
61472794 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGAC-A
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATCAAGACGA
* * * ** *
61472839 TAAACCAGTGTAAGACATGTCCGGGACATGCCTCGGC
1 -GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGC
61472876 TATGAGATGT
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 54 0.50
47 30 0.28
48 24 0.22
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATCAAGACGA
Found at i:61478142 original size:29 final size:28
Alignment explanation
Indices: 61478110--61478212 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
61478100 GTGACGAGAT
* *
61478110 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
** *
61478139 TGGCACTAAGTGTGCGAATTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
61478168 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
61478197 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61478213 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:61486360 original size:17 final size:17
Alignment explanation
Indices: 61486340--61486380 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
61486330 TTATTAAAGG
* *
61486340 TTAAAATGGTAAAATGA
1 TTAAAATGATAAAATAA
61486357 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
61486374 TTAAAAT
1 TTAAAAT
61486381 AAAGCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:61486363 original size:9 final size:9
Alignment explanation
Indices: 61486340--61486380 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
61486330 TTATTAAAGG
61486340 TTAAAATG-
1 TTAAAATGA
*
61486348 GTAAAATGA
1 TTAAAATGA
61486357 TTAAAATGA
1 TTAAAATGA
*
61486366 -TAAAATAA
1 TTAAAATGA
61486374 TTAAAAT
1 TTAAAAT
61486381 AAAGCCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (9 bp):
TTAAAATGA
Found at i:61491825 original size:41 final size:41
Alignment explanation
Indices: 61491779--61491879 Score: 130
Period size: 41 Copynumber: 2.5 Consensus size: 41
61491769 TGTGGATACT
* * * *
61491779 CCACAGCTCATGTGAGAATCATCATGTAGCTACGTTCTGAC
1 CCACAGCTCGTGTGAGAAGCATCATGTAACTACATTCTGAC
* **
61491820 CCACAGCTCGTGTGAGCAGCATCATGTAACTGTATTCTGAC
1 CCACAGCTCGTGTGAGAAGCATCATGTAACTACATTCTGAC
*
61491861 CCACAGCTTGTGTGAGAAG
1 CCACAGCTCGTGTGAGAAG
61491880 GCCCATTTTC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCACAGCTCGTGTGAGAAGCATCATGTAACTACATTCTGAC
Found at i:61493013 original size:13 final size:13
Alignment explanation
Indices: 61492995--61493019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61492985 TTTCAACCTC
61492995 TTTGTTTTTGGTG
1 TTTGTTTTTGGTG
61493008 TTTGTTTTTGGT
1 TTTGTTTTTGGT
61493020 CCTTTTGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (13 bp):
TTTGTTTTTGGTG
Found at i:61507101 original size:15 final size:15
Alignment explanation
Indices: 61507077--61507106 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61507067 TAATGTATTT
61507077 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
61507092 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
61507107 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:61509094 original size:27 final size:27
Alignment explanation
Indices: 61508994--61509085 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
61508984 TGAAAGATGT
*
61508994 TAATTTTACAAAT-TAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
**
61509020 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
61509047 TAATTTTACAGATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
61509074 TAATTTCACAAA
1 TAATTTTACAAA
61509086 CCAGGGGTAG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 13 0.23
27 44 0.77
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTGG
Found at i:61509094 original size:54 final size:52
Alignment explanation
Indices: 61508994--61509103 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 52
61508984 TGAAAGATGT
* * * *
61508994 TAATTTTACAAATTAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATGAGGGTATTTTGGTAATTTCACAAACCGAGGGTAGTT-AG
*
61509047 TAATTTTACAGATCGAGGGTATTTTGGTAATTTCACAAACC-AGGGGTAGTTAG
1 TAATTTTACAAAT-GAGGGTATTTTGGTAATTTCACAAACCGA-GGGTAGTTAG
61509100 TAAT
1 TAAT
61509104 ATTAGTAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 19 0.38
54 31 0.62
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (52 bp):
TAATTTTACAAATGAGGGTATTTTGGTAATTTCACAAACCGAGGGTAGTTAG
Found at i:61510249 original size:27 final size:27
Alignment explanation
Indices: 61510226--61510298 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
61510216 TATTACACAG
* *
61510226 GGGCAAAACAATTATTTTACTACATAA
1 GGGCAAAACAGTCATTTTACTACATAA
*
61510253 GGGCAAAACAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACTACATAA
61510280 GGGCAAAACAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
61510299 TCAATTAGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACTACATAA
Found at i:61517185 original size:29 final size:30
Alignment explanation
Indices: 61517114--61517223 Score: 104
Period size: 29 Copynumber: 3.8 Consensus size: 30
61517104 ATCCCTACAT
* *
61517114 ACATGCATATGGCCCA-CTAGGCCCAA-AC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
** * *
61517142 TTATTCAAATGGCCCATCT-GGCCCAGTTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
* *
61517171 ATATTCTTATGGCCCA-CTAGGCCCAATTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
*
61517200 ACCTTCATATGGCCCAT-TAGGCCC
1 ACATTCATATGGCCCATCTAGGCCC
61517224 GAATCATATT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
28 20 0.31
29 45 0.69
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGGCCCAATTC
Found at i:61517339 original size:19 final size:18
Alignment explanation
Indices: 61517306--61517342 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
61517296 TAGGCCCAAC
61517306 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
61517324 AGCCCATTCTGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
61517343 GGCAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.38, G:0.16, T:0.27
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:61518723 original size:16 final size:16
Alignment explanation
Indices: 61518702--61518733 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61518692 GAAAAATTCA
61518702 AGATTTCAGGATTTTT
1 AGATTTCAGGATTTTT
*
61518718 AGATTTCGGGATTTTT
1 AGATTTCAGGATTTTT
61518734 GGGGGGTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (16 bp):
AGATTTCAGGATTTTT
Found at i:61521677 original size:29 final size:29
Alignment explanation
Indices: 61521605--61521717 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
61521595 CATACATGCA
* * * *
61521605 TATGACCCACTAGGCTCAA-TCTTATTCA
1 TATGGCCCACTAGGCCCAATTCATATTCT
* * *
61521633 AATGGCCTATCT-GGCCCAGTTCATATTCT
1 TATGGCCCA-CTAGGCCCAATTCATATTCT
*
61521662 TATGGCCCACTAGGCCCAATTCACATTCT
1 TATGGCCCACTAGGCCCAATTCATATTCT
* *
61521691 TATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATTCATATT
61521718 ATATTCATGC
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 13 0.19
29 55 0.81
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAATTCATATTCT
Found at i:61522502 original size:51 final size:51
Alignment explanation
Indices: 61522442--61522543 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
61522432 ACACTAGATT
*
61522442 TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTTGGCCAAAGAG
1 TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCGGCCAAAGAG
61522493 TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCGGCCAAAGAG
1 TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCGGCCAAAGAG
61522544 GTTTGGCCCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (51 bp):
TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCGGCCAAAGAG
Found at i:61523259 original size:16 final size:16
Alignment explanation
Indices: 61523238--61523270 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
61523228 AAAAATTCAA
61523238 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
*
61523254 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
61523270 G
1 G
61523271 GGCGTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:61531188 original size:29 final size:28
Alignment explanation
Indices: 61531156--61531258 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
61531146 GGGACGAGAT
* *
61531156 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
61531185 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
61531214 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
61531243 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61531259 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:61538233 original size:71 final size:71
Alignment explanation
Indices: 61538149--61538312 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61538139 CGATTTGTCT
61538149 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61538214 CTTTCA
66 CTTTCA
61538220 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61538285 CTTTCA
66 CTTTCA
61538291 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61538313 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:61538350 original size:71 final size:70
Alignment explanation
Indices: 61538149--61538346 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
61538139 CGATTTGTCT
* * * *
61538149 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61538214 CTTTCA
65 CTTTCA
* * * *
61538220 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61538285 CTTTCA
65 CTTTCA
* *
61538291 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
61538347 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:61539001 original size:19 final size:20
Alignment explanation
Indices: 61538977--61539021 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
61538967 TAACATAATT
61538977 TAAAACCTCATATTC-ATCA
1 TAAAACCTCATATTCTATCA
61538996 TAAAACCTCATATTCTATCA
1 TAAAACCTCATATTCTATCA
61539016 TAAAAC
1 TAAAAC
61539022 ATCAAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAACCTCATATTCTATCA
Found at i:61545242 original size:28 final size:28
Alignment explanation
Indices: 61545181--61545278 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
61545171 TCACAAATTG
** * *
61545181 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
61545210 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
61545238 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
61545266 GCACTAAGTGTGC
1 GCACTAAGTGTGC
61545279 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:61548588 original size:19 final size:20
Alignment explanation
Indices: 61548558--61548602 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
61548548 CATACGAGTA
61548558 CATAATACGTACCTGGCCAT
1 CATAATACGTACCTGGCCAT
61548578 CATAA-ACGTACCTGGCCAT
1 CATAATACGTACCTGGCCAT
61548597 CATAAT
1 CATAAT
61548603 GTATCATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (20 bp):
CATAATACGTACCTGGCCAT
Found at i:61548781 original size:38 final size:38
Alignment explanation
Indices: 61548716--61549010 Score: 313
Period size: 38 Copynumber: 7.7 Consensus size: 38
61548706 CACTAGAACT
* * * * *
61548716 AAGCCTGCGAGACTTTAAGCTCAGATATAATACCAACACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACG
* * * * * *
61548756 AGGCCTACAGGATTTAACCCGGATATAATTCTAGCATG
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACG
* * *
61548794 AAGCCTGCGGGATTTAACCCAGATATAATTCTAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACG
* *
61548832 AAGCCTGCGGGATTTAACCCGGATATATTACCAACACG
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACG
* *
61548870 AAGCCTGTGGGATTTAACCCGGATATAATTCCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACG
* *
61548908 AAGCCTGCGGGATTTAACCCGGATATATTACCAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACG
* * * *
61548946 AAGCTTGTGGGATTTAACCCGGATATAATTCCAGCA-T
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACG
*
61548983 ATAGCCTGCGGGTCTTTAAGCCCGGATA
1 A-AGCCTGCGGG-ATTTAA-CCCGGATA
61549011 CACATCAAAT
Statistics
Matches: 215, Mismatches: 37, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
37 1 0.00
38 188 0.87
39 10 0.05
40 16 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (38 bp):
AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACG
Found at i:61552848 original size:6 final size:6
Alignment explanation
Indices: 61552818--61552936 Score: 57
Period size: 6 Copynumber: 19.3 Consensus size: 6
61552808 AAGAAACATT
* * *
61552818 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
61552867 ATCAGA ATAAAA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
61552918 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
61552937 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 66 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:61552872 original size:25 final size:25
Alignment explanation
Indices: 61552839--61552908 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
61552829 AATCAAAATG
61552839 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
61552864 AGAATCAGAATAAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
61552889 AGAATTAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
61552909 TATCAGGTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:61552922 original size:31 final size:30
Alignment explanation
Indices: 61552839--61552936 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
61552829 AATCAAAATG
61552839 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
* *
61552870 AGAAT-A-AA--A-ATTAGGTGACAGAATT
1 AGAATCAGAATCAGATCAGGTGACAGAATC
*
61552895 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
61552926 AAAATCAGAAT
1 AGAATCAGAAT
61552937 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 19 0.35
26 1 0.02
27 3 0.05
29 3 0.05
30 1 0.02
31 28 0.51
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Found at i:61558458 original size:76 final size:79
Alignment explanation
Indices: 61558309--61558461 Score: 233
Period size: 76 Copynumber: 2.0 Consensus size: 79
61558299 CGGGATGAAT
*
61558309 ACCATGTATACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACTATGTG
1 ACCATGTAGACAAGAGAGCTACGAGA-ATTATGAGGTAGCTAGGTCGCATGGGTGATACTATGTG
*
61558374 TTTCCCATGTAGTAC
65 TTACCCATGTAGTAC
*
61558389 ACCATGTAGACAAGAGAGCTACGAG-A-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTG-
1 ACCATGTAGACAAGAGAGCTACGAGAATTATGAGGTAGCTAGGTCGCATGGGTGATACTATGTGT
61558450 TACACCATGTAG
66 TAC-CCATGTAG
61558462 ACAAGAGAGC
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
75 2 0.03
76 39 0.57
77 3 0.04
78 1 0.01
80 24 0.35
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (79 bp):
ACCATGTAGACAAGAGAGCTACGAGAATTATGAGGTAGCTAGGTCGCATGGGTGATACTATGTGT
TACCCATGTAGTAC
Found at i:61558459 original size:64 final size:63
Alignment explanation
Indices: 61558380--61558601 Score: 212
Period size: 64 Copynumber: 3.4 Consensus size: 63
61558370 TGTGTTTCCC
61558380 ATGTAGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACT
1 ATGT-GTACACCATGTAGACAAGAGAGCTACGAGATA-ATGTAGCTAGGTCGCATGGGTGATACT
* * * * * * *
61558445 ATGTGTACACCATGTAGACAAGAGAGCTATGAGATAAATGTTGCTAGGTTGCATGTGTGGTTCCA
1 ATGTGTACACCATGTAGACAAGAGAGCTACGAGAT-AATGTAGCTAGGTCGCATGGGT-GATACT
* * * * * * * * *
61558510 AGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATAAAGTGGCTAGGTCACGTGGGTGGTAGT
1 A-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATAATGTAGCTAGGTCGCATGGGTGATACT
* *
61558575 AAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTGTACACCATGTAG-ACAAGAGAGC
61558602 CAAAATTATG
Statistics
Matches: 126, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
63 19 0.15
64 49 0.39
65 12 0.10
66 18 0.14
67 28 0.22
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (63 bp):
ATGTGTACACCATGTAGACAAGAGAGCTACGAGATAATGTAGCTAGGTCGCATGGGTGATACT
Found at i:61568177 original size:30 final size:30
Alignment explanation
Indices: 61568143--61568203 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61568133 TCCTTAACTC
61568143 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61568173 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61568203 A
1 A
61568204 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:61571831 original size:20 final size:20
Alignment explanation
Indices: 61571774--61571832 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
61571764 AGTACTCCTG
61571774 TTTGTACTTCGGTACCCCTA
1 TTTGTACTTCGGTACCCCTA
** * * *
61571794 AATGCACATAC-GTGCCCCTA
1 TTTGTAC-TTCGGTACCCCTA
61571814 TTTGTACTTCGGTACCCCT
1 TTTGTACTTCGGTACCCCT
61571833 GAATGCATTA
Statistics
Matches: 27, Mismatches: 10, Indels: 4
0.66 0.24 0.10
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (20 bp):
TTTGTACTTCGGTACCCCTA
Found at i:61575453 original size:66 final size:68
Alignment explanation
Indices: 61575377--61575563 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
61575367 TAGTACCACT
*
61575377 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
61575439 CACG
65 CACG
61575443 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
61575508 ATCACG
63 ATCACG
61575514 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
61575564 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:61575488 original size:71 final size:71
Alignment explanation
Indices: 61575400--61575563 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61575390 CGATTTGTCT
61575400 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61575465 CTTTCA
66 CTTTCA
61575471 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61575536 CTTTCA
66 CTTTCA
61575542 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61575564 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:61575601 original size:71 final size:70
Alignment explanation
Indices: 61575400--61575597 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
61575390 CGATTTGTCT
* * *
61575400 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
61575465 CTTTCA
65 CTTTCA
* * *
61575471 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
61575536 CTTTCA
65 CTTTCA
* *
61575542 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
61575598 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:61582754 original size:40 final size:40
Alignment explanation
Indices: 61582688--61582838 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
61582678 AAATTGAATG
* * *
61582688 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
61582727 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
61582767 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
61582807 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
61582839 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:61590773 original size:40 final size:40
Alignment explanation
Indices: 61590689--61590838 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
61590679 AAATTGAATG
* * *
61590689 ATATCCGGGCTAAG-CCCGAAGACAATATGCTG-GA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGTGACT
* * *
61590727 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
61590767 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
61590807 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
61590839 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 14 0.15
40 57 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:61590853 original size:40 final size:40
Alignment explanation
Indices: 61590724--61590854 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
61590714 TATGCTGGAA
* * *
61590724 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
61590764 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
61590804 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
61590844 ATTAAATCCGG
1 ATTATATCCGG
61590855 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:61594233 original size:66 final size:68
Alignment explanation
Indices: 61594157--61594343 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
61594147 TAGTACCACT
*
61594157 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
61594219 CACG
65 CACG
61594223 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
61594288 ATCACG
63 ATCACG
61594294 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
61594344 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:61594268 original size:71 final size:71
Alignment explanation
Indices: 61594180--61594343 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61594170 CGATTTGTCT
61594180 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61594245 CTTTCA
66 CTTTCA
61594251 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61594316 CTTTCA
66 CTTTCA
61594322 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61594344 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:61594381 original size:71 final size:70
Alignment explanation
Indices: 61594180--61594377 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
61594170 CGATTTGTCT
* * *
61594180 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
61594245 CTTTCA
65 CTTTCA
* * *
61594251 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
61594316 CTTTCA
65 CTTTCA
* *
61594322 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
61594378 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:61600033 original size:79 final size:80
Alignment explanation
Indices: 61599935--61600117 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 80
61599925 TACTCGTTCA
* *
61599935 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
61599998 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
61600015 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
61600079 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
61600094 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61600118 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:61600117 original size:40 final size:40
Alignment explanation
Indices: 61599916--61600117 Score: 243
Period size: 40 Copynumber: 5.1 Consensus size: 40
61599906 GAATTTAACT
** *
61599916 GGATATAG-ATACTCGTTCAAATGCCTTCGGGACATAGCCC
1 GGATATAGTA-ACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
61599956 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
61599996 GGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
61600035 GGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
* *
61600075 GGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
61600115 GGA
1 GGA
61600118 CATCATTCGA
Statistics
Matches: 140, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.66
41 13 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:61606294 original size:49 final size:49
Alignment explanation
Indices: 61606234--61606488 Score: 421
Period size: 49 Copynumber: 5.3 Consensus size: 49
61606224 GTATGAGATA
61606234 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
61606283 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
61606331 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
61606380 TATATA--TGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
61606427 TATATATGTGATAAGGCCTAGTGGCCGACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
61606474 TATAAATGTGATAAG
1 TATATATGTGATAAG
61606489 TCCCGAAGGG
Statistics
Matches: 198, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
47 63 0.32
48 48 0.24
49 87 0.44
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:61612241 original size:79 final size:81
Alignment explanation
Indices: 61612132--61612314 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
61612122 TACTCGTTCA
* *
61612132 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
61612195 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
61612212 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
61612275 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
61612291 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61612315 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:61612314 original size:40 final size:40
Alignment explanation
Indices: 61612111--61612314 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
61612101 CGGAATTTAA
** *
61612111 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61612151 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61612191 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61612230 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
61612270 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61612310 CCGGA
1 CCGGA
61612315 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61618483 original size:49 final size:49
Alignment explanation
Indices: 61618423--61618679 Score: 439
Period size: 49 Copynumber: 5.3 Consensus size: 49
61618413 GTATGAGATA
61618423 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
61618472 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
61618521 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
61618569 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
61618618 TATATATGTGATAAGGCCTAGTGGCCGACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
61618665 TATAAATGTGATAAG
1 TATATATGTGATAAG
61618680 TCCCGAAGGG
Statistics
Matches: 202, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.08
48 47 0.23
49 138 0.68
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:61618602 original size:97 final size:98
Alignment explanation
Indices: 61618423--61618679 Score: 439
Period size: 97 Copynumber: 2.7 Consensus size: 98
61618413 GTATGAGATA
61618423 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
*
61618488 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
66 CCTAATGGCCGACGTGATGAATGTGAAAGTGTG
61618521 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
61618585 CCTAATGGCCGACGTGATGAATGTGAAAGTGTG
66 CCTAATGGCCGACGTGATGAATGTGAAAGTGTG
* * * * *
61618618 TATATATGTGATAAGGCCTAGTGGCCGACGTGATGGATGTGGAA--GTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAG
61618680 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
96 17 0.11
97 93 0.61
98 42 0.28
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (98 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGACGTGATGAATGTGAAAGTGTG
Found at i:61624406 original size:79 final size:81
Alignment explanation
Indices: 61624297--61624479 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
61624287 TACTCGTTCA
* *
61624297 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
61624360 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
61624377 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCTCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
61624440 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
61624456 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61624480 CATCATTCGG
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:61624479 original size:40 final size:40
Alignment explanation
Indices: 61624276--61624479 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
61624266 CAGAATTTAA
** *
61624276 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61624316 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61624356 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61624395 CCGGA-ATTAGTAACTCTCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
61624435 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61624475 CCGGA
1 CCGGA
61624480 CATCATTCGG
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 95 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61626850 original size:29 final size:29
Alignment explanation
Indices: 61626808--61626866 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
61626798 GAAAGCATAC
*
61626808 TAAGTCGTAAGTCCATGTGACATGTCAGA
1 TAAGTCGTAAGTCCATGTGACACGTCAGA
*
61626837 TAAGTTGTAAGTCCATGTGACACGTCAGA
1 TAAGTCGTAAGTCCATGTGACACGTCAGA
61626866 T
1 T
61626867 CTGGCCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (29 bp):
TAAGTCGTAAGTCCATGTGACACGTCAGA
Found at i:61627314 original size:44 final size:44
Alignment explanation
Indices: 61627259--61627346 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
61627249 AAACTCTGAT
* *
61627259 AAGTAGACTGAGACTGTAGCTAGGCTACCGCAAAAGGAAACAAA
1 AAGTAAACTGAGACTGTAGCTAGGCTACAGCAAAAGGAAACAAA
61627303 AAGTAAACTGAGACTGTAGCTAGGCTACAGCAAAAGGAAACAAA
1 AAGTAAACTGAGACTGTAGCTAGGCTACAGCAAAAGGAAACAAA
61627347 CTCAAACTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (44 bp):
AAGTAAACTGAGACTGTAGCTAGGCTACAGCAAAAGGAAACAAA
Found at i:61628206 original size:17 final size:18
Alignment explanation
Indices: 61628184--61628217 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61628174 TGAAGCATAC
*
61628184 AGAAAGA-CATAATCGTG
1 AGAAAGATCAGAATCGTG
61628201 AGAAAGATCAGAATCGT
1 AGAAAGATCAGAATCGT
61628218 TTTAGGAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.18
Consensus pattern (18 bp):
AGAAAGATCAGAATCGTG
Found at i:61633596 original size:27 final size:26
Alignment explanation
Indices: 61633558--61633617 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
61633548 CCACATATAT
* *
61633558 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
61633584 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
61633611 ATATCTG
1 ATATCTG
61633618 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:61636816 original size:46 final size:46
Alignment explanation
Indices: 61636681--61636856 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
61636671 TCACTTGTGT
* * * **
61636681 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAA
* * * * *
61636727 GAGCCAATGTAAGACCATGTTTAGGACATGGCATCGGCATCGAGACAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACAA
*
61636775 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACA-A
* * * * * *
61636822 -AGCCAATATAAGATATGTCTGGGATATGCCTCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
61636857 TACGAGATGT
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 56 0.54
47 25 0.24
48 23 0.22
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAA
Found at i:61640321 original size:39 final size:39
Alignment explanation
Indices: 61640266--61640402 Score: 179
Period size: 39 Copynumber: 3.5 Consensus size: 39
61640256 GGACTAAGAT
* *
61640266 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
* *
61640305 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
*
61640344 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGTTAAGTC
* *
61640383 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
61640403 CGTTATATCC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 9 0.10
39 70 0.80
40 8 0.09
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:61640415 original size:78 final size:78
Alignment explanation
Indices: 61640266--61640428 Score: 195
Period size: 78 Copynumber: 2.1 Consensus size: 78
61640256 GGACTAAGAT
* * *
61640266 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
*
61640331 ACCCGGTTAAGTC
66 ACCCGGTTAAATC
* * **
61640344 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCGTT
1 CCGAAGGCATTCGTGCGAGTTAATA-AATCCGGGTTAAG-CCCGAAGGCATTTGAGCGAGTCACT
* * *
61640407 ATATCCGGTTAAATT
64 AAACCCGGTTAAATC
61640422 CCGAAGG
1 CCGAAGG
61640429 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
77 1 0.01
78 69 0.96
79 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
ACCCGGTTAAATC
Found at i:61648326 original size:40 final size:39
Alignment explanation
Indices: 61648290--61648396 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
61648280 ATATCCGGAC
*
61648290 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
61648330 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
61648369 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
61648397 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:61648397 original size:40 final size:40
Alignment explanation
Indices: 61648296--61648434 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
61648286 GGACTAAGAT
* * *
61648296 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
61648335 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
61648375 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
* *
61648415 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
61648435 CGTTATATCC
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.38
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:61648458 original size:79 final size:79
Alignment explanation
Indices: 61648295--61648460 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
61648285 CGGACTAAGA
* * *
61648295 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
61648360 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * *
61648374 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
61648437 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
61648453 TCCGAAGG
1 TCCGAAGG
61648461 TACGTGATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 40 0.56
80 32 0.44
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:61652300 original size:25 final size:25
Alignment explanation
Indices: 61652272--61652341 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
61652262 GAGGAAGTGC
* *
61652272 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
61652297 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
61652322 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
61652342 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:61652354 original size:24 final size:24
Alignment explanation
Indices: 61652271--61652368 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 24
61652261 GGAGGAAGTG
* *
61652271 CAAAAG-GGCTATGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
61652295 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
61652320 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
61652344 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
61652369 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
24 20 0.31
25 44 0.69
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:61652365 original size:50 final size:50
Alignment explanation
Indices: 61652272--61652366 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
61652262 GAGGAAGTGC
**
61652272 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
61652322 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
61652367 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:61652628 original size:31 final size:29
Alignment explanation
Indices: 61652562--61652635 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
61652552 CGTTTACAGT
* *
61652562 AAAGGCTTCGACCCAGTGATATGATAATG
1 AAAGGCTTCGGCCCAGTGACATGATAATG
*
61652591 ATAAGGCTTTGGCCCAGTGACATGAATAATG
1 A-AAGGCTTCGGCCCAGTGACATG-ATAATG
61652622 CAAAGGCTTCGGCC
1 -AAAGGCTTCGGCC
61652636 TAGTATATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 19 0.50
31 17 0.45
32 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTGACATGATAATG
Found at i:61655222 original size:20 final size:21
Alignment explanation
Indices: 61655197--61655235 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
61655187 TGGAATGAGA
61655197 AAACGAGCTCA-TTGAGCTGG
1 AAACGAGCTCATTTGAGCTGG
*
61655217 AAACGAGCTGATTTGAGCT
1 AAACGAGCTCATTTGAGCT
61655236 CGTTGAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (21 bp):
AAACGAGCTCATTTGAGCTGG
Found at i:61657625 original size:53 final size:54
Alignment explanation
Indices: 61657557--61657764 Score: 231
Period size: 53 Copynumber: 3.9 Consensus size: 54
61657547 TTTCCTTTTT
* * * * *
61657557 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** *
61657610 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGACTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * * * *
61657664 GTAACTCATCAATGCCATGTCTTAACACGGTCTTACATGATTTCCTTTCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
61657719 GAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
61657765 ATCTTACCAA
Statistics
Matches: 129, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.33
54 41 0.32
55 41 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:61657682 original size:55 final size:54
Alignment explanation
Indices: 61657568--61657756 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 54
61657558 AACTTACCAT
* * *
61657568 TGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTTGCCTTATAGAACTCATCAA
* * *
61657621 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGACTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAA
* * * * *
61657676 TGCCATGTCTTAACACGGTCTTACATGATTTCCTTT-CCTTATAGAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAA
*
61657730 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
61657757 ATATCCTTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 34 0.30
55 39 0.34
56 5 0.04
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAA
Found at i:61657750 original size:54 final size:54
Alignment explanation
Indices: 61657568--61657764 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
61657558 AACTTACCAT
* * * * *
61657568 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAA
* ** *
61657621 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGACTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTT-CCTTATAG-AACTCATCAA
* * * *
61657676 TGCCATGTCTTAACACGGTCTTACATGATTTCCTTTCCTTATAGAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAA
*
61657730 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
61657765 ATCTTACCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 41 0.34
55 39 0.32
56 5 0.04
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAA
Found at i:61657961 original size:44 final size:44
Alignment explanation
Indices: 61657912--61657995 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
61657902 TCCTTAACCA
* *
61657912 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCG
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCG
* *
61657956 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
61657996 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCG
Found at i:61660443 original size:20 final size:20
Alignment explanation
Indices: 61660414--61660464 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
61660404 GACCAAGTTC
* *
61660414 TTTTTCTTTTTC-AATCTCA
1 TTTTTCTTTTTCTCATCCCA
*
61660433 TTTTTCTTTTTCTCATCCCC
1 TTTTTCTTTTTCTCATCCCA
61660453 TTTTTCTTTTTC
1 TTTTTCTTTTTC
61660465 ACAGTCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTCTTTTTCTCATCCCA
Found at i:61660475 original size:18 final size:17
Alignment explanation
Indices: 61660412--61660482 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 17
61660402 TTGACCAAGT
61660412 TCTTTTTCTTTTTCA-A
1 TCTTTTTCTTTTTCACA
*
61660428 TCTCATTTTTCTTTTTCTCA
1 --TC-TTTTTCTTTTTCACA
61660448 TCCCCTTTTTCTTTTTCACA
1 T---CTTTTTCTTTTTCACA
61660468 GTCTTTTTCTTTTTC
1 -TCTTTTTCTTTTTC
61660483 TTTCTTTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
18 16 0.36
19 12 0.27
20 15 0.33
21 2 0.04
ACGTcount: A:0.08, C:0.25, G:0.01, T:0.65
Consensus pattern (17 bp):
TCTTTTTCTTTTTCACA
Found at i:61663083 original size:9 final size:10
Alignment explanation
Indices: 61663068--61663107 Score: 59
Period size: 9 Copynumber: 4.3 Consensus size: 10
61663058 ACTTAGTAAT
61663068 TAATTTAAAC
1 TAATTTAAAC
61663078 -AATTTAAAC
1 TAATTTAAAC
61663087 TAATTT-AAC
1 TAATTTAAAC
61663096 TAATTT-AAC
1 TAATTTAAAC
61663105 TAA
1 TAA
61663108 AAACAGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 24 0.83
10 5 0.17
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATTTAAAC
Found at i:61663090 original size:19 final size:18
Alignment explanation
Indices: 61663068--61663107 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
61663058 ACTTAGTAAT
61663068 TAATTTAAAC-AATTTAAAC
1 TAATTT-AACTAATTT-AAC
61663087 TAATTTAACTAATTTAAC
1 TAATTTAACTAATTTAAC
61663105 TAA
1 TAA
61663108 AAACAGATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTTAACTAATTTAAC
Found at i:61666594 original size:560 final size:552
Alignment explanation
Indices: 61665039--61666597 Score: 1451
Period size: 582 Copynumber: 2.7 Consensus size: 552
61665029 TGTGGGCCAG
* * * *
61665039 CATTAATGGCATC-CAACATCTCGTGTGAACTATCTTAAACCTCTTAACACGAAAACTTGA-ATT
1 CATTAATGGC-TCTCAACATCTCGTGTGATCTGTCTTAAACCTCTTAACACCAAAACTT-ATATC
* * * * * * *
61665102 GACAATTATTAACTTCGTTTTTACTTTGTTACATTTGGCTCAAAGCTTTATTTATTTTAAGGATT
64 AACAATTATTAACTTCATTTTTGCTTTGCTACGTTTGGCTCAAAGGTTTATTTATTTCAAGGATT
*
61665167 TGTTAATTTTTATTAATT-AAAATATTATATAAATTGTAAGAAAATGAATACAAAAATATCATTT
129 TGTTAATTTTTATTAATTAAAAATATTACAT-AATTGTAAGAAAATGAATA-AAAAATATCATTT
* *
61665231 TATATAATACTTAAATTCTTGTATCTATTAAACAAAAAATATTTACATAAATATTATATTTAATA
192 TATATAATACTT-AATTATTTTATCTATTAAACAAAAAATATTTACATAAATATTATATTTAATA
** * * *
61665296 ATTTTAAATTATTTAAAAATAAAAAATTTAAACAATTATTATATATGTATCTATATTATTATTCA
256 ATTTTAAATTATTT--TTA-AAAAAATTTAAACAATTGTTATATATATATCTATATTATTATTTA
** * * * * *
61665361 AGTCCTGAGTTAATATCACAAGTTAATCGAAATGTCACAAGTTAATCGAACACCAATTCAGTTAA
318 AG-CC---CCT-A-A-C-TAAGTT-A--G---TGTCACGAGTCAACCGAACACCAAATCAGTT-A
* * *
61665426 AAAAATTACGAAAATGTCATTCCGTAATTAAAATAAATTATATTATTTGAGAATATTTCAATCTT
368 AAAAATTACGAAAATATCATTCTGTAATTAAAATAAA-GATA-TATTT--GAATATTT-AA----
* * *
61665491 TTTACTTAAAAAACAATAGAAAATTTGATGTAGATACTATATATGCATCTCCAAGAAGAGCGAAG
424 -TTACTTAAAAAACAATAGAAAATTTGACGTAGATACTATATATGCATCTCCAAGAACAGCCAAG
* * * *
61665556 CAATCTAAGGATTACCAAAACTTTGTCAAAGTATCTTCGTACCTCTCCAAACATTCTCACACCAC
488 CAATCTAAAGATTACCAAAACTTAGTCAAACTATCTTCATACCTCTCCAAACATTCTCACACCAC
** * * * * *
61665621 GGTTAATGGCTCTCAGCGTCTCATGTGAAT-TGTCTTAAACCTTTTAACACCAAAACTTGTATCA
1 CATTAATGGCTCTCAACATCTCGTGTG-ATCTGTCTTAAACCTCTTAACACCAAAACTTATATCA
* * * *
61665685 ACAATTATTAACCTTCATTTTTGC-TTGGTACGTTTGGCTCCAAGGTTTATTTAATTCAAGGAGT
65 ACAATTATTAA-CTTCATTTTTGCTTTGCTACGTTTGGCTCAAAGGTTTATTTATTTCAAGGATT
* * *
61665749 TATTAATTTTTATTAATTAAAAA-A-TACATAAGTTGTAAGAAAATGAATACAAAATATAATTTT
129 TGTTAATTTTTATTAATTAAAAATATTACATAA-TTGTAAGAAAATGAATAAAAAATATCATTTT
* * *
61665812 ATATAATACTTAATTCTTTTTATCTATTAATCAAAAGAACATTTACATAAATATTATATTTAATA
193 ATATAATACTTAATT-ATTTTATCTATTAAACAAAA-AATATTTACATAAATATTATATTTAATA
* * *
61665877 ATTTT-AA--A---TT----AAA-TTAAACAATTGTTATATACATATCTATATTATTAATTAAGT
256 ATTTTAAATTATTTTTAAAAAAATTTAAACAATTGTTATATATATATCTATATTATTATTTAAGC
* * * * * * * * * * *
61665931 CCCTAATTAAATTAATTTCAGGAATCAACTGAATACCAACTCAATTAAAGAAATTACAAAAATAT
321 CCCTAACTAAGTTAGTGTCACGAGTCAACCGAACACCAAATCAGTTAAA-AAATTACGAAAATAT
* * * * * *
61665996 CATT-TCATAATCAAAATAAATTATATTTTTTGAAGATATTTTAA-TATTTATACTTAAA-AATA
385 CATTCT-GTAATTAAAATAAA-GATA-TATTTG-A-ATA-TTTAATTACTTA-A--AAAACAATA
* * *
61666058 AAAAAATTGACGT-GAATACTATATGTAAAACCCTTGCATCTCCAATAACAGCCAAGCAATCTAA
441 GAAAATTTGACGTAG-ATACTATA--T---A----TGCATCTCCAAGAACAGCCAAGCAATCTAA
*
61666122 AGATTACCAAAACTGTCAGTCAAACTATCTTCATACCTCTTCAAACA-TCTCACACCAC
496 AGATTACCAAAACT-T-AGTCAAACTATCTTCATACCTCTCCAAACATTCTCACACCAC
* * *
61666180 CATTAATAGCTCTCAACATCGCGTATGATCTGTCTTAAACCTCTTAACACCAAAACTTATATCAA
1 CATTAATGGCTCTCAACATCTCGTGTGATCTGTCTTAAACCTCTTAACACCAAAACTTATATCAA
* *
61666245 CAATTGTTAACTTGCATTTTTGCTTTACTACGTTTGGCTCAAAGGTTTATTTATTTCAAGGATTT
66 CAATTATTAACTT-CATTTTTGCTTTGCTACGTTTGGCTCAAAGGTTTATTTATTTCAAGGATTT
* *
61666310 GTTCATTTTTATTAATTAAAAAATAGTTACATAGATTGTAAGAAAATGAATATGAAAA-ATCATT
130 GTTAATTTTTATTAATT-AAAAATA-TTACATA-ATTGTAAGAAAATGAATA-AAAAATATCATT
* ** * *
61666374 TGATATAATACTTAATTATTTTATCTATTAGCCAACAAATATTTATATAAATATTATATTTAATA
191 TTATATAATACTTAATTATTTTATCTATTAAACAAAAAATATTTACATAAATATTATATTTAATA
* *
61666439 ATTTTAAATTATTTTTTAAAAATAATTTAAACAATTGTTATATATATATTTATACTATTATTTAA
256 ATTTTAAATTA-TTTTTAAAAA-AATTTAAACAATTGTTATATATATATCTATATTATTATTTAA
* * * * *
61666504 GCCCCTAACTGAGTTAGTGTCATGAGTCAACCGAGCACCAAATCGGTCACAAAAATTACGAAAAT
319 GCCCCTAACTAAGTTAGTGTCACGAGTCAACCGAACACCAAATCAGTTA-AAAAATTACGAAAAT
61666569 ATTC-TTCTGTAATTAAAAT-AAGATATATT
383 A-TCATTCTGTAATTAAAATAAAGATATATT
61666598 ATTTGAGGGT
Statistics
Matches: 801, Mismatches: 123, Indels: 116
0.77 0.12 0.11
Matches are distributed among these distances:
547 5 0.01
548 2 0.00
549 22 0.03
550 3 0.00
551 2 0.00
552 4 0.00
553 65 0.08
554 4 0.00
558 46 0.06
559 86 0.11
560 77 0.10
561 6 0.01
562 33 0.04
563 19 0.02
564 44 0.05
565 6 0.01
566 1 0.00
567 35 0.04
568 3 0.00
569 2 0.00
572 3 0.00
573 4 0.00
574 4 0.00
575 93 0.12
576 5 0.01
578 1 0.00
579 4 0.00
580 44 0.05
581 55 0.07
582 108 0.13
583 15 0.02
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (552 bp):
CATTAATGGCTCTCAACATCTCGTGTGATCTGTCTTAAACCTCTTAACACCAAAACTTATATCAA
CAATTATTAACTTCATTTTTGCTTTGCTACGTTTGGCTCAAAGGTTTATTTATTTCAAGGATTTG
TTAATTTTTATTAATTAAAAATATTACATAATTGTAAGAAAATGAATAAAAAATATCATTTTATA
TAATACTTAATTATTTTATCTATTAAACAAAAAATATTTACATAAATATTATATTTAATAATTTT
AAATTATTTTTAAAAAAATTTAAACAATTGTTATATATATATCTATATTATTATTTAAGCCCCTA
ACTAAGTTAGTGTCACGAGTCAACCGAACACCAAATCAGTTAAAAAATTACGAAAATATCATTCT
GTAATTAAAATAAAGATATATTTGAATATTTAATTACTTAAAAAACAATAGAAAATTTGACGTAG
ATACTATATATGCATCTCCAAGAACAGCCAAGCAATCTAAAGATTACCAAAACTTAGTCAAACTA
TCTTCATACCTCTCCAAACATTCTCACACCAC
Found at i:61667793 original size:73 final size:74
Alignment explanation
Indices: 61667711--61667859 Score: 264
Period size: 74 Copynumber: 2.0 Consensus size: 74
61667701 TATATTTGAC
*
61667711 AATATTTGACACAATTATATAACATAAATA-AAATATCAAAATCAATATAATAAAAATTAATAGC
1 AATATTTGACACAATTATATAACATAAATATAAATATCAAAATCAATATAATAAAAATTAATAAC
61667775 ATACAAAAA
66 ATACAAAAA
* *
61667784 AATATTTGACACAATTATATAACATAAATATATATATCAGAATCAATATAATAAAAATTAATAAC
1 AATATTTGACACAATTATATAACATAAATATAAATATCAAAATCAATATAATAAAAATTAATAAC
61667849 ATACAAAAA
66 ATACAAAAA
61667858 AA
1 AA
61667860 CATATTTTTA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 30 0.42
74 42 0.58
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.28
Consensus pattern (74 bp):
AATATTTGACACAATTATATAACATAAATATAAATATCAAAATCAATATAATAAAAATTAATAAC
ATACAAAAA
Found at i:61669700 original size:15 final size:15
Alignment explanation
Indices: 61669680--61669709 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61669670 ATCCTTTCCC
61669680 TAAAATTATAAATTT
1 TAAAATTATAAATTT
*
61669695 TAAAATTTTAAATTT
1 TAAAATTATAAATTT
61669710 AAATTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAAATTATAAATTT
Found at i:61669773 original size:10 final size:10
Alignment explanation
Indices: 61669758--61669796 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
61669748 ATTACTAATT
*
61669758 TTTAATATTA
1 TTTAATTTTA
61669768 TTTAATTTTTA
1 TTTAA-TTTTA
61669779 TCTTAATTTTA
1 T-TTAATTTTA
61669790 TTTAATT
1 TTTAATT
61669797 AATCAACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 11 0.42
11 11 0.42
12 4 0.15
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTAATTTTA
Found at i:61669856 original size:23 final size:23
Alignment explanation
Indices: 61669828--61669876 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
61669818 AAATATTATT
*
61669828 AAAGAGAATTGATTTTGTGTTAG
1 AAAGAGAATTGATTTTCTGTTAG
61669851 AAAGAGAATTGATTTTCTGTTAG
1 AAAGAGAATTGATTTTCTGTTAG
61669874 AAA
1 AAA
61669877 ATGTATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (23 bp):
AAAGAGAATTGATTTTCTGTTAG
Found at i:61669925 original size:23 final size:19
Alignment explanation
Indices: 61669900--61669939 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
61669890 ATTAGCACAT
61669900 ATTTATTAATTGGGAAAGG
1 ATTTATTAATTGGGAAAGG
61669919 ATTTATTAATTGGGAAAGG
1 ATTTATTAATTGGGAAAGG
61669938 AT
1 AT
61669940 GGTATGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (19 bp):
ATTTATTAATTGGGAAAGG
Found at i:61672671 original size:51 final size:53
Alignment explanation
Indices: 61672614--61672727 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 53
61672604 TCTAACAAAT
61672614 ATATAAAAATACATAAATATT-TTCA-AAAAATATAAT-TAT-AAATTTTAAAAA
1 ATATAAAAATACA-AAATATTGTTCATAAAAA-ATAATATATAAAATTTTAAAAA
* * * *
61672665 ATATAAAAATATAAAATATTGTTGATAAGAAATAATATATAAAATTTTAAAAT
1 ATATAAAAATACAAAATATTGTTCATAAAAAATAATATATAAAATTTTAAAAA
61672718 ATATTAAAAA
1 ATA-TAAAAA
61672728 AATTCAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
50 7 0.13
51 20 0.37
52 7 0.13
53 14 0.26
54 6 0.11
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (53 bp):
ATATAAAAATACAAAATATTGTTCATAAAAAATAATATATAAAATTTTAAAAA
Found at i:61672698 original size:53 final size:51
Alignment explanation
Indices: 61672614--61672727 Score: 126
Period size: 53 Copynumber: 2.2 Consensus size: 51
61672604 TCTAACAAAT
61672614 ATATAAAAATACATAAATATTTTCAAAAAAT-ATA-ATTATAAATTTTAAAAA
1 ATATAAAAATACATAAATATTTTCAAAAAATAATATA-TA-AAATTTTAAAAA
* * *
61672665 ATATAAAAATATA-AAATATTGTTGATAAGAAATAATATATAAAATTTTAAAAT
1 ATATAAAAATACATAAATATT-TTCA-AA-AAATAATATATAAAATTTTAAAAA
61672718 ATATTAAAAA
1 ATA-TAAAAA
61672728 AATTCAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
50 7 0.13
51 15 0.28
52 2 0.04
53 18 0.33
54 11 0.20
55 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (51 bp):
ATATAAAAATACATAAATATTTTCAAAAAATAATATATAAAATTTTAAAAA
Found at i:61672728 original size:20 final size:21
Alignment explanation
Indices: 61672696--61672755 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
61672686 TTGATAAGAA
* *
61672696 ATAATATATAAAATTTTAAAAT
1 ATAATA-AAAAAATTTAAAAAT
* *
61672718 ATATTAAAAAAATTCAAAAAT
1 ATAATAAAAAAATTTAAAAAT
*
61672739 ATAAT-AATAAATTTAAA
1 ATAATAAAAAAATTTAAA
61672756 TTTTATATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 10 0.32
21 16 0.52
22 5 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATAAAAAAATTTAAAAAT
Done.