Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 323 of 425
Found at i:100547574 original size:33 final size:33
Alignment explanation
Indices: 100547537--100547603 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
100547527 AAAAGGGTGG
100547537 TTTCGACAATATCATTTAAAAATCATTTTAAAT
1 TTTCGACAATATCATTTAAAAATCATTTTAAAT
100547570 TTTCGACAATATCATTTAAAAATCATTTTAAAT
1 TTTCGACAATATCATTTAAAAATCATTTTAAAT
100547603 T
1 T
100547604 AAGTTATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (33 bp):
TTTCGACAATATCATTTAAAAATCATTTTAAAT
Found at i:100550243 original size:21 final size:19
Alignment explanation
Indices: 100550219--100550267 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
100550209 TTAATTAAAA
100550219 TTAATTAATAATATTTTTATC
1 TTAATTAATAATA-TTTTA-C
**
100550240 TTAATTAATCTTATTTTAC
1 TTAATTAATAATATTTTAC
100550259 TTAATTAAT
1 TTAATTAAT
100550268 CAACATGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 5 0.19
21 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATTAATAATATTTTAC
Found at i:100550263 original size:19 final size:21
Alignment explanation
Indices: 100550219--100550269 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
100550209 TTAATTAAAA
*
100550219 TTAATTAATAATATTTTTATC
1 TTAATTAATCATATTTTTATC
*
100550240 TTAATTAATCTTA-TTTTA-C
1 TTAATTAATCATATTTTTATC
100550259 TTAATTAATCA
1 TTAATTAATCA
100550270 ACATGATCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
20 5 0.19
21 11 0.41
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTAATCATATTTTTATC
Found at i:100553815 original size:5 final size:5
Alignment explanation
Indices: 100553807--100553888 Score: 164
Period size: 5 Copynumber: 16.4 Consensus size: 5
100553797 TAGTTTACTC
100553807 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
100553857 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
100553889 TCTTATTTAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 77 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:100559363 original size:27 final size:27
Alignment explanation
Indices: 100559323--100559376 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
100559313 ATCTCTCTTG
100559323 TTATTGTTGCCTTATTTTCTTGTCATT
1 TTATTGTTGCCTTATTTTCTTGTCATT
*
100559350 TTATTGTTGTCTTATTTTCTTGTCATT
1 TTATTGTTGCCTTATTTTCTTGTCATT
100559377 CTCGTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.65
Consensus pattern (27 bp):
TTATTGTTGCCTTATTTTCTTGTCATT
Found at i:100562655 original size:2 final size:2
Alignment explanation
Indices: 100562648--100562677 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
100562638 TTATATTAAA
100562648 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
100562678 TACTACATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:100567722 original size:15 final size:15
Alignment explanation
Indices: 100567702--100567740 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
100567692 TAACGTCAAA
100567702 TTTCTTTTCCATTCT
1 TTTCTTTTCCATTCT
**
100567717 TTTCTTTGACATTCT
1 TTTCTTTTCCATTCT
*
100567732 TCTCTTTTC
1 TTTCTTTTC
100567741 GGTAAACCTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.26, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTCTTTTCCATTCT
Found at i:100574930 original size:40 final size:40
Alignment explanation
Indices: 100574885--100575052 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
100574875 CGGAATACAA
100574885 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * * *
100574925 CCGGATATAACGACTCGCACAAATGCCTTCAGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
100574965 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
100575005 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
100575045 CCGGATAT
1 CCGGATAT
100575053 CATTCAATTG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:100575025 original size:80 final size:80
Alignment explanation
Indices: 100574885--100575052 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
100574875 CGGAATACAA
* *
100574885 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
100574950 CCTTCAGGTATTAGC
66 CCTTCAGGTATTAAC
** *
100574965 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
* *
100575028 TGCCTTCGGGTCTTAAC
64 TGCCTTCAGGTATTAAC
100575045 CCGGATAT
1 CCGGATAT
100575053 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCAGGTATTAAC
Found at i:100590525 original size:15 final size:14
Alignment explanation
Indices: 100590476--100590541 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
100590466 CACACGTTCT
100590476 TTTCTTCTCTTTTTC
1 TTTCTT-TCTTTTTC
*
100590491 TTTATTTCTTTTTAC
1 TTTCTTTCTTTTT-C
* *
100590506 GTTCTTTCTTCTTC
1 TTTCTTTCTTTTTC
* *
100590520 TTTTCTTATCATTTTA
1 -TTTCTT-TCTTTTTC
100590536 TTTCTT
1 TTTCTT
100590542 GTTTTGCTGC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
14 8 0.20
15 27 0.68
16 5 0.12
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:100591977 original size:2 final size:2
Alignment explanation
Indices: 100591972--100592009 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
100591962 GTTTTTTTGC
100591972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100592010 TTTCTAATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100599261 original size:40 final size:40
Alignment explanation
Indices: 100599202--100599343 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
100599192 AAATTGAATG
* * *
100599202 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
100599242 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
100599282 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
100599322 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
100599344 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:100599344 original size:40 final size:39
Alignment explanation
Indices: 100599241--100599369 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
100599231 TGCTGGAAAT
* * *
100599241 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
100599281 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
100599321 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
100599361 TATATCCGG
1 TATATCCGG
100599370 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:100607280 original size:40 final size:40
Alignment explanation
Indices: 100607221--100607362 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
100607211 AAATTGAATG
* * *
100607221 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
100607261 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
100607301 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
100607341 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
100607363 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:100607363 original size:40 final size:39
Alignment explanation
Indices: 100607260--100607388 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
100607250 TGCTGGAAAT
* * *
100607260 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
100607300 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
100607340 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
100607380 TATATCCGG
1 TATATCCGG
100607389 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:100618519 original size:34 final size:32
Alignment explanation
Indices: 100618447--100618520 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 32
100618437 AATAAAAAGG
*
100618447 GAAAGAAAGGAAAAAAAAAAAAAAAGGAGGAA
1 GAAAGGAAGGAAAAAAAAAAAAAAAGGAGGAA
* *
100618479 GGAAGGAAGGAAGAAAGAAAAGAAAAA-GAGAGAA
1 GAAAGGAAGGAA-AAA-AAAAAAAAAAGGAG-GAA
*
100618513 TAAAGGAA
1 GAAAGGAA
100618521 AATTTTTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 10 0.29
33 6 0.18
34 18 0.53
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (32 bp):
GAAAGGAAGGAAAAAAAAAAAAAAAGGAGGAA
Found at i:100618836 original size:10 final size:11
Alignment explanation
Indices: 100618811--100618836 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
100618801 TGATCCAATT
100618811 TTTTTACTTGA
1 TTTTTACTTGA
100618822 TTTTTACTTGA
1 TTTTTACTTGA
100618833 TTTT
1 TTTT
100618837 GACAATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTTACTTGA
Found at i:100620108 original size:3 final size:3
Alignment explanation
Indices: 100620100--100620147 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
100620090 TAGGTTGAGG
100620100 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
100620148 AAAAGAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:100620803 original size:17 final size:17
Alignment explanation
Indices: 100620776--100620808 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100620766 TGTATTTTTA
100620776 TGAATTGTG-AATAAAG
1 TGAATTGTGAAATAAAG
100620792 TGAATATGTGAAATAAA
1 TGAAT-TGTGAAATAAA
100620809 AATGTAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
TGAATTGTGAAATAAAG
Found at i:100621667 original size:22 final size:24
Alignment explanation
Indices: 100621624--100621667 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
100621614 TGATAAAATG
100621624 TTTTGATATAACAAATTAAAGTAT
1 TTTTGATATAACAAATTAAAGTAT
*
100621648 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
100621668 TTAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTAT
Found at i:100626223 original size:2 final size:2
Alignment explanation
Indices: 100626213--100626248 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
100626203 GTTATGTGTG
* *
100626213 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100626249 CATGAGTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:100626700 original size:42 final size:42
Alignment explanation
Indices: 100626653--100626759 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
100626643 TATTGGTCTC
*
100626653 GGCACTAAGTGTGCGGGTATAAATGGACATAGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
*
100626695 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
* *
100626737 GGCACTAAGTGTGCTGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
100626760 ATTTGTACAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
Found at i:100626808 original size:28 final size:27
Alignment explanation
Indices: 100626768--100626837 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
100626758 AAATTTGTAC
* **
100626768 AGCACTAAATGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCG-AGCTGATTATAT
*
100626796 AGCACTATGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
100626823 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
100626838 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.65
28 13 0.35
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGATTATAT
Found at i:100626848 original size:27 final size:27
Alignment explanation
Indices: 100626791--100626849 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
100626781 CGAATTTGAT
* * *
100626791 TATATAGCACTATGTGTGCGAGCTGAT
1 TATATAGCACTAAGTGTGCGAGCTCAC
100626818 TATATAGCACTAAGTGTGCG-GACTCAC
1 TATATAGCACTAAGTGTGCGAG-CTCAC
100626845 TATAT
1 TATAT
100626850 GCTTTTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (27 bp):
TATATAGCACTAAGTGTGCGAGCTCAC
Found at i:100630775 original size:40 final size:39
Alignment explanation
Indices: 100630648--100630777 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
100630638 ATGCTGGAAA
* *
100630648 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
100630688 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
100630728 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
100630768 TTATATCCGG
1 TTATATCCGG
100630778 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:100645489 original size:2 final size:2
Alignment explanation
Indices: 100645479--100645514 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
100645469 GTTATGTGTG
*
100645479 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100645515 CATGAGTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:100646049 original size:27 final size:28
Alignment explanation
Indices: 100645992--100646061 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
100645982 AAATTTGTAC
**
100645992 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
100646020 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
100646047 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
100646062 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:100648153 original size:30 final size:30
Alignment explanation
Indices: 100648119--100648177 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
100648109 CATCATGTTT
*
100648119 GTCTTAATCTTCCTTTTTGTGTTCGTTTTG
1 GTCTTAATCTTCCTGTTTGTGTTCGTTTTG
** * *
100648149 GTCTTGGTTTTCGTGTTTGTGTTCGTTTT
1 GTCTTAATCTTCCTGTTTGTGTTCGTTTT
100648178 TATCTTCTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.03, C:0.14, G:0.22, T:0.61
Consensus pattern (30 bp):
GTCTTAATCTTCCTGTTTGTGTTCGTTTTG
Found at i:100648198 original size:30 final size:29
Alignment explanation
Indices: 100648133--100648198 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
100648123 TAATCTTCCT
* *
100648133 TTTTGTGTTCGTTTTGGTCTTGGTTTTCG
1 TTTTGTGTTCGTTTTGATCTTGCTTTTCG
*
100648162 TGTTTGTGTTCGTTTTTATCTT-CTTCTTCG
1 T-TTTGTGTTCGTTTTGATCTTGCTT-TTCG
100648192 CTTTTGT
1 -TTTTGT
100648199 CTCCATCATC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 3 0.10
30 27 0.87
31 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.21, T:0.64
Consensus pattern (29 bp):
TTTTGTGTTCGTTTTGATCTTGCTTTTCG
Found at i:100649389 original size:17 final size:17
Alignment explanation
Indices: 100649367--100649419 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
100649357 ATGTTAGTTC
100649367 AAACATATGATAAATAA
1 AAACATATGATAAATAA
* **
100649384 AAACAT-T--T-ACTGT
1 AAACATATGATAAATAA
100649397 AAACATATGATAAATAA
1 AAACATATGATAAATAA
100649414 AAACAT
1 AAACAT
100649420 TTACTGTACA
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
16 2 0.08
17 14 0.54
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.26
Consensus pattern (17 bp):
AAACATATGATAAATAA
Found at i:100649403 original size:30 final size:30
Alignment explanation
Indices: 100649367--100649427 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
100649357 ATGTTAGTTC
100649367 AAACATATGATAAATAAAAACATTTACTGT
1 AAACATATGATAAATAAAAACATTTACTGT
100649397 AAACATATGATAAATAAAAACATTTACTGT
1 AAACATATGATAAATAAAAACATTTACTGT
100649427 A
1 A
100649428 CAAACTACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.30
Consensus pattern (30 bp):
AAACATATGATAAATAAAAACATTTACTGT
Found at i:100650454 original size:18 final size:17
Alignment explanation
Indices: 100650402--100650454 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
100650392 GAACAAAAAC
*
100650402 TTGAGAGAATTGAGAGCA
1 TTGAAAGAATTGAGAG-A
*
100650420 TTGAAAGAGTT-AGGAGA
1 TTGAAAGAATTGA-GAGA
100650437 TTAGAAAGAATTGAGAGA
1 TT-GAAAGAATTGAGAGA
100650455 ATATGATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.14
18 24 0.83
19 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (17 bp):
TTGAAAGAATTGAGAGA
Found at i:100651132 original size:24 final size:25
Alignment explanation
Indices: 100651100--100651152 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
100651090 CTTTGGCCAA
100651100 CAACGCTTAGGATCCCTAGCTT-AT
1 CAACGCTTAGGATCCCTAGCTTGAT
*
100651124 CAACGCTTAGGATCCTTAGCTTGAT
1 CAACGCTTAGGATCCCTAGCTTGAT
100651149 CAAC
1 CAAC
100651153 TTTCTTTGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (25 bp):
CAACGCTTAGGATCCCTAGCTTGAT
Found at i:100655742 original size:24 final size:24
Alignment explanation
Indices: 100655715--100655766 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
100655705 TTAGCAAGTC
*
100655715 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
100655739 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
100655763 AAAT
1 AAAT
100655767 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:100656040 original size:24 final size:24
Alignment explanation
Indices: 100656006--100656057 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
100655996 TTTCTAGAAG
* *
100656006 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
100656030 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
100656054 ATTT
1 ATTT
100656058 GAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:100656068 original size:24 final size:24
Alignment explanation
Indices: 100656006--100656069 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
100655996 TTTCTAGAAG
* * *
100656006 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
*
100656030 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
100656054 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
100656070 AATTAGGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:100656731 original size:17 final size:17
Alignment explanation
Indices: 100656689--100656736 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
100656679 ATTTAATTCT
*
100656689 TATATTT-TAATTTTTA
1 TATATTTATAATATTTA
*
100656705 -ATATAATATAATATTTA
1 TATAT-TTATAATATTTA
100656722 TATATTTATAATATT
1 TATATTTATAATATT
100656737 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.15
16 1 0.04
17 17 0.65
18 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTATAATATTTA
Found at i:100660510 original size:5 final size:5
Alignment explanation
Indices: 100660500--100660540 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
100660490 ATTATTAAGC
*
100660500 AAAAT AAAAT AAAAT AAAAT AAAAT AAAGA- AAAAA AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT A
100660541 TACCTTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
4 1 0.03
5 31 0.94
6 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:100661137 original size:31 final size:28
Alignment explanation
Indices: 100661095--100661168 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
100661085 CTTTTTTCAC
*
100661095 ATTATTTTATTTTTATTTTAATATTATTT
1 ATTATTATATTTTTATTTTAATATTA-TT
* *
100661124 ATACTATTATA-TTTTA--TTACTGTTATT
1 AT--TATTATATTTTTATTTTAATATTATT
100661151 ATTATTATATTTTTATTT
1 ATTATTATATTTTTATTT
100661169 ATTAGCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
25 7 0.19
26 5 0.14
27 4 0.11
28 8 0.22
29 2 0.05
30 5 0.14
31 6 0.16
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (28 bp):
ATTATTATATTTTTATTTTAATATTATT
Found at i:100661386 original size:16 final size:16
Alignment explanation
Indices: 100661326--100661386 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
100661316 TTACGCATAC
100661326 ATATATTAATATTATATTAT
1 ATATATT-ATATT-T-TT-T
*
100661346 ATATATTATTTTTTTT
1 ATATATTATATTTTTT
*
100661362 AAATATTATATTTTTT
1 ATATATTATATTTTTT
*
100661378 ATATGTTAT
1 ATATATTAT
100661387 GTATATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 22 0.61
17 2 0.06
18 1 0.03
19 4 0.11
20 7 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATATATTATATTTTTT
Found at i:100661399 original size:21 final size:21
Alignment explanation
Indices: 100661338--100661445 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 21
100661328 ATATTAATAT
*
100661338 TATATTATATATATTATTTTT-
1 TATATTATGTATA-TATTTTTA
* *
100661359 TTTAAATAT-TATAT-TTTTTA
1 TAT-ATTATGTATATATTTTTA
*
100661379 TATGTTATGTATATATTTTTA
1 TATATTATGTATATATTTTTA
100661400 -ATATCATAT-TAGTCATATATTTTA
1 TATAT--TATGTA-T-ATAT-TTTTA
100661424 TTATATTATGTATATATTTTTA
1 -TATATTATGTATATATTTTTA
100661446 ATAACTATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
19 8 0.12
20 11 0.16
21 14 0.20
22 13 0.19
23 8 0.12
24 9 0.13
25 2 0.03
26 4 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
TATATTATGTATATATTTTTA
Found at i:100661422 original size:25 final size:25
Alignment explanation
Indices: 100661368--100661544 Score: 140
Period size: 25 Copynumber: 7.3 Consensus size: 25
100661358 TTTTAAATAT
*
100661368 TATATTTTT--TAT-ATGTTATGTA
1 TATATTTTTAATATCATATTATGTA
100661390 TATATTTTTAATATCATATTA-GTCA
1 TATATTTTTAATATCATATTATGT-A
100661415 TATA-TTTT-AT-T-ATATTATGTA
1 TATATTTTTAATATCATATTATGTA
*
100661436 TATATTTTTAATAACTATATTATGTA
1 TATATTTTTAATATC-ATATTATGTA
* * *
100661462 TGTATTTTTAACA-CTATATTACGTA
1 TATATTTTTAATATC-ATATTATGTA
* **
100661487 CATGCTTTTAATATCATTATTATGTA
1 TATATTTTTAATATCA-TATTATGTA
* * *
100661513 TACATTTTTAATAT-ATATATGTGTG
1 TATATTTTTAATATCATAT-TATGTA
100661538 TATATTT
1 TATATTT
100661545 ATGTAGTACT
Statistics
Matches: 124, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
21 11 0.09
22 16 0.13
23 4 0.03
24 12 0.10
25 41 0.33
26 40 0.32
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATATCATATTATGTA
Found at i:100661441 original size:46 final size:47
Alignment explanation
Indices: 100661368--100661470 Score: 140
Period size: 46 Copynumber: 2.2 Consensus size: 47
100661358 TTTTAAATAT
*
100661368 TATATTTTTTATATGTTATGTATATATTTTTAATATC-ATATTAGTCA
1 TATATTTTTTATA-GTTATGTATATATTTTTAATAACTATATTAGTCA
100661415 TATATTTTATTATA-TTATGTATATATTTTTAATAACTATATTATGT-A
1 TATATTTT-TTATAGTTATGTATATATTTTTAATAACTATATTA-GTCA
*
100661462 TGTATTTTT
1 TATATTTTT
100661471 AACACTATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
46 22 0.43
47 22 0.43
48 7 0.14
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (47 bp):
TATATTTTTTATAGTTATGTATATATTTTTAATAACTATATTAGTCA
Found at i:100661454 original size:26 final size:26
Alignment explanation
Indices: 100661383--100661542 Score: 124
Period size: 26 Copynumber: 6.4 Consensus size: 26
100661373 TTTTTATATG
*
100661383 TTATGTATATATTTTTAATATC-ATA
1 TTATGTATATATTTTTAATAACTATA
100661408 TTA-GTCATATA-TTTT-AT---TATA
1 TTATGT-ATATATTTTTAATAACTATA
100661429 TTATGTATATATTTTTAATAACTATA
1 TTATGTATATATTTTTAATAACTATA
* *
100661455 TTATGTATGTATTTTTAA-CACTATA
1 TTATGTATATATTTTTAATAACTATA
* * ** *
100661480 TTACGTACATGCTTTTAATATC-ATTA
1 TTATGTATATATTTTTAATAACTA-TA
*
100661506 TTATGTATACATTTTTAATATA-TATA
1 TTATGTATATATTTTTAATA-ACTATA
*
100661532 TGTGTGTATAT
1 T-TATGTATAT
100661543 TTATGTAGTA
Statistics
Matches: 105, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
21 11 0.10
22 6 0.06
23 4 0.04
24 6 0.06
25 28 0.27
26 42 0.40
27 8 0.08
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (26 bp):
TTATGTATATATTTTTAATAACTATA
Found at i:100665590 original size:22 final size:22
Alignment explanation
Indices: 100665565--100665609 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
100665555 ATTCATGACT
*
100665565 AACATTTATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
* *
100665587 AACATTCGTTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
100665609 A
1 A
100665610 TTCATCCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.49
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:100673999 original size:74 final size:73
Alignment explanation
Indices: 100673873--100674113 Score: 270
Period size: 74 Copynumber: 3.2 Consensus size: 73
100673863 TTCTGATATT
* * * * * *
100673873 TTTTTTATTTCAGTTATTCCAATAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGTCAC
1 TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCAC
100673938 GCTGAGGTA
66 G-TGAGGTA
* *
100673947 TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGTCAC
1 TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCAC
*
100674012 GTTTAGGTA
66 G-TGAGGTA
* * * *
100674021 TTTTTAA-TTCT-ATTTTCAAAAAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGTC
1 TTTTTAATTTCTGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--
100674084 TCACGTCGAGGTA
62 TCACGT-GAGGTA
* *
100674097 CTTTCAATTTCTGTTTT
1 TTTTTAATTTCTGTTTT
100674114 CAATTTTTAC
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
72 5 0.04
73 4 0.03
74 108 0.77
75 1 0.01
76 15 0.11
77 4 0.03
78 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (73 bp):
TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCAC
GTGAGGTA
Found at i:100674204 original size:90 final size:94
Alignment explanation
Indices: 100674041--100674308 Score: 312
Period size: 101 Copynumber: 2.8 Consensus size: 94
100674031 TATTTTCAAA
* * * * * *
100674041 AAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGTCTCACGTCGAGGTACTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTATTTTCAATT
*
100674106 TCT-GTTTTCAA-TTTTT-A-CGTTTTTC
66 TCTATTTTTCAATTTTTTAATCGTTTTTC
** * *
100674131 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGATTTGGGTCACACGTTGAGGT-TTTTCAACT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTATTTTCAATT
*
100674195 TCTATTTTTCAACTTCTGTTTTTAATTTTTGTTTTTC
66 TCTATTTTTCAA----T-TTTTTAA---TCGTTTTTC
*
100674232 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTATTTTCAATT
100674297 TCTATTTTTCAA
66 TCTATTTTTCAA
100674309 AAAAATCAAG
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
89 10 0.07
90 54 0.36
96 5 0.03
97 1 0.01
101 58 0.39
102 20 0.14
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (94 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTATTTTCAATT
TCTATTTTTCAATTTTTTAATCGTTTTTC
Found at i:100674217 original size:15 final size:14
Alignment explanation
Indices: 100674185--100674217 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
100674175 CACGTTGAGG
100674185 TTTTTCAACTTCTA
1 TTTTTCAACTTCTA
*
100674199 TTTTTCAACTTCTG
1 TTTTTCAACTTCTA
100674213 TTTTT
1 TTTTT
100674218 AATTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (14 bp):
TTTTTCAACTTCTA
Found at i:100674275 original size:101 final size:103
Alignment explanation
Indices: 100674098--100674308 Score: 336
Period size: 101 Copynumber: 2.1 Consensus size: 103
100674088 GTCGAGGTAC
*
100674098 TTTCAATTTCTGTTTTCAATTTTTACGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTG
1 TTTCAACTTCTGTTTTCAATTTTTA-GTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTG
* * *
100674163 AGATTTGGGTCACACGTTGAGGT-TTTTCAACTTCTATT
65 AGACTCGGGTCACACGCTGAGGTATTTTCAACTTCTATT
*
100674201 TTTCAACTTCTGTTTTTAATTTTT-GTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
1 TTTCAACTTCTGTTTTCAATTTTTAGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
* *
100674265 GCCTCGGGTCACACGCTGAGGTATTTTCAATTTCTATT
66 GACTCGGGTCACACGCTGAGGTATTTTCAACTTCTATT
100674303 TTTCAA
1 TTTCAA
100674309 AAAAATCAAG
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
101 58 0.58
102 20 0.20
103 22 0.22
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (103 bp):
TTTCAACTTCTGTTTTCAATTTTTAGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
GACTCGGGTCACACGCTGAGGTATTTTCAACTTCTATT
Found at i:100674381 original size:76 final size:76
Alignment explanation
Indices: 100674213--100674385 Score: 255
Period size: 76 Copynumber: 2.3 Consensus size: 76
100674203 TCAACTTCTG
*
100674213 TTTTTAATTTTTGTTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG-CA
100674276 CACGCTGAGGTA
65 CACGCTGAGGTA
* *
100674288 TTTTCAATTTCTATTTTTCAAAAAAATCAAGCTCATATTGCGAA-AGGTGAGTTGAGCCTCGGG-
1 TTTTCAATTTTTGTTTTTCAAAAAAATCAA-CTCATATTGC-AAGAGGTGAGTTGAGCCTCGGGC
100674351 ACACGCTGAGGTA
64 ACACGCTGAGGTA
*
100674364 TTTTCAGTTTTTGTTTTTCAAA
1 TTTTCAATTTTTGTTTTTCAAA
100674386 TTTTGTTTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
75 16 0.18
76 32 0.36
77 9 0.10
78 29 0.33
79 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (76 bp):
TTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCAC
ACGCTGAGGTA
Found at i:100674443 original size:268 final size:265
Alignment explanation
Indices: 100673947--100674444 Score: 668
Period size: 268 Copynumber: 1.9 Consensus size: 265
100673937 CGCTGAGGTA
* *
100673947 TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGTCAC
1 TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGTCAC
* * * * * *
100674012 GTTTAGGTATTTTTAATTCTATTTTCAAAAAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCC
66 GCTGAGGTATTTTCAATTCTATTTTCAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
* *
100674077 TCGAGTCTCACGTCGAGGTACTTTCAATTTCTGTTTTCAATTTTTACGTTTTTCAAAAATCAACT
131 TCGAGTCACACGTCGAGGTACTTTCAATTTCTGTTTTCAAATTTTA-GTTTTTCAAAAATCAACT
*
100674142 CATATTGCAAGAGGTGAGTTGAGATTTGGGTCACACGTTGAGGTTTTTCAACTTCTATTTTTCAA
195 CATATTGCAAGAGGTGAGTTGAGATTCGGGTCACACGTTGAGGTTTTTCAACTTCTATTTTTCAA
100674207 CTTCTG
260 CTTCTG
* *
100674213 TTTTTAATTTTTGTTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGT--C
100674277 ACGCTGAGGTATTTTCAATTTCTATTTTTC-AAAAAAATCAAGCTCATATTGCGAAAGGTGAGTT
64 ACGCTGAGGTATTTTCAA-TTCTA-TTTTCAAAAAAAATCAA-CTCATATTGCGAAAGGTGAGTT
* * * *
100674341 GAGCCTCG-G-GACACG-CTGAGGTATTTTCAGTTTTTGTTTTTCAAATTTT-GTTTTTATCAAA
126 GAGCCTCGAGTCACACGTC-GAGGTACTTTCAATTTCTG-TTTTCAAATTTTAG-TTTT-TCAAA
* * *
100674402 AGTCAGCTCATATTGCGAGAGGTGAGTTGAG-TCTCGGGTCACA
187 AATCAACTCATATTGCAAGAGGTGAGTTGAGAT-TCGGGTCACA
100674445 TGCCGAGGAT
Statistics
Matches: 202, Mismatches: 20, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
265 39 0.19
266 20 0.10
267 41 0.20
268 69 0.34
269 33 0.16
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (265 bp):
TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGTCAC
GCTGAGGTATTTTCAATTCTATTTTCAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
TCGAGTCACACGTCGAGGTACTTTCAATTTCTGTTTTCAAATTTTAGTTTTTCAAAAATCAACTC
ATATTGCAAGAGGTGAGTTGAGATTCGGGTCACACGTTGAGGTTTTTCAACTTCTATTTTTCAAC
TTCTG
Found at i:100674603 original size:21 final size:21
Alignment explanation
Indices: 100674556--100674609 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
100674546 TAGCAGAGCC
* * **
100674556 TTGAAGTTACAGTGGAGCTGA
1 TTGAAGTTGCAGTGAAGCACA
*
100674577 TCGAAGTTGCAGTGAAGCACA
1 TTGAAGTTGCAGTGAAGCACA
100674598 TTGAAGTTGCAG
1 TTGAAGTTGCAG
100674610 ATCTTATCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (21 bp):
TTGAAGTTGCAGTGAAGCACA
Found at i:100676329 original size:15 final size:15
Alignment explanation
Indices: 100676309--100676347 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
100676299 TATATTATGT
100676309 ATATTATTTTTTTAA
1 ATATTATTTTTTTAA
*
100676324 ATATTATATTTTTTTAT
1 ATA-T-TATTTTTTTAA
100676341 ATATTAT
1 ATATTAT
100676348 GTATATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 2 0.10
17 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTATTTTTTTAA
Found at i:100676333 original size:17 final size:17
Alignment explanation
Indices: 100676313--100676347 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
100676303 TTATGTATAT
100676313 TATTTTTTTAAATATTA
1 TATTTTTTTAAATATTA
*
100676330 TATTTTTTTATATATTA
1 TATTTTTTTAAATATTA
100676347 T
1 T
100676348 GTATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTTTAAATATTA
Found at i:100676378 original size:25 final size:25
Alignment explanation
Indices: 100676328--100676487 Score: 156
Period size: 26 Copynumber: 6.6 Consensus size: 25
100676318 TTTTAAATAT
*
100676328 TATATTTTT-TTAT-ATATTATGTA
1 TATATTTTTAATATCATATTATGTA
100676351 TATATTTTTAATATCATATTA-GTCA
1 TATATTTTTAATATCATATTATGT-A
100676376 TATA-TTTT-AT-T-ATATTATGTA
1 TATATTTTTAATATCATATTATGTA
*
100676397 TATATTTTTAATAACTATATTATGTA
1 TATATTTTTAATATC-ATATTATGTA
* * *
100676423 TGTATTTTTAACA-CTATATTACGTA
1 TATATTTTTAATATC-ATATTATGTA
* **
100676448 CATGCTTTTAATATCATTATTATGTA
1 TATATTTTTAATATCA-TATTATGTA
100676474 TATATTTTTAATAT
1 TATATTTTTAATAT
100676488 ATACATTTGT
Statistics
Matches: 112, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
21 11 0.10
22 7 0.06
23 13 0.12
24 9 0.08
25 31 0.28
26 41 0.37
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTTTTAATATCATATTATGTA
Found at i:100676391 original size:46 final size:44
Alignment explanation
Indices: 100676286--100676419 Score: 150
Period size: 46 Copynumber: 3.0 Consensus size: 44
100676276 ATTACGCATA
* * *
100676286 CATATATTAATATTATATTATGTATATTATTTTT-TTAAATATTAT
1 CATATATT-TTATTATATTATGTATA-TATTTTTAATACATATTAT
*
100676331 -AT-TTTTTTA-TATATTATGTATATATTTTTAATATCATATTAGT
1 CATATATTTTATTATATTATGTATATATTTTTAATA-CATATTA-T
100676374 CATATATTTTATTATATTATGTATATATTTTTAATAACTATATTAT
1 CATATATTTTATTATATTATGTATATATTTTTAAT-AC-ATATTAT
100676420 GTATGTATTT
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
40 7 0.09
41 15 0.20
42 8 0.11
43 4 0.05
44 4 0.05
45 6 0.08
46 25 0.33
47 7 0.09
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (44 bp):
CATATATTTTATTATATTATGTATATATTTTTAATACATATTAT
Found at i:100676498 original size:25 final size:24
Alignment explanation
Indices: 100676328--100676627 Score: 165
Period size: 25 Copynumber: 12.8 Consensus size: 24
100676318 TTTTAAATAT
*
100676328 TATATTTTT-TTATATATTATGTA
1 TATATTTTTAATATATATTATGTA
100676351 TATATTTTTAATATCATATTA-GTCA
1 TATATTTTTAATAT-ATATTATGT-A
100676376 TATA-TTTT-AT-TATATTATGTA
1 TATATTTTTAATATATATTATGTA
100676397 TATATTTTTAATAACTATATTATGTA
1 TATATTTTTAAT-A-TATATTATGTA
* * *
100676423 TGTATTTTTAACACTATATTACGTA
1 TATATTTTTAATA-TATATTATGTA
* **
100676448 CATGCTTTTAATATCATTATTATGTA
1 TATATTTTTAATAT-A-TATTATGTA
100676474 TATATTTTTAATATATACATT-TGTA
1 TATATTTTTAATATAT--ATTATGTA
* * *
100676499 TAT-TTATGTAGTAT-TATTA-ATA
1 TATATT-TTTAATATATATTATGTA
*
100676521 GT-TGTTTTTAATAT-TATTA--T-
1 -TATATTTTTAATATATATTATGTA
* *
100676541 TAT-TTCTAATATATATATTATGTA
1 TATATTTTTA-ATATATATTATGTA
*
100676565 TATA--TTT--TA-ATACTATGTA
1 TATATTTTTAATATATATTATGTA
* *
100676584 TATACCTTTTAATACTATTATTATGTT
1 TATA-TTTTTAATA-TA-TATTATGTA
*
100676611 TATA-TTTTAGTATATAT
1 TATATTTTTAATATATAT
100676628 ACGTATGTAT
Statistics
Matches: 219, Mismatches: 26, Indels: 64
0.71 0.08 0.21
Matches are distributed among these distances:
19 18 0.08
20 7 0.03
21 17 0.08
22 27 0.12
23 21 0.10
24 21 0.10
25 53 0.24
26 44 0.20
27 11 0.05
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATTTTTAATATATATTATGTA
Found at i:100676583 original size:19 final size:20
Alignment explanation
Indices: 100676559--100676601 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
100676549 ATATATATAT
100676559 TATGTATATA-TTTTAATAC
1 TATGTATATACTTTTAATAC
100676578 TATGTATATACCTTTTAATAC
1 TATGTATATA-CTTTTAATAC
100676599 TAT
1 TAT
100676602 TATTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
TATGTATATACTTTTAATAC
Found at i:100678590 original size:315 final size:315
Alignment explanation
Indices: 100678018--100678641 Score: 1095
Period size: 315 Copynumber: 2.0 Consensus size: 315
100678008 ACTCTGAGGA
* *
100678018 TCGTACCCAATGGAGGCTAGTACTAAATTAATTCTAACCTAAATGCAAATAGATCTAATTAGTAC
1 TCGTACCCAATGGAGGCTAGCACTAAATTAATTCTAACCTAAACGCAAATAGATCTAATTAGTAC
*
100678083 TTTAAATAAATCATATTACGATAAAATATAAATAGATTTTTTTAGGGTTTTATAAATAAAGGAAC
66 TTTAAATAAATCATATTACGATAAAATATAAATAGAATTTTTTAGGGTTTTATAAATAAAGGAAC
*
100678148 AAAATAACATAAATGAAGAAAACTAACTTATAAACTCTATCAAATCTAGCTATGGGTGATTAGCT
131 AAAATAACATAAATGAAGAAAACTAACTTATAAACTCTATCAAATCTAGCTATAGGTGATTAGCT
*
100678213 CATTTTGGTGGTCATAACTAATTCCTATTTTTGGGTTTCTATTAAATTAACTAGTCATTAACTTA
196 CACTTTGGTGGTCATAACTAATTCCTATTTTTGGGTTTCTATTAAATTAACTAGTCATTAACTTA
* *
100678278 GTAGGATTTTTTGATCTTCCACTAAACTAATGAGTCGACAAGAACTATTGATCTC
261 GCAGGATTTTTCGATCTTCCACTAAACTAATGAGTCGACAAGAACTATTGATCTC
* *
100678333 TCGTACCTAATGGAGGCTAGCACTAAATTAATTCTAACCTAAACGTAAATAGATCTAATTAGTAC
1 TCGTACCCAATGGAGGCTAGCACTAAATTAATTCTAACCTAAACGCAAATAGATCTAATTAGTAC
* * *
100678398 TTTAAATAAATCATATTACGATAAAATATAAATAGAATTTTTTGGGGTTTTATAAATAAATGATC
66 TTTAAATAAATCATATTACGATAAAATATAAATAGAATTTTTTAGGGTTTTATAAATAAAGGAAC
*
100678463 AAAATAACATAAATGAAGAAAACTAACTTATAAATTCTATCAAATCTAGCTATAGGTGATTAGCT
131 AAAATAACATAAATGAAGAAAACTAACTTATAAACTCTATCAAATCTAGCTATAGGTGATTAGCT
* *
100678528 CGCTTTGGTGGTCATAACTAATTTCTATTTTTGGGTTTCTATTAAATTAACTAGTCATTAACTTA
196 CACTTTGGTGGTCATAACTAATTCCTATTTTTGGGTTTCTATTAAATTAACTAGTCATTAACTTA
* *
100678593 GCAGGATTTTTCGATCTTCCACTAAACTAATGAGTCTATAAGAACTATT
261 GCAGGATTTTTCGATCTTCCACTAAACTAATGAGTCGACAAGAACTATT
100678642 TATTTCTTGA
Statistics
Matches: 292, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
315 292 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (315 bp):
TCGTACCCAATGGAGGCTAGCACTAAATTAATTCTAACCTAAACGCAAATAGATCTAATTAGTAC
TTTAAATAAATCATATTACGATAAAATATAAATAGAATTTTTTAGGGTTTTATAAATAAAGGAAC
AAAATAACATAAATGAAGAAAACTAACTTATAAACTCTATCAAATCTAGCTATAGGTGATTAGCT
CACTTTGGTGGTCATAACTAATTCCTATTTTTGGGTTTCTATTAAATTAACTAGTCATTAACTTA
GCAGGATTTTTCGATCTTCCACTAAACTAATGAGTCGACAAGAACTATTGATCTC
Found at i:100688573 original size:31 final size:31
Alignment explanation
Indices: 100688520--100688581 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
100688510 ATGTTTTCTT
*
100688520 TATTATTTTATTTTTATATAAGTTATCTTAA
1 TATTATTTTATTTTTATATAAGTTATATTAA
*
100688551 TATT-TTTTATTATTTATGTAAGTTATATTAA
1 TATTATTTTATT-TTTATATAAGTTATATTAA
100688582 GTTTTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (31 bp):
TATTATTTTATTTTTATATAAGTTATATTAA
Found at i:100696306 original size:9 final size:10
Alignment explanation
Indices: 100696286--100696318 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
100696276 AAGATTTACT
*
100696286 AAAAATCACA
1 AAAAATCCCA
100696296 AAAAA-CCCA
1 AAAAATCCCA
100696305 AAAAATCCCA
1 AAAAATCCCA
100696315 AAAA
1 AAAA
100696319 TCAGGGCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.70, C:0.24, G:0.00, T:0.06
Consensus pattern (10 bp):
AAAAATCCCA
Found at i:100696412 original size:25 final size:26
Alignment explanation
Indices: 100696357--100696418 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
100696347 TCCTTTTCAA
* *
100696357 TAATAATAATAATTTTATAAATATATC
1 TAATAATAA-AAATTTATAAATATACC
100696384 TAATAATAAAAATTTA-AAATAT-CC
1 TAATAATAAAAATTTATAAATATACC
100696408 GTAATAATAAA
1 -TAATAATAAA
100696419 TACAGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 16 0.50
26 6 0.19
27 9 0.28
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (26 bp):
TAATAATAAAAATTTATAAATATACC
Found at i:100701014 original size:68 final size:67
Alignment explanation
Indices: 100700942--100701118 Score: 173
Period size: 67 Copynumber: 2.6 Consensus size: 67
100700932 CATCATGTGT
* * * *
100700942 ACAAGAGAGCTACTAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
100701004 ATGTAG
62 ATGTAG
** * *
100701010 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
100701075 AG
66 AG
* * * * *
100701077 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGG
100701119 TACTGAGTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 20 0.22
65 7 0.08
66 21 0.23
67 32 0.34
68 13 0.14
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:100701047 original size:64 final size:64
Alignment explanation
Indices: 100700966--100701137 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 64
100700956 AGACATTATG
* *
100700966 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
100701030 ATGTAGCTAGGTCGCATGCGTGGCTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
100701095 AA
63 AA
* * * *
100701097 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGT
100701138 GTATAAGAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 21 0.24
65 7 0.08
66 18 0.21
67 32 0.37
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:100702235 original size:2 final size:2
Alignment explanation
Indices: 100702228--100702268 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
100702218 TCATGACATG
100702228 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100702269 GACTAGTCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100705706 original size:10 final size:10
Alignment explanation
Indices: 100705691--100705723 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
100705681 ATAACAATAT
100705691 TTTAATTTTA
1 TTTAATTTTA
*
100705701 TTTAATATTA
1 TTTAATTTTA
100705711 -TTAATTTTA
1 TTTAATTTTA
100705720 TTTA
1 TTTA
100705724 TTTGAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTAATTTTA
Found at i:100705716 original size:19 final size:18
Alignment explanation
Indices: 100705686--100705723 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
100705676 TGTTGATAAC
100705686 AATATTTTAATTTTATTT
1 AATATTTTAATTTTATTT
100705704 AATATTATTAATTTTATTT
1 AATATT-TTAATTTTATTT
100705723 A
1 A
100705724 TTTGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTTTAATTTTATTT
Found at i:100706591 original size:31 final size:32
Alignment explanation
Indices: 100706536--100706596 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
100706526 TTAGGGTTTT
*
100706536 CTATTAATGAAACGCTGAGTTTTACTATCAGC
1 CTATTAATGAAACGATGAGTTTTACTATCAGC
*
100706568 CTATTAATGAAAC-ATTAGTTTTACTATCA
1 CTATTAATGAAACGATGAGTTTTACTATCA
100706597 TCATATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (32 bp):
CTATTAATGAAACGATGAGTTTTACTATCAGC
Found at i:100707257 original size:27 final size:27
Alignment explanation
Indices: 100707227--100707281 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
100707217 ATTTAAGGGG
*
100707227 TCATACTCTAGGGTTAAAACGCATTTT
1 TCATACTCTAGGGTTAAAACACATTTT
*
100707254 TCATACTCTAGGGTTAAAGCACATTTT
1 TCATACTCTAGGGTTAAAACACATTTT
100707281 T
1 T
100707282 TGAAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (27 bp):
TCATACTCTAGGGTTAAAACACATTTT
Found at i:100713193 original size:2 final size:2
Alignment explanation
Indices: 100713186--100713226 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
100713176 TGCTCTTAAA
100713186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100713227 CTTGAACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:100716916 original size:79 final size:80
Alignment explanation
Indices: 100716768--100716990 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
100716758 TCGAATGATG
* * * *
100716768 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCCGGACTAAAAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTATAACCGGGCT-AAGTCCCGAAGGCA
*
100716830 TTTGTGCGAGTTACTAAA
63 TTGGTGCGAGTTACTAAA
* *
100716848 T-CGGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAG-CCCGAAGGCA
1 TCCGGG-CTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATA-ACCGGGCTAAGTCCCGAAGGCA
100716909 TTGGTGCGAGTTACTAAA
63 TTGGTGCGAGTTACTAAA
* *
100716927 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATT
100716991 TGAACGAGTA
Statistics
Matches: 124, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
78 1 0.01
79 71 0.57
80 43 0.35
81 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:100716956 original size:40 final size:40
Alignment explanation
Indices: 100716768--100716992 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
100716758 TCGAATGATG
* * *
100716768 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
100716808 TCCGGACTAAAAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
100716848 T-CGGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
100716887 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
100716927 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
100716968 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
100716993 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
39 40 0.25
40 106 0.65
41 16 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:100716991 original size:119 final size:120
Alignment explanation
Indices: 100716769--100716992 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
100716759 CGAATGATGT
* *
100716769 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAAATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAAATCCGAAGGCATTTG
* *
100716834 TGCGAGTTACTAAATCGGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
66 TGCGAGCTACTAAACCGGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
* * * * *
100716889 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGG-GTTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAAAT-CCGAAGGCATT
*
100716951 TGTGCGAGCTACTATAACCGGG-CTATG-TCCCGAAGGCATTTG
64 TGTGCGAGCTACTA-AACCGGGACTAAGAT-CCGAAGGCATTTG
100716993 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 5 0.06
119 63 0.70
120 22 0.24
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAAATCCGAAGGCATTTG
TGCGAGCTACTAAACCGGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:100717014 original size:79 final size:79
Alignment explanation
Indices: 100716821--100717025 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
100716811 GGACTAAAAT
* ** * *
100716821 CCGAAGGCATTTGTGCGAGTTACTAAAT-CGGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAC
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGG-TTAA-ATCCCGAAGGCATTTGTGCGAGCTAC
*
100716884 TAATCCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** *
100716900 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACT-
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGCTACTA
*
100716964 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
100716980 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
100717026 TACGTGATTC
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 78 0.72
80 28 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGCTACTA
ATACCGGGCTAAGC
Found at i:100728549 original size:29 final size:29
Alignment explanation
Indices: 100728511--100728570 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
100728501 ATGAATATAT
*
100728511 TGTGATTTGGG-CTGGATGGGCCATATAAA
1 TGTGAATTGGGCCT-GATGGGCCATATAAA
*
100728540 TGTGAATTGGGCCTGATGGGCCATATGAA
1 TGTGAATTGGGCCTGATGGGCCATATAAA
100728569 TG
1 TG
100728571 AGTTTGGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.30
Consensus pattern (29 bp):
TGTGAATTGGGCCTGATGGGCCATATAAA
Found at i:100738828 original size:25 final size:24
Alignment explanation
Indices: 100738800--100738862 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 24
100738790 ACCTTAGCGC
*
100738800 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTG-TTATTAGCACATTAGT
100738825 GCTCTCTG-TA-TAGCACATTAGT
1 GCTCTCTGTTATTAGCACATTAGT
100738847 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
100738863 TGCATAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 19 0.56
23 3 0.09
24 1 0.03
25 11 0.32
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACATTAGT
Found at i:100743176 original size:25 final size:26
Alignment explanation
Indices: 100743127--100743176 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
100743117 CTTTTCGTTT
** *
100743127 TCTTTTCATTTTTAGTTTAGGTTTTC
1 TCTTTTCATTTTTAGAGTAGATTTTC
100743153 TCTTTT-ATTTTTAGAGTAGATTTT
1 TCTTTTCATTTTTAGAGTAGATTTT
100743177 ATTATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.16, C:0.08, G:0.12, T:0.64
Consensus pattern (26 bp):
TCTTTTCATTTTTAGAGTAGATTTTC
Found at i:100749109 original size:55 final size:56
Alignment explanation
Indices: 100749001--100749125 Score: 150
Period size: 55 Copynumber: 2.3 Consensus size: 56
100748991 ATTAGGGTTT
* * *
100749001 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGATAAGGTTTATAAGGCA
* *
100749056 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGATAA-GTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGATAAGGTT--TATAAGGCA
*
100749112 AAGG-TCCCATGTAA
1 AAGGATACCATGTAA
100749126 AATGTTCATA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.05
54 7 0.11
55 47 0.77
56 4 0.07
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (56 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGATAAGGTTTATAAGGCA
Found at i:100749444 original size:16 final size:16
Alignment explanation
Indices: 100749423--100749453 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100749413 ATAAATTAAA
100749423 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
100749439 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
100749454 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:100755162 original size:17 final size:16
Alignment explanation
Indices: 100755127--100755187 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
100755117 ATAGATACAA
*
100755127 TATTTTTATTTCT-TT
1 TATTTTTATTTTTGTT
100755142 TATTTTTAATTTTTGTT
1 TATTTTT-ATTTTTGTT
*
100755159 TATTTTTGTTTATTTGTT
1 TATTTTT-ATT-TTTGTT
*
100755177 TATTTTCATTT
1 TATTTTTATTT
100755188 CATTTTGTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.18
16 6 0.16
17 13 0.34
18 12 0.32
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (16 bp):
TATTTTTATTTTTGTT
Found at i:100755164 original size:22 final size:21
Alignment explanation
Indices: 100755127--100755187 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
100755117 ATAGATACAA
* *
100755127 TATTTTTATTTCTTTTATTTT
1 TATTTTTGTTTATTTTATTTT
*
100755148 TAATTTTTGTTTATTTT-TGTT
1 T-ATTTTTGTTTATTTTATTTT
100755169 TA--TTTGTTTATTTTCATTT
1 TATTTTTGTTTATTTT-ATTT
100755188 CATTTTGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 12 0.36
20 3 0.09
21 5 0.15
22 13 0.39
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (21 bp):
TATTTTTGTTTATTTTATTTT
Found at i:100755165 original size:11 final size:10
Alignment explanation
Indices: 100755127--100755182 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
100755117 ATAGATACAA
*
100755127 TATTTTTATT
1 TATTTTTGTT
* *
100755137 TCTTTTATTTT
1 TATTTT-TGTT
100755148 TAATTTTTGTT
1 T-ATTTTTGTT
100755159 TATTTTTGTT
1 TATTTTTGTT
100755169 TA--TTTGTT
1 TATTTTTGTT
100755177 TATTTT
1 TATTTT
100755183 CATTTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.21
10 18 0.47
11 8 0.21
12 4 0.11
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (10 bp):
TATTTTTGTT
Found at i:100755174 original size:18 final size:17
Alignment explanation
Indices: 100755127--100755182 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 17
100755117 ATAGATACAA
*
100755127 TATTTTT-ATTTCT-TT
1 TATTTTTAATTTTTGTT
100755142 TATTTTTAATTTTTGTT
1 TATTTTTAATTTTTGTT
**
100755159 TATTTTTGTTTATTTGTT
1 TATTTTTAATT-TTTGTT
100755177 TATTTT
1 TATTTT
100755183 CATTTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
15 7 0.20
16 5 0.14
17 11 0.31
18 12 0.34
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (17 bp):
TATTTTTAATTTTTGTT
Found at i:100765172 original size:19 final size:19
Alignment explanation
Indices: 100765144--100765185 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
100765134 AATAAGGCCT
* *
100765144 ATTT-GGATTTTATTTTTC
1 ATTTGGGATTTAAATTTTC
100765162 ATTTGGGATTTAAATTTTC
1 ATTTGGGATTTAAATTTTC
100765181 -TTTGG
1 ATTTGG
100765186 TTATAACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.19, C:0.05, G:0.17, T:0.60
Consensus pattern (19 bp):
ATTTGGGATTTAAATTTTC
Found at i:100770076 original size:23 final size:23
Alignment explanation
Indices: 100770033--100770076 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
100770023 CCAATTCAAC
*
100770033 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
100770056 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
100770077 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:100773225 original size:27 final size:27
Alignment explanation
Indices: 100773181--100773392 Score: 171
Period size: 27 Copynumber: 7.9 Consensus size: 27
100773171 AAGACCTCGA
* *
100773181 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTACTAAAATACCCCTGG
* ***
100773208 TTTATAAAATTACTAAAATACCCCCAA
1 TTTGTAAAATTACTAAAATACCCCTGG
* **
100773235 TTTGTAAAATTACAAAAATACCATTGG
1 TTTGTAAAATTACTAAAATACCCCTGG
* * *
100773262 TTTGTAAAATTA-TCGAAATACCCCCGA
1 TTTGTAAAATTACT-AAAATACCCCTGG
* **
100773289 TTTGTAAAATTA-TCGAAATACCCCCAG
1 TTTGTAAAATTACT-AAAATACCCCTGG
* *
100773316 ATTGTAAAATTA-TCGAAATACCCCTGG
1 TTTGTAAAATTACT-AAAATACCCCTGG
* *
100773343 TTTGTAAAATTACTGAAATA-CCCTTG
1 TTTGTAAAATTACTAAAATACCCCTGG
* *
100773369 TAGTGTAAAATTACCAAAATACCC
1 T-TTGTAAAATTACTAAAATACCC
100773393 ATGTAGGGTA
Statistics
Matches: 152, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 6 0.04
27 143 0.94
28 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACTAAAATACCCCTGG
Found at i:100773308 original size:54 final size:54
Alignment explanation
Indices: 100773178--100773392 Score: 229
Period size: 54 Copynumber: 4.0 Consensus size: 54
100773168 GTTAAGACCT
* *
100773178 CGATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTA-CTAAAATACCCC
1 CGATTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTATC-AAAATACCCC
* * *
100773232 CAATTTGTAAAATTACAAAAATACCATTGGTTTGTAAAATTATCGAAATACCCC
1 CGATTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCC
* *** * *
100773286 CGATTTGTAAAATTATC-GAAATACCCCCAGATTGTAAAATTATCGAAATACCCC
1 CGATTTGTAAAATTA-CAAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCC
* * ** * *
100773340 TGGTTTGTAAAATTACTGAAATACCCTT-GTAGTGTAAAATTACCAAAATACCC
1 CGATTTGTAAAATTACAAAAATACCCTTGGT-TTGTAAAATTATCAAAATACCC
100773393 ATGTAGGGTA
Statistics
Matches: 137, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.01
54 133 0.97
55 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
CGATTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCC
Found at i:100773376 original size:81 final size:80
Alignment explanation
Indices: 100773181--100773392 Score: 227
Period size: 81 Copynumber: 2.6 Consensus size: 80
100773171 AAGACCTCGA
** *
100773181 TTTGTAAAATTACCAAAATACCCTTGGT-TTATAAAATTACTAAAATACCCCCAATTTGTAAAAT
1 TTTGTAAAATTACTGAAATACCCTT-GTATTGTAAAATTAC-AAAATACCCCCAATTTGTAAAAT
*
100773245 TACAAAAATACCATTGG
64 TACAAAAATACCACTGG
** *
100773262 TTTGTAAAATTA-TCGAAATACCCCCG-ATTTGTAAAATTATCGAAATACCCCCAGA-TTGTAAA
1 TTTGTAAAATTACT-GAAATACCCTTGTA-TTGTAAAATTA-CAAAATACCCCCA-ATTTGTAAA
* *
100773324 ATTATC-GAAATACCCCTGG
62 ATTA-CAAAAATACCACTGG
*
100773343 TTTGTAAAATTACTGAAATACCCTTGTAGTGTAAAATTACCAAAATACCC
1 TTTGTAAAATTACTGAAATACCCTTGTATTGTAAAATTA-CAAAATACCC
100773393 ATGTAGGGTA
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
80 1 0.01
81 103 0.94
82 5 0.05
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (80 bp):
TTTGTAAAATTACTGAAATACCCTTGTATTGTAAAATTACAAAATACCCCCAATTTGTAAAATTA
CAAAAATACCACTGG
Found at i:100773403 original size:27 final size:27
Alignment explanation
Indices: 100773346--100773406 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
100773336 CCCCTGGTTT
** * *
100773346 GTAAAATTACTGAAATACCCTTGTAGT
1 GTAAAATTACCAAAATACCCATGTAGG
100773373 GTAAAATTACCAAAATACCCATGTAGG
1 GTAAAATTACCAAAATACCCATGTAGG
100773400 GTAAAAT
1 GTAAAAT
100773407 GACTATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCATGTAGG
Found at i:100773804 original size:22 final size:22
Alignment explanation
Indices: 100773756--100773815 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
100773746 ATAACCTGAT
100773756 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * * *
100773778 AATGGCTCTGTGCCATCTTGAC
1 TATGGCTCTGTGCCAACCTAAA
*
100773800 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
100773816 ACATATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:100776277 original size:102 final size:102
Alignment explanation
Indices: 100776097--100776311 Score: 349
Period size: 102 Copynumber: 2.1 Consensus size: 102
100776087 ACCTTAGTGG
** * * *
100776097 TGTTTTGAATGTGAAATTGGTATGTTTGATTTAGCATAATGAAATGTCATGAGCATGATAGATGT
1 TGTTTTGGTTGTGAAATTGGTATGTTTGATTTAGCATAATAAAATGTCATGAACATGATAGACGT
* * *
100776162 TTGTATTGTATTGACATGTGTTGGCCATGATTGTAGA
66 TGGTATTGCATTGACATGTCTTGGCCATGATTGTAGA
*
100776199 TGTTTTGGTTGTGAAATTGGTATGTTTGATTTGGCATAATAAAATGTCATGAACATGATAGACGT
1 TGTTTTGGTTGTGAAATTGGTATGTTTGATTTAGCATAATAAAATGTCATGAACATGATAGACGT
100776264 TGGTATTGCATTGACATGTCTTGGCCATGATTGTAGA
66 TGGTATTGCATTGACATGTCTTGGCCATGATTGTAGA
100776301 TGTTTTGGTTG
1 TGTTTTGGTTG
100776312 CCTAAGTGTA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (102 bp):
TGTTTTGGTTGTGAAATTGGTATGTTTGATTTAGCATAATAAAATGTCATGAACATGATAGACGT
TGGTATTGCATTGACATGTCTTGGCCATGATTGTAGA
Found at i:100784523 original size:27 final size:25
Alignment explanation
Indices: 100784479--100784629 Score: 113
Period size: 27 Copynumber: 5.6 Consensus size: 25
100784469 TTAGTTTACC
*
100784479 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
*
100784505 AAATTACCAAAGTACCCCCAGTTTATA
1 AAATTACCAAA-TACCCCCAG-TTGTA
* * *
100784532 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATA-CCCCCAGTTGTA
* *
100784559 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACC-AAATACCCCCAG-TTGTA
* * *
100784586 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTAC-CAAATACCC-CCAGTTGTA
*
100784613 AAATTATCAAAGTACCC
1 AAATTACCAAA-TACCC
100784630 TCGATTTAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 17
0.74 0.14 0.13
Matches are distributed among these distances:
25 3 0.03
26 24 0.24
27 61 0.62
28 10 0.10
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.28
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTGTA
Found at i:100784575 original size:54 final size:54
Alignment explanation
Indices: 100784471--100784648 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 54
100784461 AGAATACTTT
* ** * *
100784471 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCC
* * * * *
100784524 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACCCTC
1 AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCC
* * * *
100784578 AGTTTGCAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCC
*
100784632 -GATTTAAAAAATTACCA
1 AG-TTTACAAAATTACCA
100784649 TTTTACCGTT
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
53 24 0.23
54 76 0.74
55 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCC
Found at i:100784618 original size:81 final size:81
Alignment explanation
Indices: 100784479--100784861 Score: 257
Period size: 81 Copynumber: 4.8 Consensus size: 81
100784469 TTAGTTTACC
* * * * *
100784479 AAATTACTGAAATACCCCCAG-TTGTAAAATTACCAAAGTACCC-CCAGTTTATAAAATTACCCA
1 AAATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCCA
100784542 AATATCCTC-GATTTGTA
65 AATA-CCTCTGATTTGTA
* * * *
100784559 AAATTACCGAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCGACTTGTAAAATTA-TCAA
1 AAATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCCAA
**
100784623 AGTACC-CTCGATTTAAA
66 A-TACCTCT-GATTTGTA
** * * ** *** * **
100784640 AAATTACC-ATTTTACCGTTAGTTTACAAAATTACCATTTTACCCTCGA-TTGTGAAATTACTGA
1 AAATTACCGA-AATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCCA
* **
100784703 AATACCCCTG-TAGGATA
65 AATACCTCTGATTTG-TA
* * * * * *
100784720 GAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACTCCTAG-TTTGTAAAATTGCCG
1 AAATTACCGAAATACCCTC-AGTTTGTAAAATTACCAAAATAC-CCTCGATTTGTAAAATTACCC
* ** *
100784783 AAATACCACTGGCTTGTG
64 AAATACCTCTGATTTGTA
* **
100784801 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTGATTTACAAAATTAC
1 AAATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTAC
100784862 AAAAATTCCC
Statistics
Matches: 232, Mismatches: 54, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
79 2 0.01
80 73 0.31
81 153 0.66
82 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCCAA
ATACCTCTGATTTGTA
Found at i:100784630 original size:27 final size:26
Alignment explanation
Indices: 100784500--100784861 Score: 177
Period size: 27 Copynumber: 13.5 Consensus size: 26
100784490 ATACCCCCAG
*
100784500 TTGTAAAATTACCAAAGTACCC-CCAGT
1 TTGTAAAATTACCAAA-TACCCTCGA-T
* *
100784527 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
100784554 TTGTAAAATTACCGAAATACCCTC-AGT
1 TTGTAAAATTACC-AAATACCCTCGA-T
* * *
100784581 TTGCAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
100784608 TTGTAAAATTATCAAAGTACCCTCGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
** ** * *
100784635 TTAAAAAATTACCATTTTACCGT-TAGT
1 TTGTAAAATTACCA-AATACCCTCGA-T
** **
100784662 TTACAAAATTACCATTTTACCCTCGA-
1 TTGTAAAATTACCA-AATACCCTCGAT
* *
100784688 TTGTGAAATTACTGAAATACCC-CTG-T
1 TTGTAAAATTAC-CAAATACCCTC-GAT
** * *
100784714 AGGATAGAATTACCAAAATACCC-CTGGT
1 TTG-TAAAATTACC-AAATACCCTC-GAT
*
100784742 TTGTAAAATTACCAAAATACTCCTAG-T
1 TTGTAAAATTACC-AAATAC-CCTCGAT
* **
100784769 TTGTAAAATTGCCGAAATACCACT-GGC
1 TTGTAAAATTACC-AAATACC-CTCGAT
* *
100784796 TTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACC-AAATACCCTCGAT
100784823 TTGTAAAATTACCAAAATACCC-CTGAT
1 TTGTAAAATTACC-AAATACCCTC-GAT
**
100784850 TTACAAAATTAC
1 TTGTAAAATTAC
100784862 AAAAATTCCC
Statistics
Matches: 263, Mismatches: 50, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
25 1 0.00
26 28 0.11
27 220 0.84
28 14 0.05
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:100784934 original size:27 final size:27
Alignment explanation
Indices: 100784721--100784934 Score: 76
Period size: 27 Copynumber: 7.9 Consensus size: 27
100784711 TGTAGGATAG
* * * **
100784721 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCGAAATACCCTTAGTTTACAA
* **
100784748 AATTACCAAAATACTCC-TAGTTTGTAA
1 AATTACCGAAATAC-CCTTAGTTTACAA
* * * ***
100784775 AATTGCCGAAATACCAC-TGGCTTGTGA
1 AATTACCGAAATACC-CTTAGTTTACAA
* * **
100784802 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTAGTTTACAA
* *
100784829 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCGAAATACCCTTAG-TTTACAA
** * *
100784856 AATTACAAAAATTCCCTTGACTTT-CTAAA
1 AATTACCGAAATACCCTT-AGTTTAC--AA
** ** *
100784885 AATTATAGAAATACTATTGGTTTACAA
1 AATTACCGAAATACCCTTAGTTTACAA
*
100784912 AATTACTGAAATACCCTTAGTTT
1 AATTACCGAAATACCCTTAGTTT
100784935 GTAGATTTAC
Statistics
Matches: 144, Mismatches: 34, Indels: 18
0.73 0.17 0.09
Matches are distributed among these distances:
26 2 0.01
27 118 0.82
28 8 0.06
29 16 0.11
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCGAAATACCCTTAGTTTACAA
Found at i:100785018 original size:27 final size:27
Alignment explanation
Indices: 100784975--100785048 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
100784965 AAATGACTAA
*
100784975 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
100785002 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
100785029 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
100785049 TGACAAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:100785052 original size:27 final size:27
Alignment explanation
Indices: 100784988--100785052 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
100784978 ACCCCTAATA
*
100784988 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
100785015 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
100785042 GGTAAAATGAC
1 GGTAAAATGAC
100785053 AAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:100785900 original size:25 final size:24
Alignment explanation
Indices: 100785862--100785931 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
100785852 AGGAAGTGCT
*
100785862 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCTAGTTTACC
* *
100785886 GAAAAGGGCTTTGCCTTAGTTTATC
1 -AAAAGGGCTTTGCCCTAGTTTACC
* *
100785911 AGAAATGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCTAGTT
100785932 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCTAGTTTACC
Found at i:100786146 original size:42 final size:42
Alignment explanation
Indices: 100786087--100786169 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
100786077 CCAAATTGGC
*
100786087 TTGCATACATTCATTGACATTACATGTGATATTGAAATGGGA
1 TTGCATACATCCATTGACATTACATGTGATATTGAAATGGGA
100786129 TTGCATACATCCATTGACATTACATGTGATATTGAAATGGG
1 TTGCATACATCCATTGACATTACATGTGATATTGAAATGGG
100786170 CCTAAGGGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (42 bp):
TTGCATACATCCATTGACATTACATGTGATATTGAAATGGGA
Found at i:100786232 original size:31 final size:31
Alignment explanation
Indices: 100786194--100786308 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
100786184 CGTTTACAGT
*
100786194 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
100786225 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
100786256 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
100786287 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
100786309 TCAAGACTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:100788462 original size:75 final size:75
Alignment explanation
Indices: 100788325--100788489 Score: 224
Period size: 75 Copynumber: 2.2 Consensus size: 75
100788315 CTAACGGAAG
* * * ** *
100788325 TTGCATCCATCGCTAGTCAGATAAACCGACGAAATAATTAGTGAGTGCAGCTCTAGCCGGATAAG
1 TTGCAGCCAACGCTAGTCAGATAAACCAACGAAATAATTAGTGAGCCCAGCTCTAGCCGGATAAA
100788390 CCAACGATAT
66 CCAACGATAT
* * **
100788400 TTG-AGCACAACGCTAGTCAGATAAACCAATGAAATAATTAGTGAGCCCGGCTCTAGTTGGATAA
1 TTGCAGC-CAACGCTAGTCAGATAAACCAACGAAATAATTAGTGAGCCCAGCTCTAGCCGGATAA
100788464 ACCAACGATAT
65 ACCAACGATAT
100788475 TTGCAGCCAACGCTA
1 TTGCAGCCAACGCTA
100788490 ATCGAATAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
74 2 0.03
75 73 0.94
76 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (75 bp):
TTGCAGCCAACGCTAGTCAGATAAACCAACGAAATAATTAGTGAGCCCAGCTCTAGCCGGATAAA
CCAACGATAT
Found at i:100789453 original size:11 final size:11
Alignment explanation
Indices: 100789437--100789465 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
100789427 TTTCGAAAAG
100789437 AAGAAAATTAA
1 AAGAAAATTAA
100789448 AAG-AAATTAA
1 AAGAAAATTAA
100789458 AAGAAAAT
1 AAGAAAAT
100789466 ATGCTTGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (11 bp):
AAGAAAATTAA
Found at i:100796563 original size:75 final size:75
Alignment explanation
Indices: 100796389--100796565 Score: 196
Period size: 75 Copynumber: 2.4 Consensus size: 75
100796379 GGTGTTACAG
* * * *
100796389 TTTGCACCCAGTGCTAATCGGATAAACTGACGAAATAATTAGTGAGTGCAACTCTAGTTCAATAA
1 TTTGCGCCCAGTGCTAATAGGATAAACTAACGAAATAATTAGTGAGTCCAACTCTAGTTCAATAA
* *
100796454 ACCAATAATG
66 ACCAACAATA
* * * * **
100796464 TTTGTGCCCAGCGCTAGTTA-GATAAACTAACGAAATAATTAGTGAG-CCTAGCTCTAGTTGGAT
1 TTTGCGCCCAGTGCTA-ATAGGATAAACTAACGAAATAATTAGTGAGTCC-AACTCTAGTTCAAT
*
100796527 AAACCAACGATA
64 AAACCAACAATA
*
100796539 TTTGCGCCCAATGCTAATAGGATAAAC
1 TTTGCGCCCAGTGCTAATAGGATAAAC
100796566 AGAAGAATGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
74 3 0.04
75 78 0.95
76 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (75 bp):
TTTGCGCCCAGTGCTAATAGGATAAACTAACGAAATAATTAGTGAGTCCAACTCTAGTTCAATAA
ACCAACAATA
Found at i:100800053 original size:39 final size:39
Alignment explanation
Indices: 100799946--100800080 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
100799936 GACCTCGAGT
* * *
100799946 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG-TC
* ** ** *
100799987 CAATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
100800025 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
100800064 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
100800081 CCATATTGGT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 3 0.04
41 14 0.19
42 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:100801677 original size:12 final size:12
Alignment explanation
Indices: 100801660--100801687 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
100801650 ACAGTTTTAG
100801660 CACGGCCTAGCA
1 CACGGCCTAGCA
100801672 CACGGCCTAGCA
1 CACGGCCTAGCA
100801684 CACG
1 CACG
100801688 AGCATGTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.43, G:0.25, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:100803981 original size:36 final size:36
Alignment explanation
Indices: 100803933--100804344 Score: 418
Period size: 36 Copynumber: 11.3 Consensus size: 36
100803923 AGGAACACTA
*
100803933 ATTCTACT-AAAGTGCTCAATGAGCAATATCTACTG
1 ATTCTACTGAAAGTGCTCAACGAGCAATATCTACTG
*
100803968 ATACTACTGAAAGTGCTCAACGAGCAATATCTACTG
1 ATTCTACTGAAAGTGCTCAACGAGCAATATCTACTG
* * * * * *
100804004 ATCCTACTGAATGTGCTCAAACAAGAAATGTCTAATG
1 ATTCTACTGAAAGTGCTC-AACGAGCAATATCTACTG
*
100804041 ATTCTACTGAAAGTGCTCAA-AAGACAAATATCTACTG
1 ATTCTACTGAAAGTGCTCAACGAG-C-AATATCTACTG
* * *
100804078 GTTCTATTGAAAGTGCTCAACAAGCAATATCTACTG
1 ATTCTACTGAAAGTGCTCAACGAGCAATATCTACTG
* * * * *
100804114 ATCCTACTGAATGTGCTTAAACGAGCAATGTCTATTG
1 ATTCTACTGAAAGTGC-TCAACGAGCAATATCTACTG
* *
100804151 ATTCTACTG-AAGTGCTTAACCAAGCAATATCTACTG
1 ATTCTACTGAAAGTGCTCAA-CGAGCAATATCTACTG
* * *
100804187 ATTCTACTAAAAGTGCTCAACGATCAATATCAACTG
1 ATTCTACTGAAAGTGCTCAACGAGCAATATCTACTG
* * * * *
100804223 ATCCTACTGAATGTCCTCAAACGAGCAATGTCTACTA
1 ATTCTACTGAAAGTGCTC-AACGAGCAATATCTACTG
* *
100804260 ATTCTACTG-AAGTGCTCAAACAAGCAATATCTACTA
1 ATTCTACTGAAAGTGCTC-AACGAGCAATATCTACTG
* *
100804296 ATTCTACTGAATGGTTGCTCAAACGAGCAATATCCACTG
1 ATTCTACTGAA-AG-TGCTC-AACGAGCAATATCTACTG
*
100804335 ATTATACTGA
1 ATTCTACTGA
100804345 TTGTTTGATT
Statistics
Matches: 313, Mismatches: 52, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
35 13 0.04
36 152 0.49
37 114 0.36
38 4 0.01
39 30 0.10
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (36 bp):
ATTCTACTGAAAGTGCTCAACGAGCAATATCTACTG
Found at i:100804055 original size:73 final size:73
Alignment explanation
Indices: 100803933--100804344 Score: 440
Period size: 73 Copynumber: 5.6 Consensus size: 73
100803923 AGGAACACTA
* ** *
100803933 ATTCTACT-AAAGTGCTC-AATGAGCAATATCTACTGATACTACTGAAAGTGCTCAACGAGCAAT
1 ATTCTACTGAATGTGCTCAAACAAGCAATATCTACTGATTCTACTGAAAGTGCTCAACGAGCAAT
100803996 ATCTACTG
66 ATCTACTG
* * * * *
100804004 ATCCTACTGAATGTGCTCAAACAAGAAATGTCTAATGATTCTACTGAAAGTGCTCAA-AAGACAA
1 ATTCTACTGAATGTGCTCAAACAAGCAATATCTACTGATTCTACTGAAAGTGCTCAACGAG-C-A
100804068 ATATCTACTG
64 ATATCTACTG
* * * * * *
100804078 GTTCTATTGAAAGTGCTC-AACAAGCAATATCTACTGATCCTACTGAATGTGCTTAAACGAGCAA
1 ATTCTACTGAATGTGCTCAAACAAGCAATATCTACTGATTCTACTGAAAGTGC-TCAACGAGCAA
* *
100804142 TGTCTATTG
65 TATCTACTG
* * * *
100804151 ATTCTACTGAA-GTGCTTAACCAAGCAATATCTACTGATTCTACTAAAAGTGCTCAACGATCAAT
1 ATTCTACTGAATGTGCTCAAACAAGCAATATCTACTGATTCTACTGAAAGTGCTCAACGAGCAAT
*
100804215 ATCAACTG
66 ATCTACTG
* * * * * *
100804223 ATCCTACTGAATGTCCTCAAACGAGCAATGTCTACTAATTCTACTG-AAGTGCTCAAACAAGCAA
1 ATTCTACTGAATGTGCTCAAACAAGCAATATCTACTGATTCTACTGAAAGTGCTC-AACGAGCAA
*
100804287 TATCTACTA
65 TATCTACTG
* * *
100804296 ATTCTACTGAATGGTTGCTCAAACGAGCAATATCCACTGATTATACTGA
1 ATTCTACTGAAT-G-TGCTCAAACAAGCAATATCTACTGATTCTACTGA
100804345 TTGTTTGATT
Statistics
Matches: 277, Mismatches: 52, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
71 7 0.03
72 48 0.17
73 162 0.58
74 30 0.11
75 30 0.11
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (73 bp):
ATTCTACTGAATGTGCTCAAACAAGCAATATCTACTGATTCTACTGAAAGTGCTCAACGAGCAAT
ATCTACTG
Found at i:100804228 original size:109 final size:108
Alignment explanation
Indices: 100803933--100804336 Score: 522
Period size: 109 Copynumber: 3.7 Consensus size: 108
100803923 AGGAACACTA
* ** * *
100803933 ATTCTACTAAAGTGCTCAATGAGCAATATCTACTGATACTACTGAAAGTGCTCAACGAGCAATAT
1 ATTCTACTGAAGTGCTCAACAAGCAATATCTACTGATTCTACTAAAAGTGCTCAACGAGCAATAT
* *
100803998 CTACTGATCCTACTGAATGTGCTCAAACAAGAAATGTCTAATG
66 CTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAATG
* * * *
100804041 ATTCTACTGAAAGTGCTCAA-AAGACAAATATCTACTGGTTCTATTGAAAGTGCTCAACAAGCAA
1 ATTCTACTG-AAGTGCTCAACAAG-C-AATATCTACTGATTCTACTAAAAGTGCTCAACGAGCAA
* *
100804105 TATCTACTGATCCTACTGAATGTGCTTAAACGAGCAATGTCTATTG
63 TATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAATG
* *
100804151 ATTCTACTGAAGTGCTTAACCAAGCAATATCTACTGATTCTACTAAAAGTGCTCAACGATCAATA
1 ATTCTACTGAAGTGCTCAA-CAAGCAATATCTACTGATTCTACTAAAAGTGCTCAACGAGCAATA
* * * *
100804216 TCAACTGATCCTACTGAATGTCCTCAAACGAGCAATGTCTACTA
65 TCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAATG
* **
100804260 ATTCTACTGAAGTGCTCAAACAAGCAATATCTACTAATTCTACTGAATGGTTGCTCAAACGAGCA
1 ATTCTACTGAAGTGCTC-AACAAGCAATATCTACTGATTCTACT-AAAAG-TGCTC-AACGAGCA
*
100804325 ATATCCACTGAT
62 ATATCTACTGAT
100804337 TATACTGATT
Statistics
Matches: 260, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
108 10 0.04
109 133 0.51
110 91 0.35
111 8 0.03
112 18 0.07
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (108 bp):
ATTCTACTGAAGTGCTCAACAAGCAATATCTACTGATTCTACTAAAAGTGCTCAACGAGCAATAT
CTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAATG
Found at i:100804447 original size:39 final size:39
Alignment explanation
Indices: 100803945--100804455 Score: 255
Period size: 36 Copynumber: 13.7 Consensus size: 39
100803935 TCTACTAAAG
* * *
100803945 TGCTC-AATGAGCAATATCTACTGA-TACTACTGAAAG--
1 TGCTCAAACGAGCAATATCCACTGATTA-TACTGAATGTT
* **
100803981 TGCTC-AACGAGCAATATCTACTGATCCTACTGAATG--
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * * * * *
100804017 TGCTCAAACAAGAAATGTCTAATGATTCTACTGAAAG--
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * * * *
100804054 TGCTCAAAAGA-CAAATATCTACTGGTTCTATTGAAAG--
1 TGCTCAAACGAGC-AATATCCACTGATTATACTGAATGTT
* * **
100804091 TGCTC-AACAAGCAATATCTACTGATCCTACTGAATG--
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * * *
100804127 TGCTTAAACGAGCAATGTCTATTGATTCTACTGAA-G--
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * * * * *
100804163 TGCTTAACCAAGCAATATCTACTGATTCTACTAAAAG--
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * **
100804200 TGCTC-AACGATCAATATCAACTGATCCTACTGAATG--
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * * *
100804236 TCCTCAAACGAGCAATGTCTACTAATTCTACTGAA-G--
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * * *
100804272 TGCTCAAACAAGCAATATCTACTAATTCTACTGAATGGT
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
*
100804311 TGCTCAAACGAGCAATATCCACTGATTATACTGATTGTT
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * * * *
100804350 TGATTAAATGAGCAATACCCACTGATTATACTAAATATT
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* * * **
100804389 TTCTCAAACGAGCGATATCCATTGATTATACTGAATGCA
1 TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
* *
100804428 TGCTCAAACGAGCCATATCCATTGATTA
1 TGCTCAAACGAGCAATATCCACTGATTA
100804456 CGCGAAATGA
Statistics
Matches: 389, Mismatches: 76, Indels: 17
0.81 0.16 0.04
Matches are distributed among these distances:
36 155 0.40
37 115 0.30
39 119 0.31
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (39 bp):
TGCTCAAACGAGCAATATCCACTGATTATACTGAATGTT
Found at i:100806981 original size:25 final size:25
Alignment explanation
Indices: 100806953--100807050 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 25
100806943 GTGAATTTTC
100806953 TAAAAA-CCTCTTATGGCAAATTATG
1 TAAAAAGCCT-TTATGGCAAATTATG
* *
100806978 TAAAAAGCCTTTGTGGCAAATTATA
1 TAAAAAGCCTTTATGGCAAATTATG
* * * * *
100807003 TGAAAATCCTTTAAGGTAAATTATT
1 TAAAAAGCCTTTATGGCAAATTATG
* * * *
100807028 TGAAGAGCCTTTGTGGCATATTA
1 TAAAAAGCCTTTATGGCAAATTA
100807051 CCTGGAAAGC
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 55 0.95
26 3 0.05
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (25 bp):
TAAAAAGCCTTTATGGCAAATTATG
Found at i:100809151 original size:30 final size:30
Alignment explanation
Indices: 100809115--100809215 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
100809105 GACAAGATTG
* * *
100809115 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100809145 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100809173 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
100809202 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100809216 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:100809227 original size:29 final size:28
Alignment explanation
Indices: 100809144--100809219 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
100809134 AAAATTGTAC
* *
100809144 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
100809172 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
100809201 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
100809220 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:100817029 original size:28 final size:28
Alignment explanation
Indices: 100816962--100817062 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
100816952 GACAAGATTG
* * * *
100816962 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
* *
100816992 GCACTGAGTGTGCGAGTTTGATTTTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
100817020 GCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGTTTG--ATTATATA
100817049 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100817063 GATTCACTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 21 0.35
29 20 0.33
30 17 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:100835210 original size:46 final size:46
Alignment explanation
Indices: 100835143--100835236 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
100835133 AAAATGAGAG
100835143 TAAGATTTAGCATGTCTAGTTCTAGTTAGTGTAAGAATGTATATTA
1 TAAGATTTAGCATGTCTAGTTCTAGTTAGTGTAAGAATGTATATTA
100835189 TAAGATTTAGCATGTCTAGTTCTAGTTAGTGTAAGAATGTATATTA
1 TAAGATTTAGCATGTCTAGTTCTAGTTAGTGTAAGAATGTATATTA
100835235 TA
1 TA
100835237 TACATGATGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (46 bp):
TAAGATTTAGCATGTCTAGTTCTAGTTAGTGTAAGAATGTATATTA
Found at i:100837668 original size:21 final size:22
Alignment explanation
Indices: 100837626--100837669 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
100837616 GCTTCATCGA
* *
100837626 AAAGGTTGAGGCTTCGAGTCTT
1 AAAGGTTGAGGATTCAAGTCTT
100837648 AAAGGTTG-GGATTCAAGTCTT
1 AAAGGTTGAGGATTCAAGTCTT
100837669 A
1 A
100837670 TCATTCGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (22 bp):
AAAGGTTGAGGATTCAAGTCTT
Found at i:100838545 original size:17 final size:16
Alignment explanation
Indices: 100838511--100838548 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
100838501 AAGATTTAAC
100838511 TTTTATATTTTAATTT
1 TTTTATATTTTAATTT
100838527 TTTTA-ATTTTCATATTT
1 TTTTATATTTT-A-ATTT
100838544 TTTTA
1 TTTTA
100838549 CTTCAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATATTTTAATTT
Found at i:100839147 original size:27 final size:27
Alignment explanation
Indices: 100839117--100839241 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
100839107 GTGTGGGTGC
*
100839117 CAGAGGAGGCACCGGTTGTGCCTCTGG
1 CAGAGGCGGCACCGGTTGTGCCTCTGG
*
100839144 CAGAGGCGGCACCGATTGTGCCTCTGG
1 CAGAGGCGGCACCGGTTGTGCCTCTGG
* **** *
100839171 CAGAGGCGGCACCGGGTGGTGTGGGTGC
1 CAGAGGCGGCACC-GGTTGTGCCTCTGG
* ** *
100839199 CAGAGGCGGTATTGGTTGTACCTCTGG
1 CAGAGGCGGCACCGGTTGTGCCTCTGG
*
100839226 CAGAGGCAGCACCGGT
1 CAGAGGCGGCACCGGT
100839242 GGTGTGGGTC
Statistics
Matches: 74, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
27 57 0.77
28 17 0.23
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.18
Consensus pattern (27 bp):
CAGAGGCGGCACCGGTTGTGCCTCTGG
Found at i:100839257 original size:82 final size:81
Alignment explanation
Indices: 100839104--100839265 Score: 200
Period size: 82 Copynumber: 2.0 Consensus size: 81
100839094 ATAAAAAAAT
* *
100839104 GTGGTGTGGGTGCCAGAGGAGGCACCGGTTGTGCCTCTGGCAGAGGCGGCACCGATTGTGCCTCT
1 GTGGTGTGGGTGCCAGAGGAGGCACCGGTTGTACCTCTGGCAGAGGCAGCACCGATTGTGCCTC-
*
100839169 GGCAGAGGCGGCACCGG
65 GCCAGAGGCGGCACCGG
* * ** * **
100839186 GTGGTGTGGGTGCCAGAGGCGGTATTGGTTGTACCTCTGGCAGAGGCAGCACCGGTGGTGTGGGT
1 GTGGTGTGGGTGCCAGAGGAGGCACCGGTTGTACCTCTGGCAGAGGCAGCACCGAT--TGTGCCT
100839251 C-CCAGAGGCGGCACC
64 CGCCAGAGGCGGCACC
100839266 TAAGCAGTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 62 0.91
84 6 0.09
ACGTcount: A:0.14, C:0.24, G:0.44, T:0.19
Consensus pattern (81 bp):
GTGGTGTGGGTGCCAGAGGAGGCACCGGTTGTACCTCTGGCAGAGGCAGCACCGATTGTGCCTCG
CCAGAGGCGGCACCGG
Found at i:100839463 original size:15 final size:16
Alignment explanation
Indices: 100839419--100839475 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 16
100839409 TTAAATAATG
100839419 GATTTTTA-TATTGTT
1 GATTTTTATTATTGTT
*
100839434 -ATTGTGT-TT-TTGTT
1 GATT-TTTATTATTGTT
100839448 G-TTTTTATTATTGTT
1 GATTTTTATTATTGTT
100839463 GATTTTTATTATT
1 GATTTTTATTATT
100839476 TTTTGTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
13 2 0.06
14 12 0.35
15 9 0.26
16 11 0.32
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (16 bp):
GATTTTTATTATTGTT
Done.