Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 172 of 228
Found at i:51540558 original size:23 final size:22
Alignment explanation
Indices: 51540524--51540591 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
51540514 ATTTTTAAAT
51540524 TTTTTAAATTTATAATTATATA
1 TTTTTAAATTTATAATTATATA
*
51540546 TTTTTAAATTT-T-ATTAAAAATA
1 TTTTTAAATTTATAATT--ATATA
*
51540568 TTTTTAAAATTATATATTATATA
1 TTTTTAAATTTATA-ATTATATA
51540591 T
1 T
51540592 GATTTTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 25 0.66
23 6 0.16
25 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTAAATTTATAATTATATA
Found at i:51542948 original size:25 final size:27
Alignment explanation
Indices: 51542920--51542978 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
51542910 GTGTAATATA
*
51542920 CACGAGCTGA-GAATCAGTAAGCTC-T
1 CACGAGCTGACAAATCAGTAAGCTCAT
*
51542945 CACGAGCT-ACAAATCGGTAAGCTCAT
1 CACGAGCTGACAAATCAGTAAGCTCAT
51542971 -ACGAGCTG
1 CACGAGCTG
51542979 TGTGTGTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (27 bp):
CACGAGCTGACAAATCAGTAAGCTCAT
Found at i:51549434 original size:15 final size:13
Alignment explanation
Indices: 51549403--51549428 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51549393 ATGTAGGGGA
51549403 CACATGGCCATGT
1 CACATGGCCATGT
51549416 CACATGGCCATGT
1 CACATGGCCATGT
51549429 GTCACACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CACATGGCCATGT
Found at i:51550234 original size:21 final size:21
Alignment explanation
Indices: 51550208--51550250 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51550198 ATACATGTAT
*
51550208 GCTCATACGAGCTGTGAATCG
1 GCTCATACGAGCTGAGAATCG
*
51550229 GCTCATACGAGTTGAGAATCG
1 GCTCATACGAGCTGAGAATCG
51550250 G
1 G
51550251 TAAGCTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTCATACGAGCTGAGAATCG
Found at i:51556374 original size:24 final size:24
Alignment explanation
Indices: 51556347--51556423 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
51556337 GTGCTTTCTA
51556347 GTTAAGTGCT-TTTCGGAGCTTCCC
1 GTTAAGTGCTCTTT-GGAGCTTCCC
*
51556371 GTTAAGTGCTCTTTGGAGCTACCC
1 GTTAAGTGCTCTTTGGAGCTTCCC
*
51556395 GATATAG-GCTCTTTGTGAGCTTCCC
1 GTTA-AGTGCTCTTTG-GAGCTTCCC
51556420 GTTA
1 GTTA
51556424 TTAAGCCCGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 30 0.65
25 16 0.35
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (24 bp):
GTTAAGTGCTCTTTGGAGCTTCCC
Found at i:51559507 original size:22 final size:22
Alignment explanation
Indices: 51559463--51559521 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
51559453 ATGAATGTTG
*
51559463 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
51559487 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
51559509 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
51559522 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:51563532 original size:3 final size:3
Alignment explanation
Indices: 51563524--51563553 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
51563514 TGTCTATCAA
51563524 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
51563554 TTTCTCTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:51566138 original size:21 final size:21
Alignment explanation
Indices: 51566114--51566153 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51566104 CGTATAAGAA
* *
51566114 ATTAATTTATTAGAGAAATGC
1 ATTAATTTATCAGAAAAATGC
51566135 ATTAATTTATCAGAAAAAT
1 ATTAATTTATCAGAAAAAT
51566154 AAAATACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTAATTTATCAGAAAAATGC
Found at i:51570067 original size:20 final size:20
Alignment explanation
Indices: 51570030--51570068 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51570020 GGCACTCTCC
*
51570030 ATGAAACAAATTACTAAAAA
1 ATGAAACAAAATACTAAAAA
* *
51570050 ATGACACAAAATAGTAAAA
1 ATGAAACAAAATACTAAAA
51570069 GGGTGGAGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (20 bp):
ATGAAACAAAATACTAAAAA
Found at i:51577132 original size:36 final size:36
Alignment explanation
Indices: 51577092--51577163 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
51577082 CTTGAAGCAA
*
51577092 TTGGCACTGCTCTTAAGCATTGCTTCTAGCACTACT
1 TTGGCACTGCTCTAAAGCATTGCTTCTAGCACTACT
51577128 TTGGCACTGCTCTAAAGCATTGCTTCTAGCACTACT
1 TTGGCACTGCTCTAAAGCATTGCTTCTAGCACTACT
51577164 CAGTTTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (36 bp):
TTGGCACTGCTCTAAAGCATTGCTTCTAGCACTACT
Found at i:51578869 original size:9 final size:9
Alignment explanation
Indices: 51578852--51578906 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
51578842 TGAGTTTTCG
51578852 AATTCGAAT
1 AATTCGAAT
*
51578861 AACTCGAAT
1 AATTCGAAT
*
51578870 AATTTGAAT
1 AATTCGAAT
51578879 AATTCGAAT
1 AATTCGAAT
*
51578888 AATTTGAAT
1 AATTCGAAT
51578897 AATTCGAAT
1 AATTCGAAT
51578906 A
1 A
51578907 TCAAACTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (9 bp):
AATTCGAAT
Found at i:51578878 original size:18 final size:18
Alignment explanation
Indices: 51578852--51578906 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
51578842 TGAGTTTTCG
* *
51578852 AATTCGAATAACTCGAAT
1 AATTTGAATAATTCGAAT
51578870 AATTTGAATAATTCGAAT
1 AATTTGAATAATTCGAAT
51578888 AATTTGAATAATTCGAAT
1 AATTTGAATAATTCGAAT
51578906 A
1 A
51578907 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAATTCGAAT
Found at i:51579155 original size:30 final size:31
Alignment explanation
Indices: 51579120--51579179 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
51579110 AAACCTTTTA
*
51579120 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
51579150 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
51579180 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:51581426 original size:164 final size:164
Alignment explanation
Indices: 51581155--51581557 Score: 716
Period size: 164 Copynumber: 2.5 Consensus size: 164
51581145 TTTATTTTGG
*
51581155 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGATGCTCTAACCAACTGAG
1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
* ** *
51581220 CTACAAGAGCCTTGTTGATAGCTGAATCGAAAGTAATTTAAAGATTCATGACTAAAGTAGATTAC
66 CTACAAGAGCCTTGTTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC
* **
51581285 ATGTCAGAACTCAAAATAGAAAATGAAACACAGT
131 ATGTCAGAACTCAAAATAGAAAATAAAACACAAA
51581319 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
* *
51581384 CTACAAGAGCCTTGTTGAGAGCCCAATCGAAATTATTTTAAAGATTCATAACTAAAGTAGATTAC
66 CTACAAGAGCCTTGTTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC
51581449 ATGTCAGAACTCAAAATAGAAAATAAAACACAAA
131 ATGTCAGAACTCAAAATAGAAAATAAAACACAAA
51581483 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
51581548 CTACAAGAGC
66 CTACAAGAGC
51581558 TGCTTCGTAA
Statistics
Matches: 229, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
164 229 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (164 bp):
TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
CTACAAGAGCCTTGTTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC
ATGTCAGAACTCAAAATAGAAAATAAAACACAAA
Found at i:51588167 original size:27 final size:26
Alignment explanation
Indices: 51588112--51588174 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
51588102 TTTAAAGCAC
* *
51588112 AAAAGTATATATACATAAATATTTAA
1 AAAAGTATATAAAAATAAATATTTAA
*
51588138 AAAAGTATCATAAAAATAAA-ATTATTA
1 AAAAGTAT-ATAAAAATAAATATT-TAA
51588165 AAAA-TATATA
1 AAAAGTATATA
51588175 GATAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.09
26 14 0.44
27 15 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAAGTATATAAAAATAAATATTTAA
Found at i:51593254 original size:6 final size:6
Alignment explanation
Indices: 51593237--51593274 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
51593227 AAGCATGTTA
*
51593237 TATCTG TTTCTG TATCTG TATCTG TATTCTG TATCTG T
1 TATCTG TATCTG TATCTG TATCTG TA-TCTG TATCTG T
51593275 TTTTGGAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.13, C:0.16, G:0.16, T:0.55
Consensus pattern (6 bp):
TATCTG
Found at i:51593268 original size:19 final size:18
Alignment explanation
Indices: 51593237--51593274 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
51593227 AAGCATGTTA
51593237 TATCTGTTTCTGTATCTG
1 TATCTGTTTCTGTATCTG
51593255 TATCTGTATTCTGTATCTG
1 TATCTGT-TTCTGTATCTG
51593274 T
1 T
51593275 TTTTGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.13, C:0.16, G:0.16, T:0.55
Consensus pattern (18 bp):
TATCTGTTTCTGTATCTG
Found at i:51594973 original size:50 final size:50
Alignment explanation
Indices: 51594849--51595095 Score: 237
Period size: 50 Copynumber: 4.8 Consensus size: 50
51594839 GATAATAACA
* ** * * * *
51594849 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCCTGT-AC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCAG
* * **
51594898 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCAG
* * * *
51594948 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTAC-ATGGGACCTCTCATATCAG
*
51594998 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAACCTCATTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT-A--TCA---G
* * * *
51595054 TGCCAATGCCATGGCTCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
51595096 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 27, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
49 40 0.25
50 81 0.50
51 1 0.01
53 2 0.01
56 38 0.23
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:51602718 original size:49 final size:49
Alignment explanation
Indices: 51602598--51602724 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
51602588 GGTAAAGAGA
* * * * *
51602598 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATGAGCA-CGACAAGAAAAC
* * * *
51602648 TCCCATGTAAGACCATATCTGGGATATGACATTAGCA-GTACAAGAAAAT
1 TCCCATGTAAGACCATGTCTGGGACATGACATGAGCACG-ACAAGAAAAC
51602697 TCCCATGTAAGACCATGTCTGGGACATG
1 TCCCATGTAAGACCATGTCTGGGACATG
51602725 GCTTTGGCAT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.02
49 32 0.49
50 32 0.49
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATGAGCACGACAAGAAAAC
Found at i:51605398 original size:31 final size:31
Alignment explanation
Indices: 51605356--51605447 Score: 123
Period size: 31 Copynumber: 3.0 Consensus size: 31
51605346 AGGCCAAGTT
*
51605356 GGGCTTGTGGGCCCACACGGGCATGCCACAC
1 GGGCATGTGGGCCCACACGGGCATGCCACAC
*
51605387 GGGTATGTGGGCCCACACGGGCAAT-CCACAC
1 GGGCATGTGGGCCCACACGGGC-ATGCCACAC
* * *
51605418 GGGCATGTGGGCCCAAACAGGCAAGCCACA
1 GGGCATGTGGGCCCACACGGGCATGCCACA
51605448 TGGCCACGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.02
31 50 0.94
32 2 0.04
ACGTcount: A:0.23, C:0.33, G:0.34, T:0.11
Consensus pattern (31 bp):
GGGCATGTGGGCCCACACGGGCATGCCACAC
Found at i:51605459 original size:31 final size:31
Alignment explanation
Indices: 51605362--51605460 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
51605352 AGTTGGGCTT
* * * ** *
51605362 GTGGGCCCACACGGGCATGCCACACGGGTAT
1 GTGGGCCCAAACAGGCAAGCCACACGGCCAC
* * * * *
51605393 GTGGGCCCACACGGGCAATCCACACGGGCAT
1 GTGGGCCCAAACAGGCAAGCCACACGGCCAC
*
51605424 GTGGGCCCAAACAGGCAAGCCACATGGCCAC
1 GTGGGCCCAAACAGGCAAGCCACACGGCCAC
51605455 GTGGGC
1 GTGGGC
51605461 TCATATTTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.22, C:0.33, G:0.34, T:0.10
Consensus pattern (31 bp):
GTGGGCCCAAACAGGCAAGCCACACGGCCAC
Found at i:51607081 original size:37 final size:37
Alignment explanation
Indices: 51607026--51607098 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
51607016 CTTTGAGAGG
51607026 GTTGAATCTTAACGTTTTG-GTAGAAACCTTAAGGGA
1 GTTGAATCTTAACGTTTTGAGTAGAAACCTTAAGGGA
* *
51607062 GTTGCAATCTTAA-GATTTTGATTAGAAATCTTAAGGG
1 GTTG-AATCTTAACG-TTTTGAGTAGAAACCTTAAGGG
51607099 GGATTGTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 5 0.16
37 13 0.41
38 14 0.44
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (37 bp):
GTTGAATCTTAACGTTTTGAGTAGAAACCTTAAGGGA
Found at i:51608790 original size:10 final size:10
Alignment explanation
Indices: 51608736--51608803 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 10
51608726 TATATACTTA
51608736 AATTAATAATT
1 AATTAAT-ATT
*
51608747 AATTAATTTT
1 AATTAATATT
51608757 AATTAAT-TT
1 AATTAATATT
51608766 AATTAAACATAATT
1 AATT--A-AT-ATT
51608780 AATTAATATT
1 AATTAATATT
51608790 AGACTTAAT-TT
1 A-A-TTAATATT
51608801 AAT
1 AAT
51608804 AAAGTTAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
9 7 0.14
10 14 0.29
11 14 0.29
12 8 0.16
14 6 0.12
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (10 bp):
AATTAATATT
Found at i:51609195 original size:60 final size:60
Alignment explanation
Indices: 51609124--51609243 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
51609114 GGTGCATTAC
51609124 CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTGAATTG
1 CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTGAATTG
51609184 CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTGAATTG
1 CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTGAATTG
51609244 ATGGAATAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (60 bp):
CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTGAATTG
Found at i:51611048 original size:40 final size:41
Alignment explanation
Indices: 51610953--51611091 Score: 129
Period size: 41 Copynumber: 3.4 Consensus size: 41
51610943 CTTCGGTGGC
* * * * **
51610953 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGGTCTGGGT
1 TTTAGTGGCATTTTTCAAGAAGCGCGGCTAATGGTAGGGGT
* * ** * * *
51610994 TTTAGCGGCGTTTTTGTAGATGCGTC-GCT-ATGTTGGGGGT
1 TTTAGTGGCATTTTTCAAGAAGCG-CGGCTAATGGTAGGGGT
*
51611034 TTTAGTGGCATTTTTCAAGAAGCGCGGCTAATGGTAGTGGT
1 TTTAGTGGCATTTTTCAAGAAGCGCGGCTAATGGTAGGGGT
51611075 TTTAGTGGCATTTTTCA
1 TTTAGTGGCATTTTTCA
51611092 GGTTCACCGC
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.01
40 30 0.38
41 48 0.60
42 1 0.01
ACGTcount: A:0.17, C:0.13, G:0.32, T:0.38
Consensus pattern (41 bp):
TTTAGTGGCATTTTTCAAGAAGCGCGGCTAATGGTAGGGGT
Found at i:51611161 original size:16 final size:15
Alignment explanation
Indices: 51611128--51611182 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
51611118 TAATTGGGTT
*
51611128 ATTATTT-ATATT-A
1 ATTATTTAAAATTGA
51611141 ATTATTTAAAATTGA
1 ATTATTTAAAATTGA
**
51611156 ACTTATTTCTAATTGA
1 A-TTATTTAAAATTGA
51611172 A-TATTTAAAAT
1 ATTATTTAAAAT
51611183 CTTTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.21
14 12 0.35
15 2 0.06
16 13 0.38
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTATTTAAAATTGA
Found at i:51611496 original size:14 final size:15
Alignment explanation
Indices: 51611470--51611507 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
51611460 GGGGTTTATA
51611470 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
51611485 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
51611499 TATGG-TTTA
1 TATGGATTTA
51611508 ATTAAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:51611880 original size:22 final size:22
Alignment explanation
Indices: 51611855--51611920 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
51611845 GATTTAAGAT
51611855 TTAGGGGTTAGGGGTTTAGAGG
1 TTAGGGGTTAGGGGTTTAGAGG
** * *
51611877 TTAGATGTTAGTGGTTAAGA-G
1 TTAGGGGTTAGGGGTTTAGAGG
*
51611898 TTAGGGATTTA-GGGTTTAG-GG
1 TTAGGG-GTTAGGGGTTTAGAGG
51611919 TT
1 TT
51611921 TTAGGGGTCG
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (22 bp):
TTAGGGGTTAGGGGTTTAGAGG
Found at i:51612127 original size:19 final size:18
Alignment explanation
Indices: 51612098--51612151 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
51612088 GGACCAAATT
*
51612098 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
51612116 ATAGAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
51612135 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
51612152 TTGAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:51612206 original size:47 final size:50
Alignment explanation
Indices: 51612136--51612237 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
51612126 AAAAATGAAA
51612136 TAAAAACACTAAAATTTTGAA-TTTTATCTA-AT-TTTTATAAATATTACT
1 TAAAAACACTAAAATTTTGAATTTTTA-CTACATATTTTATAAATATTACT
51612184 TAAAAA-ACTAAAATTTAT-AATTTTTACTACTATATTTTATAAATATTACT
1 TAAAAACACTAAAATTT-TGAATTTTTACTAC-ATATTTTATAAATATTACT
51612234 TAAA
1 TAAA
51612238 CAAAACTATG
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
47 15 0.31
48 12 0.24
49 2 0.04
50 20 0.41
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (50 bp):
TAAAAACACTAAAATTTTGAATTTTTACTACATATTTTATAAATATTACT
Found at i:51612962 original size:47 final size:50
Alignment explanation
Indices: 51612892--51612993 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
51612882 AAAAATGAAA
*
51612892 TAAAAACACTAAAATTTTGAA-TTTTATCTA-ATA-TTTATAACTATTACT
1 TAAAAACACTAAAATTTTGAATTTTTA-CTACATATTTTATAAATATTACT
51612940 TAAAAA-ACTAAAATTTAT-AATTTTTACTACTATATTTTATAAATATTACT
1 TAAAAACACTAAAATTT-TGAATTTTTACTAC-ATATTTTATAAATATTACT
51612990 TAAA
1 TAAA
51612994 CAAAACTATG
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
47 15 0.31
48 12 0.25
49 3 0.06
50 18 0.38
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (50 bp):
TAAAAACACTAAAATTTTGAATTTTTACTACATATTTTATAAATATTACT
Found at i:51612991 original size:50 final size:48
Alignment explanation
Indices: 51612892--51612993 Score: 129
Period size: 47 Copynumber: 2.1 Consensus size: 48
51612882 AAAAATGAAA
*
51612892 TAAAAACACTAAAATTTTGAATTTTATCTAATATTTATAACTATTACT
1 TAAAAACACTAAAATTTTGAATTTTATCTAATATTTATAAATATTACT
51612940 TAAAAA-ACTAAAATTTAT-AATTTT-TACTACTATATTTTATAAATATTACT
1 TAAAAACACTAAAATTT-TGAATTTTAT-CTA--ATA-TTTATAAATATTACT
51612990 TAAA
1 TAAA
51612994 CAAAACTATG
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
46 1 0.02
47 19 0.40
48 7 0.15
49 3 0.06
50 18 0.38
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (48 bp):
TAAAAACACTAAAATTTTGAATTTTATCTAATATTTATAAATATTACT
Found at i:51614111 original size:14 final size:14
Alignment explanation
Indices: 51614092--51614118 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51614082 AAGGTTTTTC
51614092 AGTTAATCATCTTT
1 AGTTAATCATCTTT
51614106 AGTTAATCATCTT
1 AGTTAATCATCTT
51614119 GCTGTTCGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
AGTTAATCATCTTT
Found at i:51614367 original size:22 final size:22
Alignment explanation
Indices: 51614335--51614378 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51614325 CATTTGATTA
51614335 ATTGTTGTAGCCAATGCAAATT
1 ATTGTTGTAGCCAATGCAAATT
*
51614357 ATTGTTTTAGCCAATGCAAATT
1 ATTGTTGTAGCCAATGCAAATT
51614379 TTATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (22 bp):
ATTGTTGTAGCCAATGCAAATT
Found at i:51614818 original size:52 final size:53
Alignment explanation
Indices: 51614759--51614939 Score: 151
Period size: 54 Copynumber: 3.4 Consensus size: 53
51614749 TTATTTTAAA
* ** *
51614759 AATACATAACATACATAATATATTAAAACCTATAT-TTTTAA-TATATATATAT
1 AATACATAACTTACATAATATATTAAAACCTATATATAATAACT-TACATATAT
* *
51614811 AATACATAACTTACATAACTTATATTGAAACTTATATATAATAACTTACATATAT
1 AATACATAACTTACATAA--TATATTAAAACCTATATATAATAACTTACATATAT
* *
51614866 AATGCATAACTTACATAATA-ACTTACATAA-CT-TATATAGA-AACTTATATATA-
1 AATACATAACTTACATAATATA-TTA-A-AACCTATATATA-ATAACTTACATATAT
*
51614918 AACTTGCATAACTTACATAATA
1 AA--TACATAACTTACATAATA
51614940 ACATAACAAC
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
52 20 0.18
53 21 0.19
54 36 0.33
55 31 0.28
56 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (53 bp):
AATACATAACTTACATAATATATTAAAACCTATATATAATAACTTACATATAT
Found at i:51614888 original size:12 final size:12
Alignment explanation
Indices: 51614871--51614895 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51614861 TATATAATGC
51614871 ATAACTTACATA
1 ATAACTTACATA
51614883 ATAACTTACATA
1 ATAACTTACATA
51614895 A
1 A
51614896 CTTATATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:51614895 original size:9 final size:9
Alignment explanation
Indices: 51614883--51615115 Score: 79
Period size: 9 Copynumber: 26.9 Consensus size: 9
51614873 AACTTACATA
51614883 ATAACTTAC
1 ATAACTTAC
*
51614892 ATAACTTAT
1 ATAACTTAC
*
51614901 ATAGAAACTTATAT
1 AT---AAC-T-TAC
*
51614915 ATAAACTTGC
1 ATAA-CTTAC
51614925 ATAACTTAC
1 ATAACTTAC
*
51614934 ATAA-TAAC
1 ATAACTTAC
*
51614942 ATAACAACTTAG
1 AT---AACTTAC
51614954 ATAA--TAC
1 ATAACTTAC
* *
51614961 ATATCCTAC
1 ATAACTTAC
51614970 ATAACTTAC
1 ATAACTTAC
51614979 ATAACTTAC
1 ATAACTTAC
51614988 ATAA--TAC
1 ATAACTTAC
**
51614995 ACCACTTAC
1 ATAACTTAC
51615004 AT-A---A-
1 ATAACTTAC
*
51615008 ATAACTTGC
1 ATAACTTAC
51615017 ATAA--TAC
1 ATAACTTAC
* * *
51615024 AGAGCCTAC
1 ATAACTTAC
*
51615033 ATAACTTAT
1 ATAACTTAC
*
51615042 AAAACTTAC
1 ATAACTTAC
51615051 ATAA--TAC
1 ATAACTTAC
**
51615058 ACCACTTAC
1 ATAACTTAC
51615067 ATAA--TAC
1 ATAACTTAC
*
51615074 ATTACTTAC
1 ATAACTTAC
51615083 ATAACTTAC
1 ATAACTTAC
*
51615092 ATTA--TAC
1 ATAACTTAC
*
51615099 ACAACTTAC
1 ATAACTTAC
51615108 ATAACTTA
1 ATAACTTA
51615116 ATTAATATTA
Statistics
Matches: 162, Mismatches: 35, Indels: 54
0.65 0.14 0.22
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
7 30 0.19
8 6 0.04
9 98 0.60
10 5 0.03
11 5 0.03
12 8 0.05
13 1 0.01
14 5 0.03
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:51614911 original size:21 final size:21
Alignment explanation
Indices: 51614851--51614899 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
51614841 CTTATATATA
*
51614851 ATAACTTACATATATAA--TGC
1 ATAACTTACATA-ATAACTTAC
51614871 ATAACTTACATAATAACTTAC
1 ATAACTTACATAATAACTTAC
51614892 ATAACTTA
1 ATAACTTA
51614900 TATAGAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 12 0.46
21 10 0.38
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAACTTACATAATAACTTAC
Found at i:51614938 original size:54 final size:54
Alignment explanation
Indices: 51614868--51614993 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 54
51614858 ACATATATAA
* * * * *
51614868 TGCATAACTTACATAATAACTTACATAACTTATATAGAAACTTAT-ATATA-AACT
1 TGCATAACTTACATAATAACATA-ACAACTTAGATA-AAACATATCATACATAACT
* *
51614922 TGCATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACT
1 TGCATAACTTACATAATAACATAACAACTTAGATAAAACATATCATACATAACT
*
51614976 TACATAACTTACATAATA
1 TGCATAACTTACATAATA
51614994 CACCACTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
52 6 0.10
53 13 0.21
54 43 0.69
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (54 bp):
TGCATAACTTACATAATAACATAACAACTTAGATAAAACATATCATACATAACT
Found at i:51614991 original size:63 final size:63
Alignment explanation
Indices: 51614936--51615070 Score: 166
Period size: 63 Copynumber: 2.2 Consensus size: 63
51614926 TAACTTACAT
* * *
51614936 AATAACAT-AACAACTTAG-ATAATACATATCCTACATAACTTACATAACTTACATAATACACC
1 AATAACATAAACAACTT-GCATAATACAGAGCCTACATAACTTACAAAACTTACATAATACACC
* * * *
51614998 ACTTACATAAATAACTTGCATAATACAGAGCCTACATAACTTATAAAACTTACATAATACACC
1 AATAACATAAACAACTTGCATAATACAGAGCCTACATAACTTACAAAACTTACATAATACACC
* *
51615061 ACTTACATAA
1 AATAACATAA
51615071 TACATTACTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
62 7 0.11
63 57 0.89
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.27
Consensus pattern (63 bp):
AATAACATAAACAACTTGCATAATACAGAGCCTACATAACTTACAAAACTTACATAATACACC
Found at i:51614995 original size:25 final size:25
Alignment explanation
Indices: 51614947--51615093 Score: 60
Period size: 25 Copynumber: 6.0 Consensus size: 25
51614937 ATAACATAAC
* * *
51614947 AACTTAGATAATACATATCCTACAT
1 AACTTACATAATACATAACTTACAT
*
51614972 AACTTACATAACTTACATAA--TACAC
1 AACTTACATAA--TACATAACTTACAT
* *
51614997 CACTTACAT-A-A-ATAACTTGCAT
1 AACTTACATAATACATAACTTACAT
* * * *
51615019 AA--TACAGAGCCTACATAACTTATAA
1 AACTTACATA--ATACATAACTTACAT
**
51615044 AACTTACATAATACACCACTTACAT
1 AACTTACATAATACATAACTTACAT
*
51615069 AA--TACATTACTTACATAACTTACAT
1 AACTTACA-TA-ATACATAACTTACAT
51615094 TATACACAAC
Statistics
Matches: 88, Mismatches: 21, Indels: 26
0.65 0.16 0.19
Matches are distributed among these distances:
20 8 0.09
21 1 0.01
22 4 0.05
23 4 0.05
24 4 0.05
25 56 0.64
27 11 0.12
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:51615001 original size:16 final size:15
Alignment explanation
Indices: 51614982--51615086 Score: 70
Period size: 16 Copynumber: 6.7 Consensus size: 15
51614972 AACTTACATA
51614982 ACTTACATAATACACC
1 ACTTACATAATACA-C
*
51614998 ACTTACATAA-ATA-
1 ACTTACATAATACAC
* *
51615011 ACTTGCATAATACAG
1 ACTTACATAATACAC
* * *
51615026 AGCCTACATAACTTATAAA
1 A-CTTACATAA--TA-CAC
51615045 ACTTACATAATACACC
1 ACTTACATAATACA-C
*
51615061 ACTTACATAATACATT
1 ACTTACATAATACA-C
51615077 ACTTACATAA
1 ACTTACATAA
51615087 CTTACATTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
13 9 0.13
14 2 0.03
15 4 0.06
16 43 0.61
18 10 0.14
19 2 0.03
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.29
Consensus pattern (15 bp):
ACTTACATAATACAC
Found at i:51615089 original size:41 final size:41
Alignment explanation
Indices: 51615030--51615111 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
51615020 ATACAGAGCC
* *
51615030 TACATAACTTATAAAACTTACATAATACACCACTTACATAA
1 TACATAACTTACAAAACTTACATAATACACAACTTACATAA
* * *
51615071 TACATTACTTACATAACTTACATTATACACAACTTACATAA
1 TACATAACTTACAAAACTTACATAATACACAACTTACATAA
51615112 CTTAATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (41 bp):
TACATAACTTACAAAACTTACATAATACACAACTTACATAA
Found at i:51615098 original size:25 final size:25
Alignment explanation
Indices: 51615061--51615138 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
51615051 ATAATACACC
*
51615061 ACTTACATAATACATTACTTACATA
1 ACTTACATTATACATTACTTACATA
**
51615086 ACTTACATTATACACAACTTACATA
1 ACTTACATTATACATTACTTACATA
*
51615111 ACTTA-ATTA-ATATTA--TACATA
1 ACTTACATTATACATTACTTACATA
51615132 ACTTACA
1 ACTTACA
51615139 GCCAGGATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
21 11 0.24
22 1 0.02
23 3 0.07
24 4 0.09
25 27 0.59
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (25 bp):
ACTTACATTATACATTACTTACATA
Found at i:51616895 original size:21 final size:21
Alignment explanation
Indices: 51616871--51616924 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
51616861 CAACAACTTA
*
51616871 AAGCAGAGGCTGCAGCAAAAG
1 AAGCAGAGGCTGCAACAAAAG
*
51616892 AAGCAGAGGCTACAACAAAAG
1 AAGCAGAGGCTGCAACAAAAG
51616913 AAGCAGAGGCTG
1 AAGCAGAGGCTG
51616925 TAGCGAGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.19, G:0.31, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAACAAAAG
Found at i:51617320 original size:43 final size:43
Alignment explanation
Indices: 51617268--51617401 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 43
51617258 GTCACAACAA
* * *
51617268 TAGCGGCGTTTGTGGTAGAA-G-AGCTGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGA-AATGCA-CCGCTAAAGAACATGACCTT
51617311 TAGCGGCGTTTGTGGGAAATGCACCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAATGCACCGCTAAAGAACATGACCTT
* ** *
51617354 TAGCGGCGTTTTTATGAAA-GCACCGCTAAAGAACATCACCTT
1 TAGCGGCGTTTGTGGGAAATGCACCGCTAAAGAACATGACCTT
51617396 TAGCGG
1 TAGCGG
51617402 TGATGACAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
42 30 0.37
43 51 0.62
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAATGCACCGCTAAAGAACATGACCTT
Found at i:51618662 original size:18 final size:17
Alignment explanation
Indices: 51618630--51618671 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
51618620 TAATAATTAT
51618630 TTAAAAATTATAAAAATA
1 TTAAAAATTATAAAAA-A
51618648 TTAAAAATT-TCAAAAAA
1 TTAAAAATTAT-AAAAAA
51618665 -TAAAAAT
1 TTAAAAAT
51618672 ATTGATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAATTATAAAAAA
Found at i:51618681 original size:25 final size:25
Alignment explanation
Indices: 51618613--51618690 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
51618603 ACACATAAGT
51618613 AAAATATTAATAATTATTTA-AAAATTATA
1 AAAATATTAA-AA--ATTTATAAAA--ATA
51618642 AAAATATTAAAAATTTCA-AAAAATA
1 AAAATATTAAAAATTT-ATAAAAATA
* *
51618667 AAAATATTGATAATTTATAAAAAT
1 AAAATATTAAAAATTTATAAAAAT
51618691 TATACATAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
24 1 0.02
25 23 0.51
26 4 0.09
27 5 0.11
28 2 0.04
29 10 0.22
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (25 bp):
AAAATATTAAAAATTTATAAAAATA
Found at i:51619640 original size:30 final size:30
Alignment explanation
Indices: 51619606--51619689 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
51619596 TTTTTTAAAA
*
51619606 TTAAATATATTTT-T-ATATTTTAAAAATGAT
1 TTAAATA-ATTTTGTAAT-TTTTAAAAATAAT
51619636 TTAAATAATTTTGTAATTTTTAAAAATAAT
1 TTAAATAATTTTGTAATTTTTAAAAATAAT
** *
51619666 TT-TTTAATTTTTTTAATTTTTAAA
1 TTAAATAA-TTTTGTAATTTTTAAA
51619690 TTTAAAAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 8 0.17
30 37 0.79
31 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TTAAATAATTTTGTAATTTTTAAAAATAAT
Found at i:51619662 original size:21 final size:21
Alignment explanation
Indices: 51619638--51619677 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
51619628 AAAATGATTT
51619638 AAATAATTTTGTAATTTTTAA
1 AAATAATTTTGTAATTTTTAA
*
51619659 AAATAATTTTTTAATTTTT
1 AAATAATTTTGTAATTTTT
51619678 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
AAATAATTTTGTAATTTTTAA
Found at i:51621726 original size:12 final size:12
Alignment explanation
Indices: 51621709--51621744 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
51621699 AGAGAGAATG
51621709 ATGAATGAGAGA
1 ATGAATGAGAGA
51621721 ATGAATGAGAGA
1 ATGAATGAGAGA
51621733 ATGAATGAGAGA
1 ATGAATGAGAGA
51621745 TGAGTGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (12 bp):
ATGAATGAGAGA
Found at i:51621730 original size:27 final size:27
Alignment explanation
Indices: 51621684--51621736 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
51621674 CAAGAGAAAA
51621684 GAATAGAGATATGGAAGAGAGAATGAT
1 GAATAGAGATATGGAAGAGAGAATGAT
51621711 GAATGAGAGA-AT-GAATGAGAGAATGA
1 GAAT-AGAGATATGGAA-GAGAGAATGA
51621737 ATGAGAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 16 0.67
28 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (27 bp):
GAATAGAGATATGGAAGAGAGAATGAT
Found at i:51623030 original size:31 final size:32
Alignment explanation
Indices: 51622995--51623057 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
51622985 CTTTTCAGAC
* *
51622995 TTTGAGCAAACTTTTCTTTGCT-TTTTATTCT
1 TTTGAACAAACTTATCTTTGCTCTTTTATTCT
*
51623026 TTTGAACAAACTTATCTTTGTTCTTTTATTCT
1 TTTGAACAAACTTATCTTTGCTCTTTTATTCT
51623058 CTCTCTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.19, C:0.16, G:0.08, T:0.57
Consensus pattern (32 bp):
TTTGAACAAACTTATCTTTGCTCTTTTATTCT
Found at i:51623790 original size:11 final size:11
Alignment explanation
Indices: 51623761--51623814 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
51623751 AATTATTAAC
51623761 ATATTGAATTTT
1 ATATT-AATTTT
51623773 A-ATTAATTTT
1 ATATTAATTTT
51623783 ATATTAATTTT
1 ATATTAATTTT
*
51623794 -TCATAAATTTT
1 AT-ATTAATTTT
51623805 GAT-TTAATTT
1 -ATATTAATTT
51623815 CGACAGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 8 0.22
11 26 0.72
12 1 0.03
13 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:51623794 original size:22 final size:23
Alignment explanation
Indices: 51623761--51623814 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
51623751 AATTATTAAC
*
51623761 ATATTGAA-TTTTAATTAATTTT-
1 ATATT-AATTTTTAATAAATTTTG
*
51623783 ATATTAATTTTTCATAAATTTTG
1 ATATTAATTTTTAATAAATTTTG
51623806 AT-TTAATTT
1 ATATTAATTT
51623815 CGACAGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (23 bp):
ATATTAATTTTTAATAAATTTTG
Found at i:51643131 original size:21 final size:20
Alignment explanation
Indices: 51643094--51643136 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
51643084 TTATTCCTTA
51643094 TTATTTTTTATATTTTATCTG
1 TTATTTTTTATATTTTA-CTG
*
51643115 TTATTTTTT-TGTGTTTACTG
1 TTATTTTTTATAT-TTTACTG
51643135 TT
1 TT
51643137 GCTACTGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.72
Consensus pattern (20 bp):
TTATTTTTTATATTTTACTG
Found at i:51653179 original size:43 final size:43
Alignment explanation
Indices: 51653118--51653241 Score: 212
Period size: 43 Copynumber: 2.9 Consensus size: 43
51653108 TACCATCGAC
*
51653118 CGCAGCATGAATACTTAGTTCAATGGAAGGGACTTCCTAACAG
1 CGCAGCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAG
*
51653161 CGCAGTATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAG
1 CGCAGCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAG
* *
51653204 TGCGGCATGAATACTTAGTTCGATGGAAGGGACTTCCT
1 CGCAGCATGAATACTTAGTTCGATGGAAGGGACTTCCT
51653242 GACATCGAAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (43 bp):
CGCAGCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAG
Found at i:51655259 original size:13 final size:13
Alignment explanation
Indices: 51655241--51655273 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
51655231 CACTTATTAC
51655241 TTTTATTTAATAA
1 TTTTATTTAATAA
51655254 TTTTATTTAATAA
1 TTTTATTTAATAA
51655267 TTTTATT
1 TTTTATT
51655274 ACTCTTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTTAATAA
Found at i:51660189 original size:45 final size:45
Alignment explanation
Indices: 51660122--51660249 Score: 116
Period size: 45 Copynumber: 2.8 Consensus size: 45
51660112 CGCCTAAAAC
* *
51660122 GAGTAAGACCATAACTAAAAGATGTTATGATATTAT-G-ATAAAGAT
1 GAGTAAGACCATAACTAAAAGATGCTATGATATCATGGAAT-AA-AT
** ** *
51660167 GAGTAAGACCATAGGTGTAAGATGCTATGGTATCATGGAATAAAT
1 GAGTAAGACCATAACTAAAAGATGCTATGATATCATGGAATAAAT
** * * *
51660212 GAGTAAGACCATGGCTAAAACATACTATGACATCATGG
1 GAGTAAGACCATAACTAAAAGATGCTATGATATCATGG
51660250 TAAACATGAC
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
45 61 0.92
46 3 0.05
47 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (45 bp):
GAGTAAGACCATAACTAAAAGATGCTATGATATCATGGAATAAAT
Found at i:51660446 original size:27 final size:27
Alignment explanation
Indices: 51660367--51660447 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
51660357 CATCATAAAA
* *
51660367 AGTCCAACGAGACATTAAATACA-GGAT
1 AGTCTAACGGGACATTAAATA-AGGGAT
* * * *
51660394 AGCCTAATGGGACATTAAACATGGGAT
1 AGTCTAACGGGACATTAAATAAGGGAT
*
51660421 AGTCTAACGGGACACTAAATAAGGGAT
1 AGTCTAACGGGACATTAAATAAGGGAT
51660448 GGTTCGTCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (27 bp):
AGTCTAACGGGACATTAAATAAGGGAT
Found at i:51670217 original size:5 final size:5
Alignment explanation
Indices: 51670207--51670262 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
51670197 AAAAGGTTTT
51670207 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
51670257 TAATA T
1 TAATA T
51670263 CAACTTTGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:51679727 original size:18 final size:18
Alignment explanation
Indices: 51679713--51679768 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
51679703 CACAGTTTGG
51679713 CAAATTAATACAGTTTAC
1 CAAATTAATACAGTTTAC
*
51679731 CATATTAATACA-TATTAC
1 CAAATTAATACAGT-TTAC
* * *
51679749 AAAATTAACACAGTTCAC
1 CAAATTAATACAGTTTAC
51679767 CA
1 CA
51679769 TAATGATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (18 bp):
CAAATTAATACAGTTTAC
Found at i:51680101 original size:32 final size:31
Alignment explanation
Indices: 51680060--51680134 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
51680050 TGACCCATAT
*
51680060 ATGCTTATATATGATATATATAATCA-AGACCC
1 ATGCATATATATGATATATATAA-CATA-ACCC
*
51680092 -TCGCATATATATTATATATATAACATAACCC
1 AT-GCATATATATGATATATATAACATAACCC
51680123 ATGCATATATAT
1 ATGCATATATAT
51680135 ATTACATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 17 0.45
32 21 0.55
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (31 bp):
ATGCATATATATGATATATATAACATAACCC
Found at i:51684540 original size:23 final size:24
Alignment explanation
Indices: 51684497--51684541 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
51684487 AGCTAAGTTC
51684497 ATAAATACTATCTTAGTTCTCTCT
1 ATAAATACTATCTTAGTTCTCTCT
*
51684521 ATAAATAGTATC-TAGTTCTCT
1 ATAAATACTATCTTAGTTCTCT
51684542 ATCTTCCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (24 bp):
ATAAATACTATCTTAGTTCTCTCT
Found at i:51694146 original size:22 final size:22
Alignment explanation
Indices: 51694118--51694161 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
51694108 ATGATGGCTA
51694118 TAAATACTCATCAATTTCGAGG
1 TAAATACTCATCAATTTCGAGG
51694140 TAAATACTCATCAATTTCGAGG
1 TAAATACTCATCAATTTCGAGG
51694162 CAATCCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
TAAATACTCATCAATTTCGAGG
Found at i:51697347 original size:19 final size:19
Alignment explanation
Indices: 51697323--51697361 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
51697313 TAATATAAGC
*
51697323 CCACCCAACAGAGATTAGG
1 CCACCCAACAGAGATCAGG
51697342 CCACCCAACAGAGATCAGG
1 CCACCCAACAGAGATCAGG
51697361 C
1 C
51697362 TATACTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.21, T:0.08
Consensus pattern (19 bp):
CCACCCAACAGAGATCAGG
Found at i:51712526 original size:17 final size:17
Alignment explanation
Indices: 51712513--51712548 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51712503 TGTTCATATG
*
51712513 AAATTACAGTTCATACC
1 AAATGACAGTTCATACC
*
51712530 AAATGACAGTTCATTCC
1 AAATGACAGTTCATACC
51712547 AA
1 AA
51712549 TTAATAGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (17 bp):
AAATGACAGTTCATACC
Found at i:51713652 original size:32 final size:31
Alignment explanation
Indices: 51713603--51713677 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 31
51713593 TGACCCATAT
*
51713603 ATGCTTATATATGATATATATAATCA-ATACCC
1 ATGCATATATATGATATATATAA-CATA-ACCC
*
51713635 ATGCATATATATTATATATATAACATAACCC
1 ATGCATATATATGATATATATAACATAACCC
51713666 ATGCATATATAT
1 ATGCATATATAT
51713678 ATTACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
31 18 0.45
32 22 0.55
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (31 bp):
ATGCATATATATGATATATATAACATAACCC
Found at i:51720652 original size:99 final size:100
Alignment explanation
Indices: 51720369--51720708 Score: 395
Period size: 99 Copynumber: 3.4 Consensus size: 100
51720359 GATAATAACA
* * ** * * * * * *
51720369 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--TGCCAATGTCATAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCT-CGGTGCCAACGCCATGT
* * *
51720432 CCTAGATATGGTCTTACATGGAAGTCCTCATAT-T-GG
65 CCCAGATATGGTCTTACATGG--GACCTCTTATCTCGG
* * *
51720468 TGCCCATGTCATGTCCCAGACATGGTCTTATGA-GGAACCTCTCATCTCGGTGCCAACGCCATGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTAT-ATGGGACCTCTCATCTCGGTGCCAACGCCATGT
* *
51720532 CTCAGACATGGTCTTACATGGGACCTCTTATCTCGG
65 CCCAGATATGGTCTTACATGGGACCTCTTATCTCGG
*
51720568 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCT-ATCTCGGTGCCAACTCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
51720632 CCAGATATGGTCTTACATGGGACCTCTTATCTCGG
66 CCAGATATGGTCTTACATGGGACCTCTTATCTCGG
* * * *
51720667 TGCCAATTCCATGTCTCAAACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCT
51720709 TTACCCAAAT
Statistics
Matches: 207, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
98 9 0.04
99 129 0.62
100 69 0.33
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAGATATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:51720708 original size:50 final size:50
Alignment explanation
Indices: 51720377--51720709 Score: 346
Period size: 50 Copynumber: 6.7 Consensus size: 50
51720367 CATGCCAAAG
* *
51720377 CCATGTCCCAGACATGGTCTTACATGGGA--TGTT-TC-CTGTACTGCCAATGT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTC-G--GTGCCAAT-T
* * * * * *
51720427 -CATATCCTAGATATGGTCTTACATGGAAGTCCTCATAT-T-GGTGCCCATGT
1 CCATGTCCCAGACATGGTCTTACATGG--GACCTCTTATCTCGGTGCCAAT-T
* **
51720477 -CATGTCCCAGACATGGTCTT--ATGAGGAACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATG-GG-ACCTCTTATCTCGGTGCCAATT
* *
51720526 CCATGTCTCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATT
* *
51720576 CCATGTCCCAGACATGGTCTTATATGGGACCTC-TATCTCGGTGCCAACT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATT
*
51720625 CCATGTCCCAGATATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATT
* *
51720675 CCATGTCTCAAACATGGTCTTACATGGGACCTCTT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTT
51720710 TACCCAAATG
Statistics
Matches: 239, Mismatches: 30, Indels: 28
0.80 0.10 0.09
Matches are distributed among these distances:
47 1 0.00
48 9 0.04
49 70 0.29
50 149 0.62
51 3 0.01
52 4 0.02
53 2 0.01
54 1 0.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATT
Found at i:51722092 original size:24 final size:23
Alignment explanation
Indices: 51722057--51722101 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
51722047 GTTCAACTTC
*
51722057 ATAAATATTATCTTACTTCTCTCT
1 ATAAATACTATC-TACTTCTCTCT
*
51722081 ATAAATACTATCTAGTTCTCT
1 ATAAATACTATCTACTTCTCT
51722102 ATCTTCCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAAATACTATCTACTTCTCTCT
Found at i:51742856 original size:39 final size:39
Alignment explanation
Indices: 51742811--51742930 Score: 129
Period size: 39 Copynumber: 3.1 Consensus size: 39
51742801 CAAGAGGACA
51742811 TTGTTGTTGAGAAGGAAATTGATGCTGTAGAAGAAGAAG
1 TTGTTGTTGAGAAGGAAATTGATGCTGTAGAAGAAGAAG
*
51742850 TTGTTG-T-CGAAGCGAAAATTGATGCTGTAGAAGAAGAAG
1 TTGTTGTTGAGAAG-G-AAATTGATGCTGTAGAAGAAGAAG
* * * * * *
51742889 TTGTTGTCGA-AGCGGAAGTTGTTGCTGAAGAAGAAAAAG
1 TTGTTGTTGAGA-AGGAAATTGATGCTGTAGAAGAAGAAG
51742928 TTG
1 TTG
51742931 CTGAGAATGA
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
37 4 0.06
38 2 0.03
39 59 0.87
40 2 0.03
41 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.33, T:0.28
Consensus pattern (39 bp):
TTGTTGTTGAGAAGGAAATTGATGCTGTAGAAGAAGAAG
Found at i:51742906 original size:18 final size:18
Alignment explanation
Indices: 51742846--51742912 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
51742836 TGTAGAAGAA
51742846 GAAGTTGTTGTCGAAGCG
1 GAAGTTGTTGTCGAAGCG
* * * **
51742864 AAAATTGATGCTGTAGAAGAA
1 GAAGTTG-T--TGTCGAAGCG
51742885 GAAGTTGTTGTCGAAGCG
1 GAAGTTGTTGTCGAAGCG
51742903 GAAGTTGTTG
1 GAAGTTGTTG
51742913 CTGAAGAAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 22 0.61
19 1 0.03
20 1 0.03
21 12 0.33
ACGTcount: A:0.30, C:0.07, G:0.34, T:0.28
Consensus pattern (18 bp):
GAAGTTGTTGTCGAAGCG
Found at i:51742943 original size:17 final size:18
Alignment explanation
Indices: 51742909--51742945 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51742899 AGCGGAAGTT
51742909 GTTGCTGAAGAAGAAAAA
1 GTTGCTGAAGAAGAAAAA
51742927 GTTGCTG-AGAATGAAAAA
1 GTTGCTGAAGAA-GAAAAA
51742945 G
1 G
51742946 AAAAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.46, C:0.05, G:0.30, T:0.19
Consensus pattern (18 bp):
GTTGCTGAAGAAGAAAAA
Found at i:51746666 original size:30 final size:30
Alignment explanation
Indices: 51746631--51746703 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
51746621 GCTACAGGGG
*
51746631 ACACACGACCATGTTAGCTGGCCGTGTGTC
1 ACACACGGCCATGTTAGCTGGCCGTGTGTC
51746661 ACACACGGCCATGTTAGCTGGCCGTGTGTC
1 ACACACGGCCATGTTAGCTGGCCGTGTGTC
51746691 ACACACGGCCATG
1 ACACACGGCCATG
51746704 ACACACGCCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.21
Consensus pattern (30 bp):
ACACACGGCCATGTTAGCTGGCCGTGTGTC
Found at i:51752140 original size:5 final size:5
Alignment explanation
Indices: 51752130--51752169 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
51752120 TTTTTAATTG
51752130 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
51752170 CAAGTTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:51760315 original size:17 final size:17
Alignment explanation
Indices: 51760303--51760404 Score: 78
Period size: 17 Copynumber: 5.9 Consensus size: 17
51760293 TTTTCATATG
51760303 AAATAACAGTTCATACC
1 AAATAACAGTTCATACC
* *
51760320 AAATGACAGTTCATTCC
1 AAATAACAGTTCATACC
* * *
51760337 AATTAACAGTTCAGAAC
1 AAATAACAGTTCATACC
* * *
51760354 ACATAATAGTTACATTCC
1 AAATAACAGTT-CATACC
* * * * *
51760372 ACATAATATTTCATGCA
1 AAATAACAGTTCATACC
51760389 AAATAACAGTTCATAC
1 AAATAACAGTTCATAC
51760405 TCTATAATAA
Statistics
Matches: 64, Mismatches: 20, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
17 51 0.80
18 13 0.20
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (17 bp):
AAATAACAGTTCATACC
Found at i:51761465 original size:33 final size:34
Alignment explanation
Indices: 51761397--51761486 Score: 112
Period size: 33 Copynumber: 2.6 Consensus size: 34
51761387 CATATATGCT
* *
51761397 TATATATGATATATATAATCA-AGACCCAAGTATA
1 TATATATTATATATATAA-CATAGACCCAAGCATA
*
51761431 TATATATTATATATATAACATA-ACCCATGCATA
1 TATATATTATATATATAACATAGACCCAAGCATA
*
51761464 TATATATTACATATATACACATA
1 TATATATTATATATATA-ACATA
51761487 TCTTTTTAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 27 0.54
34 23 0.46
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (34 bp):
TATATATTATATATATAACATAGACCCAAGCATA
Found at i:51769363 original size:85 final size:85
Alignment explanation
Indices: 51769220--51769398 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
51769210 GGCCGACCAT
*
51769220 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGCCATAAACATGTTGGGGTAGTGCATTAT
51769285 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
51769305 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGCCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGCCATAAACATGTTGGGGTAGTGCATTAT
51769370 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
51769390 GGGCATGGG
1 GAGCATGGG
51769399 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGCCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:51770717 original size:47 final size:47
Alignment explanation
Indices: 51770663--51770926 Score: 415
Period size: 47 Copynumber: 5.6 Consensus size: 47
51770653 TATTTGAATA
51770663 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
51770710 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
51770759 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
51770806 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
51770853 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
51770900 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
51770927 TCCCGAAGGG
Statistics
Matches: 202, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 155 0.77
49 45 0.22
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:51777890 original size:25 final size:29
Alignment explanation
Indices: 51777855--51777940 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 29
51777845 CATATTTATG
51777855 GAAAGTCAAAGATATGGGTATC-AA-A-T
1 GAAAGTCAAAGATATGGGTATCAAATATT
51777881 -AAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
*
51777909 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 -GAAAGTCAAAGATATGGGTATC-AAATATT
51777940 G
1 G
51777941 GCATAAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
25 21 0.40
26 2 0.04
27 1 0.02
28 1 0.02
30 22 0.42
31 6 0.11
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:51777917 original size:30 final size:30
Alignment explanation
Indices: 51777853--51777941 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
51777843 TCCATATTTA
51777853 TGGAAAGTCAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
51777880 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
51777908 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
51777939 TGG
1 TGG
51777942 CATAAGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
25 21 0.38
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.38
31 8 0.15
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:51782577 original size:30 final size:27
Alignment explanation
Indices: 51782512--51782593 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 27
51782502 ATCCATATTT
51782512 ATGGAAAGTCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
51782539 AT--AAAGTCAAAGATATGGGTATCATA
1 ATGGAAAGTCAAAGATATGGGTATCA-A
51782565 TATTGGAAAGTCAAAGATATGGGTATCAA
1 -A-TGGAAAGTCAAAGATATGGGTATCAA
51782594 GATTTTGGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
25 22 0.44
26 1 0.02
27 3 0.06
28 1 0.02
29 1 0.02
30 22 0.44
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (27 bp):
ATGGAAAGTCAAAGATATGGGTATCAA
Found at i:51797789 original size:23 final size:23
Alignment explanation
Indices: 51797763--51797806 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
51797753 TGTGTAACTT
*
51797763 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
51797786 TTCATATTCAAGTCTCTTCAC
1 TTCATATTCAAGTCTCTTCAC
51797807 ATTTCTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:51802701 original size:14 final size:15
Alignment explanation
Indices: 51802675--51802711 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
51802665 AAATAAAGAT
51802675 AAATATTT-G-ATAA
1 AAATATTTGGAATAA
51802688 AAA-ATTTGGAATAA
1 AAATATTTGGAATAA
51802702 AAATATTTGG
1 AAATATTTGG
51802712 GCTTCGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 4 0.19
14 7 0.33
15 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (15 bp):
AAATATTTGGAATAA
Found at i:51804868 original size:17 final size:17
Alignment explanation
Indices: 51804848--51804949 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
51804838 TGTTCATATG
*
51804848 AAATAACAATTCATACC
1 AAATAACAGTTCATACC
* *
51804865 AAATGACAGTTCATTCC
1 AAATAACAGTTCATACC
* * *
51804882 AATTAACAGTTCAGAAC
1 AAATAACAGTTCATACC
* * *
51804899 ACATAATAGTTACATTCC
1 AAATAACAGTT-CATACC
* * * * *
51804917 ATATAATATTTCATGCA
1 AAATAACAGTTCATACC
*
51804934 AAATAATAGTTCATAC
1 AAATAACAGTTCATAC
51804950 TCTATAATAA
Statistics
Matches: 63, Mismatches: 21, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
17 51 0.81
18 12 0.19
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (17 bp):
AAATAACAGTTCATACC
Found at i:51805636 original size:18 final size:18
Alignment explanation
Indices: 51805595--51805644 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
51805585 ATAGTTTTGC
*
51805595 AAATTAATACAGTTTACC
1 AAATTAATACAGTTTACA
*
51805613 ATATTAATACA-TATTACA
1 AAATTAATACAGT-TTACA
*
51805631 AAATTAACACAGTT
1 AAATTAATACAGTT
51805645 CACCAGAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (18 bp):
AAATTAATACAGTTTACA
Found at i:51813000 original size:50 final size:50
Alignment explanation
Indices: 51812714--51813054 Score: 299
Period size: 50 Copynumber: 6.8 Consensus size: 50
51812704 GATAATAACA
* * * ** * * *
51812714 TGCCAAAGCGATGTCCCAAACATGGTCTTACATGGGATGTTTCCTTTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * * ** * *
51812763 TGCCAATGTCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * ***
51812813 TGCCCATGCAATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** * *
51812863 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * ***
51812913 TGCCCATGCAATGTCCCAAACATGGTCTTATGCGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
51812963 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
51813013 TGCCAACGCCATGTCCCAGACATGGTATTATATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
51813055 TTACCCAAAT
Statistics
Matches: 228, Mismatches: 62, Indels: 3
0.78 0.21 0.01
Matches are distributed among these distances:
49 35 0.15
50 193 0.85
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:51813016 original size:100 final size:100
Alignment explanation
Indices: 51812776--51812995 Score: 422
Period size: 100 Copynumber: 2.2 Consensus size: 100
51812766 CAATGTCATA
*
51812776 TCCCAGATATGGTCTTACATAGGAGTTCTCATATTGGTGCCCATGCAATGTCCCAAACATGGTCT
1 TCCCAGACATGGTCTTACATAGGAGTTCTCATATTGGTGCCCATGCAATGTCCCAAACATGGTCT
*
51812841 TATGGGGGACCTCTCATCTCGGTGCCAACGCCATG
66 TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
51812876 TCCCAGACATGGTCTTACATAGGAGTTCTCATATTGGTGCCCATGCAATGTCCCAAACATGGTCT
1 TCCCAGACATGGTCTTACATAGGAGTTCTCATATTGGTGCCCATGCAATGTCCCAAACATGGTCT
51812941 TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
66 TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
51812976 TCCCAGACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
51812996 GGGACCTCTT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 118 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (100 bp):
TCCCAGACATGGTCTTACATAGGAGTTCTCATATTGGTGCCCATGCAATGTCCCAAACATGGTCT
TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:51813027 original size:100 final size:100
Alignment explanation
Indices: 51812776--51813054 Score: 360
Period size: 100 Copynumber: 2.8 Consensus size: 100
51812766 CAATGTCATA
* ** ** * *
51812776 TCCCAGATATGGTCTTACATAGGAGTTCTCATATTGGTGCCCATGCAATGTCCCAAACATGGTCT
1 TCCCAGACATGGTCTTACATAGGACCTCTCATATCAGTGCCAACGCAATGTCCCAAACATGGTCT
*
51812841 TATGGGGGACCTCTCATCTCGGTGCCAACGCCATG
66 TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
** ** * *
51812876 TCCCAGACATGGTCTTACATAGGAGTTCTCATATTGGTGCCCATGCAATGTCCCAAACATGGTCT
1 TCCCAGACATGGTCTTACATAGGACCTCTCATATCAGTGCCAACGCAATGTCCCAAACATGGTCT
51812941 TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
66 TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * * * *
51812976 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCAGTGCCAACGCCATGTCCCAGACATGGTAT
1 TCCCAGACATGGTCTTACATAGGACCTCTCATATCAGTGCCAACGCAATGTCCCAAACATGGTCT
**
51813041 TATATGGGACCTCT
66 TATGCGGGACCTCT
51813055 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 163 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (100 bp):
TCCCAGACATGGTCTTACATAGGACCTCTCATATCAGTGCCAACGCAATGTCCCAAACATGGTCT
TATGCGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:51814384 original size:23 final size:24
Alignment explanation
Indices: 51814341--51814385 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
51814331 GTTCAACTTC
51814341 ATAAATACTATCTTAGTTCTCTCT
1 ATAAATACTATCTTAGTTCTCTCT
51814365 ATAAATACTATC-TAGTTCTCT
1 ATAAATACTATCTTAGTTCTCT
51814386 ATCTTCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.44
Consensus pattern (24 bp):
ATAAATACTATCTTAGTTCTCTCT
Found at i:51832890 original size:20 final size:20
Alignment explanation
Indices: 51832865--51832910 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
51832855 TAGTAAAGCT
*
51832865 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
51832885 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
51832905 TAACAA
1 TAACAA
51832911 TGTAACACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:51834291 original size:50 final size:50
Alignment explanation
Indices: 51834175--51834423 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
51834165 GGTAAAAACA
* * * * ** * *
51834175 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGTATGTTCTCATGTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
51834226 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
51834276 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
51834326 TGCCCATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG
* *
51834381 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
51834424 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 94 0.55
51 31 0.18
53 5 0.03
55 2 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:51834353 original size:100 final size:103
Alignment explanation
Indices: 51834174--51834423 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 103
51834164 TGGTAAAAAC
* * ** *
51834174 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGTATGTTCTCATGTCGATGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGATGCCCATGCCATG
*
51834239 TCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-GG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
* *
51834276 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCCATGCCATGT
*
51834340 CCTAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTC-AGG
* *
51834381 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
51834424 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 50 0.38
101 34 0.26
103 5 0.04
105 2 0.02
106 40 0.31
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
Found at i:51842466 original size:18 final size:18
Alignment explanation
Indices: 51842443--51842479 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
51842433 AACCCAATTT
*
51842443 TATTTTTAATTTTTTATA
1 TATTTTTAATTTTCTATA
51842461 TATTTTTAATTTTCTATA
1 TATTTTTAATTTTCTATA
51842479 T
1 T
51842480 TTTCTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTAATTTTCTATA
Found at i:51842763 original size:4 final size:4
Alignment explanation
Indices: 51842754--51842786 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
51842744 TTTTTGCCCA
51842754 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
51842787 TAGTATATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:51843470 original size:103 final size:103
Alignment explanation
Indices: 51843287--51843477 Score: 249
Period size: 103 Copynumber: 1.9 Consensus size: 103
51843277 AAATATTAAT
** * * *
51843287 AGTGTCTTGGGCTAAGTAACTGGGGTGAGGTGTTTGTGTTGTCATTCCACTTCGAGGCAAAAGTA
1 AGTGTCTTGGGCTAAGTAACTGAAGTGAGGTGCTTGGGTTGTCATTCCACTTCGAGGCAAAAGGA
*
51843352 CCAAAACATTCTTAAACAAAAAATAATAATACGTTAGG
66 CCAAAAAATTCTTAAACAAAAAATAATAATACGTTAGG
* * * * *
51843390 AGTGTGTTGGGCTGAGTAACTGAAGTGGGGTGCTTGGGTTGTCATTCCACTTC-ACGTCGAAAGG
1 AGTGTCTTGGGCTAAGTAACTGAAGTGAGGTGCTTGGGTTGTCATTCCACTTCGA-GGCAAAAGG
* *
51843454 GCCAAAAAATTTTTAAACAAAAAA
65 ACCAAAAAATTCTTAAACAAAAAA
51843478 ATATAAAATT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
102 1 0.01
103 73 0.99
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (103 bp):
AGTGTCTTGGGCTAAGTAACTGAAGTGAGGTGCTTGGGTTGTCATTCCACTTCGAGGCAAAAGGA
CCAAAAAATTCTTAAACAAAAAATAATAATACGTTAGG
Found at i:51847738 original size:21 final size:22
Alignment explanation
Indices: 51847714--51847783 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
51847704 TAAAAATAAT
* **
51847714 AATAATTAAATATGATAAAG-A
1 AATAATTAAAGAAAATAAAGAA
51847735 AATAA-TAAAGAAAATAAAGAA
1 AATAATTAAAGAAAATAAAGAA
51847756 AATAATTAATTA-AAAATAAAGAA
1 AATAATTAA--AGAAAATAAAGAA
51847779 AATAA
1 AATAA
51847784 AAAAAGCTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.26
21 11 0.26
22 3 0.07
23 16 0.38
24 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (22 bp):
AATAATTAAAGAAAATAAAGAA
Found at i:51848333 original size:19 final size:19
Alignment explanation
Indices: 51848301--51848337 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51848291 AATCACATCT
*
51848301 TCTAATATTACATATCATA
1 TCTAAGATTACATATCATA
*
51848320 TCTAAGATTGCATATCAT
1 TCTAAGATTACATATCAT
51848338 CGAAGATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:51848598 original size:34 final size:33
Alignment explanation
Indices: 51848551--51848640 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 33
51848541 CCCAAATATG
*
51848551 CATATATAT-TATATATATAATCAAGAACC-ACA
1 CATATATATATATATATATAAACAA-AACCTACA
51848583 CATATATATCATATATATATATAACAAAACCTACA
1 CATATATAT-ATATATATATA-AACAAAACCTACA
*
51848618 CATATGTATTATATATAATATAA
1 CATATATA-TATATAT-ATATAA
51848641 CCCATATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
32 9 0.18
34 14 0.28
35 21 0.42
36 6 0.12
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.34
Consensus pattern (33 bp):
CATATATATATATATATATAAACAAAACCTACA
Found at i:51855151 original size:19 final size:19
Alignment explanation
Indices: 51855119--51855172 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
51855109 AATCACATCT
* *
51855119 TCTAATATTACATATCATA
1 TCTAAGATTGCATATCATA
51855138 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
51855157 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
51855173 CTCGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:51855182 original size:17 final size:18
Alignment explanation
Indices: 51855129--51855182 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
51855119 TCTAATATTA
*
51855129 CATATCATATCTAAGATTG
1 CATATCA-ATCGAAGATTG
*
51855148 CATATCATATCTAAGATTG
1 CATATCA-ATCGAAGATTG
*
51855167 CATATC-CTCGAAGATT
1 CATATCAATCGAAGATT
51855183 ATGTTTCCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.24
19 25 0.76
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (18 bp):
CATATCAATCGAAGATTG
Found at i:51855556 original size:23 final size:23
Alignment explanation
Indices: 51855520--51855563 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
51855510 GAAAAATATT
51855520 AAATATATA-TTTTTTATTTTTA
1 AAATATATAGTTTTTTATTTTTA
51855542 AAATATTATAGTTTTTTATTTT
1 AAATA-TATAGTTTTTTATTTT
51855564 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
AAATATATAGTTTTTTATTTTTA
Found at i:51855674 original size:9 final size:9
Alignment explanation
Indices: 51855660--51855687 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51855650 TTTTGTTACA
51855660 ACAATTAAT
1 ACAATTAAT
51855669 ACAATTAAT
1 ACAATTAAT
51855678 ACAATTAAT
1 ACAATTAAT
51855687 A
1 A
51855688 ATTTGATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:51855709 original size:68 final size:68
Alignment explanation
Indices: 51855630--51855897 Score: 425
Period size: 67 Copynumber: 4.1 Consensus size: 68
51855620 TCAAGTTTGT
*
51855630 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
51855695 AAG
66 AAA
51855698 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
51855754 AAA
66 AAA
51855757 TTTACTAATCAAATGTTAGA-TTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
51855821 AAA
66 AAA
51855824 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
51855887 AAT
66 AAA
51855890 TTTACTAA
1 TTTACTAA
51855898 CAATTAATTT
Statistics
Matches: 187, Mismatches: 3, Indels: 22
0.88 0.01 0.10
Matches are distributed among these distances:
58 6 0.03
59 48 0.26
60 1 0.01
61 2 0.01
65 2 0.01
66 28 0.15
67 50 0.27
68 50 0.27
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:51855798 original size:9 final size:9
Alignment explanation
Indices: 51855786--51855813 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51855776 ATTTATTACA
51855786 ACAATTAAT
1 ACAATTAAT
51855795 ACAATTAAT
1 ACAATTAAT
51855804 ACAATTAAT
1 ACAATTAAT
51855813 A
1 A
51855814 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:51855810 original size:126 final size:127
Alignment explanation
Indices: 51855630--51855875 Score: 458
Period size: 126 Copynumber: 1.9 Consensus size: 127
51855620 TCAAGTTTGT
*
51855630 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
* *
51855695 AAGTTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
66 AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTTGATAAA
51855757 TTTACTAATCAAATGTTAGA-TTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
51855821 AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
66 AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
51855876 AATAATTTGA
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
126 96 0.83
127 20 0.17
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (127 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTTGATAAA
Found at i:51855907 original size:16 final size:16
Alignment explanation
Indices: 51855886--51855927 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
51855876 AATAATTTGA
*
51855886 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
51855902 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
51855918 TAGTTTTAAT
1 TAATTTTAAT
51855928 TTTATTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:51855911 original size:22 final size:23
Alignment explanation
Indices: 51855901--51855956 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
51855891 TTACTAACAA
* *
51855901 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAACAACTAATT
* *
51855923 TTAATTTTATTAAAGAACTAATT
1 TTAATTTTAATAAACAACTAATT
51855946 TTAATTTTAAT
1 TTAATTTTAAT
51855957 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAACAACTAATT
Found at i:51855916 original size:59 final size:65
Alignment explanation
Indices: 51855630--51855919 Score: 347
Period size: 59 Copynumber: 4.5 Consensus size: 65
51855620 TCAAGTTTGT
*
51855630 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGA-TTT-TAACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
51855695 AAG
63 AAA
51855698 TTTACTAATCAAATGTTAGATTTT-------ATTACA-ACAATTAATACAATTAATAATTTGATA
1 TTTACTAATCAAA-GTTAGATTTTAACAACAATTA-ATACAATTAATACAATTAATAATTTGATA
51855755 AA
64 AA
*
51855757 TTTACTAATCAAATGTTAGATTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATA
1 TTTACTAATCAAA-GTTAGATTT-TAACAACAATTAATACAATTAATACAATTAATAATTTGATA
51855822 AA
64 AA
51855824 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA--ACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
51855887 AAT
63 AAA
*
51855890 TTTACTAA-C-AA-TTA-ATTTTAATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTAACAACAATTA
51855920 GTTTTAATTT
Statistics
Matches: 206, Mismatches: 4, Indels: 33
0.85 0.02 0.14
Matches are distributed among these distances:
59 64 0.31
60 2 0.01
61 6 0.03
62 3 0.01
64 2 0.01
65 1 0.00
66 30 0.15
67 60 0.29
68 38 0.18
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (65 bp):
TTTACTAATCAAAGTTAGATTTTAACAACAATTAATACAATTAATACAATTAATAATTTGATAAA
Found at i:51856248 original size:41 final size:40
Alignment explanation
Indices: 51856198--51856297 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 40
51856188 CATGACCCAA
51856198 ATATGCATATATATTATATATATAATCAAGAACC-ACACATAT
1 ATAT-CATATATATTATATATATAA-CAA-AACCTACACATAT
51856240 ATATCATATATATATATATATATAACAAAACCTACACATAT
1 ATATCATATATAT-TATATATATAACAAAACCTACACATAT
* * *
51856281 GTATTATATATAATATA
1 ATATCATATATATTATA
51856298 ACCCATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 8 0.15
41 30 0.57
42 15 0.28
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (40 bp):
ATATCATATATATTATATATATAACAAAACCTACACATAT
Found at i:51856309 original size:29 final size:28
Alignment explanation
Indices: 51856244--51856309 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
51856234 ACATATATAT
51856244 CATATATATATATATATATAACAAAACC
1 CATATATATATATATATATAACAAAACC
* * * *
51856272 TACACATATGTAT-TATATATAATATAACC
1 --CATATATATATATATATATAACAAAACC
51856301 CATATATAT
1 CATATATAT
51856310 TACATCTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 7 0.23
29 14 0.47
30 9 0.30
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (28 bp):
CATATATATATATATATATAACAAAACC
Found at i:51857142 original size:21 final size:21
Alignment explanation
Indices: 51857118--51857160 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51857108 AAAACCTAAG
51857118 CATATCCAAGAAACATGAGAT
1 CATATCCAAGAAACATGAGAT
51857139 CATATCCAAGAAACATGAGAT
1 CATATCCAAGAAACATGAGAT
51857160 C
1 C
51857161 CACCATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.19
Consensus pattern (21 bp):
CATATCCAAGAAACATGAGAT
Found at i:51861207 original size:51 final size:51
Alignment explanation
Indices: 51861152--51861251 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
51861142 AATTATTTTA
* *
51861152 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGAATTTAAGAGAAAATTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * * *
51861203 AAATATGAATTTGAGAGAAAATTGGAAGGCATTTGAGAGCAAATTGAGA
1 AAATAGGAATTTAAGAGAAAATTAGAAGGAAATTGAGAGCAAATTGAGA
51861252 AAATAATTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.25
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAAATTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:51861524 original size:40 final size:40
Alignment explanation
Indices: 51861448--51861525 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
51861438 GACGTGGACA
* * * * *
51861448 CAAATCGCGCTTACGTGGACGTGATTTGTTGCCACGTCAG
1 CAAAGCGCGCTGACGTGGACGCGATTTGCTGACACGTCAG
51861488 CAAAGCGCGCTGACGTGGACGCGATTTGCTGACACGTC
1 CAAAGCGCGCTGACGTGGACGCGATTTGCTGACACGTC
51861526 CCCTGCCTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (40 bp):
CAAAGCGCGCTGACGTGGACGCGATTTGCTGACACGTCAG
Found at i:51862978 original size:23 final size:24
Alignment explanation
Indices: 51862935--51862979 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
51862925 GTTCAACTTC
51862935 ATAAATACTATCTTAGTTCTCTCT
1 ATAAATACTATCTTAGTTCTCTCT
51862959 ATAAATACTATC-TAGTTCTCT
1 ATAAATACTATCTTAGTTCTCT
51862980 ATCTTCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.44
Consensus pattern (24 bp):
ATAAATACTATCTTAGTTCTCTCT
Found at i:51863606 original size:4 final size:4
Alignment explanation
Indices: 51863597--51863634 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
51863587 GAATTGCCAT
*
51863597 TTTA TTTA TTTA TTTA -TTA TTTTA ATTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TT
51863635 GCTCTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.80
5 3 0.10
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:51863620 original size:20 final size:20
Alignment explanation
Indices: 51863595--51863634 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
51863585 TTGAATTGCC
*
51863595 ATTTTATTTATTTATTTATT
1 ATTTTAATTATTTATTTATT
51863615 ATTTTAATTATTTATTTATT
1 ATTTTAATTATTTATTTATT
51863635 GCTCTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTAATTATTTATTTATT
Found at i:51864561 original size:26 final size:26
Alignment explanation
Indices: 51864528--51864586 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
51864518 TGAAACAAAT
*
51864528 AAAGAAATAAAGATAAATTTTTGATA
1 AAAGAAATAAAGATAAATATTTGATA
*
51864554 AAAGAAATATAGATAAATATTTGATA
1 AAAGAAATAAAGATAAATATTTGATA
51864580 AAAGAAA
1 AAAGAAA
51864587 CTAGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (26 bp):
AAAGAAATAAAGATAAATATTTGATA
Found at i:51864637 original size:12 final size:12
Alignment explanation
Indices: 51864622--51864646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51864612 AAGAAATATA
51864622 GATAAAAATTTT
1 GATAAAAATTTT
51864634 GATAAAAATTTT
1 GATAAAAATTTT
51864646 G
1 G
51864647 GCCAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (12 bp):
GATAAAAATTTT
Done.