Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 51 of 356
Found at i:16656612 original size:19 final size:20
Alignment explanation
Indices: 16656576--16656617 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
16656566 AATAGATATT
16656576 TATTTATTTATAAATATTTTA
1 TATTTATTTAT-AATATTTTA
*
16656597 TATTTATTTAT-GTATTTTA
1 TATTTATTTATAATATTTTA
16656616 TA
1 TA
16656618 AATATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTATTTATAATATTTTA
Found at i:16662586 original size:19 final size:21
Alignment explanation
Indices: 16662533--16662594 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 21
16662523 TCTACGAATC
*
16662533 ATATCTCTAAGATTACATTTATT
1 ATATCTCTAAGATTACA--TAGT
16662556 ATATCTTCTAAGATTACA-AGT
1 ATATC-TCTAAGATTACATAGT
*
16662577 -TATCTCTAAGATTGCATA
1 ATATCTCTAAGATTACATA
16662595 TCTTTGACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 2 0.06
23 5 0.14
24 12 0.34
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (21 bp):
ATATCTCTAAGATTACATAGT
Found at i:16666219 original size:16 final size:16
Alignment explanation
Indices: 16666198--16666229 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16666188 ATCAAACAAA
16666198 ATTTTTATATGGATGC
1 ATTTTTATATGGATGC
16666214 ATTTTTATATGGATGC
1 ATTTTTATATGGATGC
16666230 GCTTTCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
ATTTTTATATGGATGC
Found at i:16672600 original size:132 final size:132
Alignment explanation
Indices: 16672363--16672627 Score: 440
Period size: 132 Copynumber: 2.0 Consensus size: 132
16672353 ATTGAGTTTT
*
16672363 ATCCAACCCGTTACAGGAGGAGTCCAACTCAAAAGACTCATCGTGGTCCCCAAGGATTTCATCTG
1 ATCCAACCCGTTACAGGAGGAGTCCAACTCAAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
* * * * *
16672428 CATATACAAATCTCGATAACTCTTAGCCTACATGTTGTAACACCCTTAACCCGTATCCGTCTCCG
66 CACATACAAATCCCAATAACTCTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGTCGCCG
16672493 GA
131 GA
** *
16672495 ATCCAACCCGTTGTAGGAGGAGTCCAACTCGAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
1 ATCCAACCCGTTACAGGAGGAGTCCAACTCAAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
*
16672560 CACATACAAATCCCAATAACTTTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGTCGCCG
66 CACATACAAATCCCAATAACTCTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGTCGCCG
16672625 GA
131 GA
16672627 A
1 A
16672628 CAAGGTTACA
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 123 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (132 bp):
ATCCAACCCGTTACAGGAGGAGTCCAACTCAAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
CACATACAAATCCCAATAACTCTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGTCGCCG
GA
Found at i:16673617 original size:16 final size:16
Alignment explanation
Indices: 16673591--16673629 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16673581 AATCAAACAT
*
16673591 TTCATAATCAAATACCA
1 TTCA-AATCAAAAACCA
16673608 TTCAAATCAAAAACCA
1 TTCAAATCAAAAACCA
*
16673624 CTCAAA
1 TTCAAA
16673630 AACATTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (16 bp):
TTCAAATCAAAAACCA
Found at i:16674654 original size:17 final size:17
Alignment explanation
Indices: 16674632--16674676 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16674622 ATCTCCGATG
16674632 ACTTCCAAATCGAGCGA
1 ACTTCCAAATCGAGCGA
* *
16674649 ACTTCCGAACCGAGCGA
1 ACTTCCAAATCGAGCGA
*
16674666 GCTTCCGAAAT
1 ACTTCC-AAAT
16674677 ACTGTAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (17 bp):
ACTTCCAAATCGAGCGA
Found at i:16675659 original size:19 final size:20
Alignment explanation
Indices: 16675637--16675726 Score: 55
Period size: 19 Copynumber: 4.5 Consensus size: 20
16675627 ACAAAATTCC
16675637 TATATTAAATTATATTA-TA
1 TATATTAAATTATATTAGTA
* *
16675656 TATATTTACTTATTATTTAAGTA
1 TATATTAAATTA-TA-TT-AGTA
* *
16675679 -ATTATT--ACTATATTATTA
1 TA-TATTAAATTATATTAGTA
*
16675697 TATTATTATATTATATTAGTA
1 TA-TATTAAATTATATTAGTA
16675718 TA-ATTAAAT
1 TATATTAAAT
16675727 AAATGAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
18 3 0.05
19 24 0.44
20 4 0.07
21 16 0.29
22 2 0.04
23 6 0.11
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TATATTAAATTATATTAGTA
Found at i:16675719 original size:8 final size:8
Alignment explanation
Indices: 16675681--16675710 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
16675671 TTTAAGTAAT
*
16675681 TATTACTA
1 TATTATTA
16675689 TATTATTA
1 TATTATTA
16675697 TATTATTA
1 TATTATTA
16675705 TATTAT
1 TATTAT
16675711 ATTAGTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:16676204 original size:20 final size:20
Alignment explanation
Indices: 16676176--16676213 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16676166 GGGAATTGAA
*
16676176 TGAAAAAATAAATTTAGTTT
1 TGAAAAAATAAAGTTAGTTT
*
16676196 TGAAGAAATAAAGTTAGT
1 TGAAAAAATAAAGTTAGT
16676214 CTCGATTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (20 bp):
TGAAAAAATAAAGTTAGTTT
Found at i:16679752 original size:25 final size:25
Alignment explanation
Indices: 16679724--16679807 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
16679714 TTGTATATCG
16679724 GGAAGCTCAAGAGAGCCATAAATCT
1 GGAAGCTCAAGAGAGCCATAAATCT
* *
16679749 GGAAGCTCAAAAGAGCCATTAAT-T
1 GGAAGCTCAAGAGAGCCATAAATCT
**
16679773 AGGAAGCTCGTGAGAGCCA-AATATC-
1 -GGAAGCTCAAGAGAGCCATAA-ATCT
16679798 GGAATGCTCA
1 GGAA-GCTCA
16679808 TAAGAGTTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.12
25 42 0.88
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (25 bp):
GGAAGCTCAAGAGAGCCATAAATCT
Found at i:16679813 original size:25 final size:26
Alignment explanation
Indices: 16679718--16679813 Score: 78
Period size: 25 Copynumber: 3.8 Consensus size: 26
16679708 ATCGAGTTGT
16679718 ATATCGGGAAGCTCA-AGAGAGCCATA
1 ATATCGGGAAGCTCATA-AGAGCCATA
* *
16679744 A-ATCTGGAAGCTCAAAAGAGCCATTA
1 ATATCGGGAAGCTCATAAGAGCCA-TA
* * *
16679770 AT-T-AGGAAGCTCGTGAGAGCCA-A
1 ATATCGGGAAGCTCATAAGAGCCATA
16679793 ATATC-GGAATGCTCATAAGAG
1 ATATCGGGAA-GCTCATAAGAG
16679814 TTGTGGTGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
23 3 0.05
24 5 0.09
25 43 0.75
26 6 0.11
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (26 bp):
ATATCGGGAAGCTCATAAGAGCCATA
Found at i:16683776 original size:18 final size:18
Alignment explanation
Indices: 16683753--16684035 Score: 117
Period size: 18 Copynumber: 15.3 Consensus size: 18
16683743 GAATAATTAT
16683753 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
16683771 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
16683789 TTATTCAATAATAATCAG
1 TTATTCAGTAACAGTCAG
*
16683807 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* * *
16683833 TTA-TCTAATAACAGTAAA
1 TTATTC-AGTAACAGTCAG
* *
16683851 TTATTCAGTAA-AATTAG
1 TTATTCAGTAACAGTCAG
* * *
16683868 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
16683887 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
16683904 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
16683923 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* * * *
16683941 TTAATCAGTAATATTCAA
1 TTATTCAGTAACAGTCAG
16683959 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * *
16683977 ATATCCAGTAACGGTCAA
1 TTATTCAGTAACAGTCAG
* * *
16683995 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
16684013 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
16684031 TTATT
1 TTATT
16684036 TTATACCTTT
Statistics
Matches: 197, Mismatches: 50, Indels: 36
0.70 0.18 0.13
Matches are distributed among these distances:
17 16 0.08
18 145 0.74
19 20 0.10
21 2 0.01
22 1 0.01
23 2 0.01
25 2 0.01
26 9 0.05
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:16683795 original size:36 final size:36
Alignment explanation
Indices: 16683753--16684035 Score: 153
Period size: 36 Copynumber: 7.6 Consensus size: 36
16683743 GAATAATTAT
* *
16683753 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
16683789 TTATTCAATAATAATCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
16683825 TTGA-TCGGTTATCTAATAACAGTAAATTATTCAGTAA-AATTAGA
1 TT-ATTCAG-TAAC-AAT--CAG----TTATTCAGTAACAATCA-A
* * * *
16683869 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
16683904 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
16683941 TTAATCAGTAATATTCAATTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* ** * * * *
16683978 -TATCCAGTAACGGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
16684013 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
16684036 TTATACCTTT
Statistics
Matches: 182, Mismatches: 48, Indels: 34
0.69 0.18 0.13
Matches are distributed among these distances:
35 3 0.02
36 127 0.70
37 19 0.10
38 3 0.02
40 5 0.03
42 7 0.04
43 7 0.04
44 11 0.06
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:16683833 original size:54 final size:53
Alignment explanation
Indices: 16683753--16684035 Score: 178
Period size: 54 Copynumber: 5.1 Consensus size: 53
16683743 GAATAATTAT
* * *
16683753 TTATTCAGTAAC-AGTCAGTTATTCGGTAACAATCAATTATTCAATAATAATCAG
1 TTATTCAGTAACGA-TCAATTA-TCGGTAACAATCAATTATTCAGTAACAATCAG
* * *
16683807 TTATTCAGTATCGATCAATTGATCGGTTATCTAATAACAGTAAATTATTCAGTAA-AATTAG
1 TTATTCAGTAACGATCAATT-ATCGG-TAAC-AAT--C----AATTATTCAGTAACAATCAG
* * * * * * *
16683868 ATATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAG
1 TTATTCAGTAACGATCAA-TTA-TCGGTAACAATCAATT-ATTCAGTAACAATCAG
* * * * *
16683923 TTATTCAGTAATGATCAATTAATCAGTAATATTCAATTATTCAGTAACAGTCTA-
1 TTATTCAGTAACGATCAATT-ATCGGTAACAATCAATTATTCAGTAACAATC-AG
* * * * *
16683977 ATATCCAGTAACGGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAG
1 TTATTCAGTAACGATCAATTAT-CGGTAACAATCAATTATTCAGTAACAATCAG
16684031 TTATT
1 TTATT
16684036 TTATACCTTT
Statistics
Matches: 176, Mismatches: 34, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
53 6 0.03
54 94 0.53
55 29 0.16
56 3 0.02
58 2 0.01
60 2 0.01
61 23 0.13
62 17 0.10
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (53 bp):
TTATTCAGTAACGATCAATTATCGGTAACAATCAATTATTCAGTAACAATCAG
Found at i:16683893 original size:19 final size:17
Alignment explanation
Indices: 16683851--16683896 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
16683841 TAACAGTAAA
16683851 TTATTCAGTAAAATTAG
1 TTATTCAGTAAAATTAG
* *
16683868 ATATTCAGTAACTATTAAG
1 TTATTCAGTAA-AATT-AG
16683887 TTATTCAGTA
1 TTATTCAGTA
16683897 GCAGTCATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 3 0.12
19 11 0.46
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (17 bp):
TTATTCAGTAAAATTAG
Found at i:16684260 original size:45 final size:45
Alignment explanation
Indices: 16684203--16684380 Score: 261
Period size: 45 Copynumber: 4.0 Consensus size: 45
16684193 ATCCGGAATA
* * * * *
16684203 GTAACAGTAACAGTAACAGTATTCAACGCACAAAGTGCTGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
16684248 GTAATGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
16684293 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
16684338 GTAACAGTAGCAGTAACAATATTCG--ACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
16684381 TAAATAGTAC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
43 18 0.15
45 104 0.85
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:16684356 original size:90 final size:85
Alignment explanation
Indices: 16684198--16684430 Score: 273
Period size: 90 Copynumber: 2.7 Consensus size: 85
16684188 AACAAATCCG
* * * * ** *
16684198 GAATAGTAACAGTAACAGTAACAGTATTCAACGCACAAAGTGCTGAATCGGTAATGGTAACAGTA
1 GAATCGTAAC-GTAACAGTAACAATATTCGAC-CACAAAGTGCCGAATCGGTAACAGTAGCAGTA
16684263 ACAATATTCGACACACACAGTGCC
64 ACAATATTCGACACA-A-AGTGCC
16684287 GAATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGCAGT
1 GAATC-GTAAC-GTAACAGTAACAATATTCGAC-CACAAAGTGCCGAATCGGTAACAGTAGCAGT
16684352 AACAATATTCGACACAAAGTGCC
63 AACAATATTCGACACAAAGTGCC
* *
16684375 GAATCGT-A---AATAGT-AC-A-ATTCGACCACAAAGTACCGAATCGGTAACAGTAGCAGTA
1 GAATCGTAACGTAACAGTAACAATATTCGACCACAAAGTGCCGAATCGGTAACAGTAGCAGTA
16684431 GCGTTAACAG
Statistics
Matches: 132, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
78 31 0.23
79 7 0.05
80 1 0.01
81 2 0.02
82 5 0.04
86 1 0.01
87 2 0.02
88 11 0.08
89 5 0.04
90 67 0.51
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (85 bp):
GAATCGTAACGTAACAGTAACAATATTCGACCACAAAGTGCCGAATCGGTAACAGTAGCAGTAAC
AATATTCGACACAAAGTGCC
Found at i:16684405 original size:35 final size:41
Alignment explanation
Indices: 16684198--16684424 Score: 189
Period size: 45 Copynumber: 5.3 Consensus size: 41
16684188 AACAAATCCG
* * * *
16684198 GAATAGTAACAGTAACAGTAACAGTATTCAACGCACAAAGTGCT
1 GAATCGTAACAGT-A-AGTAACAATATTCGAC-CACAAAGTGCC
** *
16684242 GAATCGGTAATGGTAACAGTAACAATATTCGACACACACAGTGCC
1 GAATC-GTAACAGT-A-AGTAACAATATTCGAC-CACAAAGTGCC
*
16684287 GAATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCC
1 GAATC-GTAACAGT-A-AGTAACAATATTCGAC-CACAAAGTGCC
16684332 GAATCGGTAACAGTAGCAGTAACAATATTCGA-CACAAAGTGCC
1 GAATC-GTAACAGTA--AGTAACAATATTCGACCACAAAGTGCC
*
16684375 GAATCGTAA-A-T-AGT-AC-A-ATTCGACCACAAAGTACC
1 GAATCGTAACAGTAAGTAACAATATTCGACCACAAAGTGCC
16684410 GAATCGGTAACAGTA
1 GAATC-GTAACAGTA
16684425 GCAGTAGCGT
Statistics
Matches: 164, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
34 6 0.04
35 16 0.10
36 6 0.04
37 4 0.02
38 1 0.01
40 1 0.01
41 1 0.01
42 4 0.02
43 16 0.10
44 5 0.03
45 104 0.63
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (41 bp):
GAATCGTAACAGTAAGTAACAATATTCGACCACAAAGTGCC
Found at i:16686241 original size:22 final size:23
Alignment explanation
Indices: 16686201--16686246 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
16686191 CTTTCTCCCC
16686201 TGTTTTTCTCTGTTTCATTTTCTT
1 TGTTTTTCTCTGTTTCA-TTTCTT
16686225 TGTTTTTCT-T-TTTCATTTCTT
1 TGTTTTTCTCTGTTTCATTTCTT
16686246 T
1 T
16686247 TATTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 1 0.05
24 9 0.41
ACGTcount: A:0.04, C:0.15, G:0.07, T:0.74
Consensus pattern (23 bp):
TGTTTTTCTCTGTTTCATTTCTT
Found at i:16686272 original size:13 final size:13
Alignment explanation
Indices: 16686254--16686285 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
16686244 TTTTATTTCA
16686254 TTTATTTCTTTAT
1 TTTATTTCTTTAT
16686267 TTTATTTCTTTAT
1 TTTATTTCTTTAT
16686280 TTTATT
1 TTTATT
16686286 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:16690577 original size:11 final size:10
Alignment explanation
Indices: 16690560--16690593 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
16690550 CCAATTTGTG
16690560 AAAAAAATAA
1 AAAAAAATAA
16690570 ATAAAAAAT-A
1 A-AAAAAATAA
16690580 AAAAAAATAA
1 AAAAAAATAA
16690590 AAAA
1 AAAA
16690594 GAGAACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.32
10 8 0.36
11 7 0.32
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:16690587 original size:16 final size:17
Alignment explanation
Indices: 16690562--16690593 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16690552 AATTTGTGAA
16690562 AAAAATAAATAAAAAAT
1 AAAAATAAATAAAAAAT
16690579 AAAAA-AAATAAAAAA
1 AAAAATAAATAAAAAA
16690594 GAGAACACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAATAAATAAAAAAT
Found at i:16691177 original size:21 final size:21
Alignment explanation
Indices: 16691141--16691194 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
16691131 TGTAGAATTT
16691141 TTTAAAATTTTT-ATATATTC
1 TTTAAAATTTTTAATATATTC
* * *
16691161 TTTATATTTTTTAATATATTT
1 TTTAAAATTTTTAATATATTC
16691182 TTTAAAATTTTTA
1 TTTAAAATTTTTA
16691195 CAATTTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTAAAATTTTTAATATATTC
Found at i:16691232 original size:18 final size:18
Alignment explanation
Indices: 16691209--16691246 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16691199 TTTAAAAAAA
*
16691209 ATAAATTTTGAAATTTTT
1 ATAAATATTGAAATTTTT
*
16691227 ATAAATATTGTAATTTTT
1 ATAAATATTGAAATTTTT
16691245 AT
1 AT
16691247 TGAGAGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATAAATATTGAAATTTTT
Found at i:16694512 original size:22 final size:23
Alignment explanation
Indices: 16694487--16694532 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16694477 CAACCAAATC
16694487 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16694509 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16694532 A
1 A
16694533 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16694538 original size:23 final size:23
Alignment explanation
Indices: 16694494--16694538 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16694484 ATCAATTCAA
*
16694494 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16694517 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16694539 CACATCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:16703984 original size:34 final size:34
Alignment explanation
Indices: 16703912--16703988 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
16703902 TTGCAATATG
* * * *
16703912 GTGTATTTATCACTCTGTCGAGTTATTTAGTGTG
1 GTGTAGTTATCACTCTGTCAAGCTATTTAGTGTA
*
16703946 GTGTAGTTATCGCTCTGTCAAGCTATCTT-GTGTA
1 GTGTAGTTATCACTCTGTCAAGCTAT-TTAGTGTA
16703980 GTGTAGTTA
1 GTGTAGTTA
16703989 CCCGTGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (34 bp):
GTGTAGTTATCACTCTGTCAAGCTATTTAGTGTA
Found at i:16705129 original size:24 final size:24
Alignment explanation
Indices: 16705102--16705151 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
16705092 GAATTAGAAG
16705102 TTGAATAAAATATGAAATTAAATT
1 TTGAATAAAATATGAAATTAAATT
16705126 TTGAATAAAATATGAAATTAAATT
1 TTGAATAAAATATGAAATTAAATT
16705150 TT
1 TT
16705152 ACTGCGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (24 bp):
TTGAATAAAATATGAAATTAAATT
Found at i:16706736 original size:46 final size:46
Alignment explanation
Indices: 16706684--16707169 Score: 367
Period size: 46 Copynumber: 10.8 Consensus size: 46
16706674 GCTTTCTGAA
16706684 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
16706730 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGCGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
16706776 ATGAAATGAATAAGACCATGGTTG-AAG--A-C-TGGTAATCCTGCT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CATGAT
* * ** ** * * ** *
16706818 AT--AAGGATG-AGGTTCGCGG--G--AGAAAGC-T---TTC-TGAA
1 ATGAAATG-TGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
16706853 ATGAAATGTGTAAGGTCATGGTTGAAAGATACCATGGCAAAATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
16706899 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * ** *
16706945 ATGAAAAGTGTAAGACCATGGTTGAAAGATACTATGGCAACGCGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
16706991 ATGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACATAACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-T
** ** * *
16707038 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-T
** ** *
16707085 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * *
16707131 AAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
16707170 TAATGTCGAA
Statistics
Matches: 360, Mismatches: 62, Indels: 36
0.79 0.14 0.08
Matches are distributed among these distances:
35 4 0.01
36 3 0.01
37 11 0.03
38 1 0.00
39 2 0.01
40 10 0.03
41 10 0.03
42 5 0.01
43 1 0.00
45 3 0.01
46 222 0.62
47 88 0.24
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:16706912 original size:169 final size:169
Alignment explanation
Indices: 16706633--16706970 Score: 532
Period size: 169 Copynumber: 2.0 Consensus size: 169
16706623 ATTTAGCCTG
* ***
16706633 GACTGGTAATCCCACTGTAAGGATGAGGTTCGCGGGAGTGTGCTTTCTGAAATGAAATGTGTAAG
1 GACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAGAAAGCTTTCTGAAATGAAATGTGTAAG
*
16706698 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
** *
16706763 ATGGCAATGCGACATGAAATGAATAAGACCATGGTTGAA
131 ATGGCAACACGACATGAAAAGAATAAGACCATGGTTGAA
**
16706802 GACTGGTAATCCTGCTATAAGGATGAGGTTCGCGGGAGAAAGCTTTCTGAAATGAAATGTGTAAG
1 GACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAGAAAGCTTTCTGAAATGAAATGTGTAAG
**
16706867 GTCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
* * **
16706932 ATGGCAACATGATATGAAAAGTGTAAGACCATGGTTGAA
131 ATGGCAACACGACATGAAAAGAATAAGACCATGGTTGAA
16706971 AGATACTATG
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
169 153 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (169 bp):
GACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAGAAAGCTTTCTGAAATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACACGACATGAAAAGAATAAGACCATGGTTGAA
Found at i:16708619 original size:15 final size:17
Alignment explanation
Indices: 16708587--16708620 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16708577 TTAAATTTAT
16708587 AGATGGTTATATTGGTA
1 AGATGGTTATATTGGTA
16708604 AGATGGTTA-A-TGGTA
1 AGATGGTTATATTGGTA
16708619 AG
1 AG
16708621 TGATAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (17 bp):
AGATGGTTATATTGGTA
Found at i:16715084 original size:21 final size:22
Alignment explanation
Indices: 16715055--16715095 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16715045 AGTTATAATC
16715055 TAAATTTTTAAAAATATAAATA
1 TAAATTTTTAAAAATATAAATA
*
16715077 TAAA-TTTTAAATATATAAA
1 TAAATTTTTAAAAATATAAA
16715096 GAGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATTTTTAAAAATATAAATA
Found at i:16718226 original size:27 final size:28
Alignment explanation
Indices: 16718195--16718251 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
16718185 ATTTTTAATG
16718195 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
16718222 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
16718251 A
1 A
16718252 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:16719288 original size:12 final size:13
Alignment explanation
Indices: 16719271--16719302 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16719261 GCAAAAGTTA
16719271 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
16719283 AGTTTTGATGCAT
1 AGTTTTGATGCAT
16719296 -GTTTTGA
1 AGTTTTGA
16719303 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:16724836 original size:40 final size:40
Alignment explanation
Indices: 16724781--16724859 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
16724771 TATCTTTGAG
16724781 AATCTCCATACCAAGTATCTTCCTTACTGCCCCCAAATCT
1 AATCTCCATACCAAGTATCTTCCTTACTGCCCCCAAATCT
16724821 AATCTCCATACCAAGTATCTTCCTTACTGCCCCCAAATC
1 AATCTCCATACCAAGTATCTTCCTTACTGCCCCCAAATC
16724860 CTTCATCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.29
Consensus pattern (40 bp):
AATCTCCATACCAAGTATCTTCCTTACTGCCCCCAAATCT
Found at i:16726509 original size:12 final size:12
Alignment explanation
Indices: 16726492--16726517 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16726482 TGTTATGGAT
16726492 TCCTTTGGTGAA
1 TCCTTTGGTGAA
16726504 TCCTTTGGTGAA
1 TCCTTTGGTGAA
16726516 TC
1 TC
16726518 GAACTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.42
Consensus pattern (12 bp):
TCCTTTGGTGAA
Found at i:16729443 original size:5 final size:5
Alignment explanation
Indices: 16729400--16729450 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
16729390 ACATAGTAAT
* *
16729400 AATTA TAATTA TAATTA ATATTT AATTA TATTA AA-TA AATTA AATTA
1 AATTA -AATTA -AATTA A-ATTA AATTA AATTA AATTA AATTA AATTA
16729447 AATT
1 AATT
16729451 TATTTTTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
4 4 0.10
5 20 0.51
6 15 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
AATTA
Found at i:16730802 original size:30 final size:30
Alignment explanation
Indices: 16730763--16730835 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
16730753 TTTTATTATT
*
16730763 ATTATTTATTATTAGTATGGTTTTATATTAA
1 ATTA-TTATTATTAGTATGGTTTCATATTAA
*
16730794 ATTATTATTATTATTATGGTTTCATATTAA
1 ATTATTATTATTAGTATGGTTTCATATTAA
* *
16730824 GTTATAATTATT
1 ATTATTATTATT
16730836 TAATTGGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 34 0.89
31 4 0.11
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (30 bp):
ATTATTATTATTAGTATGGTTTCATATTAA
Found at i:16731295 original size:22 final size:21
Alignment explanation
Indices: 16731263--16731303 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
16731253 TAAACAAAGT
16731263 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
16731284 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
16731304 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:16732286 original size:21 final size:21
Alignment explanation
Indices: 16732211--16732290 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
16732201 ACTGATCAGA
*
16732211 CACTTTATGTGTCGTATTTCAGG
1 CACTTCATGTGTCGT-TTT-AGG
* * * * *
16732234 CACCTCGTGTGCCGTATCAGG
1 CACTTCATGTGTCGTTTTAGG
*
16732255 CACTTCGTGTGTCGTTTTAGG
1 CACTTCATGTGTCGTTTTAGG
*
16732276 CACTTTATGTGTCGT
1 CACTTCATGTGTCGT
16732291 ATTCTGATCA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
21 33 0.73
22 1 0.02
23 11 0.24
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.39
Consensus pattern (21 bp):
CACTTCATGTGTCGTTTTAGG
Found at i:16749572 original size:14 final size:14
Alignment explanation
Indices: 16749553--16749581 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16749543 GCAATAATTC
16749553 AATCTAGGGTTCAT
1 AATCTAGGGTTCAT
16749567 AATCTAGGGTTCAT
1 AATCTAGGGTTCAT
16749581 A
1 A
16749582 GGTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (14 bp):
AATCTAGGGTTCAT
Found at i:16750477 original size:49 final size:50
Alignment explanation
Indices: 16750255--16750482 Score: 255
Period size: 49 Copynumber: 4.6 Consensus size: 50
16750245 ATATGATGAA
* * * * * *
16750255 TAAGAGCAGGCTACTATGCGTACCTGATAACTTCGATCACATGTGTAATAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGATCACATGTGTAGTAC
* ** * *
16750306 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTAGATCACATGTGTAGTAC
* * *
16750356 TAAATGCAGGCTACTACGTGTACC-GAATAATT-GGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAG-ATAATTAGATCACATGTGTAGTAC
* *
16750405 TAAGTGCAGGCTACTACGTGTACCGGATAATT-GATCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTAGATCACATGTGTAGTAC
* *
16750454 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTACGTGTACCAGATA
16750483 GCTTGGCTAC
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 87 0.57
50 43 0.28
51 23 0.15
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTAGATCACATGTGTAGTAC
Found at i:16755211 original size:20 final size:20
Alignment explanation
Indices: 16755186--16755225 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16755176 GTCCATCGTT
*
16755186 TTTAATATAATCTTTATATA
1 TTTAATATAATCTTAATATA
16755206 TTTAATATAATCTTAATATA
1 TTTAATATAATCTTAATATA
16755226 GACATCCATC
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:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATATAATCTTAATATA
Found at i:16755214 original size:11 final size:11
Alignment explanation
Indices: 16755187--16755225 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16755177 TCCATCGTTT
16755187 TTAATATAATC
1 TTAATATAATC
*
16755198 TTTATAT-AT-
1 TTAATATAATC
16755207 TTAATATAATC
1 TTAATATAATC
16755218 TTAATATA
1 TTAATATA
16755226 GACATCCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 14 0.58
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAATATAATC
Found at i:16755528 original size:12 final size:12
Alignment explanation
Indices: 16755511--16755537 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16755501 TTTCAATTAA
16755511 ATAGTTAAAAAT
1 ATAGTTAAAAAT
16755523 ATAGTTAAAAAT
1 ATAGTTAAAAAT
16755535 ATA
1 ATA
16755538 ATTATTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
ATAGTTAAAAAT
Found at i:16756333 original size:29 final size:30
Alignment explanation
Indices: 16756300--16756359 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
16756290 AAACATTTTT
* * *
16756300 ACTTTCCCCTAATATTTTTACT-CCCTCTC
1 ACTTTCCCCCAAAACTTTTACTCCCCTCTC
16756329 ACTTTCCCCCAAAACTTTTACTCCCCTCTC
1 ACTTTCCCCCAAAACTTTTACTCCCCTCTC
16756359 A
1 A
16756360 TCCCACCCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.38
Consensus pattern (30 bp):
ACTTTCCCCCAAAACTTTTACTCCCCTCTC
Found at i:16757351 original size:70 final size:70
Alignment explanation
Indices: 16757234--16757366 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 70
16757224 ACTTTTGGCA
* * * * * *
16757234 GGGCCAATGTTGAGATTTTCTAATTTATCAATGGGCCAAGACGATACCTACGCCTGTCATTTTTT
1 GGGCCAATGTTGAGATTTTATAATTTACCAAGGGGACAAGACAATACCTACCCCTGTCATTTTTT
16757299 AAAAG
66 AAAAG
* * * *
16757304 GGGCCAATGTTGATATTTTATTATTTACCAAGGGGATAAGGCAATACCTACCCCTGTCATTTT
1 GGGCCAATGTTGAGATTTTATAATTTACCAAGGGGACAAGACAATACCTACCCCTGTCATTTT
16757367 CTGAATATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 53 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (70 bp):
GGGCCAATGTTGAGATTTTATAATTTACCAAGGGGACAAGACAATACCTACCCCTGTCATTTTTT
AAAAG
Found at i:16763335 original size:21 final size:22
Alignment explanation
Indices: 16763311--16763355 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
16763301 TGTATAGTGC
16763311 ATATACACATTGCATTT-ATAT
1 ATATACACATTGCATTTCATAT
* * *
16763332 ATATATATATTTCATTTCATAT
1 ATATACACATTGCATTTCATAT
16763354 AT
1 AT
16763356 CAACCTCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATACACATTGCATTTCATAT
Found at i:16776379 original size:16 final size:16
Alignment explanation
Indices: 16776349--16776381 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16776339 TGCATGATGG
16776349 TGGTTTGGAGTGGAGA
1 TGGTTTGGAGTGGAGA
16776365 TGGTATTGGAG-GGAGA
1 TGGT-TTGGAGTGGAGA
16776381 T
1 T
16776382 AATTGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.30
Consensus pattern (16 bp):
TGGTTTGGAGTGGAGA
Found at i:16796737 original size:38 final size:38
Alignment explanation
Indices: 16796663--16796738 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
16796653 AGAACGGAAA
**
16796663 ATGTTAATGAGTAACTGATTTGTAACTTTTGGATAATG
1 ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAATG
* * * *
16796701 ATGTTAATGGGTGATTGATTTGTCACTTTTCAATAATG
1 ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAATG
16796739 TTAGTGATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (38 bp):
ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAATG
Found at i:16798511 original size:25 final size:25
Alignment explanation
Indices: 16798483--16798532 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16798473 TTTTTCAGAG
16798483 TAAGTAATATTGATAATATTTAATA
1 TAAGTAATATTGATAATATTTAATA
*
16798508 TAAGTAATATTGATGATATTTAATA
1 TAAGTAATATTGATAATATTTAATA
16798533 GTTGATACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (25 bp):
TAAGTAATATTGATAATATTTAATA
Found at i:16798579 original size:19 final size:19
Alignment explanation
Indices: 16798555--16798593 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16798545 TTAAGTAAAT
*
16798555 ATTGTTTGTATATATTTTA
1 ATTGTTGGTATATATTTTA
*
16798574 ATTGTTGGTATTTATTTTA
1 ATTGTTGGTATATATTTTA
16798593 A
1 A
16798594 GTAATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (19 bp):
ATTGTTGGTATATATTTTA
Found at i:16799311 original size:15 final size:15
Alignment explanation
Indices: 16799293--16799328 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16799283 GGTTTTTAAT
16799293 ATTTTTAGCTTTACG
1 ATTTTTAGCTTTACG
* *
16799308 ATTTTTGGGTTTACG
1 ATTTTTAGCTTTACG
16799323 ATTTTT
1 ATTTTT
16799329 TTTAAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (15 bp):
ATTTTTAGCTTTACG
Found at i:16802248 original size:20 final size:19
Alignment explanation
Indices: 16802223--16802263 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
16802213 CATTTCCAAT
*
16802223 TATCATATTTTCTATTTCAA
1 TATCATAATTTCTA-TTCAA
16802243 TATCATAATTTCTATTCAA
1 TATCATAATTTCTATTCAA
16802262 TA
1 TA
16802264 GCATTTCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (19 bp):
TATCATAATTTCTATTCAA
Found at i:16805391 original size:43 final size:44
Alignment explanation
Indices: 16805263--16805422 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 44
16805253 ATATGTGCTA
*
16805263 TCGTGTAAGACCACGTCTGGGA-GGTTGGCATCGAT-TTGTGATT
1 TCGTGTAAGACCACGTCTGGGACAGTTGGCATCGATATT-TGATT
*
16805306 TACGTGTAAGACCATGTCTGGGACA-TTGGCATCGCATA--TGATT
1 T-CGTGTAAGACCACGTCTGGGACAGTTGGCATCG-ATATTTGATT
*
16805349 TTGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACAGTTGGCATCGATATTTGATT
* *
16805392 ACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACAGTTGGCAT
16805423 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 7, Indels: 20
0.79 0.06 0.16
Matches are distributed among these distances:
41 3 0.03
42 29 0.29
43 36 0.36
44 30 0.30
45 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (44 bp):
TCGTGTAAGACCACGTCTGGGACAGTTGGCATCGATATTTGATT
Found at i:16808256 original size:26 final size:26
Alignment explanation
Indices: 16808202--16808253 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
16808192 ACTTTTTGAT
*
16808202 TTCCAATGAATACCAGTTTCAATCAA
1 TTCCAATCAATACCAGTTTCAATCAA
16808228 TTCCAATTCAATACACA-TTTCAATCA
1 TTCCAA-TCAATAC-CAGTTTCAATCA
16808254 TTCATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 15 0.65
28 2 0.09
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTCCAATCAATACCAGTTTCAATCAA
Found at i:16808973 original size:17 final size:15
Alignment explanation
Indices: 16808945--16808978 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
16808935 CCCTAATTTC
16808945 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
16808960 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
16808977 TC
1 TC
16808979 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:16809064 original size:5 final size:5
Alignment explanation
Indices: 16809056--16809086 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
16809046 AGTTTATGTT
16809056 TATTA TATTAA TATTA TATTA TATTA TATTA
1 TATTA TATT-A TATTA TATTA TATTA TATTA
16809087 ACATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:16809077 original size:16 final size:15
Alignment explanation
Indices: 16809056--16809086 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
16809046 AGTTTATGTT
16809056 TATTATATTAATATTA
1 TATTATATT-ATATTA
16809072 TATTATATTATATTA
1 TATTATATTATATTA
16809087 ACATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATATTATATTA
Found at i:16809321 original size:24 final size:24
Alignment explanation
Indices: 16809294--16809339 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16809284 TTTGTACAAA
16809294 TGTATTTAATTGTTACCATACACT
1 TGTATTTAATTGTTACCATACACT
* *
16809318 TGTATTTACTTTTTACCATACA
1 TGTATTTAATTGTTACCATACA
16809340 TGTGTTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (24 bp):
TGTATTTAATTGTTACCATACACT
Found at i:16815297 original size:18 final size:18
Alignment explanation
Indices: 16815276--16815369 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 18
16815266 TTAAACTCTC
16815276 TTTCTTTTTCAATTTCTT
1 TTTCTTTTTCAATTTCTT
*
16815294 TTTC-TTCTCACA-TTCTT
1 TTTCTTTTTCA-ATTTCTT
** * * *
16815311 TTTCACTCTCGATCTCTT
1 TTTCTTTTTCAATTTCTT
*
16815329 TTTCTTTTTC-CTTCTCTTT
1 TTTCTTTTTCAATT-TC-TT
*
16815348 TTTCTTTTTTCACTTTCTT
1 TTTC-TTTTTCAATTTCTT
16815367 TTT
1 TTT
16815370 TAAGTTCATT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
17 16 0.27
18 22 0.37
19 11 0.18
20 8 0.13
21 3 0.05
ACGTcount: A:0.07, C:0.24, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCAATTTCTT
Found at i:16815356 original size:20 final size:20
Alignment explanation
Indices: 16815306--16815370 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 20
16815296 TCTTCTCACA
16815306 TTCTTTTTCACTCTCGATCTCTTT
1 TTCTTTTTCACT-TC--TCT-TTT
16815330 TTCTTTTTC-CTTCTCTTTT
1 TTCTTTTTCACTTCTCTTTT
16815349 TTCTTTTTTCACTT-TCTTTT
1 TTC-TTTTTCACTTCTCTTTT
16815369 TT
1 TT
16815371 AAGTTCATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.15
20 17 0.44
21 3 0.08
22 2 0.05
23 2 0.05
24 9 0.23
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (20 bp):
TTCTTTTTCACTTCTCTTTT
Found at i:16842587 original size:40 final size:39
Alignment explanation
Indices: 16842543--16842653 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
16842533 CATATCCGGA
* *
16842543 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGAG
1 CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCGAG
* *
16842583 CTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGG
1 CTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGAG
*
16842622 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CTAAGT-CCGAAGGCATTTGTGCGAGTTACTA
16842654 TAACCGGGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.53
40 30 0.47
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGAG
Found at i:16842688 original size:40 final size:40
Alignment explanation
Indices: 16842497--16842681 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
16842487 TTGAATGATG
* * * *
16842497 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGC-GAGTTACTAAA
* * * *
16842537 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGTTACTAAA
* *
16842577 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
* *
16842616 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-AA
16842657 -CCGGGCTATA-TCCCAAAGGCATTTG
1 TCCGGGCTA-AGTCCCAAAGGCATTTG
16842682 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.63
41 11 0.09
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
Found at i:16842703 original size:79 final size:79
Alignment explanation
Indices: 16842550--16842714 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
16842540 GGACTAAGAT
* * **
16842550 CCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
16842615 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
16842629 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATATCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGAGCTA-AGCCCAAAGGCATTTGAACGAGTTA-C
* *
16842692 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
16842708 CCGAAGG
1 CCGAAGG
16842715 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:16850590 original size:40 final size:40
Alignment explanation
Indices: 16850409--16850590 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
16850399 TGAATGATGT
* * * *
16850409 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
16850449 CCGGACTAAGAT--CGAAGGCATTTGTGCGAGATA-T-TAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16850486 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
16850526 CTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16850566 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16850591 AATGAGTAGC
Statistics
Matches: 117, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
37 2 0.02
38 8 0.07
39 65 0.56
40 41 0.35
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:16850622 original size:79 final size:77
Alignment explanation
Indices: 16850461--16850623 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 77
16850451 GGACTAAGAT
**
16850461 CGAAGGCATTTGTGCGAGATATTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
1 CGAAGGCATTTGTGCGAGATATTAA-TCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAT
* *
16850526 CTGGGTTAAGTCC
65 CTCGGTTAAATCC
* * *
16850539 CGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCT
1 CGAAGGCATTTGTGCGAGATA-T-TAATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
*
16850602 ATATC-CGGTTAAATTC
62 A-ATCTCGGTTAAATCC
16850618 CGAAGG
1 CGAAGG
16850624 TACGTGATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
78 31 0.43
79 35 0.49
80 6 0.08
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (77 bp):
CGAAGGCATTTGTGCGAGATATTAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAATC
TCGGTTAAATCC
Found at i:16852402 original size:31 final size:31
Alignment explanation
Indices: 16852353--16852415 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
16852343 CTTTCCAAGA
* * *
16852353 AAGACGCTGAATCGAGGTTGATCCGATGGGT
1 AAGACACTAAATCAAGGTTGATCCGATGGGT
16852384 AAGACACTAAATCAAGGTTGATCCGATGGGT
1 AAGACACTAAATCAAGGTTGATCCGATGGGT
16852415 A
1 A
16852416 CTTATATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (31 bp):
AAGACACTAAATCAAGGTTGATCCGATGGGT
Found at i:16877344 original size:71 final size:71
Alignment explanation
Indices: 16877190--16877344 Score: 188
Period size: 71 Copynumber: 2.2 Consensus size: 71
16877180 TCTACTAGTG
*
16877190 GTTGGGTGCAAAATATTATTGGTTTATCCAACCAGTGCAAGGCACATCTATCGTCAATTTATCCG
1 GTTGGGTGCAAAATATTATCGGTTTATCCAACCAGTGCAAGGCACATCTATCGTCAATTTATCCG
*
16877255 ACCAGT
66 ACCAAT
* ** * * * **
16877261 GATGGGCACAAAATATTATCGGTTTATTCAACCAGTGC-AGGACATATCTATTGTCGGTATTA-C
1 GTTGGGTGCAAAATATTATCGGTTTATCCAACCAGTGCAAGG-CACATCTATCGTCAAT-TTATC
16877324 CGACCAAT
64 CGACCAAT
16877332 GTTGGGTGCAAAA
1 GTTGGGTGCAAAA
16877345 CATTGTTACA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
70 3 0.04
71 63 0.91
72 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (71 bp):
GTTGGGTGCAAAATATTATCGGTTTATCCAACCAGTGCAAGGCACATCTATCGTCAATTTATCCG
ACCAAT
Found at i:16879660 original size:17 final size:18
Alignment explanation
Indices: 16879640--16879676 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16879630 GTTCAGTACC
16879640 AATCAGTCAA-CAGTAAT
1 AATCAGTCAATCAGTAAT
*
16879657 AATCAGTTAATCAGTAAT
1 AATCAGTCAATCAGTAAT
16879675 AA
1 AA
16879677 CCATTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATCAGTCAATCAGTAAT
Found at i:16879673 original size:18 final size:18
Alignment explanation
Indices: 16879640--16879691 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16879630 GTTCAGTACC
*
16879640 AATCAGTCAA-CAGTAAT
1 AATCAGTTAATCAGTAAT
16879657 AATCAGTTAATCAGTAAT
1 AATCAGTTAATCAGTAAT
* * *
16879675 AACCATTTATTCAGTAA
1 AATCAGTTAATCAGTAA
16879692 CAGTTGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 9 0.30
18 21 0.70
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (18 bp):
AATCAGTTAATCAGTAAT
Found at i:16879701 original size:18 final size:18
Alignment explanation
Indices: 16879679--16879731 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
16879669 AGTAATAACC
16879679 ATTTATTCAGTAACAGTT
1 ATTTATTCAGTAACAGTT
*
16879697 GTTTATTCAGTAACAGTT
1 ATTTATTCAGTAACAGTT
* *
16879715 AATTATTCAGTAGCAGT
1 ATTTATTCAGTAACAGT
16879732 CAATTTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (18 bp):
ATTTATTCAGTAACAGTT
Found at i:16879742 original size:17 final size:18
Alignment explanation
Indices: 16879681--16879743 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
16879671 TAATAACCAT
***
16879681 TTATTCAGTAACAGTTGT
1 TTATTCAGTAACAGTCAA
*
16879699 TTATTCAGTAACAGTTAA
1 TTATTCAGTAACAGTCAA
*
16879717 TTATTCAGTAGCAGTCAA
1 TTATTCAGTAACAGTCAA
16879735 TT-TTCAGTA
1 TTATTCAGTA
16879744 CCTTTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 7 0.17
18 34 0.83
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:16880935 original size:27 final size:27
Alignment explanation
Indices: 16880897--16880951 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16880887 AAACATCAAA
16880897 ATTAAGTAAAAAGGGCTAAATTGACTT
1 ATTAAGTAAAAAGGGCTAAATTGACTT
16880924 ATTAAGTAAAAAGGGCTAAATTGACTT
1 ATTAAGTAAAAAGGGCTAAATTGACTT
16880951 A
1 A
16880952 CCTATTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (27 bp):
ATTAAGTAAAAAGGGCTAAATTGACTT
Found at i:16881121 original size:13 final size:12
Alignment explanation
Indices: 16881089--16881122 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
16881079 TTACTATATA
16881089 TATATAATAACT
1 TATATAATAACT
16881101 TA-ATAATATACT
1 TATATAATA-ACT
16881113 TATATAATAA
1 TATATAATAA
16881123 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:16888590 original size:25 final size:25
Alignment explanation
Indices: 16888561--16888608 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
16888551 CCCATAAAGT
16888561 TAAACTTGATTTCAAGTCAAAGTGC
1 TAAACTTGATTTCAAGTCAAAGTGC
16888586 TAAACTTGATTTCAAGTCAAAGT
1 TAAACTTGATTTCAAGTCAAAGT
16888609 TCACGTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (25 bp):
TAAACTTGATTTCAAGTCAAAGTGC
Found at i:16890625 original size:12 final size:12
Alignment explanation
Indices: 16890608--16890632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16890598 TAATTGGGAA
16890608 TTTGTTTAATTT
1 TTTGTTTAATTT
16890620 TTTGTTTAATTT
1 TTTGTTTAATTT
16890632 T
1 T
16890633 CAAATACAGT
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTGTTTAATTT
Found at i:16891912 original size:24 final size:21
Alignment explanation
Indices: 16891866--16891912 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
16891856 TTGATATGTT
16891866 AGTGAAGAGAAAATAAGAGAA
1 AGTGAAGAGAAAATAAGAGAA
*
16891887 AGTGATGAGAAATAGTATAGAGAA
1 AGTGAAGAGAAA-A-TA-AGAGAA
16891911 AG
1 AG
16891913 AAAATAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 1 0.05
23 2 0.09
24 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (21 bp):
AGTGAAGAGAAAATAAGAGAA
Found at i:16893372 original size:46 final size:46
Alignment explanation
Indices: 16893320--16893592 Score: 325
Period size: 46 Copynumber: 6.0 Consensus size: 46
16893310 GCTTTCTGAA
** * *
16893320 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
16893366 ATGAAATGAATAAGGCCATGGTTGAAAGATACCATGACAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
16893412 GGGAAATGAATAAGACCGTGGTTGAAAGATTCCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
16893458 ATGAAATGAATAAGACCATGGTTGAAAGACACCATAGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
16893504 GGGAAATGAATAA-ACCATGGTTGAAAGAGACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
16893549 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
16893593 TCGAAGATAA
Statistics
Matches: 195, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
44 1 0.01
45 39 0.20
46 155 0.79
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:16893479 original size:92 final size:92
Alignment explanation
Indices: 16893330--16893580 Score: 364
Period size: 92 Copynumber: 2.7 Consensus size: 92
16893320 ATGAAATGTG
* * *
16893330 TAAGACCATGGTTGAAAGATACAATGGCAACGTGACATGAAATGAATAAGGCCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
16893395 TACCAT-GACAACGTGACGGGAAATGAA
66 CACCATAG-CAACATGACGGGAAATGAA
* * *
16893422 TAAGACCGTGGTTGAAAGATTCCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
16893487 CACCATAGCAACATGACGGGAAATGAA
66 CACCATAGCAACATGACGGGAAATGAA
* * *
16893514 TAA-ACCATGGTTGAAAGAGACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAATAAGACCATGGTTGAAAG
16893577 ACAC
65 ACAC
16893581 TATGGCATCA
Statistics
Matches: 143, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
90 1 0.01
91 56 0.39
92 85 0.59
93 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
CACCATAGCAACATGACGGGAAATGAA
Found at i:16894430 original size:37 final size:37
Alignment explanation
Indices: 16894389--16894459 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
16894379 GGTTTTGGGG
16894389 ATTTGATCTTCAATTTCAAATTTATACTGGAATAGGT
1 ATTTGATCTTCAATTTCAAATTTATACTGGAATAGGT
16894426 ATTTGATCTTCAATTTCAAATTTATACTGGAATA
1 ATTTGATCTTCAATTTCAAATTTATACTGGAATA
16894460 AGTTTTGGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (37 bp):
ATTTGATCTTCAATTTCAAATTTATACTGGAATAGGT
Found at i:16894918 original size:30 final size:31
Alignment explanation
Indices: 16894882--16894939 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
16894872 TGTTTCAAAA
* **
16894882 ATACCTAATTGGTAGTTGAACTT-TATTTTT
1 ATACCTAATTAGTACATGAACTTGTATTTTT
16894912 ATACCTAATTAGTACATGAACTTGTATT
1 ATACCTAATTAGTACATGAACTTGTATT
16894940 CTGTTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (31 bp):
ATACCTAATTAGTACATGAACTTGTATTTTT
Found at i:16909784 original size:24 final size:24
Alignment explanation
Indices: 16909757--16909826 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
16909747 TTATTAACAT
16909757 TGTTCGTGAACATGTTCAATTAT-A
1 TGTTCGTGAACATGTTC-ATTATAA
* * *
16909781 TGTTCATGAACATGTTCGTTTTAA
1 TGTTCGTGAACATGTTCATTATAA
*
16909805 TATTCGTGAACATGTTCGATTA
1 TGTTCGTGAACATGTTC-ATTA
16909827 AGTTAAATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.08
24 32 0.86
25 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCATTATAA
Found at i:16911611 original size:27 final size:26
Alignment explanation
Indices: 16911581--16911645 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
16911571 TTATATCTGC
16911581 AACTGTATCTAATTGGGCTAAGGCCCA
1 AACTGTATCTAA-TGGGCTAAGGCCCA
* * *
16911608 AACTGAATCTGTAATGGGCTTAGGCCTA
1 AACTGTATC--TAATGGGCTAAGGCCCA
*
16911636 ACCTGTATCT
1 AACTGTATCT
16911646 GACTATATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 1 0.03
27 8 0.26
28 19 0.61
29 3 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AACTGTATCTAATGGGCTAAGGCCCA
Found at i:16912834 original size:26 final size:27
Alignment explanation
Indices: 16912804--16912854 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
16912794 GAATAAAGAA
16912804 GATCCTTGC-TTCCATTCAAGATGCAT
1 GATCCTTGCTTTCCATTCAAGATGCAT
16912830 GATCCTTGCTTTCCATTCAAGATGC
1 GATCCTTGCTTTCCATTCAAGATGC
16912855 TACTATCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (27 bp):
GATCCTTGCTTTCCATTCAAGATGCAT
Found at i:16931109 original size:13 final size:13
Alignment explanation
Indices: 16931091--16931116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16931081 ACCTATTTAA
16931091 AATAAATATGAAT
1 AATAAATATGAAT
16931104 AATAAATATGAAT
1 AATAAATATGAAT
16931117 TGGATTTCAT
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:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AATAAATATGAAT
Found at i:16932013 original size:13 final size:13
Alignment explanation
Indices: 16931995--16932019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16931985 TATAACAATG
16931995 TTTTTAAAAAGTA
1 TTTTTAAAAAGTA
16932008 TTTTTAAAAAGT
1 TTTTTAAAAAGT
16932020 GCTATGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTTTAAAAAGTA
Found at i:16939103 original size:19 final size:19
Alignment explanation
Indices: 16939079--16939115 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16939069 GCATGACCTC
16939079 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
16939098 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
16939116 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:16941157 original size:18 final size:17
Alignment explanation
Indices: 16941131--16941165 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16941121 AATATTAAGA
*
16941131 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16941148 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16941166 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16941177 original size:120 final size:120
Alignment explanation
Indices: 16941024--16941307 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
16941014 TAATTGAAAA
* * *
16941024 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
16941088 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
16941143 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
16941208 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
16941263 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
16941308 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:16941279 original size:18 final size:17
Alignment explanation
Indices: 16941251--16941285 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16941241 ATTATTAAGA
*
16941251 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16941268 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16941286 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16941285 original size:16 final size:16
Alignment explanation
Indices: 16941251--16941305 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
16941241 ATTATTAAGA
16941251 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
16941268 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
16941284 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
16941298 ATGTTTAA
1 AT-TTTAA
16941306 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:16941542 original size:16 final size:16
Alignment explanation
Indices: 16941521--16941572 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
16941511 GATTTGCTAT
16941521 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
16941537 TACACCTTTAATCTAA
1 TACACCTCTAATCCAA
16941553 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16941569 TACA
1 TACA
16941573 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16942322 original size:18 final size:18
Alignment explanation
Indices: 16942288--16942321 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16942278 TCAAAAATTT
16942288 TATTTTTAAATACTTTTC
1 TATTTTTAAATACTTTTC
16942306 TATTTTTAAATA-TTTT
1 TATTTTTAAATACTTTT
16942322 TTTAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTAAATACTTTTC
Found at i:16951441 original size:25 final size:27
Alignment explanation
Indices: 16951403--16951455 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
16951393 AAAAGAAAAG
16951403 AAAAGAAAAGAAAAA-GGCCTCTTCAA
1 AAAAGAAAAGAAAAAGGGCCTCTTCAA
16951429 AAAAGAAAA-AAAAAGGGCCTCTTCAA
1 AAAAGAAAAGAAAAAGGGCCTCTTCAA
16951455 A
1 A
16951456 GAACATATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.11
Consensus pattern (27 bp):
AAAAGAAAAGAAAAAGGGCCTCTTCAA
Found at i:16959017 original size:8 final size:8
Alignment explanation
Indices: 16959006--16959040 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
16958996 TGTTTTATTA
16959006 TATTATAT
1 TATTATAT
16959014 TATTATAT
1 TATTATAT
16959022 TATTATAT
1 TATTATAT
16959030 TATTATAT
1 TATTATAT
16959038 TAT
1 TAT
16959041 ATACTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATAT
Found at i:16959018 original size:13 final size:13
Alignment explanation
Indices: 16959000--16959042 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
16958990 ATTTTATGTT
16959000 TTATTATATTATA
1 TTATTATATTATA
16959013 TTATTATATTATTATA
1 TTA-T-TA-TATTATA
16959029 TTATTATATTATA
1 TTATTATATTATA
16959042 T
1 T
16959043 ACTTAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.41
14 3 0.11
15 3 0.11
16 10 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:16972701 original size:20 final size:21
Alignment explanation
Indices: 16972678--16972718 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16972668 CAAATGTGTT
16972678 AAAAT-CATTAATTAAAATAA
1 AAAATACATTAATTAAAATAA
* *
16972698 AAAATATATTATTTAAAATAA
1 AAAATACATTAATTAAAATAA
16972719 TACAAATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATACATTAATTAAAATAA
Found at i:16972834 original size:24 final size:23
Alignment explanation
Indices: 16972802--16972851 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
16972792 GTAATTAAAT
* *
16972802 TTTATAAATAATTAATATTTATTA
1 TTTAAAAATAATTAAAATTTA-TA
*
16972826 TTTAAAAATATTTAAAATTTATA
1 TTTAAAAATAATTAAAATTTATA
16972849 TTT
1 TTT
16972852 CATATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAAAATAATTAAAATTTATA
Found at i:16972850 original size:30 final size:30
Alignment explanation
Indices: 16972811--16972867 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
16972801 TTTTATAAAT
16972811 AATTAATATTT-AT-TATTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
16972841 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
16972868 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:16990124 original size:26 final size:26
Alignment explanation
Indices: 16990093--16990200 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
16990083 TGAAATGCCC
*
16990093 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16990119 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
16990145 ATCGTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16990171 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16990197 ATCA
1 ATCA
16990201 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16999240 original size:56 final size:57
Alignment explanation
Indices: 16999187--16999360 Score: 190
Period size: 57 Copynumber: 3.1 Consensus size: 57
16999177 TAGTTGAGCG
* * *
16999187 ACTATTTTGTAACTTTTCATAGTTGGAC-GACTAAAAATAATAATAGTAATTGAGTA
1 ACTATTTTGTAACTTTTCATAGTTGGACAGACAAAAAAGAATAATAATAATTGAGTA
* * * * *
16999243 ACTATTTTGTAACTTTTCAAAGTTGAACAGCCAAAAAAGGATATTAATAATTGAGTA
1 ACTATTTTGTAACTTTTCATAGTTGGACAGACAAAAAAGAATAATAATAATTGAGTA
* * * * * * *
16999300 ACCATTTTGTAACTTTTCATAATTGGATA-ACAAAAAAAAATTACTAATAGTTGAGTG
1 ACTATTTTGTAACTTTTCATAGTTGGACAGACAAAAAAGAA-TAATAATAATTGAGTA
16999357 ACTA
1 ACTA
16999361 CTAGAATTGT
Statistics
Matches: 96, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
56 34 0.35
57 62 0.65
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (57 bp):
ACTATTTTGTAACTTTTCATAGTTGGACAGACAAAAAAGAATAATAATAATTGAGTA
Found at i:17002381 original size:8 final size:8
Alignment explanation
Indices: 17002368--17002414 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
17002358 GTGAGTATAT
17002368 TTTAATAA
1 TTTAATAA
17002376 TTTAATAA
1 TTTAATAA
17002384 TTTAATAATA
1 TTTAAT-A-A
17002394 TTTAAT-A
1 TTTAATAA
17002401 TTTAATTAA
1 TTTAA-TAA
17002410 TTTAA
1 TTTAA
17002415 ACATCTTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.17
8 15 0.43
9 7 0.20
10 7 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTAATAA
Found at i:17002410 original size:18 final size:20
Alignment explanation
Indices: 17002369--17002410 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
17002359 TGAGTATATT
17002369 TTAATAATTTAATAATTTAA
1 TTAATAATTTAATAATTTAA
17002389 -TAAT-ATTTAAT-ATTTAA
1 TTAATAATTTAATAATTTAA
17002406 TTAAT
1 TTAAT
17002411 TTAAACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
18 11 0.52
19 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATAATTTAATAATTTAA
Found at i:17004402 original size:12 final size:12
Alignment explanation
Indices: 17004385--17004416 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
17004375 ACAAGGGCCG
17004385 ATGCAAACGCAA
1 ATGCAAACGCAA
17004397 ATGCAAACGCAA
1 ATGCAAACGCAA
17004409 ATGCAAAC
1 ATGCAAAC
17004417 ACGCAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (12 bp):
ATGCAAACGCAA
Found at i:17006787 original size:19 final size:20
Alignment explanation
Indices: 17006751--17006803 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
17006741 TCGTTATGAT
17006751 AATTATTATAATTTTTTACG
1 AATTATTATAATTTTTTACG
17006771 AATT-TTAT-ATTTCTTTAC-
1 AATTATTATAATTT-TTTACG
* *
17006789 ATTTTTTATAATTTT
1 AATTATTATAATTTT
17006804 CTTATGACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.24
19 14 0.48
20 8 0.28
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTATTATAATTTTTTACG
Found at i:17006883 original size:30 final size:30
Alignment explanation
Indices: 17006844--17006900 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17006834 TTCTATATAT
*
17006844 TTTATAATTTTTTTACAATTTTTATAAAAA
1 TTTACAATTTTTTTACAATTTTTATAAAAA
**
17006874 TTTACAATTTTTTTAGGATTTTTATAA
1 TTTACAATTTTTTTACAATTTTTATAA
17006901 TTTTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TTTACAATTTTTTTACAATTTTTATAAAAA
Found at i:17006905 original size:10 final size:10
Alignment explanation
Indices: 17006756--17006911 Score: 51
Period size: 10 Copynumber: 15.6 Consensus size: 10
17006746 ATGATAATTA
17006756 TTATAATTTT
1 TTATAATTTT
*
17006766 TTACGAA--TT
1 TTA-TAATTTT
17006775 TTAT-ATTTCT
1 TTATAATTT-T
*
17006785 TTA-CATTTT
1 TTATAATTTT
17006794 TTATAATTTT
1 TTATAATTTT
* *
17006804 CTTATGACTTT
1 -TTATAATTTT
*
17006815 ATATATATTTT
1 TTATA-ATTTT
*
17006826 TTCT-ATATTT
1 TTATAAT-TTT
* *
17006836 CTAT-ATATT
1 TTATAATTTT
17006845 TTATAATTTT
1 TTATAATTTT
*
17006855 TT-TACAATTT
1 TTATA-ATTTT
***
17006865 TTATAAAAAT
1 TTATAATTTT
*
17006875 TTACAATTTT
1 TTATAATTTT
17006885 TT-TAGGA-TTT
1 TTATA--ATTTT
17006895 TTATAATTTTT
1 TTATAA-TTTT
17006906 TTATAA
1 TTATAA
17006912 ATTATTAAAA
Statistics
Matches: 106, Mismatches: 23, Indels: 33
0.65 0.14 0.20
Matches are distributed among these distances:
7 1 0.01
9 21 0.20
10 54 0.51
11 30 0.28
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (10 bp):
TTATAATTTT
Found at i:17008635 original size:50 final size:50
Alignment explanation
Indices: 17008508--17009000 Score: 404
Period size: 50 Copynumber: 10.0 Consensus size: 50
17008498 CATAGGATAA
* * * * ** *
17008508 GGTGCCGACGCCATGTCCCGGACATGGTCTTACACTGGCTCACCCATCA-A
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAT-ATC
* * * * * *
17008558 AGT--CGATGTCATGTCCCAAACACGGTCTTACACTGACTCTCGTATATT
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATC
* * * * *
17008606 GAG-GCCGATGCCATATCCCATACATGGTCTTACACTCACTCTCATCTGTC
1 G-GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATC
* * * *
17008656 GGTGTCGATGCCATGTCCCAGATAAGGTCTTACACTGACTCTCGTATATC
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATC
* * * * *
17008706 GAG-GCCGATGCCATATCCCAGACATGGTCTTACAGTGGCTCTCATCTATT
1 G-GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATC
* * *
17008756 GGTGCCGATGCCATATCCCAGACATGGTCTTAGACTGA----CACATATC
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATC
* *
17008802 AAGT--CGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATCTATC
1 -GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATC
*
17008851 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATCTATC
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATC
* * * * * * * *
17008901 GGTACCAATGCCATGTTCCAAACACGGGCTTACACT-AGCTCTCATATCTA
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATC
** * *
17008951 GAAGTCGATGCCATGTCCCAGACATGGTCTTACACT-AGCCCTCATATATC
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATC
17009001 CCTAACATCA
Statistics
Matches: 356, Mismatches: 72, Indels: 30
0.78 0.16 0.07
Matches are distributed among these distances:
44 1 0.00
45 29 0.08
46 5 0.01
47 3 0.01
48 35 0.10
49 9 0.03
50 273 0.77
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATC
Found at i:17008944 original size:195 final size:195
Alignment explanation
Indices: 17008611--17008982 Score: 480
Period size: 195 Copynumber: 1.9 Consensus size: 195
17008601 ATATTGAGGC
* * *
17008611 CGATGCCATATCCCATACATGGTCTTACACTCACTCTCATCTGTCGGTGTCGATGCCATGTCCCA
1 CGATGCCATATCCCAGACATGGTCTTACACTCACTCTCATCTATCGGTGCCGATGCCATGTCCCA
* * * * * * * *
17008676 GATAAGGTCTTACACTGACTCTCGTATATCGAGGCCGATGCCATATCCCAGACATGGTCTTACAG
66 GACAAGGTCTTACACTGACTCTCATATATCGAGACCAATGCCATATCCCAAACACGGGCTTACAC
* * * **
17008741 TGGCTCTCATCTATTGGTGCCGATGCCATATCCCAGACATGGTCTTAGACTGACACATATCAAGT
131 TAGCTCTCATATATAGAAGCCGATGCCATATCCCAGACATGGTCTTAGACTGACACATATCAAGT
*
17008806 CGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATCTATCGGTGCCGATGCCATGTCCC
1 CGATGCCATATCCCAGACATGGTCTTACACTCA-CTCTCATCTATCGGTGCCGATGCCATGTCCC
* * * *
17008870 AGACATGGTCTTACACT-AGCTCTCATCTATCG-GTACCAATGCCATGTTCCAAACACGGGCTTA
65 AGACAAGGTCTTACACTGA-CTCTCATATATCGAG-ACCAATGCCATATCCCAAACACGGGCTTA
* * *
17008933 CACTAGCTCTCATATCTAGAAGTCGATGCCATGTCCCAGACATGGTCTTA
128 CACTAGCTCTCATATATAGAAGCCGATGCCATATCCCAGACATGGTCTTA
17008983 CACTAGCCCT
Statistics
Matches: 150, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
194 3 0.02
195 147 0.98
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (195 bp):
CGATGCCATATCCCAGACATGGTCTTACACTCACTCTCATCTATCGGTGCCGATGCCATGTCCCA
GACAAGGTCTTACACTGACTCTCATATATCGAGACCAATGCCATATCCCAAACACGGGCTTACAC
TAGCTCTCATATATAGAAGCCGATGCCATATCCCAGACATGGTCTTAGACTGACACATATCAAGT
Found at i:17011171 original size:3 final size:3
Alignment explanation
Indices: 17011165--17011464 Score: 73
Period size: 3 Copynumber: 99.7 Consensus size: 3
17011155 TTTTTTTACA
* *
17011165 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
17011209 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
17011254 CA- TAT TAAT TAT T-T TCT AACA TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
* *
17011300 T-T CTAG T-T TAT TAT TAT TAT TAA TAT TAGT GTAT GTA- TAT TAT ATAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT -TAT TAT TAT -TAT
* * *
17011347 GTAT GTA- TAT ATAT T-T ATAT ATAG TAC TAT T-T TAAT TAC T-T TAT
1 -TAT -TAT TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT
* * *
17011391 T-T TAA TAT TAC TAT TA- TAT TA- TAT T-T TCT T-T T-T TAT ATACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T
*
17011432 TCAT TAT TAT T-T CTAA TAT TAT TAT TAT TAT TA
1 T-AT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
17011465 GTCGTTATTT
Statistics
Matches: 221, Mismatches: 40, Indels: 72
0.66 0.12 0.22
Matches are distributed among these distances:
2 32 0.14
3 147 0.67
4 38 0.17
5 4 0.02
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:17011193 original size:23 final size:23
Alignment explanation
Indices: 17011167--17011212 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
17011157 TTTTTACATA
17011167 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
17011190 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
17011213 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:17011303 original size:33 final size:33
Alignment explanation
Indices: 17011208--17011327 Score: 91
Period size: 33 Copynumber: 3.5 Consensus size: 33
17011198 ATTATTATCT
** * *
17011208 TTATTATTACTGTTAGTATTATTTTCATTAC-TA
1 TTATTATTACTAATATTATTATTTTC-TAACATA
* *
17011241 TTATTTTTATTAGCATATTAATTATTTTCTAACATA
1 TTATTATTACTA--ATATT-ATTATTTTCTAACATA
***
17011277 TTATTATTACTAATTATTATTA-TTTCTAGTTTA
1 TTATTATTACTAA-TATTATTATTTTCTAACATA
*
17011310 TTATTATTATTAATATTA
1 TTATTATTACTAATATTA
17011328 GTGTATGTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
32 5 0.07
33 29 0.41
34 5 0.07
35 10 0.14
36 21 0.30
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (33 bp):
TTATTATTACTAATATTATTATTTTCTAACATA
Found at i:17011329 original size:23 final size:24
Alignment explanation
Indices: 17011289--17011354 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
17011279 ATTATTACTA
* *
17011289 ATTATTATTATTTCTAGTTTAT-T
1 ATTATTATTATATCTAGTGTATGT
17011312 ATTATTATTAATAT-TAGTGTATGT
1 ATTATTATT-ATATCTAGTGTATGT
*
17011336 A-TATTA-TATATGTA-TGTAT
1 ATTATTATTATATCTAGTGTAT
17011355 ATATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 9 0.24
22 3 0.08
23 21 0.55
24 5 0.13
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.58
Consensus pattern (24 bp):
ATTATTATTATATCTAGTGTATGT
Found at i:17011351 original size:17 final size:16
Alignment explanation
Indices: 17011329--17011360 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17011319 TTAATATTAG
17011329 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
17011346 TGTATGTATATATAT
1 TGTATGTATATATAT
17011361 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:17011589 original size:23 final size:23
Alignment explanation
Indices: 17011562--17011680 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 23
17011552 TTTTCAATAT
17011562 TATATTTTTTATATATTATTATA
1 TATATTTTTTATATATTATTATA
17011585 TATA--TTTTA-ATATTATTAGTTA
1 TATATTTTTTATATATTATTA--TA
*
17011607 TATATTTTTTATACTATTA-TATG
1 TATATTTTTTATA-TATTATTATA
* *
17011630 TATA-TTTCTA-ATATTA-TATTG
1 TATATTTTTTATATATTATTA-TA
* *
17011651 TATATTTCTAATACTATTATTTATA
1 TATATTTTTTATA-TATTA-TTATA
17011676 TATAT
1 TATAT
17011681 ATGTGTGTGT
Statistics
Matches: 78, Mismatches: 6, Indels: 22
0.74 0.06 0.21
Matches are distributed among these distances:
20 16 0.21
21 12 0.15
22 14 0.18
23 10 0.13
24 10 0.13
25 9 0.12
26 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (23 bp):
TATATTTTTTATATATTATTATA
Found at i:17011592 original size:21 final size:22
Alignment explanation
Indices: 17011559--17011680 Score: 96
Period size: 21 Copynumber: 5.5 Consensus size: 22
17011549 ATGTTTTCAA
17011559 TATTATAT-T-TTTTATA-TAT
1 TATTATATATATTTTATACTAT
*
17011578 TATTATATATATTTTAATATTAT
1 TATTATATATATTTT-ATACTAT
*
17011601 TAGTTATATATTTTTTATACTAT
1 TA-TTATATATATTTTATACTAT
*
17011624 TA-TATGTATATTTCTA-A-TAT
1 TATTATATATATTT-TATACTAT
*
17011644 TA-TATTGTATATTTCTAATACTAT
1 TATTA-TATATATTT-T-ATACTAT
17011668 TATTTATATATAT
1 TA-TTATATATAT
17011681 ATGTGTGTGT
Statistics
Matches: 86, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
19 8 0.09
20 8 0.09
21 25 0.29
22 6 0.07
23 14 0.16
24 17 0.20
25 6 0.07
26 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTATATATATTTTATACTAT
Found at i:17011625 original size:43 final size:42
Alignment explanation
Indices: 17011558--17011676 Score: 134
Period size: 44 Copynumber: 2.8 Consensus size: 42
17011548 TATGTTTTCA
*
17011558 ATATTATAT-TTTTTATATATTATTATATATATTT-TAATATT
1 ATATTATATATTTTT-TATACTATTATATATATTTCTAATATT
17011599 ATTAGTTATATATTTTTTATACTATTATATGTATATTTCTAATATT
1 A-TA-TTATATATTTTTTATACTATTATA--TATATTTCTAATATT
* * * *
17011645 ATATTGTATATTTCTAATACTATTATTTATAT
1 ATATTATATATTTTTTATACTATTATATATAT
17011677 ATATATGTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.01
42 7 0.10
43 17 0.25
44 25 0.37
45 9 0.13
46 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (42 bp):
ATATTATATATTTTTTATACTATTATATATATTTCTAATATT
Found at i:17011697 original size:16 final size:17
Alignment explanation
Indices: 17011676--17011710 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17011666 ATTATTTATA
17011676 TATATATGTGTGT-GTG
1 TATATATGTGTGTAGTG
*
17011692 TATATATTTGTGTAGTG
1 TATATATGTGTGTAGTG
17011709 TA
1 TA
17011711 CAAAGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (17 bp):
TATATATGTGTGTAGTG
Found at i:17011697 original size:18 final size:19
Alignment explanation
Indices: 17011674--17011709 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17011664 CTATTATTTA
17011674 TATATATATGTGT-GTGTG
1 TATATATATGTGTAGTGTG
*
17011692 TATATATTTGTGTAGTGT
1 TATATATATGTGTAGTGT
17011710 ACAAAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (19 bp):
TATATATATGTGTAGTGTG
Done.