Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 12 of 211
Found at i:4134938 original size:20 final size:22
Alignment explanation
Indices: 4134913--4134954 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
4134903 TGAGTTTGAA
4134913 GAAACAAT-TAATTAT-TATTT
1 GAAACAATCTAATTATATATTT
*
4134933 GAAACAATCTCATTATATATTT
1 GAAACAATCTAATTATATATTT
4134955 TGATCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (22 bp):
GAAACAATCTAATTATATATTT
Found at i:4141689 original size:19 final size:19
Alignment explanation
Indices: 4141667--4141704 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4141657 AAAAAAGAAA
4141667 GAAAAAAGAAACACCATTT
1 GAAAAAAGAAACACCATTT
*
4141686 GAAAGAAGAAACACCATTT
1 GAAAAAAGAAACACCATTT
4141705 ATGCACCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (19 bp):
GAAAAAAGAAACACCATTT
Found at i:4148344 original size:17 final size:18
Alignment explanation
Indices: 4148310--4148345 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4148300 TGAATTTTTA
4148310 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
4148328 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
4148345 T
1 T
4148346 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:4148950 original size:20 final size:21
Alignment explanation
Indices: 4148906--4148950 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
4148896 TTTAAATACT
* *
4148906 TTTAAAATAAATTTTTTTATT
1 TTTAAAATAAATTTTTTAATG
4148927 TTTAAAAT-AATTTTTTAATG
1 TTTAAAATAAATTTTTTAATG
4148947 TTTA
1 TTTA
4148951 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTAAAATAAATTTTTTAATG
Found at i:4149373 original size:7 final size:7
Alignment explanation
Indices: 4149361--4149385 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4149351 TGTTTTACTT
4149361 AATAATA
1 AATAATA
4149368 AATAATA
1 AATAATA
4149375 AATAATA
1 AATAATA
4149382 AATA
1 AATA
4149386 TCTATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:4150613 original size:63 final size:63
Alignment explanation
Indices: 4150490--4150647 Score: 172
Period size: 63 Copynumber: 2.5 Consensus size: 63
4150480 GTGTTAATGT
* * * * *
4150490 AGTGAATGATTGCGCGTGCTATGGTGCTTGTGTAAAATAAAGTAGTGCTAAATGATATGATGC
1 AGTGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAAGTAGAGCTAAAGGAGATGATGC
* * * * * *
4150553 AGTGAACGATTGTGCGTGCTGTGGTGGTTGTGTAAAATAAATTGGAGCTGAAGGGGATGATGC
1 AGTGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAAGTAGAGCTAAAGGAGATGATGC
* * * * *
4150616 AGGGAATGAGTGTGCGTGTTGTGATGTTTGTG
1 AGTGAATGATTGTGCGTGCTGTGGTGCTTGTG
4150648 ACAAAAAAAC
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 78 1.00
ACGTcount: A:0.25, C:0.08, G:0.35, T:0.32
Consensus pattern (63 bp):
AGTGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAAGTAGAGCTAAAGGAGATGATGC
Found at i:4150844 original size:13 final size:13
Alignment explanation
Indices: 4150826--4150867 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4150816 CCAGTGTGAG
4150826 AAATGATATTATC
1 AAATGATATTATC
* *
4150839 AAATGAATTTTACC
1 AAATG-ATATTATC
4150853 AAATGATATTATC
1 AAATGATATTATC
4150866 AA
1 AA
4150868 TCCATCTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (13 bp):
AAATGATATTATC
Found at i:4153262 original size:23 final size:23
Alignment explanation
Indices: 4153213--4153323 Score: 129
Period size: 23 Copynumber: 5.0 Consensus size: 23
4153203 CCTGATTAGT
*
4153213 ATACGACACATAA-GTGCCTG--
1 ATACGACACACAAGGTGCCTGAA
*
4153233 ATACGACACACAAGGTGTCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
4153256 ATACGACACACGAGGTGCCCGAA
1 ATACGACACACAAGGTGCCTGAA
* *
4153279 ATACGACACATAAAGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
4153302 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
4153324 TCGGCATAGC
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.15
21 6 0.08
23 61 0.77
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAGGTGCCTGAA
Found at i:4158070 original size:72 final size:72
Alignment explanation
Indices: 4157949--4158109 Score: 171
Period size: 72 Copynumber: 2.2 Consensus size: 72
4157939 AGGTGGGCGT
** * * * ** * *
4157949 TGAATTGCTACCAAAGCTTTTAGATGGTTCTACAATTGCCAACAGGATGGGTATGAATATGGAGG
1 TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAGGATGGACAAGAATATGGAGA
4158014 TGAACAC
66 TGAACAC
* * * *
4158021 TGAATTGCTACCATATCTTAGAGAAGATTCTACAAGTGCTAA-AGAGATGGACAAGACTATGGAG
1 TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAG-GATGGACAAGAATATGGAG
*
4158085 ATGAACAT
65 ATGAACAC
*
4158093 TGAATTGTTACCAAAGC
1 TGAATTGCTACCAAAGC
4158110 CTATAGTAGC
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
71 2 0.03
72 69 0.97
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (72 bp):
TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAGGATGGACAAGAATATGGAGA
TGAACAC
Found at i:4158155 original size:60 final size:60
Alignment explanation
Indices: 4158058--4158175 Score: 209
Period size: 60 Copynumber: 2.0 Consensus size: 60
4158048 TTCTACAAGT
* *
4158058 GCTAAAGAGATGGACAAGACTATGGAGATGAACATTGAATTGTTACCAAAGCCTATAGTA
1 GCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAACCTATAGTA
*
4158118 GCTAAAGAGATGGATAAGACTATGGAGATGAAAATTGAATTGTTACCAAAACCTATAG
1 GCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAACCTATAG
4158176 AAGATTCTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.24
Consensus pattern (60 bp):
GCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAACCTATAGTA
Found at i:4158270 original size:75 final size:74
Alignment explanation
Indices: 4158171--4158421 Score: 248
Period size: 75 Copynumber: 3.4 Consensus size: 74
4158161 TACCAAAACC
* * * *
4158171 TATAGAAGATTCTAGAAGTCCTAAAGAGATGGGTCATAATATGGAGGAGTG-GAGCATCGAATTG
1 TATAGAAGATTCTACAAGTGCTAAAGAGATGGATCATAATATGGAGGAG-GAGAACATC-AATTG
4158235 ATATCAAAGCT
64 ATATCAAAGCT
* * * * *
4158246 TATGGAAGATTCTCCAAGTACTAAAGA-A---ATC--AGTATGGAGGAGGAGAACATCAAACTGA
1 TATAGAAGATTCTACAAGTGCTAAAGAGATGGATCATAATATGGAGGAGGAGAACATC-AATTGA
*
4158305 TACCAAAGCT
65 TATCAAAGCT
* * * *
4158315 TATAGAAGACTCTACAAGTGCTAAAGAGATAGAT-ATGTATATGGAGGAGGAGAACGTTCAATTG
1 TATAGAAGATTCTACAAGTGCTAAAGAGATGGATCAT-AATATGGAGGAGGAGAAC-ATCAATTG
*
4158379 ATGTCAAAGCT
64 ATATCAAAGCT
* *
4158390 TATAGAAGATTCTTCAAATGCTAAAGAGATGG
1 TATAGAAGATTCTACAAGTGCTAAAGAGATGG
4158422 GTAAGGATGT
Statistics
Matches: 143, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
68 1 0.01
69 54 0.38
70 1 0.01
71 2 0.01
73 2 0.01
74 1 0.01
75 80 0.56
76 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (74 bp):
TATAGAAGATTCTACAAGTGCTAAAGAGATGGATCATAATATGGAGGAGGAGAACATCAATTGAT
ATCAAAGCT
Found at i:4158312 original size:69 final size:69
Alignment explanation
Indices: 4158210--4158341 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 69
4158200 TGGGTCATAA
* * * * * * *
4158210 TATGGAGGAGTGGAGCATCGAATTGATATCAAAGCTTATGGAAGATTCTCCAAGTACTAAAGAAA
1 TATGGAGGAGTGGAACATCAAACTGATACCAAAGCTTATAGAAGACTCTACAAGTACTAAAGAAA
4158275 TCAG
66 TCAG
*
4158279 TATGGAGGAG-GAGAACATCAAACTGATACCAAAGCTTATAGAAGACTCTACAAGTGCTAAAGA
1 TATGGAGGAGTG-GAACATCAAACTGATACCAAAGCTTATAGAAGACTCTACAAGTACTAAAGA
4158342 GATAGATATG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
68 1 0.02
69 53 0.98
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (69 bp):
TATGGAGGAGTGGAACATCAAACTGATACCAAAGCTTATAGAAGACTCTACAAGTACTAAAGAAA
TCAG
Found at i:4164900 original size:40 final size:39
Alignment explanation
Indices: 4164829--4164921 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 39
4164819 CAAAGCAAGA
4164829 AAGGAAGCGCTTTTTCCACGTGGACAGAAAACGCATCCTC
1 AAGGAAGCGCTTTTTCCACGTGGACA-AAAACGCATCCTC
* * * *
4164869 AAGGACGCGCTTTGTGTCCATGTGGAC-AAAACGCTTCCTT
1 AAGGAAGCGCTTT-T-TCCACGTGGACAAAAACGCATCCTC
*
4164909 GAGGAAGCG-TTTT
1 AAGGAAGCGCTTTT
4164922 CCCCGTGTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
38 1 0.02
39 3 0.07
40 30 0.67
41 1 0.02
42 10 0.22
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (39 bp):
AAGGAAGCGCTTTTTCCACGTGGACAAAAACGCATCCTC
Found at i:4164958 original size:7 final size:7
Alignment explanation
Indices: 4164946--4165002 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
4164936 GTTAGGGTTA
4164946 GGGTTTT
1 GGGTTTT
4164953 GGGTTTT
1 GGGTTTT
4164960 GGGTTTT
1 GGGTTTT
*
4164967 GGG-TTA
1 GGGTTTT
4164973 GGGTTTT
1 GGGTTTT
4164980 GGGGTTTTT
1 -GGG-TTTT
* *
4164989 GAGTTTA
1 GGGTTTT
4164996 GGGTTTT
1 GGGTTTT
4165003 AAAGAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
6 5 0.12
7 27 0.66
8 5 0.12
9 4 0.10
ACGTcount: A:0.05, C:0.00, G:0.42, T:0.53
Consensus pattern (7 bp):
GGGTTTT
Found at i:4164976 original size:13 final size:13
Alignment explanation
Indices: 4164940--4164982 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
4164930 CTCTGCGTTA
4164940 GGGTTAGGGTTTT
1 GGGTTAGGGTTTT
*
4164953 GGGTTTTGGGTTTT
1 GGG-TTAGGGTTTT
4164967 GGGTTAGGGTTTT
1 GGGTTAGGGTTTT
4164980 GGG
1 GGG
4164983 GTTTTTGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.47
Consensus pattern (13 bp):
GGGTTAGGGTTTT
Found at i:4165241 original size:97 final size:96
Alignment explanation
Indices: 4165036--4165298 Score: 411
Period size: 97 Copynumber: 2.7 Consensus size: 96
4165026 GGATTATGGA
* * * * * *
4165036 TTAGGGTTTCTTAATTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTCGTGTTTATGG
1 TTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
*
4165101 TTTTTAAGGAAAAAATCAATTAAATTAGGGT
66 TTTTTAAGGAAAAAATCAAATAAATTAGGGT
* * *
4165132 TTAAGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATCAGATTAGGGTTTAGTGTTAAG
1 TTAGGGTTACTTGAGTAAATTAATTATAAATTTT--AAAAAATTAGATTAGGGTTTAGTGTTTAG
4165197 GGTTTTTAAGG-AAAAATCAAATAAATTAGGGT
64 GGTTTTTAAGGAAAAAATCAAATAAATTAGGGT
4165229 TTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
1 TTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
4165294 TTTTT
66 TTTTT
4165299 GAGTAAATTA
Statistics
Matches: 152, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
95 34 0.22
96 30 0.20
97 53 0.35
98 35 0.23
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (96 bp):
TTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
TTTTTAAGGAAAAAATCAAATAAATTAGGGT
Found at i:4165482 original size:20 final size:21
Alignment explanation
Indices: 4165445--4165489 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
4165435 TTGTCCAGCT
* * *
4165445 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGGGGATTATGGTTCC
4165466 TCCGG-GGGGATTATGGTTCC
1 TCCGGCGGGGATTATGGTTCC
4165486 TCCG
1 TCCG
4165490 ATAGGGGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.04, C:0.22, G:0.44, T:0.29
Consensus pattern (21 bp):
TCCGGCGGGGATTATGGTTCC
Found at i:4165772 original size:18 final size:18
Alignment explanation
Indices: 4165746--4165788 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4165736 GACTAGAAAA
* * *
4165746 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
4165764 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
4165782 AGGATAC
1 AGGATAC
4165789 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:4165862 original size:30 final size:30
Alignment explanation
Indices: 4165819--4165889 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
4165809 AGGCTGTACT
*
4165819 GTGAGTGTCGTCAGTTGAAG-TGTTGGGTCGG
1 GTGACTGT-GTCAG-TGAAGTTGTTGGGTCGG
** *
4165850 GTGACTGTGTCAGTGCTGTTGTTGGGTCTG
1 GTGACTGTGTCAGTGAAGTTGTTGGGTCGG
*
4165880 GTGATTGTGT
1 GTGACTGTGT
4165890 GGGCGCTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 24 0.71
31 7 0.21
ACGTcount: A:0.10, C:0.10, G:0.42, T:0.38
Consensus pattern (30 bp):
GTGACTGTGTCAGTGAAGTTGTTGGGTCGG
Found at i:4165898 original size:30 final size:30
Alignment explanation
Indices: 4165839--4165905 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
4165829 TCAGTTGAAG
*
4165839 TGTTGGGTCGGGTGACTGTGTCAGTGCTGT
1 TGTTGGGTCGGGTGACTGTGTCAGCGCTGT
* * **
4165869 TGTTGGGTCTGGTGATTGTGTGGGCGCTGT
1 TGTTGGGTCGGGTGACTGTGTCAGCGCTGT
*
4165899 TGATGGG
1 TGTTGGG
4165906 CCTGCGTCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.06, C:0.10, G:0.46, T:0.37
Consensus pattern (30 bp):
TGTTGGGTCGGGTGACTGTGTCAGCGCTGT
Found at i:4166416 original size:7 final size:7
Alignment explanation
Indices: 4166406--4166431 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4166396 TTATATACAT
4166406 AATACTA
1 AATACTA
4166413 AATACTA
1 AATACTA
4166420 AATACTA
1 AATACTA
4166427 AATAC
1 AATAC
4166432 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:4170704 original size:40 final size:38
Alignment explanation
Indices: 4170658--4170749 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 38
4170648 AAAAATTATA
*
4170658 TTTAATAAAATAAAATATTTATTATATTTATGCTAGTG-TT
1 TTTAATAAAATAAAACATTTATTATA--T-TGCTAGTGTTT
* *
4170698 TTTAATATAATATAACATTTATTATATTGCTAGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTGCTAGTGTTT
4170736 TTTAATATAAATAA
1 TTTAATA-AAATAA
4170750 TTTTTAACGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 8 0.18
38 10 0.22
39 4 0.09
40 23 0.51
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (38 bp):
TTTAATAAAATAAAACATTTATTATATTGCTAGTGTTT
Found at i:4171332 original size:29 final size:29
Alignment explanation
Indices: 4171278--4171353 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 29
4171268 AGGATCAAAT
* *
4171278 CAAAATTACATGTATGAAATTGCACA-AAAG
1 CAAAATT-CATGTAT-AAATTACACATAAAC
*
4171308 TAAAATTCATGTATAAATTTACACATTAAAC
1 CAAAATTCATGTATAAA-TTACACA-TAAAC
4171339 CAAAATTCATGTATA
1 CAAAATTCATGTATA
4171354 GTTTTGAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 3 0.08
29 13 0.33
30 6 0.15
31 17 0.44
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (29 bp):
CAAAATTCATGTATAAATTACACATAAAC
Found at i:4178285 original size:24 final size:25
Alignment explanation
Indices: 4178254--4178305 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
4178244 GTTGTTTTAT
* *
4178254 TTTTATAATTTTA-AATTTTTAATA
1 TTTTATAAGTATATAATTTTTAATA
*
4178278 TTTTATAAGTATATATTTTTTAATA
1 TTTTATAAGTATATAATTTTTAATA
4178303 TTT
1 TTT
4178306 AGAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTATAAGTATATAATTTTTAATA
Found at i:4182560 original size:25 final size:26
Alignment explanation
Indices: 4182511--4182560 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
4182501 CTTTTTCTTT
* *
4182511 TCTTTTCATTTTTAGATTAGGTTTTC
1 TCTTTTCATTTTTAGAATAGATTTTC
4182537 TCTTTTC-TTTTTAGAATAGATTTT
1 TCTTTTCATTTTTAGAATAGATTTT
4182561 ATATTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (26 bp):
TCTTTTCATTTTTAGAATAGATTTTC
Found at i:4192346 original size:4 final size:4
Alignment explanation
Indices: 4192327--4192379 Score: 56
Period size: 4 Copynumber: 13.0 Consensus size: 4
4192317 TGTCTTTCTC
*
4192327 CTTT CTTT -TTT TTTT CTTT CTTT C-TT CTTT CTGTTT CTTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT C-TTT CTTT CTTT
4192376 CTTT
1 CTTT
4192380 TTATTACTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 6 0.14
4 29 0.67
5 4 0.09
6 4 0.09
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:4192347 original size:15 final size:15
Alignment explanation
Indices: 4192327--4192381 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
4192317 TGTCTTTCTC
*
4192327 CTTTCTTTTTTTTTT
1 CTTTCTTTTTTCTTT
*
4192342 CTTTCTTTCTTCTTT
1 CTTTCTTTTTTCTTT
*
4192357 CTGTT-TCTTTTCTTT
1 CT-TTCTTTTTTCTTT
4192372 CTTTCTTTTT
1 CTTTCTTTTT
4192382 ATTACTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 2 0.06
15 29 0.88
16 2 0.06
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (15 bp):
CTTTCTTTTTTCTTT
Found at i:4192378 original size:26 final size:26
Alignment explanation
Indices: 4192319--4192378 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
4192309 CCTACCCTTG
* * *
4192319 TCTTTCTCCTTTCTTTTTTTTTTCTT
1 TCTTTCTTCTTTCTGTTTCTTTTCTT
4192345 TCTTTCTTCTTTCTGTTTCTTTTCTT
1 TCTTTCTTCTTTCTGTTTCTTTTCTT
4192371 TCTTTCTT
1 TCTTTCTT
4192379 TTTATTACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (26 bp):
TCTTTCTTCTTTCTGTTTCTTTTCTT
Found at i:4193480 original size:30 final size:29
Alignment explanation
Indices: 4193388--4193483 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 29
4193378 TATAAATTGA
* **
4193388 TACTTAAACTATGTCATTCTTCTCATCTTGG
1 TACTTAAACTAT-TTATT-TTCTCAAGTTGG
* * * *
4193419 TACCTAAACTTTTTTTTTTATCACAAG-TGG
1 TACTTAAAC-TATTTATTT-TCTCAAGTTGG
4193449 TACTTAAACTACTTTATTTTCTCAAGTTGG
1 TACTTAAACTA-TTTATTTTCTCAAGTTGG
4193479 TACTT
1 TACTT
4193484 TCATTAGTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
29 7 0.14
30 26 0.52
31 15 0.30
32 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (29 bp):
TACTTAAACTATTTATTTTCTCAAGTTGG
Found at i:4194056 original size:16 final size:16
Alignment explanation
Indices: 4194034--4194163 Score: 71
Period size: 19 Copynumber: 7.3 Consensus size: 16
4194024 AAGTTATCAA
4194034 AAAATATAAAAATTAT
1 AAAATATAAAAATTAT
* *
4194050 TAAATATAAAAAGTAT
1 AAAATATAAAAATTAT
*
4194066 AAAATTATGAAAATTGAT
1 AAAA-TATAAAAATT-AT
*
4194084 ATAAATTTATAAATATTAT
1 A-AAA--TATAAAAATTAT
* *
4194103 AAAAAATTGTAAATATTAT
1 --AAAA-TATAAAAATTAT
4194122 AAATATATAAAAAATCTAAT
1 AAA-ATAT-AAAAAT-T-AT
* *
4194142 AAATTATAAAAAAATAT
1 AAAATAT-AAAAATTAT
4194159 AAAAT
1 AAAAT
4194164 TAATAAAACA
Statistics
Matches: 91, Mismatches: 13, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
16 17 0.19
17 19 0.21
18 10 0.11
19 27 0.30
20 17 0.19
21 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (16 bp):
AAAATATAAAAATTAT
Found at i:4194192 original size:21 final size:20
Alignment explanation
Indices: 4194145--4194216 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
4194135 ATCTAATAAA
* *
4194145 TTATAAAAAAATATAAAA-T
1 TTATAAAAATATTTAAAATT
*
4194164 TAATAAAACATATTTAAAATT
1 TTATAAAA-ATATTTAAAATT
4194185 TTATAAAAA-AGTATTAAAATT
1 TTATAAAAATA-T-TTAAAATT
* *
4194206 CTATTAAAATA
1 TTATAAAAATA
4194217 ATAAAAATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 8 0.19
20 10 0.24
21 23 0.55
22 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
TTATAAAAATATTTAAAATT
Found at i:4194240 original size:19 final size:20
Alignment explanation
Indices: 4194190--4194241 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
4194180 AAATTTTATA
*
4194190 AAAAAGTATTAAAATTCTAT
1 AAAAAGTATTAAAAATCTAT
* *
4194210 TAAAA-TAATAAAAATC-AT
1 AAAAAGTATTAAAAATCTAT
4194228 AAAAAGTATTAAAA
1 AAAAAGTATTAAAA
4194242 TATTAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.23
19 16 0.62
20 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAAGTATTAAAAATCTAT
Found at i:4194275 original size:9 final size:9
Alignment explanation
Indices: 4194021--4194278 Score: 114
Period size: 9 Copynumber: 27.6 Consensus size: 9
4194011 TAAAAAACAG
4194021 AAAAAGTTAT
1 AAAAA-TTAT
*
4194031 CAAAAAATAT
1 -AAAAATTAT
4194041 AAAAATTAT
1 AAAAATTAT
*
4194050 -TAAA-TAT
1 AAAAATTAT
*
4194057 AAAAAGTAT
1 AAAAATTAT
4194066 -AAAATTAT
1 AAAAATTAT
*
4194074 GAAAATTGAT
1 AAAAATT-AT
*
4194084 ATAAATTTAT
1 A-AAAATTAT
*
4194094 AAATATTAT
1 AAAAATTAT
*
4194103 AAAAAATTGT
1 -AAAAATTAT
*
4194113 AAATATTAT
1 AAAAATTAT
*
4194122 AAATA-TAT
1 AAAAATTAT
* *
4194130 AAAAAATCT
1 AAAAATTAT
4194139 AATAAATTAT
1 AA-AAATTAT
*
4194149 AAAAA-AAT
1 AAAAATTAT
4194157 ATAAAATTAAT
1 A-AAAATT-AT
*
4194168 AAAACATATTT
1 AAAA-AT-TAT
*
4194179 AAAATTTTAT
1 AAAA-ATTAT
*
4194189 AAAAAAGTATT
1 -AAAAATTA-T
*
4194200 AAAATTCTAT
1 AAAAAT-TAT
* *
4194210 TAAAATAAT
1 AAAAATTAT
*
4194219 AAAAATCAT
1 AAAAATTAT
*
4194228 AAAAAGTAT
1 AAAAATTAT
*
4194237 TAAAA-TATT
1 AAAAATTA-T
*
4194246 AAAAATGAT
1 AAAAATTAT
* *
4194255 ATGAAGTTAT
1 A-AAAATTAT
4194265 AAAAATTAT
1 AAAAATTAT
4194274 AAAAA
1 AAAAA
4194279 AGATTCATAA
Statistics
Matches: 186, Mismatches: 42, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
7 3 0.02
8 25 0.13
9 84 0.45
10 45 0.24
11 28 0.15
12 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4197913 original size:19 final size:19
Alignment explanation
Indices: 4197891--4198057 Score: 69
Period size: 19 Copynumber: 9.1 Consensus size: 19
4197881 ATATCAATTT
4197891 TAATATTTTAATATTTTTA
1 TAATATTTTAATATTTTTA
*
4197910 TAATA-TCT-A-ATTTTTA
1 TAATATTTTAATATTTTTA
* *
4197926 -AAAAGTTTAATATGTTTT-
1 TAATATTTTAATAT-TTTTA
4197944 T-ATATTTTAAATATGTTTTA
1 TAATATTTT-AATAT-TTTTA
4197964 TTAAT-TTCTTAAT-TTTTT-
1 -TAATATT-TTAATATTTTTA
* *
4197982 TTA-ATTTTAATATGTTTA
1 TAATATTTTAATATTTTTA
*
4198000 GT-ATCAATTTTAGTATTTTTA
1 -TAAT--ATTTTAATATTTTTA
*
4198021 T--T-TTTATAACA-TTTTA
1 TAATATTT-TAATATTTTTA
4198037 TAAT-TTTTAATCATTTTTA
1 TAATATTTTAAT-ATTTTTA
4198056 TA
1 TA
4198058 GAGAAAATAT
Statistics
Matches: 114, Mismatches: 12, Indels: 44
0.67 0.07 0.26
Matches are distributed among these distances:
15 3 0.03
16 23 0.20
17 16 0.14
18 15 0.13
19 32 0.28
20 2 0.02
21 19 0.17
22 4 0.04
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (19 bp):
TAATATTTTAATATTTTTA
Found at i:4200159 original size:21 final size:21
Alignment explanation
Indices: 4200128--4200177 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4200118 AAGATAATGG
*
4200128 GAGAGAT--GAAAATGAAGAA
1 GAGAGATGAGAAAATCAAGAA
*
4200147 GAGAGATGAGAAAATCAAGAT
1 GAGAGATGAGAAAATCAAGAA
4200168 GA-AGATGAGA
1 GAGAGATGAGA
4200178 GAACTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 7 0.26
20 8 0.30
21 12 0.44
ACGTcount: A:0.54, C:0.02, G:0.32, T:0.12
Consensus pattern (21 bp):
GAGAGATGAGAAAATCAAGAA
Found at i:4202403 original size:23 final size:23
Alignment explanation
Indices: 4202373--4202419 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4202363 AATATGGACT
4202373 TTATTGGAGGGATTTAAATTAGG
1 TTATTGGAGGGATTTAAATTAGG
4202396 TTATTGGAGGGATTTAAATTAGG
1 TTATTGGAGGGATTTAAATTAGG
4202419 T
1 T
4202420 CAGTGATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (23 bp):
TTATTGGAGGGATTTAAATTAGG
Found at i:4204325 original size:14 final size:14
Alignment explanation
Indices: 4204308--4204392 Score: 66
Period size: 14 Copynumber: 6.2 Consensus size: 14
4204298 ATGCACCCAC
4204308 ACACACACATACAT
1 ACACACACATACAT
**
4204322 ACACACACGCACAT
1 ACACACACATACAT
* *
4204336 ACATACACACACAT
1 ACACACACATACAT
* ** *
4204350 ACATATGCATACAC
1 ACACACACATACAT
*
4204364 ACACATACATACAT
1 ACACACACATACAT
*
4204378 --ACATACATACAT
1 ACACACACATACAT
4204390 ACA
1 ACA
4204393 TGCATGCATA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
12 12 0.21
14 46 0.79
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.16
Consensus pattern (14 bp):
ACACACACATACAT
Found at i:4204326 original size:18 final size:18
Alignment explanation
Indices: 4204305--4204380 Score: 107
Period size: 18 Copynumber: 4.1 Consensus size: 18
4204295 CACATGCACC
4204305 CACACACACACATACATA
1 CACACACACACATACATA
*
4204323 CACACACGCACATACATA
1 CACACACACACATACATA
*
4204341 CACACACATACATATGCATA
1 CACACACACACATA--CATA
*
4204361 CACACACATACATACATA
1 CACACACACACATACATA
4204379 CA
1 CA
4204381 TACATACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 35 0.66
20 18 0.34
ACGTcount: A:0.47, C:0.36, G:0.03, T:0.14
Consensus pattern (18 bp):
CACACACACACATACATA
Found at i:4204353 original size:4 final size:4
Alignment explanation
Indices: 4204332--4204430 Score: 107
Period size: 4 Copynumber: 25.2 Consensus size: 4
4204322 ACACACACGC
* *
4204332 ACAT ACAT AC-- ACAC ACAT ACAT ATGCAT AC-- ACAC ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT A--CAT ACAT ACAT ACAT ACAT ACAT
* * *
4204378 ACAT ACAT ACAT ACAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4204426 ACAT A
1 ACAT A
4204431 AATGAAATAT
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.05
4 75 0.90
6 4 0.05
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:4204393 original size:24 final size:24
Alignment explanation
Indices: 4204314--4204430 Score: 107
Period size: 24 Copynumber: 4.9 Consensus size: 24
4204304 CCACACACAC
* *
4204314 ACATACATACACACACGCACATACAT
1 ACATACATACATACA--TACATACAT
*
4204340 AC--ACACACATACATATGCATAC--
1 ACATACATACATACATA--CATACAT
*
4204362 ACACACATACATACATACATACAT
1 ACATACATACATACATACATACAT
* *
4204386 ACATACATGCATGCATACATACAT
1 ACATACATACATACATACATACAT
*
4204410 ACATACATACATGCATACATA
1 ACATACATACATACATACATA
4204431 AATGAAATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.10
24 67 0.87
26 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.04, T:0.21
Consensus pattern (24 bp):
ACATACATACATACATACATACAT
Found at i:4206904 original size:12 final size:12
Alignment explanation
Indices: 4206887--4206914 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4206877 TTCATACCAG
4206887 TCAAGTTAAGAC
1 TCAAGTTAAGAC
4206899 TCAAGTTAAGAC
1 TCAAGTTAAGAC
4206911 TCAA
1 TCAA
4206915 TTGGTATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (12 bp):
TCAAGTTAAGAC
Found at i:4207210 original size:20 final size:20
Alignment explanation
Indices: 4207185--4207223 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4207175 AGCATAAAAC
* *
4207185 GATAATGGGTATCATGTGAG
1 GATAATAGGTATCACGTGAG
4207205 GATAATAGGTATCACGTGA
1 GATAATAGGTATCACGTGA
4207224 ACTCATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (20 bp):
GATAATAGGTATCACGTGAG
Found at i:4211914 original size:6 final size:6
Alignment explanation
Indices: 4211903--4211934 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4211893 CGTACCTCAT
*
4211903 TTCCTC TTCCTC TTCCTC TTCCTC GTCCTC TT
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC TT
4211935 TCACGGCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (6 bp):
TTCCTC
Found at i:4217061 original size:27 final size:26
Alignment explanation
Indices: 4217014--4217073 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
4217004 TATATTTGTA
* *
4217014 AAAATAAAAAATATTTTTAATCATAT
1 AAAATAAAAAATATTTATAATCAAAT
* *
4217040 AAAATATAAAATATATTATAATTAAAT
1 AAAATAAAAAATAT-TTATAATCAAAT
4217067 AAAATAA
1 AAAATAA
4217074 TGTTTTGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAATAAAAAATATTTATAATCAAAT
Found at i:4218619 original size:10 final size:10
Alignment explanation
Indices: 4218604--4218635 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4218594 TCTTGTATCA
4218604 TTATTATTAT
1 TTATTATTAT
4218614 TTATTATTAT
1 TTATTATTAT
4218624 TT-TTATT-T
1 TTATTATTAT
4218632 TTAT
1 TTAT
4218636 ATTCATGCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 6 0.29
10 12 0.57
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTATTAT
Found at i:4223817 original size:2 final size:2
Alignment explanation
Indices: 4223810--4223862 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4223800 AAATGTGAAA
4223810 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4223852 AG AG AG AG AG A
1 AG AG AG AG AG A
4223863 AGGAAGAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4231154 original size:21 final size:21
Alignment explanation
Indices: 4231128--4231168 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4231118 ATCTGCTCAA
* *
4231128 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4231149 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4231169 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4235224 original size:35 final size:35
Alignment explanation
Indices: 4235178--4235256 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 35
4235168 AAGAAACTAA
* *
4235178 TGAAATCCATCCATAGAATACGCAAATGTTAACAT
1 TGAAAACCATCCATAGAATACACAAATGTTAACAT
*
4235213 TGAAAACCATCCATAGCATACACAAATGTTAACAT
1 TGAAAACCATCCATAGAATACACAAATGTTAACAT
*
4235248 TGAAGACCA
1 TGAAAACCA
4235257 CACACTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (35 bp):
TGAAAACCATCCATAGAATACACAAATGTTAACAT
Found at i:4236340 original size:13 final size:12
Alignment explanation
Indices: 4236305--4236343 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
4236295 TTATAACATT
4236305 TTTATGAATTTTG
1 TTTATG-ATTTTG
4236318 TTTAT-ATTTTG
1 TTTATGATTTTG
4236329 TTTATGATTTT-
1 TTTATGATTTTG
4236340 TTTA
1 TTTA
4236344 ATAATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.60
12 5 0.20
13 5 0.20
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (12 bp):
TTTATGATTTTG
Found at i:4238405 original size:44 final size:42
Alignment explanation
Indices: 4238339--4238424 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 42
4238329 CCATTAAGAA
* *
4238339 AAACTTCAGAAACAAGAGAGCTTTAAAGCAACCAGACTAAGTTT
1 AAACTTCAGAAACAAGAAAGCTTT-AAGAAACCAGA-TAAGTTT
* *
4238383 AAACTTGAGAAGA-AAGAAAGCTTTAAGAAATCAGATAAGTTT
1 AAACTTCAGAA-ACAAGAAAGCTTTAAGAAACCAGATAAGTTT
4238425 CTAGTTCTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 7 0.19
43 9 0.24
44 20 0.54
45 1 0.03
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (42 bp):
AAACTTCAGAAACAAGAAAGCTTTAAGAAACCAGATAAGTTT
Found at i:4240853 original size:16 final size:16
Alignment explanation
Indices: 4240832--4240883 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
4240822 TTCGCTGTAT
4240832 TGGAATAAAGGCGTAA
1 TGGAATAAAGGCGTAA
4240848 TGGAATAAAGGCGTAA
1 TGGAATAAAGGCGTAA
* *
4240864 TGAAATAGAA-GTGTAA
1 TGGAATA-AAGGCGTAA
4240880 TGGA
1 TGGA
4240884 TTAGAGGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.21
Consensus pattern (16 bp):
TGGAATAAAGGCGTAA
Found at i:4241147 original size:16 final size:16
Alignment explanation
Indices: 4241110--4241151 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4241100 TTAATCATAT
*
4241110 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4241126 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4241141 TTAAAATATAT
1 TTAAAATATAT
4241152 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4241158 original size:14 final size:15
Alignment explanation
Indices: 4241119--4241160 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4241109 TTTAAACATA
*
4241119 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4241134 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4241148 A-TATAATTTAATA
1 ATTATAATTAAATA
4241161 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4241278 original size:14 final size:15
Alignment explanation
Indices: 4241229--4241280 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4241219 ATAAAATATA
4241229 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4241244 TATTAAATATATTAT
1 AATTAAATATATTAT
4241259 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4241272 AATTTAATA
1 AATTAAATA
4241281 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4241397 original size:14 final size:15
Alignment explanation
Indices: 4241348--4241399 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4241338 TATAAATATA
4241348 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4241363 TATTAAATATATTAT
1 AATTAAATATATTAT
4241378 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4241391 AATTTAATA
1 AATTAAATA
4241400 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4241433 original size:119 final size:120
Alignment explanation
Indices: 4241113--4241515 Score: 763
Period size: 120 Copynumber: 3.4 Consensus size: 120
4241103 ATCATATTTA
4241113 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
4241178 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
4241233 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
4241298 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTAT-AAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
*
4241352 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
* *
4241417 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
*
4241472 AACATAATTATTATTAAATATATTATAATTAAAATATATTATTT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTT
4241516 TTCATATTAT
Statistics
Matches: 278, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
119 116 0.42
120 162 0.58
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
Found at i:4241508 original size:16 final size:16
Alignment explanation
Indices: 4241468--4241513 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
4241458 ATAAAATATA
*
4241468 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
4241483 TATT-AAATATATTAT
1 AATTAAAATATATTAT
4241498 AATTAAAATATATTAT
1 AATTAAAATATATTAT
4241514 TTTTCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:4241528 original size:11 final size:11
Alignment explanation
Indices: 4241506--4241544 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
4241496 ATAATTAAAA
4241506 TATATTATTTT
1 TATATTATTTT
4241517 TCATATTATTTT
1 T-ATATTATTTT
4241529 TATATTATTTT
1 TATATTATTTT
4241540 TATAT
1 TATAT
4241545 CATGTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TATATTATTTT
Found at i:4247468 original size:19 final size:19
Alignment explanation
Indices: 4247444--4247482 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4247434 TATTTTAAAA
* *
4247444 TATTTTTAAAATACTTTTT
1 TATTTTAAAAATAATTTTT
4247463 TATTTTAAAAATAATTTTT
1 TATTTTAAAAATAATTTTT
4247482 T
1 T
4247483 GGTGTTTATT
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:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTAAAAATAATTTTT
Found at i:4249584 original size:35 final size:35
Alignment explanation
Indices: 4249505--4249571 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
4249495 CACTCCCTGT
* *
4249505 TTGGTGTGTTTCGGTTGGGCTTGCTCTTATGACCA
1 TTGGTGTGTTTCGGTTGGACTTGCTCTTACGACCA
4249540 TTGGTGTGTTTCGGTTGGACTTGCTCTTACGA
1 TTGGTGTGTTTCGGTTGGACTTGCTCTTACGA
4249572 GTATTGGCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.09, C:0.16, G:0.31, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCGGTTGGACTTGCTCTTACGACCA
Found at i:4251554 original size:16 final size:16
Alignment explanation
Indices: 4251530--4251563 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4251520 ATTTATTTAT
4251530 ATAAATATTAAATATA
1 ATAAATATTAAATATA
* *
4251546 ATAATTATTTAATATA
1 ATAAATATTAAATATA
4251562 AT
1 AT
4251564 TATAAGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAATATTAAATATA
Found at i:4253290 original size:24 final size:24
Alignment explanation
Indices: 4253258--4253307 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4253248 CCATTACGAA
4253258 AAACTTGAGAA-ACAAGAAAGCTTT
1 AAACTTGAGAAGA-AAGAAAGCTTT
*
4253282 AAACTTGAGAAGAAGGAAAGCTTT
1 AAACTTGAGAAGAAAGAAAGCTTT
4253306 AA
1 AA
4253308 GAAATCAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (24 bp):
AAACTTGAGAAGAAAGAAAGCTTT
Found at i:4253427 original size:38 final size:38
Alignment explanation
Indices: 4253376--4253453 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
4253366 GACAAAGGCG
4253376 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
1 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
4253414 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
1 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
4253452 GT
1 GT
4253454 CAAAGGGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (38 bp):
GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
Found at i:4256919 original size:30 final size:30
Alignment explanation
Indices: 4256864--4256920 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4256854 TTAGTGCTTG
*
4256864 AATTTAACAATTTTTTAAATTTAATACCTA
1 AATTTAACAATTTTTTAAATCTAATACCTA
*
4256894 AATTTAAC-ATTTTTTCTAATCTAATAC
1 AATTTAACAATTTTTT-AAATCTAATAC
4256921 TCATGGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTTAACAATTTTTTAAATCTAATACCTA
Found at i:4257459 original size:24 final size:24
Alignment explanation
Indices: 4257432--4257490 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
4257422 TGTCGAAACA
4257432 TATGCTCCGACATATCATCCAATT
1 TATGCTCCGACATATCATCCAATT
*
4257456 TATGCTCCGACATATCCTCCAATT
1 TATGCTCCGACATATCATCCAATT
4257480 TATGCTCCGAC
1 TATGCTCCGAC
4257491 GTACGCTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.32
Consensus pattern (24 bp):
TATGCTCCGACATATCATCCAATT
Found at i:4264626 original size:19 final size:20
Alignment explanation
Indices: 4264585--4264626 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4264575 ACCAATTTTA
* * *
4264585 AATTTCTTATAAAAATATTT
1 AATTTCTAAAAAAAATATCT
4264605 AATTTCTAAAAAAAATA-CT
1 AATTTCTAAAAAAAATATCT
4264624 AAT
1 AAT
4264627 GCTCTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTCTAAAAAAAATATCT
Found at i:4264640 original size:20 final size:21
Alignment explanation
Indices: 4264611--4264659 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4264601 ATTTAATTTC
* *
4264611 TAAAAAAAATACT-AATGCTCT
1 TAAATAAATTACTGAAT-CTCT
*
4264632 TAAATAAATTACTGAATCTTT
1 TAAATAAATTACTGAATCTCT
4264653 TAAATAA
1 TAAATAA
4264660 TTATTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAATAAATTACTGAATCTCT
Found at i:4264716 original size:39 final size:40
Alignment explanation
Indices: 4264628--4264727 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 40
4264618 AATACTAATG
*
4264628 CTCTTAAATAAATTACTGAATCTTTTAAATAATTATTAAAT
1 CTCTTACA-AAATTACTGAATCTTTTAAATAATTATTAAAT
* * * *
4264669 TTCATACAAAATTACTGAATTTTTTAAA-CATTATTAAAT
1 CTCTTACAAAATTACTGAATCTTTTAAATAATTATTAAAT
* *
4264708 CTCTTACAATATTAATGAAT
1 CTCTTACAAAATTACTGAAT
4264728 AACTTAACAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 26 0.52
40 19 0.38
41 5 0.10
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (40 bp):
CTCTTACAAAATTACTGAATCTTTTAAATAATTATTAAAT
Found at i:4276884 original size:14 final size:13
Alignment explanation
Indices: 4276865--4276913 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
4276855 TACTCACAAT
4276865 TTTTTTATAGATAA
1 TTTTTTATA-ATAA
4276879 TTTTTTAT-ATAA
1 TTTTTTATAATAA
*
4276891 TTATTTA-AATAA
1 TTTTTTATAATAA
4276903 TTTATTTATAA
1 TTT-TTTATAA
4276914 AATAAATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 16 0.53
13 4 0.13
14 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTTTATAATAA
Found at i:4279718 original size:39 final size:39
Alignment explanation
Indices: 4279665--4279763 Score: 143
Period size: 39 Copynumber: 2.6 Consensus size: 39
4279655 AATAAATATA
* *
4279665 TTTA-TTTTTTTAATTTTAAAATATTTTTTACATACTTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTT
4279703 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTT
4279742 TTT-TTTTATTTT--TTTTAAAATA
1 TTTATTTT-TTTTAATTTTAAAATA
4279764 ACAATGGATC
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
37 10 0.18
38 8 0.14
39 39 0.68
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (39 bp):
TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTT
Found at i:4288782 original size:16 final size:17
Alignment explanation
Indices: 4288752--4288785 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4288742 AAGATTATGT
*
4288752 TAAAATATTTTTAAAAA
1 TAAAATATTTCTAAAAA
4288769 TAAAA-ATTTCTAAAAA
1 TAAAATATTTCTAAAAA
4288785 T
1 T
4288786 TTAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATATTTCTAAAAA
Found at i:4302750 original size:12 final size:12
Alignment explanation
Indices: 4302733--4302760 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4302723 ATGCTATTGA
4302733 ATATCACATTTC
1 ATATCACATTTC
4302745 ATATCACATTTC
1 ATATCACATTTC
4302757 ATAT
1 ATAT
4302761 GTATGCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATCACATTTC
Found at i:4302977 original size:43 final size:43
Alignment explanation
Indices: 4302901--4303029 Score: 124
Period size: 43 Copynumber: 3.0 Consensus size: 43
4302891 TTTGACACCG
* *
4302901 TAGTGCATCATCGGATCAACTGAACGAAGTATACTGGCACCTA
1 TAGTGCATCATCGGAGCAACTGAACGAAGTATACTGGCACATA
* * *
4302944 TAGTGCATCATCGG-GCAAGTCGAAGGAATTATACTGGCACATA
1 TAGTGCATCATCGGAGCAACT-GAACGAAGTATACTGGCACATA
*
4302987 -AGGTGCATTATCGGATG-AACTGAAGCG-A-TCATACTGGCACATA
1 TA-GTGCATCATCGGA-GCAACTGAA-CGAAGT-ATACTGGCACATA
4303030 GGTGCATTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 6 0.08
43 61 0.85
44 4 0.06
45 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (43 bp):
TAGTGCATCATCGGAGCAACTGAACGAAGTATACTGGCACATA
Found at i:4304182 original size:15 final size:15
Alignment explanation
Indices: 4304164--4304205 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4304154 ATAGTTAAGT
4304164 TTATTTTAATTAAAC
1 TTATTTTAATTAAAC
4304179 TTA-TTTAATT-AAC
1 TTATTTTAATTAAAC
*
4304192 TTAATTGTAATTAA
1 TT-ATTTTAATTAA
4304206 TTAGGCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 9 0.39
16 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (15 bp):
TTATTTTAATTAAAC
Found at i:4304182 original size:29 final size:29
Alignment explanation
Indices: 4304148--4304205 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4304138 CACTTAATTT
* * * *
4304148 ACTTATATAGTTAAGTTTATTTTAATTAA
1 ACTTATATAATTAACTTAATTGTAATTAA
*
4304177 ACTTATTTAATTAACTTAATTGTAATTAA
1 ACTTATATAATTAACTTAATTGTAATTAA
4304206 TTAGGCTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (29 bp):
ACTTATATAATTAACTTAATTGTAATTAA
Found at i:4304185 original size:14 final size:15
Alignment explanation
Indices: 4304168--4304205 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
4304158 TTAAGTTTAT
4304168 TTTAATTAAACTT-A
1 TTTAATTAAACTTAA
4304182 TTTAATT-AACTTAA
1 TTTAATTAAACTTAA
4304196 TTGTAATTAA
1 TT-TAATTAA
4304206 TTAGGCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 5 0.24
16 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (15 bp):
TTTAATTAAACTTAA
Found at i:4304835 original size:20 final size:19
Alignment explanation
Indices: 4304810--4304878 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 19
4304800 AAGAGCAACC
*
4304810 AATTTTTTATAGTCACTCAT
1 AATTTTTTATATTC-CTCAT
*
4304830 AATTTTTGT-TACTTCCTTAT
1 AATTTTT-TATA-TTCCTCAT
4304850 AATTTTTTGATATTCTCTCAT
1 AATTTTTT-ATATTC-CTCAT
4304871 AATTTTTT
1 AATTTTTT
4304879 TGTACTTACT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.02
20 23 0.56
21 17 0.41
ACGTcount: A:0.25, C:0.13, G:0.04, T:0.58
Consensus pattern (19 bp):
AATTTTTTATATTCCTCAT
Found at i:4304856 original size:21 final size:21
Alignment explanation
Indices: 4304810--4304878 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
4304800 AAGAGCAACC
* *
4304810 AATTTTTT-ATAGTCACTCAT
1 AATTTTTTGATATTCTCTCAT
* *
4304830 AA-TTTTTGTTACTTC-CTTAT
1 AATTTTTTGATA-TTCTCTCAT
4304850 AATTTTTTGATATTCTCTCAT
1 AATTTTTTGATATTCTCTCAT
4304871 AATTTTTT
1 AATTTTTT
4304879 TGTACTTACT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.12
20 13 0.32
21 22 0.55
ACGTcount: A:0.25, C:0.13, G:0.04, T:0.58
Consensus pattern (21 bp):
AATTTTTTGATATTCTCTCAT
Found at i:4304890 original size:21 final size:21
Alignment explanation
Indices: 4304824--4304890 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
4304814 TTTTATAGTC
*
4304824 ACTCATAATTTTTGT-TACTT
1 ACTCATAATTTTTTTGTACTT
* *
4304844 CCTTATAA-TTTTTTGATA-TT
1 ACTCATAATTTTTTTG-TACTT
*
4304864 CTCTCATAATTTTTTTGTACTT
1 -ACTCATAATTTTTTTGTACTT
4304886 ACTCA
1 ACTCA
4304891 GAAATTTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
19 5 0.14
20 8 0.22
21 14 0.39
22 9 0.25
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.55
Consensus pattern (21 bp):
ACTCATAATTTTTTTGTACTT
Found at i:4305151 original size:20 final size:19
Alignment explanation
Indices: 4305109--4305153 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4305099 AAGCAATTTT
* **
4305109 TTTTTTGTACTTCTCATGT
1 TTTTTTCTACTTCTCATAA
4305128 TTTTTTCTACTTCTTCATAA
1 TTTTTTCTACTTC-TCATAA
4305148 TTTTTT
1 TTTTTT
4305154 ATATTCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.13, C:0.16, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTTCTACTTCTCATAA
Found at i:4305272 original size:21 final size:20
Alignment explanation
Indices: 4305186--4305277 Score: 62
Period size: 20 Copynumber: 4.5 Consensus size: 20
4305176 ACTTCCTTAA
*
4305186 AATTTTTGGTATTTCCTCTT
1 AATTTTTGGTATTTCCTCAT
* ** *
4305206 ATTTTTTGACACTCTT--TCAA
1 AATTTTTGGTA-T-TTCCTCAT
* *
4305226 AATTTTTGATATTTTCTCAT
1 AATTTTTGGTATTTCCTCAT
* *
4305246 ATTTTTTTGGTATTTCCTCGT
1 A-ATTTTTGGTATTTCCTCAT
4305267 AATTTTTGGTA
1 AATTTTTGGTA
4305278 CACTCTCATA
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 32 0.59
21 17 0.31
22 2 0.04
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.58
Consensus pattern (20 bp):
AATTTTTGGTATTTCCTCAT
Found at i:4316856 original size:8 final size:7
Alignment explanation
Indices: 4316836--4316870 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
4316826 GGTATTCTAC
4316836 TTTTTCT
1 TTTTTCT
4316843 TTTTTCT
1 TTTTTCT
4316850 TTGTTTCTT
1 TT-TTTC-T
4316859 TTTTTCT
1 TTTTTCT
4316866 TTTTT
1 TTTTT
4316871 AGAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:4316858 original size:15 final size:16
Alignment explanation
Indices: 4316838--4316867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4316828 TATTCTACTT
4316838 TTTC-TTTTTTCTTTG
1 TTTCTTTTTTTCTTTG
4316853 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
4316868 TTTAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTG
Found at i:4319623 original size:59 final size:57
Alignment explanation
Indices: 4319557--4319745 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
4319547 ATTTTATTAA
4319557 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
4319616 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
4319677 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
4319736 ATCATATATT
1 ATCATATATT
4319746 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:4319654 original size:66 final size:64
Alignment explanation
Indices: 4319584--4319782 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
4319574 AAATATATTT
*
4319584 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
4319649 G
64 G
* * * * **
4319650 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
4319704 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
4319769 G
64 G
*
4319770 AATATTGATTATT
1 AATATTAATTATT
4319783 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:4319676 original size:120 final size:120
Alignment explanation
Indices: 4319546--4319843 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
4319536 AATTATTTTA
* * *
4319546 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
4319610 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
4319666 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
4319731 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
4319786 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
4319844 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:4319686 original size:61 final size:61
Alignment explanation
Indices: 4319619--4319806 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
4319609 TTATAGTATC
*
4319619 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
4319680 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
4319738 C
61 T
*
4319739 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
4319800 CTATATT
1 ATATATT
4319807 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:4319706 original size:15 final size:15
Alignment explanation
Indices: 4319671--4319722 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4319661 TTAAGAATTT
*
4319671 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4319685 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4319699 TATTTAATAATAAT-
1 TATTTAATTATAATA
4319713 TATGTTAATT
1 TAT-TTAATT
4319723 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:4320078 original size:16 final size:16
Alignment explanation
Indices: 4320057--4320124 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
4320047 GATTTGCTAT
4320057 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4320073 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
4320089 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
4320105 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4320121 TACA
1 TACA
4320125 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4320694 original size:15 final size:17
Alignment explanation
Indices: 4320664--4320702 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
4320654 TAATAAATAT
4320664 ATAATTTCACTATTTTA
1 ATAATTTCACTATTTTA
*
4320681 ATAATTT-A-TATTTTT
1 ATAATTTCACTATTTTA
4320696 ATAATTT
1 ATAATTT
4320703 TAAAAGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
ATAATTTCACTATTTTA
Found at i:4326318 original size:18 final size:19
Alignment explanation
Indices: 4326297--4326333 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4326287 TAAAATAATA
4326297 TTAAAT-TAATTATATATG
1 TTAAATATAATTATATATG
4326315 TTAAATAATAATTATATAT
1 TTAAAT-ATAATTATATAT
4326334 ATTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAAATATAATTATATATG
Found at i:4333017 original size:25 final size:24
Alignment explanation
Indices: 4332986--4333075 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 24
4332976 CATTATTTAT
4332986 CTCTTATGAGCTTCCCGATACTTGG
1 CTCTTATGAGCTTCCCGATA-TTGG
* * *
4333011 CTTTTATGAGCTTCCTGATTAATGG
1 CTCTTATGAGCTTCCCGA-TATTGG
* *
4333036 CTCGTAGGAGCTTCCCGATATTTGG
1 CTCTTATGAGCTTCCCGATA-TTGG
* *
4333061 CTCGTAAGAGCTTCC
1 CTCTTATGAGCTTCC
4333076 TATTACATGG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.04
25 50 0.93
26 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (24 bp):
CTCTTATGAGCTTCCCGATATTGG
Found at i:4333049 original size:50 final size:50
Alignment explanation
Indices: 4332993--4333123 Score: 142
Period size: 50 Copynumber: 2.6 Consensus size: 50
4332983 TATCTCTTAT
** *
4332993 GAGCTTCCCGATACTTGGCTTTTATGAGCTTCCTGATTA-ATGGCTCGTAG
1 GAGCTTCCCGATACTTGGCTCGTAAGAGCTTCCT-ATTACATGGCTCGTAG
* ** *
4333043 GAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTATTACATGGCTCACAT
1 GAGCTTCCCGATACTTGGCTCGTAAGAGCTTCCTATTACATGGCTCGTAG
*
4333093 GAGCTTCCC-ATTA-TATGGCTCGAAAGAGCTT
1 GAGCTTCCCGA-TACT-TGGCTCGTAAGAGCTT
4333124 TTCGATTACA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
49 6 0.09
50 64 0.91
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (50 bp):
GAGCTTCCCGATACTTGGCTCGTAAGAGCTTCCTATTACATGGCTCGTAG
Found at i:4333086 original size:25 final size:25
Alignment explanation
Indices: 4333018--4333123 Score: 99
Period size: 25 Copynumber: 4.2 Consensus size: 25
4333008 TGGCTTTTAT
*
4333018 GAGCTTCCTGATTA-ATGGCTCGTAG
1 GAGCTTCCT-ATTATATGGCTCGTAA
* *
4333043 GAGCTTCCCGA-TATTTGGCTCGTAA
1 GAGCTT-CCTATTATATGGCTCGTAA
* ** *
4333068 GAGCTTCCTATTACATGGCTCACAT
1 GAGCTTCCTATTATATGGCTCGTAA
* *
4333093 GAGCTTCCCATTATATGGCTCGAAA
1 GAGCTTCCTATTATATGGCTCGTAA
4333118 GAGCTT
1 GAGCTT
4333124 TTCGATTACA
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
24 5 0.08
25 57 0.89
26 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTATTATATGGCTCGTAA
Found at i:4333140 original size:50 final size:50
Alignment explanation
Indices: 4332991--4333143 Score: 125
Period size: 50 Copynumber: 3.1 Consensus size: 50
4332981 TTTATCTCTT
*** * * **
4332991 ATGAGCTTCCCGATACT-TGGCTTTTATGAGCTTCCTGATTA-ATGGCTCGT
1 ATGAGCTTCCCGATA-TATGGCTCGAAAGAGCTTCC-GATTACATGACTCAC
* * * * *
4333041 AGGAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTATTACATGGCTCAC
1 ATGAGCTTCCCGATATATGGCTCGAAAGAGCTTCCGATTACATGACTCAC
*
4333091 ATGAGCTTCCC-ATTATATGGCTCGAAAGAGCTTTTCGATTACAT-ACTCAC
1 ATGAGCTTCCCGA-TATATGGCTCGAAAGAGC-TTCCGATTACATGACTCAC
4333141 ATG
1 ATG
4333144 GGCATACCTG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
49 6 0.07
50 70 0.81
51 10 0.12
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (50 bp):
ATGAGCTTCCCGATATATGGCTCGAAAGAGCTTCCGATTACATGACTCAC
Found at i:4355520 original size:13 final size:13
Alignment explanation
Indices: 4355484--4355533 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
4355474 TTTAAACCAA
*
4355484 ACTTTTCAAAAGC
1 ACTTTTCAAAAAC
**
4355497 ACTCCTCAAAAAC
1 ACTTTTCAAAAAC
*
4355510 ACTTTTTAAAAAC
1 ACTTTTCAAAAAC
4355523 ACTTTTCAAAA
1 ACTTTTCAAAA
4355534 GCAATGAAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:4370014 original size:41 final size:42
Alignment explanation
Indices: 4369929--4370028 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
4369919 ACAAAAACGT
* * *
4369929 CGCTAAAGACCATGTTTTTTAGCGGCATTTTTTTCTAAGCGC
1 CGCTAAAGAACATGTTCTTTAGCAGCATTTTTTTCTAAGCGC
*
4369971 CGCTAAAGAACAT-TATCTTTAGCAGCGTTTTTTT-TAAGCGC
1 CGCTAAAGAACATGT-TCTTTAGCAGCATTTTTTTCTAAGCGC
4370012 CGCTAAAGAACATGTTC
1 CGCTAAAGAACATGTTC
4370029 GCTAGTGGCG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 23 0.44
42 29 0.56
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (42 bp):
CGCTAAAGAACATGTTCTTTAGCAGCATTTTTTTCTAAGCGC
Found at i:4370389 original size:21 final size:21
Alignment explanation
Indices: 4370362--4370419 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
4370352 TTGCTCTGCT
*
4370362 CTGCTTCTCTCGCTGCAGCCTC
1 CTGCTTCCCTCGCTGCAGCC-C
*
4370384 CT-CTTCCCTCGCTGCAGCCG
1 CTGCTTCCCTCGCTGCAGCCC
4370404 CTGCTTCCCTCGCTGC
1 CTGCTTCCCTCGCTGC
4370420 CGCTTCTGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.03, C:0.48, G:0.19, T:0.29
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCC
Found at i:4370428 original size:21 final size:21
Alignment explanation
Indices: 4370361--4370430 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
4370351 TTTGCTCTGC
*
4370361 TCTGCTTCTCTCGCTGCAGCCT
1 TCTGCTTCCCTCGCTGCAG-CT
* *
4370383 CCT-CTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCT
* *
4370403 GCTGCTTCCCTCGCTGCCGCT
1 TCTGCTTCCCTCGCTGCAGCT
4370424 TCTGCTT
1 TCTGCTT
4370431 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 3 0.08
21 35 0.88
22 2 0.05
ACGTcount: A:0.03, C:0.46, G:0.19, T:0.33
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCT
Found at i:4374866 original size:9 final size:9
Alignment explanation
Indices: 4374852--4375033 Score: 144
Period size: 9 Copynumber: 20.9 Consensus size: 9
4374842 TTTTTATGTA
4374852 TTATGTAAG
1 TTATGTAAG
4374861 TTATGTAAG
1 TTATGTAAG
*
4374870 TTGTGT-A-
1 TTATGTAAG
*
4374877 TTATGTGAG
1 TTATGTAAG
4374886 TTATGTAAG
1 TTATGTAAG
*
4374895 TTATGGAAG
1 TTATGTAAG
* *
4374904 TTATTTAAT
1 TTATGTAAG
4374913 TTATGTAAG
1 TTATGTAAG
4374922 TTATGTAAG
1 TTATGTAAG
*
4374931 TTATGTAGG
1 TTATGTAAG
*
4374940 CTATGT-A-
1 TTATGTAAG
* *
4374947 TTATCTAAA
1 TTATGTAAG
*
4374956 TAATGTAAG
1 TTATGTAAG
* *
4374965 TTA-GGAATC
1 TTATGTAA-G
*
4374974 TTATAT-A-
1 TTATGTAAG
4374981 TTATGTAAG
1 TTATGTAAG
*
4374990 TTATGCAAG
1 TTATGTAAG
* *
4374999 TGATGCAAG
1 TTATGTAAG
* *
4375008 TTATTTAAT
1 TTATGTAAG
4375017 TTATGTAAG
1 TTATGTAAG
4375026 TTATGTAA
1 TTATGTAA
4375034 TTAGAAATTT
Statistics
Matches: 134, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
7 14 0.10
8 7 0.05
9 113 0.84
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:4374890 original size:34 final size:33
Alignment explanation
Indices: 4374814--4375033 Score: 140
Period size: 34 Copynumber: 6.4 Consensus size: 33
4374804 TAACTATAAA
* *
4374814 TGAGTTATGTAAGTTATGATATGATATATTTTTATG
1 TGAGTTATGTAAGTTATG-TAAG-T-TATTATTATG
*
4374850 T-A-TTATGTAAGTTATGTAAGTTGTGTATTATG
1 TGAGTTATGTAAGTTATGTAAGTTAT-TATTATG
*
4374882 TGAGTTATGTAAGTTATGGAAGTTATTTAATTTATG
1 TGAGTTATGTAAGTTATGTAAGTTA-TT-A-TTATG
* * * *
4374918 TAAGTTATGTAAGTTATGTAGGCTATGTATTATC
1 TGAGTTATGTAAGTTATGTAAGTTAT-TATTATG
* * * * *
4374952 TAAATAATGTAAGTTA-GGAATCTTATATATTATG
1 TGAGTTATGTAAGTTATGTAA-GTTAT-TATTATG
* * * *
4374986 TAAGTTATGCAAGTGATGCAAGTTATTTAATTTATG
1 TGAGTTATGTAAGTTATGTAAGTTA-TT-A-TTATG
*
4375022 TAAGTTATGTAA
1 TGAGTTATGTAA
4375034 TTAGAAATTT
Statistics
Matches: 147, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
31 2 0.01
32 8 0.05
33 6 0.04
34 77 0.52
35 10 0.07
36 44 0.30
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (33 bp):
TGAGTTATGTAAGTTATGTAAGTTATTATTATG
Found at i:4374966 original size:61 final size:61
Alignment explanation
Indices: 4374852--4374967 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
4374842 TTTTTATGTA
* * * * *
4374852 TTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGGAAGTTATTTAAT
*
4374913 TTATGTAAGTTATGTAAGTTATGTAGGCTATGT-A-TTATCTAAATAATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTATGTA--CTATGTGAGTTATCTAAATAATGGAAGTTA
4374968 GGAATCTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 41 0.87
62 1 0.02
63 5 0.11
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (61 bp):
TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGGAAGTTATTTAAT
Found at i:4375072 original size:37 final size:37
Alignment explanation
Indices: 4375013--4375100 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
4375003 GCAAGTTATT
* *
4375013 TAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCA
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCA
* * *
4375049 TAATATTATATAAGTTGTGTAATTCGAAATTTGATCT
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCA
*
4375086 TAATATTATAAAAGT
1 TAATATTATATAAGT
4375101 AATCTTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
36 4 0.09
37 41 0.91
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.45
Consensus pattern (37 bp):
TAATATTATATAAGTTATGTAATTAGAAATTTGATCA
Found at i:4375107 original size:20 final size:20
Alignment explanation
Indices: 4375082--4375120 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4375072 TCGAAATTTG
4375082 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATAAAAGTA
*
4375102 ATCTTAATATTATATAAGT
1 ATCTTAATATTATAAAAGT
4375121 TATGTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATAAAAGTA
Found at i:4375135 original size:94 final size:93
Alignment explanation
Indices: 4375012--4375186 Score: 269
Period size: 94 Copynumber: 1.9 Consensus size: 93
4375002 TGCAAGTTAT
* *
4375012 TTAATTTATGTAAGTTATGTAATTAGAAATTTTATCATAATATTATATAAGTTGTGTAATTCGAA
1 TTAATTTATATAAGTTATGTAATTAGAAATTTTATCATAATATTATATAAGTTATGTAATTCGAA
4375077 ATTTGATCTTAATATTATAAAAGTAATC
66 ATTTGATCTTAATATTATAAAAGTAATC
* * * *
4375105 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAGTATTGTATAAGTTATGTAATTCGA
1 TTAAT-TTATATAAGTTATGTAATTAGAAATTTTATCATAATATTATATAAGTTATGTAATTCGA
* *
4375170 TATTTTATCTTAATATT
65 AATTTGATCTTAATATT
4375187 GTATAAGTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 5 0.07
94 68 0.93
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (93 bp):
TTAATTTATATAAGTTATGTAATTAGAAATTTTATCATAATATTATATAAGTTATGTAATTCGAA
ATTTGATCTTAATATTATAAAAGTAATC
Found at i:4375155 original size:37 final size:37
Alignment explanation
Indices: 4375102--4375239 Score: 231
Period size: 37 Copynumber: 3.7 Consensus size: 37
4375092 TATAAAAGTA
*
4375102 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
* *
4375139 ATCTTAGTATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
*
4375176 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
*
4375213 ATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
4375240 ATTATATAAG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
Found at i:4375263 original size:93 final size:93
Alignment explanation
Indices: 4375146--4375425 Score: 379
Period size: 93 Copynumber: 3.0 Consensus size: 93
4375136 TTTATCTTAG
* *
4375146 TATTGTATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATT
1 TATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAATTCGATATT
* *
4375211 TTATCTTAACATTATATAAGTTATGTAA
66 TTATCTTAATATTGTATAAGTTATGTAA
*
4375239 TATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTCGATATT
1 TATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAATTCGATATT
4375304 TTATCTTAATATTGTATAAGTTATGTAA
66 TTATCTTAATATTGTATAAGTTATGTAA
* * * ** ** *
4375332 T-TCGATAT--TTTATCTTAACATTATATAAGTTAT-GTAATATTATATAAGTTATGTAATTCGA
1 TAT-TATATAAGTTAT-GT-A-ATTCGATATTTTATCTTAATATTATATAAGTTATGTAATTCGA
4375393 TATTTTATCTTAATATTGTATAAGTTATGTAA
62 TATTTTATCTTAATATTGTATAAGTTATGTAA
4375425 T
1 T
4375426 TCGATATTTT
Statistics
Matches: 169, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
91 4 0.02
92 2 0.01
93 153 0.91
94 10 0.06
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (93 bp):
TATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAATTCGATATT
TTATCTTAATATTGTATAAGTTATGTAA
Found at i:4375290 original size:37 final size:37
Alignment explanation
Indices: 4375240--4375369 Score: 242
Period size: 37 Copynumber: 3.5 Consensus size: 37
4375230 GTTATGTAAT
4375240 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
1 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
*
4375277 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAT
1 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
*
4375314 ATTGTATAAGTTATGTAATTCGATATTTTATCTTAAC
1 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
4375351 ATTATATAAGTTATGTAAT
1 ATTATATAAGTTATGTAAT
4375370 ATTATATAAG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.49
Consensus pattern (37 bp):
ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
Found at i:4375297 original size:130 final size:130
Alignment explanation
Indices: 4375008--4375462 Score: 716
Period size: 130 Copynumber: 3.5 Consensus size: 130
4374998 GTGATGCAAG
* * * * *
4375008 TTAT-TTAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCATAATATTATATAAGTTGTGTAA
1 TTATCTTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAA
* * * * * * *
4375071 TTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAAT
66 TTCGATATTTTATCTTAACATTATATAAGTTAT-GTAATATTATATAAGTTATGTAATTCGATAT
4375136 T
130 T
* * *
4375137 TTATCTTAGTATTGTATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAA
1 TTATCTTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAA
4375202 TTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATGTAATTCGATATT
66 TTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATGTAATTCGATATT
* *
4375267 TTATCTTAACATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAA
1 TTATCTTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAA
4375332 TTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATGTAATTCGATATT
66 TTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATGTAATTCGATATT
* *
4375397 TTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAA
1 TTATCTTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAA
4375462 T
66 T
4375463 ATTTTATAAG
Statistics
Matches: 302, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
129 4 0.01
130 223 0.74
131 75 0.25
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (130 bp):
TTATCTTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAA
TTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATGTAATTCGATATT
Found at i:4375416 original size:37 final size:37
Alignment explanation
Indices: 4375366--4375462 Score: 176
Period size: 37 Copynumber: 2.6 Consensus size: 37
4375356 ATAAGTTATG
4375366 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
*
4375403 TAATATTGTATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
*
4375440 TAACATTATATAAGTTATGTAAT
1 TAATATTATATAAGTTATGTAAT
4375463 ATTTTATAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.49
Consensus pattern (37 bp):
TAATATTATATAAGTTATGTAATTCGATATTTTATCT
Found at i:4375436 original size:93 final size:93
Alignment explanation
Indices: 4375180--4375512 Score: 449
Period size: 93 Copynumber: 3.6 Consensus size: 93
4375170 TATTTTATCT
* * *
4375180 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATAT-TA
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAAT-TCGA
* * ** ** *
4375244 TATAAGTTAT-GT-A-ATTCGATATTTTATCT
65 TAT--TTTATCTTAACATTATATAAGTTAT-G
* *
4375273 TAACATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGAT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAATTCGAT
4375338 ATTTTATCTTAACATTATATAAGTTATG
66 ATTTTATCTTAACATTATATAAGTTATG
*
4375366 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGAT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAATTCGAT
4375431 ATTTTATCTTAACATTATATAAGTTATG
66 ATTTTATCTTAACATTATATAAGTTATG
* * * *
4375459 TAATATTTTATAAGTTCTGTAATTAGAAATTTTATCTTAATATTATATAAGTTA
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTA
4375513 AGAAATTTTA
Statistics
Matches: 218, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
91 4 0.02
92 2 0.01
93 202 0.93
94 10 0.05
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.49
Consensus pattern (93 bp):
TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAATTCGAT
ATTTTATCTTAACATTATATAAGTTATG
Found at i:4376963 original size:23 final size:23
Alignment explanation
Indices: 4376933--4376977 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4376923 GGAGAATGAA
*
4376933 TTTTGGGGGATAACTGATGGAGG
1 TTTTGGGGGACAACTGATGGAGG
4376956 TTTTGGGGGACAACTGATGGAG
1 TTTTGGGGGACAACTGATGGAG
4376978 AAAAATGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.07, G:0.42, T:0.29
Consensus pattern (23 bp):
TTTTGGGGGACAACTGATGGAGG
Found at i:4377331 original size:147 final size:147
Alignment explanation
Indices: 4377132--4377472 Score: 389
Period size: 147 Copynumber: 2.3 Consensus size: 147
4377122 CCTCGTATCA
* * * *
4377132 ATAAATGTTAAAACATTTTTGCGGCGTTTTAATTAAAGCGCCACTAACTATAA-ATCAAAACGCA
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAACGAA
* * * * * **
4377196 GTCGCTTCATCAACACTTACCTCAAACCCGTGGCGTTTTCGAAAAATCGCCACTAATAACATTTA
65 GTCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTTCAAAAAAACGCCACTAATAACATAGA
* * * *
4377261 AAAAATGGCAGCATTTCT
130 AAAAACGACAACATTTCG
*
4377279 ATAAATGTTAGAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
* * * ** * *
4377344 TCGTTTCCCCAACAATTAACTCAATCTTGTGGCGTTTTCAAAAAAACGCCACTAATACCATAGAC
66 TCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTTCAAAAAAACGCCACTAATAACATAGAA
4377409 AAAACGACAACATTTCG
131 AAAACGACAACATTTCG
** * * * *
4377426 ATAAA-CATAACTACAATTTTGTGGCGTTTCATGTAAAGCGCCACTAA
1 ATAAATGTTAA-AACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAA
4377473 TAGCAACGTA
Statistics
Matches: 162, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
146 2 0.01
147 157 0.97
148 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (147 bp):
ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
TCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTTCAAAAAAACGCCACTAATAACATAGAA
AAAACGACAACATTTCG
Found at i:4378991 original size:114 final size:112
Alignment explanation
Indices: 4378793--4379180 Score: 388
Period size: 114 Copynumber: 3.4 Consensus size: 112
4378783 GCTTGTTAAT
* * * * *
4378793 AAACGCCGCTAAATCCCCCAATGCTAAGTAAAACGACCTCGTTGGGCTTAGGTTT-TTGGCGGCG
1 AAACGCCGCTAAATCCCCGAATGCTCAG-AAAACGACGTCGTTCGGCTTAGGTTTCTTTGCGGCG
* * ** *
4378857 CTTTCCAAAAAACACCGCTAAAGCCCTGAGCATTAGTAGTGCTTCTCCAT
65 C-TTCC-AAAAACGCTGCTAAAGCCCTGAGCATTAGCGGTGCTTCTCCAA
* * * *
4378907 AAACGCCGCTAAATCCCCGAATACTCAGAGAACGGCGTCGTTCGGCTTATGTTTCTTTGCGGCGC
1 AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTCGGCTTAGGTTTCTTTGCGGCGC
** * * *
4378972 TTCCACAGAAACGCTGCTAAAGTACTGAACATTGGCGGTGCTAC-CTCAA
66 TTCCA-A-AAACGCTGCTAAAGCCCTGAGCATTAGCGGTGCTTCTC-CAA
* *
4379021 AAACGCCGCTAAGTCACCGAATGCTCAGAAAACGACGTCGTT-GGTCTTAGGTTTCTTTGCGGCG
1 AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTCGG-CTTAGGTTTCTTTGCGGCG
* * * * ** *
4379085 AATTCTCAAAAATGCTGCTAAATCCCTGAGCTTTAGCGGCACTTCAT-AAA
65 -CTTC-CAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGTGCTTC-TCCAA
* *
4379135 AAACGCCGCTAAATCCCCGAATGCGCGGAAAACGACGTCGTTCGGC
1 AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTCGGC
4379181 CGAGATTTTT
Statistics
Matches: 223, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
112 1 0.00
113 29 0.13
114 185 0.83
115 6 0.03
116 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (112 bp):
AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTCGGCTTAGGTTTCTTTGCGGCGC
TTCCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGTGCTTCTCCAA
Found at i:4379124 original size:41 final size:40
Alignment explanation
Indices: 4379075--4379151 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 40
4379065 TCTTAGGTTT
* * *
4379075 CTTTGCGGCGAATTC-TCAAAAATGCTGCTAAATCCCTGAG
1 CTTTGCGGC-AATTCATAAAAAACGCCGCTAAATCCCTGAG
*
4379115 CTTTAGCGGCACTTCATAAAAAACGCCGCTAAATCCC
1 CTTT-GCGGCAATTCATAAAAAACGCCGCTAAATCCC
4379152 CGAATGCGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
40 8 0.26
41 23 0.74
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (40 bp):
CTTTGCGGCAATTCATAAAAAACGCCGCTAAATCCCTGAG
Found at i:4379253 original size:40 final size:40
Alignment explanation
Indices: 4379209--4379299 Score: 182
Period size: 40 Copynumber: 2.3 Consensus size: 40
4379199 TTATAGAAAT
4379209 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
1 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
4379249 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
1 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
4379289 CGCCGCTAATG
1 CGCCGCTAATG
4379300 AGTGATCTGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.31
Consensus pattern (40 bp):
CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
Found at i:4379755 original size:60 final size:61
Alignment explanation
Indices: 4379630--4379763 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 61
4379620 TTATTAAGAC
* *
4379630 ATCTTTTTTGGTCA-TCCAACTATAAAAAATTACAAAATGTTACTCAACTATTACTAAATT
1 ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAATGTCACCCAACTATTACTAAATT
* * * *
4379690 -TCTTTTTTGGTCACT-CAATTATGAAAAGTTACAAAATAGTCACCCAACTATT-C-AATTTT
1 ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAAT-GTCACCCAACTATTACTAA-ATT
*
4379749 ATCTTTTTTAGTCAC
1 ATCTTTTTTGGTCAC
4379764 CATTGGGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
58 2 0.03
59 35 0.56
60 26 0.41
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (61 bp):
ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAATGTCACCCAACTATTACTAAATT
Found at i:4385356 original size:25 final size:25
Alignment explanation
Indices: 4385312--4385361 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4385302 TTCCGTATGC
*
4385312 GAAAAAATAATATTAATTATGATTT
1 GAAAAAATAATATTAATTATAATTT
*
4385337 GAAAGAAATAATATT-TTTATAATTT
1 GAAA-AAATAATATTAATTATAATTT
4385362 TATAACTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (25 bp):
GAAAAAATAATATTAATTATAATTT
Found at i:4392750 original size:12 final size:12
Alignment explanation
Indices: 4392720--4392749 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4392710 TGTATAACTC
4392720 TTATTTTATTAT
1 TTATTTTATTAT
4392732 TTATTTTATTA-
1 TTATTTTATTAT
4392743 TTATTTT
1 TTATTTT
4392750 TCATATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:4393400 original size:21 final size:21
Alignment explanation
Indices: 4393376--4393419 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4393366 TCATTGTTAT
* *
4393376 ATACTTATAATAACATTTGAG
1 ATACGTATAACAACATTTGAG
*
4393397 ATACGTGTAACAACATTTGAG
1 ATACGTATAACAACATTTGAG
4393418 AT
1 AT
4393420 TCAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (21 bp):
ATACGTATAACAACATTTGAG
Done.