Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 156 of 206
Found at i:47178858 original size:21 final size:21
Alignment explanation
Indices: 47178832--47178871 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47178822 ATGTATAATT
*
47178832 TATTT-AGATATTTTTAATATA
1 TATTTAAGA-ATTTTAAATATA
47178853 TATTTAAGAATTTTAAATA
1 TATTTAAGAATTTTAAATA
47178872 AAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTTAAGAATTTTAAATATA
Found at i:47179537 original size:23 final size:23
Alignment explanation
Indices: 47179507--47179551 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
47179497 ATACGCTATT
47179507 AAAATAAAAATTTAAAAAATGAG
1 AAAATAAAAATTTAAAAAATGAG
*
47179530 AAAATAAAATTTTAAAAAATGA
1 AAAATAAAAATTTAAAAAATGA
47179552 CACTTACTTT
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:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
AAAATAAAAATTTAAAAAATGAG
Found at i:47186303 original size:14 final size:14
Alignment explanation
Indices: 47186284--47186311 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47186274 AAGTCATGGA
47186284 ATAGTCACACTAGC
1 ATAGTCACACTAGC
47186298 ATAGTCACACTAGC
1 ATAGTCACACTAGC
47186312 TTATTTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
ATAGTCACACTAGC
Found at i:47193828 original size:16 final size:17
Alignment explanation
Indices: 47193807--47193840 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47193797 ACATAATTAT
*
47193807 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
47193823 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
47193840 T
1 T
47193841 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:47197769 original size:63 final size:63
Alignment explanation
Indices: 47197646--47197780 Score: 153
Period size: 63 Copynumber: 2.1 Consensus size: 63
47197636 GTCGTGTGGT
* * * * * * * *
47197646 AGGCCGTGTAACTCACTATTTTTTAATTAGGGTCACATAGGCCAGGGACACGGGCGTGTGTCC
1 AGGCTGTGTAACTCACTATTTATGAATTAGGGCCACACAGACCAGGGACACAGGCATGTGTCC
* * * *
47197709 AGGCTGTGTAACTCACTGTTTATGAATTAGTGCCACACAGACCAGGGACACATGCATGTGTCT
1 AGGCTGTGTAACTCACTATTTATGAATTAGGGCCACACAGACCAGGGACACAGGCATGTGTCC
*
47197772 AAGCTGTGT
1 AGGCTGTGT
47197781 GAGAGATATT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (63 bp):
AGGCTGTGTAACTCACTATTTATGAATTAGGGCCACACAGACCAGGGACACAGGCATGTGTCC
Found at i:47199868 original size:27 final size:27
Alignment explanation
Indices: 47199800--47199871 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
47199790 GAGTGGAGGG
*
47199800 ACTGCCACACGCGGCACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
* ** * *
47199827 AGTGGTAGAGACGGCACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
47199854 ACTGCCACAGGCGGCACC
1 ACTGCCACAGGCGGCACC
47199872 GCCCCCTTAT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.35, G:0.31, T:0.08
Consensus pattern (27 bp):
ACTGCCACAGGCGGCACCAAAGGTGCC
Found at i:47200159 original size:17 final size:17
Alignment explanation
Indices: 47200139--47200171 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47200129 AAATATACTA
47200139 TTTTCGT-TTTTCATTTC
1 TTTTCGTATTTT-ATTTC
47200156 TTTTCGTATTTTATTT
1 TTTTCGTATTTTATTT
47200172 TTTCATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTCGTATTTTATTTC
Found at i:47200341 original size:30 final size:30
Alignment explanation
Indices: 47200307--47200438 Score: 151
Period size: 30 Copynumber: 4.4 Consensus size: 30
47200297 AAATTAAATA
47200307 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
* * ** * *
47200337 AAATAATAAATAAATAATAACATAAATAATA-
1 AAATAATAAA-ACAT-AGAATGTACATAACAT
* *
47200368 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
47200398 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
47200428 AAA-AATTAAAA
1 AAATAA-TAAAA
47200439 TCAAAACCAA
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
29 11 0.13
30 49 0.60
31 12 0.15
32 10 0.12
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:47200361 original size:12 final size:12
Alignment explanation
Indices: 47200330--47200373 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
47200320 TAGAATGTAC
47200330 ATAACATAAATA
1 ATAACATAAATA
47200342 ATAA-ATAAATA
1 ATAACATAAATA
47200353 ATAACATAAATA
1 ATAACATAAATA
*
47200365 ATAAAATAA
1 ATAACATAA
47200374 TAAGACATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:47200428 original size:16 final size:16
Alignment explanation
Indices: 47200378--47200428 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
47200368 AAATAATAAG
*
47200378 ACATAGTATGTACATA
1 ACATAGAATGTACATA
*
47200394 ACATA-AATAATA-A-A
1 ACATAGAAT-GTACATA
47200408 ACATAGAATGTACATA
1 ACATAGAATGTACATA
47200424 ACATA
1 ACATA
47200429 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (16 bp):
ACATAGAATGTACATA
Found at i:47200770 original size:29 final size:30
Alignment explanation
Indices: 47200714--47200787 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
47200704 CCTCCACTCC
47200714 TGTTTGTATTATTTTGGTACATAATAAA-A
1 TGTTTGTATTATTTTGGTACATAATAAATA
* ** *
47200743 TGTTTGTATTATTTTGGTATATTTTAAATT
1 TGTTTGTATTATTTTGGTACATAATAAATA
*
47200773 TTTTTGTATTATTTT
1 TGTTTGTATTATTTT
47200788 TGTAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.26, C:0.01, G:0.12, T:0.61
Consensus pattern (30 bp):
TGTTTGTATTATTTTGGTACATAATAAATA
Found at i:47201265 original size:2 final size:2
Alignment explanation
Indices: 47201258--47201283 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47201248 TTTTGGAAGG
47201258 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47201284 GCATAAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47203219 original size:2 final size:2
Alignment explanation
Indices: 47203171--47203201 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
47203161 TGATTAAAGG
*
47203171 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47203202 AGTATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:47221964 original size:50 final size:49
Alignment explanation
Indices: 47221910--47222039 Score: 140
Period size: 49 Copynumber: 2.6 Consensus size: 49
47221900 GAGGTCCCCG
* * *
47221910 GTAAGACCATGTTTGGGACATGGCA-TGAGCACCG-ATATGAGAAC-TCCCAT
1 GTAAGACCATATTTGGGACATGGCATTG-GCA--GTACAAGA-AACATCCCAT
* * *
47221960 GTAAGACCATATATGGGATATGGCATTGGCAGTACAAGAAACATCTCAT
1 GTAAGACCATATTTGGGACATGGCATTGGCAGTACAAGAAACATCCCAT
*
47222009 GTAAGACCATATTTGGGACATGGCTTTGGCA
1 GTAAGACCATATTTGGGACATGGCATTGGCA
47222040 TGTTGTTATC
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 4 0.06
49 37 0.54
50 25 0.37
51 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
GTAAGACCATATTTGGGACATGGCATTGGCAGTACAAGAAACATCCCAT
Found at i:47222266 original size:20 final size:20
Alignment explanation
Indices: 47222241--47222290 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
47222231 ATGAGTTATT
47222241 CAAGTAAGCAAGTAAGTAAA
1 CAAGTAAGCAAGTAAGTAAA
47222261 CAAGTAAG-AGAGTAAGTAAA
1 CAAGTAAGCA-AGTAAGTAAA
*
47222281 GAAG-AAGCAA
1 CAAGTAAGCAA
47222291 AGACCATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (20 bp):
CAAGTAAGCAAGTAAGTAAA
Found at i:47232404 original size:14 final size:15
Alignment explanation
Indices: 47232377--47232405 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47232367 TATTATAAAA
47232377 TAAATAGACAAAGAG
1 TAAATAGACAAAGAG
47232392 TAAATAG-CAAAGAG
1 TAAATAGACAAAGAG
47232406 AGCGCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.14
Consensus pattern (15 bp):
TAAATAGACAAAGAG
Found at i:47234124 original size:21 final size:21
Alignment explanation
Indices: 47234100--47234158 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
47234090 GTGGGGAGTG
*
47234100 ACACGCCCATGTGACAAAGGC
1 ACACGCCCATGTGACAAAGAC
* ***
47234121 ACACGGCCATGTGATTGAGAC
1 ACACGCCCATGTGACAAAGAC
*
47234142 ACACGTCCATGTGACAA
1 ACACGCCCATGTGACAA
47234159 GGTTACATGG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (21 bp):
ACACGCCCATGTGACAAAGAC
Found at i:47235726 original size:49 final size:49
Alignment explanation
Indices: 47235632--47235727 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
47235622 CTTCTATTTA
* * *
47235632 TAGGTTGAAAAACCTTATTCTAATCAATGTTAAATAGAAGCAGTGTAGT
1 TAGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGT
** *
47235681 TAGGTTGAAGCACCTTATTCTAATCAATATCAAATAGAATAAGTGTA
1 TAGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTA
47235728 CTTCTATATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (49 bp):
TAGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGT
Found at i:47239060 original size:42 final size:41
Alignment explanation
Indices: 47238965--47239231 Score: 365
Period size: 42 Copynumber: 6.4 Consensus size: 41
47238955 TGATTCAGTA
* * *
47238965 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTTT
1 CACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAATTGTTT
47239006 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-ATTGTTT
* * *
47239048 CACCGGTATTAAGTCTGCTAGACGTAAAGTCTGAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTGTTT
*
47239090 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-ATTGTTT
*
47239132 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTGTTT
* *
47239174 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAAATGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTGTTT
* * *
47239215 CACTGGCAATAAACCTG
1 CACCGGCATTAAGCCTG
47239232 ATAGGCACTG
Statistics
Matches: 202, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
40 2 0.01
41 49 0.24
42 149 0.74
43 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTGTTT
Found at i:47239112 original size:84 final size:84
Alignment explanation
Indices: 47238965--47239231 Score: 414
Period size: 84 Copynumber: 3.2 Consensus size: 84
47238955 TGATTCAGTA
* * * *
47238965 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAA-TGTTTCACCGGCATTAAGCCTGCTAGA
1 CACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGA
47239028 CGTAAAGTCTGATATTGTTT
65 CGTAAAGTCTGATATTGTTT
* *
47239048 CACCGGTATTAAGTCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGAC
47239113 GTAAAGTCTGATATTGTTT
66 GTAAAGTCTGATATTGTTT
47239132 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGAC
*
47239197 GTAAAGTCTGA-AATGTTT
66 GTAAAGTCTGATATTGTTT
* * *
47239215 CACTGGCAATAAACCTG
1 CACCGGCATTAAGCCTG
47239232 ATAGGCACTG
Statistics
Matches: 170, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
82 2 0.01
83 49 0.29
84 119 0.70
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (84 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGAC
GTAAAGTCTGATATTGTTT
Found at i:47239768 original size:2 final size:2
Alignment explanation
Indices: 47239761--47239797 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
47239751 TTAAGTACAG
*
47239761 AC AC AC AC AC AC AC AC TC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
47239798 TATCTGACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:47241820 original size:23 final size:23
Alignment explanation
Indices: 47241777--47241824 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
47241767 ACATAATATA
*
47241777 TAGGGTTCAAATACTTTATCATG
1 TAGGGTTCAAATACTTAATCATG
*
47241800 TAGGGTTCACAT-CTTAAATCATG
1 TAGGGTTCAAATACTT-AATCATG
47241823 TA
1 TA
47241825 CTAAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (23 bp):
TAGGGTTCAAATACTTAATCATG
Found at i:47242386 original size:16 final size:15
Alignment explanation
Indices: 47242362--47242407 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
47242352 TGTCCGCAAT
47242362 ACAGGGGGTCGCATA
1 ACAGGGGGTCGCATA
47242377 ACATGGGGGTCCGCATA
1 ACA-GGGGGT-CGCATA
47242394 ACAGGGGGCTCGCA
1 ACAGGGGG-TCGCA
47242408 CACACGTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.11
16 15 0.54
17 10 0.36
ACGTcount: A:0.24, C:0.24, G:0.39, T:0.13
Consensus pattern (15 bp):
ACAGGGGGTCGCATA
Found at i:47242391 original size:17 final size:16
Alignment explanation
Indices: 47242353--47242401 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
47242343 TTCTCTAAGT
47242353 GTCCGCA-ATACAGGGG
1 GTCCGCATA-ACAGGGG
47242369 GT-CGCATAACATGGGG
1 GTCCGCATAACA-GGGG
47242385 GTCCGCATAACAGGGG
1 GTCCGCATAACAGGGG
47242401 G
1 G
47242402 CTCGCACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.23
16 14 0.47
17 9 0.30
ACGTcount: A:0.24, C:0.22, G:0.39, T:0.14
Consensus pattern (16 bp):
GTCCGCATAACAGGGG
Found at i:47242940 original size:3 final size:3
Alignment explanation
Indices: 47242932--47242967 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
47242922 ACCAACAAGC
47242932 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47242968 ACACAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47243618 original size:30 final size:29
Alignment explanation
Indices: 47243579--47243635 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
47243569 TCACTATCAT
* * *
47243579 TTATAAAATTATTGATATTTTATTTAGACA
1 TTATAAAATT-TTCAAATTTTAGTTAGACA
*
47243609 TTATGAAATTTTCAAATTTTAGTTAGA
1 TTATAAAATTTTCAAATTTTAGTTAGA
47243636 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (29 bp):
TTATAAAATTTTCAAATTTTAGTTAGACA
Found at i:47247701 original size:99 final size:99
Alignment explanation
Indices: 47247530--47247729 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 99
47247520 TAAAAGAAGG
*
47247530 AAATAAGAAAATAAATCCATTTTGGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
1 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
47247595 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
66 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
47247629 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
1 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
47247694 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
66 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
47247728 AA
1 AA
47247730 GAATAAAGAA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (99 bp):
AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
GCAACGATAACTTCAATTGCAATTGGAATCCAAA
Found at i:47248769 original size:18 final size:17
Alignment explanation
Indices: 47248742--47248779 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
47248732 TGTCTTTTTA
47248742 ATTTATATTTCTTATTT
1 ATTTATATTTCTTATTT
*
47248759 ATTTATAATTTTTTATTT
1 ATTTAT-ATTTCTTATTT
47248777 ATT
1 ATT
47248780 CTTTGTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATATTTCTTATTT
Found at i:47251846 original size:2 final size:2
Alignment explanation
Indices: 47251834--47251870 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
47251824 TTAAGAATTA
47251834 AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
47251871 AGAAGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47252063 original size:12 final size:13
Alignment explanation
Indices: 47252046--47252079 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
47252036 TTACTCTCTC
47252046 TTTCTTTTTC-TT
1 TTTCTTTTTCTTT
47252058 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
47252071 TTTCTTTTT
1 TTTCTTTTT
47252080 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:47252080 original size:7 final size:6
Alignment explanation
Indices: 47252046--47252079 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
47252036 TTACTCTCTC
47252046 TTTCTT TTTCTT TTTCTT TTTCTTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTT
47252080 TTTATATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:47254296 original size:38 final size:38
Alignment explanation
Indices: 47254253--47254423 Score: 163
Period size: 38 Copynumber: 4.5 Consensus size: 38
47254243 TTACCAATTG
*
47254253 CATGTTCAACATGCCTACTGTTACTCTTGAACCAAGAA-A
1 CATGTT-AACATGCCTACTGTTACTGTTGAACC-AGAATA
* *
47254292 -ATGTTAAGCATGCCTACTGTTATTGTTGAA-CTGAATA
1 CATGTTAA-CATGCCTACTGTTACTGTTGAACCAGAATA
* *
47254329 CATGTTAAACATGTCTACTGTTACTGTTGAACC-CAATA
1 CATGTT-AACATGCCTACTGTTACTGTTGAACCAGAATA
* * **
47254367 CATGTTAAGCATGTCTACTGCTACTGTTGAA-TTGAATA
1 CATGTTAA-CATGCCTACTGTTACTGTTGAACCAGAATA
*
47254405 CATGTTAAGCATGTCTACT
1 CATGTTAA-CATGCCTACT
47254424 ATTTTTACAT
Statistics
Matches: 116, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
36 3 0.03
37 6 0.05
38 104 0.90
39 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (38 bp):
CATGTTAACATGCCTACTGTTACTGTTGAACCAGAATA
Found at i:47254379 original size:76 final size:76
Alignment explanation
Indices: 47254253--47254423 Score: 236
Period size: 76 Copynumber: 2.2 Consensus size: 76
47254243 TTACCAATTG
* * * *
47254253 CATGTTCAACATGCCTACTGTTACTCTTGAACCAAGAAAATGTTAAGCATGCCTACTGTTATTGT
1 CATGTTAAACATGTCTACTGTTACTCTTGAACCAAGAAAATGTTAAGCATGCCTACTGCTACTGT
47254318 TGAACTGAATA
66 TGAACTGAATA
* * * *
47254329 CATGTTAAACATGTCTACTGTTACTGTTGAACCCAA-TACATGTTAAGCATGTCTACTGCTACTG
1 CATGTTAAACATGTCTACTGTTACTCTTGAA-CCAAGAAAATGTTAAGCATGCCTACTGCTACTG
*
47254393 TTGAATTGAATA
65 TTGAACTGAATA
*
47254405 CATGTTAAGCATGTCTACT
1 CATGTTAAACATGTCTACT
47254424 ATTTTTACAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 80 0.95
77 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (76 bp):
CATGTTAAACATGTCTACTGTTACTCTTGAACCAAGAAAATGTTAAGCATGCCTACTGCTACTGT
TGAACTGAATA
Found at i:47259261 original size:14 final size:14
Alignment explanation
Indices: 47259242--47259270 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47259232 TTTCTATACC
47259242 ATTCTCAGTAAACT
1 ATTCTCAGTAAACT
47259256 ATTCTCAGTAAACT
1 ATTCTCAGTAAACT
47259270 A
1 A
47259271 ACTTCATATA
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:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (14 bp):
ATTCTCAGTAAACT
Found at i:47262550 original size:8 final size:8
Alignment explanation
Indices: 47262537--47262563 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47262527 TTCCATCAAA
47262537 ACAAATAT
1 ACAAATAT
47262545 ACAAATAT
1 ACAAATAT
47262553 ACAAATAT
1 ACAAATAT
47262561 ACA
1 ACA
47262564 CGTATGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (8 bp):
ACAAATAT
Found at i:47263383 original size:5 final size:5
Alignment explanation
Indices: 47263373--47263485 Score: 82
Period size: 5 Copynumber: 21.0 Consensus size: 5
47263363 AGCATATCTT
* * * *
47263373 ATATC ATATC ATATC ATATC ATATC ATATC GGATTTC ATATC ATGTC GTAGCAC
1 ATATC ATATC ATATC ATATC ATATC ATATC --ATATC ATATC ATATC ATA--TC
* * *
47263427 ATTTC ATATC ATATCTC ATATC ATATC ACATC ATATCTC TTATC ATATC
1 ATATC ATATC ATA--TC ATATC ATATC ATATC ATA--TC ATATC ATATC
*
47263476 ATATC CTATC
1 ATATC ATATC
47263486 TCATCTACTA
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
5 70 0.82
7 15 0.18
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:47263454 original size:17 final size:17
Alignment explanation
Indices: 47263365--47263454 Score: 76
Period size: 17 Copynumber: 5.4 Consensus size: 17
47263355 TATATCGAAG
* *
47263365 CATATCTTATATCATAT
1 CATATCATATCTCATAT
47263382 CATATCATA--TCATAT
1 CATATCATATCTCATAT
** *
47263397 CATATCGGATTTCATAT
1 CATATCATATCTCATAT
* * * * *
47263414 CATGTCGTAGCACATTT
1 CATATCATATCTCATAT
47263431 CATATCATATCTCATAT
1 CATATCATATCTCATAT
47263448 CATATCA
1 CATATCA
47263455 CATCATATCT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
15 13 0.23
17 44 0.77
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (17 bp):
CATATCATATCTCATAT
Found at i:47263486 original size:22 final size:22
Alignment explanation
Indices: 47263365--47263489 Score: 105
Period size: 22 Copynumber: 5.7 Consensus size: 22
47263355 TATATCGAAG
* *
47263365 CATATCTTATATCATATCATAT
1 CATATCATATCTCATATCATAT
*
47263387 CATATCATA--TCATATCGGATTT
1 CATATCATATCTCATATC--ATAT
* * *
47263409 CATATCATGTCGT-AGCA-CATTT
1 CATATCATATC-TCA-TATCATAT
47263431 CATATCATATCTCATATCATAT
1 CATATCATATCTCATATCATAT
* *
47263453 CACATCATATCTCTTATCATAT
1 CATATCATATCTCATATCATAT
*
47263475 CATATCCTATCTCAT
1 CATATCATATCTCAT
47263490 CTACTACGCA
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
20 7 0.08
21 2 0.02
22 70 0.84
24 2 0.02
25 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (22 bp):
CATATCATATCTCATATCATAT
Found at i:47267922 original size:44 final size:44
Alignment explanation
Indices: 47267852--47268141 Score: 299
Period size: 44 Copynumber: 6.7 Consensus size: 44
47267842 ATCTGTTATT
* * *
47267852 TTCAACCTACTCCACTGTTG-CTCAGGGAGATAGGGTTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* *
47267896 TTCAACTTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * * *
47267940 TTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * *
47267984 TTCAACCTATTCCACTGTTGACCAGGGAGATAAGAATCACGATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * *
47268028 TTTAACCTATTCCACTGTTGTCCAGAGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * *
47268067 TT-AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
47268110 TTCAACCTATTCCACTGCTGACCAGGGAGATA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA
47268142 AGGCTGGTAT
Statistics
Matches: 202, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
38 28 0.14
39 2 0.01
40 2 0.01
42 2 0.01
43 3 0.01
44 163 0.81
45 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:47268077 original size:38 final size:38
Alignment explanation
Indices: 47268026--47268104 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
47268016 AGAATCACGA
** * *
47268026 TCTTTAACCTATTCCACTGTTGTCCAGAGAGATAGGAT
1 TCTTTAACCTATTCCACTACTGCCCAGAGAGATAGAAT
* *
47268064 TCTTTAATCTATTCCACTACTGCCCAGGGAGATAGAAT
1 TCTTTAACCTATTCCACTACTGCCCAGAGAGATAGAAT
47268102 TCT
1 TCT
47268105 CAATCTTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTACTGCCCAGAGAGATAGAAT
Found at i:47268123 original size:126 final size:128
Alignment explanation
Indices: 47267852--47268143 Score: 392
Period size: 126 Copynumber: 2.3 Consensus size: 128
47267842 ATCTGTTATT
* * ** *
47267852 TTCAACCTACTCCACTGTTG-CTCAGGGAGATAGGGTTCACAATCTTCAACTTATTCCACTGCTG
1 TTCAACCTATTCCACTGTTGAC-CAGGGAGATAAGAATCACAATCTTCAACCTATTCCACTGCTG
* *
47267916 ACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATTCTCA
65 ACCAGAGAGATAGGA-CT---ATCTTCAATCTATTCCACTACTGCCCAAGGAGATAGAATTCTCA
47267981 ATC
126 ATC
* * * *
47267984 TTCAACCTATTCCACTGTTGACCAGGGAGATAAGAATCACGATCTTTAACCTATTCCACTGTTGT
1 TTCAACCTATTCCACTGTTGACCAGGGAGATAAGAATCACAATCTTCAACCTATTCCACTGCTGA
* *
47268049 CCAGAGAGATAGGA-T-TCTTTAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATC
66 CCAGAGAGATAGGACTATCTTCAATCTATTCCACTACTGCCCAAGGAGATAGAATTCTCAATC
*
47268110 TTCAACCTATTCCACTGCTGACCAGGGAGATAAG
1 TTCAACCTATTCCACTGTTGACCAGGGAGATAAG
47268144 GCTGGTATCT
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
126 76 0.52
130 1 0.01
132 67 0.46
133 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (128 bp):
TTCAACCTATTCCACTGTTGACCAGGGAGATAAGAATCACAATCTTCAACCTATTCCACTGCTGA
CCAGAGAGATAGGACTATCTTCAATCTATTCCACTACTGCCCAAGGAGATAGAATTCTCAATC
Found at i:47268256 original size:88 final size:88
Alignment explanation
Indices: 47268107--47268641 Score: 793
Period size: 88 Copynumber: 6.1 Consensus size: 88
47268097 AGAATTCTCA
** * **
47268107 ATCTTCAACCTATTCCACTGCTGA-CCAGGGAGATAAGGCTGGTATCTTCGATCTGCTTCACTGT
1 ATCTTCAACCTGCTCCACTAC-GACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGT
47268171 CGGTACAGGAAGGCAAGATCTGCT
65 CGGTACAGGAAGGCAAGATCTGCT
* * *
47268195 ATCTTCAACTTGCTCCACTACGACCCAGGGAGGCAAGGCTAGTATCTTCGATCTGTTTCACTGTC
1 ATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC
* *
47268260 GGTACAGGAAGGCAATATCTTCT
66 GGTACAGGAAGGCAAGATCTGCT
* *
47268283 ATCTTCAACCTGCTCCACTACGACCCAGGAAGGCAAGGCCGGTATCTTCGATCTGCTTCACTGTC
1 ATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC
47268348 GGTACAGGAAGGCAAGATCTGCT
66 GGTACAGGAAGGCAAGATCTGCT
* * *
47268371 ATCTTCAACCTACTCCACTACGACCCTGGGAGGCAAGGCTGGTATCTTCGATCCGCTTCACTGTC
1 ATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC
*
47268436 GGTATAGGAAGGCAAGATCTGCT
66 GGTACAGGAAGGCAAGATCTGCT
* *
47268459 ATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTT
1 ATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC
* * *
47268524 GATGCAGGAAGGCAAGATTTGCT
66 GGTACAGGAAGGCAAGATCTGCT
* * * * *
47268547 ATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGCC
1 ATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC
* * *
47268612 AGTACAGGAAGCCAAGATCTGTT
66 GGTACAGGAAGGCAAGATCTGCT
47268635 ATCTTCA
1 ATCTTCA
47268642 CTGATCCGCT
Statistics
Matches: 403, Mismatches: 43, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 2 0.00
88 401 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (88 bp):
ATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC
GGTACAGGAAGGCAAGATCTGCT
Found at i:47269907 original size:16 final size:16
Alignment explanation
Indices: 47269886--47269921 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47269876 GGCCTCTCCA
47269886 TTTTCTTTCTTCTTTT
1 TTTTCTTTCTTCTTTT
*
47269902 TTTTCTTTTTTCTTTT
1 TTTTCTTTCTTCTTTT
47269918 TTTT
1 TTTT
47269922 GAAAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTCTTCTTTT
Found at i:47273882 original size:3 final size:3
Alignment explanation
Indices: 47273874--47273899 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47273864 AACAAAAATA
47273874 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
47273900 ACATCCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47277788 original size:7 final size:7
Alignment explanation
Indices: 47277743--47277780 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
47277733 TCATCCATGG
*
47277743 TTTCTCT
1 TTTCTTT
47277750 TTTCTTT
1 TTTCTTT
47277757 TTTCTTT
1 TTTCTTT
47277764 TTTCTTT
1 TTTCTTT
47277771 TTTCTTT
1 TTTCTTT
47277778 TTT
1 TTT
47277781 TTACTTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTCTTT
Found at i:47281600 original size:5 final size:6
Alignment explanation
Indices: 47281565--47281624 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
47281555 TTTTGATAGA
47281565 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG -TTTAG -TTTAG -TTT-G
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG
* *
47281609 TTTTTG TTTTTG TTTT
1 TTTTAG TTTTAG TTTT
47281625 TGCTTTTGCT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
4 1 0.02
5 16 0.31
6 35 0.67
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.72
Consensus pattern (6 bp):
TTTTAG
Found at i:47288163 original size:58 final size:58
Alignment explanation
Indices: 47288069--47288272 Score: 171
Period size: 58 Copynumber: 3.5 Consensus size: 58
47288059 TTAATCCGCG
* * *
47288069 AGCTATTTTATACTCAAGAAAAATCTTGAAAGATAATA-AACTGAAGCTGTGAATCCACA
1 AGCTGTTTTATACTTAAG-AAAATCTTGAAAGATAATATAACTG-AGATGTGAATCCACA
* * * * * * *
47288128 AGCTGTTTCATACTTAAGAAAATCTCGAAAGATAATATAGCTGAGATGTTACTCTACG
1 AGCTGTTTTATACTTAAGAAAATCTTGAAAGATAATATAACTGAGATGTGAATCCACA
* * * * * * *
47288186 AGTTGTTTTATACTTAAGAAAATTTTGAAAGATAACACAGA-TGGGAATGTTACTCCA-A
1 AGCTGTTTTATACTTAAGAAAATCTTGAAAGATAATATA-ACTGAG-ATGTGAATCCACA
* *
47288244 GAGCTATTTTATACTTAAGAAAATTTTGA
1 -AGCTGTTTTATACTTAAGAAAATCTTGA
47288273 CAAATAACAC
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
58 64 0.54
59 55 0.46
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (58 bp):
AGCTGTTTTATACTTAAGAAAATCTTGAAAGATAATATAACTGAGATGTGAATCCACA
Found at i:47288263 original size:59 final size:58
Alignment explanation
Indices: 47288128--47288342 Score: 252
Period size: 59 Copynumber: 3.7 Consensus size: 58
47288118 TGAATCCACA
* * * * * * * *
47288128 AGCTGTTTCATACTTAAGAAAATCTCGAAAGATAATATAGCTGAGATGTTACTCTACG
1 AGCTGTTTTATACTTAAGAAAATTTTGAAAGATAACACAGCTGGGATGTTACTCCAAG
* *
47288186 AGTTGTTTTATACTTAAGAAAATTTTGAAAGATAACACAGATGGGAATGTTACTCCAAG
1 AGCTGTTTTATACTTAAGAAAATTTTGAAAGATAACACAGCTGGG-ATGTTACTCCAAG
* * **
47288245 AGCTATTTTATACTTAAGAAAATTTTGACAA-ATAACACAGCCGGGGATGTTACTCCGTG
1 AGCTGTTTTATACTTAAGAAAATTTTGA-AAGATAACACAG-CTGGGATGTTACTCCAAG
* *
47288304 AGCTTTTTTATACTTAAGAAAATTTTGAAATATAACACA
1 AGCTGTTTTATACTTAAGAAAATTTTGAAAGATAACACA
47288343 ATTGAGAGTT
Statistics
Matches: 136, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
58 39 0.29
59 92 0.68
60 5 0.04
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (58 bp):
AGCTGTTTTATACTTAAGAAAATTTTGAAAGATAACACAGCTGGGATGTTACTCCAAG
Found at i:47302867 original size:152 final size:153
Alignment explanation
Indices: 47302678--47303323 Score: 868
Period size: 152 Copynumber: 4.2 Consensus size: 153
47302668 CAATTGTTCG
* * * * *
47302678 TATTTTGGCCCTTTGTTCGTATCTTTTTT-TCGGATTTTATTACTTTTAAAAAATATATTATTTT
1 TATTTCGGCCCTATGTTCGTAT-TTTTTTCCCAGATTTTATTACTTTTAAAAAATATACTATTTT
*
47302742 TAATTTTTA-AATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTT
65 TAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTT
47302806 TTAAATAAATTTAAAAAAAAACCT
130 TTAAATAAATTTAAAAAAAAACCT
*
47302830 TATTTCGGCCCTATGTTCGT-TTTTTTTCCTCAAATTTTATTACTTTTAAAAAA-ATACTATTTT
1 TATTTCGGCCCTATGTTCGTATTTTTTTCC-CAGATTTTATTACTTTTAAAAAATATACTA-TTT
* *
47302893 TTAATTTTT-TTATTTTGCATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTT
64 TTAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTT
*
47302957 TTTAAATAAA-TT-AAAAAAATCCT
129 TTTAAATAAATTTAAAAAAAAACCT
* * * * *
47302980 TATTTCGGCCATTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTA-TT
1 TATTTCGGCCCTATGTTCGTATTTTTTTCCCAGATTTTATTACTTT-TA-AAAAATATACTATTT
* *
47303044 TTCATATTTTATTATTTTACATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTT
64 TTAAT-TTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTT
*
47303109 TTTTAAATAAATTTAAAAAAAATCCT
128 TTTTAAATAAATTTAAAAAAAAACCT
* * *
47303135 TATTTCGG--CAAT-TTCGTATTTTTTTCCCTAGAGTTAATTAC-TTTAAAAAATATACTATTTT
1 TATTTCGGCCCTATGTTCGTATTTTTTTCCC-AGATTTTATTACTTTTAAAAAATATACTATTTT
* * * *
47303196 CTAA-TTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
65 -TAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTT
47303260 TTTAAATAAATTTAAAAAAAAACTCT
129 TTTAAATAAATTTAAAAAAAAAC-CT
* * *
47303286 TATTTCGGCCTTTTGTTCGTATTTTTTTCCCGGATTTT
1 TATTTCGGCCCTATGTTCGTATTTTTTTCCCAGATTTT
47303324 TACTTTCAAT
Statistics
Matches: 434, Mismatches: 41, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
150 137 0.32
151 37 0.09
152 140 0.32
153 83 0.19
154 18 0.04
155 19 0.04
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (153 bp):
TATTTCGGCCCTATGTTCGTATTTTTTTCCCAGATTTTATTACTTTTAAAAAATATACTATTTTT
AATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTT
TAAATAAATTTAAAAAAAAACCT
Found at i:47303088 original size:153 final size:152
Alignment explanation
Indices: 47302678--47303323 Score: 873
Period size: 150 Copynumber: 4.2 Consensus size: 152
47302668 CAATTGTTCG
* * * * *
47302678 TATTTTGGCCCTTTGTTCGTATCTTTTTT-TCGGATTTTATTACTTTTAAAAAATATATTATTTT
1 TATTTCGGCCATTTGTTCGTAT-TTTTTTCCCAGATTTTATTACTTTAAAAAAATATATTATTTT
* *
47302742 TAATTTT-TAAATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTT
65 CAATTTTAT-TATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTT
47302806 TTAAATAAATTTAAAAAAAAACCT
129 TTAAATAAATTTAAAAAAAAACCT
* * *
47302830 TATTTCGGCCCTATGTTCGT-TTTTTTTCCTCAAATTTTATTACTTTTAAAAAAATACTATT-TT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCC-CAGATTTTATTAC-TTTAAAAAAATA-TATTATT
* * *
47302893 TT-AATTTTTTTATTTTGCATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTT
63 TTCAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTT
*
47302957 TTTAAATAAA-TT-AAAAAAATCCT
128 TTTAAATAAATTTAAAAAAAAACCT
*
47302980 TATTTCGGCCATTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTT-AA-AAAAATATATTATTT
*
47303045 TCATATTTTATTATTTTACATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTT
64 TCA-ATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTT
*
47303110 TTTAAATAAATTTAAAAAAAATCCT
128 TTTAAATAAATTTAAAAAAAAACCT
* * * *
47303135 TATTTCGG-CA-AT-TTCGTATTTTTTTCCCTAGAGTTAATTACTTT-AAAAAATATACTATTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCC-AGATTTTATTACTTTAAAAAAATATATTATTTT
* * * *
47303196 CTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
65 C-AATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTT
47303261 TTAAATAAATTTAAAAAAAAACTCT
129 TTAAATAAATTTAAAAAAAAAC-CT
* *
47303286 TATTTCGGCCTTTTGTTCGTATTTTTTTCCCGGATTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTT
47303324 TACTTTCAAT
Statistics
Matches: 441, Mismatches: 34, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
149 3 0.01
150 146 0.33
151 34 0.08
152 113 0.26
153 102 0.23
154 24 0.05
155 19 0.04
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (152 bp):
TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAAATATATTATTTTC
AATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTT
AAATAAATTTAAAAAAAAACCT
Found at i:47303592 original size:149 final size:150
Alignment explanation
Indices: 47303335--47303743 Score: 583
Period size: 150 Copynumber: 2.7 Consensus size: 150
47303325 ACTTTCAATA
* *
47303335 AAAAGAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-
1 AAAA-AACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAAT
* * * **
47303399 TTAGAAAATAATA-TATTTTTAAAAGTAATAAAATCCGGGAAAAAATACGAACAAAAGGTTGAAA
65 TTA-AAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAGAAAAAATACGAACAAAAGGCCGAAA
47303463 TAAG-GATTTTTTTAATTTATTT
129 TAAGAG-TTTTTTTAATTTATTT
47303485 AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAATT
1 AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAATT
* * * * *
47303550 TAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCTAGAAAAAATATGAATACAGGGCCGAAATA
66 TAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAGAAAAAATACGAACAAAAGGCCGAAATA
47303615 AGAGTTTTTTTAATTTATTT
131 AGAGTTTTTTTAATTTATTT
* * * **
47303635 -AAAAATACAGTAAATTAATACATTTCAAATATAATGTACTAAAATAATTTAAAATTTTAAAAAT
1 AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAA-TAAAAAAAT
* *
47303699 TTAAAAATAGTATATTTTTTAAAAATAATAAAATCCGAGAAAAAA
65 TTAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAGAAAAAA
47303744 ATATAAATAA
Statistics
Matches: 235, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
149 116 0.49
150 118 0.50
151 1 0.00
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (150 bp):
AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAATT
TAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAGAAAAAATACGAACAAAAGGCCGAAATA
AGAGTTTTTTTAATTTATTT
Found at i:47303697 original size:150 final size:151
Alignment explanation
Indices: 47303335--47303757 Score: 588
Period size: 149 Copynumber: 2.8 Consensus size: 151
47303325 ACTTTCAATA
* *
47303335 AAAAGAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT-AAAA
1 AAAA-AACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTATAAAAA
* * * * * * **
47303399 -TTAGAAAATAATA-TATTTTTAAAAGTAATAAAATCCGGGAAAAAATACGAACAAAAGGTTGAA
65 TTTA-AAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAGAAAAAATATGAATAAAGGGCCGAA
47303462 ATAAGGATTTTTTTAATTTATTT
129 ATAAGGATTTTTTTAATTTATTT
*
47303485 AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAA-TAAAAAAAT
1 AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTATAAAAAT
* *
47303549 TTAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCTAGAAAAAATATGAATACAGGGCCGAAAT
66 TTAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAGAAAAAATATGAATAAAGGGCCGAAAT
47303614 AA-GAGTTTTTTTAATTTATTT
131 AAGGA-TTTTTTTAATTTATTT
* * * *
47303635 -AAAAATACAGTAAATTAATACATTTCAAATATAATGTACTAAAATAATTTAAAATTTTAAAAAT
1 AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTATAAAAAT
* * *
47303699 TTAAAAATAGTATATTTTTTAAAAATAATAAAATCCGAGAAAAAAATATAAATAAAGGG
66 TTAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAG-AAAAAATATGAATAAAGGG
47303758 TCAAAATATA
Statistics
Matches: 244, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
148 1 0.00
149 115 0.47
150 111 0.45
151 17 0.07
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (151 bp):
AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTATAAAAAT
TTAAAAATAGTATTTTTTTTAAAAGTAATAAAATCCGAGAAAAAATATGAATAAAGGGCCGAAAT
AAGGATTTTTTTAATTTATTT
Found at i:47312036 original size:15 final size:15
Alignment explanation
Indices: 47312000--47312038 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
47311990 GCAAATATCG
*
47312000 TGATAACAAATACAA
1 TGATAATAAATACAA
47312015 T-AGTAATAAATACAA
1 TGA-TAATAAATACAA
47312030 TGATAATAA
1 TGATAATAA
47312039 TTTTAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (15 bp):
TGATAATAAATACAA
Found at i:47314023 original size:44 final size:44
Alignment explanation
Indices: 47313975--47314453 Score: 181
Period size: 44 Copynumber: 11.0 Consensus size: 44
47313965 GAGACAGGAT
47313975 TTGTTCA-TTCAGTCTG-TCGCACTGCAACTTC-AGGAGGATAAGAC
1 TTGTTCACTT-AGTCTGCTC-CACTGCAACTTCAAGGA-GATAAGAC
*
47314019 TTGTTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC
1 TTGTTCACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC
* * * * * **
47314063 TAGAT-GC-GA-TATGCT-TTCTGCAACTTC-AGAGAGATAAGATCC
1 TTGTTCACTTAGTCTGCTCCACTGCAACTTCAAG-GAGATAAGA--C
** * * * *
47314105 AAGATT---TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-
1 TTG-TTCACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC
* * * * * *
47314146 TT-ATCGGCTTTAATCTGCTACACTGCAACTTCAAGAAGATAAGAT
1 TTGTTC-AC-TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC
*
47314191 TTG-CCATCTTCAGTCTGC-CTCACTGCAACTTC-AGGAGAATAAGAC
1 TTGTTCA-CTT-AGTCTGCTC-CACTGCAACTTCAAGGAG-ATAAGAC
*
47314236 TTGCTT-ATTTAGTCTGCTCCACTGCAACTTC-AGGAAGATAAGAC
1 TTG-TTCACTTAGTCTGCTCCACTGCAACTTCAAGG-AGATAAGAC
*** * * * * *
47314280 TAAAT-GC--GGTCTGCT-CTCTACAACTT-TAGAGAGATAAGATCC
1 TTGTTCACTTAGTCTGCTCCACTGCAACTTCAAG-GAGATAAGA--C
** * * *
47314322 AAGGTT---TTAATCCGCTCCACTGCAACTTCAAGGAGATAAGAT
1 -TTGTTCACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC
* *
47314364 TTG-CCATCTTCAGTCTGC-CTCACTGCAACTT-TAGGAGGATAAGAC
1 TTGTTCA-CTT-AGTCTGCTC-CACTGCAACTTCAAGGA-GATAAGAC
**
47314409 TTGTTTGCTTAGTCTGCTCCACTGCAACTTC-AGAGAGATAAGAC
1 TTGTTCACTTAGTCTGCTCCACTGCAACTTCAAG-GAGATAAGAC
47314453 T
1 T
47314454 AGATGCAATC
Statistics
Matches: 327, Mismatches: 62, Indels: 92
0.68 0.13 0.19
Matches are distributed among these distances:
39 3 0.01
40 38 0.12
41 14 0.04
42 6 0.02
43 13 0.04
44 173 0.53
45 79 0.24
46 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
TTGTTCACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC
Found at i:47314259 original size:89 final size:87
Alignment explanation
Indices: 47314154--47314451 Score: 313
Period size: 89 Copynumber: 3.4 Consensus size: 87
47314144 GATTATCGGC
*
47314154 TTTAATCTGCTACACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
*
47314219 CTTCAGGAGAATAAGACTTGCTT
66 CTTTAGGAGAATAAGACTTG-TT
* * * ** * * * *
47314242 ATTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGA----CTAAATGCGGTCTG-CTCTCTACA
1 -TTTAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCA
** *
47314302 ACTTTA-GAGAGATAAGATCCAAGGT
65 ACTTTAGGAGA-ATAAGA--CTTGTT
* *
47314327 TTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
*
47314392 CTTTAGGAGGATAAGACTTGTT
66 CTTTAGGAGAATAAGACTTGTT
*
47314414 TGCTTAGTCTGCTCCACTGCAACTTC-AGAGAGATAAGA
1 T--TTAATCTGCTCCACTGCAACTTCAAGA-AGATAAGA
47314452 CTAGATGCAA
Statistics
Matches: 165, Mismatches: 32, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
83 4 0.02
84 50 0.30
85 10 0.06
86 2 0.01
87 4 0.02
88 11 0.07
89 81 0.49
90 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (87 bp):
TTTAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
CTTTAGGAGAATAAGACTTGTT
Found at i:47314333 original size:173 final size:173
Alignment explanation
Indices: 47314154--47314493 Score: 547
Period size: 173 Copynumber: 2.0 Consensus size: 173
47314144 GATTATCGGC
*
47314154 TTTAATCTGCTACACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCGCTACACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
*
47314219 CTTCAGGAGAATAAGACTTGCTTATTTAGTCTGCTCCACTGCAACTTCAG-GAAGATAAGACTAA
66 CTTCAGGAGAATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAG-AGATAAGACTAA
** *
47314283 ATGCGGTCTGCTCTCTACAACTTTAGAGAGATAAGATCCAAGGT
130 ATGCAATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAAGGT
* *
47314327 TTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCGCTACACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
* * * * *
47314392 CTTTAGGAGGATAAGACTTGTTTGCTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGA
66 CTTCAGGAGAATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAAA
*
47314457 TGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATC
131 TGCAATCTGCTCTCTACAACTTCAGAGAGATAAGATC
47314494 TGTGATTTTT
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
173 152 0.99
174 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (173 bp):
TTTAATCCGCTACACTGCAACTTCAAGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
CTTCAGGAGAATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAAA
TGCAATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAAGGT
Found at i:47314425 original size:217 final size:216
Alignment explanation
Indices: 47313982--47314453 Score: 616
Period size: 217 Copynumber: 2.2 Consensus size: 216
47313972 GATTTGTTCA
* * *
47313982 TTCAGTCTGTCGCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAAC
1 TTCAGTCTG-CTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
* * *
47314047 TTCAAGGAGATAAGACTAGATGCGATATGCTTTCTGCAACTTCAGAGAGATAAGATCCAAGATTT
65 TTCAAGGAGATAAGACTAAATGCGATATGCTCTCTACAACTTCAGAGAGATAAGATCCAAGATTT
* * *
47314112 TAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTACACTGCAACTT
130 TAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTATCGCCTTTAATCTGCTACACTGCAACTT
*
47314177 CAAGAAGATAAGATTTGCCATC
195 CAAGAAGATAAGACTTGCCATC
*
47314199 TTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTATTTAGTCTGCTCCACTGCAAC
1 TTCAGTCTG-CTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
* * * *
47314264 TTC-AGGAAGATAAGACTAAATGCGGTCTGCTCTCTACAACTTTAGAGAGATAAGATCCAAGGTT
65 TTCAAGG-AGATAAGACTAAATGCGATATGCTCTCTACAACTTCAGAGAGATAAGATCCAAGATT
*
47314328 TTAATCCGCTCCACTGCAACTTCAAGGAGATAAGATT-T-GCCATCTTCAGTCTGCCT-CACTGC
129 TTAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTATCGCC-T-TT-AATCTG-CTACACTGC
* * * **
47314390 AACTTTAGGAGGATAAGACTTG-TTTGC
190 AACTTCAAGAAGATAAGACTTGCCAT-C
47314417 TT-AGTCTGCTCCACTGCAACTTCA-GAGAGATAAGACT
1 TTCAGTCTGCT-CACTGCAACTTCAGGAGA-ATAAGACT
47314454 AGATGCAATC
Statistics
Matches: 225, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
215 2 0.01
216 11 0.05
217 178 0.79
218 32 0.14
219 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (216 bp):
TTCAGTCTGCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACT
TCAAGGAGATAAGACTAAATGCGATATGCTCTCTACAACTTCAGAGAGATAAGATCCAAGATTTT
AATCCGCTCCACTGCAACTTCAAGGAGATAAGATTATCGCCTTTAATCTGCTACACTGCAACTTC
AAGAAGATAAGACTTGCCATC
Found at i:47322718 original size:24 final size:24
Alignment explanation
Indices: 47322690--47322735 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47322680 ATCATTTTTT
* *
47322690 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
47322714 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
47322736 GACTGTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:47326495 original size:15 final size:15
Alignment explanation
Indices: 47326459--47326497 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
47326449 GCAAATATTG
*
47326459 TGATAACAAATACAA
1 TGATAATAAATACAA
47326474 T-AGTAATAAATACAA
1 TGA-TAATAAATACAA
47326489 TGATAATAA
1 TGATAATAA
47326498 TTTTAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (15 bp):
TGATAATAAATACAA
Found at i:47332430 original size:16 final size:16
Alignment explanation
Indices: 47332409--47332454 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
47332399 AAATGGGTTG
47332409 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
47332425 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
47332441 --AAAATTAATTTAAT
1 AGAAAATT-ATTTAAT
47332455 AACTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:47356953 original size:53 final size:53
Alignment explanation
Indices: 47356892--47356993 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
47356882 TTTCTAACAA
*
47356892 AATTTTAATACTAACTCCATGACACTCCGTATTCATATACTAAGTTGGTCTAG
1 AATTTTAATACTAACTCAATGACACTCCGTATTCATATACTAAGTTGGTCTAG
*
47356945 AATTTTAATACTAACTCAATGACACTCTGTATTCATATACTAAGTTGGT
1 AATTTTAATACTAACTCAATGACACTCCGTATTCATATACTAAGTTGGT
47356994 TTTAAATTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (53 bp):
AATTTTAATACTAACTCAATGACACTCCGTATTCATATACTAAGTTGGTCTAG
Found at i:47359621 original size:29 final size:27
Alignment explanation
Indices: 47359564--47359624 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
47359554 ATAATTTTTT
* *
47359564 AATTTTAAATAATTTTTAAAAATTTAA
1 AATTTTAAATAATTTTTAAAAAATAAA
47359591 AATTTT-AATAATTTTTATTAAAAAATAAA
1 AATTTTAAATAA--TTT-TTAAAAAATAAA
47359620 AATTT
1 AATTT
47359625 AATCTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 6 0.21
28 3 0.10
29 15 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTTTAAATAATTTTTAAAAAATAAA
Found at i:47365225 original size:43 final size:43
Alignment explanation
Indices: 47365121--47365365 Score: 266
Period size: 43 Copynumber: 5.7 Consensus size: 43
47365111 GTTTATAAAT
* * * * * *
47365121 AAACGCCGCTAAAGGTCAGGGTGTTTAGCGGCGT-TTTC-CTAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGC-TCTTTCTCCAC
* * *
47365163 AAAAGCCGCTAAAGGTCATGTTCTTTAGCGGCTCTTTCTCAAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCTCTTTCTCCAC
*
47365206 AAACGCCGCTAAAGATCATGTTCTTTAGCGG-TGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCT-CTTTCTCCAC
* * *
47365249 AAACGCCGCTAAAGATCATGTTCCTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCTCTTTCTCCAC
* *
47365292 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTCTTCCGC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCTCTTTC-TCCAC
*
47365335 AAACGCCACTAAATG-TCATGTTCTTTTAGCG
1 AAACGCCGCTAAA-GATCATGTTC-TTTAGCG
47365366 ACATTTGTGT
Statistics
Matches: 180, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 35 0.19
43 136 0.76
44 8 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCTCTTTCTCCAC
Found at i:47365354 original size:129 final size:129
Alignment explanation
Indices: 47365121--47365365 Score: 318
Period size: 129 Copynumber: 1.9 Consensus size: 129
47365111 GTTTATAAAT
* ** *
47365121 AAACGCCGCTAAAGGTCAGGGTGTTTAGCGGCGTTTTCCTAAAAAAGCCGCTAAAGGTCATGTTC
1 AAACGCCGCTAAAGATCAGGGTCCTTAGCGGCGTTTTCCTAAAAAAGCCGCTAAAGATCATGTTC
* *
47365186 TTTAGCGGCTCTTTCTCAACAAACGCCGCTAAAGATCATGTTC-TTTAGCGGTGCTTTTTCCAC
66 TTTAGCGGCGCTTTCTCAACAAACGCCACTAAAGATCATGTTCTTTTAGCGGTGCTTTTTCCAC
* * * *
47365249 AAACGCCGCTAAAGATCATGTTCCTTAGCGGCGCTTTTTCC-ACAAACGCCGCTAAAGATCATGT
1 AAACGCCGCTAAAGATCAGGGTCCTTAGCGGCG--TTTTCCTAAAAAAGCCGCTAAAGATCATGT
**
47365313 TCTTTAGCGGCGC-TTCTTCCGCAAACGCCACTAAATG-TCATGTTCTTTTAGCG
64 TCTTTAGCGGCGCTTTC-TCAACAAACGCCACTAAA-GATCATGTTCTTTTAGCG
47365366 ACATTTGTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
128 31 0.31
129 55 0.55
130 14 0.14
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (129 bp):
AAACGCCGCTAAAGATCAGGGTCCTTAGCGGCGTTTTCCTAAAAAAGCCGCTAAAGATCATGTTC
TTTAGCGGCGCTTTCTCAACAAACGCCACTAAAGATCATGTTCTTTTAGCGGTGCTTTTTCCAC
Found at i:47365866 original size:87 final size:87
Alignment explanation
Indices: 47365722--47365898 Score: 246
Period size: 87 Copynumber: 2.0 Consensus size: 87
47365712 TTCTGCTCTG
* * * * *
47365722 CTCTGCTTCCTTCGCTGCAGCGTCTGCTTCTCTCGATGCCACATCTGGTTTACGTTGTAGCTGGA
1 CTCTGATTCCTTCGCTGCAGCCTCTGCTTCCCTCGATGCCACATCTGCTTTAAGTTGTAGCTGGA
*
47365787 GTTCTTCATATTTATTTTGAAC
66 GTTCTTCATATTTACTTTGAAC
* * * * *
47365809 CTCTGATTCTTTCGCTGCAGCCTTTGCTTCCCTCGCTGCCGCCTCTGCTTTAAGTTGTAGCTGGA
1 CTCTGATTCCTTCGCTGCAGCCTCTGCTTCCCTCGATGCCACATCTGCTTTAAGTTGTAGCTGGA
*
47365874 GTTCTTCATATTTCCTTTGAAC
66 GTTCTTCATATTTACTTTGAAC
47365896 CTC
1 CTC
47365899 AACTGTGGTC
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (87 bp):
CTCTGATTCCTTCGCTGCAGCCTCTGCTTCCCTCGATGCCACATCTGCTTTAAGTTGTAGCTGGA
GTTCTTCATATTTACTTTGAAC
Found at i:47371298 original size:52 final size:52
Alignment explanation
Indices: 47371212--47371316 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
47371202 ACCATTTCGG
*
47371212 AAACTATTAAAACCTATTTGTGGCGATTTCTGCTGAAGCGCCACTAAAGTAT
1 AAACTATTAAAACCTATTTGTGGCAATTTCTGCTGAAGCGCCACTAAAGTAT
*
47371264 AAACTATTAAAACCTATTTGTGGCAATTTTTGCTGAAGCGCCACTAAAGTAT
1 AAACTATTAAAACCTATTTGTGGCAATTTCTGCTGAAGCGCCACTAAAGTAT
47371316 A
1 A
47371317 GTCGTTTTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (52 bp):
AAACTATTAAAACCTATTTGTGGCAATTTCTGCTGAAGCGCCACTAAAGTAT
Found at i:47372664 original size:114 final size:113
Alignment explanation
Indices: 47372463--47372800 Score: 453
Period size: 114 Copynumber: 2.9 Consensus size: 113
47372453 GGGATCCCAA
* * *
47372463 AGCATTAGTGGCGCTGTATTAAAAACGCCGCTAAATCCTCCGAAAGGTCAGAAAACGACGTCGTT
1 AGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCC-CCGAAAGGTCAGAAAACGACGTCGTT
* * *
47372528 GGGCTTATGTCTTTTAGCGGCGCTCTACCAAAAACGCCGCTAAAGCCCTG
65 GGGCTTAGGTTTTTTTGCGGCGCT-TACCAAAAACGCCGCTAAAGCCCTG
*
47372578 AGCATTAGCGGCGCTTTCTTAAAAACGCTGCTAAATCCCCGAAAGGTCAGAAAACGACGTCGTTG
1 AGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGGTCAGAAAACGACGTCGTTG
**
47372643 GGCTTAGGTTTTTTTGCGGCGCATTGTCAAAAACGCCGCTAAAGCCCTG
66 GGCTTAGGTTTTTTTGCGGCGC-TTACCAAAAACGCCGCTAAAGCCCTG
* * * * *
47372692 AGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAAGATCAGAAAAC-AGTGTTGT
1 AGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCC-GAAAGGTCAGAAAACGA-CGTCGT
* * * *
47372756 TGGGCTTAGGTTTTCTTGCGGTGCTTTCTCAAAAACACCGCTAAA
64 TGGGCTTAGGTTTTTTTGCGGCGCTTAC-CAAAAACGCCGCTAAA
47372801 TCCCCGAATG
Statistics
Matches: 199, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
114 110 0.55
115 89 0.45
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (113 bp):
AGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGGTCAGAAAACGACGTCGTTG
GGCTTAGGTTTTTTTGCGGCGCTTACCAAAAACGCCGCTAAAGCCCTG
Found at i:47372838 original size:73 final size:72
Alignment explanation
Indices: 47372703--47372945 Score: 315
Period size: 73 Copynumber: 3.3 Consensus size: 72
47372693 GCATTAGCGA
* * * *
47372703 CGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAAGATCAGAAAACAGTGTTGTTGGGCTTAGGTT
1 CGCTTTCTCAAAAACGCCGCTAAATCCCC-GAATGATCAGAAAACGGTGTTGTTGGGCTTAGGTT
47372768 TTCTTGCGG
65 TT-TTGCGG
* * *
47372777 TGCTTTCTCAAAAACACCGCTAAATCCCCGAATGGTCAGAAAACGGTGTTGTTGGGCTTAGGTTT
1 CGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGATCAGAAAACGGTGTTGTTGGGCTTAGG-TT
47372842 TTTTGCGG
65 TTTTGCGG
* ** * * * **
47372850 CACTTTCTCAAAATTGCCGCTAAATCCCCGAATGCTTAGAAAACGGCGTCATTGGGCTTAGGTTT
1 CGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGATCAGAAAACGGTGTTGTTGGGCTTAGGTTT
47372915 TTTGCGG
66 TTTGCGG
*
47372922 CGCTTTCTCAAAAACGCCACTAAA
1 CGCTTTCTCAAAAACGCCGCTAAA
47372946 GCCCTGTGCA
Statistics
Matches: 147, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
72 30 0.20
73 87 0.59
74 30 0.20
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (72 bp):
CGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGATCAGAAAACGGTGTTGTTGGGCTTAGGTTT
TTTGCGG
Found at i:47373097 original size:72 final size:73
Alignment explanation
Indices: 47372963--47373216 Score: 314
Period size: 72 Copynumber: 3.3 Consensus size: 73
47372953 GCATTAGCGA
* *
47372963 CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCATTGGGCTTAGGTTT
1 CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
47373028 TTTTGCGG
66 TTTTGCGG
* *
47373036 CGCTTTCTCAAAAACGCCGCTAAAT-CCCGAATGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTT
1 CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG---
47373100 TTTTTGCGGCGTTTTTGGCGG
63 ---TT------TTTTT-GCGG
* *
47373121 CGCTTCCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAATGGCGTCGTTGGGCTTAGG-TT
1 CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
47373185 TTTTGCGG
66 TTTTGCGG
*
47373193 CGCTTTCTCAAAAACGCCGCTAAA
1 CGCTTCCTCAAAAACGCCGCTAAA
47373217 GCCCTGAACA
Statistics
Matches: 157, Mismatches: 10, Indels: 29
0.80 0.05 0.15
Matches are distributed among these distances:
72 59 0.38
73 29 0.18
78 2 0.01
79 1 0.01
84 5 0.03
85 27 0.17
86 34 0.22
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (73 bp):
CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
TTTTGCGG
Found at i:47373173 original size:86 final size:85
Alignment explanation
Indices: 47373026--47373188 Score: 272
Period size: 86 Copynumber: 1.9 Consensus size: 85
47373016 GGGCTTAGGT
* *
47373026 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCGAATGCTCAGAAAACGGCGTCGTTGAG
1 TTTTTGGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCGAATGCTCAGAAAACGGCGTCGTTGAG
47373091 CTTAGGTTTTTTTTGCGGCG
66 CTTAGGTTTTTTTTGCGGCG
* * *
47373111 TTTTTGGCGGCGCTTCCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAATGGCGTCGTTGG
1 TTTTTGGCGGCGCTTCCTCAAAAACGCCGCTAAAT-CCCGAATGCTCAGAAAACGGCGTCGTTGA
47373176 GCTTAGGTTTTTT
65 GCTTAGGTTTTTT
47373189 GCGGCGCTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
85 32 0.44
86 40 0.56
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (85 bp):
TTTTTGGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCGAATGCTCAGAAAACGGCGTCGTTGAG
CTTAGGTTTTTTTTGCGGCG
Found at i:47373199 original size:271 final size:259
Alignment explanation
Indices: 47372585--47373328 Score: 999
Period size: 271 Copynumber: 2.8 Consensus size: 259
47372575 CTGAGCATTA
* * * * * *
47372585 GCGGCGCTTTCTTAAAAACGCTGCTAAATCCCCGAAAGGTCAGAAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
* * * *
47372650 GTTTTTTTGCGGCGCATTGTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAA
66 G-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCTCAAA
* * * * * * *
47372715 AACGCCGCTAAATCCCCAAAAAGATCAGAAAAC-AGTGTTGTTGGGCTTAGGTTTTCTTGCGGTG
130 AACGCCGCTAAATCCCC-GAATGCTCAGAAAACGA-CGTCGTTGGGCTTAGGTTTTTTTGCGGCG
* * * * *
47372779 CTTTCTCAAAAACACCGCTAAATCCCCGAATGGTCAGAAAACGGTGTTGTTGGGCTTAGGTTTTT
193 CTTTCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTTTT
47372844 TT
258 TT
* * * *
47372846 GCGGCACTTTCTCAAAATTGCCGCTAAATCCCCGAATGCTTAGAAAACGGCGTCATTGGGCTTAG
1 GCGGCGCTTTCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
* *
47372911 GTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAAGCCCTGTGCATTAGCGACGCTTCCTCAAAA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCTCAAAA
*
47372976 ACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCATTGGGCTTAGGTTTTTTTGCGGCGCTT
131 ACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTT
47373041 TCTCAAAAACGCCGCTAAAT-CCCGAATGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTTT
196 TCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGAGCTTAGG------TT
47373105 GCGGCGTTTTT
255 ------TTTTT
* *
47373116 GGCGGCGCTTCCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAATGGCGTCGTTGGGCTTA
1 -GCGGCGCTTTCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTA
* *
47373181 GGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTCCTCAAA
65 GGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCTCAAA
* *
47373246 AACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCT
130 AACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCT
*
47373310 TTCTGAAAAACGCCGCTAA
195 TTCTCAAAAACGCCGCTAA
47373329 TGCTTATTTT
Statistics
Matches: 426, Mismatches: 43, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
258 32 0.08
259 58 0.14
260 75 0.18
261 56 0.13
264 2 0.00
270 37 0.09
271 166 0.39
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (259 bp):
GCGGCGCTTTCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCTCAAAA
ACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTT
TCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTT
Found at i:47373319 original size:113 final size:113
Alignment explanation
Indices: 47373117--47373328 Score: 388
Period size: 113 Copynumber: 1.9 Consensus size: 113
47373107 GGCGTTTTTG
* *
47373117 GCGGCGCTTCCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAATGGCGTCGTTGGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
47373182 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTA
*
47373230 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
47373295 GTTTTTTGCGGCGCTTTCTGAAAAACGCCGCTAA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
47373329 TGCTTATTTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 95 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (113 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTA
Found at i:47380116 original size:3 final size:3
Alignment explanation
Indices: 47380102--47380139 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
47380092 CGACCATGAA
*
47380102 GAG GAA GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
47380140 AGCGTGAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:47381403 original size:20 final size:20
Alignment explanation
Indices: 47381314--47381405 Score: 68
Period size: 20 Copynumber: 4.6 Consensus size: 20
47381304 AATTTAGAAA
*
47381314 ATTTATTATACATTAT-TAAT
1 ATTTATTA-AAATTATATAAT
*
47381334 ATGTTATGAAAA-TATTATAAT
1 AT-TTATTAAAATTA-TATAAT
**
47381355 ATTT-TGGAAATTATATAGA-
1 ATTTATTAAAATTATATA-AT
47381374 ATATTA-TAAAATTATATAAT
1 AT-TTATTAAAATTATATAAT
47381394 ATTTATTAAAAT
1 ATTTATTAAAAT
47381406 GATAAAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
19 17 0.29
20 30 0.52
21 11 0.19
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTTATTAAAATTATATAAT
Found at i:47387411 original size:5 final size:6
Alignment explanation
Indices: 47387394--47387419 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47387384 AATATTTAAC
47387394 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
47387420 GTATTATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:47389533 original size:98 final size:98
Alignment explanation
Indices: 47389354--47389550 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
47389344 GTACAATAAA
*
47389354 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
47389419 CCTCTAGAATCTCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
47389452 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
47389517 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
47389550 A
1 A
47389551 TAATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:47391978 original size:173 final size:175
Alignment explanation
Indices: 47391586--47392014 Score: 530
Period size: 173 Copynumber: 2.5 Consensus size: 175
47391576 TGGTGTCTCG
* * * *
47391586 ATCCACTCCACTGTAACATC-GAGGAGATAGGATTAAT-ATG-TTTAGTCTGTCCCACAGCAATT
1 ATCCACTCCACTGTAACTTCAG-GGAGATAGGATT-ATCA-GCTTTAATCTGTTCCACAGCAACT
* * *
47391648 TCAAGGG-GATAAGACTTGCTTTCTTGAGTTTACTCCACTGCAACTTCAGGGAGATTAAGACCCG
63 TC-AGGGAGATAAGATTTGCTTTCTTGAGTTTACTCCACTACAACTTCAGGGAGATTAAGACCAG
** *
47391712 ATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTATA
127 ATACGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGAGGTTATA
* * * * * * * *
47391761 ATCCGCTTCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGTTCCGCTGCAACTTCA
1 ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGTTCCACAGCAACTTCA
* *
47391826 GGGAGATAAGATTTGCTTTGCTT-AGTTTGCTCCACTACAACTTCAGGGAGA-TAAGACTAGATA
66 GGGAGATAAGATTTGCTTT-CTTGAGTTTACTCCACTACAACTTCAGGGAGATTAAGACCAGATA
* *
47391889 CGATCTACTCT-CTGCATCTTCAGAGAGATAAGATCTGAGGTTTTA
130 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGAGGTTATA
* * * *
47391934 ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCAGCTTTAATTTGCTCCACCGTAACTTCA
1 ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGTTCCACAGCAACTTCA
47391999 GGGAGATAAGATTTGC
66 GGGAGATAAGATTTGC
47392015 CATCTTCAGT
Statistics
Matches: 216, Mismatches: 33, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
173 101 0.47
174 25 0.12
175 86 0.40
176 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (175 bp):
ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGTTCCACAGCAACTTCA
GGGAGATAAGATTTGCTTTCTTGAGTTTACTCCACTACAACTTCAGGGAGATTAAGACCAGATAC
GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGAGGTTATA
Found at i:47392043 original size:173 final size:174
Alignment explanation
Indices: 47391680--47392056 Score: 474
Period size: 173 Copynumber: 2.2 Consensus size: 174
47391670 CTTGAGTTTA
** **
47391680 CTCCACTGCAACTTCAGGGAGATTAAGACCCGATGTGATCTACTCTACTGCAACTTCAGAGAGAT
1 CTCCACTGCAACTTCAGGGAGA-TAAGACTAGATACGATCTACTCTACTGCAACTTCAGAGAGAT
* * * * *
47391745 AAGATCTGTGGTTATAATCCGCTTCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTG
65 AAGATCTGAGGTTATAATCCACTCCACTGCAACTTCAGGGAGATAGAATTATCAGCTTTAATCTG
* * * ** *
47391810 TTCCGCTGCAACTTCAGGGAGATAAGATTTGCTTTGCTTAGTTTG
130 CTCCACCGCAACTTCAGGGAGATAAGATTTGCCATGCTTAGTCTG
* *
47391855 CTCCACTACAACTTCAGGGAGATAAGACTAGATACGATCTACTCT-CTGCATCTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTACTCTACTGCAACTTCAGAGAGATA
* * * *
47391919 AGATCTGAGGTTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCAGCTTTAATTTGC
66 AGATCTGAGGTTATAATCCACTCCACTGCAACTTCAGGGAGATAGAATTATCAGCTTTAATCTGC
*
47391984 TCCACCGTAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTG
131 TCCACCGCAACTTCAGGGAGATAAGATTTGCCATGCTT-AGTCTG
* *
47392028 C-CTCACTGTAACTTCA-AGAGGATAAGACT
1 CTC-CACTGCAACTTCAGGGA-GATAAGACT
47392057 TGCTTTGCTT
Statistics
Matches: 174, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
172 6 0.03
173 128 0.74
174 19 0.11
175 21 0.12
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (174 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTACTCTACTGCAACTTCAGAGAGATA
AGATCTGAGGTTATAATCCACTCCACTGCAACTTCAGGGAGATAGAATTATCAGCTTTAATCTGC
TCCACCGCAACTTCAGGGAGATAAGATTTGCCATGCTTAGTCTG
Found at i:47392097 original size:45 final size:45
Alignment explanation
Indices: 47391627--47392097 Score: 182
Period size: 44 Copynumber: 10.7 Consensus size: 45
47391617 ATTAATATGT
* *
47391627 TTAGTCTG-TCCCACAGCAATTTCAAGGG-GATAAGACTTGCTTT-C
1 TTAGTCTGCT-CCACTGCAACTTC-AGGGAGATAAGACTTGCTTTGC
* * * **
47391671 TTGAGTTTACTCCACTGCAACTTCAGGGAGATTAAGAC--CCGATG-
1 TT-AGTCTGCTCCACTGCAACTTCAGGGAGA-TAAGACTTGCTTTGC
* * * * *
47391715 TGA-TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTG-GTT--
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTTGC
* * * * * **
47391758 ATAATCCGCTTCACTGCAACTTCAGGGAGAT-AGAATTG-TCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTGC
* * * *
47391801 TTTAATCTGTTCCGCTGCAACTTCAGGGAGATAAGATTTGCTTTGC
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTGC
* * * * *
47391847 TTAGTTTGCTCCACTACAACTTCAGGGAGATAAGACTAG--ATAC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTGC
* * * * * **
47391890 -GA-TCTACT-CTCTGCATCTTCAGAGAGATAAGA-TCTGAGGTT--
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-CTTTGC
* ** * * * **
47391931 TTAATCCACTCCACTGTAACTTCAGGGAGATAGGA-TT-ATCAGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTGC
* * * * * **
47391974 TTTAATTTGCTCCACCGTAACTTCAGGGAGATAAGATTTGCCAT-C
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTGC
* *
47392019 TTCAGTCTGC-CTCACTGTAACTTCA-AGAGGATAAGACTTGCTTTGC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTTGC
47392065 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
47392098 AACTAGATGC
Statistics
Matches: 315, Mismatches: 79, Indels: 65
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.00
40 21 0.07
41 11 0.03
42 27 0.09
43 14 0.04
44 114 0.36
45 111 0.35
46 16 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTGC
Found at i:47392237 original size:45 final size:45
Alignment explanation
Indices: 47392176--47392293 Score: 143
Period size: 45 Copynumber: 2.6 Consensus size: 45
47392166 CGGCTTTAAT
* *
47392176 CTGCTCCACCGCAACTTCAGGGAGATAAGATTTGCCAT-CTTTAGC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGC-TTAGC
** *
47392221 CTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTGCTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATGCTTAGC
47392266 CTGCTCCACTGCAACTTCAGGGAGATAA
1 CTGCTCCACTGCAACTTCAGGGAGATAA
47392294 TACTAGATGC
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
44 4 0.06
45 54 0.86
46 5 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTTAGC
Found at i:47406172 original size:23 final size:24
Alignment explanation
Indices: 47406145--47406189 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
47406135 TAGTCATTTA
* *
47406145 TTTTAATTTTTTTATT-TAAAAGT
1 TTTTAAGTTATTTATTATAAAAGT
47406168 TTTTAAGTTATTTATTATAAAA
1 TTTTAAGTTATTTATTATAAAA
47406190 ATAAATGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAAGTTATTTATTATAAAAGT
Found at i:47418570 original size:23 final size:23
Alignment explanation
Indices: 47418538--47418649 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
47418528 CTTTTTGAAC
* *
47418538 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
47418561 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
47418584 CCTTACCAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* * *
47418607 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
47418630 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
47418650 CCCAAAACCG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:47418614 original size:46 final size:46
Alignment explanation
Indices: 47418538--47418649 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
47418528 CTTTTTGAAC
* *
47418538 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
47418584 CCTTACCAATTCGTACCAAATCGTATTACCATTTTGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
47418630 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
47418650 CCCAAAACCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
Found at i:47421238 original size:20 final size:20
Alignment explanation
Indices: 47421213--47421257 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
47421203 GCGAAAATAC
*
47421213 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATCAAA
*
47421233 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATCAAA
47421252 AAAAGA
1 AAAAGA
47421258 GAATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATCAAA
Found at i:47425624 original size:23 final size:23
Alignment explanation
Indices: 47425593--47425703 Score: 125
Period size: 23 Copynumber: 4.8 Consensus size: 23
47425583 TTTTTGAACC
*
47425593 ATTAACATTTCGTACCAAATCGT
1 ATTACCATTTCGTACCAAATCGT
* *
47425616 ATTACCATTTCGAACCAAATCACT
1 ATTACCATTTCGTACCAAATC-GT
*
47425640 -TTACCAATTCGTACCAAATCGT
1 ATTACCATTTCGTACCAAATCGT
* * **
47425662 ATTACCATTTTGAACCAAATCAC
1 ATTACCATTTCGTACCAAATCGT
*
47425685 ATTACCATTTCGTAACAAA
1 ATTACCATTTCGTACCAAA
47425704 CCCAAAACCG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
22 1 0.01
23 70 0.97
24 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (23 bp):
ATTACCATTTCGTACCAAATCGT
Found at i:47425668 original size:46 final size:46
Alignment explanation
Indices: 47425592--47425703 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
47425582 TTTTTTGAAC
* *
47425592 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
47425638 CTTTACCAATTCGTACCAAATCGTATTACCATTTTGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
47425684 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
47425704 CCCAAAACCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
Found at i:47427422 original size:71 final size:71
Alignment explanation
Indices: 47427306--47427448 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
47427296 GGATAGTGTG
47427306 ACTTGAGTGCCAATCTGGTCGTCCAACCTTCCAAGTATATACAATGACATTAAACAACACAAGTA
1 ACTTGAGTGCCAATCTGGTCGTCCAACCTTCCAAGTATATACAATGACATTAAACAACACAAGTA
47427371 AGCTTA
66 AGCTTA
47427377 ACTTGAGTGCCAATCTGGTCGTCCAACCTTCCAAGTATATACAATGACATTAAACAACACAAGTA
1 ACTTGAGTGCCAATCTGGTCGTCCAACCTTCCAAGTATATACAATGACATTAAACAACACAAGTA
47427442 AGCTTA
66 AGCTTA
47427448 A
1 A
47427449 TGAAGCTTAG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (71 bp):
ACTTGAGTGCCAATCTGGTCGTCCAACCTTCCAAGTATATACAATGACATTAAACAACACAAGTA
AGCTTA
Found at i:47427746 original size:40 final size:40
Alignment explanation
Indices: 47427683--47427947 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
47427673 TACATCGTCA
*
47427683 GATCC-ACCG-AACACACCAGACAGAAGCTCATAAGAGCT
1 GATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
* *
47427721 GATCCACCCG-AAGTACACCAAACAGAAGCTCATAAGAGCT
1 GATCCAACCGTAA-CACACCAAACAGAAGCTCATAAGAGCT
47427761 GATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
1 GATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
* * *
47427801 GATCC-ACC-TGAAGCACACTAGACAGAAACTCATAAGAGCT
1 GATCCAACCGT-AA-CACACCAAACAGAAGCTCATAAGAGCT
*
47427841 GATCCAATCGTAACACACCAAACAGAAGCTCATAAGAGCT
1 GATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
* * *
47427881 GATCCAACTGTAACACGCCAAACAAAAGCTCATAAGAGCT
1 GATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
* ** * *
47427921 GGTCCAACCAAAACACGCTAAACAGAA
1 GATCCAACCGTAACACACCAAACAGAA
47427948 AGTATAAAAT
Statistics
Matches: 198, Mismatches: 22, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
38 6 0.03
39 10 0.05
40 175 0.88
41 6 0.03
42 1 0.01
ACGTcount: A:0.42, C:0.29, G:0.16, T:0.13
Consensus pattern (40 bp):
GATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
Found at i:47427859 original size:120 final size:118
Alignment explanation
Indices: 47427683--47427926 Score: 373
Period size: 120 Copynumber: 2.1 Consensus size: 118
47427673 TACATCGTCA
* * *
47427683 GATCCACCGAACACACCAGACAGAAGCTCATAAGAGCTGATCCACCCGAAGTACACCAAACAGAA
1 GATCCACCGAACACACCAGACAGAAACTCATAAGAGCTGATCCAACCGAAGCACACCAAACAGAA
*
47427748 GCTCATAAGAGCTGATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
66 GCTCATAAGAGCTGATCCAACCGTAACACACCAAACAAAAGCTCATAAGAGCT
* *
47427801 GATCCACCTGAAGCACACTAGACAGAAACTCATAAGAGCTGATCCAATCGTAA-CACACCAAACA
1 GATCCACC-GAA-CACACCAGACAGAAACTCATAAGAGCTGATCCAACCG-AAGCACACCAAACA
* *
47427865 GAAGCTCATAAGAGCTGATCCAACTGTAACACGCCAAACAAAAGCTCATAAGAGCT
63 GAAGCTCATAAGAGCTGATCCAACCGTAACACACCAAACAAAAGCTCATAAGAGCT
*
47427921 GGTCCA
1 GATCCA
47427927 ACCAAAACAC
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
118 8 0.07
119 3 0.03
120 101 0.89
121 2 0.02
ACGTcount: A:0.41, C:0.29, G:0.17, T:0.14
Consensus pattern (118 bp):
GATCCACCGAACACACCAGACAGAAACTCATAAGAGCTGATCCAACCGAAGCACACCAAACAGAA
GCTCATAAGAGCTGATCCAACCGTAACACACCAAACAAAAGCTCATAAGAGCT
Found at i:47434629 original size:41 final size:41
Alignment explanation
Indices: 47434600--47434698 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
47434590 GCTCTATGCT
*
47434600 TAGCAAGCTTAATGCCAGTGAAATAATTCAGACTTTACGTC
1 TAGCAAGCTTAATGCCAGTGAAATAATTCAGACTCTACGTC
* ** * * *
47434641 TAGCAGGCTTAATGCTGGTGAAATATTTCAGACTTTACATC
1 TAGCAAGCTTAATGCCAGTGAAATAATTCAGACTCTACGTC
* *
47434682 TACCAGGCTTAATGCCA
1 TAGCAAGCTTAATGCCA
47434699 ATTTTCTGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
TAGCAAGCTTAATGCCAGTGAAATAATTCAGACTCTACGTC
Found at i:47435427 original size:14 final size:16
Alignment explanation
Indices: 47435394--47435430 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
47435384 TTTAGCATTG
*
47435394 TATGTATAATAGTTTA
1 TATGTATAATAGTATA
47435410 TATGTAT-AT-GTATA
1 TATGTATAATAGTATA
47435424 TATGTAT
1 TATGTAT
47435431 GAAGATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TATGTATAATAGTATA
Found at i:47455864 original size:44 final size:42
Alignment explanation
Indices: 47455799--47455916 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 42
47455789 TTATGTGTTA
47455799 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT-GTGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG--TTAGTGATT
*
47455842 TACGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGTTAGGTGATT
1 T-CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGTTA-GTGATT
* *
47455886 TCATGTAAGACCACGTCTAGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCAT
47455917 TGTATGATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
42 3 0.05
43 25 0.39
44 35 0.55
45 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGTTAGTGATT
Found at i:47463421 original size:43 final size:42
Alignment explanation
Indices: 47463305--47463422 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 42
47463295 TTATGTGTTA
*
47463305 TCATGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATT
1 TCATGTAAGACCACGTCTAGGACGTTGGCATCGA-TTGTGATT
* *
47463348 TACGTGTAAGACC-CTGT-TTGAGACAG-TGGCATCG-TTAGGTGATT
1 T-CATGTAAGACCAC-GTCTAG-GAC-GTTGGCATCGATT--GTGATT
47463392 TCATGTAAGACCACGTCTAGGACGTTGGCAT
1 TCATGTAAGACCACGTCTAGGACGTTGGCAT
47463423 TGTATGATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
42 3 0.05
43 25 0.40
44 33 0.53
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (42 bp):
TCATGTAAGACCACGTCTAGGACGTTGGCATCGATTGTGATT
Found at i:47470566 original size:16 final size:16
Alignment explanation
Indices: 47470545--47470575 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47470535 GTTCATACAT
47470545 CCATGGTTAGCTTTTC
1 CCATGGTTAGCTTTTC
47470561 CCATGGTTAGCTTTT
1 CCATGGTTAGCTTTT
47470576 TTTTGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (16 bp):
CCATGGTTAGCTTTTC
Found at i:47471909 original size:31 final size:32
Alignment explanation
Indices: 47471861--47471920 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
47471851 ATAAGAATTG
*
47471861 TTGTTACTTACTTTTTATCATTTTAGTCACTA
1 TTGTTACATACTTTTTATCATTTTAGTCACTA
47471893 TTGTTACATA-TTTTTATCATTTTAGTCA
1 TTGTTACATACTTTTTATCATTTTAGTCA
47471921 TCGGTTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (32 bp):
TTGTTACATACTTTTTATCATTTTAGTCACTA
Found at i:47471929 original size:32 final size:32
Alignment explanation
Indices: 47471860--47471930 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
47471850 TATAAGAATT
* *
47471860 GTTGTTACTTACTTTTTATCATTTTAGTCACT
1 GTTGTTACATACTTTTTATCATTTTAGTCACG
*
47471892 ATTGTTACATA-TTTTTATCATTTTAGTCATCG
1 GTTGTTACATACTTTTTATCATTTTAGTCA-CG
47471924 GTTGTTA
1 GTTGTTA
47471931 ATTTACCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 18 0.53
32 16 0.47
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (32 bp):
GTTGTTACATACTTTTTATCATTTTAGTCACG
Found at i:47472307 original size:20 final size:21
Alignment explanation
Indices: 47472284--47472328 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
47472274 AATGAAAAAG
* *
47472284 AAAAATGAA-TTTTTTCTATA
1 AAAAATCAAGTTTTTCCTATA
*
47472304 AAAATTCAAGTTTTTCCTATA
1 AAAAATCAAGTTTTTCCTATA
47472325 AAAA
1 AAAA
47472329 CCTAAGTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAATCAAGTTTTTCCTATA
Found at i:47473516 original size:16 final size:16
Alignment explanation
Indices: 47473447--47473518 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 16
47473437 TAAAGAATGT
47473447 TTTATTTTTTTATGTAA
1 TTTA-TTTTTTATGTAA
* *
47473464 TTTATTTGTTATGT-G
1 TTTATTTTTTATGTAA
* *
47473479 TGTT-TTAGGTTTAT-TGA
1 T-TTATT--TTTTATGTAA
47473496 TTTATTTTTTATGTAA
1 TTTATTTTTTATGTAA
47473512 TTTATTT
1 TTTATTT
47473519 GGCATGTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
15 8 0.19
16 23 0.55
17 11 0.26
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTATTTTTTATGTAA
Found at i:47475103 original size:14 final size:14
Alignment explanation
Indices: 47475081--47475113 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
47475071 ACATTTTTTG
*
47475081 CTAATGATATTATT
1 CTAACGATATTATT
47475095 CTAACGATATTATT
1 CTAACGATATTATT
47475109 CTAAC
1 CTAAC
47475114 ATGTAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (14 bp):
CTAACGATATTATT
Found at i:47475749 original size:12 final size:12
Alignment explanation
Indices: 47475728--47475827 Score: 101
Period size: 12 Copynumber: 8.3 Consensus size: 12
47475718 TTGGGGCATA
47475728 CGAGCCAGAGCC
1 CGAGCCAGAGCC
* *
47475740 CGAGCTAGAGGC
1 CGAGCCAGAGCC
* *
47475752 CGAGCTAGAGCT
1 CGAGCCAGAGCC
* *
47475764 AGAGCCAAAGCC
1 CGAGCCAGAGCC
* *
47475776 CGAGCCAAAGCA
1 CGAGCCAGAGCC
*
47475788 AGAGCCAGAGCC
1 CGAGCCAGAGCC
*
47475800 CGAGCTAGAGCC
1 CGAGCCAGAGCC
*
47475812 CGAGCTAGAGCC
1 CGAGCCAGAGCC
47475824 CGAG
1 CGAG
47475828 TGGTCGTATA
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 73 1.00
ACGTcount: A:0.30, C:0.32, G:0.33, T:0.05
Consensus pattern (12 bp):
CGAGCCAGAGCC
Found at i:47475804 original size:6 final size:6
Alignment explanation
Indices: 47475729--47475823 Score: 66
Period size: 6 Copynumber: 15.8 Consensus size: 6
47475719 TGGGGCATAC
* * * * * *
47475729 GAGCCA GAGCCC GAGCTA GAGGCC- GAGCTA GAGCTA GAGCCA AAGCCC
1 GAGCCA GAGCCA GAGCCA GA-GCCA GAGCCA GAGCCA GAGCCA GAGCCA
* * * * * *
47475777 GAGCCA AAGCAA GAGCCA GAGCCC GAGCTA GAGCCC GAGCTA GAGCC
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCC
47475824 CGAGTGGTCG
Statistics
Matches: 65, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
5 2 0.03
6 61 0.94
7 2 0.03
ACGTcount: A:0.31, C:0.32, G:0.33, T:0.05
Consensus pattern (6 bp):
GAGCCA
Found at i:47476390 original size:48 final size:48
Alignment explanation
Indices: 47476226--47476481 Score: 291
Period size: 48 Copynumber: 5.3 Consensus size: 48
47476216 TTATTTATTT
* ** * **
47476226 AATTAGATTA-ATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
1 AATTAGA-TACATTACAACATTAAAACGAGGAACAAACTTTGTAAT-ATA
* ** * **
47476275 AATTAGATTA-ATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
1 AATTAGA-TACATTACAACATTAAAACGAGGAACAAACTTTGTAAT-ATA
*
47476324 AATTAGATACATTACAACATTAAAACGAGAAACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
*
47476372 AATTAGATACATTACAACATTAAAACGAGGGACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
* * * *
47476420 AATTAGAAATATTACAACATTAAAATGAAGAACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
*
47476468 AATTAGGTACATTA
1 AATTAGATACATTA
47476482 GCTCAATTCC
Statistics
Matches: 189, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
48 105 0.56
49 84 0.44
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (48 bp):
AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
Found at i:47482335 original size:17 final size:16
Alignment explanation
Indices: 47482286--47482337 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 16
47482276 GTTCAACAAA
47482286 CTAACTTCTTTAACAG
1 CTAACTTCTTTAACAG
47482302 ----CTT-TTTAACAG
1 CTAACTTCTTTAACAG
47482313 CTAACTTCTTTAACAG
1 CTAACTTCTTTAACAG
47482329 TCTAACTTC
1 -CTAACTTC
47482338 ACAACTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
11 8 0.27
12 3 0.10
15 3 0.10
16 8 0.27
17 8 0.27
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (16 bp):
CTAACTTCTTTAACAG
Found at i:47493429 original size:3 final size:3
Alignment explanation
Indices: 47493416--47493456 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
47493406 ATAATGACAT
* *
47493416 ATA AT- ATA ATA ATA ATA ATA ATA ACA ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47493457 ATTTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:47494789 original size:8 final size:8
Alignment explanation
Indices: 47494764--47494796 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
47494754 TTACCCATAA
47494764 AAAATATT
1 AAAATATT
*
47494772 AAAA-AAT
1 AAAATATT
47494779 AAAATATT
1 AAAATATT
47494787 AAAATATT
1 AAAATATT
47494795 AA
1 AA
47494797 GAAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATATT
Found at i:47494847 original size:22 final size:22
Alignment explanation
Indices: 47494819--47494860 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47494809 AAATTATATA
47494819 AACTTATAAAAATTATAAAATT
1 AACTTATAAAAATTATAAAATT
*
47494841 AACTTATAAATATTATAAAA
1 AACTTATAAAAATTATAAAA
47494861 AAGTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AACTTATAAAAATTATAAAATT
Found at i:47494862 original size:60 final size:60
Alignment explanation
Indices: 47494798--47495015 Score: 154
Period size: 60 Copynumber: 3.6 Consensus size: 60
47494788 AAATATTAAG
47494798 AAAAATTATTAAAATT-ATATAAACTTATAAAAATTATAAAATTAACTTATAAATATTATA
1 AAAAATTATTAAAATTCATATAAACTTATAAAAATTATAAAATTAACTTATAAA-ATTATA
* * * *
47494858 AAAAAGTTA-T-AAATTCCTTAATAAA-TTCTAAAAATTATAAAA-AAAATTATAAAATTAATA
1 AAAAA-TTATTAAAATT-CAT-ATAAACTTATAAAAATTATAAAATTAACTTATAAAATT-ATA
* *
47494918 AAAACA-TATTTAAAA-T-A-ATAATATTTTATAAAAATGTATTAGAATT--CTTA-AAAATTAT
1 AAAA-ATTA-TTAAAATTCATATAA-A-CTTATAAAAAT-TA-TAAAATTAACTTATAAAATTAT
47494976 AA
60 -A
* * * *
47494978 AAAAAATATTAAAATTGATATAAGCTTATAAAATTTAT
1 AAAAATTATTAAAATTCATATAAACTTATAAAAATTAT
47495016 TTTAAAAAAT
Statistics
Matches: 126, Mismatches: 12, Indels: 42
0.70 0.07 0.23
Matches are distributed among these distances:
57 4 0.03
58 2 0.02
59 21 0.17
60 54 0.43
61 29 0.23
62 16 0.13
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (60 bp):
AAAAATTATTAAAATTCATATAAACTTATAAAAATTATAAAATTAACTTATAAAATTATA
Found at i:47494902 original size:12 final size:12
Alignment explanation
Indices: 47494887--47494911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47494877 AATAAATTCT
47494887 AAAAATTATAAA
1 AAAAATTATAAA
47494899 AAAAATTATAAA
1 AAAAATTATAAA
47494911 A
1 A
47494912 TTAATAAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:47494904 original size:21 final size:21
Alignment explanation
Indices: 47494888--47494938 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
47494878 ATAAATTCTA
47494888 AAAATT-ATAAAAAAAATTAT
1 AAAATTAATAAAAAAAATTAT
*
47494908 AAAATTAATAAAAACATATT-T
1 AAAATTAATAAAAA-AAATTAT
47494929 AAAA-TAATAA
1 AAAATTAATAA
47494939 TATTTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 12 0.43
21 12 0.43
22 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTAATAAAAAAAATTAT
Found at i:47494913 original size:20 final size:19
Alignment explanation
Indices: 47494798--47494921 Score: 81
Period size: 19 Copynumber: 6.2 Consensus size: 19
47494788 AAATATTAAG
47494798 AAAAATTATTAAAATTAT-A
1 AAAAATTA-TAAAATTATAA
* *
47494817 TAAACTTATAAAAATTATAA
1 AAAAATTAT-AAAATTATAA
*
47494837 AATTAACTTATAAATATTATAA
1 AA--AAATTATAAA-ATTATAA
* * *
47494859 AAAAGTTAT-AAATTCCTTA
1 AAAAATTATAAAATT-ATAA
* *
47494878 ATAAATTCTAAAAATTATAAA
1 AAAAATTAT-AAAATTAT-AA
47494899 AAAAATTATAAAATTAATAA
1 AAAAATTATAAAATT-ATAA
47494919 AAA
1 AAA
47494922 CATATTTAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
18 4 0.05
19 24 0.29
20 20 0.24
21 18 0.22
22 16 0.20
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTATAAAATTATAA
Found at i:47494936 original size:20 final size:20
Alignment explanation
Indices: 47494888--47494938 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
47494878 ATAAATTCTA
*
47494888 AAAATTATAAAAAAAATTAT
1 AAAATAATAAAAAAAATTAT
*
47494908 AAAATTAATAAAAACATATT-T
1 AAAA-TAATAAAAA-AAATTAT
47494929 AAAATAATAA
1 AAAATAATAA
47494939 TATTTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATAATAAAAAAAATTAT
Found at i:47494980 original size:9 final size:9
Alignment explanation
Indices: 47494760--47494900 Score: 58
Period size: 9 Copynumber: 14.8 Consensus size: 9
47494750 TATTTTACCC
*
47494760 ATAAAAAAT
1 ATAAAAATT
47494769 ATTAAAAA--
1 A-TAAAAATT
47494777 ATAAAATATT
1 ATAAAA-ATT
*
47494787 A-AAATATT
1 ATAAAAATT
*
47494795 AAGAAAAATT
1 -ATAAAAATT
*
47494805 ATTAAAATT
1 ATAAAAATT
*
47494814 ATATAAACTT
1 ATA-AAAATT
47494824 ATAAAAATT
1 ATAAAAATT
47494833 ATAAAATTAACTT
1 AT-AAA--AA-TT
*
47494846 ATAAATATT
1 ATAAAAATT
47494855 ATAAAAAAGTT
1 AT-AAAAA-TT
47494866 AT--AAATT
1 ATAAAAATT
*
47494873 CCTTAATAAATT
1 --ATAA-AAATT
*
47494885 CTAAAAATT
1 ATAAAAATT
47494894 ATAAAAA
1 ATAAAAA
47494901 AAATTATAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 36
0.68 0.08 0.24
Matches are distributed among these distances:
7 7 0.07
8 8 0.08
9 37 0.36
10 32 0.31
11 4 0.04
12 10 0.10
13 4 0.04
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:47498854 original size:84 final size:85
Alignment explanation
Indices: 47498670--47498900 Score: 256
Period size: 84 Copynumber: 2.7 Consensus size: 85
47498660 ACAAAATTAC
* * **
47498670 ATCAAATTAAAATC-TGTTAAACGGCAAGAATAAATCCCAAAACAGAA--TTATTTGA-TTACGT
1 ATCAAA-TAAAATCTTGTTAAACGGCAGGAATAAATCCCAAAACA-AATTTTATTTAATTTAATT
** * *
47498731 CTTTGTTTGGAAACAAAACAAT
64 CTTAATCTGGAAACAAAACAAA
* * *
47498753 ATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAAATTTTATTTAATTTAATTC-
1 ATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCT
* *
47498817 TAATCTGGAAACGAAATAAA
66 TAATCTGGAAACAAAACAAA
* * *
47498837 ATCAAATAAAATCTTGTTAAACGGCTGGAGTAAATCCCAAAATAAATTTTATTTAATTTTAATT
1 ATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCAAAACAAATTTTATTTAA-TTTAATT
47498901 TCTCGTTTTT
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
82 9 0.07
83 32 0.26
84 72 0.58
85 12 0.10
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.32
Consensus pattern (85 bp):
ATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCT
TAATCTGGAAACAAAACAAA
Found at i:47499031 original size:87 final size:87
Alignment explanation
Indices: 47498867--47499048 Score: 192
Period size: 87 Copynumber: 2.1 Consensus size: 87
47498857 ACGGCTGGAG
* * * * *
47498867 TAAATCCCAAAATAAATTTTATTTAATTTTAATTTCTCGTTTTTGGCAATAAAATCAAAATGTAA
1 TAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCGTTTTTAGAAATAAAATCAAAATGGAA
*
47498932 TAAATCCATTGAATGAC-AGGAA
66 TAAATCCATTGAACGACGA-GAA
* * *
47498954 TAAATCCCAAAGCAGATTTTATTTTAA-TTTAA-TACTCG-TTTTAGAAATAAAATTAAAATTGG
1 TAAATCCCAAAACAAATTTTA-TTTAATTTTAATTACTCGTTTTTAGAAATAAAATCAAAA-TGG
* * *
47499016 AATAAAATTCGTTGAACGGCGAGAA
64 AAT-AAATCCATTGAACGACGAGAA
47499041 TAAATCCC
1 TAAATCCC
47499049 TAAATATTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
85 17 0.22
86 10 0.13
87 46 0.58
88 6 0.08
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (87 bp):
TAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCGTTTTTAGAAATAAAATCAAAATGGAA
TAAATCCATTGAACGACGAGAA
Found at i:47499919 original size:31 final size:32
Alignment explanation
Indices: 47499864--47499942 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 32
47499854 ATTTTGATAA
*
47499864 TATTTTA-TAAT-TATTTAATTAGATA-AATAT
1 TATTTTATTAATAT-TTTAATGAGATATAATAT
**
47499894 TATTTTATTAATATTTTAATGAGATATTTTAT
1 TATTTTATTAATATTTTAATGAGATATAATAT
*
47499926 TATTTTATT-TTATTTTA
1 TATTTTATTAATATTTTA
47499943 TTGGTATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.17
31 22 0.52
32 13 0.31
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (32 bp):
TATTTTATTAATATTTTAATGAGATATAATAT
Found at i:47501998 original size:33 final size:33
Alignment explanation
Indices: 47501860--47502003 Score: 90
Period size: 33 Copynumber: 4.3 Consensus size: 33
47501850 GAATTGAAGG
*
47501860 ATAAGACCATAACTGGGTTATGGCACTATGAAC
1 ATAAGACCATAACTGGGCTATGGCACTATGAAC
* * * * * * * * * *
47501893 GTAATACCATGATTGGACTATGGTAGTGTTTATAT
1 ATAAGACCATAACTGGGCTATGGCACT-ATGA-AC
* * * * * * **
47501928 GTAAGACTATAGCTAGGCTATGGCATTCTGATG
1 ATAAGACCATAACTGGGCTATGGCACTATGAAC
*
47501961 ATAAGACCATAACTGGGTTATGGCACTATGAAC
1 ATAAGACCATAACTGGGCTATGGCACTATGAAC
47501994 ATAAGACCAT
1 ATAAGACCAT
47502004 GGTTGGATCA
Statistics
Matches: 76, Mismatches: 33, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
33 53 0.70
34 4 0.05
35 19 0.25
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (33 bp):
ATAAGACCATAACTGGGCTATGGCACTATGAAC
Found at i:47502034 original size:101 final size:101
Alignment explanation
Indices: 47501859--47502089 Score: 365
Period size: 101 Copynumber: 2.3 Consensus size: 101
47501849 TGAATTGAAG
* * *
47501859 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAATACCATGATTGGACTATGGTAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTGGACTATGGCAGTGTTT
*
47501924 ATATGTAAGACTATAGCTAGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGCTAGGCTATGGCATTCTGAT
*
47501960 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGA-TCATGGCAGTGTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTGGACT-ATGGCAGTGTT
* *
47502024 TATATGTAAGACCATAGCTGGGCTATGGTATTCTGAT
65 TATATGTAAGACCATAGCTAGGCTATGGCATTCTGAT
* *
47502061 GATAATACCATAATTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
47502090 CGAATGTAAA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 119 0.99
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTGGACTATGGCAGTGTTT
ATATGTAAGACCATAGCTAGGCTATGGCATTCTGAT
Found at i:47505958 original size:17 final size:17
Alignment explanation
Indices: 47505938--47506009 Score: 72
Period size: 17 Copynumber: 3.9 Consensus size: 17
47505928 ATTTTTCAAA
47505938 AAATAATTTTTTTGTTC
1 AAATAATTTTTTTGTTC
*
47505955 AAATAATTTTTTTGTTT
1 AAATAATTTTTTTGTTC
*
47505972 AAATTATTTTATTCCACTGTTC
1 AAATAATTTT-TT----TGTTC
47505994 AAATAAATTTTTTTGT
1 AAAT-AATTTTTTTGT
47506010 AAAATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 25 0.56
18 5 0.11
22 10 0.22
23 5 0.11
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.57
Consensus pattern (17 bp):
AAATAATTTTTTTGTTC
Found at i:47507208 original size:24 final size:26
Alignment explanation
Indices: 47507181--47507234 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 26
47507171 ATATGTAAGT
* *
47507181 ATAATGATAATAAC-ATA-TAATATA
1 ATAATAATAATAACAATATTAATAAA
47507205 ATAATAATAATAACAATATTAATAAA
1 ATAATAATAATAACAATATTAATAAA
47507231 ATAA
1 ATAA
47507235 ATTTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 13 0.50
25 3 0.12
26 10 0.38
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (26 bp):
ATAATAATAATAACAATATTAATAAA
Found at i:47519721 original size:17 final size:17
Alignment explanation
Indices: 47519701--47519738 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
47519691 ATTTTTCAAA
47519701 AAATAATTTTTTTGTTC
1 AAATAATTTTTTTGTTC
*
47519718 AAATAATTTTTTTGTTT
1 AAATAATTTTTTTGTTC
47519735 AAAT
1 AAAT
47519739 TNNNNNNNNN
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
AAATAATTTTTTTGTTC
Done.