Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 63 of 345
Found at i:17526450 original size:20 final size:20
Alignment explanation
Indices: 17526397--17526451 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
17526387 AATAAAAATC
* *
17526397 AATAAAAATTGTTAAATTTA
1 AATAAAAATTGTAAAAATTA
*
17526417 AATAAAAAAT-TAAAAATTA
1 AATAAAAATTGTAAAAATTA
17526436 GAA-AAAAATTGTAAAA
1 -AATAAAAATTGTAAAA
17526452 CTTTTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAAAAATTGTAAAAATTA
Found at i:17526461 original size:39 final size:37
Alignment explanation
Indices: 17526381--17526464 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 37
17526371 ACAAAAAATG
* *
17526381 ATAAAAAATAAAAATCAATAAAAATTGTTAAATTTAA
1 ATAAAAAATAAAAATCAAAAAAAATTGTAAAATTTAA
* *
17526418 ATAAAAAATTAAAAATTAGAAAAAAATTGTAAAACTTT-T
1 ATAAAAAA-TAAAAATCA-AAAAAAATTGTAAAA-TTTAA
17526457 ATAAAAAA
1 ATAAAAAA
17526465 ACTGTAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
37 8 0.20
38 8 0.20
39 21 0.52
40 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (37 bp):
ATAAAAAATAAAAATCAAAAAAAATTGTAAAATTTAA
Found at i:17526464 original size:21 final size:21
Alignment explanation
Indices: 17526400--17526484 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 21
17526390 AAAAATCAAT
*
17526400 AAAAATTGTTAAA-TTTA-AA
1 AAAAATTGTAAAATTTTATAA
* * *
17526419 TAAAAAAT-TAAAA-ATTAGAA
1 -AAAAATTGTAAAATTTTATAA
17526439 AAAAATTGTAAAACTTTTATAA
1 AAAAATTGTAAAA-TTTTATAA
*
17526461 AAAAACTGTAAAATTTTATAA
1 AAAAATTGTAAAATTTTATAA
17526482 AAA
1 AAA
17526485 TCGTAAAAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
19 13 0.24
20 13 0.24
21 11 0.20
22 17 0.31
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAAATTGTAAAATTTTATAA
Found at i:17527005 original size:13 final size:13
Alignment explanation
Indices: 17526987--17527033 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
17526977 CAATTGTTAA
17526987 TAAATTTATATTT
1 TAAATTTATATTT
* *
17527000 TAAATTTTTTATTAA
1 TAAA-TTTATATT-T
17527015 TAAATTTATATTT
1 TAAATTTATATTT
17527028 TAAATT
1 TAAATT
17527034 GTTTTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 10 0.36
14 14 0.50
15 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATTTATATTT
Found at i:17527014 original size:28 final size:29
Alignment explanation
Indices: 17526983--17527038 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
17526973 TACTCAATTG
17526983 TTAATAAATTTATATTTTAAATT-TTTTA
1 TTAATAAATTTATATTTTAAATTGTTTTA
17527011 TTAATAAATTTATATTTTAAATTGTTTT
1 TTAATAAATTTATATTTTAAATTGTTTT
17527039 TATATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
TTAATAAATTTATATTTTAAATTGTTTTA
Found at i:17527030 original size:16 final size:16
Alignment explanation
Indices: 17526983--17527030 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
17526973 TACTCAATTG
17526983 TTAATAAATTTATA-T
1 TTAATAAATTTATATT
17526998 TT--TAAATTT-T-TT
1 TTAATAAATTTATATT
17527010 ATTAATAAATTTATATT
1 -TTAATAAATTTATATT
17527027 TTAA
1 TTAA
17527031 ATTGTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
12 2 0.07
13 9 0.33
15 9 0.33
16 5 0.19
17 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATAAATTTATATT
Found at i:17528360 original size:27 final size:32
Alignment explanation
Indices: 17528287--17528347 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
17528277 TGTTAATCAT
17528287 TTCAATATCGAACAAGCTTGAAACATAATAAA
1 TTCAATATCGAACAAGCTTGAAACATAATAAA
* *
17528319 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCGAACAAGCTTGAAACATAAT
17528348 CAATATCGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (32 bp):
TTCAATATCGAACAAGCTTGAAACATAATAAA
Found at i:17530753 original size:55 final size:54
Alignment explanation
Indices: 17530686--17530796 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 54
17530676 ATATTATAAG
*
17530686 AAGTTGAAGAACGGAATAAGAAGAAGACTTACCTGGATGAAGAAGGAGATGGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGAGAT-GAAA
*
17530741 AAGTTGAAGAACGGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGGGATGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGAGATGAAA
17530795 AA
1 AA
17530797 TGTCTTATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 6 0.11
55 48 0.89
ACGTcount: A:0.48, C:0.07, G:0.32, T:0.14
Consensus pattern (54 bp):
AAGTTGAAGAACGGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGAGATGAAA
Found at i:17531238 original size:31 final size:29
Alignment explanation
Indices: 17531178--17531249 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
17531168 GGATCAAATA
*
17531178 AAAATTTCAAGTATAAAATTACACAAAACC
1 AAAA-TTCATGTATAAAATTACACAAAACC
* *
17531208 AAAATTCATGTATATAATTGCACATTAAACC
1 AAAATTCATGTATAAAATTACACA--AAACC
* *
17531239 ATAGTTCATGT
1 AAAATTCATGT
17531250 GTAATTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 17 0.49
30 4 0.11
31 14 0.40
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAATTCATGTATAAAATTACACAAAACC
Found at i:17531700 original size:15 final size:14
Alignment explanation
Indices: 17531669--17531696 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17531659 TTAGGATTTA
17531669 AGGTTAGGGTTTTT
1 AGGTTAGGGTTTTT
17531683 AGGTTAGGGTTTTT
1 AGGTTAGGGTTTTT
17531697 TAGGGTTTAG
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:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (14 bp):
AGGTTAGGGTTTTT
Found at i:17531847 original size:20 final size:19
Alignment explanation
Indices: 17531796--17531847 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 19
17531786 AGTTTAGGGT
*
17531796 ATTAGAGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
17531815 ATTAGGG---ATTGATTAA
1 ATTAGGGTTAATTGATTAA
17531831 ATTTAGGGTTAATTGAT
1 A-TTAGGGTTAATTGAT
17531848 ACATAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 10 0.36
17 6 0.21
19 6 0.21
20 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:17532617 original size:126 final size:126
Alignment explanation
Indices: 17532387--17532641 Score: 413
Period size: 126 Copynumber: 2.0 Consensus size: 126
17532377 TTTCTGCAAG
* * *
17532387 AATAATTTTGAGTAGATGTTTCTGGACAAATAGTGTCGAAAATGCTTCAAATAGGATGCACTGTC
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAACAGGATGCACTGTC
** *
17532452 AGCAAAATTTCTAAAAGAAGCTCCCACGTGGGTGTTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
17532513 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTT
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAACAGGATGCACTGTC
*
17532578 AGTAAAATTTCTGAAAA-AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCT-AAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
17532639 AAT
1 AAT
17532642 GAGGCTATAA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 115 0.97
127 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (126 bp):
AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAACAGGATGCACTGTC
AGCAAAATTTCTAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:17536169 original size:18 final size:18
Alignment explanation
Indices: 17536148--17536183 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17536138 AAAAGGAAAT
*
17536148 ATATAAAGGTTAGGATAC
1 ATATAAAGGTTAGAATAC
*
17536166 ATATAAGGGTTAGAATAC
1 ATATAAAGGTTAGAATAC
17536184 GCACCTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (18 bp):
ATATAAAGGTTAGAATAC
Found at i:17536958 original size:88 final size:88
Alignment explanation
Indices: 17536809--17536984 Score: 334
Period size: 88 Copynumber: 2.0 Consensus size: 88
17536799 GGTAGTTTGA
17536809 ATTTTTTAATTGTGTCAAATATTAATTACTTTCCACTAAATAATATTTTTCCTACTATATTGTAG
1 ATTTTTTAATTGTGTCAAATATTAATTACTTTCCACTAAATAATATTTTTCCTACTATATTGTAG
*
17536874 GAACTGTGGTTTGGTCAAAAAGT
66 GAACTGTCGTTTGGTCAAAAAGT
*
17536897 ATTTTTTAATTGTGTCAAATATTAATTACTTTCTACTAAATAATATTTTTCCTACTATATTGTAG
1 ATTTTTTAATTGTGTCAAATATTAATTACTTTCCACTAAATAATATTTTTCCTACTATATTGTAG
17536962 GAACTGTCGTTTGGTCAAAAAGT
66 GAACTGTCGTTTGGTCAAAAAGT
17536985 TGGATGCCTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (88 bp):
ATTTTTTAATTGTGTCAAATATTAATTACTTTCCACTAAATAATATTTTTCCTACTATATTGTAG
GAACTGTCGTTTGGTCAAAAAGT
Found at i:17537871 original size:23 final size:24
Alignment explanation
Indices: 17537835--17537879 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
17537825 TATAGAAAGT
*
17537835 AATTTCTTGATTTTTA-TTTTTAAA
1 AATTTATTGA-TTTTAGTTTTTAAA
17537859 AATTTATT-ATTTTAGTTTTTA
1 AATTTATTGATTTTAGTTTTTA
17537880 GATTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 7 0.37
24 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (24 bp):
AATTTATTGATTTTAGTTTTTAAA
Found at i:17541804 original size:22 final size:22
Alignment explanation
Indices: 17541776--17541868 Score: 109
Period size: 22 Copynumber: 4.2 Consensus size: 22
17541766 AGCTTACTAT
17541776 TTCAGCTCGTATA-AGTTTACTG
1 TTCAGCTCG-ATAGAGTTTACTG
* * *
17541798 TTCAGCTTGATAGAGCTTACCG
1 TTCAGCTCGATAGAGTTTACTG
17541820 TTTCAGCTCG-TACGAGTTTACTG
1 -TTCAGCTCGATA-GAGTTTACTG
*
17541843 TTCAGCTTGATAGAGTTTACTG
1 TTCAGCTCGATAGAGTTTACTG
17541865 TTCA
1 TTCA
17541869 TCAGCTCAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.05
22 39 0.65
23 18 0.30
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (22 bp):
TTCAGCTCGATAGAGTTTACTG
Found at i:17541814 original size:45 final size:45
Alignment explanation
Indices: 17541765--17541863 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
17541755 CAGCTCATTG
*
17541765 GAGCTTACTATTTCAGCTCGTATAAGTTTACTGTTCAGCTTGATA
1 GAGCTTACTATTTCAGCTCGTACAAGTTTACTGTTCAGCTTGATA
** *
17541810 GAGCTTACCGTTTCAGCTCGTACGAGTTTACTGTTCAGCTTGATA
1 GAGCTTACTATTTCAGCTCGTACAAGTTTACTGTTCAGCTTGATA
*
17541855 GAGTTTACT
1 GAGCTTACT
17541864 GTTCATCAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (45 bp):
GAGCTTACTATTTCAGCTCGTACAAGTTTACTGTTCAGCTTGATA
Found at i:17542638 original size:13 final size:13
Alignment explanation
Indices: 17542620--17542648 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17542610 TGACTTATCC
17542620 ACACGGCCACAAG
1 ACACGGCCACAAG
17542633 ACACGGCCACAAG
1 ACACGGCCACAAG
17542646 ACA
1 ACA
17542649 TGCCCATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.38, G:0.21, T:0.00
Consensus pattern (13 bp):
ACACGGCCACAAG
Found at i:17543960 original size:43 final size:42
Alignment explanation
Indices: 17543909--17544004 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
17543899 TCCCATACGT
* * *
17543909 GGTCTTACATGTAATCAAATATCGATACCACTATCCCAGACAG
1 GGTCTTACATGAAATCAAATA-CGATACCAATATCCCAAACAG
* * * * *
17543952 GGTCTTACACGAAATCAGATACGATGCCAATGTCCCAAACAT
1 GGTCTTACATGAAATCAAATACGATACCAATATCCCAAACAG
17543994 GGTCTTACATG
1 GGTCTTACATG
17544005 CAAAATAGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATACCAATATCCCAAACAG
Found at i:17544001 original size:42 final size:42
Alignment explanation
Indices: 17543885--17544002 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
17543875 CAGAAAACAT
* * * * * *
17543885 ATACAATGCCAACGTCCCATACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
* * * * * *
17543927 ATATCGATACCACTATCCCAGACAGGGTCTTACACGAAATCAG
1 ATA-CGATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
17543970 ATACGATGCCAATGTCCCAAACATGGTCTTACA
1 ATACGATGCCAATGTCCCAAACATGGTCTTACA
17544003 TGCAAAATAG
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
Found at i:17546916 original size:19 final size:18
Alignment explanation
Indices: 17546878--17546916 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17546868 TGAAATGTTA
*
17546878 AAAATTTTCTAAGTTTCC
1 AAAATTTTCTAAGTTACC
*
17546896 AAAATTTTCATATGTTACC
1 AAAATTTTC-TAAGTTACC
17546915 AA
1 AA
17546917 TTTAGTCTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (18 bp):
AAAATTTTCTAAGTTACC
Found at i:17551463 original size:23 final size:23
Alignment explanation
Indices: 17551435--17551481 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
17551425 AATTTATTTT
*
17551435 TAAAAAATTAAAAATCTAAAAAA
1 TAAAAAATGAAAAATCTAAAAAA
* * *
17551458 TAAAAAGTGATAAATTTAAAAAA
1 TAAAAAATGAAAAATCTAAAAAA
17551481 T
1 T
17551482 TCTTTCTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAAAATGAAAAATCTAAAAAA
Found at i:17564089 original size:14 final size:14
Alignment explanation
Indices: 17564066--17564095 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17564056 TTGAAAATAT
17564066 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
17564080 GTTGAGTTGGATTG
1 GTTGAATTGGATTG
17564094 GT
1 GT
17564096 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:17567509 original size:53 final size:53
Alignment explanation
Indices: 17567368--17567518 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
17567358 ATAAGTGCGC
* **
17567368 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
17567421 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
17567474 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
17567519 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:17574959 original size:53 final size:53
Alignment explanation
Indices: 17574803--17574968 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
17574793 TGACGAAAAT
* **
17574803 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
17574855 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
17574908 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
17574962 TATGTGA
1 -ATGTGA
17574969 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:17580183 original size:18 final size:18
Alignment explanation
Indices: 17580140--17580183 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
17580130 AAAATTAAAC
* *
17580140 CGAATTAACTGAATTAAT
1 CGAATTACCCGAATTAAT
*
17580158 CGAATTACCCGAATTATT
1 CGAATTACCCGAATTAAT
17580176 CGAATTAC
1 CGAATTAC
17580184 GCATGCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (18 bp):
CGAATTACCCGAATTAAT
Found at i:17580288 original size:47 final size:47
Alignment explanation
Indices: 17580185--17580289 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
17580175 TCGAATTACG
* *
17580185 CATGCATAACTGAGAAAGGGAAGTGGAATCAATTGATAAGCTTCAAT
1 CATGCATAATTGAGAAAGGGAAGTGGAATCAATTAATAAGCTTCAAT
* *
17580232 CATGCATAATTGAGAAAGGGAAGTGGAATCCATTAATAAGTTTCAAT
1 CATGCATAATTGAGAAAGGGAAGTGGAATCAATTAATAAGCTTCAAT
17580279 CATGCATAATT
1 CATGCATAATT
17580290 AAGTTTCCTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (47 bp):
CATGCATAATTGAGAAAGGGAAGTGGAATCAATTAATAAGCTTCAAT
Found at i:17582535 original size:14 final size:14
Alignment explanation
Indices: 17582513--17582543 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17582503 AAACATTTTT
*
17582513 ATAATATAAATTTA
1 ATAAAATAAATTTA
17582527 ATAAAATAAATTTA
1 ATAAAATAAATTTA
17582541 ATA
1 ATA
17582544 CTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAAAATAAATTTA
Found at i:17582903 original size:23 final size:20
Alignment explanation
Indices: 17582877--17582933 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 20
17582867 GTTTTAAGTT
17582877 TAAAAACACATATTTTTTAAA
1 TAAAAACA-ATATTTTTTAAA
17582898 -AATAAA-AATAGATGTTTTTAAA
1 TAA-AAACAAT--AT-TTTTTAAA
17582920 TAAAAACAATATTT
1 TAAAAACAATATTT
17582934 ATAATATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 7 0.23
22 11 0.37
23 5 0.17
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAAACAATATTTTTTAAA
Found at i:17587938 original size:24 final size:23
Alignment explanation
Indices: 17587756--17587938 Score: 77
Period size: 24 Copynumber: 7.7 Consensus size: 23
17587746 GGCTAAAACA
* *
17587756 GGAAGCTCATAAGAGCTATAGCCG
1 GGAAGCTCATAAGAGCCATA-ACG
* *
17587780 GAAAGCTCATACGAGCCAATAACG
1 GGAAGCTCATAAGAGCC-ATAACG
* ** *
17587804 GGTAGCTCCGAAGAGCCATTAACA
1 GGAAGCTCATAAGAGCCA-TAACG
*** * *
17587828 GGAAGCTCCGGATAACCATATATCG
1 GGAAGCTCATAAGAGCCATA-A-CG
* *
17587853 GGAAG-T--TCA-AGCCATATCG
1 GGAAGCTCATAAGAGCCATAACG
* *
17587872 GGAAGCTCACAAAGAGCAAATTAACG
1 GGAAGCTCA-TAAGAGC-CA-TAACG
* *
17587898 AGACGCTCATGAAGAGCCATAATCG
1 GGAAGCTCAT-AAGAGCCATAA-CG
17587923 GGAAGCTCATAAGAGC
1 GGAAGCTCATAAGAGC
17587939 TAAGGTGTGT
Statistics
Matches: 117, Mismatches: 29, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
19 7 0.06
20 1 0.01
21 6 0.05
22 1 0.01
23 4 0.03
24 60 0.51
25 21 0.18
26 17 0.15
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (23 bp):
GGAAGCTCATAAGAGCCATAACG
Found at i:17589722 original size:38 final size:38
Alignment explanation
Indices: 17589680--17589756 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
17589670 TGTCTCGAGA
*
17589680 CTTAACTAAAAATAGTTATTATTTGACTATTGGTAGGC
1 CTTAACTAAAAATAGTTATTATATGACTATTGGTAGGC
17589718 CTTAACTAAAAATAGTTATTATATGACTATTGGTAGGC
1 CTTAACTAAAAATAGTTATTATATGACTATTGGTAGGC
17589756 C
1 C
17589757 ATGTCTCTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (38 bp):
CTTAACTAAAAATAGTTATTATATGACTATTGGTAGGC
Found at i:17596759 original size:12 final size:12
Alignment explanation
Indices: 17596742--17596774 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17596732 CGGCCAGCAC
17596742 ATATTAATTTTT
1 ATATTAATTTTT
*
17596754 ATATTATTTTTT
1 ATATTAATTTTT
17596766 ATA-TAATTT
1 ATATTAATTT
17596775 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:17596936 original size:30 final size:30
Alignment explanation
Indices: 17596900--17596958 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
17596890 ACTTAACAAT
17596900 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
17596930 CAAATGTCTTTAAAATAATAACAAAATTA
1 CAAATGTCTCTAAAATAATAACAAAATTA
17596959 GCAATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:17601301 original size:22 final size:18
Alignment explanation
Indices: 17601246--17601301 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
17601236 TTCTATCACT
17601246 AGTGGTTTATCCACAATG
1 AGTGGTTTATCCACAATG
*
17601264 AGTGGTTTGTCCACAATG
1 AGTGGTTTATCCACAATG
17601282 ATGTGTGGTTTTATCCACAA
1 A---GTGG-TTTATCCACAA
17601302 CATGGTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 18 0.56
21 4 0.12
22 10 0.31
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (18 bp):
AGTGGTTTATCCACAATG
Found at i:17601464 original size:8 final size:8
Alignment explanation
Indices: 17601453--17601485 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
17601443 AGTTAATCTC
17601453 AAATATTG
1 AAATATTG
17601461 AAATATTG
1 AAATATTG
17601469 AAATATTG
1 AAATATTG
*
17601477 AAATTTTG
1 AAATATTG
17601485 A
1 A
17601486 GTTGCTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (8 bp):
AAATATTG
Found at i:17602919 original size:21 final size:21
Alignment explanation
Indices: 17602871--17602919 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
17602861 CCAAATATCC
*
17602871 TTATTTATATTACTAAAATAT
1 TTATTTATACTACTAAAATAT
17602892 TCATATTTCATACTA-TAAAATAT
1 T--TATTT-ATACTACTAAAATAT
17602915 TTATT
1 TTATT
17602920 ATTAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTTATACTACTAAAATAT
Found at i:17605863 original size:22 final size:25
Alignment explanation
Indices: 17605835--17605885 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
17605825 AAATATGTAA
*
17605835 ATTATT-ATTAATGTTA-A-AATTT
1 ATTATTAATTAATATTACATAATTT
17605857 ATTATTAATTAATATTACATAATTT
1 ATTATTAATTAATATTACATAATTT
17605882 ATTA
1 ATTA
17605886 AAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 9 0.36
24 1 0.04
25 9 0.36
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATTAATTAATATTACATAATTT
Found at i:17607186 original size:22 final size:22
Alignment explanation
Indices: 17607155--17607208 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
17607145 TAGAATATAC
* * *
17607155 CCCATTCCTTGT-CCATACATTG
1 CCCATACCTTGTCCCATAC-CTA
17607177 CCCATACCTT-TCCCATACCTA
1 CCCATACCTTGTCCCATACCTA
17607198 CCCATACCTTG
1 CCCATACCTTG
17607209 GAAAGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.20, C:0.43, G:0.06, T:0.31
Consensus pattern (22 bp):
CCCATACCTTGTCCCATACCTA
Found at i:17607768 original size:18 final size:18
Alignment explanation
Indices: 17607745--17607799 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
17607735 CATTTACGAC
*
17607745 ACTATTCATGTATACAGT
1 ACTATTCACGTATACAGT
* *
17607763 ACTATTTACGTATAC-GAC
1 ACTATTCACGTATACAG-T
*
17607781 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
17607799 A
1 A
17607800 GGTGGGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:17611861 original size:11 final size:11
Alignment explanation
Indices: 17611841--17611893 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
17611831 TAGAATATAC
*
17611841 CCCATTCCTTG
1 CCCATACCTTG
17611852 CCCATACCTTG
1 CCCATACCTTG
*
17611863 CCCATACCTTT
1 CCCATACCTTG
*
17611874 CCCATACC-TA
1 CCCATACCTTG
17611884 CCCATACCTT
1 CCCATACCTT
17611894 AGAAAGGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.19, C:0.47, G:0.04, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:17612571 original size:29 final size:30
Alignment explanation
Indices: 17612506--17612572 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
17612496 TAAGCAAGTA
* **
17612506 ATTAT-TTTTTGTTAGTATTTAATTAATTT
1 ATTATATTTTTATTAGTATTTAATTAAAAT
17612535 ATTATATTTTTATTA-TATTTAATTTAAAAT
1 ATTATATTTTTATTAGTATTTAA-TTAAAAT
17612565 ATT-TATTT
1 ATTATATTT
17612573 GTTTTTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (30 bp):
ATTATATTTTTATTAGTATTTAATTAAAAT
Found at i:17613945 original size:68 final size:66
Alignment explanation
Indices: 17613827--17613963 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 66
17613817 ACTTAAATCA
*
17613827 AACTAAATTGATATAGTTCAATGATATCATCTGACTAAAACCAGATCGAACTATAAAAAAAAAAC
1 AACTAAATTGATATAGTTCAATGATATCATCTGACTAAAACCAGACCGAACTAT--AAAAAAAAC
17613892 CTG
64 CTG
* *
17613895 AACTAAATTGATATGGTTCAATGATATCATCTGACTAAAATCAGACCGAACTATAAAAAAAACCT
1 AACTAAATTGATATAGTTCAATGATATCATCTGACTAAAACCAGACCGAACTATAAAAAAAACCT
17613960 G
66 G
17613961 AAC
1 AAC
17613964 GTCTAAATTG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 15 0.23
68 51 0.77
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (66 bp):
AACTAAATTGATATAGTTCAATGATATCATCTGACTAAAACCAGACCGAACTATAAAAAAAACCT
G
Found at i:17616136 original size:13 final size:13
Alignment explanation
Indices: 17616118--17616142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17616108 AAAAAATTAC
17616118 TATATATATATAA
1 TATATATATATAA
17616131 TATATATATATA
1 TATATATATATA
17616143 TTGAGGTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATATATATAA
Found at i:17616496 original size:15 final size:15
Alignment explanation
Indices: 17616476--17616506 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17616466 TTGAATTTTA
*
17616476 TGAATATTCAATATT
1 TGAATATTAAATATT
17616491 TGAATATTAAATATT
1 TGAATATTAAATATT
17616506 T
1 T
17616507 ATTTGTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (15 bp):
TGAATATTAAATATT
Found at i:17616708 original size:9 final size:8
Alignment explanation
Indices: 17616683--17616712 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
17616673 TGAATTTAGG
17616683 TTTTTA-T
1 TTTTTATT
17616690 TTTTTATT
1 TTTTTATT
17616698 TTTTTATT
1 TTTTTATT
17616706 TTTTTAT
1 TTTTTAT
17616713 GAAGAAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:17619846 original size:27 final size:27
Alignment explanation
Indices: 17619765--17619860 Score: 83
Period size: 26 Copynumber: 3.6 Consensus size: 27
17619755 TGTGAAAAAG
*
17619765 TTTAAACATAAATAAAATATAAA-C-AA
1 TTTAAA-ATAAATAATATATAAAGCAAA
*
17619791 TTTGAAATAAAATAATATATAAAGCAAA
1 TTTAAAAT-AAATAATATATAAAGCAAA
* * *
17619819 TTTCAAATAAATAATATGTTAAA-TAAA
1 TTTAAAATAAATAATAT-ATAAAGCAAA
*
17619846 -TTAAAATGAATAATA
1 TTTAAAATAAATAATA
17619861 CACAAAGTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.03
26 31 0.53
27 13 0.22
28 13 0.22
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
TTTAAAATAAATAATATATAAAGCAAA
Found at i:17619974 original size:2 final size:2
Alignment explanation
Indices: 17619969--17619999 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17619959 ACAATTTAAA
17619969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17620000 AAAGTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17621909 original size:44 final size:45
Alignment explanation
Indices: 17621825--17621921 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 45
17621815 CAATTTCAAA
* ** * *
17621825 GAGATAAGATTTGCTATATTCAGTCTACTCCACTGTAACTTTAGG
1 GAGATAAGACTTGCTATATTCAACCTACTCCACTGCAACTTCAGG
* *
17621870 GAGATAAGACTTGC-ATCTTCAACCTGCTCCACTGCAACTTCAGG
1 GAGATAAGACTTGCTATATTCAACCTACTCCACTGCAACTTCAGG
*
17621914 GAGGTAAG
1 GAGATAAG
17621922 GTTAATGGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 31 0.70
45 13 0.30
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (45 bp):
GAGATAAGACTTGCTATATTCAACCTACTCCACTGCAACTTCAGG
Found at i:17621956 original size:133 final size:130
Alignment explanation
Indices: 17621720--17621964 Score: 289
Period size: 133 Copynumber: 1.9 Consensus size: 130
17621710 GCTTTGATTC
* *
17621720 ACTCCACTGCAACTTCAGGGAGATAATAATCATAACTTCAACCTGCCACTGCAATTTCAGGGGGA
1 ACTCCACTGCAACTTCAGGGAGATAAGAATCAT-ACTTCAACCTGCCACTGCAACTTCAGGGGGA
** * *
17621785 CAAGGTTTGTGGCTTTGATCTGCTCTACTACAATTTCAAAGAGATAAGATTTGCTATATTCAGTC
65 CAAGGTTAATGGCTTTGATCTGCTCCACTACAACTTCAAAGAGATAAGATTTGCTATATTCAGTC
17621850 T
130 T
* * *
17621851 ACTCCACTGTAACTTTAGGGAGATAAGACTTGCAT-CTTCAACCTGCTCCACTGCAACTTCAGGG
1 ACTCCACTGCAACTTCAGGGAGATAAGA-AT-CATACTTCAACCTG--CCACTGCAACTTCAGGG
* * * *
17621915 AGG-TAAGGTTAATGGCCTTT-ATCTGCTCCATTGCAACTTCAAGGAGATAA
62 -GGACAAGGTTAATGG-CTTTGATCTGCTCCACTACAACTTCAAAGAGATAA
17621965 AATTCGCCAT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
131 35 0.37
132 1 0.01
133 53 0.56
134 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (130 bp):
ACTCCACTGCAACTTCAGGGAGATAAGAATCATACTTCAACCTGCCACTGCAACTTCAGGGGGAC
AAGGTTAATGGCTTTGATCTGCTCCACTACAACTTCAAAGAGATAAGATTTGCTATATTCAGTCT
Found at i:17622178 original size:44 final size:44
Alignment explanation
Indices: 17622128--17622371 Score: 124
Period size: 44 Copynumber: 5.4 Consensus size: 44
17622118 TAACCTCAAC
17622128 CTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGGCTTCGAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGGCTTCGAT
* * * * * *
17622172 CTGCTCCATTACAACTTCAGGGAGATAAGATT--TGTCATGGTAGAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGGC-T--TCGAT
* * * * * **
17622217 TTGATCCGACCTGCTGCAACTT-TA-GAGGTATAGGATTTA-TAGCTTTAAT
1 CTGCTCC-A----CTGCAACTTCAAGGAGATA-AGG--TTAGTGGCTTCGAT
* * * * **
17622266 TTGCTCTACTGCAACTTC-AGAGAGATAAGATTCGCTATCTT-GAGT
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGGTTAG-TGGCTTCGA-T
* *
17622311 TTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGGCTTCGAT
17622355 CTGCTCCACTGCAACTT
1 CTGCTCCACTGCAACTT
17622372 TAGGGAGACA
Statistics
Matches: 149, Mismatches: 31, Indels: 40
0.68 0.14 0.18
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 60 0.40
45 47 0.32
46 8 0.05
48 6 0.04
49 10 0.07
50 7 0.05
51 3 0.02
52 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGGCTTCGAT
Found at i:17622241 original size:235 final size:234
Alignment explanation
Indices: 17621828--17622250 Score: 587
Period size: 235 Copynumber: 1.8 Consensus size: 234
17621818 TTTCAAAGAG
* ** * *
17621828 ATAAGATTTGCTATATTCAGTCTACTCCACTGTAACTTTAGGGAGATAAGACTTGCATCTTCAAC
1 ATAAGATTTGCTATATTCAGTCTACCCCACTACAACTTTAGGGAGATAAGACTTGCAACCTCAAC
* * * *
17621893 CTGCTCCACTGCAACTTCAGGGAGGTAAGGTTAATGGCCTTTATCTGCTCCATTGCAACTTCAAG
66 CTGCTCCACTGCAACTTCAAGGAGATAAGGTTAATGGCCTTGATCTGCTCCATTACAACTTCAAG
* *
17621958 GAGATAAAATTCGCCATGATAGATTTGATCCGACCCACTGCGACTTTAGATGTATAGGGCTTGTA
131 GAGATAAAATTCGCCATGATAGATTTGATCCGACCCACTGCAACTTTAGAGGTATAGGGCTTGTA
17622023 ACTCGTAGCTTTAACCTATTCTATTGAAACTTCAGGGAA
196 ACTCGTAGCTTTAACCTATTCTATTGAAACTTCAGGGAA
* ** * * * *
17622062 ATAAGATTTGCTATCTTCAGTCTACCCCACTACAGTTTTGGGGGGGCTAAGACTTGTAACCTCAA
1 ATAAGATTTGCTATATTCAGTCTACCCCACTACAACTTT-AGGGAGATAAGACTTGCAACCTCAA
*
17622127 CCTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGG-CTTCGATCTGCTCCATTACAACTTCA
65 CCTGCTCCACTGCAACTTCAAGGAGATAAGGTTAATGGCCTT-GATCTGCTCCATTACAACTTCA
* * * * * **
17622191 GGGAGATAAGATTTGTCATGGTAGATTTGATCCGACCTGCTGCAACTTTAGAGGTATAGG
129 AGGAGATAAAATTCGCCATGATAGATTTGATCCGACCCACTGCAACTTTAGAGGTATAGG
17622251 ATTTATAGCT
Statistics
Matches: 161, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
234 36 0.22
235 125 0.78
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (234 bp):
ATAAGATTTGCTATATTCAGTCTACCCCACTACAACTTTAGGGAGATAAGACTTGCAACCTCAAC
CTGCTCCACTGCAACTTCAAGGAGATAAGGTTAATGGCCTTGATCTGCTCCATTACAACTTCAAG
GAGATAAAATTCGCCATGATAGATTTGATCCGACCCACTGCAACTTTAGAGGTATAGGGCTTGTA
ACTCGTAGCTTTAACCTATTCTATTGAAACTTCAGGGAA
Found at i:17622546 original size:131 final size:131
Alignment explanation
Indices: 17622348--17622649 Score: 451
Period size: 131 Copynumber: 2.3 Consensus size: 131
17622338 AGGTTAGTGA
* * * *
17622348 CTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
1 CTTCGACCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
* * * *
17622413 GCTTAGGGAGATAAGATGGTGGCTTAAATCTGCTCCTCTACTAGTTAGGGAGACAAGATTCGCTA
66 GCTTAGGGAGATAAGAGGGTCGCTTAAATCTGCTCCACTACTAGTTAGGGAGACAAGATTCGCCA
17622478 T
131 T
* * *
17622479 TTTTGACCTGTTCCACTGCAACTTCAGGGAGTCAAGATCTACAATCTTCAGCCTACTCCACTACT
1 CTTCGACCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
* * * *
17622544 GCTTAGGGAGATAGGAGGGTCGCTTAAATTTGCTCCACTACTGGTTAGGGAGACAAGATTCGCCG
66 GCTTAGGGAGATAAGAGGGTCGCTTAAATCTGCTCCACTACTAGTTAGGGAGACAAGATTCGCCA
17622609 T
131 T
* *
17622610 CTTCGATCTGTTTCACTGCAACTTCAGGGAGACAAGATCT
1 CTTCGACCTGTTCCACTGCAACTTCAGGGAGACAAGATCT
17622650 GCAAATTCAC
Statistics
Matches: 151, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
131 151 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (131 bp):
CTTCGACCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
GCTTAGGGAGATAAGAGGGTCGCTTAAATCTGCTCCACTACTAGTTAGGGAGACAAGATTCGCCA
T
Found at i:17623995 original size:18 final size:19
Alignment explanation
Indices: 17623968--17624005 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17623958 TTAACCTTGG
17623968 TCTCTCC-TTTTTCTTTTT
1 TCTCTCCTTTTTTCTTTTT
*
17623986 TCTCTTCTTTTTTCTTTTT
1 TCTCTCCTTTTTTCTTTTT
17624005 T
1 T
17624006 TTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTCTCCTTTTTTCTTTTT
Found at i:17629099 original size:3 final size:3
Alignment explanation
Indices: 17629093--17629140 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
17629083 AATAATAATA
17629093 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17629141 TAGTCTGTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17631908 original size:60 final size:59
Alignment explanation
Indices: 17631832--17631968 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
17631822 AACTATGTTA
* * *
17631832 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGTAAGGCCCAATATACTCT-GA-TATATAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
17631892 ATATGGGTTAGGCCCAATATACTCTGATACTATAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGTAAGGCCCAATATACTCTGATA-TATAAAGGGCTACGGCCCAGATTAATACTG
17631952 ATATGGGCTAAGGCCCA
1 ATATGGG-TAAGGCCCA
17631969 GTTAACACTA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 49 0.75
61 15 0.23
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGTAAGGCCCAATATACTCTGATATATAAAGGGCTACGGCCCAGATTAATACTG
Found at i:17633809 original size:2 final size:2
Alignment explanation
Indices: 17633802--17633837 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17633792 CGGCATCACT
17633802 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17633838 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:17637046 original size:21 final size:21
Alignment explanation
Indices: 17637022--17637062 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17637012 GAAAAGATAA
*
17637022 AAATTAAAAATTAAAAAAAAT
1 AAATCAAAAATTAAAAAAAAT
*
17637043 AAATCAAAATTTAAAAAAAA
1 AAATCAAAAATTAAAAAAAA
17637063 ATCCTCACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATCAAAAATTAAAAAAAAT
Found at i:17642975 original size:26 final size:26
Alignment explanation
Indices: 17642946--17642998 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
17642936 CGTTTTAGGC
17642946 CTAAAACTCACCTCCAAGCAAAGTGA
1 CTAAAACTCACCTCCAAGCAAAGTGA
17642972 CTAAAACTCACCTCCAAGCAAAGTGA
1 CTAAAACTCACCTCCAAGCAAAGTGA
17642998 C
1 C
17642999 CGTTTTGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (26 bp):
CTAAAACTCACCTCCAAGCAAAGTGA
Found at i:17653903 original size:60 final size:59
Alignment explanation
Indices: 17653795--17653919 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 59
17653785 GGCCTTAGCT
* *
17653795 CATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCCTAACC
1 CATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATATTGGGCCTAACC
* * **
17653855 CATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATATTGGGCCTTGCC
1 CATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATATTGGGCCTAACC
17653915 CATAT
1 CATAT
17653920 TAACATAGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.07
60 47 0.84
61 5 0.09
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (59 bp):
CATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATATTGGGCCTAACC
Found at i:17654314 original size:26 final size:26
Alignment explanation
Indices: 17654259--17654318 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
17654249 AAAATTAACC
* * * *
17654259 CTAGAGGTATAACGGTCATTTTGCAC
1 CTAGGGGTAAAACGGTAATTTTGCAA
17654285 CTAGGGGTAAAACGGTAATTTT-CATA
1 CTAGGGGTAAAACGGTAATTTTGCA-A
17654311 CTAGGGGT
1 CTAGGGGT
17654319 GTTTTAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
CTAGGGGTAAAACGGTAATTTTGCAA
Found at i:17657546 original size:48 final size:48
Alignment explanation
Indices: 17657475--17657807 Score: 327
Period size: 48 Copynumber: 6.9 Consensus size: 48
17657465 ACATTTGGGT
* * * *
17657475 GATATGTGTGCCAGTGTAGGACCATGTCTAGG-ACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCCAC
* *
17657523 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGAT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCAC
* * * * * * *
17657571 GTTGTGAGAGCTAGTGTAAAACCATGTCTGGAACATGACATCGG-CATT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-C
* * *
17657619 GATAT-ATGCA-CTAGTGTAAGACCATGTTTGGAACATTGCATCGACCAC
1 GATATGA-G-AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCAC
**
17657667 -ATTATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACCAC
1 GA-TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCAC
* * * * **
17657715 -ATTATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCCTT
1 GA-TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCAC
* * *
17657763 GACATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
17657808 AATTCACCCT
Statistics
Matches: 237, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
47 7 0.03
48 225 0.95
49 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCAC
Found at i:17657739 original size:144 final size:144
Alignment explanation
Indices: 17657487--17657805 Score: 419
Period size: 144 Copynumber: 2.2 Consensus size: 144
17657477 TATGTGTGCC
* * *
17657487 AGTGTAGGACCATGTCTAGG-ACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGACCACGATATGAGAGCCAGTGTAAGACCATGTT
** * ** * * *
17657551 TGGAACATGGCATCGGCGATGTTGTGAGAGCTAGTGTAAAACCATGTCTGGAACATGACATCGGC
65 TGGAACATGGCATCAACCACATTATGAGAGCCAATGTAAAACCATGTCTGGAACATGACATCGGC
*
17657616 ATTGATATATGCA-CT
130 ATTGACATATG-AGCT
*
17657631 AGTGTAAGACCATGTTTGGAACATTGCATCGACCAC-ATTATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCACGA-TATGAGAGCCAGTGTAAGACCATGTT
* * * *
17657695 TGGAACATGGCATCAACCACATTATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGC
65 TGGAACATGGCATCAACCACATTATGAGAGCCAATGTAAAACCATGTCTGGAACATGACATCGGC
* *
17657760 CTTGACATGTGAGCT
130 ATTGACATATGAGCT
17657775 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTTTGGAACATGGCATCG
17657806 GCAATTCACC
Statistics
Matches: 152, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
143 5 0.03
144 147 0.97
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (144 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGACCACGATATGAGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCAACCACATTATGAGAGCCAATGTAAAACCATGTCTGGAACATGACATCGGCA
TTGACATATGAGCT
Found at i:17660061 original size:30 final size:30
Alignment explanation
Indices: 17660027--17660086 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
17660017 ATTTTTATTT
17660027 TTAATCAACCATTCACGAGGGTATTTGGTA
1 TTAATCAACCATTCACGAGGGTATTTGGTA
*
17660057 TTAATCAATCATTCACGAGGGTATTTGGTA
1 TTAATCAACCATTCACGAGGGTATTTGGTA
17660087 AACATAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (30 bp):
TTAATCAACCATTCACGAGGGTATTTGGTA
Found at i:17660389 original size:20 final size:20
Alignment explanation
Indices: 17660356--17660411 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
17660346 AATTCACCAA
17660356 TTAATTTTCATAATGAATATT
1 TTAATTTTCATAAT-AATATT
*
17660377 TTAATTTCTTAATAATAATATT
1 TTAA-TT-TTCATAATAATATT
*
17660399 TT-ATTTTAATAAT
1 TTAATTTTCATAAT
17660412 TTCACCTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 5 0.16
22 10 0.31
23 7 0.22
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATTTTCATAATAATATT
Found at i:17663285 original size:17 final size:17
Alignment explanation
Indices: 17663263--17663297 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17663253 TTCTTATTCA
*
17663263 TTTTTTT-TCTTTTTTC
1 TTTTTTTATATTTTTTC
17663279 TTTTTTTATATTTTTTC
1 TTTTTTTATATTTTTTC
17663296 TT
1 TT
17663298 GTTTCAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTATATTTTTTC
Found at i:17670874 original size:55 final size:54
Alignment explanation
Indices: 17670766--17671020 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
17670756 ATTAAGGTTT
* * *
17670766 AAGGATACCATGTAAGACCATGCCAAGGCATGTCAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * * *
17670821 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * * *
17670876 AAAGG-TCCCATTTAAGACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGT
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
17670929 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTTAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
17670978 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
17671021 GTACCCACGT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
52 6 0.04
53 44 0.26
54 8 0.05
55 69 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:17671233 original size:16 final size:16
Alignment explanation
Indices: 17671212--17671242 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17671202 ATAAATTTGA
17671212 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
17671228 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
17671243 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:17676394 original size:12 final size:13
Alignment explanation
Indices: 17676366--17676404 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
17676356 CATTAGTATG
17676366 GTAAT-AGCATGA
1 GTAATGAGCATGA
17676378 G-AATGAGCAT-A
1 GTAATGAGCATGA
17676389 GTAATG-GCATGA
1 GTAATGAGCATGA
17676401 GTAA
1 GTAA
17676405 GACAGTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.41, C:0.08, G:0.28, T:0.23
Consensus pattern (13 bp):
GTAATGAGCATGA
Found at i:17677014 original size:55 final size:55
Alignment explanation
Indices: 17676923--17677059 Score: 166
Period size: 55 Copynumber: 2.5 Consensus size: 55
17676913 TCACATACCC
* * * *
17676923 GTGTTAATCTAACAGGTTAGACCACGGTTGCTAGGCACGGGCGTGTCGCACGCCT
1 GTGTTAATTTGACAGGTTTGACCACGGTTGCAAGGCACGGGCGTGTCGCACGCCT
* * * *
17676978 GTGTTAATTTGACAGGTTTGGCCACGGTTTCAAGGCACGGGTGTGTCTCACGCCT
1 GTGTTAATTTGACAGGTTTGACCACGGTTGCAAGGCACGGGCGTGTCGCACGCCT
* * * *
17677033 GTGTTGATTTGGCAGGCTTGCCCACGG
1 GTGTTAATTTGACAGGTTTGACCACGG
17677060 CCATGTCGCA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.28
Consensus pattern (55 bp):
GTGTTAATTTGACAGGTTTGACCACGGTTGCAAGGCACGGGCGTGTCGCACGCCT
Found at i:17685062 original size:50 final size:51
Alignment explanation
Indices: 17684984--17685112 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
17684974 GACCATGGCA
*
17684984 ACAAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
17685035 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
17685085 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
17685113 CTGATTAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:17685174 original size:82 final size:82
Alignment explanation
Indices: 17685037--17685225 Score: 351
Period size: 82 Copynumber: 2.3 Consensus size: 82
17685027 GAAAAGTGAA
* * *
17685037 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGACAAGTGAAAAGTGGTA
1 AGTGAAAAGTGGTAGCTTCTGCTACACTTATCTGATCAATGACAAATGACAAGTGAAAAGTGGTA
17685102 GCTTCAGCTACCTGATT
66 GCTTCAGCTACCTGATT
17685119 AGTGAAAAGTGGTAGCTTCTGCTACACTTATCTGATCAATGACAAATGACAAGTGAAAAGTGGTA
1 AGTGAAAAGTGGTAGCTTCTGCTACACTTATCTGATCAATGACAAATGACAAGTGAAAAGTGGTA
17685184 GCTTCAGCTACCTGATT
66 GCTTCAGCTACCTGATT
17685201 AGTGAAAAGTGGTAGCTTCTGCTAC
1 AGTGAAAAGTGGTAGCTTCTGCTAC
17685226 CTGATCAGTG
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 104 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (82 bp):
AGTGAAAAGTGGTAGCTTCTGCTACACTTATCTGATCAATGACAAATGACAAGTGAAAAGTGGTA
GCTTCAGCTACCTGATT
Found at i:17685208 original size:31 final size:31
Alignment explanation
Indices: 17685170--17685349 Score: 256
Period size: 31 Copynumber: 5.8 Consensus size: 31
17685160 ACAAATGACA
* *
17685170 AGTGAAAAGTGGTAGCTTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
17685201 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
17685232 AGTGAAAAGTGGTAG-TTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
17685263 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* * *
17685294 AGTGAAAAATGGTAGCTCCGGCTATCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
17685325 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
17685350 AAGTGACAAG
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.01
31 132 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:17685360 original size:7 final size:7
Alignment explanation
Indices: 17685348--17685376 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
17685338 AGCTTCGGCT
17685348 ACAAGTG
1 ACAAGTG
17685355 ACAAGTG
1 ACAAGTG
17685362 ACAAGTG
1 ACAAGTG
17685369 ACAAGTG
1 ACAAGTG
17685376 A
1 A
17685377 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:17685451 original size:47 final size:46
Alignment explanation
Indices: 17685381--17685545 Score: 162
Period size: 47 Copynumber: 3.7 Consensus size: 46
17685371 AAGTGATTTC
* * * *
17685381 CGTATAAGATCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGATGAGATATATGATA
* *
17685427 CTGTATAAGACCATATCTGGGATATGGCATCAATGAGATATATGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGATGAGATATATGATA
* * *
17685474 CGTGTAAGACCATAGCTGGGTTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGATGAGATATATG-ATA
* *
17685516 TGTGTAAGACCATAGT-TGGGATATGGCATC
1 CGTATAAGACCATA-TCTGGGATATGGCATC
17685546 ATTATGTAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 8 0.08
42 28 0.27
46 27 0.26
47 40 0.39
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGATGAGATATATGATA
Found at i:17685541 original size:42 final size:42
Alignment explanation
Indices: 17685432--17685589 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 42
17685422 TGCTACTGTA
17685432 TAAGACCATA-TCTGGGATATGGCATCAATGAGATATATG-AT-TCGTG
1 TAAGACCATAGT-TGGGATATGGCATC-----GATATATGAATAT-GTG
* *
17685478 TAAGACCATAGCTGGGTTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGTTGGGATATGGCATCGATATATGAATATGTG
*
17685520 TAAGACCATAGTTGGGATATGGCATC-AT-TATGTAAAGATGTG
1 TAAGACCATAGTTGGGATATGGCATCGATATATG--AATATGTG
* *
17685562 TAAGGCCATAGTT-GAACTATGGCATCGA
1 TAAGACCATAGTTGGGA-TATGGCATCGA
17685590 GAAAACGAAG
Statistics
Matches: 98, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
40 4 0.04
41 12 0.12
42 57 0.58
43 2 0.02
46 23 0.23
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
TAAGACCATAGTTGGGATATGGCATCGATATATGAATATGTG
Found at i:17690429 original size:42 final size:42
Alignment explanation
Indices: 17690370--17690461 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
17690360 TGGCCCATAG
**
17690370 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
17690412 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
17690454 ACCCATTT
1 GCCCATTT
17690462 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:17690633 original size:23 final size:23
Alignment explanation
Indices: 17690603--17690768 Score: 260
Period size: 23 Copynumber: 7.1 Consensus size: 23
17690593 CCTTGCCTCT
* *
17690603 TTTAATAACTGGTGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17690626 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
17690649 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17690673 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17690696 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17690720 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17690743 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17690766 TTT
1 TTT
17690769 TGCACTTCCT
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 89 0.68
24 42 0.32
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17690661 original size:47 final size:47
Alignment explanation
Indices: 17690601--17690768 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
17690591 GGCCTTGCCT
* * *
17690601 CTTTTAATAACTGGTGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
17690648 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
17690695 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
17690742 C-TTTAATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
17690769 TGCACTTCCT
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 25 0.22
47 89 0.78
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:17690769 original size:70 final size:71
Alignment explanation
Indices: 17690603--17690770 Score: 268
Period size: 70 Copynumber: 2.4 Consensus size: 71
17690593 CCTTGCCTCT
* * * * * *
17690603 TTTAATAACTGGTGCAAAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
17690667 AAGCCC
66 AAGCCC
17690673 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
17690737 AAGCCC
66 AAGCCC
17690743 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
17690771 CACTTCCTCC
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 70 0.77
71 21 0.23
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (71 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
AAGCCC
Found at i:17690841 original size:9 final size:9
Alignment explanation
Indices: 17690827--17690883 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17690817 ATCTCATGTG
17690827 CATATCATA
1 CATATCATA
*
17690836 CATATCATGTG
1 CATATCA--TA
17690847 CATATCATA
1 CATATCATA
* *
17690856 CATGTCATGTG
1 CATATCA--TA
17690867 CATATCATA
1 CATATCATA
17690876 CATATCAT
1 CATATCAT
17690884 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:17690843 original size:20 final size:20
Alignment explanation
Indices: 17690815--17690885 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17690805 GCATTTATGA
*
17690815 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17690835 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17690855 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17690875 ACATATCATGT
1 ACATATCATGT
17690886 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17690850 original size:11 final size:11
Alignment explanation
Indices: 17690820--17690874 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17690810 TATGAACATC
17690820 TCATGTGCATA
1 TCATGTGCATA
*
17690831 TCA--TACATA
1 TCATGTGCATA
17690840 TCATGTGCATA
1 TCATGTGCATA
* *
17690851 TCA--TACATG
1 TCATGTGCATA
17690860 TCATGTGCATA
1 TCATGTGCATA
17690871 TCAT
1 TCAT
17690875 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17690961 original size:25 final size:24
Alignment explanation
Indices: 17690922--17690969 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
17690912 ATATATAAAC
* *
17690922 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAATGGTCA-TTTTA
17690947 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
17690970 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
CCTAGGGGCAAAATGGTCATTTTA
Found at i:17692218 original size:27 final size:27
Alignment explanation
Indices: 17692118--17692201 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
17692108 GGGCATATTC
* *
17692118 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
17692145 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
17692172 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
17692199 GTC
1 GTC
17692202 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:17692293 original size:27 final size:27
Alignment explanation
Indices: 17692263--17692314 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
17692253 GTAAATCTAC
17692263 AAACCAAAGGTATTTCAATAATTTTGT
1 AAACCAAAGGTATTTCAATAATTTTGT
* *
17692290 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCAATAATTTT
17692315 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAATAATTTTGT
Found at i:17692411 original size:54 final size:54
Alignment explanation
Indices: 17692325--17692492 Score: 203
Period size: 54 Copynumber: 3.1 Consensus size: 54
17692315 TAGAAAGTCA
* * ** * *
17692325 AGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
* *
17692379 AGGGTATTTCGGTAATTTTACAAGCCAAGGGTATTTTGGTAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
* * ** *
17692432 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 A-GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
17692487 AGGGTA
1 AGGGTA
17692493 AAACAGTAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 95 0.98
55 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
Found at i:17692464 original size:81 final size:81
Alignment explanation
Indices: 17692240--17692478 Score: 216
Period size: 81 Copynumber: 2.9 Consensus size: 81
17692230 TTTCATCCTA
* * * ** *** ** *
17692240 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAATAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
17692305 CTA-TAATTTTTAGAAAGT
65 C-AGTAA-TTTTAGAAAGC
* ***
17692323 CAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
* *
17692386 TTCGGTAATTTTA-CAAGC
63 TTCAGTAATTTTAGAAAGC
17692404 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
17692469 TAGTAATTTT
65 CAGTAATTTT
17692479 GTAAATCGAG
Statistics
Matches: 125, Mismatches: 24, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
79 2 0.02
80 7 0.06
81 60 0.48
82 5 0.04
83 45 0.36
84 4 0.03
85 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
AGTAATTTTAGAAAGC
Found at i:17692491 original size:27 final size:27
Alignment explanation
Indices: 17692271--17692546 Score: 144
Period size: 27 Copynumber: 10.1 Consensus size: 27
17692261 ACAAACCAAA
* * * * *
17692271 GGTATTTCAATAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
17692298 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * *
17692327 GGTATTTCT-GTAACTTTGTAAATCAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
17692354 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * **
17692381 GGTATTTCGGTAATTTTACAAGCCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
17692408 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
17692435 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
17692462 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
17692489 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
17692516 GGTAAAACAATAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
17692543 GGTA
1 GGTA
17692547 AAACAGTAAT
Statistics
Matches: 205, Mismatches: 37, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 173 0.84
28 15 0.07
29 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:17692519 original size:81 final size:81
Alignment explanation
Indices: 17692445--17692681 Score: 253
Period size: 81 Copynumber: 2.9 Consensus size: 81
17692435 GGTATTTTGG
* **** * *
17692445 TAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAA
1 TAATTTTACAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAA
* *
17692510 ATCAAGGGTAAAACAA
66 ATCGAGGGTAAAACGA
* * *
17692526 TAATTCTATAAATCAAGGGTAAAACAGTAA-TTCAGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 TAATTTTACAAATCAAGGGTAAAACAGTAATTTTA-TAAATCGAGGGTAAAACGGTAATTCTGTA
*
17692590 AGTCGAGGGTAAAACGA
65 AATCGAGGGTAAAACGA
* ** * ** * *
17692607 TAATTATGTAAATCAGGGGTAAAATGGTAATTATATAAAT-TAGGGGTAAAACGGTAATTCTGTA
1 TAATTTTACAAATCAAGGGTAAAACAGTAATTTTATAAATCGA-GGGTAAAACGGTAATTCTGTA
17692671 AATCGAGGGTA
65 AATCGAGGGTA
17692682 CTTTGGTAAT
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 3 0.02
81 126 0.96
82 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (81 bp):
TAATTTTACAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAA
ATCGAGGGTAAAACGA
Found at i:17692547 original size:27 final size:27
Alignment explanation
Indices: 17692471--17692681 Score: 242
Period size: 27 Copynumber: 7.8 Consensus size: 27
17692461 GGGTATTTTA
* * *
17692471 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
17692498 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
17692525 ATAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
17692552 GTAATTCAGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
17692579 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * * *
17692606 ATAATTATGTAAATCAGGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * * *
17692633 GTAATTATATAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
17692660 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTA
17692682 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACG
Found at i:17692716 original size:54 final size:53
Alignment explanation
Indices: 17692670--17692774 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
17692660 GTAATTCTGT
* *
17692670 AAATCGAGGGTACTTT-GGTAATTTTAC-AAGTCAAAGGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAAACT-AAAGGTATTTCGGT-AATTTAC
* *
17692724 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACTAAAGGTATTTCGGTAATTT
17692775 TAGTAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
53 8 0.18
54 34 0.76
55 3 0.07
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACTAAAGGTATTTCGGTAATTTAC
Found at i:17692735 original size:27 final size:27
Alignment explanation
Indices: 17692670--17692776 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
17692660 GTAATTCTGT
*
17692670 AAATCGAGGGTACTTT-GGTAATTTTAC
1 AAATCAAGGGTA-TTTCGGTAATTTTAC
* * *
17692697 AAGTCAAAGGTATTTCGGTAAATTTAC
1 AAATCAAGGGTATTTCGGTAATTTTAC
* * *
17692724 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCAAGGGTATTTCGGTAATTTTAC
17692751 AAA-CTAAGGGTATTTCGGTAATTTTA
1 AAATC-AAGGGTATTTCGGTAATTTTA
17692777 GTAAACTAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.06
27 61 0.94
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
AAATCAAGGGTATTTCGGTAATTTTAC
Found at i:17692790 original size:27 final size:27
Alignment explanation
Indices: 17692687--17692791 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
17692677 GGGTACTTTG
* * *
17692687 GTAATTTTACAAGTCAAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
17692714 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
17692741 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
17692768 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
17692792 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:17693823 original size:16 final size:16
Alignment explanation
Indices: 17693802--17693833 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17693792 TTTTCCTTCC
17693802 CATTTTTATTTTTTTT
1 CATTTTTATTTTTTTT
17693818 CATTTTTATTTTTTTT
1 CATTTTTATTTTTTTT
17693834 GTTAACAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
CATTTTTATTTTTTTT
Found at i:17700560 original size:19 final size:20
Alignment explanation
Indices: 17700523--17700560 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17700513 ATAAGGTGGT
17700523 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
17700543 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
17700561 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17707802 original size:46 final size:46
Alignment explanation
Indices: 17707688--17707857 Score: 170
Period size: 44 Copynumber: 3.8 Consensus size: 46
17707678 GGATGGTTGA
* ** *
17707688 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGAACAAG
* * *
17707734 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-AATGGAACAAG
* * * * *
17707778 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGA-ACAAG
*
17707825 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
17707858 TAGGGGCGGG
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.01
44 35 0.34
45 29 0.28
46 34 0.33
47 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGAACAAG
Found at i:17708121 original size:19 final size:20
Alignment explanation
Indices: 17708084--17708121 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17708074 ATAAGGTGGT
17708084 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
17708104 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
17708122 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17714622 original size:7 final size:7
Alignment explanation
Indices: 17714610--17714636 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17714600 AAATTAATAA
17714610 AATAAAT
1 AATAAAT
17714617 AATAAAT
1 AATAAAT
17714624 AATAAAT
1 AATAAAT
17714631 AATAAA
1 AATAAA
17714637 ATAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:17715755 original size:7 final size:7
Alignment explanation
Indices: 17715743--17715769 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17715733 ATTATTTTAT
17715743 TTTATTA
1 TTTATTA
17715750 TTTATTA
1 TTTATTA
17715757 TTTATTA
1 TTTATTA
17715764 TTTATT
1 TTTATT
17715770 TTATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:17726847 original size:31 final size:31
Alignment explanation
Indices: 17726812--17726886 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
17726802 ACGGTTACTG
*
17726812 GGCCGAAACCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
17726843 GGCCGAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
17726874 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
17726887 ACTGTAAACG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:17726957 original size:42 final size:42
Alignment explanation
Indices: 17726910--17727001 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
17726900 TGGCCCATAG
* ** * *
17726910 GCCCATTTCAATATCACATGTAATGTCAACGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAACGAATCTATGCAA
* *
17726952 GCCCATTTCAATATCATATGAAATACCAATGAATCTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAACGAATCTATGCAA
17726994 GCCCATTT
1 GCCCATTT
17727002 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAACGAATCTATGCAA
Found at i:17727218 original size:26 final size:26
Alignment explanation
Indices: 17727134--17727269 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
17727124 CTGGAAGCCT
17727134 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
17727158 AGCCCTTTTCGGTAAACTAGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
17727183 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
17727209 AGCCCTTTTCGGTAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
17727235 AGCCTTTTTCAATATACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
17727261 AGCCCTTTT
1 AGCCCTTTT
17727270 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 31 0.33
26 53 0.56
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:17727260 original size:52 final size:50
Alignment explanation
Indices: 17727134--17727269 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 50
17727124 CTGGAAGCCT
17727134 AGCCTCTTTT-AATAACTGGGGCA-AAGCCCTTTTCGGTAAACTAGGGCAA
1 AGCCT-TTTTCAATAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAA
*
17727183 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACT-GAGGCATA
1 AGCCTTTTTCAAT-AACTGGGGCATAAGCCCTTTTCGGTAAACTAG-GGCA-A
17727235 AGCCTTTTTCAATATACTGGGGCATAAGCCCTTTT
1 AGCCTTTTTCAATA-ACTGGGGCATAAGCCCTTTT
17727270 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
48 4 0.05
49 7 0.09
50 11 0.14
51 24 0.30
52 33 0.42
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
AGCCTTTTTCAATAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAA
Found at i:17727350 original size:20 final size:20
Alignment explanation
Indices: 17727321--17727425 Score: 158
Period size: 20 Copynumber: 5.2 Consensus size: 20
17727311 ATGAATACAG
17727321 CATGTGCATTTCATACATAT
1 CATGTGCATTTCATACATAT
*
17727341 CATATGCATTTCATACATAT
1 CATGTGCATTTCATACATAT
17727361 CATGTGCATTTCATACATAT
1 CATGTGCATTTCATACATAT
* *
17727381 CATCTGCATTTTATACATAT
1 CATGTGCATTTCATACATAT
*
17727401 CATGTGCATATCATATCA-AT
1 CATGTGCATTTCATA-CATAT
17727421 CATGT
1 CATGT
17727426 ATATCATATC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 75 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (20 bp):
CATGTGCATTTCATACATAT
Found at i:17728195 original size:27 final size:27
Alignment explanation
Indices: 17728133--17728210 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
17728123 GGGCATATTC
17728133 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
17728160 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
17728187 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
17728211 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:17728271 original size:27 final size:27
Alignment explanation
Indices: 17728241--17728293 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
17728231 GGGTGTTTTG
17728241 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * *
17728268 GTAATTTTATAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
17728294 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:17728299 original size:27 final size:27
Alignment explanation
Indices: 17728251--17728336 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
17728241 GTAAATCTAC
*
17728251 AAACCAAGGGTATTTC-AGTAATTTTAT
1 AAACCAATGGTATTTCTA-TAATTTTAT
*
17728278 AAACCAATGGTATTTCTATAATTTTTAA
1 AAACCAATGGTATTTCTATAA-TTTTAT
* * * *
17728306 AAAGTCAATGGTATTTTTGTAATTTTGT
1 AAA-CCAATGGTATTTCTATAATTTTAT
17728334 AAA
1 AAA
17728337 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 18 0.37
28 16 0.33
29 15 0.31
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (27 bp):
AAACCAATGGTATTTCTATAATTTTAT
Found at i:17728431 original size:81 final size:81
Alignment explanation
Indices: 17728314--17728494 Score: 272
Period size: 81 Copynumber: 2.2 Consensus size: 81
17728304 AAAAAGTCAA
** * * *
17728314 TGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 TGGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGG
17728379 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* *
17728395 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGG
1 TGGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGG
* *
17728460 TAATTTTACAAACTAG
66 TAATTTCACAAACCAG
*
17728476 GGGTATTTTTGTAATTTTA
1 TGGTATTTTTGTAATTTTA
17728495 TCCTACAGGG
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 89 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (81 bp):
TGGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:17728493 original size:54 final size:54
Alignment explanation
Indices: 17728229--17728494 Score: 241
Period size: 54 Copynumber: 4.9 Consensus size: 54
17728219 TTCATCCTAC
* * * * * ** * *
17728229 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
* * * * ** * ** *
17728283 AATGGTATTTCT-ATAATTTTTAAAAAGTCAATGGTATTTTTGTAATTTTGTAAATT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACT
* * * *
17728339 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACT
*
17728392 CAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
*
17728447 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTTGTAATTTTA
1 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTA
17728495 TCCTACAGGG
Statistics
Matches: 170, Mismatches: 34, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 117 0.69
55 20 0.12
56 32 0.19
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
Found at i:17728507 original size:54 final size:53
Alignment explanation
Indices: 17728315--17728519 Score: 232
Period size: 54 Copynumber: 3.8 Consensus size: 53
17728305 AAAAGTCAAT
* ** * *
17728315 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACTAG-G
* * *
17728369 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACTAGG
*
17728423 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACTAGG
* ** **
17728477 GGTATTTTTGTAATTTTATCCTACAGGGGTATTTCAGTAATTT
1 GGTATTTTGGTAATTTTA-CAAACAGGGGTATTTTGGTAATTT
17728520 CATAATCGAG
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 123 0.95
55 5 0.04
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.43
Consensus pattern (53 bp):
GGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACTAGG
Found at i:17728510 original size:27 final size:27
Alignment explanation
Indices: 17728315--17728494 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
17728305 AAAAGTCAAT
* ** *
17728315 GGTATTTTTGTAATTTTGTAAATTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
17728342 GGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
* * * *
17728369 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAGG
17728396 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
17728423 GGTATTTTGGTAATTTTACAAACTAAG
1 GGTATTTTGGTAATTTTACAAACTAGG
17728450 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
17728477 GGTATTTTTGTAATTTTA
1 GGTATTTTGGTAATTTTA
17728495 TCCTACAGGG
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 132 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:17728517 original size:81 final size:81
Alignment explanation
Indices: 17728258--17728519 Score: 260
Period size: 81 Copynumber: 3.2 Consensus size: 81
17728248 TACAAACCAA
* * * * * * *
17728258 GGGTATTTCAGTAATTTTATAAACCAATGGTATTTCT-ATAATTTTTAAAAAGTCAATGGTATTT
1 GGGTATTTCAGTAATTTTACAAACTAAGGGTATTT-TGGTAA-TTTTACAAACT-AGTGGTATTT
* *
17728322 TTGTAATTTTGT-AAATTAG
63 TTGTAATTTTATCAAA-CAG
** * * * * * *
17728341 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGTGGTATTTTTG
17728406 TAATTTTA-CAAACTAG
66 TAATTTTATCAAAC-AG
** *
17728422 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTTG
1 GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGTGGTATTTTTG
**
17728487 TAATTTTATCCTACAG
66 TAATTTTATCAAACAG
17728503 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
17728520 CATAATCGAG
Statistics
Matches: 147, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
81 106 0.72
82 10 0.07
83 31 0.21
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGTGGTATTTTTG
TAATTTTATCAAACAG
Found at i:17728563 original size:27 final size:27
Alignment explanation
Indices: 17728523--17728611 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
17728513 GTAATTTCAT
17728523 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
17728550 AA-CTGATGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
17728577 AATCGAGGGTAAAACGATAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
17728604 AATTGAGG
1 AATCGAGG
17728612 TTACTTTGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:17728637 original size:54 final size:54
Alignment explanation
Indices: 17728523--17728639 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
17728513 GTAATTTCAT
* * **
17728523 AATCGAGGGTAAAACGGTAATTTTGTAAACTGATGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTATAAACTGATGGTAAAATGGTAATTTTACA
* ***
17728577 AATCGAGGGTAAAACGATAATTTTATAAATTGA-GGTTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAACGATAATTTTATAAACTGATGG-TAAAATGGTAATTTTACA
*
17728631 AGTCGAGGG
1 AATCGAGGG
17728640 CATTTCAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.04
54 51 0.96
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTTTATAAACTGATGGTAAAATGGTAATTTTACA
Found at i:17730446 original size:4 final size:4
Alignment explanation
Indices: 17730439--17730476 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
17730429 AAACATATAT
17730439 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
17730477 ATTTAAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:17731034 original size:10 final size:10
Alignment explanation
Indices: 17731019--17731087 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
17731009 AGAGAAGATA
17731019 TTATTTTATT
1 TTATTTTATT
17731029 TTATTTTATT
1 TTATTTTATT
17731039 TTATTTTA-T
1 TTATTTTATT
*
17731048 TTATTATT-TA
1 TTATT-TTATT
17731058 TTA-TTTATT
1 TTATTTTATT
*
17731067 ATT-TATTATT
1 -TTATTTTATT
17731077 ATTATTTTATT
1 -TTATTTTATT
17731088 AATTTAGCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.04
9 8 0.16
10 33 0.67
11 6 0.12
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTTTATT
Found at i:17731056 original size:7 final size:7
Alignment explanation
Indices: 17731044--17731093 Score: 75
Period size: 7 Copynumber: 7.0 Consensus size: 7
17731034 TTATTTTATT
17731044 TTATTTA
1 TTATTTA
17731051 TTATTTA
1 TTATTTA
17731058 TTATTTA
1 TTATTTA
17731065 TTATTTA
1 TTATTTA
17731072 TTA-TTA
1 TTATTTA
17731078 TTATTTTA
1 TTA-TTTA
17731086 TTAATTTA
1 TT-ATTTA
17731094 GCTTTAGCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.15
7 24 0.60
8 9 0.22
9 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTTA
Found at i:17731061 original size:3 final size:3
Alignment explanation
Indices: 17731017--17731088 Score: 66
Period size: 3 Copynumber: 24.7 Consensus size: 3
17731007 AAAGAGAAGA
17731017 TAT TAT T-T TAT T-T TAT T-T TAT T-T TAT T-T TATT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
17731059 TATT TAT TATT TAT TAT TAT TAT T-T TAT TA
1 TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TA
17731089 ATTTAGCTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
2 12 0.20
3 35 0.59
4 12 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TAT
Found at i:17731088 original size:14 final size:14
Alignment explanation
Indices: 17731017--17731088 Score: 75
Period size: 14 Copynumber: 5.4 Consensus size: 14
17731007 AAAGAGAAGA
17731017 TATTATT-TTATTT
1 TATTATTATTATTT
17731030 TATT-TTATT-TTAT
1 TATTATTATTATT-T
17731043 T-TTATTTATTA-TT
1 TATTA-TTATTATTT
17731056 TATTATTTATTA-TT
1 TATTA-TTATTATTT
17731070 TATTATTATTATTT
1 TATTATTATTATTT
17731084 TATTA
1 TATTA
17731089 ATTTAGCTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.12
13 16 0.31
14 30 0.58
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:17737526 original size:64 final size:64
Alignment explanation
Indices: 17737437--17737565 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
17737427 AAATTGAGAT
17737437 AGTCTAATTTATCTATTTAGGGGATTAATTTGAAAAGTTATCAAAGTATAGAATTTTTTCCATG
1 AGTCTAATTTATCTATTTAGGGGATTAATTTGAAAAGTTATCAAAGTATAGAATTTTTTCCATG
17737501 AGTCTAATTTATCTATTTAGGGGATTAATTTGAAAAGTTATCAAAGTATAGAATTTTTTCCATG
1 AGTCTAATTTATCTATTTAGGGGATTAATTTGAAAAGTTATCAAAGTATAGAATTTTTTCCATG
17737565 A
1 A
17737566 ATGAATATGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.42
Consensus pattern (64 bp):
AGTCTAATTTATCTATTTAGGGGATTAATTTGAAAAGTTATCAAAGTATAGAATTTTTTCCATG
Done.