Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 38 of 82
Found at i:13994875 original size:21 final size:21
Alignment explanation
Indices: 13994849--13994897 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13994839 ACCTTCCTTC
* *
13994849 CTTTC-TCTCTCTTTTTTTTTT
1 CTTTCTTCTC-CTTTCTCTTTT
13994870 CTTTCTTCTCCTTTCTCTTTT
1 CTTTCTTCTCCTTTCTCTTTT
13994891 C-TTCTTC
1 CTTTCTTC
13994898 CTTTCTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 15 0.60
22 4 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (21 bp):
CTTTCTTCTCCTTTCTCTTTT
Found at i:13994892 original size:14 final size:14
Alignment explanation
Indices: 13994875--13994920 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
13994865 TTTTTCTTTC
13994875 TTCTCCTTTCTCTT
1 TTCTCCTTTCTCTT
* *
13994889 TTCTTCTTCCT-TT
1 TTCTCCTTTCTCTT
13994902 CTTCTCCTTTCTCTT
1 -TTCTCCTTTCTCTT
13994917 TTCT
1 TTCT
13994921 TCTTGGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
TTCTCCTTTCTCTT
Found at i:13994893 original size:17 final size:17
Alignment explanation
Indices: 13994871--13994923 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
13994861 TTTTTTTTTC
13994871 TTTCTTCTCCTTTCTCT
1 TTTCTTCTCCTTTCTCT
13994888 TTTC-T-T-C-TTC-C-
1 TTTCTTCTCCTTTCTCT
13994899 TTTCTTCTCCTTTCTCT
1 TTTCTTCTCCTTTCTCT
13994916 TTTCTTCT
1 TTTCTTCT
13994924 TGGTTATGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
11 4 0.13
12 2 0.07
13 4 0.13
14 2 0.07
15 4 0.13
16 2 0.07
17 12 0.40
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTCTTCTCCTTTCTCT
Found at i:13994907 original size:28 final size:28
Alignment explanation
Indices: 13994856--13994924 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
13994846 TTCCTTTCTC
* *
13994856 TCTCTTTT-TTTTTTCTTTCTTCTCCTT
1 TCTCTTTTCTTCTTCCTTTCTTCTCCTT
13994883 TCTCTTTTCTTCTTCCTTTCTTCTCCTT
1 TCTCTTTTCTTCTTCCTTTCTTCTCCTT
13994911 TCTCTTTTCTTCTT
1 TCTCTTTTCTTCTT
13994925 GGTTATGGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (28 bp):
TCTCTTTTCTTCTTCCTTTCTTCTCCTT
Found at i:13994923 original size:10 final size:10
Alignment explanation
Indices: 13994847--13994913 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
13994837 GAACCTTCCT
13994847 TCCTTTCTCTC
1 TCCTTTCT-TC
* * *
13994858 TCTTTTTTTT
1 TCCTTTCTTC
*
13994868 TTCTTTCTTC
1 TCCTTTCTTC
13994878 TCCTTTC-TC
1 TCCTTTCTTC
13994887 T--TTTCTTC
1 TCCTTTCTTC
13994895 TTCCTTTCTTC
1 -TCCTTTCTTC
13994906 TCCTTTCT
1 TCCTTTCT
13994914 CTTTTCTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
7 4 0.09
8 2 0.05
9 4 0.09
10 21 0.48
11 13 0.30
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (10 bp):
TCCTTTCTTC
Found at i:13995842 original size:11 final size:11
Alignment explanation
Indices: 13995822--13995851 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13995812 ACAGATAAAA
13995822 TATTAATATTT
1 TATTAATATTT
*
13995833 TATTATTATTT
1 TATTAATATTT
13995844 TATTAATA
1 TATTAATA
13995852 AAATATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTAATATTT
Found at i:14017416 original size:2 final size:2
Alignment explanation
Indices: 14017409--14017468 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
14017399 TGTGAAACAT
14017409 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14017451 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
14017469 AGTATGTATG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14019448 original size:39 final size:39
Alignment explanation
Indices: 14019404--14019482 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
14019394 GTGACTAGTG
14019404 AGAAAGACAAAAGGTTTGTTTTAATCATTCTTGTGGTCA
1 AGAAAGACAAAAGGTTTGTTTTAATCATTCTTGTGGTCA
14019443 AGAAAGACAAAAGGTTTGTTTTAATCATTCTTGTGGTCA
1 AGAAAGACAAAAGGTTTGTTTTAATCATTCTTGTGGTCA
14019482 A
1 A
14019483 TTTAGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.35
Consensus pattern (39 bp):
AGAAAGACAAAAGGTTTGTTTTAATCATTCTTGTGGTCA
Found at i:14042823 original size:29 final size:29
Alignment explanation
Indices: 14042790--14042847 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
14042780 GTGCAAGCAT
14042790 CTCAATGGAGACTTATGCATAGGTTTGGA
1 CTCAATGGAGACTTATGCATAGGTTTGGA
14042819 CTCAATGGAGACTTATGCATAGGTTTGGA
1 CTCAATGGAGACTTATGCATAGGTTTGGA
14042848 TTCTAAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (29 bp):
CTCAATGGAGACTTATGCATAGGTTTGGA
Found at i:14046039 original size:40 final size:40
Alignment explanation
Indices: 14045980--14046058 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
14045970 TTGGCTATTT
* *
14045980 TTCACCTTAGTGGGATTTTCAACCTTGCCAAGATTGGTGA
1 TTCACCTTAGTGAGATTTTCAACCTCGCCAAGATTGGTGA
*
14046020 TTCACCTTAGTGA-AGTTTTCAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGAGA-TTTTCAACCTCGCCAAGATTGGTG
14046059 TCTTTCACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (40 bp):
TTCACCTTAGTGAGATTTTCAACCTCGCCAAGATTGGTGA
Found at i:14046089 original size:19 final size:20
Alignment explanation
Indices: 14046055--14046092 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
14046045 CGCCACGATT
14046055 GGTGTCTTTCACAATGCCCA
1 GGTGTCTTTCACAATGCCCA
14046075 GGTGTCTTT-ACAATGCCC
1 GGTGTCTTTCACAATGCCC
14046093 CGGCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (20 bp):
GGTGTCTTTCACAATGCCCA
Found at i:14048694 original size:40 final size:40
Alignment explanation
Indices: 14048637--14048715 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
14048627 TTGGCTATTT
* *
14048637 TTCACCTTAATGGGGTTTTCAACCTTGCCAAGATTGGTGA
1 TTCACCTTAATGAGGTTTTCAACCTCGCCAAGATTGGTGA
* * *
14048677 TTCACCTTAGTGAGGTTTTCAACCTCGTCATGATTGGTG
1 TTCACCTTAATGAGGTTTTCAACCTCGCCAAGATTGGTG
14048716 TCTTTCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (40 bp):
TTCACCTTAATGAGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:14066193 original size:2 final size:2
Alignment explanation
Indices: 14066182--14066211 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14066172 AAGGCATAAC
14066182 AT AT AT -T 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
14066212 AACAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14068676 original size:352 final size:346
Alignment explanation
Indices: 14067697--14068729 Score: 1305
Period size: 352 Copynumber: 3.0 Consensus size: 346
14067687 GCTTGATAAC
* * * * *
14067697 AATAAGTTGGTTTAAGAATATGAGATAAAAAAGTTGTAAAAACTATGTGTTTATAAGAAAACTGG
1 AATAGGTTAGTTTAAGAATATGAGACAAAGAAGTTGTAAAAA-T-TGTGTTTATAAGAAAGCTGG
* * *
14067762 TCACTAGATAGAAATTGAGTAATGGGATGTTTGGTGACAAGGTTGCTTTTTGAAACGAAAGGGTA
64 TCACTAGATAGAAATTGAGTAATGGGATGTTTAGTGACAAGGTTGTTTTTTG-AA-GGAAGGGTA
* * * * * *
14067827 GAATGATAGGCTTCAAGATATTTGGGTGGTTTTTTTGTCTAGTGTTTTTTCTTGGCTGTAAAGTA
127 TAATGATAGGCTTCAAGATATTTAGGTGGTTTTTTTATCTAGTGCTTTTTCTAGGCTATAAAGTA
* *
14067892 TATGAAGAATCAGTAGAGGGGATAGAA-AAA-TATGCAATTTCATTAGAATTCAAATATGACAAG
192 TATGAAGAATCAGTAGATGGGATAGAAGAAAGTAT--AATTTCATGAGAATTCAAATATGACAAG
* * **
14067955 TTAGTATGTGCAAGGGTATCATTGGAAGAAATAATAACATCTATAAAAATGCTATTTCAAGCTTT
255 TTAGTATGTGCAAGGGTATTATTGGAAGAAATAATAACATCTACAAAAATGCTATAACAAG-TTT
*
14068020 GAAATAAGGCTAGAAATAACTTGATGGT
319 GAAATAAAGCTAGAAATAACTTGATGGT
*
14068048 AATAGGTTAGTTTAAGAATATGAGATAAAGAAGTTGTAAAAATTGTGTTT-TAAGAAAGCTGGTC
1 AATAGGTTAGTTTAAGAATATGAGACAAAGAAGTTGTAAAAATTGTGTTTATAAGAAAGCTGGTC
* * *** * *
14068112 ACTAGACAAAAATTGAGTAACAAGATGTTTAGTGATAAGGTTTGTTTTTTGAAGGAAAGGTAT-A
66 ACTAGATAGAAATTGAGTAATGGGATGTTTAGTGACAAGG-TTGTTTTTTGAAGGAAGGGTATAA
* * *
14068176 --AT----TTCAAGATATTTAGGTTGTTTTTTTTTCTAGTGCTTTTTCTAGGCTATAAGGTATAT
130 TGATAGGCTTCAAGATATTTAGGTGGTTTTTTTATCTAGTGCTTTTTCTAGGCTATAAAGTATAT
* * ** ** *
14068235 GAAGAATCAGTAGATGGGGATAAAAGAATGTGCAATTTCATGAGAATTCAAATATGTTAAGTTAA
195 GAAGAATCAGTAGAT-GGGATAGAAGAAAGTATAATTTCATGAGAATTCAAATATGACAAGTTAG
* * * *
14068300 TATGTGTAAGGGCATTATTGGAAGAAATAATAACATCTGCATAAATGCTATAAACAAGTTCTGAA
259 TATGTGCAAGGGTATTATTGGAAGAAATAATAACATCTACAAAAATGCTAT-AACAAGTT-TGAA
* *
14068365 ATAAAGTTAGAAATAGCTTGATGGT
322 ATAAAGCTAGAAATAACTTGATGGT
* * * * *
14068390 AATAGGTTAGTTTAGGAATATGAGACAAAGAAGCTATG-CAAACTTCGTGTTTATAAGAAAGTTA
1 AATAGGTTAGTTTAAGAATATGAGACAAAGAAG-T-TGTAAAAATT-GTGTTTATAAGAAAGCTG
14068454 GTCACTAGATAGAAATTGAGTAATGGGATGTTTAGTGACAAGGTTGGTTTTTTGAAGGAAGGGTA
63 GTCACTAGATAGAAATTGAGTAATGGGATGTTTAGTGACAAGGTT-GTTTTTTGAAGGAAGGGTA
*
14068519 TAATGATAGGCTTTAAGATATTTAGGTGGTTTTTTCTATCTAGTGCTTTTTCTAGGCTATAAAGT
127 TAATGATAGGCTTCAAGATATTTAGGTGGTTTTTT-TATCTAGTGCTTTTTCTAGGCTATAAAGT
* * *
14068584 ATATGAAGAATCAATAGATGGGACAGAAGAAAGTATAATTTCATGAGAATTCAAATATGGCAAGT
191 ATATGAAGAATCAGTAGATGGGATAGAAGAAAGTATAATTTCATGAGAATTCAAATATGACAAGT
* *
14068649 TAGTATTTGCAAGGGTATTATTGGAAGAAATAATATCATCTACAAAAATGCTATTAACAAGTTTT
256 TAGTATGTGCAAGGGTATTATTGGAAGAAATAATAACATCTACAAAAATGCTA-TAACAAG-TTT
**
14068714 GAAATAGGGCTAGAAA
319 GAAATAAAGCTAGAAA
14068730 CAAGTTTAGA
Statistics
Matches: 584, Mismatches: 77, Indels: 41
0.83 0.11 0.06
Matches are distributed among these distances:
340 64 0.11
341 83 0.14
342 63 0.11
343 7 0.01
344 12 0.02
345 65 0.11
346 2 0.00
347 7 0.01
348 50 0.09
349 16 0.03
350 1 0.00
351 39 0.07
352 127 0.22
353 48 0.08
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (346 bp):
AATAGGTTAGTTTAAGAATATGAGACAAAGAAGTTGTAAAAATTGTGTTTATAAGAAAGCTGGTC
ACTAGATAGAAATTGAGTAATGGGATGTTTAGTGACAAGGTTGTTTTTTGAAGGAAGGGTATAAT
GATAGGCTTCAAGATATTTAGGTGGTTTTTTTATCTAGTGCTTTTTCTAGGCTATAAAGTATATG
AAGAATCAGTAGATGGGATAGAAGAAAGTATAATTTCATGAGAATTCAAATATGACAAGTTAGTA
TGTGCAAGGGTATTATTGGAAGAAATAATAACATCTACAAAAATGCTATAACAAGTTTGAAATAA
AGCTAGAAATAACTTGATGGT
Found at i:14070248 original size:43 final size:42
Alignment explanation
Indices: 14070172--14070297 Score: 189
Period size: 43 Copynumber: 3.0 Consensus size: 42
14070162 GCCATACTCC
* * *
14070172 GCTCATGTGCACTCCCTACTCGAACATAACTGGGTCATCATCA
1 GCTCATGTGCACTCCC-ACACGCACATAGCTGGGTCATCATCA
* *
14070215 GCTCATGTGTACTCCCACACCGCATATAGCTGGGTCATCATCA
1 GCTCATGTGCACTCCCACA-CGCACATAGCTGGGTCATCATCA
14070258 GCTCATGTGCACTCCCACACGCACATAGCTGGGTCATCAT
1 GCTCATGTGCACTCCCACACGCACATAGCTGGGTCATCAT
14070298 TATCACACAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 22 0.29
43 53 0.71
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (42 bp):
GCTCATGTGCACTCCCACACGCACATAGCTGGGTCATCATCA
Found at i:14077177 original size:26 final size:31
Alignment explanation
Indices: 14077148--14077206 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 31
14077138 ATTTTCTAGT
14077148 TTTCCT-T-TATTTT-TCTCTT-TTC-TTCC
1 TTTCCTCTCTATTTTCTCTCTTGTTCTTTCC
14077174 TTTCCTCTCTATTTTCTCTCTTGTTCTTTCC
1 TTTCCTCTCTATTTTCTCTCTTGTTCTTTCC
14077205 TT
1 TT
14077207 ATGGCCGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 6 0.21
27 1 0.04
28 6 0.21
29 6 0.21
30 3 0.11
31 6 0.21
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.66
Consensus pattern (31 bp):
TTTCCTCTCTATTTTCTCTCTTGTTCTTTCC
Found at i:14082838 original size:19 final size:18
Alignment explanation
Indices: 14082810--14082846 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
14082800 AATCCAATAA
14082810 CTTTAAAATCAAAAACTT
1 CTTTAAAATCAAAAACTT
*
14082828 CTTTCAAAATCATAAACTT
1 CTTT-AAAATCAAAAACTT
14082847 TTAAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (18 bp):
CTTTAAAATCAAAAACTT
Found at i:14084791 original size:14 final size:16
Alignment explanation
Indices: 14084772--14084803 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14084762 ACCAATTTAA
14084772 CTAAAAA-T-CAAAAT
1 CTAAAAATTCCAAAAT
14084786 CTAAAAATTCCAAAAT
1 CTAAAAATTCCAAAAT
14084802 CT
1 CT
14084804 CTCCCCTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
CTAAAAATTCCAAAAT
Found at i:14085004 original size:26 final size:26
Alignment explanation
Indices: 14084975--14085033 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
14084965 ATTTTCTAGT
* *
14084975 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
14085001 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
14085027 TTTCCTT
1 TTTCCTT
14085034 ATGGCTGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:14091420 original size:35 final size:35
Alignment explanation
Indices: 14091365--14091474 Score: 123
Period size: 35 Copynumber: 3.1 Consensus size: 35
14091355 AAGTGAAATG
* * *
14091365 CTACTTCACGCAGAATAACTAGAATAAGTAAAGCG
1 CTACTTCACACAGAACAACTAGAATAAGTAAAGCA
* * * *
14091400 CTACTTCACACAAAACAACTAGAACAAGTGAAGTA
1 CTACTTCACACAGAACAACTAGAATAAGTAAAGCA
* *
14091435 CTACTT-AAAGCAGAACAAGTAGAATAAGTAAAGCA
1 CTACTTCACA-CAGAACAACTAGAATAAGTAAAGCA
14091470 CTACT
1 CTACT
14091475 CCATATGAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
34 2 0.03
35 59 0.97
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (35 bp):
CTACTTCACACAGAACAACTAGAATAAGTAAAGCA
Found at i:14091427 original size:70 final size:70
Alignment explanation
Indices: 14091343--14091474 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
14091333 TTGTACAGAG
* * * * *
14091343 AACAACCTGAACAAGTGAAATGCTACTTCACGCAGAATAACTAGAATAAGTAAAGCGCTACTTCA
1 AACAACCTGAACAAGTGAAATACTACTTAAAGCAGAACAACTAGAATAAGTAAAGCACTACTTCA
14091408 CACAA
66 CACAA
* *
14091413 AACAA-CTAGAACAAGTGAAGTACTACTTAAAGCAGAACAAGTAGAATAAGTAAAGCACTACT
1 AACAACCT-GAACAAGTGAAATACTACTTAAAGCAGAACAACTAGAATAAGTAAAGCACTACT
14091475 CCATATGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 2 0.04
70 52 0.96
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (70 bp):
AACAACCTGAACAAGTGAAATACTACTTAAAGCAGAACAACTAGAATAAGTAAAGCACTACTTCA
CACAA
Found at i:14091737 original size:29 final size:29
Alignment explanation
Indices: 14091705--14091778 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
14091695 TATTCTTGTA
*
14091705 TACCTATTCATGTACAGCTTCTTCTCTTG
1 TACCTATTCATGTACAGCTTATTCTCTTG
* *
14091734 TACCTGTTC-TCGTACAGCTTATTCTTTTG
1 TACCTATTCAT-GTACAGCTTATTCTCTTG
* *
14091763 TACCTTTTCACGTACA
1 TACCTATTCATGTACA
14091779 TCTCTTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 1 0.03
29 37 0.97
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.45
Consensus pattern (29 bp):
TACCTATTCATGTACAGCTTATTCTCTTG
Found at i:14098714 original size:19 final size:19
Alignment explanation
Indices: 14098675--14098714 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14098665 TAAAATAGAT
* * *
14098675 TCTTTTTTCCTTGTGTTTC
1 TCTTTTTGCCTTATGTCTC
14098694 TCTTTTTGCCTTATGTCTC
1 TCTTTTTGCCTTATGTCTC
14098713 TC
1 TC
14098715 CAGAATCGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.25, G:0.10, T:0.62
Consensus pattern (19 bp):
TCTTTTTGCCTTATGTCTC
Found at i:14110916 original size:12 final size:12
Alignment explanation
Indices: 14110899--14110923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14110889 CTAGGCAATC
14110899 ATATATATACAT
1 ATATATATACAT
14110911 ATATATATACAT
1 ATATATATACAT
14110923 A
1 A
14110924 CACACATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATACAT
Found at i:14111690 original size:20 final size:20
Alignment explanation
Indices: 14111662--14111720 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
14111652 TCCAATTTCC
* *
14111662 AAATCTATCGATACATCTTT
1 AAATGTATCGATACATCTTG
***
14111682 AAATGTATCGATACATGAGG
1 AAATGTATCGATACATCTTG
*
14111702 AGATGTATCGATACATCTT
1 AAATGTATCGATACATCTT
14111721 CCCCTATAGG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATCTTG
Found at i:14113280 original size:25 final size:23
Alignment explanation
Indices: 14113252--14113299 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
14113242 AAAATAATGC
14113252 AAGTGATCCATTTCAAACAATATCA
1 AAGTGATCC-TTTCAAAC-ATATCA
**
14113277 AAGTTTTCCTTTCAAACATATCA
1 AAGTGATCCTTTCAAACATATCA
14113300 CATACTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (23 bp):
AAGTGATCCTTTCAAACATATCA
Found at i:14121195 original size:3 final size:3
Alignment explanation
Indices: 14121187--14121220 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
14121177 TTCTCTCTTG
* *
14121187 TCT TCT TCT TCT CCT TCT TCT TCT TCT TTT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
14121221 TAAGCTCCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:14126460 original size:14 final size:13
Alignment explanation
Indices: 14126441--14126480 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
14126431 TTGACTCATC
14126441 TAAAATAACTAAA
1 TAAAATAACTAAA
*
14126454 TTAAAATAATTAAA
1 -TAAAATAACTAAA
14126468 TAAAATATACTAA
1 TAAAATA-ACTAA
14126481 TTTTTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAATAACTAAA
Found at i:14133226 original size:17 final size:17
Alignment explanation
Indices: 14133204--14133236 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14133194 CACTTTTGGA
14133204 CTTTAGCTTA-CTAACTC
1 CTTTAG-TTATCTAACTC
14133221 CTTTAGTTATCTAACT
1 CTTTAGTTATCTAACT
14133237 AAGAGACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
CTTTAGTTATCTAACTC
Found at i:14133960 original size:2 final size:2
Alignment explanation
Indices: 14133953--14133983 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14133943 TTAATACATG
14133953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14133984 NNNNNNNNNN
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14136467 original size:11 final size:11
Alignment explanation
Indices: 14136451--14136477 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14136441 CAGCTTGCTC
14136451 CTCACTTTATT
1 CTCACTTTATT
14136462 CTCACTTTATT
1 CTCACTTTATT
14136473 CTCAC
1 CTCAC
14136478 ATTCCTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (11 bp):
CTCACTTTATT
Found at i:14139501 original size:5 final size:5
Alignment explanation
Indices: 14139491--14139545 Score: 64
Period size: 5 Copynumber: 11.6 Consensus size: 5
14139481 ATTATATATT
14139491 TTTTC TTTTC TTTT- TTTTC TTTTC TTTTC -TTTC TCTTT- TTTTC -TTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC TTTTC
*
14139538 TTCTC TTT
1 TTTTC TTT
14139546 CTCGCCGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
4 15 0.35
5 25 0.58
6 3 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:14139508 original size:14 final size:14
Alignment explanation
Indices: 14139492--14139545 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
14139482 TTATATATTT
*
14139492 TTTCTTTTCTTTTT
1 TTTCTTTTCTTTTC
14139506 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
14139520 TTTCTCTTT-TTTTC
1 TTTCT-TTTCTTTTC
*
14139534 TTTCTTCTCTTT
1 TTTCTTTTCTTT
14139546 CTCGCCGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 2 0.06
14 31 0.86
15 3 0.08
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTCTTTTC
Found at i:14139515 original size:19 final size:19
Alignment explanation
Indices: 14139489--14139545 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
14139479 TTATTATATA
*
14139489 TTTTTTCTTTTCTTT-TTT
1 TTTTTTCTTTTCTTTCTCT
14139507 TTCTTTTCTTTTCTTTCTCT
1 TT-TTTTCTTTTCTTTCTCT
14139527 TTTTTTC-TTTC-TTCTCT
1 TTTTTTCTTTTCTTTCTCT
14139544 TT
1 TT
14139546 CTCGCCGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 18 0.50
20 4 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTTCTTTCTCT
Found at i:14139529 original size:23 final size:23
Alignment explanation
Indices: 14139491--14139548 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
14139481 ATTATATATT
14139491 TTTTCTTT-TCTTTTTTTTCTTTTC
1 TTTTCTTTCTC-TTTTTTTC-TTTC
14139515 TTTTCTTTCTCTTTTTTTCTTTC
1 TTTTCTTTCTCTTTTTTTCTTTC
*
14139538 TTCTCTTTCTC
1 TTTTCTTTCTC
14139549 GCCGGTCAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 14 0.44
24 16 0.50
25 2 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCTTTCTCTTTTTTTCTTTC
Found at i:14139722 original size:33 final size:34
Alignment explanation
Indices: 14139674--14139763 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
14139664 ACCAAAATTT
14139674 TCAGCAGCCAAAGCTGCTC-ATATCAACCTC-AAAA
1 TCAGCAGCC-AAGCTGCTCTAT-TCAACCTCAAAAA
* **
14139708 TCAGCAACCAAGCTGCTCTATTCTTCCTCAAAAA
1 TCAGCAGCCAAGCTGCTCTATTCAACCTCAAAAA
*
14139742 TCAGCAGCTAAGCTGCTCTATT
1 TCAGCAGCCAAGCTGCTCTATT
14139764 TGTCTTCCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 15 0.31
34 34 0.69
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.24
Consensus pattern (34 bp):
TCAGCAGCCAAGCTGCTCTATTCAACCTCAAAAA
Found at i:14139776 original size:34 final size:34
Alignment explanation
Indices: 14139703--14139794 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
14139693 ATATCAACCT
* *
14139703 CAAAATCAGCAACCAAGCTGCTCTATTCTTCCTC
1 CAAAATCAGCAGCTAAGCTGCTCTATTCTTCCTC
* *
14139737 AAAAATCAGCAGCTAAGCTGCTCTATT-TGTCTTC
1 CAAAATCAGCAGCTAAGCTGCTCTATTCT-TCCTC
14139771 CAAAATTCAGCAG-TCAAGCTGCTC
1 CAAAA-TCAGCAGCT-AAGCTGCTC
14139795 CTTCCTCCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
33 1 0.02
34 33 0.66
35 16 0.32
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (34 bp):
CAAAATCAGCAGCTAAGCTGCTCTATTCTTCCTC
Found at i:14139782 original size:35 final size:33
Alignment explanation
Indices: 14139674--14139794 Score: 104
Period size: 34 Copynumber: 3.5 Consensus size: 33
14139664 ACCAAAATTT
* **
14139674 TCAGCAGCCAAAGCTGCTC-ATATCAACCTCAAAA
1 TCAGCAG-CTAAGCTGCTCTAT-TCTTCCTCAAAA
* *
14139708 TCAGCAACCAAGCTGCTCTATTCTTCCTCAAAAA
1 TCAGCAGCTAAGCTGCTCTATTCTTCCTC-AAAA
*
14139742 TCAGCAGCTAAGCTGCTCTATT-TGTCTTCCAAAA
1 TCAGCAGCTAAGCTGCTCTATTCT-TCCT-CAAAA
14139776 TTCAGCAG-TCAAGCTGCTC
1 -TCAGCAGCT-AAGCTGCTC
14139795 CTTCCTCCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
33 17 0.23
34 40 0.54
35 17 0.23
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (33 bp):
TCAGCAGCTAAGCTGCTCTATTCTTCCTCAAAA
Found at i:14147409 original size:3 final size:3
Alignment explanation
Indices: 14147401--14147427 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14147391 ACCTATCCAA
14147401 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
14147428 TTTTAGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14155104 original size:20 final size:20
Alignment explanation
Indices: 14155064--14155104 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14155054 TCCCTTTTTT
* * *
14155064 CTCTCTCATCTTTTCTTTTC
1 CTCTCTCATATTTCCTCTTC
14155084 CTCTCTCATATTTCCTCTTC
1 CTCTCTCATATTTCCTCTTC
14155104 C
1 C
14155105 ACTTTCTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.07, C:0.39, G:0.00, T:0.54
Consensus pattern (20 bp):
CTCTCTCATATTTCCTCTTC
Found at i:14157035 original size:2 final size:2
Alignment explanation
Indices: 14157028--14157066 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
14157018 CAACTTCATA
14157028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14157067 TTCTTATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14159631 original size:34 final size:35
Alignment explanation
Indices: 14159584--14159651 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
14159574 ATTCACAAGC
*
14159584 TTTACAATGGTTTTTCAAGG-CTAAACCAAAACCT
1 TTTACAATAGTTTTTCAAGGACTAAACCAAAACCT
* * *
14159618 TTTACACTAGTTTTTCACGGACTAAACTAAAACC
1 TTTACAATAGTTTTTCAAGGACTAAACCAAAACC
14159652 CAAAGTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (35 bp):
TTTACAATAGTTTTTCAAGGACTAAACCAAAACCT
Found at i:14159678 original size:67 final size:66
Alignment explanation
Indices: 14159594--14159721 Score: 159
Period size: 67 Copynumber: 1.9 Consensus size: 66
14159584 TTTACAATGG
*** *
14159594 TTTTTCAAGGCTAAACCAAAACCTTTTACACTAGTTTTTCAC-GGACTAAACTAAAACCCAAAGT
1 TTTTTCAAGGCTAAACCAAAACCTACAACAATAGTTTTTCACGGGA-TAAACTAAAACCCAAAGT
14159658 GA
65 GA
* * * *
14159660 TTTTTCCAAGGCTCAACCACAACCTACAACAATGGTTTTTCACGGGATCAACTAAAACCCAA
1 TTTTT-CAAGGCTAAACCAAAACCTACAACAATAGTTTTTCACGGGATAAACTAAAACCCAA
14159722 CAACTAACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
66 5 0.10
67 44 0.85
68 3 0.06
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.27
Consensus pattern (66 bp):
TTTTTCAAGGCTAAACCAAAACCTACAACAATAGTTTTTCACGGGATAAACTAAAACCCAAAGTG
A
Found at i:14160655 original size:21 final size:22
Alignment explanation
Indices: 14160630--14160670 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14160620 CTTAGGTGGA
*
14160630 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
14160651 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
14160671 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:14160671 original size:20 final size:21
Alignment explanation
Indices: 14160630--14160674 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14160620 CTTAGGTGGA
*
14160630 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
14160651 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
14160671 AAAA
1 AAAA
14160675 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:14160675 original size:21 final size:20
Alignment explanation
Indices: 14160628--14160675 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
14160618 ACCTTAGGTG
*
14160628 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
14160648 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
14160670 GAAAAA
1 GAAAAA
14160676 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:14174738 original size:20 final size:20
Alignment explanation
Indices: 14174713--14174758 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
14174703 CCTCTAAACC
14174713 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
14174733 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
14174753 TCAAAT
1 TCAAAT
14174759 GGGGACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:14175404 original size:13 final size:13
Alignment explanation
Indices: 14175386--14175410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14175376 TGAATAAATG
14175386 TGATTTTATAAAA
1 TGATTTTATAAAA
14175399 TGATTTTATAAA
1 TGATTTTATAAA
14175411 TTTTTAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14188488 original size:21 final size:21
Alignment explanation
Indices: 14188467--14188506 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14188457 TTAAAGTAAT
14188467 TTTAA-AAAAATAACATAAAA
1 TTTAACAAAAATAACATAAAA
* *
14188487 TTTAACTAAAATAACTTAAA
1 TTTAACAAAAATAACATAAA
14188507 TTAACCACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTAACAAAAATAACATAAAA
Found at i:14188571 original size:21 final size:22
Alignment explanation
Indices: 14188547--14188589 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14188537 CTAGAAAAAT
14188547 ACCTAAAATGC-TAAA-ATCTAA
1 ACCTAAAAT-CTTAAAGATCTAA
14188568 ACCTAAAATCTTAAAGATCTAA
1 ACCTAAAATCTTAAAGATCTAA
14188590 CTACTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.05
21 13 0.65
22 6 0.30
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.26
Consensus pattern (22 bp):
ACCTAAAATCTTAAAGATCTAA
Found at i:14190490 original size:68 final size:68
Alignment explanation
Indices: 14190381--14190637 Score: 286
Period size: 68 Copynumber: 3.8 Consensus size: 68
14190371 CATGTTTGGT
* * *
14190381 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTTCATATACCATATGAGATGATCAACTA
1 ATGATTAATACCATAAGATTATGTATATGATGTAAATTTCATATACCATATGAGGTGATCAACTA
14190446 TGC
66 TGC
* * * *
14190449 ATGATGT-ATACTATAAGATTGTGTATATGATGTAAATTTCATATACCATATGAGGTGATTAAGT
1 ATGAT-TAATACCATAAGATTATGTATATGATGTAAATTTCATATACCATATGAGGTGATCAACT
14190513 ATGC
65 ATGC
* * * * * * *
14190517 ATGATTAATGCCATGAGATTATGTATATGATGTATATTCCATATACTATATGAGGTGATTGAGC-
1 ATGATTAATACCATAAGATTATGTATATGATGTAAATTTCATATACCATATGAGGTGA-TCAACT
*
14190581 AAGC
65 ATGC
* * * * *
14190585 ATGATAAATGCCATGAGAATATGTATATGATGTAAA-TTCTATATACCTTATGA
1 ATGATTAATACCATAAGATTATGTATATGATGTAAATTTC-ATATACCATATGA
14190638 TAAATGCTGA
Statistics
Matches: 161, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
67 3 0.02
68 156 0.97
69 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (68 bp):
ATGATTAATACCATAAGATTATGTATATGATGTAAATTTCATATACCATATGAGGTGATCAACTA
TGC
Found at i:14190629 original size:136 final size:136
Alignment explanation
Indices: 14190381--14190637 Score: 329
Period size: 136 Copynumber: 1.9 Consensus size: 136
14190371 CATGTTTGGT
*
14190381 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTTCATATACCATATGAGATGATCAACTA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAACTA
* ** * * *
14190446 TGCATGATGTATACTATAAGATTGTGTATATGATGTAAATTTCATATACCATATGAGGTGATTAA
66 AGCATGATAAATACCATAAGAATATGTATATGATGTAAATTTCATATACCATATGAGGTGATTAA
14190511 GTATGC
131 GTATGC
* * * * * * *
14190517 ATGATTAATGCCATGAGATTATGTATATGATGTATATTCCATATACTATATGAGGTGATTGAGC-
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGA-TCAACT
* * *
14190581 AAGCATGATAAATGCCATGAGAATATGTATATGATGTAAA-TTCTATATACCTTATGA
65 AAGCATGATAAATACCATAAGAATATGTATATGATGTAAATTTC-ATATACCATATGA
14190638 TAAATGCTGA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
135 3 0.03
136 96 0.94
137 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (136 bp):
ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAACTA
AGCATGATAAATACCATAAGAATATGTATATGATGTAAATTTCATATACCATATGAGGTGATTAA
GTATGC
Found at i:14198559 original size:17 final size:16
Alignment explanation
Indices: 14198517--14198559 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
14198507 ACTAGAGAGG
14198517 AAAGCAAAGAAAAAGA
1 AAAGCAAAGAAAAAGA
14198533 AAAG-AGAAGAAAGAAGA
1 AAAGCA-AAGAAA-AAGA
*
14198550 AAAGCTAAGA
1 AAAGCAAAGA
14198560 GGAGGTTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 10 0.43
17 12 0.52
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.02
Consensus pattern (16 bp):
AAAGCAAAGAAAAAGA
Found at i:14199890 original size:69 final size:70
Alignment explanation
Indices: 14199776--14199945 Score: 209
Period size: 69 Copynumber: 2.5 Consensus size: 70
14199766 CGGGGAAAAA
* * * * * *
14199776 AAAAAGAAAGAGAAAGAGAAGAAGAAAGAAAGAAGGAGCACGACGAGGAGGAGAATAAGGAGAGA
1 AAAAAGAAAGAGAAAAAAAAGAAAAAAGAGAGAAGGAGCACGACGACGAGGAGAAAAAGGAGAGA
14199841 GAA-G
66 GAAGG
* * * * *
14199845 AAAAAGAAAGAGAAATAAAAGAAAAAAGAGAGAGGGATCATGACGACGAGGAGAAAAAGGAGAGG
1 AAAAAGAAAGAGAAAAAAAAGAAAAAAGAGAGAAGGAGCACGACGACGAGGAGAAAAAGGAGAGA
14199910 GAAGG
66 GAAGG
* *
14199915 AAGAAGAAAGAAAAAAAAAAG-AAAAAGAGAG
1 AAAAAGAAAGAGAAAAAAAAGAAAAAAGAGAG
14199946 GGAACAGTGA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 68 0.78
70 19 0.22
ACGTcount: A:0.61, C:0.04, G:0.33, T:0.02
Consensus pattern (70 bp):
AAAAAGAAAGAGAAAAAAAAGAAAAAAGAGAGAAGGAGCACGACGACGAGGAGAAAAAGGAGAGA
GAAGG
Found at i:14205106 original size:43 final size:43
Alignment explanation
Indices: 14205058--14205261 Score: 300
Period size: 43 Copynumber: 4.7 Consensus size: 43
14205048 TGTGATAATT
* *** *
14205058 ATGACCCAACTATGTGCGGTGTAGGAGTATGCATGAACTGATG
1 ATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
* *
14205101 ATGACCCAGCTATGTGCGGTGTGGTAGTGCACATGAGCTGATG
1 ATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
*
14205144 ATGACCCAACTATGTGCGGTGTGGGAGTTCACATGAGCTGATG
1 ATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
* *
14205187 ATGACCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTGATG
1 ATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
* *
14205230 ATGACCCAACTATGTGTGATGTGGGAGTGCAC
1 ATGACCCAACTATGTGCGGTGTGGGAGTGCAC
14205262 CAACTATGTG
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
ATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
Found at i:14205271 original size:26 final size:26
Alignment explanation
Indices: 14205235--14205287 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
14205225 TGATGATGAC
14205235 CCAACTATGTGTGATGTGGGAGTGCA
1 CCAACTATGTGTGATGTGGGAGTGCA
*
14205261 CCAACTATGTGTGGTGTGGGAGTGCA
1 CCAACTATGTGTGATGTGGGAGTGCA
14205287 C
1 C
14205288 ATGAGCTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (26 bp):
CCAACTATGTGTGATGTGGGAGTGCA
Found at i:14205322 original size:69 final size:69
Alignment explanation
Indices: 14205196--14205330 Score: 218
Period size: 69 Copynumber: 2.0 Consensus size: 69
14205186 GATGACCCAG
* * *
14205196 CTATGTGTGGTGTGGGAGTGCACATGAGCTGATGATGACCCAACTATGTGTGATGTGGGAGTGCA
1 CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAACTATGTGAGATGTGGCAGTGCA
14205261 CCAA
66 CCAA
*
14205265 CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAGCTATGTGCAG-TGTGGCAGTGC
1 CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAACTATGTG-AGATGTGGCAGTGC
14205329 AC
65 AC
14205331 ATGAGCTGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 60 0.98
70 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (69 bp):
CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAACTATGTGAGATGTGGCAGTGCA
CCAA
Found at i:14205328 original size:43 final size:43
Alignment explanation
Indices: 14205265--14205382 Score: 173
Period size: 43 Copynumber: 2.7 Consensus size: 43
14205255 AGTGCACCAA
14205265 CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAG
1 CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAG
** * * *
14205308 CTATGTGCAGTGTGGCAGTGCACATGAGCTGATGATGACCTAG
1 CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAG
* *
14205351 TTATGTGTGGTGTGGGAGTGCATATGAGCTGA
1 CTATGTGTGGTGTGGGAGTGCACATGAGCTGA
14205383 GGGAGAGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (43 bp):
CTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAG
Found at i:14205346 original size:112 final size:112
Alignment explanation
Indices: 14205149--14205372 Score: 358
Period size: 112 Copynumber: 2.0 Consensus size: 112
14205139 TGATGATGAC
* * ** *
14205149 CCAACTATGTGCGGTGTGGGAGTTCACATGAGCTGATGATGACCCAGCTATGTGTGGTGTGGGAG
1 CCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATAATGACCCAGCTATGTGCAGTGTGGCAG
14205214 TGCACATGAGCTGATGATGACCCAACTATGTGTGATGTGGGAGTGCA
66 TGCACATGAGCTGATGATGACCCAACTATGTGTGATGTGGGAGTGCA
*
14205261 CCAACTATGTGTGGTGTGGGAGTGCACATGAGCTGATAATGACCCAGCTATGTGCAGTGTGGCAG
1 CCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATAATGACCCAGCTATGTGCAGTGTGGCAG
* ** *
14205326 TGCACATGAGCTGATGATGACCTAGTTATGTGTGGTGTGGGAGTGCA
66 TGCACATGAGCTGATGATGACCCAACTATGTGTGATGTGGGAGTGCA
14205373 TATGAGCTGA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 102 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (112 bp):
CCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATAATGACCCAGCTATGTGCAGTGTGGCAG
TGCACATGAGCTGATGATGACCCAACTATGTGTGATGTGGGAGTGCA
Found at i:14212273 original size:43 final size:43
Alignment explanation
Indices: 14212225--14212334 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
14212215 TCACCAGCTC
**
14212225 ATGCGCACTCCCTACTCGCACAT-GGCTGGGTCATCATCTGG-TT
1 ATGCGCACTCCCTACTCGCACATAATC-GGGTCATCATC-GGCTT
*
14212268 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCATCGGCTT
*
14212311 ATGCACACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
14212335 GCCGAGTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.03
43 58 0.95
44 1 0.02
ACGTcount: A:0.20, C:0.36, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCGGGTCATCATCGGCTT
Found at i:14220900 original size:2 final size:2
Alignment explanation
Indices: 14220895--14220929 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14220885 ACATATTTAC
*
14220895 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14220930 CGCATCATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:14220940 original size:3 final size:3
Alignment explanation
Indices: 14220932--14220987 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
14220922 CATATATACG
* * * *
14220932 CAT CAT CAT CAT CA- CAC CAT C-C CAT CAT CAT CAT CAC CAG C-T CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
14220977 CAT CAT CAT CA
1 CAT CAT CAT CA
14220988 CCAGCTCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.32, C:0.41, G:0.02, T:0.25
Consensus pattern (3 bp):
CAT
Found at i:14220977 original size:20 final size:20
Alignment explanation
Indices: 14220934--14220996 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
14220924 TATATACGCA
*
14220934 TCATCATCATCA-CACCATC
1 TCATCATCATCATCACCAGC
*
14220953 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
14220973 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
14220993 TCAT
1 TCAT
14220997 GTGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 11 0.28
20 29 0.73
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:14221046 original size:43 final size:43
Alignment explanation
Indices: 14220999--14221103 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 43
14220989 CAGCTCATGT
* *
14220999 GCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTTATGC
1 GCACTCCCTACTCGCACATGACTGGGTCATC-CTCGGCTTATGC
* *
14221042 GCACTCCCTACTCGCACATTATTGGGTCATCCTCGGCTTATGC
1 GCACTCCCTACTCGCACATGACTGGGTCATCCTCGGCTTATGC
*
14221085 GCACTTCCTACTCGCACAT
1 GCACTCCCTACTCGCACAT
14221104 AGCCGAGTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.17, C:0.36, G:0.20, T:0.27
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATGACTGGGTCATCCTCGGCTTATGC
Found at i:14240139 original size:21 final size:22
Alignment explanation
Indices: 14240097--14240139 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
14240087 CTAGGTGGAG
***
14240097 AAATTCAAGGGAAAATTGGTGA
1 AAATTCAAGGGAAAACAAGTGA
14240119 AAATTCAA-GGAAAACAAGTGA
1 AAATTCAAGGGAAAACAAGTGA
14240140 CAAAAGGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.07, G:0.23, T:0.19
Consensus pattern (22 bp):
AAATTCAAGGGAAAACAAGTGA
Found at i:14241001 original size:13 final size:13
Alignment explanation
Indices: 14240983--14241007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14240973 GGAGAAATTG
14240983 TGATTTTATAAAA
1 TGATTTTATAAAA
14240996 TGATTTTATAAA
1 TGATTTTATAAA
14241008 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14246131 original size:2 final size:2
Alignment explanation
Indices: 14246124--14246155 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14246114 AATGCACAAC
*
14246124 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14246156 CAACATAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14253149 original size:43 final size:43
Alignment explanation
Indices: 14253074--14253218 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 43
14253064 TTCCCAGCTC
** **
14253074 ATGCGCACTCCCTACTCACACATGGCTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCACACATAACCGGGTCATCACCGGGTT
* * *
14253117 ATGCACACTCCCTACTCACACATAATCGGGTCATCACTGGGTT
1 ATGCGCACTCCCTACTCACACATAACCGGGTCATCACCGGGTT
* * * *
14253160 ATGTGCACTCTCTACT-AGCACATAACCGGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTCA-CACATAACCGGGTCATCACCGGGTT
*
14253203 ATGCGCTCTCCCTACT
1 ATGCGCACTCCCTACT
14253219 TGCACATAGC
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 83 0.99
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCACACATAACCGGGTCATCACCGGGTT
Found at i:14253224 original size:43 final size:42
Alignment explanation
Indices: 14253074--14253235 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
14253064 TTCCCAGCTC
** **
14253074 ATGCGCACTCCCTACTCA-CACATGGCTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACT-AGCACATAACCGGGTCATCA-CGGGTT
* *
14253117 ATGCACACTCCCTACTCA-CACATAATCGGGTCATCACTGGGTT
1 ATGCGCACTCCCTACT-AGCACATAACCGGGTCATCAC-GGGTT
* * *
14253160 ATGTGCACTCTCTACTAGCACATAACCGGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTAGCACATAACCGGGTCATCA-CGGGTT
* * * *
14253203 ATGCGCTCTCCCTACTTGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTAGCACATAACCGGGTCA
14253236 ATATCATTAC
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.02
43 96 0.97
44 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCGCACTCCCTACTAGCACATAACCGGGTCATCACGGGTT
Found at i:14269376 original size:330 final size:330
Alignment explanation
Indices: 14268775--14269434 Score: 1311
Period size: 330 Copynumber: 2.0 Consensus size: 330
14268765 AGAGTTGCAT
14268775 CTCCAACTATAAAAGGGTCTTCCAATAATGAGAAAGAAGTTTTTTAAAGCTTTGAATAAGATTTG
1 CTCCAACTATAAAAGGGTCTTCCAATAATGAGAAAGAAGTTTTTTAAAGCTTTGAATAAGATTTG
14268840 AGCTATAGAAGAAAGTTGCAAAACCAGAAAAGCTTCACTGCACATGTCTGCACCTCAACGCCTAC
66 AGCTATAGAAGAAAGTTGCAAAACCAGAAAAGCTTCACTGCACATGTCTGCACCTCAACGCCTAC
14268905 TCTTTGCATTTGTGATTAGCACTTAATCCTGTACCAATCAGATCATCTAGTGATCATAGGTACTT
131 TCTTTGCATTTGTGATTAGCACTTAATCCTGTACCAATCAGATCATCTAGTGATCATAGGTACTT
14268970 TCTTTTACCATTTCTTCTTGTATACTTAGAGTGAGGGAGTCACTCTAAGGGGTTGTTCAAGCTTG
196 TCTTTTACCATTTCTTCTTGTATACTTAGAGTGAGGGAGTCACTCTAAGGGGTTGTTCAAGCTTG
*
14269035 GGAAAGCTTGAATGTTAAAGGTTGTGGCTGAGCCTGTGAAAAGCCATTGTAAAAGCTTGGTGGAA
261 GGAAAGCTTGAATGTTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCATTGTAAAAGCTTGGTGGAA
14269100 GCTTG
326 GCTTG
14269105 CTCCAACTATAAAAGGGTCTTCCAATAATGAGAAAGAAGTTTTTTAAAGCTTTGAATAAGATTTG
1 CTCCAACTATAAAAGGGTCTTCCAATAATGAGAAAGAAGTTTTTTAAAGCTTTGAATAAGATTTG
14269170 AGCTATAGAAGAAAGTTGCAAAACCAGAAAAGCTTCACTGCACATGTCTGCACCTCAACGCCTAC
66 AGCTATAGAAGAAAGTTGCAAAACCAGAAAAGCTTCACTGCACATGTCTGCACCTCAACGCCTAC
14269235 TCTTTGCATTTGTGATTAGCACTTAATCCTGTACCAATCAGATCATCTAGTGATCATAGGTACTT
131 TCTTTGCATTTGTGATTAGCACTTAATCCTGTACCAATCAGATCATCTAGTGATCATAGGTACTT
14269300 TCTTTTACCATTTCTTCTTGTATACTTAGAGTGAGGGAGTCACTCTAAGGGGTTGTTCAAGCTTG
196 TCTTTTACCATTTCTTCTTGTATACTTAGAGTGAGGGAGTCACTCTAAGGGGTTGTTCAAGCTTG
14269365 GGAAAGCTTGAATGTTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCATTGTAAAAGCTTGGTGGAA
261 GGAAAGCTTGAATGTTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCATTGTAAAAGCTTGGTGGAA
14269430 GCTTG
326 GCTTG
14269435 TGAATTTCAC
Statistics
Matches: 329, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
330 329 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (330 bp):
CTCCAACTATAAAAGGGTCTTCCAATAATGAGAAAGAAGTTTTTTAAAGCTTTGAATAAGATTTG
AGCTATAGAAGAAAGTTGCAAAACCAGAAAAGCTTCACTGCACATGTCTGCACCTCAACGCCTAC
TCTTTGCATTTGTGATTAGCACTTAATCCTGTACCAATCAGATCATCTAGTGATCATAGGTACTT
TCTTTTACCATTTCTTCTTGTATACTTAGAGTGAGGGAGTCACTCTAAGGGGTTGTTCAAGCTTG
GGAAAGCTTGAATGTTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCATTGTAAAAGCTTGGTGGAA
GCTTG
Found at i:14270750 original size:13 final size:15
Alignment explanation
Indices: 14270730--14270764 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
14270720 AAAATATTAA
14270730 TATTTTAAT-AATAT
1 TATTTTAATAAATAT
14270744 T-TTTTAATAAATAT
1 TATTTTAATAAATAT
14270758 TATTTTA
1 TATTTTA
14270765 TTCTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 7 0.37
15 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTAATAAATAT
Found at i:14283497 original size:38 final size:38
Alignment explanation
Indices: 14283408--14283621 Score: 142
Period size: 38 Copynumber: 5.7 Consensus size: 38
14283398 CACACCCGGC
* *
14283408 TCATGTACATCCCCCCACATCGTGCACATAGCCG-GCACCA
1 TCATGTACATCCCCCCACATCGTGCACA-ATCAGTG--CCA
* *
14283448 TCTTGTGCATCCCCCCACATCGTGCACAATCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACAATCAGTGCCA
* *
14283486 TCATGTACATCCCCCCACAACGTGCAC-A-C-GGGCACTA
1 TCATGTACATCCCCCCACATCGTGCACAATCAGTGC-C-A
* * * * * ** * *
14283523 TCATCATCCA-CCTCCCTCACCACGC-C-ATAACTG---
1 TCAT-GTACATCCCCCCACATCGTGCACAATCAGTGCCA
* * *
14283556 GCATGTGCATCCCCCCACATTGTGCACAATCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACAATCAGTGCCA
14283594 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
14283622 CGGGCACTAT
Statistics
Matches: 130, Mismatches: 32, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
32 3 0.02
33 12 0.09
34 1 0.01
35 8 0.06
36 4 0.03
37 16 0.12
38 56 0.43
39 3 0.02
40 27 0.21
ACGTcount: A:0.24, C:0.42, G:0.14, T:0.20
Consensus pattern (38 bp):
TCATGTACATCCCCCCACATCGTGCACAATCAGTGCCA
Found at i:14283640 original size:108 final size:108
Alignment explanation
Indices: 14283451--14283691 Score: 455
Period size: 108 Copynumber: 2.2 Consensus size: 108
14283441 GGCACCATCT
14283451 TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATCATGTACATCCCCCCACAACGTGCACACG
1 TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATCATGTACATCCCCCCACAACGTGCACACG
*
14283516 GGCACTATCATCATCCACCTCCCTCACCACGCCATAACTGGCA
66 GGCACTATAATCATCCACCTCCCTCACCACGCCATAACTGGCA
* *
14283559 TGTGCATCCCCCCACATTGTGCACAATCAGTGCCATCATGTACATCCCCCCACATCGTGCACACG
1 TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATCATGTACATCCCCCCACAACGTGCACACG
14283624 GGCACTATAATCATCCACCTCCCTCACCACGCCATAACTGGCA
66 GGCACTATAATCATCCACCTCCCTCACCACGCCATAACTGGCA
14283667 TGTGCATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
14283692 CACACGGTTA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 129 1.00
ACGTcount: A:0.24, C:0.42, G:0.14, T:0.20
Consensus pattern (108 bp):
TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATCATGTACATCCCCCCACAACGTGCACACG
GGCACTATAATCATCCACCTCCCTCACCACGCCATAACTGGCA
Found at i:14289906 original size:35 final size:35
Alignment explanation
Indices: 14289840--14290088 Score: 279
Period size: 35 Copynumber: 7.1 Consensus size: 35
14289830 CACTTGATTA
*
14289840 AAATTGTTTAATTAAG---TTGTGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
14289872 AAATTGTTTAATTAAATCATTAGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
14289907 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * *
14289942 AAATTAAACAATTAAGTCATTGGGTCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * * *
14289977 AAATTTGTTTAACTAAGTCATTAGGCCTAATTGACTA
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATT-AATT
* ** *
14290014 AAATTGTTTAATTAAATTGTTGGGCTTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
14290049 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
14290084 AAATT
1 AAATT
14290089 AAACAATTAA
Statistics
Matches: 179, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
32 15 0.08
35 117 0.65
36 43 0.24
37 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.43
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:14290044 original size:107 final size:106
Alignment explanation
Indices: 14289860--14290088 Score: 298
Period size: 107 Copynumber: 2.2 Consensus size: 106
14289850 ATTAAGTTGT
* * * *
14289860 GCCTAATTAATTAAA-TTGTTTAATTAAATCATTAGGCCTAATTAATTAAATTATTTAATTAAGT
1 GCCTAATTGATTAAATTTGTTTAACTAAATCATTAGGCCTAATTAATAAAATTATTTAATTAAAT
14289924 CATTGGGCCTAATTAATTAAATTAAACAATTAAGTCATTGG
66 CATTGGGCCTAATTAATTAAATTAAACAATTAAGTCATTGG
* * * *
14289965 GTCTAATTGATTAAATTTGTTTAACTAAGTCATTAGGCCTAATTGACTAAAATTGTTTAATTAAA
1 GCCTAATTGATTAAATTTGTTTAACTAAATCATTAGGCCTAATT-AATAAAATTATTTAATTAAA
** * **** *
14290030 TTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
65 TCATTGGGCCTAATTAATTAAATTAAACAATTAAGTCATTGG
14290072 GCCTAATTGATTAAATT
1 GCCTAATTGATTAAATT
14290089 AAACAATTAA
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
105 13 0.12
106 26 0.25
107 66 0.63
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (106 bp):
GCCTAATTGATTAAATTTGTTTAACTAAATCATTAGGCCTAATTAATAAAATTATTTAATTAAAT
CATTGGGCCTAATTAATTAAATTAAACAATTAAGTCATTGG
Found at i:14303161 original size:19 final size:19
Alignment explanation
Indices: 14303139--14303176 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14303129 CCATTTAACT
* *
14303139 TATTGGAGTATGATTTGAG
1 TATTGGAATATAATTTGAG
14303158 TATTGGAATATAATTTGAG
1 TATTGGAATATAATTTGAG
14303177 GGTTTGACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTGGAATATAATTTGAG
Found at i:14376141 original size:132 final size:131
Alignment explanation
Indices: 14375898--14376148 Score: 441
Period size: 132 Copynumber: 1.9 Consensus size: 131
14375888 ATAAATAGGC
14375898 CCCTTCACTTTATTTGTAAGCACACTTGAATAAGAACTTTTTATTCCCTCTAAATATTTTCTTTT
1 CCCTTCACTTTATTTGTAAGCACACTTGAATAAGAACTTTTTATTCCCTCTAAATATTTTCTTTT
* *
14375963 ATATTTCTCTTATAGTTTTTTTTTTCAGTTATATTTCACAACACGTTATTAGCACGANCTATAAT
66 ATATTTCTCTTATAGTTTTTCTTTTAAGTTATATTTCACAACACGTTATTAGCACGA-CTATAAT
14376028 AG
130 AG
14376030 CCCTTCACTTTATTTGTAAGCACACTTGAATAAGAACTTTTTATTCCCTCTAAATATTTTCTTTT
1 CCCTTCACTTTATTTGTAAGCACACTTGAATAAGAACTTTTTATTCCCTCTAAATATTTTCTTTT
* *
14376095 ATATTTCTCTTATAGTTTTTCTTTTAAGATT-TATTTCATAATACGTTATTAGCA
66 ATATTTCTCTTATAGTTTTTCTTTTAAG-TTATATTTCACAACACGTTATTAGCA
14376149 TGATCCTCTG
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
132 112 0.98
133 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (131 bp):
CCCTTCACTTTATTTGTAAGCACACTTGAATAAGAACTTTTTATTCCCTCTAAATATTTTCTTTT
ATATTTCTCTTATAGTTTTTCTTTTAAGTTATATTTCACAACACGTTATTAGCACGACTATAATA
G
Found at i:14376721 original size:28 final size:28
Alignment explanation
Indices: 14376679--14376754 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
14376669 AGTGGATCAT
* *
14376679 CCACCAAAAATGGATGGATACTTGT-AAC
1 CCACCAAAAGTGGATGAATACTT-TCAAC
*
14376707 CTACCAAAAGTGGATGAATACTTTCAAC
1 CCACCAAAAGTGGATGAATACTTTCAAC
*
14376735 CCACCAGAAGTGGATGAATA
1 CCACCAAAAGTGGATGAATA
14376755 ATGAAAAGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (28 bp):
CCACCAAAAGTGGATGAATACTTTCAAC
Found at i:14386869 original size:13 final size:13
Alignment explanation
Indices: 14386851--14386875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14386841 AAAGAAATTG
14386851 TGATTTTATAAAA
1 TGATTTTATAAAA
14386864 TGATTTTATAAA
1 TGATTTTATAAA
14386876 TTTTTTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14388100 original size:15 final size:16
Alignment explanation
Indices: 14388080--14388120 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
14388070 CAGATATTTT
14388080 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
14388095 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
14388111 G-TTTTAAAGT
1 GATTTTAAAGT
14388121 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:14388121 original size:15 final size:15
Alignment explanation
Indices: 14388076--14388121 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14388066 AGATCAGATA
*
14388076 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
14388090 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
14388106 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
14388121 T
1 T
14388122 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:14388166 original size:5 final size:5
Alignment explanation
Indices: 14388156--14388188 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14388146 TGCGTGGCCC
14388156 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
14388189 CAGGTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:14388181 original size:14 final size:15
Alignment explanation
Indices: 14388156--14388188 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14388146 TGCGTGGCCC
14388156 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
14388171 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
14388185 AAGT
1 AAGT
14388189 CAGGTTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Found at i:14388195 original size:19 final size:19
Alignment explanation
Indices: 14388157--14388195 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14388147 GCGTGGCCCA
*
14388157 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTCAAGTT
*
14388176 AGTTAAGTTAAGTCAGGTT
1 AGTTAAGTTAAGTCAAGTT
14388195 A
1 A
14388196 TGTAGAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (19 bp):
AGTTAAGTTAAGTCAAGTT
Found at i:14394897 original size:67 final size:67
Alignment explanation
Indices: 14394817--14394968 Score: 189
Period size: 67 Copynumber: 2.3 Consensus size: 67
14394807 GTATTTACCG
* * * *
14394817 GGATCAACTAAAACCCAAAGTGATTTTTCAAAAGCTTAACCACAAGCTTTC-ACAACAGTTTTTC
1 GGATCAACCAAAACCCAAAGTGATTTTTCAAAAGCTCAACCACAA-CCTACAACAACAGTTTTTC
14394881 ACA
65 ACA
* * * * **
14394884 GGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTACAATAATGGTTTTTCA
1 GGATCAACCAAAACCCAAAGTGATTTTTCAAAAGCTCAACCACAACCTACAACAACAGTTTTTCA
*
14394949 CG
66 CA
14394951 GGATCAACCAAAACCCAA
1 GGATCAACCAAAACCCAA
14394969 CAACTAACTT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
66 3 0.04
67 69 0.96
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.23
Consensus pattern (67 bp):
GGATCAACCAAAACCCAAAGTGATTTTTCAAAAGCTCAACCACAACCTACAACAACAGTTTTTCA
CA
Found at i:14394919 original size:32 final size:33
Alignment explanation
Indices: 14394874--14394968 Score: 120
Period size: 35 Copynumber: 2.8 Consensus size: 33
14394864 TTTCACAACA
*
14394874 GTTTTTCACAGGCTCAACCAAAACCCAA-AGTG
1 GTTTTTCACAGGCTCAACCAAAACCCAATAATG
* *
14394906 GTTTTTCAAAGGCTCAACCACAACCTACAATAATG
1 GTTTTTCACAGGCTCAACCAAAACC--CAATAATG
* *
14394941 GTTTTTCACGGGATCAACCAAAACCCAA
1 GTTTTTCACAGGCTCAACCAAAACCCAA
14394969 CAACTAACTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
32 23 0.43
33 3 0.06
34 3 0.06
35 24 0.45
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (33 bp):
GTTTTTCACAGGCTCAACCAAAACCCAATAATG
Found at i:14395524 original size:73 final size:73
Alignment explanation
Indices: 14395391--14395586 Score: 216
Period size: 73 Copynumber: 2.7 Consensus size: 73
14395381 CAGAGAGCTT
* * * **
14395391 TTAGTCGACTAACTTCCTTCTTAGTCGATTAAGTTGGTTCTGTTTTCTGGTCTCAGTTTCTAGCA
1 TTAGTCGACTAACTTACTTCTTGGTCGACTAAGTTGGTTCTGTTTTCAAGTCTCAGTTTCTAGCA
14395456 GAGAAC-AC
66 -AGAACTAC
* * * *
14395464 TTAGTCGACTAATTTATTTCTTGGTCGACTAAGTTGGTTTTGTTTTGAAGTC-CAGATTTCTAGC
1 TTAGTCGACTAACTTACTTCTTGGTCGACTAAGTTGGTTCTGTTTTCAAGTCTCAG-TTTCTAGC
* * *
14395528 AATAGCTTC
65 AAGAACTAC
* * *
14395537 TTAGTCAACTAACTCACTTCTTGGTCGACTAAGTTGATTCTGTTTCTCAA
1 TTAGTCGACTAACTTACTTCTTGGTCGACTAAGTTGGTTCTGTTT-TCAA
14395587 TACTCTTCAG
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
72 6 0.06
73 92 0.91
74 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (73 bp):
TTAGTCGACTAACTTACTTCTTGGTCGACTAAGTTGGTTCTGTTTTCAAGTCTCAGTTTCTAGCA
AGAACTAC
Found at i:14400854 original size:24 final size:24
Alignment explanation
Indices: 14400822--14400868 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
14400812 TGGGGAAAAA
*
14400822 GATGACTAAAAGCAATAATCAATG
1 GATGACTAAAAGCAAAAATCAATG
14400846 GATGACTAAAAGCAAAAATCAAT
1 GATGACTAAAAGCAAAAATCAAT
14400869 AGTCTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (24 bp):
GATGACTAAAAGCAAAAATCAATG
Found at i:14404842 original size:41 final size:39
Alignment explanation
Indices: 14404741--14404859 Score: 103
Period size: 41 Copynumber: 2.9 Consensus size: 39
14404731 AGAAGATAAG
* * * * *
14404741 AGAGAATAGGTGTACGTGAAAAGGTACACAAAAACGAGGTA
1 AGAGAAGAGATGTACGTGAAAA-GTACA-AGAAACAAAGTA
* * *
14404782 AGAGAAGAGGTATATGTGAAAATGTACAAGAAACAAAGTA
1 AGAGAAGAGATGTACGTGAAAA-GTACAAGAAACAAAGTA
*
14404822 ATAGAAGAAGATGTACGTGAACAAGTACAAGAGAACAA
1 AGAGAAG-AGATGTACGTGAA-AAGTACAAGA-AACAA
14404860 CTTAAGAGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 15 0.23
41 42 0.66
42 7 0.11
ACGTcount: A:0.50, C:0.08, G:0.26, T:0.15
Consensus pattern (39 bp):
AGAGAAGAGATGTACGTGAAAAGTACAAGAAACAAAGTA
Found at i:14415133 original size:17 final size:17
Alignment explanation
Indices: 14415111--14415144 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14415101 TAATTTGAAA
*
14415111 GGTTTTTAATTCCATGG
1 GGTTTTTAATTCAATGG
*
14415128 GGTTTTTGATTCAATGG
1 GGTTTTTAATTCAATGG
14415145 CGACAGTGCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.26, T:0.47
Consensus pattern (17 bp):
GGTTTTTAATTCAATGG
Found at i:14415435 original size:5 final size:5
Alignment explanation
Indices: 14415425--14415449 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14415415 TAATTGCAAG
14415425 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
14415450 TGAAGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:14416718 original size:22 final size:22
Alignment explanation
Indices: 14416686--14416742 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
14416676 TAATCACCGA
*
14416686 GTGACTAGTTTTTAGTCATTAC
1 GTGACTAGTTTTTAGGCATTAC
* *
14416708 GTGA-TTGGTTTTAGGCATTAC
1 GTGACTAGTTTTTAGGCATTAC
14416729 GTGACTAGTTTTTA
1 GTGACTAGTTTTTA
14416743 TACATTGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.46
Consensus pattern (22 bp):
GTGACTAGTTTTTAGGCATTAC
Found at i:14416802 original size:23 final size:23
Alignment explanation
Indices: 14416775--14416883 Score: 150
Period size: 23 Copynumber: 4.8 Consensus size: 23
14416765 AGCAATGCCT
*
14416775 AAGTCACACAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
*
14416798 TAGTCACGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
*
14416821 AAGTCACTCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
14416844 AAGTCACGCAATGCC-TA-TCAAC
1 AAGTCACGCAATGCCTTACT-AAC
* *
14416866 TAGTCATGCAATGCCTTA
1 AAGTCACGCAATGCCTTA
14416884 TTAGAAACTA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
21 1 0.01
22 18 0.23
23 58 0.75
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:14416842 original size:46 final size:46
Alignment explanation
Indices: 14416775--14416913 Score: 167
Period size: 46 Copynumber: 3.0 Consensus size: 46
14416765 AGCAATGCCT
*
14416775 AAGTCACACAATGCCTTACTAACTAGTCACGCAATGCCTTA-CTAAC
1 AAGTCACTCAATGCCTTACTAACTAGTCACGCAATGCCTTATC-AAC
*
14416821 AAGTCACTCAATGCCTTACTAACAAGTCACGCAATGCC-TATCAAC
1 AAGTCACTCAATGCCTTACTAACTAGTCACGCAATGCCTTATCAAC
* * *
14416866 TAGTCA-TGCAATGCCTTATTAGAAACTAGTCACGTAATGCCTTATCAA
1 AAGTCACT-CAATGCCTTACT---AACTAGTCACGCAATGCCTTATCAA
14416914 AAACTATTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
44 1 0.01
45 21 0.26
46 37 0.46
48 16 0.20
49 6 0.07
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (46 bp):
AAGTCACTCAATGCCTTACTAACTAGTCACGCAATGCCTTATCAAC
Found at i:14416892 original size:26 final size:25
Alignment explanation
Indices: 14416776--14417096 Score: 231
Period size: 26 Copynumber: 13.6 Consensus size: 25
14416766 GCAATGCCTA
* *
14416776 AGTCACACAATGCCTTA-C-TAACT
1 AGTCACGCAATGCCTTATCAAAACT
* *
14416799 AGTCACGCAATGCCTTA-C-TAACA
1 AGTCACGCAATGCCTTATCAAAACT
* * *
14416822 AGTCACTCAATGCCTTA-C-TAACA
1 AGTCACGCAATGCCTTATCAAAACT
14416845 AGTCACGCAATGCC-TATC--AACT
1 AGTCACGCAATGCCTTATCAAAACT
* *
14416867 AGTCATGCAATGCCTTATTAGAAACT
1 AGTCACGCAATGCCTTATCA-AAACT
*
14416893 AGTCACGTAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATC-AAAACT
* * **
14416919 ATTCACGTAATGCC----CAAAGTT
1 AGTCACGCAATGCCTTATCAAAACT
14416940 AGTCACGCAATGCC-TATC--AACT
1 AGTCACGCAATGCCTTATCAAAACT
*
14416962 AGTCATGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCA-AAACT
* *
14416988 AATCACGCAATGTCTTATCAAAAACT
1 AGTCACGCAATGCCTTATC-AAAACT
14417014 AGTCACGCAATGCC----CAAAA-T
1 AGTCACGCAATGCCTTATCAAAACT
* *
14417034 CAATCACGCAATGCC-TAT--TAACT
1 -AGTCACGCAATGCCTTATCAAAACT
*
14417057 AGTCACGCAATGCCTTATCAAAAAT
1 AGTCACGCAATGCCTTATCAAAACT
*
14417082 CAGTCACGTAATGCC
1 -AGTCACGCAATGCC
14417097 CAAAGTCAGT
Statistics
Matches: 246, Mismatches: 29, Indels: 43
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.00
21 33 0.13
22 50 0.20
23 68 0.28
24 1 0.00
25 3 0.01
26 88 0.36
27 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (25 bp):
AGTCACGCAATGCCTTATCAAAACT
Found at i:14416959 original size:95 final size:95
Alignment explanation
Indices: 14416845--14417151 Score: 392
Period size: 95 Copynumber: 3.3 Consensus size: 95
14416835 CTTACTAACA
*
14416845 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATTAGAAACTAGTCACGTAATGCCTTA
1 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAGAAACTAGTCACGTAATGCCTTA
* * * *
14416910 TCAAAAACTATTCACGTAATGCCCAAAGTT
66 TCAAAAACTAGTCACGCAATGCCCAAAATC
* * *
14416940 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAGAAACTAATCACGCAATGTCTTA
1 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAGAAACTAGTCACGTAATGCCTTA
14417005 TCAAAAACTAGTCACGCAATGCCCAAAATC
66 TCAAAAACTAGTCACGCAATGCCCAAAATC
* * * *
14417035 AATCACGCAATGCCTATTAACTAGTCACGCAATGCCTTATCA-AAAATCAGTCACGTAATGCC--
1 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAGAAACT-AGTCACGTAATGCCTT
** ** *
14417097 --CAAAGTC-AGTCACGCAATATCCAAAGTC
65 ATCAAAAACTAGTCACGCAATGCCCAAAATC
**
14417125 AGTCACGCAATGCCTAAAAACTAGTCA
1 AGTCACGCAATGCCTATCAACTAGTCA
14417152 CATAATTCCT
Statistics
Matches: 188, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
90 42 0.22
91 5 0.03
94 4 0.02
95 137 0.73
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.24
Consensus pattern (95 bp):
AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAGAAACTAGTCACGTAATGCCTTA
TCAAAAACTAGTCACGCAATGCCCAAAATC
Found at i:14417040 original size:21 final size:21
Alignment explanation
Indices: 14417014--14417152 Score: 109
Period size: 21 Copynumber: 6.3 Consensus size: 21
14417004 ATCAAAAACT
14417014 AGTCACGCAATGCCCAAAATC
1 AGTCACGCAATGCCCAAAATC
* * *
14417035 AATCACGCAATGCCTATTAA-C
1 AGTCACGCAATGCCCA-AAATC
14417056 TAGTCACGCAATGCCTTATCAAAAATC
1 -AGTCACGCAATGCC----C-AAAATC
* *
14417083 AGTCACGTAATGCCCAAAGTC
1 AGTCACGCAATGCCCAAAATC
** *
14417104 AGTCACGCAATATCCAAAGTC
1 AGTCACGCAATGCCCAAAATC
* *
14417125 AGTCACGCAATGCCTAAAAAC
1 AGTCACGCAATGCCCAAAATC
14417146 TAGTCAC
1 -AGTCAC
14417153 ATAATTCCTA
Statistics
Matches: 93, Mismatches: 16, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
21 54 0.58
22 22 0.24
26 15 0.16
27 2 0.02
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (21 bp):
AGTCACGCAATGCCCAAAATC
Found at i:14417068 original size:69 final size:69
Alignment explanation
Indices: 14416984--14417114 Score: 201
Period size: 69 Copynumber: 1.9 Consensus size: 69
14416974 CCTTATCAGA
*
14416984 AACTAATCACGCAATGTCTTATCAAAAA-CTAGTCACGCAATGCCCAAAATCAATCACGCAATGC
1 AACTAATCACGCAATGCCTTATCAAAAATC-AGTCACGCAATGCCCAAAATCAATCACGCAATGC
14417048 CTATT
65 CTATT
* * * *
14417053 AACTAGTCACGCAATGCCTTATCAAAAATCAGTCACGTAATGCCCAAAGTCAGTCACGCAAT
1 AACTAATCACGCAATGCCTTATCAAAAATCAGTCACGCAATGCCCAAAATCAATCACGCAAT
14417115 ATCCAAAGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 55 0.98
70 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.22
Consensus pattern (69 bp):
AACTAATCACGCAATGCCTTATCAAAAATCAGTCACGCAATGCCCAAAATCAATCACGCAATGCC
TATT
Found at i:14417918 original size:16 final size:16
Alignment explanation
Indices: 14417882--14417918 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14417872 AATTACTATC
*
14417882 AAATTATATTTTAATT
1 AAATTATATTTTAACT
14417898 AAATTATATTTTAACT
1 AAATTATATTTTAACT
*
14417914 CAATT
1 AAATT
14417919 GTATATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATTATATTTTAACT
Found at i:14418011 original size:2 final size:2
Alignment explanation
Indices: 14418006--14418060 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
14417996 AAGAATTTAG
14418006 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
14418048 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
14418061 GAGAGAGTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14418072 original size:2 final size:2
Alignment explanation
Indices: 14418067--14418107 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14418057 TATAGAGAGA
14418067 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
14418108 GGTAAGAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:14437532 original size:19 final size:19
Alignment explanation
Indices: 14437508--14437544 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14437498 CCATTTGACT
*
14437508 TATTGGATTATGATTTGAG
1 TATTGGAGTATGATTTGAG
14437527 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
14437545 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:14443224 original size:55 final size:55
Alignment explanation
Indices: 14443145--14443298 Score: 236
Period size: 55 Copynumber: 2.8 Consensus size: 55
14443135 TGATGACAAG
* * *
14443145 TGATTCCAGCTATGTGCGATGTGGGAGTACACATAAGCTGATGACCGATAGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGATAGATGA
* *
14443200 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGATGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGATAGATGA
* * *
14443255 TGATTCCAGTTATGTGTGGTGTGGGAGTGCACATGAGCTAATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGA
14443299 GCCAATGGTT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGATAGATGA
Found at i:14449708 original size:17 final size:17
Alignment explanation
Indices: 14449686--14449718 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14449676 TTTGTAAGTG
14449686 TTTAAT-GAAGGAAGAAT
1 TTTAATGGAA-GAAGAAT
14449703 TTTAATGGAAGAAGAA
1 TTTAATGGAAGAAGAA
14449719 GAGCAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.27
Consensus pattern (17 bp):
TTTAATGGAAGAAGAAT
Found at i:14452628 original size:2 final size:2
Alignment explanation
Indices: 14452621--14452699 Score: 86
Period size: 2 Copynumber: 39.0 Consensus size: 2
14452611 TCAAATACAA
** ** ** *
14452621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NNN NN NN AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
14452664 AT AT AT AT AT 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 AT AT AT AT AT
14452700 TCTTCTCCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:14453010 original size:33 final size:33
Alignment explanation
Indices: 14452971--14453053 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
14452961 ATCATGCTAA
* *
14452971 ATTAACATATCACGTCATTATCAATTATGATAT
1 ATTAACATATCACGTCATCATCAATTAAGATAT
* * * *
14453004 ATTAACATGTTACATTATCATCAATTAAGATAT
1 ATTAACATATCACGTCATCATCAATTAAGATAT
14453037 ATTAACATATCACGTCA
1 ATTAACATATCACGTCA
14453054 GTCGTAAGCT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (33 bp):
ATTAACATATCACGTCATCATCAATTAAGATAT
Found at i:14453155 original size:30 final size:30
Alignment explanation
Indices: 14453115--14453172 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
14453105 ATTATTAATC
* *
14453115 ACAATGACTTATTTGACTTAAAATAAAAGT
1 ACAATAACTTATTTGACTCAAAATAAAAGT
14453145 ACAATAACTTATTTGACTCAAAATAAAA
1 ACAATAACTTATTTGACTCAAAATAAAA
14453173 ATATAAGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
ACAATAACTTATTTGACTCAAAATAAAAGT
Found at i:14453184 original size:30 final size:30
Alignment explanation
Indices: 14453121--14453219 Score: 96
Period size: 30 Copynumber: 3.3 Consensus size: 30
14453111 AATCACAATG
* * * *
14453121 ACTTATTTGACTTAAAATAAAAGTACAATA
1 ACTTATTTGACTCAAAATAAAAATATAAGA
14453151 ACTTATTTGACTCAAAATAAAAATATAAGA
1 ACTTATTTGACTCAAAATAAAAATATAAGA
*
14453181 ACTTGA-TTGAATGC--AATAAAAATATAAGA
1 ACTT-ATTTGACT-CAAAATAAAAATATAAGA
**
14453210 GTTTATTTGA
1 ACTTATTTGA
14453220 ATTTTTTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 21 0.36
30 35 0.59
31 2 0.03
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.33
Consensus pattern (30 bp):
ACTTATTTGACTCAAAATAAAAATATAAGA
Found at i:14476065 original size:2 final size:2
Alignment explanation
Indices: 14476058--14476099 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
14476048 ACTCTAAATA
* *
14476058 AT AT AT AT AT AT AT AT AT AT AT TT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14476100 TACATTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:14476617 original size:2 final size:2
Alignment explanation
Indices: 14476610--14476654 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
14476600 ATGAAAATTA
*
14476610 AT AT AT AT AT AT -T AT AT AT AT AT -T CT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14476649 AT -T AT A
1 AT AT AT A
14476655 AACGNATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14477283 original size:30 final size:30
Alignment explanation
Indices: 14477247--14477303 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
14477237 AAGGTACTAT
14477247 ATATATATATATATACCCAAACAAACACAC
1 ATATATATATATATACCCAAACAAACACAC
*
14477277 ATATATATATATATACCTAAACAAACA
1 ATATATATATATATACCCAAACAAACA
14477304 TTAATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.26
Consensus pattern (30 bp):
ATATATATATATATACCCAAACAAACACAC
Found at i:14479157 original size:2 final size:2
Alignment explanation
Indices: 14479105--14479140 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14479095 AAGAAGAGGA
14479105 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14479141 TACAATAACA
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:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14480886 original size:2 final size:2
Alignment explanation
Indices: 14480879--14480913 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
14480869 TCATAATTTA
14480879 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14480914 TATGCTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:14484200 original size:16 final size:17
Alignment explanation
Indices: 14484179--14484210 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14484169 TCTTCCTCAG
14484179 TTTCTT-TATTTTTTTC
1 TTTCTTCTATTTTTTTC
14484195 TTTCTTCTATTTTTTT
1 TTTCTTCTATTTTTTT
14484211 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTCTATTTTTTTC
Found at i:14484689 original size:56 final size:55
Alignment explanation
Indices: 14484490--14484805 Score: 185
Period size: 53 Copynumber: 5.8 Consensus size: 55
14484480 ATATAAAGTT
* * * * * *
14484490 TTTTTTTTC-AAAATTTCTCGATTTTCTTCAGCACGTTGGGAAACTCAAGAAGA-G
1 TTTTCTTTCAAAAATTT-TTGATTTTCTTCAGCACATTGGGAAAATCGAGAAAAGG
* * * * *
14484544 TTTTCCTTC--AAATTTTTGACTTTT-TGCCAACACATTGAGAAAACTC-A-AAAAAG
1 TTTTCTTTCAAAAATTTTTGA-TTTTCT-TCAGCACATTGGGAAAA-TCGAGAAAAGG
* * * *
14484597 CTTTC--ACAAAAAATTCTTGATTTT-TGCTAGCACATTGGGAAAATCGAGAAAAGG
1 TTTTCTTTC-AAAAATTTTTGATTTTCTTC-AGCACATTGGGAAAATCGAGAAAAGG
* * **
14484651 TTTTCTTTCAAAAATTTTTGATTCTTCACTT-A-CACATTGGGAAAACTCAAAAAAAAA
1 TTTTCTTTCAAAAATTTTTGATT-TT--CTTCAGCACATTGGGAAAA-TCGAGAAAAGG
* * * * * *
14484708 ATTTC-AT-AAAACTTTTTGATTTTCTTCAGTACATTGGGAAGATTGAGAAAAGG
1 TTTTCTTTCAAAAATTTTTGATTTTCTTCAGCACATTGGGAAAATCGAGAAAAGG
*
14484761 TTTTCTTTCAAAAATTTTTGAGTTTT-TGCCAGCACATTGGGAAAA
1 TTTTCTTTCAAAAATTTTTGA-TTTTCT-TCAGCACATTGGGAAAA
14484806 CTTAGAAAAT
Statistics
Matches: 199, Mismatches: 40, Indels: 44
0.70 0.14 0.16
Matches are distributed among these distances:
51 1 0.01
52 13 0.07
53 58 0.29
54 41 0.21
55 38 0.19
56 35 0.18
57 12 0.06
59 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (55 bp):
TTTTCTTTCAAAAATTTTTGATTTTCTTCAGCACATTGGGAAAATCGAGAAAAGG
Found at i:14484695 original size:109 final size:106
Alignment explanation
Indices: 14484499--14484877 Score: 320
Period size: 110 Copynumber: 3.5 Consensus size: 106
14484489 TTTTTTTTTC
* * * * * * * *
14484499 AAAATTTCTCGATTTTCTTCAGCACGTTGGGAAACTCAAGAAGA-GTTTTCCTTC--AAATTTTT
1 AAAAATTCTTGATTTT-TGCAGCACATTGGGAAAATCGAGAAAAGGTTTTCTTTCAAAAATTTTT
* * * * *
14484561 GACTTTTTGCCAACACATTGAGAAAACTCAAAAAAGCTTTCACA
65 GAGTTCTTGCC-ACACATTGGGAAAACTCAAAAAAGATTTCA-T
14484605 AAAAATTCTTGATTTTTGCTAGCACATTGGGAAAATCGAGAAAAGGTTTTCTTTCAAAAATTTTT
1 AAAAATTCTTGATTTTTGC-AGCACATTGGGAAAATCGAGAAAAGGTTTTCTTTCAAAAATTTTT
*
14484670 GA-TTCTT-CACTTACACATTGGGAAAACTCAAAAAAAAAATTTCAT
65 GAGTTCTTGC-C--ACACATTGGGAAAACTC--AAAAAAGATTTCAT
* * * * * *
14484715 AAAACTTTTTGATTTTCTTCAGTACATTGGGAAGATTGAGAAAAGGTTTTCTTTCAAAAATTTTT
1 AAAAATTCTTGATTTT-TGCAGCACATTGGGAAAATCGAGAAAAGGTTTTCTTTCAAAAATTTTT
* * * *
14484780 GAGTTTTTGCCAGCACATTGGGAAAACTTAGAAAATGTTTTCAT
65 GAGTTCTTGCCA-CACATTGGGAAAACTCA-AAAAAGATTTCAT
* * *** * *
14484824 AAAATTTCTCGATTTTTGCCAGCATGCTAGGAAAATCGAGATAA-GTTTTCTTTC
1 AAAAATTCTTGATTTTTG-CAGCACATTGGGAAAATCGAGAAAAGGTTTTCTTTC
14484878 TACCTCTTTG
Statistics
Matches: 222, Mismatches: 37, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
105 2 0.01
106 34 0.15
107 10 0.05
108 17 0.08
109 67 0.30
110 73 0.33
111 18 0.08
112 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (106 bp):
AAAAATTCTTGATTTTTGCAGCACATTGGGAAAATCGAGAAAAGGTTTTCTTTCAAAAATTTTTG
AGTTCTTGCCACACATTGGGAAAACTCAAAAAAGATTTCAT
Found at i:14484813 original size:56 final size:54
Alignment explanation
Indices: 14484553--14484847 Score: 196
Period size: 53 Copynumber: 5.4 Consensus size: 54
14484543 GTTTTCCTTC
* * * * *
14484553 AAATTTTTGACTTTTTGCCAACACATTGAGAAAACTCA-AAAAAGCTTTC-ACAAA
1 AAATTTTTGA-TTTTTGCCAGCACATTGGGAAAACTTAGAAAAAGTTTTCTTC-AA
* * * *
14484607 AAATTCTTGATTTTTGCTAGCACATTGGGAAAA-TCGAGAAAAGGTTTTCTTTCAA
1 AAATTTTTGATTTTTGCCAGCACATTGGGAAAACT-TAGAAAAAGTTTTC-TTCAA
* * * ** *
14484662 AAATTTTTGATTCTT-CACTTA-CACATTGGGAAAACTCAAAAAAAAAATTTCAT-AA
1 AAATTTTTGATTTTTGC-C--AGCACATTGGGAAAACT-TAGAAAAAGTTTTCTTCAA
* * * * *
14484717 AACTTTTTGATTTTCT-TCAGTACATTGGGAAGA-TTGAGAAAAGGTTTTCTTTCAA
1 AAATTTTTGATTTT-TGCCAGCACATTGGGAAAACTT-AGAAAAAGTTTTC-TTCAA
* *
14484772 AAATTTTTGAGTTTTTGCCAGCACATTGGGAAAACTTAGAAAATGTTTTCAT--A
1 AAATTTTTGA-TTTTTGCCAGCACATTGGGAAAACTTAGAAAAAGTTTTCTTCAA
*
14484825 AAATTTCTCGATTTTTGCCAGCA
1 AAATTT-TTGATTTTTGCCAGCA
14484848 TGCTAGGAAA
Statistics
Matches: 189, Mismatches: 35, Indels: 35
0.73 0.14 0.14
Matches are distributed among these distances:
52 1 0.01
53 51 0.27
54 34 0.18
55 43 0.23
56 46 0.24
57 14 0.07
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (54 bp):
AAATTTTTGATTTTTGCCAGCACATTGGGAAAACTTAGAAAAAGTTTTCTTCAA
Found at i:14492181 original size:43 final size:41
Alignment explanation
Indices: 14492120--14492446 Score: 257
Period size: 43 Copynumber: 8.0 Consensus size: 41
14492110 CAACTCTCTC
*
14492120 TCAGCTTATGTGCACTCCCACATCGTACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCAC-TCG-ACATAGCTGGGTCATCA
*
14492163 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTTATCA
1 TCAGCTCATGTGCACTCCC-ACTCG-ACATAGCTGGGTCATCA
* *
14492206 TCAGCTCATGTGCACT-CCTCTAC-ACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCACT-CGACATAGCTGGGTCATCA
* *
14492246 TCAGCTCATGTGCACTCCCTACTTGCACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACTCCC-ACTCG-ACATAGCTGGGTCATCA
* * *
14492289 TCAGCTCATGTGTACTCCTC-CAC-ACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCC-CACTCGACATAGCTGGGTCATCA
* ** * *
14492329 TTAAATCATGTGCACTCCCTACTTG-C--A-CAGGGTCATCA
1 TCAGCTCATGTGCACTCCC-ACTCGACATAGCTGGGTCATCA
* * * * *
14492367 TTAGCTCATGTGTACTCCTC-CAT--ACATGGCTGGGTTAGCA
1 TCAGCTCATGTGCACTCC-CAC-TCGACATAGCTGGGTCATCA
*
14492407 -CAGCTCATGTGCACTCCTACACT-GCACATGGCTGGGTCAT
1 TCAGCTCATGTGCACTCC--CACTCG-ACATAGCTGGGTCAT
14492447 AATTATCACG
Statistics
Matches: 229, Mismatches: 35, Indels: 41
0.75 0.11 0.13
Matches are distributed among these distances:
37 2 0.01
38 26 0.11
39 17 0.07
40 70 0.31
41 7 0.03
42 19 0.08
43 85 0.37
44 3 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (41 bp):
TCAGCTCATGTGCACTCCCACTCGACATAGCTGGGTCATCA
Found at i:14492246 original size:40 final size:40
Alignment explanation
Indices: 14492146--14492446 Score: 286
Period size: 40 Copynumber: 7.4 Consensus size: 40
14492136 CCCACATCGT
* *
14492146 ACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACT-CCT-CT-AC
* *
14492189 ACATAGCTGGGTTATCATCAGCTCATGTGCACTCCTCTAC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCTCTAC
*
14492229 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTTGC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACT-CCT-C-TAC
* * * *
14492272 ACATAGCTAGGTCATCATCAGCTCATGTGTACTCCTCCAC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCTCTAC
* **
14492312 ACATGGCTGGGTCATCATTAAATCATGTGCACTCC-CT--
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCTCTAC
* * * * * * *
14492349 ACTTGCACAGGGTCATCATTAGCTCATGTGTACTCCTCCAT
1 ACATG-GCTGGGTCATCATCAGCTCATGTGCACTCCTCTAC
* * *
14492390 ACATGGCTGGGTTAGCA-CAGCTCATGTGCACTCCTACACTGC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCT---CTAC
14492432 ACATGGCTGGGTCAT
1 ACATGGCTGGGTCAT
14492447 AATTATCACG
Statistics
Matches: 212, Mismatches: 36, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
37 4 0.02
38 25 0.12
39 18 0.08
40 70 0.33
41 10 0.05
42 21 0.10
43 64 0.30
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (40 bp):
ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCTCTAC
Found at i:14492262 original size:83 final size:83
Alignment explanation
Indices: 14492146--14492446 Score: 400
Period size: 83 Copynumber: 3.7 Consensus size: 83
14492136 CCCACATCGT
* *
14492146 ACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTTATCATCAGC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGC
* *
14492211 TCATGTGCACTCCTCTAC
66 TCATGTGTACTCCTCCAC
* *
14492229 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTTGCACATAGCTAGGTCATCATCAGC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGC
14492294 TCATGTGTACTCCTCCAC
66 TCATGTGTACTCCTCCAC
* ** * *
14492312 ACATGGCTGGGTCATCATTAAATCATGTGCACTCCCTACTTGCAC--A---GGGTCATCATTAGC
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGC
*
14492372 TCATGTGTACTCCTCCAT
66 TCATGTGTACTCCTCCAC
* * * *
14492390 ACATGGCTGGGTTAGCA-CAGCTCATGTGCACT-CCTACACTGCACATGGCTGGGTCAT
1 ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTC-GCACATAGCTGGGTCAT
14492447 AATTATCACG
Statistics
Matches: 192, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
76 5 0.03
77 16 0.08
78 44 0.23
81 1 0.01
82 7 0.04
83 119 0.62
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (83 bp):
ACATGGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGC
TCATGTGTACTCCTCCAC
Done.