Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 45 of 325
Found at i:13495647 original size:21 final size:21
Alignment explanation
Indices: 13495623--13495662 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13495613 AATACTCGTG
13495623 TTAATACA-GATTAATAAATAA
1 TTAATACATGATTAA-AAATAA
*
13495644 TTAATCCATGATTAAAAAT
1 TTAATACATGATTAAAAAT
13495663 TATTGTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (21 bp):
TTAATACATGATTAAAAATAA
Found at i:13498236 original size:6 final size:6
Alignment explanation
Indices: 13498225--13498285 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
13498215 GGTTTTCTCA
* * * *
13498225 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGA AAATGA AAATGAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G
13498274 AAATGAG AAATG
1 AAATG-G AAATG
13498286 AATTTATTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
6 40 0.77
7 12 0.23
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:13498242 original size:12 final size:12
Alignment explanation
Indices: 13498224--13498287 Score: 83
Period size: 12 Copynumber: 5.2 Consensus size: 12
13498214 TGGTTTTCTC
13498224 AAAATGGAAATG
1 AAAATGGAAATG
*
13498236 GAAATGGAAATG
1 AAAATGGAAATG
*
13498248 AAAATGAAAATG
1 AAAATGGAAATG
*
13498260 AAAATGAAAATG
1 AAAATGGAAATG
13498272 AGAAATGAGAAATG
1 A-AAATG-GAAATG
13498286 AA
1 AA
13498288 TTTATTTAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
12 34 0.74
13 6 0.13
14 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.23, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:13498252 original size:18 final size:18
Alignment explanation
Indices: 13498225--13498287 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
13498215 GGTTTTCTCA
*
13498225 AAATGGAAATGGAAATGG
1 AAATGAAAATGGAAATGG
* *
13498243 AAATGAAAATGAAAATGA
1 AAATGAAAATGGAAATGG
13498261 AAATGAAAATGAGAAATGAG
1 AAATGAAAATG-GAAATG-G
13498281 AAATGAA
1 AAATGAA
13498288 TTTATTTAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
18 26 0.68
19 5 0.13
20 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (18 bp):
AAATGAAAATGGAAATGG
Found at i:13510709 original size:25 final size:25
Alignment explanation
Indices: 13510681--13510754 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
13510671 AAAGGGAAAA
**
13510681 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAAAATTCCTAATTTAAAG
* *
13510706 TCCTAGTAGAATTCCTAATTTAAAG
1 TCCTAATAAAATTCCTAATTTAAAG
13510731 TCCTAATAAAATTCCTAATTTAAA
1 TCCTAATAAAATTCCTAATTTAAA
13510755 TTTTATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (25 bp):
TCCTAATAAAATTCCTAATTTAAAG
Found at i:13510736 original size:13 final size:13
Alignment explanation
Indices: 13510693--13510754 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 13
13510683 CTAATCTAAT
13510693 TCCTAATTTAAAG
1 TCCTAATTTAAAG
* *
13510706 TCCT-A-GTAGAAT
1 TCCTAATTTA-AAG
13510718 TCCTAATTTAAAG
1 TCCTAATTTAAAG
* *
13510731 TCCTAA-TAAAAT
1 TCCTAATTTAAAG
13510743 TCCTAATTTAAA
1 TCCTAATTTAAA
13510755 TTTTATAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 2 0.05
12 17 0.45
13 17 0.45
14 2 0.05
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (13 bp):
TCCTAATTTAAAG
Found at i:13510813 original size:28 final size:27
Alignment explanation
Indices: 13510760--13510814 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
13510750 TTAAATTTTA
*
13510760 TAAAAAAATTAGTAAAACTAAGACTCT
1 TAAAAAAATTAGTAAAACTAAAACTCT
* **
13510787 TAAAGAAATTAAGTAAATGTAAAACTCT
1 TAAAAAAATT-AGTAAAACTAAAACTCT
13510815 AATTCCTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (27 bp):
TAAAAAAATTAGTAAAACTAAAACTCT
Found at i:13520357 original size:8 final size:8
Alignment explanation
Indices: 13520342--13520377 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
13520332 TTAAAGCGAT
13520342 AAATGCCG
1 AAATGCCG
*
13520350 AAAAGCCG
1 AAATGCCG
13520358 AAATGCCG
1 AAATGCCG
13520366 AAATGCCG
1 AAATGCCG
13520374 AAAT
1 AAAT
13520378 TCTGGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:13520913 original size:20 final size:20
Alignment explanation
Indices: 13520890--13520927 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13520880 TAAACATGGT
13520890 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
13520910 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
13520928 GTGTATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:13521008 original size:23 final size:23
Alignment explanation
Indices: 13520978--13521050 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
13520968 AGGAAGTGCA
13520978 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
13521001 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
13521024 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
13521048 AAA
1 AAA
13521051 AGAGGCTAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:13521033 original size:24 final size:24
Alignment explanation
Indices: 13520977--13521057 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
13520967 GAGGAAGTGC
13520977 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
13521001 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
13521024 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
13521048 AAAAGAGGCT
1 AAAAG-GGCT
13521058 AGACCTCTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
23 23 0.43
24 27 0.50
25 4 0.07
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:13521303 original size:31 final size:31
Alignment explanation
Indices: 13521265--13521328 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13521255 CATTTACAGT
13521265 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
13521296 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
13521327 AA
1 AA
13521329 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:13523687 original size:42 final size:42
Alignment explanation
Indices: 13523634--13523718 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
13523624 AGAGGTCGTG
13523634 GGCAATGGTAACGGACGGGGACGTGGGGCAACTGGCAGAGGT
1 GGCAATGGTAACGGACGGGGACGTGGGGCAACTGGCAGAGGT
*
13523676 GGCAATGGTAACGGACGGGGACGTGGGGCACCTGGCAGAGGT
1 GGCAATGGTAACGGACGGGGACGTGGGGCAACTGGCAGAGGT
13523718 G
1 G
13523719 CTGGACATGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.48, T:0.12
Consensus pattern (42 bp):
GGCAATGGTAACGGACGGGGACGTGGGGCAACTGGCAGAGGT
Found at i:13531396 original size:6 final size:6
Alignment explanation
Indices: 13531380--13531431 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
13531370 CCAGAGTGAA
* *
13531380 AAAAAT AAAAAAT AAAAAC AAAAAT AAAAAT AACAAT AAATAATT AAAAAT
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AA-T AAAAAT
13531431 A
1 A
13531432 TTCACTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 25 0.64
7 10 0.26
8 4 0.10
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:13535896 original size:22 final size:23
Alignment explanation
Indices: 13535843--13535896 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
13535833 CAAAAGTGGC
13535843 TACTCTCAAAACTTTGCAAATAA
1 TACTCTCAAAACTTTGCAAATAA
13535866 TACTCTCAAAACTTTGCAAATAA
1 TACTCTCAAAACTTTGCAAATAA
13535889 T-CTCTCAA
1 TACTCTCAA
13535897 GTGGGAATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (23 bp):
TACTCTCAAAACTTTGCAAATAA
Found at i:13536893 original size:9 final size:9
Alignment explanation
Indices: 13536879--13536904 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13536869 ATGGACCATT
13536879 TTGTAAAAG
1 TTGTAAAAG
13536888 TTGTAAAAG
1 TTGTAAAAG
13536897 TTGTAAAA
1 TTGTAAAA
13536905 ATGGCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (9 bp):
TTGTAAAAG
Found at i:13540521 original size:16 final size:16
Alignment explanation
Indices: 13540500--13540530 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13540490 GATATTTTAA
13540500 TATATTATATTAATAT
1 TATATTATATTAATAT
*
13540516 TATATTATGTTAATA
1 TATATTATATTAATA
13540531 AAATAATAAA
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:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:13540627 original size:12 final size:12
Alignment explanation
Indices: 13540610--13540640 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13540600 GAAGCAGGGG
13540610 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
13540622 AGAAAAAGGGAA
1 AGAAAAAGAGAA
13540634 AGAAAAA
1 AGAAAAA
13540641 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:13543902 original size:16 final size:16
Alignment explanation
Indices: 13543861--13543917 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
13543851 TAAGTATAAA
*
13543861 ATTTCACTTCCCACTT
1 ATTTCACTTACCACTT
*
13543877 ACTTT-GCTTACCACTT
1 A-TTTCACTTACCACTT
* *
13543893 ATTTCTCTTAGCACTT
1 ATTTCACTTACCACTT
13543909 ATTTCACTT
1 ATTTCACTT
13543918 GGTCACTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.19, C:0.30, G:0.04, T:0.47
Consensus pattern (16 bp):
ATTTCACTTACCACTT
Found at i:13545934 original size:46 final size:45
Alignment explanation
Indices: 13545875--13545999 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
13545865 CTCTTAGCCG
* *
13545875 ATGCATGTTCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTT-TGTCTCAAGGCCA
* * * **
13545921 ATGCATGTCCCAGACATGTCTTACACTTGCACTTGTCTCAATGCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-TTTGTCTCAAGGCCA
*
13545967 ATGCCATGTCTCAGACATGGTCTTACACTGGCT
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT
13546000 CTCATAATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 40 0.61
47 14 0.21
48 12 0.18
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTTGTCTCAAGGCCA
Found at i:13552018 original size:17 final size:17
Alignment explanation
Indices: 13551996--13552030 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13551986 GATCATACAG
13551996 TAGAACTCAGTCCTTAA
1 TAGAACTCAGTCCTTAA
13552013 TAGAACTCAGTCCTTAA
1 TAGAACTCAGTCCTTAA
13552030 T
1 T
13552031 CATAGCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (17 bp):
TAGAACTCAGTCCTTAA
Found at i:13553765 original size:46 final size:46
Alignment explanation
Indices: 13553698--13553794 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 46
13553688 TCACATTGTG
13553698 ATATGAATTTTTGTTCAAAGACATAGCAATGCTCCACTAAAGCCCA
1 ATATGAATTTTTGTTCAAAGACATAGCAATGCTCCACTAAAGCCCA
13553744 ATATGAATTTTTGTTCAAAGACATAGCAATGCTCCACTAAAGCCCA
1 ATATGAATTTTTGTTCAAAGACATAGCAATGCTCCACTAAAGCCCA
*
13553790 CTATG
1 ATATG
13553795 GCTAGATCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (46 bp):
ATATGAATTTTTGTTCAAAGACATAGCAATGCTCCACTAAAGCCCA
Found at i:13557277 original size:60 final size:61
Alignment explanation
Indices: 13557199--13557338 Score: 210
Period size: 60 Copynumber: 2.3 Consensus size: 61
13557189 CCCTCAATAC
* * *
13557199 TTACATATTTTATTAATTTGATCCTAATTCTAAGTAATTCAATAAATTTAA-TCTTCACAT
1 TTACAAATTTTATCAATTTGATCCTAATTCTAAATAATTCAATAAATTTAACTCTTCACAT
* * *
13557259 TTATAAATTTTATCAATTTGATCCTACTTCTAAATAATTTAATAAATTTAACTCTTCACAT
1 TTACAAATTTTATCAATTTGATCCTAATTCTAAATAATTCAATAAATTTAACTCTTCACAT
*
13557320 TTACAAATTCTATCAATTT
1 TTACAAATTTTATCAATTT
13557339 AATATTCAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
60 45 0.63
61 26 0.37
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.46
Consensus pattern (61 bp):
TTACAAATTTTATCAATTTGATCCTAATTCTAAATAATTCAATAAATTTAACTCTTCACAT
Found at i:13557298 original size:30 final size:30
Alignment explanation
Indices: 13557213--13557307 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
13557203 ATATTTTATT
* * *
13557213 AATTTGATCCTAATTCTAAGTAATTCAATA
1 AATTTGATCCTACTTCTAAATAATTTAATA
* * * * *
13557243 AATTTAATCTTCACATT-TATA-AATTTTATC
1 AATTTGATCCT-AC-TTCTAAATAATTTAATA
13557273 AATTTGATCCTACTTCTAAATAATTTAATA
1 AATTTGATCCTACTTCTAAATAATTTAATA
13557303 AATTT
1 AATTT
13557308 AACTCTTCAC
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
28 2 0.04
29 5 0.10
30 36 0.75
31 3 0.06
32 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (30 bp):
AATTTGATCCTACTTCTAAATAATTTAATA
Found at i:13558195 original size:16 final size:17
Alignment explanation
Indices: 13558163--13558200 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
13558153 ACCGCACTTA
13558163 ATTTATTTATTAATTTT
1 ATTTATTTATTAATTTT
13558180 ATTT-TTTA-TAATTTT
1 ATTTATTTATTAATTTT
*
13558195 TTTTAT
1 ATTTAT
13558201 AAATGCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 5 0.26
17 4 0.21
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTAATTTT
Found at i:13563972 original size:13 final size:13
Alignment explanation
Indices: 13563954--13563979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13563944 AAGAAATCGA
13563954 ACATGGGCGTGTC
1 ACATGGGCGTGTC
13563967 ACATGGGCGTGTC
1 ACATGGGCGTGTC
13563980 CCTGTCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
ACATGGGCGTGTC
Found at i:13574240 original size:157 final size:157
Alignment explanation
Indices: 13573949--13574263 Score: 612
Period size: 157 Copynumber: 2.0 Consensus size: 157
13573939 GTAACACCCC
*
13573949 TAACTTGTAACCGTCGCAGGAATAGGTTAAAAGGTATTACTAGACTTATAACTCAGTTCAGAACA
1 TAACCTGTAACCGTCGCAGGAATAGGTTAAAAGGTATTACTAGACTTATAACTCAGTTCAGAACA
13574014 ATCATTTATCCGATAACATCTTATCTCAATCAATATCATTCAATCACACTCAATATGTACTTAAA
66 ATCATTTATCCGATAACATCTTATCTCAATCAATATCATTCAATCACACTCAATATGTACTTAAA
13574079 TCAAGCATACAAGGCTCTAATCATGCA
131 TCAAGCATACAAGGCTCTAATCATGCA
13574106 TAACCTGTAACCGTCGCAGGAATAGGTTAAAAGGTATTACTAGACTTATAACTCAGTTCAGAACA
1 TAACCTGTAACCGTCGCAGGAATAGGTTAAAAGGTATTACTAGACTTATAACTCAGTTCAGAACA
*
13574171 ATCATTTATCCGATAACATCTTTTCTCAATCAATATCATTCAATCACACTCAATATGTACTTAAA
66 ATCATTTATCCGATAACATCTTATCTCAATCAATATCATTCAATCACACTCAATATGTACTTAAA
13574236 TCAAGCATACAAGGCTCTAATCATGCA
131 TCAAGCATACAAGGCTCTAATCATGCA
13574263 T
1 T
13574264 TCGGGACTAA
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.30
Consensus pattern (157 bp):
TAACCTGTAACCGTCGCAGGAATAGGTTAAAAGGTATTACTAGACTTATAACTCAGTTCAGAACA
ATCATTTATCCGATAACATCTTATCTCAATCAATATCATTCAATCACACTCAATATGTACTTAAA
TCAAGCATACAAGGCTCTAATCATGCA
Found at i:13575427 original size:46 final size:46
Alignment explanation
Indices: 13575365--13575477 Score: 176
Period size: 46 Copynumber: 2.5 Consensus size: 46
13575355 AAAAATACAA
* *
13575365 TCACATAT-CCATATGTCTCATATAGCTCATTTCATCATAATTCAT
1 TCACATATAACATATGTCTCACATAGCTCATTTCATCATAATTCAT
* *
13575410 TCACATATAACATATGTCTCACATGGCTCATTTGATCATAATTCAT
1 TCACATATAACATATGTCTCACATAGCTCATTTCATCATAATTCAT
13575456 TCACATATAACATATGT-TCACA
1 TCACATATAACATATGTCTCACA
13575478 AATGTACATA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 13 0.21
46 50 0.79
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (46 bp):
TCACATATAACATATGTCTCACATAGCTCATTTCATCATAATTCAT
Found at i:13575702 original size:43 final size:42
Alignment explanation
Indices: 13575641--13575804 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
13575631 CAACGCCAAC
* *
13575641 GTCCCAAACGTGGTCTTACATGTAATCAAATATCGATGCCATT
1 GTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCA-T
* * *
13575684 GTCCCAAACAAGGTCTTACACGAAATCAAATA-CGATGTCGAT
1 GTCCCAAACATGGTCTTACACGTAATCAAATATCGATG-CCAT
* * *
13575726 GTCCCAAACATGGCCTTACACGTAAATCTCAA-ATCGATGCCAAC
1 GTCCCAAACATGGTCTTACACGT-AATC-AAATATCGATGCC-AT
** * * *
13575770 GTCCCAGGCGTGGTCTTACACGAAATCACATATCG
1 GTCCCAAACATGGTCTTACACGTAATCAAATATCG
13575805 GAATCCTATG
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
42 27 0.28
43 44 0.45
44 26 0.27
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
GTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCAT
Found at i:13585027 original size:18 final size:18
Alignment explanation
Indices: 13585000--13585092 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
13584990 TACGACCGTT
13585000 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
13585018 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
**
13585036 TATAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
**
13585054 TACGACACTATTCACGTA
1 TACGGTACTATTCACGTA
*
13585072 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
13585090 TAC
1 TAC
13585093 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:13590010 original size:8 final size:8
Alignment explanation
Indices: 13589997--13590028 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13589987 TCTAATTATA
13589997 TATATATT
1 TATATATT
13590005 TATATATT
1 TATATATT
13590013 TATATA--
1 TATATATT
13590019 TATATATT
1 TATATATT
13590027 TA
1 TA
13590029 CCTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATATT
Found at i:13592112 original size:24 final size:22
Alignment explanation
Indices: 13592085--13592133 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
13592075 ATGGATAAAA
13592085 TTATATTAAATAATAAGATTTTTT
1 TTATATTAAATAA-AAG-TTTTTT
* * *
13592109 TTATTTTTAATAACAGTTTTTT
1 TTATATTAAATAAAAGTTTTTT
13592131 TTA
1 TTA
13592134 AGAAATAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 9 0.41
23 2 0.09
24 11 0.50
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTATATTAAATAAAAGTTTTTT
Found at i:13592693 original size:19 final size:19
Alignment explanation
Indices: 13592665--13592708 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13592655 CTCCTTACCA
*
13592665 ACCACCAACCACCAATCAC
1 ACCACAAACCACCAATCAC
* *
13592684 ACCACAAACCACCATTCAT
1 ACCACAAACCACCAATCAC
13592703 ACCACA
1 ACCACA
13592709 CAAATACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.48, G:0.00, T:0.09
Consensus pattern (19 bp):
ACCACAAACCACCAATCAC
Found at i:13593394 original size:24 final size:24
Alignment explanation
Indices: 13593362--13593409 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
13593352 ATTTCGTGTT
13593362 TTCAAGCTAGTTTCTCTATTCTAA
1 TTCAAGCTAGTTTCTCTATTCTAA
13593386 TTCAAGCTAGTTTCTCTATTCTAA
1 TTCAAGCTAGTTTCTCTATTCTAA
13593410 CATGTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (24 bp):
TTCAAGCTAGTTTCTCTATTCTAA
Found at i:13596062 original size:9 final size:8
Alignment explanation
Indices: 13596035--13596059 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13596025 GTTTATATAT
13596035 ATTTTAAA
1 ATTTTAAA
13596043 ATTTTAAA
1 ATTTTAAA
13596051 ATTTTAAA
1 ATTTTAAA
13596059 A
1 A
13596060 ATTAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:13598906 original size:27 final size:27
Alignment explanation
Indices: 13598876--13598929 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13598866 AAAATAATAG
13598876 ACTATACACCTTTAA-AATTTAGATTCT
1 ACTATACACCTTTAAGAA-TTAGATTCT
13598903 ACTATACACCTTTAAGAATTAGATTCT
1 ACTATACACCTTTAAGAATTAGATTCT
13598930 TTGTCCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (27 bp):
ACTATACACCTTTAAGAATTAGATTCT
Found at i:13601689 original size:12 final size:12
Alignment explanation
Indices: 13601672--13601705 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
13601662 CCAGCCCGTC
13601672 TATATTAATTTT
1 TATATTAATTTT
13601684 TATATT-ATTTT
1 TATATTAATTTT
13601695 TATA-TAATTTT
1 TATATTAATTTT
13601706 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:13608276 original size:64 final size:63
Alignment explanation
Indices: 13608173--13608363 Score: 301
Period size: 64 Copynumber: 3.0 Consensus size: 63
13608163 TCATTCATAA
* *
13608173 CACATTTAGTTAGGAACATTTGGTTCATTTTGATTATGGCATCCAAATTATTTGACATAAGCAT
1 CACATTTAGTTAGGAGCATTTGGTTCATTTTGATCATGGCATCC-AATTATTTGACATAAGCAT
13608237 CACATTTAGTTAGGAGCATTTGGTTCATTTTGATCATGGCATCCTAATTATTTGACATAAGCAT
1 CACATTTAGTTAGGAGCATTTGGTTCATTTTGATCATGGCATCC-AATTATTTGACATAAGCAT
* * ** *
13608301 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCAATTATTTGGCATAAGCAT
1 CACATTTAGTTAGGAGCATTTGGTTCATTTTGATCATGGCATCCAATTATTTGACATAAGCAT
13608364 ATAAAATGAA
Statistics
Matches: 119, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
63 18 0.15
64 101 0.85
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (63 bp):
CACATTTAGTTAGGAGCATTTGGTTCATTTTGATCATGGCATCCAATTATTTGACATAAGCAT
Found at i:13608940 original size:180 final size:180
Alignment explanation
Indices: 13608421--13609581 Score: 1524
Period size: 180 Copynumber: 6.5 Consensus size: 180
13608411 CATGAGTAAA
* * *
13608421 AATTGAAGATCTTATCCCCCTGAAGTTGCAGCGGAGTAGATCTTCGCAGATGGTGAATCTTATCT
1 AATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATCT
* * * *
13608486 CCATGTATCGGTAATGGAGCAGATTTTACCACTAA-CCTCATCTCTCTGAGGTAGCAAGAGAGCA
66 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
* * * *
13608550 GGTTGAAGAGTGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAG
131 GGTTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAG
* * *** * * * * *
13608600 AATTGAAGATTTTATCTCTCT-AAACAGTAGCGGAGCAAATC--GA-AAATGGTGAATCTTATTT
1 AATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATCT
* * * *
13608661 CCATGTATCGGCAATGGAGTAGATTTTACCACTAA-CCTTATTTCTCTGAGGTAGCAAGAGAGCA
66 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
* * *
13608725 GGTTGAGGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAACAGACTGAG
131 GGTTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAG
* * * *
13608775 AATTAAAGATCTTATCTCCCTAAAGTTACAGCGGAGCAGATCTTTACAGATGGTGAATCTTATCT
1 AATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATCT
13608840 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
66 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
*
13608905 GGTTGAAGAATAAGTCTTATCTTCCTGAAGTAGCAAGGAAACAGACTGA-
131 GGTTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAG
* * * *
13608954 AGATTGAAAATTTTATCTCCCTG-AGATTGCAGCGGAGCAGATCTTCGCTGATGGTGAATCTTAT
1 A-ATTGAAGATCTTATCTCCCTGAAG-TTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTAT
* * * *
13609018 CTCCATGTATC-GACAATGAAGCAGATTTTACCACCAAGCCTTATCTCACTGAGGGAGTAAGAGA
64 CTCCATGTATCAG-CAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGA
* * * *
13609082 ACAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAG
128 GCAGGTTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAG
* *
13609135 AATTAAAGATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATCTTCACAGATGGTGAATCTTATCT
1 AATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATCT
* * *
13609200 CCATGTATCGGCAATGGAGAAGATTTTACCATCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
66 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
*
13609265 GATTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAG
131 GGTTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAG
* * * * * * *
13609315 AATTGAAGATTTTATATCCCTG-AGATTGCAGAGGAACAGATCTTCGCAGATTGTGAATCTTATT
1 AATTGAAGATCTTATCTCCCTGAAG-TTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATC
* * *
13609379 TCCATGTATCAGCAATGGAGCAGATTTTACCTCC-AGCCTCATCTCTCTGAAGTAGCAAGAGAGC
65 TCCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
* * *
13609443 AGGTTGAAGAATAAGTATTGTCTTCCTGAGGTAGCAAGGAAGCAGACTGATG
130 AGGTTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGA-G
* * * ** * *
13609495 -GTTGAGGATCTTATCTCCCTGAAGTGGCAATGGAGCAGA--TTGA-AAATGGTGAATCTTATCT
1 AATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATCT
*
13609556 CCATGTATCAGCAATAGAGCAGATTT
66 CCATGTATCAGCAATGGAGCAGATTT
13609582 AACCTATCAA
Statistics
Matches: 861, Mismatches: 107, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
175 141 0.16
176 54 0.06
177 2 0.00
178 15 0.02
179 174 0.20
180 471 0.55
181 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (180 bp):
AATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATCT
CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
GGTTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAG
Found at i:13618498 original size:14 final size:15
Alignment explanation
Indices: 13618479--13618511 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
13618469 TTTTATCCAC
13618479 TTATATTGTTAT-AA
1 TTATATTGTTATAAA
13618493 TTATATTGTTATAAA
1 TTATATTGTTATAAA
13618508 TTAT
1 TTAT
13618512 TAGACAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TTATATTGTTATAAA
Found at i:13623346 original size:42 final size:42
Alignment explanation
Indices: 13623283--13623388 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 42
13623273 ACAGCTTAAC
* * *
13623283 TATGGTCTTACACGA-ACTCTCATATTGATTCTATATCCTAGA
1 TATGGTCTTACAC-ATAGTCTCATATTGATTCCATATCCCAGA
13623325 TACT-GTCTTACACATAGTCTCATATTGATTCCATATCCCAGA
1 TA-TGGTCTTACACATAGTCTCATATTGATTCCATATCCCAGA
13623367 TATGGTCTTACACATAGTCTCA
1 TATGGTCTTACACATAGTCTCA
13623389 GTAACCCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
41 2 0.03
42 55 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (42 bp):
TATGGTCTTACACATAGTCTCATATTGATTCCATATCCCAGA
Found at i:13627537 original size:22 final size:22
Alignment explanation
Indices: 13627509--13627552 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13627499 CTTTAGCTAT
13627509 TTTTTATTTTTAATACAATTTA
1 TTTTTATTTTTAATACAATTTA
* *
13627531 TTTTTATTTTTATTATAATTTA
1 TTTTTATTTTTAATACAATTTA
13627553 CTAACTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTTTTAATACAATTTA
Found at i:13630729 original size:20 final size:20
Alignment explanation
Indices: 13630706--13630757 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
13630696 TGTGTTCGGA
*
13630706 CACACTAGCGTGTGGGATAC
1 CACACGAGCGTGTGGGATAC
* *
13630726 CACACGGGCGTGTGGTATAC
1 CACACGAGCGTGTGGGATAC
*
13630746 CACACGGGCGTG
1 CACACGAGCGTG
13630758 AGAGAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (20 bp):
CACACGAGCGTGTGGGATAC
Found at i:13631450 original size:26 final size:28
Alignment explanation
Indices: 13631413--13631464 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 28
13631403 GATACTTTAG
13631413 ATTTTTATTTTT-ATT-TT-ATTATTAT
1 ATTTTTATTTTTCATTCTTAATTATTAT
*
13631438 ATTTTTTTCTTTTCATTCTTAATTATT
1 ATTTTTAT-TTTTCATTCTTAATTATT
13631465 TCTTTGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 3 0.14
28 2 0.09
29 6 0.27
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (28 bp):
ATTTTTATTTTTCATTCTTAATTATTAT
Found at i:13633164 original size:7 final size:6
Alignment explanation
Indices: 13633126--13633218 Score: 91
Period size: 6 Copynumber: 15.5 Consensus size: 6
13633116 TTGAGTCTGA
* *
13633126 TTATTT TTATGT TTATGT TTATTT TTATTT TTATCTT TTATCTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTAT-TT TTATTT
* * * * *
13633176 TTATTT ATACTT TTA-CT TT-TTT TTATTT TTCTTT TTATGT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTA
13633219 GTTTGTTTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
5 6 0.08
6 55 0.74
7 13 0.18
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:13633255 original size:12 final size:11
Alignment explanation
Indices: 13633126--13633256 Score: 66
Period size: 12 Copynumber: 10.9 Consensus size: 11
13633116 TTGAGTCTGA
13633126 TTATTTTTATGT
1 TTATTTTTAT-T
*
13633138 TTATGTTTATTT
1 TTATTTTTA-TT
13633150 TTATTTTTATCTT
1 TTATTTTTA--TT
13633163 TTATCTTTTATTT
1 TTAT-TTTTA-TT
*
13633176 TTATTTATACTT
1 TTATTTTTA-TT
*
13633188 TTACTTTT-TT
1 TTATTTTTATT
*
13633198 TTATTTTTCTTT
1 TTATTTTT-ATT
* *
13633210 TTATGTTTAGT
1 TTATTTTTATT
*
13633221 TTGTTTTCCTATT
1 TTATTTT--TATT
**
13633234 TTAAACTTTATT
1 TT-ATTTTTATT
13633246 TTAATTTTTAT
1 TT-ATTTTTAT
13633257 GGTTGTTTCT
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
10 9 0.10
11 6 0.07
12 51 0.56
13 18 0.20
14 7 0.08
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.73
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:13650034 original size:28 final size:28
Alignment explanation
Indices: 13650003--13650059 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
13649993 TAAATGTCTG
* *
13650003 AAGTACTTAATGACTCAAAAAGATTTGA
1 AAGTACTTAATGAATAAAAAAGATTTGA
*
13650031 AAGTACTTGATGAATAAAAAAGATTTGA
1 AAGTACTTAATGAATAAAAAAGATTTGA
13650059 A
1 A
13650060 CCTACGGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (28 bp):
AAGTACTTAATGAATAAAAAAGATTTGA
Found at i:13655125 original size:20 final size:20
Alignment explanation
Indices: 13655100--13655140 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13655090 CAAAAAGTTT
13655100 AAGAACTAAATTGTGAATTA
1 AAGAACTAAATTGTGAATTA
13655120 AAGAACTAAATTGTGAATTA
1 AAGAACTAAATTGTGAATTA
13655140 A
1 A
13655141 TTGTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
AAGAACTAAATTGTGAATTA
Found at i:13658664 original size:33 final size:33
Alignment explanation
Indices: 13658622--13658688 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
13658612 AGTTATGCTC
13658622 TCATATAATTCTCCTCCTTGGAATTTGTTTTTA
1 TCATATAATTCTCCTCCTTGGAATTTGTTTTTA
13658655 TCATATAATTCTCCTCCTTGGAATTTGTTTTTA
1 TCATATAATTCTCCTCCTTGGAATTTGTTTTTA
13658688 T
1 T
13658689 AAGTTGCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (33 bp):
TCATATAATTCTCCTCCTTGGAATTTGTTTTTA
Found at i:13661543 original size:37 final size:37
Alignment explanation
Indices: 13661502--13661577 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
13661492 TATAGTTCAA
13661502 CTAAAACTACATAAAAGAACAATGAAGATAACTGCGT
1 CTAAAACTACATAAAAGAACAATGAAGATAACTGCGT
13661539 CTAAAACTACATAAAAGAACAATGAAGATAACTGCGT
1 CTAAAACTACATAAAAGAACAATGAAGATAACTGCGT
13661576 CT
1 CT
13661578 GATGTCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (37 bp):
CTAAAACTACATAAAAGAACAATGAAGATAACTGCGT
Found at i:13665274 original size:46 final size:46
Alignment explanation
Indices: 13665211--13665307 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
13665201 TTTACATGCG
*
13665211 AAGATCTCATTACAAATTAACACATTGACATGCTTAACATGAGAAT
1 AAGATCTCATTACAAATTAACACAGTGACATGCTTAACATGAGAAT
* * *
13665257 CAGATCTCATTATAAATTAACACAGTGACATGCTTAACATGCGAAT
1 AAGATCTCATTACAAATTAACACAGTGACATGCTTAACATGAGAAT
13665303 AAGAT
1 AAGAT
13665308 TAATAACAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (46 bp):
AAGATCTCATTACAAATTAACACAGTGACATGCTTAACATGAGAAT
Found at i:13665590 original size:19 final size:19
Alignment explanation
Indices: 13665552--13665590 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13665542 GTTAAACAAA
*
13665552 TATTTAATATTATCACATT
1 TATTTAATATTAACACATT
13665571 TATTTAATTATTAACA-ATT
1 TATTTAA-TATTAACACATT
13665590 T
1 T
13665591 CACACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTAATATTAACACATT
Found at i:13670205 original size:20 final size:20
Alignment explanation
Indices: 13670177--13670216 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13670167 CTCTAATTAG
*
13670177 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
13670197 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
13670217 TGAATGCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:13684868 original size:51 final size:51
Alignment explanation
Indices: 13684808--13684911 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
13684798 CTGATGAGTT
* *
13684808 TAATAGATTGTGCAAGTCAGAAGGGATTATGAGACACTTGACAGTTCGTCA
1 TAATAGATTGTGCAAGTCAGAAGGGATCATGAGACACTTGACAGTTCATCA
13684859 TAATAGATTGTGCAAGTCAGAAGGGATCATGAGACACTTGACAGTTCATCA
1 TAATAGATTGTGCAAGTCAGAAGGGATCATGAGACACTTGACAGTTCATCA
13684910 TA
1 TA
13684912 CTCCACAGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (51 bp):
TAATAGATTGTGCAAGTCAGAAGGGATCATGAGACACTTGACAGTTCATCA
Found at i:13690607 original size:15 final size:15
Alignment explanation
Indices: 13690587--13690631 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
13690577 ATAAAAGAAT
13690587 ATTTAACTATAAAAA
1 ATTTAACTATAAAAA
*
13690602 ATTTAA--A-ATAAA
1 ATTTAACTATAAAAA
13690614 ATTTAACTATAAAAA
1 ATTTAACTATAAAAA
13690629 ATT
1 ATT
13690632 AAAATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
14 1 0.04
15 13 0.52
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTTAACTATAAAAA
Found at i:13690634 original size:26 final size:27
Alignment explanation
Indices: 13690578--13690639 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
13690568 ATCATTGTTA
* *
13690578 TAAAAGAATATTTAACTATAAAAAATT
1 TAAAATAAAATTTAACTATAAAAAATT
13690605 TAAAATAAAATTTAACTATAAAAAA-T
1 TAAAATAAAATTTAACTATAAAAAATT
13690631 TAAAATAAA
1 TAAAATAAA
13690640 TTATAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAAATAAAATTTAACTATAAAAAATT
Found at i:13695553 original size:20 final size:20
Alignment explanation
Indices: 13695528--13695567 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13695518 ATGGAAGGGA
13695528 AAAAAAAAGTGTTCAGCTTT
1 AAAAAAAAGTGTTCAGCTTT
13695548 AAAAAAAAGTGTTCAGCTTT
1 AAAAAAAAGTGTTCAGCTTT
13695568 CTTCTGTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (20 bp):
AAAAAAAAGTGTTCAGCTTT
Found at i:13698164 original size:46 final size:46
Alignment explanation
Indices: 13698113--13698204 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
13698103 ATCATGATAT
*
13698113 TTTTAGTGGATTGAC-CTTATGACCAAATAATTTGCAATTAATAGAC
1 TTTTAGTGGATTGACTC-CATGACCAAATAATTTGCAATTAATAGAC
*
13698159 TTTTAGTGGATTGACTCCGTGACCAAATAATTTGCAATTAATAGAC
1 TTTTAGTGGATTGACTCCATGACCAAATAATTTGCAATTAATAGAC
13698205 GAAGCATTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (46 bp):
TTTTAGTGGATTGACTCCATGACCAAATAATTTGCAATTAATAGAC
Found at i:13699957 original size:3 final size:3
Alignment explanation
Indices: 13699943--13699996 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
13699933 GACAATAAAG
*
13699943 AAT AAT AGT AAT AAT AAT AAT -AT AGAT AAT AAT -AT ATAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT
13699987 AAT AAT AAT A
1 AAT AAT AAT A
13699997 GTTAGAGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 32 0.73
4 6 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13700223 original size:15 final size:16
Alignment explanation
Indices: 13700205--13700239 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
13700195 AAATATAAGT
13700205 ATAAAT-ATGATAATA
1 ATAAATAATGATAATA
13700220 AT-AATAATGATAATA
1 ATAAATAATGATAATA
13700235 ATAAA
1 ATAAA
13700240 AGTAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.17
15 13 0.72
16 2 0.11
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAAATAATGATAATA
Found at i:13700638 original size:17 final size:17
Alignment explanation
Indices: 13700581--13700642 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
13700571 AAAATAATAT
13700581 TAAAATATATATACGAGTAA
1 TAAAA-ATATATAC-A-TAA
* * * *
13700601 TAAAAATGTATCCGTAT
1 TAAAAATATATACATAA
13700618 TAAAAATATATACATAA
1 TAAAAATATATACATAA
13700635 TAAAAATA
1 TAAAAATA
13700643 CAATATTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
17 23 0.68
19 6 0.18
20 5 0.15
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
TAAAAATATATACATAA
Found at i:13701688 original size:21 final size:20
Alignment explanation
Indices: 13701664--13701715 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
13701654 AGCAAATTCG
13701664 AAAATAAAATAAAAAGGAAAA
1 AAAATAAAATAAAAA-GAAAA
* *
13701685 AAAAT--AATAAATAGAAAG
1 AAAATAAAATAAAAAGAAAA
13701703 AAAATAATAATAA
1 AAAATAA-AATAA
13701716 TGTAATATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 9 0.35
19 7 0.27
21 10 0.38
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAATAAAATAAAAAGAAAA
Found at i:13701701 original size:18 final size:17
Alignment explanation
Indices: 13701663--13701712 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
13701653 AAGCAAATTC
*
13701663 GAAAATAAAATAA-AAAG
1 GAAAA-AAAATAATAAAA
13701680 GAAAAAAAATAATAAATA
1 GAAAAAAAATAATAAA-A
*
13701698 GAAAGAAAATAATAA
1 GAAAAAAAATAATAA
13701713 TAATGTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 7 0.24
17 8 0.28
18 14 0.48
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (17 bp):
GAAAAAAAATAATAAAA
Found at i:13703518 original size:21 final size:21
Alignment explanation
Indices: 13703488--13703533 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13703478 TCAGAAGTAA
*
13703488 TAATACGACACACATGGTGCC
1 TAATACGACACACATAGTGCC
* *
13703509 TAATATGACACATATAGTGCC
1 TAATACGACACACATAGTGCC
13703530 TAAT
1 TAAT
13703534 CAACTCGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (21 bp):
TAATACGACACACATAGTGCC
Found at i:13704525 original size:19 final size:19
Alignment explanation
Indices: 13704475--13704556 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 19
13704465 TTCTTTTCTC
* *
13704475 CTTTCTTTCTTTCCTATTT
1 CTTTGTTTCTTTTCTATTT
* * *
13704494 C-GT-TTTCTATTCTGTTT
1 CTTTGTTTCTTTTCTATTT
*
13704511 CTTTGTTTCTTTTCTATCT
1 CTTTGTTTCTTTTCTATTT
*
13704530 -TTTATTTCTTTT-TATTT
1 CTTTGTTTCTTTTCTATTT
13704547 CATTTGTTTC
1 C-TTTGTTTC
13704557 ATTTGTTTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
17 16 0.33
18 13 0.27
19 19 0.40
ACGTcount: A:0.07, C:0.18, G:0.05, T:0.70
Consensus pattern (19 bp):
CTTTGTTTCTTTTCTATTT
Found at i:13704732 original size:21 final size:22
Alignment explanation
Indices: 13704697--13704737 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13704687 ATTTTACATA
*
13704697 ATAATATAATATAATATATTTT
1 ATAATATAAAATAATATATTTT
13704719 ATAAT-TAAAATAATATATT
1 ATAATATAAAATAATATATT
13704738 AATATATTTA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATATAAAATAATATATTTT
Found at i:13704756 original size:29 final size:31
Alignment explanation
Indices: 13704696--13704757 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
13704686 AATTTTACAT
* *
13704696 AATAATATAATATAATATATTTTATAATTAA
1 AATAATATAATATAATATATTTTAAAAATAA
13704727 AATAATAT-AT-TAATATA-TTTAAAACATAA
1 AATAATATAATATAATATATTTTAAAA-ATAA
13704756 AA
1 AA
13704758 ATCTAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 6 0.21
29 12 0.43
30 2 0.07
31 8 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (31 bp):
AATAATATAATATAATATATTTTAAAAATAA
Found at i:13705202 original size:15 final size:16
Alignment explanation
Indices: 13705176--13705205 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13705166 TTGGTAACTT
13705176 TGAAATTTATTATTTA
1 TGAAATTTATTATTTA
13705192 TGAAA-TTATTATTT
1 TGAAATTTATTATTT
13705206 TTAAAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
TGAAATTTATTATTTA
Found at i:13705297 original size:21 final size:21
Alignment explanation
Indices: 13705233--13705299 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
13705223 GATTTAACAT
*
13705233 ATTTGAAATTTAAGATTTTGAATTA
1 ATTT-AAATTT-AGA-TTTGGA-TA
*
13705258 ATTTAAATTTATTATTTGGATA
1 ATTTAAATTTA-GATTTGGATA
13705280 ATTTAAATTTAGATTTGGAT
1 ATTTAAATTTAGATTTGGAT
13705300 TGTAACTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
21 8 0.21
22 13 0.34
23 6 0.16
24 7 0.18
25 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
ATTTAAATTTAGATTTGGATA
Found at i:13716465 original size:37 final size:37
Alignment explanation
Indices: 13716414--13716492 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
13716404 TAGAATGATA
* *
13716414 ACAACCTAAATCTCTCTGAGTT-ACCTGATTTAAGATC
1 ACAACCTAAATCTCTCTAAGTTAACAT-ATTTAAGATC
*
13716451 GCAACCTAAATCTCTCTAAGTTAACATATTTAAGATC
1 ACAACCTAAATCTCTCTAAGTTAACATATTTAAGATC
13716488 ACAAC
1 ACAAC
13716493 TCCCAAACAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 34 0.92
38 3 0.08
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (37 bp):
ACAACCTAAATCTCTCTAAGTTAACATATTTAAGATC
Found at i:13716638 original size:104 final size:104
Alignment explanation
Indices: 13716433--13716984 Score: 504
Period size: 104 Copynumber: 5.3 Consensus size: 104
13716423 ATCTCTCTGA
* *
13716433 GTTACCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCACAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
* *** * * * * *
13716498 AACAGCTTGTGAACTTACATTCCCAACTAATGTTTAAAG
66 AATAGCTCACGGACCTACGTTCCCAACTGATATTTAAAG
* * * * * * *
13716537 ATTAGTTGATTTAAAATCGTAACCTAAATTTCTCTGAGTTAACATATTTAATATCGCAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
*
13716602 AATAGCTCACGGACCTACGTTCTCAGA-TGATATTTAAAG
66 AATAGCTCACGGACCTACGTTCCCA-ACTGATATTTAAAG
* *** *
13716641 GTTAGCTGATTTAATATCGCAACCTAAATCTCTCTAAGTTAGTTTATTTAAGATCTCAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
* * **
13716706 AATAGCTCACGGACCTATGTTACCAGTTGA-AGTTTAAAG
66 AATAGCTCACGGACCTACGTTCCCAACTGATA-TTTAAAG
* * * ** *
13716745 GTTAGCTGATTTAAGATCG-TACCTATATCTCTCTGAGTTAATTTATTTAAGTTCGCAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
* ** ** * *
13716809 AAAAAATCGTGGACCTACGTTCCCAATTGATGTTTAAAG
66 AATAGCTCACGGACCTACGTTCCCAACTGATATTTAAAG
** * * * * *
13716848 GTTATTTGATTTAAGA-CTGGAACCTATATCTCTCTAAG-TAGC-TGATTTAAGATTGCATCTCC
1 GTTAGCTGATTTAAGATC-GCAACCTAAATCTCTCTAAGTTAACAT-ATTTAAGATCGCAACTCC
* * ** * * * *
13716910 CAAACAACTTGCAGACCTACATTCCCAATATGATGTTTAAAG
64 CAAATAGCTCACGGACCTACGTTCCCAA-CTGATATTTAAAG
*
13716952 GTTAGCTGATTTAAGATCGCAACCTATATCTCT
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCT
13716985 TTGAGTTAGC
Statistics
Matches: 370, Mismatches: 69, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
102 2 0.01
103 123 0.33
104 243 0.66
105 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (104 bp):
GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
AATAGCTCACGGACCTACGTTCCCAACTGATATTTAAAG
Found at i:13716881 original size:207 final size:207
Alignment explanation
Indices: 13716433--13716992 Score: 553
Period size: 207 Copynumber: 2.7 Consensus size: 207
13716423 ATCTCTCTGA
* * **
13716433 GTTACCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACAT-ATTTAAGATCACAACTCCC
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAG-TAGC-TGATTTAAGATTGCAACTCCC
* *** * * * * * *
13716497 AAACAGCT-TGTGAACTTACATTCCCAACTA--ATGTTTAAAGATTAGTTGATTTAAAATCGTAA
64 AAACAACTCACAG-ACCTACATTACCAA-TATGAAGTTTAAAGGTTAGCTGATTTAAGATCGT-A
* * * **
13716559 CCTAAATTTCTCTGAGTTAACATATTTAATATCGCAACTCCCAAATAGCTCACGGACCTACGTTC
126 CCTATATCTCTCTGAGTTAACATATTTAATATCGCAACTCCCAAAAAAATCACGGACCTACGTTC
*
13716624 TCAGATGATATTTAAAG
191 CCAGATGATATTTAAAG
* * *
13716641 GTTAGCTGATTTAATATCGCAACCTAAATCTCTCTAAGTTAGTTTATTTAAGATCT-CAACTCCC
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAG-TAGCTGATTTAAGAT-TGCAACTCCC
* * * ** *
13716705 AAATAGCTCACGGACCTATGTTACCAGT-TGAAGTTTAAAGGTTAGCTGATTTAAGATCGTACCT
64 AAACAACTCACAGACCTACATTACCAATATGAAGTTTAAAGGTTAGCTGATTTAAGATCGTACCT
** **
13716769 ATATCTCTCTGAGTTAATTTATTTAAGT-TCGCAACTCCCAAAAAAATCGTGGACCTACGTTCCC
129 ATATCTCTCTGAGTTAACATATTTAA-TATCGCAACTCCCAAAAAAATCACGGACCTACGTTCCC
*
13716833 A-ATTGATGTTTAAAG
193 AGA-TGATATTTAAAG
** * * *
13716848 GTTATTTGATTTAAGA-CTGGAACCTATATCTCTCTAAGTAGCTGATTTAAGATTGCATCTCCCA
1 GTTAGCTGATTTAAGATC-GCAACCTAAATCTCTCTAAGTAGCTGATTTAAGATTGCAACTCCCA
** * * *
13716912 AACAACTTGCAGACCTACATTCCCAATATGATGTTTAAAGGTTAGCTGATTTAAGATCGCAACCT
65 AACAACTCACAGACCTACATTACCAATATGAAGTTTAAAGGTTAGCTGATTTAAGATCG-TACCT
*
13716977 ATATCTCTTTGAGTTA
129 ATATCTCTCTGAGTTA
13716993 GCAAAGTTAA
Statistics
Matches: 292, Mismatches: 49, Indels: 22
0.80 0.13 0.06
Matches are distributed among these distances:
205 1 0.00
206 41 0.14
207 131 0.45
208 118 0.40
209 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (207 bp):
GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTAGCTGATTTAAGATTGCAACTCCCAA
ACAACTCACAGACCTACATTACCAATATGAAGTTTAAAGGTTAGCTGATTTAAGATCGTACCTAT
ATCTCTCTGAGTTAACATATTTAATATCGCAACTCCCAAAAAAATCACGGACCTACGTTCCCAGA
TGATATTTAAAG
Found at i:13718697 original size:46 final size:46
Alignment explanation
Indices: 13718424--13718696 Score: 413
Period size: 46 Copynumber: 5.9 Consensus size: 46
13718414 TTTGACATAA
* * * * *
13718424 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* *
13718470 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13718516 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
13718562 TGCCATGGTATCTTTCAATCATGGTCTTACTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13718608 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
13718654 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
13718697 GAGAGCACAC
Statistics
Matches: 213, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:13720762 original size:11 final size:11
Alignment explanation
Indices: 13720746--13720793 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
13720736 CTTTATATAC
13720746 TAATAAAATAA
1 TAATAAAATAA
13720757 TAATAAAATATA
1 TAATAAAATA-A
* *
13720769 TTATTAAAATAT
1 -TAATAAAATAA
13720781 TAATAAAATAA
1 TAATAAAATAA
13720792 TA
1 TA
13720794 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13720776 original size:24 final size:24
Alignment explanation
Indices: 13720740--13720795 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
13720730 TTCTTTCTTT
*
13720740 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
13720764 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
13720788 ATAATATT
1 AT-ATATT
13720796 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:13727902 original size:8 final size:8
Alignment explanation
Indices: 13727889--13727919 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
13727879 ATTAATTCAT
13727889 TTCTTATG
1 TTCTTATG
13727897 TTCTTATG
1 TTCTTATG
13727905 TTCTTATG
1 TTCTTATG
13727913 TTCTTAT
1 TTCTTAT
13727920 TATTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (8 bp):
TTCTTATG
Found at i:13732696 original size:42 final size:42
Alignment explanation
Indices: 13732630--13732793 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
13732620 CTTCGTTTTC
** *
13732630 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
13732673 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
13732714 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
13732763 TCGATGGCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
13732794 GAATCACATA
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.02
42 61 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:13732774 original size:49 final size:48
Alignment explanation
Indices: 13732700--13732882 Score: 194
Period size: 49 Copynumber: 3.8 Consensus size: 48
13732690 TATGGTCTTA
*
13732700 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
*
13732750 CACATATCACATATCGATGGCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * * * *
13732798 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* * * *
13732845 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTT
13732883 GTACGGAAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
46 25 0.21
47 36 0.31
48 13 0.11
49 37 0.32
50 6 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:13732867 original size:47 final size:46
Alignment explanation
Indices: 13732715--13732882 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 46
13732705 ATTCATATAT
* *
13732715 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * * *
13732764 CGATGGCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
13732810 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
*
13732857 CGATGCCATATCCCAGATATGGTCTT
1 CGATGCCATAGCCCAGATATGGTCTT
13732883 GTACGGAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 26 0.25
47 37 0.36
48 11 0.11
49 30 0.29
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:13732895 original size:95 final size:94
Alignment explanation
Indices: 13732674--13732882 Score: 225
Period size: 95 Copynumber: 2.3 Consensus size: 94
13732664 TTCACATAAT
* * * * *
13732674 GATGTCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
13732734 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* * *
13732765 GATGGCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* *
13732830 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
*
13732858 GATGCCATATCCCAGATATGGTCTT
1 GATGCCATAGCCCAGATATGGTCTT
13732883 GTACGGAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 30 0.30
92 7 0.07
93 24 0.24
94 1 0.01
95 36 0.36
96 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:13732940 original size:31 final size:31
Alignment explanation
Indices: 13732905--13732991 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
13732895 CTTGTCACTT
13732905 GTAGCCGGTA-CTACCACTTGTCACTGATCAG
1 GTAGCCGG-AGCTACCACTTGTCACTGATCAG
* *
13732936 GTAGCCGGAGTTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTGTCACTGATCAG
* * *
13732967 GTAGCTGAAGCTACCACTTATCACT
1 GTAGCCGGAGCTACCACTTGTCACT
13732992 TTCACTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 1 0.02
31 48 0.98
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTGTCACTGATCAG
Found at i:13733042 original size:50 final size:50
Alignment explanation
Indices: 13732967--13733092 Score: 234
Period size: 50 Copynumber: 2.5 Consensus size: 50
13732957 CACTGATCAG
* *
13732967 GTAGCTGAAGCTACCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
13733017 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
13733067 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
13733093 GTTGCCATGG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:13739965 original size:16 final size:17
Alignment explanation
Indices: 13739932--13739966 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13739922 ATCCAGTTCT
*
13739932 TTCTTCTCAATCCTTTC
1 TTCTTCTAAATCCTTTC
13739949 TTCTTCTAAAT-CTTTC
1 TTCTTCTAAATCCTTTC
13739965 TT
1 TT
13739967 TTCAACCCTA
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:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (17 bp):
TTCTTCTAAATCCTTTC
Found at i:13742898 original size:16 final size:16
Alignment explanation
Indices: 13742877--13742908 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13742867 TAATGTGTTT
13742877 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
13742893 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
13742909 ATGCAGAATG
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:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:13743090 original size:45 final size:45
Alignment explanation
Indices: 13743022--13743240 Score: 330
Period size: 45 Copynumber: 4.9 Consensus size: 45
13743012 AAGAGGTGGA
** * * *
13743022 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
13743067 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
13743112 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
13743157 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
13743202 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
13743241 CCATGGCCGA
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 160 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:13743175 original size:90 final size:90
Alignment explanation
Indices: 13743022--13743240 Score: 375
Period size: 90 Copynumber: 2.4 Consensus size: 90
13743012 AAGAGGTGGA
* *
13743022 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGACCAACATCATGCATAATTCAT
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
*
13743087 GGAAGAATTTGAGGAAGCATTTGGC
66 GGAAGAATTTAAGGAAGCATTTGGC
* * *
13743112 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
13743177 GGAAGAATTTAAGGAAGCATTTGGC
66 GGAAGAATTTAAGGAAGCATTTGGC
*
13743202 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCA
13743241 CCATGGCCGA
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 119 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (90 bp):
CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
GGAAGAATTTAAGGAAGCATTTGGC
Found at i:13746088 original size:11 final size:11
Alignment explanation
Indices: 13746072--13746097 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13746062 CCAAAAGCTG
13746072 ATACATTGAGT
1 ATACATTGAGT
13746083 ATACATTGAGT
1 ATACATTGAGT
13746094 ATAC
1 ATAC
13746098 GGCTTCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (11 bp):
ATACATTGAGT
Found at i:13751398 original size:17 final size:18
Alignment explanation
Indices: 13751376--13751410 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13751366 CAGCAGCACC
*
13751376 TGAAACT-GCTGGAACAT
1 TGAAACTGGATGGAACAT
13751393 TGAAACTGGATGGAACAT
1 TGAAACTGGATGGAACAT
13751411 GTTGTGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (18 bp):
TGAAACTGGATGGAACAT
Found at i:13758263 original size:11 final size:11
Alignment explanation
Indices: 13758227--13758265 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13758217 AAAAAAACTG
13758227 TTTTTTTATTA
1 TTTTTTTATTA
13758238 TTTTCTTTA-TA
1 TTTT-TTTATTA
*
13758249 TTTTTTTATTG
1 TTTTTTTATTA
13758260 TTTTTT
1 TTTTTT
13758266 CACTATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTTTTATTA
Found at i:13758272 original size:22 final size:22
Alignment explanation
Indices: 13758227--13758274 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13758217 AAAAAAACTG
*
13758227 TTTTTTTATTATTTTCTTTATA
1 TTTTTTTATTATTTTCTTCATA
*
13758249 TTTTTTTATTGTTTT-TTCACTA
1 TTTTTTTATTATTTTCTTCA-TA
13758271 TTTT
1 TTTT
13758275 GCTACCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTATTTTCTTCATA
Found at i:13758364 original size:18 final size:19
Alignment explanation
Indices: 13758324--13758364 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
13758314 ATTATTTAGA
*
13758324 TATTGTATAATTCTTATTT
1 TATTGTATAATTCTTATTC
13758343 TATTGT-TAATT-TTATTAC
1 TATTGTATAATTCTTATT-C
13758361 TATT
1 TATT
13758365 TTAGAGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTATTC
Found at i:13762573 original size:5 final size:5
Alignment explanation
Indices: 13762523--13762561 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
13762513 CCAAAATATT
*
13762523 ATTTA TTTTA A-TTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
13762562 CTAATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:13765623 original size:23 final size:23
Alignment explanation
Indices: 13765593--13765656 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
13765583 TACACCATAC
13765593 CAGTAGGCACTGAAGTGCTTAAA
1 CAGTAGGCACTGAAGTGCTTAAA
* * *
13765616 CAGTAGGCACTAAAGTGC-TGAT
1 CAGTAGGCACTGAAGTGCTTAAA
* *
13765638 CAGAAGGCACCGAAGTGCT
1 CAGTAGGCACTGAAGTGCT
13765657 GGATAGTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (23 bp):
CAGTAGGCACTGAAGTGCTTAAA
Found at i:13770042 original size:5 final size:5
Alignment explanation
Indices: 13770032--13770071 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
13770022 AAAATTTGTG
*
13770032 TTATT TTATT TT-TT TT-CT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
13770072 TTTCACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:13774500 original size:5 final size:5
Alignment explanation
Indices: 13774490--13774530 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
13774480 AAAATTTGTG
*
13774490 TTATT TTATT TTATT TT-CT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
13774531 TTCACAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 3 0.09
5 30 0.91
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:13774511 original size:14 final size:15
Alignment explanation
Indices: 13774494--13774530 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
13774484 TTTGTGTTAT
13774494 TTTATTTTATTTT-C
1 TTTATTTTATTTTAC
*
13774508 TTTATTTTATTTTAT
1 TTTATTTTATTTTAC
13774523 TTTATTTT
1 TTTATTTT
13774531 TTCACAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTAC
Found at i:13775088 original size:45 final size:44
Alignment explanation
Indices: 13775024--13775151 Score: 175
Period size: 44 Copynumber: 2.9 Consensus size: 44
13775014 AACAGAAATG
* * *
13775024 AGTAAAACCATAGCCGAAAGATGCTATGACATCATGATGAAAACA
1 AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATG-AAACA
* * *
13775069 AGTAAGACCATAGATGAAAGATGTTATGGCAACATGATGAAACA
1 AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATGAAACA
* *
13775113 AGTAATACCATAGCTGAAAGATGTTATGGCATCAAGATG
1 AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATG
13775152 GAAGTGAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.55
45 33 0.45
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATGAAACA
Found at i:13778258 original size:22 final size:22
Alignment explanation
Indices: 13778218--13778277 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
13778208 CTTTAGCCAT
*
13778218 TTTTATTTTTATTGCAATT-TAA
1 TTTT-TTTTTATTTCAATTATAA
*
13778240 TTTTGTTTTTATTTTAATTACTAA
1 TTTT-TTTTTATTTCAATTA-TAA
13778264 TTTTTCTTTTATTT
1 TTTTT-TTTTATTT
13778278 ACTTCTGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.50
23 1 0.03
24 15 0.47
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTATTTCAATTATAA
Found at i:13788357 original size:30 final size:30
Alignment explanation
Indices: 13788322--13788378 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13788312 TAGGCATTTT
*
13788322 CACACGGGTAA-ACCACACGCTCGTGTGAGA
1 CACACGGG-AAGACCACACGCCCGTGTGAGA
*
13788352 CACACGGGAAGGCCACACGCCCGTGTG
1 CACACGGGAAGACCACACGCCCGTGTG
13788379 GCATGGTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.26, C:0.33, G:0.30, T:0.11
Consensus pattern (30 bp):
CACACGGGAAGACCACACGCCCGTGTGAGA
Found at i:13788452 original size:13 final size:13
Alignment explanation
Indices: 13788434--13788458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13788424 TGAGCACCTT
13788434 CACACGGGCATGG
1 CACACGGGCATGG
13788447 CACACGGGCATG
1 CACACGGGCATG
13788459 TCCCTGTAAA
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:0.24, C:0.32, G:0.36, T:0.08
Consensus pattern (13 bp):
CACACGGGCATGG
Found at i:13789577 original size:52 final size:52
Alignment explanation
Indices: 13789499--13789603 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
13789489 TAAAACAAAG
13789499 TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
1 TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
* *
13789551 TAAACATTTAATATTTAATAAATTCGTCTAACATGGTAATTAACTTACCGCT
1 TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
13789603 T
1 T
13789604 CTTTATATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (52 bp):
TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
Found at i:13789902 original size:27 final size:27
Alignment explanation
Indices: 13789864--13789918 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13789854 CATTGGAGCT
13789864 TTACTCATCAAATCATTTGAAATACTA
1 TTACTCATCAAATCATTTGAAATACTA
13789891 TTACTCATCAAATCATTTGAAATACTA
1 TTACTCATCAAATCATTTGAAATACTA
13789918 T
1 T
13789919 CTTTATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (27 bp):
TTACTCATCAAATCATTTGAAATACTA
Found at i:13790256 original size:25 final size:25
Alignment explanation
Indices: 13790228--13790279 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
13790218 TTTGGCTTGA
*
13790228 CATTTACTAAGCAATATCATATATT
1 CATTTACTAAGCAATATCAAATATT
* *
13790253 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
13790278 CA
1 CA
13790280 AATTATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:13797105 original size:40 final size:40
Alignment explanation
Indices: 13797061--13797247 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
13797051 TGCGATATAC
13797061 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
13797101 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
13797141 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* **
13797181 TAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* * *
13797220 TAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT
13797248 TGAACGAGGA
Statistics
Matches: 141, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 33 0.23
40 108 0.77
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
Found at i:13797268 original size:79 final size:80
Alignment explanation
Indices: 13797038--13797247 Score: 325
Period size: 80 Copynumber: 2.6 Consensus size: 80
13797028 GGACTAAGAT
* *
13797038 CCGAAGGCCTTTGTGCGA-TATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTT
1 CCGAAGGCATTCGTGCGAGT-TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTT
13797102 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
**
13797118 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
13797183 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * * *
13797198 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
13797248 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 33 0.28
80 85 0.71
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
AATCCGGGTTAAGTC
Found at i:13799841 original size:46 final size:46
Alignment explanation
Indices: 13799781--13800176 Score: 486
Period size: 46 Copynumber: 9.0 Consensus size: 46
13799771 TTTGACGTGA
* * * * * * *
13799781 TGCCATAGTGTCTTTCAACTATGATCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
13799827 TGCCATGGTATCTTTCAACTATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13799873 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13799919 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATATCAGGT
*
13799965 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
13800011 TGCCATAGTATCTGTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13800049 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13800095 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---GCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13800133 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13800177 AGAGCACATT
Statistics
Matches: 311, Mismatches: 20, Indels: 38
0.84 0.05 0.10
Matches are distributed among these distances:
38 63 0.20
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 8 0.03
46 221 0.71
47 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:13800060 original size:38 final size:38
Alignment explanation
Indices: 13800007--13800166 Score: 212
Period size: 38 Copynumber: 4.0 Consensus size: 38
13799997 ATTTCATATC
* *
13800007 AGGTTGCCATAGTATCTGTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
13800045 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT
**
13800090 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGC
1 -AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
13800129 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
13800167 TTCATATCAG
Statistics
Matches: 108, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
38 66 0.61
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 2 0.02
46 32 0.30
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:13800106 original size:84 final size:84
Alignment explanation
Indices: 13799960--13800176 Score: 389
Period size: 84 Copynumber: 2.6 Consensus size: 84
13799950 CATCTTATAT
*
13799960 CAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
13800025 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
* * *
13800044 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
*
13800109 TCAACCATGGTCTTACACG
66 TCAACCATGGTCTTACACA
13800128 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13800177 AGAGCACATT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 127 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
TCAACCATGGTCTTACACA
Found at i:13802306 original size:11 final size:11
Alignment explanation
Indices: 13802290--13802337 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
13802280 CTTTATATAC
13802290 TAATAAAATAA
1 TAATAAAATAA
*
13802301 TAATAAAATATCT
1 TAATAAAATA--A
* *
13802314 TATTAAAATAT
1 TAATAAAATAA
13802325 TAATAAAATAA
1 TAATAAAATAA
13802336 TA
1 TA
13802338 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13803843 original size:29 final size:29
Alignment explanation
Indices: 13803790--13803872 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
13803780 CACCCTGTTA
**
13803790 TTTTTTTAC-TTTGTTTTTTTCTTTTTAC
1 TTTTTTTACTTTTGTCATTTTCTTTTTAC
13803818 TTTTCTTTACTTTTGTCATTTT-TTTTTAC
1 TTTT-TTTACTTTTGTCATTTTCTTTTTAC
*
13803847 TTTTTTTAAGTTTTGTC-TTTATCTTT
1 TTTTTTT-ACTTTTGTCATTT-TCTTT
13803873 ATTTATTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 10 0.21
29 25 0.53
30 12 0.26
ACGTcount: A:0.10, C:0.11, G:0.05, T:0.75
Consensus pattern (29 bp):
TTTTTTTACTTTTGTCATTTTCTTTTTAC
Found at i:13803886 original size:19 final size:19
Alignment explanation
Indices: 13803864--13803905 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13803854 AAGTTTTGTC
*
13803864 TTTATCTTTAT-TTATTTAT
1 TTTAT-TTTATATTATTAAT
*
13803883 TTTATTTTTTATTATTAAT
1 TTTATTTTATATTATTAAT
13803902 TTTA
1 TTTA
13803906 AAAAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTATATTATTAAT
Found at i:13803965 original size:21 final size:23
Alignment explanation
Indices: 13803932--13803978 Score: 80
Period size: 21 Copynumber: 2.1 Consensus size: 23
13803922 CATTTGAAAT
13803932 ATTTTATAATATATATTTTT-AA
1 ATTTTATAATATATATTTTTGAA
13803954 ATTTTA-AATATATATTTTTGAA
1 ATTTTATAATATATATTTTTGAA
13803976 ATT
1 ATT
13803979 ATTTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTTATAATATATATTTTTGAA
Found at i:13803970 original size:35 final size:33
Alignment explanation
Indices: 13803930--13804012 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 33
13803920 TACATTTGAA
13803930 ATATTTTATAATATATATTTTTAAATTTTAAATAT
1 ATATTTT-TAA-ATATATTTTTAAATTTTAAATAT
*
13803965 ATATTTTTGAAATTATTTTTTTAAATTTTAAATAT
1 ATATTTTT-AAA-TATATTTTTAAATTTTAAATAT
13804000 -TATTTTTAAATAT
1 ATATTTTTAAATAT
13804013 TAAATATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
32 3 0.07
33 3 0.07
34 9 0.20
35 30 0.67
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
ATATTTTTAAATATATTTTTAAATTTTAAATAT
Found at i:13804006 original size:13 final size:13
Alignment explanation
Indices: 13803990--13804014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13803980 TTTTTTTAAA
13803990 TTTTAAATATTAT
1 TTTTAAATATTAT
13804003 TTTTAAATATTA
1 TTTTAAATATTA
13804015 AATATATTTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:13804036 original size:20 final size:20
Alignment explanation
Indices: 13803939--13804027 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
13803929 AATATTTTAT
*
13803939 AATATATATTTTTAAATTTTA
1 AATAT-TATTTTTAAATATTA
*
13803960 AATATATATTTTTGAA-A-T-
1 AATAT-TATTTTTAAATATTA
*
13803978 --TATT-TTTTTAAATTTTA
1 AATATTATTTTTAAATATTA
13803995 AATATTATTTTTAAATATTA
1 AATATTATTTTTAAATATTA
13804015 AATA-TATTTTTAA
1 AATATTATTTTTAA
13804028 TAATATAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
14 7 0.12
15 1 0.02
16 4 0.07
19 14 0.25
20 16 0.28
21 15 0.26
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
AATATTATTTTTAAATATTA
Found at i:13804139 original size:33 final size:34
Alignment explanation
Indices: 13804079--13804150 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
13804069 TTTATTATTA
*
13804079 GTTTTATAATATTTCAAATGTATA-TTTTAATTT
1 GTTTTATAATATTTCAAATGTATATTTTTAAATT
* **
13804112 GTTTTATAATTTTTTTAAT-TATGATTTTTAAATT
1 GTTTTATAATATTTCAAATGTAT-ATTTTTAAATT
13804146 GTTTT
1 GTTTT
13804151 TAAAGATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 3 0.09
33 17 0.52
34 13 0.39
ACGTcount: A:0.29, C:0.01, G:0.07, T:0.62
Consensus pattern (34 bp):
GTTTTATAATATTTCAAATGTATATTTTTAAATT
Found at i:13804241 original size:12 final size:13
Alignment explanation
Indices: 13804187--13804241 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
13804177 AAAGGTTTGA
13804187 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
13804201 A-ATTTTAAAATT
1 ATATTTTAAAATT
13804213 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
13804230 ATA-TTTAAAATT
1 ATATTTTAAAATT
13804242 TAAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:13804253 original size:18 final size:20
Alignment explanation
Indices: 13804230--13804268 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
13804220 TATAAAAATT
13804230 ATATTTAAAAT-TTA-AAAA
1 ATATTTAAAATATTATAAAA
13804248 ATATTTAAAATATTATAAAA
1 ATATTTAAAATATTATAAAA
13804268 A
1 A
13804269 ATAATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 3 0.16
20 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATTTAAAATATTATAAAA
Found at i:13804324 original size:24 final size:25
Alignment explanation
Indices: 13804297--13804351 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
13804287 AATATCTTTA
*
13804297 AAAATAATAT-ATTTTAAATAATT-T
1 AAAATAATATAATTTAAAAT-ATTAT
*
13804321 AAAA-ATTATAATTTAAAATATTAT
1 AAAATAATATAATTTAAAATATTAT
13804345 AAAATAA
1 AAAATAA
13804352 ATTGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 7 0.28
24 17 0.68
25 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATAATATAATTTAAAATATTAT
Found at i:13804331 original size:14 final size:15
Alignment explanation
Indices: 13804314--13804346 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
13804304 TATATTTTAA
13804314 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
13804328 ATAATTTAAAATATT
1 ATAATTTAAAATATT
13804343 ATAA
1 ATAA
13804347 AATAAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Done.