Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 79 of 117
Found at i:14065487 original size:140 final size:142
Alignment explanation
Indices: 14065258--14065515 Score: 353
Period size: 140 Copynumber: 1.8 Consensus size: 142
14065248 GACCTTTAGG
* * *
14065258 GGTATTTTCGTAATTTGACCATCTTGAAGTCAGTTTTTTCTCGAAAAGCTCCATATCAAGCTTTA
1 GGTATTTTCATAATTTGACCATCTTGAAGTCAGTTTTTTCTC-AAAAACTCCAGATCAAGCTTTA
14065323 ATATTATTTCATAAATTGTGATGCATTAAAAAATTTGATTGCACCTCCAAAAGGGTGAAACCATA
65 ATATTATTTCATAAATTGTGATGCATTAAAAAATTTGATTGCACCT-CAAAAGGGTGAAACCATA
14065388 AAATACTTTTTAAT
129 AAATACTTTTTAAT
* * * * *
14065402 GGTA-TTTCATAATTTGACCTTTTTGAAGTC-GATTTTTTGT-AAAAACT-CAGATCATGCTTTT
1 GGTATTTTCATAATTTGACCATCTTGAAGTCAG-TTTTTTCTCAAAAACTCCAGATCAAGCTTTA
* * * *
14065463 ATATTATTTCATGAATTTTGATGCATTATAAATTTTGATTGCACCTCAAAAGG
65 ATATTATTTCATAAATTGTGATGCATTAAAAAATTTGATTGCACCTCAAAAGG
14065516 AGTAAAATTA
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
139 7 0.07
140 53 0.52
141 6 0.06
142 1 0.01
143 30 0.30
144 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (142 bp):
GGTATTTTCATAATTTGACCATCTTGAAGTCAGTTTTTTCTCAAAAACTCCAGATCAAGCTTTAA
TATTATTTCATAAATTGTGATGCATTAAAAAATTTGATTGCACCTCAAAAGGGTGAAACCATAAA
ATACTTTTTAAT
Found at i:14066003 original size:20 final size:20
Alignment explanation
Indices: 14065959--14066005 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14065949 CTGGAAATGG
*
14065959 GGGAAAAAACCAAAAAAAAA
1 GGGAAAAAAACAAAAAAAAA
* * *
14065979 AGGAAAAAAATAAAAAAAAT
1 GGGAAAAAAACAAAAAAAAA
14065999 GGGAAAA
1 GGGAAAA
14066006 GCTTTGCAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (20 bp):
GGGAAAAAAACAAAAAAAAA
Found at i:14066808 original size:18 final size:20
Alignment explanation
Indices: 14066785--14066821 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
14066775 TTTGTATTTA
14066785 TCATTCACA-ATT-TAATTG
1 TCATTCACATATTATAATTG
14066803 TCATTCACATATTATAATT
1 TCATTCACATATTATAATT
14066822 TGTTATACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (20 bp):
TCATTCACATATTATAATTG
Found at i:14082041 original size:16 final size:18
Alignment explanation
Indices: 14082001--14082042 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
14081991 CTAAGCCAAT
14082001 AATAAGAAACTACAAGAAA
1 AATAAG-AACTACAAGAAA
*
14082020 ACTAAGAACTA-AA-AAA
1 AATAAGAACTACAAGAAA
14082036 AATAAGA
1 AATAAGA
14082043 GAAGAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 5 0.24
19 5 0.24
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.12
Consensus pattern (18 bp):
AATAAGAACTACAAGAAA
Found at i:14097766 original size:24 final size:25
Alignment explanation
Indices: 14097725--14097771 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14097715 AGATTTATAG
14097725 TAACATTCTTTTAAAAATAATAAAA
1 TAACATTCTTTTAAAAATAATAAAA
* *
14097750 TAACATT-TTTTATAAATGATAA
1 TAACATTCTTTTAAAAATAATAA
14097772 TTATTGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TAACATTCTTTTAAAAATAATAAAA
Found at i:14102248 original size:36 final size:35
Alignment explanation
Indices: 14102207--14102293 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 35
14102197 GTGACGGAGT
*
14102207 CACAAATCAAAAAATAAAGAGCAA-TCGGGACTGAGC
1 CACAAATC-AAAAATAAAGAACAACT-GGGACTGAGC
* * *
14102243 CACAAATC-GAAATAAAGAACGACTGGGATTGAGC
1 CACAAATCAAAAATAAAGAACAACTGGGACTGAGC
*
14102277 CATAAATCAGAAAATAA
1 CACAAATCA-AAAATAA
14102294 GAATGATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
34 27 0.64
35 1 0.02
36 14 0.33
ACGTcount: A:0.51, C:0.17, G:0.18, T:0.14
Consensus pattern (35 bp):
CACAAATCAAAAATAAAGAACAACTGGGACTGAGC
Found at i:14103909 original size:21 final size:22
Alignment explanation
Indices: 14103883--14103925 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
14103873 TCACCAATCG
14103883 ATGAGA-ACTAAGTGCTACATC
1 ATGAGACACTAAGTGCTACATC
14103904 ATGAGAGTCACTAAGTGCTACA
1 ATGAGA--CACTAAGTGCTACA
14103926 CAATGAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
24 13 0.68
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (22 bp):
ATGAGACACTAAGTGCTACATC
Found at i:14110973 original size:145 final size:145
Alignment explanation
Indices: 14110685--14111097 Score: 482
Period size: 145 Copynumber: 2.8 Consensus size: 145
14110675 GGGAATTATA
* * * * * *
14110685 AAATTACTAAAATA-CCCTTTTAGGGTATTTTCGTAATTTATCCTTCCTGAGCTTGAATTTTTAT
1 AAATTACCAAAATACCCCTTTAAGGGTATTTTTGTAAATTAGCCTTCCTGAGCTAGAATTTTTAT
* *
14110749 GAAACTTTTCAGATCTTAATTTCATAATATTTTATGATTTTTGGTGCATTTGAAATCACAGCAAT
66 GAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAAT
14110814 ACCCTAAAAGGTGTG
131 ACCCTAAAAGGTGTG
* *
14110829 AAATTACCAAAATACCCCTATAAGGATATTTTTGTAAATTAGCCTTCCTGAGCTCAG-ATTTTTA
1 AAATTACCAAAATACCCCTTTAAGGGTATTTTTGTAAATTAGCCTTCCTGAGCT-AGAATTTTTA
* *
14110893 TGAAAATTTTCAGATCTTACTTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAG
65 TGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAA
* *
14110958 TA-CCTCGAGAGGTGTG
130 TACCCT-AAAAGGTGTG
* * *
14110974 AAATTACCAAAATACCCCTTTAAGGGTATTTTTTGT-AATTTGACCTT-CTCGAGCTTGGATTTT
1 AAATTACCAAAATACCCCTTTAAGGGTA-TTTTTGTAAATTAG-CCTTCCT-GAGCTAGAATTTT
* * ** * *
14111037 CA-CAAAACTTTTTCCAGATCACAA-TTCTATGATATTTCATGATTTTTGGTGC-TTTAAAATC
63 TATGAAAA--TTTT-CAGATCTTAATTTC-ATAATATTTCATGATTTTTGGTGCATTTGAAATC
14111098 CCAAAAATTA
Statistics
Matches: 233, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
144 16 0.07
145 149 0.64
146 23 0.10
147 15 0.06
148 30 0.13
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (145 bp):
AAATTACCAAAATACCCCTTTAAGGGTATTTTTGTAAATTAGCCTTCCTGAGCTAGAATTTTTAT
GAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAAT
ACCCTAAAAGGTGTG
Found at i:14118141 original size:69 final size:66
Alignment explanation
Indices: 14117948--14118157 Score: 216
Period size: 66 Copynumber: 3.2 Consensus size: 66
14117938 CTTTTTAAAA
* * * *
14117948 TGTAAGATTTTATGATTTTATTTTTC--AAAAAGTGTTTTTAAACCGATAAAATCTTCTATTATA
1 TGTAAGATTTTATGATTTTATTTTTCAAAAAAAATATTTTTAAACCGATAAAATCTTCTAATATG
14118011 T
66 T
* * * *
14118012 TGGTAAG-TTCTTATGATTATATTTTTCAAAAAAAAAATTCTCAATA--GATAAAATCTTCTAAT
1 T-GTAAGATT-TTATGATTTTATTTTTCAAAAAAAATATTTTTAA-ACCGATAAAATCTTCTAAT
14118074 ATGT
63 ATGT
* *
14118078 TGTTAAGATTTTATGATTTTATTATTTTCAAAAAAATTATTTTTAAACCAATAAAATAC-TCTAA
1 TG-TAAGATTTTATGATTTTA-T-TTTTCAAAAAAAATATTTTTAAACCGATAAAAT-CTTCTAA
14118142 TATGT
62 TATGT
14118147 TAGTAAGATTT
1 T-GTAAGATTT
14118158 AATTTATTTT
Statistics
Matches: 119, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
64 3 0.03
65 22 0.18
66 33 0.28
67 14 0.12
68 19 0.16
69 26 0.22
70 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.45
Consensus pattern (66 bp):
TGTAAGATTTTATGATTTTATTTTTCAAAAAAAATATTTTTAAACCGATAAAATCTTCTAATATG
T
Found at i:14119350 original size:52 final size:52
Alignment explanation
Indices: 14119279--14119425 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 52
14119269 TATAACCATA
* *
14119279 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTATAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
* * *
14119331 CAAACTTGCCTATTAAGAATCCCT-TCCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTCT-CCTCTTAGAATTCTTCTCCTACAAGT
* ** * * *
14119383 CAAATTTATCTATTAAAAAT-CCTCTTTCTCTTTGAATTCTTCT
1 CAAACTTGCCTATTAAGAATCCCTC-TCCTCTTAGAATTCTTCT
14119426 TTTGCAAGTC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 4 0.05
52 75 0.94
53 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
Found at i:14119476 original size:11 final size:11
Alignment explanation
Indices: 14119460--14119490 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14119450 GCAATATCTG
14119460 ACAAATCTCAA
1 ACAAATCTCAA
*
14119471 ACAAATCCCAA
1 ACAAATCTCAA
14119482 ACAAATCTC
1 ACAAATCTC
14119491 TTATGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:14119778 original size:25 final size:25
Alignment explanation
Indices: 14119731--14119803 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
14119721 CATGCACTTT
* *
14119731 CCACATC-TGAAACCTTTAGCTCTTC
1 CCACATCTTG-AACCTTCAACTCTTC
* *
14119756 CCACATCTTGAATCTTCAACTCTTT
1 CCACATCTTGAACCTTCAACTCTTC
* * *
14119781 TCACGTTTTGAACCTTCAACTCT
1 CCACATCTTGAACCTTCAACTCT
14119804 GATACCACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 37 0.95
26 2 0.05
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (25 bp):
CCACATCTTGAACCTTCAACTCTTC
Found at i:14119838 original size:31 final size:31
Alignment explanation
Indices: 14119800--14119881 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
14119790 GAACCTTCAA
* * * *
14119800 CTCTGATACCACTTATTGGGGAACACCATAG
1 CTCTGATACCATTTGTTGGGAAACACCACAG
14119831 CTCTGATACCATTTGTTGGGAAACACCACAG
1 CTCTGATACCATTTGTTGGGAAACACCACAG
*
14119862 CTTTGATACCATTTGTTGGG
1 CTCTGATACCATTTGTTGGG
14119882 CTAAAAGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (31 bp):
CTCTGATACCATTTGTTGGGAAACACCACAG
Found at i:14126089 original size:46 final size:46
Alignment explanation
Indices: 14126022--14126110 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
14126012 GATAAACATG
* *
14126022 ATGCTTTTAAGGTCTTAAAGATGTTGAATATCTATTTGCTTTTTTT
1 ATGCTTTTAAGGTCTTAAAGATGCTAAATATCTATTTGCTTTTTTT
*
14126068 ATGCTTTTAAGGTCTTAAAGATGCTAAATATGTATTTGCTTTT
1 ATGCTTTTAAGGTCTTAAAGATGCTAAATATCTATTTGCTTTT
14126111 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (46 bp):
ATGCTTTTAAGGTCTTAAAGATGCTAAATATCTATTTGCTTTTTTT
Found at i:14126600 original size:36 final size:35
Alignment explanation
Indices: 14126552--14126638 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 35
14126542 TTGAAAATTG
** *
14126552 GTATATAATTTGTAAATTTTTTTCCATCGAATATTT
1 GTATA-AATTTGTAAAGATTATTCCATCGAATATTT
** *
14126588 GTATAAAGTTTGTAAAGATTATTCTTTTGAATATTT
1 GTATAAA-TTTGTAAAGATTATTCCATCGAATATTT
14126624 GTATAAAATTTGTAA
1 GTAT-AAATTTGTAA
14126639 TAATTTAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
35 2 0.05
36 38 0.88
37 3 0.07
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (35 bp):
GTATAAATTTGTAAAGATTATTCCATCGAATATTT
Found at i:14126955 original size:35 final size:33
Alignment explanation
Indices: 14126888--14126977 Score: 128
Period size: 35 Copynumber: 2.7 Consensus size: 33
14126878 ACTGATAGAA
*
14126888 ATTTTTGTCATTAAAAG-TTTTTTTACACAATT
1 ATTTTTGTCACTAAAAGTTTTTTTTACACAATT
*
14126920 ATTTTTGTCGCTAAAAGTTTTTTTTACACAAAATT
1 ATTTTTGTCACTAAAAGTTTTTTTTACAC--AATT
*
14126955 ATTTTTGTCACTGAAAGTTTTTT
1 ATTTTTGTCACTAAAAGTTTTTT
14126978 AAAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 15 0.29
33 11 0.22
35 25 0.49
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (33 bp):
ATTTTTGTCACTAAAAGTTTTTTTTACACAATT
Found at i:14127476 original size:23 final size:23
Alignment explanation
Indices: 14127450--14127574 Score: 80
Period size: 23 Copynumber: 5.5 Consensus size: 23
14127440 ATCATACCTT
*
14127450 GAGGTTTTGAAAAATGATACCCA
1 GAGGTTTTGAAAAATGATACTCA
**
14127473 GAGGTTTTTG-AAAA-GAATACTTG
1 GAGG-TTTTGAAAAATG-ATACTCA
*
14127496 GAGGTTTTGGAAAATGATACAT-A
1 GAGGTTTTGAAAAATGATAC-TCA
* * * *
14127519 AAGG-TTTGAAAGATGATAGTCG
1 GAGGTTTTGAAAAATGATACTCA
*
14127541 GAGGTTTTTGAAAAA-GATGCTCA
1 GAGG-TTTTGAAAAATGATACTCA
* *
14127564 TAAGTTTTGAA
1 GAGGTTTTGAA
14127575 TATGTACCCA
Statistics
Matches: 78, Mismatches: 16, Indels: 17
0.70 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 28 0.36
23 34 0.44
24 15 0.19
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (23 bp):
GAGGTTTTGAAAAATGATACTCA
Found at i:14127911 original size:22 final size:22
Alignment explanation
Indices: 14127886--14127956 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 22
14127876 TTATTAAGGC
14127886 AATACCCAAAGGTTTTAAAAAA
1 AATACCCAAAGGTTTTAAAAAA
* * * *
14127908 AATACTCAAAAGTTTT-GAAGA
1 AATACCCAAAGGTTTTAAAAAA
** *
14127929 TGTACCTAAAGGTTTTGAAAAAA
1 AATACCCAAAGGTTTT-AAAAAA
14127952 AATAC
1 AATAC
14127957 TTGAAGGTTT
Statistics
Matches: 34, Mismatches: 13, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
21 14 0.41
22 14 0.41
23 6 0.18
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (22 bp):
AATACCCAAAGGTTTTAAAAAA
Found at i:14127944 original size:21 final size:21
Alignment explanation
Indices: 14127919--14127991 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
14127909 ATACTCAAAA
14127919 GTTTTGAAGATGTACCTAAAG
1 GTTTTGAAGATGTACCTAAAG
* ** * *
14127940 GTTTTGAAAAAAAATACTTGAAG
1 GTTTTG--AAGATGTACCTAAAG
*
14127963 GTTTT-AAGATGATACCTTAAG
1 GTTTTGAAGATG-TACCTAAAG
14127984 GTTTTGAA
1 GTTTTGAA
14127992 AAAGATACTC
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
20 3 0.08
21 18 0.47
22 2 0.05
23 15 0.39
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.36
Consensus pattern (21 bp):
GTTTTGAAGATGTACCTAAAG
Found at i:14127945 original size:87 final size:87
Alignment explanation
Indices: 14127791--14128045 Score: 253
Period size: 87 Copynumber: 2.9 Consensus size: 87
14127781 AAGAATATGG
* * ** **
14127791 TTTAAGATAATACCCAAAGGATTTGAAAAAGATACTCAAAAGTTTTAAAGATGTAGTTGGAGATT
1 TTTAAGACAATACCCAAAGGTTTTGAAAAAGATACTCAAAAGTTTTAAAGATGTACCTAAAGATT
*
14127856 TTG-AAACAAATACCTAG-AGAT
66 TTGAAAAAAAATA-CTAGAAGAT
* * * * *
14127877 TATTAAGGCAATACCCAAAGGTTTTAAAAAAAATACTCAAAAGTTTTGAAGATGTACCTAAAGGT
1 T-TTAAGACAATACCCAAAGGTTTTGAAAAAGATACTCAAAAGTTTTAAAGATGTACCTAAAGAT
* *
14127942 TTTGAAAAAAAATACTTGAAGGT
65 TTTGAAAAAAAATACTAGAAGAT
** ** * * * * * *
14127965 TTTAAGATGATACCTTAAGGTTTTGAAAAAGATACTCAAAAGTTTTCAATATGTACTTGGAGGTT
1 TTTAAGACAATACCCAAAGGTTTTGAAAAAGATACTCAAAAGTTTTAAAGATGTACCT-AAAGAT
14128030 TTTGAAAAAAAATACT
65 TTTGAAAAAAAATACT
14128046 TGAAAGTTTT
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
86 1 0.01
87 106 0.77
88 31 0.22
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (87 bp):
TTTAAGACAATACCCAAAGGTTTTGAAAAAGATACTCAAAAGTTTTAAAGATGTACCTAAAGATT
TTGAAAAAAAATACTAGAAGAT
Found at i:14127951 original size:44 final size:43
Alignment explanation
Indices: 14127888--14128055 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
14127878 ATTAAGGCAA
*
14127888 TACCCAAAGGTTTT-AAAAAAAATACTCAAAAGTTTTGAAGATG
1 TACCTAAAGGTTTTGAAAAAAAATACTCAAAAGTTTT-AAGATG
** *
14127931 TACCTAAAGGTTTTGAAAAAAAATACTTGAAGGTTTTAAGATG
1 TACCTAAAGGTTTTGAAAAAAAATACTCAAAAGTTTTAAGATG
* * *
14127974 ATACCTTAAGGTTTTG-AAAAAGATACTCAAAAGTTTTCAATATG
1 -TACCTAAAGGTTTTGAAAAAAAATACTCAAAAGTTTT-AAGATG
* ** **
14128018 TACTTGGAGGTTTTTGAAAAAAAATACTTGAAAGTTTT
1 TACCTAAAGG-TTTTGAAAAAAAATACTCAAAAGTTTT
14128056 TAAAAGTTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
43 43 0.41
44 43 0.41
45 18 0.17
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (43 bp):
TACCTAAAGGTTTTGAAAAAAAATACTCAAAAGTTTTAAGATG
Found at i:14128482 original size:11 final size:11
Alignment explanation
Indices: 14128466--14128490 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14128456 TTAACTGCTT
14128466 TAACTACTTCC
1 TAACTACTTCC
14128477 TAACTACTTCC
1 TAACTACTTCC
14128488 TAA
1 TAA
14128491 TTTCTAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (11 bp):
TAACTACTTCC
Found at i:14131646 original size:10 final size:10
Alignment explanation
Indices: 14131623--14131678 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
14131613 TAAAACATGC
* *
14131623 TTTTTCTTCT
1 TTTTTTTTCA
14131633 TTTTTTTTCA
1 TTTTTTTTCA
*
14131643 TTTTTTCTC-
1 TTTTTTTTCA
*
14131652 TTTTCCTTTCA
1 TTTT-TTTTCA
14131663 TTTTTTTTCA
1 TTTTTTTTCA
14131673 TTTTTT
1 TTTTTT
14131679 CCTTTTCCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 4 0.11
10 30 0.79
11 4 0.11
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:14145353 original size:10 final size:10
Alignment explanation
Indices: 14145338--14145384 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
14145328 GAAAAGAATG
14145338 AATCTTGATA
1 AATCTTGATA
14145348 AATCTTGA-A
1 AATCTTGATA
*
14145357 GAATCTTGATG
1 -AATCTTGATA
* *
14145368 ATTCTTGATC
1 AATCTTGATA
14145378 AATCTTG
1 AATCTTG
14145385 GATGATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 1 0.03
10 30 0.97
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (10 bp):
AATCTTGATA
Found at i:14145373 original size:20 final size:20
Alignment explanation
Indices: 14145337--14145391 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
14145327 AGAAAAGAAT
* *
14145337 GAATCTTGATAAATCTTGAA
1 GAATCTTGATGATTCTTGAA
*
14145357 GAATCTTGATGATTCTTGAT
1 GAATCTTGATGATTCTTGAA
*
14145377 CAATCTTGGATGATT
1 GAATCTT-GATGATT
14145392 TTTTATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (20 bp):
GAATCTTGATGATTCTTGAA
Found at i:14146776 original size:28 final size:29
Alignment explanation
Indices: 14146744--14146800 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
14146734 CTGAATTATT
*
14146744 TTAATTT-GATTTAATTGCATG-TTTTAGA
1 TTAATTTCAATTT-ATTGCATGATTTTAGA
14146772 TTAATTTCAATTTATTGCATGATTTTAGA
1 TTAATTTCAATTTATTGCATGATTTTAGA
14146801 GCTATTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (29 bp):
TTAATTTCAATTTATTGCATGATTTTAGA
Found at i:14155671 original size:17 final size:18
Alignment explanation
Indices: 14155636--14155674 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
14155626 GCAGTAGTTA
14155636 CTTTTCAAAGATCTCTTT
1 CTTTTCAAAGATCTCTTT
14155654 CTTTTC-AAGCAT-TCTTT
1 CTTTTCAAAG-ATCTCTTT
14155671 CTTT
1 CTTT
14155675 ATAAAGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (18 bp):
CTTTTCAAAGATCTCTTT
Found at i:14157661 original size:65 final size:64
Alignment explanation
Indices: 14157446--14157730 Score: 249
Period size: 65 Copynumber: 4.3 Consensus size: 64
14157436 ATATATTGAT
* * * * * *
14157446 AAGATTTTATGATTTTATTTTCAAAAGTT-TTTTTAAAACAATAAAATCTTCCAATATATTTGTA
1 AAGATTTTATGATTTGATTTTTAAAAGTTATTTTTAAACCAATAAAATCTTTCAATATGTTAG-A
* *
14157510 AA-ATTTTATAATTTGATTTTTCAAAAAG-TATTTTTAAATCAATAAAAT-TTTCTAATATGTTT
1 AAGATTTTATGATTTGATTTTT--AAAAGTTATTTTTAAACCAATAAAATCTTTC-AATATG-TT
*
14157572 A-T
62 AGA
*
14157574 AATATTTTATGATTTGATTTTTTAAAAGTTATTTTTAAACCAA-AAAACTCTTTCAATATGTTAG
1 AAGATTTTATGATTTGA-TTTTTAAAAGTTATTTTTAAACCAATAAAA-TCTTTCAATATGTTAG
14157638 A
64 A
* * * * * *
14157639 AAGATTTTATAATTTCAGTTTTTTTTTAAAAAATTATTTTTTAACCAATCAAATCTTTCACTATG
1 AAGATTTTATGATTT--G---ATTTTT-AAAAGTTATTTTTAAACCAATAAAATCTTTCAATATG
*
14157704 TTGGA
60 TTAGA
*
14157709 AAGATTTTATGATTTTATTTTT
1 AAGATTTTATGATTTGATTTTT
14157731 TAATTTTTTA
Statistics
Matches: 181, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
63 16 0.09
64 20 0.11
65 78 0.43
66 11 0.06
67 1 0.01
69 5 0.03
70 47 0.26
71 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (64 bp):
AAGATTTTATGATTTGATTTTTAAAAGTTATTTTTAAACCAATAAAATCTTTCAATATGTTAGA
Found at i:14157704 original size:135 final size:130
Alignment explanation
Indices: 14157427--14157790 Score: 331
Period size: 135 Copynumber: 2.8 Consensus size: 130
14157417 TTTTTTTTTT
* * *
14157427 AATTTTCCAATATATT-GATAAGATTTTATGATTTTA-TTTTCAAAAGTTTTTTTAAAACAATAA
1 AATTTTCTAATATGTTGGATAAGATTTTATGATTTTATTTTTTAAAAGTTTTTTTAAAACAATAA
* * *
14157490 AATCTTCCAATATATTTGTAAAATTTTATAATTTGATTTTTCAAAAAGTATTTTTAAATCAATAA
66 AATCTTCCAATATATTAGTAAAATTTTATAATTTGATTTTTAAAAAAGTATTTTTAAACCAATAA
* * * *
14157555 AATTTTCTAATATGTT-TATAATATTTTATGATTTGATTTTTTAAAAGTTATTTTTAAACCAA-A
1 AATTTTCTAATATGTTGGATAAGATTTTATGATTTTATTTTTTAAAAGTT-TTTTTAAAACAATA
* * * * *
14157618 AAACTCTTTCAATATGTTAG-AAAGATTTTATAATTTCAGTTTTTTTTTAAAAAATTATTTTTTA
65 AAA-TCTTCCAATATATTAGTAAA-ATTTTATAATTT--G---ATTTTTAAAAAAGTATTTTTAA
*
14157682 ACCAATCA
123 ACCAATAA
* *
14157690 AATCTTTC-ACTATGTTGGA-AAGATTTTATGATTTTATTTTTT--AA--TTTTTTAAAACCCAT
1 AAT-TTTCTAATATGTTGGATAAGATTTTATGATTTTATTTTTTAAAAGTTTTTTTAAAA-CAAT
* * * *
14157749 ATAATCCTCCAATAT-TTTGCAAGAATTTTATGAATTT-ATTTT
64 AAAATCTTCCAATATATTAGTAA-AATTTTAT-AATTTGATTTT
14157791 AATTTTTTCT
Statistics
Matches: 193, Mismatches: 27, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
126 4 0.02
128 31 0.16
129 18 0.09
130 47 0.24
131 21 0.11
132 10 0.05
133 2 0.01
135 55 0.28
136 5 0.03
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (130 bp):
AATTTTCTAATATGTTGGATAAGATTTTATGATTTTATTTTTTAAAAGTTTTTTTAAAACAATAA
AATCTTCCAATATATTAGTAAAATTTTATAATTTGATTTTTAAAAAAGTATTTTTAAACCAATAA
Found at i:14159092 original size:28 final size:28
Alignment explanation
Indices: 14159026--14159092 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
14159016 TTTTTCAAAA
* *
14159026 ATTTTTATTTTTTTAACTGATTTTTTCT
1 ATTTTTATTTTTTTAACTAATTTTTGCT
* *
14159054 -TTCTTTTTTTTTTTCAA-TAATTTTTGGT
1 ATT-TTTATTTTTTT-AACTAATTTTTGCT
14159082 ATTTTTATTTT
1 ATTTTTATTTT
14159093 ATGAAAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.06
28 25 0.81
29 4 0.13
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (28 bp):
ATTTTTATTTTTTTAACTAATTTTTGCT
Found at i:14167515 original size:3 final size:3
Alignment explanation
Indices: 14167507--14167548 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14167497 TCTGAAAAAG
14167507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14167549 CATTATCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14169194 original size:20 final size:20
Alignment explanation
Indices: 14169171--14169213 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
14169161 TCTTGATTTC
14169171 ATTTATTTTTTATATTTAAA
1 ATTTATTTTTTATATTTAAA
*
14169191 ATTTATTTTTTCTATTTAAA
1 ATTTATTTTTTATATTTAAA
14169211 ATT
1 ATT
14169214 AATCATGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTATTTTTTATATTTAAA
Found at i:14171718 original size:13 final size:13
Alignment explanation
Indices: 14171700--14171728 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14171690 TTAGTTTAAT
14171700 AATTTTTTTAAAA
1 AATTTTTTTAAAA
14171713 AA-TTTTTTAAAA
1 AATTTTTTTAAAA
14171725 AATT
1 AATT
14171729 ATTAAACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTTTTAAAA
Found at i:14171724 original size:11 final size:12
Alignment explanation
Indices: 14171703--14171728 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14171693 GTTTAATAAT
14171703 TTTTTTAAAAAA
1 TTTTTTAAAAAA
14171715 TTTTTTAAAAAA
1 TTTTTTAAAAAA
14171727 TT
1 TT
14171729 ATTAAACCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTTTTAAAAAA
Found at i:14172109 original size:32 final size:32
Alignment explanation
Indices: 14172073--14172136 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
14172063 AATATATTGT
14172073 GTTTGTTTCTTAATCGGATA-CCAAAAGTTTGA
1 GTTTGTTTCTTAATCGGA-AGCCAAAAGTTTGA
14172105 GTTTGTTTCTTAATCGGAAGCCAAAAGTTTGA
1 GTTTGTTTCTTAATCGGAAGCCAAAAGTTTGA
14172137 ATTCTATGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
GTTTGTTTCTTAATCGGAAGCCAAAAGTTTGA
Found at i:14176691 original size:9 final size:10
Alignment explanation
Indices: 14176669--14176693 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14176659 TATATTGTAG
14176669 AAAACATTCA
1 AAAACATTCA
14176679 AAAACATTCA
1 AAAACATTCA
14176689 AAAAC
1 AAAAC
14176694 TATATTGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAACATTCA
Found at i:14188938 original size:38 final size:38
Alignment explanation
Indices: 14188896--14188972 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
14188886 TTGAGTTGTG
* * *
14188896 TTGGATTAGAATACATAAATTGAGGGGGAGTTTTGCCA
1 TTGGATTAGAATACACAAATTAAGGGGGAGCTTTGCCA
* *
14188934 TTGGATTAGGATGCACAAATTAAGGGGGAGCTTTGCCA
1 TTGGATTAGAATACACAAATTAAGGGGGAGCTTTGCCA
14188972 T
1 T
14188973 GCATTGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (38 bp):
TTGGATTAGAATACACAAATTAAGGGGGAGCTTTGCCA
Found at i:14195325 original size:21 final size:21
Alignment explanation
Indices: 14195301--14195355 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
14195291 GGTAAGTTAG
14195301 GGGATCGATCCCT-CCTCTTAA
1 GGGATCGATCCCTCCCT-TTAA
**
14195322 GGGATCGATCGTTCCCTTTAA
1 GGGATCGATCCCTCCCTTTAA
14195343 GGGATCGATCCCT
1 GGGATCGATCCCT
14195356 TCTATCCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (21 bp):
GGGATCGATCCCTCCCTTTAA
Found at i:14200664 original size:16 final size:16
Alignment explanation
Indices: 14200643--14200700 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
14200633 AAACATAGTT
14200643 TTCATACTTCACTACA
1 TTCATACTTCACTACA
**
14200659 TTCATACTTGCA-TAGTT
1 TTCATACTT-CACTA-CA
14200676 TTCATACTTCACTACA
1 TTCATACTTCACTACA
*
14200692 TTTATACTT
1 TTCATACTT
14200701 TTCTTAATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 21 0.62
17 13 0.38
ACGTcount: A:0.28, C:0.24, G:0.03, T:0.45
Consensus pattern (16 bp):
TTCATACTTCACTACA
Found at i:14200673 original size:33 final size:33
Alignment explanation
Indices: 14200636--14200700 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
14200626 CAAAGAAAAA
14200636 CATAGTTTTCATACTTCACTACATTCATACTTG
1 CATAGTTTTCATACTTCACTACATTCATACTTG
*
14200669 CATAGTTTTCATACTTCACTACATTTATACTT
1 CATAGTTTTCATACTTCACTACATTCATACTT
14200701 TTCTTAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.45
Consensus pattern (33 bp):
CATAGTTTTCATACTTCACTACATTCATACTTG
Found at i:14200681 original size:17 final size:16
Alignment explanation
Indices: 14200636--14200686 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
14200626 CAAAGAAAAA
14200636 CATAGTTTTCATACTT
1 CATAGTTTTCATACTT
**
14200652 CACTA-CATTCATACTT
1 CA-TAGTTTTCATACTT
14200668 GCATAGTTTTCATACTT
1 -CATAGTTTTCATACTT
14200685 CA
1 CA
14200687 CTACATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (16 bp):
CATAGTTTTCATACTT
Found at i:14209433 original size:19 final size:18
Alignment explanation
Indices: 14209411--14209539 Score: 96
Period size: 19 Copynumber: 6.7 Consensus size: 18
14209401 ATTTAAGGTC
14209411 TGACTTTAGGTTTAGGGTT
1 TGAC-TTAGGTTTAGGGTT
* * *
14209430 TGACCTAGTGCTTAAGGTTT
1 TGACTTAG-G-TTTAGGGTT
* *
14209450 TAACTTTGGATTTAGGGTT
1 TGACTTAGG-TTTAGGGTT
*
14209469 TGACATAGGGTTTAGGGTT
1 TGACTTA-GGTTTAGGGTT
*
14209488 TGACTTAGGATTTAAGGTT
1 TGACTTAGG-TTTAGGGTT
* *
14209507 TGACCTAAGGTTTGGGGTT
1 TGA-CTTAGGTTTAGGGTT
*
14209526 TGACCTAAGGTTTA
1 TGA-CTTAGGTTTA
14209540 AGTTTAGGGT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
18 5 0.06
19 63 0.72
20 19 0.22
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.41
Consensus pattern (18 bp):
TGACTTAGGTTTAGGGTT
Found at i:14209519 original size:38 final size:38
Alignment explanation
Indices: 14209382--14209529 Score: 138
Period size: 38 Copynumber: 3.9 Consensus size: 38
14209372 TATTACCTAT
* * * *
14209382 ATTTAAGGCTTGACCTAAGATTTAAGGTCTGACTTTAGG
1 ATTTAAGGTTTGACCTAAGGTTTAGGGTTTGAC-TTAGG
* * * * *
14209421 -TTTAGGGTTTGACCT-AGTGCTTAAGGTTTTAACTTTGG
1 ATTTAAGGTTTGACCTAAG-G-TTTAGGGTTTGACTTAGG
* * *
14209459 ATTTAGGGTTTGACATAGGGTTTAGGGTTTGACTTAGG
1 ATTTAAGGTTTGACCTAAGGTTTAGGGTTTGACTTAGG
*
14209497 ATTTAAGGTTTGACCTAAGGTTTGGGGTTTGAC
1 ATTTAAGGTTTGACCTAAGGTTTAGGGTTTGAC
14209530 CTAAGGTTTA
Statistics
Matches: 86, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
37 2 0.02
38 60 0.70
39 23 0.27
40 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.40
Consensus pattern (38 bp):
ATTTAAGGTTTGACCTAAGGTTTAGGGTTTGACTTAGG
Found at i:14209540 original size:38 final size:38
Alignment explanation
Indices: 14209457--14209541 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
14209447 TTTTAACTTT
* * *
14209457 GGATTTAGGGTTTGACATAGGGTTTAGGGTTTGACTTA
1 GGATTTAAGGTTTGACATAAGGTTTAGGGTTTGACTAA
* *
14209495 GGATTTAAGGTTTGACCTAAGGTTTGGGGTTTGACCTAA
1 GGATTTAAGGTTTGACATAAGGTTTAGGGTTTGA-CTAA
14209534 GG-TTTAAG
1 GGATTTAAG
14209542 TTTAGGGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
38 36 0.88
39 5 0.12
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.38
Consensus pattern (38 bp):
GGATTTAAGGTTTGACATAAGGTTTAGGGTTTGACTAA
Found at i:14213547 original size:16 final size:16
Alignment explanation
Indices: 14213523--14213557 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14213513 ATACAAGCTC
*
14213523 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
*
14213539 ATACTAATTGTTAAAG
1 ATACCAATTGTTAAAG
14213555 ATA
1 ATA
14213558 TGTTATCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:14216506 original size:31 final size:31
Alignment explanation
Indices: 14216448--14216506 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
14216438 TCTTAGGACT
* ** *
14216448 TTAGGATTTAGGTTTTCATTTAGGGTTTCAC
1 TTAGGATTTAGGGTTTCACCTAAGGTTTCAC
*
14216479 TTAGGATTTAGGGTTTCGCCTAAGGTTT
1 TTAGGATTTAGGGTTTCACCTAAGGTTT
14216507 TGGGCTTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (31 bp):
TTAGGATTTAGGGTTTCACCTAAGGTTTCAC
Found at i:14216628 original size:18 final size:18
Alignment explanation
Indices: 14216583--14216628 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
14216573 TAAGGTTTTA
14216583 CTTAGGGTTTACCTAAGG
1 CTTAGGGTTTACCTAAGG
* *
14216601 CATAGTGTTTACCTAAGG
1 CTTAGGGTTTACCTAAGG
*
14216619 TTTAGGGTTT
1 CTTAGGGTTT
14216629 CAGGTTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (18 bp):
CTTAGGGTTTACCTAAGG
Found at i:14218163 original size:24 final size:23
Alignment explanation
Indices: 14218125--14218186 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
14218115 CTTTCACGTC
14218125 CTCCTTTTTATTTTTTATTATGGG
1 CTCCTTTTTA-TTTTTATTATGGG
*
14218149 CTTCCTTTTTATTTTTATTTTGGG
1 C-TCCTTTTTATTTTTATTATGGG
*
14218173 CT-CTTTTTAGTTTT
1 CTCCTTTTTATTTTT
14218187 GTTCTTTAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 11 0.31
23 1 0.03
24 14 0.40
25 9 0.26
ACGTcount: A:0.10, C:0.13, G:0.11, T:0.66
Consensus pattern (23 bp):
CTCCTTTTTATTTTTATTATGGG
Found at i:14219135 original size:34 final size:33
Alignment explanation
Indices: 14219050--14219164 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 33
14219040 TGTACCAACT
* *
14219050 AAACTAGGATTAAATCTTTCA-TGAGGGCCAATC
1 AAACTAGGATTAAATCTTTCATTGA-TGCCAGTC
* *
14219083 AAACTAGGCTTAAATCTTTTATTGATGCCAGTC
1 AAACTAGGATTAAATCTTTCATTGATGCCAGTC
* * *
14219116 AAACTAGGTTTTAAATCTTTCATTGTTTCCAGTC
1 AAACTAGG-ATTAAATCTTTCATTGATGCCAGTC
*
14219150 AAACTAGGCTTAAAT
1 AAACTAGGATTAAAT
14219165 TTGGTGCTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
33 39 0.55
34 32 0.45
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (33 bp):
AAACTAGGATTAAATCTTTCATTGATGCCAGTC
Found at i:14219340 original size:66 final size:65
Alignment explanation
Indices: 14219254--14219426 Score: 174
Period size: 66 Copynumber: 2.6 Consensus size: 65
14219244 CAAATTTGGC
* *
14219254 TTAAAGTTTT-ATTGATGCCAACCAAACTAGGCTTAAATCTTTTCATGAGGTGCCAGATAAAT-T
1 TTAAA-TTTTCATTGGTGCCAACCAAACT-GGCTTAAATCTTTTCATGA-GAGCCAGAT-AATCT
14219317 -GGG
62 GGGG
* * * *
14219320 TTTAATTTTCATTGGTGCCAACTAAACTGGACTTAAATTTTTTCATGAGAGCTAGATAATCTGGG
1 TTAAATTTTCATTGGTGCCAACCAAACTGG-CTTAAATCTTTTCATGAGAGCCAGATAATCTGGG
14219385 G
65 G
** * *
14219386 TTAAAACTTCATTGG-GCCAAGCAATCTGGGCTTAAATCTTT
1 TTAAATTTTCATTGGTGCCAACCAAACT-GGCTTAAATCTTT
14219427 CATTGATGCT
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
64 3 0.03
65 33 0.37
66 53 0.60
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (65 bp):
TTAAATTTTCATTGGTGCCAACCAAACTGGCTTAAATCTTTTCATGAGAGCCAGATAATCTGGGG
Found at i:14219359 original size:32 final size:30
Alignment explanation
Indices: 14219204--14219360 Score: 95
Period size: 32 Copynumber: 4.8 Consensus size: 30
14219194 TTTTTATGAA
*
14219204 ATGCCAAATAAACTGGGCTAAAATATTTCATTG
1 ATGCC-AATAAACT-GGCTTAAAT-TTTCATTG
*
14219237 ATG-CAATCAAATTTGGCTTAAAGTTTT-ATTG
1 ATGCCAAT-AAA-CTGGCTTAAA-TTTTCATTG
*
14219268 ATGCCAACCAAACTAGGCTTAAATCTTTTCA-TG
1 ATGCCAA-TAAACT-GGCTTAAA--TTTTCATTG
* * *
14219301 AGGTGCCAGATAAATTGGGTTTAATTTTCATTG
1 A--TGCCA-ATAAACTGGCTTAAATTTTCATTG
*
14219334 GTGCCAACTAAACTGGACTTAAATTTT
1 ATGCCAA-TAAACTGG-CTTAAATTTT
14219361 TTCATGAGAG
Statistics
Matches: 97, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
30 1 0.01
31 23 0.24
32 42 0.43
33 14 0.14
34 7 0.07
35 9 0.09
36 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (30 bp):
ATGCCAATAAACTGGCTTAAATTTTCATTG
Found at i:14219548 original size:131 final size:132
Alignment explanation
Indices: 14219411--14219653 Score: 348
Period size: 131 Copynumber: 1.8 Consensus size: 132
14219401 GCCAAGCAAT
*
14219411 CTGGGCTTAAATCTTTCATT-GATGCTAGCCAAATTGAGCTTAAATCTTTCATTAATACTAGTTA
1 CTGGGCTTAAATCTTTCATTGGATGCTAGCCAAATTGAGCTTAAAT-TTCCATTAATACTAGTTA
*
14219475 ATACTAGGG-TTAAAACTTGGGTGCCAACTAAACTGGGATT-AAATTTTTTTATGATGTTCCAGC
65 ATACT-GGGCTTAAAACTTGGGTGCCAACTAAACTAGGATTGAAATTTTTTTATGATGTTCCAGC
14219538 TATA
129 TATA
* * * * *
14219542 CTGGGCTTAAATCTTTCATTGGATGCTAGCTAAATTTAGCTTAAATTTCCATTAGTGCTAGTTGA
1 CTGGGCTTAAATCTTTCATTGGATGCTAGCCAAATTGAGCTTAAATTTCCATTAATACTAGTTAA
* * * *
14219607 TTCTGGGCTTAAAACTTGGGTGCTAGCTAAACTAGGTTTGAAATTTT
66 TACTGGGCTTAAAACTTGGGTGCCAACTAAACTAGGATTGAAATTTT
14219654 CATTAGGTAC
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
130 3 0.03
131 65 0.66
132 30 0.31
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (132 bp):
CTGGGCTTAAATCTTTCATTGGATGCTAGCCAAATTGAGCTTAAATTTCCATTAATACTAGTTAA
TACTGGGCTTAAAACTTGGGTGCCAACTAAACTAGGATTGAAATTTTTTTATGATGTTCCAGCTA
TA
Found at i:14224805 original size:39 final size:41
Alignment explanation
Indices: 14224732--14224816 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 41
14224722 TGTACCTAAA
* * *
14224732 GTTGACTAGCAAAAGGTCCAACACTAATGTAAGGTTG-G-G
1 GTTGACTAACAAAAGGTCCAACACAAATGAAAGGTTGTGTG
*
14224771 GTTGACTAACAGAAGGTCCAACA-AAAGTGAAAGGTTGTGTG
1 GTTGACTAACAAAAGGTCCAACACAAA-TGAAAGGTTGTGTG
14224812 GTTGA
1 GTTGA
14224817 TGGTTGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 30 0.77
40 1 0.03
41 6 0.15
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (41 bp):
GTTGACTAACAAAAGGTCCAACACAAATGAAAGGTTGTGTG
Found at i:14225206 original size:3 final size:3
Alignment explanation
Indices: 14225200--14225234 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
14225190 TCATTACTAC
* *
14225200 TAT TAT TAT CAA TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14225235 ATTTGCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:14229048 original size:18 final size:18
Alignment explanation
Indices: 14229025--14229059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14229015 TAAAATCTCG
14229025 TTTTATAATTTTATATTA
1 TTTTATAATTTTATATTA
*
14229043 TTTTATATTTTTATATT
1 TTTTATAATTTTATATT
14229060 TGTTATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATAATTTTATATTA
Found at i:14229403 original size:13 final size:13
Alignment explanation
Indices: 14229356--14229435 Score: 56
Period size: 13 Copynumber: 6.3 Consensus size: 13
14229346 GAATTTCACT
14229356 TTTTGTTTTA-GG
1 TTTTGTTTTAGGG
***
14229368 TTTCACTTTAGGG
1 TTTTGTTTTAGGG
***
14229381 TTTCAATTTAGGG
1 TTTTGTTTTAGGG
*
14229394 TTTTGTTTTAAGG
1 TTTTGTTTTAGGG
**
14229407 TTTT-ACTTAGGG
1 TTTTGTTTTAGGG
*
14229419 TTTTGTTTTAAGG
1 TTTTGTTTTAGGG
14229432 TTTT
1 TTTT
14229436 ACTTAGGGTT
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
12 16 0.31
13 36 0.69
ACGTcount: A:0.15, C:0.05, G:0.23, T:0.57
Consensus pattern (13 bp):
TTTTGTTTTAGGG
Found at i:14229416 original size:25 final size:25
Alignment explanation
Indices: 14229388--14229447 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
14229378 GGGTTTCAAT
14229388 TTAGGGTTTTGTTTTAAGGTTTTAC
1 TTAGGGTTTTGTTTTAAGGTTTTAC
14229413 TTAGGGTTTTGTTTTAAGGTTTTAC
1 TTAGGGTTTTGTTTTAAGGTTTTAC
14229438 TTAGGGTTTT
1 TTAGGGTTTT
14229448 AGAGTTTACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.15, C:0.03, G:0.25, T:0.57
Consensus pattern (25 bp):
TTAGGGTTTTGTTTTAAGGTTTTAC
Found at i:14229422 original size:12 final size:12
Alignment explanation
Indices: 14229405--14229448 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
14229395 TTTGTTTTAA
14229405 GGTTTTACTTAG
1 GGTTTTACTTAG
** *
14229417 GGTTTTGTTTTAA
1 GGTTTT-ACTTAG
14229430 GGTTTTACTTAG
1 GGTTTTACTTAG
14229442 GGTTTTA
1 GGTTTTA
14229449 GAGTTTACCT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.16, C:0.05, G:0.25, T:0.55
Consensus pattern (12 bp):
GGTTTTACTTAG
Found at i:14229434 original size:38 final size:38
Alignment explanation
Indices: 14229356--14229435 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
14229346 GAATTTCACT
*
14229356 TTTTGTTTTAGGTTTCACTTTAGGGTTTCAATTTAGGG
1 TTTTGTTTTAGGTTTCACTTTAGGGTTTCAATTTAAGG
* ***
14229394 TTTTGTTTTAAGGTTTTAC-TTAGGGTTTTGTTTTAAGG
1 TTTTGTTTT-AGGTTTCACTTTAGGGTTTCAATTTAAGG
14229432 TTTT
1 TTTT
14229436 ACTTAGGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 28 0.78
39 8 0.22
ACGTcount: A:0.15, C:0.05, G:0.23, T:0.57
Consensus pattern (38 bp):
TTTTGTTTTAGGTTTCACTTTAGGGTTTCAATTTAAGG
Found at i:14230509 original size:90 final size:90
Alignment explanation
Indices: 14230314--14230507 Score: 329
Period size: 90 Copynumber: 2.1 Consensus size: 90
14230304 TGGTTACAGC
14230314 TTTC-TTCTTTTTCTTTTCTCTTTTTTTGGTTTTTCTGCTTCAGTTTCTGCTGCTCACCTCCAGT
1 TTTCTTTCTTTTTCTTTTCTC--TTTTTGGTTTTTCTGCTTCAGTTTCTGCTGCTCACCTCCAGT
14230378 TTTGGACGCTGCTGTTTTGCGTTTTCT
64 TTTGGACGCTGCTGTTTTGCGTTTTCT
14230405 TTTCTTTCTTTTTCTTTTCTC-TTTTGCGTTTTTCTGCTTCAGTTTCTGCTGCTCACCTCCAGTT
1 TTTCTTTCTTTTTCTTTTCTCTTTTTG-GTTTTTCTGCTTCAGTTTCTGCTGCTCACCTCCAGTT
*
14230469 TTGGACGCTGCTGTTTTGGGTTTTCT
65 TTGGACGCTGCTGTTTTGCGTTTTCT
14230495 TTTCTTTGCTTTT
1 TTTCTTT-CTTTT
14230508 CTGGTCTTCG
Statistics
Matches: 99, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
89 5 0.05
90 69 0.70
91 9 0.09
92 16 0.16
ACGTcount: A:0.04, C:0.23, G:0.15, T:0.58
Consensus pattern (90 bp):
TTTCTTTCTTTTTCTTTTCTCTTTTTGGTTTTTCTGCTTCAGTTTCTGCTGCTCACCTCCAGTTT
TGGACGCTGCTGTTTTGCGTTTTCT
Found at i:14231052 original size:9 final size:9
Alignment explanation
Indices: 14231040--14231106 Score: 64
Period size: 9 Copynumber: 7.2 Consensus size: 9
14231030 AATTGTTTTG
14231040 ATTTTTATT
1 ATTTTTATT
14231049 ATTTTTATT
1 ATTTTTATT
*
14231058 ATTATATAATT
1 ATT-T-TTATT
14231069 ATTATTTATT
1 ATT-TTTATT
*
14231079 ATTTTT-TA
1 ATTTTTATT
*
14231087 ATTTTTAAT
1 ATTTTTATT
*
14231096 ATTTTTGTT
1 ATTTTTATT
14231105 AT
1 AT
14231107 GGCCAACAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
8 7 0.15
9 24 0.50
10 8 0.17
11 9 0.19
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (9 bp):
ATTTTTATT
Found at i:14236180 original size:85 final size:85
Alignment explanation
Indices: 14236026--14236192 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
14236016 TATTCAAACA
* * * ** * * *
14236026 TGAGTATTACTGCTTTTTTGGTGGATATTTTAGATACAATCAGATAGCTATAGCACTCAAAGACC
1 TGAGAATTACTGCTTTCTTAGTGGATATTCCAAATACAATCAGATAGCTATAGCACCCAAAGAAC
* *
14236091 AAGAGAAATCTATATTTGTC
66 AAGAGAAAACTACATTTGTC
*
14236111 TGAGAATTACTGCTTTCTTAGTGGATATTCCAAATACAATCAGATAGCTATAGCACCCAAAGAAT
1 TGAGAATTACTGCTTTCTTAGTGGATATTCCAAATACAATCAGATAGCTATAGCACCCAAAGAAC
14236176 AAGAGAAAACTACATTT
66 AAGAGAAAACTACATTT
14236193 ACCTGCCTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (85 bp):
TGAGAATTACTGCTTTCTTAGTGGATATTCCAAATACAATCAGATAGCTATAGCACCCAAAGAAC
AAGAGAAAACTACATTTGTC
Found at i:14244751 original size:10 final size:10
Alignment explanation
Indices: 14244736--14244763 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
14244726 TTAGTTGGAA
14244736 GTTAAGGTTC
1 GTTAAGGTTC
14244746 GTTAAGGTTC
1 GTTAAGGTTC
14244756 GTTAAGGT
1 GTTAAGGT
14244764 AGTTAGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.32, T:0.39
Consensus pattern (10 bp):
GTTAAGGTTC
Found at i:14254962 original size:13 final size:14
Alignment explanation
Indices: 14254944--14254974 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
14254934 AATTAGCCCG
14254944 ATTAAAATA-TATA
1 ATTAAAATATTATA
14254957 ATTAAAATATTATA
1 ATTAAAATATTATA
14254971 ATTA
1 ATTA
14254975 TATAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTAAAATATTATA
Found at i:14256860 original size:17 final size:17
Alignment explanation
Indices: 14256833--14256878 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
14256823 ACTTCTTTTT
14256833 TTTCTTTTAGTT-TTTAA
1 TTTCTTTTAGTTCTTT-A
14256850 GTTTC-TTTAGTTCTTTA
1 -TTTCTTTTAGTTCTTTA
14256867 TTTCTTTTAGTT
1 TTTCTTTTAGTT
14256879 AAGGTATTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 15 0.58
18 7 0.27
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTCTTTTAGTTCTTTA
Found at i:14263180 original size:24 final size:24
Alignment explanation
Indices: 14263148--14263195 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14263138 TGTATTATGA
*
14263148 AAATTTGCTAGTGAAAAATTGTTG
1 AAATTTGCTAGAGAAAAATTGTTG
*
14263172 AAATTTGCTAGAGAAAAGTTGTTG
1 AAATTTGCTAGAGAAAAATTGTTG
14263196 CTAAATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (24 bp):
AAATTTGCTAGAGAAAAATTGTTG
Found at i:14266367 original size:2 final size:2
Alignment explanation
Indices: 14266360--14266390 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14266350 TCCAAGGATT
*
14266360 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14266391 TAACTTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14267124 original size:9 final size:9
Alignment explanation
Indices: 14267110--14267140 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
14267100 CTCATAATAA
14267110 TGGGGAAAC
1 TGGGGAAAC
14267119 TGGGGAAAC
1 TGGGGAAAC
14267128 TGGGGAAAC
1 TGGGGAAAC
14267137 TGGG
1 TGGG
14267141 AGTGAGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.48, T:0.13
Consensus pattern (9 bp):
TGGGGAAAC
Found at i:14271818 original size:25 final size:25
Alignment explanation
Indices: 14271784--14271831 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
14271774 TTAACAATGG
14271784 TTTTAGCTTCATAAAGTTGATATGA
1 TTTTAGCTTCATAAAGTTGATATGA
*
14271809 TTTTAGCTTCATAAAGTTTATAT
1 TTTTAGCTTCATAAAGTTGATAT
14271832 CCAGATAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (25 bp):
TTTTAGCTTCATAAAGTTGATATGA
Found at i:14272505 original size:22 final size:22
Alignment explanation
Indices: 14272462--14272505 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
14272452 ATATTTTTTA
*
14272462 TTTTTTAAAATTTATATATGAT
1 TTTTTTAAAATTTAAATATGAT
14272484 TTTTATTAAAATTTAAAT-TGAT
1 TTTT-TTAAAATTTAAATATGAT
14272506 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTTTTAAAATTTAAATATGAT
Found at i:14273208 original size:16 final size:16
Alignment explanation
Indices: 14273187--14273218 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14273177 ATTAAAGACT
*
14273187 TTGAAATTTTAAAAAA
1 TTGAAATCTTAAAAAA
14273203 TTGAAATCTTAAAAAA
1 TTGAAATCTTAAAAAA
14273219 AAAACTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (16 bp):
TTGAAATCTTAAAAAA
Found at i:14273776 original size:29 final size:29
Alignment explanation
Indices: 14273693--14273779 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 29
14273683 TAATTCTTAC
14273693 GAATGAATAATGAAAATTTTTGAAAGGTTATT
1 GAATGAA-AATG-AAATTTTTGAAAGGTTA-T
* *
14273725 G-ATGGTAAATGAAACTTTT-AAAGGTTA-
1 GAAT-GAAAATGAAATTTTTGAAAGGTTAT
14273752 GAATGAAAATGAAATTTTTTGAAAGGTT
1 GAATGAAAATGAAA-TTTTTGAAAGGTT
14273780 GTGGACTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
27 10 0.21
28 6 0.13
29 15 0.32
30 7 0.15
31 6 0.13
32 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.36
Consensus pattern (29 bp):
GAATGAAAATGAAATTTTTGAAAGGTTAT
Found at i:14278442 original size:19 final size:19
Alignment explanation
Indices: 14278418--14278466 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
14278408 TGAAGAACAA
*
14278418 AAAATTGAAAAGAAATGCC
1 AAAATTGAAAAGAAAAGCC
* *
14278437 AAAATTAACAAAGAAAAGTC
1 AAAATTGA-AAAGAAAAGCC
*
14278457 AAAACTGAAA
1 AAAATTGAAA
14278467 CTGAGTTAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.63, C:0.10, G:0.12, T:0.14
Consensus pattern (19 bp):
AAAATTGAAAAGAAAAGCC
Found at i:14278867 original size:48 final size:47
Alignment explanation
Indices: 14278799--14278933 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 47
14278789 AAATCATGTA
* *
14278799 CAAGAAAGCTCCTTTC-CAATAAAGGCTTAAAATTTTAAAATTCTCATT
1 CAAGAAAGCT--TTTCTCAATAAAGGCTTGAAACTTTAAAATTCTCATT
14278847 CAAGAAAGCTTATTCTCAATAAAGGCTTGAAACTTTAAAATTCTCATT
1 CAAGAAAGCTT-TTCTCAATAAAGGCTTGAAACTTTAAAATTCTCATT
* * *
14278895 CAGGAAAGCTCCTTCTCAACAAAGGCTTGAAACTTTAAA
1 CAAGAAAGCT-TTTCTCAATAAAGGCTTGAAACTTTAAA
14278934 TAAAAAAAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 1 0.01
47 3 0.04
48 75 0.95
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (47 bp):
CAAGAAAGCTTTTCTCAATAAAGGCTTGAAACTTTAAAATTCTCATT
Found at i:14281838 original size:24 final size:23
Alignment explanation
Indices: 14281811--14281855 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
14281801 CAATTGTTCA
* *
14281811 AAAATAGATAATTTTTGTCTATTC
1 AAAATAGACAA-TTATGTCTATTC
14281835 AAAATAGACAATTATGTCTAT
1 AAAATAGACAATTATGTCTAT
14281856 AAAAAAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (23 bp):
AAAATAGACAATTATGTCTATTC
Found at i:14281861 original size:23 final size:24
Alignment explanation
Indices: 14281810--14281861 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
14281800 TCAATTGTTC
* * *
14281810 AAAAATAGATAATTTTTGTCTATT
1 AAAAATAGACAATTTATGTCTATA
*
14281834 CAAAATAGACAA-TTATGTCTATA
1 AAAAATAGACAATTTATGTCTATA
14281857 AAAAA
1 AAAAA
14281862 GATATTTATC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAAATAGACAATTTATGTCTATA
Found at i:14287818 original size:2 final size:2
Alignment explanation
Indices: 14287806--14287841 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
14287796 CAATCCAGTG
*
14287806 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14287842 CACACACACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14293532 original size:7 final size:7
Alignment explanation
Indices: 14293520--14293545 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14293510 GGTAACTCAT
14293520 TCGACAC
1 TCGACAC
14293527 TCGACAC
1 TCGACAC
14293534 TCGACAC
1 TCGACAC
14293541 TCGAC
1 TCGAC
14293546 TAAAGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.42, G:0.15, T:0.15
Consensus pattern (7 bp):
TCGACAC
Found at i:14301681 original size:194 final size:190
Alignment explanation
Indices: 14301356--14301714 Score: 451
Period size: 194 Copynumber: 1.9 Consensus size: 190
14301346 TTTAGAAAAA
*
14301356 ATAAAAATAAAAAAATAAATTTTGGGAATAAATATTAATTATCCAATGATGAAAATTATAAAAAT
1 ATAAAAATAAAAAAATAAATTTTGGGAATAAATATTAATTATCCAAGGATGAAAATTATAAAAAT
* * *
14301421 TTCAAATGGTAAATTTTTATAAAATTCTTAAGTGAAAAATTCTATCTAAATTTGTCTCAAATGGT
66 TTCAAATAGTAAATTTTTATAAAAATCTTAAGTGAAAAATTCTATCTAAATTTGTCCCAAATGGT
* * *
14301486 AGAATAATTTAGATAAAATTTTAATAACAATAATTAATATTTATTTTCAAACCAAAATAT
131 AGAATAATTTAAATAAAATTTCAATAAAAATAATTAATATTTATTTTCAAACCAAAATAT
* *
14301546 ATAAAAATAAAAATAA-AAATTTTGGTTGAA-AATATTTGATAATTATCCAAGGATGAGAATCT-
1 ATAAAAATAAAAA-AATAAATTTTGG--GAATAA-ATAT--TAATTATCCAAGGATGAAAAT-TA
* * * * *
14301608 TAGAAATTTTAAGTAGTAAATTTTT-TAAGAAATCTCTAGGTGATAAATTTCT-T-TAAATTTGT
59 TAAAAATTTCAAATAGTAAATTTTTATAA-AAATCT-TAAGTGA-AAAATTCTATCTAAATTTGT
*
14301670 CCCAAATGGTAGAATAATTTAAATGAAATTTCAATAAAAATAATT
121 CCCAAATGGTAGAATAATTTAAATAAAATTTCAATAAAAATAATT
14301715 GTCATATTAT
Statistics
Matches: 144, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
190 22 0.15
191 4 0.03
192 6 0.04
193 3 0.02
194 94 0.65
195 8 0.06
196 7 0.05
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (190 bp):
ATAAAAATAAAAAAATAAATTTTGGGAATAAATATTAATTATCCAAGGATGAAAATTATAAAAAT
TTCAAATAGTAAATTTTTATAAAAATCTTAAGTGAAAAATTCTATCTAAATTTGTCCCAAATGGT
AGAATAATTTAAATAAAATTTCAATAAAAATAATTAATATTTATTTTCAAACCAAAATAT
Found at i:14305931 original size:17 final size:16
Alignment explanation
Indices: 14305902--14305981 Score: 83
Period size: 17 Copynumber: 4.8 Consensus size: 16
14305892 TAATGGATGG
14305902 GAAAAGATGAAAAAGAA
1 GAAAA-ATGAAAAAGAA
14305919 GAAAAATGAAAAAGAA
1 GAAAAATGAAAAAGAA
*
14305935 -AAAAATGAAAAA-ATG
1 GAAAAATGAAAAAGA-A
*
14305950 GAAAAAATGAAAAAGAT
1 G-AAAAATGAAAAAGAA
14305967 GAAAGAATGGAAAAA
1 GAAA-AAT-GAAAAA
14305982 AGATGAAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.02
15 12 0.22
16 14 0.25
17 21 0.38
18 7 0.13
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (16 bp):
GAAAAATGAAAAAGAA
Found at i:14305990 original size:9 final size:8
Alignment explanation
Indices: 14305902--14305982 Score: 69
Period size: 8 Copynumber: 9.9 Consensus size: 8
14305892 TAATGGATGG
*
14305902 GAAAAGAT
1 GAAAAAAT
*
14305910 GAAAAAGAA
1 GAAAAA-AT
14305919 G-AAAAAT
1 GAAAAAAT
14305926 G-AAAAA-
1 GAAAAAAT
14305932 GAAAAAAAT
1 G-AAAAAAT
14305941 GAAAAAAT
1 GAAAAAAT
14305949 GGAAAAAAT
1 -GAAAAAAT
14305958 GAAAAAGAT
1 GAAAAA-AT
*
14305967 GAAAGAAT
1 GAAAAAAT
14305975 GGAAAAAA
1 -GAAAAAA
14305983 GATGAAAATC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
6 1 0.02
7 7 0.11
8 29 0.48
9 24 0.39
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.09
Consensus pattern (8 bp):
GAAAAAAT
Found at i:14307356 original size:73 final size:73
Alignment explanation
Indices: 14307263--14307398 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 73
14307253 AAGTGCTAAA
* * *
14307263 TTTTCAAATAAGAAACTTTGAGTCTTAAACGAGAATCGTTAAGATATTTTTAAATGAAAACCTTT
1 TTTTCAAATAAGAAACTTTGAGTCTTAAACGAGAAACGTTAAGACATTTTCAAATGAAAACCTTT
14307328 AAGTAATG
66 AAGTAATG
* * * * *
14307336 TTTTCAAATGAA-AACCTTTGAGTCTTAAATGAGAAACTTTATGACATTTTCAAATGAGAACCT
1 TTTTCAAAT-AAGAAACTTTGAGTCTTAAACGAGAAACGTTAAGACATTTTCAAATGAAAACCT
14307399 ATGAGTCTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
73 52 0.96
74 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (73 bp):
TTTTCAAATAAGAAACTTTGAGTCTTAAACGAGAAACGTTAAGACATTTTCAAATGAAAACCTTT
AAGTAATG
Found at i:14307390 original size:25 final size:25
Alignment explanation
Indices: 14307362--14307438 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
14307352 TTTGAGTCTT
14307362 AAATGAGAAACTTTATGACATTTTC
1 AAATGAGAAACTTTATGACATTTTC
* * *
14307387 AAATGAG-AAC-CTATGA-GTCTT-
1 AAATGAGAAACTTTATGACATTTTC
** *
14307408 AAATGAGAATGTTTAAGACATTTTC
1 AAATGAGAAACTTTATGACATTTTC
14307433 AAATGA
1 AAATGA
14307439 AAATGTTTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
21 7 0.18
22 4 0.10
23 9 0.23
24 6 0.15
25 13 0.33
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (25 bp):
AAATGAGAAACTTTATGACATTTTC
Found at i:14307398 original size:46 final size:46
Alignment explanation
Indices: 14307336--14307441 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 46
14307326 TTAAGTAATG
* *
14307336 TTTTCAAATGAAAACCTTTGAGTCTTAAATGAGAAACTTTATGACA
1 TTTTCAAATGAAAACCTATGAGTCTTAAATGAGAAACTTTAAGACA
* **
14307382 TTTTCAAATGAGAACCTATGAGTCTTAAATGAGAATGTTTAAGACA
1 TTTTCAAATGAAAACCTATGAGTCTTAAATGAGAAACTTTAAGACA
14307428 TTTTCAAATGAAAA
1 TTTTCAAATGAAAA
14307442 TGTTTGAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (46 bp):
TTTTCAAATGAAAACCTATGAGTCTTAAATGAGAAACTTTAAGACA
Found at i:14307414 original size:21 final size:21
Alignment explanation
Indices: 14307341--14307416 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
14307331 TAATGTTTTC
* *
14307341 AAATGAAAACCTTTGAGTCTT
1 AAATGAGAACCTATGAGTCTT
* * *
14307362 AAATGAGAAACTTTATGACATTTT
1 AAATGAG-AAC-CTATGA-GTCTT
14307386 CAAATGAGAACCTATGAGTCTT
1 -AAATGAGAACCTATGAGTCTT
14307408 AAATGAGAA
1 AAATGAGAA
14307417 TGTTTAAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 15 0.35
22 6 0.14
23 9 0.21
24 6 0.14
25 7 0.16
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
AAATGAGAACCTATGAGTCTT
Found at i:14307930 original size:46 final size:46
Alignment explanation
Indices: 14307871--14308081 Score: 175
Period size: 41 Copynumber: 4.8 Consensus size: 46
14307861 TCAAGGACAT
**
14307871 TTTATTTTTTCAAAGTTACGGTGCCTCTGTTTAGAGGAGCAGAGCAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAGAGCAA
*
14307918 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTA-A--AG--GAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAGAGCAA
* * *
14307959 TTTATTTTTCAAAAGTTGTGGCGCCTCTATTT--A-GAG--GAGCAT
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCAGAGCAA
* * *
14308001 TTTACTTTTCAACA-TTGTGGTGCCTCTATTT--A-GAG--GAGCAT
1 TTTATTTTTCAA-AGTTGTGGTGCCTCTGTTTAGAGGAGCAGAGCAA
* *
14308042 TTTATTTTTCAAAAGTTATGGTGCCTTTGTTTAGAGGAGC
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGC
14308082 TTAATTTATT
Statistics
Matches: 144, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
41 54 0.38
42 53 0.37
43 2 0.01
44 1 0.01
45 4 0.03
46 26 0.18
47 4 0.03
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (46 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAGAGCAA
Found at i:14307997 original size:42 final size:42
Alignment explanation
Indices: 14307864--14308098 Score: 253
Period size: 42 Copynumber: 5.5 Consensus size: 42
14307854 ATGATTGTCA
** *
14307864 AGGA-CATTTTATTTTTTC-AAAGTTACGGTGCCTCTGTTTAGAGG
1 AGGAGCATTTTA-TTTTTCAAAAGTTGTGGTGCCTCTATTT--A-G
* * *
14307908 AGCAGAGCAATTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAA
1 AG--GAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAG
*
14307951 AGGAGCATTTTATTTTTCAAAAGTTGTGGCGCCTCTATTTAG
1 AGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAG
* *
14307993 AGGAGCATTTTACTTTTCAACA-TTGTGGTGCCTCTATTTAG
1 AGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAG
* * *
14308034 AGGAGCATTTTATTTTTCAAAAGTTATGGTGCCTTTGTTTAG
1 AGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAG
*
14308076 AGGAGCTTAATTTATTTTTCAAA
1 AGGAGC--ATTTTATTTTTCAAA
14308099 GTCATTGAGC
Statistics
Matches: 167, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
41 53 0.32
42 62 0.37
43 2 0.01
44 17 0.10
46 27 0.16
47 6 0.04
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (42 bp):
AGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAG
Found at i:14308027 original size:83 final size:83
Alignment explanation
Indices: 14307863--14308100 Score: 266
Period size: 83 Copynumber: 2.8 Consensus size: 83
14307853 CATGATTGTC
* * * *
14307863 AAGGA-CATTTTATTTTTTC-AAAGTTACGGTGCCTCTGTTTAGAGGAGCAGAGCAATTTATTTT
1 AAGGAGCATTTTA-TTTTTCAAAAGTTATGGCGCCTCTATTT--A-GAG--GAGCAATTTACTTT
*
14307926 TCAAAGTTGTGGTGCCTCTGTTTA
60 TCAAAGTTGTGGTGCCTCTATTTA
* *
14307950 AAGGAGCATTTTATTTTTCAAAAGTTGTGGCGCCTCTATTTAGAGGAGCATTTTACTTTTCAACA
1 AAGGAGCATTTTATTTTTCAAAAGTTATGGCGCCTCTATTTAGAGGAGCAATTTACTTTTCAA-A
14308015 -TTGTGGTGCCTCTATTTA
65 GTTGTGGTGCCTCTATTTA
* * * * *
14308033 GAGGAGCATTTTATTTTTCAAAAGTTATGGTGCCTTTGTTTAGAGGAGCTTAATTTATTTTTCAA
1 AAGGAGCATTTTATTTTTCAAAAGTTATGGCGCCTCTATTTAGAGGAGC--AATTTACTTTTCAA
14308098 AGT
64 AGT
14308101 CATTGAGCTT
Statistics
Matches: 131, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
83 77 0.59
84 2 0.02
85 16 0.12
86 1 0.01
87 11 0.08
88 24 0.18
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (83 bp):
AAGGAGCATTTTATTTTTCAAAAGTTATGGCGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAG
TTGTGGTGCCTCTATTTA
Found at i:14308119 original size:43 final size:44
Alignment explanation
Indices: 14307916--14308142 Score: 136
Period size: 42 Copynumber: 5.3 Consensus size: 44
14307906 GGAGCAGAGC
** * * *
14307916 AATTTATTTTTCAAAGTTGTGGTGCC-TCTGTTTAAAGGAGC--
1 AATTTATTTTTCAAAGTCATGGAGCCTTCTATTTAGAGGAGCTT
* ** *
14307957 ATTTTATTTTTCAAAAGTTGTGGCGCC-TCTATTTAGAGGAGC--
1 AATTTATTTTTC-AAAGTCATGGAGCCTTCTATTTAGAGGAGCTT
* * ** *
14307999 ATTTTACTTTTCAACA-TTGTGGTGCC-TCTATTTAGAGGAGC--
1 AATTTATTTTTCAA-AGTCATGGAGCCTTCTATTTAGAGGAGCTT
* * * *
14308040 ATTTTATTTTTCAAAAGTTATGGTGCCTT-TGTTTAGAGGAGCTT
1 AATTTATTTTTC-AAAGTCATGGAGCCTTCTATTTAGAGGAGCTT
* *
14308084 AATTTATTTTTCAAAGTCATTGAG-CTTCTATTTAGAAGAGCTT
1 AATTTATTTTTCAAAGTCATGGAGCCTTCTATTTAGAGGAGCTT
**
14308127 TGTTTATTTTTTCAAA
1 AATTTA-TTTTTCAAA
14308143 AAAAAAAAAA
Statistics
Matches: 160, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
41 49 0.31
42 64 0.40
43 27 0.17
44 20 0.12
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (44 bp):
AATTTATTTTTCAAAGTCATGGAGCCTTCTATTTAGAGGAGCTT
Found at i:14308291 original size:22 final size:22
Alignment explanation
Indices: 14308265--14308306 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14308255 TGTATATTTA
* *
14308265 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
14308287 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
14308307 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:14312188 original size:21 final size:21
Alignment explanation
Indices: 14312164--14312205 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14312154 CTATATATTT
* * *
14312164 ATATTTTTATCTCTAGAATTA
1 ATATTTGTATCCCTAAAATTA
14312185 ATATTTGTATCCCTAAAATTA
1 ATATTTGTATCCCTAAAATTA
14312206 GGATAGACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATTTGTATCCCTAAAATTA
Found at i:14314596 original size:17 final size:16
Alignment explanation
Indices: 14314546--14314598 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
14314536 ATTTTAGTAT
*
14314546 TTTTATTATTTTTTAT
1 TTTTATTATTTTTTAA
* *
14314562 TCTTTATTCTTTACTTAA
1 T-TTTATTATTT-TTTAA
14314580 TTTTATTATTATTTTAA
1 TTTTATTATT-TTTTAA
14314597 TT
1 TT
14314599 ACAAAATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.03
17 23 0.79
18 5 0.17
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTATTTTTTAA
Found at i:14314844 original size:26 final size:25
Alignment explanation
Indices: 14314814--14314911 Score: 81
Period size: 26 Copynumber: 3.6 Consensus size: 25
14314804 AGGATTTCGA
* *
14314814 GTTTCACTTAGAGTTATGATTTTAGG
1 GTTTCATTTAGAGTT-TAATTTTAGG
14314840 GTTTCATTTATG-GTCTTAATTTTAGG
1 GTTTCATTTA-GAGT-TTAATTTTAGG
*
14314866 GTTTCATTTAAAGTTTCAATTTCATTTAGG
1 GTTTCATTTAGAGTTT-AA--T--TTTAGG
*
14314896 GTTTCATTTAGGGTTT
1 GTTTCATTTAGAGTTT
14314912 TAATATTGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
25 2 0.03
26 34 0.58
27 2 0.03
28 1 0.02
30 20 0.34
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.51
Consensus pattern (25 bp):
GTTTCATTTAGAGTTTAATTTTAGG
Found at i:14314874 original size:13 final size:13
Alignment explanation
Indices: 14314832--14314874 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
14314822 TAGAGTTATG
14314832 ATTTTAGGGTTTC
1 ATTTTAGGGTTTC
* *
14314845 A-TTTATGGTCTTA
1 ATTTTAGGGT-TTC
14314858 ATTTTAGGGTTTC
1 ATTTTAGGGTTTC
14314871 ATTT
1 ATTT
14314875 AAAGTTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 7 0.29
13 10 0.42
14 7 0.29
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (13 bp):
ATTTTAGGGTTTC
Found at i:14314900 original size:12 final size:12
Alignment explanation
Indices: 14314885--14314911 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14314875 AAAGTTTCAA
14314885 TTTCATTTAGGG
1 TTTCATTTAGGG
14314897 TTTCATTTAGGG
1 TTTCATTTAGGG
14314909 TTT
1 TTT
14314912 TAATATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (12 bp):
TTTCATTTAGGG
Found at i:14315214 original size:132 final size:132
Alignment explanation
Indices: 14314977--14315220 Score: 443
Period size: 132 Copynumber: 1.8 Consensus size: 132
14314967 CAAAGTAAAC
*
14314977 TTTCCTAAAAATCAGATTTTTATGTCCTATATATTCATATATTTTCTTTTTCTTTAAAATTATCA
1 TTTCCTAAAAATCAGATTTTTACGTCCTATATATTCATATATTTTCTTTTTCTTTAAAATTATCA
*
14315042 TTATTTTTATTTATTTACTCTTATCTATCTCTCAAAAAATGGACTTTTAAAGCTAGTATTTTGTA
66 TTATTTTTATTTATTTACTCTTATCTATCTCTCAAAAAATGAACTTTTAAAGCTAGTATTTTGTA
14315107 AT
131 AT
* *
14315109 TTTCCTAAAAATCATATTTTTACGTCTTATATATTCATATATTTTCTTTTTCTTTAAAATTATCA
1 TTTCCTAAAAATCAGATTTTTACGTCCTATATATTCATATATTTTCTTTTTCTTTAAAATTATCA
*
14315174 TTATTTTTATTTATTTACTCTTATCTATCTTTCAAAAAATGAACTTT
66 TTATTTTTATTTATTTACTCTTATCTATCTCTCAAAAAATGAACTTT
14315221 CATATTTTAT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 107 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (132 bp):
TTTCCTAAAAATCAGATTTTTACGTCCTATATATTCATATATTTTCTTTTTCTTTAAAATTATCA
TTATTTTTATTTATTTACTCTTATCTATCTCTCAAAAAATGAACTTTTAAAGCTAGTATTTTGTA
AT
Found at i:14315648 original size:38 final size:38
Alignment explanation
Indices: 14315582--14315656 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
14315572 AATTATAATT
*
14315582 AAACTTAAACAACATGAAAGAAATTTGCATGAAATTTC
1 AAACTTAAACAACATGAAAGAAACTTGCATGAAATTTC
*
14315620 AAACTTAAACAACATGAAAGAAACTTGCATGGAATTT
1 AAACTTAAACAACATGAAAGAAACTTGCATGAAATTT
14315657 AAAAGCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.25
Consensus pattern (38 bp):
AAACTTAAACAACATGAAAGAAACTTGCATGAAATTTC
Found at i:14316697 original size:9 final size:9
Alignment explanation
Indices: 14316674--14316715 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
14316664 TGCTTTTGTT
14316674 CCTTTTCTTA
1 CCTTTTC-TA
*
14316684 TCTTTTCTA
1 CCTTTTCTA
14316693 CC-TTTCTA
1 CCTTTTCTA
14316701 CCTTTTCTA
1 CCTTTTCTA
14316710 CCTTTT
1 CCTTTT
14316716 TGTTTTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 8 0.28
9 15 0.52
10 6 0.21
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.60
Consensus pattern (9 bp):
CCTTTTCTA
Found at i:14317454 original size:14 final size:15
Alignment explanation
Indices: 14317435--14317465 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14317425 AGTTTAAATT
14317435 TTAAATA-TTTAATA
1 TTAAATATTTTAATA
14317449 TTAAATATTTTAATA
1 TTAAATATTTTAATA
14317464 TT
1 TT
14317466 GATATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAATATTTTAATA
Found at i:14317887 original size:7 final size:7
Alignment explanation
Indices: 14317849--14317874 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14317839 TTTTACCTAC
14317849 TATTTAT
1 TATTTAT
14317856 TATTTAT
1 TATTTAT
14317863 TATTTAT
1 TATTTAT
14317870 TATTT
1 TATTT
14317875 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TATTTAT
Found at i:14329882 original size:3 final size:3
Alignment explanation
Indices: 14329876--14329939 Score: 83
Period size: 3 Copynumber: 20.3 Consensus size: 3
14329866 TGTTATTAAC
* *
14329876 ATT ATT ATT ATT ATC ATT ATT ATT ATT ATC ATT ATTT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT
14329923 ATTT ATT ATT ATT ATT A
1 A-TT ATT ATT ATT ATT A
14329940 CTTCTTTTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
3 45 0.82
4 10 0.18
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14329888 original size:15 final size:15
Alignment explanation
Indices: 14329868--14329937 Score: 95
Period size: 15 Copynumber: 4.5 Consensus size: 15
14329858 ATTCGTGTTG
*
14329868 TTATTAACATTATTA
1 TTATTATCATTATTA
14329883 TTATTATCATTATTA
1 TTATTATCATTATTA
14329898 TTATTATCATTATTTA
1 TTATTATCATTA-TTA
*
14329914 TTTATTATTATTTATTA
1 -TTATTATCA-TTATTA
14329931 TTATTAT
1 TTATTAT
14329938 TACTTCTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
15 26 0.52
16 10 0.20
17 11 0.22
18 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:14332256 original size:36 final size:35
Alignment explanation
Indices: 14332216--14332307 Score: 94
Period size: 36 Copynumber: 2.6 Consensus size: 35
14332206 GTAAGTTAAG
*
14332216 AATAAATATGACTAAGATGAAGCTGCAAGTAGAAAA
1 AATAAAGATGACTAAGATGAAGCTGCAAGTAG-AAA
** * * * *
14332252 AATAAAGACAACTGAGACGAAGCTGCAAGTTGAGA
1 AATAAAGATGACTAAGATGAAGCTGCAAGTAGAAA
* *
14332287 AATTAAGATGACTAGGATGAA
1 AATAAAGATGACTAAGATGAA
14332308 ATCACAAGTC
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
35 17 0.40
36 26 0.60
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.18
Consensus pattern (35 bp):
AATAAAGATGACTAAGATGAAGCTGCAAGTAGAAA
Found at i:14332463 original size:35 final size:35
Alignment explanation
Indices: 14332416--14332489 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
14332406 ACAAAGTCAT
* * *
14332416 AAGTAAAGAAATAAAGATGATTGGGATGAA-CCTAC
1 AAGTAAAGAAATAAAAATAATTAGGATGAAGCC-AC
14332451 AAGTCAAA-AAATAAAAATAATTAGGATGAAGCCAC
1 AAGT-AAAGAAATAAAAATAATTAGGATGAAGCCAC
14332486 AAGT
1 AAGT
14332490 TAGGAACAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (35 bp):
AAGTAAAGAAATAAAAATAATTAGGATGAAGCCAC
Found at i:14332684 original size:34 final size:34
Alignment explanation
Indices: 14332596--14332696 Score: 130
Period size: 35 Copynumber: 2.9 Consensus size: 34
14332586 TTGCATGTCA
**
14332596 AAAAATAAAGATGACCAAGATAAAGTCACAAGTC
1 AAAAATAAAGATGACCAAGATAAAGTCACAAACC
* **
14332630 AGAAAATAAGGATGACCAAGATAAAGTCGTAAACC
1 A-AAAATAAAGATGACCAAGATAAAGTCACAAACC
* *
14332665 AAAAATAAAGATTATCAAGATAAAGTCACAAA
1 AAAAATAAAGATGACCAAGATAAAGTCACAAA
14332697 AAATGCCTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 27 0.48
35 29 0.52
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.16
Consensus pattern (34 bp):
AAAAATAAAGATGACCAAGATAAAGTCACAAACC
Found at i:14337364 original size:20 final size:20
Alignment explanation
Indices: 14337341--14337378 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14337331 TCACTATATT
14337341 ACTTTTTAAAAGATTTAAAG
1 ACTTTTTAAAAGATTTAAAG
*
14337361 ACTTTTTGAAAGATTTAA
1 ACTTTTTAAAAGATTTAA
14337379 GGATAACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (20 bp):
ACTTTTTAAAAGATTTAAAG
Found at i:14344389 original size:3 final size:3
Alignment explanation
Indices: 14344381--14344426 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
14344371 AAAATGCAAT
*
14344381 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14344427 CATCATCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14344431 original size:3 final size:3
Alignment explanation
Indices: 14344425--14344461 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14344415 TATTGTTATT
14344425 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
14344462 AGAAAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:14347165 original size:3 final size:3
Alignment explanation
Indices: 14347157--14347183 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14347147 TAAACATCTC
14347157 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
14347184 GATACATACA
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):
ATA
Found at i:14347194 original size:4 final size:4
Alignment explanation
Indices: 14347185--14347212 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
14347175 ATAATAATAG
14347185 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
14347213 GAGCGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:14347287 original size:3 final size:3
Alignment explanation
Indices: 14347281--14347311 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14347271 TATTATTATT
*
14347281 ATC ATC ATC ATC ATC ACC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
14347312 CTAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (3 bp):
ATC
Found at i:14347303 original size:15 final size:15
Alignment explanation
Indices: 14347283--14347312 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14347273 TTATTATTAT
14347283 CATCATCATCATCAC
1 CATCATCATCATCAC
14347298 CATCATCATCATCAC
1 CATCATCATCATCAC
14347313 TAAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (15 bp):
CATCATCATCATCAC
Found at i:14349089 original size:3 final size:3
Alignment explanation
Indices: 14349081--14349166 Score: 111
Period size: 3 Copynumber: 28.0 Consensus size: 3
14349071 TTCATTTATG
** *
14349081 TTA TTA TTA ACA TTA TTA TTA TTA TCA TTA TTTA TTTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA
14349129 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14349167 CGCCTTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.83
4 11 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:14350754 original size:11 final size:11
Alignment explanation
Indices: 14350738--14350785 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
14350728 TTTCAAAGGG
14350738 TTTTTTTTCTT
1 TTTTTTTTCTT
14350749 TTTTTTTTCTAT
1 TTTTTTTTCT-T
*
14350761 CTTTGTCTTTCTT
1 -TTT-TTTTTCTT
*
14350774 TTCTTTTTCTT
1 TTTTTTTTCTT
14350785 T
1 T
14350786 GGTATCTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 18 0.58
12 3 0.10
13 4 0.13
14 6 0.19
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:14353130 original size:10 final size:10
Alignment explanation
Indices: 14353104--14353150 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
14353094 GGGAGTCTTG
14353104 TTTCC-TTAC
1 TTTCCTTTAC
*
14353113 ATTCCTTTAC
1 TTTCCTTTAC
* *
14353123 TTTACTTTCC
1 TTTCCTTTAC
14353133 TTTCCTTTAC
1 TTTCCTTTAC
14353143 TTTCCTTT
1 TTTCCTTT
14353151 CCTTCCTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
9 4 0.13
10 27 0.87
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTCCTTTAC
Found at i:14353151 original size:5 final size:5
Alignment explanation
Indices: 14353114--14353154 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
14353104 TTTCCTTACA
* * *
14353114 TTCCT TTACT TTACT TTCCT TTCCT TTACT TTCCT TTCCT T
1 TTCCT TTCCT TTCCT TTCCT TTCCT TTCCT TTCCT TTCCT T
14353155 CCTCTCCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.07, C:0.32, G:0.00, T:0.61
Consensus pattern (5 bp):
TTCCT
Found at i:14353151 original size:15 final size:15
Alignment explanation
Indices: 14353104--14353154 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
14353094 GGGAGTCTTG
*
14353104 TTTCC-TTACATTCC
1 TTTCCTTTACTTTCC
*
14353118 TTTACTTTACTTTCC
1 TTTCCTTTACTTTCC
14353133 TTTCCTTTACTTTCC
1 TTTCCTTTACTTTCC
14353148 TTTCCTT
1 TTTCCTT
14353155 CCTCTCCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 4 0.12
15 29 0.88
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCCTTTACTTTCC
Found at i:14354066 original size:363 final size:361
Alignment explanation
Indices: 14353552--14354283 Score: 1356
Period size: 363 Copynumber: 2.0 Consensus size: 361
14353542 ATCAATTCAA
* *
14353552 AACTAAACATTTTATTCTATACAAATAAGGATTAAGTGTTATCAACTTATAACAATGTAGGACTT
1 AACTAAACACTTTATTCTATACAAATAAGGATTAAGTGTTATCAACTTATAACAATGTAAGACTT
*
14353617 TTTAGATGGACATGTGGTTGTGAAAGACAAGTGTTGTTAAGTTTCAAAAAAGTAATAGGTGAAAA
66 TTTAGATGGACATGTGGTTATGAAAGACAAGTGTTGTTAAGTTTCAAAAAAGTAATAGGTGAAAA
*
14353682 TGATATGGAATTTCTCAAGTTTTAAAATATTTTAATATTTTTTGGCATTATTTTTTAATTTCTTG
131 TGACATGGAATTTCTCAAGTTTTAAAATATTTTAATATTTTTTGGCATTATTTTTTAATTT-TTG
14353747 CTTGAAAAAAAAAACCAAAATGATATAATTTATCTTCAGATTTGATTAGGGTTATTTCTAGAAAT
195 CTTG-AAAAAAAAACCAAAATGATATAATTTATCTTCAGATTTGATTAGGGTTATTTCTAGAAAT
* *
14353812 TGATTTTGAAGGCAGCAGAGCAAAGCAAGAAAGAAACGATTCCAATGCAAAAGAGAGATGTCCAG
259 TGATTTTAAAGGCAGCAGAGCAAAGCAAGAAAGAAACGATTCCAATGCAAAAGAGAGATATCCAG
*
14353877 TAATATAATACAAATAATTCCATCTTGATGTACAACAG
324 TAATATAATACAAATAATTCCAGCTTGATGTACAACAG
14353915 AACTAAACACTTTATTCTATACAAATAAGGATTAAGTGTTATCAACTTATAACAATGTAAGACTT
1 AACTAAACACTTTATTCTATACAAATAAGGATTAAGTGTTATCAACTTATAACAATGTAAGACTT
14353980 TTTAGATGGACATGTGGTTATGAAAGACAAGTGTTGTTAAGTTTCAAAAAAGTAATAGGTGAAAA
66 TTTAGATGGACATGTGGTTATGAAAGACAAGTGTTGTTAAGTTTCAAAAAAGTAATAGGTGAAAA
14354045 TGACATGGAATTTCTCAAGTTTTAAAATATTTTAATATTTTTTGGCATTATTTTTTAATTTTTGC
131 TGACATGGAATTTCTCAAGTTTTAAAATATTTTAATATTTTTTGGCATTATTTTTTAATTTTTGC
*
14354110 TTGAAAAAAAAACCAAAATGATATAATTTATCTTCAGATTTGATTAGGGTTATTTTTAGAAATTG
196 TTGAAAAAAAAACCAAAATGATATAATTTATCTTCAGATTTGATTAGGGTTATTTCTAGAAATTG
*
14354175 ATTTTAAAGGCAGCAGAGCAAAGCAAGAAAGAAACGATTCCAATGCAAAAGGGAGATATCCAGTA
261 ATTTTAAAGGCAGCAGAGCAAAGCAAGAAAGAAACGATTCCAATGCAAAAGAGAGATATCCAGTA
14354240 ATATAATACAAATAATTCCAGCTTGATGTACAACAG
326 ATATAATACAAATAATTCCAGCTTGATGTACAACAG
*
14354276 AACCAAAC
1 AACTAAAC
14354284 CACAAAAAAG
Statistics
Matches: 359, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
361 165 0.46
362 7 0.02
363 187 0.52
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.34
Consensus pattern (361 bp):
AACTAAACACTTTATTCTATACAAATAAGGATTAAGTGTTATCAACTTATAACAATGTAAGACTT
TTTAGATGGACATGTGGTTATGAAAGACAAGTGTTGTTAAGTTTCAAAAAAGTAATAGGTGAAAA
TGACATGGAATTTCTCAAGTTTTAAAATATTTTAATATTTTTTGGCATTATTTTTTAATTTTTGC
TTGAAAAAAAAACCAAAATGATATAATTTATCTTCAGATTTGATTAGGGTTATTTCTAGAAATTG
ATTTTAAAGGCAGCAGAGCAAAGCAAGAAAGAAACGATTCCAATGCAAAAGAGAGATATCCAGTA
ATATAATACAAATAATTCCAGCTTGATGTACAACAG
Found at i:14360975 original size:14 final size:14
Alignment explanation
Indices: 14360956--14360984 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14360946 TATCCACCTT
14360956 TTAGCAATTTTGCA
1 TTAGCAATTTTGCA
14360970 TTAGCAATTTTGCA
1 TTAGCAATTTTGCA
14360984 T
1 T
14360985 AAAGGCAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTAGCAATTTTGCA
Found at i:14361251 original size:2 final size:2
Alignment explanation
Indices: 14361244--14361290 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
14361234 CCAACAGGTG
14361244 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14361286 CT CT C
1 CT CT C
14361291 ACACACACAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Done.