Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 86 of 93
Found at i:13867469 original size:32 final size:32
Alignment explanation
Indices: 13867433--13867505 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
13867423 TATTACATAT
13867433 AATTTTTATATAA-AATATAATATAAATATAAA
1 AATTTTTA-ATAATAATATAATATAAATATAAA
* *
13867465 AA-TTTTAATAATTTATATAATATAAATATACA
1 AATTTTTAATAA-TAATATAATATAAATATAAA
*
13867497 AATTATTAA
1 AATTTTTAA
13867506 ATCTAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 4 0.11
31 5 0.14
32 21 0.60
33 5 0.14
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (32 bp):
AATTTTTAATAATAATATAATATAAATATAAA
Found at i:13868743 original size:64 final size:62
Alignment explanation
Indices: 13868671--13868822 Score: 180
Period size: 63 Copynumber: 2.4 Consensus size: 62
13868661 GGAAGAGCTG
* ** *
13868671 AACGCCTTATTTGTTTTTATAAATATGTTGGAAAAAGCATCAAATAAGGCATTTGTTCAAAGGA
1 AACGCCTTATTTGTTTTTATAAAGAT-TTGGAAAAAAAATCAAATAAGGCATTTATTCAAA-GA
* ** * *
13868735 AATGCCTTATTTGAATTTGTAAAGATTTTGAAAAAAAATCAAATAAGGCATTTATTCAAAGA
1 AACGCCTTATTTGTTTTTATAAAGATTTGGAAAAAAAATCAAATAAGGCATTTATTCAAAGA
* *
13868797 AACGTCTTATTTGTTTTTGT-AAGATT
1 AACGCCTTATTTGTTTTTATAAAGATT
13868823 CTGAAAGATC
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
61 6 0.08
62 18 0.24
63 30 0.40
64 21 0.28
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (62 bp):
AACGCCTTATTTGTTTTTATAAAGATTTGGAAAAAAAATCAAATAAGGCATTTATTCAAAGA
Found at i:13868968 original size:111 final size:111
Alignment explanation
Indices: 13868773--13869038 Score: 344
Period size: 112 Copynumber: 2.4 Consensus size: 111
13868763 TGAAAAAAAA
* * * *
13868773 TCAAATAAGGCATTTATTCAAAGAAACGTCTTATTTG-T--TTTTGTAAGATTCTGAAAGATCGC
1 TCAAATAAGGCATTTGTTCAAAGAAATGACTTATTTGATGCTTTTGTAAGATTCTGAAAGATCAC
*
13868835 CTATCAAATAAGGCATTTGTAAAAGAAA-CATCTTATTTGAAT-GG
66 CTATCAAATAAGGCATTTGTAAAAGAAAGCACCTTATTTGAATAGG
* * *
13868879 TTCAAATTAGGCATTTGTTCAAAGAAATGACTTATTTGATGCTTTTGTATAGATTTTGGAAGATC
1 -TCAAATAAGGCATTTGTTCAAAGAAATGACTTATTTGATGCTTTTGTA-AGATTCTGAAAGATC
* ** *
13868944 ATCTATCAAATAAGGTGTTTGTAAAAGAAAGCGCCTTATTTGAATAGG
64 ACCTATCAAATAAGGCATTTGTAAAAGAAAGCACCTTATTTGAATAGG
* * *
13868992 TCAAATAAGGCGTTTGTTCAAAGAAATGCCTTATTTAATGCTTTTGT
1 TCAAATAAGGCATTTGTTCAAAGAAATGACTTATTTGATGCTTTTGT
13869039 TGCAATTAAG
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
107 33 0.24
108 1 0.01
110 7 0.05
111 39 0.28
112 55 0.40
113 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (111 bp):
TCAAATAAGGCATTTGTTCAAAGAAATGACTTATTTGATGCTTTTGTAAGATTCTGAAAGATCAC
CTATCAAATAAGGCATTTGTAAAAGAAAGCACCTTATTTGAATAGG
Found at i:13878121 original size:36 final size:36
Alignment explanation
Indices: 13878037--13878121 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 36
13878027 TTTTTTATTT
* * * *
13878037 AAACAAACTTAATCAGACAGTTATATTTTCCTGTTC
1 AAACATACTTATTCAAACAATTATATTTTCCTGTTC
* * * *
13878073 AATCATATTTATTCAAACAATTATCTTTTGCTGTTC
1 AAACATACTTATTCAAACAATTATATTTTCCTGTTC
13878109 AAACATACTTATT
1 AAACATACTTATT
13878122 TAGAATAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (36 bp):
AAACATACTTATTCAAACAATTATATTTTCCTGTTC
Found at i:13890435 original size:21 final size:23
Alignment explanation
Indices: 13890410--13890455 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
13890400 GCAGCATAAT
*
13890410 TAATTAGAAAA-ATAATA-ATAG
1 TAATTACAAAAGATAATATATAG
*
13890431 TAATTTCAAAAGATAATATATAG
1 TAATTACAAAAGATAATATATAG
13890454 TA
1 TA
13890456 GTCAGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (23 bp):
TAATTACAAAAGATAATATATAG
Found at i:13890754 original size:3 final size:3
Alignment explanation
Indices: 13890746--13890774 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13890736 CTACAACCAA
13890746 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13890775 CATCAGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13892635 original size:16 final size:17
Alignment explanation
Indices: 13892602--13892643 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
13892592 ATCATATTTA
*
13892602 TTAATT-AATTTTTAAT
1 TTAATTAAAATTTTAAT
*
13892618 TTATTTAAAATTTT-AT
1 TTAATTAAAATTTTAAT
13892634 TTAATTAAAA
1 TTAATTAAAA
13892644 AATATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAATTAAAATTTTAAT
Found at i:13893065 original size:23 final size:23
Alignment explanation
Indices: 13893022--13893066 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
13893012 GATAACTACA
*
13893022 AAAAAAATTTAAAAATGAAAAGG
1 AAAAAAATTTAAAAATAAAAAGG
* *
13893045 AAAAATATTGTAAAAAAAAAAA
1 AAAAAAATT-TAAAAATAAAAA
13893067 AATCGGATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAAAAATTTAAAAATAAAAAGG
Found at i:13893287 original size:8 final size:8
Alignment explanation
Indices: 13893274--13893299 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13893264 TTTACACGTT
13893274 AAAATATA
1 AAAATATA
13893282 AAAATATA
1 AAAATATA
13893290 AAAATATA
1 AAAATATA
13893298 AA
1 AA
13893300 TTATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATATA
Found at i:13893496 original size:29 final size:27
Alignment explanation
Indices: 13893450--13893504 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
13893440 TATACATGGA
13893450 TTTATTAAATTAAAATATCAAATAATAAT
1 TTTATTAAATTAAAATAT-AAA-AATAAT
*
13893479 TTTATT-AATATAATATATAAAAATAA
1 TTTATTAAAT-TAAAATATAAAAATAA
13893505 GTATAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTATTAAATTAAAATATAAAAATAAT
Found at i:13895582 original size:25 final size:26
Alignment explanation
Indices: 13895527--13895576 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
13895517 AAACATAAAC
*
13895527 ATTAAATAAAAACTGTTAATAGAAAT
1 ATTAAATAAAAACTGTTAATACAAAT
13895553 ATTAAATAAAAACTG-TAAT-CAAAT
1 ATTAAATAAAAACTGTTAATACAAAT
13895577 GCTTAATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 4 0.17
26 15 0.65
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (26 bp):
ATTAAATAAAAACTGTTAATACAAAT
Found at i:13895974 original size:6 final size:6
Alignment explanation
Indices: 13895959--13896060 Score: 50
Period size: 6 Copynumber: 16.7 Consensus size: 6
13895949 TTGCAAGTTT
* * *
13895959 TTTTTC TTTTTA TTTTATT TTCTTTA TTTTT- TGGTTTTA TTTTT- TGTTTA
1 TTTTTA TTTTTA TTTT-TA TT-TTTA TTTTTA T--TTTTA TTTTTA TTTTTA
* * * * *
13896009 TGTTTTA TGTTT- TTTCTA TTTTTA TTTTAA TTTCATA TTTTT- TTTTAA
1 T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
13896057 TTTT
1 TTTT
13896061 GATTAAGTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
5 12 0.17
6 38 0.53
7 19 0.26
8 3 0.04
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:13896049 original size:19 final size:17
Alignment explanation
Indices: 13896021--13896059 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
13896011 TTTTATGTTT
13896021 TTTCTATTTTTATTTTAA
1 TTTCTATTTTT-TTTTAA
13896039 TTTCATATTTTTTTTTAA
1 TTTC-TATTTTTTTTTAA
13896057 TTT
1 TTT
13896060 TGATTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTATTTTTTTTTAA
Found at i:13896228 original size:27 final size:27
Alignment explanation
Indices: 13896185--13896238 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
13896175 CATGGATTTA
*
13896185 ATTTATTTGCATAATTTATTTTTATGAT
1 ATTTATTTGCATAATTT-TTTGTATGAT
*
13896213 ATTTA-TTGCATGATTTTTTGTATGAT
1 ATTTATTTGCATAATTTTTTGTATGAT
13896239 TTTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.38
27 10 0.42
28 5 0.21
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (27 bp):
ATTTATTTGCATAATTTTTTGTATGAT
Found at i:13897441 original size:16 final size:16
Alignment explanation
Indices: 13897413--13897446 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13897403 AATATTTGTG
13897413 AAATACATAAAAAAGA
1 AAATACATAAAAAAGA
13897429 AAATA-ATAGAAAAAGA
1 AAATACATA-AAAAAGA
13897445 AA
1 AA
13897447 TAAAAAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATACATAAAAAAGA
Found at i:13898185 original size:19 final size:18
Alignment explanation
Indices: 13898161--13898216 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
13898151 TATCAAACAT
*
13898161 TTAAAAAAATGCTAAAATA
1 TTAAAAAAAT-ATAAAATA
*
13898180 TTAAAAAATATATTAAATA
1 TTAAAAAA-ATATAAAATA
*
13898199 TTAAAAAAATAAAAAATA
1 TTAAAAAAATATAAAATA
13898217 AAAAAGTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 22 0.69
20 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TTAAAAAAATATAAAATA
Found at i:13898587 original size:100 final size:101
Alignment explanation
Indices: 13898474--13898675 Score: 388
Period size: 100 Copynumber: 2.0 Consensus size: 101
13898464 TGTAACATAC
*
13898474 TTTTAATATGAAGTATATGACACAAAAAATAAAAAATCTTCAAAAATATTTATTTAATATATTAA
1 TTTTAATATGAAGTATATCACACAAAAAATAAAAAATCTTCAAAAATATTTATTTAATATATTAA
13898539 AAAATAATAAG-AAAAAAAAACATACAACATACCTT
66 AAAATAATAAGAAAAAAAAAACATACAACATACCTT
13898574 TTTTAATATGAAGTATATCACACAAAAAATAAAAAATCTTCAAAAATATTTATTTAATATATTAA
1 TTTTAATATGAAGTATATCACACAAAAAATAAAAAATCTTCAAAAATATTTATTTAATATATTAA
13898639 AAAATAATAAGAAAAAAAAAACATACAACATACCTT
66 AAAATAATAAGAAAAAAAAAACATACAACATACCTT
13898675 T
1 T
13898676 AATATTGGTA
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
100 75 0.75
101 25 0.25
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.30
Consensus pattern (101 bp):
TTTTAATATGAAGTATATCACACAAAAAATAAAAAATCTTCAAAAATATTTATTTAATATATTAA
AAAATAATAAGAAAAAAAAAACATACAACATACCTT
Found at i:13898630 original size:51 final size:51
Alignment explanation
Indices: 13898475--13898633 Score: 152
Period size: 51 Copynumber: 3.2 Consensus size: 51
13898465 GTAACATACT
*
13898475 TTTAATATGAAGTATATGACACAAAAAATAAAAAATCTTCAAAAATATTTA
1 TTTAATATGAAGTATATAACACAAAAAATAAAAAATCTTCAAAAATATTTA
* * * * * *
13898526 TTTAATAT--A-T-TAAAAAATAATAAGAA-AAAAAAACAT-ACAACATACCTTT-
1 TTTAATATGAAGTATATAACACAA-AA-AATAAAAAATCTTCA-AAAATA--TTTA
*
13898575 TTTAATATGAAGTATATCACACAAAAAATAAAAAATCTTCAAAAATATTTA
1 TTTAATATGAAGTATATAACACAAAAAATAAAAAATCTTCAAAAATATTTA
13898626 TTTAATAT
1 TTTAATAT
13898634 ATTAAAAAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
47 7 0.09
48 16 0.20
49 11 0.13
50 6 0.07
51 19 0.23
52 16 0.20
53 7 0.09
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (51 bp):
TTTAATATGAAGTATATAACACAAAAAATAAAAAATCTTCAAAAATATTTA
Found at i:13899846 original size:16 final size:16
Alignment explanation
Indices: 13899818--13899868 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
13899808 TTTCATATAT
13899818 ATTTTATTATTTATTTA
1 ATTTTA-TATTTATTTA
13899835 ATTTTATATTTATTTA
1 ATTTTATATTTATTTA
13899851 ATTATT-TATTATATTTA
1 ATT-TTATATT-TATTTA
13899868 A
1 A
13899869 AAAAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 17 0.53
17 15 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTATATTTATTTA
Found at i:13899866 original size:28 final size:28
Alignment explanation
Indices: 13899807--13899860 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
13899797 TTTTGATTCG
*
13899807 ATTTCATATATATTTTATTATTTATTTA
1 ATTTCATATATATTTAATTATTTATTTA
* *
13899835 ATTTTATATTTATTTAATTATTTATT
1 ATTTCATATATATTTAATTATTTATT
13899861 ATATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
ATTTCATATATATTTAATTATTTATTTA
Found at i:13900169 original size:10 final size:10
Alignment explanation
Indices: 13900151--13900196 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
13900141 TTTGCATTTG
*
13900151 ATATATATAT
1 ATATGTATAT
13900161 ATATGTATAT
1 ATATGTATAT
13900171 ATATGTATATGT
1 ATATGTATA--T
*
13900183 ATACGTATAT
1 ATATGTATAT
13900193 ATAT
1 ATAT
13900197 ACAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 22 0.71
12 9 0.29
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (10 bp):
ATATGTATAT
Found at i:13900198 original size:12 final size:12
Alignment explanation
Indices: 13900154--13900198 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
13900144 GCATTTGATA
*
13900154 TATATATATATG
1 TATATATATACG
13900166 TATATATAT--G
1 TATATATATACG
*
13900176 TATATGTATACG
1 TATATATATACG
13900188 TATATATATAC
1 TATATATATAC
13900199 AAAAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (12 bp):
TATATATATACG
Found at i:13900886 original size:8 final size:8
Alignment explanation
Indices: 13900873--13900913 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
13900863 TGTATATAAT
13900873 TATTTATA
1 TATTTATA
13900881 TATTTATA
1 TATTTATA
*
13900889 TATTTATT
1 TATTTATA
13900897 TAATTT-TA
1 T-ATTTATA
13900905 TATTTATA
1 TATTTATA
13900913 T
1 T
13900914 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 4 0.14
8 21 0.72
9 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATTTATA
Found at i:13900888 original size:20 final size:19
Alignment explanation
Indices: 13900854--13900907 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
13900844 TTTTCAACTC
* *
13900854 TATTTGATATGTATATAAT
1 TATTTAATATTTATATAAT
*
13900873 TATTTATATATTTATATATT
1 TATTTA-ATATTTATATAAT
13900893 TATTTAAT-TTTATAT
1 TATTTAATATTTATAT
13900908 TTATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
20 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TATTTAATATTTATATAAT
Found at i:13900896 original size:12 final size:12
Alignment explanation
Indices: 13900865--13900911 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
13900855 ATTTGATATG
*
13900865 TATATAATTATT
1 TATATATTTATT
*
13900877 TATATATTTATA
1 TATATATTTATT
*
13900889 TATTTATTTAATT
1 TATATATTT-ATT
13900902 T-TATATTTAT
1 TATATATTTAT
13900912 ATTAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 2 0.07
12 24 0.83
13 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATATTTATT
Found at i:13901072 original size:67 final size:67
Alignment explanation
Indices: 13900942--13901072 Score: 158
Period size: 67 Copynumber: 2.0 Consensus size: 67
13900932 TAATTTCAAA
* * * ** *
13900942 TCAAATTAAATTAAATATAATTTTATACAATATTAAATTGAATCAAATTCAAATATTAAAAAAAT
1 TCAAATAAAATTAAATATAATATTATACAATATAAAATCAAATCAAATTCAAATATAAAAAAAAT
13901007 CT
66 CT
* *
13901009 TCAAATAAAATTAAATTATAATATTATA-AATATAAAATCAAATCTAATTTAAAT-TAAATAAAA
1 TCAAATAAAATTAAA-TATAATATTATACAATATAAAATCAAATCAAATTCAAATATAAA-AAAA
13901072 A
64 A
13901073 ATCATCTCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 3 0.06
67 40 0.74
68 11 0.20
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (67 bp):
TCAAATAAAATTAAATATAATATTATACAATATAAAATCAAATCAAATTCAAATATAAAAAAAAT
CT
Found at i:13905170 original size:16 final size:16
Alignment explanation
Indices: 13905149--13905182 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13905139 TATATTAAAT
*
13905149 ATTAAAAAGATAAAAA
1 ATTAAAAAGAAAAAAA
*
13905165 ATTAAATAGAAAAAAA
1 ATTAAAAAGAAAAAAA
13905181 AT
1 AT
13905183 ACATTAGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
ATTAAAAAGAAAAAAA
Found at i:13905701 original size:17 final size:19
Alignment explanation
Indices: 13905668--13905705 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
13905658 AATATTTATT
13905668 AAATATATAAGAAAAAGAA
1 AAATATATAAGAAAAAGAA
13905687 AAATA-ATAA-AAAAAGAA
1 AAATATATAAGAAAAAGAA
13905704 AA
1 AA
13905706 CACGCTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 4 0.21
19 5 0.26
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (19 bp):
AAATATATAAGAAAAAGAA
Found at i:13906018 original size:11 final size:12
Alignment explanation
Indices: 13906004--13906032 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13905994 TAAAAATTTT
13906004 AAAAAAGG-AAA
1 AAAAAAGGCAAA
13906015 AAAAAAGGCAAA
1 AAAAAAGGCAAA
13906027 AAAAAA
1 AAAAAA
13906033 TCATATCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGGCAAA
Found at i:13906821 original size:20 final size:21
Alignment explanation
Indices: 13906798--13906842 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13906788 TTTTGGAAGA
*
13906798 TTCTAGGATT-ATTTGGTTTT
1 TTCTAGGATTGATTTGGATTT
*
13906818 TTCTAGGATTGTTTTGGATTT
1 TTCTAGGATTGATTTGGATTT
13906839 TTCT
1 TTCT
13906843 TGGTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (21 bp):
TTCTAGGATTGATTTGGATTT
Found at i:13907841 original size:27 final size:27
Alignment explanation
Indices: 13907811--13907862 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
13907801 TATTTTTGGC
*
13907811 TTTATTT-TTTATTTTTTCTAATTTTAT
1 TTTATTTCATTATTTTTT-TAATTTTAT
13907838 TTTATTTCATTATTTTTTTAATTTT
1 TTTATTTCATTATTTTTTTAATTTT
13907863 GATTAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTATTTCATTATTTTTTTAATTTTAT
Found at i:13908039 original size:24 final size:27
Alignment explanation
Indices: 13907983--13908036 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
13907973 ACATGGATTT
**
13907983 AATTTATTTGCATGATTTATTTTTATG
1 AATTTATTTGCATGATTTATTGGTATG
13908010 ATATTTA-TTGCATGATTT-TTGGTATG
1 A-ATTTATTTGCATGATTTATTGGTATG
13908036 A
1 A
13908037 TTTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.56
Consensus pattern (27 bp):
AATTTATTTGCATGATTTATTGGTATG
Found at i:13908065 original size:35 final size:38
Alignment explanation
Indices: 13907994--13908065 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 38
13907984 ATTTATTTGC
*
13907994 ATGATTTATTTTTATGATATTTATTGCATGATTTTTGGT
1 ATGATTTATTTTTATGATA-TTATTGCATGAATTTTGGT
13908033 ATGATTT-TTTTTAT-ATA-TATTGGCAT-AATTTTG
1 ATGATTTATTTTTATGATATTATT-GCATGAATTTTG
13908066 TTGCATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
35 10 0.32
36 4 0.13
37 3 0.10
38 7 0.23
39 7 0.23
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (38 bp):
ATGATTTATTTTTATGATATTATTGCATGAATTTTGGT
Found at i:13910303 original size:19 final size:18
Alignment explanation
Indices: 13910273--13910319 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
13910263 GTCATACATT
13910273 AAAAAATTTTAAATAATA
1 AAAAAATTTTAAATAATA
*
13910291 AAAAAATTATTAAATATTA
1 AAAAAATT-TTAAATAATA
*
13910310 AAAAGATTTT
1 AAAAAATTTT
13910320 GAGGAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAAATTTTAAATAATA
Found at i:13911434 original size:12 final size:12
Alignment explanation
Indices: 13911409--13911445 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
13911399 TTTGATTTGA
*
13911409 TATATATTTTAT
1 TATATATTTAAT
*
13911421 TATTTATTTAAT
1 TATATATTTAAT
13911433 TATATATTTAAT
1 TATATATTTAAT
13911445 T
1 T
13911446 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATATTTAAT
Found at i:13911576 original size:20 final size:18
Alignment explanation
Indices: 13911546--13911593 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
13911536 GAATTTTATC
13911546 AAATTTAAATATAAAAATT
1 AAATTTAAATAT-AAAATT
* *
13911565 AATATTTTAATATTAAATT
1 AA-ATTTAAATATAAAATT
13911584 AAATTTAAAT
1 AAATTTAAAT
13911594 TTGAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 9 0.36
20 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTAAATATAAAATT
Found at i:13912459 original size:16 final size:16
Alignment explanation
Indices: 13912418--13912480 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
13912408 GTATATAAAA
13912418 TTATTTTTAT-TATTTAT
1 TTATTTTTATATA-TT-T
13912435 TTAATTTTTTATATATTT
1 TT-A-TTTTTATATATTT
* *
13912453 TTATTTTTATTTAATT
1 TTATTTTTATATATTT
*
13912469 TTATATTTATAT
1 TTATTTTTATAT
13912481 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 21 0.54
17 3 0.08
18 4 0.10
19 9 0.23
20 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTTTATATATTT
Found at i:13912568 original size:23 final size:23
Alignment explanation
Indices: 13912538--13912590 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
13912528 AATTTTATAT
* * *
13912538 AATATTAAATTAAATTAAATTCA
1 AATATTAAATAAAATAAAATTAA
13912561 AATATTAAATAAAATAAAATTAA
1 AATATTAAATAAAATAAAATTAA
13912584 AATATTA
1 AATATTA
13912591 TAAGTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AATATTAAATAAAATAAAATTAA
Found at i:13913289 original size:18 final size:19
Alignment explanation
Indices: 13913250--13913290 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13913240 CATTACTTTC
*
13913250 CTAATTCTATTTTTAATCA
1 CTAATTCTATTTATAATCA
13913269 CTAATCTCT-TTTATAAT-A
1 CTAAT-TCTATTTATAATCA
13913287 CTAA
1 CTAA
13913291 ATGAAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 12 0.60
20 3 0.15
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (19 bp):
CTAATTCTATTTATAATCA
Found at i:13921238 original size:15 final size:13
Alignment explanation
Indices: 13921205--13921259 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 13
13921195 TGTAAATTCT
13921205 ATATAAA-ATATA
1 ATATAAATATATA
13921217 ATATAAATATATAA
1 ATATAAATATAT-A
* *
13921231 ATTATAAATATTTT
1 A-TATAAATATATA
13921245 ATAT-AATATA-A
1 ATATAAATATATA
13921256 ATAT
1 ATAT
13921260 TTGAATTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 4 0.11
12 12 0.33
13 7 0.19
14 3 0.08
15 10 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATAAATATATA
Found at i:13921260 original size:18 final size:18
Alignment explanation
Indices: 13921212--13921261 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
13921202 TCTATATAAA
13921212 ATATAATATAAATA---T
1 ATATAATATAAATATTTT
13921227 ATA-AATTATAAATATTTT
1 ATATAA-TATAAATATTTT
13921245 ATATAATATAAATATTT
1 ATATAATATAAATATTT
13921262 GAATTGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.07
15 11 0.37
18 15 0.50
19 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATATAAATATTTT
Found at i:13924738 original size:3 final size:3
Alignment explanation
Indices: 13924730--13924769 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
13924720 CAAATCCAAT
13924730 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
13924770 GATCAATTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:13927958 original size:10 final size:10
Alignment explanation
Indices: 13927945--13927973 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13927935 GATATTTATA
13927945 TTTTTTAAT-
1 TTTTTTAATG
13927954 TTTTTTAATG
1 TTTTTTAATG
13927964 TTTTTTAATG
1 TTTTTTAATG
13927974 AACTGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (10 bp):
TTTTTTAATG
Found at i:13928871 original size:22 final size:24
Alignment explanation
Indices: 13928823--13928875 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
13928813 AAAAAAATTG
* *
13928823 AATTTTATTATTTTATTTAAATAA
1 AATTTTATTATTTTAGTCAAATAA
*
13928847 AATTTTA-TATTTT-GTCAAATGA
1 AATTTTATTATTTTAGTCAAATAA
13928869 AATTTTA
1 AATTTTA
13928876 GTTCAGTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 13 0.50
23 6 0.23
24 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
AATTTTATTATTTTAGTCAAATAA
Found at i:13928994 original size:21 final size:23
Alignment explanation
Indices: 13928954--13928996 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
13928944 ATTGTTTAAT
13928954 TAAACTATAATTTATTAATTATA
1 TAAACTATAATTTATTAATTATA
*
13928977 TAAA-TATGATTT-TTAATTAT
1 TAAACTATAATTTATTAATTAT
13928997 CCATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TAAACTATAATTTATTAATTATA
Found at i:13929045 original size:29 final size:31
Alignment explanation
Indices: 13929008--13929075 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
13928998 CATATAATTA
13929008 AAAATTATTATAC-TTTTA-TTACATTTAAAT
1 AAAATTATTAT-CTTTTTATTTACATTTAAAT
* *
13929038 -AAATTATTGTCTTTTTATTTATATTTAAAT
1 AAAATTATTATCTTTTTATTTACATTTAAAT
13929068 AAAATTAT
1 AAAATTAT
13929076 AATATTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 14 0.42
30 11 0.33
31 7 0.21
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (31 bp):
AAAATTATTATCTTTTTATTTACATTTAAAT
Found at i:13929610 original size:17 final size:17
Alignment explanation
Indices: 13929570--13929617 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
13929560 TTTAATTTGT
13929570 ATTTAAATAAAAATTTA
1 ATTTAAATAAAAATTTA
* * * *
13929587 ATATAAATTAATATTTC
1 ATTTAAATAAAAATTTA
13929604 ATTTAAAATAAAAA
1 ATTT-AAATAAAAA
13929618 GTTTTTGAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATAAAAATTTA
Found at i:13929643 original size:28 final size:25
Alignment explanation
Indices: 13929620--13929674 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 25
13929610 AATAAAAAGT
13929620 TTTTGAATATAAATATAAATTAAAAAA
1 TTTT-AATAT-AATATAAATTAAAAAA
13929647 TTTTAATATAATA-AAATTATAAAAA
1 TTTTAATATAATATAAATTA-AAAAA
13929672 TTT
1 TTT
13929675 ATATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 6 0.22
25 12 0.44
26 5 0.19
27 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TTTTAATATAATATAAATTAAAAAA
Found at i:13929660 original size:23 final size:21
Alignment explanation
Indices: 13929632--13929693 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 21
13929622 TTGAATATAA
13929632 ATATAAATTAAAAAATTTTAAT
1 ATATAAATTAAAAAATTTT-AT
13929654 ATAATAAAATTATAAAAA-TTTAT
1 AT-AT-AAATTA-AAAAATTTTAT
13929677 ATA-AAATTAAAATAATT
1 ATATAAATTAAAA-AATT
13929694 CAAAAAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
19 3 0.09
20 8 0.23
21 1 0.03
22 3 0.09
23 6 0.17
24 9 0.26
25 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATAAATTAAAAAATTTTAT
Found at i:13946304 original size:14 final size:15
Alignment explanation
Indices: 13946239--13946314 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 15
13946229 TATTCAAAAT
13946239 AATTTTAATAAA-TA
1 AATTTTAATAAATTA
*
13946253 AATATTAATAAATTTTA
1 AATTTTAATAAA--TTA
13946270 AATTTT-A-AAATT-
1 AATTTTAATAAATTA
**
13946282 TTTTATTAA-AAATTA
1 AATT-TTAATAAATTA
*
13946297 AATTTTAATCAATTA
1 AATTTTAATAAATTA
13946312 AAT
1 AAT
13946315 CAAATACATA
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
12 2 0.04
13 4 0.08
14 21 0.44
15 13 0.27
16 1 0.02
17 7 0.15
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTTAATAAATTA
Found at i:13947997 original size:30 final size:30
Alignment explanation
Indices: 13947963--13948021 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13947953 TAAATAAATT
13947963 TAATA-AAATTAAAAAATATATATTTTTATG
1 TAATATAAATTAAAAAATATA-ATTTTTATG
* * *
13947993 TAATATGAATTATAACATATAATTTTTAT
1 TAATATAAATTAAAAAATATAATTTTTAT
13948022 ATAAAATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (30 bp):
TAATATAAATTAAAAAATATAATTTTTATG
Found at i:13950583 original size:2 final size:2
Alignment explanation
Indices: 13950576--13950610 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13950566 GAGACTAGGT
13950576 TC TC TC TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13950611 AAAATTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:13951141 original size:36 final size:36
Alignment explanation
Indices: 13951101--13951172 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
13951091 TTGGTGAGTG
*
13951101 AGTTGGAGGCTTGGTTGGAGGATGAACAGGTGGCTT
1 AGTTGGAGGCTTGGTCGGAGGATGAACAGGTGGCTT
* * *
13951137 AGTTGGTGGCTTGGTCGGAGGGTGAACTGGTGGCTT
1 AGTTGGAGGCTTGGTCGGAGGATGAACAGGTGGCTT
13951173 GGGTGGACCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.15, C:0.10, G:0.46, T:0.29
Consensus pattern (36 bp):
AGTTGGAGGCTTGGTCGGAGGATGAACAGGTGGCTT
Found at i:13951172 original size:24 final size:24
Alignment explanation
Indices: 13951140--13951250 Score: 116
Period size: 24 Copynumber: 4.6 Consensus size: 24
13951130 GTGGCTTAGT
*
13951140 TGGTGGCTTGGTCGGAGGGTGAAC
1 TGGTGGCTTGGTTGGAGGGTGAAC
* ** *
13951164 TGGTGGCTTGGGTGGACCGT-AAGT
1 TGGTGGCTTGGTTGGAGGGTGAA-C
* * *
13951188 TGGCGGTTTGGTTGGTGGGTGAAC
1 TGGTGGCTTGGTTGGAGGGTGAAC
*
13951212 TGGTGGCTTGGTTGGCGGGTGAAC
1 TGGTGGCTTGGTTGGAGGGTGAAC
*
13951236 TGGGGGCTTGGTTGG
1 TGGTGGCTTGGTTGG
13951251 TGGATAAACT
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
23 2 0.03
24 65 0.94
25 2 0.03
ACGTcount: A:0.09, C:0.11, G:0.50, T:0.30
Consensus pattern (24 bp):
TGGTGGCTTGGTTGGAGGGTGAAC
Found at i:13951247 original size:48 final size:48
Alignment explanation
Indices: 13951144--13951263 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 48
13951134 CTTAGTTGGT
* * *
13951144 GGCTTGGTCGGAGGGTGAACTGGTGGCTTGGGTGGACCGTAAGTTGGC
1 GGCTTGGTTGGTGGGTGAACTGGTGGCTTGGGTGGACCGTAAGCTGGC
* * * *
13951192 GGTTTGGTTGGTGGGTGAACTGGTGGCTTGGTTGG-CGGGTGAA-CTGGG
1 GGCTTGGTTGGTGGGTGAACTGGTGGCTTGGGTGGAC-CGT-AAGCTGGC
* *
13951240 GGCTTGGTTGGTGGATAAACTGGT
1 GGCTTGGTTGGTGGGTGAACTGGT
13951264 TCAGGAATCG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 1 0.02
48 57 0.95
49 2 0.03
ACGTcount: A:0.12, C:0.11, G:0.48, T:0.29
Consensus pattern (48 bp):
GGCTTGGTTGGTGGGTGAACTGGTGGCTTGGGTGGACCGTAAGCTGGC
Found at i:13951260 original size:24 final size:24
Alignment explanation
Indices: 13951195--13951262 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
13951185 AGTTGGCGGT
*
13951195 TTGGTTGGTGGGTGAACTGGTGGC
1 TTGGTTGGTGGGTGAACTGGGGGC
*
13951219 TTGGTTGGCGGGTGAACTGGGGGC
1 TTGGTTGGTGGGTGAACTGGGGGC
* *
13951243 TTGGTTGGTGGATAAACTGG
1 TTGGTTGGTGGGTGAACTGG
13951263 TTCAGGAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.12, C:0.09, G:0.49, T:0.31
Consensus pattern (24 bp):
TTGGTTGGTGGGTGAACTGGGGGC
Found at i:13955985 original size:24 final size:24
Alignment explanation
Indices: 13955927--13955993 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 24
13955917 TTTCGACGAG
* * * *
13955927 ATTAAAAATAATGATAATGATGAA
1 ATTAAAATTAATTATAATAATAAA
13955951 ATT--AATT-ATTATAATAATAAA
1 ATTAAAATTAATTATAATAATAAA
*
13955972 ATTAAAATTAATTATAAAAATA
1 ATTAAAATTAATTATAATAATA
13955994 TGTTTAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 14 0.40
22 3 0.09
23 4 0.11
24 14 0.40
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
ATTAAAATTAATTATAATAATAAA
Found at i:13956909 original size:95 final size:95
Alignment explanation
Indices: 13956746--13956920 Score: 253
Period size: 95 Copynumber: 1.8 Consensus size: 95
13956736 TAATTTTTAT
* **
13956746 TGAAATTTGCATGCCCATACAAGGCCTTTGTCAACGAACCAGTAAATCAAGCCTTTTCCAATCAA
1 TGAAATTTGCATCCCCATACAAGGCCTTTGTCAACGAACCAACAAATCAAGCCTTTTCCAATCAA
*
13956811 TCTTCTACTCTAAAGTCCAATTCTATAAGC
66 TCTTCCACTCTAAAGTCCAATTCTATAAGC
* ** *
13956841 TGAAATTTGCGTCCCCATACAAGTTCTTTGTCAAC-AGACCAACAAATCAAGCCTTTTCCGATCA
1 TGAAATTTGCATCCCCATACAAGGCCTTTGTCAACGA-ACCAACAAATCAAGCCTTTTCCAATCA
*
13956905 ATCTTCCAGTCTAAAG
65 ATCTTCCACTCTAAAG
13956921 CCTAATCCTG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 69 0.99
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (95 bp):
TGAAATTTGCATCCCCATACAAGGCCTTTGTCAACGAACCAACAAATCAAGCCTTTTCCAATCAA
TCTTCCACTCTAAAGTCCAATTCTATAAGC
Found at i:13959811 original size:13 final size:14
Alignment explanation
Indices: 13959793--13959821 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13959783 AAATAATTAC
13959793 AAAATTATA-ATAA
1 AAAATTATAGATAA
13959806 AAAATTATAGATAA
1 AAAATTATAGATAA
13959820 AA
1 AA
13959822 TGCTCTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAATTATAGATAA
Found at i:13960530 original size:13 final size:13
Alignment explanation
Indices: 13960498--13960540 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
13960488 TATGTCGTAC
13960498 ATAATAATTTAAA
1 ATAATAATTTAAA
13960511 ATAAATAA-TTATAA
1 AT-AATAATTTA-AA
13960525 ATAATACATTTAAA
1 ATAATA-ATTTAAA
13960539 AT
1 AT
13960541 GATCTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 9 0.35
14 14 0.54
15 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATTTAAA
Found at i:13961326 original size:39 final size:36
Alignment explanation
Indices: 13961249--13961326 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 36
13961239 TATATGTATT
* *
13961249 AATAATTTAAAATAAATAATCATAAATTATATTTAA
1 AATAATTTAAAATAAATAATCATAAATTAAATTAAA
*
13961285 AATAATTT-TAATAAATAATCATATAAAATTTAAATTAAA
1 AATAATTTAAAATAAATAATC--AT-AAA-TTAAATTAAA
13961324 AAT
1 AAT
13961327 TTTTTCGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 11 0.31
36 8 0.23
37 2 0.06
38 3 0.09
39 11 0.31
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (36 bp):
AATAATTTAAAATAAATAATCATAAATTAAATTAAA
Found at i:13965328 original size:25 final size:24
Alignment explanation
Indices: 13965286--13965347 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
13965276 ATTTTTTATT
*
13965286 TTTGATCATATAATATATCAAATTGA
1 TTTGAT-ATAT-ATATATCAAATTAA
*
13965312 TTTGATATATATGATATCATATTAA
1 TTTGATATATAT-ATATCAAATTAA
*
13965337 TTTAAT-TATAT
1 TTTGATATATAT
13965348 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 7 0.22
25 19 0.59
26 6 0.19
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTGATATATATATATCAAATTAA
Found at i:13966639 original size:15 final size:17
Alignment explanation
Indices: 13966612--13966653 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
13966602 TGAAAATAAA
13966612 AAAAAATTATAAATAT-
1 AAAAAATTATAAATATC
*
13966628 AAAAAATT-TAAATTTC
1 AAAAAATTATAAATATC
13966644 AAAAAATTAT
1 AAAAAATTAT
13966654 TTGTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 16 0.70
17 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATTATAAATATC
Found at i:13971381 original size:12 final size:12
Alignment explanation
Indices: 13971350--13971408 Score: 63
Period size: 11 Copynumber: 5.2 Consensus size: 12
13971340 TTGTTCAATT
13971350 TATTAATTTTAAA
1 TATT-ATTTTAAA
*
13971363 T-TTATTTTATA
1 TATTATTTTAAA
13971374 TATTATTTT-AA
1 TATTATTTTAAA
*
13971385 TAATATTTTAAA
1 TATTATTTTAAA
13971397 TA-TA-TTTAAA
1 TATTATTTTAAA
13971407 TA
1 TA
13971409 AATTTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 8 0.20
11 19 0.46
12 13 0.32
13 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTTTAAA
Found at i:13975276 original size:95 final size:95
Alignment explanation
Indices: 13975113--13975305 Score: 332
Period size: 95 Copynumber: 2.0 Consensus size: 95
13975103 TCAAACCAAA
* * *
13975113 ATAATATGTTGAAGGTCTGTCATCACTTGACAAATTAAACCCCACCAAGATAAAGCAAGGGAATT
1 ATAATATGTTAAAGGCCTGTCATCACTTGACAAATTAAACCCCAACAAGATAAAGCAAGGGAATT
* *
13975178 AATGTTCTTTGTTTTAATTATTATATTTAT
66 AATGTTCTTCGTTTTAATTATTACATTTAT
*
13975208 ATAATATGTTAAAGGCCTGTCATCTCTTGACAAATTAAACCCCAACAAGATAAAGCAAGGGAATT
1 ATAATATGTTAAAGGCCTGTCATCACTTGACAAATTAAACCCCAACAAGATAAAGCAAGGGAATT
13975273 AATGTTCTTCGTTTTAATTATTACATTTAT
66 AATGTTCTTCGTTTTAATTATTACATTTAT
13975303 ATA
1 ATA
13975306 CCTGATGGGA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (95 bp):
ATAATATGTTAAAGGCCTGTCATCACTTGACAAATTAAACCCCAACAAGATAAAGCAAGGGAATT
AATGTTCTTCGTTTTAATTATTACATTTAT
Found at i:13984220 original size:10 final size:10
Alignment explanation
Indices: 13984201--13984243 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
13984191 AATTGAAGAA
13984201 TTATATATTT
1 TTATATATTT
13984211 TTAT-TAATTT
1 TTATAT-ATTT
13984221 TTATATATTT
1 TTATATATTT
13984231 TTA-AT-TTT
1 TTATATATTT
13984239 TTATA
1 TTATA
13984244 AAATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 6 0.20
9 4 0.13
10 19 0.63
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATATATTT
Found at i:13989541 original size:19 final size:19
Alignment explanation
Indices: 13989517--13989556 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13989507 ATGGATCGAA
13989517 ATAGATTTATATTGAGTTT
1 ATAGATTTATATTGAGTTT
13989536 ATAGATTTATATTGAGTTT
1 ATAGATTTATATTGAGTTT
13989555 AT
1 AT
13989557 GTTTGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (19 bp):
ATAGATTTATATTGAGTTT
Found at i:13989721 original size:15 final size:16
Alignment explanation
Indices: 13989701--13989737 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
13989691 AATAAAAAAT
*
13989701 TTTAATTTAATTTA-A
1 TTTAATTAAATTTATA
13989716 TTTAA-TAAATTTATA
1 TTTAATTAAATTTATA
13989731 TTTAATT
1 TTTAATT
13989738 CATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 11 0.58
16 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAATTAAATTTATA
Found at i:13989749 original size:28 final size:28
Alignment explanation
Indices: 13989718--13989820 Score: 66
Period size: 32 Copynumber: 3.5 Consensus size: 28
13989708 TAATTTAATT
13989718 TAATAAATTTATATTTAATTCATATATA
1 TAATAAATTTATATTTAATTCATATATA
* * **
13989746 TAAT--TTTTATTTTTAATTTTTGTATATA
1 TAATAAATTTATATTTAA--TTCATATATA
* * *
13989774 CTAATTAATTTATATATAGTTGCATATACATAA
1 -TAATAAATTTATATTTAATT-CATAT--AT-A
13989807 TAATAAATTTATAT
1 TAATAAATTTATAT
13989821 ATATAAATTC
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
26 10 0.18
28 12 0.22
29 6 0.11
30 3 0.05
31 8 0.15
32 15 0.27
33 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (28 bp):
TAATAAATTTATATTTAATTCATATATA
Found at i:13990784 original size:20 final size:20
Alignment explanation
Indices: 13990759--13990796 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13990749 GAGAAAAGTA
13990759 TGATTAAGATTTA-ATTTTGC
1 TGATTAA-ATTTACATTTTGC
13990779 TGATTAAATTTACATTTT
1 TGATTAAATTTACATTTT
13990797 CCTTTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (20 bp):
TGATTAAATTTACATTTTGC
Found at i:13992131 original size:105 final size:105
Alignment explanation
Indices: 13991949--13992150 Score: 395
Period size: 105 Copynumber: 1.9 Consensus size: 105
13991939 GATGGACAGA
13991949 TTTTCAATGAAATTCTCCTCCATTAATGCTGCTTTAATTGTTGTTTCTACTTGGTTCTTTATGCT
1 TTTTCAATGAAATTCTCCTCCATTAATGCTGCTTTAATTGTTGTTTCTACTTGGTTCTTTATGCT
13992014 AACATCTTTGATAACTAATGCCCACTGTCTATAGAATAGG
66 AACATCTTTGATAACTAATGCCCACTGTCTATAGAATAGG
13992054 TTTTCAATGAAATTCTCCTCCATTAATGCTGCTTTAATTGTTGTTTCTACTTGGTTCTTTATGCT
1 TTTTCAATGAAATTCTCCTCCATTAATGCTGCTTTAATTGTTGTTTCTACTTGGTTCTTTATGCT
*
13992119 AACATCTTTGATAACTAATGCCTACTGTCTAT
66 AACATCTTTGATAACTAATGCCCACTGTCTAT
13992151 CCGAGTTCTT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (105 bp):
TTTTCAATGAAATTCTCCTCCATTAATGCTGCTTTAATTGTTGTTTCTACTTGGTTCTTTATGCT
AACATCTTTGATAACTAATGCCCACTGTCTATAGAATAGG
Found at i:13992909 original size:5 final size:5
Alignment explanation
Indices: 13992896--13992942 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
13992886 ATTATAGTAG
* *
13992896 AATAT AATAA AATAA TATTATA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA -AATA-A AATAA AATAA AATAA AATAA AATAA
13992943 TTTTATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 30 0.81
6 6 0.16
7 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (5 bp):
AATAA
Found at i:13998501 original size:13 final size:12
Alignment explanation
Indices: 13998483--13998544 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 12
13998473 TAGAATTTCC
13998483 TTTGTTTGTTAAT
1 TTTGTTT-TTAAT
*
13998496 TTTGTTATTTATTT
1 TTTGTT-TTTA-AT
13998510 TTTGTTTTTAAT
1 TTTGTTTTTAAT
* *
13998522 TTTTTTTGTTACT
1 TTTGTTT-TTAAT
13998535 TTCTGTTTTT
1 TT-TGTTTTT
13998545 TTTTTTATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
12 7 0.17
13 21 0.52
14 12 0.30
ACGTcount: A:0.11, C:0.03, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTGTTTTTAAT
Found at i:13998953 original size:15 final size:15
Alignment explanation
Indices: 13998933--13998964 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13998923 AATATGATAC
*
13998933 AAAAATAATATAAAT
1 AAAAATAATAAAAAT
13998948 AAAAATAATAAAAAT
1 AAAAATAATAAAAAT
13998963 AA
1 AA
13998965 TGTAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:13998960 original size:24 final size:24
Alignment explanation
Indices: 13998933--13999022 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 24
13998923 AATATGATAC
13998933 AAAAATAATATAAATAAAAATAAT
1 AAAAATAATATAAATAAAAATAAT
* * *
13998957 AAAAATAATGTAATTTAAAATTTTAAT
1 AAAAATAATATAA-ATAAAA--ATAAT
**
13998984 AAAAAT--TATAAATAAATTTAAT
1 AAAAATAATATAAATAAAAATAAT
13999006 -AAAATAA-A-AAATAAAAA
1 AAAAATAATATAAATAAAAA
13999023 ATTTATAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
21 12 0.23
22 6 0.11
24 16 0.30
25 9 0.17
27 10 0.19
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (24 bp):
AAAAATAATATAAATAAAAATAAT
Found at i:13999017 original size:21 final size:22
Alignment explanation
Indices: 13998978--13999020 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
13998968 AATTTAAAAT
* *
13998978 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATAAAAAATAAA
13999000 TTTAAT-AAAATAAAAAATAAA
1 TTTAATAAAAATAAAAAATAAA
13999021 AAATTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAATAAA
Found at i:14000969 original size:2 final size:2
Alignment explanation
Indices: 14000962--14001011 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
14000952 TGAGGCCCTT
14000962 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14001003 TA TA TA TA T
1 TA TA TA TA T
14001012 CTAAACTCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14004057 original size:4 final size:4
Alignment explanation
Indices: 14004048--14004078 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
14004038 TTGTCTAATA
14004048 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
14004079 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:14004083 original size:2 final size:2
Alignment explanation
Indices: 14004076--14004108 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14004066 TCTATCTATC
14004076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14004109 TACCCTAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14006367 original size:2 final size:2
Alignment explanation
Indices: 14006360--14006405 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
14006350 AGGTTTTCTT
* * * *
14006360 TG TG TG TG TA TG AG TG TG TG AG TG TG TG AG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14006402 TG TG
1 TG TG
14006406 AGAGAGAGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.09, C:0.00, G:0.48, T:0.43
Consensus pattern (2 bp):
TG
Found at i:14006401 original size:16 final size:16
Alignment explanation
Indices: 14006360--14006403 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
14006350 AGGTTTTCTT
*
14006360 TGTGTGTGTATGAGTG
1 TGTGTGTGTGTGAGTG
*
14006376 TGTGAGTGTGTGAGTG
1 TGTGTGTGTGTGAGTG
14006392 TGTGTGTGTGTG
1 TGTGTGTGTGTG
14006404 TGAGAGAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.48, T:0.43
Consensus pattern (16 bp):
TGTGTGTGTGTGAGTG
Found at i:14010997 original size:18 final size:18
Alignment explanation
Indices: 14010974--14011023 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
14010964 TCACGTGTTA
14010974 TTTTTAAAAATAAAAAAT
1 TTTTTAAAAATAAAAAAT
*
14010992 TTTTTAAAAATCAAAAAT
1 TTTTTAAAAATAAAAAAT
14011010 TTTTT-AAAATAAAA
1 TTTTTAAAAATAAAA
14011024 TTTTTAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTTTAAAAATAAAAAAT
Found at i:14011035 original size:17 final size:16
Alignment explanation
Indices: 14010973--14011039 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
14010963 GTCACGTGTT
*
14010973 ATTTTTAAAAATAAAAA
1 ATTTTTAAAAA-ATAAA
*
14010990 ATTTTTTAAAAATCAAAA
1 ATTTTTAAAAAAT--AAA
*
14011008 ATTTTT-TAAAATAAA
1 ATTTTTAAAAAATAAA
*
14011023 ATTTTTAAGAAA-AAA
1 ATTTTTAAAAAATAAA
14011038 AT
1 AT
14011040 GTATTTTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 14 0.33
16 4 0.10
17 15 0.36
18 9 0.21
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (16 bp):
ATTTTTAAAAAATAAA
Found at i:14013697 original size:24 final size:24
Alignment explanation
Indices: 14013670--14013716 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14013660 TTAAGAAGCC
*
14013670 AGAGAAGAT-TGCTGCCCCTGTTTA
1 AGAG-AGATATGCTCCCCCTGTTTA
*
14013694 AGAGAGATATTCTCCCCCTGTTT
1 AGAGAGATATGCTCCCCCTGTTT
14013717 GAGTGGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (24 bp):
AGAGAGATATGCTCCCCCTGTTTA
Found at i:14021666 original size:22 final size:21
Alignment explanation
Indices: 14021604--14021666 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 21
14021594 TAATATATGA
*
14021604 TATTATAAAATTATAA--AATT
1 TATTTTAAAATTA-AATGAATT
* *
14021624 TATTTTAAATTTAAATTAATT
1 TATTTTAAAATTAAATGAATT
14021645 T-TTTTAAAAATTAATATGAATT
1 TATTTT-AAAATTAA-ATGAATT
14021667 GAATTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.06
20 15 0.43
21 12 0.34
22 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTTAAAATTAAATGAATT
Found at i:14021688 original size:15 final size:13
Alignment explanation
Indices: 14021668--14021775 Score: 53
Period size: 14 Copynumber: 8.2 Consensus size: 13
14021658 ATATGAATTG
*
14021668 AATTAAATTTTATA
1 AATTTAATTTT-TA
14021682 AATTTAATTTTTA
1 AATTTAATTTTTA
** *
14021695 AATCCATTTGATTTA
1 AATTTAATT--TTTA
*
14021710 AATTAAATTTTATA
1 AATTTAATTTT-TA
14021724 AATTTAA--TTT-
1 AATTTAATTTTTA
14021734 AATTTGAATTTATTA
1 AATTT-AATTT-TTA
* *
14021749 ATTTTTATTTTT-
1 AATTTAATTTTTA
* *
14021761 ATTTTTATTTTTA
1 AATTTAATTTTTA
14021774 AA
1 AA
14021776 ATATTATTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
10 5 0.07
11 3 0.04
12 14 0.19
13 14 0.19
14 24 0.32
15 14 0.19
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
AATTTAATTTTTA
Found at i:14021690 original size:14 final size:14
Alignment explanation
Indices: 14021668--14021733 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
14021658 ATATGAATTG
14021668 AATTAAATTTTATA
1 AATTAAATTTTATA
*
14021682 AATTTAATTTT-TA
1 AATTAAATTTTATA
** *
14021695 AA-TCCATTTGATTTA
1 AATTAAATTT--TATA
14021710 AATTAAATTTTATA
1 AATTAAATTTTATA
*
14021724 AATTTAATTT
1 AATTAAATTT
14021734 AATTTGAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
12 5 0.12
13 4 0.10
14 23 0.56
15 4 0.10
16 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (14 bp):
AATTAAATTTTATA
Found at i:14021734 original size:25 final size:24
Alignment explanation
Indices: 14021700--14021752 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
14021690 TTTTAAATCC
*
14021700 ATTTGATTTAAATTAAATTTTATAA
1 ATTTAATTTAAATTAAA-TTTATAA
* * *
14021725 ATTTAATTTAATTTGAATTTATTA
1 ATTTAATTTAAATTAAATTTATAA
14021749 ATTT
1 ATTT
14021753 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTAATTTAAATTAAATTTATAA
Found at i:14021765 original size:5 final size:6
Alignment explanation
Indices: 14021749--14021773 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14021739 GAATTTATTA
14021749 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
14021774 AAATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:14021795 original size:25 final size:22
Alignment explanation
Indices: 14021767--14021819 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 22
14021757 TTTTATTTTT
*
14021767 ATTTTTAAAATATTATTTTAATAAA
1 ATTTTT-AAATA-TATTTAAAT-AA
14021792 ATTTTT-AATATATTTAAATAA
1 ATTTTTAAATATATTTAAATAA
14021813 ATTTTTA
1 ATTTTTA
14021820 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 4 0.15
25 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTAAATATATTTAAATAA
Found at i:14021811 original size:22 final size:22
Alignment explanation
Indices: 14021775--14021828 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
14021765 TTATTTTTAA
*
14021775 AATATTATTTTAATAAAATTTTT
1 AATATTATTTAAAT-AAATTTTT
14021798 AATA-TATTTAAATAAATTTTT
1 AATATTATTTAAATAAATTTTT
* *
14021819 ATTTTTATTT
1 AATATTATTT
14021829 TATAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.37
22 13 0.48
23 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATATTATTTAAATAAATTTTT
Found at i:14022951 original size:11 final size:11
Alignment explanation
Indices: 14022914--14022986 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
14022904 TTTATAAATT
14022914 ATTTAAATTTA
1 ATTTAAATTTA
* **
14022925 ATTAAAATAAA
1 ATTTAAATTTA
14022936 ATTTAAATTTA
1 ATTTAAATTTA
*
14022947 TTTTAATTATTATTA
1 ATTTAA--A-T-TTA
14022962 ATTTAAATTTA
1 ATTTAAATTTA
*
14022973 A-AT-AATTTA
1 ATTTAAATTTA
14022982 ATTTA
1 ATTTA
14022987 CCGATTAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
9 7 0.15
10 2 0.04
11 25 0.54
12 1 0.02
13 2 0.04
14 1 0.02
15 8 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:14023021 original size:22 final size:20
Alignment explanation
Indices: 14022999--14023059 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
14022989 GATTAAATTA
14022999 AATTAAATTATTTTTATATTT
1 AATTAAA-TATTTTTATATTT
* *
14023020 AATTCAAATAATTTATAAATTT
1 AATT-AAAT-ATTTTTATATTT
14023042 AATTAAA-A-TTTTATATTT
1 AATTAAATATTTTTATATTT
14023060 TAGTTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 8 0.24
19 1 0.03
21 8 0.24
22 17 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTAAATATTTTTATATTT
Found at i:14023036 original size:20 final size:18
Alignment explanation
Indices: 14023011--14023059 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
14023001 TTAAATTATT
14023011 TTTATATTTAATTCAAATAA
1 TTTATATTTAATT-AAA-AA
*
14023031 TTTATAAATTTAATTAAAAT
1 TTTAT--ATTTAATTAAAAA
14023051 TTTATATTT
1 TTTATATTT
14023060 TAGTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.15
20 11 0.42
21 3 0.12
22 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATATTTAATTAAAAA
Found at i:14023153 original size:23 final size:24
Alignment explanation
Indices: 14023091--14023160 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
14023081 TATTTTAAAT
*
14023091 TTAAATATAAATAATTAAATTTTTA
1 TTAAATAT-AATAATTAAATTTATA
*
14023116 TTAAATATAAAAATTAAATTTAT-
1 TTAAATATAATAATTAAATTTATA
* * *
14023139 TTATATATATTAATTAAGTTTA
1 TTAAATATAATAATTAAATTTA
14023161 ATAAAACGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 18 0.46
24 13 0.33
25 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TTAAATATAATAATTAAATTTATA
Found at i:14023206 original size:11 final size:11
Alignment explanation
Indices: 14023192--14023252 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
14023182 TAATTTTTAT
14023192 TTTAAATTAAA
1 TTTAAATTAAA
14023203 TTTAAATTAAA
1 TTTAAATTAAA
* * *
14023214 --AAAATCAGA
1 TTTAAATTAAA
14023223 TTT-AATTAAA
1 TTTAAATTAAA
14023233 TTTAAATTAAA
1 TTTAAATTAAA
14023244 TTTCAAATT
1 TTT-AAATT
14023253 TTAAATTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 6 0.15
10 8 0.20
11 21 0.52
12 5 0.12
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:14023258 original size:14 final size:13
Alignment explanation
Indices: 14023228--14023265 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
14023218 TCAGATTTAA
14023228 TTAAATTT-AAA-
1 TTAAATTTCAAAT
14023239 TTAAATTTCAAATT
1 TTAAATTTCAAA-T
14023253 TTAAATTTCAAAT
1 TTAAATTTCAAAT
14023266 CTAATGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 1 0.04
14 12 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAATTTCAAAT
Found at i:14026474 original size:13 final size:13
Alignment explanation
Indices: 14026456--14026480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14026446 TAATCTATTA
14026456 ATTTTAATTTTTT
1 ATTTTAATTTTTT
14026469 ATTTTAATTTTT
1 ATTTTAATTTTT
14026481 ACTTATTCAT
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:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:14028040 original size:20 final size:21
Alignment explanation
Indices: 14028017--14028057 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14028007 ATAAATATTT
* *
14028017 TATATTTAAATTTAT-TTAAA
1 TATATTAAAAATTATATTAAA
14028037 TATATTAAAAATTATATTAAA
1 TATATTAAAAATTATATTAAA
14028058 ACAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAA
Found at i:14031914 original size:2 final size:2
Alignment explanation
Indices: 14031907--14031944 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14031897 GATTATTCTT
14031907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14031945 AGTAGATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14037887 original size:20 final size:20
Alignment explanation
Indices: 14037864--14037902 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14037854 ATTAAATTAT
14037864 ATATATTTTAATTTTTATAC
1 ATATATTTTAATTTTTATAC
*
14037884 ATATTTTTTAATTTTTATA
1 ATATATTTTAATTTTTATA
14037903 AAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATATTTTAATTTTTATAC
Found at i:14039333 original size:18 final size:18
Alignment explanation
Indices: 14039306--14039360 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
14039296 TCATGAAAAT
*
14039306 TATAACATATAATTTTAA
1 TATAAAATATAATTTTAA
* *
14039324 TATAAAATATAATATAAA
1 TATAAAATATAATTTTAA
*
14039342 TAT-ATATA-AATTTTAA
1 TATAAAATATAATTTTAA
14039358 TAT
1 TAT
14039361 TTTATATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 9 0.29
17 4 0.13
18 18 0.58
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAAATATAATTTTAA
Found at i:14039338 original size:12 final size:12
Alignment explanation
Indices: 14039321--14039375 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
14039311 CATATAATTT
14039321 TAATATAAAATA
1 TAATATAAAATA
14039333 TAATAT-AAATA
1 TAATATAAAATA
* *
14039344 T-ATATAAATTT
1 TAATATAAAATA
***
14039355 TAATATTTTATA
1 TAATATAAAATA
14039367 TAATATAAA
1 TAATATAAA
14039376 TACATAAATC
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
10 4 0.13
11 10 0.32
12 17 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATATAAAATA
Found at i:14039356 original size:34 final size:33
Alignment explanation
Indices: 14039312--14039377 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
14039302 AAATTATAAC
14039312 ATATAATTTTAATATAAAATATAATATAAATAT
1 ATATAATTTTAATATAAAATATAATATAAATAT
***
14039345 ATATAAATTTTAATATTTTATATAATATAAATA
1 ATAT-AATTTTAATATAAAATATAATATAAATA
14039378 CATAAATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATAATTTTAATATAAAATATAATATAAATAT
Found at i:14043006 original size:9 final size:9
Alignment explanation
Indices: 14042992--14043021 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
14042982 AATATTTTAT
14042992 TAATTAAAA
1 TAATTAAAA
14043001 TAATTAAAA
1 TAATTAAAA
14043010 TATATTAAAA
1 TA-ATTAAAA
14043020 TA
1 TA
14043022 TAAAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:14043018 original size:10 final size:10
Alignment explanation
Indices: 14042994--14043023 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14042984 TATTTTATTA
14042994 ATTAAAATA-
1 ATTAAAATAT
14043003 ATTAAAATAT
1 ATTAAAATAT
14043013 ATTAAAATAT
1 ATTAAAATAT
14043023 A
1 A
14043024 AAAACTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:14046387 original size:12 final size:12
Alignment explanation
Indices: 14046367--14046426 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
14046357 CAAGTTGATA
*
14046367 TAATATTAAATT
1 TAATTTTAAATT
*
14046379 TAATTTTAATTT
1 TAATTTTAAATT
*
14046391 TAAATTT-AATT
1 TAATTTTAAATT
14046402 TAAAATTTTAAATT
1 T--AATTTTAAATT
*
14046416 TGA-TTTAAATT
1 TAATTTTAAATT
14046427 AGATTAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
11 12 0.31
12 17 0.44
13 5 0.13
14 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TAATTTTAAATT
Found at i:14046393 original size:18 final size:18
Alignment explanation
Indices: 14046372--14046426 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
14046362 TGATATAATA
*
14046372 TTAAATTTAATTTTAATT
1 TTAAATTTAATTTAAATT
14046390 TTAAATTTAATTTAAAATT
1 TTAAATTTAATTT-AAATT
*
14046409 TTAAATTTGATTTAAATT
1 TTAAATTTAATTTAAATT
14046427 AGATTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTAAATTTAATTTAAATT
Found at i:14046410 original size:19 final size:19
Alignment explanation
Indices: 14046372--14046424 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
14046362 TGATATAATA
*
14046372 TTAAATTTAATTT-TAATT
1 TTAAATTTAATTTAAAATT
14046390 TTAAATTTAATTTAAAATT
1 TTAAATTTAATTTAAAATT
*
14046409 TTAAATTTGATTTAAA
1 TTAAATTTAATTTAAA
14046425 TTAGATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 13 0.41
19 19 0.59
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAAATTTAATTTAAAATT
Found at i:14047153 original size:18 final size:17
Alignment explanation
Indices: 14047110--14047180 Score: 65
Period size: 18 Copynumber: 4.2 Consensus size: 17
14047100 CCTCGATCCG
14047110 AAATT-AATAAAATATA
1 AAATTAAATAAAATATA
** *
14047126 ATTTTTAATATAAATATA
1 AAATTAAATA-AAATATA
*
14047144 AAATTAAATATATATATA
1 AAATTAAATA-AAATATA
*
14047162 AAATTATATAAAAT-TA
1 AAATTAAATAAAATATA
14047178 AAA
1 AAA
14047181 AATTATTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
16 8 0.18
17 7 0.16
18 30 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAAATAAAATATA
Found at i:14047182 original size:8 final size:10
Alignment explanation
Indices: 14047139--14047186 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
14047129 TTTAATATAA
14047139 ATATAAAATT
1 ATATAAAATT
* *
14047149 AAAT-ATA-T
1 ATATAAAATT
14047157 ATATAAAATT
1 ATATAAAATT
14047167 ATATAAAATT
1 ATATAAAATT
14047177 A-A-AAAATT
1 ATATAAAATT
14047185 AT
1 AT
14047187 TTTTTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
8 11 0.35
9 5 0.16
10 15 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATAAAATT
Found at i:14048813 original size:11 final size:12
Alignment explanation
Indices: 14048785--14048829 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
14048775 ATCCATTAGA
14048785 AAAAAAGAAATT
1 AAAAAAGAAATT
14048797 AAAAAAGAAATAT
1 AAAAAAGAAAT-T
14048810 AAAAAA-AAAGTT
1 AAAAAAGAAA-TT
14048822 AAAAAAGA
1 AAAAAAGA
14048830 GGAAGCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (12 bp):
AAAAAAGAAATT
Found at i:14051818 original size:15 final size:16
Alignment explanation
Indices: 14051781--14051824 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
14051771 TTTTTGTTTT
14051781 TGATATATTTGAGGTAAA
1 TGATATATTTGAGG--AA
14051799 TGATATATTTGAGG-A
1 TGATATATTTGAGGAA
*
14051814 TGATACATTTG
1 TGATATATTTG
14051825 TGGTGGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 11 0.44
18 14 0.56
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (16 bp):
TGATATATTTGAGGAA
Found at i:14051893 original size:21 final size:19
Alignment explanation
Indices: 14051848--14051906 Score: 77
Period size: 18 Copynumber: 3.1 Consensus size: 19
14051838 ATTTGTAGTA
14051848 AATGATACATTTAAGGTGG
1 AATGATACATTTAAGGTGG
14051867 AA-GATACATTTGAGGAGGT-G
1 AATGATACATTT-A--AGGTGG
14051887 AATGATACATTTAAGGTGG
1 AATGATACATTTAAGGTGG
14051906 A
1 A
14051907 TAATAACCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
18 13 0.37
19 5 0.14
20 4 0.11
21 13 0.37
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (19 bp):
AATGATACATTTAAGGTGG
Found at i:14051902 original size:39 final size:36
Alignment explanation
Indices: 14051813--14051906 Score: 116
Period size: 36 Copynumber: 2.5 Consensus size: 36
14051803 ATATTTGAGG
** * *
14051813 ATGATACATTTGTGGTGGGAGATACATTTGTAGTAA
1 ATGATACATTTAAGGTGGAAGATACATTTGGAGTAA
*
14051849 ATGATACATTTAAGGTGGAAGATACATTTGAGGAGGTGA
1 ATGATACATTTAAGGTGGAAGATACATTT--GGA-GTAA
14051888 ATGATACATTTAAGGTGGA
1 ATGATACATTTAAGGTGGA
14051907 TAATAACCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 26 0.52
38 2 0.04
39 22 0.44
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (36 bp):
ATGATACATTTAAGGTGGAAGATACATTTGGAGTAA
Found at i:14056428 original size:18 final size:18
Alignment explanation
Indices: 14056405--14056443 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
14056395 CCTTCATCAT
14056405 TATCACTTACCTAATGCC
1 TATCACTTACCTAATGCC
* *
14056423 TATCACTTGCCTAGTGCC
1 TATCACTTACCTAATGCC
14056441 TAT
1 TAT
14056444 AAAATACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.10, T:0.36
Consensus pattern (18 bp):
TATCACTTACCTAATGCC
Found at i:14072599 original size:28 final size:27
Alignment explanation
Indices: 14072568--14072632 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
14072558 CAAATATAAT
* *
14072568 TTTTTTAAAAATTAAAATTTAAAAATTA
1 TTTTTTAAAAAATAAAA-TTAAAAAATA
**
14072596 TTTTCAAAAAAATAAAATTAAAAAATA
1 TTTTTTAAAAAATAAAATTAAAAAATA
14072623 TTTTCTTAAA
1 TTTT-TTAAA
14072633 TCAAACAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTTTTAAAAAATAAAATTAAAAAATA
Found at i:14072616 original size:27 final size:28
Alignment explanation
Indices: 14072574--14072627 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
14072564 TAATTTTTTT
* *
14072574 AAAAATTAAAATTTAAAAATTATTTTCA
1 AAAAAATAAAATTTAAAAAATATTTTCA
14072602 AAAAAATAAAA-TTAAAAAATATTTTC
1 AAAAAATAAAATTTAAAAAATATTTTC
14072628 TTAAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAAAATAAAATTTAAAAAATATTTTCA
Found at i:14079189 original size:2 final size:2
Alignment explanation
Indices: 14079182--14079213 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14079172 GGTCTTTACC
*
14079182 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14079214 GCATAAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14079830 original size:17 final size:17
Alignment explanation
Indices: 14079800--14079845 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14079790 GGATTGATAT
*
14079800 TTAAAT-TTAAATTTTA
1 TTAAATATTATATTTTA
14079816 TTAAATATTATATTTTA
1 TTAAATATTATATTTTA
*
14079833 -AAAATAATTATAT
1 TTAAAT-ATTATAT
14079846 AAATTAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATATTATATTTTA
Done.