Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, 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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 78
Found at i:2217520 original size:41 final size:40
Alignment explanation
Indices: 2217426--2217840 Score: 256
Period size: 41 Copynumber: 10.1 Consensus size: 40
2217416 CATTAACGGT
* * * *
2217426 GTTTTTCAATAAACGCCACTAAAACTCGTACTTTAGTGGC
1 GTTTTTAAACAAACGCCGCTAAAACTAGTACTTTAGTGGC
**
2217466 GTTTATTCGACAAACGCCGCTAAATA-TAAGTACTTTAGTGGC
1 GTTT-TTAAACAAACGCCGCTAAA-ACT-AGTACTTTAGTGGC
* ** *
2217508 GTTTTTAAACAAACGCCG-TAATA-GGGTACATATATTGTGGC
1 GTTTTTAAACAAACGCCGCTAAAACTAGTAC-T-T-TAGTGGC
* * * *
2217549 GTTTTTAGATAAACGCCACTAAAACCTAGTACTTTA-TATGC
1 GTTTTTAAACAAACGCCGCTAAAA-CTAGTACTTTAGT-GGC
** *
2217590 GCTTTATGCAA-AAACGCCGCTAAAACTCGTACTTTAGTGGC
1 G-TTT-TTAAACAAACGCCGCTAAAACTAGTACTTTAGTGGC
* * * * *
2217631 GTTTGTAAACAAACACCGCCATAGAA-TCGTTCTTTAGTGGC
1 GTTTTTAAACAAACGCCG-C-TAAAACTAGTACTTTAGTGGC
* ** * *
2217672 GTTTTTAAACAAACGCCGC-AATA-GGGTACATATATCGTTGC
1 GTTTTTAAACAAACGCCGCTAAAACTAGTAC-T-T-TAGTGGC
* * *
2217713 ATTTTTAAATAAACGCCGCTAAAACCTAATACTTTAGTGGC
1 GTTTTTAAACAAACGCCGCTAAAA-CTAGTACTTTAGTGGC
* *
2217754 GTTTTATTCAA-AAACGCCGCTAAATACTCA-TACTTTAGTGAC
1 G-TTT-TTAAACAAACGCCGCTAAA-ACT-AGTACTTTAGTGGC
* * *
2217796 GATTTTAGACAAACGCCGCTAAAACCTAGTACTTTATTGGC
1 GTTTTTAAACAAACGCCGCTAAAA-CTAGTACTTTAGTGGC
2217837 GTTT
1 GTTT
2217841 AACCATTAAC
Statistics
Matches: 290, Mismatches: 56, Indels: 57
0.72 0.14 0.14
Matches are distributed among these distances:
38 9 0.03
39 5 0.02
40 26 0.09
41 155 0.53
42 78 0.27
43 10 0.03
44 7 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (40 bp):
GTTTTTAAACAAACGCCGCTAAAACTAGTACTTTAGTGGC
Found at i:2217686 original size:123 final size:123
Alignment explanation
Indices: 2217426--2217688 Score: 286
Period size: 123 Copynumber: 2.1 Consensus size: 123
2217416 CATTAACGGT
* * * * *
2217426 GTTTTTCAATAAACGCCACTAAAACTCGTACTTTAGTGGCGTTTATTCGACAAACGCCGCTAAAT
1 GTTTTTAAATAAACGCCACTAAAACTAGTACTTTAATGGCGTTTATGCGAAAAACGCCGCTAAAT
* * * **
2217491 ATAAGTACTTTAGTGGCGTTTTTAAACAAACGCCGTAATAGGGTACATATATTGTGGC
66 ATAAGTACTTTAGTGGCGTTTGTAAACAAACACCGCAATAGAATACATATATTGTGGC
*
2217549 GTTTTTAGATAAACGCCACTAAAACCTAGTACTTTATAT-GCGCTTTATGC-AAAAACGCCGCTA
1 GTTTTTAAATAAACGCCACTAAAA-CTAGTACTTTA-ATGGCG-TTTATGCGAAAAACGCCGCTA
* * * *
2217612 AA-ACT-CGTACTTTAGTGGCGTTTGTAAACAAACACCGCCATAGAAT-CGT-TCTTTAGTGGC
63 AATA-TAAGTACTTTAGTGGCGTTTGTAAACAAACACCGCAATAGAATACATAT-ATT-GTGGC
*
2217672 GTTTTTAAACAAACGCC
1 GTTTTTAAATAAACGCC
2217689 GCAATAGGGT
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
121 1 0.01
122 4 0.03
123 77 0.66
124 28 0.24
125 7 0.06
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (123 bp):
GTTTTTAAATAAACGCCACTAAAACTAGTACTTTAATGGCGTTTATGCGAAAAACGCCGCTAAAT
ATAAGTACTTTAGTGGCGTTTGTAAACAAACACCGCAATAGAATACATATATTGTGGC
Found at i:2217697 original size:164 final size:165
Alignment explanation
Indices: 2217436--2217840 Score: 484
Period size: 164 Copynumber: 2.5 Consensus size: 165
2217426 GTTTTTCAAT
* * ** *
2217436 AAACGCCACTAAAACTCGTACTTTAGTGGCGTTTATTCGACAAACGCCGCTAAATATAAGTACTT
1 AAACGCCGCTAAAACTCGTACTTTAGTGGCGTTTAGTAAACAAACACCGCTAAATATAAGTACTT
* * * *
2217501 TAGTGGCGTTTTTAAACAAACGCCGTAATAGGGTACATATATTGTGGCGTTTTTAGATAAACGCC
66 TAGTGGCGTTTTTAAACAAACGCCGCAATAGGGTACATATATCGTGGCATTTTTAAATAAACGCC
* *
2217566 ACTAAAACCTAGTACTTTA-TATGCGCTTTATGCAA
131 ACTAAAACCTAATACTTTAGT-GGCGCTTTATGCAA
* * *
2217601 AAACGCCGCTAAAACTCGTACTTTAGTGGCGTTT-GTAAACAAACACCGCCATAGA-AT-CGTTC
1 AAACGCCGCTAAAACTCGTACTTTAGTGGCGTTTAGTAAACAAACACCG-C-TAAATATAAGTAC
*
2217663 TTTAGTGGCGTTTTTAAACAAACGCCGCAATAGGGTACATATATCGTTGCATTTTTAAATAAACG
64 TTTAGTGGCGTTTTTAAACAAACGCCGCAATAGGGTACATATATCGTGGCATTTTTAAATAAACG
* * *
2217728 CCGCTAAAACCTAATACTTTAGTGGCGTTTTATTCAA
129 CCACTAAAACCTAATACTTTAGTGGCGCTTTATGCAA
* * * *
2217765 AAACGCCGCTAAATACTCATACTTTAGTGACGATTT--TAGACAAACGCCGCTAAA-ACCT-AGT
1 AAACGCCGCTAAA-ACTCGTACTTTAGTGGCG-TTTAGTAAACAAACACCGCTAAATA--TAAGT
*
2217826 ACTTTATTGGCGTTT
62 ACTTTAGTGGCGTTT
2217841 AACCATTAAC
Statistics
Matches: 207, Mismatches: 26, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
163 4 0.02
164 117 0.57
165 80 0.39
166 6 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (165 bp):
AAACGCCGCTAAAACTCGTACTTTAGTGGCGTTTAGTAAACAAACACCGCTAAATATAAGTACTT
TAGTGGCGTTTTTAAACAAACGCCGCAATAGGGTACATATATCGTGGCATTTTTAAATAAACGCC
ACTAAAACCTAATACTTTAGTGGCGCTTTATGCAA
Found at i:2223937 original size:21 final size:21
Alignment explanation
Indices: 2223878--2223938 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
2223868 TGATTTATTA
*
2223878 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTGTTG
2223899 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
2223920 TTATGGATTTCAAGTTTGT
1 TTATGGATTTCAAGTTTGT
2223939 GTCTTAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.20, C:0.07, G:0.21, T:0.52
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:2224124 original size:43 final size:43
Alignment explanation
Indices: 2224073--2224410 Score: 534
Period size: 43 Copynumber: 7.9 Consensus size: 43
2224063 GTTTGTATAG
* *
2224073 AAAAACGCCGCTATAAATCTCAACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* * * *
2224116 AAAAACGCCGCTATAGATCT-GACATTTTACGGCATTTGTTTC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* *
2224158 AAAAACGCCGCTATAAATCTCGACCTTTAGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
*
2224201 AAAAACGCCGTTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
2224244 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* * *
2224287 AAAAACGCTGCTATAAATCTTGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
*
2224330 AAAAACGCCGCTATAGATCTCGACCTTTTGCAGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* *
2224373 AAAAATGCCGCTATATATCTCGACCTTTTGCGGCGTTT
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTT
2224411 TTTGTTCTCA
Statistics
Matches: 268, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
42 36 0.13
43 232 0.87
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (43 bp):
AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
Found at i:2224541 original size:22 final size:22
Alignment explanation
Indices: 2224505--2224553 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
2224495 TAGCGGCGCT
2224505 TAAAAACGCCACTATAGGACAA
1 TAAAAACGCCACTATAGGACAA
* *
2224527 TAAAAATGCCGCTATAGGACAA
1 TAAAAACGCCACTATAGGACAA
2224549 TAAAA
1 TAAAA
2224554 TAATATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.16
Consensus pattern (22 bp):
TAAAAACGCCACTATAGGACAA
Found at i:2225137 original size:3 final size:3
Alignment explanation
Indices: 2225129--2225217 Score: 130
Period size: 3 Copynumber: 30.0 Consensus size: 3
2225119 ATTTTTTCAT
*
2225129 TTA TTA TTA TTT TTA TTA TTTA TTTA TTA -TA TTA -TA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
2225173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2225218 AAAATAAATT
Statistics
Matches: 80, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
2 6 0.08
3 67 0.84
4 7 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2226514 original size:27 final size:27
Alignment explanation
Indices: 2226458--2226512 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
2226448 GTTTAGTTGC
* *
2226458 ATTTTAATTTTTATTATTATCCTTTAA
1 ATTTTAATTTTTAATATTATACTTTAA
2226485 ATTTTAATATGTTTAAT-TTATACTTTAA
1 ATTTTAAT-T-TTTAATATTATACTTTAA
2226513 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
ATTTTAATTTTTAATATTATACTTTAA
Found at i:2226727 original size:20 final size:19
Alignment explanation
Indices: 2226683--2226727 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2226673 TTGTTTTAGT
*
2226683 TTTATTCAAATTATTTTTA
1 TTTATTCAAATTATATTTA
* *
2226702 TATATTCTAATTAATATTTA
1 TTTATTCAAATT-ATATTTA
2226722 TTTATT
1 TTTATT
2226728 TTTTAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTCAAATTATATTTA
Found at i:2226799 original size:157 final size:158
Alignment explanation
Indices: 2226557--2226860 Score: 391
Period size: 157 Copynumber: 1.9 Consensus size: 158
2226547 GATTAAATAA
* * * *
2226557 TAATATTTATTTATTTTTAAATATTAAGAAAGGGATGTTTTAAATTAACTAGAGGTCATATTCTG
1 TAATATTTATTTATTTTTAAATATTAAGAAAAGGATGTCTTAAAGTAACTAGAGATCATATTCTG
* * **
2226622 ATATTTTTAAATAAATAAATACATTACTTATAAAA-AC-AAAAATATATATATTTGTTTTAGTTT
66 ATATTTTTAAATAAATAAATACACTACTTATAAAATACAAAAAATATAAATATTTACTTTAG-TT
*
2226685 TATT-CAAATTATTTTTATATATTCTAAT
130 TATTAAAAATTATTTTTATATATTCTAAT
* * * * *
2226713 TAATATTTATTTATTTTTTAATATTGAA-AAATAGGTTGTCTTAAAGTAATTAGATATCATTTTC
1 TAATATTTATTTATTTTTAAATATT-AAGAAA-AGGATGTCTTAAAGTAACTAGAGATCATATTC
* * *
2226777 TGATATTTTTAAATAAATAAATACCCTATTTATAAAATCCTAAAAAATATAAATATTTACTTTAG
64 TGATATTTTTAAATAAATAAATACACTACTTATAAAATAC-AAAAAATATAAATATTTACTTTAG
2226842 TTTATTAAAAATTATTTTT
128 TTTATTAAAAATTATTTTT
2226861 CTTAGAATTA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
156 27 0.22
157 60 0.48
158 1 0.01
159 6 0.05
160 31 0.25
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (158 bp):
TAATATTTATTTATTTTTAAATATTAAGAAAAGGATGTCTTAAAGTAACTAGAGATCATATTCTG
ATATTTTTAAATAAATAAATACACTACTTATAAAATACAAAAAATATAAATATTTACTTTAGTTT
ATTAAAAATTATTTTTATATATTCTAAT
Found at i:2227548 original size:17 final size:17
Alignment explanation
Indices: 2227526--2227561 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2227516 GACGTGTTCA
*
2227526 TGAGAATTTATTCTTCG
1 TGAGAATTTATTCTCCG
2227543 TGAGAATTTATTCTCCG
1 TGAGAATTTATTCTCCG
2227560 TG
1 TG
2227562 TCAGACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (17 bp):
TGAGAATTTATTCTCCG
Found at i:2227969 original size:2 final size:2
Alignment explanation
Indices: 2227962--2227987 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2227952 TGAGGTTAGG
2227962 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2227988 CTTTTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2229741 original size:20 final size:19
Alignment explanation
Indices: 2229716--2229770 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
2229706 ATATTCATAC
* *
2229716 TTTTATGTTTGCATTTGCAT
1 TTTTAT-TTTACATTTGAAT
* *
2229736 TTTTATATTTTCATTGGAAT
1 TTTTAT-TTTACATTTGAAT
2229756 TTTTATTTTACATTT
1 TTTTATTTTACATTT
2229771 CACTTCATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (19 bp):
TTTTATTTTACATTTGAAT
Found at i:2231523 original size:19 final size:19
Alignment explanation
Indices: 2231499--2231552 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
2231489 GAATGCATTT
*
2231499 CATGCATCGATGCACTTAC
1 CATGCACCGATGCACTTAC
2231518 CATGCACCGATGCACTTAC
1 CATGCACCGATGCACTTAC
2231537 CATGCACCGATGCACT
1 CATGCACCGATGCACT
2231553 GAGGATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (19 bp):
CATGCACCGATGCACTTAC
Found at i:2231597 original size:57 final size:56
Alignment explanation
Indices: 2231536--2231646 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
2231526 GATGCACTTA
* *
2231536 CCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGCATCAG
1 CCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTGATGCATCAG
* * *
2231593 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCATC
1 CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCATC
2231647 GACGTACTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 24 0.50
57 21 0.44
58 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (56 bp):
CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCATCAG
Found at i:2237330 original size:31 final size:31
Alignment explanation
Indices: 2237288--2237346 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2237278 AACTTAAAAG
* *
2237288 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2237319 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
2237347 CCATACACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2237380 original size:34 final size:30
Alignment explanation
Indices: 2237336--2237471 Score: 91
Period size: 30 Copynumber: 4.7 Consensus size: 30
2237326 CAATACTGAA
*
2237336 ATTT-AAATAATCCATACACTACAATAATAAATT
1 ATTTAAAATAATCAATACA-TAC--TAAT-AATT
*
2237369 ATTTAAAATAATCAATCCATACTAATAATT
1 ATTTAAAATAATCAATACATACTAATAATT
2237399 ATTT-AAATAAATCAAT-C---C--AT-A-T
1 ATTTAAAAT-AATCAATACATACTAATAATT
2237421 -TTT-AAATAATCAATACATACTAATAAATT
1 ATTTAAAATAATCAATACATACTAAT-AATT
*
2237450 A-TTAAAATAAATCAATTCATAC
1 ATTTAAAAT-AATCAATACATAC
2237472 AACTACAATA
Statistics
Matches: 86, Mismatches: 3, Indels: 30
0.72 0.03 0.25
Matches are distributed among these distances:
20 7 0.08
21 8 0.09
22 1 0.01
23 1 0.01
24 3 0.03
26 3 0.03
28 1 0.01
29 8 0.09
30 19 0.22
31 16 0.19
33 7 0.08
34 12 0.14
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.35
Consensus pattern (30 bp):
ATTTAAAATAATCAATACATACTAATAATT
Found at i:2237430 original size:50 final size:51
Alignment explanation
Indices: 2237368--2238100 Score: 343
Period size: 53 Copynumber: 14.0 Consensus size: 51
2237358 AATAATAAAT
* *
2237368 TATTTAAAATAATCAATCCATACTAAT-AATTATTTAAATAAATCAATCCA
1 TATTTAAAATAATCAATACATACTAATAAATTATTAAAATAAATCAATCCA
* *
2237418 TATTTTAAATAATCAATACATACTAATAAATTATTAAAATAAATCAATTCA
1 TATTTAAAATAATCAATACATACTAATAAATTATTAAAATAAATCAATCCA
** * ** * * * ** **
2237469 TACAACTACAATAATAATCAATCCATA-TTTTAAATAAAT-CAATCCATACAAATAAA
1 T---A-TTTAA-AATAATCAATACATACTAATAAATTATTAAAATAAAT-C-AATCCA
*
2237525 TTATTTAAAATAAATC-AT-CTATACTAAAAAATTATTTAAAATAAATCAATCCA
1 -TATTTAAAAT-AATCAATAC-ATACTAATAAATTA-TTAAAATAAATCAATCCA
*
2237578 TATTTTAAAATAAATCAATTCATACTAATAAA-T-TTAAAATAAATCAATCCA
1 TA-TTTAAAAT-AATCAATACATACTAATAAATTATTAAAATAAATCAATCCA
* * *
2237629 TATTTTAAAATAATCAATCCATACTAATAAATTATTTAAAATAAATCCATACA
1 TA-TTTAAAATAATCAATACATACTAATAAATTA-TTAAAATAAATCAATCCA
* * * *
2237682 -A-CTACAATAATAAAT-CA-A-TCCAT--ATT-TTAAAATAAATCAATCCA
1 TATTTAAAATAATCAATACATACT-AATAAATTATTAAAATAAATCAATCCA
* * * * * * *
2237726 TACTAATAAATTATTTAAATAAAT-C-AATCCATATT-TTAAAATAAATAAATCCA
1 TA-T-TTAAAATA-ATCAATACATACTAAT--AAATTATTAAAATAAATCAATCCA
* * * * * * *
2237779 TACTAATAAATTATTTAAAATAAATCACT-CTATATT-TTAAAATAAATCAATCCA
1 TA-T-TTAAAATA-AT-CAATACAT-ACTAATAAATTATTAAAATAAATCAATCCA
* * * * *
2237833 TACTTATAATTATTTAA-A-ATA--AAT-TATT-TTAAAATAAATCAATCCA
1 TATTTA-AAATAATCAATACATACTAATAAATTATTAAAATAAATCAATCCA
* * * * * ** * **
2237879 TATTTTATAATAAATTATTTTAAAATAAATCAATCCATACAACACATAATAAATCAATCCA
1 TA-TTTAAAAT-AATCA--AT-ACAT-ACT-AATAAAT-TATTA-A-AATAAATCAATCCA
* *
2237940 TATTTTAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCA
1 TATTTAAAAT-AATCAATACATACTAATAAATTA-TTAAAATAAATCAATCCA
*
2237993 TATTTTAAAATAAATC-ATCCATACTAATAAATTATTTAAAATAAATC-ATCCA
1 TA-TTTAAAAT-AATCAATACATACTAATAAATTA-TTAAAATAAATCAATCCA
*
2238045 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
1 TA-TTTAAAAT-AATCAATACATACTAATAAATTA-TTAAAATAAATCAATCCA
2238099 TA
1 TA
2238101 CTAATAATTA
Statistics
Matches: 549, Mismatches: 75, Indels: 114
0.74 0.10 0.15
Matches are distributed among these distances:
44 16 0.03
45 1 0.00
46 29 0.05
47 9 0.02
48 9 0.02
49 11 0.02
50 57 0.10
51 56 0.10
52 38 0.07
53 166 0.30
54 74 0.13
55 23 0.04
56 25 0.05
57 5 0.01
58 1 0.00
59 1 0.00
60 12 0.02
61 16 0.03
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (51 bp):
TATTTAAAATAATCAATACATACTAATAAATTATTAAAATAAATCAATCCA
Found at i:2237431 original size:20 final size:21
Alignment explanation
Indices: 2237400--2237439 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2237390 CTAATAATTA
*
2237400 TTTAAATAAATCAATCCATAT
1 TTTAAATAAATCAATACATAT
2237421 TTTAAAT-AATCAATACATA
1 TTTAAATAAATCAATACATA
2237440 CTAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAATAAATCAATACATAT
Found at i:2237535 original size:14 final size:14
Alignment explanation
Indices: 2237518--2237570 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2237508 CAATCCATAC
2237518 AAATAAATTATTTA
1 AAATAAATTATTTA
*
2237532 AAATAAATCATCTATA
1 AAATAAATTAT-T-TA
2237548 CTAAA-AAATTATTTA
1 --AAATAAATTATTTA
2237563 AAATAAAT
1 AAATAAAT
2237571 CAATCCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 3 0.09
14 14 0.44
15 3 0.09
16 3 0.09
17 6 0.19
18 3 0.09
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:2237536 original size:32 final size:32
Alignment explanation
Indices: 2237494--2237579 Score: 131
Period size: 31 Copynumber: 2.7 Consensus size: 32
2237484 AATCAATCCA
*
2237494 TATTTTAAATAAATCAATCCATAC-AAATAAAT
1 TATTTAAAATAAATCAATCCATACTAAA-AAAT
*
2237526 TATTTAAAATAAATC-ATCTATACTAAAAAAT
1 TATTTAAAATAAATCAATCCATACTAAAAAAT
2237557 TATTTAAAATAAATCAATCCATA
1 TATTTAAAATAAATCAATCCATA
2237580 TTTTAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 26 0.53
32 23 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TATTTAAAATAAATCAATCCATACTAAAAAAT
Found at i:2237633 original size:21 final size:21
Alignment explanation
Indices: 2237610--2237651 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2237600 TACTAATAAA
2237610 TTTAAAATAAATCAATCCATAT
1 TTTAAAAT-AATCAATCCATAT
2237632 TTTAAAATAATCAATCCATA
1 TTTAAAATAATCAATCCATA
2237652 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTAAAATAATCAATCCATAT
Found at i:2237639 original size:29 final size:29
Alignment explanation
Indices: 2237495--2237856 Score: 164
Period size: 22 Copynumber: 13.4 Consensus size: 29
2237485 ATCAATCCAT
* *
2237495 ATTTTAAATAAATCAATCCATACAAATAAA
1 ATTTAAAATAAATCAATCCATACTAAT-AA
* *
2237525 TTATTTAAAATAAATC-ATCTATACTAAAAAA
1 --ATTTAAAATAAATCAATCCATACT-AATAA
2237556 TTATTTAAAATAAATCAATCC--A-T-AT--
1 --ATTTAAAATAAATCAATCCATACTAATAA
*
2237581 -TTTAAAATAAATCAATTCATACTAATAA
1 ATTTAAAATAAATCAATCCATACTAATAA
2237609 ATTTAAAATAAATCAATCC--A-T-AT--
1 ATTTAAAATAAATCAATCCATACTAATAA
2237632 -TTTAAAAT-AATCAATCCATACTAATAAA
1 ATTTAAAATAAATCAATCCATACTAAT-AA
* * *
2237660 TTATTTAAAATAAATCCATACA-ACT-A-CA
1 --ATTTAAAATAAATCAATCCATACTAATAA
2237688 A--T--AATAAATCAATCC--A-T-AT--
1 ATTTAAAATAAATCAATCCATACTAATAA
2237707 -TTTAAAATAAATCAATCCATACTAATAA
1 ATTTAAAATAAATCAATCCATACTAATAA
*
2237735 ATTATTTAAATAAATCAATCC--A-T-AT--
1 A-T-TTAAAATAAATCAATCCATACTAATAA
*
2237760 -TTTAAAATAAATAAATCCATACTAATAAA
1 ATTTAAAATAAATCAATCCATACTAAT-AA
2237789 TTATTTAAAATAAATC-A--C-T-CT-AT-A
1 --ATTTAAAATAAATCAATCCATACTAATAA
* *
2237813 TTTTAAAATAAATCAATCCATACTTATAA
1 ATTTAAAATAAATCAATCCATACTAATAA
2237842 TTATTTAAAATAAAT
1 --ATTTAAAATAAAT
2237857 TATTTTAAAA
Statistics
Matches: 258, Mismatches: 19, Indels: 107
0.67 0.05 0.28
Matches are distributed among these distances:
20 3 0.01
21 10 0.04
22 77 0.30
23 3 0.01
24 6 0.02
25 8 0.03
26 11 0.04
27 8 0.03
28 5 0.02
29 21 0.08
30 3 0.01
31 65 0.25
32 38 0.15
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAAATAAATCAATCCATACTAATAA
Found at i:2237798 original size:32 final size:29
Alignment explanation
Indices: 2237760--2237856 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 29
2237750 CAATCCATAT
2237760 TTTAAAATAAATAAATCCATACTAATAAATTA
1 TTTAAAATAAAT-AATCCATACT-AT-AATTA
*
2237792 TTTAAAATAAATCA--C-T-CTAT-A-T-
1 TTTAAAATAAATAATCCATACTATAATTA
2237814 TTTAAAATAAATCAATCCATACTTATAATTA
1 TTTAAAATAAAT-AATCCATAC-TATAATTA
2237845 TTTAAAATAAAT
1 TTTAAAATAAAT
2237857 TATTTTAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
22 12 0.22
23 2 0.04
24 1 0.02
25 1 0.02
26 3 0.06
27 3 0.06
28 4 0.07
29 2 0.04
30 1 0.02
31 13 0.24
32 12 0.22
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTAAAATAAATAATCCATACTATAATTA
Found at i:2237826 original size:129 final size:125
Alignment explanation
Indices: 2237559--2238122 Score: 535
Period size: 126 Copynumber: 4.5 Consensus size: 125
2237549 TAAAAAATTA
*
2237559 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTTAAAATAAATCA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTTAAAATAAATCA
*
2237624 ATCCATATTTTAAAATAATCAATCCATACTAATAAATTATTTAAAATAAATCCATACAAC
66 ATCCATATTTTAAAATAATAAATCCATACTAATAAATTATTTAAAATAAATCCATACAAC
** *
2237684 TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAA
1 TTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA-T-TTAAAATAAA
2237749 TCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAAT-CACT-CTAT
63 TCAATCCATATTTTAAAAT-AATAAATCCATACTAATAAATTATTTAAAATAAATCCA-TAC-A-
*
2237812 AT
124 AC
* * * * * * * *
2237814 TTTAAAATAAATCAATCCATA-CTTATAATTATTTAA--AATA--AATTATTTTAAAATAAATCA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTTAAAATAAATCA
** *
2237874 ATCCATATTTT---ATAATAAAT---TA-TTTTAAA--A--T-AAATCAATCCATACAAC
66 ATCCATATTTTAAAATAATAAATCCATACTAATAAATTATTTAAAATAAATCCATACAAC
** * *
2237922 -ACATAATAAATCAATCCATATTTT-AAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AA--ATTTAAAATAAA
* * *
2237985 TCAATCCATATTTTAAAATAA-ATCATCCATACTAATAAATTATTTAAAATAAAT-CATCCATAT
63 TCAATCCATATTTTAAAATAATA-AATCCATACTAATAAATTATTTAAAATAAATCCATACA-AC
2238048 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAATTATT
1 TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAA--ATT
2238113 TAAAATAAAT
54 TAAAATAAAT
2238123 TATTTTAAAA
Statistics
Matches: 354, Mismatches: 42, Indels: 74
0.75 0.09 0.16
Matches are distributed among these distances:
107 24 0.07
108 3 0.01
109 12 0.03
110 4 0.01
111 3 0.01
112 2 0.01
114 30 0.08
115 2 0.01
116 1 0.00
117 6 0.02
118 7 0.02
119 2 0.01
120 2 0.01
121 5 0.01
122 23 0.06
123 2 0.01
124 4 0.01
125 9 0.03
126 56 0.16
127 13 0.04
128 42 0.12
129 52 0.15
130 4 0.01
131 1 0.00
133 2 0.01
135 1 0.00
136 1 0.00
137 20 0.06
138 21 0.06
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (125 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTTAAAATAAATCA
ATCCATATTTTAAAATAATAAATCCATACTAATAAATTATTTAAAATAAATCCATACAAC
Found at i:2237865 original size:15 final size:15
Alignment explanation
Indices: 2237840--2237908 Score: 59
Period size: 15 Copynumber: 4.2 Consensus size: 15
2237830 CCATACTTAT
2237840 AATTA-TTTAAAATA
1 AATTATTTTAAAATA
2237854 AATTATTTTAAAATAAA
1 AATTATTTTAAAAT--A
*
2237871 TCAATCCATATTTTATAATA
1 --AAT---TATTTTAAAATA
2237891 AATTATTTTAAAATA
1 AATTATTTTAAAATA
2237906 AAT
1 AAT
2237909 CAATCCATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
14 5 0.11
15 22 0.49
17 1 0.02
18 3 0.07
19 3 0.07
20 1 0.02
22 10 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTATTTTAAAATA
Found at i:2237892 original size:37 final size:37
Alignment explanation
Indices: 2237845--2238007 Score: 138
Period size: 37 Copynumber: 4.3 Consensus size: 37
2237835 CTTATAATTA
*
2237845 TTTAAAATAAATTATTTTAAAATAAATCAATCCATAT
1 TTTATAATAAATTATTTTAAAATAAATCAATCCATAT
*
2237882 TTTATAATAAATTATTTTAAAATAAATCAATCCATACAA
1 TTTATAATAAATTATTTTAAAATAAATCAATCCAT--AT
*** * *
2237921 CACATAATAAATCAATCCATATTTTAAATAAATCAATTCATA-
1 TTTATAATAAAT---T--AT-TTTAAAATAAATCAATCCATAT
*
2237963 ---CTAATAAATTA-TTTAAAATAAATCAATCCATAT
1 TTTATAATAAATTATTTTAAAATAAATCAATCCATAT
*
2237996 TTTAAAATAAAT
1 TTTATAATAAAT
2238008 CATCCATACT
Statistics
Matches: 102, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
32 19 0.19
34 1 0.01
36 8 0.08
37 34 0.33
39 18 0.18
42 1 0.01
43 1 0.01
44 2 0.02
45 18 0.18
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (37 bp):
TTTATAATAAATTATTTTAAAATAAATCAATCCATAT
Found at i:2237952 original size:182 final size:181
Alignment explanation
Indices: 2237743--2238101 Score: 548
Period size: 182 Copynumber: 2.0 Consensus size: 181
2237733 AAATTATTTA
*
2237743 AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCACT
1 AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
2237808 CTATATTTTAAAATAAATCAATCCATACTTAT-AATTATTTAAAAT-AA-AT-TATTTTAAAATA
66 CCATATTTTAAAATAAATC-ATCCATACTAATAAATTATTTAAAATAAACATCTATTTTAAAATA
2237869 AATCAATCCATATTTTATAATAAATTATTTTAAAATAAATCAATCCATACAACACAT
130 AATCAATCCATA----ATAATAAATTA-TTTAAAATAAATCAATCCATACAACACAT
* *
2237926 AATAAATCAATCCATATTTT-AAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAAT
2237990 CCATATTTTAAAATAAATCATCCATACTAATAAATTATTTAAAATAAATCATCCATATTTTAAAA
66 CCATATTTTAAAATAAATCATCCATACTAATAAATTATTTAAAATAAA-CAT-C-TATTTTAAAA
*
2238055 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
128 TAAATCAATCCATAATAATAAATTATTTAAAATAAATCAATCCATAC
2238102 TAATAATTAT
Statistics
Matches: 163, Mismatches: 6, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
181 11 0.07
182 72 0.44
183 44 0.27
184 10 0.06
185 2 0.01
188 24 0.15
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (181 bp):
AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCATCCATACTAATAAATTATTTAAAATAAACATCTATTTTAAAATAA
ATCAATCCATAATAATAAATTATTTAAAATAAATCAATCCATACAACACAT
Found at i:2237982 original size:32 final size:31
Alignment explanation
Indices: 2237940--2238122 Score: 181
Period size: 32 Copynumber: 6.5 Consensus size: 31
2237930 AATCAATCCA
* *
2237940 TATTTTAAATAAATCAATTCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAAT-AAT
2237972 TATTTAAAATAAATCAAT-C---C--AT-A-
1 TATTTAAAATAAATCAATCCATACTAATAAT
2237995 T-TTTAAAATAAATC-ATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAAT-AAT
2238025 TATTTAAAATAAATC-AT-C---C--AT-A-
1 TATTTAAAATAAATCAATCCATACTAATAAT
2238047 T-TTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAAT-AAT
2238078 TATTTAAAATAAATCAATCCATACTAATAAT
1 TATTTAAAATAAATCAATCCATACTAATAAT
2238109 TATTTAAAATAAAT
1 TATTTAAAATAAAT
2238123 TATTTTAAAA
Statistics
Matches: 129, Mismatches: 1, Indels: 43
0.75 0.01 0.25
Matches are distributed among these distances:
21 15 0.12
22 17 0.13
23 3 0.02
24 1 0.01
25 3 0.02
26 3 0.02
27 3 0.02
28 3 0.02
29 1 0.01
30 3 0.02
31 34 0.26
32 43 0.33
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (31 bp):
TATTTAAAATAAATCAATCCATACTAATAAT
Found at i:2238012 original size:21 final size:22
Alignment explanation
Indices: 2237974--2238015 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2237964 TAATAAATTA
2237974 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2237996 TTTAAAATAAATC-ATCCATA
1 TTTAAAATAAATCAATCCATA
2238016 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2238024 original size:21 final size:22
Alignment explanation
Indices: 2237976--2238023 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2237966 ATAAATTATT
**
2237976 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2237998 TAAAATAAATC-ATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2238020 TAAA
1 TAAA
2238024 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2238052 original size:21 final size:22
Alignment explanation
Indices: 2238027--2238068 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
2238017 TAATAAATTA
2238027 TTTAAAATAAATC-ATCCATAT
1 TTTAAAATAAATCAATCCATAT
2238048 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2238069 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2238076 original size:18 final size:18
Alignment explanation
Indices: 2238053--2238107 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
2238043 CATATTTTAA
2238053 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
* * *
2238071 AATAAAT-TAT--TTA-A
1 AATAAATCAATCCATACT
2238085 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
2238103 AATAA
1 AATAA
2238108 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
17 4 0.15
18 12 0.44
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAAATCAATCCATACT
Found at i:2238077 original size:22 final size:21
Alignment explanation
Indices: 2238029--2238076 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2238019 ATAAATTATT
**
2238029 TAAAATAAATCATCCATATTT
1 TAAAATAAATCATCCATATAA
2238050 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATC-ATCCATA-TAA
2238073 TAAA
1 TAAA
2238077 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 7 0.30
23 5 0.22
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAATAAATCATCCATATAA
Found at i:2238131 original size:15 final size:15
Alignment explanation
Indices: 2238106--2238216 Score: 120
Period size: 15 Copynumber: 7.1 Consensus size: 15
2238096 CCATACTAAT
2238106 AATTA-TTTAAAATA
1 AATTATTTTAAAATA
2238120 AATTATTTTAAAATAAA
1 AATTATTTTAAAAT--A
*
2238137 TCAATCCATATTTTATAAT-
1 --AAT---TATTTTAAAATA
2238156 AATTATTTTAAAATA
1 AATTATTTTAAAATA
*
2238171 AATTATTTTATAATA
1 AATTATTTTAAAATA
2238186 AATTATTTT-AAATA
1 AATTATTTTAAAATA
2238200 AATTATTTTAAAATA
1 AATTATTTTAAAATA
2238215 AA
1 AA
2238217 CAACCTTATT
Statistics
Matches: 83, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
14 28 0.34
15 38 0.46
17 4 0.05
19 3 0.04
22 10 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTATTTTAAAATA
Found at i:2238216 original size:29 final size:30
Alignment explanation
Indices: 2238145--2238216 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 30
2238135 AATCAATCCA
2238145 TATTTTATAAT-AATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
2238174 TATTTTATAATAAATTATTTT-AAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
2238203 TATTTTAAAATAAA
1 TATTTTATAATAAA
2238217 CAACCTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 32 0.78
30 9 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:2238253 original size:80 final size:79
Alignment explanation
Indices: 2238045--2238216 Score: 226
Period size: 80 Copynumber: 2.2 Consensus size: 79
2238035 AAATCATCCA
* * * **
2238045 TATTTTAAAATAAATCAATCCATA-CTAAT-A-AATTA-TTTAAAATAAATCAATCCATACTAAT
1 TATTTTAAAATAAATCAATCCATATTTTATAATAATTATTTTAAAATAAAT-TAT-TTTA-TAAT
2238106 AATTATTTAAAATAAAT
63 AATTATTTAAAATAAAT
2238123 TATTTTAAAATAAATCAATCCATATTTTATAATAATTATTTTAAAATAAATTATTTTATAATAAA
1 TATTTTAAAATAAATCAATCCATATTTTATAATAATTATTTTAAAATAAATTATTTTATAAT-AA
*
2238188 TTATTTTAAATAAAT
65 TTATTTAAAATAAAT
2238203 TATTTTAAAATAAA
1 TATTTTAAAATAAA
2238217 CAACCTTATT
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
78 24 0.29
79 7 0.08
80 33 0.40
81 7 0.08
82 12 0.14
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.42
Consensus pattern (79 bp):
TATTTTAAAATAAATCAATCCATATTTTATAATAATTATTTTAAAATAAATTATTTTATAATAAT
TATTTAAAATAAAT
Found at i:2240981 original size:2 final size:2
Alignment explanation
Indices: 2240974--2241008 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2240964 CAGCTAAAGC
2240974 TA 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 TA T
2241009 TAATCAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2244646 original size:123 final size:124
Alignment explanation
Indices: 2244422--2245001 Score: 857
Period size: 123 Copynumber: 4.7 Consensus size: 124
2244412 CACTTGATGG
*
2244422 ATCAACATTGT-CAGGTAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 ATCAACATT-TCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * *
2244486 AATGAGAAGAACTTGTTTAACATTTTGCTCGATTCTATCACAGAATG-AGATAGATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAAGATAGATCAGC
* * * *
2244545 ACCAACATTTACAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAAAGGAATAAGAAGTTCAT
1 ATCAACATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* *
2244609 AATGAGAAGAACATGTTCAACCTTTTGCTCGACTCTATCATAGAA-GAAGATAGATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAAGATAGATCAGC
*
2244668 ATCAACATTTCTAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
2244733 ATGAGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAAAAT-AAGATAAATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAAGATAGATCAGC
*
2244791 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
** * * * *
2244856 ATGAGAAGAACTTGTTCAATATTTTTCTTGACTCTATCACA-AAAGAAGATAGATCATC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAAGATAGATCAGC
* * * *
2244914 ATCAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCGTCTAAAGAGAAAGAAGAAGTTCATA
1 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
2244979 ATGAGAAGAACTTGTTCGACCTT
66 ATGAGAAGAACTTGTTCAACCTT
2245002 AACTTGATTC
Statistics
Matches: 413, Mismatches: 38, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
122 5 0.01
123 407 0.99
124 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (124 bp):
ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAAGATAGATCAGC
Found at i:2244995 original size:20 final size:20
Alignment explanation
Indices: 2244932--2244995 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
2244922 TTCCAGATAG
2244932 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * **
2244952 CG-TC-TAAAGAGAAAGAAGA
1 AGTTCATAATGAG-AAGAACT
2244971 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
2244991 TGTTC
1 AGTTC
2244996 GACCTTAACT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 12 0.38
21 6 0.19
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:2245094 original size:140 final size:139
Alignment explanation
Indices: 2244915--2245169 Score: 375
Period size: 140 Copynumber: 1.8 Consensus size: 139
2244905 TAGATCATCA
* * *
2244915 TCAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCGTCTAAAGAGAAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCTAAAAAGAAAGAAGAAGTTCATAA
* * * *
2244980 TGAGAAGAACTTGTTCGACCTTAACTTGATTCATCACCTATGGAGTTGAATTAGAGAAAAACATC
66 TGAGAAGAACTTGTTCAACCTTAACTTAATTCAT-ACATATGAAGTTGAATTAGAGAAAAACATC
2245045 ACTCAAGGGG
130 ACTCAAGGGG
* * * *
2245055 TCAATATTTCCAGAGAAAGTTCATAATGAGAATAACTCGTCTAAAAAGGAATAAGAAGTTCATAA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCTAAAAAGAAAGAAGAAGTTCATAA
* **
2245120 TGAGAAGAATTTGTTCAACCTTGCCTTAATTCATACATATGAAGTTGAAT
66 TGAGAAGAACTTGTTCAACCTTAACTTAATTCATACATATGAAGTTGAAT
2245170 CAACGACACC
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
139 14 0.14
140 87 0.86
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (139 bp):
TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCTAAAAAGAAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTAACTTAATTCATACATATGAAGTTGAATTAGAGAAAAACATCA
CTCAAGGGG
Found at i:2245833 original size:13 final size:13
Alignment explanation
Indices: 2245815--2245840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2245805 GATTCGAAAG
2245815 TATAATATATATA
1 TATAATATATATA
2245828 TATAATATATATA
1 TATAATATATATA
2245841 GATACTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATAATATATATA
Found at i:2248998 original size:38 final size:41
Alignment explanation
Indices: 2248872--2249012 Score: 227
Period size: 42 Copynumber: 3.5 Consensus size: 41
2248862 AGCACCCATA
*
2248872 TCTAACCTCTTAAGATGATGAGAAGGAGGAGTCTTTGAGAT
1 TCTAACCTCTTAAGATGATGAGAAGGATGAGTCTTTGAGAT
2248913 TCTAACCTCTTAAGATGATGAGGAAGGATGAGTCTTTGAGAT
1 TCTAACCTCTTAAGATGATGA-GAAGGATGAGTCTTTGAGAT
2248955 TCTAACCTCTT-A-A-GATGAG-AGGATGAGTCGTTTGAGAT
1 TCTAACCTCTTAAGATGATGAGAAGGATGAGTC-TTTGAGAT
2248993 TCTAACCTCTTAAGATGATG
1 TCTAACCTCTTAAGATGATG
2249013 GGGAGCTTTG
Statistics
Matches: 94, Mismatches: 1, Indels: 10
0.90 0.01 0.10
Matches are distributed among these distances:
37 10 0.11
38 20 0.21
39 6 0.06
40 2 0.02
41 26 0.28
42 30 0.32
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (41 bp):
TCTAACCTCTTAAGATGATGAGAAGGATGAGTCTTTGAGAT
Found at i:2250220 original size:39 final size:39
Alignment explanation
Indices: 2250166--2250244 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
2250156 GTCGATAACC
2250166 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
1 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
*
2250205 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCGGTTCT
1 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
2250244 C
1 C
2250245 TAGTAGTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (39 bp):
CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
Found at i:2256733 original size:21 final size:20
Alignment explanation
Indices: 2256707--2256750 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
2256697 ATGATTTGGG
* *
2256707 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCC-TT
2256728 CAAGGGGAACCGATACCCTT
1 CAAGGGGAACCGATACCCTT
2256748 CAA
1 CAA
2256751 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (20 bp):
CAAGGGGAACCGATACCCTT
Found at i:2258104 original size:31 final size:31
Alignment explanation
Indices: 2258046--2258122 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
2258036 AGAGTCGAGG
* * *
2258046 GTATACCTATGTTCTAAGGAACATATGGATA
1 GTATACCTAGGTTCTTAGGAACATATGGACA
* * *
2258077 GTATACCTAGGTTCTTCGGGACCTATGGACA
1 GTATACCTAGGTTCTTAGGAACATATGGACA
* *
2258108 GT-TACCGAGGATCTT
1 GTATACCTAGGTTCTT
2258123 TACGACCTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (31 bp):
GTATACCTAGGTTCTTAGGAACATATGGACA
Found at i:2258197 original size:29 final size:30
Alignment explanation
Indices: 2258096--2258194 Score: 146
Period size: 30 Copynumber: 3.3 Consensus size: 30
2258086 GGTTCTTCGG
* *
2258096 GACCTATGGACAGTTACCGAGGATCTTTAC
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2258126 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2258156 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2258185 GACCTCTGGA
1 GACCTCTGGA
2258195 TAGGTCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 18 0.28
30 46 0.72
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:2261347 original size:21 final size:21
Alignment explanation
Indices: 2261321--2261365 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2261311 GATTTCTGGG
* *
2261321 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2261342 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2261363 CAA
1 CAA
2261366 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2262794 original size:30 final size:29
Alignment explanation
Indices: 2262727--2262818 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
2262717 GGTTCTTCGG
* *
2262727 GACCTATGGAAGTTACCGAGGATCTTTAC
1 GACCTCTGGAAGTTACCGAGGATCTTTAT
2262756 GA-CTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGA-AGTTACCGAGGATCTTTAT
* *
2262785 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGA-AGTTACCGAGGATCTTTAT
2262814 GACCT
1 GACCT
2262819 GGATAGGTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 6 0.11
29 35 0.62
30 15 0.27
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (29 bp):
GACCTCTGGAAGTTACCGAGGATCTTTAT
Found at i:2264806 original size:42 final size:42
Alignment explanation
Indices: 2264747--2265014 Score: 392
Period size: 42 Copynumber: 6.3 Consensus size: 42
2264737 TTATCATTAT
**
2264747 AGTTCCCCAGGTCCCTTTGCTGTGTGCAAGAATAAGCCTTAC
1 AGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
*
2264789 AGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAACCTTAC
1 AGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* * * * *
2264831 AGTTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTAC
1 AGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
2264873 AGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AG-TTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
*
2264916 AGTTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AG--TT-CCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* *
2264961 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
2265003 AGTTTCCCCAGG
1 AG-TTCCCCAGG
2265015 CTCTTTTTCT
Statistics
Matches: 205, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
42 116 0.57
43 47 0.23
44 3 0.01
45 39 0.19
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (42 bp):
AGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
Found at i:2264979 original size:130 final size:127
Alignment explanation
Indices: 2264749--2265045 Score: 409
Period size: 130 Copynumber: 2.3 Consensus size: 127
2264739 ATCATTATAG
2264749 TTCCCCAGGTCCCTTTGCTGTGTGCAAGAATAAGCCTTACAGTTCCCCAGGTCCCTTTGCTGTGT
1 TTCCCCAGGTCCCTTTGCTGTGTGCAAGAATAAGCCTTACAGTTCCCCAGGTCCCTTTGCTGTGT
2264814 GCAAGGGTAAACCTTACAGTTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAGT
66 GCAAGGGTAAACCTTACAGTTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAGT
** *
2264876 TTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCCCAGGTTCCTTTGCTG
1 TTCCCCAGGTCCCTTTGCTGTGTGCAAGAATAAGCCTTACAG--TT-CCCCAGGTCCCTTTGCTG
* ** * * *
2264941 TGTGCAAGGGTAAGCCTTACAGTTTCCC-AGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG
63 TGTGCAAGGGTAAACCTTACAG-TTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAG
2265005 T
127 T
* * * *
2265006 TTCCCCAGG-CTCTTTTTCTATGTGCAAGTATAAGACCTTA
1 TTCCCCAGGTC-CCTTTGCTGTGTGCAAGAATAAG-CCTTA
2265046 TCGTTTTTGC
Statistics
Matches: 150, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
127 40 0.27
129 3 0.02
130 97 0.65
131 10 0.07
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.32
Consensus pattern (127 bp):
TTCCCCAGGTCCCTTTGCTGTGTGCAAGAATAAGCCTTACAGTTCCCCAGGTCCCTTTGCTGTGT
GCAAGGGTAAACCTTACAGTTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAGT
Found at i:2265074 original size:87 final size:87
Alignment explanation
Indices: 2264751--2265083 Score: 272
Period size: 85 Copynumber: 3.8 Consensus size: 87
2264741 CATTATAGTT
* * * * *
2264751 CCCCAGG-TCCCTTTGCTGTGTGCAAGAATAAGCCTTACAGTTCCCCAGG-TCCCTTTGCTGTGT
1 CCCCAGGCT-CCTTTGCTATGTGCAAGGATAAGCCTTACAGTTTCCCAGGCT-CCTCTACTGTGT
*
2264814 GCAAGGGTAAACCTTACAG--TT-
64 GCAAGGGTAAGCCTTACAGTTTTC
* * * * * * * *
2264835 CCCTAGGAC-CCTTTGATGTATCCAAGGGTAAGCCTTACAGTTTCCCCAGG-TCCCTTTGCTGTG
1 CCCCAGG-CTCCTTTGCTATGTGCAAGGATAAGCCTTACAGTTT-CCCAGGCT-CCTCTACTGTG
2264898 TGCAAGGGTAAGCCTTACAGTTTTC
63 TGCAAGGGTAAGCCTTACAGTTTTC
* * * * * *
2264923 CCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGC
1 CCCCAGGCTCCTTTGCTATGTGCAAGGATAAGCCTTACAGTTTCCCAGGCTCCTCTACTGTGTGC
2264988 AAGGGTAAGCCTTACAG-TTT-
66 AAGGGTAAGCCTTACAGTTTTC
* * * ** * *
2265008 CCCCAGGCTCTTTTTCTATGTGCAAGTATAAGACCTTATC-GTTTTTGCATGCTCCTCTACTTTG
1 CCCCAGGCTCCTTTGCTATGTGCAAGGATAAG-CCTTA-CAG-TTTCCCAGGCTCCTCTACTGTG
2265072 TGCACAGGGTAA
63 TGCA-AGGGTAA
2265084 ATATGCATCT
Statistics
Matches: 211, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
84 34 0.16
85 64 0.30
86 9 0.04
87 59 0.28
88 45 0.21
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (87 bp):
CCCCAGGCTCCTTTGCTATGTGCAAGGATAAGCCTTACAGTTTCCCAGGCTCCTCTACTGTGTGC
AAGGGTAAGCCTTACAGTTTTC
Found at i:2265081 original size:130 final size:129
Alignment explanation
Indices: 2264749--2265084 Score: 362
Period size: 130 Copynumber: 2.6 Consensus size: 129
2264739 ATCATTATAG
* * * *
2264749 TTCCCCAGGTCCCTTTGCTGTGTGCAAGAATAAGCCTTACAG--TTCCCCAGG-TCCCTTTGCTG
1 TTCCCCAGGTCCCTTTGCTATGTGCAAGGATAAGCCTTACAGTTTTCCCCAGGCT-CCTCTACTG
2264811 TGTGCAAGGGTAAACCTTACAGTTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAGT
65 TGTGCAAGGGTAAACCTTACAGTTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAGT
* * * * *
2264876 TTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCCCAGGTTCCTTTGCTG
1 TTCCCCAGGTCCCTTTGCTATGTGCAAGGATAAGCCTTACAGTTTT-CCCCAGGCTCCTCTACTG
* ** * * *
2264941 TGTGCAAGGGTAAGCCTTACAGTTTCCC-AGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG
65 TGTGCAAGGGTAAACCTTACAG-TTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAG
2265005 T
129 T
* * * ** *
2265006 TTCCCCAGG-CTCTTTTTCTATGTGCAAGTATAAGACCTTATC-GTTTT-TGCATGCTCCTCTAC
1 TTCCCCAGGTC-CCTTTGCTATGTGCAAGGATAAG-CCTTA-CAGTTTTCCCCAGGCTCCTCTAC
*
2265068 TTTGTGCACAGGGTAAA
63 TGTGTGCA-AGGGTAAA
2265085 TATGCATCTT
Statistics
Matches: 179, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
127 40 0.22
129 19 0.11
130 103 0.58
131 16 0.09
132 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.32
Consensus pattern (129 bp):
TTCCCCAGGTCCCTTTGCTATGTGCAAGGATAAGCCTTACAGTTTTCCCCAGGCTCCTCTACTGT
GTGCAAGGGTAAACCTTACAGTTCCCTAGGACCCTTTGATGTATCCAAGGGTAAGCCTTACAGT
Found at i:2266429 original size:18 final size:18
Alignment explanation
Indices: 2266406--2266446 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2266396 TCCTTTCTTT
2266406 TTCTCGTTTTCCCCCTTC
1 TTCTCGTTTTCCCCCTTC
2266424 TTCTCGTTTTCCCCCTTC
1 TTCTCGTTTTCCCCCTTC
2266442 TTCTC
1 TTCTC
2266447 CTCCATCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.44, G:0.05, T:0.51
Consensus pattern (18 bp):
TTCTCGTTTTCCCCCTTC
Found at i:2266444 original size:21 final size:20
Alignment explanation
Indices: 2266400--2266445 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
2266390 TCTCTTTCCT
*
2266400 TTCTTTTTCTCGTTTTCCCC
1 TTCTTCTTCTCGTTTTCCCC
2266420 --CTTCTTCTCGTTTTCCCCC
1 TTCTTCTTCTCGTTTT-CCCC
2266439 TTCTTCT
1 TTCTTCT
2266446 CCTCCATCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 13 0.59
19 4 0.18
21 5 0.23
ACGTcount: A:0.00, C:0.39, G:0.04, T:0.57
Consensus pattern (20 bp):
TTCTTCTTCTCGTTTTCCCC
Found at i:2267568 original size:24 final size:25
Alignment explanation
Indices: 2267524--2267580 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
2267514 ACGTTAGAAG
* *
2267524 ATAAATTTTAAAAAATTTTAAAA-A
1 ATAAATTTCAAAAAATATTAAAATA
2267548 ATAAATTATCAAAAAA-ATTAAAATA
1 ATAAATT-TCAAAAAATATTAAAATA
*
2267573 AGAAATTT
1 ATAAATTT
2267581 TTTAAATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
ATAAATTTCAAAAAATATTAAAATA
Found at i:2268068 original size:15 final size:16
Alignment explanation
Indices: 2268050--2268082 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2268040 GCCCCGAAAT
*
2268050 TTAATT-TTTTTTTTA
1 TTAATTATTTATTTTA
2268065 TTAATTATTTATTTTA
1 TTAATTATTTATTTTA
2268081 TT
1 TT
2268083 GATAGTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTAATTATTTATTTTA
Found at i:2271890 original size:19 final size:19
Alignment explanation
Indices: 2271866--2271917 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2271856 ATACTCATTT
2271866 ATCTGATACTGCATTAATA
1 ATCTGATACTGCATTAATA
2271885 ATCTGATACTGCATTAATA
1 ATCTGATACTGCATTAATA
*
2271904 ATTTGATACTGCAT
1 ATCTGATACTGCAT
2271918 GGGTTCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
ATCTGATACTGCATTAATA
Found at i:2284289 original size:57 final size:57
Alignment explanation
Indices: 2284201--2284316 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
2284191 GATGGAACCA
2284201 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
1 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
* * *
2284258 CCAACACCTCTGTAGCAAAACCAAGAATCTGATCCTAGTCCATGATCTTGTGAAGAT
1 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
2284315 CC
1 CC
2284317 TTCAGGTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.22
Consensus pattern (57 bp):
CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
Found at i:2299031 original size:46 final size:46
Alignment explanation
Indices: 2298975--2299107 Score: 178
Period size: 46 Copynumber: 2.9 Consensus size: 46
2298965 TTTTGAATAA
* *
2298975 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTTTGAGC
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTTCGAAC
*
2299021 ATGTATGCGAACTAGAAATCATGCGGCTAGGTTTATTTTTCTCGAAC
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTT-TCGAAC
* * * * *
2299068 AAGCATGCGAATTAGATATCATGCGGTTAGGATT-TTTTTT
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTT
2299108 GTGAATGACA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 44 0.57
47 32 0.42
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.38
Consensus pattern (46 bp):
ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTTCGAAC
Found at i:2300281 original size:72 final size:69
Alignment explanation
Indices: 2300146--2300293 Score: 224
Period size: 72 Copynumber: 2.1 Consensus size: 69
2300136 ACCTATTACA
* * *
2300146 CAAGAAAATATGAAGACTTCGGTGAGAATCTGAATGTTAGGTGCAGTCAATATGATGATAGCAAA
1 CAAGAACAGATGAAGACTTCGGTGAGAATCTGAATGTTAGGTGCAGCCAATATGATGATAGCAAA
2300211 TGAT
66 TGAT
*
2300215 CAAGAACAGATGAAGACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCG-GTGAGAATCTGAATGTTA--GGTGCAGCCAATATGATGATAGC
*
2300280 AACTGAT
63 AAATGAT
2300287 CAAGAAC
1 CAAGAAC
2300294 TTGTTAGGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 19 0.27
70 18 0.25
72 34 0.48
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.24
Consensus pattern (69 bp):
CAAGAACAGATGAAGACTTCGGTGAGAATCTGAATGTTAGGTGCAGCCAATATGATGATAGCAAA
TGAT
Found at i:2305028 original size:37 final size:38
Alignment explanation
Indices: 2304942--2305054 Score: 115
Period size: 37 Copynumber: 3.0 Consensus size: 38
2304932 AAGATTGGGG
* * *
2304942 CAAAGCCAAGTCTTCACCAAAGAGTAGTGAAGCAAATC
1 CAAAGCTAAGCCTTCACTAAAGAGTAGTGAAGCAAATC
*** *
2304980 C-ATTTTGAGCCTTCACTAAAGAGTAGTGAAGCAAA-C
1 CAAAGCTAAGCCTTCACTAAAGAGTAGTGAAGCAAATC
* *
2305016 CAAAGCTAAGCCTTCA-TCGAAGAGTAGTGAAGCATATC
1 CAAAGCTAAGCCTTCACT-AAAGAGTAGTGAAGCAAATC
2305054 C
1 C
2305055 TTTTTAAACC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
36 3 0.05
37 53 0.90
38 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (38 bp):
CAAAGCTAAGCCTTCACTAAAGAGTAGTGAAGCAAATC
Found at i:2305930 original size:54 final size:54
Alignment explanation
Indices: 2305454--2305911 Score: 747
Period size: 54 Copynumber: 8.5 Consensus size: 54
2305444 GTAGTAAAGC
* *
2305454 AGAAGAAGATGCTCGAGTTCCATACTCCCTAGATAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
2305508 AAAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * * *
2305562 AAAAGAATATGTTTGAGTTCCATACT-CCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
2305615 AGAAGAATATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCAGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
2305669 AGAAGAACATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGCAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
2305723 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
**
2305777 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACATGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
2305831 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
2305885 AGAAGAAGACGTTTGAGTTCCATACTC
1 AGAAGAAGATGTTCGAGTTCCATACTC
2305912 TCTGAAGCAA
Statistics
Matches: 381, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
53 52 0.14
54 329 0.86
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:2315042 original size:31 final size:34
Alignment explanation
Indices: 2315005--2315071 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
2314995 AAATAAATCA
2315005 AAAGAAATAAAAT-T-AA-AATTAAAAA-AAGAAT
1 AAAGAAA-AAAATATAAACAATTAAAAATAAGAAT
*
2315036 AAAGAAAAAAATATAAACAATTAAAAATAATAAT
1 AAAGAAAAAAATATAAACAATTAAAAATAAGAAT
2315070 AA
1 AA
2315072 TATAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 5 0.16
31 8 0.26
32 2 0.06
33 9 0.29
34 7 0.23
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (34 bp):
AAAGAAAAAAATATAAACAATTAAAAATAAGAAT
Found at i:2315068 original size:17 final size:17
Alignment explanation
Indices: 2315042--2315096 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
2315032 GAATAAAGAA
2315042 AAAAAT-ATAAACAATT
1 AAAAATAATAAACAATT
*
2315058 AAAAATAAT-AATAATAT
1 AAAAATAATAAACAAT-T
*
2315075 AAAAATAAGTAAACAAAT
1 AAAAATAA-TAAACAATT
2315093 AAAA
1 AAAA
2315097 CAAATCAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.34
17 11 0.34
18 6 0.19
19 4 0.12
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAATAATAAACAATT
Found at i:2315161 original size:99 final size:100
Alignment explanation
Indices: 2314975--2315161 Score: 211
Period size: 99 Copynumber: 1.9 Consensus size: 100
2314965 AATGTTAGAG
* * *
2314975 AAAATAAATAAATAAATACTAAATAAATCAAAAGAAATAAAATTAAAATTAAAAAAAGAATAAAG
1 AAAATAAATAAACAAATAC-AAACAAATCAAAAGAAATAAAATCAAAATTAAAAAAAGAATAAAG
* **
2315040 AAAAAAATATAAACAATTAAAAATAATAATAATATA
65 AAAAAAATATAAAAAACCAAAAATAATAATAATATA
* * *
2315076 AAAATAAGTAAACAAATA-AAACAAATCAAAGGAAAATAAAA-CAAAATGTAAAAAAATAAT-AA
1 AAAATAAATAAACAAATACAAACAAATCAAAAG-AAATAAAATCAAAAT-TAAAAAAAGAATAAA
* *
2315138 TAAAAATAT-TAAATAAACCAAAAA
64 GAAAAAAATATAAA-AAACCAAAAA
2315162 ATATAAAATG
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
98 4 0.06
99 33 0.46
100 19 0.26
101 16 0.22
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (100 bp):
AAAATAAATAAACAAATACAAACAAATCAAAAGAAATAAAATCAAAATTAAAAAAAGAATAAAGA
AAAAAATATAAAAAACCAAAAATAATAATAATATA
Found at i:2315184 original size:24 final size:24
Alignment explanation
Indices: 2315118--2315184 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
2315108 AAAATAAAAC
*
2315118 AAAATGTAAA-AAAAT-AATAATAA
1 AAAATG-AAATAAAATAAAAAATAA
* ** *
2315141 AAATATTAAATAAACCAAAAAATAT
1 AAA-ATGAAATAAAATAAAAAATAA
2315166 AAAATGAAATAAAATAAAA
1 AAAATGAAATAAAATAAAA
2315185 TAGAAAGAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
23 6 0.18
24 18 0.55
25 9 0.27
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAATGAAATAAAATAAAAAATAA
Found at i:2316384 original size:15 final size:14
Alignment explanation
Indices: 2316338--2316386 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 14
2316328 GGACCTGGAC
2316338 AAAAA-AAATAAAT
1 AAAAAGAAATAAAT
2316351 AAAAAGAAATTAAATT
1 AAAAAGAAA-TAAA-T
2316367 AAAAAGAAGATAAAT
1 AAAAAGAA-ATAAAT
2316382 AAAAA
1 AAAAA
2316387 CATATAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.16
14 3 0.09
15 10 0.31
16 13 0.41
17 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
AAAAAGAAATAAAT
Found at i:2316479 original size:13 final size:13
Alignment explanation
Indices: 2316457--2316518 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
2316447 ATATTATGCT
*
2316457 TTTTTAAAAAGATA
1 TTTTCAAAAA-ATA
**
2316471 TTTTCAAAACCCTA
1 TTTTCAAAA-AATA
2316485 -TTTCAAAAAATA
1 TTTTCAAAAAATA
2316497 -TTTCAAAAAATA
1 TTTTCAAAAAATA
*
2316509 TTTTTAAAAA
1 TTTTCAAAAA
2316519 CTATATATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 14 0.35
13 16 0.40
14 10 0.25
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.39
Consensus pattern (13 bp):
TTTTCAAAAAATA
Found at i:2316518 original size:12 final size:12
Alignment explanation
Indices: 2316483--2316511 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2316473 TTCAAAACCC
2316483 TATTTCAAAAAA
1 TATTTCAAAAAA
2316495 TATTTCAAAAAA
1 TATTTCAAAAAA
2316507 TATTT
1 TATTT
2316512 TTAAAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
TATTTCAAAAAA
Found at i:2316543 original size:38 final size:38
Alignment explanation
Indices: 2316501--2316679 Score: 144
Period size: 38 Copynumber: 4.9 Consensus size: 38
2316491 AAAATATTTC
*
2316501 AAAAAATATTTTTAAAAACTATATATTATATATGTTTT
1 AAAAAATATTTTCAAAAACTATATATTATATATGTTTT
* *
2316539 AAAAAATGTTTTCAAAAATTATATATTATATAT-TTTT
1 AAAAAATATTTTCAAAAACTATATATTATATATGTTTT
* * * *
2316576 -TAAAA-A---TCAAAAAATATATATTAAATATATTTT
1 AAAAAATATTTTCAAAAACTATATATTATATATGTTTT
* ** *
2316609 CAAAAGCATTTCCAAAAACTATATATATTATATATGTTTT
1 AAAAAATATTTTCAAAAAC--TATATATTATATATGTTTT
*
2316649 --CAAA-ATTTTC-AAAACTATAATATATATATAT
1 AAAAAATATTTTCAAAAACTAT-ATAT-TATATAT
2316680 ATATATATAT
Statistics
Matches: 115, Mismatches: 16, Indels: 22
0.75 0.10 0.14
Matches are distributed among these distances:
32 20 0.17
33 4 0.03
34 6 0.05
35 5 0.04
36 16 0.14
37 9 0.08
38 38 0.33
40 17 0.15
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (38 bp):
AAAAAATATTTTCAAAAACTATATATTATATATGTTTT
Found at i:2316625 original size:70 final size:72
Alignment explanation
Indices: 2316514--2316654 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 72
2316504 AAATATTTTT
* * * ** * *
2316514 AAAAACTATATATTATATATGTTTTAAAAAATGTTTTCAAAAA-T-TATATATTATATATTTTTT
1 AAAAAATATATATTAAATATATTTTAAAAAACATTTCCAAAAACTATATATATTATATATGTTTT
2316577 AAAAATC
66 AAAAATC
* *
2316584 AAAAAATATATATTAAATATATTTTCAAAAGCATTTCCAAAAACTATATATATTATATATGTTTT
1 AAAAAATATATATTAAATATATTTTAAAAAACATTTCCAAAAACTATATATATTATATATGTTTT
*
2316649 CAAAAT
66 AAAAAT
2316655 TTTCAAAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 35 0.59
71 1 0.02
72 23 0.39
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (72 bp):
AAAAAATATATATTAAATATATTTTAAAAAACATTTCCAAAAACTATATATATTATATATGTTTT
AAAAATC
Found at i:2316676 original size:72 final size:71
Alignment explanation
Indices: 2316510--2316681 Score: 177
Period size: 70 Copynumber: 2.4 Consensus size: 71
2316500 CAAAAAATAT
* * ** *
2316510 TTTTAAAAACTATATATTATATATGTTTTAAAAAATGTTTTCAAAAATTATATATTATATATTTT
1 TTTTCAAAACTATATATTATATATATTTTAAAAAACATTTCCAAAAATTATATATTATATATTTT
*
2316575 TTAAAA
66 TCAAAA
* * * * *
2316581 --ATCAAAAAATATATATTAAATATATTTTCAAAAGCATTTCCAAAAACTATATATATTATATAT
1 TTTTC-AAAACTATATATTATATATATTTTAAAAAACATTTCCAAAAA-T-TATATATTATATAT
2316644 GTTTTCAAAA
63 -TTTTCAAAA
2316654 TTTTCAAAACTATAATATATATATATAT
1 TTTTCAAAACTAT-ATAT-TATATATAT
2316682 ATATATATAT
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
69 1 0.01
70 34 0.43
71 1 0.01
72 14 0.18
73 8 0.10
74 7 0.09
75 6 0.08
76 8 0.10
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.44
Consensus pattern (71 bp):
TTTTCAAAACTATATATTATATATATTTTAAAAAACATTTCCAAAAATTATATATTATATATTTT
TCAAAA
Found at i:2317077 original size:32 final size:31
Alignment explanation
Indices: 2317022--2317137 Score: 117
Period size: 32 Copynumber: 3.7 Consensus size: 31
2317012 GATAGATTTT
2317022 GATAAGTTTAATAATTATTTTATAACAGTTC
1 GATAAGTTTAATAATTATTTTATAACAGTTC
* * * *
2317053 GATAAGTTCTAATGATAATTTTAT-ACTAATTT
1 GATAAGTT-TAATAATTATTTTATAAC-AGTTC
* * *
2317085 GATAAAATTTAATAATTATTATGTAACAGTTC
1 GAT-AAGTTTAATAATTATTTTATAACAGTTC
* *
2317117 TATAAGTTTAATGATTATTTT
1 GATAAGTTTAATAATTATTTT
2317138 CTTAACTTCT
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
31 25 0.38
32 35 0.53
33 6 0.09
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (31 bp):
GATAAGTTTAATAATTATTTTATAACAGTTC
Found at i:2317099 original size:64 final size:62
Alignment explanation
Indices: 2317019--2317137 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 62
2317009 ATTGATAGAT
* *
2317019 TTTGATAAGTTTAATAATTATTTTATAACAGTTCGATAAGTTCTAATGATAATTTTATACTAA
1 TTTGATAAATTTAATAATTATTATATAACAGTTCGATAAGTT-TAATGATAATTTTATACTAA
* * *
2317082 TTTGATAAAATTTAATAATTATTATGTAACAGTTCTATAAGTTTAATGATTATTTT
1 TTTGAT-AAATTTAATAATTATTATATAACAGTTCGATAAGTTTAATGATAATTTT
2317138 CTTAACTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
63 18 0.36
64 32 0.64
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (62 bp):
TTTGATAAATTTAATAATTATTATATAACAGTTCGATAAGTTTAATGATAATTTTATACTAA
Found at i:2352652 original size:25 final size:24
Alignment explanation
Indices: 2352628--2352727 Score: 64
Period size: 25 Copynumber: 4.2 Consensus size: 24
2352618 AAGACGAAAT
2352628 AAAAGAAAAAATGAGAAAAAAAAA
1 AAAAGAAAAAATGAGAAAAAAAAA
* ** * *
2352652 TGATGGAAAAAA--CGAAAGAAAAA
1 -AAAAGAAAAAATGAGAAAAAAAAA
* * *
2352675 AGAAGAAAAAATG-GAAAAGGGAAGA
1 AAAAGAAAAAATGAGAAAA--AAAAA
2352700 AAAAGAGAAAAATGA-AAAAAAAAA
1 AAAAGA-AAAAATGAGAAAAAAAAA
2352724 AAAA
1 AAAA
2352728 TAAAGGAGGG
Statistics
Matches: 54, Mismatches: 15, Indels: 13
0.66 0.18 0.16
Matches are distributed among these distances:
22 7 0.13
23 13 0.24
24 7 0.13
25 16 0.30
26 11 0.20
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (24 bp):
AAAAGAAAAAATGAGAAAAAAAAA
Found at i:2354187 original size:99 final size:99
Alignment explanation
Indices: 2354002--2354298 Score: 447
Period size: 99 Copynumber: 2.9 Consensus size: 99
2353992 AAACTCGTTT
2354002 GTTGAAGATTGAGTCCTATACTCTCTG-AGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGT
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTT-GTTGAAGATTGAGT
2354066 CCTATACTCTCTGAAGGAATAGGAGCGGACAAGTTC
65 CCTATACTCTCTGAAGG-ATAGGAGCGGACAAGTTC
2354102 GTTGAAGA-TGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTGTTGAAGATTGAGTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTGTTGAAGATTGAGTC
*
2354166 CTATACTCCTCTGAAGGATAGGGGCGGACAAGTTC
66 CTATACT-CTCTGAAGGATAGGAGCGGACAAGTTC
* * *
2354201 GTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATC
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAG-TTGTTGAAGATT
*
2354266 GAGT-CTATACTCTCTGAAGGAAAGGGAGCGGAC
61 GAGTCCTATACTCTCTGAAGGATA-GGAGCGGAC
2354299 CCCTTTATGA
Statistics
Matches: 182, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
99 65 0.36
100 39 0.21
103 11 0.06
104 53 0.29
105 14 0.08
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (99 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTGTTGAAGATTGAGTC
CTATACTCTCTGAAGGATAGGAGCGGACAAGTTC
Found at i:2354274 original size:104 final size:103
Alignment explanation
Indices: 2354010--2354458 Score: 431
Period size: 104 Copynumber: 4.4 Consensus size: 103
2354000 TTGTTGAAGA
* ** *
2354010 TTGAGTCCTATACTCTCTG-AGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCCTATACT
2354074 CTCTGAAGGAATAGGAGCGGACAAGTTCGTTGA-A--G-
66 CTCTGAAGG-ATAGGAGCGGACAAGTTCGTTGAGATTGT
* * * *
2354109 ATGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAG-TTGTTGAAGATTGAGTCCTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCCTATACT
*
2354173 CCTCTGAAGGATAGGGGCGGACAAGTTCGTTGAAGATTGT
66 -CTCTGAAGGATAGGAGCGGACAAGTTCGTTG-AGATTGT
2354213 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGT-CTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCCTATACT
* ***
2354277 CTCTGAAGGAAAGGGAGCGGACCCCTT--TATGAGATTGT
66 CTCTGAAGGATA-GGAGCGGACAAGTTCGT-TGAGATTGT
* * ** * * *
2354315 TCGAGTTCTATACTC-CTGAACGG-ATAGGGAGCAAACTCGTTTA--GAAATTGTTCGAGTTCTA
1 TTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACACGTTTATTG-AA--GATCGAGTCCTA
* * * **
2354376 TACTCCCTGAATGAATAGGAAGCGGAC-CGTTTATTGAGATTGT
62 TACTCTCTGAA-GGATAGG-AGCGGACAAGTTCGTTGAGATTGT
* * * * *
2354419 TCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACG
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACG
2354459 CCATTTGAAG
Statistics
Matches: 302, Mismatches: 27, Indels: 36
0.83 0.07 0.10
Matches are distributed among these distances:
99 63 0.21
100 32 0.11
101 23 0.08
102 30 0.10
103 32 0.11
104 88 0.29
105 34 0.11
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (103 bp):
TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCCTATACT
CTCTGAAGGATAGGAGCGGACAAGTTCGTTGAGATTGT
Found at i:2354306 original size:49 final size:51
Alignment explanation
Indices: 2354002--2354298 Score: 457
Period size: 50 Copynumber: 5.9 Consensus size: 51
2353992 AAACTCGTTT
2354002 GTTGAAGATTGAGTCCTATACTCTCTG-AGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
2354052 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATA-GGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
2354102 GTTGAAGA-TGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTT-
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
2354151 GTTGAAGATTGAGTCCTATACTCCTCTGAAGG-ATAGGG-GCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACT-CTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
2354201 GTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTT
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
2354256 ATTGAAGATCGAGT-CTATACTCTCTGAAGGAA-AGGGAGCGGAC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
2354299 CCCTTTATGA
Statistics
Matches: 232, Mismatches: 4, Indels: 23
0.90 0.02 0.09
Matches are distributed among these distances:
49 56 0.24
50 109 0.47
51 21 0.09
53 9 0.04
54 20 0.09
55 17 0.07
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:2354346 original size:52 final size:52
Alignment explanation
Indices: 2354111--2354451 Score: 244
Period size: 51 Copynumber: 6.6 Consensus size: 52
2354101 CGTTGAAGAT
* ** *
2354111 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAG-TTGTTGA-A--GATT-
1 GAGTTCTATACTC-CTGAAGG-ATAGGGAGCGGACCCGTTTATTGAGATTG-TTC
* ** ** *
2354161 GAGTCCTATACTCCTCTGAAGGATAGGG-GCGGACAAGTTCGTTGAAGATTGTTT
1 GAGTTCTATACT-C-CTGAAGGATAGGGAGCGGACCCGTTTATTG-AGATTGTTC
* * *
2354215 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGA-A--GATC
1 GAGTTCTATACTC-CTGAAGG-ATAGGGAGCGGACCCGTTTATTGAGATTGTTC
* *
2354266 GAG-TCTATACTCTCTGAAGGAAAGGGAGCGGACCCCTTTA-TGAGATTGTTC
1 GAGTTCTATACTC-CTGAAGGATAGGGAGCGGACCCGTTTATTGAGATTGTTC
** * *
2354317 GAGTTCTATACTCCTGAACGGATAGGGAGCAAACTCGTTTA--GAAATTGTTC
1 GAGTTCTATACTCCTGAA-GGATAGGGAGCGGACCCGTTTATTGAGATTGTTC
* *
2354368 GAGTTCTATACTCCCTGAATGAATAGGAAGCGGA-CCGTTTATTGAGATTGTTC
1 GAGTTCTATACT-CCTGAA-GGATAGGGAGCGGACCCGTTTATTGAGATTGTTC
*
2354421 GAG-TCTTATACTCCCTGAATGAATAGGGAGC
1 GAGTTC-TATACT-CCTGAA-GGATAGGGAGC
2354452 AGACACGCCA
Statistics
Matches: 248, Mismatches: 25, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
48 3 0.01
49 27 0.11
50 39 0.16
51 53 0.21
52 45 0.18
53 48 0.19
54 20 0.08
55 13 0.05
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (52 bp):
GAGTTCTATACTCCTGAAGGATAGGGAGCGGACCCGTTTATTGAGATTGTTC
Found at i:2354365 original size:153 final size:153
Alignment explanation
Indices: 2354000--2354456 Score: 464
Period size: 153 Copynumber: 3.0 Consensus size: 153
2353990 GCAAACTCGT
*
2354000 TTGTTGAAGATTGAGTCCTATACT-CTCTG-AGGAATAGGGAGCGGACAAGTTCGTTGAAGA---
1 TTGTTGAAGATTGAGTCCTATACTCCTCTGAAGG-ATAGGG-GC-GACAAGCTCGTTGAAGATTG
* **
2354060 -TTGAGTCCTATACTCTCTGAAGGAATA-GGAGCGGACAAGTTCGTTGAAGAT-GAGTCCTATAC
63 TTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGT-CTATAC
*
2354122 TCTCTGAAGGAATAGGGAGCGGACAAG
127 TCTCTGAAGGAATAGGGAGCGGACAAC
*
2354149 TTGTTGAAGATTGAGTCCTATACTCCTCTGAAGGATAGGGGCGGACAAGTTCGTTGAAGATTGTT
1 TTGTTGAAGATTGAGTCCTATACTCCTCTGAAGGATAGGGGC-GACAAGCTCGTTGAAGATTGTT
2354214 TGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCTATACTCT
65 TGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCTATACTCT
**
2354279 CTGAAGGAA-AGGGAGCGGACCCC
130 CTGAAGGAATAGGGAGCGGACAAC
*
2354302 TT-TATG-AGATTGTTCGAGTTCTATACT-C-CTGAACGGATAGGGAGC-A-AA-CTCGTTTAGA
1 TTGT-TGAAGA---TT-GAGTCCTATACTCCTCTGAA-GGATAGGG-GCGACAAGCTCG-TT-GA
* * * * * *
2354360 A-ATTGTTCGAGTTCTATACTCCCTGAATGAATAGGAAGCGGAC-CGTTTATTGAGATTGTTCGA
57 AGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGA-A--GATCGA
* * *
2354423 GTCTTATACTCCCTGAATGAATAGGGAGCAGACA
119 GTC-TATACTCTCTGAAGGAATAGGGAGCGGACA
2354457 CGCCATTTGA
Statistics
Matches: 268, Mismatches: 18, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
149 44 0.16
150 11 0.04
151 3 0.01
152 17 0.06
153 84 0.31
154 48 0.18
155 23 0.09
156 28 0.10
157 10 0.04
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (153 bp):
TTGTTGAAGATTGAGTCCTATACTCCTCTGAAGGATAGGGGCGACAAGCTCGTTGAAGATTGTTT
GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCTATACTCTC
TGAAGGAATAGGGAGCGGACAAC
Found at i:2376275 original size:40 final size:40
Alignment explanation
Indices: 2376179--2376296 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 40
2376169 AACAAAAAAA
* * *
2376179 AGAGAT-AGAG-TAGTAGAATATTTAAACTATTTAGTTA-T
1 AGAGATAAGAGTTA-TAGGATATCTAAACTACTTAGTTATT
*
2376217 AGAGATAAGAGTTCTAGGATATCTAAACTACTTAGTTATT
1 AGAGATAAGAGTTATAGGATATCTAAACTACTTAGTTATT
*
2376257 AGAGATAAGAGTTATAGGAAATCTAAACTACTTAGTTATT
1 AGAGATAAGAGTTATAGGATATCTAAACTACTTAGTTATT
2376297 TACAGTAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 6 0.08
39 25 0.35
40 40 0.56
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.35
Consensus pattern (40 bp):
AGAGATAAGAGTTATAGGATATCTAAACTACTTAGTTATT
Found at i:2380230 original size:28 final size:27
Alignment explanation
Indices: 2380177--2380230 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
2380167 AAACCATTAG
* *
2380177 ACATCATATTAAAAATAATTCGAATAA
1 ACATCATATTAAAAAGAATTCAAATAA
*
2380204 ACATCAATATTAAAAAGAATTTAAATA
1 ACATC-ATATTAAAAAGAATTCAAATA
2380231 TTAATAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (27 bp):
ACATCATATTAAAAAGAATTCAAATAA
Found at i:2385738 original size:70 final size:71
Alignment explanation
Indices: 2385656--2385826 Score: 221
Period size: 70 Copynumber: 2.5 Consensus size: 71
2385646 AACTAACGGT
* *
2385656 TAAAATAAAATAGGCGCTA-TTATTATGTTAAAATACCTA-GTTTGTTTAAAGGT-TACTATAAT
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAAATACCTACGTTTGTTTAAAGGTATA--ATAAT
2385718 GTAAACAG
64 GTAAACAG
* *
2385726 TAAAATAAAATAGGAG-TACCTATTACGTTAAAATACCTACGGTTTGTTTAAAGGTATAATAATT
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAAATACCTAC-GTTTGTTTAAAGGTATAATAATG
2385790 TAAACAG
65 TAAACAG
*
2385797 TAAAATAAAATAGACGCTA---ATTACGTTAAA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAA
2385827 TAATCGCTAC
Statistics
Matches: 90, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
69 13 0.14
70 33 0.37
71 26 0.29
72 16 0.18
73 2 0.02
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (71 bp):
TAAAATAAAATAGGCGCTACCTATTACGTTAAAATACCTACGTTTGTTTAAAGGTATAATAATGT
AAACAG
Found at i:2385910 original size:75 final size:75
Alignment explanation
Indices: 2385824--2385999 Score: 201
Period size: 75 Copynumber: 2.3 Consensus size: 75
2385814 TAATTACGTT
* * * * *
2385824 AAATAATCGCTACATATTATGTTAAACTACT-TATCAGTTTGTTTAAAGGTTACTAATAATGTAA
1 AAATAAGCGCTACCTATTACGTTAAAAT-CTCTATCAGTTTGTTTAAAGATTACTAATAATGTAA
*
2385888 ATGATAAAATA
65 AGGATAAAATA
* * * * *
2385899 AAATAAGCGCTACCTATTGCATTAAAATGTCTATCGGTTTGTTTAAAGATTATTAATAATGTAAA
1 AAATAAGCGCTACCTATTACGTTAAAATCTCTATCAGTTTGTTTAAAGATTACTAATAATGTAAA
*
2385964 GGGTAAAATA
66 GGATAAAATA
* * *
2385974 GAATAGGTGCTACCTATTACGTTAAA
1 AAATAAGCGCTACCTATTACGTTAAA
2386000 TAAGTGCTAC
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
74 1 0.01
75 82 0.99
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (75 bp):
AAATAAGCGCTACCTATTACGTTAAAATCTCTATCAGTTTGTTTAAAGATTACTAATAATGTAAA
GGATAAAATA
Found at i:2386006 original size:23 final size:23
Alignment explanation
Indices: 2385975--2386022 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2385965 GGTAAAATAG
*
2385975 AATAGGTGCTACCTATTACGTTA
1 AATAAGTGCTACCTATTACGTTA
* *
2385998 AATAAGTGCTACTTATTATGTTA
1 AATAAGTGCTACCTATTACGTTA
2386021 AA
1 AA
2386023 CTATTTATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (23 bp):
AATAAGTGCTACCTATTACGTTA
Found at i:2386025 original size:173 final size:165
Alignment explanation
Indices: 2385670--2386076 Score: 470
Period size: 173 Copynumber: 2.4 Consensus size: 165
2385660 ATAAAATAGG
* * *
2385670 CGCTA-TTATTATGTTAAAATAC--CT-AGTTTGTTTAAAGGTTACT-ATAATGTAAACAGTAAA
1 CGCTACTTATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAAGA-TAAA
* * *
2385730 ATAAAATAGGAGTACCTATTACGTTAAAATACCTACGGTTTGTTTAAAGGTATAATAATTTAAAC
65 ATAAAATAAGAGTACCTATTACATTAAAATACCTACGGTTTGTTTAAAGGTATAATAATGTAAAC
2385795 AGTAAAATAAAATAGACGCTAATTACGTTAAATAAT
130 AGTAAAATAAAATAGACGCTAATTACGTTAAATAAT
*
2385831 CGCTACATATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAATGATAAA
1 CGCTACTTATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAA-GATAAA
* * ** *
2385896 ATAAAATAAGCGCTACCTATTGCATTAAAATGTCTATCGGTTTGTTTAAAGATTATTAATAATGT
65 ATAAAATAAGAG-TACCTATTACATTAAAATACCTA-CGGTTTGTTTAAAG-GTA-TAATAATGT
** * **
2385961 AAAGGGTAAAATAGAATAGGTGCTACCTATTACGTTAAATAAGT
126 AAACAGTAAAATAAAATAGACGCTA---ATTACGTTAAATAA-T
* *
2386005 -GCTACTTATTATGTTAAACTATTTATCGGTTTGTTTAAAAGG-TA-TCAATAATGTAAACGATA
1 CGCTACTTATTATGTTAAACTACTTATCAGTTTGTTT-AAAGGTTACT-AATAATGTAAA-GATA
2386067 AAATAAAATA
63 AAATAAAATA
2386077 GGTGCTACTT
Statistics
Matches: 209, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
161 5 0.02
162 15 0.07
164 1 0.00
165 19 0.09
166 24 0.11
167 20 0.10
168 14 0.07
169 2 0.01
170 28 0.13
172 1 0.00
173 74 0.35
174 6 0.03
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (165 bp):
CGCTACTTATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAAGATAAAA
TAAAATAAGAGTACCTATTACATTAAAATACCTACGGTTTGTTTAAAGGTATAATAATGTAAACA
GTAAAATAAAATAGACGCTAATTACGTTAAATAAT
Found at i:2386113 original size:98 final size:98
Alignment explanation
Indices: 2385930--2386113 Score: 246
Period size: 98 Copynumber: 1.9 Consensus size: 98
2385920 TTAAAATGTC
* * * * *
2385930 TATCGGTTTGTTTAAAGATTATTAATAATGTAAAGGGTAAAATAGAATAGGTGCTACCTATTACG
1 TATCGGTTTGTTTAAAGAGTATCAATAATGTAAACGATAAAATAAAATAGGTGCTACCTATTACG
** *
2385995 TTAAATAAGTGCTACTTATTATGTTAAACTATT
66 TTAAATAAGCACTACCTATTATGTTAAACTATT
* *
2386028 TATCGGTTTGTTTAAA-AGGTATCAATAATGTAAACGATAAAATAAAATAGGTGCTACTTATTAT
1 TATCGGTTTGTTTAAAGA-GTATCAATAATGTAAACGATAAAATAAAATAGGTGCTACCTATTAC
2386092 GTTAAAT-AGACACTACCTATTA
65 GTTAAATAAG-CACTACCTATTA
2386114 CATCAAATAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 3 0.04
98 71 0.96
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (98 bp):
TATCGGTTTGTTTAAAGAGTATCAATAATGTAAACGATAAAATAAAATAGGTGCTACCTATTACG
TTAAATAAGCACTACCTATTATGTTAAACTATT
Found at i:2386367 original size:153 final size:153
Alignment explanation
Indices: 2386174--2386462 Score: 463
Period size: 153 Copynumber: 1.9 Consensus size: 153
2386164 ATGTTAATAA
* *
2386174 TAATGTAAACAGTAAAATATATACAACTTAACCGTCTGAAATATTTTTTTAAAATTCGAAAGTAT
1 TAATGCAAACAGTAAAATATATACAACTTAACCATCTGAAATATTTTTTTAAAATTCGAAAGTAT
* * *
2386239 GAATACTTACTCTAAAAGTAT-AGATACTCTAAAGGTTAATAATAATGTATTCATATTTACTCTA
66 GAATACTTACTCTAAAAATATGAAAT-CTCTAAAGGTTAATAATAATGTATACATATTTACTCTA
2386303 AAAGTATATATGTTGTTTCGACAT
130 AAAGTATATATGTTGTTTCGACAT
* *
2386327 TAATGCAAACGGTAAAATATATACAACTTAACCATTTGAAATATTTTTTTAAAATTCGAAAGTAT
1 TAATGCAAACAGTAAAATATATACAACTTAACCATCTGAAATATTTTTTTAAAATTCGAAAGTAT
* * * *
2386392 GTATATTTACTCTAAAAATATGAAATCTCTAAAGTTTAATAATAATGTATACATGTTTACTCTAA
66 GAATACTTACTCTAAAAATATGAAATCTCTAAAGGTTAATAATAATGTATACATATTTACTCTAA
2386457 AAGTAT
131 AAGTAT
2386463 TGATATTTGA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
153 121 0.98
154 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (153 bp):
TAATGCAAACAGTAAAATATATACAACTTAACCATCTGAAATATTTTTTTAAAATTCGAAAGTAT
GAATACTTACTCTAAAAATATGAAATCTCTAAAGGTTAATAATAATGTATACATATTTACTCTAA
AAGTATATATGTTGTTTCGACAT
Found at i:2386810 original size:108 final size:107
Alignment explanation
Indices: 2386636--2386935 Score: 327
Period size: 108 Copynumber: 2.8 Consensus size: 107
2386626 ATTGGGTGCA
* * * * * *
2386636 ACATAATATGTTAATATTTATTTATAACAAAATAACA-AATTAACATATTTTGTTGTCGTGGGAT
1 ACATAATATGTTGATA-ATATTAATAAC-AAATAAAATAATTAACATATTTTGTTATCGTCGGAT
* * * *
2386700 TTCGAAGGCACCATCAGCTTAAATTTTGGTAACATTTTAGGCGCT
64 TTCTAAGGC-CCATCAGCTTAAACTTTGATAACATTTTAGACGCT
* * *
2386745 ACCTAATATGTTGATAATATTAATGACAAA-AAAATCATTTAATC-TATTTTGTTATCGTCGGAT
1 ACATAATATGTTGATAATATTAATAACAAATAAAAT-AATTAA-CATATTTTGTTATCGTCGGAT
* * * *
2386808 TTCTAATGCTTCATCATCTTAAACTTTGATAATATTTTAGACGCT
64 TTCTAAGGC-CCATCAGCTTAAACTTTGATAACATTTTAGACGCT
* * * *
2386853 ACATAATATGTTTATAATATTGATAACAAATTAAGTAATTAACATATTTTGTTATCGTCGGATTT
1 ACATAATATGTTGATAATATTAATAACAAATAAAATAATTAACATATTTTGTTATCGTCGGATTT
2386918 CTAAGGCCCTATCAGCTT
66 CTAAGGCCC-ATCAGCTT
2386936 TAAAAAGATG
Statistics
Matches: 157, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
106 3 0.02
107 5 0.03
108 131 0.83
109 18 0.11
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (107 bp):
ACATAATATGTTGATAATATTAATAACAAATAAAATAATTAACATATTTTGTTATCGTCGGATTT
CTAAGGCCCATCAGCTTAAACTTTGATAACATTTTAGACGCT
Found at i:2387235 original size:225 final size:226
Alignment explanation
Indices: 2386783--2387237 Score: 621
Period size: 226 Copynumber: 2.0 Consensus size: 226
2386773 AAAAAATCAT
* * * *
2386783 TTAATCTATTTTGTTATCGTCGGATTTCTAATGCTTCATCATCTTAAACTTTGATAATATTTTAG
1 TTAATCTATTTTGTTATAGTCAGATTTCTAATGCTTCATCAGCTTAAACTTTGATAACATTTTAG
* *
2386848 ACGCTACATAATATGTTTATAATATTGATAACAAATTAAGTAATTAACATATTTTGTTATCGTCG
66 ACGCTACATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCG
* * * *
2386913 GATTTCTAAGGCCCTATCAGCTTTAAAAAGATGTTACCTATTACATTAAATAAGCGCTATTTGTT
131 GATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAAGCGCTATCTGTT
* * *
2386978 ATGTTATTTTGGTTAATAATGTTTCTAGTAA
196 ATGTTATTATGGTTAATAATATTTCCAGTAA
* *
2387009 TTAATCTATTTTGTTATAGTCATATTTCTAA-GAC-TCTATCAGCTTAAACTTTGGTAACATTTT
1 TTAATCTATTTTGTTATAGTCAGATTTCTAATG-CTTC-ATCAGCTTAAACTTTGATAACATTTT
* * * *
2387072 A-AGCGTTACATAATATGTTGATATTATTGATAACAAATCAAGTGATTAACCTATTTT-TTATCG
64 AGA-CGCTACATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCG
* * * * * *
2387135 TCGGATTTCTAAGGCCCCATCAGCTTTAAAAATACGCTATCTATTACGTTATATAAGTGTTATCT
128 TCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAAGCGCTATCT
*
2387200 GTTATGTTATTATGGTTGATAATATTTCCAGTAA
193 GTTATGTTATTATGGTTAATAATATTTCCAGTAA
2387234 TTAA
1 TTAA
2387238 CTGGTTATGT
Statistics
Matches: 200, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
225 99 0.50
226 101 0.50
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (226 bp):
TTAATCTATTTTGTTATAGTCAGATTTCTAATGCTTCATCAGCTTAAACTTTGATAACATTTTAG
ACGCTACATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCG
GATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAAGCGCTATCTGTT
ATGTTATTATGGTTAATAATATTTCCAGTAA
Found at i:2388064 original size:21 final size:21
Alignment explanation
Indices: 2388035--2388074 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2388025 ACATAGGATT
*
2388035 TGTCCCGAATGACCACATAGA
1 TGTCCCGAATAACCACATAGA
*
2388056 TGTCTCGAATAACCACATA
1 TGTCCCGAATAACCACATA
2388075 ACACTATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.23
Consensus pattern (21 bp):
TGTCCCGAATAACCACATAGA
Found at i:2389058 original size:65 final size:65
Alignment explanation
Indices: 2388878--2389087 Score: 180
Period size: 65 Copynumber: 3.2 Consensus size: 65
2388868 ATTTTCAGAG
* * * **
2388878 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCACCATA-CAATGCATCGATGCACTCA-GGATTTTA-TGAAACATCGAATGC
2388940 ATT
63 ATT
* * *
2388943 TCATGCATCGATGCA-CATACAATGCATCGATGTACTGAGGATTTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACCATACAATGCATCGATGCACTCAGGATTTTATG-AAACATCGAATGCAT
2389007 T
65 T
* * * * * * *
2389008 TGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TGAAATATTGAATGCAC
1 TGATGCATCGATGCACCATACAATGCATCGATGCACTCAGGAT-TTTATGAAACATCGAATGCAT
2389071 T
65 T
* *
2389072 CGATACATCGATGCAC
1 TGATGCATCGATGCAC
2389088 TCTTAGTGCA
Statistics
Matches: 119, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
63 2 0.02
64 48 0.40
65 64 0.54
66 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (65 bp):
TGATGCATCGATGCACCATACAATGCATCGATGCACTCAGGATTTTATGAAACATCGAATGCATT
Found at i:2394843 original size:21 final size:21
Alignment explanation
Indices: 2394817--2394873 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
2394807 TTGTGCTTCA
2394817 TGCATCGATACACC-TAAATAG
1 TGCATCGATACACCTTAAAT-G
*
2394838 TGCATCGATGCATCCTTAAATG
1 TGCATCGATACA-CCTTAAATG
2394860 TGCATCGATACACC
1 TGCATCGATACACC
2394874 ATGAAGGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
22 14 0.44
23 5 0.16
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACCTTAAATG
Found at i:2394884 original size:43 final size:44
Alignment explanation
Indices: 2394816--2394912 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
2394806 TTTGTGCTTC
* *
2394816 ATGCATCGATACACCTAAATAGTGCATCGATGCA-TCCTTAAAT
1 ATGCATCGATACACCTAAATAGTGCACCGATGCACGCCTTAAAT
* * * *
2394859 GTGCATCGATACACCATGAA-GGTGCACCGATGCACGCCTTGAAT
1 ATGCATCGATACACC-TAAATAGTGCACCGATGCACGCCTTAAAT
2394903 ATGCATCGAT
1 ATGCATCGAT
2394913 GCACAAGGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 26 0.58
44 19 0.42
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (44 bp):
ATGCATCGATACACCTAAATAGTGCACCGATGCACGCCTTAAAT
Found at i:2397657 original size:65 final size:64
Alignment explanation
Indices: 2397538--2397744 Score: 190
Period size: 65 Copynumber: 3.2 Consensus size: 64
2397528 TTTTTCAGAG
* * * *
2397538 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCACCAA-CCATACATCGATACACTCAGGATATT---TTGAAACATCGAATGC
2397600 ATT
62 ATT
* * * *
2397603 TCATGCATCGATGCA-CATACCATACATCGATGCACTGAGGAT-TTTATGAAAACATTGAATGCA
1 TGATGCATCGATGCACCA-ACCATACATCGATACACTCAGGATATTT-TG-AAACATCGAATGCA
2397666 TT
63 TT
* * * * * *
2397668 TGATGCATCGATGCACCAGCCATGCATCGATACACTCTGGCTATTTTGAAACATCGAATACACT
1 TGATGCATCGATGCACCAACCATACATCGATACACTCAGGATATTTTGAAACATCGAATGCATT
2397732 TGATGCATCGATG
1 TGATGCATCGATG
2397745 AACTCTTAGT
Statistics
Matches: 118, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 43 0.36
65 67 0.57
66 5 0.04
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATACATCGATACACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:2410710 original size:34 final size:34
Alignment explanation
Indices: 2410608--2410712 Score: 122
Period size: 34 Copynumber: 3.1 Consensus size: 34
2410598 TATTAATTAA
* * *
2410608 CCTGAATTACATAAGATACAAAATGCACTCA-AAC
1 CCTGAATTACATAAGATACACATTACACT-ATAAC
* * * *
2410642 CTTGAATTAAATAAGATACGCATTACACTCTAAC
1 CCTGAATTACATAAGATACACATTACACTATAAC
*
2410676 CCTGAAATACATAAGATACACATTACACTATAAC
1 CCTGAATTACATAAGATACACATTACACTATAAC
2410710 CCT
1 CCT
2410713 CCTTGATTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.25
Consensus pattern (34 bp):
CCTGAATTACATAAGATACACATTACACTATAAC
Found at i:2413639 original size:16 final size:17
Alignment explanation
Indices: 2413613--2413650 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2413603 ACCATTCATA
2413613 AATCC-CAAAATC-AAC
1 AATCCACAAAATCAAAC
2413628 AATCCACAAAATCAAAC
1 AATCCACAAAATCAAAC
2413645 AATCCA
1 AATCCA
2413651 AAATATCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 9 0.43
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (17 bp):
AATCCACAAAATCAAAC
Found at i:2415630 original size:20 final size:22
Alignment explanation
Indices: 2415584--2415641 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
2415574 TTCCCCTGTG
2415584 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
* *
2415606 AGGGGAATCGGTT-CTC-TCAA
1 GGGGGAATCGGTTCCCCTTCAA
* *
2415626 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
2415642 TGTACCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 14 0.48
21 3 0.10
22 12 0.41
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.22
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:2421462 original size:76 final size:76
Alignment explanation
Indices: 2421351--2421559 Score: 280
Period size: 76 Copynumber: 2.8 Consensus size: 76
2421341 CCGTTGTACA
* *
2421351 AGGGGGGAATCGGTACCCCCT-TGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGG-G
** *
2421415 A-AAAACTGTTT
65 ACAAAACCATTC
* * *
2421426 AGGGGGGAATCAGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGGA
*
2421491 CCAAACCATTC
66 CAAAACCATTC
**
2421502 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTATGAGCA-ATCTGGAATT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
2421560 TTTGGCTTTG
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
75 20 0.17
76 97 0.83
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGGA
CAAAACCATTC
Found at i:2425811 original size:21 final size:20
Alignment explanation
Indices: 2425787--2425829 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
2425777 GTTTGTTGTC
*
2425787 AAAAAGTACATTTGAGAAGAT
1 AAAAAGTACATTTCAGAA-AT
* *
2425808 AAAATGTTCATTTCAGAAAT
1 AAAAAGTACATTTCAGAAAT
2425828 AA
1 AA
2425830 TATAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (20 bp):
AAAAAGTACATTTCAGAAAT
Found at i:2429356 original size:14 final size:14
Alignment explanation
Indices: 2429339--2429379 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
2429329 TAGTTACGTA
2429339 TTATATTTAAAAAT
1 TTATATTTAAAAAT
*
2429353 TTAT-TTT-AATAT
1 TTATATTTAAAAAT
2429365 TTATATTATAAAAAT
1 TTATATT-TAAAAAT
2429380 AAATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.36
13 5 0.23
14 5 0.23
15 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATATTTAAAAAT
Found at i:2431411 original size:5 final size:5
Alignment explanation
Indices: 2431401--2431432 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
2431391 AGTCCTTCCT
2431401 TCCCC TCCCC TCCCC TCCCC TCCCC TCCCC TC
1 TCCCC TCCCC TCCCC TCCCC TCCCC TCCCC TC
2431433 TCTAGAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.78, G:0.00, T:0.22
Consensus pattern (5 bp):
TCCCC
Found at i:2434059 original size:2 final size:2
Alignment explanation
Indices: 2434054--2434078 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2434044 TTTAAAACAT
2434054 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 T
2434079 GGAGTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2441520 original size:7 final size:7
Alignment explanation
Indices: 2441508--2441550 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
2441498 AAGGAAGACG
2441508 AAGGGAA
1 AAGGGAA
2441515 AAGGGAA
1 AAGGGAA
2441522 AAGGGAA
1 AAGGGAA
2441529 AAGGGAA
1 AAGGGAA
2441536 AAGGGAA
1 AAGGGAA
2441543 AAGGGAA
1 AAGGGAA
2441550 A
1 A
2441551 GAACTTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AAGGGAA
Found at i:2442465 original size:58 final size:60
Alignment explanation
Indices: 2442394--2442528 Score: 136
Period size: 58 Copynumber: 2.3 Consensus size: 60
2442384 ATTAAAGCCT
* *
2442394 AAAG-TATATAAATGGTCTCCC-GAGTAT-AGAACATTGCTTTGTTGAGTC-C-CGACTATTA
1 AAAGTTATA-AAATGGTC-CCCTGACTATAAG-ACATCGCTTTGTTGAGTCTCTCGACTATTA
* * * * *
2442452 AAAGTTATAAAATGATCCCCTGACTATAAGTCGTCGTTTTGTTGAGTCTCTCGATTATTA
1 AAAGTTATAAAATGGTCCCCTGACTATAAGACATCGCTTTGTTGAGTCTCTCGACTATTA
*
2442512 AAAGTTACAAAATGGTC
1 AAAGTTATAAAATGGTC
2442529 ACCTAATGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
57 3 0.05
58 30 0.48
59 7 0.11
60 23 0.37
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (60 bp):
AAAGTTATAAAATGGTCCCCTGACTATAAGACATCGCTTTGTTGAGTCTCTCGACTATTA
Found at i:2444742 original size:70 final size:69
Alignment explanation
Indices: 2444627--2444766 Score: 246
Period size: 70 Copynumber: 2.0 Consensus size: 69
2444617 GTCTCTTGTA
*
2444627 GGTGTGTGAGAGCAATGGTGATAAAGATGATGATATTCATGATGCTCTAGCCACACATAAAAAGG
1 GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTCATGATGCTCTA-CCACACATAAAAAGG
2444692 GAATG
65 GAATG
2444697 GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTCAAT-ATGCTCTACCACACATAAAAAGG
1 GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTC-ATGATGCTCTACCACACATAAAAAGG
2444761 GAATG
65 GAATG
2444766 G
1 G
2444767 TAACCTCTAA
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
69 21 0.31
70 45 0.66
71 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.24
Consensus pattern (69 bp):
GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTCATGATGCTCTACCACACATAAAAAGGG
AATG
Found at i:2450425 original size:12 final size:12
Alignment explanation
Indices: 2450408--2450438 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2450398 TATTCGAATA
2450408 TCAAAATATTAC
1 TCAAAATATTAC
2450420 TCAAAATATTAC
1 TCAAAATATTAC
*
2450432 TCCAAAT
1 TCAAAAT
2450439 CTTTCAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (12 bp):
TCAAAATATTAC
Found at i:2452721 original size:29 final size:29
Alignment explanation
Indices: 2452636--2452728 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
2452626 GATGAAATTG
* *
2452636 GAATATTCAAAAGTTTGGGGACTAATTTA
1 GAATGTTCAAAAGTTTAGGGACTAATTTA
* * *
2452665 GAAAGAGGTC-ATAGTTTAGGGA-TGAATTTA
1 G-AA-TGTTCAAAAGTTTAGGGACT-AATTTA
*
2452695 GAATGTTCAAAAGTTTAAGGACTAATTTA
1 GAATGTTCAAAAGTTTAGGGACTAATTTA
2452724 GAATG
1 GAATG
2452729 AGTGTCATAG
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
28 3 0.06
29 25 0.50
30 20 0.40
31 2 0.04
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (29 bp):
GAATGTTCAAAAGTTTAGGGACTAATTTA
Found at i:2452767 original size:60 final size:59
Alignment explanation
Indices: 2452620--2452804 Score: 244
Period size: 60 Copynumber: 3.1 Consensus size: 59
2452610 TTTGAATGAA
* **
2452620 TTTGGGGATGAAATTGGAATATTCAAAAGTTTGGGGACTAATTTAGAAAGAGGTCATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAGGTCATAG
* * * *
2452679 TTTAGGGATGAATTTAGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGTGTCATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAG-GTCATAG
* * * * *
2452739 TTTGGGGATGAAATTATAATATTTAAAAGTTTAAGGACTAATTTAAAATAAAGGTTATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAA-AGAGGTCATAG
2452799 TTTGGG
1 TTTGGG
2452805 TACATATAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
59 45 0.42
60 61 0.56
61 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (59 bp):
TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAGGTCATAG
Found at i:2452788 original size:29 final size:29
Alignment explanation
Indices: 2452636--2452788 Score: 76
Period size: 29 Copynumber: 5.2 Consensus size: 29
2452626 GATGAAATTG
* **
2452636 GAATATTCAAAAGTTTGGGGACTAATTTA
1 GAATATTTAAAAGTTTAAGGACTAATTTA
* ** * * *
2452665 GAAAGAGGTCATAGTTTAGGGA-TGAATTTA
1 G-AATATTTAAAAGTTTAAGGACT-AATTTA
* *
2452695 GAATGTTCAAAAGTTTAAGGACTAATTTA
1 GAATATTTAAAAGTTTAAGGACTAATTTA
* * * ** *
2452724 GAATGAGTGTCATAGTTTGGGGA-TGAAATTA
1 GAAT-A-TTTAAAAGTTTAAGGACT-AATTTA
*
2452755 TAATATTTAAAAGTTTAAGGACTAATTTA
1 GAATATTTAAAAGTTTAAGGACTAATTTA
*
2452784 AAATA
1 GAATA
2452789 AAGGTTATAG
Statistics
Matches: 86, Mismatches: 31, Indels: 14
0.66 0.24 0.11
Matches are distributed among these distances:
29 44 0.51
30 24 0.28
31 18 0.21
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.34
Consensus pattern (29 bp):
GAATATTTAAAAGTTTAAGGACTAATTTA
Found at i:2457030 original size:16 final size:16
Alignment explanation
Indices: 2457009--2457039 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2456999 TTAATATTTT
2457009 ATTATTATTATTAATA
1 ATTATTATTATTAATA
2457025 ATTATTATTATTAAT
1 ATTATTATTATTAAT
2457040 TTACATGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTATTATTAATA
Found at i:2465852 original size:19 final size:19
Alignment explanation
Indices: 2465828--2465879 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
2465818 ATATTCAGTT
* *
2465828 TTAGGTTAGTGGTTTAGGG
1 TTAGGTTAGTAGTTTACGG
2465847 TTAGGTTAGTAGTTTACGG
1 TTAGGTTAGTAGTTTACGG
2465866 TTAGGTTAGTAGTT
1 TTAGGTTAGTAGTT
2465880 CAAGGTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (19 bp):
TTAGGTTAGTAGTTTACGG
Found at i:2465886 original size:19 final size:19
Alignment explanation
Indices: 2465828--2465886 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
2465818 ATATTCAGTT
* *
2465828 TTAGGTTAGTGGTTTAGGG
1 TTAGGTTAGTAGTTTAAGG
*
2465847 TTAGGTTAGTAGTTTACGG
1 TTAGGTTAGTAGTTTAAGG
*
2465866 TTAGGTTAGTAGTTCAAGG
1 TTAGGTTAGTAGTTTAAGG
2465885 TT
1 TT
2465887 TTATAGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.20, C:0.03, G:0.34, T:0.42
Consensus pattern (19 bp):
TTAGGTTAGTAGTTTAAGG
Found at i:2465933 original size:21 final size:21
Alignment explanation
Indices: 2465904--2465952 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2465894 ATATGTGATT
* *
2465904 TTTATGGTTTTAGGGTTAGGG
1 TTTAAGGTTTTAGGGCTAGGG
2465925 TTTAAGGTTTTAGGGCTAGGG
1 TTTAAGGTTTTAGGGCTAGGG
*
2465946 CTTAAGG
1 TTTAAGG
2465953 CTTAAGGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.04, G:0.37, T:0.41
Consensus pattern (21 bp):
TTTAAGGTTTTAGGGCTAGGG
Found at i:2469396 original size:22 final size:22
Alignment explanation
Indices: 2469368--2469428 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
2469358 GAGTCGAGGG
2469368 TTACATAGGTCCTTCAG-GACAT
1 TTACATAGGTCCTTC-GTGACAT
*
2469390 TTACATAGGTCATTCGTGACAT
1 TTACATAGGTCCTTCGTGACAT
* *
2469412 ATACATGAAGTCCTTCG
1 TTACAT-AGGTCCTTCG
2469429 GGATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.73
23 8 0.24
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (22 bp):
TTACATAGGTCCTTCGTGACAT
Found at i:2477586 original size:18 final size:18
Alignment explanation
Indices: 2477565--2477602 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2477555 CATTATGACT
*
2477565 TATACATACA-TATATATA
1 TATACACACACTA-ATATA
2477583 TATACACACACTAATATA
1 TATACACACACTAATATA
2477601 TA
1 TA
2477603 ATGTACGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (18 bp):
TATACACACACTAATATA
Found at i:2479584 original size:55 final size:55
Alignment explanation
Indices: 2479515--2479876 Score: 397
Period size: 55 Copynumber: 6.6 Consensus size: 55
2479505 ACGAGTCCGT
* * * * *
2479515 TCCCTATTCTTTCAGGGAGCATAAGACTCGAACAATCTTTAACAAATATGTCTGC
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACATGTCTGC
* * ** *
2479570 TCCCTATTCATTCAGGGAGTATAAGACTCG-GCAAATCTTCAACAAATGTGTCTTC
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAAC-AATCTTCAACAAACATGTCTGC
* * * *
2479625 TCTCTATTCATTCAGAGAGTATAAGACTCGAAAAATCTTCAATAAACGTGTCTGC
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACATGTCTGC
* * *
2479680 TCTCTATTCATTCAGAGAGTATAAGACTCGAACAATTTTCAACAAACGTGTCTGC
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACATGTCTGC
* * * * ** *
2479735 TCCCTATTCGTTCAGGGAGTATAAGACTTGAACAATCTTCAATAAAACGGGTCCGC
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAA-CAAACATGTCTGC
* * * *
2479791 TCTCTATTCCTTCAGAGAGTAT-AGAACTCGGAA-AATCTTCAATAAACAGGTCTGC
1 TCCCTATTCATTCAGAGAGTATAAG-ACTC-GAACAATCTTCAACAAACATGTCTGC
* *
2479846 TCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 TCCCTATTCATTCAGAGAGTATAAGACTCGA
2479877 TCTTCATAAA
Statistics
Matches: 268, Mismatches: 33, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
54 3 0.01
55 220 0.82
56 42 0.16
57 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (55 bp):
TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACATGTCTGC
Found at i:2479687 original size:110 final size:110
Alignment explanation
Indices: 2479515--2479876 Score: 442
Period size: 110 Copynumber: 3.3 Consensus size: 110
2479505 ACGAGTCCGT
* * * * * ** *
2479515 TCCCTATTCTTTCAGGGAGCATAAGACTCGAACAATCTTTAACAAATATGTCTGCTCCCTATTCA
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCTGCTCTCTATTCA
* * * *
2479580 TTCAGGGAGTATAAGACTCGGCAAATCTTCAACAAATGTGTCTTC
66 TTCAGAGAGTATAAGACTCGGAAAATCTTCAACAAAAGTGTCTGC
* *
2479625 TCTCTATTCATTCAGAGAGTATAAGACTCGAAAAATCTTCAATAAACGTGTCTGCTCTCTATTCA
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCTGCTCTCTATTCA
* *
2479690 TTCAGAGAGTATAAGACTC-GAACAATTTTCAACAAACGTGTCTGC
66 TTCAGAGAGTATAAGACTCGGAA-AATCTTCAACAAAAGTGTCTGC
* * * * *
2479735 TCCCTATTCGTTCAGGGAGTATAAGACTTGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTC
1 TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAAT-AAACGTGTCTGCTCTCTATTC
* *
2479800 CTTCAGAGAGTAT-AGAACTCGGAAAATCTTCAATAAACAG-GTCTGC
65 ATTCAGAGAGTATAAG-ACTCGGAAAATCTTCAACAAA-AGTGTCTGC
* *
2479846 TCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 TCCCTATTCATTCAGAGAGTATAAGACTCGA
2479877 TCTTCATAAA
Statistics
Matches: 217, Mismatches: 30, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
109 2 0.01
110 132 0.61
111 79 0.36
112 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (110 bp):
TCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCTGCTCTCTATTCA
TTCAGAGAGTATAAGACTCGGAAAATCTTCAACAAAAGTGTCTGC
Found at i:2481352 original size:12 final size:13
Alignment explanation
Indices: 2481290--2481351 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 13
2481280 CATTTTCCAT
*
2481290 TTTTTCTTCTTCT
1 TTTTTCTTCTTCA
*
2481303 TTTTTCTT-TTCG
1 TTTTTCTTCTTCA
*
2481315 TTTTTC--CATCA
1 TTTTTCTTCTTCA
2481326 TTTTTCTTTTCTTC-
1 TTTTTC--TTCTTCA
2481340 TTTTTCTTCTTC
1 TTTTTCTTCTTC
2481352 TCATTTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
11 8 0.20
12 15 0.38
13 8 0.20
14 6 0.15
15 3 0.08
ACGTcount: A:0.03, C:0.23, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTCTTCTTCA
Done.