Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 161 of 211
Found at i:50328783 original size:23 final size:23
Alignment explanation
Indices: 50328757--50328855 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
50328747 AGTGTTATTG
50328757 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
50328780 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
50328803 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
50328826 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
50328849 ATCAGTG
1 ATCAGTG
50328856 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:50328944 original size:11 final size:11
Alignment explanation
Indices: 50328918--50328955 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
50328908 CGGGATTAAT
50328918 AATGAAT-T-A
1 AATGAATATGA
50328927 AAGTGAATATGA
1 AA-TGAATATGA
50328939 AATGAATATGA
1 AATGAATATGA
50328950 AATGAA
1 AATGAA
50328956 GTGTGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 5 0.19
11 16 0.62
12 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.26
Consensus pattern (11 bp):
AATGAATATGA
Found at i:50332000 original size:363 final size:363
Alignment explanation
Indices: 50331329--50332058 Score: 1316
Period size: 363 Copynumber: 2.0 Consensus size: 363
50331319 AACAGAAAGT
* * *
50331329 AATAAATGAAAATAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTCAAAAACGGTTGGATTC
1 AATAAATGAAAAGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTCAAAAACGGCTGGATAC
50331394 CATTAATTCTCTCAATTTGTCATTTCAAAATCAAATTCGTTCTGACGATAGTAGTTTCCAAGGAT
66 CATTAATTCTCTCAATTTGTCATTTCAAAATCAAATTCGTTCTGACGATAGTAGTTTCCAAGGAT
** *
50331459 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAATGCTCCTTCAGTCTGGATTTCT
131 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACACTCCTTCAGTCTAGATTTCT
50331524 TGGCCATCTTCTCTCTGAAGCGAAACTATGATGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
196 TGGCCATCTTCTCTCTGAAGCGAAACTATGATGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
* * *
50331589 CTCCTTTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTAAGTTCCCTGATCTGTGAATATGC
261 CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTAAGTTCCCTGATCTATGAATATGC
*
50331654 TGAAATATAATCTCTTGAAAACAAGGTTTCTTATTCTG
326 TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTCTG
*
50331692 AATAAATGAAAGGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTCAAAAACGGCTGGATAC
1 AATAAATGAAAAGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTCAAAAACGGCTGGATAC
* *
50331757 CATTAATTCTCTCGATTTGTCATTTCAAAATCCAATTCGTTCTGACGATAGTAGTTTCCAAGGAT
66 CATTAATTCTCTCAATTTGTCATTTCAAAATCAAATTCGTTCTGACGATAGTAGTTTCCAAGGAT
50331822 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACACTCCTTCAGTCTAGATTTCT
131 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACACTCCTTCAGTCTAGATTTCT
*
50331887 TGGCCATCTTCTCTCTGAAGCGAAACTATGATGCTTCAGCTCTTCTCCCATCAGGTAAAAGGTTT
196 TGGCCATCTTCTCTCTGAAGCGAAACTATGATGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
* *
50331952 CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTGAGTTCCCTGATCTATGAATATGT
261 CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTAAGTTCCCTGATCTATGAATATGC
50332017 TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTCTG
326 TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTCTG
50332055 AATA
1 AATA
50332059 TCTCTGATAA
Statistics
Matches: 351, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
363 351 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (363 bp):
AATAAATGAAAAGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTCAAAAACGGCTGGATAC
CATTAATTCTCTCAATTTGTCATTTCAAAATCAAATTCGTTCTGACGATAGTAGTTTCCAAGGAT
AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACACTCCTTCAGTCTAGATTTCT
TGGCCATCTTCTCTCTGAAGCGAAACTATGATGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTAAGTTCCCTGATCTATGAATATGC
TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTCTG
Found at i:50343388 original size:25 final size:24
Alignment explanation
Indices: 50343355--50343449 Score: 68
Period size: 25 Copynumber: 3.9 Consensus size: 24
50343345 GCTCTCCCTC
50343355 GAGCCATATAACAGGAAGCTCATA
1 GAGCCATATAACAGGAAGCTCATA
* ** * *
50343379 TGAGCTATATAATGGGAAGCTTATCC
1 -GAGCCATATAACAGGAAGCTCAT-A
* *
50343405 G-GACTATATAACAGGAAGCTTATCA
1 GAG-CCATATAACAGGAAGCTCAT-A
*
50343430 GAGCCATAT-TCAGGAAGCTC
1 GAGCCATATAACAGGAAGCTC
50343450 CGGATAACCA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
24 10 0.18
25 45 0.80
26 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (24 bp):
GAGCCATATAACAGGAAGCTCATA
Found at i:50343532 original size:49 final size:49
Alignment explanation
Indices: 50343410--50343532 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
50343400 TATCCGGACT
* * ** * *
50343410 ATATAACAGGAAGCTTATCAGAGCCATATTCAGGAAGCTCCGGATAACC
1 ATATATCAGGAAGCTCAAAAGAGCCATATTCAGGAAGCTCCAGAGAACC
* * *
50343459 ATATATCAGGAAGTTCAAACGAGCCATATT-GGGAAGCTCCAGAGAACC
1 ATATATCAGGAAGCTCAAAAGAGCCATATTCAGGAAGCTCCAGAGAACC
50343507 AT-TACTCAGGAAGCTCACAAAGAGCC
1 ATATA-TCAGGAAGCTCA-AAAGAGCC
50343533 TTTAATCGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
47 2 0.03
48 28 0.46
49 31 0.51
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (49 bp):
ATATATCAGGAAGCTCAAAAGAGCCATATTCAGGAAGCTCCAGAGAACC
Found at i:50343547 original size:26 final size:25
Alignment explanation
Indices: 50343489--50343557 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
50343479 GAGCCATATT
* * * *
50343489 GGGAAGCTCCAGAGAACCATTACTC
1 GGGAAGCTCCAAAGAGCCTTTAATC
*
50343514 AGGAAGCTCACAAAGAGCCTTTAATC
1 GGGAAGCTC-CAAAGAGCCTTTAATC
*
50343540 GGGAAGCTCCGAAGAGCC
1 GGGAAGCTCCAAAGAGCC
50343558 ATATAACGGG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 16 0.44
26 20 0.56
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.14
Consensus pattern (25 bp):
GGGAAGCTCCAAAGAGCCTTTAATC
Found at i:50343567 original size:25 final size:26
Alignment explanation
Indices: 50343515--50343574 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
50343505 CCATTACTCA
*
50343515 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCG
*
50343541 GGAAGCTC-CGAAGAGCCATATAA-CG
1 GGAAGCTCACAAAGAGCC-TATAATCG
*
50343566 GGACGCTCA
1 GGAAGCTCA
50343575 TAAGAGTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCG
Found at i:50348445 original size:23 final size:23
Alignment explanation
Indices: 50348415--50348464 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
50348405 TTGTGCAGGA
50348415 TTGAATGGCTTTATATGTATCAT
1 TTGAATGGCTTTATATGTATCAT
50348438 TTGAATGGCTTTATATGTATCAT
1 TTGAATGGCTTTATATGTATCAT
50348461 TTGA
1 TTGA
50348465 GCCTTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (23 bp):
TTGAATGGCTTTATATGTATCAT
Found at i:50356485 original size:84 final size:84
Alignment explanation
Indices: 50356395--50356560 Score: 251
Period size: 84 Copynumber: 2.0 Consensus size: 84
50356385 CCACTACCAC
* **
50356395 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCATCATTGTCCTTCACATCACCTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
50356460 CTTCTATTCACCACCTCAT
66 CTTCTATTCACCACCTCAT
* * * **
50356479 TAGTTCCACCATTTAGATTCTGTCTACAATCTTGCAACTCACCATCATCCTTCACATCATTTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
*
50356544 CTTTTATTCACCACCTC
66 CTTCTATTCACCACCTC
50356561 TTCATTAACC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.37
Consensus pattern (84 bp):
TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
CTTCTATTCACCACCTCAT
Found at i:50357172 original size:228 final size:219
Alignment explanation
Indices: 50356784--50357218 Score: 683
Period size: 228 Copynumber: 1.9 Consensus size: 219
50356774 CTCTCCACCA
* * *
50356784 CCACCACCAACACTCTTAGACTGTTCGCTGCCTGAATCCCGTGACCATGTTGGTGACCTTGACTT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
* * *
50356849 AGACTTCGACTTGGAGCTTCTCCTCTTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTGCCTG
66 AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCCCCTCCCTTGATTCCCCAACAACCCTCCCTG
*
50356914 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCTTCAGTTGCACCTTA
131 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
50356979 CTACTACCTCTAGTCTCATCCATT
196 CTACTACCTCTAGTCTCATCCATT
50357003 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACAT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGAC--
*
50357068 TGACGTAGACATT-GCCTTGGAGCTTCTCCTCCTCAAATCTTCCCTCTCCCTTGATTCCCCAACA
64 T----TAGAC-TTCGACTTGGAGCTTCTCCTCCTCAAATC--CCC-CTCCCTTGATTCCCCAACA
*
50357132 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCTTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
121 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
*
50357197 TTGCACCTTACTACTCCCTCTA
186 TTGCACCTTACTACTACCTCTA
50357219 ACGTCATCAA
Statistics
Matches: 196, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
219 60 0.31
221 1 0.01
225 29 0.15
226 2 0.01
227 2 0.01
228 102 0.52
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.27
Consensus pattern (219 bp):
CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCCCCTCCCTTGATTCCCCAACAACCCTCCCTG
CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
CTACTACCTCTAGTCTCATCCATT
Found at i:50365523 original size:19 final size:19
Alignment explanation
Indices: 50365494--50365540 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
50365484 TATTTCATAC
50365494 TATGC-ACAAACAAGTAAA
1 TATGCAACAAACAAGTAAA
*
50365512 TATGCAACAAACAAGTCAA
1 TATGCAACAAACAAGTAAA
*
50365531 TATCCAACAA
1 TATGCAACAA
50365541 TTACAAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.17
Consensus pattern (19 bp):
TATGCAACAAACAAGTAAA
Found at i:50365671 original size:185 final size:184
Alignment explanation
Indices: 50365329--50365672 Score: 469
Period size: 185 Copynumber: 1.9 Consensus size: 184
50365319 TATTCTTACC
* * * * *
50365329 ATGCACAAATAAGTCAATATGCAGCAATTACAAGATAATTCAGATTATAAAAACACAAATCGTAA
1 ATGCACAAACAAGTCAATATCCAACAATTACAAGATAATTCAGATTATAAAAACACAAACCATAA
* * * * ** *
50365394 ACTCCGAGCTATTCGTCGATGACTTTGTCTTTTCCTTTCTTTTTTCGAGGAATCCGGGTCGACAT
66 ACTCCAAGCTATTCATCGACGACTTTGTCTTTTCCTTTCTTTTTTCGAGGAATCAGCATCAACAT
*
50365459 TAGCTACAAATAAAAACAAACAAGATATTTCATACTATGCACAAACAAGTAAAT
131 TAGCTACAAATAAAAACAAAAAAGATATTTCATACTATGCACAAACAAGTAAAT
*
50365513 ATGCAACAAACAAGTCAATATCCAACAATTACAAGATAATTC-GAATTATAGAAACACAAACCAT
1 ATGC-ACAAACAAGTCAATATCCAACAATTACAAGATAATTCAG-ATTATAAAAACACAAACCAT
*
50365577 AAACTCCAAGCTATTCATCGACGACTTTGTCTTTTCCTTTC-TTTTTCGAGGAATCATCATCAAC
64 AAACTCCAAGCTATTCATCGACGACTTTGTCTTTTCCTTTCTTTTTTCGAGGAATCAGCATCAAC
* * *
50365641 GTTAGCTATGAATTGAAAAA-AAAAAAGATATT
129 ATTAGCTA-CAAAT-AAAAACAAAAAAGATATT
50365673 ACATCAATAT
Statistics
Matches: 138, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
184 30 0.22
185 103 0.75
186 5 0.04
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (184 bp):
ATGCACAAACAAGTCAATATCCAACAATTACAAGATAATTCAGATTATAAAAACACAAACCATAA
ACTCCAAGCTATTCATCGACGACTTTGTCTTTTCCTTTCTTTTTTCGAGGAATCAGCATCAACAT
TAGCTACAAATAAAAACAAAAAAGATATTTCATACTATGCACAAACAAGTAAAT
Found at i:50367411 original size:16 final size:17
Alignment explanation
Indices: 50367376--50367412 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
50367366 CATATTTATA
50367376 TTTTGCCCAAATCTATT
1 TTTTGCCCAAATCTATT
*
50367393 TTTTGTCCAAATCTATT
1 TTTTGCCCAAATCTATT
50367410 TTT
1 TTT
50367413 CAAGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTTGCCCAAATCTATT
Found at i:50368023 original size:13 final size:13
Alignment explanation
Indices: 50368005--50368050 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
50367995 CATTTAATGG
50368005 AATCAGTTGGTCA
1 AATCAGTTGGTCA
**
50368018 AATCAGTTAAT-A
1 AATCAGTTGGTCA
50368030 GAATCAGTTGGTCA
1 -AATCAGTTGGTCA
50368044 AATCAGT
1 AATCAGT
50368051 CACTGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (13 bp):
AATCAGTTGGTCA
Found at i:50368027 original size:26 final size:26
Alignment explanation
Indices: 50367998--50368050 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
50367988 AAATAAACAT
*
50367998 TTAATGGAATCAGTTGGTCAAATCAG
1 TTAATAGAATCAGTTGGTCAAATCAG
50368024 TTAATAGAATCAGTTGGTCAAATCAG
1 TTAATAGAATCAGTTGGTCAAATCAG
50368050 T
1 T
50368051 CACTGCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (26 bp):
TTAATAGAATCAGTTGGTCAAATCAG
Found at i:50370897 original size:40 final size:40
Alignment explanation
Indices: 50370853--50370950 Score: 127
Period size: 34 Copynumber: 2.6 Consensus size: 40
50370843 TGTTTTGGCA
* *
50370853 AATAACAGATATAAACGAATATTAATTAAATAACACTTTC
1 AATAATAGATATAAACGAATATGAATTAAATAACACTTTC
*
50370893 AATAATAGATAT-----AA-ATGGATTAAATAACACTTTC
1 AATAATAGATATAAACGAATATGAATTAAATAACACTTTC
50370927 AATAATAGATATAAACGAATATGA
1 AATAATAGATATAAACGAATATGA
50370951 GTTATGAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
34 30 0.62
35 2 0.04
39 2 0.04
40 14 0.29
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (40 bp):
AATAATAGATATAAACGAATATGAATTAAATAACACTTTC
Found at i:50370915 original size:34 final size:34
Alignment explanation
Indices: 50370877--50370941 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
50370867 ACGAATATTA
50370877 ATTAAATAACACTTTCAATAATAGATATAAATGG
1 ATTAAATAACACTTTCAATAATAGATATAAATGG
50370911 ATTAAATAACACTTTCAATAATAGATATAAA
1 ATTAAATAACACTTTCAATAATAGATATAAA
50370942 CGAATATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.32
Consensus pattern (34 bp):
ATTAAATAACACTTTCAATAATAGATATAAATGG
Found at i:50371174 original size:15 final size:16
Alignment explanation
Indices: 50371150--50371182 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
50371140 AAGTTATGAT
50371150 AAAAACTTAT-ATAAA
1 AAAAACTTATGATAAA
*
50371165 AAAAAGTTATGATAAA
1 AAAAACTTATGATAAA
50371181 AA
1 AA
50371183 CTATACCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAAACTTATGATAAA
Found at i:50375946 original size:49 final size:49
Alignment explanation
Indices: 50375882--50376051 Score: 146
Period size: 50 Copynumber: 3.4 Consensus size: 49
50375872 CAAAGTTATG
* * * *
50375882 TCCCATACATAGTCTTACATGGGATGTT-TCCTGTAC-TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATA
* * *
50375931 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
* ** * * * * *
50375981 TCTCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGACATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
*
50376031 TCCCAAACATGGTCTTACATG
1 TCCCAGACATGGTCTTACATG
50376052 AGACCTCTTT
Statistics
Matches: 100, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 25 0.25
50 71 0.71
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATA
Found at i:50375994 original size:50 final size:50
Alignment explanation
Indices: 50375918--50376059 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 50
50375908 TTTCCTGTAC
* * **
50375918 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
50375968 TGCCCATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
50376018 TGCCAACGACATGTCCCAAACATGGTCTTACATGAGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
50376060 TTACCCAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:50378346 original size:41 final size:43
Alignment explanation
Indices: 50378301--50378390 Score: 112
Period size: 41 Copynumber: 2.1 Consensus size: 43
50378291 TCCTTGTGTT
*
50378301 TTTTTGTGATACTTCCTCATAACTTTTTA-TATTCCCTCGT-A
1 TTTTTGTGATACTTCCTCATAACTTTTTAGTATTCCCTCATAA
* ** **
50378342 TTTTTATGATACTTGTTCATATTTTTTTAGTATTCCCTCATAA
1 TTTTTGTGATACTTCCTCATAACTTTTTAGTATTCCCTCATAA
50378385 TTTTTG
1 TTTTTG
50378391 GTAATCTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 24 0.60
42 10 0.25
43 6 0.15
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.56
Consensus pattern (43 bp):
TTTTTGTGATACTTCCTCATAACTTTTTAGTATTCCCTCATAA
Found at i:50378411 original size:36 final size:37
Alignment explanation
Indices: 50378364--50378436 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
50378354 TTGTTCATAT
* *
50378364 TTTTTTAGTATTCCCTCATAATTTTTGGTAATCTCTA
1 TTTTTTAGTATTCACTCATAATTTTTGGCAATCTCTA
*
50378401 TTTTTT-GTATTCACTCATAATTTTTGGCACTCTCTA
1 TTTTTTAGTATTCACTCATAATTTTTGGCAATCTCTA
50378437 ATATATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 27 0.82
37 6 0.18
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.53
Consensus pattern (37 bp):
TTTTTTAGTATTCACTCATAATTTTTGGCAATCTCTA
Found at i:50378425 original size:20 final size:19
Alignment explanation
Indices: 50378313--50378425 Score: 63
Period size: 20 Copynumber: 5.8 Consensus size: 19
50378303 TTTGTGATAC
* *
50378313 TTCCTCATAACTTTTTATA
1 TTCCTCATAATTTTTTGTA
*
50378332 TTCCCTCGT-ATTTTTATGATA
1 TT-CCTCATAATTTTT-TG-TA
** *
50378353 CTTGTTCATATTTTTTTAGTA
1 -TTCCTCATAATTTTTT-GTA
*
50378374 TTCCCTCATAATTTTTGGTA
1 TT-CCTCATAATTTTTTGTA
*
50378394 AT-CTC-T-ATTTTTTGTA
1 TTCCTCATAATTTTTTGTA
50378410 TTCACTCATAATTTTT
1 TTC-CTCATAATTTTT
50378426 GGCACTCTCT
Statistics
Matches: 69, Mismatches: 14, Indels: 21
0.66 0.13 0.20
Matches are distributed among these distances:
16 10 0.14
17 1 0.01
18 6 0.09
19 8 0.12
20 18 0.26
21 18 0.26
22 8 0.12
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.56
Consensus pattern (19 bp):
TTCCTCATAATTTTTTGTA
Found at i:50385503 original size:24 final size:24
Alignment explanation
Indices: 50385476--50385527 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
50385466 TCCCAAATCA
*
50385476 TTTTCCCCAAATCCCTAACTTAGT
1 TTTTCCCCAAATCCCTAACTTAAT
*
50385500 TTTTCCCCAATTCCCTAACTTAAT
1 TTTTCCCCAAATCCCTAACTTAAT
50385524 TTTT
1 TTTT
50385528 TCTTTCCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTTCCCCAAATCCCTAACTTAAT
Found at i:50386238 original size:19 final size:19
Alignment explanation
Indices: 50386200--50386238 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50386190 AAATACTTTA
*
50386200 AAAATATTTTTTTATTTTT
1 AAAATATTTTTTTATGTTT
*
50386219 AAAATATTTTTTTGTGTTT
1 AAAATATTTTTTTATGTTT
50386238 A
1 A
50386239 TTAAAAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
AAAATATTTTTTTATGTTT
Found at i:50386901 original size:14 final size:14
Alignment explanation
Indices: 50386882--50386909 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50386872 TAGTAATTTA
50386882 AATTAGTTATGCTT
1 AATTAGTTATGCTT
50386896 AATTAGTTATGCTT
1 AATTAGTTATGCTT
50386910 GATGGTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
AATTAGTTATGCTT
Found at i:50387923 original size:17 final size:17
Alignment explanation
Indices: 50387901--50387935 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50387891 TGAAACAGTG
50387901 AATTGGATCCTTATAAA
1 AATTGGATCCTTATAAA
50387918 AATTGGATCCTTATAAA
1 AATTGGATCCTTATAAA
50387935 A
1 A
50387936 GAAGTATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (17 bp):
AATTGGATCCTTATAAA
Found at i:50390349 original size:43 final size:44
Alignment explanation
Indices: 50390280--50390375 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 44
50390270 GCGTTTTCCC
* *
50390280 ACAAATGCCGCTATAGAACATAATCTTTAACGGCGCTTTTA-CT
1 ACAAACGCCGCTAAAGAACATAATCTTTAACGGCGCTTTTAGCT
* * **
50390323 ATAAACGCCGCTAAAGAACATGATCTTTTGCGGCGCTTTTAGCT
1 ACAAACGCCGCTAAAGAACATAATCTTTAACGGCGCTTTTAGCT
50390367 ACAAACGCC
1 ACAAACGCC
50390376 ACAACATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 35 0.78
44 10 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGAACATAATCTTTAACGGCGCTTTTAGCT
Found at i:50393409 original size:25 final size:25
Alignment explanation
Indices: 50393335--50393426 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
50393325 TTATACATGC
* * *
50393335 ATATAAACGGGAAGCTCTTCCTAGCC
1 ATATAAA-GGGAAGCTCTTGCGAGCT
* ** *
50393361 ATATAATGGGAAGCTCACGTGAGCT
1 ATATAAAGGGAAGCTCTTGCGAGCT
*
50393386 GTATAAAGGGAAGCTCTTGCGAGCT
1 ATATAAAGGGAAGCTCTTGCGAGCT
* **
50393411 AAATATCGGGAAGCTC
1 ATATAAAGGGAAGCTC
50393427 AAGTGAGCCA
Statistics
Matches: 50, Mismatches: 16, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
25 44 0.88
26 6 0.12
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (25 bp):
ATATAAAGGGAAGCTCTTGCGAGCT
Found at i:50393422 original size:50 final size:51
Alignment explanation
Indices: 50393336--50393434 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
50393326 TATACATGCA
* * *
50393336 TATAAACGGGAAGCTCTTCCTAGCCATATAATGGGAAGCTCACGTGAGCTG
1 TATAAACGGGAAGCTCTTCCGAGCCAAATAATGGGAAGCTCAAGTGAGCTG
* *
50393387 TATAAA-GGGAAGCTCTTGCGAGCTAAAT-ATCGGGAAGCTCAAGTGAGC
1 TATAAACGGGAAGCTCTTCCGAGCCAAATAAT-GGGAAGCTCAAGTGAGC
50393435 CATTAATCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.05
50 34 0.81
51 6 0.14
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (51 bp):
TATAAACGGGAAGCTCTTCCGAGCCAAATAATGGGAAGCTCAAGTGAGCTG
Found at i:50393434 original size:25 final size:25
Alignment explanation
Indices: 50393363--50393434 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 25
50393353 TCCTAGCCAT
* * **
50393363 ATAATGGGAAGCTCACGTGAGCTGT
1 ATAAAGGGAAGCTCAAGTGAGCTAA
** *
50393388 ATAAAGGGAAGCTCTTGCGAGCTAA
1 ATAAAGGGAAGCTCAAGTGAGCTAA
**
50393413 ATATCGGGAAGCTCAAGTGAGC
1 ATAAAGGGAAGCTCAAGTGAGC
50393435 CATTAATCGA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.21
Consensus pattern (25 bp):
ATAAAGGGAAGCTCAAGTGAGCTAA
Found at i:50393848 original size:21 final size:22
Alignment explanation
Indices: 50393824--50393868 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
50393814 TGAATTTAAC
*
50393824 TCAATTTAATACAAT-TCATAT
1 TCAATTCAATACAATATCATAT
*
50393845 TCAATTCAATCCAATACTCATAT
1 TCAATTCAATACAATA-TCATAT
50393868 T
1 T
50393869 TGGAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAATTCAATACAATATCATAT
Found at i:50395885 original size:26 final size:26
Alignment explanation
Indices: 50395856--50395907 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
50395846 TCAAATTAGG
* *
50395856 GAACGGTTACGGAAAATTTAGTACTT
1 GAACGGTTACGAAAAATTGAGTACTT
50395882 GAACGGTTACGAAAAATTGAGTACTT
1 GAACGGTTACGAAAAATTGAGTACTT
50395908 CACTTCCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (26 bp):
GAACGGTTACGAAAAATTGAGTACTT
Found at i:50396105 original size:58 final size:58
Alignment explanation
Indices: 50396010--50396124 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
50396000 ACATTTATCA
* *
50396010 CTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCG
1 CTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCG
* *
50396068 CTTGTCACTTGTCACTAATCAGATAAGTGTAGTTAAAGCTACTACTTATCACTTGTC
1 CTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTC
50396125 ACTGATTAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (58 bp):
CTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCG
Found at i:50397394 original size:16 final size:16
Alignment explanation
Indices: 50397370--50397423 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
50397360 TTTGGTTCGC
* *
50397370 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
50397386 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
50397402 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
50397418 TGTAAT
1 TGTAAT
50397424 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:50397468 original size:45 final size:44
Alignment explanation
Indices: 50397402--50397496 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
50397392 GGAATAGAGG
*
50397402 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
50397447 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
50397491 TGTAAT
1 TGTAAT
50397497 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:50397677 original size:18 final size:17
Alignment explanation
Indices: 50397656--50397690 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50397646 TTATTATTAA
*
50397656 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50397674 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50397691 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50401992 original size:22 final size:22
Alignment explanation
Indices: 50401960--50402001 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50401950 TATACAAGCA
*
50401960 ATATTACTTGAATAGTTATGAG
1 ATATTACTTGAATAATTATGAG
*
50401982 ATATTAGTTGAATAATTATG
1 ATATTACTTGAATAATTATG
50402002 TCTTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATATTACTTGAATAATTATGAG
Found at i:50421147 original size:75 final size:72
Alignment explanation
Indices: 50421024--50421169 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 72
50421014 CAAGTCGCCT
* *
50421024 CTTGAAGCCCTTTTGTCTGACATGCAAGTAACAGGTACTGCTGCTTCCTGCTCTAAGAAAAGTGA
1 CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTGCTTCCTGCTCT---AAAAGTGA
*
50421089 TGATGGTTCC
63 TGATAGTTCC
* *
50421099 CTTGAAGCCCTTTTGTCAGACATGCAAGTCACAGATACTGCTTCTTCCTGCTCTAAAAGTGATGA
1 CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTGCTTCCTGCTCTAAAAGTGATGA
50421164 TAGTTC
66 TAGTTC
50421170 TCAACCTGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 16 0.24
75 50 0.76
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (72 bp):
CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTGCTTCCTGCTCTAAAAGTGATGA
TAGTTCC
Found at i:50429306 original size:2 final size:2
Alignment explanation
Indices: 50429301--50429359 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
50429291 CAGGGGGGGG
* * *
50429301 GA GA GA GA GA GA GA TA GA TA GA GA GA GA GA GA GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
50429343 GA GG GA GA GG GA GA GA G
1 GA GA GA GA GA GA GA GA G
50429360 GCCTTACAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.53, T:0.03
Consensus pattern (2 bp):
GA
Found at i:50440091 original size:22 final size:22
Alignment explanation
Indices: 50440040--50440091 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
50440030 ATATTTTATT
*
50440040 ATAAATATTTAATTAATTATATA
1 ATAAA-ATTAAATTAATTATATA
* *
50440063 ATTAAATTAAATTATTTAT-TA
1 ATAAAATTAAATTAATTATATA
50440084 GATAAAAT
1 -ATAAAAT
50440092 GATAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATAAAATTAAATTAATTATATA
Found at i:50447034 original size:20 final size:20
Alignment explanation
Indices: 50447006--50447043 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50446996 TATTTTCCAC
*
50447006 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
50447026 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
50447044 TCATTTTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:50447048 original size:34 final size:35
Alignment explanation
Indices: 50446992--50447058 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
50446982 CAAACACCAG
* * *
50446992 AAAATATTTTCCACTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCACGAAATCATTTTACAAAAAAGT
50447027 AAAACATTTTCCA-GAAATCATTTTACAAAAAA
1 AAAACATTTTCCACGAAATCATTTTACAAAAAA
50447059 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCACGAAATCATTTTACAAAAAAGT
Found at i:50447942 original size:29 final size:29
Alignment explanation
Indices: 50447909--50447966 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
50447899 TCCAACAGTT
50447909 ACTTCCCAACGGCTAATTCACACCCCCAA
1 ACTTCCCAACGGCTAATTCACACCCCCAA
* *
50447938 ACTTCCTAACGGCTAATTTACACCCCCAA
1 ACTTCCCAACGGCTAATTCACACCCCCAA
50447967 CACTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.41, G:0.07, T:0.21
Consensus pattern (29 bp):
ACTTCCCAACGGCTAATTCACACCCCCAA
Found at i:50459819 original size:9 final size:9
Alignment explanation
Indices: 50459802--50459838 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50459792 TGAGTTTTCG
50459802 AATTCGAAT
1 AATTCGAAT
*
50459811 AACTCGAAT
1 AATTCGAAT
50459820 AATTCGAAT
1 AATTCGAAT
50459829 AATTCGAAT
1 AATTCGAAT
50459838 A
1 A
50459839 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50460266 original size:20 final size:20
Alignment explanation
Indices: 50460227--50460266 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50460217 TTATTCCCCA
* * *
50460227 AAACTTTTTATTTTCCCCCT
1 AAACTTTTAATTCTCACCCT
50460247 AAACTTTTAATTCTCACCCT
1 AAACTTTTAATTCTCACCCT
50460267 TTACTCTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTAATTCTCACCCT
Found at i:50464770 original size:9 final size:9
Alignment explanation
Indices: 50464756--50464783 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50464746 TTTTGTTACA
50464756 ACAATTAAT
1 ACAATTAAT
50464765 ACAATTAAT
1 ACAATTAAT
50464774 ACAATTAAT
1 ACAATTAAT
50464783 A
1 A
50464784 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:50464805 original size:68 final size:68
Alignment explanation
Indices: 50464726--50464935 Score: 388
Period size: 68 Copynumber: 3.1 Consensus size: 68
50464716 TCAAGTTTGT
*
50464726 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
50464791 AAA
66 AAA
50464794 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
50464859 AAA
66 AAA
50464862 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
50464925 AAT
66 AAA
50464928 TTTACTAA
1 TTTACTAA
50464936 CAATTAATTT
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 112 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:50464836 original size:9 final size:9
Alignment explanation
Indices: 50464824--50464851 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50464814 TTTTATTACA
50464824 ACAATTAAT
1 ACAATTAAT
50464833 ACAATTAAT
1 ACAATTAAT
50464842 ACAATTAAT
1 ACAATTAAT
50464851 A
1 A
50464852 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:50464945 original size:16 final size:16
Alignment explanation
Indices: 50464924--50464965 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
50464914 AATAATTTGA
*
50464924 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
50464940 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
50464956 TAATTTTAAT
1 TAATTTTAAT
50464966 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:50464949 original size:22 final size:22
Alignment explanation
Indices: 50464939--50465000 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
50464929 TTACTAACAA
* *
50464939 TTAATTTTAATAACAATTAATT
1 TTAATTTTAATAAAAAATAATT
*
50464961 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
50464983 TTAATTTTAATTAAAAAT
1 TTAATTTTAATAAAAAAT
50465001 GGGCCGGGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:50464954 original size:59 final size:66
Alignment explanation
Indices: 50464726--50464959 Score: 338
Period size: 68 Copynumber: 3.6 Consensus size: 66
50464716 TCAAGTTTGT
*
50464726 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
50464791 AAA
64 AAA
50464794 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
50464859 AAA
64 AAA
50464862 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
50464925 AAT
64 AAA
*
50464928 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTAAT
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTAAT
50464960 TTTAATTTTA
Statistics
Matches: 162, Mismatches: 3, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
59 11 0.07
61 6 0.04
62 3 0.02
64 2 0.01
65 1 0.01
66 27 0.17
67 1 0.01
68 111 0.69
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:50466138 original size:21 final size:21
Alignment explanation
Indices: 50466114--50466153 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
50466104 CAAAATAACG
50466114 TGGTTTTG-CTTATTAACTTAA
1 TGGTTTTGACTT-TTAACTTAA
50466135 TGGTTTTGACTTTTAACTT
1 TGGTTTTGACTTTTAACTT
50466154 TAGAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (21 bp):
TGGTTTTGACTTTTAACTTAA
Found at i:50469153 original size:13 final size:13
Alignment explanation
Indices: 50469135--50469162 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50469125 AAAGAAGCAT
50469135 CAGATTTTGATAA
1 CAGATTTTGATAA
50469148 CAGATTTTGATAA
1 CAGATTTTGATAA
50469161 CA
1 CA
50469163 CAAAACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (13 bp):
CAGATTTTGATAA
Found at i:50474010 original size:26 final size:26
Alignment explanation
Indices: 50473975--50474041 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
50473965 AAACTTCAAC
* * *
50473975 ATTAATTTTAATTAATAAATTAAAATT
1 ATTAA-TTTAATTAACAAATAAAAATA
* * *
50474002 ATTTATTTAATCAACCAATAAAAATA
1 ATTAATTTAATTAACAAATAAAAATA
50474028 ATTAATTTAATTAA
1 ATTAATTTAATTAA
50474042 ATAATTTACA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAATTTAATTAACAAATAAAAATA
Found at i:50476367 original size:119 final size:125
Alignment explanation
Indices: 50476149--50476373 Score: 273
Period size: 119 Copynumber: 1.8 Consensus size: 125
50476139 ATATTGAGTA
* * * * *
50476149 TAAGTATGCAATTATATTTATATATATGTGTTAATTTCAAATATGTATGTGTATAATGTATAAAG
1 TAAGTATGCAATTATATTTATATATATGTGATAAATTCAAATATGTATATATATAACG-ATAAAG
*
50476214 GTACAAGTTCTTGTTTCGAAAATAAGTTTAGAATTATATATATAAGATCTTGTTTTGAAAT
65 GTACAAGTTCTTGTGTCGAAAATAAGTTTAGAATTATATATATAAGATCTTGTTTTGAAAT
* *
50476275 TAAGTATG-AATT-TATTTATGTATAT-T-ATAAATTCAAATATGTATATATAT-ACG-TACAGG
1 TAAGTATGCAATTATATTTATATATATGTGATAAATTCAAATATGTATATATATAACGATAAAGG
* * ** * *
50476334 TATAATTTCTTGTGTCGAAGTTAGGTTTGGAATTATATAT
66 TACAAGTTCTTGTGTCGAAAATAAGTTTAGAATTATATAT
50476374 GTATATATGA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
119 38 0.45
121 2 0.02
122 20 0.24
123 1 0.01
124 12 0.14
125 4 0.05
126 8 0.09
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (125 bp):
TAAGTATGCAATTATATTTATATATATGTGATAAATTCAAATATGTATATATATAACGATAAAGG
TACAAGTTCTTGTGTCGAAAATAAGTTTAGAATTATATATATAAGATCTTGTTTTGAAAT
Found at i:50476760 original size:41 final size:42
Alignment explanation
Indices: 50476715--50476852 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 42
50476705 GGCTCAGTAC
** **
50476715 CTAGCAGGCTTGTTGCCAGTGAAA-CCATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
*
50476756 CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACAT
1 CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
* * * *
50476798 CTAGCAGGCTTAATGCCGGTGAAATAAATTCGGACTATAAGT
1 CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
50476840 CTAGCAGGCTTAA
1 CTAGCAGGCTTAA
50476853 AGTCGGTGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 22 0.26
42 64 0.74
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
Found at i:50478755 original size:42 final size:42
Alignment explanation
Indices: 50478708--50478790 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
50478698 GTAAAACTTA
50478708 TCAACCCTAGTTAAATATACTAGGGTTTGCTATCTCATATAT
1 TCAACCCTAGTTAAATATACTAGGGTTTGCTATCTCATATAT
50478750 TCAACCCTAGTTAAATATACTAGGGTTTGCTATCTCATATA
1 TCAACCCTAGTTAAATATACTAGGGTTTGCTATCTCATATA
50478791 ACCAACATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (42 bp):
TCAACCCTAGTTAAATATACTAGGGTTTGCTATCTCATATAT
Found at i:50480851 original size:26 final size:22
Alignment explanation
Indices: 50480798--50480851 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
50480788 GTTAAGGGAG
*
50480798 GAAGAAGAAAGAAGGAAAAAAT
1 GAAGAAGAAAGAAGGAAAAAAA
50480820 GTAAGAAGAAACGATAGGAAAAAAA
1 G-AAGAAGAAA-GA-AGGAAAAAAA
50480845 -AAGAAGA
1 GAAGAAGA
50480852 CAAAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 16 0.57
24 2 0.07
25 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.06
Consensus pattern (22 bp):
GAAGAAGAAAGAAGGAAAAAAA
Found at i:50485754 original size:24 final size:24
Alignment explanation
Indices: 50485654--50485764 Score: 91
Period size: 24 Copynumber: 4.5 Consensus size: 24
50485644 GGCTCTTCAT
*
50485654 GAGCTTCCCATTAATTGGCTCTTTG
1 GAGCTTCCCGTTAA-TGGCTCTTTG
* *
50485679 TGAGCTTCCCGAT-ATGGCTCGCTT-
1 -GAGCTTCCCGTTAATGGCTC-TTTG
* * * * *
50485703 GAACTTCCTGATATATGGCTATTCG
1 GAGCTTCCCGTTA-ATGGCTCTTTG
50485728 GAGCTTCCCGTTAATGGCTCTTTG
1 GAGCTTCCCGTTAATGGCTCTTTG
*
50485752 GAGCTACCCGTTA
1 GAGCTTCCCGTTA
50485765 TAGGCTCGTA
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
23 10 0.15
24 28 0.42
25 19 0.28
26 10 0.15
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTTG
Found at i:50485771 original size:73 final size:75
Alignment explanation
Indices: 50485654--50485791 Score: 194
Period size: 73 Copynumber: 1.9 Consensus size: 75
50485644 GGCTCTTCAT
*
50485654 GAGCTTCCCATTAATTGGCTCTTTGTGAGCTTCCCGATATGGCTCGCT-TGAACTTCCTG-ATAT
1 GAGCTTCCCATTAATTGGCTCTTTGTGAGCTACCCGATATGGCTCG-TATGAACTTCCTGAATAT
50485717 ATGGCTATTCG
65 ATGGCTATTCG
* * *
50485728 GAGCTTCCCGTTAA-TGGCTCTTTG-GAGCTACCCGTTATAGGCTCGTATGAGCTTCCTGAATAT
1 GAGCTTCCCATTAATTGGCTCTTTGTGAGCTACCCGATAT-GGCTCGTATGAACTTCCTGAATAT
50485791 A
65 A
50485792 GCTCTTATGA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
72 13 0.23
73 26 0.46
74 18 0.32
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (75 bp):
GAGCTTCCCATTAATTGGCTCTTTGTGAGCTACCCGATATGGCTCGTATGAACTTCCTGAATATA
TGGCTATTCG
Found at i:50488700 original size:28 final size:28
Alignment explanation
Indices: 50488669--50488752 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 28
50488659 ATCGTCTTCA
50488669 TTCTCATTCACACTAGGGTTTTTTTCC-
1 TTCTCATTCACACTAGGGTTTTTTTCCT
* *
50488696 TT-TC--TCA-A-TA--GATTATTTCCTT
1 TTCTCATTCACACTAGGGTTTTTTTCC-T
50488718 ATTCTCATTCACACTAGGGTTTTTTTCCT
1 -TTCTCATTCACACTAGGGTTTTTTTCCT
50488747 TTCTCA
1 TTCTCA
50488753 ATAGATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 19
0.65 0.06 0.29
Matches are distributed among these distances:
20 8 0.19
22 2 0.05
23 3 0.07
24 5 0.12
26 5 0.12
27 3 0.07
28 8 0.19
29 1 0.02
30 8 0.19
ACGTcount: A:0.18, C:0.24, G:0.08, T:0.50
Consensus pattern (28 bp):
TTCTCATTCACACTAGGGTTTTTTTCCT
Found at i:50488743 original size:50 final size:50
Alignment explanation
Indices: 50488668--50488767 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
50488658 CATCGTCTTC
50488668 ATTCTCATTCACACTAGGGTTTTTTTCCTTTCTCAATAGATTATTTCCTT
1 ATTCTCATTCACACTAGGGTTTTTTTCCTTTCTCAATAGATTATTTCCTT
50488718 ATTCTCATTCACACTAGGGTTTTTTTCCTTTCTCAATAGATTATTTCCTT
1 ATTCTCATTCACACTAGGGTTTTTTTCCTTTCTCAATAGATTATTTCCTT
50488768 CCTATAATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.50
Consensus pattern (50 bp):
ATTCTCATTCACACTAGGGTTTTTTTCCTTTCTCAATAGATTATTTCCTT
Found at i:50501029 original size:26 final size:27
Alignment explanation
Indices: 50501007--50501057 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
50500997 ATATAATGTT
50501007 ATTG-ATGATTTG-CGATTTTTAATTAG
1 ATTGAATGATTTGTC-ATTTTTAATTAG
50501033 ATTGAATGATTTGTCATTTTTAATT
1 ATTGAATGATTTGTCATTTTTAATT
50501058 GCAAGCAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 4 0.17
27 18 0.78
28 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (27 bp):
ATTGAATGATTTGTCATTTTTAATTAG
Found at i:50504162 original size:2 final size:2
Alignment explanation
Indices: 50504149--50504179 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50504139 ACATATCGGG
*
50504149 GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
50504180 TTATATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:50507592 original size:4 final size:4
Alignment explanation
Indices: 50507583--50507610 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
50507573 AAGACACACC
50507583 TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
50507611 AAAAAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:50509600 original size:28 final size:29
Alignment explanation
Indices: 50509568--50509637 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
50509558 TTTGGGTAGA
**
50509568 TTGGGGGGAGGGGAGG-GGAGTAAAAGTT
1 TTGGGGGGAAAGGAGGAGGAGTAAAAGTT
*
50509596 TTGGGGGGAAAGTAGGAAGGAGTAAAAGTT
1 TTGGGGGGAAAGGAGG-AGGAGTAAAAGTT
* *
50509626 TTGAGGGAAAAG
1 TTGGGGGGAAAG
50509638 TAAAAAGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 13 0.37
30 22 0.63
ACGTcount: A:0.33, C:0.00, G:0.49, T:0.19
Consensus pattern (29 bp):
TTGGGGGGAAAGGAGGAGGAGTAAAAGTT
Found at i:50510644 original size:15 final size:16
Alignment explanation
Indices: 50510607--50510645 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
50510597 TTTAAATACA
*
50510607 AGTTGTTCTAAATAAT
1 AGTTATTCTAAATAAT
*
50510623 GGTTATTCTAAAT-AT
1 AGTTATTCTAAATAAT
50510638 AGTTATTC
1 AGTTATTC
50510646 CTGAAACGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (16 bp):
AGTTATTCTAAATAAT
Found at i:50514461 original size:28 final size:28
Alignment explanation
Indices: 50514421--50514496 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
50514411 CATCCTAGCG
*
50514421 GACTTACCCCGTGTTTACTGTCCCGA-TA
1 GACTTACCTCGTGTTTACTGT-CCGAGTA
* * *
50514449 GACTTACCTCGTGTTTATTGTCCTAGTG
1 GACTTACCTCGTGTTTACTGTCCGAGTA
*
50514477 GACTTA-CTCGTATTTACTGT
1 GACTTACCTCGTGTTTACTGT
50514497 TCCAACAGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 15 0.37
28 26 0.63
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (28 bp):
GACTTACCTCGTGTTTACTGTCCGAGTA
Found at i:50517125 original size:20 final size:20
Alignment explanation
Indices: 50517100--50517147 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
50517090 TATCGATCTA
* *
50517100 GTATCGATATTTTTCTTAAG
1 GTATCGATATATTTCCTAAG
50517120 GTATCGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
50517140 GTATCGAT
1 GTATCGAT
50517148 TTTCCTTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:50517153 original size:17 final size:18
Alignment explanation
Indices: 50517100--50517153 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
50517090 TATCGATCTA
*
50517100 GTATCGATATTTTTCTTAAG
1 GTATCGA-A-TTTTCCTAAG
50517120 GTATCGATATATTTCCTAAG
1 GTATCGA-AT-TTTCCTAAG
50517140 GTATCG-ATTTTCCT
1 GTATCGAATTTTCCT
50517154 TCTCCAAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 6 0.19
18 2 0.06
19 1 0.03
20 23 0.72
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (18 bp):
GTATCGAATTTTCCTAAG
Found at i:50519129 original size:14 final size:14
Alignment explanation
Indices: 50519110--50519146 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
50519100 TGTCCATTGT
50519110 GAATTAATCGAGAG
1 GAATTAATCGAGAG
50519124 GAATTAATCGAGAG
1 GAATTAATCGAGAG
*
50519138 AAATTAATC
1 GAATTAATC
50519147 ATTGTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (14 bp):
GAATTAATCGAGAG
Found at i:50524135 original size:25 final size:25
Alignment explanation
Indices: 50524090--50524150 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
50524080 AAAAGTTTAT
* *
50524090 TTAAAAATATTTTAAAAATTACAAA
1 TTAAAAATATTTGAAAAATTAAAAA
*
50524115 TTAAAAA-ATTTGAAATTATTAAAAA
1 TTAAAAATATTTGAAA-AATTAAAAA
*
50524140 TTTATAAATAT
1 -TTAAAAATAT
50524151 AAAATTTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 7 0.24
25 14 0.48
26 6 0.21
27 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
TTAAAAATATTTGAAAAATTAAAAA
Found at i:50525547 original size:25 final size:27
Alignment explanation
Indices: 50525513--50525573 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
50525503 GGCCCGGCCC
* *
50525513 ATTTTAAAAAT-AAACAT-TAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
50525538 ATTTTAAAAATAAAAAATAAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
50525565 ATTTTAAAA
1 ATTTTAAAA
50525574 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 11 0.34
26 5 0.16
27 16 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAATT
Found at i:50532116 original size:20 final size:18
Alignment explanation
Indices: 50532079--50532123 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
50532069 ATAAAAAGCA
*
50532079 TAAAAATATAAAACAAAT
1 TAAAAATATAAAAAAAAT
50532097 TAAAAATATATGAAAAAAAT
1 TAAAAATATA--AAAAAAAT
50532117 TATAAAA
1 TA-AAAA
50532124 ACCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
TAAAAATATAAAAAAAAT
Found at i:50533698 original size:25 final size:25
Alignment explanation
Indices: 50533652--50533699 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
50533642 TTAAATTAAA
** * *
50533652 ATAAAATTTTATATAAATTTCATCT
1 ATAAAATTAAATAAAAAATTCATCT
50533677 ATAAAATTAAATAAAAAATTCAT
1 ATAAAATTAAATAAAAAATTCAT
50533700 GTGTACAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAATTAAATAAAAAATTCATCT
Found at i:50537137 original size:17 final size:17
Alignment explanation
Indices: 50537115--50537181 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
50537105 GAAAAATTAT
*
50537115 AATTATGCATT-AATGTG
1 AATTATGAATTGAAT-TG
50537132 AATTATGAATTGAATTG
1 AATTATGAATTGAATTG
50537149 AATGT-TGATATTG-ATTG
1 AAT-TATGA-ATTGAATTG
* *
50537166 AAATACTTAATTGAAT
1 AATTA-TGAATTGAAT
50537182 ATAATTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 1 0.02
17 28 0.68
18 12 0.29
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (17 bp):
AATTATGAATTGAATTG
Found at i:50537431 original size:41 final size:41
Alignment explanation
Indices: 50537376--50537453 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
50537366 ATTATTTATA
* * * *
50537376 CCCTGTATTGCACATATGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTACACATAAGTGCCCCTGTTAGTACTTCGGTAC
*
50537417 CCCTGAATTACACATAAGTGCCCTTGTTAGTACTTCG
1 CCCTGAATTACACATAAGTGCCCCTGTTAGTACTTCG
50537454 ACAACCTTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (41 bp):
CCCTGAATTACACATAAGTGCCCCTGTTAGTACTTCGGTAC
Found at i:50537465 original size:41 final size:41
Alignment explanation
Indices: 50537375--50537473 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
50537365 AATTATTTAT
* * * * **
50537375 ACCCTGTATTGCACATATGTGCCCCTGTTTGTACTTCGGTA
1 ACCCTGAATTACACATAAGTGCCCCTGTTAGTACTTCGACA
* *
50537416 CCCCTGAATTACACATAAGTGCCCTTGTTAGTACTTCGACA
1 ACCCTGAATTACACATAAGTGCCCCTGTTAGTACTTCGACA
* *
50537457 ACCTTGAATTGCACATA
1 ACCCTGAATTACACATA
50537474 CTTGCCCTGT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (41 bp):
ACCCTGAATTACACATAAGTGCCCCTGTTAGTACTTCGACA
Found at i:50546955 original size:82 final size:81
Alignment explanation
Indices: 50546839--50546994 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
50546829 AAATTGTACA
* * * *
50546839 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
50546903 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
50546920 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
50546985 TGCGAGTTGA
65 TGCGAATTGA
50546995 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:50546962 original size:55 final size:52
Alignment explanation
Indices: 50546838--50546991 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
50546828 TAAATTGTAC
* *
50546838 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
50546891 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
50546946 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
50546992 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:50546996 original size:27 final size:27
Alignment explanation
Indices: 50546839--50546994 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
50546829 AAATTGTACA
*
50546839 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
50546866 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
50546893 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
50546920 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
50546948 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
50546975 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
50546995 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:50547005 original size:27 final size:27
Alignment explanation
Indices: 50546831--50547015 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
50546821 GCGGGATTAA
*
50546831 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
50546858 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
50546885 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
50546912 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
50546940 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
50546967 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
50546994 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
50547016 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:50547006 original size:82 final size:81
Alignment explanation
Indices: 50546831--50547015 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
50546821 GCGGGATTAA
* * * *
50546831 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
50546896 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
50546912 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
50546976 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
50546994 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
50547016 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:50551973 original size:26 final size:26
Alignment explanation
Indices: 50551944--50551994 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
50551934 ATCGTGAGGT
*
50551944 AAGACTGATTATGGTGTTATTTGTTA
1 AAGACTAATTATGGTGTTATTTGTTA
50551970 AAGACTAATTATGGTGTTATTTGTT
1 AAGACTAATTATGGTGTTATTTGTT
50551995 CAATTATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (26 bp):
AAGACTAATTATGGTGTTATTTGTTA
Found at i:50554176 original size:4 final size:4
Alignment explanation
Indices: 50554167--50554212 Score: 67
Period size: 4 Copynumber: 11.5 Consensus size: 4
50554157 TTGCTTGTAC
*
50554167 ATAA ATAA ATAA ATAAA ATGA A-AA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
50554213 GTTCAAGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 2 0.05
4 32 0.84
5 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:50554987 original size:9 final size:9
Alignment explanation
Indices: 50554965--50555001 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
50554955 AGAAAAAATC
50554965 TTATTTTA-
1 TTATTTTAT
50554973 TTATTTTAT
1 TTATTTTAT
50554982 TTATTTTAT
1 TTATTTTAT
*
50554991 TTATTTAAT
1 TTATTTTAT
50555000 TT
1 TT
50555002 TATGTTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTAT
Found at i:50556640 original size:22 final size:22
Alignment explanation
Indices: 50556612--50556653 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
50556602 TGCAAGAAAA
50556612 GGTATGTCAATTTTTTTCTTGG
1 GGTATGTCAATTTTTTTCTTGG
50556634 GGTATGTCAATTTTTTTCTT
1 GGTATGTCAATTTTTTTCTT
50556654 ATTTTACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.10, G:0.19, T:0.57
Consensus pattern (22 bp):
GGTATGTCAATTTTTTTCTTGG
Found at i:50561594 original size:18 final size:18
Alignment explanation
Indices: 50561570--50561613 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
50561560 GTTTAGAAAT
50561570 TATTTTTATCA-T-ATTAA
1 TATTTTTAT-AGTAATTAA
50561587 TAATTTTTATAGTAATTAA
1 T-ATTTTTATAGTAATTAA
50561606 TATTTTTA
1 TATTTTTA
50561614 AAAAGATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 16 0.67
19 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTTTTATAGTAATTAA
Found at i:50561812 original size:25 final size:24
Alignment explanation
Indices: 50561783--50561839 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
50561773 TTCATTCAAT
* *
50561783 TACTTTTTTTAAACGATAACT-TTA
1 TACTTTTTTAAAAC-AAAACTGTTA
*
50561807 TCACTTTATTAAAACAAAACTGTTA
1 T-ACTTTTTTAAAACAAAACTGTTA
50561832 TACTTTTT
1 TACTTTTT
50561840 AATTACACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (24 bp):
TACTTTTTTAAAACAAAACTGTTA
Found at i:50566068 original size:90 final size:91
Alignment explanation
Indices: 50565906--50566083 Score: 220
Period size: 90 Copynumber: 2.0 Consensus size: 91
50565896 TGTTAAACCG
* * * *
50565906 ATGTACCATAATAAAGCACATATTAATAGTTTAAGTACTACATATGATACTTTTAAAGTACAAGT
1 ATGTACCATAATAAAACACATATTAACAGTTCAAGTACTACATATGATACTTTTAAAATACAAGT
50565971 ACCACATT-GACATTTATGAAAGAAC
66 ACCACATTGGACATTTATGAAAGAAC
* * * *
50565996 ATGTACCATAATAAAACACATATTGACAGTTCAGGTACTATAT-TGAATA-TTTTCAAAATA-TA
1 ATGTACCATAATAAAACACATATTAACAGTTCAAGTACTACATATG-ATACTTTT-AAAATACAA
*
50566058 GATACTACATTGGACATTTATGAAAG
64 G-TACCACATTGGACATTTATGAAAG
50566084 TACAAAAACC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
89 8 0.11
90 53 0.71
91 14 0.19
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (91 bp):
ATGTACCATAATAAAACACATATTAACAGTTCAAGTACTACATATGATACTTTTAAAATACAAGT
ACCACATTGGACATTTATGAAAGAAC
Found at i:50571243 original size:43 final size:41
Alignment explanation
Indices: 50571195--50571292 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 41
50571185 ATACATATCT
** *
50571195 TTTACTTTGTATATTAAAGACATCATTTTTTTTATTTCATAAA
1 TTTACTTTGTATATTAAAGACAT-AAATTTTTAATTT-ATAAA
* *
50571238 TTTACTTTATATATTAAAGAGATAAATTTTTAATTTATAAA
1 TTTACTTTGTATATTAAAGACATAAATTTTTAATTTATAAA
* *
50571279 TTAATTTTGTATAT
1 TTTACTTTGTATAT
50571293 AATTAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 16 0.34
42 10 0.21
43 21 0.45
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (41 bp):
TTTACTTTGTATATTAAAGACATAAATTTTTAATTTATAAA
Found at i:50573139 original size:57 final size:57
Alignment explanation
Indices: 50573078--50573200 Score: 237
Period size: 57 Copynumber: 2.2 Consensus size: 57
50573068 ATATGATTAT
*
50573078 TATCGATACCAAAATTGCTCGTTGACTTTAATAAAAAAATTGAACAAAAGCAATAAG
1 TATCGATACCAAAATTGCTCATTGACTTTAATAAAAAAATTGAACAAAAGCAATAAG
50573135 TATCGATACCAAAATTGCTCATTGACTTTAATAAAAAAATTGAACAAAAGCAATAAG
1 TATCGATACCAAAATTGCTCATTGACTTTAATAAAAAAATTGAACAAAAGCAATAAG
50573192 TATCGATAC
1 TATCGATAC
50573201 TTTTCTAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (57 bp):
TATCGATACCAAAATTGCTCATTGACTTTAATAAAAAAATTGAACAAAAGCAATAAG
Found at i:50573256 original size:18 final size:19
Alignment explanation
Indices: 50573229--50573264 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50573219 ACCTATTGAA
50573229 TTTATCGATACCA-TTTTT
1 TTTATCGATACCACTTTTT
*
50573247 TTTATTGATACCACTTTT
1 TTTATCGATACCACTTTT
50573265 GCATATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTATCGATACCACTTTTT
Found at i:50589238 original size:26 final size:27
Alignment explanation
Indices: 50589190--50589244 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
50589180 CTTAATATTT
* *
50589190 AAGTAAATATATATAATATAATAA-TA
1 AAGTAAATATATATAAAAAAATAAGTA
50589216 AAGTAAATATA-ATAAAACAAATAAGTA
1 AAGTAAATATATATAAAA-AAATAAGTA
50589243 AA
1 AA
50589245 TGAAACAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAGTAAATATATATAAAAAAATAAGTA
Found at i:50589296 original size:13 final size:14
Alignment explanation
Indices: 50589280--50589310 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
50589270 ATCAAAATTG
50589280 AGAAAG-AAAAGAA
1 AGAAAGAAAAAGAA
50589293 AGAAAGAAAAAGAA
1 AGAAAGAAAAAGAA
50589307 AGAA
1 AGAA
50589311 GGACTACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAA
Found at i:50592226 original size:12 final size:12
Alignment explanation
Indices: 50592209--50592233 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50592199 TTGGGAATTC
50592209 TTTCAAAAGAAA
1 TTTCAAAAGAAA
50592221 TTTCAAAAGAAA
1 TTTCAAAAGAAA
50592233 T
1 T
50592234 ATGTGGGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (12 bp):
TTTCAAAAGAAA
Found at i:50599492 original size:39 final size:39
Alignment explanation
Indices: 50599433--50599517 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
50599423 TAATAACAAT
*
50599433 AAAATTAAAAAAATACTTGCCTAAACTTTATTGGATGCC
1 AAAACTAAAAAAATACTTGCCTAAACTTTATTGGATGCC
50599472 AAAACTAAAAAAATACTTGCCTAAACTTTATTGGATGCC
1 AAAACTAAAAAAATACTTGCCTAAACTTTATTGGATGCC
50599511 AAAACTA
1 AAAACTA
50599518 TCTTCAAGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.28
Consensus pattern (39 bp):
AAAACTAAAAAAATACTTGCCTAAACTTTATTGGATGCC
Found at i:50603101 original size:15 final size:15
Alignment explanation
Indices: 50603083--50603111 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50603073 TTCAATTTAA
50603083 GGCATAAAAATTTGG
1 GGCATAAAAATTTGG
50603098 GGCATAAAAATTTG
1 GGCATAAAAATTTG
50603112 AAATAAGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (15 bp):
GGCATAAAAATTTGG
Found at i:50606725 original size:23 final size:22
Alignment explanation
Indices: 50606674--50606725 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
50606664 CCTCGTCTTT
*
50606674 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
50606696 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
50606719 TTCTTTT
1 TTCTTTT
50606726 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:50606734 original size:12 final size:12
Alignment explanation
Indices: 50606683--50606738 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
50606673 TTTCTTTTGT
50606683 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
50606696 -TCATTTTC-TC
1 TTCTTTTTCAAC
50606706 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
50606719 TTCTTTTTCAAT
1 TTCTTTTTCAAC
50606731 TTCTTTTT
1 TTCTTTTT
50606739 GTTTCACATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.11
12 23 0.66
13 7 0.20
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:50609783 original size:66 final size:66
Alignment explanation
Indices: 50609702--50609833 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
50609692 GTCCATCAAG
50609702 ATCAAGATAAGTTTTGACGTACTTTAAAATCTAATAGTCATTAGAATTAGATATCTACTTCATTT
1 ATCAAGATAAGTTTTGACGTACTTTAAAATCTAATAGTCATTAGAATTAGATATCTACTTCATTT
50609767 A
66 A
*
50609768 ATCAAGATAAGTTTTGACGTACTTTAAAATCTAATAGTCATTAGAATTAGATCTCTACTTCATTT
1 ATCAAGATAAGTTTTGACGTACTTTAAAATCTAATAGTCATTAGAATTAGATATCTACTTCATTT
50609833 A
66 A
50609834 TACTTCTTAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (66 bp):
ATCAAGATAAGTTTTGACGTACTTTAAAATCTAATAGTCATTAGAATTAGATATCTACTTCATTT
A
Found at i:50617599 original size:21 final size:21
Alignment explanation
Indices: 50617575--50617628 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
50617565 AATAATGGTG
* *
50617575 GCGGTAAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
50617596 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
50617617 GCAGTGAGATTA
1 GCGGTGAGATTA
50617629 AAAACAGCGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.35, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:50620620 original size:5 final size:5
Alignment explanation
Indices: 50620605--50620634 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
50620595 ATGTATATAT
50620605 ATAAA AT-AA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
50620635 GTTTATAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:50620744 original size:26 final size:25
Alignment explanation
Indices: 50620715--50620764 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
50620705 AATATTTAAA
*
50620715 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
50620741 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
50620765 GGTATCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:50620982 original size:26 final size:27
Alignment explanation
Indices: 50620948--50620999 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
50620938 TTTTAGACAT
50620948 AAAAAAATAAAAAAATGAAA-AAAGAA
1 AAAAAAATAAAAAAATGAAATAAAGAA
* *
50620974 AAAAAAATACACAAATGAAATAAAGA
1 AAAAAAATAAAAAAATGAAATAAAGA
50621000 TAATAATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.10
Consensus pattern (27 bp):
AAAAAAATAAAAAAATGAAATAAAGAA
Found at i:50624663 original size:23 final size:23
Alignment explanation
Indices: 50624633--50624676 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
50624623 AGTTTTTATA
50624633 TTTTTATATTTAAGAATTTAACC
1 TTTTTATATTTAAGAATTTAACC
* *
50624656 TTTTTATATTTTAGATTTTAA
1 TTTTTATATTTAAGAATTTAA
50624677 AATTTAAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTTTATATTTAAGAATTTAACC
Found at i:50625120 original size:22 final size:22
Alignment explanation
Indices: 50625079--50625120 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
50625069 CTTTTTATAT
**
50625079 ATATTATTATATTACTTAAAAA
1 ATATTATTATATTAAGTAAAAA
*
50625101 ATATTATTATGTTAAGTAAA
1 ATATTATTATATTAAGTAAA
50625121 CAATTAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATTATTATATTAAGTAAAAA
Found at i:50626436 original size:32 final size:33
Alignment explanation
Indices: 50626399--50626471 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
50626389 TATTATTATT
*
50626399 TAATTTAAGTTAGAGT-TAAATAGAA-AAATTAA
1 TAATTTAAGTTA-AGTATAAATAAAATAAATTAA
* * *
50626431 TAATTTAATTTAAGTATAATTAAAATAAATTAT
1 TAATTTAAGTTAAGTATAAATAAAATAAATTAA
50626464 TAATTTAA
1 TAATTTAA
50626472 TAATTTAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.09
32 18 0.51
33 14 0.40
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (33 bp):
TAATTTAAGTTAAGTATAAATAAAATAAATTAA
Found at i:50626466 original size:36 final size:36
Alignment explanation
Indices: 50626384--50626467 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 36
50626374 TTATTTAATT
*
50626384 TAAATTATT-ATTATTTAATTTAAGTTAGAGTTAAA
1 TAAATTATTAATAATTTAATTTAAGTTAGAGTTAAA
**
50626419 TAGAAAAATTAATAATTTAATTTAAGTATA-A-TTAAAA
1 TA-AATTATTAATAATTTAATTTAAGT-TAGAGTT-AAA
50626456 TAAATTATTAAT
1 TAAATTATTAAT
50626468 TTAATAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
35 2 0.05
36 15 0.38
37 21 0.52
38 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (36 bp):
TAAATTATTAATAATTTAATTTAAGTTAGAGTTAAA
Found at i:50626468 original size:33 final size:32
Alignment explanation
Indices: 50626393--50626472 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
50626383 TTAAATTATT
* *
50626393 ATTATTTAATTTAAGTTAGAGTTAAATAGAAAA
1 ATTA-TTAATTTAATTTAGAGTTAAATAAAAAA
* *
50626426 ATTAATAATTTAATTTA-AGTATAATTAAAATAA
1 ATTATTAATTTAATTTAGAGT-TAAATAAAA-AA
50626459 ATTATTAATTTAAT
1 ATTATTAATTTAAT
50626473 AATTTAGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.08
32 18 0.45
33 19 0.47
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (32 bp):
ATTATTAATTTAATTTAGAGTTAAATAAAAAA
Found at i:50632188 original size:87 final size:87
Alignment explanation
Indices: 50632041--50632324 Score: 406
Period size: 87 Copynumber: 3.3 Consensus size: 87
50632031 ACTCAACTTA
* **
50632041 AAGTAGAGGCAACATTGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTT
1 AAGTAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTT
50632106 AAAACAGATGCAGCAGTGAGGG
66 AAAACAGATGCAGCAGTGAGGG
* * * *
50632128 AAGTAGAGGCAGCAGCGAGAAAAGATGAGGTTCAAAGAAAATATGAAGAACTCCAACTACAATTT
1 AAGTAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTT
* * * *
50632193 AAAGCAGATACAGCAATGAGAG
66 AAAACAGATGCAGCAGTGAGGG
* *
50632215 AAGCAGAGGCAGCAGCGAGAGAAGCTAAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTT
1 AAGTAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTT
*
50632280 AAATCAGATGCAGCAGTGAGGG
66 AAAACAGATGCAGCAGTGAGGG
* * * *
50632302 AAGCAAAGGCAACAGCAAGAGAA
1 AAGTAGAGGCAGCAGCGAGAGAA
50632325 ACAGAGGCTA
Statistics
Matches: 173, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 173 1.00
ACGTcount: A:0.45, C:0.15, G:0.26, T:0.14
Consensus pattern (87 bp):
AAGTAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTT
AAAACAGATGCAGCAGTGAGGG
Found at i:50632218 original size:21 final size:21
Alignment explanation
Indices: 50632194--50632239 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
50632184 CTACAATTTA
* *
50632194 AAGCAGATACAGCAATGAGAG
1 AAGCAGAGACAGCAACGAGAG
* *
50632215 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGACAGCAACGAGAG
50632236 AAGC
1 AAGC
50632240 TAAGGTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.35, T:0.04
Consensus pattern (21 bp):
AAGCAGAGACAGCAACGAGAG
Found at i:50632697 original size:43 final size:43
Alignment explanation
Indices: 50632661--50632896 Score: 186
Period size: 43 Copynumber: 5.5 Consensus size: 43
50632651 AAAAAATGCT
* * *
50632661 GCTAAAAGTCGTGTTCTTTAGCGGCGTTTATAAAAAAAGCGTC
1 GCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCGTC
* ** * *
50632704 GCTAAAAGTCATGATCTATAGCGGCG-TTGTAGGAGAAGCGCC
1 GCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCGTC
* * *** * * *
50632746 GCTAAAAGTCATGATCTTTAGCGGCGTTTGTGGGAGAGGCGCC
1 GCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCGTC
* * * ** * * *
50632789 GCAAAAAGTCATGACCTATAGCGGCGTTTGTAGGAAAGGTGCC
1 GCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCGTC
* * * * * **
50632832 GCGAAAAGTCATGATCTATAGCGACGTTTGTAAAAAGATCACC
1 GCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCGTC
50632875 GCTAAAAGTCATGATCTATAGC
1 GCTAAAAGTCATGATCTATAGC
50632897 AATGTTTGTG
Statistics
Matches: 164, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 36 0.22
43 128 0.78
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
GCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCGTC
Found at i:50632754 original size:85 final size:86
Alignment explanation
Indices: 50632661--50632896 Score: 287
Period size: 86 Copynumber: 2.8 Consensus size: 86
50632651 AAAAAATGCT
* * * *
50632661 GCTAAAAGTCGTGTTCTTTAGCGGCGTTTATAAAAAAAGCGTCGCTAAAAGTCATGATCTATAGC
1 GCTAAAAGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGATCTATAGC
50632726 GGCG-TTGTAGGAGAA-GCGCC
66 GGCGTTTGTAGGA-AAGGCGCC
*** * * * *
50632746 GCTAAAAGTCATGATCTTTAGCGGCGTTTGTGGGAGAGGCGCCGCAAAAAGTCATGACCTATAGC
1 GCTAAAAGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGATCTATAGC
*
50632811 GGCGTTTGTAGGAAAGGTGCC
66 GGCGTTTGTAGGAAAGGCGCC
* * * * * *
50632832 GCGAAAAGTCATGATCTATAGCGACGTTTGTAAAAAGATCACCGCTAAAAGTCATGATCTATAGC
1 GCTAAAAGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGATCTATAGC
50632897 AATGTTTGTG
Statistics
Matches: 124, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
85 60 0.48
86 64 0.52
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (86 bp):
GCTAAAAGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGATCTATAGC
GGCGTTTGTAGGAAAGGCGCC
Found at i:50632931 original size:129 final size:127
Alignment explanation
Indices: 50632707--50632946 Score: 293
Period size: 129 Copynumber: 1.9 Consensus size: 127
50632697 AAGCGTCGCT
* * * * **
50632707 AAAAGTCATGATCTATAGCGGCGTTGTAGGAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCG
1 AAAAGTCATGATCTATAGCGACGTTGTA-GAAAAGCACCGCTAAAAGTCATGATCTATAGCAACG
* * *
50632772 TTTGTGGGAGAGGCGCCGCAAAAAGTCATGACCTATAGCGGCGTTTGTAGGAAAGGTGCCGCG
65 TTTGTGGGAGAAGCACCGCAAAAAGCCATGACCTATAGCGGCGTTTGTAGGAAAGGTGCCGCG
50632835 AAAAGTCATGATCTATAGCGACGTTTGTA-AAAAGATCACCGCTAAAAGTCATGATCTATAGCAA
1 AAAAGTCATGATCTATAGCGACG-TTGTAGAAAAG--CACCGCTAAAAGTCATGATCTATAGCAA
* * ** * * *
50632899 TGTTTGTGGGAGAAGCACTGTTAAAGGCCATGACCTTTAGCGGTGTTT
63 CGTTTGTGGGAGAAGCACCGCAAAAAGCCATGACCTATAGCGGCGTTT
50632947 TTTTAAAAGC
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
127 4 0.04
128 22 0.24
129 67 0.72
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (127 bp):
AAAAGTCATGATCTATAGCGACGTTGTAGAAAAGCACCGCTAAAAGTCATGATCTATAGCAACGT
TTGTGGGAGAAGCACCGCAAAAAGCCATGACCTATAGCGGCGTTTGTAGGAAAGGTGCCGCG
Found at i:50632978 original size:42 final size:44
Alignment explanation
Indices: 50632920--50633005 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 44
50632910 GAAGCACTGT
* * *
50632920 TAAAGGCCATGACCTTTAGCGGTGTTT-TTT-TAAAAGCGCCGC
1 TAAAGGCCATGACCTTTAGCAGCGTTTATTTCTAAAAACGCCGC
* *
50632962 TAAAGGTCATGGCCTTTAGCAGCGTTTATTTCTAAAAACGCCGC
1 TAAAGGCCATGACCTTTAGCAGCGTTTATTTCTAAAAACGCCGC
50633006 AAACGTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 23 0.62
43 3 0.08
44 11 0.30
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
TAAAGGCCATGACCTTTAGCAGCGTTTATTTCTAAAAACGCCGC
Found at i:50633457 original size:15 final size:15
Alignment explanation
Indices: 50633437--50633467 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50633427 CATTTTTGTC
50633437 AAATGCCACCCACTA
1 AAATGCCACCCACTA
50633452 AAATGCCACCCACTA
1 AAATGCCACCCACTA
50633467 A
1 A
50633468 CTTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.39, G:0.06, T:0.13
Consensus pattern (15 bp):
AAATGCCACCCACTA
Found at i:50634479 original size:6 final size:6
Alignment explanation
Indices: 50634470--50634508 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
50634460 TATTTATTTG
*
50634470 ATTCAA ATTCAA ATTCAA ATTTAA ATTCAA ATTCAA ATT
1 ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATT
50634509 TATTTACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (6 bp):
ATTCAA
Found at i:50641647 original size:39 final size:37
Alignment explanation
Indices: 50641577--50641672 Score: 95
Period size: 39 Copynumber: 2.5 Consensus size: 37
50641567 CACACCAGAA
* * * *
50641577 TGACACCCAGTGGCTCATCAGATAGTTCGAAGCAATAGT
1 TGACACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGT
50641616 TGACACCCAGTGCCTCATCGGCAAAG-CCGAAGAAAGT
1 TGACACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGT
** *
50641653 TGGTACCCAGTACCTCATCG
1 TGACACCCAGTGCCTCATCG
50641673 AATCTATCCG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
37 20 0.41
38 2 0.04
39 24 0.49
40 3 0.06
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (37 bp):
TGACACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGT
Done.