Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 211 of 240
Found at i:63860375 original size:7 final size:7
Alignment explanation
Indices: 63860351--63860391 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
63860341 CTCTAACTCT
*
63860351 TAACCTC
1 TAACCCC
*
63860358 TAACCCT
1 TAACCCC
*
63860365 TAACACC
1 TAACCCC
63860372 TAACCCC
1 TAACCCC
63860379 TAACCCC
1 TAACCCC
63860386 TAACCC
1 TAACCC
63860392 ATAAACCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:63860891 original size:41 final size:40
Alignment explanation
Indices: 63860832--63861029 Score: 236
Period size: 41 Copynumber: 4.8 Consensus size: 40
63860822 AAATGTTTTT
*
63860832 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCTCGAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCGCTAAAGATCT-GAGCATTA
**
63860873 GCGGCGCTTCTTGGAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTT-TTTAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
63860914 GTGGCGCTTCTTCAGAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTT-TTTAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
63860955 GCGGCGCTTTTTTAAAAATGCCACTAAAGATTTGAGCATTA
1 GCGGCGC-TTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
63860996 GCGGCGCTTTTTTAAAAAACGCCGCTAAAGATCT
1 GCGGCGC-TTTTT-AAAAACGCCGCTAAAGATCT
63861030 TAAAGGTAGA
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
41 112 0.83
42 23 0.17
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (40 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:63860982 original size:82 final size:83
Alignment explanation
Indices: 63860832--63861029 Score: 265
Period size: 82 Copynumber: 2.4 Consensus size: 83
63860822 AAATGTTTTT
* * *
63860832 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCTCGAGCATTAGCGGCGCTTCTTGGAAAACGCCG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTCGAGCATTAGCGGCGCTTCTTGAAAAACGCCA
63860896 CTAAAGATCTGAGCATTA
66 CTAAAGATCTGAGCATTA
* * * * * * *
63860914 GTGGCGCTTCTTCAGAAACGCCGCTAAAGATCT-GAGTATTAGCGGCGCTTTTTTAAAAATGCCA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTCGAGCATTAGCGGCGCTTCTTGAAAAACGCCA
*
63860978 CTAAAGATTTGAGCATTA
66 CTAAAGATCTGAGCATTA
*
63860996 GCGGCGCTTTTTTAAAAAACGCCGCTAAAGATCT
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAGATCT
63861030 TAAAGGTAGA
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
82 74 0.75
83 25 0.25
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (83 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTCGAGCATTAGCGGCGCTTCTTGAAAAACGCCA
CTAAAGATCTGAGCATTA
Found at i:63862698 original size:44 final size:43
Alignment explanation
Indices: 63862643--63862748 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 43
63862633 TAAATATCTC
* *
63862643 TTTATA-A-ACATATTTTTATA-ACCTATATACATACATACGTT
1 TTTATACATACATATATATATATACCTATATACAT-CATACGTT
** *
63862684 TGTTATACATACATATATATATATGTCTATATCCATCATACGTT
1 T-TTATACATACATATATATATATACCTATATACATCATACGTT
* *
63862728 TTTATAAAT-TATATATATATA
1 TTTATACATACATATATATATA
63862749 CGCCTATAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 16 0.30
43 8 0.15
44 20 0.37
45 9 0.17
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (43 bp):
TTTATACATACATATATATATATACCTATATACATCATACGTT
Found at i:63863479 original size:106 final size:105
Alignment explanation
Indices: 63863278--63863488 Score: 282
Period size: 106 Copynumber: 2.0 Consensus size: 105
63863268 AAGGAAATTT
* * * * * *
63863278 TTTCTAAATAAGGCAATATTTTGCGTTTGGGAATTCGAGAAATCGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAAGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
* *
63863343 TGATTTTCGTTCGACCAAATAACTAAAATATCCTTTTAAAA
66 CGATTTTCGTTCGACCAAATAACT-AAATATCCTCTTAAAA
*
63863384 TTTCAAAATAAAGTAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAAGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
*
63863449 CGATTTCTCGTT-GAACCAAATAGCCT-AATATCCTCTTAAA
66 CGATTT-TCGTTCG-ACCAAATA-ACTAAATATCCTCTTAAA
63863489 TCTCAATCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
106 77 0.84
107 13 0.14
108 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (105 bp):
TTTCAAAATAAAGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
CGATTTTCGTTCGACCAAATAACTAAATATCCTCTTAAAA
Found at i:63869167 original size:21 final size:21
Alignment explanation
Indices: 63869141--63869193 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
63869131 AACAGCGATG
*
63869141 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
63869162 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
63869183 GCAGTGAGATT
1 GCGGTGAGATT
63869194 GGGAACAGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:63873356 original size:41 final size:39
Alignment explanation
Indices: 63873311--63873420 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 39
63873301 CGACTTTGAG
*
63873311 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTTAT
1 TCGATGAGACACTGGGTGTCAATTTA-TACTTCGG-TTTAA
* *
63873352 TCGATGAGACACTGTGTGCCAATTTAT--TTCGGTTTAA
1 TCGATGAGACACTGGGTGTCAATTTATACTTCGGTTTAA
* *
63873389 CCGATGAGACACCGGGTGTCAATTTACTACTT
1 TCGATGAGACACTGGGTGTCAATTTA-TACTT
63873421 TAAATTATCC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
37 26 0.44
38 6 0.10
40 3 0.05
41 24 0.41
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTTATACTTCGGTTTAA
Found at i:63877689 original size:7 final size:7
Alignment explanation
Indices: 63877677--63877709 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
63877667 ATTTATTTTA
63877677 ATTTAAT
1 ATTTAAT
63877684 ATTTAAT
1 ATTTAAT
63877691 ATTTAAT
1 ATTTAAT
63877698 ATTTAAAT
1 ATTT-AAT
63877706 ATTT
1 ATTT
63877710 TATTTCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:63886013 original size:16 final size:16
Alignment explanation
Indices: 63885992--63886022 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63885982 TTAATAAAAG
63885992 TTGATGCTTTTTGTTT
1 TTGATGCTTTTTGTTT
*
63886008 TTGATGGTTTTTGTT
1 TTGATGCTTTTTGTT
63886023 GGATGAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.03, G:0.23, T:0.68
Consensus pattern (16 bp):
TTGATGCTTTTTGTTT
Found at i:63890289 original size:69 final size:69
Alignment explanation
Indices: 63890189--63890321 Score: 189
Period size: 69 Copynumber: 1.9 Consensus size: 69
63890179 TAAAAAGGTA
* * * *
63890189 AAAGAATAATAAATAAATAGATAAATAGATAAAACAAATATACATAATATTATA-TTAAGTATTT
1 AAAGAATAATAAATAAATAAATAAATAGAT-AAA-AAATATAAAAAATATTAAATTTAAGTATTT
63890253 AGAAGT
64 AGAAGT
*
63890259 AAAGAAT-ATAAATAAATAAATAAATTGATAAAAAATATAAAAAATATTAAATTTAAGTATTTA
1 AAAGAATAATAAATAAATAAATAAATAGATAAAAAATATAAAAAATATTAAATTTAAGTATTTA
63890322 AAAATTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 16 0.28
68 14 0.25
69 20 0.35
70 7 0.12
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (69 bp):
AAAGAATAATAAATAAATAAATAAATAGATAAAAAATATAAAAAATATTAAATTTAAGTATTTAG
AAGT
Found at i:63890357 original size:61 final size:58
Alignment explanation
Indices: 63890286--63890478 Score: 177
Period size: 52 Copynumber: 3.3 Consensus size: 58
63890276 AAATAAATTG
* *
63890286 ATAAAAAATATAAAAAATATTAAATTTAAGTATTTAAAAATTTAAAGAATGATAAACAA
1 ATAAAAAATAT-AAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATGATAAACAA
* * * *
63890345 AT-----ATA-AATAATATTAAATTT-AGATATTTAAAGAGTAAAAGAATAATAAATAAATA
1 ATAAAAAATATAAAAATATTAAATTTAAG-TATTTAAAAAGTAAAAGAATGAT-AA-ACA-A
* *
63890400 GATAAAAAATATAAAAA-ATTAGATTTAAGTATTTGAAAAGTAAAAGAATGATAAACAA
1 -ATAAAAAATATAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATGATAAACAA
*
63890458 ATAAATAGATATAACAAATAT
1 ATAAA-AAATATAA-AAATAT
63890479 GAATAATATT
Statistics
Matches: 106, Mismatches: 13, Indels: 29
0.72 0.09 0.20
Matches are distributed among these distances:
51 2 0.02
52 33 0.31
53 2 0.02
54 5 0.05
55 1 0.01
56 2 0.02
57 5 0.05
58 8 0.08
59 7 0.07
60 4 0.04
61 31 0.29
62 6 0.06
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (58 bp):
ATAAAAAATATAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATGATAAACAA
Found at i:63890397 original size:22 final size:21
Alignment explanation
Indices: 63890372--63890414 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
63890362 TTTAGATATT
63890372 TAAAGAG-TAAAAGAATAATAAA
1 TAAAGAGATAAAA-AAT-ATAAA
*
63890394 TAAATAGATAAAAAATATAAA
1 TAAAGAGATAAAAAATATAAA
63890415 AAATTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAAGAGATAAAAAATATAAA
Found at i:63890422 original size:21 final size:23
Alignment explanation
Indices: 63890379--63890423 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
63890369 ATTTAAAGAG
63890379 TAAAAGAATAATAAATAAATAGA
1 TAAAAGAATAATAAATAAATAGA
63890402 TAAAA-AAT-ATAAA-AAATTAGA
1 TAAAAGAATAATAAATAAA-TAGA
63890423 T
1 T
63890424 TTAAGTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 10 0.48
22 3 0.14
23 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
TAAAAGAATAATAAATAAATAGA
Found at i:63890461 original size:69 final size:65
Alignment explanation
Indices: 63890336--63890550 Score: 217
Period size: 69 Copynumber: 3.2 Consensus size: 65
63890326 TTTAAAGAAT
*
63890336 GATAAACAAATATAAATAATATTAAATTT-AGATATTT-AAAGAGTAAAAGAAT----AATAAAT
1 GATAAA-AAATATAAA-AA-ATTAAATTTAAG-TATTTGAAA-AGTAAAATAATAACAAATAAAT
63890395 AAATA
61 AAATA
* * * * *
63890400 GATAAAAAATATAAAAAATTAGATTTAAGTATTTGAAAAGTAAAAGAATGATAAACAAATAAATA
1 GATAAAAAATATAAAAAATTAAATTTAAGTATTTGAAAAGTAAAATAATAACAAATAAATAAATA
* * *
63890465 GATATAACAAATATGAATAATATTAAATTTAGGTATTTGAAAAGTAAAATAATAATAAATAAATA
1 GATA-AA-AAATAT-AA-AAAATTAAATTTAAGTATTTGAAAAGTAAAATAATAACAAATAAATA
63890530 AATA
62 AATA
63890534 GATAAAAAAATATAAAA
1 GAT-AAAAAATATAAAA
63890551 GGATGAAATT
Statistics
Matches: 132, Mismatches: 8, Indels: 20
0.82 0.05 0.12
Matches are distributed among these distances:
61 24 0.18
62 7 0.05
63 9 0.07
64 6 0.05
65 15 0.11
66 4 0.03
67 8 0.06
68 8 0.06
69 50 0.38
70 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (65 bp):
GATAAAAAATATAAAAAATTAAATTTAAGTATTTGAAAAGTAAAATAATAACAAATAAATAAATA
Found at i:63891983 original size:44 final size:44
Alignment explanation
Indices: 63891930--63892013 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
63891920 AGGTTTTGTC
* **
63891930 GCTTCAATCTGCTCCATTGCAACTTTGGGGAGATAAGATTAGTA
1 GCTTCAATCTGCTCCACTGCAACTTCCGGGAGATAAGATTAGTA
* *
63891974 GCTTTAATCTGCTCCACTGTAACTTCCGGGAGATAAGATT
1 GCTTCAATCTGCTCCACTGCAACTTCCGGGAGATAAGATT
63892014 TATAACTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCCGGGAGATAAGATTAGTA
Found at i:63892154 original size:96 final size:96
Alignment explanation
Indices: 63891949--63892208 Score: 270
Period size: 96 Copynumber: 2.7 Consensus size: 96
63891939 TGCTCCATTG
* * * * * *
63891949 CAACTTTGGGGAGATAAGATTAG-TAGCTTTAATCTGCTCCACTGTAACTTCCGGGAGATAAGAT
1 CAACTTTAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
63892013 TTATAACTCATACCTGTAATCTGTTCCATTA
66 TTGTAACTCATACCTGTAATATGTTCCACTA
* ** * * * *
63892044 CAACTTCAAAGAAATAAGATTTGCTATCTTCAATCTACTCTATTGCAACTTCAGGGAGATAAGAT
1 CAACTTTAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
63892109 TTGTAACTTATAGCTTTAATATGTTCCACTA
66 TTGTAACTCATACCTGTAATATGTTCCACTA
* * * * * * * *
63892140 CAACTTTAGGGAAATGATATATACTATATTTACTCTGCTCCACTGCAACTTTAGGGAGATAAAAT
1 CAACTTTAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
63892205 TTGT
66 TTGT
63892209 GGCTTTAATC
Statistics
Matches: 130, Mismatches: 34, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
95 17 0.13
96 113 0.87
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (96 bp):
CAACTTTAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
TTGTAACTCATACCTGTAATATGTTCCACTA
Found at i:63901138 original size:41 final size:41
Alignment explanation
Indices: 63900935--63901127 Score: 332
Period size: 41 Copynumber: 4.7 Consensus size: 41
63900925 TTAATTTAAA
*
63900935 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
63900977 TAGATCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
63901018 CAGATCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
63901059 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
63901100 CAGATCACCGGCACTTAGCCTGCTAGGC
1 CAGATCACCGGCACTTAGCCTGCTAGGC
63901128 GCTAAGCCTG
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
41 141 0.98
42 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:63904039 original size:13 final size:13
Alignment explanation
Indices: 63904021--63904045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63904011 TAATTTAATA
63904021 TTATTTTGTGTGT
1 TTATTTTGTGTGT
63904034 TTATTTTGTGTG
1 TTATTTTGTGTG
63904046 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:63905211 original size:17 final size:19
Alignment explanation
Indices: 63905189--63905233 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
63905179 TGGTTGTGTT
63905189 TATATA-ATGTACG-AATA
1 TATATATATGTACGTAATA
**
63905206 TATATATATGTGTGTAATA
1 TATATATATGTACGTAATA
63905225 TATATATAT
1 TATATATAT
63905234 TTAAATTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 5 0.21
19 13 0.54
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (19 bp):
TATATATATGTACGTAATA
Found at i:63905346 original size:2 final size:2
Alignment explanation
Indices: 63905339--63905368 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
63905329 TAATCAAAGG
63905339 TA TA TA TA TA -A 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 T
63905369 GGATCGCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63905637 original size:41 final size:41
Alignment explanation
Indices: 63905577--63905793 Score: 344
Period size: 41 Copynumber: 5.3 Consensus size: 41
63905567 GTTTGAAATT
*
63905577 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGATAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
*
63905618 GGTGATCTGAATCAAGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
63905659 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAACTGCT
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
63905700 GGTGATCTGAATCAGGCTATTAGCCTAGTAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * * *
63905741 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
63905782 GGTGATCTGAAT
1 GGTGATCTGAAT
63905794 ATGTTAAATT
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:63907797 original size:40 final size:40
Alignment explanation
Indices: 63907523--63907793 Score: 382
Period size: 40 Copynumber: 6.8 Consensus size: 40
63907513 ATTACCACAA
* * ** *
63907523 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
63907563 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
63907603 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
63907643 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
63907683 GCACAAATGCCTGCGGGTCTTAGCCCGAATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
63907723 GCACAAATGCCTGCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
63907763 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
63907794 AAATTCAAAT
Statistics
Matches: 211, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 206 0.98
41 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:63910605 original size:20 final size:20
Alignment explanation
Indices: 63910577--63910614 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63910567 TACATATTAT
*
63910577 CACTCTTCATGATTTGACTC
1 CACTCTTCATGACTTGACTC
*
63910597 CACTGTTCATGACTTGAC
1 CACTCTTCATGACTTGAC
63910615 CCCATTATTC
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:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (20 bp):
CACTCTTCATGACTTGACTC
Found at i:63910625 original size:20 final size:20
Alignment explanation
Indices: 63910577--63910626 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
63910567 TACATATTAT
* * *
63910577 CACTCTTCATGATTTGACTC
1 CACTATTCATGACTTGACCC
*
63910597 CACTGTTCATGACTTGACCC
1 CACTATTCATGACTTGACCC
*
63910617 CATTATTCAT
1 CACTATTCAT
63910627 AAGACTGACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.30, G:0.10, T:0.38
Consensus pattern (20 bp):
CACTATTCATGACTTGACCC
Found at i:63912562 original size:13 final size:12
Alignment explanation
Indices: 63912534--63912558 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63912524 AAATTATAGT
63912534 ACATGGACTAAA
1 ACATGGACTAAA
63912546 ACATGGACTAAA
1 ACATGGACTAAA
63912558 A
1 A
63912559 ACATAGTCTT
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
ACATGGACTAAA
Found at i:63916568 original size:22 final size:23
Alignment explanation
Indices: 63916531--63916578 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
63916521 CTGTAAGTTA
63916531 GAACACGATATTTTTTTTATTCTT
1 GAACACGA-ATTTTTTTTATTCTT
63916555 GAACACG-ATTTTTTTTATTCTT
1 GAACACGAATTTTTTTTATTCTT
63916577 GA
1 GA
63916579 GATTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.52
Consensus pattern (23 bp):
GAACACGAATTTTTTTTATTCTT
Found at i:63918401 original size:14 final size:14
Alignment explanation
Indices: 63918373--63918417 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
63918363 TTTTTTAATT
63918373 TTTGGGCTTGT--A
1 TTTGGGCTTGTAAA
*
63918385 TTTGGGTTTGTAAA
1 TTTGGGCTTGTAAA
*
63918399 TTTAGGCTTGTAAA
1 TTTGGGCTTGTAAA
63918413 TTTGG
1 TTTGG
63918418 ACTTTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.37
14 17 0.63
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.49
Consensus pattern (14 bp):
TTTGGGCTTGTAAA
Found at i:63918805 original size:44 final size:44
Alignment explanation
Indices: 63918752--63918850 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
63918742 TCAACATTTT
* * * *
63918752 AATCCGCTCCACCGCAACTTCGGGGAGATAGGATTAATAGT-TTC
1 AATCTGCTCCACCGCAACTTCAGGCAGATAAGATTAATA-TCTTC
** * *
63918796 AATCTGCTCCATTGCAACTTCAGGCAGATAATATTAGTATCTTC
1 AATCTGCTCCACCGCAACTTCAGGCAGATAAGATTAATATCTTC
63918840 AATCTGCTCCA
1 AATCTGCTCCA
63918851 TTGTATTCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.02
44 45 0.98
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACCGCAACTTCAGGCAGATAAGATTAATATCTTC
Found at i:63918882 original size:42 final size:44
Alignment explanation
Indices: 63918793--63918883 Score: 107
Period size: 42 Copynumber: 2.1 Consensus size: 44
63918783 GATTAATAGT
* * *
63918793 TTCAATCTGCTCCATTGCAACTTCAGGCAGATAATATTAGTATC
1 TTCAATCTGCTCCATTGCAACTTCAGGCAGATAAGACTAGTAAC
* *
63918837 TTCAATCTGCTCCATTG-TA-TTCAGGGAGATAAGACCT-GTAAC
1 TTCAATCTGCTCCATTGCAACTTCAGGCAGATAAGA-CTAGTAAC
63918879 TTCAA
1 TTCAA
63918884 CCTACTCTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 22 0.54
43 2 0.05
44 17 0.41
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (44 bp):
TTCAATCTGCTCCATTGCAACTTCAGGCAGATAAGACTAGTAAC
Found at i:63921815 original size:14 final size:14
Alignment explanation
Indices: 63921796--63921828 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
63921786 TTTTTTAATT
*
63921796 TTTGGGTTTGTAAA
1 TTTGGGCTTGTAAA
63921810 TTTGGGCTTGTAAA
1 TTTGGGCTTGTAAA
63921824 TTTGG
1 TTTGG
63921829 ACTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.48
Consensus pattern (14 bp):
TTTGGGCTTGTAAA
Found at i:63921955 original size:20 final size:21
Alignment explanation
Indices: 63921917--63921957 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
63921907 AACTTTTTAA
63921917 TAAAATATTAATAATATTATT
1 TAAAATATTAATAATATTATT
63921938 TAAAAT-TTAA-AATAATTATT
1 TAAAATATTAATAAT-ATTATT
63921958 AACATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATATTAATAATATTATT
Found at i:63932532 original size:18 final size:17
Alignment explanation
Indices: 63932466--63932531 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 17
63932456 GCTCTAGGTA
63932466 TATATT-ATAAAATTAT
1 TATATTGATAAAATTAT
63932482 TGA-ATTGATTAAAAGTT-T
1 T-ATATTGA-TAAAA-TTAT
63932500 TATATAATGATAAATATTAT
1 TATAT--TGATAAA-ATTAT
63932520 TATATTGATAAA
1 TATATTGATAAA
63932532 TTTAATAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
16 4 0.10
17 3 0.07
18 16 0.39
19 8 0.20
20 10 0.24
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (17 bp):
TATATTGATAAAATTAT
Found at i:63936814 original size:19 final size:19
Alignment explanation
Indices: 63936792--63936832 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
63936782 ATTTCCAGAA
*
63936792 TTTTTTCTATAATTAATAT
1 TTTTTTCTATAAGTAATAT
*
63936811 TTTTTTGTATAAGTAATAT
1 TTTTTTCTATAAGTAATAT
63936830 TTT
1 TTT
63936833 ATATCACTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTTTCTATAAGTAATAT
Found at i:63940242 original size:39 final size:39
Alignment explanation
Indices: 63940188--63940267 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
63940178 CCTTGAAAAG
63940188 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
1 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
63940227 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
1 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
63940266 TA
1 TA
63940268 AATTTCTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (39 bp):
TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
Found at i:63942251 original size:50 final size:50
Alignment explanation
Indices: 63942170--63942270 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
63942160 ACCTTATTCT
* * **
63942170 AATCAAAGTAAACTAGAGGAAGTGTAGTTCTATATTGATTCTACTTGTGC
1 AATCAAAGTAAACTAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
*
63942220 AATCAATGTCAAA-TAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
1 AATCAAAGT-AAACTAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
63942270 A
1 A
63942271 GCCTGATCCG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 42 0.93
51 3 0.07
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (50 bp):
AATCAAAGTAAACTAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
Found at i:63948925 original size:14 final size:14
Alignment explanation
Indices: 63948904--63948937 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
63948894 TGGTATGGGT
63948904 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
63948917 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
63948931 TTATAGG
1 TTATAGG
63948938 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:63951138 original size:15 final size:16
Alignment explanation
Indices: 63951118--63951147 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63951108 TGATTCTTTT
63951118 GAAAAAA-AATAAAAA
1 GAAAAAATAATAAAAA
63951133 GAAAAAATAATAAAA
1 GAAAAAATAATAAAA
63951148 TAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (16 bp):
GAAAAAATAATAAAAA
Found at i:63952356 original size:38 final size:38
Alignment explanation
Indices: 63952177--63952359 Score: 213
Period size: 38 Copynumber: 4.8 Consensus size: 38
63952167 TGTAATGTTA
* * ** *
63952177 ATTCGGGCTCTATGCCTAGTAGGCTTCATGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
*
63952215 ATTCGGGCTTTGTGCCTAGTAGGCTTTATGCCAGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
* * * *
63952253 ATTCAGGCTTTGTGCCTAGCAGGATTTGTGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
* * * *
63952291 ATTTGGGCTTTGTGCTTAGCAAGCTTTGTGCCAGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
* * *
63952329 ATTTGGGCTTTATGCCTAATAGGCTTTGTGC
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGC
63952360 TGGTGTAATT
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 125 1.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.37
Consensus pattern (38 bp):
ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
Found at i:63952646 original size:39 final size:39
Alignment explanation
Indices: 63952603--63952679 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
63952593 GAAAAGATTG
* *
63952603 ATGATTATGTATTATGACTTAGAAATCTCAGTATGTTAA
1 ATGATTATGTATTACGACTTAGAAATCCCAGTATGTTAA
* *
63952642 ATGATTATGTATTACGACTTATAAATCCCTGTATGTTA
1 ATGATTATGTATTACGACTTAGAAATCCCAGTATGTTA
63952680 TATATGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (39 bp):
ATGATTATGTATTACGACTTAGAAATCCCAGTATGTTAA
Found at i:63954930 original size:32 final size:32
Alignment explanation
Indices: 63954894--63954955 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
63954884 TTTCGATATC
*
63954894 TAACATCGAATCAAAATTTGATTTCACATTAA
1 TAACATCGAATCAAAATCTGATTTCACATTAA
63954926 TAACATCGAATCAAAATCTGATTTCACATT
1 TAACATCGAATCAAAATCTGATTTCACATT
63954956 CTTTCATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (32 bp):
TAACATCGAATCAAAATCTGATTTCACATTAA
Found at i:63958337 original size:53 final size:52
Alignment explanation
Indices: 63958257--63958437 Score: 190
Period size: 53 Copynumber: 3.7 Consensus size: 52
63958247 TTAGATTTTG
*
63958257 TTAC-AACAATTAATACAATTAATAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT-ATATAATTTGATAATT
* * *
63958309 TTACTAACAATTAATACAATTAACAATTAATAATTT-TACTAA---CAAAATA
1 TTACTAACAATTAATACAATTAACAATTAATAATTTATA-TAATTTGATAATT
* *
63958358 TTAGTAACAATTAAT--AATT---AA-TAAT--TTAATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTATATAATTTGATAATT
*
63958402 TTAGTAACAATTAATACAATTAACAATTAATAATTT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT
63958438 TACTAACAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
41 5 0.05
42 2 0.02
43 4 0.04
44 21 0.20
46 4 0.04
47 4 0.04
49 20 0.19
50 4 0.04
51 2 0.02
52 9 0.09
53 30 0.29
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (52 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTATATAATTTGATAATT
Found at i:63958371 original size:33 final size:34
Alignment explanation
Indices: 63958303--63958446 Score: 110
Period size: 35 Copynumber: 4.5 Consensus size: 34
63958293 ATATAATTTG
*
63958303 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
**
63958338 ATAATTTTACTAACAA-AATATTAGTAACAATTA
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
* ** * *
63958371 ATAA--TTAATAA-TTTAAT---A-T-A-ATTTG
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
* *
63958396 ATAATTTTAGTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
63958431 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
63958447 AATGTTAGAT
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
25 7 0.08
26 1 0.01
27 7 0.08
28 1 0.01
29 4 0.05
31 9 0.11
32 1 0.01
33 19 0.23
34 1 0.01
35 34 0.40
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (34 bp):
ATAATTTTACTAACAATAATACAAGTAACAATTA
Found at i:63958374 original size:93 final size:93
Alignment explanation
Indices: 63958271--63958454 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 93
63958261 AACAATTAAT
*
63958271 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
63958336 TAATAATTTTACTAACAAAATATTAGTA
66 TAATAATTTTACTAACAAAATATTAGTA
*
63958364 ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
*
63958429 TAATAATTTTACTAACAAAATGTTAG
66 TAATAATTTTACTAACAAAATATTAG
63958455 ATTTTACAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (93 bp):
ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAACAAAATATTAGTA
Found at i:63958521 original size:16 final size:16
Alignment explanation
Indices: 63958502--63958558 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
63958492 AATTTGATAC
63958502 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
63958518 AATTTTGATAACAATT
1 AATTTTAATAACAATT
63958534 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
63958550 AGTTTTAAT
1 AATTTTAAT
63958559 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:63958582 original size:23 final size:23
Alignment explanation
Indices: 63958532--63958595 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
63958522 TTGATAACAA
* *
63958532 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
63958554 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
63958577 TTAATTTTAATTAAAAATA
1 TTAATTTTAA-TAAAAATA
63958596 GGCCGGGCCG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.42
23 14 0.37
24 8 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:63960052 original size:4 final size:4
Alignment explanation
Indices: 63960043--63960079 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
63960033 GTAAAAAATG
*
63960043 ATAA ATAA ATAA ATAA ATAG ATAA ATAA TATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA
63960080 TATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:63960087 original size:70 final size:73
Alignment explanation
Indices: 63959978--63960124 Score: 210
Period size: 70 Copynumber: 2.1 Consensus size: 73
63959968 GTAAAAGAAT
* * *
63959978 AATAAATAAATAGATAAAACAAATATACATAATATTAAATTTAAGTATTTTAGAAG-TAAAAAAT
1 AATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAAAAT
* *
63960042 GATAAATA
66 AATAAACA
* *
63960050 AATAAATAAATAGAT-AAA-TAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAGAAT
1 AATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAAAAT
63960113 AATAAACA
66 AATAAACA
63960121 AATA
1 AATA
63960125 TAAATAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 32 0.48
71 20 0.30
72 15 0.22
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (73 bp):
AATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAAAAT
AATAAACA
Found at i:63960136 original size:52 final size:52
Alignment explanation
Indices: 63960069--63960176 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
63960059 ATAGATAAAT
*
63960069 AATATAAATAATATTAAATTTA-AGTATTTAAAAAGTTAAAGAATAATAAACA
1 AATATAAATAATATTAAATTTAGA-TATTTAAAAAGTAAAAGAATAATAAACA
* *
63960121 AATATAAATAATATTAAATTTAGATATTTAAAGAGTAAAAGAATAATAAATA
1 AATATAAATAATATTAAATTTAGATATTTAAAAAGTAAAAGAATAATAAACA
63960173 AATA
1 AATA
63960177 GATAAAACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 51 0.98
53 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (52 bp):
AATATAAATAATATTAAATTTAGATATTTAAAAAGTAAAAGAATAATAAACA
Found at i:63960138 original size:122 final size:116
Alignment explanation
Indices: 63959994--63960240 Score: 311
Period size: 116 Copynumber: 2.1 Consensus size: 116
63959984 TAAATAGATA
* *
63959994 AAACAAATATACATAATATTAAATTTA-AGTATTT-TAGAAGTAAAAAATGATAAATAAATAAAT
1 AAACAAATATAAATAATATTAAATTTAGA-TATTTAAAG-AGTAAAAAA--AT-AATAAATAAAT
* *
63960057 AAATAGATAA-ATAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAGAATAAT
61 AAATA-A-AACA-AATATAAA-AAAATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAT
* *
63960116 AAACAAATATAAATAATATTAAATTTAGATATTTAAAGAGTAAAAGAATAATAAATAAATAGATA
1 AAACAAATATAAATAATATTAAATTTAGATATTTAAAGAGTAAAAAAATAATAAATAAATAAATA
* * *
63960181 AAACAAATATAAAAAAATTAGATTTAAGTATTTGAAAAGTAAAAGAATGAT
66 AAACAAATATAAAAAAATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAT
63960232 AAACAAATA
1 AAACAAATA
63960241 AATAGATATA
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
116 42 0.37
117 10 0.09
118 2 0.02
119 15 0.13
120 2 0.02
122 39 0.35
123 3 0.03
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (116 bp):
AAACAAATATAAATAATATTAAATTTAGATATTTAAAGAGTAAAAAAATAATAAATAAATAAATA
AAACAAATATAAAAAAATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAT
Found at i:63960191 original size:187 final size:184
Alignment explanation
Indices: 63959964--63960309 Score: 543
Period size: 185 Copynumber: 1.9 Consensus size: 184
63959954 TCTAAATAAA
* * *
63959964 AAAGGTAAAAGAATAATAAATAAATAGATAAAACAAATATACATAATATTAAATTTAAGTATTTT
1 AAAGGTAAAAGAATAATAAATAAATAGATAAAACAAATATA-AAAAAATTAAATTTAAGTATTTG
* *
63960029 AGAAGTAAAA-AATGATAAATAAATAAATAAATAGATAA-ATAATATAAATAATATTAAATTTAA
65 AAAAGTAAAAGAATGATAAACAAATAAATAAAT--ATAACA-AATATAAATAATATTAAATTTAA
*
63960092 GTATTTAAAAAGTTAAAGAATAATAAACAAATATAAATAATATTAAATTTAGATATTT
127 GTATTTAAAAAGTAAAAGAATAATAAACAAATATAAATAATATTAAATTTAGATATTT
*
63960150 AAAGAGTAAAAGAATAATAAATAAATAGATAAAACAAATATAAAAAAATTAGATTTAAGTATTTG
1 AAAG-GTAAAAGAATAATAAATAAATAGATAAAACAAATATAAAAAAATTAAATTTAAGTATTTG
* *
63960215 AAAAGTAAAAGAATGATAAACAAATAAATAGATATAACAAATATAAATAATATTAAATTTAGGTA
65 AAAAGTAAAAGAATGATAAACAAATAAATAAATATAACAAATATAAATAATATTAAATTTAAGTA
*
63960280 TTTAAAAAGTAAAAGAATAATAAATAAATA
130 TTTAAAAAGTAAAAGAATAATAAACAAATA
63960310 AATAGATAAA
Statistics
Matches: 147, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
185 57 0.39
186 33 0.22
187 57 0.39
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (184 bp):
AAAGGTAAAAGAATAATAAATAAATAGATAAAACAAATATAAAAAAATTAAATTTAAGTATTTGA
AAAGTAAAAGAATGATAAACAAATAAATAAATATAACAAATATAAATAATATTAAATTTAAGTAT
TTAAAAAGTAAAAGAATAATAAACAAATATAAATAATATTAAATTTAGATATTT
Found at i:63960297 original size:69 final size:68
Alignment explanation
Indices: 63960116--63960330 Score: 312
Period size: 69 Copynumber: 3.2 Consensus size: 68
63960106 AAAGAATAAT
* *
63960116 AAACAAATATAAATAATATTAAATTTAGATATTTAAAGAGTAAAAG-A-AT-AATAAATAAATAG
1 AAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAATATAAATAAATAAATAG
63960178 ATA
66 ATA
* * * * *
63960181 AAACAAATATAAA-AAAATTAGATTTAAGTATTTGAAAAGTAAAAGAATGATAAACAAATAAATA
1 AAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAAT-ATAAATAAATAAATA
63960245 GATA
65 GATA
*
63960249 TAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATA
1 AAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAAT-ATAAATAAATAAATA
63960314 GATA
65 GATA
63960318 AAACAAATATAAA
1 AAACAAATATAAA
63960331 AGGATGAAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
64 26 0.20
65 14 0.11
67 2 0.02
68 27 0.21
69 61 0.47
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (68 bp):
AAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAATATAAATAAATAAATAG
ATA
Found at i:63961788 original size:51 final size:49
Alignment explanation
Indices: 63961710--63961898 Score: 131
Period size: 51 Copynumber: 3.9 Consensus size: 49
63961700 GATAATATTA
* * * *
63961710 GTAGCTTTAATCTACTCCGCTGTAACTTTTGGAAGTTAAGATTTATAACTC
1 GTAGCTTTAATCTGCTCCACTGCAACTTATGGAA-TTAAGATTT-TAACTC
* *
63961761 GTAGCTTTAATCTGTTCCACTGCAACTTCATGG-ATATAAGA--TT--CGC
1 GTAGCTTTAATCTGCTCCACTGCAACTT-ATGGAAT-TAAGATTTTAACTC
* * * * * *
63961807 -TATCTTCAATCTGCTCCATTGTAACTTCA-GGAAATAAGATTTGTAACTT
1 GTAGCTTTAATCTGCTCCACTGCAACTT-ATGGAATTAAGATTT-TAACTC
* * *
63961856 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
1 GTAGCTTTAATCTGCTCCACTGCAACTT-ATGGAATTAAGATT
63961899 CTCTATATTC
Statistics
Matches: 109, Mismatches: 19, Indels: 20
0.74 0.13 0.14
Matches are distributed among these distances:
44 7 0.06
45 25 0.23
46 3 0.03
47 1 0.01
48 1 0.01
49 2 0.02
50 25 0.23
51 42 0.39
52 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (49 bp):
GTAGCTTTAATCTGCTCCACTGCAACTTATGGAATTAAGATTTTAACTC
Found at i:63961833 original size:45 final size:45
Alignment explanation
Indices: 63961769--63962018 Score: 198
Period size: 45 Copynumber: 5.5 Consensus size: 45
63961759 TCGTAGCTTT
* * *
63961769 AATCTGTTCCACTGCAACTTCATGGATATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * *
63961814 AATCTGCTCCATTGTAACTTCA-GGAAATAAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTC
* * *
63961864 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCTCTATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * * * *
63961909 AATTTGCTCCACTGCAACTTTAGGGAGATAAAATTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * * *
63961953 AATATGTTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* *
63961998 AATCTACTCCACTGTAACTTC
1 AATCTGCTCCACTGCAACTTC
63962019 TAGGAGATAA
Statistics
Matches: 158, Mismatches: 39, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
44 47 0.30
45 73 0.46
47 1 0.01
48 1 0.01
50 24 0.15
51 12 0.08
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
Found at i:63961846 original size:95 final size:95
Alignment explanation
Indices: 63961718--63962033 Score: 358
Period size: 95 Copynumber: 3.4 Consensus size: 95
63961708 TAGTAGCTTT
* * ** * *
63961718 AATCTACTCCGCTGTAACTTTTGGAAGTTAAGATTTATAACTCGTAGCTTTAATCTGTTCCACTG
1 AATCTGCTCCACTGTAACTTCAGG-AGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
63961783 CAACTTCATGGATATAAGATTCGCTATCTTC
65 CAACTTCAGGGAAATAAGATTCACTATATTC
* * *
63961814 AATCTGCTCCATTGTAACTTCAGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
1 AATCTGCTCCACTGTAACTTCAGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGC
*
63961879 AACTTCAGGGAAATAAGATTCTCTATATTC
66 AACTTCAGGGAAATAAGATTCACTATATTC
* * * *
63961909 AATTTGCTCCACTGCAACTTTAGGGAGATAA-A---AT---TTGTAGCTTTAATATGTTCCACTG
1 AATCTGCTCCACTGTAACTTCA-GGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTG
* *
63961967 CAACTTCAGGGAGATAAGATTCACCATATTC
65 CAACTTCAGGGAAATAAGATTCACTATATTC
* *
63961998 AATCTACTCCACTGTAACTTCTAGGAGATAAAATTT
1 AATCTGCTCCACTGTAACTTC-AGGAGATAAGATTT
63962034 GTGGCTTTAA
Statistics
Matches: 187, Mismatches: 27, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
89 76 0.41
90 2 0.01
92 1 0.01
95 82 0.44
96 26 0.14
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (95 bp):
AATCTGCTCCACTGTAACTTCAGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGC
AACTTCAGGGAAATAAGATTCACTATATTC
Found at i:63961984 original size:89 final size:88
Alignment explanation
Indices: 63961761--63962063 Score: 354
Period size: 89 Copynumber: 3.3 Consensus size: 88
63961751 TTTATAACTC
* * * * *
63961761 GTAGCTTTAATCTGTTCCACTGCAACTTCATGGATATAAGATTCGCTATCTTCAATCTGCTCCAT
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
* * *
63961826 TGTAACTTCAGGAAATAAGATTTGTAACTT
66 TGTAACTTTAGGAGAT-A-A-----AATTT
* *
63961856 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCTCTATATTCAATTTGCTCCAC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
*
63961921 TGCAACTTTAGGGAGATAAAATTT
66 TGTAACTTTA-GGAGATAAAATTT
* * * *
63961945 GTAGCTTTAATATGTTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAATCTACTCCAC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
63962010 TGTAACTTCTAGGAGATAAAATTT
66 TGTAACTT-TAGGAGATAAAATTT
* ** *
63962034 GTGGCTTTAATCTACTCCACTGTAACTTCA
1 GTAGCTTTAATCTGTTCCACTGCAACTTCA
63962064 CGGCGTCATT
Statistics
Matches: 184, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
89 108 0.59
90 2 0.01
94 1 0.01
95 68 0.37
96 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (88 bp):
GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
TGTAACTTTAGGAGATAAAATTT
Found at i:63962056 original size:44 final size:45
Alignment explanation
Indices: 63961854--63962062 Score: 169
Period size: 45 Copynumber: 4.7 Consensus size: 45
63961844 GATTTGTAAC
** * *
63961854 TTGTAGCTTTAATCTGTTCCACTGCAACTTC-AGGGAAATAAGAT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* ** * * *
63961898 TCTCTATATTCAATTTGCTCCACTGCAACTT-TAGGGAGATAAAAT
1 T-TGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* ** *
63961943 TTGTAGCTTTAATATGTTCCACTGCAACTTC-AGGGAGATAAGA-
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* * *
63961986 TT-CACCATATTCAATCTACTCCACTGTAACTTCTA-GGAGATAAAAT
1 TTGTAGC-T-TT-AATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* *
63962032 TTGTGGCTTTAATCTACTCCACTGTAACTTC
1 TTGTAGCTTTAATCTACTCCACTGCAACTTC
63962063 ACGGCGTCAT
Statistics
Matches: 131, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
42 2 0.02
43 3 0.02
44 58 0.44
45 63 0.48
46 4 0.03
47 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
TTGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
Found at i:63962682 original size:24 final size:24
Alignment explanation
Indices: 63962638--63962696 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
63962628 ATTTAATGTT
*
63962638 ATTTACTTGTTTTATTTATTTATTC
1 ATTTA-TTGTTTTATTTATTTAGTC
63962663 ATTTATT-TTTTATGTTATTTAGTC
1 ATTTATTGTTTTAT-TTATTTAGTC
*
63962687 GTTTATTGTT
1 ATTTATTGTT
63962697 CATATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 6 0.20
24 17 0.57
25 7 0.23
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (24 bp):
ATTTATTGTTTTATTTATTTAGTC
Found at i:63962704 original size:24 final size:24
Alignment explanation
Indices: 63962653--63962706 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
63962643 CTTGTTTTAT
* * * *
63962653 TTATTTATTCATTTATTTTTTATG
1 TTATTTAGTCATTTATTGTTCATA
*
63962677 TTATTTAGTCGTTTATTGTTCATA
1 TTATTTAGTCATTTATTGTTCATA
63962701 TTATTT
1 TTATTT
63962707 GTTTATTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.06, G:0.07, T:0.67
Consensus pattern (24 bp):
TTATTTAGTCATTTATTGTTCATA
Found at i:63962712 original size:20 final size:19
Alignment explanation
Indices: 63962660--63962713 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
63962650 TATTTATTTA
63962660 TTCATTTATTT-TTTA-TG
1 TTCATTTATTTGTTTATTG
* *
63962677 TT-ATTTAGTCGTTTATTG
1 TTCATTTATTTGTTTATTG
63962695 TTCATATTATTTGTTTATT
1 TTCAT-TTATTTGTTTATT
63962714 ACTTCTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 4 0.14
19 2 0.07
20 11 0.38
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.67
Consensus pattern (19 bp):
TTCATTTATTTGTTTATTG
Found at i:63962819 original size:14 final size:16
Alignment explanation
Indices: 63962788--63962825 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
63962778 CTGTTACTTA
63962788 TTACTTTTTTATCTAT
1 TTACTTTTTTATCTAT
*
63962804 TTA-TTTTTTGTC-AT
1 TTACTTTTTTATCTAT
63962818 TTACTTTT
1 TTACTTTT
63962826 AAAAATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 3 0.15
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (16 bp):
TTACTTTTTTATCTAT
Found at i:63962893 original size:15 final size:15
Alignment explanation
Indices: 63962875--63962913 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
63962865 TCGTTATTGG
*
63962875 TATTATTATTATCAT
1 TATTGTTATTATCAT
* *
63962890 TATTGTCATTTTCAT
1 TATTGTTATTATCAT
63962905 TATTGTTAT
1 TATTGTTAT
63962914 CATCCTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (15 bp):
TATTGTTATTATCAT
Found at i:63962906 original size:21 final size:20
Alignment explanation
Indices: 63962857--63962907 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
63962847 TGTTATTATT
*
63962857 TTTTATTATCGTTATTGGTA
1 TTTTATTATCATTATTGGTA
63962877 TTATTATTATCATTATT-GTCA
1 TT-TTATTATCATTATTGGT-A
63962898 TTTTCATTAT
1 TTTT-ATTAT
63962908 TGTTATCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (20 bp):
TTTTATTATCATTATTGGTA
Found at i:63966719 original size:18 final size:19
Alignment explanation
Indices: 63966679--63966720 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
63966669 GAGAATAGAT
63966679 TTTTAATTAATTAAATAAA
1 TTTTAATTAATTAAATAAA
63966698 -TTTAATTAATTAAA-AAA
1 TTTTAATTAATTAAATAAA
63966715 TTTTAA
1 TTTTAA
63966721 ACTCTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTAATTAATTAAATAAA
Found at i:63969020 original size:7 final size:7
Alignment explanation
Indices: 63969008--63969034 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
63968998 TTCCTGTACT
63969008 TTTCAAA
1 TTTCAAA
63969015 TTTCAAA
1 TTTCAAA
63969022 TTTCAAA
1 TTTCAAA
63969029 TTTCAA
1 TTTCAA
63969035 GTCCAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
TTTCAAA
Found at i:63971008 original size:113 final size:114
Alignment explanation
Indices: 63970566--63970992 Score: 644
Period size: 114 Copynumber: 3.8 Consensus size: 114
63970556 AAAATAAGCA
* * * **
63970566 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGTCGTTTCCCAAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
63970630 TCGGGGATTTAGCGGAGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
63970679 TTAGCGGCGTTTTTGGAAAAACGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
63970744 TCGGGGATTTAGCGGCGTTTATAGGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
63970793 TTAGCGGCATTTTCGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACGACGCCGTTTTCT-AGGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA-GCT
* *
63970857 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCAGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
63970907 TTAGCGGCGTTTTTGGGAAAGCGCCG-AAAAAAACCTAAGCCCAATGACGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
63970971 TCGGGGATTTAGCGGTGTTTTT
66 TCGGGGATTTAGCGGCGTTTTT
63970993 GGAAAAGCAC
Statistics
Matches: 285, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
113 78 0.27
114 207 0.73
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:63984944 original size:31 final size:28
Alignment explanation
Indices: 63984887--63984953 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 28
63984877 ATAGTTGGAC
*
63984887 CTAAAATTTTAAAATATGAAAAATAGAGCGA
1 CTAAATTTTTAAAATA-GAAAAATAGA--GA
63984918 CTAAATTTTTAGAAATA-AAAAGATAGAGA
1 CTAAATTTTTA-AAATAGAAAA-ATAGAGA
63984947 CTAAATT
1 CTAAATT
63984954 AGAAATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 9 0.27
30 4 0.12
31 15 0.45
32 5 0.15
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (28 bp):
CTAAATTTTTAAAATAGAAAAATAGAGA
Found at i:63985145 original size:16 final size:16
Alignment explanation
Indices: 63985120--63985165 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
63985110 TAGTTAATCA
*
63985120 AATACATATTTTATCT
1 AATACTTATTTTATCT
* * *
63985136 AATATTTATTATATTT
1 AATACTTATTTTATCT
63985152 AATACTTATTTTAT
1 AATACTTATTTTAT
63985166 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (16 bp):
AATACTTATTTTATCT
Found at i:63985683 original size:77 final size:77
Alignment explanation
Indices: 63985602--63985788 Score: 189
Period size: 77 Copynumber: 2.4 Consensus size: 77
63985592 CAGGCACTAA
* * *
63985602 ATAACACCTTAAACAAAACATGATACATA-AAAGTAACATAAACACATACCATAGAGTATTGAGA
1 ATAACACCTTAAACAAAACATGACACATACAAA-TAACACAAACACATACCATAGAGTATTGAAA
* *
63985666 T-GCTAGGATCTAT
65 TATC-AAGATCTAT
* * * * * * * * *
63985679 ATAACAACTTAAATAGAATATGACACATACCAATAGCACAAAGATATACCATAGATTATTGAAAT
1 ATAACACCTTAAACAAAACATGACACATACAAATAACACAAACACATACCATAGAGTATTGAAAT
63985744 ATCAAGATCTAT
66 ATCAAGATCTAT
* * *
63985756 AAAACACCTTAAACACAACATGACACAAACAAA
1 ATAACACCTTAAACAAAACATGACACATACAAA
63985789 AGTCACTTAA
Statistics
Matches: 87, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
77 84 0.97
78 3 0.03
ACGTcount: A:0.51, C:0.18, G:0.09, T:0.22
Consensus pattern (77 bp):
ATAACACCTTAAACAAAACATGACACATACAAATAACACAAACACATACCATAGAGTATTGAAAT
ATCAAGATCTAT
Found at i:63987040 original size:21 final size:23
Alignment explanation
Indices: 63987016--63987058 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
63987006 TATGTATATT
*
63987016 AATT-AATTTAT-ATCATATAAA
1 AATTAAATTTATAATAATATAAA
63987037 AATTAAATTTATAATAATATAA
1 AATTAAATTTATAATAATATAA
63987059 TATTATGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 7 0.37
23 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAAATTTATAATAATATAAA
Found at i:63990850 original size:13 final size:13
Alignment explanation
Indices: 63990834--63990858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63990824 TATAAAGTTA
63990834 CTTAATAAATTTC
1 CTTAATAAATTTC
63990847 CTTAATAAATTT
1 CTTAATAAATTT
63990859 ATCATTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
CTTAATAAATTTC
Found at i:63993200 original size:16 final size:16
Alignment explanation
Indices: 63993179--63993212 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63993169 TAAATTTTAA
* *
63993179 ATATATTTGTCTTATT
1 ATATATTGGTATTATT
63993195 ATATATTGGTATTATT
1 ATATATTGGTATTATT
63993211 AT
1 AT
63993213 TTGCTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (16 bp):
ATATATTGGTATTATT
Found at i:63997382 original size:16 final size:16
Alignment explanation
Indices: 63997361--63997394 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63997351 TAAATTTTAA
* *
63997361 ATATATTTGTCTTATT
1 ATATATTGGTATTATT
63997377 ATATATTGGTATTATT
1 ATATATTGGTATTATT
63997393 AT
1 AT
63997395 TTGCTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (16 bp):
ATATATTGGTATTATT
Found at i:64001481 original size:3 final size:3
Alignment explanation
Indices: 64001475--64001512 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
64001465 TTATCATTAT
64001475 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
64001513 TTATCATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:64001583 original size:16 final size:16
Alignment explanation
Indices: 64001562--64001595 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64001552 TAAATTTTAA
* *
64001562 ATATATTTGTCTTATT
1 ATATATTGGTATTATT
64001578 ATATATTGGTATTATT
1 ATATATTGGTATTATT
64001594 AT
1 AT
64001596 TTGCTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (16 bp):
ATATATTGGTATTATT
Found at i:64004412 original size:19 final size:19
Alignment explanation
Indices: 64004390--64004432 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
64004380 ATATTATATT
64004390 TCAATCAATACAAATGA-TA
1 TCAATCAATAC-AATGAGTA
**
64004409 TCAATGGATACAATGAGTA
1 TCAATCAATACAATGAGTA
64004428 TCAAT
1 TCAAT
64004433 TCAGACCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.28
Consensus pattern (19 bp):
TCAATCAATACAATGAGTA
Found at i:64008581 original size:19 final size:19
Alignment explanation
Indices: 64008545--64008582 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
64008535 TACAAGCAAA
*
64008545 ATCAATCCATACGGTGAAT
1 ATCAATCCATACCGTGAAT
*
64008564 ATCAATCCATACCTTGAAT
1 ATCAATCCATACCGTGAAT
64008583 GTCATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (19 bp):
ATCAATCCATACCGTGAAT
Found at i:64012764 original size:62 final size:62
Alignment explanation
Indices: 64012667--64012791 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
64012657 TTGATATAAC
64012667 AACCTTCAAGTATTTGTGGACTGAAATTAGATAGGCAACGTAAGGTAGCAATGATTCCTCGA
1 AACCTTCAAGTATTTGTGGACTGAAATTAGATAGGCAACGTAAGGTAGCAATGATTCCTCGA
64012729 AACCTTCAAGTATTTGTGGACTGAAATTAGATAGGCAACGTAAGGTAGCAATGATTCCTCGA
1 AACCTTCAAGTATTTGTGGACTGAAATTAGATAGGCAACGTAAGGTAGCAATGATTCCTCGA
64012791 A
1 A
64012792 TTTGGATGGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (62 bp):
AACCTTCAAGTATTTGTGGACTGAAATTAGATAGGCAACGTAAGGTAGCAATGATTCCTCGA
Found at i:64014567 original size:17 final size:17
Alignment explanation
Indices: 64014553--64014589 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
64014543 GAAATTAATT
64014553 AAATCCGGAACTTAAGC
1 AAATCCGGAACTTAAGC
*
64014570 AAATCTGGAACTTAAGC
1 AAATCCGGAACTTAAGC
64014587 AAA
1 AAA
64014590 GTATAAGGAT
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:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (17 bp):
AAATCCGGAACTTAAGC
Found at i:64024865 original size:20 final size:21
Alignment explanation
Indices: 64024827--64024867 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
64024817 AACTTTTTAA
64024827 TAAAATATTAATAATATTATT
1 TAAAATATTAATAATATTATT
64024848 TAAAAT-TTAA-AATAATTATT
1 TAAAATATTAATAAT-ATTATT
64024868 AATATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATATTAATAATATTATT
Found at i:64024933 original size:25 final size:24
Alignment explanation
Indices: 64024881--64024935 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
64024871 ATTAATTTTT
64024881 ATTATTAAAATAAAATTATAAATAA
1 ATTATTAAAATAAAATTAT-AATAA
*
64024906 ATTATTAAAATAATAAATTAT-ATTA
1 ATTATTAAAAT-A-AAATTATAATAA
64024931 ATTAT
1 ATTAT
64024936 AGGAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 19 0.70
26 1 0.04
27 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTATTAAAATAAAATTATAATAA
Found at i:64026400 original size:22 final size:21
Alignment explanation
Indices: 64026375--64026415 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
64026365 ACCCCACCCC
*
64026375 AATACATATGCATAATCAAACT
1 AATACATATCCAT-ATCAAACT
*
64026397 AATATATATCCATATCAAA
1 AATACATATCCATATCAAA
64026416 TGAGATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (21 bp):
AATACATATCCATATCAAACT
Found at i:64027270 original size:13 final size:13
Alignment explanation
Indices: 64027226--64027273 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
64027216 AAATAAAACA
64027226 AAAAGAAGAGAAGG
1 AAAAGAA-AGAAGG
* * *
64027240 ATAATAAAAAAGG
1 AAAAGAAAGAAGG
64027253 CAAAAGAAAGAAGG
1 -AAAAGAAAGAAGG
64027267 AAAAGAA
1 AAAAGAA
64027274 GAAAAAGAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (13 bp):
AAAAGAAAGAAGG
Found at i:64027517 original size:16 final size:16
Alignment explanation
Indices: 64027484--64027517 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64027474 ACAAGGTGTT
* *
64027484 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
64027500 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
64027516 AA
1 AA
64027518 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:64030345 original size:21 final size:21
Alignment explanation
Indices: 64030319--64030359 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64030309 AGACGAGCAA
* *
64030319 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
64030340 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
64030360 TTGAGTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:64032298 original size:16 final size:16
Alignment explanation
Indices: 64032265--64032298 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64032255 GGAGATTGTT
* *
64032265 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
64032281 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
64032297 AA
1 AA
64032299 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:64038279 original size:41 final size:39
Alignment explanation
Indices: 64038229--64038316 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 39
64038219 AGTGGCATTT
*
64038229 TTAGCGGCATTTAGATAAAAAA-CGCCGCTAAAAATCGAGCA
1 TTAGCGGCATTT--ATAAAAAAGCGCCGCTAAAAAT-AAGCA
* *
64038270 TTAGTGGCATTTTTAAAAAAGCGCCGCTAAAAATAAGCA
1 TTAGCGGCATTTATAAAAAAGCGCCGCTAAAAATAAGCA
64038309 TTAGCGGC
1 TTAGCGGC
64038317 GTTTTTTAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 18 0.43
40 13 0.31
41 11 0.26
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (39 bp):
TTAGCGGCATTTATAAAAAAGCGCCGCTAAAAATAAGCA
Found at i:64038309 original size:39 final size:41
Alignment explanation
Indices: 64038244--64038342 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 41
64038234 GGCATTTAGA
* *
64038244 TAAAAAA-CGCCGCTAAAAATCGAGCATTAGTGGC-ATTTT
1 TAAAAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
*
64038283 TAAAAAAGCGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTT
1 TAAAAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
* * *
64038323 TAGAAAAGAGCCGCAAAAAA
1 TAAAAAAGCGCCGCTAAAAA
64038343 CCTAAGGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 18 0.35
40 34 0.65
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (41 bp):
TAAAAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
Found at i:64038791 original size:14 final size:14
Alignment explanation
Indices: 64038781--64038817 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
64038771 GGGTTTAATA
*
64038781 TATATGGTTTAGGG
1 TATATGGTTTAGTG
64038795 TATATGGTTTAGTG
1 TATATGGTTTAGTG
64038809 TATATGGTT
1 TATATGGTT
64038818 AATTTAGGAT
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:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGTG
Found at i:64038894 original size:14 final size:15
Alignment explanation
Indices: 64038866--64038898 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
64038856 AAAGTTTATA
64038866 GATTATGGAATTAGG
1 GATTATGGAATTAGG
64038881 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
64038895 GATT
1 GATT
64038899 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:64039101 original size:7 final size:7
Alignment explanation
Indices: 64039033--64039087 Score: 67
Period size: 7 Copynumber: 8.0 Consensus size: 7
64039023 TAATGTTTAT
*
64039033 GGGTTAT
1 GGGTTAG
64039040 GGGTTAG
1 GGGTTAG
*
64039047 GGGTTAA
1 GGGTTAG
64039054 GGGTT-G
1 GGGTTAG
64039060 GGGTTAG
1 GGGTTAG
**
64039067 TAGTTAG
1 GGGTTAG
64039074 GGGTTAG
1 GGGTTAG
64039081 GGGTTAG
1 GGGTTAG
64039088 TGATTTAGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 5 0.12
7 35 0.88
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.33
Consensus pattern (7 bp):
GGGTTAG
Found at i:64039893 original size:147 final size:141
Alignment explanation
Indices: 64039729--64040010 Score: 361
Period size: 143 Copynumber: 2.0 Consensus size: 141
64039719 TTTAGCATAG
* * *
64039729 CAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTTTCAT-AAAAACGCCGC
1 CAAAACAGTATCATTTTATTCCAAATGAAATAA-ATTTTGCAGCG---TT-ATGAAAAACGCCGC
* * *
64039793 AAAAGGTAAGCAATAGCGGCGTTTTTCT-AAAAAACGCCACAAAAATTAATTTTACTTTAAAAAA
61 AAAAGGTAAGCAATAACGGCGTTTTTATAAAAAAACGCCACAAAAA--AA-TTTACTCTAAAAAA
*
64039857 ATAGCTCCATTTTTTATAA
123 ATAGCCCCATTTTTTATAA
* * * *
64039876 CAAAACAGTATCATTTTATTTCAAATTAAATAAATTTTGCGGCGTTATGAAAAACGCCGCAAAAT
1 CAAAACAGTATCATTTTATTCCAAATGAAATAAATTTTGCAGCGTTATGAAAAACGCCGCAAAAG
* *
64039941 GTAAGTAATAACGGCGTTTTTATAAAAAAACGCCACAAAAAAATTTACTCTAAAACAATAGCCCC
66 GTAAGCAATAACGGCGTTTTTATAAAAAAACGCCACAAAAAAATTTACTCTAAAAAAATAGCCCC
64040006 ATTTT
131 ATTTT
64040011 ATACTGAAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
141 24 0.20
142 4 0.03
143 37 0.31
144 17 0.14
146 9 0.08
147 29 0.24
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (141 bp):
CAAAACAGTATCATTTTATTCCAAATGAAATAAATTTTGCAGCGTTATGAAAAACGCCGCAAAAG
GTAAGCAATAACGGCGTTTTTATAAAAAAACGCCACAAAAAAATTTACTCTAAAAAAATAGCCCC
ATTTTTTATAA
Found at i:64042896 original size:13 final size:13
Alignment explanation
Indices: 64042878--64042920 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
64042868 TTTTATTTTG
*
64042878 ATTTAAAATTAGA
1 ATTTAAAATTAAA
*
64042891 ATTTAAAAATAAA
1 ATTTAAAATTAAA
* *
64042904 ATTCAAAATTACA
1 ATTTAAAATTAAA
64042917 ATTT
1 ATTT
64042921 TGCATTGAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
ATTTAAAATTAAA
Found at i:64044562 original size:43 final size:43
Alignment explanation
Indices: 64044439--64044692 Score: 249
Period size: 43 Copynumber: 5.9 Consensus size: 43
64044429 TTTTTGGCAG
* * * ** **
64044439 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTAATGGGAA
1 AAGCACCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTAAGAA
**** * * *
64044482 AAGTGTTGCTAAAGGTCATGATCTTTTAGCAGCGTTTGTAATAA
1 AAGCACCGCTAAAGGTCATGA-CCTTTAGCGGCGTTTGTAAGAA
* * *
64044526 AAGCATCGTTAAAGGTCCTGACCTTTAGCGGCGTTTGTAAGAA
1 AAGCACCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTAAGAA
* *
64044569 AAGCGCCGCTAAAGGTCTTGACCTTTAGCGGCGTTTGTAAGAA
1 AAGCACCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTAAGAA
* * **
64044612 AAGCACCGCTAAAGGTCCT-AGCCTTTAACGGCGTTTGTGCGAA
1 AAGCACCGCTAAAGGTCATGA-CCTTTAGCGGCGTTTGTAAGAA
* * *
64044655 AAGCGCCGCTAAAAGTCATGACCTTTAGCTGCGTTTGT
1 AAGCACCGCTAAAGGTCATGACCTTTAGCGGCGTTTGT
64044693 TTCTAAAAAC
Statistics
Matches: 174, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 142 0.82
44 31 0.18
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
AAGCACCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTAAGAA
Found at i:64044629 original size:86 final size:86
Alignment explanation
Indices: 64044439--64044692 Score: 294
Period size: 86 Copynumber: 2.9 Consensus size: 86
64044429 TTTTTGGCAG
* * * * ** * * **
64044439 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTAATGGGAAAAGTGTTGCTAAAGGTCATGAT
1 AAGCACCGCTAAAGGTCCTGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGA-
* *
64044504 CTTTTAGCAGCGTTTGTAATAA
65 CCTTTAGCAGCGTTTGTAAGAA
* * * *
64044526 AAGCATCGTTAAAGGTCCTGACCTTTAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGAC
1 AAGCACCGCTAAAGGTCCTGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGAC
*
64044591 CTTTAGCGGCGTTTGTAAGAA
66 CTTTAGCAGCGTTTGTAAGAA
* * *
64044612 AAGCACCGCTAAAGGTCCT-AGCCTTTAACGGCGTTTGTGCGAAAAGCGCCGCTAAAAGTCATGA
1 AAGCACCGCTAAAGGTCCTGA-CCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGA
*
64044676 CCTTTAGCTGCGTTTGT
65 CCTTTAGCAGCGTTTGT
64044693 TTCTAAAAAC
Statistics
Matches: 141, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
85 1 0.01
86 90 0.64
87 50 0.35
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (86 bp):
AAGCACCGCTAAAGGTCCTGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGAC
CTTTAGCAGCGTTTGTAAGAA
Found at i:64045992 original size:13 final size:12
Alignment explanation
Indices: 64045970--64045999 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
64045960 ATGTTAAGTT
64045970 ATTTGTGTGAAA
1 ATTTGTGTGAAA
64045982 ATTTCGTGTGAAA
1 ATTT-GTGTGAAA
64045995 ATTTG
1 ATTTG
64046000 ATCGTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (12 bp):
ATTTGTGTGAAA
Found at i:64047344 original size:37 final size:37
Alignment explanation
Indices: 64047303--64047422 Score: 100
Period size: 37 Copynumber: 3.2 Consensus size: 37
64047293 GAATACAAAT
*
64047303 ATGTATGCATATAATCAAGTTATTGAGTTGGGAATTA
1 ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
* * * ** * *
64047340 ATGTATGAATTTTAT-AATTGTAGGGAGATT-CGAACATA
1 ATGTATGCATTTAATCAAGT-TATTGAG-TTGGGAA-TTA
*
64047378 TATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
1 -ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
*
64047416 AAGTATG
1 ATGTATG
64047423 TTTCTTATAT
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
36 3 0.05
37 26 0.43
38 8 0.13
39 20 0.33
40 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (37 bp):
ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
Found at i:64047448 original size:76 final size:76
Alignment explanation
Indices: 64047286--64047449 Score: 206
Period size: 76 Copynumber: 2.1 Consensus size: 76
64047276 TTAAAGGTAT
* *
64047286 GAGGTTCGAATACAAATATGTATGCATATAATCAAGTTATTGAGTTGGGAATTAATGTATGAATT
1 GAGGTTCG-A-ACAAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATT
* *
64047351 TTATAATTGTAGG
64 TTATAATTATAGA
* * * *
64047364 GAGATTCGAACATATATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTAAAGTATG-TTTCT
1 GAGGTTCGAACAAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATT-T
64047428 TAT-ATTCATAGA
65 TATAATT-ATAGA
64047440 GAGGTTCGAA
1 GAGGTTCGAA
64047450 TATAGAGATT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 5 0.07
76 62 0.83
77 1 0.01
78 7 0.09
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (76 bp):
GAGGTTCGAACAAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTTT
ATAATTATAGA
Found at i:64047689 original size:41 final size:41
Alignment explanation
Indices: 64047644--64047738 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
64047634 GGCTTTGTGC
*
64047644 CTAGCAGGCTTAACACCGGTGAAATATTTCGGACTATACGT
1 CTAGCAGGCTTAACACCGGTGAAAAATTTCGGACTATACGT
* * *
64047685 CTAGCAAGCTTAACGCCGGTGAAAAATTTCGGACTATATGT
1 CTAGCAGGCTTAACACCGGTGAAAAATTTCGGACTATACGT
64047726 CTAGCAGGCTTAA
1 CTAGCAGGCTTAA
64047739 TGCCAGTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAACACCGGTGAAAAATTTCGGACTATACGT
Found at i:64048533 original size:71 final size:71
Alignment explanation
Indices: 64048452--64048594 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
64048442 ATAAGAAATA
64048452 TGTAAGCTAAATAAATAATGTGTGTATGGTTTATTCGAACTAGGTTTGAGCTTAATAATTATATA
1 TGTAAGCTAAATAAATAATGTGTGTATGGTTTATTCGAACTAGGTTTGAGCTTAATAATTATATA
*
64048517 TTATGT
66 TCATGT
64048523 TGTAAGCTAAATAAATAATGTGTGTATGGTTTATTCGAACTAGGTTTGAGCTTAATAATTATATA
1 TGTAAGCTAAATAAATAATGTGTGTATGGTTTATTCGAACTAGGTTTGAGCTTAATAATTATATA
64048588 TCATGT
66 TCATGT
64048594 T
1 T
64048595 AATAGGTGGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (71 bp):
TGTAAGCTAAATAAATAATGTGTGTATGGTTTATTCGAACTAGGTTTGAGCTTAATAATTATATA
TCATGT
Found at i:64049578 original size:17 final size:17
Alignment explanation
Indices: 64049558--64049597 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
64049548 TTAATTGTTG
64049558 AATTAATTTAATTCGAA
1 AATTAATTTAATTCGAA
*
64049575 AATTAATTTAATTCGAT
1 AATTAATTTAATTCGAA
64049592 AATTAA
1 AATTAA
64049598 ATATTAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (17 bp):
AATTAATTTAATTCGAA
Found at i:64055018 original size:43 final size:43
Alignment explanation
Indices: 64054919--64055185 Score: 326
Period size: 43 Copynumber: 6.2 Consensus size: 43
64054909 CGCTATTGTC
*
64054919 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTCCAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
64054961 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* *
64055004 AACGCCGCTATAGATTAGGATCTTTAGCGGCGCTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* * * *
64055047 AATGCCGCTATAGATCAGGACCTTTAGCGACGCATCTTT-CACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTACAAA
* * * * *
64055090 AACGCCGCTATAGCTCAAGACCTTTAGCGGCACTTTTTTCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* * * * *
64055133 AACGCCGCTATAGCTTAAGACATTTAGCGACGCTTTGATTAC--A
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTT--TTACAAA
64055176 AACGCCGCTA
1 AACGCCGCTA
64055186 AAAGTACCAT
Statistics
Matches: 200, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
42 37 0.19
43 156 0.78
44 4 0.02
45 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
Found at i:64055159 original size:129 final size:129
Alignment explanation
Indices: 64054922--64055177 Score: 365
Period size: 129 Copynumber: 2.0 Consensus size: 129
64054912 TATTGTCAAC
* *
64054922 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCAAAAACGCCGCTATAGATCAGGACCTTTA
1 GCCGCTATAGATCAGGACCTTTAGCGACGCTTTTCCAAAAACGCCGCTATAGATCAAGACCTTTA
* * *
64054987 GCGGCGCTTTTTACAAAAACGCCGCTATAGATTAGGATCTTTAGCGGCGCTTT-TTACAAAAAT
66 GCGGCACTTTTTACAAAAACGCCGCTATAGATTAAGATCTTTAGCGACGCTTTATTACAAAAAT
* *
64055050 GCCGCTATAGATCAGGACCTTTAGCGACGCATCTTT-CACAAACGCCGCTATAGCTCAAGACCTT
1 GCCGCTATAGATCAGGACCTTTAGCGACGC-T-TTTCCAAAAACGCCGCTATAGATCAAGACCTT
* * *
64055114 TAGCGGCACTTTTTTCACAAACGCCGCTATAGCTTAAGA-CATTTAGCGACGCTTTGATTACAAA
64 TAGCGGCACTTTTTACAAAAACGCCGCTATAGATTAAGATC-TTTAGCGACGCTTT-ATTACAAA
64055178 CGCCGCTAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
128 30 0.27
129 73 0.65
130 3 0.03
131 7 0.06
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (129 bp):
GCCGCTATAGATCAGGACCTTTAGCGACGCTTTTCCAAAAACGCCGCTATAGATCAAGACCTTTA
GCGGCACTTTTTACAAAAACGCCGCTATAGATTAAGATCTTTAGCGACGCTTTATTACAAAAAT
Found at i:64055373 original size:14 final size:14
Alignment explanation
Indices: 64055350--64055379 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64055340 AAATCATGTT
64055350 AAATTACAAGTTCA
1 AAATTACAAGTTCA
*
64055364 AAATTTCAAGTTCA
1 AAATTACAAGTTCA
64055378 AA
1 AA
64055380 TAGTGCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (14 bp):
AAATTACAAGTTCA
Found at i:64059514 original size:20 final size:21
Alignment explanation
Indices: 64059479--64059531 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
64059469 CAACCCTTAA
* * *
64059479 AACCCTAAATCCCTAATTCTT
1 AACCCTAAACCCCTAACTCCT
64059500 AACCCT-AACCCCTAACTCCT
1 AACCCTAAACCCCTAACTCCT
64059520 AACCCCTAAACC
1 AA-CCCTAAACC
64059532 TTAAATCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.48
21 10 0.37
22 4 0.15
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTAAACCCCTAACTCCT
Found at i:64059522 original size:14 final size:13
Alignment explanation
Indices: 64059499--64059528 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
64059489 CCCTAATTCT
64059499 TAACCCTAACCCC
1 TAACCCTAACCCC
64059512 TAACTCCTAACCCC
1 TAAC-CCTAACCCC
64059526 TAA
1 TAA
64059529 ACCTTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (13 bp):
TAACCCTAACCCC
Found at i:64059566 original size:7 final size:7
Alignment explanation
Indices: 64059552--64059598 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
64059542 ACACTTAAAT
64059552 CATAATC
1 CATAATC
*
64059559 CCTAATC
1 CATAATC
64059566 CATAATC
1 CATAATC
64059573 CATAATC
1 CATAATC
64059580 CATAATC
1 CATAATC
*
64059587 CCTAAATC
1 CAT-AATC
64059595 CATA
1 CATA
64059599 TATAATCCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (7 bp):
CATAATC
Found at i:64059569 original size:14 final size:14
Alignment explanation
Indices: 64059552--64059598 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
64059542 ACACTTAAAT
64059552 CATAATCCCTAATC
1 CATAATCCCTAATC
*
64059566 CATAATCCATAATC
1 CATAATCCCTAATC
64059580 CATAATCCCTAAATC
1 CATAATCCCT-AATC
64059595 CATA
1 CATA
64059599 TATAATCCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 22 0.73
15 8 0.27
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (14 bp):
CATAATCCCTAATC
Found at i:64059798 original size:15 final size:16
Alignment explanation
Indices: 64059769--64059833 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 16
64059759 ATTCCCTAAA
*
64059769 CCCTAAATCA-CAAAC
1 CCCTAAACCATCAAAC
*
64059784 CCCTAAACC-TTAAAC
1 CCCTAAACCATCAAAC
64059799 CCC--AACCATCAAAC
1 CCCTAAACCATCAAAC
64059813 CCC--AACCATCAAAC
1 CCCTAAACCATCAAAC
64059827 CCCTAAA
1 CCCTAAA
64059834 ACCTAAATCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
13 4 0.09
14 22 0.51
15 15 0.35
16 2 0.05
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.12
Consensus pattern (16 bp):
CCCTAAACCATCAAAC
Found at i:64059857 original size:43 final size:44
Alignment explanation
Indices: 64059779--64059886 Score: 107
Period size: 43 Copynumber: 2.5 Consensus size: 44
64059769 CCCTAAATCA
64059779 CAAACCCCT-AAACCTTAAA-CCCCAACCATCAAACCCC-AACCAT
1 CAAACCCCTAAAACC-TAAATCCCCAACCATCAAACCCCTAA-CAT
* * *
64059822 CAAACCCCTAAAACCTAAATCCCTAACTAT-TAACCCCTAACAT
1 CAAACCCCTAAAACCTAAATCCCCAACCATCAAACCCCTAACAT
* * *
64059865 CTAACACCTAAACCCCTAAATC
1 CAAACCCCTAAA-ACCTAAATC
64059887 TTAAATCTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
43 32 0.58
44 23 0.42
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (44 bp):
CAAACCCCTAAAACCTAAATCCCCAACCATCAAACCCCTAACAT
Found at i:64060359 original size:41 final size:40
Alignment explanation
Indices: 64060263--64060619 Score: 419
Period size: 41 Copynumber: 8.7 Consensus size: 40
64060253 AATACATTTT
* * * *
64060263 GCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CAAAGTAATA
1 GCGGCG-TTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
64060303 GCGGCACTTCTACAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGC-GTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* **
64060344 GCGGCGTTTTCACAAAAGCGCCGCTAAAGAATAGAGCATTA
1 GCGGCGTTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
* *
64060385 GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAGACCATTA
1 GCGGCGTTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
* *
64060426 GTGGCGCTTTTCCAAAAACACCGCTAAAGACCAGAGCATTA
1 GCGGCG-TTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
64060467 GCGGCGCTTTCTCAGAAACGCCACTAAAGACCAGAGCATTA
1 GCGGCGTTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
64060508 GCGGCACTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTG
1 GCGGC-GTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
64060549 GCGGCGCTTTTCCAAAAACGCCACTAAAGACCAGAGCTTTA
1 GCGGCG-TTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
64060590 GTGGCGCTTTTCCAAAAACGCCGCTAAAGA
1 GCGGCG-TTTTCCAAAAACGCCGCTAAAGA
64060620 TCCGAAAACT
Statistics
Matches: 269, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
40 32 0.12
41 229 0.85
42 8 0.03
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.18
Consensus pattern (40 bp):
GCGGCGTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:64060494 original size:123 final size:122
Alignment explanation
Indices: 64060263--64060619 Score: 468
Period size: 123 Copynumber: 2.9 Consensus size: 122
64060253 AATACATTTT
* * * * * *
64060263 GCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CAAAGTAATAGCGGCACTTCTACAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
* * *
64060327 TAAAGACCAGAGCATTAGCGGCGTTTTCACAAAAGCGCCGCTAAAGAATAGAGCATTA
66 TAAAGACCAGAGCATTAGCGGCGCTTTCTCAAAA-CGCCGCTAAAGAACAGAGCATTA
* * * *
64060385 GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAGACCATTAGTGGCGCTTTTCCAAAAACACCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
* *
64060450 TAAAGACCAGAGCATTAGCGGCGCTTTCTCAGAAACGCCACTAAAGACCAGAGCATTA
66 TAAAGACCAGAGCATTAGCGGCGCTTTCTCA-AAACGCCGCTAAAGAACAGAGCATTA
* * *
64060508 GCGGCACTTT-TCCAAAAACGCCGCTAAAGACCAAAGCATTGGCGGCGCTTTTCCAAAAACGCCA
1 GCGGCGCTTTCT-CAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCG
* *
64060572 CTAAAGACCAGAGCTTTAGTGGCGCTTT-TCCAAAAACGCCGCTAAAGA
65 CTAAAGACCAGAGCATTAGCGGCGCTTTCT-C-AAAACGCCGCTAAAGA
64060620 TCCGAAAACT
Statistics
Matches: 205, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
122 31 0.15
123 170 0.83
124 4 0.02
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.18
Consensus pattern (122 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
TAAAGACCAGAGCATTAGCGGCGCTTTCTCAAAACGCCGCTAAAGAACAGAGCATTA
Found at i:64070846 original size:87 final size:85
Alignment explanation
Indices: 64070680--64070855 Score: 217
Period size: 87 Copynumber: 2.0 Consensus size: 85
64070670 TTTGGTTTAT
* * * * * * *
64070680 GGTTGTATATACCACATGTTTAGTTGGATTAAGCATATTTTTCTAGTTTTATATGTTGGCAACAT
1 GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATGTTGACAACAT
* *
64070745 AATATTTTCTAGTAACAATATA
66 AATACTTTCCAGTAAC--TATA
* * *
64070767 GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATTTTGACCACTT
1 GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATGTTGACAACAT
*
64070832 ATTACTTTCCAGTAACTATA
66 AATACTTTCCAGTAACTATA
64070852 GGTT
1 GGTT
64070856 TTTTTAATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 8 0.11
87 68 0.89
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (85 bp):
GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATGTTGACAACAT
AATACTTTCCAGTAACTATA
Found at i:64075436 original size:25 final size:25
Alignment explanation
Indices: 64075385--64075434 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
64075375 AAATCTCCTC
*
64075385 ATAAACAATTTAAATTGTTTATAAA
1 ATAAACAATTTAAATTATTTATAAA
*
64075410 ATAAATAATTTAAA-TATTTATAAA
1 ATAAACAATTTAAATTATTTATAAA
64075434 A
1 A
64075435 ATGTTGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAAACAATTTAAATTATTTATAAA
Found at i:64086443 original size:34 final size:35
Alignment explanation
Indices: 64086397--64086462 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
64086387 GTGTTTCAGC
64086397 TGGATTAACTCTTGTGAGCA-CTAGTGTGTTTGGA
1 TGGATTAACTCTTGTGAGCATCTAGTGTGTTTGGA
*
64086431 TGGATTAGCTCTTGTGAGCATCTAGTGTGTTT
1 TGGATTAACTCTTGTGAGCATCTAGTGTGTTT
64086463 TGGTTGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 19 0.63
35 11 0.37
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (35 bp):
TGGATTAACTCTTGTGAGCATCTAGTGTGTTTGGA
Found at i:64089840 original size:62 final size:62
Alignment explanation
Indices: 64089743--64089869 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
64089733 TTTTGAGAGT
64089743 TAGAATGAAATTATTGGTATTGAGGAGGATCTACTCCACAAAGCTACTCAATCATCCTCATA
1 TAGAATGAAATTATTGGTATTGAGGAGGATCTACTCCACAAAGCTACTCAATCATCCTCATA
64089805 TAGAATGAAATTATTGGTATTGAGGAGGATCTACTCCACAAAGCTACTCAATCATCCTCATA
1 TAGAATGAAATTATTGGTATTGAGGAGGATCTACTCCACAAAGCTACTCAATCATCCTCATA
64089867 TAG
1 TAG
64089870 GTCATGCTCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (62 bp):
TAGAATGAAATTATTGGTATTGAGGAGGATCTACTCCACAAAGCTACTCAATCATCCTCATA
Found at i:64091195 original size:26 final size:26
Alignment explanation
Indices: 64091152--64091212 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
64091142 TAATAATGAT
* * *
64091152 AAGAAACTAATGATAATAA-CATTAAG
1 AAGAAAATAATAACAATAAGCA-TAAG
*
64091178 AAGAAAATAATAACAATAAGCATAAT
1 AAGAAAATAATAACAATAAGCATAAG
64091204 AAGAAAATA
1 AAGAAAATA
64091213 GGACAGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.20
Consensus pattern (26 bp):
AAGAAAATAATAACAATAAGCATAAG
Found at i:64096563 original size:29 final size:29
Alignment explanation
Indices: 64096521--64096579 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
64096511 AATCCGACGA
64096521 TTGAAATAGGTTAGGAGTGTTACACTACC
1 TTGAAATAGGTTAGGAGTGTTACACTACC
64096550 TTGAAATAGGTTAGGAGTGTTACACTACC
1 TTGAAATAGGTTAGGAGTGTTACACTACC
64096579 T
1 T
64096580 CTCTTCCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (29 bp):
TTGAAATAGGTTAGGAGTGTTACACTACC
Found at i:64098104 original size:20 final size:19
Alignment explanation
Indices: 64098081--64098167 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
64098071 AAATTACAAA
*
64098081 AAAAAATCAAAATTATTTTT
1 AAAAATTCAAAA-TATTTTT
*
64098101 AAAAATTTAAAATACTTTTT
1 AAAAATTCAAAATA-TTTTT
* *
64098121 -AAAATTGAAAATATTTAT
1 AAAAATTCAAAATATTTTT
64098139 AAACAATTTCAAAATTTATGTTTT
1 AAA-AA-TTCAAAA--TAT-TTTT
64098163 AAAAA
1 AAAAA
64098168 ATATTCTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 4 0.07
19 16 0.30
20 17 0.31
21 6 0.11
23 5 0.09
24 6 0.11
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:64100883 original size:40 final size:40
Alignment explanation
Indices: 64100839--64100950 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
64100829 CGTTTGGATA
64100839 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTTC
* ** * * * * *
64100879 AAAAACGCCGCTAAAGATCCAGTATTAGCAGCGTTTTTTG
1 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTTC
64100919 AAAAACGCCGCTAAAAA-TGAGCATTAGCGGCG
1 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCG
64100951 TTTTTCAGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 11 0.19
40 48 0.81
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTTC
Found at i:64100974 original size:39 final size:39
Alignment explanation
Indices: 64100840--64100974 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
64100830 GTTTGGATAA
* *
64100840 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTTCA-
1 AAAACGCCGC-AAAAAATGAGCATTAGCGGCG-TTTTTCAG
* * * * * *
64100880 AAAACGCCGCTAAAGATCCAGTATTAGCAGCGTTTTT-TG
1 AAAACGCCGCAAAAAAT-GAGCATTAGCGGCGTTTTTCAG
*
64100919 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTTTCAG
1 -AAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTTCAG
* *
64100959 AAAGCACCGCAAAAAA
1 AAAACGCCGCAAAAAA
64100975 CCCAAGCACA
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
39 37 0.49
40 38 0.51
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTTCAG
Done.