Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 128 of 173
Found at i:39139378 original size:19 final size:19
Alignment explanation
Indices: 39139356--39139399 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
39139346 TAAAAAATGG
*
39139356 AATTTTTATAAA-TATTTT
1 AATTTTTAAAAATTATTTT
*
39139374 AAATTTTAAAAATTATTTT
1 AATTTTTAAAAATTATTTT
39139393 AATTTTT
1 AATTTTT
39139400 TTTTTTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTTAAAAATTATTTT
Found at i:39139380 original size:18 final size:18
Alignment explanation
Indices: 39139359--39139398 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
39139349 AAAATGGAAT
*
39139359 TTTTATAAA-TATTTTAAA
1 TTTTAAAAATTATTTT-AA
39139377 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
39139395 TTTT
1 TTTT
39139399 TTTTTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:39140856 original size:15 final size:15
Alignment explanation
Indices: 39140836--39140865 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39140826 ACTTGTATTT
*
39140836 TATTACTTGCGAACC
1 TATTACATGCGAACC
39140851 TATTACATGCGAACC
1 TATTACATGCGAACC
39140866 CTAAGAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (15 bp):
TATTACATGCGAACC
Found at i:39140901 original size:34 final size:34
Alignment explanation
Indices: 39140857--39140956 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
39140847 AACCTATTAC
* *
39140857 ATGCGAACCCTAAGAACATGCGAGACTATATGTT
1 ATGCAAACCCTAGGAACATGCGAGACTATATGTT
* * *
39140891 GTGCAAACCCTAGGAACATGGGAGTCTATATGTT
1 ATGCAAACCCTAGGAACATGCGAGACTATATGTT
* * *
39140925 ATGCGAACCCTAGGTACATGCGAGCCTATATG
1 ATGCAAACCCTAGGAACATGCGAGACTATATG
39140957 CGAACCTCTA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (34 bp):
ATGCAAACCCTAGGAACATGCGAGACTATATGTT
Found at i:39144595 original size:43 final size:43
Alignment explanation
Indices: 39144534--39144803 Score: 335
Period size: 43 Copynumber: 6.3 Consensus size: 43
39144524 AGAAGAAAAA
* * **
39144534 AAACGCTGCTAAAGACCAAGACCTTTCGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
* *
39144577 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTATCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
* * * **
39144620 AAACGCCGCAAAAGACCACGACCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
* * * *
39144663 AAACGCCGCTAAAGACCAAAACCTTTAGCGACACTTTTATCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
* * *
39144706 AAACGCCGCGAAAGACCAAGACCTTTAGCGGCACTTTAATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
* * * *
39144749 AAACGCCGCTAAAGAACAA-ACCTTTAGCGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
39144791 AAACGCCGCTAAA
1 AAACGCCGCTAAA
39144804 AATAGAATCT
Statistics
Matches: 193, Mismatches: 34, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
42 31 0.16
43 162 0.84
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
Found at i:39144679 original size:86 final size:86
Alignment explanation
Indices: 39144534--39144783 Score: 376
Period size: 86 Copynumber: 2.9 Consensus size: 86
39144524 AGAAGAAAAA
* * *
39144534 AAACGCTGCTAAAGACCAAGACCTTTCGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAAAC
1 AAACGCCGCAAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAAAC
39144599 CTTTAGCGGCGCTTTTATCGC
66 CTTTAGCGGCGCTTTTATCGC
* *
39144620 AAACGCCGCAAAAGACCACGACCTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAGACCAAAAC
1 AAACGCCGCAAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAAAC
* *
39144685 CTTTAGCGACACTTTTATCGC
66 CTTTAGCGGCGCTTTTATCGC
* * *** *
39144706 AAACGCCGCGAAAGACCAAGACCTTTAGCGGCACTTTAATCACAAACGCCGCTAAAGAAC-AAAC
1 AAACGCCGCAAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAAAC
39144770 CTTTAGCGGCGCTT
66 CTTTAGCGGCGCTT
39144784 CTAGCAAAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 16 0.11
86 131 0.89
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (86 bp):
AAACGCCGCAAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAAAC
CTTTAGCGGCGCTTTTATCGC
Found at i:39146055 original size:12 final size:12
Alignment explanation
Indices: 39146038--39146062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39146028 ATTTGATCTG
39146038 TATACTAAATGA
1 TATACTAAATGA
39146050 TATACTAAATGA
1 TATACTAAATGA
39146062 T
1 T
39146063 GCCAGTATCA
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TATACTAAATGA
Found at i:39146714 original size:13 final size:13
Alignment explanation
Indices: 39146693--39146732 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
39146683 ACTAACCTGG
*
39146693 TTTAGAATAATTA
1 TTTAAAATAATTA
39146706 TTTAAAATACTATTA
1 TTTAAAATA--ATTA
39146721 TTTAAAATAATT
1 TTTAAAATAATT
39146733 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTAAAATAATTA
Found at i:39150496 original size:14 final size:14
Alignment explanation
Indices: 39150471--39150512 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
39150461 TCCTAAATCA
*
39150471 CTAACTCTTAACCT
1 CTAACTCTTAACCC
39150485 CTAA-TCTCTAACCC
1 CTAACTCT-TAACCC
39150499 CTAACTCTTAACCC
1 CTAACTCTTAACCC
39150513 TTAAACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 19 0.76
15 3 0.12
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (14 bp):
CTAACTCTTAACCC
Found at i:39150688 original size:14 final size:15
Alignment explanation
Indices: 39150669--39150701 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
39150659 CTTAAACCAG
39150669 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
39150683 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
39150698 AATC
1 AATC
39150702 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:39151204 original size:81 final size:80
Alignment explanation
Indices: 39151105--39151369 Score: 319
Period size: 81 Copynumber: 3.4 Consensus size: 80
39151095 AAATATTTTT
* * *
39151105 GCGGCGCATTCTCAAAAATGCCGCTAAAAGTCTGAGCATTAGTGGCGCTTTTTTAAAAACACCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAG-CTGAGCATTAGCGGCGCTTTTTTAAAAACACCGC
39151170 TAAAGCCTGAGCATTA
65 TAAAGCCTGAGCATTA
* * * * **
39151186 GCGGCGCTTTCTCAAAAATGCCACTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGTCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAG-CTGAGCATTAGCGGCGCTTTTTTAAAAACACCGC
39151251 TAAAGCCTGAGCATT-
65 TAAAGCCTGAGCATTA
* * * *
39151266 -----GCTTTCCCAAAAACGCCGCTAAAAGCTTGAGCATTACCGGCGC-TTTCTCAAAACACCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGC-TGAGCATTAGCGGCGCTTTTTTAAAAACACCGC
39151325 TAAAAGCCTGAGCATTA
65 T-AAAGCCTGAGCATTA
*
39151342 GTGGCGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
39151370 GCCCCAAAAT
Statistics
Matches: 157, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
74 12 0.08
75 51 0.32
81 94 0.60
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (80 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCTGAGCATTAGCGGCGCTTTTTTAAAAACACCGCT
AAAGCCTGAGCATTA
Found at i:39151298 original size:35 final size:34
Alignment explanation
Indices: 39151232--39151300 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
39151222 CATTAGCGGC
* *
39151232 GCTTTCTCAAAAACGTCGCTAAAGCCTGAGCATT
1 GCTTTCCCAAAAACGCCGCTAAAGCCTGAGCATT
*
39151266 GCTTTCCCAAAAACGCCGCTAAAAGCTTGAGCATT
1 GCTTTCCCAAAAACGCCGCT-AAAGCCTGAGCATT
39151301 ACCGGCGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (34 bp):
GCTTTCCCAAAAACGCCGCTAAAGCCTGAGCATT
Found at i:39151308 original size:75 final size:74
Alignment explanation
Indices: 39151117--39151340 Score: 254
Period size: 75 Copynumber: 2.9 Consensus size: 74
39151107 GGCGCATTCT
* * *
39151117 CAAAAATGCCGCTAAAAG-TCTGAGCATTAGTGGCGCTTTTTTAAAAACACCGCTAAAGCCTGAG
1 CAAAAATGCCGCTAAAAGCT-TGAGCATTAGCGGCGC-TTTCTCAAAA-ACCGCTAAAGCCTGAG
*
39151181 CATTAGCGGCGCTTTCT
63 CATT----G-GCTTTCC
* *
39151198 CAAAAATGCCACTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGTCGCTAAAGCCTGAGC
1 CAAAAATGCCGCTAAAAGCTTGAGCATTAGCGGCGCTTTCTCAAAAAC--CGCTAAAGCCTGAGC
39151263 ATT-GCTTTCC
64 ATTGGCTTTCC
* *
39151273 CAAAAACGCCGCTAAAAGCTTGAGCATTACCGGCGCTTTCTCAAAACACCGCTAAAAGCCTGAGC
1 CAAAAATGCCGCTAAAAGCTTGAGCATTAGCGGCGCTTTCTCAAAA-ACCGCT-AAAGCCTGAGC
39151338 ATT
64 ATT
39151341 AGTGGCGCTT
Statistics
Matches: 128, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
74 4 0.03
75 62 0.48
76 2 0.02
79 2 0.02
80 8 0.06
81 50 0.39
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (74 bp):
CAAAAATGCCGCTAAAAGCTTGAGCATTAGCGGCGCTTTCTCAAAAACCGCTAAAGCCTGAGCAT
TGGCTTTCC
Found at i:39151334 original size:115 final size:114
Alignment explanation
Indices: 39151159--39151372 Score: 340
Period size: 115 Copynumber: 1.9 Consensus size: 114
39151149 GCGCTTTTTT
*
39151159 AAAAACACCGCTAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAATGCCACTAAAAGCCTGAGCA
1 AAAAACACCGCTAAAGCCTGAGCATTACCGGCGCTTTCTCAAAAA-GCCACTAAAAGCCTGAGCA
*
39151224 TTAGCGGCGCTTTCTCAAAAACGTCGCTAAAGCCTGAGCATTGCTTTCCC
65 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTGAGCATTGCTTTCCC
* * *
39151274 AAAAACGCCGCTAAAAGCTTGAGCATTACCGGCGCTTTCTCAAAACA-CCGCTAAAAGCCTGAGC
1 AAAAACACCGCT-AAAGCCTGAGCATTACCGGCGCTTTCTCAAAA-AGCCACTAAAAGCCTGAGC
*
39151338 ATTAGTGGCGCTTTCTCAAAAACGCCGCTAAAGCC
64 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
39151373 CCAAAATGTC
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
115 60 0.66
116 30 0.33
117 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (114 bp):
AAAAACACCGCTAAAGCCTGAGCATTACCGGCGCTTTCTCAAAAAGCCACTAAAAGCCTGAGCAT
TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTGAGCATTGCTTTCCC
Found at i:39151372 original size:40 final size:41
Alignment explanation
Indices: 39151105--39151369 Score: 332
Period size: 40 Copynumber: 6.7 Consensus size: 41
39151095 AAATATTTTT
* * *
39151105 GCGGCGCATTCTCAAAAATGCCGCTAAAAGTCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* * * *
39151146 GTGGCGCTTTTTTAAAAACACCGCT-AAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
39151186 GCGGCGCTTTCTCAAAAATGCCACTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
*
39151227 GCGGCGCTTTCTCAAAAACGTCGCT-AAAGCCTGAGCATT-
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
39151266 -----GCTTTCCCAAAAACGCCGCTAAAAGCTTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
39151302 CCGGCGCTTTCTC-AAAACACCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
*
39151342 GTGGCGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
39151370 GCCCCAAAAT
Statistics
Matches: 190, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
34 18 0.09
35 13 0.07
40 83 0.44
41 76 0.40
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:39156944 original size:6 final size:6
Alignment explanation
Indices: 39156935--39156963 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
39156925 TTTTAGGCCC
39156935 TTATTT TTATTT TTATTT TTA-TT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
39156964 ATTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:39158997 original size:29 final size:29
Alignment explanation
Indices: 39158924--39159006 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 29
39158914 ATAAATCTCA
* *
39158924 AATTTATACATGAACTTCAATTTAATGTGC
1 AATTTATACATGAACTTTAATTT-AGGTGC
*
39158954 AATTCTATATATGAACTTTAATTT-GGTGC
1 AATT-TATACATGAACTTTAATTTAGGTGC
* *
39158983 AATTATATACGTGAAACTCTAATT
1 AATT-TATACATG-AACTTTAATT
39159007 ATTGTTCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 14 0.32
30 13 0.30
31 17 0.39
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (29 bp):
AATTTATACATGAACTTTAATTTAGGTGC
Found at i:39159364 original size:14 final size:15
Alignment explanation
Indices: 39159345--39159377 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
39159335 AAAAATTCAT
*
39159345 ATAAAATAT-AATAC
1 ATAAAATATGAATAA
39159359 ATAAAATATGAATAA
1 ATAAAATATGAATAA
39159374 ATAA
1 ATAA
39159378 TTATGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
ATAAAATATGAATAA
Found at i:39159634 original size:12 final size:12
Alignment explanation
Indices: 39159611--39159639 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
39159601 ATTTTTTGTT
39159611 ATTTTTTTTCTC
1 ATTTTTTTTCTC
39159623 ATTTTTTTTCTC
1 ATTTTTTTTCTC
39159635 -TTTTT
1 ATTTTT
39159640 AGACCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTTTTCTC
Found at i:39165892 original size:44 final size:44
Alignment explanation
Indices: 39165844--39166182 Score: 190
Period size: 44 Copynumber: 7.8 Consensus size: 44
39165834 CATCATTTTG
* *
39165844 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTGCTTTA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTGCTTCA
* * * *
39165888 ATCCGTTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TGCTTCA
** * * * * * *
39165932 ATCTACCCCACTGCAACCTCAGGGAAATAAGATTTGTCAT-CCTCA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTAT--TGCTTCA
** * * * *
39165977 ATTTG-TCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCA
1 ATCCGCT-CCACTGCAACTTCAGGGAGATAAGATCT-ATTGCTTCA
* * * * * * * *
39166021 GTCTGCTTCACTGCAACCTCAGGGAAATAAGA--T-TTGATGCG
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTGCTTCA
* * ** * * *
39166062 ATCCACTCTACTGCAACTTCAAAGAGATAAGATCTACTACTTTA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTGCTTCA
* * * *
39166106 ATCCACTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TGCTTCA
* * *
39166150 ATCTGCTCCACTGCAACCTCAGGGAGATGAGAT
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
39166183 TCGCCATCTT
Statistics
Matches: 218, Mismatches: 65, Indels: 24
0.71 0.21 0.08
Matches are distributed among these distances:
40 2 0.01
41 24 0.11
42 1 0.00
43 6 0.03
44 150 0.69
45 34 0.16
46 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTGCTTCA
Found at i:39166231 original size:218 final size:218
Alignment explanation
Indices: 39165843--39166238 Score: 605
Period size: 218 Copynumber: 1.8 Consensus size: 218
39165833 CCATCATTTT
* ** * * * **
39165843 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTGCTTTAATCCGTTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCACTCCACTACAACTTC
* *
39165908 AGGGAGATAGGATTATCGGCTTCAATCTACCCCACTGCAACCTCAGGGAAATAAGATTTGTCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACCCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
*
39165973 CTCAATTTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTTCACTGCAAC
131 CTCAATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTTCACTGCAAC
39166038 CTCAGGGAAATAAGATTTGATGC
196 CTCAGGGAAATAAGATTTGATGC
*
39166061 GATCCACTCTACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCACTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCACTCCACTACAACTTC
* * * *
39166126 AGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATGAGATTCGCCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACCCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
* * *
39166191 TTCGATCTGTCCCACTGTAACTTC-GGGGAGATAAGACCTGCTTACTCA
131 CTCAATCTGTCCCACTGCAACTTCAGGGG-GATAAGACCTGCTTACTCA
39166239 TTGATTTGTT
Statistics
Matches: 158, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
217 4 0.03
218 154 0.97
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (218 bp):
GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCACTCCACTACAACTTC
AGGGAGATAGGATTATCGGCTTCAATCTACCCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
CTCAATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTTCACTGCAAC
CTCAGGGAAATAAGATTTGATGC
Found at i:39180158 original size:14 final size:14
Alignment explanation
Indices: 39180139--39180167 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39180129 CATCAAAGTG
39180139 AAATAGGACTAACA
1 AAATAGGACTAACA
39180153 AAATAGGACTAACA
1 AAATAGGACTAACA
39180167 A
1 A
39180168 GTTAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
AAATAGGACTAACA
Found at i:39185085 original size:24 final size:25
Alignment explanation
Indices: 39185031--39185090 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 25
39185021 ATCCTCATTT
* *
39185031 TCTTCGTCTTCACCTCTACCCTCGG
1 TCTTCATCTTCACCTCAACCCTCGG
* *
39185056 AC-TCATCTTCACCTCAACCGTC-G
1 TCTTCATCTTCACCTCAACCCTCGG
*
39185079 TCTTCATTTTCA
1 TCTTCATCTTCA
39185091 TCTTTATTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.07
24 25 0.89
25 1 0.04
ACGTcount: A:0.15, C:0.40, G:0.08, T:0.37
Consensus pattern (25 bp):
TCTTCATCTTCACCTCAACCCTCGG
Found at i:39185130 original size:30 final size:30
Alignment explanation
Indices: 39185069--39185130 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
39185059 CATCTTCACC
* * **
39185069 TCAACCGTCGTCTTCATTTTCATCTTTATT
1 TCAACCGTCATCTTCATCTTCATCTCCATT
* *
39185099 TCAATCGTCATCTTCATCTTCGTCTCCATT
1 TCAACCGTCATCTTCATCTTCATCTCCATT
39185129 TC
1 TC
39185131 CTTCCTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.31, G:0.06, T:0.47
Consensus pattern (30 bp):
TCAACCGTCATCTTCATCTTCATCTCCATT
Found at i:39188328 original size:24 final size:24
Alignment explanation
Indices: 39188300--39188351 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
39188290 TTAGTAGGTC
* *
39188300 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
39188324 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
39188348 AAAT
1 AAAT
39188352 TTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:39194536 original size:12 final size:11
Alignment explanation
Indices: 39194508--39194537 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
39194498 ATATATTATT
39194508 TATTTTTAAAA
1 TATTTTTAAAA
39194519 TATTTTTAAAA
1 TATTTTTAAAA
39194530 TACTTTTT
1 TA-TTTTT
39194538 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:39204585 original size:20 final size:20
Alignment explanation
Indices: 39204526--39204598 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
39204516 TTAAAAATGA
* *
39204526 AAAAAATACAAATAATTATA
1 AAAAAATACAAAAAATTATT
*
39204546 AAAAAATACAAAATA-T-TT
1 AAAAAATACAAAAAATTATT
**
39204564 AAAATTTACAAAAAATTATT
1 AAAAAATACAAAAAATTATT
*
39204584 -AAAAATAGAAAAAAT
1 AAAAAATACAAAAAAT
39204599 ACTAACATCT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 13 0.31
19 14 0.33
20 15 0.36
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (20 bp):
AAAAAATACAAAAAATTATT
Found at i:39205643 original size:89 final size:87
Alignment explanation
Indices: 39205460--39205689 Score: 241
Period size: 89 Copynumber: 2.6 Consensus size: 87
39205450 AGTTCTTACT
* * * * ** * * * ****
39205460 TTTTTTTACATTCAATTGGGTATTTGAACTTTCAAAATATATCAAAAAGGCCCTCAAACTTTTTC
1 TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATTCAAA
*
39205525 AAAAAAAGCAATTAAGCCTCTA
66 AAAAAAAGCAATTAAGCCCCTA
39205547 TTTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATTAC
1 --TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATT-C
39205612 AAAAAAGAAGAAGCAATTAAGCCCCTA
63 AAAAAA-AA-AAGCAATTAAGCCCCTA
* * *
39205639 --TTTTTGCACTCGATTGGGTACTTAAAATGTCAAAATGCATCAAAAA-ACCCT
1 TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCT
39205690 TTAACCGTTA
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
87 5 0.04
88 43 0.36
89 52 0.43
90 3 0.02
91 2 0.02
92 16 0.13
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (87 bp):
TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATTCAAA
AAAAAAAGCAATTAAGCCCCTA
Found at i:39205827 original size:10 final size:9
Alignment explanation
Indices: 39205789--39205931 Score: 80
Period size: 9 Copynumber: 15.6 Consensus size: 9
39205779 CATGTTACAA
*
39205789 AAAAATGAT
1 AAAAATTAT
39205798 AAAAA--AT
1 AAAAATTAT
*
39205805 AAAAATCAAT
1 AAAAAT-TAT
39205815 AAAAATTAT
1 AAAAATTAT
*
39205824 -TAAATTATT
1 AAAAATTA-T
**
39205833 AAATTTTAAT
1 AAAAATT-AT
*
39205843 AAAAAATAT
1 AAAAATTAT
39205852 AAAAA-TAT
1 AAAAATTAT
39205860 AAAAA-TAT
1 AAAAATTAT
* *
39205868 TAAAATTAGAA
1 AAAAATT--AT
39205879 AAAAATTAT
1 AAAAATTAT
*
39205888 AAAAATCGTAA
1 AAAAAT--TAT
*
39205899 AAAAACTAT
1 AAAAATTAT
39205908 AAAAAATTAT
1 -AAAAATTAT
*
39205918 AAAAATCAT
1 AAAAATTAT
39205927 AAAAA
1 AAAAA
39205932 AGTATAAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
7 7 0.07
8 21 0.20
9 38 0.36
10 24 0.23
11 15 0.14
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:39205855 original size:8 final size:8
Alignment explanation
Indices: 39205840--39205873 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
39205830 ATTAAATTTT
39205840 AATA-AAA
1 AATATAAA
39205847 AATATAAA
1 AATATAAA
39205855 AATATAAA
1 AATATAAA
*
39205863 AATATTAA
1 AATATAAA
39205871 AAT
1 AAT
39205874 TAGAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATATAAA
Found at i:39205855 original size:9 final size:9
Alignment explanation
Indices: 39205841--39205940 Score: 64
Period size: 10 Copynumber: 10.7 Consensus size: 9
39205831 TTAAATTTTA
39205841 ATAAAAAAT
1 ATAAAAAAT
39205850 AT-AAAAAT
1 ATAAAAAAT
39205858 AT-AAAAAT
1 ATAAAAAAT
* *
39205866 ATTAAAATT
1 ATAAAAAAT
*
39205875 AGAAAAAA-
1 ATAAAAAAT
39205883 ATTATAAAAAT
1 A-TA-AAAAAT
*
39205894 CGTAAAAAAACT
1 -AT-AAAAAA-T
39205906 ATAAAAAAT
1 ATAAAAAAT
39205915 -TATAAAAAT
1 ATA-AAAAAT
39205924 CATAAAAAAGT
1 -ATAAAAAA-T
39205935 ATAAAA
1 ATAAAA
39205941 TGCATAAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
8 19 0.26
9 20 0.27
10 22 0.30
11 10 0.14
12 2 0.03
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:39205914 original size:30 final size:29
Alignment explanation
Indices: 39205841--39205940 Score: 102
Period size: 30 Copynumber: 3.6 Consensus size: 29
39205831 TTAAATTTTA
39205841 ATAAAAAA-TAT-AAAAA-TATAAAAAT-
1 ATAAAAAACTATAAAAAATTATAAAAATC
* * *
39205866 AT-TAAAATTAGAAAAAAATTATAAAAATC
1 ATAAAAAACTA-TAAAAAATTATAAAAATC
*
39205895 GTAAAAAAACTATAAAAAATTATAAAAATC
1 AT-AAAAAACTATAAAAAATTATAAAAATC
*
39205925 ATAAAAAAGTATAAAA
1 ATAAAAAACTATAAAA
39205941 TGCATAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
24 4 0.07
25 4 0.07
27 5 0.08
28 9 0.15
29 14 0.23
30 18 0.30
31 6 0.10
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (29 bp):
ATAAAAAACTATAAAAAATTATAAAAATC
Found at i:39205921 original size:19 final size:19
Alignment explanation
Indices: 39205879--39205951 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
39205869 AAAATTAGAA
* *
39205879 AAAAATTATAAAAATCGTA-
1 AAAAATCATAAAAA-AGTAT
* *
39205898 AAAAAACTATAAAAAATTAT
1 AAAAATC-ATAAAAAAGTAT
39205918 AAAAATCATAAAAAAGTAT
1 AAAAATCATAAAAAAGTAT
39205937 -AAAATGCATAAAAAA
1 AAAAAT-CATAAAAAA
39205952 AAACCTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 5 0.11
19 27 0.60
20 13 0.29
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAAATCATAAAAAAGTAT
Found at i:39207840 original size:21 final size:21
Alignment explanation
Indices: 39207784--39207840 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 21
39207774 TGGTACAATA
* *
39207784 ATTTTTATATTTTTTTTTACG
1 ATTTTTATAATTTTCTTTACG
*
39207805 AATTTTAT-A-TTTCTTTAC-
1 ATTTTTATAATTTTCTTTACG
39207823 ATTTTTTATAATTTTCTT
1 A-TTTTTATAATTTTCTT
39207841 ACAACTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 1 0.03
21 13 0.45
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTTTTATAATTTTCTTTACG
Found at i:39207909 original size:19 final size:19
Alignment explanation
Indices: 39207885--39207955 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
39207875 TTCTATATAG
39207885 TTTATAATTTTTTACGATT
1 TTTATAATTTTTTACGATT
** *
39207904 TTTATAAAATTTTACAATTTT
1 TTTATAATTTTTTACGA--TT
*
39207925 TTTATAATTTTTTACGAGT
1 TTTATAATTTTTTACGATT
39207944 TTTAT-ATTTTTT
1 TTTATAATTTTTT
39207956 TTTCTAATTC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 7 0.16
19 20 0.47
21 16 0.37
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTATAATTTTTTACGATT
Found at i:39207935 original size:30 final size:29
Alignment explanation
Indices: 39207846--39207936 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
39207836 TTCTTACAAC
* *
39207846 TTTATAAAATTTTATATTTTTTTCTATATT
1 TTTATAAAATTTTAAATTTTTTTATA-ATT
* * * **
39207876 TCTAT-ATAGTTTATAA-TTTTTTACGATT
1 TTTATAAAATTTTA-AATTTTTTTATAATT
39207904 TTTATAAAATTTTACAATTTTTTTATAATT
1 TTTATAAAATTTTA-AATTTTTTTATAATT
39207934 TTT
1 TTT
39207937 TACGAGTTTT
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
28 7 0.16
29 20 0.44
30 18 0.40
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTATAAAATTTTAAATTTTTTTATAATT
Found at i:39207945 original size:58 final size:58
Alignment explanation
Indices: 39207826--39207956 Score: 142
Period size: 58 Copynumber: 2.2 Consensus size: 58
39207816 TCTTTACATT
* * *
39207826 TTTTATAATTTTCTTACAACTTTATAAAATTTTATATTTTTTTCTATATTTCTATATAG
1 TTTTATAATTTT-TTACAACTTTATAAAATTTTAAATTTTTTTATATATTTCTATAGAG
** *
39207885 -TTTATAATTTTTTACGATTTTTATAAAATTTTACAATTTTTTTATA-ATTT-TTTACGAG
1 TTTTATAATTTTTTAC-AACTTTATAAAATTTTA-AATTTTTTTATATATTTCTATA-GAG
*
39207943 TTTTATATTTTTTT
1 TTTTATAATTTTTT
39207957 TTCTAATTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
57 7 0.11
58 32 0.52
59 22 0.36
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (58 bp):
TTTTATAATTTTTTACAACTTTATAAAATTTTAAATTTTTTTATATATTTCTATAGAG
Found at i:39208714 original size:20 final size:20
Alignment explanation
Indices: 39208689--39208728 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
39208679 TATAAACAAA
39208689 TTTTTTACCATTACATCGGT
1 TTTTTTACCATTACATCGGT
39208709 TTTTTTACCATTACATCGGT
1 TTTTTTACCATTACATCGGT
39208729 AATAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTTTTACCATTACATCGGT
Found at i:39210932 original size:114 final size:113
Alignment explanation
Indices: 39210804--39211229 Score: 620
Period size: 114 Copynumber: 3.7 Consensus size: 113
39210794 GTTTATTTGT
* *
39210804 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
39210869 GCTTATGAAAACACGCAGCTAAATCAAAGAATTAGCGGCGCATTATAAA
66 GCTTATGAAAA-ACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
* *
39210918 AAGCGCCGCAAAATATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGA
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
39210983 GCTTATGGAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
66 GCTTAT-GAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
* * * *
39211032 AAGCGCCGCAAAATATCTTAACTAAAATGCAGCGTATGGTCTTGAGGTATATTAGAATTAGTGGT
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * *
39211097 GCTTATGAAAAAACGCCGCTAAAGCACAGCATTAACGGTGCAATAGAAA
66 GCTTATG-AAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
* * *
39211146 AAGCGCCACAAAATATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAACTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
39211211 GCATTAT-AAAAAGCGCCGC
66 GC-TTATGAAAAA-CGCCGC
39211230 AAAATATCTT
Statistics
Matches: 284, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
113 6 0.02
114 269 0.95
115 9 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (113 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
Found at i:39212010 original size:21 final size:20
Alignment explanation
Indices: 39211937--39212023 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 20
39211927 TTTGGCTAGT
*
39211937 TTTAGGGTTTAGAGTTTATGA
1 TTTAGGGTTTA-AGTTTATGG
* * *
39211958 TTTGGTGGTTGT-TGTTTGTGG
1 TTTAG-GGTT-TAAGTTTATGG
39211979 TTTATGGGTTTAATGTTTATGG
1 TTTA-GGGTTTAA-GTTTATGG
39212001 TTTAGGGTTTAAGATTTATGG
1 TTTAGGGTTTAAG-TTTATGG
39212022 TT
1 TT
39212024 AATGTTTACG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
20 2 0.04
21 34 0.64
22 16 0.30
23 1 0.02
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (20 bp):
TTTAGGGTTTAAGTTTATGG
Found at i:39212137 original size:21 final size:21
Alignment explanation
Indices: 39212113--39212152 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39212103 ATAGTTTGGG
* *
39212113 GTTTGGGGTTTAAGGTTTATA
1 GTTTAGGGTTTAAGATTTATA
39212134 GTTTAGGGTTTAAGATTTA
1 GTTTAGGGTTTAAGATTTA
39212153 CGGTTAAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTATA
Found at i:39212152 original size:14 final size:14
Alignment explanation
Indices: 39212094--39212145 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
39212084 AATTGACGTG
39212094 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
* ***
39212108 TTGGGGTTTGGGGT
1 TTAGGGTTTATAGT
*
39212122 TTAAGGTTTATAGT
1 TTAGGGTTTATAGT
39212136 TTAGGGTTTA
1 TTAGGGTTTA
39212146 AGATTTACGG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTATAGT
Found at i:39212555 original size:21 final size:20
Alignment explanation
Indices: 39212515--39212552 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39212505 AATATATTGA
*
39212515 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
39212535 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
39212553 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:39213209 original size:17 final size:15
Alignment explanation
Indices: 39213175--39213203 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39213165 AAATTTGAAT
39213175 ATTGATAGTATTTAA
1 ATTGATAGTATTTAA
39213190 ATTGATAGTATTTA
1 ATTGATAGTATTTA
39213204 TAAATTTGAA
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:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTGATAGTATTTAA
Found at i:39213219 original size:16 final size:16
Alignment explanation
Indices: 39213157--39213226 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
39213147 CGCCGCAAAC
39213157 ATATTTATAAATTTGA
1 ATATTTATAAATTTGA
*
39213173 ATATTGATAGTATTTAAATTGA
1 ATATT--TA-TA---AATTTGA
39213195 TAGTATTTATAAATTTGA
1 -A-TATTTATAAATTTGA
*
39213213 ATATTTAGAAATTT
1 ATATTTATAAATTT
39213227 ATTAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
16 17 0.40
17 1 0.02
18 8 0.19
19 2 0.05
21 2 0.05
22 8 0.19
23 1 0.02
24 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATATTTATAAATTTGA
Found at i:39213249 original size:25 final size:24
Alignment explanation
Indices: 39213199--39213249 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
39213189 AATTGATAGT
* *
39213199 ATTTATAAATTTGAATATTTAGAA
1 ATTTATAAATTTGAATAATTAAAA
*
39213223 ATTTATTAAATTTGTATAATTAAAA
1 ATTTA-TAAATTTGAATAATTAAAA
39213248 AT
1 AT
39213250 AATATCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAATTTGAATAATTAAAA
Found at i:39215068 original size:9 final size:9
Alignment explanation
Indices: 39215054--39215747 Score: 204
Period size: 9 Copynumber: 79.4 Consensus size: 9
39215044 TTTTGTTATA
39215054 AACTTACAT
1 AACTTACAT
*
39215063 AACTTATAT
1 AACTTACAT
39215072 AATAGCTTACAT
1 -A-A-CTTACAT
**
39215084 AACTTATTT
1 AACTTACAT
39215093 AAACTTACAT
1 -AACTTACAT
*
39215103 AA--TACAA
1 AACTTACAT
39215110 AACTTA-AT
1 AACTTACAT
** **
39215118 TCCAGA-AT
1 AACTTACAT
39215126 AACTTACAT
1 AACTTACAT
*
39215135 AACTTATAT
1 AACTTACAT
*
39215144 AGAAACTTATATAT
1 ---AAC-T-TACAT
*
39215158 AAACTTGCAT
1 -AACTTACAT
39215168 AACTTACATAGT
1 AACTTAC--A-T
*
39215180 AACATA-AT
1 AACTTACAT
*
39215188 AAATTACAT
1 AACTTACAT
39215197 AA--TACAT
1 AACTTACAT
*
39215204 AA-TAACAT
1 AACTTACAT
39215212 AA--TACAT
1 AACTTACAT
*
39215219 AACTTATATAT
1 AAC-T-TACAT
*
39215230 AAGCTTGCAT
1 AA-CTTACAT
39215240 AACTTACATAAT
1 AACTTAC---AT
39215252 AACTTACAT
1 AACTTACAT
39215261 AACTTACAT
1 AACTTACAT
*
39215270 AA--TACAC
1 AACTTACAT
*
39215277 CACTTACAT
1 AACTTACAT
39215286 AACTTACAT
1 AACTTACAT
*
39215295 AGCTTACAT
1 AACTTACAT
* *
39215304 -TC-TACAC
1 AACTTACAT
39215311 AACTTACAT
1 AACTTACAT
*
39215320 AACATACAT
1 AACTTACAT
*
39215329 AA--TACAG
1 AACTTACAT
39215336 AACTTACAT
1 AACTTACAT
**
39215345 AAAATA-A-
1 AACTTACAT
39215352 AACTTACAT
1 AACTTACAT
*
39215361 ATCTTACAT
1 AACTTACAT
39215370 AA--TACAT
1 AACTTACAT
39215377 AACTTACAT
1 AACTTACAT
*
39215386 AA--TACAG
1 AACTTACAT
* * *
39215393 CACTTGCAC
1 AACTTACAT
*
39215402 AACTTAAAT
1 AACTTACAT
*
39215411 AACTTGCAT
1 AACTTACAT
39215420 AA--TACAT
1 AACTTACAT
* *
39215427 AGCCTACAT
1 AACTTACAT
*
39215436 AACTTATAT
1 AACTTACAT
* *
39215445 AGCTTTCAT
1 AACTTACAT
**
39215454 AAAATAC--
1 AACTTACAT
39215461 AACTTACAT
1 AACTTACAT
**
39215470 ATTTTACAT
1 AACTTACAT
*
39215479 AAAACTTATAT
1 --AACTTACAT
39215490 AA--TACAT
1 AACTTACAT
39215497 AACTTACAT
1 AACTTACAT
39215506 AAC--ACA-
1 AACTTACAT
* *
39215512 ACACTTGCAC
1 A-ACTTACAT
*
39215522 AACTTAAAT
1 AACTTACAT
*
39215531 AACTTGCAT
1 AACTTACAT
39215540 AA--TACAT
1 AACTTACAT
* *
39215547 AGCCTACAT
1 AACTTACAT
*
39215556 AACTTATAT
1 AACTTACAT
* *
39215565 AACTTTCAC
1 AACTTACAT
**
39215574 AAAATAC--
1 AACTTACAT
39215581 AACTTACAT
1 AACTTACAT
*
39215590 ATCTTACAT
1 AACTTACAT
*
39215599 AAAACTTATAT
1 --AACTTACAT
39215610 AA--TACAT
1 AACTTACAT
*
39215617 AACTTATAT
1 AACTTACAT
39215626 AA--TACA-
1 AACTTACAT
*
39215632 ACACTTACAC
1 A-ACTTACAT
*
39215642 AACTTAAAT
1 AACTTACAT
*
39215651 AACTTGCAT
1 AACTTACAT
39215660 AA--TACAT
1 AACTTACAT
* *
39215667 AGCCTACAT
1 AACTTACAT
*
39215676 AACTTATAT
1 AACTTACAT
*
39215685 -A-GTACAT
1 AACTTACAT
39215692 AACTTACAT
1 AACTTACAT
* *
39215701 AATTTACTT
1 AACTTACAT
39215710 AA--TACAT
1 AACTTACAT
* *
39215717 AA-ATATAT
1 AACTTACAT
* *
39215725 ATCATATCAT
1 AACTTA-CAT
39215735 AACTTACAT
1 AACTTACAT
39215744 AACT
1 AACT
39215748 CATTTAATTT
Statistics
Matches: 495, Mismatches: 122, Indels: 136
0.66 0.16 0.18
Matches are distributed among these distances:
6 2 0.00
7 106 0.21
8 29 0.06
9 274 0.55
10 25 0.05
11 24 0.05
12 29 0.06
13 1 0.00
14 5 0.01
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:39215081 original size:21 final size:19
Alignment explanation
Indices: 39215050--39215104 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 19
39215040 AAATTTTTGT
39215050 TATAAACTTACATAACTTA
1 TATAAACTTACATAACTTA
39215069 TATAATAGCTTACATAACTTA
1 TATAA-A-CTTACATAACTTA
*
39215090 TTTAAACTTACATAA
1 TATAAACTTACATAA
39215105 TACAAAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 14 0.42
20 2 0.06
21 17 0.52
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (19 bp):
TATAAACTTACATAACTTA
Found at i:39215194 original size:20 final size:19
Alignment explanation
Indices: 39215166--39215208 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
39215156 ATAAACTTGC
* *
39215166 ATAACTTACATAGTAACATA
1 ATAAATTACATAAT-ACATA
39215186 ATAAATTACATAATACATA
1 ATAAATTACATAATACATA
39215205 ATAA
1 ATAA
39215209 CATAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAATTACATAATACATA
Found at i:39215213 original size:15 final size:15
Alignment explanation
Indices: 39215172--39215220 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
39215162 TTGCATAACT
*
39215172 TACATAGTAACATAA
1 TACATAATAACATAA
*
39215187 T--A-AATTACATAA
1 TACATAATAACATAA
39215199 TACATAATAACATAA
1 TACATAATAACATAA
39215214 TACATAA
1 TACATAA
39215221 CTTATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.32
13 1 0.04
14 1 0.04
15 17 0.61
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (15 bp):
TACATAATAACATAA
Found at i:39215281 original size:25 final size:21
Alignment explanation
Indices: 39215166--39215295 Score: 115
Period size: 21 Copynumber: 6.0 Consensus size: 21
39215156 ATAAACTTGC
* *
39215166 ATAACTTACAT-AGTAACATA
1 ATAACTTACATAACTTACATA
*
39215186 ATAAATTACATAA--TACATA
1 ATAACTTACATAACTTACATA
*
39215205 ATAACATAATACATAACTTATAT-
1 ATAAC-T--TACATAACTTACATA
*
39215228 ATAAGCTTGCATAACTTACATA
1 ATAA-CTTACATAACTTACATA
39215250 ATAACTTACATAACTTACATA
1 ATAACTTACATAACTTACATA
39215271 ATACACCACTTACATAACTTACATA
1 AT--A--ACTTACATAACTTACATA
39215296 GCTTACATTC
Statistics
Matches: 91, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
19 9 0.10
20 11 0.12
21 31 0.34
22 11 0.12
23 6 0.07
24 5 0.05
25 18 0.20
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAACTTACATAACTTACATA
Found at i:39215293 original size:34 final size:34
Alignment explanation
Indices: 39215250--39215627 Score: 134
Period size: 34 Copynumber: 11.1 Consensus size: 34
39215240 AACTTACATA
*
39215250 ATAACTTACATAACTTACATAATACACCACTTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
* **
39215284 ATAACTTACATAGCTTACATTCTACACAACTTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
* * * **
39215318 ATAACATACATAA--TACAGAACTTACATAAAATA-
1 ATAACTTACATAACTTACATAA--TACACAACTTAC
* *
39215351 A-AACTTACATATCTTACATAATACATAACTTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
** * * * * *
39215384 ATAA--TACAGCACTTGCACAACTTAAATAACTTGC
1 ATAACTTACATAACTTACATAA--TACACAACTTAC
* * * * * *
39215418 ATAA--TACATAGCCTACATAACTTATATAGCTTTC
1 ATAACTTACATAACTTACATAA--TACACAACTTAC
** * * *
39215452 ATAAAATAC--AACTTACATATTTTACATAAAACTTAT
1 ATAACTTACATAACTTACATA--ATAC--ACAACTTAC
* *
39215488 ATAA--TACATAACTTACATAACACA-ACACTTGC
1 ATAACTTACATAACTTACATAATACACA-ACTTAC
* * * * * *
39215520 ACAACTTAAATAACTTGCATAATACATAGCCTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
* * * * *
39215554 ATAACTTATATAACTTTCACAAAATACAACTTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
* * * *
39215588 ATATCTTACATAAAACTTATATAATACATAACTTAT
1 ATAACTTACAT--AACTTACATAATACACAACTTAC
39215624 ATAA
1 ATAA
39215628 TACAACACTT
Statistics
Matches: 251, Mismatches: 71, Indels: 42
0.69 0.20 0.12
Matches are distributed among these distances:
31 1 0.00
32 41 0.16
33 2 0.01
34 165 0.66
35 1 0.00
36 41 0.16
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (34 bp):
ATAACTTACATAACTTACATAATACACAACTTAC
Found at i:39215309 original size:25 final size:25
Alignment explanation
Indices: 39215281--39215346 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
39215271 ATACACCACT
* * * **
39215281 TACATAACTTACATAGCTTACATTC
1 TACACAACTTACATAACATACATAA
39215306 TACACAACTTACATAACATACATAA
1 TACACAACTTACATAACATACATAA
*
39215331 TACAGAACTTACATAA
1 TACACAACTTACATAA
39215347 AATAAAACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (25 bp):
TACACAACTTACATAACATACATAA
Found at i:39215334 original size:16 final size:16
Alignment explanation
Indices: 39215186--39215745 Score: 143
Period size: 16 Copynumber: 32.8 Consensus size: 16
39215176 TAGTAACATA
*
39215186 ATAAATTACATAATAC
1 ATAACTTACATAATAC
*
39215202 ATAA-TAACATAATAC
1 ATAACTTACATAATAC
* *
39215217 ATAACTTATATATAAGCTTGC
1 ATAAC-T-TACATAA---TAC
39215238 ATAACTTACATAATAACTTAC
1 ATAACTTAC---ATAA--TAC
39215259 ATAACTTACATAATAC
1 ATAACTTACATAATAC
**
39215275 ACCACTTACATAACTTAC
1 ATAACTTACATAA--TAC
* **
39215293 ATAGCTTACATTCTAC
1 ATAACTTACATAATAC
*
39215309 ACAACTTACATAACATAC
1 ATAACTTACAT-A-ATAC
*
39215327 ATAA--TACAGAACTTAC
1 ATAACTTACATAA--TAC
**
39215343 ATAAAATA-A-AACTTAC
1 ATAACTTACATAA--TAC
*
39215359 ATATCTTACATAATAC
1 ATAACTTACATAATAC
39215375 ATAACTTACATAATAC
1 ATAACTTACATAATAC
** * * *
39215391 AGCACTTGCACAACTTAA
1 ATAACTTACATAA--TAC
*
39215409 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* * *
39215425 ATAGCCTACATAACTTAT
1 ATAACTTACATAA--TAC
* * * *
39215443 ATAGCTTTCATAAAAT
1 ATAACTTACATAATAC
* *
39215459 ACAACTTACATATTTTAC
1 ATAACTTACATA--ATAC
*
39215477 ATAAAACTTATATAATAC
1 AT--AACTTACATAATAC
*
39215495 ATAACTTACATAACAC
1 ATAACTTACATAATAC
* * *
39215511 A-ACACTTGCACAACTTAA
1 ATA-ACTTACATAA--TAC
*
39215529 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* * *
39215545 ATAGCCTACATAACTTAT
1 ATAACTTACATAA--TAC
*
39215563 ATAACTTTCACAAAATAC
1 ATAAC-TT-ACATAATAC
*
39215581 --AACTTACATATCTTAC
1 ATAACTTACATA--ATAC
*
39215597 ATAAAACTTATATAATAC
1 AT--AACTTACATAATAC
*
39215615 ATAACTTATATAATAC
1 ATAACTTACATAATAC
* *
39215631 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
*
39215649 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* * *
39215665 ATAGCCTACATAACT-T
1 ATAACTTACATAA-TAC
*
39215681 ATATA-GTACATAACTTAC
1 ATA-ACTTACATAA--TAC
* *
39215699 ATAATTTACTTAATAC
1 ATAACTTACATAATAC
* * *
39215715 ATAAATATATATCATATC
1 ATAACT-TACATAATA-C
39215733 ATAACTTACATAA
1 ATAACTTACATAA
39215746 CTCATTTAAT
Statistics
Matches: 401, Mismatches: 91, Indels: 103
0.67 0.15 0.17
Matches are distributed among these distances:
14 5 0.01
15 19 0.05
16 195 0.49
17 17 0.04
18 112 0.28
19 5 0.01
20 24 0.06
21 20 0.05
22 4 0.01
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:39215366 original size:25 final size:25
Alignment explanation
Indices: 39215338--39215386 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
39215328 TAATACAGAA
*
39215338 CTTACATAAAATAAAACTTACATAT
1 CTTACATAAAACAAAACTTACATAT
* *
39215363 CTTACATAATACATAACTTACATA
1 CTTACATAAAACAAAACTTACATA
39215387 ATACAGCACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (25 bp):
CTTACATAAAACAAAACTTACATAT
Found at i:39215530 original size:120 final size:120
Alignment explanation
Indices: 39215363--39215686 Score: 576
Period size: 120 Copynumber: 2.7 Consensus size: 120
39215353 ACTTACATAT
* *
39215363 CTTACATAATACATAACTTACATAATACAGCACTTGCACAACTTAAATAACTTGCATAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTGCACAACTTAAATAACTTGCATAATACATA
* *
39215428 GCCTACATAACTTATATAGCTTTCATAAAATACAACTTACATATTTTACATAAAA
66 GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
*
39215483 CTTATATAATACATAACTTACATAACACAACACTTGCACAACTTAAATAACTTGCATAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTGCACAACTTAAATAACTTGCATAATACATA
*
39215548 GCCTACATAACTTATATAACTTTCACAAAATACAACTTACATATCTTACATAAAA
66 GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
* *
39215603 CTTATATAATACATAACTTATATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTGCACAACTTAAATAACTTGCATAATACATA
39215668 GCCTACATAACTTATATAG
66 GCCTACATAACTTATATAG
39215687 TACATAACTT
Statistics
Matches: 194, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 194 1.00
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (120 bp):
CTTATATAATACATAACTTACATAATACAACACTTGCACAACTTAAATAACTTGCATAATACATA
GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
Found at i:39215677 original size:25 final size:25
Alignment explanation
Indices: 39215649--39215718 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
39215639 CACAACTTAA
* *
39215649 ATAACTTGCATAATACATAGCCTAC
1 ATAACTTACATAATACATAACCTAC
* * *
39215674 ATAACTTATATAGTACATAACTTAC
1 ATAACTTACATAATACATAACCTAC
* *
39215699 ATAATTTACTTAATACATAA
1 ATAACTTACATAATACATAA
39215719 ATATATATCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.34
Consensus pattern (25 bp):
ATAACTTACATAATACATAACCTAC
Found at i:39221736 original size:43 final size:41
Alignment explanation
Indices: 39221614--39221757 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 41
39221604 AATCCCAAAA
* * * * *
39221614 TTAGCGGCATTTGTGGAAAATTGCTGCTAAAGAGCATGACCT
1 TTAGCGGCGTTTGTGAAAAAATGCCGCTAAAGAACATGA-CT
* * * *
39221656 TTATCAGCGTTTGTGGAAAAAAAACGCCGCTAAAGAACATTACTT
1 TTAGCGGCGTTTGT-G--AAAAAATGCCGCTAAAGAACATGAC-T
*
39221701 TTAGCGGCGTTTGTGAATAAAGTGCCGCTAAAGAACATGAGCT
1 TTAGCGGCGTTTGTGAA-AAAATGCCGCTAAAGAACATGA-CT
39221744 TTAGCGGCGTTTGT
1 TTAGCGGCGTTTGT
39221758 TGGTAGGCGC
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 13 0.16
43 35 0.43
44 3 0.04
45 31 0.38
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGTTTGTGAAAAAATGCCGCTAAAGAACATGACT
Found at i:39221830 original size:42 final size:42
Alignment explanation
Indices: 39221639--39221921 Score: 178
Period size: 41 Copynumber: 6.7 Consensus size: 42
39221629 GAAAATTGCT
* * * ** *
39221639 GCTAAAGAGCATGACCTTTATCAGCGTTTGTGGAAAAAAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGTTT-T-G-AAGGAAGCGCC
* * ** *
39221684 GCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGTGCC
1 GCTAAAGAACATGACCTTTAGCGGCGTTT-TGAAGGAAGCGCC
* ** *
39221727 GCTAAAGAACATGAGCTTTAGCGGCG-TTTGTTGGTAGGCGCC
1 GCTAAAGAACATGACCTTTAGCGGCGTTTTGAAGG-AAGCGCC
* ** ** * * *
39221769 GCTATAGGTCATGTTCTTTAGCGGTGTTTCCG-AGGAAGAGCC
1 GCTAAAGAACATGACCTTTAGCGGCGTTT-TGAAGGAAGCGCC
*** *
39221811 GCTAAAGAACATGACCTTTAGCGGCGTTTT-TTTGAAGCGTC
1 GCTAAAGAACATGACCTTTAGCGGCGTTTTGAAGGAAGCGCC
* **** *
39221852 GCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTTAAGCGCT
1 GCTAAAGAACATGACCTTTAGCGGCGTTTTGAAGGAAGCGCC
*
39221893 GCTAAAGAACATGACCTTTAGCTGCGTTT
1 GCTAAAGAACATGACCTTTAGCGGCGTTT
39221922 ATTTCTTTAA
Statistics
Matches: 190, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
41 72 0.38
42 55 0.29
43 35 0.18
44 2 0.01
45 26 0.14
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
GCTAAAGAACATGACCTTTAGCGGCGTTTTGAAGGAAGCGCC
Found at i:39221859 original size:41 final size:41
Alignment explanation
Indices: 39221680--39221921 Score: 214
Period size: 41 Copynumber: 5.8 Consensus size: 41
39221670 GGAAAAAAAA
* * ** *
39221680 CGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-T-TTTGAAG
* * * * *
39221723 TGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTTGGTAGG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTG-AAG
* ** ** * ****
39221765 CGCCGCTATAGGTCATGTTCTTTAGCGGTGTTTCCGAGGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-TTTTGAAG
*
39221807 AGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAG
* * *
39221848 CGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAG
* *
39221889 CGCTGCTAAAGAACATGACCTTTAGCTGCGTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
39221922 ATTTCTTTAA
Statistics
Matches: 157, Mismatches: 40, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
41 70 0.45
42 56 0.36
43 31 0.20
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAG
Found at i:39223908 original size:20 final size:21
Alignment explanation
Indices: 39223867--39223904 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
39223857 ATATTCTATC
39223867 TAGTTGAAAAAAATCTTTACT
1 TAGTTGAAAAAAATCTTTACT
*
39223888 TAGTT-AAAATAAT-TTTA
1 TAGTTGAAAAAAATCTTTA
39223905 ACTTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 7 0.44
21 5 0.31
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (21 bp):
TAGTTGAAAAAAATCTTTACT
Found at i:39224283 original size:10 final size:10
Alignment explanation
Indices: 39224268--39224297 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
39224258 AATATCAATC
39224268 AATTTACCTT
1 AATTTACCTT
*
39224278 AATTTACCTC
1 AATTTACCTT
39224288 AATTTACCTT
1 AATTTACCTT
39224298 TTCTTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTTACCTT
Found at i:39225737 original size:20 final size:20
Alignment explanation
Indices: 39225673--39225741 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
39225663 AAGTCCTAAG
* * **
39225673 GTATTGATATTTTTTTACGA
1 GTATCGATATTTTTATAAAA
*
39225693 GTATCGACATTTTTATAAAA
1 GTATCGATATTTTTATAAAA
*
39225713 GTATCGATATTTTT-TAAAT
1 GTATCGATATTTTTATAAAA
39225732 GATATCGATA
1 G-TATCGATA
39225742 CCAAATTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 5 0.12
20 36 0.88
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (20 bp):
GTATCGATATTTTTATAAAA
Found at i:39231441 original size:21 final size:21
Alignment explanation
Indices: 39231412--39231458 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
39231402 CTGAAATATA
*
39231412 GATACTAGGAAAATTTTTATC
1 GATACTAGGAAAAATTTTATC
*
39231433 GATATTAGGAAAAATTTTATC
1 GATACTAGGAAAAATTTTATC
39231454 GATAC
1 GATAC
39231459 CGGATCGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (21 bp):
GATACTAGGAAAAATTTTATC
Found at i:39232668 original size:9 final size:9
Alignment explanation
Indices: 39232656--39232694 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
39232646 CTTCAATTAC
39232656 ATAAATTGA
1 ATAAATTGA
*
39232665 AT-AATTGC
1 ATAAATTGA
39232673 ATAAATTGA
1 ATAAATTGA
*
39232682 ATAAATTTA
1 ATAAATTGA
39232691 ATAA
1 ATAA
39232695 TTGCTAGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (9 bp):
ATAAATTGA
Found at i:39232675 original size:17 final size:17
Alignment explanation
Indices: 39232650--39232685 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
39232640 AACCAACTTC
39232650 AATTACATAAATTGAAT
1 AATTACATAAATTGAAT
*
39232667 AATTGCATAAATTGAAT
1 AATTACATAAATTGAAT
39232684 AA
1 AA
39232686 ATTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (17 bp):
AATTACATAAATTGAAT
Found at i:39238388 original size:46 final size:46
Alignment explanation
Indices: 39238288--39238448 Score: 198
Period size: 46 Copynumber: 3.5 Consensus size: 46
39238278 GAGGGTGTCG
* * *
39238288 TAGTGTCTTTTAACCATGGTCTTATTTATTCT-CGACTTGATGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
39238333 TAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
39238379 TAGTGTCTTTCAACTATGGTCTTATTTATTCTCCGTCTTGTTTCCG
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
** * *
39238425 TAACGTCTTTCAGCTATGGTCTTA
1 TAGTGTCTTTCAACCATGGTCTTA
39238449 ATCGATAGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 29 0.29
46 71 0.71
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (46 bp):
TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
Found at i:39238487 original size:45 final size:45
Alignment explanation
Indices: 39238425--39238587 Score: 236
Period size: 45 Copynumber: 3.6 Consensus size: 45
39238415 CTTGTTTCCG
*
39238425 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCA
* ** **
39238470 TAACGCCTTTCCTCTATGGTCTTACTCGATAGAATTTTGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCA
* * *
39238515 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCA
*
39238560 TAACGTCTTTTAGCTATGGTCTTACTCG
1 TAACGTCTTTCAGCTATGGTCTTACTCG
39238588 TTTCTAGTAT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 102 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (45 bp):
TAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCA
Found at i:39238604 original size:90 final size:90
Alignment explanation
Indices: 39238425--39238624 Score: 238
Period size: 90 Copynumber: 2.2 Consensus size: 90
39238415 CTTGTTTCCG
**
39238425 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCCTCTATGGT
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
* * *
39238490 CTTACTCGATAGAATTTTGATGCCA
66 CTTACTCGATACAAGTATGATGCCA
* * * * * *
39238515 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCATAACGTCTTTTAGCTATGGT
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
* * * *
39238580 CTTACTCGTTTCTAGTATGGTGCCA
66 CTTACTCGATACAAGTATGATGCCA
** *
39238605 TAGTGTCTTTCAACTATGGT
1 TAACGTCTTTCAGCTATGGT
39238625 ATTATCTATT
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (90 bp):
TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
CTTACTCGATACAAGTATGATGCCA
Found at i:39239281 original size:21 final size:20
Alignment explanation
Indices: 39239257--39239296 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
39239247 CAAAAACATT
* *
39239257 GGAAACATTTGAAAAGTTTGA
1 GGAAAAATTAGAAAA-TTTGA
39239278 GGAAAAATTAGAAAATTTG
1 GGAAAAATTAGAAAATTTG
39239297 GACTATAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.28
Consensus pattern (20 bp):
GGAAAAATTAGAAAATTTGA
Found at i:39244903 original size:22 final size:21
Alignment explanation
Indices: 39244875--39244916 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39244865 CTTGGGATAT
39244875 CTTTAGGGGTATGTCGTGACAA
1 CTTTA-GGGTATGTCGTGACAA
* *
39244897 CTTTAGGTTATTTCGTGACA
1 CTTTAGGGTATGTCGTGACA
39244917 TCGAAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (21 bp):
CTTTAGGGTATGTCGTGACAA
Found at i:39245256 original size:50 final size:50
Alignment explanation
Indices: 39245173--39245389 Score: 238
Period size: 50 Copynumber: 4.3 Consensus size: 50
39245163 CAAATCATGG
* * * *
39245173 CACAAAGGCTTTACAAATAATACACCACCAAGGCTTTTCACAATG-TTAGG
1 CACAAAGGCTTTCCAAATAATACGCCACAAAGGCTTTTCACAA-GATTAGC
* * * * *
39245223 GACAAAGGCTTTCCATATAATATGTCATAAAGGCTTTTCACAAGATTAGC
1 CACAAAGGCTTTCCAAATAATACGCCACAAAGGCTTTTCACAAGATTAGC
* * * * *
39245273 CACAAAGACTTTCCAGATAATACGCCACAAATGTTTTTCACAAGATCAGC
1 CACAAAGGCTTTCCAAATAATACGCCACAAAGGCTTTTCACAAGATTAGC
* * * * *
39245323 CACAAAGGCTTTTCAAAATAATACACCACAAAGGCTTTTCAAAATATTAGT
1 CACAAAGGC-TTTCCAAATAATACGCCACAAAGGCTTTTCACAAGATTAGC
39245374 CACAAAGGCTTTCCAA
1 CACAAAGGCTTTCCAA
39245390 GTAAACTGTC
Statistics
Matches: 136, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
49 1 0.01
50 94 0.69
51 41 0.30
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (50 bp):
CACAAAGGCTTTCCAAATAATACGCCACAAAGGCTTTTCACAAGATTAGC
Found at i:39245279 original size:25 final size:25
Alignment explanation
Indices: 39245251--39245385 Score: 114
Period size: 25 Copynumber: 5.4 Consensus size: 25
39245241 AATATGTCAT
39245251 AAAGGCTTTTCACAAGATTAGCCAC
1 AAAGGCTTTTCACAAGATTAGCCAC
*
39245276 AAAGAC-TTTC-C-AGATAATACGCCAC
1 AAAGGCTTTTCACAAGAT--TA-GCCAC
* * *
39245301 AAATGTTTTTCACAAGATCAGCCAC
1 AAAGGCTTTTCACAAGATTAGCCAC
* * * *
39245326 AAAGGCTTTTCAAAATAATACACCAC
1 AAAGGCTTTTCACAAGATTA-GCCAC
* * *
39245352 AAAGGCTTTTCAAAATATTAGTCAC
1 AAAGGCTTTTCACAAGATTAGCCAC
39245377 AAAGGCTTT
1 AAAGGCTTT
39245386 CCAAGTAAAC
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
22 4 0.05
23 1 0.01
24 6 0.07
25 44 0.50
26 28 0.32
27 1 0.01
28 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (25 bp):
AAAGGCTTTTCACAAGATTAGCCAC
Found at i:39259205 original size:122 final size:122
Alignment explanation
Indices: 39258988--39259233 Score: 492
Period size: 122 Copynumber: 2.0 Consensus size: 122
39258978 CATAAGTGGG
39258988 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
1 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
39259053 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
66 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
39259110 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
1 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
39259175 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
66 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
39259232 TA
1 TA
39259234 TAGTAGTGAC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 124 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.17
Consensus pattern (122 bp):
TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
Found at i:39263083 original size:25 final size:25
Alignment explanation
Indices: 39263037--39263084 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
39263027 TGCACATAAG
*
39263037 TTTTTATGTGTATTTAATTTTTTTA
1 TTTTTATGTGTATTTAAGTTTTTTA
* * *
39263062 TTTTTGTGTTTATTTTAGTTTTT
1 TTTTTATGTGTATTTAAGTTTTT
39263085 ATGCATTTTT
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:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (25 bp):
TTTTTATGTGTATTTAAGTTTTTTA
Found at i:39267283 original size:16 final size:16
Alignment explanation
Indices: 39267262--39267292 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39267252 AAGGCACCTC
39267262 CACAATATCGTTTCAG
1 CACAATATCGTTTCAG
39267278 CACAATATCGTTTCA
1 CACAATATCGTTTCA
39267293 ATCTTTGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (16 bp):
CACAATATCGTTTCAG
Found at i:39285629 original size:49 final size:49
Alignment explanation
Indices: 39285575--39285673 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
39285565 GAAGTTAGGA
39285575 CCTTAAGGATAAATTCAATAATGTTTAACCATCAAACTAGTAAATCATT
1 CCTTAAGGATAAATTCAATAATGTTTAACCATCAAACTAGTAAATCATT
39285624 CCTTAAGGATAAATTCAATAATGTTTAACCATCAAACTAGTAAATCATT
1 CCTTAAGGATAAATTCAATAATGTTTAACCATCAAACTAGTAAATCATT
39285673 C
1 C
39285674 TTGATATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (49 bp):
CCTTAAGGATAAATTCAATAATGTTTAACCATCAAACTAGTAAATCATT
Found at i:39291295 original size:50 final size:50
Alignment explanation
Indices: 39291113--39291302 Score: 231
Period size: 50 Copynumber: 3.8 Consensus size: 50
39291103 TCTTGTACTA
* * * * * ** *
39291113 CCAATTCCATATCCCAGATATGGTCCTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* *
39291163 -CACATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTTGGTG
1 CCA-ATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTAGGTG
* *
39291213 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
*
39291263 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
39291303 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 3 0.02
50 115 0.95
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
Found at i:39300189 original size:25 final size:25
Alignment explanation
Indices: 39300156--39300240 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
39300146 GAGCTGTAAA
* *
39300156 CGGTAAGCTCATACAAGCTGAATAT
1 CGGTAAGCTCATGCGAGCTGAATAT
*
39300181 TGGTAAGCTCATGCGAGCTGAATAT
1 CGGTAAGCTCATGCGAGCTGAATAT
**
39300206 CGGTAAGCTCATGCGATTTGAATAT
1 CGGTAAGCTCATGCGAGCTGAATAT
39300231 CGGTAAGCTC
1 CGGTAAGCTC
39300241 TCTCGATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (25 bp):
CGGTAAGCTCATGCGAGCTGAATAT
Found at i:39302945 original size:56 final size:56
Alignment explanation
Indices: 39302884--39302996 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
39302874 AATTGTACTT
39302884 AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
1 AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
* *
39302940 AAATTATTAACATATTTAATTTTAATTAATTTTATAATAAATTTTCATAAATTTTG
1 AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
39302996 A
1 A
39302997 TTTATTTTCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (56 bp):
AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
Found at i:39303448 original size:43 final size:43
Alignment explanation
Indices: 39303311--39303604 Score: 376
Period size: 43 Copynumber: 6.9 Consensus size: 43
39303301 TTTTAGAAAT
* * * *
39303311 AAACGCCGCTATAGATCATGACTTTTAGTGGCGCTTTT-TCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
** *
39303353 AAACGCCGCTATAGATCAGGACCTTTAGCGGCAATTTT-ACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* **
39303395 AAACGCCGCTATAGATCAGGACCTTTAGCGGCTCTTTTTACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * *
39303438 AAACGCCGCTATAGATCAGGACCTTTACCTGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
39303481 AAACGCTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * *
39303524 AAACGCTGCTATAGATCAGGACCTTTAGTGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * *
39303567 AAACGCCGCTATAGATCATGACTTTTAGCAGCGTTTTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT
39303605 TAATAAATAT
Statistics
Matches: 227, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
42 72 0.32
43 155 0.68
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:39304091 original size:45 final size:46
Alignment explanation
Indices: 39304040--39304126 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 46
39304030 AATATATATT
*
39304040 ATGTAAGTTGTGTATAATA-TGATCAAGTTACGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATAATATTAATCAAGTTACGTAAGTTGTGTATA
* *
39304085 ATGTAAGTTGTGTATAATATTAATTAAGTTATGTAAGTTGTG
1 ATGTAAGTTGTGTATAATATTAATCAAGTTACGTAAGTTGTG
39304127 AGTAACAGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 19 0.50
46 19 0.50
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (46 bp):
ATGTAAGTTGTGTATAATATTAATCAAGTTACGTAAGTTGTGTATA
Found at i:39304092 original size:16 final size:16
Alignment explanation
Indices: 39304071--39304102 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39304061 ATCAAGTTAC
39304071 GTAAGTTGTGTATAAT
1 GTAAGTTGTGTATAAT
39304087 GTAAGTTGTGTATAAT
1 GTAAGTTGTGTATAAT
39304103 ATTAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTGTGTATAAT
Found at i:39304244 original size:15 final size:16
Alignment explanation
Indices: 39304213--39304249 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
39304203 TTTACATTGA
39304213 CCCAAATACAACCCTAG
1 CCCAAATAC-ACCCTAG
39304230 CCCAAATAC-CCCTAG
1 CCCAAATACACCCTAG
39304245 CCCAA
1 CCCAA
39304250 GACCACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.38, C:0.46, G:0.05, T:0.11
Consensus pattern (16 bp):
CCCAAATACACCCTAG
Found at i:39304579 original size:21 final size:21
Alignment explanation
Indices: 39304555--39304595 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39304545 TTGCAGTTTG
*
39304555 TTTTCT-TGGTTTTTTTCTTTT
1 TTTTCTCT-GTTTTTTCCTTTT
39304576 TTTTCTCTGTTTTTTCCTTT
1 TTTTCTCTGTTTTTTCCTTT
39304596 CTATTATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTCTCTGTTTTTTCCTTTT
Found at i:39305213 original size:18 final size:18
Alignment explanation
Indices: 39305198--39305234 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
39305188 TTAGTATTAT
39305198 TATTAGTATTATTATTTA
1 TATTAGTATTATTATTTA
39305216 TATTAGT-TTATATATTTA
1 TATTAGTATTAT-TATTTA
39305234 T
1 T
39305235 TTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTATTATTATTTA
Found at i:39305220 original size:12 final size:12
Alignment explanation
Indices: 39305182--39305213 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
39305172 GTTATCATCG
*
39305182 TTATCATTAGTA
1 TTATTATTAGTA
39305194 TTATTATTAGTA
1 TTATTATTAGTA
39305206 TTATTATT
1 TTATTATT
39305214 TATATTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (12 bp):
TTATTATTAGTA
Found at i:39305600 original size:23 final size:24
Alignment explanation
Indices: 39305550--39305622 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 24
39305540 TCACATGTAT
* *
39305550 TATTT-ATTTAAAATTGATAT-G-
1 TATTTAATTTAAATTTTATATAGA
*
39305571 TATTTTAATTTAATTTTTATATA-A
1 TA-TTTAATTTAAATTTTATATAGA
* *
39305595 TATTTACTTTAAATTTTATTTAGA
1 TATTTAATTTAAATTTTATATAGA
39305619 TATT
1 TATT
39305623 ACTATATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.05
22 3 0.07
23 29 0.71
24 7 0.17
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTTAATTTAAATTTTATATAGA
Found at i:39306695 original size:9 final size:9
Alignment explanation
Indices: 39306677--39306733 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
39306667 ATTGTGTATA
39306677 ATGTAAGTT
1 ATGTAAGTT
*
39306686 ATGAAAGTT
1 ATGTAAGTT
39306695 ATGT-A-TT
1 ATGTAAGTT
39306702 ATGTAAGTT
1 ATGTAAGTT
*
39306711 ATTTAAGTT
1 ATGTAAGTT
39306720 ATGTAAGTT
1 ATGTAAGTT
*
39306729 GTGTA
1 ATGTA
39306734 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.15
8 2 0.05
9 33 0.80
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:39306705 original size:25 final size:25
Alignment explanation
Indices: 39306671--39306724 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
39306661 TTCGACATTG
39306671 TGTATAATGTAAGTTATGAAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
* **
39306696 TGTATTATGTAAGTTATTTAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
39306721 TGTA
1 TGTA
39306725 AGTTGTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (25 bp):
TGTATAATGTAAGTTATGAAAGTTA
Found at i:39306820 original size:21 final size:21
Alignment explanation
Indices: 39306785--39306840 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
39306775 ACCCTTAAAA
*
39306785 CCCTAAATCTCTAAC-TCTTAAC
1 CCCTAAACCT-TAACTTC-TAAC
*
39306807 CCCTAACCCTTAACTTCTAAC
1 CCCTAAACCTTAACTTCTAAC
*
39306828 CTCTAAACCTTAA
1 CCCTAAACCTTAA
39306841 ATCCCAACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.30
Consensus pattern (21 bp):
CCCTAAACCTTAACTTCTAAC
Found at i:39307058 original size:24 final size:24
Alignment explanation
Indices: 39307031--39307086 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
39307021 TATATGAAAT
39307031 TATTTAATATATAAATTAAAAAAA
1 TATTTAATATATAAATTAAAAAAA
* *
39307055 TATTTAAAATATAAATTAAAAATA
1 TATTTAATATATAAATTAAAAAAA
*
39307079 TAATTAAT
1 TATTTAAT
39307087 CTAAATCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAAAA
Found at i:39307078 original size:13 final size:13
Alignment explanation
Indices: 39307039--39307085 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
39307029 ATTATTTAAT
39307039 ATATAAATTAAAA
1 ATATAAATTAAAA
* *
39307052 A-A-ATATTTAAA
1 ATATAAATTAAAA
39307063 ATATAAATTAAAA
1 ATATAAATTAAAA
39307076 ATAT-AATTAA
1 ATATAAATTAA
39307086 TCTAAATCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 8 0.29
12 8 0.29
13 12 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAATTAAAA
Found at i:39307145 original size:22 final size:22
Alignment explanation
Indices: 39307120--39307162 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
39307110 CCCATGAATC
39307120 CTTAAACCCTAAACCCCTAACT
1 CTTAAACCCTAAACCCCTAACT
**
39307142 CTTAGCCCCTAAACCCCTAAC
1 CTTAAACCCTAAACCCCTAAC
39307163 CCCTAACCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.21
Consensus pattern (22 bp):
CTTAAACCCTAAACCCCTAACT
Found at i:39307175 original size:22 final size:21
Alignment explanation
Indices: 39307124--39307178 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
39307114 TGAATCCTTA
* *
39307124 AACCCTAAACCCCTAACTCTT
1 AACCCTAAACCCCTAACCCCT
*
39307145 AGCCCCTAAACCCCTAACCCCT
1 A-ACCCTAAACCCCTAACCCCT
39307167 AACCACTAAACC
1 AACC-CTAAACC
39307179 TTATATCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.35, C:0.47, G:0.02, T:0.16
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Found at i:39307199 original size:21 final size:21
Alignment explanation
Indices: 39307173--39307218 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
39307163 CCCTAACCAC
*
39307173 TAAACCTTATATCCC-AAACCT
1 TAAACCATA-ATCCCTAAACCT
39307194 TAAACCATAATCCCTAAACCT
1 TAAACCATAATCCCTAAACCT
39307215 TAAA
1 TAAA
39307219 ATGTAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCATAATCCCTAAACCT
Found at i:39307633 original size:41 final size:41
Alignment explanation
Indices: 39307572--39307680 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
39307562 CGACGCTTTT
* *
39307572 TTAGCGGCACTTTTCCAGAAACGCCGCTAAAGCCTCAAGCA
1 TTAGCGGCACTTTTCTAGAAACGCCGCTAAAGCCCCAAGCA
**
39307613 TTAGCGGCACTTTTCTAGAAACGCCGCTAAAGCCCCCCGCA
1 TTAGCGGCACTTTTCTAGAAACGCCGCTAAAGCCCCAAGCA
* *
39307654 TTAGCGGCGCTTTT-TCAAAAACGCCGC
1 TTAGCGGCACTTTTCT-AGAAACGCCGC
39307681 GATATCCCCC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.02
41 60 0.98
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (41 bp):
TTAGCGGCACTTTTCTAGAAACGCCGCTAAAGCCCCAAGCA
Found at i:39307690 original size:41 final size:41
Alignment explanation
Indices: 39307572--39307750 Score: 144
Period size: 41 Copynumber: 4.4 Consensus size: 41
39307562 CGACGCTTTT
* * * * * *
39307572 TTAGCGGCACTTTTCCAGAAACGCCGCTAAAGCCTCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCGAAAGCCCCCAGCA
* * * *
39307613 TTAGCGGCAC-TTTTCTAGAAACGCCGCTAAAGCCCCCCGCA
1 TTAGCGGCGCTTTTTC-AAAAACGCCGCGAAAGCCCCCAGCA
* * *
39307654 TTAGCGGCGCTTTTTCAAAAACGCCGCGATATCCCCCATCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCGAAAGCCCCCAGCA
* * * * * ****
39307695 TTAGCGGTGCTTTTTAAAAAACGCTGCTAAATCTTTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCGAAAGCCCCCAGCA
39307736 TTAGCGGCGCTTTTT
1 TTAGCGGCGCTTTTT
39307751 TGAAAATGCC
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 4 0.04
41 105 0.92
42 5 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCGAAAGCCCCCAGCA
Found at i:39311639 original size:17 final size:16
Alignment explanation
Indices: 39311614--39311658 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
39311604 ATTACAAAAA
39311614 TAATATAAGAGCTTGTT
1 TAATATAAG-GCTTGTT
* *
39311631 TAATTTAAGGCTTTTT
1 TAATATAAGGCTTGTT
39311647 TAATATATAGGC
1 TAATATA-AGGC
39311659 ATTGAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (16 bp):
TAATATAAGGCTTGTT
Found at i:39311648 original size:16 final size:17
Alignment explanation
Indices: 39311614--39311653 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
39311604 ATTACAAAAA
39311614 TAATATAAGAGCTTGTT
1 TAATATAAGAGCTTGTT
* *
39311631 TAATTTAAG-GCTTTTT
1 TAATATAAGAGCTTGTT
39311647 TAATATA
1 TAATATA
39311654 TAGGCATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (17 bp):
TAATATAAGAGCTTGTT
Found at i:39312564 original size:57 final size:55
Alignment explanation
Indices: 39312480--39312690 Score: 189
Period size: 57 Copynumber: 3.8 Consensus size: 55
39312470 AAAAAAAAAG
* *
39312480 AAAAAAAAATTGTTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTTTACGAGAA
1 AAAAAAAAATT-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
* * * *
39312536 AAAAAACAAATTTTTCGGGTGCTGGCCTGTTAATGGCCGGCACCA-ATATACGAAAAA
1 AAAAAA-AAATTTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACG-AGAA
** * *
39312593 ATTAAAAAAATATTTTTTTTGTGGTGGCCTGTCAATGGCCGGCAACACCTTTACG-G--
1 A--AAAAAAA-A-TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
* * **
39312649 GAAAAAAAA-TTTCGGGTATTGGCCTGTCAATGGCCGGCACCA
1 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCA
39312691 GTATACGAAA
Statistics
Matches: 126, Mismatches: 21, Indels: 21
0.75 0.12 0.12
Matches are distributed among these distances:
51 27 0.21
53 1 0.01
54 7 0.06
56 14 0.11
57 35 0.28
58 2 0.02
59 30 0.24
60 10 0.08
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (55 bp):
AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
Found at i:39312600 original size:116 final size:112
Alignment explanation
Indices: 39312470--39312717 Score: 284
Period size: 116 Copynumber: 2.2 Consensus size: 112
39312460 AGAAAACCAA
** *
39312470 AAAAAAAAAGAAAAAAAAATTGTTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTTTACGAGA
1 AAAAAAATTGAAAAAAAAATTGTTTGGGTGCTAGCCTGTCAATGGCCAGCAACACCTTTACG-G-
* *
39312535 AAAAAAACAAATTTTTCGGGTGCTGGCCTGTTAATGGCCGGCACCAATATACG
64 -AAAAAA-AAA--TTTCGGGTACTGGCCTGTCAATGGCCGGCACCAATATACG
* * ** * * * *
39312588 -AAAAAATT-AAAAAAATATTTTTTTTGTGGTGGCCTGTCAATGGCCGGCAACACCTTTACGGGA
1 AAAAAAATTGAAAAAAAAATTGTTTGGGTGCTAGCCTGTCAATGGCCAGCAACACCTTTACGGAA
* *
39312651 AAAAAAATTTCGGGTATTGGCCTGTCAATGGCCGGCACCAGTATACG
66 AAAAAAATTTCGGGTACTGGCCTGTCAATGGCCGGCACCAATATACG
39312698 AAAAAAATTGAAAAACAAAA
1 AAAAAAATTGAAAAA-AAAA
39312718 AAAAATTTTC
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
110 36 0.32
111 8 0.07
112 8 0.07
113 8 0.07
115 1 0.01
116 44 0.40
117 6 0.05
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (112 bp):
AAAAAAATTGAAAAAAAAATTGTTTGGGTGCTAGCCTGTCAATGGCCAGCAACACCTTTACGGAA
AAAAAAATTTCGGGTACTGGCCTGTCAATGGCCGGCACCAATATACG
Found at i:39312712 original size:110 final size:114
Alignment explanation
Indices: 39312503--39312712 Score: 293
Period size: 110 Copynumber: 1.9 Consensus size: 114
39312493 TTGGGTGCTA
* * *
39312503 GCCTGTCAATGGCCAGCACCACCTTTACGAGAAAAAAAACAAATTTTTCGGGTGCTGGCCTGTTA
1 GCCTGTCAATGGCCAGCAACACCTTTACGAG-AAAAAAACAAA-TTTTCGGGTACTGGCCTGTCA
39312568 ATGGCCGGCACCAATATACGAAAAAATTAAAAAAATATTTTTTTTGTGGTG
64 ATGGCCGGCACCAATATACGAAAAAATTAAAAAAATATTTTTTTTGTGGTG
* * *
39312619 GCCTGTCAATGGCCGGCAACACCTTTACG-G-GAAAAA-AAA-TTTCGGGTATTGGCCTGTCAAT
1 GCCTGTCAATGGCCAGCAACACCTTTACGAGAAAAAAACAAATTTTCGGGTACTGGCCTGTCAAT
* *
39312680 GGCCGGCACCAGTATACGAAAAAAATTGAAAAA
66 GGCCGGCACCAATATACG-AAAAAATTAAAAAA
39312713 CAAAAAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
110 36 0.42
111 13 0.15
112 3 0.04
113 5 0.06
115 1 0.01
116 27 0.32
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (114 bp):
GCCTGTCAATGGCCAGCAACACCTTTACGAGAAAAAAACAAATTTTCGGGTACTGGCCTGTCAAT
GGCCGGCACCAATATACGAAAAAATTAAAAAAATATTTTTTTTGTGGTG
Found at i:39312894 original size:51 final size:53
Alignment explanation
Indices: 39312787--39312907 Score: 183
Period size: 51 Copynumber: 2.3 Consensus size: 53
39312777 TTCGTATACT
*
39312787 GTGCCGGCCATTGACAGGCCAGCACCCGAAAAAAAAAATTTTCCCGTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACACCCGAAAAAAAAAA-TTTCCCGTAAAGGTG
* *
39312841 GTGCTGGCCATTGATAGGCCAACACCCG-AAAAAAAAA-TTCCCGTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACACCCGAAAAAAAAAATTTCCCGTAAAGGTG
*
39312892 GTGCCGGTCATTGACA
1 GTGCCGGCCATTGACA
39312908 ATCCACCACC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 27 0.44
53 9 0.15
54 25 0.41
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (53 bp):
GTGCCGGCCATTGACAGGCCAACACCCGAAAAAAAAAATTTCCCGTAAAGGTG
Found at i:39312924 original size:51 final size:52
Alignment explanation
Indices: 39312787--39312924 Score: 161
Period size: 51 Copynumber: 2.6 Consensus size: 52
39312777 TTCGTATACT
* *
39312787 GTGCCGGCCATTGACAGGCCAGCACCCGAAAAAAAAAATTTTCCCGTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACA-CC-AAAAAAAAAATATTCCCGTAAAGGTG
* * **
39312841 GTGCTGGCCATTGATAGGCCAACACCCGAAAAAAAA-ATTCCCGTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAAAAATATTCCCGTAAAGGTG
* ** *
39312892 GTGCCGGTCATTGACAATCCACCACCAAAAAAA
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAA
39312925 TTTTCTTTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
51 39 0.56
52 8 0.11
53 2 0.03
54 21 0.30
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.17
Consensus pattern (52 bp):
GTGCCGGCCATTGACAGGCCAACACCAAAAAAAAAATATTCCCGTAAAGGTG
Found at i:39313024 original size:53 final size:52
Alignment explanation
Indices: 39312961--39313263 Score: 180
Period size: 53 Copynumber: 5.6 Consensus size: 52
39312951 TACTGGTACT
* *
39312961 GGCCATTGACAGGTCAGCACCCGAAAAAAAGAATTTCCCGTAAAGGTGGTGCC
1 GGCCATTGACAGGCCAGCACCCGAAAAAAA-AATTTCTCGTAAAGGTGGTGCC
* * * * * * *
39313014 GGCCATTGACAAGCCACCACCAAGAAAATTTTTTTTAAAATTTTTTCGTATA-CTGGTGCC
1 GGCCATTGACAGGCCAGCACC-CGAAAA--------AAAAATTTCTCGTAAAGGTGGTGCC
* * * * * *
39313074 TTGCTATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTC
1 -GGCCATTGACAGGCCAGCACCCGAAAAAAA-AATTTCTCGTAAAGGTGGTGCC
* * * * ** * * * *
39313128 GACCATTAACAGGTCACCACCAAAAAAAAATTTAATTTTTTTCGTATA-CTGGTGAC
1 GGCCATTGACAGGCCAGCACCCGAAAAAAA---AA--TTTCTCGTAAAGGTGGTGCC
*
39313184 GGCCATTGACAGGCCAGCACCCGAAAAAAAAATTTCTCGTAAAGGTGGTGTC
1 GGCCATTGACAGGCCAGCACCCGAAAAAAAAATTTCTCGTAAAGGTGGTGCC
* *
39313236 GGTCATTGACAGGCCAGTACCC-AAAAAA
1 GGCCATTGACAGGCCAGCACCCGAAAAAA
39313264 TTTTTTTTTT
Statistics
Matches: 188, Mismatches: 45, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
51 15 0.08
52 29 0.15
53 52 0.28
54 11 0.06
55 3 0.02
56 30 0.16
57 9 0.05
60 11 0.06
61 25 0.13
62 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (52 bp):
GGCCATTGACAGGCCAGCACCCGAAAAAAAAATTTCTCGTAAAGGTGGTGCC
Found at i:39313031 original size:117 final size:113
Alignment explanation
Indices: 39312839--39313271 Score: 504
Period size: 114 Copynumber: 3.8 Consensus size: 113
39312829 CCCGTAAAGG
* *
39312839 TGGTG-CTGGCCATTGATAGGCCAACACCCGAAAAAAAAA-TTCCCGTAAAGGTGGTGCCGGTCA
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCA
*
39312902 TTGACAATCCACCACCAAAAAAATTTTCTTTTTTTAAATTTTTTTCGTATAC
66 TTGACAAGCCACCACCAAAAAAA---T-TTTTTTTAAATTTTTTTCGTATAC
* *
39312954 TGGT-ACTGGCCATTGACAGGTCAGCACCCGAAAAAAAGAATTTCCCGTAAAGGTGGTGCCGGCC
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAA-AATTTCCCGTAAAGGTGGTGCCGGCC
* *
39313018 ATTGACAAGCCACCACCAAGAAAATTTTTTTTAAAATTTTTTCGTATAC
65 ATTGACAAGCCACCACCAAAAAAATTTTTTTTAAATTTTTTTCGTATAC
* * * * * * * *
39313067 TGGTGCCTTGCTATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGACC
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAA-AATTTCCCGTAAAGGTGGTGCCGGCC
* * * **
39313132 ATTAACAGGTCACCACCAAAAAAA---AATTT-AATTTTTTTCGTATAC
65 ATTGACAAGCCACCACCAAAAAAATTTTTTTTAAATTTTTTTCGTATAC
* * * *
39313177 TGGTGAC-GGCCATTGACAGGCCAGCACCCGAAAAAAAAATTTCTCGTAAAGGTGGTGTCGGTCA
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCA
* ** *
39313241 TTGACAGGCCAGTACCCAAAAAATTTTTTTT
66 TTGACAAGCCACCACCAAAAAAATTTTTTTT
39313272 TTTGGGTTTT
Statistics
Matches: 271, Mismatches: 40, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
108 43 0.16
109 25 0.09
110 21 0.08
111 6 0.02
113 27 0.10
114 70 0.26
115 33 0.12
116 2 0.01
117 44 0.16
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (113 bp):
TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCA
TTGACAAGCCACCACCAAAAAAATTTTTTTTAAATTTTTTTCGTATAC
Found at i:39313246 original size:52 final size:53
Alignment explanation
Indices: 39313079--39313263 Score: 194
Period size: 52 Copynumber: 3.5 Consensus size: 53
39313069 GTGCCTTGCT
* * *
39313079 ATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGACC
1 ATTGACAGGCCAGCACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGGCC
* * * * * * * *
39313132 ATTAACAGGTCACCACCAAAAAAAAATTTAATTTTTTTCGTATA-CTGGTGACGGCC
1 ATTGACAGGCCAGCACCCAAAAAAAA--TAA--TTTCTCGTAAAGGTGGTGTCGGCC
* *
39313188 ATTGACAGGCCAGCACCCGAAAAAAA-AATTTCTCGTAAAGGTGGTGTCGGTC
1 ATTGACAGGCCAGCACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGGCC
*
39313240 ATTGACAGGCCAGTACCCAAAAAA
1 ATTGACAGGCCAGCACCCAAAAAA
39313264 TTTTTTTTTT
Statistics
Matches: 105, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
51 9 0.09
52 31 0.30
53 23 0.22
55 3 0.03
56 30 0.29
57 9 0.09
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (53 bp):
ATTGACAGGCCAGCACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGGCC
Found at i:39315343 original size:15 final size:15
Alignment explanation
Indices: 39315320--39315349 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39315310 AAATGGCCAC
*
39315320 TCGAGCGTATTTGAT
1 TCGAACGTATTTGAT
39315335 TCGAACGTATTTGAT
1 TCGAACGTATTTGAT
39315350 AACCATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (15 bp):
TCGAACGTATTTGAT
Found at i:39320281 original size:8 final size:8
Alignment explanation
Indices: 39320270--39320317 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 8
39320260 TTTTTTCCAT
39320270 AATAAAAA
1 AATAAAAA
39320278 AATAAATAA
1 AATAAA-AA
39320287 AATAAAAA
1 AATAAAAA
39320295 AATAAGAAA
1 AATAA-AAA
39320304 ACA-AATAAA
1 A-ATAA-AAA
39320313 AATAA
1 AATAA
39320318 CATCTACCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
8 14 0.40
9 20 0.57
10 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:39320296 original size:20 final size:20
Alignment explanation
Indices: 39320268--39320314 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
39320258 CTTTTTTTCC
* *
39320268 ATAATAAAAAAATAAATA-AA
1 ATAAAAAAAAAAGAAA-ACAA
*
39320288 ATAAAAAAATAAGAAAACAA
1 ATAAAAAAAAAAGAAAACAA
39320308 ATAAAAA
1 ATAAAAA
39320315 TAACATCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (20 bp):
ATAAAAAAAAAAGAAAACAA
Found at i:39325562 original size:12 final size:11
Alignment explanation
Indices: 39325526--39325563 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
39325516 ATTTTATTAT
39325526 TTTAATA-AAA
1 TTTAATATAAA
39325536 TTTAATATTAAA
1 TTTAATA-TAAA
39325548 TTTAATATAATA
1 TTTAATATAA-A
39325560 TTTA
1 TTTA
39325564 TCTTGATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 7 0.28
11 3 0.12
12 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTAATATAAA
Found at i:39334669 original size:23 final size:23
Alignment explanation
Indices: 39334638--39334688 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
39334628 ACCTTCTTTC
* * *
39334638 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTTGAGATA
39334661 TTACAGTAGTAATTTTTGAGATA
1 TTACAGTAGTAATTTTTGAGATA
39334684 TTACA
1 TTACA
39334689 ATGAGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTTGAGATA
Found at i:39335600 original size:5 final size:6
Alignment explanation
Indices: 39335590--39335675 Score: 53
Period size: 6 Copynumber: 15.0 Consensus size: 6
39335580 AGTAGTATTT
*
39335590 TATTAA T-TTAA TATTAAA GTGATT-A TCTTAA TATTAA -ATTTAA T-TTAA
1 TATTAA TATTAA TATT-AA -T-ATTAA TATTAA TATTAA TA-TTAA TATTAA
* *
39335638 TATTTA TCTTAA TA--AA TATT-A TATTAA T-TTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
39335676 AGTGATTAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
4 4 0.06
5 23 0.37
6 28 0.45
7 3 0.05
8 1 0.02
9 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:39335606 original size:11 final size:12
Alignment explanation
Indices: 39335590--39335675 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 12
39335580 AGTAGTATTT
39335590 TATTAAT-TTAA
1 TATTAATATTAA
39335601 TATTAAAGTGATT-A
1 TATT-AA-T-ATTAA
*
39335615 TCTTAATATTAA
1 TATTAATATTAA
39335627 -ATTTAAT-TTAA
1 TA-TTAATATTAA
* *
39335638 TATTTATCTTAA
1 TATTAATATTAA
39335650 TA--AATATT-A
1 TATTAATATTAA
39335659 TATTAAT-TTAA
1 TATTAATATTAA
39335670 TATTAA
1 TATTAA
39335676 AGTGATTAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 22
0.69 0.06 0.26
Matches are distributed among these distances:
9 3 0.05
10 6 0.10
11 25 0.42
12 16 0.27
13 3 0.05
14 4 0.07
15 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
TATTAATATTAA
Found at i:39335639 original size:68 final size:69
Alignment explanation
Indices: 39335549--39335683 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 69
39335539 TTTTAATAGT
* * *
39335549 TTAATATTAAATTAAATTTAATACTTATCTTAGT-AGTATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
39335613 TATC
66 TATC
* *
39335617 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
39335682 TA
66 TA
39335684 AGTTTAATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
68 31 0.51
69 30 0.49
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTAAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:39335683 original size:20 final size:18
Alignment explanation
Indices: 39335590--39335691 Score: 81
Period size: 20 Copynumber: 5.7 Consensus size: 18
39335580 AGTAGTATTT
39335590 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
39335608 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
*
39335628 T-TTAATTTAATATT-TA
1 TATTAATTTAATATTAAA
* *
39335644 TCTTAA-TAAATATT--A
1 TATTAATTTAATATTAAA
39335659 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
39335677 GTGATTAAGTTTAAT
1 -T-ATTAA-TTTAAT
39335692 TATAGTTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
15 6 0.09
16 16 0.23
17 14 0.20
18 3 0.04
19 5 0.07
20 19 0.28
21 6 0.09
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:39339630 original size:22 final size:21
Alignment explanation
Indices: 39339583--39339630 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
39339573 TTGCAATGCT
39339583 TTTATATTTTAATAATTGATTA
1 TTTATATTTTAAT-ATTGATTA
39339605 -TTATATATTTAAT-TTGATTTA
1 TTTATAT-TTTAATATTGA-TTA
39339626 TTTAT
1 TTTAT
39339631 TTATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.17
21 9 0.39
22 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTATATTTTAATATTGATTA
Found at i:39341497 original size:21 final size:21
Alignment explanation
Indices: 39341454--39341497 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
39341444 TTCAGCTTAC
* **
39341454 TTTTATGGGTTTTTCTTTTTT
1 TTTTATGGGTTTTGCTTACTT
*
39341475 TTTTTTGGGTTTTGCTTACTT
1 TTTTATGGGTTTTGCTTACTT
39341496 TT
1 TT
39341498 ATGTTAGTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.07, G:0.16, T:0.73
Consensus pattern (21 bp):
TTTTATGGGTTTTGCTTACTT
Found at i:39341766 original size:27 final size:27
Alignment explanation
Indices: 39341735--39341787 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
39341725 AACTATGTCG
39341735 TTGTATACTATTATCTTAATTTTTTCA
1 TTGTATACTATTATCTTAATTTTTTCA
*
39341762 TTGTATACTATTGTCTTAATTTTTTC
1 TTGTATACTATTATCTTAATTTTTTC
39341788 TTTCATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (27 bp):
TTGTATACTATTATCTTAATTTTTTCA
Done.