Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 144 of 332
Found at i:47305462 original size:11 final size:11
Alignment explanation
Indices: 47305446--47305475 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47305436 ATAAACTTAT
47305446 AAAAATTATAA
1 AAAAATTATAA
*
47305457 AAAAATCATAA
1 AAAAATTATAA
47305468 AAAAATTA
1 AAAAATTA
47305476 AATTGGACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:47306003 original size:13 final size:13
Alignment explanation
Indices: 47305987--47306012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47305977 ATAAAAATTT
47305987 TCTTAAATAACCA
1 TCTTAAATAACCA
47306000 TCTTAAATAACCA
1 TCTTAAATAACCA
47306013 ATCACAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
TCTTAAATAACCA
Found at i:47306352 original size:27 final size:27
Alignment explanation
Indices: 47306322--47306378 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
47306312 GTGCAGGAGT
*
47306322 GTGATGCC-TATCTGATAGGCGGCACCA
1 GTGA-GCCTTATCTGATAGGCGACACCA
*
47306349 GTGAGCCTTATCTGGTAGGCGACACCA
1 GTGAGCCTTATCTGATAGGCGACACCA
47306376 GTG
1 GTG
47306379 TATTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (27 bp):
GTGAGCCTTATCTGATAGGCGACACCA
Found at i:47306596 original size:25 final size:25
Alignment explanation
Indices: 47306543--47306590 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
47306533 TTTGTTAGTA
47306543 TTATATAGTTTGTTTATTTTTATTT
1 TTATATAGTTTGTTTATTTTTATTT
*
47306568 TTATATA-TTT-TTTA-ATTTATTT
1 TTATATAGTTTGTTTATTTTTATTT
47306590 T
1 T
47306591 GTTTATTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
24 3 0.14
25 7 0.32
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (25 bp):
TTATATAGTTTGTTTATTTTTATTT
Found at i:47307519 original size:22 final size:22
Alignment explanation
Indices: 47307494--47307538 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
47307484 CGAAATTGGA
47307494 GAATAAGAAAGCCATTGTTAGG
1 GAATAAGAAAGCCATTGTTAGG
47307516 GAATAAGAAAGCCATTGTTAGG
1 GAATAAGAAAGCCATTGTTAGG
47307538 G
1 G
47307539 CTTTGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.29, T:0.22
Consensus pattern (22 bp):
GAATAAGAAAGCCATTGTTAGG
Found at i:47308403 original size:24 final size:24
Alignment explanation
Indices: 47308376--47308447 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
47308366 CCGATATATC
*
47308376 AGCTCATAAGAGTTTACTATTTTT
1 AGCTCATAAGAGCTTACTATTTTT
* ** * *
47308400 AGCTCGTTGGAGCTTACT-GTTTC
1 AGCTCATAAGAGCTTACTATTTTT
*
47308423 AGCTCATAAGAGCTTCCTATTTTT
1 AGCTCATAAGAGCTTACTATTTTT
47308447 A
1 A
47308448 ACTTGTCAAA
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
23 17 0.49
24 18 0.51
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (24 bp):
AGCTCATAAGAGCTTACTATTTTT
Found at i:47308435 original size:23 final size:24
Alignment explanation
Indices: 47308374--47308437 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
47308364 TACCGATATA
* *
47308374 TCAGCTCATAAGAGTTTACTATTT
1 TCAGCTCATAAGAGCTTACTAGTT
* * **
47308398 TTAGCTCGTTGGAGCTTACT-GTT
1 TCAGCTCATAAGAGCTTACTAGTT
47308421 TCAGCTCATAAGAGCTT
1 TCAGCTCATAAGAGCTT
47308438 CCTATTTTTA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (24 bp):
TCAGCTCATAAGAGCTTACTAGTT
Found at i:47308461 original size:47 final size:47
Alignment explanation
Indices: 47308374--47308487 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
47308364 TACCGATATA
* * ***
47308374 TCAGCTCATAAGAGTTTACTATTTTTAGCTCGTTGGAGCTTA-CTGTT
1 TCAGCTCATAAGAGCTTACTATTTTTAACTCGTCAAAGCTTATC-GTT
* *
47308421 TCAGCTCATAAGAGCTTCCTATTTTTAACTTGTCAAAGCTTATCGTT
1 TCAGCTCATAAGAGCTTACTATTTTTAACTCGTCAAAGCTTATCGTT
*
47308468 TCAACTCA-ATAGAGCTTACT
1 TCAGCTCATA-AGAGCTTACT
47308488 GTCTATCAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.02
47 54 0.96
48 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (47 bp):
TCAGCTCATAAGAGCTTACTATTTTTAACTCGTCAAAGCTTATCGTT
Found at i:47308665 original size:22 final size:20
Alignment explanation
Indices: 47308623--47308666 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
47308613 TCAACGGGCA
*
47308623 TAAATATTGTTTATATGGAT
1 TAAATATTGTTTAAATGGAT
47308643 TAAATATTGTTTGCAAATGGAT
1 TAAATATTGTTT--AAATGGAT
47308665 TA
1 TA
47308667 TTGTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (20 bp):
TAAATATTGTTTAAATGGAT
Found at i:47310032 original size:14 final size:14
Alignment explanation
Indices: 47310013--47310040 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47310003 CCGTAACACT
47310013 ATTCTGGCATTGAA
1 ATTCTGGCATTGAA
47310027 ATTCTGGCATTGAA
1 ATTCTGGCATTGAA
47310041 TAGGGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
ATTCTGGCATTGAA
Found at i:47324059 original size:46 final size:46
Alignment explanation
Indices: 47324009--47324184 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
47323999 TGATTGAGCA
47324009 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47324055 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
47324100 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47324148 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47324185 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47324165 original size:93 final size:93
Alignment explanation
Indices: 47324006--47324177 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47323996 GGATGATTGA
* * *
47324006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47324071 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
47324099 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47324164 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
47324178 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47326085 original size:10 final size:10
Alignment explanation
Indices: 47326070--47326097 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
47326060 TATTTTCACT
47326070 TTTATCTTTA
1 TTTATCTTTA
47326080 TTTATCTTTA
1 TTTATCTTTA
47326090 TTTATCTT
1 TTTATCTT
47326098 CTTAAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:47328009 original size:20 final size:20
Alignment explanation
Indices: 47327986--47328028 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
47327976 GAGAAACGGG
47327986 CAAAAACGGAGAAAACAGGC
1 CAAAAACGGAGAAAACAGGC
47328006 CAAAAACGGAGAAAACAGGC
1 CAAAAACGGAGAAAACAGGC
47328026 CAA
1 CAA
47328029 CGTAGGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.21, G:0.23, T:0.00
Consensus pattern (20 bp):
CAAAAACGGAGAAAACAGGC
Found at i:47328526 original size:14 final size:14
Alignment explanation
Indices: 47328507--47328533 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47328497 ATATTTGACT
47328507 TGTTCTTAATTATG
1 TGTTCTTAATTATG
47328521 TGTTCTTAATTAT
1 TGTTCTTAATTAT
47328534 TATTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:47329422 original size:21 final size:23
Alignment explanation
Indices: 47329370--47329415 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47329360 ATAGAGACTT
47329370 AGTCCTTTGTGTTATATGTTTAA
1 AGTCCTTTGTGTTATATGTTTAA
*
47329393 AGTCCTTTGTGTTATGTGTTTAA
1 AGTCCTTTGTGTTATATGTTTAA
47329416 TGGTTTGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.52
Consensus pattern (23 bp):
AGTCCTTTGTGTTATATGTTTAA
Found at i:47329878 original size:226 final size:226
Alignment explanation
Indices: 47329484--47329948 Score: 835
Period size: 226 Copynumber: 2.1 Consensus size: 226
47329474 GCTTATATTG
47329484 GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGTTAACACCTTGAAATGTGATCATGTG
1 GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGTTAACACCTTGAAATGTGATCATGTG
*
47329549 CTTATATGTACCAAGATCTTGTGTGATGTAGTTGTACTTGTTTGCTATAATTAAGTTGAAGTTAA
66 CTTATATGTACCAAGATCTTGTGTGATGTAGTTATACTTGTTTGCTATAATTAAGTTGAAGTTAA
47329614 TTAGTATGATGATAACCATGGTATAAAAGTATAAGTGGTATTATAATAGACAAGGCCAAATGAGT
131 TTAGTATGATGATAACCATGGTATAAAAGTATAAGTGGTATTATAATAGACAAGGCCAAATGAGT
47329679 ATGAGAAACACAAGTATGATGACATGCAAAT
196 ATGAGAAACACAAGTATGATGACATGCAAAT
*
47329710 GTTATGGGTTTGTAAACCTATTTATCCATGTGCAATGTGTTAACACCTTGAAATGTGATCATGTG
1 GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGTTAACACCTTGAAATGTGATCATGTG
*
47329775 CTTATATGTACCAAGATCTTGTGTGATGTGGTTATACTTGTTTGCTATAATTAAGTTGAAGTTAA
66 CTTATATGTACCAAGATCTTGTGTGATGTAGTTATACTTGTTTGCTATAATTAAGTTGAAGTTAA
* * * **
47329840 TTAGTATGATGATAATCGTGGTATAAAAGTATAAGTGGTATTATAATTGACAAGGTTAAATGAGT
131 TTAGTATGATGATAACCATGGTATAAAAGTATAAGTGGTATTATAATAGACAAGGCCAAATGAGT
*
47329905 ATGAGAAACACAAGTATGATGACATGCAAGT
196 ATGAGAAACACAAGTATGATGACATGCAAAT
47329936 GTTAT--GTTTGTAA
1 GTTATGGGTTTGTAA
47329949 CTTAATTGAG
Statistics
Matches: 230, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
224 8 0.03
226 222 0.97
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (226 bp):
GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGTTAACACCTTGAAATGTGATCATGTG
CTTATATGTACCAAGATCTTGTGTGATGTAGTTATACTTGTTTGCTATAATTAAGTTGAAGTTAA
TTAGTATGATGATAACCATGGTATAAAAGTATAAGTGGTATTATAATAGACAAGGCCAAATGAGT
ATGAGAAACACAAGTATGATGACATGCAAAT
Found at i:47333916 original size:38 final size:39
Alignment explanation
Indices: 47333855--47333938 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 39
47333845 CTCTCTTCTA
* *
47333855 TTTTTT-TCTTCCCCTTCTTTCTCTAGTCTGCTCCTCTT
1 TTTTTTCTCTTCCCCTTCTCTCTCTAGCCTGCTCCTCTT
*
47333893 TTTTTTCTCTTCCCC-TCTCTCTCTAGCCTGCTTCTCTT
1 TTTTTTCTCTTCCCCTTCTCTCTCTAGCCTGCTCCTCTT
47333931 TTTTTTCT
1 TTTTTTCT
47333939 TTCTTCCTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 34 0.81
39 8 0.19
ACGTcount: A:0.02, C:0.35, G:0.05, T:0.58
Consensus pattern (39 bp):
TTTTTTCTCTTCCCCTTCTCTCTCTAGCCTGCTCCTCTT
Found at i:47337015 original size:19 final size:19
Alignment explanation
Indices: 47336991--47337028 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47336981 GAAATGAATA
*
47336991 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
47337010 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
47337029 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:47337950 original size:19 final size:20
Alignment explanation
Indices: 47337917--47337956 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
47337907 ATATATATAT
47337917 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
47337936 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
47337956 A
1 A
47337957 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:47338234 original size:9 final size:8
Alignment explanation
Indices: 47338196--47338240 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
47338186 AGAGGTTAAG
*
47338196 TTTTTTTC
1 TTTTTTTA
47338204 TTTTTCTTCA
1 TTTTT-TT-A
47338214 TTTTTTTA
1 TTTTTTTA
47338222 TTTTTTTA
1 TTTTTTTA
47338230 -TTTTTTA
1 TTTTTTTA
47338237 TTTT
1 TTTT
47338241 GGGTTGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.21
8 17 0.52
9 4 0.12
10 5 0.15
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:47338583 original size:44 final size:44
Alignment explanation
Indices: 47338531--47338983 Score: 646
Period size: 44 Copynumber: 10.4 Consensus size: 44
47338521 CCCCATCTAA
* * *
47338531 TACAGAGACGCCAAATCCGTTATTTTCGATCTGCTCTCCGCCGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
47338575 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTATCCGCCGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
47338619 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
47338663 TA-ACGAGACACCAAATCTGTTATCTTCGATCTGCTCTTCGCCGC
1 TACA-GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
47338707 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * *
47338751 TACAAAGATGCCAAATC----ATCTTCGATCTGCTCTTCACTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
**
47338791 TACAGAGACATCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
47338835 TACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* **
47338879 TACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
47338923 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCTGTCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
47338967 TACAGAGACGCCAAATC
1 TACAGAGACGCCAAATC
47338984 ATCTTGGATT
Statistics
Matches: 365, Mismatches: 38, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
40 33 0.09
43 1 0.00
44 330 0.90
45 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:47338929 original size:216 final size:216
Alignment explanation
Indices: 47338555--47338997 Score: 672
Period size: 216 Copynumber: 2.1 Consensus size: 216
47338545 ATCCGTTATT
* * * * *
47338555 TTCGATCTGCTCTCCGCCGTTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTATCCGCCGTT
1 TTCGATCTGCTCTCCACCGCTACAGAGACACCAAATCTGTTATCTTCGATCTGCTATCCGCCGCT
* *
47338620 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTAACGAGACACCAAATCTGTTA
66 ACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGCTAACAAGACACCAAATCTGTTA
* *
47338685 TCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCG
131 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCA
*
47338750 CTACAAAGATGCCAAATCATC
196 CTACAAAGACGCCAAATCATC
* * * *
47338771 TTCGATCTGCTCTTCACTGCTACAGAGACATCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCACCGCTACAGAGACACCAAATCTGTTATCTTCGATCTGCTATCCGCCGCT
*
47338836 ACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGCT-ACAAAGACGCCAAATCTGTT
66 ACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGCTAAC-AAGACACCAAATCTGTT
** * *
47338900 ATCTTCGATCTGCTCTCCGTTGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCTGTC
130 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCC
*
47338965 ACTACAGAGACGCCAAATCATC
195 ACTACAAAGACGCCAAATCATC
* *
47338987 TTGGATTTGCT
1 TTCGATCTGCT
47338998 TCAACGTAAA
Statistics
Matches: 204, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
215 2 0.01
216 202 0.99
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (216 bp):
TTCGATCTGCTCTCCACCGCTACAGAGACACCAAATCTGTTATCTTCGATCTGCTATCCGCCGCT
ACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGCTAACAAGACACCAAATCTGTTA
TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCA
CTACAAAGACGCCAAATCATC
Found at i:47339059 original size:88 final size:88
Alignment explanation
Indices: 47338967--47339168 Score: 341
Period size: 88 Copynumber: 2.3 Consensus size: 88
47338957 TCTCTGTCAC
* *
47338967 TACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* *
47339032 TCTTCGATATGCTCCCTGCTTGA
66 TCTTCGATATGCTCCCCGCCTGA
47339055 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
*
47339120 TCTTCGATCTGCTCCCCGCCTGA
66 TCTTCGATATGCTCCCCGCCTGA
* *
47339143 TAAAGAAATGCCAAATCATCTTGGAT
1 TACAGAGATGCCAAATCATCTTGGAT
47339169 ATATTCAGCT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (88 bp):
TACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
TCTTCGATATGCTCCCCGCCTGA
Found at i:47339396 original size:61 final size:64
Alignment explanation
Indices: 47339278--47339400 Score: 191
Period size: 61 Copynumber: 2.0 Consensus size: 64
47339268 TCATGTATCC
47339278 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
47339342 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
47339401 AATGATTATG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 29 0.52
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.36
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:47351317 original size:19 final size:19
Alignment explanation
Indices: 47351293--47351330 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47351283 GAAATGAATA
*
47351293 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
47351312 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
47351331 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:47352247 original size:19 final size:20
Alignment explanation
Indices: 47352214--47352253 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
47352204 ATATATATAT
47352214 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
47352233 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
47352253 A
1 A
47352254 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:47352506 original size:9 final size:9
Alignment explanation
Indices: 47352494--47352534 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
47352484 AGAGGTTAAA
47352494 TTTTTTTCT
1 TTTTTTTCT
* *
47352503 TTTTCTTCA
1 TTTTTTTCT
47352512 TTTTTTTCT
1 TTTTTTTCT
*
47352521 TTTTTTTAT
1 TTTTTTTCT
47352530 TTTTT
1 TTTTT
47352535 ATTTTGGGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:47352517 original size:17 final size:17
Alignment explanation
Indices: 47352493--47352534 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
47352483 AAGAGGTTAA
47352493 ATTTTTTTCTTTTTCTTC
1 ATTTTTTTCTTTTT-TTC
*
47352511 ATTTTTTTCTTTTTTTT
1 ATTTTTTTCTTTTTTTC
47352528 ATTTTTT
1 ATTTTTT
47352535 ATTTTGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (17 bp):
ATTTTTTTCTTTTTTTC
Found at i:47352692 original size:41 final size:41
Alignment explanation
Indices: 47352646--47352723 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
47352636 CATGTATAAC
**
47352646 TAATAATTTTGTCTTACATTCAACAGACATGTTTCAAACAT
1 TAATAATTTCATCTTACATTCAACAGACATGTTTCAAACAT
47352687 TAATAATTTCATCTTACATTCAACAGACATGTTTCAA
1 TAATAATTTCATCTTACATTCAACAGACATGTTTCAA
47352724 GCATATATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.38
Consensus pattern (41 bp):
TAATAATTTCATCTTACATTCAACAGACATGTTTCAAACAT
Found at i:47354267 original size:11 final size:11
Alignment explanation
Indices: 47354251--47354275 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47354241 CTCAATGCGA
47354251 TTTTTTAAAAT
1 TTTTTTAAAAT
47354262 TTTTTTAAAAT
1 TTTTTTAAAAT
47354273 TTT
1 TTT
47354276 AAATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:47354402 original size:9 final size:9
Alignment explanation
Indices: 47354383--47354420 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
47354373 TTCAAATTTT
47354383 AATATATTTA
1 AATATA-TTA
47354393 AATATATTA
1 AATATATTA
47354402 AATATATTA
1 AATATATTA
47354411 AATAT-TTA
1 AATATATTA
47354419 AA
1 AA
47354421 ATTGATGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 5 0.18
9 17 0.61
10 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATATATTA
Found at i:47354411 original size:18 final size:18
Alignment explanation
Indices: 47354361--47354420 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
47354351 ACTTAAAAGA
* *
47354361 ATTTTAATATGTTTCAAAT
1 ATTTAAATATATTT-AAAT
47354380 -TTT-AATATATTTAAAT
1 ATTTAAATATATTTAAAT
47354396 ATATTAAATATA-TTAAAT
1 AT-TTAAATATATTTAAAT
47354414 ATTTAAA
1 ATTTAAA
47354421 ATTGATGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 4 0.11
17 14 0.38
18 13 0.35
19 6 0.16
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTTAAATATATTTAAAT
Found at i:47354422 original size:9 final size:8
Alignment explanation
Indices: 47354376--47354420 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 8
47354366 AATATGTTTC
47354376 AAAT-TTT
1 AAATATTT
47354383 AATATATTT
1 AA-ATATTT
47354392 AAATATATT
1 AAATAT-TT
47354401 AAATATATT
1 AAATAT-TT
47354410 AAATATTT
1 AAATATTT
47354418 AAA
1 AAA
47354421 ATTGATGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.06
8 11 0.31
9 22 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
AAATATTT
Found at i:47354477 original size:16 final size:17
Alignment explanation
Indices: 47354443--47354478 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
47354433 TAACATTTTC
47354443 TTTAACATATTTAAAAT
1 TTTAACATATTTAAAAT
*
47354460 TTTAATATATTT-AAAT
1 TTTAACATATTTAAAAT
47354476 TTT
1 TTT
47354479 TCTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAACATATTTAAAAT
Found at i:47354650 original size:70 final size:71
Alignment explanation
Indices: 47354569--47354718 Score: 230
Period size: 70 Copynumber: 2.1 Consensus size: 71
47354559 TTTAAAATAT
* * * *
47354569 ATTTTTAAAAAATATATTGAATATATTAAAATTTTAAAATTGGTTGTACTTAAC-TTTTTTAATA
1 ATTTTTTAAAAATATATTGAAAATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATA
47354633 TATTTA
66 TATTTA
* *
47354639 GTTTTTTAAAAATATATTTAAAATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATA
1 ATTTTTTAAAAATATATTGAAAATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATA
47354704 TATTTA
66 TATTTA
*
47354710 AATTTTTAA
1 ATTTTTTAA
47354719 GTTTTTTAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 48 0.68
71 23 0.32
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (71 bp):
ATTTTTTAAAAATATATTGAAAATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATA
TATTTA
Found at i:47354717 original size:17 final size:17
Alignment explanation
Indices: 47354624--47354752 Score: 57
Period size: 17 Copynumber: 7.3 Consensus size: 17
47354614 GTACTTAACT
**
47354624 TTTTTAATATATTTAGT
1 TTTTTAATATATTTAAA
47354641 TTTTTAAAAATATATTTAAA
1 TTTTT---AATATATTTAAA
* * * *
47354661 ATATTAAAATATTAAAA
1 TTTTTAATATATTTAAA
** *
47354678 TTGGT--TATACTTAACA
1 TTTTTAATATATTTAA-A
47354694 TTTTTTAATATATTTAAA
1 -TTTTTAATATATTTAAA
*
47354712 TTTTTAAGT-TTTTTAAAA
1 TTTTTAA-TATATTT-AAA
* *
47354730 TTTTAAATATATTAAGAA
1 TTTTTAATATATTTA-AA
47354748 TTTTT
1 TTTTT
47354753 TTTATCTTTA
Statistics
Matches: 81, Mismatches: 20, Indels: 21
0.66 0.16 0.17
Matches are distributed among these distances:
15 6 0.07
16 1 0.01
17 33 0.41
18 20 0.25
19 8 0.10
20 13 0.16
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTTTAATATATTTAAA
Found at i:47354744 original size:26 final size:26
Alignment explanation
Indices: 47354694--47354745 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
47354684 ATACTTAACA
* *
47354694 TTTTTTAATATATTTAAATTTTTAAG
1 TTTTTTAAAATATTTAAATTATTAAG
47354720 TTTTTTAAAAT-TTTAAATATATTAAG
1 TTTTTTAAAATATTTAAAT-TATTAAG
47354746 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTTAAAATATTTAAATTATTAAG
Found at i:47354751 original size:26 final size:26
Alignment explanation
Indices: 47354696--47354751 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
47354686 ACTTAACATT
* * **
47354696 TTTTAATATATTTAAATTTTTAAGTT
1 TTTTAAAATATTTAAATTATTAAGAA
47354722 TTTTAAAAT-TTTAAATATATTAAGAA
1 TTTTAAAATATTTAAAT-TATTAAGAA
47354748 TTTT
1 TTTT
47354752 TTTTATCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTAAAATATTTAAATTATTAAGAA
Found at i:47354835 original size:19 final size:20
Alignment explanation
Indices: 47354803--47354841 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
47354793 AATTTTAAAA
*
47354803 TTAATTATACTTAACATTTT
1 TTAATTATACTTAAAATTTT
*
47354823 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
47354842 AGAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTATACTTAAAATTTT
Found at i:47355580 original size:28 final size:29
Alignment explanation
Indices: 47355549--47355614 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
47355539 ATTTTATAAC
47355549 TTTTATAAGTTTATAT-CAATTTTAATAT-
1 TTTTATAA-TTTATATACAATTTTAATATA
* * *
47355577 TTTTATGATTTTTATAGAATTTTAATATA
1 TTTTATAATTTATATACAATTTTAATATA
47355606 CTTTTATAA
1 -TTTTATAA
47355615 AATTTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 6 0.19
28 18 0.58
30 7 0.23
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTTATAATTTATATACAATTTTAATATA
Found at i:47355611 original size:21 final size:19
Alignment explanation
Indices: 47355586--47355631 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
47355576 TTTTTATGAT
47355586 TTTTATAGAATTTTAATATA
1 TTTTATAGAATTTTAA-ATA
*
47355606 CTTTTATAAAATTTTAAATA
1 -TTTTATAGAATTTTAAATA
47355626 TTTTAT
1 TTTTAT
47355632 GATTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 3 0.12
21 15 0.62
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTATAGAATTTTAAATA
Found at i:47355638 original size:9 final size:9
Alignment explanation
Indices: 47355540--47355711 Score: 68
Period size: 9 Copynumber: 18.4 Consensus size: 9
47355530 GATTGATTTA
*
47355540 TTTTATAAC
1 TTTTATAAT
47355549 TTTTATAAGT
1 TTTTATAA-T
*
47355559 TTATATCAAT
1 TTTTAT-AAT
*
47355569 TTTAAT-AT
1 TTTTATAAT
*
47355577 TTTTATGAT
1 TTTTATAAT
47355586 TTTTATAGAAT
1 TTTTAT--AAT
* *
47355597 TTTAATATAC
1 TTTTATA-AT
*
47355607 TTTTATAAAA
1 TTTTAT-AAT
47355617 TTTTA-AAT
1 TTTTATAAT
*
47355625 ATTTTATGAT
1 -TTTTATAAT
47355635 TTTTATAAT
1 TTTTATAAT
* *
47355644 TTATTA-GAG
1 TT-TTATAAT
*
47355653 TTTAATAGAT
1 TTTTATA-AT
47355663 TTTT-TATAT
1 TTTTATA-AT
47355672 TTTCTAT-A-
1 TTT-TATAAT
*
47355680 TTTAATAAT
1 TTTTATAAT
* *
47355689 ATTTATATTT
1 TTTTATA-AT
47355699 TTTTATAAT
1 TTTTATAAT
47355708 TTTT
1 TTTT
47355712 TTCTGATATT
Statistics
Matches: 120, Mismatches: 26, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
7 2 0.02
8 15 0.12
9 53 0.44
10 39 0.32
11 11 0.09
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:47357429 original size:25 final size:24
Alignment explanation
Indices: 47357401--47357449 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
47357391 AATTTCAATT
47357401 TTATATTAATACTAAATAAATATAA
1 TTATATTAATACTAAATAAA-ATAA
*
47357426 TTATATTAATATTAAATAAAATAA
1 TTATATTAATACTAAATAAAATAA
47357450 AAATCCCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTATATTAATACTAAATAAAATAA
Found at i:47359274 original size:21 final size:22
Alignment explanation
Indices: 47359249--47359298 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
47359239 TTTCAGCAAC
*
47359249 TGAAAATAG-CAAATAGCAAGT
1 TGAAAATAGAAAAATAGCAAGT
47359270 TGAAAATAGAAAAATAGCAAGT
1 TGAAAATAGAAAAATAGCAAGT
47359292 TGAAAAT
1 TGAAAAT
47359299 TAAAGCTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (22 bp):
TGAAAATAGAAAAATAGCAAGT
Found at i:47365702 original size:29 final size:28
Alignment explanation
Indices: 47365645--47365734 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
47365635 TACCTATATC
* *
47365645 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
47365673 TGGCCCATTAGGCCCAAATCACATGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
**
47365702 TGGTTCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
47365731 TGGC
1 TGGC
47365735 TTGTTAGGCC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 14 0.26
29 38 0.70
30 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:47365741 original size:29 final size:29
Alignment explanation
Indices: 47365678--47365746 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
47365668 TCATATGGCC
47365678 CATTAGGCCCAAATCACATGTATATGGTT
1 CATTAGGCCCAAATCACATGTATATGGTT
*
47365707 CATTAGGCCCAAATCACATTTATATGGCTT
1 CATTAGGCCCAAATCACATGTATATGG-TT
*
47365737 -GTTAGGCCCA
1 CATTAGGCCCA
47365747 GTTACATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (29 bp):
CATTAGGCCCAAATCACATGTATATGGTT
Found at i:47371766 original size:30 final size:31
Alignment explanation
Indices: 47371690--47371767 Score: 79
Period size: 33 Copynumber: 2.5 Consensus size: 31
47371680 GGCCCTGTCG
* *
47371690 TGGTCTTTCATTC-ACATGCCATAACCCGGTTA
1 TGGTCTTT-ATTCGATA-GCCATAACCCGGCTA
*
47371722 TGGTCTTATTATTCGATAGCCATAGCCCGGCTA
1 TGGTC-T-TTATTCGATAGCCATAACCCGGCTA
47371755 TGGTC-TTATTCGA
1 TGGTCTTTATTCGA
47371768 CAACTTGCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 8 0.20
32 5 0.12
33 23 0.57
34 4 0.10
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (31 bp):
TGGTCTTTATTCGATAGCCATAACCCGGCTA
Found at i:47378303 original size:27 final size:27
Alignment explanation
Indices: 47378235--47378304 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
47378225 AACAATTAAG
* *
47378235 TTTACTTTGATTTTGTCAAAAAAAAAG
1 TTTACTTTGGTTTTGTCAAAAAAAAAA
47378262 TTTACTTTGGTTTTGTCAAAAAAAAAA
1 TTTACTTTGGTTTTGTCAAAAAAAAAA
47378289 TTT-CTTTGGTATTTGT
1 TTTACTTTGGT-TTTGT
47378305 ACTTTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 7 0.17
27 33 0.82
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (27 bp):
TTTACTTTGGTTTTGTCAAAAAAAAAA
Found at i:47386405 original size:26 final size:26
Alignment explanation
Indices: 47386365--47386414 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
47386355 TACATTATTG
*
47386365 CTCACACGAGTTGTGAAATGGGCTTA
1 CTCACACGAGCTGTGAAATGGGCTTA
47386391 CTCACACGAGCTGTGAAATGGGCT
1 CTCACACGAGCTGTGAAATGGGCT
47386415 CACACAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGGGCTTA
Found at i:47386419 original size:22 final size:22
Alignment explanation
Indices: 47386364--47386423 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 22
47386354 TTACATTATT
*
47386364 GCTCACACGAGTTGTGAAATGG
1 GCTCACACGAGCTGTGAAATGG
47386386 GCTTACTCACACGAGCTGTGAAATGG
1 G----CTCACACGAGCTGTGAAATGG
47386412 GCTCACAC-AGCT
1 GCTCACACGAGCT
47386424 TCGAGTTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 4 0.12
22 8 0.24
26 21 0.64
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (22 bp):
GCTCACACGAGCTGTGAAATGG
Found at i:47387659 original size:42 final size:42
Alignment explanation
Indices: 47387600--47387761 Score: 189
Period size: 42 Copynumber: 3.8 Consensus size: 42
47387590 AGGGTTACTA
* * *
47387600 AGACTACGTGTAAGACCATATCTGGGATATGGCACCAATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
*
47387642 AGACTACATGTAAGACCATATCTGGGATATGGAATCGATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
*** * * * *
47387684 AGACTTTGTGTAAGACCATAGCTGGGTTATTGGCATTGATACG
1 AGACTACATGTAAGACCATATCTGGGATA-TGGCATCGATATG
* * *
47387727 AGATTACATGTAAGACCATAACTAGGATATGGCAT
1 AGACTACATGTAAGACCATATCTGGGATATGGCAT
47387762 TGGTACGGTA
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 68 0.68
43 32 0.32
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (42 bp):
AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:47390458 original size:21 final size:21
Alignment explanation
Indices: 47390432--47390473 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47390422 GGCATGGTGA
*
47390432 AGGGCTTGATTTAGTCATTCT
1 AGGGCTTGATCTAGTCATTCT
47390453 AGGGCTTGATCTAGTCATTCT
1 AGGGCTTGATCTAGTCATTCT
47390474 TATTTCTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (21 bp):
AGGGCTTGATCTAGTCATTCT
Found at i:47390951 original size:30 final size:31
Alignment explanation
Indices: 47390917--47390979 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
47390907 AGTTTATATC
*
47390917 TTTATAATTTGTA-AAGAATTAAATTA-AATT
1 TTTATAATTT-TAGAAGAATTAAAATATAATT
47390947 TTTATAATTTTAGAAGAATTAAAATATAATT
1 TTTATAATTTTAGAAGAATTAAAATATAATT
47390978 TT
1 TT
47390980 ACCTTTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 2 0.07
30 22 0.73
31 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (31 bp):
TTTATAATTTTAGAAGAATTAAAATATAATT
Found at i:47393373 original size:10 final size:9
Alignment explanation
Indices: 47393346--47393371 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47393336 TGTGTATAAC
47393346 AAAAAAAAG
1 AAAAAAAAG
47393355 AAAAAAAAG
1 AAAAAAAAG
47393364 AAAAAAAA
1 AAAAAAAA
47393372 AGGGGGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:47396098 original size:23 final size:23
Alignment explanation
Indices: 47396072--47396135 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
47396062 TTTGTTTCCT
*
47396072 ATTTAGTTTTATTTTTACTTGTA
1 ATTTAGTTTTATTTTTAATTGTA
* *
47396095 ATTTAGGTTTATTTTCAATTGTA
1 ATTTAGTTTTATTTTTAATTGTA
*
47396118 ATTATAGTTTAATTTTTA
1 ATT-TAGTTTTATTTTTA
47396136 TTTCGTTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 23 0.68
24 11 0.32
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (23 bp):
ATTTAGTTTTATTTTTAATTGTA
Found at i:47399112 original size:43 final size:41
Alignment explanation
Indices: 47399047--47399137 Score: 146
Period size: 43 Copynumber: 2.2 Consensus size: 41
47399037 ACTAGGAAAT
47399047 TATGTGACATGAACTCATTGAGTTGGTCTGAGTTCATGATA
1 TATGTGACATGAACTCATTGAGTTGGTCTGAGTTCATGATA
* *
47399088 TATGTGACATCTGAGCTCATTGAGTTGGTCTGAGTTCATGATG
1 TATGTGACA--TGAACTCATTGAGTTGGTCTGAGTTCATGATA
47399131 TATGTGA
1 TATGTGA
47399138 TACATGTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 9 0.20
43 37 0.80
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.37
Consensus pattern (41 bp):
TATGTGACATGAACTCATTGAGTTGGTCTGAGTTCATGATA
Found at i:47401566 original size:46 final size:46
Alignment explanation
Indices: 47401499--47401624 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
47401489 AACCCGCCCC
* * *
47401499 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
47401545 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
47401591 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47401625 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47401643 original size:46 final size:45
Alignment explanation
Indices: 47401501--47401643 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
47401491 CCCGCCCCTA
* ** * *
47401501 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
47401546 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
47401592 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
47401639 AGTGA
1 AGTGA
47401644 CATGTCACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 82 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:47402081 original size:30 final size:30
Alignment explanation
Indices: 47402047--47402106 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47402037 ATTTAATACG
47402047 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47402077 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47402107 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47408162 original size:46 final size:46
Alignment explanation
Indices: 47408112--47408284 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
47408102 TGGTTGAGCA
47408112 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47408158 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
47408203 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47408251 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47408285 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47408277 original size:93 final size:93
Alignment explanation
Indices: 47408109--47408279 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47408099 GGATGGTTGA
* *
47408109 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
47408174 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
47408202 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47408267 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47408280 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47410559 original size:46 final size:46
Alignment explanation
Indices: 47410492--47410663 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
47410482 AACCCGCCCC
* *
47410492 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
47410538 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
47410586 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
47410631 TAGGTGAACTCGAACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47410664 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.55
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:47410605 original size:93 final size:93
Alignment explanation
Indices: 47410497--47410667 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
47410487 GCCCCTAAGT
* * *
47410497 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
47410562 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
47410590 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGAACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
47410655 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47410668 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47411121 original size:30 final size:30
Alignment explanation
Indices: 47411087--47411146 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47411077 ATTTAATACG
47411087 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47411117 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47411147 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47414738 original size:43 final size:42
Alignment explanation
Indices: 47414597--47414760 Score: 211
Period size: 42 Copynumber: 3.9 Consensus size: 42
47414587 TTAGGGTTAC
* * *
47414597 TGAGACTACGTGTAAGACCATATCTGGGATATGACACCAATA
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
47414639 TGAGACTACGTGTAAGACCATATCTGGAATATGGAATCGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
47414681 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * *
47414724 CGAGATTACATGTAAGACCATATTTGGGATATGGCAT
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCAT
47414761 TGGTACGGTA
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
42 70 0.67
43 34 0.33
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:47419869 original size:43 final size:43
Alignment explanation
Indices: 47419804--47419887 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
47419794 TACATGAATA
* * *
47419804 GCATCCACCATGAACTCGGACCTCTCAACGAGCTTGGATGCTC
1 GCATCCACAATGAACTCAGACCTCTCAACGAGCTCGGATGCTC
*
47419847 GCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 GCATCCACAATGAACTCAGACCTCTCAACGAGCTCGGATGC
47419888 CACATATCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.20
Consensus pattern (43 bp):
GCATCCACAATGAACTCAGACCTCTCAACGAGCTCGGATGCTC
Found at i:47426244 original size:43 final size:43
Alignment explanation
Indices: 47426183--47426346 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
47426173 CAATGCCAAC
* *
47426183 GTCCCAGACATGGTCTTACATGTAATCAAATATCGAAGCCACT
1 GTCCCAGACAGGGTCTTACACGTAATCAAATATCGAAGCCACT
** * * *
47426226 GTCCCAGACAGGGTCTTACACAAAATCATATA-CGAGGCCAAT
1 GTCCCAGACAGGGTCTTACACGTAATCAAATATCGAAGCCACT
* * * * *
47426268 GTCCTAGACAAGGTCTTACACGTAAATCAAAAATTGATGCCAAC-
1 GTCCCAGACAGGGTCTTACACGT-AATCAAATATCGAAGCC-ACT
** *
47426312 GTCCCAGAC-GTGGTCTTACACAAAATCACATATCG
1 GTCCCAGACAG-GGTCTTACACGTAATCAAATATCG
47426347 GAATCCTATG
Statistics
Matches: 94, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
42 27 0.29
43 43 0.46
44 23 0.24
45 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAATCAAATATCGAAGCCACT
Found at i:47426327 original size:86 final size:85
Alignment explanation
Indices: 47426177--47426339 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 85
47426167 CTCGTACAAT
* * *
47426177 GCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGAAGCCACTGTCCCAGACAGGGTCT
1 GCCAACGTCCCAGACAAGGTCTTACACGTAATCAAAAATCGAAGCCACTGTCCCAGACAGGGTCT
47426242 TACACAAAATCATATACGAG
66 TACACAAAATCATATACGAG
* * * *
47426262 GCCAATGTCCTAGACAAGGTCTTACACGTAAATCAAAAATTGATGCCAAC-GTCCCAGAC-GTGG
1 GCCAACGTCCCAGACAAGGTCTTACACGT-AATCAAAAATCGAAGCC-ACTGTCCCAGACAG-GG
47426325 TCTTACACAAAATCA
63 TCTTACACAAAATCA
47426340 CATATCGGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 26 0.38
86 40 0.59
87 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.21
Consensus pattern (85 bp):
GCCAACGTCCCAGACAAGGTCTTACACGTAATCAAAAATCGAAGCCACTGTCCCAGACAGGGTCT
TACACAAAATCATATACGAG
Found at i:47429114 original size:18 final size:18
Alignment explanation
Indices: 47429087--47429318 Score: 137
Period size: 18 Copynumber: 12.5 Consensus size: 18
47429077 TTATTAACAA
* *
47429087 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
47429104 TCAGTAACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
* * *
47429122 TCGGTAACAATAAATTAT
1 TCAGTAACAATCAGTTAT
* * *
47429140 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
47429158 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
47429184 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
**
47429202 TCAGTAA-AATCAAATAT
1 TCAGTAACAATCAGTTAT
*
47429219 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* * *
47429238 TTAGTAACAGTCA-TCCAT
1 TCAGTAACAATCAGT-TAT
*
47429256 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
47429274 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
47429292 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
47429310 TCAGTAACA
1 TCAGTAACA
47429319 GTCTAATATC
Statistics
Matches: 161, Mismatches: 41, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
17 20 0.12
18 110 0.68
19 14 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 12 0.07
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:47429244 original size:54 final size:54
Alignment explanation
Indices: 47429179--47429370 Score: 165
Period size: 54 Copynumber: 3.6 Consensus size: 54
47429169 CAATTGATCG
* *
47429179 GTTATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAGTAACAATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAGTAACAATCAA
* * * ** **
47429233 GTTATTTAGTAACAGTC-ATCCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAACAGTCAAT-TATTCAGT-AAAATCAAATATTCAGTAACAATCAA
* * * * * * *
47429288 -TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAATATCCAGTAACAGTCAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA-AATCAAATATTCAGTAACAATCAA
* * *
47429342 G-TATCCGGTAATAGTCAATTATTCAGTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA
47429371 TAGTCAGTTA
Statistics
Matches: 106, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
53 3 0.03
54 82 0.77
55 21 0.20
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (54 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAGTAACAATCAA
Found at i:47429308 original size:72 final size:71
Alignment explanation
Indices: 47429181--47429383 Score: 216
Period size: 72 Copynumber: 2.8 Consensus size: 71
47429171 ATTGATCGGT
* * * * *
47429181 TATCCAGTAACAGTCAA-TTATTCAGTAAAATCAAATATTCAGTAACAATTAAGTTATTTAGTAA
1 TATCCAGTAACAATCAAGTTATTCAGTAATATCAATTATTCAGTAA-TATTCAGTTATTTAGTAA
47429245 CAGTC-A
65 CAGTCAA
* * *
47429251 TCCATTCAGTGACAATC-AGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGT
1 T--ATCCAGTAACAATCAAGTTATTCAGTAAT-ATCAATTATTCAGTAATATTCAGTTATTTAGT
47429315 AACAGTCTAA
63 AACAGTC-AA
* * * *
47429325 TATCCAGTAACAGTCAAG-TATCCGGTAATAGTCAATTATTCAGTAATAGTCAGTTATTT
1 TATCCAGTAACAATCAAGTTATTCAGTAATA-TCAATTATTCAGTAATATTCAGTTATTT
47429384 TATACCTTTA
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
70 1 0.01
71 2 0.02
72 88 0.80
73 17 0.15
74 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAAGTTATTCAGTAATATCAATTATTCAGTAATATTCAGTTATTTAGTAAC
AGTCAA
Found at i:47429381 original size:18 final size:18
Alignment explanation
Indices: 47429179--47429382 Score: 130
Period size: 18 Copynumber: 11.3 Consensus size: 18
47429169 CAATTGATCG
*
47429179 GTTATCCAGTAACAGTCA
1 GTTATTCAGTAACAGTCA
* *
47429197 ATTATTCAGTAA-AATCA
1 GTTATTCAGTAACAGTCA
** * *
47429214 AATATTCAGTAACAATTAA
1 GTTATTCAGTAAC-AGTCA
*
47429233 GTTATTTAGTAACAGTCA
1 GTTATTCAGTAACAGTCA
* * *
47429251 -TCCATTCAGTGACAATCA
1 GT-TATTCAGTAACAGTCA
*
47429269 GTTATTCAGTAA-TGATCA
1 GTTATTCAGTAACAG-TCA
* * *
47429287 ATTATTCAGTAATATTCA
1 GTTATTCAGTAACAGTCA
47429305 GTTATTCAGTAACAGTCTA
1 GTTATTCAGTAACAGTC-A
* *
47429324 -ATATCCAGTAACAGTCAA
1 GTTATTCAGTAACAGTC-A
* * *
47429342 G-TATCCGGTAATAGTCA
1 GTTATTCAGTAACAGTCA
* *
47429359 ATTATTCAGTAATAGTCA
1 GTTATTCAGTAACAGTCA
47429377 GTTATT
1 GTTATT
47429383 TTATACCTTT
Statistics
Matches: 143, Mismatches: 34, Indels: 18
0.73 0.17 0.09
Matches are distributed among these distances:
17 17 0.12
18 111 0.78
19 15 0.10
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (18 bp):
GTTATTCAGTAACAGTCA
Found at i:47429612 original size:6 final size:6
Alignment explanation
Indices: 47429601--47429627 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
47429591 TGCCGAATCG
47429601 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
47429628 GTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:47431948 original size:21 final size:21
Alignment explanation
Indices: 47431911--47431951 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47431901 TTAATAATAA
*
47431911 TATATAATTTAATAATATACT
1 TATATAATTAAATAATATACT
47431932 TATATAA-TAAATAAATATAC
1 TATATAATTAAAT-AATATAC
47431952 ATGTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATAATTAAATAATATACT
Found at i:47434056 original size:62 final size:62
Alignment explanation
Indices: 47433959--47434083 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
47433949 GATGTGGTCT
47433959 TACATGTAATCAAACATAGATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAGATACGA
1 TACATGTAATCAAACATAGATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAGATACGA
47434021 TACATGTAATCAAACATAGATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAGATACGA
1 TACATGTAATCAAACATAGATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAGATACGA
47434083 T
1 T
47434084 GCTGATGTCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (62 bp):
TACATGTAATCAAACATAGATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAGATACGA
Found at i:47434148 original size:44 final size:44
Alignment explanation
Indices: 47434100--47434199 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 44
47434090 GTCTCAAACA
47434100 TGGTCTTACACGTAAAACAAAAGTCGATGCCAACGTCCCAGACG
1 TGGTCTTACACGTAAAACAAAAGTCGATGCCAACGTCCCAGACG
* * * *
47434144 TGGTCTTACACGTAAAATAGAAGTTGATGCCAACGTCCCAGATG
1 TGGTCTTACACGTAAAACAAAAGTCGATGCCAACGTCCCAGACG
47434188 TGGTCTTACACG
1 TGGTCTTACACG
47434200 AAATCACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (44 bp):
TGGTCTTACACGTAAAACAAAAGTCGATGCCAACGTCCCAGACG
Found at i:47444129 original size:20 final size:20
Alignment explanation
Indices: 47444101--47444141 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47444091 GTCCCTTGTA
* *
47444101 TTTTGAAAAATTTTCTAAGT
1 TTTTCAAAAATTTCCTAAGT
47444121 TTTTCAAAAATTTCCTAAGT
1 TTTTCAAAAATTTCCTAAGT
47444141 T
1 T
47444142 ATTGGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTTCAAAAATTTCCTAAGT
Found at i:47444520 original size:28 final size:28
Alignment explanation
Indices: 47444489--47444545 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
47444479 CAACCTTTTC
47444489 ATAAAATTATGAATCATTCCATTTACTT
1 ATAAAATTATGAATCATTCCATTTACTT
47444517 ATAAAATTATGAATCATTCCATTTACTT
1 ATAAAATTATGAATCATTCCATTTACTT
47444545 A
1 A
47444546 CTTTCCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (28 bp):
ATAAAATTATGAATCATTCCATTTACTT
Found at i:47447942 original size:22 final size:22
Alignment explanation
Indices: 47447914--47447958 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
47447904 AAACACGGCC
*
47447914 ATGTCACATGCTCGTGAGACTT
1 ATGTCACATGCCCGTGAGACTT
47447936 ATGTCACATGCCCGTGAGACTT
1 ATGTCACATGCCCGTGAGACTT
47447958 A
1 A
47447959 CCCGTGCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (22 bp):
ATGTCACATGCCCGTGAGACTT
Found at i:47453760 original size:67 final size:67
Alignment explanation
Indices: 47453686--47453834 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
47453676 CATCATGTGT
* * *
47453686 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATG-GT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
47453747 ATGTAG
62 ATGTAG
** * *
47453753 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
47453818 AG
66 AG
47453820 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
47453835 GATAAACTGG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
63 18 0.26
64 5 0.07
65 6 0.09
66 2 0.03
67 39 0.56
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:47453790 original size:63 final size:63
Alignment explanation
Indices: 47453710--47453892 Score: 183
Period size: 63 Copynumber: 2.8 Consensus size: 63
47453700 AGACATTATG
* *
47453710 ATGTAGCTAGGTCGCATGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
47453773 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG-GT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
47453838 AA
62 AA
* * * *
47453840 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCAT-GGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
47453893 CGAACTATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 37 0.38
64 3 0.03
65 8 0.08
66 15 0.15
67 32 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:47456814 original size:41 final size:41
Alignment explanation
Indices: 47456757--47456837 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
47456747 TCTATTTTCG
47456757 ACATCACTGAAAAATGGGTTGTTACATACCACAATCCATGA
1 ACATCACTGAAAAATGGGTTGTTACATACCACAATCCATGA
47456798 ACATCACTGAAAAATGGGTTGTTACATACCACAATCCATG
1 ACATCACTGAAAAATGGGTTGTTACATACCACAATCCATG
47456838 TAATTGGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (41 bp):
ACATCACTGAAAAATGGGTTGTTACATACCACAATCCATGA
Found at i:47459684 original size:55 final size:54
Alignment explanation
Indices: 47459555--47459984 Score: 268
Period size: 54 Copynumber: 8.4 Consensus size: 54
47459545 AACTTACCAT
* *
47459555 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCAGCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* ** * *
47459608 TGCCATGCCTTGGCATGGTCTTACATGGGAACTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAA
* * * * *
47459663 TGCGATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* **
47459717 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
** * *
47459763 TGCCATGTTCC-AAACATGGTCTTACATGGTATCCTTGTC-T-TAG---TGC--CAA
1 TGCCATG--CCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACT-CATCAA
** ** * * * *
47459812 TGCCATATCTTGATGTGGTCTTACATG-GA---GT-CCTTA-ATCAA-TGC--CGA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA-GAACT-CATCAA
* * ** *
47459859 TGCCATGTCTTGACATGGTCTTATATGGGATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* ** *
47459912 TGCCATGCCTTGGCAT-GTCTTACATGGGACCCTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAA
*
47459966 TGCCATGTCTTGACATGGT
1 TGCCATGCCTTGACATGGT
47459985 ATACTTAACC
Statistics
Matches: 295, Mismatches: 55, Indels: 52
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
46 9 0.03
47 55 0.19
48 18 0.06
49 11 0.04
51 4 0.01
52 30 0.10
53 54 0.18
54 64 0.22
55 46 0.16
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:47459878 original size:47 final size:47
Alignment explanation
Indices: 47459714--47459893 Score: 134
Period size: 47 Copynumber: 3.8 Consensus size: 47
47459704 TAGAACTTAT
** * * *
47459714 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCT--TAC
1 CAATGCCATATCTTGACATGGTCTTACATGGTATCCTTATCTAATGC
* *** * *
47459759 CAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGC
1 C-AATGCCAT-ATCTTGACATGGTCTTACATGGTATCCTTATC-TAATGC
**
47459809 CAATGCCATATCTTGATGTGGTCTTACATGG-AGTCCTTAATC-AATGC
1 CAATGCCATATCTTGACATGGTCTTACATGGTA-TCCTT-ATCTAATGC
* * * *
47459856 CGATGCCATGTCTTGACATGGTCTTATATGGGATCCTT
1 CAATGCCATATCTTGACATGGTCTTACATGGTATCCTT
47459894 GCCTTATGAA
Statistics
Matches: 105, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
45 1 0.01
46 8 0.08
47 60 0.57
48 23 0.22
49 10 0.10
50 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (47 bp):
CAATGCCATATCTTGACATGGTCTTACATGGTATCCTTATCTAATGC
Found at i:47460045 original size:44 final size:44
Alignment explanation
Indices: 47459996--47460079 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
47459986 TACTTAACCG
* *
47459996 TCAATTCCTCCTTAAATTCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATTCCATGGTA-CAACCATGGACTTTTCCA
* *
47460040 TCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATTCCATGGTACAACCATGGACTTT
47460080 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATTCCATGGTACAACCATGGACTTTTCCA
Found at i:47461935 original size:65 final size:65
Alignment explanation
Indices: 47461864--47461996 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
47461854 AGTGTGGTGT
*
47461864 TATAAGACTATGGGCTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTGAGGTATGTGA
1 TATAAGACTATGGGCTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTAAGGTATGTGA
47461929 TATAAGACTATGGGCTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTAAGGTATGTGA
1 TATAAGACTATGGGCTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTAAGGTATGTGA
47461994 TAT
1 TAT
47461997 GTACTTATGC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (65 bp):
TATAAGACTATGGGCTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTAAGGTATGTGA
Found at i:47462517 original size:38 final size:38
Alignment explanation
Indices: 47462461--47462540 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
47462451 GATGTGTATT
* * * *
47462461 CGGGTTAAATCTCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
47462499 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
47462537 CGGG
1 CGGG
47462541 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:47462590 original size:43 final size:43
Alignment explanation
Indices: 47462512--47462644 Score: 182
Period size: 43 Copynumber: 3.1 Consensus size: 43
47462502 GATAAATCCC
* * *
47462512 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
47462553 GCAGGCTTAGTGCCGGTGATGTGTATTC-GGCCTTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCC-TTCGTGCCTA
* *
47462596 GCAGGCTTCGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
47462639 GTAGGC
1 GCAGGC
47462645 GTAATGCTGG
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
41 15 0.18
42 6 0.07
43 57 0.70
44 4 0.05
ACGTcount: A:0.13, C:0.24, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:47463041 original size:45 final size:45
Alignment explanation
Indices: 47462974--47463081 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 45
47462964 TTGACTTGAT
* * ** *
47462974 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGTCGGTGAGAT-A
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAATGA
**
47463018 CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGA
1 -TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAATGA
47463064 TA-TCGGGCC-TCGAGCCTA
1 TATTCGGGCCTTCGAGCCTA
47463082 ACAGGTAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 9 0.16
44 7 0.13
45 38 0.69
46 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAATGA
Found at i:47465347 original size:46 final size:46
Alignment explanation
Indices: 47465174--47465377 Score: 153
Period size: 46 Copynumber: 4.2 Consensus size: 46
47465164 AATTGATGGA
* * * *
47465174 AAGACCATGGTTGGGCCATGGCATCAATGAGATATGTGA-TCTGTGT
1 AAGACCATAGCTGGGCCATGGCATCAGTGTGATATGTGATTC-GTGT
* * * *
47465220 AAGACCATAGCTGGGCTATGGCATCAGAGATATGTGATTACGTGCTTCCGTAT
1 AAGACCATAGCTGGGCCATGGCATC--AG---TGTGA-TATGTGATT-CGTGT
* **
47465273 AAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATTCGTGT
1 AAGACCATAGCTGGGCCATGGCATCAGTGTGATATGTGATTCGTGT
* *
47465319 AAGACCATGGCTGGGCCATGGC-TACAGTGTGTGATATGTGACTAT-GTGC
1 AAGACCATAGCTGGGCCATGGCAT-CA--GTGTGATATGTGA-T-TCGTGT
47465368 AAGACCATAG
1 AAGACCATAG
47465378 TTTTACTATG
Statistics
Matches: 126, Mismatches: 19, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
45 1 0.01
46 46 0.37
47 7 0.06
48 19 0.15
49 13 0.10
50 1 0.01
51 6 0.05
52 5 0.04
53 27 0.21
54 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (46 bp):
AAGACCATAGCTGGGCCATGGCATCAGTGTGATATGTGATTCGTGT
Found at i:47472183 original size:40 final size:40
Alignment explanation
Indices: 47472146--47472371 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
47472136 GCTACTCGTT
* *
47472146 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
47472186 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
47472226 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
47472266 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
47472306 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
47472347 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
47472372 CATCATTCAA
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 157 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:47480167 original size:40 final size:40
Alignment explanation
Indices: 47480130--47480353 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
47480120 GCTACTCGTT
* *
47480130 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
47480170 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
47480210 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
47480250 CAAATGCCTTC-GGACTT-ACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
47480288 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
47480329 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
47480354 CATCATTCAA
Statistics
Matches: 168, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 34 0.20
39 9 0.05
40 112 0.67
41 13 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:47480313 original size:118 final size:120
Alignment explanation
Indices: 47480130--47480351 Score: 310
Period size: 118 Copynumber: 1.9 Consensus size: 120
47480120 GCTACTCGTT
47480130 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
47480195 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
* **
47480250 CAAATGCCTTC-GGACTTA-CCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
47480311 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
47480352 GACATCATTC
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
117 3 0.03
118 61 0.67
119 16 0.18
120 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
Found at i:47480337 original size:78 final size:79
Alignment explanation
Indices: 47480130--47480353 Score: 283
Period size: 78 Copynumber: 2.8 Consensus size: 79
47480120 GCTACTCGTT
* * ** *
47480130 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTT-ACCCGG
47480195 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
47480210 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACAAATGCCTTC-GGACTTACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTACCCGGA
47480274 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
** * * *
47480288 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAATGCCTTCGGGACTTA-CCC
47480351 GGA
63 GGA
47480354 CATCATTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
77 3 0.02
78 52 0.41
79 21 0.16
80 52 0.41
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTACCCGGA
TTTAGTAACTCGCA
Found at i:47482087 original size:38 final size:38
Alignment explanation
Indices: 47482031--47482110 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
47482021 GATGTGTATT
* * *
47482031 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
* *
47482069 CGGGATAAATCTCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
47482107 CGGG
1 CGGG
47482111 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:47482313 original size:43 final size:43
Alignment explanation
Indices: 47482082--47482299 Score: 323
Period size: 43 Copynumber: 5.1 Consensus size: 43
47482072 GATAAATCTC
* * *
47482082 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
47482123 GCAGGCTTAGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
47482166 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * * *
47482209 GCAGGGTTCGTACCAGCGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
47482252 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
47482295 GCAGG
1 GCAGG
47482300 TGTAATGTCG
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 16 0.10
42 2 0.01
43 143 0.89
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:47482696 original size:44 final size:42
Alignment explanation
Indices: 47482630--47482736 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 42
47482620 TTGACTTGAT
* * *
47482630 TATTCGGGCCTTTGAGCTTAGCA-ACTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGACTATAATGCCGGT--GA-AC
*
47482674 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAGACTATAATGCCGGTGAAC
47482716 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
47482737 ATAGGCGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 28 0.50
45 12 0.21
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAGACTATAATGCCGGTGAAC
Found at i:47486332 original size:33 final size:33
Alignment explanation
Indices: 47486295--47486361 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
47486285 ATACATGCCA
47486295 TTGAACAAAATAAAAATATCTATATACCAAAGC
1 TTGAACAAAATAAAAATATCTATATACCAAAGC
47486328 TTGAACAAAATAAAAATATCTATATACCAAAGC
1 TTGAACAAAATAAAAATATCTATATACCAAAGC
47486361 T
1 T
47486362 AGACAAGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (33 bp):
TTGAACAAAATAAAAATATCTATATACCAAAGC
Found at i:47495253 original size:24 final size:24
Alignment explanation
Indices: 47495222--47495277 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
47495212 ATAGAGGTGA
*
47495222 GGTGGTGGTTCGGTGGCCTTGAGT
1 GGTGGTGGTTCGGTGGCCTTAAGT
*
47495246 GGTGGTGGTTTGGTGGCCTTAAGT
1 GGTGGTGGTTCGGTGGCCTTAAGT
47495270 GGTGGTGG
1 GGTGGTGG
47495278 AGTGGATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.09, G:0.52, T:0.34
Consensus pattern (24 bp):
GGTGGTGGTTCGGTGGCCTTAAGT
Found at i:47495282 original size:21 final size:22
Alignment explanation
Indices: 47495234--47495282 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
47495224 TGGTGGTTCG
* *
47495234 GTGGCCTTGAGTGGTGGTGGTTTG
1 GTGGCCTTAAGTGGTGGTGG--TA
47495258 GTGGCCTTAAGTGGTGGTGG-A
1 GTGGCCTTAAGTGGTGGTGGTA
47495279 GTGG
1 GTGG
47495283 ATGAGATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
24 19 0.83
ACGTcount: A:0.08, C:0.08, G:0.51, T:0.33
Consensus pattern (22 bp):
GTGGCCTTAAGTGGTGGTGGTA
Found at i:47504081 original size:91 final size:91
Alignment explanation
Indices: 47503945--47504130 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 91
47503935 TTCAGAGAGG
* * *
47503945 TGTATTTATGTTCTTTTAAGGACTACTGTTTGGTGTATTAATGCAACAGAATAATTGTTGTTTAG
1 TGTATTTATGCTATTTTAAGGACTACTGTTTGGTGTATTAATGCAACAGAAAAATTGTTGTTTAG
* *
47504010 GCGTCAATTAATGTTGTCTAAGTAAC
66 ACATCAATTAATGTTGTCTAAGTAAC
**
47504036 TGTATTTATGCTATTTTAAGGACTGTTGTTTGGTGTATTAATGCAACAGAAAAATTGTTGTTTAG
1 TGTATTTATGCTATTTTAAGGACTACTGTTTGGTGTATTAATGCAACAGAAAAATTGTTGTTTAG
*
47504101 ACATCAATTAATGTTGTCTAAGTGAC
66 ACATCAATTAATGTTGTCTAAGTAAC
47504127 TGTA
1 TGTA
47504131 AATTTATGTT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.42
Consensus pattern (91 bp):
TGTATTTATGCTATTTTAAGGACTACTGTTTGGTGTATTAATGCAACAGAAAAATTGTTGTTTAG
ACATCAATTAATGTTGTCTAAGTAAC
Found at i:47508986 original size:73 final size:67
Alignment explanation
Indices: 47508831--47508990 Score: 203
Period size: 73 Copynumber: 2.3 Consensus size: 67
47508821 GAGGAAACAT
* * *
47508831 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTTGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
47508896 TA
66 TA
* *
47508898 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATATCTGTTCTGGTGGCCTAG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC------ATATATCTGTTCTGGTGACCTAG
47508963 CCACAATA
60 CCACAATA
* *
47508971 TCTGGCAACTTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
47508991 TTCTGTGGTG
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
67 35 0.44
73 45 0.56
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
TA
Found at i:47516424 original size:12 final size:10
Alignment explanation
Indices: 47516388--47516421 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
47516378 AAAGGAAATC
47516388 TTATTTTAAT
1 TTATTTTAAT
47516398 TTATTTTAAGT
1 TTATTTTAA-T
47516409 TTATCTTTAAT
1 TTAT-TTTAAT
47516420 TT
1 TT
47516422 TATGATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 8 0.36
12 5 0.23
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TTATTTTAAT
Found at i:47527548 original size:31 final size:30
Alignment explanation
Indices: 47527507--47527564 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
47527497 TTGGGATGGA
*
47527507 AAGGGAGTAAAAGTTTTGGAAGGGAAAGTGAG
1 AAGGGAGTAAAAGTCTT-GAA-GGAAAGTGAG
47527539 AAGGG-GTAAAAGTCTTGAAGGAAAGT
1 AAGGGAGTAAAAGTCTTGAAGGAAAGT
47527565 AAAAAGGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 3 0.12
31 10 0.40
32 5 0.20
ACGTcount: A:0.41, C:0.02, G:0.38, T:0.19
Consensus pattern (30 bp):
AAGGGAGTAAAAGTCTTGAAGGAAAGTGAG
Found at i:47527571 original size:29 final size:32
Alignment explanation
Indices: 47527506--47527571 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 32
47527496 GTTGGGATGG
* *
47527506 AAAGGGAGTAAAAGTTTTGGAAGGGAAAGTGA
1 AAAGGGAGTAAAAGTCTTGGAAGGGAAAGTAA
*
47527538 GAAGGG-GTAAAAGTCTT-GAA-GGAAAGTAA
1 AAAGGGAGTAAAAGTCTTGGAAGGGAAAGTAA
47527567 AAAGG
1 AAAGG
47527572 TTTGAGAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 12 0.40
30 3 0.10
31 10 0.33
32 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.36, T:0.17
Consensus pattern (32 bp):
AAAGGGAGTAAAAGTCTTGGAAGGGAAAGTAA
Found at i:47527627 original size:9 final size:9
Alignment explanation
Indices: 47527613--47527649 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
47527603 TATAGTTTGA
47527613 TATTCGAAT
1 TATTCGAAT
47527622 TATTCGAAT
1 TATTCGAAT
*
47527631 TATTCGAGT
1 TATTCGAAT
*
47527640 TATTCCAAT
1 TATTCGAAT
47527649 T
1 T
47527650 CAAAAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47527723 original size:18 final size:18
Alignment explanation
Indices: 47527700--47527734 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47527690 ATTCAAGTAG
*
47527700 ACTCGAATAACTCGATTA
1 ACTCGAATAACCCGATTA
47527718 ACTCGAATAACCCGATT
1 ACTCGAATAACCCGATT
47527735 CATTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (18 bp):
ACTCGAATAACCCGATTA
Found at i:47536873 original size:94 final size:93
Alignment explanation
Indices: 47536712--47537118 Score: 260
Period size: 96 Copynumber: 4.3 Consensus size: 93
47536702 TTTGTGTGCC
* *
47536712 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAATGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACTATGTCTGG
47536777 GACATGGCATCGGCATTGAGACGAGTACT
66 GACAT-GCATCGGCATTGAGACGAGTACT
* * * * *
47536806 AGTGTAAGACATGTCTGGGACATGCTTTGGCCTCAATGATGATAGCCAGTGTAAGAC-ATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAATGTAAGACTATGTCTG
* * * *
47536870 GGACATGCATC-G-ACTAAGA-GTTGTGCT
65 GGACATGCATCGGCATTGAGACG-AGTACT
* * * * *
47536897 AGTATAAGACCATGTCTGGGACATGGCATCAG-CACGTATATATACGAGAGCTAGTGTAAGAC-A
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC--AT-GAT--GAGAGCCAATGTAAGACTA
* * * *
47536960 TGTCTGAGACATGCATCGGC--TAAGA-GTTGTGCT
59 TGTCTGGGACATGCATCGGCATTGAGACG-AGTACT
* * * * *** *
47536993 AGTATAAGACCATGTCTGAGACATGGCATCAG-CACGTATATATACGAGAGCTGGTGTAAGACCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC--AT-GAT--GAGAGCCAATGTAAGACTA
* * *
47537057 TGTCTGGGACATGGCATCGGCCTCGATGACGA-TAGCC
59 TGTCTGGGACAT-GCATCGGCATTGA-GACGAGTA-CT
47537094 AGTGTAAGACAATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
47537119 GCATTGGCAA
Statistics
Matches: 264, Mismatches: 31, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
90 1 0.00
91 17 0.06
92 17 0.06
93 11 0.04
94 46 0.17
95 18 0.07
96 105 0.40
97 13 0.05
98 8 0.03
100 4 0.02
101 23 0.09
102 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACTATGTCTGG
GACATGCATCGGCATTGAGACGAGTACT
Found at i:47536957 original size:52 final size:51
Alignment explanation
Indices: 47536712--47537122 Score: 240
Period size: 47 Copynumber: 8.6 Consensus size: 51
47536702 TTTGTGTGCC
* * * *
47536712 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC--ACAT-TATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCGTATATAGACGAGAGCT
* * *
47536758 AATGTAAGACTATGTCTGGGACATGGCATC-G--GCAT-TGAGACGAGTA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCGTATAT-AGACGAG-AGCT
* ** * * *
47536806 AGTGTAAGA-CATGTCTGGGACAT-GCTTTGGCC-TCA-AT-GATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCGT-ATATAGACGAGAGCT
* * *
47536853 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GAC---TA-AGA-GTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCGTATATAGACG-AGAGCT
* *
47536897 AGTATAAGACCATGTCTGGGACATGGCATCAGCACGTATATATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-CGTATATAGACGAGAGCT
* * * *
47536949 AGTGTAAGA-CATGTCTGAGACAT-GCATC-G--G-CTA-AGA-GTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCGTATATAGACG-AGAGCT
* * *
47536993 AGTATAAGACCATGTCTGAGACATGGCATCAGCACGTATATATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-CGTATATAGACGAGAGCT
* * ** * *
47537045 GGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGAT-GACGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCGTATATAGACGAGAGCT
*
47537094 AGTGTAAGACAATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
47537123 TGGCAACTTA
Statistics
Matches: 283, Mismatches: 47, Indels: 67
0.71 0.12 0.17
Matches are distributed among these distances:
43 2 0.01
44 27 0.10
45 30 0.11
46 26 0.09
47 62 0.22
48 20 0.07
49 38 0.13
50 9 0.03
51 18 0.06
52 49 0.17
53 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (51 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCGTATATAGACGAGAGCT
Found at i:47536963 original size:96 final size:96
Alignment explanation
Indices: 47536853--47537075 Score: 392
Period size: 96 Copynumber: 2.3 Consensus size: 96
47536843 GATGATAGCC
*
47536853 AGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGTTGTGCTAGTATAAGACCATGTCTGGGA
1 AGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGTTGTGCTAGTATAAGACCATGTCTGAGA
47536918 CATGGCATCAGCACGTATATATACGAGAGCT
66 CATGGCATCAGCACGTATATATACGAGAGCT
* *
47536949 AGTGTAAGACATGTCTGAGACATGCATCGGCTAAGAGTTGTGCTAGTATAAGACCATGTCTGAGA
1 AGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGTTGTGCTAGTATAAGACCATGTCTGAGA
47537014 CATGGCATCAGCACGTATATATACGAGAGCT
66 CATGGCATCAGCACGTATATATACGAGAGCT
*
47537045 GGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
47537076 GCCTCGATGA
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
96 101 0.84
97 13 0.11
98 6 0.05
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGTTGTGCTAGTATAAGACCATGTCTGAGA
CATGGCATCAGCACGTATATATACGAGAGCT
Found at i:47544560 original size:47 final size:45
Alignment explanation
Indices: 47544448--47544758 Score: 182
Period size: 47 Copynumber: 6.6 Consensus size: 45
47544438 GGTTATTCGT
* * * * ** *
47544448 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATCA
1 GTGCTAGTATAAGACATGTCTGGGACATGCATC-GGCTTAAGATGA
* * * * *
47544494 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GTGCTAGTATAAGA-CATGTCTGGGACAT-GCATCGGC-TTAAGATGA
* * *
47544542 GTGCTAGTCTAAGACATGTCTGGGACATGCATCGGCCT-CGATGA
1 GTGCTAGTATAAGACATGTCTGGGACATGCATCGGCTTAAGATGA
* * * *
47544586 TGATAGCCAGTGTAAGACATGTTTGGGACATGCATCGGC-TAAGA-GTT
1 -G-T-GCTAGTATAAGACATGTCTGGGACATGCATCGGCTTAAGATG-A
* * * *
47544633 GTGGTAGTATAAGACCATGTCTGGGACATGGAATCAGCATGTATATATACGA
1 GTGCTAGTATAAGA-CATGTCTGGGACAT-GCATCGGC-T-TA-AGAT--GA
* * * * *
47544685 GAGCTAGTGTAATACATGTTTGGGACATGCATCGGC-TAAGA-GTT
1 GTGCTAGTATAAGACATGTCTGGGACATGCATCGGCTTAAGATG-A
47544729 GTGCTAGTATAAGACTATGTCTGGGACATG
1 GTGCTAGTATAAGAC-ATGTCTGGGACATG
47544759 GCATTAGCAC
Statistics
Matches: 206, Mismatches: 40, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.00
44 26 0.13
45 29 0.14
46 32 0.16
47 65 0.32
48 19 0.09
49 2 0.01
50 8 0.04
51 13 0.06
52 10 0.05
53 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
GTGCTAGTATAAGACATGTCTGGGACATGCATCGGCTTAAGATGA
Found at i:47544705 original size:96 final size:96
Alignment explanation
Indices: 47544447--47544860 Score: 370
Period size: 96 Copynumber: 4.3 Consensus size: 96
47544437 AGGTTATTCG
* * * * * *
47544447 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATAT-TAT-C-AGAGCCAATGTAA
1 TGTGCTAGTATAAGACCATGTCTGGGACATGGAATCAGCACGTATATATACGAGAGCTAGTGTAA
* *
47544506 GACCATGTCTGGGACATGGCATCGGC-ATTGAGAT
66 GA-CATGTTTGGGACAT-GCATCGGCTA-AGAG-T
* * * * * * * *
47544540 GAGTGCTAGTCTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG-AT-GAT--GATAGCCAGTGT
1 -TGTGCTAGTATAAGACCATGTCTGGGACATGGAATCAG-CACGTATATATACGAGAGCTAGTGT
47544599 AAGACATGTTTGGGACATGCATCGGCTAAGAGT
64 AAGACATGTTTGGGACATGCATCGGCTAAGAGT
* *
47544632 TGTGGTAGTATAAGACCATGTCTGGGACATGGAATCAGCATGTATATATACGAGAGCTAGTGTAA
1 TGTGCTAGTATAAGACCATGTCTGGGACATGGAATCAGCACGTATATATACGAGAGCTAGTGTAA
*
47544697 TACATGTTTGGGACATGCATCGGCTAAGAGT
66 GACATGTTTGGGACATGCATCGGCTAAGAGT
* * *
47544728 TGTGCTAGTATAAGACTATGTCTGGGACATGGCATTAGCACGTATATATACGAGAGCTAGTGTAA
1 TGTGCTAGTATAAGACCATGTCTGGGACATGGAATCAGCACGTATATATACGAGAGCTAGTGTAA
* * * * *
47544793 GACCATGTTTAGGACACGGCATCTGCCT-CGATGA
66 GA-CATGTTTGGGACA-TGCATC-GGCTAAGA-GT
*
47544827 TGATAGCAAGTATAAGACCATGTCTGGGACATGG
1 TG-T-GCTAGTATAAGACCATGTCTGGGACATGG
47544861 CATCGTCAAC
Statistics
Matches: 270, Mismatches: 34, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
91 12 0.04
92 17 0.06
93 18 0.07
94 48 0.18
95 18 0.07
96 104 0.39
97 12 0.04
98 7 0.03
99 6 0.02
100 1 0.00
101 27 0.10
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (96 bp):
TGTGCTAGTATAAGACCATGTCTGGGACATGGAATCAGCACGTATATATACGAGAGCTAGTGTAA
GACATGTTTGGGACATGCATCGGCTAAGAGT
Found at i:47550184 original size:27 final size:27
Alignment explanation
Indices: 47550106--47550201 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 27
47550096 ATTTTCATGT
* * * *
47550106 AGGCTTTCATCTCTTAGTTCGCCACAA
1 AGGCTTCCATTTCTTAGATCACCACAA
* * * **
47550133 AGGTTTCCATTTTTTGGATTGCCACAA
1 AGGCTTCCATTTCTTAGATCACCACAA
*
47550160 AGGCTTCCATTTCTTATATCACCACAA
1 AGGCTTCCATTTCTTAGATCACCACAA
47550187 AGGCTTCCAATTTCT
1 AGGCTTCC-ATTTCT
47550202 AGCGTGTTCA
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
27 49 0.89
28 6 0.11
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (27 bp):
AGGCTTCCATTTCTTAGATCACCACAA
Found at i:47554596 original size:18 final size:18
Alignment explanation
Indices: 47554546--47554599 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
47554536 GCCTTCATTG
*
47554546 GGATCTTCTTCCTCCTCTA
1 GGATCTTCTTCCTCTTC-A
*
47554565 GG-TCCTCTTCCTCTTCA
1 GGATCTTCTTCCTCTTCA
47554582 GGATCTTCTTCCTCTTCA
1 GGATCTTCTTCCTCTTCA
47554600 TTACTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.10
18 26 0.84
19 2 0.06
ACGTcount: A:0.09, C:0.37, G:0.11, T:0.43
Consensus pattern (18 bp):
GGATCTTCTTCCTCTTCA
Found at i:47557838 original size:16 final size:17
Alignment explanation
Indices: 47557809--47557851 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
47557799 ATATATATAT
*
47557809 AAAGTAAAAGGAATA-AA
1 AAAG-AAAAAGAATAGAA
47557826 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
47557843 AAAGAAAAA
1 AAAGAAAAA
47557852 AAGGATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:47560370 original size:46 final size:46
Alignment explanation
Indices: 47559997--47560364 Score: 583
Period size: 46 Copynumber: 8.0 Consensus size: 46
47559987 AGTGTGCTCT
**
47559997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
47560043 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
47560089 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
47560135 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
47560181 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACAATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
47560227 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
47560273 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
47560319 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
47560365 ATGACAGAAA
Statistics
Matches: 303, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 303 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:47560377 original size:92 final size:92
Alignment explanation
Indices: 47559997--47560412 Score: 573
Period size: 92 Copynumber: 4.5 Consensus size: 92
47559987 AGTGTGCTCT
* ** **
47559997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
47560062 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * ** *
47560089 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
47560154 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
47560181 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACAATGGCAACCTGATATGAAATGTGTAAG
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
47560246 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * *
47560273 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
47560338 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * *
47560365 ATGACA-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATG-A--A-TAAGACCATGGTTGAAAGATACCATGGCA
47560413 TCATGTCAAA
Statistics
Matches: 291, Mismatches: 28, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
91 1 0.00
92 262 0.90
93 1 0.00
95 1 0.00
96 26 0.09
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:47560377 original size:138 final size:138
Alignment explanation
Indices: 47559997--47560364 Score: 646
Period size: 138 Copynumber: 2.7 Consensus size: 138
47559987 AGTGTGCTCT
** * * * **
47559997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
*
47560062 ACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
47560127 ATGGCAAC
131 ATGGCAAC
*
47560135 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
*
47560200 ACCATGGTTGAAAGATACAATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
47560265 ATGGCAAC
131 ATGGCAAC
47560273 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
47560338 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
47560365 ATGACAGAAA
Statistics
Matches: 218, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 218 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (138 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:47564766 original size:40 final size:41
Alignment explanation
Indices: 47564704--47564854 Score: 200
Period size: 40 Copynumber: 3.7 Consensus size: 41
47564694 GATGGCAAAG
*
47564704 CAGCTATATATGGCACTTAGTGTACGAGGTCGAGATAGCTT
1 CAGCTATATATGGCACTTAGTGTACGAGATCGAGATAGCTT
* * *
47564745 CGGCTA-ATATGGCACTTAGTGTGCGAGATCGATATAGCTT
1 CAGCTATATATGGCACTTAGTGTACGAGATCGAGATAGCTT
* *
47564785 CAGCTATATATGGCACTTAGTGTGC-A-ATTTGAGATAGCTT
1 CAGCTATATATGGCACTTAGTGTACGAGA-TCGAGATAGCTT
* *
47564825 CAGCTATGTACGGCACTTAGTGTACGAGAT
1 CAGCTATATATGGCACTTAGTGTACGAGAT
47564855 ATCGAGTATT
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 69 0.72
41 25 0.26
42 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (41 bp):
CAGCTATATATGGCACTTAGTGTACGAGATCGAGATAGCTT
Done.