Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 128 of 425
Found at i:38333670 original size:20 final size:20
Alignment explanation
Indices: 38333645--38333731 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
38333635 TTATGAATAC
38333645 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38333665 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
38333685 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38333705 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38333725 ATCATGT
1 ATCATGT
38333732 ATATCAAAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38333676 original size:11 final size:11
Alignment explanation
Indices: 38333645--38333720 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
38333635 TTATGAATAC
38333645 ATCATGTGCAT
1 ATCATGTGCAT
*
38333656 ATCA--TACAT
1 ATCATGTGCAT
38333665 ATCATGTGCAT
1 ATCATGTGCAT
*
38333676 ATC--GTACAT
1 ATCATGTGCAT
38333685 ATCATGTGCAT
1 ATCATGTGCAT
*
38333696 ATCA--TACAT
1 ATCATGTGCAT
38333705 ATCATGTGCAT
1 ATCATGTGCAT
38333716 ATCAT
1 ATCAT
38333721 ACATATCATG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:38335454 original size:40 final size:40
Alignment explanation
Indices: 38335410--38335593 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
38335400 GCTACTTGTT
*
38335410 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
38335450 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
38335490 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
38335529 CAAATGCCTTC-GGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
38335570 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
38335594 ACATCATTCG
Statistics
Matches: 121, Mismatches: 15, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 75 0.62
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:38335510 original size:79 final size:80
Alignment explanation
Indices: 38335412--38335594 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
38335402 TACTTGTTCA
* *
38335412 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* * *
38335475 ATTTAGTGAC-TCGCACC
64 ATATAGTCACTTAGCA-C
** *
38335492 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCTGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
38335556 ATAGTCACTTAGCAC
66 ATAGTCACTTAGCAC
*
38335571 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38335595 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTCACTTAGCAC
Found at i:38345493 original size:46 final size:45
Alignment explanation
Indices: 38345440--38345704 Score: 263
Period size: 46 Copynumber: 5.7 Consensus size: 45
38345430 TGGGCATCCA
38345440 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
38345486 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
*
38345533 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
38345579 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC-
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
38345625 AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC-G
*
38345672 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38345705 GCGGGTTACA
Statistics
Matches: 179, Mismatches: 23, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 4 0.02
46 94 0.53
47 63 0.35
48 2 0.01
49 6 0.03
50 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:38345551 original size:47 final size:47
Alignment explanation
Indices: 38345482--38345650 Score: 213
Period size: 47 Copynumber: 3.6 Consensus size: 47
38345472 GATGCGAATG
38345482 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *** * *
38345529 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA
38345573 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
38345622 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTC
38345651 ACTTATGGAT
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 34 0.33
47 58 0.57
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:38345591 original size:93 final size:93
Alignment explanation
Indices: 38345432--38345696 Score: 478
Period size: 93 Copynumber: 2.8 Consensus size: 93
38345422 AGGATATTTG
*
38345432 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
38345497 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
38345525 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
38345590 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
38345618 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGA
38345682 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
38345697 ACTTATGGGC
Statistics
Matches: 166, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
92 2 0.01
93 164 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38350651 original size:40 final size:40
Alignment explanation
Indices: 38350606--38350772 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
38350596 CGGAATATAA
38350606 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
38350646 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
38350686 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
38350726 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
38350765 CCGGATAT
1 CCGGATAT
38350773 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38358628 original size:40 final size:40
Alignment explanation
Indices: 38358583--38358750 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
38358573 CGGAATATAA
38358583 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
38358623 CCGGATAGAATGACTCGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
38358663 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
38358703 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
38358743 CCGGATAT
1 CCGGATAT
38358751 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38358741 original size:80 final size:80
Alignment explanation
Indices: 38358599--38358748 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 80
38358589 ATAACCACGT
* * *
38358599 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTTGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
38358664 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
38358679 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
38358742 CCCGGAT
64 CCCGGAT
38358749 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
79 3 0.05
80 56 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:38362298 original size:46 final size:46
Alignment explanation
Indices: 38362245--38362420 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
38362235 TATTTGGGCA
38362245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
38362291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
38362338 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
38362384 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38362421 GTGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 69 0.63
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38362400 original size:93 final size:93
Alignment explanation
Indices: 38362241--38362412 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
38362231 AGGATATTTG
*
38362241 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
38362306 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
38362334 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
38362399 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
38362413 ACTTATGGGT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38367780 original size:46 final size:46
Alignment explanation
Indices: 38367727--38367995 Score: 287
Period size: 46 Copynumber: 5.8 Consensus size: 46
38367717 TATTTGGGCA
38367727 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * * *
38367773 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAA-G
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAATG
*
38367818 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
38367866 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
38367913 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38367959 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38367996 GCGAGTTACA
Statistics
Matches: 182, Mismatches: 29, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 2 0.01
46 103 0.57
47 67 0.37
48 2 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38367842 original size:47 final size:47
Alignment explanation
Indices: 38367724--38367941 Score: 214
Period size: 47 Copynumber: 4.7 Consensus size: 47
38367714 GGATATTTGG
*** * * *
38367724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAA
38367771 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAA
* *** * * *
38367817 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAA
*
38367864 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAA
* *
38367910 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
38367942 ACTTATGGAT
Statistics
Matches: 139, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 67 0.48
47 68 0.49
48 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAA
Found at i:38367883 original size:93 final size:93
Alignment explanation
Indices: 38367724--38367987 Score: 474
Period size: 93 Copynumber: 2.8 Consensus size: 93
38367714 GGATATTTGG
*
38367724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
38367789 TGAGTCCGAGTTCGAGAGATGTAACTAA
66 TGAGTCCGAGTTCGAGAGATGTAACTAA
38367817 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
38367882 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAA
* * * *
38367910 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTTGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
38367975 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38367988 ACTTATGGGC
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAA
Found at i:38371388 original size:15 final size:15
Alignment explanation
Indices: 38371368--38371410 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
38371358 TCTTATATAT
* * *
38371368 TGAAACTTTAGATTG
1 TGAAACTATAGACTA
38371383 TGAAACTATAGACTA
1 TGAAACTATAGACTA
38371398 TGAAACTATAGAC
1 TGAAACTATAGAC
38371411 AGTGAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (15 bp):
TGAAACTATAGACTA
Found at i:38371416 original size:15 final size:15
Alignment explanation
Indices: 38371368--38371417 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
38371358 TCTTATATAT
* **
38371368 TGAAACTTTAGATTG
1 TGAAACTATAGACAG
38371383 TGAAACTATAGACTA-
1 TGAAACTATAGAC-AG
38371398 TGAAACTATAGACAG
1 TGAAACTATAGACAG
38371413 TGAAA
1 TGAAA
38371418 TTGTGACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.97
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (15 bp):
TGAAACTATAGACAG
Found at i:38373548 original size:19 final size:19
Alignment explanation
Indices: 38373524--38373562 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38373514 ACTATTTTGC
38373524 ATAAGT-TGCGAAATAAGTG
1 ATAAGTGTGCGAAAT-AGTG
*
38373543 ATAAGTGTGTGAAATAGTG
1 ATAAGTGTGCGAAATAGTG
38373562 A
1 A
38373563 GAATTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (19 bp):
ATAAGTGTGCGAAATAGTG
Found at i:38374094 original size:46 final size:44
Alignment explanation
Indices: 38374041--38374309 Score: 174
Period size: 46 Copynumber: 5.8 Consensus size: 44
38374031 TCATTTGTGT
*
38374041 GAGCTAGTGTAACACATGTCTGGGACATGCATCGGCAACATT-ATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGATGA
* *
38374087 GAGCTAGTGTAAGACCATGTCTTGGAGATGGCATCGACATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATT--GATGA
* * * *
38374135 GCGCTAGAGTAAGACATGTCTGGGACATGCATC-AGCCTTG-GGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGA-CATTGATGA
* * *
38374178 CGTAAGCCAGTATAAGACATGTCTGGGACATGCATCGGC--T-ATGA
1 -G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGATGA
* *
38374222 GATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGTT-ATGTGA
1 GA-G-CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACA---TTGA--TGA
38374275 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
38374310 AGCCTCGAAG
Statistics
Matches: 178, Mismatches: 22, Indels: 42
0.74 0.09 0.17
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 3 0.02
44 13 0.07
45 20 0.11
46 56 0.31
47 25 0.14
48 21 0.12
50 29 0.16
51 3 0.02
52 1 0.01
53 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGATGA
Found at i:38375348 original size:28 final size:28
Alignment explanation
Indices: 38375308--38375362 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
38375298 CACAGGTTAA
38375308 GACAAGGGCGTGTCG-TGGCCGTGTGATG
1 GACAAGGGCGTGT-GTTGGCCGTGTGATG
*
38375336 GACACGGGCGTGTGTTTGGCCGTGTGA
1 GACAAGGGCGTGTG-TTGGCCGTGTGA
38375363 AAATCCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 1 0.04
28 12 0.50
29 11 0.46
ACGTcount: A:0.13, C:0.18, G:0.45, T:0.24
Consensus pattern (28 bp):
GACAAGGGCGTGTGTTGGCCGTGTGATG
Found at i:38388592 original size:78 final size:78
Alignment explanation
Indices: 38388463--38388622 Score: 275
Period size: 78 Copynumber: 2.1 Consensus size: 78
38388453 GGGAGTAACA
* *
38388463 AGAAAGGTTTTAGAAGCTTAAGTTCGTGTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTA
1 AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTATTTTGATCCAGCCTGAGTCTA
38388528 GGAAGGACTATAT
66 GGAAGGACTATAT
* * *
38388541 AGAAAGTTTTTAGAAGCTTAAGTTTGTCTTGACTCAAGCACCTATTTTGATCCAGCCTGAGTCTG
1 AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTATTTTGATCCAGCCTGAGTCTA
38388606 GGAAGGACTATAT
66 GGAAGGACTATAT
38388619 AGAA
1 AGAA
38388623 GACAGTGATG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (78 bp):
AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTATTTTGATCCAGCCTGAGTCTA
GGAAGGACTATAT
Found at i:38395421 original size:37 final size:37
Alignment explanation
Indices: 38395371--38395446 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
38395361 AGAACAAATT
* *
38395371 AAAATTTAGCAATGCAAATGATGAGGCATAGTCAAGA
1 AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
*
38395408 AAAATTCAGCAATGCAAATGATGAGACATAGTCAGGA
1 AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
38395445 AA
1 AA
38395447 CTAACCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (37 bp):
AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
Found at i:38396877 original size:21 final size:21
Alignment explanation
Indices: 38396828--38396870 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38396818 TACTTGAATG
38396828 TTGTGTTGTATGGAATTTGAC
1 TTGTGTTGTATGGAATTTGAC
38396849 TTGTGTTGTATGGAATTTGAC
1 TTGTGTTGTATGGAATTTGAC
38396870 T
1 T
38396871 GATGTTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.49
Consensus pattern (21 bp):
TTGTGTTGTATGGAATTTGAC
Found at i:38397729 original size:20 final size:20
Alignment explanation
Indices: 38397704--38397744 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
38397694 GGGTATACCT
38397704 AGTAGAATAATTTTGGTATA
1 AGTAGAATAATTTTGGTATA
*
38397724 AGTAGAATCATTTTGGTATA
1 AGTAGAATAATTTTGGTATA
38397744 A
1 A
38397745 TGGCATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (20 bp):
AGTAGAATAATTTTGGTATA
Found at i:38401685 original size:27 final size:27
Alignment explanation
Indices: 38401655--38401719 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
38401645 GGCATTTCAG
* *
38401655 TAATTTTACAAGTCGAGGGTATTTCGA
1 TAATTTTACAAGTCAAGGATATTTCGA
* *
38401682 TAATTTTACAGGTCAAGGATATTTCGG
1 TAATTTTACAAGTCAAGGATATTTCGA
*
38401709 TAATTTCACAA
1 TAATTTTACAA
38401720 ATTATGGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCAAGGATATTTCGA
Found at i:38414364 original size:57 final size:57
Alignment explanation
Indices: 38414230--38414365 Score: 222
Period size: 57 Copynumber: 2.4 Consensus size: 57
38414220 ACGATTAGGC
* *
38414230 TTTAGCCTGGACTGGTAATCCTAATTGAGCATTTTTTAGCTTACTTTATATAAAGGA
1 TTTAGCCTGGACTGGTAATCTTAATTGAGCATTTTTTAGCTTACGTTATATAAAGGA
38414287 TTTAGCCTGGACTGGTAATCTTAATTGAGC-TCTTTTTAGCTTACGTTA-AGTAAAGGA
1 TTTAGCCTGGACTGGTAATCTTAATTGAGCAT-TTTTTAGCTTACGTTATA-TAAAGGA
38414344 TTTAGCCTGGACTGGTAATCTT
1 TTTAGCCTGGACTGGTAATCTT
38414366 GTTATACGAT
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
56 2 0.03
57 73 0.97
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (57 bp):
TTTAGCCTGGACTGGTAATCTTAATTGAGCATTTTTTAGCTTACGTTATATAAAGGA
Found at i:38417681 original size:40 final size:40
Alignment explanation
Indices: 38417625--38417792 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
38417615 CAATTGAATG
* *
38417625 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
38417666 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
38417705 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
38417745 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
38417785 ATATCCGG
1 ATATCCGG
38417793 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:38417758 original size:80 final size:79
Alignment explanation
Indices: 38417625--38417792 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
38417615 CAATTGAATG
* *
38417625 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
38417690 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
38417705 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
38417769 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
38417785 ATATCCGG
1 ATATCCGG
38417793 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:38425679 original size:40 final size:40
Alignment explanation
Indices: 38425623--38425790 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
38425613 CAATTGAATG
* *
38425623 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
38425664 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
38425703 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
38425743 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
38425783 ATATCCGG
1 ATATCCGG
38425791 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:38425756 original size:80 final size:79
Alignment explanation
Indices: 38425623--38425790 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
38425613 CAATTGAATG
* *
38425623 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
38425688 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
38425703 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
38425767 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
38425783 ATATCCGG
1 ATATCCGG
38425791 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:38433677 original size:40 final size:40
Alignment explanation
Indices: 38433621--38433788 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
38433611 CAATTGAATG
* *
38433621 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
38433662 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
38433701 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
38433741 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
38433781 ATATCCGG
1 ATATCCGG
38433789 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:38433754 original size:80 final size:79
Alignment explanation
Indices: 38433621--38433788 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
38433611 CAATTGAATG
* *
38433621 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
38433686 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
38433701 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
38433765 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
38433781 ATATCCGG
1 ATATCCGG
38433789 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:38445328 original size:46 final size:46
Alignment explanation
Indices: 38445278--38445453 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38445268 TGGTTGAGCA
38445278 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38445324 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38445369 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38445417 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38445454 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
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:38445434 original size:93 final size:93
Alignment explanation
Indices: 38445275--38445446 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38445265 GGATGGTTGA
* *
38445275 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38445340 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38445368 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38445433 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38445447 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38452838 original size:46 final size:45
Alignment explanation
Indices: 38452788--38452962 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
38452778 TGGTTGAGCA
38452788 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
38452834 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
38452880 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
38452926 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38452963 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 98 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38452942 original size:92 final size:92
Alignment explanation
Indices: 38452785--38452955 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
38452775 GGATGGTTGA
* *
38452785 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38452850 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
38452877 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38452942 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38452956 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:38455504 original size:46 final size:46
Alignment explanation
Indices: 38455450--38455625 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
38455440 TGGATGAGCA
* * *
38455450 TCCGAACTCGTTGAATTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38455496 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
38455541 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38455589 CCCGAACTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
38455626 GCGCGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38455562 original size:93 final size:93
Alignment explanation
Indices: 38455447--38455618 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
38455437 GGATGGATGA
* * *
38455447 GCATCCGAACTCGTTGAATTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
38455512 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
38455540 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
38455605 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38455619 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38462911 original size:49 final size:50
Alignment explanation
Indices: 38462831--38463063 Score: 299
Period size: 49 Copynumber: 4.7 Consensus size: 50
38462821 AACTATTGTG
*
38462831 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
** * * *
38462881 -GGTGGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
38462931 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
38462981 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
38463031 -GGTCGCATGTGTAGTACTAATTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
38463064 TGCATACCAG
Statistics
Matches: 156, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 71 0.46
50 48 0.31
51 37 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:38462968 original size:28 final size:28
Alignment explanation
Indices: 38462936--38463019 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
38462926 AATTTCGATC
38462936 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
38462964 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
38462986 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
38463014 ACGTGT
1 ACGTGT
38463020 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:38468922 original size:40 final size:40
Alignment explanation
Indices: 38468869--38469124 Score: 347
Period size: 40 Copynumber: 6.4 Consensus size: 40
38468859 GATGATAACT
* * * *
38468869 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
38468909 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
38468949 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
38468989 GGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
38469029 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * * *
38469069 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
38469109 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
38469125 TACCTGGCTT
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.08
40 181 0.92
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:38480338 original size:27 final size:27
Alignment explanation
Indices: 38480307--38480801 Score: 144
Period size: 27 Copynumber: 18.6 Consensus size: 27
38480297 TTAGTTTAAC
* *
38480307 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
38480334 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
* **
38480361 AAATTACCCAAATTTCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
38480388 AAATTACTGAAATA----AGA----TA
1 AAATTACTCAAATACCCTCGATTTGTA
* ** **
38480407 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* ** **
38480434 GAATTAC-CATTGTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* * * **
38480461 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACTCAAATACCCTCGATTTGTA
* ***
38480488 AAATTACCCAAATACCCTCGATCAATA
1 AAATTACTCAAATACCCTCGATTTGTA
*
38480515 AAATTAC-CAAAATACCC-CTGGTTTGTA
1 AAATTACTC-AAATACCCTC-GATTTGTA
* * * *
38480542 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTGTA
** *
38480569 AAAACAC-CAAAATACCC-CTGGTTTGTA
1 AAATTACTC-AAATACCCTC-GATTTGTA
* * * **
38480596 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
38480623 AGATCAC-CAAAATA-CCTCTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
*
38480650 AAATTAC-CAAAATACCCTTCG-TTTATA
1 AAATTACTC-AAATACCC-TCGATTTGTA
* *
38480677 AAATCAC-CAAAATACTCCT-GGTTTGTA
1 AAATTACTC-AAATAC-CCTCGATTTGTA
* * **
38480704 AAATTAC-CAAAATACCCTTGGTTTACA
1 AAATTACTC-AAATACCCTCGATTTGTA
*
38480731 AAATTAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
*
38480758 AAATTAC-CAAAATACCC-CTGATTTGTG
1 AAATTACTC-AAATACCCTC-GATTTGTA
38480785 AAATTAC-CGAAATACCC
1 AAATTACTC-AAATACCC
38480802 CTGTAGGGTA
Statistics
Matches: 362, Mismatches: 77, Indels: 58
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.00
19 10 0.03
23 4 0.01
26 12 0.03
27 323 0.89
28 10 0.03
29 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:38480493 original size:54 final size:53
Alignment explanation
Indices: 38480419--38480774 Score: 169
Period size: 54 Copynumber: 6.6 Consensus size: 53
38480409 ATTACCATTT
* * * ** ** **
38480419 TACCCTCGATTTACAGAATTACCATTGTACCCTCGATTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCA-AATACCCTCGATCAACAAAATTACCAAAA
*
38480473 TACCCTTGGTTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTA-CCAAATACCCTCGATCAACAAAATTACCAAAA
* ** * * * ** * **
38480527 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACCAAAA
1 TACCCTTGGTTTACAAAATTAC-CAAATACCCTCGATCAACAAAATTACCAAAA
* ** * * * ** * *
38480581 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTACAAGATCACCAAAA
1 TACCCTTGGTTTACAAAATTAC-CAAATACCCTCGATCAACAAAATTACCAAAA
* ** ** * *
38480635 TA-CCTCTAGTTTGTAAAATTACCAAAATACCCTTCG-TTTATAAAATCACCAAAA
1 TACCCT-TGGTTTACAAAATTACC-AAATACCC-TCGATCAACAAAATTACCAAAA
** * * **
38480689 TACTCC-TGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TAC-CCTTGGTTTACAAAATTACC-AAATACCCTCGATCAACAAAATTACCAAAA
* * **
38480743 TACCCCTAGTTTGTAAAATTACCAAAATACCC
1 TACCCTTGGTTTACAAAATTACC-AAATACCC
38480775 CTGATTTGTG
Statistics
Matches: 259, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
53 7 0.03
54 245 0.95
55 5 0.02
56 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (53 bp):
TACCCTTGGTTTACAAAATTACCAAATACCCTCGATCAACAAAATTACCAAAA
Found at i:38480783 original size:81 final size:81
Alignment explanation
Indices: 38480460--38480801 Score: 400
Period size: 81 Copynumber: 4.2 Consensus size: 81
38480450 CTCGATTTAC
** * **
38480460 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCCAAATA-CCCTCGATCAATAAAATTACCA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTCG-TTTATAAAATTACCA
38480524 AAATACCCCTGGTTTGT
65 AAATACCCCTGGTTTGT
* * ** * * *
38480541 AAAATTACTAAAATACCCTTGGTTTATAAAAACACCAAAATACCCCTGGTTTGTAAAATTACTAA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTCGTTTATAAAATTACCAA
* **
38480606 AATACCCTTGGTTTAC
66 AATACCCCTGGTTTGT
* * * ** * *
38480622 AAGATCACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCCTTCGTTTATAAAATCACCA
1 AAAATTACCAAAATACCCT-TGGTTTACAAAATTACCAAAATACCCCTCGTTTATAAAATTACCA
*
38480686 AAATACTCCTGGTTTGT
65 AAATACCCCTGGTTTGT
* *
38480703 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTCGTTTATAAAATTACCAA
*
38480768 AATACCCCTGATTTGT
66 AATACCCCTGGTTTGT
* *
38480784 GAAATTACCGAAATACCC
1 AAAATTACCAAAATACCC
38480802 CTGTAGGGTA
Statistics
Matches: 216, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
80 3 0.01
81 205 0.95
82 8 0.04
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTCGTTTATAAAATTACCAA
AATACCCCTGGTTTGT
Found at i:38480789 original size:54 final size:54
Alignment explanation
Indices: 38480470--38480804 Score: 427
Period size: 54 Copynumber: 6.2 Consensus size: 54
38480460 AAAATTACTG
* ** * * * ** *
38480470 AAATACCCTTGGTTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* *
38480524 AAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACCA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * *
38480578 AAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTACAAGATCACCA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * *
38480632 AAATACCTCTAGTTTGTAAAATTACCAAAATACCCTTCGTTTATAAAATCACCA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * *
38480686 AAATACTCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * * * * * *
38480740 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCG
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
38480794 AAATACCCCTG
1 AAATACCCCTG
38480805 TAGGGTAGAA
Statistics
Matches: 246, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 246 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (54 bp):
AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
Found at i:38480802 original size:27 final size:27
Alignment explanation
Indices: 38480460--38480804 Score: 359
Period size: 27 Copynumber: 12.8 Consensus size: 27
38480450 CTCGATTTAC
** * **
38480460 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * ***
38480487 AAAATTACCCAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GGTTTGT
38480514 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
38480541 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
38480568 AAAAACACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
38480595 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
38480622 AAGATCACCAAAATACCTCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
38480649 AAAATTACCAAAATACCCTTCGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
38480676 AAAATCACCAAAATACTCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
38480703 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
38480730 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
38480757 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
38480784 GAAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
38480805 TAGGGTAGAA
Statistics
Matches: 258, Mismatches: 58, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
26 3 0.01
27 251 0.97
28 4 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:38480816 original size:27 final size:27
Alignment explanation
Indices: 38480786--38481249 Score: 675
Period size: 27 Copynumber: 17.3 Consensus size: 27
38480776 TGATTTGTGA
38480786 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38480813 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38480840 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38480867 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38480894 AATTACCGAAATACCACTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38480921 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
38480948 AATTACAGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38480975 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38481002 AATTACCGGAATACCCCTGGAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38481029 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38481056 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38481083 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
38481110 AATTACTTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38481137 AATTACC-AGAATA-CCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
38481163 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
38481190 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
38481217 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
38481243 AATTACC
1 AATTACC
38481250 ATTTTGCCCC
Statistics
Matches: 394, Mismatches: 38, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
26 41 0.10
27 352 0.89
28 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38480817 original size:54 final size:54
Alignment explanation
Indices: 38480732--38481250 Score: 661
Period size: 54 Copynumber: 9.6 Consensus size: 54
38480722 TGGTTTACAA
* ** * **
38480732 AATTACCAAAATACCCCTAGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCAAAATACCCCTGTA-GGGTAG
**
38480785 AAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* **
38480840 AATTACCGAAATACCCCTATAGGGTAGAATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
38480894 AATTACCGAAATACCACTGTAGGGTAGAATTACCAGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * **
38480948 AATTACAGAAATACCCCTGTAAGGTAGAATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * **
38481002 AATTACCGGAATACCCCTGGAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
38481056 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
** * *
38481110 AATTACTTAAATACCCTTGTAGGGTAGAATTACCAGAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
38481163 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
38481217 AATTACCGAGATA-CCTTGTGGGGTAAAATTACCA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCA
38481251 TTTTGCCCCT
Statistics
Matches: 414, Mismatches: 47, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
53 68 0.16
54 344 0.83
55 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:38480817 original size:81 final size:80
Alignment explanation
Indices: 38480732--38481250 Score: 537
Period size: 81 Copynumber: 6.4 Consensus size: 80
38480722 TGGTTTACAA
** * * *
38480732 AATTACCAAAATACCCCTAGT-TTGTAAAATTACCAAAATACCCCTGATTTGTGA-AATTACCGA
1 AATTACCAAAATACCCCT-GTAGGGTAAAATTACCAAAATACCCCTG--TAGGGAGAATTACCAA
38480795 AATACCCCTGTAGGGTAG
63 AATACCCCTGTAGGGTAG
** * * * **
38480813 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGGAA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGG-AGAATTACCAAAA
38480878 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * *
38480894 AATTACCGAAATACCACTGTAGGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTA-CAGAA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGG-AGAATTACCA-AA
*
38480958 ATACCCCTGTAAGGTAG
64 ATACCCCTGTAGGGTAG
* ** * ** * **
38480975 AATTATCGCAATACCCCTGTAGGGTAGAATTACCGGAATACCCCTGGAGGGTAGAATTACTGAAA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGG-AGAATTACCAAAA
38481040 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * **
38481056 AATTACCGAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACTTAA
1 AATTACCAAAATACCCCTGTAGGGTA-AAATTACCAAAATACCCCTGTAGGG-AGAATTACCAAA
*
38481120 ATACCCTTGTAGGGTAG
64 ATACCCCTGTAGGGTAG
* * ** *
38481137 AATTACCAGAATA-CCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGG-AGAATTACCAAAA
38481201 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * *
38481217 AATTACCGAGATA-CCTTGTGGGGTAAAATTACCA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTACCA
38481251 TTTTGCCCCT
Statistics
Matches: 382, Mismatches: 49, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
79 5 0.01
80 89 0.23
81 286 0.75
82 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (80 bp):
AATTACCAAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGAGAATTACCAAAAT
ACCCCTGTAGGGTAG
Found at i:38481077 original size:22 final size:25
Alignment explanation
Indices: 38480732--38481231 Score: 405
Period size: 27 Copynumber: 18.6 Consensus size: 25
38480722 TGGTTTACAA
* * *
38480732 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCCT-G-TGGTAG
* *
38480759 AATTACCAAAATACCCCTGATTTGT-G
1 AATTACCGAAATACCCCTG--TGGTAG
38480785 AAATTACCGAAATACCCCTGTAGGGTAG
1 -AATTACCGAAATACCCCTGT--GGTAG
*
38480813 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
*
38480840 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
*
38480867 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
*
38480894 AATTACCGAAATACCACTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
38480921 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGT--GGTAG
*
38480948 AATTACAGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
* *
38480975 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
* *
38481002 AATTACCGGAATACCCCTGGAGGGTAG
1 AATTACCGAAATACCCCT-G-TGGTAG
*
38481029 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
*
38481056 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
*
38481083 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
** *
38481110 AATTACTTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
38481137 AATTACC-AGAATA-CCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGT--GGTAG
*
38481163 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
**
38481190 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGT--GGTAG
*
38481217 AATTACCGAGATACC
1 AATTACCGAAATACC
38481232 TTGTGGGGTA
Statistics
Matches: 421, Mismatches: 38, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.00
26 26 0.06
27 391 0.93
28 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (25 bp):
AATTACCGAAATACCCCTGTGGTAG
Found at i:38481660 original size:6 final size:6
Alignment explanation
Indices: 38481651--38481725 Score: 98
Period size: 6 Copynumber: 12.3 Consensus size: 6
38481641 TTGCATTCAC
* *
38481651 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
38481700 ATTCTG ATTCTG ATTCTG GTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT
38481726 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
5 1 0.02
6 56 0.93
7 2 0.03
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38483692 original size:27 final size:27
Alignment explanation
Indices: 38483661--38483755 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
38483651 TTAGTTTACC
* * *
38483661 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATAACCTCGATTTGTA
*
38483688 AAATTAC-CAAAGTAACCT-GATTTATA
1 AAATTACTCAAA-TAACCTCGATTTGTA
*
38483714 AAATTA-TCCAAATATCCTCGATTTGTA
1 AAATTACT-CAAATAACCTCGATTTGTA
*
38483741 AAATTACTGAAATAA
1 AAATTACTCAAATAA
38483756 GATAGAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
26 20 0.36
27 34 0.62
28 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTCAAATAACCTCGATTTGTA
Found at i:38483789 original size:27 final size:27
Alignment explanation
Indices: 38483759--38483820 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
38483749 GAAATAAGAT
* *
38483759 AGAATTTCCATTTTACCCTCGATTTAC
1 AGAATTACCATTGTACCCTCGATTTAC
38483786 AGAATTACCATTGTACCCTCGATTTAC
1 AGAATTACCATTGTACCCTCGATTTAC
*
38483813 AAAATTAC
1 AGAATTAC
38483821 TGAAATACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.35
Consensus pattern (27 bp):
AGAATTACCATTGTACCCTCGATTTAC
Found at i:38483857 original size:54 final size:53
Alignment explanation
Indices: 38483799--38484156 Score: 346
Period size: 54 Copynumber: 6.7 Consensus size: 53
38483789 ATTACCATTG
* * ** ** *
38483799 TACCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTATCCAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAA
* ** * *
38483853 TACCCTCGATCAATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTAC-AAAA
* * *
38483907 TACCCTTTG-TTTATAAAATCACAAAAATACCCTTAGTTTGTAAAATTACTAAAA
1 TACCC-TTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTAC-AAAA
* * * *
38483961 TACCTTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAA
* * * * *
38484015 TATCCTTGGTTTATAAAATCACTAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAA
* *
38484069 TACCCTTGGTTTAGAAAATTACC-AAATATCCCTAT--TTTGTAAAATTAACAAAA
1 TACCCTTGATTTATAAAATTACCAAAATA-CCCT-TGGTTTGTAAAATT-ACAAAA
* * *
38484122 TACCCTTGATTTGTGAAATTACCGAAATACCCTTG
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTG
38484157 TAGGGTAGAA
Statistics
Matches: 263, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
52 1 0.00
53 48 0.18
54 210 0.80
55 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
TACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACAAAA
Found at i:38483908 original size:81 final size:79
Alignment explanation
Indices: 38483813--38484156 Score: 341
Period size: 81 Copynumber: 4.3 Consensus size: 79
38483803 CTCGATTTAC
** * ** *
38483813 AAAATTACTGAAATACCCTTGGTTTACAAAATTATCCAAATACCCTCGATCAATAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTA-CCAAATACCCT-GATTTATAAAATTACTAA
*
38483878 AATACCCCTAGTTTGT
64 AATACCCCTGGTTTGT
* * * * * *
38483894 AAAATTACTAAAATACCCTTTGTTTATAAAATCACAAAAATACCCTTAGTTTGTAAAATTACTAA
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTAC-CAAATACCCTGA-TTTATAAAATTACTAA
** *
38483959 AATACCTTTGGTTTAT
64 AATACCCCTGGTTTGT
* * * * * *
38483975 AAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATATCCTTGGTTTATAAAATCACTAA
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACC-AAATA-CCCTGATTTATAAAATTACTAA
38484040 AATACCCCTGGTTTGT
64 AATACCCCTGGTTTGT
* *
38484056 AAAATTACCAAAATACCCTTGGTTTAGAAAATTACCAAATATCCCT-ATTTTGTAAAATTAAC-A
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAATA-CCCTGA-TTTATAAAATT-ACTA
* *
38484119 AAATACCCTTGATTTGT
63 AAATACCCCTGGTTTGT
* *
38484136 GAAATTACCGAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
38484157 TAGGGTAGAA
Statistics
Matches: 216, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
80 55 0.25
81 158 0.73
82 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (79 bp):
AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAATACCCTGATTTATAAAATTACTAAAA
TACCCCTGGTTTGT
Found at i:38484091 original size:27 final size:27
Alignment explanation
Indices: 38483799--38484156 Score: 268
Period size: 27 Copynumber: 13.3 Consensus size: 27
38483789 ATTACCATTG
* * * **
38483799 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTTGGTTTAGAAAATTACCAAAA
*
38483826 TACCCTTGGTTTACAAAATTATCC-AAA
1 TACCCTTGGTTTAGAAAATTA-CCAAAA
* * ** *
38483853 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGGTTTAGAAAATTACCAAAA
* * *
38483880 TACCCCTAGTTT-GTAAAATTACTAAAA
1 TACCCTTGGTTTAG-AAAATTACCAAAA
* * * *
38483907 TACCCTTTGTTTATAAAATCACAAAAA
1 TACCCTTGGTTTAGAAAATTACCAAAA
* *
38483934 TACCCTTAGTTT-GTAAAATTACTAAAA
1 TACCCTTGGTTTAG-AAAATTACCAAAA
* * *
38483961 TACCTTTGGTTTATAAAATCACCAAAA
1 TACCCTTGGTTTAGAAAATTACCAAAA
*
38483988 TACCCCTGGTTT-GTAAAATTACCAAAA
1 TACCCTTGGTTTAG-AAAATTACCAAAA
* * * *
38484015 TATCCTTGGTTTATAAAATCACTAAAA
1 TACCCTTGGTTTAGAAAATTACCAAAA
*
38484042 TACCCCTGGTTT-GTAAAATTACCAAAA
1 TACCCTTGGTTTAG-AAAATTACCAAAA
38484069 TACCCTTGGTTTAGAAAATTACC-AAA
1 TACCCTTGGTTTAGAAAATTACCAAAA
*
38484095 TATCCCTAT--TTT-GTAAAATTAACAAAA
1 TA-CCCT-TGGTTTAG-AAAATTACCAAAA
* * *
38484122 TACCCTTGATTT-GTGAAATTACCGAAA
1 TACCCTTGGTTTAG-AAAATTACCAAAA
38484149 TACCCTTG
1 TACCCTTG
38484157 TAGGGTAGAA
Statistics
Matches: 266, Mismatches: 49, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.01
26 22 0.08
27 239 0.90
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTAGAAAATTACCAAAA
Found at i:38484168 original size:27 final size:27
Alignment explanation
Indices: 38484138--38484520 Score: 529
Period size: 27 Copynumber: 14.3 Consensus size: 27
38484128 TGATTTGTGA
*
38484138 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38484165 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38484192 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
38484219 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38484246 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38484273 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38484300 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
38484327 AATTACCGAAATACCGTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38484354 AAATACGGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38484381 AATTACTGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38484407 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38484434 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
38484461 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
38484488 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
38484514 AATTACC
1 AATTACC
38484521 ATTTTGCCCC
Statistics
Matches: 316, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
26 42 0.13
27 273 0.86
28 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38484931 original size:6 final size:6
Alignment explanation
Indices: 38484922--38484990 Score: 95
Period size: 6 Copynumber: 11.3 Consensus size: 6
38484912 TTGCATTCAC
*
38484922 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
38484971 ATTCTG ATTCTG GTTCTG AT
1 ATTCTG ATTCTG ATTCTG AT
38484991 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
5 1 0.02
6 51 0.91
7 3 0.05
8 1 0.02
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38487019 original size:27 final size:27
Alignment explanation
Indices: 38486926--38487448 Score: 177
Period size: 27 Copynumber: 19.6 Consensus size: 27
38486916 TTAGTTTACC
*
38486926 AAATTACTGAAATACCCTCGACTTT-TA
1 AAATTACTCAAATACCCTCGA-TTTATA
* *
38486953 AAATTAC-CAAAGTACCCCCGACTTATA
1 AAATTACTCAAA-TACCCTCGATTTATA
*
38486980 AAATTA-TCCAAATATCCTCGATTTATA
1 AAATTACT-CAAATACCCTCGATTTATA
* *
38487007 AAATTACTGAAATA------A--GATA
1 AAATTACTCAAATACCCTCGATTTATA
* ** *
38487026 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTATA
* ** *
38487053 GAATTAC-CATTTTACCCTCAATTTATA
1 AAATTACTCA-AATACCCTCGATTTATA
* * * *
38487080 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACTCAAATACCCTCGATTTATA
*
38487107 AAATTA-TCCAAATACCCTCGATTAATA
1 AAATTACT-CAAATACCCTCGATTTATA
* *
38487134 AAATTAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTATA
* * *
38487161 AAATTACTGAAATACCCTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTATA
* * * *
38487188 AAATCAC-CAAAATACCCTTGGTTTGTA
1 AAATTACTC-AAATACCCTCGATTTATA
* * * *
38487215 AAATTACTAAAATACCAAAT-GGTTTGTA
1 AAATTACTCAAATACC--CTCGATTTATA
* * * *
38487243 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTATA
* * *
38487270 AAATCAC-CAAAATACCC-CTGGTTTGTA
1 AAATTACTC-AAATACCCTC-GATTTATA
* * *
38487297 AAAATAC-CAAAATACCCTTGGTTTATA
1 AAATTACTC-AAATACCCTCGATTTATA
* * *
38487324 AAATCAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTATA
* * *
38487351 AAATTAC-CAAAATACCCTTGGTTTACA
1 AAATTACTC-AAATACCCTCGATTTATA
* *
38487378 AAATTAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTATA
* *
38487405 AAATTAC-CAAAATACCC-CTGATTTGTG
1 AAATTACTC-AAATACCCTC-GATTTATA
38487432 AAATTAC-CGAAATACCC
1 AAATTACTC-AAATACCC
38487449 CTGTAGGGTA
Statistics
Matches: 389, Mismatches: 74, Indels: 66
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.00
19 11 0.03
21 1 0.00
25 1 0.00
26 10 0.03
27 333 0.86
28 31 0.08
29 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTATA
Found at i:38487449 original size:27 final size:27
Alignment explanation
Indices: 38487078--38487451 Score: 392
Period size: 27 Copynumber: 13.8 Consensus size: 27
38487068 CCTCAATTTA
** * *
38487078 TAAAATTACTGAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
* * **
38487105 CAAAATTATCC-AAATA-CCCTCGATTAA
1 TAAAATTA-CCAAAATACCCCT-GGTTTG
*
38487132 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
** * *
38487159 TAAAATTACTGAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
38487186 TAAAATCACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* **
38487213 TAAAATTACTAAAATACCAAATGGTTTG
1 TAAAATTACCAAAATACC-CCTGGTTTG
* ** *
38487241 TAAAATTACTAAAATACCTTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
*
38487268 TAAAATCACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* * *
38487295 TAAAAATACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
38487322 TAAAATCACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
38487349 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
38487376 CAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
*
38487403 TAAAATTACCAAAATACCCCTGATTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
38487430 TGAAATTACCGAAATACCCCTG
1 TAAAATTACCAAAATACCCCTG
38487452 TAGGGTAGAA
Statistics
Matches: 289, Mismatches: 53, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.02
27 254 0.88
28 30 0.10
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGGTTTG
Found at i:38487463 original size:27 final size:27
Alignment explanation
Indices: 38487433--38487600 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
38487423 TGATTTGTGA
38487433 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38487460 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38487487 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38487514 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38487541 AATTACTGAAATACCCCTGTAGCGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
38487568 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
38487594 AATTACC
1 AATTACC
38487601 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
26 16 0.13
27 107 0.87
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38487464 original size:54 final size:54
Alignment explanation
Indices: 38487294--38487574 Score: 196
Period size: 54 Copynumber: 5.2 Consensus size: 54
38487284 CCCCTGGTTT
* * * *** * * **
38487294 GTAAAAATACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGT-TT
1 GTAAAATTACCAAAATACCCCTGATTTGGGAAATTACCGAAATACCCCT-GTAGG
* * *** * **
38487348 GTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGT-TT
1 GTAAAATTACCAAAATACCCCTGATTTGGGAAATTACCGAAATACCCCT-GTAGG
*
38487402 GTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCCCTGTAGG
1 GTAAAATTACCAAAATACCCCTGATTTGGGAAATTACCGAAATACCCCTGTAGG
* ** * *
38487456 GTAGAATTACTGAAATACCCCT-A-TAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCCTGATTTGGG-A-AATTACCGAAATACCCCTGTAGG
* * * * *
38487510 GTAAAAATACCGAAATACCCCTG--TAGGGTAGAATTACTGAAATACCCCTGTAGC
1 GTAAAATTACCAAAATACCCCTGATTTGGG-A-AATTACCGAAATACCCCTGTAGG
*
38487564 GTAGAATTACC
1 GTAAAATTACC
38487575 GAGATACCTT
Statistics
Matches: 198, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
52 3 0.02
53 4 0.02
54 191 0.96
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTGATTTGGGAAATTACCGAAATACCCCTGTAGG
Found at i:38487464 original size:81 final size:80
Alignment explanation
Indices: 38487132--38487558 Score: 333
Period size: 81 Copynumber: 5.3 Consensus size: 80
38487122 CCTCGATTAA
** * * *
38487132 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCTTGGTTTATAAAATCACCA
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCA
* **
38487197 AAATACCCTTGGTTTG
66 AAATACCCCT-GTGGG
* ** * * * * * *
38487213 TAAAATTACTAAAATACCAAATGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATCACC
1 TAAAATTACCAAAATACC-CCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACC
**
38487278 AAAATACCCCTGGTTTG
65 AAAATACCCCT-GTGGG
* * * * * *
38487295 TAAAAATACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCT-AGTTTGTAAAATTACC
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGA-TTTGTAAAATTACC
*
38487359 AAAATA-CCCT-TGGTT
65 AAAATACCCCTGTGG-G
* *
38487374 TACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTAC
1 T--AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTAC
*
38487439 CGAAATACCCCTGTAGGG
64 CAAAATACCCCTGT-GGG
* ** ** * * ** *
38487457 TAGAATTACTGAAATACCCCTA-TAGGGTAGAATTACCGAAATACCCTTG-TAGGGTAAAAATAC
1 TAAAATTACCAAAATACCCCTAGT-TTGTAAAATTACCAAAATACCCTTGAT-TTGTAAAATTAC
*
38487520 CGAAATACCCCTGTAGGG
64 CAAAATACCCCTGT-GGG
* **
38487538 TAGAATTACTGAAATACCCCT
1 TAAAATTACCAAAATACCCCT
38487559 GTAGCGTAGA
Statistics
Matches: 293, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 6 0.02
81 203 0.69
82 78 0.27
83 2 0.01
84 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCA
AAATACCCCTGTGGG
Found at i:38487568 original size:81 final size:80
Alignment explanation
Indices: 38487436--38487600 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 80
38487426 TTTGTGAAAT
*
38487436 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGCGTAGAATTACCGAAATA-
38487501 CCTTGTAGGGTAAAAA
65 CCTTGTAGGGTAAAAA
* *
38487517 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGCGTAGAATTACCGAGATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGCGTAGAATTACCGAAATAC
* *
38487582 CTTGTGGGGTAAAAT
66 CTTGTAGGGTAAAAA
38487597 TACC
1 TACC
38487601 ATTTTGCCCC
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 18 0.23
81 61 0.77
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (80 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGCGTAGAATTACCGAAATAC
CTTGTAGGGTAAAAA
Found at i:38488060 original size:18 final size:17
Alignment explanation
Indices: 38488034--38488067 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
38488024 CTCATTCTGA
38488034 TTCTGATTCTGATAATGT
1 TTCTGATTCTG-TAATGT
*
38488052 TTCTTATTCTGTAATG
1 TTCTGATTCTGTAATG
38488068 GGCTGGTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
TTCTGATTCTGTAATGT
Found at i:38490013 original size:27 final size:27
Alignment explanation
Indices: 38489982--38490475 Score: 203
Period size: 27 Copynumber: 18.7 Consensus size: 27
38489972 TTAGTTTACC
*
38489982 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
38490009 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
38490036 AAATTA-TCCAAATATCCTCGATTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
* *
38490063 AAATTACTGAAATA----AGA----TA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *** **
38490082 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *** * **
38490109 GAATTACCATTTTACCCTCAATTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* * **
38490136 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* ***
38490163 AAATTA-TCCAAATACCCTCGATCAATA
1 AAATTACT-AAAATACCCTCGATTTGTA
* * *
38490190 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACTAAAATACCCTCGA-TTTGTA
* * *
38490217 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
38490244 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
38490271 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
38490298 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTGTA
* * * *
38490325 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
38490352 AAATCACCAAAATATCCCTAG-TTTGTA
1 AAATTACTAAAATA-CCCTCGATTTGTA
* * * **
38490379 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
38490406 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTCGA-TTTGTA
* *
38490433 AAATTAC--CAATACCC-CTGATTTGTG
1 AAATTACTAAAATACCCTC-GATTTGTA
**
38490458 AAATTACCGAAATACCCT
1 AAATTACTAAAATACCCT
38490476 TGTAGGGTAG
Statistics
Matches: 368, Mismatches: 76, Indels: 45
0.75 0.16 0.09
Matches are distributed among these distances:
19 10 0.03
23 4 0.01
25 20 0.05
26 9 0.02
27 319 0.87
28 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:38490168 original size:54 final size:53
Alignment explanation
Indices: 38490094--38490477 Score: 288
Period size: 54 Copynumber: 7.2 Consensus size: 53
38490084 ATTACCATTT
* * * ** * * *
38490094 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCA-AATACCCTCGATTTATAAAATTACCAAAA
**
38490148 TACCCTTGGTTTACAAAATTATCCAAATACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTA-CCAAATACCCTCGATTTATAAAATTACCAAAA
* * * * * * *
38490202 TACCCCTAGTTTATAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTTGGTTTACAAAATTAC-CAAATACCCTCGATTTATAAAATTACCAAAA
** * * * * *
38490256 TACCCTTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATCACCAAAA
1 TACCCTTGGTTTACAAAATTAC-CAAATACCCTCGATTTATAAAATTACCAAAA
* ** * * *
38490310 TACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTTGGTTTACAAAATTACC-AAATACCCTCGATTTATAAAATTACCAAAA
* ** * * *
38490364 TATCCC-TAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TA-CCCTTGGTTTACAAAATTACC-AAATACCCTCGATTTATAAAATTACCAAAA
* * ** * * *
38490418 TACCCCTAGTTTGTAAAATTACC-AATACCC-CTGATTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAATACCCTC-GATTTATAAAATTACCAAAA
38490470 TACCCTTG
1 TACCCTTG
38490478 TAGGGTAGAA
Statistics
Matches: 287, Mismatches: 37, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
52 28 0.10
53 4 0.01
54 249 0.87
55 6 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.32
Consensus pattern (53 bp):
TACCCTTGGTTTACAAAATTACCAAATACCCTCGATTTATAAAATTACCAAAA
Found at i:38490220 original size:81 final size:81
Alignment explanation
Indices: 38490130--38490477 Score: 407
Period size: 81 Copynumber: 4.3 Consensus size: 81
38490120 TTACCCTCAA
* * * * **
38490130 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTATCC-AAATACCCTCGATCAATAAAAT
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTA-CCAAAATACCCTTGGTTTATAAAAT
38490194 TACCAAAATACCCCTAG
65 TACCAAAATACCCCTAG
* * * *
38490211 TTTATAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCTTGGTTTGTAAAATT
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGGTTTATAAAATT
* ** *
38490276 ACTAAAATACCTTTGG
66 ACCAAAATACCCCTAG
* * ** *
38490292 TTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGGTTTATAAAATT
*
38490357 ACCAAAATATCCCTAG
66 ACCAAAATACCCCTAG
* * * *
38490373 TTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATT
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGGTTTATAAAATT
38490438 ACC--AATACCCCT-G
66 ACCAAAATACCCCTAG
* * *
38490451 ATTTGTGAAATTACCGAAATACCCTTG
1 -TTTATAAAATTACCAAAATACCCTTG
38490478 TAGGGTAGAA
Statistics
Matches: 229, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
78 1 0.00
79 32 0.14
80 2 0.01
81 194 0.85
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGGTTTATAAAATT
ACCAAAATACCCCTAG
Found at i:38490489 original size:27 final size:27
Alignment explanation
Indices: 38490459--38490626 Score: 207
Period size: 27 Copynumber: 6.3 Consensus size: 27
38490449 TGATTTGTGA
38490459 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
38490486 AATTACTGAAATAACCC-TGTAGGGTAG
1 AATTACCGAAAT-ACCCTTGTAGGGTAG
* *
38490513 AATTA-CTAGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCTTGTAGGGTAG
**
38490540 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
38490567 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38490594 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
38490620 AATTACC
1 AATTACC
38490627 ATTTTTCCCC
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 22 0.18
27 97 0.78
28 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:38490526 original size:54 final size:53
Alignment explanation
Indices: 38490459--38490625 Score: 228
Period size: 54 Copynumber: 3.1 Consensus size: 53
38490449 TGATTTGTGA
* *
38490459 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAAT-ACCCTGTAGGGTAG
*
38490513 AATTACT-AGAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGA-AATACCCCTGTAGGGTAGAATTACTGAAATACCC-TGTAGGGTAG
* * * * *
38490567 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTGTAGGGTAG
38490620 AATTAC
1 AATTAC
38490626 CATTTTTCCC
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
53 19 0.19
54 81 0.80
55 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (53 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTGTAGGGTAG
Found at i:38490608 original size:81 final size:80
Alignment explanation
Indices: 38490458--38490625 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 80
38490448 CTGATTTGTG
** *
38490458 AAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTACTAGA
1 AAATTACTAAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTACGAGA
38490523 ATACCCCTGTAGGGTA
66 ATA-CCCTGTAGGGTA
* *
38490539 GAATTACTAAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAG
1 AAATTACTAAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTA-CGAG
* *
38490604 -ATACCTTGTGGGGTA
65 AATACCCTGTAGGGTA
38490619 AAATTAC
1 AAATTAC
38490626 CATTTTTCCC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 16 0.21
81 59 0.76
82 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (80 bp):
AAATTACTAAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTACGAGA
ATACCCTGTAGGGTA
Found at i:38491037 original size:6 final size:6
Alignment explanation
Indices: 38491028--38491084 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
38491018 TTGCATTCAC
* *
38491028 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
38491077 GTTCTG AT
1 ATTCTG AT
38491085 AATGTTTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 1 0.02
6 38 0.90
7 2 0.05
8 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:38493049 original size:27 final size:27
Alignment explanation
Indices: 38493018--38493513 Score: 128
Period size: 27 Copynumber: 18.7 Consensus size: 27
38493008 TTAGTTTACC
* * *
38493018 AAATTACTGAAATACCCTCGACTTGTG
1 AAATTACTCAAATACCCTCGATTTGTA
* *
38493045 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
*
38493072 AAATTA-TCCAAATATCCTCGATTTGTA
1 AAATTACT-CAAATACCCTCGATTTGTA
* *
38493099 AAATTACTGAAATA----AGA----TA
1 AAATTACTCAAATACCCTCGATTTGTA
* ** **
38493118 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* ** * **
38493145 GAATTAC-CATTTTACCCTCAATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* * * * **
38493172 AAATTACTGAAATACTCTTGGTTTACA
1 AAATTACTCAAATACCCTCGATTTGTA
***
38493199 AAATTA-TCCAAATACCCTCGATCAATA
1 AAATTACT-CAAATACCCTCGATTTGTA
*
38493226 AAATTAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
* * * * *
38493253 AAATTATTGAAATACCCTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
38493280 AAATCAC-CAAAATACCCTTGGTTTGTA
1 AAATTACTC-AAATACCCTCGATTTGTA
* * * * *
38493307 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
38493334 AAATCAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
* * *
38493361 AAATTAC-CAAAATACCCTTGGTTTATA
1 AAATTACTC-AAATACCCTCGATTTGTA
* * *
38493388 AAATCAC-CAAAATACCC-CTAGTTTATA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
* * **
38493415 AAATTAC-CAAAATACCCTTGGTTTACA
1 AAATTACTC-AAATACCCTCGATTTGTA
*
38493442 AAATTAC-CAAATTACCC-CTAGTTTGTA
1 AAATTACTCAAA-TACCCTCGA-TTTGTA
*
38493469 AAATTAC-CAAAATACCC-CTGATTTGTG
1 AAATTACTC-AAATACCCTC-GATTTGTA
38493496 AAATTAC-CGAAATACCCT
1 AAATTACTC-AAATACCCT
38493514 TGTGGGGTAG
Statistics
Matches: 358, Mismatches: 79, Indels: 63
0.72 0.16 0.13
Matches are distributed among these distances:
18 1 0.00
19 10 0.03
23 4 0.01
26 10 0.03
27 323 0.90
28 10 0.03
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:38493239 original size:54 final size:53
Alignment explanation
Indices: 38493198--38493512 Score: 387
Period size: 54 Copynumber: 5.8 Consensus size: 53
38493188 CTTGGTTTAC
* * ** *
38493198 AAAATTATCCAAATACCCTCGATCAATAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTA-CCAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
** * *
38493252 AAAATTATTGAAATACCCTTGGTTTATAAAATCACCAAAATACCCTTGGTTTGT
1 AAAATTA-CCAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
* *
38493306 AAAATTACTAAAATACCTTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
1 AAAATTAC-CAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
*
38493360 AAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTAT
1 AAAATTACC-AAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
* * *
38493414 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAATTACCCCTAGTTTGT
1 AAAATTACC-AAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
* * * * * *
38493468 AAAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCC
1 AAAATTACC-AAATACCCTTGGTTTATAAAATCACCAAAATACCC
38493513 TTGTGGGGTA
Statistics
Matches: 231, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
54 231 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
Found at i:38493256 original size:81 final size:81
Alignment explanation
Indices: 38493130--38493515 Score: 366
Period size: 81 Copynumber: 4.8 Consensus size: 81
38493120 ATTACCATTT
* * *** * * * *
38493130 TACCCTCGATTTACAGAATTACCATTTTA-CCCTCAATTTACAAAATTACTGAAATACTCTTGGT
1 TACCCTCGATTTATAAAATTACCAAAATACCCCT-AGTTTATAAAATTACCGAAATACCCTTGGT
38493194 TTACAAAATTATCC-AAA
65 TTACAAAATTA-CCAAAA
** * **
38493211 TACCCTCGATCAATAAAATTACCAAAATACCCCTAGTTTGTAAAATTATTGAAATACCCTTGGTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCTTGGTT
* *
38493276 TATAAAATCACCAAAA
66 TACAAAATTACCAAAA
* * * * ** * * * * *
38493292 TACCCTTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATCACCAAAATACCCCTAGTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCTTGGTT
**
38493357 TGTAAAATTACCAAAA
66 TACAAAATTACCAAAA
* * * *
38493373 TACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCTTGGTT
*
38493438 TACAAAATTACCAAAT
66 TACAAAATTACCAAAA
* * * *
38493454 TACCC-CTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGTGAAATTACCGAAATACCCTTG
1 TACCCTCGA-TTTATAAAATTACCAAAATACCCCTAG-TTTATAAAATTACCGAAATACCCTTG
38493516 TGGGGTAGAA
Statistics
Matches: 249, Mismatches: 52, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
80 3 0.01
81 242 0.97
82 4 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.32
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCTTGGTT
TACAAAATTACCAAAA
Found at i:38493310 original size:108 final size:107
Alignment explanation
Indices: 38493181--38493515 Score: 436
Period size: 108 Copynumber: 3.1 Consensus size: 107
38493171 AAAATTACTG
* * * * **
38493181 AAATACTCTTGGTTTACAAAATTATCCAAATACCCTCGATCAATAAAATTACCAAAATACCCCTA
1 AAATACCCTTGGTTTATAAAATTA-CCAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTA
***
38493246 GTTTGTAAAATTATTGAAATACCCTTGGTTTATAAAATCACCA
65 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * * *
38493289 AAATACCCTTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATCACCAAAATACCCCTA
1 AAATACCCTTGGTTTATAAAATTAC-CAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTA
38493354 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
65 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * * *
38493397 AAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAATTACCCCTA
1 AAATACCCTTGGTTTATAAAATTACC-AAATACCCTTGGTTTATAAAATTACCAAAATACCCCTA
* * * * * *
38493462 GTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCG
65 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
38493505 AAATACCCTTG
1 AAATACCCTTG
38493516 TGGGGTAGAA
Statistics
Matches: 196, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 195 0.99
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (107 bp):
AAATACCCTTGGTTTATAAAATTACCAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAG
TTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
Found at i:38493527 original size:27 final size:27
Alignment explanation
Indices: 38493497--38494051 Score: 815
Period size: 27 Copynumber: 20.6 Consensus size: 27
38493487 TGATTTGTGA
* *
38493497 AATTACCGAAATACCCTTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
38493524 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38493551 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
38493578 AATTACCGGAATACACCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38493605 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38493632 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38493659 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38493686 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38493713 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38493740 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38493767 AATTATCGCAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38493794 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38493821 AATTACAGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
38493848 AATTACTAAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38493875 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38493902 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38493929 AATTACTGAAATACCTCTGTACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38493956 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38493983 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38494010 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38494037 AATTACCGAGATACC
1 AATTACCGAAATACC
38494052 TTGTGGGGCA
Statistics
Matches: 478, Mismatches: 48, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
26 1 0.00
27 477 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38493528 original size:81 final size:80
Alignment explanation
Indices: 38493224--38494043 Score: 444
Period size: 81 Copynumber: 10.1 Consensus size: 80
38493214 CCTCGATCAA
* ** *** *
38493224 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTATTGAAATACCCTTGGT-TTATAAAATCACC
1 TAAAATTACCAAAATACCCCT-GTTTGTGAAATTACCGAAATACCCTT-GTAGGGTAAAATTACC
* **
38493288 AAAATACCCTTGGT-TTG
64 AAAATACCCCT-GTAGGG
* ** * * * * * **
38493305 TAAAATTACTAAAATACCTTTGGTTTATAAAATCACCAAAATACCCCTAGT-TTGTAAAATTACC
1 TAAAATTACCAAAATACCCCT-GTTTGTGAAATTACCGAAATA-CCCTTGTAGGGTAAAATTACC
* ***
38493369 AAAATACCCTTGGT-TTA
64 AAAATACCCCT-GTAGGG
* * * * **
38493386 TAAAATCACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTG--GTTTACAAAATTAC
1 TAAAATTACCAAAATACCCCT-GTTTGTGAAATTACCGAAATACCCTTGTAGGGT--AAAATTAC
* **
38493449 CAAATTACCCCTAGT-TTG
63 CAAAATACCCCT-GTAGGG
* * *
38493467 TAAAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCCTTGTGGGGTAGAATTACTA
1 TAAAATTACCAAAATACCCCTG-TTTGTGAAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
38493532 AAATACCCCTGTAGGG
65 AAATACCCCTGTAGGG
* * * * * *
38493548 TAGAATTACCAGAATACCCCTG-TAGGGTAGAATTACCGGAATACACC-TGTAGGGTAGAATTAC
1 TAAAATTACCAAAATACCCCTGTTTGTG-A-AATTACCGAAATAC-CCTTGTAGGGTAAAATTAC
**
38493611 CGGAATACCCCTGTAGGG
63 CAAAATACCCCTGTAGGG
* ** * * * * * *
38493629 TAGAATTACCGGAATACCCCTG-TAGGGTAGAATTATCGGAATACCCCTGTAGGGTAGAATTACC
1 TAAAATTACCAAAATACCCCTGTTTGTG-A-AATTACCGAAATACCCTTGTAGGGTAAAATTACC
*
38493693 GAAATACCCCTGTAGGG
64 AAAATACCCCTGTAGGG
* * * * * *
38493710 TAGAATTACCGAAATACCCCTG-TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTATC
1 TAAAATTACCAAAATACCCCTGTTTGTG-A-AATTACCGAAATACCCTTGTAGGGTAAAATTACC
** *
38493774 GCAATACCCCTGTAAGG
64 AAAATACCCCTGTAGGG
* ** * * * * * * *
38493791 TAGAATTACTGAAATACCCCTG-TAGGGTAGAATTACAGGAATACCCCTGTAGGGTAGAATTACT
1 TAAAATTACCAAAATACCCCTGTTTGTG-A-AATTACCGAAATACCCTTGTAGGGTAAAATTACC
*
38493855 AAAATACCCCTTTAGGG
64 AAAATACCCCTGTAGGG
* * ** * * * * * *
38493872 TAGAATTATCGCAATACCCCTG-TAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACT
1 TAAAATTACCAAAATACCCCTGTTTGTG-A-AATTACCGAAATACCCTTGTAGGGTAAAATTACC
* * *
38493936 GAAATACCTCTGTACGG
64 AAAATACCCCTGTAGGG
* * * ** * * * *
38493953 TAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCCTATAGGGTAGAATTACT
1 TAAAATTACCAAAATACCCCTGT-TTGT-GAAATTACCGAAATACCCTTGTAGGGTAAAATTACC
*
38494017 GAAATACCCCTGTAGGG
64 AAAATACCCCTGTAGGG
*
38494034 TAGAATTACC
1 TAAAATTACC
38494044 GAGATACCTT
Statistics
Matches: 639, Mismatches: 86, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
79 5 0.01
80 11 0.02
81 610 0.95
82 8 0.01
83 4 0.01
84 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCCTGTTTGTGAAATTACCGAAATACCCTTGTAGGGTAAAATTACCAA
AATACCCCTGTAGGG
Found at i:38494458 original size:6 final size:6
Alignment explanation
Indices: 38494449--38494591 Score: 105
Period size: 6 Copynumber: 23.3 Consensus size: 6
38494439 TTGCATTCAC
* *
38494449 ATTCTG ATTCTG ATTCTG ATTCTGG CA-CCTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCT-G -ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
38494498 ATTTTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
38494547 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
38494592 AATGTTTCTT
Statistics
Matches: 106, Mismatches: 20, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
5 4 0.04
6 91 0.86
7 8 0.08
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38494484 original size:31 final size:31
Alignment explanation
Indices: 38494449--38494577 Score: 123
Period size: 31 Copynumber: 3.8 Consensus size: 31
38494439 TTGCATTCAC
*
38494449 ATTCTGATTCTGATTCTGATTCTGGCACCTA
1 ATTCTGATTCTGATTCTGATTCTGTCACCTA
38494480 ATTCTGATTCTGATTCTGATTTTGATTCTGTCACCTAA
1 ATTCTGATTCTGATTC------TGATTCTGTCACCT-A
*
38494518 TTTTGATTCTGATTCTAATTCTGATTCTGTCACCTA
1 -----ATTCTGATTCTGATTCTGATTCTGTCACCTA
*
38494554 ATTTTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTG
38494578 ATTCTAGTTC
Statistics
Matches: 82, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
31 38 0.46
36 1 0.01
37 27 0.33
38 1 0.01
43 15 0.18
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGATTCTGTCACCTA
Found at i:38494499 original size:37 final size:37
Alignment explanation
Indices: 38494449--38494582 Score: 232
Period size: 37 Copynumber: 3.6 Consensus size: 37
38494439 TTGCATTCAC
* *
38494449 ATTCTGATTCTGATTCTGATTCTGGCACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTCACCTAATTTTG
*
38494486 ATTCTGATTCTGATTTTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGATTCTGTCACCTAATTTTG
*
38494523 ATTCTGATTCTAATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGATTCTGTCACCTAATTTTG
38494560 ATTCTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGATTCT
38494583 AGTTCTGATA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGATTCTGTCACCTAATTTTG
Found at i:38496622 original size:27 final size:26
Alignment explanation
Indices: 38496547--38497030 Score: 202
Period size: 27 Copynumber: 18.3 Consensus size: 26
38496537 CAAATTTCTG
* *
38496547 AAATACCCTCGACTTGTAAAACTACC
1 AAATACCCTCGATTTGTAAAATTACC
* *
38496573 AAAGTACCCCCGATTTATAAAATTACCC
1 AAA-TACCCTCGATTTGTAAAATTA-CC
* **
38496601 AAATATCCTCGATTTGTAAAATTATTG
1 AAATACCCTCGATTTGTAAAATTA-CC
* *
38496628 AAATA----AGA----TAGAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
** **
38496646 ATTTCACCCTCGATTTACAAAATTACC
1 AAAT-ACCCTCGATTTGTAAAATTACC
** * ** *
38496673 ATTTTACCCTCAATTTACAAAATTACTG
1 A-AATACCCTCGATTTGTAAAATTAC-C
* * **
38496701 AAATACCCTTGGTTTACAAAATTATCC
1 AAATACCCTCGATTTGTAAAATTA-CC
*** **
38496728 AAATACCCTCGATCAATAACTTTACC
1 AAATACCCTCGATTTGTAAAATTACC
* *
38496754 AAAATACCC-CTAGTTTGTAAAATTACTG
1 -AAATACCCTCGA-TTTGTAAAATTAC-C
* * * * *
38496782 AAATACCCTTGGTTTATAAAATCACA
1 AAATACCCTCGATTTGTAAAATTACC
* * *
38496808 AAATACCCTTGGTTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTAC-C
* * * * *
38496835 AAATACCTTTGGTTTATAAAATCACC
1 AAATACCCTCGATTTGTAAAATTACC
38496861 AAAATACCCCTCG-TTTGTAAAATTACC
1 -AAATA-CCCTCGATTTGTAAAATTACC
* * * *
38496888 AAAATACCCTTGGTTTATAAAATCACC
1 -AAATACCCTCGATTTGTAAAATTACC
* *
38496915 AAAATACCC-CTAGTTGTAAAATTACC
1 -AAATACCCTCGATTTGTAAAATTACC
* * **
38496941 AAAATACCCTTGTTTTACAAAATTACC
1 -AAATACCCTCGATTTGTAAAATTACC
*
38496968 AAATACCC-CTAGTTTGTAAAATTACC
1 AAATACCCTCGA-TTTGTAAAATTACC
*
38496994 AAAATACCC-CTGATTTGTGAAATTACC
1 -AAATACCCTC-GATTTGTAAAATTACC
38497021 GAAATACCCT
1 -AAATACCCT
38497031 TGTGGGACCC
Statistics
Matches: 351, Mismatches: 80, Indels: 52
0.73 0.17 0.11
Matches are distributed among these distances:
18 2 0.01
19 8 0.02
23 4 0.01
26 75 0.21
27 247 0.70
28 15 0.04
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATACCCTCGATTTGTAAAATTACC
Found at i:38496824 original size:53 final size:54
Alignment explanation
Indices: 38496751--38497029 Score: 393
Period size: 53 Copynumber: 5.2 Consensus size: 54
38496741 CAATAACTTT
**
38496751 ACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCTTGGTTTATAAAATC
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
* * * *
38496805 A-CAAAATACCCTTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATC
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
*
38496858 ACCAAAATACCCCTCGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
* * *
38496912 ACCAAAATACCCCTAG-TTGTAAAATTACCAAAATACCCTTGTTTTACAAAATT
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
* * * * *
38496965 ACC-AAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATT
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
*
38497018 ACCGAAATACCC
1 ACCAAAATACCC
38497030 TTGTGGGACC
Statistics
Matches: 205, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
52 12 0.06
53 121 0.59
54 72 0.35
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATC
Found at i:38496839 original size:107 final size:108
Alignment explanation
Indices: 38496701--38497032 Score: 402
Period size: 107 Copynumber: 3.1 Consensus size: 108
38496691 AAAATTACTG
** * * ** **
38496701 AAATACCCTTGGTTTACAAAATTA-TCCAAATACCCTCGATCAATAACTTTACCAAAATACCCCT
1 AAATACCCTTGGTTTGTAAAATTACT-AAAATACCCTTGATTTATAAAATTACCAAAATACCCCT
**
38496765 AGTTTGTAAAATTACTGAAATACCCTTGGTTTATAAAATCA-CA
65 AGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * * *
38496808 AAATACCCTTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATCACCAAAATACCCCTC
1 AAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTA
38496873 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
66 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
* * * * *
38496916 AAATACCCCTAG-TTGTAAAATTACCAAAATACCCTTGTTTTACAAAATTACC-AAATACCCCTA
1 AAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTA
* * * * * *
38496979 GTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCG
66 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
38497022 AAATACCCTTG
1 AAATACCCTTG
38497033 TGGGACCCCT
Statistics
Matches: 193, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
106 56 0.29
107 124 0.64
108 13 0.07
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (108 bp):
AAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTA
GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCA
Found at i:38497169 original size:53 final size:54
Alignment explanation
Indices: 38497037--38497455 Score: 559
Period size: 53 Copynumber: 7.9 Consensus size: 54
38497027 CCCTTGTGGG
* *
38497037 ACCCCTGTAGGGTAGAATTACCG-AATACACCTGTA-GGTAGAATTACCGGAAT
1 ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * *
38497089 ACCCCTGTAGGGTAGAATTA-CGGAATACCCCTGTAGGGTAGAATTATCGGAAT
1 ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
38497142 A-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* **
38497195 ACCCCTGTAGGGTAGAATTA-CAAGAATACCCCTGTAGGGTAGAATTACTAAAAT
1 ACCCCTGTAGGGTAGAATTACCGA-AATACCCCTGTAGGGTAGAATTACCGAAAT
* * * * *
38497249 ACCCCTTTAGGGTAGAATTATCGCAATACCCCTGTAGGGAAG-ATTACCGGAAT
1 ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497302 ACCCCTGTAGGGTAGAATTACTGAAATACCTCTGTAGGGTAGAATTACCGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * * *
38497356 ACCCTTGTAGGGTAGAAATACCGAAATA-CCCTATAGGGTAGAATTACTGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * * *
38497409 ACCCCTGTAGGGTAGAATTACTGAGATA--CTTGTAGGGTAAAATTACC
1 ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
38497456 ATTTTGCCCC
Statistics
Matches: 324, Mismatches: 36, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
51 2 0.01
52 64 0.20
53 140 0.43
54 117 0.36
55 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
ACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
Found at i:38497181 original size:27 final size:27
Alignment explanation
Indices: 38497037--38497455 Score: 559
Period size: 27 Copynumber: 15.8 Consensus size: 27
38497027 CCCTTGTGGG
38497037 ACCCCTGTAGGGTAGAATTACCG-AAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497063 ACACCTGTA-GGTAGAATTACCGGAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
*
38497089 ACCCCTGTAGGGTAGAATTA-CGGAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497115 ACCCCTGTAGGGTAGAATTATCGGAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
38497142 A-CCCTGTAGGGTAGAATTACCGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
38497168 ACCCCTGTAGGGTAGAATTACCGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
*
38497195 ACCCCTGTAGGGTAGAATTA-CAAGAAT
1 ACCCCTGTAGGGTAGAATTACCGA-AAT
**
38497222 ACCCCTGTAGGGTAGAATTACTAAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* * *
38497249 ACCCCTTTAGGGTAGAATTATCGCAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497276 ACCCCTGTAGGGAAG-ATTACCGGAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
*
38497302 ACCCCTGTAGGGTAGAATTACTGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
*
38497329 ACCTCTGTAGGGTAGAATTACCGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497356 ACCCTTGTAGGGTAGAAATACCGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497383 A-CCCTATAGGGTAGAATTACTGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497409 ACCCCTGTAGGGTAGAATTACTGAGAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
38497436 A--CTTGTAGGGTAAAATTACC
1 ACCCCTGTAGGGTAGAATTACC
38497456 ATTTTGCCCC
Statistics
Matches: 353, Mismatches: 32, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
25 29 0.08
26 116 0.33
27 206 0.58
28 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
ACCCCTGTAGGGTAGAATTACCGAAAT
Found at i:38497331 original size:80 final size:81
Alignment explanation
Indices: 38497037--38497455 Score: 584
Period size: 80 Copynumber: 5.3 Consensus size: 81
38497027 CCCTTGTGGG
* * *
38497037 ACCCCTGTAGGGTAGAATTACC-GAATACACCTGTA-GGTAGAATTACCGGAATACCCCTGTAGG
1 ACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
*
38497100 GTAGAATTA-CGGAAT
66 GTAGAATTACCGAAAT
* *
38497115 ACCCCTGTAGGGTAGAATTATCGGAATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 ACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
38497179 GTAGAATTACCGAAAT
66 GTAGAATTACCGAAAT
** * *
38497195 ACCCCTGTAGGGTAGAATTACAAGAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTTTAGG
1 ACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
* *
38497260 GTAGAATTATCGCAAT
66 GTAGAATTACCGAAAT
* *
38497276 ACCCCTGTAGGGAAG-ATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCTCTGTAGG
1 ACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
38497340 GTAGAATTACCGAAAT
66 GTAGAATTACCGAAAT
* * * *
38497356 ACCCTTGTAGGGTAGAAATACCGAAATA-CCCTATAGGGTAGAATTACTGAAATACCCCTGTAGG
1 ACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
* *
38497420 GTAGAATTACTGAGAT
66 GTAGAATTACCGAAAT
* *
38497436 A--CTTGTAGGGTAAAATTACC
1 ACCCCTGTAGGGTAGAATTACC
38497456 ATTTTGCCCC
Statistics
Matches: 306, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
78 44 0.14
79 41 0.13
80 150 0.49
81 71 0.23
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (81 bp):
ACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
GTAGAATTACCGAAAT
Found at i:38497861 original size:6 final size:6
Alignment explanation
Indices: 38497852--38497965 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
38497842 TTGCATTCAC
* * *
38497852 ATTCTG ATTCTG ATTCTG ATTGATTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * * * *
38497903 ATTCTA ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTT AATCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
38497952 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
38497966 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
5 3 0.04
6 67 0.82
7 5 0.06
8 7 0.09
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:38497926 original size:37 final size:37
Alignment explanation
Indices: 38497852--38497956 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
38497842 TTGCATTCAC
*
38497852 ATTCTGATTCTGATTCTGATTGATTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGATT--CTGATTCTGTCACCTA
*
38497891 ATTCTGATTCTGATTCTAATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGATTCTGATTCTGTCACCTA
* *
38497928 ATTCTGATTCTTAATCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGATTCT
38497957 AGTTCTGATA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 41 0.67
39 20 0.33
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGATTCTGATTCTGTCACCTA
Found at i:38499925 original size:27 final size:27
Alignment explanation
Indices: 38499895--38500387 Score: 137
Period size: 27 Copynumber: 18.7 Consensus size: 27
38499885 TTAGTTTACC
* *
38499895 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
38499922 AAATTAC-CAAAGTTCCCCCGATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
*
38499949 AAATTA-TCCAAATATCCTCGATTTGTA
1 AAATTACT-CAAATACCCTCGATTTGTA
* *
38499976 AAATTACTGAAATA----AGA----TA
1 AAATTACTCAAATACCCTCGATTTGTA
* ** **
38499995 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* ** * **
38500022 GAATTAC-CATTTTACCCTCAATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* * * **
38500049 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACTCAAATACCCTCGATTTGTA
***
38500076 AAATTA-TCCAAATACCCTCGATCAATA
1 AAATTACT-CAAATACCCTCGATTTGTA
*
38500103 AAATTAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
* * * *
38500130 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
38500157 AAATGAC-CAAAATACCCTTGGTTTGT-
1 AAATTACTC-AAATACCCTCGATTTGTA
* * * * *
38500183 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
38500210 AAATCAC-CAAAATACCC-CTGGTTTGTA
1 AAATTACTC-AAATACCCTC-GATTTGTA
* * *
38500237 AAATTAC-CAAAATACCCTTGGTTTATA
1 AAATTACTC-AAATACCCTCGATTTGTA
*
38500264 AAA-T-CTCCAAAATATCCCT-GGTTTGTA
1 AAATTACT-C-AAATA-CCCTCGATTTGTA
* * **
38500291 AAATTAC-CAAAATACCCTTGGTTTACA
1 AAATTACTC-AAATACCCTCGATTTGTA
*
38500318 AAATTAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
*
38500345 AAATTAC-C-AATACCC-CTGATTTGTG
1 AAATTACTCAAATACCCTC-GATTTGTA
38500370 AAATTAC-CGAAATACCCT
1 AAATTACTC-AAATACCCT
38500388 TGTAGGGTAG
Statistics
Matches: 364, Mismatches: 65, Indels: 73
0.73 0.13 0.15
Matches are distributed among these distances:
18 1 0.00
19 10 0.03
23 4 0.01
25 22 0.06
26 34 0.09
27 281 0.77
28 11 0.03
29 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:38500133 original size:54 final size:53
Alignment explanation
Indices: 38500043--38500386 Score: 388
Period size: 54 Copynumber: 6.4 Consensus size: 53
38500033 TTACCCTCAA
* ** * ** * *
38500043 TTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTATCCAAATACCCTCGA
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-CCAAATACCCTTGG
** * *
38500097 TCAATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC-CAAATACCCTTGG
* * * *
38500151 TTTATAAAATGACCAAAATACCCTTGGTTTGT-AAATTACTAAAATACCTTTGG
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC-CAAATACCCTTGG
*
38500204 TTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACC-AAATACCCTTGG
*
38500258 TTTATAAAATCT-CCAAAATATCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
1 TTTATAAAAT-TACCAAAATACCCCTGGTTTGTAAAATTACC-AAATACCCTTGG
* * * *
38500312 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC-AATACCCCTGA
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAATACCCTTGG
* * *
38500364 TTTGTGAAATTACCGAAATACCC
1 TTTATAAAATTACCAAAATACCC
38500387 TTGTAGGGTA
Statistics
Matches: 252, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
52 28 0.11
53 52 0.21
54 172 0.68
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAATACCCTTGG
Found at i:38500133 original size:81 final size:81
Alignment explanation
Indices: 38500048--38500389 Score: 372
Period size: 81 Copynumber: 4.3 Consensus size: 81
38500038 CTCAATTTAC
** **
38500048 AAAATTACTGAAATACCCTTGGTTTACAAAATTATCC-AAATACCCTCGATCAATAAAATTACCA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTA-CCAAAATACCCTCGATTTATAAAATTACCA
*
38500112 AAATACCCCTAGTTTGT
65 AAATACCCCTGGTTTGT
* * * * * * *
38500129 AAAATTACTAAAATACCCTTGGTTTATAAAATGACCAAAATACCCTTGGTTTGT-AAATTACTAA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAA
** *
38500193 AATACCTTTGGTTTAT
66 AATACCCCTGGTTTGT
* * ** * *
38500209 AAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCT-CCA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTTATAAAAT-TACCA
*
38500273 AAATATCCCTGGTTTGT
65 AAATACCCCTGGTTTGT
* *
38500290 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACC-
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TTTATAAAATTACCA
*
38500353 -AATACCCCTGATTTGT
65 AAATACCCCTGGTTTGT
* *
38500369 GAAATTACCGAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
38500390 TAGGGTAGAA
Statistics
Matches: 220, Mismatches: 36, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
79 33 0.15
80 72 0.33
81 114 0.52
82 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAA
AATACCCCTGGTTTGT
Found at i:38500227 original size:107 final size:108
Alignment explanation
Indices: 38500100--38500354 Score: 415
Period size: 107 Copynumber: 2.4 Consensus size: 108
38500090 CCCTCGATCA
* *
38500100 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATGACC
1 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACC
* *
38500165 AAAATA-CCCTTGGTTTGT-AAATTACTAAAATACCTTTGGTTT
66 AAAATATCCC-TGGTTTGTAAAATTACCAAAATACCCTTGGTTT
* * *
38500207 ATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCTCC
1 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACC
38500272 AAAATATCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTT
66 AAAATATCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTT
*
38500315 ACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
38500355 TACCCCTGAT
Statistics
Matches: 136, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
107 74 0.54
108 62 0.46
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (108 bp):
ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACC
AAAATATCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTT
Found at i:38500401 original size:27 final size:27
Alignment explanation
Indices: 38500371--38500538 Score: 223
Period size: 27 Copynumber: 6.3 Consensus size: 27
38500361 TGATTTGTGA
*
38500371 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38500398 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38500425 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
38500452 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38500479 AATTACTGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
38500506 AATTTCCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
38500532 AATTACC
1 AATTACC
38500539 ATTTTGCCCC
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
26 16 0.13
27 109 0.87
28 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38500520 original size:81 final size:80
Alignment explanation
Indices: 38500370--38500538 Score: 250
Period size: 81 Copynumber: 2.1 Consensus size: 80
38500360 CTGATTTGTG
*
38500370 AAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGA
1 AAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGA
38500435 ATACCCCTGTAGGGTA
66 ATA-CCCTGTAGGGTA
* * * *
38500451 GAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCTCTGTAGGGTAGAATTTCC-GA
1 AAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGA
* *
38500515 GATACCTTGTGGGGTA
66 -ATACCCTGTAGGGTA
38500531 AAATTACC
1 AAATTACC
38500539 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 18 0.23
81 60 0.77
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (80 bp):
AAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGA
ATACCCTGTAGGGTA
Found at i:38500949 original size:6 final size:6
Alignment explanation
Indices: 38500940--38501045 Score: 83
Period size: 6 Copynumber: 17.3 Consensus size: 6
38500930 TTGCATTCAC
* * * *
38500940 ATTCTG ATTCTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
38500989 ATTCTG ATTCTA ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
38501037 AGTTCTG AT
1 A-TTCTG AT
38501046 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.04
6 70 0.88
7 5 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:38500965 original size:18 final size:18
Alignment explanation
Indices: 38500940--38501045 Score: 99
Period size: 18 Copynumber: 5.8 Consensus size: 18
38500930 TTGCATTCAC
*
38500940 ATTCTGATTCTGATTCTG
1 ATTCTAATTCTGATTCTG
* * *
38500958 ATTTTGATTTTGATTCTG
1 ATTCTAATTCTGATTCTG
*
38500976 -TCACCTAATTCTGATTCTG
1 AT--TCTAATTCTGATTCTG
38500995 ATTCTAATTCTGATTCTG
1 ATTCTAATTCTGATTCTG
*
38501013 -TCACCTAATTCTGATTCTG
1 AT--TCTAATTCTGATTCTG
*
38501032 ATTCTAGTTCTGAT
1 ATTCTAATTCTGAT
38501046 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
17 2 0.03
18 41 0.57
19 27 0.38
20 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (18 bp):
ATTCTAATTCTGATTCTG
Found at i:38500992 original size:19 final size:19
Alignment explanation
Indices: 38500968--38501031 Score: 96
Period size: 19 Copynumber: 3.4 Consensus size: 19
38500958 ATTTTGATTT
38500968 TGATTCTGTCACCTAATTC
1 TGATTCTGTCACCTAATTC
*
38500987 TGATTCTG--ATTCTAATTC
1 TGATTCTGTCA-CCTAATTC
38501005 TGATTCTGTCACCTAATTC
1 TGATTCTGTCACCTAATTC
38501024 TGATTCTG
1 TGATTCTG
38501032 ATTCTAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 1 0.03
18 15 0.38
19 23 0.57
20 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (19 bp):
TGATTCTGTCACCTAATTC
Found at i:38500996 original size:37 final size:37
Alignment explanation
Indices: 38500946--38501045 Score: 164
Period size: 37 Copynumber: 2.7 Consensus size: 37
38500936 TCACATTCTG
* * *
38500946 ATTCTGATTCTGATTTTGATTTTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTAATTCTGATTCTGTCACCTA
38500983 ATTCTGATTCTGATTCTAATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTAATTCTGATTCTGTCACCTA
*
38501020 ATTCTGATTCTGATTCTAGTTCTGAT
1 ATTCTGATTCTGATTCTAATTCTGAT
38501046 AATGTTTCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTAATTCTGATTCTGTCACCTA
Found at i:38503091 original size:27 final size:27
Alignment explanation
Indices: 38503061--38503120 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
38503051 AATAAGATAT
* *
38503061 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCAATTTACAA
38503088 AATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCAATTTACAA
38503115 AATTAC
1 AATTAC
38503121 TGAAATACCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (27 bp):
AATTACCATTTTACCCTCAATTTACAA
Found at i:38503129 original size:27 final size:27
Alignment explanation
Indices: 38503072--38503159 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
38503062 ATTACCATTT
* * **
38503072 TACCCTCGATTTACAGAATTA-CCATTT
1 TACCCTCAATTTACAAAATTATCCA-AA
*
38503099 TACCCTCAATTTACAAAATTA-CTGAAA
1 TACCCTCAATTTACAAAATTATC-CAAA
***
38503126 TACCCTTGGTTTACAAAATTATCCAAA
1 TACCCTCAATTTACAAAATTATCCAAA
38503153 TACCCTC
1 TACCCTC
38503160 GATCAATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 47 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTATCCAAA
Found at i:38503180 original size:27 final size:27
Alignment explanation
Indices: 38503108--38503456 Score: 391
Period size: 27 Copynumber: 13.0 Consensus size: 27
38503098 TTACCCTCAA
* **
38503108 TTTACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
38503135 TTTACAAAATTATCC-AAATACCCTCGA
1 TTTATAAAATTA-CCAAAATACCCTTGG
** *
38503162 TCAATAAAATTACCAAAATGTCCC-TGG
1 TTTATAAAATTACCAAAAT-ACCCTTGG
* *
38503189 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
*
38503216 TTTATAAAATCACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
38503243 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
38503270 TTTATAAAATCACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGG
*
38503297 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
38503324 TTTATAAAATCT-CCAAAATACCCCTGA
1 TTTATAAAAT-TACCAAAATACCCTTGG
*
38503351 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
38503378 TTTACAAAATTACCAAAATACCC-TAG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
38503404 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
38503431 TTTGTGAAATTGCCAAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
38503457 TAAGGTAGAA
Statistics
Matches: 272, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
26 29 0.11
27 238 0.88
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:38503468 original size:27 final size:27
Alignment explanation
Indices: 38503446--38504440 Score: 980
Period size: 27 Copynumber: 37.0 Consensus size: 27
38503436 GAAATTGCCA
* * *
38503446 AAATACCCTTGTAAGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38503473 AAATACCCGTGTAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
38503500 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
38503527 AAATACACCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38503554 CAATACCCCTGTAGGGTAGAATTATC-
1 AAATACCCCTGTAGGGTAGAATTACCG
38503580 AGAATACCCCTGTAGGGTAGAATTACCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
* *
38503608 GAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38503635 CAATATCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38503662 AAATACCCCTGTAGGGTAGAATTTCTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
38503689 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38503716 CAATACCCCTGTAGGATAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38503743 GAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
38503770 AAATACCCCCATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38503797 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** * *
38503824 AAATACCCCTGT-TTGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
** * **
38503850 AAATACCCCTAGT-TTGTAAAATTACTA
1 AAATACCCCT-GTAGGGTAGAATTACCG
* *** * * *
38503877 AAATACCCTTGGT-TTATAAAATCACCA
1 AAATACCCCT-GTAGGGTAGAATTACCG
** * *
38503904 AAATACCCCTGGT-TTGTA-AATTTAGCA
1 AAATACCCCT-GTAGGGTAGAA-TTACCG
* *** * *
38503931 AAATACCCTTTGT-TTATAAAATTACCA
1 AAATACCC-CTGTAGGGTAGAATTACCG
** * *
38503958 AAATACCCCTG-ATTTGTAAAATTACCA
1 AAATACCCCTGTA-GGGTAGAATTACCG
** * *
38503985 AAATA-CCCT-TAGTTTACAAAATTACCA
1 AAATACCCCTGTAGGGT--AGAATTACCG
* * *
38504012 AAATA-CCCT-TAGTTTGTAAAATTACCA
1 AAATACCCCTGTAG--GGTAGAATTACCG
**
38504039 AAATACCCCTG-ATTTGT-GAAATTACCG
1 AAATACCCCTGTA-GGGTAG-AATTACCG
* *
38504066 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
38504093 AAATACCCCTGTAGGGTGGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
38504119 AGAATACAACTGTAGGGTAGAATTACTG
1 A-AATACCCCTGTAGGGTAGAATTACCG
*
38504147 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
38504174 CAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38504201 GAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
38504228 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
38504255 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
**
38504282 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
38504309 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
38504336 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
38504363 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
38504390 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
38504417 AGATA-CCTTGT-GGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
38504441 ATTTTGCCCC
Statistics
Matches: 840, Mismatches: 107, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.02
26 34 0.04
27 780 0.93
28 11 0.01
29 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:38504855 original size:6 final size:6
Alignment explanation
Indices: 38504846--38504935 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
38504836 ATTCACATTT
* * *
38504846 TGATTC TGATTC TGATTT TGATTC TG-TCACC TAATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
* *
38504895 TG-TCATC TAATTC TGATTT TGATTC TGATTC T-AGTTC TGAT
1 TGAT--TC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
38504936 AATATTTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 3 0.05
6 55 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:38504892 original size:25 final size:25
Alignment explanation
Indices: 38504854--38504921 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
38504844 TTTGATTCTG
38504854 ATTCTGATTTTGATTCTGTCACCTA
1 ATTCTGATTTTGATTCTGTCACCTA
* *
38504879 ATTCTGATTCTGATTCTGTCATCTA
1 ATTCTGATTTTGATTCTGTCACCTA
38504904 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
38504922 ATTCTAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (25 bp):
ATTCTGATTTTGATTCTGTCACCTA
Found at i:38504918 original size:31 final size:30
Alignment explanation
Indices: 38504848--38504926 Score: 87
Period size: 25 Copynumber: 2.7 Consensus size: 30
38504838 TCACATTTTG
*
38504848 ATTCTGATTCTGATTTTGATTCTGTCACCTA
1 ATTCTGATT-TGATTCTGATTCTGTCACCTA
*
38504879 ATTC-----TGATTCTGATTCTGTCATCTA
1 ATTCTGATTTGATTCTGATTCTGTCACCTA
38504904 ATTCTGATTTTGATTCTGATTCT
1 ATTCTGA-TTTGATTCTGATTCT
38504927 AGTTCTGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
25 23 0.57
31 17 0.43
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.51
Consensus pattern (30 bp):
ATTCTGATTTGATTCTGATTCTGTCACCTA
Found at i:38506569 original size:14 final size:14
Alignment explanation
Indices: 38506550--38506581 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
38506540 GTCCGAAAGG
38506550 CATAACCAAAAACT
1 CATAACCAAAAACT
38506564 CATAACCAAAAACT
1 CATAACCAAAAACT
38506578 CATA
1 CATA
38506582 GTATCCGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (14 bp):
CATAACCAAAAACT
Found at i:38522561 original size:40 final size:40
Alignment explanation
Indices: 38522516--38522682 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
38522506 CGGAATACAA
38522516 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
38522556 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
38522596 CCGGATATAACAACTTGCACGAATGCCTTCGGGTC-TAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
38522635 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
38522675 CCGGATAT
1 CCGGATAT
38522683 CATTCAATTG
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.04
39 29 0.26
40 77 0.70
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:38522662 original size:79 final size:80
Alignment explanation
Indices: 38522516--38522682 Score: 232
Period size: 79 Copynumber: 2.1 Consensus size: 80
38522506 CGGAATACAA
* *
38522516 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
38522581 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
38522596 CCGGATATAACAACTTGCACGAATGCCTTCGGGTC-TAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
38522658 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
38522675 CCGGATAT
1 CCGGATAT
38522683 CATTCAATTG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 2 0.03
79 43 0.55
80 32 0.41
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:38530539 original size:39 final size:38
Alignment explanation
Indices: 38530496--38530619 Score: 101
Period size: 39 Copynumber: 3.2 Consensus size: 38
38530486 ACCCAAGCTT
* *
38530496 CTTCGGAATACAACCGGATATAACCACACGCACGAATGC
1 CTTCGGAATAC-ACCGGATATAACAACTCGCACGAATGC
* * *
38530535 CTTCGG-GT-CTTAGCCGGATATAACGACTCGCACAAATGC
1 CTTCGGAATAC--A-CCGGATATAACAACTCGCACGAATGC
* *
38530574 CTTCGGGTATTAGC-CCGGATATAACAACTTGCACGAATGC
1 CTTC-GG-AATA-CACCGGATATAACAACTCGCACGAATGC
38530614 CTTCGG
1 CTTCGG
38530620 GTCTTAGCCC
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
37 1 0.01
38 2 0.03
39 35 0.51
40 29 0.42
42 1 0.01
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (38 bp):
CTTCGGAATACACCGGATATAACAACTCGCACGAATGC
Found at i:38530613 original size:40 final size:39
Alignment explanation
Indices: 38530509--38530674 Score: 203
Period size: 39 Copynumber: 4.2 Consensus size: 39
38530499 CGGAATACAA
*
38530509 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAA-CACTCGCACGAATGCCTTCGGGTCTTAGC
* *
38530548 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTCGCACGAATGCCTTCGGGTCTTAGC
*
38530588 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
38530628 CCGGATA-AAGTCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAA--CACTCGCACGAATGCCTTCGGGTCTTAGC
38530667 CCGGATAT
1 CCGGATAT
38530675 CATTCAATTG
Statistics
Matches: 112, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 60 0.54
40 50 0.45
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAACACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:38530654 original size:79 final size:79
Alignment explanation
Indices: 38530509--38530674 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
38530499 CGGAATACAA
* *
38530509 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCGGATATAACGACTCGCACAAATGC
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCGGATATAACGACTAGCACAAATGC
*
38530574 CTTCGGGTATTAGC
66 CTTCGGGTATTAAC
** *
38530588 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCAC-AT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAG-CCGGATATAACG--ACTAGCACAAA
*
38530650 TGCCTTCGGGTCTTAAC
63 TGCCTTCGGGTATTAAC
38530667 CCGGATAT
1 CCGGATAT
38530675 CATTCAATTG
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 62 0.81
80 14 0.18
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCGGATATAACGACTAGCACAAATGC
CTTCGGGTATTAAC
Found at i:38533669 original size:39 final size:40
Alignment explanation
Indices: 38533492--38533673 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
38533482 CCGCACCAAG
* * * * * * *
38533492 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
38533531 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
38533571 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
38533611 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
38533650 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
38533674 CATTCAATTT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 43 0.35
40 77 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:38538242 original size:93 final size:93
Alignment explanation
Indices: 38538083--38538253 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
38538073 GGATGGTTGA
* ** *
38538083 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
38538148 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
38538176 GCATCCGAACTCATTGAGTTGAGTCCGAGCTCGTTTATGGATGCGAACG-CCAGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
38538240 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
38538254 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38546072 original size:37 final size:37
Alignment explanation
Indices: 38546031--38546104 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
38546021 GTGAAATGTA
38546031 AATATTTCATTTCTACCATGTATTATGTGTCTTGATG
1 AATATTTCATTTCTACCATGTATTATGTGTCTTGATG
38546068 AATATTTCATTTCTACCATGTATTATGTGTCTTGATG
1 AATATTTCATTTCTACCATGTATTATGTGTCTTGATG
38546105 TTTCATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (37 bp):
AATATTTCATTTCTACCATGTATTATGTGTCTTGATG
Found at i:38549003 original size:2 final size:2
Alignment explanation
Indices: 38548996--38549023 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38548986 TTTGTCTAAG
38548996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38549024 GCATTTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38564505 original size:38 final size:35
Alignment explanation
Indices: 38564446--38564563 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
38564436 TCAATCATGC
*
38564446 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
38564485 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38564516 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38564547 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
38564564 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:38564507 original size:31 final size:31
Alignment explanation
Indices: 38564469--38564563 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
38564459 CCTTTTCATA
*
38564469 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38564500 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38564531 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38564562 TT
1 TT
38564564 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:38564806 original size:23 final size:23
Alignment explanation
Indices: 38564776--38564895 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
38564766 CCTAGCCTCT
*
38564776 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38564799 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
38564822 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
38564845 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
38564869 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
38564893 TTT
1 TTT
38564896 TTCACTTCCT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 47 0.51
24 46 0.49
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:38564858 original size:24 final size:24
Alignment explanation
Indices: 38564755--38564896 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
38564745 GCTTTATCAT
*
38564755 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
38564780 ATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
38564803 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
38564826 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38564850 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
38564874 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38564897 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 45 0.41
24 54 0.49
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Done.