Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001292.1 Hibiscus syriacus cultivar Beakdansim tig00002528_pilon, whole genome shotgun sequence
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: 174166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1759 original size:2 final size:2
Alignment explanation
Indices: 1752--1808 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1742 CGAGATGATA
1752 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
1794 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1809 AGCAACAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6084 original size:30 final size:29
Alignment explanation
Indices: 6049--6117 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
6039 AAATTTGTCT
* *
6049 TTTTTATTTTAAAATTATAACAT-TTAAAA
1 TTTTTATTTTAAAATAATAA-ATAATAAAA
**
6078 TGTTTTATTAAAAAATAATAAATAATAAAA
1 T-TTTTATTTTAAAATAATAAATAATAAAA
6108 TTTTTATTTT
1 TTTTTATTTT
6118 CATTTTTACC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TTTTTATTTTAAAATAATAAATAATAAAA
Found at i:9356 original size:20 final size:21
Alignment explanation
Indices: 9331--9373 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
9321 ACATAAAATC
*
9331 ATTTATGAGTA-CAAAATAAA
1 ATTTATCAGTATCAAAATAAA
9351 ATTTATCAGTATTCAAAATAAA
1 ATTTATCAGTA-TCAAAATAAA
9373 A
1 A
9374 CAGATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTTATCAGTATCAAAATAAA
Found at i:23770 original size:16 final size:16
Alignment explanation
Indices: 23741--23784 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23731 GTTTACACTT
* *
23741 ATTTCATCTCTTCAAC
1 ATTTCCTCTTTTCAAC
23757 ATTTCCTCTTTTCAAC
1 ATTTCCTCTTTTCAAC
23773 ACTTT-CTCTTTT
1 A-TTTCCTCTTTT
23785 AGTAAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.18, C:0.30, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTCCTCTTTTCAAC
Found at i:27039 original size:14 final size:14
Alignment explanation
Indices: 27020--27080 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
27010 CATTAACACA
27020 CATATATATCATAT
1 CATATATATCATAT
27034 CATATA-ATTCATAT
1 CATATATA-TCATAT
* *
27048 CACA-A-AACATAT
1 CATATATATCATAT
27060 -ATATATAT-ATAT
1 CATATATATCATAT
*
27072 CACATATAT
1 CATATATAT
27081 TGTATTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.05
12 10 0.26
13 11 0.29
14 15 0.39
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
CATATATATCATAT
Found at i:27933 original size:19 final size:19
Alignment explanation
Indices: 27911--27948 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27901 CGATCGAATC
27911 TTAACTTGATAATCGTTCT
1 TTAACTTGATAATCGTTCT
27930 TTAACTTGATAATCGTTCT
1 TTAACTTGATAATCGTTCT
27949 GGAACTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (19 bp):
TTAACTTGATAATCGTTCT
Found at i:27954 original size:19 final size:19
Alignment explanation
Indices: 27913--27956 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27903 ATCGAATCTT
**
27913 AACTTGATAATCGTTCTTT
1 AACTTGATAATCGTTCTGG
27932 AACTTGATAATCGTTCTGG
1 AACTTGATAATCGTTCTGG
27951 AACTTG
1 AACTTG
27957 TTCGTGCTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (19 bp):
AACTTGATAATCGTTCTGG
Found at i:28123 original size:24 final size:20
Alignment explanation
Indices: 28070--28127 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
28060 TTCCCCTTGA
*
28070 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
28090 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
28113 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
28128 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:28238 original size:64 final size:63
Alignment explanation
Indices: 28115--28255 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
28105 TCTTTAACAT
* *
28115 GTGCATCGATGCACTACCCATGCATCGATACACCAATCAACTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACCAATCAACTTCGATGTTTTCATTTTAA-AGA
* * * * * *
28179 GTTCATCGATGCACT-CCTTATGCATCGATGCACTAAT-TACATTCGATG-TTTCTTCTTTAAAG
1 GTGCATCGATGCACTACC-CATGCATCGATACACCAATCAAC-TTCGATGTTTTCAT-TTTAAAG
28241 A
63 A
28242 GTGCATCGATGCAC
1 GTGCATCGATGCAC
28256 ATTGAATGTG
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
63 23 0.35
64 42 0.65
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACCAATCAACTTCGATGTTTTCATTTTAAAGA
Found at i:30868 original size:23 final size:23
Alignment explanation
Indices: 30837--30905 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
30827 CACCACAACT
* *
30837 CGTATAATTGCACCAAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * * * *
30860 CGTAGAATTACATCGGAGTGTCG
1 CGTAGAATTGCACCGAAGTGCCA
*
30883 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
30906 TATAATAATG
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:31934 original size:21 final size:21
Alignment explanation
Indices: 31908--31952 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31898 GATTTCTGGG
* *
31908 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
31929 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
31950 CAA
1 CAA
31953 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:32508 original size:23 final size:24
Alignment explanation
Indices: 32465--32511 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
32455 ATATGGCCTG
*
32465 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
32489 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
32512 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:32727 original size:31 final size:31
Alignment explanation
Indices: 32689--32875 Score: 304
Period size: 31 Copynumber: 6.0 Consensus size: 31
32679 AGGGTCGAGG
32689 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
32720 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
32751 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
32782 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
32813 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
32844 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
32875 G
1 G
32876 GTCCTTCGGG
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
31 146 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:35757 original size:21 final size:21
Alignment explanation
Indices: 35731--35775 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35721 GATTTCTGGG
* *
35731 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
35752 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
35773 CAA
1 CAA
35776 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:36331 original size:23 final size:24
Alignment explanation
Indices: 36288--36334 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
36278 ATATGGCCTG
*
36288 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
36312 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
36335 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:36550 original size:31 final size:31
Alignment explanation
Indices: 36512--36698 Score: 304
Period size: 31 Copynumber: 6.0 Consensus size: 31
36502 AGGGTCGAGG
36512 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
36543 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
36574 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
36605 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
36636 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
36667 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
36698 G
1 G
36699 GTCCTTCGGG
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
31 146 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:37815 original size:63 final size:65
Alignment explanation
Indices: 37720--37861 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 65
37710 AATGGAGGTA
* **
37720 TGCATCGATGCACTACATCATGCATCGATGCATAAATCATATTCGATGTTTGTA-TTT-ATTGAG
1 TGCATCGATGCACTACATCATGCATCGATGCATAAATCACATTCGATGTTTGTATTTTAAAAGA-
37783 G
65 G
* * ** **
37784 TGCATCGATGCACT-CCTTATGCATCGATGCATCGATGGCATTCGATGTTTGTATTTTAAAAGAG
1 TGCATCGATGCACTACATCATGCATCGATGCATAAATCACATTCGATGTTTGTATTTTAAAAGAG
37848 TGCATCGATGCACT
1 TGCATCGATGCACT
37862 TCATGTGCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 32 0.48
64 32 0.48
65 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (65 bp):
TGCATCGATGCACTACATCATGCATCGATGCATAAATCACATTCGATGTTTGTATTTTAAAAGAG
Found at i:38421 original size:11 final size:11
Alignment explanation
Indices: 38405--38431 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38395 GATGGAGGAG
38405 GAGAAGAAGAA
1 GAGAAGAAGAA
38416 GAGAAGAAGAA
1 GAGAAGAAGAA
38427 GAGAA
1 GAGAA
38432 ATCTGGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (11 bp):
GAGAAGAAGAA
Found at i:40505 original size:24 final size:20
Alignment explanation
Indices: 40452--40509 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
40442 TTCCCCTTGA
*
40452 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
40472 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
40495 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
40510 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:47165 original size:21 final size:22
Alignment explanation
Indices: 47139--47186 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
47129 CCGTCAAACC
47139 GAAAACATGCCA-AAAGACAGA
1 GAAAACATGCCATAAAGACAGA
* **
47160 GAAAACATTCCATAAAGGTAGA
1 GAAAACATGCCATAAAGACAGA
47182 GAAAA
1 GAAAA
47187 ACGTGTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (22 bp):
GAAAACATGCCATAAAGACAGA
Found at i:50158 original size:15 final size:15
Alignment explanation
Indices: 50124--50168 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
50114 TGTTAGTATT
*
50124 TTATTTAATTATTGTA
1 TTATTTAATT-TTTTA
50140 TTATTTAATTTTTTA
1 TTATTTAATTTTTTA
*
50155 TTATTTTATTTTTT
1 TTATTTAATTTTTT
50169 TACAGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTATTTAATTTTTTA
Found at i:50167 original size:16 final size:16
Alignment explanation
Indices: 50124--50170 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
50114 TGTTAGTATT
* * *
50124 TTATTTAATTATTGTA
1 TTATTTTATTTTTTTA
*
50140 TTA-TTTAATTTTTTA
1 TTATTTTATTTTTTTA
50155 TTATTTTATTTTTTTA
1 TTATTTTATTTTTTTA
50171 CAGTTATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTTATTTTTTTA
Found at i:50440 original size:13 final size:13
Alignment explanation
Indices: 50422--50481 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
50412 AACTGTAAAA
50422 AAATAAAATAATT
1 AAATAAAATAATT
50435 AAATAAAATAA-T
1 AAATAAAATAATT
*
50447 AAA-AAAATTAAAT
1 AAATAAAA-TAATT
*
50460 -AATACAATAATT
1 AAATAAAATAATT
50472 AAATAAAATA
1 AAATAAAATA
50482 CTAACAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.10
12 13 0.32
13 23 0.57
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:50441 original size:21 final size:21
Alignment explanation
Indices: 50417--50461 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
50407 TTTATAACTG
*
50417 TAAAAAAATAAAATAATTAAA
1 TAAAAAAATAAAAAAATTAAA
*
50438 TAAAATAATAAAAAAATTAAA
1 TAAAAAAATAAAAAAATTAAA
50459 TAA
1 TAA
50462 TACAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAAAAATAAAAAAATTAAA
Found at i:50454 original size:16 final size:16
Alignment explanation
Indices: 50417--50477 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 16
50407 TTTATAACTG
50417 TAAAAAAATAAAATAA
1 TAAAAAAATAAAATAA
*
50433 T---TAAATAAAATAA
1 TAAAAAAATAAAATAA
*
50446 TAAAAAAATTAAATAA
1 TAAAAAAATAAAATAA
* * *
50462 TACAATAATTAAATAA
1 TAAAAAAATAAAATAA
50478 AATACTAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 12 0.32
16 25 0.68
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAATAAAATAA
Found at i:50475 original size:21 final size:21
Alignment explanation
Indices: 50417--50469 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
50407 TTTATAACTG
* *
50417 TAAAAAAATAAAATAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
50438 TAAAATAATAAAAAAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
50459 TAATACAATAA
1 TAAAACAATAA
50470 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAACAATAAAAAAATTAAA
Found at i:50480 original size:21 final size:20
Alignment explanation
Indices: 50417--50481 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
50407 TTTATAACTG
*
50417 TAAAAAAATAAAATAATTAAA
1 TAAAATAAT-AAATAATTAAA
50438 TAAAATAAT-AA-AA--AAA
1 TAAAATAATAAATAATTAAA
*
50454 TTAAATAATACAATAATTAAA
1 TAAAATAATA-AATAATTAAA
50475 TAAAATA
1 TAAAATA
50482 CTAACAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 11 0.31
18 4 0.11
19 4 0.11
21 17 0.47
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAATAAATAATTAAA
Found at i:51090 original size:37 final size:37
Alignment explanation
Indices: 51049--51161 Score: 181
Period size: 37 Copynumber: 3.0 Consensus size: 37
51039 AACATAACGT
51049 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAGA
* *
51086 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAAAA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAAT-AAGA
**
51124 TAGAGTTTTACTATAATTCAAACTTCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAGA
51161 T
1 T
51162 CCACAAGCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
37 36 0.52
38 33 0.48
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAGA
Found at i:51136 original size:38 final size:38
Alignment explanation
Indices: 51049--51158 Score: 177
Period size: 38 Copynumber: 2.9 Consensus size: 38
51039 AACATAACGT
*
51049 TAGAGTTTTACTAGGATTCAAACTTCTAAAAAT-AAGA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAAAA
*
51086 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAAAA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAAAA
**
51124 TAGAGTTTTACTATAATTCAAACTTCTAAAAATAA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAA
51159 GATCCACAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
37 32 0.48
38 35 0.52
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (38 bp):
TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAAAA
Found at i:52097 original size:2 final size:2
Alignment explanation
Indices: 52090--52150 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
52080 ACTTTGTAAT
*
52090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52132 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
52151 GTATGTATAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53504 original size:23 final size:23
Alignment explanation
Indices: 53471--53514 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
53461 ATGCATGAGT
*
53471 TGCATCTATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
53494 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
53515 GCAGCCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:53580 original size:83 final size:83
Alignment explanation
Indices: 53436--53588 Score: 243
Period size: 83 Copynumber: 1.8 Consensus size: 83
53426 AAGCTGGCTA
* * *
53436 CCAAACTTTAACCCTCTGCTCCCTCATGCATGAGTTGCATCTATAGCTGGGAGATTCCTGCATCC
1 CCAAACTTTAACCATATGCTCCCTCATGCATGAGTTGCATCCATAGCTGGGAGATTCCTGCATCC
53501 ATAGCTGGGAGATTGCAG
66 ATAGCTGGGAGATTGCAG
* * * *
53519 CCAAGCTTTAACCATATGCTCCCTTATGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATTC
1 CCAAACTTTAACCATATGCTCCCTCATGCATGAGTTGCATCCATAGCTGGGAGATTCCTGCATCC
53584 ATAGC
66 ATAGC
53589 CGCATTATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (83 bp):
CCAAACTTTAACCATATGCTCCCTCATGCATGAGTTGCATCCATAGCTGGGAGATTCCTGCATCC
ATAGCTGGGAGATTGCAG
Found at i:53965 original size:28 final size:30
Alignment explanation
Indices: 53931--53992 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
53921 AATTTAGTTA
53931 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTGTATATTAT
53959 ATTAGTTTGTTAGTTTAAGTTGTATATTAT
1 ATTAGTTTGTTAGTTTAAGTTGTATATTAT
53989 ATTA
1 ATTA
53993 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTGTATATTAT
Found at i:54484 original size:17 final size:17
Alignment explanation
Indices: 54462--54523 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
54452 AGATAATTTC
54462 TGTTTAAAAAAATATTG
1 TGTTTAAAAAAATATTG
* *
54479 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A-ATATTG
*
54498 TTGTTTAAAAAAATATTT
1 -TGTTTAAAAAAATATTG
54516 TGTTTAAA
1 TGTTTAAA
54524 TTATATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 18 0.49
18 4 0.11
19 5 0.14
20 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (17 bp):
TGTTTAAAAAAATATTG
Found at i:57933 original size:49 final size:48
Alignment explanation
Indices: 57867--57980 Score: 192
Period size: 49 Copynumber: 2.3 Consensus size: 48
57857 AATAATTATT
57867 TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATT-ATAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
57916 TAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATTATTTGA
1 TAGTAATGATTA-TAATAATGAAATTATTATTAATATTTAATGATTTGA
57965 TAGTAATGATTATAAT
1 TAGTAATGATTATAAT
57981 GATTTTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
48 5 0.08
49 56 0.92
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.46
Consensus pattern (48 bp):
TAGTAATGATTATAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:58153 original size:156 final size:155
Alignment explanation
Indices: 57993--58326 Score: 551
Period size: 156 Copynumber: 2.1 Consensus size: 155
57983 TTTTAATATT
* * **
57993 ATGATTTAATAATGTTTTAATAATAATTTAGTAATAATCATTATAATAATTATTTAATAATAATT
1 ATGATTCAATAATGTTTTAATAATAATTTAGTAATAATCATTATAATAATGATCCAATAATAATT
* *
58058 TAATAATGATTAAAATATTTAATGATTTATTGATTTAGTAATGATTTGATAATAATCATTATAAT
66 TAATAATGATTAAAATATTTAATGATTGA-TGATTTAGTAATGACTTGATAATAATCATTATAAT
58123 AATATTTAGTAATAATCATTATAATA
130 AATATTTAGTAATAATCATTATAATA
* *
58149 ATGATTCAATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATGATCCAATAATGATT
1 ATGATTCAATAATGTTTTAATAATAATTTAGTAATAATCATTATAATAATGATCCAATAATAATT
* *
58214 TAATAATGATTAAAATATTTAATGATTGATGATTTAGTAATGACTTGATAATAATTATTATAGTA
66 TAATAATGATTAAAATATTTAATGATTGATGATTTAGTAATGACTTGATAATAATCATTATAATA
58279 ATATTTAGTAATAATCATTATAATA
131 ATATTTAGTAATAATCATTATAATA
*
58304 ATGGTTCAATAATGATTTTAATA
1 ATGATTCAATAATG-TTTTAATA
58327 TTTAATGATT
Statistics
Matches: 165, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
155 71 0.43
156 94 0.57
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (155 bp):
ATGATTCAATAATGTTTTAATAATAATTTAGTAATAATCATTATAATAATGATCCAATAATAATT
TAATAATGATTAAAATATTTAATGATTGATGATTTAGTAATGACTTGATAATAATCATTATAATA
ATATTTAGTAATAATCATTATAATA
Found at i:58161 original size:11 final size:11
Alignment explanation
Indices: 57968--58382 Score: 160
Period size: 11 Copynumber: 35.9 Consensus size: 11
57958 TATTTGATAG
57968 TAATGA-TT-A
1 TAATGATTTAA
57977 TAATGATTTTAA
1 TAATGA-TTTAA
57989 TATTATGATTTAA
1 TA--ATGATTTAA
*
58002 TAATGTTTTAA
1 TAATGATTTAA
*
58013 TAATAATTTAGTAA
1 TAATGA-TT--TAA
*
58027 TAATCATTATAA
1 TAATGATT-TAA
*
58039 TAATTATTTAA
1 TAATGATTTAA
*
58050 TAATAATTTAA
1 TAATGATTTAA
58061 TAATGA-TTAA
1 TAATGATTTAA
58071 -AAT-A-TT--
1 TAATGATTTAA
58077 TAATGATTT-A
1 TAATGATTTAA
*
58087 T--TGATTTAG
1 TAATGATTTAA
58096 TAATGATTTGATAA
1 TAATGA-TT--TAA
*
58110 TAATCATTATAA
1 TAATGATT-TAA
58122 TAAT-ATTTAGTAA
1 TAATGA-TT--TAA
*
58135 TAATCATTATAA
1 TAATGATT-TAA
*
58147 TAATGATTCAA
1 TAATGATTTAA
58158 TAATGATTTAA
1 TAATGATTTAA
*
58169 TAATAATTTAGTAA
1 TAATGA-TT--TAA
*
58183 TAATCATTATAA
1 TAATGATT-TAA
**
58195 TAATGATCCAA
1 TAATGATTTAA
58206 TAATGATTTAA
1 TAATGATTTAA
58217 TAATGA-TTAA
1 TAATGATTTAA
58227 -AAT-ATTTAA
1 TAATGATTTAA
*
58236 TGATTGATGATTTAG
1 T-A---ATGATTTAA
58251 TAATGACTTGATAA
1 TAATGA-TT--TAA
* *
58265 TAATTATTATAG
1 TAATGATT-TAA
58277 TAAT-ATTTAGTAA
1 TAATGA-TT--TAA
*
58290 TAATCATTATAA
1 TAATGATT-TAA
* *
58302 TAATGGTTCAA
1 TAATGATTTAA
58313 TAATGATTTTAA
1 TAATGA-TTTAA
* * * * *
58325 TATTTAATGAT
1 TAATGATTTAA
*
58336 TAATGATTTAG
1 TAATGATTTAA
58347 TAATGATTTGATAA
1 TAATGA-TT--TAA
*
58361 TAATAATTATAA
1 TAATGATT-TAA
58373 TAATGATTTA
1 TAATGATTTA
58383 GAGTAGGATA
Statistics
Matches: 316, Mismatches: 49, Indels: 80
0.71 0.11 0.18
Matches are distributed among these distances:
7 3 0.01
8 11 0.03
9 19 0.06
10 9 0.03
11 99 0.31
12 89 0.28
13 34 0.11
14 46 0.15
15 6 0.02
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.45
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:58200 original size:48 final size:47
Alignment explanation
Indices: 58108--58220 Score: 190
Period size: 48 Copynumber: 2.4 Consensus size: 47
58098 ATGATTTGAT
* *
58108 AATAATCATTATAATAATATTTAGTAATAATCATTATAATAATGATTC
1 AATAATGATT-TAATAATATTTAGTAATAATCATTATAATAATGATCC
58156 AATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATGATCC
1 AATAATGATTTAATAAT-ATTTAGTAATAATCATTATAATAATGATCC
58204 AATAATGATTTAATAAT
1 AATAATGATTTAATAAT
58221 GATTAAAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
47 7 0.11
48 55 0.89
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (47 bp):
AATAATGATTTAATAATATTTAGTAATAATCATTATAATAATGATCC
Found at i:58255 original size:45 final size:45
Alignment explanation
Indices: 58206--58361 Score: 143
Period size: 45 Copynumber: 3.3 Consensus size: 45
58196 AATGATCCAA
*
58206 TAATGATTTAATAATGATTAAAATATTTAATGATTGATGATTTAG
1 TAATGATTTAATAATGATTAAAATATTTAATGATTAATGATTTAG
* * * * *
58251 TAATGACTTGATAATAATTATTATAGTAATATTTAGT-AATAATCATTATAA
1 TAATGA-TT--TAATAATGATTA-A--AATATTTAATGATTAATGATT-TAG
* * **
58302 TAATGGTTCAATAATGATTTTAATATTTAATGATTAATGATTTAG
1 TAATGATTTAATAATGATTAAAATATTTAATGATTAATGATTTAG
*
58347 TAATGATTTGATAAT
1 TAATGATTTAATAAT
58362 AATAATTATA
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
45 29 0.34
46 10 0.12
48 20 0.24
49 1 0.01
50 9 0.11
51 16 0.19
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.45
Consensus pattern (45 bp):
TAATGATTTAATAATGATTAAAATATTTAATGATTAATGATTTAG
Found at i:58266 original size:48 final size:48
Alignment explanation
Indices: 58214--58374 Score: 141
Period size: 48 Copynumber: 3.4 Consensus size: 48
58204 AATAATGATT
*
58214 TAATAATGATTAAAATATTTAATGATTGATGATTTAGTAATGACTTGA
1 TAATAATGATTAAAATATTTAATGATTAATGATTTAGTAATGACTTGA
* * * * * *
58262 TAATAATTATTATAGTAATATTTAGT-AATAATCATTATAATAATG-GTT--
1 TAATAATGATTA-A--AATATTTAATGATTAATGATT-TAGTAATGACTTGA
* ** *
58310 CAATAATGATTTTAATATTTAATGATTAATGATTTAGTAATGATTTGA
1 TAATAATGATTAAAATATTTAATGATTAATGATTTAGTAATGACTTGA
* *
58358 TAATAATAATTATAATA
1 TAATAATGATTAAAATA
58375 ATGATTTAGA
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
45 16 0.19
46 10 0.12
48 34 0.40
49 1 0.01
50 9 0.10
51 16 0.19
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (48 bp):
TAATAATGATTAAAATATTTAATGATTAATGATTTAGTAATGACTTGA
Found at i:58327 original size:96 final size:97
Alignment explanation
Indices: 58166--58383 Score: 282
Period size: 96 Copynumber: 2.3 Consensus size: 97
58156 AATAATGATT
* * ** *
58166 TAATAATAATTTAGTAATAATCA-TTA-TAATAATGA-TCCAATAATGATTTAATAATGATTAAA
1 TAATAATAA-TTA-TAATAATGATTTAGTAATAATCATTATAATAATGATTCAATAATGATTAAA
*
58228 ATATTTAATGATTGATGATTTAGTAATGACTTGA
64 ATATTTAATGATTAATGATTTAGTAATGACTTGA
* * * **
58262 TAATAATTATTATAGTAAT-ATTTAGTAATAATCATTATAATAATGGTTCAATAATGATTTTAAT
1 TAATAATAATTATAATAATGATTTAGTAATAATCATTATAATAATGATTCAATAATGATTAAAAT
*
58326 ATTTAATGATTAATGATTTAGTAATGATTTGA
66 ATTTAATGATTAATGATTTAGTAATGACTTGA
58358 TAATAATAATTATAATAATGATTTAG
1 TAATAATAATTATAATAATGATTTAG
58384 AGTAGGATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
93 1 0.01
94 9 0.09
95 11 0.10
96 78 0.74
97 6 0.06
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (97 bp):
TAATAATAATTATAATAATGATTTAGTAATAATCATTATAATAATGATTCAATAATGATTAAAAT
ATTTAATGATTAATGATTTAGTAATGACTTGA
Found at i:58363 original size:155 final size:153
Alignment explanation
Indices: 57993--58380 Score: 521
Period size: 156 Copynumber: 2.5 Consensus size: 153
57983 TTTTAATATT
* * * *
57993 ATGATTTAATAATGTTTTAATAATAATTTAGTAATAATCATTATAATAATTATTTAATAATAATT
1 ATGATTCAATAATGATTT-ATAATAATTTAATAATAATCATTATAATAATGA--TAATAATAATT
* *
58058 TAATAATGATTAAAATATTTAATGATTTATTGATTTAGTAATGATTTGATAATAATCATTATAAT
63 TAATAATGATTAAAATATTTAATGATTGATTGATTTAGTAATGACTTGATAATAATCATTATAAT
58123 AATATTTAGTAATAATCATTATAATA
128 AATATTTAGTAATAATCATTATAATA
* *
58149 ATGATTCAATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATGATCCAATAATGATT
1 ATGATTCAATAATGATTT-ATAATAATTTAATAATAATCATTATAATAATGAT--AATAATAATT
* *
58214 TAATAATGATTAAAATATTTAATGATTGA-TGATTTAGTAATGACTTGATAATAATTATTATAGT
63 TAATAATGATTAAAATATTTAATGATTGATTGATTTAGTAATGACTTGATAATAATCATTATAAT
58278 AATATTTAGTAATAATCATTATAATA
128 AATATTTAGTAATAATCATTATAATA
* * * *
58304 ATGGTTCAATAATGATTT-TAAT-ATTTAATGATTAATGATTTAGTAATGATTTGATAATAATAA
1 ATGATTCAATAATGATTTATAATAATTTAAT-AATAATCA-TTA-TAAT-A-ATGATAATAATAA
58367 TTATAATAATGATT
61 TT-TAATAATGATT
58381 TAGAGTAGGA
Statistics
Matches: 210, Mismatches: 14, Indels: 16
0.88 0.06 0.07
Matches are distributed among these distances:
152 6 0.03
153 10 0.05
154 4 0.02
155 88 0.42
156 98 0.47
157 4 0.02
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.44
Consensus pattern (153 bp):
ATGATTCAATAATGATTTATAATAATTTAATAATAATCATTATAATAATGATAATAATAATTTAA
TAATGATTAAAATATTTAATGATTGATTGATTTAGTAATGACTTGATAATAATCATTATAATAAT
ATTTAGTAATAATCATTATAATA
Found at i:59145 original size:144 final size:139
Alignment explanation
Indices: 58970--59252 Score: 503
Period size: 144 Copynumber: 2.0 Consensus size: 139
58960 ATATTAAATA
58970 TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTCTCAAATTTTTTGTCTAATTA
1 TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTCTCAAATTTTTTGTCTAATTA
*
59035 CAATTTAAGTCATTATAACTTTAAATATTAGACAAATTAGAAATTGTTTTTTAAATTTTGAGTTT
66 CAATTTAAGTC---ATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAA-TTTGAG-TT
59100 TTTTTTAATTTATG
126 TTTTTTAATTTATG
*
59114 TTTAATCAATTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTCTCAAATTTTTTGTCTAATTA
1 TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTCTCAAATTTTTTGTCTAATTA
59179 CAATTTAAGTCATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAATTTGAGTTTTTTT
66 CAATTTAAGTCATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAATTTGAGTTTTTTT
59244 TAATTTATG
131 TAATTTATG
59253 GTGAATACAA
Statistics
Matches: 137, Mismatches: 2, Indels: 5
0.95 0.01 0.03
Matches are distributed among these distances:
139 16 0.12
140 6 0.04
141 40 0.29
144 75 0.55
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (139 bp):
TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTCTCAAATTTTTTGTCTAATTA
CAATTTAAGTCATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAATTTGAGTTTTTTT
TAATTTATG
Found at i:60005 original size:15 final size:15
Alignment explanation
Indices: 59985--60022 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
59975 TTAAACAGTT
59985 GGAAAGCTGTGTATA
1 GGAAAGCTGTGTATA
60000 GGAAAGCTGTGTATA
1 GGAAAGCTGTGTATA
60015 GGAAAGCT
1 GGAAAGCT
60023 ATACTGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.24
Consensus pattern (15 bp):
GGAAAGCTGTGTATA
Found at i:64009 original size:23 final size:23
Alignment explanation
Indices: 63992--64036 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
63982 ATTTTATTTT
*
63992 AATATATATTTTAATTTTTTTAG
1 AATATAAATTTTAATTTTTTTAG
*
64015 AATCTAAATTTTAATTTTTTTA
1 AATATAAATTTTAATTTTTTTA
64037 TTAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
AATATAAATTTTAATTTTTTTAG
Found at i:68547 original size:162 final size:162
Alignment explanation
Indices: 68270--68605 Score: 530
Period size: 162 Copynumber: 2.1 Consensus size: 162
68260 TTGAAATAAA
* * * * *
68270 TATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCTTATAAAGTGTTAATACTTTATA
1 TATCGATACTTTTGGAATTTAAAAAAGAAGCAATAATAGCGCCTATAAAGTGTCAATACTTTATA
* *
68335 AAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGATAA
66 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
68400 AACCGGTAAAACGA-TACCGGATATGTTGAAAG
131 AACCGGTAAAAC-ACTACCGGATATGTTGAAAG
* *
68432 TGTCGATACTTTTGGAATTTAAAAAAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTATA
1 TATCGATACTTTTGGAATTTAAAAAAGAAGCAATAATAGCGCCTATAAAGTGTCAATACTTTATA
* *
68497 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACCAAACCGGTCTCGAAATGACCA
66 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
* * *
68562 AATCGGTTAAGCACTACCGGATATGTTGAAAG
131 AACCGGTAAAACACTACCGGATATGTTGAAAG
68594 TATCGATACTTT
1 TATCGATACTTT
68606 AATATAAGTA
Statistics
Matches: 158, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 1 0.01
162 157 0.99
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (162 bp):
TATCGATACTTTTGGAATTTAAAAAAGAAGCAATAATAGCGCCTATAAAGTGTCAATACTTTATA
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
AACCGGTAAAACACTACCGGATATGTTGAAAG
Found at i:72832 original size:24 final size:24
Alignment explanation
Indices: 72794--72851 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
72784 TTTCATGTTC
72794 ATTTAATATTTAATTGGAGTTTGA
1 ATTTAATATTTAATTGGAGTTTGA
*
72818 ATTTAA-ATTTCAATTTGAGTTTGA
1 ATTTAATATTT-AATTGGAGTTTGA
72842 ATTTCAATAT
1 ATTT-AATAT
72852 AAATTTCGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 4 0.13
24 22 0.73
25 2 0.07
26 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAATATTTAATTGGAGTTTGA
Found at i:72834 original size:18 final size:18
Alignment explanation
Indices: 72813--72849 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
72803 TTAATTGGAG
72813 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
72831 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
72849 T
1 T
72850 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:72856 original size:24 final size:24
Alignment explanation
Indices: 72805--72857 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
72795 TTTAATATTT
* * *
72805 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
72829 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
72853 AATTT
1 AATTT
72858 CGACTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:74979 original size:199 final size:199
Alignment explanation
Indices: 74392--75342 Score: 1441
Period size: 199 Copynumber: 4.8 Consensus size: 199
74382 GTAAACAAAT
74392 GTGTCGATACATTTATTAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
74455 AGGTAAATTTACAATGTAACTGGTAGATATATACCGGTTTTATGAGAAAATAGGTCTACATAATG
64 AGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATG
* * * *
74520 TATCGATACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCTCAACGAGGTGCACG
129 TATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACA
74585 CATAAA
194 CATAAA
* *
74591 GTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
*
74656 GTAACTTTACAATGTAACCGGTAGAAA-ATACCAGTTTTATGAGAAAATAGGTCTACATAATGTA
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTA
*
74720 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACGAGGTGCACACA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACA
74785 TAAA
196 TAAA
* *
74789 GTGTCGATATATTTAAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * *
74854 ATAACTTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAGTTCTACATAATGTA
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTA
74919 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCA-AGC
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACA-C
74983 ATAAA
195 ATAAA
* *
74988 GTGTCGATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAC
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * *
75053 GTAACTTTACAATGTAACCAGTAAAAATATACC--TATTAATTAGAAAATAGGTCAACATAATGT
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGGT-TTTATGAGAAAATAGGTCTACATAATGT
* * * * *
75116 ATCGATACTTTTTAAA-TTGTGTCAATACTTTTTGTCCAGAATGAAAGTCAAACGAGGTGCACAC
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACAC
75180 ATAAA
195 ATAAA
* *
75185 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * * *
75249 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGATATAATTAGAAAATAGATCAACATAATG
64 AGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATG
* *
75314 TATCGACACTTTTTAAATTTTTATCGATA
129 TATCGACACTTTTTAAATTTGTGTCGATA
75343 TATTTTTTTT
Statistics
Matches: 693, Mismatches: 48, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
197 66 0.10
198 299 0.43
199 319 0.46
200 9 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAACTTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACA
TAAA
Found at i:75128 original size:397 final size:395
Alignment explanation
Indices: 74392--75342 Score: 1528
Period size: 397 Copynumber: 2.4 Consensus size: 395
74382 GTAAACAAAT
*
74392 GTGTCGATACATTTATTAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * *
74457 GTAAATTTACAATGTAACTGGTAGATATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTA
66 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGATCTACATAATGTA
* * * *
74522 TCGATACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCTCAACGAGGTGCACGCA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGCA
74587 TAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTA
196 TAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTA
* * * * *
74652 ATAGGTAACTTTACAATGTAACCGGTAGAAAATACCAGTTTTATGAGAAAATAGGTCTACATAAT
261 ATACGTAACTTTACAATGTAACCAGTAAAAAATACCAG-TTAATGAGAAAATAGGTCAACATAAT
* * *
74717 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACGAGGTGCAC
325 GTATCGACACTTTTTAAA-TTGTGTCAATACTTTTTGTCCAGAATGAAAGTCAAACGAGGTGCAC
74782 ACATAAA
389 ACATAAA
* * *
74789 GTGTCGATATATTTA-AAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
74853 GATAACTTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAGTTCTACATAATGT
65 GGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGATCTACATAATGT
74918 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGC
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGC
*
74983 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGT
195 ATAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGT
*
75048 AATACGTAACTTTACAATGTAACCAGTAAAAATATACCTA-TTAATTAGAAAATAGGTCAACATA
260 AATACGTAACTTTACAATGTAACCAGTAAAAA-ATACC-AGTTAATGAGAAAATAGGTCAACATA
*
75112 ATGTATCGATACTTTTTAAATTGTGTCAATACTTTTTGTCCAGAATGAAAGTCAAACGAGGTGCA
323 ATGTATCGACACTTTTTAAATTGTGTCAATACTTTTTGTCCAGAATGAAAGTCAAACGAGGTGCA
75177 CACATAAA
388 CACATAAA
*
75185 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
75250 GGTAAATTTACAATGTAACCGGTAGAAATATACCGATATAATTAGAAAATAGATCAACATAATGT
65 GGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGATCTACATAATGT
* *
75315 ATCGACACTTTTTAAATTTTTATCGATA
130 ATCGACACTTTTTAAATTTGTGTCGATA
75343 TATTTTTTTT
Statistics
Matches: 509, Mismatches: 40, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
396 66 0.13
397 434 0.85
398 8 0.02
399 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (395 bp):
GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGATCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGCA
TAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTA
ATACGTAACTTTACAATGTAACCAGTAAAAAATACCAGTTAATGAGAAAATAGGTCAACATAATG
TATCGACACTTTTTAAATTGTGTCAATACTTTTTGTCCAGAATGAAAGTCAAACGAGGTGCACAC
ATAAA
Found at i:80237 original size:3 final size:3
Alignment explanation
Indices: 80231--80286 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
80221 TTTTTTATCG
** *
80231 TTA TTA TTA TTA TTA TTA TTA TCG TTA -TA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
80278 TTA TTA TTA
1 TTA TTA TTA
80287 ATTTACAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:81909 original size:29 final size:30
Alignment explanation
Indices: 81860--81918 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
81850 CTTTTACTAA
* *
81860 TTTAGTCCATTATGTATATG-TATTTTTAT
1 TTTAGTCCATTATGTACATGTTATTATTAT
81889 TTTAGTCCTATTAT-TACATGTTATTATTAT
1 TTTAGTCC-ATTATGTACATGTTATTATTAT
81919 ACTCATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (30 bp):
TTTAGTCCATTATGTACATGTTATTATTAT
Found at i:86569 original size:26 final size:25
Alignment explanation
Indices: 86538--86617 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 25
86528 CCAATTTTTG
86538 ACATTCTATCTCTTTGAGACCTTG-A
1 ACATTCT-TCTCTTTGAGACCTTGAA
*
86563 A-A-TATTCT-TTT-AGACCTTGAA
1 ACATTCTTCTCTTTGAGACCTTGAA
*
86584 ACATTCCCTCTCTTTGAGACCTTGAA
1 ACATT-CTTCTCTTTGAGACCTTGAA
86610 ACATTCTT
1 ACATTCTT
86618 TCCACCTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
20 8 0.18
21 5 0.11
22 4 0.09
23 3 0.07
24 4 0.09
25 6 0.13
26 15 0.33
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (25 bp):
ACATTCTTCTCTTTGAGACCTTGAA
Found at i:86577 original size:20 final size:20
Alignment explanation
Indices: 86548--86631 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
86538 ACATTCTATC
*
86548 TCTTTGAGACCTTGAAATAT
1 TCTTTGAGACCTTGAAACAT
*
86568 TCTTTTAGACCTTGAAACATTCCCT
1 TCTTTGAGACCTTGAAACA-----T
86593 CTCTTTGAGACCTTGAAACAT
1 -TCTTTGAGACCTTGAAACAT
**
86614 TCTTT-CCACCTTGAAACA
1 TCTTTGAGACCTTGAAACA
86632 CTGCATTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
19 11 0.21
20 22 0.42
21 1 0.02
25 1 0.02
26 18 0.34
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
TCTTTGAGACCTTGAAACAT
Found at i:86649 original size:46 final size:46
Alignment explanation
Indices: 86546--86636 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
86536 TGACATTCTA
* * * *
86546 TCTCTTTGAGACCTTGAAATATTCTTTTAGACCTTGAAACATTCCC
1 TCTCTTTGAGACCTTGAAACATTCTTTTACACCTTGAAACATGCAC
*
86592 TCTCTTTGAGACCTTGAAACATTC-TTTCCACCTTGAAACACTGCA
1 TCTCTTTGAGACCTTGAAACATTCTTTTACACCTTGAAACA-TGCA
86637 TTTTTTTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 14 0.36
46 25 0.64
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (46 bp):
TCTCTTTGAGACCTTGAAACATTCTTTTACACCTTGAAACATGCAC
Found at i:87250 original size:18 final size:18
Alignment explanation
Indices: 87212--87278 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
87202 AAGATCAAAC
87212 CAAAGAA-AAAAACAAAGAG
1 CAAAGAACAAAAA-AAA-AG
87231 CAAAGAA-AAAAATAAAAG
1 CAAAGAACAAAAA-AAAAG
*
87249 CAAA-AATCAAAGAAAAAG
1 CAAAGAA-CAAAAAAAAAG
87267 CAAAGAACAAAA
1 CAAAGAACAAAA
87279 GAGGACAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.05
18 19 0.45
19 21 0.50
ACGTcount: A:0.75, C:0.10, G:0.12, T:0.03
Consensus pattern (18 bp):
CAAAGAACAAAAAAAAAG
Found at i:88464 original size:12 final size:12
Alignment explanation
Indices: 88447--88521 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 12
88437 GATTGAGAAA
88447 CATACATCAACT
1 CATACATCAACT
*
88459 CATACATACATATAT
1 CATACAT-CA-A-CT
88474 ACATACATCAACT
1 -CATACATCAACT
*
88487 CATACATACATATAT
1 CATACAT-CA-A-CT
*
88502 ACATACATCAACA
1 -CATACATCAACT
88515 CATACAT
1 CATACAT
88522 GCATGTTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
12 21 0.42
13 5 0.10
14 4 0.08
15 6 0.12
16 14 0.28
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (12 bp):
CATACATCAACT
Found at i:88465 original size:16 final size:16
Alignment explanation
Indices: 88446--88521 Score: 87
Period size: 16 Copynumber: 5.2 Consensus size: 16
88436 AGATTGAGAA
88446 ACATACATCAACTCAT
1 ACATACATCAACTCAT
88462 ACATACAT--A-T-AT
1 ACATACATCAACTCAT
88474 ACATACATCAACTCAT
1 ACATACATCAACTCAT
88490 ACATACAT--A-T-AT
1 ACATACATCAACTCAT
*
88502 ACATACATCAACACAT
1 ACATACATCAACTCAT
88518 ACAT
1 ACAT
88522 GCATGTTACA
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
12 20 0.39
13 2 0.04
14 4 0.08
15 1 0.02
16 24 0.47
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
ACATACATCAACTCAT
Found at i:88477 original size:28 final size:28
Alignment explanation
Indices: 88446--88521 Score: 143
Period size: 28 Copynumber: 2.7 Consensus size: 28
88436 AGATTGAGAA
88446 ACATACATCAACTCATACATACATATAT
1 ACATACATCAACTCATACATACATATAT
88474 ACATACATCAACTCATACATACATATAT
1 ACATACATCAACTCATACATACATATAT
*
88502 ACATACATCAACACATACAT
1 ACATACATCAACTCATACAT
88522 GCATGTTACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (28 bp):
ACATACATCAACTCATACATACATATAT
Found at i:88521 original size:4 final size:4
Alignment explanation
Indices: 88459--88509 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
88449 TACATCAACT
* *
88459 CATA CATA CATA TATA CATA CAT- CA-A C-T- CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
88503 CATA CAT
1 CATA CAT
88510 CAACACATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 1 0.03
3 4 0.10
4 34 0.87
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (4 bp):
CATA
Found at i:88937 original size:36 final size:35
Alignment explanation
Indices: 88878--89015 Score: 170
Period size: 36 Copynumber: 3.9 Consensus size: 35
88868 TTTTGAGAAT
88878 TTTAAAACAAATTTTCGTCTCGCTTGAGACAATTTC
1 TTTAAAACAAATTTT-GTCTCGCTTGAGACAATTTC
* *
88914 TTTCAAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* * *
88951 -TAAAAACAAATTTTGTCTCGTTTGAGACAAATTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
88985 TCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 T-TTAAAACAAATTTTGTCTCGCTTGAGACA
89016 TTTTTCCTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
34 3 0.03
35 25 0.29
36 44 0.51
37 15 0.17
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Found at i:88976 original size:71 final size:72
Alignment explanation
Indices: 88881--89015 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 72
88871 TGAGAATTTT
* * * *
88881 AAAACAAATTTTCGTCTCGCTTGAGACAATTTCT-TTCAAAGCAAATTTTGTCTCGCTTGAGACA
1 AAAACAAATTTTCGTCTCGCTTGAGACAAATTCTCTT-AAAACAAACTTCGTCTCGCTTGAGACA
88945 GCTTTCTA
65 GCTTTCTA
*
88953 AAAACAAATTTT-GTCTCGTTTGAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 AAAACAAATTTTCGTCTCGCTTGAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
89016 TTTTTCCTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
71 43 0.75
72 14 0.25
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (72 bp):
AAAACAAATTTTCGTCTCGCTTGAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAG
CTTTCTA
Found at i:89115 original size:105 final size:101
Alignment explanation
Indices: 88989--89226 Score: 282
Period size: 105 Copynumber: 2.3 Consensus size: 101
88979 AAATTCTCTT
* * *
88989 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAACTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
**
89053 TAAAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTC-
66 T-AAAACAAAATTAATCTCA-CTT-GA-AATTGTTTC--TCA
* * * * *
89094 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGGATTTGTTTCACA
1 AAAACAAACTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * *
89159 TTAAACAAAGTTGATCTCACTTGAAATTGTTTCTCA
66 TAAAACAAAATTAATCTCACTTGAAATTGTTTCTCA
*
89195 AAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 AAAACAAACTTTGTCTCGCTTGAGACATTTTC
89227 TCTAAAAACA
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
100 2 0.02
101 29 0.25
102 7 0.06
103 2 0.02
104 3 0.03
105 71 0.62
106 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (101 bp):
AAAACAAACTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TAAAACAAAATTAATCTCACTTGAAATTGTTTCTCA
Found at i:89217 original size:35 final size:36
Alignment explanation
Indices: 89173--89253 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
89163 ACAAAGTTGA
***
89173 TCTCACTTGAAATTGTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAAACAATTTCTCTAAAAACAAACTTTG
* * *
89208 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAAACAATTTCTCTAAAAACAAACTTTG
*
89244 TCTCATTTGA
1 TCTCACTTGA
89254 GACTATATCT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
35 16 0.43
36 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (36 bp):
TCTCACTTGAAACAATTTCTCTAAAAACAAACTTTG
Found at i:89244 original size:36 final size:36
Alignment explanation
Indices: 89188--89291 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
89178 CTTGAAATTG
*
89188 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
** *
89223 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* * *
89259 TATCT-T-AAAGCAAATTTCGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
89292 TCATTTTCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 22 0.38
35 7 0.12
36 29 0.50
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:89584 original size:29 final size:26
Alignment explanation
Indices: 89550--89617 Score: 93
Period size: 25 Copynumber: 2.5 Consensus size: 26
89540 CTCTTGAGAT
89550 AAATCTTTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTG---AA
*
89579 AAATCTTTGAGT-TGTTTCTTTTGAA
1 AAATCTTTGAGTCTGTTCCTTTTGAA
89604 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
89618 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 14 0.38
26 1 0.03
28 10 0.27
29 12 0.32
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (26 bp):
AAATCTTTGAGTCTGTTCCTTTTGAA
Found at i:89611 original size:25 final size:26
Alignment explanation
Indices: 89536--89630 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 26
89526 TCTGGAGACA
*
89536 GTTTCTCTTGAGATAAATCTTTGAGTCT
1 GTTTCTTTTGA-A-AAATCTTTGAGTCT
*
89564 GTTCCTTTTGAATAAAAATCTTTGAGT-T
1 GTTTCTTTTG---AAAAATCTTTGAGTCT
89592 GTTTCTTTTGAAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAATCTTTGAGTCT
* *
89618 ATTTATTTTGAAA
1 GTTTCTTTTGAAA
89631 CAAAGTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
25 14 0.24
26 12 0.21
28 18 0.31
29 12 0.21
30 1 0.02
31 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (26 bp):
GTTTCTTTTGAAAAATCTTTGAGTCT
Found at i:89704 original size:52 final size:53
Alignment explanation
Indices: 89626--89728 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
89616 CTATTTATTT
89626 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCCTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCCTTGAGTC
* *
89678 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCCTTGAG
89729 ATTGTTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 36 0.75
53 12 0.25
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCCTTGAGTC
Found at i:89782 original size:28 final size:28
Alignment explanation
Indices: 89715--89782 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
89705 CAATTTTGTG
*
89715 AAAAAATCTTTGAGATTGTTTCTTTTCA
1 AAAAAATCTTTGAGATTGTTTCTTTGCA
* *
89743 AAAAAATCTTTGAGTTTGTTTCTTTGGA
1 AAAAAATCTTTGAGATTGTTTCTTTGCA
89771 AACAAAAT-TTTG
1 AA-AAAATCTTTG
89783 TCTCTCTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (28 bp):
AAAAAATCTTTGAGATTGTTTCTTTGCA
Found at i:89810 original size:37 final size:37
Alignment explanation
Indices: 89760--89871 Score: 112
Period size: 37 Copynumber: 3.2 Consensus size: 37
89750 CTTTGAGTTT
89760 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
* * * * *
89797 GTTTCTTTTGAAACAAAA------ATCT-TTGAGTTT
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
*
89827 GTTTCTTTGGAAATAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
*
89864 ATTTCTTT
1 GTTTCTTT
89872 TAAAAAAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
30 21 0.38
31 3 0.05
36 3 0.05
37 29 0.52
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (37 bp):
GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
Found at i:89821 original size:67 final size:64
Alignment explanation
Indices: 89727--89952 Score: 267
Period size: 67 Copynumber: 3.5 Consensus size: 64
89717 AAAATCTTTG
* *
89727 AGATTGTTTCTTTTCAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
1 AGATAGTTTCTTTTAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAA-AAAATTTTGTCTCTCTTA
89792 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAATAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTT-AAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAA-AAAATTTTGTCTCTCT
89857 TA
63 TA
* * * * *
89859 AGATAATTTCTTTTAAAAAAAAATCTTTGAATCTGTTTCTCTT--AAAATGAATTTTGTATCTCT
1 AGATAGTTTCTTTT-AAAAAAAATCTTTGAGTTTGTTTCT-TTGGAAAA-AAATTTTGTCTCTCT
89922 TA
63 TA
* * * **
89924 AGACAGTCTCTTTTGAAGTAAATCTTTGA
1 AGATAGTTTCTTTTAAAAAAAATCTTTGA
89953 ATATGTTCAT
Statistics
Matches: 142, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
64 13 0.09
65 42 0.30
66 22 0.15
67 65 0.46
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (64 bp):
AGATAGTTTCTTTTAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAAAAAATTTTGTCTCTCTTA
Found at i:90022 original size:1 final size:1
Alignment explanation
Indices: 90016--90042 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
90006 GAGTCTATTT
90016 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
90043 CAAATGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:90437 original size:15 final size:15
Alignment explanation
Indices: 90414--90457 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
90404 TTTTGAGTCG
*
90414 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
90429 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
90444 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
90458 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:90799 original size:66 final size:65
Alignment explanation
Indices: 90660--90828 Score: 191
Period size: 67 Copynumber: 2.6 Consensus size: 65
90650 ACAAAACAAA
* * * *
90660 CATCTGTGAGATCGTTTCCCTTGAAATGAATTTTGTC-TCATTTGAGACAATTTCCCATGAAACG
1 CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTTCA-TCGAGACAATTTCCCATGAAACG
90724 T
65 T
* * * *
90725 CGATCTTTGAGAACGTTTCCCTTAAAAACGAATTTTGTCTTGCA-CGAGACAGTTTCCCTTTAAA
1 C-ATCTTTGAGATCGTTTCCCTT-AAAACGAATTTTGTCTT-CATCGAGACAATTTCCCATGAAA
*
90789 TGT
63 CGT
*
90792 CATCTTTGAG-TCGTTTCCCTTAAAACGAATTTGGTCT
1 CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCT
90829 CTTTTGAGAC
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
64 15 0.17
65 11 0.12
66 28 0.31
67 32 0.36
68 1 0.01
69 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (65 bp):
CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTTCATCGAGACAATTTCCCATGAAACGT
Found at i:90999 original size:40 final size:40
Alignment explanation
Indices: 90938--91302 Score: 176
Period size: 40 Copynumber: 8.6 Consensus size: 40
90928 TGGCCAGCCG
* *
90938 TCCTCATCATGTAGGAACCGTGTCATCCCCAGATCAGAGC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCAGAGC
* * ** * *
90978 TCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCA-GAG-C
* * * *
91020 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC--CAGAT---CAGAGC
* * *
91067 TCTTCATCACGTATGAGCCGTGTCATTCCCCAGATCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCA-TCCCCAGATCAGAGC
* ** * *
91108 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCA-GAG-C
* * * *
91150 GTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC--CAGAT---C-AGAGC
* * * ** * *
91198 TCTTCATCATGTATGAGTAGTGTCATCCTTC-GACCAGATG-
1 TCCTCATCACGTAGGAGCCGTGTCATCC-CCAGATCAGA-GC
* * ** * * *
91238 TCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCAGAGC
91278 TCCTCATCACGTAGGAGCCGTGTCA
1 TCCTCATCACGTAGGAGCCGTGTCA
91303 CCCTTAGATA
Statistics
Matches: 244, Mismatches: 57, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.00
40 93 0.38
41 32 0.13
42 2 0.01
43 47 0.19
44 8 0.03
46 33 0.14
47 23 0.09
48 2 0.01
49 2 0.01
50 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (40 bp):
TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCAGAGC
Found at i:91157 original size:130 final size:130
Alignment explanation
Indices: 90941--91262 Score: 504
Period size: 130 Copynumber: 2.5 Consensus size: 130
90931 CCAGCCGTCC
* * *
90941 TCATCATGTAGGAACCGTGTCATCCCCAGATCAGAGCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCATGTATGAGCCGTGTCATCCCCAGATCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
*
91006 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
* *
91070 TCATCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1 TCATCATGTATGAGCCGTGTCA-TCCCCAGATCAGATCTCTTCATCACGTAGGAGCCGTGTCAAC
91135 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
65 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
91200 T
130 T
** * * * *
91201 TCATCATGTATGAGTAGTGTCATCCTTC-GACCAGATGTCTTCATCACGTATGAGCCGTGTCA
1 TCATCATGTATGAGCCGTGTCATCC-CCAGATCAGATCTCTTCATCACGTAGGAGCCGTGTCA
91263 TCAGCTGACC
Statistics
Matches: 176, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
129 19 0.11
130 129 0.73
131 28 0.16
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (130 bp):
TCATCATGTATGAGCCGTGTCATCCCCAGATCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
Found at i:91280 original size:170 final size:171
Alignment explanation
Indices: 91067--91391 Score: 544
Period size: 170 Copynumber: 1.9 Consensus size: 171
91057 TGGCCAGAAC
* *
91067 TCTTCATCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTC
1 TCTTCATCACGTATGAGCCGTGTCATTCACCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTC
*
91132 AACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAA
66 AACCATAGATAACCAGCCGCCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAA
* *
91197 CTCTTCATCATGTATGAGTAGTGTCATCCTTCGACCAGATG
131 CTCTTCATCACGTATGAGCAGTGTCATCCTTCGACCAGATG
* *
91238 TCTTCATCACGTATGAGCCGTGTCA-TCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTC
1 TCTTCATCACGTATGAGCCGTGTCATTCACCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTC
* * * *
91302 ACCCTTAGATAACCAGCCGCCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAAGAA
66 AACCATAGATAACCAGCCGCCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAA
91367 CTCTTCATCACGTATGAGCAGTGTC
131 CTCTTCATCACGTATGAGCAGTGTC
91392 GTCCCCAACA
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
170 118 0.83
171 25 0.17
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (171 bp):
TCTTCATCACGTATGAGCCGTGTCATTCACCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTC
AACCATAGATAACCAGCCGCCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAA
CTCTTCATCACGTATGAGCAGTGTCATCCTTCGACCAGATG
Found at i:91560 original size:3 final size:3
Alignment explanation
Indices: 91554--91609 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
91544 TTTTTTATCG
** *
91554 TTA TTA TTA TTA TTA TTA TTA TCG TTA -TA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91601 TTA TTA TTA
1 TTA TTA TTA
91610 ATTTACAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:93244 original size:29 final size:29
Alignment explanation
Indices: 93187--93245 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
93177 CTTTTACTAA
* *
93187 TTTAGTCCATTATGTATATGTATTTTTAT
1 TTTAGTCCATTATGTACATGTATTATTAT
93216 TTTAGTCCTATTAT-TACATGT-TATATTAT
1 TTTAGTCC-ATTATGTACATGTAT-TATTAT
93245 T
1 T
93246 ATACTCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 20 0.77
30 5 0.19
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (29 bp):
TTTAGTCCATTATGTACATGTATTATTAT
Found at i:96011 original size:24 final size:24
Alignment explanation
Indices: 95979--96026 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
95969 AATTTATATG
*
95979 TTTTCTTTTTTAAAATATATATAA
1 TTTTATTTTTTAAAATATATATAA
* *
96003 TTTTATTTTTTAAATTTTATATAA
1 TTTTATTTTTTAAAATATATATAA
96027 AAACTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATTTTTTAAAATATATATAA
Found at i:96663 original size:64 final size:64
Alignment explanation
Indices: 96584--96723 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 64
96574 TGGATCTTGG
* *
96584 CAGGTCGGGTTAAATCGGATAT-AAGTCA-ATTCAGGTTGATTTGACACCAGATCCAGATCGGGT
1 CAGGTCGGGTCAAATCAG-T-TCAAGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGT
96647 T
64 T
* ** * * *
96648 CAGGTCAGGTCAAATCAGTTCGGGTTATTTTCAGGTTGATTTGACACTAGATCCAGATCGGGTT
1 CAGGTCGGGTCAAATCAGTTCAAGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
96712 CAGGTCGGGTCA
1 CAGGTCGGGTCA
96724 TTTTCAGTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 1 0.02
63 4 0.06
64 60 0.92
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (64 bp):
CAGGTCGGGTCAAATCAGTTCAAGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
Found at i:97550 original size:21 final size:21
Alignment explanation
Indices: 97526--97588 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
97516 TTATTAATGC
97526 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
97547 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
97566 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
97587 AT
1 AT
97589 ATTAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Found at i:97591 original size:23 final size:23
Alignment explanation
Indices: 97517--97595 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
97507 ATATATAATT
*
97517 TATTAATGCATGCATG-TATGTA
1 TATTAATGCATGTATGATATGTA
* *
97539 TAATATGTATGCATATATGTATAAT-T-
1 T-AT-T-AATGCATGTATG-AT-ATGTA
97565 TATTAATGCATGTATGATATGTA
1 TATTAATGCATGTATGATATGTA
97588 TATTAATG
1 TATTAATG
97596 TAATATGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
21 2 0.05
22 4 0.09
23 20 0.45
24 2 0.05
25 11 0.25
26 1 0.02
27 2 0.05
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (23 bp):
TATTAATGCATGTATGATATGTA
Found at i:97755 original size:7 final size:7
Alignment explanation
Indices: 97745--97815 Score: 54
Period size: 7 Copynumber: 10.3 Consensus size: 7
97735 TAGTTTATAG
97745 AAACCCT
1 AAACCCT
*
97752 AAACTCT
1 AAACCCT
97759 AAACCCT
1 AAACCCT
* *
97766 AAATCAT
1 AAACCCT
*
97773 ACACCCT
1 AAACCCT
**
97780 -AACTTT
1 AAACCCT
*
97786 AAACCAT
1 AAACCCT
*
97793 AAACACT
1 AAACCCT
*
97800 AAACCAT
1 AAACCCT
97807 AAACCCT
1 AAACCCT
97814 AA
1 AA
97816 TATAAATGGA
Statistics
Matches: 46, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
6 3 0.07
7 43 0.93
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:97764 original size:14 final size:14
Alignment explanation
Indices: 97745--97815 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
97735 TAGTTTATAG
97745 AAACCCTAAACTCT
1 AAACCCTAAACTCT
97759 AAACCCTAAA-TCAT
1 AAACCCTAAACTC-T
* *
97773 ACACCCT-AACTTT
1 AAACCCTAAACTCT
* *
97786 AAACCATAAACACT
1 AAACCCTAAACTCT
* *
97800 AAACCATAAACCCT
1 AAACCCTAAACTCT
97814 AA
1 AA
97816 TATAAATGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
13 10 0.21
14 37 0.79
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAACTCT
Found at i:97962 original size:13 final size:13
Alignment explanation
Indices: 97930--97956 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
97920 TAATTTACAT
97930 TTAAATAATTTTA
1 TTAAATAATTTTA
97943 TTAAATAATTTTA
1 TTAAATAATTTTA
97956 T
1 T
97957 ATAATATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:97994 original size:20 final size:19
Alignment explanation
Indices: 97969--98045 Score: 77
Period size: 18 Copynumber: 4.1 Consensus size: 19
97959 AATATGTGTG
*
97969 TATAAACCATGTATAGTATA
1 TATAAACCATATATA-TATA
*
97989 TATAAACTATATATATATA
1 TATAAACCATATATATATA
* *
98008 TATATA-TATATATATATA
1 TATAAACCATATATATATA
* *
98026 TATATA-TATATATATATA
1 TATAAACCATATATATATA
98044 TA
1 TA
98046 CATATAAACT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
18 32 0.59
19 9 0.17
20 13 0.24
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (19 bp):
TATAAACCATATATATATA
Found at i:98060 original size:2 final size:2
Alignment explanation
Indices: 97980--98051 Score: 108
Period size: 2 Copynumber: 35.0 Consensus size: 2
97970 ATAAACCATG
*
97980 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
98024 TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
98052 AACTATATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 61 0.95
3 3 0.05
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:98113 original size:21 final size:22
Alignment explanation
Indices: 98088--98147 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
98078 TTATAGAATC
*
98088 CTAAATCATAAACCA-TAAACT
1 CTAAATCATAAACCACTAAACA
* *
98109 TTAAATCACAAA-CACTAAACA
1 CTAAATCATAAACCACTAAACA
98130 CTAAATCATAAACC-CTAA
1 CTAAATCATAAACCACTAA
98148 TGTAAATAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (22 bp):
CTAAATCATAAACCACTAAACA
Found at i:98495 original size:23 final size:25
Alignment explanation
Indices: 98438--98495 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
98428 ATTAATCATG
*
98438 TTTTATATAATTTACATTTAAATAT
1 TTTTATATAATTTACATTTAAATAA
*
98463 TTTTAT-TAATTT-TA-TTAAATAA
1 TTTTATATAATTTACATTTAAATAA
98485 TTTTATATAAT
1 TTTTATATAAT
98496 ATGTATGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 13 0.43
23 5 0.17
24 6 0.20
25 6 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTATATAATTTACATTTAAATAA
Found at i:98540 original size:20 final size:20
Alignment explanation
Indices: 98488--98540 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
98478 TAAATAATTT
*
98488 TATATAATATGTATGTATAAAC
1 TATATAA-A-GTATATATAAAC
* * *
98510 CATGTATAGTATATATAAAC
1 TATATAAAGTATATATAAAC
98530 TATATAAAGTA
1 TATATAAAGTA
98541 AATTACTTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (20 bp):
TATATAAAGTATATATAAAC
Found at i:98613 original size:48 final size:49
Alignment explanation
Indices: 98519--98613 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 49
98509 CCATGTATAG
* * **
98519 TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
* *
98568 TATACATAAACTATATAAAGT-AGTAAAATATATCGTTTATAGAAAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAAC
98614 CTTAAATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 20 0.50
49 20 0.50
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.35
Consensus pattern (49 bp):
TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:98625 original size:49 final size:49
Alignment explanation
Indices: 98524--98627 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
98514 TATAGTATAT
* ** *
98524 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
* *
98573 ATAAACTATATAAAGT-AGTAAAATATATCGTTTATAGAAAC-CTTAAATC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC-TAAA-C
98622 ATAAAC
1 ATAAAC
98628 CCTAAATCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.02
48 23 0.49
49 23 0.49
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:98655 original size:28 final size:28
Alignment explanation
Indices: 98610--98668 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
98600 TCGTTTATAG
* * * *
98610 AAACCTTAAATCATAAACCCTAAATCCT
1 AAACCTTAAACCACAAACACTAAATACT
*
98638 AAACTTTAAACCACAAACACTAAATACT
1 AAACCTTAAACCACAAACACTAAATACT
98666 AAA
1 AAA
98669 TCATAAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (28 bp):
AAACCTTAAACCACAAACACTAAATACT
Found at i:99074 original size:20 final size:20
Alignment explanation
Indices: 99022--99074 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
99012 TAAATAATTT
*
99022 TATATAATATGTATGTATAAAC
1 TATATAA-A-GTATATATAAAC
* * *
99044 CATGTATAGTATATATAAAC
1 TATATAAAGTATATATAAAC
99064 TATATAAAGTA
1 TATATAAAGTA
99075 AATTACTTGT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (20 bp):
TATATAAAGTATATATAAAC
Found at i:99172 original size:14 final size:14
Alignment explanation
Indices: 99150--99214 Score: 69
Period size: 14 Copynumber: 4.7 Consensus size: 14
99140 ATAGAAACCT
*
99150 TAAATCCTAAATCA
1 TAAACCCTAAATCA
*
99164 TAAACCCTAATTC-
1 TAAACCCTAAATCA
** *
99177 TAAACTTTAAACCA
1 TAAACCCTAAATCA
*
99191 TAAACACTAAATCA
1 TAAACCCTAAATCA
99205 TAAACCCTAA
1 TAAACCCTAA
99215 TTTAAATGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
13 9 0.22
14 31 0.77
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:99192 original size:27 final size:28
Alignment explanation
Indices: 99157--99209 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
99147 CCTTAAATCC
* * *
99157 TAAATCATAAACCCTAATTC-TAAACTT
1 TAAACCATAAACACTAAATCATAAACTT
99184 TAAACCATAAACACTAAATCATAAAC
1 TAAACCATAAACACTAAATCATAAAC
99210 CCTAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (28 bp):
TAAACCATAAACACTAAATCATAAACTT
Found at i:99541 original size:25 final size:23
Alignment explanation
Indices: 99505--99562 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 23
99495 ATTAATCATG
99505 TTTTA-TATAATTTACATTTAAATAA
1 TTTTATTATAATTT--A-TTAAATAA
99530 TTTTATTA-AATTTATTAAATAA
1 TTTTATTATAATTTATTAAATAA
99552 TTTTA-TATAAT
1 TTTTATTATAAT
99563 ATGTATGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.06
22 16 0.52
23 1 0.03
25 10 0.32
26 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTATTATAATTTATTAAATAA
Found at i:99734 original size:14 final size:14
Alignment explanation
Indices: 99717--99747 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99707 TTCTAAACTT
99717 TAAACCATAAACAC
1 TAAACCATAAACAC
*
99731 TAAACCATAAACCC
1 TAAACCATAAACAC
99745 TAA
1 TAA
99748 TTTAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCATAAACAC
Found at i:100137 original size:13 final size:13
Alignment explanation
Indices: 100119--100148 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
100109 CCATGTATAG
100119 TATATATAAACTA
1 TATATATAAACTA
100132 TATATATAAACTA
1 TATATATAAACTA
100145 TATA
1 TATA
100149 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:100137 original size:20 final size:21
Alignment explanation
Indices: 100088--100138 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
100078 TAAATAATTT
*
100088 TATATAATATGTATGTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
100110 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
100130 TATATATAT
1 TATATATAT
100139 AAACTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:100293 original size:14 final size:14
Alignment explanation
Indices: 100229--100293 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
100219 ATAGAAACCC
*
100229 TAAATCCTAAATCA
1 TAAACCCTAAATCA
* *
100243 TAAACCTTAATTC-
1 TAAACCCTAAATCA
** *
100256 TAAACTTTAAACCA
1 TAAACCCTAAATCA
**
100270 TAAATACTAAATCA
1 TAAACCCTAAATCA
100284 TAAACCCTAA
1 TAAACCCTAA
100294 TTTAGATGGA
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
13 10 0.26
14 28 0.74
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:100406 original size:546 final size:533
Alignment explanation
Indices: 97833--100516 Score: 4308
Period size: 533 Copynumber: 5.0 Consensus size: 533
97823 GGACAAACAC
*
97833 TAATATGACATGTACTACTATTTATGAACCATATAATATGGAATGTGACATACTAATTATTTAAC
1 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
97898 ACCTAATTAATCATGTTTTATATAATTTACA-TT---TAA----A-TAATTTTATTAAATAATTT
66 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
*
97954 TATATAATATGTGTGTATAAACCATGTATAGTATATATAAACTATATATATA-TATATATATA-T
131 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATA-A-AGTA-A-AT-TACT
* * * *
98017 ATATATA-TATATATATATATATATATATACATATAAACTATATAAAGTAAT-AAA-ATATAGTT
191 -TATATAGT-T-TATAGA-A-ACA-CTATGC--ATAAACTATATAAAGTAATAAAATATATAGTT
* * * * *
98079 TATAG-AATCCTAAATCATAAACCATAAACTTTAAATC---AC---AAA-CACTAAACACTAAAT
248 TATAGAAACCCTAAATCCTAAATCATAAACCTTAATTCTAAACTTTAAACCA-TAAACACTAAAT
* * *
98136 CATAAACCCTAATGTAAAT-AGACTATCACTAATGCATATATATTTGTAATAAAAGAGTAGGCTT
312 CATAAACCCTAATTTAAATGA-ACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTT
* * * *
98200 GCATTGGACATAT-CTAAATTAATGTTAATGGACTAGCACTATTACAAATGGACTTATTTTTGGG
376 GCATTGGGCCTATGC-AAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGG
* *
98264 TTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGC
440 TTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGC
* * *
98329 AACTAAAA-AGCTAATTATGCAAATGAAAT
505 AACTAAAATA-CAAATTATGCAATTTAAAT
*
98358 TAATATGACATGTACTACTATTTATGAACCATATAATATAG-AACGTGACATACTAATTATTTAA
1 TAATATGACATGTACTACTATTTATGAACCATATAATAT-GCAATGTGACATACTAATTATTTAA
*
98422 CACCTAATTAATCATGTTTTATATAATTTACATTTAAATATTTTTATTAATTTTATTAAATAATT
65 CACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATT
98487 TTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATAAAGTAAATTACTTATA
130 TTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATAAAGTAAATTACTTATA
* * * *
98552 TAGTTTATAGAAACACTATACATAAACTATATAAAGTAGTAAAATATATCGTTTATAGAAACCTT
195 TAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCT
* * * * *** * **
98617 AAATCATAAACCCTAAATCCTAAACTT-TAAACCACAAA-CACTAAATACTAAATCATAAATTCT
260 AAATCCTAAATCATAAA-CCTTAA-TTCTAAACTTTAAACCA-TAAACACTAAATCATAAACCCT
* * *
98680 AATGTAAATGAACTAGCACTAATGCATATATATTTGTAATGAAAGAGTGGGCTTGCACTGGGCCT
322 AATTTAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCT
* *
98745 ATGTAAACTAATGTTAATGGACTAGCACTATTGCAAATAGACTTATTTTTGGGTTTTATTATTAC
387 ATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTAC
98810 TTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACA
452 TTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACA
98875 AATTATGCAATTTAAAT
517 AATTATGCAATTTAAAT
98892 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
1 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
98957 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
66 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
*
99022 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATAAAGTAAATTACTTGTAT
131 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATAAAGTAAATTACTTATAT
*
99087 AGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTA
196 AGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTA
*
99152 AATCCTAAATCATAAACCCTAATTCTAAACTTTAAACCATAAACACTAAATCATAAACCCTAATT
261 AATCCTAAATCATAAACCTTAATTCTAAACTTTAAACCATAAACACTAAATCATAAACCCTAATT
99217 TAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGC
326 TAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGC
*
99282 AAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTGTTATTACTTAT
391 AAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
* *
99347 TCATAACAACAAAATAAATGTGACATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
456 TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
99412 ATGCAATTTAAAT
521 ATGCAATTTAAAT
99425 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
1 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
*
99490 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATTTATTAAATAATTT
66 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
*
99555 TATATAATATGTATGCATAAACCATGTATAGTATATATAAACTATATAAAGTAAATTACTTATAT
131 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATAAAGTAAATTACTTATAT
99620 AGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTA
196 AGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTA
*
99685 AATCCTAAATCATAAACCTTAATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATT
261 AATCCTAAATCATAAACCTTAATTCTAAACTTTAAACCATAAACACTAAATCATAAACCCTAATT
* *
99750 TAAATAAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
326 TAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGC
99815 AAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
391 AAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
*
99880 TCATAACAAAAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
456 TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
*
99945 ATGCAATCTAAAT
521 ATGCAATTTAAAT
99958 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
1 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
100023 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
66 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
100088 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGT
131 TATATAATATGTATGTATAAACCATGTATAG-------------TATATATAAACTATATAAAGT
100153 AAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTT
183 AAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTT
*
100218 TATAGAAACCCTAAATCCTAAATCATAAACCTTAATTCTAAACTTTAAACCATAAATACTAAATC
248 TATAGAAACCCTAAATCCTAAATCATAAACCTTAATTCTAAACTTTAAACCATAAACACTAAATC
* * *
100283 ATAAACCCTAATTTAGATGGACTAGCACTAAAGCATATATATTTGTAATAAAAGAGTGGGCTTGC
313 ATAAACCCTAATTTAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGC
100348 ATTGGGCCTATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTT
378 ATTGGGCCTATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTT
*
100413 TATTATTACTTATTCATAACAACAAAATAAATGAGTCATTAATGTGAATTAACCTAACATGCAAC
443 TATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAAC
100478 TAAAATACAAATTATGCAATTTAAAT
508 TAAAATACAAATTATGCAATTTAAAT
100504 TAATATGACATGT
1 TAATATGACATGT
100517 GAAGATACTA
Statistics
Matches: 2034, Mismatches: 82, Indels: 65
0.93 0.04 0.03
Matches are distributed among these distances:
524 18 0.01
525 96 0.05
526 20 0.01
527 22 0.01
528 5 0.00
529 8 0.00
530 9 0.00
531 6 0.00
532 4 0.00
533 919 0.45
534 550 0.27
535 2 0.00
546 375 0.18
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (533 bp):
TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATAAAGTAAATTACTTATAT
AGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTA
AATCCTAAATCATAAACCTTAATTCTAAACTTTAAACCATAAACACTAAATCATAAACCCTAATT
TAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGC
AAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
ATGCAATTTAAAT
Found at i:100546 original size:3 final size:3
Alignment explanation
Indices: 100538--100652 Score: 160
Period size: 3 Copynumber: 38.7 Consensus size: 3
100528 TTTTTATCCA
* * *
100538 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
100586 TAT CAT TAT TAA TAT TAT TAT GAT TAT TAT TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
100634 TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
100653 AATATATTAA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 95 0.98
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:101156 original size:32 final size:33
Alignment explanation
Indices: 101102--101183 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 33
101092 ACCCACCTGC
101102 GAAAAAAAAAACAGAGATATAGA-ACGAGACAGA
1 GAAAAAAAAAACAGAGATATAGAGA-GAGACAGA
*
101135 GAGACAAAAAAAA-A-AGA-ATAGAGAGAGACATA
1 GA-A-AAAAAAAACAGAGATATAGAGAGAGACAGA
101167 GAAAAAAAAAACAGAGA
1 GAAAAAAAAAACAGAGA
101184 AAATACAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
30 8 0.19
31 2 0.05
32 17 0.40
33 6 0.14
34 2 0.05
35 8 0.19
ACGTcount: A:0.67, C:0.07, G:0.21, T:0.05
Consensus pattern (33 bp):
GAAAAAAAAAACAGAGATATAGAGAGAGACAGA
Found at i:101162 original size:24 final size:25
Alignment explanation
Indices: 101132--101183 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
101122 AGAACGAGAC
*
101132 AGAGAGACA-A-AAAAAAAAGAATAG
1 AGAGAGACATAGAAAAAAAA-AACAG
101156 AGAGAGACATAGAAAAAAAAAACAG
1 AGAGAGACATAGAAAAAAAAAACAG
101181 AGA
1 AGA
101184 AAATACAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 8 0.32
26 8 0.32
ACGTcount: A:0.69, C:0.06, G:0.21, T:0.04
Consensus pattern (25 bp):
AGAGAGACATAGAAAAAAAAAACAG
Found at i:102006 original size:19 final size:18
Alignment explanation
Indices: 101970--102018 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
101960 TAGATTTTTA
*
101970 ATTTTATT-TTTTCGTTT
1 ATTTTATTGTTTTCATTT
101987 ATTTTATATGTTTTCATTT
1 ATTTTAT-TGTTTTCATTT
102006 ATTTTATTGTTTT
1 ATTTTATTGTTTT
102019 AAATATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (18 bp):
ATTTTATTGTTTTCATTT
Found at i:102027 original size:19 final size:19
Alignment explanation
Indices: 101986--102027 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
101976 TTTTTTCGTT
* *
101986 TATTTTATATGTTTTCATT
1 TATTTTATATGTTTTAATA
102005 TATTTTAT-TGTTTTAAATA
1 TATTTTATATGTTTT-AATA
102024 TATT
1 TATT
102028 GTTTAGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
TATTTTATATGTTTTAATA
Found at i:102084 original size:13 final size:13
Alignment explanation
Indices: 102056--102090 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
102046 TTTTATTATA
102056 TTATTAAATA-TT
1 TTATTAAATATTT
102068 TTATTAAATATTT
1 TTATTAAATATTT
102081 TTA-TAAATAT
1 TTATTAAATAT
102091 ATAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTAAATATTT
Found at i:102804 original size:13 final size:12
Alignment explanation
Indices: 102788--102839 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
102778 CTTTCAATTT
102788 TTTTTACTTATTA
1 TTTTTA-TTATTA
102801 TTTTTATATATTA
1 TTTTTAT-TATTA
102814 TTATTTATTATT-
1 TT-TTTATTATTA
102826 TTATTTATT-TTA
1 TT-TTTATTATTA
102838 TT
1 TT
102840 CAAGAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.06
12 12 0.33
13 17 0.47
14 5 0.14
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:102805 original size:16 final size:16
Alignment explanation
Indices: 102795--102836 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
102785 TTTTTTTTAC
102795 TTATTATTTTTATATA
1 TTATTATTTTTATATA
102811 TTATTATTTATTAT-T-
1 TTATTATTT-TTATATA
102826 TTATTTATTTT
1 TTA-TTATTTT
102837 ATTCAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTATTTTTATATA
Found at i:104497 original size:14 final size:14
Alignment explanation
Indices: 104459--104512 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
104449 ATTTTAAATA
*
104459 ATTTACATTTACA-
1 ATTTACATTTGCAT
104472 ATTTTACATTTGCAT
1 A-TTTACATTTGCAT
104487 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
104502 CTTTGCATTTG
1 ATTTACATTTG
104513 TATTGCACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 1 0.03
14 21 0.60
15 13 0.37
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:104501 original size:15 final size:15
Alignment explanation
Indices: 104474--104512 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
104464 CATTTACAAT
104474 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
104488 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
104503 TTTGCATTTG
1 TTTACATTTG
104513 TATTGCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:107452 original size:2 final size:2
Alignment explanation
Indices: 107445--107474 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
107435 TTATCCTTTA
107445 AT 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 AT
107475 CCTTTGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112393 original size:40 final size:40
Alignment explanation
Indices: 112348--112423 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
112338 TGAGCAGAGT
*
112348 CCACAGCAAAGGATGAATGCGTTGTCAAATGTTTTATGTC
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTATGTC
* *
112388 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTA
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTA
112424 CATCTAAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTATGTC
Found at i:112842 original size:22 final size:22
Alignment explanation
Indices: 112813--112867 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
112803 ATCTACACTC
*
112813 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
112835 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
112857 TTCAAAGATGA
1 TTCAAAGATGA
112868 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:113582 original size:119 final size:118
Alignment explanation
Indices: 113269--113915 Score: 990
Period size: 119 Copynumber: 5.5 Consensus size: 118
113259 AGCAAAGATA
*
113269 TGAATTCATCA-TTCGAT-GATTCAGT-ATTTCCAGA--AAAAGTTCATAATGAGAAGAA--C-T
1 TGAATTCATCACTT-GATGGA-TCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
* * *
113326 CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTGCT
63 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
** * *
113382 CAAATCCATCATTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TGAATTCATCACTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
113447 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
66 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
*
113500 TGAATTCATCACTTGATGGATCATTCTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCA
1 TGAATTCATCACTTGATGGATCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCA
113565 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
65 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
*
113619 TGAATTCATCACTTGATGGATCATTCTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCA
1 TGAATTCATCACTTGATGGATCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCA
113684 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
65 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
* * *
113738 TGAATTCATCAAATTGATGGATCATCATTTCTAGAGAAAGAGTTCATAATGAGAAGAACTCGTCA
1 TGAATTCATC-ACTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCA
*
113803 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCT
65 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
* * ** *
113857 TGAATTCATCATTTGATGGAACATCATCCCCAGCA-GAA-AGTTCGTAATGAGAAGAACTC
1 TGAATTCATCACTTGATGGATCATCATTTCCAG-AGGAAGAGTTCATAATGAGAAGAACTC
113916 ATCTGGAGAA
Statistics
Matches: 499, Mismatches: 24, Indels: 18
0.92 0.04 0.03
Matches are distributed among these distances:
112 1 0.00
113 23 0.05
114 4 0.01
115 20 0.04
117 21 0.04
118 93 0.19
119 325 0.65
120 12 0.02
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (118 bp):
TGAATTCATCACTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
Found at i:114078 original size:3 final size:3
Alignment explanation
Indices: 114070--114184 Score: 160
Period size: 3 Copynumber: 38.7 Consensus size: 3
114060 TTTTTATCCA
* * *
114070 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
114118 TAT CAT TAT TAA TAT TAT TAT GAT TAT TAT TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114166 TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
114185 AATATATTAA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 95 0.98
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:114695 original size:23 final size:24
Alignment explanation
Indices: 114666--114715 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
114656 AGAACGAGAC
*
114666 AGAGAGACA-A-AAAAAAAGAATAG
1 AGAGAGACATAGAAAAAAA-AACAG
114689 AGAGAGACATAGAAAAAAAAACAG
1 AGAGAGACATAGAAAAAAAAACAG
114713 AGA
1 AGA
114716 AAATACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 8 0.33
25 7 0.29
ACGTcount: A:0.68, C:0.06, G:0.22, T:0.04
Consensus pattern (24 bp):
AGAGAGACATAGAAAAAAAAACAG
Done.