Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005477.1 Hibiscus syriacus cultivar Beakdansim tig00012562_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: 69997
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:5216 original size:27 final size:27
Alignment explanation
Indices: 5180--5238 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
5170 TATAGAATTA
* *
5180 AAAAATAAAAACCCTAA-TAT-AATAT
1 AAAATTAAAAACCCCAATTATCAATAT
5205 AGAAATTAAAAACCCCAATTATCAATAT
1 A-AAATTAAAAACCCCAATTATCAATAT
5233 AAAATT
1 AAAATT
5239 TGGGAGCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 8 0.28
28 6 0.21
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAATTAAAAACCCCAATTATCAATAT
Found at i:10600 original size:2 final size:2
Alignment explanation
Indices: 10593--10629 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
10583 ATCTGCATGG
*
10593 TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10630 GTTTTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:14135 original size:46 final size:49
Alignment explanation
Indices: 14034--14145 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 49
14024 TGAAACTTTT
*
14034 TTGTTGCAGATATATCAACTTTTGGGTTTTTTTTTTTCATTACAGTATGC
1 TTGTTGCAGATATATCAACTTTTGGG-TTTTTTTTTTCATTAAAGTATGC
* *
14084 CTGTTGCAGACATATCAACTTTT-GG-TTTTTTTTT-ATTAAAGTATGC
1 TTGTTGCAGATATATCAACTTTTGGGTTTTTTTTTTCATTAAAGTATGC
14130 TTGTTGCAGATATATC
1 TTGTTGCAGATATATC
14146 GGTTGTCATA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 25 0.44
47 9 0.16
49 2 0.04
50 21 0.37
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.49
Consensus pattern (49 bp):
TTGTTGCAGATATATCAACTTTTGGGTTTTTTTTTTCATTAAAGTATGC
Found at i:19305 original size:2 final size:2
Alignment explanation
Indices: 19295--19340 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
19285 TTTTAAATCC
19295 TA TA T- TA TA TA TA TA 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
19336 TA TA T
1 TA TA T
19341 TAGTGGGCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19453 original size:17 final size:18
Alignment explanation
Indices: 19418--19466 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
19408 AGTTTTAATA
19418 TTTATTATGTATATTTGT
1 TTTATTATGTATATTTGT
19436 TTTATTACT-TAT-TTTGT
1 TTTATTA-TGTATATTTGT
*
19453 TTTA-TATATATATT
1 TTTATTATGTATATT
19467 ATTTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 5 0.18
17 11 0.39
18 10 0.36
19 1 0.04
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTATTATGTATATTTGT
Found at i:19526 original size:11 final size:11
Alignment explanation
Indices: 19510--19537 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
19500 ATTCTTTCTT
19510 TCTTTTATTAC
1 TCTTTTATTAC
19521 TCTTTTATTAC
1 TCTTTTATTAC
19532 TCTTTT
1 TCTTTT
19538 TAGTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (11 bp):
TCTTTTATTAC
Found at i:19549 original size:3 final size:3
Alignment explanation
Indices: 19541--19571 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19531 CTCTTTTTAG
19541 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19572 TTTCTATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19628 original size:13 final size:12
Alignment explanation
Indices: 19612--19767 Score: 50
Period size: 13 Copynumber: 12.2 Consensus size: 12
19602 TACTTTTACT
19612 TTTATTTTGTTTA
1 TTTATTTT-TTTA
*
19625 TTTATTTCTTTTC
1 TTTATTT-TTTTA
*
19638 TTTATTTTTATTC
1 TTTATTTTT-TTA
*
19651 TTTATCTTCATCTTA
1 TTTAT-TT--TTTTA
* **
19666 TTT-TTTTCTCC
1 TTTATTTTTTTA
* *
19677 TTTATATTTGT-
1 TTTATTTTTTTA
* *
19688 TTTATGTATTTA
1 TTTATTTTTTTA
19700 -TT-TTTTTTTA
1 TTTATTTTTTTA
*
19710 TTTTTTTTATCTTA
1 TTTATTTT-T-TTA
*
19724 TTCATTTTTTTA
1 TTTATTTTTTTA
*
19736 CTCTTTTTTATTTTA
1 -T-TTATTT-TTTTA
19751 TTTATCTCTTTTTA
1 TTTAT-T-TTTTTA
19765 TTT
1 TTT
19768 TCTTTACTTC
Statistics
Matches: 108, Mismatches: 19, Indels: 31
0.68 0.12 0.20
Matches are distributed among these distances:
10 6 0.06
11 18 0.17
12 12 0.11
13 33 0.31
14 27 0.25
15 11 0.10
16 1 0.01
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:19712 original size:27 final size:28
Alignment explanation
Indices: 19681--19734 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
19671 TTCTCCTTTA
*
19681 TATTTGTTTTAT-GTATTTATTTTTTTT
1 TATTTGTTTTATCGTATTCATTTTTTTT
* *
19708 TATTTTTTTTATCTTATTCATTTTTTT
1 TATTTGTTTTATCGTATTCATTTTTTT
19735 ACTCTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.78
Consensus pattern (28 bp):
TATTTGTTTTATCGTATTCATTTTTTTT
Found at i:19718 original size:19 final size:19
Alignment explanation
Indices: 19696--19773 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
19686 GTTTTATGTA
*
19696 TTTATTTTTTTTTATTTTT
1 TTTATTCTTTTTTATTTTT
* *
19715 TTTA-TCTTATTCA-TTTT
1 TTTATTCTTTTTTATTTTT
* *
19732 TTTACTCTTTTTTATTTTA
1 TTTATTCTTTTTTATTTTT
*
19751 TTTA-TCTCTTTTTATTTTC
1 TTTATTCT-TTTTTATTTTT
19770 TTTA
1 TTTA
19774 CTTCATTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 8 0.16
18 16 0.33
19 25 0.51
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTCTTTTTTATTTTT
Found at i:19732 original size:18 final size:18
Alignment explanation
Indices: 19709--19757 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19699 ATTTTTTTTT
19709 ATTTTTTTTATCTTATTC
1 ATTTTTTTTATCTTATTC
* *
19727 A-TTTTTTTACTCTTTTTT
1 ATTTTTTTTA-TCTTATTC
*
19745 ATTTTATTTATCT
1 ATTTTTTTTATCT
19758 CTTTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.31
18 11 0.42
19 7 0.27
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTTTTATCTTATTC
Found at i:19743 original size:36 final size:38
Alignment explanation
Indices: 19703--19775 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 38
19693 GTATTTATTT
*
19703 TTTTTTATTTTTTTTATCT-TATTCATTTT-TTTACTC
1 TTTTTTATTTTATTTATCTCTATTCATTTTCTTTACTC
* *
19739 TTTTTTATTTTATTTATCTCTTTTTATTTTCTTTACT
1 TTTTTTATTTTATTTATCTCTATTCATTTTCTTTACT
19776 TCATTGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 18 0.56
37 8 0.25
38 6 0.19
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (38 bp):
TTTTTTATTTTATTTATCTCTATTCATTTTCTTTACTC
Found at i:19763 original size:55 final size:55
Alignment explanation
Indices: 19694--19810 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 55
19684 TTGTTTTATG
* * * *
19694 TATTTATTTTTTTTTATTTTTTTTATCTT-ATT-CATTTTTTTACTCTTTTTTATTT
1 TATTTATCTCTTTTTATTTTCTTTA-CTTCATTGCATTTTTTTACT-TTCTTTATTT
** *
19749 TATTTATCTCTTTTTATTTTCTTTACTTCATTGGTTTTTTTTACTTTCTTTGTTT
1 TATTTATCTCTTTTTATTTTCTTTACTTCATTGCATTTTTTTACTTTCTTTATTT
19804 TATTTAT
1 TATTTAT
19811 TTTCATTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.06
55 40 0.75
56 10 0.19
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (55 bp):
TATTTATCTCTTTTTATTTTCTTTACTTCATTGCATTTTTTTACTTTCTTTATTT
Found at i:19803 original size:18 final size:18
Alignment explanation
Indices: 19727--19821 Score: 61
Period size: 18 Copynumber: 5.2 Consensus size: 18
19717 TATCTTATTC
*
19727 ATTTT-TTTACTCTTTTTT
1 ATTTTATTTACT-TTCTTT
19745 ATTTTATTTATCTCTT-TTT
1 ATTTTATTTA-CT-TTCTTT
* *
19764 ATTTTCTTTAC-TTCATTG
1 ATTTTATTTACTTTC-TTT
* *
19782 GTTTTTTTTACTTTCTTT
1 ATTTTATTTACTTTCTTT
* * *
19800 GTTTTATTTATTTTCATT
1 ATTTTATTTACTTTCTTT
19818 ATTT
1 ATTT
19822 CCTATCTAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
16 2 0.03
18 37 0.59
19 19 0.30
20 5 0.08
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (18 bp):
ATTTTATTTACTTTCTTT
Found at i:19813 original size:27 final size:27
Alignment explanation
Indices: 19694--19813 Score: 98
Period size: 27 Copynumber: 4.4 Consensus size: 27
19684 TTGTTTTATG
* * *
19694 TATTTATTTTTTTTTATTTTTTTTATCT
1 TATTTA-TTTTTTTTACTTTCTTTATTT
* *
19722 TATTCA-TTTTTTTACTCTTTTTTATTT
1 TATTTATTTTTTTTACT-TTCTTTATTT
* * *
19749 TATTTATCTCTTTTTATTTTCTTTACTT
1 TATTTAT-TTTTTTTACTTTCTTTATTT
* ** *
19777 CATTGGTTTTTTTTACTTTCTTTGTTT
1 TATTTATTTTTTTTACTTTCTTTATTT
19804 TATTTATTTT
1 TATTTATTTT
19814 CATTATTTCC
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
26 9 0.13
27 37 0.52
28 17 0.24
29 8 0.11
ACGTcount: A:0.13, C:0.09, G:0.03, T:0.75
Consensus pattern (27 bp):
TATTTATTTTTTTTACTTTCTTTATTT
Found at i:22511 original size:95 final size:95
Alignment explanation
Indices: 22399--22647 Score: 295
Period size: 95 Copynumber: 2.7 Consensus size: 95
22389 CCAAATTATA
* * * *
22399 ATTATATATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAGACGCCCTGGCTTTT
1 ATTATA-ATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTCTA
22464 TGGATAAGATTCAACTAGCCTGATAAAGGCG
65 TGGATAAGATTCAACTAGCCTGATAAAGGCG
* * *
22495 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTCTAT
1 ATTATAATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTCTAT
* * * *
22560 GGATAATATTTAGCTAGCCTGATAAAGGTG
66 GGATAAGATTCAACTAGCCTGATAAAGGCG
* *
22590 ATTATAATAT----T-AAGC-T--G---TCCCTCTAGAGCAGTTGGTTAAACGCCCCGGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTCTAT
22644 GGAT
66 GGAT
22648 CCAGCTAGCC
Statistics
Matches: 139, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
84 38 0.27
87 1 0.01
89 1 0.01
90 4 0.03
91 1 0.01
95 88 0.63
96 6 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTCTAT
GGATAAGATTCAACTAGCCTGATAAAGGCG
Found at i:23688 original size:21 final size:21
Alignment explanation
Indices: 23664--23709 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
23654 GAAGATATCC
23664 GGCTGTCAGAATTTATCAGTA
1 GGCTGTCAGAATTTATCAGTA
23685 GGCTGTCAGAATTTATCAGTA
1 GGCTGTCAGAATTTATCAGTA
23706 GGCT
1 GGCT
23710 TTCCCATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
GGCTGTCAGAATTTATCAGTA
Found at i:23965 original size:84 final size:84
Alignment explanation
Indices: 23824--25574 Score: 1936
Period size: 84 Copynumber: 20.9 Consensus size: 84
23814 ATTTTTTTAT
**
23824 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCT-TCCAATAAAAGACCTTCGAGTTCGATTAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGT-CAACCAAAGACCTTCGAGTTCGATTAC
23888 ACTCAGCTCAAAGGCACATC
65 ACTCAGCTCAAAGGCACATC
* * * * *
23908 ATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
*
23973 CTCAGCTCAAAGGCATATC
66 CTCAGCTCAAAGGCACATC
* ** * *
23992 ATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
*
24057 CTCAGCTTAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * * * * *
24076 ATTTGCAGTATAGCTTAAGTCAATAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
24141 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * *
24160 ATTTGCAGCATAACTCAAGCCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
**
24225 CTCAGCTCAAAGGGTCATC
66 CTCAGCTCAAAGGCACATC
* * * * * *
24244 ATTTGCAACATAGCTTAAGGC-AGGAAGGGTTATCTG-CCAGCAAGAGACCTTCGAGTTTGATTA
1 ATTTGCAGCATAACTCAAGGCTA-GAAGGGTTATCTGTCAACCAA-AGACCTTCGAGTTCGATTA
24307 CACTCAGCTCAAAGGCACATC
64 CACTCAGCTCAAAGGCACATC
* * * *
24328 ATTTACAACATAACTCAAGGCTAGAAAGGTTATCCGTCAA-CAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
24392 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * * * **
24411 ATTTGCAGCATAGA-TTAAGTCAAAAAGGGCTATCT-TCGAACCAAAGACCTTCAAGTTTAATTA
1 ATTTGCAGCATA-ACTCAAGGCTAGAAGGGTTATCTGTC-AACCAAAGACCTTCGAGTTCGATTA
* * *
24474 CATTCAGCCCAAATGCACATC
64 CACTCAGCTCAAAGGCACATC
* * ** *
24495 ATTTGTAGTATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
24560 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * * * * *
24579 ATTTACAGTATAACTTAAGTCAAGAAGGGCTATCTATCAACTAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
* *
24644 CTCAGCTCAAAGACATATC
66 CTCAGCTCAAAGGCACATC
** * *
24663 ATTTGCAGCATAACTCAA-GCTTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGATAAC
1 ATTTGCAGCATAACTCAAGGC-TAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTAC
*
24727 ACTCAGCTCAAAGGCGCATC
65 ACTCAGCTCAAAGGCACATC
* * * * *
24747 ATTTGTAGCATAGCTTAAGG-TAGGAAGGGTTATCTG-CCAGCAAGAGACCTTCGAGTTCGATTA
1 ATTTGCAGCATAACTCAAGGCTA-GAAGGGTTATCTGTCAACCAA-AGACCTTCGAGTTCGATTA
24810 CACTCAGCTCAAAGGCACATC
64 CACTCAGCTCAAAGGCACATC
* * *
24831 ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTCAA-CAATGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
*
24895 CTCAGCTTAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * * * *
24914 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT-TCCAACCAAAGACCTTCGAGTTTGATTAT
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGT-CAACCAAAGACCTTCGAGTTCGATTAC
* * * *
24978 ATTCAGCCCAAATGCATATC
65 ACTCAGCTCAAAGGCACATC
* *
24998 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACT
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
*
25063 CTCAGCTCAAAGGCACGTC
66 CTCAGCTCAAAGGCACATC
* * * * * * * *
25082 ATTTGCAACATAGCTTAAGTCGATAAGGGCTATATG-CTAACCAAAGACCTTCGAGTTCGATTAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AACCAAAGACCTTCGAGTTCGATTAC
* * * *
25146 ATTCAACTCAAAGGCACTTT
65 ACTCAGCTCAAAGGCACATC
* * * * *
25166 ATTTGCAGCATAAATCAAGGCTAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
*
25231 CTCAGCTCAAAGGCGCATC
66 CTCAGCTCAAAGGCACATC
* * * * ** *
25250 ATTTGTAGCATAGCTCAAGG-TAAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGTTTGATTAC
1 ATTTGCAGCATAACTCAAGGCT-AGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTAC
*
25314 ACTCAGCTCAAATGCACATC
65 ACTCAGCTCAAAGGCACATC
* * * * *
25334 ATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTGCCAA-CAAAGACCTTCGAGTTAGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
* *
25398 CTCAGCTCAAAGGTACATT
66 CTCAGCTCAAAGGCACATC
* * * * * *
25417 AGTTTTACAGCATAACTCAAGGGTATAAGGGTTATCTGTC-ATCAAAGGCCTTCGATTTCGATTA
1 A--TTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTA
* * * *
25481 CATTCAACTCAGAGGCAAATC
64 CACTCAGCTCAAAGGCACATC
* * * * * * * *
25502 AAATTTACAACATAGCTCAAGGCAAGAAGGGCTAACTCTCAA-CAAAG--TTGTCGAGTTCGATT
1 --ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCT-TCGAGTTCGATT
* *
25564 CCATTCAGCTC
63 ACACTCAGCTC
25575 GATGACACAT
Statistics
Matches: 1408, Mismatches: 229, Indels: 60
0.83 0.13 0.04
Matches are distributed among these distances:
82 3 0.00
83 189 0.13
84 1105 0.78
85 109 0.08
86 1 0.00
87 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCACATC
Found at i:24118 original size:168 final size:167
Alignment explanation
Indices: 23824--25532 Score: 2190
Period size: 168 Copynumber: 10.2 Consensus size: 167
23814 ATTTTTTTAT
* *
23824 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTTCCAATAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* * *
23889 CTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGTCAACCAAAG
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCT-TCAACCAAAG
*
23954 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * *
23992 ATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* * *
24057 CTCAGCTTAAAGGCACATCATTTGCAGTATAGCTTAAGTCAATAAGGGCTATCTATCAACCAAAG
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCT-TCAACCAAAG
24122 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
*
24160 ATTTGCAGCATAACTCAAGCCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
** * * * * * * *
24225 CTCAGCTCAAAGGGTCATCATTTGCAACATAGCTTAAGGCAGGAAGGGTTATCTGCCAGCAAGAG
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTCAACCAA-AG
*
24290 ACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * * * *
24328 ATTTACAACATAACTCAAGGCTAGAAAGGTTATCCGTCAAC-AAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* *
24392 CTCAGCTCAAAGGCACATCATTTGCAGCATAGATTAAGTCAAAAAGGGCTATCTTCGAACCAAAG
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTC-AACCAAAG
* ** * * *
24457 ACCTTCAAGTTTAATTACATTCAGCCCAAATGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * *
24495 ATTTGTAGTATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* * * *
24560 CTCAGCTCAAAGGCACATCATTTACAGTATAACTTAAGTCAAGAAGGGCTATCTATCAACTAAAG
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCT-TCAACCAAAG
* *
24625 ACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* *
24663 ATTTGCAGCATAACTCAA-GCTTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGATAAC
1 ATTTGCAGCATAACTCAAGGC-TAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTAC
* * * * * * *
24727 ACTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTTAAGGT-AGGAAGGGTTATCTGCCAGCAAG
65 ACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAA-GTCAAGAAGGGCTATCTTCAACCAA-
24791 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
128 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * * *
24831 ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTCAAC-AATGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* *
24895 CTCAGCTTAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAG
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTT-CAACCAAAG
* * * * * *
24960 ACCTTCGAGTTTGATTATATTCAGCCCAAATGCATATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* *
24998 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACT
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* * * * * *
25063 CTCAGCTCAAAGGCACGTCATTTGCAACATAGCTTAAGTCGATAAGGGCTATATGCTAACCAAAG
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTC-AACCAAAG
* * * *
25128 ACCTTCGAGTTCGATTACATTCAACTCAAAGGCACTTT
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * *
25166 ATTTGCAGCATAAATCAAGGCTAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* * * * **
25231 CTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTCAAGGT-AAGAAGGGCTATCTGCCAATAAAA
66 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAA-GTCAAGAAGGGCTATCT-TCAACCAAA
* *
25295 GACCTTCGAGTTTGATTACACTCAGCTCAAATGCACATC
129 GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * * *
25334 ATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTGCCAAC-AAAGACCTTCGAGTTAGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* * * * * *** * * *
25398 CTCAGCTCAAAGGTACATTAGTTTTACAGCATAACTCAAGGGTATAAGGGTTATCTGTC-ATCAA
66 CTCAGCTCAAAGGCACATCA--TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCT-TCAACCAA
* * * * * *
25462 AGGCCTTCGATTTCGATTACATTCAACTCAGAGGCAAATC
128 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * * *
25502 AAATTTACAACATAGCTCAAGGCAAGAAGGG
1 --ATTTGCAGCATAACTCAAGGCTAGAAGGG
25533 CTAACTCTCA
Statistics
Matches: 1343, Mismatches: 179, Indels: 36
0.86 0.11 0.02
Matches are distributed among these distances:
166 2 0.00
167 327 0.24
168 951 0.71
169 36 0.03
170 27 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (167 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTCAACCAAAGA
CCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
Found at i:24813 original size:503 final size:501
Alignment explanation
Indices: 23824--25415 Score: 2438
Period size: 503 Copynumber: 3.2 Consensus size: 501
23814 ATTTTTTTAT
* * * *
23824 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT-CTTCCAATAAAAGACCTTCGAGTTCGATTAC
1 ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCCGT-CAA-CAAAGACCTTCGAGTTCGATTAC
* *
23888 ACTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGTCAACCAAA
64 ACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT-TCAACCAAA
* * * * *
23953 GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAACATAACTCAAGGCTAGAA
128 GACCTTCGAGTTTGATTACATTCAGCCCAAATGCATATCATTTGCAGCATAACTCAAGGCTAGAA
* *
24018 GGGTTATCTACCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTTAAAGGCACATCATTTGCA
193 GGGTTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
24083 GTATAGCTTAAGTCAATAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGATTACACTCAGCT
258 GTATAGCTTAAGTCAATAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGATTACACTCAGCT
*
24148 CAAAGGCACATCATTTGCAGCATAACTCAAGCCTAGAAGGGTTATCTGCCAACAAAAGACCTTCG
323 CAAAGGCATATCATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGCCAACAAAAGACCTTCG
* * *
24213 AGTTCGATTACACTCAGCTCAAAGG-GTCATCATTTGCAACATAGCTTAAGGCAGGAAGGGTTAT
387 AGTTCGATTACACTCAGCTCAAAGGCG-CATCATTTGTAGCATAGCTTAAGGTAGGAAGGGTTAT
24277 CTGCCAGCAAGAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATC
451 CTGCCAGCAAGAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATC
*
24328 ATTTACAACATAACTCAAGGCTAGAAAGGTTATCCGTCAACAAAGACCTTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCCGTCAACAAAGACCTTCGAGTTCGATTACAC
* * *
24393 TCAGCTCAAAGGCACATCATTTGCAGCATAGATTAAGTCAAAAAGGGCTATCTTCGAACCAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTC-AACCAAAGA
* * * * *
24458 CCTTCAAGTTTAATTACATTCAGCCCAAATGCACATCATTTGTAGTATAACTCAAGGCTAGAAGG
130 CCTTCGAGTTTGATTACATTCAGCCCAAATGCATATCATTTGCAGCATAACTCAAGGCTAGAAGG
*
24523 GTTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGT
195 GTTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGT
* * *
24588 ATAACTTAAGTCAAGAAGGGCTATCTATCAACTAAAGACCTTCGAGTTCGATTACACTCAGCTCA
260 ATAGCTTAAGTCAATAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTCA
* *
24653 AAGACATATCATTTGCAGCATAACTCAAGCTTAGAAGGGTTATCTACCAACAAAAGACCTTCGAG
325 AAGGCATATCATTTGCAGCATAACTCAAGC-TAGAAGGGTTATCTGCCAACAAAAGACCTTCGAG
*
24718 TTCGATAACACTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTTAAGGTAGGAAGGGTTATCTG
389 TTCGATTACACTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTTAAGGTAGGAAGGGTTATCTG
*
24783 CCAGCAAGAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
454 CCAGCAAGAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATC
* *
24831 ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTCAACAATGACCTTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCCGTCAACAAAGACCTTCGAGTTCGATTACAC
*
24896 TCAGCTTAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTT-CAACCAAAGA
*
24961 CCTTCGAGTTTGATTATATTCAGCCCAAATGCATATCATTTGCAGCATAACTCAAGGCTAGAAGG
130 CCTTCGAGTTTGATTACATTCAGCCCAAATGCATATCATTTGCAGCATAACTCAAGGCTAGAAGG
* * * * **
25026 GTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACTCTCAGCTCAAAGGCACGTCATTTGCAAC
195 GTTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGT
* * *
25091 ATAGCTTAAGTCGATAAGGGCTA--TATGCTAACCAAAGACCTTCGAGTTCGATTACATTCAACT
260 ATAGCTTAAGTCAATAAGGGCTATCTAT-C-AACCAAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
25154 CAAAGGCACT-TTATTTGCAGCATAAATCAAGGCTAGAAGGGTTATATGCCAACAAAAGACCTTC
323 CAAAGGCA-TATCATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGCCAACAAAAGACCTTC
* * * *
25218 GAGTTTGATTACACTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTCAAGGTAAGAAGGGCTAT
386 GAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTTAAGGTAGGAAGGGTTAT
** * *
25283 CTGCCAATAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAATGCACATC
451 CTGCCAGCAAGAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATC
* * * * * * * *
25334 ATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTGCCAACAAAGACCTTCGAGTTAGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCCGTCAACAAAGACCTTCGAGTTCGATTACAC
*
25399 TCAGCTCAAAGGTACAT
66 TCAGCTCAAAGGCACAT
25416 TAGTTTTACA
Statistics
Matches: 994, Mismatches: 85, Indels: 19
0.91 0.08 0.02
Matches are distributed among these distances:
501 3 0.00
502 4 0.00
503 947 0.95
504 38 0.04
505 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (501 bp):
ATTTACAGCATAACTCAAGGCTAGAAAGGTTATCCGTCAACAAAGACCTTCGAGTTCGATTACAC
TCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCAACCAAAGAC
CTTCGAGTTTGATTACATTCAGCCCAAATGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGG
TTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTA
TAGCTTAAGTCAATAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
AGGCATATCATTTGCAGCATAACTCAAGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTT
CGATTACACTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTTAAGGTAGGAAGGGTTATCTGCC
AGCAAGAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATC
Found at i:26386 original size:2 final size:2
Alignment explanation
Indices: 26381--26423 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
26371 TAAAAAATAA
26381 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
26423 A
1 A
26424 ATAGATATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26973 original size:12 final size:12
Alignment explanation
Indices: 26921--27140 Score: 53
Period size: 12 Copynumber: 17.7 Consensus size: 12
26911 TTATTATGTA
* *
26921 TATTTGTTTTAT
1 TATTTATTTTTT
*
26933 TACTTATTTGTTT
1 TATTTATTT-TTT
* *
26946 TATATATATATTT
1 TATTTAT-TTTTT
26959 TATTTATTTTTT
1 TATTTATTTTTT
** *
26971 TA-TTATCCTTA
1 TATTTATTTTTT
*
26982 TACTCTT-TTGTCTT
1 TA-T-TTATT-TTTT
*
26996 TATTCT-TTCTTT
1 TATT-TATTTTTT
27008 TA-TTATTTTTT
1 TATTTATTTTTT
*
27019 TA-TTAGTATTTT
1 TATTTA-TTTTTT
* *
27031 TA-GTATTATTAT
1 TATTTATT-TTTT
*
27043 TATTT-TTTTTC
1 TATTTATTTTTT
27054 TATTCTACTTATTTT
1 TATT-TA-TT-TTTT
** *
27069 TATACATTTTTAC
1 TATTTATTTTT-T
27082 T-TTTACTTTTATTT
1 TATTTA-TTTT--TT
*
27096 TATTTATTTATT
1 TATTTATTTTTT
27108 TATTTATTTTTT
1 TATTTATTTTTT
*
27120 TCTTTTATTTTTAT
1 T-ATTTATTTTT-T
27134 T-TTTATT
1 TATTTATT
27141 CTTTATCTTT
Statistics
Matches: 151, Mismatches: 35, Indels: 44
0.66 0.15 0.19
Matches are distributed among these distances:
10 1 0.01
11 26 0.17
12 60 0.40
13 38 0.25
14 15 0.10
15 11 0.07
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (12 bp):
TATTTATTTTTT
Found at i:27103 original size:9 final size:9
Alignment explanation
Indices: 27089--27286 Score: 79
Period size: 9 Copynumber: 20.9 Consensus size: 9
27079 TACTTTTACT
27089 TTTATTTTA
1 TTTATTTTA
27098 TTTA-TTTA
1 TTTATTTTA
27106 TTTA-TTTA
1 TTTATTTTA
*
27114 TTT-TTTTCT
1 TTTATTTT-A
27123 TTTATTTTTA
1 TTTA-TTTTA
*
27133 TTT-TTATTC
1 TTTATT-TTA
27142 TTTATCTTTA
1 TTTAT-TTTA
*
27152 TCTTCATCTTA
1 T-TT-ATTTTA
*
27163 TTCT-TTTTC
1 TT-TATTTTA
* *
27172 TCCT-TTATA
1 T-TTATTTTA
*
27181 TTTGTTTTA
1 TTTATTTTA
*
27190 TGTATTTT-
1 TTTATTTTA
*
27198 TTTATTTTC
1 TTTATTTTA
27207 TTCTAATTGTTA
1 TT-T-ATT-TTA
27219 TTTA-TTTA
1 TTTATTTTA
27227 TTTATTGTGTATA
1 TTTA-T-T-T-TA
27240 TATTATTATTA
1 T-TTATT-TTA
27251 TTTCATTTTA
1 TTT-ATTTTA
27261 TTTATTTTA
1 TTTATTTTA
*
27270 TTTATCTTA
1 TTTATTTTA
*
27279 TTCATTTT
1 TTTATTTT
27287 TTACTCTTTT
Statistics
Matches: 146, Mismatches: 20, Indels: 46
0.69 0.09 0.22
Matches are distributed among these distances:
8 35 0.24
9 54 0.37
10 18 0.12
11 23 0.16
12 9 0.06
13 4 0.03
14 3 0.02
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27131 original size:6 final size:6
Alignment explanation
Indices: 27005--27152 Score: 63
Period size: 6 Copynumber: 24.0 Consensus size: 6
26995 TTATTCTTTC
* ** * * *
27005 TTTTAT TATT-T TTTTAT TAGTAT TTTTAG TATTAT TATTAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* ** * *
27051 TTCTAT TCTACTTAT TTTTA- -TACAT TTTTAC TTTTAC TTTTA- TTTTATT
1 TTTTAT T-T--TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
* *
27100 TATTTATT TATTTAT TTTTTT CTTTTAT TTTTAT TTTTAT TCTTTAT CTTTAT
1 T-TTTA-T T-TTTAT TTTTAT -TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT
27153 CTTCATCTTA
Statistics
Matches: 110, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
4 2 0.02
5 13 0.12
6 64 0.58
7 14 0.13
8 13 0.12
9 4 0.04
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:27142 original size:20 final size:20
Alignment explanation
Indices: 27042--27144 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
27032 AGTATTATTA
* *
27042 TTATTTTT-TTTCTATTCTAC
1 TTATTTTTATTTTTATTCT-T
*
27062 TTATTTTTATACATTTT-TACTT
1 TTATTTTTAT---TTTTATTCTT
*
27084 TTACTTTTA-TTTTATT-TAT
1 TTATTTTTATTTTTATTCT-T
27103 TTATTTATTTATTTTT-TTCTT
1 TTA-TT-TTTATTTTTATTCTT
27124 TTATTTTTATTTTTATTCTT
1 TTATTTTTATTTTTATTCTT
27144 T
1 T
27145 ATCTTTATCT
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
18 5 0.08
19 14 0.21
20 17 0.26
21 11 0.17
22 13 0.20
23 3 0.05
24 3 0.05
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (20 bp):
TTATTTTTATTTTTATTCTT
Found at i:27280 original size:34 final size:32
Alignment explanation
Indices: 27216--27289 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 32
27206 CTTCTAATTG
*
27216 TTATTTATTTATTTATTGTGTATATATTATTA
1 TTATTTATTTATTTATTGTATATATATTATTA
* * *
27248 TTATTTCATTTTATTTATTTTATTTATCTTATTCA
1 TTATTT-A-TTTATTTATTGTATATATATTATT-A
*
27283 TTTTTTA
1 TTATTTA
27290 CTCTTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 6 0.18
33 1 0.03
34 21 0.62
35 6 0.18
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (32 bp):
TTATTTATTTATTTATTGTATATATATTATTA
Found at i:31574 original size:36 final size:36
Alignment explanation
Indices: 31533--31601 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
31523 AATGCTCTTT
*
31533 ATAATAAGTTGTGTCAC-TTGATGAATAGACTTATTA
1 ATAATAAGTTATGTCACTTTG-TGAATAGACTTATTA
31569 ATAATAAGTTATGTCACTTTGTGAATAGACTTA
1 ATAATAAGTTATGTCACTTTGTGAATAGACTTA
31602 CATTTTAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 28 0.90
37 3 0.10
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (36 bp):
ATAATAAGTTATGTCACTTTGTGAATAGACTTATTA
Found at i:38585 original size:35 final size:35
Alignment explanation
Indices: 38546--38641 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 35
38536 AAAACAATCC
* *
38546 TCAATTTTATTCTAAACACC-AAATTCCAAAGTAAT
1 TCAATTTCATTCTAAAC-CCTAAATTCCAAAATAAT
**
38581 TCAATTTCATTCTAAACCCTAAATTTTAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
* *
38616 TTAATTACATTCTAAACCCTAAATTC
1 TCAATTTCATTCTAAACCCTAAATTC
38642 TAAATTCTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
34 2 0.04
35 51 0.96
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:39009 original size:70 final size:73
Alignment explanation
Indices: 38922--39066 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 73
38912 TTCAAATGTT
* *
38922 ACCATATATCATGGTATATGG-TTTGACAACCATAGCATATTGACTAAGCCACTATG-CATATAC
1 ACCATATATCATAGTATATGGTTTTGACAACCATACCATATTGACTAAGCCACTATGTCATATAC
38985 -AAAAATG
66 AAAAAATG
* * *
38992 ACCATATATCGTAGTATATGGTTTTGGCAACCATACCATATTGACTAAGTCACTATGTCATATAC
1 ACCATATATCATAGTATATGGTTTTGACAACCATACCATATTGACTAAGCCACTATGTCATATAC
39057 AAAAAATG
66 AAAAAATG
39065 AC
1 AC
39067 ACAAAAGATG
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
70 19 0.28
71 32 0.48
72 7 0.10
73 9 0.13
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (73 bp):
ACCATATATCATAGTATATGGTTTTGACAACCATACCATATTGACTAAGCCACTATGTCATATAC
AAAAAATG
Found at i:39114 original size:29 final size:29
Alignment explanation
Indices: 39065--39127 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
39055 ACAAAAAATG
* *
39065 ACACAAAAGATGACAGGTAACATCTATCA
1 ACACAAAAAATGACAGGTAACATCCATCA
* *
39094 ACACAAAAAATGGCAGTTAACATCCATCA
1 ACACAAAAAATGACAGGTAACATCCATCA
39123 ACACA
1 ACACA
39128 TATTGAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.24, G:0.11, T:0.16
Consensus pattern (29 bp):
ACACAAAAAATGACAGGTAACATCCATCA
Found at i:40188 original size:11 final size:11
Alignment explanation
Indices: 40172--40208 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
40162 TCACAACAAC
40172 TAAATAGCAAA
1 TAAATAGCAAA
*
40183 TAAATAACAAA
1 TAAATAGCAAA
*
40194 TAAATAGCAAC
1 TAAATAGCAAA
40205 TAAA
1 TAAA
40209 ATAACAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (11 bp):
TAAATAGCAAA
Found at i:40191 original size:22 final size:23
Alignment explanation
Indices: 40166--40220 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
40156 TTGAATTCAC
40166 AACAACTAAATAGCAAAT-AAAT
1 AACAACTAAATAGCAAATAAAAT
* *
40188 AACAAATAAATAGCAACTAAAAT
1 AACAACTAAATAGCAAATAAAAT
40211 AACAACTAAA
1 AACAACTAAA
40221 CATCTAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.65, C:0.15, G:0.04, T:0.16
Consensus pattern (23 bp):
AACAACTAAATAGCAAATAAAAT
Found at i:40234 original size:97 final size:97
Alignment explanation
Indices: 40107--40592 Score: 650
Period size: 97 Copynumber: 5.2 Consensus size: 97
40097 CAAGTAAATT
*
40107 CTAACATAGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAACAAC
1 CTAAAATAGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAACAAC
40172 TAAATAGCAAATAAATAACAAATAAATAGCAA
66 TAAATAGCAAATAAATAACAAATAAATAGCAA
* *
40204 CTAAAATAACAACTAAACATCTAATAAACAGACATAATATCCAATAATATTGAATTCACAACAAC
1 CTAAAATAGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAACAAC
*
40269 TAAATAGCAACTAAATAAC----AAATA--AA
66 TAAATAGCAAATAAATAACAAATAAATAGCAA
*
40295 C------AGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAAC
1 CTAAAATAGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAACAAC
* *
40354 TAAATAGCAAATAAATAACAAATAAACATCAA
66 TAAATAGCAAATAAATAACAAATAAATAGCAA
* * *
40386 CTAAAATAGCAACTAAACATCCAATAAAAAGACATAATATCCAATAATATTGAATTGA-ATTC-A
1 CTAAAATAGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACA-ACAA
* * *
40449 C---A-A-CAACTAAATAACAACTAAATAACAA
65 CTAAATAGCAAATAAATAACAAATAAATAGCAA
* * *
40477 ATAAAATAGCAATTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAAC
1 CTAAAATAGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAACAAC
**
40542 TAAATAGCAAATAAATAACAAATAAATATAAA
66 TAAATAGCAAATAAATAACAAATAAATAGCAA
* *
40574 CTAAAATATCAAATAAACA
1 CTAAAATAGCAACTAAACA
40593 ACAAGTAATT
Statistics
Matches: 341, Mismatches: 28, Indels: 40
0.83 0.07 0.10
Matches are distributed among these distances:
85 73 0.21
89 4 0.01
91 82 0.24
92 4 0.01
93 6 0.02
95 1 0.00
96 4 0.01
97 167 0.49
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (97 bp):
CTAAAATAGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAACAAC
TAAATAGCAAATAAATAACAAATAAATAGCAA
Found at i:40281 original size:11 final size:11
Alignment explanation
Indices: 40265--40305 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
40255 GAATTCACAA
40265 CAACTAAATAG
1 CAACTAAATAG
*
40276 CAACTAAATAA
1 CAACTAAATAG
* *
40287 CAAATAAACAG
1 CAACTAAATAG
40298 CAACTAAA
1 CAACTAAA
40306 CATCCAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.61, C:0.20, G:0.05, T:0.15
Consensus pattern (11 bp):
CAACTAAATAG
Found at i:40288 original size:22 final size:22
Alignment explanation
Indices: 40263--40319 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
40253 TTGAATTCAC
* *
40263 AACAACTAAATAGCAACTAAAT
1 AACAAATAAACAGCAACTAAAT
*
40285 AACAAATAAACAGCAACTAAAC
1 AACAAATAAACAGCAACTAAAT
* *
40307 ATCCAATAAACAG
1 AACAAATAAACAG
40320 ACATAATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.60, C:0.21, G:0.05, T:0.14
Consensus pattern (22 bp):
AACAAATAAACAGCAACTAAAT
Found at i:40309 original size:85 final size:86
Alignment explanation
Indices: 40183--40567 Score: 493
Period size: 85 Copynumber: 4.3 Consensus size: 86
40173 AAATAGCAAA
* * * * * *
40183 TAAATAACAAATAAATAGCAACTAAAATAACAACTAAACATCTAATAAACAGACATAATATCCAA
1 TAAATAGCAAATAAATAACAAATAAAACAGCAACTAAACATCCAATAAACAGACATAATATCCAA
40248 TAATATTGAATTCACAACAAC
66 TAATATTGAATTCACAACAAC
*
40269 TAAATAGCAACTAAATAACAAAT-AAACAGCAACTAAACATCCAATAAACAGACATAATATCCAA
1 TAAATAGCAAATAAATAACAAATAAAACAGCAACTAAACATCCAATAAACAGACATAATATCCAA
*
40333 TAATATTGAATTCACAGCAAC
66 TAATATTGAATTCACAACAAC
*
40354 TAAATAGCAAATAAATAACAAATAAACATCAACTAAAATAGCAACTAAACATCCAATAAAAAGAC
1 TAAATAGCAAATAAATAACAAAT--A-A--AAC------AGCAACTAAACATCCAATAAACAGAC
40419 ATAATATCCAATAATATTGAATTGAATTCACAACAAC
55 ATAATATCCAAT-A-A-T--ATTGAATTCACAACAAC
* * * *
40456 TAAATAACAACTAAATAACAAATAAAATAGCAATTAAACATCCAATAAACAGACATAATATCCAA
1 TAAATAGCAAATAAATAACAAATAAAACAGCAACTAAACATCCAATAAACAGACATAATATCCAA
*
40521 TAATATTGAATTCACAGCAAC
66 TAATATTGAATTCACAACAAC
40542 TAAATAGCAAATAAATAACAAATAAA
1 TAAATAGCAAATAAATAACAAATAAA
40568 TATAAACTAA
Statistics
Matches: 263, Mismatches: 19, Indels: 34
0.83 0.06 0.11
Matches are distributed among these distances:
85 80 0.30
86 59 0.22
88 1 0.00
89 2 0.01
90 1 0.00
91 39 0.15
97 39 0.15
98 1 0.00
99 2 0.01
100 2 0.01
102 37 0.14
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (86 bp):
TAAATAGCAAATAAATAACAAATAAAACAGCAACTAAACATCCAATAAACAGACATAATATCCAA
TAATATTGAATTCACAACAAC
Found at i:40368 original size:11 final size:11
Alignment explanation
Indices: 40348--40402 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
40338 TTGAATTCAC
40348 AGCAACTAAAT
1 AGCAACTAAAT
*
40359 AGCAAATAAAT
1 AGCAACTAAAT
* * *
40370 AACAAATAAAC
1 AGCAACTAAAT
*
40381 ATCAACTAAAAT
1 AGCAACT-AAAT
40393 AGCAACTAAA
1 AGCAACTAAA
40403 CATCCAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 27 0.75
12 9 0.25
ACGTcount: A:0.62, C:0.16, G:0.05, T:0.16
Consensus pattern (11 bp):
AGCAACTAAAT
Found at i:40402 original size:23 final size:22
Alignment explanation
Indices: 40348--40414 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
40338 TTGAATTCAC
* *
40348 AGCAACTAAATAGCAA-ATAAAT
1 AGCAACTAAACATCAATA-AAAT
* *
40370 AACAAATAAACATCAACTAAAAT
1 AGCAACTAAACATCAA-TAAAAT
40393 AGCAACTAAACATCCAATAAAA
1 AGCAACTAAACAT-CAATAAAA
40415 AGACATAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 12 0.33
23 20 0.56
24 4 0.11
ACGTcount: A:0.61, C:0.18, G:0.04, T:0.16
Consensus pattern (22 bp):
AGCAACTAAACATCAATAAAAT
Found at i:40412 original size:34 final size:33
Alignment explanation
Indices: 40350--40413 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
40340 GAATTCACAG
*
40350 CAACTAAATAGCAAATAAATAACAAATAAACAT
1 CAACTAAATAGCAAATAAACAACAAATAAACAT
* * *
40383 CAACTAAAATAGCAACTAAACATCCAATAAA
1 CAACT-AAATAGCAAATAAACAACAAATAAA
40414 AAGACATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 5 0.19
34 21 0.81
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.17
Consensus pattern (33 bp):
CAACTAAATAGCAAATAAACAACAAATAAACAT
Found at i:40421 original size:182 final size:187
Alignment explanation
Indices: 40114--40592 Score: 806
Period size: 182 Copynumber: 2.6 Consensus size: 187
40104 ATTCTAACAT
*
40114 AGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAACAACTAAATAG
1 AGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAACTAAATAG
* * *
40179 CAAATAAATAACAAATAAATAGCAACTAAAATAACAACTAAACATCTAATAAACAGACATAATAT
66 CAAATAAATAACAAATAAATATCAACTAAAATAACAACTAAACATCCAATAAAAAGACATAATAT
*
40244 CCAAT-A-A-T-ATTGAATTCACAACAACTAAATAGCAACTAAATAACAAAT-AAAC
131 CCAATAATATTAATTGAATTCACAACAACTAAATAACAACTAAATAACAAATAAAAC
40296 AGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAACTAAATAG
1 AGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAACTAAATAG
* *
40361 CAAATAAATAACAAATAAACATCAACTAAAATAGCAACTAAACATCCAATAAAAAGACATAATAT
66 CAAATAAATAACAAATAAATATCAACTAAAATAACAACTAAACATCCAATAAAAAGACATAATAT
*
40426 CCAATAATATTGAATTGAATTCACAACAACTAAATAACAACTAAATAACAAATAAAAT
131 CCAATAATATT-AATTGAATTCACAACAACTAAATAACAACTAAATAACAAATAAAAC
*
40484 AGCAATTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAACTAAATAG
1 AGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAACTAAATAG
* * *
40549 CAAATAAATAACAAATAAATATAAACTAAAATATCAAATAAACA
66 CAAATAAATAACAAATAAATATCAACTAAAATAACAACTAAACA
40593 ACAAGTAATT
Statistics
Matches: 278, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
182 129 0.46
183 1 0.00
184 1 0.00
185 1 0.00
187 39 0.14
188 107 0.38
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (187 bp):
AGCAACTAAACATCCAATAAACAGACATAATATCCAATAATATTGAATTCACAGCAACTAAATAG
CAAATAAATAACAAATAAATATCAACTAAAATAACAACTAAACATCCAATAAAAAGACATAATAT
CCAATAATATTAATTGAATTCACAACAACTAAATAACAACTAAATAACAAATAAAAC
Found at i:40466 original size:11 final size:11
Alignment explanation
Indices: 40450--40481 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
40440 TTGAATTCAC
40450 AACAACTAAAT
1 AACAACTAAAT
40461 AACAACTAAAT
1 AACAACTAAAT
*
40472 AACAAATAAA
1 AACAACTAAA
40482 ATAGCAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AACAACTAAAT
Found at i:40556 original size:11 final size:11
Alignment explanation
Indices: 40536--40569 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
40526 TTGAATTCAC
*
40536 AGCAACTAAAT
1 AGCAAATAAAT
40547 AGCAAATAAAT
1 AGCAAATAAAT
*
40558 AACAAATAAAT
1 AGCAAATAAAT
40569 A
1 A
40570 TAAACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (11 bp):
AGCAAATAAAT
Found at i:40589 original size:86 final size:89
Alignment explanation
Indices: 40359--40592 Score: 289
Period size: 91 Copynumber: 2.6 Consensus size: 89
40349 GCAACTAAAT
* * * * *
40359 AGCAAATAAATAACAAATAAACATCAACTAAAATAGCAACTAAACATCCAATAAAAAGACATAAT
1 AGCAACTAAATAACAAATAAATAACAAATAAAATA-CAACTAAACATCCAATAAACAGACATAAT
40424 ATCCAATAATATTGAATTGAATTCAC
65 ATCCAATAATATT-AATTGAATTCAC
* * *
40450 AACAACTAAATAACAACTAAATAACAAATAAAATAGCAATTAAACATCCAATAAACAGACATAAT
1 AGCAACTAAATAACAAATAAATAACAAATAAAATA-CAACTAAACATCCAATAAACAGACATAAT
40515 ATCCAAT-A-A-T-ATTGAATTCAC
65 ATCCAATAATATTAATTGAATTCAC
* * *
40536 AGCAACTAAATAGCAAATAAATAACAAATAAATATA-AACTAAAATATCAAATAAACA
1 AGCAACTAAATAACAAATAAATAACAAATAAA-ATACAACT-AAACATCCAATAAACA
40593 ACAAGTAATT
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
85 3 0.02
86 54 0.43
87 3 0.02
88 1 0.01
89 1 0.01
90 1 0.01
91 64 0.50
ACGTcount: A:0.59, C:0.16, G:0.04, T:0.21
Consensus pattern (89 bp):
AGCAACTAAATAACAAATAAATAACAAATAAAATACAACTAAACATCCAATAAACAGACATAATA
TCCAATAATATTAATTGAATTCAC
Found at i:41588 original size:64 final size:64
Alignment explanation
Indices: 41520--41698 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 64
41510 TGGAATACTT
* * * **
41520 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCACTAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
*** *
41584 AGTGCATCGGTGCACTGTTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCACTAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* * *
41648 AGTGCATCGATGCA-TAGAGAGTGCATCGATGTATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCACTA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
41699 CAATTTATTC
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
63 1 0.01
64 95 0.97
65 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (64 bp):
AGTGCATCGGTGCACTAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:48986 original size:64 final size:63
Alignment explanation
Indices: 48918--49096 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
48908 TGGAACACTT
* * * **
48918 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* *
48982 AGTGCATCGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* * *
49046 AGTGCATCGATGCATAGAGAGTGCATCCATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
49097 CAATTTATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
64 95 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:62444 original size:3 final size:3
Alignment explanation
Indices: 62436--62465 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
62426 GAATAGGGTT
62436 TTG TTG TTG TTG TTG TTG TTG TTG TGTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG T-TG TT
62466 TGAACCAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:64687 original size:45 final size:45
Alignment explanation
Indices: 64610--64734 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 45
64600 AGACTGCTAG
* * * * ** *
64610 TCTAGGAAAAATGAGGGTTGCTATTATAGAAAAGTGGGCTATTGT
1 TCTAGAAAAAATGAGGGATGTTGTTATAGAAAAGAAGACTATTGT
* * * *
64655 TTTGGAAAAAATGAGGGATGTTGTTATGGAAAAGAAGATTATTGT
1 TCTAGAAAAAATGAGGGATGTTGTTATAGAAAAGAAGACTATTGT
* *
64700 TCTAGAAAAAATGAGGTATGTTGTTCTAGAAAAGA
1 TCTAGAAAAAATGAGGGATGTTGTTATAGAAAAGA
64735 CGGTTGCTAT
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (45 bp):
TCTAGAAAAAATGAGGGATGTTGTTATAGAAAAGAAGACTATTGT
Found at i:64723 original size:24 final size:24
Alignment explanation
Indices: 64659--64732 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
64649 TATTGTTTTG
* * *
64659 GAAAAAATGAGGGATGTTGTTATG
1 GAAAAAATGAGGTATGTTGTTCTA
*
64683 GAAAAGAA-GA--T-TATTGTTCTA
1 GAAAA-AATGAGGTATGTTGTTCTA
64704 GAAAAAATGAGGTATGTTGTTCTA
1 GAAAAAATGAGGTATGTTGTTCTA
64728 GAAAA
1 GAAAA
64733 GACGGTTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
20 2 0.05
21 14 0.35
23 1 0.03
24 21 0.52
25 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.30
Consensus pattern (24 bp):
GAAAAAATGAGGTATGTTGTTCTA
Found at i:64748 original size:45 final size:45
Alignment explanation
Indices: 64659--64753 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
64649 TATTGTTTTG
* * *
64659 GAAAAAATGAGGGATGTTGTTATGGAAAAGAAGATTATTGTTCTA
1 GAAAAAATGAGGGATGTTGTTATAGAAAAGAAGATTACTATTCTA
* * * * *
64704 GAAAAAATGAGGTATGTTGTTCTAGAAAAGACGGTTGCTATTCTA
1 GAAAAAATGAGGGATGTTGTTATAGAAAAGAAGATTACTATTCTA
*
64749 TAAAA
1 GAAAA
64754 CAAAATTGGA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (45 bp):
GAAAAAATGAGGGATGTTGTTATAGAAAAGAAGATTACTATTCTA
Found at i:68937 original size:18 final size:18
Alignment explanation
Indices: 68914--68965 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
68904 ATATAACACA
68914 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
68932 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
68950 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
68966 GCATAGACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Done.