Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010601.1 Kokia drynarioides strain JFW-HI SEQ_125532, 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: 333547
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:873 original size:18 final size:18
Alignment explanation
Indices: 850--886 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
840 TTTGTGATCA
850 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
868 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
886 A
1 A
887 TATGAATTGT
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:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:4045 original size:21 final size:21
Alignment explanation
Indices: 4019--4068 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
4009 ACAAAACAAT
4019 ATGTTTGTAACTCTCCTCATA
1 ATGTTTGTAACTCTCCTCATA
*
4040 ATGTTTGTAACTCTCCTCATT
1 ATGTTTGTAACTCTCCTCATA
4061 ATGTTTGT
1 ATGTTTGT
4069 TTTAAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (21 bp):
ATGTTTGTAACTCTCCTCATA
Found at i:9922 original size:3 final size:3
Alignment explanation
Indices: 9916--9955 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
9906 AATAATCCAA
9916 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9956 GTAAATTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10992 original size:13 final size:13
Alignment explanation
Indices: 10974--11009 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
10964 TATTTCAGAA
10974 AAAGTCAACGATC
1 AAAGTCAACGATC
10987 AAAGTCAACGATC
1 AAAGTCAACGATC
11000 AAAGGTCAAC
1 AAA-GTCAAC
11010 AGTCAATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAGTCAACGATC
Found at i:11009 original size:14 final size:14
Alignment explanation
Indices: 10977--11024 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
10967 TTCAGAAAAA
10977 GTCAACGATCAAA-
1 GTCAACGATCAAAG
10990 GTCAACGATCAAAG
1 GTCAACGATCAAAG
*
11004 GTCAAC-AGTCAATG
1 GTCAACGA-TCAAAG
11018 GTCAACG
1 GTCAACG
11025 GTCGGTCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 14 0.45
14 17 0.55
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (14 bp):
GTCAACGATCAAAG
Found at i:11089 original size:15 final size:15
Alignment explanation
Indices: 11071--11104 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11061 GGGTTTGGAC
11071 TTGGTTCAATTGGGT
1 TTGGTTCAATTGGGT
* *
11086 TTGGTTCACTTTGGT
1 TTGGTTCAATTGGGT
11101 TTGG
1 TTGG
11105 GCTTGAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.32, T:0.50
Consensus pattern (15 bp):
TTGGTTCAATTGGGT
Found at i:17124 original size:3 final size:3
Alignment explanation
Indices: 17118--17151 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
17108 CAAAAATCAA
17118 AAT AAT AAT AAT AAT AAT AAT AAT -AT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17152 GTAAATTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18231 original size:13 final size:13
Alignment explanation
Indices: 18178--18224 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
18168 TTTTTTGAAA
18178 AAAGTCAACGATC
1 AAAGTCAACGATC
18191 AAAGTCAACGATC
1 AAAGTCAACGATC
* *
18204 ACAGCCAACGATC
1 AAAGTCAACGATC
18217 AAAGTCAA
1 AAAGTCAA
18225 TGGTCAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.13
Consensus pattern (13 bp):
AAAGTCAACGATC
Found at i:18276 original size:15 final size:15
Alignment explanation
Indices: 18258--18291 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18248 GGGTTTGGAC
18258 TTGGTTCAATTGGGT
1 TTGGTTCAATTGGGT
* *
18273 TTGGTTCACTTTGGT
1 TTGGTTCAATTGGGT
18288 TTGG
1 TTGG
18292 GCTTGAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.32, T:0.50
Consensus pattern (15 bp):
TTGGTTCAATTGGGT
Found at i:20823 original size:22 final size:23
Alignment explanation
Indices: 20793--20835 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
20783 AAATTTAGTT
20793 TTTATATTTTT-TATTTTCAAAAA
1 TTTATATTTTTAT-TTTTCAAAAA
20816 TTTA-ATTTTTATTTTTCAAA
1 TTTATATTTTTATTTTTCAAA
20836 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTATATTTTTATTTTTCAAAAA
Found at i:21535 original size:19 final size:19
Alignment explanation
Indices: 21490--21551 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
21480 ATATCTCTTA
21490 ATAAAAATTACAAAATAATTTT
1 ATAAAAATT-CAAAAT--TTTT
21512 -T-AAAATTCAAAATTTTT
1 ATAAAAATTCAAAATTTTT
* *
21529 ATAAAAATTTTAAAATTTGT
1 ATAAAAA-TTCAAAATTTTT
21549 ATA
1 ATA
21552 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 10 0.29
20 19 0.54
21 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
ATAAAAATTCAAAATTTTT
Found at i:29694 original size:27 final size:26
Alignment explanation
Indices: 29664--29726 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
29654 TTTTGATCAC
29664 TTATTTTT-TTCTTTTCAAAAATTAATT
1 TTATTTTTCTT-TTTT-AAAAATTAATT
*
29691 TTATTTTTCTTTTTTTAAAATTAATT
1 TTATTTTTCTTTTTTAAAAATTAATT
*
29717 TTAGTTTTCT
1 TTATTTTTCT
29727 CAAGGGAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 19 0.58
27 12 0.36
28 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (26 bp):
TTATTTTTCTTTTTTAAAAATTAATT
Found at i:34747 original size:51 final size:50
Alignment explanation
Indices: 34611--34750 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 50
34601 ATAAACTATT
* ** *
34611 TTATTTATTATTTTATCTCAT-ATTAATTTAACTAATTTGAGATAAAATAA
1 TTATTTATTA-TTTATCTCTTAATTAATTTATTTAATTAGAGATAAAATAA
* * * * *
34661 TTATTTAATA-TTATCACTTAATTATTTTATTTTTAATTAGTGATAATATAA
1 TTATTTATTATTTATCTCTTAATTAATTTA--TTTAATTAGAGATAAAATAA
*
34712 TTTTTTATTATTTATCTCTTAATTAATTTGATTTAATTA
1 TTATTTATTATTTATCTCTTAATTAATTT-ATTTAATTA
34751 AAAATAATAA
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
48 7 0.10
49 8 0.11
50 9 0.12
51 31 0.43
52 16 0.22
53 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.56
Consensus pattern (50 bp):
TTATTTATTATTTATCTCTTAATTAATTTATTTAATTAGAGATAAAATAA
Found at i:39777 original size:23 final size:23
Alignment explanation
Indices: 39751--39803 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
39741 TTTTTTTTTT
*
39751 TTTACAAAATACCAATAACCCAA
1 TTTACAAAAGACCAATAACCCAA
** *
39774 TTTACCTAAGCCCAATAACCCAA
1 TTTACAAAAGACCAATAACCCAA
*
39797 ATTACAA
1 TTTACAA
39804 CCCCAAACTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (23 bp):
TTTACAAAAGACCAATAACCCAA
Found at i:41215 original size:3 final size:3
Alignment explanation
Indices: 41207--41262 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
41197 TCATGGTTGC
41207 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
41255 ATT ATT AT
1 ATT ATT AT
41263 AGTTTAATCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:41318 original size:15 final size:15
Alignment explanation
Indices: 41207--41318 Score: 95
Period size: 15 Copynumber: 7.4 Consensus size: 15
41197 TCATGGTTGC
*
41207 ATTATTATTATTATT
1 ATTATTATTACTATT
*
41222 ATTATTATTATTATT
1 ATTATTATTACTATT
*
41237 ATTATTATTATTATT
1 ATTATTATTACTATT
41252 ATTATTATTA-TAGTT
1 ATTATTATTACTA-TT
* *
41267 -TAATCATTACTATT
1 ATTATTATTACTATT
*
41281 -TTATTATCATCACCATT
1 ATTATTAT--T-ACTATT
* *
41298 AATATTATTCCTATT
1 ATTATTATTACTATT
41313 ATTATT
1 ATTATT
41319 TTTTATTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
14 16 0.20
15 53 0.65
16 2 0.02
17 5 0.06
18 6 0.07
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (15 bp):
ATTATTATTACTATT
Found at i:44176 original size:43 final size:44
Alignment explanation
Indices: 44115--44209 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 44
44105 AAAGGAAGTA
*
44115 AAAAAAAGGTCGAGATGAAAACCCGT-AAAGAGCATCTTGAAA-C
1 AAAAAAAGGTCGAGATGAAAACCCGTAAAAG-GCATCATGAAACC
44158 AAAAAAAGGTCGAGATGAAAACCCGTAAAAGGCATCATGAAACC
1 AAAAAAAGGTCGAGATGAAAACCCGTAAAAGGCATCATGAAACC
44202 ACAAAAAA
1 A-AAAAAA
44210 AGGTTTTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
43 36 0.75
44 6 0.12
45 6 0.12
ACGTcount: A:0.53, C:0.17, G:0.19, T:0.12
Consensus pattern (44 bp):
AAAAAAAGGTCGAGATGAAAACCCGTAAAAGGCATCATGAAACC
Found at i:50415 original size:17 final size:17
Alignment explanation
Indices: 50395--50449 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
50385 ATTGTCCCTA
*
50395 CATTATTAATGTCATTG
1 CATTATTATTGTCATTG
* *
50412 CATTTTTATTGTCGTTG
1 CATTATTATTGTCATTG
*
50429 CATCTA-CATTGTCATTG
1 CAT-TATTATTGTCATTG
50446 CATT
1 CATT
50450 TCCATATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (17 bp):
CATTATTATTGTCATTG
Found at i:51059 original size:16 final size:16
Alignment explanation
Indices: 51013--51060 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
51003 CTCAGTCACT
**
51013 TGAAAAAGAAAAATGA
1 TGAAAAAGAAAAAAAA
* *
51029 -GAAAAAGGAAGAAAA
1 TGAAAAAGAAAAAAAA
51044 TGAAAAAGAAAAAAAA
1 TGAAAAAGAAAAAAAA
51060 T
1 T
51061 TTAAATGTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (16 bp):
TGAAAAAGAAAAAAAA
Found at i:53467 original size:7 final size:7
Alignment explanation
Indices: 53457--53497 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
53447 GAAAGAAAAG
53457 AAAAGAA
1 AAAAGAA
53464 AAAAGAA
1 AAAAGAA
*
53471 AATAGAAA
1 AAAAG-AA
53479 ACAAAGAA
1 A-AAAGAA
53487 AAAAGAA
1 AAAAGAA
53494 AAAA
1 AAAA
53498 AAATGAGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 21 0.70
8 6 0.20
9 3 0.10
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:53467 original size:12 final size:12
Alignment explanation
Indices: 53452--53500 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
53442 AAGGGGAAAG
53452 AAAAGAAAAGAA
1 AAAAGAAAAGAA
* *
53464 AAAAGAAAATAG
1 AAAAGAAAAGAA
*
53476 AAAA-CAAAGAA
1 AAAAGAAAAGAA
53487 AAAAGAAAA-AA
1 AAAAGAAAAGAA
53498 AAA
1 AAA
53501 TGAGAGGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 13 0.43
12 17 0.57
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:53486 original size:16 final size:16
Alignment explanation
Indices: 53457--53495 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
53447 GAAAGAAAAG
53457 AAAAG-AAA-AAAGAA
1 AAAAGAAAACAAAGAA
*
53471 AATAGAAAACAAAGAA
1 AAAAGAAAACAAAGAA
53487 AAAAGAAAA
1 AAAAGAAAA
53496 AAAAATGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.19
15 3 0.14
16 14 0.67
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAGAAAACAAAGAA
Found at i:54636 original size:50 final size:49
Alignment explanation
Indices: 54445--54673 Score: 142
Period size: 50 Copynumber: 4.6 Consensus size: 49
54435 GTTGTAAAAG
* * * * *
54445 GCAAATCTTATCTGCCTAAAGATGCAGTGTAGCAAGATGAAGTTATGGCA
1 GCAAATCTTATCT-CCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAGAA
* * * * * *
54495 TCAAATCTTATATCCCTAAAGTTCCAATGGAGCAAAATG-AGACTATAAAA
1 GCAAATCTTATCT-CCTAAAGTTGCAGTGGAGCAAGATGAAG-CTATAGAA
* * * * * ***
54545 CCAAATCCTATACCCCTAAATTTTCAGTGG-GTTGGATTGAAGCTATAGAA
1 GCAAATCTTAT-CTCCTAAAGTTGCAGTGGAGCAAGA-TGAAGCTATAGAA
* *
54595 GCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACA-ACA
1 GCAAATCTTATCTCC-TAAAGTTGCAGTGGAGCAAGATGAAGCTATAGA-A
* *
54645 TCAAATCCTATATCT-CTGAAGTTGCAGTG
1 GCAAAT-CT-TATCTCCTAAAGTTGCAGTG
54674 AATCGATTTG
Statistics
Matches: 135, Mismatches: 35, Indels: 18
0.72 0.19 0.10
Matches are distributed among these distances:
49 8 0.06
50 114 0.84
51 8 0.06
52 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (49 bp):
GCAAATCTTATCTCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAGAA
Found at i:54650 original size:150 final size:151
Alignment explanation
Indices: 54387--54667 Score: 343
Period size: 150 Copynumber: 1.9 Consensus size: 151
54377 GGAGTGAAGT
* * * *
54387 TATAACACCAAATCCTATACCCCTGAAGTTACAGCTGGTCCGATTAAAGTTGTAAAAGGCAAATC
1 TATAAAACCAAATCCTATACCCCTAAAGTTACAGCTGGTCCGATTAAAGCTATAAAAGGCAAATC
* * *** *
54452 TTATCTGCCTAAAGATGCAGTGTAGCAAGATGAAGTTATGGCATCAAATCTTATATCCCTAAAGT
66 TTATCTGCCTAAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTAAAGT
54517 TCCAATGGAGCAAAATGAGAC
131 TCCAATGGAGCAAAATGAGAC
* * ** * *
54538 TATAAAACCAAATCCTATACCCCTAAATTTTCAG-TGGGTTGGATTGAAGCTATAGAA-GCAAAT
1 TATAAAACCAAATCCTATACCCCTAAAGTTACAGCT-GGTCCGATTAAAGCTATAAAAGGCAAAT
* * * *
54601 CTTATCT-CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCTCTGAA
65 CTTATCTGCC-TAAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTAAA
54665 GTT
129 GTT
54668 GCAGTGAATC
Statistics
Matches: 108, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
149 2 0.02
150 61 0.56
151 45 0.42
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (151 bp):
TATAAAACCAAATCCTATACCCCTAAAGTTACAGCTGGTCCGATTAAAGCTATAAAAGGCAAATC
TTATCTGCCTAAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTAAAGT
TCCAATGGAGCAAAATGAGAC
Found at i:54673 original size:100 final size:99
Alignment explanation
Indices: 54496--54865 Score: 289
Period size: 100 Copynumber: 3.7 Consensus size: 99
54486 GTTATGGCAT
* * * * * * *
54496 CAAATCTTATATCCCTAAAGTTCCAATGGAGCAAAATG-AGACTATAAAACCAAATCCTATACCC
1 CAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAAATGAAG-CTACAACACCAAATCCTATACCT
* *
54560 CTAAATTTTCAGTGGGTTGGATTGAAGCTATAGAAG
65 CTAAAGTTGCAGT-GGTTGGATTGAAGCTATAGAAG
* * * *
54596 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCTC
1 CAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAAATGAAGCTACAACACCAAATCCTATACCTC
* ** * * *
54661 TGAAGTTGCAGTGAATCGATTTGAAGCTATGGAAA
66 TAAAGTTGCAGTGGTTGGA-TTGAAGCTATAGAAG
* * * * * *
54696 CAAATTTTTATCT-CTCTGTAGTTTCAATAGAGCAAAATGAAGCTACCATACCAAATCCTATACC
1 CAAA-TCTTATCTCCT-TGAAGTTGCAATGGAGCAAAATGAAGCTACAACACCAAATCCTATACC
* * * * *
54760 TCTAAAGTTGTAATAGGTCGGATTAAAGTTATAGAAG
64 TCTAAAGTTGCAGT-GGTTGGATTGAAGCTATAGAAG
* * ** * * ** *
54797 TAAATCTTATCTCCCTT-AAGATGCGGTGGAGCAAGATGAAGTTATGACATCAAATCCTATATCC
1 CAAATCTTATCT-CCTTGAAGTTGCAATGGAGCAAAATGAAGCTACAACACCAAATCCTATA-CC
54861 T-TAAA
64 TCTAAA
54866 ACTAGATTAG
Statistics
Matches: 208, Mismatches: 54, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
99 4 0.02
100 122 0.59
101 77 0.37
102 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (99 bp):
CAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAAATGAAGCTACAACACCAAATCCTATACCTC
TAAAGTTGCAGTGGTTGGATTGAAGCTATAGAAG
Found at i:75831 original size:18 final size:18
Alignment explanation
Indices: 75810--75853 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
75800 ACATATATAC
*
75810 ACATATGTATGTATGTAT
1 ACATATGTATATATGTAT
**
75828 ACATACATATATATGTAT
1 ACATATGTATATATGTAT
*
75846 ATATATGT
1 ACATATGT
75854 GTGTGTGTGT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (18 bp):
ACATATGTATATATGTAT
Found at i:80575 original size:37 final size:36
Alignment explanation
Indices: 80534--80664 Score: 131
Period size: 37 Copynumber: 3.6 Consensus size: 36
80524 AGTATGAAGC
* *
80534 CTGCTAAGCACATAGCTCGATTACACCGACACAAAG
1 CTGCTAAGCACATAGCTCGAATACACCGGCACAAAG
* *
80570 TCTGCTACA-TACATAGCTCGAATACACCGGCATAAAG
1 -CTGCTA-AGCACATAGCTCGAATACACCGGCACAAAG
* * *
80607 CATGTTAAGTACATAGC-CTGAATACACCGGCTCAAAG
1 C-TGCTAAGCACATAGCTC-GAATACACCGGCACAAAG
*
80644 CCTGCTAGGCACATAGCTCGA
1 -CTGCTAAGCACATAGCTCGA
80665 TTACTTAAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
36 3 0.04
37 72 0.92
38 3 0.04
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (36 bp):
CTGCTAAGCACATAGCTCGAATACACCGGCACAAAG
Found at i:90990 original size:45 final size:46
Alignment explanation
Indices: 90927--91027 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 46
90917 TTATTTCACG
* *
90927 AAATTTTTTTATATTTTTAAAAACAGCTGAGAATGGGATAAGTGTT
1 AAATTTATTTATATTTTTAAAAACAACTGAGAATGGGATAAGTGTT
* * * * * *
90973 AAATTTATTTATA-TTTTAAAAATAATTGAGGATGTGATACGTTTT
1 AAATTTATTTATATTTTTAAAAACAACTGAGAATGGGATAAGTGTT
91018 AAATTTATTT
1 AAATTTATTT
91028 TTTTATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 35 0.74
46 12 0.26
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (46 bp):
AAATTTATTTATATTTTTAAAAACAACTGAGAATGGGATAAGTGTT
Found at i:96260 original size:12 final size:10
Alignment explanation
Indices: 96229--96255 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
96219 TTTTGCTCTC
96229 CCAATCTTTT
1 CCAATCTTTT
96239 CCAATCTTTT
1 CCAATCTTTT
96249 CCAATCT
1 CCAATCT
96256 CTTTTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (10 bp):
CCAATCTTTT
Found at i:97776 original size:23 final size:23
Alignment explanation
Indices: 97748--98036 Score: 182
Period size: 23 Copynumber: 12.6 Consensus size: 23
97738 ATGTGTCAAG
*
97748 TATTAATGTGATTTAAGCTTAAA
1 TATTAATGTGATTTATGCTTAAA
*
97771 TATTAATATGATTTATGCTTAAA
1 TATTAATGTGATTTATGCTTAAA
*
97794 TATTAATGCGATTTATGCTTAAA
1 TATTAATGTGATTTATGCTTAAA
*
97817 TATTAATGTGATTTTTG-TTGAAA
1 TATTAATGTGATTTATGCTT-AAA
* * * * *
97840 TATTTATTTGATTAAATG--TGAC
1 TATTAATGTGATT-TATGCTTAAA
* *
97862 TA--AATGTGATTAAATTTGGTTAAA
1 TATTAATGTGATT---TATGCTTAAA
* * *
97886 TGTGATTATATGTGATATGTGATTAAA
1 --T-ATTA-ATGTGATTTATGCTTAAA
* * * * *
97913 T-GTGAT-T-ATATATG-TCAAG
1 TATTAATGTGATTTATGCTTAAA
**
97932 TATTAATGTGATTTAAACTTAAA
1 TATTAATGTGATTTATGCTTAAA
* * *
97955 TGTTAATATAATTTATGCTTAAA
1 TATTAATGTGATTTATGCTTAAA
97978 TATTAATGTGATTTATGCTTAAA
1 TATTAATGTGATTTATGCTTAAA
* *
98001 TATTAATGTGATTTGTGCTGAAA
1 TATTAATGTGATTTATGCTTAAA
* *
98024 TATTCATTTGATT
1 TATTAATGTGATT
98037 AAATGTAATT
Statistics
Matches: 205, Mismatches: 45, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.02
20 16 0.08
21 2 0.01
22 14 0.07
23 146 0.71
24 4 0.02
25 1 0.00
26 1 0.00
27 9 0.04
29 1 0.00
30 7 0.03
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (23 bp):
TATTAATGTGATTTATGCTTAAA
Found at i:97867 original size:10 final size:10
Alignment explanation
Indices: 97848--97920 Score: 89
Period size: 10 Copynumber: 7.6 Consensus size: 10
97838 AATATTTATT
97848 TGATTAAATG
1 TGATTAAATG
*
97858 TGACTAAATG
1 TGATTAAATG
*
97868 TGATTAAATT
1 TGATTAAATG
*
97878 TGGTTAAATG
1 TGATTAAATG
*
97888 TGATTATATG
1 TGATTAAATG
97898 TGA-T--ATG
1 TGATTAAATG
97905 TGATTAAATG
1 TGATTAAATG
97915 TGATTA
1 TGATTA
97921 TATATGTCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 1 0.02
10 45 0.85
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (10 bp):
TGATTAAATG
Found at i:97907 original size:17 final size:17
Alignment explanation
Indices: 97848--97918 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 17
97838 AATATTTATT
97848 TGATTAAATGTGACTAAATG
1 TGATTAAATGTGA-T--ATG
* *
97868 TGATTAAATTTGGTTAAATG
1 TGATTAAA--T-GTGATATG
*
97888 TGATTATATGTGATATG
1 TGATTAAATGTGATATG
97905 TGATTAAATGTGAT
1 TGATTAAATGTGAT
97919 TATATATGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
17 19 0.45
18 1 0.02
20 18 0.43
22 1 0.02
23 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.21, T:0.42
Consensus pattern (17 bp):
TGATTAAATGTGATATG
Found at i:98039 original size:184 final size:185
Alignment explanation
Indices: 97719--98056 Score: 561
Period size: 184 Copynumber: 1.8 Consensus size: 185
97709 TATCATAAAT
* * * *
97719 TGTGTTTAAAAGTGATTATATGTGTCAAGTATTAATGTGATTTAAGCTTAAATATTAATATGATT
1 TGTGATTAAAAGTGATTATATATGTCAAGTATTAATGTGATTTAAACTTAAATATTAATATAATT
* * *
97784 TATGCTTAAATATTAATGCGATTTATGCTTAAATATTAATGTGATTTTTGTTGAAATATTTATTT
66 TATGCTTAAATATTAATGCGATTTATGCTTAAATATTAATGTGATTTGTGCTGAAATATTCATTT
*
97849 GATTAAATGTGACTAA-ATGTGATTAAATTTGGTTAAATGTGATTATATGTGATA
131 GATTAAATGTAACTAATATGTGATTAAATTTGGTTAAATGTGATTATATGTGATA
* *
97903 TGTGATTAAATGTGATTATATATGTCAAGTATTAATGTGATTTAAACTTAAATGTTAATATAATT
1 TGTGATTAAAAGTGATTATATATGTCAAGTATTAATGTGATTTAAACTTAAATATTAATATAATT
*
97968 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATGTGATTTGTGCTGAAATATTCATTT
66 TATGCTTAAATATTAATGCGATTTATGCTTAAATATTAATGTGATTTGTGCTGAAATATTCATTT
*
98033 GATTAAATGTAATTAATATGTGAT
131 GATTAAATGTAACTAATATGTGAT
98057 GTGATAAATG
Statistics
Matches: 141, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
184 134 0.95
185 7 0.05
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.46
Consensus pattern (185 bp):
TGTGATTAAAAGTGATTATATATGTCAAGTATTAATGTGATTTAAACTTAAATATTAATATAATT
TATGCTTAAATATTAATGCGATTTATGCTTAAATATTAATGTGATTTGTGCTGAAATATTCATTT
GATTAAATGTAACTAATATGTGATTAAATTTGGTTAAATGTGATTATATGTGATA
Found at i:98083 original size:23 final size:23
Alignment explanation
Indices: 97969--98151 Score: 92
Period size: 23 Copynumber: 7.9 Consensus size: 23
97959 AATATAATTT
* **
97969 ATGCTTAAATATTAATGTGATTT
1 ATGCTGAAATATTAATGTGATAA
* **
97992 ATGCTTAAATATTAATGTGATTT
1 ATGCTGAAATATTAATGTGATAA
* * *
98015 GTGCTGAAATATTCATTTGATTAA
1 ATGCTGAAATATTAATGTGA-TAA
* *
98039 ATG-TAATTAATATGTGATGTGATAA
1 ATGCTGA--AATAT-TAATGTGATAA
*
98064 ATGCTGAAATATTCATGTGACT-A
1 ATGCTGAAATATTAATGTGA-TAA
* *
98087 ATG-TG--AT-TAAATATGACTAA
1 ATGCTGAAATATTAATGTGA-TAA
98107 ATG-TGATTAATATGTAATGTGATAA
1 ATGCTGA--AATAT-TAATGTGATAA
* *
98132 ATGTTGAAATATTCATGTGA
1 ATGCTGAAATATTAATGTGA
98152 CTAATGTGAT
Statistics
Matches: 128, Mismatches: 18, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
19 8 0.06
20 8 0.06
22 2 0.02
23 59 0.46
24 16 0.12
25 18 0.14
26 17 0.13
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
ATGCTGAAATATTAATGTGATAA
Found at i:98105 original size:19 final size:19
Alignment explanation
Indices: 98081--98133 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
98071 AATATTCATG
98081 TGACTAATGTGATTAAATA
1 TGACTAATGTGATTAAATA
98100 TGACTAAATGTGATT-AATA
1 TGACT-AATGTGATTAAATA
98119 TG--TAATGTGA-TAAAT
1 TGACTAATGTGATTAAAT
98134 GTTGAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.03
16 10 0.31
17 1 0.03
19 11 0.34
20 9 0.28
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (19 bp):
TGACTAATGTGATTAAATA
Found at i:98130 original size:68 final size:68
Alignment explanation
Indices: 98036--98181 Score: 238
Period size: 68 Copynumber: 2.1 Consensus size: 68
98026 TTCATTTGAT
* *
98036 TAAATGTAATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGTGATTAAATAT
1 TAAATGTGATTAATATGTAATGTGATAAATGCTGAAATATTCATGTGACTAATGTGATTAAATAT
98101 GAC
66 GAC
* *
98104 TAAATGTGATTAATATGTAATGTGATAAATGTTGAAATATTCATGTGACTAATGTGATTAAATGT
1 TAAATGTGATTAATATGTAATGTGATAAATGCTGAAATATTCATGTGACTAATGTGATTAAATAT
*
98169 GAT
66 GAC
*
98172 TATATGTGAT
1 TAAATGTGAT
98182 CAAATGTGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.39
Consensus pattern (68 bp):
TAAATGTGATTAATATGTAATGTGATAAATGCTGAAATATTCATGTGACTAATGTGATTAAATAT
GAC
Found at i:98169 original size:10 final size:10
Alignment explanation
Indices: 98154--98200 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
98144 TCATGTGACT
98154 AATGTGATTA
1 AATGTGATTA
98164 AATGTGATTA
1 AATGTGATTA
* *
98174 TATGTGATCA
1 AATGTGATTA
98184 AATGTGATTA
1 AATGTGATTA
98194 ATATGTG
1 A-ATGTG
98201 TTATGTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 27 0.84
11 5 0.16
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (10 bp):
AATGTGATTA
Found at i:98180 original size:20 final size:20
Alignment explanation
Indices: 98146--98200 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
98136 TGAAATATTC
* *
98146 ATGTGACTA-ATGTGATTAA
1 ATGTGATTATATGTGATCAA
98165 ATGTGATTATATGTGATCAA
1 ATGTGATTATATGTGATCAA
98185 ATGTGATTAATATGTG
1 ATGTGATT-ATATGTG
98201 TTATGTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.25
20 17 0.53
21 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.40
Consensus pattern (20 bp):
ATGTGATTATATGTGATCAA
Found at i:98226 original size:78 final size:77
Alignment explanation
Indices: 98078--98235 Score: 185
Period size: 78 Copynumber: 2.0 Consensus size: 77
98068 TGAAATATTC
*
98078 ATGTGACTAATGTGATTAAATATGACTAAATGTGATTAATATGTAATGTGATAAATGTTGAAATA
1 ATGTGACTAATGTGATTAAATATGACTAAATGTGATTAATATGTAATATGATAAATGTTGAAATA
*
98143 TTCATGTGACTA
66 CTCATGTGACTA
* * * ** *
98155 ATGTGATTAAATGTGATTATATGTGA-TCAAATGTGATTAATATGTGTTATGTTAAATGCTT-AA
1 ATGTGACT-AATGTGATTAAATATGACT-AAATGTGATTAATATGTAATATGATAAATG-TTGAA
* *
98218 GTACTCATGTGATTA
63 ATACTCATGTGACTA
98233 ATG
1 ATG
98236 CAATTAATGT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 8 0.12
78 58 0.85
79 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (77 bp):
ATGTGACTAATGTGATTAAATATGACTAAATGTGATTAATATGTAATATGATAAATGTTGAAATA
CTCATGTGACTA
Found at i:99518 original size:77 final size:77
Alignment explanation
Indices: 99391--99542 Score: 232
Period size: 77 Copynumber: 2.0 Consensus size: 77
99381 GTAATCAAGT
* * * * * *
99391 AGAGAATTAAACCTTTACATTTGATGCAATCTGAGGTAGCATCGTAGAGAATGTGTCCAATTGTC
1 AGAGAATTAAACCTTCACATGTAATGCAATCCGAGATAGCATCATAGAGAATGTGTCCAATTGTC
99456 ACACCCCAAAGC
66 ACACCCCAAAGC
* *
99468 AGAGAATTACACCTTCACATGTAATGCAATCCGAGATAGCATCATCGAGAATGTGTCCAATTGTC
1 AGAGAATTAAACCTTCACATGTAATGCAATCCGAGATAGCATCATAGAGAATGTGTCCAATTGTC
99533 ACACCCCAAA
66 ACACCCCAAA
99543 AACTATGTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 67 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (77 bp):
AGAGAATTAAACCTTCACATGTAATGCAATCCGAGATAGCATCATAGAGAATGTGTCCAATTGTC
ACACCCCAAAGC
Found at i:100772 original size:18 final size:17
Alignment explanation
Indices: 100739--100798 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
100729 TTAAACTTTT
* *
100739 TTTAGATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
100756 TTTAAATTTGTTTTTAAA
1 TTTAAATTT-ATTTTAAA
*
100774 TTAAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
100791 TTTAAATT
1 TTTAAATT
100799 AATAATGTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
17 22 0.61
18 14 0.39
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:107582 original size:39 final size:37
Alignment explanation
Indices: 107451--108208 Score: 163
Period size: 39 Copynumber: 19.5 Consensus size: 37
107441 CAAATTGAAG
* * ***
107451 ATCTCTTACCCCGAGCTTAGGGTTGATTACAGCCGTTCA
1 ATCTCTTACCTCGAGCTTGGGGCAAATT-CA-CCGTTCA
* * * *
107490 ATCTTTTACCCCGAGCATGGGGCAGATCATCACCAG-T-A
1 ATCTCTTACCTCGAGCTTGGGGCAAAT--TCACC-GTTCA
* * * *
107528 ATCTTTTACCCCGAGCTTGGGGTAAATTGCAGCCGTTCG
1 ATCTCTTACCTCGAGCTTGGGGCAAATT-CA-CCGTTCA
** * *
107567 ATCTCTTACCTCGAGCTTAAGGCAAATCATCATCAG-CCA
1 ATCTCTTACCTCGAGCTTGGGGCAAAT--TCA-CCGTTCA
* * * * * *
107606 ATCTCTTA-CTCCGAACCTGGAGCAGATTGCAACCATTCG
1 ATCTCTTACCT-CGAGCTTGGGGCAAATT-C-ACCGTTCA
* * * * *
107645 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
1 ATCTCTTACCTCGAGCTTGGGGCAAAT--TCACCGTTCA
* *
107684 ATCTCTTACCTCGAGCTTGGGGCAAATTGCATCTGTTCG
1 ATCTCTTACCTCGAGCTTGGGGCAAATT-CA-CCGTTCA
* * *
107723 ATCTCTTACCCCGAGCATGGGGCAAATCATCACCATTCA
1 ATCTCTTACCTCGAGCTTGGGGCAAAT--TCACCGTTCA
* * * * * *
107762 ATCTCTTACCTTGAGCCTAGGACAGATTATAGCCGTTCA
1 ATCTCTTACCTCGAGCTTGGGGCAAATT-CA-CCGTTCA
* * * * *
107801 ATCTCTTACCTAGAGCTTGAGGCAGATCATCATCAG-CCA
1 ATCTCTTACCTCGAGCTTGGGGCAAAT--TCA-CCGTTCA
* * ** * *** *
107840 ATCTCTTA-CTCCGAACCTGAAGCAGATTGCAATTATTCG
1 ATCTCTTACCT-CGAGCTTGGGGCAAATT-C-ACCGTTCA
* * *
107879 ATCTCTTACCCCGAGCATGGGGCAGACCATCTC-CAG-TCA
1 ATCTCTTACCTCGAGCTTGGGGCA-A--AT-TCACCGTTCA
* * * *
107918 ATCTCTTACCCCGAGCTTGAGGCAGATTGCAACCGTTCG
1 ATCTCTTACCTCGAGCTTGGGGCAAATT-C-ACCGTTCA
* * * * *
107957 ATCTCTTACCACGAGCCTGAGGCAAATCATCATCAG-CCA
1 ATCTCTTACCTCGAGCTTGGGGCAAAT--TCA-CCGTTCA
* * * *
107996 ATCTCTTA-CTCCGAACTTGGAGCAAATTGCAACCATTCG
1 ATCTCTTACCT-CGAGCTTGGGGCAAATT-C-ACCGTTCA
* * * * *
108035 ATCTCTTACCTCGAGCCTGAGACAGATCATCATCAG-TCA
1 ATCTCTTACCTCGAGCTTGGGGCAAAT--TCA-CCGTTCA
* * * * * * * * **
108074 ATCTCTTACCCCGAACCTAGAGTAGATTGCAACCATTTG
1 ATCTCTTACCTCGAGCTTGGGGCAAATT-C-ACCGTTCA
* * *
108113 ATCTCTTACCCCGAGCTTGGGGCAAA-TCACCATTATTTA
1 ATCTCTTACCTCGAGCTTGGGGCAAATTCACC---GTTCA
* * * * *
108152 ATCTCTTACCTCGAGCTTGGAGCAGATTGTAACCATTCG
1 ATCTCTTACCTCGAGCTTGGGGCA-AAT-TCACCGTTCA
108191 ATCTCTTACCTCGAGCTT
1 ATCTCTTACCTCGAGCTT
108209 CAGGTAGATC
Statistics
Matches: 528, Mismatches: 134, Indels: 114
0.68 0.17 0.15
Matches are distributed among these distances:
35 1 0.00
36 7 0.01
37 10 0.02
38 46 0.09
39 426 0.81
40 23 0.04
41 7 0.01
42 7 0.01
43 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
ATCTCTTACCTCGAGCTTGGGGCAAATTCACCGTTCA
Found at i:107646 original size:78 final size:77
Alignment explanation
Indices: 107490--108573 Score: 915
Period size: 78 Copynumber: 13.9 Consensus size: 77
107480 CAGCCGTTCA
* * * * * * * * * *
107490 ATCTTTTACCCCGAGCATGGGGCAGATCATCACCAGT-AATCTTTTACCCCGAGCTTGGGGTAAA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTA-CCCGAGCCTGGAGCAGA
* *
107554 TTGCAGCCGTTCG
65 TTGCAACCATTCG
* * * * *
107567 ATCTCTTACCTCGAGCTTAAGGCAAATCATCATCAGCCAATCTCTTACTCCGAACCTGGAGCAGA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTAC-CCGAGCCTGGAGCAGA
107632 TTGCAACCATTCG
65 TTGCAACCATTCG
* * * * * *
107645 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCAATCTCTTACCTCGAGCTTGGGGCAAA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTACC-CGAGCCTGGAGCAGA
* **
107710 TTGCATCTGTTCG
65 TTGCAACCATTCG
* * * * * * *
107723 ATCTCTTACCCCGAGCATGGGGCAAATCATCACCATTCAATCTCTTACCTTGAGCCTAGGA-CAG
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTACC-CGAGCCT-GGAGCAG
** * * *
107787 ATTATAGCCGTTCA
64 ATTGCAACCATTCG
* * * * *
107801 ATCTCTTACCTAGAGCTTGAGGCAGATCATCATCAGCCAATCTCTTACTCCGAACCTGAAGCAGA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTAC-CCGAGCCTGGAGCAGA
**
107866 TTGCAATTATTCG
65 TTGCAACCATTCG
* * * * *
107879 ATCTCTTACCCCGAGCATGGGGCAGACCATC-TCCAGTCAATCTCTTACCCCGAG-CTTGAGGCA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCAT-CAGTCAATCTCTTA-CCCGAGCCTGGA-GCA
*
107942 GATTGCAACCGTTCG
63 GATTGCAACCATTCG
* * * * * *
107957 ATCTCTTACCACGAGCCTGAGGCAAATCATCATCAGCCAATCTCTTACTCCGAACTTGGAGCAAA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTAC-CCGAGCCTGGAGCAGA
108022 TTGCAACCATTCG
65 TTGCAACCATTCG
* * * *
108035 ATCTCTTACCTCGAGCCTGAGACAGATCATCATCAGTCAATCTCTTACCCCGAACCTAGAGTAGA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTA-CCCGAGCCTGGAGCAGA
*
108100 TTGCAACCATTTG
65 TTGCAACCATTCG
* * * * * * * * *
108113 ATCTCTTACCCCGAGCTTGGGGCAAATCACCATTATTTAATCTCTTACCTCGAGCTTGGAGCAGA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTACC-CGAGCCTGGAGCAGA
*
108178 TTGTAACCATTCG
65 TTGCAACCATTCG
* * * * * * * *
108191 ATCTCTTACCTCGAGCTTCAGGTAGATCATCATTAGCCAATCTCTTACTCCGAACCTAGAGCAAA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTAC-CCGAGCCTGGAGCAGA
*
108256 TTGTAACCATTCG
65 TTGCAACCATTCG
* * * * * *
108269 ATCTCTTACTTCGAGCCGGAGGTAGATTATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTA-CCCGAGCCTGGAGCAGA
108334 TTGCAACCATTCG
65 TTGCAACCATTCG
* * ** * *
108347 ATCTCTTACCTCGAGCCGGAGGCAG-TCATCATTAACCGATCTCTTAAACCGAGCCT-GAGGCAG
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTT-ACCCGAGCCTGGA-GCAG
* *
108410 ATTGCAGCCATCCG
64 ATTGCAACCATTCG
* * ** * * * * * * *
108424 ATCTTTTACCCCGAGTTTGGGGCAGATCACCATCAGTAAATATCTTACCCGGAGCCCGGGGTAGA
1 ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTACCC-GAGCCTGGAGCAGA
**
108489 TTGCAGTCATTCG
65 TTGCAACCATTCG
* * * * *
108502 ATCCCTTACCTCGAGCCTAAGGCA-AGTCATCATTA-TCAATCTCTTACCCCGAGCCTGGGGCAA
1 ATCTCTTACCTCGAGCCTGAGGCAGA-TCATCATCAGTCAATCTCTTA-CCCGAGCCTGGAGCAG
*
108565 ATTACAACC
64 ATTGCAACC
108574 CTCTCACAAA
Statistics
Matches: 807, Mismatches: 177, Indels: 46
0.78 0.17 0.04
Matches are distributed among these distances:
76 1 0.00
77 128 0.16
78 666 0.83
79 12 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (77 bp):
ATCTCTTACCTCGAGCCTGAGGCAGATCATCATCAGTCAATCTCTTACCCGAGCCTGGAGCAGAT
TGCAACCATTCG
Found at i:107866 original size:234 final size:235
Alignment explanation
Indices: 107451--108558 Score: 1049
Period size: 234 Copynumber: 4.7 Consensus size: 235
107441 CAAATTGAAG
* * ** * * * * * *
107451 ATCTCTTACCCCGAGCTTAGGGTTGATTACAGCCGTTCAATCTTTTACCCCGAGCATGGGGCAGA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAACCGTTCGATCTCTTACCCCGAGCATGAGGCAAA
* * * * * * * *
107516 TCATCACCAG-TAATCTTTTACCCCGAG-CTTGGGGTAAATTGCAGCCGTTCGATCTCTTACCTC
66 TCATCACCAGCCAATCTCTTACTCCGAGCCTAGGAGCAAATTGCAACCATTCGATCTCTTACCTC
* * * * *
107579 GAGCTTAAGGCAAATCATCATCAGCCAATCTCTTACTCCGAACCTGGAGCAGATTGCAACCATTC
131 GAGCCTGAGGCAGATCATCATCAGCCAATCTCTTACCCCGAACCTGAAGCAGATTGCAACCATTC
107644 GATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
196 GATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
* * * *
107684 ATCTCTTACCTCGAGCTTGGGGCAAATTGCATCTGTTCGATCTCTTACCCCGAGCATGGGGCAAA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAACCGTTCGATCTCTTACCCCGAGCATGAGGCAAA
** * * ** * * *
107749 TCATCACCATTCAATCTCTTAC-CTTGAGCCTAGGA-CAGATTATAGCCGTTCAATCTCTTACCT
66 TCATCACCAGCCAATCTCTTACTC-CGAGCCTAGGAGCAAATTGCAACCATTCGATCTCTTACCT
* * * **
107812 AGAGCTTGAGGCAGATCATCATCAGCCAATCTCTTACTCCGAACCTGAAGCAGATTGCAATTATT
130 CGAGCCTGAGGCAGATCATCATCAGCCAATCTCTTACCCCGAACCTGAAGCAGATTGCAACCATT
* * *
107877 CGATCTCTTACCCCGAGCATGGGGCAGACCATC-TCCAGTCA
195 CGATCTCTTACCCCGAGCCTGGGGCAGATCATCAT-CATTCA
* * * *
107918 ATCTCTTACCCCGAGCTTGAGGCAGATTGCAACCGTTCGATCTCTTACCACGAGCCTGAGGCAAA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAACCGTTCGATCTCTTACCCCGAGCATGAGGCAAA
* * *
107983 TCATCATCAGCCAATCTCTTACTCCGA-ACTTGGAGCAAATTGCAACCATTCGATCTCTTACCTC
66 TCATCACCAGCCAATCTCTTACTCCGAGCCTAGGAGCAAATTGCAACCATTCGATCTCTTACCTC
* * *
108047 GAGCCTGAGACAGATCATCATCAGTCAATCTCTTACCCCGAACCT-AGAGTAGATTGCAACCATT
131 GAGCCTGAGGCAGATCATCATCAGCCAATCTCTTACCCCGAACCTGA-AGCAGATTGCAACCATT
* * * * * *
108111 TGATCTCTTACCCCGAGCTTGGGGCAAATCACCATTATTTA
195 CGATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
* * * * * * * *
108152 ATCTCTTACCTCGAGCTTGGAGCAGATTGTAACCATTCGATCTCTTACCTCGAGCTTCAGGTAGA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAACCGTTCGATCTCTTACCCCGAGCATGAGGCAAA
** * * *
108217 TCATCATTAGCCAATCTCTTACTCCGAACCTA-GAGCAAATTGTAACCATTCGATCTCTTACTTC
66 TCATCACCAGCCAATCTCTTACTCCGAGCCTAGGAGCAAATTGCAACCATTCGATCTCTTACCTC
* * * * **
108281 GAGCCGGAGGTAGATTATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTC
131 GAGCCTGAGGCAGATCATCATCAGCCAATCTCTTACCCCGAACCTGAAGCAGATTGCAACCATTC
* * ** *
108346 GATCTCTTACCTCGAGCC-GGAGGCAG-TCATCATTAACCG
196 GATCTCTTACCCCGAGCCTGG-GGCAGATCATCATCATTCA
* * * * * * * ** * *
108385 ATCTCTTAAAC-CGAGCCTGAGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGTTTGGGGCAG
1 ATCTCTT-ACCTCGAGCTTGGGGCAGATTGCAACCGTTCGATCTCTTACCCCGAGCATGAGGCAA
* * ** * * * * * ** *
108449 ATCACCATCAGTAAATATCTTAC-CCGGAGCC-CGGGGTAGATTGCAGTCATTCGATCCCTTACC
65 ATCATCACCAGCCAATCTCTTACTCC-GAGCCTAGGAGCAAATTGCAACCATTCGATCTCTTACC
* * * *
108512 TCGAGCCTAAGGCA-AGTCATCATTA-TCAATCTCTTACCCCGAGCCTG
129 TCGAGCCTGAGGCAGA-TCATCATCAGCCAATCTCTTACCCCGAACCTG
108559 GGGCAAATTA
Statistics
Matches: 726, Mismatches: 134, Indels: 31
0.81 0.15 0.03
Matches are distributed among these distances:
232 24 0.03
233 191 0.26
234 503 0.69
235 8 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (235 bp):
ATCTCTTACCTCGAGCTTGGGGCAGATTGCAACCGTTCGATCTCTTACCCCGAGCATGAGGCAAA
TCATCACCAGCCAATCTCTTACTCCGAGCCTAGGAGCAAATTGCAACCATTCGATCTCTTACCTC
GAGCCTGAGGCAGATCATCATCAGCCAATCTCTTACCCCGAACCTGAAGCAGATTGCAACCATTC
GATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
Found at i:108976 original size:17 final size:17
Alignment explanation
Indices: 108951--109061 Score: 150
Period size: 17 Copynumber: 6.5 Consensus size: 17
108941 CTAAACCTTT
* *
108951 TTTAGATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
108968 TTTAAATTTGTTTTTAAA
1 TTTAAATTT-ATTTTAAA
*
108986 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
109003 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
109020 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
109037 TTTAAATTTATTCTAAA
1 TTTAAATTTATTTTAAA
109054 TTTAAATT
1 TTTAAATT
109062 AATAATGTCC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
17 67 0.82
18 15 0.18
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:108989 original size:6 final size:6
Alignment explanation
Indices: 108980--109061 Score: 84
Period size: 6 Copynumber: 14.3 Consensus size: 6
108970 TAAATTTGTT
* * *
108980 TTTAAA TTTAAA TTT-AT TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
109026 TTT-AA TTTAAG TTTAAA TTT--A TTCTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TT
109062 AATAATGTCC
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
4 3 0.05
5 14 0.22
6 43 0.68
7 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:109006 original size:11 final size:11
Alignment explanation
Indices: 109003--109057 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
108993 TTATTTTAAG
109003 TTTAAATTTAT
1 TTTAAATTTAT
*
109014 TTTAAATTTAAA
1 TTTAAATTT-AT
*
109026 TTT-AATTTAAG
1 TTTAAATTT-AT
109037 TTTAAATTTAT
1 TTTAAATTTAT
*
109048 TCTAAATTTA
1 TTTAAATTTA
109058 AATTAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 29 0.76
12 9 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:109022 original size:34 final size:34
Alignment explanation
Indices: 108951--109061 Score: 177
Period size: 34 Copynumber: 3.2 Consensus size: 34
108941 CTAAACCTTT
* *
108951 TTTAGATTTATTTTAAGTTTAAATTTGTTTTTAAA
1 TTTAAATTTATTTTAAGTTTAAATTT-ATTTTAAA
108986 TTTAAATTTATTTTAAGTTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAGTTTAAATTTATTTTAAA
* *
109020 TTTAAATTTAATTTAAGTTTAAATTTATTCTAAA
1 TTTAAATTTATTTTAAGTTTAAATTTATTTTAAA
109054 TTTAAATT
1 TTTAAATT
109062 AATAATGTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
34 47 0.65
35 25 0.35
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.58
Consensus pattern (34 bp):
TTTAAATTTATTTTAAGTTTAAATTTATTTTAAA
Found at i:110840 original size:30 final size:30
Alignment explanation
Indices: 110801--110905 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 30
110791 GTCTCTGAAC
* * * *
110801 TTTCTAAAATCATATTTTAACCCCTACACT
1 TTTCCAAAATCACATCTTAACCCCTAAACT
*
110831 TTTCCAAAATCACATCTTGACCCCTAAACT
1 TTTCCAAAATCACATCTTAACCCCTAAACT
* * *
110861 TCTCAAAAAAAT-ACATTTTAA-CCCTAAACT
1 TTTC--CAAAATCACATCTTAACCCCTAAACT
* * *
110891 TCTCAAAAATTACAT
1 TTTCCAAAATCACAT
110906 TTTTGCTCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.10
29 4 0.06
30 41 0.65
31 7 0.11
32 5 0.08
ACGTcount: A:0.39, C:0.27, G:0.01, T:0.33
Consensus pattern (30 bp):
TTTCCAAAATCACATCTTAACCCCTAAACT
Found at i:110946 original size:57 final size:59
Alignment explanation
Indices: 110856--111138 Score: 214
Period size: 57 Copynumber: 4.9 Consensus size: 59
110846 CTTGACCCCT
*
110856 AAACTTCTCAAAAAAATACA-TTTTAACCCTAAACTTCTCAAAAATTACATTTTTGCTCTC
1 AAACTTCTC-AAAAAATACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTTGC-CTC
* *
110916 AAACTTC-CAAAAACTACA-TTTT-CCCCTAAACTTTTCAAAAATTACATTTTTGCC-C
1 AAACTTCTCAAAAAATACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTTGCCTC
* * * * * * * * *
110971 TGAACTT-TTAAAAATTGCATTTTT-TCCATCGAAC-TCTTAAAAATTACATTTTTGCCCC
1 -AAACTTCTCAAAAAATACATTTTTACCCCT-AAACTTCTCAAAAATTACATTTTTGCCTC
* * ** *
111029 TAAAC-TCTCAAAAAATACATTTTTACCCTTAAAGTTC-CAAAAATTACATTTTCACCCC
1 -AAACTTCTCAAAAAATACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTTGCCTC
* * * * * *
111087 GAACTT-T-AAAAAATCACATTTTTATCCCAAAATTTC-CCAAAATGACATTTTT
1 AAACTTCTCAAAAAAT-ACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTT
111139 ACCCTTAAAA
Statistics
Matches: 182, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
55 1 0.01
56 21 0.12
57 91 0.50
58 56 0.31
59 6 0.03
60 7 0.04
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.36
Consensus pattern (59 bp):
AAACTTCTCAAAAAATACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTTGCCTC
Found at i:111098 original size:28 final size:28
Alignment explanation
Indices: 110798--111172 Score: 216
Period size: 29 Copynumber: 12.9 Consensus size: 28
110788 AAAGTCTCTG
* * * *
110798 AACTTTCTAAAATCATATTTTAACCCCTA
1 AACTTTCAAAAATTACATTTTTACCCC-A
* * * * *
110827 CACTTTTCCAAAATCACATCTTGACCCCTA
1 AAC-TTTCAAAAATTACATTTTTACCCC-A
* * *
110857 AACTTCTCAAAAAAATACATTTTAACCCTA
1 AACTT-TC-AAAAATTACATTTTTACCCCA
* *
110887 AACTTCTCAAAAATTACATTTTTGCTCTCA
1 AACTT-TCAAAAATTACATTTTTAC-CCCA
* *
110917 AACTTCCAAAAACTACA-TTTT-CCCCTA
1 AACTTTCAAAAATTACATTTTTACCCC-A
* **
110944 AACTTTTCAAAAATTACATTTTTGCCCTG
1 AAC-TTTCAAAAATTACATTTTTACCCCA
* * * * *
110973 AACTTTTAAAAATTGCATTTTTTCCATCG
1 AACTTTCAAAAATTACATTTTTACC-CCA
*
111002 AACTCTT-AAAAATTACATTTTTGCCCCTA
1 AACT-TTCAAAAATTACATTTTTACCCC-A
* * *
111031 AACTCTCAAAAAATACATTTTTACCCTTA
1 AACTTTCAAAAATTACATTTTTACCC-CA
* * * *
111060 AAGTTCCAAAAATTACATTTTCACCCCG
1 AACTTTCAAAAATTACATTTTTACCCCA
* * *
111088 AACTTTAAAAAATCACATTTTTATCCCA
1 AACTTTCAAAAATTACATTTTTACCCCA
* * * *
111116 AAATTTCCCAAAATGACATTTTTACCCTTAA
1 AACTTT-CAAAAATTACATTTTTACCC--CA
* *
111147 AACTTTCTAAAATTACATTTTAACCC
1 AACTTTCAAAAATTACATTTTTACCC
111173 TAGACTCTTC
Statistics
Matches: 269, Mismatches: 61, Indels: 31
0.75 0.17 0.09
Matches are distributed among these distances:
26 2 0.01
27 5 0.02
28 63 0.23
29 115 0.43
30 64 0.24
31 20 0.07
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (28 bp):
AACTTTCAAAAATTACATTTTTACCCCA
Found at i:111106 original size:86 final size:84
Alignment explanation
Indices: 110836--111172 Score: 270
Period size: 86 Copynumber: 3.9 Consensus size: 84
110826 ACACTTTTCC
* *
110836 AAAATCACATCTTGACCCCTAAACTTCTCAAAAAAATACATTTTAACCCTAAACTTCTCAAAAAT
1 AAAATCACATTTTG-CCCCTAAACTTCTC-AAAAAATACATTTTTACCCTAAACTTC-CAAAAAT
* * * *
110901 TACATTTTTGCTCTCAAACTTCCA
63 TACATTTTTAC-CCCGAACTT-TA
* * * * ** *
110925 AAAA-CTACATTTT-CCCCTAAACTTTTCAAAAATTACATTTTTGCCCTGAACTTTTAAAAATTG
1 AAAATC-ACATTTTGCCCCTAAACTTCTCAAAAAATACATTTTTACCCTAAACTTCCAAAAATTA
* *
110988 CATTTTTTCCATCGAACTCTTA
65 CATTTTTACC-CCGAACT-TTA
* *
111010 AAAATTACATTTTTGCCCCTAAAC-TCTCAAAAAATACATTTTTACCCTTAAAGTTCCAAAAATT
1 AAAATCACA-TTTTGCCCCTAAACTTCTCAAAAAATACATTTTTACCC-TAAACTTCCAAAAATT
*
111074 ACATTTTCACCCCGAACTTTAA
64 ACATTTTTACCCCGAACTTT-A
** * ** * *
111096 AAAATCACATTTTTATCCC-AAAATT-TCCCAAAATGACATTTTTACCCTTAAAACTTTCTAAAA
1 AAAATCACA-TTTTGCCCCTAAACTTCTCAAAAAAT-ACATTTTTACCC-T-AAACTTCCAAAAA
*
111159 TTACATTTTAACCC
62 TTACATTTTTACCC
111173 TAGACTCTTC
Statistics
Matches: 203, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
84 1 0.00
85 41 0.20
86 85 0.42
87 65 0.32
88 1 0.00
89 10 0.05
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (84 bp):
AAAATCACATTTTGCCCCTAAACTTCTCAAAAAATACATTTTTACCCTAAACTTCCAAAAATTAC
ATTTTTACCCCGAACTTTA
Found at i:111614 original size:97 final size:97
Alignment explanation
Indices: 111448--111641 Score: 273
Period size: 97 Copynumber: 2.0 Consensus size: 97
111438 AAAATATTTA
* * * * *
111448 AAATCGAGGTAATATTCCTTTATTTCGGGTTTTGAAAATTCGTGTCTTAACTTACTAGGCGCGAT
1 AAATCGAGGCAATATTCCTTTATTTCGGGTTGTGAAAATTCGTGCCTTAACTTACTAGGCACGAC
* *
111513 TTTTCTTCT-AACCGTGATAATCAAATGCCCTT
66 TTTTCTT-TAAACCGGGATAATCAAATACCCTT
* * *
111545 AAATCGAGGCAATATTCCTTTATTTTGGGTTGTGAAAATTTGTGCCTTAACTTATTAGGCACGAC
1 AAATCGAGGCAATATTCCTTTATTTCGGGTTGTGAAAATTCGTGCCTTAACTTACTAGGCACGAC
*
111610 TTTTCTTTAAACCGGGATAATCGAATACCCTT
66 TTTTCTTTAAACCGGGATAATCAAATACCCTT
111642 TTTCAAGGTT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 1 0.01
97 84 0.99
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATTTCGGGTTGTGAAAATTCGTGCCTTAACTTACTAGGCACGAC
TTTTCTTTAAACCGGGATAATCAAATACCCTT
Found at i:118580 original size:6 final size:6
Alignment explanation
Indices: 118569--118598 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
118559 ATTATGCAGA
118569 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
118599 GTTTATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:118698 original size:92 final size:92
Alignment explanation
Indices: 118590--118774 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
118580 TATAAATATA
118590 AATATAAATGTTTATGTTTACCATTATAACCAAAACATCAATTGATTTTTATATGAATTTTTAAC
1 AATATAAATGTTTATGTTTACCATTATAACCAAAACATCAATTGATTTTTATATGAATTTTTAAC
118655 GAATATTTTTGTTACATAAATTTTTCT
66 GAATATTTTTGTTACATAAATTTTTCT
118682 AATATAAATGTTTATGTTTACCATTATAACCAAAACATCAATTGATTTTTATATGAATTTTTAAC
1 AATATAAATGTTTATGTTTACCATTATAACCAAAACATCAATTGATTTTTATATGAATTTTTAAC
118747 GAATATTTTTGTTACATAAATTTTTCT
66 GAATATTTTTGTTACATAAATTTTTCT
118774 A
1 A
118775 CTTACATCAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.46
Consensus pattern (92 bp):
AATATAAATGTTTATGTTTACCATTATAACCAAAACATCAATTGATTTTTATATGAATTTTTAAC
GAATATTTTTGTTACATAAATTTTTCT
Found at i:119171 original size:16 final size:16
Alignment explanation
Indices: 119150--119203 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
119140 TTTGGTTTAC
119150 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGA
* *
119166 TGTAATGAAATAGAGT
1 TGTAATGGAATAGAGA
*
119182 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGA
119198 TGTAAT
1 TGTAAT
119204 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGA
Found at i:119449 original size:61 final size:58
Alignment explanation
Indices: 119373--119537 Score: 179
Period size: 61 Copynumber: 2.8 Consensus size: 58
119363 TTGTTATTAA
* * * * *
119373 ATTTTAAAAAAATTATTATCAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAAAATAATTATTATAAAATATAATTTAATAAAAAT---AATAAATAATTTAATAAC
* * *
119434 ATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATAAC
1 ATTTTAAAATAATTATTATAAAATATAATTTAATAAAAATAATAAATAATTTAATAAC
* * *
119491 ATTCTTAATATAATTATTATTAAAATATAAATTAATAAAAATCATAA
1 ATT-TTAAAATAATTATTA-TAAAATATAATTTAATAAAAATAATAA
119538 TATATAATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
57 18 0.20
58 14 0.16
59 14 0.16
60 13 0.15
61 30 0.34
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (58 bp):
ATTTTAAAATAATTATTATAAAATATAATTTAATAAAAATAATAAATAATTTAATAAC
Found at i:119526 original size:39 final size:41
Alignment explanation
Indices: 119471--119555 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 41
119461 ATTTAATAAA
* * * * * *
119471 ATAATATATAATTTAATAACATTCTTAATATA-ATTATTAT
1 ATAAAATATAAATTAATAAAAATCATAATATATAATATTAT
119511 -TAAAATATAAATTAATAAAAATCATAATATATAATATTAT
1 ATAAAATATAAATTAATAAAAATCATAATATATAATATTAT
119551 ATAAA
1 ATAAA
119556 TAATATATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
39 26 0.70
40 7 0.19
41 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (41 bp):
ATAAAATATAAATTAATAAAAATCATAATATATAATATTAT
Found at i:119556 original size:24 final size:23
Alignment explanation
Indices: 119515--119564 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
119505 TATTATTAAA
*
119515 ATATAAATTAATAAAAATCATAAT
1 ATATAAATTAATAAAAATAAT-AT
*
119539 ATATAATATT-ATATAAATAATAT
1 ATATAA-ATTAATAAAAATAATAT
119562 ATA
1 ATA
119565 ACCTACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 15 0.65
25 3 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATAAATTAATAAAAATAATAT
Found at i:120040 original size:43 final size:43
Alignment explanation
Indices: 119986--120327 Score: 380
Period size: 43 Copynumber: 8.0 Consensus size: 43
119976 AACGTCGCTA
* *
119986 AACATGGTCTTTAGCGGTGCTTTTCCAACAAACGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
*
120029 AACATGGTCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
* * * *
120072 AACAT-GACATTTAGTGGCACTTTTCCCACAAATGCCGCTAAAG
1 AACATGGTC-TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
** ** **
120115 AACATGGTCTTTAGTAGCGCTTTTCATACAAACATCGCTAAAG
1 AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
* * ** *
120158 AACATGATCTTTAGCGGCACTTTTCATACAAATGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
* * *
120201 AATATGGTCTTTAGTGGCGCTTATCCCACAAACGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
* * * *
120244 AACATGGTCTTTAACGGCGCTTTTCCCACAAACACCACTAAAA
1 AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
* * * ** * *
120287 AACATGATATTTAGCAGCATTTTTACCACAAACGCCTCTAA
1 AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
120328 CATTAACAGA
Statistics
Matches: 250, Mismatches: 47, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
42 2 0.01
43 246 0.98
44 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
AACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
Found at i:120633 original size:29 final size:30
Alignment explanation
Indices: 120601--120663 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
120591 GAAGCTGTAG
*
120601 CTGC-AGTTCGTCATACTTTCTTTGAGACT
1 CTGCAAGTTCATCATACTTTCTTTGAGACT
* *
120630 CTGCAAGTTCATCATATTTTCTTTGAGTCT
1 CTGCAAGTTCATCATACTTTCTTTGAGACT
120660 CTGC
1 CTGC
120664 TTCTCTCGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (30 bp):
CTGCAAGTTCATCATACTTTCTTTGAGACT
Found at i:126233 original size:8 final size:8
Alignment explanation
Indices: 126220--126245 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
126210 TAATTGTTTT
126220 TAATTAAA
1 TAATTAAA
126228 TAATTAAA
1 TAATTAAA
126236 TAATTAAA
1 TAATTAAA
126244 TA
1 TA
126246 TTTGGGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:126459 original size:112 final size:111
Alignment explanation
Indices: 126343--126701 Score: 520
Period size: 112 Copynumber: 3.1 Consensus size: 111
126333 ATGATTAGAT
* *
126343 TTAAATAATTAAATATTTGGATTGTTTTCAATAATTAAATTTTTAATTGAATATAATTAAATAAT
1 TTAAATAATTAAATATTTGGATTGTTTT-AATAATTAAATATTTAATTAAATATAATTAAATAAT
126408 TAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAA
65 TAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAA
* *
126455 TTAAATAATTAAATATTTGGGTTGCTTTTAATTATTAAATATTTAATTAAATATAATTAAATAAT
1 TTAAATAATTAAATATTTGGATTG-TTTTAATAATTAAATATTTAATTAAATATAATTAAATAAT
**
126520 TAAATATTTTGGCATAAATATTTGGGTTGTTTTTAATAATTAACTAA
65 TAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAA
* * *
126567 TTAAATAATTAAAGAATTAAATATTTGAGTTGTTTTTAATAATTACATATTTAATTCAATATAAT
1 TTAAATAATT--A-AA-T--AT-TTGGA-TTG-TTTTAATAATTAAATATTTAATTAAATATAAT
* *
126632 TAAATAATTAAATATTTTGAAATAAATATTTGAGTTGTTTTTAATAATTCACTAA
57 TAAATAATTAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAA
126687 TTAAATAATTAAATA
1 TTAAATAATTAAATA
126702 ATTAAATATT
Statistics
Matches: 222, Mismatches: 16, Indels: 16
0.87 0.06 0.06
Matches are distributed among these distances:
112 111 0.50
113 4 0.02
114 2 0.01
115 2 0.01
116 2 0.01
117 2 0.01
118 3 0.01
119 3 0.01
120 93 0.42
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (111 bp):
TTAAATAATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATT
AAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAA
Found at i:126554 original size:70 final size:64
Alignment explanation
Indices: 126464--126712 Score: 173
Period size: 64 Copynumber: 3.9 Consensus size: 64
126454 ATTAAATAAT
* * *
126464 TAAATATTTGGGTTGCTTTTAATTATTAAATATTTAATTAAATATAATTAAATAATTAAATATTT
1 TAAATATTTGGGTTGCTTTTAATAATT--A-A-CTAATT-AA-ATAATTAAAGAATTAAATATTT
126529 TGGCA
60 TGGCA
*
126534 TAAATATTTGGGTTGTTTTTAATAATTAACTAATTAAATAATTAAAGAATTAAATA-TTT-G-A
1 TAAATATTTGGGTTGCTTTTAATAATTAACTAATTAAATAATTAAAGAATTAAATATTTTGGCA
* ** * *
126595 GT---TGTTT---TTAATAATTACAT-ATT---TAATTCAATATAATTAAATAATTAAATATTTT
1 -TAAATATTTGGGTTGCT-TTTA-ATAATTAACTAATT-AA-ATAATTAAAGAATTAAATATTTT
**
126650 GAAA
61 GGCA
* * * *
126654 TAAATATTTGAGTTGTTTTTAATAATTCACTAATTAAATAATTAAATAATTAAATATTT
1 TAAATATTTGGGTTGCTTTTAATAATTAACTAATTAAATAATTAAAGAATTAAATATTT
126713 GAGTTGTTTT
Statistics
Matches: 147, Mismatches: 14, Indels: 42
0.72 0.07 0.21
Matches are distributed among these distances:
54 5 0.03
55 2 0.01
56 21 0.14
57 9 0.06
58 3 0.02
59 5 0.03
61 5 0.03
62 4 0.03
63 9 0.06
64 43 0.29
65 4 0.03
66 10 0.07
67 1 0.01
68 1 0.01
70 25 0.17
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (64 bp):
TAAATATTTGGGTTGCTTTTAATAATTAACTAATTAAATAATTAAAGAATTAAATATTTTGGCA
Found at i:126576 original size:120 final size:120
Alignment explanation
Indices: 126343--126740 Score: 598
Period size: 120 Copynumber: 3.4 Consensus size: 120
126333 ATGATTAGAT
* * *
126343 TTAAATAATTAAATATTTG-GATTGTTTTCAATAATTAAATTTTTAATTGAATATAATTAAATAA
1 TTAAATAATTAAATATTTGAG-TTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAA
126407 TTAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAAC--------TAA
65 TTAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAATTAAATAA
* * *
126455 TTAAATAATTAAATATTTGGGTTGCTTTTAATTATTAAATATTTAATTAAATATAATTAAATAAT
1 TTAAATAATTAAATATTTGAGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAAT
**
126520 TAAATATTTTGGCATAAATATTTGGGTTGTTTTTAATAATTAACTAATTAAATAA
66 TAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAATTAAATAA
* * *
126575 TTAAAGAATTAAATATTTGAGTTGTTTTTAATAATTACATATTTAATTCAATATAATTAAATAAT
1 TTAAATAATTAAATATTTGAGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAAT
* *
126640 TAAATATTTTGAAATAAATATTTGAGTTGTTTTTAATAATTCACTAATTAAATAA
66 TAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAATTAAATAA
*
126695 TTAAATAATTAAATATTTGAGTTGTTTTTAATTATTAAATATTTAA
1 TTAAATAATTAAATATTTGAGTTGTTTTTAATAATTAAATATTTAA
126741 ATATTTAAAT
Statistics
Matches: 257, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
112 100 0.39
113 1 0.00
120 156 0.61
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (120 bp):
TTAAATAATTAAATATTTGAGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAAT
TAAATATTTTGAAATAAATATTTGGGTTGTTTTTAATAATTAACTAATTAAATAA
Found at i:126579 original size:8 final size:8
Alignment explanation
Indices: 126554--126589 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
126544 GGTTGTTTTT
126554 AATAATTA
1 AATAATTA
*
126562 ACTAATTA
1 AATAATTA
126570 AATAATTA
1 AATAATTA
*
126578 AAGAATTA
1 AATAATTA
126586 AATA
1 AATA
126590 TTTGAGTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
AATAATTA
Found at i:126602 original size:50 final size:55
Alignment explanation
Indices: 126534--126648 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 55
126524 TATTTTGGCA
*
126534 TAAATATTTGGGTTGTTTTTAATAATT-A-A-CTAATT-AA-ATAATTAAAGAAT
1 TAAATATTTGAGTTGTTTTTAATAATTAATATCTAATTCAATATAATTAAAGAAT
* *
126584 TAAATATTTGAGTTGTTTTTAATAATTACATATTTAATTCAATATAATTAAATAAT
1 TAAATATTTGAGTTGTTTTTAATAATTA-ATATCTAATTCAATATAATTAAAGAAT
126640 TAAATATTT
1 TAAATATTT
126649 TGAAATAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
50 26 0.46
52 1 0.02
53 1 0.02
54 5 0.09
55 2 0.04
56 21 0.38
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (55 bp):
TAAATATTTGAGTTGTTTTTAATAATTAATATCTAATTCAATATAATTAAAGAAT
Found at i:126695 original size:8 final size:8
Alignment explanation
Indices: 126674--126761 Score: 59
Period size: 8 Copynumber: 10.8 Consensus size: 8
126664 AGTTGTTTTT
*
126674 AATAATTC
1 AATAATTA
*
126682 ACTAATTA
1 AATAATTA
126690 AATAATTA
1 AATAATTA
126698 AATAATTA
1 AATAATTA
*
126706 AATATTTGA
1 AATAATT-A
** ** *
126715 GTTGTTTTT
1 AAT-AATTA
*
126724 AATTATTA
1 AATAATTA
*
126732 AATATTTA
1 AATAATTA
*
126740 AATATTTA
1 AATAATTA
126748 AATAATTA
1 AATAATTA
126756 AATAAT
1 AATAAT
126762 GATTTTGAGG
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
8 57 0.90
9 3 0.05
10 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (8 bp):
AATAATTA
Found at i:126709 original size:64 final size:68
Alignment explanation
Indices: 126554--126712 Score: 209
Period size: 70 Copynumber: 2.3 Consensus size: 68
126544 GGTTGTTTTT
* * * *
126554 AATAATTAACTAATTAAATAATTAAAGAATTAAATATTTGAGTTGTTTTTAATAATTACATATTT
1 AATAATTAAATAATTAAAT-ATT-TAGAAATAAATATTTGAGTTGTTTTTAATAATTACA-ATCT
126619 AATTCA
63 AATTCA
*
126625 ATATAATTAAATAATTAAATATTTTGAAATAAATATTTGAGTTGTTTTTAATAATT-C-A-CTAA
1 A-ATAATTAAATAATTAAATATTTAGAAATAAATATTTGAGTTGTTTTTAATAATTACAATCTAA
126687 TT-A
65 TTCA
126690 AATAATTAAATAATTAAATATTT
1 AATAATTAAATAATTAAATATTT
126713 GAGTTGTTTT
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
64 22 0.27
65 2 0.02
66 5 0.06
67 1 0.01
69 1 0.01
70 30 0.37
71 4 0.05
72 17 0.21
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (68 bp):
AATAATTAAATAATTAAATATTTAGAAATAAATATTTGAGTTGTTTTTAATAATTACAATCTAAT
TCA
Found at i:126719 original size:50 final size:50
Alignment explanation
Indices: 126627--126759 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
126617 TTAATTCAAT
* **
126627 ATAATTAAATAATTAAATATTTTGA-AA-TAAATATTTGAGTTGTTTTTA
1 ATAATTAAATAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTTA
* *
126675 ATAATTCACTAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTTA
1 ATAATTAAATAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTTA
* * *
126725 ATTATTAAATATTTAAATATTTAAATAATTAAATA
1 ATAATTAAATAATTAAATAATTAAATAATTAAATA
126760 ATGATTTTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 20 0.27
49 2 0.03
50 51 0.70
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (50 bp):
ATAATTAAATAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTTA
Found at i:126776 original size:50 final size:50
Alignment explanation
Indices: 126627--126781 Score: 118
Period size: 50 Copynumber: 3.1 Consensus size: 50
126617 TTAATTCAAT
* * ** * ***
126627 ATAATTAAATAATTAAATATTTTGA-AA-TAAATATTTGAGTTGTTTTTA
1 ATAATTAAATATTTAAATAATTAAATAATTAAATATATGAGTTGAGGTTA
* * * * ***
126675 ATAATTCACTAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTTA
1 ATAATTAAATATTTAAATAATTAAATAATTAAATATATGAGTTGAGGTTA
* * *
126725 ATTATTAAATATTTAAATATTTAAATAATTAAATA-ATGATTTTGAGGTTA
1 ATAATTAAATATTTAAATAATTAAATAATTAAATATATGA-GTTGAGGTTA
126775 ATAATTA
1 ATAATTA
126782 TTATTTATTT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 20 0.23
49 5 0.06
50 63 0.72
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (50 bp):
ATAATTAAATATTTAAATAATTAAATAATTAAATATATGAGTTGAGGTTA
Found at i:134958 original size:21 final size:21
Alignment explanation
Indices: 134944--134986 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
134934 AGAAGAGATG
*
134944 GCGTGAAGAAGAGAAGGGCGT
1 GCGTGAAGAAGAGAAGGACGT
* *
134965 GCGTGAAGAAGACAAGGGCGT
1 GCGTGAAGAAGAGAAGGACGT
134986 G
1 G
134987 AAGCAGAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.47, T:0.09
Consensus pattern (21 bp):
GCGTGAAGAAGAGAAGGACGT
Found at i:134965 original size:17 final size:17
Alignment explanation
Indices: 134934--134994 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 17
134924 GGAACGTTAG
*
134934 AGAAGAG-ATGGCGTGA
1 AGAAGAGAAGGGCGTGA
134950 AGAAGAGAAGGGCGTGCGTGA
1 AGAAGAGAA--G-G-GCGTGA
*
134971 AGAAGACAAGGGCGTGA
1 AGAAGAGAAGGGCGTGA
*
134988 AGCAGAG
1 AGAAGAG
134995 TAATTAGGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 7 0.19
17 12 0.33
18 1 0.03
19 1 0.03
20 1 0.03
21 14 0.39
ACGTcount: A:0.38, C:0.10, G:0.44, T:0.08
Consensus pattern (17 bp):
AGAAGAGAAGGGCGTGA
Found at i:136797 original size:41 final size:41
Alignment explanation
Indices: 136745--136973 Score: 223
Period size: 41 Copynumber: 5.6 Consensus size: 41
136735 TGGGAAACCA
* * * *
136745 CCGCTATTGCTC-AACCTTTAGCGGCGTTTCTCCCATAAATG
1 CCGCTAATGCTCTTACCTTTTGCGGCGTTT-TCCCATAAACG
* * **
136786 CCGCTAATGCTCTTACCTTTCGCGGCGTTTTCTCATAAGTG
1 CCGCTAATGCTCTTACCTTTTGCGGCGTTTTCCCATAAACG
* *
136827 CCACTAATGCTCTTACCTTTTGCGGCGTTTTCCCATAAACA
1 CCGCTAATGCTCTTACCTTTTGCGGCGTTTTCCCATAAACG
* * * ** *
136868 CCACTAATGCTCTTAGCTTTTGAGATGTTTTCTCATAAACG
1 CCGCTAATGCTCTTACCTTTTGCGGCGTTTTCCCATAAACG
* * *
136909 TCGCTAATGCTC-TACC-TTTGTGGTGTTTTTCCCATAAACG
1 CCGCTAATGCTCTTACCTTTTGCGGCG-TTTTCCCATAAACG
* *
136949 CCGCTATTTCT-TTACCTTTTGCGGC
1 CCGCTAATGCTCTTACCTTTTGCGGC
136974 ATTTATGGGA
Statistics
Matches: 156, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
39 7 0.04
40 28 0.18
41 106 0.68
42 15 0.10
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.37
Consensus pattern (41 bp):
CCGCTAATGCTCTTACCTTTTGCGGCGTTTTCCCATAAACG
Found at i:148987 original size:24 final size:24
Alignment explanation
Indices: 148930--148977 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
148920 CATTGGTAAG
148930 ATTCAATTTCTTTCACCAAGCCTT
1 ATTCAATTTCTTTCACCAAGCCTT
148954 ATTCAATTTCTTTCACCAAGCCTT
1 ATTCAATTTCTTTCACCAAGCCTT
148978 TCTTTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTCAATTTCTTTCACCAAGCCTT
Found at i:154006 original size:29 final size:31
Alignment explanation
Indices: 153958--154025 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 31
153948 TCATATTTTA
*
153958 ATAATAATTATATTAAAAATT-TATTAAATTAT
1 ATAAT-ATTATATT-AAAATTGTATTAAATAAT
*
153990 ATAATATTATATT-AAATTGTATTTAATAAT
1 ATAATATTATATTAAAATTGTATTAAATAAT
154020 A-AATAT
1 ATAATAT
154026 GTTAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 10 0.30
30 10 0.30
31 8 0.24
32 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
ATAATATTATATTAAAATTGTATTAAATAAT
Found at i:154012 original size:10 final size:10
Alignment explanation
Indices: 153963--154070 Score: 59
Period size: 10 Copynumber: 10.9 Consensus size: 10
153953 TTTTAATAAT
153963 AATTATATTAAA
1 AATTATATT--A
153975 AATT-TATTA
1 AATTATATTA
153984 AATTATA-TA
1 AATTATATTA
153993 ATATTATATTA
1 A-ATTATATTA
* *
154004 AATTGTATTT
1 AATTATATTA
154014 AA-TA-A-TA
1 AATTATATTA
*
154021 AA-TATGTTA
1 AATTATATTA
*
154030 AAATATAATTA
1 AATTAT-ATTA
154041 AATTAT-TTA
1 AATTATATTA
* *
154050 TTATTTTTATTA
1 --AATTATATTA
154062 AATTATATT
1 AATTATATT
154071 TAATAATAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
9 16 0.21
10 27 0.36
11 19 0.25
12 7 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
AATTATATTA
Found at i:154041 original size:57 final size:58
Alignment explanation
Indices: 153945--154096 Score: 166
Period size: 57 Copynumber: 2.6 Consensus size: 58
153935 GATTTTTACT
* *
153945 AATTCATATTTTAATAATAATTATATTAAAAATTTATTAAATTATATAATA-TTATATTA
1 AATT-ATA-TTTAATAATAAATATATTAAAAATTAATTAAATTATATAATATTTATATTA
* * * * *
154004 AATTGTATTTAATAATAAATATGTT-AAAATATAATTAAATTATTTATTATTTTTATTA
1 AATTATATTTAATAATAAATATATTAAAAAT-TAATTAAATTATATAATATTTATATTA
* *
154062 AATTATATTTAATAAT-AATCTTATTAAAATTTAAT
1 AATTATATTTAATAATAAAT-ATATTAAAAATTAAT
154097 AATAATAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
56 5 0.06
57 34 0.44
58 31 0.40
59 8 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (58 bp):
AATTATATTTAATAATAAATATATTAAAAATTAATTAAATTATATAATATTTATATTA
Found at i:154078 original size:58 final size:58
Alignment explanation
Indices: 153931--154096 Score: 169
Period size: 58 Copynumber: 2.9 Consensus size: 58
153921 ACATTATATA
* * * *
153931 TTATGATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATTTATTAAATTAT
1 TTATTATTTTTATTAAATT-ATA-TTTAATAATAAATATATTAAAAATTAATTAAATTAT
* * * * *
153990 ATAATA-TTATATTAAATTGTATTTAATAATAAATATGTT-AAAATATAATTAAATTAT
1 TTATTATTTTTATTAAATTATATTTAATAATAAATATATTAAAAAT-TAATTAAATTAT
* *
154047 TTATTATTTTTATTAAATTATATTTAATAAT-AATCTTATTAAAATTTAAT
1 TTATTATTTTTATTAAATTATATTTAATAATAAAT-ATATTAAAAATTAAT
154097 AATAATAATC
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
56 5 0.06
57 34 0.40
58 36 0.42
59 11 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (58 bp):
TTATTATTTTTATTAAATTATATTTAATAATAAATATATTAAAAATTAATTAAATTAT
Found at i:154292 original size:16 final size:16
Alignment explanation
Indices: 154252--154292 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
154242 TGAATTACTG
*
154252 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
154268 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
154284 ATTACAGCT
1 ATTACAGCT
154293 AACCAAACGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:155066 original size:60 final size:60
Alignment explanation
Indices: 154871--155269 Score: 503
Period size: 60 Copynumber: 6.6 Consensus size: 60
154861 TTCAACTCGT
* * * * *** *
154871 ATTTGATACTCACGATGACACAAAGTCAT-TGCACCTATAATCCATAAGAAGATTCATTTC
1 ATTTAATACTCACGATGACACAAAGTCATCAG-ACCTTTAATCCGTAATTGGATTCATTGC
* * * * *
154931 ATTTAAAACTCTCGATGACACAAAGTCATCGGACCCTTAAATCCGTAATTGGATTCATCGC
1 ATTTAATACTCACGATGACACAAAGTCATCAGA-CCTTTAATCCGTAATTGGATTCATTGC
* * * * * *
154992 ATTTAATACTCACAATGACACAAAGTCATCAGACCCTTAACCCGTGATTCGATTCATCGC
1 ATTTAATACTCACGATGACACAAAGTCATCAGACCTTTAATCCGTAATTGGATTCATTGC
* * *
155052 ATTTAATACTCACAATGACACAAAGTCATCGGACCTTTAATCCGTAATTTGATTCATTGC
1 ATTTAATACTCACGATGACACAAAGTCATCAGACCTTTAATCCGTAATTGGATTCATTGC
* *
155112 ATTTAATACTCACGATGACACAAAGTCATCAGACCTTTAATCTGTAATTGGATTCAATGC
1 ATTTAATACTCACGATGACACAAAGTCATCAGACCTTTAATCCGTAATTGGATTCATTGC
* * * *
155172 ATTTAATATTCACGATGACACAAAGTCATCAAAACTTTAATCCGTAATTGGATTTATTGC
1 ATTTAATACTCACGATGACACAAAGTCATCAGACCTTTAATCCGTAATTGGATTCATTGC
* *
155232 ATGTAATACTCACGATGACATAAAGTCATCAGACCTTT
1 ATTTAATACTCACGATGACACAAAGTCATCAGACCTTT
155270 TTGCATTTTC
Statistics
Matches: 294, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
60 245 0.83
61 49 0.17
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (60 bp):
ATTTAATACTCACGATGACACAAAGTCATCAGACCTTTAATCCGTAATTGGATTCATTGC
Found at i:158315 original size:21 final size:21
Alignment explanation
Indices: 158291--158330 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
158281 CTCGTAACCA
* *
158291 CAAACCTTTGAACCTTAAACT
1 CAAACCATTAAACCTTAAACT
*
158312 CAAATCATTAAACCTTAAA
1 CAAACCATTAAACCTTAAA
158331 TTTAAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.28
Consensus pattern (21 bp):
CAAACCATTAAACCTTAAACT
Found at i:158337 original size:21 final size:20
Alignment explanation
Indices: 158301--158345 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
158291 CAAACCTTTG
158301 AACCTTAAACTCAAATCATTA
1 AACCTTAAACTCAAAT-ATTA
* * *
158322 AACCTTAAATTTAAATATTG
1 AACCTTAAACTCAAATATTA
158342 AACC
1 AACC
158346 CGAATCTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (20 bp):
AACCTTAAACTCAAATATTA
Found at i:167329 original size:36 final size:36
Alignment explanation
Indices: 167282--167351 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
167272 ATATCCATCG
* *
167282 GTTTACTCGTTCTATTTTCCACTTTTTTTAATCTAT
1 GTTTACTCGTTCCATCTTCCACTTTTTTTAATCTAT
167318 GTTTACTCGTTCCATCTTCCACTTTTTTTAATCT
1 GTTTACTCGTTCCATCTTCCACTTTTTTTAATCT
167352 GTCTTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.16, C:0.23, G:0.06, T:0.56
Consensus pattern (36 bp):
GTTTACTCGTTCCATCTTCCACTTTTTTTAATCTAT
Found at i:167824 original size:18 final size:18
Alignment explanation
Indices: 167798--167832 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
167788 AAAGATATAT
* *
167798 TAATTAATAATATTATTA
1 TAATAAATAATAATATTA
167816 TAATAAATAATAATATT
1 TAATAAATAATAATATT
167833 TTATTATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:167844 original size:18 final size:19
Alignment explanation
Indices: 167795--167845 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
167785 TCAAAAGATA
167795 TATTAATTAATAATATTAT
1 TATTAATTAATAATATTAT
*
167814 TATAATAAATAATAATATT-T
1 TAT--TAATTAATAATATTAT
*
167834 TATTATTTAATA
1 TATTAATTAATA
167846 TTATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.26
19 3 0.11
20 4 0.15
21 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATTAATAATATTAT
Found at i:167847 original size:10 final size:10
Alignment explanation
Indices: 167842--167866 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
167832 TTTATTATTT
167842 AATATTATAA
1 AATATTATAA
167852 AATATTATAA
1 AATATTATAA
167862 AATAT
1 AATAT
167867 AAGAGAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AATATTATAA
Found at i:167859 original size:23 final size:23
Alignment explanation
Indices: 167806--167859 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
167796 ATTAATTAAT
167806 AATATTATTATAATAAATAATAA
1 AATATTATTATAATAAATAATAA
* * * *
167829 TATTTTATTAT-TTAATATTATAA
1 AATATTATTATAATAA-ATAATAA
167852 AATATTAT
1 AATATTAT
167860 AAAATATAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTATTATAATAAATAATAA
Found at i:169125 original size:62 final size:62
Alignment explanation
Indices: 169028--169153 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
169018 GCAATCCCAA
169028 TTCCCTAAGGGTCGTGGACTACTCTGATAGCCATCATTGCTGAACAACTCGGGGTGGCGGAT
1 TTCCCTAAGGGTCGTGGACTACTCTGATAGCCATCATTGCTGAACAACTCGGGGTGGCGGAT
169090 TTCCCTAAGGGTCGTGGACTACTCTGATAGCCATCATTGCTGAACAACTCGGGGTGGCGGAT
1 TTCCCTAAGGGTCGTGGACTACTCTGATAGCCATCATTGCTGAACAACTCGGGGTGGCGGAT
169152 TT
1 TT
169154 GTGTATTTGG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (62 bp):
TTCCCTAAGGGTCGTGGACTACTCTGATAGCCATCATTGCTGAACAACTCGGGGTGGCGGAT
Found at i:169720 original size:21 final size:22
Alignment explanation
Indices: 169696--169749 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
169686 AGAGCTATCT
*
169696 AAATCTGATA-TCGGGTGGTAA
1 AAATTTGATATTCGGGTGGTAA
*
169717 AAATTTGATGTATTGGGGTGGTAA
1 AAATTTGA--TATTCGGGTGGTAA
169741 AAATTTGAT
1 AAATTTGAT
169750 GTATTGTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 7 0.25
22 1 0.04
23 2 0.07
24 18 0.64
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (22 bp):
AAATTTGATATTCGGGTGGTAA
Found at i:169739 original size:24 final size:24
Alignment explanation
Indices: 169708--169755 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
169698 ATCTGATATC
169708 GGGTGGTAAAAATTTGATGTATTG
1 GGGTGGTAAAAATTTGATGTATTG
169732 GGGTGGTAAAAATTTGATGTATTG
1 GGGTGGTAAAAATTTGATGTATTG
169756 TGTATAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (24 bp):
GGGTGGTAAAAATTTGATGTATTG
Found at i:170967 original size:18 final size:18
Alignment explanation
Indices: 170944--170979 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
170934 ACTTCTGCAG
*
170944 CTCGAGGTCGTGGCAGTA
1 CTCGAGGTCGTGCCAGTA
*
170962 CTCGAGGTGGTGCCAGTA
1 CTCGAGGTCGTGCCAGTA
170980 GTAGAGGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.22, G:0.39, T:0.22
Consensus pattern (18 bp):
CTCGAGGTCGTGCCAGTA
Found at i:178947 original size:26 final size:26
Alignment explanation
Indices: 178911--179063 Score: 116
Period size: 26 Copynumber: 6.0 Consensus size: 26
178901 TATAAGATAT
*
178911 GCATAAATAAGTTGACGAGCGTAAAC
1 GCATAAATAAGCTGACGAGCGTAAAC
178937 GCATAAATAAGCTGACGAGCGTAAAC
1 GCATAAATAAGCTGACGAGCGTAAAC
**** * * ** *
178963 G--TGTGCAAGTTGATGAGTATAAAT
1 GCATAAATAAGCTGACGAGCGTAAAC
*
178987 GCATAAATAAGCTGACGAGCATAAA-
1 GCATAAATAAGCTGACGAGCGTAAAC
**** *
179012 -CATGTGCAAGCTGGCGAGCGTAAAC
1 GCATAAATAAGCTGACGAGCGTAAAC
* *
179037 GCATAAATAAGCCGATGAGCGTAAAC
1 GCATAAATAAGCTGACGAGCGTAAAC
179063 G
1 G
179064 GGTATAAGTT
Statistics
Matches: 93, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
24 33 0.35
26 60 0.65
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.19
Consensus pattern (26 bp):
GCATAAATAAGCTGACGAGCGTAAAC
Found at i:178994 original size:50 final size:50
Alignment explanation
Indices: 178923--179063 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 50
178913 ATAAATAAGT
* *
178923 TGACGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGCAAGT
1 TGACGAGCATAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGCAAGC
* * * * *
178973 TGATGAGTATAAATGCATAAATAAGCTGACGAGCATAAACATGTGCAAGC
1 TGACGAGCATAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGCAAGC
* * * *
179023 TGGCGAGCGTAAACGCATAAATAAGCCGATGAGCGTAAACG
1 TGACGAGCATAAACGCATAAATAAGCTGACGAGCGTAAACG
179064 GGTATAAGTT
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.18
Consensus pattern (50 bp):
TGACGAGCATAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGCAAGC
Found at i:179023 original size:24 final size:24
Alignment explanation
Indices: 178945--179036 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 24
178935 ACGCATAAAT
* *
178945 AAGCTGACGAGCGTAAACGTGTGC
1 AAGCTGACGAGCATAAACATGTGC
* * * ****
178969 AAGTTGATGAGTATAAATGCATAAAT
1 AAGCTGACGAGCATAAA--CATGTGC
178995 AAGCTGACGAGCATAAACATGTGC
1 AAGCTGACGAGCATAAACATGTGC
* *
179019 AAGCTGGCGAGCGTAAAC
1 AAGCTGACGAGCATAAAC
179037 GCATAAATAA
Statistics
Matches: 48, Mismatches: 18, Indels: 4
0.69 0.26 0.06
Matches are distributed among these distances:
24 32 0.67
26 16 0.33
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (24 bp):
AAGCTGACGAGCATAAACATGTGC
Found at i:182183 original size:51 final size:51
Alignment explanation
Indices: 182051--182237 Score: 261
Period size: 51 Copynumber: 3.7 Consensus size: 51
182041 AAACGAAAAA
* *
182051 GTCCGATAACTAAGCGTCATCATGAGTAAATGAATCCTTTAT-AGATTAAAG
1 GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGA-ATTAAAG
182102 GTCCG-TGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGAATTAAAG
1 GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGAATTAAAG
* * * *
182152 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAAG
1 GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGAATTAAAG
** * *
182203 GTCTAATGACTCAGTGTCATCATGAGTATATGAAT
1 GTCCGATGACTAAGTGTCATCATGAGTAAATGAAT
182238 TCCAATACGG
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
50 46 0.37
51 77 0.63
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (51 bp):
GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGAATTAAAG
Found at i:189383 original size:51 final size:50
Alignment explanation
Indices: 189302--189490 Score: 258
Period size: 51 Copynumber: 3.8 Consensus size: 50
189292 GCAATAAACG
*
189302 AAAGAGTCCGATGACTAAGCGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCC-TTACGGATT
*
189354 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT-CTT--GGCTT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTACGGATT
* * *
189401 AAAGGTCCGATGACTAAGTGCCATCGTGAGTAAATGAATCCATAACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCC-TTACGGATT
** *
189452 AAAGGTCCGATGACTCGGTGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
189491 TCCAATACGG
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
47 42 0.34
48 1 0.01
49 3 0.02
50 1 0.01
51 72 0.59
52 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (50 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTACGGATT
Found at i:189476 original size:98 final size:99
Alignment explanation
Indices: 189302--189490 Score: 299
Period size: 98 Copynumber: 1.9 Consensus size: 99
189292 GCAATAAACG
* * * *
189302 AAAGAGTCCGATGACTAAGCGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGA
1 AAAGAGTCCGATGACTAAGCGCCATCGTGAGTAAATGAATCCATAACGAATTAAAGGTCCGATGA
189367 CTAAGTGTCATCGTGAGTAAATGAATCTTGGCTT
66 CTAAGTGTCATCGTGAGTAAATGAATCTTGGCTT
*
189401 AAAG-GTCCGATGACTAAGTGCCATCGTGAGTAAATGAATCCATAACGAATTAAAGGTCCGATGA
1 AAAGAGTCCGATGACTAAGCGCCATCGTGAGTAAATGAATCCATAACGAATTAAAGGTCCGATGA
** *
189465 CTCGGTGTCATCGTGAGTATATGAAT
66 CTAAGTGTCATCGTGAGTAAATGAAT
189491 TCCAATACGG
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 78 0.95
99 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (99 bp):
AAAGAGTCCGATGACTAAGCGCCATCGTGAGTAAATGAATCCATAACGAATTAAAGGTCCGATGA
CTAAGTGTCATCGTGAGTAAATGAATCTTGGCTT
Found at i:190296 original size:21 final size:22
Alignment explanation
Indices: 190272--190331 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
190262 TAGTTGCATG
190272 ACTTGTATCGGTAGAAATTA-T
1 ACTTGTATCGGTAGAAATTAGT
*
190293 ACTTATATCGGTAG-AATTAGT
1 ACTTGTATCGGTAGAAATTAGT
***
190314 AAAGGTATCGGTAGAAAT
1 ACTTGTATCGGTAGAAAT
190332 CTACACAGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.16
21 24 0.75
22 3 0.09
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (22 bp):
ACTTGTATCGGTAGAAATTAGT
Found at i:192084 original size:10 final size:9
Alignment explanation
Indices: 192055--192085 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
192045 GTTAATTACA
192055 AAAATGGAG
1 AAAATGGAG
192064 AAAATGGAG
1 AAAATGGAG
192073 AAAATGGAAG
1 AAAATGG-AG
192083 AAA
1 AAA
192086 GAAACAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.10
Consensus pattern (9 bp):
AAAATGGAG
Found at i:193567 original size:17 final size:16
Alignment explanation
Indices: 193546--193586 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
193536 ATTACATGTG
193546 AAAAATAATAAAATAA
1 AAAAATAATAAAATAA
* *
193562 ATAAAATATTAAATTAA
1 A-AAAATAATAAAATAA
193579 AAAAATAA
1 AAAAATAA
193587 CCCTTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAATAAAATAA
Found at i:194746 original size:6 final size:7
Alignment explanation
Indices: 194719--194749 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
194709 TACATTTTAT
194719 ATAAAAA
1 ATAAAAA
194726 TATAAAAA
1 -ATAAAAA
194734 ATAAAAA
1 ATAAAAA
194741 ATAAAAA
1 ATAAAAA
194748 AT
1 AT
194750 TTGTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
ATAAAAA
Found at i:203490 original size:31 final size:31
Alignment explanation
Indices: 203455--203518 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
203445 AGACCTTAAA
203455 AATAGTTTAGAAGCAATTAGGGACCAATTTG
1 AATAGTTTAGAAGCAATTAGGGACCAATTTG
203486 AATAGTTTAGAAGCAATTAGGGACCAATTTG
1 AATAGTTTAGAAGCAATTAGGGACCAATTTG
203517 AA
1 AA
203519 ACAAAACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (31 bp):
AATAGTTTAGAAGCAATTAGGGACCAATTTG
Found at i:209773 original size:16 final size:16
Alignment explanation
Indices: 209749--209779 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
209739 TTTTAGCTTA
*
209749 AGAAGTAAAAGAGTTG
1 AGAAATAAAAGAGTTG
209765 AGAAATAAAAGAGTT
1 AGAAATAAAAGAGTT
209780 CCTTTGGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (16 bp):
AGAAATAAAAGAGTTG
Found at i:211826 original size:23 final size:23
Alignment explanation
Indices: 211751--211824 Score: 105
Period size: 23 Copynumber: 3.2 Consensus size: 23
211741 CTAGCACGCT
*
211751 CTCTGATTAGCACTGTGTGTGCC
1 CTCTGATTAGCACTATGTGTGCC
*
211774 CTCTGATTAGCACTATGTGTGCT
1 CTCTGATTAGCACTATGTGTGCC
*
211797 CTCTG-TTCAGCACTTTGTGTGCC
1 CTCTGATT-AGCACTATGTGTGCC
211820 CTCTG
1 CTCTG
211825 TTACCCAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 2 0.04
23 44 0.96
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.38
Consensus pattern (23 bp):
CTCTGATTAGCACTATGTGTGCC
Found at i:212214 original size:74 final size:74
Alignment explanation
Indices: 212093--212241 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
212083 TAGGTACAAA
* *
212093 TAGCTACGAGAAGTTAAAGCCAAGCTAGGGGACGTCTCATCACATCACTCTTGGAATATTTCAAG
1 TAGCTACGAGAAGTTAAAGCCAAGCTAAGGGACCTCTCATCACATCACTCTTGGAATATTTCAAG
212158 CTTAGGTAC
66 CTTAGGTAC
*
212167 TAGCTACGAGAAGTTAAAGTCAAGCTAAGGGACCTCTCATCACATCACTCTTGGAATATTTCAAG
1 TAGCTACGAGAAGTTAAAGCCAAGCTAAGGGACCTCTCATCACATCACTCTTGGAATATTTCAAG
212232 CTTAGGTAC
66 CTTAGGTAC
212241 T
1 T
212242 TTATTTTGAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (74 bp):
TAGCTACGAGAAGTTAAAGCCAAGCTAAGGGACCTCTCATCACATCACTCTTGGAATATTTCAAG
CTTAGGTAC
Found at i:215505 original size:17 final size:17
Alignment explanation
Indices: 215485--215526 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
215475 AACACGACTT
* *
215485 ACATATAAAGATAGCTA
1 ACATACAAACATAGCTA
215502 ACATACAAACATAGCTA
1 ACATACAAACATAGCTA
*
215519 GCATACAA
1 ACATACAA
215527 CACAACTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (17 bp):
ACATACAAACATAGCTA
Found at i:218495 original size:17 final size:17
Alignment explanation
Indices: 218473--218505 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
218463 GATCTGTCAA
218473 GAGTATGCATAAAGCAT
1 GAGTATGCATAAAGCAT
218490 GAGTATGCATAAAGCA
1 GAGTATGCATAAAGCA
218506 AAAGTCCCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (17 bp):
GAGTATGCATAAAGCAT
Found at i:220740 original size:42 final size:42
Alignment explanation
Indices: 220646--220833 Score: 213
Period size: 42 Copynumber: 4.5 Consensus size: 42
220636 TTATGCTCTA
* * *
220646 TCGAGTCATAAGTCTTCCTTTAATCAT-AT-TCATTCTCATT
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
*
220686 TCGAGACATGAGTCTTCTTTTAATCATAATCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
* *
220728 TCAAGACGTGAGTCTTCCTTTAATCATAATCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
* * * * *
220770 TCGAGACATAAGTATTTCATTT-ATACA-AATCCTCATGCTCAAC
1 TCGAGACATGAGT-CTTCCTTTAAT-CATAAT-CTCATTCTCATC
*
220813 CCGAGACATGAGTCTTCCTTT
1 TCGAGACATGAGTCTTCCTTT
220834 TTATACATCA
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
40 24 0.19
41 2 0.02
42 70 0.56
43 29 0.23
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.38
Consensus pattern (42 bp):
TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
Found at i:223909 original size:3 final size:3
Alignment explanation
Indices: 223895--223979 Score: 57
Period size: 3 Copynumber: 28.3 Consensus size: 3
223885 CTCTTTTTTA
* * * *
223895 ATT ATT AAT ATT ATT ATT ATT AATT ACT A-T ATT ATT ATTT AAT GTT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A-TT ATT ATT
* * * * *
223941 A-T AGT ATT ATT ATT AAT GTT ATT ATG ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
223980 CTAATGATAT
Statistics
Matches: 62, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.06
3 52 0.84
4 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:223915 original size:15 final size:15
Alignment explanation
Indices: 223895--223984 Score: 63
Period size: 15 Copynumber: 5.6 Consensus size: 15
223885 CTCTTTTTTA
223895 ATTATTAATATTATT
1 ATTATTAATATTATT
223910 ATTATTAATTACTATATT
1 ATTATTAA-TA-T-TATT
*
223928 ATTATTTAATGTTATAGT
1 ATTA-TTAATATTAT--T
* * *
223946 ATTATTATTAATGTT
1 ATTATTAATATTATT
* *
223961 ATTATGACTATTATT
1 ATTATTAATATTATT
*
223976 ATTACTAAT
1 ATTATTAAT
223985 GATATTTATT
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
15 26 0.46
16 5 0.09
17 8 0.14
18 14 0.25
19 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTATTAATATTATT
Found at i:223928 original size:21 final size:20
Alignment explanation
Indices: 223892--223994 Score: 68
Period size: 21 Copynumber: 4.8 Consensus size: 20
223882 TTTCTCTTTT
223892 TTAATTATTAATATTATTATTA
1 TTAATTA-T-ATATTATTATTA
223914 TTAATTACTATATTATTA-T-
1 TTAATTA-TATATTATTATTA
223933 TTAATGTTATAGTATTATTATTAA
1 TTAA--TTATA-TATTATTATT-A
*
223957 TGTTATTATGACTATTATTATTA
1 T-TAATTAT-A-TATTATTATTA
* *
223980 CTAATGATAT-TTATT
1 TTAATTATATATTATT
223995 GATATGTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
19 9 0.13
20 4 0.06
21 21 0.31
22 14 0.21
23 5 0.07
24 12 0.18
25 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
TTAATTATATATTATTATTA
Found at i:223979 original size:24 final size:20
Alignment explanation
Indices: 223906--223962 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
223896 TTATTAATAT
223906 TATTATTATTAA--TTACTA-
1 TATTATTATTAATGTTA-TAG
223924 TATTATTATTTAATGTTATAG
1 TATTATTA-TTAATGTTATAG
223945 TATTATTATTAATGTTAT
1 TATTATTATTAATGTTAT
223963 TATGACTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.23
19 4 0.11
20 12 0.34
21 11 0.31
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (20 bp):
TATTATTATTAATGTTATAG
Found at i:224649 original size:6 final size:6
Alignment explanation
Indices: 224640--224718 Score: 67
Period size: 6 Copynumber: 13.7 Consensus size: 6
224630 TTTGGATATT
* *
224640 AATTTA AATTTA AATTTA AACTTA AATTTA TAA--TA AATTTA AACTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTTA
* * * *
224687 AA-ATA ATTTTA ATTTTA AA-ATA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
224719 ATGTTGGGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
4 2 0.03
5 9 0.15
6 46 0.78
7 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:224676 original size:17 final size:17
Alignment explanation
Indices: 224640--224718 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
224630 TTTGGATATT
*
224640 AATTTAAATTTAAATTTA
1 AATTTAAATTTAAA-ATA
* *
224658 AACTTAAATTTATAATA
1 AATTTAAATTTAAAATA
*
224675 AATTTAAACTTAAAATA
1 AATTTAAATTTAAAATA
* *
224692 ATTTTAATTTTAAAATA
1 AATTTAAATTTAAAATA
224709 AATTTAAATT
1 AATTTAAATT
224719 ATGTTGGGCC
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
17 38 0.76
18 12 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:224703 original size:23 final size:23
Alignment explanation
Indices: 224648--224705 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
224638 TTAATTTAAA
* *
224648 TTTAAATTTAAACTTAAATTTAT
1 TTTAAATTTAAACTTAAAATAAT
**
224671 AATAAATTTAAACTTAAAATAAT
1 TTTAAATTTAAACTTAAAATAAT
*
224694 TTTAATTTTAAA
1 TTTAAATTTAAA
224706 ATAAATTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAAATTTAAACTTAAAATAAT
Found at i:225407 original size:206 final size:206
Alignment explanation
Indices: 225099--225776 Score: 960
Period size: 206 Copynumber: 3.2 Consensus size: 206
225089 TTCTATGTTT
* * * ** * *
225099 CATCAAGAAGACGGATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTGACCATTTTATTACTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * *
225164 CGACCTGCTTCTCAGTATCTCATCAGGAGGTTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG
66 CGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG
* * * * *
225229 TTTGATTTGGTATTCTTCTCTGTGTCTCATCAGGAAGATGACCGCGTCATTTGTTTTAATCCGTT
131 TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCGTCATTTGTTTCAATCCGCT
225294 TCTCTGTATCC
196 TCTCTGTATCC
*
225305 CATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTTATCAGGAAGCTAACCATTTTATTGCTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTT
*
225370 CAACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG
66 CGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG
* ** *
225435 TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACGTTGTTTGTTTCAATCCACT
131 TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCGTCATTTGTTTCAATCCGCT
225500 TCTCTGTATCC
196 TCTCTGTATCC
* *
225511 CATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * * *
225576 CGACTTGTTTCTCAATGTCACATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG
66 CGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG
* * *
225641 TTTGATTTAGTCTTCTTCTCAGTATCTCATCAGGAAGATATCAGGAAGACGACCGTGTCGTTTGT
131 TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAG--AT---------GACCGCGTCATTTGT
*
225706 TTCAATCCGCTTCTCTGTATCT
185 TTCAATCCGCTTCTCTGTATCC
* *
225728 CATCAGGAAGATGAATTTGTTCCACTTCTCAATATCTCATCAGGAAGCT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCT
225777 GGGGTTCAAA
Statistics
Matches: 422, Mismatches: 39, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
206 343 0.81
208 2 0.00
217 77 0.18
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (206 bp):
CATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTT
CGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG
TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCGTCATTTGTTTCAATCCGCT
TCTCTGTATCC
Found at i:232028 original size:28 final size:29
Alignment explanation
Indices: 231988--232048 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
231978 AAATGAGACT
231988 TTTTGGATACTC-GGGGGTAAAATGGTAA
1 TTTTGGATACTCGGGGGGTAAAATGGTAA
*
232016 TTTTGGATTCTCGGGGGGTAAAATGGTAA
1 TTTTGGATACTCGGGGGGTAAAATGGTAA
232045 TTTT
1 TTTT
232049 CGAAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.25, C:0.07, G:0.31, T:0.38
Consensus pattern (29 bp):
TTTTGGATACTCGGGGGGTAAAATGGTAA
Found at i:232124 original size:29 final size:30
Alignment explanation
Indices: 232092--232167 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
232082 CATCCAAGTG
232092 TAAAATGATAATTTTTAGGAAAATCGA-GA
1 TAAAATGATAATTTTTAGGAAAATCGAGGA
* * *
232121 TAAAAATGA-AATTTTT-GGACATTCGAGGG
1 T-AAAATGATAATTTTTAGGAAAATCGAGGA
*
232150 TAAAATGGTAATTTTTAG
1 TAAAATGATAATTTTTAG
232168 AGTTTCGAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 14 0.36
29 17 0.44
30 8 0.21
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (30 bp):
TAAAATGATAATTTTTAGGAAAATCGAGGA
Found at i:232183 original size:58 final size:58
Alignment explanation
Indices: 232031--232398 Score: 188
Period size: 58 Copynumber: 6.3 Consensus size: 58
232021 GATTCTCGGG
* * * * * * * *
232031 GGGTAAAATGGTAATTTTCGAAAAATTT-GAGGTTTAAAATGGAA-TTTTAGACATCCAA
1 GGGTAAAATGGTAATTTT--TAGAGTTTCGAGGTTAAAAATGAAATTTTTGGACATTCGA
* * *** *
232089 GTGTAAAATGATAATTTTTAGGAAAATCGA-GATAAAAATGAAATTTTTGGACATTCGA
1 GGGTAAAATGGTAATTTTTA-GAGTTTCGAGGTTAAAAATGAAATTTTTGGACATTCGA
* * *
232147 GGGTAAAATGGTAATTTTTAGAGTTTCGAGGTTAAAAAT-ATAGTTTTGGACA-TCTA
1 GGGTAAAATGGTAATTTTTAGAGTTTCGAGGTTAAAAATGAAATTTTTGGACATTCGA
* * * * * * **
232203 GGGGTAAAATGGTAAATTTTGAAAGTTTTGGGGTCAAAAATTG-AATTTTTTGAGGTTCGA
1 -GGGTAAAATGGT-AATTTTTAGAGTTTCGAGGTTAAAAA-TGAAATTTTTGGACATTCGA
* * * *
232263 GGGTAAAA-GTGTAA-TTTTGGAAGTTTCGGGGTTAAAAATGGAATTTTTGGTA-GTTCG-
1 GGGTAAAATG-GTAATTTTTAG-AGTTTCGAGGTTAAAAATGAAATTTTTGG-ACATTCGA
* * * * *
232320 GGGTCAAAAATGG-AATTTTTGGAAGTTT-GGGGATAAAAAT-ATAATTTTTGAAAATCTCGA
1 GGGT--AAAATGGTAATTTTTAG-AGTTTCGAGGTTAAAAATGA-AATTTTTGGACAT-TCGA
*
232380 GGTTAAAAATGG-AATTTTT
1 GGGT-AAAATGGTAATTTTT
232399 GGACAGTTTA
Statistics
Matches: 246, Mismatches: 43, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
56 4 0.02
57 52 0.21
58 129 0.52
59 54 0.22
60 7 0.03
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTAGAGTTTCGAGGTTAAAAATGAAATTTTTGGACATTCGA
Done.