Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005038.1 Hibiscus syriacus cultivar Beakdansim tig00011309_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 139316
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:7503 original size:13 final size:14
Alignment explanation
Indices: 7487--7518 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7477 ATTAAGAGTT
7487 AAATTT-AATTAAA
1 AAATTTAAATTAAA
7500 AAATTTAAATTAAA
1 AAATTTAAATTAAA
7514 AAATT
1 AAATT
7519 AAGATATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATTTAAATTAAA
Found at i:14926 original size:20 final size:21
Alignment explanation
Indices: 14877--14932 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
14867 GATACCGGAG
* *
14877 GGGTATCGGTACCATAGTATA
1 GGGTATCGATACCATAGTAGA
*
14898 GTAGTATCGATACCATAGT-GA
1 G-GGTATCGATACCATAGTAGA
14919 GGGTATCGATACCA
1 GGGTATCGATACCA
14933 AGCCACATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 15 0.50
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (21 bp):
GGGTATCGATACCATAGTAGA
Found at i:14928 original size:93 final size:94
Alignment explanation
Indices: 14805--14985 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 94
14795 TACCGACGAG
* * ** * *
14805 GTAGTATCGATACCATGGTAAGTGTATCGATACCGGGTAATATCGAA-CATAATTTTGGTATCGA
1 GTAGTATCGATACCATAGTAAGGGTATCGATACCAAGCAACATCGAAGC-TAATTTTGGTATCGA
* *
14869 TACCGG-AGGGGTATCGGTACCATAGTATA
65 TACCGGAACGGGTATCGATACCATAGTATA
* * *
14898 GTAGTATCGATACCATAGTGAGGGTATCGATACCAAGCCACATTGAAGCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATAGTAAGGGTATCGATACCAAGCAACATCGAAGCTAATTTTGGTATCGAT
14963 ACCGGAACGGGTATCGATACCAT
66 ACCGGAACGGGTATCGATACCAT
14986 GGCAGGGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
93 59 0.79
94 16 0.21
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (94 bp):
GTAGTATCGATACCATAGTAAGGGTATCGATACCAAGCAACATCGAAGCTAATTTTGGTATCGAT
ACCGGAACGGGTATCGATACCATAGTATA
Found at i:14977 original size:18 final size:19
Alignment explanation
Indices: 14954--15002 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
14944 AGCTAATTTT
14954 GGTATCGATACC-GGAACG
1 GGTATCGATACCAGGAACG
* *
14972 GGTATCGATACCATGGCAGG
1 GGTATCGATACCA-GGAACG
14992 GGTATCGATAC
1 GGTATCGATAC
15003 TGAAGAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 12 0.44
20 15 0.56
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (19 bp):
GGTATCGATACCAGGAACG
Found at i:15403 original size:59 final size:59
Alignment explanation
Indices: 15338--15619 Score: 478
Period size: 59 Copynumber: 4.8 Consensus size: 59
15328 ACACTAAGCA
15338 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAA-TTTCTGTATAGGGCACTTCGTG
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTC-GTATAGGGCACTTCGTG
** *
15397 TGCTAAAATGATAAGACTTTCATACTAAGTGTATGAATTTTCGTATAGGACACTTCGTG
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTG
*
15456 TGCTAAAATGATAAGAAATTCTTACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTG
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTG
*
15515 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACCTT-GTG
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCA-CTTCGTG
*
15574 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
15620 GGGAAATATA
Statistics
Matches: 211, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
59 204 0.97
60 7 0.03
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (59 bp):
TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTG
Found at i:23828 original size:23 final size:22
Alignment explanation
Indices: 23798--23875 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
23788 ACTAGCTAGG
23798 GCATCGATGCATCCTTTGAATAT
1 GCATCGATGCAT-CTTTGAATAT
* * *
23821 GCATCGATACATC-ATGAAGAT
1 GCATCGATGCATCTTTGAATAT
* *
23842 GCA-CTGATGCATTTTTTGAATGT
1 GCATC-GATGCA-TCTTTGAATAT
23865 GCATCGATGCA
1 GCATCGATGCA
23876 CTCTGCCGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 14 0.33
22 2 0.05
23 25 0.58
24 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (22 bp):
GCATCGATGCATCTTTGAATAT
Found at i:24741 original size:10 final size:9
Alignment explanation
Indices: 24708--24741 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
24698 GAATTCGGTT
24708 AATTAACCG
1 AATTAACCG
*
24717 AATTAAACG
1 AATTAACCG
24726 AATTAACCG
1 AATTAACCG
24735 AAATTAA
1 -AATTAA
24742 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:25133 original size:183 final size:183
Alignment explanation
Indices: 24747--25133 Score: 636
Period size: 183 Copynumber: 2.1 Consensus size: 183
24737 ATTAAATTTT
* * *
24747 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAAAATATAGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
*
24812 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
24877 TATTTTATAATTATATATTATTTAAATTAATTGTAAACAGTTTTTTAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACAGTTTTTTAATTAAA
*
24930 AAATATTAAATATATTATATATAAAATATAGGCT-AAGCCCAAACCATTTAAAACCTAATTAATA
1 AAATATTAAATATATTATATATAAAATATAGGCTCAA-CCCAAACCATTTAAAACCCAATTAATA
*
24994 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAATT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATT
*
25059 TTTATTTTATAATTATATATTATTTAAATTAATTATAAAC-TTTTTTTGAATTAAA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACAGTTTTTT-AATTAAA
* *
25114 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
25134 AATTAGAAAA
Statistics
Matches: 191, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
182 2 0.01
183 123 0.64
184 66 0.35
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAAAATATAGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACAGTTTTTTAATTAAA
Found at i:25278 original size:15 final size:15
Alignment explanation
Indices: 25258--25286 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25248 AAAAAAAGTT
25258 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
25273 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
25287 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:29624 original size:16 final size:17
Alignment explanation
Indices: 29598--29634 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
29588 AGGGCACATT
29598 ATTTCGTGTTACATTCG
1 ATTTCGTGTTACATTCG
*
29615 ATTT-GTGTTACTTTCG
1 ATTTCGTGTTACATTCG
29631 ATTT
1 ATTT
29635 ACGTTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (17 bp):
ATTTCGTGTTACATTCG
Found at i:30600 original size:30 final size:30
Alignment explanation
Indices: 30566--30623 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
30556 TCTTAGTTAA
30566 AAGAAAGAATAGTATATATAAGAAAAAAAT
1 AAGAAAGAATAGTATATATAAGAAAAAAAT
30596 AAGAAAGAATAGTATATATAAGAAAAAA
1 AAGAAAGAATAGTATATATAAGAAAAAA
30624 TGTTTTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (30 bp):
AAGAAAGAATAGTATATATAAGAAAAAAAT
Found at i:32413 original size:23 final size:22
Alignment explanation
Indices: 32370--32413 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32360 GAGGTGTAAT
* *
32370 TTTAAAAAAATATATTTTATAA
1 TTTAAAAAAATATAATATATAA
32392 TTTAAAAAAATATGAATATATA
1 TTTAAAAAAATAT-AATATATA
32414 TATATATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTAAAAAAATATAATATATAA
Found at i:33065 original size:6 final size:6
Alignment explanation
Indices: 33031--33064 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33021 TCATAAAAAG
* *
33031 GCATGT GCATGT GCATGT GCATTT GCATTT GCAT
1 GCATGT GCATGT GCATGT GCATGT GCATGT GCAT
33065 TGTTTGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (6 bp):
GCATGT
Found at i:33943 original size:20 final size:20
Alignment explanation
Indices: 33918--33968 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
33908 GTTAAGTTCT
* *
33918 ATATCGATACTCATGAGTTG
1 ATATCGATACCCATGAGTTA
*
33938 ATATCGATGCCCATGAGTTA
1 ATATCGATACCCATGAGTTA
*
33958 ATATCAATACC
1 ATATCGATACC
33969 GTAGAAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (20 bp):
ATATCGATACCCATGAGTTA
Found at i:45386 original size:23 final size:22
Alignment explanation
Indices: 45360--45452 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 22
45350 GAGTAGAGGG
*
45360 ATTCTACGCGATCCTTCGGGACA
1 ATTCTATG-GATCCTTCGGGACA
* *
45383 ATTCTATGTGGTCCTTCACGG-CA
1 ATTCTATG-GATCCTTC-GGGACA
*
45406 ATTCTATGTAGTCCTTCGGGACA
1 ATTCTATGGA-TCCTTCGGGACA
* *
45429 ATTCTATGTAGTCCTTCGAGACA
1 ATTCTATGGA-TCCTTCGGGACA
45452 A
1 A
45453 ATATATGTGG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
22 2 0.03
23 55 0.93
24 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
ATTCTATGGATCCTTCGGGACA
Found at i:45459 original size:23 final size:23
Alignment explanation
Indices: 45410--45460 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
45400 ACGGCAATTC
* * *
45410 TATGTAGTCCTTCGGGACAATTC
1 TATGTAGTCCTTCGAGACAAATA
45433 TATGTAGTCCTTCGAGACAAATA
1 TATGTAGTCCTTCGAGACAAATA
45456 TATGT
1 TATGT
45461 GGCACTTCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (23 bp):
TATGTAGTCCTTCGAGACAAATA
Found at i:45460 original size:46 final size:46
Alignment explanation
Indices: 45371--45460 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
45361 TTCTACGCGA
* * * *
45371 TCCTTCGGGACAATTCTATGTGGTCCTTCACGGCAATTCTATGTAG
1 TCCTTCGGGACAATTCTATGTAGTCCTTCACGACAAATATATGTAG
45417 TCCTTCGGGACAATTCTATGTAGTCCTTCGA-GACAAATATATGT
1 TCCTTCGGGACAATTCTATGTAGTCCTTC-ACGACAAATATATGT
45461 GGCACTTCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 38 0.97
47 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (46 bp):
TCCTTCGGGACAATTCTATGTAGTCCTTCACGACAAATATATGTAG
Found at i:45469 original size:46 final size:46
Alignment explanation
Indices: 45372--45470 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
45362 TCTACGCGAT
* * * * *
45372 CCTTCGGGACAATTCTATGTGGTCCTTCACGGCAATTCTATGTAGT
1 CCTTCGGGACAATTCTATGTAGTCCTTCACGACAAATATATGTAGG
45418 CCTTCGGGACAATTCTATGTAGTCCTTCGA-GACAAATATATGT-GG
1 CCTTCGGGACAATTCTATGTAGTCCTTC-ACGACAAATATATGTAGG
45463 CACTTCGG
1 C-CTTCGG
45471 TGCATATTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.04
46 43 0.93
47 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (46 bp):
CCTTCGGGACAATTCTATGTAGTCCTTCACGACAAATATATGTAGG
Found at i:46298 original size:20 final size:21
Alignment explanation
Indices: 46230--46335 Score: 71
Period size: 20 Copynumber: 5.2 Consensus size: 21
46220 GATATCGGAT
* *
46230 GCTTGGTATCGATACTAGAAA
1 GCTTGGTATCCATACTAGAAG
**
46251 G-TTGGTATCCATACCGGAAG
1 GCTTGGTATCCATACTAGAAG
**
46271 GC-ACGTATCCATACTAG-AG
1 GCTTGGTATCCATACTAGAAG
*
46290 GCTTGGTATCCAAACT-GAATG
1 GCTTGGTATCCATACTAGAA-G
* *
46311 G-TTCAGTATCCATACCAG-AG
1 GCTT-GGTATCCATACTAGAAG
46331 GCTTG
1 GCTTG
46336 AGGTAAATAC
Statistics
Matches: 63, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
19 5 0.08
20 42 0.67
21 15 0.24
22 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (21 bp):
GCTTGGTATCCATACTAGAAG
Found at i:51780 original size:24 final size:24
Alignment explanation
Indices: 51748--51824 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
51738 CAGTTGTCTT
51748 TAACCTCCCCTTAATTGAAATCCC
1 TAACCTCCCCTTAATTGAAATCCC
*
51772 TAACCTCCCCTTAATTAAAATCCC
1 TAACCTCCCCTTAATTGAAATCCC
*
51796 TAACCTCTCCTTAATTGAAATCCC
1 TAACCTCCCCTTAATTGAAATCCC
51820 TAACC
1 TAACC
51825 CTATTTCTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.30
Consensus pattern (24 bp):
TAACCTCCCCTTAATTGAAATCCC
Found at i:53994 original size:119 final size:120
Alignment explanation
Indices: 53783--54022 Score: 428
Period size: 119 Copynumber: 2.0 Consensus size: 120
53773 GATCAATTAA
* *
53783 TGAAAGGAAGTCAAATGAAAAATGCATTTGAAATACGAAACTGGTTCACTACCAATAGAGAAATG
1 TGAAAGAAAGTCAAATGAAAAATGCATTTGAAATACGAAACTGGTTCACGACCAATAGAGAAATG
* *
53848 ACAGTTCTATTGCTATATTTGAGGTCAGAAAATGGCCTCAC-AGCCCATATGATT
66 ACAGTTCTATTGCTATATTTGAGGTCAGAAAATGGCCTCACAACCCCACATGATT
*
53902 TGAAAGAAAGTCAAATGAAAAATGCATTTGAAATACGAAACTGGTTCACGATCAATAGAGAAATG
1 TGAAAGAAAGTCAAATGAAAAATGCATTTGAAATACGAAACTGGTTCACGACCAATAGAGAAATG
53967 ACAGTTCTATTGCTATATTTGAGGTCAGAAAATGGCCTCACAACCCCACATGATT
66 ACAGTTCTATTGCTATATTTGAGGTCAGAAAATGGCCTCACAACCCCACATGATT
54022 T
1 T
54023 TGACCAAACA
Statistics
Matches: 115, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 103 0.90
120 12 0.10
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (120 bp):
TGAAAGAAAGTCAAATGAAAAATGCATTTGAAATACGAAACTGGTTCACGACCAATAGAGAAATG
ACAGTTCTATTGCTATATTTGAGGTCAGAAAATGGCCTCACAACCCCACATGATT
Found at i:55162 original size:60 final size:60
Alignment explanation
Indices: 55038--55162 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 60
55028 CCATTTTATC
* * * * * *
55038 ACTTTTAGTAGTCGGGAGACTCAACAAAGCAATATCTTATAGTCTAGGGATAATTTTGTA
1 ACTTTTAATAGTCGGGAGACTCAACAAAGCAATACCCTATAGTCGAGGGACAATTGTGTA
* * *
55098 ACTTTTAATAGTCGAGG-GACTCAATAAAGTAATACCCTATAGTCGAGGGACCATATGTGT-
1 ACTTTTAATAGTCG-GGAGACTCAACAAAGCAATACCCTATAGTCGAGGGACAAT-TGTGTA
55158 ACTTT
1 ACTTT
55163 ACCCTAAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 48 0.89
61 6 0.11
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (60 bp):
ACTTTTAATAGTCGGGAGACTCAACAAAGCAATACCCTATAGTCGAGGGACAATTGTGTA
Found at i:64138 original size:16 final size:17
Alignment explanation
Indices: 64105--64144 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
64095 TTAAAATAAA
*
64105 AATAAAAA-AGTACAAT
1 AATAAAAACAATACAAT
64121 AATAAAAACAATAC-AT
1 AATAAAAACAATACAAT
64137 AA-AAAAAC
1 AATAAAAAC
64145 TTGAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 12 0.55
17 4 0.18
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (17 bp):
AATAAAAACAATACAAT
Found at i:66194 original size:3 final size:3
Alignment explanation
Indices: 66186--66292 Score: 169
Period size: 3 Copynumber: 35.7 Consensus size: 3
66176 TTAATATATT
* * *
66186 TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
66234 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66282 TAA TAA TAA TA
1 TAA TAA TAA TA
66293 TGGATAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:67480 original size:113 final size:113
Alignment explanation
Indices: 66583--67450 Score: 1405
Period size: 113 Copynumber: 7.7 Consensus size: 113
66573 AGATAATATC
* *
66583 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
66647 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
66696 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
66761 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
*
66809 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * * *
66874 TCATTACGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
66922 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
66987 TCATTATGAACCTTCTCTGGCAATGATGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
67035 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
67100 TCATTATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTT
66 TCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
*
67148 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * * *
67213 TCATTATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTC
66 TCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
*** * *
67261 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * * *
67326 TCATTATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTC
66 TCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
*** * *
67374 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
67439 TCATTATGAACT
66 TCATTATGAACT
67451 CTACCTTGCA
Statistics
Matches: 731, Mismatches: 23, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
113 668 0.91
114 63 0.09
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTT
Found at i:68243 original size:84 final size:84
Alignment explanation
Indices: 68102--68582 Score: 813
Period size: 84 Copynumber: 5.7 Consensus size: 84
68092 GGTTTTGTAA
* *
68102 GTTCTGCCAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT
68167 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
*
68186 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT
68251 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
*
68270 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT
68335 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
* ** * *
68354 GTTCTGTCTGACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT
68418 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
* * *
68437 GTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT
68502 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
* *
68521 TTTCTGTCC-AACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 GTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
68583 ATATTTGTTC
Statistics
Matches: 378, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
83 79 0.21
84 298 0.79
85 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (84 bp):
GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT
CTTCTAAATTCAATGATTG
Found at i:68493 original size:167 final size:167
Alignment explanation
Indices: 68102--68574 Score: 820
Period size: 167 Copynumber: 2.8 Consensus size: 167
68092 GGTTTTGTAA
* * *
68102 GTTCTGCCAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
*
68167 CTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
66 CTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
*
68232 TGCTATTGGGCACATTCATCTTCTAAATTCAATGATTG
131 TGCTATT-GGCAAATTCATCTTCTAAATTCAATGATTG
68270 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
** *
68335 CTTCTAAATTCAATGATTGGTTCTGTCTGACCAGATCAAATAACTCAAAGAACACTTCCAGAAGA
66 CTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
68400 TGCTATTGGCAAATTCATCTTCTAAATTCAATGATTG
131 TGCTATTGGCAAATTCATCTTCTAAATTCAATGATTG
* *
68437 GTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
* * *
68502 CTTCTAAATTCAATGATTGTTTCTGTCCAACCATATCAGATAACTCAAAGAACACTTCCAGAAGA
66 CTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
68567 TGCTATTG
131 TGCTATTG
68575 AGCACATTAT
Statistics
Matches: 290, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
167 160 0.55
168 130 0.45
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (167 bp):
GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCAT
CTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
TGCTATTGGCAAATTCATCTTCTAAATTCAATGATTG
Found at i:68556 original size:251 final size:252
Alignment explanation
Indices: 68112--68582 Score: 829
Period size: 251 Copynumber: 1.9 Consensus size: 252
68102 GTTCTGCCAA
* * *
68112 ACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTCTAAATT
1 ACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAAATTCATCTTCTAAATT
* *
68177 CAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGG
66 CAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAG
68242 CACATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACT
131 CACATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACT
68307 TCCAAAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTG
196 TCCAAAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTG
68364 ACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATT-GGCAAATTCATCTTCTAAATT
1 ACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAAATTCATCTTCTAAATT
* *
68428 CAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAG
66 CAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAG
* *
68493 CACATTCATCTTCTAAATTCAATGATTGTTTCTGTCC-AACCATATCAGATAACTCAAAGAACAC
131 CACATTCATCTTCTAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACAC
*
68557 TTCCAGAAGATGCTATTGAGCACATT
195 TTCCAAAAGATGCTATTGAGCACATT
68583 ATATTTGTTC
Statistics
Matches: 208, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
251 165 0.79
252 43 0.21
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (252 bp):
ACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAAATTCATCTTCTAAATT
CAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAG
CACATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACT
TCCAAAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTG
Found at i:69375 original size:16 final size:17
Alignment explanation
Indices: 69337--69381 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
69327 AATATAAAAG
*
69337 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
69355 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
69371 AATAAATTGAA
1 AATAAATTGAA
69382 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:69723 original size:10 final size:10
Alignment explanation
Indices: 69708--69794 Score: 84
Period size: 10 Copynumber: 8.1 Consensus size: 10
69698 ACCTTGACCC
69708 TCTTTTTTCT
1 TCTTTTTTCT
*
69718 TCTTTTTTTTT
1 TC-TTTTTTCT
*
69729 TCTTTTTTTTT
1 TC-TTTTTTCT
69740 TCTTTTTTCTTT
1 TCTTTTTTC--T
*
69752 TCTTTTTCATTT
1 TCTTTTT--TCT
*
69764 TCTATTTTCT
1 TCTTTTTTCT
69774 TCTTTTTTCT
1 TCTTTTTTCT
69784 TCTTTTTTCT
1 TCTTTTTTCT
69794 T
1 T
69795 TTCAAGCATA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
10 30 0.45
11 20 0.30
12 15 0.23
14 1 0.02
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTTTCT
Found at i:69726 original size:11 final size:11
Alignment explanation
Indices: 69710--69791 Score: 82
Period size: 11 Copynumber: 7.5 Consensus size: 11
69700 CTTGACCCTC
69710 TTTTTTCTTCT
1 TTTTTTCTTCT
*
69721 TTTTTTTTTCT
1 TTTTTTCTTCT
*
69732 TTTTTTTTTC-
1 TTTTTTCTTCT
69742 TTTTTTCTT-T
1 TTTTTTCTTCT
69752 TCTTTTTCATT-T
1 T-TTTTTC-TTCT
69764 TCTATTTTCTTC-
1 T-T-TTTTCTTCT
69776 TTTTTTCTTCT
1 TTTTTTCTTCT
69787 TTTTT
1 TTTTT
69792 CTTTTCAAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
10 17 0.27
11 32 0.51
12 9 0.14
13 5 0.08
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:69734 original size:7 final size:7
Alignment explanation
Indices: 69708--69796 Score: 71
Period size: 7 Copynumber: 12.9 Consensus size: 7
69698 ACCTTGACCC
69708 TCTTTTT
1 TCTTTTT
69715 TCTTCTTT
1 TCTT-TTT
69723 T-TTTTT
1 TCTTTTT
69729 TC--TTT
1 TCTTTTT
69734 T-TTTTT
1 TCTTTTT
69740 TCTTTTT
1 TCTTTTT
69747 TCTTTTCT
1 TCTTTT-T
*
69755 TTTTCATTT
1 TCTT--TTT
*
69764 TCTATTT
1 TCTTTTT
*
69771 TCTTCTT
1 TCTTTTT
*
69778 T-TTTCT
1 TCTTTTT
69784 TCTTTTT
1 TCTTTTT
69791 TCTTTT
1 TCTTTT
69797 CAAGCATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
5 4 0.06
6 12 0.18
7 36 0.55
8 8 0.12
9 3 0.05
10 2 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (7 bp):
TCTTTTT
Found at i:80417 original size:13 final size:15
Alignment explanation
Indices: 80395--80431 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
80385 TTTGACATAA
80395 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
80407 AAATAAAATACTTGC
1 AAATAAAATACTTGC
80422 AAATAAAATA
1 AAATAAAATA
80432 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:82547 original size:3 final size:3
Alignment explanation
Indices: 82539--82635 Score: 151
Period size: 3 Copynumber: 32.7 Consensus size: 3
82529 TTAATATATT
* * *
82539 TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
82587 TAA TAA TAA TAA TAA TAA TAA TAA T-A TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
82634 TA
1 TA
82636 TGGATAAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.02
3 84 0.98
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:83137 original size:104 final size:110
Alignment explanation
Indices: 83014--83292 Score: 362
Period size: 104 Copynumber: 2.6 Consensus size: 110
83004 GCGGTTAGGG
* * *
83014 GTTAGCAGGGTTCGGACCATAATAATGT-GAGTCTTACCCTAGATCGGGTAACCACAAGGTCGAA
1 GTTAGCAGAGTTCGAACCATAATAATGTGGA-TCTTACCCTGGATCGGGTAACCACAAGGTCGAA
*
83078 TCGAATAATGCAATA-AAA-A-AT-AAA-AAAATAAAA-AA-TAGTG
65 TCGAATAATGCAA-ACAAATATATAAAATAAAATAAAATAAGTAGTA
* *
83118 GTTAGCAGAG-TCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGTCGAA
1 GTTAGCAGAGTTC-GAACCATAATAATGTGGATCTTACCCTGGATCGGGTAACCACAAGGTCGAA
*
83182 TCGAATAATGTAAACAAATATATAAAAATAAAATAAAATAAGTTAGTA
65 TCGAATAATGCAAACAAATATAT-AAAATAAAATAAAATAAG-TAGTA
*
83230 GTTAGCAGAGTTCGAACTATAATAATGTGGATCTTA-CCTCGGATCGGGTAACCACAAGGTCGA
1 GTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCCT-GGATCGGGTAACCACAAGGTCGA
83293 GTAATGAGAG
Statistics
Matches: 152, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
103 3 0.02
104 68 0.45
105 3 0.02
106 2 0.01
108 3 0.02
109 9 0.06
110 2 0.01
111 2 0.01
112 58 0.38
113 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (110 bp):
GTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCCTGGATCGGGTAACCACAAGGTCGAAT
CGAATAATGCAAACAAATATATAAAATAAAATAAAATAAGTAGTA
Found at i:83316 original size:104 final size:104
Alignment explanation
Indices: 83014--83327 Score: 322
Period size: 104 Copynumber: 2.9 Consensus size: 104
83004 GCGGTTAGGG
* * *
83014 GTTAGCAGGGTTCGGACCATAATAATGT-GAGTCTTACCCTAGATCGGGTAACCACAAGGTCGAA
1 GTTAGCAGAGTTCGAACCATAATAATGTGGA-TCTTACCC-GGATCGGGTAACCACAAGGTCGAA
* *
83078 TCGAATAATGCAATAAAA-AATAAA-AAAATAAAA-AATAGTG
64 -CG-ATAATGCAACAAAATAATAAATAAAATAAAATAATAGTA
*
83118 GTTAGCAGAG-TCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGTCGAA
1 GTTAGCAGAGTTC-GAACCATAATAATGTGGATCTTA-CCCGGATCGGGTAACCACAAGGTCGAA
* *
83182 TCGAATAATGTAAACAAATATATAAAAATAAAATAAAATAAGTTAGTA
64 -CG-ATAATG-CAACAAA-ATA-ATAAATAAAATAAAATAA--TAGTA
*
83230 GTTAGCAGAGTTCGAACTATAATAATGTGGATCTTACCTCGGATCGGGTAACCACAAGGTCG-A-
1 GTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACC-CGGATCGGGTAACCACAAGGTCGAAC
*
83293 G-TAATG-AGAGAAAATAATAAATAAATATATAAATA
65 GATAATGCA-ACAAAATAATAAATAAA-ATA-AAATA
83328 TATAAATAAA
Statistics
Matches: 182, Mismatches: 12, Indels: 30
0.81 0.05 0.13
Matches are distributed among these distances:
103 2 0.01
104 68 0.37
105 17 0.09
106 10 0.05
107 6 0.03
108 4 0.02
109 10 0.05
110 2 0.01
111 3 0.02
112 58 0.32
113 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (104 bp):
GTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCCGGATCGGGTAACCACAAGGTCGAACG
ATAATGCAACAAAATAATAAATAAAATAAAATAATAGTA
Found at i:83317 original size:4 final size:4
Alignment explanation
Indices: 83304--83350 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
83294 TAATGAGAGA
* *
83304 AAAT -AAT AAAT AAAT ATAT AAAT ATAT AAAT AAAT AAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
83350 A
1 A
83351 GTTAAAATGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 6 0.16
4 31 0.84
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:83325 original size:112 final size:107
Alignment explanation
Indices: 83014--83336 Score: 308
Period size: 112 Copynumber: 3.0 Consensus size: 107
83004 GCGGTTAGGG
* * *
83014 GTTAGCAGGGTTCGGACCATAATAATGT-GAGTCTTACCCTAGATCGGGTAACCACAAGGTC--G
1 GTTAGCAGAGTTCGAACCATAATAATGTGGA-TCTTACCC-GGATCGGGTAACCACAAGGTCGAG
* * * *
83076 -AATCGA-ATAATGCAATAAA-AAATAAAAAAATAAAA-AATAGTG
64 TAATAGAGAAAAT--AATAAATAAATAATAAAATAAAATAATAGTA
* *
83118 GTTAGCAGAG-TCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGTCGAA
1 GTTAGCAGAGTTC-GAACCATAATAATGTGGATCTTA-CCCGGATCGGGTAACCACAAGGTCGAG
*
83182 TCGAATA-ATGTAAACA-AATATATAAA-AATAAAATAAAATAAGTTAGTA
64 T--AATAGA-G-AAA-ATAATAAATAAATAATAAAATAAAATAA--TAGTA
*
83230 GTTAGCAGAGTTCGAACTATAATAATGTGGATCTTACCTCGGATCGGGTAACCACAAGGTCGAGT
1 GTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACC-CGGATCGGGTAACCACAAGGTCGAGT
83295 AATGAGAGAAAATAATAAATAAATATATAAATATATAAATAA
65 AAT-AGAGAAAATAATAAATAAATA-ATAAA-ATA-AAATAA
83337 ATAAATAAAA
Statistics
Matches: 180, Mismatches: 14, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
103 2 0.01
104 47 0.26
105 5 0.03
108 1 0.01
109 20 0.11
110 20 0.11
111 7 0.04
112 67 0.37
113 5 0.03
114 6 0.03
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (107 bp):
GTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCCGGATCGGGTAACCACAAGGTCGAGTA
ATAGAGAAAATAATAAATAAATAATAAAATAAAATAATAGTA
Found at i:83381 original size:29 final size:29
Alignment explanation
Indices: 83349--83417 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
83339 AAATAAAAAA
83349 TAGTTAAAATGCAATAAAATAAAAGTTAG
1 TAGTTAAAATGCAATAAAATAAAAGTTAG
*
83378 TAGTTAATATGCAATAAAATAAAAGTTAG
1 TAGTTAAAATGCAATAAAATAAAAGTTAG
83407 TAGTTATAAAT
1 TAGTTA-AAAT
83418 AAATAACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 34 0.92
30 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.32
Consensus pattern (29 bp):
TAGTTAAAATGCAATAAAATAAAAGTTAG
Found at i:85067 original size:107 final size:113
Alignment explanation
Indices: 84944--85218 Score: 341
Period size: 107 Copynumber: 2.5 Consensus size: 113
84934 CTCTTATTAC
* * *
84944 TCGACTTTGTGGTGACCCGATCCGGGGTAAGATCCACATTATTATGGTTTGGACTATGCTAACCG
1 TCGACCTTGTGGTGACCCGATCCGGGGTAAGATCCACATTATTATGGTTCGGACTATGCTAACCA
*
85009 CT-A-ACTT-A-TTTTA-T-TTTTATATATTTGTTTACGTTATTCGAT
66 CTAATACTTAATTTTTATTGTTTTATATATTTGTTTACATTATTCGAT
* *
85051 TCGACCTTGTGGTGACCCGATCCGGGGTAAGATCCACATTATTATGGTTCAGACTTTGCTAACCA
1 TCGACCTTGTGGTGACCCGATCCGGGGTAAGATCCACATTATTATGGTTCGGACTATGCTAACCA
* * *
85116 CTAATTATTTAAATTTTTATTTGTTTTTTATATTTGTTTGCATTATTCGAT
66 CTAA-TACTT-AATTTTTA-TTGTTTTATATATTTGTTTACATTATTCGAT
* * * * *
85167 TTGACCTTGTGGTGAACTG--CCGGGGTAAGACCCACACTATTATGGTTCGGAC
1 TCGACCTTGTGGTGACCCGATCCGGGGTAAGATCCACATTATTATGGTTCGGAC
85219 CCTACTAACC
Statistics
Matches: 144, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
107 62 0.43
108 1 0.01
110 3 0.02
112 1 0.01
113 5 0.03
114 30 0.21
115 1 0.01
116 41 0.28
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (113 bp):
TCGACCTTGTGGTGACCCGATCCGGGGTAAGATCCACATTATTATGGTTCGGACTATGCTAACCA
CTAATACTTAATTTTTATTGTTTTATATATTTGTTTACATTATTCGAT
Found at i:85234 original size:114 final size:116
Alignment explanation
Indices: 85022--85234 Score: 295
Period size: 114 Copynumber: 1.8 Consensus size: 116
85012 ACTTATTTTA
* * *
85022 TTTTTATATATTTGTTTACGTTATTCGATTCGACCTTGTGGTGACCCGATCCGGGGTAAGATCCA
1 TTTTTATATATTTGTTTACATTATTCGATTCGACCTTGTGGTGAACCGA-CCGGGGTAAGACCCA
* ** *
85087 CATTATTATGGTTCAGACTTTGCTAACCACTAATTATTTAAATTTTTATTTG
65 CACTATTATGGTTCAGACCCTACTAACCACTAATTATTTAAATTTTTATTTG
* * *
85139 TTTTT-TATATTTGTTTGCATTATTCGATTTGACCTTGTGGTGAACTG-CCGGGGTAAGACCCAC
1 TTTTTATATATTTGTTTACATTATTCGATTCGACCTTGTGGTGAACCGACCGGGGTAAGACCCAC
* *
85202 ACTATTATGGTTCGGACCCTACTAACCCCTAAT
66 ACTATTATGGTTCAGACCCTACTAACCACTAAT
85235 CGCTAACTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
114 42 0.50
116 37 0.44
117 5 0.06
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (116 bp):
TTTTTATATATTTGTTTACATTATTCGATTCGACCTTGTGGTGAACCGACCGGGGTAAGACCCAC
ACTATTATGGTTCAGACCCTACTAACCACTAATTATTTAAATTTTTATTTG
Found at i:85688 original size:17 final size:16
Alignment explanation
Indices: 85661--85710 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
85651 AAGTTTTTTA
*
85661 TGTATTGTTTTTACTTT
1 TGTACTGTTTTTA-TTT
*
85678 TTTACTGTTTTTATTAT
1 TGTACTGTTTTTATT-T
85695 TGTACT-TTTTTATTT
1 TGTACTGTTTTTATTT
85710 T
1 T
85711 ATTTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 10 0.34
17 17 0.59
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (16 bp):
TGTACTGTTTTTATTT
Found at i:88150 original size:28 final size:29
Alignment explanation
Indices: 88106--88174 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
88096 CTTGTTGCAG
88106 TTGCATC-TTGCATTTTGCA-CTCCAATTT
1 TTGCATCTTTGCATTTTGCATCTCC-ATTT
* * *
88134 TTTCATCTTTGCA-TTTGCATGTGCATTT
1 TTGCATCTTTGCATTTTGCATCTCCATTT
88162 TTGCATCTTTGCA
1 TTGCATCTTTGCA
88175 GTAGCATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.16, C:0.22, G:0.13, T:0.49
Consensus pattern (29 bp):
TTGCATCTTTGCATTTTGCATCTCCATTT
Found at i:89539 original size:9 final size:8
Alignment explanation
Indices: 89512--89611 Score: 64
Period size: 8 Copynumber: 12.5 Consensus size: 8
89502 AAAGAGACAT
*
89512 AAAAATAA
1 AAAAAGAA
89520 AAAACAGAA
1 AAAA-AGAA
*
89529 AAACAG--
1 AAAAAGAA
89535 AAAAAG-A
1 AAAAAGAA
*
89542 AAAGAGAGA
1 AAAAAGA-A
*
89551 AAAGAGAGA
1 AAAAAGA-A
*
89560 AAAAATAA
1 AAAAAGAA
*
89568 AAAAAGAG
1 AAAAAGAA
*
89576 AGAAA-AA
1 AAAAAGAA
*
89583 AGAAAGAA
1 AAAAAGAA
89591 AAAAAGAA
1 AAAAAGAA
89599 AAAGAAGAA
1 AAA-AAGAA
89608 AAAA
1 AAAA
89612 TAAAGAAGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
6 5 0.07
7 11 0.15
8 30 0.40
9 29 0.39
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:89572 original size:19 final size:20
Alignment explanation
Indices: 89541--89609 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 20
89531 ACAGAAAAAG
*
89541 AAAAGAGAGAAAAGAGAGAA
1 AAAAGAAAGAAAAGAGAGAA
*
89561 AAAATAAA-AAAAGAGAGAA
1 AAAAGAAAGAAAAGAGAGAA
*
89580 AAAAGAAAGAAAA-AAAG-A
1 AAAAGAAAGAAAAGAGAGAA
89598 AAAAG-AAGAAAA
1 AAAAGAAAGAAAA
89610 AATAAAGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
17 7 0.16
18 6 0.14
19 21 0.48
20 10 0.23
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (20 bp):
AAAAGAAAGAAAAGAGAGAA
Found at i:89581 original size:28 final size:27
Alignment explanation
Indices: 89535--89609 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 27
89525 AGAAAAACAG
* *
89535 AAAAAGAAAAGAGAGAAAAGAGAGAAA
1 AAAAAAAAAAGAGAGAAAAGAAAGAAA
89562 AAATAAAAAAAGAGAGAAAAAAGAAAGAAA
1 AAA-AAAAAAAGAGAG--AAAAGAAAGAAA
*
89592 AAAAGAAAAAGA-AGAAAA
1 AAAAAAAAAAGAGAGAAAA
89610 AATAAAGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.10
27 3 0.07
28 13 0.31
29 8 0.19
30 14 0.33
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAAGAGAGAAAAGAAAGAAA
Found at i:89583 original size:12 final size:12
Alignment explanation
Indices: 89566--89599 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
89556 GAGAAAAAAT
*
89566 AAAAAAAGAGAG
1 AAAAAAAGAAAG
89578 -AAAAAAGAAAG
1 AAAAAAAGAAAG
89589 AAAAAAAGAAA
1 AAAAAAAGAAA
89600 AAGAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:89610 original size:28 final size:28
Alignment explanation
Indices: 89535--89623 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
89525 AGAAAAACAG
* *
89535 AAAAAG-AAAAG-AGAGAAAAGAGAGAA
1 AAAAAGAAAAAGAAGAAAAAAGAAAGAA
*
89561 AAAATAAAAAAAGAGAGAAAAAAGAAAGAA
1 AAAA-AGAAAAAGA-AGAAAAAAGAAAGAA
*
89591 AAAAAGAAAAAGAAGAAAAAATAAAGAA
1 AAAAAGAAAAAGAAGAAAAAAGAAAGAA
*
89619 GAAAA
1 AAAAA
89624 TAGGCAGATC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 23 0.43
29 8 0.15
30 17 0.32
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (28 bp):
AAAAAGAAAAAGAAGAAAAAAGAAAGAA
Found at i:93094 original size:21 final size:21
Alignment explanation
Indices: 93051--93094 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
93041 TCTTACATGA
93051 ATTTGCATCTTTGCATCATAC
1 ATTTGCATCTTTGCATCATAC
93072 ATTT-CATCATTT-CATACATAC
1 ATTTGCATC-TTTGCAT-CATAC
93093 AT
1 AT
93095 GATCAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (21 bp):
ATTTGCATCTTTGCATCATAC
Found at i:93801 original size:91 final size:91
Alignment explanation
Indices: 93644--93888 Score: 382
Period size: 91 Copynumber: 2.7 Consensus size: 91
93634 AAGATAAATC
* *
93644 GATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCA
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCA
*
93709 TAATGAGAATAACTTGTTCAACCTCG
66 TAATGAGAAGAACTTGTTCAACCTCG
* * * * *
93735 GTTCAACATTTCCAGTGGAGAGTTCATAATGAGAAAAACTCATCTAACAAGGGAGAAGAATTTCA
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCA
*
93800 TAATGAGAAGAACTTGTTCAACCTTG
66 TAATGAGAAGAACTTGTTCAACCTCG
** *
93826 GATCAATTTTTCCAGTGGAGAGTTCATAATGAGAAGAACTAATCCAACGAGGGAGAAGAAGTT
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTT
93889 TGTTCAACCT
Statistics
Matches: 137, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 137 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (91 bp):
GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTCG
Found at i:93895 original size:75 final size:74
Alignment explanation
Indices: 93804--93960 Score: 242
Period size: 75 Copynumber: 2.1 Consensus size: 74
93794 ATTTCATAAT
** *
93804 GAGAAGAACTTGTTCAACCTTGGATCAATTTTTCCAGTGGAGAGTTCATAATGAGAAGAACTAAT
1 GAGAAGAACTTGTTCAACCTTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTAAT
93869 CCAACGAGG
66 CCAACGAGG
* * *
93878 GAGAAGAAGTTTGTTCAACCTTGGATCAACATTTCTAGTAGAGAGTTCATAATGAGAAGAACTTA
1 GAGAAGAA-CTTGTTCAACCTTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTAA
*
93943 TCCAATGAGG
65 TCCAACGAGG
93953 GAGAAGAA
1 GAGAAGAA
93961 ATTCATAATG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
74 8 0.11
75 67 0.89
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (74 bp):
GAGAAGAACTTGTTCAACCTTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTAAT
CCAACGAGG
Found at i:94006 original size:166 final size:166
Alignment explanation
Indices: 93722--94054 Score: 522
Period size: 166 Copynumber: 2.0 Consensus size: 166
93712 TGAGAATAAC
* * *
93722 TTGTTCAACCTCGGTTCAACATTTCCAGTGGAGAGTTCATAATGAGAAAAACTCATCTAACAAGG
1 TTGTTCAACCTCGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAAAACTCATCCAACAAGG
* * * **
93787 GAGAAGAATTTCATAATGAGAAGAACTTGTTCAACCTTGGATCAATTTTTCCAGTGGAGAGTTCA
66 GAGAAGAAATTCATAATGAGAAGAACCTGTTCAACATTGGATCAACATTTCCAGTGGAGAGTTCA
93852 TAATGAGAAGAACTAATCCAACGAGGGAGAAGAAGT
131 TAATGAGAAGAACTAATCCAACGAGGGAGAAGAAGT
* * * * **
93888 TTGTTCAACCTTGGATCAACATTTCTAGTAGAGAGTTCATAATGAGAAGAACTTATCCAATGAGG
1 TTGTTCAACCTCGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAAAACTCATCCAACAAGG
*
93953 GAGAAGAAATTCATAATGAGAAGAACCTGTTCAACATTGGATTAACATTTCCAGTGGAGAGTTCA
66 GAGAAGAAATTCATAATGAGAAGAACCTGTTCAACATTGGATCAACATTTCCAGTGGAGAGTTCA
*
94018 TAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGT
131 TAATGAGAAGAACTAATCCAACGAGGGAGAAGAAGT
94054 T
1 T
94055 CATAATGAGA
Statistics
Matches: 151, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
166 151 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (166 bp):
TTGTTCAACCTCGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAAAACTCATCCAACAAGG
GAGAAGAAATTCATAATGAGAAGAACCTGTTCAACATTGGATCAACATTTCCAGTGGAGAGTTCA
TAATGAGAAGAACTAATCCAACGAGGGAGAAGAAGT
Found at i:94044 original size:91 final size:91
Alignment explanation
Indices: 93889--94078 Score: 308
Period size: 91 Copynumber: 2.1 Consensus size: 91
93879 AGAAGAAGTT
* * * *
93889 TGTTCAACCTTGGATCAACATTTCTAGTAGAGAGTTCATAATGAGAAGAACTTATCCAATGAGGG
1 TGTTCAACATTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGG
93954 AGAAGAAATTCATAATGAGAAGAACC
66 AGAAGAAATTCATAATGAGAAGAACC
* *
93980 TGTTCAACATTGGATTAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGG
1 TGTTCAACATTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGG
* *
94045 AGAAGAAGTTCATAATGAGAAGAACT
66 AGAAGAAATTCATAATGAGAAGAACC
94071 TGTTCAAC
1 TGTTCAAC
94079 CTAGGCTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (91 bp):
TGTTCAACATTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGG
AGAAGAAATTCATAATGAGAAGAACC
Found at i:95219 original size:29 final size:29
Alignment explanation
Indices: 95187--95245 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
95177 ACTGATTTAT
* *
95187 ACTAATTTTTATTTTATTGCA-TATTAACC
1 ACTAACTTTTATTTCATTGCACT-TTAACC
95216 ACTAACTTTTATTTCATTGCACTTTAACC
1 ACTAACTTTTATTTCATTGCACTTTAACC
95245 A
1 A
95246 TTGTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (29 bp):
ACTAACTTTTATTTCATTGCACTTTAACC
Found at i:95483 original size:127 final size:129
Alignment explanation
Indices: 95211--95487 Score: 362
Period size: 127 Copynumber: 2.2 Consensus size: 129
95201 TATTGCATAT
* * *
95211 TAACCACTAACTTTTATTTCATTGCACTTTAACCATTGTTATTTATTTATTTATTATTTCTAATA
1 TAACCACTAACTTTTATTTTATTGCACTCTAACCA-TATTATTTATTTATTTATTATTTCTAATA
* * * * * * * *
95276 TTCGATTCGACCTTGTGGTGACCCGATCTGGGGTAAGATCCATATTATTATGGTCCATACTCTGC
65 ATCAATTCAACCTTATGGTGACCCGATCTCGGGTAAGATCCACATTATTATGGTCCAAACTCTAC
* *
95341 TAACTACTAACTTTTATTTTATTGCACTCTAA-CA-ATTATTTATTTATTTATTGTTTCTAATAA
1 TAACCACTAACTTTTATTTTATTGCACTCTAACCATATTATTTATTTATTTATTATTTCTAATAA
* * * *
95404 TCAATTCAACCTTATGGTGACTCGATC-CGGGTATGATCCGCATTATTATGGTTCAAACTCTAC
66 TCAATTCAACCTTATGGTGACCCGATCTCGGGTAAGATCCACATTATTATGGTCCAAACTCTAC
95467 TAACCACTAACTTTTTATTTT
1 TAACCACTAAC-TTTTATTTT
95488 TATTTTATTT
Statistics
Matches: 128, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
126 39 0.30
127 58 0.45
129 2 0.02
130 29 0.23
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.44
Consensus pattern (129 bp):
TAACCACTAACTTTTATTTTATTGCACTCTAACCATATTATTTATTTATTTATTATTTCTAATAA
TCAATTCAACCTTATGGTGACCCGATCTCGGGTAAGATCCACATTATTATGGTCCAAACTCTAC
Found at i:95678 original size:16 final size:16
Alignment explanation
Indices: 95653--95685 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95643 ATTTCTTCTA
*
95653 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
95669 TTTAAATTTATGCACT
1 TTTAAATTTATGCACT
95685 T
1 T
95686 ATATTTTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:95922 original size:2 final size:2
Alignment explanation
Indices: 95917--95963 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
95907 TGTGTGTGTG
95917 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95959 TA TA T
1 TA TA T
95964 GTTTTTTGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97816 original size:38 final size:39
Alignment explanation
Indices: 97774--98003 Score: 195
Period size: 39 Copynumber: 6.0 Consensus size: 39
97764 GTATTTTTTA
* *
97774 TTCCCTTAAAACACA-ATTTTGTCTCTCTTGAGACCAGT
1 TTCCCTTGAAACACAGATTTTGTCTCTCTTGAGACTAGT
* * * * * * * *
97812 TTCCCTTTAAAAACATATGTTGTCTCCCTCGATACTTGT
1 TTCCCTTGAAACACAGATTTTGTCTCTCTTGAGACTAGT
97851 TTCCCTTGAAACACAGATTTTGTCTC-CTTTGAGACATA-T
1 TTCCCTTGAAACACAGATTTTGTCTCTC-TTGAGAC-TAGT
* * * *
97890 TTCCCTTGAAAGACA-ATTTTATCT-TCTTGAAACTTGT
1 TTCCCTTGAAACACAGATTTTGTCTCTCTTGAGACTAGT
* *
97927 TTCTCTTGAAACACA-ATTTTATCT-TCCTTGAGACTAGT
1 TTCCCTTGAAACACAGATTTTGTCTCT-CTTGAGACTAGT
* ** * *
97965 TTTCCTTGAAACGTAGATTTTGTCTCCCTTAAGACTAGT
1 TTCCCTTGAAACACAGATTTTGTCTCTCTTGAGACTAGT
98004 CTCCTAAGAC
Statistics
Matches: 154, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
36 1 0.01
37 30 0.19
38 44 0.29
39 78 0.51
40 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (39 bp):
TTCCCTTGAAACACAGATTTTGTCTCTCTTGAGACTAGT
Found at i:97919 original size:21 final size:20
Alignment explanation
Indices: 97894--97957 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 20
97884 ACATATTTCC
97894 CTTGAAAGACAATTTTATCTT
1 CTTGAAA-ACAATTTTATCTT
97915 CTTG-AAAC--TTGTT-TC-T
1 CTTGAAAACAATT-TTATCTT
97931 CTTGAAACACAATTTTATCTT
1 CTTGAAA-ACAATTTTATCTT
97952 CCTTGA
1 -CTTGA
97958 GACTAGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 15
0.70 0.00 0.30
Matches are distributed among these distances:
16 5 0.14
17 6 0.17
18 4 0.11
19 4 0.11
20 6 0.17
21 5 0.14
22 5 0.14
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (20 bp):
CTTGAAAACAATTTTATCTT
Found at i:98007 original size:16 final size:15
Alignment explanation
Indices: 97986--98022 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
97976 CGTAGATTTT
97986 GTCTCCCTTAAGACTA
1 GTCTCCC-TAAGACTA
98002 GTCT-CCTAAGACTA
1 GTCTCCCTAAGACTA
98016 GTCTCCC
1 GTCTCCC
98023 CTGAAACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 12 0.60
15 4 0.20
16 4 0.20
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.30
Consensus pattern (15 bp):
GTCTCCCTAAGACTA
Found at i:98129 original size:23 final size:23
Alignment explanation
Indices: 98099--98166 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
98089 GACCAATTGA
98099 CCTTGAAACATAGATTTTGTCTC
1 CCTTGAAACATAGATTTTGTCTC
*
98122 CCTTGAAACATAGATTTTATCT-
1 CCTTGAAACATAGATTTTGTCTC
* *
98144 CCTTGAAACACAAATTTTGTCTC
1 CCTTGAAACATAGATTTTGTCTC
98167 ATTTGATACT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 19 0.47
23 21 0.52
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.38
Consensus pattern (23 bp):
CCTTGAAACATAGATTTTGTCTC
Found at i:98163 original size:45 final size:38
Alignment explanation
Indices: 98099--98360 Score: 116
Period size: 37 Copynumber: 6.8 Consensus size: 38
98089 GACCAATTGA
* *
98099 CCTTGAAACATAGATTTTGTCTCCCTTGAAACATAGATTTTATCT
1 CCTTGAAACA-AAATTTTGTCTCACTTGAAAC-TAG---TT-T-T
* *
98144 CCTTGAAACACAAATTTTGTCTCATTTGATACTAGTTTT
1 CCTTGAAACA-AAATTTTGTCTCACTTGAAACTAGTTTT
98183 CCTTGAAACAAAATTTTGTCT--CTTGAAA-TCAG-TTT
1 CCTTGAAACAAAATTTTGTCTCACTTGAAACT-AGTTTT
* * * * *
98218 CTTTTGAAACATAAAATTCGTCTTCA-TTGAGA-TCAGTTTC
1 C-CTTGAAACA-AAATTTTGTC-TCACTTGAAACT-AGTTTT
*
98258 CCTAGAAAC--AATTTTGTCTCACTTGAGAA-T-G-TTT
1 CCTTGAAACAAAATTTTGTCTCACTTGA-AACTAGTTTT
* * * * * * *
98292 CATGTGACACAAAATTTTTTTTCA-TTGAGACCAGTTTC
1 CCT-TGAAACAAAATTTTGTCTCACTTGAAACTAGTTTT
* * * *
98330 CCTTGAAACATAATTCTATCTCCCTTGAAAC
1 CCTTGAAACAAAATTTTGTCTCACTTGAAAC
98361 CAATTTCCTT
Statistics
Matches: 167, Mismatches: 34, Indels: 39
0.70 0.14 0.16
Matches are distributed among these distances:
34 4 0.02
35 14 0.08
36 30 0.18
37 35 0.21
38 22 0.13
39 26 0.16
40 4 0.02
41 2 0.01
44 3 0.02
45 27 0.16
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (38 bp):
CCTTGAAACAAAATTTTGTCTCACTTGAAACTAGTTTT
Found at i:98256 original size:39 final size:36
Alignment explanation
Indices: 98185--98257 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 36
98175 CTAGTTTTCC
* *
98185 TTGAAACAAAATTTTGTCTCTTGAAATCAGTTTCTT
1 TTGAAACAAAAATTCGTCTCTTGAAATCAGTTTCTT
*
98221 TTGAAACATAAAATTCGTCTTCATTGAGATCAGTTTC
1 TTGAAACA-AAAATTCGTC-TC-TTGAAATCAGTTTC
98258 CCTAGAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 8 0.26
37 8 0.26
38 2 0.06
39 13 0.42
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (36 bp):
TTGAAACAAAAATTCGTCTCTTGAAATCAGTTTCTT
Found at i:98441 original size:66 final size:66
Alignment explanation
Indices: 98358--98489 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
98348 TCTCCCTTGA
*
98358 AACCAATTTCCTTTGAAATAGAGAATTCATCTTCATTGAGATCAATTTCTCTTGACAATGTTTCT
1 AACCAATTTCCTTTGAAATAGAGAATTCATCTTCATTGAGATCAATTTCTCTCGACAATGTTTCT
98423 C
66 C
* *
98424 AACCAGTTTCCTTTGAAATAGAGAATTCATCTTCATTGAGATCAGTTTCTCTCGACAATGTTTCT
1 AACCAATTTCCTTTGAAATAGAGAATTCATCTTCATTGAGATCAATTTCTCTCGACAATGTTTCT
98489 C
66 C
98490 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (66 bp):
AACCAATTTCCTTTGAAATAGAGAATTCATCTTCATTGAGATCAATTTCTCTCGACAATGTTTCT
C
Found at i:98915 original size:95 final size:95
Alignment explanation
Indices: 98806--99137 Score: 330
Period size: 95 Copynumber: 3.5 Consensus size: 95
98796 TGTGGAGGAA
*
98806 TGGAGCATATTATTAAGAGCAAGCCCAACATCCTTTGTT-TGGAGGAGTGAAGTAAATTATTACA
1 TGGAGCATATTATTAAGAG-AAGCCCAACATCCTTTGTTATGGAGGAGTGAAGTAAATTATTACG
* * * *
98870 AGCGAGTCCATCATCATTTGCTATCGAAGAG
65 AGTGAGCCCAACATCATTTGCTATGGAAGAG
* ** * ** *
98901 TGGAGCATATTATTAAGAGCGAGCGTAACATCCTCTACTATGAAGGAGTGAAGTAAAATTATTGA
1 TGGAGCATATTATTAAGAG-AAGCCCAACATCCTTTGTTATGGAGGAGTGAAGT-AAATTATT-A
*
98966 -GAGTGAGCCCAACATCCTTTGCTATGGAAGAG
63 CGAGTGAGCCCAACATCATTTGCTATGGAAGAG
** * * * *
98998 TGGAG-A-AAAATTAACGAAGAAGCCCAACATCTTTTGTTATGGAGTAGTGGAGCAAATTATTAC
1 TGGAGCATATTATTAA-G-AGAAGCCCAACATCCTTTGTTATGGAGGAGTGAAGTAAATTATTAC
* * *
99061 GAGTGAGCCCAAAATCTTTTGCTATGGAGGAG
64 GAGTGAGCCCAACATCATTTGCTATGGAAGAG
* * * * *
99093 TGGAGCAAATTTTTATGAGAGGACCCAACATCCTTTGTTGTGGAG
1 TGGAGCATATTATTAAGAGAAG-CCCAACATCCTTTGTTATGGAG
99138 TGGAGCATAA
Statistics
Matches: 192, Mismatches: 36, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
94 1 0.01
95 85 0.44
96 60 0.31
97 45 0.23
98 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (95 bp):
TGGAGCATATTATTAAGAGAAGCCCAACATCCTTTGTTATGGAGGAGTGAAGTAAATTATTACGA
GTGAGCCCAACATCATTTGCTATGGAAGAG
Found at i:99078 original size:48 final size:49
Alignment explanation
Indices: 98806--99138 Score: 208
Period size: 48 Copynumber: 7.0 Consensus size: 49
98796 TGTGGAGGAA
* ** * *
98806 TGGAGCATATTATTAA-GAGCAAGCCCAACATCCTTTG-TTTGGAGGAG
1 TGGAGCAAATTATTAACGAGTGAGCCCAACATCCTTTGCTATGGAGTAG
* * * * * * * *
98853 TGAAGTAAATTATT-ACAAGCGAGTCCATCATCATTTGCTATCGAAG-AG
1 TGGAGCAAATTATTAACGAGTGAGCCCAACATCCTTTGCTAT-GGAGTAG
* * ** * * * *
98901 TGGAGCATATTATTAA-GAGCGAGCGTAACATCCTCTACTATGAAGGAG
1 TGGAGCAAATTATTAACGAGTGAGCCCAACATCCTTTGCTATGGAGTAG
* * *
98949 TGAAGTAAAATTATTGA-GAGTGAGCCCAACATCCTTTGCTATGGAAG-AG
1 TGGAG-CAAATTATTAACGAGTGAGCCCAACATCCTTTGCTATGG-AGTAG
* * * *
98998 TGGAG-AAA-AATTAACGAAG-AAGCCCAACATCTTTTGTTATGGAGTAG
1 TGGAGCAAATTATTAACG-AGTGAGCCCAACATCCTTTGCTATGGAGTAG
* * *
99045 TGGAGCAAATTATT-ACGAGTGAGCCCAAAATCTTTTGCTATGGAGGAG
1 TGGAGCAAATTATTAACGAGTGAGCCCAACATCCTTTGCTATGGAGTAG
* * *
99093 TGGAGCAAATTTTTATGA-GAG-GA-CCCAACATCCTTTGTTGTGGAGT
1 TGGAGCAAATTATTA--ACGAGTGAGCCCAACATCCTTTGCTATGGAGT
99139 GGAGCATAAT
Statistics
Matches: 222, Mismatches: 48, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
46 7 0.03
47 64 0.29
48 101 0.45
49 44 0.20
50 5 0.02
51 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (49 bp):
TGGAGCAAATTATTAACGAGTGAGCCCAACATCCTTTGCTATGGAGTAG
Found at i:101695 original size:42 final size:40
Alignment explanation
Indices: 101614--101709 Score: 97
Period size: 42 Copynumber: 2.3 Consensus size: 40
101604 TATTTTATTT
*
101614 ATAATATA-TTTATAATATTTTTTATATTTAAAATGATTAAA
1 ATAATATATTTTATAATATTTATTATATTTAAAA-GATT-AA
* *
101655 ATAATATATTTTATAATAATTTATTATTTTTTAACA-ATTAA
1 ATAATATATTTTATAAT-ATTTATTA-TATTTAAAAGATTAA
*
101696 ATAACCATATTTTA
1 ATAA-TATATTTTA
101710 ACACTATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
41 14 0.30
42 19 0.40
43 7 0.15
44 7 0.15
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (40 bp):
ATAATATATTTTATAATATTTATTATATTTAAAAGATTAA
Found at i:103813 original size:43 final size:43
Alignment explanation
Indices: 103765--103851 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
103755 ACAAGCGTAG
* *
103765 ATAAAATTGCATGACACAATTGGGGATGATAATTTAATTCGAA
1 ATAAAATTGCATGACAAAATTGGAGATGATAATTTAATTCGAA
103808 ATAAAATTGCATGACAAAATTGGAGATGATAATTTAATTCGAA
1 ATAAAATTGCATGACAAAATTGGAGATGATAATTTAATTCGAA
103851 A
1 A
103852 CCGATGGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (43 bp):
ATAAAATTGCATGACAAAATTGGAGATGATAATTTAATTCGAA
Found at i:104558 original size:30 final size:30
Alignment explanation
Indices: 104524--104580 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
104514 AAATTACGTA
104524 TTTAATACCTAAACTATTAATTTTTTCTGT
1 TTTAATACCTAAACTATTAATTTTTTCTGT
*
104554 TTTAATACCTAAACTTTTAATTTTTTC
1 TTTAATACCTAAACTATTAATTTTTTC
104581 AAAATCGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTAATACCTAAACTATTAATTTTTTCTGT
Found at i:106857 original size:16 final size:16
Alignment explanation
Indices: 106838--106886 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
106828 AATCCTAACT
106838 CTTAAATTCAAAATGA
1 CTTAAATTCAAAATGA
**
106854 CTTAAACACAAAATGA
1 CTTAAATTCAAAATGA
*
106870 -TACAAATTCAAAATGA
1 CT-TAAATTCAAAATGA
106886 C
1 C
106887 ATGAATAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.24
Consensus pattern (16 bp):
CTTAAATTCAAAATGA
Found at i:107532 original size:31 final size:31
Alignment explanation
Indices: 107491--107560 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
107481 CTAAAGTTTG
107491 GGGTCAAAATAATATGTCGACTGAATTTCAA
1 GGGTCAAAATAATATGTCGACTGAATTTCAA
* * *
107522 GGTTCAAAATAATATGTCGATTGAATTTTAA
1 GGGTCAAAATAATATGTCGACTGAATTTCAA
107553 GGGTCAAA
1 GGGTCAAA
107561 TTAGTATTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (31 bp):
GGGTCAAAATAATATGTCGACTGAATTTCAA
Found at i:112929 original size:12 final size:12
Alignment explanation
Indices: 112912--112937 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
112902 TCGGGTATCA
112912 GGGATTTTTTCG
1 GGGATTTTTTCG
112924 GGGATTTTTTCG
1 GGGATTTTTTCG
112936 GG
1 GG
112938 TCGGGTTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.38, T:0.46
Consensus pattern (12 bp):
GGGATTTTTTCG
Found at i:119672 original size:21 final size:21
Alignment explanation
Indices: 119633--119674 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
119623 AAACCATTCA
119633 GGGGGGAATCGGTACCCCCTT
1 GGGGGGAATCGGTACCCCCTT
*
119654 GGGGAGGAATCGGTTCCCCCT
1 GGGG-GGAATCGGTACCCCCT
119675 GGACAAACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.19
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTT
Found at i:122341 original size:22 final size:23
Alignment explanation
Indices: 122295--122355 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
122285 ATTCCTCTAG
122295 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
122318 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGGTTCCCCTTCAAA
* *
122340 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
122356 TCTACCCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:128218 original size:48 final size:49
Alignment explanation
Indices: 128130--128223 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 49
128120 ATAAATTGTC
*
128130 TCTATTATTATTAAAATTTAAAAAAAATCAAAAATATATTTAATTTATTAT
1 TCTATTATTATCAAAATTTAAAAAAAA-CAAAAATATATTT-ATTTATTAT
* *
128181 TCTATTATT-TCAAAA-TTATAAAAAAA-AAATATTTATTTATTTA
1 TCTATTATTATCAAAATTTA-AAAAAAACAAAAATATATTTATTTA
128224 AAAATATCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
47 5 0.13
48 10 0.26
49 3 0.08
50 12 0.31
51 9 0.23
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (49 bp):
TCTATTATTATCAAAATTTAAAAAAAACAAAAATATATTTATTTATTAT
Found at i:128481 original size:20 final size:21
Alignment explanation
Indices: 128458--128504 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
128448 AAATTATTTA
128458 AATATATAA-ACAATTAAAAC
1 AATATATAATACAATTAAAAC
* * *
128478 AATA-AAAATATAATTAGAAC
1 AATATATAATACAATTAAAAC
128498 AATATAT
1 AATATAT
128505 TTAAAAGTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.14
20 17 0.81
21 1 0.05
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (21 bp):
AATATATAATACAATTAAAAC
Found at i:129824 original size:3 final size:3
Alignment explanation
Indices: 129816--130005 Score: 238
Period size: 3 Copynumber: 61.7 Consensus size: 3
129806 TTATTTATTA
* *
129816 AAT AAT AAT ATAT AAT AAT ATAT ATT ATAT AAT AAT AAAT ACT AAT AAT
1 AAT AAT AAT A-AT AAT AAT A-AT AAT A-AT AAT AAT -AAT AAT AAT AAT
**
129865 ATAT AAT AAT AAT AAT AAT AAT AAT AAT GCT AAT AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
129911 ACT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT ATT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
129959 AAT AAT ATT AAT AAT AAT AAT AAT AA- AATT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
130004 AA
1 AA
130006 AATGGATAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.01
3 144 0.89
4 16 0.10
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:130555 original size:113 final size:113
Alignment explanation
Indices: 130301--130969 Score: 1079
Period size: 113 Copynumber: 5.9 Consensus size: 113
130291 GATATCAAAC
* *
130301 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * * * **
130366 CATGAACTTTCTTTGGCCATA-TTGATCCATCAAATGATGAATTTAAACA
66 -ATGAACTTTCTCTGG-AAAAGATGATCCACCAAATGATGGATTCAGGCA
*
130415 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
130480 ATGAACTTTCTCTAGAAAAGATGATCCACCAAATGATGGATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
* **
130528 AAAGGTTGAACAAATTCTTCTTTTTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
130593 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
130641 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
130706 ATGAACTTTCTCTGGAAAAGATGATCTACCAAATGATGGATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
130754 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
130819 ATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
130867 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
130932 ATGAACTTTCTCTGGTAATGATGATCCATCAAATGATG
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATG
130970 AATTTGAATC
Statistics
Matches: 522, Mismatches: 32, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
112 2 0.00
113 458 0.88
114 62 0.12
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
Found at i:131609 original size:52 final size:51
Alignment explanation
Indices: 131531--132244 Score: 1149
Period size: 52 Copynumber: 13.7 Consensus size: 51
131521 CACTTCTTCG
* * *
131531 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAAACA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
* *
131583 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCCATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGT-CAACCA
*
131635 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
131687 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGT-CAACCA
*
131739 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGT-CAACCA
*
131791 GATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
*
131843 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGT-CAACCA
131895 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
* *
131947 GATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGTTATGATCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
* * *
131999 GATCAGATAACTCAAAGAAAACTTCTAGAAGATGCTATGTTATGATCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
* *
132051 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGT-CAACCA
132103 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
*
132155 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCAACCA
*
132207 GATCAGATAACTCAAAGAACACTTCTAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
132245 TGAGCACATA
Statistics
Matches: 628, Mismatches: 26, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
51 4 0.01
52 620 0.99
53 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (51 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCAACCA
Found at i:133195 original size:21 final size:21
Alignment explanation
Indices: 133170--133269 Score: 129
Period size: 21 Copynumber: 4.9 Consensus size: 21
133160 CCTTGACCCC
*
133170 TCTTTTTTCTTTTTTTCCTTT
1 TCTTTTTTCTTTTTTTCTTTT
*
133191 TCTTTTTT-TTTCTTT-TTTT
1 TCTTTTTTCTTTTTTTCTTTT
133210 T-TTTTTTCTTTTTTT-TTTT
1 TCTTTTTTCTTTTTTTCTTTT
133229 TCTTTTTT-TCTTTTTTCTTTT
1 TCTTTTTTCT-TTTTTTCTTTT
133250 TCTTTTTTCTCTTTTTTCTT
1 TCTTTTTTCT-TTTTTTCTT
133270 CTTCAAGCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.08
19 16 0.23
20 18 0.25
21 20 0.28
22 11 0.15
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (21 bp):
TCTTTTTTCTTTTTTTCTTTT
Found at i:133197 original size:15 final size:15
Alignment explanation
Indices: 133174--133257 Score: 93
Period size: 15 Copynumber: 5.7 Consensus size: 15
133164 GACCCCTCTT
133174 TTTTC-TTTTTTTCC
1 TTTTCTTTTTTTTCC
*
133188 TTTTCTTTTTTTTTC
1 TTTTCTTTTTTTTCC
* *
133203 TTTTTTTTTTTTTTC
1 TTTTCTTTTTTTTCC
133218 TTTT-TTTTTTTT-C
1 TTTTCTTTTTTTTCC
* *
133231 TTTTTTTCTTTTTTCT
1 TTTTCTT-TTTTTTCC
133247 TTTTCTTTTTT
1 TTTTCTTTTTT
133258 CTCTTTTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
13 5 0.08
14 15 0.24
15 36 0.58
16 6 0.10
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTTTTTTTTCC
Found at i:133198 original size:13 final size:11
Alignment explanation
Indices: 133179--133266 Score: 85
Period size: 11 Copynumber: 8.3 Consensus size: 11
133169 CTCTTTTTTC
*
133179 TTTTTTTCCTT
1 TTTTTTTCTTT
*
133190 TTCTTTT-TTT
1 TTTTTTTCTTT
*
133200 TTCTTTT-TTT
1 TTTTTTTCTTT
133210 TTTTTTTCTTT
1 TTTTTTTCTTT
*
133221 TTTTTTT-TTC
1 TTTTTTTCTTT
133231 TTTTTTTCTTT
1 TTTTTTTCTTT
*
133242 TTTCTTTT-TCT
1 TTT-TTTTCTTT
*
133253 TTTTTCTCTTT
1 TTTTTTTCTTT
133264 TTT
1 TTT
133267 CTTCTTCAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
10 30 0.46
11 31 0.48
12 4 0.06
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:133210 original size:28 final size:27
Alignment explanation
Indices: 133174--133257 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 27
133164 GACCCCTCTT
133174 TTTTCTTTTTTTCCTTTTCTTTTTTTTTC
1 TTTT-TTTTTTT-CTTTTCTTTTTTTTTC
133203 -TTTTTTTTTT-TTTTCTTTTTTTTT-
1 TTTTTTTTTTTCTTTTCTTTTTTTTTC
* *
133227 TTTCTTTTTTTC-TTT-TTTCTTTTTC
1 TTTTTTTTTTTCTTTTCTTTTTTTTTC
133252 TTTTTT
1 TTTTTT
133258 CTCTTTTTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
24 8 0.16
25 31 0.63
27 7 0.14
28 3 0.06
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (27 bp):
TTTTTTTTTTTCTTTTCTTTTTTTTTC
Found at i:133258 original size:28 final size:27
Alignment explanation
Indices: 133172--133269 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 27
133162 TTGACCCCTC
*
133172 TTTTTTCTTTTTTTC-CTTTTC--TTT
1 TTTTTTCTTTTTTTCTTTTTTCTTTTT
*
133196 TTTTTTCTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTCTTTTTTTCTTTTTTC-TTTTT
133224 TTTTTTCTTTTTTTCTTTTTTCTTTTT
1 TTTTTTCTTTTTTTCTTTTTTCTTTTT
133251 CTTTTTTCTCTTTTTTCTT
1 -TTTTTTCT-TTTTTTCTT
133270 CTTCAAGCAT
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.22
25 5 0.08
27 5 0.08
28 32 0.49
29 9 0.14
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (27 bp):
TTTTTTCTTTTTTTCTTTTTTCTTTTT
Found at i:133262 original size:15 final size:14
Alignment explanation
Indices: 133173--133269 Score: 114
Period size: 13 Copynumber: 7.1 Consensus size: 14
133163 TGACCCCTCT
133173 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
*
133187 CTTTTCTTTTTTT-
1 TTTTTCTTTTTTTC
*
133200 TTCTT-TTTTTTT-
1 TTTTTCTTTTTTTC
133212 TTTTTCTTTTTTT-
1 TTTTTCTTTTTTTC
133225 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
*
133239 TTTTT-TCTTTTTC
1 TTTTTCTTTTTTTC
133252 TTTTTTCTCTTTTTTC
1 -TTTTTCT-TTTTTTC
133268 TT
1 TT
133270 CTTCAAGCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.15
13 30 0.42
14 22 0.31
15 3 0.04
16 6 0.08
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:133266 original size:1 final size:1
Alignment explanation
Indices: 133172--133257 Score: 82
Period size: 1 Copynumber: 86.0 Consensus size: 1
133162 TTGACCCCTC
* ** * * * *
133172 TTTTTTCTTTTTTTCCTTTTCTTTTTTTTTCTTTTTTTTTTTTTTCTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
133237 TCTTTTTTCTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
133258 CTCTTTTTTC
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Done.