Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006645.1 Hibiscus syriacus cultivar Beakdansim tig00016361_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: 164006
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1465 original size:39 final size:41
Alignment explanation
Indices: 1412--1493 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
1402 CCGTTAGACA
* *
1412 GGGGGAATCGGTA-CCCCT-GGGGGGAATATGTTCCCCCTG
1 GGGGGAATCGGTACCCCCTGGGGGGGAATAGGTACCCCCTG
*
1451 GGGGGAATCGGTACCCCCTGGGGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTGGGGGGGAATAGGTACCCCCTG
1492 GG
1 GG
1494 CAATCTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 13 0.34
40 5 0.13
41 20 0.53
ACGTcount: A:0.15, C:0.27, G:0.41, T:0.17
Consensus pattern (41 bp):
GGGGGAATCGGTACCCCCTGGGGGGGAATAGGTACCCCCTG
Found at i:1468 original size:21 final size:20
Alignment explanation
Indices: 1412--1493 Score: 121
Period size: 20 Copynumber: 4.1 Consensus size: 20
1402 CCGTTAGACA
1412 GGGGGAATCGGTA-CCCCTG
1 GGGGGAATCGGTACCCCCTG
** *
1431 GGGGGAATATGTTCCCCCTG
1 GGGGGAATCGGTACCCCCTG
1451 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCT-G
1472 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
1492 GG
1 GG
1494 CAATCTGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.18
20 25 0.45
21 20 0.36
ACGTcount: A:0.15, C:0.27, G:0.41, T:0.17
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCCTG
Found at i:3637 original size:26 final size:26
Alignment explanation
Indices: 3597--3646 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
3587 ATTGAGACAG
* *
3597 TCAATGGGTCTGGTCAAAGTCAACAA
1 TCAACGGGTCGGGTCAAAGTCAACAA
*
3623 TCAACGGGTCGGGTCAATGTCAAC
1 TCAACGGGTCGGGTCAAAGTCAAC
3647 GGATCGGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (26 bp):
TCAACGGGTCGGGTCAAAGTCAACAA
Found at i:4027 original size:3 final size:3
Alignment explanation
Indices: 4016--4134 Score: 67
Period size: 3 Copynumber: 41.0 Consensus size: 3
4006 TATAAAATAA
* *
4016 TAT TA- TAT TAT TAT ATAT T-T AAT TAT TAT TAG TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4059 ATAT T-T TA- TAT GTA- AAA TAT TAT TA- TAT TAT TAAT TAT TA- TAG
1 -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* *
4102 TAT TAT TAT TAT ATAT T-T AAT TAT TAA TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
4135 ATACACATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
2 15 0.16
3 62 0.68
4 14 0.15
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:4052 original size:29 final size:29
Alignment explanation
Indices: 4019--4136 Score: 131
Period size: 29 Copynumber: 4.2 Consensus size: 29
4009 AAAATAATAT
4019 TATATTATTATATATTTAATTATTATTAG
1 TATATTATTATATATTTAATTATTATTAG
*
4048 TATATTATTATATA-TT--TTA-TATGTAA
1 TATATTATTATATATTTAATTATTAT-TAG
*
4074 AATATTATTATAT-TATTAATTATTA-TAG
1 TATATTATTATATAT-TTAATTATTATTAG
* *
4102 TATTATTATTATATATTTAATTATTAATAT
1 TA-TATTATTATATATTTAATTATTATTAG
4132 TATAT
1 TATAT
4137 ACACATTTAA
Statistics
Matches: 75, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
25 3 0.04
26 17 0.23
27 2 0.03
28 5 0.07
29 41 0.55
30 7 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TATATTATTATATATTTAATTATTATTAG
Found at i:4068 original size:7 final size:7
Alignment explanation
Indices: 4015--4137 Score: 73
Period size: 8 Copynumber: 17.4 Consensus size: 7
4005 ATATAAAATA
4015 ATATTAT
1 ATATTAT
4022 ATTATTAT
1 A-TATTAT
4030 ATATT-T
1 ATATTAT
4036 A-ATTAT
1 ATATTAT
4042 -TATTAGT
1 ATATTA-T
4049 ATATTAT
1 ATATTAT
4056 -TA-TAT
1 ATATTAT
*
4061 ATTTTAT
1 ATATTAT
* * *
4068 ATGTAAA
1 ATATTAT
4075 ATATTATT
1 ATATTA-T
4083 ATATTATT
1 ATATTA-T
4091 AATTATTAT
1 -A-TATTAT
4100 AGTATTAT
1 A-TATTAT
4108 -TATTAT
1 ATATTAT
4114 ATATT-T
1 ATATTAT
4120 A-ATTATT
1 ATATTA-T
4127 AATATTAT
1 -ATATTAT
4135 ATA
1 ATA
4138 CACATTTAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
5 9 0.10
6 18 0.19
7 26 0.28
8 29 0.31
9 6 0.06
10 5 0.05
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:7986 original size:75 final size:75
Alignment explanation
Indices: 7899--8727 Score: 387
Period size: 75 Copynumber: 11.2 Consensus size: 75
7889 CGATCAAAAA
* **
7899 TCTAAATTTCCTGATCCTGAACCTCAAGCCATGCCTTGTGAACATTCTGGAATCAACATGTTCGG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCTCTGGAATCAACATGTTCGG
7964 AAAACAGGCT
66 AAAACAGGCT
* ** * *
7974 TCTAAATTTCCTG-A----AA-CTCAAGCGATGAATTGTGAACCCACTGGAA-CAAACATGTTTG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCTCTGGAATC-AACATGTTCG
**
8032 GGCAACAGGCT
65 GAAAACAGGCT
* * ** * *
8043 TCTAAATTTCTTGAACCTGAAACTCAAGTTATGCCCTGTGAACCCCCTGGAATCAACATGTTCGG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCTCTGGAATCAACATGTTCGG
**
8108 AAAACAAACT
66 AAAACAGGCT
* * * ** * * * * * *
8118 TTTAAGTTTCCTGGACCCCAATCTCAAGCTATACCCTCTGAACCC-CTTGGAATCAACATGTTTG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCTC-TGGAATCAACATGTTCG
* *
8182 GGAAACAAGCT
65 GAAAACAGGCT
** ** * * *
8193 TCTAAATTTCCTGGTCCTGAATCC-CAAGCTTTTCCCTGTGAACCC-CT-CAGATCAACATGTTC
1 TCTAAATTTCCTGAACCTGAA-CCTCAAGCCATGCCTTGTGAACCCTCTGGA-ATCAACATGTTC
* *
8255 GAAAAACAGCCT
64 GGAAAACAGGCT
* * ** * * * * * * *
8267 ACTAAATTTCCTGAATCTGGTCCTCAAGCCATGCCCTCTGATCCCACTGGGATCAACATTTTTGG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCTCTGGAATCAACATGTTCGG
* * **
8332 GAATCAAACT
66 AAAACAGGCT
* * * * * * * * * * *
8342 TCTAAGTTTCATGAACTTGAACCACAAGGCATTCGTTGTGAA-CTTACCGGAATGAACATGTTTG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCT-CTGGAATCAACATGTTCG
* *
8406 GCAAGCAAGG-T
65 GAAAAC-AGGCT
* * * * * * *
8417 TCTAAATTTCCTGAACCT----CT--ACCCATGCTTTGTGAA-CCTGCTAGAAACAATATTTTTG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCT-CTGGAATCAACATGTTCG
* * **
8475 GGAAGCAAACT
65 GAAAACAGGCT
* * ** ** ** *
8486 TCCAAATTTCCCGAACCTGATTCTCAAGCCATATCTTACGAACCCAT-TGGATTCAACATGTTCG
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCC-TCTGGAATCAACATGTTCG
*
8550 GAAAACAGACT
65 GAAAACAGGCT
* * * * * * *
8561 TCTAAA-TTCCTTGAACCTGGACCCCAAGCGATACC--GTGCAAACTTACTGGATTCAACATGTT
1 TCTAAATTTCC-TGAACCTGAACCTCAAGCCATGCCTTGTG-AACCCT-CTGGAATCAACATGTT
* *
8623 CAGAAATCAGGCT
63 CGGAAAACAGGCT
* * * * * * *
8636 CCTAAATTTCCGGAACTTGAACCCCAAGCCATACCATCTGAA-CCTACTGGAATCAACATGCTT-
1 TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCT-CTGGAATCAACATG-TTC
8699 GGAAAACAGGCT
64 GGAAAACAGGCT
** *
8711 TCCCAATTTCCCGAACC
1 TCTAAATTTCCTGAACC
8728 CCAAGCCATA
Statistics
Matches: 561, Mismatches: 160, Indels: 66
0.71 0.20 0.08
Matches are distributed among these distances:
68 2 0.00
69 102 0.18
70 3 0.01
71 1 0.00
73 7 0.01
74 62 0.11
75 368 0.66
76 13 0.02
77 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (75 bp):
TCTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCCTCTGGAATCAACATGTTCGG
AAAACAGGCT
Found at i:8007 original size:69 final size:69
Alignment explanation
Indices: 7913--8057 Score: 175
Period size: 69 Copynumber: 2.1 Consensus size: 69
7903 AATTTCCTGA
* ** **
7913 TCCTGAACCTCAAGCCATGCCTTGTGAACATTCTGGAATC-AACATGTTCGGAAAACAGGCTTCT
1 TCCTGAAACTCAAGCCATGAATTGTGAACACACTGGAA-CAAACATGTTCGGAAAACAGGCTTCT
7977 AAATT
65 AAATT
* * * **
7982 TCCTGAAACTCAAGCGATGAATTGTGAACCCACTGGAACAAACATGTTTGGGCAACAGGCTTCTA
1 TCCTGAAACTCAAGCCATGAATTGTGAACACACTGGAACAAACATGTTCGGAAAACAGGCTTCTA
8047 AATT
66 AATT
*
8051 TCTTGAA
1 TCCTGAA
8058 CCTGAAACTC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 1 0.02
69 63 0.98
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (69 bp):
TCCTGAAACTCAAGCCATGAATTGTGAACACACTGGAACAAACATGTTCGGAAAACAGGCTTCTA
AATT
Found at i:8213 original size:150 final size:144
Alignment explanation
Indices: 7899--8281 Score: 373
Period size: 144 Copynumber: 2.6 Consensus size: 144
7889 CGATCAAAAA
* ** * ***
7899 TCTAAATTTCCTGATCCTGAACCTCAAGCCATGCCTTGTGAACATTCTGGAATCAACATGTTCGG
1 TCTAAATTTCCTGATCCTGAAACTCAAGTTATGCCCTGTGAACCCCCTGGAATCAACATGTTCGG
** * *
7964 AAAACAGGCTTCTAAATTTCCTGAAACTCAAGCGATGAATTGTGAACCCACTGGAACAAACATGT
66 AAAACAAACTTCTAAATTTCCTGAAACTCAAGCGATGAACTCTGAACCCACTGGAACAAACATGT
* *
8029 TTGGGCAACAGGCT
131 TTGGGAAACAAGCT
* *
8043 TCTAAATTTCTTGAACCTGAAACTCAAGTTATGCCCTGTGAACCCCCTGGAATCAACATGTTCGG
1 TCTAAATTTCCTGATCCTGAAACTCAAGTTATGCCCTGTGAACCCCCTGGAATCAACATGTTCGG
* * * *
8108 AAAACAAACTTTTAAGTTTCCTGGACCCCAATCTCAAGCTAT-ACCCTCTGAACCC-CTTGGAAT
66 AAAACAAACTTCTAAATTTCCT-GA----AA-CTCAAGCGATGA-ACTCTGAACCCAC-TGGAA-
8171 C-AACATGTTTGGGAAACAAGCT
122 CAAACATGTTTGGGAAACAAGCT
* * * * *
8193 TCTAAATTTCCTGGTCCTGAATCCCAAGCTT-TTCCCTGTGAA-CCCCT-CAGATCAACATGTTC
1 TCTAAATTTCCTGATCCTGAAACTCAAG-TTATGCCCTGTGAACCCCCTGGA-ATCAACATGTTC
* ** *
8255 GAAAAACAGCCTACTAAATTTCCTGAA
64 GGAAAACAAACTTCTAAATTTCCTGAA
8282 TCTGGTCCTC
Statistics
Matches: 196, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
144 75 0.38
145 2 0.01
148 3 0.02
149 39 0.20
150 74 0.38
151 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (144 bp):
TCTAAATTTCCTGATCCTGAAACTCAAGTTATGCCCTGTGAACCCCCTGGAATCAACATGTTCGG
AAAACAAACTTCTAAATTTCCTGAAACTCAAGCGATGAACTCTGAACCCACTGGAACAAACATGT
TTGGGAAACAAGCT
Found at i:8753 original size:69 final size:69
Alignment explanation
Indices: 8654--8846 Score: 255
Period size: 69 Copynumber: 2.8 Consensus size: 69
8644 TCCGGAACTT
*
8654 GAACCCCAAGCCATACCATC-TGAACCTACTGGAATCAACATGCTT-GGAAAACAGGCTTCCCAA
1 GAACCCCAAGCCATACC-TCATGAACCTACTGGAATCAACATG-TTCGGAAAACAGGATTCCCAA
8717 TTTCCC
64 TTTCCC
* * * *
8723 GAACCCCAAGCCATACCTCATGAACCTACTGGAATCAGCATGTTCGAAAAACATGATTCCCATTT
1 GAACCCCAAGCCATACCTCATGAACCTACTGGAATCAACATGTTCGGAAAACAGGATTCCCAATT
*
8788 TCCT
66 TCCC
* * * * *
8792 GAACCCAAATCTATACCTTATGAAACTACTGGAATCAACATGTTCGGAAAACAGG
1 GAACCCCAAGCCATACCTCATGAACCTACTGGAATCAACATGTTCGGAAAACAGG
8847 TGCCTTCAAG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
68 4 0.04
69 104 0.96
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (69 bp):
GAACCCCAAGCCATACCTCATGAACCTACTGGAATCAACATGTTCGGAAAACAGGATTCCCAATT
TCCC
Found at i:15930 original size:55 final size:54
Alignment explanation
Indices: 15861--16300 Score: 360
Period size: 55 Copynumber: 8.1 Consensus size: 54
15851 TAGATAAGCG
* * * * * *
15861 AGACTTGAAAAATCTTCAAATGACGGGTCCGCTCCCTATTCTTTTAGGTAGTATA
1 AGACTCGAACAATCTTCAAA-AACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
* ** * * *
15916 AGACTCGGACAATCTTCGGTAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA
1 AGACTCGAACAATCTTC-AAAAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
* * ** *
15971 AGACTCAAACAATCTTCAACAAACGTGTTTGCTCCCTGTTCGTTCAGGGAGTATA
1 AGACTCGAACAATCTTCAA-AAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
* * * *
16026 AGACTTGAATAATCTTCAACAAACGGGTCTGCTCCCTATTTC-TTCAGAGAGTATA
1 AGACTCGAACAATCTTCAA-AAACGGGTCCGCTCCCTA-TTCGTTCAGGGAGTATA
* * *
16081 AGACTCG----ATCTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
1 AGACTCGAACAATCTTCAA-AAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
* * * * *
16132 GGACTCAAACAATTTTCAACAAACAGGTCCGTTCCCTATTCGTTCAGGGAGTAT-
1 AGACTCGAACAATCTTCAA-AAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
* * *
16186 AGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATA
1 AG-ACTCGAACAATCTTCA-AAAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
* * * * * * *
16242 GGACT-G---GATCTTCACCAAACAGGTCCGCTCTCTATTCCTTCAGAGAGTATA
1 AGACTCGAACAATCTTCA-AAAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
*
16293 GGACTCGA
1 AGACTCGA
16301 TCTTCATAAA
Statistics
Matches: 321, Mismatches: 51, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
50 3 0.01
51 88 0.27
52 1 0.00
54 2 0.01
55 221 0.69
56 6 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (54 bp):
AGACTCGAACAATCTTCAAAAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
Found at i:16153 original size:161 final size:159
Alignment explanation
Indices: 15861--16298 Score: 515
Period size: 161 Copynumber: 2.7 Consensus size: 159
15851 TAGATAAGCG
* *
15861 AGACTTGAAAAATCTTCAAATGACGGGTCCGCTCCCTA-TTCTTTTAG-GTAGTATAAGACTCGG
1 AGACTTGAAAAATCTTCAAA-AACGGGTCCGCTCCCTATTTC-TTCAGAG-AGTATAAGACTC-G
** * * * *
15924 ACAATCTTCGGTAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCAAACAATCTTCA
62 ---ATCTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCA
** *
15989 ACAAAC-GTGTTTGCTCCCTGTTCGTTCAGGGAGTAT
124 ACAAACAG-GTCCGCTCCCTATTCGTTCAGGGAGTAT
* *
16025 AAGACTTGAATAATCTTCAACAAACGGGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAT
1 -AGACTTGAAAAATCTTCAA-AAACGGGTCCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAT
*
16090 CTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATTTTCAACAAA
64 CTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAA
*
16155 CAGGTCCGTTCCCTATTCGTTCAGGGAGTAT
129 CAGGTCCGCTCCCTATTCGTTCAGGGAGTAT
* * * * * *
16186 AGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTGGAT
1 AG-ACTTGAAAAATCTTCA-AAAACGGGTCCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAT
** *
16251 CTTCACCAAACAG-GTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTC
64 CTTCAATAAAC-GTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC
16299 GATCTTCATA
Statistics
Matches: 241, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
160 2 0.01
161 181 0.75
162 3 0.01
164 1 0.00
165 49 0.20
166 5 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (159 bp):
AGACTTGAAAAATCTTCAAAAACGGGTCCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCT
TCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACA
GGTCCGCTCCCTATTCGTTCAGGGAGTAT
Found at i:16358 original size:37 final size:38
Alignment explanation
Indices: 16309--16382 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 38
16299 GATCTTCATA
16309 AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTAT
1 AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTAT
*
16347 AAATGA-TTTGCTTCACTACTCTTCCGTGAAGGCTTA
1 AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTA
16383 AGATTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 29 0.83
38 6 0.17
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (38 bp):
AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTAT
Found at i:17672 original size:7 final size:7
Alignment explanation
Indices: 17662--17704 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
17652 TCCTTTTATT
17662 TTTTTTC
1 TTTTTTC
*
17669 TTTTTCTT
1 TTTTT-TC
17677 TTTTCTTC
1 TTTT-TTC
17685 TTTTTTC
1 TTTTTTC
*
17692 ATTTTTC
1 TTTTTTC
17699 TTTTTT
1 TTTTTT
17705 TTCATTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 19 0.63
8 10 0.33
9 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:17685 original size:16 final size:16
Alignment explanation
Indices: 17655--17724 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
17645 TGAACCCTCC
*
17655 TTTTATTTTTT-TTCT
1 TTTTCTTTTTTCTTCT
17670 TTTTCTTTTTTCTTCTT
1 TTTTCTTTTTTCTTC-T
* *
17687 TTTTCATTTTTCTTTT
1 TTTTCTTTTTTCTTCT
*
17703 TTTTCATTTTTCATT-T
1 TTTTCTTTTTTC-TTCT
17719 TTTTCT
1 TTTTCT
17725 CATTTTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
15 10 0.21
16 22 0.46
17 16 0.33
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTTTCTTCT
Found at i:17696 original size:23 final size:23
Alignment explanation
Indices: 17663--17741 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 23
17653 CCTTTTATTT
* *
17663 TTTTTCTTTTTCTTTTTTCTTCT
1 TTTTTCATTTTCTTTTTTCTTCA
17686 TTTTTCATTTTTCTTTTTT-TTCA
1 TTTTTCA-TTTTCTTTTTTCTTCA
17709 TTTTTCA---T-TTTTTTC-TCA
1 TTTTTCATTTTCTTTTTTCTTCA
17727 TTTTTCATTTTCTTT
1 TTTTTCATTTTCTTT
17742 CATTTTCCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
18 16 0.33
19 1 0.02
21 1 0.02
22 3 0.06
23 16 0.33
24 11 0.23
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTCATTTTCTTTTTTCTTCA
Found at i:17706 original size:10 final size:10
Alignment explanation
Indices: 17655--17768 Score: 50
Period size: 11 Copynumber: 10.2 Consensus size: 10
17645 TGAACCCTCC
*
17655 TTTTATTTTT
1 TTTTCTTTTT
*
17665 TTTCTTTTTCTT
1 TTT-TCTTT-TT
*
17677 TTTTCTTCTT
1 TTTTCTTTTT
17687 TTTTCATTTTT
1 TTTTC-TTTTT
17698 CTTTT-TTTTCAT
1 -TTTTCTTTT--T
17710 TTTTCATTTTT
1 TTTTC-TTTTT
*
17721 TTCTCATTTTT
1 TTTTC-TTTTT
17732 CATTTTCTTTCATT
1 --TTTTCTTT--TT
* *
17746 TTCCTCCTTTT
1 TT-TTCTTTTT
17757 TTTTCTTTTT
1 TTTTCTTTTT
17767 TT
1 TT
17769 CATTTCTTCT
Statistics
Matches: 81, Mismatches: 10, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
10 22 0.27
11 30 0.37
12 15 0.19
13 12 0.15
14 2 0.02
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:17748 original size:16 final size:17
Alignment explanation
Indices: 17669--17773 Score: 115
Period size: 17 Copynumber: 6.0 Consensus size: 17
17659 ATTTTTTTTC
*
17669 TTTTTCTTTTTTC-TTCT
1 TTTTTCATTTTTCATT-T
17686 TTTTTCATTTTTC-TTT
1 TTTTTCATTTTTCATTT
17702 TTTTTCATTTTTCATTT
1 TTTTTCATTTTTCATTT
17719 TTTTCTCATTTTTCATTT
1 TTTT-TCATTTTTCATTT
* *
17737 TCTTTCATTTTCCTCCTTT
1 TTTTTCATTTT--TCATTT
*
17756 TTTTTCTTTTTTTCATTT
1 TTTTTC-ATTTTTCATTT
17774 CTTCTTCAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
16 14 0.18
17 28 0.36
18 21 0.27
19 10 0.13
20 4 0.05
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTTCATTT
Found at i:24345 original size:45 final size:45
Alignment explanation
Indices: 24278--24429 Score: 250
Period size: 45 Copynumber: 3.3 Consensus size: 45
24268 CCATGCTTTG
*
24278 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
1 TTATTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
24325 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
24370 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
*
24415 ATTTATTCGAAAAAT
1 --TTATTCAAAAAAT
24430 GAAAATAAAT
Statistics
Matches: 101, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
45 73 0.72
46 9 0.09
47 19 0.19
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (45 bp):
TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
Found at i:30022 original size:31 final size:32
Alignment explanation
Indices: 29987--30048 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
29977 TATACTAGCA
* * *
29987 AAGCAGATTT-ATAAGTAATGTATAAGGAAAC
1 AAGCAGATTTAACAAGTAATATATAAAGAAAC
30018 AAGCAGATTTAACAAGTAATATATAAAGAAA
1 AAGCAGATTTAACAAGTAATATATAAAGAAA
30049 TAAGATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.24
Consensus pattern (32 bp):
AAGCAGATTTAACAAGTAATATATAAAGAAAC
Found at i:33114 original size:64 final size:65
Alignment explanation
Indices: 33046--33186 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 65
33036 GAACACTTGA
* *
33046 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGCG
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGCG
***** ** * *
33110 TGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGCG
33175 TGCATCGATGCA
1 TGCATCGATGCA
33187 TGGAGAATGC
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
64 40 0.62
65 25 0.38
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (65 bp):
TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGCG
Found at i:33206 original size:65 final size:65
Alignment explanation
Indices: 33065--33224 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 65
33055 GCACCAAGTG
* * ****
33065 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGCGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
* **
33129 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAGAA
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
* * *
33194 TGCTTCGGTGCATGGAATGCATTCGATGTTT
1 TGCATCGATGCATGAAATGCATTCGATGTTT
33225 CAATTAATTC
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 27 0.33
65 55 0.67
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
Found at i:33267 original size:65 final size:65
Alignment explanation
Indices: 33065--33273 Score: 176
Period size: 65 Copynumber: 3.2 Consensus size: 65
33055 GCACCAAGTG
* * * ** * ** *
33065 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGCGTGCATCGATGCATGGCTTG
1 TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAATATTCAGAATGCATCGATGCATTG-TTG
33129 -
65 A
* * * **
33129 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCA-TGGAGA
1 TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAATATTCAGAATGCATCGATGCATTGTTG-
33193 A
65 A
* ** * *
33194 TGCTTCGGTGCATGGAATGCATTCGATG-TTTC-AATTAATTCACTAATGCATCGATGCATTGTT
1 TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAAT-ATTCA-GAATGCATCGATGCATTGTT
33257 GA
64 GA
33259 TGCATCGGTGCATCA
1 TGCATCGGTGCATCA
33274 CCTCAAATAA
Statistics
Matches: 118, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
63 4 0.03
64 36 0.31
65 75 0.64
66 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (65 bp):
TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAATATTCAGAATGCATCGATGCATTGTTGA
Found at i:37758 original size:20 final size:21
Alignment explanation
Indices: 37711--37772 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
37701 ATTCCACTGT
*
37711 AGGGGGAATTGGTTCCCCTTCAA
1 AGGGGGAATCGGTT-CCC-TCAA
37734 AGGGGGAATCGGTTCCCTC-A
1 AGGGGGAATCGGTTCCCTCAA
* *
37754 AGGGGGGATCGATTCCCTC
1 AGGGGGAATCGGTTCCCTC
37773 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.23
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTCAA
Found at i:44233 original size:29 final size:31
Alignment explanation
Indices: 44201--44268 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
44191 AGTATGCTCA
* *
44201 TAATAATAAA-TATTGAAAAAA-TGGACTTC-
1 TAATAATAAAGTACTGAAAAAATTAGAC-TCG
44230 TAATAA-AAAGTACTGAAAAAATTAGACTCG
1 TAATAATAAAGTACTGAAAAAATTAGACTCG
44260 TAATAATAA
1 TAATAATAA
44269 CAAATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 18 0.55
30 10 0.30
31 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.28
Consensus pattern (31 bp):
TAATAATAAAGTACTGAAAAAATTAGACTCG
Found at i:44375 original size:29 final size:29
Alignment explanation
Indices: 44310--44391 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
44300 AGAAGTATGT
44310 CCCTAATAAAAAATATTAAAGAAATTAGGC
1 CCCTAATAAAAAATATTAAA-AAATTAGGC
* *
44340 CCCTAATAACAAGTATTAAAAAATT-GGAC
1 CCCTAATAAAAAATATTAAAAAATTAGG-C
* *
44369 CCTTAATAATAAATATTAAAAAA
1 CCCTAATAAAAAATATTAAAAAA
44392 ATATTGGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.04
29 26 0.57
30 18 0.39
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (29 bp):
CCCTAATAAAAAATATTAAAAAATTAGGC
Found at i:45957 original size:8 final size:8
Alignment explanation
Indices: 45944--46164 Score: 352
Period size: 8 Copynumber: 27.6 Consensus size: 8
45934 TTGACAAAGT
45944 ATACATAC
1 ATACATAC
45952 ATACATAC
1 ATACATAC
45960 ATACATAC
1 ATACATAC
45968 ATACATAC
1 ATACATAC
45976 ATACATAC
1 ATACATAC
45984 ATACATAC
1 ATACATAC
45992 ATACATAC
1 ATACATAC
46000 ATACATAC
1 ATACATAC
46008 ATACATAC
1 ATACATAC
46016 ATACATAC
1 ATACATAC
46024 ATACATAC
1 ATACATAC
46032 ATACATAC
1 ATACATAC
46040 ATACATAC
1 ATACATAC
46048 ATACATAC
1 ATACATAC
46056 ATACATAC
1 ATACATAC
46064 ATACATAC
1 ATACATAC
46072 ATACATAC
1 ATACATAC
46080 ATACATAC
1 ATACATAC
46088 ATACATAC
1 ATACATAC
*
46096 ATACACAC
1 ATACATAC
**
46104 ATACACGC
1 ATACATAC
46112 ATACATAC
1 ATACATAC
*
46120 ATACACAC
1 ATACATAC
**
46128 ATACACGC
1 ATACATAC
*
46136 ATACACAC
1 ATACATAC
**
46144 ATACACGC
1 ATACATAC
*
46152 ATACACAC
1 ATACATAC
46160 ATACA
1 ATACA
46165 CGCATACACG
Statistics
Matches: 204, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 204 1.00
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (8 bp):
ATACATAC
Found at i:46981 original size:8 final size:8
Alignment explanation
Indices: 46095--46980 Score: 1700
Period size: 8 Copynumber: 110.8 Consensus size: 8
46085 TACATACATA
*
46095 CATACACA
1 CATACACG
46103 CATACACG
1 CATACACG
**
46111 CATACATA
1 CATACACG
*
46119 CATACACA
1 CATACACG
46127 CATACACG
1 CATACACG
*
46135 CATACACA
1 CATACACG
46143 CATACACG
1 CATACACG
*
46151 CATACACA
1 CATACACG
46159 CATACACG
1 CATACACG
46167 CATACACG
1 CATACACG
46175 CATACACG
1 CATACACG
46183 CATACACG
1 CATACACG
46191 CATACACG
1 CATACACG
46199 CATACACG
1 CATACACG
46207 CATACACG
1 CATACACG
46215 CATACACG
1 CATACACG
46223 CATACACG
1 CATACACG
46231 CATACACG
1 CATACACG
46239 CATACACG
1 CATACACG
46247 CATACACG
1 CATACACG
46255 CATACACG
1 CATACACG
46263 CATACACG
1 CATACACG
46271 CATACACG
1 CATACACG
46279 CATACACG
1 CATACACG
46287 CATACACG
1 CATACACG
46295 CATACACG
1 CATACACG
46303 CATACACG
1 CATACACG
46311 CATACACG
1 CATACACG
46319 CATACACG
1 CATACACG
46327 CATACACG
1 CATACACG
46335 CATACACG
1 CATACACG
46343 CATACACG
1 CATACACG
46351 CATACACG
1 CATACACG
46359 CATACACG
1 CATACACG
46367 CATACACG
1 CATACACG
46375 CATACACG
1 CATACACG
46383 CATACACG
1 CATACACG
46391 CATACACG
1 CATACACG
46399 CATACACG
1 CATACACG
46407 CATACACG
1 CATACACG
46415 CATACACG
1 CATACACG
46423 CATACACG
1 CATACACG
46431 CATACACG
1 CATACACG
46439 CATACACG
1 CATACACG
46447 CATACACG
1 CATACACG
46455 CATACACG
1 CATACACG
46463 CATACACG
1 CATACACG
46471 CATACACG
1 CATACACG
46479 CATACACG
1 CATACACG
46487 CATACACG
1 CATACACG
46495 CATACACG
1 CATACACG
46503 CATACACG
1 CATACACG
46511 CATACACG
1 CATACACG
46519 CATACACG
1 CATACACG
46527 CATACACG
1 CATACACG
46535 CATACACG
1 CATACACG
46543 CATACACG
1 CATACACG
46551 CATACACG
1 CATACACG
46559 CATACACG
1 CATACACG
46567 CATACACG
1 CATACACG
46575 CATACACG
1 CATACACG
46583 CATACACG
1 CATACACG
46591 CATACACG
1 CATACACG
46599 CATACACG
1 CATACACG
46607 CATACACG
1 CATACACG
46615 CATACACG
1 CATACACG
46623 CATACACG
1 CATACACG
46631 CATACACG
1 CATACACG
46639 CATACACG
1 CATACACG
46647 CATACACG
1 CATACACG
46655 CATACACG
1 CATACACG
46663 CATACACG
1 CATACACG
46671 CATACACG
1 CATACACG
46679 CATACACG
1 CATACACG
46687 CATACACG
1 CATACACG
46695 CATACACG
1 CATACACG
46703 CATACACG
1 CATACACG
46711 CATACACG
1 CATACACG
46719 CATACACG
1 CATACACG
46727 CATACACG
1 CATACACG
46735 CATACACG
1 CATACACG
46743 CATACACG
1 CATACACG
46751 CATACACG
1 CATACACG
46759 CATACACG
1 CATACACG
46767 CATACACG
1 CATACACG
46775 CATACACG
1 CATACACG
46783 CATACACG
1 CATACACG
46791 CATACACG
1 CATACACG
46799 CATACACG
1 CATACACG
46807 CATACACG
1 CATACACG
46815 CATACACG
1 CATACACG
46823 CATACACG
1 CATACACG
46831 CATACACG
1 CATACACG
46839 CATACACG
1 CATACACG
46847 CATACACG
1 CATACACG
46855 CATACACG
1 CATACACG
46863 CATACACG
1 CATACACG
46871 CATACACG
1 CATACACG
46879 CATACACG
1 CATACACG
46887 CATACACG
1 CATACACG
46895 CATACACG
1 CATACACG
46903 CATACACG
1 CATACACG
46911 CATACACG
1 CATACACG
46919 CATACACG
1 CATACACG
46927 CATACACG
1 CATACACG
46935 CATACACG
1 CATACACG
46943 CATACACG
1 CATACACG
*
46951 CATACATG
1 CATACACG
46959 CATACACG
1 CATACACG
*
46967 CATACATG
1 CATACACG
46975 CATACA
1 CATACA
46981 TACATGTTGC
Statistics
Matches: 866, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
8 866 1.00
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.13
Consensus pattern (8 bp):
CATACACG
Found at i:51579 original size:2 final size:2
Alignment explanation
Indices: 51574--51598 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51564 ACACACACAC
51574 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
51599 CCCCCATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52405 original size:29 final size:29
Alignment explanation
Indices: 52337--52408 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
52327 ACTCAAGTCT
*
52337 ATACATAATGCTTTAAAATTCTCAGTTTC
1 ATACATAATGTTTTAAAATTCTCAGTTTC
52366 ATACATAATGTTTTAAAATTCTCAGTTTC
1 ATACATAATGTTTTAAAATTCTCAGTTTC
52395 ATACATAATGTTTT
1 ATACATAATGTTTT
52409 CTTTCGTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (29 bp):
ATACATAATGTTTTAAAATTCTCAGTTTC
Found at i:59249 original size:24 final size:24
Alignment explanation
Indices: 59150--59235 Score: 127
Period size: 24 Copynumber: 3.6 Consensus size: 24
59140 AATTCTATTA
* *
59150 TGATACTTGACATGGATTCTGATT
1 TGATACTTGACCTGGATTTTGATT
*
59174 TGATACTTGACCTGGATTTTGATC
1 TGATACTTGACCTGGATTTTGATT
* *
59198 TGATACTTGACATGGATTTTGATA
1 TGATACTTGACCTGGATTTTGATT
59222 TGATACTTGACCTG
1 TGATACTTGACCTG
59236 AATTAAGTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (24 bp):
TGATACTTGACCTGGATTTTGATT
Found at i:62608 original size:27 final size:27
Alignment explanation
Indices: 62570--62638 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
62560 TCTAAATTAT
62570 ATTATTTGGTTAAGAGTTAATACCGAA
1 ATTATTTGGTTAAGAGTTAATACCGAA
62597 ATTATTTGGTTAAGAGTTAATACCGAA
1 ATTATTTGGTTAAGAGTTAATACCGAA
62624 ATTATTTGGTTAAGA
1 ATTATTTGGTTAAGA
62639 AATTATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTATTTGGTTAAGAGTTAATACCGAA
Found at i:67366 original size:125 final size:125
Alignment explanation
Indices: 67261--67508 Score: 349
Period size: 125 Copynumber: 2.0 Consensus size: 125
67251 ATTTTTCCTA
* *
67261 AAAAATAATTTAAATAAAACTAGATTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATA
1 AAAAATAATTTAAATAAAACTAAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATA
**
67326 ACATCCAGTTATTTTAAGACATCCATTTCTTTGATATTAAATAAATAAATAAATATTAAT
66 ACATCCAGTTACCTTAAGACATCCATTTCTTTGATATTAAATAAATAAATAAATATTAAT
* * * * *
67386 AACAATAGTTTAAATAAAACTAAAGTAAATATAATATTTTTTTTATTTAAAAATATCATAAAATG
1 AAAAATAATTTAAATAAAACTAAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATA
* * *
67451 ACATCTAGTTACCTTAAGACGA-CACCTTTC-TTAATATTAAA-AAATAAATAAATATTAA
66 ACATCCAGTTACCTTAAGAC-ATC-CATTTCTTTGATATTAAATAAATAAATAAATATTAA
67509 AATTTAATTA
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
124 17 0.16
125 86 0.79
126 6 0.06
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.37
Consensus pattern (125 bp):
AAAAATAATTTAAATAAAACTAAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATA
ACATCCAGTTACCTTAAGACATCCATTTCTTTGATATTAAATAAATAAATAAATATTAAT
Found at i:68720 original size:3 final size:3
Alignment explanation
Indices: 68712--68779 Score: 109
Period size: 3 Copynumber: 22.0 Consensus size: 3
68702 AATATAAATT
*
68712 TAA TAA TAA TAA TAA TAA TATA TAA TAC TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA
68759 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
68780 AAAAATCATA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 55 0.90
4 6 0.10
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:68743 original size:22 final size:22
Alignment explanation
Indices: 68700--68779 Score: 121
Period size: 22 Copynumber: 3.8 Consensus size: 22
68690 TTTTGGGCAT
*
68700 ATAAT-ATAA-ATTTAATAATA
1 ATAATAATAATATATAATAATA
*
68720 ATAATAATAATATATAATACTA
1 ATAATAATAATATATAATAATA
68742 ATAATAATAATATATAATAATA
1 ATAATAATAATATATAATAATA
68764 ATAATAATAATA-ATAA
1 ATAATAATAATATATAA
68780 AAAAATCATA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.09
21 8 0.15
22 42 0.76
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAATAATAATATATAATAATA
Found at i:69045 original size:39 final size:39
Alignment explanation
Indices: 68979--69411 Score: 535
Period size: 39 Copynumber: 11.1 Consensus size: 39
68969 ATGTTGAATA
* * * * * * * *
68979 AGTTCTTTAGACTATAAACTTCATCTTCCTCTTTAAATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
69018 AGTTCTTCAAATTATGAACTCCTTCTTCCTATTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
69057 AGTTCTTCAGACTATGAACTCCTTTTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* *
69096 AGTTCTTCAGACTATGAACGCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
69135 AGTTCTTCAGATTATGAATTTCTTCTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
69174 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * * ** * *
69213 AATTCTTCAGACTATGAACTCCTTTTTTTTATTCAAACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
*
69252 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* *
69291 AGTTCTTCAGATTATGAACTCCTTCTGCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
69330 AGTTCTTCAGATTATGAACTCCTTTTTTCTCTTTAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
*
69369 AGTTCTTCAGATTATGAACTCATT-TTCCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTT-CCTCTTCAGACG
69408 AGTT
1 AGTT
69412 ATTTCATATG
Statistics
Matches: 341, Mismatches: 52, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 2 0.01
39 339 0.99
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.42
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
Found at i:69619 original size:36 final size:35
Alignment explanation
Indices: 69507--69699 Score: 131
Period size: 36 Copynumber: 5.3 Consensus size: 35
69497 GGTGAAATTT
* *
69507 TCTCCAGCGAGAAACAGTTTGTTTTAAG-AAAACAA
1 TCTCAAGCGAGAAA-AGTTTATTTTAAGAAAAACAA
* * * ** **
69542 TCTCAAGTGAGATAAATTATTATTTCAAGTGAAACTT
1 TCTCAAGCGAGA-AAAGT-TTATTTTAAGAAAAACAA
69579 TCTCAAGCGAGAAATAGTTTATTTTAAGAAAAACAA
1 TCTCAAGCGAGAAA-AGTTTATTTTAAGAAAAACAA
* * * **
69615 TCTCAAGTGAGATAAA-TTGCTATTTCAAGTGAAAA-TT
1 TCTCAAGCGAGA-AAAGTT--TATTTTAAG-AAAAACAA
* *
69652 TCTCAAGCGAGAACCAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGAA-AAGTTTATTTTAAGAAAAACAA
*
69688 TCTCAAGTGAGA
1 TCTCAAGCGAGA
69700 TAAATTGCTA
Statistics
Matches: 119, Mismatches: 28, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
35 18 0.15
36 56 0.47
37 39 0.33
38 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (35 bp):
TCTCAAGCGAGAAAAGTTTATTTTAAGAAAAACAA
Found at i:69646 original size:73 final size:73
Alignment explanation
Indices: 69453--69712 Score: 414
Period size: 73 Copynumber: 3.6 Consensus size: 73
69443 TTTCTGGAAA
** * *
69453 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTATTTCGGGTGAAATTTTCTCCAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTATTTCAAGTGAAAATTTCTCAAGCGAG
69518 AAACAGTT
66 AAACAGTT
* *
69526 TGTTTTAAG-AAAACAATCTCAAGTGAGATAAATTATTATTTCAAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTATTTCAAGTGAAAATTTCTCAAGCGAG
*
69590 AAATAGTT
66 AAACAGTT
* *
69598 TATTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAAATTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTATTTCAAGTGAAAATTTCTCAAGCGAG
*
69663 AACCAGTT
66 AAACAGTT
*
69671 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTATTT
69713 GAAAACATCC
Statistics
Matches: 173, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
72 65 0.38
73 108 0.62
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (73 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTATTTCAAGTGAAAATTTCTCAAGCGAG
AAACAGTT
Found at i:69656 original size:37 final size:35
Alignment explanation
Indices: 69542--69663 Score: 104
Period size: 37 Copynumber: 3.3 Consensus size: 35
69532 AAGAAAACAA
* *
69542 TCTCAAGTGAGATAAATTATTATTTCAAGTGAAACTT
1 TCTCAAGCGAGATAAA-T-TTATTTCAAGTGAAAATT
* * **
69579 TCTCAAGCGAGA-AATAGTTTATTTTAAG-AAAAACAA
1 TCTCAAGCGAGATAA-A-TTTATTTCAAGTGAAAA-TT
*
69615 TCTCAAGTGAGATAAATTGCTATTTCAAGTGAAAATT
1 TCTCAAGCGAGATAAATT--TATTTCAAGTGAAAATT
69652 TCTCAAGCGAGA
1 TCTCAAGCGAGA
69664 ACCAGTTTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
35 5 0.08
36 23 0.35
37 34 0.52
38 4 0.06
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (35 bp):
TCTCAAGCGAGATAAATTTATTTCAAGTGAAAATT
Found at i:70504 original size:22 final size:22
Alignment explanation
Indices: 70423--70499 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
70413 AATAAAGCTT
70423 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
70445 TAATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
70467 TCATCTTTGAAGAA-TGAATCTA
1 TCATCTTTGAA-AAGAGAATCTA
70489 TCATCTTTGAA
1 TCATCTTTGAA
70500 GAATGTAGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
22 49 0.96
23 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:70955 original size:22 final size:22
Alignment explanation
Indices: 70874--70950 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
70864 AATAAAGCTT
70874 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
70896 TAATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
70918 TCATCTTTGAAGAA-TGAATCTA
1 TCATCTTTGAA-AAGAGAATCTA
70940 TCATCTTTGAA
1 TCATCTTTGAA
70951 GAATGTAGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
22 49 0.96
23 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:78228 original size:6 final size:6
Alignment explanation
Indices: 78217--78249 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
78207 AAAATGTATA
*
78217 AAAAAT AAAAAT AAAAAT AAGAA- AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
78250 TGGTTAGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:79681 original size:125 final size:124
Alignment explanation
Indices: 79552--79796 Score: 386
Period size: 125 Copynumber: 2.0 Consensus size: 124
79542 TTTTCCTAAA
*
79552 AATAATTTAAATAAAACT-AGATTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATG-A
1 AATAATTTAAATAAAACTCA-AGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAA-GAA
** *
79615 CATATAGTTATTTTAAGACAACCCATTTCATTGATATTAAAAAATAAATAAATATTAACAAC
64 CATATAGTTACCTTAAGACAACCCATTTC-TTAATATTAAAAAATAAATAAATATTAACAAC
79677 AATAATTTAAATAAAACTCAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAAGAACA
1 AATAATTTAAATAAAACTCAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAAGAACA
* * *
79742 TCTAGTTACCTTAAGACGACCCCTTTCTTAATATTAAAAAATAAATAAATATTAA
66 TATAGTTACCTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAA
79797 AATTGAATTA
Statistics
Matches: 111, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
124 28 0.25
125 82 0.74
126 1 0.01
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (124 bp):
AATAATTTAAATAAAACTCAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAAGAACA
TATAGTTACCTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAACAAC
Found at i:80836 original size:3 final size:3
Alignment explanation
Indices: 80828--80910 Score: 98
Period size: 3 Copynumber: 27.0 Consensus size: 3
80818 AATATAAATT
80828 TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA T-A TATA TATA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TA-A TAA TAA
* *
80875 TAA TAA TAA TAA TAA TAA -AA TCA TAAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
80911 ATGAGCAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 55 0.77
4 12 0.17
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:80856 original size:22 final size:22
Alignment explanation
Indices: 80828--80909 Score: 107
Period size: 22 Copynumber: 3.8 Consensus size: 22
80818 AATATAAATT
80828 TAATAATAATAATAATATATAA
1 TAATAATAATAATAATATATAA
80850 TAATAATAAT-ATATATATATAA
1 TAATAATAATAATA-ATATATAA
80872 TAATAATAATAATAATA-ATAA
1 TAATAATAATAATAATATATAA
* *
80893 -AATCATAAATAAAAATA
1 TAATAAT-AATAATAATA
80910 AATGAGCAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
20 5 0.09
21 16 0.29
22 31 0.56
23 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (22 bp):
TAATAATAATAATAATATATAA
Found at i:85228 original size:32 final size:31
Alignment explanation
Indices: 85186--85247 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
85176 TTTAAATAGG
85186 TTTTAATATTTTA-ATTAAGTTTTAGGATATTA
1 TTTTAATATTTTATATT-AGTTTTAGG-TATTA
* *
85218 TTTTTATATTTTATATTTGTTTTAGGTATT
1 TTTTAATATTTTATATTAGTTTTAGGTATT
85248 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 4 0.15
32 20 0.74
33 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (31 bp):
TTTTAATATTTTATATTAGTTTTAGGTATTA
Found at i:85924 original size:19 final size:18
Alignment explanation
Indices: 85873--85921 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
85863 AATCTCTTTA
85873 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
85892 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
85911 ATTTTTTATTT
1 ATTTTTTATTT
85922 TAAAAACAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:85971 original size:16 final size:15
Alignment explanation
Indices: 85948--85985 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
85938 AAATCCCCTT
85948 TTATATTTATTACTA
1 TTATATTTATTACTA
*
85963 TTAATATTTATTATTA
1 TT-ATATTTATTACTA
85979 TTATATT
1 TTATATT
85986 ACTTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATATTTATTACTA
Found at i:88894 original size:18 final size:18
Alignment explanation
Indices: 88871--88908 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
88861 GATGGTTTTT
88871 CAGGTTTTTTCCAAATCC
1 CAGGTTTTTTCCAAATCC
88889 CAGGTTTTTTCCAAATCC
1 CAGGTTTTTTCCAAATCC
88907 CA
1 CA
88909 CTGGCGCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (18 bp):
CAGGTTTTTTCCAAATCC
Found at i:91314 original size:19 final size:19
Alignment explanation
Indices: 91290--91330 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
91280 TTCATTTTAT
*
91290 TTTCATTTTATTTATTTCA
1 TTTCATTTCATTTATTTCA
*
91309 TTTCATTTCATTTATTTTA
1 TTTCATTTCATTTATTTCA
91328 TTT
1 TTT
91331 TATCTGGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTCATTTCATTTATTTCA
Found at i:91318 original size:10 final size:10
Alignment explanation
Indices: 91277--91330 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
91267 GGAGGCAACC
91277 CATTTCATTT
1 CATTTCATTT
*
91287 TATTTTCATTT
1 CA-TTTCATTT
*
91298 TATTT-ATTT
1 CATTTCATTT
91307 CATTTCATTT
1 CATTTCATTT
91317 CATTT-ATTT
1 CATTTCATTT
*
91326 TATTT
1 CATTT
91331 TATCTGGTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
9 16 0.41
10 13 0.33
11 10 0.26
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (10 bp):
CATTTCATTT
Found at i:91352 original size:5 final size:5
Alignment explanation
Indices: 91278--91333 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
91268 GAGGCAACCC
* * * *
91278 ATTTC ATTTT ATTTT CATTTT A-TTT ATTTC ATTTC ATTTC A-TTT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
91327 ATTTT AT
1 ATTTT AT
91334 CTGGTGCTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
4 7 0.16
5 33 0.73
6 5 0.11
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:92971 original size:75 final size:74
Alignment explanation
Indices: 92882--93047 Score: 210
Period size: 76 Copynumber: 2.2 Consensus size: 74
92872 TAAACTCAAG
* *
92882 TTTAGGATAATATTTTAAACATTATATTT-TATCTT-TGTATTTTAGTTTAAATAGGTTTTAGTA
1 TTTAGGATATTATTTTAAACATTATATTTGT-T-TTAGGTATTTTAGTTTAAATAGGTTTTAGTA
*
92945 TTTTAATTAAGT
64 -TTTAATTAAGA
* **
92957 TTTAGGATATTATTTTTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATATTA-TTTTAAACATTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
*
93022 TTAATTAGGA
65 TTAATTAAGA
*
93032 TTTAGAATATTATTTT
1 TTTAGGATATTATTTT
93048 TTAGGTATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
74 4 0.05
75 33 0.41
76 42 0.52
77 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (74 bp):
TTTAGGATATTATTTTAAACATTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATT
TAATTAAGA
Found at i:92980 original size:32 final size:32
Alignment explanation
Indices: 92937--92998 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
92927 TTTAAATAGG
92937 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
92970 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
92999 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:93017 original size:57 final size:56
Alignment explanation
Indices: 92981--93095 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 56
92971 TTTATATTTT
92981 ATATT-TGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTAATTAGGATTTAGA
1 ATATTATGTTTTAGGTATTTTAGTTTAAATA-GTTTTAGTATTTAATTAGGATTTA-A
* *
93038 ATATTATTTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTAA
1 ATATTATGTTTTAGGTATTTTAGTTTAAATAGTTTT-AGT-ATTTAATTAGGATTTAA
93096 GATGTTTTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
57 10 0.19
58 28 0.53
59 15 0.28
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (56 bp):
ATATTATGTTTTAGGTATTTTAGTTTAAATAGTTTTAGTATTTAATTAGGATTTAA
Found at i:93724 original size:19 final size:18
Alignment explanation
Indices: 93673--93721 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
93663 AATCTCTTTA
93673 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
93692 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
93711 ATTTTTTATTT
1 ATTTTTTATTT
93722 TAAAAACAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:94125 original size:17 final size:17
Alignment explanation
Indices: 94100--94142 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
94090 AGAAGGATGG
*
94100 GGTTTTCTCGGCAAGAA
1 GGTTATCTCGGCAAGAA
94117 GGTTATCTCGGCAAGAA
1 GGTTATCTCGGCAAGAA
94134 GGTTATCTC
1 GGTTATCTC
94143 AAATAATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (17 bp):
GGTTATCTCGGCAAGAA
Found at i:99866 original size:16 final size:16
Alignment explanation
Indices: 99845--99876 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
99835 AATAACAGGG
99845 GTACCCACAGGAAGGA
1 GTACCCACAGGAAGGA
99861 GTACCCACAGGAAGGA
1 GTACCCACAGGAAGGA
99877 TCGAGGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.31, T:0.06
Consensus pattern (16 bp):
GTACCCACAGGAAGGA
Found at i:112312 original size:40 final size:40
Alignment explanation
Indices: 112268--112400 Score: 112
Period size: 40 Copynumber: 3.3 Consensus size: 40
112258 TCGTTTTTAT
112268 ACAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTCCA
1 ACAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTCCA
* ** * * **
112308 ACAAACGCCGCAATGTGAGTAGAAT-TTTA--GCCG-TTTCGGT
1 ACAAACGCCGCAAT-AG-GT-TCATCTATAGTGGCGTTTTC-CA
* * *
112348 ACAAACGCCGCAATAGGTTCATCCATAGTGGCATTTTTCA
1 ACAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTCCA
112388 ACAAACGCCGCAA
1 ACAAACGCCGCAA
112401 CATAGTAGTA
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
37 2 0.03
38 4 0.06
39 5 0.07
40 46 0.68
41 4 0.06
42 5 0.07
43 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
ACAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTCCA
Found at i:113970 original size:6 final size:6
Alignment explanation
Indices: 113947--113992 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
113937 TATCCTGTGT
*
113947 ATATAC ATATAT AT-TAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
113993 AACATCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAC
Found at i:114042 original size:2 final size:2
Alignment explanation
Indices: 114035--114064 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
114025 AATAAAATTG
114035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114065 TACTAATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115345 original size:11 final size:10
Alignment explanation
Indices: 115320--115358 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
115310 AAAATTTTAA
*
115320 ATTTTCATAT
1 ATTTTTATAT
*
115330 ATTTTTATCT
1 ATTTTTATAT
115340 ATTTTTATAT
1 ATTTTTATAT
115350 AATTTTTAT
1 -ATTTTTAT
115359 TAATAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:115349 original size:20 final size:21
Alignment explanation
Indices: 115320--115358 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
115310 AAAATTTTAA
115320 ATTTTCATAT-ATTTTTATCT
1 ATTTTCATATAATTTTTATCT
*
115340 ATTTTTATATAATTTTTAT
1 ATTTTCATATAATTTTTAT
115359 TAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTCATATAATTTTTATCT
Found at i:117845 original size:86 final size:84
Alignment explanation
Indices: 117620--117921 Score: 320
Period size: 86 Copynumber: 3.5 Consensus size: 84
117610 ATGGTAATTA
* * * * * *
117620 GCGGCGTTTATATCCACAAACGCCACTATAGATC-TGACCTTTTGCAGCGTTTGTGTCCAAAAAT
1 GCGGCGTTT-T-TCCAAAAATGCCGCTATAGATCTTGACTTTTTGCGGCGTTTGTATCCAAAAA-
*
117684 GCCGCTATATATCTAACTTTTT
63 GCCGCTATATATCTAACCTTTT
* * * * *
117706 GCGGCATTTTCCCCAAAAA-CCCGCTATAGATCTTGACTTTTTGTGGCGTTTGTATCCAACAACG
1 GCGGCGTTTT-TCCAAAAATGCCGCTATAGATCTTGACTTTTTGCGGCGTTTGTATCCAA-AAAG
*
117770 CCGCTATATATCTACCCTTTT
64 CCGCTATATATCTAACCTTTT
* ** * * *
117791 GCGGTGTTTTTAGAAAAAATGCCGCTAGAGAACTTGACATTTTGCGGCGTTTGTATCCAAAAAGC
1 GCGGCGTTTTT-CCAAAAATGCCGCTATAGATCTTGACTTTTTGCGGCGTTTGTATCCAAAAAGC
*
117856 CGCTATAGATCTCAACCTTTT
65 CGCTATATATCT-AACCTTTT
* *
117877 ACGGCGTTTGTTCCAAAAATGACGCTATAGATCTTGACTTTTTGC
1 GCGGCGTTT-TTCCAAAAATGCCGCTATAGATCTTGACTTTTTGC
117922 AACGTTTTTA
Statistics
Matches: 176, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
84 11 0.06
85 77 0.44
86 86 0.49
87 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (84 bp):
GCGGCGTTTTTCCAAAAATGCCGCTATAGATCTTGACTTTTTGCGGCGTTTGTATCCAAAAAGCC
GCTATATATCTAACCTTTT
Found at i:117928 original size:43 final size:44
Alignment explanation
Indices: 117620--117921 Score: 262
Period size: 43 Copynumber: 7.0 Consensus size: 44
117610 ATGGTAATTA
* * * *
117620 GCGGCGTTTATATCCACAAACGCCACTATAGATC-TGACCTTTT
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGACCTTTT
* * * * *
117663 GCAGCGTTTGTGTCCAAAAATGCCGCTATATATC-TAACTTTTT
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGACCTTTT
* ** * *
117706 GCGGCATTT-TCCCCAAAAA-CCCGCTATAGATCTTGACTTTTT
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGACCTTTT
* * * *
117748 GTGGCGTTTGTATCCAACAACGCCGCTATATATC-T-ACCCTTTT
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGA-CCTTTT
* * ** * * *
117791 GCGGTGTTTTTA-GAAAAAATGCCGCTAGAGAACTTGACATTTT
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGACCTTTT
**
117834 GCGGCGTTTGTATCCAAAAA-GCCGCTATAGATCTCAACCTTTT
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGACCTTTT
* * *
117877 ACGGCGTTTGT-TCCAAAAATGACGCTATAGATCTTGACTTTTT
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGACCTTTT
117920 GC
1 GC
117922 AACGTTTTTA
Statistics
Matches: 201, Mismatches: 50, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
41 11 0.05
42 46 0.23
43 127 0.63
44 17 0.08
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (44 bp):
GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTTGACCTTTT
Found at i:127832 original size:15 final size:15
Alignment explanation
Indices: 127812--127841 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
127802 TGTGTATGCA
127812 AAAATTTCTTATTGG
1 AAAATTTCTTATTGG
127827 AAAATTTCTTATTGG
1 AAAATTTCTTATTGG
127842 GGGATTCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
AAAATTTCTTATTGG
Found at i:128150 original size:7 final size:7
Alignment explanation
Indices: 128136--128175 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
128126 CCGTACTAAA
128136 ACCAAGC
1 ACCAAGC
*
128143 ATCAAGC
1 ACCAAGC
128150 ACCAAGC
1 ACCAAGC
128157 ACCAAGC
1 ACCAAGC
128164 ACCAAGC
1 ACCAAGC
*
128171 TCCAA
1 ACCAA
128176 TGGTACTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.42, C:0.40, G:0.12, T:0.05
Consensus pattern (7 bp):
ACCAAGC
Found at i:133592 original size:31 final size:31
Alignment explanation
Indices: 133557--133659 Score: 206
Period size: 31 Copynumber: 3.3 Consensus size: 31
133547 TGACTTAAAT
133557 TCAAAATGATTCAATAAAAAACTAACTTGAA
1 TCAAAATGATTCAATAAAAAACTAACTTGAA
133588 TCAAAATGATTCAATAAAAAACTAACTTGAA
1 TCAAAATGATTCAATAAAAAACTAACTTGAA
133619 TCAAAATGATTCAATAAAAAACTAACTTGAA
1 TCAAAATGATTCAATAAAAAACTAACTTGAA
133650 TCAAAATGAT
1 TCAAAATGAT
133660 CTAACCCATA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (31 bp):
TCAAAATGATTCAATAAAAAACTAACTTGAA
Found at i:137424 original size:82 final size:82
Alignment explanation
Indices: 137334--137634 Score: 285
Period size: 82 Copynumber: 3.7 Consensus size: 82
137324 GAAGACGTTT
* *
137334 CTGCTCTACCATTCATTCATGGGAAATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGACAAACC
1 CTGCTCTACCATTCATTCAGGGGAAATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGACAAATC
137399 CATGTTGGAATACGTGC
66 CATGTTGGAATACGTGC
* * * * *
137416 CTACTCTA-C---C-TT-AGGGGCAATCAAACTTGATATGTGCCTCTTTTTTGGGTAGAAAAATC
1 CTGCTCTACCATTCATTCAGGGGAAATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGACAAATC
* * * * *
137475 AATGTTGTAAGACTTGT
66 CATGTTGGAATACGTGC
* * * * *
137492 CTGCT-TCACCATACACTCAGGTGAAATCAGAC-TGAATCTGTGCCTCTTTTTTGGGTAGACAAA
1 CTGCTCT-ACCATTCATTCAGGGGAAATCAAACTTG-ATCTGTGCCTCTTTTTCGGGTAGACAAA
* *
137555 TCCATGTTGGAATATGTTC
64 TCCATGTTGGAATACGTGC
* * ** * * * *
137574 CTGCTCCACCATTTATTCAGGGGAAATCAGGCTGGATTTGTGCCTCTTCTTCAGGTAGACA
1 CTGCTCTACCATTCATTCAGGGGAAATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGACA
137635 GATCAACTTT
Statistics
Matches: 172, Mismatches: 37, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
75 1 0.01
76 58 0.34
77 3 0.02
78 1 0.01
80 1 0.01
81 4 0.02
82 103 0.60
83 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (82 bp):
CTGCTCTACCATTCATTCAGGGGAAATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGACAAATC
CATGTTGGAATACGTGC
Found at i:140566 original size:101 final size:104
Alignment explanation
Indices: 140386--140594 Score: 316
Period size: 101 Copynumber: 2.0 Consensus size: 104
140376 CTGAATTCAG
* ** * *
140386 TAATCACCTTTATTAGGCTAGCTGAATCTTATCCATAAAGCTGGGGTGTTTAACCAATTGCTCTA
1 TAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTACTCTA
* *
140451 GAGGGAAAGTTCAAGCTTTATTG-A-ATATAT-ATATTA
66 GAGGGAAAGCTCAAGCTTTATTGTATAAATATAATATTA
*
140487 TAATCACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTACTCTA
1 TAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTACTCTA
*
140552 GAGGGACAGCTCAAGCTTTATTGTATAAATATAATATTA
66 GAGGGAAAGCTCAAGCTTTATTGTATAAATATAATATTA
140591 TAAT
1 TAAT
140595 ATGGGTATAC
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 80 0.83
102 1 0.01
103 5 0.05
104 10 0.10
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (104 bp):
TAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTACTCTA
GAGGGAAAGCTCAAGCTTTATTGTATAAATATAATATTA
Found at i:144413 original size:114 final size:114
Alignment explanation
Indices: 144285--144516 Score: 446
Period size: 114 Copynumber: 2.0 Consensus size: 114
144275 ACGCGTTAGT
144285 ACAACTATTTATTTGTTAATCAAATTACAAATCATAATGCAACAAAACTTATTTAAAACCAAACA
1 ACAACTATTTATTTGTTAATCAAATTACAAATCATAATGCAACAAAACTTATTTAAAACCAAACA
*
144350 ATGGATCAAAAACCAAATTAGAACGAACTTATAACTATCACCTGTAAAG
66 ATGGATCAAAAACCAAATTAGAACGAACTTATAACTATCACCTGCAAAG
144399 ACAACTATTTATTTGTTAATCAAATTACAAATCATAATGCAACAAAACTTATTTAAAACCAAACA
1 ACAACTATTTATTTGTTAATCAAATTACAAATCATAATGCAACAAAACTTATTTAAAACCAAACA
*
144464 ATGGATCTAAAACCAAATTAGAACGAACTTATAACTATCACCTGCAAAG
66 ATGGATCAAAAACCAAATTAGAACGAACTTATAACTATCACCTGCAAAG
144513 ACAA
1 ACAA
144517 TTTAACTAAT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (114 bp):
ACAACTATTTATTTGTTAATCAAATTACAAATCATAATGCAACAAAACTTATTTAAAACCAAACA
ATGGATCAAAAACCAAATTAGAACGAACTTATAACTATCACCTGCAAAG
Found at i:145721 original size:27 final size:26
Alignment explanation
Indices: 145655--145721 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
145645 ATCTAAAAAA
*
145655 TAAAATAAAATAATCTAAATTAAGAC
1 TAAAATAAAAAAATCTAAATTAAGAC
**
145681 TAAAATATCTAAAATCTAAATATAAGGAC
1 TAAAATA-AAAAAATCTAAAT-TAA-GAC
145710 T-AAATAAAAAAA
1 TAAAATAAAAAAA
145722 ACAAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 7 0.21
27 14 0.42
28 8 0.24
29 4 0.12
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.25
Consensus pattern (26 bp):
TAAAATAAAAAAATCTAAATTAAGAC
Found at i:145722 original size:28 final size:27
Alignment explanation
Indices: 145655--145722 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
145645 ATCTAAAAAA
*
145655 TAAAAT-AAAATAATCTAAATTAAGAC
1 TAAAATAAAAAAAATCTAAATTAAGAC
***
145681 TAAAATATCTAAAATCTAAATATAAGGAC
1 TAAAATAAAAAAAATCTAAAT-TAA-GAC
145710 T-AAATAAAAAAAA
1 TAAAATAAAAAAAA
145723 CAAAAATTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
26 6 0.19
27 10 0.31
28 12 0.38
29 4 0.12
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.25
Consensus pattern (27 bp):
TAAAATAAAAAAAATCTAAATTAAGAC
Found at i:148069 original size:83 final size:80
Alignment explanation
Indices: 147969--148135 Score: 280
Period size: 83 Copynumber: 2.0 Consensus size: 80
147959 AACATATACG
*
147969 AAAGTTTTTGCATTTAAATGACACGTTTTTGTTTCTCTCACCGTTTTCGGTAATGATCATATGTA
1 AAAGTTTTTGCATTTAAATGACACGTTTTTGTTTCTCTCACCGTTTTCGGTAATG---ATAGGTA
*
148034 TGCTAGTGTATTACTCCT
63 TGCCAGTGTATTACTCCT
148052 AAAGTTTTTGCATTTAAATGACACGTTTTTGTTTCTCTCACCGTTTTCGGTAATGATAGGTATGC
1 AAAGTTTTTGCATTTAAATGACACGTTTTTGTTTCTCTCACCGTTTTCGGTAATGATAGGTATGC
*
148117 CAGTGTATTTCTCCT
66 CAGTGTATTACTCCT
148132 AAAG
1 AAAG
148136 ATAGGTTAGA
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
80 26 0.32
83 55 0.68
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (80 bp):
AAAGTTTTTGCATTTAAATGACACGTTTTTGTTTCTCTCACCGTTTTCGGTAATGATAGGTATGC
CAGTGTATTACTCCT
Found at i:155077 original size:6 final size:6
Alignment explanation
Indices: 155056--155101 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
155046 TTGAACTTCG
* *
155056 AAAAAT CAAGAAT AAAAAT -AAAAT AAAAA- CAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
155102 GAACGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
5 9 0.27
6 19 0.58
7 5 0.15
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:155082 original size:11 final size:11
Alignment explanation
Indices: 155056--155100 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
155046 TTGAACTTCG
155056 AAAAATCAAGAAT
1 AAAAAT-AA-AAT
155069 AAAAATAAAAT
1 AAAAATAAAAT
*
155080 AAAAACAAAAT
1 AAAAATAAAAT
155091 AAAAATAAAA
1 AAAAATAAAA
155101 AGAACGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 22 0.73
12 2 0.07
13 6 0.20
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.13
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:155092 original size:22 final size:24
Alignment explanation
Indices: 155056--155100 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
155046 TTGAACTTCG
155056 AAAAATCAAGAATAAAAATAAAAT
1 AAAAATCAAGAATAAAAATAAAAT
155080 AAAAA-CAA-AATAAAAATAAAA
1 AAAAATCAAGAATAAAAATAAAA
155101 AGAACGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
23 3 0.14
24 5 0.24
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.13
Consensus pattern (24 bp):
AAAAATCAAGAATAAAAATAAAAT
Done.