Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001419.1 Hibiscus syriacus cultivar Beakdansim tig00002757_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: 87442
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1918 original size:13 final size:13
Alignment explanation
Indices: 1897--1930 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1887 GGAAAAGGGA
*
1897 AAAAAAAATAAAT
1 AAAATAAATAAAT
1910 AAAATAAATAAAT
1 AAAATAAATAAAT
*
1923 AAGATAAA
1 AAAATAAA
1931 GGAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:2381 original size:2 final size:2
Alignment explanation
Indices: 2374--2439 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
2364 ATATTAAAGA
2374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2416 AT AT AT AC AT AT A- AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2440 ATAATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2443 original size:14 final size:16
Alignment explanation
Indices: 2374--2451 Score: 90
Period size: 16 Copynumber: 5.1 Consensus size: 16
2364 ATATTAAAGA
*
2374 ATATATATATATATAT
1 ATATATATATATAAAT
*
2390 ATATATATATATATAT
1 ATATATATATATAAAT
*
2406 ATATATATATATATAT
1 ATATATATATATAAAT
*
2422 ACATATA-ATATAAAT
1 ATATATATATATAAAT
*
2437 ATA-ATA-ATAAAAAT
1 ATATATATATATAAAT
2451 A
1 A
2452 AATGAATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
14 11 0.19
15 9 0.16
16 38 0.66
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATATAAAT
Found at i:3797 original size:105 final size:105
Alignment explanation
Indices: 3615--4338 Score: 1140
Period size: 105 Copynumber: 7.0 Consensus size: 105
3605 GCATTGTTCA
* * * **
3615 GAGTCCAATATCCTCCATCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
3675 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3715 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGATATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
3780 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
3820 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
3885 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
3925 AAGTCCAATATCCTTCGTTGTGAAGTTGAAAATGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
3990 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4030 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
4092 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4132 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
4197 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4237 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** * *
4302 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
4339 CCTCGAGTGC
Statistics
Matches: 582, Mismatches: 33, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
100 34 0.06
101 1 0.00
102 102 0.18
103 2 0.00
104 2 0.00
105 400 0.69
106 41 0.07
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4133 original size:207 final size:208
Alignment explanation
Indices: 3615--4338 Score: 1132
Period size: 207 Copynumber: 3.5 Consensus size: 208
3605 GCATTGTTCA
* * ** *
3615 GAGTCCAATATCCTCCATCGTGAAGTTGAAATTGAATCTG-AA-TGA-AATTTTGTTGACAAGCA
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
3677 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
* * *
3742 GAAATTGGCTATGATATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
3807 CTTGCATTGTCTG
196 CTTGCGTTGTCTG
* * ** *
3820 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAG
3885 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
*
3950 TTGAAAATGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
4015 AACTTGCGTTGTCTG
194 AACTTGCGTTGTCTG
* * *
4030 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCA
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
4094 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
*
4159 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
4224 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
*
4237 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TG-TTGTTGACAA
* ** * *
4302 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
4339 CCTCGAGTGC
Statistics
Matches: 475, Mismatches: 35, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
205 34 0.07
206 1 0.00
207 202 0.43
208 2 0.00
210 195 0.41
211 41 0.09
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (208 bp):
GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:4232 original size:312 final size:313
Alignment explanation
Indices: 3616--4338 Score: 1134
Period size: 312 Copynumber: 2.3 Consensus size: 313
3606 CATTGTTCAG
* * * **
3616 AGTCCAATATCCTCCATCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
3676 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
3741 TGAAATTGGCTATGATATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTATGAAATTGAGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
* * ** *
3806 ACTTGCATTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAG
194 ACTTGCATTGTCTGAAGTCCAATATCATTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
3871 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
259 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
*
3926 AGTCCAATATCCTTCGTTGTGAAGTTGAAAATGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
3991 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* * *
4056 TGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 TGAAATTGGCTATGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
4120 TTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
196 TTGCATTGTCTGAAGTCCAATATCATTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
* *
4185 GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
261 GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
*
4238 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
** * *
4303 CAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
4339 CCTCGAGTGC
Statistics
Matches: 379, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
310 33 0.09
311 2 0.01
312 203 0.54
313 44 0.12
314 2 0.01
315 95 0.25
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (313 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
TGAAATTGGCTATGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCATTGTCTGAAGTCCAATATCATTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
Found at i:5071 original size:68 final size:64
Alignment explanation
Indices: 4981--5137 Score: 197
Period size: 68 Copynumber: 2.4 Consensus size: 64
4971 AAGATATCTG
* * * *
4981 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTT-AGGGAAATAAA-TTCAA-AG
*
5046 TTT
62 GTT
* * *
5049 TTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAATAAATTCAAAGGTT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAGGGAAATAAATTCAAAGGTT
*
5113 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
5138 ATAGACGAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 26 0.33
65 4 0.05
66 10 0.13
67 6 0.08
68 33 0.42
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (64 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAGGGAAATAAATTCAAAGGTT
Found at i:5132 original size:64 final size:67
Alignment explanation
Indices: 4981--5163 Score: 203
Period size: 64 Copynumber: 2.8 Consensus size: 67
4971 AAGATATCTG
* * * * *
4981 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTTCAAGAG
*
5046 TTT
65 GTT
* *
5049 TTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTT-AGGGGAATAAA-TTCAA-AGG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTTCAAGAGG
5111 TT
66 TT
* ** * *
5113 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA
5164 CTGTCTTAAG
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
64 36 0.37
65 13 0.13
66 10 0.10
67 6 0.06
68 33 0.34
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (67 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTTCAAGAGG
TT
Found at i:5164 original size:36 final size:36
Alignment explanation
Indices: 5113--5236 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
5103 TTCAAAGGTT
*
5113 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* *
5149 TTGTTTCAAGAGAAACTGTCTTAAGAGAGAC-AAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* * *
5184 CTTAGTTCCAAGGGAAACTATCTCAAGAGAGACGAAAT
1 -TT-GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
*
5222 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
5237 TGTTTTCAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.55
37 27 0.36
38 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
Found at i:6226 original size:22 final size:22
Alignment explanation
Indices: 6201--6244 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6191 CATTTTTGTT
6201 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
6223 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
6245 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:6860 original size:22 final size:24
Alignment explanation
Indices: 6835--6886 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
6825 TTTGCATGTG
6835 CTTTTTGTCCCTTTTT-CTTTT-T
1 CTTTTTGTCCCTTTTTGCTTTTGT
* *
6857 CTTTTTGTTCTTTTTTGCTTTTGT
1 CTTTTTGTCCCTTTTTGCTTTTGT
6881 -TTTTTG
1 CTTTTTG
6887 CTTCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 11 0.42
24 1 0.04
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.75
Consensus pattern (24 bp):
CTTTTTGTCCCTTTTTGCTTTTGT
Found at i:6872 original size:23 final size:24
Alignment explanation
Indices: 6846--6897 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
6836 TTTTTGTCCC
6846 TTTTTCTTTT-TCTTTTTG-TTCTT
1 TTTTTCTTTTGT-TTTTTGCTTCTT
*
6869 TTTTGCTTTTGTTTTTTGCTTCTT
1 TTTTTCTTTTGTTTTTTGCTTCTT
6893 TTTTT
1 TTTTT
6898 GCCTTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (24 bp):
TTTTTCTTTTGTTTTTTGCTTCTT
Found at i:6885 original size:13 final size:12
Alignment explanation
Indices: 6846--6906 Score: 56
Period size: 13 Copynumber: 5.1 Consensus size: 12
6836 TTTTTGTCCC
6846 TTTTT-CTTTTT
1 TTTTTGCTTTTT
*
6857 CTTTTTG--TTCT
1 -TTTTTGCTTTTT
6868 TTTTTGCTTTTGT
1 TTTTTGCTTTT-T
*
6881 TTTTTGCTTCTT
1 TTTTTGCTTTTT
6893 TTTTTGCCTTTTT
1 TTTTTG-CTTTTT
6906 T
1 T
6907 ATTCTGATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
12 14 0.35
13 17 0.43
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (12 bp):
TTTTTGCTTTTT
Found at i:8098 original size:8 final size:8
Alignment explanation
Indices: 8082--8120 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
8072 ATTGTAGATG
8082 AAAATGCA
1 AAAATGCA
*
8090 AAAAGGCA
1 AAAATGCA
8098 AAAATGC-
1 AAAATGCA
8105 AAAATGCA
1 AAAATGCA
*
8113 AGAATGCA
1 AAAATGCA
8121 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:8108 original size:15 final size:15
Alignment explanation
Indices: 8082--8120 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8072 ATTGTAGATG
8082 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
8098 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
8113 AGAATGCA
1 AAAATGCA
8121 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:10487 original size:13 final size:12
Alignment explanation
Indices: 10454--10490 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
10444 TACATATAAT
*
10454 AATAATAATATA
1 AATAATAAAATA
10466 AATAATAAAATA
1 AATAATAAAATA
10478 AATGAATAAAATA
1 AAT-AATAAAATA
10491 TCCATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:14643 original size:48 final size:48
Alignment explanation
Indices: 14572--14668 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
14562 AGTAACAACA
14572 ATACCAATAGACATCATTAAAATATGAATTTATCATGTCATAGCCAGT
1 ATACCAATAGACATCATTAAAATATGAATTTATCATGTCATAGCCAGT
14620 ATACCAATAGACATCATTAAAATATGAATTTATCATGTCATAGCCAGT
1 ATACCAATAGACATCATTAAAATATGAATTTATCATGTCATAGCCAGT
14668 A
1 A
14669 GGTTAACTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (48 bp):
ATACCAATAGACATCATTAAAATATGAATTTATCATGTCATAGCCAGT
Found at i:17141 original size:15 final size:15
Alignment explanation
Indices: 17108--17147 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
17098 ACCCGCTCCG
* * *
17108 CATCCGCCCGCCTCG
1 CATCTGCCCGCCCCA
17123 CATCTGCCCGCCCCA
1 CATCTGCCCGCCCCA
17138 CATCTGCCCG
1 CATCTGCCCG
17148 TCCACTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.10, C:0.57, G:0.17, T:0.15
Consensus pattern (15 bp):
CATCTGCCCGCCCCA
Found at i:24550 original size:10 final size:10
Alignment explanation
Indices: 24535--24559 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24525 AATAAAATTG
24535 CCAAATCAAA
1 CCAAATCAAA
24545 CCAAATCAAA
1 CCAAATCAAA
24555 CCAAA
1 CCAAA
24560 CTAAATGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (10 bp):
CCAAATCAAA
Found at i:24730 original size:22 final size:20
Alignment explanation
Indices: 24702--24755 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
24692 AAGTTTTAAA
24702 TTAAAAAATAAATTATGTATTT
1 TTAAAAAATAAATTAT-T-TTT
* *
24724 TTAAAAATTTAATTTATTTTT
1 TTAAAAA-ATAAATTATTTTT
24745 TATAAAAAATA
1 T-TAAAAAATA
24756 TTAAACTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.22
22 14 0.52
23 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAAAAATAAATTATTTTT
Found at i:33477 original size:25 final size:25
Alignment explanation
Indices: 33449--33498 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
33439 TTTAAACGTG
*
33449 ATTTTATATTTAATTTAATT-TTTTT
1 ATTTCATATTT-ATTTAATTATTTTT
*
33474 ATTTCATATTTATTTATTTATTTTT
1 ATTTCATATTTATTTAATTATTTTT
33499 GCAATCTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (25 bp):
ATTTCATATTTATTTAATTATTTTT
Found at i:34849 original size:2 final size:2
Alignment explanation
Indices: 34842--34891 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
34832 GACGGCAGAA
34842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34884 AT AT AT AT
1 AT AT AT AT
34892 TTTTTTCATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35130 original size:25 final size:26
Alignment explanation
Indices: 35082--35130 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
35072 AGAGGACAAA
* *
35082 AAATATTACTTTTTTTTTCTTTCATT
1 AAATATTACTTTTTTTTCCCTTCATT
*
35108 AAATCTTAC-TTTTTTTCCCTTCA
1 AAATATTACTTTTTTTTCCCTTCA
35131 AAATCTCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.22, C:0.18, G:0.00, T:0.59
Consensus pattern (26 bp):
AAATATTACTTTTTTTTCCCTTCATT
Found at i:38728 original size:23 final size:23
Alignment explanation
Indices: 38698--38744 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
38688 AATTGCAGTT
38698 TGGAGAATGTTGAACCAGCCAAG
1 TGGAGAATGTTGAACCAGCCAAG
* *
38721 TGGAGAATGTTGAACGAGTCAAG
1 TGGAGAATGTTGAACCAGCCAAG
38744 T
1 T
38745 TCTAAAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (23 bp):
TGGAGAATGTTGAACCAGCCAAG
Found at i:52011 original size:114 final size:114
Alignment explanation
Indices: 51811--52039 Score: 458
Period size: 114 Copynumber: 2.0 Consensus size: 114
51801 AAGAATCTGC
51811 CCTTGAAGATAGTCCATCAACATCTTGAGAGGTAGAACAAGCATATGGATCTCCATTTTCATGCA
1 CCTTGAAGATAGTCCATCAACATCTTGAGAGGTAGAACAAGCATATGGATCTCCATTTTCATGCA
51876 CATTGTTCTTAACCTTATTCCTCGCCACATATATCTTGCACAATACCCA
66 CATTGTTCTTAACCTTATTCCTCGCCACATATATCTTGCACAATACCCA
51925 CCTTGAAGATAGTCCATCAACATCTTGAGAGGTAGAACAAGCATATGGATCTCCATTTTCATGCA
1 CCTTGAAGATAGTCCATCAACATCTTGAGAGGTAGAACAAGCATATGGATCTCCATTTTCATGCA
51990 CATTGTTCTTAACCTTATTCCTCGCCACATATATCTTGCACAATACCCA
66 CATTGTTCTTAACCTTATTCCTCGCCACATATATCTTGCACAATACCCA
52039 C
1 C
52040 TTATCAAGCT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (114 bp):
CCTTGAAGATAGTCCATCAACATCTTGAGAGGTAGAACAAGCATATGGATCTCCATTTTCATGCA
CATTGTTCTTAACCTTATTCCTCGCCACATATATCTTGCACAATACCCA
Found at i:54388 original size:37 final size:36
Alignment explanation
Indices: 54313--54388 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
54303 TTTTTATATT
*
54313 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
54349 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
54386 TTT
1 TTT
54389 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:54570 original size:20 final size:20
Alignment explanation
Indices: 54534--54571 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54524 ATCCTATTCC
**
54534 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
54554 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
54572 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:55680 original size:3 final size:3
Alignment explanation
Indices: 55674--55764 Score: 182
Period size: 3 Copynumber: 30.3 Consensus size: 3
55664 AGTTGGACTT
55674 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
55722 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
55765 GTAACGAGCC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:56538 original size:2 final size:2
Alignment explanation
Indices: 56531--56558 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56521 AATTTTTCAA
56531 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
56559 TATTGAAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59415 original size:29 final size:29
Alignment explanation
Indices: 59381--59520 Score: 110
Period size: 29 Copynumber: 4.8 Consensus size: 29
59371 ATTTCTATGA
*
59381 AGTTTTGTATTTTATTGTAATTTATAAAAT
1 AGTTTTGTACTTTATTGTAATTTA-AAAAT
* * *
59411 A-TTTTATACTTTATTGTAAATTCCAAAAAAA
1 AGTTTTGTACTTTATTGT-AATT--TAAAAAT
59442 AG--TTGTACTTTATTGTAAATTCT-AAAA-
1 AGTTTTGTACTTTATTGT-AATT-TAAAAAT
* * * *
59469 AGTTTTGTCCTTTATTGTAAATTACAATT
1 AGTTTTGTACTTTATTGTAATTTAAAAAT
*
59498 AGTTTTGTTCTTTATTGTAATTT
1 AGTTTTGTACTTTATTGTAATTT
59521 TATATTTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
27 3 0.03
28 9 0.10
29 49 0.54
30 23 0.26
31 5 0.06
32 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.51
Consensus pattern (29 bp):
AGTTTTGTACTTTATTGTAATTTAAAAAT
Found at i:60881 original size:25 final size:25
Alignment explanation
Indices: 60809--60885 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
60799 AAAAATTTAC
60809 TATTCGTATTATATTAATAAATATA
1 TATTCGTATTATATTAATAAATATA
** * * *
60834 TA--AATATAATATT-TTATATTATA
1 TATTCGTATTATATTAATA-AATATA
60857 TATTCGTATTATATTAATAAATATA
1 TATTCGTATTATATTAATAAATATA
60882 TATT
1 TATT
60886 AATAAATATA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 2 0.05
23 15 0.39
25 19 0.50
26 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (25 bp):
TATTCGTATTATATTAATAAATATA
Found at i:60885 original size:14 final size:14
Alignment explanation
Indices: 60866--60897 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
60856 ATATTCGTAT
60866 TATATTAATAAATA
1 TATATTAATAAATA
60880 TATATTAATAAATA
1 TATATTAATAAATA
60894 TATA
1 TATA
60898 AAATATTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATTAATAAATA
Found at i:62003 original size:54 final size:54
Alignment explanation
Indices: 61815--62155 Score: 420
Period size: 54 Copynumber: 6.3 Consensus size: 54
61805 TTCTTTGTAA
* * * * * * * * **
61815 TGCACACGTAGTGCCCATACGGTCATTCATAAATAATATTATGAATTCTATGGTT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAA-CATATGATGAATTCTGTACTT
* * * *
61870 TGCACACATAGTGCCGAAATGGTTATTCATCAACATATGATAAATTCCGTACTTT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTAC-TT
61925 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGA-TT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGT-ACTT
* *
61979 TGCACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTCCGTACTT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTACTT
* *
62033 TGCACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATT-TCGTGA-GT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCT-GT-ACTT
* *
62087 TGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATT-TCGTACTT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCT-GTACTT
62141 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
62156 TATTTGGTAA
Statistics
Matches: 254, Mismatches: 26, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
53 2 0.01
54 175 0.69
55 76 0.30
56 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTACTT
Found at i:62091 original size:108 final size:108
Alignment explanation
Indices: 61815--62155 Score: 479
Period size: 108 Copynumber: 3.1 Consensus size: 108
61805 TTCTTTGTAA
* * * * * * * * *
61815 TGCACACGTAGTGCCCATACGGTCATTCATAAATAATATTATGAATTCTATG-GTTTGCACACAT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAA-CATATGATGAATTCTGTGAG-TTGCACACTT
* *
61879 AGTGCCGAAATGGTTATTCATCAACATATGATAAATTCCGTACTTT
64 AGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTAC-TT
*
61925 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGATTTGCACACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGAGTTGCACACTTAG
*
61990 TGTCGAAACGGTTATTCATCAACATATGATGAATTCCGTACTT
66 TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTACTT
* *
62033 TGCACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATT-TCGTGAGTTGCACGCTTA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCT-GTGAGTTGCACACTTA
* *
62097 GTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTACTT
65 GTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTACTT
62141 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
62156 TATTTGGTAA
Statistics
Matches: 209, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
107 1 0.00
108 116 0.56
109 64 0.31
110 28 0.13
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (108 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGAGTTGCACACTTAG
TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTACTT
Found at i:62466 original size:19 final size:21
Alignment explanation
Indices: 62423--62476 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
62413 TACCCCCACC
*
62423 ATGGTATCGATACTACTATACT
1 ATGGTACCGATACTACTATA-T
62445 ATGGTACCGATACT-CTAT-T
1 ATGGTACCGATACTACTATAT
*
62464 ATGGTACTGATAC
1 ATGGTACCGATAC
62477 CATTTTTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 13 0.43
21 4 0.13
22 13 0.43
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
ATGGTACCGATACTACTATAT
Found at i:74192 original size:81 final size:78
Alignment explanation
Indices: 74054--74324 Score: 262
Period size: 81 Copynumber: 3.4 Consensus size: 78
74044 TCATTTCTCG
* * * * * *
74054 CCCTCCGTTTCCGAGGTGGTGATAAATC-G--GCATCTGCTCTATTTACTAAAGGTTCTGGTGAA
1 CCCTCCGTTTCCGTGGAGGAGATAAATCAGTACCATCTGCTCTGTTTACTAAA-GTTCTGGTGAT
74116 GGTGAATCATTCCGAA
65 GGTG--TCATTCCGAA
*
74132 CCATCCGTTTCCGTGGAGGAGATAAATCAGTACCATCTGCTCTGTTTACTATAAGTTCTGGTGAT
1 CCCTCCGTTTCCGTGGAGGAGATAAATCAGTACCATCTGCTCTGTTTACTA-AAGTTCTGGTGAT
74197 GGTGTGTCATTCCGAA
65 -G-GTGTCATTCCGAA
* * * * * * * *
74213 CCCTCCGTTTTCATGGAGGAGATAAATCGGTACCGTCTACCCTGCTTACTAAAGATTCAGGTGAT
1 CCCTCCGTTTCCGTGGAGGAGATAAATCAGTACCATCTGCTCTGTTTACTAAAG-TTCTGGTGAT
*
74278 GGCATGTCATTCCAAA
65 GG--TGTCATTCCGAA
**
74294 CCCTTAGTTTCCGAT-GAGGAGATAAATCAGT
1 CCCTCCGTTTCCG-TGGAGGAGATAAATCAGT
74325 TTCATCTCTA
Statistics
Matches: 161, Mismatches: 22, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
78 24 0.15
79 2 0.01
80 4 0.02
81 124 0.77
82 4 0.02
83 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (78 bp):
CCCTCCGTTTCCGTGGAGGAGATAAATCAGTACCATCTGCTCTGTTTACTAAAGTTCTGGTGATG
GTGTCATTCCGAA
Found at i:81739 original size:23 final size:23
Alignment explanation
Indices: 81701--81745 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
81691 ACATGTTGAC
** *
81701 GAACATGTTAGTAAACTCTAAAA
1 GAACATGTTAACAAACCCTAAAA
81724 GAACATGTTAACAAACCCTAAA
1 GAACATGTTAACAAACCCTAAA
81746 CGAGCATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (23 bp):
GAACATGTTAACAAACCCTAAAA
Done.