Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022106.1 Corchorus olitorius cultivar O-4 contig22139, 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: 56753
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:4275 original size:14 final size:14
Alignment explanation
Indices: 4256--4282 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4246 CTGAAAATCG
4256 TTTCCGCTATTGCA
1 TTTCCGCTATTGCA
4270 TTTCCGCTATTGC
1 TTTCCGCTATTGC
4283 GTTTTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.30, G:0.15, T:0.44
Consensus pattern (14 bp):
TTTCCGCTATTGCA
Found at i:8921 original size:14 final size:14
Alignment explanation
Indices: 8904--8954 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
8894 TCCTCCCTTA
8904 CTTTTCCTGTTGCC
1 CTTTTCCTGTTGCC
*
8918 CTTTTCCTGTTACCC
1 CTTTTCCTGTT-GCC
8933 TTACTTTTCCTGTTGCC
1 ---CTTTTCCTGTTGCC
8950 CTTTT
1 CTTTT
8955 TTGTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 16 0.52
15 2 0.06
17 2 0.06
18 11 0.35
ACGTcount: A:0.04, C:0.33, G:0.10, T:0.53
Consensus pattern (14 bp):
CTTTTCCTGTTGCC
Found at i:8939 original size:18 final size:17
Alignment explanation
Indices: 8897--8952 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
8887 ATTAATTTCC
8897 TCCCTTACTTTTCCTGT
1 TCCCTTACTTTTCCTGT
*
8914 TGCC---CTTTTCCTGT
1 TCCCTTACTTTTCCTGT
8928 TACCCTTACTTTTCCTGT
1 T-CCCTTACTTTTCCTGT
8946 TGCCCTT
1 T-CCCTT
8953 TTTTGTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 11 0.34
15 2 0.06
17 3 0.09
18 16 0.50
ACGTcount: A:0.05, C:0.36, G:0.09, T:0.50
Consensus pattern (17 bp):
TCCCTTACTTTTCCTGT
Found at i:13794 original size:12 final size:12
Alignment explanation
Indices: 13777--13802 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13767 GCTATAAATG
13777 TATCCTTATAAT
1 TATCCTTATAAT
13789 TATCCTTATAAT
1 TATCCTTATAAT
13801 TA
1 TA
13803 GTATATTTTC
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:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (12 bp):
TATCCTTATAAT
Found at i:14671 original size:19 final size:20
Alignment explanation
Indices: 14628--14676 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
14618 GGTTAAGAAT
*
14628 ATGTAATATTAATTTTAATTG
1 ATGT-ATATTAATTTTAATTC
14649 ATGT-TATT-ATTTTAATTTC
1 ATGTATATTAATTTTAA-TTC
14668 ATGTATATT
1 ATGTATATT
14677 GCAGGAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 10 0.40
20 4 0.16
21 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (20 bp):
ATGTATATTAATTTTAATTC
Found at i:14719 original size:1 final size:1
Alignment explanation
Indices: 14713--14740 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
14703 CAAGTACATG
14713 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
14741 GAGAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15994 original size:21 final size:20
Alignment explanation
Indices: 15963--16011 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
15953 ATTTTATCTA
15963 TAATTTATTAAGTAATTTAG
1 TAATTTATTAAGTAATTTAG
**
15983 TAATTGTATTAAGTGTTTTAG
1 TAATT-TATTAAGTAATTTAG
*
16004 TAACTTAT
1 TAATTTAT
16012 CAAACTTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (20 bp):
TAATTTATTAAGTAATTTAG
Found at i:16565 original size:26 final size:26
Alignment explanation
Indices: 16535--16594 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
16525 TTCTGCATAA
* *
16535 TTTAGTAACCTCACATTCTTAGAATT
1 TTTAGTAACCTCACATTCTTACAAAT
**
16561 TTTAGTAACCTTGCATTCTTACAAAT
1 TTTAGTAACCTCACATTCTTACAAAT
16587 TTTAGTAA
1 TTTAGTAA
16595 ACATTTCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (26 bp):
TTTAGTAACCTCACATTCTTACAAAT
Found at i:17236 original size:6 final size:6
Alignment explanation
Indices: 17218--17247 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
17208 GTACCTCAAC
17218 CCTAAA CCCTAAA CCTAAA CCTAAA CCTAA
1 CCTAAA -CCTAAA CCTAAA CCTAAA CCTAA
17248 TATTTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTAAA
Found at i:18168 original size:25 final size:24
Alignment explanation
Indices: 18134--18184 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
18124 CACTAATTAC
18134 TTGATTGATAGAGGGTTTTTTTTTT
1 TTGATTGATAGA-GGTTTTTTTTTT
18159 TTGATTGATAGAGGTTTTTTTTTT
1 TTGATTGATAGAGGTTTTTTTTTT
18183 TT
1 TT
18185 CTGATAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.63
Consensus pattern (24 bp):
TTGATTGATAGAGGTTTTTTTTTT
Found at i:18176 original size:21 final size:23
Alignment explanation
Indices: 18134--18183 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
18124 CACTAATTAC
18134 TTGATTGATAGAGGGTTTTTTTTTT
1 TTGATTGATAGAGGG--TTTTTTTT
*
18159 TTGATTGATAGAGGTTTTTTTTT
1 TTGATTGATAGAGGGTTTTTTTT
18182 TT
1 TT
18184 TCTGATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 10 0.42
25 14 0.58
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (23 bp):
TTGATTGATAGAGGGTTTTTTTT
Found at i:20952 original size:25 final size:20
Alignment explanation
Indices: 20897--20944 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
20887 TAGATATAAA
20897 ATATATGAATTGAATTACAT
1 ATATATGAATTGAATTACAT
20917 ATATATGAATTGAATTACAT
1 ATATATGAATTGAATTACAT
20937 ATATATGA
1 ATATATGA
20945 TTCGAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (20 bp):
ATATATGAATTGAATTACAT
Found at i:27864 original size:50 final size:51
Alignment explanation
Indices: 27810--27909 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
27800 TAAGCAACTG
*
27810 GGATATGATTAAGATCAATATTAA-TTTTTTTTAGTATCCCATCCGGTATC
1 GGATATGATTAAGATCAACATTAATTTTTTTTTAGTATCCCATCCGGTATC
*
27860 GGATATGATTAAGATCAACATTAATTTTTTTTTGGTATCCCATCCGGTAT
1 GGATATGATTAAGATCAACATTAATTTTTTTTTAGTATCCCATCCGGTAT
27910 TCAGGGTCCC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 23 0.49
51 24 0.51
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (51 bp):
GGATATGATTAAGATCAACATTAATTTTTTTTTAGTATCCCATCCGGTATC
Found at i:27921 original size:19 final size:19
Alignment explanation
Indices: 27897--27935 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27887 TTTTTTGGTA
*
27897 TCCCATCCGGTATTCAGGG
1 TCCCATCCGGTATCCAGGG
27916 TCCCATCCGGTATCCAGGG
1 TCCCATCCGGTATCCAGGG
27935 T
1 T
27936 TTTGCCTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.26
Consensus pattern (19 bp):
TCCCATCCGGTATCCAGGG
Found at i:28052 original size:49 final size:49
Alignment explanation
Indices: 27980--28075 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
27970 GCACCTGGTT
*
27980 ATGGTGGGTGAGTCTCCCAACAGGGAGAGCTGCGTACGCAAGGTCTCAG
1 ATGGTGGGTGAGTCTCCCAACAGGGAGAGCTGCGTACACAAGGTCTCAG
28029 ATGGTGGGTGAGTCTCCCAACAGGGAGAGCTGCGTACACAAGGTCTC
1 ATGGTGGGTGAGTCTCCCAACAGGGAGAGCTGCGTACACAAGGTCTC
28076 GAACCTGAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (49 bp):
ATGGTGGGTGAGTCTCCCAACAGGGAGAGCTGCGTACACAAGGTCTCAG
Found at i:28658 original size:15 final size:15
Alignment explanation
Indices: 28638--28666 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
28628 TCTATAAGGG
28638 AAAAAAAAAGAAAGA
1 AAAAAAAAAGAAAGA
28653 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
28667 GAACGGAAAA
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:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAGA
Found at i:34994 original size:9 final size:9
Alignment explanation
Indices: 34980--35010 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
34970 TGTAGAGCAG
34980 GAAGGCCAA
1 GAAGGCCAA
34989 GAAGGCCAA
1 GAAGGCCAA
34998 GAAGGCCAA
1 GAAGGCCAA
35007 GAAG
1 GAAG
35011 TTCAAGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.19, G:0.35, T:0.00
Consensus pattern (9 bp):
GAAGGCCAA
Found at i:42261 original size:231 final size:231
Alignment explanation
Indices: 41858--42321 Score: 919
Period size: 231 Copynumber: 2.0 Consensus size: 231
41848 TCCCAATGCC
41858 TTCATTTTTTTCTTCACCATTATTAGCCATGTAAACAGCCTTATCACACTTCTCAGGCTTCGAAA
1 TTCATTTTTTTCTTCACCATTATTAGCCATGTAAACAGCCTTATCACACTTCTCAGGCTTCGAAA
41923 ACCATTATTTCTTTGTGCAAATATGTTCAGAACAAGTAGAATCAAACACCCACATATTTCTAGTG
66 ACCATTATTTCTTTGTGCAAATATGTTCAGAACAAGTAGAATCAAACACCCACATATTTCTAGTG
41988 TCTTTCTTTTCTTCTTGCACCATCAAAACAACATCTTCATCAGAATATTCATCACTATCTGCAGC
131 TCTTTCTTTTCTTCTTGCACCATCAAAACAACATCTTCATCAGAATATTCATCACTATCTGCAGC
42053 AGCAACATTAACATCAGCCTTATTCTTTTCTTTAGA
196 AGCAACATTAACATCAGCCTTATTCTTTTCTTTAGA
42089 TTCATTTTTTTCTTCACCATTATTAGCCATGTAAACAGCCTTATCACACTTCTCAGGCTTCGAAA
1 TTCATTTTTTTCTTCACCATTATTAGCCATGTAAACAGCCTTATCACACTTCTCAGGCTTCGAAA
*
42154 ACCATTCTTTCTTTGTGCAAATATGTTCAGAACAAGTAGAATCAAACACCCACATATTTCTAGTG
66 ACCATTATTTCTTTGTGCAAATATGTTCAGAACAAGTAGAATCAAACACCCACATATTTCTAGTG
42219 TCTTTCTTTTCTTCTTGCACCATCAAAACAACATCTTCATCAGAATATTCATCACTATCTGCAGC
131 TCTTTCTTTTCTTCTTGCACCATCAAAACAACATCTTCATCAGAATATTCATCACTATCTGCAGC
42284 AGCAACATTAACATCAGCCTTATTCTTTTCTTTAGA
196 AGCAACATTAACATCAGCCTTATTCTTTTCTTTAGA
42320 TT
1 TT
42322 TCATGAAATC
Statistics
Matches: 232, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 232 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.37
Consensus pattern (231 bp):
TTCATTTTTTTCTTCACCATTATTAGCCATGTAAACAGCCTTATCACACTTCTCAGGCTTCGAAA
ACCATTATTTCTTTGTGCAAATATGTTCAGAACAAGTAGAATCAAACACCCACATATTTCTAGTG
TCTTTCTTTTCTTCTTGCACCATCAAAACAACATCTTCATCAGAATATTCATCACTATCTGCAGC
AGCAACATTAACATCAGCCTTATTCTTTTCTTTAGA
Found at i:44848 original size:16 final size:16
Alignment explanation
Indices: 44829--44862 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44819 GAGTCGAAAA
44829 ACCCAAAACCCGAATG
1 ACCCAAAACCCGAATG
* *
44845 ACCCAAAATCCGAGTG
1 ACCCAAAACCCGAATG
44861 AC
1 AC
44863 TTGAGGCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.35, G:0.15, T:0.09
Consensus pattern (16 bp):
ACCCAAAACCCGAATG
Found at i:45606 original size:22 final size:22
Alignment explanation
Indices: 45571--45617 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
45561 TTTTTAGTTG
* *
45571 AGTAAAATTATAAAAGCAAAAT
1 AGTAAAATGATAAAAACAAAAT
* *
45593 AGTAAAATGGTAAAAATAAAAT
1 AGTAAAATGATAAAAACAAAAT
45615 AGT
1 AGT
45618 TATATGGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (22 bp):
AGTAAAATGATAAAAACAAAAT
Found at i:45606 original size:93 final size:93
Alignment explanation
Indices: 45499--45677 Score: 297
Period size: 93 Copynumber: 1.9 Consensus size: 93
45489 TTAATTAAAT
*
45499 TAGTAATATCGTAAAAATAAAATA-TGTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTT
1 TAGTAAAATCGTAAAAATAAAATAGT-TATAAGGATATTAGATTTAATTAAATAAAAATAGAGTT
* *
45563 TTTAGTTGAGTAAAATTATAAAAGCAAAA
65 TTTAGTTGACTAAAACTATAAAAGCAAAA
* *
45592 TAGTAAAATGGTAAAAATAAAATAGTTATATGGATATTAGATTTAATTAAATAAAAATAGAGTTT
1 TAGTAAAATCGTAAAAATAAAATAGTTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTT
45657 TTAGTTGACTAAAACTATAAA
66 TTAGTTGACTAAAACTATAAA
45678 TGTATTCTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 79 0.99
94 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (93 bp):
TAGTAAAATCGTAAAAATAAAATAGTTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTT
TTAGTTGACTAAAACTATAAAAGCAAAA
Found at i:45728 original size:31 final size:31
Alignment explanation
Indices: 45689--45781 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
45679 GTATTCTAAA
45689 AATAAGGGTATAATAGGCGATTCAAAAGTTT
1 AATAAGGGTATAATAGGCGATTCAAAAGTTT
* *
45720 AATTAGGGTATAATAAGCGATTCAAAAGTTT
1 AATAAGGGTATAATAGGCGATTCAAAAGTTT
45751 AATAAGGGTATAATAGGCGATTCAAAAGTTT
1 AATAAGGGTATAATAGGCGATTCAAAAGTTT
45782 TACAAAACTC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (31 bp):
AATAAGGGTATAATAGGCGATTCAAAAGTTT
Found at i:46450 original size:31 final size:31
Alignment explanation
Indices: 46409--46487 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
46399 CGTTTCTGTT
*
46409 TTTAGCCTCAAATTGGTCAACTTTTGAAAGG
1 TTTAGCCTCAAATTGGTCAACTTTTGAAAAG
* *
46440 TTTAGACTCAAATTAAG-CAACTTTTGAAAAG
1 TTTAGCCTCAAATT-GGTCAACTTTTGAAAAG
*
46471 TTTAGCCTCAGATTGGT
1 TTTAGCCTCAAATTGGT
46488 GGCTTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 38 0.95
32 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (31 bp):
TTTAGCCTCAAATTGGTCAACTTTTGAAAAG
Found at i:52019 original size:21 final size:20
Alignment explanation
Indices: 51993--52056 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
51983 GCTGCTCTAA
*
51993 TAATCTCATCTTTACAGTATC
1 TAATCTCATCTATACAGT-TC
* * *
52014 TAATCTAATCTGTACAG-TG
1 TAATCTCATCTATACAGTTC
52033 TAATCTCATCTATACAGTTTC
1 TAATCTCATCTATACAG-TTC
52054 TAA
1 TAA
52057 ACAGTGTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (20 bp):
TAATCTCATCTATACAGTTC
Found at i:52038 original size:19 final size:19
Alignment explanation
Indices: 52014--52050 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52004 TTACAGTATC
*
52014 TAATCTAATCTGTACAGTG
1 TAATCTAATCTATACAGTG
*
52033 TAATCTCATCTATACAGT
1 TAATCTAATCTATACAGT
52051 TTCTAAACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
TAATCTAATCTATACAGTG
Found at i:53129 original size:2 final size:2
Alignment explanation
Indices: 53122--53155 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53112 ATGGGAAAGA
53122 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
53156 TGTTCTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56365 original size:21 final size:19
Alignment explanation
Indices: 56336--56385 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
56326 AGAAAAAGGG
*
56336 AAATAGGAAAGTAATAATAT
1 AAATAGGAAAGTAAAAAT-T
*
56356 AAATAAGGAAATTAAAAATT
1 AAAT-AGGAAAGTAAAAATT
*
56376 AAATTGGAAA
1 AAATAGGAAA
56386 TTAATATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 9 0.35
21 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
AAATAGGAAAGTAAAAATT
Done.