Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017672.1 Corchorus olitorius cultivar O-4 contig17705, 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: 21905
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Found at i:34 original size:2 final size:2
Alignment explanation
Indices: 29--63 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
19 ACACACACAG
29 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64 GTTGATTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2931 original size:166 final size:170
Alignment explanation
Indices: 2690--3027 Score: 463
Period size: 176 Copynumber: 2.0 Consensus size: 170
2680 ATAAAAGTAT
* *
2690 GAATAATGGAAAACTTTATGTTTTCCGATTGTACCATTTTTCAAATATATCTCTAAATTGA-TAT
1 GAATAATGGAAAACTTTATGTTTTCCGATCGCACCATTTTTCAAATATATCTCTAAATTGACTAT
*
2754 T-A-TTA-A-AAT-TTATTATTTAAAAATTAATTATAAAATTTCAATTTAGACCGAATTATAAGT
66 TAATTTAGATAATATTATTATTTAAAAACTAATTA-AAAATTTCAATTTAGACCGAATTATAAGT
*
2814 TTGTAAAATTGATTTTCATTGATGAGCATGCAAATTTCTAC
130 TTGTAAAATTGATTTTCATTGATGAACATGCAAATTTCTAC
* * * * *
2855 GAATAATGGGAAACTTTATGTTTTCCGATCGCACCCTTTTTTTAAATATATTTCTAAATTGCCAT
1 GAATAATGGAAAACTTTATGTTTTCCGATCGCA-CCATTTTTCAAATATATCTCTAAATTG--AC
*
2920 TATTAAAATTTAGTATAATATTATTATTTAAAAACTAATTAATAATTTCAATTTAGACCGAATTA
63 TATT--AATTTAG-ATAATATTATTATTTAAAAACTAATTAAAAATTTCAATTTAGACCGAATTA
* *
2985 TAATTTTGTCAAATTGATTTTCATTGATGAACATGCAAATTTC
125 TAAGTTTGTAAAATTGATTTTCATTGATGAACATGCAAATTTC
3028 CTTTACTATT
Statistics
Matches: 150, Mismatches: 11, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
165 30 0.20
166 24 0.16
168 1 0.01
169 4 0.03
172 1 0.01
173 3 0.02
175 1 0.01
176 66 0.44
177 20 0.13
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (170 bp):
GAATAATGGAAAACTTTATGTTTTCCGATCGCACCATTTTTCAAATATATCTCTAAATTGACTAT
TAATTTAGATAATATTATTATTTAAAAACTAATTAAAAATTTCAATTTAGACCGAATTATAAGTT
TGTAAAATTGATTTTCATTGATGAACATGCAAATTTCTAC
Found at i:3066 original size:20 final size:20
Alignment explanation
Indices: 3041--3079 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3031 TACTATTATT
3041 TTTTAAATTT-AATATTTTAC
1 TTTT-AATTTCAATATTTTAC
*
3061 TTTTAATTTCAATTTTTTA
1 TTTTAATTTCAATATTTTA
3080 AATATCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAATTTCAATATTTTAC
Found at i:3302 original size:22 final size:21
Alignment explanation
Indices: 3246--3438 Score: 163
Period size: 22 Copynumber: 8.7 Consensus size: 21
3236 GTCTCTGTGT
*
3246 GGTTATCAAAATTTCATAAGA
1 GGTTATCAAAATTTCATAGGA
* * *
3267 TGATTATTATAATTTCATGAGGA
1 -GGTTATCAAAATTTCAT-AGGA
*
3290 GGTTATCAAAA-TTCTATAGTGT
1 GGTTATCAAAATTTC-ATAG-GA
*
3312 GGTTACCAAAATTTCATATGGA
1 GGTTATCAAAATTTCATA-GGA
*
3334 AGTTATCAAAATTTCATAGGAA
1 GGTTATCAAAATTTCATAGG-A
*
3356 GGTTATCAAAATTTCATAGTGT
1 GGTTATCAAAATTTCATAG-GA
*
3378 GGTTACCAAAATTTCATAGGATCA
1 GGTTATCAAAATTTCATAGG---A
* *
3402 GGTTATTAAAATTTCTTAGGAA
1 GGTTATCAAAATTTCATAGG-A
**
3424 GGTTATTGAAATTTC
1 GGTTATCAAAATTTC
3439 GTAGTACTGT
Statistics
Matches: 140, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
21 8 0.06
22 107 0.76
23 8 0.06
24 17 0.12
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.37
Consensus pattern (21 bp):
GGTTATCAAAATTTCATAGGA
Found at i:3348 original size:66 final size:65
Alignment explanation
Indices: 3242--3443 Score: 246
Period size: 66 Copynumber: 3.0 Consensus size: 65
3232 TCTTGTCTCT
* * * *
3242 GTGTGGTTATCAAAATTTCATAAGATGATTATTATAATTTCATGAGG-AGGTTATCAAAA-TTCT
1 GTGTGGTTACCAAAATTTCATAGGAAG-TTATTAAAATTTCAT-AGGAAGGTTATCAAAATTTC-
3305 ATA
63 ATA
*
3308 GTGTGGTTACCAAAATTTCATATGGAAGTTATCAAAATTTCATAGGAAGGTTATCAAAATTTCAT
1 GTGTGGTTACCAAAATTTCATA-GGAAGTTATTAAAATTTCATAGGAAGGTTATCAAAATTTCAT
3373 A
65 A
* **
3374 GTGTGGTTACCAAAATTTCATAGGATCAGGTTATTAAAATTTCTTAGGAAGGTTATTGAAATTTC
1 GTGTGGTTACCAAAATTTCATAGGA--A-GTTATTAAAATTTCATAGGAAGGTTATCAAAATTTC
*
3439 GTA
63 ATA
3442 GT
1 GT
3444 ACTGTCACAA
Statistics
Matches: 120, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
65 6 0.05
66 71 0.59
67 7 0.06
68 36 0.30
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (65 bp):
GTGTGGTTACCAAAATTTCATAGGAAGTTATTAAAATTTCATAGGAAGGTTATCAAAATTTCATA
Found at i:3546 original size:22 final size:21
Alignment explanation
Indices: 3524--3639 Score: 69
Period size: 22 Copynumber: 5.4 Consensus size: 21
3514 ACAGTGTGGT
3524 TTACAAAATTTCATAAGGAGG
1 TTACAAAATTTCATAAGGAGG
* **
3545 TTACTAATATTTCATGGGGAGG
1 TTAC-AAAATTTCATAAGGAGG
*
3567 TTATCAAAATTT-AT-AGTGTGG
1 TTA-CAAAATTTCATAAG-GAGG
*
3588 TTATCAAAATTTTC-T-AGTGTGG
1 TTA-CAAAA-TTTCATAAG-GAGG
* *
3610 TTATCAAAATTTCATATGAAGG
1 TTA-CAAAATTTCATAAGGAGG
*
3632 TTATAAAA
1 TTACAAAA
3640 GTCTCAATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
20 1 0.01
21 26 0.33
22 49 0.63
23 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
TTACAAAATTTCATAAGGAGG
Found at i:3591 original size:21 final size:21
Alignment explanation
Indices: 3565--3621 Score: 96
Period size: 22 Copynumber: 2.7 Consensus size: 21
3555 TTCATGGGGA
3565 GGTTATCAAAATTTATAGTGT
1 GGTTATCAAAATTTATAGTGT
*
3586 GGTTATCAAAATTTTCTAGTGT
1 GGTTATCAAAA-TTTATAGTGT
3608 GGTTATCAAAATTT
1 GGTTATCAAAATTT
3622 CATATGAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (21 bp):
GGTTATCAAAATTTATAGTGT
Found at i:3772 original size:22 final size:21
Alignment explanation
Indices: 3726--3806 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 21
3716 AAGATCGGGA
3726 TTATCAAAATTT-ATAGGAAG
1 TTATCAAAATTTCATAGGAAG
**
3746 ATTATCAAAATTTCATAGTGTTG
1 -TTATCAAAATTTCATAG-GAAG
* * *
3769 TTATCAGAATTTCAAAGCGAGG
1 TTATCAAAATTTCATAG-GAAG
3791 TTATCAAAATTTCATA
1 TTATCAAAATTTCATA
3807 ATGTGATTGT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 12 0.24
22 35 0.71
23 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (21 bp):
TTATCAAAATTTCATAGGAAG
Found at i:5863 original size:22 final size:22
Alignment explanation
Indices: 5823--5865 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5813 GAGGGGTCAA
* * *
5823 CAAAATTTTATAGAGAGGTTAT
1 CAAAATTTCATAAAAAGGTTAT
5845 CAAAATTTCATAAAAAGGTTA
1 CAAAATTTCATAAAAAGGTTA
5866 ATAAATTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (22 bp):
CAAAATTTCATAAAAAGGTTAT
Found at i:5875 original size:22 final size:22
Alignment explanation
Indices: 5825--5876 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
5815 GGGGTCAACA
* *
5825 AAATTTT-ATAGAGAGGTTATC
1 AAATTTTCATAAAAAGGTTATC
*
5846 AAAATTTCATAAAAAGGTTAAT-
1 AAATTTTCATAAAAAGGTT-ATC
5868 AAATTTTCA
1 AAATTTTCA
5877 AAATGTGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 6 0.24
22 17 0.68
23 2 0.08
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (22 bp):
AAATTTTCATAAAAAGGTTATC
Found at i:6131 original size:23 final size:22
Alignment explanation
Indices: 5977--6411 Score: 236
Period size: 22 Copynumber: 19.5 Consensus size: 22
5967 TTATGGAGTA
*
5977 ATCAAAATTTC--AGGGAGGAT
1 ATCAAAATTTCATAGGGAGGTT
* *
5997 ATCAAAATTTCATATGAAGGTT
1 ATCAAAATTTCATAGGGAGGTT
**
6019 ATCAAAATTTCATAGTTTA-GTT
1 ATCAAAATTTCATAG-GGAGGTT
* * * *
6041 TTCAAAATTTCATA-GTATGTAG
1 ATCAAAATTTCATAGGGAGGT-T
* *
6063 ATCAAAATTTCATAAGGAGATT
1 ATCAAAATTTCATAGGGAGGTT
* **
6085 AACAAAATTTCATAATGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
**
6107 ATCAAAAAATCATAGGGAGGTTT
1 ATCAAAATTTCATAGGGAGG-TT
* *
6130 ATCAAAATTTTATAGGAAGGTTT
1 ATCAAAATTTCATAGGGAGG-TT
*
6153 ATCAAAATTTCATAGCGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
* * * *
6175 ATCACAATTTCATAGTGTGATT
1 ATCAAAATTTCATAGGGAGGTT
* **
6197 ATCAAAATTTCAAAGTGTGATGACT
1 ATCAAAATTTCATAG-G-GA-GGTT
* *
6222 AACTAACAA-TTCATATGGAGGTT
1 ATC-AA-AATTTCATAGGGAGGTT
* * * ** *
6245 TTTAAATTTTCATAAAGTGGTT
1 ATCAAAATTTCATAGGGAGGTT
*
6267 ATCAATATATATT-ATATGGAGGTT
1 ATCAA-A-AT-TTCATAGGGAGGTT
* * **
6291 ATCAACATCTCATAGTGTTGGTT
1 ATCAAAATTTCATAG-GGAGGTT
* *
6314 ATCAAAATTTCATTGGGAAGTT
1 ATCAAAATTTCATAGGGAGGTT
* *
6336 ATCAAAATTTCATAGTGAGATCT
1 ATCAAAATTTCATAGGGAGGT-T
* * *
6359 -TCAAAATTCCTTAGGGAGATT
1 ATCAAAATTTCATAGGGAGGTT
* * *
6380 AACAAAATTTCATAAGAAGGTT
1 ATCAAAATTTCATAGGGAGGTT
**
6402 AAAAAAATTT
1 ATCAAAATTT
6412 ATAAAAAGGT
Statistics
Matches: 314, Mismatches: 81, Indels: 38
0.73 0.19 0.09
Matches are distributed among these distances:
20 13 0.04
21 5 0.02
22 199 0.63
23 63 0.20
24 17 0.05
25 8 0.03
26 7 0.02
27 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (22 bp):
ATCAAAATTTCATAGGGAGGTT
Found at i:6407 original size:21 final size:22
Alignment explanation
Indices: 6380--6422 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6370 TAGGGAGATT
*
6380 AACAAAATTTCATAAGAAGGTTA
1 AACAAAATTT-ATAAAAAGGTTA
6403 AA-AAAATTTATAAAAAGGTT
1 AACAAAATTTATAAAAAGGTT
6423 CCCGAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 7 0.37
23 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (22 bp):
AACAAAATTTATAAAAAGGTTA
Found at i:13999 original size:24 final size:24
Alignment explanation
Indices: 13971--14032 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 24
13961 GGCCCCTCCA
13971 AAAATATTATAATGGTTTCTAAAG
1 AAAATATTATAATGGTTTCTAAAG
13995 -AAA-A-TATAAT--TATTCTAAAG
1 AAAATATTATAATGGT-TTCTAAAG
* *
14015 AATATATTATTATGGTTT
1 AAAATATTATAATGGTTT
14033 AGATGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
19 1 0.03
20 8 0.27
21 8 0.27
22 2 0.07
23 8 0.27
24 2 0.07
25 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (24 bp):
AAAATATTATAATGGTTTCTAAAG
Found at i:14012 original size:20 final size:20
Alignment explanation
Indices: 13987--14027 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13977 TTATAATGGT
13987 TTCTAAAGAAAATATAATTA
1 TTCTAAAGAAAATATAATTA
* *
14007 TTCTAAAGAATATATTATTA
1 TTCTAAAGAAAATATAATTA
14027 T
1 T
14028 GGTTTAGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
TTCTAAAGAAAATATAATTA
Found at i:15314 original size:22 final size:22
Alignment explanation
Indices: 15187--15353 Score: 81
Period size: 22 Copynumber: 7.6 Consensus size: 22
15177 TGTATGAAAC
* *
15187 TTTGATAATCTCCCTATGAAAA-
1 TTTGATAATCACACTAT-AAAAT
* * * *
15209 TTTGATAAACACATTGTGAAAT
1 TTTGATAATCACACTATAAAAT
* * * * *
15231 TTTTATAACCATATTATGAAAT
1 TTTGATAATCACACTATAAAAT
* * * *
15253 TTTGATAA-CGTCAGTGTGAAAT
1 TTTGATAATC-ACACTATAAAAT
** *
15275 TTTGATAATCTTAATATAAAAT
1 TTTGATAATCACACTATAAAAT
*
15297 TTTAATAATCACACTATAAAA-
1 TTTGATAATCACACTATAAAAT
* * *
15318 -TTGGTAACCGCACTATGAAAAT
1 TTTGATAATCACACTAT-AAAAT
15340 TTTGATAATCACAC
1 TTTGATAATCACAC
15354 CATGCAATTT
Statistics
Matches: 109, Mismatches: 30, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
20 12 0.11
21 8 0.07
22 78 0.72
23 11 0.10
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (22 bp):
TTTGATAATCACACTATAAAAT
Found at i:15444 original size:22 final size:21
Alignment explanation
Indices: 15410--15466 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
15400 CTTTCTATGT
*
15410 AATTTTAAAAACCTCTCCATA-A
1 AATTTTAATAACCTC-CC-TAGA
*
15432 AATTTTCATAACCTCCCTAGA
1 AATTTTAATAACCTCCCTAGA
*
15453 AATTTTGATAACCT
1 AATTTTAATAACCT
15467 TTTTTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 16 0.52
22 13 0.42
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.35
Consensus pattern (21 bp):
AATTTTAATAACCTCCCTAGA
Found at i:15550 original size:44 final size:44
Alignment explanation
Indices: 15478--15583 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
15468 TTTTTTTATC
* * * * * *
15478 AAATTTTGGTAACCTCTATATGAAATTTTCATAACTACACCATG
1 AAATTTTGATAACTTCCATATAAAATTTTCATAACCACACCACG
* * **
15522 AAGTTTTGATAACTTCCATATAAAATTTTGATAACCACATTACG
1 AAATTTTGATAACTTCCATATAAAATTTTCATAACCACACCACG
15566 AAATTTTGATAACCTTCC
1 AAATTTTGATAA-CTTCC
15584 TATGTAATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
44 45 0.90
45 5 0.10
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (44 bp):
AAATTTTGATAACTTCCATATAAAATTTTCATAACCACACCACG
Found at i:15892 original size:60 final size:60
Alignment explanation
Indices: 15826--15954 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 60
15816 TATATGCAAC
* *
15826 AATGCTCAATTTAGGG-CTCATACTTTTG-ATTTTATTAAATAAGGCCCTAA-GTTATGTGAA
1 AATGCTCAATTCAGGGTC-CATAC-TTTGAATTTGATTAAATAAGGCCCTAACG-TATGTGAA
* * * * *
15886 AGTGCTCAATTCAGGGTCCATGCTTTGAATTTGGTTAAATAGGGTCCTAACGTATGTGAA
1 AATGCTCAATTCAGGGTCCATACTTTGAATTTGATTAAATAAGGCCCTAACGTATGTGAA
15946 AATGCTCAA
1 AATGCTCAA
15955 ATAAGGATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 4 0.07
60 52 0.90
61 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (60 bp):
AATGCTCAATTCAGGGTCCATACTTTGAATTTGATTAAATAAGGCCCTAACGTATGTGAA
Found at i:16155 original size:61 final size:62
Alignment explanation
Indices: 16009--16172 Score: 165
Period size: 63 Copynumber: 2.6 Consensus size: 62
15999 GCCATGCCTT
* * * *
16009 TATTTGAGCATTTTCGCATATGTTAGGTTCCTATTTAACCAAATTAAAAGTACGGCCTCTAAA
1 TATTTGAGCATTTTCGCATACGTTAGG-ACCTATTGAACCAAATTAAAAGCACGGCCTCTAAA
* * * * *
16072 TATTTGAGTATTTTCTCATACGTTAGGACCCTATTGGAGCAAATTTAAAAGCATGGGCCT-T-AA
1 TATTTGAGCATTTTCGCATACGTTAGGA-CCTATTGAACCAAA-TTAAAAGCA-CGGCCTCTAAA
16135 -A-TTGAGCATTTTCGCATACGTTAGAGACCTATTTGAAC
1 TATTTGAGCATTTTCGCATACGTTAG-GACCTA-TTGAAC
16173 AATTAGCCTT
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
61 25 0.30
62 7 0.08
63 37 0.45
64 9 0.11
65 5 0.06
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (62 bp):
TATTTGAGCATTTTCGCATACGTTAGGACCTATTGAACCAAATTAAAAGCACGGCCTCTAAA
Found at i:18332 original size:8 final size:8
Alignment explanation
Indices: 18319--18348 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18309 TTTTATATAG
18319 TAGTAAGA
1 TAGTAAGA
18327 TAGTAAGA
1 TAGTAAGA
18335 TAGTAAGA
1 TAGTAAGA
*
18343 TTGTAA
1 TAGTAA
18349 AGGATAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (8 bp):
TAGTAAGA
Found at i:20342 original size:19 final size:18
Alignment explanation
Indices: 20318--20353 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20308 TGAAGACCTA
20318 TTGAAGATAATTTGAAGAT
1 TTGAAGATAA-TTGAAGAT
*
20337 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
20354 ATTATTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAT
Done.