Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000705.1 Hibiscus syriacus cultivar Beakdansim tig00001370_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: 60318
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:1334 original size:64 final size:64
Alignment explanation
Indices: 1141--1345 Score: 235
Period size: 64 Copynumber: 3.2 Consensus size: 64
1131 TGCACTAAGA
* *
1141 GTGCA-CGATGCATC-AATGCATTCGATGTTTCA-AATAGC-CAGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCA-AGTGCATCGATGCATGGTTG
**
1202 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCTCAAGTGCATCG-TGCATGGTAA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCTCAAGTGCATCGATGCATGGTTG
* * ** *
1266 GTGCATCGATGCATGAAATGCATTTGATG-TTCATTTAAT-TCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCA-AGTGCATCGATGCATGG-TT
1329 G
64 G
*
1330 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
1346 CTCTGAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
61 8 0.07
62 25 0.20
63 20 0.16
64 55 0.45
65 13 0.11
66 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAAGTGCATCGATGCATGGTTG
Found at i:1732 original size:19 final size:19
Alignment explanation
Indices: 1704--1752 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1694 ATGTAATTAG
* *
1704 TGTACTGATGCACCCCAAC
1 TGTACCGATGCACCCCAAA
1723 TGTACCGATGCACCCCAAA
1 TGTACCGATGCACCCCAAA
1742 TGTACCGATGC
1 TGTACCGATGC
1753 GCTAGGTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.35, G:0.18, T:0.20
Consensus pattern (19 bp):
TGTACCGATGCACCCCAAA
Found at i:2726 original size:63 final size:64
Alignment explanation
Indices: 2622--2783 Score: 152
Period size: 63 Copynumber: 2.6 Consensus size: 64
2612 TTTGTTCAAG
* * * ** *
2622 GTGTATCGATGTACATGAAGTGCATCGATGCACTAATTTAAAAAAAAACATCGAAT-GCCA-TCA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCACTTAAAAAAAAACATCGAATAG-CATTCA
* * * * * * *
2685 GTGTATCGATGCACAAGTAGTGCATCAATGCACCCCCTTAAATACAACCATCGAATAGGATTTA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCACTTAAAAAAAAACATCGAATAGCATTCA
*
2749 -TGTATCGATGCA-TAGATAGTGCATCGATGCACCCA
1 GTGTATCGATGCACAAG-TAGTGCATCGATGCACCCA
2784 TCACGGGATG
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
62 2 0.03
63 75 0.94
64 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACCCACTTAAAAAAAAACATCGAATAGCATTCA
Found at i:10264 original size:23 final size:23
Alignment explanation
Indices: 10238--10297 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
10228 AATCTTATAT
*
10238 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* * *
10261 GGCACTTCAGTGCAATTCTGCGT
1 GGCACTTCGGTGCAATTCTACGC
10284 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
10298 TTTATACGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:13951 original size:250 final size:253
Alignment explanation
Indices: 13501--14011 Score: 848
Period size: 250 Copynumber: 2.0 Consensus size: 253
13491 AATGGTTGTA
13501 AAGTAATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAATATATACATA
1 AAGTAATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAATATATACATA
*
13566 GTGCATTTAGATTCTATAAATATGACTAATTTATGCCTAGTTGCTAAGGATGAACATGATAGTTG
66 GTGAATTTAGATTC-----ATATGAC-AATTTATGCCTAGTTGCTAAGGATGAACATGATAGTTG
*
13631 GTTATGACATAGGAGACTATAACATACTAGCATGAGTGTTTTATAAAGACTAATTCAAGGAGATT
125 GTTATGACATAGGAGACTATAACATACTAGCATGAGTGTTTTACAAAGACTAATTCAAGGAGATT
* *
13696 TAGTAAGAAGATTGCCAAAGCTAAAATTTGATAATGATAAAATCTGTGATGCATGTGCTAAAGG
190 TAGTAAGAAGATTGCCAAAGATAAAATTTGATAATGATAAAATATGTGATGCATGTGCTAAAGG
* *
13760 AAGTAATTGACATTGTATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAATATATACATG
1 AAGTAATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAATATATACATA
13825 GTGAATTTAGATTC-TAT-A-AATTTATGCCTAGTTGCTAAGGATGAACATGATAGTTGGTTATG
66 GTGAATTTAGATTCATATGACAATTTATGCCTAGTTGCTAAGGATGAACATGATAGTTGGTTATG
* *
13887 GCATAGGAGACTATGACATACTAGCATGAGTGTTTTACAAAGACTAATTCAAGGAGATTTAGTAA
131 ACATAGGAGACTATAACATACTAGCATGAGTGTTTTACAAAGACTAATTCAAGGAGATTTAGTAA
* **
13952 GAATATTGTTAAAGATAAAATTTGATAATGATAAAATATGTGATGCATGTGCTAAAGG
196 GAAGATTGCCAAAGATAAAATTTGATAATGATAAAATATGTGATGCATGTGCTAAAGG
14010 AA
1 AA
14012 AACATAGAAG
Statistics
Matches: 241, Mismatches: 11, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
250 161 0.67
252 1 0.00
253 3 0.01
259 76 0.32
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (253 bp):
AAGTAATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAATATATACATA
GTGAATTTAGATTCATATGACAATTTATGCCTAGTTGCTAAGGATGAACATGATAGTTGGTTATG
ACATAGGAGACTATAACATACTAGCATGAGTGTTTTACAAAGACTAATTCAAGGAGATTTAGTAA
GAAGATTGCCAAAGATAAAATTTGATAATGATAAAATATGTGATGCATGTGCTAAAGG
Found at i:16886 original size:44 final size:44
Alignment explanation
Indices: 16823--16926 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 44
16813 TTTTGTGCAC
*
16823 TATGCATCGATACACTATGAAAGTGTACCAATGCATCCCTTGAA
1 TATGCATCGATACACTATGAAAGTGCACCAATGCATCCCTTGAA
* * ** *
16867 TATGCATTGATACACTATGAAGGTGCACTGATGCATGCCTTGAA
1 TATGCATCGATACACTATGAAAGTGCACCAATGCATCCCTTGAA
*
16911 TGTGCATCGATACACT
1 TATGCATCGATACACT
16927 CGTCGGGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
TATGCATCGATACACTATGAAAGTGCACCAATGCATCCCTTGAA
Found at i:17368 original size:14 final size:14
Alignment explanation
Indices: 17351--17394 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
17341 AAAACTCCAT
17351 ATTGATTTTCAAAC
1 ATTGATTTTCAAAC
17365 ATTG-TTTTCAAAC
1 ATTGATTTTCAAAC
*
17378 A-TAATTTTCAAAC
1 ATTGATTTTCAAAC
17391 ATTG
1 ATTG
17395 CCCATTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 20 0.77
14 5 0.19
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
ATTGATTTTCAAAC
Found at i:22366 original size:3 final size:3
Alignment explanation
Indices: 22358--22385 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22348 ATGAATCTTT
22358 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
22386 GTTATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:30392 original size:159 final size:158
Alignment explanation
Indices: 30128--31054 Score: 788
Period size: 159 Copynumber: 5.8 Consensus size: 158
30118 CTCCACCAGC
* * * * *
30128 CAGTGCCTGATTTTCGTTTCCCCCTCTTCCTTTTGTAATTAGGGACCTTGGACTT-GGC-TGAGG
1 CAGTGCCTGATTTT-GTTTCCCCATCTTCCTTTTGTTATTAGGGATCTTGGA-TTCGACATCA-G
* * * * * *
30191 AAGATA-CATCTGCGTCTGCTTGAGCAAAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAAC
63 AAGATAGCTTC-ACATCTGGTTGAACAGAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAAC
* * ** *
30255 AGTAGGCTTTTTGGTAGGCATTGGCGGCTCTT
127 AGTAGGCTTTTTAGTTGGCATCAGCGGCTCCT
** * ** *
30287 TGGTGCCCGACTTTTGTTTCCCCCGCTTCCTTTTGTTATTAGGGACCTTGGATTTCGACAT-AGA
1 CAGTGCCTGA-TTTTGTTTCCCCATCTTCCTTTTGTTATTAGGGATCTTGGA-TTCGACATCAGA
* * *
30351 AGATAGCTTCGCATCTGGTTGAACAGAAGGGTTTGCTGGGAGGTCATCTCCTGGAGC---AACAG
64 AGATAGCTTCACATCTGGTTGAACAGAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAACAG
* *
30413 TAGGCTTTTTAGTTGGCAACAGTGGCTCCT
129 TAGGCTTTTTAGTTGGCATCAGCGGCTCCT
* * * * *
30443 CAGTGCCTGATTTTCGTCTCCCCATCTTCCTTTTATTTTTAGGGATCTTGGACTTGGACAT-TGA
1 CAGTGCCTGATTTT-GTTTCCCCATCTTCCTTTTGTTATTAGGGATCTTGGA-TTCGACATCAGA
* * * * * * *
30507 AGGTACCTTCACATCCGGTTGAACAGAAGGGCTTGCAGGGAGGTCATCTCCTGGAGAAATAACAG
64 AGATAGCTTCACATCTGGTTGAACAGAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAACAG
** *
30572 TAGG-TTTTTCAGTCT-GCATCAATGGCTCAT
129 TAGGCTTTTT-AGT-TGGCATCAGCGGCTCCT
** * * **
30602 TTGTGCCTGATTTTTGTTTCCCCAAT-TTACTTTTGTTATTAGGGATCTTGGACTCTGATGTCA-
1 CAGTGCCTGA-TTTTGTTTCCCC-ATCTTCCTTTTGTTATTAGGGATCTTGGATTC-GACATCAG
* * * *
30665 AAGATAGCTTCACATCTGGCTGAACAGAAGGGTTGGCAAGGAGGTCATCTCCAGGAGCAAGAACC
63 AAGATAGCTTCACATCTGGTTGAACAGAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAACA
** * *
30730 GTAGGCTTTTCGGTTGGCATCGGCGGATCCT
128 GTAGGCTTTTTAGTTGGCATCAGCGGCTCCT
* * * ** * ** * * *
30761 CAGTGACTGATTCTCGTTTCTCCATAATCCTTCTGTTATTACTGATCTCGGACTCGGACGTCA-A
1 CAGTGCCTGATT-TTGTTTCCCCATCTTCCTTTTGTTATTAGGGATCTTGGATTC-GACATCAGA
* * * *
30825 AGATGGCTTCACATCTGGTTGAACAGAATGGTTGGCAAGGAGGTCATCTCCAGGAGCAAGAACAG
64 AGATAGCTTCACATCTGGTTGAACAGAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAACAG
* * *
30890 TAGGCTTTTCAGTTGGCATCGGCGGATCCT
129 TAGGCTTTTTAGTTGGCATCAGCGGCTCCT
* * * * ** *
30920 CAGTGCCTGATTCTCGTTTCTCCATATTCCTTCTGTTATTACTGATCTCT-GACTCAGA-AGTCA
1 CAGTGCCTGATT-TTGTTTCCCCATCTTCCTTTTGTTATTAGGGATCT-TGGATTC-GACA-TCA
* * * * **
30983 -AAGATAGCTTCACATCTGCTTGAACAGAAGGGTTGGCAAGCAGGTCATCTCCAGGAGCAAGGCC
62 GAAGATAGCTTCACATCTGGTTGAACAGAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAAC
31047 AGTAGGCT
127 AGTAGGCT
31055 CCTCTGCCGG
Statistics
Matches: 647, Mismatches: 101, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
155 4 0.01
156 125 0.19
158 11 0.02
159 485 0.75
160 21 0.03
161 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (158 bp):
CAGTGCCTGATTTTGTTTCCCCATCTTCCTTTTGTTATTAGGGATCTTGGATTCGACATCAGAAG
ATAGCTTCACATCTGGTTGAACAGAAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAACAGTA
GGCTTTTTAGTTGGCATCAGCGGCTCCT
Found at i:30928 original size:318 final size:316
Alignment explanation
Indices: 30218--31054 Score: 873
Period size: 318 Copynumber: 2.6 Consensus size: 316
30208 GCTTGAGCAA
** * *
30218 AAGGGTTTGCAGGGAGGTCATCTCCAGGAGCAAGAACAGTAGGCTTTTTGGTAGGCATTGGCGGC
1 AAGGG-TTGCAGGGAGGTCATCTCCAGGAGCAAGAACAGTAGGCTTTTCAGTTGGCATCGGCGGC
* * * * ** * *
30283 TCTTTGGTGCCCGACTTTTGTTTCCCCCGCTTCCTTTTGTTATTAGGGACCTTGGA-TTTCGACA
65 TCATTAGTGCCTGATTTTTGTTT-CCCCATTTCCTTTTGTTATTAGGGATCTTGGACTCT-GA-A
* * * ** *
30347 -T-AGAAGATAGCTTCGCATCTGGTTGAACAGAAGGGTTTGCTGGGAGGTCATCTCCTGGAGC--
127 GTCA-AAGATAGCTTCACATCTGGCTGAACAGAAGGGTTGGCAAGGAGGTCATCTCCAGGAGCAA
* * * * * **
30408 -AACAGTAGGCTTTTTAGTTGGCAACAGTGGCTCCTCAGTGCCTGATTTTCGTCTCCCCATCTTC
191 GAACAGTAGGCTTTTCAGTTGGCAACAGCGGATCCTCAGTGACTGATTCTCGTCTCCCCATAATC
* * * * * ** *
30472 CTTTTATTTTTAGGGATCTTGGACTTGGACATTGAAGGTACCTTCACATCCGGTTGAACAG
256 CTTCTATTATTACGGATCTCGGACTCGGACATCAAAGATACCTTCACATCCGGTTGAACAG
* * * * ***
30533 AAGGGCTTGCAGGGAGGTCATCTCCTGGAGAAATAACAGTAGGTTTTTCAGTCT-GCATCAATGG
1 AAGGG-TTGCAGGGAGGTCATCTCCAGGAGCAAGAACAGTAGGCTTTTCAGT-TGGCATCGGCGG
* * *
30597 CTCATTTGTGCCTGATTTTTGTTTCCCCAATTTACTTTTGTTATTAGGGATCTTGGACTCTGATG
64 CTCATTAGTGCCTGATTTTTGTTTCCCC-ATTTCCTTTTGTTATTAGGGATCTTGGACTCTGAAG
30662 TCAAAGATAGCTTCACATCTGGCTGAACAGAAGGGTTGGCAAGGAGGTCATCTCCAGGAGCAAGA
128 TCAAAGATAGCTTCACATCTGGCTGAACAGAAGGGTTGGCAAGGAGGTCATCTCCAGGAGCAAGA
* * * * * *
30727 ACCGTAGGCTTTTCGGTTGGCATCGGCGGATCCTCAGTGACTGATTCTCGTTTCTCCATAATCCT
193 ACAGTAGGCTTTTCAGTTGGCAACAGCGGATCCTCAGTGACTGATTCTCGTCTCCCCATAATCCT
* * * ** *
30792 TCTGTTATTACTGATCTCGGACTCGGACGTCAAAGATGGCTTCACATCTGGTTGAACAG
258 TCTATTATTACGGATCTCGGACTCGGACATCAAAGATACCTTCACATCCGGTTGAACAG
* * *
30851 AATGGTTGGCAAGGAGGTCATCTCCAGGAGCAAGAACAGTAGGCTTTTCAGTTGGCATCGGCGGA
1 AAGGGTT-GCAGGGAGGTCATCTCCAGGAGCAAGAACAGTAGGCTTTTCAGTTGGCATCGGCGGC
* * * * * * ** *
30916 TCCTCAGTGCCTGATTCTCGTTTCTCCATATTCCTTCTGTTATTACTGATCTCT-GACTCAGAAG
65 TCATTAGTGCCTGATTTTTGTTTCCCCAT-TTCCTTTTGTTATTAGGGATCT-TGGACTCTGAAG
*
30980 TCAAAGATAGCTTCACATCT-GCTTGAACAGAAGGGTTGGCAAGCAGGTCATCTCCAGGAGCAAG
128 TCAAAGATAGCTTCACATCTGGC-TGAACAGAAGGGTTGGCAAGGAGGTCATCTCCAGGAGCAAG
**
31044 GCCAGTAGGCT
192 AACAGTAGGCT
31055 CCTCTGCCGG
Statistics
Matches: 428, Mismatches: 81, Indels: 23
0.80 0.15 0.04
Matches are distributed among these distances:
314 4 0.01
315 150 0.35
316 3 0.01
317 7 0.02
318 263 0.61
319 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (316 bp):
AAGGGTTGCAGGGAGGTCATCTCCAGGAGCAAGAACAGTAGGCTTTTCAGTTGGCATCGGCGGCT
CATTAGTGCCTGATTTTTGTTTCCCCATTTCCTTTTGTTATTAGGGATCTTGGACTCTGAAGTCA
AAGATAGCTTCACATCTGGCTGAACAGAAGGGTTGGCAAGGAGGTCATCTCCAGGAGCAAGAACA
GTAGGCTTTTCAGTTGGCAACAGCGGATCCTCAGTGACTGATTCTCGTCTCCCCATAATCCTTCT
ATTATTACGGATCTCGGACTCGGACATCAAAGATACCTTCACATCCGGTTGAACAG
Found at i:40086 original size:5 final size:5
Alignment explanation
Indices: 40076--40101 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
40066 AAATTCTAGA
40076 AAAGG AAAGG AAAGG AAAGG AAAGG A
1 AAAGG AAAGG AAAGG AAAGG AAAGG A
40102 GAAATTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:45184 original size:13 final size:14
Alignment explanation
Indices: 45166--45195 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
45156 AGTTGGACAA
45166 TCTTCATATGCA-G
1 TCTTCATATGCACG
45179 TCTTCATATGCACG
1 TCTTCATATGCACG
45193 TCT
1 TCT
45196 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (14 bp):
TCTTCATATGCACG
Found at i:47148 original size:15 final size:15
Alignment explanation
Indices: 47128--47157 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47118 TCCTGGTTGG
47128 GCCACTCCACATTGC
1 GCCACTCCACATTGC
47143 GCCACTCCACATTGC
1 GCCACTCCACATTGC
47158 CTTGGATCTC
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:0.20, C:0.47, G:0.13, T:0.20
Consensus pattern (15 bp):
GCCACTCCACATTGC
Found at i:54245 original size:19 final size:19
Alignment explanation
Indices: 54205--54266 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
54195 TTTAAGTTTA
*
54205 TAAA-TTTAAA-ATTAATT
1 TAAATTTTAAATATGAATT
*
54222 AAAATTTTAAATATGAATT
1 TAAATTTTAAATATGAATT
54241 TAAATTTTAAATATGAATT
1 TAAATTTTAAATATGAATT
54260 TAAATTT
1 TAAATTT
54267 ACTCAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 3 0.08
18 6 0.15
19 31 0.77
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAATTTTAAATATGAATT
Found at i:56801 original size:11 final size:10
Alignment explanation
Indices: 56767--56800 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
56757 TATTATTACT
56767 AAAATATATA
1 AAAATATATA
56777 AAAA-ATATA
1 AAAATATATA
*
56786 AAATTATATA
1 AAAATATATA
56796 AAAAT
1 AAAAT
56801 TTAATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATATATA
Done.