Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005030.1 Hibiscus syriacus cultivar Beakdansim tig00011286_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: 93671
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Found at i:2386 original size:19 final size:19
Alignment explanation
Indices: 2359--2409 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
2349 ATGCATTTTG
2359 TGTAACGATGCACAAACCA
1 TGTAACGATGCACAAACCA
*
2378 TGTACCGATGCACAAACCA
1 TGTAACGATGCACAAACCA
* *
2397 TGCATCGATGCAC
1 TGTAACGATGCAC
2410 TCCAGGCTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (19 bp):
TGTAACGATGCACAAACCA
Found at i:3480 original size:25 final size:25
Alignment explanation
Indices: 3438--3526 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
3428 TCTCATGGAT
*
3438 ATAGTATTGCACTAGAAAGTTCCTC
1 ATAGTATTGCACTAGAAAGTGCCTC
* *
3463 ATAGTATTGTACTCGAAAGTGCCTC
1 ATAGTATTGCACTAGAAAGTGCCTC
* * * *
3488 ATAGGATTTGCGCTCGTAAG-GCCTC
1 ATAGTA-TTGCACTAGAAAGTGCCTC
*
3513 ATAGGATTTGCACT
1 ATAGTA-TTGCACT
3527 CATAAGTTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 45 0.82
26 10 0.18
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (25 bp):
ATAGTATTGCACTAGAAAGTGCCTC
Found at i:3532 original size:25 final size:25
Alignment explanation
Indices: 3483--3532 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
3473 ACTCGAAAGT
* *
3483 GCCTCATAGGATTTGCGCTCGTAAG
1 GCCTCATAGGATTTGCACTCATAAG
3508 GCCTCATAGGATTTGCACTCATAAG
1 GCCTCATAGGATTTGCACTCATAAG
3533 TTCCTCGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
GCCTCATAGGATTTGCACTCATAAG
Found at i:9592 original size:15 final size:17
Alignment explanation
Indices: 9562--9593 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9552 AATTTAGGGA
9562 CCAAAATAGTAATTTTT
1 CCAAAATAGTAATTTTT
9579 CCAAAA-AG-AATTTTT
1 CCAAAATAGTAATTTTT
9594 ATTCGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (17 bp):
CCAAAATAGTAATTTTT
Found at i:10981 original size:19 final size:19
Alignment explanation
Indices: 10944--10981 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10934 TTTACTATAG
*
10944 ATAGTATTAAATATAATTA
1 ATAGTATTAAATAAAATTA
10963 ATAGTA-TAAATAAATATTA
1 ATAGTATTAAATAAA-ATTA
10982 TGATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATAGTATTAAATAAAATTA
Found at i:16421 original size:29 final size:30
Alignment explanation
Indices: 16389--16449 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
16379 AAAATTTTAG
* *
16389 TTAGTGACTAAAATATAAATTTTG-AAAGT
1 TTAGGGACTAAAATATAAAGTTTGTAAAGT
* *
16418 TTAGGGGCTAAAGTATAAAGTTTGTAAAGT
1 TTAGGGACTAAAATATAAAGTTTGTAAAGT
16448 TT
1 TT
16450 GTAAACTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (30 bp):
TTAGGGACTAAAATATAAAGTTTGTAAAGT
Found at i:19126 original size:22 final size:22
Alignment explanation
Indices: 19098--19161 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
19088 TCACATTAGC
* * *
19098 ACTAAAGGATACATAGTTCAGT
1 ACTAAAGGATACCTAGTGCAGA
19120 ACTAAAGGATACCTAGTGCAGA
1 ACTAAAGGATACCTAGTGCAGA
*
19142 ACTAAAGGTTACCTAGTGCA
1 ACTAAAGGATACCTAGTGCA
19162 TATAGTGGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (22 bp):
ACTAAAGGATACCTAGTGCAGA
Found at i:22547 original size:20 final size:20
Alignment explanation
Indices: 22524--22574 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
22514 TTTTTTAATC
22524 AGTGGAATGTT-TTGTGGATT
1 AGTGGAAT-TTGTTGTGGATT
22544 AGTGGAATTTGTTGTGGATT
1 AGTGGAATTTGTTGTGGATT
22564 AGTGGAATTTG
1 AGTGGAATTTG
22575 GTGAAATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (20 bp):
AGTGGAATTTGTTGTGGATT
Found at i:38290 original size:17 final size:17
Alignment explanation
Indices: 38239--38291 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
38229 TGAATGAAGT
38239 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* * *
38256 AAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
38273 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
38290 TA
1 TA
38292 AATATTACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:41345 original size:17 final size:17
Alignment explanation
Indices: 41325--41425 Score: 62
Period size: 17 Copynumber: 5.9 Consensus size: 17
41315 ACTAAGAAGC
41325 TCATTCATCAAACTAGT
1 TCATTCATCAAACTAGT
** * *
41342 TCATTCAAGATTACAAGT
1 TCATTCATCA-AACTAGT
* *
41360 TCATTGAAT-AAAGTTAGT
1 TCATT-CATCAAA-CTAGT
* * *
41378 TCATTAATTAAACTTGT
1 TCATTCATCAAACTAGT
41395 TCATTCATCAAA-TAGT
1 TCATTCATCAAACTAGT
* *
41411 TCATTTATTAAACTA
1 TCATTCATCAAACTA
41426 AATCTTAATT
Statistics
Matches: 63, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
16 13 0.21
17 27 0.43
18 22 0.35
19 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (17 bp):
TCATTCATCAAACTAGT
Found at i:41378 original size:18 final size:18
Alignment explanation
Indices: 41357--41424 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
41347 CAAGATTACA
*
41357 AGTTCATTGAA-TAAAGTT
1 AGTTCATT-AATTAAACTT
41375 AGTTCATTAATTAAACTT
1 AGTTCATTAATTAAACTT
* *
41393 -GTTCATTCATCAAA--T
1 AGTTCATTAATTAAACTT
*
41408 AGTTCATTTATTAAACT
1 AGTTCATTAATTAAACT
41425 AAATCTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.02
16 12 0.29
17 14 0.34
18 14 0.34
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.43
Consensus pattern (18 bp):
AGTTCATTAATTAAACTT
Found at i:56574 original size:18 final size:18
Alignment explanation
Indices: 56551--56596 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
56541 TGGAAAAATG
56551 GTATCAATACTGAAGAGA
1 GTATCAATACTGAAGAGA
* *
56569 GTATCAATATTGAAGGGA
1 GTATCAATACTGAAGAGA
*
56587 GTATCGATAC
1 GTATCAATAC
56597 CATAGTAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (18 bp):
GTATCAATACTGAAGAGA
Found at i:57978 original size:20 final size:20
Alignment explanation
Indices: 57936--57978 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
57926 GAATGTTTTA
* **
57936 TTATTATTATATAAAAATGT
1 TTATTATTATAAAAAAAAAT
*
57956 TTATTTTTATAAAAAAAAAT
1 TTATTATTATAAAAAAAAAT
57976 TTA
1 TTA
57979 AGGGTTTACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTATTATTATAAAAAAAAAT
Found at i:58386 original size:20 final size:20
Alignment explanation
Indices: 58361--58403 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
58351 CTAGTGCACC
*
58361 TGCACATCAGGGTATGCCCA
1 TGCACATCAGAGTATGCCCA
*
58381 TGCACATCTGAGTATGCCCA
1 TGCACATCAGAGTATGCCCA
58401 TGC
1 TGC
58404 CTAGTTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (20 bp):
TGCACATCAGAGTATGCCCA
Found at i:63581 original size:20 final size:20
Alignment explanation
Indices: 63555--63605 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
63545 ATGGGTAAGG
63555 GTATCGATACTGGAAGAATA
1 GTATCGATACTGGAAGAATA
*
63575 TTATCGATACTGGAAGAATA
1 GTATCGATACTGGAAGAATA
*
63595 GTACCGATACT
1 GTATCGATACT
63606 ATAGGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (20 bp):
GTATCGATACTGGAAGAATA
Found at i:66080 original size:20 final size:20
Alignment explanation
Indices: 66043--66081 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
66033 CTGGTCAATG
*
66043 GTTCAGGCCAGGTTAACCCA
1 GTTCAGGCCAGGTCAACCCA
* *
66063 GTTCAGGTCGGGTCAACCC
1 GTTCAGGCCAGGTCAACCC
66082 GGTTTGGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (20 bp):
GTTCAGGCCAGGTCAACCCA
Found at i:69968 original size:22 final size:22
Alignment explanation
Indices: 69943--69998 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
69933 TTCAGTCAAA
69943 GTCAAAGTTAACGGTCAGACCG
1 GTCAAAGTTAACGGTCAGACCG
* * * *
69965 GTCAATGTCAATGGTCTGACCG
1 GTCAAAGTTAACGGTCAGACCG
*
69987 ATCAAAGTTAAC
1 GTCAAAGTTAAC
69999 AGTTCGAGTC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (22 bp):
GTCAAAGTTAACGGTCAGACCG
Found at i:71945 original size:22 final size:21
Alignment explanation
Indices: 71914--71955 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
71904 TAAAATATAT
*
71914 TTTTAGTTATAATAACGAAATA
1 TTTTAATTATAATAAC-AAATA
*
71936 TTTTAATTATCATAACAAAT
1 TTTTAATTATAATAACAAAT
71956 GCTATTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTTAATTATAATAACAAATA
Found at i:72501 original size:199 final size:194
Alignment explanation
Indices: 71958--72519 Score: 604
Period size: 199 Copynumber: 2.9 Consensus size: 194
71948 TAACAAATGC
* * *
71958 TATTTTGTAAC-ATAATAAATTATGACAAATTTATTTAGTCCCAATAAC--A-TAAATTTAGTCA
1 TATTTT-TAACAATAATAAATTGTAACAAATTTATTTAGTCACAATAACATATTAAATTTAGTCA
* * *
72019 AAATAAAAA-TATTGTTAAATTTATTTAGTCACAATATTT-TTGAAAATAACATATTATGATAAA
65 AAATAAAAATTA-TGTCAAATTTATTTAGTCACAATATTTCTT-AAAACAAAAT-TTATGATAAA
* *** * *
72082 TTTGTTTAATTATAATAATAA-TTAT-CTTAAATGTTAATTTCTCAATATAAAAATTTGTGACAA
127 TTTGTTTAATTATAA-AAAAATTTATAAAAAAATATTAATTTCTCAATATAAAAATTTATGACAA
72145 AACA
191 AACA
* * * *
72149 TATTTTTCAAAAATAATAAATCGTAAAAAATTTATTTAATCACAATAACATATTAAATTTAGTCA
1 TATTTTT-AACAATAATAAATTGTAACAAATTTATTTAGTCACAATAACATATTAAATTTAGTCA
* * * * *
72214 AAATAAAAATATTATGTCAAATTTATTTAGTCATAATAGTTTCTCAAAATGACAATTTATAATAA
65 AAAT-AAAA-ATTATGTCAAATTTATTTAGTCACAATA-TTTCTTAAAA-CAAAATTTATGATAA
* * *
72279 ATTTGTTTAATCACAATAAAATTTATAAAAAAATATTAATTGT-TCAATATAAAAATTTATGACA
126 ATTTGTTTAATTATAAAAAAATTTATAAAAAAATATTAATT-TCTCAATATAAAAATTTATGACA
72343 AATA-A
190 AA-ACA
* *
72348 TACTTTTTAACAATAATAAATTGTAACAAATTTATTTAGTCACAATAACATATTAAATTTAATAA
1 TA-TTTTTAACAATAATAAATTGTAACAAATTTATTTAGTCACAATAACATATTAAATTTAGT-C
** * *
72413 AAAATAAGAAATTACATCAAATTTATTTAGTCACAATATTTACTTAAAACAAAATTTTTGACAAA
64 AAAATAA-AAATTATGTCAAATTTATTTAGTCACAATATTT-CTTAAAACAAAATTTATGATAAA
* * *
72478 TTTCTTTAGTTATAACAAAAATTTATAACAAAATATTAATTT
127 TTTGTTTAATTATAA-AAAAATTTATAAAAAAATATTAATTT
72520 ATTTTTTTCT
Statistics
Matches: 307, Mismatches: 44, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
190 1 0.00
191 8 0.03
192 31 0.10
194 1 0.00
195 16 0.05
196 4 0.01
197 26 0.08
198 61 0.20
199 145 0.47
200 14 0.05
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (194 bp):
TATTTTTAACAATAATAAATTGTAACAAATTTATTTAGTCACAATAACATATTAAATTTAGTCAA
AATAAAAATTATGTCAAATTTATTTAGTCACAATATTTCTTAAAACAAAATTTATGATAAATTTG
TTTAATTATAAAAAAATTTATAAAAAAATATTAATTTCTCAATATAAAAATTTATGACAAAACA
Found at i:74099 original size:23 final size:23
Alignment explanation
Indices: 74073--74130 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
74063 TAAGTTACCA
74073 AAAGGCAGAGAAAAATGTGCCAC
1 AAAGGCAGAGAAAAATGTGCCAC
* * *
74096 AAAGGTAGAGATAAATGTGCCAT
1 AAAGGCAGAGAAAAATGTGCCAC
*
74119 TAAGGCAGAGAA
1 AAAGGCAGAGAA
74131 CATGTCACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.47, C:0.12, G:0.28, T:0.14
Consensus pattern (23 bp):
AAAGGCAGAGAAAAATGTGCCAC
Found at i:75942 original size:28 final size:26
Alignment explanation
Indices: 75891--75942 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
75881 TTTTATGAAA
**
75891 ATATATATAATTTTAATTTTTTTAAT
1 ATATATATAATTTTAAAATTTTTAAT
75917 ATATATATATATATTTAAAATTTTTA
1 ATATATATA-AT-TTTAAAATTTTTA
75943 TAAAGGTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 2 0.09
28 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATATATATAATTTTAAAATTTTTAAT
Found at i:85256 original size:69 final size:67
Alignment explanation
Indices: 85111--85317 Score: 206
Period size: 69 Copynumber: 3.1 Consensus size: 67
85101 ATTAACAGTG
* *
85111 ACTCCGATAATAAAAATACAAT-CCTAACCCCCTGATACTCCAATAACAACGACCCCATTAATAG
1 ACTCCGATAATAAAAATACAATCCCTAACCCCCTGATACTCCAATAACAACGACCCCAATAATAA
85175 CA
66 CA
* **
85177 ACTCCAATAATAAAAATACAATACCCTAACCCCCTGGATACTCCAATAACAGTG-CCTCCAATAA
1 ACTCCGATAATAAAAATACAAT-CCCTAACCCCCT-GATACTCCAATAACAACGACC-CCAATAA
**
85241 TAATG
63 TAACA
* * * * * * *
85246 ATTCTGATAATAAAATATA-AACCCCTAATCCCC-GATACTCCATTAACAACGACTCCAAAAAAT
1 ACTCCGATAATAAAA-ATACAATCCCTAACCCCCTGATACTCCAATAACAACGAC-CCCAATAAT
*
85309 AAAA
64 AACA
85313 ACTCC
1 ACTCC
85318 AATCCCCAAC
Statistics
Matches: 113, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
66 36 0.32
67 12 0.11
68 24 0.21
69 38 0.34
70 3 0.03
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.21
Consensus pattern (67 bp):
ACTCCGATAATAAAAATACAATCCCTAACCCCCTGATACTCCAATAACAACGACCCCAATAATAA
CA
Found at i:85302 original size:66 final size:66
Alignment explanation
Indices: 85111--85317 Score: 202
Period size: 66 Copynumber: 3.1 Consensus size: 66
85101 ATTAACAGTG
* * * *
85111 ACTCCGATAATAAAAATACAATCCTAACCCCCTGATACTCCAATAACAACGACCCCATTAATAGC
1 ACTCCGATAATAAAAATACAACCCTAACCCCCTGATACTCCAATAACAACGACTCCAATAATAAC
85176 A
66 A
* ** *
85177 ACTCCAATAATAAAAATACAATACCCTAACCCCCTGGATACTCCAATAACAGTGCCTCCAATAAT
1 ACTCCGATAATAAAAATAC-A-ACCCTAACCCCCT-GATACTCCAATAACAACGACTCCAATAAT
**
85242 AATG
63 AACA
* * * * *
85246 ATTCTGATAATAAAATATA-AACCCCTAATCCCC-GATACTCCATTAACAACGACTCCAAAAAAT
1 ACTCCGATAATAAAA-ATACAA-CCCTAACCCCCTGATACTCCAATAACAACGACTCC-AATAAT
*
85309 AAAA
63 AACA
85313 ACTCC
1 ACTCC
85318 AATCCCCAAC
Statistics
Matches: 112, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
66 37 0.33
67 12 0.11
68 23 0.21
69 37 0.33
70 3 0.03
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.21
Consensus pattern (66 bp):
ACTCCGATAATAAAAATACAACCCTAACCCCCTGATACTCCAATAACAACGACTCCAATAATAAC
A
Found at i:87638 original size:24 final size:24
Alignment explanation
Indices: 87611--87656 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
87601 ATTTTTTATT
87611 TTATTTATTTTTATTTA-TTTTACA
1 TTATTTA-TTTTATTTAGTTTTACA
87635 TTATTTATTTTATTTAGTTTTA
1 TTATTTATTTTATTTAGTTTTA
87657 ATTTCTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (24 bp):
TTATTTATTTTATTTAGTTTTACA
Found at i:87655 original size:10 final size:9
Alignment explanation
Indices: 87596--87656 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
87586 GACTAGTTTC
87596 TATTTA-TT
1 TATTTATTT
87604 T-TTTATTT
1 TATTTATTT
87612 TATTTATTTT
1 TATTTA-TTT
87622 TATTTATTT
1 TATTTATTT
*
87631 TA--CA--T
1 TATTTATTT
87636 TATTTATTT
1 TATTTATTT
87645 TATTTAGTTT
1 TATTTA-TTT
87655 TA
1 TA
87657 ATTTCTTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
5 3 0.07
7 6 0.14
8 4 0.09
9 16 0.37
10 14 0.33
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TATTTATTT
Done.