Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006450.1 Hibiscus syriacus cultivar Beakdansim tig00015626_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: 65844
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Found at i:2526 original size:28 final size:28
Alignment explanation
Indices: 2486--2544 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
2476 TTCACCTAAC
2486 TAAATTGATGTAAGCAA-GACATCAAAAT
1 TAAATTGATGTAAGCAATGACATC-AAAT
*
2514 TAAATTGATGTAAGCAATGCCATCAAAT
1 TAAATTGATGTAAGCAATGACATCAAAT
2542 TAA
1 TAA
2545 TTTAGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (28 bp):
TAAATTGATGTAAGCAATGACATCAAAT
Found at i:7193 original size:29 final size:28
Alignment explanation
Indices: 7151--7210 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 28
7141 TTCACCTAAC
7151 TAAATTGATGTAAGCAATGACATCAAAAT
1 TAAATTGATGTAAGCAATGACATC-AAAT
7180 TAAATTGATGTAAGCAATGACATCAAAT
1 TAAATTGATGTAAGCAATGACATCAAAT
7208 TAA
1 TAA
7211 TTTAGGTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (28 bp):
TAAATTGATGTAAGCAATGACATCAAAT
Found at i:8292 original size:42 final size:42
Alignment explanation
Indices: 8245--8327 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
8235 TCTAAATTCG
*
8245 CAACGCGAAAATCGAAATTCGCAACGCGATAGTCCAAAATCA
1 CAACGCGAAAATCGAAATTCGCAACGCGATACTCCAAAATCA
* *
8287 CAACGCGATAGTCGAAATTCGCAACGCGATACTCCAAAATC
1 CAACGCGAAAATCGAAATTCGCAACGCGATACTCCAAAATC
8328 GTAATGCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.16
Consensus pattern (42 bp):
CAACGCGAAAATCGAAATTCGCAACGCGATACTCCAAAATCA
Found at i:8316 original size:21 final size:21
Alignment explanation
Indices: 8198--8317 Score: 122
Period size: 21 Copynumber: 5.8 Consensus size: 21
8188 AATAACCAAC
*
8198 AAATTCGCAACGCGA-ATTC-
1 AAATTCGCAACGCGATAGTCG
* *
8217 AAATTTCGCAAC-CGA-GGTTCT
1 AAA-TTCGCAACGCGATAG-TCG
* *
8238 AAATTCGCAACGCGAAAATCG
1 AAATTCGCAACGCGATAGTCG
*
8259 AAATTCGCAACGCGATAGTCC
1 AAATTCGCAACGCGATAGTCG
* *
8280 AAAATCACAACGCGATAGTCG
1 AAATTCGCAACGCGATAGTCG
8301 AAATTCGCAACGCGATA
1 AAATTCGCAACGCGATA
8318 CTCCAAAATC
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
19 6 0.07
20 18 0.22
21 59 0.71
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (21 bp):
AAATTCGCAACGCGATAGTCG
Found at i:9008 original size:7 final size:7
Alignment explanation
Indices: 8998--9025 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8988 TCCAACTTCC
8998 AAATGTT
1 AAATGTT
9005 AAATGTT
1 AAATGTT
9012 AAATGTT
1 AAATGTT
9019 AAATGTT
1 AAATGTT
9026 TCAACTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
AAATGTT
Found at i:9314 original size:21 final size:21
Alignment explanation
Indices: 9288--9342 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
9278 AACAAATGCA
9288 TTGCGATTTTGGAGTATCGCG
1 TTGCGATTTTGGAGTATCGCG
9309 TTGCGATTTTGGAGTATCGCG
1 TTGCGATTTTGGAGTATCGCG
*
9330 TTGCGAATTTGGA
1 TTGCGATTTTGGA
9343 ACCTGGGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.13, G:0.33, T:0.38
Consensus pattern (21 bp):
TTGCGATTTTGGAGTATCGCG
Found at i:9372 original size:20 final size:20
Alignment explanation
Indices: 9288--9380 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 20
9278 AACAAATGCA
* *
9288 TTGCGATTTTGGAGTATCGCG
1 TTGCGAATTT-GAGAATCGCG
* *
9309 TTGCGATTTTGGAGTATCGCG
1 TTGCGAATTT-GAGAATCGCG
* *
9330 TTGCGAATTTG-GAACCTGGG
1 TTGCGAATTTGAGAATC-GCG
9350 TTGCGAAATTTGAG-ATCGCG
1 TTGCG-AATTTGAGAATCGCG
9370 TTGCGAATTTG
1 TTGCGAATTTG
9381 TTGGTCATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 9 0.14
20 15 0.24
21 38 0.60
22 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.35
Consensus pattern (20 bp):
TTGCGAATTTGAGAATCGCG
Found at i:10673 original size:140 final size:140
Alignment explanation
Indices: 10525--11052 Score: 656
Period size: 140 Copynumber: 3.8 Consensus size: 140
10515 TAAATATATT
*
10525 GGCTCTAATTATTAATTCTAATTGATTTTAATCAATTATTGAAAT-GAATAATCGAAATGGAACC
1 GGCTCTAATTATTAATCCTAATTGATTTTAATCAATTATTG-AATCGAATAATCGAAATGGAACC
* * *
10589 TCATGCATTAAGGTGAGGACCAAATAAAAAATTCACCTAAATTAAAGGACTAAAAGTTAAATTAT
65 TCAGGCATTAAGGTGAGGACCAAATAAAAAATTCACCTAAATTAAAGGACTAAAAGTGAAATTAA
*
10654 CCTAAATTGGA
130 CCTAAAGTGGA
*
10665 GGCTCTAATTATTAATCCTAATTGATTTTAATCAATTATTGAATCAAATAAAT-GAAATGGAACC
1 GGCTCTAATTATTAATCCTAATTGATTTTAATCAATTATTGAATCGAAT-AATCGAAATGGAACC
* * ** * *
10729 TCGGGCATTAAGGTGAGCACCAAATTGAAAATTTACCTAAATTAAAGGACTAAAAGTGAACTTAA
65 TCAGGCATTAAGGTGAGGACCAAATAAAAAATTCACCTAAATTAAAGGACTAAAAGTGAAATTAA
10794 CCTAAAGTGGA
130 CCTAAAGTGGA
* * * * *
10805 GGCAT-TGATTATTAGTCCTAATTGATTTTAATCAATTATTGAGTCGATTAATCGAAATAGAACC
1 GGC-TCTAATTATTAATCCTAATTGATTTTAATCAATTATTGAATCGAATAATCGAAATGGAACC
* * ** **
10869 TCAGGCATTAA-ATCGAGGACCAAATAAAAAAATT-GCCTAAATTAAATAACTAAAAAAGAAATT
65 TCAGGCATTAAGGT-GAGGACCAAAT-AAAAAATTCACCTAAATTAAAGGACTAAAAGTGAAATT
10932 AACCTAAAGTGGA
128 AACCTAAAGTGGA
* * * *
10945 GGCTCTAAATATTAATCATAATTGATTTTAA-AAATTATTGAATCGAATAATTGAAATGGAACCT
1 GGCTCTAATTATTAATCCTAATTGATTTTAATCAATTATTGAATCGAATAATCGAAATGGAACCT
* * ** * *
11009 -TGGACATTAAGGTGATGACCAAATCGAATATTCTCCTAAATTAA
66 CAGG-CATTAAGGTGAGGACCAAATAAAAAATTCACCTAAATTAA
11053 GAGTTCGGGG
Statistics
Matches: 333, Mismatches: 45, Indels: 21
0.83 0.11 0.05
Matches are distributed among these distances:
138 7 0.02
139 62 0.19
140 254 0.76
141 10 0.03
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (140 bp):
GGCTCTAATTATTAATCCTAATTGATTTTAATCAATTATTGAATCGAATAATCGAAATGGAACCT
CAGGCATTAAGGTGAGGACCAAATAAAAAATTCACCTAAATTAAAGGACTAAAAGTGAAATTAAC
CTAAAGTGGA
Found at i:15336 original size:14 final size:14
Alignment explanation
Indices: 15317--15346 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15307 TCCTTGCAAG
15317 GTAGGAACTCTGTT
1 GTAGGAACTCTGTT
15331 GTAGGAACTCTGTT
1 GTAGGAACTCTGTT
15345 GT
1 GT
15347 TTGTTGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (14 bp):
GTAGGAACTCTGTT
Found at i:23687 original size:12 final size:12
Alignment explanation
Indices: 23670--23736 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
23660 GTGTGTTTAG
23670 TGGACTGATTGA
1 TGGACTGATTGA
*
23682 TGGACT-ATTTA
1 TGGACTGATTGA
23693 GTGGACTGATTGA
1 -TGGACTGATTGA
*
23706 TGGACTG-TTTA
1 TGGACTGATTGA
* *
23717 GTGGACTTATTGG
1 -TGGACTGATTGA
23730 TGGACTG
1 TGGACTG
23737 TTCACTGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
11 7 0.16
12 31 0.70
13 6 0.14
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.37
Consensus pattern (12 bp):
TGGACTGATTGA
Found at i:23736 original size:24 final size:24
Alignment explanation
Indices: 23663--23738 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
23653 GTGTTTGGTG
23663 TGTTTAGTGGACTGATTGATGGAC
1 TGTTTAGTGGACTGATTGATGGAC
*
23687 TATTTAGTGGACTGATTGATGGAC
1 TGTTTAGTGGACTGATTGATGGAC
* *
23711 TGTTTAGTGGACTTATTGGTGGAC
1 TGTTTAGTGGACTGATTGATGGAC
23735 TGTT
1 TGTT
23739 CACTGAGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.41
Consensus pattern (24 bp):
TGTTTAGTGGACTGATTGATGGAC
Found at i:25291 original size:24 final size:24
Alignment explanation
Indices: 25259--25307 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25249 ATATTGTGGC
25259 CGTTGCCCACTTTGGCCTCTACCT
1 CGTTGCCCACTTTGGCCTCTACCT
25283 CGTTGCCCACTTTGGCCTCTACCT
1 CGTTGCCCACTTTGGCCTCTACCT
25307 C
1 C
25308 TACCACGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.43, G:0.16, T:0.33
Consensus pattern (24 bp):
CGTTGCCCACTTTGGCCTCTACCT
Found at i:26733 original size:26 final size:26
Alignment explanation
Indices: 26697--26751 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
26687 TTTAATGCCA
26697 GATTGATAATAGTGATGTCTTACAAT
1 GATTGATAATAGTGATGTCTTACAAT
*
26723 GATTGATAATAGTGATGTCTTACCAT
1 GATTGATAATAGTGATGTCTTACAAT
26749 GAT
1 GAT
26752 CTCTTCAGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (26 bp):
GATTGATAATAGTGATGTCTTACAAT
Found at i:35587 original size:90 final size:90
Alignment explanation
Indices: 35436--35615 Score: 200
Period size: 90 Copynumber: 2.0 Consensus size: 90
35426 ATTTTTAGTG
* * * * * * *
35436 ATTTTGGGATTGGATTCGGTCGATCTTTAACATATTTTGATCAATTTTTAAGAGTTAATTTTAGT
1 ATTTTGGGACTGGATTAGGTCGATCTTTAACATACTATGATCAAGTTTTAAGAGTCAATTTTAAT
*
35501 TTGGATTGAAAAAACTTGACTAATA
66 TTGGATTGAAAAAACTTGACAAATA
* * * *
35526 ATTTTGGGACTGGATTAGGTTGATCTTTAACGTACTATGATTC-AGTTTTATGAGTCCATTTTAA
1 ATTTTGGGACTGGATTAGGTCGATCTTTAACATACTATGA-TCAAGTTTTAAGAGTCAATTTTAA
*** *
35590 TTTTTCTTGAAAAAGCTTGACAAATA
65 TTTGGATTGAAAAAACTTGACAAATA
35616 GAGTAAATTG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
90 71 0.97
91 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (90 bp):
ATTTTGGGACTGGATTAGGTCGATCTTTAACATACTATGATCAAGTTTTAAGAGTCAATTTTAAT
TTGGATTGAAAAAACTTGACAAATA
Found at i:39665 original size:20 final size:20
Alignment explanation
Indices: 39613--39665 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
39603 TAATGATTCA
* *
39613 AAATTATTAAATTAATTTTC
1 AAATTATTAAATAAATTATC
*
39633 AATTTATTTAAATCAAATTAT-
1 AAATTA-TTAAAT-AAATTATC
39654 AAATTATTAAAT
1 AAATTATTAAAT
39666 TTATATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 11 0.41
21 11 0.41
22 5 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTATTAAATAAATTATC
Found at i:39819 original size:24 final size:24
Alignment explanation
Indices: 39774--39818 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
39764 ATTTAAATTT
**
39774 AATATAAAAATAATTTATTTTTAC
1 AATATAAAAATAATCAATTTTTAC
39798 AATATAAAAAT-ATCAATTTTT
1 AATATAAAAATAATCAATTTTT
39819 TTATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
AATATAAAAATAATCAATTTTTAC
Found at i:45373 original size:34 final size:35
Alignment explanation
Indices: 45334--45401 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
45324 CAATTTTTAA
* *
45334 AAAAAATTGATAATAGATTTAGTA-TTTTAATATC
1 AAAAAATTGATAACAGATTTAATATTTTTAATATC
*
45368 AAAAAATTGATAACAGTTTTAATATTTTTAATAT
1 AAAAAATTGATAACAGATTTAATATTTTTAATAT
45402 GTATATTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 21 0.70
35 9 0.30
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (35 bp):
AAAAAATTGATAACAGATTTAATATTTTTAATATC
Found at i:45527 original size:28 final size:28
Alignment explanation
Indices: 45488--45542 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
45478 TCAAATTTTA
* *
45488 AAATATTTTTTAT-TTTTTAAAAAAATT
1 AAATATTCTTTATACTTTTAAAAAAATT
45515 AAATAATTCTTTATACTTTTAAAAAAAT
1 AAAT-ATTCTTTATACTTTTAAAAAAAT
45543 CAATTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 8 0.33
29 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (28 bp):
AAATATTCTTTATACTTTTAAAAAAATT
Found at i:45889 original size:6 final size:6
Alignment explanation
Indices: 45846--45888 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
45836 CGAAAAAGAA
* *
45846 GAGGAT GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GGGGGT G
1 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT G
45889 GCATGAGACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.16, C:0.00, G:0.67, T:0.16
Consensus pattern (6 bp):
GAGGGT
Found at i:57788 original size:134 final size:134
Alignment explanation
Indices: 57471--57888 Score: 529
Period size: 134 Copynumber: 3.1 Consensus size: 134
57461 TCAAGATTTG
* * * * *
57471 ATCTTCCCTGAA-TAACAGCGGAATGGATCAATTCAT-AAGATCTGTTATTCCCTTCAGAAGAAG
1 ATCTTCCCT-AAGTGACAGCGGAATGGATCAACTCATCCAGATCTGATATTCCCTTCAAAAGAAG
* * *
57534 TGGAACATATCACTCTATTTCAAGATTTGATATTCCCTGAGTGACA-CGGAACAAGTCTACCATG
65 TGGAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGTCTACCATG
57598 ATTCA
130 ATTCA
* * * * *
57603 ATCTTCCCTGATTGATAGCGGAATGGATCAACTCATCCATATATGATATTCCCTTCAAAAGAAGT
1 ATCTTCCCTAAGTGACAGCGGAATGGATCAACTCATCCAGATCTGATATTCCCTTCAAAAGAAGT
* * *
57668 GGAATAGATCACTCTCTTTCAAGATTTGATATTCCCTTAGTGACAGCAGAACAAGTCTACCATGA
66 GGAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGTCTACCATGA
57733 TTCA
131 TTCA
* *
57737 ATCTTCTCTAAGTGACAGCGGAATTGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAATC
1 ATCTTCCCTAAGTGACAGCGGAATGGATCAACTCATCCAGATCTGATATTCCCTTC---A-AA--
* *
57802 AGAAGAAGCAGAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGCAGAACAAGT
60 AGAAG-TG--GAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGT
57867 CTACCCA-GATTCA
122 CTA-CCATGATTCA
57880 ATCTTCCCT
1 ATCTTCCCT
57889 GAAGAACTGT
Statistics
Matches: 246, Mismatches: 27, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
131 1 0.00
132 30 0.12
133 64 0.26
134 71 0.29
137 1 0.00
138 2 0.01
140 5 0.02
141 1 0.00
143 68 0.28
144 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (134 bp):
ATCTTCCCTAAGTGACAGCGGAATGGATCAACTCATCCAGATCTGATATTCCCTTCAAAAGAAGT
GGAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGTCTACCATGA
TTCA
Found at i:57920 original size:143 final size:143
Alignment explanation
Indices: 57675--57932 Score: 371
Period size: 143 Copynumber: 1.8 Consensus size: 143
57665 AGTGGAATAG
* *
57675 ATCACTCTCTTTCAAGATTTGATATTCCCTTAGTGACAGCAGAACAAGTCTACCATGATTCAATC
1 ATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGCAGAACAAGTCTACCATGATTCAATC
* * * * *
57740 TTCTCTAAGTGACAGCGGAATTGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAATCAGA
66 TTCCCTAAGTAACAGCGAAAATGATCAACTCACCCAGATCTGATATTCCCTTCAGAAGAATCAGA
57805 AGAAGCAGAACAA
131 AGAAGCAGAACAA
57818 ATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGCAGAACAAGTCTACCCA-GATTCAAT
1 ATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGCAGAACAAGTCTA-CCATGATTCAAT
* *
57882 CTTCCCTGAAG-AACTG-TAAAATGAATCAACATC-CCCAGATCTGATATTCCC
65 CTTCCCT-AAGTAACAGCGAAAATG-ATCAAC-TCACCCAGATCTGATATTCCC
57933 CGAGTAATAG
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
142 4 0.04
143 90 0.88
144 8 0.08
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (143 bp):
ATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGCAGAACAAGTCTACCATGATTCAATC
TTCCCTAAGTAACAGCGAAAATGATCAACTCACCCAGATCTGATATTCCCTTCAGAAGAATCAGA
AGAAGCAGAACAA
Found at i:62335 original size:47 final size:45
Alignment explanation
Indices: 62239--62363 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
62229 GGTAAGTATG
* * *
62239 AAAATAAGCTTATGAGCTTAT-GAAT-AATGGCAATTATATTGAT
1 AAAATAAGCTTAAGAGCTTATGGAATAAATGGTAAATATATTGAT
* * *
62282 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAATATTTTGGT
1 AAAATAAGCTTAAGAGCTTATGGAA--TAAATGGTAAATATATTGAT
*
62329 AAAATAAGCTTAAGAGCTTATGGGATAAATGGTAA
1 AAAATAAGCTTAAGAGCTTATGGAATAAATGGTAA
62364 GAGATTTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
43 20 0.28
44 3 0.04
45 10 0.14
46 1 0.01
47 37 0.52
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (45 bp):
AAAATAAGCTTAAGAGCTTATGGAATAAATGGTAAATATATTGAT
Found at i:64130 original size:2 final size:2
Alignment explanation
Indices: 64123--64174 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
64113 TACTTACCTC
64123 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
64165 AT AT AT AT AT
1 AT AT AT AT AT
64175 TGTTTTGATC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.