Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024842.1 Corchorus olitorius cultivar O-4 contig24875, 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: 78882
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:4657 original size:15 final size:16
Alignment explanation
Indices: 4624--4663 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
4614 TTACTTTGTT
4624 TTGTTTTCTAGTATAA
1 TTGTTTTCTAGTATAA
*
4640 TTGTTTTCT-GTTTAA
1 TTGTTTTCTAGTATAA
*
4655 TTGCTTTCT
1 TTGTTTTCT
4664 TTCAACCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (16 bp):
TTGTTTTCTAGTATAA
Found at i:8420 original size:27 final size:27
Alignment explanation
Indices: 8344--8420 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
8334 AATGTACTTG
* *
8344 AAATGACTAAAATGCCCCTGGACGTGC
1 AAATGACCAAAATGCCCCTGGATGTGC
8371 AAATGACCAAAATGCCCCTGGATGTGC
1 AAATGACCAAAATGCCCCTGGATGTGC
*
8398 AAATGACCAAAATGCCCATGGAT
1 AAATGACCAAAATGCCCCTGGAT
8421 AAGCCTAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATGCCCCTGGATGTGC
Found at i:9138 original size:65 final size:65
Alignment explanation
Indices: 9067--9235 Score: 234
Period size: 65 Copynumber: 2.6 Consensus size: 65
9057 GGTGCATCTC
* *
9067 TTAACAAGATCGTCTTCCGATCAACTTCTGAAACCA-TCTTGAGAAACTATCTTCTGGTGTACTT
1 TTAACAAGATCGTCTTCCGATCAACTTCTGAAA--ATTCTTGAGAAACCATCTTCTGGCGTACTT
9131 -T
64 CT
* *
9132 TTAACAAGATCGTCTTCCGATCAACTTCTGAAAATTTTTTAGAAACCATCTTCTGGCGTACTTCT
1 TTAACAAGATCGTCTTCCGATCAACTTCTGAAAATTCTTGAGAAACCATCTTCTGGCGTACTTCT
* * * *
9197 TTGACAATATCGTCTTCCGTTCATCTTCTGAAAATTCTT
1 TTAACAAGATCGTCTTCCGATCAACTTCTGAAAATTCTT
9236 TCTAGCAAAC
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
63 1 0.01
64 24 0.26
65 68 0.73
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (65 bp):
TTAACAAGATCGTCTTCCGATCAACTTCTGAAAATTCTTGAGAAACCATCTTCTGGCGTACTTCT
Found at i:9394 original size:67 final size:67
Alignment explanation
Indices: 9225--9395 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 67
9215 GTTCATCTTC
* * * *
9225 TGAAAATTCTTTCTAGCAAACCGTCTTCCGATATATTCCTTAATGAGATTATCTTCCACTCAACA
1 TGAAAATTCTTTCTAGCAAACCGTCTTCCGATGTACTCCTTAATAAGATTATCTTCCAATCAACA
9290 TT
66 TT
* * *
9292 TGAAAATTCTTTCTGGCAAACCGTCTTCCGGTGTACTCCTTAATAAGATTGTCTTCCAATCAACA
1 TGAAAATTCTTTCTAGCAAACCGTCTTCCGATGTACTCCTTAATAAGATTATCTTCCAATCAACA
9357 TT
66 TT
*
9359 TGAAAATTCTTTCTAGCAAACCGTCTTCCGCTGTACT
1 TGAAAATTCTTTCTAGCAAACCGTCTTCCGATGTACT
9396 TCTAAAATCC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (67 bp):
TGAAAATTCTTTCTAGCAAACCGTCTTCCGATGTACTCCTTAATAAGATTATCTTCCAATCAACA
TT
Found at i:11717 original size:18 final size:18
Alignment explanation
Indices: 11694--11729 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11684 ATCCAATTGT
11694 ACCTAAATGATCAAATGC
1 ACCTAAATGATCAAATGC
11712 ACCTAAATGATCAAATGC
1 ACCTAAATGATCAAATGC
11730 CTAGATAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
ACCTAAATGATCAAATGC
Found at i:11970 original size:27 final size:27
Alignment explanation
Indices: 11940--11991 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11930 AATGTACTTG
* *
11940 AAATGACTAAAATGCCCCTGGACGTGC
1 AAATGACCAAAATGCCACTGGACGTGC
*
11967 AAATGACCAAACTGCCACTGGACGT
1 AAATGACCAAAATGCCACTGGACGT
11992 ACCACCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (27 bp):
AAATGACCAAAATGCCACTGGACGTGC
Found at i:12689 original size:27 final size:27
Alignment explanation
Indices: 12651--12752 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 27
12641 TATTTCTTAA
* *
12651 TTGGTCATTTGCACGCTCAAGGGCATT
1 TTGGTCATTTGCACACTCAGGGGCATT
*
12678 TTGGTCATTTGCACACTCAGGGGCATC
1 TTGGTCATTTGCACACTCAGGGGCATT
*
12705 TTGGTCATTTG--TACTCAGGGGCATT
1 TTGGTCATTTGCACACTCAGGGGCATT
12730 TTGGTCATTTTGCACACTCAGGG
1 TTGGTCA-TTTGCACACTCAGGG
12753 TTTTTTTTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
25 19 0.29
26 4 0.06
27 35 0.53
28 8 0.12
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (27 bp):
TTGGTCATTTGCACACTCAGGGGCATT
Found at i:12733 original size:52 final size:54
Alignment explanation
Indices: 12651--12752 Score: 163
Period size: 52 Copynumber: 1.9 Consensus size: 54
12641 TATTTCTTAA
12651 TTGGTCATTTGCACGCTCAAGGGCATTTTGGTCA-TTTGCACACTCAGGGGCATC
1 TTGGTCATTTGCAC-CTCAAGGGCATTTTGGTCATTTTGCACACTCAGGGGCATC
* *
12705 TTGGTCATTTGTA-CTCAGGGGCATTTTGGTCATTTTGCACACTCAGGG
1 TTGGTCATTTGCACCTCAAGGGCATTTTGGTCATTTTGCACACTCAGGG
12753 TTTTTTTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 18 0.40
53 15 0.33
54 12 0.27
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (54 bp):
TTGGTCATTTGCACCTCAAGGGCATTTTGGTCATTTTGCACACTCAGGGGCATC
Found at i:20193 original size:15 final size:15
Alignment explanation
Indices: 20173--20204 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20163 ATAACAATGG
20173 AGATCATGGAGAGCA
1 AGATCATGGAGAGCA
*
20188 AGATCATGGAGTGCA
1 AGATCATGGAGAGCA
20203 AG
1 AG
20205 GAAGCATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.34, T:0.16
Consensus pattern (15 bp):
AGATCATGGAGAGCA
Found at i:23198 original size:18 final size:18
Alignment explanation
Indices: 23174--23217 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23164 TAGGGCGGAA
23174 AATTATTAAATAAATAAT
1 AATTATTAAATAAATAAT
* * * *
23192 TATTATTTATTTAATAAT
1 AATTATTAAATAAATAAT
23210 AATTATTA
1 AATTATTA
23218 TTTACCCATA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATTAAATAAATAAT
Found at i:23212 original size:21 final size:22
Alignment explanation
Indices: 23176--23221 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
23166 GGGCGGAAAA
23176 TTATTAAATAAATAATTATTAT
1 TTATTAAATAAATAATTATTAT
*
23198 TTATTTAAT-AATAATTATTAT
1 TTATTAAATAAATAATTATTAT
23219 TTA
1 TTA
23222 CCCATATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATTAAATAAATAATTATTAT
Found at i:28438 original size:18 final size:17
Alignment explanation
Indices: 28410--28443 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
28400 TAGGTAACGT
*
28410 TGTTTCATAATTATTCA
1 TGTTTCATAATGATTCA
28427 TGTTTACATAATGATTC
1 TGTTT-CATAATGATTC
28444 TTATCACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (17 bp):
TGTTTCATAATGATTCA
Found at i:30393 original size:9 final size:9
Alignment explanation
Indices: 30379--30423 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
30369 CCTCCCAACT
30379 CCGCCACCA
1 CCGCCACCA
30388 CCGCCACCA
1 CCGCCACCA
* *
30397 CCTCCGCCA
1 CCGCCACCA
*
30406 CCACCACCA
1 CCGCCACCA
*
30415 CCTCCACCA
1 CCGCCACCA
30424 GTTGGAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.22, C:0.67, G:0.07, T:0.04
Consensus pattern (9 bp):
CCGCCACCA
Found at i:30401 original size:21 final size:21
Alignment explanation
Indices: 30377--30416 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30367 ACCCTCCCAA
*
30377 CTCCGCCACCACCGCCACCAC
1 CTCCGCCACCACCACCACCAC
30398 CTCCGCCACCACCACCACC
1 CTCCGCCACCACCACCACC
30417 TCCACCAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.68, G:0.07, T:0.05
Consensus pattern (21 bp):
CTCCGCCACCACCACCACCAC
Found at i:30403 original size:12 final size:12
Alignment explanation
Indices: 30382--30423 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
30372 CCCAACTCCG
30382 CCACCACCGCCA
1 CCACCACCGCCA
*
30394 CCACCTCCGCCA
1 CCACCACCGCCA
* *
30406 CCACCACCACCT
1 CCACCACCGCCA
30418 CCACCA
1 CCACCA
30424 GTTGGAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.24, C:0.67, G:0.05, T:0.05
Consensus pattern (12 bp):
CCACCACCGCCA
Found at i:30412 original size:18 final size:18
Alignment explanation
Indices: 30385--30419 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30375 AACTCCGCCA
*
30385 CCACCGCCACCACCTCCG
1 CCACCACCACCACCTCCG
30403 CCACCACCACCACCTCC
1 CCACCACCACCACCTCC
30420 ACCAGTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.69, G:0.06, T:0.06
Consensus pattern (18 bp):
CCACCACCACCACCTCCG
Found at i:36771 original size:4 final size:4
Alignment explanation
Indices: 36752--36786 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
36742 TTTTCATACC
36752 AGAA AGAA A-AA A-AA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
36787 CCCTACAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.20
4 24 0.80
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:36909 original size:24 final size:25
Alignment explanation
Indices: 36882--36928 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36872 TTATCAAATT
*
36882 TGTTACTAG-TTCAAATTTAAATCC
1 TGTTAATAGTTTCAAATTTAAATCC
*
36906 TGTTAATAGTTTTAAATTTAAAT
1 TGTTAATAGTTTCAAATTTAAAT
36929 GTAACCAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (25 bp):
TGTTAATAGTTTCAAATTTAAATCC
Found at i:41309 original size:30 final size:30
Alignment explanation
Indices: 41273--41332 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
41263 AAATCCTTTG
* *
41273 GTTTGAACCTAAGCCTTATCACATCTGTTA
1 GTTTGAACCTAAGCCTTATCAAATCAGTTA
41303 GTTTGAACCTAAGCCTTATCAAATCAGTTA
1 GTTTGAACCTAAGCCTTATCAAATCAGTTA
41333 CTAGTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (30 bp):
GTTTGAACCTAAGCCTTATCAAATCAGTTA
Found at i:50389 original size:15 final size:16
Alignment explanation
Indices: 50363--50404 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
50353 GTATTGGCTT
50363 TATATT-ATTGTTTTC
1 TATATTAATTGTTTTC
50378 TAT-TTAATTGTTTTC
1 TATATTAATTGTTTTC
*
50393 T-TATAAATTGTT
1 TATATTAATTGTT
50405 ACATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (16 bp):
TATATTAATTGTTTTC
Found at i:54387 original size:21 final size:21
Alignment explanation
Indices: 54363--54404 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
54353 GGTCACTAAA
54363 GACAATATTTAACACACTTAT
1 GACAATATTTAACACACTTAT
54384 GACAATATTTAACACACTTAT
1 GACAATATTTAACACACTTAT
54405 AAACTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
GACAATATTTAACACACTTAT
Found at i:55663 original size:109 final size:108
Alignment explanation
Indices: 55481--55684 Score: 236
Period size: 109 Copynumber: 1.9 Consensus size: 108
55471 GAAAATAAGA
* * * **
55481 AGAATTAACGAACAATTTATTTTATTCACAATAAATTTTGTTATTTGTATACCAAATTTATGGAC
1 AGAATTAACGAACAATTTATTATATTCACAATAAATTCTGTTATTTGTATACCAAACTTATCAAC
* * *
55546 TTTGAATTAATCGGGAT-TCAATGTGTATTTAAGGTTAAAAGTG
66 TATCAATTAATCAGGATCT-AATGTGTATTTAAGGTTAAAAGTG
* *
55589 AGAATTTAACGAGCAATTTATTATA-T-ACAAT-AATTCTGTTATTTGTATATCAAACTTATCAA
1 AGAA-TTAACGAACAATTTATTATATTCACAATAAATTCTGTTATTTGTATACCAAACTTATCAA
*
55651 CTCCGATCAATTAGTCAGGATCTAATGTGTATTT
65 CT---ATCAATTAATCAGGATCTAATGTGTATTT
55685 GAGATTTGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
106 28 0.35
107 5 0.06
108 5 0.06
109 41 0.51
110 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (108 bp):
AGAATTAACGAACAATTTATTATATTCACAATAAATTCTGTTATTTGTATACCAAACTTATCAAC
TATCAATTAATCAGGATCTAATGTGTATTTAAGGTTAAAAGTG
Found at i:70845 original size:21 final size:21
Alignment explanation
Indices: 70821--70862 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
70811 TAGGTTTAGT
70821 TTTCTTGTTTTTCA-ATTTAAG
1 TTTCTTGTTTTT-AGATTTAAG
70842 TTTCTTGTTTTTAGATTTAAG
1 TTTCTTGTTTTTAGATTTAAG
70863 ATTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.62
Consensus pattern (21 bp):
TTTCTTGTTTTTAGATTTAAG
Found at i:71860 original size:27 final size:27
Alignment explanation
Indices: 71828--71903 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
71818 TTGGCATTCA
* *
71828 CACATCTAGGGGCATTTTTGTCATTTG
1 CACATCCAGGGGCATTTTGGTCATTTG
71855 CACATCCAGGGGCATTTTGGTCATTTG
1 CACATCCAGGGGCATTTTGGTCATTTG
*
71882 CATATCCAGGGGCATTTTGGTC
1 CACATCCAGGGGCATTTTGGTC
71904 GTTTTAAGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (27 bp):
CACATCCAGGGGCATTTTGGTCATTTG
Found at i:77772 original size:30 final size:30
Alignment explanation
Indices: 77643--77910 Score: 360
Period size: 30 Copynumber: 8.8 Consensus size: 30
77633 GCTAATATAT
* *
77643 ATTGACACCAGAAGTTGTCATGATAAATCTCCA
1 ATTGACACCAGAAGTTGTCATGAT--CT-TGCA
*
77676 AATGACACCAGAAGTTGTCAATGATCTTGCA
1 ATTGACACCAGAAGTTGTC-ATGATCTTGCA
*
77707 ATTGACACCAGAAGCTGTCAATGATCTTGCA
1 ATTGACACCAGAAGTTGTC-ATGATCTTGCA
* * *
77738 ATTGACACCAGAAGCTGTCATGCTCTTGCT
1 ATTGACACCAGAAGTTGTCATGATCTTGCA
* *
77768 ATTGACACCAGAAGCTGTCATGCTCTTGCA
1 ATTGACACCAGAAGTTGTCATGATCTTGCA
77798 ATTGACACCAGAAGTTGTCATGATCTTGCA
1 ATTGACACCAGAAGTTGTCATGATCTTGCA
*
77828 ATTGACACCAGAAGTTGTCATGATCTTACA
1 ATTGACACCAGAAGTTGTCATGATCTTGCA
* *
77858 ATTGACACCAGAAGTTGTCAATGGTCTTACA
1 ATTGACACCAGAAGTTGTC-ATGATCTTGCA
77889 ATTG--ACCAGAAGTTGTCATGAT
1 ATTGACACCAGAAGTTGTCATGAT
77911 AAATTTCCAA
Statistics
Matches: 220, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
28 4 0.02
29 13 0.06
30 114 0.52
31 65 0.30
32 1 0.00
33 18 0.08
34 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (30 bp):
ATTGACACCAGAAGTTGTCATGATCTTGCA
Found at i:77947 original size:89 final size:89
Alignment explanation
Indices: 77678--77966 Score: 271
Period size: 90 Copynumber: 3.2 Consensus size: 89
77668 AATCTCCAAA
* * * * *
77678 TGACACCAGAAGTTGTCAATGATCTTGCAATTGACACCAGAAGCTGTCAATGATCTTGCAATTGA
1 TGACACCAGAAGTTGTCAATGCTCTTACAATTGA-ACCAGAAGTTGTC-ATGATCTTCCAATAGA
* * * * * *
77743 CACCAGAAGCTGTCATGCTCTTGCTAT
64 CACCAGAAGATGCCATG-ACATACAAT
* * * *
77770 TGACACCAGAAGCTGTC-ATGCTCTTGCAATTGACACCAGAAGTTGTCATGATCTTGCAATTGAC
1 TGACACCAGAAGTTGTCAATGCTCTTACAATTGA-ACCAGAAGTTGTCATGATCTTCCAATAGAC
* * *
77834 ACCAGAAGTTGTCATGATCTTACAAT
65 ACCAGAAGATGCCATGA-CATACAAT
* *
77860 TGACACCAGAAGTTGTCAATGGTCTTACAATTG-ACCAGAAGTTGTCATGATAAATTTCCAATAG
1 TGACACCAGAAGTTGTCAATGCTCTTACAATTGAACCAGAAGTTGTCATGAT---CTTCCAATAG
**
77924 ACACTTGAAGATGCCAT-A-ATACAAT
63 ACACCAGAAGATGCCATGACATACAAT
*
77949 CGACACCAGAAGTTGTCA
1 TGACACCAGAAGTTGTCA
77967 TAATTCAATT
Statistics
Matches: 173, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
89 41 0.24
90 54 0.31
91 42 0.24
92 36 0.21
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (89 bp):
TGACACCAGAAGTTGTCAATGCTCTTACAATTGAACCAGAAGTTGTCATGATCTTCCAATAGACA
CCAGAAGATGCCATGACATACAAT
Found at i:77960 original size:27 final size:27
Alignment explanation
Indices: 77930--77981 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
77920 ATAGACACTT
77930 GAAGATGCCATAATACAATCGACACCA
1 GAAGATGCCATAATACAATCGACACCA
* * * *
77957 GAAGTTGTCATAATTCAATTGACAC
1 GAAGATGCCATAATACAATCGACAC
77982 TGATCGAGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (27 bp):
GAAGATGCCATAATACAATCGACACCA
Done.