Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013895.1 Corchorus olitorius cultivar O-4 contig13928, 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: 77384
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Found at i:6123 original size:61 final size:61
Alignment explanation
Indices: 6028--6150 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
6018 TGAAAAAAAA
6028 AACACTTAGATCCGAGCAATATAAACAAGAAGAAGATATATAGCATTTTCCTTGGAAGAAG
1 AACACTTAGATCCGAGCAATATAAACAAGAAGAAGATATATAGCATTTTCCTTGGAAGAAG
6089 AACACTTAGATCCGAGCAATATAAACAAGAAGAAGATATATAGCATTTTCCTTGGAAGAAG
1 AACACTTAGATCCGAGCAATATAAACAAGAAGAAGATATATAGCATTTTCCTTGGAAGAAG
6150 A
1 A
6151 TAGTTAATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.23
Consensus pattern (61 bp):
AACACTTAGATCCGAGCAATATAAACAAGAAGAAGATATATAGCATTTTCCTTGGAAGAAG
Found at i:9361 original size:58 final size:58
Alignment explanation
Indices: 9296--9405 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 58
9286 TATTAATAAT
* **
9296 AATTAATTAAATAGCATTAATGTTAATTGATTGTAATTGATCAAAATATTCATTTAAC
1 AATTAATTAAATAGAATTAATACTAATTGATTGTAATTGATCAAAATATTCATTTAAC
* * * *
9354 AATTAATTAAATAGAATTATTACTAATTGATTTTAATTTATCAAATTATTCA
1 AATTAATTAAATAGAATTAATACTAATTGATTGTAATTGATCAAAATATTCA
9406 AATCAACTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 45 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (58 bp):
AATTAATTAAATAGAATTAATACTAATTGATTGTAATTGATCAAAATATTCATTTAAC
Found at i:13232 original size:27 final size:22
Alignment explanation
Indices: 13178--13238 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
13168 TGGGCTAGCA
*
13178 CGGCACGACACGACCCACGTGC
1 CGGCACAACACGACCCACGTGC
13200 CGGCACAACACGACCCACGTGC
1 CGGCACAACACGACCCACGTGC
* * *
13222 CGACGCAGCACGACCCA
1 CGGCACAACACGACCCA
13239 TTTTTAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.26, C:0.46, G:0.25, T:0.03
Consensus pattern (22 bp):
CGGCACAACACGACCCACGTGC
Found at i:21302 original size:20 final size:21
Alignment explanation
Indices: 21262--21302 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21252 TTTTGCTAAT
21262 CAAATCGAAAATTTGGGAGTG
1 CAAATCGAAAATTTGGGAGTG
*
21283 CAAATTGAAAATTT-GGAGTG
1 CAAATCGAAAATTTGGGAGTG
21303 TTTCCAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (21 bp):
CAAATCGAAAATTTGGGAGTG
Found at i:25265 original size:35 final size:37
Alignment explanation
Indices: 25219--25305 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
25209 GGTCAGCTCA
* **
25219 TAGAAGTATTTGTTTTTT-TGTT-TTTG-GCCAAAATC
1 TAGAAGTATTTGTTTTTTCT-TTCTTGGTGAAAAAATC
25254 TAGAAGTATTTGTTTTTTCTTTCTTGGTGAAAAAATC
1 TAGAAGTATTTGTTTTTTCTTTCTTGGTGAAAAAATC
25291 TAGAAGTATTTGTTT
1 TAGAAGTATTTGTTT
25306 ACGGATTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
35 20 0.43
36 4 0.09
37 22 0.48
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (37 bp):
TAGAAGTATTTGTTTTTTCTTTCTTGGTGAAAAAATC
Found at i:28282 original size:119 final size:118
Alignment explanation
Indices: 28048--28403 Score: 590
Period size: 119 Copynumber: 3.0 Consensus size: 118
28038 TTGGAAGAAC
* *
28048 ATCCACCACAACCATGAATATTGTTTTGAGGAA-TTTCAAGTCCTTCAATTTTCCATTTCAAACC
1 ATCCACCACAACCATGAATATTGTTTTGAGGAATTTTCAAGTCCTTAAATTTTCCACTTCAAACC
*
28112 AACTCTTCCAATAAAAATAGTATAAATTACTCCTTAATTCTTAGATCCCCAAACG
66 AACTCTTCC-ATAAAAATAGTATAAATTACTCCTTAATTCTTAGGT-CCCAAACG
*
28167 ATCCACCACAACCATGAATATTGTTTTGAGGAATTTCTCAATTCCTTAAATTTTCCACTTCAAAC
1 ATCCACCACAACCATGAATATTGTTTTGAGGAATTT-TCAAGTCCTTAAATTTTCCACTTCAAAC
*
28232 CAACTCTTCCATAAATATAGTATAAATTACTCCTTAATTCTTAGGTCCCAAACG
65 CAACTCTTCCATAAAAATAGTATAAATTACTCCTTAATTCTTAGGTCCCAAACG
* *
28286 CTCCACCACAACCATGAATATTGTTTTGAGGAATTTT-AAGTCCTTAAATTTTCCACTTTAAACC
1 ATCCACCACAACCATGAATATTGTTTTGAGGAATTTTCAAGTCCTTAAATTTTCCACTTCAAACC
*
28350 AACTCTTCCAGAAAAAATAGTATAAATTACTCCTTAATTCTTAGGTCCCAAACG
66 AACTCTTCCA-TAAAAATAGTATAAATTACTCCTTAATTCTTAGGTCCCAAACG
28404 CGTTAACAAT
Statistics
Matches: 224, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
117 35 0.16
118 42 0.19
119 76 0.34
120 36 0.16
121 35 0.16
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (118 bp):
ATCCACCACAACCATGAATATTGTTTTGAGGAATTTTCAAGTCCTTAAATTTTCCACTTCAAACC
AACTCTTCCATAAAAATAGTATAAATTACTCCTTAATTCTTAGGTCCCAAACG
Found at i:42738 original size:178 final size:178
Alignment explanation
Indices: 42434--42763 Score: 522
Period size: 178 Copynumber: 1.9 Consensus size: 178
42424 TAAGCGCAAA
* *
42434 TTATGTAATATTAAGTAGACCGTCTACTTCCGTTAACCGAAACAACTAATTCTTTGGAAGCATTT
1 TTATATAATATTAAGTAGACCGTCTACTTCCGTTAACCGAAACAACAAATTCTTTGGAAGCATTT
42499 TTTATATCTTGAACAATAAATTTAGTTTTCAAGTCCTTCATGAAAGTTGTAGATCATGGAACAAA
66 TTTATATCTTGAACAATAAATTTAGTTTTCAAGTCCTTCATGAAAGTTGTAGATCATGGAACAAA
*
42564 CTTTGAAAAGACACTTGAATCATCTCAATTAGACAACTGAAGCAAAAG
131 CTTTGAAAAGACACTTAAATCATCTCAATTAGACAACTGAAGCAAAAG
*
42612 TTATATAATATTAAGTGGACCGTCTA-TTCCCGTTAACCGAAACAACAAATT-TTTCGGAAGCAT
1 TTATATAATATTAAGTAGACCGTCTACTT-CCGTTAACCGAAACAACAAATTCTTT-GGAAGCAT
* * *
42675 TTTTTATA-CTTGAAACATTAAATTTAGTTTTCGAGTCCTTCATGAAAGTTGTATATCATGGAAC
64 TTTTTATATCTTG-AACAATAAATTTAGTTTTCAAGTCCTTCATGAAAGTTGTAGATCATGGAAC
* * *
42739 AATCTTTTAATAGACACTTAAATCA
128 AAACTTTGAAAAGACACTTAAATCA
42764 CCTTATTAAT
Statistics
Matches: 139, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
177 9 0.06
178 130 0.94
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (178 bp):
TTATATAATATTAAGTAGACCGTCTACTTCCGTTAACCGAAACAACAAATTCTTTGGAAGCATTT
TTTATATCTTGAACAATAAATTTAGTTTTCAAGTCCTTCATGAAAGTTGTAGATCATGGAACAAA
CTTTGAAAAGACACTTAAATCATCTCAATTAGACAACTGAAGCAAAAG
Found at i:42849 original size:2 final size:2
Alignment explanation
Indices: 42842--42868 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42832 ATAAATATGT
42842 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
42869 TAAATTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60651 original size:202 final size:202
Alignment explanation
Indices: 60254--60662 Score: 723
Period size: 202 Copynumber: 2.0 Consensus size: 202
60244 GCTTAATAAC
*
60254 TTTATTAATGGTGAATGATATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGCGAATAA
1 TTTATCAATGGTGAATGATATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGCGAATAA
* *
60319 GATACAAGACATTATTATTATATATAAAACTATACCAAAAAAAAGTAGTTGAACATTAGTGGTTG
66 GATACAACACATTACTATTATATATAAAACTATACCAAAAAAAAGTAGTTGAACATTAGTGGTTG
60384 ATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTCAAGATC
131 ATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTCAAGATC
60449 CGATTTA
196 CGATTTA
* * *
60456 TTTATCAATGGTGAATGTTATTGATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
1 TTTATCAATGGTGAATGATATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGCGAATAA
*
60521 GATACAACACATTACTATTATATATATAGAACTATACC-AAAAAAATTAGTTGAACATTAGTGGT
66 GATACAACACATTACTATTATATATA-A-AACTATACCAAAAAAAAGTAGTTGAACATTAGTGGT
60585 TGATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATT-AAGA
129 TGATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTCAAGA
60649 TCCGATTTA
194 TCCGATTTA
60658 TTTAT
1 TTTAT
60663 TATTAAGGAA
Statistics
Matches: 198, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
202 103 0.52
203 86 0.43
204 9 0.05
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (202 bp):
TTTATCAATGGTGAATGATATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGCGAATAA
GATACAACACATTACTATTATATATAAAACTATACCAAAAAAAAGTAGTTGAACATTAGTGGTTG
ATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTCAAGATC
CGATTTA
Found at i:60825 original size:39 final size:40
Alignment explanation
Indices: 60771--60851 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
60761 ATACCTAAAA
*
60771 ATTTAATTAATGTAAGTATTTCAGTTATTATA-GTATTAC
1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
*
60810 ATTTAATTAATGTAAGTATTTTAGTTATTATATATATTAC
1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
60850 AT
1 AT
60852 AGGAATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51
Consensus pattern (40 bp):
ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
Found at i:61541 original size:25 final size:25
Alignment explanation
Indices: 61507--61557 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
61497 TTCCTTTTTA
*
61507 TCAACTTTTAATAGTTTAAGTTCAT
1 TCAACTTTTAATAGTTCAAGTTCAT
61532 TCAACTTTTAATAGTTCAAGTTCAT
1 TCAACTTTTAATAGTTCAAGTTCAT
61557 T
1 T
61558 TATTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (25 bp):
TCAACTTTTAATAGTTCAAGTTCAT
Found at i:61650 original size:42 final size:42
Alignment explanation
Indices: 61603--61686 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
61593 GCTTGTTCAT
61603 AAAGCTATAAGTTCAGAATGCAACATTGGGTCAAGTTTGCAA
1 AAAGCTATAAGTTCAGAATGCAACATTGGGTCAAGTTTGCAA
61645 AAAGCTATAAGTTCAGAATGCAACATTGGGTCAAGTTTGCAA
1 AAAGCTATAAGTTCAGAATGCAACATTGGGTCAAGTTTGCAA
61687 TCTTCCAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAGCTATAAGTTCAGAATGCAACATTGGGTCAAGTTTGCAA
Found at i:73228 original size:26 final size:25
Alignment explanation
Indices: 73170--73241 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
73160 CATTCAATAA
73170 AATAATGAGTAAGGTTTTTTTTGGAT
1 AATAATGAGTAAGG-TTTTTTTGGAT
*
73196 AATTAATGAGTAAGGTTTTTTT-GCT
1 AA-TAATGAGTAAGGTTTTTTTGGAT
*
73221 ACCATAATGAGTGAGGTTTTT
1 A--ATAATGAGTAAGGTTTTT
73242 ATTCCCTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 3 0.07
26 25 0.61
27 13 0.32
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (25 bp):
AATAATGAGTAAGGTTTTTTTGGAT
Found at i:74739 original size:22 final size:20
Alignment explanation
Indices: 74680--74746 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 20
74670 TTTTATGAAA
*
74680 TTTGATAATCACTATAAAAT
1 TTTGATAATCATTATAAAAT
*
74700 TTTGCTAACCTCCA-TATAAAAT
1 TTTGATAA--T-CATTATAAAAT
*
74722 TTTGATAATTACATTATAAAGT
1 TTTGATAA-T-CATTATAAAAT
74744 TTT
1 TTT
74747 TATGATGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 7 0.18
21 3 0.08
22 26 0.68
23 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (20 bp):
TTTGATAATCATTATAAAAT
Found at i:75305 original size:21 final size:22
Alignment explanation
Indices: 74832--75328 Score: 130
Period size: 22 Copynumber: 22.5 Consensus size: 22
74822 TAACCACCTA
74832 ATGAAATTTTGATAA-C-CACCT
1 ATGAAATTTTGATAATCTCA-CT
** * *
74853 ATGAAATTTTGATAGCCTCCCA
1 ATGAAATTTTGATAATCTCACT
* * * *
74875 ATGAAATGTTGTTAAGCGCACATT
1 ATGAAATTTTGATAATCTCAC--T
* * *
74899 ATGATATTTTGATAACCTTC-CG
1 ATGAAATTTTGATAATC-TCACT
* * * * *
74921 ATAAAATATTGGTAATCACATT
1 ATGAAATTTTGATAATCTCACT
* * *
74943 ATGAAATTCTGATAACCAT-ACC
1 ATGAAATTTTGATAATC-TCACT
* * *
74965 ATAAAATTGTGAT-ACCTCACT
1 ATGAAATTTTGATAATCTCACT
* * *
74986 ATGAAATTTTTATAAACTTCCCT
1 ATGAAATTTTGATAATC-TCACT
* *
75009 ATAAAATTTTGATAAACCTC-CAT
1 ATGAAATTTTGAT-AATCTCAC-T
* *
75032 TTGAAATTTTGA-AAAC-CATCTT
1 ATGAAATTTTGATAATCTCA-C-T
75054 ATGAAATTTTGATAA-C-CATCTT
1 ATGAAATTTTGATAATCTCA-C-T
*
75076 ATGAAATTTCGATAA-CGTC-CTT
1 ATGAAATTTTGATAATC-TCAC-T
*
75098 AT-AAATATTTTATAATCTC-CTT
1 ATGAAAT-TTTGATAATCTCAC-T
* * * *
75120 ATAAAATTTCGTTAACCT-ACT
1 ATGAAATTTTGATAATCTCACT
** ***
75141 ACAAAATTTTGATAAGAACACT
1 ATGAAATTTTGATAATCTCACT
* * * *
75163 ATTAAATTTTGATAA-CCCCCA
1 ATGAAATTTTGATAATCTCACT
* *
75184 ATGAAATTTTGATAATTAATTACACC
1 ATGAAATTTTGATAA-T--CT-CACT
* ** *
75210 ATAAAATTACGATAA-CTTACCT
1 ATGAAATTTTGATAATCTCA-CT
* *
75232 ATGAAATTTTGTTAATCTCCCT
1 ATGAAATTTTGATAATCTCACT
* * * *
75254 ATAAAATTTTGAGAACCACACT
1 ATGAAATTTTGATAATCTCACT
** *
75276 ACCAAATTTTGTTAATCTCACT
1 ATGAAATTTTGATAATCTCACT
* *
75298 AT-AAATTTTGATAAACTCATT
1 ATGAAATTTTGATAATCTCACT
75319 ATGAAATTTT
1 ATGAAATTTT
75329 AACTACCACA
Statistics
Matches: 346, Mismatches: 100, Indels: 59
0.69 0.20 0.12
Matches are distributed among these distances:
20 2 0.01
21 85 0.25
22 188 0.54
23 38 0.11
24 18 0.05
25 1 0.00
26 14 0.04
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (22 bp):
ATGAAATTTTGATAATCTCACT
Found at i:75585 original size:22 final size:22
Alignment explanation
Indices: 75561--75802 Score: 188
Period size: 22 Copynumber: 10.8 Consensus size: 22
75551 ATAAGCACAC
*
75561 TATGAAATTTTGATAATCTTCC-
1 TATGAAATTTTGATAA-CCTCCT
*
75583 TATGAAATTTT-ATAACCTCCA
1 TATGAAATTTTGATAACCTCCT
* * * *
75604 TAT-AAGATTTCGATAATCGCCC
1 TATGAA-ATTTTGATAACCTCCT
****
75626 TATGAAATTTTGATAACAAGAT
1 TATGAAATTTTGATAACCTCCT
75648 TATGAAATTTT-AGTAACCTCCT
1 TATGAAATTTTGA-TAACCTCCT
* * *
75670 TGTGAAATTTTGACAACCTTCCC
1 TATGAAATTTTGATAACC-TCCT
* **
75693 AATG-AATTTCAATAACCTCCT
1 TATGAAATTTTGATAACCTCCT
75714 TATGAAATTTTGATAACCTCCT
1 TATGAAATTTTGATAACCTCCT
*
75736 TATGAAAATTTTGATAACATCCT
1 TATG-AAATTTTGATAACCTCCT
*
75759 TATGAAATTTTATTTTAATAACCTCCT
1 TATG-AA----ATTTTGATAACCTCCT
*
75786 TATGAAAATTTGATAAC
1 TATGAAATTTTGATAAC
75803 AACCCATGGA
Statistics
Matches: 174, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
20 6 0.03
21 18 0.10
22 98 0.56
23 32 0.18
26 2 0.01
27 18 0.10
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTCCT
Found at i:75875 original size:22 final size:22
Alignment explanation
Indices: 75850--75931 Score: 98
Period size: 21 Copynumber: 3.8 Consensus size: 22
75840 AACATCCTAC
75850 CTATGAAATTTTGGTAACCACA
1 CTATGAAATTTTGGTAACCACA
*
75872 CTATAAAATTTTGAG-AACCACA
1 CTATGAAATTTTG-GTAACCACA
*
75894 CTAT-AAATTTTAGTAACCACA
1 CTATGAAATTTTGGTAACCACA
* *
75915 CAATG-AATTTTGATAAC
1 CTATGAAATTTTGGTAAC
75932 TTCCAAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.02
21 27 0.52
22 23 0.44
23 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (22 bp):
CTATGAAATTTTGGTAACCACA
Found at i:75875 original size:44 final size:43
Alignment explanation
Indices: 75820--75915 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 43
75810 GGAATTGTGA
* * *
75820 TAACTACACTATAAAATTTTAACATCCTAC-CTATGAAATTTTGG
1 TAACCACACTATAAAATTTTAACAACC-ACACTAT-AAATTTTAG
* *
75864 TAACCACACTATAAAATTTTGAGAACCACACTATAAATTTTAG
1 TAACCACACTATAAAATTTTAACAACCACACTATAAATTTTAG
75907 TAACCACAC
1 TAACCACAC
75916 AATGAATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 19 0.41
44 27 0.59
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (43 bp):
TAACCACACTATAAAATTTTAACAACCACACTATAAATTTTAG
Found at i:75903 original size:21 final size:23
Alignment explanation
Indices: 75812--75931 Score: 96
Period size: 22 Copynumber: 5.6 Consensus size: 23
75802 CAACCCATGG
* *
75812 AATTGTGA-TAACTACACTATAA
1 AATTTTGAGTAACCACACTATAA
** * *
75834 AATTTT-AACATCCTAC-CTATGA
1 AATTTTGAGTAACC-ACACTATAA
75856 AATTTTG-GTAACCACACTATAA
1 AATTTTGAGTAACCACACTATAA
75878 AATTTTGAG-AACCACACTAT-A
1 AATTTTGAGTAACCACACTATAA
* *
75899 AATTTT-AGTAACCACACAAT-G
1 AATTTTGAGTAACCACACTATAA
75920 AATTTTGA-TAAC
1 AATTTTGAGTAAC
75932 TTCCAAAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
20 2 0.03
21 30 0.38
22 45 0.56
23 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (23 bp):
AATTTTGAGTAACCACACTATAA
Done.