Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398044.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1352.0, 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: 8609
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.25
Warning! 2506 characters in sequence are not A, C, G, or T
Found at i:1110 original size:170 final size:168
Alignment explanation
Indices: 509--1116 Score: 517
Period size: 164 Copynumber: 3.6 Consensus size: 168
499 TCATAAAGCT
* * * * * *
509 GACAATCAATTATAATCTATTCTAATAAAAAA-ACATAAAAAATTC-AACTTAAAATTAATTATG
1 GACATTCAATTA-AATCTGTTTTAACAAAAAATATA-AAAAAATTCAAAC-TAAAATCAATTATG
* * * * ***
572 AGATTATAAAATCATTTCAAGCGAGCAATAAGGCTTTTAAAGGAATGAAAGACTATAAAT-AGAC
63 AGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAA-GAATGTGTGACTATAAATGA-AC
* * * *
636 TTTTCTTGCCAATGAA-AGTCTTTTTCTTCATGTTTATTGAAGTA
126 TTTTCTTGCCAATGAATA-CCTTTTTCTTCATGTTTCTAG-GGTA
* * * * * * * * * * *
680 GGCATTCAGTAATAATCTGTTTGACCCAAAAATGTACAAAGAATTCAAACTAAAATTAATTTTGT
1 GACATTCAATTA-AATCTGTTTTAACAAAAAATATA-AAAAAATTCAAACTAAAATCAATTATGA
* * * *
745 GATTACAAAACCATTT------A--AATAAGGCTCTTAAAGAAATGTGTGACTGTAAGTGGACAT
64 GATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAG-AATGTGTGACTATAAATGAAC-T
* * * * * *
802 ATT-TTGCTAATGAATGCATTTTTCTTCAAGTTTCTCAAGGTA
127 TTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCT-AGGGTA
* * *
844 GACATTCAATTATAA-CATGTTTTAACAAAAAATATGCAAAGAATTCAAACTAAAATCAATTTTG
1 GACATTCAATTA-AATC-TGTTTTAACAAAAAATAT-AAAAAAATTCAAACTAAAATCAATTATG
* *
908 AGATTAAAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAATGAATGTGTGA-TATAAATGAACT
63 AGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAA-GAATGTGTGACTATAAATGAACT
*
972 TTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCCTAGGGCA
127 TTTCTTGCCAATGAATACCTTTTTCTTCATGTTT-CTAGGGTA
* * * *
1015 AACATTCAATTAAATTCTGTTTTAACTAAAAATATAAAAAAATTTAATCTAAAATCAATTATGAG
1 GACATTCAATTAAA-TCTGTTTTAACAAAAAATATAAAAAAATTCAAACTAAAATCAATTATGAG
1080 ATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTA
65 ATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTA
1117 NNNNNNNNNN
Statistics
Matches: 349, Mismatches: 66, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
163 2 0.01
164 123 0.35
165 3 0.01
166 1 0.00
170 66 0.19
171 88 0.25
172 62 0.18
173 4 0.01
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (168 bp):
GACATTCAATTAAATCTGTTTTAACAAAAAATATAAAAAAATTCAAACTAAAATCAATTATGAGA
TTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGAATGTGTGACTATAAATGAACTTTTC
TTGCCAATGAATACCTTTTTCTTCATGTTTCTAGGGTA
Found at i:3222 original size:171 final size:172
Alignment explanation
Indices: 3081--4254 Score: 576
Period size: 171 Copynumber: 6.9 Consensus size: 172
3071 NNNNNNNNNN
* * ** *
3081 TTAAAGGAATGGGTGACTATAAATGAACTTTTCTTGTTAATGAATGCCTTTTTCTTCATGTTTCT
1 TTAAAGGAATAGGTGACTATAAATGAACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTCT
* ** * * * ** *
3146 CATGATAGGCATTCAATTGTAATATGTTTTTACAAAAAATGTATAAAGAATTTGACTTAAAATC-
66 CAAGATAAACATTCAATTATAATATGTTTTAACAAAAAATGTACAAAGAATTCAAATTAAAATCA
3210 ATTTTAAGATTATAAAACTATTTAGAGCAAGTAATAAGGCTT
131 ATTTTAAGATTATAAAACTATTTAGAGCAAGTAATAAGGCTT
* * *
3252 TTGAAGGAATATGTGACTATAAATGGACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTCT
1 TTAAAGGAATAGGTGACTATAAATGAACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTCT
* * * * *
3317 CAAGGTAAACATTCAATTATAGTTTGTTTTAACTAGAAATGTACAAAGAATTCAAATTAAAATCA
66 CAAGATAAACATTCAATTATAATATGTTTTAACAAAAAATGTACAAAGAATTCAAATTAAAATCA
* * **
3382 ATTTTTAGATTATAAAACCT-TTTAAAGTGAGTAATAAGGCTT
131 ATTTTAAGATTATAAAA-CTATTTAGAGCAAGTAATAAGGCTT
********** * * * *
3424 TTAAAGNNNNNNNNNNCTATAAAT-AGACTTTTCTTGCCAATGAATACCTTTTTCTTCAAGTTTC
1 TTAAAGGAATAGGTGACTATAAATGA-ACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTC
** ** * * * * * *
3488 TTGAGGGAGATATTCAATTATAATCTGTTTTGACCAAAAAA-ATA-AAA-AACTTCAAGTTAAAA
65 TCAAGATAAACATTCAATTATAATATGTTTT-AACAAAAAATGTACAAAGAA-TTCAAATTAAAA
* * * * * *** * *
3550 TCAATTATGAGATTATGGAACCT-TTTAAAATGAGTAAGAAAGCTT
128 TCAATTTTAAGATTAT-AAAACTATTTAGAGCAAGTAATAAGGCTT
* * * * * *
3595 TTAAAGGAATGGGTGACTATAAATGAACTTTTCTTGCTAATGGATACCTTTTTCTTCATGTTTCT
1 TTAAAGGAATAGGTGACTATAAATGAACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTCT
* ********** * * * * * *
3660 TAATG-TNNNNNNNNNNTTATAATCTGTTTTAATAAAAAATATA-AAA-AAATGAACTTAAAATC
66 CAA-GATAAACATTCAATTATAATATGTTTTAACAAAAAATGTACAAAGAATTCAAATTAAAATC
* * * * ** **
3722 AATTTTGAGATTAGAAAACTATATATAGGGAGTAATAATTCTT
130 AATTTTAAGATTATAAAACTATTTAGAGCAAGTAATAAGGCTT
* * * * ********** * * * *
3765 TTGATGGAATGGGTGACTATAAATGGANNNNNNNNNNCAATGAATACCTTTTTCTTCGTGTTTCC
1 TTAAAGGAATAGGTGACTATAAATGAACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTCT
* ** * * * * **
3830 CAAGGTTGATATTCAATTATAATCTGTTATAATC-AAAAATGTA-AAAAAATTCAACCTAAAATC
66 CAAGATAAACATTCAATTATAATATGTTTTAA-CAAAAAATGTACAAAGAATTCAAATTAAAATC
* ** *********** *
3893 AATTATGGGATTATAAAACTATTTCNNNNNNNNNNTAAGACTT
130 AATTTTAAGATTATAAAACTATTTAGAGCAAGTAATAAGGCTT
* * * *
3936 TTAAAGGAAT-GAGTGACTATAAATGGACTTTTCTTGCCAATGAAAGTCTTT-TACTTCATGTTT
1 TTAAAGGAATAG-GTGACTATAAATGAACTTTGCTTGCCAATGAATGCCTTTCT-CTTCATGTTT
* * * * * * * * *
3999 TTTAAGGTAAACATTCAATTATAATCTGTTTTACCTAAAAATGTAAAAAGAATTCAAACTACAAT
64 CTCAAGATAAACATTCAATTATAATATGTTTTAACAAAAAATGTACAAAGAATTCAAATTAAAAT
* *
4064 CAATTTTGAGATTATAAAACTATTT--A--AA-T-A-AA-GCTC
129 CAATTTTAAGATTATAAAACTATTTAGAGCAAGTAATAAGGCTT
* * ** * * * * *
4100 TTAAAGGAAT-GTGTGACTGTAAATGGACTTTTTTTTGCTAATGAATGCATTTTTCTTAAGGTTT
1 TTAAAGGAATAG-GTGACTATAAATGAAC-TTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTT
* * ** * * *
4164 CTCAAGGTAGACATTCAATTATAAGCTGTTTTAACCAAAAATATACAAAGAATTCAAACTAAAAT
64 CTCAAGATAAACATTCAATTATAATATGTTTTAACAAAAAATGTACAAAGAATTCAAATTAAAAT
* * * *
4229 CCATTTTGAGATTAGAAAACCATTTA
129 CAATTTTAAGATTATAAAACTATTTA
4255 AAGTGAGTNN
Statistics
Matches: 773, Mismatches: 210, Indels: 45
0.75 0.20 0.04
Matches are distributed among these distances:
164 28 0.04
165 106 0.14
166 1 0.00
169 5 0.01
170 127 0.16
171 347 0.45
172 151 0.20
173 8 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.36
Consensus pattern (172 bp):
TTAAAGGAATAGGTGACTATAAATGAACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTCT
CAAGATAAACATTCAATTATAATATGTTTTAACAAAAAATGTACAAAGAATTCAAATTAAAATCA
ATTTTAAGATTATAAAACTATTTAGAGCAAGTAATAAGGCTT
Found at i:3505 original size:172 final size:161
Alignment explanation
Indices: 3268--3600 Score: 326
Period size: 172 Copynumber: 2.0 Consensus size: 161
3258 GAATATGTGA
* * * *
3268 CTATAAATGGACTTTGCTTGCCAATGAATGCCTTTCTCTTCATGTTTCTCAAGGTAAACATTCAA
1 CTATAAATAGACTTTGCTTGCCAATGAATACCTTTCTCTTCAAGTTTCTCAAGGGAAACATTCAA
* * * * ** * *
3333 TTATAGTTTGTTTTAACTAGAAATGTACAAAGAA-TTCAAATTAAAATCAATTTTTAGATTATAA
66 TTATAATCTGTTTTAACCAAAAAAATA-AAA-AACTTCAAATTAAAATCAATTATGAGATTATAA
* * *
3397 AACCTTTTAAAGTGAGTAATAAGGCTTTTAAAG
129 AACCTTTTAAAATGAGTAAGAAAGCTTTTAAAG
* * **
3430 NNNNNNNNNNCTATAAATAGACTTTTCTTGCCAATGAATACCTTTTTCTTCAAGTTTCTTGAGGG
1 ----------CTATAAATAGACTTTGCTTGCCAATGAATACCTTTCTCTTCAAGTTTCTCAAGGG
* * * *
3495 AGATATTCAATTATAATCTGTTTTGACCAAAAAAATAAAAAACTTCAAGTTAAAATCAATTATGA
56 AAACATTCAATTATAATCTGTTTTAACCAAAAAAATAAAAAACTTCAAATTAAAATCAATTATGA
**
3560 GATTATGGAACCTTTTAAAATGAGTAAGAAAGCTTTTAAAG
121 GATTATAAAACCTTTTAAAATGAGTAAGAAAGCTTTTAAAG
3601 GAATGGGTGA
Statistics
Matches: 135, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
170 2 0.01
171 58 0.43
172 75 0.56
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (161 bp):
CTATAAATAGACTTTGCTTGCCAATGAATACCTTTCTCTTCAAGTTTCTCAAGGGAAACATTCAA
TTATAATCTGTTTTAACCAAAAAAATAAAAAACTTCAAATTAAAATCAATTATGAGATTATAAAA
CCTTTTAAAATGAGTAAGAAAGCTTTTAAAG
Found at i:4218 original size:165 final size:164
Alignment explanation
Indices: 3936--4256 Score: 439
Period size: 165 Copynumber: 2.0 Consensus size: 164
3926 NNTAAGACTT
* * *
3936 TTAAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAAAGTCTTTTACTTCATGTTTTT
1 TTAAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAAAGTCTTTTACTTAAGGTTTCT
* * * *
4001 TAAGGTAAACATTCAATTATAATCTGTTTTACCTAAAAATGTAAAAAGAATTCAAACTACAATCA
66 CAAGGTAAACATTCAATTATAAGCTGTTTTACCTAAAAATATAAAAAGAATTCAAACTAAAATCA
* *
4066 ATTTTGAGATTATAAAACTATTTAAATAAAGCTC
131 ATTTTGAGATTAGAAAACCATTTAAATAAAGCTC
* * * * * *
4100 TTAAAGGAATGTGTGACTGTAAATGGACTTTTTTTTGCTAATGAATG-CATTTTTCTTAAGGTTT
1 TTAAAGGAATGAGTGACTATAAATGGAC-TTTTCTTGCCAATGAAAGTC-TTTTACTTAAGGTTT
* *
4164 CTCAAGGTAGACATTCAATTATAAGCTGTTTTAACC-AAAAATATACAAAGAATTCAAACTAAAA
64 CTCAAGGTAAACATTCAATTATAAGCTGTTTT-ACCTAAAAATATAAAAAGAATTCAAACTAAAA
*
4228 TCCATTTTGAGATTAGAAAACCATTTAAA
128 TCAATTTTGAGATTAGAAAACCATTTAAA
4257 GTGAGTNNNN
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
164 27 0.20
165 106 0.78
166 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (164 bp):
TTAAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAAAGTCTTTTACTTAAGGTTTCT
CAAGGTAAACATTCAATTATAAGCTGTTTTACCTAAAAATATAAAAAGAATTCAAACTAAAATCA
ATTTTGAGATTAGAAAACCATTTAAATAAAGCTC
Found at i:4867 original size:171 final size:171
Alignment explanation
Indices: 4535--4947 Score: 428
Period size: 171 Copynumber: 2.4 Consensus size: 171
4525 NNNNNNNNNN
* * * *
4535 ACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAAATTAAA-TTAAAATCAATTTTCAA
1 ACATTAAATTATAATCTGTTTTAACAAAAAATGT-AAAAAAATTAAACTTAAAATCAATTTTGAG
* * * *
4599 ATTATAAAAGCATTTAAAGCAAGTAACAAGGCTTTTAAAGGTATGAGAGTCTATAAATTGACTTT
65 ATTATAAAAGCATTTAAAGCAAGTAACAAAGATTTTAAAGGAATGAGAGTCTATAAATGGACTTT
* * * * * *
4664 TCTTGCCAATGATTGTTTTCTTTTCCACGTTTCCTGAGGT-AG
130 TCTTGCCAATGAATATCTTCTTTTCCACGTTTCC-CAAGTCAA
* *
4706 ATATTAAATTATAATCTGTTTTAACAAAAAATGTGAAAAAATTAAACTTAAAATCAATTTTGAGA
1 ACATTAAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTAAACTTAAAATCAATTTTGAGA
** * *
4771 TTATAAAA-CATTTAAAGTGAGTAATAAAGATTTTGAAGGAAT-AG-GTGACTATAAATGGACCT
66 TTATAAAAGCATTTAAAGCAAGTAACAAAGATTTTAAAGGAATGAGAGT--CTATAAATGGA-CT
*
4833 TTT-TTAG-CAATGAATATCTT-TTTTCATGACGTTTCCCAAGTCAA
128 TTTCTT-GCCAATGAATATCTTCTTTTC--CACGTTTCCCAAGTCAA
* * * * * * * * *
4877 ACATTCAATTATAATATGCTCTAACAAAAAATGTAAAAAAACTCAGCCTAAAATCAATTATGAGA
1 ACATTAAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTAAACTTAAAATCAATTTTGAGA
4942 TTATAA
66 TTATAA
4948 NNNNNNNNNN
Statistics
Matches: 202, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
168 2 0.01
169 7 0.03
170 63 0.31
171 130 0.64
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (171 bp):
ACATTAAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTAAACTTAAAATCAATTTTGAGA
TTATAAAAGCATTTAAAGCAAGTAACAAAGATTTTAAAGGAATGAGAGTCTATAAATGGACTTTT
CTTGCCAATGAATATCTTCTTTTCCACGTTTCCCAAGTCAA
Found at i:7289 original size:171 final size:168
Alignment explanation
Indices: 6601--7971 Score: 809
Period size: 171 Copynumber: 8.0 Consensus size: 168
6591 NNNNNNNNNN
* * * * *
6601 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAAATTTTCTTGCCAATGAATATCTTTTTCCT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-AGACTTTCTTACCAATGAATACCTTTTTCTT
** ** * * *
6666 CACATTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGA-AAAAAACATTGAA
65 CATGTTTCCCAAGGTAAACATTCAATTATAATATGTTTTAAC-AAAAAT-ATAAAAAA-ATTCAA
* * * ******
6730 CTTAAAATTAATTTTGAGATTATAAAACCATTTAAAGCNNNNN
127 CCTAAAATCAATTATGAGATTATAAAA-CATTTAAAGTGAGTA
***** * * * * ** *
6773 NNNNNGTTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAACAAAAACCTTTTTTCT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGAC-TTTCTTACCAATGAATACC-TTTTTCT
*** * * * * * ******
6838 TCATGTTTCTTGAGGGAGACATTCAATTATATTCTGTTTTAACCAAAAATGTAAAAAAANNNNNN
64 TCATGTTTCCCAAGGTAAACATTCAATTATAATATGTTTTAA-CAAAAATATAAAAAAATTCAAC
****
6903 NNNNAATCAA-TATTGAGATTATAAAACCATTTAAAGTGAGTA
128 CTAAAATCAATTA-TGAGATTATAAAA-CATTTAAAGTGAGTA
* * * * * *
6945 ATAAGGATTTTGAAAGACTGGGTGACTATAAATGGACTTT-TTATGCCAATGAAAATCTTTTTTC
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTCTTA--CCAATGAATA-CCTTTTTC
* * * *
7009 TTC-TCGTTTCCTAAGG-AAGACATTCAATTCTAATATGTTCTAACTAAAAATGTAAAAAAATTC
63 TTCAT-GTTTCCCAAGGTAA-ACATTCAATTATAATATGTTTTAAC-AAAAATATAAAAAAATTC
* *********
7072 AACCTAAAATCTATTATGAGATTATAAAACNNNNNNNNNNGAGTA
125 AACCTAAAATCAATTATGAGATTATAAAAC-ATTTAAAGTGAGTA
* * *
7117 ATAAGGCTTTTGAAGGAATGGGTGACTATATATAGGCTTGTCTTACCAATGAATACCTTTTCCTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTT-TCTTACCAATGAATACCTTTTTCTT
** * * *
7182 CATGTTTCCCAAGGTCGACATTCAATTATAATCTGTTCTAACTAAAAATATAAAAGAATTCAACC
65 CATGTTTCCCAAGGTAAACATTCAATTATAATATGTTTTAAC-AAAAATATAAAAAAATTCAACC
* *
7247 TAAAACCAATTATGAGATTGTAAAATCATTTAAAGTGAGTA
129 TAAAATCAATTATGAGATTATAAAA-CATTTAAAGTGAGTA
* * * ********* *
7288 ATAAGGGTTTTAAAAGAATGGGTGACTATAAATAGACTTTNNNNNNNNNNGAATGCCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTT-CTTACCAATGAATACCTTTTTCTT
*** ** * * *
7353 CATGTTTCTTGAGGTAAATTTTCAATTATAATATGTTTTAACAAAAAATGTACAAAAAACTCAAA
65 CATGTTTCCCAAGGTAAACATTCAATTATAATATGTTTTAAC-AAAAATATA-AAAAAATTCAAC
* * * * *
7418 TTAAAATCAGTTTTGAGATTACAAAATCATTTAAAGTGAGTT
128 CTAAAATCAATTATGAGATTATAAAA-CATTTAAAGTGAGTA
** * ** * * * * *
7460 ATAAAACTTTTGAAGGAATTGGTGACTATGCATGGACTTTTCATGCTAATAAATACCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGAC-TTTCTTACCAATGAATACCTTTTTCTT
* * ** * * *
7525 CACGTTTCCCTAGAAAAACATTCAATTATAATTTGTTTTAACAAAAACTATAAAAAAATTTAATC
65 CATGTTTCCCAAGGTAAACATTCAATTATAATATGTTTTAACAAAAA-TATAAAAAAATTCAACC
********** **
7590 TAAAATCAATTATGAGATTATTANNNNNNNNNNAGCAAGTA
129 TAAAATCAATTATGAGATTA-TAAAACATTTAAAGTGAGTA
* * * * *
7631 ATAAGGCTTTTGAAGGAATGAGTGACTATAAATCGAATTTCTTTACCAATGAATGCCTTTATCTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTC-TTACCAATGAATACCTTTTTCTT
** * ******** *
7696 CATGTTTCTTAAGGTAGACATTCAATTATAATNNNNNNNNNNA-AAAAATATAAAAAAATTGAAC
65 CATGTTTCCCAAGGTAAACATTCAATTATAAT--ATGTTTTAACAAAAATATAAAAAAATTCAAC
* *
7760 TTAAAATCAAATT-TGAGATTATAAAAGCATTTAAAATGAGTA
128 CTAAAATC-AATTATGAGATTATAAAA-CATTTAAAGTGAGTA
* * * *
7802 ATAAGGCTTTTGAAGGAATGGGTGGCTATAAATAAACTTTTCTT-CCAAATGAATAGCTTTTTCC
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGAC-TTTCTTACC-AATGAATACCTTTTTCT
* * * * * * * * *
7866 ACACGTTTCCTC-AGGCAAGCTTTCAATTATAGTCTGTTTTAA-AGAAAATGTTAAAAAATTCAA
64 TCATGTTTCC-CAAGGTAAACATTCAATTATAATATGTTTTAACA-AAAATATAAAAAAATTCAA
* *
7929 CTTAAAATCAATTATGAGATTATAAAACTATTCAAAGTGAGTA
127 CCTAAAATCAATTATGAGATTATAAAAC-ATTTAAAGTGAGTA
7972 NNNNNNNNNN
Statistics
Matches: 895, Mismatches: 270, Indels: 70
0.72 0.22 0.06
Matches are distributed among these distances:
169 7 0.01
170 61 0.07
171 399 0.45
172 361 0.40
173 63 0.07
174 4 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.34
Consensus pattern (168 bp):
ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTCTTACCAATGAATACCTTTTTCTTC
ATGTTTCCCAAGGTAAACATTCAATTATAATATGTTTTAACAAAAATATAAAAAAATTCAACCTA
AAATCAATTATGAGATTATAAAACATTTAAAGTGAGTA
Found at i:8457 original size:16 final size:17
Alignment explanation
Indices: 8431--8468 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
8421 ACTAAAAATG
8431 TAAAAAAATTGA-ATT-
1 TAAAAAAATTGAGATTA
8446 TAAAATAAATTGAGATTA
1 TAAAA-AAATTGAGATTA
8464 TAAAA
1 TAAAA
8469 CTATTTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 7 0.35
17 3 0.15
18 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
TAAAAAAATTGAGATTA
Done.