Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402213.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_530.0, 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: 4891
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.30
Warning! 913 characters in sequence are not A, C, G, or T
Found at i:503 original size:171 final size:168
Alignment explanation
Indices: 1--522 Score: 514
Period size: 170 Copynumber: 3.1 Consensus size: 168
** **
1 TAATAAGGCTTTTAAAGGAATGAATGACTATAAATAGACTTTTCTTGCTAATGAATGCCTTTTTT
1 TAATAAGGC-TTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGC-AATGAATAACTTTTTT
* * * * *
66 TCATATTTCTTAAAGTAAACATTCAAGTATTGTCTGTTTTAACTAAAAA-TGTAAAAACATTCAA
64 TCATATTTCTTAAAGTAGACATTCAATTATAGTCTATTTTAAC-AAAAATTGTAAAAAAATT-AA
* * **
130 A-TCAAAACCAATTATGAG-TGTATAAAACCATTTAAAGCGAG
127 ACTTAAAATCAATTATGAGAT-TATAAAATAATTTAAAGCGAG
* * * ********* *
171 TAATAAGGCTTTCAAAGGAATAGGTGACCATAAATGGACTTTTCTTNNNNNNNNNNAGCTTTTTT
1 TAATAAGGCTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTT-GCAATGAATAACTTTTTT
* * * * * * *
236 GCATGTTTCTCAAAGCAGGCATTCAATTATAGTCTAATTTAATC-AAAATT-TAAAAAAAATTTA
64 TCATATTTCTTAAAGTAGACATTCAATTATAGTCTATTTTAA-CAAAAATTGT-AAAAAAATTAA
* *
299 ACTTAAAATCAATTTTGAGATTTTAAAATAATTTAAAGCGAG
127 ACTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCGAG
*
341 TAATAAGGCTTCTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGGCAATGAATAATTTATTT
1 TAATAAGGCTT-TAAAGGAATGGGTGACTATAAATAGACTTTTCTT-GCAATGAATAACTT-TTT
* * * * *
406 TTCACATTTCTTGATGTAGACATTCGATTATAGTCTATTTTAGCAAAAATTGTAAAAAAATTAAA
63 TTCATATTTCTTAAAGTAGACATTCAATTATAGTCTATTTTAACAAAAATTGTAAAAAAATTAAA
* *
471 CTTAAAATTAATTATGCGATTATAAAATAATTTAAAGCGAG
128 CTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCGAG
512 TAATAAGGCTT
1 TAATAAGGCTT
523 NNNNNNNNNN
Statistics
Matches: 276, Mismatches: 65, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
169 10 0.04
170 162 0.59
171 103 0.37
172 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.35
Consensus pattern (168 bp):
TAATAAGGCTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCAATGAATAACTTTTTTTC
ATATTTCTTAAAGTAGACATTCAATTATAGTCTATTTTAACAAAAATTGTAAAAAAATTAAACTT
AAAATCAATTATGAGATTATAAAATAATTTAAAGCGAG
Found at i:1104 original size:49 final size:49
Alignment explanation
Indices: 1014--1119 Score: 153
Period size: 49 Copynumber: 2.2 Consensus size: 49
1004 AGGTAGACAT
*
1014 TCAATTATAGTCTGTTTTAACAAAAACTGAAAAAAAGTTTAACTTAAAA
1 TCAATTATAGTCTGTTTAAACAAAAACTGAAAAAAAGTTTAACTTAAAA
* *
1063 TCAATTATAGTCTGTTTAAATAATAAA-TGTACAAAAA-TTTAACTTAAAA
1 TCAATTATAGTCTGTTTAAACAA-AAACTG-AAAAAAAGTTTAACTTAAAA
1112 TCAATTAT
1 TCAATTAT
1120 GAGATTATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
49 43 0.83
50 9 0.17
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (49 bp):
TCAATTATAGTCTGTTTAAACAAAAACTGAAAAAAAGTTTAACTTAAAA
Found at i:2136 original size:342 final size:340
Alignment explanation
Indices: 1061--2703 Score: 1221
Period size: 340 Copynumber: 4.8 Consensus size: 340
1051 TTTAACTTAA
* * * * * * *
1061 AATCAATTATAGTCTGTTTAAATAATAAATGTACAAAAATTTAACTTAAAATCAATTATGAGATT
1 AATCAATTATAGTCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATT
** * * **********
1126 ATAAAATAATTTAAAATGGGTAATAAGGCTTTTGAAGGAATGAGTGACTNNNNNNNNNNTTTTTT
66 ATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACT-ATAAATAGACTTTTT
* ** * * * *
1191 TTCTCAATGAAT-GAATTTTTTTACATGTTTCTGAGGGCAGGCATTCAATTATAGTTTGTTTTAA
130 TTCTCAATGAATAG-CTTTTTTTACACATTTCTCAAGGCAAGCATTCAATTATAGTCTGTTTTAA
* * * * * * *
1255 CCATAAATGTAAAAAAATTCAGCTCAAAATCAATTTTGGGATTATAAAACAATTTAAAGCGAGTA
194 CAAAAAAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTA
********** *
1320 ATNNNNNNNNNNAAGGAAT-GAGTGACTATAAATGGACTTTTCTTGC-CAATGAATGGCTTTTTT
258 ATAAGGCTTTTGAAGGAATAG-GTGACTATAAATGGACTTTTCTT-CTCAATGAATAGCTTTTTT
* ** *
1383 T-CAGGTTTCTTGAGGTAAAC
321 TGCATGTTTCTCAAGGT-AGC
* * ********** * *
1403 ATTCAATTATTGTCTGNNNNNNNNNNAAATAT-AAAAAATTTAACTTAAAATCAATTATTAGATT
1 AATCAATTATAGTCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATT
* * * * * * *
1467 AAAAAATAATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGGCTATAACTGGACTTTTCT
66 ATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTT
* * * *
1532 TCTCAATGAATAGCTTTTTTT-CACGTTTCTCAAGGTAGGCATTCAATTATAATCTGTTTTAACA
131 TCTCAATGAATAGCTTTTTTTACACATTTCTCAAGGCAAGCATTCAATTATAGTCTGTTTTAACA
* * * ***********
1596 AGAAATGTTAAAAAAA-TCAACTTAAAATGAATTATGAGATTATAAAACAATTTNNNNNNNNNNN
196 A-AAA-ATAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTAA
********** * *
1660 NNNNNNNNNCGAAGGACTAGGTGACTATAAATGGACTTTTCTTCTCAATGAATAGCTTTTTCTGC
259 TAAGGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATAGCTTTTTTTGC
1725 ATGTTTCTCAAGGTAGAC
324 ATGTTTCTCAAGGTAG-C
* * *
1743 ATTCAAATATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATT
1 AATCAATTATAGTCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATT
*
1808 ATAAAATAATTTAAGGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTT
66 ATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTT
* * * ** * * * *
1873 TCTCAATGAGTAGCCTTTTTGTGCATGTTTCTCAAGGCAGGCATTCAATTATAGCCTATTTTAAT
131 TCTCAATGAATAG-CTTTTTTTACACATTTCTCAAGGCAAGCATTCAATTATAGTCTGTTTTAAC
*
1938 AAAAAATAAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACAATTTAAAGCGAGTAAT
195 AAAAAATAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTAAT
** * * * * * * *
2003 AAGATTTTTGAAGAAATTGATGACTATAAATGGATTTTTTTTCTCAATGAGTAGGTTTTTTTGCA
260 AAGGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATAGCTTTTTTTGCA
*
2068 TGTTTCTCAAGGCATGC
325 TGTTTCTCAAGGTA-GC
* * ** *
2085 AATCACTTATAGTCTGTTGTAACAAAAAATATGAAAAAAA-TCATTTTAAAATCAATTATGAGAT
1 AATCAATTATAGTCTGTTTTAACAAAAAATAT-AAAAAAATTCAACTTAAAATCAATTATAAGAT
* * * * *
2149 TATAAAACAATTTAAAGTGAGTAATAAGTCCTTTGAAGGAATGGGTGGCTATAAAT-GAACTTTT
65 TATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTT
* * * * * * *
2213 TTCCTCAATAAAT-GGTTTTTTTACATATTTCTCGATGCAAGCATTCGATTATAGTCT-TTTTAA
129 TTTCTCAATGAATAGCTTTTTTTACACATTTCTCAAGGCAAGCATTCAATTATAGTCTGTTTTAA
* * * * * * * * * *
2276 CCATAAATGCAAAAAAATTCAACTTAAAATAAATTTTCAGATTAGAAAATAATATAAAGCTAGTA
194 CAAAAAAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTA
* * * ********** *
2341 ACAAGGCTTTTAAAGGAATGGGTGACTATAANNNNNNNNNNCTTCCCAATGAAT-GCCTTTTTCT
258 ATAAGGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATAG-CTTTTT-T
2405 T-CATGTTT-TCTAAGGTAG-
321 TGCATGTTTCTC-AAGGTAGC
* * * *********
2423 ATATTTAATTATTA-TCTGTTTTAACTAAAAATTTAAAAAAATTCAACTTAAAATCNNNNNNNNN
1 A-A-TCAATTA-TAGTCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAG
* * * * *
2487 NTTATAAAATAATTTAAAACGAGTAATAAGGCTTTTGAAGGAGTGGGTGACTGTAAATAGAATTG
63 ATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTT-
* * * * *
2552 TTTTTCCCAATCAGTAGCTTTTTTTACACATTTCTCAAGGTAAGCATTGAATTATAGTCTGTTTT
127 TTTTTCTCAATGAATAGCTTTTTTTACACATTTCTCAAGGCAAGCATTCAATTATAGTCTGTTTT
* * * * * *
2617 AATAAAAAATATATAAAAATTCAACTTAAAATCAATTACGAGATTATTAAATAATTTAAAGTGAG
192 AACAAAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAG
*
2682 TAATAAGGCTTTTGAAAGAATA
256 TAATAAGGCTTTTGAAGGAATA
2704 NNNNNNNNNN
Statistics
Matches: 1027, Mismatches: 247, Indels: 53
0.77 0.19 0.04
Matches are distributed among these distances:
338 2 0.00
339 146 0.14
340 285 0.28
341 200 0.19
342 276 0.27
343 118 0.11
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.35
Consensus pattern (340 bp):
AATCAATTATAGTCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATT
ATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTT
TCTCAATGAATAGCTTTTTTTACACATTTCTCAAGGCAAGCATTCAATTATAGTCTGTTTTAACA
AAAAATAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTAATA
AGGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATAGCTTTTTTTGCAT
GTTTCTCAAGGTAGC
Found at i:2462 original size:512 final size:510
Alignment explanation
Indices: 1429--2703 Score: 1232
Period size: 512 Copynumber: 2.5 Consensus size: 510
1419 NNNNNNNNNN
* * * *
1429 AAATATAAAAAATTTAACTTAAAATCAATTATTAGATTAAAAAATAATTTAAAGTGAGTAATAAG
1 AAATA-AAAAAATTCAACTTAAAATCAATTATAAGATTATAAAATAATTTAAAGCGAGTAATAAG
* * * * *
1494 GCTTTTGAAGAAATGGGTGGCTATAACTGGACTTTTCTTCTCAATGAATAGCTTTTTTTCACGTT
65 GCTTTTGAAGAAATGGGTGACTATAAATGGATTTTTTTTCTCAATGAGTAGCTTTTTTTCACGTT
* * * *
1559 TCTCAAGGTAGGCATTCAATTATAATCTGTTTTAACAAGAAATGTTAAAAAAATCAACTTAAAAT
130 TCTCAAGGTAAGCATTCAATTATAGTCTGTTTTAACAAAAAAT-ATAAAAAAATCAACTTAAAAT
* ********************* *
1624 GAATTATGAGATTATAAAACAATTTNNNNNNNNNNNNNNNNNNNNCGAAGGACTAGGTGACTATA
194 CAATTATGAGATTATAAAACAATTTAAAGTGAGTAATAAGGCCTTTGAAGGAATAGGTGACTATA
* * * * **
1689 AATGGACTTTTCTTCTCAATGAATAGCTTTTTCTGCATGTTTCTCAAGGTAGACATTCAAATATA
259 AATGAACTTTTCTTCTCAATAAATAGCTTTTTCTACATATTTCTCAAGCAAGACATTCAAATATA
* * * * *
1754 GTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAATAATT
324 GTCTGTTTTAACAAAAAATACAAAAAAATTCAACTTAAAATAAATTATAAGATTAGAAAATAATA
* * * * * *
1819 TAAGGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTTTCTCAATGAGT
389 TAAAGCGAGTAACAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTCCCAATGAAT
* *
1884 AGCCTTTTTGTGCATGTTTCTCAAGGCAGGCATTCAATTATAGCCTATTTTAATAAA
454 AGCCTTTTTCTGCATGTTTCTCAAGGCAGACATTCAATTATAGCCTATTTTAATAAA
*
1941 AAATAAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACAATTTAAAGCGAGTAATAAG
1 AAAT-AAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAATAATTTAAAGCGAGTAATAAG
** * * * *
2006 ATTTTTGAAGAAATTGATGACTATAAATGGATTTTTTTTCTCAATGAGTAGGTTTTTTTGCATGT
65 GCTTTTGAAGAAATGGGTGACTATAAATGGATTTTTTTTCTCAATGAGTAGCTTTTTTT-CACGT
* * * * * **
2071 TTCTCAAGGCATGCAATCACTTATAGTCTGTTGTAACAAAAAATATGAAAAAAATCATTTTAAAA
129 TTCTCAAGGTAAGCATTCAATTATAGTCTGTTTTAACAAAAAATAT-AAAAAAATCAACTTAAAA
* * *
2136 TCAATTATGAGATTATAAAACAATTTAAAGTGAGTAATAAGTCCTTTGAAGGAATGGGTGGCTAT
193 TCAATTATGAGATTATAAAACAATTTAAAGTGAGTAATAAGGCCTTTGAAGGAATAGGTGACTAT
* * * * *
2201 AAATGAACTTTT-TTCCTCAATAAAT-GGTTTTTTTACATATTTCTCGATGCAAG-CATTCGATT
258 AAATGAACTTTTCTT-CTCAATAAATAGCTTTTTCTACATATTTCTC-AAGCAAGACATTCAAAT
* * * * *
2263 ATAGTCT-TTTTAACCATAAATGCAAAAAAATTCAACTTAAAATAAATTTTCAGATTAGAAAATA
321 ATAGTCTGTTTTAACAAAAAATACAAAAAAATTCAACTTAAAATAAATTATAAGATTAGAAAATA
* **********
2327 ATATAAAGCTAGTAACAAGGCTTTTAAAGGAATGGGTGACTATAANNNNNNNNNNCTTCCCAATG
386 ATATAAAGCGAGTAACAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTCCCAATG
* * * * * *
2392 AAT-GCCTTTTTCTTCATGTTT-TCTAAGGTAGATATTTAATTATTA-TCTGTTTTAACTAAA
451 AATAGCCTTTTTCTGCATGTTTCTC-AAGGCAGACATTCAATTA-TAGCCTATTTTAA-TAAA
* ********** *
2452 AATTTAAAAAAATTCAACTTAAAATCNNNNNNNNNNTTATAAAATAATTTAAAACGAGTAATAAG
1 AA-ATAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAATAATTTAAAGCGAGTAATAAG
* * * * * * * *
2517 GCTTTTGAAGGAGTGGGTGACTGTAAATAGAATTGTTTTTCCCAATCAGTAGCTTTTTTTACACA
65 GCTTTTGAAGAAATGGGTGACTATAAAT-GGATTTTTTTTCTCAATGAGTAGCTTTTTTT-CACG
* * *
2582 TTTCTCAAGGTAAGCATTGAATTATAGTCTGTTTTAATAAAAAATATATAAAAATTCAACTTAAA
128 TTTCTCAAGGTAAGCATTCAATTATAGTCTGTTTTAACAAAAAATATA-AAAAAATCAACTTAAA
* * * * *
2647 ATCAATTACGAGATTATTAAATAATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATA
192 ATCAATTATGAGATTATAAAACAATTTAAAGTGAGTAATAAGGCCTTTGAAGGAATA
2704 NNNNNNNNNN
Statistics
Matches: 610, Mismatches: 142, Indels: 22
0.79 0.18 0.03
Matches are distributed among these distances:
509 2 0.00
510 38 0.06
511 176 0.29
512 272 0.45
513 122 0.20
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.35
Consensus pattern (510 bp):
AAATAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAATAATTTAAAGCGAGTAATAAGG
CTTTTGAAGAAATGGGTGACTATAAATGGATTTTTTTTCTCAATGAGTAGCTTTTTTTCACGTTT
CTCAAGGTAAGCATTCAATTATAGTCTGTTTTAACAAAAAATATAAAAAAATCAACTTAAAATCA
ATTATGAGATTATAAAACAATTTAAAGTGAGTAATAAGGCCTTTGAAGGAATAGGTGACTATAAA
TGAACTTTTCTTCTCAATAAATAGCTTTTTCTACATATTTCTCAAGCAAGACATTCAAATATAGT
CTGTTTTAACAAAAAATACAAAAAAATTCAACTTAAAATAAATTATAAGATTAGAAAATAATATA
AAGCGAGTAACAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTCCCAATGAATAG
CCTTTTTCTGCATGTTTCTCAAGGCAGACATTCAATTATAGCCTATTTTAATAAA
Found at i:2671 original size:172 final size:170
Alignment explanation
Indices: 1063--2702 Score: 1071
Period size: 171 Copynumber: 9.6 Consensus size: 170
1053 TAACTTAAAA
* * * * * *
1063 TCAATTATAGTCTGTTTAAATAATAAATGTACAAAAATTTAACTTAAAATCAATTATGAGATTAT
1 TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
** * * *********
1128 AAAATAATTTAAAATGGGTAATAAGGCTTTTGAAGGAATGAGTGACTNNNNNNNNNNTTTTTTTT
66 AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACT--ATAAATGAATTTTTTT
* * * * * *
1193 CTCAATGAAT-GAATTTTTTTACATGTTTCTGAGGGCAGGCAT
129 CCCAATGAGTAG-CTTTTTTTACATGTTTCTCAAGGCAAGCAT
* ** * * * * * **
1235 TCAATTATAGTTTGTTTTAACCATAAATGTAAAAAAATTCAGCTCAAAATCAATTTTGGGATTAT
1 TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
* ********** * * * *
1300 AAAACAATTTAAAGCGAGTAATNNNNNNNNNNAAGGAATGAGTGACTATAAATGGACTTTTCTTG
66 AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAATTTTTTTC
* * * ** * *
1365 CCAATGAATGGCTTTTTTT-CAGGTTTCTTGAGGTAAACAT
130 CCAATGAGTAGCTTTTTTTACATGTTTCTCAAGGCAAGCAT
* ********** * * *
1405 TCAATTATTGTCTGNNNNNNNNNNAAATAT-AAAAAATTTAACTTAAAATCAATTATTAGATTAA
1 TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
* * * * * *
1469 AAAATAATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGGCTATAACTGGACTTTTCTTC
66 AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAATTTTTTTC
* * * * *
1534 TCAATGAATAGCTTTTTTT-CACGTTTCTCAAGGTAGGCAT
130 CCAATGAGTAGCTTTTTTTACATGTTTCTCAAGGCAAGCAT
* * * * * *
1574 TCAATTATAATCTGTTTTAACAAGAAATGTTAAAAAAA-TCAACTTAAAATGAATTATGAGATTA
1 TCAATTATAGTCTGTTTTAATAAAAAAT-ATAAAAAAATTCAACTTAAAATCAATTATAAGATTA
* ********************* * * * *
1638 TAAAACAATTTNNNNNNNNNNNNNNNNNNNNCGAAGGACTAGGTGACTATAAATGGACTTTTCTT
65 TAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAATTTTTTT
* * * * *
1703 CTCAATGAATAGCTTTTTCTGCATGTTTCTCAAGG-TAGACAT
129 CCCAATGAGTAGCTTTTTTTACATGTTTCTCAAGGCAAG-CAT
*
1745 TCAAATATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
1 TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
* *
1810 AAAATAATTTAAGGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTTTC
66 AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAATTTTTTTC
* * * *
1875 TCAATGAGTAGCCTTTTTGTGCATGTTTCTCAAGGCAGGCAT
130 CCAATGAGTAG-CTTTTTTTACATGTTTCTCAAGGCAAGCAT
* *
1917 TCAATTATAGCCTATTTTAATAAAAAATA-AAAAAAATTCAACTTAAAATCAATTATAAGATTAT
1 TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
* ** * * * *
1981 AAAACAATTTAAAGCGAGTAATAAGATTTTTGAAGAAATTGATGACTATAAATGGATTTTTTTTC
66 AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAATTTTTTTC
* * * * *
2046 TCAATGAGTAGGTTTTTTTGCATGTTTCTCAAGGCATGCAA
130 CCAATGAGTAGCTTTTTTTACATGTTTCTCAAGGCAAGCAT
* * * ** *
2087 TCACTTATAGTCTGTTGTAACAAAAAATATGAAAAAAA-TCATTTTAAAATCAATTATGAGATTA
1 TCAATTATAGTCTGTTTTAATAAAAAATAT-AAAAAAATTCAACTTAAAATCAATTATAAGATTA
* * * * * *
2151 TAAAACAATTTAAAGTGAGTAATAAGTCCTTTGAAGGAATGGGTGGCTATAAATGAACTTTTTTC
65 TAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAATTTTTTTC
* * * * * *
2216 CTCAATAAAT-GGTTTTTTTACATATTTCTCGATGCAAGCAT
130 C-CAATGAGTAGCTTTTTTTACATGTTTCTCAAGGCAAGCAT
* ** * ** * * * *
2257 TCGATTATAGTCT-TTTTAACCATAAATGCAAAAAAATTCAACTTAAAATAAATTTTCAGATTAG
1 TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
* * * * **********
2321 AAAATAATATAAAGCTAGTAACAAGGCTTTTAAAGGAATGGGTGACTATAANNNNNNNNNNCTTC
66 AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAA-ATGAATTTTTTTC
* * *
2386 CCAATGAAT-GCCTTTTTCTT-CATGTTT-TCTAAGG-TAGATAT
130 CCAATGAGTAG-CTTTTT-TTACATGTTTCTC-AAGGCAAG-CAT
* * **********
2427 TTAATTATTA-TCTGTTTTAACT-AAAAATTTAAAAAAATTCAACTTAAAATCNNNNNNNNNNTT
1 TCAATTA-TAGTCTGTTTTAA-TAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATT
* * *
2490 ATAAAATAATTTAAAACGAGTAATAAGGCTTTTGAAGGAGTGGGTGACTGTAAATAGAATTGTTT
64 ATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAATT-TTT
* ** *
2555 TTCCCAATCAGTAGCTTTTTTTACACATTTCTCAAGGTAAGCAT
127 TTCCCAATGAGTAGCTTTTTTTACATGTTTCTCAAGGCAAGCAT
* * **
2599 TGAATTATAGTCTGTTTTAATAAAAAATATATAAAAATTCAACTTAAAATCAATTACGAGATTAT
1 TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
* * *
2664 TAAATAATTTAAAGTGAGTAATAAGGCTTTTGAAAGAAT
66 AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
2703 ANNNNNNNNN
Statistics
Matches: 1125, Mismatches: 314, Indels: 58
0.75 0.21 0.04
Matches are distributed among these distances:
168 7 0.01
169 210 0.19
170 242 0.22
171 405 0.36
172 255 0.23
173 6 0.01
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.35
Consensus pattern (170 bp):
TCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTAT
AAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAATTTTTTTCC
CAATGAGTAGCTTTTTTTACATGTTTCTCAAGGCAAGCAT
Done.