Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1315
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: 8263
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Found at i:1001 original size:475 final size:471
Alignment explanation
Indices: 36--1450 Score: 1728
Period size: 474 Copynumber: 3.0 Consensus size: 471
26 CCTTAGACGA
* * * *
36 AAATGATATTGAA-GATTTTCTTCTACATGAAAATCTTTTCTTTGCCCTATTTCCTAAAAATCAA
1 AAATGATATT-AATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTCCTTAAAATCAA
* * * * * * * * * *
100 AATTCATCCCTTAAATAAGATAAGCATCGATTCCTAGAATAGTGTTCATTCAATTCAGGATTGGG
65 AGTTCATCCCTTAAATAAAACAAGCATCGATTCCTATAACAGTCTCCATTCTATTCAAGATTAGG
* *
165 AAGCCAAAATGCATTCCCTTCTTTAGGATAAATGACATTGACACTTTGGTGCCGCAAG-AAAGCT
130 AAGCCAAAATGCATTCCCTTCTTTAGGATAAATGACATTGATACTTTGGTGTCGCAAGAAAAGCT
* * *
229 TTTCTTTCTACCGATTTTGATAAAATCATAATTTATCTCTTAAATACGACAAACATGAATACTCA
195 TTTCTTTCCATCGATTTTGATAAAATCATAATTTATCTCTTAAATTCGACAAACATGAATACTCA
* *
294 CACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATCAT
260 TACTAATCCCCGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATCAT
* * ** *
359 ATTGATGCTTTAGTTTCGCAAGACAGGCTTTTTTCCC-CCCATTTAGGTAAAGTCCAAGATCATG
325 ATTGATGC-TT-GTTTCGC-AGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCCAAGATCGTG
* *
423 CCTCAAATGAGACAAATATGGATTCAAGTAATGATCTTCATTCATTTTGTGAATAGGAACTATAA
387 CCTCAAATGAGACAAACATGGATTCAAGAAATGATCTTCATTCATTTTGTGAATAGGAACTATAA
*
488 ACACAT-TCCCTTCATTAAGAT
452 ACACATCT-CCTT-AATAAGAT
* * * * *
509 AAATGACATTGATGATTTTCTTTTGCGTGGAAATCTTTTTTTTGCCCTATGTTCCTTAAAATTAA
1 AAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTAT-TTCCTTAAAATCAA
*
574 AGTACATCCCTTAAATAAAACAAGCATCGATTCCTATAACAGTCTCCATTCTATTCAAGATGT-G
65 AGTTCATCCCTTAAATAAAACAAGCATCGATTCCTATAACAGTCTCCATTCTATTCAAGAT-TAG
* *
638 GAAGCCAAAATGCATTCCCTTCTTTAGGATAAATGACATTGATACATTGGTGTCGCATGAAAAGC
129 GAAGCCAAAATGCATTCCCTTCTTTAGGATAAATGACATTGATACTTTGGTGTCGCAAGAAAAGC
* * *
703 TTTTCTTTCCATCGATTTTGATAAAATCATAATTTATCTGTTAAATTCAATAAACATGAATACTC
194 TTTTCTTTCCATCGATTTTGATAAAATCATAATTTATCTCTTAAATTCGACAAACATGAATACTC
* * * * * *
768 ATACTAGTCCCCGTTCTTTTCAGGACTAGGCACCGTAAACATAGTCTTCTCCTCAGGATACACCA
259 ATACTAATCCCCGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATCA
833 TATTGATGCTTGCTTTCGCTAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCCAAGATCGTG
324 TATTGATGCTTG-TTTCGC-AGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCCAAGATCGTG
* * * * * * *
898 CCTTAAATAAGACAAACATTTGATTCTAGAAATGGTCTTCATTCATTTTGTGATTAGGCACTATA
387 CCTCAAATGAGACAAACA-TGGATTCAAGAAATGATCTTCATTCATTTTGTGAATAGGAACTATA
*
963 AACATATCTCCTTAGAT-AGAT
451 AACACATCTCCTTA-ATAAGAT
* *
984 AAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTACCCCATTTTCCTTAAAATCAA
1 AAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA-TTTCCTTAAAATCAA
** * *
1049 AGTTTTTTCCTTAAA-AAAGACAAGCATCGATT-CTCAT-ACAGTCTCCATTCTTTTCAAGATTA
65 AGTTCATCCCTTAAATAAA-ACAAGCATCGATTCCT-ATAACAGTCTCCATTCTATTCAAGATTA
** * * * * * *
1111 GGAAGCCAAAACACATTCCCTTCATTAGGAT-ACTGGACATTGATGCTTTCGTGTGGCAAAAAAA
128 GGAAGCCAAAATGCATTCCCTTCTTTAGGATAAAT-GACATTGATACTTTGGTGTCGCAAGAAAA
* * *
1175 ACTTTTCTTT-C-TGCCATTTTTGA-AAGAATCATAGTTTATCTCTTAAATAT-GACAAACATGA
192 GCTTTTCTTTCCAT-CGA-TTTTGATAA-AATCATAATTTATCTCTTAAAT-TCGACAAACATGA
* * * * *
1236 ATACTCATGCTAATCCCCGTTCTTTTTAAGATTAAGCACCATAACACA-A-TATTCTCATTAGGA
253 ATACTCATACTAATCCCCGTTCTTTTCAGGATTAGGCACCATAA-ACATAGTCTTCTCATTAGGA
* * * * *
1299 TACATCATATTGATGTTTTTGTTTTGCACGAAAAGCTTTCTTCCCACCAATTTTTGTAAAGTCTA
317 TACATCATATTGATG--CTTGTTTCGCA-GAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCCA
** **
1364 AGATCGCACCTCAAATGAGACAAACATGGATTCAAGCGATGATCTTCATTCATTTTGTGAATAGG
379 AGATCGTGCCTCAAATGAGACAAACATGGATTCAAGAAATGATCTTCATTCATTTTGTGAATAGG
1429 AACTATAAACACATTCTCCTTA
444 AACTATAAACACA-TCTCCTTA
1451 TTTCGTTAAA
Statistics
Matches: 809, Mismatches: 110, Indels: 45
0.84 0.11 0.05
Matches are distributed among these distances:
472 2 0.00
473 120 0.15
474 371 0.46
475 263 0.33
476 52 0.06
477 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (471 bp):
AAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTCCTTAAAATCAAA
GTTCATCCCTTAAATAAAACAAGCATCGATTCCTATAACAGTCTCCATTCTATTCAAGATTAGGA
AGCCAAAATGCATTCCCTTCTTTAGGATAAATGACATTGATACTTTGGTGTCGCAAGAAAAGCTT
TTCTTTCCATCGATTTTGATAAAATCATAATTTATCTCTTAAATTCGACAAACATGAATACTCAT
ACTAATCCCCGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATCATA
TTGATGCTTGTTTCGCAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCCAAGATCGTGCCTC
AAATGAGACAAACATGGATTCAAGAAATGATCTTCATTCATTTTGTGAATAGGAACTATAAACAC
ATCTCCTTAATAAGAT
Found at i:2835 original size:476 final size:473
Alignment explanation
Indices: 1463--5497 Score: 3995
Period size: 475 Copynumber: 8.5 Consensus size: 473
1453 TCGTTAAACC
* * *
1463 CAAAGTTCATCCCTTAAATAAGACATGCCTC-ATTTCTCGTAACTA-TCTCCATTCTTTTCAAGA
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGA-TTCTCATAA-TAGTCTCCATTCTTTTCAAGA
* * * *
1526 TTAGGAAGCTAAAATACATTCCCTTCATTAGGATGCAAGACATTGAAGCTTTGGTGTC-GCAAGA
64 TTGGGAAGCCAAAA-ACATTCCCTTCATTAGGATACATGACATTGAAGCTTTGGTG-CGGCAAGA
* * * * * * *
1590 AAAGCTTTTCTTTCCACCATTTTTTGCTAGAATCAAAGTTTATCTC-TAAATAAGATAAACACGA
127 AAAGCTTTTCTTTTCAAC-GTTTTTGATAGAATCATAGTTTATCTCTTAAATAAGACAAACATGA
* * * * *
1654 ATAATCATACTAATCCC-ATTCTTTTCAGGATTAGGCAACATAAACGTAGTCTTCTCATTATGAT
191 ATACTCATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGAT
* * * *
1718 ACATCATTTTGATGCTTTGGTTTCACAAGAAAAGCTTTTTTCTCACCAATTTTTGTAAAGTCTAA
256 ACATCATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAA
* * * ** * **
1783 GTTTGTGCCTCAAATGAGATAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATTATAC
321 GATCGTGCCTCAAATGAGA-CAACATGGATTCAAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * *
1848 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTAATGATTTTCTTTTACATGGAAATCTT
385 ACTATAAACACATTCTCCT-TTTAAGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTT
*
1913 TTCTTTACCCTATTTTCCTTAAAAT
449 TTCTTTACCCCATTTTCCTTAAAAT
* * * * * *
1938 CAAAGTTCATCCCCTAAATAAGATAAGCATCGATTCCCATAACAGTCACCATTCTATTCAAGATT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTCCATTCTTTTCAAGATT
* * * *
2003 TGGAAGCCAAAACGCATTCCCCTCTTTAGGATA-ATTGACATTGATA-CTTTGGTGTC-GCAAGA
66 GGGAAGCCAAAA-ACATTCCCTTCATTAGGATACA-TGACATTGA-AGCTTTGGTG-CGGCAAGA
* * * * * * *
2065 AAAGCTTTT-TTTTCCACCGATTTTGAAAAAATCATAGTTTATCTCTTAAACATGAAAAACATGA
127 AAAGCTTTTCTTTT-CAACGTTTTTGATAGAATCATAGTTTATCTCTTAAATAAGACAAACATGA
* * *
2129 ATACTCACACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAATATAGTCTTCTCATTCGGAT
191 ATACTCATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGAT
* * *
2194 ATATCATATTGATGCTTTGCTTTCGCAAGAAAGGCATTTTTT-CCACCAATTTTTGTAAAGTCCA
256 ACATCATATTGATGCTTTGGTTTCGCAAGAAAGGC-TTTTTTCCCACCAATTTTTGTAAAGTCTA
* * * *
2258 AGATCGTGCCTAAAATGACACAACCATTTGATTCTAGTAATGATCTTCATTCATTTTGTGATTAG
320 AGATCGTGCCTCAAATGAGACAA-CA-TGGATTCAAGTAATGATCTTCATTCATTTTGTGATTAG
* * **
2323 GCACTACAAACATATTCTCCTTAGACAGATAAATGATATTGATGATTTTCTTTTGCATGGAAATC
383 GCACTATAAACACATTCTCCTTTTA-AGATAAATGATATTGATGATTTTCTTTTGCATGGAAATC
2388 TTTTCTTTACCCCATTTTCCTTAAAAT
447 TTTTCTTTACCCCATTTTCCTTAAAAT
* * * *
2415 CAAAGTTCATTCCTTAAATAAGACAAGCATTGATTCTCATAATAGCCTCCATTCTTGTCAAGATT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTCCATTCTTTTCAAGATT
* * * * *
2480 AGGAAGCCAAAACACTTTCCCTTCATTAGGATACTTGACATTGATGCTTTGGTGAGGCAAG-AAA
66 GGGAAGCCAAAA-ACATTCCCTTCATTAGGATACATGACATTGAAGCTTTGGTGCGGCAAGAAAA
*** * *
2544 GCTTTTCTTTTTGTCGTTTTTGATAGAATCATAGTTTGTCTCTTAAATACGACAAACATGAATAC
130 GCTTTTCTTTTCAACGTTTTTGATAGAATCATAGTTTATCTCTTAAATAAGACAAACATGAATAC
*
2609 TCATACTAATCCCTGTTCTTTTCAAGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACAT
195 TCATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACAT
* *
2674 CATATTGATGTTTTGGTTTTC-CAAGAAAGGCTTTTTTTCCCACCAATTTTTGTAAAGTCTAATA
260 CATATTGATGCTTTGG-TTTCGCAAGAAAGGC-TTTTTTCCCACCAATTTTTGTAAAGTCTAAGA
* * * **
2738 TCGTACCTCAAATGCGACATACATGGATTCAAGTAATGATCTTCATTCATTTTGTGAATAGAAAC
323 TCGTGCCTCAAATGAGACA-ACATGGATTCAAGTAATGATCTTCATTCATTTTGTGATTAGGCAC
* ** * * * * *
2803 TGTGGACACATTCTCCTCCTCAAGAAAAATGATATTG-TCGATTTTCTTTTGCACGAAAATCTTT
387 TATAAACACATTCTCCT-TTTAAGATAAATGATATTGAT-GATTTTCTTTTGCATGGAAATCTTT
** * * *
2867 TCCATATCGCA-TTTCCATTCAAAT
450 TCTTTACCCCATTTTCC-TTAAAAT
* * * * *
2891 CAATGTTCATACCTTGAATAAGACAACCATCGATTCTCGA-AATAGTCTCCGTTCTTTTCAAGAT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC-ATAATAGTCTCCATTCTTTTCAAGAT
* * * * *** *
2955 GGGGAAGTCGAAAAA-AGTCCCTTCATTAGGATGCAACTCATTGAAGCTTTGGTGTCGG-AAGCA
65 TGGGAAG-CCAAAAACATTCCCTTCATTAGGATACATGACATTGAAGCTTTGGTG-CGGCAAGAA
* * * * * **
3018 AAGCTTTTC-TTTCCACTGTTTTTGATAGAATCAGT-GTTTCTCTATTATATAAAATGAACATGA
128 AAGCTTTTCTTTTCAAC-GTTTTTGATAGAATCA-TAGTTTATCTCTTAAATAAGACAAACATGA
* * * * *
3081 ATACTCATACTAATCCCTATTTTTTTTCAGGATTAGGCAGCATAAATATAGTCTTCTCATTATGA
191 ATACTCATACTAATCCCT-GTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
* * * * * *
3146 TACATTATATTAATGCTTTGGTTCCACAAGAAAGG-GTTTTTCCCACCAATTTTCT-TGAAGTC-
255 TACATCATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAATTTT-TGTAAAGTCT
* * * * * * *
3208 ATAGTTCGTGCCTCAACTGAGATGAACATGGATTCAATTAATGATTTTCATTCATTTTGTGGTTT
319 A-AGATCGTGCCTCAAATGAGA-CAACATGGATTCAAGTAATGATCTTCATTCATTTTGTGATTA
** * * * *
3273 GGCACTATAAACACATTCTCCTTAGATGGATAAATGATATTGAAGATTTTCTTCTGCATGAAAAT
382 GGCACTATAAACACATTCTCCTTTTA-AGATAAATGATATTGATGATTTTCTTTTGCATGGAAAT
* * *
3338 CTTTTCTTTGCCCTA-TTTCCTAAAAAT
446 CTTTTCTTTACCCCATTTTCCTTAAAAT
* * * * **
3365 CAAAATTCATCCCTTAAATAAAACAAGCATCGATTCCCGA-AACAGTCTCCATTCAATTCAAGAT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC-ATAATAGTCTCCATTCTTTTCAAGAT
* * * * * *
3429 TGGGAAGCCAAAATGCATTCCCTTCTTTAGGATAAATGACATTGACA-TTTTGGTGCCGTAAGAA
65 TGGGAAGCCAAAA-ACATTCCCTTCATTAGGATACATGACATTGA-AGCTTTGGTGCGGCAAGAA
* * * * *
3493 AAGCTTTTC-TTTCCACTGATTTTGATAAAATCATAATTTATCTCTTAAATACGACAAACATGAA
128 AAGCTTTTCTTTTCAAC-GTTTTTGATAGAATCATAGTTTATCTCTTAAATAAGACAAACATGAA
* * *
3557 TACTCACACTAATCCCTATTCTTTTCAGGATTAGGCACCGTAAACATAGTCTTCTCATTAGGATA
192 TACTCATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* * * ** *
3622 CATCATATTGATGCTTTGGTTTTGCAAGACAGGCTTTTTTCCCCCCAATTTAGGTAAAGTCCAAG
257 CATCATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAG
* * * **
3687 ATCATGCCTCAAATAAGACATACATGGATTCAAGTAATGATCTTCATTCATTTTGTGAATAGAAA
322 ATCGTGCCTCAAATGAGACA-ACATGGATTCAAGTAATGATCTTCATTCATTTTGTGATTAGGCA
* ** * * *
3752 CTGTGGACACATTCTCCTCTTTAAGAAAAATGATATTG-TCGATTTTCTTTTGCACGAAAATCTT
386 CTATAAACACATTCTCCT-TTTAAGATAAATGATATTGAT-GATTTTCTTTTGCATGGAAATCTT
*** * * *
3816 TTCCACATCGCA-TTTCCATTCAAAT
449 TTCTTTACCCCATTTTCC-TTAAAAT
* * * *
3841 CAATGTTCATACCTTGAATAAGACAACCATCGATTCTCGA-AATAGTCTCCATTCTTTTCAAGAT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC-ATAATAGTCTCCATTCTTTTCAAGAT
* * * * * * *** * * *
3905 GGGGAAGTCGAAAAAAAGTCCCTTCTTTAGGATGCAACCCATTAAAGCTTTAGTGTCGG-AAGCA
65 TGGGAAG-CCAAAAACATTCCCTTCATTAGGATACATGACATTGAAGCTTTGGTG-CGGCAAGAA
* * * * * **
3969 AAGCTTTTCTTTCCACCGTTTTTGTTTTGATAGAATCAGT-GTTTGTCT-TT-TATAAAATGAAC
128 AAGCTTTTCTTTTCAACG----T-TTTTGATAGAATCA-TAGTTTATCTCTTAAATAAGACAAAC
* * * *
4031 ATGAATACTCATACTAATCCCTGTT-TTTTCAAGATTAAGTAGCATAAACATAGTCTTCTCATTA
187 ATGAATACTCATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTA
* * * * *
4095 TGATACAACATATTGATGCTTTAGATTCGCAAGAAAGGCTTTTTTCCCACCAATTTTCT-TAAAA
252 GGATACATCATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAATTTT-TGTAAAG
* * * *
4159 TCTAAGTTCGTGCCTCAAATGAGATGAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGAT
316 TCTAAGATCGTGCCTCAAATGAGA-CAACATGGATTCAAGTAATGATCTTCATTCATTTTGTGAT
*
4224 TAGGCACTATAAACACATTGTCCTTTTAAGGATAAATGATATTGATGA-------TT--AT-GAA
380 TAGGCACTATAAACACATTCTCCTTTTAA-GATAAATGATATTGATGATTTTCTTTTGCATGGAA
* * ** * * **
4279 ATATTTTCATCGCCCTATTTTCGTTAAAGC
444 ATCTTTTCTTTACCCCATTTTCCTTAAAAT
* * ** *
4309 CAAAGTTTATCCCTTAAATAAGACAAGCCTCCTTTCTCATAACTA-TCTCCATTCTATTCAAGAT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAA-TAGTCTCCATTCTTTTCAAGAT
* ** * *
4373 TTGGAAGCCGAAATGCATTCCCTTCTTTAGGATAAATGACATTGATA-CTTTGGTGTC-GCAAGA
65 TGGGAAGCC-AAAAACATTCCCTTCATTAGGATACATGACATTGA-AGCTTTGGTG-CGGCAAGA
* * * * *
4436 AAAGC-TTTCTTTTCCAC-TAATTTTGAAAAAATCATAGTTTATCTCTTAAACACA-AAAAACAT
127 AAAGCTTTTCTTTTCAACGT--TTTTGATAGAATCATAGTTTATCTCTTAAATA-AGACAAACAT
* ** * * *
4498 GAATACTCACACTAATCCCCATTCTTTTCTA-GATTAGGCACCATAAATATAGTCTTTTCATTCG
189 GAATACTCATACTAATCCCTGTTCTTTTC-AGGATTAGGCACCATAAACATAGTCTTCTCATTAG
* * *
4562 GATACATCATATTGATGCTTTGCTTTCGCAAGAAAGGCTTTTTTCCCA-TAAATTTTGTAAAGTC
253 GATACATCATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTC
* * * * * *
4626 CAAGATCATGCCTTAAATGAGACAACCATTTGAATCTAGTAATGATCTTCATTCATTTTGTGATT
318 TAAGATCGTGCCTCAAATGAGACAA-CA-TGGATTCAAGTAATGATCTTCATTCATTTTGTGATT
* ***
4691 AGGCACTATAAACATATTCTCCTCAGATAGATAAATGATATTGATGATTTTCTTTTGCATGGAAA
381 AGGCACTATAAACACATTCTCCTTTTA-AGATAAATGATATTGATGATTTTCTTTTGCATGGAAA
4756 TCTTTTCTTTACCCCATTTTCCTTAAAAT
445 TCTTTTCTTTACCCCATTTTCCTTAAAAT
* * *
4785 CAAAGTTCATTCCTTAAAT-AGACAAGTATCGATTCTCATAATAGTCTCCATTCTTGTCAAGATT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTCCATTCTTTTCAAGATT
* * * * *
4849 GGGAACCCAAAACACTTTCCCTTCATTAGGATACTTGACATTGATGCTTTGGTGTGGCAAGAAAA
66 GGGAAGCCAAAA-ACATTCCCTTCATTAGGATACATGACATTGAAGCTTTGGTGCGGCAAGAAAA
** * * *
4914 GCTTTTCTTTTCGTCG-TTTTGATAGAATCATAATTTATCTCTTAAATATGACAAACAAGAATAC
130 GCTTTTCTTTTCAACGTTTTTGATAGAATCATAGTTTATCTCTTAAATAAGACAAACATGAATAC
* * * * * *
4978 TCATACTAATCCCCGTTTTTTTCATGATTAAGCACCATAAACATAGTCTTCTCGTTAGGATACTT
195 TCATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACAT
* * *
5043 CATATTGATGTTTTGGTTTCGCAAGAAAAGCTCTTTTCCCACCAATTTTTGTAAAGTCTAAGATC
260 CATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGATC
* * * *
5108 GTGCCTCAAATGAGACATACATGGATTCAAGTAATGATCATCATTCATTTTGTGAATAGGAACTG
325 GTGCCTCAAATGAGACA-ACATGGATTCAAGTAATGATCTTCATTCATTTTGTGATTAGGCACTA
* ** * *
5173 T-AACACATTCTCCTCTTTAGGATAAAT-ATATTGGCGATTTTTTTTTGCACGGAAATCTTTTCT
389 TAAACACATTCTCCT-TTTAAGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCT
* ** * *
5236 CTGTCGCATTTCCCTTAAAAT
453 TTACCCCATTTTCCTTAAAAT
* * * * *
5257 CAATGTTCATACCTTGAATAAGACAACCATCGATTCTCGA-AATTGTCTCCATTCTTTTCAAGAT
1 CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC-ATAATAGTCTCCATTCTTTTCAAGAT
* * * * * *
5321 GGGGAAGTCGAAAAAAATTCCCTTCATTAGGATGCATGTCATTGAAGCTTTGGTGTCGG-AAGCA
65 TGGGAAG-CCAAAAACATTCCCTTCATTAGGATACATGACATTGAAGCTTTGGTG-CGGCAAGAA
* * * * * * *
5385 AAGTTTTTTCTTTTCACCTTTTTTAGATAGAA-CAGT-GTTTGTCTTTTATATAAAACAAACA-G
128 AAG-CTTTTCTTTTCAACGTTTTT-GATAGAATCA-TAGTTTATCTCTTAAATAAGACAAACATG
* * * * *
5447 AAGACTCAGACTAAT-CCTG-TGTTTTCAGGATTAAGCAACATAAACATAGTC
190 AATACTCATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTC
5498 CTCTGCGTGT
Statistics
Matches: 2918, Mismatches: 536, Indels: 215
0.80 0.15 0.06
Matches are distributed among these distances:
462 2 0.00
463 19 0.01
464 5 0.00
465 59 0.02
466 149 0.05
467 14 0.00
468 113 0.04
469 8 0.00
471 2 0.00
472 93 0.03
473 115 0.04
474 373 0.13
475 713 0.24
476 658 0.23
477 365 0.13
478 176 0.06
479 32 0.01
480 2 0.00
481 19 0.01
482 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (473 bp):
CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTCCATTCTTTTCAAGATT
GGGAAGCCAAAAACATTCCCTTCATTAGGATACATGACATTGAAGCTTTGGTGCGGCAAGAAAAG
CTTTTCTTTTCAACGTTTTTGATAGAATCATAGTTTATCTCTTAAATAAGACAAACATGAATACT
CATACTAATCCCTGTTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATC
ATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGATCG
TGCCTCAAATGAGACAACATGGATTCAAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATA
AACACATTCTCCTTTTAAGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTA
CCCCATTTTCCTTAAAAT
Found at i:6051 original size:13 final size:13
Alignment explanation
Indices: 6033--6057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6023 TTCAACAAAT
6033 TGTATCGATACAA
1 TGTATCGATACAA
6046 TGTATCGATACA
1 TGTATCGATACA
6058 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.