Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_671 ID=scaffold_671-JGI_221_v2.0
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: 4853
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.31
Warning! 100 characters in sequence are not A, C, G, or T
Found at i:1155 original size:603 final size:603
Alignment explanation
Indices: 1--4853 Score: 5278
Period size: 603 Copynumber: 8.0 Consensus size: 603
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* * * ** * * *
66 ACATTAAAATTTGAGGCGCATTTGCGATAAGGGGCAACCTTTATATGAGTAGATTGCA-CAAGGG
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTG-AGCAAGAG
* * * *
130 TTGATGGGTGCGATCATACTAGCACTAATGCA-TGGTATCCCATCAGAACTCCGCATTGAAGCGT
130 TTGACGGGTGCGATCATACCAGCACTAATGCACCGG-ATCCCATCAGAACTCCGCATTCAAGCGT
* * * **
194 GCTTGGGCGAGAGTAGTACCAAGATGGGTGACCCCCTGGGAAGTGATCGTGTTGCACCCCTCCCA
194 GCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCA
* *
259 TTTTATTTCATATAATATCTTTTTTAGTTGCATTTTCTCCACGTGGAGTAACTCATTCGTGATTT
259 TTTTATTTCATAT-A-AT-TTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTT
*
324 GCGTTGTGCGAAATAAATAATTTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGC
321 GCGTTTTGCGAAATAAATAA-TTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGC
* * *
389 AAGTGCGATAAGGGGCAGCCTTTATATGAAAAGATTGCGCAA-AGTTGACGGGTGCGCTCAGACC
385 AAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACC
** *
453 AGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGAAAGTGTAGTACTA
450 AGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTA
*
518 GGATGGGTGACCTCCAGGGAAGTCCTC--G-TGCA-CCCTCCCATTTTATTTCATATAATGTTTT
515 GGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTT
579 TTGTTAGTTGCATTTTCTCCACGTG
580 TT-TTAGTTGCATTTTCTCCACGTG
* *
604 GTGTAACTCATTCGTTATTTGCGTTTTGTGAAATAAATAATTTGAAACGATATTTGATCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* * * * *
669 GCATTCTAATTTGAGGCGCAAGTGCGATAAGTGGCAGCCTTTACATGAATAGATTAAGCAAGAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGAGCAAGAGT
* * * *
734 TGACGGGTGCGATCATACTAGCACTAATGCACCGGATCCCATCTGAACTCCGCAGGT-AATCGTG
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCA-TTCAAGCGTG
* * * *
798 CTCGGGCCAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAATCCTCGTGTTGCACCCCTCCCAA
195 CTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
* *
863 TTTATTTCATATAATTTTTTTAGTTGCATTTTCTTCC-CGTGGTGTAACTCATTCATTATTTGCA
260 TTTATTTCATATAATTTTTTTAGTTGCATTTTC-TCCACGTGGTGTAACTCATTCGTTATTTGCG
*
927 TTTTCCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGT
324 TTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGT
* * * *
992 GCGATAAGGGGCAGCCTTTATATGAATAGATTGTGCAAAAGTTGACGGGTGCGCTCAGACCAGCA
389 GCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCA
* *
1057 CTAATGCACCGGAGCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGTGTAGTACTAGGAT
454 CTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGAT
*
1122 AGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTTTTGT
519 GGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTTTT-T
1187 TAGTTGCATTTTCTCCACGTG
583 TAGTTGCATTTTCTCCACGTG
* * * * * * *
1208 GTCTAACTCATTCATTATTTGTGTTATGCGAAATAAATAATTTGAAACGACATTCGGTCTAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* * ** * * *
1273 GCAATAAAATTCGAGGCATAAGTGCGATAAGGGGCAGCCTTTATATGAATTGATTGCGGAAGAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGAGCAAGAGT
* * * * *
1338 TTACTGGTGCGATCATACAAGCACTACTGCACCGGATCCCATTCA-AACGCCGCAGTT-AAGCGT
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCA-TCAGAACTCCGCA-TTCAAGCGT
* * * * *
1401 GCCTGGGC----G-AG-A-T---A------ACCTCCTTGGAAGTACTCGTATTGCGCCCCTCCCA
194 GCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCA
* *
1450 TTTTATTTCATATAATTTCTTTTAGTTGCAATTTCT-----TGGTGTAACTCATTCGTCATTTGC
259 TTTTATTTCATATAATTT-TTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTGC
* * * * **
1510 GTTTTACGAAATAAATAATTTGAAAGGATATTTGGTAGAATTTGCATTAAAATTCGAGGCGCATT
323 GTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAG
* * *
1575 TGCGATAAGGGGCAACCTTTATATGAATAGATAG-GACAAGAGTTGACGGGTGC-ATGCATACTA
388 TGCGATAAGGGGCAGCCTTTATATGAATAGATTGCG-CAAGAGTTGACGGGTGCGAT-CATACCA
* *
1638 GCACTAATGCATCGGATCCCATCAGAACTCCGCA-TTGAAGCGTGCTTGGGCGAGAGTAGTACGA
451 GCACTAATGCACCGGATCCCATCAGAACTCCGCAGTT-AAGCGTGCTTGGGCGAGAGTAGTACTA
* **
1702 GGATGGGTGACCTCTTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATACTTT
515 GGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTT
1767 TTTTAGTTGCATTTTCTCCACGTG
580 TTTTAGTTGCATTTTCTCCACGTG
* *
1791 G-GTAACTCATTCGTTATTTGCGTTGTGTGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* * *
1855 GCATTCAAATTCGAGGCGCAAGTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGAGCAAGAGT
* *
1919 TGACGGGTACGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTCAAGCGTGC
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCATTCAAGCGTGC
*****************************************
1984 TNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
196 T-----------------------TGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGT
************************************ * **
2049 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTATTTCATA-TAATGC-TTTTTTTTA-
238 CCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATTT-TTT--TAGT--TGCATTTTCTCCAC
* ** *
2111 GTTGCAT-TTTCTCCACGTGTTC-TAACTCATT-CGTTATTTGTGTTATACGAAATAAATAATTT
298 G-TG-GTGTAACT-CA----TTCGTTA-T--TTGCG---TTT-TG-----CGAAATAAATAATTT
* * * *
2173 GAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCACGAGTGCGATAAGGGGCAGCCTTTA
344 GAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTA
* * * ** * *
2238 TATGAATAGGTTGTGGAAGAGTTGACTAGTGCGATCATACAAGCACTAATGCACCGGATCCCATT
409 TATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATC
* * * * * * * * * **
2303 AGAACTCCGCAGTCAAGCGTACCTGGACGAGAGTACTATTAGGCTAGGTAACCTCCTGGGTGGTC
474 AGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTC
* * * *
2368 CTCGTATTACACCCCTCCCATTTTATTTCATATAAT-TTTTTTTT-GTTGCAATTTCTTCACGTG
539 CTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTG
*
2431 GTGTAACTGATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
** * * *
2496 GCATT-AAACTTCGAGGCGCATTTGCGATAAGGGGTAACCTTTATATGAATAGATAGCA-CAAGA
66 GCATTCAAA-TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTG-AGCAAGA
* * * *
2559 GTTGACGGGTGCAATCAAACTAGCACTAATGCACCGGATCCCATCAGAACTCC-CATTGAAGCGT
129 GTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCATTCAAGCGT
* *
2623 GCTTGGGCGAGAGTAGTACGAGGATGGGTGACCTCTTGGGAAGTCCTCGTGTTGCACCCCTCCCA
194 GCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCA
*
2688 TTTTATTTCATATAATACATTTTTTAGTTGCATTTTGTCCACGTGGTGTAACTCATTCGTTATTT
259 TTTTATTTCATATAAT---TTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTT
*
2753 GCGTTGTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCA
321 GCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCA
* * *
2818 AGTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGTTGACGGGTACGATCATACCA
386 AGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCA
* * *
2882 GCACTAATGCACCGGATCCCATCAGAACTCCCCAGTCAAGCGTGCTTGGGTGAGAGTAGTACTAG
451 GCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAG
2947 GATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTTT
516 GATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATG-TTTT
3012 TTTTAGTTGCATTTTCTCCACGTG
580 TTTTAGTTGCATTTTCTCCACGTG
* * * * * *
3036 TTCTAACTCATTCGTTATTTGTGTTATACGAAATAAATAATTTGAAACGATATTCGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* * * * *
3101 GCATTAAAATTCGAGGCACGAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGTGGAAGAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGAGCAAGAGT
** * * *
3166 TGACTACG-GCGATCATACAAGCACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTG
131 TGAC-GGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCATTCAAGCGTG
* * * * * * * *
3230 CCTGGGCGAGAGTACTATTAGGCTAGGTAACCTCCT-GGAAGGTCCTCGTATTACACCCCTCCCA
195 CTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAA-GTCCTCGTGTTGCACCCCTCCCA
* * * *
3294 TTTTATTTCATATAATTTTTTTTTGTTGCAGTTTCTTCACGTGGTGTAACTGATTCGTTATTTGC
259 TTTTATTTCATATAA-TTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTGC
* *
3359 ATTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATT-AAACTTCGAGGCGCAT
323 GTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAA-TTCGAGGCGCAA
* * * * * * *
3423 TTGCAATAAGGGGCAACCTTTATATGAATAGATAGCACAAGAGTTGACGGGTGCAATCATACTAG
387 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAG
* *
3488 CACTAATGCACCAGATCCCATCAGAACTCC-CA-TTGAAGCGTGCTTGGGCGAGAGTAGTACGAG
452 CACTAATGCACCGGATCCCATCAGAACTCCGCAGTT-AAGCGTGCTTGGGCGAGAGTAGTACTAG
* * * * *
3551 GATGGGTGACCTCCTTGAAAGTCCTTGTGTTGCATCCCTCCCATTTTATTTCATATAATATTTTT
516 GATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTTT
3616 TTTAGTTGCATTTTCTCCACGTG
581 TTTAGTTGCATTTTCTCCACGTG
* *
3639 GTGTAACTCATTCGTTATATGCGTTTTGC-ATAATAAATAATTTGAAACGGTATTTGGTCGAATT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGA-AATAAATAATTTGAAACGATATTTGGTCGAATT
* * * * * * *
3703 TGCAGTCAAATTAGAGGAGCAAGTGCGATATGGGGCAG-CTGTTATATGAATGGATTGCGTAAGA
65 TGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCT-TTATATGAATAGATTGAGCAAGA
* * * *
3767 GTTGACGTGTGCGATCATACCAGCAATAATGCACCGGATCCCATTCA-AACGCCCCAGTT-AAGC
129 GTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCA-TCAGAACTCCGCA-TTCAAGC
* * * * *
3830 GTGCTTGGGCGAGAGTATTACTAGGGTGGGTGACATCCTGGGAAGCCCTCGTGTTGCACCCATCC
192 GTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCC
3895 CATTTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTAT
257 CATTTTATTTCATATAA---TTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTAT
* * *
3960 TTGCGTTCTGCGAAATAAATAATTTGAAACAATATTT-GTCGAATTTGCGTTCAAATTCGAGGCG
319 TTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCG
* * **
4024 CAAGTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGTTGACGGGTATGATCATAC
384 CAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATAC
* ** * * * *
4088 CAGCACTAATGCACCAGATCCCATCAGAACTATGCAGTCAAGCGCGCCTGGGCAAGAGTAGTACT
449 CAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACT
* * * * * *
4153 CGTATGGGTGACCTTCTGGGAAGTCCACATATTGCACCCCTCCCATTTTATTTCATATAA--TTT
514 AGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTT
*
4216 TTTTTAGTTGCATTTTCTTCACGTG
579 TTTTTAGTTGCATTTTCTCCACGTG
* *
4241 GTGTAACTCATTCGTTATTTACGTTTTGTGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* ** * * *
4306 GCATTCAAATACGAGGCGCATTTGCGATAAGGAGCAACCTTTATATGAGTAGATTGCA-CAAGAG
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTG-AGCAAGAG
* *
4370 TTGACGGGTGCGATCATACCAGCACTAATACA-TGGTATCCCATCAGAACTCCGCAGTT-AAGCG
130 TTGACGGGTGCGATCATACCAGCACTAATGCACCGG-ATCCCATCAGAACTCCGCA-TTCAAGCG
* * * *
4433 TGTTTGGGCGAGAGTAGTACGAGGATGGATGACCTCCTAGGAAG-CCATCGTGTTGCACCCCTCC
193 TGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCC-TCGTGTTGCACCCCTCC
* **
4497 CATTTTATTTCATATAATATTTCCTTTAGTTGCATTTTCTCCACGTGGTGTAACACATTCGCGAT
257 CATTTTATTTCATATAAT-TTT--TTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTAT
* ** * * *
4562 TTACGTCGTGCGAAATAAATAATTTGAAACGATATTTGGTGGAATTTGCCTTCAATTTCGAGGCG
319 TTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCG
* *
4627 CAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTACGCAAGAGTTGACGGGTGCGATCACAC
384 CAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATAC
* * * *
4692 CAGCAGTAATGCACCGGATCCCATTCA-AACGCCGCAGTTAAGCGTGCTTGGGCGAGAGGATTAC
449 CAGCACTAATGCACCGGATCCCA-TCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTAC
* * * *
4756 TAGGGTGGGCGACCTCCTGGGAAGTCCTCCTG--G-A-CCCTCCTATTTTATTTCATATAATGTT
513 TAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTT
4817 TTTTGTTA-TCTGCATTTTCTCCACGTG
578 TTTT-TTAGT-TGCATTTTCTCCACGTG
4844 GTGTAACTCA
1 GTGTAACTCA
Statistics
Matches: 3549, Mismatches: 564, Indels: 274
0.81 0.13 0.06
Matches are distributed among these distances:
580 4 0.00
581 82 0.02
582 81 0.02
583 27 0.01
584 253 0.07
588 48 0.01
589 15 0.00
594 1 0.00
597 1 0.00
598 1 0.00
599 87 0.02
600 191 0.05
601 13 0.00
602 493 0.14
603 697 0.20
604 653 0.18
605 334 0.09
606 78 0.02
607 1 0.00
608 2 0.00
609 2 0.00
611 2 0.00
612 2 0.00
613 4 0.00
614 2 0.00
617 6 0.00
618 14 0.00
619 2 0.00
620 9 0.00
621 3 0.00
622 6 0.00
623 3 0.00
627 5 0.00
628 3 0.00
631 2 0.00
632 4 0.00
633 2 0.00
634 2 0.00
636 3 0.00
637 1 0.00
640 21 0.01
641 103 0.03
642 282 0.08
643 4 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.31
Consensus pattern (603 bp):
GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGAGCAAGAGT
TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCATTCAAGCGTGC
TTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATT
TTATTTCATATAATTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTGCGTT
TTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGC
GATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACT
AATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGG
GTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATGTTTTTTTTAG
TTGCATTTTCTCCACGTG
Found at i:3920 original size:906 final size:905
Alignment explanation
Indices: 1--4853 Score: 6035
Period size: 906 Copynumber: 5.3 Consensus size: 905
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* * * ** * * * *
66 ACATTAAAATTTGAGGCGCATTTGCGATAAGGGGCAACCTTTATATGAGTAGATTGCACAAGGGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGT
* * *
131 TGATGGGTGCGATCATACTAGCACTAATGCA-TGGTATCCCATCAGAACTCCGCA-TTGAAGCGT
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGG-ATCCCATCAGAACTCCGCAGTT-AAGCGT
* * * **
194 GCTTGGGCGAGAGTAGTACCAAGATGGGTGACCCCCTGGGAAGTGATCGTGTTGCACCCCTCCCA
194 GCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCA
* * ** *
259 TTTTATTTCATATAATATCTTTTTTAGTTGCATTTTCTCCACGTGGAGTAACTCATTCGTGATTT
259 TTTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTCTAACTCATTCGTTATTT
* * * * *
324 GCGTTGTGCGAAATAAATAATTTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGC
324 GTGTTATGCGAAATAAATAA-TTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCAC
* * * * * *
389 AAGTGCGATAAGGGGCAGCCTTTATATGAAAAGATTGCGCAA-AGTTGACGGGTGCGCTCAGACC
388 AAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGGAAGAGTTGACTGGTGCGATCATACA
* * * * * *
453 AGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGAAAGTGTAGTACTA
453 AGCACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTGCCTGGGCAAGAGTACTACTA
* * * *
518 GGATGGGTGACCTCCAGGGAAGTCCTCG---TGCA-CCCTCCCATTTTATTTCATATAATGTTTT
518 GGCTAGGTAACCTCC-TGGAAGTCCTCGTATTGCACCCCTCCCATTTTATTTCATATAAT-TTTT
* * *
579 TTGTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTGCGTTTTGTGAAATAAATAA
581 TT-TT-GTTGCAATTTCTTCACGTGGTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAA
* * * ** * *
644 TTTGAAACGATATTTGATCGAATTTGCATTCTAATTTGAGGCGCAAGTGCGATAAGTGGCAGCCT
644 TTTGAAACGATATTTGGTCGAATTTGCATT-AAATTCGAGGCGCATTTGCGATAAGGGGCAACCT
* *
709 TTACATGAATAGATTA--AGCAAGAGTTGACGGGTGCGATCATACTAGCACTAATGCACCGGATC
708 TTATATGAATAGA-TAGCA-CAAGAGTTGACGGGTGCAATCATACTAGCACTAATGCACCGGATC
* * * * * * *
772 CCATCTGAACTCCGCA-GGTAATCGTGCTCGGGCCAGAGTAGTACTAGGATGGGTGACCTCCTGG
771 CCATCAGAACTCCGCATTG-AAGCGTGCTTGGGCGAGAGTAGTACGAGGATGGGTGACCTCCTTG
* *
836 GAAATCCTCGTGTTGCACCCCTCCCAATTTATTTCATAT-A-A-TTTTTTTAGTTGCATTTTCTT
835 GAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATACTTTTTTTAGTTGCATTTTC-T
898 CC-CGTG
899 CCACGTG
* * *
904 GTGTAACTCATTCATTATTTGCATTTTCCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* *
969 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGTGCAAAAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGT
* * *
1034 TGACGGGTGCGCTCAGACCAGCACTAATGCACCGGAGCCCATCAGAACTCCGCAGTTAAGCGTGC
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGC
* *
1099 TTGGGCGAGTGTAGTACTAGGATAGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATT
196 TTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATT
*
1164 TTATTTCATATAATGTTTTTTGTTAGTTGCATTTTCTCCACGTGGTCTAACTCATTCATTATTTG
261 TTATTTCATATAATGTTTTTT-TTAGTTGCATTTTCTCCACGTGGTCTAACTCATTCGTTATTTG
* * * *
1229 TGTTATGCGAAATAAATAATTTGAAACGACATTCGGTCTAATTTGCAATAAAATTCGAGGCATAA
325 TGTTATGCGAAATAAATAATTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCACAA
* *
1294 GTGCGATAAGGGGCAGCCTTTATATGAATTGATTGCGGAAGAGTTTACTGGTGCGATCATACAAG
390 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGGAAGAGTTGACTGGTGCGATCATACAAG
* * *
1359 CACTACTGCACCGGATCCCATTCA-AACGCCGCAGTTAAGCGTGCCTGGGC--GAG-A-TA--A-
455 CACTAATGCACCGGATCCCATT-AGAACTCCGCAGTCAAGCGTGCCTGGGCAAGAGTACTACTAG
* * * *
1416 -C---CT--CCT--TGGAAGTACTCGTATTGCGCCCCTCCCATTTTATTTCATATAATTTCTTTT
519 GCTAGGTAACCTCCTGGAAGTCCTCGTATTGCACCCCTCCCATTTTATTTCATATAATTTTTTTT
* * *
1473 AGTTGCAATTTC-T----TGGTGTAACTCATTCGTCATTTGCGTTTTACGAAATAAATAATTTGA
584 TGTTGCAATTTCTTCACGTGGTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGA
* *
1533 AAGGATATTTGGTAGAATTTGCATTAAAATTCGAGGCGCATTTGCGATAAGGGGCAACCTTTATA
649 AACGATATTTGGTCGAATTTGCATT-AAATTCGAGGCGCATTTGCGATAAGGGGCAACCTTTATA
* *
1598 TGAATAGATAGGACAAGAGTTGACGGGTGC-ATGCATACTAGCACTAATGCATCGGATCCCATCA
713 TGAATAGATAGCACAAGAGTTGACGGGTGCAAT-CATACTAGCACTAATGCACCGGATCCCATCA
1662 GAACTCCGCATTGAAGCGTGCTTGGGCGAGAGTAGTACGAGGATGGGTGACCT-CTTGGGAAGTC
777 GAACTCCGCATTGAAGCGTGCTTGGGCGAGAGTAGTACGAGGATGGGTGACCTCCTT-GGAAGTC
1726 CTCGTGTTGCACCCCTCCCATTTTATTTCATATAATACTTTTTTTAGTTGCATTTTCTCCACGTG
841 CTCGTGTTGCACCCCTCCCATTTTATTTCATATAATACTTTTTTTAGTTGCATTTTCTCCACGTG
* *
1791 G-GTAACTCATTCGTTATTTGCGTTGTGTGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* *
1855 GCATTCAAATTCGAGGCGCAAGTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGT
* *
1919 TGACGGGTACGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTCAAGCGTGC
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGC
***************************
1984 TNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
196 T-------------------------------------TGGGCGAGAGTAGTACTAGGATGGGTG
************************************
2049 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTATTTCATATAATGCTTTTTTTTAGTT
224 ACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATATAATG-TTTTTTTTAGTT
* *
2114 GCATTTTCTCCACGTGTTCTAACTCATTCGTTATTTGTGTTATACGAAATAAATAATTTGAAACG
288 GCATTTTCTCCACGTGGTCTAACTCATTCGTTATTTGTGTTATGCGAAATAAATAATTTGAAACG
*
2179 ATATTCGGTCGAATTTGCATTAAAATTCGAGGCACGAGTGCGATAAGGGGCAGCCTTTATATGAA
353 ATATTCGGTCGAATTTGCATTAAAATTCGAGGCACAAGTGCGATAAGGGGCAGCCTTTATATGAA
* * *
2244 TAGGTTGTGGAAGAGTTGACTAGTGCGATCATACAAGCACTAATGCACCGGATCCCATTAGAACT
418 TAGATTGCGGAAGAGTTGACTGGTGCGATCATACAAGCACTAATGCACCGGATCCCATTAGAACT
* * * * **
2309 CCGCAGTCAAGCGTACCTGGACGAGAGTACTATTAGGCTAGGTAACCTCCTGGGTGGTCCTCGTA
483 CCGCAGTCAAGCGTGCCTGGGCAAGAGTACTACTAGGCTAGGTAACCTCCT-GGAAGTCCTCGTA
*
2374 TTACACCCCTCCCATTTTATTTCATATAATTTTTTTTTGTTGCAATTTCTTCACGTGGTGTAACT
547 TTGCACCCCTCCCATTTTATTTCATATAATTTTTTTTTGTTGCAATTTCTTCACGTGGTGTAACT
*
2439 GATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTAAA
612 CATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTAAA
*
2504 CTTCGAGGCGCATTTGCGATAAGGGGTAACCTTTATATGAATAGATAGCACAAGAGTTGACGGGT
677 -TTCGAGGCGCATTTGCGATAAGGGGCAACCTTTATATGAATAGATAGCACAAGAGTTGACGGGT
*
2569 GCAATCAAACTAGCACTAATGCACCGGATCCCATCAGAACTCC-CATTGAAGCGTGCTTGGGCGA
741 GCAATCATACTAGCACTAATGCACCGGATCCCATCAGAACTCCGCATTGAAGCGTGCTTGGGCGA
2633 GAGTAGTACGAGGATGGGTGACCT-CTTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTC
806 GAGTAGTACGAGGATGGGTGACCTCCTT-GGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTC
* *
2697 ATATAATACATTTTTTAGTTGCATTTTGTCCACGTG
870 ATATAATACTTTTTTTAGTTGCATTTTCTCCACGTG
*
2733 GTGTAACTCATTCGTTATTTGCGTTGTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* *
2798 GCATTCAAATTCGAGGCGCAAGTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGT
* * *
2862 TGACGGGTACGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCCCAGTCAAGCGTGC
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGC
*
2927 TTGGGTGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATT
196 TTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATT
*
2992 TTATTTCATATAATGTTTTTTTTTAGTTGCATTTTCTCCACGTGTTCTAACTCATTCGTTATTTG
261 TTATTTCATATAATG-TTTTTTTTAGTTGCATTTTCTCCACGTGGTCTAACTCATTCGTTATTTG
* *
3057 TGTTATACGAAATAAATAATTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCACGA
325 TGTTATGCGAAATAAATAATTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCACAA
* *
3122 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGTGGAAGAGTTGACTACG-GCGATCATACAA
390 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGGAAGAGTTGACT-GGTGCGATCATACAA
* *
3186 GCACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTGCCTGGGCGAGAGTACTATTAG
454 GCACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTGCCTGGGCAAGAGTACTACTAG
*
3251 GCTAGGTAACCTCCTGGAAGGTCCTCGTATTACACCCCTCCCATTTTATTTCATATAATTTTTTT
519 GCTAGGTAACCTCCTGGAA-GTCCTCGTATTGCACCCCTCCCATTTTATTTCATATAATTTTTTT
* * *
3316 TTGTTGCAGTTTCTTCACGTGGTGTAACTGATTCGTTATTTGCATTTTGCGAAATAAATAATTTG
583 TTGTTGCAATTTCTTCACGTGGTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTG
*
3381 AAACGATATTTGGTCGAATTTGCATTAAACTTCGAGGCGCATTTGCAATAAGGGGCAACCTTTAT
648 AAACGATATTTGGTCGAATTTGCATTAAA-TTCGAGGCGCATTTGCGATAAGGGGCAACCTTTAT
*
3446 ATGAATAGATAGCACAAGAGTTGACGGGTGCAATCATACTAGCACTAATGCACCAGATCCCATCA
712 ATGAATAGATAGCACAAGAGTTGACGGGTGCAATCATACTAGCACTAATGCACCGGATCCCATCA
*
3511 GAACTCC-CATTGAAGCGTGCTTGGGCGAGAGTAGTACGAGGATGGGTGACCTCCTTGAAAGTCC
777 GAACTCCGCATTGAAGCGTGCTTGGGCGAGAGTAGTACGAGGATGGGTGACCTCCTTGGAAGTCC
* * *
3575 TTGTGTTGCATCCCTCCCATTTTATTTCATATAATATTTTTTTTAGTTGCATTTTCTCCACGTG
842 TCGTGTTGCACCCCTCCCATTTTATTTCATATAATACTTTTTTTAGTTGCATTTTCTCCACGTG
* *
3639 GTGTAACTCATTCGTTATATGCGTTTTGC-ATAATAAATAATTTGAAACGGTATTTGGTCGAATT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGA-AATAAATAATTTGAAACGATATTTGGTCGAATT
* * * * * *
3703 TGCAGTCAAATTAGAGGAGCAAGTGCGATATGGGGCAG-CTGTTATATGAATGGATTGCGTAAGA
65 TGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCT-TTATATGAATAGATTGCGCAAGA
* * * *
3767 GTTGACGTGTGCGATCATACCAGCAATAATGCACCGGATCCCATTCA-AACGCCCCAGTTAAGCG
129 GTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCA-TCAGAACTCCGCAGTTAAGCG
* * * * *
3831 TGCTTGGGCGAGAGTATTACTAGGGTGGGTGACATCCTGGGAAGCCCTCGTGTTGCACCCATCCC
193 TGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCC
*
3896 ATTTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATT
258 ATTTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTCTAACTCATTCGTTATT
* * * * * * *
3961 TGCGTTCTGCGAAATAAATAATTTGAAACAATATT-TGTCGAATTTGCGTTCAAATTCGAGGCGC
323 TGTGTTATGCGAAATAAATAATTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCAC
* ** * ** *
4025 AAGTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGTTGACGGGTATGATCATACC
388 AAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGGAAGAGTTGACTGGTGCGATCATACA
* * ** * * *
4089 AGCACTAATGCACCAGATCCCATCAGAACTATGCAGTCAAGCGCGCCTGGGCAAGAGTAGTACTC
453 AGCACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTGCCTGGGCAAGAGTACTACTA
** * * * * *
4154 GTATGGGTGACCTTCTGGGAAGTCCACATATTGCACCCCTCCCATTTTATTTCATATAATTTTTT
518 GGCTAGGTAACCTCCT-GGAAGTCCTCGTATTGCACCCCTCCCATTTTATTTCATATAATTTTTT
* * * *
4219 TTAGTTGCATTTTCTTCACGTGGTGTAACTCATTCGTTATTTACGTTTTGTGAAATAAATAATTT
582 TTTGTTGCAATTTCTTCACGTGGTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTT
* *
4284 GAAACGATATTTGGTCGAATTTGCATTCAAATACGAGGCGCATTTGCGATAAGGAGCAACCTTTA
647 GAAACGATATTTGGTCGAATTTGCATT-AAATTCGAGGCGCATTTGCGATAAGGGGCAACCTTTA
* * * * * *
4349 TATGAGTAGATTGCACAAGAGTTGACGGGTGCGATCATACCAGCACTAATACA-TGGTATCCCAT
711 TATGAATAGATAGCACAAGAGTTGACGGGTGCAATCATACTAGCACTAATGCACCGG-ATCCCAT
* * *
4413 CAGAACTCCGCAGTT-AAGCGTGTTTGGGCGAGAGTAGTACGAGGATGGATGACCTCCTAGGAAG
775 CAGAACTCCGCA-TTGAAGCGTGCTTGGGCGAGAGTAGTACGAGGATGGGTGACCTCCTTGGAAG
*
4477 -CCATCGTGTTGCACCCCTCCCATTTTATTTCATATAATA-TTTCCTTTAGTTGCATTTTCTCCA
839 TCC-TCGTGTTGCACCCCTCCCATTTTATTTCATATAATACTTT-TTTTAGTTGCATTTTCTCCA
4540 CGTG
902 CGTG
* ** * ** *
4544 GTGTAACACATTCGCGATTTACGTCGTGCGAAATAAATAATTTGAAACGATATTTGGTGGAATTT
1 GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
* * *
4609 GCCTTCAATTTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTACGCAAGAGT
66 GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGT
* * *
4674 TGACGGGTGCGATCACACCAGCAGTAATGCACCGGATCCCATTCA-AACGCCGCAGTTAAGCGTG
131 TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCA-TCAGAACTCCGCAGTTAAGCGTG
* * * * * *
4738 CTTGGGCGAGAGGATTACTAGGGTGGGCGACCTCCTGGGAAGTCCTCCTG--G-A-CCCTCCTAT
195 CTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
*
4799 TTTATTTCATATAATGTTTTTTGTTA-TCTGCATTTTCTCCACGTGGTGTAACTCA
260 TTTATTTCATATAATGTTTTTT-TTAGT-TGCATTTTCTCCACGTGGTCTAACTCA
Statistics
Matches: 3452, Mismatches: 398, Indels: 201
0.85 0.10 0.05
Matches are distributed among these distances:
883 6 0.00
884 236 0.07
885 94 0.03
886 92 0.03
887 24 0.01
888 10 0.00
889 10 0.00
890 1 0.00
891 11 0.00
892 24 0.01
893 1 0.00
898 1 0.00
900 2 0.00
901 31 0.01
902 33 0.01
903 325 0.09
904 458 0.13
905 362 0.10
906 789 0.23
907 161 0.05
908 3 0.00
921 1 0.00
922 219 0.06
923 6 0.00
924 3 0.00
925 1 0.00
926 2 0.00
928 1 0.00
930 1 0.00
933 1 0.00
935 3 0.00
937 1 0.00
938 55 0.02
939 1 0.00
942 123 0.04
943 358 0.10
944 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.31
Consensus pattern (905 bp):
GTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTT
GCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGT
TGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGC
TTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATT
TTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTCTAACTCATTCGTTATTTGT
GTTATGCGAAATAAATAATTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCACAAG
TGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGGAAGAGTTGACTGGTGCGATCATACAAGC
ACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTGCCTGGGCAAGAGTACTACTAGGC
TAGGTAACCTCCTGGAAGTCCTCGTATTGCACCCCTCCCATTTTATTTCATATAATTTTTTTTTG
TTGCAATTTCTTCACGTGGTGTAACTCATTCGTTATTTGCGTTTTGCGAAATAAATAATTTGAAA
CGATATTTGGTCGAATTTGCATTAAATTCGAGGCGCATTTGCGATAAGGGGCAACCTTTATATGA
ATAGATAGCACAAGAGTTGACGGGTGCAATCATACTAGCACTAATGCACCGGATCCCATCAGAAC
TCCGCATTGAAGCGTGCTTGGGCGAGAGTAGTACGAGGATGGGTGACCTCCTTGGAAGTCCTCGT
GTTGCACCCCTCCCATTTTATTTCATATAATACTTTTTTTAGTTGCATTTTCTCCACGTG
Found at i:3952 original size:303 final size:303
Alignment explanation
Indices: 2085--4853 Score: 3650
Period size: 301 Copynumber: 9.2 Consensus size: 303
2075 NNNNNNNNNN
* *
2085 TTTATTTCATATAATGCTTTTTTTTAGTTGCATTTTCTCCACGTGTTCTAACTCATTCGTTATTT
1 TTTATTTCATATAATG-TTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTT
* * * * * * *
2150 GTGTTATACGAAATAAATAATTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCACG
65 GCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCA
* * * ** *
2215 AGTGCGATAAGGGGCAGCCTTTATATGAATAGGTTGTGGAAGAGTTGACTAGTGCGATCATACAA
130 AGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCA
* * * * * * *
2280 GCACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTACCTGGACGAGAGTACTATTAG
195 GCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAG
* * * ** * *
2345 GCTAGGTAACCTCCTGGGTGGTCCTCGTATTACACCCCTCCCAT
260 GATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
* * *
2389 TTTATTTCATATAAT-TTTTTTTT-GTTGCAATTTCTTCACGTGGTGTAACTGATTCGTTATTTG
1 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
2452 CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATT-AAACTTCGAGGCGCA
66 CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAA-TTCGAGGCGCA
** * * * * * * *
2516 TTTGCGATAAGGGGTAACCTTTATATGAATAGATAGCACAAGAGTTGACGGGTGCAATCAAACTA
130 AGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCA
*
2581 GCACTAATGCACCGGATCCCATCAGAACTCC-CA-TTGAAGCGTGCTTGGGCGAGAGTAGTACGA
195 GCACTAATGCACCGGATCCCATCAGAACTCCGCAGTT-AAGCGTGCTTGGGCGAGAGTAGTACTA
*
2644 GGATGGGTGACCTCTTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
259 GGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
*** *
2689 TTTATTTCATATAATACATTTTTTAGTTGCATTTTGTCCACGTGGTGTAACTCATTCGTTATTTG
1 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
*
2754 CGTTGTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAA
66 CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAA
* * *
2819 GTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGTTGACGGGTACGATCATACCAG
131 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAG
* * *
2883 CACTAATGCACCGGATCCCATCAGAACTCCCCAGTCAAGCGTGCTTGGGTGAGAGTAGTACTAGG
196 CACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGG
2948 ATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
261 ATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
* *
2991 TTTATTTCATATAATGTTTTTTTTTAGTTGCATTTTCTCCACGTGTTCTAACTCATTCGTTATTT
1 TTTATTTCATATAATG-TTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTT
* * * * * * *
3056 GTGTTATACGAAATAAATAATTTGAAACGATATTCGGTCGAATTTGCATTAAAATTCGAGGCACG
65 GCGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCA
* * ** *
3121 AGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGTGGAAGAGTTGACTACG-GCGATCATACA
130 AGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGAC-GGGTGCGATCATACC
* * * * *
3185 AGCACTAATGCACCGGATCCCATTAGAACTCCGCAGTCAAGCGTGCCTGGGCGAGAGTACTATTA
194 AGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTA
* * * * *
3250 GGCTAGGTAACCTCCT-GGAAGGTCCTCGTATTACACCCCTCCCAT
259 GGATGGGTGACCTCCTGGGAA-GTCCTCGTGTTGCACCCCTCCCAT
* * *
3295 TTTATTTCATATAAT-TTTTTTTT-GTTGCAGTTTCTTCACGTGGTGTAACTGATTCGTTATTTG
1 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
*
3358 CATTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATT-AAACTTCGAGGCGCA
66 CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAA-TTCGAGGCGCA
** * * * * * *
3422 TTTGCAATAAGGGGCAACCTTTATATGAATAGATAGCACAAGAGTTGACGGGTGCAATCATACTA
130 AGTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCA
* *
3487 GCACTAATGCACCAGATCCCATCAGAACTCC-CA-TTGAAGCGTGCTTGGGCGAGAGTAGTACGA
195 GCACTAATGCACCGGATCCCATCAGAACTCCGCAGTT-AAGCGTGCTTGGGCGAGAGTAGTACTA
* * * *
3550 GGATGGGTGACCTCCTTGAAAGTCCTTGTGTTGCATCCCTCCCAT
259 GGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
* *
3595 TTTATTTCATATAATATTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATATG
1 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
* * * *
3660 CGTTTTGC-ATAATAAATAATTTGAAACGGTATTTGGTCGAATTTGCAGTCAAATTAGAGGAGCA
66 CGTTTTGCGA-AATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCA
* * * *
3724 AGTGCGATATGGGGCAG-CTGTTATATGAATGGATTGCGTAAGAGTTGACGTGTGCGATCATACC
130 AGTGCGATAAGGGGCAGCCT-TTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACC
* * * *
3788 AGCAATAATGCACCGGATCCCATTCA-AACGCCCCAGTTAAGCGTGCTTGGGCGAGAGTATTACT
194 AGCACTAATGCACCGGATCCCA-TCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACT
* * * *
3852 AGGGTGGGTGACATCCTGGGAAGCCCTCGTGTTGCACCCATCCCAT
258 AGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
3898 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
1 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
* * *
3963 CGTTCTGCGAAATAAATAATTTGAAACAATATTT-GTCGAATTTGCGTTCAAATTCGAGGCGCAA
66 CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAA
* * **
4027 GTGCGATAA-GGGCAGCCTTTATATTAATAGATTGCGCTAGAGTTGACGGGTATGATCATACCAG
131 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAG
* ** * * * * * *
4091 CACTAATGCACCAGATCCCATCAGAACTATGCAGTCAAGCGCGCCTGGGCAAGAGTAGTACTCGT
196 CACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGG
* * * *
4156 ATGGGTGACCTTCTGGGAAGTCCACATATTGCACCCCTCCCAT
261 ATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
* *
4199 TTTATTTCATATAA--TTTTTTTTAGTTGCATTTTCTTCACGTGGTGTAACTCATTCGTTATTTA
1 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
* * *
4262 CGTTTTGTGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATACGAGGCGCAT
66 CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAA
* * * * *
4327 TTGCGATAAGGAGCAACCTTTATATGAGTAGATTGCACAAGAGTTGACGGGTGCGATCATACCAG
131 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAG
* * * *
4392 CACTAATACA-TGGTATCCCATCAGAACTCCGCAGTTAAGCGTGTTTGGGCGAGAGTAGTACGAG
196 CACTAATGCACCGG-ATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAG
* *
4456 GATGGATGACCTCCTAGGAAG-CCATCGTGTTGCACCCCTCCCAT
260 GATGGGTGACCTCCTGGGAAGTCC-TCGTGTTGCACCCCTCCCAT
* ** * ** *
4500 TTTATTTCATATAATATTTCCTTTAGTTGCATTTTCTCCACGTGGTGTAACACATTCGCGATTTA
1 TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
** * * *
4565 CGTCGTGCGAAATAAATAATTTGAAACGATATTTGGTGGAATTTGCCTTCAATTTCGAGGCGCAA
66 CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAA
* *
4630 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTACGCAAGAGTTGACGGGTGCGATCACACCAG
131 GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAG
* * * *
4695 CAGTAATGCACCGGATCCCATTCA-AACGCCGCAGTTAAGCGTGCTTGGGCGAGAGGATTACTAG
196 CACTAATGCACCGGATCCCA-TCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAG
* * * *
4759 GGTGGGCGACCTCCTGGGAAGTCCTCCTG--G-A-CCCTCCTAT
260 GATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
4799 TTTATTTCATATAATGTTTTTTGTTA-TCTGCATTTTCTCCACGTGGTGTAACTCA
1 TTTATTTCATATAATGTTTTTT-TTAGT-TGCATTTTCTCCACGTGGTGTAACTCA
Statistics
Matches: 2146, Mismatches: 282, Indels: 78
0.86 0.11 0.03
Matches are distributed among these distances:
299 108 0.05
300 226 0.11
301 721 0.34
302 404 0.19
303 509 0.24
304 177 0.08
305 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (303 bp):
TTTATTTCATATAATGTTTTTTTTAGTTGCATTTTCTCCACGTGGTGTAACTCATTCGTTATTTG
CGTTTTGCGAAATAAATAATTTGAAACGATATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAA
GTGCGATAAGGGGCAGCCTTTATATGAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAG
CACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGG
ATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCAT
Done.