Multiple sequence alignment - TraesCS7B01G386700

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G386700 chr7B 100.000 2428 0 0 1 2428 651873326 651870899 0.000000e+00 4484.0
1 TraesCS7B01G386700 chr7B 86.982 1037 103 15 838 1858 656303843 656304863 0.000000e+00 1138.0
2 TraesCS7B01G386700 chr7B 89.323 665 59 3 1 663 652255614 652254960 0.000000e+00 824.0
3 TraesCS7B01G386700 chr7B 90.496 484 36 6 1 482 652174985 652174510 4.410000e-177 630.0
4 TraesCS7B01G386700 chr7B 90.249 482 33 4 1 474 652401905 652401430 3.430000e-173 617.0
5 TraesCS7B01G386700 chr7B 90.000 480 34 4 1 472 652440140 652439667 2.060000e-170 608.0
6 TraesCS7B01G386700 chr7B 88.773 481 41 4 1 474 652974868 652974394 5.820000e-161 577.0
7 TraesCS7B01G386700 chr7B 84.423 520 56 13 704 1209 652053582 652053074 2.810000e-134 488.0
8 TraesCS7B01G386700 chr7B 92.353 340 26 0 1897 2236 652166121 652165782 3.630000e-133 484.0
9 TraesCS7B01G386700 chr7B 89.728 331 34 0 1894 2224 656315083 656315413 8.030000e-115 424.0
10 TraesCS7B01G386700 chr7B 85.714 196 21 3 704 899 652172165 652171977 1.470000e-47 200.0
11 TraesCS7B01G386700 chr7B 94.737 38 2 0 1860 1897 656314999 656315036 2.610000e-05 60.2
12 TraesCS7B01G386700 chr7B 94.444 36 2 0 1860 1895 708671515 708671480 3.370000e-04 56.5
13 TraesCS7B01G386700 chr7D 88.042 945 94 11 927 1859 584214266 584213329 0.000000e+00 1101.0
14 TraesCS7B01G386700 chr7D 87.974 765 78 6 1102 1858 586115438 586116196 0.000000e+00 891.0
15 TraesCS7B01G386700 chr7D 87.582 765 81 6 1102 1858 586109213 586109971 0.000000e+00 874.0
16 TraesCS7B01G386700 chr7D 91.304 483 39 2 1 482 584277180 584277660 0.000000e+00 656.0
17 TraesCS7B01G386700 chr7D 92.375 459 32 2 1 459 583035050 583034595 0.000000e+00 651.0
18 TraesCS7B01G386700 chr7D 90.639 438 33 3 1 437 584217674 584217244 2.090000e-160 575.0
19 TraesCS7B01G386700 chr7D 91.935 372 29 1 1898 2269 584213079 584212709 9.950000e-144 520.0
20 TraesCS7B01G386700 chr7D 88.580 324 34 2 1541 1863 584589850 584589529 8.140000e-105 390.0
21 TraesCS7B01G386700 chr7D 85.424 295 26 1 2107 2384 584589134 584588840 8.490000e-75 291.0
22 TraesCS7B01G386700 chr7D 84.848 165 19 2 704 868 582599680 582599522 6.950000e-36 161.0
23 TraesCS7B01G386700 chr7D 86.792 106 8 2 709 814 586121240 586121339 1.970000e-21 113.0
24 TraesCS7B01G386700 chr7D 94.545 55 2 1 833 887 586108833 586108886 1.550000e-12 84.2
25 TraesCS7B01G386700 chr7A 87.869 948 97 7 923 1858 676995104 676996045 0.000000e+00 1098.0
26 TraesCS7B01G386700 chr7A 87.935 920 97 7 949 1859 677446646 677447560 0.000000e+00 1072.0
27 TraesCS7B01G386700 chr7A 87.821 936 83 9 702 1615 675875137 675876063 0.000000e+00 1068.0
28 TraesCS7B01G386700 chr7A 87.821 936 83 9 702 1615 675913012 675913938 0.000000e+00 1068.0
29 TraesCS7B01G386700 chr7A 87.079 921 100 9 949 1859 677616604 677617515 0.000000e+00 1024.0
30 TraesCS7B01G386700 chr7A 88.843 484 46 2 1 482 674683143 674682666 2.690000e-164 588.0
31 TraesCS7B01G386700 chr7A 90.937 331 30 0 1894 2224 677001502 677001832 1.710000e-121 446.0
32 TraesCS7B01G386700 chr7A 90.596 319 30 0 1894 2212 675876452 675876770 8.030000e-115 424.0
33 TraesCS7B01G386700 chr7A 90.596 319 30 0 1894 2212 675914327 675914645 8.030000e-115 424.0
34 TraesCS7B01G386700 chr7A 89.728 331 34 0 1894 2224 677201122 677201452 8.030000e-115 424.0
35 TraesCS7B01G386700 chr7A 90.000 110 11 0 2272 2381 677201461 677201570 2.520000e-30 143.0
36 TraesCS7B01G386700 chr7A 87.963 108 7 2 707 814 677616455 677616556 3.280000e-24 122.0
37 TraesCS7B01G386700 chr7A 91.566 83 7 0 2299 2381 675920206 675920288 5.490000e-22 115.0
38 TraesCS7B01G386700 chr7A 83.333 108 12 2 707 814 676994665 676994766 7.150000e-16 95.3
39 TraesCS7B01G386700 chr7A 86.567 67 3 2 748 814 677446538 677446598 4.330000e-08 69.4
40 TraesCS7B01G386700 chr2D 85.938 512 46 3 1897 2384 107820399 107819890 7.690000e-145 523.0
41 TraesCS7B01G386700 chr2D 100.000 39 0 0 1860 1898 107820486 107820448 3.350000e-09 73.1
42 TraesCS7B01G386700 chrUn 90.596 319 30 0 1894 2212 308864072 308864390 8.030000e-115 424.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G386700 chr7B 651870899 651873326 2427 True 4484.00 4484 100.000000 1 2428 1 chr7B.!!$R1 2427
1 TraesCS7B01G386700 chr7B 656303843 656304863 1020 False 1138.00 1138 86.982000 838 1858 1 chr7B.!!$F1 1020
2 TraesCS7B01G386700 chr7B 652254960 652255614 654 True 824.00 824 89.323000 1 663 1 chr7B.!!$R4 662
3 TraesCS7B01G386700 chr7B 652053074 652053582 508 True 488.00 488 84.423000 704 1209 1 chr7B.!!$R2 505
4 TraesCS7B01G386700 chr7B 652171977 652174985 3008 True 415.00 630 88.105000 1 899 2 chr7B.!!$R9 898
5 TraesCS7B01G386700 chr7D 586115438 586116196 758 False 891.00 891 87.974000 1102 1858 1 chr7D.!!$F2 756
6 TraesCS7B01G386700 chr7D 584212709 584217674 4965 True 732.00 1101 90.205333 1 2269 3 chr7D.!!$R3 2268
7 TraesCS7B01G386700 chr7D 586108833 586109971 1138 False 479.10 874 91.063500 833 1858 2 chr7D.!!$F4 1025
8 TraesCS7B01G386700 chr7D 584588840 584589850 1010 True 340.50 390 87.002000 1541 2384 2 chr7D.!!$R4 843
9 TraesCS7B01G386700 chr7A 675875137 675876770 1633 False 746.00 1068 89.208500 702 2212 2 chr7A.!!$F3 1510
10 TraesCS7B01G386700 chr7A 675913012 675914645 1633 False 746.00 1068 89.208500 702 2212 2 chr7A.!!$F4 1510
11 TraesCS7B01G386700 chr7A 676994665 676996045 1380 False 596.65 1098 85.601000 707 1858 2 chr7A.!!$F5 1151
12 TraesCS7B01G386700 chr7A 677616455 677617515 1060 False 573.00 1024 87.521000 707 1859 2 chr7A.!!$F8 1152
13 TraesCS7B01G386700 chr7A 677446538 677447560 1022 False 570.70 1072 87.251000 748 1859 2 chr7A.!!$F7 1111
14 TraesCS7B01G386700 chr2D 107819890 107820486 596 True 298.05 523 92.969000 1860 2384 2 chr2D.!!$R1 524

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
495 509 0.033781 CAAACCACCAGGCACCAATG 59.966 55.0 0.0 0.0 39.06 2.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2381 7051 0.031994 AGAATGCAACCAAACGCACC 59.968 50.0 0.0 0.0 41.79 5.01 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 9.382275 GTTCATGCTTTTATTTTATGGTGGAAT 57.618 29.630 0.00 0.00 0.00 3.01
108 109 2.356382 GACTTCTCACTCGATCGTCCAT 59.644 50.000 15.94 0.00 0.00 3.41
122 123 1.160137 GTCCATCAAACTGCTCGCTT 58.840 50.000 0.00 0.00 0.00 4.68
134 135 5.288543 ACTGCTCGCTTATTCTTTTCTTG 57.711 39.130 0.00 0.00 0.00 3.02
137 138 6.150140 ACTGCTCGCTTATTCTTTTCTTGAAT 59.850 34.615 0.00 0.00 37.78 2.57
143 144 8.017373 TCGCTTATTCTTTTCTTGAATGTTCAG 58.983 33.333 0.00 0.00 38.61 3.02
151 152 8.739039 TCTTTTCTTGAATGTTCAGAAACTTCA 58.261 29.630 14.30 5.06 38.61 3.02
176 177 1.112315 ACAACCAATGGCGCCTTCAA 61.112 50.000 29.70 7.47 0.00 2.69
202 203 2.616634 ATCTCTGTGCGATCATGCTT 57.383 45.000 0.00 0.00 35.36 3.91
203 204 1.931906 TCTCTGTGCGATCATGCTTC 58.068 50.000 0.00 0.00 35.36 3.86
215 216 5.606266 CGATCATGCTTCTAATTGTCATCG 58.394 41.667 0.00 0.00 0.00 3.84
221 222 1.934589 TCTAATTGTCATCGTGGCCG 58.065 50.000 0.00 0.00 0.00 6.13
243 244 2.030363 CCGGTATGTTTGTGCACATGTT 60.030 45.455 22.39 8.73 37.93 2.71
290 291 1.422024 TCCGTATCTCTCCTAGCAGCT 59.578 52.381 0.00 0.00 0.00 4.24
305 306 1.950472 CAGCTTAAGTCGTTTTGGCG 58.050 50.000 4.02 0.00 0.00 5.69
332 333 3.712016 TGGCTGGTTCATGCTACTTAA 57.288 42.857 0.00 0.00 0.00 1.85
390 391 0.168788 AACCATGTTCTTGCATCGCG 59.831 50.000 0.00 0.00 0.00 5.87
392 393 1.006086 CCATGTTCTTGCATCGCGTA 58.994 50.000 5.77 0.00 0.00 4.42
431 432 1.078567 TGCATGCATACAGTCGGCA 60.079 52.632 18.46 0.00 42.43 5.69
437 438 1.151668 GCATACAGTCGGCATCCATC 58.848 55.000 0.00 0.00 0.00 3.51
438 439 1.422388 CATACAGTCGGCATCCATCG 58.578 55.000 0.00 0.00 0.00 3.84
449 463 3.070018 GGCATCCATCGGATACTCTTTG 58.930 50.000 0.00 0.00 40.98 2.77
450 464 2.481952 GCATCCATCGGATACTCTTTGC 59.518 50.000 0.00 0.00 40.98 3.68
459 473 2.484264 GGATACTCTTTGCACACACACC 59.516 50.000 0.00 0.00 0.00 4.16
475 489 3.623060 ACACACCTAAGCAGCAATTATCG 59.377 43.478 0.00 0.00 0.00 2.92
478 492 3.065233 CACCTAAGCAGCAATTATCGCAA 59.935 43.478 0.00 0.00 0.00 4.85
482 496 1.818060 AGCAGCAATTATCGCAAACCA 59.182 42.857 0.00 0.00 0.00 3.67
483 497 1.919918 GCAGCAATTATCGCAAACCAC 59.080 47.619 0.00 0.00 0.00 4.16
484 498 2.529151 CAGCAATTATCGCAAACCACC 58.471 47.619 0.00 0.00 0.00 4.61
485 499 2.094803 CAGCAATTATCGCAAACCACCA 60.095 45.455 0.00 0.00 0.00 4.17
486 500 2.164219 AGCAATTATCGCAAACCACCAG 59.836 45.455 0.00 0.00 0.00 4.00
487 501 2.735126 GCAATTATCGCAAACCACCAGG 60.735 50.000 0.00 0.00 42.21 4.45
488 502 1.102978 ATTATCGCAAACCACCAGGC 58.897 50.000 0.00 0.00 39.06 4.85
489 503 0.250945 TTATCGCAAACCACCAGGCA 60.251 50.000 0.00 0.00 39.06 4.75
490 504 0.958382 TATCGCAAACCACCAGGCAC 60.958 55.000 0.00 0.00 39.06 5.01
492 506 2.837291 GCAAACCACCAGGCACCA 60.837 61.111 0.00 0.00 39.06 4.17
493 507 2.430610 GCAAACCACCAGGCACCAA 61.431 57.895 0.00 0.00 39.06 3.67
494 508 1.757423 GCAAACCACCAGGCACCAAT 61.757 55.000 0.00 0.00 39.06 3.16
495 509 0.033781 CAAACCACCAGGCACCAATG 59.966 55.000 0.00 0.00 39.06 2.82
497 511 0.105760 AACCACCAGGCACCAATGAA 60.106 50.000 0.00 0.00 39.06 2.57
498 512 0.114954 ACCACCAGGCACCAATGAAT 59.885 50.000 0.00 0.00 39.06 2.57
499 513 1.357420 ACCACCAGGCACCAATGAATA 59.643 47.619 0.00 0.00 39.06 1.75
500 514 2.026641 CCACCAGGCACCAATGAATAG 58.973 52.381 0.00 0.00 0.00 1.73
502 516 2.424601 CACCAGGCACCAATGAATAGTG 59.575 50.000 0.00 0.00 34.58 2.74
503 517 2.041620 ACCAGGCACCAATGAATAGTGT 59.958 45.455 0.00 0.00 33.96 3.55
510 524 2.041620 ACCAATGAATAGTGTGGTGCCT 59.958 45.455 0.00 0.00 42.79 4.75
511 525 3.091545 CCAATGAATAGTGTGGTGCCTT 58.908 45.455 0.00 0.00 0.00 4.35
512 526 3.129287 CCAATGAATAGTGTGGTGCCTTC 59.871 47.826 0.00 0.00 0.00 3.46
513 527 3.719268 ATGAATAGTGTGGTGCCTTCA 57.281 42.857 0.00 0.00 0.00 3.02
514 528 3.719268 TGAATAGTGTGGTGCCTTCAT 57.281 42.857 0.00 0.00 0.00 2.57
515 529 3.609853 TGAATAGTGTGGTGCCTTCATC 58.390 45.455 0.00 0.00 0.00 2.92
517 531 0.391130 TAGTGTGGTGCCTTCATCGC 60.391 55.000 0.00 0.00 34.50 4.58
518 532 2.359850 TGTGGTGCCTTCATCGCC 60.360 61.111 0.00 0.00 32.98 5.54
522 536 2.747460 GTGCCTTCATCGCCTGCA 60.747 61.111 0.00 0.00 0.00 4.41
523 537 2.747460 TGCCTTCATCGCCTGCAC 60.747 61.111 0.00 0.00 0.00 4.57
524 538 3.512516 GCCTTCATCGCCTGCACC 61.513 66.667 0.00 0.00 0.00 5.01
525 539 2.046023 CCTTCATCGCCTGCACCA 60.046 61.111 0.00 0.00 0.00 4.17
526 540 1.675310 CCTTCATCGCCTGCACCAA 60.675 57.895 0.00 0.00 0.00 3.67
528 542 0.813184 CTTCATCGCCTGCACCAATT 59.187 50.000 0.00 0.00 0.00 2.32
529 543 1.203052 CTTCATCGCCTGCACCAATTT 59.797 47.619 0.00 0.00 0.00 1.82
530 544 1.255882 TCATCGCCTGCACCAATTTT 58.744 45.000 0.00 0.00 0.00 1.82
531 545 1.617850 TCATCGCCTGCACCAATTTTT 59.382 42.857 0.00 0.00 0.00 1.94
532 546 1.994779 CATCGCCTGCACCAATTTTTC 59.005 47.619 0.00 0.00 0.00 2.29
533 547 1.327303 TCGCCTGCACCAATTTTTCT 58.673 45.000 0.00 0.00 0.00 2.52
534 548 1.686052 TCGCCTGCACCAATTTTTCTT 59.314 42.857 0.00 0.00 0.00 2.52
535 549 1.794116 CGCCTGCACCAATTTTTCTTG 59.206 47.619 0.00 0.00 0.00 3.02
536 550 2.802774 CGCCTGCACCAATTTTTCTTGT 60.803 45.455 0.00 0.00 0.00 3.16
540 554 5.355596 CCTGCACCAATTTTTCTTGTACAA 58.644 37.500 8.28 8.28 0.00 2.41
541 555 5.814705 CCTGCACCAATTTTTCTTGTACAAA 59.185 36.000 10.03 0.00 0.00 2.83
542 556 6.314896 CCTGCACCAATTTTTCTTGTACAAAA 59.685 34.615 10.03 1.20 0.00 2.44
543 557 7.301068 TGCACCAATTTTTCTTGTACAAAAG 57.699 32.000 10.03 0.00 0.00 2.27
544 558 7.099764 TGCACCAATTTTTCTTGTACAAAAGA 58.900 30.769 10.03 1.10 34.36 2.52
545 559 7.604164 TGCACCAATTTTTCTTGTACAAAAGAA 59.396 29.630 10.03 7.79 42.89 2.52
546 560 8.611757 GCACCAATTTTTCTTGTACAAAAGAAT 58.388 29.630 10.03 10.41 43.75 2.40
547 561 9.919348 CACCAATTTTTCTTGTACAAAAGAATG 57.081 29.630 10.03 5.85 43.75 2.67
548 562 8.611757 ACCAATTTTTCTTGTACAAAAGAATGC 58.388 29.630 10.03 0.00 43.75 3.56
549 563 8.610896 CCAATTTTTCTTGTACAAAAGAATGCA 58.389 29.630 10.03 0.00 43.75 3.96
550 564 9.985318 CAATTTTTCTTGTACAAAAGAATGCAA 57.015 25.926 10.03 5.05 43.75 4.08
552 566 8.770438 TTTTTCTTGTACAAAAGAATGCAAGT 57.230 26.923 10.03 0.00 43.75 3.16
553 567 9.862371 TTTTTCTTGTACAAAAGAATGCAAGTA 57.138 25.926 10.03 0.00 43.75 2.24
555 569 9.677567 TTTCTTGTACAAAAGAATGCAAGTATC 57.322 29.630 10.03 0.00 43.75 2.24
556 570 7.816640 TCTTGTACAAAAGAATGCAAGTATCC 58.183 34.615 10.03 0.00 35.96 2.59
557 571 7.446931 TCTTGTACAAAAGAATGCAAGTATCCA 59.553 33.333 10.03 0.00 35.96 3.41
558 572 7.144722 TGTACAAAAGAATGCAAGTATCCAG 57.855 36.000 0.00 0.00 0.00 3.86
560 574 4.082026 ACAAAAGAATGCAAGTATCCAGCC 60.082 41.667 0.00 0.00 0.00 4.85
561 575 2.355010 AGAATGCAAGTATCCAGCCC 57.645 50.000 0.00 0.00 0.00 5.19
564 578 0.475906 ATGCAAGTATCCAGCCCCTC 59.524 55.000 0.00 0.00 0.00 4.30
567 581 0.181350 CAAGTATCCAGCCCCTCCAC 59.819 60.000 0.00 0.00 0.00 4.02
568 582 0.988678 AAGTATCCAGCCCCTCCACC 60.989 60.000 0.00 0.00 0.00 4.61
569 583 1.692749 GTATCCAGCCCCTCCACCA 60.693 63.158 0.00 0.00 0.00 4.17
570 584 1.692749 TATCCAGCCCCTCCACCAC 60.693 63.158 0.00 0.00 0.00 4.16
571 585 2.484868 TATCCAGCCCCTCCACCACA 62.485 60.000 0.00 0.00 0.00 4.17
573 587 2.765969 CAGCCCCTCCACCACATT 59.234 61.111 0.00 0.00 0.00 2.71
574 588 1.077265 CAGCCCCTCCACCACATTT 59.923 57.895 0.00 0.00 0.00 2.32
576 590 1.080638 AGCCCCTCCACCACATTTTA 58.919 50.000 0.00 0.00 0.00 1.52
579 593 2.821625 GCCCCTCCACCACATTTTACTT 60.822 50.000 0.00 0.00 0.00 2.24
581 595 3.258123 CCCCTCCACCACATTTTACTTTG 59.742 47.826 0.00 0.00 0.00 2.77
582 596 3.258123 CCCTCCACCACATTTTACTTTGG 59.742 47.826 0.00 0.00 35.06 3.28
584 598 2.630580 TCCACCACATTTTACTTTGGCC 59.369 45.455 0.00 0.00 31.76 5.36
585 599 2.289382 CCACCACATTTTACTTTGGCCC 60.289 50.000 0.00 0.00 31.76 5.80
586 600 2.366916 CACCACATTTTACTTTGGCCCA 59.633 45.455 0.00 0.00 31.76 5.36
587 601 2.632512 ACCACATTTTACTTTGGCCCAG 59.367 45.455 0.00 0.00 31.76 4.45
588 602 2.612721 CCACATTTTACTTTGGCCCAGC 60.613 50.000 0.00 0.00 0.00 4.85
589 603 2.036992 CACATTTTACTTTGGCCCAGCA 59.963 45.455 0.00 0.00 0.00 4.41
590 604 2.299867 ACATTTTACTTTGGCCCAGCAG 59.700 45.455 0.00 0.00 0.00 4.24
591 605 2.080654 TTTTACTTTGGCCCAGCAGT 57.919 45.000 0.00 3.38 0.00 4.40
592 606 2.961531 TTTACTTTGGCCCAGCAGTA 57.038 45.000 0.00 0.00 0.00 2.74
593 607 2.489938 TTACTTTGGCCCAGCAGTAG 57.510 50.000 0.00 0.00 0.00 2.57
594 608 0.618458 TACTTTGGCCCAGCAGTAGG 59.382 55.000 0.00 0.00 0.00 3.18
604 618 2.342279 GCAGTAGGCGACACCACA 59.658 61.111 0.00 0.00 43.14 4.17
605 619 1.301401 GCAGTAGGCGACACCACAA 60.301 57.895 0.00 0.00 43.14 3.33
606 620 0.673644 GCAGTAGGCGACACCACAAT 60.674 55.000 0.00 0.00 43.14 2.71
607 621 1.078709 CAGTAGGCGACACCACAATG 58.921 55.000 0.00 0.00 43.14 2.82
608 622 0.685097 AGTAGGCGACACCACAATGT 59.315 50.000 0.00 0.00 43.14 2.71
609 623 1.071699 AGTAGGCGACACCACAATGTT 59.928 47.619 0.00 0.00 43.14 2.71
610 624 2.300723 AGTAGGCGACACCACAATGTTA 59.699 45.455 0.00 0.00 43.14 2.41
613 627 0.168128 GCGACACCACAATGTTAGCC 59.832 55.000 0.00 0.00 33.26 3.93
614 628 1.808411 CGACACCACAATGTTAGCCT 58.192 50.000 0.00 0.00 31.24 4.58
615 629 1.732259 CGACACCACAATGTTAGCCTC 59.268 52.381 0.00 0.00 31.24 4.70
618 632 2.086869 CACCACAATGTTAGCCTCCAG 58.913 52.381 0.00 0.00 0.00 3.86
619 633 1.098050 CCACAATGTTAGCCTCCAGC 58.902 55.000 0.00 0.00 44.25 4.85
631 645 1.949547 GCCTCCAGCAGCATGATATCC 60.950 57.143 0.00 0.00 42.97 2.59
636 650 5.129980 CCTCCAGCAGCATGATATCCTTATA 59.870 44.000 0.00 0.00 39.69 0.98
637 651 6.352479 CCTCCAGCAGCATGATATCCTTATAA 60.352 42.308 0.00 0.00 39.69 0.98
639 653 7.278135 TCCAGCAGCATGATATCCTTATAATC 58.722 38.462 0.00 0.00 39.69 1.75
640 654 6.485984 CCAGCAGCATGATATCCTTATAATCC 59.514 42.308 0.00 0.00 39.69 3.01
642 656 7.226918 CAGCAGCATGATATCCTTATAATCCAG 59.773 40.741 0.00 0.00 39.69 3.86
643 657 6.017275 GCAGCATGATATCCTTATAATCCAGC 60.017 42.308 0.00 0.00 39.69 4.85
645 659 7.441760 CAGCATGATATCCTTATAATCCAGCTC 59.558 40.741 0.00 0.00 39.69 4.09
646 660 7.126879 AGCATGATATCCTTATAATCCAGCTCA 59.873 37.037 0.00 0.00 0.00 4.26
647 661 7.226325 GCATGATATCCTTATAATCCAGCTCAC 59.774 40.741 0.00 0.00 0.00 3.51
648 662 7.797121 TGATATCCTTATAATCCAGCTCACA 57.203 36.000 0.00 0.00 0.00 3.58
650 664 8.829746 TGATATCCTTATAATCCAGCTCACAAT 58.170 33.333 0.00 0.00 0.00 2.71
651 665 9.107177 GATATCCTTATAATCCAGCTCACAATG 57.893 37.037 0.00 0.00 0.00 2.82
653 667 6.291377 TCCTTATAATCCAGCTCACAATGAC 58.709 40.000 0.00 0.00 0.00 3.06
654 668 6.100279 TCCTTATAATCCAGCTCACAATGACT 59.900 38.462 0.00 0.00 0.00 3.41
655 669 6.426328 CCTTATAATCCAGCTCACAATGACTC 59.574 42.308 0.00 0.00 0.00 3.36
656 670 3.708403 AATCCAGCTCACAATGACTCA 57.292 42.857 0.00 0.00 0.00 3.41
657 671 2.756840 TCCAGCTCACAATGACTCAG 57.243 50.000 0.00 0.00 0.00 3.35
658 672 1.085091 CCAGCTCACAATGACTCAGC 58.915 55.000 0.00 0.00 0.00 4.26
659 673 1.338864 CCAGCTCACAATGACTCAGCT 60.339 52.381 0.00 0.00 0.00 4.24
660 674 2.093816 CCAGCTCACAATGACTCAGCTA 60.094 50.000 0.00 0.00 0.00 3.32
662 676 1.932511 GCTCACAATGACTCAGCTAGC 59.067 52.381 6.62 6.62 0.00 3.42
663 677 2.191802 CTCACAATGACTCAGCTAGCG 58.808 52.381 9.55 4.60 0.00 4.26
664 678 0.649475 CACAATGACTCAGCTAGCGC 59.351 55.000 9.55 0.00 0.00 5.92
665 679 0.460987 ACAATGACTCAGCTAGCGCC 60.461 55.000 9.55 0.00 36.60 6.53
666 680 0.179089 CAATGACTCAGCTAGCGCCT 60.179 55.000 9.55 0.00 36.60 5.52
667 681 0.103937 AATGACTCAGCTAGCGCCTC 59.896 55.000 9.55 3.57 36.60 4.70
669 683 2.363018 ACTCAGCTAGCGCCTCCA 60.363 61.111 9.55 0.00 36.60 3.86
670 684 2.348605 GACTCAGCTAGCGCCTCCAG 62.349 65.000 9.55 0.00 36.60 3.86
672 686 4.152964 CAGCTAGCGCCTCCAGCA 62.153 66.667 19.08 0.00 44.04 4.41
673 687 3.847602 AGCTAGCGCCTCCAGCAG 61.848 66.667 19.08 2.15 44.04 4.24
675 689 4.152964 CTAGCGCCTCCAGCAGCA 62.153 66.667 2.29 0.00 44.04 4.41
676 690 3.457625 CTAGCGCCTCCAGCAGCAT 62.458 63.158 2.29 0.00 44.04 3.79
677 691 3.745240 TAGCGCCTCCAGCAGCATG 62.745 63.158 2.29 0.00 44.04 4.06
682 696 1.451067 GCCTCCAGCAGCATGATATC 58.549 55.000 0.00 0.00 42.97 1.63
683 697 1.949547 GCCTCCAGCAGCATGATATCC 60.950 57.143 0.00 0.00 42.97 2.59
684 698 1.629353 CCTCCAGCAGCATGATATCCT 59.371 52.381 0.00 0.00 39.69 3.24
685 699 2.040012 CCTCCAGCAGCATGATATCCTT 59.960 50.000 0.00 0.00 39.69 3.36
687 701 4.252073 CTCCAGCAGCATGATATCCTTAC 58.748 47.826 0.00 0.00 39.69 2.34
689 703 4.102996 TCCAGCAGCATGATATCCTTACAA 59.897 41.667 0.00 0.00 39.69 2.41
690 704 5.008331 CCAGCAGCATGATATCCTTACAAT 58.992 41.667 0.00 0.00 39.69 2.71
691 705 5.123502 CCAGCAGCATGATATCCTTACAATC 59.876 44.000 0.00 0.00 39.69 2.67
692 706 5.123502 CAGCAGCATGATATCCTTACAATCC 59.876 44.000 0.00 0.00 39.69 3.01
694 708 5.123502 GCAGCATGATATCCTTACAATCCAG 59.876 44.000 0.00 0.00 39.69 3.86
695 709 5.123502 CAGCATGATATCCTTACAATCCAGC 59.876 44.000 0.00 0.00 39.69 4.85
697 711 5.353678 GCATGATATCCTTACAATCCAGCTC 59.646 44.000 0.00 0.00 0.00 4.09
698 712 6.470278 CATGATATCCTTACAATCCAGCTCA 58.530 40.000 0.00 0.00 0.00 4.26
699 713 5.858381 TGATATCCTTACAATCCAGCTCAC 58.142 41.667 0.00 0.00 0.00 3.51
700 714 5.366477 TGATATCCTTACAATCCAGCTCACA 59.634 40.000 0.00 0.00 0.00 3.58
718 1348 1.228862 AATGGCCGGCTTCCAACTT 60.229 52.632 28.56 5.28 37.13 2.66
719 1349 1.535204 AATGGCCGGCTTCCAACTTG 61.535 55.000 28.56 0.00 37.13 3.16
757 1603 6.655003 ACGTCATTCAAATTTGTCTCCACTAT 59.345 34.615 17.47 0.00 0.00 2.12
770 1616 3.330701 TCTCCACTATCAACCTTTGGCTT 59.669 43.478 0.00 0.00 0.00 4.35
771 1617 4.082125 CTCCACTATCAACCTTTGGCTTT 58.918 43.478 0.00 0.00 0.00 3.51
772 1618 3.826157 TCCACTATCAACCTTTGGCTTTG 59.174 43.478 0.00 0.00 0.00 2.77
773 1619 3.056607 CCACTATCAACCTTTGGCTTTGG 60.057 47.826 0.00 0.00 0.00 3.28
774 1620 2.562738 ACTATCAACCTTTGGCTTTGGC 59.437 45.455 0.00 0.00 37.82 4.52
775 1621 1.422531 ATCAACCTTTGGCTTTGGCA 58.577 45.000 0.00 0.00 40.87 4.92
784 1630 0.821301 TGGCTTTGGCACGTTGATGA 60.821 50.000 0.00 0.00 40.87 2.92
879 1725 5.454897 GGAAAACACTAGGGGATAGGATCAC 60.455 48.000 0.00 0.00 35.63 3.06
901 3330 5.050490 ACATGTTTATGCTTCTACTAGGCG 58.950 41.667 0.00 0.00 37.85 5.52
921 3358 5.878669 AGGCGTGTGATATATATACTGTCGA 59.121 40.000 0.00 0.00 0.00 4.20
939 3430 4.023107 TGTCGAACTTCTTCTCACTCGATT 60.023 41.667 0.00 0.00 37.61 3.34
1060 3562 2.418368 AATTGTCATCTTAGCCGCCA 57.582 45.000 0.00 0.00 0.00 5.69
1156 3677 4.638421 TGGCTGGTGTATGCAACTTAATAC 59.362 41.667 0.00 0.00 32.44 1.89
1157 3678 4.881850 GGCTGGTGTATGCAACTTAATACT 59.118 41.667 0.00 0.00 32.44 2.12
1158 3679 6.053005 GGCTGGTGTATGCAACTTAATACTA 58.947 40.000 0.00 0.00 32.44 1.82
1211 3732 8.859090 AGATGTTGTTTTGATTAATCTGTTGGA 58.141 29.630 16.24 0.00 0.00 3.53
1316 3853 2.613977 CCTGAGCGGCAATTATAGAGGG 60.614 54.545 1.45 0.00 0.00 4.30
1348 3888 0.038435 TTTACCGACGGTTGCGATCA 60.038 50.000 27.06 1.25 37.09 2.92
1349 3889 0.038435 TTACCGACGGTTGCGATCAA 60.038 50.000 27.06 8.56 37.09 2.57
1373 3913 0.926846 GCGAAGATGAAAGCTCCGAG 59.073 55.000 0.00 0.00 22.83 4.63
1406 3946 2.405357 CGAGTGTGACTGCGACTTTAAG 59.595 50.000 0.00 0.00 0.00 1.85
1441 3984 5.411831 ACATGCTAGTCTGAGATTGTTGA 57.588 39.130 0.00 0.00 0.00 3.18
1463 4006 0.458260 TTGCTAGCGCTCCGATACAA 59.542 50.000 16.34 7.89 36.97 2.41
1480 4023 3.703286 ACAACCATGATGCAATGATCG 57.297 42.857 0.00 0.00 0.00 3.69
1504 4048 6.322491 GCAGCCTGACGTTTCTTAAAAATAT 58.678 36.000 0.00 0.00 0.00 1.28
1606 4682 8.394121 GGTGAGATTGTTTTGAGATATGAAGTC 58.606 37.037 0.00 0.00 0.00 3.01
1665 5749 1.001048 CCTGCCCGATCGTTTCGTATA 60.001 52.381 15.09 0.00 46.65 1.47
1670 5754 3.040795 CCCGATCGTTTCGTATACTGTG 58.959 50.000 15.09 0.00 46.65 3.66
1687 6063 1.973515 TGTGAGCTGTCATCAAGTCCT 59.026 47.619 0.00 0.00 34.36 3.85
1739 6115 5.309638 CGTATTGATAGAGAGAGTCCCTCA 58.690 45.833 4.31 0.00 44.40 3.86
1808 6184 2.350895 CCGTCATGGCCAAGTCCA 59.649 61.111 10.96 0.00 40.97 4.02
1838 6224 2.297315 GACTCCATCACGCCATAGATCA 59.703 50.000 0.00 0.00 0.00 2.92
1903 6543 0.535335 TCCTGACATACGGGCTGTTC 59.465 55.000 3.31 0.00 44.31 3.18
1927 6567 4.033243 GGTTCGGATGATTGTAACGTAACC 59.967 45.833 0.00 0.00 32.34 2.85
1951 6591 7.511714 ACCTATTTACGGAGGGTAATAGATGTT 59.488 37.037 0.00 0.00 40.64 2.71
1964 6604 7.441458 GGGTAATAGATGTTGTTGGATAGTGTC 59.559 40.741 0.00 0.00 0.00 3.67
2022 6662 2.611224 GGATACCCGACGTCACAAAAGT 60.611 50.000 17.16 5.47 0.00 2.66
2025 6665 1.292061 CCCGACGTCACAAAAGTGAA 58.708 50.000 17.16 0.00 34.88 3.18
2037 6677 2.362668 AAAGTGAAAACGCTCGAACG 57.637 45.000 6.68 6.68 39.50 3.95
2040 6680 1.883544 TGAAAACGCTCGAACGGCA 60.884 52.632 13.42 2.53 37.37 5.69
2053 6693 2.414559 CGAACGGCAATGCTTTCAATCT 60.415 45.455 16.30 0.00 0.00 2.40
2123 6763 0.028505 GCTCATGCCTGCACATAACG 59.971 55.000 0.00 0.00 0.00 3.18
2162 6802 4.643463 GATCTCAGGATCATCTTGCACAT 58.357 43.478 0.00 0.00 45.54 3.21
2197 6843 7.310664 CACAACTGACATGAATTAGAGCAAAT 58.689 34.615 0.00 0.00 0.00 2.32
2296 6966 3.966215 TGCTGCTTGCGGAAGTAC 58.034 55.556 18.40 9.05 46.63 2.73
2311 6981 0.413832 AGTACCTGGAGAGCCCTTCA 59.586 55.000 0.00 0.00 35.38 3.02
2312 6982 1.008938 AGTACCTGGAGAGCCCTTCAT 59.991 52.381 0.00 0.00 35.38 2.57
2318 6988 0.107459 GGAGAGCCCTTCATGTGGTC 60.107 60.000 0.00 0.00 0.00 4.02
2360 7030 3.244044 GGGCAACTAAAGGTGATTTGCAA 60.244 43.478 0.00 0.00 43.54 4.08
2381 7051 5.516996 CAAGTGCATGCATTATCACTTAGG 58.483 41.667 25.64 16.82 44.93 2.69
2384 7054 3.884693 TGCATGCATTATCACTTAGGGTG 59.115 43.478 18.46 0.00 46.60 4.61
2385 7055 3.304928 GCATGCATTATCACTTAGGGTGC 60.305 47.826 14.21 0.00 44.98 5.01
2386 7056 2.560504 TGCATTATCACTTAGGGTGCG 58.439 47.619 0.00 0.00 44.98 5.34
2387 7057 2.093181 TGCATTATCACTTAGGGTGCGT 60.093 45.455 0.00 0.00 44.98 5.24
2393 7063 1.134037 TCACTTAGGGTGCGTTTGGTT 60.134 47.619 0.00 0.00 44.98 3.67
2396 7066 0.752009 TTAGGGTGCGTTTGGTTGCA 60.752 50.000 0.00 0.00 39.13 4.08
2397 7067 0.538516 TAGGGTGCGTTTGGTTGCAT 60.539 50.000 0.00 0.00 43.96 3.96
2398 7068 1.068921 GGGTGCGTTTGGTTGCATT 59.931 52.632 0.00 0.00 43.96 3.56
2401 7071 1.537990 GGTGCGTTTGGTTGCATTCTT 60.538 47.619 0.00 0.00 43.96 2.52
2402 7072 1.786579 GTGCGTTTGGTTGCATTCTTC 59.213 47.619 0.00 0.00 43.96 2.87
2403 7073 1.680735 TGCGTTTGGTTGCATTCTTCT 59.319 42.857 0.00 0.00 35.90 2.85
2404 7074 2.287547 TGCGTTTGGTTGCATTCTTCTC 60.288 45.455 0.00 0.00 35.90 2.87
2408 7078 2.275134 TGGTTGCATTCTTCTCAGCA 57.725 45.000 0.00 0.00 34.79 4.41
2409 7079 2.799017 TGGTTGCATTCTTCTCAGCAT 58.201 42.857 0.00 0.00 36.80 3.79
2410 7080 3.954200 TGGTTGCATTCTTCTCAGCATA 58.046 40.909 0.00 0.00 36.80 3.14
2411 7081 4.334552 TGGTTGCATTCTTCTCAGCATAA 58.665 39.130 0.00 0.00 36.80 1.90
2412 7082 4.951715 TGGTTGCATTCTTCTCAGCATAAT 59.048 37.500 0.00 0.00 36.80 1.28
2413 7083 5.419788 TGGTTGCATTCTTCTCAGCATAATT 59.580 36.000 0.00 0.00 36.80 1.40
2414 7084 5.747197 GGTTGCATTCTTCTCAGCATAATTG 59.253 40.000 0.00 0.00 36.80 2.32
2415 7085 6.327934 GTTGCATTCTTCTCAGCATAATTGT 58.672 36.000 0.00 0.00 36.80 2.71
2416 7086 6.519679 TGCATTCTTCTCAGCATAATTGTT 57.480 33.333 0.00 0.00 31.05 2.83
2417 7087 6.927416 TGCATTCTTCTCAGCATAATTGTTT 58.073 32.000 0.00 0.00 31.05 2.83
2418 7088 7.031372 TGCATTCTTCTCAGCATAATTGTTTC 58.969 34.615 0.00 0.00 31.05 2.78
2420 7090 7.758528 GCATTCTTCTCAGCATAATTGTTTCTT 59.241 33.333 0.00 0.00 0.00 2.52
2421 7091 9.286946 CATTCTTCTCAGCATAATTGTTTCTTC 57.713 33.333 0.00 0.00 0.00 2.87
2422 7092 8.627208 TTCTTCTCAGCATAATTGTTTCTTCT 57.373 30.769 0.00 0.00 0.00 2.85
2423 7093 8.627208 TCTTCTCAGCATAATTGTTTCTTCTT 57.373 30.769 0.00 0.00 0.00 2.52
2424 7094 8.725148 TCTTCTCAGCATAATTGTTTCTTCTTC 58.275 33.333 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 2.095212 TCGAGTGAGAAGTCCGACAATG 60.095 50.000 0.40 0.00 0.00 2.82
108 109 5.470098 AGAAAAGAATAAGCGAGCAGTTTGA 59.530 36.000 0.00 0.00 0.00 2.69
158 159 0.033228 TTTGAAGGCGCCATTGGTTG 59.967 50.000 31.54 0.00 0.00 3.77
159 160 0.755686 TTTTGAAGGCGCCATTGGTT 59.244 45.000 31.54 14.25 0.00 3.67
161 162 3.603144 TTTTTGAAGGCGCCATTGG 57.397 47.368 31.54 0.00 0.00 3.16
176 177 5.675575 GCATGATCGCACAGAGATTCTTTTT 60.676 40.000 0.00 0.00 0.00 1.94
189 190 4.034394 TGACAATTAGAAGCATGATCGCAC 59.966 41.667 0.00 0.00 0.00 5.34
197 198 3.313526 GCCACGATGACAATTAGAAGCAT 59.686 43.478 0.00 0.00 0.00 3.79
202 203 1.934589 CGGCCACGATGACAATTAGA 58.065 50.000 2.24 0.00 44.60 2.10
203 204 0.304705 GCGGCCACGATGACAATTAG 59.695 55.000 2.24 0.00 44.60 1.73
215 216 2.748647 AAACATACCGGCGGCCAC 60.749 61.111 28.71 0.00 0.00 5.01
221 222 0.525761 ATGTGCACAAACATACCGGC 59.474 50.000 25.72 0.00 39.01 6.13
231 232 3.509740 CACTGTTCAAACATGTGCACAA 58.490 40.909 25.72 7.59 38.41 3.33
243 244 8.918202 AATTCACTTATACTTCCACTGTTCAA 57.082 30.769 0.00 0.00 0.00 2.69
269 270 2.041081 AGCTGCTAGGAGAGATACGGAT 59.959 50.000 16.44 0.00 0.00 4.18
290 291 5.686397 CCAATTTAACGCCAAAACGACTTAA 59.314 36.000 0.00 0.00 36.70 1.85
305 306 4.192429 AGCATGAACCAGCCAATTTAAC 57.808 40.909 0.00 0.00 0.00 2.01
390 391 5.180117 CAGGGCATTGAACATACTAGCATAC 59.820 44.000 0.00 0.00 0.00 2.39
392 393 4.139786 CAGGGCATTGAACATACTAGCAT 58.860 43.478 0.00 0.00 0.00 3.79
421 422 0.753848 TCCGATGGATGCCGACTGTA 60.754 55.000 0.00 0.00 0.00 2.74
422 423 1.402896 ATCCGATGGATGCCGACTGT 61.403 55.000 0.00 0.00 41.43 3.55
431 432 3.134623 TGTGCAAAGAGTATCCGATGGAT 59.865 43.478 3.49 3.49 45.40 3.41
437 438 2.157668 GTGTGTGTGCAAAGAGTATCCG 59.842 50.000 0.00 0.00 33.66 4.18
438 439 2.484264 GGTGTGTGTGCAAAGAGTATCC 59.516 50.000 0.00 0.00 33.66 2.59
449 463 1.165907 TGCTGCTTAGGTGTGTGTGC 61.166 55.000 0.00 0.00 0.00 4.57
450 464 1.308047 TTGCTGCTTAGGTGTGTGTG 58.692 50.000 0.00 0.00 0.00 3.82
459 473 4.037690 GGTTTGCGATAATTGCTGCTTAG 58.962 43.478 0.00 0.00 0.00 2.18
475 489 1.757423 ATTGGTGCCTGGTGGTTTGC 61.757 55.000 0.00 0.00 35.27 3.68
478 492 0.105760 TTCATTGGTGCCTGGTGGTT 60.106 50.000 0.00 0.00 35.27 3.67
482 496 2.041620 ACACTATTCATTGGTGCCTGGT 59.958 45.455 0.00 0.00 34.70 4.00
483 497 2.424601 CACACTATTCATTGGTGCCTGG 59.575 50.000 0.00 0.00 34.70 4.45
484 498 2.424601 CCACACTATTCATTGGTGCCTG 59.575 50.000 0.00 0.00 34.70 4.85
485 499 2.041620 ACCACACTATTCATTGGTGCCT 59.958 45.455 0.00 0.00 40.96 4.75
486 500 2.446435 ACCACACTATTCATTGGTGCC 58.554 47.619 0.00 0.00 40.96 5.01
489 503 2.041620 AGGCACCACACTATTCATTGGT 59.958 45.455 0.00 0.00 43.39 3.67
490 504 2.726821 AGGCACCACACTATTCATTGG 58.273 47.619 0.00 0.00 35.06 3.16
492 506 4.032960 TGAAGGCACCACACTATTCATT 57.967 40.909 0.00 0.00 0.00 2.57
493 507 3.719268 TGAAGGCACCACACTATTCAT 57.281 42.857 0.00 0.00 0.00 2.57
494 508 3.609853 GATGAAGGCACCACACTATTCA 58.390 45.455 0.00 0.00 0.00 2.57
495 509 2.609459 CGATGAAGGCACCACACTATTC 59.391 50.000 0.00 0.00 0.00 1.75
497 511 1.743772 GCGATGAAGGCACCACACTAT 60.744 52.381 0.00 0.00 0.00 2.12
498 512 0.391130 GCGATGAAGGCACCACACTA 60.391 55.000 0.00 0.00 0.00 2.74
499 513 1.672356 GCGATGAAGGCACCACACT 60.672 57.895 0.00 0.00 0.00 3.55
500 514 2.690778 GGCGATGAAGGCACCACAC 61.691 63.158 0.00 0.00 36.61 3.82
502 516 2.045926 AGGCGATGAAGGCACCAC 60.046 61.111 0.00 0.00 39.37 4.16
503 517 2.046023 CAGGCGATGAAGGCACCA 60.046 61.111 0.00 0.00 39.37 4.17
507 521 3.512516 GGTGCAGGCGATGAAGGC 61.513 66.667 0.00 0.00 0.00 4.35
508 522 1.033746 ATTGGTGCAGGCGATGAAGG 61.034 55.000 0.00 0.00 0.00 3.46
510 524 1.255882 AAATTGGTGCAGGCGATGAA 58.744 45.000 0.00 0.00 0.00 2.57
511 525 1.255882 AAAATTGGTGCAGGCGATGA 58.744 45.000 0.00 0.00 0.00 2.92
512 526 1.994779 GAAAAATTGGTGCAGGCGATG 59.005 47.619 0.00 0.00 0.00 3.84
513 527 1.895131 AGAAAAATTGGTGCAGGCGAT 59.105 42.857 0.00 0.00 0.00 4.58
514 528 1.327303 AGAAAAATTGGTGCAGGCGA 58.673 45.000 0.00 0.00 0.00 5.54
515 529 1.794116 CAAGAAAAATTGGTGCAGGCG 59.206 47.619 0.00 0.00 0.00 5.52
517 531 4.942852 TGTACAAGAAAAATTGGTGCAGG 58.057 39.130 0.00 0.00 34.36 4.85
518 532 6.900568 TTTGTACAAGAAAAATTGGTGCAG 57.099 33.333 8.56 0.00 34.36 4.41
522 536 8.611757 GCATTCTTTTGTACAAGAAAAATTGGT 58.388 29.630 12.75 0.00 44.18 3.67
523 537 8.610896 TGCATTCTTTTGTACAAGAAAAATTGG 58.389 29.630 12.75 2.28 44.18 3.16
524 538 9.985318 TTGCATTCTTTTGTACAAGAAAAATTG 57.015 25.926 12.75 8.50 44.18 2.32
526 540 9.382275 ACTTGCATTCTTTTGTACAAGAAAAAT 57.618 25.926 12.75 7.16 44.18 1.82
529 543 9.677567 GATACTTGCATTCTTTTGTACAAGAAA 57.322 29.630 12.75 7.68 44.18 2.52
530 544 8.296713 GGATACTTGCATTCTTTTGTACAAGAA 58.703 33.333 11.45 11.45 44.90 2.52
531 545 7.446931 TGGATACTTGCATTCTTTTGTACAAGA 59.553 33.333 8.56 3.31 38.26 3.02
532 546 7.592938 TGGATACTTGCATTCTTTTGTACAAG 58.407 34.615 8.56 0.00 40.19 3.16
533 547 7.517614 TGGATACTTGCATTCTTTTGTACAA 57.482 32.000 3.59 3.59 37.61 2.41
534 548 6.349280 GCTGGATACTTGCATTCTTTTGTACA 60.349 38.462 0.00 0.00 36.88 2.90
535 549 6.030228 GCTGGATACTTGCATTCTTTTGTAC 58.970 40.000 0.00 0.00 36.88 2.90
536 550 5.125417 GGCTGGATACTTGCATTCTTTTGTA 59.875 40.000 0.00 0.00 38.23 2.41
540 554 3.026694 GGGCTGGATACTTGCATTCTTT 58.973 45.455 0.00 0.00 38.23 2.52
541 555 2.659428 GGGCTGGATACTTGCATTCTT 58.341 47.619 0.00 0.00 38.23 2.52
542 556 1.133668 GGGGCTGGATACTTGCATTCT 60.134 52.381 0.00 0.00 38.23 2.40
543 557 1.133668 AGGGGCTGGATACTTGCATTC 60.134 52.381 0.00 0.00 38.23 2.67
544 558 0.929244 AGGGGCTGGATACTTGCATT 59.071 50.000 0.00 0.00 38.23 3.56
545 559 0.475906 GAGGGGCTGGATACTTGCAT 59.524 55.000 0.00 0.00 38.23 3.96
546 560 1.635817 GGAGGGGCTGGATACTTGCA 61.636 60.000 0.00 0.00 38.23 4.08
547 561 1.149401 GGAGGGGCTGGATACTTGC 59.851 63.158 0.00 0.00 36.33 4.01
548 562 0.181350 GTGGAGGGGCTGGATACTTG 59.819 60.000 0.00 0.00 37.61 3.16
549 563 0.988678 GGTGGAGGGGCTGGATACTT 60.989 60.000 0.00 0.00 37.61 2.24
550 564 1.384643 GGTGGAGGGGCTGGATACT 60.385 63.158 0.00 0.00 37.61 2.12
552 566 1.692749 GTGGTGGAGGGGCTGGATA 60.693 63.158 0.00 0.00 0.00 2.59
553 567 3.017581 GTGGTGGAGGGGCTGGAT 61.018 66.667 0.00 0.00 0.00 3.41
555 569 2.445492 AAATGTGGTGGAGGGGCTGG 62.445 60.000 0.00 0.00 0.00 4.85
556 570 0.542702 AAAATGTGGTGGAGGGGCTG 60.543 55.000 0.00 0.00 0.00 4.85
557 571 1.080638 TAAAATGTGGTGGAGGGGCT 58.919 50.000 0.00 0.00 0.00 5.19
558 572 1.182667 GTAAAATGTGGTGGAGGGGC 58.817 55.000 0.00 0.00 0.00 5.80
560 574 3.258123 CCAAAGTAAAATGTGGTGGAGGG 59.742 47.826 0.00 0.00 0.00 4.30
561 575 3.306019 GCCAAAGTAAAATGTGGTGGAGG 60.306 47.826 0.00 0.00 33.43 4.30
564 578 2.289382 GGGCCAAAGTAAAATGTGGTGG 60.289 50.000 4.39 0.00 33.43 4.61
567 581 2.612721 GCTGGGCCAAAGTAAAATGTGG 60.613 50.000 8.04 0.00 0.00 4.17
568 582 2.036992 TGCTGGGCCAAAGTAAAATGTG 59.963 45.455 8.04 0.00 0.00 3.21
569 583 2.299867 CTGCTGGGCCAAAGTAAAATGT 59.700 45.455 8.04 0.00 0.00 2.71
570 584 2.299867 ACTGCTGGGCCAAAGTAAAATG 59.700 45.455 17.58 0.00 0.00 2.32
571 585 2.608623 ACTGCTGGGCCAAAGTAAAAT 58.391 42.857 17.58 0.00 0.00 1.82
573 587 2.554344 CCTACTGCTGGGCCAAAGTAAA 60.554 50.000 22.37 9.61 0.00 2.01
574 588 1.004277 CCTACTGCTGGGCCAAAGTAA 59.996 52.381 22.37 11.46 0.00 2.24
576 590 1.380302 CCTACTGCTGGGCCAAAGT 59.620 57.895 21.43 21.43 0.00 2.66
579 593 4.408821 CGCCTACTGCTGGGCCAA 62.409 66.667 8.04 0.00 45.01 4.52
581 595 4.840005 GTCGCCTACTGCTGGGCC 62.840 72.222 0.00 0.00 45.01 5.80
582 596 4.082523 TGTCGCCTACTGCTGGGC 62.083 66.667 1.47 1.47 44.43 5.36
584 598 2.125512 GGTGTCGCCTACTGCTGG 60.126 66.667 0.00 0.00 38.05 4.85
585 599 1.738099 GTGGTGTCGCCTACTGCTG 60.738 63.158 3.62 0.00 38.05 4.41
586 600 1.754380 TTGTGGTGTCGCCTACTGCT 61.754 55.000 3.62 0.00 38.05 4.24
587 601 0.673644 ATTGTGGTGTCGCCTACTGC 60.674 55.000 3.62 0.00 38.35 4.40
588 602 1.078709 CATTGTGGTGTCGCCTACTG 58.921 55.000 3.62 0.00 38.35 2.74
589 603 0.685097 ACATTGTGGTGTCGCCTACT 59.315 50.000 3.62 0.00 38.35 2.57
590 604 1.519408 AACATTGTGGTGTCGCCTAC 58.481 50.000 3.62 1.37 38.35 3.18
591 605 2.933492 GCTAACATTGTGGTGTCGCCTA 60.933 50.000 3.62 0.00 38.35 3.93
592 606 1.808411 CTAACATTGTGGTGTCGCCT 58.192 50.000 3.62 0.00 38.35 5.52
593 607 0.168128 GCTAACATTGTGGTGTCGCC 59.832 55.000 0.00 0.00 37.90 5.54
594 608 0.168128 GGCTAACATTGTGGTGTCGC 59.832 55.000 0.00 0.00 0.00 5.19
595 609 1.732259 GAGGCTAACATTGTGGTGTCG 59.268 52.381 0.00 0.00 0.00 4.35
598 612 2.086869 CTGGAGGCTAACATTGTGGTG 58.913 52.381 0.00 0.00 0.00 4.17
600 614 1.098050 GCTGGAGGCTAACATTGTGG 58.902 55.000 0.00 0.00 38.06 4.17
602 616 1.952367 GCTGCTGGAGGCTAACATTGT 60.952 52.381 0.00 0.00 42.39 2.71
603 617 0.737219 GCTGCTGGAGGCTAACATTG 59.263 55.000 0.00 0.00 42.39 2.82
604 618 0.329261 TGCTGCTGGAGGCTAACATT 59.671 50.000 0.00 0.00 42.39 2.71
605 619 0.549950 ATGCTGCTGGAGGCTAACAT 59.450 50.000 0.00 0.00 42.39 2.71
606 620 0.393402 CATGCTGCTGGAGGCTAACA 60.393 55.000 0.00 0.00 42.39 2.41
607 621 0.107508 TCATGCTGCTGGAGGCTAAC 60.108 55.000 0.00 0.00 42.39 2.34
608 622 0.841961 ATCATGCTGCTGGAGGCTAA 59.158 50.000 0.00 0.00 42.39 3.09
609 623 1.720781 TATCATGCTGCTGGAGGCTA 58.279 50.000 0.00 0.00 42.39 3.93
610 624 1.003349 GATATCATGCTGCTGGAGGCT 59.997 52.381 0.00 0.00 42.39 4.58
613 627 3.420300 AAGGATATCATGCTGCTGGAG 57.580 47.619 4.83 0.00 0.00 3.86
614 628 6.625532 TTATAAGGATATCATGCTGCTGGA 57.374 37.500 4.83 0.00 0.00 3.86
615 629 6.485984 GGATTATAAGGATATCATGCTGCTGG 59.514 42.308 4.83 0.00 0.00 4.85
618 632 6.017275 GCTGGATTATAAGGATATCATGCTGC 60.017 42.308 4.83 5.72 34.14 5.25
619 633 7.281098 AGCTGGATTATAAGGATATCATGCTG 58.719 38.462 4.83 0.00 0.00 4.41
620 634 7.126879 TGAGCTGGATTATAAGGATATCATGCT 59.873 37.037 4.83 0.00 0.00 3.79
621 635 7.226325 GTGAGCTGGATTATAAGGATATCATGC 59.774 40.741 4.83 0.00 0.00 4.06
622 636 8.262933 TGTGAGCTGGATTATAAGGATATCATG 58.737 37.037 4.83 0.00 0.00 3.07
625 639 9.107177 CATTGTGAGCTGGATTATAAGGATATC 57.893 37.037 0.00 0.00 0.00 1.63
626 640 8.829746 TCATTGTGAGCTGGATTATAAGGATAT 58.170 33.333 0.00 0.00 0.00 1.63
627 641 8.097038 GTCATTGTGAGCTGGATTATAAGGATA 58.903 37.037 0.00 0.00 0.00 2.59
628 642 6.939163 GTCATTGTGAGCTGGATTATAAGGAT 59.061 38.462 0.00 0.00 0.00 3.24
631 645 6.988580 TGAGTCATTGTGAGCTGGATTATAAG 59.011 38.462 0.00 0.00 0.00 1.73
636 650 3.607741 CTGAGTCATTGTGAGCTGGATT 58.392 45.455 0.00 0.00 0.00 3.01
637 651 2.680221 GCTGAGTCATTGTGAGCTGGAT 60.680 50.000 0.00 0.00 0.00 3.41
639 653 1.085091 GCTGAGTCATTGTGAGCTGG 58.915 55.000 0.00 0.00 0.00 4.85
640 654 2.096220 AGCTGAGTCATTGTGAGCTG 57.904 50.000 0.00 0.00 0.00 4.24
642 656 1.932511 GCTAGCTGAGTCATTGTGAGC 59.067 52.381 7.70 0.00 0.00 4.26
643 657 2.191802 CGCTAGCTGAGTCATTGTGAG 58.808 52.381 13.93 0.00 0.00 3.51
645 659 0.649475 GCGCTAGCTGAGTCATTGTG 59.351 55.000 13.93 0.00 41.01 3.33
646 660 0.460987 GGCGCTAGCTGAGTCATTGT 60.461 55.000 13.93 0.00 44.37 2.71
647 661 0.179089 AGGCGCTAGCTGAGTCATTG 60.179 55.000 13.93 0.00 44.37 2.82
648 662 0.103937 GAGGCGCTAGCTGAGTCATT 59.896 55.000 13.93 0.00 44.37 2.57
650 664 2.418910 GGAGGCGCTAGCTGAGTCA 61.419 63.158 13.93 0.00 44.37 3.41
651 665 2.348605 CTGGAGGCGCTAGCTGAGTC 62.349 65.000 13.93 0.00 44.37 3.36
653 667 2.416678 CTGGAGGCGCTAGCTGAG 59.583 66.667 13.93 0.00 44.37 3.35
654 668 3.842923 GCTGGAGGCGCTAGCTGA 61.843 66.667 18.72 0.00 46.55 4.26
658 672 3.457625 ATGCTGCTGGAGGCGCTAG 62.458 63.158 7.64 0.00 45.43 3.42
659 673 3.473647 ATGCTGCTGGAGGCGCTA 61.474 61.111 7.64 0.00 45.43 4.26
662 676 0.321387 ATATCATGCTGCTGGAGGCG 60.321 55.000 0.00 0.00 45.43 5.52
663 677 1.451067 GATATCATGCTGCTGGAGGC 58.549 55.000 0.00 0.00 42.22 4.70
664 678 1.629353 AGGATATCATGCTGCTGGAGG 59.371 52.381 4.83 0.00 0.00 4.30
665 679 3.420300 AAGGATATCATGCTGCTGGAG 57.580 47.619 4.83 0.00 0.00 3.86
666 680 3.647590 TGTAAGGATATCATGCTGCTGGA 59.352 43.478 4.83 0.00 0.00 3.86
667 681 4.011966 TGTAAGGATATCATGCTGCTGG 57.988 45.455 4.83 0.00 0.00 4.85
669 683 5.221986 TGGATTGTAAGGATATCATGCTGCT 60.222 40.000 4.83 0.00 0.00 4.24
670 684 5.005740 TGGATTGTAAGGATATCATGCTGC 58.994 41.667 4.83 0.00 0.00 5.25
672 686 5.013913 AGCTGGATTGTAAGGATATCATGCT 59.986 40.000 4.83 0.00 0.00 3.79
673 687 5.251764 AGCTGGATTGTAAGGATATCATGC 58.748 41.667 4.83 0.00 0.00 4.06
675 689 6.043590 TGTGAGCTGGATTGTAAGGATATCAT 59.956 38.462 4.83 0.00 0.00 2.45
676 690 5.366477 TGTGAGCTGGATTGTAAGGATATCA 59.634 40.000 4.83 0.00 0.00 2.15
677 691 5.858381 TGTGAGCTGGATTGTAAGGATATC 58.142 41.667 0.00 0.00 0.00 1.63
678 692 5.894298 TGTGAGCTGGATTGTAAGGATAT 57.106 39.130 0.00 0.00 0.00 1.63
682 696 3.379372 CCATTGTGAGCTGGATTGTAAGG 59.621 47.826 0.00 0.00 34.24 2.69
683 697 3.181493 GCCATTGTGAGCTGGATTGTAAG 60.181 47.826 0.00 0.00 34.24 2.34
684 698 2.754552 GCCATTGTGAGCTGGATTGTAA 59.245 45.455 0.00 0.00 34.24 2.41
685 699 2.368439 GCCATTGTGAGCTGGATTGTA 58.632 47.619 0.00 0.00 34.24 2.41
687 701 0.458669 GGCCATTGTGAGCTGGATTG 59.541 55.000 0.00 0.00 34.24 2.67
689 703 1.452651 CGGCCATTGTGAGCTGGAT 60.453 57.895 2.24 0.00 34.24 3.41
690 704 2.046023 CGGCCATTGTGAGCTGGA 60.046 61.111 2.24 0.00 34.24 3.86
692 706 3.818787 GCCGGCCATTGTGAGCTG 61.819 66.667 18.11 0.00 35.04 4.24
694 708 3.056313 GAAGCCGGCCATTGTGAGC 62.056 63.158 26.15 0.00 0.00 4.26
695 709 2.409870 GGAAGCCGGCCATTGTGAG 61.410 63.158 26.15 0.00 0.00 3.51
697 711 2.274645 TTGGAAGCCGGCCATTGTG 61.275 57.895 26.15 0.00 34.90 3.33
698 712 2.117206 TTGGAAGCCGGCCATTGT 59.883 55.556 26.15 0.00 34.90 2.71
699 713 1.535204 AAGTTGGAAGCCGGCCATTG 61.535 55.000 26.15 0.00 34.90 2.82
700 714 1.228862 AAGTTGGAAGCCGGCCATT 60.229 52.632 26.15 12.68 34.90 3.16
718 1348 1.971167 GACGTTGGGCAAGCCATCA 60.971 57.895 13.87 0.00 37.98 3.07
719 1349 1.315257 ATGACGTTGGGCAAGCCATC 61.315 55.000 13.87 2.93 37.98 3.51
757 1603 0.463620 GTGCCAAAGCCAAAGGTTGA 59.536 50.000 0.00 0.00 38.69 3.18
770 1616 1.594194 GCCCATCATCAACGTGCCAA 61.594 55.000 0.00 0.00 0.00 4.52
771 1617 2.045708 GCCCATCATCAACGTGCCA 61.046 57.895 0.00 0.00 0.00 4.92
772 1618 2.774799 GGCCCATCATCAACGTGCC 61.775 63.158 0.00 0.00 0.00 5.01
773 1619 1.996786 CTGGCCCATCATCAACGTGC 61.997 60.000 0.00 0.00 0.00 5.34
774 1620 1.996786 GCTGGCCCATCATCAACGTG 61.997 60.000 0.00 0.00 0.00 4.49
775 1621 1.750399 GCTGGCCCATCATCAACGT 60.750 57.895 0.00 0.00 0.00 3.99
879 1725 5.050490 ACGCCTAGTAGAAGCATAAACATG 58.950 41.667 0.00 0.00 0.00 3.21
921 3358 4.039245 TGGACAATCGAGTGAGAAGAAGTT 59.961 41.667 21.18 0.00 0.00 2.66
939 3430 1.827789 GCAAGCAGGTTGGTGGACA 60.828 57.895 14.17 0.00 36.56 4.02
1060 3562 5.257082 TCATACATGTGCACGTACATACT 57.743 39.130 12.10 0.00 39.17 2.12
1211 3732 6.321717 CACATGCAAGAACGTGGTTAATTAT 58.678 36.000 0.00 0.00 0.00 1.28
1272 3796 1.752501 CGGCAATTACTCGGCTCGTG 61.753 60.000 0.00 0.00 0.00 4.35
1348 3888 3.119708 GGAGCTTTCATCTTCGCATGTTT 60.120 43.478 0.00 0.00 0.00 2.83
1349 3889 2.421424 GGAGCTTTCATCTTCGCATGTT 59.579 45.455 0.00 0.00 0.00 2.71
1373 3913 3.041940 CACTCGCCCCACACGTTC 61.042 66.667 0.00 0.00 0.00 3.95
1406 3946 5.048364 AGACTAGCATGTATAGCAGTAGCAC 60.048 44.000 6.92 0.00 45.49 4.40
1463 4006 1.607148 CTGCGATCATTGCATCATGGT 59.393 47.619 0.00 0.00 42.32 3.55
1480 4023 3.619233 TTTTAAGAAACGTCAGGCTGC 57.381 42.857 10.34 4.16 0.00 5.25
1504 4048 4.729881 AGCCAGGAAGGGGTAATTTACATA 59.270 41.667 8.73 0.00 36.76 2.29
1606 4682 7.401484 AAATATGGTTTGTGCAAGTAAAACG 57.599 32.000 0.00 0.00 35.18 3.60
1665 5749 2.289320 GGACTTGATGACAGCTCACAGT 60.289 50.000 0.00 0.00 0.00 3.55
1670 5754 3.540314 ATCAGGACTTGATGACAGCTC 57.460 47.619 0.00 0.00 44.84 4.09
1696 6072 8.514594 CAATACGGTGCAAGGAATGATTAATAT 58.485 33.333 0.00 0.00 0.00 1.28
1714 6090 4.105057 AGGGACTCTCTCTATCAATACGGT 59.895 45.833 0.00 0.00 0.00 4.83
1791 6167 1.077501 ATGGACTTGGCCATGACGG 60.078 57.895 24.48 7.08 46.62 4.79
1801 6177 0.534412 AGTCTGGCTCGATGGACTTG 59.466 55.000 0.00 0.00 35.82 3.16
1808 6184 0.749649 GTGATGGAGTCTGGCTCGAT 59.250 55.000 6.48 6.48 43.85 3.59
1838 6224 0.462047 GATGGGTTTGGCGAGACGAT 60.462 55.000 0.00 0.00 0.00 3.73
1903 6543 2.264813 ACGTTACAATCATCCGAACCG 58.735 47.619 0.00 0.00 0.00 4.44
1927 6567 8.365647 ACAACATCTATTACCCTCCGTAAATAG 58.634 37.037 0.00 0.00 40.32 1.73
1951 6591 5.472137 GGCTTAAAACAGACACTATCCAACA 59.528 40.000 0.00 0.00 0.00 3.33
1964 6604 4.201685 CCGATTACACGAGGCTTAAAACAG 60.202 45.833 0.00 0.00 35.09 3.16
2022 6662 1.429927 TTGCCGTTCGAGCGTTTTCA 61.430 50.000 20.30 9.51 0.00 2.69
2025 6665 1.206578 CATTGCCGTTCGAGCGTTT 59.793 52.632 20.30 0.00 0.00 3.60
2040 6680 9.538508 GATTTATTAGGCAAGATTGAAAGCATT 57.461 29.630 0.00 0.00 0.00 3.56
2053 6693 6.588204 AGTCGTGGTATGATTTATTAGGCAA 58.412 36.000 0.00 0.00 0.00 4.52
2123 6763 6.369340 CCTGAGATCATCTATGCAACAAGATC 59.631 42.308 6.61 8.41 29.93 2.75
2162 6802 4.886489 TCATGTCAGTTGTGGTTCAAATCA 59.114 37.500 0.00 0.00 37.81 2.57
2294 6964 1.273838 ACATGAAGGGCTCTCCAGGTA 60.274 52.381 0.00 0.00 38.24 3.08
2296 6966 0.107312 CACATGAAGGGCTCTCCAGG 60.107 60.000 0.00 0.00 38.24 4.45
2311 6981 2.359107 CAGCACAGCCGACCACAT 60.359 61.111 0.00 0.00 0.00 3.21
2312 6982 4.624364 CCAGCACAGCCGACCACA 62.624 66.667 0.00 0.00 0.00 4.17
2360 7030 4.139786 CCCTAAGTGATAATGCATGCACT 58.860 43.478 25.37 16.26 42.91 4.40
2381 7051 0.031994 AGAATGCAACCAAACGCACC 59.968 50.000 0.00 0.00 41.79 5.01
2384 7054 2.287547 TGAGAAGAATGCAACCAAACGC 60.288 45.455 0.00 0.00 0.00 4.84
2385 7055 3.558505 CTGAGAAGAATGCAACCAAACG 58.441 45.455 0.00 0.00 0.00 3.60
2386 7056 3.243501 TGCTGAGAAGAATGCAACCAAAC 60.244 43.478 0.00 0.00 32.12 2.93
2387 7057 2.957680 TGCTGAGAAGAATGCAACCAAA 59.042 40.909 0.00 0.00 32.12 3.28
2393 7063 6.519679 AACAATTATGCTGAGAAGAATGCA 57.480 33.333 0.00 0.00 39.83 3.96
2396 7066 9.240734 AGAAGAAACAATTATGCTGAGAAGAAT 57.759 29.630 0.00 0.00 0.00 2.40
2397 7067 8.627208 AGAAGAAACAATTATGCTGAGAAGAA 57.373 30.769 0.00 0.00 0.00 2.52
2398 7068 8.627208 AAGAAGAAACAATTATGCTGAGAAGA 57.373 30.769 0.00 0.00 0.00 2.87
2401 7071 6.650807 ACGAAGAAGAAACAATTATGCTGAGA 59.349 34.615 0.00 0.00 0.00 3.27
2402 7072 6.740002 CACGAAGAAGAAACAATTATGCTGAG 59.260 38.462 0.00 0.00 0.00 3.35
2403 7073 6.602179 CACGAAGAAGAAACAATTATGCTGA 58.398 36.000 0.00 0.00 0.00 4.26
2404 7074 6.843676 CACGAAGAAGAAACAATTATGCTG 57.156 37.500 0.00 0.00 0.00 4.41


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.