Multiple sequence alignment - TraesCS2D01G198300

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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 TraesCS2D01G198300 chr2D 100.000 7344 0 0 1 7344 146299832 146307175 0.000000e+00 13562.0
1 TraesCS2D01G198300 chr2D 100.000 2083 0 0 7527 9609 146307358 146309440 0.000000e+00 3847.0
2 TraesCS2D01G198300 chr2D 94.578 166 8 1 3567 3731 362930806 362930971 1.240000e-63 255.0
3 TraesCS2D01G198300 chr2D 98.276 58 1 0 4410 4467 146304187 146304244 1.710000e-17 102.0
4 TraesCS2D01G198300 chr2D 98.276 58 1 0 4356 4413 146304241 146304298 1.710000e-17 102.0
5 TraesCS2D01G198300 chr2D 80.000 115 11 6 2501 2609 146302437 146302329 3.720000e-09 75.0
6 TraesCS2D01G198300 chr2A 93.977 3603 98 38 1 3559 155950158 155946631 0.000000e+00 5341.0
7 TraesCS2D01G198300 chr2A 98.466 2933 40 3 4410 7338 155946000 155943069 0.000000e+00 5162.0
8 TraesCS2D01G198300 chr2A 95.594 1725 55 7 7891 9609 155942607 155940898 0.000000e+00 2745.0
9 TraesCS2D01G198300 chr2A 98.544 687 9 1 3728 4413 155946629 155945943 0.000000e+00 1212.0
10 TraesCS2D01G198300 chr2A 97.541 366 9 0 7527 7892 155943050 155942685 2.280000e-175 627.0
11 TraesCS2D01G198300 chr2A 86.806 144 16 3 7555 7698 447945125 447945265 3.590000e-34 158.0
12 TraesCS2D01G198300 chr2A 86.667 135 15 3 7564 7698 398505315 398505184 7.780000e-31 147.0
13 TraesCS2D01G198300 chr2A 86.667 135 15 3 7564 7698 398764245 398764114 7.780000e-31 147.0
14 TraesCS2D01G198300 chr2A 94.444 36 2 0 2536 2571 135275259 135275294 1.000000e-03 56.5
15 TraesCS2D01G198300 chr2B 99.011 2932 23 2 4410 7338 206371904 206374832 0.000000e+00 5249.0
16 TraesCS2D01G198300 chr2B 96.514 2123 35 15 437 2531 206368073 206370184 0.000000e+00 3474.0
17 TraesCS2D01G198300 chr2B 98.082 1251 14 4 7674 8915 206375253 206376502 0.000000e+00 2169.0
18 TraesCS2D01G198300 chr2B 98.822 1019 10 1 2573 3589 206370186 206371204 0.000000e+00 1814.0
19 TraesCS2D01G198300 chr2B 98.440 705 11 0 3709 4413 206371257 206371961 0.000000e+00 1242.0
20 TraesCS2D01G198300 chr2B 97.155 703 14 3 8913 9609 206376615 206377317 0.000000e+00 1182.0
21 TraesCS2D01G198300 chr2B 91.239 331 15 9 1 326 206357611 206357932 1.150000e-118 438.0
22 TraesCS2D01G198300 chr2B 94.444 36 2 0 2536 2571 646214116 646214081 1.000000e-03 56.5
23 TraesCS2D01G198300 chrUn 100.000 412 0 0 2802 3213 477508186 477507775 0.000000e+00 761.0
24 TraesCS2D01G198300 chrUn 86.667 120 13 3 7579 7698 477429298 477429414 7.830000e-26 130.0
25 TraesCS2D01G198300 chrUn 85.714 91 11 2 7555 7644 345052603 345052514 2.860000e-15 95.3
26 TraesCS2D01G198300 chrUn 85.714 91 11 2 7555 7644 345093609 345093520 2.860000e-15 95.3
27 TraesCS2D01G198300 chr5D 75.315 1033 201 28 6324 7332 320311164 320310162 6.850000e-121 446.0
28 TraesCS2D01G198300 chr5D 78.462 585 106 17 4732 5299 320312794 320312213 1.970000e-96 364.0
29 TraesCS2D01G198300 chr5A 75.097 1036 204 28 6321 7332 414165295 414166300 1.480000e-117 435.0
30 TraesCS2D01G198300 chr5A 78.462 585 106 17 4732 5299 414163669 414164250 1.970000e-96 364.0
31 TraesCS2D01G198300 chr5A 94.545 165 8 1 3568 3731 19681143 19681307 4.450000e-63 254.0
32 TraesCS2D01G198300 chr5B 78.120 585 106 19 4732 5299 371191354 371190775 1.540000e-92 351.0
33 TraesCS2D01G198300 chr5B 85.000 60 4 1 2536 2590 419488106 419488047 1.000000e-03 56.5
34 TraesCS2D01G198300 chr4B 81.510 384 47 13 22 391 27977349 27977722 2.620000e-75 294.0
35 TraesCS2D01G198300 chr4B 88.298 94 10 1 3728 3820 398558405 398558498 2.840000e-20 111.0
36 TraesCS2D01G198300 chr1A 93.923 181 8 3 3551 3729 534875964 534875785 4.420000e-68 270.0
37 TraesCS2D01G198300 chr1A 93.923 181 8 3 3551 3729 534894850 534894671 4.420000e-68 270.0
38 TraesCS2D01G198300 chr1A 93.085 188 8 5 3551 3736 534913937 534913753 4.420000e-68 270.0
39 TraesCS2D01G198300 chr1A 93.923 181 8 3 3551 3729 534918239 534918060 4.420000e-68 270.0
40 TraesCS2D01G198300 chr1A 89.000 100 8 3 3728 3824 53036180 53036279 4.710000e-23 121.0
41 TraesCS2D01G198300 chr4A 94.578 166 8 1 3566 3730 517406468 517406633 1.240000e-63 255.0
42 TraesCS2D01G198300 chr4A 87.234 94 11 1 3728 3820 150228834 150228927 1.320000e-18 106.0
43 TraesCS2D01G198300 chr4A 97.436 39 1 0 2571 2609 584280135 584280097 6.230000e-07 67.6
44 TraesCS2D01G198300 chr3D 94.578 166 8 1 3568 3732 537154864 537154699 1.240000e-63 255.0
45 TraesCS2D01G198300 chr3D 100.000 28 0 0 2555 2582 504349332 504349305 1.700000e-02 52.8
46 TraesCS2D01G198300 chr1D 93.143 175 11 1 3556 3729 463381892 463382066 1.240000e-63 255.0
47 TraesCS2D01G198300 chr1D 86.735 98 10 3 3728 3823 53261331 53261427 1.320000e-18 106.0
48 TraesCS2D01G198300 chr1D 88.608 79 4 1 2536 2609 228806407 228806329 3.700000e-14 91.6
49 TraesCS2D01G198300 chr1D 100.000 28 0 0 3824 3851 309979806 309979779 1.700000e-02 52.8
50 TraesCS2D01G198300 chr7D 82.143 252 41 4 8351 8600 165728447 165728198 7.560000e-51 213.0
51 TraesCS2D01G198300 chr7B 81.250 256 42 6 8348 8600 129655100 129654848 1.640000e-47 202.0
52 TraesCS2D01G198300 chr7A 80.478 251 47 2 8351 8600 167273527 167273278 3.540000e-44 191.0
53 TraesCS2D01G198300 chr7A 87.037 54 7 0 9255 9308 49640348 49640295 2.900000e-05 62.1
54 TraesCS2D01G198300 chr7A 91.304 46 3 1 9249 9293 608921011 608920966 2.900000e-05 62.1
55 TraesCS2D01G198300 chr1B 88.776 98 8 3 3728 3823 85442453 85442549 6.100000e-22 117.0
56 TraesCS2D01G198300 chr1B 94.872 39 2 0 2571 2609 328127493 328127455 2.900000e-05 62.1
57 TraesCS2D01G198300 chr1B 80.000 95 9 6 3775 3865 670848551 670848463 2.900000e-05 62.1
58 TraesCS2D01G198300 chr4D 85.417 96 13 1 3729 3823 322675153 322675058 2.210000e-16 99.0
59 TraesCS2D01G198300 chr4D 86.585 82 9 2 9251 9330 682382 682463 1.330000e-13 89.8
60 TraesCS2D01G198300 chr4D 94.872 39 2 0 2571 2609 16225465 16225503 2.900000e-05 62.1
61 TraesCS2D01G198300 chr6B 85.714 91 11 2 7555 7644 387166905 387166994 2.860000e-15 95.3
62 TraesCS2D01G198300 chr6B 90.909 55 4 1 9254 9308 154847388 154847441 1.340000e-08 73.1
63 TraesCS2D01G198300 chr3A 89.474 76 6 2 9255 9329 730970424 730970350 2.860000e-15 95.3
64 TraesCS2D01G198300 chr3A 90.698 43 3 1 9254 9295 509887454 509887412 1.000000e-03 56.5
65 TraesCS2D01G198300 chr3B 91.045 67 5 1 3728 3793 753727599 753727665 1.330000e-13 89.8
66 TraesCS2D01G198300 chr3B 86.842 76 4 1 2544 2613 305537570 305537495 8.000000e-11 80.5
67 TraesCS2D01G198300 chr3B 96.875 32 1 0 2555 2586 666188736 666188705 5.000000e-03 54.7
68 TraesCS2D01G198300 chr6D 85.714 77 9 2 9254 9329 8005140 8005215 8.000000e-11 80.5
69 TraesCS2D01G198300 chr6D 90.909 55 4 1 9254 9308 80749610 80749663 1.340000e-08 73.1


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 TraesCS2D01G198300 chr2D 146299832 146309440 9608 False 4403.250000 13562 99.1380 1 9609 4 chr2D.!!$F2 9608
1 TraesCS2D01G198300 chr2A 155940898 155950158 9260 True 3017.400000 5341 96.8244 1 9609 5 chr2A.!!$R3 9608
2 TraesCS2D01G198300 chr2B 206368073 206377317 9244 False 2521.666667 5249 98.0040 437 9609 6 chr2B.!!$F2 9172
3 TraesCS2D01G198300 chr5D 320310162 320312794 2632 True 405.000000 446 76.8885 4732 7332 2 chr5D.!!$R1 2600
4 TraesCS2D01G198300 chr5A 414163669 414166300 2631 False 399.500000 435 76.7795 4732 7332 2 chr5A.!!$F2 2600
5 TraesCS2D01G198300 chr5B 371190775 371191354 579 True 351.000000 351 78.1200 4732 5299 1 chr5B.!!$R1 567

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
434 448 0.251073 TTACCCTCCTAAACGCTGCC 59.749 55.000 0.00 0.0 0.00 4.85 F
1568 1605 0.679505 GGGCCTGGGAAGTTTTTCAC 59.320 55.000 0.84 0.0 37.24 3.18 F
1703 1740 1.228657 GGCACACGAACTTCCAGGAC 61.229 60.000 0.00 0.0 0.00 3.85 F
3253 3302 1.940613 CCCAATTAACTGCTACTCGGC 59.059 52.381 0.00 0.0 0.00 5.54 F
3583 3649 1.288335 ACATCTACTCCCTCCGTTCCT 59.712 52.381 0.00 0.0 0.00 3.36 F
4417 4484 1.277273 CTGGATCTCCTGTTGAGCACA 59.723 52.381 0.00 0.0 41.18 4.57 F
4444 4511 1.277273 CTGGATCTCCTGTTGAGCACA 59.723 52.381 0.00 0.0 41.18 4.57 F
5891 6087 8.811017 CCTGTTATCAGAGATAGTAATCACCAT 58.189 37.037 2.20 0.0 43.76 3.55 F
7246 7475 4.202151 GCTGGACTCTTTTGTGGAATTTGT 60.202 41.667 0.00 0.0 0.00 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1873 1919 0.025898 TCATCATCGTCGTCGTCGTC 59.974 55.000 11.41 0.00 38.33 4.20 R
3329 3378 0.033601 ACAGCCCGATAATTTGGCCA 60.034 50.000 0.00 0.00 46.55 5.36 R
3565 3631 3.967467 TTAGGAACGGAGGGAGTAGAT 57.033 47.619 0.00 0.00 0.00 1.98 R
4408 4475 1.003580 TCCAGATTCCCTGTGCTCAAC 59.996 52.381 0.00 0.00 41.33 3.18 R
4435 4502 1.003580 TCCAGATTCCCTGTGCTCAAC 59.996 52.381 0.00 0.00 41.33 3.18 R
5891 6087 4.891168 AGAATATCAATTGATGCCTGCACA 59.109 37.500 27.59 8.29 36.05 4.57 R
7246 7475 7.824289 CCATCAAATACTTGAAGTACTGAGGAA 59.176 37.037 22.29 5.65 44.64 3.36 R
7558 7787 3.131755 AGCCAGCAAAATCAAATCTAGGC 59.868 43.478 0.00 0.00 38.65 3.93 R
9587 10116 1.002544 TGCCGTATGTGTGGATCAACA 59.997 47.619 0.00 0.00 0.00 3.33 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
106 109 7.384477 TCAAACATGACCAAATATTGCAATCA 58.616 30.769 16.86 7.19 0.00 2.57
161 164 0.966179 ATCCGGGGTCAAAGTTTTGC 59.034 50.000 0.00 0.00 38.05 3.68
168 171 3.376859 GGGGTCAAAGTTTTGCCAAAAAG 59.623 43.478 3.79 0.00 35.96 2.27
205 208 8.410912 AGTAGTATTCATGCTACGTTATTGTCA 58.589 33.333 0.00 0.00 46.38 3.58
206 209 9.193133 GTAGTATTCATGCTACGTTATTGTCAT 57.807 33.333 0.00 0.00 36.52 3.06
296 299 7.922278 GCAATGCCTAGTCATATTTGATTCAAA 59.078 33.333 13.88 13.88 37.75 2.69
370 373 8.673456 TTATTTTTAAATATAGGGGATGCCCC 57.327 34.615 20.45 13.85 45.46 5.80
379 382 4.554036 GGATGCCCCCGAGTGCTC 62.554 72.222 0.00 0.00 0.00 4.26
380 383 4.554036 GATGCCCCCGAGTGCTCC 62.554 72.222 0.00 0.00 0.00 4.70
391 405 1.337071 CGAGTGCTCCTAATCCGCTTA 59.663 52.381 0.00 0.00 0.00 3.09
395 409 2.116238 TGCTCCTAATCCGCTTACCTT 58.884 47.619 0.00 0.00 0.00 3.50
402 416 5.898972 TCCTAATCCGCTTACCTTTACCTAA 59.101 40.000 0.00 0.00 0.00 2.69
404 418 6.481313 CCTAATCCGCTTACCTTTACCTAAAC 59.519 42.308 0.00 0.00 0.00 2.01
405 419 4.206477 TCCGCTTACCTTTACCTAAACC 57.794 45.455 0.00 0.00 0.00 3.27
424 438 6.982574 AAACCCTACTAAATTTACCCTCCT 57.017 37.500 0.00 0.00 0.00 3.69
434 448 0.251073 TTACCCTCCTAAACGCTGCC 59.749 55.000 0.00 0.00 0.00 4.85
447 461 1.741525 GCTGCCCAAGTTTTGCTCA 59.258 52.632 0.00 0.00 0.00 4.26
449 463 1.870993 GCTGCCCAAGTTTTGCTCAAG 60.871 52.381 0.00 0.00 0.00 3.02
453 467 3.134442 TGCCCAAGTTTTGCTCAAGAAAT 59.866 39.130 0.00 0.00 0.00 2.17
1325 1362 5.079643 TCCAATGGAGAAAAAGGGAGAAAG 58.920 41.667 0.00 0.00 0.00 2.62
1359 1396 2.032030 CAGCAAGTAAACCACCTCAACG 60.032 50.000 0.00 0.00 0.00 4.10
1373 1410 4.870426 CACCTCAACGTCTTAGCATGTTAT 59.130 41.667 0.00 0.00 0.00 1.89
1419 1456 4.929808 ACAATCGGTGACTAGTTCATTCAC 59.070 41.667 0.00 0.00 39.18 3.18
1431 1468 7.436118 ACTAGTTCATTCACGGTACAAGTAAA 58.564 34.615 0.00 0.00 0.00 2.01
1440 1477 5.242171 TCACGGTACAAGTAAACTCTCATGA 59.758 40.000 0.00 0.00 0.00 3.07
1442 1479 6.422701 CACGGTACAAGTAAACTCTCATGAAA 59.577 38.462 0.00 0.00 0.00 2.69
1443 1480 6.987992 ACGGTACAAGTAAACTCTCATGAAAA 59.012 34.615 0.00 0.00 0.00 2.29
1444 1481 7.660208 ACGGTACAAGTAAACTCTCATGAAAAT 59.340 33.333 0.00 0.00 0.00 1.82
1568 1605 0.679505 GGGCCTGGGAAGTTTTTCAC 59.320 55.000 0.84 0.00 37.24 3.18
1703 1740 1.228657 GGCACACGAACTTCCAGGAC 61.229 60.000 0.00 0.00 0.00 3.85
1851 1897 2.106166 GGAAGATGAGGGTGATGATGCT 59.894 50.000 0.00 0.00 0.00 3.79
1872 1918 4.742659 GCTGAGTCGAGAGTATTTGGATTC 59.257 45.833 0.00 0.00 0.00 2.52
1873 1919 4.921547 TGAGTCGAGAGTATTTGGATTCG 58.078 43.478 0.00 0.00 0.00 3.34
1874 1920 4.638865 TGAGTCGAGAGTATTTGGATTCGA 59.361 41.667 0.00 0.00 35.05 3.71
2510 2556 8.523658 GCACCTTTATTTATATTCCCTCCATTC 58.476 37.037 0.00 0.00 0.00 2.67
2511 2557 9.586732 CACCTTTATTTATATTCCCTCCATTCA 57.413 33.333 0.00 0.00 0.00 2.57
2531 2577 5.917541 TCAGAAATAACTGACGTGGTTTC 57.082 39.130 0.00 0.00 41.21 2.78
2539 2585 2.494059 CTGACGTGGTTTCAGTTCCAT 58.506 47.619 0.00 0.00 36.50 3.41
2541 2587 2.875933 TGACGTGGTTTCAGTTCCATTC 59.124 45.455 0.00 0.00 36.09 2.67
2542 2588 2.875933 GACGTGGTTTCAGTTCCATTCA 59.124 45.455 0.00 0.00 36.09 2.57
2544 2590 3.138304 CGTGGTTTCAGTTCCATTCAGA 58.862 45.455 0.00 0.00 36.09 3.27
2545 2591 3.563808 CGTGGTTTCAGTTCCATTCAGAA 59.436 43.478 0.00 0.00 36.09 3.02
2546 2592 4.036262 CGTGGTTTCAGTTCCATTCAGAAA 59.964 41.667 0.00 0.00 36.09 2.52
2547 2593 5.278463 CGTGGTTTCAGTTCCATTCAGAAAT 60.278 40.000 0.00 0.00 36.09 2.17
2548 2594 6.072728 CGTGGTTTCAGTTCCATTCAGAAATA 60.073 38.462 0.00 0.00 36.09 1.40
2549 2595 7.521423 CGTGGTTTCAGTTCCATTCAGAAATAA 60.521 37.037 0.00 0.00 36.09 1.40
2550 2596 7.595130 GTGGTTTCAGTTCCATTCAGAAATAAC 59.405 37.037 0.00 0.00 36.09 1.89
2551 2597 7.505585 TGGTTTCAGTTCCATTCAGAAATAACT 59.494 33.333 0.00 0.00 31.73 2.24
2552 2598 7.809806 GGTTTCAGTTCCATTCAGAAATAACTG 59.190 37.037 19.89 19.89 40.09 3.16
2553 2599 8.567948 GTTTCAGTTCCATTCAGAAATAACTGA 58.432 33.333 22.38 22.38 42.85 3.41
2554 2600 7.672983 TCAGTTCCATTCAGAAATAACTGAC 57.327 36.000 22.38 4.66 41.32 3.51
2555 2601 7.223584 TCAGTTCCATTCAGAAATAACTGACA 58.776 34.615 22.38 10.79 41.32 3.58
2556 2602 7.884877 TCAGTTCCATTCAGAAATAACTGACAT 59.115 33.333 22.38 0.00 41.32 3.06
2557 2603 7.966753 CAGTTCCATTCAGAAATAACTGACATG 59.033 37.037 20.66 0.00 44.94 3.21
2558 2604 7.121759 AGTTCCATTCAGAAATAACTGACATGG 59.878 37.037 20.34 20.34 44.94 3.66
2559 2605 6.484288 TCCATTCAGAAATAACTGACATGGT 58.516 36.000 22.61 0.00 44.94 3.55
2560 2606 6.947733 TCCATTCAGAAATAACTGACATGGTT 59.052 34.615 22.61 0.00 44.94 3.67
2561 2607 7.451255 TCCATTCAGAAATAACTGACATGGTTT 59.549 33.333 22.61 0.00 44.94 3.27
2562 2608 8.090214 CCATTCAGAAATAACTGACATGGTTTT 58.910 33.333 19.29 0.00 44.94 2.43
2565 2611 8.918202 TCAGAAATAACTGACATGGTTTTAGT 57.082 30.769 0.00 0.00 41.21 2.24
2566 2612 9.349713 TCAGAAATAACTGACATGGTTTTAGTT 57.650 29.630 0.00 2.96 41.21 2.24
2567 2613 9.612620 CAGAAATAACTGACATGGTTTTAGTTC 57.387 33.333 0.00 4.52 39.94 3.01
2568 2614 9.349713 AGAAATAACTGACATGGTTTTAGTTCA 57.650 29.630 15.16 1.66 32.07 3.18
2569 2615 9.959749 GAAATAACTGACATGGTTTTAGTTCAA 57.040 29.630 0.00 0.00 33.93 2.69
2594 2640 7.797038 AACTAAAACCACGTCAGTTATTTCT 57.203 32.000 1.13 0.00 0.00 2.52
2774 2820 2.830704 GAACGGACCGCCAGTACCAG 62.831 65.000 15.39 0.00 0.00 4.00
3213 3262 7.066887 TGTTCCATGCACTATTCAAAATATCGT 59.933 33.333 0.00 0.00 0.00 3.73
3253 3302 1.940613 CCCAATTAACTGCTACTCGGC 59.059 52.381 0.00 0.00 0.00 5.54
3565 3631 7.603963 ACGTGTACAATAGCATATTTTGACA 57.396 32.000 0.00 0.00 0.00 3.58
3583 3649 1.288335 ACATCTACTCCCTCCGTTCCT 59.712 52.381 0.00 0.00 0.00 3.36
3589 3655 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
3591 3657 7.529555 TCTACTCCCTCCGTTCCTAAATATAA 58.470 38.462 0.00 0.00 0.00 0.98
3593 3659 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
3596 3662 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
3597 3663 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
3598 3664 7.991460 CCCTCCGTTCCTAAATATAAGTCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
3599 3665 9.392259 CCTCCGTTCCTAAATATAAGTCTTTTT 57.608 33.333 0.00 0.00 0.00 1.94
3617 3683 9.274206 AGTCTTTTTAGAGATTCCACTACAAAC 57.726 33.333 0.00 0.00 0.00 2.93
3618 3684 9.274206 GTCTTTTTAGAGATTCCACTACAAACT 57.726 33.333 0.00 0.00 0.00 2.66
3625 3691 7.481642 AGAGATTCCACTACAAACTACATACG 58.518 38.462 0.00 0.00 0.00 3.06
3626 3692 6.570692 AGATTCCACTACAAACTACATACGG 58.429 40.000 0.00 0.00 0.00 4.02
3628 3694 5.571784 TCCACTACAAACTACATACGGAG 57.428 43.478 0.00 0.00 0.00 4.63
3630 3696 5.711506 TCCACTACAAACTACATACGGAGAA 59.288 40.000 0.00 0.00 0.00 2.87
3631 3697 6.209192 TCCACTACAAACTACATACGGAGAAA 59.791 38.462 0.00 0.00 0.00 2.52
3632 3698 6.869913 CCACTACAAACTACATACGGAGAAAA 59.130 38.462 0.00 0.00 0.00 2.29
3633 3699 7.385752 CCACTACAAACTACATACGGAGAAAAA 59.614 37.037 0.00 0.00 0.00 1.94
3634 3700 8.932791 CACTACAAACTACATACGGAGAAAAAT 58.067 33.333 0.00 0.00 0.00 1.82
3636 3702 7.972832 ACAAACTACATACGGAGAAAAATGA 57.027 32.000 0.00 0.00 0.00 2.57
3637 3703 8.385898 ACAAACTACATACGGAGAAAAATGAA 57.614 30.769 0.00 0.00 0.00 2.57
3638 3704 9.010029 ACAAACTACATACGGAGAAAAATGAAT 57.990 29.630 0.00 0.00 0.00 2.57
3639 3705 9.277565 CAAACTACATACGGAGAAAAATGAATG 57.722 33.333 0.00 0.00 0.00 2.67
3640 3706 8.786826 AACTACATACGGAGAAAAATGAATGA 57.213 30.769 0.00 0.00 0.00 2.57
3641 3707 8.786826 ACTACATACGGAGAAAAATGAATGAA 57.213 30.769 0.00 0.00 0.00 2.57
3642 3708 9.396022 ACTACATACGGAGAAAAATGAATGAAT 57.604 29.630 0.00 0.00 0.00 2.57
3648 3714 8.742554 ACGGAGAAAAATGAATGAATTTACAC 57.257 30.769 0.00 0.00 0.00 2.90
3649 3715 8.576442 ACGGAGAAAAATGAATGAATTTACACT 58.424 29.630 0.00 0.00 0.00 3.55
3650 3716 9.065871 CGGAGAAAAATGAATGAATTTACACTC 57.934 33.333 0.00 0.00 0.00 3.51
3672 3738 9.561270 CACTCTAAACATGTCTATATACATCCG 57.439 37.037 0.00 0.00 38.01 4.18
3673 3739 9.298250 ACTCTAAACATGTCTATATACATCCGT 57.702 33.333 0.00 0.00 38.01 4.69
3689 3755 6.519679 ACATCCGTATGTAGTTTGTAGTGA 57.480 37.500 0.00 0.00 44.66 3.41
3690 3756 6.927416 ACATCCGTATGTAGTTTGTAGTGAA 58.073 36.000 0.00 0.00 44.66 3.18
3691 3757 7.380536 ACATCCGTATGTAGTTTGTAGTGAAA 58.619 34.615 0.00 0.00 44.66 2.69
3692 3758 8.038944 ACATCCGTATGTAGTTTGTAGTGAAAT 58.961 33.333 0.00 0.00 44.66 2.17
3693 3759 8.540492 CATCCGTATGTAGTTTGTAGTGAAATC 58.460 37.037 0.00 0.00 0.00 2.17
3694 3760 7.833786 TCCGTATGTAGTTTGTAGTGAAATCT 58.166 34.615 0.00 0.00 0.00 2.40
3695 3761 7.972277 TCCGTATGTAGTTTGTAGTGAAATCTC 59.028 37.037 0.00 0.00 0.00 2.75
3696 3762 7.974501 CCGTATGTAGTTTGTAGTGAAATCTCT 59.025 37.037 0.00 0.00 0.00 3.10
3697 3763 9.999009 CGTATGTAGTTTGTAGTGAAATCTCTA 57.001 33.333 0.00 0.00 0.00 2.43
4409 4476 2.406559 CAGGGAATCTGGATCTCCTGT 58.593 52.381 16.69 4.29 39.76 4.00
4410 4477 2.776536 CAGGGAATCTGGATCTCCTGTT 59.223 50.000 16.69 0.00 39.76 3.16
4411 4478 2.776536 AGGGAATCTGGATCTCCTGTTG 59.223 50.000 0.00 0.00 36.48 3.33
4412 4479 2.774234 GGGAATCTGGATCTCCTGTTGA 59.226 50.000 0.00 0.00 36.48 3.18
4413 4480 3.181456 GGGAATCTGGATCTCCTGTTGAG 60.181 52.174 0.00 0.00 42.90 3.02
4414 4481 3.465871 GAATCTGGATCTCCTGTTGAGC 58.534 50.000 0.00 0.00 41.18 4.26
4415 4482 1.942776 TCTGGATCTCCTGTTGAGCA 58.057 50.000 0.00 0.00 41.18 4.26
4416 4483 1.552337 TCTGGATCTCCTGTTGAGCAC 59.448 52.381 0.00 0.00 41.18 4.40
4417 4484 1.277273 CTGGATCTCCTGTTGAGCACA 59.723 52.381 0.00 0.00 41.18 4.57
4436 4503 2.406559 CAGGGAATCTGGATCTCCTGT 58.593 52.381 16.69 4.29 39.76 4.00
4437 4504 2.776536 CAGGGAATCTGGATCTCCTGTT 59.223 50.000 16.69 0.00 39.76 3.16
4438 4505 2.776536 AGGGAATCTGGATCTCCTGTTG 59.223 50.000 0.00 0.00 36.48 3.33
4439 4506 2.774234 GGGAATCTGGATCTCCTGTTGA 59.226 50.000 0.00 0.00 36.48 3.18
4440 4507 3.181456 GGGAATCTGGATCTCCTGTTGAG 60.181 52.174 0.00 0.00 42.90 3.02
4441 4508 3.465871 GAATCTGGATCTCCTGTTGAGC 58.534 50.000 0.00 0.00 41.18 4.26
4442 4509 1.942776 TCTGGATCTCCTGTTGAGCA 58.057 50.000 0.00 0.00 41.18 4.26
4443 4510 1.552337 TCTGGATCTCCTGTTGAGCAC 59.448 52.381 0.00 0.00 41.18 4.40
4444 4511 1.277273 CTGGATCTCCTGTTGAGCACA 59.723 52.381 0.00 0.00 41.18 4.57
5891 6087 8.811017 CCTGTTATCAGAGATAGTAATCACCAT 58.189 37.037 2.20 0.00 43.76 3.55
7246 7475 4.202151 GCTGGACTCTTTTGTGGAATTTGT 60.202 41.667 0.00 0.00 0.00 2.83
7339 7568 9.396022 AGTAGGATTATATCAGGTTTGTTGTTG 57.604 33.333 0.00 0.00 0.00 3.33
7340 7569 7.100458 AGGATTATATCAGGTTTGTTGTTGC 57.900 36.000 0.00 0.00 0.00 4.17
7341 7570 6.096846 AGGATTATATCAGGTTTGTTGTTGCC 59.903 38.462 0.00 0.00 0.00 4.52
7576 7805 5.927281 ATGTGCCTAGATTTGATTTTGCT 57.073 34.783 0.00 0.00 0.00 3.91
7578 7807 4.082081 TGTGCCTAGATTTGATTTTGCTGG 60.082 41.667 0.00 0.00 0.00 4.85
7622 7851 2.746279 TCAAGGGCTTGAAAACTGGA 57.254 45.000 0.00 0.00 45.56 3.86
8318 8717 7.148373 GGCAATTTTAGGAGTTCACGTATTACA 60.148 37.037 0.00 0.00 0.00 2.41
8331 8737 5.927689 TCACGTATTACAGAAAAATGACGGT 59.072 36.000 0.00 0.00 33.54 4.83
9447 9976 5.586243 GTGAGTACACACATTAATGATGCCT 59.414 40.000 22.16 16.14 45.32 4.75
9521 10050 9.574401 GATCGTACTACGTCTGTAAACTAATAC 57.426 37.037 8.42 0.00 43.14 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 79 6.817641 GCAATATTTGGTCATGTTTGATTCCA 59.182 34.615 0.00 0.00 33.56 3.53
77 80 6.817641 TGCAATATTTGGTCATGTTTGATTCC 59.182 34.615 0.00 0.00 33.56 3.01
78 81 7.830940 TGCAATATTTGGTCATGTTTGATTC 57.169 32.000 0.00 0.00 33.56 2.52
122 125 5.359009 CGGATACAGTGAAAGTTAGTCCCTA 59.641 44.000 0.00 0.00 0.00 3.53
123 126 4.159879 CGGATACAGTGAAAGTTAGTCCCT 59.840 45.833 0.00 0.00 0.00 4.20
140 143 2.094906 GCAAAACTTTGACCCCGGATAC 60.095 50.000 0.73 0.00 40.55 2.24
223 226 2.642154 TTTCCGTTTACTTCAGGGCA 57.358 45.000 0.00 0.00 0.00 5.36
224 227 3.078837 TGATTTCCGTTTACTTCAGGGC 58.921 45.455 0.00 0.00 0.00 5.19
225 228 5.163652 GGAATGATTTCCGTTTACTTCAGGG 60.164 44.000 0.00 0.00 42.04 4.45
258 261 6.657117 TGACTAGGCATTGCACTTGTATAAAA 59.343 34.615 11.39 0.00 0.00 1.52
363 366 4.554036 GGAGCACTCGGGGGCATC 62.554 72.222 14.56 6.34 0.00 3.91
364 367 3.696518 TAGGAGCACTCGGGGGCAT 62.697 63.158 14.56 0.00 0.00 4.40
365 368 3.916438 TTAGGAGCACTCGGGGGCA 62.916 63.158 14.56 0.00 0.00 5.36
366 369 2.384653 GATTAGGAGCACTCGGGGGC 62.385 65.000 0.00 0.00 0.00 5.80
367 370 1.749033 GATTAGGAGCACTCGGGGG 59.251 63.158 0.00 0.00 0.00 5.40
368 371 1.749033 GGATTAGGAGCACTCGGGG 59.251 63.158 0.00 0.00 0.00 5.73
369 372 1.364171 CGGATTAGGAGCACTCGGG 59.636 63.158 0.00 0.00 0.00 5.14
370 373 1.300233 GCGGATTAGGAGCACTCGG 60.300 63.158 0.00 0.00 0.00 4.63
371 374 0.103208 AAGCGGATTAGGAGCACTCG 59.897 55.000 0.00 0.00 0.00 4.18
372 375 2.546162 GGTAAGCGGATTAGGAGCACTC 60.546 54.545 0.00 0.00 0.00 3.51
375 378 1.789523 AGGTAAGCGGATTAGGAGCA 58.210 50.000 0.00 0.00 0.00 4.26
376 379 2.912690 AAGGTAAGCGGATTAGGAGC 57.087 50.000 0.00 0.00 0.00 4.70
377 380 4.344390 AGGTAAAGGTAAGCGGATTAGGAG 59.656 45.833 0.00 0.00 0.00 3.69
379 382 4.684484 AGGTAAAGGTAAGCGGATTAGG 57.316 45.455 0.00 0.00 0.00 2.69
380 383 6.481313 GGTTTAGGTAAAGGTAAGCGGATTAG 59.519 42.308 0.00 0.00 0.00 1.73
395 409 9.350306 AGGGTAAATTTAGTAGGGTTTAGGTAA 57.650 33.333 0.00 0.00 0.00 2.85
402 416 8.331740 GTTTAGGAGGGTAAATTTAGTAGGGTT 58.668 37.037 0.00 0.00 0.00 4.11
404 418 6.988580 CGTTTAGGAGGGTAAATTTAGTAGGG 59.011 42.308 0.00 0.00 0.00 3.53
405 419 6.481313 GCGTTTAGGAGGGTAAATTTAGTAGG 59.519 42.308 0.00 0.00 0.00 3.18
424 438 1.537135 GCAAAACTTGGGCAGCGTTTA 60.537 47.619 0.00 0.00 31.25 2.01
434 448 8.734386 AGAGTATATTTCTTGAGCAAAACTTGG 58.266 33.333 0.00 0.00 0.00 3.61
447 461 6.505272 CGGACGGAGAAAGAGTATATTTCTT 58.495 40.000 1.37 0.32 44.85 2.52
449 463 4.680567 GCGGACGGAGAAAGAGTATATTTC 59.319 45.833 0.00 0.00 37.00 2.17
453 467 2.646930 TGCGGACGGAGAAAGAGTATA 58.353 47.619 0.00 0.00 0.00 1.47
583 600 4.223144 GGGAAGCTTAGAGGAGAGAGAAT 58.777 47.826 0.00 0.00 0.00 2.40
1325 1362 6.420903 GGTTTACTTGCTGAGATTTCAAAACC 59.579 38.462 10.52 10.52 38.50 3.27
1419 1456 7.416154 TTTTCATGAGAGTTTACTTGTACCG 57.584 36.000 0.00 0.00 0.00 4.02
1536 1573 3.116531 GGCCCGTCGTTTTCCTCG 61.117 66.667 0.00 0.00 0.00 4.63
1568 1605 1.550130 TAAGCAGTCGTTCCCTGGGG 61.550 60.000 14.00 2.42 0.00 4.96
1851 1897 4.638865 TCGAATCCAAATACTCTCGACTCA 59.361 41.667 0.00 0.00 30.94 3.41
1872 1918 1.012562 ATCATCGTCGTCGTCGTCG 60.013 57.895 14.18 14.18 46.06 5.12
1873 1919 0.025898 TCATCATCGTCGTCGTCGTC 59.974 55.000 11.41 0.00 38.33 4.20
1874 1920 0.656259 ATCATCATCGTCGTCGTCGT 59.344 50.000 11.41 0.00 38.33 4.34
1875 1921 1.037998 CATCATCATCGTCGTCGTCG 58.962 55.000 5.50 5.50 38.33 5.12
1953 1999 2.430465 GTGATCATGTCAGCACCAACT 58.570 47.619 0.00 0.00 37.56 3.16
2510 2556 5.666969 TGAAACCACGTCAGTTATTTCTG 57.333 39.130 1.13 0.00 34.83 3.02
2511 2557 5.924475 CTGAAACCACGTCAGTTATTTCT 57.076 39.130 1.13 0.00 38.16 2.52
2531 2577 7.439157 TGTCAGTTATTTCTGAATGGAACTG 57.561 36.000 21.55 21.55 44.48 3.16
2539 2585 9.349713 ACTAAAACCATGTCAGTTATTTCTGAA 57.650 29.630 0.00 0.00 44.48 3.02
2541 2587 9.612620 GAACTAAAACCATGTCAGTTATTTCTG 57.387 33.333 0.00 0.00 36.85 3.02
2542 2588 9.349713 TGAACTAAAACCATGTCAGTTATTTCT 57.650 29.630 0.00 0.00 29.89 2.52
2562 2608 6.594937 ACTGACGTGGTTTTAGTTTTGAACTA 59.405 34.615 0.00 0.00 42.81 2.24
2563 2609 5.413523 ACTGACGTGGTTTTAGTTTTGAACT 59.586 36.000 0.00 0.00 45.40 3.01
2564 2610 5.633927 ACTGACGTGGTTTTAGTTTTGAAC 58.366 37.500 0.00 0.00 0.00 3.18
2565 2611 5.883503 ACTGACGTGGTTTTAGTTTTGAA 57.116 34.783 0.00 0.00 0.00 2.69
2566 2612 5.883503 AACTGACGTGGTTTTAGTTTTGA 57.116 34.783 0.00 0.00 0.00 2.69
2567 2613 8.623310 AAATAACTGACGTGGTTTTAGTTTTG 57.377 30.769 0.00 0.00 33.93 2.44
2568 2614 8.680001 AGAAATAACTGACGTGGTTTTAGTTTT 58.320 29.630 0.00 0.00 33.93 2.43
2569 2615 8.126700 CAGAAATAACTGACGTGGTTTTAGTTT 58.873 33.333 0.00 0.00 39.94 2.66
2594 2640 2.027192 GTGCAAGTACTCCCTCCATTCA 60.027 50.000 0.00 0.00 0.00 2.57
2703 2749 3.495100 GGCACGAATGGTTAGGATGAGAT 60.495 47.826 0.00 0.00 0.00 2.75
3213 3262 5.991861 TGGGCAGTTAACTTAAATATCGGA 58.008 37.500 5.07 0.00 0.00 4.55
3253 3302 4.337274 GGGGTTATTTGATTCGGTTAGGTG 59.663 45.833 0.00 0.00 0.00 4.00
3329 3378 0.033601 ACAGCCCGATAATTTGGCCA 60.034 50.000 0.00 0.00 46.55 5.36
3565 3631 3.967467 TTAGGAACGGAGGGAGTAGAT 57.033 47.619 0.00 0.00 0.00 1.98
3591 3657 9.274206 GTTTGTAGTGGAATCTCTAAAAAGACT 57.726 33.333 3.22 0.00 30.99 3.24
3599 3665 8.618677 CGTATGTAGTTTGTAGTGGAATCTCTA 58.381 37.037 0.00 0.00 0.00 2.43
3600 3666 7.416438 CCGTATGTAGTTTGTAGTGGAATCTCT 60.416 40.741 0.00 0.00 0.00 3.10
3601 3667 6.696148 CCGTATGTAGTTTGTAGTGGAATCTC 59.304 42.308 0.00 0.00 0.00 2.75
3602 3668 6.379133 TCCGTATGTAGTTTGTAGTGGAATCT 59.621 38.462 0.00 0.00 0.00 2.40
3604 3670 6.379133 TCTCCGTATGTAGTTTGTAGTGGAAT 59.621 38.462 0.00 0.00 0.00 3.01
3605 3671 5.711506 TCTCCGTATGTAGTTTGTAGTGGAA 59.288 40.000 0.00 0.00 0.00 3.53
3606 3672 5.255687 TCTCCGTATGTAGTTTGTAGTGGA 58.744 41.667 0.00 0.00 0.00 4.02
3607 3673 5.571784 TCTCCGTATGTAGTTTGTAGTGG 57.428 43.478 0.00 0.00 0.00 4.00
3608 3674 7.878477 TTTTCTCCGTATGTAGTTTGTAGTG 57.122 36.000 0.00 0.00 0.00 2.74
3612 3678 7.972832 TCATTTTTCTCCGTATGTAGTTTGT 57.027 32.000 0.00 0.00 0.00 2.83
3613 3679 9.277565 CATTCATTTTTCTCCGTATGTAGTTTG 57.722 33.333 0.00 0.00 0.00 2.93
3615 3681 8.786826 TCATTCATTTTTCTCCGTATGTAGTT 57.213 30.769 0.00 0.00 0.00 2.24
3622 3688 9.834628 GTGTAAATTCATTCATTTTTCTCCGTA 57.165 29.630 0.00 0.00 0.00 4.02
3623 3689 8.576442 AGTGTAAATTCATTCATTTTTCTCCGT 58.424 29.630 0.00 0.00 0.00 4.69
3624 3690 8.970691 AGTGTAAATTCATTCATTTTTCTCCG 57.029 30.769 0.00 0.00 0.00 4.63
3646 3712 9.561270 CGGATGTATATAGACATGTTTAGAGTG 57.439 37.037 17.40 0.00 40.18 3.51
3647 3713 9.298250 ACGGATGTATATAGACATGTTTAGAGT 57.702 33.333 17.40 4.53 40.18 3.24
3654 3720 9.682465 ACTACATACGGATGTATATAGACATGT 57.318 33.333 20.64 12.10 45.42 3.21
3663 3729 9.341078 TCACTACAAACTACATACGGATGTATA 57.659 33.333 20.64 9.08 45.42 1.47
3664 3730 8.229253 TCACTACAAACTACATACGGATGTAT 57.771 34.615 20.64 8.38 45.42 2.29
3665 3731 7.628769 TCACTACAAACTACATACGGATGTA 57.371 36.000 19.32 19.32 44.77 2.29
3667 3733 7.821595 TTTCACTACAAACTACATACGGATG 57.178 36.000 5.94 5.94 39.16 3.51
3668 3734 8.475639 AGATTTCACTACAAACTACATACGGAT 58.524 33.333 0.00 0.00 0.00 4.18
3669 3735 7.833786 AGATTTCACTACAAACTACATACGGA 58.166 34.615 0.00 0.00 0.00 4.69
3670 3736 7.974501 AGAGATTTCACTACAAACTACATACGG 59.025 37.037 0.00 0.00 0.00 4.02
3671 3737 8.912787 AGAGATTTCACTACAAACTACATACG 57.087 34.615 0.00 0.00 0.00 3.06
3697 3763 9.392259 CCTCCGTTCCTAAATATAAGTCTTTTT 57.608 33.333 0.00 0.00 0.00 1.94
3698 3764 7.991460 CCCTCCGTTCCTAAATATAAGTCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
3699 3765 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
3700 3766 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
3701 3767 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
3702 3768 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
3703 3769 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
3704 3770 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
3705 3771 7.300658 ACTACTCCCTCCGTTCCTAAATATAA 58.699 38.462 0.00 0.00 0.00 0.98
3706 3772 6.856757 ACTACTCCCTCCGTTCCTAAATATA 58.143 40.000 0.00 0.00 0.00 0.86
3707 3773 5.713807 ACTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
3708 3774 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
3709 3775 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
3710 3776 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
3711 3777 3.266772 TGTACTACTCCCTCCGTTCCTAA 59.733 47.826 0.00 0.00 0.00 2.69
3712 3778 2.846206 TGTACTACTCCCTCCGTTCCTA 59.154 50.000 0.00 0.00 0.00 2.94
3713 3779 1.637553 TGTACTACTCCCTCCGTTCCT 59.362 52.381 0.00 0.00 0.00 3.36
4407 4474 1.271543 CCAGATTCCCTGTGCTCAACA 60.272 52.381 0.00 0.00 41.33 3.33
4408 4475 1.003580 TCCAGATTCCCTGTGCTCAAC 59.996 52.381 0.00 0.00 41.33 3.18
4409 4476 1.361204 TCCAGATTCCCTGTGCTCAA 58.639 50.000 0.00 0.00 41.33 3.02
4410 4477 1.487976 GATCCAGATTCCCTGTGCTCA 59.512 52.381 0.00 0.00 41.33 4.26
4411 4478 1.767681 AGATCCAGATTCCCTGTGCTC 59.232 52.381 0.00 0.00 41.33 4.26
4412 4479 1.767681 GAGATCCAGATTCCCTGTGCT 59.232 52.381 0.00 0.00 41.33 4.40
4413 4480 1.202746 GGAGATCCAGATTCCCTGTGC 60.203 57.143 0.00 0.00 41.33 4.57
4414 4481 2.104451 CAGGAGATCCAGATTCCCTGTG 59.896 54.545 15.54 3.49 41.33 3.66
4415 4482 2.293452 ACAGGAGATCCAGATTCCCTGT 60.293 50.000 20.24 20.24 43.04 4.00
4416 4483 2.406559 ACAGGAGATCCAGATTCCCTG 58.593 52.381 19.35 19.35 41.86 4.45
4417 4484 2.776536 CAACAGGAGATCCAGATTCCCT 59.223 50.000 0.92 0.00 38.89 4.20
4418 4485 2.774234 TCAACAGGAGATCCAGATTCCC 59.226 50.000 0.92 0.00 38.89 3.97
4434 4501 1.271543 CCAGATTCCCTGTGCTCAACA 60.272 52.381 0.00 0.00 41.33 3.33
4435 4502 1.003580 TCCAGATTCCCTGTGCTCAAC 59.996 52.381 0.00 0.00 41.33 3.18
4436 4503 1.361204 TCCAGATTCCCTGTGCTCAA 58.639 50.000 0.00 0.00 41.33 3.02
4437 4504 1.487976 GATCCAGATTCCCTGTGCTCA 59.512 52.381 0.00 0.00 41.33 4.26
4438 4505 1.767681 AGATCCAGATTCCCTGTGCTC 59.232 52.381 0.00 0.00 41.33 4.26
4439 4506 1.767681 GAGATCCAGATTCCCTGTGCT 59.232 52.381 0.00 0.00 41.33 4.40
4440 4507 1.202746 GGAGATCCAGATTCCCTGTGC 60.203 57.143 0.00 0.00 41.33 4.57
4441 4508 2.104451 CAGGAGATCCAGATTCCCTGTG 59.896 54.545 15.54 3.49 41.33 3.66
4442 4509 2.293452 ACAGGAGATCCAGATTCCCTGT 60.293 50.000 20.24 20.24 43.04 4.00
4443 4510 2.406559 ACAGGAGATCCAGATTCCCTG 58.593 52.381 19.35 19.35 41.86 4.45
4444 4511 2.776536 CAACAGGAGATCCAGATTCCCT 59.223 50.000 0.92 0.00 38.89 4.20
4445 4512 2.774234 TCAACAGGAGATCCAGATTCCC 59.226 50.000 0.92 0.00 38.89 3.97
4446 4513 4.102210 TCATCAACAGGAGATCCAGATTCC 59.898 45.833 0.92 0.00 38.89 3.01
4447 4514 5.287674 TCATCAACAGGAGATCCAGATTC 57.712 43.478 0.92 0.00 38.89 2.52
4448 4515 5.908562 ATCATCAACAGGAGATCCAGATT 57.091 39.130 0.92 0.00 38.89 2.40
4449 4516 5.908562 AATCATCAACAGGAGATCCAGAT 57.091 39.130 0.92 0.00 38.89 2.90
4450 4517 5.901853 AGTAATCATCAACAGGAGATCCAGA 59.098 40.000 0.92 0.00 38.89 3.86
4451 4518 6.172136 AGTAATCATCAACAGGAGATCCAG 57.828 41.667 0.92 0.00 38.89 3.86
4452 4519 6.566079 AAGTAATCATCAACAGGAGATCCA 57.434 37.500 0.92 0.00 38.89 3.41
4453 4520 6.931840 GGTAAGTAATCATCAACAGGAGATCC 59.068 42.308 0.00 0.00 0.00 3.36
4454 4521 6.931840 GGGTAAGTAATCATCAACAGGAGATC 59.068 42.308 0.00 0.00 0.00 2.75
4455 4522 6.183361 GGGGTAAGTAATCATCAACAGGAGAT 60.183 42.308 0.00 0.00 0.00 2.75
4456 4523 5.130477 GGGGTAAGTAATCATCAACAGGAGA 59.870 44.000 0.00 0.00 0.00 3.71
5891 6087 4.891168 AGAATATCAATTGATGCCTGCACA 59.109 37.500 27.59 8.29 36.05 4.57
7246 7475 7.824289 CCATCAAATACTTGAAGTACTGAGGAA 59.176 37.037 22.29 5.65 44.64 3.36
7526 7755 3.335579 GTGTTTACAACTAGCAGAGGGG 58.664 50.000 0.00 0.00 0.00 4.79
7527 7756 3.244422 TGGTGTTTACAACTAGCAGAGGG 60.244 47.826 0.00 0.00 33.92 4.30
7528 7757 4.002906 TGGTGTTTACAACTAGCAGAGG 57.997 45.455 0.00 0.00 33.92 3.69
7529 7758 5.758296 TCTTTGGTGTTTACAACTAGCAGAG 59.242 40.000 0.00 0.00 33.92 3.35
7530 7759 5.676552 TCTTTGGTGTTTACAACTAGCAGA 58.323 37.500 0.00 0.00 33.92 4.26
7531 7760 6.371809 TTCTTTGGTGTTTACAACTAGCAG 57.628 37.500 0.00 0.00 33.92 4.24
7532 7761 6.320164 ACATTCTTTGGTGTTTACAACTAGCA 59.680 34.615 0.00 0.00 33.92 3.49
7548 7777 8.653338 CAAAATCAAATCTAGGCACATTCTTTG 58.347 33.333 0.00 0.00 0.00 2.77
7552 7781 6.255020 CAGCAAAATCAAATCTAGGCACATTC 59.745 38.462 0.00 0.00 0.00 2.67
7558 7787 3.131755 AGCCAGCAAAATCAAATCTAGGC 59.868 43.478 0.00 0.00 38.65 3.93
7576 7805 3.700538 ACCTGAATTAGATGCAAAGCCA 58.299 40.909 0.00 0.00 0.00 4.75
7578 7807 7.260603 ACATTAACCTGAATTAGATGCAAAGC 58.739 34.615 0.00 0.00 0.00 3.51
7622 7851 6.410157 CCATTAGATCCATCTTCACTTCCCTT 60.410 42.308 0.00 0.00 38.32 3.95
8318 8717 9.449719 AGATAGAATTACAACCGTCATTTTTCT 57.550 29.630 0.00 0.00 0.00 2.52
8870 9276 5.623956 TTGGGGTAGTATCATACAACCTG 57.376 43.478 0.00 0.00 0.00 4.00
9317 9846 4.771054 ACCAACCACTTGTACTACCTCTAG 59.229 45.833 0.00 0.00 0.00 2.43
9447 9976 4.399618 TGTAACTTGTAAGCACAAAAGGCA 59.600 37.500 0.00 0.00 43.92 4.75
9583 10112 4.722194 CCGTATGTGTGGATCAACAAAAG 58.278 43.478 3.96 0.00 0.00 2.27
9587 10116 1.002544 TGCCGTATGTGTGGATCAACA 59.997 47.619 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.