Multiple sequence alignment - TraesCS3B01G396600

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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 TraesCS3B01G396600 chr3B 100.000 2207 0 0 1 2207 625420251 625422457 0.000000e+00 4076.0
1 TraesCS3B01G396600 chr3B 93.600 375 21 1 1 375 825577325 825577696 6.880000e-155 556.0
2 TraesCS3B01G396600 chr3B 93.067 375 26 0 1 375 799300727 799300353 1.150000e-152 549.0
3 TraesCS3B01G396600 chr3B 95.062 81 3 1 378 457 825577756 825577836 2.300000e-25 126.0
4 TraesCS3B01G396600 chr3B 95.062 81 3 1 378 457 825585617 825585697 2.300000e-25 126.0
5 TraesCS3B01G396600 chr3B 92.000 75 5 1 378 451 799300291 799300217 1.080000e-18 104.0
6 TraesCS3B01G396600 chr3B 97.436 39 1 0 2155 2193 180132948 180132986 1.410000e-07 67.6
7 TraesCS3B01G396600 chr3B 93.023 43 2 1 2155 2197 278477949 278477990 6.580000e-06 62.1
8 TraesCS3B01G396600 chr3D 86.409 1192 70 30 547 1696 471077705 471078846 0.000000e+00 1219.0
9 TraesCS3B01G396600 chr3D 93.333 375 24 1 1 375 489527974 489527601 8.900000e-154 553.0
10 TraesCS3B01G396600 chr3D 92.375 341 13 8 1680 2011 471078859 471079195 7.130000e-130 473.0
11 TraesCS3B01G396600 chr3D 91.892 74 5 1 378 450 607314955 607315028 3.880000e-18 102.0
12 TraesCS3B01G396600 chr3A 87.487 959 45 24 551 1477 613197678 613198593 0.000000e+00 1037.0
13 TraesCS3B01G396600 chr3A 91.680 637 34 12 1487 2120 613214221 613214841 0.000000e+00 865.0
14 TraesCS3B01G396600 chr3A 83.505 97 14 2 374 468 694018762 694018858 3.020000e-14 89.8
15 TraesCS3B01G396600 chr3A 81.522 92 7 3 2118 2199 19272020 19272111 1.410000e-07 67.6
16 TraesCS3B01G396600 chr1B 94.933 375 19 0 1 375 12731731 12732105 2.440000e-164 588.0
17 TraesCS3B01G396600 chr1B 95.122 41 2 0 2152 2192 544785565 544785605 5.090000e-07 65.8
18 TraesCS3B01G396600 chr1D 93.333 375 25 0 1 375 296632335 296632709 2.480000e-154 555.0
19 TraesCS3B01G396600 chr1D 95.238 42 2 0 2155 2196 256629999 256629958 1.410000e-07 67.6
20 TraesCS3B01G396600 chr1D 95.238 42 2 0 2155 2196 410770117 410770076 1.410000e-07 67.6
21 TraesCS3B01G396600 chr4B 92.800 375 27 0 1 375 581152123 581151749 5.360000e-151 544.0
22 TraesCS3B01G396600 chr6B 92.533 375 28 0 1 375 65134376 65134750 2.490000e-149 538.0
23 TraesCS3B01G396600 chr6B 88.235 85 8 2 368 451 56969461 56969378 1.390000e-17 100.0
24 TraesCS3B01G396600 chr7A 92.533 375 27 1 1 375 634327696 634328069 8.970000e-149 536.0
25 TraesCS3B01G396600 chr7A 82.558 86 5 5 2118 2193 714143634 714143719 1.410000e-07 67.6
26 TraesCS3B01G396600 chr5B 92.493 373 27 1 1 373 559164898 559164527 1.160000e-147 532.0
27 TraesCS3B01G396600 chrUn 95.062 81 3 1 378 457 479410913 479410833 2.300000e-25 126.0
28 TraesCS3B01G396600 chr2B 92.000 75 4 2 378 451 417643237 417643310 1.080000e-18 104.0
29 TraesCS3B01G396600 chr7D 90.789 76 6 1 378 452 119564367 119564292 1.390000e-17 100.0
30 TraesCS3B01G396600 chr7B 97.436 39 1 0 2155 2193 127527137 127527175 1.410000e-07 67.6
31 TraesCS3B01G396600 chr7B 91.304 46 4 0 2155 2200 742644958 742644913 1.830000e-06 63.9


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 TraesCS3B01G396600 chr3B 625420251 625422457 2206 False 4076.0 4076 100.0000 1 2207 1 chr3B.!!$F3 2206
1 TraesCS3B01G396600 chr3B 825577325 825577836 511 False 341.0 556 94.3310 1 457 2 chr3B.!!$F5 456
2 TraesCS3B01G396600 chr3B 799300217 799300727 510 True 326.5 549 92.5335 1 451 2 chr3B.!!$R1 450
3 TraesCS3B01G396600 chr3D 471077705 471079195 1490 False 846.0 1219 89.3920 547 2011 2 chr3D.!!$F2 1464
4 TraesCS3B01G396600 chr3A 613197678 613198593 915 False 1037.0 1037 87.4870 551 1477 1 chr3A.!!$F2 926
5 TraesCS3B01G396600 chr3A 613214221 613214841 620 False 865.0 865 91.6800 1487 2120 1 chr3A.!!$F3 633

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
535 599 0.103208 CCTACTAGCAGAACCGCCAG 59.897 60.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1836 1982 0.813184 CGAATGCATCTTGCCCTGTT 59.187 50.0 0.0 0.0 44.23 3.16 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
29 30 1.408822 GGAGGAAACCATACCTGCCTG 60.409 57.143 0.00 0.00 38.41 4.85
33 34 0.336048 AAACCATACCTGCCTGCCAT 59.664 50.000 0.00 0.00 0.00 4.40
40 41 1.380785 CCTGCCTGCCATGAACCAT 60.381 57.895 0.00 0.00 0.00 3.55
66 67 2.158842 CCAGATCCACCATCTTCCAGAC 60.159 54.545 0.00 0.00 40.20 3.51
74 78 0.446616 CATCTTCCAGACGTCGTCGA 59.553 55.000 19.11 10.61 37.67 4.20
75 79 1.064208 CATCTTCCAGACGTCGTCGAT 59.936 52.381 19.11 12.35 37.67 3.59
76 80 0.446616 TCTTCCAGACGTCGTCGATG 59.553 55.000 19.11 12.90 37.67 3.84
99 103 2.089980 GACCACAATCTGCATCTGCTT 58.910 47.619 3.53 0.00 42.66 3.91
151 155 3.515286 GAGCAAACGCCGTCGCAAA 62.515 57.895 13.17 0.00 39.84 3.68
256 260 0.393267 CCCCAAAAACGGATCGCCTA 60.393 55.000 0.00 0.00 0.00 3.93
266 270 1.406341 CGGATCGCCTAGTTGGGAAAA 60.406 52.381 0.00 0.00 36.00 2.29
375 379 1.777030 AACAATCAACGCGCGTGGAA 61.777 50.000 40.37 26.51 31.06 3.53
376 380 1.082431 CAATCAACGCGCGTGGAAA 60.082 52.632 40.37 22.29 31.06 3.13
403 466 3.474570 CAGGAAGGCGCCCTAGCT 61.475 66.667 26.15 0.00 36.60 3.32
435 498 4.676723 CGAGATCGCCTTTCTTTCTTCTCT 60.677 45.833 0.00 0.00 0.00 3.10
457 521 0.534203 AAGAAAGAAAGCGCACGGGA 60.534 50.000 11.47 0.00 0.00 5.14
458 522 0.321653 AGAAAGAAAGCGCACGGGAT 60.322 50.000 11.47 0.00 0.00 3.85
459 523 0.521735 GAAAGAAAGCGCACGGGATT 59.478 50.000 11.47 0.00 0.00 3.01
460 524 0.958822 AAAGAAAGCGCACGGGATTT 59.041 45.000 11.47 0.00 0.00 2.17
461 525 0.521735 AAGAAAGCGCACGGGATTTC 59.478 50.000 11.47 14.71 32.95 2.17
462 526 0.321653 AGAAAGCGCACGGGATTTCT 60.322 50.000 18.19 18.19 37.21 2.52
463 527 1.066430 AGAAAGCGCACGGGATTTCTA 60.066 47.619 21.24 0.00 39.55 2.10
464 528 1.327764 GAAAGCGCACGGGATTTCTAG 59.672 52.381 11.47 0.00 0.00 2.43
465 529 0.535335 AAGCGCACGGGATTTCTAGA 59.465 50.000 11.47 0.00 0.00 2.43
466 530 0.753262 AGCGCACGGGATTTCTAGAT 59.247 50.000 11.47 0.00 0.00 1.98
467 531 1.140816 GCGCACGGGATTTCTAGATC 58.859 55.000 0.30 0.00 0.00 2.75
468 532 1.538204 GCGCACGGGATTTCTAGATCA 60.538 52.381 0.30 0.00 0.00 2.92
469 533 2.868044 GCGCACGGGATTTCTAGATCAT 60.868 50.000 0.30 0.00 0.00 2.45
470 534 3.614150 GCGCACGGGATTTCTAGATCATA 60.614 47.826 0.30 0.00 0.00 2.15
471 535 4.556233 CGCACGGGATTTCTAGATCATAA 58.444 43.478 0.00 0.00 0.00 1.90
472 536 5.171476 CGCACGGGATTTCTAGATCATAAT 58.829 41.667 0.00 0.00 0.00 1.28
473 537 5.639506 CGCACGGGATTTCTAGATCATAATT 59.360 40.000 0.00 0.00 0.00 1.40
474 538 6.811665 CGCACGGGATTTCTAGATCATAATTA 59.188 38.462 0.00 0.00 0.00 1.40
475 539 7.492669 CGCACGGGATTTCTAGATCATAATTAT 59.507 37.037 0.00 0.00 0.00 1.28
476 540 8.821894 GCACGGGATTTCTAGATCATAATTATC 58.178 37.037 0.00 0.00 0.00 1.75
477 541 9.319143 CACGGGATTTCTAGATCATAATTATCC 57.681 37.037 0.00 0.00 0.00 2.59
478 542 8.487028 ACGGGATTTCTAGATCATAATTATCCC 58.513 37.037 16.07 16.07 43.33 3.85
479 543 8.709308 CGGGATTTCTAGATCATAATTATCCCT 58.291 37.037 20.30 5.08 44.16 4.20
492 556 9.403583 TCATAATTATCCCTTCAACTAAACCAC 57.596 33.333 0.00 0.00 0.00 4.16
493 557 6.753107 AATTATCCCTTCAACTAAACCACG 57.247 37.500 0.00 0.00 0.00 4.94
494 558 3.782656 ATCCCTTCAACTAAACCACGT 57.217 42.857 0.00 0.00 0.00 4.49
495 559 4.895668 ATCCCTTCAACTAAACCACGTA 57.104 40.909 0.00 0.00 0.00 3.57
496 560 4.686191 TCCCTTCAACTAAACCACGTAA 57.314 40.909 0.00 0.00 0.00 3.18
516 580 6.027749 CGTAAGTGAATGTTATTGGAAAGGC 58.972 40.000 0.00 0.00 0.00 4.35
517 581 5.405935 AAGTGAATGTTATTGGAAAGGCC 57.594 39.130 0.00 0.00 37.10 5.19
518 582 4.677182 AGTGAATGTTATTGGAAAGGCCT 58.323 39.130 0.00 0.00 37.63 5.19
519 583 5.826643 AGTGAATGTTATTGGAAAGGCCTA 58.173 37.500 5.16 0.00 37.63 3.93
520 584 5.652452 AGTGAATGTTATTGGAAAGGCCTAC 59.348 40.000 5.16 2.99 37.63 3.18
521 585 5.652452 GTGAATGTTATTGGAAAGGCCTACT 59.348 40.000 5.16 0.00 37.63 2.57
522 586 6.826741 GTGAATGTTATTGGAAAGGCCTACTA 59.173 38.462 5.16 0.00 37.63 1.82
523 587 7.012421 GTGAATGTTATTGGAAAGGCCTACTAG 59.988 40.741 5.16 0.00 37.63 2.57
524 588 4.777463 TGTTATTGGAAAGGCCTACTAGC 58.223 43.478 5.16 0.00 37.63 3.42
525 589 4.226394 TGTTATTGGAAAGGCCTACTAGCA 59.774 41.667 5.16 0.00 37.63 3.49
526 590 3.567478 ATTGGAAAGGCCTACTAGCAG 57.433 47.619 5.16 0.00 37.63 4.24
527 591 2.247699 TGGAAAGGCCTACTAGCAGA 57.752 50.000 5.16 0.00 37.63 4.26
528 592 2.546899 TGGAAAGGCCTACTAGCAGAA 58.453 47.619 5.16 0.00 37.63 3.02
529 593 2.236395 TGGAAAGGCCTACTAGCAGAAC 59.764 50.000 5.16 0.00 37.63 3.01
530 594 2.420269 GGAAAGGCCTACTAGCAGAACC 60.420 54.545 5.16 0.00 0.00 3.62
531 595 0.824759 AAGGCCTACTAGCAGAACCG 59.175 55.000 5.16 0.00 0.00 4.44
532 596 1.227292 GGCCTACTAGCAGAACCGC 60.227 63.158 0.00 0.00 0.00 5.68
533 597 1.227292 GCCTACTAGCAGAACCGCC 60.227 63.158 0.00 0.00 0.00 6.13
534 598 1.956629 GCCTACTAGCAGAACCGCCA 61.957 60.000 0.00 0.00 0.00 5.69
535 599 0.103208 CCTACTAGCAGAACCGCCAG 59.897 60.000 0.00 0.00 0.00 4.85
536 600 1.103803 CTACTAGCAGAACCGCCAGA 58.896 55.000 0.00 0.00 0.00 3.86
537 601 1.066303 CTACTAGCAGAACCGCCAGAG 59.934 57.143 0.00 0.00 0.00 3.35
538 602 1.142748 CTAGCAGAACCGCCAGAGG 59.857 63.158 0.00 0.00 37.30 3.69
539 603 2.914777 CTAGCAGAACCGCCAGAGGC 62.915 65.000 0.00 0.00 46.75 4.70
549 613 2.695314 GCCAGAGGCGTAATTGAGG 58.305 57.895 0.00 0.00 39.62 3.86
612 676 4.374702 CGCGTGCTGAGTGGCAAC 62.375 66.667 0.00 0.00 44.18 4.17
633 711 3.195825 ACAGTCCTCTTTGATCCCGTTAG 59.804 47.826 0.00 0.00 0.00 2.34
662 740 2.681848 GGCTGTCTCTTCCAATCACATG 59.318 50.000 0.00 0.00 0.00 3.21
682 771 1.270147 GGTTCCACTGTGCGAGTACTT 60.270 52.381 1.29 0.00 31.73 2.24
686 775 1.000163 CCACTGTGCGAGTACTTCTGT 60.000 52.381 1.29 0.00 31.73 3.41
745 837 3.244770 ACACCTAATCCGCTTCCAAAAGA 60.245 43.478 0.00 0.00 34.14 2.52
819 925 1.599047 CACTGATTCCCTCGCCACT 59.401 57.895 0.00 0.00 0.00 4.00
897 1003 1.349688 TCCCCCGGCACAATATCATAC 59.650 52.381 0.00 0.00 0.00 2.39
898 1004 1.438651 CCCCGGCACAATATCATACG 58.561 55.000 0.00 0.00 0.00 3.06
899 1005 1.001520 CCCCGGCACAATATCATACGA 59.998 52.381 0.00 0.00 0.00 3.43
900 1006 2.549134 CCCCGGCACAATATCATACGAA 60.549 50.000 0.00 0.00 0.00 3.85
901 1007 3.135225 CCCGGCACAATATCATACGAAA 58.865 45.455 0.00 0.00 0.00 3.46
902 1008 3.059188 CCCGGCACAATATCATACGAAAC 60.059 47.826 0.00 0.00 0.00 2.78
904 1010 4.318760 CCGGCACAATATCATACGAAACTG 60.319 45.833 0.00 0.00 0.00 3.16
905 1011 4.527564 GGCACAATATCATACGAAACTGC 58.472 43.478 0.00 0.00 0.00 4.40
906 1012 4.273480 GGCACAATATCATACGAAACTGCT 59.727 41.667 0.00 0.00 0.00 4.24
907 1013 5.435557 GCACAATATCATACGAAACTGCTC 58.564 41.667 0.00 0.00 0.00 4.26
908 1014 5.235186 GCACAATATCATACGAAACTGCTCT 59.765 40.000 0.00 0.00 0.00 4.09
909 1015 6.643845 CACAATATCATACGAAACTGCTCTG 58.356 40.000 0.00 0.00 0.00 3.35
910 1016 5.235186 ACAATATCATACGAAACTGCTCTGC 59.765 40.000 0.00 0.00 0.00 4.26
911 1017 3.533606 ATCATACGAAACTGCTCTGCT 57.466 42.857 0.00 0.00 0.00 4.24
912 1018 2.881074 TCATACGAAACTGCTCTGCTC 58.119 47.619 0.00 0.00 0.00 4.26
913 1019 2.493675 TCATACGAAACTGCTCTGCTCT 59.506 45.455 0.00 0.00 0.00 4.09
914 1020 2.354109 TACGAAACTGCTCTGCTCTG 57.646 50.000 0.00 0.00 0.00 3.35
915 1021 0.948141 ACGAAACTGCTCTGCTCTGC 60.948 55.000 0.00 0.00 0.00 4.26
916 1022 1.786582 GAAACTGCTCTGCTCTGCG 59.213 57.895 0.00 0.00 0.00 5.18
917 1023 0.948141 GAAACTGCTCTGCTCTGCGT 60.948 55.000 0.00 0.00 0.00 5.24
918 1024 0.948141 AAACTGCTCTGCTCTGCGTC 60.948 55.000 0.00 0.00 0.00 5.19
919 1025 2.879933 CTGCTCTGCTCTGCGTCG 60.880 66.667 0.00 0.00 0.00 5.12
920 1026 3.333898 CTGCTCTGCTCTGCGTCGA 62.334 63.158 0.00 0.00 0.00 4.20
921 1027 2.126307 GCTCTGCTCTGCGTCGAA 60.126 61.111 0.00 0.00 0.00 3.71
922 1028 1.518133 GCTCTGCTCTGCGTCGAAT 60.518 57.895 0.00 0.00 0.00 3.34
923 1029 0.248661 GCTCTGCTCTGCGTCGAATA 60.249 55.000 0.00 0.00 0.00 1.75
924 1030 1.601663 GCTCTGCTCTGCGTCGAATAT 60.602 52.381 0.00 0.00 0.00 1.28
925 1031 2.315011 CTCTGCTCTGCGTCGAATATC 58.685 52.381 0.00 0.00 0.00 1.63
926 1032 1.676006 TCTGCTCTGCGTCGAATATCA 59.324 47.619 0.00 0.00 0.00 2.15
927 1033 2.294512 TCTGCTCTGCGTCGAATATCAT 59.705 45.455 0.00 0.00 0.00 2.45
928 1034 3.502211 TCTGCTCTGCGTCGAATATCATA 59.498 43.478 0.00 0.00 0.00 2.15
929 1035 3.565516 TGCTCTGCGTCGAATATCATAC 58.434 45.455 0.00 0.00 0.00 2.39
930 1036 3.253432 TGCTCTGCGTCGAATATCATACT 59.747 43.478 0.00 0.00 0.00 2.12
950 1056 1.213013 CGTGTGACCCTCTTCCTCG 59.787 63.158 0.00 0.00 0.00 4.63
967 1073 2.294078 CGGCTCCCCTGTTCCTCTT 61.294 63.158 0.00 0.00 0.00 2.85
978 1086 3.447229 CCTGTTCCTCTTTCTCTCTCTCC 59.553 52.174 0.00 0.00 0.00 3.71
1222 1330 9.270640 TCTACGTCTGATCTTACCTTATCTTAC 57.729 37.037 0.00 0.00 0.00 2.34
1234 1342 9.355215 CTTACCTTATCTTACTTACTGTGTGTG 57.645 37.037 0.00 0.00 0.00 3.82
1235 1343 6.164176 ACCTTATCTTACTTACTGTGTGTGC 58.836 40.000 0.00 0.00 0.00 4.57
1236 1344 5.288712 CCTTATCTTACTTACTGTGTGTGCG 59.711 44.000 0.00 0.00 0.00 5.34
1237 1345 2.400399 TCTTACTTACTGTGTGTGCGC 58.600 47.619 0.00 0.00 0.00 6.09
1375 1487 4.809070 AGCTTCCGCTTTGCTCTT 57.191 50.000 0.00 0.00 46.47 2.85
1385 1497 7.625606 GCTTCCGCTTTGCTCTTAGTAATAAAA 60.626 37.037 0.00 0.00 0.00 1.52
1412 1524 8.050778 AGCTATGAAACGGTGATTATTTTTCA 57.949 30.769 0.00 0.00 39.73 2.69
1421 1533 5.293324 CGGTGATTATTTTTCAGACGGATGA 59.707 40.000 0.00 0.00 0.00 2.92
1435 1547 2.017049 CGGATGATTTTCTTTCGGCCT 58.983 47.619 0.00 0.00 0.00 5.19
1448 1560 4.876107 TCTTTCGGCCTGTTAAGATGAATC 59.124 41.667 0.00 0.00 0.00 2.52
1450 1562 2.158813 TCGGCCTGTTAAGATGAATCCC 60.159 50.000 0.00 0.00 0.00 3.85
1480 1592 6.574350 AGTACCACTGCATAGTAATTCAGAC 58.426 40.000 0.00 0.00 34.74 3.51
1484 1596 4.504461 CACTGCATAGTAATTCAGACGTCC 59.496 45.833 13.01 0.00 34.74 4.79
1510 1622 4.131596 ACGCATTTACAGTAGGTTTGTGT 58.868 39.130 0.00 0.00 0.00 3.72
1511 1623 4.577283 ACGCATTTACAGTAGGTTTGTGTT 59.423 37.500 0.00 0.00 0.00 3.32
1545 1657 5.957910 TTTTAACTTTTCGACCGAACGTA 57.042 34.783 4.17 0.00 33.41 3.57
1562 1674 4.037858 ACGTATGTGTATTCGAGGGAAC 57.962 45.455 0.00 0.00 34.37 3.62
1583 1695 0.830023 TGTGGGTGTCCGATCACTGA 60.830 55.000 9.12 0.00 38.28 3.41
1584 1696 0.537188 GTGGGTGTCCGATCACTGAT 59.463 55.000 9.12 0.00 38.28 2.90
1585 1697 1.066143 GTGGGTGTCCGATCACTGATT 60.066 52.381 9.12 0.00 38.28 2.57
1586 1698 1.207089 TGGGTGTCCGATCACTGATTC 59.793 52.381 9.12 0.00 38.28 2.52
1587 1699 1.207089 GGGTGTCCGATCACTGATTCA 59.793 52.381 9.12 0.00 38.28 2.57
1588 1700 2.271800 GGTGTCCGATCACTGATTCAC 58.728 52.381 9.12 2.11 38.28 3.18
1589 1701 2.093973 GGTGTCCGATCACTGATTCACT 60.094 50.000 9.12 0.00 38.28 3.41
1590 1702 2.926200 GTGTCCGATCACTGATTCACTG 59.074 50.000 0.00 0.00 35.68 3.66
1598 1710 4.248691 TCACTGATTCACTGTGTCAGAG 57.751 45.455 25.98 20.45 44.81 3.35
1606 1718 2.760650 TCACTGTGTCAGAGTGTCAGTT 59.239 45.455 24.82 0.00 41.43 3.16
1631 1743 6.459670 TCTGCTACCGAATACAGTTATCAA 57.540 37.500 0.00 0.00 0.00 2.57
1643 1755 5.924475 ACAGTTATCAAGTTCAGAAACCG 57.076 39.130 0.00 0.00 35.92 4.44
1775 1921 3.262420 CAGTGCGATACTTAAGTGGCTT 58.738 45.455 18.56 8.56 37.60 4.35
1835 1981 0.872388 ATTTTGCCTTGACGACGGTC 59.128 50.000 0.00 0.00 43.71 4.79
1863 2011 2.160219 GCAAGATGCATTCGACAAGACA 59.840 45.455 0.00 0.00 44.26 3.41
1924 2072 7.856145 AATGATAACTGTCAAGATGAGGAAC 57.144 36.000 0.00 0.00 0.00 3.62
1972 2121 4.142600 GGTCTGCATGTTTCATGTCCTAAC 60.143 45.833 10.68 0.00 0.00 2.34
1986 2135 1.765904 TCCTAACGAGCATAATGCCCA 59.234 47.619 0.00 0.00 46.52 5.36
2125 2275 2.598686 GGGAACGGAACTACTCCATC 57.401 55.000 0.00 0.00 45.74 3.51
2126 2276 1.138464 GGGAACGGAACTACTCCATCC 59.862 57.143 4.69 4.69 45.74 3.51
2131 2281 0.751452 GGAACTACTCCATCCGTCCC 59.249 60.000 0.00 0.00 44.67 4.46
2132 2282 1.481871 GAACTACTCCATCCGTCCCA 58.518 55.000 0.00 0.00 0.00 4.37
2133 2283 2.040178 GAACTACTCCATCCGTCCCAT 58.960 52.381 0.00 0.00 0.00 4.00
2134 2284 3.228453 GAACTACTCCATCCGTCCCATA 58.772 50.000 0.00 0.00 0.00 2.74
2135 2285 2.877866 ACTACTCCATCCGTCCCATAG 58.122 52.381 0.00 0.00 0.00 2.23
2136 2286 2.177233 ACTACTCCATCCGTCCCATAGT 59.823 50.000 0.00 0.00 0.00 2.12
2137 2287 3.396946 ACTACTCCATCCGTCCCATAGTA 59.603 47.826 0.00 0.00 0.00 1.82
2138 2288 3.544698 ACTCCATCCGTCCCATAGTAT 57.455 47.619 0.00 0.00 0.00 2.12
2139 2289 4.669866 ACTCCATCCGTCCCATAGTATA 57.330 45.455 0.00 0.00 0.00 1.47
2140 2290 5.006896 ACTCCATCCGTCCCATAGTATAA 57.993 43.478 0.00 0.00 0.00 0.98
2141 2291 5.017490 ACTCCATCCGTCCCATAGTATAAG 58.983 45.833 0.00 0.00 0.00 1.73
2142 2292 5.222275 ACTCCATCCGTCCCATAGTATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
2143 2293 5.647230 TCCATCCGTCCCATAGTATAAGAA 58.353 41.667 0.00 0.00 0.00 2.52
2144 2294 5.715279 TCCATCCGTCCCATAGTATAAGAAG 59.285 44.000 0.00 0.00 0.00 2.85
2145 2295 5.480772 CCATCCGTCCCATAGTATAAGAAGT 59.519 44.000 0.00 0.00 0.00 3.01
2146 2296 6.014499 CCATCCGTCCCATAGTATAAGAAGTT 60.014 42.308 0.00 0.00 0.00 2.66
2147 2297 7.442656 CATCCGTCCCATAGTATAAGAAGTTT 58.557 38.462 0.00 0.00 0.00 2.66
2148 2298 7.427989 TCCGTCCCATAGTATAAGAAGTTTT 57.572 36.000 0.00 0.00 0.00 2.43
2149 2299 7.854337 TCCGTCCCATAGTATAAGAAGTTTTT 58.146 34.615 0.00 0.00 0.00 1.94
2150 2300 7.767198 TCCGTCCCATAGTATAAGAAGTTTTTG 59.233 37.037 0.00 0.00 0.00 2.44
2151 2301 7.767198 CCGTCCCATAGTATAAGAAGTTTTTGA 59.233 37.037 0.00 0.00 0.00 2.69
2152 2302 8.601476 CGTCCCATAGTATAAGAAGTTTTTGAC 58.399 37.037 0.00 0.00 0.00 3.18
2153 2303 9.444600 GTCCCATAGTATAAGAAGTTTTTGACA 57.555 33.333 0.00 0.00 0.00 3.58
2187 2337 9.712305 AACATTCTTATATTATGGAACGGAGAG 57.288 33.333 0.00 0.00 0.00 3.20
2188 2338 9.090103 ACATTCTTATATTATGGAACGGAGAGA 57.910 33.333 0.00 0.00 0.00 3.10
2189 2339 9.579768 CATTCTTATATTATGGAACGGAGAGAG 57.420 37.037 0.00 0.00 0.00 3.20
2190 2340 8.707796 TTCTTATATTATGGAACGGAGAGAGT 57.292 34.615 0.00 0.00 0.00 3.24
2191 2341 9.803507 TTCTTATATTATGGAACGGAGAGAGTA 57.196 33.333 0.00 0.00 0.00 2.59
2192 2342 9.228949 TCTTATATTATGGAACGGAGAGAGTAC 57.771 37.037 0.00 0.00 0.00 2.73
2193 2343 6.837471 ATATTATGGAACGGAGAGAGTACC 57.163 41.667 0.00 0.00 0.00 3.34
2194 2344 2.526888 ATGGAACGGAGAGAGTACCA 57.473 50.000 0.00 0.00 0.00 3.25
2195 2345 2.297698 TGGAACGGAGAGAGTACCAA 57.702 50.000 0.00 0.00 0.00 3.67
2196 2346 2.600790 TGGAACGGAGAGAGTACCAAA 58.399 47.619 0.00 0.00 0.00 3.28
2197 2347 2.298163 TGGAACGGAGAGAGTACCAAAC 59.702 50.000 0.00 0.00 0.00 2.93
2198 2348 2.561858 GGAACGGAGAGAGTACCAAACT 59.438 50.000 0.00 0.00 42.80 2.66
2199 2349 3.576648 GAACGGAGAGAGTACCAAACTG 58.423 50.000 0.00 0.00 39.07 3.16
2200 2350 2.872732 ACGGAGAGAGTACCAAACTGA 58.127 47.619 0.00 0.00 39.07 3.41
2201 2351 3.432378 ACGGAGAGAGTACCAAACTGAT 58.568 45.455 0.00 0.00 39.07 2.90
2202 2352 3.193691 ACGGAGAGAGTACCAAACTGATG 59.806 47.826 0.00 0.00 39.07 3.07
2203 2353 3.444034 CGGAGAGAGTACCAAACTGATGA 59.556 47.826 0.00 0.00 39.07 2.92
2204 2354 4.082190 CGGAGAGAGTACCAAACTGATGAA 60.082 45.833 0.00 0.00 39.07 2.57
2205 2355 5.566826 CGGAGAGAGTACCAAACTGATGAAA 60.567 44.000 0.00 0.00 39.07 2.69
2206 2356 5.872070 GGAGAGAGTACCAAACTGATGAAAG 59.128 44.000 0.00 0.00 39.07 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 0.819582 CTGGGTTCATGGTTCATGGC 59.180 55.000 7.88 2.56 41.66 4.40
33 34 1.991813 TGGATCTGGGTTCATGGTTCA 59.008 47.619 0.00 0.00 0.00 3.18
40 41 1.971149 AGATGGTGGATCTGGGTTCA 58.029 50.000 0.00 0.00 40.19 3.18
66 67 2.152699 GTGGTCTGCATCGACGACG 61.153 63.158 0.00 0.00 33.95 5.12
256 260 9.539194 AATAAATCTTCAGATCTTTTCCCAACT 57.461 29.630 0.00 0.00 32.75 3.16
266 270 6.858993 GCGTCGACTAATAAATCTTCAGATCT 59.141 38.462 14.70 0.00 32.75 2.75
375 379 3.041940 CTTCCTGCGCCGTCGTTT 61.042 61.111 4.18 0.00 38.14 3.60
435 498 1.002900 CCGTGCGCTTTCTTTCTTCAA 60.003 47.619 9.73 0.00 0.00 2.69
466 530 9.403583 GTGGTTTAGTTGAAGGGATAATTATGA 57.596 33.333 1.78 0.00 0.00 2.15
467 531 8.342634 CGTGGTTTAGTTGAAGGGATAATTATG 58.657 37.037 1.78 0.00 0.00 1.90
468 532 8.050930 ACGTGGTTTAGTTGAAGGGATAATTAT 58.949 33.333 0.00 0.00 0.00 1.28
469 533 7.396418 ACGTGGTTTAGTTGAAGGGATAATTA 58.604 34.615 0.00 0.00 0.00 1.40
470 534 6.243148 ACGTGGTTTAGTTGAAGGGATAATT 58.757 36.000 0.00 0.00 0.00 1.40
471 535 5.812286 ACGTGGTTTAGTTGAAGGGATAAT 58.188 37.500 0.00 0.00 0.00 1.28
472 536 5.231702 ACGTGGTTTAGTTGAAGGGATAA 57.768 39.130 0.00 0.00 0.00 1.75
473 537 4.895668 ACGTGGTTTAGTTGAAGGGATA 57.104 40.909 0.00 0.00 0.00 2.59
474 538 3.782656 ACGTGGTTTAGTTGAAGGGAT 57.217 42.857 0.00 0.00 0.00 3.85
475 539 4.101430 ACTTACGTGGTTTAGTTGAAGGGA 59.899 41.667 0.00 0.00 0.00 4.20
476 540 4.212636 CACTTACGTGGTTTAGTTGAAGGG 59.787 45.833 0.00 0.00 37.50 3.95
477 541 5.051816 TCACTTACGTGGTTTAGTTGAAGG 58.948 41.667 0.00 0.00 41.53 3.46
478 542 6.592798 TTCACTTACGTGGTTTAGTTGAAG 57.407 37.500 0.00 0.00 41.53 3.02
479 543 6.539464 ACATTCACTTACGTGGTTTAGTTGAA 59.461 34.615 0.00 0.00 41.53 2.69
480 544 6.050432 ACATTCACTTACGTGGTTTAGTTGA 58.950 36.000 0.00 0.00 41.53 3.18
481 545 6.295039 ACATTCACTTACGTGGTTTAGTTG 57.705 37.500 0.00 0.00 41.53 3.16
482 546 6.930667 AACATTCACTTACGTGGTTTAGTT 57.069 33.333 0.00 0.00 41.53 2.24
483 547 8.500773 CAATAACATTCACTTACGTGGTTTAGT 58.499 33.333 0.00 0.00 41.53 2.24
484 548 7.960738 CCAATAACATTCACTTACGTGGTTTAG 59.039 37.037 0.00 0.00 41.53 1.85
485 549 7.660617 TCCAATAACATTCACTTACGTGGTTTA 59.339 33.333 0.00 0.00 41.53 2.01
486 550 6.487331 TCCAATAACATTCACTTACGTGGTTT 59.513 34.615 0.00 0.00 41.53 3.27
487 551 5.998981 TCCAATAACATTCACTTACGTGGTT 59.001 36.000 0.00 0.00 41.53 3.67
488 552 5.553123 TCCAATAACATTCACTTACGTGGT 58.447 37.500 0.00 0.00 41.53 4.16
489 553 6.489127 TTCCAATAACATTCACTTACGTGG 57.511 37.500 0.00 0.00 41.53 4.94
490 554 7.021196 CCTTTCCAATAACATTCACTTACGTG 58.979 38.462 0.00 0.00 42.59 4.49
491 555 6.349033 GCCTTTCCAATAACATTCACTTACGT 60.349 38.462 0.00 0.00 0.00 3.57
492 556 6.027749 GCCTTTCCAATAACATTCACTTACG 58.972 40.000 0.00 0.00 0.00 3.18
493 557 6.152831 AGGCCTTTCCAATAACATTCACTTAC 59.847 38.462 0.00 0.00 37.29 2.34
494 558 6.252995 AGGCCTTTCCAATAACATTCACTTA 58.747 36.000 0.00 0.00 37.29 2.24
495 559 5.086621 AGGCCTTTCCAATAACATTCACTT 58.913 37.500 0.00 0.00 37.29 3.16
496 560 4.677182 AGGCCTTTCCAATAACATTCACT 58.323 39.130 0.00 0.00 37.29 3.41
497 561 5.652452 AGTAGGCCTTTCCAATAACATTCAC 59.348 40.000 12.58 0.00 37.29 3.18
498 562 5.826643 AGTAGGCCTTTCCAATAACATTCA 58.173 37.500 12.58 0.00 37.29 2.57
499 563 6.017026 GCTAGTAGGCCTTTCCAATAACATTC 60.017 42.308 12.58 0.00 37.29 2.67
500 564 5.828328 GCTAGTAGGCCTTTCCAATAACATT 59.172 40.000 12.58 0.00 37.29 2.71
501 565 5.104109 TGCTAGTAGGCCTTTCCAATAACAT 60.104 40.000 12.58 0.00 37.29 2.71
502 566 4.226394 TGCTAGTAGGCCTTTCCAATAACA 59.774 41.667 12.58 0.00 37.29 2.41
503 567 4.777463 TGCTAGTAGGCCTTTCCAATAAC 58.223 43.478 12.58 0.00 37.29 1.89
504 568 4.719773 TCTGCTAGTAGGCCTTTCCAATAA 59.280 41.667 12.58 0.00 37.29 1.40
505 569 4.295201 TCTGCTAGTAGGCCTTTCCAATA 58.705 43.478 12.58 0.00 37.29 1.90
506 570 3.115390 TCTGCTAGTAGGCCTTTCCAAT 58.885 45.455 12.58 0.00 37.29 3.16
507 571 2.546899 TCTGCTAGTAGGCCTTTCCAA 58.453 47.619 12.58 0.00 37.29 3.53
508 572 2.236395 GTTCTGCTAGTAGGCCTTTCCA 59.764 50.000 12.58 0.45 37.29 3.53
509 573 2.420269 GGTTCTGCTAGTAGGCCTTTCC 60.420 54.545 12.58 0.00 0.00 3.13
510 574 2.738964 CGGTTCTGCTAGTAGGCCTTTC 60.739 54.545 12.58 4.83 0.00 2.62
511 575 1.207329 CGGTTCTGCTAGTAGGCCTTT 59.793 52.381 12.58 1.84 0.00 3.11
512 576 0.824759 CGGTTCTGCTAGTAGGCCTT 59.175 55.000 12.58 0.00 0.00 4.35
513 577 1.677637 GCGGTTCTGCTAGTAGGCCT 61.678 60.000 11.78 11.78 0.00 5.19
514 578 1.227292 GCGGTTCTGCTAGTAGGCC 60.227 63.158 8.07 9.61 0.00 5.19
515 579 1.227292 GGCGGTTCTGCTAGTAGGC 60.227 63.158 8.07 3.31 34.52 3.93
516 580 0.103208 CTGGCGGTTCTGCTAGTAGG 59.897 60.000 8.07 0.00 38.51 3.18
517 581 1.066303 CTCTGGCGGTTCTGCTAGTAG 59.934 57.143 14.71 0.63 43.26 2.57
518 582 1.103803 CTCTGGCGGTTCTGCTAGTA 58.896 55.000 14.71 3.87 43.26 1.82
519 583 1.608717 CCTCTGGCGGTTCTGCTAGT 61.609 60.000 14.71 0.00 43.26 2.57
520 584 1.142748 CCTCTGGCGGTTCTGCTAG 59.857 63.158 10.10 10.10 44.04 3.42
521 585 3.019003 GCCTCTGGCGGTTCTGCTA 62.019 63.158 3.62 0.00 39.62 3.49
522 586 4.400961 GCCTCTGGCGGTTCTGCT 62.401 66.667 3.62 0.00 39.62 4.24
531 595 1.440145 GCCTCAATTACGCCTCTGGC 61.440 60.000 0.00 0.00 46.75 4.85
532 596 0.107703 TGCCTCAATTACGCCTCTGG 60.108 55.000 0.00 0.00 0.00 3.86
533 597 1.959042 ATGCCTCAATTACGCCTCTG 58.041 50.000 0.00 0.00 0.00 3.35
534 598 2.548920 GCTATGCCTCAATTACGCCTCT 60.549 50.000 0.00 0.00 0.00 3.69
535 599 1.801178 GCTATGCCTCAATTACGCCTC 59.199 52.381 0.00 0.00 0.00 4.70
536 600 1.417890 AGCTATGCCTCAATTACGCCT 59.582 47.619 0.00 0.00 0.00 5.52
537 601 1.884235 AGCTATGCCTCAATTACGCC 58.116 50.000 0.00 0.00 0.00 5.68
538 602 3.604772 CGAAAGCTATGCCTCAATTACGC 60.605 47.826 0.00 0.00 0.00 4.42
539 603 4.120646 CGAAAGCTATGCCTCAATTACG 57.879 45.455 0.00 0.00 0.00 3.18
612 676 2.770164 AACGGGATCAAAGAGGACTG 57.230 50.000 0.00 0.00 0.00 3.51
633 711 0.457681 GAAGAGACAGCCGAGCAGAC 60.458 60.000 0.00 0.00 0.00 3.51
662 740 0.317479 AGTACTCGCACAGTGGAACC 59.683 55.000 1.84 0.00 37.80 3.62
682 771 3.673323 CGTCTATGCAAGCACAGTACAGA 60.673 47.826 0.00 0.00 0.00 3.41
686 775 1.640428 GCGTCTATGCAAGCACAGTA 58.360 50.000 0.00 0.00 34.15 2.74
819 925 3.305131 CCGAGCGCAAATACTCTACCATA 60.305 47.826 11.47 0.00 0.00 2.74
855 961 2.312424 AGGAAGACGAGAGGAAAGGT 57.688 50.000 0.00 0.00 0.00 3.50
897 1003 1.786582 GCAGAGCAGAGCAGTTTCG 59.213 57.895 0.00 0.00 0.00 3.46
898 1004 0.948141 ACGCAGAGCAGAGCAGTTTC 60.948 55.000 0.00 0.00 0.00 2.78
899 1005 0.948141 GACGCAGAGCAGAGCAGTTT 60.948 55.000 0.00 0.00 0.00 2.66
900 1006 1.373999 GACGCAGAGCAGAGCAGTT 60.374 57.895 0.00 0.00 0.00 3.16
901 1007 2.261052 GACGCAGAGCAGAGCAGT 59.739 61.111 0.00 0.00 0.00 4.40
902 1008 2.809266 TTCGACGCAGAGCAGAGCAG 62.809 60.000 0.00 0.00 0.00 4.24
904 1010 0.248661 TATTCGACGCAGAGCAGAGC 60.249 55.000 0.00 0.00 0.00 4.09
905 1011 2.287248 TGATATTCGACGCAGAGCAGAG 60.287 50.000 0.00 0.00 0.00 3.35
906 1012 1.676006 TGATATTCGACGCAGAGCAGA 59.324 47.619 0.00 0.00 0.00 4.26
907 1013 2.125461 TGATATTCGACGCAGAGCAG 57.875 50.000 0.00 0.00 0.00 4.24
908 1014 2.800881 ATGATATTCGACGCAGAGCA 57.199 45.000 0.00 0.00 0.00 4.26
909 1015 3.827625 AGTATGATATTCGACGCAGAGC 58.172 45.455 0.00 0.00 0.00 4.09
910 1016 4.407818 GGAGTATGATATTCGACGCAGAG 58.592 47.826 0.00 0.00 0.00 3.35
911 1017 3.120304 CGGAGTATGATATTCGACGCAGA 60.120 47.826 0.00 0.00 0.00 4.26
912 1018 3.164358 CGGAGTATGATATTCGACGCAG 58.836 50.000 0.00 0.00 0.00 5.18
913 1019 2.551032 ACGGAGTATGATATTCGACGCA 59.449 45.455 0.00 0.00 41.94 5.24
914 1020 2.909244 CACGGAGTATGATATTCGACGC 59.091 50.000 0.00 0.00 41.61 5.19
915 1021 3.906601 CACACGGAGTATGATATTCGACG 59.093 47.826 0.00 0.00 36.85 5.12
916 1022 5.104562 TCACACGGAGTATGATATTCGAC 57.895 43.478 0.00 0.00 39.94 4.20
924 1030 1.005569 AGAGGGTCACACGGAGTATGA 59.994 52.381 0.00 0.00 44.02 2.15
925 1031 1.475403 AGAGGGTCACACGGAGTATG 58.525 55.000 0.00 0.00 41.61 2.39
926 1032 2.100989 GAAGAGGGTCACACGGAGTAT 58.899 52.381 0.00 0.00 41.61 2.12
927 1033 1.542492 GAAGAGGGTCACACGGAGTA 58.458 55.000 0.00 0.00 41.61 2.59
929 1035 0.900647 AGGAAGAGGGTCACACGGAG 60.901 60.000 0.00 0.00 0.00 4.63
930 1036 0.898789 GAGGAAGAGGGTCACACGGA 60.899 60.000 0.00 0.00 0.00 4.69
950 1056 0.034960 GAAAGAGGAACAGGGGAGCC 60.035 60.000 0.00 0.00 0.00 4.70
967 1073 1.683629 GGAGCTTCGGGAGAGAGAGAA 60.684 57.143 0.00 0.00 41.75 2.87
996 1104 3.945434 GCCCAGTCATGCATCGCG 61.945 66.667 0.00 0.00 0.00 5.87
997 1105 3.945434 CGCCCAGTCATGCATCGC 61.945 66.667 0.00 0.00 0.00 4.58
998 1106 3.945434 GCGCCCAGTCATGCATCG 61.945 66.667 0.00 0.00 0.00 3.84
999 1107 3.589881 GGCGCCCAGTCATGCATC 61.590 66.667 18.11 0.00 0.00 3.91
1155 1263 1.017701 CGAAGAGCATGAGCAGCACA 61.018 55.000 0.00 0.00 45.49 4.57
1222 1330 1.831389 AAGCGCGCACACACAGTAAG 61.831 55.000 35.10 0.00 0.00 2.34
1228 1336 2.500369 CATGAAGCGCGCACACAC 60.500 61.111 35.10 18.51 0.00 3.82
1234 1342 3.615536 AAAGCACCATGAAGCGCGC 62.616 57.895 26.66 26.66 35.48 6.86
1235 1343 1.081242 AAAAGCACCATGAAGCGCG 60.081 52.632 0.00 0.00 35.48 6.86
1236 1344 0.318955 ACAAAAGCACCATGAAGCGC 60.319 50.000 0.00 0.00 35.48 5.92
1237 1345 2.053627 GAACAAAAGCACCATGAAGCG 58.946 47.619 0.00 0.00 35.48 4.68
1303 1415 2.838202 TCCTCCGAGCATCCTAGTTTTT 59.162 45.455 0.00 0.00 0.00 1.94
1375 1487 9.309516 CACCGTTTCATAGCTCTTTTATTACTA 57.690 33.333 0.00 0.00 0.00 1.82
1385 1497 7.865706 AAAATAATCACCGTTTCATAGCTCT 57.134 32.000 0.00 0.00 0.00 4.09
1412 1524 2.678336 GCCGAAAGAAAATCATCCGTCT 59.322 45.455 0.00 0.00 0.00 4.18
1421 1533 5.710099 TCATCTTAACAGGCCGAAAGAAAAT 59.290 36.000 13.61 0.00 32.13 1.82
1435 1547 4.478317 ACTCCATGGGGATTCATCTTAACA 59.522 41.667 21.59 0.00 43.91 2.41
1448 1560 1.224592 GCAGTGGTACTCCATGGGG 59.775 63.158 11.11 11.11 46.20 4.96
1450 1562 2.435805 ACTATGCAGTGGTACTCCATGG 59.564 50.000 4.97 4.97 46.20 3.66
1466 1578 7.321772 CGTAATGGACGTCTGAATTACTATG 57.678 40.000 27.24 17.74 46.86 2.23
1484 1596 6.740905 CACAAACCTACTGTAAATGCGTAATG 59.259 38.462 0.00 0.00 0.00 1.90
1522 1634 5.215239 ACGTTCGGTCGAAAAGTTAAAAA 57.785 34.783 7.40 0.00 35.75 1.94
1541 1653 3.181483 GGTTCCCTCGAATACACATACGT 60.181 47.826 0.00 0.00 0.00 3.57
1545 1657 2.838202 ACAGGTTCCCTCGAATACACAT 59.162 45.455 0.00 0.00 0.00 3.21
1562 1674 1.079127 GTGATCGGACACCCACAGG 60.079 63.158 0.00 0.00 40.04 4.00
1574 1686 3.578688 TGACACAGTGAATCAGTGATCG 58.421 45.455 23.40 13.42 38.11 3.69
1583 1695 3.386078 ACTGACACTCTGACACAGTGAAT 59.614 43.478 16.66 0.00 43.54 2.57
1584 1696 2.760650 ACTGACACTCTGACACAGTGAA 59.239 45.455 16.66 4.77 43.54 3.18
1585 1697 2.379005 ACTGACACTCTGACACAGTGA 58.621 47.619 16.66 0.00 43.54 3.41
1586 1698 2.879002 ACTGACACTCTGACACAGTG 57.121 50.000 9.10 9.10 45.86 3.66
1587 1699 4.830046 AGATAACTGACACTCTGACACAGT 59.170 41.667 0.00 0.00 42.40 3.55
1588 1700 5.159925 CAGATAACTGACACTCTGACACAG 58.840 45.833 0.00 0.00 46.03 3.66
1589 1701 4.559502 GCAGATAACTGACACTCTGACACA 60.560 45.833 3.85 0.00 46.03 3.72
1590 1702 3.923461 GCAGATAACTGACACTCTGACAC 59.077 47.826 3.85 0.00 46.03 3.67
1598 1710 3.777465 TCGGTAGCAGATAACTGACAC 57.223 47.619 3.85 0.46 46.03 3.67
1606 1718 7.754851 TGATAACTGTATTCGGTAGCAGATA 57.245 36.000 0.00 0.00 33.57 1.98
1631 1743 1.995376 ATTTGCCCGGTTTCTGAACT 58.005 45.000 0.00 0.00 36.03 3.01
1643 1755 3.130516 GCCAAGTTACCTCTAATTTGCCC 59.869 47.826 0.00 0.00 31.36 5.36
1751 1892 3.797256 GCCACTTAAGTATCGCACTGTAG 59.203 47.826 8.04 0.00 37.63 2.74
1835 1981 1.468565 CGAATGCATCTTGCCCTGTTG 60.469 52.381 0.00 0.00 44.23 3.33
1836 1982 0.813184 CGAATGCATCTTGCCCTGTT 59.187 50.000 0.00 0.00 44.23 3.16
1863 2011 2.353803 GCTGGGAAGTGTGACGAACTAT 60.354 50.000 0.00 0.00 0.00 2.12
1924 2072 5.178797 CCCCATTATACTTTCCGCTATCTG 58.821 45.833 0.00 0.00 0.00 2.90
2059 2209 2.557924 CACCAGAAAACTATGCCTTGCA 59.442 45.455 0.00 0.00 44.86 4.08
2069 2219 4.881850 AGAAACGACATTCACCAGAAAACT 59.118 37.500 0.00 0.00 37.29 2.66
2074 2224 3.744238 TCAGAAACGACATTCACCAGA 57.256 42.857 0.00 0.00 0.00 3.86
2120 2270 5.265290 TCTTATACTATGGGACGGATGGA 57.735 43.478 0.00 0.00 0.00 3.41
2121 2271 5.480772 ACTTCTTATACTATGGGACGGATGG 59.519 44.000 0.00 0.00 0.00 3.51
2122 2272 6.591750 ACTTCTTATACTATGGGACGGATG 57.408 41.667 0.00 0.00 0.00 3.51
2123 2273 7.613551 AAACTTCTTATACTATGGGACGGAT 57.386 36.000 0.00 0.00 0.00 4.18
2124 2274 7.427989 AAAACTTCTTATACTATGGGACGGA 57.572 36.000 0.00 0.00 0.00 4.69
2125 2275 7.767198 TCAAAAACTTCTTATACTATGGGACGG 59.233 37.037 0.00 0.00 0.00 4.79
2126 2276 8.601476 GTCAAAAACTTCTTATACTATGGGACG 58.399 37.037 0.00 0.00 0.00 4.79
2127 2277 9.444600 TGTCAAAAACTTCTTATACTATGGGAC 57.555 33.333 0.00 0.00 0.00 4.46
2161 2311 9.712305 CTCTCCGTTCCATAATATAAGAATGTT 57.288 33.333 0.00 0.00 0.00 2.71
2162 2312 9.090103 TCTCTCCGTTCCATAATATAAGAATGT 57.910 33.333 0.00 0.00 0.00 2.71
2163 2313 9.579768 CTCTCTCCGTTCCATAATATAAGAATG 57.420 37.037 0.00 0.00 0.00 2.67
2164 2314 9.315363 ACTCTCTCCGTTCCATAATATAAGAAT 57.685 33.333 0.00 0.00 0.00 2.40
2165 2315 8.707796 ACTCTCTCCGTTCCATAATATAAGAA 57.292 34.615 0.00 0.00 0.00 2.52
2166 2316 9.228949 GTACTCTCTCCGTTCCATAATATAAGA 57.771 37.037 0.00 0.00 0.00 2.10
2167 2317 8.460428 GGTACTCTCTCCGTTCCATAATATAAG 58.540 40.741 0.00 0.00 0.00 1.73
2168 2318 7.946219 TGGTACTCTCTCCGTTCCATAATATAA 59.054 37.037 0.00 0.00 28.53 0.98
2169 2319 7.464273 TGGTACTCTCTCCGTTCCATAATATA 58.536 38.462 0.00 0.00 28.53 0.86
2170 2320 6.312529 TGGTACTCTCTCCGTTCCATAATAT 58.687 40.000 0.00 0.00 28.53 1.28
2171 2321 5.698104 TGGTACTCTCTCCGTTCCATAATA 58.302 41.667 0.00 0.00 28.53 0.98
2172 2322 4.543689 TGGTACTCTCTCCGTTCCATAAT 58.456 43.478 0.00 0.00 28.53 1.28
2173 2323 3.972133 TGGTACTCTCTCCGTTCCATAA 58.028 45.455 0.00 0.00 28.53 1.90
2174 2324 3.657398 TGGTACTCTCTCCGTTCCATA 57.343 47.619 0.00 0.00 28.53 2.74
2175 2325 2.526888 TGGTACTCTCTCCGTTCCAT 57.473 50.000 0.00 0.00 28.53 3.41
2176 2326 2.297698 TTGGTACTCTCTCCGTTCCA 57.702 50.000 0.00 0.00 31.17 3.53
2177 2327 2.561858 AGTTTGGTACTCTCTCCGTTCC 59.438 50.000 0.00 0.00 28.23 3.62
2178 2328 3.255149 TCAGTTTGGTACTCTCTCCGTTC 59.745 47.826 0.00 0.00 33.85 3.95
2179 2329 3.228453 TCAGTTTGGTACTCTCTCCGTT 58.772 45.455 0.00 0.00 33.85 4.44
2180 2330 2.872732 TCAGTTTGGTACTCTCTCCGT 58.127 47.619 0.00 0.00 33.85 4.69
2181 2331 3.444034 TCATCAGTTTGGTACTCTCTCCG 59.556 47.826 0.00 0.00 33.85 4.63
2182 2332 5.407407 TTCATCAGTTTGGTACTCTCTCC 57.593 43.478 0.00 0.00 33.85 3.71
2183 2333 6.959671 CTTTCATCAGTTTGGTACTCTCTC 57.040 41.667 0.00 0.00 33.85 3.20


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

AutoCloner maintained by Alex Coulton.