Multiple sequence alignment - TraesCS6A01G150600

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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 TraesCS6A01G150600 chr6A 100.000 2297 0 0 1 2297 134553236 134550940 0.000000e+00 4242
1 TraesCS6A01G150600 chr6B 87.042 1173 94 34 648 1797 198921266 198920129 0.000000e+00 1271
2 TraesCS6A01G150600 chr6B 82.240 625 77 21 8 612 198935678 198935068 2.040000e-140 508
3 TraesCS6A01G150600 chr6D 91.823 905 56 7 1369 2272 110160312 110159425 0.000000e+00 1245
4 TraesCS6A01G150600 chr6D 92.563 632 23 9 705 1320 110161054 110160431 0.000000e+00 885
5 TraesCS6A01G150600 chr7D 83.333 336 31 18 968 1295 596674654 596674972 1.040000e-73 287
6 TraesCS6A01G150600 chr1A 82.840 338 32 16 968 1295 11025908 11025587 1.740000e-71 279
7 TraesCS6A01G150600 chr1A 80.952 336 42 13 968 1295 504202401 504202722 1.760000e-61 246
8 TraesCS6A01G150600 chr1A 80.896 335 43 15 968 1295 531839876 531839556 6.340000e-61 244
9 TraesCS6A01G150600 chr2A 82.687 335 37 14 968 1295 23796359 23796679 6.250000e-71 278
10 TraesCS6A01G150600 chr7A 81.765 340 37 18 968 1295 689905329 689905655 6.290000e-66 261
11 TraesCS6A01G150600 chr7A 81.194 335 42 14 968 1295 707844566 707844886 1.360000e-62 250
12 TraesCS6A01G150600 chr1B 81.791 335 40 14 968 1295 658503957 658503637 6.290000e-66 261
13 TraesCS6A01G150600 chr7B 81.493 335 41 15 968 1295 544973194 544973514 2.930000e-64 255
14 TraesCS6A01G150600 chr7B 81.366 322 34 18 987 1295 675148547 675148855 2.950000e-59 239
15 TraesCS6A01G150600 chrUn 80.597 335 44 13 968 1295 325844815 325844495 2.950000e-59 239
16 TraesCS6A01G150600 chr1D 85.859 99 13 1 1801 1899 447511155 447511252 1.120000e-18 104


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 TraesCS6A01G150600 chr6A 134550940 134553236 2296 True 4242 4242 100.000 1 2297 1 chr6A.!!$R1 2296
1 TraesCS6A01G150600 chr6B 198920129 198921266 1137 True 1271 1271 87.042 648 1797 1 chr6B.!!$R1 1149
2 TraesCS6A01G150600 chr6B 198935068 198935678 610 True 508 508 82.240 8 612 1 chr6B.!!$R2 604
3 TraesCS6A01G150600 chr6D 110159425 110161054 1629 True 1065 1245 92.193 705 2272 2 chr6D.!!$R1 1567

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
470 477 0.031721 GCGGACGACCCCTAGTAATG 59.968 60.0 0.0 0.0 0.0 1.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1303 1342 0.179134 CGAAGAAGTACCTGCGGAGG 60.179 60.0 22.94 22.94 46.21 4.3 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
108 109 3.978193 AAAGCATGGACCGGCCCA 61.978 61.111 13.59 13.59 41.05 5.36
111 112 3.792736 GCATGGACCGGCCCACTA 61.793 66.667 13.47 0.00 39.34 2.74
112 113 2.994699 CATGGACCGGCCCACTAA 59.005 61.111 13.47 0.00 39.34 2.24
120 121 2.124736 GGCCCACTAAGCGCATGA 60.125 61.111 11.47 0.00 0.00 3.07
127 128 2.159517 CCACTAAGCGCATGACCTTTTC 60.160 50.000 11.47 0.00 0.00 2.29
132 133 2.898705 AGCGCATGACCTTTTCTAGAG 58.101 47.619 11.47 0.00 0.00 2.43
133 134 1.328986 GCGCATGACCTTTTCTAGAGC 59.671 52.381 0.30 0.00 0.00 4.09
137 138 2.743636 TGACCTTTTCTAGAGCCACG 57.256 50.000 0.00 0.00 0.00 4.94
156 157 7.430441 AGCCACGTGTAATTTTATTCAAACTT 58.570 30.769 15.65 0.00 0.00 2.66
157 158 7.381139 AGCCACGTGTAATTTTATTCAAACTTG 59.619 33.333 15.65 0.00 0.00 3.16
161 162 9.228636 ACGTGTAATTTTATTCAAACTTGACAC 57.771 29.630 0.00 0.00 36.83 3.67
168 169 9.705290 ATTTTATTCAAACTTGACACCCATTAC 57.295 29.630 0.00 0.00 36.83 1.89
170 171 4.074627 TCAAACTTGACACCCATTACGA 57.925 40.909 0.00 0.00 31.01 3.43
173 174 4.877378 AACTTGACACCCATTACGAGTA 57.123 40.909 0.00 0.00 0.00 2.59
190 194 4.943705 ACGAGTACAAATGCTTTGGATCAT 59.056 37.500 11.59 0.00 44.81 2.45
192 196 6.597672 ACGAGTACAAATGCTTTGGATCATAA 59.402 34.615 11.59 0.00 44.81 1.90
193 197 7.283127 ACGAGTACAAATGCTTTGGATCATAAT 59.717 33.333 11.59 0.00 44.81 1.28
220 225 6.643770 CCAAGAAATTACATAATGGCTCATGC 59.356 38.462 0.00 0.00 38.76 4.06
224 229 8.480501 AGAAATTACATAATGGCTCATGCTTTT 58.519 29.630 0.00 0.00 39.59 2.27
270 277 5.129634 TGAAGCTTATTCTTTGTGGTGACA 58.870 37.500 0.00 0.00 38.70 3.58
271 278 5.239306 TGAAGCTTATTCTTTGTGGTGACAG 59.761 40.000 0.00 0.00 44.46 3.51
297 304 5.360714 CCTTGCAACATGAATTACTACCCAT 59.639 40.000 0.00 0.00 0.00 4.00
304 311 5.824624 ACATGAATTACTACCCATGCTTCAG 59.175 40.000 0.00 0.00 39.81 3.02
305 312 5.435686 TGAATTACTACCCATGCTTCAGT 57.564 39.130 0.00 0.00 0.00 3.41
314 321 7.048512 ACTACCCATGCTTCAGTAAAGATAAC 58.951 38.462 0.00 0.00 37.12 1.89
317 324 4.260784 CCATGCTTCAGTAAAGATAACGCC 60.261 45.833 0.00 0.00 37.12 5.68
330 337 1.812686 TAACGCCGCCAGTCTGAAGT 61.813 55.000 0.00 0.00 0.00 3.01
331 338 2.811317 CGCCGCCAGTCTGAAGTC 60.811 66.667 0.00 0.00 0.00 3.01
332 339 2.811317 GCCGCCAGTCTGAAGTCG 60.811 66.667 0.00 0.00 0.00 4.18
334 341 3.175240 CGCCAGTCTGAAGTCGCG 61.175 66.667 0.00 0.00 0.00 5.87
335 342 2.258591 GCCAGTCTGAAGTCGCGA 59.741 61.111 3.71 3.71 0.00 5.87
377 384 5.316167 TGCATGAACTTGACTACCTTGAAT 58.684 37.500 0.00 0.00 0.00 2.57
383 390 6.605594 TGAACTTGACTACCTTGAATGGTTTT 59.394 34.615 0.00 0.00 41.22 2.43
385 392 6.805713 ACTTGACTACCTTGAATGGTTTTTG 58.194 36.000 0.00 0.00 41.22 2.44
393 400 4.986659 CCTTGAATGGTTTTTGAAGCTCTG 59.013 41.667 0.00 0.00 0.00 3.35
447 454 0.107897 TGAGTGTGGAACGTGCTTGT 60.108 50.000 0.00 0.00 42.39 3.16
448 455 0.304705 GAGTGTGGAACGTGCTTGTG 59.695 55.000 0.00 0.00 42.39 3.33
452 459 4.683334 GGAACGTGCTTGTGCCGC 62.683 66.667 0.00 0.00 38.71 6.53
470 477 0.031721 GCGGACGACCCCTAGTAATG 59.968 60.000 0.00 0.00 0.00 1.90
473 480 2.951642 CGGACGACCCCTAGTAATGTAA 59.048 50.000 0.00 0.00 0.00 2.41
474 481 3.571401 CGGACGACCCCTAGTAATGTAAT 59.429 47.826 0.00 0.00 0.00 1.89
475 482 4.558095 CGGACGACCCCTAGTAATGTAATG 60.558 50.000 0.00 0.00 0.00 1.90
476 483 4.343239 GGACGACCCCTAGTAATGTAATGT 59.657 45.833 0.00 0.00 0.00 2.71
477 484 5.536161 GGACGACCCCTAGTAATGTAATGTA 59.464 44.000 0.00 0.00 0.00 2.29
478 485 6.294397 GGACGACCCCTAGTAATGTAATGTAG 60.294 46.154 0.00 0.00 0.00 2.74
479 486 5.537674 ACGACCCCTAGTAATGTAATGTAGG 59.462 44.000 0.00 0.00 0.00 3.18
480 487 5.537674 CGACCCCTAGTAATGTAATGTAGGT 59.462 44.000 0.00 0.00 0.00 3.08
481 488 6.294397 CGACCCCTAGTAATGTAATGTAGGTC 60.294 46.154 0.00 0.00 36.41 3.85
482 489 6.446451 ACCCCTAGTAATGTAATGTAGGTCA 58.554 40.000 0.00 0.00 0.00 4.02
483 490 7.080353 ACCCCTAGTAATGTAATGTAGGTCAT 58.920 38.462 0.00 0.00 38.57 3.06
484 491 7.234988 ACCCCTAGTAATGTAATGTAGGTCATC 59.765 40.741 0.00 0.00 35.48 2.92
485 492 7.234782 CCCCTAGTAATGTAATGTAGGTCATCA 59.765 40.741 0.00 0.00 35.48 3.07
500 507 6.089249 AGGTCATCAAACCACAAAATCTTC 57.911 37.500 0.00 0.00 42.12 2.87
511 518 5.363580 ACCACAAAATCTTCACCAAGATGTT 59.636 36.000 0.00 0.00 46.96 2.71
524 531 5.065218 CACCAAGATGTTAGATAAGCACACC 59.935 44.000 0.00 0.00 0.00 4.16
529 536 5.648092 AGATGTTAGATAAGCACACCAAACC 59.352 40.000 0.00 0.00 0.00 3.27
539 559 2.158645 GCACACCAAACCACAACAAAAC 59.841 45.455 0.00 0.00 0.00 2.43
540 560 3.658709 CACACCAAACCACAACAAAACT 58.341 40.909 0.00 0.00 0.00 2.66
544 564 3.833070 ACCAAACCACAACAAAACTACCA 59.167 39.130 0.00 0.00 0.00 3.25
552 572 3.881089 ACAACAAAACTACCAGGCACTAC 59.119 43.478 0.00 0.00 36.02 2.73
553 573 4.134563 CAACAAAACTACCAGGCACTACT 58.865 43.478 0.00 0.00 36.02 2.57
556 576 3.863142 AAACTACCAGGCACTACTACG 57.137 47.619 0.00 0.00 36.02 3.51
570 590 6.072397 GGCACTACTACGAACTCATCATATCT 60.072 42.308 0.00 0.00 0.00 1.98
571 591 6.799441 GCACTACTACGAACTCATCATATCTG 59.201 42.308 0.00 0.00 0.00 2.90
572 592 6.799441 CACTACTACGAACTCATCATATCTGC 59.201 42.308 0.00 0.00 0.00 4.26
573 593 5.774498 ACTACGAACTCATCATATCTGCA 57.226 39.130 0.00 0.00 0.00 4.41
577 597 5.604565 ACGAACTCATCATATCTGCATGAA 58.395 37.500 0.00 0.00 38.39 2.57
579 599 5.464389 CGAACTCATCATATCTGCATGAACA 59.536 40.000 0.00 0.00 38.39 3.18
584 604 5.704053 TCATCATATCTGCATGAACACATCC 59.296 40.000 0.00 0.00 38.39 3.51
594 614 1.144969 GAACACATCCGCGAAGACAA 58.855 50.000 8.23 0.00 0.00 3.18
609 629 4.261031 CGAAGACAAAAATCCAACTTCCGT 60.261 41.667 0.00 0.00 32.83 4.69
612 632 6.068473 AGACAAAAATCCAACTTCCGTAAC 57.932 37.500 0.00 0.00 0.00 2.50
613 633 5.009310 AGACAAAAATCCAACTTCCGTAACC 59.991 40.000 0.00 0.00 0.00 2.85
614 634 4.223659 CAAAAATCCAACTTCCGTAACCG 58.776 43.478 0.00 0.00 0.00 4.44
615 635 1.445871 AATCCAACTTCCGTAACCGC 58.554 50.000 0.00 0.00 0.00 5.68
616 636 0.611714 ATCCAACTTCCGTAACCGCT 59.388 50.000 0.00 0.00 0.00 5.52
617 637 1.255882 TCCAACTTCCGTAACCGCTA 58.744 50.000 0.00 0.00 0.00 4.26
618 638 1.067635 TCCAACTTCCGTAACCGCTAC 60.068 52.381 0.00 0.00 0.00 3.58
628 648 3.965379 CGTAACCGCTACGTTTGTTAAG 58.035 45.455 0.00 0.00 46.81 1.85
629 649 3.181541 CGTAACCGCTACGTTTGTTAAGG 60.182 47.826 0.00 0.00 46.81 2.69
630 650 2.531522 ACCGCTACGTTTGTTAAGGT 57.468 45.000 0.00 0.00 36.43 3.50
631 651 2.137523 ACCGCTACGTTTGTTAAGGTG 58.862 47.619 0.00 0.00 34.46 4.00
632 652 1.136169 CCGCTACGTTTGTTAAGGTGC 60.136 52.381 0.00 0.00 34.46 5.01
633 653 1.136169 CGCTACGTTTGTTAAGGTGCC 60.136 52.381 0.00 0.00 34.46 5.01
634 654 1.874872 GCTACGTTTGTTAAGGTGCCA 59.125 47.619 0.00 0.00 34.46 4.92
635 655 2.291190 GCTACGTTTGTTAAGGTGCCAA 59.709 45.455 0.00 0.00 34.46 4.52
636 656 3.057806 GCTACGTTTGTTAAGGTGCCAAT 60.058 43.478 0.00 0.00 34.46 3.16
637 657 4.154556 GCTACGTTTGTTAAGGTGCCAATA 59.845 41.667 0.00 0.00 34.46 1.90
638 658 4.492791 ACGTTTGTTAAGGTGCCAATAC 57.507 40.909 0.00 0.00 31.57 1.89
639 659 3.058777 ACGTTTGTTAAGGTGCCAATACG 60.059 43.478 0.00 0.00 31.57 3.06
640 660 3.058777 CGTTTGTTAAGGTGCCAATACGT 60.059 43.478 0.00 0.00 0.00 3.57
641 661 4.223659 GTTTGTTAAGGTGCCAATACGTG 58.776 43.478 0.00 0.00 0.00 4.49
642 662 3.404224 TGTTAAGGTGCCAATACGTGA 57.596 42.857 0.00 0.00 0.00 4.35
643 663 3.068560 TGTTAAGGTGCCAATACGTGAC 58.931 45.455 0.00 0.00 0.00 3.67
644 664 3.068560 GTTAAGGTGCCAATACGTGACA 58.931 45.455 0.00 0.00 0.00 3.58
645 665 2.264005 AAGGTGCCAATACGTGACAA 57.736 45.000 0.00 0.00 0.00 3.18
646 666 1.808411 AGGTGCCAATACGTGACAAG 58.192 50.000 0.00 0.00 0.00 3.16
672 692 1.469335 GGCTCCCCGGAATATCGTCA 61.469 60.000 0.73 0.00 0.00 4.35
744 764 7.100458 AGATACACAATAAAATTGGGCTCAC 57.900 36.000 1.83 0.00 0.00 3.51
759 779 2.716217 GCTCACTGAAGCCCAAATAGT 58.284 47.619 0.00 0.00 36.22 2.12
763 783 5.220931 GCTCACTGAAGCCCAAATAGTAATG 60.221 44.000 0.00 0.00 36.22 1.90
764 784 4.640201 TCACTGAAGCCCAAATAGTAATGC 59.360 41.667 0.00 0.00 0.00 3.56
765 785 3.627577 ACTGAAGCCCAAATAGTAATGCG 59.372 43.478 0.00 0.00 0.00 4.73
766 786 3.876914 CTGAAGCCCAAATAGTAATGCGA 59.123 43.478 0.00 0.00 0.00 5.10
767 787 4.460263 TGAAGCCCAAATAGTAATGCGAT 58.540 39.130 0.00 0.00 0.00 4.58
768 788 5.616270 TGAAGCCCAAATAGTAATGCGATA 58.384 37.500 0.00 0.00 0.00 2.92
769 789 5.700832 TGAAGCCCAAATAGTAATGCGATAG 59.299 40.000 0.00 0.00 0.00 2.08
770 790 5.228945 AGCCCAAATAGTAATGCGATAGT 57.771 39.130 0.00 0.00 39.35 2.12
812 832 1.079612 GTCTGCAAGCAATTGGGCC 60.080 57.895 7.72 0.00 0.00 5.80
834 854 0.527565 CTGAAGCCCAAATTGGTCCG 59.472 55.000 11.52 0.00 35.17 4.79
1140 1179 2.202756 CGCGGTGGTCTTAGCTCC 60.203 66.667 0.00 0.00 0.00 4.70
1178 1217 1.877443 GTATGGTTTTCTGGCGTGTGT 59.123 47.619 0.00 0.00 0.00 3.72
1298 1337 4.143333 CGTCGGGTCCGGCTGATT 62.143 66.667 12.30 0.00 42.44 2.57
1300 1339 2.106683 GTCGGGTCCGGCTGATTTG 61.107 63.158 6.77 0.00 41.28 2.32
1303 1342 1.749258 GGGTCCGGCTGATTTGGTC 60.749 63.158 0.00 0.00 0.00 4.02
1331 1370 1.980232 TACTTCTTCGCTCCCCGCA 60.980 57.895 0.00 0.00 39.08 5.69
1353 1392 1.456919 TCCCTCCGATCTGGGATCTA 58.543 55.000 12.23 0.00 46.69 1.98
1365 1404 4.601084 TCTGGGATCTAGTTTCTTCGTCT 58.399 43.478 0.00 0.00 0.00 4.18
1367 1406 3.119101 TGGGATCTAGTTTCTTCGTCTGC 60.119 47.826 0.00 0.00 0.00 4.26
1408 1517 0.660488 TGATGCGTGTGTTTGTGGAC 59.340 50.000 0.00 0.00 0.00 4.02
1437 1546 1.338674 TGGGATTCGCTGTCGTGAAAT 60.339 47.619 2.19 0.00 42.38 2.17
1442 1551 2.724977 TCGCTGTCGTGAAATTCTCT 57.275 45.000 0.00 0.00 36.96 3.10
1462 1571 3.123804 CTCTTGTGGTATGGCATCGTAC 58.876 50.000 1.65 1.99 35.25 3.67
1474 1583 3.243535 TGGCATCGTACATCTGTGAGATC 60.244 47.826 0.00 0.00 31.32 2.75
1475 1584 2.976509 GCATCGTACATCTGTGAGATCG 59.023 50.000 0.00 0.00 31.32 3.69
1476 1585 3.304057 GCATCGTACATCTGTGAGATCGA 60.304 47.826 0.00 0.00 31.32 3.59
1477 1586 4.789802 GCATCGTACATCTGTGAGATCGAA 60.790 45.833 0.00 0.00 31.32 3.71
1478 1587 5.456265 CATCGTACATCTGTGAGATCGAAT 58.544 41.667 0.00 0.00 31.32 3.34
1479 1588 5.096954 TCGTACATCTGTGAGATCGAATC 57.903 43.478 0.00 0.00 31.32 2.52
1480 1589 3.903054 CGTACATCTGTGAGATCGAATCG 59.097 47.826 0.00 0.00 31.32 3.34
1481 1590 3.361794 ACATCTGTGAGATCGAATCGG 57.638 47.619 1.76 0.00 31.32 4.18
1482 1591 2.690497 ACATCTGTGAGATCGAATCGGT 59.310 45.455 1.76 0.00 31.32 4.69
1483 1592 3.131223 ACATCTGTGAGATCGAATCGGTT 59.869 43.478 1.76 0.00 31.32 4.44
1484 1593 4.338400 ACATCTGTGAGATCGAATCGGTTA 59.662 41.667 1.76 0.00 31.32 2.85
1516 1636 7.875971 AGAACTGACTCCAATTATGTTTGTTC 58.124 34.615 0.00 0.00 32.28 3.18
1524 1644 6.664515 TCCAATTATGTTTGTTCTGTTCGTC 58.335 36.000 0.00 0.00 0.00 4.20
1531 1651 9.917129 TTATGTTTGTTCTGTTCGTCTCTATTA 57.083 29.630 0.00 0.00 0.00 0.98
1534 1654 4.995124 TGTTCTGTTCGTCTCTATTAGGC 58.005 43.478 0.00 0.00 0.00 3.93
1547 1667 6.644592 GTCTCTATTAGGCAGTGTGATTGATC 59.355 42.308 0.00 0.00 0.00 2.92
1549 1669 4.785346 ATTAGGCAGTGTGATTGATCCT 57.215 40.909 0.00 0.00 0.00 3.24
1565 1692 2.949177 TCCTGTGGTGCTATGTTTGT 57.051 45.000 0.00 0.00 0.00 2.83
1568 1695 4.260985 TCCTGTGGTGCTATGTTTGTATG 58.739 43.478 0.00 0.00 0.00 2.39
1618 1745 4.385199 CCAGGGTGCCATAGTTTTGAGATA 60.385 45.833 0.00 0.00 0.00 1.98
1620 1747 5.829924 CAGGGTGCCATAGTTTTGAGATAAT 59.170 40.000 0.00 0.00 0.00 1.28
1622 1754 7.502226 CAGGGTGCCATAGTTTTGAGATAATTA 59.498 37.037 0.00 0.00 0.00 1.40
1702 1839 2.035832 ACTTGGTTTGGAGCCGATTTTG 59.964 45.455 0.00 0.00 0.00 2.44
1722 1859 2.908015 GCTCTGGCCGGGTATTCA 59.092 61.111 12.87 0.00 0.00 2.57
1750 1887 5.784177 CTCTTAGCCTCTCACAAGTTACAA 58.216 41.667 0.00 0.00 0.00 2.41
1763 1901 6.257630 TCACAAGTTACAACGTTTACCTTACC 59.742 38.462 0.00 0.00 0.00 2.85
1764 1902 6.036953 CACAAGTTACAACGTTTACCTTACCA 59.963 38.462 0.00 0.00 0.00 3.25
1765 1903 6.597280 ACAAGTTACAACGTTTACCTTACCAA 59.403 34.615 0.00 0.00 0.00 3.67
1801 1939 2.104281 AGAGGTGCGAGTTACTTGGTTT 59.896 45.455 1.40 0.00 0.00 3.27
1810 1948 2.711547 AGTTACTTGGTTTGAGGAGCCT 59.288 45.455 0.00 0.00 0.00 4.58
1813 1951 1.228552 TTGGTTTGAGGAGCCTGGC 60.229 57.895 11.65 11.65 0.00 4.85
1815 1953 1.676967 GGTTTGAGGAGCCTGGCTG 60.677 63.158 28.82 0.00 39.88 4.85
1869 2007 1.273606 CATCTGCCTGGACGTATAGGG 59.726 57.143 16.72 5.97 34.58 3.53
1898 2036 2.280457 GAGCCCGGCTGTAGATGC 60.280 66.667 19.21 0.00 39.88 3.91
1899 2037 3.816367 GAGCCCGGCTGTAGATGCC 62.816 68.421 19.21 0.00 46.42 4.40
1940 2078 7.821359 AGCCACTATAAGTTGTATATGCATCAG 59.179 37.037 0.19 0.00 0.00 2.90
1947 2085 5.688807 AGTTGTATATGCATCAGCTCCTTT 58.311 37.500 0.19 0.00 42.74 3.11
2138 2276 5.951747 TGCAAACTTCCAAGCTAATATCCTT 59.048 36.000 0.00 0.00 0.00 3.36
2176 2314 5.656859 TGATCTGCTTTAGAGGCTTACTGTA 59.343 40.000 0.00 0.00 39.20 2.74
2185 2323 9.871238 CTTTAGAGGCTTACTGTAGTTTTCATA 57.129 33.333 0.00 0.00 0.00 2.15
2189 2327 9.740710 AGAGGCTTACTGTAGTTTTCATAATTT 57.259 29.630 0.00 0.00 0.00 1.82
2226 2364 9.512435 GATTATCTTGACAATGTTTCATTCAGG 57.488 33.333 0.00 0.00 0.00 3.86
2254 2392 6.313905 CCTGCTCTACCCTATATAAAATTGCG 59.686 42.308 0.00 0.00 0.00 4.85
2272 2410 1.066430 GCGAGGTAGAACCATGGTGAA 60.066 52.381 20.60 3.82 41.95 3.18
2273 2411 2.614481 GCGAGGTAGAACCATGGTGAAA 60.614 50.000 20.60 3.41 41.95 2.69
2274 2412 3.000727 CGAGGTAGAACCATGGTGAAAC 58.999 50.000 20.60 15.87 41.95 2.78
2291 2429 6.515272 GTGAAACCATGGTGATGATAAGTT 57.485 37.500 20.60 5.12 0.00 2.66
2292 2430 7.624360 GTGAAACCATGGTGATGATAAGTTA 57.376 36.000 20.60 0.00 0.00 2.24
2293 2431 7.697691 GTGAAACCATGGTGATGATAAGTTAG 58.302 38.462 20.60 0.00 0.00 2.34
2294 2432 6.828273 TGAAACCATGGTGATGATAAGTTAGG 59.172 38.462 20.60 0.00 0.00 2.69
2295 2433 4.718961 ACCATGGTGATGATAAGTTAGGC 58.281 43.478 18.99 0.00 0.00 3.93
2296 2434 4.413520 ACCATGGTGATGATAAGTTAGGCT 59.586 41.667 18.99 0.00 0.00 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 86 1.540146 GCCGGTCCATGCTTTGTTTTT 60.540 47.619 1.90 0.00 0.00 1.94
90 91 3.451894 GGGCCGGTCCATGCTTTG 61.452 66.667 23.50 0.00 36.21 2.77
94 95 3.338275 TTAGTGGGCCGGTCCATGC 62.338 63.158 34.24 20.29 39.26 4.06
108 109 3.059352 AGAAAAGGTCATGCGCTTAGT 57.941 42.857 9.73 0.00 0.00 2.24
111 112 3.265791 CTCTAGAAAAGGTCATGCGCTT 58.734 45.455 9.73 0.00 0.00 4.68
112 113 2.898705 CTCTAGAAAAGGTCATGCGCT 58.101 47.619 9.73 0.00 0.00 5.92
120 121 1.692519 ACACGTGGCTCTAGAAAAGGT 59.307 47.619 21.57 0.00 0.00 3.50
127 128 7.534085 TGAATAAAATTACACGTGGCTCTAG 57.466 36.000 21.57 0.00 0.00 2.43
132 133 7.380065 TCAAGTTTGAATAAAATTACACGTGGC 59.620 33.333 21.57 0.00 32.85 5.01
133 134 8.687301 GTCAAGTTTGAATAAAATTACACGTGG 58.313 33.333 21.57 1.66 39.21 4.94
137 138 8.974408 GGGTGTCAAGTTTGAATAAAATTACAC 58.026 33.333 0.00 0.00 39.21 2.90
156 157 4.603989 TTTGTACTCGTAATGGGTGTCA 57.396 40.909 0.00 0.00 0.00 3.58
157 158 4.201783 GCATTTGTACTCGTAATGGGTGTC 60.202 45.833 0.00 0.00 31.54 3.67
161 162 5.560966 AAAGCATTTGTACTCGTAATGGG 57.439 39.130 0.00 0.00 36.60 4.00
190 194 9.077885 GAGCCATTATGTAATTTCTTGGGATTA 57.922 33.333 0.00 0.00 0.00 1.75
192 196 7.068702 TGAGCCATTATGTAATTTCTTGGGAT 58.931 34.615 0.00 0.00 0.00 3.85
193 197 6.430864 TGAGCCATTATGTAATTTCTTGGGA 58.569 36.000 0.00 0.00 0.00 4.37
199 203 8.652810 AAAAGCATGAGCCATTATGTAATTTC 57.347 30.769 0.00 0.00 43.56 2.17
202 206 9.754382 CTTAAAAAGCATGAGCCATTATGTAAT 57.246 29.630 0.00 0.00 43.56 1.89
208 213 9.801873 GTAATTCTTAAAAAGCATGAGCCATTA 57.198 29.630 0.00 0.00 43.56 1.90
245 250 6.096141 TGTCACCACAAAGAATAAGCTTCAAA 59.904 34.615 0.00 0.00 0.00 2.69
250 255 4.718961 ACTGTCACCACAAAGAATAAGCT 58.281 39.130 0.00 0.00 29.82 3.74
252 257 5.308825 AGGACTGTCACCACAAAGAATAAG 58.691 41.667 10.38 0.00 29.82 1.73
270 277 5.648092 GGTAGTAATTCATGTTGCAAGGACT 59.352 40.000 0.00 0.00 0.00 3.85
271 278 5.163652 GGGTAGTAATTCATGTTGCAAGGAC 60.164 44.000 0.00 0.00 0.00 3.85
297 304 2.927477 CGGCGTTATCTTTACTGAAGCA 59.073 45.455 0.00 0.00 35.24 3.91
304 311 1.591619 GACTGGCGGCGTTATCTTTAC 59.408 52.381 9.37 0.00 0.00 2.01
305 312 1.479323 AGACTGGCGGCGTTATCTTTA 59.521 47.619 9.37 0.00 0.00 1.85
314 321 2.811317 GACTTCAGACTGGCGGCG 60.811 66.667 0.51 0.51 0.00 6.46
317 324 3.175240 CGCGACTTCAGACTGGCG 61.175 66.667 0.00 8.32 37.56 5.69
334 341 3.982058 GCAAGTATACAGATAGCGGTGTC 59.018 47.826 5.50 2.82 0.00 3.67
335 342 3.383505 TGCAAGTATACAGATAGCGGTGT 59.616 43.478 5.50 0.00 0.00 4.16
342 349 8.478066 AGTCAAGTTCATGCAAGTATACAGATA 58.522 33.333 5.50 0.00 0.00 1.98
344 351 6.701340 AGTCAAGTTCATGCAAGTATACAGA 58.299 36.000 5.50 0.00 0.00 3.41
346 353 6.816640 GGTAGTCAAGTTCATGCAAGTATACA 59.183 38.462 5.50 0.00 0.00 2.29
353 360 4.713553 TCAAGGTAGTCAAGTTCATGCAA 58.286 39.130 0.00 0.00 0.00 4.08
393 400 2.252072 TTAGATGGTGGGCGGCTCAC 62.252 60.000 24.56 24.56 34.61 3.51
404 411 5.838521 ACAACTTCCCATGTTTTTAGATGGT 59.161 36.000 0.00 0.00 37.96 3.55
405 412 6.015519 TCACAACTTCCCATGTTTTTAGATGG 60.016 38.462 0.00 0.00 39.18 3.51
452 459 1.396653 ACATTACTAGGGGTCGTCCG 58.603 55.000 0.00 0.00 36.01 4.79
459 466 6.989155 TGACCTACATTACATTACTAGGGG 57.011 41.667 0.00 0.00 0.00 4.79
470 477 6.811253 TTGTGGTTTGATGACCTACATTAC 57.189 37.500 0.00 0.00 40.47 1.89
473 480 6.721208 AGATTTTGTGGTTTGATGACCTACAT 59.279 34.615 0.00 0.00 40.47 2.29
474 481 6.068010 AGATTTTGTGGTTTGATGACCTACA 58.932 36.000 0.00 0.00 40.47 2.74
475 482 6.575162 AGATTTTGTGGTTTGATGACCTAC 57.425 37.500 0.00 0.00 40.47 3.18
476 483 6.775142 TGAAGATTTTGTGGTTTGATGACCTA 59.225 34.615 0.00 0.00 40.47 3.08
477 484 5.598005 TGAAGATTTTGTGGTTTGATGACCT 59.402 36.000 0.00 0.00 40.47 3.85
478 485 5.691754 GTGAAGATTTTGTGGTTTGATGACC 59.308 40.000 0.00 0.00 40.23 4.02
479 486 5.691754 GGTGAAGATTTTGTGGTTTGATGAC 59.308 40.000 0.00 0.00 0.00 3.06
480 487 5.362143 TGGTGAAGATTTTGTGGTTTGATGA 59.638 36.000 0.00 0.00 0.00 2.92
481 488 5.599732 TGGTGAAGATTTTGTGGTTTGATG 58.400 37.500 0.00 0.00 0.00 3.07
482 489 5.867903 TGGTGAAGATTTTGTGGTTTGAT 57.132 34.783 0.00 0.00 0.00 2.57
483 490 5.420421 TCTTGGTGAAGATTTTGTGGTTTGA 59.580 36.000 0.00 0.00 32.98 2.69
484 491 5.659463 TCTTGGTGAAGATTTTGTGGTTTG 58.341 37.500 0.00 0.00 32.98 2.93
485 492 5.930837 TCTTGGTGAAGATTTTGTGGTTT 57.069 34.783 0.00 0.00 32.98 3.27
500 507 5.065218 GGTGTGCTTATCTAACATCTTGGTG 59.935 44.000 0.00 0.00 0.00 4.17
511 518 4.359434 TGTGGTTTGGTGTGCTTATCTA 57.641 40.909 0.00 0.00 0.00 1.98
524 531 4.429108 CCTGGTAGTTTTGTTGTGGTTTG 58.571 43.478 0.00 0.00 0.00 2.93
529 536 2.687935 AGTGCCTGGTAGTTTTGTTGTG 59.312 45.455 0.00 0.00 0.00 3.33
539 559 3.015327 AGTTCGTAGTAGTGCCTGGTAG 58.985 50.000 0.00 0.00 0.00 3.18
540 560 3.012518 GAGTTCGTAGTAGTGCCTGGTA 58.987 50.000 0.00 0.00 0.00 3.25
544 564 3.353557 TGATGAGTTCGTAGTAGTGCCT 58.646 45.455 0.00 0.00 0.00 4.75
552 572 6.385033 TCATGCAGATATGATGAGTTCGTAG 58.615 40.000 0.00 0.00 32.39 3.51
553 573 6.331369 TCATGCAGATATGATGAGTTCGTA 57.669 37.500 0.00 0.00 32.39 3.43
556 576 6.259387 TGTGTTCATGCAGATATGATGAGTTC 59.741 38.462 0.00 0.00 36.97 3.01
570 590 0.952984 TTCGCGGATGTGTTCATGCA 60.953 50.000 6.13 0.00 41.45 3.96
571 591 0.247814 CTTCGCGGATGTGTTCATGC 60.248 55.000 6.13 0.00 38.70 4.06
572 592 1.061131 GTCTTCGCGGATGTGTTCATG 59.939 52.381 6.13 0.00 34.06 3.07
573 593 1.337728 TGTCTTCGCGGATGTGTTCAT 60.338 47.619 6.13 0.00 36.95 2.57
577 597 1.588674 TTTTGTCTTCGCGGATGTGT 58.411 45.000 6.13 0.00 0.00 3.72
579 599 2.161609 GGATTTTTGTCTTCGCGGATGT 59.838 45.455 6.13 0.00 0.00 3.06
584 604 3.268013 AGTTGGATTTTTGTCTTCGCG 57.732 42.857 0.00 0.00 0.00 5.87
594 614 2.227149 GCGGTTACGGAAGTTGGATTTT 59.773 45.455 0.00 0.00 46.40 1.82
609 629 3.740321 CACCTTAACAAACGTAGCGGTTA 59.260 43.478 0.00 0.00 33.19 2.85
612 632 1.136169 GCACCTTAACAAACGTAGCGG 60.136 52.381 0.00 0.00 0.00 5.52
613 633 1.136169 GGCACCTTAACAAACGTAGCG 60.136 52.381 0.00 0.00 0.00 4.26
614 634 1.874872 TGGCACCTTAACAAACGTAGC 59.125 47.619 0.00 0.00 0.00 3.58
615 635 4.759516 ATTGGCACCTTAACAAACGTAG 57.240 40.909 0.00 0.00 0.00 3.51
616 636 4.152045 CGTATTGGCACCTTAACAAACGTA 59.848 41.667 0.00 0.00 31.06 3.57
617 637 3.058777 CGTATTGGCACCTTAACAAACGT 60.059 43.478 0.00 0.00 31.06 3.99
618 638 3.058777 ACGTATTGGCACCTTAACAAACG 60.059 43.478 0.00 0.00 36.12 3.60
619 639 4.023878 TCACGTATTGGCACCTTAACAAAC 60.024 41.667 0.00 0.00 0.00 2.93
620 640 4.023878 GTCACGTATTGGCACCTTAACAAA 60.024 41.667 0.00 0.00 0.00 2.83
621 641 3.499157 GTCACGTATTGGCACCTTAACAA 59.501 43.478 0.00 0.00 0.00 2.83
622 642 3.068560 GTCACGTATTGGCACCTTAACA 58.931 45.455 0.00 0.00 0.00 2.41
623 643 3.068560 TGTCACGTATTGGCACCTTAAC 58.931 45.455 0.00 0.00 33.77 2.01
624 644 3.404224 TGTCACGTATTGGCACCTTAA 57.596 42.857 0.00 0.00 33.77 1.85
625 645 3.244284 ACTTGTCACGTATTGGCACCTTA 60.244 43.478 0.00 0.00 40.47 2.69
626 646 2.151202 CTTGTCACGTATTGGCACCTT 58.849 47.619 0.00 0.00 40.47 3.50
627 647 1.071699 ACTTGTCACGTATTGGCACCT 59.928 47.619 0.00 0.00 40.47 4.00
628 648 1.196808 CACTTGTCACGTATTGGCACC 59.803 52.381 0.00 0.00 40.47 5.01
629 649 1.399727 GCACTTGTCACGTATTGGCAC 60.400 52.381 0.00 0.00 40.47 5.01
630 650 0.871722 GCACTTGTCACGTATTGGCA 59.128 50.000 0.00 0.00 38.37 4.92
631 651 1.156736 AGCACTTGTCACGTATTGGC 58.843 50.000 0.00 0.00 0.00 4.52
632 652 2.095768 CCAAGCACTTGTCACGTATTGG 60.096 50.000 9.41 9.76 38.85 3.16
633 653 2.095768 CCCAAGCACTTGTCACGTATTG 60.096 50.000 9.41 1.61 38.85 1.90
634 654 2.151202 CCCAAGCACTTGTCACGTATT 58.849 47.619 9.41 0.00 38.85 1.89
635 655 1.808411 CCCAAGCACTTGTCACGTAT 58.192 50.000 9.41 0.00 38.85 3.06
636 656 0.882927 GCCCAAGCACTTGTCACGTA 60.883 55.000 9.41 0.00 38.85 3.57
637 657 2.186826 GCCCAAGCACTTGTCACGT 61.187 57.895 9.41 0.00 38.85 4.49
638 658 1.845809 GAGCCCAAGCACTTGTCACG 61.846 60.000 9.41 0.00 43.56 4.35
639 659 1.518903 GGAGCCCAAGCACTTGTCAC 61.519 60.000 9.41 0.00 43.56 3.67
640 660 1.228245 GGAGCCCAAGCACTTGTCA 60.228 57.895 9.41 0.00 43.56 3.58
641 661 1.973812 GGGAGCCCAAGCACTTGTC 60.974 63.158 9.41 1.03 43.56 3.18
642 662 2.116125 GGGAGCCCAAGCACTTGT 59.884 61.111 9.41 0.00 43.56 3.16
643 663 2.677875 GGGGAGCCCAAGCACTTG 60.678 66.667 8.02 3.32 44.65 3.16
644 664 4.351054 CGGGGAGCCCAAGCACTT 62.351 66.667 8.02 0.00 45.83 3.16
668 688 1.173913 GGGTTCCCTTGGAAATGACG 58.826 55.000 0.00 0.00 43.86 4.35
672 692 2.073776 AGACTGGGTTCCCTTGGAAAT 58.926 47.619 9.43 0.00 43.86 2.17
721 741 6.974622 CAGTGAGCCCAATTTTATTGTGTATC 59.025 38.462 0.00 0.00 0.00 2.24
741 761 4.640201 GCATTACTATTTGGGCTTCAGTGA 59.360 41.667 0.00 0.00 0.00 3.41
744 764 3.876914 TCGCATTACTATTTGGGCTTCAG 59.123 43.478 0.00 0.00 0.00 3.02
756 776 5.975344 CCAACTTTCGACTATCGCATTACTA 59.025 40.000 0.00 0.00 40.21 1.82
759 779 4.751060 ACCAACTTTCGACTATCGCATTA 58.249 39.130 0.00 0.00 40.21 1.90
763 783 1.925185 GGACCAACTTTCGACTATCGC 59.075 52.381 0.00 0.00 40.21 4.58
764 784 3.226346 TGGACCAACTTTCGACTATCG 57.774 47.619 0.00 0.00 42.10 2.92
765 785 6.371825 AGAAAATGGACCAACTTTCGACTATC 59.628 38.462 19.28 4.19 33.86 2.08
766 786 6.238648 AGAAAATGGACCAACTTTCGACTAT 58.761 36.000 19.28 6.22 33.86 2.12
767 787 5.617252 AGAAAATGGACCAACTTTCGACTA 58.383 37.500 19.28 0.00 33.86 2.59
768 788 4.461198 AGAAAATGGACCAACTTTCGACT 58.539 39.130 19.28 6.74 33.86 4.18
769 789 4.830826 AGAAAATGGACCAACTTTCGAC 57.169 40.909 19.28 4.92 33.86 4.20
770 790 4.884744 TGAAGAAAATGGACCAACTTTCGA 59.115 37.500 19.28 10.11 33.86 3.71
812 832 1.273327 GACCAATTTGGGCTTCAGTGG 59.727 52.381 19.39 0.00 44.12 4.00
834 854 2.287849 GGGCTTGCAGACTGAAGAAAAC 60.288 50.000 6.65 0.30 0.00 2.43
868 888 4.202253 TGAGACAAGTCTGCTGCTTTCTTA 60.202 41.667 7.57 0.00 40.61 2.10
935 958 1.298014 GAGCAGAAGGTGGAGGTGG 59.702 63.158 0.00 0.00 0.00 4.61
1128 1167 3.081409 GGGCCGGAGCTAAGACCA 61.081 66.667 5.05 0.00 39.73 4.02
1140 1179 4.899239 GGCGTCAGATCTGGGCCG 62.899 72.222 30.14 24.81 39.44 6.13
1178 1217 0.690762 GGCCACCTTGGTGAACTCTA 59.309 55.000 20.27 0.00 40.46 2.43
1298 1337 0.834687 AAGTACCTGCGGAGGACCAA 60.835 55.000 31.46 8.95 42.93 3.67
1300 1339 0.971447 AGAAGTACCTGCGGAGGACC 60.971 60.000 31.46 18.38 42.93 4.46
1303 1342 0.179134 CGAAGAAGTACCTGCGGAGG 60.179 60.000 22.94 22.94 46.21 4.30
1353 1392 4.024556 CACAGAATTGCAGACGAAGAAACT 60.025 41.667 0.00 0.00 0.00 2.66
1365 1404 3.736100 CGGGCGCACAGAATTGCA 61.736 61.111 11.77 0.00 43.15 4.08
1367 1406 1.442520 CAACGGGCGCACAGAATTG 60.443 57.895 11.77 4.35 0.00 2.32
1419 1528 2.673368 AGAATTTCACGACAGCGAATCC 59.327 45.455 0.00 0.00 41.64 3.01
1427 1536 4.058124 CCACAAGAGAGAATTTCACGACA 58.942 43.478 0.00 0.00 0.00 4.35
1437 1546 3.430790 CGATGCCATACCACAAGAGAGAA 60.431 47.826 0.00 0.00 0.00 2.87
1442 1551 2.498078 TGTACGATGCCATACCACAAGA 59.502 45.455 0.00 0.00 0.00 3.02
1462 1571 3.361794 ACCGATTCGATCTCACAGATG 57.638 47.619 7.83 0.00 34.53 2.90
1474 1583 4.561606 CAGTTCTACCAAGTAACCGATTCG 59.438 45.833 0.00 0.00 0.00 3.34
1475 1584 5.575995 GTCAGTTCTACCAAGTAACCGATTC 59.424 44.000 0.00 0.00 0.00 2.52
1476 1585 5.245526 AGTCAGTTCTACCAAGTAACCGATT 59.754 40.000 0.00 0.00 0.00 3.34
1477 1586 4.771054 AGTCAGTTCTACCAAGTAACCGAT 59.229 41.667 0.00 0.00 0.00 4.18
1478 1587 4.147321 AGTCAGTTCTACCAAGTAACCGA 58.853 43.478 0.00 0.00 0.00 4.69
1479 1588 4.483311 GAGTCAGTTCTACCAAGTAACCG 58.517 47.826 0.00 0.00 0.00 4.44
1480 1589 4.282703 TGGAGTCAGTTCTACCAAGTAACC 59.717 45.833 0.00 0.00 0.00 2.85
1481 1590 5.464030 TGGAGTCAGTTCTACCAAGTAAC 57.536 43.478 0.00 0.00 0.00 2.50
1482 1591 6.681729 ATTGGAGTCAGTTCTACCAAGTAA 57.318 37.500 0.00 0.00 42.53 2.24
1483 1592 6.681729 AATTGGAGTCAGTTCTACCAAGTA 57.318 37.500 0.00 0.00 42.53 2.24
1484 1593 5.568620 AATTGGAGTCAGTTCTACCAAGT 57.431 39.130 0.00 0.00 42.53 3.16
1516 1636 4.142359 ACACTGCCTAATAGAGACGAACAG 60.142 45.833 0.00 0.00 0.00 3.16
1524 1644 5.931146 GGATCAATCACACTGCCTAATAGAG 59.069 44.000 0.00 0.00 0.00 2.43
1531 1651 1.632409 ACAGGATCAATCACACTGCCT 59.368 47.619 0.00 0.00 32.60 4.75
1534 1654 2.745821 CACCACAGGATCAATCACACTG 59.254 50.000 0.00 0.00 35.40 3.66
1547 1667 4.260985 TCATACAAACATAGCACCACAGG 58.739 43.478 0.00 0.00 0.00 4.00
1549 1669 5.159273 TCTCATACAAACATAGCACCACA 57.841 39.130 0.00 0.00 0.00 4.17
1565 1692 7.447374 ACGAACCAAAATGACAATTCTCATA 57.553 32.000 0.00 0.00 30.27 2.15
1568 1695 7.221838 TGAAAACGAACCAAAATGACAATTCTC 59.778 33.333 0.00 0.00 0.00 2.87
1618 1745 7.364232 CCACTAGAGTCAATCCAGTGAGTAATT 60.364 40.741 1.98 0.00 39.13 1.40
1620 1747 5.419155 CCACTAGAGTCAATCCAGTGAGTAA 59.581 44.000 1.98 0.00 39.13 2.24
1622 1754 3.766591 CCACTAGAGTCAATCCAGTGAGT 59.233 47.826 1.98 0.00 39.13 3.41
1630 1762 2.166664 ACGGAAGCCACTAGAGTCAATC 59.833 50.000 0.00 0.00 0.00 2.67
1722 1859 2.182827 TGTGAGAGGCTAAGAGCATGT 58.817 47.619 0.21 0.00 44.75 3.21
1750 1887 3.196939 TGCTGTTGGTAAGGTAAACGT 57.803 42.857 0.00 0.00 0.00 3.99
1763 1901 2.681848 CCTCTAGGCTTCAATGCTGTTG 59.318 50.000 0.00 0.00 0.00 3.33
1764 1902 2.307098 ACCTCTAGGCTTCAATGCTGTT 59.693 45.455 0.00 0.00 39.32 3.16
1765 1903 1.912043 ACCTCTAGGCTTCAATGCTGT 59.088 47.619 0.00 0.00 39.32 4.40
1801 1939 4.664267 ACCCAGCCAGGCTCCTCA 62.664 66.667 12.53 0.00 36.40 3.86
1810 1948 0.322322 ACGAAATAACGACCCAGCCA 59.678 50.000 0.00 0.00 37.03 4.75
1813 1951 2.599973 CGGTTACGAAATAACGACCCAG 59.400 50.000 0.00 0.00 43.72 4.45
1815 1953 1.926510 CCGGTTACGAAATAACGACCC 59.073 52.381 0.00 0.00 43.72 4.46
1822 1960 3.367292 GGTCAGTGACCGGTTACGAAATA 60.367 47.826 26.12 6.11 43.14 1.40
1916 2054 7.821359 AGCTGATGCATATACAACTTATAGTGG 59.179 37.037 0.00 0.00 42.74 4.00
1920 2058 8.138928 AGGAGCTGATGCATATACAACTTATA 57.861 34.615 0.00 0.00 42.74 0.98
1927 2065 5.297527 CACAAAAGGAGCTGATGCATATACA 59.702 40.000 0.00 0.00 42.74 2.29
1940 2078 5.108517 TGAAACATTTGACACAAAAGGAGC 58.891 37.500 0.00 0.00 0.00 4.70
1947 2085 7.009999 GCTGTTACAATGAAACATTTGACACAA 59.990 33.333 0.00 0.00 36.33 3.33
2092 2230 2.766970 TCTAAACGCAGGCAAACAAC 57.233 45.000 0.00 0.00 0.00 3.32
2094 2232 2.032799 CACTTCTAAACGCAGGCAAACA 59.967 45.455 0.00 0.00 0.00 2.83
2095 2233 2.650608 CACTTCTAAACGCAGGCAAAC 58.349 47.619 0.00 0.00 0.00 2.93
2097 2235 0.591170 GCACTTCTAAACGCAGGCAA 59.409 50.000 0.00 0.00 0.00 4.52
2098 2236 0.533978 TGCACTTCTAAACGCAGGCA 60.534 50.000 0.00 0.00 0.00 4.75
2176 2314 9.691362 ATCAAAACAGCGTAAATTATGAAAACT 57.309 25.926 0.00 0.00 0.00 2.66
2185 2323 9.341899 GTCAAGATAATCAAAACAGCGTAAATT 57.658 29.630 0.00 0.00 0.00 1.82
2189 2327 7.428282 TTGTCAAGATAATCAAAACAGCGTA 57.572 32.000 0.00 0.00 0.00 4.42
2203 2341 7.121168 GTCCCTGAATGAAACATTGTCAAGATA 59.879 37.037 1.64 0.00 0.00 1.98
2226 2364 6.930068 TTTTATATAGGGTAGAGCAGGTCC 57.070 41.667 0.00 0.00 0.00 4.46
2254 2392 3.244770 TGGTTTCACCATGGTTCTACCTC 60.245 47.826 27.10 12.72 44.79 3.85
2272 2410 5.103940 AGCCTAACTTATCATCACCATGGTT 60.104 40.000 16.84 2.33 0.00 3.67
2273 2411 4.413520 AGCCTAACTTATCATCACCATGGT 59.586 41.667 13.00 13.00 0.00 3.55
2274 2412 4.978099 AGCCTAACTTATCATCACCATGG 58.022 43.478 11.19 11.19 0.00 3.66


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

AutoCloner maintained by Alex Coulton.