Multiple sequence alignment - TraesCS4A01G086900

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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 TraesCS4A01G086900 chr4A 100.000 2252 0 0 1 2252 91314002 91311751 0.000000e+00 4159.0
1 TraesCS4A01G086900 chr4A 100.000 30 0 0 581 610 91313392 91313363 3.120000e-04 56.5
2 TraesCS4A01G086900 chr4A 100.000 30 0 0 611 640 91313422 91313393 3.120000e-04 56.5
3 TraesCS4A01G086900 chr4B 91.538 1619 61 29 681 2252 458952935 458954524 0.000000e+00 2161.0
4 TraesCS4A01G086900 chr4D 90.722 1606 68 23 664 2229 373583413 373584977 0.000000e+00 2065.0
5 TraesCS4A01G086900 chr4D 82.562 562 51 21 1 542 373576255 373576789 3.410000e-123 451.0
6 TraesCS4A01G086900 chr4D 81.905 105 17 2 452 555 376317382 376317279 1.110000e-13 87.9
7 TraesCS4A01G086900 chr5D 86.000 150 15 5 1091 1240 550274330 550274473 2.990000e-34 156.0
8 TraesCS4A01G086900 chr2D 85.333 150 16 5 1091 1240 106671457 106671600 1.390000e-32 150.0
9 TraesCS4A01G086900 chr2D 84.722 144 16 5 1097 1240 61757678 61757815 3.020000e-29 139.0
10 TraesCS4A01G086900 chr7D 84.667 150 17 5 1091 1240 14432336 14432193 6.480000e-31 145.0
11 TraesCS4A01G086900 chr7D 84.667 150 17 5 1091 1240 564009422 564009279 6.480000e-31 145.0
12 TraesCS4A01G086900 chr3D 84.667 150 17 5 1091 1240 455554801 455554944 6.480000e-31 145.0
13 TraesCS4A01G086900 chr3D 83.333 96 14 2 452 546 96812654 96812748 1.110000e-13 87.9
14 TraesCS4A01G086900 chr7B 78.000 200 33 6 263 454 462856546 462856350 5.080000e-22 115.0
15 TraesCS4A01G086900 chr6D 83.838 99 14 2 452 549 28897431 28897528 2.380000e-15 93.5
16 TraesCS4A01G086900 chr6D 83.333 96 14 2 452 546 56669361 56669455 1.110000e-13 87.9
17 TraesCS4A01G086900 chr6D 81.905 105 17 2 452 555 258794398 258794295 1.110000e-13 87.9
18 TraesCS4A01G086900 chr6D 83.333 96 14 2 452 546 287633200 287633294 1.110000e-13 87.9
19 TraesCS4A01G086900 chr6D 81.905 105 17 2 452 555 388078570 388078467 1.110000e-13 87.9
20 TraesCS4A01G086900 chr5B 84.211 95 15 0 452 546 93954838 93954932 2.380000e-15 93.5
21 TraesCS4A01G086900 chr1D 81.905 105 17 2 452 555 189006536 189006433 1.110000e-13 87.9
22 TraesCS4A01G086900 chr6A 94.595 37 0 1 630 664 12620145 12620181 3.120000e-04 56.5


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 TraesCS4A01G086900 chr4A 91311751 91314002 2251 True 1424 4159 100.000 1 2252 3 chr4A.!!$R1 2251
1 TraesCS4A01G086900 chr4B 458952935 458954524 1589 False 2161 2161 91.538 681 2252 1 chr4B.!!$F1 1571
2 TraesCS4A01G086900 chr4D 373583413 373584977 1564 False 2065 2065 90.722 664 2229 1 chr4D.!!$F2 1565
3 TraesCS4A01G086900 chr4D 373576255 373576789 534 False 451 451 82.562 1 542 1 chr4D.!!$F1 541

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
50 51 0.039035 GGTTGTGCCCAAGGATGGTA 59.961 55.0 0.0 0.0 46.01 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1834 1904 0.389948 GGGATCGTCCACACTGACAC 60.39 60.0 6.41 0.0 38.64 3.67 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
41 42 2.916934 ACCTTCTATTAGGTTGTGCCCA 59.083 45.455 0.00 0.00 46.39 5.36
44 45 3.644966 TCTATTAGGTTGTGCCCAAGG 57.355 47.619 0.00 0.00 38.26 3.61
46 47 3.785887 TCTATTAGGTTGTGCCCAAGGAT 59.214 43.478 0.00 0.00 38.26 3.24
47 48 2.214376 TTAGGTTGTGCCCAAGGATG 57.786 50.000 0.00 0.00 38.26 3.51
49 50 1.228862 GGTTGTGCCCAAGGATGGT 60.229 57.895 0.00 0.00 46.01 3.55
50 51 0.039035 GGTTGTGCCCAAGGATGGTA 59.961 55.000 0.00 0.00 46.01 3.25
51 52 1.173913 GTTGTGCCCAAGGATGGTAC 58.826 55.000 0.00 0.00 46.01 3.34
52 53 0.322098 TTGTGCCCAAGGATGGTACG 60.322 55.000 0.00 0.00 46.01 3.67
53 54 1.195442 TGTGCCCAAGGATGGTACGA 61.195 55.000 0.00 0.00 46.01 3.43
54 55 0.462047 GTGCCCAAGGATGGTACGAG 60.462 60.000 0.00 0.00 46.01 4.18
55 56 1.523938 GCCCAAGGATGGTACGAGC 60.524 63.158 0.00 0.00 46.01 5.03
56 57 1.227263 CCCAAGGATGGTACGAGCG 60.227 63.158 0.00 0.00 46.01 5.03
57 58 1.883084 CCAAGGATGGTACGAGCGC 60.883 63.158 0.00 0.00 42.18 5.92
58 59 1.141881 CAAGGATGGTACGAGCGCT 59.858 57.895 11.27 11.27 0.00 5.92
89 90 4.360101 GCGCTTGTATCAAACGCC 57.640 55.556 15.99 2.80 43.58 5.68
99 100 0.881118 ATCAAACGCCGTCAAATGCT 59.119 45.000 0.00 0.00 0.00 3.79
102 103 0.238289 AAACGCCGTCAAATGCTCTG 59.762 50.000 0.00 0.00 0.00 3.35
113 118 0.392193 AATGCTCTGGTCTGGCTTCG 60.392 55.000 0.00 0.00 0.00 3.79
114 119 2.125350 GCTCTGGTCTGGCTTCGG 60.125 66.667 0.00 0.00 0.00 4.30
115 120 2.125350 CTCTGGTCTGGCTTCGGC 60.125 66.667 0.00 0.00 40.88 5.54
126 131 2.363172 GCTTCGGCCCCTCTCTCTT 61.363 63.158 0.00 0.00 34.32 2.85
133 138 0.456628 GCCCCTCTCTCTTGTACGAC 59.543 60.000 0.00 0.00 0.00 4.34
137 142 2.424246 CCCTCTCTCTTGTACGACTTCC 59.576 54.545 0.00 0.00 0.00 3.46
141 146 3.502595 TCTCTCTTGTACGACTTCCTGTG 59.497 47.826 0.00 0.00 0.00 3.66
144 149 2.953648 TCTTGTACGACTTCCTGTGTGA 59.046 45.455 0.00 0.00 0.00 3.58
162 168 2.093500 GTGAGTGTGGGCATCATAGTCA 60.093 50.000 8.67 8.67 42.23 3.41
165 171 1.665679 GTGTGGGCATCATAGTCAACG 59.334 52.381 0.00 0.00 0.00 4.10
178 184 5.295540 TCATAGTCAACGTCATCTCTCTCTG 59.704 44.000 0.00 0.00 0.00 3.35
179 185 3.680490 AGTCAACGTCATCTCTCTCTGA 58.320 45.455 0.00 0.00 0.00 3.27
180 186 3.689161 AGTCAACGTCATCTCTCTCTGAG 59.311 47.826 0.00 0.00 43.96 3.35
182 188 3.438434 TCAACGTCATCTCTCTCTGAGTG 59.562 47.826 4.32 2.24 43.13 3.51
183 189 1.742831 ACGTCATCTCTCTCTGAGTGC 59.257 52.381 4.32 0.00 43.13 4.40
184 190 1.065401 CGTCATCTCTCTCTGAGTGCC 59.935 57.143 4.32 0.00 43.13 5.01
185 191 2.378038 GTCATCTCTCTCTGAGTGCCT 58.622 52.381 4.32 0.00 43.13 4.75
186 192 2.099592 GTCATCTCTCTCTGAGTGCCTG 59.900 54.545 4.32 1.57 43.13 4.85
192 204 0.907486 TCTCTGAGTGCCTGGAATGG 59.093 55.000 4.32 0.00 0.00 3.16
237 249 4.065789 CCGTAGGCCCAAGAGATTAATTC 58.934 47.826 0.00 0.00 46.14 2.17
288 300 7.118723 AGAAATTCAACCAAGCTATGATACCA 58.881 34.615 0.00 0.00 0.00 3.25
323 335 4.804597 AGGCAGAGGAATAATTTTACCCC 58.195 43.478 0.00 0.00 0.00 4.95
325 337 4.959839 GGCAGAGGAATAATTTTACCCCAA 59.040 41.667 0.00 0.00 0.00 4.12
326 338 5.069119 GGCAGAGGAATAATTTTACCCCAAG 59.931 44.000 0.00 0.00 0.00 3.61
361 373 6.377146 TCCCAAACCAACTCTAATAGCAAATC 59.623 38.462 0.00 0.00 0.00 2.17
362 374 6.152661 CCCAAACCAACTCTAATAGCAAATCA 59.847 38.462 0.00 0.00 0.00 2.57
363 375 7.147846 CCCAAACCAACTCTAATAGCAAATCAT 60.148 37.037 0.00 0.00 0.00 2.45
364 376 7.703621 CCAAACCAACTCTAATAGCAAATCATG 59.296 37.037 0.00 0.00 0.00 3.07
376 396 1.663643 CAAATCATGCAGTGCCAATGC 59.336 47.619 10.69 10.69 44.11 3.56
401 421 6.839124 AAACATGAATGCATCCTAAACTCA 57.161 33.333 0.00 0.00 30.68 3.41
413 433 6.417930 GCATCCTAAACTCAAAGACACAAAAC 59.582 38.462 0.00 0.00 0.00 2.43
418 438 8.129211 CCTAAACTCAAAGACACAAAACTAAGG 58.871 37.037 0.00 0.00 0.00 2.69
424 444 6.431543 TCAAAGACACAAAACTAAGGAACACA 59.568 34.615 0.00 0.00 0.00 3.72
425 445 7.122055 TCAAAGACACAAAACTAAGGAACACAT 59.878 33.333 0.00 0.00 0.00 3.21
456 476 4.914291 GTTTGCTCCCGACAAACG 57.086 55.556 3.87 0.00 45.10 3.60
478 498 3.522808 GACGTCCACTCGGCCTAT 58.477 61.111 3.51 0.00 32.06 2.57
480 500 1.379443 ACGTCCACTCGGCCTATCA 60.379 57.895 0.00 0.00 34.94 2.15
493 513 6.109156 TCGGCCTATCATAATGAGCTAAAA 57.891 37.500 0.00 0.00 0.00 1.52
494 514 5.932303 TCGGCCTATCATAATGAGCTAAAAC 59.068 40.000 0.00 0.00 0.00 2.43
509 529 6.979817 TGAGCTAAAACGTGACTAACAAAGTA 59.020 34.615 0.00 0.00 39.07 2.24
516 536 7.404139 AACGTGACTAACAAAGTAGTGATTC 57.596 36.000 0.00 0.00 39.07 2.52
517 537 5.628193 ACGTGACTAACAAAGTAGTGATTCG 59.372 40.000 0.00 0.00 39.07 3.34
518 538 5.060569 CGTGACTAACAAAGTAGTGATTCGG 59.939 44.000 0.00 0.00 39.07 4.30
536 556 2.094442 TCGGTCGAACATGAGCAATACA 60.094 45.455 0.00 0.00 36.16 2.29
542 562 6.037172 GGTCGAACATGAGCAATACAAGTATT 59.963 38.462 0.00 0.00 36.27 1.89
543 563 7.414098 GGTCGAACATGAGCAATACAAGTATTT 60.414 37.037 0.00 0.00 33.79 1.40
544 564 7.636359 GTCGAACATGAGCAATACAAGTATTTC 59.364 37.037 0.00 0.00 33.79 2.17
545 565 6.624917 CGAACATGAGCAATACAAGTATTTCG 59.375 38.462 0.00 4.44 33.79 3.46
546 566 7.464045 CGAACATGAGCAATACAAGTATTTCGA 60.464 37.037 0.00 0.00 33.79 3.71
547 567 7.609760 ACATGAGCAATACAAGTATTTCGAA 57.390 32.000 0.00 0.00 33.79 3.71
548 568 7.688372 ACATGAGCAATACAAGTATTTCGAAG 58.312 34.615 0.00 0.00 33.79 3.79
549 569 6.106877 TGAGCAATACAAGTATTTCGAAGC 57.893 37.500 0.00 3.99 33.79 3.86
550 570 5.641636 TGAGCAATACAAGTATTTCGAAGCA 59.358 36.000 0.00 0.00 33.79 3.91
551 571 5.869350 AGCAATACAAGTATTTCGAAGCAC 58.131 37.500 0.00 0.31 33.79 4.40
552 572 5.028375 GCAATACAAGTATTTCGAAGCACC 58.972 41.667 0.00 0.00 33.79 5.01
553 573 5.391523 GCAATACAAGTATTTCGAAGCACCA 60.392 40.000 0.00 0.00 33.79 4.17
554 574 6.677920 GCAATACAAGTATTTCGAAGCACCAT 60.678 38.462 0.00 0.00 33.79 3.55
555 575 7.466725 GCAATACAAGTATTTCGAAGCACCATA 60.467 37.037 0.00 0.00 33.79 2.74
556 576 8.394877 CAATACAAGTATTTCGAAGCACCATAA 58.605 33.333 0.00 0.00 33.79 1.90
557 577 6.811253 ACAAGTATTTCGAAGCACCATAAA 57.189 33.333 0.00 0.00 0.00 1.40
558 578 6.608610 ACAAGTATTTCGAAGCACCATAAAC 58.391 36.000 0.00 0.00 0.00 2.01
559 579 5.464965 AGTATTTCGAAGCACCATAAACG 57.535 39.130 0.00 0.00 0.00 3.60
560 580 3.757745 ATTTCGAAGCACCATAAACGG 57.242 42.857 0.00 0.00 0.00 4.44
561 581 2.172851 TTCGAAGCACCATAAACGGT 57.827 45.000 0.00 0.00 41.07 4.83
570 590 2.706890 ACCATAAACGGTGTGTCATCC 58.293 47.619 0.00 0.00 38.07 3.51
571 591 2.304761 ACCATAAACGGTGTGTCATCCT 59.695 45.455 0.00 0.00 38.07 3.24
572 592 2.677836 CCATAAACGGTGTGTCATCCTG 59.322 50.000 0.00 0.00 0.00 3.86
573 593 3.334691 CATAAACGGTGTGTCATCCTGT 58.665 45.455 0.00 0.00 0.00 4.00
574 594 2.341846 AAACGGTGTGTCATCCTGTT 57.658 45.000 0.00 0.00 0.00 3.16
575 595 3.478857 AAACGGTGTGTCATCCTGTTA 57.521 42.857 0.00 0.00 0.00 2.41
576 596 3.695830 AACGGTGTGTCATCCTGTTAT 57.304 42.857 0.00 0.00 0.00 1.89
577 597 3.695830 ACGGTGTGTCATCCTGTTATT 57.304 42.857 0.00 0.00 0.00 1.40
578 598 4.015872 ACGGTGTGTCATCCTGTTATTT 57.984 40.909 0.00 0.00 0.00 1.40
579 599 4.000988 ACGGTGTGTCATCCTGTTATTTC 58.999 43.478 0.00 0.00 0.00 2.17
580 600 3.062099 CGGTGTGTCATCCTGTTATTTCG 59.938 47.826 0.00 0.00 0.00 3.46
581 601 4.000988 GGTGTGTCATCCTGTTATTTCGT 58.999 43.478 0.00 0.00 0.00 3.85
582 602 4.454504 GGTGTGTCATCCTGTTATTTCGTT 59.545 41.667 0.00 0.00 0.00 3.85
583 603 5.390567 GGTGTGTCATCCTGTTATTTCGTTC 60.391 44.000 0.00 0.00 0.00 3.95
584 604 5.408604 GTGTGTCATCCTGTTATTTCGTTCT 59.591 40.000 0.00 0.00 0.00 3.01
585 605 5.408299 TGTGTCATCCTGTTATTTCGTTCTG 59.592 40.000 0.00 0.00 0.00 3.02
586 606 4.391830 TGTCATCCTGTTATTTCGTTCTGC 59.608 41.667 0.00 0.00 0.00 4.26
587 607 4.391830 GTCATCCTGTTATTTCGTTCTGCA 59.608 41.667 0.00 0.00 0.00 4.41
588 608 5.000591 TCATCCTGTTATTTCGTTCTGCAA 58.999 37.500 0.00 0.00 0.00 4.08
589 609 5.122239 TCATCCTGTTATTTCGTTCTGCAAG 59.878 40.000 0.00 0.00 0.00 4.01
590 610 4.385825 TCCTGTTATTTCGTTCTGCAAGT 58.614 39.130 0.00 0.00 33.76 3.16
591 611 4.451096 TCCTGTTATTTCGTTCTGCAAGTC 59.549 41.667 0.00 0.00 33.76 3.01
592 612 4.378459 CCTGTTATTTCGTTCTGCAAGTCC 60.378 45.833 0.00 0.00 33.76 3.85
593 613 4.130857 TGTTATTTCGTTCTGCAAGTCCA 58.869 39.130 0.00 0.00 33.76 4.02
594 614 4.759693 TGTTATTTCGTTCTGCAAGTCCAT 59.240 37.500 0.00 0.00 33.76 3.41
595 615 5.240623 TGTTATTTCGTTCTGCAAGTCCATT 59.759 36.000 0.00 0.00 33.76 3.16
596 616 3.624326 TTTCGTTCTGCAAGTCCATTG 57.376 42.857 0.00 0.00 42.20 2.82
603 623 3.672293 CAAGTCCATTGCGCCAGT 58.328 55.556 4.18 0.00 30.65 4.00
604 624 2.853159 CAAGTCCATTGCGCCAGTA 58.147 52.632 4.18 0.00 30.65 2.74
605 625 1.164411 CAAGTCCATTGCGCCAGTAA 58.836 50.000 4.18 0.00 30.65 2.24
606 626 1.745087 CAAGTCCATTGCGCCAGTAAT 59.255 47.619 4.18 0.00 32.84 1.89
607 627 2.942376 CAAGTCCATTGCGCCAGTAATA 59.058 45.455 4.18 0.00 31.44 0.98
608 628 2.838736 AGTCCATTGCGCCAGTAATAG 58.161 47.619 4.18 0.00 31.44 1.73
609 629 2.170607 AGTCCATTGCGCCAGTAATAGT 59.829 45.455 4.18 0.00 31.44 2.12
610 630 2.287915 GTCCATTGCGCCAGTAATAGTG 59.712 50.000 4.18 0.00 31.44 2.74
611 631 2.093181 TCCATTGCGCCAGTAATAGTGT 60.093 45.455 4.18 0.00 31.44 3.55
612 632 2.682856 CCATTGCGCCAGTAATAGTGTT 59.317 45.455 4.18 0.00 31.44 3.32
613 633 3.242739 CCATTGCGCCAGTAATAGTGTTC 60.243 47.826 4.18 0.00 31.44 3.18
614 634 3.328382 TTGCGCCAGTAATAGTGTTCT 57.672 42.857 4.18 0.00 0.00 3.01
615 635 2.616960 TGCGCCAGTAATAGTGTTCTG 58.383 47.619 4.18 0.00 0.00 3.02
616 636 1.327764 GCGCCAGTAATAGTGTTCTGC 59.672 52.381 0.00 0.00 0.00 4.26
617 637 2.616960 CGCCAGTAATAGTGTTCTGCA 58.383 47.619 0.00 0.00 0.00 4.41
618 638 3.000041 CGCCAGTAATAGTGTTCTGCAA 59.000 45.455 0.00 0.00 0.00 4.08
619 639 3.062639 CGCCAGTAATAGTGTTCTGCAAG 59.937 47.826 0.00 0.00 0.00 4.01
620 640 4.003648 GCCAGTAATAGTGTTCTGCAAGT 58.996 43.478 0.00 0.00 33.76 3.16
621 641 4.093556 GCCAGTAATAGTGTTCTGCAAGTC 59.906 45.833 0.00 0.00 33.76 3.01
622 642 4.631813 CCAGTAATAGTGTTCTGCAAGTCC 59.368 45.833 0.00 0.00 33.76 3.85
623 643 5.237815 CAGTAATAGTGTTCTGCAAGTCCA 58.762 41.667 0.00 0.00 33.76 4.02
624 644 5.877012 CAGTAATAGTGTTCTGCAAGTCCAT 59.123 40.000 0.00 0.00 33.76 3.41
625 645 6.372659 CAGTAATAGTGTTCTGCAAGTCCATT 59.627 38.462 0.00 0.00 33.76 3.16
626 646 5.633830 AATAGTGTTCTGCAAGTCCATTG 57.366 39.130 0.00 0.00 42.20 2.82
633 653 3.672293 CAAGTCCATTGCGCCAGT 58.328 55.556 4.18 0.00 30.65 4.00
634 654 2.853159 CAAGTCCATTGCGCCAGTA 58.147 52.632 4.18 0.00 30.65 2.74
635 655 1.164411 CAAGTCCATTGCGCCAGTAA 58.836 50.000 4.18 0.00 30.65 2.24
636 656 1.745087 CAAGTCCATTGCGCCAGTAAT 59.255 47.619 4.18 0.00 32.84 1.89
637 657 2.942376 CAAGTCCATTGCGCCAGTAATA 59.058 45.455 4.18 0.00 31.44 0.98
638 658 2.838736 AGTCCATTGCGCCAGTAATAG 58.161 47.619 4.18 0.00 31.44 1.73
639 659 2.170607 AGTCCATTGCGCCAGTAATAGT 59.829 45.455 4.18 0.00 31.44 2.12
640 660 2.544267 GTCCATTGCGCCAGTAATAGTC 59.456 50.000 4.18 0.00 31.44 2.59
641 661 1.873591 CCATTGCGCCAGTAATAGTCC 59.126 52.381 4.18 0.00 31.44 3.85
642 662 1.873591 CATTGCGCCAGTAATAGTCCC 59.126 52.381 4.18 0.00 31.44 4.46
643 663 1.200519 TTGCGCCAGTAATAGTCCCT 58.799 50.000 4.18 0.00 0.00 4.20
644 664 1.200519 TGCGCCAGTAATAGTCCCTT 58.799 50.000 4.18 0.00 0.00 3.95
645 665 1.138266 TGCGCCAGTAATAGTCCCTTC 59.862 52.381 4.18 0.00 0.00 3.46
646 666 1.868519 GCGCCAGTAATAGTCCCTTCG 60.869 57.143 0.00 0.00 0.00 3.79
647 667 1.407979 CGCCAGTAATAGTCCCTTCGT 59.592 52.381 0.00 0.00 0.00 3.85
648 668 2.620115 CGCCAGTAATAGTCCCTTCGTA 59.380 50.000 0.00 0.00 0.00 3.43
649 669 3.067180 CGCCAGTAATAGTCCCTTCGTAA 59.933 47.826 0.00 0.00 0.00 3.18
650 670 4.440525 CGCCAGTAATAGTCCCTTCGTAAA 60.441 45.833 0.00 0.00 0.00 2.01
651 671 4.807834 GCCAGTAATAGTCCCTTCGTAAAC 59.192 45.833 0.00 0.00 0.00 2.01
652 672 5.394993 GCCAGTAATAGTCCCTTCGTAAACT 60.395 44.000 0.00 0.00 0.00 2.66
653 673 6.183360 GCCAGTAATAGTCCCTTCGTAAACTA 60.183 42.308 0.00 0.00 0.00 2.24
654 674 7.631377 GCCAGTAATAGTCCCTTCGTAAACTAA 60.631 40.741 0.00 0.00 0.00 2.24
655 675 8.419442 CCAGTAATAGTCCCTTCGTAAACTAAT 58.581 37.037 0.00 0.00 0.00 1.73
800 823 1.555075 CCAGTCCAAGCTACTAGCCAA 59.445 52.381 4.32 0.00 43.77 4.52
874 900 2.659610 GAACTCCTCGCCACAGCT 59.340 61.111 0.00 0.00 36.60 4.24
974 1000 3.937706 CTGCACCTCCTCAGTAATTGAAG 59.062 47.826 0.00 0.00 34.81 3.02
980 1006 4.695455 CCTCCTCAGTAATTGAAGCGAAAA 59.305 41.667 0.00 0.00 34.81 2.29
989 1015 3.764237 TTGAAGCGAAAAGGAGGTAGT 57.236 42.857 0.00 0.00 0.00 2.73
990 1016 4.877378 TTGAAGCGAAAAGGAGGTAGTA 57.123 40.909 0.00 0.00 0.00 1.82
991 1017 5.416271 TTGAAGCGAAAAGGAGGTAGTAT 57.584 39.130 0.00 0.00 0.00 2.12
992 1018 6.534475 TTGAAGCGAAAAGGAGGTAGTATA 57.466 37.500 0.00 0.00 0.00 1.47
1072 1098 4.147449 CGTGCCTCCTCATCGCCA 62.147 66.667 0.00 0.00 0.00 5.69
1258 1284 2.045926 ACAACAGATGAGGCGGGC 60.046 61.111 0.00 0.00 0.00 6.13
1278 1304 3.490759 CAGGATCGTGGCACGCAC 61.491 66.667 33.59 26.46 42.21 5.34
1354 1380 0.381089 GCATGCAGGCTGATCAACTC 59.619 55.000 20.86 0.00 0.00 3.01
1513 1559 2.358615 TACTGGGCTGCGCTTGTG 60.359 61.111 17.81 7.89 0.00 3.33
1648 1697 6.581919 GCTTCTCATTTTGCTTCTTCTTCTTC 59.418 38.462 0.00 0.00 0.00 2.87
1669 1718 9.559732 TTCTTCACGATGGATCAATAAATACAT 57.440 29.630 0.00 0.00 32.68 2.29
1692 1741 4.504858 AGTTGTTGCGATAGAGTAAAGGG 58.495 43.478 0.00 0.00 39.76 3.95
1743 1792 1.463674 CACCTGACATTAGTTGGGGC 58.536 55.000 0.00 0.00 0.00 5.80
1746 1795 1.683011 CCTGACATTAGTTGGGGCTGG 60.683 57.143 0.00 0.00 0.00 4.85
1802 1872 2.618302 GGAGACAAGGTAAGAAAGGCCC 60.618 54.545 0.00 0.00 0.00 5.80
1809 1879 1.002624 TAAGAAAGGCCCCGTGCTG 60.003 57.895 0.00 0.00 40.92 4.41
1812 1882 4.912395 AAAGGCCCCGTGCTGCAA 62.912 61.111 2.77 0.00 40.92 4.08
1956 2029 1.969923 CCTCAAAACCATTTGGCCAGA 59.030 47.619 5.11 0.08 44.88 3.86
1968 2041 5.065474 CCATTTGGCCAGATGCAAATTTAAG 59.935 40.000 27.01 9.34 43.89 1.85
2047 2123 6.992123 AGATATTGCCATCGTTACTCATTCAA 59.008 34.615 0.00 0.00 0.00 2.69
2051 2127 4.511454 TGCCATCGTTACTCATTCAATAGC 59.489 41.667 0.00 0.00 0.00 2.97
2052 2128 4.752101 GCCATCGTTACTCATTCAATAGCT 59.248 41.667 0.00 0.00 0.00 3.32
2105 2197 3.734293 CGCTGCTACTAGTACTTGGGAAC 60.734 52.174 0.00 0.00 0.00 3.62
2119 2211 2.339418 TGGGAACAGTATTGTAACGCG 58.661 47.619 3.53 3.53 36.23 6.01
2144 2236 6.161381 GCAATTGATGATCCTTGTTTGAAGT 58.839 36.000 10.34 0.00 0.00 3.01
2228 2320 0.733729 CTCTTGGAAGCAGCTGCATC 59.266 55.000 38.24 34.37 45.16 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.123928 GTCCCGGAGACCAAGATGAT 58.876 55.000 0.73 0.00 39.84 2.45
41 42 1.141881 CAGCGCTCGTACCATCCTT 59.858 57.895 7.13 0.00 0.00 3.36
44 45 0.594284 GTACCAGCGCTCGTACCATC 60.594 60.000 28.42 9.05 30.69 3.51
46 47 2.879907 GTACCAGCGCTCGTACCA 59.120 61.111 28.42 3.02 30.69 3.25
47 48 2.277756 CGTACCAGCGCTCGTACC 60.278 66.667 30.98 17.90 32.85 3.34
48 49 1.297451 CTCGTACCAGCGCTCGTAC 60.297 63.158 28.70 28.70 33.08 3.67
49 50 3.095911 CTCGTACCAGCGCTCGTA 58.904 61.111 11.04 11.04 0.00 3.43
50 51 4.477975 GCTCGTACCAGCGCTCGT 62.478 66.667 13.41 13.41 0.00 4.18
56 57 2.881352 GCACTCGCTCGTACCAGC 60.881 66.667 1.89 1.89 35.90 4.85
57 58 2.577112 CGCACTCGCTCGTACCAG 60.577 66.667 0.00 0.00 35.30 4.00
77 78 2.413502 GCATTTGACGGCGTTTGATACA 60.414 45.455 16.19 2.80 0.00 2.29
89 90 1.081892 CCAGACCAGAGCATTTGACG 58.918 55.000 0.00 0.00 0.00 4.35
113 118 0.683504 TCGTACAAGAGAGAGGGGCC 60.684 60.000 0.00 0.00 0.00 5.80
114 119 0.456628 GTCGTACAAGAGAGAGGGGC 59.543 60.000 0.00 0.00 0.00 5.80
115 120 2.131776 AGTCGTACAAGAGAGAGGGG 57.868 55.000 0.00 0.00 0.00 4.79
117 122 3.127895 CAGGAAGTCGTACAAGAGAGAGG 59.872 52.174 0.00 0.00 0.00 3.69
124 129 3.243434 ACTCACACAGGAAGTCGTACAAG 60.243 47.826 0.00 0.00 0.00 3.16
126 131 2.034179 CACTCACACAGGAAGTCGTACA 59.966 50.000 0.00 0.00 0.00 2.90
133 138 0.886490 GCCCACACTCACACAGGAAG 60.886 60.000 0.00 0.00 0.00 3.46
137 142 0.250424 TGATGCCCACACTCACACAG 60.250 55.000 0.00 0.00 0.00 3.66
141 146 2.093500 TGACTATGATGCCCACACTCAC 60.093 50.000 0.00 0.00 0.00 3.51
144 149 2.677902 CGTTGACTATGATGCCCACACT 60.678 50.000 0.00 0.00 0.00 3.55
183 189 3.258872 TCAAAGAAACATGCCATTCCAGG 59.741 43.478 0.00 0.00 0.00 4.45
184 190 4.524316 TCAAAGAAACATGCCATTCCAG 57.476 40.909 0.00 0.00 0.00 3.86
185 191 4.283978 ACATCAAAGAAACATGCCATTCCA 59.716 37.500 0.00 0.00 0.00 3.53
186 192 4.824289 ACATCAAAGAAACATGCCATTCC 58.176 39.130 0.00 0.00 0.00 3.01
192 204 6.346040 CGGAGAAAAACATCAAAGAAACATGC 60.346 38.462 0.00 0.00 0.00 4.06
249 261 8.811017 TGGTTGAATTTCTCAATATTTGCCTAA 58.189 29.630 0.00 0.00 45.74 2.69
252 264 7.413328 GCTTGGTTGAATTTCTCAATATTTGCC 60.413 37.037 0.00 0.00 45.74 4.52
283 295 8.103305 CCTCTGCCTAAAATACATATGTGGTAT 58.897 37.037 18.81 0.97 33.01 2.73
302 314 4.542697 TGGGGTAAAATTATTCCTCTGCC 58.457 43.478 0.00 0.00 0.00 4.85
323 335 4.662278 TGGTTTGGGACTAATCTTCCTTG 58.338 43.478 0.00 0.00 33.17 3.61
325 337 4.354087 AGTTGGTTTGGGACTAATCTTCCT 59.646 41.667 0.00 0.00 31.00 3.36
326 338 4.663334 AGTTGGTTTGGGACTAATCTTCC 58.337 43.478 0.00 0.00 31.00 3.46
376 396 7.092079 TGAGTTTAGGATGCATTCATGTTTTG 58.908 34.615 7.96 0.00 31.96 2.44
377 397 7.230849 TGAGTTTAGGATGCATTCATGTTTT 57.769 32.000 7.96 0.00 31.96 2.43
388 408 5.689383 TTGTGTCTTTGAGTTTAGGATGC 57.311 39.130 0.00 0.00 0.00 3.91
401 421 6.827586 TGTGTTCCTTAGTTTTGTGTCTTT 57.172 33.333 0.00 0.00 0.00 2.52
413 433 7.488471 CCGAAAGTAAGTAGATGTGTTCCTTAG 59.512 40.741 0.00 0.00 0.00 2.18
418 438 7.288672 CAAACCGAAAGTAAGTAGATGTGTTC 58.711 38.462 0.00 0.00 0.00 3.18
424 444 5.176592 GGAGCAAACCGAAAGTAAGTAGAT 58.823 41.667 0.00 0.00 0.00 1.98
425 445 4.562143 GGGAGCAAACCGAAAGTAAGTAGA 60.562 45.833 0.00 0.00 0.00 2.59
450 470 4.974989 GGACGTCCCGCCGTTTGT 62.975 66.667 24.75 0.00 41.98 2.83
451 471 4.973055 TGGACGTCCCGCCGTTTG 62.973 66.667 31.19 0.00 41.98 2.93
452 472 4.974989 GTGGACGTCCCGCCGTTT 62.975 66.667 31.19 0.00 41.98 3.60
471 491 5.163953 CGTTTTAGCTCATTATGATAGGCCG 60.164 44.000 0.00 0.00 0.00 6.13
473 493 6.423905 TCACGTTTTAGCTCATTATGATAGGC 59.576 38.462 0.00 0.00 0.00 3.93
474 494 7.653713 AGTCACGTTTTAGCTCATTATGATAGG 59.346 37.037 0.00 0.00 0.00 2.57
478 498 7.815549 TGTTAGTCACGTTTTAGCTCATTATGA 59.184 33.333 0.00 0.00 0.00 2.15
480 500 8.542497 TTGTTAGTCACGTTTTAGCTCATTAT 57.458 30.769 0.00 0.00 0.00 1.28
493 513 5.628193 CGAATCACTACTTTGTTAGTCACGT 59.372 40.000 0.00 0.00 38.33 4.49
494 514 5.060569 CCGAATCACTACTTTGTTAGTCACG 59.939 44.000 0.00 0.00 38.33 4.35
509 529 2.881074 CTCATGTTCGACCGAATCACT 58.119 47.619 8.14 0.00 36.45 3.41
516 536 2.267426 TGTATTGCTCATGTTCGACCG 58.733 47.619 0.00 0.00 0.00 4.79
517 537 3.684788 ACTTGTATTGCTCATGTTCGACC 59.315 43.478 0.00 0.00 0.00 4.79
518 538 4.928661 ACTTGTATTGCTCATGTTCGAC 57.071 40.909 0.00 0.00 0.00 4.20
536 556 5.163794 CCGTTTATGGTGCTTCGAAATACTT 60.164 40.000 0.00 0.00 0.00 2.24
542 562 2.172851 ACCGTTTATGGTGCTTCGAA 57.827 45.000 0.00 0.00 41.85 3.71
543 563 3.919163 ACCGTTTATGGTGCTTCGA 57.081 47.368 0.00 0.00 41.85 3.71
550 570 2.304761 AGGATGACACACCGTTTATGGT 59.695 45.455 0.00 0.00 45.21 3.55
551 571 2.677836 CAGGATGACACACCGTTTATGG 59.322 50.000 0.00 0.00 39.69 2.74
552 572 3.334691 ACAGGATGACACACCGTTTATG 58.665 45.455 0.00 0.00 39.69 1.90
553 573 3.695830 ACAGGATGACACACCGTTTAT 57.304 42.857 0.00 0.00 39.69 1.40
554 574 3.478857 AACAGGATGACACACCGTTTA 57.521 42.857 0.00 0.00 39.69 2.01
555 575 2.341846 AACAGGATGACACACCGTTT 57.658 45.000 0.00 0.00 39.69 3.60
556 576 3.695830 ATAACAGGATGACACACCGTT 57.304 42.857 11.79 11.79 39.69 4.44
557 577 3.695830 AATAACAGGATGACACACCGT 57.304 42.857 0.00 0.00 39.69 4.83
558 578 3.062099 CGAAATAACAGGATGACACACCG 59.938 47.826 0.00 0.00 39.69 4.94
559 579 4.000988 ACGAAATAACAGGATGACACACC 58.999 43.478 0.00 0.00 39.69 4.16
560 580 5.408604 AGAACGAAATAACAGGATGACACAC 59.591 40.000 0.00 0.00 39.69 3.82
561 581 5.408299 CAGAACGAAATAACAGGATGACACA 59.592 40.000 0.00 0.00 39.69 3.72
562 582 5.671329 GCAGAACGAAATAACAGGATGACAC 60.671 44.000 0.00 0.00 39.69 3.67
563 583 4.391830 GCAGAACGAAATAACAGGATGACA 59.608 41.667 0.00 0.00 39.69 3.58
564 584 4.391830 TGCAGAACGAAATAACAGGATGAC 59.608 41.667 0.00 0.00 39.69 3.06
565 585 4.574892 TGCAGAACGAAATAACAGGATGA 58.425 39.130 0.00 0.00 39.69 2.92
566 586 4.944962 TGCAGAACGAAATAACAGGATG 57.055 40.909 0.00 0.00 46.00 3.51
567 587 5.003804 ACTTGCAGAACGAAATAACAGGAT 58.996 37.500 0.00 0.00 0.00 3.24
568 588 4.385825 ACTTGCAGAACGAAATAACAGGA 58.614 39.130 0.00 0.00 0.00 3.86
569 589 4.378459 GGACTTGCAGAACGAAATAACAGG 60.378 45.833 0.00 0.00 0.00 4.00
570 590 4.213270 TGGACTTGCAGAACGAAATAACAG 59.787 41.667 0.00 0.00 0.00 3.16
571 591 4.130857 TGGACTTGCAGAACGAAATAACA 58.869 39.130 0.00 0.00 0.00 2.41
572 592 4.742438 TGGACTTGCAGAACGAAATAAC 57.258 40.909 0.00 0.00 0.00 1.89
573 593 5.698832 CAATGGACTTGCAGAACGAAATAA 58.301 37.500 0.00 0.00 0.00 1.40
574 594 5.295431 CAATGGACTTGCAGAACGAAATA 57.705 39.130 0.00 0.00 0.00 1.40
575 595 4.164822 CAATGGACTTGCAGAACGAAAT 57.835 40.909 0.00 0.00 0.00 2.17
576 596 3.624326 CAATGGACTTGCAGAACGAAA 57.376 42.857 0.00 0.00 0.00 3.46
586 606 1.164411 TTACTGGCGCAATGGACTTG 58.836 50.000 10.83 0.00 37.94 3.16
587 607 2.128771 ATTACTGGCGCAATGGACTT 57.871 45.000 10.83 0.00 0.00 3.01
588 608 2.170607 ACTATTACTGGCGCAATGGACT 59.829 45.455 10.83 0.00 0.00 3.85
589 609 2.287915 CACTATTACTGGCGCAATGGAC 59.712 50.000 10.83 0.00 0.00 4.02
590 610 2.093181 ACACTATTACTGGCGCAATGGA 60.093 45.455 10.83 0.00 0.00 3.41
591 611 2.288666 ACACTATTACTGGCGCAATGG 58.711 47.619 10.83 4.76 0.00 3.16
592 612 3.623060 AGAACACTATTACTGGCGCAATG 59.377 43.478 10.83 0.00 0.00 2.82
593 613 3.623060 CAGAACACTATTACTGGCGCAAT 59.377 43.478 10.83 2.33 0.00 3.56
594 614 3.000041 CAGAACACTATTACTGGCGCAA 59.000 45.455 10.83 0.00 0.00 4.85
595 615 2.616960 CAGAACACTATTACTGGCGCA 58.383 47.619 10.83 0.00 0.00 6.09
596 616 1.327764 GCAGAACACTATTACTGGCGC 59.672 52.381 0.00 0.00 0.00 6.53
597 617 2.616960 TGCAGAACACTATTACTGGCG 58.383 47.619 0.00 0.00 0.00 5.69
598 618 4.003648 ACTTGCAGAACACTATTACTGGC 58.996 43.478 0.00 0.00 0.00 4.85
599 619 4.631813 GGACTTGCAGAACACTATTACTGG 59.368 45.833 0.00 0.00 0.00 4.00
600 620 5.237815 TGGACTTGCAGAACACTATTACTG 58.762 41.667 0.00 0.00 0.00 2.74
601 621 5.483685 TGGACTTGCAGAACACTATTACT 57.516 39.130 0.00 0.00 0.00 2.24
602 622 6.546395 CAATGGACTTGCAGAACACTATTAC 58.454 40.000 0.00 0.00 0.00 1.89
603 623 6.741992 CAATGGACTTGCAGAACACTATTA 57.258 37.500 0.00 0.00 0.00 0.98
604 624 5.633830 CAATGGACTTGCAGAACACTATT 57.366 39.130 0.00 0.00 0.00 1.73
616 636 1.164411 TTACTGGCGCAATGGACTTG 58.836 50.000 10.83 0.00 37.94 3.16
617 637 2.128771 ATTACTGGCGCAATGGACTT 57.871 45.000 10.83 0.00 0.00 3.01
618 638 2.170607 ACTATTACTGGCGCAATGGACT 59.829 45.455 10.83 0.00 0.00 3.85
619 639 2.544267 GACTATTACTGGCGCAATGGAC 59.456 50.000 10.83 0.00 0.00 4.02
620 640 2.484770 GGACTATTACTGGCGCAATGGA 60.485 50.000 10.83 0.00 0.00 3.41
621 641 1.873591 GGACTATTACTGGCGCAATGG 59.126 52.381 10.83 4.76 0.00 3.16
622 642 1.873591 GGGACTATTACTGGCGCAATG 59.126 52.381 10.83 0.00 0.00 2.82
623 643 1.768870 AGGGACTATTACTGGCGCAAT 59.231 47.619 10.83 2.33 36.02 3.56
624 644 1.200519 AGGGACTATTACTGGCGCAA 58.799 50.000 10.83 0.00 36.02 4.85
625 645 1.138266 GAAGGGACTATTACTGGCGCA 59.862 52.381 10.83 0.00 38.49 6.09
626 646 1.867166 GAAGGGACTATTACTGGCGC 58.133 55.000 0.00 0.00 38.49 6.53
627 647 1.407979 ACGAAGGGACTATTACTGGCG 59.592 52.381 0.00 0.00 38.49 5.69
628 648 4.660789 TTACGAAGGGACTATTACTGGC 57.339 45.455 0.00 0.00 38.49 4.85
629 649 6.218108 AGTTTACGAAGGGACTATTACTGG 57.782 41.667 0.00 0.00 38.49 4.00
638 658 8.358895 AGCTCTTATATTAGTTTACGAAGGGAC 58.641 37.037 0.00 0.00 0.00 4.46
639 659 8.358148 CAGCTCTTATATTAGTTTACGAAGGGA 58.642 37.037 0.00 0.00 0.00 4.20
640 660 7.599245 CCAGCTCTTATATTAGTTTACGAAGGG 59.401 40.741 0.00 0.00 0.00 3.95
641 661 8.142551 ACCAGCTCTTATATTAGTTTACGAAGG 58.857 37.037 0.00 0.00 0.00 3.46
642 662 9.530633 AACCAGCTCTTATATTAGTTTACGAAG 57.469 33.333 0.00 0.00 0.00 3.79
643 663 9.309516 CAACCAGCTCTTATATTAGTTTACGAA 57.690 33.333 0.00 0.00 0.00 3.85
644 664 7.924412 CCAACCAGCTCTTATATTAGTTTACGA 59.076 37.037 0.00 0.00 0.00 3.43
645 665 7.709613 ACCAACCAGCTCTTATATTAGTTTACG 59.290 37.037 0.00 0.00 0.00 3.18
646 666 8.827677 CACCAACCAGCTCTTATATTAGTTTAC 58.172 37.037 0.00 0.00 0.00 2.01
647 667 8.764558 TCACCAACCAGCTCTTATATTAGTTTA 58.235 33.333 0.00 0.00 0.00 2.01
648 668 7.630082 TCACCAACCAGCTCTTATATTAGTTT 58.370 34.615 0.00 0.00 0.00 2.66
649 669 7.125811 TCTCACCAACCAGCTCTTATATTAGTT 59.874 37.037 0.00 0.00 0.00 2.24
650 670 6.611642 TCTCACCAACCAGCTCTTATATTAGT 59.388 38.462 0.00 0.00 0.00 2.24
651 671 6.926272 GTCTCACCAACCAGCTCTTATATTAG 59.074 42.308 0.00 0.00 0.00 1.73
652 672 6.461092 CGTCTCACCAACCAGCTCTTATATTA 60.461 42.308 0.00 0.00 0.00 0.98
653 673 5.675538 GTCTCACCAACCAGCTCTTATATT 58.324 41.667 0.00 0.00 0.00 1.28
654 674 4.202161 CGTCTCACCAACCAGCTCTTATAT 60.202 45.833 0.00 0.00 0.00 0.86
655 675 3.130516 CGTCTCACCAACCAGCTCTTATA 59.869 47.826 0.00 0.00 0.00 0.98
656 676 2.093973 CGTCTCACCAACCAGCTCTTAT 60.094 50.000 0.00 0.00 0.00 1.73
657 677 1.272490 CGTCTCACCAACCAGCTCTTA 59.728 52.381 0.00 0.00 0.00 2.10
658 678 0.034059 CGTCTCACCAACCAGCTCTT 59.966 55.000 0.00 0.00 0.00 2.85
659 679 1.115930 ACGTCTCACCAACCAGCTCT 61.116 55.000 0.00 0.00 0.00 4.09
660 680 0.946221 CACGTCTCACCAACCAGCTC 60.946 60.000 0.00 0.00 0.00 4.09
661 681 1.069765 CACGTCTCACCAACCAGCT 59.930 57.895 0.00 0.00 0.00 4.24
662 682 1.961277 CCACGTCTCACCAACCAGC 60.961 63.158 0.00 0.00 0.00 4.85
743 763 3.952628 GAGTAGTGTGGGTGGCGGC 62.953 68.421 0.00 0.00 0.00 6.53
758 778 4.505742 GGAGGTTGATTTGAGGACTTGAGT 60.506 45.833 0.00 0.00 0.00 3.41
800 823 0.250513 GGAGGATGAGGCGTCTTTGT 59.749 55.000 8.06 0.00 0.00 2.83
974 1000 7.998580 AGCTATATATACTACCTCCTTTTCGC 58.001 38.462 0.00 0.00 0.00 4.70
990 1016 7.761704 CGAGAGCAACAAACCATAGCTATATAT 59.238 37.037 5.77 0.00 35.36 0.86
991 1017 7.090808 CGAGAGCAACAAACCATAGCTATATA 58.909 38.462 5.77 0.00 35.36 0.86
992 1018 5.928839 CGAGAGCAACAAACCATAGCTATAT 59.071 40.000 5.77 0.00 35.36 0.86
1059 1085 1.670590 GAGGATGGCGATGAGGAGG 59.329 63.158 0.00 0.00 0.00 4.30
1072 1098 0.757188 AGCGAGGATTGGACGAGGAT 60.757 55.000 0.00 0.00 0.00 3.24
1292 1318 1.218196 TCTCCCTCTCACCCAGGATAC 59.782 57.143 0.00 0.00 31.91 2.24
1461 1507 0.608640 TTCCTTTCTCCTCGACCAGC 59.391 55.000 0.00 0.00 0.00 4.85
1513 1559 6.128145 GGGCGTACTATACCTAGCTAACTAAC 60.128 46.154 0.00 0.00 0.00 2.34
1622 1671 4.780275 AGAAGAAGCAAAATGAGAAGCC 57.220 40.909 0.00 0.00 0.00 4.35
1623 1672 6.011476 AGAAGAAGAAGCAAAATGAGAAGC 57.989 37.500 0.00 0.00 0.00 3.86
1635 1684 3.589988 TCCATCGTGAAGAAGAAGAAGC 58.410 45.455 0.00 0.00 0.00 3.86
1669 1718 5.419788 TCCCTTTACTCTATCGCAACAACTA 59.580 40.000 0.00 0.00 0.00 2.24
1692 1741 1.663702 CACCACGGACGTTGACCTC 60.664 63.158 2.84 0.00 0.00 3.85
1707 1756 2.126346 GCAGGCGCATTTGTCACC 60.126 61.111 10.83 0.00 38.36 4.02
1743 1792 3.244700 TGGAAGAAGAAGAAGAAGCCCAG 60.245 47.826 0.00 0.00 0.00 4.45
1746 1795 3.128415 GCATGGAAGAAGAAGAAGAAGCC 59.872 47.826 0.00 0.00 0.00 4.35
1802 1872 0.929824 CAACGAGTTTTGCAGCACGG 60.930 55.000 0.00 1.66 0.00 4.94
1809 1879 4.143535 GGTACTACGTACAACGAGTTTTGC 60.144 45.833 6.44 0.00 46.05 3.68
1812 1882 4.275936 ACTGGTACTACGTACAACGAGTTT 59.724 41.667 6.44 0.00 46.05 2.66
1832 1902 1.670087 GGATCGTCCACACTGACACTG 60.670 57.143 0.00 0.00 36.28 3.66
1833 1903 0.603569 GGATCGTCCACACTGACACT 59.396 55.000 0.00 0.00 36.28 3.55
1834 1904 0.389948 GGGATCGTCCACACTGACAC 60.390 60.000 6.41 0.00 38.64 3.67
1835 1905 0.830023 TGGGATCGTCCACACTGACA 60.830 55.000 6.41 0.00 38.64 3.58
1836 1906 0.537188 ATGGGATCGTCCACACTGAC 59.463 55.000 6.41 0.00 39.97 3.51
1837 1907 0.824109 GATGGGATCGTCCACACTGA 59.176 55.000 6.41 0.00 39.97 3.41
1968 2041 7.511809 CTGGAAGTTTGTTTCTTTGTTTCTC 57.488 36.000 0.00 0.00 0.00 2.87
2008 2081 4.152045 GGCAATATCTGAAATCGAGCAGAG 59.848 45.833 16.96 7.87 43.65 3.35
2009 2082 4.060900 GGCAATATCTGAAATCGAGCAGA 58.939 43.478 15.06 15.06 44.43 4.26
2051 2127 8.591940 TCCAGATCTGACCTAATTGAATATGAG 58.408 37.037 24.62 0.62 0.00 2.90
2052 2128 8.496534 TCCAGATCTGACCTAATTGAATATGA 57.503 34.615 24.62 3.82 0.00 2.15
2105 2197 3.097910 CAATTGCCGCGTTACAATACTG 58.902 45.455 16.43 10.31 35.49 2.74
2119 2211 5.075858 TCAAACAAGGATCATCAATTGCC 57.924 39.130 0.00 0.00 0.00 4.52
2144 2236 1.902938 TGGACAACGGAATTGATGCA 58.097 45.000 0.00 0.00 41.23 3.96


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

AutoCloner maintained by Alex Coulton.