Multiple sequence alignment - TraesCS3B01G329200

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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 TraesCS3B01G329200 chr3B 100.000 3323 0 0 1 3323 532023947 532020625 0.000000e+00 6137.0
1 TraesCS3B01G329200 chr3B 96.429 56 2 0 2955 3010 532020932 532020877 3.530000e-15 93.5
2 TraesCS3B01G329200 chr3B 96.429 56 2 0 3016 3071 532020993 532020938 3.530000e-15 93.5
3 TraesCS3B01G329200 chr3D 91.652 2348 97 42 512 2791 405843037 405840721 0.000000e+00 3158.0
4 TraesCS3B01G329200 chr3D 92.157 510 29 8 2816 3314 405840733 405840224 0.000000e+00 710.0
5 TraesCS3B01G329200 chr3D 90.034 291 10 10 1 280 405851031 405850749 3.150000e-95 359.0
6 TraesCS3B01G329200 chr3D 98.214 56 1 0 3016 3071 405840594 405840539 7.590000e-17 99.0
7 TraesCS3B01G329200 chr3A 90.812 2155 115 46 560 2672 528557109 528554996 0.000000e+00 2806.0
8 TraesCS3B01G329200 chr3A 81.609 435 46 18 2914 3323 528554982 528554557 2.470000e-86 329.0
9 TraesCS3B01G329200 chr3A 85.417 288 22 11 4 280 528557633 528557355 7.020000e-72 281.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G329200 chr3B 532020625 532023947 3322 True 2108.000000 6137 97.619333 1 3323 3 chr3B.!!$R1 3322
1 TraesCS3B01G329200 chr3D 405840224 405843037 2813 True 1322.333333 3158 94.007667 512 3314 3 chr3D.!!$R2 2802
2 TraesCS3B01G329200 chr3A 528554557 528557633 3076 True 1138.666667 2806 85.946000 4 3323 3 chr3A.!!$R1 3319

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
481 532 0.105760 ACATGAACCCAAACCCAGCA 60.106 50.0 0.00 0.00 0.00 4.41 F
499 550 0.251077 CACAGCAGAGGCCTCCTTTT 60.251 55.0 29.54 7.91 42.56 2.27 F
500 551 0.251077 ACAGCAGAGGCCTCCTTTTG 60.251 55.0 29.54 21.03 42.56 2.44 F
502 553 0.480252 AGCAGAGGCCTCCTTTTGTT 59.520 50.0 29.54 15.77 42.56 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1291 1405 0.107456 ATGGCGAGCATAACCAGAGG 59.893 55.0 0.00 0.00 36.78 3.69 R
1543 1659 0.109873 TTCTTCTCGTCTTCGACCGC 60.110 55.0 0.00 0.00 41.35 5.68 R
1860 1994 0.911045 TCTCCTTGGCCATCAGCTGA 60.911 55.0 20.79 20.79 43.05 4.26 R
2385 2523 1.002366 GCGAACTGCGAATCTGTGAT 58.998 50.0 0.00 0.00 44.57 3.06 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
23 24 1.609210 TGAGCATCACCCTGTCCGA 60.609 57.895 0.00 0.00 42.56 4.55
24 25 0.977627 TGAGCATCACCCTGTCCGAT 60.978 55.000 0.00 0.00 42.56 4.18
25 26 1.040646 GAGCATCACCCTGTCCGATA 58.959 55.000 0.00 0.00 33.17 2.92
26 27 1.620819 GAGCATCACCCTGTCCGATAT 59.379 52.381 0.00 0.00 33.17 1.63
28 29 3.239449 AGCATCACCCTGTCCGATATTA 58.761 45.455 0.00 0.00 0.00 0.98
29 30 3.006967 AGCATCACCCTGTCCGATATTAC 59.993 47.826 0.00 0.00 0.00 1.89
30 31 3.006967 GCATCACCCTGTCCGATATTACT 59.993 47.826 0.00 0.00 0.00 2.24
31 32 4.810790 CATCACCCTGTCCGATATTACTC 58.189 47.826 0.00 0.00 0.00 2.59
32 33 2.882761 TCACCCTGTCCGATATTACTCG 59.117 50.000 0.00 0.00 38.37 4.18
75 78 1.730064 CGGAATCCGTCACGTCAAAAT 59.270 47.619 14.46 0.00 42.73 1.82
79 82 0.668096 TCCGTCACGTCAAAATCCCG 60.668 55.000 0.00 0.00 0.00 5.14
81 84 1.141645 CGTCACGTCAAAATCCCGAA 58.858 50.000 0.00 0.00 0.00 4.30
95 108 2.483745 CGAAGCGCTGGTACGAGA 59.516 61.111 12.58 0.00 34.06 4.04
96 109 1.583967 CGAAGCGCTGGTACGAGAG 60.584 63.158 12.58 6.67 34.06 3.20
99 112 2.272918 AAGCGCTGGTACGAGAGCTC 62.273 60.000 30.09 12.87 46.97 4.09
100 113 2.766400 GCGCTGGTACGAGAGCTCT 61.766 63.158 22.80 18.28 36.00 4.09
101 114 1.437772 GCGCTGGTACGAGAGCTCTA 61.438 60.000 22.80 0.00 36.00 2.43
102 115 1.231221 CGCTGGTACGAGAGCTCTAT 58.769 55.000 18.25 10.81 32.70 1.98
120 133 2.401583 ATTTGCTCACCAGATGCGTA 57.598 45.000 0.00 0.00 0.00 4.42
129 142 1.269778 ACCAGATGCGTATCCGTGATG 60.270 52.381 10.09 1.48 36.15 3.07
158 171 1.892209 ATTTCTCCGTCGGCAGTTTT 58.108 45.000 6.34 0.00 0.00 2.43
167 180 0.753479 TCGGCAGTTTTTCCCAAGCA 60.753 50.000 0.00 0.00 0.00 3.91
192 205 1.374758 CAGTCACGGAGGAAGCCAC 60.375 63.158 0.00 0.00 0.00 5.01
202 215 2.431683 GAAGCCACCTCTGTGCCA 59.568 61.111 0.00 0.00 41.35 4.92
203 216 1.968540 GAAGCCACCTCTGTGCCAC 60.969 63.158 0.00 0.00 41.35 5.01
204 217 3.497884 AAGCCACCTCTGTGCCACC 62.498 63.158 0.00 0.00 41.35 4.61
206 219 3.941188 CCACCTCTGTGCCACCGT 61.941 66.667 0.00 0.00 41.35 4.83
207 220 2.579657 CCACCTCTGTGCCACCGTA 61.580 63.158 0.00 0.00 41.35 4.02
208 221 1.079819 CACCTCTGTGCCACCGTAG 60.080 63.158 0.00 0.00 35.31 3.51
264 277 1.030488 ATCACCGACGGTCAGATCGT 61.030 55.000 18.72 8.93 44.03 3.73
359 410 3.068881 CTGGTCCTTTCGCCCTCA 58.931 61.111 0.00 0.00 0.00 3.86
382 433 3.737172 GCGCCATGGCACGTCTTT 61.737 61.111 34.93 0.00 42.06 2.52
391 442 0.307760 GGCACGTCTTTGAACACAGG 59.692 55.000 0.00 0.00 0.00 4.00
395 446 2.285220 CACGTCTTTGAACACAGGACAG 59.715 50.000 0.00 0.00 0.00 3.51
398 449 1.134521 TCTTTGAACACAGGACAGCGT 60.135 47.619 0.00 0.00 0.00 5.07
416 467 0.526954 GTAGATGCCCCACGTACACG 60.527 60.000 0.00 0.00 46.33 4.49
419 470 4.973055 TGCCCCACGTACACGCAC 62.973 66.667 0.85 0.00 44.43 5.34
421 472 2.047655 CCCCACGTACACGCACAT 60.048 61.111 0.85 0.00 44.43 3.21
422 473 2.387445 CCCCACGTACACGCACATG 61.387 63.158 0.85 0.00 44.43 3.21
436 487 2.579873 GCACATGCATTCATCCCTACT 58.420 47.619 0.00 0.00 41.59 2.57
438 489 3.499918 GCACATGCATTCATCCCTACTAC 59.500 47.826 0.00 0.00 41.59 2.73
439 490 3.742882 CACATGCATTCATCCCTACTACG 59.257 47.826 0.00 0.00 0.00 3.51
441 492 3.728076 TGCATTCATCCCTACTACGAC 57.272 47.619 0.00 0.00 0.00 4.34
442 493 2.034179 TGCATTCATCCCTACTACGACG 59.966 50.000 0.00 0.00 0.00 5.12
443 494 2.292569 GCATTCATCCCTACTACGACGA 59.707 50.000 0.00 0.00 0.00 4.20
444 495 3.243301 GCATTCATCCCTACTACGACGAA 60.243 47.826 0.00 0.00 0.00 3.85
445 496 4.288531 CATTCATCCCTACTACGACGAAC 58.711 47.826 0.00 0.00 0.00 3.95
447 498 1.935873 CATCCCTACTACGACGAACGA 59.064 52.381 0.00 0.00 45.77 3.85
448 499 2.093306 TCCCTACTACGACGAACGAA 57.907 50.000 0.00 0.00 45.77 3.85
449 500 1.732259 TCCCTACTACGACGAACGAAC 59.268 52.381 0.00 0.00 45.77 3.95
450 501 1.527793 CCCTACTACGACGAACGAACG 60.528 57.143 0.00 8.74 45.77 3.95
451 502 1.166950 CTACTACGACGAACGAACGC 58.833 55.000 0.00 0.00 45.77 4.84
452 503 0.516322 TACTACGACGAACGAACGCG 60.516 55.000 3.53 3.53 45.77 6.01
453 504 3.094026 CTACGACGAACGAACGCGC 62.094 63.158 5.73 0.00 45.77 6.86
469 520 4.120331 GCGCCCTGCCACATGAAC 62.120 66.667 0.00 0.00 37.76 3.18
480 531 0.318120 CACATGAACCCAAACCCAGC 59.682 55.000 0.00 0.00 0.00 4.85
481 532 0.105760 ACATGAACCCAAACCCAGCA 60.106 50.000 0.00 0.00 0.00 4.41
483 534 0.105760 ATGAACCCAAACCCAGCACA 60.106 50.000 0.00 0.00 0.00 4.57
484 535 0.754957 TGAACCCAAACCCAGCACAG 60.755 55.000 0.00 0.00 0.00 3.66
486 537 2.521465 CCCAAACCCAGCACAGCA 60.521 61.111 0.00 0.00 0.00 4.41
487 538 2.567497 CCCAAACCCAGCACAGCAG 61.567 63.158 0.00 0.00 0.00 4.24
488 539 1.529010 CCAAACCCAGCACAGCAGA 60.529 57.895 0.00 0.00 0.00 4.26
489 540 1.521450 CCAAACCCAGCACAGCAGAG 61.521 60.000 0.00 0.00 0.00 3.35
490 541 1.228367 AAACCCAGCACAGCAGAGG 60.228 57.895 0.00 0.00 0.00 3.69
491 542 3.857309 AACCCAGCACAGCAGAGGC 62.857 63.158 0.00 0.00 41.61 4.70
493 544 4.031129 CCAGCACAGCAGAGGCCT 62.031 66.667 3.86 3.86 42.56 5.19
494 545 2.436292 CAGCACAGCAGAGGCCTC 60.436 66.667 26.22 26.22 42.56 4.70
495 546 3.715097 AGCACAGCAGAGGCCTCC 61.715 66.667 29.54 15.08 42.56 4.30
496 547 3.715097 GCACAGCAGAGGCCTCCT 61.715 66.667 29.54 17.28 42.56 3.69
497 548 3.076092 CACAGCAGAGGCCTCCTT 58.924 61.111 29.54 12.27 42.56 3.36
498 549 1.377994 CACAGCAGAGGCCTCCTTT 59.622 57.895 29.54 10.45 42.56 3.11
499 550 0.251077 CACAGCAGAGGCCTCCTTTT 60.251 55.000 29.54 7.91 42.56 2.27
500 551 0.251077 ACAGCAGAGGCCTCCTTTTG 60.251 55.000 29.54 21.03 42.56 2.44
501 552 0.251077 CAGCAGAGGCCTCCTTTTGT 60.251 55.000 29.54 6.63 42.56 2.83
502 553 0.480252 AGCAGAGGCCTCCTTTTGTT 59.520 50.000 29.54 15.77 42.56 2.83
503 554 0.884514 GCAGAGGCCTCCTTTTGTTC 59.115 55.000 29.54 5.44 31.76 3.18
504 555 1.546548 GCAGAGGCCTCCTTTTGTTCT 60.547 52.381 29.54 4.11 31.76 3.01
505 556 2.157738 CAGAGGCCTCCTTTTGTTCTG 58.842 52.381 29.54 13.54 31.76 3.02
506 557 2.057922 AGAGGCCTCCTTTTGTTCTGA 58.942 47.619 29.54 0.00 31.76 3.27
507 558 2.646798 AGAGGCCTCCTTTTGTTCTGAT 59.353 45.455 29.54 2.46 31.76 2.90
508 559 3.075134 AGAGGCCTCCTTTTGTTCTGATT 59.925 43.478 29.54 1.96 31.76 2.57
509 560 3.829026 GAGGCCTCCTTTTGTTCTGATTT 59.171 43.478 23.19 0.00 31.76 2.17
510 561 3.575687 AGGCCTCCTTTTGTTCTGATTTG 59.424 43.478 0.00 0.00 0.00 2.32
681 736 1.425428 CCGTTGCTCCAGCGATTTC 59.575 57.895 3.06 0.00 45.83 2.17
795 891 2.440539 GTTTTCCACGAGAGAGCAGA 57.559 50.000 0.00 0.00 0.00 4.26
796 892 2.333014 GTTTTCCACGAGAGAGCAGAG 58.667 52.381 0.00 0.00 0.00 3.35
797 893 1.911057 TTTCCACGAGAGAGCAGAGA 58.089 50.000 0.00 0.00 0.00 3.10
798 894 1.458398 TTCCACGAGAGAGCAGAGAG 58.542 55.000 0.00 0.00 0.00 3.20
1037 1143 2.597510 GCGGTGCCCACTTCCTTT 60.598 61.111 0.00 0.00 0.00 3.11
1280 1394 2.526304 ACGCTGCTGTTTCTCAGTTA 57.474 45.000 0.00 0.00 45.23 2.24
1291 1405 6.454450 GCTGTTTCTCAGTTATTTACGCTCTC 60.454 42.308 0.00 0.00 45.23 3.20
1298 1412 4.024670 AGTTATTTACGCTCTCCTCTGGT 58.975 43.478 0.00 0.00 0.00 4.00
1322 1436 0.933097 CTCGCCATTTGATCTGACGG 59.067 55.000 0.00 0.00 0.00 4.79
1377 1493 4.803426 GTGGCCGAGCTGGAGACG 62.803 72.222 0.00 0.00 42.00 4.18
1380 1496 2.261671 GCCGAGCTGGAGACGAAA 59.738 61.111 0.00 0.00 42.00 3.46
1543 1659 1.834822 CCCTCCCCCGCTCTTCTAG 60.835 68.421 0.00 0.00 0.00 2.43
1581 1697 3.459969 AGAAAACTGAGGAGGTGAAGGTT 59.540 43.478 0.00 0.00 0.00 3.50
1656 1781 1.202604 ACCGATGTGTTTGAGGTCGTT 60.203 47.619 0.00 0.00 0.00 3.85
1722 1847 1.748493 GATGAGAGCGAAGAGGTGAGT 59.252 52.381 0.00 0.00 0.00 3.41
1795 1926 4.135306 CAAGACCATGATTGAGGAGGATG 58.865 47.826 0.00 0.00 0.00 3.51
1835 1969 3.188786 CGGCGGCGAAAAGGAGAG 61.189 66.667 29.19 0.00 0.00 3.20
1843 1977 1.450491 GAAAAGGAGAGCCCGGAGC 60.450 63.158 0.73 4.57 40.87 4.70
1889 2023 0.250513 GCCAAGGAGATGGAAGTCGT 59.749 55.000 0.00 0.00 43.54 4.34
1900 2034 1.573436 GAAGTCGTCGTCCTCACGT 59.427 57.895 0.00 0.00 46.76 4.49
1911 2045 2.100631 CCTCACGTCCGACAATGCC 61.101 63.158 0.00 0.00 0.00 4.40
2378 2516 1.587054 CCCAACGCTCGTCTCTCTT 59.413 57.895 0.00 0.00 0.00 2.85
2379 2517 0.734253 CCCAACGCTCGTCTCTCTTG 60.734 60.000 0.00 0.00 0.00 3.02
2380 2518 0.734253 CCAACGCTCGTCTCTCTTGG 60.734 60.000 0.00 0.00 0.00 3.61
2381 2519 0.241213 CAACGCTCGTCTCTCTTGGA 59.759 55.000 0.00 0.00 0.00 3.53
2382 2520 1.135257 CAACGCTCGTCTCTCTTGGAT 60.135 52.381 0.00 0.00 0.00 3.41
2385 2523 1.107114 GCTCGTCTCTCTTGGATGGA 58.893 55.000 0.00 0.00 0.00 3.41
2394 2532 4.967442 TCTCTCTTGGATGGATCACAGATT 59.033 41.667 0.00 0.00 0.00 2.40
2396 2534 4.056740 CTCTTGGATGGATCACAGATTCG 58.943 47.826 0.00 0.00 0.00 3.34
2490 2637 4.640789 TGTTTACTGCATTTTGGTTCGT 57.359 36.364 0.00 0.00 0.00 3.85
2503 2650 3.936902 TGGTTCGTATTTCGCTTATGC 57.063 42.857 0.00 0.00 39.67 3.14
2518 2665 6.168389 TCGCTTATGCTTGTATGATGATGAT 58.832 36.000 0.00 0.00 36.97 2.45
2519 2666 6.091713 TCGCTTATGCTTGTATGATGATGATG 59.908 38.462 0.00 0.00 36.97 3.07
2520 2667 6.091713 CGCTTATGCTTGTATGATGATGATGA 59.908 38.462 0.00 0.00 36.97 2.92
2521 2668 7.201617 CGCTTATGCTTGTATGATGATGATGAT 60.202 37.037 0.00 0.00 36.97 2.45
2556 2703 5.239306 TGAGATTAAACTCTGTTTGGTGCTG 59.761 40.000 13.24 0.00 37.73 4.41
2571 2718 1.372499 GCTGCCGTCGTGAACTGTA 60.372 57.895 0.00 0.00 0.00 2.74
2578 2725 2.410730 CCGTCGTGAACTGTATTGAACC 59.589 50.000 0.00 0.00 0.00 3.62
2600 2747 3.550678 CGTATGATGATGATCGATGGCTG 59.449 47.826 0.54 0.00 0.00 4.85
2601 2748 1.804601 TGATGATGATCGATGGCTGC 58.195 50.000 0.54 0.00 0.00 5.25
2655 2814 1.006832 CAGTTCGGCGTTATCTTGGG 58.993 55.000 6.85 0.00 0.00 4.12
2669 2828 3.297134 TCTTGGGTTCTGTTGAAGCTT 57.703 42.857 0.00 0.00 46.47 3.74
2674 2833 5.298989 TGGGTTCTGTTGAAGCTTTACTA 57.701 39.130 0.00 0.00 46.47 1.82
2678 2837 5.408909 GGTTCTGTTGAAGCTTTACTAGACC 59.591 44.000 0.00 7.93 44.58 3.85
2682 2841 4.748102 TGTTGAAGCTTTACTAGACCGTTG 59.252 41.667 0.00 0.00 0.00 4.10
2696 2855 0.323629 CCGTTGGCTGTTCTAGGGAA 59.676 55.000 0.00 0.00 0.00 3.97
2698 2857 2.169769 CCGTTGGCTGTTCTAGGGAATA 59.830 50.000 0.00 0.00 33.71 1.75
2739 2898 5.194109 GTCATGATTTGATGCGTGGAACAC 61.194 45.833 0.00 0.00 46.45 3.32
2766 2925 5.125097 ACTGAAATTTCCTGCTGAGCTATTG 59.875 40.000 15.48 0.00 0.00 1.90
2771 2930 6.630444 ATTTCCTGCTGAGCTATTGTAATG 57.370 37.500 5.83 0.00 0.00 1.90
2773 2932 2.222678 CCTGCTGAGCTATTGTAATGCG 59.777 50.000 5.83 0.00 0.00 4.73
2778 2937 3.776340 TGAGCTATTGTAATGCGAACGA 58.224 40.909 0.00 0.00 0.00 3.85
2779 2938 3.796717 TGAGCTATTGTAATGCGAACGAG 59.203 43.478 0.00 0.00 0.00 4.18
2780 2939 4.041740 AGCTATTGTAATGCGAACGAGA 57.958 40.909 0.00 0.00 0.00 4.04
2781 2940 4.621991 AGCTATTGTAATGCGAACGAGAT 58.378 39.130 0.00 0.00 0.00 2.75
2782 2941 5.050490 AGCTATTGTAATGCGAACGAGATT 58.950 37.500 0.00 0.00 0.00 2.40
2783 2942 5.523916 AGCTATTGTAATGCGAACGAGATTT 59.476 36.000 0.00 0.00 0.00 2.17
2784 2943 6.037172 AGCTATTGTAATGCGAACGAGATTTT 59.963 34.615 0.00 0.00 0.00 1.82
2785 2944 6.687105 GCTATTGTAATGCGAACGAGATTTTT 59.313 34.615 0.00 0.00 0.00 1.94
2786 2945 6.853279 ATTGTAATGCGAACGAGATTTTTG 57.147 33.333 0.00 0.00 0.00 2.44
2787 2946 4.155449 TGTAATGCGAACGAGATTTTTGC 58.845 39.130 0.00 0.00 34.39 3.68
2788 2947 2.987413 ATGCGAACGAGATTTTTGCA 57.013 40.000 0.64 0.64 45.36 4.08
2789 2948 2.765108 TGCGAACGAGATTTTTGCAA 57.235 40.000 0.00 0.00 39.85 4.08
2790 2949 3.071786 TGCGAACGAGATTTTTGCAAA 57.928 38.095 8.05 8.05 39.85 3.68
2791 2950 2.786578 TGCGAACGAGATTTTTGCAAAC 59.213 40.909 12.39 0.16 39.85 2.93
2792 2951 2.786578 GCGAACGAGATTTTTGCAAACA 59.213 40.909 12.39 5.81 34.03 2.83
2793 2952 3.121696 GCGAACGAGATTTTTGCAAACAG 60.122 43.478 12.39 2.59 34.03 3.16
2794 2953 4.278858 CGAACGAGATTTTTGCAAACAGA 58.721 39.130 12.39 1.24 0.00 3.41
2795 2954 4.732923 CGAACGAGATTTTTGCAAACAGAA 59.267 37.500 12.39 4.14 0.00 3.02
2796 2955 5.229052 CGAACGAGATTTTTGCAAACAGAAA 59.771 36.000 12.39 3.74 34.70 2.52
2797 2956 6.237437 CGAACGAGATTTTTGCAAACAGAAAA 60.237 34.615 12.39 3.33 33.99 2.29
2798 2957 7.515059 CGAACGAGATTTTTGCAAACAGAAAAT 60.515 33.333 12.39 8.56 33.99 1.82
2799 2958 7.538303 ACGAGATTTTTGCAAACAGAAAATT 57.462 28.000 12.39 0.57 33.99 1.82
2800 2959 7.973601 ACGAGATTTTTGCAAACAGAAAATTT 58.026 26.923 12.39 3.89 33.99 1.82
2801 2960 7.904461 ACGAGATTTTTGCAAACAGAAAATTTG 59.096 29.630 12.39 5.48 39.57 2.32
2802 2961 8.115520 CGAGATTTTTGCAAACAGAAAATTTGA 58.884 29.630 12.39 0.00 39.01 2.69
2803 2962 9.771915 GAGATTTTTGCAAACAGAAAATTTGAA 57.228 25.926 12.39 0.00 39.01 2.69
2806 2965 9.688592 ATTTTTGCAAACAGAAAATTTGAAACA 57.311 22.222 12.39 0.00 39.01 2.83
2807 2966 9.520204 TTTTTGCAAACAGAAAATTTGAAACAA 57.480 22.222 12.39 0.00 39.01 2.83
2808 2967 8.499514 TTTGCAAACAGAAAATTTGAAACAAC 57.500 26.923 8.05 0.00 39.01 3.32
2809 2968 6.302615 TGCAAACAGAAAATTTGAAACAACG 58.697 32.000 1.76 0.00 39.01 4.10
2810 2969 5.732185 GCAAACAGAAAATTTGAAACAACGG 59.268 36.000 1.76 0.00 39.01 4.44
2811 2970 5.463499 AACAGAAAATTTGAAACAACGGC 57.537 34.783 0.00 0.00 0.00 5.68
2812 2971 4.499183 ACAGAAAATTTGAAACAACGGCA 58.501 34.783 0.00 0.00 0.00 5.69
2813 2972 4.932200 ACAGAAAATTTGAAACAACGGCAA 59.068 33.333 0.00 0.00 0.00 4.52
2814 2973 5.409826 ACAGAAAATTTGAAACAACGGCAAA 59.590 32.000 0.00 0.00 36.15 3.68
2856 3015 8.511604 TCTGAAGAATCTGTTATGATTTTCCC 57.488 34.615 0.00 0.00 36.86 3.97
2934 3093 9.638300 GAATACTTCACGATTGTTGATGATTAC 57.362 33.333 0.00 0.00 0.00 1.89
2935 3094 6.094739 ACTTCACGATTGTTGATGATTACG 57.905 37.500 0.00 0.00 0.00 3.18
2978 3137 6.147656 GGTTGTTGATGATGGTTTTGGATTTC 59.852 38.462 0.00 0.00 0.00 2.17
2991 3150 6.239289 GGTTTTGGATTTCTGGATTCAGTTGA 60.239 38.462 0.00 0.00 41.59 3.18
3036 3195 4.081862 CAGTTGTTGATGATGGCTTTGGAT 60.082 41.667 0.00 0.00 0.00 3.41
3046 3205 5.490159 TGATGGCTTTGGATTTTTGGATTC 58.510 37.500 0.00 0.00 0.00 2.52
3167 3341 3.658398 CTGGACCACAGGCTGAAAT 57.342 52.632 23.66 5.09 43.70 2.17
3232 3408 2.143876 AACTGCAAAAGGTGTGAGGT 57.856 45.000 0.00 0.00 0.00 3.85
3256 3432 2.965147 GCCACGCACGAAATCTGCA 61.965 57.895 0.00 0.00 34.00 4.41
3263 3439 2.601979 CGCACGAAATCTGCAAAAGACA 60.602 45.455 0.00 0.00 37.88 3.41
3268 3444 4.451096 ACGAAATCTGCAAAAGACATACGT 59.549 37.500 0.00 0.00 37.88 3.57
3272 3455 2.805671 TCTGCAAAAGACATACGTGTGG 59.194 45.455 17.05 0.00 39.09 4.17
3276 3459 2.467566 AAAGACATACGTGTGGGGTC 57.532 50.000 17.05 5.34 39.09 4.46
3289 3472 1.227556 GGGGTCCGTGAATGATCGG 60.228 63.158 0.00 0.00 46.93 4.18
3292 3475 0.748450 GGTCCGTGAATGATCGGGTA 59.252 55.000 3.85 0.00 45.79 3.69
3314 3500 4.883083 AGTTCAGAGCAAGTGTCGATTAA 58.117 39.130 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 1.612463 GCGAGTAATATCGGACAGGGT 59.388 52.381 0.00 0.00 42.94 4.34
17 18 1.069432 GCGAGCGAGTAATATCGGACA 60.069 52.381 0.00 0.00 42.94 4.02
21 22 1.515172 CGAGCGAGCGAGTAATATCG 58.485 55.000 0.00 0.00 45.48 2.92
23 24 0.875728 AGCGAGCGAGCGAGTAATAT 59.124 50.000 1.41 0.00 43.00 1.28
24 25 0.235144 GAGCGAGCGAGCGAGTAATA 59.765 55.000 1.41 0.00 43.00 0.98
25 26 1.009449 GAGCGAGCGAGCGAGTAAT 60.009 57.895 1.41 0.00 43.00 1.89
26 27 2.403987 GAGCGAGCGAGCGAGTAA 59.596 61.111 1.41 0.00 43.00 2.24
45 48 2.412112 GGATTCCGGACGGACGAG 59.588 66.667 13.76 0.00 45.11 4.18
46 49 3.511595 CGGATTCCGGACGGACGA 61.512 66.667 17.53 0.00 45.11 4.20
61 64 0.668096 TCGGGATTTTGACGTGACGG 60.668 55.000 10.66 0.00 0.00 4.79
75 78 4.124351 CGTACCAGCGCTTCGGGA 62.124 66.667 18.38 6.96 33.91 5.14
79 82 1.874466 GCTCTCGTACCAGCGCTTC 60.874 63.158 7.50 0.00 0.00 3.86
81 84 2.752238 AGCTCTCGTACCAGCGCT 60.752 61.111 2.64 2.64 40.84 5.92
95 108 3.806380 CATCTGGTGAGCAAATAGAGCT 58.194 45.455 0.00 0.00 46.82 4.09
96 109 2.290093 GCATCTGGTGAGCAAATAGAGC 59.710 50.000 0.00 0.00 0.00 4.09
99 112 2.283298 ACGCATCTGGTGAGCAAATAG 58.717 47.619 0.00 0.00 0.00 1.73
100 113 2.401583 ACGCATCTGGTGAGCAAATA 57.598 45.000 0.00 0.00 0.00 1.40
101 114 2.401583 TACGCATCTGGTGAGCAAAT 57.598 45.000 0.00 0.00 0.00 2.32
102 115 2.279741 GATACGCATCTGGTGAGCAAA 58.720 47.619 0.00 0.00 0.00 3.68
129 142 2.871427 CGGAGAAATAGCACCGCGC 61.871 63.158 0.00 0.00 38.98 6.86
139 152 1.892209 AAAACTGCCGACGGAGAAAT 58.108 45.000 20.50 0.00 0.00 2.17
158 171 0.396974 ACTGTTTGGCTGCTTGGGAA 60.397 50.000 0.00 0.00 0.00 3.97
167 180 1.071471 CCTCCGTGACTGTTTGGCT 59.929 57.895 0.00 0.00 0.00 4.75
192 205 1.215647 GTCTACGGTGGCACAGAGG 59.784 63.158 24.38 14.89 41.80 3.69
205 218 2.334838 CTTGCTTGTGGTACGGTCTAC 58.665 52.381 0.00 0.00 0.00 2.59
206 219 1.274167 CCTTGCTTGTGGTACGGTCTA 59.726 52.381 0.00 0.00 0.00 2.59
207 220 0.034896 CCTTGCTTGTGGTACGGTCT 59.965 55.000 0.00 0.00 0.00 3.85
208 221 0.034337 TCCTTGCTTGTGGTACGGTC 59.966 55.000 0.00 0.00 0.00 4.79
239 252 0.891904 TGACCGTCGGTGATCACTCA 60.892 55.000 24.45 16.03 35.25 3.41
280 293 3.621794 CAACTTGCACGAAAAAGAGGAG 58.378 45.455 0.00 0.00 0.00 3.69
281 294 2.223479 GCAACTTGCACGAAAAAGAGGA 60.223 45.455 8.97 0.00 44.26 3.71
375 426 2.550978 CTGTCCTGTGTTCAAAGACGT 58.449 47.619 0.00 0.00 32.76 4.34
376 427 1.261619 GCTGTCCTGTGTTCAAAGACG 59.738 52.381 0.00 0.00 32.76 4.18
377 428 1.261619 CGCTGTCCTGTGTTCAAAGAC 59.738 52.381 0.00 0.00 0.00 3.01
378 429 1.134521 ACGCTGTCCTGTGTTCAAAGA 60.135 47.619 0.00 0.00 0.00 2.52
382 433 1.324383 TCTACGCTGTCCTGTGTTCA 58.676 50.000 0.00 0.00 32.52 3.18
391 442 1.521681 GTGGGGCATCTACGCTGTC 60.522 63.158 0.00 0.00 0.00 3.51
395 446 1.590792 GTACGTGGGGCATCTACGC 60.591 63.158 13.32 0.00 41.19 4.42
398 449 1.811195 CGTGTACGTGGGGCATCTA 59.189 57.895 0.00 0.00 34.11 1.98
404 455 2.047655 ATGTGCGTGTACGTGGGG 60.048 61.111 0.00 0.00 42.22 4.96
405 456 3.022401 GCATGTGCGTGTACGTGGG 62.022 63.158 11.41 0.00 42.22 4.61
406 457 1.634757 ATGCATGTGCGTGTACGTGG 61.635 55.000 0.00 0.00 45.83 4.94
416 467 2.579873 AGTAGGGATGAATGCATGTGC 58.420 47.619 0.00 0.00 42.50 4.57
419 470 3.990469 GTCGTAGTAGGGATGAATGCATG 59.010 47.826 0.00 0.00 34.11 4.06
421 472 2.034179 CGTCGTAGTAGGGATGAATGCA 59.966 50.000 0.00 0.00 0.00 3.96
422 473 2.292569 TCGTCGTAGTAGGGATGAATGC 59.707 50.000 0.00 0.00 0.00 3.56
436 487 3.158813 GCGCGTTCGTTCGTCGTA 61.159 61.111 8.43 0.00 40.80 3.43
452 503 4.120331 GTTCATGTGGCAGGGCGC 62.120 66.667 0.00 0.00 41.28 6.53
453 504 3.443045 GGTTCATGTGGCAGGGCG 61.443 66.667 0.00 0.00 0.00 6.13
454 505 3.070576 GGGTTCATGTGGCAGGGC 61.071 66.667 0.00 0.00 0.00 5.19
455 506 0.831288 TTTGGGTTCATGTGGCAGGG 60.831 55.000 0.00 0.00 0.00 4.45
465 516 0.754957 CTGTGCTGGGTTTGGGTTCA 60.755 55.000 0.00 0.00 0.00 3.18
469 520 2.521465 TGCTGTGCTGGGTTTGGG 60.521 61.111 0.00 0.00 0.00 4.12
480 531 0.251077 AAAAGGAGGCCTCTGCTGTG 60.251 55.000 31.36 0.00 40.96 3.66
481 532 0.251077 CAAAAGGAGGCCTCTGCTGT 60.251 55.000 31.36 14.07 40.96 4.40
483 534 0.480252 AACAAAAGGAGGCCTCTGCT 59.520 50.000 31.36 18.61 43.81 4.24
484 535 0.884514 GAACAAAAGGAGGCCTCTGC 59.115 55.000 31.36 16.52 30.89 4.26
486 537 2.057922 TCAGAACAAAAGGAGGCCTCT 58.942 47.619 31.36 15.27 30.89 3.69
487 538 2.568623 TCAGAACAAAAGGAGGCCTC 57.431 50.000 25.59 25.59 30.89 4.70
488 539 3.532641 AATCAGAACAAAAGGAGGCCT 57.467 42.857 3.86 3.86 33.87 5.19
489 540 3.321968 ACAAATCAGAACAAAAGGAGGCC 59.678 43.478 0.00 0.00 0.00 5.19
490 541 4.590850 ACAAATCAGAACAAAAGGAGGC 57.409 40.909 0.00 0.00 0.00 4.70
491 542 6.818142 ACAAAACAAATCAGAACAAAAGGAGG 59.182 34.615 0.00 0.00 0.00 4.30
492 543 7.832503 ACAAAACAAATCAGAACAAAAGGAG 57.167 32.000 0.00 0.00 0.00 3.69
493 544 8.614469 AAACAAAACAAATCAGAACAAAAGGA 57.386 26.923 0.00 0.00 0.00 3.36
494 545 9.676195 AAAAACAAAACAAATCAGAACAAAAGG 57.324 25.926 0.00 0.00 0.00 3.11
498 549 8.722394 GGGTAAAAACAAAACAAATCAGAACAA 58.278 29.630 0.00 0.00 0.00 2.83
499 550 7.063544 CGGGTAAAAACAAAACAAATCAGAACA 59.936 33.333 0.00 0.00 0.00 3.18
500 551 7.395645 CGGGTAAAAACAAAACAAATCAGAAC 58.604 34.615 0.00 0.00 0.00 3.01
501 552 6.535508 CCGGGTAAAAACAAAACAAATCAGAA 59.464 34.615 0.00 0.00 0.00 3.02
502 553 6.043411 CCGGGTAAAAACAAAACAAATCAGA 58.957 36.000 0.00 0.00 0.00 3.27
503 554 5.813157 ACCGGGTAAAAACAAAACAAATCAG 59.187 36.000 6.32 0.00 0.00 2.90
504 555 5.731591 ACCGGGTAAAAACAAAACAAATCA 58.268 33.333 6.32 0.00 0.00 2.57
505 556 6.535865 AGAACCGGGTAAAAACAAAACAAATC 59.464 34.615 6.32 0.00 0.00 2.17
506 557 6.408035 AGAACCGGGTAAAAACAAAACAAAT 58.592 32.000 6.32 0.00 0.00 2.32
507 558 5.791666 AGAACCGGGTAAAAACAAAACAAA 58.208 33.333 6.32 0.00 0.00 2.83
508 559 5.402997 AGAACCGGGTAAAAACAAAACAA 57.597 34.783 6.32 0.00 0.00 2.83
509 560 5.651576 ACTAGAACCGGGTAAAAACAAAACA 59.348 36.000 6.32 0.00 0.00 2.83
510 561 6.135290 ACTAGAACCGGGTAAAAACAAAAC 57.865 37.500 6.32 0.00 0.00 2.43
584 635 2.425592 CTCGACTGGTTGGTGGCA 59.574 61.111 0.00 0.00 0.00 4.92
681 736 5.041951 TCAAATTTGAACGGGAGAAATCG 57.958 39.130 18.45 0.00 33.55 3.34
792 888 1.510383 CACCGCTCCACTCTCTCTG 59.490 63.158 0.00 0.00 0.00 3.35
793 889 1.680651 CCACCGCTCCACTCTCTCT 60.681 63.158 0.00 0.00 0.00 3.10
794 890 1.679305 TCCACCGCTCCACTCTCTC 60.679 63.158 0.00 0.00 0.00 3.20
795 891 1.979693 GTCCACCGCTCCACTCTCT 60.980 63.158 0.00 0.00 0.00 3.10
796 892 1.979693 AGTCCACCGCTCCACTCTC 60.980 63.158 0.00 0.00 0.00 3.20
797 893 2.118513 AGTCCACCGCTCCACTCT 59.881 61.111 0.00 0.00 0.00 3.24
798 894 2.262915 CAGTCCACCGCTCCACTC 59.737 66.667 0.00 0.00 0.00 3.51
824 920 0.244178 AAAAGGAGTCGAGCCTCGTC 59.756 55.000 14.64 8.77 41.35 4.20
825 921 0.244178 GAAAAGGAGTCGAGCCTCGT 59.756 55.000 14.64 0.00 41.35 4.18
826 922 0.528470 AGAAAAGGAGTCGAGCCTCG 59.472 55.000 8.05 8.05 42.10 4.63
827 923 1.822371 AGAGAAAAGGAGTCGAGCCTC 59.178 52.381 7.19 0.99 33.76 4.70
828 924 1.931635 AGAGAAAAGGAGTCGAGCCT 58.068 50.000 0.95 0.95 37.35 4.58
829 925 2.753055 AAGAGAAAAGGAGTCGAGCC 57.247 50.000 0.00 0.00 0.00 4.70
830 926 3.920446 AGAAAGAGAAAAGGAGTCGAGC 58.080 45.455 0.00 0.00 0.00 5.03
831 927 4.162812 CGAGAAAGAGAAAAGGAGTCGAG 58.837 47.826 0.00 0.00 0.00 4.04
832 928 3.612004 GCGAGAAAGAGAAAAGGAGTCGA 60.612 47.826 0.00 0.00 0.00 4.20
833 929 2.664085 GCGAGAAAGAGAAAAGGAGTCG 59.336 50.000 0.00 0.00 0.00 4.18
1059 1169 1.679977 GGCATGGCTCAGCAAGGAA 60.680 57.895 12.86 0.00 0.00 3.36
1196 1310 3.112709 GCTGCTCCGGTCGACAAC 61.113 66.667 18.91 0.00 0.00 3.32
1280 1394 4.740934 GCATAACCAGAGGAGAGCGTAAAT 60.741 45.833 0.00 0.00 0.00 1.40
1291 1405 0.107456 ATGGCGAGCATAACCAGAGG 59.893 55.000 0.00 0.00 36.78 3.69
1298 1412 3.561310 GTCAGATCAAATGGCGAGCATAA 59.439 43.478 0.00 0.00 0.00 1.90
1328 1442 0.457337 GCGCTTCTTCTGCAAATGGG 60.457 55.000 0.00 0.00 0.00 4.00
1365 1481 0.734253 CCAGTTTCGTCTCCAGCTCG 60.734 60.000 0.00 0.00 0.00 5.03
1377 1493 0.895559 CCTGCACCTTCCCCAGTTTC 60.896 60.000 0.00 0.00 0.00 2.78
1380 1496 2.121963 TCCTGCACCTTCCCCAGT 60.122 61.111 0.00 0.00 0.00 4.00
1538 1654 0.725686 CTCGTCTTCGACCGCTAGAA 59.274 55.000 0.00 0.00 41.35 2.10
1543 1659 0.109873 TTCTTCTCGTCTTCGACCGC 60.110 55.000 0.00 0.00 41.35 5.68
1581 1697 2.975799 GCCGCCGGTTCTTCAACA 60.976 61.111 4.45 0.00 33.70 3.33
1609 1731 2.559440 GGAGTTTATGCTGCTCTCCTG 58.441 52.381 0.00 0.00 40.78 3.86
1704 1829 1.270826 CAACTCACCTCTTCGCTCTCA 59.729 52.381 0.00 0.00 0.00 3.27
1707 1832 1.423395 CACAACTCACCTCTTCGCTC 58.577 55.000 0.00 0.00 0.00 5.03
1713 1838 2.088104 TGTCTCCACAACTCACCTCT 57.912 50.000 0.00 0.00 0.00 3.69
1722 1847 2.281484 GCCGCCTTGTCTCCACAA 60.281 61.111 0.00 0.00 40.40 3.33
1860 1994 0.911045 TCTCCTTGGCCATCAGCTGA 60.911 55.000 20.79 20.79 43.05 4.26
1900 2034 2.166130 TTGAGCTCGGCATTGTCGGA 62.166 55.000 11.21 0.00 0.00 4.55
2241 2378 4.452733 CTGCCGAACCCCTCGTCC 62.453 72.222 0.00 0.00 46.65 4.79
2378 2516 1.485895 TGCGAATCTGTGATCCATCCA 59.514 47.619 0.00 0.00 0.00 3.41
2379 2517 2.141517 CTGCGAATCTGTGATCCATCC 58.858 52.381 0.00 0.00 0.00 3.51
2380 2518 2.831333 ACTGCGAATCTGTGATCCATC 58.169 47.619 0.00 0.00 0.00 3.51
2381 2519 2.996249 ACTGCGAATCTGTGATCCAT 57.004 45.000 0.00 0.00 0.00 3.41
2382 2520 2.621338 GAACTGCGAATCTGTGATCCA 58.379 47.619 0.00 0.00 0.00 3.41
2385 2523 1.002366 GCGAACTGCGAATCTGTGAT 58.998 50.000 0.00 0.00 44.57 3.06
2518 2665 9.249457 GAGTTTAATCTCACGAACATCATATCA 57.751 33.333 8.40 0.00 34.88 2.15
2519 2666 9.469807 AGAGTTTAATCTCACGAACATCATATC 57.530 33.333 14.47 0.00 36.97 1.63
2520 2667 9.254133 CAGAGTTTAATCTCACGAACATCATAT 57.746 33.333 14.47 0.00 36.97 1.78
2521 2668 8.251026 ACAGAGTTTAATCTCACGAACATCATA 58.749 33.333 14.47 0.00 36.97 2.15
2556 2703 1.705256 TCAATACAGTTCACGACGGC 58.295 50.000 0.00 0.00 0.00 5.68
2571 2718 5.783111 TCGATCATCATCATACGGTTCAAT 58.217 37.500 0.00 0.00 0.00 2.57
2578 2725 3.550678 CAGCCATCGATCATCATCATACG 59.449 47.826 0.00 0.00 0.00 3.06
2601 2748 2.167219 GCAGCAGCAATGCAGCATG 61.167 57.895 23.83 18.25 43.44 4.06
2655 2814 5.118817 CGGTCTAGTAAAGCTTCAACAGAAC 59.881 44.000 0.00 8.81 0.00 3.01
2669 2828 2.895404 AGAACAGCCAACGGTCTAGTAA 59.105 45.455 0.00 0.00 0.00 2.24
2674 2833 0.608640 CCTAGAACAGCCAACGGTCT 59.391 55.000 0.00 0.00 0.00 3.85
2678 2837 2.403252 ATTCCCTAGAACAGCCAACG 57.597 50.000 0.00 0.00 33.97 4.10
2682 2841 5.656859 ACCAAAATTATTCCCTAGAACAGCC 59.343 40.000 0.00 0.00 33.97 4.85
2698 2857 9.927668 AATCATGACGAAAAGATTACCAAAATT 57.072 25.926 0.00 0.00 0.00 1.82
2715 2874 1.665169 TCCACGCATCAAATCATGACG 59.335 47.619 0.00 0.00 41.93 4.35
2739 2898 3.669023 GCTCAGCAGGAAATTTCAGTTCG 60.669 47.826 19.49 5.35 0.00 3.95
2766 2925 4.155449 TGCAAAAATCTCGTTCGCATTAC 58.845 39.130 0.00 0.00 0.00 1.89
2771 2930 2.786578 TGTTTGCAAAAATCTCGTTCGC 59.213 40.909 14.67 0.00 0.00 4.70
2773 2932 6.567769 TTTCTGTTTGCAAAAATCTCGTTC 57.432 33.333 14.67 0.00 0.00 3.95
2780 2939 9.688592 TGTTTCAAATTTTCTGTTTGCAAAAAT 57.311 22.222 14.67 6.83 36.69 1.82
2781 2940 9.520204 TTGTTTCAAATTTTCTGTTTGCAAAAA 57.480 22.222 14.67 7.83 36.69 1.94
2782 2941 8.962111 GTTGTTTCAAATTTTCTGTTTGCAAAA 58.038 25.926 14.67 3.77 36.69 2.44
2783 2942 7.322222 CGTTGTTTCAAATTTTCTGTTTGCAAA 59.678 29.630 8.05 8.05 36.69 3.68
2784 2943 6.794158 CGTTGTTTCAAATTTTCTGTTTGCAA 59.206 30.769 0.00 0.00 36.69 4.08
2785 2944 6.302615 CGTTGTTTCAAATTTTCTGTTTGCA 58.697 32.000 0.00 0.00 36.69 4.08
2786 2945 5.732185 CCGTTGTTTCAAATTTTCTGTTTGC 59.268 36.000 0.00 0.00 36.69 3.68
2787 2946 5.732185 GCCGTTGTTTCAAATTTTCTGTTTG 59.268 36.000 0.00 0.00 37.79 2.93
2788 2947 5.409826 TGCCGTTGTTTCAAATTTTCTGTTT 59.590 32.000 0.00 0.00 0.00 2.83
2789 2948 4.932200 TGCCGTTGTTTCAAATTTTCTGTT 59.068 33.333 0.00 0.00 0.00 3.16
2790 2949 4.499183 TGCCGTTGTTTCAAATTTTCTGT 58.501 34.783 0.00 0.00 0.00 3.41
2791 2950 5.462034 TTGCCGTTGTTTCAAATTTTCTG 57.538 34.783 0.00 0.00 0.00 3.02
2792 2951 6.370166 TCTTTTGCCGTTGTTTCAAATTTTCT 59.630 30.769 0.00 0.00 30.89 2.52
2793 2952 6.538444 TCTTTTGCCGTTGTTTCAAATTTTC 58.462 32.000 0.00 0.00 30.89 2.29
2794 2953 6.487689 TCTTTTGCCGTTGTTTCAAATTTT 57.512 29.167 0.00 0.00 30.89 1.82
2795 2954 6.676237 ATCTTTTGCCGTTGTTTCAAATTT 57.324 29.167 0.00 0.00 30.89 1.82
2796 2955 6.538381 AGAATCTTTTGCCGTTGTTTCAAATT 59.462 30.769 0.00 0.00 30.89 1.82
2797 2956 6.048509 AGAATCTTTTGCCGTTGTTTCAAAT 58.951 32.000 0.00 0.00 30.89 2.32
2798 2957 5.415221 AGAATCTTTTGCCGTTGTTTCAAA 58.585 33.333 0.00 0.00 0.00 2.69
2799 2958 5.004922 AGAATCTTTTGCCGTTGTTTCAA 57.995 34.783 0.00 0.00 0.00 2.69
2800 2959 4.647424 AGAATCTTTTGCCGTTGTTTCA 57.353 36.364 0.00 0.00 0.00 2.69
2801 2960 4.318050 GCAAGAATCTTTTGCCGTTGTTTC 60.318 41.667 0.00 0.00 43.88 2.78
2802 2961 3.555547 GCAAGAATCTTTTGCCGTTGTTT 59.444 39.130 0.00 0.00 43.88 2.83
2803 2962 3.123050 GCAAGAATCTTTTGCCGTTGTT 58.877 40.909 0.00 0.00 43.88 2.83
2804 2963 2.742774 GCAAGAATCTTTTGCCGTTGT 58.257 42.857 0.00 0.00 43.88 3.32
2838 2997 6.547510 GGCTACTGGGAAAATCATAACAGATT 59.452 38.462 0.00 0.00 39.81 2.40
2855 3014 3.857052 TGAGAATTTGTACGGCTACTGG 58.143 45.455 0.00 0.00 0.00 4.00
2856 3015 5.580691 TGATTGAGAATTTGTACGGCTACTG 59.419 40.000 0.00 0.00 0.00 2.74
2934 3093 1.674611 CGTGAAGTAAGCAGACGCCG 61.675 60.000 0.00 0.00 39.83 6.46
2935 3094 1.352156 CCGTGAAGTAAGCAGACGCC 61.352 60.000 0.00 0.00 39.83 5.68
2978 3137 5.057819 CCTCTCATCATCAACTGAATCCAG 58.942 45.833 0.00 0.00 45.76 3.86
2991 3150 7.124052 ACTGAATCCAAAAATCCTCTCATCAT 58.876 34.615 0.00 0.00 0.00 2.45
3036 3195 7.094075 CCTCTCATCATCAACTGAATCCAAAAA 60.094 37.037 0.00 0.00 37.44 1.94
3046 3205 6.405508 CCCAAAAATCCTCTCATCATCAACTG 60.406 42.308 0.00 0.00 0.00 3.16
3167 3341 7.201835 GGTTATTTTTGGTTTTAACTCCACGA 58.798 34.615 0.00 0.00 33.12 4.35
3213 3389 1.750778 CACCTCACACCTTTTGCAGTT 59.249 47.619 0.00 0.00 0.00 3.16
3256 3432 2.551504 GGACCCCACACGTATGTCTTTT 60.552 50.000 0.00 0.00 36.72 2.27
3263 3439 1.186917 TTCACGGACCCCACACGTAT 61.187 55.000 0.00 0.00 39.02 3.06
3268 3444 0.251916 GATCATTCACGGACCCCACA 59.748 55.000 0.00 0.00 0.00 4.17
3289 3472 2.030185 TCGACACTTGCTCTGAACTACC 60.030 50.000 0.00 0.00 0.00 3.18
3292 3475 3.393089 AATCGACACTTGCTCTGAACT 57.607 42.857 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.