Multiple sequence alignment - TraesCS7A01G329300

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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 TraesCS7A01G329300 chr7A 100.000 3619 0 0 1 3619 479343140 479346758 0.000000e+00 6684.0
1 TraesCS7A01G329300 chr7D 90.988 2408 138 25 136 2507 416411414 416413778 0.000000e+00 3171.0
2 TraesCS7A01G329300 chr7D 87.412 707 72 11 2918 3618 416423465 416424160 0.000000e+00 797.0
3 TraesCS7A01G329300 chr7D 90.726 248 19 3 2577 2822 416414105 416414350 9.690000e-86 327.0
4 TraesCS7A01G329300 chr7D 94.898 98 5 0 1 98 416411316 416411413 1.740000e-33 154.0
5 TraesCS7A01G329300 chr7B 94.010 1369 67 6 1140 2507 432187135 432188489 0.000000e+00 2060.0
6 TraesCS7A01G329300 chr7B 91.441 479 20 10 595 1055 432186075 432186550 3.940000e-179 638.0
7 TraesCS7A01G329300 chr7B 87.736 424 35 10 1 419 432185637 432186048 2.530000e-131 479.0
8 TraesCS7A01G329300 chr7B 94.495 218 11 1 3283 3499 432189017 432189234 5.790000e-88 335.0
9 TraesCS7A01G329300 chr7B 90.476 168 11 3 2564 2728 432188561 432188726 2.190000e-52 217.0
10 TraesCS7A01G329300 chr7B 90.984 122 10 1 2814 2935 432188725 432188845 2.890000e-36 163.0
11 TraesCS7A01G329300 chr7B 97.753 89 1 1 3151 3238 432188923 432189011 6.260000e-33 152.0
12 TraesCS7A01G329300 chr7B 88.710 62 5 2 2512 2572 174144706 174144766 1.390000e-09 75.0
13 TraesCS7A01G329300 chr5B 89.977 429 34 5 1094 1517 609742823 609743247 2.460000e-151 545.0
14 TraesCS7A01G329300 chr5B 90.534 412 34 2 1107 1517 37721504 37721097 1.140000e-149 540.0
15 TraesCS7A01G329300 chr5B 88.732 71 6 2 2504 2572 248393436 248393506 6.440000e-13 86.1
16 TraesCS7A01G329300 chr3B 90.799 413 31 3 1108 1517 49346997 49346589 2.460000e-151 545.0
17 TraesCS7A01G329300 chr3B 90.777 412 33 2 1107 1517 737251985 737252392 2.460000e-151 545.0
18 TraesCS7A01G329300 chr4A 90.049 412 34 3 1107 1517 647854888 647854483 8.900000e-146 527.0
19 TraesCS7A01G329300 chr4A 87.692 65 1 6 2515 2575 570228257 570228196 6.480000e-08 69.4
20 TraesCS7A01G329300 chr6B 89.044 429 38 4 1094 1517 79513330 79513754 1.150000e-144 523.0
21 TraesCS7A01G329300 chr4B 91.733 375 31 0 1293 1667 537785679 537786053 4.140000e-144 521.0
22 TraesCS7A01G329300 chr4B 88.108 185 12 7 994 1178 537784905 537785079 1.020000e-50 211.0
23 TraesCS7A01G329300 chr4B 93.443 61 4 0 2512 2572 316952045 316952105 1.380000e-14 91.6
24 TraesCS7A01G329300 chr5A 90.282 319 24 7 968 1280 13490508 13490191 9.350000e-111 411.0
25 TraesCS7A01G329300 chr5A 89.730 185 5 8 994 1176 456005591 456005419 1.310000e-54 224.0
26 TraesCS7A01G329300 chr2A 88.710 186 9 9 994 1178 763538299 763538473 2.190000e-52 217.0
27 TraesCS7A01G329300 chr1B 88.462 182 8 10 998 1178 522942972 522942803 1.320000e-49 207.0
28 TraesCS7A01G329300 chr5D 94.915 59 3 0 2512 2570 406323939 406323881 3.850000e-15 93.5
29 TraesCS7A01G329300 chr5D 88.732 71 6 1 2504 2572 521497589 521497659 6.440000e-13 86.1
30 TraesCS7A01G329300 chr4D 94.737 57 3 0 2512 2568 493840516 493840572 4.980000e-14 89.8
31 TraesCS7A01G329300 chr2B 90.769 65 3 3 2512 2575 731074376 731074314 2.320000e-12 84.2
32 TraesCS7A01G329300 chr3A 87.692 65 5 3 2512 2575 327830827 327830889 5.010000e-09 73.1


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G329300 chr7A 479343140 479346758 3618 False 6684.000000 6684 100.000000 1 3619 1 chr7A.!!$F1 3618
1 TraesCS7A01G329300 chr7D 416411316 416414350 3034 False 1217.333333 3171 92.204000 1 2822 3 chr7D.!!$F2 2821
2 TraesCS7A01G329300 chr7D 416423465 416424160 695 False 797.000000 797 87.412000 2918 3618 1 chr7D.!!$F1 700
3 TraesCS7A01G329300 chr7B 432185637 432189234 3597 False 577.714286 2060 92.413571 1 3499 7 chr7B.!!$F2 3498
4 TraesCS7A01G329300 chr4B 537784905 537786053 1148 False 366.000000 521 89.920500 994 1667 2 chr4B.!!$F2 673

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
547 600 0.029567 GATGGGACGACGTAGAGCAG 59.970 60.0 0.0 0.0 0.0 4.24 F
1611 2671 0.034670 GGAGATGGTGCCAAGAAGCT 60.035 55.0 0.0 0.0 0.0 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2165 3227 0.179089 CATCCTCCACCTCTTCTGCG 60.179 60.0 0.00 0.00 0.00 5.18 R
2723 4097 0.034089 GCCCCATATACCATGGAGGC 60.034 60.0 21.47 13.94 43.25 4.70 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
36 37 8.315220 AGAGGCAAAAATCAATATGGAGAATT 57.685 30.769 0.00 0.00 0.00 2.17
70 71 6.204495 GGCAAGGATCTTGTGAAGAATATCTC 59.796 42.308 9.07 0.00 41.63 2.75
72 73 7.281774 GCAAGGATCTTGTGAAGAATATCTCAA 59.718 37.037 9.07 0.00 41.63 3.02
90 91 7.732222 ATCTCAATGGTATAGGAGAAGGATC 57.268 40.000 0.00 0.00 39.60 3.36
99 140 1.693627 GGAGAAGGATCGCCACTAGA 58.306 55.000 0.00 0.00 44.29 2.43
100 141 1.338655 GGAGAAGGATCGCCACTAGAC 59.661 57.143 0.00 0.00 44.29 2.59
101 142 2.303175 GAGAAGGATCGCCACTAGACT 58.697 52.381 0.00 0.00 36.29 3.24
102 143 3.478509 GAGAAGGATCGCCACTAGACTA 58.521 50.000 0.00 0.00 36.29 2.59
103 144 3.482436 AGAAGGATCGCCACTAGACTAG 58.518 50.000 8.00 8.00 36.29 2.57
104 145 1.611519 AGGATCGCCACTAGACTAGC 58.388 55.000 9.52 0.00 36.29 3.42
105 146 1.133761 AGGATCGCCACTAGACTAGCA 60.134 52.381 9.52 0.00 36.29 3.49
106 147 1.681793 GGATCGCCACTAGACTAGCAA 59.318 52.381 9.52 0.00 0.00 3.91
107 148 2.544069 GGATCGCCACTAGACTAGCAAC 60.544 54.545 9.52 0.00 0.00 4.17
108 149 1.541379 TCGCCACTAGACTAGCAACA 58.459 50.000 9.52 0.00 0.00 3.33
109 150 2.100197 TCGCCACTAGACTAGCAACAT 58.900 47.619 9.52 0.00 0.00 2.71
110 151 2.099263 TCGCCACTAGACTAGCAACATC 59.901 50.000 9.52 0.00 0.00 3.06
111 152 2.099921 CGCCACTAGACTAGCAACATCT 59.900 50.000 9.52 0.00 0.00 2.90
112 153 3.315470 CGCCACTAGACTAGCAACATCTA 59.685 47.826 9.52 0.00 0.00 1.98
113 154 4.202020 CGCCACTAGACTAGCAACATCTAA 60.202 45.833 9.52 0.00 0.00 2.10
114 155 5.044558 GCCACTAGACTAGCAACATCTAAC 58.955 45.833 9.52 0.00 0.00 2.34
115 156 5.394224 GCCACTAGACTAGCAACATCTAACA 60.394 44.000 9.52 0.00 0.00 2.41
116 157 6.631016 CCACTAGACTAGCAACATCTAACAA 58.369 40.000 9.52 0.00 0.00 2.83
117 158 7.097192 CCACTAGACTAGCAACATCTAACAAA 58.903 38.462 9.52 0.00 0.00 2.83
118 159 7.276658 CCACTAGACTAGCAACATCTAACAAAG 59.723 40.741 9.52 0.00 0.00 2.77
119 160 8.029522 CACTAGACTAGCAACATCTAACAAAGA 58.970 37.037 9.52 0.00 39.02 2.52
120 161 8.754080 ACTAGACTAGCAACATCTAACAAAGAT 58.246 33.333 9.52 0.00 46.36 2.40
134 175 9.793252 ATCTAACAAAGATGAAATGAAAATCCG 57.207 29.630 0.00 0.00 43.62 4.18
157 198 5.560953 CGAAGAAAAAGACGAGAGCCAAATT 60.561 40.000 0.00 0.00 0.00 1.82
168 209 4.640201 CGAGAGCCAAATTCAGGGAAAATA 59.360 41.667 0.00 0.00 0.00 1.40
208 249 3.419915 CAAAAATCAGAGCGTTCCGATG 58.580 45.455 0.00 0.00 0.00 3.84
250 291 1.654954 CCACTAGCACTACGAGCGGT 61.655 60.000 0.00 0.00 37.01 5.68
307 348 2.281345 GCTAGAGCGGCCATGCAT 60.281 61.111 2.24 0.00 37.31 3.96
334 375 2.524394 AGGACGGAGCACTGGTGT 60.524 61.111 2.64 0.00 0.00 4.16
344 385 2.203640 ACTGGTGTGAGGGAGCGA 60.204 61.111 0.00 0.00 0.00 4.93
364 405 3.184379 CGACGACAATGATCACAAGTGTT 59.816 43.478 0.00 0.00 31.54 3.32
365 406 4.384547 CGACGACAATGATCACAAGTGTTA 59.615 41.667 0.00 0.00 31.54 2.41
366 407 5.591643 ACGACAATGATCACAAGTGTTAC 57.408 39.130 0.00 0.00 31.54 2.50
367 408 4.149922 ACGACAATGATCACAAGTGTTACG 59.850 41.667 0.00 4.24 31.54 3.18
368 409 4.384547 CGACAATGATCACAAGTGTTACGA 59.615 41.667 0.00 0.00 31.54 3.43
369 410 5.443301 CGACAATGATCACAAGTGTTACGAG 60.443 44.000 0.00 0.00 31.54 4.18
370 411 5.297547 ACAATGATCACAAGTGTTACGAGT 58.702 37.500 0.00 0.00 0.00 4.18
422 463 2.035193 CGATGACTACATGAGGTGGGAG 59.965 54.545 0.00 0.00 36.82 4.30
423 464 1.195115 TGACTACATGAGGTGGGAGC 58.805 55.000 0.00 0.00 31.13 4.70
424 465 1.273267 TGACTACATGAGGTGGGAGCT 60.273 52.381 0.00 0.00 31.13 4.09
425 466 1.834263 GACTACATGAGGTGGGAGCTT 59.166 52.381 0.00 0.00 31.13 3.74
426 467 1.556911 ACTACATGAGGTGGGAGCTTG 59.443 52.381 0.00 0.00 31.13 4.01
427 468 0.253044 TACATGAGGTGGGAGCTTGC 59.747 55.000 0.00 0.00 0.00 4.01
431 472 1.073897 GAGGTGGGAGCTTGCAAGT 59.926 57.895 26.55 14.02 0.00 3.16
432 473 0.324943 GAGGTGGGAGCTTGCAAGTA 59.675 55.000 26.55 6.83 0.00 2.24
436 477 2.399356 GGGAGCTTGCAAGTACCGC 61.399 63.158 26.55 18.67 0.00 5.68
446 499 1.913762 AAGTACCGCCAGCTCACCT 60.914 57.895 0.00 0.00 0.00 4.00
504 557 1.854979 AATGTAGTGCCCCCACCCA 60.855 57.895 0.00 0.00 43.09 4.51
507 560 2.204228 TAGTGCCCCCACCCACAT 60.204 61.111 0.00 0.00 43.09 3.21
509 562 4.299796 GTGCCCCCACCCACATGT 62.300 66.667 0.00 0.00 35.92 3.21
510 563 3.516512 TGCCCCCACCCACATGTT 61.517 61.111 0.00 0.00 0.00 2.71
530 583 3.093278 GCAAGCGCTGCGTAAGAT 58.907 55.556 24.04 2.74 42.37 2.40
535 588 2.526120 GCGCTGCGTAAGATGGGAC 61.526 63.158 24.04 0.00 43.02 4.46
547 600 0.029567 GATGGGACGACGTAGAGCAG 59.970 60.000 0.00 0.00 0.00 4.24
552 605 0.454620 GACGACGTAGAGCAGTGTGG 60.455 60.000 0.00 0.00 0.00 4.17
583 636 1.286248 AAGGTGGGGAAACGAGCTAT 58.714 50.000 0.00 0.00 34.39 2.97
584 637 0.541863 AGGTGGGGAAACGAGCTATG 59.458 55.000 0.00 0.00 33.68 2.23
587 640 1.483415 GTGGGGAAACGAGCTATGGTA 59.517 52.381 0.00 0.00 0.00 3.25
591 644 2.143925 GGAAACGAGCTATGGTATGGC 58.856 52.381 0.00 0.00 36.97 4.40
651 704 3.030168 TTGGCTGGCATCGGTCGAT 62.030 57.895 4.22 0.00 34.81 3.59
657 710 0.739462 TGGCATCGGTCGATCAACAC 60.739 55.000 2.59 0.00 31.62 3.32
726 779 2.045708 GCATCGCACCCCATCAACA 61.046 57.895 0.00 0.00 0.00 3.33
734 787 3.328505 GCACCCCATCAACAAAATCAAG 58.671 45.455 0.00 0.00 0.00 3.02
803 856 0.310854 CAAACCCAAACTCGACTGCC 59.689 55.000 0.00 0.00 0.00 4.85
1083 1155 2.850833 TCAAGATCCAATCACCTCCCT 58.149 47.619 0.00 0.00 0.00 4.20
1087 1159 2.131023 GATCCAATCACCTCCCTTCCT 58.869 52.381 0.00 0.00 0.00 3.36
1144 1716 2.270874 ATCCGTCCAGTTCCATGGCC 62.271 60.000 6.96 0.00 40.41 5.36
1259 1998 0.550393 GTTCCCCCTCCCTTCTCCTT 60.550 60.000 0.00 0.00 0.00 3.36
1304 2364 5.009010 GTGATTGAGTGAATGACTGGTTTGT 59.991 40.000 0.00 0.00 33.83 2.83
1411 2471 3.777925 CAGCCTCGGTGCGTTTCG 61.778 66.667 0.00 0.00 36.02 3.46
1421 2481 2.745100 GCGTTTCGGTTCCTCCCC 60.745 66.667 0.00 0.00 0.00 4.81
1426 2486 1.073444 GTTTCGGTTCCTCCCCTCTTT 59.927 52.381 0.00 0.00 0.00 2.52
1427 2487 0.690762 TTCGGTTCCTCCCCTCTTTG 59.309 55.000 0.00 0.00 0.00 2.77
1475 2535 1.664321 CGCGCTAACCCCACTACTCT 61.664 60.000 5.56 0.00 0.00 3.24
1516 2576 2.358737 GTGGTGGAGAAGGCCGTG 60.359 66.667 0.00 0.00 0.00 4.94
1611 2671 0.034670 GGAGATGGTGCCAAGAAGCT 60.035 55.000 0.00 0.00 0.00 3.74
1727 2788 3.438781 TGTTGTTTGTGACCTGACAAGAC 59.561 43.478 0.00 0.00 37.16 3.01
1728 2789 2.639065 TGTTTGTGACCTGACAAGACC 58.361 47.619 0.00 0.00 37.16 3.85
1729 2790 2.238646 TGTTTGTGACCTGACAAGACCT 59.761 45.455 0.00 0.00 37.16 3.85
1785 2846 3.264845 TTCAAGGCCTCCCACCCC 61.265 66.667 5.23 0.00 0.00 4.95
1788 2849 4.760220 AAGGCCTCCCACCCCGAT 62.760 66.667 5.23 0.00 0.00 4.18
1825 2886 0.815734 CGTACGTCCTGTTCATCCCT 59.184 55.000 7.22 0.00 0.00 4.20
1828 2889 2.233305 ACGTCCTGTTCATCCCTACT 57.767 50.000 0.00 0.00 0.00 2.57
1831 2892 4.091549 ACGTCCTGTTCATCCCTACTTTA 58.908 43.478 0.00 0.00 0.00 1.85
1835 2896 6.629515 CGTCCTGTTCATCCCTACTTTATGAA 60.630 42.308 0.00 0.00 37.30 2.57
1861 2922 1.611006 TGTTTGTGTGCTGTGTTGTGT 59.389 42.857 0.00 0.00 0.00 3.72
2036 3097 3.462205 GGTAATTCCCTGGGTTCCATACT 59.538 47.826 13.56 0.00 30.82 2.12
2041 3102 5.427857 TTCCCTGGGTTCCATACTAGATA 57.572 43.478 13.56 0.00 30.82 1.98
2050 3111 8.944138 TGGGTTCCATACTAGATAAATCAATCA 58.056 33.333 0.00 0.00 0.00 2.57
2112 3174 2.159435 GGCTTGACTGTTCGTTTGTGTT 60.159 45.455 0.00 0.00 0.00 3.32
2162 3224 1.417145 GATGAGGAGAAGGCAGATGCT 59.583 52.381 4.59 0.00 41.70 3.79
2165 3227 0.540923 AGGAGAAGGCAGATGCTGAC 59.459 55.000 4.59 0.00 40.37 3.51
2189 3251 0.909610 AAGAGGTGGAGGATGCGGAA 60.910 55.000 0.00 0.00 0.00 4.30
2292 3354 1.276622 GGGACTGAAGAAGGGTGCTA 58.723 55.000 0.00 0.00 0.00 3.49
2320 3384 4.688021 TGTTTTGTAAATGGCAGGTGTTC 58.312 39.130 0.00 0.00 0.00 3.18
2321 3385 4.404073 TGTTTTGTAAATGGCAGGTGTTCT 59.596 37.500 0.00 0.00 0.00 3.01
2322 3386 5.594725 TGTTTTGTAAATGGCAGGTGTTCTA 59.405 36.000 0.00 0.00 0.00 2.10
2323 3387 5.699097 TTTGTAAATGGCAGGTGTTCTAC 57.301 39.130 0.00 0.00 0.00 2.59
2450 3514 0.827507 GCAGGGTTGATGTGGTGGTT 60.828 55.000 0.00 0.00 0.00 3.67
2473 3537 6.432607 TGATGAATGACTGAATCTTTCTGC 57.567 37.500 4.73 0.00 40.52 4.26
2507 3571 8.741101 TTCATTTGCAATATGTGTGAAACTAC 57.259 30.769 0.00 0.00 38.04 2.73
2508 3572 7.312154 TCATTTGCAATATGTGTGAAACTACC 58.688 34.615 0.00 0.00 38.04 3.18
2509 3573 6.892658 TTTGCAATATGTGTGAAACTACCT 57.107 33.333 0.00 0.00 38.04 3.08
2510 3574 6.494893 TTGCAATATGTGTGAAACTACCTC 57.505 37.500 0.00 0.00 38.04 3.85
2512 3576 5.874810 TGCAATATGTGTGAAACTACCTCTC 59.125 40.000 0.00 0.00 38.04 3.20
2513 3577 5.294552 GCAATATGTGTGAAACTACCTCTCC 59.705 44.000 0.00 0.00 38.04 3.71
2514 3578 3.983044 ATGTGTGAAACTACCTCTCCC 57.017 47.619 0.00 0.00 38.04 4.30
2515 3579 2.684943 TGTGTGAAACTACCTCTCCCA 58.315 47.619 0.00 0.00 38.04 4.37
2516 3580 3.042682 TGTGTGAAACTACCTCTCCCAA 58.957 45.455 0.00 0.00 38.04 4.12
2517 3581 3.456644 TGTGTGAAACTACCTCTCCCAAA 59.543 43.478 0.00 0.00 38.04 3.28
2518 3582 4.080243 TGTGTGAAACTACCTCTCCCAAAA 60.080 41.667 0.00 0.00 38.04 2.44
2519 3583 5.070685 GTGTGAAACTACCTCTCCCAAAAT 58.929 41.667 0.00 0.00 38.04 1.82
2520 3584 6.183361 TGTGTGAAACTACCTCTCCCAAAATA 60.183 38.462 0.00 0.00 38.04 1.40
2521 3585 6.713450 GTGTGAAACTACCTCTCCCAAAATAA 59.287 38.462 0.00 0.00 38.04 1.40
2522 3586 7.229907 GTGTGAAACTACCTCTCCCAAAATAAA 59.770 37.037 0.00 0.00 38.04 1.40
2523 3587 7.947890 TGTGAAACTACCTCTCCCAAAATAAAT 59.052 33.333 0.00 0.00 38.04 1.40
2524 3588 8.244113 GTGAAACTACCTCTCCCAAAATAAATG 58.756 37.037 0.00 0.00 0.00 2.32
2525 3589 7.947890 TGAAACTACCTCTCCCAAAATAAATGT 59.052 33.333 0.00 0.00 0.00 2.71
2526 3590 7.939784 AACTACCTCTCCCAAAATAAATGTC 57.060 36.000 0.00 0.00 0.00 3.06
2527 3591 7.272144 ACTACCTCTCCCAAAATAAATGTCT 57.728 36.000 0.00 0.00 0.00 3.41
2528 3592 7.339482 ACTACCTCTCCCAAAATAAATGTCTC 58.661 38.462 0.00 0.00 0.00 3.36
2529 3593 6.139679 ACCTCTCCCAAAATAAATGTCTCA 57.860 37.500 0.00 0.00 0.00 3.27
2530 3594 6.183347 ACCTCTCCCAAAATAAATGTCTCAG 58.817 40.000 0.00 0.00 0.00 3.35
2531 3595 5.067023 CCTCTCCCAAAATAAATGTCTCAGC 59.933 44.000 0.00 0.00 0.00 4.26
2532 3596 5.819991 TCTCCCAAAATAAATGTCTCAGCT 58.180 37.500 0.00 0.00 0.00 4.24
2533 3597 6.248433 TCTCCCAAAATAAATGTCTCAGCTT 58.752 36.000 0.00 0.00 0.00 3.74
2534 3598 6.721208 TCTCCCAAAATAAATGTCTCAGCTTT 59.279 34.615 0.00 0.00 0.00 3.51
2535 3599 7.888021 TCTCCCAAAATAAATGTCTCAGCTTTA 59.112 33.333 0.00 0.00 0.00 1.85
2536 3600 8.055279 TCCCAAAATAAATGTCTCAGCTTTAG 57.945 34.615 0.00 0.00 0.00 1.85
2537 3601 7.669722 TCCCAAAATAAATGTCTCAGCTTTAGT 59.330 33.333 0.00 0.00 0.00 2.24
2538 3602 8.956426 CCCAAAATAAATGTCTCAGCTTTAGTA 58.044 33.333 0.00 0.00 0.00 1.82
2539 3603 9.774742 CCAAAATAAATGTCTCAGCTTTAGTAC 57.225 33.333 0.00 0.00 0.00 2.73
2543 3607 9.726438 AATAAATGTCTCAGCTTTAGTACAACT 57.274 29.630 0.00 0.00 0.00 3.16
2544 3608 9.726438 ATAAATGTCTCAGCTTTAGTACAACTT 57.274 29.630 0.00 0.00 0.00 2.66
2545 3609 8.451908 AAATGTCTCAGCTTTAGTACAACTTT 57.548 30.769 0.00 0.00 0.00 2.66
2546 3610 6.844696 TGTCTCAGCTTTAGTACAACTTTG 57.155 37.500 0.00 0.00 0.00 2.77
2547 3611 6.346096 TGTCTCAGCTTTAGTACAACTTTGT 58.654 36.000 0.00 0.00 44.86 2.83
2548 3612 7.494211 TGTCTCAGCTTTAGTACAACTTTGTA 58.506 34.615 0.00 0.00 42.35 2.41
2549 3613 8.148351 TGTCTCAGCTTTAGTACAACTTTGTAT 58.852 33.333 5.16 0.00 44.59 2.29
2550 3614 8.989980 GTCTCAGCTTTAGTACAACTTTGTATT 58.010 33.333 5.16 4.04 44.59 1.89
2574 3638 9.944376 ATTAAAGCTAGTACAAAGTTGAGATCA 57.056 29.630 0.00 0.00 0.00 2.92
2671 4045 2.670934 CAGTGCTGTGAGTGGCCC 60.671 66.667 0.00 0.00 0.00 5.80
2684 4058 4.042187 GTGAGTGGCCCTGATAGGATATTT 59.958 45.833 0.00 0.00 37.67 1.40
2688 4062 2.749621 GGCCCTGATAGGATATTTTGCG 59.250 50.000 0.00 0.00 37.67 4.85
2723 4097 2.160721 TGTCCTGGCCTAGTCTAAGG 57.839 55.000 3.32 0.00 39.87 2.69
2751 4125 1.609841 GGTATATGGGGCGGCAAGTAC 60.610 57.143 12.47 6.05 0.00 2.73
2761 4135 2.124122 GCGGCAAGTACCAACTTTTTG 58.876 47.619 0.00 0.00 43.60 2.44
2787 4161 0.473755 TCTGCTTCAGGGTTCTGCAA 59.526 50.000 0.00 0.00 40.69 4.08
2822 4196 9.926158 ATCACTGATATCTGATGTCAAGATAAC 57.074 33.333 20.38 2.17 29.71 1.89
2823 4197 8.363390 TCACTGATATCTGATGTCAAGATAACC 58.637 37.037 16.32 0.00 29.78 2.85
2824 4198 8.146412 CACTGATATCTGATGTCAAGATAACCA 58.854 37.037 16.32 1.36 29.78 3.67
2829 4203 5.809001 TCTGATGTCAAGATAACCAAAGCT 58.191 37.500 0.00 0.00 0.00 3.74
2838 4212 6.818644 TCAAGATAACCAAAGCTGTATCAGTC 59.181 38.462 0.00 0.00 33.43 3.51
2849 4223 7.986085 AAGCTGTATCAGTCAATGTTTACTT 57.014 32.000 0.00 0.00 33.43 2.24
2851 4225 7.810658 AGCTGTATCAGTCAATGTTTACTTTG 58.189 34.615 0.00 2.95 33.43 2.77
2864 4238 7.745620 ATGTTTACTTTGCAGCTACTTAGTT 57.254 32.000 0.00 0.00 0.00 2.24
2874 4248 4.321750 GCAGCTACTTAGTTGACCTGTGTA 60.322 45.833 4.44 0.00 36.76 2.90
2877 4251 5.773680 AGCTACTTAGTTGACCTGTGTAGAA 59.226 40.000 0.00 0.00 34.76 2.10
2958 4332 7.320443 TCATTGGTAGAATATGTCAAAGCAC 57.680 36.000 0.00 0.00 0.00 4.40
2961 4335 4.227300 TGGTAGAATATGTCAAAGCACCCT 59.773 41.667 0.00 0.00 0.00 4.34
2977 4351 4.758688 GCACCCTGCTTGCTTATATTTTT 58.241 39.130 0.00 0.00 40.96 1.94
2982 4356 4.807304 CCTGCTTGCTTATATTTTTGGCTG 59.193 41.667 0.00 0.00 0.00 4.85
3010 4386 1.912043 AGTTCAGAACAGGGATCTGGG 59.088 52.381 15.85 0.00 44.99 4.45
3032 4408 3.225104 AGTGCCATGTGAGTGAAATGTT 58.775 40.909 0.00 0.00 0.00 2.71
3034 4410 4.216257 AGTGCCATGTGAGTGAAATGTTAC 59.784 41.667 0.00 0.00 0.00 2.50
3035 4411 4.216257 GTGCCATGTGAGTGAAATGTTACT 59.784 41.667 0.00 0.00 0.00 2.24
3036 4412 4.826733 TGCCATGTGAGTGAAATGTTACTT 59.173 37.500 0.00 0.00 0.00 2.24
3037 4413 5.048782 TGCCATGTGAGTGAAATGTTACTTC 60.049 40.000 0.00 0.00 0.00 3.01
3038 4414 5.621422 CCATGTGAGTGAAATGTTACTTCG 58.379 41.667 0.00 0.00 0.00 3.79
3039 4415 5.390885 CCATGTGAGTGAAATGTTACTTCGG 60.391 44.000 0.00 0.00 0.00 4.30
3041 4417 5.361427 TGTGAGTGAAATGTTACTTCGGAA 58.639 37.500 0.00 0.00 0.00 4.30
3042 4418 5.995282 TGTGAGTGAAATGTTACTTCGGAAT 59.005 36.000 0.00 0.00 0.00 3.01
3044 4420 7.330946 TGTGAGTGAAATGTTACTTCGGAATAG 59.669 37.037 0.00 0.00 0.00 1.73
3050 4427 4.996788 TGTTACTTCGGAATAGAGACCC 57.003 45.455 0.00 0.00 0.00 4.46
3092 4469 6.176183 TCAGACTTGAGGGAATTTCTGAATC 58.824 40.000 0.77 0.00 31.17 2.52
3106 4483 2.099141 TGAATCGCCTTCAGTTCAGG 57.901 50.000 0.00 0.00 38.97 3.86
3113 4490 0.676151 CCTTCAGTTCAGGAGCAGCC 60.676 60.000 0.00 0.00 32.41 4.85
3130 4507 0.957362 GCCTAATTGCAGGATCCAGC 59.043 55.000 21.57 21.57 38.00 4.85
3139 4516 0.471191 CAGGATCCAGCATAGCACCA 59.529 55.000 15.82 0.00 0.00 4.17
3140 4517 0.763652 AGGATCCAGCATAGCACCAG 59.236 55.000 15.82 0.00 0.00 4.00
3335 4713 0.606604 AGCAATTGCCTCAGCCAAAG 59.393 50.000 26.45 0.00 43.38 2.77
3340 4718 0.390124 TTGCCTCAGCCAAAGCAAAG 59.610 50.000 0.00 0.00 41.93 2.77
3391 4770 4.080919 CAGGTGGAGGTCATTCTCACAATA 60.081 45.833 0.00 0.00 35.58 1.90
3489 4868 1.341209 CCTTCCAAAGGTTCCAACAGC 59.659 52.381 0.00 0.00 43.95 4.40
3499 4878 3.523564 AGGTTCCAACAGCTGTATATGGT 59.476 43.478 27.42 11.94 32.90 3.55
3502 4881 4.336889 TCCAACAGCTGTATATGGTAGC 57.663 45.455 27.42 0.00 37.71 3.58
3505 4884 1.618837 ACAGCTGTATATGGTAGCGGG 59.381 52.381 20.16 6.74 42.10 6.13
3507 4886 2.823747 CAGCTGTATATGGTAGCGGGTA 59.176 50.000 5.25 0.00 42.10 3.69
3516 4895 3.022557 TGGTAGCGGGTATAGTCTTGT 57.977 47.619 0.00 0.00 0.00 3.16
3530 4909 0.257328 TCTTGTTGTCCAGTTGGCCA 59.743 50.000 0.00 0.00 34.44 5.36
3544 4923 1.152830 GGCCAGAAAGGTTCCACCA 59.847 57.895 0.00 0.00 41.95 4.17
3551 4930 1.901833 GAAAGGTTCCACCAATGGCAT 59.098 47.619 0.00 0.00 46.80 4.40
3570 4949 3.181475 GCATAAGGACTCGGTCTGATCAA 60.181 47.826 0.00 0.00 32.47 2.57
3582 4961 1.370810 TGATCAACAGAGGCGCACA 59.629 52.632 10.83 0.00 0.00 4.57
3602 4981 0.108585 ACGTGTTGGAGTTCAGCCAT 59.891 50.000 0.00 0.00 34.90 4.40
3603 4982 1.238439 CGTGTTGGAGTTCAGCCATT 58.762 50.000 0.00 0.00 34.90 3.16
3605 4984 1.270550 GTGTTGGAGTTCAGCCATTGG 59.729 52.381 0.00 0.00 34.90 3.16
3607 4986 0.482446 TTGGAGTTCAGCCATTGGGT 59.518 50.000 0.36 0.36 34.90 4.51
3610 4989 2.311542 TGGAGTTCAGCCATTGGGTAAT 59.688 45.455 7.16 0.00 36.17 1.89
3618 4997 2.174854 AGCCATTGGGTAATCAGGTACC 59.825 50.000 5.38 2.73 42.57 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 4.499183 GCGATCCTTCTCCTATACCATTG 58.501 47.826 0.00 0.00 0.00 2.82
72 73 3.100671 GGCGATCCTTCTCCTATACCAT 58.899 50.000 0.00 0.00 0.00 3.55
90 91 2.099921 AGATGTTGCTAGTCTAGTGGCG 59.900 50.000 8.68 0.00 0.00 5.69
108 149 9.793252 CGGATTTTCATTTCATCTTTGTTAGAT 57.207 29.630 0.00 0.00 44.60 1.98
109 150 9.008965 TCGGATTTTCATTTCATCTTTGTTAGA 57.991 29.630 0.00 0.00 37.28 2.10
110 151 9.624697 TTCGGATTTTCATTTCATCTTTGTTAG 57.375 29.630 0.00 0.00 0.00 2.34
111 152 9.624697 CTTCGGATTTTCATTTCATCTTTGTTA 57.375 29.630 0.00 0.00 0.00 2.41
112 153 8.359642 TCTTCGGATTTTCATTTCATCTTTGTT 58.640 29.630 0.00 0.00 0.00 2.83
113 154 7.885297 TCTTCGGATTTTCATTTCATCTTTGT 58.115 30.769 0.00 0.00 0.00 2.83
114 155 8.746922 TTCTTCGGATTTTCATTTCATCTTTG 57.253 30.769 0.00 0.00 0.00 2.77
115 156 9.762933 TTTTCTTCGGATTTTCATTTCATCTTT 57.237 25.926 0.00 0.00 0.00 2.52
116 157 9.762933 TTTTTCTTCGGATTTTCATTTCATCTT 57.237 25.926 0.00 0.00 0.00 2.40
117 158 9.415544 CTTTTTCTTCGGATTTTCATTTCATCT 57.584 29.630 0.00 0.00 0.00 2.90
118 159 9.410556 TCTTTTTCTTCGGATTTTCATTTCATC 57.589 29.630 0.00 0.00 0.00 2.92
119 160 9.196552 GTCTTTTTCTTCGGATTTTCATTTCAT 57.803 29.630 0.00 0.00 0.00 2.57
120 161 7.378461 CGTCTTTTTCTTCGGATTTTCATTTCA 59.622 33.333 0.00 0.00 0.00 2.69
121 162 7.589954 TCGTCTTTTTCTTCGGATTTTCATTTC 59.410 33.333 0.00 0.00 0.00 2.17
122 163 7.422399 TCGTCTTTTTCTTCGGATTTTCATTT 58.578 30.769 0.00 0.00 0.00 2.32
123 164 6.966021 TCGTCTTTTTCTTCGGATTTTCATT 58.034 32.000 0.00 0.00 0.00 2.57
124 165 6.426937 TCTCGTCTTTTTCTTCGGATTTTCAT 59.573 34.615 0.00 0.00 0.00 2.57
125 166 5.756347 TCTCGTCTTTTTCTTCGGATTTTCA 59.244 36.000 0.00 0.00 0.00 2.69
126 167 6.224420 TCTCGTCTTTTTCTTCGGATTTTC 57.776 37.500 0.00 0.00 0.00 2.29
127 168 5.334182 GCTCTCGTCTTTTTCTTCGGATTTT 60.334 40.000 0.00 0.00 0.00 1.82
128 169 4.152580 GCTCTCGTCTTTTTCTTCGGATTT 59.847 41.667 0.00 0.00 0.00 2.17
129 170 3.680458 GCTCTCGTCTTTTTCTTCGGATT 59.320 43.478 0.00 0.00 0.00 3.01
130 171 3.254892 GCTCTCGTCTTTTTCTTCGGAT 58.745 45.455 0.00 0.00 0.00 4.18
131 172 2.609737 GGCTCTCGTCTTTTTCTTCGGA 60.610 50.000 0.00 0.00 0.00 4.55
132 173 1.727335 GGCTCTCGTCTTTTTCTTCGG 59.273 52.381 0.00 0.00 0.00 4.30
133 174 2.404215 TGGCTCTCGTCTTTTTCTTCG 58.596 47.619 0.00 0.00 0.00 3.79
134 175 4.813296 TTTGGCTCTCGTCTTTTTCTTC 57.187 40.909 0.00 0.00 0.00 2.87
208 249 0.255890 TCATTTGCAGGCCTCCCTAC 59.744 55.000 0.00 0.00 40.33 3.18
250 291 0.251121 ATTCGCAACACATGGGGTCA 60.251 50.000 0.00 0.00 42.03 4.02
293 334 2.203167 CTCATGCATGGCCGCTCT 60.203 61.111 25.97 0.00 0.00 4.09
307 348 1.251527 GCTCCGTCCTCCTTGACTCA 61.252 60.000 0.00 0.00 32.97 3.41
334 375 1.215382 CATTGTCGTCGCTCCCTCA 59.785 57.895 0.00 0.00 0.00 3.86
344 385 4.149922 CGTAACACTTGTGATCATTGTCGT 59.850 41.667 7.83 0.00 0.00 4.34
422 463 2.870372 CTGGCGGTACTTGCAAGC 59.130 61.111 26.27 12.65 0.00 4.01
423 464 1.639298 GAGCTGGCGGTACTTGCAAG 61.639 60.000 24.84 24.84 36.43 4.01
424 465 1.671054 GAGCTGGCGGTACTTGCAA 60.671 57.895 0.00 0.00 0.00 4.08
425 466 2.047274 GAGCTGGCGGTACTTGCA 60.047 61.111 11.71 0.00 0.00 4.08
426 467 2.047274 TGAGCTGGCGGTACTTGC 60.047 61.111 0.00 0.00 0.00 4.01
427 468 1.741770 GGTGAGCTGGCGGTACTTG 60.742 63.158 0.00 0.00 0.00 3.16
431 472 2.603473 ACAGGTGAGCTGGCGGTA 60.603 61.111 16.69 0.00 0.00 4.02
432 473 4.320456 CACAGGTGAGCTGGCGGT 62.320 66.667 16.69 0.00 0.00 5.68
446 499 1.880796 CGTCGCTCACAACACCACA 60.881 57.895 0.00 0.00 0.00 4.17
474 527 1.909302 CACTACATTCCCTGGTCCACT 59.091 52.381 0.00 0.00 0.00 4.00
475 528 1.679032 GCACTACATTCCCTGGTCCAC 60.679 57.143 0.00 0.00 0.00 4.02
504 557 1.008194 CAGCGCTTGCACAACATGT 60.008 52.632 7.50 0.00 42.66 3.21
530 583 1.303074 ACTGCTCTACGTCGTCCCA 60.303 57.895 0.00 0.00 0.00 4.37
535 588 1.154016 CCCACACTGCTCTACGTCG 60.154 63.158 0.00 0.00 0.00 5.12
547 600 3.502211 CACCTTTGTTAGATGTCCCACAC 59.498 47.826 0.00 0.00 0.00 3.82
552 605 2.307686 TCCCCACCTTTGTTAGATGTCC 59.692 50.000 0.00 0.00 0.00 4.02
583 636 2.273123 CTGCCAGCAGCCATACCA 59.727 61.111 6.72 0.00 42.71 3.25
591 644 2.864378 TTCGATCAGGCTGCCAGCAG 62.864 60.000 22.65 15.34 44.75 4.24
631 684 2.359850 GACCGATGCCAGCCAACA 60.360 61.111 0.00 0.00 0.00 3.33
657 710 2.465860 TCGGTTTGGACACTACCATG 57.534 50.000 0.00 0.00 39.82 3.66
726 779 1.260544 GGCACCAGGCTCTTGATTTT 58.739 50.000 0.00 0.00 44.01 1.82
734 787 2.281484 TGTTTCGGCACCAGGCTC 60.281 61.111 0.00 0.00 44.01 4.70
900 953 0.898326 ACGGGGAATTTGGCTGGAAC 60.898 55.000 0.00 0.00 0.00 3.62
1083 1155 1.392534 GGGGAGGAGTGGAGAGGAA 59.607 63.158 0.00 0.00 0.00 3.36
1087 1159 4.779733 GCGGGGGAGGAGTGGAGA 62.780 72.222 0.00 0.00 0.00 3.71
1105 1177 0.831966 CTGGCTGGATCTCTCTTGCT 59.168 55.000 0.00 0.00 0.00 3.91
1259 1998 0.670706 CATCGGAGAAGCATCGGAGA 59.329 55.000 0.00 0.00 43.58 3.71
1304 2364 1.028905 CCTCGCTGAAACCAACCAAA 58.971 50.000 0.00 0.00 0.00 3.28
1411 2471 1.064825 TGTCAAAGAGGGGAGGAACC 58.935 55.000 0.00 0.00 38.08 3.62
1413 2473 1.814429 TGTGTCAAAGAGGGGAGGAA 58.186 50.000 0.00 0.00 0.00 3.36
1421 2481 2.544685 CGGCCTAGATGTGTCAAAGAG 58.455 52.381 0.00 0.00 0.00 2.85
1426 2486 2.279502 GACGCGGCCTAGATGTGTCA 62.280 60.000 12.47 0.00 41.51 3.58
1427 2487 1.589196 GACGCGGCCTAGATGTGTC 60.589 63.158 12.47 3.06 36.17 3.67
1449 2509 2.889018 GGGTTAGCGCGGCAGTAC 60.889 66.667 8.83 0.18 0.00 2.73
1475 2535 3.558006 TGCGACTCTGAAATCAAAAACGA 59.442 39.130 0.00 0.00 0.00 3.85
1516 2576 2.965147 CCTCTTCTTCTCCTGGATCTCC 59.035 54.545 0.00 0.00 0.00 3.71
1727 2788 0.315382 GCGACGCAAATCGAATCAGG 60.315 55.000 16.42 0.00 45.13 3.86
1728 2789 0.369931 TGCGACGCAAATCGAATCAG 59.630 50.000 22.24 0.00 45.13 2.90
1729 2790 0.369931 CTGCGACGCAAATCGAATCA 59.630 50.000 24.51 0.00 45.13 2.57
1785 2846 1.361668 CGGCAACACCCTTCTCATCG 61.362 60.000 0.00 0.00 33.26 3.84
1788 2849 2.281484 GCGGCAACACCCTTCTCA 60.281 61.111 0.00 0.00 33.26 3.27
1825 2886 7.436673 GCACACAAACAAACCATTCATAAAGTA 59.563 33.333 0.00 0.00 0.00 2.24
1828 2889 6.257411 CAGCACACAAACAAACCATTCATAAA 59.743 34.615 0.00 0.00 0.00 1.40
1831 2892 4.121317 CAGCACACAAACAAACCATTCAT 58.879 39.130 0.00 0.00 0.00 2.57
1835 2896 2.233431 ACACAGCACACAAACAAACCAT 59.767 40.909 0.00 0.00 0.00 3.55
1861 2922 1.302591 ACGCACGGAGAGTCAGAGA 60.303 57.895 0.00 0.00 0.00 3.10
2057 3118 6.035650 CCAATAGCAATGTCAAAGCAATTCAG 59.964 38.462 3.15 0.00 0.00 3.02
2067 3129 4.910195 AGACTCACCAATAGCAATGTCAA 58.090 39.130 0.00 0.00 0.00 3.18
2112 3174 3.753815 TGTTCTCCTGCATCAACATCAA 58.246 40.909 0.00 0.00 0.00 2.57
2162 3224 1.536073 CCTCCACCTCTTCTGCGTCA 61.536 60.000 0.00 0.00 0.00 4.35
2165 3227 0.179089 CATCCTCCACCTCTTCTGCG 60.179 60.000 0.00 0.00 0.00 5.18
2189 3251 1.207791 CTGGCTTATCCACCTCCTGT 58.792 55.000 0.00 0.00 40.72 4.00
2292 3354 5.128663 ACCTGCCATTTACAAAACAGAAACT 59.871 36.000 0.00 0.00 0.00 2.66
2320 3384 2.088104 TGCCCAGGACAGATAGGTAG 57.912 55.000 0.00 0.00 0.00 3.18
2321 3385 2.116238 GTTGCCCAGGACAGATAGGTA 58.884 52.381 0.00 0.00 0.00 3.08
2322 3386 0.912486 GTTGCCCAGGACAGATAGGT 59.088 55.000 0.00 0.00 0.00 3.08
2323 3387 0.181350 GGTTGCCCAGGACAGATAGG 59.819 60.000 0.00 0.00 0.00 2.57
2450 3514 5.356190 GGCAGAAAGATTCAGTCATTCATCA 59.644 40.000 0.00 0.00 37.09 3.07
2483 3547 7.176515 AGGTAGTTTCACACATATTGCAAATGA 59.823 33.333 20.96 9.52 0.00 2.57
2507 3571 5.067023 GCTGAGACATTTATTTTGGGAGAGG 59.933 44.000 0.00 0.00 0.00 3.69
2508 3572 5.884792 AGCTGAGACATTTATTTTGGGAGAG 59.115 40.000 0.00 0.00 0.00 3.20
2509 3573 5.819991 AGCTGAGACATTTATTTTGGGAGA 58.180 37.500 0.00 0.00 0.00 3.71
2510 3574 6.521151 AAGCTGAGACATTTATTTTGGGAG 57.479 37.500 0.00 0.00 0.00 4.30
2512 3576 7.830739 ACTAAAGCTGAGACATTTATTTTGGG 58.169 34.615 2.97 0.00 0.00 4.12
2513 3577 9.774742 GTACTAAAGCTGAGACATTTATTTTGG 57.225 33.333 2.97 0.00 0.00 3.28
2517 3581 9.726438 AGTTGTACTAAAGCTGAGACATTTATT 57.274 29.630 2.97 0.00 0.00 1.40
2518 3582 9.726438 AAGTTGTACTAAAGCTGAGACATTTAT 57.274 29.630 2.97 0.00 0.00 1.40
2519 3583 9.555727 AAAGTTGTACTAAAGCTGAGACATTTA 57.444 29.630 2.97 0.00 0.00 1.40
2520 3584 8.345565 CAAAGTTGTACTAAAGCTGAGACATTT 58.654 33.333 2.97 0.97 0.00 2.32
2521 3585 7.499232 ACAAAGTTGTACTAAAGCTGAGACATT 59.501 33.333 2.97 0.00 40.16 2.71
2522 3586 6.992715 ACAAAGTTGTACTAAAGCTGAGACAT 59.007 34.615 2.97 0.00 40.16 3.06
2523 3587 6.346096 ACAAAGTTGTACTAAAGCTGAGACA 58.654 36.000 2.97 1.31 40.16 3.41
2524 3588 6.846325 ACAAAGTTGTACTAAAGCTGAGAC 57.154 37.500 2.97 0.00 40.16 3.36
2548 3612 9.944376 TGATCTCAACTTTGTACTAGCTTTAAT 57.056 29.630 0.00 0.00 0.00 1.40
2549 3613 9.772973 TTGATCTCAACTTTGTACTAGCTTTAA 57.227 29.630 0.00 0.00 0.00 1.52
2550 3614 9.424319 CTTGATCTCAACTTTGTACTAGCTTTA 57.576 33.333 0.00 0.00 0.00 1.85
2551 3615 8.150945 TCTTGATCTCAACTTTGTACTAGCTTT 58.849 33.333 0.00 0.00 0.00 3.51
2552 3616 7.671302 TCTTGATCTCAACTTTGTACTAGCTT 58.329 34.615 0.00 0.00 0.00 3.74
2553 3617 7.233389 TCTTGATCTCAACTTTGTACTAGCT 57.767 36.000 0.00 0.00 0.00 3.32
2554 3618 7.891183 TTCTTGATCTCAACTTTGTACTAGC 57.109 36.000 0.00 0.00 0.00 3.42
2560 3624 9.220767 GGTAACTATTCTTGATCTCAACTTTGT 57.779 33.333 0.00 0.00 0.00 2.83
2561 3625 8.669243 GGGTAACTATTCTTGATCTCAACTTTG 58.331 37.037 0.00 0.00 0.00 2.77
2562 3626 8.383175 TGGGTAACTATTCTTGATCTCAACTTT 58.617 33.333 0.00 0.00 0.00 2.66
2563 3627 7.918076 TGGGTAACTATTCTTGATCTCAACTT 58.082 34.615 0.00 0.00 0.00 2.66
2564 3628 7.496346 TGGGTAACTATTCTTGATCTCAACT 57.504 36.000 0.00 0.00 0.00 3.16
2659 4033 0.467384 CCTATCAGGGCCACTCACAG 59.533 60.000 6.18 0.00 0.00 3.66
2671 4045 6.851222 ACTTGTCGCAAAATATCCTATCAG 57.149 37.500 0.00 0.00 0.00 2.90
2684 4058 2.575694 ATTGTTGCAACTTGTCGCAA 57.424 40.000 28.61 14.11 45.45 4.85
2688 4062 3.798337 CAGGACAATTGTTGCAACTTGTC 59.202 43.478 34.60 34.60 40.49 3.18
2723 4097 0.034089 GCCCCATATACCATGGAGGC 60.034 60.000 21.47 13.94 43.25 4.70
2770 4144 1.999648 AATTGCAGAACCCTGAAGCA 58.000 45.000 0.00 0.00 43.02 3.91
2787 4161 9.516546 ACATCAGATATCAGTGATATGCAAAAT 57.483 29.630 26.72 11.88 35.64 1.82
2796 4170 9.926158 GTTATCTTGACATCAGATATCAGTGAT 57.074 33.333 11.12 11.12 33.52 3.06
2806 4180 5.645067 CAGCTTTGGTTATCTTGACATCAGA 59.355 40.000 0.00 0.00 0.00 3.27
2822 4196 5.633830 AACATTGACTGATACAGCTTTGG 57.366 39.130 0.00 0.00 34.37 3.28
2823 4197 7.810658 AGTAAACATTGACTGATACAGCTTTG 58.189 34.615 0.00 0.00 34.37 2.77
2824 4198 7.986085 AGTAAACATTGACTGATACAGCTTT 57.014 32.000 0.00 0.00 34.37 3.51
2829 4203 7.503521 TGCAAAGTAAACATTGACTGATACA 57.496 32.000 2.46 0.00 0.00 2.29
2838 4212 7.584987 ACTAAGTAGCTGCAAAGTAAACATTG 58.415 34.615 4.12 0.00 0.00 2.82
2849 4223 3.071023 ACAGGTCAACTAAGTAGCTGCAA 59.929 43.478 4.12 0.00 41.32 4.08
2851 4225 2.996621 CACAGGTCAACTAAGTAGCTGC 59.003 50.000 0.00 0.00 41.32 5.25
2864 4238 1.771854 TGGCCTTTTCTACACAGGTCA 59.228 47.619 3.32 0.00 40.10 4.02
2874 4248 3.584733 AAGTTCAGTCTGGCCTTTTCT 57.415 42.857 3.32 0.00 0.00 2.52
2877 4251 8.422577 AAATAATAAAGTTCAGTCTGGCCTTT 57.577 30.769 3.32 16.66 0.00 3.11
2958 4332 4.122046 GCCAAAAATATAAGCAAGCAGGG 58.878 43.478 0.00 0.00 0.00 4.45
2961 4335 4.465660 TCCAGCCAAAAATATAAGCAAGCA 59.534 37.500 0.00 0.00 0.00 3.91
2968 4342 9.120538 GAACTCTGTATCCAGCCAAAAATATAA 57.879 33.333 0.00 0.00 38.66 0.98
2977 4351 2.820178 TCTGAACTCTGTATCCAGCCA 58.180 47.619 0.00 0.00 38.66 4.75
2982 4356 3.769844 TCCCTGTTCTGAACTCTGTATCC 59.230 47.826 20.18 0.00 0.00 2.59
2999 4375 1.997311 TGGCACTCCCAGATCCCTG 60.997 63.158 0.00 0.00 39.18 4.45
3010 4386 2.816087 ACATTTCACTCACATGGCACTC 59.184 45.455 0.00 0.00 0.00 3.51
3032 4408 2.579873 CCGGGTCTCTATTCCGAAGTA 58.420 52.381 0.00 0.00 45.96 2.24
3034 4410 0.674534 CCCGGGTCTCTATTCCGAAG 59.325 60.000 14.18 0.00 45.96 3.79
3035 4411 0.757935 CCCCGGGTCTCTATTCCGAA 60.758 60.000 21.85 0.00 45.96 4.30
3036 4412 1.152610 CCCCGGGTCTCTATTCCGA 60.153 63.158 21.85 0.00 45.96 4.55
3037 4413 2.868986 GCCCCGGGTCTCTATTCCG 61.869 68.421 21.85 0.00 43.05 4.30
3038 4414 1.054978 AAGCCCCGGGTCTCTATTCC 61.055 60.000 21.85 0.00 0.00 3.01
3039 4415 0.837940 AAAGCCCCGGGTCTCTATTC 59.162 55.000 21.85 0.00 0.00 1.75
3041 4417 0.326238 TGAAAGCCCCGGGTCTCTAT 60.326 55.000 21.85 1.23 0.00 1.98
3042 4418 0.976073 CTGAAAGCCCCGGGTCTCTA 60.976 60.000 21.85 0.52 0.00 2.43
3044 4420 2.125766 AACTGAAAGCCCCGGGTCTC 62.126 60.000 21.85 10.46 37.60 3.36
3050 4427 2.484264 CTGAGTAAAACTGAAAGCCCCG 59.516 50.000 0.00 0.00 37.60 5.73
3087 4464 1.623311 TCCTGAACTGAAGGCGATTCA 59.377 47.619 3.31 3.31 45.79 2.57
3092 4469 1.004560 TGCTCCTGAACTGAAGGCG 60.005 57.895 0.00 0.00 34.56 5.52
3106 4483 1.878734 GATCCTGCAATTAGGCTGCTC 59.121 52.381 0.00 0.00 40.59 4.26
3120 4497 0.471191 TGGTGCTATGCTGGATCCTG 59.529 55.000 14.23 14.14 0.00 3.86
3130 4507 2.176273 GCCTGTCGCTGGTGCTATG 61.176 63.158 5.08 0.00 36.97 2.23
3139 4516 0.101399 CTGATAACTCGCCTGTCGCT 59.899 55.000 0.00 0.00 38.27 4.93
3140 4517 1.483424 GCTGATAACTCGCCTGTCGC 61.483 60.000 0.00 0.00 38.27 5.19
3280 4658 6.021596 GCATTAACTTGTATCAGACGGTTTG 58.978 40.000 0.00 0.00 31.78 2.93
3335 4713 9.905171 ATTAAGATTGTTCTTCTTTCTCTTTGC 57.095 29.630 0.00 0.00 41.36 3.68
3340 4718 7.677511 GCCGGATTAAGATTGTTCTTCTTTCTC 60.678 40.741 5.05 0.00 41.36 2.87
3391 4770 5.925506 TCTCACAATGCAATGGATTTCAT 57.074 34.783 6.73 0.00 37.79 2.57
3434 4813 2.770232 AGTTTTCGGGTCCTCGGATATT 59.230 45.455 0.00 0.00 0.00 1.28
3439 4818 0.389948 CAGAGTTTTCGGGTCCTCGG 60.390 60.000 0.00 0.00 0.00 4.63
3489 4868 6.120905 AGACTATACCCGCTACCATATACAG 58.879 44.000 0.00 0.00 0.00 2.74
3499 4878 3.382546 GGACAACAAGACTATACCCGCTA 59.617 47.826 0.00 0.00 0.00 4.26
3502 4881 3.194968 ACTGGACAACAAGACTATACCCG 59.805 47.826 0.00 0.00 0.00 5.28
3505 4884 4.392138 GCCAACTGGACAACAAGACTATAC 59.608 45.833 0.00 0.00 37.39 1.47
3507 4886 3.412386 GCCAACTGGACAACAAGACTAT 58.588 45.455 0.00 0.00 37.39 2.12
3544 4923 2.119495 AGACCGAGTCCTTATGCCATT 58.881 47.619 1.06 0.00 32.18 3.16
3551 4930 3.427573 TGTTGATCAGACCGAGTCCTTA 58.572 45.455 0.00 0.00 32.18 2.69
3570 4949 2.967076 CACGTTGTGCGCCTCTGT 60.967 61.111 4.18 0.00 46.11 3.41
3578 4957 0.730265 TGAACTCCAACACGTTGTGC 59.270 50.000 8.97 0.00 38.85 4.57
3582 4961 0.107410 TGGCTGAACTCCAACACGTT 60.107 50.000 0.00 0.00 0.00 3.99


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

AutoCloner maintained by Alex Coulton.