Multiple sequence alignment - TraesCS7D01G174400

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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 TraesCS7D01G174400 chr7D 100.000 3310 0 0 1 3310 126707837 126704528 0.000000e+00 6113.0
1 TraesCS7D01G174400 chr7D 88.838 1102 80 18 888 1978 126499118 126500187 0.000000e+00 1314.0
2 TraesCS7D01G174400 chr7D 91.841 527 28 9 2792 3310 575904415 575903896 0.000000e+00 721.0
3 TraesCS7D01G174400 chr7D 86.082 582 59 7 1 568 126661468 126662041 1.020000e-169 606.0
4 TraesCS7D01G174400 chr7D 93.243 222 13 2 2010 2230 126500186 126500406 3.190000e-85 326.0
5 TraesCS7D01G174400 chr7D 81.726 394 49 12 1 378 126483304 126483690 1.150000e-79 307.0
6 TraesCS7D01G174400 chr7B 94.238 1857 86 8 879 2729 88274070 88272229 0.000000e+00 2817.0
7 TraesCS7D01G174400 chr7B 91.861 1413 76 13 827 2230 87167552 87168934 0.000000e+00 1936.0
8 TraesCS7D01G174400 chr7B 88.387 155 6 5 677 830 87167124 87167267 3.390000e-40 176.0
9 TraesCS7D01G174400 chr5D 92.220 527 24 8 2792 3310 274776631 274777148 0.000000e+00 730.0
10 TraesCS7D01G174400 chr5D 93.333 45 1 2 2646 2689 408570163 408570206 7.670000e-07 65.8
11 TraesCS7D01G174400 chr6D 89.725 545 23 7 2792 3308 412444280 412444819 0.000000e+00 665.0
12 TraesCS7D01G174400 chr1D 89.130 552 25 9 2788 3310 229878084 229878629 0.000000e+00 654.0
13 TraesCS7D01G174400 chr6B 86.754 536 48 9 2795 3310 703364377 703363845 2.860000e-160 575.0
14 TraesCS7D01G174400 chr6B 86.364 550 42 10 2792 3310 256018326 256017779 1.330000e-158 569.0
15 TraesCS7D01G174400 chr7A 85.320 579 52 10 205 782 127636365 127635819 4.790000e-158 568.0
16 TraesCS7D01G174400 chr7A 92.913 127 8 1 1 127 127588589 127588714 2.030000e-42 183.0
17 TraesCS7D01G174400 chr7A 76.531 196 43 3 157 351 22669804 22669611 1.620000e-18 104.0
18 TraesCS7D01G174400 chr7A 90.196 51 5 0 2638 2688 487731664 487731614 2.130000e-07 67.6
19 TraesCS7D01G174400 chr1B 86.194 536 50 10 2792 3307 534242932 534243463 2.880000e-155 558.0
20 TraesCS7D01G174400 chr1B 84.230 539 58 11 2792 3310 631890694 631891225 1.770000e-137 499.0
21 TraesCS7D01G174400 chr1B 91.584 202 17 0 2792 2993 534244206 534244005 2.520000e-71 279.0
22 TraesCS7D01G174400 chr3D 85.343 539 55 10 2792 3310 185061087 185061621 1.350000e-148 536.0
23 TraesCS7D01G174400 chr3D 90.431 209 19 1 2785 2993 185062369 185062162 1.170000e-69 274.0
24 TraesCS7D01G174400 chr3D 82.653 98 17 0 2634 2731 291972256 291972159 1.640000e-13 87.9
25 TraesCS7D01G174400 chr3D 74.178 213 49 5 145 355 527505022 527505230 2.120000e-12 84.2
26 TraesCS7D01G174400 chr4A 84.601 539 58 10 2792 3310 665517667 665517134 2.280000e-141 512.0
27 TraesCS7D01G174400 chr3B 85.882 85 12 0 292 376 556963510 556963426 1.260000e-14 91.6
28 TraesCS7D01G174400 chr3B 80.682 88 17 0 2642 2729 11578973 11579060 5.930000e-08 69.4
29 TraesCS7D01G174400 chr3B 97.143 35 1 0 2725 2759 368935405 368935371 3.570000e-05 60.2
30 TraesCS7D01G174400 chr2D 92.857 56 4 0 2634 2689 562856213 562856158 7.610000e-12 82.4
31 TraesCS7D01G174400 chr6A 97.368 38 1 0 2652 2689 330392936 330392899 7.670000e-07 65.8
32 TraesCS7D01G174400 chr3A 84.127 63 7 3 2727 2789 69057513 69057454 1.280000e-04 58.4


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 TraesCS7D01G174400 chr7D 126704528 126707837 3309 True 6113 6113 100.0000 1 3310 1 chr7D.!!$R1 3309
1 TraesCS7D01G174400 chr7D 126499118 126500406 1288 False 820 1314 91.0405 888 2230 2 chr7D.!!$F3 1342
2 TraesCS7D01G174400 chr7D 575903896 575904415 519 True 721 721 91.8410 2792 3310 1 chr7D.!!$R2 518
3 TraesCS7D01G174400 chr7D 126661468 126662041 573 False 606 606 86.0820 1 568 1 chr7D.!!$F2 567
4 TraesCS7D01G174400 chr7B 88272229 88274070 1841 True 2817 2817 94.2380 879 2729 1 chr7B.!!$R1 1850
5 TraesCS7D01G174400 chr7B 87167124 87168934 1810 False 1056 1936 90.1240 677 2230 2 chr7B.!!$F1 1553
6 TraesCS7D01G174400 chr5D 274776631 274777148 517 False 730 730 92.2200 2792 3310 1 chr5D.!!$F1 518
7 TraesCS7D01G174400 chr6D 412444280 412444819 539 False 665 665 89.7250 2792 3308 1 chr6D.!!$F1 516
8 TraesCS7D01G174400 chr1D 229878084 229878629 545 False 654 654 89.1300 2788 3310 1 chr1D.!!$F1 522
9 TraesCS7D01G174400 chr6B 703363845 703364377 532 True 575 575 86.7540 2795 3310 1 chr6B.!!$R2 515
10 TraesCS7D01G174400 chr6B 256017779 256018326 547 True 569 569 86.3640 2792 3310 1 chr6B.!!$R1 518
11 TraesCS7D01G174400 chr7A 127635819 127636365 546 True 568 568 85.3200 205 782 1 chr7A.!!$R2 577
12 TraesCS7D01G174400 chr1B 534242932 534243463 531 False 558 558 86.1940 2792 3307 1 chr1B.!!$F1 515
13 TraesCS7D01G174400 chr1B 631890694 631891225 531 False 499 499 84.2300 2792 3310 1 chr1B.!!$F2 518
14 TraesCS7D01G174400 chr3D 185061087 185061621 534 False 536 536 85.3430 2792 3310 1 chr3D.!!$F1 518
15 TraesCS7D01G174400 chr4A 665517134 665517667 533 True 512 512 84.6010 2792 3310 1 chr4A.!!$R1 518

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
529 543 0.317519 CCCTTCCAACGACGTTTTGC 60.318 55.0 11.24 0.0 0.0 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2315 2637 0.246635 CCCTTGTCGATTCGGTCAGT 59.753 55.0 6.18 0.0 0.0 3.41 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
27 28 6.815142 ACAAGTATGAGGTACGGTACAAAATC 59.185 38.462 19.14 11.45 38.38 2.17
30 31 4.603989 TGAGGTACGGTACAAAATCACA 57.396 40.909 19.14 4.47 0.00 3.58
38 39 6.445357 ACGGTACAAAATCACAAAAAGAGT 57.555 33.333 0.00 0.00 0.00 3.24
42 43 7.911205 CGGTACAAAATCACAAAAAGAGTTACA 59.089 33.333 0.00 0.00 0.00 2.41
96 97 9.935241 CACAAATAAGACTAGATGCCTATACAT 57.065 33.333 0.00 0.00 0.00 2.29
135 149 2.535984 CGTCATCCAAATCTCGTGCTAC 59.464 50.000 0.00 0.00 0.00 3.58
142 156 4.051922 CCAAATCTCGTGCTACCATCTAC 58.948 47.826 0.00 0.00 0.00 2.59
150 164 1.479323 TGCTACCATCTACCAACGGTC 59.521 52.381 0.00 0.00 37.09 4.79
162 176 1.019278 CAACGGTCGCAGCCATAAGT 61.019 55.000 0.00 0.00 0.00 2.24
163 177 0.321298 AACGGTCGCAGCCATAAGTT 60.321 50.000 0.00 0.00 0.00 2.66
182 196 8.725148 CATAAGTTATATGCTCATTGACTTCCC 58.275 37.037 0.00 0.00 0.00 3.97
186 200 0.770499 TGCTCATTGACTTCCCCACA 59.230 50.000 0.00 0.00 0.00 4.17
196 210 2.237392 GACTTCCCCACAGCTGAGTAAT 59.763 50.000 23.35 0.00 0.00 1.89
224 238 2.496899 ACGGATCCATGAAGTTGCTT 57.503 45.000 13.41 0.00 0.00 3.91
318 332 2.351738 GCCCAAAGTAATGCACACACTC 60.352 50.000 0.00 0.00 0.00 3.51
320 334 4.323417 CCCAAAGTAATGCACACACTCTA 58.677 43.478 0.00 0.00 0.00 2.43
355 369 2.029623 TGCTAGTTTAGGCTCTACCCG 58.970 52.381 0.00 0.00 40.58 5.28
369 383 3.371965 TCTACCCGATTTAGCCAAGTCT 58.628 45.455 0.00 0.00 0.00 3.24
398 412 2.943033 AGTGTCTATGTTATTTGCCGGC 59.057 45.455 22.73 22.73 0.00 6.13
400 414 1.263217 GTCTATGTTATTTGCCGGCCG 59.737 52.381 26.77 21.04 0.00 6.13
414 428 3.508840 GCCGGACATTGAAGGCCG 61.509 66.667 5.05 0.29 43.54 6.13
421 435 2.751436 ATTGAAGGCCGCATGCGT 60.751 55.556 35.55 19.77 42.61 5.24
442 456 0.400594 GTGCCCCAAAGTAGTCTGGT 59.599 55.000 0.00 0.00 0.00 4.00
454 468 1.435256 AGTCTGGTTAGTGGGCAGTT 58.565 50.000 0.00 0.00 0.00 3.16
461 475 3.079578 GGTTAGTGGGCAGTTTAGGAAC 58.920 50.000 0.00 0.00 35.97 3.62
474 488 5.530915 CAGTTTAGGAACAGGTGTTGAATCA 59.469 40.000 0.00 0.00 38.56 2.57
500 514 4.637091 TCATCATGATCGCAGAAACAACAT 59.363 37.500 4.86 0.00 43.58 2.71
505 519 5.437289 TGATCGCAGAAACAACATCTTTT 57.563 34.783 0.00 0.00 43.58 2.27
514 528 5.598417 AGAAACAACATCTTTTGCTACCCTT 59.402 36.000 0.00 0.00 0.00 3.95
522 536 1.886886 TTTGCTACCCTTCCAACGAC 58.113 50.000 0.00 0.00 0.00 4.34
529 543 0.317519 CCCTTCCAACGACGTTTTGC 60.318 55.000 11.24 0.00 0.00 3.68
536 550 0.812549 AACGACGTTTTGCCAGGTTT 59.187 45.000 7.57 0.00 0.00 3.27
538 552 1.202211 ACGACGTTTTGCCAGGTTTTC 60.202 47.619 0.00 0.00 0.00 2.29
549 563 4.787551 TGCCAGGTTTTCTTTAGTCAAGA 58.212 39.130 0.00 0.00 39.99 3.02
627 645 9.559958 CTTAATTTTTCTGATGTGTAGCGATTT 57.440 29.630 0.00 0.00 0.00 2.17
658 676 9.014297 GCTAAATGGATATAGCCTTTTACACAT 57.986 33.333 18.98 3.24 38.85 3.21
720 738 7.420214 GGGGAAAGAAAGAAGGAAAGGAAAATT 60.420 37.037 0.00 0.00 0.00 1.82
730 748 7.563556 AGAAGGAAAGGAAAATTAGTTTGTGGA 59.436 33.333 0.00 0.00 0.00 4.02
735 753 8.731275 AAAGGAAAATTAGTTTGTGGAAAAGG 57.269 30.769 0.00 0.00 0.00 3.11
736 754 7.669089 AGGAAAATTAGTTTGTGGAAAAGGA 57.331 32.000 0.00 0.00 0.00 3.36
756 775 9.588096 AAAAGGAGTAGTAAATTCATGTTTCCT 57.412 29.630 0.00 0.00 0.00 3.36
757 776 9.588096 AAAGGAGTAGTAAATTCATGTTTCCTT 57.412 29.630 0.00 0.00 33.38 3.36
758 777 8.794335 AGGAGTAGTAAATTCATGTTTCCTTC 57.206 34.615 0.00 0.00 0.00 3.46
759 778 7.829706 AGGAGTAGTAAATTCATGTTTCCTTCC 59.170 37.037 0.00 0.00 0.00 3.46
760 779 7.829706 GGAGTAGTAAATTCATGTTTCCTTCCT 59.170 37.037 0.00 0.00 0.00 3.36
761 780 9.886132 GAGTAGTAAATTCATGTTTCCTTCCTA 57.114 33.333 0.00 0.00 0.00 2.94
783 802 2.435805 AGTTTCTCTCCTTGTGTCAGCA 59.564 45.455 0.00 0.00 0.00 4.41
802 821 3.523606 CAGAAGCTGATCTGCACTAGT 57.476 47.619 24.33 2.60 40.31 2.57
803 822 4.645762 CAGAAGCTGATCTGCACTAGTA 57.354 45.455 24.33 0.00 40.31 1.82
804 823 4.358851 CAGAAGCTGATCTGCACTAGTAC 58.641 47.826 24.33 8.73 40.31 2.73
853 1160 4.363999 CTCGTTGATCTGTACTTCCATCC 58.636 47.826 0.00 0.00 0.00 3.51
863 1170 3.637229 TGTACTTCCATCCTCCGATCTTC 59.363 47.826 0.00 0.00 0.00 2.87
1049 1357 0.040067 GAACCCGCTTTGCTCAAGTG 60.040 55.000 3.51 3.51 42.00 3.16
1050 1358 0.751643 AACCCGCTTTGCTCAAGTGT 60.752 50.000 8.41 0.00 40.91 3.55
1108 1416 2.665185 AACAAGACTGACGGCGGC 60.665 61.111 13.24 9.67 0.00 6.53
1111 1419 4.295119 AAGACTGACGGCGGCGTT 62.295 61.111 37.69 23.06 0.00 4.84
1173 1481 1.364653 CGCGACGACTACGAGTACG 60.365 63.158 0.00 0.00 42.66 3.67
1174 1482 1.733416 CGCGACGACTACGAGTACGA 61.733 60.000 0.00 0.00 42.66 3.43
1175 1483 0.044330 GCGACGACTACGAGTACGAG 60.044 60.000 0.00 0.00 42.66 4.18
1176 1484 1.263776 CGACGACTACGAGTACGAGT 58.736 55.000 0.00 2.13 42.66 4.18
1177 1485 2.441462 CGACGACTACGAGTACGAGTA 58.559 52.381 0.00 4.00 42.66 2.59
1178 1486 2.212245 CGACGACTACGAGTACGAGTAC 59.788 54.545 5.32 5.32 42.66 2.73
1225 1533 0.175073 GGCGTCTACTTCAACCCGAT 59.825 55.000 0.00 0.00 0.00 4.18
1662 1973 2.876879 CGCAACGACGGCAAGAACA 61.877 57.895 0.00 0.00 0.00 3.18
2124 2445 1.215647 GCCGACACGTCTTGGATCT 59.784 57.895 0.49 0.00 0.00 2.75
2233 2555 6.205071 GTTCCGTCCGTGGTTTTAATTTTTA 58.795 36.000 0.00 0.00 0.00 1.52
2234 2556 6.382869 TCCGTCCGTGGTTTTAATTTTTAA 57.617 33.333 0.00 0.00 0.00 1.52
2235 2557 6.205071 TCCGTCCGTGGTTTTAATTTTTAAC 58.795 36.000 0.00 0.00 0.00 2.01
2238 2560 7.222417 CCGTCCGTGGTTTTAATTTTTAACTTT 59.778 33.333 0.00 0.00 0.00 2.66
2239 2561 8.593842 CGTCCGTGGTTTTAATTTTTAACTTTT 58.406 29.630 0.00 0.00 0.00 2.27
2278 2600 6.796705 AATTTAGTTGAACTAGAACCACGG 57.203 37.500 5.10 0.00 31.47 4.94
2294 2616 3.882888 ACCACGGCAAGTATTATGGAATG 59.117 43.478 0.00 0.00 0.00 2.67
2295 2617 3.253188 CCACGGCAAGTATTATGGAATGG 59.747 47.826 0.00 0.00 0.00 3.16
2315 2637 5.176741 TGGAAGGCGTAGGGTTAATAAAA 57.823 39.130 0.00 0.00 0.00 1.52
2317 2639 5.188434 GGAAGGCGTAGGGTTAATAAAACT 58.812 41.667 0.00 0.00 0.00 2.66
2321 2643 4.333649 GGCGTAGGGTTAATAAAACTGACC 59.666 45.833 0.00 0.00 0.00 4.02
2322 2644 4.033243 GCGTAGGGTTAATAAAACTGACCG 59.967 45.833 0.00 0.00 0.00 4.79
2329 2652 6.456047 GGGTTAATAAAACTGACCGAATCGAC 60.456 42.308 3.36 0.00 0.00 4.20
2347 2670 3.826157 TCGACAAGGGCATTCTTTCATTT 59.174 39.130 0.00 0.00 0.00 2.32
2348 2671 5.007034 TCGACAAGGGCATTCTTTCATTTA 58.993 37.500 0.00 0.00 0.00 1.40
2371 2694 8.825667 TTAATTCTTTTAATTCTTGTGGTGGC 57.174 30.769 0.00 0.00 0.00 5.01
2376 2699 7.957002 TCTTTTAATTCTTGTGGTGGCAATTA 58.043 30.769 0.00 0.00 0.00 1.40
2425 2748 1.597742 AGATGATACCCATGCGTTGC 58.402 50.000 0.00 0.00 35.17 4.17
2444 2767 4.753516 TGCCGTGGGATTGGATATATAG 57.246 45.455 0.00 0.00 0.00 1.31
2498 2821 4.698201 TTACAATTGGGACTGTGTGAGA 57.302 40.909 10.83 0.00 0.00 3.27
2569 2892 6.212235 TGTCACAATAAATGCAACGTGATTT 58.788 32.000 0.00 0.00 35.96 2.17
2587 2914 8.926710 ACGTGATTTAAAACTCAGAACATCTAG 58.073 33.333 0.00 0.00 0.00 2.43
2588 2915 8.383619 CGTGATTTAAAACTCAGAACATCTAGG 58.616 37.037 0.00 0.00 0.00 3.02
2590 2917 8.383175 TGATTTAAAACTCAGAACATCTAGGGT 58.617 33.333 0.00 0.00 0.00 4.34
2597 2924 1.689273 AGAACATCTAGGGTCGGCATC 59.311 52.381 0.00 0.00 0.00 3.91
2600 2927 1.051812 CATCTAGGGTCGGCATCCTT 58.948 55.000 0.00 0.00 34.75 3.36
2616 2943 2.853705 TCCTTAAACCCTCCACAAACG 58.146 47.619 0.00 0.00 0.00 3.60
2618 2945 2.551032 CCTTAAACCCTCCACAAACGTC 59.449 50.000 0.00 0.00 0.00 4.34
2627 2954 1.866237 CACAAACGTCCGTGGATGG 59.134 57.895 12.54 1.18 35.58 3.51
2628 2955 0.601576 CACAAACGTCCGTGGATGGA 60.602 55.000 12.54 0.00 35.58 3.41
2643 2970 1.276421 GATGGACCCGATATGTCTGGG 59.724 57.143 14.69 14.69 41.23 4.45
2644 2971 0.762842 TGGACCCGATATGTCTGGGG 60.763 60.000 18.55 11.20 45.55 4.96
2660 2987 3.998672 GGTGTCCGCGAACCCTCA 61.999 66.667 8.23 0.00 0.00 3.86
2665 2992 1.217882 GTCCGCGAACCCTCATATTG 58.782 55.000 8.23 0.00 0.00 1.90
2689 3016 6.107901 AGGACAAATGTAGAGAGGATATGC 57.892 41.667 0.00 0.00 0.00 3.14
2691 3018 5.509840 GGACAAATGTAGAGAGGATATGCGT 60.510 44.000 0.00 0.00 0.00 5.24
2696 3023 2.522836 AGAGAGGATATGCGTGCTTG 57.477 50.000 0.00 0.00 0.00 4.01
2708 3035 2.049156 TGCTTGCAGACTCGTCCG 60.049 61.111 0.00 0.00 0.00 4.79
2709 3036 2.811317 GCTTGCAGACTCGTCCGG 60.811 66.667 0.00 0.00 0.00 5.14
2712 3039 2.142357 CTTGCAGACTCGTCCGGTCA 62.142 60.000 0.00 0.00 36.29 4.02
2716 3043 2.033755 AGACTCGTCCGGTCAGTCG 61.034 63.158 18.34 10.39 41.32 4.18
2737 3064 3.314541 GCCACGTAGGACATATAAGGG 57.685 52.381 8.04 0.00 41.22 3.95
2738 3065 2.895404 GCCACGTAGGACATATAAGGGA 59.105 50.000 8.04 0.00 41.22 4.20
2739 3066 3.056749 GCCACGTAGGACATATAAGGGAG 60.057 52.174 8.04 0.00 41.22 4.30
2740 3067 4.404640 CCACGTAGGACATATAAGGGAGA 58.595 47.826 0.00 0.00 41.22 3.71
2741 3068 4.831155 CCACGTAGGACATATAAGGGAGAA 59.169 45.833 0.00 0.00 41.22 2.87
2742 3069 5.303589 CCACGTAGGACATATAAGGGAGAAA 59.696 44.000 0.00 0.00 41.22 2.52
2743 3070 6.183360 CCACGTAGGACATATAAGGGAGAAAA 60.183 42.308 0.00 0.00 41.22 2.29
2744 3071 7.442656 CACGTAGGACATATAAGGGAGAAAAT 58.557 38.462 0.00 0.00 0.00 1.82
2745 3072 7.385205 CACGTAGGACATATAAGGGAGAAAATG 59.615 40.741 0.00 0.00 0.00 2.32
2746 3073 7.289317 ACGTAGGACATATAAGGGAGAAAATGA 59.711 37.037 0.00 0.00 0.00 2.57
2747 3074 7.815068 CGTAGGACATATAAGGGAGAAAATGAG 59.185 40.741 0.00 0.00 0.00 2.90
2748 3075 7.937700 AGGACATATAAGGGAGAAAATGAGA 57.062 36.000 0.00 0.00 0.00 3.27
2749 3076 8.337118 AGGACATATAAGGGAGAAAATGAGAA 57.663 34.615 0.00 0.00 0.00 2.87
2750 3077 8.435982 AGGACATATAAGGGAGAAAATGAGAAG 58.564 37.037 0.00 0.00 0.00 2.85
2751 3078 8.214364 GGACATATAAGGGAGAAAATGAGAAGT 58.786 37.037 0.00 0.00 0.00 3.01
2758 3085 8.517062 AAGGGAGAAAATGAGAAGTATGATTG 57.483 34.615 0.00 0.00 0.00 2.67
2759 3086 6.545298 AGGGAGAAAATGAGAAGTATGATTGC 59.455 38.462 0.00 0.00 0.00 3.56
2760 3087 6.238869 GGGAGAAAATGAGAAGTATGATTGCC 60.239 42.308 0.00 0.00 0.00 4.52
2761 3088 6.545298 GGAGAAAATGAGAAGTATGATTGCCT 59.455 38.462 0.00 0.00 0.00 4.75
2762 3089 7.716998 GGAGAAAATGAGAAGTATGATTGCCTA 59.283 37.037 0.00 0.00 0.00 3.93
2763 3090 8.674263 AGAAAATGAGAAGTATGATTGCCTAG 57.326 34.615 0.00 0.00 0.00 3.02
2764 3091 8.489489 AGAAAATGAGAAGTATGATTGCCTAGA 58.511 33.333 0.00 0.00 0.00 2.43
2765 3092 9.282569 GAAAATGAGAAGTATGATTGCCTAGAT 57.717 33.333 0.00 0.00 0.00 1.98
2766 3093 8.618702 AAATGAGAAGTATGATTGCCTAGATG 57.381 34.615 0.00 0.00 0.00 2.90
2767 3094 6.106648 TGAGAAGTATGATTGCCTAGATGG 57.893 41.667 0.00 0.00 39.35 3.51
2768 3095 5.840693 TGAGAAGTATGATTGCCTAGATGGA 59.159 40.000 0.00 0.00 38.35 3.41
2769 3096 6.107901 AGAAGTATGATTGCCTAGATGGAC 57.892 41.667 0.00 0.00 38.35 4.02
2770 3097 5.604231 AGAAGTATGATTGCCTAGATGGACA 59.396 40.000 0.00 0.00 38.35 4.02
2771 3098 5.894298 AGTATGATTGCCTAGATGGACAA 57.106 39.130 0.00 0.00 38.35 3.18
2772 3099 6.252599 AGTATGATTGCCTAGATGGACAAA 57.747 37.500 0.00 0.00 36.18 2.83
2773 3100 6.845908 AGTATGATTGCCTAGATGGACAAAT 58.154 36.000 0.00 0.00 36.18 2.32
2774 3101 7.977818 AGTATGATTGCCTAGATGGACAAATA 58.022 34.615 0.00 0.00 36.18 1.40
2775 3102 8.099537 AGTATGATTGCCTAGATGGACAAATAG 58.900 37.037 0.00 0.00 36.18 1.73
2776 3103 6.499106 TGATTGCCTAGATGGACAAATAGA 57.501 37.500 0.00 0.00 36.18 1.98
2777 3104 7.083062 TGATTGCCTAGATGGACAAATAGAT 57.917 36.000 0.00 0.00 36.18 1.98
2778 3105 8.206126 TGATTGCCTAGATGGACAAATAGATA 57.794 34.615 0.00 0.00 36.18 1.98
2779 3106 8.659527 TGATTGCCTAGATGGACAAATAGATAA 58.340 33.333 0.00 0.00 36.18 1.75
2780 3107 9.160496 GATTGCCTAGATGGACAAATAGATAAG 57.840 37.037 0.00 0.00 36.18 1.73
2781 3108 6.467677 TGCCTAGATGGACAAATAGATAAGC 58.532 40.000 0.00 0.00 38.35 3.09
2782 3109 6.043127 TGCCTAGATGGACAAATAGATAAGCA 59.957 38.462 0.00 0.00 38.35 3.91
2783 3110 7.108847 GCCTAGATGGACAAATAGATAAGCAT 58.891 38.462 0.00 0.00 38.35 3.79
2784 3111 8.260818 GCCTAGATGGACAAATAGATAAGCATA 58.739 37.037 0.00 0.00 38.35 3.14
2827 3154 2.414612 ACCACCACTTTGAGGGTTAGA 58.585 47.619 0.00 0.00 34.45 2.10
2879 3206 2.158769 TGCAGAAGACACCACATCTTGT 60.159 45.455 0.00 0.00 36.53 3.16
2907 3234 6.601741 TTGTTTTGCAAAAATCACTGATCC 57.398 33.333 25.40 10.05 33.53 3.36
2937 3264 5.903010 TCTGGCCCTGTTAAGTGAGATTATA 59.097 40.000 0.00 0.00 0.00 0.98
3033 3361 1.694150 CAGTCAGTTGGGTCTTCTCCA 59.306 52.381 0.00 0.00 0.00 3.86
3057 3413 9.933723 CCACCAATTCTTCTTTCTATCAAAAAT 57.066 29.630 0.00 0.00 0.00 1.82
3113 3469 0.309302 CGCCGGTCAAATTTGTCACA 59.691 50.000 17.47 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 5.700402 AGGCATCTAGTCTTATTTGTGGT 57.300 39.130 0.00 0.00 0.00 4.16
69 70 8.367911 TGTATAGGCATCTAGTCTTATTTGTGG 58.632 37.037 0.00 0.00 31.94 4.17
96 97 7.993758 TGGATGACGGTCCAACAATAAAATATA 59.006 33.333 5.55 0.00 45.03 0.86
101 102 4.022413 TGGATGACGGTCCAACAATAAA 57.978 40.909 5.55 0.00 45.03 1.40
102 103 3.704800 TGGATGACGGTCCAACAATAA 57.295 42.857 5.55 0.00 45.03 1.40
127 141 1.133598 CGTTGGTAGATGGTAGCACGA 59.866 52.381 0.00 0.00 0.00 4.35
135 149 0.806102 CTGCGACCGTTGGTAGATGG 60.806 60.000 0.00 0.00 35.25 3.51
142 156 1.705337 CTTATGGCTGCGACCGTTGG 61.705 60.000 0.00 0.00 0.00 3.77
150 164 3.996363 TGAGCATATAACTTATGGCTGCG 59.004 43.478 12.14 0.00 32.60 5.18
162 176 5.104151 TGTGGGGAAGTCAATGAGCATATAA 60.104 40.000 0.00 0.00 0.00 0.98
163 177 4.411869 TGTGGGGAAGTCAATGAGCATATA 59.588 41.667 0.00 0.00 0.00 0.86
182 196 2.350522 GTGGTCATTACTCAGCTGTGG 58.649 52.381 19.27 13.13 0.00 4.17
186 200 2.159421 CGTACGTGGTCATTACTCAGCT 60.159 50.000 7.22 0.00 0.00 4.24
196 210 0.458260 CATGGATCCGTACGTGGTCA 59.542 55.000 15.21 7.71 0.00 4.02
285 299 7.828223 TGCATTACTTTGGGCAATATGAAATTT 59.172 29.630 0.00 0.00 32.54 1.82
286 300 7.280652 GTGCATTACTTTGGGCAATATGAAATT 59.719 33.333 0.00 0.00 38.10 1.82
287 301 6.762661 GTGCATTACTTTGGGCAATATGAAAT 59.237 34.615 0.00 0.00 38.10 2.17
290 304 4.708909 TGTGCATTACTTTGGGCAATATGA 59.291 37.500 0.00 0.00 38.10 2.15
318 332 2.398498 AGCAGCGCATATTCGAGTTAG 58.602 47.619 11.47 0.00 0.00 2.34
320 334 2.223829 ACTAGCAGCGCATATTCGAGTT 60.224 45.455 11.47 0.00 0.00 3.01
355 369 7.550906 ACACTCTATTTGAGACTTGGCTAAATC 59.449 37.037 2.03 0.00 45.39 2.17
369 383 9.109393 GGCAAATAACATAGACACTCTATTTGA 57.891 33.333 13.70 0.00 37.58 2.69
398 412 3.508840 GCGGCCTTCAATGTCCGG 61.509 66.667 0.00 0.00 41.96 5.14
400 414 1.434696 CATGCGGCCTTCAATGTCC 59.565 57.895 0.00 0.00 0.00 4.02
414 428 3.512223 TTTGGGGCACAACGCATGC 62.512 57.895 7.91 7.91 45.17 4.06
421 435 1.202879 CCAGACTACTTTGGGGCACAA 60.203 52.381 0.00 0.00 37.28 3.33
427 441 3.307480 CCCACTAACCAGACTACTTTGGG 60.307 52.174 0.00 0.00 38.82 4.12
442 456 3.244770 CCTGTTCCTAAACTGCCCACTAA 60.245 47.826 0.00 0.00 36.30 2.24
454 468 6.775142 TGAATTGATTCAACACCTGTTCCTAA 59.225 34.615 0.15 0.00 43.26 2.69
474 488 5.823209 TGTTTCTGCGATCATGATGAATT 57.177 34.783 14.30 0.00 0.00 2.17
500 514 2.105134 TCGTTGGAAGGGTAGCAAAAGA 59.895 45.455 0.00 0.00 0.00 2.52
505 519 1.290955 CGTCGTTGGAAGGGTAGCA 59.709 57.895 0.00 0.00 0.00 3.49
514 528 1.440938 CCTGGCAAAACGTCGTTGGA 61.441 55.000 12.12 0.00 0.00 3.53
522 536 4.678622 ACTAAAGAAAACCTGGCAAAACG 58.321 39.130 0.00 0.00 0.00 3.60
598 616 9.594478 TCGCTACACATCAGAAAAATTAAGATA 57.406 29.630 0.00 0.00 0.00 1.98
599 617 8.492673 TCGCTACACATCAGAAAAATTAAGAT 57.507 30.769 0.00 0.00 0.00 2.40
609 627 3.689161 CCCAAAATCGCTACACATCAGAA 59.311 43.478 0.00 0.00 0.00 3.02
660 678 7.495934 GCTGCTGGATAGTACTCAAAATTAAGA 59.504 37.037 0.00 0.00 0.00 2.10
661 679 7.254932 GGCTGCTGGATAGTACTCAAAATTAAG 60.255 40.741 0.00 0.00 0.00 1.85
662 680 6.542370 GGCTGCTGGATAGTACTCAAAATTAA 59.458 38.462 0.00 0.00 0.00 1.40
663 681 6.055588 GGCTGCTGGATAGTACTCAAAATTA 58.944 40.000 0.00 0.00 0.00 1.40
664 682 4.884164 GGCTGCTGGATAGTACTCAAAATT 59.116 41.667 0.00 0.00 0.00 1.82
665 683 4.164988 AGGCTGCTGGATAGTACTCAAAAT 59.835 41.667 0.00 0.00 0.00 1.82
666 684 3.519510 AGGCTGCTGGATAGTACTCAAAA 59.480 43.478 0.00 0.00 0.00 2.44
667 685 3.107601 AGGCTGCTGGATAGTACTCAAA 58.892 45.455 0.00 0.00 0.00 2.69
668 686 2.695666 GAGGCTGCTGGATAGTACTCAA 59.304 50.000 0.00 0.00 0.00 3.02
669 687 2.091610 AGAGGCTGCTGGATAGTACTCA 60.092 50.000 0.00 0.00 0.00 3.41
670 688 2.593026 AGAGGCTGCTGGATAGTACTC 58.407 52.381 0.00 0.00 0.00 2.59
671 689 2.765689 AGAGGCTGCTGGATAGTACT 57.234 50.000 0.00 0.00 0.00 2.73
672 690 3.723260 GAAAGAGGCTGCTGGATAGTAC 58.277 50.000 0.00 0.00 0.00 2.73
673 691 2.362397 CGAAAGAGGCTGCTGGATAGTA 59.638 50.000 0.00 0.00 0.00 1.82
674 692 1.137872 CGAAAGAGGCTGCTGGATAGT 59.862 52.381 0.00 0.00 0.00 2.12
675 693 1.539929 CCGAAAGAGGCTGCTGGATAG 60.540 57.143 0.00 0.00 0.00 2.08
720 738 9.856162 AATTTACTACTCCTTTTCCACAAACTA 57.144 29.630 0.00 0.00 0.00 2.24
726 744 8.336801 ACATGAATTTACTACTCCTTTTCCAC 57.663 34.615 0.00 0.00 0.00 4.02
730 748 9.588096 AGGAAACATGAATTTACTACTCCTTTT 57.412 29.630 0.00 0.00 30.52 2.27
735 753 8.794335 AGGAAGGAAACATGAATTTACTACTC 57.206 34.615 0.00 0.00 31.10 2.59
756 775 5.365605 TGACACAAGGAGAGAAACTTAGGAA 59.634 40.000 0.00 0.00 0.00 3.36
757 776 4.899457 TGACACAAGGAGAGAAACTTAGGA 59.101 41.667 0.00 0.00 0.00 2.94
758 777 5.215252 TGACACAAGGAGAGAAACTTAGG 57.785 43.478 0.00 0.00 0.00 2.69
759 778 4.688413 GCTGACACAAGGAGAGAAACTTAG 59.312 45.833 0.00 0.00 0.00 2.18
760 779 4.100963 TGCTGACACAAGGAGAGAAACTTA 59.899 41.667 0.00 0.00 0.00 2.24
761 780 3.118261 TGCTGACACAAGGAGAGAAACTT 60.118 43.478 0.00 0.00 0.00 2.66
762 781 2.435805 TGCTGACACAAGGAGAGAAACT 59.564 45.455 0.00 0.00 0.00 2.66
763 782 2.805099 CTGCTGACACAAGGAGAGAAAC 59.195 50.000 0.00 0.00 37.82 2.78
764 783 2.700371 TCTGCTGACACAAGGAGAGAAA 59.300 45.455 0.00 0.00 39.44 2.52
783 802 4.019858 TGTACTAGTGCAGATCAGCTTCT 58.980 43.478 9.84 11.50 34.99 2.85
801 820 2.489329 ACACATGCAGCAAATCCTGTAC 59.511 45.455 0.00 0.00 35.28 2.90
802 821 2.794103 ACACATGCAGCAAATCCTGTA 58.206 42.857 0.00 0.00 35.28 2.74
803 822 1.624336 ACACATGCAGCAAATCCTGT 58.376 45.000 0.00 0.00 35.28 4.00
804 823 2.230508 AGAACACATGCAGCAAATCCTG 59.769 45.455 0.00 0.00 35.93 3.86
863 1170 3.181526 CCGAAATTGCTTTCTCTCTGACG 60.182 47.826 0.00 0.00 38.91 4.35
1026 1334 1.959226 GAGCAAAGCGGGTTCGACA 60.959 57.895 0.00 0.00 39.00 4.35
1049 1357 2.602211 CGCTGTCATCATCAAGTCAGAC 59.398 50.000 0.00 0.00 0.00 3.51
1050 1358 2.493278 TCGCTGTCATCATCAAGTCAGA 59.507 45.455 0.00 0.00 0.00 3.27
1111 1419 4.365505 TGATGTTCGTCGGCGGCA 62.366 61.111 13.62 10.04 38.89 5.69
1173 1481 2.810403 CGCCGGGGTTAGGTACTC 59.190 66.667 11.01 0.00 41.75 2.59
1174 1482 3.464494 GCGCCGGGGTTAGGTACT 61.464 66.667 20.83 0.00 46.37 2.73
1175 1483 3.464494 AGCGCCGGGGTTAGGTAC 61.464 66.667 20.83 0.86 0.00 3.34
1176 1484 3.463585 CAGCGCCGGGGTTAGGTA 61.464 66.667 20.83 0.00 0.00 3.08
1313 1621 0.386478 GTTTGTCGCCGTAGACGTCT 60.386 55.000 23.66 23.66 43.70 4.18
1662 1973 3.917760 GTAGAGCGCGGGCAGGAT 61.918 66.667 27.20 11.20 43.41 3.24
2124 2445 2.030893 CCGTGTTCTGGTAGTGTTCGTA 60.031 50.000 0.00 0.00 0.00 3.43
2238 2560 9.331282 CAACTAAATTAAAACCATGGACCAAAA 57.669 29.630 21.47 6.26 0.00 2.44
2239 2561 8.705594 TCAACTAAATTAAAACCATGGACCAAA 58.294 29.630 21.47 7.76 0.00 3.28
2240 2562 8.251383 TCAACTAAATTAAAACCATGGACCAA 57.749 30.769 21.47 7.01 0.00 3.67
2241 2563 7.841282 TCAACTAAATTAAAACCATGGACCA 57.159 32.000 21.47 0.00 0.00 4.02
2276 2598 4.216257 CCTTCCATTCCATAATACTTGCCG 59.784 45.833 0.00 0.00 0.00 5.69
2278 2600 4.320494 CGCCTTCCATTCCATAATACTTGC 60.320 45.833 0.00 0.00 0.00 4.01
2294 2616 5.065602 CAGTTTTATTAACCCTACGCCTTCC 59.934 44.000 0.00 0.00 0.00 3.46
2295 2617 5.876460 TCAGTTTTATTAACCCTACGCCTTC 59.124 40.000 0.00 0.00 0.00 3.46
2315 2637 0.246635 CCCTTGTCGATTCGGTCAGT 59.753 55.000 6.18 0.00 0.00 3.41
2317 2639 1.079405 GCCCTTGTCGATTCGGTCA 60.079 57.895 6.18 3.71 0.00 4.02
2321 2643 1.656652 AGAATGCCCTTGTCGATTCG 58.343 50.000 0.00 0.00 31.38 3.34
2322 2644 3.440173 TGAAAGAATGCCCTTGTCGATTC 59.560 43.478 0.00 0.00 0.00 2.52
2329 2652 8.782339 AAGAATTAAATGAAAGAATGCCCTTG 57.218 30.769 0.00 0.00 0.00 3.61
2347 2670 7.957002 TGCCACCACAAGAATTAAAAGAATTA 58.043 30.769 0.00 0.00 0.00 1.40
2348 2671 6.825610 TGCCACCACAAGAATTAAAAGAATT 58.174 32.000 0.00 0.00 0.00 2.17
2401 2724 5.538118 CAACGCATGGGTATCATCTAGTTA 58.462 41.667 16.60 0.00 32.92 2.24
2425 2748 7.165485 TGAAAACTATATATCCAATCCCACGG 58.835 38.462 0.00 0.00 0.00 4.94
2473 2796 6.016360 TCTCACACAGTCCCAATTGTAAATTG 60.016 38.462 4.43 5.85 0.00 2.32
2479 2802 3.576078 TTCTCACACAGTCCCAATTGT 57.424 42.857 4.43 0.00 0.00 2.71
2486 2809 8.547967 TTATGTAGAAATTTCTCACACAGTCC 57.452 34.615 23.70 3.62 38.70 3.85
2487 2810 8.171840 GCTTATGTAGAAATTTCTCACACAGTC 58.828 37.037 23.70 14.96 38.70 3.51
2490 2813 7.977789 TGCTTATGTAGAAATTTCTCACACA 57.022 32.000 23.70 21.28 38.70 3.72
2558 2881 5.968848 TGTTCTGAGTTTTAAATCACGTTGC 59.031 36.000 0.00 0.00 0.00 4.17
2559 2882 8.070171 AGATGTTCTGAGTTTTAAATCACGTTG 58.930 33.333 0.00 0.00 0.00 4.10
2569 2892 5.105473 CCGACCCTAGATGTTCTGAGTTTTA 60.105 44.000 0.00 0.00 0.00 1.52
2587 2914 0.750546 GGGTTTAAGGATGCCGACCC 60.751 60.000 0.00 0.00 39.87 4.46
2588 2915 0.255033 AGGGTTTAAGGATGCCGACC 59.745 55.000 0.00 0.00 0.00 4.79
2590 2917 0.544697 GGAGGGTTTAAGGATGCCGA 59.455 55.000 0.00 0.00 0.00 5.54
2597 2924 2.551032 GACGTTTGTGGAGGGTTTAAGG 59.449 50.000 0.00 0.00 0.00 2.69
2600 2927 1.540797 CGGACGTTTGTGGAGGGTTTA 60.541 52.381 0.00 0.00 0.00 2.01
2618 2945 0.037326 CATATCGGGTCCATCCACGG 60.037 60.000 0.00 0.00 38.11 4.94
2625 2952 0.762842 CCCCAGACATATCGGGTCCA 60.763 60.000 0.00 0.00 38.45 4.02
2627 2954 0.393077 CACCCCAGACATATCGGGTC 59.607 60.000 0.00 0.00 38.45 4.46
2628 2955 0.326238 ACACCCCAGACATATCGGGT 60.326 55.000 0.00 0.00 38.45 5.28
2633 2960 1.830145 GCGGACACCCCAGACATAT 59.170 57.895 0.00 0.00 34.14 1.78
2643 2970 1.952102 TATGAGGGTTCGCGGACACC 61.952 60.000 18.22 16.35 0.00 4.16
2644 2971 0.104304 ATATGAGGGTTCGCGGACAC 59.896 55.000 21.18 17.58 0.00 3.67
2645 2972 0.828022 AATATGAGGGTTCGCGGACA 59.172 50.000 21.18 0.00 0.00 4.02
2646 2973 1.202486 TCAATATGAGGGTTCGCGGAC 60.202 52.381 9.70 9.70 0.00 4.79
2660 2987 7.921041 TCCTCTCTACATTTGTCCTCAATAT 57.079 36.000 0.00 0.00 33.32 1.28
2665 2992 6.162777 GCATATCCTCTCTACATTTGTCCTC 58.837 44.000 0.00 0.00 0.00 3.71
2670 2997 4.151335 GCACGCATATCCTCTCTACATTTG 59.849 45.833 0.00 0.00 0.00 2.32
2674 3001 2.587522 AGCACGCATATCCTCTCTACA 58.412 47.619 0.00 0.00 0.00 2.74
2678 3005 0.864455 GCAAGCACGCATATCCTCTC 59.136 55.000 0.00 0.00 0.00 3.20
2679 3006 0.178767 TGCAAGCACGCATATCCTCT 59.821 50.000 0.00 0.00 36.86 3.69
2689 3016 2.375766 GGACGAGTCTGCAAGCACG 61.376 63.158 3.09 5.70 32.62 5.34
2691 3018 2.049156 CGGACGAGTCTGCAAGCA 60.049 61.111 3.09 0.00 0.00 3.91
2696 3023 2.179517 CTGACCGGACGAGTCTGC 59.820 66.667 9.46 0.00 35.21 4.26
2698 3025 2.033755 CGACTGACCGGACGAGTCT 61.034 63.158 22.81 0.00 35.04 3.24
2708 3035 2.181021 CTACGTGGCCGACTGACC 59.819 66.667 0.00 0.00 37.88 4.02
2709 3036 2.181021 CCTACGTGGCCGACTGAC 59.819 66.667 0.00 0.00 37.88 3.51
2712 3039 0.394762 TATGTCCTACGTGGCCGACT 60.395 55.000 0.00 0.00 37.88 4.18
2716 3043 2.028385 CCCTTATATGTCCTACGTGGCC 60.028 54.545 0.00 0.00 35.26 5.36
2722 3049 8.871125 TCTCATTTTCTCCCTTATATGTCCTAC 58.129 37.037 0.00 0.00 0.00 3.18
2732 3059 9.618890 CAATCATACTTCTCATTTTCTCCCTTA 57.381 33.333 0.00 0.00 0.00 2.69
2733 3060 7.067981 GCAATCATACTTCTCATTTTCTCCCTT 59.932 37.037 0.00 0.00 0.00 3.95
2734 3061 6.545298 GCAATCATACTTCTCATTTTCTCCCT 59.455 38.462 0.00 0.00 0.00 4.20
2735 3062 6.238869 GGCAATCATACTTCTCATTTTCTCCC 60.239 42.308 0.00 0.00 0.00 4.30
2736 3063 6.545298 AGGCAATCATACTTCTCATTTTCTCC 59.455 38.462 0.00 0.00 0.00 3.71
2737 3064 7.565323 AGGCAATCATACTTCTCATTTTCTC 57.435 36.000 0.00 0.00 0.00 2.87
2738 3065 8.489489 TCTAGGCAATCATACTTCTCATTTTCT 58.511 33.333 0.00 0.00 0.00 2.52
2739 3066 8.668510 TCTAGGCAATCATACTTCTCATTTTC 57.331 34.615 0.00 0.00 0.00 2.29
2740 3067 9.064706 CATCTAGGCAATCATACTTCTCATTTT 57.935 33.333 0.00 0.00 0.00 1.82
2741 3068 7.664731 CCATCTAGGCAATCATACTTCTCATTT 59.335 37.037 0.00 0.00 0.00 2.32
2742 3069 7.016957 TCCATCTAGGCAATCATACTTCTCATT 59.983 37.037 0.00 0.00 37.29 2.57
2743 3070 6.499699 TCCATCTAGGCAATCATACTTCTCAT 59.500 38.462 0.00 0.00 37.29 2.90
2744 3071 5.840693 TCCATCTAGGCAATCATACTTCTCA 59.159 40.000 0.00 0.00 37.29 3.27
2745 3072 6.162777 GTCCATCTAGGCAATCATACTTCTC 58.837 44.000 0.00 0.00 37.29 2.87
2746 3073 5.604231 TGTCCATCTAGGCAATCATACTTCT 59.396 40.000 0.00 0.00 37.29 2.85
2747 3074 5.858381 TGTCCATCTAGGCAATCATACTTC 58.142 41.667 0.00 0.00 37.29 3.01
2748 3075 5.894298 TGTCCATCTAGGCAATCATACTT 57.106 39.130 0.00 0.00 37.29 2.24
2749 3076 5.894298 TTGTCCATCTAGGCAATCATACT 57.106 39.130 0.00 0.00 37.29 2.12
2750 3077 8.097038 TCTATTTGTCCATCTAGGCAATCATAC 58.903 37.037 0.00 0.00 34.74 2.39
2751 3078 8.206126 TCTATTTGTCCATCTAGGCAATCATA 57.794 34.615 0.00 0.00 34.74 2.15
2752 3079 7.083062 TCTATTTGTCCATCTAGGCAATCAT 57.917 36.000 0.00 0.00 34.74 2.45
2753 3080 6.499106 TCTATTTGTCCATCTAGGCAATCA 57.501 37.500 0.00 0.00 34.74 2.57
2754 3081 9.160496 CTTATCTATTTGTCCATCTAGGCAATC 57.840 37.037 0.00 0.00 34.74 2.67
2755 3082 7.609532 GCTTATCTATTTGTCCATCTAGGCAAT 59.390 37.037 0.00 0.00 34.74 3.56
2756 3083 6.936900 GCTTATCTATTTGTCCATCTAGGCAA 59.063 38.462 0.00 0.00 37.29 4.52
2757 3084 6.043127 TGCTTATCTATTTGTCCATCTAGGCA 59.957 38.462 0.00 0.00 37.29 4.75
2758 3085 6.467677 TGCTTATCTATTTGTCCATCTAGGC 58.532 40.000 0.00 0.00 37.29 3.93
2777 3104 9.632807 ACGCAATTTACTCAATTTTTATGCTTA 57.367 25.926 0.00 0.00 32.24 3.09
2778 3105 8.532977 ACGCAATTTACTCAATTTTTATGCTT 57.467 26.923 0.00 0.00 32.24 3.91
2779 3106 9.632807 TTACGCAATTTACTCAATTTTTATGCT 57.367 25.926 0.00 0.00 32.24 3.79
2784 3111 9.099454 TGGTTTTACGCAATTTACTCAATTTTT 57.901 25.926 0.00 0.00 32.24 1.94
2785 3112 8.544597 GTGGTTTTACGCAATTTACTCAATTTT 58.455 29.630 0.00 0.00 32.24 1.82
2786 3113 7.170151 GGTGGTTTTACGCAATTTACTCAATTT 59.830 33.333 0.00 0.00 32.24 1.82
2787 3114 6.643360 GGTGGTTTTACGCAATTTACTCAATT 59.357 34.615 0.00 0.00 35.24 2.32
2788 3115 6.153756 GGTGGTTTTACGCAATTTACTCAAT 58.846 36.000 0.00 0.00 0.00 2.57
2789 3116 5.067413 TGGTGGTTTTACGCAATTTACTCAA 59.933 36.000 0.00 0.00 0.00 3.02
2790 3117 4.579340 TGGTGGTTTTACGCAATTTACTCA 59.421 37.500 0.00 0.00 0.00 3.41
2802 3129 3.293337 ACCCTCAAAGTGGTGGTTTTAC 58.707 45.455 0.00 0.00 32.36 2.01
2827 3154 9.691362 AAATGTATTCTAGTGTTTTTCGCAAAT 57.309 25.926 0.00 0.00 0.00 2.32
2879 3206 8.484641 TCAGTGATTTTTGCAAAACAATTACA 57.515 26.923 23.79 13.80 38.31 2.41
2907 3234 0.251916 TTAACAGGGCCAGATCCGTG 59.748 55.000 6.18 0.00 44.97 4.94
2937 3264 1.478916 CAAAAACGGAACCCACCTGTT 59.521 47.619 0.00 0.00 0.00 3.16
2986 3314 2.652530 GTGTCCCGCCTAACGTCA 59.347 61.111 0.00 0.00 41.42 4.35
3014 3342 1.694696 GTGGAGAAGACCCAACTGACT 59.305 52.381 0.00 0.00 35.12 3.41
3057 3413 7.696992 AGCGGAGGTCTTTTCATTTTATTTA 57.303 32.000 0.00 0.00 0.00 1.40
3058 3414 6.590234 AGCGGAGGTCTTTTCATTTTATTT 57.410 33.333 0.00 0.00 0.00 1.40
3061 3417 5.768164 AGAAAGCGGAGGTCTTTTCATTTTA 59.232 36.000 0.00 0.00 37.06 1.52
3106 3462 1.768275 TCAGGGAAGAGCTTGTGACAA 59.232 47.619 0.00 0.00 0.00 3.18
3107 3463 1.345741 CTCAGGGAAGAGCTTGTGACA 59.654 52.381 0.00 0.00 0.00 3.58
3113 3469 1.274712 CTCACCTCAGGGAAGAGCTT 58.725 55.000 0.00 0.00 34.01 3.74
3215 3618 1.079750 GAAAGAAGAGCGCGGGAGT 60.080 57.895 8.83 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.