Multiple sequence alignment - TraesCS7A01G020300

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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 TraesCS7A01G020300 chr7A 100.000 3753 0 0 1 3753 8266380 8262628 0.000000e+00 6931
1 TraesCS7A01G020300 chr7D 92.051 1560 101 15 1231 2777 7305108 7303559 0.000000e+00 2172
2 TraesCS7A01G020300 chr7D 90.694 720 47 10 2784 3499 7303424 7302721 0.000000e+00 941
3 TraesCS7A01G020300 chr7D 86.792 424 42 9 799 1221 7305675 7305265 9.500000e-126 460
4 TraesCS7A01G020300 chr7D 86.979 384 40 3 2187 2569 358353990 358354364 1.250000e-114 424
5 TraesCS7A01G020300 chr7D 91.270 252 11 8 3511 3753 7302562 7302313 2.160000e-87 333
6 TraesCS7A01G020300 chr7D 75.818 703 118 36 12 684 7306809 7306129 3.640000e-80 309
7 TraesCS7A01G020300 chr7D 87.368 190 24 0 924 1113 358353522 358353711 6.310000e-53 219
8 TraesCS7A01G020300 chr7D 80.645 248 31 5 2690 2921 358354367 358354613 3.850000e-40 176
9 TraesCS7A01G020300 chr4A 90.415 1565 96 24 1225 2777 732520216 732518694 0.000000e+00 2010
10 TraesCS7A01G020300 chr4A 89.783 323 28 4 888 1206 732520708 732520387 3.490000e-110 409
11 TraesCS7A01G020300 chr4A 81.557 244 31 10 14 243 732521695 732521452 4.950000e-44 189
12 TraesCS7A01G020300 chr3A 90.586 478 43 2 1232 1709 86367468 86367943 1.900000e-177 632
13 TraesCS7A01G020300 chr3A 81.226 767 71 33 2014 2773 86368394 86369094 5.480000e-153 551
14 TraesCS7A01G020300 chr3A 81.503 173 20 6 519 684 86366450 86366617 8.460000e-27 132
15 TraesCS7A01G020300 chr3D 89.331 478 44 5 1232 1709 73388141 73388611 8.980000e-166 593
16 TraesCS7A01G020300 chr3D 81.144 769 72 32 2014 2775 73389074 73389776 1.970000e-152 549
17 TraesCS7A01G020300 chr3D 76.040 697 112 42 12 682 200518864 200518197 1.010000e-80 311
18 TraesCS7A01G020300 chr3D 78.425 292 43 12 397 682 29739325 29739602 4.980000e-39 172
19 TraesCS7A01G020300 chr3B 88.750 480 51 2 1232 1711 118736548 118737024 5.400000e-163 584
20 TraesCS7A01G020300 chr3B 81.795 769 69 29 2014 2775 118737529 118738233 2.510000e-161 579
21 TraesCS7A01G020300 chr3B 83.796 432 63 5 799 1227 118735969 118736396 1.620000e-108 403
22 TraesCS7A01G020300 chr5A 95.017 301 12 3 2478 2777 609689046 609689344 1.580000e-128 470
23 TraesCS7A01G020300 chr7B 88.889 378 37 3 2193 2569 296679481 296679108 9.500000e-126 460
24 TraesCS7A01G020300 chr7B 87.240 384 43 4 2187 2569 296667639 296667261 2.070000e-117 433
25 TraesCS7A01G020300 chr7B 82.199 191 32 2 924 1113 296679955 296679766 3.000000e-36 163
26 TraesCS7A01G020300 chr7B 92.105 76 4 2 975 1049 679783331 679783405 5.130000e-19 106
27 TraesCS7A01G020300 chr2A 93.333 300 18 2 2479 2777 675203778 675203480 3.440000e-120 442
28 TraesCS7A01G020300 chr2A 83.333 156 19 6 2803 2954 675203321 675203169 1.820000e-28 137
29 TraesCS7A01G020300 chr2B 90.365 301 11 8 2479 2778 274990331 274990614 2.740000e-101 379
30 TraesCS7A01G020300 chr6B 74.785 698 123 39 9 682 647891107 647891775 7.990000e-67 265
31 TraesCS7A01G020300 chr6B 80.737 353 43 10 2800 3147 650677441 650677773 6.220000e-63 252
32 TraesCS7A01G020300 chr4B 92.105 76 4 2 975 1049 593355976 593356050 5.130000e-19 106
33 TraesCS7A01G020300 chr2D 92.105 76 4 2 975 1049 522901712 522901786 5.130000e-19 106
34 TraesCS7A01G020300 chr1B 92.105 76 4 2 975 1049 152315397 152315471 5.130000e-19 106


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 TraesCS7A01G020300 chr7A 8262628 8266380 3752 True 6931.000000 6931 100.000000 1 3753 1 chr7A.!!$R1 3752
1 TraesCS7A01G020300 chr7D 7302313 7306809 4496 True 843.000000 2172 87.325000 12 3753 5 chr7D.!!$R1 3741
2 TraesCS7A01G020300 chr7D 358353522 358354613 1091 False 273.000000 424 84.997333 924 2921 3 chr7D.!!$F1 1997
3 TraesCS7A01G020300 chr4A 732518694 732521695 3001 True 869.333333 2010 87.251667 14 2777 3 chr4A.!!$R1 2763
4 TraesCS7A01G020300 chr3A 86366450 86369094 2644 False 438.333333 632 84.438333 519 2773 3 chr3A.!!$F1 2254
5 TraesCS7A01G020300 chr3D 73388141 73389776 1635 False 571.000000 593 85.237500 1232 2775 2 chr3D.!!$F2 1543
6 TraesCS7A01G020300 chr3D 200518197 200518864 667 True 311.000000 311 76.040000 12 682 1 chr3D.!!$R1 670
7 TraesCS7A01G020300 chr3B 118735969 118738233 2264 False 522.000000 584 84.780333 799 2775 3 chr3B.!!$F1 1976
8 TraesCS7A01G020300 chr7B 296679108 296679955 847 True 311.500000 460 85.544000 924 2569 2 chr7B.!!$R2 1645
9 TraesCS7A01G020300 chr2A 675203169 675203778 609 True 289.500000 442 88.333000 2479 2954 2 chr2A.!!$R1 475
10 TraesCS7A01G020300 chr6B 647891107 647891775 668 False 265.000000 265 74.785000 9 682 1 chr6B.!!$F1 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
371 510 0.033228 GCGATCAGTAGCTCTGGCAT 59.967 55.0 11.63 1.77 43.76 4.40 F
380 519 0.035317 AGCTCTGGCATTGACAACGA 59.965 50.0 0.00 0.00 41.70 3.85 F
435 612 0.389556 CGGATCAGAGGGCGATGATG 60.390 60.0 0.00 0.00 36.30 3.07 F
1136 1798 0.451783 GCGTTGGTGCCCTATTCTTG 59.548 55.0 0.00 0.00 0.00 3.02 F
1225 1894 0.610232 GGTGCTCTTTGGCAGGTGAT 60.610 55.0 0.00 0.00 43.25 3.06 F
2300 3340 0.649993 CAAACAACCGCCTTTGCAAC 59.350 50.0 0.00 0.00 37.32 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1203 1872 0.825010 ACCTGCCAAAGAGCACCTTG 60.825 55.0 0.00 0.0 38.00 3.61 R
1204 1873 0.825010 CACCTGCCAAAGAGCACCTT 60.825 55.0 0.00 0.0 38.00 3.50 R
2275 3315 1.734388 AAGGCGGTTGTTTGCTGTCC 61.734 55.0 0.00 0.0 0.00 4.02 R
2671 3719 0.039256 GCGCTGCACAAGGAAAATGA 60.039 50.0 0.00 0.0 0.00 2.57 R
2673 3721 0.242017 GAGCGCTGCACAAGGAAAAT 59.758 50.0 18.48 0.0 0.00 1.82 R
3437 4631 0.329261 TCATGGCTTGTCCTCCCTTG 59.671 55.0 0.00 0.0 35.26 3.61 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
104 115 4.154347 CGAGAGGGCCTCCTGCAC 62.154 72.222 29.62 14.56 45.05 4.57
139 153 3.785859 GCATCCCGCCTGTCCAGA 61.786 66.667 0.00 0.00 32.94 3.86
140 154 3.112205 GCATCCCGCCTGTCCAGAT 62.112 63.158 0.00 0.00 32.94 2.90
146 162 2.418910 CGCCTGTCCAGATCTCCGT 61.419 63.158 0.00 0.00 0.00 4.69
148 164 2.022240 GCCTGTCCAGATCTCCGTCC 62.022 65.000 0.00 0.00 0.00 4.79
181 198 0.781920 GGGTAAACCTTCCCCCACTT 59.218 55.000 0.00 0.00 37.89 3.16
187 204 4.778143 CTTCCCCCACTTCCGCGG 62.778 72.222 22.12 22.12 0.00 6.46
217 235 1.338655 GATTCCTCTGCTACTCGGTCC 59.661 57.143 0.00 0.00 0.00 4.46
271 314 2.495669 ACCAAATTAGGGTTTGATGCGG 59.504 45.455 1.24 0.00 40.64 5.69
295 434 5.872070 GGGATGAATCTCGAATAGGAATGAC 59.128 44.000 0.00 0.00 0.00 3.06
300 439 0.596600 TCGAATAGGAATGACGCGGC 60.597 55.000 12.47 8.67 0.00 6.53
302 441 0.596600 GAATAGGAATGACGCGGCGA 60.597 55.000 30.94 8.00 0.00 5.54
325 464 2.531206 GTGCGTGAGTCTAGTCAATCC 58.469 52.381 0.00 0.00 0.00 3.01
336 475 4.833380 GTCTAGTCAATCCAGGGTAGCATA 59.167 45.833 0.00 0.00 0.00 3.14
338 477 2.370189 AGTCAATCCAGGGTAGCATAGC 59.630 50.000 0.00 0.00 38.62 2.97
351 490 1.142465 AGCATAGCATGTAGCCAAGCT 59.858 47.619 0.00 0.00 46.58 3.74
352 491 1.266175 GCATAGCATGTAGCCAAGCTG 59.734 52.381 0.00 0.00 44.75 4.24
353 492 1.266175 CATAGCATGTAGCCAAGCTGC 59.734 52.381 0.00 0.00 44.75 5.25
354 493 0.811219 TAGCATGTAGCCAAGCTGCG 60.811 55.000 0.00 0.00 44.75 5.18
356 495 1.442526 GCATGTAGCCAAGCTGCGAT 61.443 55.000 0.00 0.00 43.95 4.58
357 496 0.585357 CATGTAGCCAAGCTGCGATC 59.415 55.000 0.00 0.00 43.95 3.69
358 497 0.178767 ATGTAGCCAAGCTGCGATCA 59.821 50.000 0.00 0.00 43.95 2.92
359 498 0.460811 TGTAGCCAAGCTGCGATCAG 60.461 55.000 0.00 0.00 43.95 2.90
360 499 0.460987 GTAGCCAAGCTGCGATCAGT 60.461 55.000 0.00 0.00 42.29 3.41
361 500 1.111277 TAGCCAAGCTGCGATCAGTA 58.889 50.000 0.00 0.00 42.29 2.74
362 501 0.179089 AGCCAAGCTGCGATCAGTAG 60.179 55.000 0.00 0.00 42.29 2.57
368 507 3.566273 CTGCGATCAGTAGCTCTGG 57.434 57.895 11.63 0.56 43.76 3.86
369 508 0.597118 CTGCGATCAGTAGCTCTGGC 60.597 60.000 11.63 8.69 43.76 4.85
370 509 1.322538 TGCGATCAGTAGCTCTGGCA 61.323 55.000 11.63 10.57 43.76 4.92
371 510 0.033228 GCGATCAGTAGCTCTGGCAT 59.967 55.000 11.63 1.77 43.76 4.40
372 511 1.539929 GCGATCAGTAGCTCTGGCATT 60.540 52.381 11.63 0.00 43.76 3.56
373 512 2.133553 CGATCAGTAGCTCTGGCATTG 58.866 52.381 11.63 2.33 43.76 2.82
374 513 2.223900 CGATCAGTAGCTCTGGCATTGA 60.224 50.000 11.63 0.00 43.76 2.57
375 514 2.680312 TCAGTAGCTCTGGCATTGAC 57.320 50.000 11.63 0.00 43.76 3.18
376 515 1.901833 TCAGTAGCTCTGGCATTGACA 59.098 47.619 11.63 0.00 43.76 3.58
377 516 2.302733 TCAGTAGCTCTGGCATTGACAA 59.697 45.455 11.63 0.00 43.76 3.18
378 517 2.417933 CAGTAGCTCTGGCATTGACAAC 59.582 50.000 0.00 0.00 40.23 3.32
379 518 1.394917 GTAGCTCTGGCATTGACAACG 59.605 52.381 0.00 0.00 41.70 4.10
380 519 0.035317 AGCTCTGGCATTGACAACGA 59.965 50.000 0.00 0.00 41.70 3.85
381 520 0.445436 GCTCTGGCATTGACAACGAG 59.555 55.000 4.73 4.73 38.54 4.18
385 524 1.399440 CTGGCATTGACAACGAGGATG 59.601 52.381 0.00 0.00 0.00 3.51
411 584 3.548770 TGATTGGAATGATGCTCCTGTC 58.451 45.455 0.00 0.00 33.77 3.51
416 589 1.607628 GAATGATGCTCCTGTCCATGC 59.392 52.381 0.00 0.00 0.00 4.06
421 597 1.596477 GCTCCTGTCCATGCGGATC 60.596 63.158 0.00 0.00 45.33 3.36
432 609 2.356793 GCGGATCAGAGGGCGATG 60.357 66.667 0.00 0.00 0.00 3.84
433 610 2.861101 GCGGATCAGAGGGCGATGA 61.861 63.158 0.00 0.00 0.00 2.92
434 611 1.970639 CGGATCAGAGGGCGATGAT 59.029 57.895 0.00 0.00 38.84 2.45
435 612 0.389556 CGGATCAGAGGGCGATGATG 60.390 60.000 0.00 0.00 36.30 3.07
436 613 0.683973 GGATCAGAGGGCGATGATGT 59.316 55.000 0.00 0.00 36.30 3.06
437 614 1.895798 GGATCAGAGGGCGATGATGTA 59.104 52.381 0.00 0.00 36.30 2.29
438 615 2.499289 GGATCAGAGGGCGATGATGTAT 59.501 50.000 0.00 0.00 36.30 2.29
445 622 2.009774 GGGCGATGATGTATGTATGCC 58.990 52.381 0.00 0.00 40.48 4.40
471 648 1.198713 GGCATCCTCAGTTCTCTCCA 58.801 55.000 0.00 0.00 0.00 3.86
482 661 3.194542 CAGTTCTCTCCACTAGTTCCAGG 59.805 52.174 0.00 0.00 0.00 4.45
484 663 1.717077 TCTCTCCACTAGTTCCAGGGT 59.283 52.381 0.00 0.00 0.00 4.34
532 722 2.362889 GGGTGGGGCTTGTCCATG 60.363 66.667 0.00 0.00 36.58 3.66
592 782 0.899717 TTGGGGATCAGTTGCTTGGC 60.900 55.000 0.00 0.00 0.00 4.52
596 786 2.659428 GGGATCAGTTGCTTGGCTTAT 58.341 47.619 0.00 0.00 0.00 1.73
654 848 3.019564 CCCGAAATTCTCTGGAGCAAAT 58.980 45.455 0.00 0.00 29.98 2.32
655 849 4.199310 CCCGAAATTCTCTGGAGCAAATA 58.801 43.478 0.00 0.00 29.98 1.40
656 850 4.035675 CCCGAAATTCTCTGGAGCAAATAC 59.964 45.833 0.00 0.00 29.98 1.89
657 851 4.260375 CCGAAATTCTCTGGAGCAAATACG 60.260 45.833 0.00 0.00 0.00 3.06
688 1027 7.827236 TGAACCCTAACTGGAACAAATACATAG 59.173 37.037 0.00 0.00 38.70 2.23
716 1055 3.932089 TGAGTTTTTCACTTTTGCTTGCC 59.068 39.130 0.00 0.00 35.01 4.52
718 1057 3.684305 AGTTTTTCACTTTTGCTTGCCAC 59.316 39.130 0.00 0.00 27.32 5.01
729 1068 3.157932 TGCTTGCCACTTTGTGTTAAC 57.842 42.857 0.00 0.00 0.00 2.01
736 1075 6.067263 TGCCACTTTGTGTTAACTCATTAC 57.933 37.500 10.91 0.00 0.00 1.89
737 1077 5.144359 GCCACTTTGTGTTAACTCATTACG 58.856 41.667 10.91 3.66 0.00 3.18
785 1438 4.498682 GGAATTCTCGCTCCATTTGGATTG 60.499 45.833 5.23 0.00 44.46 2.67
795 1448 6.268566 GCTCCATTTGGATTGAGTTTGATAC 58.731 40.000 0.00 0.00 44.46 2.24
796 1449 6.096001 GCTCCATTTGGATTGAGTTTGATACT 59.904 38.462 0.00 0.00 44.46 2.12
797 1450 7.630242 TCCATTTGGATTGAGTTTGATACTC 57.370 36.000 0.00 0.00 45.32 2.59
835 1488 7.838771 TCTGATCTGAAACACATCTTGTATG 57.161 36.000 0.00 0.00 37.51 2.39
908 1567 8.826765 AGATATAGATTCAATAACCGGTTCCAT 58.173 33.333 26.16 10.33 0.00 3.41
913 1572 8.166422 AGATTCAATAACCGGTTCCATAATTC 57.834 34.615 26.16 13.62 0.00 2.17
952 1611 2.712709 GGAAGTTTCCTAGGGCTTGAC 58.287 52.381 9.46 1.13 44.11 3.18
962 1621 4.103153 TCCTAGGGCTTGACCAATATTGAG 59.897 45.833 17.23 9.36 42.05 3.02
964 1623 2.243221 AGGGCTTGACCAATATTGAGCT 59.757 45.455 17.23 0.57 42.05 4.09
1032 1694 1.067635 CAGCAGCACCATAAACCAACC 60.068 52.381 0.00 0.00 0.00 3.77
1074 1736 6.586082 CCAAACTTGGTGTTAATAAGATGCAC 59.414 38.462 0.00 0.00 43.43 4.57
1108 1770 5.221303 CCAGGCAAATATACCCACAAATCAG 60.221 44.000 0.00 0.00 0.00 2.90
1136 1798 0.451783 GCGTTGGTGCCCTATTCTTG 59.548 55.000 0.00 0.00 0.00 3.02
1142 1809 4.591321 TGGTGCCCTATTCTTGATTTCT 57.409 40.909 0.00 0.00 0.00 2.52
1145 1814 5.779771 TGGTGCCCTATTCTTGATTTCTTTT 59.220 36.000 0.00 0.00 0.00 2.27
1146 1815 6.951198 TGGTGCCCTATTCTTGATTTCTTTTA 59.049 34.615 0.00 0.00 0.00 1.52
1147 1816 7.122650 TGGTGCCCTATTCTTGATTTCTTTTAG 59.877 37.037 0.00 0.00 0.00 1.85
1148 1817 7.122799 GGTGCCCTATTCTTGATTTCTTTTAGT 59.877 37.037 0.00 0.00 0.00 2.24
1149 1818 9.174166 GTGCCCTATTCTTGATTTCTTTTAGTA 57.826 33.333 0.00 0.00 0.00 1.82
1170 1839 6.323266 AGTACTACATTTGTACTGAGCTTCG 58.677 40.000 0.00 0.00 45.92 3.79
1189 1858 2.927477 TCGTATCAGGCGAATCAACAAC 59.073 45.455 0.00 0.00 35.28 3.32
1191 1860 3.242091 CGTATCAGGCGAATCAACAACTG 60.242 47.826 0.00 0.00 0.00 3.16
1192 1861 2.542020 TCAGGCGAATCAACAACTGA 57.458 45.000 0.00 0.00 38.81 3.41
1194 1863 2.807967 TCAGGCGAATCAACAACTGAAG 59.192 45.455 0.00 0.00 37.67 3.02
1195 1864 2.549754 CAGGCGAATCAACAACTGAAGT 59.450 45.455 0.00 0.00 37.67 3.01
1196 1865 3.745975 CAGGCGAATCAACAACTGAAGTA 59.254 43.478 0.00 0.00 37.67 2.24
1197 1866 3.997021 AGGCGAATCAACAACTGAAGTAG 59.003 43.478 0.00 0.00 37.67 2.57
1198 1867 3.994392 GGCGAATCAACAACTGAAGTAGA 59.006 43.478 0.00 0.00 37.67 2.59
1203 1872 7.097006 GCGAATCAACAACTGAAGTAGAAAAAC 60.097 37.037 0.00 0.00 37.67 2.43
1204 1873 7.908082 CGAATCAACAACTGAAGTAGAAAAACA 59.092 33.333 0.00 0.00 37.67 2.83
1213 1882 5.437060 TGAAGTAGAAAAACAAGGTGCTCT 58.563 37.500 0.00 0.00 0.00 4.09
1221 1890 0.825010 ACAAGGTGCTCTTTGGCAGG 60.825 55.000 14.14 0.00 43.25 4.85
1224 1893 1.228245 GGTGCTCTTTGGCAGGTGA 60.228 57.895 0.00 0.00 43.25 4.02
1225 1894 0.610232 GGTGCTCTTTGGCAGGTGAT 60.610 55.000 0.00 0.00 43.25 3.06
1318 2140 5.242393 CCCAATAGATGAGGCGATTCAAAAT 59.758 40.000 0.00 0.00 0.00 1.82
1352 2174 6.320171 CAGGTGATTATCTCAGTTTTTGCAG 58.680 40.000 0.00 0.00 33.51 4.41
1368 2190 9.466497 AGTTTTTGCAGGAGAGATTCATATAAA 57.534 29.630 0.00 0.00 0.00 1.40
1406 2232 8.330466 TGTTCTTTCAAGTTCACACTTCTTTA 57.670 30.769 0.00 0.00 41.69 1.85
1632 2458 0.815734 ATGATTCTTGCACTGCTGCC 59.184 50.000 1.98 0.00 43.51 4.85
1717 2543 7.031372 CAGAAATGGTTACCTTCATTGTGATG 58.969 38.462 2.07 0.00 34.28 3.07
1779 2661 9.853177 AGATTAATTTAAGGTACCTTCAGATGG 57.147 33.333 30.38 0.55 37.47 3.51
1837 2719 7.599621 TCGAAGAAATTAGTAATGACGGTTCAA 59.400 33.333 0.00 0.00 34.61 2.69
2027 3060 1.234821 GGCGACAAACCTTCACATCA 58.765 50.000 0.00 0.00 0.00 3.07
2038 3071 7.278424 ACAAACCTTCACATCATTTTGAGTTTG 59.722 33.333 0.00 0.00 40.39 2.93
2076 3109 1.724623 CCATCCGTTGAGTGTAACACG 59.275 52.381 0.00 0.00 41.43 4.49
2275 3315 2.435586 CAAGCCGTGCCCTCTCAG 60.436 66.667 0.00 0.00 0.00 3.35
2298 3338 4.823276 CAAACAACCGCCTTTGCA 57.177 50.000 0.00 0.00 37.32 4.08
2299 3339 3.056628 CAAACAACCGCCTTTGCAA 57.943 47.368 0.00 0.00 37.32 4.08
2300 3340 0.649993 CAAACAACCGCCTTTGCAAC 59.350 50.000 0.00 0.00 37.32 4.17
2422 3462 2.814805 AGGTGTCAAATCCATCCCTG 57.185 50.000 0.00 0.00 0.00 4.45
2489 3529 3.694072 TCAAAATTTAGCCAGGATGTCCG 59.306 43.478 0.00 0.00 42.08 4.79
2529 3572 7.098074 ACAGTAGTGCTATTACCTCAACTAC 57.902 40.000 0.00 0.00 0.00 2.73
2559 3602 2.332063 ATTGCTGAATCCGGTACAGG 57.668 50.000 19.97 5.57 33.00 4.00
2782 3974 0.109153 AAGCCTGATGTGTCACTGCA 59.891 50.000 4.27 1.66 32.24 4.41
2791 3983 2.821366 GTCACTGCAGATGGGGCG 60.821 66.667 23.35 0.00 0.00 6.13
2795 3987 1.675641 ACTGCAGATGGGGCGTTTC 60.676 57.895 23.35 0.00 0.00 2.78
2879 4071 1.957695 GGACGCGTTCCGGAAGTTT 60.958 57.895 19.50 1.69 42.52 2.66
2913 4105 2.678336 GGCTCGGAAGTTTTACATGGAG 59.322 50.000 0.00 0.00 0.00 3.86
2921 4113 5.501156 GAAGTTTTACATGGAGGACCTGAT 58.499 41.667 0.00 0.00 37.04 2.90
2922 4114 5.104259 AGTTTTACATGGAGGACCTGATC 57.896 43.478 0.00 0.00 37.04 2.92
2978 4172 2.377628 TTTCCTGCTGCTTCGGTCGT 62.378 55.000 0.00 0.00 0.00 4.34
2982 4176 0.924090 CTGCTGCTTCGGTCGTAATC 59.076 55.000 0.00 0.00 0.00 1.75
3002 4196 3.267483 TCGATTACTTTGGGCTTACTGC 58.733 45.455 0.00 0.00 41.94 4.40
3024 4218 5.098893 GCAGCCGATTGTGTAGATAGATAG 58.901 45.833 0.00 0.00 0.00 2.08
3032 4226 9.814507 CGATTGTGTAGATAGATAGTCAGTTAC 57.185 37.037 0.00 0.00 0.00 2.50
3038 4232 7.656542 TGTAGATAGATAGTCAGTTACCGACAG 59.343 40.741 1.40 0.00 35.77 3.51
3096 4290 0.033366 GGCCGCCACTTGTGATTTTT 59.967 50.000 3.91 0.00 0.00 1.94
3106 4300 6.511605 GCCACTTGTGATTTTTGAATTTGTCC 60.512 38.462 1.89 0.00 0.00 4.02
3122 4316 1.022735 GTCCATGATCTGCTTGGCTG 58.977 55.000 0.00 0.00 40.65 4.85
3197 4391 7.712264 TGTTTGAAACTTTGGCTTCAATATG 57.288 32.000 9.69 0.00 40.31 1.78
3218 4412 8.958119 ATATGTGTATGTAAAACCGAGTCATT 57.042 30.769 0.00 0.00 0.00 2.57
3244 4438 1.264749 TTGCACAGAGGACGGGCTAT 61.265 55.000 0.00 0.00 0.00 2.97
3245 4439 1.068250 GCACAGAGGACGGGCTATC 59.932 63.158 0.00 0.00 0.00 2.08
3397 4591 5.914085 AATTATCTTGTAGCACGAGCATC 57.086 39.130 7.77 0.00 45.49 3.91
3401 4595 2.758423 TCTTGTAGCACGAGCATCCTAA 59.242 45.455 7.77 0.00 45.49 2.69
3429 4623 1.964373 CTTGGGGACGACAAACCGG 60.964 63.158 0.00 0.00 0.00 5.28
3443 4637 1.117142 AACCGGTCGAAGTCAAGGGA 61.117 55.000 8.04 0.00 0.00 4.20
3447 4641 0.246910 GGTCGAAGTCAAGGGAGGAC 59.753 60.000 0.00 0.00 35.50 3.85
3448 4642 0.966920 GTCGAAGTCAAGGGAGGACA 59.033 55.000 0.00 0.00 37.74 4.02
3450 4644 1.618837 TCGAAGTCAAGGGAGGACAAG 59.381 52.381 0.00 0.00 37.74 3.16
3463 4658 3.204526 GAGGACAAGCCATGAGATGAAG 58.795 50.000 0.00 0.00 40.02 3.02
3469 4664 5.564550 ACAAGCCATGAGATGAAGTAAACT 58.435 37.500 0.00 0.00 0.00 2.66
3474 4669 8.814038 AGCCATGAGATGAAGTAAACTAAAAT 57.186 30.769 0.00 0.00 0.00 1.82
3475 4670 8.897752 AGCCATGAGATGAAGTAAACTAAAATC 58.102 33.333 0.00 0.00 0.00 2.17
3480 4675 7.552687 TGAGATGAAGTAAACTAAAATCCGCAT 59.447 33.333 0.00 0.00 0.00 4.73
3498 4693 5.664870 CGCATCGGAAAATAGAACAAAAC 57.335 39.130 0.00 0.00 0.00 2.43
3499 4694 5.390613 CGCATCGGAAAATAGAACAAAACT 58.609 37.500 0.00 0.00 0.00 2.66
3501 4696 6.612306 GCATCGGAAAATAGAACAAAACTCT 58.388 36.000 0.00 0.00 0.00 3.24
3502 4697 7.412563 CGCATCGGAAAATAGAACAAAACTCTA 60.413 37.037 0.00 0.00 0.00 2.43
3503 4698 8.398665 GCATCGGAAAATAGAACAAAACTCTAT 58.601 33.333 0.00 0.00 37.65 1.98
3504 4699 9.922305 CATCGGAAAATAGAACAAAACTCTATC 57.078 33.333 0.00 0.00 35.50 2.08
3505 4700 9.667107 ATCGGAAAATAGAACAAAACTCTATCA 57.333 29.630 0.00 0.00 35.50 2.15
3538 4881 7.824779 TGTATTTTTGTAAAACAAGCTTTGGGT 59.175 29.630 0.00 0.00 39.53 4.51
3539 4882 9.315525 GTATTTTTGTAAAACAAGCTTTGGGTA 57.684 29.630 0.00 0.00 39.53 3.69
3540 4883 8.794335 ATTTTTGTAAAACAAGCTTTGGGTAA 57.206 26.923 0.00 0.00 39.53 2.85
3541 4884 7.835634 TTTTGTAAAACAAGCTTTGGGTAAG 57.164 32.000 0.00 0.00 39.53 2.34
3544 4887 7.171630 TGTAAAACAAGCTTTGGGTAAGAAA 57.828 32.000 0.00 0.00 35.80 2.52
3545 4888 7.787028 TGTAAAACAAGCTTTGGGTAAGAAAT 58.213 30.769 0.00 0.00 35.80 2.17
3546 4889 7.708752 TGTAAAACAAGCTTTGGGTAAGAAATG 59.291 33.333 0.00 0.00 35.80 2.32
3627 4979 2.731587 GATGTTGCCGTGTGGTGTGC 62.732 60.000 0.00 0.00 37.67 4.57
3649 5001 4.479993 CAGAGAAGCCCGGCCCAG 62.480 72.222 5.55 0.00 0.00 4.45
3662 5014 2.672996 CCCAGCAACCCAACCGAG 60.673 66.667 0.00 0.00 0.00 4.63
3702 5054 4.675303 CCCTCAGTCCCCACCCCA 62.675 72.222 0.00 0.00 0.00 4.96
3703 5055 3.330720 CCTCAGTCCCCACCCCAC 61.331 72.222 0.00 0.00 0.00 4.61
3729 5081 4.740822 CCCAAACCCTCGCCCCTG 62.741 72.222 0.00 0.00 0.00 4.45
3742 5094 4.101077 CCCTGCCCTCCTCCTCCT 62.101 72.222 0.00 0.00 0.00 3.69
3744 5096 2.445654 CTGCCCTCCTCCTCCTCC 60.446 72.222 0.00 0.00 0.00 4.30
3745 5097 2.955246 TGCCCTCCTCCTCCTCCT 60.955 66.667 0.00 0.00 0.00 3.69
3747 5099 2.612251 CCCTCCTCCTCCTCCTCC 59.388 72.222 0.00 0.00 0.00 4.30
3748 5100 2.197324 CCTCCTCCTCCTCCTCCG 59.803 72.222 0.00 0.00 0.00 4.63
3750 5102 4.144727 TCCTCCTCCTCCTCCGCC 62.145 72.222 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
129 143 1.439644 GACGGAGATCTGGACAGGC 59.560 63.158 0.00 0.00 0.00 4.85
131 145 1.395826 GGGGACGGAGATCTGGACAG 61.396 65.000 0.00 0.00 0.00 3.51
132 146 1.381327 GGGGACGGAGATCTGGACA 60.381 63.158 0.00 0.00 0.00 4.02
133 147 3.539842 GGGGACGGAGATCTGGAC 58.460 66.667 0.00 0.00 0.00 4.02
160 176 0.039180 GTGGGGGAAGGTTTACCCTG 59.961 60.000 8.95 0.00 45.47 4.45
181 198 2.463589 AATCAAGCCAGAACCGCGGA 62.464 55.000 35.90 4.92 0.00 5.54
187 204 1.742268 GCAGAGGAATCAAGCCAGAAC 59.258 52.381 0.00 0.00 0.00 3.01
217 235 0.321653 AGCTAGGGTTTCCACGCTTG 60.322 55.000 0.00 0.00 43.55 4.01
240 258 7.177041 TCAAACCCTAATTTGGTTACATGGTAC 59.823 37.037 11.28 0.00 45.23 3.34
243 261 6.597832 TCAAACCCTAATTTGGTTACATGG 57.402 37.500 11.28 0.00 45.23 3.66
244 262 6.534793 GCATCAAACCCTAATTTGGTTACATG 59.465 38.462 11.28 14.62 45.23 3.21
245 263 6.627065 CGCATCAAACCCTAATTTGGTTACAT 60.627 38.462 11.28 5.42 45.23 2.29
246 264 5.336055 CGCATCAAACCCTAATTTGGTTACA 60.336 40.000 11.28 3.70 45.23 2.41
247 265 5.099575 CGCATCAAACCCTAATTTGGTTAC 58.900 41.667 11.28 1.68 45.23 2.50
251 269 2.159114 CCCGCATCAAACCCTAATTTGG 60.159 50.000 0.00 0.00 39.57 3.28
255 273 0.923358 TCCCCGCATCAAACCCTAAT 59.077 50.000 0.00 0.00 0.00 1.73
257 275 0.182537 CATCCCCGCATCAAACCCTA 59.817 55.000 0.00 0.00 0.00 3.53
261 304 2.291741 GAGATTCATCCCCGCATCAAAC 59.708 50.000 0.00 0.00 0.00 2.93
271 314 5.872070 GTCATTCCTATTCGAGATTCATCCC 59.128 44.000 0.00 0.00 0.00 3.85
300 439 0.452184 ACTAGACTCACGCACCATCG 59.548 55.000 0.00 0.00 0.00 3.84
302 441 1.545841 TGACTAGACTCACGCACCAT 58.454 50.000 0.00 0.00 0.00 3.55
308 447 2.099921 CCCTGGATTGACTAGACTCACG 59.900 54.545 0.00 0.00 0.00 4.35
325 464 2.613977 GGCTACATGCTATGCTACCCTG 60.614 54.545 0.00 0.00 42.39 4.45
338 477 0.585357 GATCGCAGCTTGGCTACATG 59.415 55.000 0.00 0.00 36.40 3.21
344 483 1.770085 GCTACTGATCGCAGCTTGGC 61.770 60.000 5.92 0.00 46.26 4.52
357 496 2.391616 TGTCAATGCCAGAGCTACTG 57.608 50.000 6.28 6.28 45.36 2.74
358 497 2.704572 GTTGTCAATGCCAGAGCTACT 58.295 47.619 0.00 0.00 40.80 2.57
359 498 1.394917 CGTTGTCAATGCCAGAGCTAC 59.605 52.381 0.00 0.00 40.80 3.58
360 499 1.275010 TCGTTGTCAATGCCAGAGCTA 59.725 47.619 0.00 0.00 40.80 3.32
361 500 0.035317 TCGTTGTCAATGCCAGAGCT 59.965 50.000 0.00 0.00 40.80 4.09
362 501 0.445436 CTCGTTGTCAATGCCAGAGC 59.555 55.000 0.00 0.00 40.48 4.09
363 502 1.081892 CCTCGTTGTCAATGCCAGAG 58.918 55.000 0.00 0.30 0.00 3.35
364 503 0.684535 TCCTCGTTGTCAATGCCAGA 59.315 50.000 0.00 0.00 0.00 3.86
365 504 1.399440 CATCCTCGTTGTCAATGCCAG 59.601 52.381 0.00 0.00 0.00 4.85
366 505 1.271325 ACATCCTCGTTGTCAATGCCA 60.271 47.619 0.00 0.00 0.00 4.92
367 506 1.453155 ACATCCTCGTTGTCAATGCC 58.547 50.000 0.00 0.00 0.00 4.40
368 507 2.855180 CAACATCCTCGTTGTCAATGC 58.145 47.619 0.00 0.00 41.12 3.56
376 515 3.750371 TCCAATCAACAACATCCTCGTT 58.250 40.909 0.00 0.00 0.00 3.85
377 516 3.417069 TCCAATCAACAACATCCTCGT 57.583 42.857 0.00 0.00 0.00 4.18
378 517 4.395854 TCATTCCAATCAACAACATCCTCG 59.604 41.667 0.00 0.00 0.00 4.63
379 518 5.902613 TCATTCCAATCAACAACATCCTC 57.097 39.130 0.00 0.00 0.00 3.71
380 519 5.394883 GCATCATTCCAATCAACAACATCCT 60.395 40.000 0.00 0.00 0.00 3.24
381 520 4.807304 GCATCATTCCAATCAACAACATCC 59.193 41.667 0.00 0.00 0.00 3.51
385 524 4.159135 AGGAGCATCATTCCAATCAACAAC 59.841 41.667 0.00 0.00 37.18 3.32
411 584 2.281345 GCCCTCTGATCCGCATGG 60.281 66.667 0.00 0.00 0.00 3.66
416 589 0.389556 CATCATCGCCCTCTGATCCG 60.390 60.000 0.00 0.00 29.74 4.18
421 597 2.827800 ACATACATCATCGCCCTCTG 57.172 50.000 0.00 0.00 0.00 3.35
445 622 4.081198 AGAGAACTGAGGATGCCTAACAAG 60.081 45.833 0.00 0.00 31.76 3.16
462 639 2.498078 CCCTGGAACTAGTGGAGAGAAC 59.502 54.545 0.00 0.00 0.00 3.01
471 648 0.974383 CCGTTCACCCTGGAACTAGT 59.026 55.000 0.00 0.00 43.87 2.57
514 704 3.672503 ATGGACAAGCCCCACCCC 61.673 66.667 0.00 0.00 36.36 4.95
528 718 4.919168 CAGTTATGCAACAACAAGACATGG 59.081 41.667 14.77 0.00 37.10 3.66
532 722 4.734854 CACACAGTTATGCAACAACAAGAC 59.265 41.667 14.77 0.00 37.10 3.01
575 765 0.613012 AAGCCAAGCAACTGATCCCC 60.613 55.000 0.00 0.00 0.00 4.81
624 814 0.395312 AGAATTTCGGGTCACCACGT 59.605 50.000 0.00 0.00 36.13 4.49
625 815 1.076332 GAGAATTTCGGGTCACCACG 58.924 55.000 0.00 0.00 36.13 4.94
626 816 2.076863 CAGAGAATTTCGGGTCACCAC 58.923 52.381 0.00 0.00 36.13 4.16
635 825 4.330074 ACGTATTTGCTCCAGAGAATTTCG 59.670 41.667 0.00 2.94 0.00 3.46
654 848 5.033589 TCCAGTTAGGGTTCAAAAACGTA 57.966 39.130 0.00 0.00 38.24 3.57
655 849 3.888583 TCCAGTTAGGGTTCAAAAACGT 58.111 40.909 0.00 0.00 38.24 3.99
656 850 4.096682 TGTTCCAGTTAGGGTTCAAAAACG 59.903 41.667 0.00 0.00 38.24 3.60
657 851 5.585820 TGTTCCAGTTAGGGTTCAAAAAC 57.414 39.130 0.00 0.00 38.24 2.43
716 1055 9.313323 CAATACGTAATGAGTTAACACAAAGTG 57.687 33.333 9.83 4.01 39.75 3.16
760 1100 2.615912 CCAAATGGAGCGAGAATTCCTC 59.384 50.000 0.65 1.78 37.39 3.71
795 1448 7.326454 TCAGATCAGAAAATTGGTGAGTAGAG 58.674 38.462 0.00 0.00 0.00 2.43
796 1449 7.244886 TCAGATCAGAAAATTGGTGAGTAGA 57.755 36.000 0.00 0.00 0.00 2.59
797 1450 7.912056 TTCAGATCAGAAAATTGGTGAGTAG 57.088 36.000 0.00 0.00 0.00 2.57
835 1488 6.151817 ACTCTTCTCAATTTGATAAAGGGCAC 59.848 38.462 16.01 0.00 28.24 5.01
881 1536 9.316594 TGGAACCGGTTATTGAATCTATATCTA 57.683 33.333 22.33 0.00 0.00 1.98
882 1537 8.202461 TGGAACCGGTTATTGAATCTATATCT 57.798 34.615 22.33 0.00 0.00 1.98
894 1553 8.002459 AGGTAATGAATTATGGAACCGGTTATT 58.998 33.333 22.33 15.87 0.00 1.40
908 1567 5.652014 CACCTTTCCTGCAGGTAATGAATTA 59.348 40.000 31.58 6.78 43.30 1.40
913 1572 2.094675 CCACCTTTCCTGCAGGTAATG 58.905 52.381 31.58 25.42 43.30 1.90
962 1621 1.865970 CAGCAGTAGCAGCTATCAAGC 59.134 52.381 5.14 7.71 45.49 4.01
964 1623 2.480244 CGTCAGCAGTAGCAGCTATCAA 60.480 50.000 5.14 0.00 45.49 2.57
1022 1684 4.839121 TGCTTCTGTATCGGTTGGTTTAT 58.161 39.130 0.00 0.00 0.00 1.40
1032 1694 1.737838 TGGCCTTTGCTTCTGTATCG 58.262 50.000 3.32 0.00 37.74 2.92
1147 1816 6.091437 ACGAAGCTCAGTACAAATGTAGTAC 58.909 40.000 0.00 0.00 41.59 2.73
1148 1817 6.263516 ACGAAGCTCAGTACAAATGTAGTA 57.736 37.500 0.00 0.00 33.18 1.82
1149 1818 5.135508 ACGAAGCTCAGTACAAATGTAGT 57.864 39.130 0.00 0.00 34.69 2.73
1170 1839 3.932710 TCAGTTGTTGATTCGCCTGATAC 59.067 43.478 0.00 0.00 0.00 2.24
1189 1858 5.529060 AGAGCACCTTGTTTTTCTACTTCAG 59.471 40.000 0.00 0.00 0.00 3.02
1191 1860 6.378710 AAGAGCACCTTGTTTTTCTACTTC 57.621 37.500 0.00 0.00 32.92 3.01
1192 1861 6.405842 CCAAAGAGCACCTTGTTTTTCTACTT 60.406 38.462 0.00 0.00 34.79 2.24
1194 1863 5.281727 CCAAAGAGCACCTTGTTTTTCTAC 58.718 41.667 0.00 0.00 34.79 2.59
1195 1864 4.202111 GCCAAAGAGCACCTTGTTTTTCTA 60.202 41.667 0.00 0.00 34.79 2.10
1196 1865 3.430790 GCCAAAGAGCACCTTGTTTTTCT 60.431 43.478 0.00 0.00 34.79 2.52
1197 1866 2.866156 GCCAAAGAGCACCTTGTTTTTC 59.134 45.455 0.00 0.00 34.79 2.29
1198 1867 2.235898 TGCCAAAGAGCACCTTGTTTTT 59.764 40.909 0.00 0.00 38.00 1.94
1203 1872 0.825010 ACCTGCCAAAGAGCACCTTG 60.825 55.000 0.00 0.00 38.00 3.61
1204 1873 0.825010 CACCTGCCAAAGAGCACCTT 60.825 55.000 0.00 0.00 38.00 3.50
1213 1882 4.574674 ACTGAGATAATCACCTGCCAAA 57.425 40.909 0.00 0.00 33.22 3.28
1318 2140 5.422012 TGAGATAATCACCTGCTGTAGAACA 59.578 40.000 0.00 0.00 31.12 3.18
1368 2190 8.743085 ACTTGAAAGAACATCATATGCTGTAT 57.257 30.769 12.35 2.57 0.00 2.29
1372 2194 7.175467 TGTGAACTTGAAAGAACATCATATGCT 59.825 33.333 0.00 0.00 0.00 3.79
1506 2332 2.360801 ACGACCCCATTTTGTGTTCAAG 59.639 45.455 0.00 0.00 34.88 3.02
1632 2458 2.916716 GCCAACAGCAACATAAACATCG 59.083 45.455 0.00 0.00 42.97 3.84
1812 2694 7.285783 TGAACCGTCATTACTAATTTCTTCG 57.714 36.000 0.00 0.00 0.00 3.79
1824 2706 5.642063 GTCTTCCAGAATTGAACCGTCATTA 59.358 40.000 0.00 0.00 32.48 1.90
1837 2719 5.233083 TGACATGACAAGTCTTCCAGAAT 57.767 39.130 11.75 0.00 36.94 2.40
1840 2722 4.576053 TGTTTGACATGACAAGTCTTCCAG 59.424 41.667 11.75 0.00 36.94 3.86
1988 2871 3.480470 CCCAAAGTCTTTTCTGCAGAGA 58.520 45.455 17.43 10.10 0.00 3.10
2263 3303 2.575993 CTGTCCTGAGAGGGCACG 59.424 66.667 0.00 0.00 43.71 5.34
2275 3315 1.734388 AAGGCGGTTGTTTGCTGTCC 61.734 55.000 0.00 0.00 0.00 4.02
2298 3338 5.048083 TGCTGGAAAATCGAGCTATTTTGTT 60.048 36.000 11.11 0.00 46.49 2.83
2299 3339 4.458989 TGCTGGAAAATCGAGCTATTTTGT 59.541 37.500 11.11 0.00 46.49 2.83
2300 3340 4.985413 TGCTGGAAAATCGAGCTATTTTG 58.015 39.130 11.11 0.61 46.49 2.44
2422 3462 1.747355 CAGGTTTCATCTGCATCCCAC 59.253 52.381 0.00 0.00 0.00 4.61
2489 3529 1.799258 CTGTTGCCAGGACCACAAGC 61.799 60.000 0.00 0.00 34.90 4.01
2529 3572 0.680618 TTCAGCAATTGCACCAAGGG 59.319 50.000 30.89 11.60 45.16 3.95
2559 3602 2.591715 AGTGTTGCTGGTCGCCAC 60.592 61.111 0.00 0.00 38.05 5.01
2638 3685 3.141398 CAACAGTGCAACACATACCTCT 58.859 45.455 0.00 0.00 41.43 3.69
2671 3719 0.039256 GCGCTGCACAAGGAAAATGA 60.039 50.000 0.00 0.00 0.00 2.57
2673 3721 0.242017 GAGCGCTGCACAAGGAAAAT 59.758 50.000 18.48 0.00 0.00 1.82
2791 3983 2.205307 ATAGCCTAGCGTCGTGAAAC 57.795 50.000 0.00 0.00 0.00 2.78
2795 3987 1.065701 ACTCAATAGCCTAGCGTCGTG 59.934 52.381 0.00 0.00 0.00 4.35
2823 4015 2.750888 CCGCTTAGCCCGAAACTGC 61.751 63.158 0.00 0.00 0.00 4.40
2872 4064 5.416083 AGCCTTACAAAACACAAAACTTCC 58.584 37.500 0.00 0.00 0.00 3.46
2879 4071 2.920524 TCCGAGCCTTACAAAACACAA 58.079 42.857 0.00 0.00 0.00 3.33
2978 4172 5.526111 GCAGTAAGCCCAAAGTAATCGATTA 59.474 40.000 13.85 13.85 37.23 1.75
2982 4176 3.006940 TGCAGTAAGCCCAAAGTAATCG 58.993 45.455 0.00 0.00 44.83 3.34
3002 4196 6.072452 TGACTATCTATCTACACAATCGGCTG 60.072 42.308 0.00 0.00 0.00 4.85
3024 4218 2.521105 AACACCTGTCGGTAACTGAC 57.479 50.000 0.00 0.00 43.24 3.51
3038 4232 6.716898 AAAGTAGTTTATGCGACTAACACC 57.283 37.500 0.00 0.00 31.86 4.16
3065 4259 0.398696 TGGCGGCCAGTAAGAAAGAA 59.601 50.000 19.77 0.00 0.00 2.52
3066 4260 0.321298 GTGGCGGCCAGTAAGAAAGA 60.321 55.000 24.58 0.00 32.34 2.52
3096 4290 4.158949 CCAAGCAGATCATGGACAAATTCA 59.841 41.667 0.00 0.00 35.62 2.57
3106 4300 0.663688 GAGCAGCCAAGCAGATCATG 59.336 55.000 0.00 0.00 31.10 3.07
3122 4316 1.639298 ATGCAGAGAAAACGGCGAGC 61.639 55.000 16.62 4.73 34.02 5.03
3158 4352 6.373774 AGTTTCAAACATTTGCCAAACATTCA 59.626 30.769 17.21 0.00 37.35 2.57
3197 4391 5.106869 TGCAATGACTCGGTTTTACATACAC 60.107 40.000 0.00 0.00 0.00 2.90
3228 4422 1.360551 CGATAGCCCGTCCTCTGTG 59.639 63.158 0.00 0.00 0.00 3.66
3229 4423 3.843304 CGATAGCCCGTCCTCTGT 58.157 61.111 0.00 0.00 0.00 3.41
3256 4450 3.621558 ACAGTATAAGAAAAGCTGGGCC 58.378 45.455 0.00 0.00 0.00 5.80
3262 4456 5.220681 GCCACAGCTACAGTATAAGAAAAGC 60.221 44.000 0.00 0.00 35.50 3.51
3368 4562 8.814235 GCTCGTGCTACAAGATAATTTTTACTA 58.186 33.333 1.41 0.00 36.03 1.82
3369 4563 7.333423 TGCTCGTGCTACAAGATAATTTTTACT 59.667 33.333 11.19 0.00 40.48 2.24
3378 4572 2.959030 AGGATGCTCGTGCTACAAGATA 59.041 45.455 11.19 0.00 40.48 1.98
3384 4578 1.202417 TGCTTAGGATGCTCGTGCTAC 60.202 52.381 11.19 4.67 40.48 3.58
3387 4581 0.864455 GATGCTTAGGATGCTCGTGC 59.136 55.000 1.71 1.71 40.20 5.34
3397 4591 3.070302 GTCCCCAAGTAGAGATGCTTAGG 59.930 52.174 0.00 0.00 0.00 2.69
3401 4595 1.115467 CGTCCCCAAGTAGAGATGCT 58.885 55.000 0.00 0.00 0.00 3.79
3429 4623 0.966920 TGTCCTCCCTTGACTTCGAC 59.033 55.000 0.00 0.00 33.83 4.20
3437 4631 0.329261 TCATGGCTTGTCCTCCCTTG 59.671 55.000 0.00 0.00 35.26 3.61
3443 4637 2.575279 ACTTCATCTCATGGCTTGTCCT 59.425 45.455 0.00 0.00 35.26 3.85
3447 4641 7.615582 TTAGTTTACTTCATCTCATGGCTTG 57.384 36.000 0.00 0.00 0.00 4.01
3448 4642 8.635765 TTTTAGTTTACTTCATCTCATGGCTT 57.364 30.769 0.00 0.00 0.00 4.35
3450 4644 8.131731 GGATTTTAGTTTACTTCATCTCATGGC 58.868 37.037 0.00 0.00 0.00 4.40
3480 4675 9.667107 ATGATAGAGTTTTGTTCTATTTTCCGA 57.333 29.630 0.00 0.00 37.85 4.55
3521 4864 7.709182 ACATTTCTTACCCAAAGCTTGTTTTAC 59.291 33.333 0.00 0.00 34.97 2.01
3559 4907 1.068281 TCTCCATCATCTCTCGCAAGC 59.932 52.381 0.00 0.00 37.18 4.01
3565 4913 2.699846 ACCTTGCTCTCCATCATCTCTC 59.300 50.000 0.00 0.00 0.00 3.20
3627 4979 4.479993 CCGGGCTTCTCTGGGCTG 62.480 72.222 0.00 0.00 35.72 4.85
3645 4997 2.672996 CTCGGTTGGGTTGCTGGG 60.673 66.667 0.00 0.00 0.00 4.45
3649 5001 3.056328 GGCTCTCGGTTGGGTTGC 61.056 66.667 0.00 0.00 0.00 4.17
3650 5002 2.359975 GGGCTCTCGGTTGGGTTG 60.360 66.667 0.00 0.00 0.00 3.77
3662 5014 1.583054 CGTGTTTATAGGCTGGGCTC 58.417 55.000 0.00 0.00 0.00 4.70
3702 5054 1.541620 GGGTTTGGGGAGAGAGGGT 60.542 63.158 0.00 0.00 0.00 4.34
3703 5055 1.229984 AGGGTTTGGGGAGAGAGGG 60.230 63.158 0.00 0.00 0.00 4.30
3729 5081 2.123033 GAGGAGGAGGAGGAGGGC 60.123 72.222 0.00 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.