Multiple sequence alignment - TraesCS7B01G361900

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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 TraesCS7B01G361900 chr7B 100.000 2722 0 0 1 2722 623947059 623949780 0.000000e+00 5027.0
1 TraesCS7B01G361900 chr7B 80.000 170 12 8 1128 1297 668461758 668461611 3.710000e-19 106.0
2 TraesCS7B01G361900 chr7D 89.819 1994 99 34 773 2722 568367957 568369890 0.000000e+00 2462.0
3 TraesCS7B01G361900 chr7D 91.824 159 10 3 1 159 568367088 568367243 4.560000e-53 219.0
4 TraesCS7B01G361900 chr7D 94.872 78 4 0 1226 1303 86731257 86731180 3.680000e-24 122.0
5 TraesCS7B01G361900 chr7D 87.850 107 10 2 311 414 568367351 568367457 3.680000e-24 122.0
6 TraesCS7B01G361900 chr7D 80.435 184 12 12 1125 1306 628446201 628446362 4.760000e-23 119.0
7 TraesCS7B01G361900 chr7A 90.563 1420 70 16 888 2280 657021676 657023058 0.000000e+00 1821.0
8 TraesCS7B01G361900 chr7A 92.724 536 33 3 1977 2512 123426167 123426696 0.000000e+00 769.0
9 TraesCS7B01G361900 chr7A 79.815 540 51 26 1 531 657020713 657021203 9.330000e-90 340.0
10 TraesCS7B01G361900 chr7A 95.522 134 6 0 2589 2722 657023093 657023226 5.900000e-52 215.0
11 TraesCS7B01G361900 chr7A 89.623 106 8 3 1876 1981 123425583 123425685 6.120000e-27 132.0
12 TraesCS7B01G361900 chr6D 84.407 481 54 13 2183 2663 7963774 7963315 1.150000e-123 453.0
13 TraesCS7B01G361900 chr6D 100.000 28 0 0 2668 2695 7963297 7963270 5.000000e-03 52.8
14 TraesCS7B01G361900 chr6A 91.318 311 24 3 1876 2186 572388884 572389191 3.240000e-114 422.0
15 TraesCS7B01G361900 chr6A 92.929 198 10 1 2315 2512 572389186 572389379 4.440000e-73 285.0
16 TraesCS7B01G361900 chr6A 76.429 420 56 23 2308 2695 8176761 8176353 1.290000e-43 187.0
17 TraesCS7B01G361900 chr6B 85.795 352 38 7 2183 2534 14360264 14360603 1.990000e-96 363.0
18 TraesCS7B01G361900 chr5A 91.321 265 20 3 1876 2140 677744645 677744384 2.580000e-95 359.0
19 TraesCS7B01G361900 chr5A 88.623 167 16 3 1876 2042 543630513 543630676 1.650000e-47 200.0
20 TraesCS7B01G361900 chr5A 92.857 42 1 2 1159 1198 482191540 482191581 2.930000e-05 60.2
21 TraesCS7B01G361900 chr1A 80.435 138 9 8 1166 1303 199209809 199209690 3.730000e-14 89.8
22 TraesCS7B01G361900 chr3A 85.915 71 4 3 1128 1198 736109616 736109552 1.350000e-08 71.3
23 TraesCS7B01G361900 chrUn 92.683 41 3 0 2346 2386 24973608 24973568 2.930000e-05 60.2


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 TraesCS7B01G361900 chr7B 623947059 623949780 2721 False 5027.000000 5027 100.000000 1 2722 1 chr7B.!!$F1 2721
1 TraesCS7B01G361900 chr7D 568367088 568369890 2802 False 934.333333 2462 89.831000 1 2722 3 chr7D.!!$F2 2721
2 TraesCS7B01G361900 chr7A 657020713 657023226 2513 False 792.000000 1821 88.633333 1 2722 3 chr7A.!!$F2 2721
3 TraesCS7B01G361900 chr7A 123425583 123426696 1113 False 450.500000 769 91.173500 1876 2512 2 chr7A.!!$F1 636
4 TraesCS7B01G361900 chr6D 7963270 7963774 504 True 252.900000 453 92.203500 2183 2695 2 chr6D.!!$R1 512


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
578 627 0.033228 TTGCGCTTTGAAACCCCATG 59.967 50.0 9.73 0.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1822 2187 0.173481 TTAGCGTAGGCACAGCTCTG 59.827 55.0 10.48 0.0 43.41 3.35 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
51 52 3.999663 CAGATTCTGTGGAAGGTCAGTTC 59.000 47.826 5.46 0.00 34.70 3.01
61 62 3.406764 GAAGGTCAGTTCAGTGCTGATT 58.593 45.455 2.47 0.00 43.73 2.57
65 66 3.406764 GTCAGTTCAGTGCTGATTTCCT 58.593 45.455 2.47 0.00 43.73 3.36
66 67 3.434984 GTCAGTTCAGTGCTGATTTCCTC 59.565 47.826 2.47 0.00 43.73 3.71
67 68 3.326006 TCAGTTCAGTGCTGATTTCCTCT 59.674 43.478 2.47 0.00 39.64 3.69
68 69 3.436015 CAGTTCAGTGCTGATTTCCTCTG 59.564 47.826 2.47 2.91 39.64 3.35
71 72 4.090761 TCAGTGCTGATTTCCTCTGTTT 57.909 40.909 0.00 0.00 34.14 2.83
72 73 4.067896 TCAGTGCTGATTTCCTCTGTTTC 58.932 43.478 0.00 0.00 34.14 2.78
73 74 4.070716 CAGTGCTGATTTCCTCTGTTTCT 58.929 43.478 0.00 0.00 0.00 2.52
74 75 4.153835 CAGTGCTGATTTCCTCTGTTTCTC 59.846 45.833 0.00 0.00 0.00 2.87
121 122 9.569167 GGTTTATTTTTCTCCAGCAGTATAAAC 57.431 33.333 0.00 0.00 32.90 2.01
130 131 6.061022 TCCAGCAGTATAAACAAATCCAGA 57.939 37.500 0.00 0.00 0.00 3.86
143 144 4.758674 ACAAATCCAGACATGAACTGTGAG 59.241 41.667 17.80 7.84 38.54 3.51
161 162 2.840038 TGAGCTGGACCATGAGTAATGT 59.160 45.455 0.00 0.00 34.11 2.71
162 163 3.201290 GAGCTGGACCATGAGTAATGTG 58.799 50.000 0.00 0.00 34.11 3.21
166 172 2.017049 GGACCATGAGTAATGTGTGCC 58.983 52.381 0.00 0.00 34.11 5.01
176 182 0.899717 AATGTGTGCCAAGGCCGATT 60.900 50.000 8.89 0.00 41.09 3.34
177 183 1.315257 ATGTGTGCCAAGGCCGATTC 61.315 55.000 8.89 0.00 41.09 2.52
179 185 2.435938 GTGCCAAGGCCGATTCGA 60.436 61.111 7.83 0.00 41.09 3.71
181 187 1.819208 TGCCAAGGCCGATTCGATG 60.819 57.895 7.83 1.34 41.09 3.84
182 188 2.546494 GCCAAGGCCGATTCGATGG 61.546 63.158 7.83 10.94 34.56 3.51
183 189 1.893808 CCAAGGCCGATTCGATGGG 60.894 63.158 7.83 0.00 0.00 4.00
184 190 1.893808 CAAGGCCGATTCGATGGGG 60.894 63.158 7.83 0.00 0.00 4.96
185 191 2.375345 AAGGCCGATTCGATGGGGT 61.375 57.895 7.83 0.00 0.00 4.95
186 192 2.280865 GGCCGATTCGATGGGGTC 60.281 66.667 7.83 0.00 0.00 4.46
187 193 2.504032 GCCGATTCGATGGGGTCA 59.496 61.111 7.83 0.00 0.00 4.02
188 194 1.887707 GCCGATTCGATGGGGTCAC 60.888 63.158 7.83 0.00 0.00 3.67
189 195 1.520192 CCGATTCGATGGGGTCACA 59.480 57.895 7.83 0.00 0.00 3.58
190 196 0.530650 CCGATTCGATGGGGTCACAG 60.531 60.000 7.83 0.00 0.00 3.66
191 197 0.175760 CGATTCGATGGGGTCACAGT 59.824 55.000 0.00 0.00 0.00 3.55
192 198 1.802880 CGATTCGATGGGGTCACAGTC 60.803 57.143 0.00 0.00 0.00 3.51
193 199 1.482593 GATTCGATGGGGTCACAGTCT 59.517 52.381 0.00 0.00 0.00 3.24
194 200 0.895530 TTCGATGGGGTCACAGTCTC 59.104 55.000 0.00 0.00 0.00 3.36
195 201 0.251608 TCGATGGGGTCACAGTCTCA 60.252 55.000 0.00 0.00 0.00 3.27
196 202 0.108615 CGATGGGGTCACAGTCTCAC 60.109 60.000 0.00 0.00 0.00 3.51
197 203 0.976641 GATGGGGTCACAGTCTCACA 59.023 55.000 0.00 0.00 0.00 3.58
201 207 1.205893 GGGGTCACAGTCTCACAGATC 59.794 57.143 0.00 0.00 0.00 2.75
203 209 2.499289 GGGTCACAGTCTCACAGATCAT 59.501 50.000 0.00 0.00 0.00 2.45
207 213 5.126222 GGTCACAGTCTCACAGATCATAGAA 59.874 44.000 0.00 0.00 0.00 2.10
242 252 2.049248 GCGTTGCAACCATGGTGG 60.049 61.111 20.60 18.01 45.02 4.61
254 264 0.738762 CATGGTGGTGACGAGAGCTG 60.739 60.000 0.00 0.00 0.00 4.24
262 272 3.119459 TGGTGACGAGAGCTGTAATCTTC 60.119 47.826 0.00 0.00 0.00 2.87
263 273 3.119459 GGTGACGAGAGCTGTAATCTTCA 60.119 47.826 0.00 0.00 0.00 3.02
280 290 2.631160 TCAATCACCGTTTGACCACT 57.369 45.000 0.00 0.00 36.92 4.00
286 296 0.464916 ACCGTTTGACCACTGGAACC 60.465 55.000 0.71 0.00 0.00 3.62
287 297 1.503818 CCGTTTGACCACTGGAACCG 61.504 60.000 0.71 0.00 0.00 4.44
288 298 1.503818 CGTTTGACCACTGGAACCGG 61.504 60.000 0.00 0.00 0.00 5.28
289 299 1.527380 TTTGACCACTGGAACCGGC 60.527 57.895 0.00 0.00 0.00 6.13
290 300 3.818121 TTGACCACTGGAACCGGCG 62.818 63.158 0.00 0.00 0.00 6.46
293 303 4.323477 CCACTGGAACCGGCGGAA 62.323 66.667 35.78 13.86 0.00 4.30
348 359 2.906897 CTTTGCTGGTGCCACCGT 60.907 61.111 9.78 0.00 42.58 4.83
349 360 2.904866 TTTGCTGGTGCCACCGTC 60.905 61.111 9.78 3.75 42.58 4.79
360 373 1.816537 CCACCGTCGGATGTCTCAT 59.183 57.895 20.51 0.00 0.00 2.90
373 386 4.201920 GGATGTCTCATAAACTTTTCGCCC 60.202 45.833 0.00 0.00 0.00 6.13
378 391 0.674269 ATAAACTTTTCGCCCGCGGA 60.674 50.000 30.73 2.89 40.25 5.54
389 402 1.154112 CCCGCGGATTTGTTTTCGG 60.154 57.895 30.73 0.00 36.90 4.30
403 417 4.688021 TGTTTTCGGGAAATGTTTGAAGG 58.312 39.130 0.00 0.00 0.00 3.46
408 422 2.288763 CGGGAAATGTTTGAAGGTTGGG 60.289 50.000 0.00 0.00 0.00 4.12
414 428 2.530701 TGTTTGAAGGTTGGGTGTTGT 58.469 42.857 0.00 0.00 0.00 3.32
415 429 2.232452 TGTTTGAAGGTTGGGTGTTGTG 59.768 45.455 0.00 0.00 0.00 3.33
416 430 1.479709 TTGAAGGTTGGGTGTTGTGG 58.520 50.000 0.00 0.00 0.00 4.17
417 431 1.040339 TGAAGGTTGGGTGTTGTGGC 61.040 55.000 0.00 0.00 0.00 5.01
418 432 0.755327 GAAGGTTGGGTGTTGTGGCT 60.755 55.000 0.00 0.00 0.00 4.75
419 433 1.042559 AAGGTTGGGTGTTGTGGCTG 61.043 55.000 0.00 0.00 0.00 4.85
420 434 2.498056 GGTTGGGTGTTGTGGCTGG 61.498 63.158 0.00 0.00 0.00 4.85
421 435 1.454847 GTTGGGTGTTGTGGCTGGA 60.455 57.895 0.00 0.00 0.00 3.86
422 436 1.454847 TTGGGTGTTGTGGCTGGAC 60.455 57.895 0.00 0.00 0.00 4.02
423 437 2.194597 GGGTGTTGTGGCTGGACA 59.805 61.111 0.00 0.00 0.00 4.02
434 448 4.093743 TGTGGCTGGACAACTATCTTCTA 58.906 43.478 0.00 0.00 0.00 2.10
435 449 4.160439 TGTGGCTGGACAACTATCTTCTAG 59.840 45.833 0.00 0.00 0.00 2.43
449 495 9.531158 AACTATCTTCTAGTACTAAGTTGTGGT 57.469 33.333 12.47 2.44 0.00 4.16
470 518 7.504238 TGTGGTTGGTGTAAATAGTTTGAAGAT 59.496 33.333 0.00 0.00 0.00 2.40
488 536 5.049336 TGAAGATTTGTCAACGCGGAATAAA 60.049 36.000 12.47 6.54 0.00 1.40
499 547 6.916387 TCAACGCGGAATAAATTTTTGTAACA 59.084 30.769 12.47 0.00 0.00 2.41
505 553 9.575702 GCGGAATAAATTTTTGTAACAAGTTTC 57.424 29.630 0.00 0.00 0.00 2.78
538 587 9.847224 AAAATGGTTATCTCAATAATACCGAGT 57.153 29.630 0.00 0.00 30.28 4.18
539 588 9.847224 AAATGGTTATCTCAATAATACCGAGTT 57.153 29.630 0.00 0.00 30.28 3.01
541 590 8.657074 TGGTTATCTCAATAATACCGAGTTTG 57.343 34.615 0.00 0.00 30.28 2.93
543 592 9.321562 GGTTATCTCAATAATACCGAGTTTGAA 57.678 33.333 0.00 0.00 30.28 2.69
546 595 7.177832 TCTCAATAATACCGAGTTTGAAGGA 57.822 36.000 0.00 0.00 0.00 3.36
551 600 9.503427 CAATAATACCGAGTTTGAAGGATTTTC 57.497 33.333 0.00 0.00 0.00 2.29
552 601 6.510879 AATACCGAGTTTGAAGGATTTTCC 57.489 37.500 0.00 0.00 36.58 3.13
554 603 2.492088 CCGAGTTTGAAGGATTTTCCCC 59.508 50.000 0.00 0.00 37.19 4.81
575 624 1.657822 TTTTTGCGCTTTGAAACCCC 58.342 45.000 9.73 0.00 0.00 4.95
577 626 0.755686 TTTGCGCTTTGAAACCCCAT 59.244 45.000 9.73 0.00 0.00 4.00
578 627 0.033228 TTGCGCTTTGAAACCCCATG 59.967 50.000 9.73 0.00 0.00 3.66
579 628 1.737735 GCGCTTTGAAACCCCATGC 60.738 57.895 0.00 0.00 0.00 4.06
580 629 1.664873 CGCTTTGAAACCCCATGCA 59.335 52.632 0.00 0.00 0.00 3.96
582 631 1.338011 CGCTTTGAAACCCCATGCATT 60.338 47.619 0.00 0.00 0.00 3.56
583 632 2.078392 GCTTTGAAACCCCATGCATTG 58.922 47.619 0.00 0.00 0.00 2.82
584 633 2.289569 GCTTTGAAACCCCATGCATTGA 60.290 45.455 0.00 0.00 0.00 2.57
586 635 4.581868 CTTTGAAACCCCATGCATTGATT 58.418 39.130 0.00 0.00 0.00 2.57
588 637 4.637387 TGAAACCCCATGCATTGATTTT 57.363 36.364 0.00 0.00 0.00 1.82
590 639 4.760715 TGAAACCCCATGCATTGATTTTTG 59.239 37.500 0.00 0.00 0.00 2.44
591 640 4.637387 AACCCCATGCATTGATTTTTGA 57.363 36.364 0.00 0.00 0.00 2.69
592 641 4.210724 ACCCCATGCATTGATTTTTGAG 57.789 40.909 0.00 0.00 0.00 3.02
593 642 3.054948 ACCCCATGCATTGATTTTTGAGG 60.055 43.478 0.00 0.00 0.00 3.86
594 643 3.054948 CCCCATGCATTGATTTTTGAGGT 60.055 43.478 0.00 0.00 0.00 3.85
595 644 4.186159 CCCATGCATTGATTTTTGAGGTC 58.814 43.478 0.00 0.00 0.00 3.85
597 646 4.628333 CCATGCATTGATTTTTGAGGTCAC 59.372 41.667 0.00 0.00 0.00 3.67
598 647 4.933505 TGCATTGATTTTTGAGGTCACA 57.066 36.364 0.00 0.00 0.00 3.58
599 648 5.471556 TGCATTGATTTTTGAGGTCACAT 57.528 34.783 0.00 0.00 0.00 3.21
601 650 5.221481 TGCATTGATTTTTGAGGTCACATGT 60.221 36.000 0.00 0.00 0.00 3.21
602 651 5.697633 GCATTGATTTTTGAGGTCACATGTT 59.302 36.000 0.00 0.00 0.00 2.71
604 653 7.254863 GCATTGATTTTTGAGGTCACATGTTTT 60.255 33.333 0.00 0.00 0.00 2.43
605 654 8.614346 CATTGATTTTTGAGGTCACATGTTTTT 58.386 29.630 0.00 0.00 0.00 1.94
606 655 7.769272 TGATTTTTGAGGTCACATGTTTTTC 57.231 32.000 0.00 0.00 0.00 2.29
608 657 7.492020 TGATTTTTGAGGTCACATGTTTTTCAG 59.508 33.333 0.00 0.00 0.00 3.02
609 658 4.916983 TTGAGGTCACATGTTTTTCAGG 57.083 40.909 0.00 0.00 0.00 3.86
610 659 3.221771 TGAGGTCACATGTTTTTCAGGG 58.778 45.455 0.00 0.00 31.56 4.45
611 660 2.558359 GAGGTCACATGTTTTTCAGGGG 59.442 50.000 0.00 0.00 31.94 4.79
613 662 2.962421 GGTCACATGTTTTTCAGGGGAA 59.038 45.455 0.00 0.00 41.98 3.97
614 663 3.578282 GGTCACATGTTTTTCAGGGGAAT 59.422 43.478 0.00 0.00 41.98 3.01
616 665 3.006752 TCACATGTTTTTCAGGGGAATGC 59.993 43.478 0.00 0.00 37.32 3.56
617 666 2.029110 ACATGTTTTTCAGGGGAATGCG 60.029 45.455 0.00 0.00 31.93 4.73
618 667 1.698506 TGTTTTTCAGGGGAATGCGT 58.301 45.000 0.00 0.00 31.93 5.24
620 669 2.223923 TGTTTTTCAGGGGAATGCGTTG 60.224 45.455 0.00 0.00 31.93 4.10
621 670 1.988293 TTTTCAGGGGAATGCGTTGA 58.012 45.000 0.00 0.00 31.93 3.18
622 671 1.988293 TTTCAGGGGAATGCGTTGAA 58.012 45.000 0.00 0.00 31.93 2.69
623 672 1.988293 TTCAGGGGAATGCGTTGAAA 58.012 45.000 0.00 0.00 0.00 2.69
651 752 1.196104 ATTGTTGCAAGGCCATGGCT 61.196 50.000 34.70 18.82 41.24 4.75
665 766 2.496871 CCATGGCTATGCACTCCAAAAA 59.503 45.455 4.19 0.00 33.04 1.94
667 768 2.591923 TGGCTATGCACTCCAAAAACA 58.408 42.857 0.00 0.00 0.00 2.83
670 771 4.176271 GGCTATGCACTCCAAAAACAATC 58.824 43.478 0.00 0.00 0.00 2.67
683 784 3.708563 AAACAATCTCACGTTGGTTGG 57.291 42.857 13.68 0.00 35.32 3.77
690 791 2.028476 TCTCACGTTGGTTGGTATCCTG 60.028 50.000 0.00 0.00 0.00 3.86
691 792 0.802494 CACGTTGGTTGGTATCCTGC 59.198 55.000 0.00 0.00 0.00 4.85
694 795 1.883275 CGTTGGTTGGTATCCTGCAAA 59.117 47.619 0.00 0.00 0.00 3.68
695 796 2.294791 CGTTGGTTGGTATCCTGCAAAA 59.705 45.455 0.00 0.00 0.00 2.44
696 797 3.243569 CGTTGGTTGGTATCCTGCAAAAA 60.244 43.478 0.00 0.00 0.00 1.94
749 850 1.386533 GTCATGTGGATTCCAGGCTG 58.613 55.000 5.39 7.75 32.34 4.85
750 851 1.065199 GTCATGTGGATTCCAGGCTGA 60.065 52.381 17.94 6.66 32.34 4.26
751 852 1.848388 TCATGTGGATTCCAGGCTGAT 59.152 47.619 17.94 1.44 32.34 2.90
753 882 3.654321 TCATGTGGATTCCAGGCTGATAT 59.346 43.478 17.94 8.59 32.34 1.63
755 884 5.489997 TCATGTGGATTCCAGGCTGATATAT 59.510 40.000 17.94 3.20 32.34 0.86
804 1126 7.472334 AAGCAAAATCACTATCAACCAGATT 57.528 32.000 0.00 0.00 38.19 2.40
805 1127 7.472334 AGCAAAATCACTATCAACCAGATTT 57.528 32.000 0.00 0.00 39.74 2.17
816 1143 2.679342 CCAGATTTGGCCGGGGAGA 61.679 63.158 2.18 0.00 37.73 3.71
923 1254 2.287117 TCCCACCCATCCAGGCAT 60.287 61.111 0.00 0.00 35.39 4.40
929 1260 0.974010 ACCCATCCAGGCATTGCTTG 60.974 55.000 13.42 13.42 35.37 4.01
991 1327 1.593209 GGCGGTGAGACGTGAACAA 60.593 57.895 0.00 0.00 35.98 2.83
1013 1349 2.842256 GCATCATGGGAGCGGCAAG 61.842 63.158 1.45 0.00 0.00 4.01
1440 1798 1.050988 TATGGCAGAGGAGGGTGCTC 61.051 60.000 0.00 0.00 39.76 4.26
1731 2096 1.070786 TCCAGTTGAACACCGCTCC 59.929 57.895 0.00 0.00 0.00 4.70
1756 2121 2.990740 TTCCAGTTTGTTAGGCCCAT 57.009 45.000 0.00 0.00 0.00 4.00
1773 2138 6.138967 AGGCCCATTATTAAGCAGAAGAAAT 58.861 36.000 0.00 0.00 0.00 2.17
1805 2170 1.337447 CCTGTTTGCAAGCCTCATTGG 60.337 52.381 11.02 0.40 39.35 3.16
1813 2178 1.928868 AAGCCTCATTGGTTTGGGAG 58.071 50.000 0.00 0.00 37.87 4.30
1822 2187 1.378646 GGTTTGGGAGTAGCCAGCC 60.379 63.158 0.00 0.00 38.95 4.85
1850 2215 1.065782 TGCCTACGCTAAATTCTGCCA 60.066 47.619 0.00 0.00 35.36 4.92
1882 2250 6.449698 GTTCTCAATGTGACATCAACCAATT 58.550 36.000 0.00 0.00 0.00 2.32
1982 2836 6.505272 ACTTTATTCGTAGAGATGCCAGTAC 58.495 40.000 0.00 0.00 38.43 2.73
2015 2870 5.117584 AGCTTCTATGCTTGTCTTGATCAG 58.882 41.667 0.00 0.00 40.93 2.90
2032 2887 7.840716 TCTTGATCAGTCCCCAATCAAATTAAT 59.159 33.333 0.00 0.00 38.54 1.40
2033 2888 9.135189 CTTGATCAGTCCCCAATCAAATTAATA 57.865 33.333 0.00 0.00 38.54 0.98
2068 2923 7.098477 CCATCTTACATTTGAAGCCATTTTGA 58.902 34.615 0.00 0.00 0.00 2.69
2197 3052 6.879458 AGCTCACCGAAATTAGAACAAGTAAT 59.121 34.615 0.00 0.00 0.00 1.89
2238 3093 1.207791 ACTGCCTCCTCGGATTGATT 58.792 50.000 0.00 0.00 33.16 2.57
2338 3193 9.645128 AGGAAATTTTATGATGACATGGACATA 57.355 29.630 0.00 0.00 37.87 2.29
2406 3261 2.756760 CAATGACCAAACTAGCATGCCT 59.243 45.455 15.66 4.37 0.00 4.75
2451 3306 4.767578 TCATCTTCTTAGGCAAGAGCAT 57.232 40.909 0.00 0.00 41.75 3.79
2452 3307 5.108187 TCATCTTCTTAGGCAAGAGCATT 57.892 39.130 0.00 0.00 41.75 3.56
2453 3308 4.880120 TCATCTTCTTAGGCAAGAGCATTG 59.120 41.667 0.00 0.00 41.75 2.82
2454 3309 4.558226 TCTTCTTAGGCAAGAGCATTGA 57.442 40.909 5.91 0.00 41.75 2.57
2455 3310 4.910195 TCTTCTTAGGCAAGAGCATTGAA 58.090 39.130 5.91 0.00 41.75 2.69
2456 3311 4.940046 TCTTCTTAGGCAAGAGCATTGAAG 59.060 41.667 5.91 9.54 41.75 3.02
2457 3312 3.012518 TCTTAGGCAAGAGCATTGAAGC 58.987 45.455 5.91 0.00 44.61 3.86
2458 3313 2.495155 TAGGCAAGAGCATTGAAGCA 57.505 45.000 5.91 0.00 44.61 3.91
2459 3314 1.624336 AGGCAAGAGCATTGAAGCAA 58.376 45.000 5.91 0.00 44.61 3.91
2460 3315 1.965643 AGGCAAGAGCATTGAAGCAAA 59.034 42.857 5.91 0.00 44.61 3.68
2461 3316 2.029290 AGGCAAGAGCATTGAAGCAAAG 60.029 45.455 5.91 0.00 44.61 2.77
2462 3317 2.288640 GGCAAGAGCATTGAAGCAAAGT 60.289 45.455 5.91 0.00 44.61 2.66
2463 3318 3.387397 GCAAGAGCATTGAAGCAAAGTT 58.613 40.909 5.91 0.00 41.58 2.66
2464 3319 3.805971 GCAAGAGCATTGAAGCAAAGTTT 59.194 39.130 5.91 0.00 41.58 2.66
2465 3320 4.318546 GCAAGAGCATTGAAGCAAAGTTTG 60.319 41.667 11.41 11.41 41.58 2.93
2502 3380 4.094590 CCAAGCAAAATCTTTGTGTTGCAA 59.905 37.500 9.62 0.00 46.92 4.08
2558 3436 3.695830 TTACACCACAGAACTGGGATC 57.304 47.619 5.58 0.00 35.61 3.36
2611 3506 6.567050 ACAATGTAAGCCAGCATAGAAATTG 58.433 36.000 0.00 0.00 0.00 2.32
2633 3528 2.076207 ATGCATTGCAGAATGGCCTA 57.924 45.000 17.52 0.00 43.65 3.93
2646 3541 2.489938 TGGCCTATTCTCGCACTTTT 57.510 45.000 3.32 0.00 0.00 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.884895 CCACCAGCCATTAACAGTATGA 58.115 45.455 0.00 0.00 39.69 2.15
51 52 4.070716 AGAAACAGAGGAAATCAGCACTG 58.929 43.478 0.00 0.00 0.00 3.66
61 62 4.503296 CGAAGAAAGGGAGAAACAGAGGAA 60.503 45.833 0.00 0.00 0.00 3.36
65 66 3.244112 GGACGAAGAAAGGGAGAAACAGA 60.244 47.826 0.00 0.00 0.00 3.41
66 67 3.067833 GGACGAAGAAAGGGAGAAACAG 58.932 50.000 0.00 0.00 0.00 3.16
67 68 2.704065 AGGACGAAGAAAGGGAGAAACA 59.296 45.455 0.00 0.00 0.00 2.83
68 69 3.404224 AGGACGAAGAAAGGGAGAAAC 57.596 47.619 0.00 0.00 0.00 2.78
71 72 2.563179 CAGAAGGACGAAGAAAGGGAGA 59.437 50.000 0.00 0.00 0.00 3.71
72 73 2.300437 ACAGAAGGACGAAGAAAGGGAG 59.700 50.000 0.00 0.00 0.00 4.30
73 74 2.299297 GACAGAAGGACGAAGAAAGGGA 59.701 50.000 0.00 0.00 0.00 4.20
74 75 2.689646 GACAGAAGGACGAAGAAAGGG 58.310 52.381 0.00 0.00 0.00 3.95
121 122 4.379186 GCTCACAGTTCATGTCTGGATTTG 60.379 45.833 18.90 11.35 41.41 2.32
130 131 1.271054 GGTCCAGCTCACAGTTCATGT 60.271 52.381 0.00 0.00 45.43 3.21
143 144 2.679837 CACACATTACTCATGGTCCAGC 59.320 50.000 0.00 0.00 37.17 4.85
161 162 2.535485 ATCGAATCGGCCTTGGCACA 62.535 55.000 14.04 0.00 0.00 4.57
162 163 1.819632 ATCGAATCGGCCTTGGCAC 60.820 57.895 14.04 2.31 0.00 5.01
166 172 1.893808 CCCCATCGAATCGGCCTTG 60.894 63.158 1.76 0.00 0.00 3.61
176 182 0.251608 TGAGACTGTGACCCCATCGA 60.252 55.000 0.00 0.00 0.00 3.59
177 183 0.108615 GTGAGACTGTGACCCCATCG 60.109 60.000 0.00 0.00 0.00 3.84
179 185 0.979665 CTGTGAGACTGTGACCCCAT 59.020 55.000 0.00 0.00 0.00 4.00
181 187 1.205893 GATCTGTGAGACTGTGACCCC 59.794 57.143 0.00 0.00 0.00 4.95
182 188 1.895798 TGATCTGTGAGACTGTGACCC 59.104 52.381 0.00 0.00 0.00 4.46
183 189 3.883830 ATGATCTGTGAGACTGTGACC 57.116 47.619 0.00 0.00 0.00 4.02
184 190 5.826601 TCTATGATCTGTGAGACTGTGAC 57.173 43.478 0.00 0.00 0.00 3.67
185 191 6.682362 GCATTCTATGATCTGTGAGACTGTGA 60.682 42.308 0.00 0.00 0.00 3.58
186 192 5.462729 GCATTCTATGATCTGTGAGACTGTG 59.537 44.000 0.00 0.00 0.00 3.66
187 193 5.363292 AGCATTCTATGATCTGTGAGACTGT 59.637 40.000 0.00 0.00 0.00 3.55
188 194 5.845103 AGCATTCTATGATCTGTGAGACTG 58.155 41.667 0.00 0.00 0.00 3.51
189 195 6.294675 GCTAGCATTCTATGATCTGTGAGACT 60.295 42.308 10.63 0.00 0.00 3.24
190 196 5.863397 GCTAGCATTCTATGATCTGTGAGAC 59.137 44.000 10.63 0.00 0.00 3.36
191 197 5.774184 AGCTAGCATTCTATGATCTGTGAGA 59.226 40.000 18.83 0.00 0.00 3.27
192 198 5.865013 CAGCTAGCATTCTATGATCTGTGAG 59.135 44.000 18.83 0.00 0.00 3.51
193 199 5.537674 TCAGCTAGCATTCTATGATCTGTGA 59.462 40.000 18.83 3.41 0.00 3.58
194 200 5.780984 TCAGCTAGCATTCTATGATCTGTG 58.219 41.667 18.83 0.77 0.00 3.66
195 201 6.014413 ACATCAGCTAGCATTCTATGATCTGT 60.014 38.462 18.83 9.70 27.53 3.41
196 202 6.399743 ACATCAGCTAGCATTCTATGATCTG 58.600 40.000 18.83 9.10 27.53 2.90
197 203 6.608539 ACATCAGCTAGCATTCTATGATCT 57.391 37.500 18.83 0.96 27.53 2.75
201 207 7.348808 CTGTAACATCAGCTAGCATTCTATG 57.651 40.000 18.83 13.97 0.00 2.23
242 252 4.098055 TGAAGATTACAGCTCTCGTCAC 57.902 45.455 0.00 0.00 0.00 3.67
243 253 4.783764 TTGAAGATTACAGCTCTCGTCA 57.216 40.909 0.00 0.00 0.00 4.35
254 264 5.180492 TGGTCAAACGGTGATTGAAGATTAC 59.820 40.000 0.00 0.00 38.44 1.89
262 272 1.266718 CCAGTGGTCAAACGGTGATTG 59.733 52.381 0.00 0.00 38.90 2.67
263 273 1.142060 TCCAGTGGTCAAACGGTGATT 59.858 47.619 9.54 0.00 38.90 2.57
280 290 4.238654 AACGTTCCGCCGGTTCCA 62.239 61.111 1.63 0.00 0.00 3.53
289 299 0.808453 ATATGGCGTCCAACGTTCCG 60.808 55.000 0.00 2.22 44.73 4.30
290 300 0.655733 CATATGGCGTCCAACGTTCC 59.344 55.000 0.00 0.00 44.73 3.62
291 301 1.062002 CACATATGGCGTCCAACGTTC 59.938 52.381 7.80 0.00 44.73 3.95
292 302 1.083489 CACATATGGCGTCCAACGTT 58.917 50.000 7.80 0.00 44.73 3.99
293 303 0.248012 TCACATATGGCGTCCAACGT 59.752 50.000 7.80 0.00 44.73 3.99
305 315 1.479942 CCATGGCCTGCCTTCACATAT 60.480 52.381 9.97 0.00 36.94 1.78
348 359 4.328983 GCGAAAAGTTTATGAGACATCCGA 59.671 41.667 0.00 0.00 0.00 4.55
349 360 4.494199 GGCGAAAAGTTTATGAGACATCCG 60.494 45.833 0.00 0.00 0.00 4.18
360 373 0.674269 ATCCGCGGGCGAAAAGTTTA 60.674 50.000 27.83 0.12 42.83 2.01
373 386 0.238817 TTCCCGAAAACAAATCCGCG 59.761 50.000 0.00 0.00 0.00 6.46
378 391 6.259829 CCTTCAAACATTTCCCGAAAACAAAT 59.740 34.615 0.00 0.00 33.56 2.32
389 402 3.133901 ACACCCAACCTTCAAACATTTCC 59.866 43.478 0.00 0.00 0.00 3.13
403 417 1.454847 TCCAGCCACAACACCCAAC 60.455 57.895 0.00 0.00 0.00 3.77
414 428 4.353777 ACTAGAAGATAGTTGTCCAGCCA 58.646 43.478 0.00 0.00 0.00 4.75
415 429 5.595133 AGTACTAGAAGATAGTTGTCCAGCC 59.405 44.000 0.00 0.00 0.00 4.85
416 430 6.702716 AGTACTAGAAGATAGTTGTCCAGC 57.297 41.667 0.00 0.00 0.00 4.85
417 431 9.398538 ACTTAGTACTAGAAGATAGTTGTCCAG 57.601 37.037 11.55 0.13 0.00 3.86
418 432 9.750783 AACTTAGTACTAGAAGATAGTTGTCCA 57.249 33.333 11.55 0.00 0.00 4.02
422 436 9.790389 CCACAACTTAGTACTAGAAGATAGTTG 57.210 37.037 26.63 26.63 44.02 3.16
423 437 9.531158 ACCACAACTTAGTACTAGAAGATAGTT 57.469 33.333 11.55 10.11 0.00 2.24
426 440 8.746530 CCAACCACAACTTAGTACTAGAAGATA 58.253 37.037 11.55 0.00 0.00 1.98
428 442 6.552350 ACCAACCACAACTTAGTACTAGAAGA 59.448 38.462 11.55 0.00 0.00 2.87
430 444 6.098695 ACACCAACCACAACTTAGTACTAGAA 59.901 38.462 2.23 0.00 0.00 2.10
434 448 4.765813 ACACCAACCACAACTTAGTACT 57.234 40.909 0.00 0.00 0.00 2.73
435 449 6.923928 TTTACACCAACCACAACTTAGTAC 57.076 37.500 0.00 0.00 0.00 2.73
445 491 7.266922 TCTTCAAACTATTTACACCAACCAC 57.733 36.000 0.00 0.00 0.00 4.16
447 493 9.191995 CAAATCTTCAAACTATTTACACCAACC 57.808 33.333 0.00 0.00 0.00 3.77
449 495 9.959749 GACAAATCTTCAAACTATTTACACCAA 57.040 29.630 0.00 0.00 0.00 3.67
470 518 6.255887 ACAAAAATTTATTCCGCGTTGACAAA 59.744 30.769 4.92 0.00 0.00 2.83
533 582 2.492088 GGGGAAAATCCTTCAAACTCGG 59.508 50.000 0.00 0.00 36.57 4.63
534 583 3.421844 AGGGGAAAATCCTTCAAACTCG 58.578 45.455 0.00 0.00 36.57 4.18
536 585 6.575244 AAAAAGGGGAAAATCCTTCAAACT 57.425 33.333 0.00 0.00 43.24 2.66
561 610 1.737735 GCATGGGGTTTCAAAGCGC 60.738 57.895 9.34 9.34 41.57 5.92
562 611 0.247185 ATGCATGGGGTTTCAAAGCG 59.753 50.000 0.00 0.00 0.00 4.68
563 612 2.078392 CAATGCATGGGGTTTCAAAGC 58.922 47.619 0.00 0.00 0.00 3.51
564 613 3.681593 TCAATGCATGGGGTTTCAAAG 57.318 42.857 0.00 0.00 0.00 2.77
565 614 4.637387 AATCAATGCATGGGGTTTCAAA 57.363 36.364 0.00 0.00 0.00 2.69
566 615 4.637387 AAATCAATGCATGGGGTTTCAA 57.363 36.364 0.00 0.00 0.00 2.69
567 616 4.637387 AAAATCAATGCATGGGGTTTCA 57.363 36.364 0.00 0.00 0.00 2.69
568 617 5.002516 TCAAAAATCAATGCATGGGGTTTC 58.997 37.500 0.00 0.00 0.00 2.78
570 619 4.566070 CCTCAAAAATCAATGCATGGGGTT 60.566 41.667 0.00 0.00 0.00 4.11
571 620 3.054948 CCTCAAAAATCAATGCATGGGGT 60.055 43.478 0.00 0.00 0.00 4.95
573 622 4.186159 GACCTCAAAAATCAATGCATGGG 58.814 43.478 0.00 0.00 0.00 4.00
574 623 4.628333 GTGACCTCAAAAATCAATGCATGG 59.372 41.667 0.00 0.00 0.00 3.66
575 624 5.231702 TGTGACCTCAAAAATCAATGCATG 58.768 37.500 0.00 0.00 0.00 4.06
577 626 4.933505 TGTGACCTCAAAAATCAATGCA 57.066 36.364 0.00 0.00 0.00 3.96
578 627 5.232463 ACATGTGACCTCAAAAATCAATGC 58.768 37.500 0.00 0.00 0.00 3.56
579 628 7.718272 AAACATGTGACCTCAAAAATCAATG 57.282 32.000 0.00 0.00 0.00 2.82
580 629 8.735692 AAAAACATGTGACCTCAAAAATCAAT 57.264 26.923 0.00 0.00 0.00 2.57
582 631 7.326454 TGAAAAACATGTGACCTCAAAAATCA 58.674 30.769 0.00 0.00 0.00 2.57
583 632 7.042523 CCTGAAAAACATGTGACCTCAAAAATC 60.043 37.037 0.00 0.00 0.00 2.17
584 633 6.762661 CCTGAAAAACATGTGACCTCAAAAAT 59.237 34.615 0.00 0.00 0.00 1.82
586 635 5.395103 CCCTGAAAAACATGTGACCTCAAAA 60.395 40.000 0.00 0.00 0.00 2.44
588 637 3.636300 CCCTGAAAAACATGTGACCTCAA 59.364 43.478 0.00 0.00 0.00 3.02
590 639 2.558359 CCCCTGAAAAACATGTGACCTC 59.442 50.000 0.00 0.00 0.00 3.85
591 640 2.176798 TCCCCTGAAAAACATGTGACCT 59.823 45.455 0.00 0.00 0.00 3.85
592 641 2.593026 TCCCCTGAAAAACATGTGACC 58.407 47.619 0.00 0.00 0.00 4.02
593 642 4.559153 CATTCCCCTGAAAAACATGTGAC 58.441 43.478 0.00 0.00 33.32 3.67
594 643 3.006752 GCATTCCCCTGAAAAACATGTGA 59.993 43.478 0.00 0.00 33.32 3.58
595 644 3.328505 GCATTCCCCTGAAAAACATGTG 58.671 45.455 0.00 0.00 33.32 3.21
597 646 2.029110 ACGCATTCCCCTGAAAAACATG 60.029 45.455 0.00 0.00 33.32 3.21
598 647 2.247358 ACGCATTCCCCTGAAAAACAT 58.753 42.857 0.00 0.00 33.32 2.71
599 648 1.698506 ACGCATTCCCCTGAAAAACA 58.301 45.000 0.00 0.00 33.32 2.83
601 650 2.311463 TCAACGCATTCCCCTGAAAAA 58.689 42.857 0.00 0.00 33.32 1.94
602 651 1.988293 TCAACGCATTCCCCTGAAAA 58.012 45.000 0.00 0.00 33.32 2.29
604 653 1.611491 GTTTCAACGCATTCCCCTGAA 59.389 47.619 0.00 0.00 34.33 3.02
605 654 1.243902 GTTTCAACGCATTCCCCTGA 58.756 50.000 0.00 0.00 0.00 3.86
606 655 0.243636 GGTTTCAACGCATTCCCCTG 59.756 55.000 0.00 0.00 0.00 4.45
608 657 1.589630 GGGTTTCAACGCATTCCCC 59.410 57.895 2.04 0.00 41.07 4.81
609 658 1.182385 TGGGGTTTCAACGCATTCCC 61.182 55.000 8.79 2.24 42.95 3.97
610 659 0.243636 CTGGGGTTTCAACGCATTCC 59.756 55.000 8.79 0.00 42.95 3.01
611 660 0.243636 CCTGGGGTTTCAACGCATTC 59.756 55.000 8.79 0.00 42.95 2.67
613 662 2.275380 GCCTGGGGTTTCAACGCAT 61.275 57.895 8.79 0.00 42.95 4.73
614 663 2.909965 GCCTGGGGTTTCAACGCA 60.910 61.111 8.79 0.00 42.95 5.24
616 665 0.038343 CAATGCCTGGGGTTTCAACG 60.038 55.000 0.00 0.00 0.00 4.10
617 666 1.047801 ACAATGCCTGGGGTTTCAAC 58.952 50.000 0.00 0.00 0.00 3.18
618 667 1.415659 CAACAATGCCTGGGGTTTCAA 59.584 47.619 0.00 0.00 0.00 2.69
620 669 3.912899 CAACAATGCCTGGGGTTTC 57.087 52.632 0.00 0.00 0.00 2.78
639 738 0.754217 AGTGCATAGCCATGGCCTTG 60.754 55.000 33.14 28.50 43.17 3.61
651 752 5.334802 CGTGAGATTGTTTTTGGAGTGCATA 60.335 40.000 0.00 0.00 0.00 3.14
665 766 2.341846 ACCAACCAACGTGAGATTGT 57.658 45.000 0.00 0.00 0.00 2.71
667 768 3.263425 AGGATACCAACCAACGTGAGATT 59.737 43.478 0.00 0.00 37.17 2.40
670 771 2.346803 CAGGATACCAACCAACGTGAG 58.653 52.381 0.00 0.00 37.17 3.51
700 801 9.623000 GCTCATCTTTAAGTTATACCCCTTAAA 57.377 33.333 0.00 0.00 39.54 1.52
701 802 7.929785 CGCTCATCTTTAAGTTATACCCCTTAA 59.070 37.037 0.00 0.00 32.75 1.85
702 803 7.439381 CGCTCATCTTTAAGTTATACCCCTTA 58.561 38.462 0.00 0.00 0.00 2.69
703 804 6.289064 CGCTCATCTTTAAGTTATACCCCTT 58.711 40.000 0.00 0.00 0.00 3.95
704 805 5.742255 GCGCTCATCTTTAAGTTATACCCCT 60.742 44.000 0.00 0.00 0.00 4.79
706 807 4.451435 GGCGCTCATCTTTAAGTTATACCC 59.549 45.833 7.64 0.00 0.00 3.69
709 810 4.940463 ACGGCGCTCATCTTTAAGTTATA 58.060 39.130 6.90 0.00 0.00 0.98
710 811 3.793559 ACGGCGCTCATCTTTAAGTTAT 58.206 40.909 6.90 0.00 0.00 1.89
711 812 3.184541 GACGGCGCTCATCTTTAAGTTA 58.815 45.455 6.90 0.00 0.00 2.24
712 813 2.000447 GACGGCGCTCATCTTTAAGTT 59.000 47.619 6.90 0.00 0.00 2.66
713 814 1.067142 TGACGGCGCTCATCTTTAAGT 60.067 47.619 6.90 0.00 0.00 2.24
773 993 8.992073 GGTTGATAGTGATTTTGCTTTCAAATT 58.008 29.630 0.00 0.00 41.37 1.82
776 996 7.014134 TCTGGTTGATAGTGATTTTGCTTTCAA 59.986 33.333 0.00 0.00 32.90 2.69
779 999 6.899393 TCTGGTTGATAGTGATTTTGCTTT 57.101 33.333 0.00 0.00 0.00 3.51
781 1001 7.318141 CAAATCTGGTTGATAGTGATTTTGCT 58.682 34.615 0.00 0.00 35.84 3.91
783 1003 6.532657 GCCAAATCTGGTTGATAGTGATTTTG 59.467 38.462 0.00 0.00 45.53 2.44
784 1004 6.351286 GGCCAAATCTGGTTGATAGTGATTTT 60.351 38.462 0.00 0.00 45.53 1.82
804 1126 4.722535 AGCTCTCTCCCCGGCCAA 62.723 66.667 2.24 0.00 0.00 4.52
835 1166 2.281484 GCGTTCCTGCTTGGGTCA 60.281 61.111 0.00 0.00 36.20 4.02
861 1192 3.782244 GGTTCACTCGCTGCGCTG 61.782 66.667 18.65 14.59 0.00 5.18
901 1232 1.379044 CTGGATGGGTGGGACAAGC 60.379 63.158 0.00 0.00 44.16 4.01
902 1233 1.304282 CCTGGATGGGTGGGACAAG 59.696 63.158 0.00 0.00 44.16 3.16
913 1244 1.135199 GTGTCAAGCAATGCCTGGATG 60.135 52.381 0.00 0.00 0.00 3.51
923 1254 2.970324 GGCGTCCGTGTCAAGCAA 60.970 61.111 0.00 0.00 0.00 3.91
991 1327 4.923942 CGCTCCCATGATGCCGCT 62.924 66.667 0.00 0.00 0.00 5.52
1309 1667 2.106332 CCCGTATCCAGTGACGCC 59.894 66.667 0.00 0.00 37.75 5.68
1312 1670 0.824759 AGAAGCCCGTATCCAGTGAC 59.175 55.000 0.00 0.00 0.00 3.67
1313 1671 0.824109 CAGAAGCCCGTATCCAGTGA 59.176 55.000 0.00 0.00 0.00 3.41
1314 1672 0.179073 CCAGAAGCCCGTATCCAGTG 60.179 60.000 0.00 0.00 0.00 3.66
1315 1673 1.972660 GCCAGAAGCCCGTATCCAGT 61.973 60.000 0.00 0.00 34.35 4.00
1316 1674 1.227674 GCCAGAAGCCCGTATCCAG 60.228 63.158 0.00 0.00 34.35 3.86
1317 1675 1.971505 CTGCCAGAAGCCCGTATCCA 61.972 60.000 0.00 0.00 42.71 3.41
1318 1676 1.227674 CTGCCAGAAGCCCGTATCC 60.228 63.158 0.00 0.00 42.71 2.59
1319 1677 1.227674 CCTGCCAGAAGCCCGTATC 60.228 63.158 0.00 0.00 42.71 2.24
1320 1678 2.746375 CCCTGCCAGAAGCCCGTAT 61.746 63.158 0.00 0.00 42.71 3.06
1640 2005 2.036475 CAGGTCCCTCAGGATGTTATCG 59.964 54.545 0.00 0.00 46.41 2.92
1731 2096 2.225727 GCCTAACAAACTGGAAAGGACG 59.774 50.000 0.00 0.00 0.00 4.79
1773 2138 5.294060 GCTTGCAAACAGGAAATTTCTGAAA 59.706 36.000 17.42 5.15 36.22 2.69
1805 2170 0.678048 CTGGCTGGCTACTCCCAAAC 60.678 60.000 2.00 0.00 33.73 2.93
1822 2187 0.173481 TTAGCGTAGGCACAGCTCTG 59.827 55.000 10.48 0.00 43.41 3.35
1850 2215 6.491062 TGATGTCACATTGAGAACCAGAATTT 59.509 34.615 0.00 0.00 0.00 1.82
1882 2250 4.487804 CCCTCTGATCTCTCCTCCATTTA 58.512 47.826 0.00 0.00 0.00 1.40
1933 2301 8.515414 GTTGTCCCATTATCCAAATATAAGAGC 58.485 37.037 0.00 0.00 0.00 4.09
2032 2887 8.359875 TCAAATGTAAGATGGCCTTGAATTTA 57.640 30.769 3.32 0.00 36.34 1.40
2033 2888 7.243604 TCAAATGTAAGATGGCCTTGAATTT 57.756 32.000 3.32 0.00 36.34 1.82
2036 2891 5.336690 GCTTCAAATGTAAGATGGCCTTGAA 60.337 40.000 3.32 7.55 36.34 2.69
2197 3052 7.038659 CAGTTAATTTTGACCCAGTTTGTTGA 58.961 34.615 0.00 0.00 0.00 3.18
2373 3228 4.829064 TTGGTCATTGCTAACACTTGAC 57.171 40.909 0.00 0.00 37.98 3.18
2406 3261 5.402630 TGGCCTCTGGTATAGTATGAATGA 58.597 41.667 3.32 0.00 0.00 2.57
2461 3316 0.240145 GGCTCCGTAAGTTGGCAAAC 59.760 55.000 0.00 0.00 36.47 2.93
2462 3317 0.179015 TGGCTCCGTAAGTTGGCAAA 60.179 50.000 0.00 0.00 39.41 3.68
2463 3318 0.179015 TTGGCTCCGTAAGTTGGCAA 60.179 50.000 0.00 0.00 45.39 4.52
2464 3319 0.605319 CTTGGCTCCGTAAGTTGGCA 60.605 55.000 0.00 0.00 40.26 4.92
2465 3320 1.923227 GCTTGGCTCCGTAAGTTGGC 61.923 60.000 0.00 0.00 0.00 4.52
2466 3321 0.605319 TGCTTGGCTCCGTAAGTTGG 60.605 55.000 0.00 0.00 0.00 3.77
2467 3322 1.234821 TTGCTTGGCTCCGTAAGTTG 58.765 50.000 0.00 0.00 0.00 3.16
2468 3323 1.975660 TTTGCTTGGCTCCGTAAGTT 58.024 45.000 0.00 0.00 0.00 2.66
2469 3324 1.975660 TTTTGCTTGGCTCCGTAAGT 58.024 45.000 0.00 0.00 0.00 2.24
2470 3325 2.749621 AGATTTTGCTTGGCTCCGTAAG 59.250 45.455 0.00 0.00 0.00 2.34
2471 3326 2.790433 AGATTTTGCTTGGCTCCGTAA 58.210 42.857 0.00 0.00 0.00 3.18
2472 3327 2.489938 AGATTTTGCTTGGCTCCGTA 57.510 45.000 0.00 0.00 0.00 4.02
2473 3328 1.620822 AAGATTTTGCTTGGCTCCGT 58.379 45.000 0.00 0.00 0.00 4.69
2558 3436 2.417516 CCGGACGGCCTGACTATG 59.582 66.667 5.33 0.00 0.00 2.23
2611 3506 2.101917 AGGCCATTCTGCAATGCATTAC 59.898 45.455 12.53 7.23 38.53 1.89
2646 3541 6.141560 TGATGCGCACATATTGGAATTAAA 57.858 33.333 14.90 0.00 36.35 1.52
2650 3545 2.555325 CCTGATGCGCACATATTGGAAT 59.445 45.455 14.90 0.00 36.35 3.01
2663 3558 2.743664 TGAACTTGTTCATCCTGATGCG 59.256 45.455 11.62 0.00 38.65 4.73



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

AutoCloner maintained by Alex Coulton.