Multiple sequence alignment - TraesCS3A01G276600

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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 TraesCS3A01G276600 chr3A 100.000 6701 0 0 1 6701 506664723 506671423 0.000000e+00 12375.0
1 TraesCS3A01G276600 chr3D 94.149 4307 203 28 2405 6683 384001175 384005460 0.000000e+00 6512.0
2 TraesCS3A01G276600 chr3D 96.325 1143 39 1 828 1967 383996008 383997150 0.000000e+00 1875.0
3 TraesCS3A01G276600 chr3D 90.835 491 22 2 1 481 383984347 383984824 2.640000e-178 636.0
4 TraesCS3A01G276600 chr3D 86.719 256 24 5 476 731 383993392 383993637 6.620000e-70 276.0
5 TraesCS3A01G276600 chr3B 94.523 2556 92 17 2252 4802 499352946 499355458 0.000000e+00 3901.0
6 TraesCS3A01G276600 chr3B 93.994 1848 75 14 4771 6591 499355459 499357297 0.000000e+00 2765.0
7 TraesCS3A01G276600 chr3B 94.040 1208 41 7 763 1967 499351464 499352643 0.000000e+00 1803.0
8 TraesCS3A01G276600 chr3B 85.645 620 80 5 1 615 499349866 499350481 1.580000e-180 643.0
9 TraesCS3A01G276600 chr3B 95.149 268 13 0 1968 2235 499352693 499352960 2.230000e-114 424.0
10 TraesCS3A01G276600 chr3B 96.825 63 1 1 6621 6683 499357293 499357354 3.310000e-18 104.0
11 TraesCS3A01G276600 chr1D 84.571 350 51 1 1 347 475447107 475447456 1.790000e-90 344.0
12 TraesCS3A01G276600 chr5B 90.196 51 5 0 6050 6100 141043598 141043548 4.340000e-07 67.6
13 TraesCS3A01G276600 chr6B 91.304 46 4 0 6050 6095 60741798 60741843 5.610000e-06 63.9


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 TraesCS3A01G276600 chr3A 506664723 506671423 6700 False 12375.000000 12375 100.000000 1 6701 1 chr3A.!!$F1 6700
1 TraesCS3A01G276600 chr3D 384001175 384005460 4285 False 6512.000000 6512 94.149000 2405 6683 1 chr3D.!!$F2 4278
2 TraesCS3A01G276600 chr3D 383993392 383997150 3758 False 1075.500000 1875 91.522000 476 1967 2 chr3D.!!$F3 1491
3 TraesCS3A01G276600 chr3B 499349866 499357354 7488 False 1606.666667 3901 93.362667 1 6683 6 chr3B.!!$F1 6682

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
158 159 0.394899 CAGGGCTTGAGGGGCTTTAG 60.395 60.0 0.00 0.0 0.00 1.85 F
370 374 0.458543 CATCTCCAACGGACGGACAG 60.459 60.0 0.00 0.0 0.00 3.51 F
793 3958 0.667993 CATTACGGGCCATTTCGCAT 59.332 50.0 4.39 0.0 0.00 4.73 F
2203 5423 2.169352 AGGATCAGAGTTCCGTGGAATG 59.831 50.0 4.36 0.0 38.36 2.67 F
2571 5795 0.964358 GCTGCAATGTCTTCTGCCCT 60.964 55.0 0.00 0.0 37.79 5.19 F
3090 6323 1.097547 CCAAACCAGCCTATGCCTCG 61.098 60.0 0.00 0.0 38.69 4.63 F
3714 6948 0.320073 TTCCGTTTGCTCCTACCGTG 60.320 55.0 0.00 0.0 0.00 4.94 F
4443 7678 0.961019 TCCAGCACCTTTGACATTGC 59.039 50.0 0.00 0.0 35.08 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1589 4758 0.108472 GTAGTACACCTTCCCCGTGC 60.108 60.000 0.00 0.00 34.45 5.34 R
1689 4858 0.508641 CGACAAGCCGACAGAAGTTG 59.491 55.000 0.00 0.00 0.00 3.16 R
2242 5462 1.002251 ACAATGTTTGTGTTACCCGCG 60.002 47.619 0.00 0.00 43.48 6.46 R
3560 6793 0.687354 ACAGAGTACTTGGGCACAGG 59.313 55.000 0.00 0.00 0.00 4.00 R
3699 6933 2.018542 TATGCACGGTAGGAGCAAAC 57.981 50.000 0.00 0.00 42.15 2.93 R
4846 8119 0.593128 CTCCCAGTTTTGCAAGACCG 59.407 55.000 15.93 6.43 0.00 4.79 R
5342 8639 0.954452 CTTTCAAGCTCCCCACACAC 59.046 55.000 0.00 0.00 0.00 3.82 R
6182 9481 0.322456 TTCTCCATTCCCAACGGCAG 60.322 55.000 0.00 0.00 0.00 4.85 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
42 43 5.920840 CCTTGATAATTCGAAGAGTATCGCA 59.079 40.000 3.35 2.03 42.67 5.10
76 77 4.413760 TGTAAGACTTCGGGATATAGGGG 58.586 47.826 0.00 0.00 0.00 4.79
86 87 4.224370 TCGGGATATAGGGGCAAAAGTATC 59.776 45.833 0.00 0.00 0.00 2.24
108 109 2.680339 GCTTCCCAGTAATCTGCTCAAC 59.320 50.000 0.00 0.00 40.09 3.18
110 111 4.326826 CTTCCCAGTAATCTGCTCAACAA 58.673 43.478 0.00 0.00 40.09 2.83
113 114 3.189287 CCCAGTAATCTGCTCAACAACAC 59.811 47.826 0.00 0.00 40.09 3.32
127 128 1.214175 ACAACACACTGAACCCATGGA 59.786 47.619 15.22 0.00 0.00 3.41
131 132 0.700564 ACACTGAACCCATGGAGCAT 59.299 50.000 15.22 0.00 0.00 3.79
140 141 2.311542 ACCCATGGAGCATAAGGTTTCA 59.688 45.455 15.22 0.00 29.06 2.69
154 155 2.162906 TTTCAGGGCTTGAGGGGCT 61.163 57.895 0.00 0.00 37.07 5.19
156 157 1.729267 TTCAGGGCTTGAGGGGCTTT 61.729 55.000 0.00 0.00 37.07 3.51
158 159 0.394899 CAGGGCTTGAGGGGCTTTAG 60.395 60.000 0.00 0.00 0.00 1.85
161 162 1.034292 GGCTTGAGGGGCTTTAGCAG 61.034 60.000 3.88 0.00 44.36 4.24
177 178 2.324215 CAGCATATGCCCAGTTCCG 58.676 57.895 23.96 0.00 43.38 4.30
190 191 3.877508 CCCAGTTCCGAATGAATAAGTCC 59.122 47.826 0.00 0.00 34.90 3.85
204 205 2.702592 AAGTCCGACAGGTCAAAACA 57.297 45.000 0.40 0.00 39.05 2.83
223 224 2.135933 CAAATTCCTATCGAGACGGCC 58.864 52.381 0.00 0.00 0.00 6.13
250 251 2.161410 TGCATTTCGGACAATTCCTTCG 59.839 45.455 0.00 0.00 40.23 3.79
259 260 4.866682 GACAATTCCTTCGATCTTGTCC 57.133 45.455 9.47 0.00 39.68 4.02
260 261 4.508662 GACAATTCCTTCGATCTTGTCCT 58.491 43.478 9.47 0.00 39.68 3.85
274 278 1.223501 TGTCCTTGTTGGTTGGGGTA 58.776 50.000 0.00 0.00 37.07 3.69
286 290 1.544246 GTTGGGGTAATGGAGTTGCAC 59.456 52.381 0.00 0.00 0.00 4.57
288 292 1.145945 TGGGGTAATGGAGTTGCACAA 59.854 47.619 0.00 0.00 0.00 3.33
292 296 4.244862 GGGTAATGGAGTTGCACAAAATG 58.755 43.478 0.00 0.00 0.00 2.32
310 314 8.314143 ACAAAATGTGAAATAGGAGCAAATTG 57.686 30.769 0.00 0.00 0.00 2.32
317 321 7.067372 TGTGAAATAGGAGCAAATTGTCATAGG 59.933 37.037 0.00 0.00 0.00 2.57
334 338 4.158025 TCATAGGTCAAGTTCTTCGGACTC 59.842 45.833 0.00 0.00 0.00 3.36
342 346 4.457834 AGTTCTTCGGACTCGATTCATT 57.542 40.909 5.06 0.00 45.51 2.57
344 348 5.583495 AGTTCTTCGGACTCGATTCATTAG 58.417 41.667 5.06 0.00 45.51 1.73
347 351 3.079960 TCGGACTCGATTCATTAGTGC 57.920 47.619 5.06 0.00 40.88 4.40
350 354 3.616821 CGGACTCGATTCATTAGTGCAAA 59.383 43.478 5.06 0.00 39.00 3.68
352 356 4.391830 GGACTCGATTCATTAGTGCAAACA 59.608 41.667 5.06 0.00 32.44 2.83
367 371 0.682852 AAACATCTCCAACGGACGGA 59.317 50.000 0.00 0.00 0.00 4.69
370 374 0.458543 CATCTCCAACGGACGGACAG 60.459 60.000 0.00 0.00 0.00 3.51
379 383 1.070786 GGACGGACAGCCAGTTTGA 59.929 57.895 0.00 0.00 0.00 2.69
404 408 1.819903 GGTAGATAGCCGTCTCATCCC 59.180 57.143 0.00 0.00 0.00 3.85
405 409 1.469308 GTAGATAGCCGTCTCATCCCG 59.531 57.143 0.00 0.00 0.00 5.14
409 413 4.570663 GCCGTCTCATCCCGTCCG 62.571 72.222 0.00 0.00 0.00 4.79
414 418 1.076265 TCTCATCCCGTCCGGTCAT 60.076 57.895 0.00 0.00 0.00 3.06
417 421 1.227263 CATCCCGTCCGGTCATGTC 60.227 63.158 0.00 0.00 0.00 3.06
437 441 5.845985 GTCTCTTCGACATTGAACATTCA 57.154 39.130 0.00 0.00 42.37 2.57
438 442 6.414408 GTCTCTTCGACATTGAACATTCAT 57.586 37.500 0.00 0.00 42.37 2.57
445 449 5.017612 CGACATTGAACATTCATGAAGACG 58.982 41.667 14.54 7.45 37.00 4.18
473 477 2.758327 ACGGGCGGTGCTATCAGA 60.758 61.111 0.00 0.00 0.00 3.27
474 478 2.028190 CGGGCGGTGCTATCAGAG 59.972 66.667 0.00 0.00 0.00 3.35
483 487 1.066303 GTGCTATCAGAGGACACTCCG 59.934 57.143 0.00 0.00 45.51 4.63
529 533 0.676466 CTGTGTTTGCTATGGGCCGA 60.676 55.000 0.00 0.00 40.92 5.54
540 544 2.513666 GGGCCGACATGAATGCGA 60.514 61.111 0.00 0.00 32.02 5.10
542 546 2.106074 GGCCGACATGAATGCGACA 61.106 57.895 0.00 0.00 32.02 4.35
547 551 0.729116 GACATGAATGCGACACAGGG 59.271 55.000 0.00 0.00 0.00 4.45
572 576 4.838486 GTGCGGTCGCGAGAGAGG 62.838 72.222 10.24 0.00 45.51 3.69
641 663 0.817013 TGCCCGCAAATCAGAAATCC 59.183 50.000 0.00 0.00 0.00 3.01
660 682 1.760613 CCCCTCCTGATTTGCGTACTA 59.239 52.381 0.00 0.00 0.00 1.82
685 707 7.447374 TTCACGGAATTTGAGACAAATGTAT 57.553 32.000 9.88 0.00 0.00 2.29
690 712 5.127682 GGAATTTGAGACAAATGTATGGGCT 59.872 40.000 9.88 0.00 0.00 5.19
699 721 2.276732 ATGTATGGGCTTTGATCCGG 57.723 50.000 0.00 0.00 0.00 5.14
705 743 3.374042 TGGGCTTTGATCCGGATTTTA 57.626 42.857 20.22 5.62 0.00 1.52
712 750 4.950434 TTGATCCGGATTTTAAACGTCC 57.050 40.909 20.22 1.68 0.00 4.79
756 3111 1.130561 GCAAATCTACCTCAACGGCAC 59.869 52.381 0.00 0.00 35.61 5.01
793 3958 0.667993 CATTACGGGCCATTTCGCAT 59.332 50.000 4.39 0.00 0.00 4.73
946 4111 3.341629 CCACCTCCATGCCCCACT 61.342 66.667 0.00 0.00 0.00 4.00
1589 4758 3.849951 CGGACCCGACCCCATCAG 61.850 72.222 1.54 0.00 42.83 2.90
1867 5036 6.507023 AGAAGTTAGATTGTTTTGTGCCAAG 58.493 36.000 0.00 0.00 0.00 3.61
2002 5222 5.538118 TGAATTGTACGAGGCAATATCGAT 58.462 37.500 2.16 2.16 42.76 3.59
2021 5241 2.945447 TGTTTTCAGCCAGCATATGC 57.055 45.000 20.36 20.36 42.49 3.14
2043 5263 7.404671 TGCCTCCCACTTATTTTTCTAATTC 57.595 36.000 0.00 0.00 0.00 2.17
2047 5267 7.122650 CCTCCCACTTATTTTTCTAATTCTGCA 59.877 37.037 0.00 0.00 0.00 4.41
2191 5411 8.472007 AGAAAACTAGGTATGTAGGATCAGAG 57.528 38.462 0.00 0.00 0.00 3.35
2203 5423 2.169352 AGGATCAGAGTTCCGTGGAATG 59.831 50.000 4.36 0.00 38.36 2.67
2220 5440 7.128331 CGTGGAATGATAAAAGTCACATGATC 58.872 38.462 0.00 0.00 0.00 2.92
2221 5441 7.201635 CGTGGAATGATAAAAGTCACATGATCA 60.202 37.037 0.00 0.00 0.00 2.92
2222 5442 7.912250 GTGGAATGATAAAAGTCACATGATCAC 59.088 37.037 0.00 0.00 0.00 3.06
2223 5443 7.611079 TGGAATGATAAAAGTCACATGATCACA 59.389 33.333 0.00 0.00 0.00 3.58
2224 5444 7.912250 GGAATGATAAAAGTCACATGATCACAC 59.088 37.037 0.00 0.00 0.00 3.82
2225 5445 7.926674 ATGATAAAAGTCACATGATCACACA 57.073 32.000 0.00 0.00 0.00 3.72
2226 5446 7.132694 TGATAAAAGTCACATGATCACACAC 57.867 36.000 0.00 0.00 0.00 3.82
2227 5447 6.709846 TGATAAAAGTCACATGATCACACACA 59.290 34.615 0.00 0.00 0.00 3.72
2228 5448 7.391275 TGATAAAAGTCACATGATCACACACAT 59.609 33.333 0.00 0.00 0.00 3.21
2229 5449 6.395426 AAAAGTCACATGATCACACACATT 57.605 33.333 0.00 0.00 0.00 2.71
2230 5450 5.366829 AAGTCACATGATCACACACATTG 57.633 39.130 0.00 0.00 0.00 2.82
2231 5451 4.392047 AGTCACATGATCACACACATTGT 58.608 39.130 0.00 0.00 39.97 2.71
2232 5452 4.453478 AGTCACATGATCACACACATTGTC 59.547 41.667 0.00 0.00 35.67 3.18
2233 5453 4.453478 GTCACATGATCACACACATTGTCT 59.547 41.667 0.00 0.00 35.67 3.41
2234 5454 5.049198 GTCACATGATCACACACATTGTCTT 60.049 40.000 0.00 0.00 35.67 3.01
2235 5455 5.532032 TCACATGATCACACACATTGTCTTT 59.468 36.000 0.00 0.00 35.67 2.52
2236 5456 6.039605 TCACATGATCACACACATTGTCTTTT 59.960 34.615 0.00 0.00 35.67 2.27
2237 5457 6.698329 CACATGATCACACACATTGTCTTTTT 59.302 34.615 0.00 0.00 35.67 1.94
2384 5605 5.748630 GGAAACAACTCTTACAAAAGGCAAG 59.251 40.000 0.00 0.00 33.22 4.01
2385 5606 5.914898 AACAACTCTTACAAAAGGCAAGT 57.085 34.783 0.00 0.00 33.22 3.16
2386 5607 7.399245 AAACAACTCTTACAAAAGGCAAGTA 57.601 32.000 0.00 0.00 33.22 2.24
2387 5608 7.582667 AACAACTCTTACAAAAGGCAAGTAT 57.417 32.000 0.00 0.00 33.22 2.12
2388 5609 7.203255 ACAACTCTTACAAAAGGCAAGTATC 57.797 36.000 0.00 0.00 33.22 2.24
2389 5610 6.770785 ACAACTCTTACAAAAGGCAAGTATCA 59.229 34.615 0.00 0.00 33.22 2.15
2390 5611 6.803154 ACTCTTACAAAAGGCAAGTATCAC 57.197 37.500 0.00 0.00 33.22 3.06
2391 5612 6.534634 ACTCTTACAAAAGGCAAGTATCACT 58.465 36.000 0.00 0.00 33.22 3.41
2517 5741 9.736023 CTGCTTCAATCTGTTTTTACTTACTTT 57.264 29.630 0.00 0.00 0.00 2.66
2571 5795 0.964358 GCTGCAATGTCTTCTGCCCT 60.964 55.000 0.00 0.00 37.79 5.19
2616 5840 6.325919 TCAAAATACTTTGCCAGGTACTTG 57.674 37.500 0.00 0.00 41.53 3.16
2726 5950 7.290014 TGTGCCCTCATATAGTTGATCTTTCTA 59.710 37.037 0.00 0.00 0.00 2.10
2728 5952 8.884323 TGCCCTCATATAGTTGATCTTTCTATT 58.116 33.333 0.00 0.00 0.00 1.73
2729 5953 9.732130 GCCCTCATATAGTTGATCTTTCTATTT 57.268 33.333 0.00 0.00 0.00 1.40
2910 6143 6.938507 ACCCAAGTATTCTATGACGTACAAA 58.061 36.000 0.00 0.00 0.00 2.83
2917 6150 8.144478 AGTATTCTATGACGTACAAATGCAGAT 58.856 33.333 0.00 0.00 0.00 2.90
3090 6323 1.097547 CCAAACCAGCCTATGCCTCG 61.098 60.000 0.00 0.00 38.69 4.63
3187 6420 1.260544 AGCAATCAAGAAAGGGTGGC 58.739 50.000 0.00 0.00 0.00 5.01
3387 6620 7.866393 AGAATACTATTGGTAATGTAGTGACGC 59.134 37.037 0.00 0.00 33.74 5.19
3424 6657 3.322541 TGATGGAGTCGTGTTAACCTGAA 59.677 43.478 2.48 0.00 0.00 3.02
3425 6658 3.823281 TGGAGTCGTGTTAACCTGAAA 57.177 42.857 2.48 0.00 0.00 2.69
3445 6678 7.605691 CCTGAAAGACTTCATAGAACATCTGTT 59.394 37.037 0.00 0.00 40.78 3.16
3451 6684 7.009179 ACTTCATAGAACATCTGTTTCAGGA 57.991 36.000 0.00 0.00 38.56 3.86
3456 6689 8.950210 TCATAGAACATCTGTTTCAGGATTTTC 58.050 33.333 0.00 0.00 38.56 2.29
3470 6703 7.885009 TCAGGATTTTCATTTGCATCATCTA 57.115 32.000 0.00 0.00 0.00 1.98
3471 6704 8.296211 TCAGGATTTTCATTTGCATCATCTAA 57.704 30.769 0.00 0.00 0.00 2.10
3542 6775 1.394917 GTCACGCATGGCTTCAAGTAG 59.605 52.381 0.00 0.00 0.00 2.57
3558 6791 7.362056 GCTTCAAGTAGCCAAATACAAATGAGA 60.362 37.037 0.00 0.00 35.06 3.27
3560 6793 7.816640 TCAAGTAGCCAAATACAAATGAGAAC 58.183 34.615 0.00 0.00 0.00 3.01
3591 6824 6.295916 CCCAAGTACTCTGTCCAAATAAGACT 60.296 42.308 0.00 0.00 35.21 3.24
3712 6946 1.734163 ATTTCCGTTTGCTCCTACCG 58.266 50.000 0.00 0.00 0.00 4.02
3714 6948 0.320073 TTCCGTTTGCTCCTACCGTG 60.320 55.000 0.00 0.00 0.00 4.94
3734 6969 5.175856 CCGTGCATAAGCTATTCTGACTTAC 59.824 44.000 0.00 0.00 42.74 2.34
4089 7324 8.432013 TCATGCTAGTCTGGTATGTCATTTTAT 58.568 33.333 12.78 0.00 0.00 1.40
4230 7465 3.244422 ACGAGCTGTTCCTGGTTTATGAA 60.244 43.478 0.00 0.00 0.00 2.57
4293 7528 5.705441 TCCTCAAAGCAAAGGTATACTGTTG 59.295 40.000 2.25 8.47 34.12 3.33
4304 7539 6.930068 AGGTATACTGTTGTCTGGTACTTT 57.070 37.500 2.25 0.00 0.00 2.66
4406 7641 2.196295 TTGGCGTTTAACTGTGCAAC 57.804 45.000 0.00 0.00 37.35 4.17
4443 7678 0.961019 TCCAGCACCTTTGACATTGC 59.039 50.000 0.00 0.00 35.08 3.56
4679 7920 4.444022 GGACTGGAGTACATTCATGAGCAT 60.444 45.833 0.00 0.00 30.86 3.79
4730 7971 7.889469 ACATCAAATCAAGTAACATCTTGCTT 58.111 30.769 0.00 0.00 42.90 3.91
4802 8075 9.877178 CTTTCATCAGTTCTACCAGTTTATAGT 57.123 33.333 0.00 0.00 0.00 2.12
4809 8082 8.304596 CAGTTCTACCAGTTTATAGTCTGACAA 58.695 37.037 10.88 0.00 34.02 3.18
4814 8087 7.964604 ACCAGTTTATAGTCTGACAAAGAAC 57.035 36.000 10.88 9.25 36.40 3.01
4828 8101 7.012327 TCTGACAAAGAACTACATTTTCTGTGG 59.988 37.037 7.10 0.00 41.10 4.17
4846 8119 5.877012 TCTGTGGCTGTAGATTTCAGATTTC 59.123 40.000 0.00 0.00 35.20 2.17
5094 8369 2.222445 CGGGGTCGTACTTTTTGAGTTG 59.778 50.000 0.00 0.00 39.86 3.16
5126 8401 3.107447 GGCGATTACAAAGGCCGG 58.893 61.111 0.00 0.00 35.59 6.13
5128 8403 2.707039 CGATTACAAAGGCCGGCG 59.293 61.111 22.54 9.21 0.00 6.46
5224 8499 5.463392 GCATTCATCGAATCTACAGCTTGTA 59.537 40.000 0.00 0.00 28.87 2.41
5258 8549 5.005107 GGTTTACATGGTATTTCGTCGACTC 59.995 44.000 14.70 0.00 0.00 3.36
5342 8639 0.098728 GGAATTGCCACGATCCAACG 59.901 55.000 0.00 0.00 36.34 4.10
5366 8663 0.250901 TGGGGAGCTTGAAAGACTGC 60.251 55.000 0.00 0.00 0.00 4.40
5506 8803 5.037385 TCAAAGATAAATCTGTCGCTCTCG 58.963 41.667 0.00 0.00 37.19 4.04
5688 8985 2.643551 CAGGTGTTCAGTGGTCTTGTT 58.356 47.619 0.00 0.00 0.00 2.83
5713 9010 0.179034 GAGGTGATGACCCATCCTGC 60.179 60.000 0.00 0.00 44.40 4.85
5741 9038 0.666577 CTTTGCTTGCTTGCTGCTCC 60.667 55.000 0.00 0.00 43.37 4.70
5767 9064 3.493334 TCTTCGTGTGTTCTCCTTCCTA 58.507 45.455 0.00 0.00 0.00 2.94
5776 9073 4.100808 GTGTTCTCCTTCCTATGATCTGCT 59.899 45.833 0.00 0.00 0.00 4.24
5777 9074 5.303078 GTGTTCTCCTTCCTATGATCTGCTA 59.697 44.000 0.00 0.00 0.00 3.49
5781 9078 4.671831 TCCTTCCTATGATCTGCTAGAGG 58.328 47.826 0.00 0.00 0.00 3.69
5825 9122 1.006639 TCCTAAATTTCACTGGCCCCC 59.993 52.381 0.00 0.00 0.00 5.40
5842 9139 1.739562 CCTGTCCAGTCGAGCAAGC 60.740 63.158 0.00 0.00 0.00 4.01
5868 9165 4.754618 AGAGTATCGAGCACAGTGAGATAG 59.245 45.833 4.15 0.00 42.67 2.08
5928 9225 0.103208 ATACCTGAGCGCTTCTTCCG 59.897 55.000 13.26 0.00 0.00 4.30
5985 9284 5.243954 TGCTTACTGCTTGTCTTCTCTCTTA 59.756 40.000 0.00 0.00 43.37 2.10
5989 9288 4.774726 ACTGCTTGTCTTCTCTCTTATGGA 59.225 41.667 0.00 0.00 0.00 3.41
6000 9299 6.992063 TCTCTCTTATGGAAAAATGTCTGC 57.008 37.500 0.00 0.00 0.00 4.26
6024 9323 8.623903 TGCCTATTGATTCAAATAGAATGTGAC 58.376 33.333 2.68 0.00 46.76 3.67
6182 9481 2.203195 TCACTGCCACTGGTGCAC 60.203 61.111 8.80 8.80 34.46 4.57
6286 9585 7.801315 TGCGCTAGTTGTTTCTTTTGTTTATAG 59.199 33.333 9.73 0.00 0.00 1.31
6314 9613 1.644786 GCCGATCACCTTCCGGTTTG 61.645 60.000 0.00 0.00 42.13 2.93
6354 9654 7.707104 TCAGTGATGTGTAGTATCTATGTGTG 58.293 38.462 0.00 0.00 0.00 3.82
6412 9712 1.009829 GCTGAGAGCGGTTGTAATGG 58.990 55.000 0.00 0.00 0.00 3.16
6547 9847 0.328258 GCTAAGACTGCCTTTGGGGA 59.672 55.000 0.00 0.00 36.34 4.81
6609 9909 1.424493 CTGGAAGATCGAAGTGGCGC 61.424 60.000 0.00 0.00 34.07 6.53
6610 9910 2.517450 GGAAGATCGAAGTGGCGCG 61.517 63.158 0.00 0.00 0.00 6.86
6615 9915 2.309764 GATCGAAGTGGCGCGCAATT 62.310 55.000 34.42 23.06 0.00 2.32
6683 9983 0.987294 ATAGATCGGGGCCTTCATGG 59.013 55.000 0.84 0.00 39.35 3.66
6684 9984 0.399949 TAGATCGGGGCCTTCATGGT 60.400 55.000 0.84 0.00 38.35 3.55
6685 9985 1.227383 GATCGGGGCCTTCATGGTT 59.773 57.895 0.84 0.00 38.35 3.67
6686 9986 0.819666 GATCGGGGCCTTCATGGTTC 60.820 60.000 0.84 0.00 38.35 3.62
6687 9987 1.570857 ATCGGGGCCTTCATGGTTCA 61.571 55.000 0.84 0.00 38.35 3.18
6688 9988 1.076777 CGGGGCCTTCATGGTTCAT 60.077 57.895 0.84 0.00 38.35 2.57
6689 9989 1.386525 CGGGGCCTTCATGGTTCATG 61.387 60.000 0.84 1.76 42.60 3.07
6690 9990 1.679559 GGGGCCTTCATGGTTCATGC 61.680 60.000 0.84 0.00 41.18 4.06
6691 9991 0.971959 GGGCCTTCATGGTTCATGCA 60.972 55.000 0.84 0.00 41.18 3.96
6692 9992 0.174162 GGCCTTCATGGTTCATGCAC 59.826 55.000 0.00 0.00 41.18 4.57
6693 9993 0.889994 GCCTTCATGGTTCATGCACA 59.110 50.000 0.00 0.00 41.18 4.57
6694 9994 1.135199 GCCTTCATGGTTCATGCACAG 60.135 52.381 0.00 0.00 41.18 3.66
6695 9995 1.135199 CCTTCATGGTTCATGCACAGC 60.135 52.381 0.00 0.00 41.18 4.40
6696 9996 1.816835 CTTCATGGTTCATGCACAGCT 59.183 47.619 0.00 0.00 41.18 4.24
6697 9997 1.456296 TCATGGTTCATGCACAGCTC 58.544 50.000 0.00 0.00 41.18 4.09
6698 9998 0.454600 CATGGTTCATGCACAGCTCC 59.545 55.000 0.00 0.00 35.02 4.70
6699 9999 0.038599 ATGGTTCATGCACAGCTCCA 59.961 50.000 0.00 0.00 0.00 3.86
6700 10000 0.038599 TGGTTCATGCACAGCTCCAT 59.961 50.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 6.968904 CGAATTATCAAGGACAATGACAAAGG 59.031 38.462 0.00 0.00 0.00 3.11
11 12 7.331026 ACTCTTCGAATTATCAAGGACAATGA 58.669 34.615 0.00 0.00 0.00 2.57
19 20 6.993175 TGCGATACTCTTCGAATTATCAAG 57.007 37.500 16.05 6.99 41.62 3.02
42 43 4.322801 CGAAGTCTTACATCCCTCCTGTTT 60.323 45.833 0.00 0.00 0.00 2.83
76 77 2.084546 ACTGGGAAGCGATACTTTTGC 58.915 47.619 0.00 0.00 39.29 3.68
86 87 1.134699 TGAGCAGATTACTGGGAAGCG 60.135 52.381 0.00 0.00 43.62 4.68
108 109 1.881973 CTCCATGGGTTCAGTGTGTTG 59.118 52.381 13.02 0.00 0.00 3.33
110 111 0.250901 GCTCCATGGGTTCAGTGTGT 60.251 55.000 13.02 0.00 0.00 3.72
113 114 2.715749 TATGCTCCATGGGTTCAGTG 57.284 50.000 13.02 0.00 0.00 3.66
127 128 2.041620 TCAAGCCCTGAAACCTTATGCT 59.958 45.455 0.00 0.00 0.00 3.79
131 132 1.354368 CCCTCAAGCCCTGAAACCTTA 59.646 52.381 0.00 0.00 32.17 2.69
140 141 2.002625 CTAAAGCCCCTCAAGCCCT 58.997 57.895 0.00 0.00 0.00 5.19
161 162 1.267806 CATTCGGAACTGGGCATATGC 59.732 52.381 19.79 19.79 41.14 3.14
170 171 4.267928 GTCGGACTTATTCATTCGGAACTG 59.732 45.833 0.00 0.00 38.60 3.16
177 178 4.755411 TGACCTGTCGGACTTATTCATTC 58.245 43.478 9.88 0.00 0.00 2.67
190 191 4.568152 AGGAATTTGTTTTGACCTGTCG 57.432 40.909 0.00 0.00 0.00 4.35
204 205 2.040178 AGGCCGTCTCGATAGGAATTT 58.960 47.619 0.00 0.00 0.00 1.82
223 224 3.837213 ATTGTCCGAAATGCACTTCAG 57.163 42.857 8.81 0.00 0.00 3.02
250 251 2.558359 CCCAACCAACAAGGACAAGATC 59.442 50.000 0.00 0.00 41.22 2.75
259 260 2.825532 CTCCATTACCCCAACCAACAAG 59.174 50.000 0.00 0.00 0.00 3.16
260 261 2.178106 ACTCCATTACCCCAACCAACAA 59.822 45.455 0.00 0.00 0.00 2.83
286 290 8.314143 ACAATTTGCTCCTATTTCACATTTTG 57.686 30.769 0.00 0.00 0.00 2.44
288 292 7.669427 TGACAATTTGCTCCTATTTCACATTT 58.331 30.769 0.00 0.00 0.00 2.32
292 296 7.067494 ACCTATGACAATTTGCTCCTATTTCAC 59.933 37.037 0.00 0.00 0.00 3.18
294 298 7.283127 TGACCTATGACAATTTGCTCCTATTTC 59.717 37.037 0.00 0.00 0.00 2.17
295 299 7.118723 TGACCTATGACAATTTGCTCCTATTT 58.881 34.615 0.00 0.00 0.00 1.40
300 304 4.702131 ACTTGACCTATGACAATTTGCTCC 59.298 41.667 0.00 0.00 0.00 4.70
303 307 6.259550 AGAACTTGACCTATGACAATTTGC 57.740 37.500 0.00 0.00 0.00 3.68
310 314 4.082136 AGTCCGAAGAACTTGACCTATGAC 60.082 45.833 0.00 0.00 0.00 3.06
317 321 2.701073 TCGAGTCCGAAGAACTTGAC 57.299 50.000 0.00 0.00 42.51 3.18
334 338 5.065090 TGGAGATGTTTGCACTAATGAATCG 59.935 40.000 0.00 0.00 0.00 3.34
342 346 2.037902 TCCGTTGGAGATGTTTGCACTA 59.962 45.455 0.00 0.00 0.00 2.74
344 348 1.069227 GTCCGTTGGAGATGTTTGCAC 60.069 52.381 0.00 0.00 29.39 4.57
347 351 0.796312 CCGTCCGTTGGAGATGTTTG 59.204 55.000 0.00 0.00 29.39 2.93
350 354 1.183030 TGTCCGTCCGTTGGAGATGT 61.183 55.000 0.00 0.00 35.82 3.06
352 356 1.890894 CTGTCCGTCCGTTGGAGAT 59.109 57.895 0.00 0.00 35.82 2.75
367 371 0.823356 ACCGCATTCAAACTGGCTGT 60.823 50.000 0.00 0.00 0.00 4.40
370 374 1.448985 TCTACCGCATTCAAACTGGC 58.551 50.000 0.00 0.00 0.00 4.85
397 401 1.068083 CATGACCGGACGGGATGAG 59.932 63.158 9.46 0.00 39.97 2.90
398 402 1.672854 GACATGACCGGACGGGATGA 61.673 60.000 23.43 4.44 39.97 2.92
400 404 1.381327 AGACATGACCGGACGGGAT 60.381 57.895 9.46 3.78 39.97 3.85
404 408 0.523546 CGAAGAGACATGACCGGACG 60.524 60.000 9.46 0.00 0.00 4.79
405 409 0.809385 TCGAAGAGACATGACCGGAC 59.191 55.000 9.46 1.07 0.00 4.79
414 418 5.296748 TGAATGTTCAATGTCGAAGAGACA 58.703 37.500 3.33 3.33 46.98 3.41
417 421 6.413018 TCATGAATGTTCAATGTCGAAGAG 57.587 37.500 0.00 0.00 41.13 2.85
437 441 2.722201 GCCTCGTCCCCGTCTTCAT 61.722 63.158 0.00 0.00 35.01 2.57
438 442 3.379445 GCCTCGTCCCCGTCTTCA 61.379 66.667 0.00 0.00 35.01 3.02
463 467 1.066303 CGGAGTGTCCTCTGATAGCAC 59.934 57.143 0.00 0.00 45.48 4.40
468 472 2.248248 TGAAACGGAGTGTCCTCTGAT 58.752 47.619 5.59 0.00 46.05 2.90
473 477 1.523758 GCATTGAAACGGAGTGTCCT 58.476 50.000 0.00 0.00 46.05 3.85
474 478 0.521735 GGCATTGAAACGGAGTGTCC 59.478 55.000 0.00 0.00 46.05 4.02
483 487 4.390297 GTCACTAGAGACTGGCATTGAAAC 59.610 45.833 12.51 0.00 35.65 2.78
529 533 0.324614 TCCCTGTGTCGCATTCATGT 59.675 50.000 0.00 0.00 0.00 3.21
540 544 2.743718 CACCTTCGCTCCCTGTGT 59.256 61.111 0.00 0.00 0.00 3.72
542 546 4.379243 CGCACCTTCGCTCCCTGT 62.379 66.667 0.00 0.00 0.00 4.00
622 644 0.817013 GGATTTCTGATTTGCGGGCA 59.183 50.000 0.00 0.00 0.00 5.36
631 653 4.801164 CAAATCAGGAGGGGATTTCTGAT 58.199 43.478 0.00 0.00 45.53 2.90
632 654 3.625716 GCAAATCAGGAGGGGATTTCTGA 60.626 47.826 0.00 0.00 41.66 3.27
633 655 2.692041 GCAAATCAGGAGGGGATTTCTG 59.308 50.000 0.00 0.00 41.66 3.02
634 656 2.684927 CGCAAATCAGGAGGGGATTTCT 60.685 50.000 0.00 0.00 41.66 2.52
635 657 1.678101 CGCAAATCAGGAGGGGATTTC 59.322 52.381 0.00 0.00 41.66 2.17
641 663 3.753294 ATAGTACGCAAATCAGGAGGG 57.247 47.619 0.00 0.00 0.00 4.30
660 682 6.331369 ACATTTGTCTCAAATTCCGTGAAT 57.669 33.333 5.17 0.00 33.25 2.57
685 707 2.230130 AAAATCCGGATCAAAGCCCA 57.770 45.000 19.43 0.00 0.00 5.36
690 712 5.299582 GGACGTTTAAAATCCGGATCAAA 57.700 39.130 19.43 15.04 0.00 2.69
756 3111 1.298014 GCCCCCACTTCACTCTCTG 59.702 63.158 0.00 0.00 0.00 3.35
793 3958 3.602483 GGCGGGTAGATCACTGTTTTTA 58.398 45.455 0.00 0.00 0.00 1.52
946 4111 1.685765 CGAGATGGAGGTGGTGGGA 60.686 63.158 0.00 0.00 0.00 4.37
956 4121 2.044352 TCGAGGTGGCGAGATGGA 60.044 61.111 0.00 0.00 35.01 3.41
975 4140 2.359011 GTTGGCTAGGGTTGGGGG 59.641 66.667 0.00 0.00 0.00 5.40
1431 4600 2.267006 CCGCAGATCAGGTGCAGT 59.733 61.111 6.28 0.00 41.26 4.40
1434 4603 3.200593 CAGCCGCAGATCAGGTGC 61.201 66.667 0.00 0.00 37.58 5.01
1575 4744 3.717294 GTGCTGATGGGGTCGGGT 61.717 66.667 0.00 0.00 33.56 5.28
1589 4758 0.108472 GTAGTACACCTTCCCCGTGC 60.108 60.000 0.00 0.00 34.45 5.34
1671 4840 9.003658 CAGAAGTTGAAGGAACTGTAAATATGT 57.996 33.333 0.00 0.00 44.68 2.29
1689 4858 0.508641 CGACAAGCCGACAGAAGTTG 59.491 55.000 0.00 0.00 0.00 3.16
1912 5083 2.932614 CTGTTCTATTTGACCTCGCCAG 59.067 50.000 0.00 0.00 0.00 4.85
1914 5085 1.666189 GCTGTTCTATTTGACCTCGCC 59.334 52.381 0.00 0.00 0.00 5.54
2002 5222 1.477700 GGCATATGCTGGCTGAAAACA 59.522 47.619 26.12 0.00 46.59 2.83
2021 5241 7.122650 TGCAGAATTAGAAAAATAAGTGGGAGG 59.877 37.037 0.00 0.00 0.00 4.30
2113 5333 9.911788 AGAAAGTTGATGATACCAAATATGACT 57.088 29.630 0.00 0.00 0.00 3.41
2186 5406 5.414789 TTTATCATTCCACGGAACTCTGA 57.585 39.130 0.00 1.92 36.91 3.27
2188 5408 5.805728 ACTTTTATCATTCCACGGAACTCT 58.194 37.500 0.00 0.00 36.91 3.24
2191 5411 5.180492 TGTGACTTTTATCATTCCACGGAAC 59.820 40.000 0.00 0.00 36.91 3.62
2203 5423 7.132694 TGTGTGTGATCATGTGACTTTTATC 57.867 36.000 0.00 0.00 0.00 1.75
2237 5457 2.163010 TGTTTGTGTTACCCGCGAAAAA 59.837 40.909 8.23 0.00 0.00 1.94
2238 5458 1.741706 TGTTTGTGTTACCCGCGAAAA 59.258 42.857 8.23 0.00 0.00 2.29
2239 5459 1.376543 TGTTTGTGTTACCCGCGAAA 58.623 45.000 8.23 0.00 0.00 3.46
2240 5460 1.595466 ATGTTTGTGTTACCCGCGAA 58.405 45.000 8.23 0.00 0.00 4.70
2241 5461 1.264557 CAATGTTTGTGTTACCCGCGA 59.735 47.619 8.23 0.00 0.00 5.87
2242 5462 1.002251 ACAATGTTTGTGTTACCCGCG 60.002 47.619 0.00 0.00 43.48 6.46
2243 5463 2.292292 AGACAATGTTTGTGTTACCCGC 59.708 45.455 0.00 0.00 45.52 6.13
2244 5464 4.274950 AGAAGACAATGTTTGTGTTACCCG 59.725 41.667 3.14 0.00 45.74 5.28
2245 5465 5.767816 AGAAGACAATGTTTGTGTTACCC 57.232 39.130 3.14 0.00 45.74 3.69
2246 5466 7.254227 TGTAGAAGACAATGTTTGTGTTACC 57.746 36.000 3.14 0.00 45.74 2.85
2250 5470 7.391554 AGCATATGTAGAAGACAATGTTTGTGT 59.608 33.333 4.29 0.00 45.52 3.72
2351 5572 5.941058 TGTAAGAGTTGTTTCCACTGAACAA 59.059 36.000 0.00 0.00 42.78 2.83
2370 5591 6.560253 ACAGTGATACTTGCCTTTTGTAAG 57.440 37.500 0.00 0.00 41.90 2.34
2514 5738 8.213518 AGGAACTGCATGTTATATACACAAAG 57.786 34.615 0.00 4.40 36.99 2.77
2592 5816 6.547880 TCAAGTACCTGGCAAAGTATTTTGAA 59.452 34.615 14.30 1.39 45.21 2.69
2889 6122 7.905126 TGCATTTGTACGTCATAGAATACTTG 58.095 34.615 0.00 0.00 0.00 3.16
2910 6143 9.771534 CTGAATGATGATCTGATATATCTGCAT 57.228 33.333 13.79 11.83 0.00 3.96
3187 6420 4.637534 GGAACATTGATATGATGATCCCCG 59.362 45.833 11.22 0.00 39.33 5.73
3353 6586 8.204836 ACATTACCAATAGTATTCTGTCACTCC 58.795 37.037 0.00 0.00 0.00 3.85
3387 6620 2.009774 CCATCAGGGACTTAAGTTGCG 58.990 52.381 10.02 0.00 40.01 4.85
3424 6657 7.605691 CCTGAAACAGATGTTCTATGAAGTCTT 59.394 37.037 0.00 0.00 37.25 3.01
3425 6658 7.038729 TCCTGAAACAGATGTTCTATGAAGTCT 60.039 37.037 0.00 0.00 37.25 3.24
3445 6678 7.177832 AGATGATGCAAATGAAAATCCTGAA 57.822 32.000 0.00 0.00 0.00 3.02
3451 6684 8.195436 CAGGTCTTAGATGATGCAAATGAAAAT 58.805 33.333 0.00 0.00 0.00 1.82
3456 6689 5.008415 GGACAGGTCTTAGATGATGCAAATG 59.992 44.000 0.00 0.00 0.00 2.32
3542 6775 5.163513 CACAGGTTCTCATTTGTATTTGGC 58.836 41.667 0.00 0.00 0.00 4.52
3558 6791 1.072331 CAGAGTACTTGGGCACAGGTT 59.928 52.381 9.79 0.00 38.04 3.50
3560 6793 0.687354 ACAGAGTACTTGGGCACAGG 59.313 55.000 0.00 0.00 0.00 4.00
3668 6901 9.841295 ATAAAAGTAATCTAAATTAGCCCGTGA 57.159 29.630 0.00 0.00 0.00 4.35
3699 6933 2.018542 TATGCACGGTAGGAGCAAAC 57.981 50.000 0.00 0.00 42.15 2.93
3712 6946 5.977725 TCGTAAGTCAGAATAGCTTATGCAC 59.022 40.000 0.00 0.00 39.49 4.57
3714 6948 6.210078 ACTCGTAAGTCAGAATAGCTTATGC 58.790 40.000 0.00 0.00 33.87 3.14
4089 7324 9.671279 TCTAGATTGAGCATTTTGTGAGAATTA 57.329 29.630 0.00 0.00 0.00 1.40
4091 7326 8.749026 ATCTAGATTGAGCATTTTGTGAGAAT 57.251 30.769 0.00 0.00 0.00 2.40
4145 7380 4.853924 ACATGGGTCACAAATGAAAGTC 57.146 40.909 0.00 0.00 36.31 3.01
4151 7386 4.691175 TGACAAAACATGGGTCACAAATG 58.309 39.130 0.00 0.00 36.69 2.32
4230 7465 8.519799 TTTTGAGTGAACCTTTTTGAGAGTAT 57.480 30.769 0.00 0.00 0.00 2.12
4406 7641 3.750371 TGGAACCAGTACATGTGAAAGG 58.250 45.455 9.11 7.70 0.00 3.11
4443 7678 9.474920 TTGCAGAAGTTATTTGAAGGTAAAATG 57.525 29.630 0.00 0.00 0.00 2.32
4532 7773 9.403583 TGGGAAAAAGTATAAATAAGGCTACAG 57.596 33.333 0.00 0.00 0.00 2.74
4703 7944 6.749118 GCAAGATGTTACTTGATTTGATGTCC 59.251 38.462 11.75 0.00 46.85 4.02
4730 7971 3.329386 CTTCGCTCTGAAAGAACCATCA 58.671 45.455 0.00 0.00 46.34 3.07
4779 8020 8.687242 CAGACTATAAACTGGTAGAACTGATGA 58.313 37.037 0.00 0.00 33.05 2.92
4788 8061 9.141400 GTTCTTTGTCAGACTATAAACTGGTAG 57.859 37.037 1.31 0.00 35.20 3.18
4802 8075 7.012327 CCACAGAAAATGTAGTTCTTTGTCAGA 59.988 37.037 0.00 0.00 41.41 3.27
4809 8082 5.133221 ACAGCCACAGAAAATGTAGTTCTT 58.867 37.500 0.00 0.00 41.41 2.52
4814 8087 6.992063 AATCTACAGCCACAGAAAATGTAG 57.008 37.500 4.65 4.65 41.41 2.74
4821 8094 4.890158 TCTGAAATCTACAGCCACAGAA 57.110 40.909 0.00 0.00 35.61 3.02
4828 8101 5.112686 AGACCGAAATCTGAAATCTACAGC 58.887 41.667 0.00 0.00 35.61 4.40
4846 8119 0.593128 CTCCCAGTTTTGCAAGACCG 59.407 55.000 15.93 6.43 0.00 4.79
4980 8254 6.058183 GGCCAGATATCAAAACTACAGTCAT 58.942 40.000 5.32 0.00 0.00 3.06
5094 8369 3.971245 ATCGCCTCCTTTCCAGATATC 57.029 47.619 0.00 0.00 0.00 1.63
5128 8403 4.279206 GAGTTTGAACTTGCACCAACTGC 61.279 47.826 0.00 0.00 42.30 4.40
5224 8499 4.193240 ACCATGTAAACCTTCCAAACCT 57.807 40.909 0.00 0.00 0.00 3.50
5342 8639 0.954452 CTTTCAAGCTCCCCACACAC 59.046 55.000 0.00 0.00 0.00 3.82
5366 8663 5.938710 CAGATCCATCAGATTAGGGTCAATG 59.061 44.000 3.43 0.00 34.95 2.82
5489 8786 2.141535 GCCGAGAGCGACAGATTTAT 57.858 50.000 0.00 0.00 40.82 1.40
5506 8803 4.390264 AGGGAAAGATAATTTAGAGCGCC 58.610 43.478 2.29 0.00 0.00 6.53
5688 8985 3.399181 GGTCATCACCTCCCGGCA 61.399 66.667 0.00 0.00 40.00 5.69
5704 9001 2.718073 GCCAGCTTTGCAGGATGGG 61.718 63.158 21.65 9.16 40.22 4.00
5741 9038 0.778815 GAGAACACACGAAGAGCACG 59.221 55.000 0.00 0.00 0.00 5.34
5767 9064 5.022787 GGAGAATACCCTCTAGCAGATCAT 58.977 45.833 0.00 0.00 33.79 2.45
5781 9078 5.536161 ACAACAATATGCATGGGAGAATACC 59.464 40.000 10.16 0.00 0.00 2.73
5825 9122 1.013005 CAGCTTGCTCGACTGGACAG 61.013 60.000 0.00 0.00 0.00 3.51
5842 9139 2.680339 TCACTGTGCTCGATACTCTCAG 59.320 50.000 2.12 0.00 0.00 3.35
5868 9165 4.175516 TGTACGACCAACCACGAAATATC 58.824 43.478 0.00 0.00 0.00 1.63
5928 9225 1.069906 CACAGCAAGCGAAGTAACACC 60.070 52.381 0.00 0.00 0.00 4.16
5985 9284 7.124599 TGAATCAATAGGCAGACATTTTTCCAT 59.875 33.333 0.00 0.00 0.00 3.41
6000 9299 8.571336 GGGTCACATTCTATTTGAATCAATAGG 58.429 37.037 0.00 0.00 43.00 2.57
6084 9383 3.384467 TGATGGCACGAAGATGTATCTCA 59.616 43.478 0.00 0.00 35.76 3.27
6138 9437 5.207110 TCTGACTGAAGAAAGAGTGAAGG 57.793 43.478 0.00 0.00 0.00 3.46
6143 9442 7.232534 AGTGACTAATCTGACTGAAGAAAGAGT 59.767 37.037 0.00 0.00 0.00 3.24
6182 9481 0.322456 TTCTCCATTCCCAACGGCAG 60.322 55.000 0.00 0.00 0.00 4.85
6286 9585 2.182842 GGTGATCGGCTGCCATCAC 61.183 63.158 32.92 32.92 45.62 3.06
6314 9613 1.067354 CACTGAAAAGAATGGGGCAGC 60.067 52.381 0.00 0.00 0.00 5.25
6354 9654 3.181500 GGGGCTGATTTTACGAATGTCAC 60.181 47.826 0.00 0.00 0.00 3.67
6387 9687 1.004440 AACCGCTCTCAGCCAACTC 60.004 57.895 0.00 0.00 38.18 3.01
6412 9712 6.377327 TTTCCAACTCAGAACAAGAATCAC 57.623 37.500 0.00 0.00 0.00 3.06
6466 9766 7.209475 TGTGATTCCTTTCCTTCAAAAATCAC 58.791 34.615 14.99 14.99 44.19 3.06
6547 9847 3.262448 AAACGTACGCAGCCCCCAT 62.262 57.895 16.72 0.00 0.00 4.00
6587 9887 1.066858 GCCACTTCGATCTTCCAGTGA 60.067 52.381 13.03 0.00 39.25 3.41
6609 9909 2.431057 ACTAGGTAGGTCTCCAATTGCG 59.569 50.000 0.00 0.00 0.00 4.85
6610 9910 3.798202 CACTAGGTAGGTCTCCAATTGC 58.202 50.000 0.00 0.00 0.00 3.56
6615 9915 0.032416 GGGCACTAGGTAGGTCTCCA 60.032 60.000 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.