Multiple sequence alignment - TraesCS2A01G409800

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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 TraesCS2A01G409800 chr2A 100.000 3810 0 0 1 3810 667930197 667934006 0.000000e+00 7036.0
1 TraesCS2A01G409800 chr2A 78.035 173 27 10 3309 3475 104387484 104387651 8.710000e-17 99.0
2 TraesCS2A01G409800 chr2A 89.362 47 2 3 661 707 587734422 587734465 5.320000e-04 56.5
3 TraesCS2A01G409800 chr2B 93.041 2558 133 23 770 3307 615437361 615439893 0.000000e+00 3696.0
4 TraesCS2A01G409800 chr2B 89.247 372 36 3 3334 3705 615440306 615440673 2.680000e-126 462.0
5 TraesCS2A01G409800 chr2B 88.983 118 11 1 1 118 615373747 615373862 1.100000e-30 145.0
6 TraesCS2A01G409800 chr2B 100.000 27 0 0 3705 3731 615440708 615440734 2.500000e-02 51.0
7 TraesCS2A01G409800 chr2D 87.437 1982 181 41 1856 3810 522549205 522551145 0.000000e+00 2218.0
8 TraesCS2A01G409800 chr2D 90.555 1154 68 15 741 1870 522548041 522549177 0.000000e+00 1489.0
9 TraesCS2A01G409800 chr2D 86.239 654 70 9 40 688 522547408 522548046 0.000000e+00 691.0
10 TraesCS2A01G409800 chr2D 82.468 154 23 3 3309 3462 450951442 450951591 8.590000e-27 132.0
11 TraesCS2A01G409800 chr5D 81.711 339 56 4 2231 2567 484017814 484017480 1.040000e-70 278.0
12 TraesCS2A01G409800 chr7B 83.333 162 25 1 3315 3474 539986276 539986437 8.530000e-32 148.0
13 TraesCS2A01G409800 chr1A 81.176 170 27 5 3309 3475 470173540 470173707 8.590000e-27 132.0
14 TraesCS2A01G409800 chr1A 100.000 46 0 0 2741 2786 185845288 185845333 6.780000e-13 86.1
15 TraesCS2A01G409800 chr1A 97.826 46 1 0 2741 2786 162721376 162721331 3.160000e-11 80.5
16 TraesCS2A01G409800 chr1A 94.231 52 3 0 2735 2786 166660911 166660962 3.160000e-11 80.5
17 TraesCS2A01G409800 chr1A 95.652 46 2 0 2741 2786 162651072 162651027 1.470000e-09 75.0
18 TraesCS2A01G409800 chr3A 80.247 162 28 4 3309 3468 715619110 715619269 6.690000e-23 119.0
19 TraesCS2A01G409800 chr1B 79.290 169 31 4 3309 3475 618003279 618003445 8.650000e-22 115.0
20 TraesCS2A01G409800 chr6B 77.778 171 30 7 3309 3475 447958450 447958616 8.710000e-17 99.0
21 TraesCS2A01G409800 chr6A 97.778 45 1 0 2742 2786 167190188 167190232 1.130000e-10 78.7
22 TraesCS2A01G409800 chr5A 97.778 45 1 0 2742 2786 651017696 651017652 1.130000e-10 78.7


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 TraesCS2A01G409800 chr2A 667930197 667934006 3809 False 7036 7036 100.000 1 3810 1 chr2A.!!$F3 3809
1 TraesCS2A01G409800 chr2B 615437361 615440734 3373 False 1403 3696 94.096 770 3731 3 chr2B.!!$F2 2961
2 TraesCS2A01G409800 chr2D 522547408 522551145 3737 False 1466 2218 88.077 40 3810 3 chr2D.!!$F2 3770

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
196 198 0.185901 ATGTTCAATGGGCGGCCTAT 59.814 50.0 29.87 16.39 0.00 2.57 F
250 252 0.396435 AACAACATGGAGCTCCGACA 59.604 50.0 27.43 11.20 39.43 4.35 F
342 344 0.895530 CGCCTACAACTCCTTCCTCA 59.104 55.0 0.00 0.00 0.00 3.86 F
1558 1592 0.682209 ACGGCGGTGACCACTATAGT 60.682 55.0 13.24 0.00 0.00 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1442 1469 0.035056 ACTAGCATGAGCCCAACACC 60.035 55.000 0.0 0.0 43.56 4.16 R
1531 1565 1.300697 GTCACCGCCGTCTTTCTGT 60.301 57.895 0.0 0.0 0.00 3.41 R
1699 1734 2.393271 ACCATTTCAGAGAGGCTTCG 57.607 50.000 0.0 0.0 0.00 3.79 R
3435 3942 0.250727 AATGCTTGTGGTGCTACCGT 60.251 50.000 0.0 0.0 42.58 4.83 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
21 22 3.882444 ACCCTATCTTTTTCTAACCGCC 58.118 45.455 0.00 0.00 0.00 6.13
22 23 3.264964 ACCCTATCTTTTTCTAACCGCCA 59.735 43.478 0.00 0.00 0.00 5.69
23 24 4.079958 ACCCTATCTTTTTCTAACCGCCAT 60.080 41.667 0.00 0.00 0.00 4.40
24 25 4.275936 CCCTATCTTTTTCTAACCGCCATG 59.724 45.833 0.00 0.00 0.00 3.66
25 26 4.275936 CCTATCTTTTTCTAACCGCCATGG 59.724 45.833 7.63 7.63 46.41 3.66
35 36 2.671070 CGCCATGGTGGAAGAGGT 59.329 61.111 18.06 0.00 40.96 3.85
36 37 1.746615 CGCCATGGTGGAAGAGGTG 60.747 63.158 18.06 0.00 40.96 4.00
37 38 1.379044 GCCATGGTGGAAGAGGTGG 60.379 63.158 14.67 0.00 40.96 4.61
38 39 1.304282 CCATGGTGGAAGAGGTGGG 59.696 63.158 2.57 0.00 40.96 4.61
49 50 2.204151 AGGTGGGGAGGTGGAAGG 60.204 66.667 0.00 0.00 0.00 3.46
50 51 4.048470 GGTGGGGAGGTGGAAGGC 62.048 72.222 0.00 0.00 0.00 4.35
68 69 1.352156 GCGAAAGATCAAGCCGTCGT 61.352 55.000 0.00 0.00 0.00 4.34
69 70 0.366871 CGAAAGATCAAGCCGTCGTG 59.633 55.000 0.00 0.00 0.00 4.35
70 71 0.721718 GAAAGATCAAGCCGTCGTGG 59.278 55.000 0.00 0.00 42.50 4.94
97 98 7.067496 ACTTATGAGTTCAGTTCTTCCTTGA 57.933 36.000 0.00 0.00 29.87 3.02
105 106 4.130118 TCAGTTCTTCCTTGAAGCTCAAC 58.870 43.478 0.00 0.11 39.29 3.18
117 118 3.814268 CTCAACCCCAATGGCGCG 61.814 66.667 0.00 0.00 37.83 6.86
139 140 4.556898 CGAGGTTTAGAGATATGACACCCG 60.557 50.000 0.00 0.00 0.00 5.28
140 141 3.641906 AGGTTTAGAGATATGACACCCGG 59.358 47.826 0.00 0.00 0.00 5.73
196 198 0.185901 ATGTTCAATGGGCGGCCTAT 59.814 50.000 29.87 16.39 0.00 2.57
198 200 0.465460 GTTCAATGGGCGGCCTATGA 60.465 55.000 29.87 27.04 0.00 2.15
200 202 1.357137 TCAATGGGCGGCCTATGATA 58.643 50.000 29.87 7.89 0.00 2.15
208 210 2.108168 GCGGCCTATGATATCCTACCA 58.892 52.381 0.00 0.00 0.00 3.25
249 251 0.798776 CAACAACATGGAGCTCCGAC 59.201 55.000 27.43 4.81 39.43 4.79
250 252 0.396435 AACAACATGGAGCTCCGACA 59.604 50.000 27.43 11.20 39.43 4.35
257 259 2.725008 GAGCTCCGACATCCCTCG 59.275 66.667 0.87 0.00 0.00 4.63
265 267 1.736586 GACATCCCTCGACGATGCT 59.263 57.895 14.76 5.53 40.70 3.79
281 283 1.747444 TGCTTCCTTTCCTTCCTCCT 58.253 50.000 0.00 0.00 0.00 3.69
282 284 2.915869 TGCTTCCTTTCCTTCCTCCTA 58.084 47.619 0.00 0.00 0.00 2.94
283 285 2.840651 TGCTTCCTTTCCTTCCTCCTAG 59.159 50.000 0.00 0.00 0.00 3.02
293 295 0.912486 TTCCTCCTAGCCTTTGAGCC 59.088 55.000 0.00 0.00 0.00 4.70
309 311 2.234414 TGAGCCAAAAGGGATGCAATTC 59.766 45.455 0.00 0.00 40.01 2.17
325 327 1.993369 ATTCGGCCTTAGCTTTGCGC 61.993 55.000 0.00 0.00 39.73 6.09
342 344 0.895530 CGCCTACAACTCCTTCCTCA 59.104 55.000 0.00 0.00 0.00 3.86
366 368 4.087892 CCTCTCACGGTGGGGCTG 62.088 72.222 8.39 0.00 0.00 4.85
417 420 2.091720 TCCCCAATGATGGTGGATTCTG 60.092 50.000 0.00 0.00 46.01 3.02
424 427 3.597182 TGATGGTGGATTCTGGGCTATA 58.403 45.455 0.00 0.00 0.00 1.31
426 429 4.603171 TGATGGTGGATTCTGGGCTATATT 59.397 41.667 0.00 0.00 0.00 1.28
452 455 4.559153 GCATGTTGCAAGGATTAAGTTGT 58.441 39.130 0.00 0.00 44.26 3.32
455 458 5.181690 TGTTGCAAGGATTAAGTTGTGAC 57.818 39.130 0.00 0.00 0.00 3.67
456 459 4.037446 TGTTGCAAGGATTAAGTTGTGACC 59.963 41.667 0.00 0.00 0.00 4.02
463 466 7.573283 GCAAGGATTAAGTTGTGACCTAGTTTC 60.573 40.741 0.00 0.00 0.00 2.78
464 467 6.164176 AGGATTAAGTTGTGACCTAGTTTCG 58.836 40.000 0.00 0.00 0.00 3.46
468 471 2.056577 GTTGTGACCTAGTTTCGTCGG 58.943 52.381 0.00 0.00 0.00 4.79
478 481 1.302192 TTTCGTCGGGGCCTCTTTG 60.302 57.895 0.00 0.00 0.00 2.77
487 490 1.831106 GGGGCCTCTTTGGTAAAATGG 59.169 52.381 0.84 0.00 38.35 3.16
490 493 3.431415 GGCCTCTTTGGTAAAATGGACT 58.569 45.455 0.00 0.00 38.35 3.85
492 495 4.079253 GCCTCTTTGGTAAAATGGACTGA 58.921 43.478 0.00 0.00 38.35 3.41
497 500 7.094762 CCTCTTTGGTAAAATGGACTGACTAAC 60.095 40.741 0.00 0.00 0.00 2.34
533 536 6.324819 TCTTTTCTATTACGTCCTTGTACCG 58.675 40.000 0.00 0.00 0.00 4.02
534 537 5.895636 TTTCTATTACGTCCTTGTACCGA 57.104 39.130 0.00 0.00 0.00 4.69
535 538 6.455360 TTTCTATTACGTCCTTGTACCGAT 57.545 37.500 0.00 0.00 0.00 4.18
536 539 6.455360 TTCTATTACGTCCTTGTACCGATT 57.545 37.500 0.00 0.00 0.00 3.34
537 540 5.824429 TCTATTACGTCCTTGTACCGATTG 58.176 41.667 0.00 0.00 0.00 2.67
538 541 3.940209 TTACGTCCTTGTACCGATTGT 57.060 42.857 0.00 0.00 0.00 2.71
539 542 5.581126 ATTACGTCCTTGTACCGATTGTA 57.419 39.130 0.00 0.00 0.00 2.41
540 543 5.581126 TTACGTCCTTGTACCGATTGTAT 57.419 39.130 0.00 0.00 0.00 2.29
541 544 4.037858 ACGTCCTTGTACCGATTGTATC 57.962 45.455 0.00 0.00 0.00 2.24
554 557 9.130312 GTACCGATTGTATCATCTCAAATACTC 57.870 37.037 0.00 0.00 31.11 2.59
555 558 7.155328 ACCGATTGTATCATCTCAAATACTCC 58.845 38.462 0.00 0.00 31.11 3.85
623 626 9.340695 CAATTAACCAATAATACATACGCCATG 57.659 33.333 0.00 0.00 35.58 3.66
693 698 9.887629 ATTTAATGATATGATTTTTGTGGCACA 57.112 25.926 17.96 17.96 0.00 4.57
713 718 9.281371 TGGCACACTATAACATACTACTACTAG 57.719 37.037 0.00 0.00 0.00 2.57
714 719 9.499479 GGCACACTATAACATACTACTACTAGA 57.501 37.037 0.00 0.00 0.00 2.43
736 741 9.790389 CTAGAGTACTAGTAGTTCAATTTGTGG 57.210 37.037 8.40 0.00 40.64 4.17
737 742 7.097834 AGAGTACTAGTAGTTCAATTTGTGGC 58.902 38.462 8.40 0.00 0.00 5.01
738 743 6.765403 AGTACTAGTAGTTCAATTTGTGGCA 58.235 36.000 8.40 0.00 0.00 4.92
739 744 7.221450 AGTACTAGTAGTTCAATTTGTGGCAA 58.779 34.615 8.40 0.00 0.00 4.52
740 745 7.883311 AGTACTAGTAGTTCAATTTGTGGCAAT 59.117 33.333 8.40 0.00 0.00 3.56
741 746 7.524717 ACTAGTAGTTCAATTTGTGGCAATT 57.475 32.000 0.00 0.00 0.00 2.32
742 747 7.951591 ACTAGTAGTTCAATTTGTGGCAATTT 58.048 30.769 0.00 0.00 0.00 1.82
743 748 8.421002 ACTAGTAGTTCAATTTGTGGCAATTTT 58.579 29.630 0.00 0.00 0.00 1.82
744 749 7.481275 AGTAGTTCAATTTGTGGCAATTTTG 57.519 32.000 0.00 0.00 0.00 2.44
745 750 7.047271 AGTAGTTCAATTTGTGGCAATTTTGT 58.953 30.769 0.00 0.00 0.00 2.83
746 751 8.200792 AGTAGTTCAATTTGTGGCAATTTTGTA 58.799 29.630 0.00 0.00 0.00 2.41
747 752 8.987890 GTAGTTCAATTTGTGGCAATTTTGTAT 58.012 29.630 0.00 0.00 0.00 2.29
766 771 5.253330 TGTATTGCCTTCTTTCTTAGGGTG 58.747 41.667 0.00 0.00 31.95 4.61
767 772 2.879103 TGCCTTCTTTCTTAGGGTGG 57.121 50.000 0.00 0.00 31.95 4.61
771 776 3.956744 CCTTCTTTCTTAGGGTGGAAGG 58.043 50.000 0.00 0.00 42.12 3.46
850 855 5.891451 AGCTAAAAGTAAATGATTTCGGCC 58.109 37.500 0.00 0.00 0.00 6.13
902 908 1.016653 GGAACTGCACGCTTCCTCTC 61.017 60.000 5.99 0.00 34.20 3.20
907 913 1.213013 GCACGCTTCCTCTCTTCGA 59.787 57.895 0.00 0.00 0.00 3.71
1086 1111 2.365095 ATACGAAGCCGCCACCTAGC 62.365 60.000 0.00 0.00 39.95 3.42
1282 1307 3.067106 CGTTCAGTCTTGGTAACTGCAT 58.933 45.455 0.00 0.00 43.09 3.96
1358 1385 4.662468 TGAGTAATGCTTCAGGCTAGAG 57.338 45.455 0.00 0.00 42.39 2.43
1426 1453 5.296780 TGGATTAGCGACTGAATGGAAAATC 59.703 40.000 0.00 0.00 0.00 2.17
1427 1454 5.278022 GGATTAGCGACTGAATGGAAAATCC 60.278 44.000 0.00 0.00 34.78 3.01
1502 1536 2.677979 GGTGCGACGGAGAAAAGGC 61.678 63.158 0.00 0.00 0.00 4.35
1507 1541 1.810412 GCGACGGAGAAAAGGCCATAT 60.810 52.381 5.01 0.00 0.00 1.78
1508 1542 1.867233 CGACGGAGAAAAGGCCATATG 59.133 52.381 5.01 0.00 0.00 1.78
1531 1565 4.637534 GTCTGCAAAATAGAGATTGGAGCA 59.362 41.667 2.63 0.00 42.58 4.26
1558 1592 0.682209 ACGGCGGTGACCACTATAGT 60.682 55.000 13.24 0.00 0.00 2.12
1563 1597 3.119029 GGCGGTGACCACTATAGTTTGTA 60.119 47.826 1.56 0.00 0.00 2.41
1615 1649 3.489416 TCGTGTATTGCGATTGCTGATAC 59.511 43.478 17.92 17.92 43.34 2.24
1665 1700 1.464997 CCCTCGCTTGCTGTTTACTTC 59.535 52.381 0.00 0.00 0.00 3.01
1671 1706 5.234752 TCGCTTGCTGTTTACTTCTCAATA 58.765 37.500 0.00 0.00 0.00 1.90
1699 1734 6.795114 CGTATGATTTGTACTGGTGAAAACAC 59.205 38.462 0.00 0.00 0.00 3.32
1706 1741 1.308998 CTGGTGAAAACACGAAGCCT 58.691 50.000 0.00 0.00 0.00 4.58
1876 1952 3.411446 TGAGTATGCTTTTGGTCAGGTG 58.589 45.455 0.00 0.00 0.00 4.00
1880 1956 1.412079 TGCTTTTGGTCAGGTGCATT 58.588 45.000 0.00 0.00 0.00 3.56
2017 2109 9.476202 TCTATAGCATGTAAACACATACACATC 57.524 33.333 0.00 0.00 38.53 3.06
2040 2132 5.867174 TCGATATGTTACATTTCATAGCCCG 59.133 40.000 14.24 1.86 31.76 6.13
2059 2151 1.737793 CGGCACTTGACAAATCCCTAC 59.262 52.381 0.00 0.00 0.00 3.18
2071 2164 8.472007 TGACAAATCCCTACAGTTTTTGTAAT 57.528 30.769 0.00 0.00 41.57 1.89
2174 2276 5.611796 AACATACACGCATATGCTATTGG 57.388 39.130 24.56 11.59 36.21 3.16
2228 2334 6.238925 GCACCTTTCTGGAAAGCTACTTAAAA 60.239 38.462 15.30 0.00 44.76 1.52
2265 2372 6.978343 TGGTTTAGTAATTTCTGATGACCG 57.022 37.500 0.00 0.00 0.00 4.79
2266 2373 5.353123 TGGTTTAGTAATTTCTGATGACCGC 59.647 40.000 0.00 0.00 0.00 5.68
2280 2387 3.074594 ACCGCGTAGGGCTTAATTG 57.925 52.632 4.92 0.00 46.96 2.32
2282 2389 0.655733 CCGCGTAGGGCTTAATTGTG 59.344 55.000 4.92 0.00 40.44 3.33
2293 2400 5.190925 AGGGCTTAATTGTGTATACCTGACA 59.809 40.000 0.00 0.00 0.00 3.58
2294 2401 5.527582 GGGCTTAATTGTGTATACCTGACAG 59.472 44.000 0.00 0.00 0.00 3.51
2332 2439 7.405292 TCTGAACATATGGGTTCTTGATCTTT 58.595 34.615 7.80 0.00 45.74 2.52
2393 2500 1.120184 TTGCCCCTGCTCATTTTGCA 61.120 50.000 0.00 0.00 38.71 4.08
2568 2675 1.908068 GCCCCAGATAGGCCAGGATAT 60.908 57.143 5.01 0.00 45.16 1.63
2643 2750 3.565764 TCATCGAGAAGCCAATCCAAT 57.434 42.857 0.00 0.00 0.00 3.16
2649 2756 3.881688 CGAGAAGCCAATCCAATTGAGAT 59.118 43.478 7.12 5.34 42.83 2.75
2677 2784 2.044650 GGCAATCAGCTGCTGGGA 60.045 61.111 27.79 11.57 44.79 4.37
2692 2799 4.722700 GGAGGGCGCTTGCAAGGA 62.723 66.667 27.10 0.00 41.71 3.36
2880 2987 3.769300 TCAGAGATAACCTAGCTGTTGCA 59.231 43.478 0.00 0.00 42.74 4.08
2896 3003 2.103042 GCAAGTAGCCCGCTGTGAG 61.103 63.158 0.00 0.00 37.23 3.51
2897 3004 1.448540 CAAGTAGCCCGCTGTGAGG 60.449 63.158 0.00 0.00 0.00 3.86
2900 3007 1.141234 GTAGCCCGCTGTGAGGTAC 59.859 63.158 0.00 0.00 0.00 3.34
2903 3010 1.038130 AGCCCGCTGTGAGGTACTAG 61.038 60.000 0.00 0.00 41.55 2.57
2904 3011 1.321074 GCCCGCTGTGAGGTACTAGT 61.321 60.000 0.00 0.00 41.55 2.57
2905 3012 2.020694 GCCCGCTGTGAGGTACTAGTA 61.021 57.143 0.00 0.00 41.55 1.82
2907 3014 2.641305 CCGCTGTGAGGTACTAGTAGT 58.359 52.381 8.14 8.14 41.55 2.73
2909 3016 4.194640 CCGCTGTGAGGTACTAGTAGTAA 58.805 47.826 11.64 0.00 41.55 2.24
2910 3017 4.034975 CCGCTGTGAGGTACTAGTAGTAAC 59.965 50.000 16.34 16.34 41.55 2.50
2939 3046 9.158233 GATAGGAGTACATCAGACTAGACATAC 57.842 40.741 0.00 0.00 0.00 2.39
3012 3119 4.448732 GCATCATTTTGGAAAGCTTTTCGT 59.551 37.500 14.05 0.00 0.00 3.85
3026 3133 3.120649 GCTTTTCGTTGAATCTACAGCGT 60.121 43.478 0.00 0.00 42.98 5.07
3039 3146 2.370281 ACAGCGTGGTGACTATTCAG 57.630 50.000 6.00 0.00 30.10 3.02
3105 3212 1.741706 CCGCTGCTCTTGTCATGATTT 59.258 47.619 0.00 0.00 0.00 2.17
3146 3254 3.244561 ACAGCAGGAAGTAGCTTAAGCAA 60.245 43.478 28.39 0.00 45.16 3.91
3197 3305 4.460948 AAGCAAGTCCAAAAGCATATGG 57.539 40.909 4.56 0.00 38.09 2.74
3227 3335 5.593909 TGTTTCTGTGAATTGTGATGGACTT 59.406 36.000 0.00 0.00 0.00 3.01
3247 3355 1.754226 TGACTGGTTTTGCAAAGGGTC 59.246 47.619 12.41 16.97 0.00 4.46
3271 3379 5.163824 CGTAACATGTGCTGTGAAATGAGAT 60.164 40.000 0.00 0.00 38.39 2.75
3277 3385 5.737860 TGTGCTGTGAAATGAGATGATACT 58.262 37.500 0.00 0.00 0.00 2.12
3312 3819 2.206576 GGGTGCACCTCTTTCATCTT 57.793 50.000 33.91 0.00 35.85 2.40
3350 3857 5.401033 TTTTGATTTGAAATTGTGTGGCG 57.599 34.783 0.00 0.00 0.00 5.69
3435 3942 4.580868 TGTTATACAGAAATCCGGTGCAA 58.419 39.130 0.00 0.00 0.00 4.08
3453 3960 0.250727 AACGGTAGCACCACAAGCAT 60.251 50.000 6.21 0.00 38.47 3.79
3454 3961 0.250727 ACGGTAGCACCACAAGCATT 60.251 50.000 6.21 0.00 38.47 3.56
3517 4024 5.810525 CTTTGTACATAAAGCGGGAAGATG 58.189 41.667 0.00 0.00 31.62 2.90
3518 4025 3.202906 TGTACATAAAGCGGGAAGATGC 58.797 45.455 0.00 0.00 0.00 3.91
3528 4035 1.834188 GGGAAGATGCCCTTTTTCGA 58.166 50.000 0.00 0.00 45.12 3.71
3574 4081 9.672086 CCTGTGAAGTTCGTATTGAAATTTTAA 57.328 29.630 0.00 0.00 44.30 1.52
3593 4100 4.195334 ACATGGATCCGGCCAGGC 62.195 66.667 12.04 1.26 43.22 4.85
3618 4125 2.028748 GGATGAGTGCTGCACCAAATTT 60.029 45.455 27.74 9.43 34.49 1.82
3629 4136 2.741228 GCACCAAATTTGCAGTGGAACA 60.741 45.455 21.57 0.00 41.43 3.18
3660 4167 4.154737 CAGAAGGATGAAGTGCAATTTCGA 59.845 41.667 0.00 0.00 34.99 3.71
3682 4189 1.115467 GATGGAGGAAGAGGCGAAGA 58.885 55.000 0.00 0.00 0.00 2.87
3697 4204 0.652592 GAAGAACGACGCATGGATGG 59.347 55.000 0.00 0.00 0.00 3.51
3769 4312 7.313951 TCAAAAAGGGCTAAAATTGTTTGTG 57.686 32.000 0.00 0.00 0.00 3.33
3776 4319 4.038642 GGCTAAAATTGTTTGTGAGGGTCA 59.961 41.667 0.00 0.00 0.00 4.02
3777 4320 5.279456 GGCTAAAATTGTTTGTGAGGGTCAT 60.279 40.000 0.00 0.00 0.00 3.06
3778 4321 6.071616 GGCTAAAATTGTTTGTGAGGGTCATA 60.072 38.462 0.00 0.00 0.00 2.15
3780 4323 7.870445 GCTAAAATTGTTTGTGAGGGTCATAAA 59.130 33.333 0.00 0.00 35.57 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.264964 TGGCGGTTAGAAAAAGATAGGGT 59.735 43.478 0.00 0.00 0.00 4.34
1 2 3.881220 TGGCGGTTAGAAAAAGATAGGG 58.119 45.455 0.00 0.00 0.00 3.53
2 3 4.275936 CCATGGCGGTTAGAAAAAGATAGG 59.724 45.833 0.00 0.00 0.00 2.57
3 4 5.424121 CCATGGCGGTTAGAAAAAGATAG 57.576 43.478 0.00 0.00 0.00 2.08
17 18 2.124570 CCTCTTCCACCATGGCGG 60.125 66.667 13.02 13.02 37.47 6.13
18 19 1.746615 CACCTCTTCCACCATGGCG 60.747 63.158 13.04 0.90 37.47 5.69
19 20 1.379044 CCACCTCTTCCACCATGGC 60.379 63.158 13.04 0.00 37.47 4.40
20 21 1.304282 CCCACCTCTTCCACCATGG 59.696 63.158 11.19 11.19 39.43 3.66
21 22 1.207488 TCCCCACCTCTTCCACCATG 61.207 60.000 0.00 0.00 0.00 3.66
22 23 0.916358 CTCCCCACCTCTTCCACCAT 60.916 60.000 0.00 0.00 0.00 3.55
23 24 1.538876 CTCCCCACCTCTTCCACCA 60.539 63.158 0.00 0.00 0.00 4.17
24 25 2.301738 CCTCCCCACCTCTTCCACC 61.302 68.421 0.00 0.00 0.00 4.61
25 26 1.539124 ACCTCCCCACCTCTTCCAC 60.539 63.158 0.00 0.00 0.00 4.02
26 27 1.538876 CACCTCCCCACCTCTTCCA 60.539 63.158 0.00 0.00 0.00 3.53
27 28 2.301738 CCACCTCCCCACCTCTTCC 61.302 68.421 0.00 0.00 0.00 3.46
28 29 0.840722 TTCCACCTCCCCACCTCTTC 60.841 60.000 0.00 0.00 0.00 2.87
29 30 0.842467 CTTCCACCTCCCCACCTCTT 60.842 60.000 0.00 0.00 0.00 2.85
30 31 1.229658 CTTCCACCTCCCCACCTCT 60.230 63.158 0.00 0.00 0.00 3.69
31 32 2.301738 CCTTCCACCTCCCCACCTC 61.302 68.421 0.00 0.00 0.00 3.85
32 33 2.204151 CCTTCCACCTCCCCACCT 60.204 66.667 0.00 0.00 0.00 4.00
33 34 4.048470 GCCTTCCACCTCCCCACC 62.048 72.222 0.00 0.00 0.00 4.61
34 35 4.410400 CGCCTTCCACCTCCCCAC 62.410 72.222 0.00 0.00 0.00 4.61
35 36 4.649705 TCGCCTTCCACCTCCCCA 62.650 66.667 0.00 0.00 0.00 4.96
36 37 2.821679 CTTTCGCCTTCCACCTCCCC 62.822 65.000 0.00 0.00 0.00 4.81
37 38 1.377333 CTTTCGCCTTCCACCTCCC 60.377 63.158 0.00 0.00 0.00 4.30
38 39 0.253327 ATCTTTCGCCTTCCACCTCC 59.747 55.000 0.00 0.00 0.00 4.30
49 50 1.345176 CGACGGCTTGATCTTTCGC 59.655 57.895 0.00 0.00 0.00 4.70
50 51 0.366871 CACGACGGCTTGATCTTTCG 59.633 55.000 0.00 0.00 0.00 3.46
68 69 3.258372 AGAACTGAACTCATAAGTCGCCA 59.742 43.478 0.00 0.00 33.48 5.69
69 70 3.851098 AGAACTGAACTCATAAGTCGCC 58.149 45.455 0.00 0.00 33.48 5.54
70 71 4.327627 GGAAGAACTGAACTCATAAGTCGC 59.672 45.833 0.00 0.00 33.48 5.19
71 72 5.715070 AGGAAGAACTGAACTCATAAGTCG 58.285 41.667 0.00 0.00 33.48 4.18
77 78 4.759183 GCTTCAAGGAAGAACTGAACTCAT 59.241 41.667 10.01 0.00 41.71 2.90
97 98 1.978617 CGCCATTGGGGTTGAGCTT 60.979 57.895 11.47 0.00 39.65 3.74
117 118 4.262079 CCGGGTGTCATATCTCTAAACCTC 60.262 50.000 0.00 0.00 0.00 3.85
120 121 3.391049 GCCGGGTGTCATATCTCTAAAC 58.609 50.000 2.18 0.00 0.00 2.01
122 123 1.611977 CGCCGGGTGTCATATCTCTAA 59.388 52.381 2.18 0.00 0.00 2.10
151 152 5.475001 AGGAAGATCCTTCCAAAGGTGGC 62.475 52.174 23.12 0.00 46.91 5.01
171 173 1.135024 CCGCCCATTGAACATCAAAGG 60.135 52.381 7.25 7.25 42.95 3.11
177 179 0.185901 ATAGGCCGCCCATTGAACAT 59.814 50.000 5.55 0.00 0.00 2.71
183 185 1.212935 GGATATCATAGGCCGCCCATT 59.787 52.381 5.55 0.00 0.00 3.16
184 186 0.839946 GGATATCATAGGCCGCCCAT 59.160 55.000 5.55 0.00 0.00 4.00
196 198 8.723365 ACCAAAAGATACAATGGTAGGATATCA 58.277 33.333 4.83 0.00 44.11 2.15
198 200 8.723365 TGACCAAAAGATACAATGGTAGGATAT 58.277 33.333 0.00 0.00 45.85 1.63
200 202 6.969043 TGACCAAAAGATACAATGGTAGGAT 58.031 36.000 0.00 0.00 45.85 3.24
231 233 0.396435 TGTCGGAGCTCCATGTTGTT 59.604 50.000 31.67 0.00 35.14 2.83
235 237 1.690219 GGGATGTCGGAGCTCCATGT 61.690 60.000 31.67 14.57 35.14 3.21
249 251 0.598680 GGAAGCATCGTCGAGGGATG 60.599 60.000 17.80 17.80 43.23 3.51
250 252 0.757188 AGGAAGCATCGTCGAGGGAT 60.757 55.000 9.19 0.00 0.00 3.85
257 259 2.010497 GGAAGGAAAGGAAGCATCGTC 58.990 52.381 0.00 0.00 0.00 4.20
265 267 2.197465 GGCTAGGAGGAAGGAAAGGAA 58.803 52.381 0.00 0.00 0.00 3.36
281 283 1.427368 TCCCTTTTGGCTCAAAGGCTA 59.573 47.619 18.32 9.35 41.96 3.93
282 284 0.188342 TCCCTTTTGGCTCAAAGGCT 59.812 50.000 18.32 0.00 41.96 4.58
283 285 1.066645 CATCCCTTTTGGCTCAAAGGC 60.067 52.381 18.32 0.00 41.77 4.35
293 295 1.643880 GCCGAATTGCATCCCTTTTG 58.356 50.000 0.00 0.00 0.00 2.44
325 327 4.351874 TTTGTGAGGAAGGAGTTGTAGG 57.648 45.455 0.00 0.00 0.00 3.18
342 344 1.271379 CCCACCGTGAGAGGATTTTGT 60.271 52.381 0.00 0.00 34.73 2.83
408 411 4.457257 GCTTCAATATAGCCCAGAATCCAC 59.543 45.833 0.00 0.00 32.45 4.02
417 420 3.318839 TGCAACATGCTTCAATATAGCCC 59.681 43.478 3.78 0.00 45.31 5.19
424 427 4.546829 AATCCTTGCAACATGCTTCAAT 57.453 36.364 0.00 0.00 45.31 2.57
426 429 4.523943 ACTTAATCCTTGCAACATGCTTCA 59.476 37.500 0.00 0.00 45.31 3.02
448 451 2.056577 CCGACGAAACTAGGTCACAAC 58.943 52.381 0.00 0.00 32.74 3.32
452 455 1.880819 GCCCCGACGAAACTAGGTCA 61.881 60.000 0.00 0.00 32.74 4.02
455 458 2.186125 GGCCCCGACGAAACTAGG 59.814 66.667 0.00 0.00 0.00 3.02
456 459 1.141234 GAGGCCCCGACGAAACTAG 59.859 63.158 0.00 0.00 0.00 2.57
463 466 2.175035 TTACCAAAGAGGCCCCGACG 62.175 60.000 0.00 0.00 43.14 5.12
464 467 0.037160 TTTACCAAAGAGGCCCCGAC 59.963 55.000 0.00 0.00 43.14 4.79
468 471 2.496070 GTCCATTTTACCAAAGAGGCCC 59.504 50.000 0.00 0.00 43.14 5.80
521 524 4.036567 TGATACAATCGGTACAAGGACG 57.963 45.455 0.00 0.00 34.07 4.79
597 600 9.340695 CATGGCGTATGTATTATTGGTTAATTG 57.659 33.333 0.00 0.00 32.66 2.32
669 674 8.530311 AGTGTGCCACAAAAATCATATCATTAA 58.470 29.630 0.00 0.00 36.74 1.40
678 683 6.641169 TGTTATAGTGTGCCACAAAAATCA 57.359 33.333 0.00 0.00 36.74 2.57
688 693 9.499479 TCTAGTAGTAGTATGTTATAGTGTGCC 57.501 37.037 4.51 0.00 0.00 5.01
710 715 9.790389 CCACAAATTGAACTACTAGTACTCTAG 57.210 37.037 0.00 2.22 46.43 2.43
711 716 8.248945 GCCACAAATTGAACTACTAGTACTCTA 58.751 37.037 0.00 0.00 0.00 2.43
712 717 7.097834 GCCACAAATTGAACTACTAGTACTCT 58.902 38.462 0.00 0.00 0.00 3.24
713 718 6.872020 TGCCACAAATTGAACTACTAGTACTC 59.128 38.462 0.00 0.00 0.00 2.59
714 719 6.765403 TGCCACAAATTGAACTACTAGTACT 58.235 36.000 0.00 0.00 0.00 2.73
715 720 7.429636 TTGCCACAAATTGAACTACTAGTAC 57.570 36.000 0.00 0.00 0.00 2.73
716 721 8.630054 AATTGCCACAAATTGAACTACTAGTA 57.370 30.769 0.00 1.89 0.00 1.82
717 722 7.524717 AATTGCCACAAATTGAACTACTAGT 57.475 32.000 0.00 0.00 0.00 2.57
718 723 8.702438 CAAAATTGCCACAAATTGAACTACTAG 58.298 33.333 0.00 0.00 30.21 2.57
719 724 8.200792 ACAAAATTGCCACAAATTGAACTACTA 58.799 29.630 0.00 0.00 30.21 1.82
720 725 7.047271 ACAAAATTGCCACAAATTGAACTACT 58.953 30.769 0.00 0.00 30.21 2.57
721 726 7.245419 ACAAAATTGCCACAAATTGAACTAC 57.755 32.000 0.00 0.00 30.21 2.73
722 727 9.553064 AATACAAAATTGCCACAAATTGAACTA 57.447 25.926 0.00 0.00 30.21 2.24
723 728 8.344098 CAATACAAAATTGCCACAAATTGAACT 58.656 29.630 0.00 0.00 30.21 3.01
724 729 7.113264 GCAATACAAAATTGCCACAAATTGAAC 59.887 33.333 10.83 0.00 46.21 3.18
725 730 7.137426 GCAATACAAAATTGCCACAAATTGAA 58.863 30.769 10.83 0.00 46.21 2.69
726 731 6.666417 GCAATACAAAATTGCCACAAATTGA 58.334 32.000 10.83 2.38 46.21 2.57
727 732 6.914760 GCAATACAAAATTGCCACAAATTG 57.085 33.333 10.83 0.00 46.21 2.32
737 742 9.143631 CCTAAGAAAGAAGGCAATACAAAATTG 57.856 33.333 0.00 0.00 0.00 2.32
738 743 8.314021 CCCTAAGAAAGAAGGCAATACAAAATT 58.686 33.333 0.00 0.00 0.00 1.82
739 744 7.454694 ACCCTAAGAAAGAAGGCAATACAAAAT 59.545 33.333 0.00 0.00 0.00 1.82
740 745 6.780522 ACCCTAAGAAAGAAGGCAATACAAAA 59.219 34.615 0.00 0.00 0.00 2.44
741 746 6.208599 CACCCTAAGAAAGAAGGCAATACAAA 59.791 38.462 0.00 0.00 0.00 2.83
742 747 5.710099 CACCCTAAGAAAGAAGGCAATACAA 59.290 40.000 0.00 0.00 0.00 2.41
743 748 5.253330 CACCCTAAGAAAGAAGGCAATACA 58.747 41.667 0.00 0.00 0.00 2.29
744 749 4.640647 CCACCCTAAGAAAGAAGGCAATAC 59.359 45.833 0.00 0.00 0.00 1.89
745 750 4.538490 TCCACCCTAAGAAAGAAGGCAATA 59.462 41.667 0.00 0.00 0.00 1.90
746 751 3.333680 TCCACCCTAAGAAAGAAGGCAAT 59.666 43.478 0.00 0.00 0.00 3.56
747 752 2.714250 TCCACCCTAAGAAAGAAGGCAA 59.286 45.455 0.00 0.00 0.00 4.52
793 798 1.103803 CGATTCTCGAAGGACCCAGA 58.896 55.000 0.00 0.00 43.74 3.86
902 908 6.152379 TGATGGACGATTGATATTCTCGAAG 58.848 40.000 8.82 0.00 36.32 3.79
907 913 6.870965 GCTAGTTGATGGACGATTGATATTCT 59.129 38.462 0.00 0.00 0.00 2.40
1218 1243 1.691195 TTGGTGTGCGGACCTGAAGA 61.691 55.000 4.04 0.00 36.88 2.87
1358 1385 3.733337 AGCATAGCATTACTACCAGCAC 58.267 45.455 0.00 0.00 32.32 4.40
1441 1468 0.035152 CTAGCATGAGCCCAACACCA 60.035 55.000 0.00 0.00 43.56 4.17
1442 1469 0.035056 ACTAGCATGAGCCCAACACC 60.035 55.000 0.00 0.00 43.56 4.16
1502 1536 7.446319 TCCAATCTCTATTTTGCAGACATATGG 59.554 37.037 7.80 0.00 0.00 2.74
1507 1541 4.637534 GCTCCAATCTCTATTTTGCAGACA 59.362 41.667 0.00 0.00 0.00 3.41
1508 1542 4.637534 TGCTCCAATCTCTATTTTGCAGAC 59.362 41.667 0.00 0.00 0.00 3.51
1531 1565 1.300697 GTCACCGCCGTCTTTCTGT 60.301 57.895 0.00 0.00 0.00 3.41
1558 1592 6.932400 ACAATTGTGTAGTCCGAAGATACAAA 59.068 34.615 11.07 0.00 35.72 2.83
1563 1597 5.639506 CAGAACAATTGTGTAGTCCGAAGAT 59.360 40.000 12.82 0.00 36.80 2.40
1604 1638 7.930865 AGAAGTTCTAATCCAGTATCAGCAATC 59.069 37.037 2.75 0.00 0.00 2.67
1665 1700 7.921214 ACCAGTACAAATCATACGACTATTGAG 59.079 37.037 0.00 0.00 0.00 3.02
1671 1706 5.654603 TCACCAGTACAAATCATACGACT 57.345 39.130 0.00 0.00 0.00 4.18
1699 1734 2.393271 ACCATTTCAGAGAGGCTTCG 57.607 50.000 0.00 0.00 0.00 3.79
1706 1741 7.920151 CACAAAACAAATGTACCATTTCAGAGA 59.080 33.333 0.00 0.00 0.00 3.10
1732 1767 3.408634 TCAGTAGCTTGGCAAACCTTAC 58.591 45.455 0.00 2.11 36.63 2.34
1733 1768 3.780804 TCAGTAGCTTGGCAAACCTTA 57.219 42.857 0.00 0.00 36.63 2.69
1880 1956 9.747898 ATGGTTCAACACAATATCCTAAACTAA 57.252 29.630 0.00 0.00 0.00 2.24
1934 2010 7.936847 TGAAAAAGAGAACACCAAGCTTCTATA 59.063 33.333 0.00 0.00 0.00 1.31
1935 2011 6.772716 TGAAAAAGAGAACACCAAGCTTCTAT 59.227 34.615 0.00 0.00 0.00 1.98
2017 2109 5.063438 CCGGGCTATGAAATGTAACATATCG 59.937 44.000 0.00 0.00 0.00 2.92
2040 2132 2.749621 CTGTAGGGATTTGTCAAGTGCC 59.250 50.000 10.23 10.23 0.00 5.01
2071 2164 7.476540 AGCCCAACACGATATATCAGTTATA 57.523 36.000 16.02 0.00 0.00 0.98
2090 2183 3.311103 ACCCTAGGTACTATTGAAGCCCA 60.311 47.826 8.29 0.00 41.70 5.36
2174 2276 9.357652 ACACATTTAGATTCATATTGTTTGTGC 57.642 29.630 0.00 0.00 34.46 4.57
2179 2281 9.926158 TGCAAACACATTTAGATTCATATTGTT 57.074 25.926 0.00 0.00 0.00 2.83
2228 2334 4.270008 ACTAAACCAAAACAGAGCACACT 58.730 39.130 0.00 0.00 0.00 3.55
2265 2372 4.450080 GGTATACACAATTAAGCCCTACGC 59.550 45.833 5.01 0.00 37.98 4.42
2266 2373 5.694910 CAGGTATACACAATTAAGCCCTACG 59.305 44.000 5.01 0.00 0.00 3.51
2279 2386 5.512404 CCCTTGAAACTGTCAGGTATACACA 60.512 44.000 5.01 0.00 37.61 3.72
2280 2387 4.935808 CCCTTGAAACTGTCAGGTATACAC 59.064 45.833 5.01 0.00 37.61 2.90
2282 2389 5.046520 AGACCCTTGAAACTGTCAGGTATAC 60.047 44.000 4.53 0.00 35.46 1.47
2293 2400 4.503714 TGTTCAGAAGACCCTTGAAACT 57.496 40.909 0.00 0.00 0.00 2.66
2294 2401 6.127897 CCATATGTTCAGAAGACCCTTGAAAC 60.128 42.308 1.24 0.00 0.00 2.78
2332 2439 9.675464 TTATCTTCAATAGATGCATGCATATGA 57.325 29.630 32.52 27.23 43.52 2.15
2393 2500 6.660521 TCCATGACAACTTTTATCTCTGCAAT 59.339 34.615 0.00 0.00 0.00 3.56
2568 2675 1.005097 TGAGTGGTACCTTCTCGCCTA 59.995 52.381 22.75 10.30 0.00 3.93
2649 2756 3.378264 GCTGATTGCCATGGTTTGCCA 62.378 52.381 14.67 0.00 41.96 4.92
2677 2784 2.439156 GATCCTTGCAAGCGCCCT 60.439 61.111 21.43 2.70 37.32 5.19
2692 2799 2.758979 AGATCCACCAACGACGTAAGAT 59.241 45.455 0.00 0.00 43.62 2.40
2873 2980 1.672356 AGCGGGCTACTTGCAACAG 60.672 57.895 0.00 0.00 45.15 3.16
2880 2987 0.613853 TACCTCACAGCGGGCTACTT 60.614 55.000 0.00 0.00 0.00 2.24
2896 3003 7.744733 ACTCCTATCCAGTTACTACTAGTACC 58.255 42.308 0.00 0.00 31.96 3.34
2897 3004 9.705290 GTACTCCTATCCAGTTACTACTAGTAC 57.295 40.741 0.00 0.00 33.14 2.73
2900 3007 9.439500 GATGTACTCCTATCCAGTTACTACTAG 57.561 40.741 0.00 0.00 31.96 2.57
2903 3010 7.937942 TCTGATGTACTCCTATCCAGTTACTAC 59.062 40.741 0.00 0.00 0.00 2.73
2904 3011 7.937942 GTCTGATGTACTCCTATCCAGTTACTA 59.062 40.741 0.00 0.00 0.00 1.82
2905 3012 6.773685 GTCTGATGTACTCCTATCCAGTTACT 59.226 42.308 0.00 0.00 0.00 2.24
2907 3014 6.912426 AGTCTGATGTACTCCTATCCAGTTA 58.088 40.000 0.00 0.00 0.00 2.24
2909 3016 5.396057 AGTCTGATGTACTCCTATCCAGT 57.604 43.478 0.00 0.00 0.00 4.00
2910 3017 6.653320 GTCTAGTCTGATGTACTCCTATCCAG 59.347 46.154 0.00 0.00 0.00 3.86
2911 3018 6.101296 TGTCTAGTCTGATGTACTCCTATCCA 59.899 42.308 0.00 0.00 0.00 3.41
2912 3019 6.535540 TGTCTAGTCTGATGTACTCCTATCC 58.464 44.000 0.00 0.00 0.00 2.59
2913 3020 9.158233 GTATGTCTAGTCTGATGTACTCCTATC 57.842 40.741 0.00 0.00 0.00 2.08
2914 3021 7.820386 CGTATGTCTAGTCTGATGTACTCCTAT 59.180 40.741 0.00 0.00 0.00 2.57
2915 3022 7.015001 TCGTATGTCTAGTCTGATGTACTCCTA 59.985 40.741 0.00 0.00 0.00 2.94
2916 3023 5.992829 CGTATGTCTAGTCTGATGTACTCCT 59.007 44.000 0.00 0.00 0.00 3.69
2917 3024 5.990386 TCGTATGTCTAGTCTGATGTACTCC 59.010 44.000 0.00 0.00 0.00 3.85
2918 3025 6.702723 ACTCGTATGTCTAGTCTGATGTACTC 59.297 42.308 0.00 0.00 0.00 2.59
2939 3046 0.671781 CCTCAGGTGCCAAGAACTCG 60.672 60.000 0.00 0.00 0.00 4.18
3012 3119 2.299013 AGTCACCACGCTGTAGATTCAA 59.701 45.455 0.00 0.00 0.00 2.69
3026 3133 4.401519 GTGCCTACTACTGAATAGTCACCA 59.598 45.833 0.00 0.00 43.47 4.17
3039 3146 2.667473 AATCACGGTGTGCCTACTAC 57.333 50.000 8.17 0.00 32.98 2.73
3049 3156 7.922505 TCAAAATACAAGAAAAATCACGGTG 57.077 32.000 0.56 0.56 0.00 4.94
3105 3212 2.026729 TGTACCCATTCCTGAATCGCAA 60.027 45.455 0.00 0.00 0.00 4.85
3197 3305 3.665409 CACAATTCACAGAAACATGACGC 59.335 43.478 0.00 0.00 0.00 5.19
3227 3335 1.754226 GACCCTTTGCAAAACCAGTCA 59.246 47.619 13.84 0.00 0.00 3.41
3247 3355 4.152223 TCTCATTTCACAGCACATGTTACG 59.848 41.667 0.00 0.00 41.41 3.18
3271 3379 7.179160 CACCCTGTATATCATTCCTCAGTATCA 59.821 40.741 0.00 0.00 0.00 2.15
3277 3385 3.973305 TGCACCCTGTATATCATTCCTCA 59.027 43.478 0.00 0.00 0.00 3.86
3290 3398 0.773644 ATGAAAGAGGTGCACCCTGT 59.226 50.000 32.29 22.63 46.51 4.00
3307 3415 8.552865 TCAAAATTCAAAACATTGCTCAAGATG 58.447 29.630 0.00 0.00 0.00 2.90
3312 3819 8.890718 TCAAATCAAAATTCAAAACATTGCTCA 58.109 25.926 0.00 0.00 0.00 4.26
3416 3923 3.191669 CGTTGCACCGGATTTCTGTATA 58.808 45.455 9.46 0.00 0.00 1.47
3417 3924 2.006888 CGTTGCACCGGATTTCTGTAT 58.993 47.619 9.46 0.00 0.00 2.29
3435 3942 0.250727 AATGCTTGTGGTGCTACCGT 60.251 50.000 0.00 0.00 42.58 4.83
3453 3960 2.504175 GGGGAAGTATCTAGTGCACCAA 59.496 50.000 14.63 0.54 0.00 3.67
3454 3961 2.116238 GGGGAAGTATCTAGTGCACCA 58.884 52.381 14.63 0.00 0.00 4.17
3462 3969 4.030913 CCAACAGACAGGGGAAGTATCTA 58.969 47.826 0.00 0.00 0.00 1.98
3513 4020 3.420893 TGAACATCGAAAAAGGGCATCT 58.579 40.909 0.00 0.00 0.00 2.90
3516 4023 2.857483 TCTGAACATCGAAAAAGGGCA 58.143 42.857 0.00 0.00 0.00 5.36
3517 4024 4.168760 CAATCTGAACATCGAAAAAGGGC 58.831 43.478 0.00 0.00 0.00 5.19
3518 4025 4.218417 ACCAATCTGAACATCGAAAAAGGG 59.782 41.667 0.00 0.00 0.00 3.95
3528 4035 2.440409 GACCTGCACCAATCTGAACAT 58.560 47.619 0.00 0.00 0.00 2.71
3574 4081 2.591753 CTGGCCGGATCCATGTGT 59.408 61.111 13.41 0.00 35.22 3.72
3575 4082 2.203252 CCTGGCCGGATCCATGTG 60.203 66.667 15.09 0.00 35.22 3.21
3593 4100 2.435410 TGCAGCACTCATCCGCAG 60.435 61.111 0.00 0.00 0.00 5.18
3597 4104 1.180029 ATTTGGTGCAGCACTCATCC 58.820 50.000 24.75 8.77 34.40 3.51
3618 4125 0.032403 GCTTGCAATGTTCCACTGCA 59.968 50.000 0.00 0.00 44.04 4.41
3629 4136 3.192844 CACTTCATCCTTCTGCTTGCAAT 59.807 43.478 0.00 0.00 0.00 3.56
3660 4167 0.324738 TCGCCTCTTCCTCCATCAGT 60.325 55.000 0.00 0.00 0.00 3.41
3682 4189 0.179084 CCTACCATCCATGCGTCGTT 60.179 55.000 0.00 0.00 0.00 3.85
3697 4204 1.002684 CAGATCCTGTACGTCGCCTAC 60.003 57.143 0.00 0.00 0.00 3.18
3752 4294 3.323691 ACCCTCACAAACAATTTTAGCCC 59.676 43.478 0.00 0.00 0.00 5.19
3755 4297 9.191995 GTTTATGACCCTCACAAACAATTTTAG 57.808 33.333 2.04 0.00 41.83 1.85
3766 4309 5.690865 AGAAACTTGTTTATGACCCTCACA 58.309 37.500 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.