Multiple sequence alignment - TraesCS4A01G289100

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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 TraesCS4A01G289100 chr4A 100.000 2948 0 0 1 2948 593731899 593734846 0.000000e+00 5445.0
1 TraesCS4A01G289100 chr4A 98.067 1811 15 6 401 2195 593672315 593670509 0.000000e+00 3133.0
2 TraesCS4A01G289100 chr4A 91.961 311 20 4 1994 2301 593682469 593682161 5.840000e-117 431.0
3 TraesCS4A01G289100 chr4A 81.980 394 40 14 2303 2666 593682114 593681722 3.690000e-79 305.0
4 TraesCS4A01G289100 chr4B 90.492 1462 104 15 843 2301 19038776 19040205 0.000000e+00 1897.0
5 TraesCS4A01G289100 chr4B 96.560 407 13 1 1 406 19152680 19153086 0.000000e+00 673.0
6 TraesCS4A01G289100 chr4B 95.813 406 17 0 1 406 19003808 19003403 0.000000e+00 656.0
7 TraesCS4A01G289100 chr4B 85.222 406 29 5 2297 2677 19040245 19040644 3.560000e-104 388.0
8 TraesCS4A01G289100 chr4B 88.782 312 29 4 1883 2193 18794507 18794813 7.710000e-101 377.0
9 TraesCS4A01G289100 chr4B 88.083 193 13 1 646 828 19036768 19036960 1.380000e-53 220.0
10 TraesCS4A01G289100 chr4B 85.882 170 19 5 843 1010 19154489 19154655 3.020000e-40 176.0
11 TraesCS4A01G289100 chr4B 84.091 176 25 3 843 1017 19002161 19001988 1.820000e-37 167.0
12 TraesCS4A01G289100 chr4B 86.164 159 17 5 843 999 19008598 19008753 1.820000e-37 167.0
13 TraesCS4A01G289100 chr4B 82.653 196 18 5 663 848 19153958 19154147 3.040000e-35 159.0
14 TraesCS4A01G289100 chr4B 81.726 197 20 9 662 848 19008060 19008250 1.830000e-32 150.0
15 TraesCS4A01G289100 chr4D 92.413 1318 85 9 843 2160 9592508 9593810 0.000000e+00 1866.0
16 TraesCS4A01G289100 chr4D 92.042 1131 66 11 1095 2222 9604324 9605433 0.000000e+00 1568.0
17 TraesCS4A01G289100 chr4D 91.542 402 13 6 461 848 9591763 9592157 4.320000e-148 534.0
18 TraesCS4A01G289100 chr4D 86.585 410 45 7 1 406 10012166 10011763 7.500000e-121 444.0
19 TraesCS4A01G289100 chr4D 91.250 80 1 2 411 484 9602583 9602662 1.450000e-18 104.0
20 TraesCS4A01G289100 chrUn 94.682 865 44 1 1296 2160 337109811 337110673 0.000000e+00 1341.0
21 TraesCS4A01G289100 chrUn 93.393 333 9 1 74 406 151467369 151467688 5.710000e-132 481.0
22 TraesCS4A01G289100 chrUn 92.814 334 10 2 74 406 52366811 52367131 3.440000e-129 472.0
23 TraesCS4A01G289100 chrUn 84.576 389 34 7 2303 2666 330519926 330519539 2.160000e-96 363.0
24 TraesCS4A01G289100 chrUn 92.411 224 13 3 2080 2301 330520194 330519973 1.710000e-82 316.0
25 TraesCS4A01G289100 chrUn 88.235 204 16 5 646 849 401154923 401155118 1.370000e-58 237.0
26 TraesCS4A01G289100 chrUn 97.015 134 4 0 273 406 406596589 406596722 2.960000e-55 226.0
27 TraesCS4A01G289100 chrUn 88.506 174 12 5 676 849 387525781 387525946 1.390000e-48 204.0
28 TraesCS4A01G289100 chrUn 83.523 176 26 3 843 1017 151469120 151469293 8.460000e-36 161.0
29 TraesCS4A01G289100 chrUn 83.523 176 26 3 843 1017 381924603 381924430 8.460000e-36 161.0
30 TraesCS4A01G289100 chrUn 84.024 169 24 3 843 1010 52368561 52368727 3.040000e-35 159.0
31 TraesCS4A01G289100 chrUn 82.540 189 17 6 670 848 52368031 52368213 5.090000e-33 152.0
32 TraesCS4A01G289100 chrUn 82.540 189 17 7 670 848 151468590 151468772 5.090000e-33 152.0
33 TraesCS4A01G289100 chrUn 91.250 80 1 2 411 484 342610965 342610886 1.450000e-18 104.0
34 TraesCS4A01G289100 chr7D 95.556 45 1 1 1765 1809 593643352 593643395 1.470000e-08 71.3


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 TraesCS4A01G289100 chr4A 593731899 593734846 2947 False 5445.000000 5445 100.000000 1 2948 1 chr4A.!!$F1 2947
1 TraesCS4A01G289100 chr4A 593670509 593672315 1806 True 3133.000000 3133 98.067000 401 2195 1 chr4A.!!$R1 1794
2 TraesCS4A01G289100 chr4A 593681722 593682469 747 True 368.000000 431 86.970500 1994 2666 2 chr4A.!!$R2 672
3 TraesCS4A01G289100 chr4B 19036768 19040644 3876 False 835.000000 1897 87.932333 646 2677 3 chr4B.!!$F3 2031
4 TraesCS4A01G289100 chr4B 19001988 19003808 1820 True 411.500000 656 89.952000 1 1017 2 chr4B.!!$R1 1016
5 TraesCS4A01G289100 chr4B 19152680 19154655 1975 False 336.000000 673 88.365000 1 1010 3 chr4B.!!$F4 1009
6 TraesCS4A01G289100 chr4D 9591763 9593810 2047 False 1200.000000 1866 91.977500 461 2160 2 chr4D.!!$F1 1699
7 TraesCS4A01G289100 chr4D 9602583 9605433 2850 False 836.000000 1568 91.646000 411 2222 2 chr4D.!!$F2 1811
8 TraesCS4A01G289100 chrUn 337109811 337110673 862 False 1341.000000 1341 94.682000 1296 2160 1 chrUn.!!$F1 864
9 TraesCS4A01G289100 chrUn 330519539 330520194 655 True 339.500000 363 88.493500 2080 2666 2 chrUn.!!$R3 586
10 TraesCS4A01G289100 chrUn 151467369 151469293 1924 False 264.666667 481 86.485333 74 1017 3 chrUn.!!$F6 943
11 TraesCS4A01G289100 chrUn 52366811 52368727 1916 False 261.000000 472 86.459333 74 1010 3 chrUn.!!$F5 936

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
78 80 1.108776 TGTAGACCCGCGCTAAATCT 58.891 50.000 5.56 5.7 0.0 2.40 F
960 3465 1.542915 GCTGTTACACCGTCTACTGGA 59.457 52.381 0.00 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1179 3686 9.185192 CTTAAGCAAGTTTGATTTAGGACAAAG 57.815 33.333 0.33 0.0 37.94 2.77 R
2925 5573 0.105039 GCCAATCCTAGAGGTGACCG 59.895 60.000 0.00 0.0 36.34 4.79 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
48 50 2.310233 CGTCGACACACCTGCCAAG 61.310 63.158 17.16 0.00 0.00 3.61
78 80 1.108776 TGTAGACCCGCGCTAAATCT 58.891 50.000 5.56 5.70 0.00 2.40
177 179 7.324856 GCATCTATAGCGTGCATATATACACTC 59.675 40.741 19.07 6.29 38.68 3.51
290 293 4.782691 TCCAATAGGATCTCAGTTCCACAA 59.217 41.667 4.52 0.00 39.61 3.33
310 313 6.444633 CACAAGTTTGCTCATGAGAAAATCT 58.555 36.000 27.86 22.39 38.18 2.40
384 387 2.169352 GCGACCTGATATATGGGCAGAT 59.831 50.000 0.00 0.00 0.00 2.90
960 3465 1.542915 GCTGTTACACCGTCTACTGGA 59.457 52.381 0.00 0.00 0.00 3.86
2071 4593 6.777580 TCCCATCCTATTTTTATTTCCTCTGC 59.222 38.462 0.00 0.00 0.00 4.26
2078 4600 8.902806 CCTATTTTTATTTCCTCTGCATGTGTA 58.097 33.333 0.00 0.00 0.00 2.90
2088 4610 5.827797 TCCTCTGCATGTGTACTTTTCTTTT 59.172 36.000 0.00 0.00 0.00 2.27
2089 4611 5.916883 CCTCTGCATGTGTACTTTTCTTTTG 59.083 40.000 0.00 0.00 0.00 2.44
2168 4696 1.951602 TGATGGATGTGCTATGCTTGC 59.048 47.619 0.00 0.00 0.00 4.01
2206 4734 7.255942 CCAAAGGAACAATGAGTTATGAAAGGT 60.256 37.037 0.00 0.00 41.51 3.50
2250 4779 9.747293 TGTATCGACGGAATATTTGTTTACATA 57.253 29.630 0.00 0.00 0.00 2.29
2344 4962 1.019278 TCGGGCAAAAGCTCGTGATC 61.019 55.000 9.71 0.00 34.94 2.92
2348 4967 0.790207 GCAAAAGCTCGTGATCGTGA 59.210 50.000 0.88 0.00 38.33 4.35
2389 5008 7.016153 AGTTCAAGAATTACTCCATGGTGTA 57.984 36.000 20.22 20.22 0.00 2.90
2393 5012 7.458397 TCAAGAATTACTCCATGGTGTAGTTT 58.542 34.615 26.08 21.60 28.97 2.66
2415 5034 3.650942 TGGTTGTGTTGTCCTTCTCCTAT 59.349 43.478 0.00 0.00 0.00 2.57
2445 5064 3.132646 TGGTTTGCCCTTGATGAATATGC 59.867 43.478 0.00 0.00 0.00 3.14
2488 5107 2.491675 AGGTTTGTAGCAGTTAGGCC 57.508 50.000 0.00 0.00 0.00 5.19
2504 5124 2.602676 GCCCCCTCACTAGGTTGCA 61.603 63.158 0.00 0.00 41.89 4.08
2553 5177 5.244755 GCAAAAGCTTTGGATTTAATGGGA 58.755 37.500 18.12 0.00 30.35 4.37
2588 5236 2.196595 CCCTCCTTGGAGTCATTACCA 58.803 52.381 14.77 0.00 38.35 3.25
2591 5239 4.508405 CCCTCCTTGGAGTCATTACCAAAA 60.508 45.833 14.77 0.00 44.03 2.44
2669 5317 3.691342 GGCAGGGCCGGTTTTTCC 61.691 66.667 1.90 0.00 39.62 3.13
2677 5325 0.596577 GCCGGTTTTTCCTGAGGTTC 59.403 55.000 1.90 0.00 0.00 3.62
2678 5326 0.872388 CCGGTTTTTCCTGAGGTTCG 59.128 55.000 0.00 0.00 0.00 3.95
2679 5327 0.872388 CGGTTTTTCCTGAGGTTCGG 59.128 55.000 0.00 0.00 0.00 4.30
2680 5328 1.812708 CGGTTTTTCCTGAGGTTCGGT 60.813 52.381 0.00 0.00 0.00 4.69
2681 5329 1.607148 GGTTTTTCCTGAGGTTCGGTG 59.393 52.381 0.00 0.00 0.00 4.94
2682 5330 1.607148 GTTTTTCCTGAGGTTCGGTGG 59.393 52.381 0.00 0.00 0.00 4.61
2683 5331 0.109723 TTTTCCTGAGGTTCGGTGGG 59.890 55.000 0.00 0.00 0.00 4.61
2684 5332 1.774894 TTTCCTGAGGTTCGGTGGGG 61.775 60.000 0.00 0.00 0.00 4.96
2685 5333 2.928396 CCTGAGGTTCGGTGGGGT 60.928 66.667 0.00 0.00 0.00 4.95
2686 5334 2.347490 CTGAGGTTCGGTGGGGTG 59.653 66.667 0.00 0.00 0.00 4.61
2687 5335 3.246112 TGAGGTTCGGTGGGGTGG 61.246 66.667 0.00 0.00 0.00 4.61
2688 5336 3.246880 GAGGTTCGGTGGGGTGGT 61.247 66.667 0.00 0.00 0.00 4.16
2689 5337 3.246880 AGGTTCGGTGGGGTGGTC 61.247 66.667 0.00 0.00 0.00 4.02
2690 5338 3.562232 GGTTCGGTGGGGTGGTCA 61.562 66.667 0.00 0.00 0.00 4.02
2691 5339 2.754375 GTTCGGTGGGGTGGTCAT 59.246 61.111 0.00 0.00 0.00 3.06
2692 5340 1.674322 GTTCGGTGGGGTGGTCATG 60.674 63.158 0.00 0.00 0.00 3.07
2693 5341 2.150719 TTCGGTGGGGTGGTCATGT 61.151 57.895 0.00 0.00 0.00 3.21
2694 5342 2.359850 CGGTGGGGTGGTCATGTG 60.360 66.667 0.00 0.00 0.00 3.21
2695 5343 2.676471 GGTGGGGTGGTCATGTGC 60.676 66.667 0.00 0.00 0.00 4.57
2696 5344 2.436109 GTGGGGTGGTCATGTGCT 59.564 61.111 0.00 0.00 0.00 4.40
2697 5345 1.973281 GTGGGGTGGTCATGTGCTG 60.973 63.158 0.00 0.00 0.00 4.41
2698 5346 2.361610 GGGGTGGTCATGTGCTGG 60.362 66.667 0.00 0.00 0.00 4.85
2699 5347 2.436109 GGGTGGTCATGTGCTGGT 59.564 61.111 0.00 0.00 0.00 4.00
2700 5348 1.228552 GGGTGGTCATGTGCTGGTT 60.229 57.895 0.00 0.00 0.00 3.67
2701 5349 1.526575 GGGTGGTCATGTGCTGGTTG 61.527 60.000 0.00 0.00 0.00 3.77
2702 5350 1.526575 GGTGGTCATGTGCTGGTTGG 61.527 60.000 0.00 0.00 0.00 3.77
2703 5351 1.228521 TGGTCATGTGCTGGTTGGG 60.229 57.895 0.00 0.00 0.00 4.12
2704 5352 2.639327 GGTCATGTGCTGGTTGGGC 61.639 63.158 0.00 0.00 0.00 5.36
2705 5353 1.902918 GTCATGTGCTGGTTGGGCA 60.903 57.895 0.00 0.00 37.36 5.36
2706 5354 1.152589 TCATGTGCTGGTTGGGCAA 60.153 52.632 0.00 0.00 41.54 4.52
2707 5355 0.758310 TCATGTGCTGGTTGGGCAAA 60.758 50.000 0.00 0.00 41.54 3.68
2708 5356 0.106335 CATGTGCTGGTTGGGCAAAA 59.894 50.000 0.00 0.00 41.54 2.44
2709 5357 0.393820 ATGTGCTGGTTGGGCAAAAG 59.606 50.000 0.00 0.00 41.54 2.27
2710 5358 0.685785 TGTGCTGGTTGGGCAAAAGA 60.686 50.000 0.00 0.00 41.54 2.52
2711 5359 0.681175 GTGCTGGTTGGGCAAAAGAT 59.319 50.000 0.00 0.00 41.54 2.40
2712 5360 1.070601 GTGCTGGTTGGGCAAAAGATT 59.929 47.619 0.00 0.00 41.54 2.40
2713 5361 1.767681 TGCTGGTTGGGCAAAAGATTT 59.232 42.857 0.00 0.00 36.71 2.17
2714 5362 2.224257 TGCTGGTTGGGCAAAAGATTTC 60.224 45.455 0.00 0.00 36.71 2.17
2715 5363 2.037641 GCTGGTTGGGCAAAAGATTTCT 59.962 45.455 0.00 0.00 0.00 2.52
2716 5364 3.656559 CTGGTTGGGCAAAAGATTTCTG 58.343 45.455 0.00 0.00 0.00 3.02
2717 5365 2.368221 TGGTTGGGCAAAAGATTTCTGG 59.632 45.455 0.00 0.00 0.00 3.86
2718 5366 2.368548 GGTTGGGCAAAAGATTTCTGGT 59.631 45.455 0.00 0.00 0.00 4.00
2719 5367 3.576550 GGTTGGGCAAAAGATTTCTGGTA 59.423 43.478 0.00 0.00 0.00 3.25
2720 5368 4.321974 GGTTGGGCAAAAGATTTCTGGTAG 60.322 45.833 0.00 0.00 0.00 3.18
2721 5369 4.380843 TGGGCAAAAGATTTCTGGTAGA 57.619 40.909 0.00 0.00 0.00 2.59
2722 5370 4.079253 TGGGCAAAAGATTTCTGGTAGAC 58.921 43.478 0.00 0.00 0.00 2.59
2723 5371 3.127030 GGGCAAAAGATTTCTGGTAGACG 59.873 47.826 0.00 0.00 0.00 4.18
2724 5372 3.751698 GGCAAAAGATTTCTGGTAGACGT 59.248 43.478 0.00 0.00 0.00 4.34
2725 5373 4.215613 GGCAAAAGATTTCTGGTAGACGTT 59.784 41.667 0.00 0.00 0.00 3.99
2726 5374 5.147162 GCAAAAGATTTCTGGTAGACGTTG 58.853 41.667 0.00 0.00 0.00 4.10
2727 5375 5.689819 CAAAAGATTTCTGGTAGACGTTGG 58.310 41.667 0.00 0.00 0.00 3.77
2728 5376 4.618920 AAGATTTCTGGTAGACGTTGGT 57.381 40.909 0.00 0.00 0.00 3.67
2729 5377 4.189639 AGATTTCTGGTAGACGTTGGTC 57.810 45.455 0.00 0.00 43.76 4.02
2740 5388 3.146618 GACGTTGGTCGATGATAGTGT 57.853 47.619 0.00 0.00 42.86 3.55
2741 5389 4.282950 GACGTTGGTCGATGATAGTGTA 57.717 45.455 0.00 0.00 42.86 2.90
2742 5390 4.025015 ACGTTGGTCGATGATAGTGTAC 57.975 45.455 0.00 0.00 42.86 2.90
2743 5391 3.693085 ACGTTGGTCGATGATAGTGTACT 59.307 43.478 0.00 0.00 42.86 2.73
2744 5392 4.157289 ACGTTGGTCGATGATAGTGTACTT 59.843 41.667 0.00 0.00 42.86 2.24
2745 5393 4.499399 CGTTGGTCGATGATAGTGTACTTG 59.501 45.833 0.00 0.00 42.86 3.16
2746 5394 4.649088 TGGTCGATGATAGTGTACTTGG 57.351 45.455 0.00 0.00 0.00 3.61
2747 5395 3.383505 TGGTCGATGATAGTGTACTTGGG 59.616 47.826 0.00 0.00 0.00 4.12
2748 5396 3.381949 GTCGATGATAGTGTACTTGGGC 58.618 50.000 0.00 0.00 0.00 5.36
2749 5397 3.028130 TCGATGATAGTGTACTTGGGCA 58.972 45.455 0.00 0.00 0.00 5.36
2750 5398 3.641436 TCGATGATAGTGTACTTGGGCAT 59.359 43.478 0.00 0.00 0.00 4.40
2751 5399 3.990469 CGATGATAGTGTACTTGGGCATC 59.010 47.826 0.00 0.00 0.00 3.91
2752 5400 3.452755 TGATAGTGTACTTGGGCATCG 57.547 47.619 0.00 0.00 0.00 3.84
2753 5401 2.764010 TGATAGTGTACTTGGGCATCGT 59.236 45.455 0.00 0.00 0.00 3.73
2754 5402 3.196901 TGATAGTGTACTTGGGCATCGTT 59.803 43.478 0.00 0.00 0.00 3.85
2755 5403 2.561478 AGTGTACTTGGGCATCGTTT 57.439 45.000 0.00 0.00 0.00 3.60
2756 5404 2.858745 AGTGTACTTGGGCATCGTTTT 58.141 42.857 0.00 0.00 0.00 2.43
2757 5405 2.812011 AGTGTACTTGGGCATCGTTTTC 59.188 45.455 0.00 0.00 0.00 2.29
2758 5406 2.095415 GTGTACTTGGGCATCGTTTTCC 60.095 50.000 0.00 0.00 0.00 3.13
2759 5407 2.224670 TGTACTTGGGCATCGTTTTCCT 60.225 45.455 0.00 0.00 0.00 3.36
2760 5408 1.995376 ACTTGGGCATCGTTTTCCTT 58.005 45.000 0.00 0.00 0.00 3.36
2761 5409 1.886542 ACTTGGGCATCGTTTTCCTTC 59.113 47.619 0.00 0.00 0.00 3.46
2762 5410 2.162681 CTTGGGCATCGTTTTCCTTCT 58.837 47.619 0.00 0.00 0.00 2.85
2763 5411 2.286365 TGGGCATCGTTTTCCTTCTT 57.714 45.000 0.00 0.00 0.00 2.52
2764 5412 1.885887 TGGGCATCGTTTTCCTTCTTG 59.114 47.619 0.00 0.00 0.00 3.02
2765 5413 1.202348 GGGCATCGTTTTCCTTCTTGG 59.798 52.381 0.00 0.00 37.10 3.61
2766 5414 2.159382 GGCATCGTTTTCCTTCTTGGA 58.841 47.619 0.00 0.00 44.51 3.53
2775 5423 1.892209 TCCTTCTTGGAGGCGTTTTC 58.108 50.000 0.00 0.00 40.56 2.29
2776 5424 0.517316 CCTTCTTGGAGGCGTTTTCG 59.483 55.000 0.00 0.00 41.84 3.46
2777 5425 1.876416 CCTTCTTGGAGGCGTTTTCGA 60.876 52.381 0.00 0.00 41.60 3.71
2778 5426 3.383272 CCTTCTTGGAGGCGTTTTCGAA 61.383 50.000 0.00 0.00 41.60 3.71
2779 5427 5.196156 CCTTCTTGGAGGCGTTTTCGAAG 62.196 52.174 0.00 0.00 41.60 3.79
2789 5437 1.963172 GTTTTCGAAGGGAGGTGTGT 58.037 50.000 0.00 0.00 0.00 3.72
2790 5438 2.294979 GTTTTCGAAGGGAGGTGTGTT 58.705 47.619 0.00 0.00 0.00 3.32
2791 5439 3.469739 GTTTTCGAAGGGAGGTGTGTTA 58.530 45.455 0.00 0.00 0.00 2.41
2792 5440 3.396260 TTTCGAAGGGAGGTGTGTTAG 57.604 47.619 0.00 0.00 0.00 2.34
2793 5441 1.263356 TCGAAGGGAGGTGTGTTAGG 58.737 55.000 0.00 0.00 0.00 2.69
2794 5442 0.974383 CGAAGGGAGGTGTGTTAGGT 59.026 55.000 0.00 0.00 0.00 3.08
2795 5443 2.173519 CGAAGGGAGGTGTGTTAGGTA 58.826 52.381 0.00 0.00 0.00 3.08
2796 5444 2.165845 CGAAGGGAGGTGTGTTAGGTAG 59.834 54.545 0.00 0.00 0.00 3.18
2797 5445 2.249309 AGGGAGGTGTGTTAGGTAGG 57.751 55.000 0.00 0.00 0.00 3.18
2798 5446 1.435959 AGGGAGGTGTGTTAGGTAGGT 59.564 52.381 0.00 0.00 0.00 3.08
2799 5447 2.158050 AGGGAGGTGTGTTAGGTAGGTT 60.158 50.000 0.00 0.00 0.00 3.50
2800 5448 3.078000 AGGGAGGTGTGTTAGGTAGGTTA 59.922 47.826 0.00 0.00 0.00 2.85
2801 5449 4.035814 GGGAGGTGTGTTAGGTAGGTTAT 58.964 47.826 0.00 0.00 0.00 1.89
2802 5450 4.141779 GGGAGGTGTGTTAGGTAGGTTATG 60.142 50.000 0.00 0.00 0.00 1.90
2803 5451 4.468868 GGAGGTGTGTTAGGTAGGTTATGT 59.531 45.833 0.00 0.00 0.00 2.29
2804 5452 5.416271 AGGTGTGTTAGGTAGGTTATGTG 57.584 43.478 0.00 0.00 0.00 3.21
2805 5453 4.842380 AGGTGTGTTAGGTAGGTTATGTGT 59.158 41.667 0.00 0.00 0.00 3.72
2806 5454 5.308759 AGGTGTGTTAGGTAGGTTATGTGTT 59.691 40.000 0.00 0.00 0.00 3.32
2807 5455 5.999600 GGTGTGTTAGGTAGGTTATGTGTTT 59.000 40.000 0.00 0.00 0.00 2.83
2808 5456 6.487668 GGTGTGTTAGGTAGGTTATGTGTTTT 59.512 38.462 0.00 0.00 0.00 2.43
2809 5457 7.013559 GGTGTGTTAGGTAGGTTATGTGTTTTT 59.986 37.037 0.00 0.00 0.00 1.94
2810 5458 7.858879 GTGTGTTAGGTAGGTTATGTGTTTTTG 59.141 37.037 0.00 0.00 0.00 2.44
2811 5459 7.556996 TGTGTTAGGTAGGTTATGTGTTTTTGT 59.443 33.333 0.00 0.00 0.00 2.83
2812 5460 8.407832 GTGTTAGGTAGGTTATGTGTTTTTGTT 58.592 33.333 0.00 0.00 0.00 2.83
2813 5461 8.968969 TGTTAGGTAGGTTATGTGTTTTTGTTT 58.031 29.630 0.00 0.00 0.00 2.83
2814 5462 9.806203 GTTAGGTAGGTTATGTGTTTTTGTTTT 57.194 29.630 0.00 0.00 0.00 2.43
2816 5464 8.710835 AGGTAGGTTATGTGTTTTTGTTTTTG 57.289 30.769 0.00 0.00 0.00 2.44
2817 5465 8.315482 AGGTAGGTTATGTGTTTTTGTTTTTGT 58.685 29.630 0.00 0.00 0.00 2.83
2818 5466 8.937884 GGTAGGTTATGTGTTTTTGTTTTTGTT 58.062 29.630 0.00 0.00 0.00 2.83
2873 5521 9.699703 TTTTTGCTTGTACCTATTTCCATTAAC 57.300 29.630 0.00 0.00 0.00 2.01
2874 5522 8.644374 TTTGCTTGTACCTATTTCCATTAACT 57.356 30.769 0.00 0.00 0.00 2.24
2875 5523 8.644374 TTGCTTGTACCTATTTCCATTAACTT 57.356 30.769 0.00 0.00 0.00 2.66
2876 5524 8.644374 TGCTTGTACCTATTTCCATTAACTTT 57.356 30.769 0.00 0.00 0.00 2.66
2877 5525 8.736244 TGCTTGTACCTATTTCCATTAACTTTC 58.264 33.333 0.00 0.00 0.00 2.62
2878 5526 8.736244 GCTTGTACCTATTTCCATTAACTTTCA 58.264 33.333 0.00 0.00 0.00 2.69
2911 5559 8.581253 ACTTCCATAAAGAAAGTAGAATTGGG 57.419 34.615 0.00 0.00 38.44 4.12
2912 5560 7.122799 ACTTCCATAAAGAAAGTAGAATTGGGC 59.877 37.037 0.00 0.00 38.44 5.36
2913 5561 5.891551 TCCATAAAGAAAGTAGAATTGGGCC 59.108 40.000 0.00 0.00 0.00 5.80
2914 5562 5.069119 CCATAAAGAAAGTAGAATTGGGCCC 59.931 44.000 17.59 17.59 0.00 5.80
2915 5563 4.404185 AAAGAAAGTAGAATTGGGCCCT 57.596 40.909 25.70 1.15 0.00 5.19
2916 5564 3.653835 AGAAAGTAGAATTGGGCCCTC 57.346 47.619 25.70 12.95 0.00 4.30
2917 5565 2.919602 AGAAAGTAGAATTGGGCCCTCA 59.080 45.455 25.70 10.47 0.00 3.86
2918 5566 3.333680 AGAAAGTAGAATTGGGCCCTCAA 59.666 43.478 25.70 10.72 0.00 3.02
2919 5567 2.808906 AGTAGAATTGGGCCCTCAAC 57.191 50.000 25.70 12.24 0.00 3.18
2920 5568 2.279173 AGTAGAATTGGGCCCTCAACT 58.721 47.619 25.70 18.70 0.00 3.16
2921 5569 3.460825 AGTAGAATTGGGCCCTCAACTA 58.539 45.455 25.70 17.68 0.00 2.24
2922 5570 2.808906 AGAATTGGGCCCTCAACTAC 57.191 50.000 25.70 7.98 0.00 2.73
2923 5571 1.992557 AGAATTGGGCCCTCAACTACA 59.007 47.619 25.70 0.00 0.00 2.74
2924 5572 2.582636 AGAATTGGGCCCTCAACTACAT 59.417 45.455 25.70 0.00 0.00 2.29
2925 5573 2.736670 ATTGGGCCCTCAACTACATC 57.263 50.000 25.70 0.00 0.00 3.06
2926 5574 0.251916 TTGGGCCCTCAACTACATCG 59.748 55.000 25.70 0.00 0.00 3.84
2927 5575 1.146263 GGGCCCTCAACTACATCGG 59.854 63.158 17.04 0.00 0.00 4.18
2928 5576 1.623542 GGGCCCTCAACTACATCGGT 61.624 60.000 17.04 0.00 0.00 4.69
2929 5577 0.179081 GGCCCTCAACTACATCGGTC 60.179 60.000 0.00 0.00 0.00 4.79
2930 5578 0.535335 GCCCTCAACTACATCGGTCA 59.465 55.000 0.00 0.00 0.00 4.02
2931 5579 1.739371 GCCCTCAACTACATCGGTCAC 60.739 57.143 0.00 0.00 0.00 3.67
2932 5580 1.134788 CCCTCAACTACATCGGTCACC 60.135 57.143 0.00 0.00 0.00 4.02
2933 5581 1.825474 CCTCAACTACATCGGTCACCT 59.175 52.381 0.00 0.00 0.00 4.00
2934 5582 2.159226 CCTCAACTACATCGGTCACCTC 60.159 54.545 0.00 0.00 0.00 3.85
2935 5583 2.755655 CTCAACTACATCGGTCACCTCT 59.244 50.000 0.00 0.00 0.00 3.69
2936 5584 3.945921 CTCAACTACATCGGTCACCTCTA 59.054 47.826 0.00 0.00 0.00 2.43
2937 5585 3.945921 TCAACTACATCGGTCACCTCTAG 59.054 47.826 0.00 0.00 0.00 2.43
2938 5586 2.933573 ACTACATCGGTCACCTCTAGG 58.066 52.381 0.00 0.00 42.17 3.02
2939 5587 2.508716 ACTACATCGGTCACCTCTAGGA 59.491 50.000 2.23 0.00 38.94 2.94
2940 5588 2.757894 ACATCGGTCACCTCTAGGAT 57.242 50.000 2.23 0.00 38.94 3.24
2941 5589 3.033659 ACATCGGTCACCTCTAGGATT 57.966 47.619 2.23 0.00 38.94 3.01
2942 5590 2.695666 ACATCGGTCACCTCTAGGATTG 59.304 50.000 2.23 0.00 38.94 2.67
2943 5591 1.776662 TCGGTCACCTCTAGGATTGG 58.223 55.000 2.23 0.00 38.94 3.16
2944 5592 0.105039 CGGTCACCTCTAGGATTGGC 59.895 60.000 2.23 0.00 38.94 4.52
2945 5593 0.470341 GGTCACCTCTAGGATTGGCC 59.530 60.000 2.23 0.00 38.94 5.36
2946 5594 1.204146 GTCACCTCTAGGATTGGCCA 58.796 55.000 0.00 0.00 40.02 5.36
2947 5595 1.134371 GTCACCTCTAGGATTGGCCAC 60.134 57.143 3.88 0.00 40.02 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 50 2.081462 CGGGTCTACATTTGGTGTTCC 58.919 52.381 0.00 0.00 42.29 3.62
78 80 3.307480 GCTTCTTAGGTAGGTGAAAGCCA 60.307 47.826 0.00 0.00 32.25 4.75
177 179 6.802348 CGTCTATATTCGGTTCATTGTCTAGG 59.198 42.308 0.00 0.00 0.00 3.02
281 284 3.554934 TCATGAGCAAACTTGTGGAACT 58.445 40.909 0.00 0.00 38.04 3.01
384 387 1.737838 CGCCTGACTGCTAAAATGGA 58.262 50.000 0.00 0.00 0.00 3.41
541 1212 1.688772 TGCTCGGGGACTCTATACAC 58.311 55.000 0.00 0.00 0.00 2.90
960 3465 1.885887 TGCACATAAAGCGCTCCTTTT 59.114 42.857 12.06 3.28 40.85 2.27
1179 3686 9.185192 CTTAAGCAAGTTTGATTTAGGACAAAG 57.815 33.333 0.33 0.00 37.94 2.77
2071 4593 9.729023 TTCATACACAAAAGAAAAGTACACATG 57.271 29.630 0.00 0.00 0.00 3.21
2078 4600 6.756542 GCACCTTTCATACACAAAAGAAAAGT 59.243 34.615 0.00 0.00 35.02 2.66
2088 4610 7.087409 CATTCTAATGCACCTTTCATACACA 57.913 36.000 0.00 0.00 0.00 3.72
2206 4734 2.912771 ACAAACAACACATCAGTCGGA 58.087 42.857 0.00 0.00 0.00 4.55
2250 4779 4.959596 TTGTCGCGACTTAGAGATTAGT 57.040 40.909 36.27 0.00 0.00 2.24
2301 4919 1.352017 AGGCACTGGTGATGTTGATGA 59.648 47.619 4.79 0.00 37.18 2.92
2334 4952 1.679305 ACCCTCACGATCACGAGCT 60.679 57.895 0.00 0.00 42.66 4.09
2344 4962 3.612681 ACCGACACCACCCTCACG 61.613 66.667 0.00 0.00 0.00 4.35
2348 4967 0.761702 ACTAACACCGACACCACCCT 60.762 55.000 0.00 0.00 0.00 4.34
2389 5008 3.694566 GAGAAGGACAACACAACCAAACT 59.305 43.478 0.00 0.00 0.00 2.66
2393 5012 1.843851 AGGAGAAGGACAACACAACCA 59.156 47.619 0.00 0.00 0.00 3.67
2415 5034 1.112315 AAGGGCAAACCACGCAATCA 61.112 50.000 0.00 0.00 43.89 2.57
2461 5080 6.879458 CCTAACTGCTACAAACCTACAAGATT 59.121 38.462 0.00 0.00 0.00 2.40
2504 5124 1.065126 GCCTCATACCTCTGCACCTTT 60.065 52.381 0.00 0.00 0.00 3.11
2553 5177 3.525862 AGGAGGGAGAAGAACAATGACT 58.474 45.455 0.00 0.00 0.00 3.41
2580 5228 6.843752 TGAGGGAAGTACTTTTTGGTAATGA 58.156 36.000 10.02 0.00 0.00 2.57
2588 5236 6.940867 GTCCAGTAATGAGGGAAGTACTTTTT 59.059 38.462 10.02 0.00 31.32 1.94
2591 5239 4.470304 GGTCCAGTAATGAGGGAAGTACTT 59.530 45.833 8.13 8.13 31.32 2.24
2661 5309 1.607148 CACCGAACCTCAGGAAAAACC 59.393 52.381 0.00 0.00 39.35 3.27
2669 5317 2.347490 CACCCCACCGAACCTCAG 59.653 66.667 0.00 0.00 0.00 3.35
2677 5325 2.359850 CACATGACCACCCCACCG 60.360 66.667 0.00 0.00 0.00 4.94
2678 5326 2.676471 GCACATGACCACCCCACC 60.676 66.667 0.00 0.00 0.00 4.61
2679 5327 1.973281 CAGCACATGACCACCCCAC 60.973 63.158 0.00 0.00 0.00 4.61
2680 5328 2.435663 CAGCACATGACCACCCCA 59.564 61.111 0.00 0.00 0.00 4.96
2681 5329 2.361610 CCAGCACATGACCACCCC 60.362 66.667 0.00 0.00 0.00 4.95
2682 5330 1.228552 AACCAGCACATGACCACCC 60.229 57.895 0.00 0.00 0.00 4.61
2683 5331 1.526575 CCAACCAGCACATGACCACC 61.527 60.000 0.00 0.00 0.00 4.61
2684 5332 1.526575 CCCAACCAGCACATGACCAC 61.527 60.000 0.00 0.00 0.00 4.16
2685 5333 1.228521 CCCAACCAGCACATGACCA 60.229 57.895 0.00 0.00 0.00 4.02
2686 5334 2.639327 GCCCAACCAGCACATGACC 61.639 63.158 0.00 0.00 0.00 4.02
2687 5335 1.462731 TTGCCCAACCAGCACATGAC 61.463 55.000 0.00 0.00 40.69 3.06
2688 5336 0.758310 TTTGCCCAACCAGCACATGA 60.758 50.000 0.00 0.00 40.69 3.07
2689 5337 0.106335 TTTTGCCCAACCAGCACATG 59.894 50.000 0.00 0.00 40.69 3.21
2690 5338 0.393820 CTTTTGCCCAACCAGCACAT 59.606 50.000 0.00 0.00 40.69 3.21
2691 5339 0.685785 TCTTTTGCCCAACCAGCACA 60.686 50.000 0.00 0.00 40.69 4.57
2692 5340 0.681175 ATCTTTTGCCCAACCAGCAC 59.319 50.000 0.00 0.00 40.69 4.40
2693 5341 1.422531 AATCTTTTGCCCAACCAGCA 58.577 45.000 0.00 0.00 38.81 4.41
2694 5342 2.037641 AGAAATCTTTTGCCCAACCAGC 59.962 45.455 0.00 0.00 0.00 4.85
2695 5343 3.555586 CCAGAAATCTTTTGCCCAACCAG 60.556 47.826 0.00 0.00 0.00 4.00
2696 5344 2.368221 CCAGAAATCTTTTGCCCAACCA 59.632 45.455 0.00 0.00 0.00 3.67
2697 5345 2.368548 ACCAGAAATCTTTTGCCCAACC 59.631 45.455 0.00 0.00 0.00 3.77
2698 5346 3.751479 ACCAGAAATCTTTTGCCCAAC 57.249 42.857 0.00 0.00 0.00 3.77
2699 5347 4.522789 GTCTACCAGAAATCTTTTGCCCAA 59.477 41.667 0.00 0.00 0.00 4.12
2700 5348 4.079253 GTCTACCAGAAATCTTTTGCCCA 58.921 43.478 0.00 0.00 0.00 5.36
2701 5349 3.127030 CGTCTACCAGAAATCTTTTGCCC 59.873 47.826 0.00 0.00 0.00 5.36
2702 5350 3.751698 ACGTCTACCAGAAATCTTTTGCC 59.248 43.478 0.00 0.00 0.00 4.52
2703 5351 5.147162 CAACGTCTACCAGAAATCTTTTGC 58.853 41.667 0.00 0.00 0.00 3.68
2704 5352 5.238650 ACCAACGTCTACCAGAAATCTTTTG 59.761 40.000 0.00 0.00 0.00 2.44
2705 5353 5.374071 ACCAACGTCTACCAGAAATCTTTT 58.626 37.500 0.00 0.00 0.00 2.27
2706 5354 4.969484 ACCAACGTCTACCAGAAATCTTT 58.031 39.130 0.00 0.00 0.00 2.52
2707 5355 4.566987 GACCAACGTCTACCAGAAATCTT 58.433 43.478 0.00 0.00 35.99 2.40
2708 5356 3.367087 CGACCAACGTCTACCAGAAATCT 60.367 47.826 0.00 0.00 36.82 2.40
2709 5357 2.921754 CGACCAACGTCTACCAGAAATC 59.078 50.000 0.00 0.00 36.82 2.17
2710 5358 2.559668 TCGACCAACGTCTACCAGAAAT 59.440 45.455 0.00 0.00 43.13 2.17
2711 5359 1.955778 TCGACCAACGTCTACCAGAAA 59.044 47.619 0.00 0.00 43.13 2.52
2712 5360 1.608055 TCGACCAACGTCTACCAGAA 58.392 50.000 0.00 0.00 43.13 3.02
2713 5361 1.471287 CATCGACCAACGTCTACCAGA 59.529 52.381 0.00 0.00 43.13 3.86
2714 5362 1.471287 TCATCGACCAACGTCTACCAG 59.529 52.381 0.00 0.00 43.13 4.00
2715 5363 1.536940 TCATCGACCAACGTCTACCA 58.463 50.000 0.00 0.00 43.13 3.25
2716 5364 2.865343 ATCATCGACCAACGTCTACC 57.135 50.000 0.00 0.00 43.13 3.18
2717 5365 4.201891 ACACTATCATCGACCAACGTCTAC 60.202 45.833 0.00 0.00 43.13 2.59
2718 5366 3.943381 ACACTATCATCGACCAACGTCTA 59.057 43.478 0.00 0.00 43.13 2.59
2719 5367 2.753452 ACACTATCATCGACCAACGTCT 59.247 45.455 0.00 0.00 43.13 4.18
2720 5368 3.146618 ACACTATCATCGACCAACGTC 57.853 47.619 0.00 0.00 43.13 4.34
2721 5369 3.693085 AGTACACTATCATCGACCAACGT 59.307 43.478 0.00 0.00 43.13 3.99
2722 5370 4.288670 AGTACACTATCATCGACCAACG 57.711 45.455 0.00 0.00 44.09 4.10
2723 5371 4.804139 CCAAGTACACTATCATCGACCAAC 59.196 45.833 0.00 0.00 0.00 3.77
2724 5372 4.142026 CCCAAGTACACTATCATCGACCAA 60.142 45.833 0.00 0.00 0.00 3.67
2725 5373 3.383505 CCCAAGTACACTATCATCGACCA 59.616 47.826 0.00 0.00 0.00 4.02
2726 5374 3.799232 GCCCAAGTACACTATCATCGACC 60.799 52.174 0.00 0.00 0.00 4.79
2727 5375 3.181479 TGCCCAAGTACACTATCATCGAC 60.181 47.826 0.00 0.00 0.00 4.20
2728 5376 3.028130 TGCCCAAGTACACTATCATCGA 58.972 45.455 0.00 0.00 0.00 3.59
2729 5377 3.452755 TGCCCAAGTACACTATCATCG 57.547 47.619 0.00 0.00 0.00 3.84
2730 5378 3.990469 CGATGCCCAAGTACACTATCATC 59.010 47.826 0.00 1.91 0.00 2.92
2731 5379 3.388024 ACGATGCCCAAGTACACTATCAT 59.612 43.478 0.00 0.00 0.00 2.45
2732 5380 2.764010 ACGATGCCCAAGTACACTATCA 59.236 45.455 0.00 0.00 0.00 2.15
2733 5381 3.454371 ACGATGCCCAAGTACACTATC 57.546 47.619 0.00 0.00 0.00 2.08
2734 5382 3.906720 AACGATGCCCAAGTACACTAT 57.093 42.857 0.00 0.00 0.00 2.12
2735 5383 3.688694 AAACGATGCCCAAGTACACTA 57.311 42.857 0.00 0.00 0.00 2.74
2736 5384 2.561478 AAACGATGCCCAAGTACACT 57.439 45.000 0.00 0.00 0.00 3.55
2737 5385 2.095415 GGAAAACGATGCCCAAGTACAC 60.095 50.000 0.00 0.00 0.00 2.90
2738 5386 2.156098 GGAAAACGATGCCCAAGTACA 58.844 47.619 0.00 0.00 0.00 2.90
2739 5387 2.433436 AGGAAAACGATGCCCAAGTAC 58.567 47.619 0.00 0.00 0.00 2.73
2740 5388 2.871096 AGGAAAACGATGCCCAAGTA 57.129 45.000 0.00 0.00 0.00 2.24
2741 5389 1.886542 GAAGGAAAACGATGCCCAAGT 59.113 47.619 0.00 0.00 0.00 3.16
2742 5390 2.162681 AGAAGGAAAACGATGCCCAAG 58.837 47.619 0.00 0.00 0.00 3.61
2743 5391 2.286365 AGAAGGAAAACGATGCCCAA 57.714 45.000 0.00 0.00 0.00 4.12
2744 5392 1.885887 CAAGAAGGAAAACGATGCCCA 59.114 47.619 0.00 0.00 0.00 5.36
2745 5393 1.202348 CCAAGAAGGAAAACGATGCCC 59.798 52.381 0.00 0.00 41.22 5.36
2746 5394 2.159382 TCCAAGAAGGAAAACGATGCC 58.841 47.619 0.00 0.00 45.65 4.40
2756 5404 1.876416 CGAAAACGCCTCCAAGAAGGA 60.876 52.381 0.00 0.00 46.75 3.36
2757 5405 0.517316 CGAAAACGCCTCCAAGAAGG 59.483 55.000 0.00 0.00 39.62 3.46
2758 5406 1.508632 TCGAAAACGCCTCCAAGAAG 58.491 50.000 0.00 0.00 0.00 2.85
2759 5407 1.871039 CTTCGAAAACGCCTCCAAGAA 59.129 47.619 0.00 0.00 0.00 2.52
2760 5408 1.508632 CTTCGAAAACGCCTCCAAGA 58.491 50.000 0.00 0.00 0.00 3.02
2761 5409 0.517316 CCTTCGAAAACGCCTCCAAG 59.483 55.000 0.00 0.00 0.00 3.61
2762 5410 0.887387 CCCTTCGAAAACGCCTCCAA 60.887 55.000 0.00 0.00 0.00 3.53
2763 5411 1.302192 CCCTTCGAAAACGCCTCCA 60.302 57.895 0.00 0.00 0.00 3.86
2764 5412 1.004200 TCCCTTCGAAAACGCCTCC 60.004 57.895 0.00 0.00 0.00 4.30
2765 5413 1.019805 CCTCCCTTCGAAAACGCCTC 61.020 60.000 0.00 0.00 0.00 4.70
2766 5414 1.003718 CCTCCCTTCGAAAACGCCT 60.004 57.895 0.00 0.00 0.00 5.52
2767 5415 1.302271 ACCTCCCTTCGAAAACGCC 60.302 57.895 0.00 0.00 0.00 5.68
2768 5416 0.883370 ACACCTCCCTTCGAAAACGC 60.883 55.000 0.00 0.00 0.00 4.84
2769 5417 0.865769 CACACCTCCCTTCGAAAACG 59.134 55.000 0.00 0.00 0.00 3.60
2770 5418 1.963172 ACACACCTCCCTTCGAAAAC 58.037 50.000 0.00 0.00 0.00 2.43
2771 5419 2.721425 AACACACCTCCCTTCGAAAA 57.279 45.000 0.00 0.00 0.00 2.29
2772 5420 2.038033 CCTAACACACCTCCCTTCGAAA 59.962 50.000 0.00 0.00 0.00 3.46
2773 5421 1.621814 CCTAACACACCTCCCTTCGAA 59.378 52.381 0.00 0.00 0.00 3.71
2774 5422 1.263356 CCTAACACACCTCCCTTCGA 58.737 55.000 0.00 0.00 0.00 3.71
2775 5423 0.974383 ACCTAACACACCTCCCTTCG 59.026 55.000 0.00 0.00 0.00 3.79
2776 5424 2.500504 CCTACCTAACACACCTCCCTTC 59.499 54.545 0.00 0.00 0.00 3.46
2777 5425 2.158050 ACCTACCTAACACACCTCCCTT 60.158 50.000 0.00 0.00 0.00 3.95
2778 5426 1.435959 ACCTACCTAACACACCTCCCT 59.564 52.381 0.00 0.00 0.00 4.20
2779 5427 1.948391 ACCTACCTAACACACCTCCC 58.052 55.000 0.00 0.00 0.00 4.30
2780 5428 4.468868 ACATAACCTACCTAACACACCTCC 59.531 45.833 0.00 0.00 0.00 4.30
2781 5429 5.046807 ACACATAACCTACCTAACACACCTC 60.047 44.000 0.00 0.00 0.00 3.85
2782 5430 4.842380 ACACATAACCTACCTAACACACCT 59.158 41.667 0.00 0.00 0.00 4.00
2783 5431 5.156608 ACACATAACCTACCTAACACACC 57.843 43.478 0.00 0.00 0.00 4.16
2784 5432 7.500720 AAAACACATAACCTACCTAACACAC 57.499 36.000 0.00 0.00 0.00 3.82
2785 5433 7.556996 ACAAAAACACATAACCTACCTAACACA 59.443 33.333 0.00 0.00 0.00 3.72
2786 5434 7.933396 ACAAAAACACATAACCTACCTAACAC 58.067 34.615 0.00 0.00 0.00 3.32
2787 5435 8.522542 AACAAAAACACATAACCTACCTAACA 57.477 30.769 0.00 0.00 0.00 2.41
2788 5436 9.806203 AAAACAAAAACACATAACCTACCTAAC 57.194 29.630 0.00 0.00 0.00 2.34
2790 5438 9.804758 CAAAAACAAAAACACATAACCTACCTA 57.195 29.630 0.00 0.00 0.00 3.08
2791 5439 8.315482 ACAAAAACAAAAACACATAACCTACCT 58.685 29.630 0.00 0.00 0.00 3.08
2792 5440 8.481974 ACAAAAACAAAAACACATAACCTACC 57.518 30.769 0.00 0.00 0.00 3.18
2847 5495 9.699703 GTTAATGGAAATAGGTACAAGCAAAAA 57.300 29.630 0.00 0.00 0.00 1.94
2848 5496 9.084533 AGTTAATGGAAATAGGTACAAGCAAAA 57.915 29.630 0.00 0.00 0.00 2.44
2849 5497 8.644374 AGTTAATGGAAATAGGTACAAGCAAA 57.356 30.769 0.00 0.00 0.00 3.68
2850 5498 8.644374 AAGTTAATGGAAATAGGTACAAGCAA 57.356 30.769 0.00 0.00 0.00 3.91
2851 5499 8.644374 AAAGTTAATGGAAATAGGTACAAGCA 57.356 30.769 0.00 0.00 0.00 3.91
2852 5500 8.736244 TGAAAGTTAATGGAAATAGGTACAAGC 58.264 33.333 0.00 0.00 0.00 4.01
2885 5533 9.025041 CCCAATTCTACTTTCTTTATGGAAGTT 57.975 33.333 0.00 0.00 36.70 2.66
2886 5534 7.122799 GCCCAATTCTACTTTCTTTATGGAAGT 59.877 37.037 0.00 0.00 36.70 3.01
2887 5535 7.416777 GGCCCAATTCTACTTTCTTTATGGAAG 60.417 40.741 0.00 0.00 36.67 3.46
2888 5536 6.379988 GGCCCAATTCTACTTTCTTTATGGAA 59.620 38.462 0.00 0.00 0.00 3.53
2889 5537 5.891551 GGCCCAATTCTACTTTCTTTATGGA 59.108 40.000 0.00 0.00 0.00 3.41
2890 5538 5.069119 GGGCCCAATTCTACTTTCTTTATGG 59.931 44.000 19.95 0.00 0.00 2.74
2891 5539 5.893824 AGGGCCCAATTCTACTTTCTTTATG 59.106 40.000 27.56 0.00 0.00 1.90
2892 5540 6.092346 AGGGCCCAATTCTACTTTCTTTAT 57.908 37.500 27.56 0.00 0.00 1.40
2893 5541 5.014755 TGAGGGCCCAATTCTACTTTCTTTA 59.985 40.000 27.56 0.00 0.00 1.85
2894 5542 4.202673 TGAGGGCCCAATTCTACTTTCTTT 60.203 41.667 27.56 0.00 0.00 2.52
2895 5543 3.333680 TGAGGGCCCAATTCTACTTTCTT 59.666 43.478 27.56 0.00 0.00 2.52
2896 5544 2.919602 TGAGGGCCCAATTCTACTTTCT 59.080 45.455 27.56 0.00 0.00 2.52
2897 5545 3.366052 TGAGGGCCCAATTCTACTTTC 57.634 47.619 27.56 9.15 0.00 2.62
2898 5546 3.076032 AGTTGAGGGCCCAATTCTACTTT 59.924 43.478 27.56 0.00 0.00 2.66
2899 5547 2.649816 AGTTGAGGGCCCAATTCTACTT 59.350 45.455 27.56 0.00 0.00 2.24
2900 5548 2.279173 AGTTGAGGGCCCAATTCTACT 58.721 47.619 27.56 21.30 0.00 2.57
2901 5549 2.808906 AGTTGAGGGCCCAATTCTAC 57.191 50.000 27.56 19.34 0.00 2.59
2902 5550 3.186283 TGTAGTTGAGGGCCCAATTCTA 58.814 45.455 27.56 17.49 0.00 2.10
2903 5551 1.992557 TGTAGTTGAGGGCCCAATTCT 59.007 47.619 27.56 18.54 0.00 2.40
2904 5552 2.507407 TGTAGTTGAGGGCCCAATTC 57.493 50.000 27.56 14.20 0.00 2.17
2905 5553 2.683742 CGATGTAGTTGAGGGCCCAATT 60.684 50.000 27.56 10.02 0.00 2.32
2906 5554 1.134098 CGATGTAGTTGAGGGCCCAAT 60.134 52.381 27.56 2.92 0.00 3.16
2907 5555 0.251916 CGATGTAGTTGAGGGCCCAA 59.748 55.000 27.56 9.26 0.00 4.12
2908 5556 1.622607 CCGATGTAGTTGAGGGCCCA 61.623 60.000 27.56 0.00 0.00 5.36
2909 5557 1.146263 CCGATGTAGTTGAGGGCCC 59.854 63.158 16.46 16.46 0.00 5.80
2910 5558 0.179081 GACCGATGTAGTTGAGGGCC 60.179 60.000 0.00 0.00 0.00 5.80
2911 5559 0.535335 TGACCGATGTAGTTGAGGGC 59.465 55.000 0.00 0.00 0.00 5.19
2912 5560 1.134788 GGTGACCGATGTAGTTGAGGG 60.135 57.143 0.00 0.00 0.00 4.30
2913 5561 1.825474 AGGTGACCGATGTAGTTGAGG 59.175 52.381 0.00 0.00 0.00 3.86
2914 5562 2.755655 AGAGGTGACCGATGTAGTTGAG 59.244 50.000 0.00 0.00 0.00 3.02
2915 5563 2.803956 AGAGGTGACCGATGTAGTTGA 58.196 47.619 0.00 0.00 0.00 3.18
2916 5564 3.066900 CCTAGAGGTGACCGATGTAGTTG 59.933 52.174 0.00 0.00 0.00 3.16
2917 5565 3.053842 TCCTAGAGGTGACCGATGTAGTT 60.054 47.826 0.00 0.00 36.34 2.24
2918 5566 2.508716 TCCTAGAGGTGACCGATGTAGT 59.491 50.000 0.00 0.00 36.34 2.73
2919 5567 3.210232 TCCTAGAGGTGACCGATGTAG 57.790 52.381 0.00 0.00 36.34 2.74
2920 5568 3.878237 ATCCTAGAGGTGACCGATGTA 57.122 47.619 0.00 0.00 36.34 2.29
2921 5569 2.695666 CAATCCTAGAGGTGACCGATGT 59.304 50.000 0.00 0.00 36.34 3.06
2922 5570 2.036475 CCAATCCTAGAGGTGACCGATG 59.964 54.545 0.00 0.00 36.34 3.84
2923 5571 2.320781 CCAATCCTAGAGGTGACCGAT 58.679 52.381 0.00 0.00 36.34 4.18
2924 5572 1.776662 CCAATCCTAGAGGTGACCGA 58.223 55.000 0.00 0.00 36.34 4.69
2925 5573 0.105039 GCCAATCCTAGAGGTGACCG 59.895 60.000 0.00 0.00 36.34 4.79
2926 5574 0.470341 GGCCAATCCTAGAGGTGACC 59.530 60.000 0.00 0.00 36.34 4.02
2927 5575 1.134371 GTGGCCAATCCTAGAGGTGAC 60.134 57.143 7.24 0.00 36.34 3.67
2928 5576 1.204146 GTGGCCAATCCTAGAGGTGA 58.796 55.000 7.24 0.00 36.34 4.02
2929 5577 3.788672 GTGGCCAATCCTAGAGGTG 57.211 57.895 7.24 0.00 36.34 4.00


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

AutoCloner maintained by Alex Coulton.