Multiple sequence alignment - TraesCS2A01G314800

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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 TraesCS2A01G314800 chr2A 100.000 5471 0 0 1 5471 539963806 539969276 0.000000e+00 10104.0
1 TraesCS2A01G314800 chr2A 83.099 142 21 3 4698 4838 25602170 25602309 5.750000e-25 126.0
2 TraesCS2A01G314800 chr2A 83.673 98 15 1 525 621 57887662 57887565 2.100000e-14 91.6
3 TraesCS2A01G314800 chr2D 94.064 2948 125 25 1 2929 402708904 402711820 0.000000e+00 4429.0
4 TraesCS2A01G314800 chr2D 95.771 1608 51 7 2930 4529 402711866 402713464 0.000000e+00 2577.0
5 TraesCS2A01G314800 chr2D 93.023 86 6 0 4586 4671 402713645 402713730 5.750000e-25 126.0
6 TraesCS2A01G314800 chr2B 92.217 2955 160 29 1 2929 476556370 476559280 0.000000e+00 4119.0
7 TraesCS2A01G314800 chr2B 93.157 1476 62 20 3071 4529 476559635 476561088 0.000000e+00 2130.0
8 TraesCS2A01G314800 chr2B 85.035 715 68 13 4705 5415 698101829 698101150 0.000000e+00 691.0
9 TraesCS2A01G314800 chr2B 96.795 156 5 0 2930 3085 476559326 476559481 1.510000e-65 261.0
10 TraesCS2A01G314800 chr2B 77.841 176 26 8 4532 4704 476561119 476561284 4.510000e-16 97.1
11 TraesCS2A01G314800 chr6B 90.130 770 64 7 4707 5471 677567876 677568638 0.000000e+00 990.0
12 TraesCS2A01G314800 chr6B 83.826 711 75 14 4707 5415 49874356 49873684 1.660000e-179 640.0
13 TraesCS2A01G314800 chr6D 85.795 711 62 14 4707 5415 27201380 27200707 0.000000e+00 717.0
14 TraesCS2A01G314800 chr7A 84.432 713 69 18 4707 5415 624886815 624886141 0.000000e+00 664.0
15 TraesCS2A01G314800 chr7A 85.556 90 11 2 528 616 25942767 25942679 5.840000e-15 93.5
16 TraesCS2A01G314800 chr6A 83.934 722 74 22 4700 5415 45863202 45862517 0.000000e+00 652.0
17 TraesCS2A01G314800 chr6A 88.889 108 10 2 510 616 574399238 574399344 1.240000e-26 132.0
18 TraesCS2A01G314800 chr7B 84.034 714 65 14 4707 5412 56922106 56922778 4.620000e-180 641.0
19 TraesCS2A01G314800 chr1A 92.548 416 29 2 5001 5415 540058747 540058333 3.650000e-166 595.0
20 TraesCS2A01G314800 chr1A 82.969 640 65 21 4707 5342 249773030 249772431 6.240000e-149 538.0
21 TraesCS2A01G314800 chr1A 85.556 90 11 2 533 621 22078375 22078287 5.840000e-15 93.5
22 TraesCS2A01G314800 chr1A 93.443 61 4 0 5353 5413 249772442 249772382 2.100000e-14 91.6
23 TraesCS2A01G314800 chr1D 85.075 134 19 1 4699 4832 414249269 414249401 9.560000e-28 135.0
24 TraesCS2A01G314800 chr1D 87.097 93 11 1 525 616 307337374 307337466 2.700000e-18 104.0
25 TraesCS2A01G314800 chr7D 84.211 133 18 2 4700 4832 163549521 163549650 5.750000e-25 126.0
26 TraesCS2A01G314800 chrUn 82.353 136 22 2 4698 4832 228439468 228439602 3.460000e-22 117.0
27 TraesCS2A01G314800 chrUn 84.259 108 15 2 510 616 110684354 110684248 2.700000e-18 104.0
28 TraesCS2A01G314800 chr3D 85.714 91 10 3 520 609 98940955 98941043 5.840000e-15 93.5


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 TraesCS2A01G314800 chr2A 539963806 539969276 5470 False 10104.000000 10104 100.0000 1 5471 1 chr2A.!!$F2 5470
1 TraesCS2A01G314800 chr2D 402708904 402713730 4826 False 2377.333333 4429 94.2860 1 4671 3 chr2D.!!$F1 4670
2 TraesCS2A01G314800 chr2B 476556370 476561284 4914 False 1651.775000 4119 90.0025 1 4704 4 chr2B.!!$F1 4703
3 TraesCS2A01G314800 chr2B 698101150 698101829 679 True 691.000000 691 85.0350 4705 5415 1 chr2B.!!$R1 710
4 TraesCS2A01G314800 chr6B 677567876 677568638 762 False 990.000000 990 90.1300 4707 5471 1 chr6B.!!$F1 764
5 TraesCS2A01G314800 chr6B 49873684 49874356 672 True 640.000000 640 83.8260 4707 5415 1 chr6B.!!$R1 708
6 TraesCS2A01G314800 chr6D 27200707 27201380 673 True 717.000000 717 85.7950 4707 5415 1 chr6D.!!$R1 708
7 TraesCS2A01G314800 chr7A 624886141 624886815 674 True 664.000000 664 84.4320 4707 5415 1 chr7A.!!$R2 708
8 TraesCS2A01G314800 chr6A 45862517 45863202 685 True 652.000000 652 83.9340 4700 5415 1 chr6A.!!$R1 715
9 TraesCS2A01G314800 chr7B 56922106 56922778 672 False 641.000000 641 84.0340 4707 5412 1 chr7B.!!$F1 705
10 TraesCS2A01G314800 chr1A 249772382 249773030 648 True 314.800000 538 88.2060 4707 5413 2 chr1A.!!$R3 706


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
95 96 0.107508 AGCATCGGGTTGTCATCTGG 60.108 55.0 0.0 0.0 0.0 3.86 F
1108 1120 0.035056 CTCGAAGCATCCAAACCCCT 60.035 55.0 0.0 0.0 0.0 4.79 F
1684 1703 0.320073 CGTTCTCGGTGCTTGGGTTA 60.320 55.0 0.0 0.0 0.0 2.85 F
3228 3467 0.397941 TGGAAGTGAGAACCAGGCAG 59.602 55.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1991 2010 1.117150 ATGGCTTGCACAATGGGATC 58.883 50.000 0.00 0.00 0.00 3.36 R
2473 2498 0.538057 GCCAATAGCCCATGCAGCTA 60.538 55.000 15.52 15.52 46.32 3.32 R
3640 3879 1.736126 GAACTTACCCAGCCTAAACGC 59.264 52.381 0.00 0.00 0.00 4.84 R
4816 5198 0.250234 CGAGGAAGGAGTGGATGCAA 59.750 55.000 0.00 0.00 0.00 4.08 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
80 81 5.471456 CCTCACACTAGACTTGAAAAAGCAT 59.529 40.000 0.00 0.00 0.00 3.79
95 96 0.107508 AGCATCGGGTTGTCATCTGG 60.108 55.000 0.00 0.00 0.00 3.86
133 137 1.984026 CAGGAATGTTGGGGCCACC 60.984 63.158 0.20 2.19 40.81 4.61
142 146 1.724148 TTGGGGCCACCTTGATGTCA 61.724 55.000 0.20 0.00 41.11 3.58
170 174 6.475596 AATTTGATGAATGGGAACTGGATC 57.524 37.500 0.00 0.00 0.00 3.36
179 183 3.934068 TGGGAACTGGATCTTAAACGTC 58.066 45.455 0.00 0.00 0.00 4.34
210 214 2.673368 CCTCTGTCGCAATCAGTAAACC 59.327 50.000 0.00 0.00 34.86 3.27
216 220 5.483811 TGTCGCAATCAGTAAACCATAAGA 58.516 37.500 0.00 0.00 0.00 2.10
247 251 6.428083 AGATCTCTCTGTCGAATACCTCTA 57.572 41.667 0.00 0.00 0.00 2.43
341 345 4.525912 ATTTCAATCCAAGGTTGAGCAC 57.474 40.909 0.00 0.00 36.96 4.40
375 379 4.775236 GCCATAATAGCCTGGAGATAAGG 58.225 47.826 0.00 0.00 37.91 2.69
392 396 4.730487 GCCACTCAAGCCTGTCAT 57.270 55.556 0.00 0.00 0.00 3.06
401 405 4.197750 CTCAAGCCTGTCATATGCTTTCT 58.802 43.478 0.00 0.00 42.37 2.52
411 415 9.149225 CCTGTCATATGCTTTCTTCATATCTAC 57.851 37.037 0.00 0.00 35.57 2.59
418 422 7.055667 TGCTTTCTTCATATCTACCTACAGG 57.944 40.000 0.00 0.00 42.17 4.00
534 538 3.777925 CAACGCACCTTCGGCTCG 61.778 66.667 0.00 0.00 0.00 5.03
539 543 2.507992 CACCTTCGGCTCGCTCAG 60.508 66.667 0.00 0.00 0.00 3.35
551 555 0.958822 TCGCTCAGTGCTTGTAGTCA 59.041 50.000 0.00 0.00 40.11 3.41
556 560 1.002366 CAGTGCTTGTAGTCATCGCC 58.998 55.000 0.00 0.00 0.00 5.54
633 638 7.870826 TCTCTTGATATTTTTGTTGCGAGAAA 58.129 30.769 0.00 0.00 0.00 2.52
638 643 8.894409 TGATATTTTTGTTGCGAGAAATACTG 57.106 30.769 0.00 0.00 29.68 2.74
649 654 5.753438 TGCGAGAAATACTGCCTTATAGTTG 59.247 40.000 0.00 0.00 0.00 3.16
862 874 4.082136 GGCACCGTGGAAAACCAAAATATA 60.082 41.667 0.00 0.00 0.00 0.86
863 875 5.394773 GGCACCGTGGAAAACCAAAATATAT 60.395 40.000 0.00 0.00 0.00 0.86
864 876 6.183360 GGCACCGTGGAAAACCAAAATATATA 60.183 38.462 0.00 0.00 0.00 0.86
865 877 6.693978 GCACCGTGGAAAACCAAAATATATAC 59.306 38.462 0.00 0.00 0.00 1.47
866 878 7.628794 GCACCGTGGAAAACCAAAATATATACA 60.629 37.037 0.00 0.00 0.00 2.29
867 879 7.913297 CACCGTGGAAAACCAAAATATATACAG 59.087 37.037 0.00 0.00 0.00 2.74
868 880 7.067737 ACCGTGGAAAACCAAAATATATACAGG 59.932 37.037 0.00 0.00 0.00 4.00
869 881 6.915843 CGTGGAAAACCAAAATATATACAGGC 59.084 38.462 0.00 0.00 0.00 4.85
870 882 7.207383 GTGGAAAACCAAAATATATACAGGCC 58.793 38.462 0.00 0.00 0.00 5.19
871 883 6.325286 TGGAAAACCAAAATATATACAGGCCC 59.675 38.462 0.00 0.00 0.00 5.80
872 884 6.325286 GGAAAACCAAAATATATACAGGCCCA 59.675 38.462 0.00 0.00 0.00 5.36
873 885 6.976934 AAACCAAAATATATACAGGCCCAG 57.023 37.500 0.00 0.00 0.00 4.45
874 886 4.998051 ACCAAAATATATACAGGCCCAGG 58.002 43.478 0.00 0.00 0.00 4.45
875 887 3.763897 CCAAAATATATACAGGCCCAGGC 59.236 47.826 0.00 0.00 41.06 4.85
891 903 3.612681 GCGCCCAGCCCGACTATA 61.613 66.667 0.00 0.00 40.81 1.31
896 908 1.056660 CCCAGCCCGACTATAACCAT 58.943 55.000 0.00 0.00 0.00 3.55
957 969 0.184451 AGGCCCATCCTGCAATACTG 59.816 55.000 0.00 0.00 45.54 2.74
970 982 2.101415 GCAATACTGAAGGCCCAAATCC 59.899 50.000 0.00 0.00 0.00 3.01
971 983 2.695147 CAATACTGAAGGCCCAAATCCC 59.305 50.000 0.00 0.00 0.00 3.85
972 984 1.377690 TACTGAAGGCCCAAATCCCA 58.622 50.000 0.00 0.00 0.00 4.37
973 985 0.712380 ACTGAAGGCCCAAATCCCAT 59.288 50.000 0.00 0.00 0.00 4.00
974 986 1.117150 CTGAAGGCCCAAATCCCATG 58.883 55.000 0.00 0.00 0.00 3.66
975 987 0.977108 TGAAGGCCCAAATCCCATGC 60.977 55.000 0.00 0.00 0.00 4.06
976 988 2.019897 GAAGGCCCAAATCCCATGCG 62.020 60.000 0.00 0.00 0.00 4.73
1001 1013 1.751536 GCACAAGTTGGTTGCGTTGC 61.752 55.000 7.96 2.22 40.15 4.17
1057 1069 3.905437 TTAGGGTTTGTCGCCGCCC 62.905 63.158 0.00 0.00 41.36 6.13
1108 1120 0.035056 CTCGAAGCATCCAAACCCCT 60.035 55.000 0.00 0.00 0.00 4.79
1179 1192 1.061131 CATCGGCACATTCGTTGAGTC 59.939 52.381 0.00 0.00 31.34 3.36
1296 1310 4.766088 GCTTGGCCGCTTGCTTCG 62.766 66.667 0.00 0.00 40.92 3.79
1297 1311 4.766088 CTTGGCCGCTTGCTTCGC 62.766 66.667 0.00 0.00 40.92 4.70
1300 1314 4.766088 GGCCGCTTGCTTCGCTTG 62.766 66.667 0.00 0.00 40.92 4.01
1547 1566 1.597461 GTGGAGAAGGGGAAGACGG 59.403 63.158 0.00 0.00 0.00 4.79
1609 1628 1.613925 GTGTATCTCTGCGCCCTGATA 59.386 52.381 4.18 7.08 0.00 2.15
1634 1653 1.069765 CAGTCGGTGACTTGCCACT 59.930 57.895 0.00 0.00 41.37 4.00
1642 1661 0.550914 TGACTTGCCACTTGGACCTT 59.449 50.000 0.00 0.00 37.39 3.50
1683 1702 1.597027 CGTTCTCGGTGCTTGGGTT 60.597 57.895 0.00 0.00 0.00 4.11
1684 1703 0.320073 CGTTCTCGGTGCTTGGGTTA 60.320 55.000 0.00 0.00 0.00 2.85
1720 1739 2.484947 GGCTGGCTACTATGTTGGGTAC 60.485 54.545 0.00 0.00 0.00 3.34
1742 1761 4.096833 ACCCTTTGTTTCGTTTCTGTTACC 59.903 41.667 0.00 0.00 0.00 2.85
1749 1768 9.857957 TTTGTTTCGTTTCTGTTACCTATTTTT 57.142 25.926 0.00 0.00 0.00 1.94
1750 1769 9.505995 TTGTTTCGTTTCTGTTACCTATTTTTC 57.494 29.630 0.00 0.00 0.00 2.29
1754 1773 9.940166 TTCGTTTCTGTTACCTATTTTTCTTTC 57.060 29.630 0.00 0.00 0.00 2.62
1755 1774 9.111613 TCGTTTCTGTTACCTATTTTTCTTTCA 57.888 29.630 0.00 0.00 0.00 2.69
1756 1775 9.893305 CGTTTCTGTTACCTATTTTTCTTTCAT 57.107 29.630 0.00 0.00 0.00 2.57
1759 1778 8.934023 TCTGTTACCTATTTTTCTTTCATGGT 57.066 30.769 0.00 0.00 0.00 3.55
1760 1779 8.792633 TCTGTTACCTATTTTTCTTTCATGGTG 58.207 33.333 0.00 0.00 0.00 4.17
1775 1794 8.896744 TCTTTCATGGTGAATTGATGATAGTTC 58.103 33.333 0.00 0.00 36.11 3.01
1825 1844 2.752903 AGTTGTTGTCAGTGTGGTTTCC 59.247 45.455 0.00 0.00 0.00 3.13
1835 1854 5.535030 GTCAGTGTGGTTTCCTTTCCTTAAT 59.465 40.000 0.00 0.00 0.00 1.40
1917 1936 3.118298 TCAAGGCTCCGATGATGATTTCA 60.118 43.478 0.00 0.00 39.12 2.69
1991 2010 7.144661 TGAACACAGGTATGCTTGTAAATTTG 58.855 34.615 0.00 0.00 32.90 2.32
2112 2131 6.111669 TCAGAGGATGATGAGGATTTGATC 57.888 41.667 0.00 0.00 31.12 2.92
2174 2193 2.489528 TCCATTTCCTAGGTCCCGAT 57.510 50.000 9.08 0.00 0.00 4.18
2175 2194 2.047061 TCCATTTCCTAGGTCCCGATG 58.953 52.381 9.08 7.06 0.00 3.84
2223 2242 4.701651 TGTTGGAAAATGTGCATAGGAGAG 59.298 41.667 0.00 0.00 0.00 3.20
2226 2245 3.314635 GGAAAATGTGCATAGGAGAGCTG 59.685 47.826 0.00 0.00 0.00 4.24
2243 2262 4.767409 AGAGCTGTTGTACATAGTCAGTCA 59.233 41.667 0.00 0.00 0.00 3.41
2271 2290 2.622436 GCCTAGTAAGTGCTTGTCTGG 58.378 52.381 0.00 0.00 0.00 3.86
2293 2318 5.602561 TGGATGTGTATATCAGGTTAGCACT 59.397 40.000 0.00 0.00 0.00 4.40
2312 2337 5.128171 AGCACTGATTAGTATTTCACCGGTA 59.872 40.000 6.87 0.00 34.74 4.02
2357 2382 5.630304 GCCAGTTTCTTAGGCCTAGATTCTT 60.630 44.000 13.36 0.00 42.58 2.52
2428 2453 7.027874 TGTTAATCCTGTCCTTATTTGTCCT 57.972 36.000 0.00 0.00 0.00 3.85
2430 2455 7.610305 TGTTAATCCTGTCCTTATTTGTCCTTC 59.390 37.037 0.00 0.00 0.00 3.46
2473 2498 2.611722 GCCATTTGTGGTATTGGCGTTT 60.612 45.455 0.00 0.00 44.58 3.60
2570 2596 6.598457 CAGTTGTCATTGAGGAGATTCAAGAT 59.402 38.462 0.00 0.00 40.16 2.40
2710 2736 5.161943 TCTAAAGGTAGTTCCAAGAAGGC 57.838 43.478 0.00 0.00 39.02 4.35
2788 2814 6.480320 GCTATTAATGATCCTCACAAGTCGTT 59.520 38.462 0.00 0.00 0.00 3.85
2924 2950 7.934120 TGTGGTTTCAAAGAAAAAGAAAAAGGA 59.066 29.630 0.00 0.00 33.54 3.36
3025 3096 6.010850 AGTACTTCTGAAGGTGACACTGATA 58.989 40.000 20.61 0.00 0.00 2.15
3039 3110 6.092670 GTGACACTGATAAGCAAGCTGATAAA 59.907 38.462 0.00 0.00 0.00 1.40
3041 3112 7.081526 ACACTGATAAGCAAGCTGATAAAAG 57.918 36.000 0.00 0.00 0.00 2.27
3228 3467 0.397941 TGGAAGTGAGAACCAGGCAG 59.602 55.000 0.00 0.00 0.00 4.85
3229 3468 0.957888 GGAAGTGAGAACCAGGCAGC 60.958 60.000 0.00 0.00 0.00 5.25
3640 3879 1.028905 TGTTGGTCGGAAGCCTTTTG 58.971 50.000 0.00 0.00 0.00 2.44
3681 3920 2.866762 CTGATGTTTTACCCTCTAGCGC 59.133 50.000 0.00 0.00 0.00 5.92
3685 3924 2.038033 TGTTTTACCCTCTAGCGCACTT 59.962 45.455 11.47 0.00 0.00 3.16
3690 3929 1.831736 ACCCTCTAGCGCACTTGTATT 59.168 47.619 11.47 0.00 0.00 1.89
3729 3968 7.367285 GTTTTAATGTCACTTTCATGCAGGTA 58.633 34.615 0.00 0.00 0.00 3.08
3836 4075 7.734924 ATTGCATATGTTGTACTACTCCATG 57.265 36.000 8.88 9.56 0.00 3.66
3981 4220 4.389077 ACTGCTTCTACATCGCTTTTACAC 59.611 41.667 0.00 0.00 0.00 2.90
4100 4339 4.465632 TGTGGAGCTAATGAACGTACAT 57.534 40.909 0.00 0.00 0.00 2.29
4114 4353 2.259618 CGTACATTGAAGAGGTGACCG 58.740 52.381 0.00 0.00 0.00 4.79
4225 4464 4.175787 ACAACATCCTACAGTCGTCTTC 57.824 45.455 0.00 0.00 0.00 2.87
4241 4480 6.018180 AGTCGTCTTCATGTACCTTGTTTTTC 60.018 38.462 0.00 0.00 0.00 2.29
4315 4555 2.598394 GCCTGGGCTGCAACTGAA 60.598 61.111 0.50 0.00 38.26 3.02
4325 4565 2.286654 GCTGCAACTGAACTTGTCACTC 60.287 50.000 0.00 0.00 31.13 3.51
4341 4581 3.084039 TCACTCTGATGATTTTGTGGCC 58.916 45.455 0.00 0.00 0.00 5.36
4386 4637 6.380079 AGACTTGTTATGAAGGAATGGAGT 57.620 37.500 0.00 0.00 0.00 3.85
4438 4694 2.293399 AGTTGCTCCATTTTCCGTTCAC 59.707 45.455 0.00 0.00 0.00 3.18
4450 4706 2.267426 TCCGTTCACGCATTCTGTATG 58.733 47.619 0.00 0.00 38.18 2.39
4462 4718 4.641989 GCATTCTGTATGTTGGTTGGATCT 59.358 41.667 0.00 0.00 36.57 2.75
4466 4722 5.430886 TCTGTATGTTGGTTGGATCTCATG 58.569 41.667 0.00 0.00 0.00 3.07
4467 4723 5.045651 TCTGTATGTTGGTTGGATCTCATGT 60.046 40.000 0.00 0.00 0.00 3.21
4509 4765 0.961753 CCACCTTTTGGCTGAAGTCC 59.038 55.000 0.00 0.00 45.59 3.85
4511 4767 2.031120 CACCTTTTGGCTGAAGTCCAA 58.969 47.619 3.13 3.13 45.59 3.53
4513 4769 2.893489 ACCTTTTGGCTGAAGTCCAATC 59.107 45.455 6.93 0.00 42.57 2.67
4515 4771 3.057033 CCTTTTGGCTGAAGTCCAATCTG 60.057 47.826 6.93 2.69 42.57 2.90
4517 4773 1.067295 TGGCTGAAGTCCAATCTGGT 58.933 50.000 0.00 0.00 39.03 4.00
4518 4774 1.425066 TGGCTGAAGTCCAATCTGGTT 59.575 47.619 0.00 0.00 39.03 3.67
4519 4775 1.815003 GGCTGAAGTCCAATCTGGTTG 59.185 52.381 0.00 0.00 39.03 3.77
4521 4777 1.815003 CTGAAGTCCAATCTGGTTGCC 59.185 52.381 0.00 0.00 39.03 4.52
4522 4778 1.177401 GAAGTCCAATCTGGTTGCCC 58.823 55.000 0.00 0.00 39.03 5.36
4523 4779 0.251787 AAGTCCAATCTGGTTGCCCC 60.252 55.000 0.00 0.00 39.03 5.80
4527 4808 1.203288 TCCAATCTGGTTGCCCCAAAT 60.203 47.619 0.00 0.00 44.65 2.32
4544 4825 4.580167 CCCAAATCGCAGGAGAAAATATCA 59.420 41.667 0.00 0.00 0.00 2.15
4553 4834 5.757808 GCAGGAGAAAATATCAGGAGAGAAC 59.242 44.000 0.00 0.00 0.00 3.01
4676 5053 7.381766 TCATCATTATACATTGCTGCATACC 57.618 36.000 1.84 0.00 0.00 2.73
4678 5055 7.666804 TCATCATTATACATTGCTGCATACCTT 59.333 33.333 1.84 0.00 0.00 3.50
4679 5056 7.205737 TCATTATACATTGCTGCATACCTTG 57.794 36.000 1.84 0.00 0.00 3.61
4681 5058 7.501892 TCATTATACATTGCTGCATACCTTGAA 59.498 33.333 1.84 0.00 0.00 2.69
4682 5059 3.855689 ACATTGCTGCATACCTTGAAC 57.144 42.857 1.84 0.00 0.00 3.18
4683 5060 3.424703 ACATTGCTGCATACCTTGAACT 58.575 40.909 1.84 0.00 0.00 3.01
4684 5061 4.588899 ACATTGCTGCATACCTTGAACTA 58.411 39.130 1.84 0.00 0.00 2.24
4685 5062 4.637534 ACATTGCTGCATACCTTGAACTAG 59.362 41.667 1.84 0.00 0.00 2.57
4688 5065 4.755411 TGCTGCATACCTTGAACTAGTAC 58.245 43.478 0.00 0.00 0.00 2.73
4726 5103 1.267533 GGGAAACATTTACGCACGGTT 59.732 47.619 0.00 0.00 0.00 4.44
4802 5184 6.597672 CAGAAAGGCAACATGTGTACCTTATA 59.402 38.462 21.29 0.00 41.24 0.98
4814 5196 5.968167 TGTGTACCTTATATTCTCCCCAACT 59.032 40.000 0.00 0.00 0.00 3.16
4816 5198 6.326843 GTGTACCTTATATTCTCCCCAACTCT 59.673 42.308 0.00 0.00 0.00 3.24
4858 5244 3.140814 GTGGCATCGCTTTCCCCC 61.141 66.667 0.00 0.00 0.00 5.40
4859 5245 3.656280 TGGCATCGCTTTCCCCCA 61.656 61.111 0.00 0.00 0.00 4.96
4861 5247 2.196245 GGCATCGCTTTCCCCCATC 61.196 63.158 0.00 0.00 0.00 3.51
4863 5249 2.203209 ATCGCTTTCCCCCATCGC 60.203 61.111 0.00 0.00 0.00 4.58
4864 5250 2.746375 ATCGCTTTCCCCCATCGCT 61.746 57.895 0.00 0.00 0.00 4.93
4865 5251 2.270874 ATCGCTTTCCCCCATCGCTT 62.271 55.000 0.00 0.00 0.00 4.68
4866 5252 2.046285 CGCTTTCCCCCATCGCTTT 61.046 57.895 0.00 0.00 0.00 3.51
4867 5253 1.809869 GCTTTCCCCCATCGCTTTC 59.190 57.895 0.00 0.00 0.00 2.62
4868 5254 1.667154 GCTTTCCCCCATCGCTTTCC 61.667 60.000 0.00 0.00 0.00 3.13
4869 5255 1.376609 CTTTCCCCCATCGCTTTCCG 61.377 60.000 0.00 0.00 38.61 4.30
4924 5310 0.610687 CTTCGAGCACTCCTCCCTTT 59.389 55.000 0.00 0.00 37.27 3.11
4965 5354 4.052518 GGGGTGCTGCTCCCATGT 62.053 66.667 33.55 0.00 46.26 3.21
4966 5355 2.753043 GGGTGCTGCTCCCATGTG 60.753 66.667 29.70 0.00 44.05 3.21
4967 5356 2.034687 GGTGCTGCTCCCATGTGT 59.965 61.111 9.55 0.00 0.00 3.72
4968 5357 2.042831 GGTGCTGCTCCCATGTGTC 61.043 63.158 9.55 0.00 0.00 3.67
4969 5358 2.046988 TGCTGCTCCCATGTGTCG 60.047 61.111 0.00 0.00 0.00 4.35
4970 5359 2.046892 GCTGCTCCCATGTGTCGT 60.047 61.111 0.00 0.00 0.00 4.34
4971 5360 2.103042 GCTGCTCCCATGTGTCGTC 61.103 63.158 0.00 0.00 0.00 4.20
4972 5361 1.293179 CTGCTCCCATGTGTCGTCA 59.707 57.895 0.00 0.00 0.00 4.35
4973 5362 1.005037 TGCTCCCATGTGTCGTCAC 60.005 57.895 5.81 5.81 44.08 3.67
4974 5363 1.741770 GCTCCCATGTGTCGTCACC 60.742 63.158 10.28 0.00 43.26 4.02
4975 5364 1.079127 CTCCCATGTGTCGTCACCC 60.079 63.158 10.28 0.00 43.26 4.61
4976 5365 2.046314 CCCATGTGTCGTCACCCC 60.046 66.667 10.28 0.00 43.26 4.95
4977 5366 2.434185 CCATGTGTCGTCACCCCG 60.434 66.667 10.28 0.00 43.26 5.73
4978 5367 2.654289 CATGTGTCGTCACCCCGA 59.346 61.111 10.28 0.00 43.26 5.14
4979 5368 1.446099 CATGTGTCGTCACCCCGAG 60.446 63.158 10.28 0.00 43.26 4.63
4980 5369 2.646175 ATGTGTCGTCACCCCGAGG 61.646 63.158 10.28 0.00 43.26 4.63
4981 5370 4.736896 GTGTCGTCACCCCGAGGC 62.737 72.222 0.96 0.00 37.56 4.70
4992 5381 4.227134 CCGAGGCGCTGCTACCAT 62.227 66.667 7.64 0.00 0.00 3.55
4993 5382 2.728180 CGAGGCGCTGCTACCATA 59.272 61.111 7.64 0.00 0.00 2.74
4994 5383 1.372251 CGAGGCGCTGCTACCATAG 60.372 63.158 7.64 0.00 0.00 2.23
4995 5384 1.005630 GAGGCGCTGCTACCATAGG 60.006 63.158 7.64 0.00 0.00 2.57
4996 5385 2.031163 GGCGCTGCTACCATAGGG 59.969 66.667 7.64 0.00 41.29 3.53
5004 5425 1.672356 CTACCATAGGGCGCCATGC 60.672 63.158 30.85 11.48 45.38 4.06
5092 5514 0.318441 GAGCTGCTATGGACGCCATA 59.682 55.000 0.15 15.01 43.19 2.74
5223 5646 2.433436 GACACCTCCCATGTTACAACC 58.567 52.381 0.00 0.00 0.00 3.77
5238 5661 0.951558 CAACCGGTGTTCAAGGAAGG 59.048 55.000 8.52 0.00 30.42 3.46
5270 5693 1.548132 CGCAAAAAGCTTCAACCGGC 61.548 55.000 0.00 0.00 42.61 6.13
5272 5695 0.248866 CAAAAAGCTTCAACCGGCGT 60.249 50.000 6.01 0.00 0.00 5.68
5275 5698 3.802418 AAGCTTCAACCGGCGTCGT 62.802 57.895 9.28 0.00 33.95 4.34
5317 5740 2.230992 TGCCATCGCAAAAAGCTACAAT 59.769 40.909 0.00 0.00 43.74 2.71
5341 5764 0.306533 GTCGCAAAAAGCTTCGACCA 59.693 50.000 21.46 0.00 43.67 4.02
5344 5767 0.998727 GCAAAAAGCTTCGACCAGCG 60.999 55.000 0.00 0.00 45.24 5.18
5347 5770 0.531974 AAAAGCTTCGACCAGCGTCA 60.532 50.000 0.00 0.00 45.24 4.35
5382 5805 1.134367 CACGACGACATATGTCAGGGT 59.866 52.381 30.15 21.50 44.99 4.34
5392 5815 0.035056 ATGTCAGGGTTGGCTACTGC 60.035 55.000 0.00 0.00 38.76 4.40
5431 5854 2.979813 CAACCACATCGCAAAAAGCTAC 59.020 45.455 0.00 0.00 42.61 3.58
5438 5861 3.878086 TCGCAAAAAGCTACAACTGAG 57.122 42.857 0.00 0.00 42.61 3.35
5452 5875 1.680338 ACTGAGGTCGCAAAAAGCTT 58.320 45.000 0.00 0.00 42.61 3.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.670811 CATATTGTGGTGCTTCCCGAC 59.329 52.381 0.00 0.00 34.77 4.79
32 33 8.109634 AGGGGGCAGTTATAGTATCAAAATATG 58.890 37.037 0.00 0.00 0.00 1.78
51 52 0.178903 AAGTCTAGTGTGAGGGGGCA 60.179 55.000 0.00 0.00 0.00 5.36
80 81 2.940994 TTTTCCAGATGACAACCCGA 57.059 45.000 0.00 0.00 0.00 5.14
133 137 6.028146 TCATCAAATTTGGGTGACATCAAG 57.972 37.500 17.90 0.00 0.00 3.02
142 146 4.845796 AGTTCCCATTCATCAAATTTGGGT 59.154 37.500 17.90 4.89 33.89 4.51
170 174 1.196127 GGGCCTTTCGTGACGTTTAAG 59.804 52.381 4.40 7.48 0.00 1.85
179 183 1.738099 CGACAGAGGGCCTTTCGTG 60.738 63.158 19.46 12.70 39.51 4.35
226 230 5.514136 CCCTAGAGGTATTCGACAGAGAGAT 60.514 48.000 0.00 0.00 0.00 2.75
247 251 7.883833 GGAGAGACTTGAATAGTTTAAAACCCT 59.116 37.037 0.00 0.00 37.17 4.34
302 306 9.342308 GATTGAAATAGTGATGGGAATAGTCAA 57.658 33.333 0.00 0.00 0.00 3.18
307 311 7.725397 CCTTGGATTGAAATAGTGATGGGAATA 59.275 37.037 0.00 0.00 0.00 1.75
375 379 1.945394 CATATGACAGGCTTGAGTGGC 59.055 52.381 1.40 0.00 0.00 5.01
392 396 8.807118 CCTGTAGGTAGATATGAAGAAAGCATA 58.193 37.037 0.00 0.00 33.20 3.14
401 405 4.552674 TGTGCCCTGTAGGTAGATATGAA 58.447 43.478 0.00 0.00 38.26 2.57
411 415 3.350219 ACAACTATTGTGCCCTGTAGG 57.650 47.619 0.00 0.00 43.48 3.18
534 538 1.923204 CGATGACTACAAGCACTGAGC 59.077 52.381 0.00 0.00 46.19 4.26
539 543 1.438651 TTGGCGATGACTACAAGCAC 58.561 50.000 0.00 0.00 36.17 4.40
551 555 2.277084 GTCCGTAGACAATTTGGCGAT 58.723 47.619 0.78 0.00 42.99 4.58
556 560 3.328382 TCCAGGTCCGTAGACAATTTG 57.672 47.619 0.00 0.00 45.48 2.32
606 611 6.650807 TCTCGCAACAAAAATATCAAGAGAGT 59.349 34.615 0.00 0.00 0.00 3.24
618 623 4.037446 AGGCAGTATTTCTCGCAACAAAAA 59.963 37.500 0.00 0.00 0.00 1.94
619 624 3.568007 AGGCAGTATTTCTCGCAACAAAA 59.432 39.130 0.00 0.00 0.00 2.44
620 625 3.146066 AGGCAGTATTTCTCGCAACAAA 58.854 40.909 0.00 0.00 0.00 2.83
623 628 5.753921 ACTATAAGGCAGTATTTCTCGCAAC 59.246 40.000 0.00 0.00 0.00 4.17
649 654 7.383572 TGCGAGAAAGCTTCTAATCTATTCATC 59.616 37.037 0.00 0.00 40.87 2.92
725 730 8.087136 AGATTTCTCCATTGCTTTTCTTTTCTC 58.913 33.333 0.00 0.00 0.00 2.87
732 737 7.951530 TTTTCAGATTTCTCCATTGCTTTTC 57.048 32.000 0.00 0.00 0.00 2.29
874 886 3.159858 TTATAGTCGGGCTGGGCGC 62.160 63.158 0.00 0.00 38.15 6.53
875 887 1.300697 GTTATAGTCGGGCTGGGCG 60.301 63.158 0.00 0.00 0.00 6.13
879 891 4.056050 GTTGTATGGTTATAGTCGGGCTG 58.944 47.826 0.00 0.00 0.00 4.85
880 892 3.243636 CGTTGTATGGTTATAGTCGGGCT 60.244 47.826 0.00 0.00 0.00 5.19
891 903 4.760683 CGTTAAAACGTCGTTGTATGGTT 58.239 39.130 12.12 3.59 46.63 3.67
917 929 3.153919 TCCAAAGAGAACGGGGAATTTG 58.846 45.455 0.00 0.00 0.00 2.32
957 969 1.825341 GCATGGGATTTGGGCCTTC 59.175 57.895 4.53 0.00 0.00 3.46
975 987 2.043411 CAACCAACTTGTGCGATTTCG 58.957 47.619 0.00 0.00 43.27 3.46
976 988 1.786579 GCAACCAACTTGTGCGATTTC 59.213 47.619 0.00 0.00 31.73 2.17
1001 1013 4.856607 GCGGAGAGGAAGGACGCG 62.857 72.222 3.53 3.53 40.84 6.01
1108 1120 3.054655 AGGAGATTGGCTTAAAACGGCTA 60.055 43.478 0.00 0.00 0.00 3.93
1228 1241 3.095898 GAGAAATTGACGGCGGCGG 62.096 63.158 35.05 17.25 0.00 6.13
1320 1334 1.805945 GTGCGTGTAGGGCTTCTCG 60.806 63.158 0.00 0.00 0.00 4.04
1634 1653 1.618837 CTCCTCGAACTCAAGGTCCAA 59.381 52.381 0.00 0.00 34.12 3.53
1642 1661 2.031069 CACGAACTTCTCCTCGAACTCA 60.031 50.000 0.00 0.00 38.43 3.41
1683 1702 1.192146 AGCCAAGTGGACGCTCCTTA 61.192 55.000 0.18 0.00 37.46 2.69
1684 1703 2.032681 GCCAAGTGGACGCTCCTT 59.967 61.111 0.18 0.00 37.46 3.36
1720 1739 4.337274 AGGTAACAGAAACGAAACAAAGGG 59.663 41.667 0.00 0.00 41.41 3.95
1749 1768 8.812513 AACTATCATCAATTCACCATGAAAGA 57.187 30.769 0.00 0.00 40.12 2.52
1750 1769 8.680001 TGAACTATCATCAATTCACCATGAAAG 58.320 33.333 0.00 0.00 40.12 2.62
1753 1772 8.756486 AATGAACTATCATCAATTCACCATGA 57.244 30.769 0.00 0.00 45.60 3.07
1754 1773 9.888878 GTAATGAACTATCATCAATTCACCATG 57.111 33.333 0.00 0.00 45.60 3.66
1755 1774 9.857656 AGTAATGAACTATCATCAATTCACCAT 57.142 29.630 0.00 0.00 45.60 3.55
1756 1775 9.112725 CAGTAATGAACTATCATCAATTCACCA 57.887 33.333 0.00 0.00 45.60 4.17
1757 1776 8.562892 CCAGTAATGAACTATCATCAATTCACC 58.437 37.037 0.00 0.00 45.60 4.02
1758 1777 8.562892 CCCAGTAATGAACTATCATCAATTCAC 58.437 37.037 0.00 0.00 45.60 3.18
1759 1778 8.493607 TCCCAGTAATGAACTATCATCAATTCA 58.506 33.333 0.00 0.00 45.60 2.57
1760 1779 8.908786 TCCCAGTAATGAACTATCATCAATTC 57.091 34.615 0.00 0.00 45.60 2.17
1775 1794 7.041780 CGACCAGAGAAAATAATCCCAGTAATG 60.042 40.741 0.00 0.00 0.00 1.90
1835 1854 6.367695 CCTCGTACACATCACTGACAAAATAA 59.632 38.462 0.00 0.00 0.00 1.40
1871 1890 6.063496 AGTGACTCACTACCAGTATCACTA 57.937 41.667 10.13 0.00 43.46 2.74
1917 1936 3.244457 ACATCATCGTCATCAGATGCCAT 60.244 43.478 5.41 0.00 43.68 4.40
1991 2010 1.117150 ATGGCTTGCACAATGGGATC 58.883 50.000 0.00 0.00 0.00 3.36
2112 2131 1.568504 TGCCTCTACCCTGGTTGTAG 58.431 55.000 0.00 4.32 37.60 2.74
2175 2194 8.437742 CAAAAGAAATTGCTTACATCATGGAAC 58.562 33.333 0.00 0.00 0.00 3.62
2223 2242 6.980978 ACATATGACTGACTATGTACAACAGC 59.019 38.462 10.38 12.27 36.93 4.40
2226 2245 7.595502 GCCTACATATGACTGACTATGTACAAC 59.404 40.741 10.38 0.00 38.94 3.32
2243 2262 5.602978 ACAAGCACTTACTAGGCCTACATAT 59.397 40.000 8.91 0.00 0.00 1.78
2271 2290 6.749139 TCAGTGCTAACCTGATATACACATC 58.251 40.000 0.00 0.00 34.12 3.06
2293 2318 6.764085 CCAACATACCGGTGAAATACTAATCA 59.236 38.462 19.93 0.00 0.00 2.57
2312 2337 7.031415 TGGCATATACCATCTAATCCAACAT 57.969 36.000 0.00 0.00 33.75 2.71
2428 2453 9.638239 GGCAACATGACTTCTATTTTATTTGAA 57.362 29.630 0.00 0.00 0.00 2.69
2430 2455 8.984891 TGGCAACATGACTTCTATTTTATTTG 57.015 30.769 0.00 0.00 46.17 2.32
2473 2498 0.538057 GCCAATAGCCCATGCAGCTA 60.538 55.000 15.52 15.52 46.32 3.32
2570 2596 3.986996 TCATCAACAGGCTTCTCATCA 57.013 42.857 0.00 0.00 0.00 3.07
2788 2814 4.350245 ACAGTGAACTAGCATGTACCCTA 58.650 43.478 0.00 0.00 0.00 3.53
2924 2950 2.027653 GCTAGCTTCACCTCCTTCTTGT 60.028 50.000 7.70 0.00 0.00 3.16
2961 3032 1.761449 TCTTCTGTTTGGCTGCAACA 58.239 45.000 0.50 3.60 33.09 3.33
3004 3075 5.788450 CTTATCAGTGTCACCTTCAGAAGT 58.212 41.667 9.41 0.00 0.00 3.01
3025 3096 5.990120 ATGGTTCTTTTATCAGCTTGCTT 57.010 34.783 0.00 0.00 0.00 3.91
3039 3110 7.009540 GCTTAACATACGTACGTTATGGTTCTT 59.990 37.037 27.92 17.10 0.00 2.52
3041 3112 6.473455 AGCTTAACATACGTACGTTATGGTTC 59.527 38.462 27.92 16.11 32.70 3.62
3228 3467 4.272018 AGCTGAATTCATAACATCAGTCGC 59.728 41.667 8.96 4.27 41.03 5.19
3229 3468 5.980698 AGCTGAATTCATAACATCAGTCG 57.019 39.130 8.96 0.00 41.03 4.18
3430 3669 6.882610 ACTGATTACACTGAGCATTGAAAA 57.117 33.333 0.00 0.00 0.00 2.29
3640 3879 1.736126 GAACTTACCCAGCCTAAACGC 59.264 52.381 0.00 0.00 0.00 4.84
3729 3968 4.956075 CCAGCCTTTAATAACCTGTCCAAT 59.044 41.667 0.00 0.00 0.00 3.16
3836 4075 2.240493 ACTAACCGCATGTATCAGGC 57.760 50.000 0.00 0.00 37.83 4.85
3880 4119 4.514506 CGCATACCTATAACAAGCAAACG 58.485 43.478 0.00 0.00 0.00 3.60
3981 4220 0.603707 TCGAAACAAGCAGCTCCTGG 60.604 55.000 0.00 0.00 31.21 4.45
4100 4339 1.057851 AACCCCGGTCACCTCTTCAA 61.058 55.000 0.00 0.00 0.00 2.69
4114 4353 0.401356 TCGTCCCTTTTGGTAACCCC 59.599 55.000 0.00 0.00 38.10 4.95
4225 4464 5.047802 AGCTGATGGAAAAACAAGGTACATG 60.048 40.000 0.00 0.00 0.00 3.21
4241 4480 4.134379 AGTTGACATGTAGAGCTGATGG 57.866 45.455 0.00 0.00 0.00 3.51
4315 4555 5.240183 CCACAAAATCATCAGAGTGACAAGT 59.760 40.000 0.00 0.00 0.00 3.16
4325 4565 1.176527 ACGGGCCACAAAATCATCAG 58.823 50.000 4.39 0.00 0.00 2.90
4341 4581 4.829064 TTCCAGAAGAATGTCAAAACGG 57.171 40.909 0.00 0.00 0.00 4.44
4438 4694 2.746904 TCCAACCAACATACAGAATGCG 59.253 45.455 0.00 0.00 42.53 4.73
4450 4706 3.119708 GCAGAACATGAGATCCAACCAAC 60.120 47.826 0.00 0.00 0.00 3.77
4462 4718 3.754850 CAGATTCAACCAGCAGAACATGA 59.245 43.478 0.00 0.00 0.00 3.07
4466 4722 5.382618 AAATCAGATTCAACCAGCAGAAC 57.617 39.130 0.00 0.00 0.00 3.01
4467 4723 5.047802 GGAAAATCAGATTCAACCAGCAGAA 60.048 40.000 0.00 0.00 0.00 3.02
4517 4773 1.678635 CTCCTGCGATTTGGGGCAA 60.679 57.895 0.00 0.00 38.94 4.52
4518 4774 2.045045 CTCCTGCGATTTGGGGCA 60.045 61.111 0.00 0.00 37.63 5.36
4519 4775 0.965363 TTTCTCCTGCGATTTGGGGC 60.965 55.000 0.00 0.00 0.00 5.80
4521 4777 4.580167 TGATATTTTCTCCTGCGATTTGGG 59.420 41.667 0.00 0.00 0.00 4.12
4522 4778 5.278169 CCTGATATTTTCTCCTGCGATTTGG 60.278 44.000 0.00 0.00 0.00 3.28
4523 4779 5.528690 TCCTGATATTTTCTCCTGCGATTTG 59.471 40.000 0.00 0.00 0.00 2.32
4527 4808 3.960755 TCTCCTGATATTTTCTCCTGCGA 59.039 43.478 0.00 0.00 0.00 5.10
4544 4825 3.012518 CGAAATTGCATGGTTCTCTCCT 58.987 45.455 0.00 0.00 0.00 3.69
4553 4834 7.579589 TTAGTTTGAATTCGAAATTGCATGG 57.420 32.000 13.26 0.00 0.00 3.66
4622 4999 8.958119 TTTCATTTTCGCTACTATTATGACCT 57.042 30.769 0.00 0.00 0.00 3.85
4713 5090 3.171056 GGCGAACCGTGCGTAAAT 58.829 55.556 0.00 0.00 0.00 1.40
4726 5103 1.741401 CCAAGCATTCTGTCGGCGA 60.741 57.895 4.99 4.99 0.00 5.54
4732 5109 2.361610 CCGGCCCAAGCATTCTGT 60.362 61.111 0.00 0.00 42.56 3.41
4734 5111 2.044946 GACCGGCCCAAGCATTCT 60.045 61.111 0.00 0.00 42.56 2.40
4780 5162 7.834181 AGAATATAAGGTACACATGTTGCCTTT 59.166 33.333 24.13 17.46 40.28 3.11
4802 5184 2.357569 GGATGCAAGAGTTGGGGAGAAT 60.358 50.000 0.00 0.00 0.00 2.40
4814 5196 1.556911 GAGGAAGGAGTGGATGCAAGA 59.443 52.381 0.00 0.00 0.00 3.02
4816 5198 0.250234 CGAGGAAGGAGTGGATGCAA 59.750 55.000 0.00 0.00 0.00 4.08
4844 5229 2.546494 CGATGGGGGAAAGCGATGC 61.546 63.158 0.00 0.00 0.00 3.91
4846 5231 2.203209 GCGATGGGGGAAAGCGAT 60.203 61.111 0.00 0.00 0.00 4.58
4869 5255 2.509561 GAAGAGGCGAGGCGGAAC 60.510 66.667 0.00 0.00 0.00 3.62
4907 5293 1.975327 CAAAGGGAGGAGTGCTCGA 59.025 57.895 5.49 0.00 0.00 4.04
4975 5364 2.755542 CTATGGTAGCAGCGCCTCGG 62.756 65.000 2.29 0.00 0.00 4.63
4976 5365 1.372251 CTATGGTAGCAGCGCCTCG 60.372 63.158 2.29 0.00 0.00 4.63
4977 5366 1.005630 CCTATGGTAGCAGCGCCTC 60.006 63.158 2.29 0.00 0.00 4.70
4978 5367 2.511452 CCCTATGGTAGCAGCGCCT 61.511 63.158 2.29 0.00 0.00 5.52
4979 5368 2.031163 CCCTATGGTAGCAGCGCC 59.969 66.667 2.29 2.47 0.00 6.53
4980 5369 2.666526 GCCCTATGGTAGCAGCGC 60.667 66.667 0.00 0.00 0.00 5.92
4981 5370 2.356313 CGCCCTATGGTAGCAGCG 60.356 66.667 11.11 11.11 39.46 5.18
4982 5371 2.666526 GCGCCCTATGGTAGCAGC 60.667 66.667 0.00 0.00 37.36 5.25
4983 5372 2.031163 GGCGCCCTATGGTAGCAG 59.969 66.667 18.11 0.00 38.57 4.24
4984 5373 2.146724 ATGGCGCCCTATGGTAGCA 61.147 57.895 26.77 0.00 38.57 3.49
4985 5374 1.672356 CATGGCGCCCTATGGTAGC 60.672 63.158 26.77 0.00 36.91 3.58
4986 5375 1.672356 GCATGGCGCCCTATGGTAG 60.672 63.158 26.77 1.54 32.94 3.18
4987 5376 2.429930 GCATGGCGCCCTATGGTA 59.570 61.111 26.77 2.60 32.94 3.25
5004 5425 2.125350 GACCTTGAGCTCGCAGGG 60.125 66.667 27.43 19.46 40.57 4.45
5105 5527 4.052229 CGTCGTCGTTCTGCCCCT 62.052 66.667 0.00 0.00 0.00 4.79
5167 5590 1.144936 CCGGTGAGATTCTCCCAGC 59.855 63.158 11.12 3.22 0.00 4.85
5223 5646 1.071071 TGGTACCTTCCTTGAACACCG 59.929 52.381 14.36 0.00 0.00 4.94
5270 5693 0.165944 GGTTCCAGCATTTGACGACG 59.834 55.000 0.00 0.00 0.00 5.12
5272 5695 1.573829 GCGGTTCCAGCATTTGACGA 61.574 55.000 0.00 0.00 34.19 4.20
5275 5698 0.250684 TGAGCGGTTCCAGCATTTGA 60.251 50.000 0.00 0.00 37.01 2.69
5341 5764 2.479560 GGTTGAAGCTTTTTGTGACGCT 60.480 45.455 0.00 0.00 0.00 5.07
5344 5767 2.851824 CGTGGTTGAAGCTTTTTGTGAC 59.148 45.455 0.00 0.00 0.00 3.67
5347 5770 2.477189 CGTCGTGGTTGAAGCTTTTTGT 60.477 45.455 0.00 0.00 0.00 2.83
5431 5854 1.758783 GCTTTTTGCGACCTCAGTTG 58.241 50.000 0.00 0.00 0.00 3.16



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

AutoCloner maintained by Alex Coulton.