Multiple sequence alignment - TraesCS2B01G560400

Loading Multiple Alignment...

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 TraesCS2B01G560400 chr2B 100.000 4466 0 0 1 4466 753830990 753826525 0.000000e+00 8248.0
1 TraesCS2B01G560400 chr2B 95.960 2475 73 9 2013 4466 753765356 753767824 0.000000e+00 3991.0
2 TraesCS2B01G560400 chr2B 94.924 1182 44 10 961 2127 753747962 753749142 0.000000e+00 1836.0
3 TraesCS2B01G560400 chr2B 87.508 1489 137 20 2231 3706 753749182 753750634 0.000000e+00 1674.0
4 TraesCS2B01G560400 chr2B 90.088 908 83 2 2759 3660 753843317 753842411 0.000000e+00 1171.0
5 TraesCS2B01G560400 chr2B 89.798 892 86 3 1011 1898 765594804 765593914 0.000000e+00 1138.0
6 TraesCS2B01G560400 chr2B 88.093 907 108 0 997 1903 765572198 765573104 0.000000e+00 1077.0
7 TraesCS2B01G560400 chr2B 91.852 135 11 0 813 947 753747777 753747911 5.900000e-44 189.0
8 TraesCS2B01G560400 chr2B 92.683 41 3 0 1981 2021 765581223 765581263 4.820000e-05 60.2
9 TraesCS2B01G560400 chr2B 91.892 37 3 0 2160 2196 799515247 799515283 8.000000e-03 52.8
10 TraesCS2B01G560400 chr2A 94.758 1259 57 4 946 2204 748088548 748089797 0.000000e+00 1951.0
11 TraesCS2B01G560400 chr2A 94.048 1092 61 3 2641 3730 748165831 748166920 0.000000e+00 1653.0
12 TraesCS2B01G560400 chr2A 93.956 1092 63 2 2641 3730 748124838 748125928 0.000000e+00 1648.0
13 TraesCS2B01G560400 chr2A 93.315 1092 70 2 2641 3730 748190191 748191281 0.000000e+00 1609.0
14 TraesCS2B01G560400 chr2A 85.813 1452 169 25 2287 3722 748079741 748081171 0.000000e+00 1506.0
15 TraesCS2B01G560400 chr2A 92.460 1061 60 13 997 2053 748078215 748079259 0.000000e+00 1498.0
16 TraesCS2B01G560400 chr2A 90.044 904 83 6 1000 1898 755335701 755336602 0.000000e+00 1164.0
17 TraesCS2B01G560400 chr2A 89.336 919 91 5 1000 1914 755177510 755176595 0.000000e+00 1147.0
18 TraesCS2B01G560400 chr2A 90.306 588 49 6 1964 2550 748165252 748165832 0.000000e+00 763.0
19 TraesCS2B01G560400 chr2A 90.136 588 50 6 1964 2550 748189612 748190192 0.000000e+00 758.0
20 TraesCS2B01G560400 chr2A 89.686 446 44 1 1458 1903 755086151 755086594 6.480000e-158 568.0
21 TraesCS2B01G560400 chr2A 85.828 501 55 11 3698 4190 695804063 695803571 6.620000e-143 518.0
22 TraesCS2B01G560400 chr2A 89.112 349 31 6 2203 2550 748124497 748124839 1.150000e-115 427.0
23 TraesCS2B01G560400 chr2A 94.286 105 6 0 832 936 748088396 748088500 1.290000e-35 161.0
24 TraesCS2B01G560400 chr2A 82.609 92 16 0 2135 2226 715403267 715403176 1.030000e-11 82.4
25 TraesCS2B01G560400 chr2A 92.453 53 2 2 1971 2021 755113317 755113369 1.720000e-09 75.0
26 TraesCS2B01G560400 chr2D 88.609 1510 140 16 2232 3730 617511107 617512595 0.000000e+00 1807.0
27 TraesCS2B01G560400 chr2D 85.065 1453 182 19 2287 3722 617463421 617464855 0.000000e+00 1448.0
28 TraesCS2B01G560400 chr2D 90.466 902 83 3 1000 1898 623958499 623957598 0.000000e+00 1186.0
29 TraesCS2B01G560400 chr2D 88.274 904 106 0 997 1900 623895267 623896170 0.000000e+00 1083.0
30 TraesCS2B01G560400 chr2D 87.248 447 43 9 3761 4201 607271295 607270857 8.630000e-137 497.0
31 TraesCS2B01G560400 chr2D 89.055 402 30 9 1738 2130 617510676 617511072 1.870000e-133 486.0
32 TraesCS2B01G560400 chr7D 87.916 902 106 1 997 1898 534473057 534472159 0.000000e+00 1059.0
33 TraesCS2B01G560400 chr7D 85.062 482 53 14 3722 4190 75590863 75590388 1.450000e-129 473.0
34 TraesCS2B01G560400 chr7B 90.346 694 52 7 1 684 639774006 639774694 0.000000e+00 896.0
35 TraesCS2B01G560400 chr7B 89.390 688 60 9 1 684 105039320 105038642 0.000000e+00 854.0
36 TraesCS2B01G560400 chr4A 90.057 704 48 7 1 684 739848402 739847701 0.000000e+00 893.0
37 TraesCS2B01G560400 chr4A 89.616 703 50 10 1 684 740545070 740544372 0.000000e+00 872.0
38 TraesCS2B01G560400 chr4A 92.097 620 46 2 1 620 742040383 742039767 0.000000e+00 870.0
39 TraesCS2B01G560400 chr4A 84.939 571 50 20 3744 4284 567392900 567392336 3.040000e-151 545.0
40 TraesCS2B01G560400 chr4A 85.714 182 24 2 4104 4284 567392229 567392049 1.640000e-44 191.0
41 TraesCS2B01G560400 chr4A 92.424 66 5 0 4326 4391 580666166 580666231 1.320000e-15 95.3
42 TraesCS2B01G560400 chr4B 91.948 621 47 3 1 620 645819096 645818478 0.000000e+00 867.0
43 TraesCS2B01G560400 chr4B 91.452 620 51 2 1 620 645645622 645645005 0.000000e+00 850.0
44 TraesCS2B01G560400 chr4B 91.465 621 50 3 1 620 645724710 645724092 0.000000e+00 850.0
45 TraesCS2B01G560400 chrUn 91.452 620 49 3 1 620 9816986 9817601 0.000000e+00 848.0
46 TraesCS2B01G560400 chrUn 86.157 484 48 13 3725 4201 1931737 1931266 5.160000e-139 505.0
47 TraesCS2B01G560400 chrUn 92.308 91 7 0 4194 4284 211365919 211365829 3.630000e-26 130.0
48 TraesCS2B01G560400 chrUn 92.308 91 7 0 4194 4284 289587740 289587830 3.630000e-26 130.0
49 TraesCS2B01G560400 chr3D 90.836 622 50 6 1 620 614447327 614446711 0.000000e+00 826.0
50 TraesCS2B01G560400 chr3B 87.815 476 44 8 3723 4190 330774829 330775298 3.040000e-151 545.0
51 TraesCS2B01G560400 chr1D 86.420 486 46 13 3722 4194 485875823 485875345 8.570000e-142 514.0
52 TraesCS2B01G560400 chr1D 77.725 211 25 13 4194 4404 404763076 404762888 4.720000e-20 110.0
53 TraesCS2B01G560400 chr5A 85.230 501 57 12 3698 4190 450410675 450411166 2.400000e-137 499.0
54 TraesCS2B01G560400 chr5D 84.310 478 62 9 3722 4190 535806967 535807440 5.270000e-124 455.0
55 TraesCS2B01G560400 chr5D 93.333 90 5 1 4199 4287 227398545 227398456 1.010000e-26 132.0
56 TraesCS2B01G560400 chr4D 90.254 236 22 1 4020 4254 227674447 227674212 1.560000e-79 307.0
57 TraesCS2B01G560400 chr4D 84.746 118 8 5 4280 4387 40795414 40795531 4.720000e-20 110.0
58 TraesCS2B01G560400 chr5B 82.464 211 24 6 4194 4391 644840438 644840228 5.940000e-39 172.0
59 TraesCS2B01G560400 chr1B 82.075 212 23 9 4194 4391 417007803 417008013 2.760000e-37 167.0
60 TraesCS2B01G560400 chr1B 79.188 197 24 10 4194 4390 194788686 194788865 2.180000e-23 121.0
61 TraesCS2B01G560400 chr6B 80.412 194 21 12 4197 4390 703585454 703585630 1.010000e-26 132.0
62 TraesCS2B01G560400 chr6B 92.308 65 4 1 4327 4390 139895862 139895798 1.710000e-14 91.6


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 TraesCS2B01G560400 chr2B 753826525 753830990 4465 True 8248.0 8248 100.0000 1 4466 1 chr2B.!!$R1 4465
1 TraesCS2B01G560400 chr2B 753765356 753767824 2468 False 3991.0 3991 95.9600 2013 4466 1 chr2B.!!$F1 2453
2 TraesCS2B01G560400 chr2B 753747777 753750634 2857 False 1233.0 1836 91.4280 813 3706 3 chr2B.!!$F5 2893
3 TraesCS2B01G560400 chr2B 753842411 753843317 906 True 1171.0 1171 90.0880 2759 3660 1 chr2B.!!$R2 901
4 TraesCS2B01G560400 chr2B 765593914 765594804 890 True 1138.0 1138 89.7980 1011 1898 1 chr2B.!!$R3 887
5 TraesCS2B01G560400 chr2B 765572198 765573104 906 False 1077.0 1077 88.0930 997 1903 1 chr2B.!!$F2 906
6 TraesCS2B01G560400 chr2A 748078215 748081171 2956 False 1502.0 1506 89.1365 997 3722 2 chr2A.!!$F4 2725
7 TraesCS2B01G560400 chr2A 748165252 748166920 1668 False 1208.0 1653 92.1770 1964 3730 2 chr2A.!!$F7 1766
8 TraesCS2B01G560400 chr2A 748189612 748191281 1669 False 1183.5 1609 91.7255 1964 3730 2 chr2A.!!$F8 1766
9 TraesCS2B01G560400 chr2A 755335701 755336602 901 False 1164.0 1164 90.0440 1000 1898 1 chr2A.!!$F3 898
10 TraesCS2B01G560400 chr2A 755176595 755177510 915 True 1147.0 1147 89.3360 1000 1914 1 chr2A.!!$R3 914
11 TraesCS2B01G560400 chr2A 748088396 748089797 1401 False 1056.0 1951 94.5220 832 2204 2 chr2A.!!$F5 1372
12 TraesCS2B01G560400 chr2A 748124497 748125928 1431 False 1037.5 1648 91.5340 2203 3730 2 chr2A.!!$F6 1527
13 TraesCS2B01G560400 chr2D 617463421 617464855 1434 False 1448.0 1448 85.0650 2287 3722 1 chr2D.!!$F1 1435
14 TraesCS2B01G560400 chr2D 623957598 623958499 901 True 1186.0 1186 90.4660 1000 1898 1 chr2D.!!$R2 898
15 TraesCS2B01G560400 chr2D 617510676 617512595 1919 False 1146.5 1807 88.8320 1738 3730 2 chr2D.!!$F3 1992
16 TraesCS2B01G560400 chr2D 623895267 623896170 903 False 1083.0 1083 88.2740 997 1900 1 chr2D.!!$F2 903
17 TraesCS2B01G560400 chr7D 534472159 534473057 898 True 1059.0 1059 87.9160 997 1898 1 chr7D.!!$R2 901
18 TraesCS2B01G560400 chr7B 639774006 639774694 688 False 896.0 896 90.3460 1 684 1 chr7B.!!$F1 683
19 TraesCS2B01G560400 chr7B 105038642 105039320 678 True 854.0 854 89.3900 1 684 1 chr7B.!!$R1 683
20 TraesCS2B01G560400 chr4A 739847701 739848402 701 True 893.0 893 90.0570 1 684 1 chr4A.!!$R1 683
21 TraesCS2B01G560400 chr4A 740544372 740545070 698 True 872.0 872 89.6160 1 684 1 chr4A.!!$R2 683
22 TraesCS2B01G560400 chr4A 742039767 742040383 616 True 870.0 870 92.0970 1 620 1 chr4A.!!$R3 619
23 TraesCS2B01G560400 chr4A 567392049 567392900 851 True 368.0 545 85.3265 3744 4284 2 chr4A.!!$R4 540
24 TraesCS2B01G560400 chr4B 645818478 645819096 618 True 867.0 867 91.9480 1 620 1 chr4B.!!$R3 619
25 TraesCS2B01G560400 chr4B 645645005 645645622 617 True 850.0 850 91.4520 1 620 1 chr4B.!!$R1 619
26 TraesCS2B01G560400 chr4B 645724092 645724710 618 True 850.0 850 91.4650 1 620 1 chr4B.!!$R2 619
27 TraesCS2B01G560400 chrUn 9816986 9817601 615 False 848.0 848 91.4520 1 620 1 chrUn.!!$F1 619
28 TraesCS2B01G560400 chr3D 614446711 614447327 616 True 826.0 826 90.8360 1 620 1 chr3D.!!$R1 619

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
729 753 0.034186 CAGCTGCTGGGTCCCAATTA 60.034 55.0 21.71 0.0 30.8 1.40 F
747 771 0.034337 TAGCGTGTGACTTGGTTCCC 59.966 55.0 0.00 0.0 0.0 3.97 F
751 775 0.250770 GTGTGACTTGGTTCCCTCCC 60.251 60.0 0.00 0.0 0.0 4.30 F
760 784 0.401356 GGTTCCCTCCCGGTTGTAAA 59.599 55.0 0.00 0.0 0.0 2.01 F
2618 3015 0.443869 CCAACGCGTGAAGAATGGAG 59.556 55.0 18.32 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2428 2823 0.391661 AACACATGAGTAGCCTGCCG 60.392 55.000 0.00 0.00 0.00 5.69 R
2571 2966 2.336945 CAGTCATGCAAGGGCTATCA 57.663 50.000 0.00 0.00 41.91 2.15 R
2716 3113 5.699001 TGAACCACACATACATGTACTGTTC 59.301 40.000 7.96 13.65 39.39 3.18 R
2785 3189 4.997395 AGATACACTAAACAAGCACCACAG 59.003 41.667 0.00 0.00 0.00 3.66 R
3988 4473 0.614812 TTCGGGTGGGGCTACTAAAC 59.385 55.000 0.00 0.00 0.00 2.01 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
127 130 0.398318 AGAACAAGAGGCTCACCACC 59.602 55.000 18.26 2.77 39.06 4.61
217 220 8.665685 CAGAACGCTAAACCTAGACAAATATTT 58.334 33.333 0.00 0.00 0.00 1.40
245 248 5.542616 AATGAAGTTTGAAGATCGAGCTG 57.457 39.130 2.80 0.00 0.00 4.24
259 262 1.567357 GAGCTGGGAGAGGAGAAAGT 58.433 55.000 0.00 0.00 0.00 2.66
267 270 6.356186 TGGGAGAGGAGAAAGTTTAAGTAC 57.644 41.667 0.00 0.00 0.00 2.73
278 281 2.895404 AGTTTAAGTACTGTGGCTCGGA 59.105 45.455 0.00 0.00 0.00 4.55
416 421 9.338968 AGGGTATATATAGACACATCATTGGTT 57.661 33.333 12.13 0.00 0.00 3.67
445 450 5.809001 TCATGGCTTGAACTGAGACTAAAT 58.191 37.500 0.00 0.00 0.00 1.40
462 467 0.114364 AATGACACCCTTTGGTCCCC 59.886 55.000 0.00 0.00 45.57 4.81
473 478 2.114411 GGTCCCCGTTCAAGCCAA 59.886 61.111 0.00 0.00 0.00 4.52
481 486 1.440938 CGTTCAAGCCAACCAACCGA 61.441 55.000 0.00 0.00 0.00 4.69
482 487 0.741915 GTTCAAGCCAACCAACCGAA 59.258 50.000 0.00 0.00 0.00 4.30
485 490 0.457851 CAAGCCAACCAACCGAAACA 59.542 50.000 0.00 0.00 0.00 2.83
549 554 2.203437 ACCAACCGGGACCAAAGC 60.203 61.111 6.32 0.00 41.15 3.51
620 625 0.037590 CCTCATGAACCGGGACCAAA 59.962 55.000 6.32 0.00 0.00 3.28
626 650 0.604511 GAACCGGGACCAAACGTGAT 60.605 55.000 6.32 0.00 0.00 3.06
632 656 2.227194 GGGACCAAACGTGATTGAACT 58.773 47.619 1.50 0.00 31.84 3.01
642 666 4.906618 ACGTGATTGAACTGGGACTAATT 58.093 39.130 0.00 0.00 0.00 1.40
665 689 2.747446 GCTTATCTGGCCTGAACGAAAA 59.253 45.455 17.04 5.67 0.00 2.29
666 690 3.190535 GCTTATCTGGCCTGAACGAAAAA 59.809 43.478 17.04 4.08 0.00 1.94
684 708 7.500141 ACGAAAAACCCTGTTTTCTACTAGTA 58.500 34.615 1.89 1.89 42.72 1.82
685 709 7.986889 ACGAAAAACCCTGTTTTCTACTAGTAA 59.013 33.333 3.76 0.00 42.72 2.24
686 710 8.493547 CGAAAAACCCTGTTTTCTACTAGTAAG 58.506 37.037 3.76 0.00 42.72 2.34
687 711 8.687292 AAAAACCCTGTTTTCTACTAGTAAGG 57.313 34.615 3.76 6.57 0.00 2.69
689 713 4.781621 ACCCTGTTTTCTACTAGTAAGGGG 59.218 45.833 27.62 18.98 46.23 4.79
690 714 4.781621 CCCTGTTTTCTACTAGTAAGGGGT 59.218 45.833 20.84 0.00 39.62 4.95
691 715 5.250082 CCCTGTTTTCTACTAGTAAGGGGTT 59.750 44.000 20.84 0.00 39.62 4.11
692 716 6.171213 CCTGTTTTCTACTAGTAAGGGGTTG 58.829 44.000 3.76 0.00 0.00 3.77
693 717 6.013984 CCTGTTTTCTACTAGTAAGGGGTTGA 60.014 42.308 3.76 0.00 0.00 3.18
694 718 7.001099 TGTTTTCTACTAGTAAGGGGTTGAG 57.999 40.000 3.76 0.00 0.00 3.02
695 719 6.013984 TGTTTTCTACTAGTAAGGGGTTGAGG 60.014 42.308 3.76 0.00 0.00 3.86
696 720 5.541258 TTCTACTAGTAAGGGGTTGAGGA 57.459 43.478 3.76 0.00 0.00 3.71
697 721 4.864726 TCTACTAGTAAGGGGTTGAGGAC 58.135 47.826 3.76 0.00 0.00 3.85
708 732 3.382048 GGTTGAGGACCGTCATATACC 57.618 52.381 0.00 1.00 39.00 2.73
709 733 2.963782 GGTTGAGGACCGTCATATACCT 59.036 50.000 0.00 0.00 39.00 3.08
710 734 3.005578 GGTTGAGGACCGTCATATACCTC 59.994 52.174 0.00 0.00 44.90 3.85
713 737 2.229302 GAGGACCGTCATATACCTCAGC 59.771 54.545 0.00 0.00 44.31 4.26
714 738 2.158445 AGGACCGTCATATACCTCAGCT 60.158 50.000 0.00 0.00 0.00 4.24
715 739 2.029828 GGACCGTCATATACCTCAGCTG 60.030 54.545 7.63 7.63 0.00 4.24
716 740 1.341531 ACCGTCATATACCTCAGCTGC 59.658 52.381 9.47 0.00 0.00 5.25
717 741 1.615883 CCGTCATATACCTCAGCTGCT 59.384 52.381 9.47 0.00 0.00 4.24
718 742 2.608998 CCGTCATATACCTCAGCTGCTG 60.609 54.545 23.31 23.31 0.00 4.41
719 743 2.608998 CGTCATATACCTCAGCTGCTGG 60.609 54.545 27.79 16.41 31.51 4.85
720 744 1.973515 TCATATACCTCAGCTGCTGGG 59.026 52.381 27.79 25.29 31.51 4.45
721 745 1.696336 CATATACCTCAGCTGCTGGGT 59.304 52.381 31.39 31.39 38.17 4.51
722 746 1.414158 TATACCTCAGCTGCTGGGTC 58.586 55.000 32.14 0.00 36.75 4.46
723 747 1.341156 ATACCTCAGCTGCTGGGTCC 61.341 60.000 32.14 0.00 36.75 4.46
724 748 4.106925 CCTCAGCTGCTGGGTCCC 62.107 72.222 26.56 0.00 28.24 4.46
725 749 3.324930 CTCAGCTGCTGGGTCCCA 61.325 66.667 27.79 11.11 31.51 4.37
726 750 2.853542 TCAGCTGCTGGGTCCCAA 60.854 61.111 27.79 5.33 30.80 4.12
727 751 2.207501 CTCAGCTGCTGGGTCCCAAT 62.208 60.000 27.79 0.00 30.80 3.16
728 752 1.304713 CAGCTGCTGGGTCCCAATT 60.305 57.895 21.71 0.00 30.80 2.32
729 753 0.034186 CAGCTGCTGGGTCCCAATTA 60.034 55.000 21.71 0.00 30.80 1.40
730 754 0.257039 AGCTGCTGGGTCCCAATTAG 59.743 55.000 12.96 11.24 30.80 1.73
731 755 1.387295 GCTGCTGGGTCCCAATTAGC 61.387 60.000 19.35 19.35 30.80 3.09
732 756 1.077787 TGCTGGGTCCCAATTAGCG 60.078 57.895 12.96 0.00 37.20 4.26
733 757 1.077716 GCTGGGTCCCAATTAGCGT 60.078 57.895 12.96 0.00 30.80 5.07
734 758 1.376609 GCTGGGTCCCAATTAGCGTG 61.377 60.000 12.96 0.00 30.80 5.34
735 759 0.035439 CTGGGTCCCAATTAGCGTGT 60.035 55.000 12.96 0.00 30.80 4.49
736 760 0.322098 TGGGTCCCAATTAGCGTGTG 60.322 55.000 8.65 0.00 0.00 3.82
737 761 0.035820 GGGTCCCAATTAGCGTGTGA 60.036 55.000 1.78 0.00 0.00 3.58
738 762 1.084289 GGTCCCAATTAGCGTGTGAC 58.916 55.000 0.00 0.00 0.00 3.67
739 763 1.338769 GGTCCCAATTAGCGTGTGACT 60.339 52.381 0.00 0.00 0.00 3.41
740 764 2.423577 GTCCCAATTAGCGTGTGACTT 58.576 47.619 0.00 0.00 0.00 3.01
741 765 2.159627 GTCCCAATTAGCGTGTGACTTG 59.840 50.000 0.00 0.00 0.00 3.16
742 766 1.468520 CCCAATTAGCGTGTGACTTGG 59.531 52.381 0.00 0.00 34.31 3.61
743 767 2.151202 CCAATTAGCGTGTGACTTGGT 58.849 47.619 0.00 0.00 0.00 3.67
744 768 2.552315 CCAATTAGCGTGTGACTTGGTT 59.448 45.455 0.00 0.00 0.00 3.67
745 769 3.364964 CCAATTAGCGTGTGACTTGGTTC 60.365 47.826 0.00 0.00 0.00 3.62
746 770 1.873698 TTAGCGTGTGACTTGGTTCC 58.126 50.000 0.00 0.00 0.00 3.62
747 771 0.034337 TAGCGTGTGACTTGGTTCCC 59.966 55.000 0.00 0.00 0.00 3.97
748 772 1.227853 GCGTGTGACTTGGTTCCCT 60.228 57.895 0.00 0.00 0.00 4.20
749 773 1.228657 GCGTGTGACTTGGTTCCCTC 61.229 60.000 0.00 0.00 0.00 4.30
750 774 0.602905 CGTGTGACTTGGTTCCCTCC 60.603 60.000 0.00 0.00 0.00 4.30
751 775 0.250770 GTGTGACTTGGTTCCCTCCC 60.251 60.000 0.00 0.00 0.00 4.30
752 776 1.003718 GTGACTTGGTTCCCTCCCG 60.004 63.158 0.00 0.00 0.00 5.14
753 777 2.221299 TGACTTGGTTCCCTCCCGG 61.221 63.158 0.00 0.00 0.00 5.73
754 778 2.122099 ACTTGGTTCCCTCCCGGT 60.122 61.111 0.00 0.00 0.00 5.28
755 779 1.772979 ACTTGGTTCCCTCCCGGTT 60.773 57.895 0.00 0.00 0.00 4.44
756 780 1.303317 CTTGGTTCCCTCCCGGTTG 60.303 63.158 0.00 0.00 0.00 3.77
757 781 2.064242 CTTGGTTCCCTCCCGGTTGT 62.064 60.000 0.00 0.00 0.00 3.32
758 782 0.767446 TTGGTTCCCTCCCGGTTGTA 60.767 55.000 0.00 0.00 0.00 2.41
759 783 0.767446 TGGTTCCCTCCCGGTTGTAA 60.767 55.000 0.00 0.00 0.00 2.41
760 784 0.401356 GGTTCCCTCCCGGTTGTAAA 59.599 55.000 0.00 0.00 0.00 2.01
761 785 1.005097 GGTTCCCTCCCGGTTGTAAAT 59.995 52.381 0.00 0.00 0.00 1.40
762 786 2.239402 GGTTCCCTCCCGGTTGTAAATA 59.761 50.000 0.00 0.00 0.00 1.40
763 787 3.273434 GTTCCCTCCCGGTTGTAAATAC 58.727 50.000 0.00 0.00 0.00 1.89
764 788 2.836667 TCCCTCCCGGTTGTAAATACT 58.163 47.619 0.00 0.00 0.00 2.12
765 789 2.767960 TCCCTCCCGGTTGTAAATACTC 59.232 50.000 0.00 0.00 0.00 2.59
766 790 2.158856 CCCTCCCGGTTGTAAATACTCC 60.159 54.545 0.00 0.00 0.00 3.85
767 791 2.158856 CCTCCCGGTTGTAAATACTCCC 60.159 54.545 0.00 0.00 0.00 4.30
768 792 2.770232 CTCCCGGTTGTAAATACTCCCT 59.230 50.000 0.00 0.00 0.00 4.20
769 793 3.962718 CTCCCGGTTGTAAATACTCCCTA 59.037 47.826 0.00 0.00 0.00 3.53
770 794 3.962718 TCCCGGTTGTAAATACTCCCTAG 59.037 47.826 0.00 0.00 0.00 3.02
771 795 3.708121 CCCGGTTGTAAATACTCCCTAGT 59.292 47.826 0.00 0.00 39.91 2.57
772 796 4.895297 CCCGGTTGTAAATACTCCCTAGTA 59.105 45.833 0.00 0.00 42.35 1.82
773 797 5.221322 CCCGGTTGTAAATACTCCCTAGTAC 60.221 48.000 0.00 0.00 40.98 2.73
774 798 5.360714 CCGGTTGTAAATACTCCCTAGTACA 59.639 44.000 0.00 0.00 40.98 2.90
775 799 6.460676 CCGGTTGTAAATACTCCCTAGTACAG 60.461 46.154 0.00 0.00 40.98 2.74
776 800 6.096001 CGGTTGTAAATACTCCCTAGTACAGT 59.904 42.308 0.00 0.00 40.98 3.55
777 801 7.283127 CGGTTGTAAATACTCCCTAGTACAGTA 59.717 40.741 0.00 0.00 40.98 2.74
778 802 9.140874 GGTTGTAAATACTCCCTAGTACAGTAT 57.859 37.037 0.00 0.00 40.98 2.12
779 803 9.962783 GTTGTAAATACTCCCTAGTACAGTATG 57.037 37.037 4.16 0.00 40.98 2.39
798 822 3.706802 TGTTTCACAAACATCACGCAT 57.293 38.095 0.00 0.00 45.79 4.73
799 823 4.039151 TGTTTCACAAACATCACGCATT 57.961 36.364 0.00 0.00 45.79 3.56
800 824 5.175090 TGTTTCACAAACATCACGCATTA 57.825 34.783 0.00 0.00 45.79 1.90
801 825 4.973051 TGTTTCACAAACATCACGCATTAC 59.027 37.500 0.00 0.00 45.79 1.89
802 826 4.820284 TTCACAAACATCACGCATTACA 57.180 36.364 0.00 0.00 0.00 2.41
803 827 5.369685 TTCACAAACATCACGCATTACAT 57.630 34.783 0.00 0.00 0.00 2.29
804 828 6.487689 TTCACAAACATCACGCATTACATA 57.512 33.333 0.00 0.00 0.00 2.29
805 829 6.676237 TCACAAACATCACGCATTACATAT 57.324 33.333 0.00 0.00 0.00 1.78
806 830 7.082700 TCACAAACATCACGCATTACATATT 57.917 32.000 0.00 0.00 0.00 1.28
807 831 7.186128 TCACAAACATCACGCATTACATATTC 58.814 34.615 0.00 0.00 0.00 1.75
808 832 6.966066 CACAAACATCACGCATTACATATTCA 59.034 34.615 0.00 0.00 0.00 2.57
809 833 7.484324 CACAAACATCACGCATTACATATTCAA 59.516 33.333 0.00 0.00 0.00 2.69
810 834 8.026026 ACAAACATCACGCATTACATATTCAAA 58.974 29.630 0.00 0.00 0.00 2.69
811 835 8.858186 CAAACATCACGCATTACATATTCAAAA 58.142 29.630 0.00 0.00 0.00 2.44
819 843 7.870445 ACGCATTACATATTCAAAAACCTTTGT 59.130 29.630 0.00 0.00 42.26 2.83
856 880 3.313249 CCATGCATGTCAATATGTCACGT 59.687 43.478 24.58 0.00 0.00 4.49
859 883 4.499183 TGCATGTCAATATGTCACGTGTA 58.501 39.130 16.51 6.58 30.90 2.90
881 905 3.743208 TCGTGACACGACGGGTAA 58.257 55.556 26.04 2.71 46.73 2.85
947 971 3.056107 CCCCGAACAGTACAAAGATCTCA 60.056 47.826 0.00 0.00 0.00 3.27
948 972 4.383118 CCCCGAACAGTACAAAGATCTCAT 60.383 45.833 0.00 0.00 0.00 2.90
971 1044 4.235762 ACACCTGTTCCGTGCGCT 62.236 61.111 9.73 0.00 34.45 5.92
977 1050 1.075542 CTGTTCCGTGCGCTGATTTA 58.924 50.000 9.73 0.00 0.00 1.40
981 1054 2.892373 TCCGTGCGCTGATTTAAAAG 57.108 45.000 9.73 0.00 0.00 2.27
982 1055 2.418692 TCCGTGCGCTGATTTAAAAGA 58.581 42.857 9.73 0.00 0.00 2.52
983 1056 2.158841 TCCGTGCGCTGATTTAAAAGAC 59.841 45.455 9.73 0.00 0.00 3.01
984 1057 2.505866 CGTGCGCTGATTTAAAAGACC 58.494 47.619 9.73 0.00 0.00 3.85
1086 1160 0.992695 TCCTCAACCTCCTCTCTCGA 59.007 55.000 0.00 0.00 0.00 4.04
1936 2022 8.253810 TCTGAGAGGACACAAAAGATATACTTG 58.746 37.037 0.00 0.00 38.98 3.16
2226 2608 7.824779 ACAAGTAATTTGATTCAGAGGGAGTAC 59.175 37.037 0.00 0.00 39.21 2.73
2227 2609 6.890293 AGTAATTTGATTCAGAGGGAGTACC 58.110 40.000 0.00 0.00 40.67 3.34
2228 2610 5.779241 AATTTGATTCAGAGGGAGTACCA 57.221 39.130 0.00 0.00 43.89 3.25
2229 2611 4.826274 TTTGATTCAGAGGGAGTACCAG 57.174 45.455 0.00 0.00 43.89 4.00
2262 2647 7.795482 TTGTTTATTTCCCTATGTATGGACG 57.205 36.000 0.00 0.00 0.00 4.79
2364 2758 8.438676 AAGTAACATTTGGATACTCATGTAGC 57.561 34.615 0.00 0.00 38.50 3.58
2382 2776 5.368145 TGTAGCCATGTTTATGCCTCTAAG 58.632 41.667 0.00 0.00 32.79 2.18
2395 2789 5.336150 TGCCTCTAAGATTCAGACAGAAG 57.664 43.478 0.00 0.00 40.15 2.85
2407 2801 3.127721 TCAGACAGAAGAGTCGCACATAG 59.872 47.826 0.00 0.00 43.24 2.23
2571 2966 3.530017 ACCCCATTTCCAACAATTCCAT 58.470 40.909 0.00 0.00 0.00 3.41
2572 2967 3.263937 ACCCCATTTCCAACAATTCCATG 59.736 43.478 0.00 0.00 0.00 3.66
2581 2976 3.962718 CCAACAATTCCATGATAGCCCTT 59.037 43.478 0.00 0.00 0.00 3.95
2618 3015 0.443869 CCAACGCGTGAAGAATGGAG 59.556 55.000 18.32 0.00 0.00 3.86
2716 3113 6.574350 AGGTGTTTCTTCTATAGTTCATCCG 58.426 40.000 0.00 0.00 0.00 4.18
2735 3132 4.490743 TCCGAACAGTACATGTATGTGTG 58.509 43.478 19.20 12.68 43.00 3.82
2914 3321 0.533491 CACAGTGGAATGGGCAATGG 59.467 55.000 0.00 0.00 0.00 3.16
3209 3616 5.234466 ACTGAACCTGAGAAGTTTATGCT 57.766 39.130 0.00 0.00 0.00 3.79
3248 3655 4.850680 TCAACAGTTGACTTTAAGGGTGT 58.149 39.130 12.24 0.00 34.08 4.16
3275 3682 1.425066 TGAGCTCCTTCCATTTGGTGT 59.575 47.619 12.15 0.00 36.34 4.16
3458 3865 4.562082 CCTCTTCGTATTGTACCAACACA 58.438 43.478 0.00 0.00 34.61 3.72
3598 4023 8.575649 AACTTTTAGAAAACTTGACTTCCTCA 57.424 30.769 0.00 0.00 0.00 3.86
3599 4024 8.753497 ACTTTTAGAAAACTTGACTTCCTCAT 57.247 30.769 0.00 0.00 0.00 2.90
3759 4214 2.547634 GTGCATTGCAACGGGAAAATTT 59.452 40.909 13.94 0.00 41.47 1.82
3772 4227 7.826260 ACGGGAAAATTTATGTTTTATGCAG 57.174 32.000 0.00 0.00 31.80 4.41
3803 4258 1.402968 TCGTAGCACCGGATTCACTAC 59.597 52.381 9.46 10.85 0.00 2.73
3808 4265 2.501723 AGCACCGGATTCACTACAGAAT 59.498 45.455 9.46 0.00 40.75 2.40
3988 4473 6.038714 CGGGAATCAAATCCTTCCTTTTCTAG 59.961 42.308 1.72 0.00 40.67 2.43
4026 4513 4.394300 CCGAATGAAGCATATGATCCTTCC 59.606 45.833 6.97 0.00 35.32 3.46
4205 4693 0.323725 AGCCGCATTCAATTCCCACT 60.324 50.000 0.00 0.00 0.00 4.00
4359 4874 5.847111 AAGGACTAAACCAAACCAAGAAC 57.153 39.130 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 130 2.613739 ATCTCGTCGCCGACACCATG 62.614 60.000 18.40 0.03 38.40 3.66
195 198 8.480501 TCCTAAATATTTGTCTAGGTTTAGCGT 58.519 33.333 11.05 0.00 33.87 5.07
217 220 7.148407 GCTCGATCTTCAAACTTCATTTTCCTA 60.148 37.037 0.00 0.00 0.00 2.94
227 230 2.303022 TCCCAGCTCGATCTTCAAACTT 59.697 45.455 0.00 0.00 0.00 2.66
234 237 0.260230 TCCTCTCCCAGCTCGATCTT 59.740 55.000 0.00 0.00 0.00 2.40
237 240 0.260230 TTCTCCTCTCCCAGCTCGAT 59.740 55.000 0.00 0.00 0.00 3.59
245 248 6.014413 ACAGTACTTAAACTTTCTCCTCTCCC 60.014 42.308 0.00 0.00 0.00 4.30
259 262 2.629137 TGTCCGAGCCACAGTACTTAAA 59.371 45.455 0.00 0.00 0.00 1.52
267 270 0.107508 ATGGAATGTCCGAGCCACAG 60.108 55.000 0.00 0.00 40.17 3.66
278 281 3.273434 CATGAGGTGTTCGATGGAATGT 58.727 45.455 0.00 0.00 34.05 2.71
306 309 2.894858 GGTGCTCTAGCTCACCTCT 58.105 57.895 19.69 0.00 46.90 3.69
326 329 3.087906 GGCGAGGGGAGGGCTTTA 61.088 66.667 0.00 0.00 0.00 1.85
363 368 1.217511 CGAGCAGAGCACTCCACAT 59.782 57.895 0.00 0.00 0.00 3.21
390 395 8.917414 ACCAATGATGTGTCTATATATACCCT 57.083 34.615 0.00 0.00 0.00 4.34
435 440 4.651778 CCAAAGGGTGTCATTTAGTCTCA 58.348 43.478 0.00 0.00 0.00 3.27
462 467 1.008995 CGGTTGGTTGGCTTGAACG 60.009 57.895 0.00 0.00 0.00 3.95
473 478 2.962421 ACCATCATTTGTTTCGGTTGGT 59.038 40.909 0.00 0.00 0.00 3.67
481 486 1.727062 TGGCCCACCATCATTTGTTT 58.273 45.000 0.00 0.00 42.67 2.83
482 487 3.472237 TGGCCCACCATCATTTGTT 57.528 47.368 0.00 0.00 42.67 2.83
549 554 1.450312 GTCCCGGTTCATCTGGCTG 60.450 63.158 0.00 0.00 41.11 4.85
620 625 4.553330 ATTAGTCCCAGTTCAATCACGT 57.447 40.909 0.00 0.00 0.00 4.49
626 650 3.806949 AGCCAATTAGTCCCAGTTCAA 57.193 42.857 0.00 0.00 0.00 2.69
632 656 3.435026 GCCAGATAAGCCAATTAGTCCCA 60.435 47.826 0.00 0.00 0.00 4.37
665 689 5.250082 CCCCTTACTAGTAGAAAACAGGGTT 59.750 44.000 24.28 0.00 38.51 4.11
666 690 4.781621 CCCCTTACTAGTAGAAAACAGGGT 59.218 45.833 24.28 0.00 38.51 4.34
684 708 0.840722 ATGACGGTCCTCAACCCCTT 60.841 55.000 5.55 0.00 46.27 3.95
685 709 0.042131 TATGACGGTCCTCAACCCCT 59.958 55.000 5.55 0.00 46.27 4.79
686 710 1.129058 ATATGACGGTCCTCAACCCC 58.871 55.000 5.55 0.00 46.27 4.95
687 711 2.036862 GGTATATGACGGTCCTCAACCC 59.963 54.545 5.55 0.00 46.27 4.11
688 712 2.963782 AGGTATATGACGGTCCTCAACC 59.036 50.000 5.55 8.43 45.45 3.77
689 713 4.240175 GAGGTATATGACGGTCCTCAAC 57.760 50.000 5.55 0.00 42.72 3.18
692 716 2.229302 GCTGAGGTATATGACGGTCCTC 59.771 54.545 5.55 5.09 43.27 3.71
693 717 2.158445 AGCTGAGGTATATGACGGTCCT 60.158 50.000 5.55 0.00 0.00 3.85
694 718 2.029828 CAGCTGAGGTATATGACGGTCC 60.030 54.545 8.42 0.00 0.00 4.46
695 719 2.608261 GCAGCTGAGGTATATGACGGTC 60.608 54.545 20.43 0.00 0.00 4.79
696 720 1.341531 GCAGCTGAGGTATATGACGGT 59.658 52.381 20.43 0.00 0.00 4.83
697 721 1.615883 AGCAGCTGAGGTATATGACGG 59.384 52.381 20.43 0.00 0.00 4.79
698 722 2.608998 CCAGCAGCTGAGGTATATGACG 60.609 54.545 24.90 0.00 32.44 4.35
699 723 2.289320 CCCAGCAGCTGAGGTATATGAC 60.289 54.545 24.90 0.00 32.44 3.06
700 724 1.973515 CCCAGCAGCTGAGGTATATGA 59.026 52.381 24.90 0.00 32.44 2.15
701 725 1.696336 ACCCAGCAGCTGAGGTATATG 59.304 52.381 25.86 8.50 34.79 1.78
702 726 1.974236 GACCCAGCAGCTGAGGTATAT 59.026 52.381 26.65 11.35 35.99 0.86
703 727 1.414158 GACCCAGCAGCTGAGGTATA 58.586 55.000 26.65 0.00 35.99 1.47
704 728 1.341156 GGACCCAGCAGCTGAGGTAT 61.341 60.000 26.65 12.21 35.99 2.73
705 729 1.990060 GGACCCAGCAGCTGAGGTA 60.990 63.158 26.65 0.00 35.99 3.08
706 730 3.325753 GGACCCAGCAGCTGAGGT 61.326 66.667 26.82 26.82 37.60 3.85
707 731 4.106925 GGGACCCAGCAGCTGAGG 62.107 72.222 24.90 23.18 32.44 3.86
708 732 2.207501 ATTGGGACCCAGCAGCTGAG 62.208 60.000 24.90 13.93 33.81 3.35
709 733 1.792757 AATTGGGACCCAGCAGCTGA 61.793 55.000 24.90 1.61 33.81 4.26
710 734 0.034186 TAATTGGGACCCAGCAGCTG 60.034 55.000 16.23 16.23 33.81 4.24
711 735 0.257039 CTAATTGGGACCCAGCAGCT 59.743 55.000 14.35 0.00 33.81 4.24
712 736 1.387295 GCTAATTGGGACCCAGCAGC 61.387 60.000 20.87 20.87 33.81 5.25
713 737 1.097547 CGCTAATTGGGACCCAGCAG 61.098 60.000 19.47 15.57 33.81 4.24
714 738 1.077787 CGCTAATTGGGACCCAGCA 60.078 57.895 19.47 5.38 33.81 4.41
715 739 1.077716 ACGCTAATTGGGACCCAGC 60.078 57.895 14.35 12.79 33.81 4.85
716 740 0.035439 ACACGCTAATTGGGACCCAG 60.035 55.000 14.35 2.91 33.81 4.45
717 741 0.322098 CACACGCTAATTGGGACCCA 60.322 55.000 9.95 9.95 0.00 4.51
718 742 0.035820 TCACACGCTAATTGGGACCC 60.036 55.000 2.45 2.45 0.00 4.46
719 743 1.084289 GTCACACGCTAATTGGGACC 58.916 55.000 0.00 0.00 40.91 4.46
720 744 2.094762 AGTCACACGCTAATTGGGAC 57.905 50.000 0.00 0.00 46.17 4.46
721 745 2.422597 CAAGTCACACGCTAATTGGGA 58.577 47.619 0.00 0.00 0.00 4.37
722 746 1.468520 CCAAGTCACACGCTAATTGGG 59.531 52.381 0.00 0.00 34.80 4.12
723 747 2.151202 ACCAAGTCACACGCTAATTGG 58.849 47.619 0.00 0.00 42.29 3.16
724 748 3.364964 GGAACCAAGTCACACGCTAATTG 60.365 47.826 0.00 0.00 0.00 2.32
725 749 2.812011 GGAACCAAGTCACACGCTAATT 59.188 45.455 0.00 0.00 0.00 1.40
726 750 2.423577 GGAACCAAGTCACACGCTAAT 58.576 47.619 0.00 0.00 0.00 1.73
727 751 1.873698 GGAACCAAGTCACACGCTAA 58.126 50.000 0.00 0.00 0.00 3.09
728 752 3.599412 GGAACCAAGTCACACGCTA 57.401 52.632 0.00 0.00 0.00 4.26
729 753 4.456806 GGAACCAAGTCACACGCT 57.543 55.556 0.00 0.00 0.00 5.07
746 770 9.981371 TACTAGGGAGTATTTACAACCGGGAGG 62.981 48.148 6.32 0.00 46.54 4.30
747 771 2.770232 AGGGAGTATTTACAACCGGGAG 59.230 50.000 6.32 0.00 31.95 4.30
748 772 2.836667 AGGGAGTATTTACAACCGGGA 58.163 47.619 6.32 0.00 31.95 5.14
749 773 3.708121 ACTAGGGAGTATTTACAACCGGG 59.292 47.826 6.32 0.00 32.65 5.73
750 774 5.360714 TGTACTAGGGAGTATTTACAACCGG 59.639 44.000 0.00 0.00 40.32 5.28
751 775 6.096001 ACTGTACTAGGGAGTATTTACAACCG 59.904 42.308 0.00 0.00 40.32 4.44
752 776 7.415592 ACTGTACTAGGGAGTATTTACAACC 57.584 40.000 0.00 0.00 40.32 3.77
753 777 9.962783 CATACTGTACTAGGGAGTATTTACAAC 57.037 37.037 7.49 0.00 40.32 3.32
754 778 9.705103 ACATACTGTACTAGGGAGTATTTACAA 57.295 33.333 7.49 0.00 40.32 2.41
755 779 9.705103 AACATACTGTACTAGGGAGTATTTACA 57.295 33.333 7.49 0.00 40.32 2.41
758 782 9.263446 TGAAACATACTGTACTAGGGAGTATTT 57.737 33.333 7.49 3.57 40.32 1.40
759 783 8.693625 GTGAAACATACTGTACTAGGGAGTATT 58.306 37.037 7.49 0.00 37.36 1.89
760 784 7.837689 TGTGAAACATACTGTACTAGGGAGTAT 59.162 37.037 0.00 0.00 45.67 2.12
761 785 7.177184 TGTGAAACATACTGTACTAGGGAGTA 58.823 38.462 0.00 0.00 45.67 2.59
762 786 6.014647 TGTGAAACATACTGTACTAGGGAGT 58.985 40.000 0.00 0.00 45.67 3.85
763 787 6.525578 TGTGAAACATACTGTACTAGGGAG 57.474 41.667 0.00 0.00 45.67 4.30
779 803 4.973051 TGTAATGCGTGATGTTTGTGAAAC 59.027 37.500 0.00 0.00 41.73 2.78
780 804 5.175090 TGTAATGCGTGATGTTTGTGAAA 57.825 34.783 0.00 0.00 0.00 2.69
781 805 4.820284 TGTAATGCGTGATGTTTGTGAA 57.180 36.364 0.00 0.00 0.00 3.18
782 806 6.676237 ATATGTAATGCGTGATGTTTGTGA 57.324 33.333 0.00 0.00 0.00 3.58
783 807 6.966066 TGAATATGTAATGCGTGATGTTTGTG 59.034 34.615 0.00 0.00 0.00 3.33
784 808 7.082700 TGAATATGTAATGCGTGATGTTTGT 57.917 32.000 0.00 0.00 0.00 2.83
785 809 7.967771 TTGAATATGTAATGCGTGATGTTTG 57.032 32.000 0.00 0.00 0.00 2.93
786 810 8.978564 TTTTGAATATGTAATGCGTGATGTTT 57.021 26.923 0.00 0.00 0.00 2.83
787 811 8.859156 GTTTTTGAATATGTAATGCGTGATGTT 58.141 29.630 0.00 0.00 0.00 2.71
788 812 7.487829 GGTTTTTGAATATGTAATGCGTGATGT 59.512 33.333 0.00 0.00 0.00 3.06
789 813 7.701924 AGGTTTTTGAATATGTAATGCGTGATG 59.298 33.333 0.00 0.00 0.00 3.07
790 814 7.771183 AGGTTTTTGAATATGTAATGCGTGAT 58.229 30.769 0.00 0.00 0.00 3.06
791 815 7.151999 AGGTTTTTGAATATGTAATGCGTGA 57.848 32.000 0.00 0.00 0.00 4.35
792 816 7.810766 AAGGTTTTTGAATATGTAATGCGTG 57.189 32.000 0.00 0.00 0.00 5.34
793 817 7.870445 ACAAAGGTTTTTGAATATGTAATGCGT 59.130 29.630 6.98 0.00 45.21 5.24
794 818 8.238481 ACAAAGGTTTTTGAATATGTAATGCG 57.762 30.769 6.98 0.00 45.21 4.73
800 824 7.655732 GCCTTGTACAAAGGTTTTTGAATATGT 59.344 33.333 19.06 0.00 45.21 2.29
801 825 7.655328 TGCCTTGTACAAAGGTTTTTGAATATG 59.345 33.333 19.06 1.26 45.21 1.78
802 826 7.731054 TGCCTTGTACAAAGGTTTTTGAATAT 58.269 30.769 19.06 0.00 45.21 1.28
803 827 7.113658 TGCCTTGTACAAAGGTTTTTGAATA 57.886 32.000 19.06 0.00 45.21 1.75
804 828 5.983540 TGCCTTGTACAAAGGTTTTTGAAT 58.016 33.333 19.06 0.00 45.21 2.57
805 829 5.407407 TGCCTTGTACAAAGGTTTTTGAA 57.593 34.783 19.06 0.00 45.21 2.69
806 830 5.407407 TTGCCTTGTACAAAGGTTTTTGA 57.593 34.783 19.06 0.00 45.21 2.69
808 832 5.047188 CGATTGCCTTGTACAAAGGTTTTT 58.953 37.500 19.06 7.69 39.60 1.94
809 833 4.098807 ACGATTGCCTTGTACAAAGGTTTT 59.901 37.500 19.06 8.91 39.60 2.43
810 834 3.634910 ACGATTGCCTTGTACAAAGGTTT 59.365 39.130 19.06 9.15 39.60 3.27
811 835 3.004315 CACGATTGCCTTGTACAAAGGTT 59.996 43.478 19.06 9.40 39.60 3.50
878 902 5.767816 AAGTTGTGTGACCAAATCCTTAC 57.232 39.130 0.00 0.00 0.00 2.34
881 905 5.690865 TCTAAAGTTGTGTGACCAAATCCT 58.309 37.500 0.00 0.00 0.00 3.24
947 971 2.353803 GCACGGAACAGGTGTCTCTAAT 60.354 50.000 0.00 0.00 37.70 1.73
948 972 1.000506 GCACGGAACAGGTGTCTCTAA 59.999 52.381 0.00 0.00 37.70 2.10
971 1044 5.253330 AGATGCTTCCGGTCTTTTAAATCA 58.747 37.500 0.00 0.00 0.00 2.57
977 1050 3.010420 GCTAAGATGCTTCCGGTCTTTT 58.990 45.455 9.31 0.00 34.33 2.27
981 1054 2.024176 TTGCTAAGATGCTTCCGGTC 57.976 50.000 0.00 0.00 0.00 4.79
982 1055 2.292267 CATTGCTAAGATGCTTCCGGT 58.708 47.619 0.00 0.00 0.00 5.28
983 1056 1.605710 CCATTGCTAAGATGCTTCCGG 59.394 52.381 0.00 0.00 0.00 5.14
984 1057 1.002033 GCCATTGCTAAGATGCTTCCG 60.002 52.381 0.00 0.00 33.53 4.30
1443 1520 1.966451 CTCCCGCACCTTTTCGCTT 60.966 57.895 0.00 0.00 0.00 4.68
1936 2022 0.984109 CATGTGCGTGCGGAATTTTC 59.016 50.000 0.00 0.00 0.00 2.29
2176 2558 5.069119 TCGTCCAAACAGATGTATCTAGCAT 59.931 40.000 0.00 0.00 34.85 3.79
2226 2608 5.643348 GGGAAATAAACAAAAATCTGGCTGG 59.357 40.000 0.00 0.00 0.00 4.85
2227 2609 6.466812 AGGGAAATAAACAAAAATCTGGCTG 58.533 36.000 0.00 0.00 0.00 4.85
2228 2610 6.686484 AGGGAAATAAACAAAAATCTGGCT 57.314 33.333 0.00 0.00 0.00 4.75
2229 2611 8.040727 ACATAGGGAAATAAACAAAAATCTGGC 58.959 33.333 0.00 0.00 0.00 4.85
2363 2757 5.532406 TGAATCTTAGAGGCATAAACATGGC 59.468 40.000 0.00 3.18 46.13 4.40
2364 2758 6.994496 TCTGAATCTTAGAGGCATAAACATGG 59.006 38.462 0.00 0.00 0.00 3.66
2365 2759 7.496920 TGTCTGAATCTTAGAGGCATAAACATG 59.503 37.037 0.00 0.00 0.00 3.21
2366 2760 7.568349 TGTCTGAATCTTAGAGGCATAAACAT 58.432 34.615 0.00 0.00 0.00 2.71
2367 2761 6.946340 TGTCTGAATCTTAGAGGCATAAACA 58.054 36.000 0.00 0.00 0.00 2.83
2368 2762 7.268586 TCTGTCTGAATCTTAGAGGCATAAAC 58.731 38.462 0.00 0.00 0.00 2.01
2369 2763 7.423844 TCTGTCTGAATCTTAGAGGCATAAA 57.576 36.000 0.00 0.00 0.00 1.40
2382 2776 2.920490 GTGCGACTCTTCTGTCTGAATC 59.080 50.000 0.00 0.00 35.00 2.52
2420 2815 2.125147 TAGCCTGCCGTGCATGAC 60.125 61.111 7.72 0.00 38.13 3.06
2428 2823 0.391661 AACACATGAGTAGCCTGCCG 60.392 55.000 0.00 0.00 0.00 5.69
2520 2915 6.591001 ACAATAAGCCTGGTTTGAAACAAAT 58.409 32.000 10.53 0.00 0.00 2.32
2571 2966 2.336945 CAGTCATGCAAGGGCTATCA 57.663 50.000 0.00 0.00 41.91 2.15
2618 3015 6.603599 AGAAGCTATTGTTCCTAACCCAATTC 59.396 38.462 0.00 0.00 31.63 2.17
2716 3113 5.699001 TGAACCACACATACATGTACTGTTC 59.301 40.000 7.96 13.65 39.39 3.18
2785 3189 4.997395 AGATACACTAAACAAGCACCACAG 59.003 41.667 0.00 0.00 0.00 3.66
2914 3321 2.440409 TGGATTTTGGAGAAGCTCTGC 58.560 47.619 0.00 0.00 35.21 4.26
3209 3616 3.971305 TGTTGAACCCAAGAACCTCTCTA 59.029 43.478 0.00 0.00 32.46 2.43
3248 3655 3.634397 ATGGAAGGAGCTCAAAATCGA 57.366 42.857 17.19 5.35 0.00 3.59
3275 3682 3.515286 GGCAGATCCGACGTCCGA 61.515 66.667 10.58 9.74 41.76 4.55
3598 4023 7.870509 ACATATCATTCAACTTGTGCACTAT 57.129 32.000 19.41 0.00 0.00 2.12
3599 4024 7.174772 ACAACATATCATTCAACTTGTGCACTA 59.825 33.333 19.41 9.94 0.00 2.74
3736 4190 1.448119 TTTCCCGTTGCAATGCACGA 61.448 50.000 23.91 9.71 38.71 4.35
3741 4195 6.479095 AACATAAATTTTCCCGTTGCAATG 57.521 33.333 11.90 11.90 0.00 2.82
3772 4227 2.135933 GGTGCTACGAGACATTATGCC 58.864 52.381 0.00 0.00 0.00 4.40
3850 4307 4.556942 TGGATGCAGATAAATTGCTTCG 57.443 40.909 0.00 0.00 43.04 3.79
3864 4321 3.181477 CCCGCAAAGAAAATATGGATGCA 60.181 43.478 0.00 0.00 32.80 3.96
3988 4473 0.614812 TTCGGGTGGGGCTACTAAAC 59.385 55.000 0.00 0.00 0.00 2.01


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

AutoCloner maintained by Alex Coulton.