Multiple sequence alignment - TraesCS5D01G443200

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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 TraesCS5D01G443200 chr5D 100.000 3603 0 0 1 3603 494787299 494783697 0.000000e+00 6654.0
1 TraesCS5D01G443200 chr5D 84.687 1404 144 35 1136 2532 494769756 494768417 0.000000e+00 1336.0
2 TraesCS5D01G443200 chr5D 84.941 850 108 15 2765 3603 494765998 494765158 0.000000e+00 843.0
3 TraesCS5D01G443200 chr5D 81.951 687 120 3 2906 3592 494647063 494646381 2.410000e-161 579.0
4 TraesCS5D01G443200 chr5D 83.389 596 99 0 2997 3592 494652545 494651950 1.460000e-153 553.0
5 TraesCS5D01G443200 chr5B 91.840 1348 82 14 1152 2489 611337289 611335960 0.000000e+00 1855.0
6 TraesCS5D01G443200 chr5B 91.831 1016 56 8 2590 3603 611334771 611333781 0.000000e+00 1391.0
7 TraesCS5D01G443200 chr5B 83.393 1403 160 33 1138 2532 611331491 611330154 0.000000e+00 1232.0
8 TraesCS5D01G443200 chr5B 85.015 981 114 22 2644 3603 611328804 611327836 0.000000e+00 966.0
9 TraesCS5D01G443200 chr5B 82.069 1160 129 40 1 1123 611338405 611337288 0.000000e+00 917.0
10 TraesCS5D01G443200 chr5B 81.676 704 118 8 2900 3596 610966738 610966039 3.120000e-160 575.0
11 TraesCS5D01G443200 chr5B 94.286 70 4 0 1060 1129 611331598 611331529 1.370000e-19 108.0
12 TraesCS5D01G443200 chr5B 98.276 58 1 0 2491 2548 611335874 611335817 6.360000e-18 102.0
13 TraesCS5D01G443200 chr5B 90.541 74 3 3 2905 2978 610877818 610877749 1.060000e-15 95.3
14 TraesCS5D01G443200 chr5A 81.857 1648 202 60 892 2514 618640241 618638666 0.000000e+00 1297.0
15 TraesCS5D01G443200 chr5A 84.749 977 122 18 2644 3603 618606934 618605968 0.000000e+00 953.0
16 TraesCS5D01G443200 chr5A 82.528 704 112 8 2900 3596 618431316 618430617 3.080000e-170 608.0
17 TraesCS5D01G443200 chr5A 82.070 686 119 3 2907 3592 618127015 618126334 1.860000e-162 582.0
18 TraesCS5D01G443200 chr5A 75.899 278 50 14 1975 2248 618666298 618666034 3.780000e-25 126.0
19 TraesCS5D01G443200 chr6A 75.117 213 41 10 1835 2039 572513617 572513825 4.950000e-14 89.8


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 TraesCS5D01G443200 chr5D 494783697 494787299 3602 True 6654.000000 6654 100.000 1 3603 1 chr5D.!!$R3 3602
1 TraesCS5D01G443200 chr5D 494765158 494769756 4598 True 1089.500000 1336 84.814 1136 3603 2 chr5D.!!$R4 2467
2 TraesCS5D01G443200 chr5D 494646381 494647063 682 True 579.000000 579 81.951 2906 3592 1 chr5D.!!$R1 686
3 TraesCS5D01G443200 chr5D 494651950 494652545 595 True 553.000000 553 83.389 2997 3592 1 chr5D.!!$R2 595
4 TraesCS5D01G443200 chr5B 611327836 611338405 10569 True 938.714286 1855 89.530 1 3603 7 chr5B.!!$R3 3602
5 TraesCS5D01G443200 chr5B 610966039 610966738 699 True 575.000000 575 81.676 2900 3596 1 chr5B.!!$R2 696
6 TraesCS5D01G443200 chr5A 618638666 618640241 1575 True 1297.000000 1297 81.857 892 2514 1 chr5A.!!$R4 1622
7 TraesCS5D01G443200 chr5A 618605968 618606934 966 True 953.000000 953 84.749 2644 3603 1 chr5A.!!$R3 959
8 TraesCS5D01G443200 chr5A 618430617 618431316 699 True 608.000000 608 82.528 2900 3596 1 chr5A.!!$R2 696
9 TraesCS5D01G443200 chr5A 618126334 618127015 681 True 582.000000 582 82.070 2907 3592 1 chr5A.!!$R1 685

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
790 823 0.033366 AGGGCAATTTTTGGTGTCGC 59.967 50.0 0.00 0.00 0.0 5.19 F
2298 2376 0.031585 TCGACACGGACAAGTTGGAG 59.968 55.0 7.96 0.51 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2558 2720 0.314935 CGGCTTCTGTTGCAACCAAT 59.685 50.0 26.14 0.0 32.75 3.16 R
3466 12391 0.103208 CCGCTCATAGGTGTGTCCTC 59.897 60.0 0.00 0.0 44.42 3.71 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
35 36 3.544684 CTGGCTAGTGGCACAATCATAA 58.455 45.455 21.41 0.00 44.16 1.90
42 43 5.343307 AGTGGCACAATCATAATTTTCCC 57.657 39.130 21.41 0.00 44.16 3.97
44 45 5.105228 AGTGGCACAATCATAATTTTCCCTG 60.105 40.000 21.41 0.00 44.16 4.45
50 51 7.173047 GCACAATCATAATTTTCCCTGTGTTTT 59.827 33.333 9.82 0.00 0.00 2.43
57 58 2.003937 TTCCCTGTGTTTTAAGGCCC 57.996 50.000 0.00 0.00 31.71 5.80
61 62 1.893137 CCTGTGTTTTAAGGCCCCTTC 59.107 52.381 0.00 0.00 37.47 3.46
67 68 4.714802 GTGTTTTAAGGCCCCTTCCATATT 59.285 41.667 0.00 0.00 37.47 1.28
68 69 4.714308 TGTTTTAAGGCCCCTTCCATATTG 59.286 41.667 0.00 0.00 37.47 1.90
77 78 5.222048 GGCCCCTTCCATATTGTGTAGAATA 60.222 44.000 0.00 0.00 0.00 1.75
159 160 2.629051 ACATGGTTTAAGCTCGGCTAC 58.371 47.619 0.00 0.00 38.25 3.58
209 210 2.068821 ATGGGTCATGCGAGCTCCT 61.069 57.895 8.47 0.00 39.68 3.69
215 216 1.342819 GTCATGCGAGCTCCTAGGATT 59.657 52.381 13.12 3.51 0.00 3.01
222 223 1.878734 GAGCTCCTAGGATTGCATTGC 59.121 52.381 21.53 15.32 0.00 3.56
260 261 3.126171 CCATAGACTCTCTTCCGCTATCG 59.874 52.174 0.00 0.00 0.00 2.92
279 280 7.331791 GCTATCGGGTTCAGAATATCCTATTT 58.668 38.462 0.00 0.00 0.00 1.40
282 283 7.131907 TCGGGTTCAGAATATCCTATTTGAA 57.868 36.000 0.00 0.00 0.00 2.69
288 289 8.987890 GTTCAGAATATCCTATTTGAAGCTCTC 58.012 37.037 0.00 0.00 0.00 3.20
298 299 6.319658 CCTATTTGAAGCTCTCTATGCCAAAA 59.680 38.462 0.00 0.00 30.13 2.44
299 300 5.376854 TTTGAAGCTCTCTATGCCAAAAC 57.623 39.130 0.00 0.00 0.00 2.43
300 301 4.019792 TGAAGCTCTCTATGCCAAAACA 57.980 40.909 0.00 0.00 0.00 2.83
302 303 2.716217 AGCTCTCTATGCCAAAACACC 58.284 47.619 0.00 0.00 0.00 4.16
303 304 1.398390 GCTCTCTATGCCAAAACACCG 59.602 52.381 0.00 0.00 0.00 4.94
311 312 1.362355 CCAAAACACCGACCAAGCC 59.638 57.895 0.00 0.00 0.00 4.35
314 315 0.469144 AAAACACCGACCAAGCCCAT 60.469 50.000 0.00 0.00 0.00 4.00
316 317 0.035439 AACACCGACCAAGCCCATAG 60.035 55.000 0.00 0.00 0.00 2.23
336 337 0.886490 GGAAGCACATAGATGGCCCG 60.886 60.000 0.00 0.00 0.00 6.13
344 345 0.401738 ATAGATGGCCCGACCCAATG 59.598 55.000 0.00 0.00 38.61 2.82
345 346 0.692756 TAGATGGCCCGACCCAATGA 60.693 55.000 0.00 0.00 38.61 2.57
351 352 1.450312 CCCGACCCAATGAGCACTC 60.450 63.158 0.00 0.00 0.00 3.51
361 362 3.388308 CAATGAGCACTCTAGGATTCCG 58.612 50.000 0.00 0.00 0.00 4.30
367 368 2.029470 GCACTCTAGGATTCCGATCTGG 60.029 54.545 0.00 0.00 40.09 3.86
379 380 4.360951 TCCGATCTGGGTTTGTAGTTTT 57.639 40.909 4.16 0.00 38.76 2.43
391 392 7.065204 TGGGTTTGTAGTTTTTCTTTTTCATGC 59.935 33.333 0.00 0.00 0.00 4.06
392 393 7.279981 GGGTTTGTAGTTTTTCTTTTTCATGCT 59.720 33.333 0.00 0.00 0.00 3.79
405 406 9.985318 TTCTTTTTCATGCTGTTTTGTTTATTG 57.015 25.926 0.00 0.00 0.00 1.90
418 419 8.443937 TGTTTTGTTTATTGGTTTTCTTTTCGG 58.556 29.630 0.00 0.00 0.00 4.30
427 428 5.404096 TGGTTTTCTTTTCGGTTTTGTCTC 58.596 37.500 0.00 0.00 0.00 3.36
433 434 6.693315 TCTTTTCGGTTTTGTCTCTCAATT 57.307 33.333 0.00 0.00 35.84 2.32
435 436 7.193595 TCTTTTCGGTTTTGTCTCTCAATTTC 58.806 34.615 0.00 0.00 35.84 2.17
436 437 5.432885 TTCGGTTTTGTCTCTCAATTTCC 57.567 39.130 0.00 0.00 35.84 3.13
439 441 5.238650 TCGGTTTTGTCTCTCAATTTCCTTC 59.761 40.000 0.00 0.00 35.84 3.46
441 443 6.238759 CGGTTTTGTCTCTCAATTTCCTTCTT 60.239 38.462 0.00 0.00 35.84 2.52
567 570 8.090250 TGTTAAACGTGCTCACATTTAGTATT 57.910 30.769 0.00 0.00 31.81 1.89
570 573 9.601971 TTAAACGTGCTCACATTTAGTATTTTC 57.398 29.630 0.00 0.00 31.81 2.29
610 613 8.708742 GGAGTTAAAAACCATTTTATGCAAGAC 58.291 33.333 0.00 0.00 39.91 3.01
616 619 8.449251 AAAACCATTTTATGCAAGACAAATGT 57.551 26.923 16.06 0.00 35.64 2.71
617 620 7.656707 AACCATTTTATGCAAGACAAATGTC 57.343 32.000 16.06 5.40 45.08 3.06
627 630 6.634805 TGCAAGACAAATGTCCACTTTTAAA 58.365 32.000 9.84 0.00 45.85 1.52
683 692 9.952030 AAAGAAAAAGATTGAAAACCCACTAAA 57.048 25.926 0.00 0.00 0.00 1.85
703 733 7.430502 CACTAAAACAGAAGAGAAAAACAGCAG 59.569 37.037 0.00 0.00 0.00 4.24
708 738 4.036027 CAGAAGAGAAAAACAGCAGCTGAA 59.964 41.667 29.70 0.00 35.18 3.02
714 744 6.370166 AGAGAAAAACAGCAGCTGAACTATAC 59.630 38.462 29.70 14.02 35.18 1.47
721 751 1.486310 CAGCTGAACTATACTGGGCCA 59.514 52.381 8.42 5.85 0.00 5.36
722 752 2.092968 CAGCTGAACTATACTGGGCCAA 60.093 50.000 8.42 0.00 0.00 4.52
759 792 3.681835 GTGCGGGAGGTCGACACT 61.682 66.667 18.91 12.01 35.74 3.55
784 817 3.651803 TTGACGTAGGGCAATTTTTGG 57.348 42.857 0.00 0.00 0.00 3.28
785 818 2.588620 TGACGTAGGGCAATTTTTGGT 58.411 42.857 0.00 0.00 0.00 3.67
786 819 2.294791 TGACGTAGGGCAATTTTTGGTG 59.705 45.455 0.00 0.00 0.00 4.17
788 821 2.295070 ACGTAGGGCAATTTTTGGTGTC 59.705 45.455 0.00 0.00 0.00 3.67
789 822 2.667171 CGTAGGGCAATTTTTGGTGTCG 60.667 50.000 0.00 0.00 0.00 4.35
790 823 0.033366 AGGGCAATTTTTGGTGTCGC 59.967 50.000 0.00 0.00 0.00 5.19
792 825 1.486801 GCAATTTTTGGTGTCGCGC 59.513 52.632 0.00 0.00 0.00 6.86
793 826 1.885814 GCAATTTTTGGTGTCGCGCC 61.886 55.000 0.00 0.00 34.12 6.53
795 828 3.889831 ATTTTTGGTGTCGCGCCGC 62.890 57.895 0.00 0.00 36.72 6.53
849 882 1.303074 AGATAGATCGGCGCCGGTA 60.303 57.895 44.95 32.62 40.25 4.02
861 894 1.736249 CGCCGGTAGTTTCGCGTAAG 61.736 60.000 5.77 0.00 43.44 2.34
862 895 1.416050 GCCGGTAGTTTCGCGTAAGG 61.416 60.000 5.77 0.75 38.28 2.69
863 896 0.171007 CCGGTAGTTTCGCGTAAGGA 59.829 55.000 5.77 0.00 38.28 3.36
864 897 1.402720 CCGGTAGTTTCGCGTAAGGAA 60.403 52.381 5.77 0.00 38.28 3.36
886 919 4.379143 GGCGTCCGGCGAAACAAC 62.379 66.667 20.06 1.21 44.92 3.32
887 920 4.379143 GCGTCCGGCGAAACAACC 62.379 66.667 20.06 0.00 44.77 3.77
888 921 2.663852 CGTCCGGCGAAACAACCT 60.664 61.111 9.30 0.00 44.77 3.50
889 922 2.943653 GTCCGGCGAAACAACCTG 59.056 61.111 9.30 0.00 0.00 4.00
890 923 2.975799 TCCGGCGAAACAACCTGC 60.976 61.111 9.30 0.00 0.00 4.85
912 946 4.030977 GCAAATGATCGATCAGTTTGTTGC 59.969 41.667 33.69 31.11 41.70 4.17
981 1021 5.957771 TGGCTATAAAACTCACCTGATCT 57.042 39.130 0.00 0.00 0.00 2.75
1026 1066 4.314440 TCCTCCACAGCACCACGC 62.314 66.667 0.00 0.00 42.91 5.34
1044 1084 1.731613 CACGTACACATCACGCCGT 60.732 57.895 0.00 0.00 43.10 5.68
1045 1085 1.007038 ACGTACACATCACGCCGTT 60.007 52.632 0.00 0.00 43.10 4.44
1081 1121 1.832219 CAGGATGAATCTCCCGGCA 59.168 57.895 0.00 0.00 39.69 5.69
1118 1158 5.533112 TCCTCCTACTTCTCCATCTCAATT 58.467 41.667 0.00 0.00 0.00 2.32
1129 1169 1.393196 CATCTCAATTGTACGTGCGCA 59.607 47.619 5.66 5.66 0.00 6.09
1145 1202 1.464608 GCGCACTTGCTAGATTGTTCA 59.535 47.619 0.30 0.00 39.32 3.18
1157 1216 6.128200 TGCTAGATTGTTCATTAGCACACTTG 60.128 38.462 0.00 0.00 42.42 3.16
1178 1237 8.215132 CACTTGATTCTTAGTTTCTACACGTTC 58.785 37.037 0.00 0.00 0.00 3.95
1185 1244 9.754382 TTCTTAGTTTCTACACGTTCTAATTGT 57.246 29.630 0.00 0.00 0.00 2.71
1190 1249 8.932791 AGTTTCTACACGTTCTAATTGTATTGG 58.067 33.333 0.00 0.00 0.00 3.16
1191 1250 8.715088 GTTTCTACACGTTCTAATTGTATTGGT 58.285 33.333 0.00 0.00 0.00 3.67
1222 1281 5.683743 TCATGTTACGTTTTGCTGCTAAAAC 59.316 36.000 20.49 20.49 43.59 2.43
1239 1300 0.108662 AACTGATCGATCTGCGTGCA 60.109 50.000 26.60 6.40 41.80 4.57
1255 1316 0.955428 TGCATGCAGTTTCTCCCGTC 60.955 55.000 18.46 0.00 0.00 4.79
1256 1317 0.955428 GCATGCAGTTTCTCCCGTCA 60.955 55.000 14.21 0.00 0.00 4.35
1266 1327 2.993264 TCCCGTCAAGTCGTCCCC 60.993 66.667 0.00 0.00 0.00 4.81
1288 1355 3.180282 CAAGGGCTTGGGAAGGGA 58.820 61.111 0.00 0.00 36.95 4.20
1295 1362 3.920093 CTTGGGAAGGGACGCCACC 62.920 68.421 0.00 0.00 0.00 4.61
1525 1592 0.868406 GCTTGGTTCAGTCCGACTTG 59.132 55.000 0.00 0.00 0.00 3.16
1546 1617 2.887360 GGTACGTGCGCCTCCTTA 59.113 61.111 4.18 0.00 0.00 2.69
1581 1652 2.027385 GATCCATCTCTGTTTTGCCCC 58.973 52.381 0.00 0.00 0.00 5.80
1584 1655 1.339631 CCATCTCTGTTTTGCCCCGTA 60.340 52.381 0.00 0.00 0.00 4.02
1585 1656 2.643551 CATCTCTGTTTTGCCCCGTAT 58.356 47.619 0.00 0.00 0.00 3.06
1590 1661 6.921486 TCTCTGTTTTGCCCCGTATATATA 57.079 37.500 0.00 0.00 0.00 0.86
1591 1662 6.694447 TCTCTGTTTTGCCCCGTATATATAC 58.306 40.000 12.18 12.18 0.00 1.47
1593 1664 7.015877 TCTCTGTTTTGCCCCGTATATATACTT 59.984 37.037 18.46 0.00 0.00 2.24
1594 1665 6.932400 TCTGTTTTGCCCCGTATATATACTTG 59.068 38.462 18.46 10.58 0.00 3.16
1595 1666 6.828788 TGTTTTGCCCCGTATATATACTTGA 58.171 36.000 18.46 0.00 0.00 3.02
1596 1667 7.455058 TGTTTTGCCCCGTATATATACTTGAT 58.545 34.615 18.46 0.00 0.00 2.57
1616 1688 1.465794 TGATGGACGGACGTGTCATA 58.534 50.000 0.53 0.00 40.72 2.15
1626 1704 3.248266 GGACGTGTCATACTGTTGTACC 58.752 50.000 0.00 0.00 0.00 3.34
1631 1709 4.053295 GTGTCATACTGTTGTACCACGTT 58.947 43.478 0.00 0.00 0.00 3.99
1632 1710 4.052608 TGTCATACTGTTGTACCACGTTG 58.947 43.478 0.00 0.00 0.00 4.10
1633 1711 3.061322 TCATACTGTTGTACCACGTTGC 58.939 45.455 0.00 0.00 0.00 4.17
1651 1729 0.659957 GCTTGCAGCCTACATGCTAC 59.340 55.000 0.00 0.00 44.17 3.58
1938 2016 3.056328 GCCAAGAAGGTGACGGCC 61.056 66.667 0.00 0.00 40.61 6.13
2014 2092 1.133606 TCAACAACCTCCACCCTTTCC 60.134 52.381 0.00 0.00 0.00 3.13
2016 2094 1.971695 CAACCTCCACCCTTTCCGC 60.972 63.158 0.00 0.00 0.00 5.54
2289 2367 4.736896 GGGCAGGTCGACACGGAC 62.737 72.222 18.91 9.54 36.18 4.79
2298 2376 0.031585 TCGACACGGACAAGTTGGAG 59.968 55.000 7.96 0.51 0.00 3.86
2340 2418 5.106673 CGACAACCCCAACTATTTCTTCTTC 60.107 44.000 0.00 0.00 0.00 2.87
2433 2511 6.126854 GGAAGTTCTTAGGGCTCATTAGGTAA 60.127 42.308 2.25 0.00 0.00 2.85
2449 2527 7.888424 CATTAGGTAAATGATGATGCATCCAA 58.112 34.615 23.67 6.72 46.81 3.53
2458 2536 2.616960 TGATGCATCCAAGTACGTGTC 58.383 47.619 23.67 0.00 0.00 3.67
2478 2556 2.050144 CCATGTATACCCTGTGCTCCT 58.950 52.381 0.00 0.00 0.00 3.69
2548 2710 6.293004 ACCTGTTTAATGAGAAGGAGAGAG 57.707 41.667 0.00 0.00 0.00 3.20
2550 2712 6.498651 ACCTGTTTAATGAGAAGGAGAGAGAA 59.501 38.462 0.00 0.00 0.00 2.87
2551 2713 6.816140 CCTGTTTAATGAGAAGGAGAGAGAAC 59.184 42.308 0.00 0.00 0.00 3.01
2552 2714 7.310361 CCTGTTTAATGAGAAGGAGAGAGAACT 60.310 40.741 0.00 0.00 0.00 3.01
2554 2716 9.261035 TGTTTAATGAGAAGGAGAGAGAACTAT 57.739 33.333 0.00 0.00 0.00 2.12
2566 5525 8.371699 AGGAGAGAGAACTATATTATTGGTTGC 58.628 37.037 0.00 0.00 0.00 4.17
2567 5526 8.150945 GGAGAGAGAACTATATTATTGGTTGCA 58.849 37.037 0.00 0.00 0.00 4.08
2568 5527 9.547753 GAGAGAGAACTATATTATTGGTTGCAA 57.452 33.333 0.00 0.00 0.00 4.08
2571 5530 9.113838 AGAGAACTATATTATTGGTTGCAACAG 57.886 33.333 29.55 17.16 0.00 3.16
2576 5535 3.658757 TTATTGGTTGCAACAGAAGCC 57.341 42.857 29.55 12.89 0.00 4.35
2578 5537 2.050077 GGTTGCAACAGAAGCCGC 60.050 61.111 29.55 7.16 0.00 6.53
2579 5538 2.721231 GTTGCAACAGAAGCCGCA 59.279 55.556 24.52 0.00 0.00 5.69
2600 5559 5.105063 GCAGGTAATGAAGCTTCCATTTTC 58.895 41.667 23.42 16.13 35.94 2.29
2607 5566 9.705290 GTAATGAAGCTTCCATTTTCCTTAAAA 57.295 29.630 23.42 0.00 38.87 1.52
2640 5601 4.692625 AGCGTCTGGATCATATATGCAAAC 59.307 41.667 7.92 0.00 0.00 2.93
2642 5603 4.996758 CGTCTGGATCATATATGCAAACCA 59.003 41.667 7.92 12.08 0.00 3.67
2695 5656 5.106442 CAGCTGAACGTAACCATGTATGTA 58.894 41.667 8.42 0.00 0.00 2.29
2696 5657 5.753438 CAGCTGAACGTAACCATGTATGTAT 59.247 40.000 8.42 0.00 0.00 2.29
2697 5658 5.983720 AGCTGAACGTAACCATGTATGTATC 59.016 40.000 0.00 0.00 0.00 2.24
2698 5659 5.107989 GCTGAACGTAACCATGTATGTATCG 60.108 44.000 0.00 0.00 0.00 2.92
2700 5661 4.310357 ACGTAACCATGTATGTATCGCA 57.690 40.909 0.00 0.00 0.00 5.10
2701 5662 4.878439 ACGTAACCATGTATGTATCGCAT 58.122 39.130 0.00 0.00 41.42 4.73
2702 5663 4.684242 ACGTAACCATGTATGTATCGCATG 59.316 41.667 0.00 0.00 38.47 4.06
2703 5664 4.920927 CGTAACCATGTATGTATCGCATGA 59.079 41.667 0.00 0.00 41.62 3.07
2704 5665 5.404066 CGTAACCATGTATGTATCGCATGAA 59.596 40.000 0.00 0.00 41.62 2.57
2705 5666 6.090763 CGTAACCATGTATGTATCGCATGAAT 59.909 38.462 0.00 0.00 41.62 2.57
2706 5667 6.882610 AACCATGTATGTATCGCATGAATT 57.117 33.333 0.00 0.00 41.62 2.17
2781 5742 0.604578 CCAGGTTGATGGGCAAACAG 59.395 55.000 0.00 0.00 46.85 3.16
2799 5760 8.795786 GCAAACAGCGGATAATCAAATAATAA 57.204 30.769 0.00 0.00 0.00 1.40
2838 5799 6.293680 GCGAGGAAAAAGAATATCCCATTCTC 60.294 42.308 0.27 0.00 37.38 2.87
2859 5827 6.131264 TCTCCTTGCATGAACATATTGGATT 58.869 36.000 0.00 0.00 0.00 3.01
2963 5936 8.522830 AGTACTAAAATTTTGGATGACCACATG 58.477 33.333 19.79 0.00 46.80 3.21
2987 5960 2.732500 TGATAACAGTACCAAACGCACG 59.267 45.455 0.00 0.00 0.00 5.34
3044 11960 1.843851 TCCATTCAGCCGGGAGTATTT 59.156 47.619 2.18 0.00 0.00 1.40
3045 11961 1.949525 CCATTCAGCCGGGAGTATTTG 59.050 52.381 2.18 0.00 0.00 2.32
3054 11970 3.307059 GCCGGGAGTATTTGAGCTATGAT 60.307 47.826 2.18 0.00 0.00 2.45
3085 12007 1.609501 AGACGGGCAGCTGGACTTA 60.610 57.895 17.12 0.00 0.00 2.24
3129 12051 1.338973 CATCATCGCCTCCAAATTGGG 59.661 52.381 12.67 2.92 38.32 4.12
3170 12092 4.802876 AAACAAGCTTCTTTGAGACGAG 57.197 40.909 0.00 0.00 0.00 4.18
3311 12233 1.335415 CGAGTAGATGACTGGCCATCG 60.335 57.143 5.51 5.39 45.61 3.84
3373 12295 1.576421 GAGCAAGGCCTTGAACACG 59.424 57.895 42.96 20.52 42.93 4.49
3396 12318 7.012327 CACGTCAGGTTCCATGTCATATATTTT 59.988 37.037 0.00 0.00 0.00 1.82
3397 12319 7.012327 ACGTCAGGTTCCATGTCATATATTTTG 59.988 37.037 0.00 0.00 0.00 2.44
3402 12324 9.236006 AGGTTCCATGTCATATATTTTGATAGC 57.764 33.333 0.00 0.00 0.00 2.97
3466 12391 4.498520 ACAGATGACCGAGCGGCG 62.499 66.667 9.14 0.51 39.32 6.46
3496 12421 2.432510 CCTATGAGCGGGGAATATCTCC 59.567 54.545 0.00 0.00 44.54 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 5.520376 AAATTATGATTGTGCCACTAGCC 57.480 39.130 0.00 0.00 42.71 3.93
35 36 3.326588 GGGCCTTAAAACACAGGGAAAAT 59.673 43.478 0.84 0.00 0.00 1.82
42 43 1.893137 GGAAGGGGCCTTAAAACACAG 59.107 52.381 0.84 0.00 36.26 3.66
44 45 2.003937 TGGAAGGGGCCTTAAAACAC 57.996 50.000 0.84 0.00 36.26 3.32
50 51 2.856231 ACACAATATGGAAGGGGCCTTA 59.144 45.455 0.84 0.00 36.26 2.69
115 116 8.999431 TGTAAAGTGGTTGAAAGTATGATCTTC 58.001 33.333 0.00 0.00 0.00 2.87
159 160 2.551032 TGTACCATAGCCTCGTACATCG 59.449 50.000 0.00 0.00 37.90 3.84
188 189 0.879400 GAGCTCGCATGACCCATGAG 60.879 60.000 10.77 7.61 43.81 2.90
189 190 1.144716 GAGCTCGCATGACCCATGA 59.855 57.895 10.77 0.00 43.81 3.07
209 210 3.884693 CAGGTGTATGCAATGCAATCCTA 59.115 43.478 13.45 0.00 41.72 2.94
215 216 2.086094 CACTCAGGTGTATGCAATGCA 58.914 47.619 11.44 11.44 39.68 3.96
222 223 2.996249 ATGGCTCACTCAGGTGTATG 57.004 50.000 0.00 0.00 43.41 2.39
260 261 7.001073 AGCTTCAAATAGGATATTCTGAACCC 58.999 38.462 0.00 0.00 0.00 4.11
267 268 9.097257 GCATAGAGAGCTTCAAATAGGATATTC 57.903 37.037 0.00 0.00 0.00 1.75
273 274 4.965814 TGGCATAGAGAGCTTCAAATAGG 58.034 43.478 0.00 0.00 0.00 2.57
279 280 3.753272 GTGTTTTGGCATAGAGAGCTTCA 59.247 43.478 0.00 0.00 0.00 3.02
282 283 2.716217 GGTGTTTTGGCATAGAGAGCT 58.284 47.619 0.00 0.00 0.00 4.09
288 289 1.529226 TGGTCGGTGTTTTGGCATAG 58.471 50.000 0.00 0.00 0.00 2.23
298 299 1.602237 CTATGGGCTTGGTCGGTGT 59.398 57.895 0.00 0.00 0.00 4.16
299 300 1.153168 CCTATGGGCTTGGTCGGTG 60.153 63.158 0.00 0.00 0.00 4.94
300 301 2.375345 CCCTATGGGCTTGGTCGGT 61.375 63.158 0.00 0.00 35.35 4.69
302 303 0.179045 CTTCCCTATGGGCTTGGTCG 60.179 60.000 0.00 0.00 43.94 4.79
303 304 0.466372 GCTTCCCTATGGGCTTGGTC 60.466 60.000 0.00 0.00 43.94 4.02
311 312 3.871463 GCCATCTATGTGCTTCCCTATGG 60.871 52.174 0.00 0.00 36.53 2.74
314 315 1.699634 GGCCATCTATGTGCTTCCCTA 59.300 52.381 0.00 0.00 0.00 3.53
316 317 0.538287 GGGCCATCTATGTGCTTCCC 60.538 60.000 4.39 0.00 0.00 3.97
327 328 1.987807 CTCATTGGGTCGGGCCATCT 61.988 60.000 4.39 0.00 39.65 2.90
336 337 2.111384 TCCTAGAGTGCTCATTGGGTC 58.889 52.381 1.82 0.00 0.00 4.46
344 345 3.057596 CAGATCGGAATCCTAGAGTGCTC 60.058 52.174 0.00 0.00 31.78 4.26
345 346 2.890311 CAGATCGGAATCCTAGAGTGCT 59.110 50.000 0.00 0.00 31.78 4.40
351 352 3.134804 ACAAACCCAGATCGGAATCCTAG 59.865 47.826 0.00 0.00 36.56 3.02
361 362 8.942338 AAAAAGAAAAACTACAAACCCAGATC 57.058 30.769 0.00 0.00 0.00 2.75
367 368 8.116136 CAGCATGAAAAAGAAAAACTACAAACC 58.884 33.333 0.00 0.00 39.69 3.27
379 380 9.985318 CAATAAACAAAACAGCATGAAAAAGAA 57.015 25.926 0.00 0.00 39.69 2.52
391 392 9.471742 CGAAAAGAAAACCAATAAACAAAACAG 57.528 29.630 0.00 0.00 0.00 3.16
392 393 8.443937 CCGAAAAGAAAACCAATAAACAAAACA 58.556 29.630 0.00 0.00 0.00 2.83
405 406 5.647589 AGAGACAAAACCGAAAAGAAAACC 58.352 37.500 0.00 0.00 0.00 3.27
418 419 8.932945 AAAAGAAGGAAATTGAGAGACAAAAC 57.067 30.769 0.00 0.00 42.03 2.43
535 538 7.617533 ATGTGAGCACGTTTAACAAATAAAC 57.382 32.000 0.00 1.88 46.52 2.01
536 539 8.635877 AAATGTGAGCACGTTTAACAAATAAA 57.364 26.923 16.72 0.00 45.61 1.40
537 540 9.388346 CTAAATGTGAGCACGTTTAACAAATAA 57.612 29.630 21.59 6.34 46.18 1.40
538 541 8.561212 ACTAAATGTGAGCACGTTTAACAAATA 58.439 29.630 21.59 6.88 46.18 1.40
539 542 7.422399 ACTAAATGTGAGCACGTTTAACAAAT 58.578 30.769 21.59 8.55 46.18 2.32
540 543 6.787225 ACTAAATGTGAGCACGTTTAACAAA 58.213 32.000 21.59 7.95 46.18 2.83
541 544 6.366315 ACTAAATGTGAGCACGTTTAACAA 57.634 33.333 21.59 8.23 46.18 2.83
542 545 5.994887 ACTAAATGTGAGCACGTTTAACA 57.005 34.783 21.59 8.50 46.18 2.41
543 546 8.944212 AAATACTAAATGTGAGCACGTTTAAC 57.056 30.769 21.59 0.00 46.18 2.01
544 547 9.601971 GAAAATACTAAATGTGAGCACGTTTAA 57.398 29.630 21.59 12.82 46.18 1.52
545 548 8.775527 TGAAAATACTAAATGTGAGCACGTTTA 58.224 29.630 20.61 20.61 45.61 2.01
547 550 7.197071 TGAAAATACTAAATGTGAGCACGTT 57.803 32.000 2.37 2.37 41.91 3.99
548 551 6.795098 TGAAAATACTAAATGTGAGCACGT 57.205 33.333 0.00 0.00 0.00 4.49
549 552 8.500837 TTTTGAAAATACTAAATGTGAGCACG 57.499 30.769 0.00 0.00 0.00 5.34
586 589 9.606631 TTGTCTTGCATAAAATGGTTTTTAACT 57.393 25.926 0.00 0.00 39.91 2.24
590 593 8.901793 ACATTTGTCTTGCATAAAATGGTTTTT 58.098 25.926 19.45 0.00 41.93 1.94
591 594 8.449251 ACATTTGTCTTGCATAAAATGGTTTT 57.551 26.923 19.45 0.00 41.93 2.43
594 597 6.165577 GGACATTTGTCTTGCATAAAATGGT 58.834 36.000 19.45 10.72 41.93 3.55
596 599 6.869913 AGTGGACATTTGTCTTGCATAAAATG 59.130 34.615 16.23 16.23 44.20 2.32
665 674 7.559897 TCTTCTGTTTTAGTGGGTTTTCAATCT 59.440 33.333 0.00 0.00 0.00 2.40
669 678 6.419791 TCTCTTCTGTTTTAGTGGGTTTTCA 58.580 36.000 0.00 0.00 0.00 2.69
675 684 7.095695 TGTTTTTCTCTTCTGTTTTAGTGGG 57.904 36.000 0.00 0.00 0.00 4.61
680 689 6.095440 AGCTGCTGTTTTTCTCTTCTGTTTTA 59.905 34.615 0.00 0.00 0.00 1.52
683 692 3.950395 AGCTGCTGTTTTTCTCTTCTGTT 59.050 39.130 0.00 0.00 0.00 3.16
703 733 2.289565 GTTGGCCCAGTATAGTTCAGC 58.710 52.381 0.00 0.00 0.00 4.26
773 806 1.885814 GCGCGACACCAAAAATTGCC 61.886 55.000 12.10 0.00 0.00 4.52
778 811 4.615834 GCGGCGCGACACCAAAAA 62.616 61.111 19.09 0.00 0.00 1.94
796 829 3.839432 CTCTCTCCGGCGGAACCC 61.839 72.222 30.59 0.00 33.26 4.11
798 831 2.754658 TCCTCTCTCCGGCGGAAC 60.755 66.667 30.59 0.00 0.00 3.62
799 832 2.440430 CTCCTCTCTCCGGCGGAA 60.440 66.667 30.59 18.82 0.00 4.30
800 833 4.507916 CCTCCTCTCTCCGGCGGA 62.508 72.222 29.14 29.14 0.00 5.54
849 882 1.084289 GCCATTCCTTACGCGAAACT 58.916 50.000 15.93 0.00 0.00 2.66
856 889 2.510691 ACGCCGCCATTCCTTACG 60.511 61.111 0.00 0.00 0.00 3.18
858 891 2.188469 GGACGCCGCCATTCCTTA 59.812 61.111 0.00 0.00 0.00 2.69
882 915 3.346315 TGATCGATCATTTGCAGGTTGT 58.654 40.909 23.99 0.00 0.00 3.32
883 916 3.376234 ACTGATCGATCATTTGCAGGTTG 59.624 43.478 27.43 14.25 36.02 3.77
885 918 3.272574 ACTGATCGATCATTTGCAGGT 57.727 42.857 27.43 16.93 36.02 4.00
886 919 4.142534 ACAAACTGATCGATCATTTGCAGG 60.143 41.667 33.85 24.54 38.00 4.85
887 920 4.978186 ACAAACTGATCGATCATTTGCAG 58.022 39.130 33.85 26.20 38.00 4.41
888 921 5.155643 CAACAAACTGATCGATCATTTGCA 58.844 37.500 33.85 17.16 38.00 4.08
889 922 4.030977 GCAACAAACTGATCGATCATTTGC 59.969 41.667 33.85 30.06 38.00 3.68
890 923 4.261349 CGCAACAAACTGATCGATCATTTG 59.739 41.667 33.16 33.16 39.02 2.32
912 946 3.976375 CGTGATGCGGTGCGATCG 61.976 66.667 11.69 11.69 36.85 3.69
935 971 1.557371 TCCTTGATCCACATGCGGTTA 59.443 47.619 0.00 0.00 0.00 2.85
981 1021 1.446099 GAGATGCGTGCGTGGAGAA 60.446 57.895 0.00 0.00 0.00 2.87
1026 1066 1.279527 AACGGCGTGATGTGTACGTG 61.280 55.000 15.70 0.00 43.09 4.49
1052 1092 2.125147 CATCCTGCTCGGCCGAAA 60.125 61.111 30.53 19.21 0.00 3.46
1129 1169 5.939883 TGTGCTAATGAACAATCTAGCAAGT 59.060 36.000 13.86 0.00 46.06 3.16
1145 1202 8.854614 AGAAACTAAGAATCAAGTGTGCTAAT 57.145 30.769 0.00 0.00 0.00 1.73
1178 1237 6.484643 ACATGAGCAGCTACCAATACAATTAG 59.515 38.462 0.00 0.00 0.00 1.73
1185 1244 4.142026 ACGTAACATGAGCAGCTACCAATA 60.142 41.667 0.00 0.00 0.00 1.90
1186 1245 3.198068 CGTAACATGAGCAGCTACCAAT 58.802 45.455 0.00 0.00 0.00 3.16
1187 1246 2.028476 ACGTAACATGAGCAGCTACCAA 60.028 45.455 0.00 0.00 0.00 3.67
1188 1247 1.548719 ACGTAACATGAGCAGCTACCA 59.451 47.619 0.00 0.00 0.00 3.25
1189 1248 2.295253 ACGTAACATGAGCAGCTACC 57.705 50.000 0.00 0.00 0.00 3.18
1190 1249 4.394795 CAAAACGTAACATGAGCAGCTAC 58.605 43.478 0.00 0.00 0.00 3.58
1191 1250 3.120338 GCAAAACGTAACATGAGCAGCTA 60.120 43.478 0.00 0.00 0.00 3.32
1222 1281 0.507358 CATGCACGCAGATCGATCAG 59.493 55.000 26.47 19.87 41.67 2.90
1239 1300 1.072331 ACTTGACGGGAGAAACTGCAT 59.928 47.619 0.00 0.00 0.00 3.96
1273 1334 3.330720 CGTCCCTTCCCAAGCCCT 61.331 66.667 0.00 0.00 0.00 5.19
1310 1377 2.104253 CGTTATGGCCGTGGTGGTC 61.104 63.158 8.05 0.00 45.24 4.02
1354 1421 4.034258 TCGTCGGAGTGGTCGTGC 62.034 66.667 0.00 0.00 0.00 5.34
1525 1592 2.654404 GAGGCGCACGTACCGATC 60.654 66.667 10.83 5.20 0.00 3.69
1546 1617 6.496565 AGAGATGGATCGATGGAAGATTTAGT 59.503 38.462 0.54 0.00 0.00 2.24
1581 1652 8.403236 TCCGTCCATCAATCAAGTATATATACG 58.597 37.037 15.57 4.70 38.28 3.06
1584 1655 7.093902 ACGTCCGTCCATCAATCAAGTATATAT 60.094 37.037 0.00 0.00 0.00 0.86
1585 1656 6.208007 ACGTCCGTCCATCAATCAAGTATATA 59.792 38.462 0.00 0.00 0.00 0.86
1590 1661 1.275291 ACGTCCGTCCATCAATCAAGT 59.725 47.619 0.00 0.00 0.00 3.16
1591 1662 1.660607 CACGTCCGTCCATCAATCAAG 59.339 52.381 0.00 0.00 0.00 3.02
1593 1664 0.606096 ACACGTCCGTCCATCAATCA 59.394 50.000 0.00 0.00 0.00 2.57
1594 1665 1.278238 GACACGTCCGTCCATCAATC 58.722 55.000 0.00 0.00 0.00 2.67
1595 1666 0.606096 TGACACGTCCGTCCATCAAT 59.394 50.000 3.81 0.00 34.88 2.57
1596 1667 0.606096 ATGACACGTCCGTCCATCAA 59.394 50.000 3.81 0.00 34.88 2.57
1616 1688 1.668751 CAAGCAACGTGGTACAACAGT 59.331 47.619 0.35 0.00 44.16 3.55
1633 1711 0.933097 CGTAGCATGTAGGCTGCAAG 59.067 55.000 9.92 6.40 45.38 4.01
1651 1729 0.960861 GGAGGGGACTTTTTCTGCCG 60.961 60.000 0.00 0.00 44.43 5.69
1700 1778 4.445545 CGAAGTTCAAGCCGGCGC 62.446 66.667 23.20 10.25 0.00 6.53
1701 1779 4.445545 GCGAAGTTCAAGCCGGCG 62.446 66.667 23.20 8.11 0.00 6.46
1933 2011 4.849329 GAACGCGATCTCGGCCGT 62.849 66.667 27.15 5.51 39.09 5.68
2028 2106 1.375523 GTTGTACGGCCTGGTCTGG 60.376 63.158 0.00 0.00 0.00 3.86
2038 2116 3.045492 GCGGGTGTGGTTGTACGG 61.045 66.667 0.00 0.00 0.00 4.02
2289 2367 0.984230 TGTAGAGGGGCTCCAACTTG 59.016 55.000 4.79 0.00 34.83 3.16
2340 2418 1.141881 CGGGTTCATCTCGTCCCAG 59.858 63.158 0.00 0.00 39.87 4.45
2433 2511 4.274214 CACGTACTTGGATGCATCATCATT 59.726 41.667 27.25 10.14 42.13 2.57
2449 2527 3.635373 CAGGGTATACATGGACACGTACT 59.365 47.826 5.01 0.00 0.00 2.73
2458 2536 2.037772 GAGGAGCACAGGGTATACATGG 59.962 54.545 5.01 0.00 0.00 3.66
2478 2556 6.216569 CAGCGCTAAGATAATAGTTCAAGGA 58.783 40.000 10.99 0.00 0.00 3.36
2548 2710 9.722056 CTTCTGTTGCAACCAATAATATAGTTC 57.278 33.333 26.14 0.00 32.75 3.01
2550 2712 7.201821 GGCTTCTGTTGCAACCAATAATATAGT 60.202 37.037 26.14 0.00 32.75 2.12
2551 2713 7.141363 GGCTTCTGTTGCAACCAATAATATAG 58.859 38.462 26.14 13.41 32.75 1.31
2552 2714 6.238621 CGGCTTCTGTTGCAACCAATAATATA 60.239 38.462 26.14 3.75 32.75 0.86
2554 2716 4.142491 CGGCTTCTGTTGCAACCAATAATA 60.142 41.667 26.14 5.25 32.75 0.98
2555 2717 3.367292 CGGCTTCTGTTGCAACCAATAAT 60.367 43.478 26.14 0.00 32.75 1.28
2557 2719 1.539388 CGGCTTCTGTTGCAACCAATA 59.461 47.619 26.14 7.14 32.75 1.90
2558 2720 0.314935 CGGCTTCTGTTGCAACCAAT 59.685 50.000 26.14 0.00 32.75 3.16
2561 5520 2.050077 GCGGCTTCTGTTGCAACC 60.050 61.111 26.14 10.47 0.00 3.77
2566 5525 1.131126 CATTACCTGCGGCTTCTGTTG 59.869 52.381 0.00 0.00 0.00 3.33
2567 5526 1.003118 TCATTACCTGCGGCTTCTGTT 59.997 47.619 0.00 0.00 0.00 3.16
2568 5527 0.613260 TCATTACCTGCGGCTTCTGT 59.387 50.000 0.00 0.00 0.00 3.41
2571 5530 0.378610 GCTTCATTACCTGCGGCTTC 59.621 55.000 0.00 0.00 0.00 3.86
2576 5535 1.737838 TGGAAGCTTCATTACCTGCG 58.262 50.000 27.02 0.00 0.00 5.18
2578 5537 5.420104 AGGAAAATGGAAGCTTCATTACCTG 59.580 40.000 27.02 0.00 38.62 4.00
2579 5538 5.583932 AGGAAAATGGAAGCTTCATTACCT 58.416 37.500 27.02 24.99 37.05 3.08
2600 5559 6.719365 CAGACGCTTCTGGATTATTTTAAGG 58.281 40.000 12.26 0.00 45.06 2.69
2627 5588 5.008514 CGTGTTCCATGGTTTGCATATATGA 59.991 40.000 17.10 0.00 0.00 2.15
2635 5596 2.030363 TCATTCGTGTTCCATGGTTTGC 60.030 45.455 12.58 1.30 0.00 3.68
2640 5601 3.540617 TGGTATCATTCGTGTTCCATGG 58.459 45.455 4.97 4.97 0.00 3.66
2642 5603 5.885352 TGAATTGGTATCATTCGTGTTCCAT 59.115 36.000 0.00 0.00 0.00 3.41
2695 5656 8.668510 ATTGAGAAGTTACTAATTCATGCGAT 57.331 30.769 0.00 0.00 0.00 4.58
2696 5657 9.594478 TTATTGAGAAGTTACTAATTCATGCGA 57.406 29.630 0.00 0.00 0.00 5.10
2726 5687 6.116711 TCCACCTTGCTTTGTGTATTAGTA 57.883 37.500 0.00 0.00 0.00 1.82
2815 5776 7.293828 AGGAGAATGGGATATTCTTTTTCCTC 58.706 38.462 3.90 0.00 38.38 3.71
2818 5779 7.147846 TGCAAGGAGAATGGGATATTCTTTTTC 60.148 37.037 3.90 0.00 38.38 2.29
2824 5785 5.319453 TCATGCAAGGAGAATGGGATATTC 58.681 41.667 0.00 0.00 0.00 1.75
2826 5787 5.075493 GTTCATGCAAGGAGAATGGGATAT 58.925 41.667 0.00 0.00 0.00 1.63
2827 5788 4.079844 TGTTCATGCAAGGAGAATGGGATA 60.080 41.667 0.00 0.00 0.00 2.59
2828 5789 3.294214 GTTCATGCAAGGAGAATGGGAT 58.706 45.455 0.00 0.00 0.00 3.85
2830 5791 2.449464 TGTTCATGCAAGGAGAATGGG 58.551 47.619 0.00 0.00 0.00 4.00
2838 5799 8.361889 TCAATAATCCAATATGTTCATGCAAGG 58.638 33.333 0.00 0.00 0.00 3.61
2878 5846 8.510243 TCATTATTGCATGTATGTTTCAGAGT 57.490 30.769 0.00 0.00 0.00 3.24
2963 5936 3.126171 TGCGTTTGGTACTGTTATCATGC 59.874 43.478 0.00 0.00 0.00 4.06
3044 11960 4.958581 TGTTCTCAAGGAGATCATAGCTCA 59.041 41.667 0.00 0.00 38.56 4.26
3045 11961 5.301551 TCTGTTCTCAAGGAGATCATAGCTC 59.698 44.000 7.29 0.00 38.56 4.09
3054 11970 1.257743 CCCGTCTGTTCTCAAGGAGA 58.742 55.000 0.00 0.00 36.86 3.71
3085 12007 2.991250 AGCAACGGTTATGAGCATCTT 58.009 42.857 0.00 0.00 34.92 2.40
3129 12051 1.166531 ACTGTTCCTTGCTTCGCCAC 61.167 55.000 0.00 0.00 0.00 5.01
3133 12055 4.527564 CTTGTTTACTGTTCCTTGCTTCG 58.472 43.478 0.00 0.00 0.00 3.79
3146 12068 5.357257 TCGTCTCAAAGAAGCTTGTTTACT 58.643 37.500 19.98 0.00 0.00 2.24
3311 12233 2.408271 TCTCCTGTGATTGATGTGGC 57.592 50.000 0.00 0.00 0.00 5.01
3373 12295 8.450578 TCAAAATATATGACATGGAACCTGAC 57.549 34.615 0.00 0.00 0.00 3.51
3396 12318 3.954904 GGAGAGTTCCAGTAGTGCTATCA 59.045 47.826 0.00 0.00 43.45 2.15
3397 12319 4.211920 AGGAGAGTTCCAGTAGTGCTATC 58.788 47.826 0.00 0.00 46.64 2.08
3402 12324 2.808919 TGGAGGAGAGTTCCAGTAGTG 58.191 52.381 0.00 0.00 46.64 2.74
3466 12391 0.103208 CCGCTCATAGGTGTGTCCTC 59.897 60.000 0.00 0.00 44.42 3.71
3496 12421 2.943033 CCTAACATTTCAAGTAGGCGGG 59.057 50.000 0.00 0.00 0.00 6.13
3570 12495 2.278332 AGAAACAAGGGCTTCTCCAC 57.722 50.000 0.00 0.00 36.21 4.02


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

AutoCloner maintained by Alex Coulton.