Multiple sequence alignment - TraesCS2D01G135200

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 TraesCS2D01G135200 chr2D 100.000 3493 0 0 1 3493 79528800 79532292 0.000000e+00 6451.0
1 TraesCS2D01G135200 chr2D 91.228 57 4 1 754 809 603393540 603393596 3.740000e-10 76.8
2 TraesCS2D01G135200 chr2A 89.194 1527 82 38 906 2403 80225746 80227218 0.000000e+00 1829.0
3 TraesCS2D01G135200 chr2A 88.506 261 29 1 3233 3493 80229901 80230160 7.280000e-82 315.0
4 TraesCS2D01G135200 chr2A 87.547 265 30 3 2574 2838 80229238 80229499 1.580000e-78 303.0
5 TraesCS2D01G135200 chr2A 78.344 314 42 15 2892 3181 80229597 80229908 2.770000e-41 180.0
6 TraesCS2D01G135200 chr2A 97.222 72 2 0 2427 2498 80227215 80227286 4.730000e-24 122.0
7 TraesCS2D01G135200 chr2B 90.796 1282 52 34 777 2034 131107901 131109140 0.000000e+00 1653.0
8 TraesCS2D01G135200 chr2B 85.000 780 82 20 2068 2836 131109144 131109899 0.000000e+00 760.0
9 TraesCS2D01G135200 chr2B 87.963 108 12 1 641 747 594201469 594201362 3.660000e-25 126.0
10 TraesCS2D01G135200 chr2B 97.368 38 1 0 3352 3389 131111258 131111295 8.090000e-07 65.8
11 TraesCS2D01G135200 chr2B 95.238 42 1 1 594 635 757507935 757507975 8.090000e-07 65.8
12 TraesCS2D01G135200 chr3A 90.187 642 58 5 3 640 141012151 141011511 0.000000e+00 832.0
13 TraesCS2D01G135200 chr3A 100.000 28 0 0 571 598 569227223 569227196 6.000000e-03 52.8
14 TraesCS2D01G135200 chr6D 92.421 475 32 4 115 586 463615628 463616101 0.000000e+00 675.0
15 TraesCS2D01G135200 chr6D 90.000 140 13 1 325 464 470400811 470400949 2.770000e-41 180.0
16 TraesCS2D01G135200 chr6D 85.714 126 12 5 463 586 334233010 334233131 1.020000e-25 128.0
17 TraesCS2D01G135200 chr3D 87.107 605 44 9 3 604 125686084 125686657 0.000000e+00 654.0
18 TraesCS2D01G135200 chr3D 90.000 120 9 2 463 579 361802045 361801926 6.040000e-33 152.0
19 TraesCS2D01G135200 chr3D 89.655 116 11 1 633 747 561469747 561469632 2.810000e-31 147.0
20 TraesCS2D01G135200 chr3D 87.640 89 10 1 661 748 125686759 125686847 6.170000e-18 102.0
21 TraesCS2D01G135200 chr3D 86.747 83 5 4 556 633 561469856 561469775 1.730000e-13 87.9
22 TraesCS2D01G135200 chr6A 81.260 603 53 21 3 603 7715511 7716055 1.930000e-117 433.0
23 TraesCS2D01G135200 chr4D 90.549 328 29 2 2 327 481970527 481970200 1.930000e-117 433.0
24 TraesCS2D01G135200 chr5B 90.705 312 28 1 2 312 648739452 648739763 6.980000e-112 414.0
25 TraesCS2D01G135200 chr5B 89.720 107 10 1 641 746 569106415 569106521 6.080000e-28 135.0
26 TraesCS2D01G135200 chr5B 89.720 107 10 1 641 746 569108729 569108835 6.080000e-28 135.0
27 TraesCS2D01G135200 chr5B 89.720 107 10 1 641 746 569227196 569227302 6.080000e-28 135.0
28 TraesCS2D01G135200 chr5B 87.368 95 10 2 642 736 656041436 656041344 1.330000e-19 108.0
29 TraesCS2D01G135200 chr3B 89.024 328 34 2 1 326 706246818 706246491 4.200000e-109 405.0
30 TraesCS2D01G135200 chr3B 86.018 329 42 4 3 328 770661813 770661486 2.000000e-92 350.0
31 TraesCS2D01G135200 chr3B 93.023 43 2 1 754 796 695516364 695516405 1.050000e-05 62.1
32 TraesCS2D01G135200 chr7D 89.058 329 31 5 2 327 64176378 64176052 1.510000e-108 403.0
33 TraesCS2D01G135200 chrUn 87.594 266 29 2 5 267 278597744 278598008 4.380000e-79 305.0
34 TraesCS2D01G135200 chrUn 89.720 107 10 1 641 746 199463387 199463281 6.080000e-28 135.0
35 TraesCS2D01G135200 chr4A 84.694 196 8 12 464 637 473306950 473307145 3.580000e-40 176.0
36 TraesCS2D01G135200 chr7A 93.814 97 4 2 487 581 232391286 232391382 1.010000e-30 145.0
37 TraesCS2D01G135200 chr5A 93.814 97 4 2 487 581 482683133 482683037 1.010000e-30 145.0
38 TraesCS2D01G135200 chr1B 85.841 113 13 2 640 749 684911191 684911303 2.200000e-22 117.0
39 TraesCS2D01G135200 chr1A 81.111 90 12 5 663 749 569762809 569762896 2.250000e-07 67.6


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 TraesCS2D01G135200 chr2D 79528800 79532292 3492 False 6451.000000 6451 100.000000 1 3493 1 chr2D.!!$F1 3492
1 TraesCS2D01G135200 chr2A 80225746 80230160 4414 False 549.800000 1829 88.162600 906 3493 5 chr2A.!!$F1 2587
2 TraesCS2D01G135200 chr2B 131107901 131111295 3394 False 826.266667 1653 91.054667 777 3389 3 chr2B.!!$F2 2612
3 TraesCS2D01G135200 chr3A 141011511 141012151 640 True 832.000000 832 90.187000 3 640 1 chr3A.!!$R1 637
4 TraesCS2D01G135200 chr3D 125686084 125686847 763 False 378.000000 654 87.373500 3 748 2 chr3D.!!$F1 745
5 TraesCS2D01G135200 chr6A 7715511 7716055 544 False 433.000000 433 81.260000 3 603 1 chr6A.!!$F1 600

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
393 402 0.698818 ATGGGTGGACTTCTGGAACC 59.301 55.0 0.0 0.0 0.0 3.62 F
1025 1112 0.466555 ACTTGCGTGCCCAAACCTAA 60.467 50.0 0.0 0.0 0.0 2.69 F
2034 2142 1.135046 CGAGCAGCAGTAATCCATCG 58.865 55.0 0.0 0.0 0.0 3.84 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1543 1651 0.108615 CCCTTGTACGTCAGCTCCAG 60.109 60.0 0.0 0.0 0.0 3.86 R
2056 2164 0.108756 GCCGTCGTTCCTAGCTTTCT 60.109 55.0 0.0 0.0 0.0 2.52 R
3189 5303 0.036388 AACCACCCTACACTGCATCG 60.036 55.0 0.0 0.0 0.0 3.84 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
60 61 5.244626 ACCTGCATCTCTTTTTGCTACAAAT 59.755 36.000 0.00 0.00 39.60 2.32
125 128 5.355910 CCATTGTTATTTTGCTACTACCGGT 59.644 40.000 13.98 13.98 0.00 5.28
144 147 4.236147 CGGTGATCATTTTTGTTGCATCA 58.764 39.130 0.00 0.00 0.00 3.07
153 156 1.840630 TTGTTGCATCAGTGACGGCG 61.841 55.000 4.80 4.80 0.00 6.46
211 214 1.792757 AAGGGGAGCTGCAACCATGA 61.793 55.000 7.79 0.00 0.00 3.07
271 275 2.512515 GTCCGGTGGAGCTGCATC 60.513 66.667 12.38 10.47 29.39 3.91
328 333 4.559153 GGCACTTAGATTTGCACAAACAT 58.441 39.130 0.00 0.00 40.75 2.71
393 402 0.698818 ATGGGTGGACTTCTGGAACC 59.301 55.000 0.00 0.00 0.00 3.62
399 408 3.876589 GACTTCTGGAACCGCGGCA 62.877 63.158 28.58 14.94 0.00 5.69
410 419 2.331893 CCGCGGCATTTCAGGAACA 61.332 57.895 14.67 0.00 0.00 3.18
680 742 5.590530 AAGTAGAAGATGAGTTGCGATCT 57.409 39.130 0.00 0.00 0.00 2.75
692 754 2.351322 CGATCTGACGGTCTCGCG 60.351 66.667 9.88 0.00 40.63 5.87
715 778 4.779733 AGATCGGACGGCTGGGGT 62.780 66.667 0.00 0.00 0.00 4.95
717 780 2.838225 ATCGGACGGCTGGGGTAG 60.838 66.667 0.00 0.00 0.00 3.18
755 818 3.419759 GGCGCACCGACATCGTTT 61.420 61.111 10.83 0.00 33.63 3.60
756 819 2.554272 GCGCACCGACATCGTTTT 59.446 55.556 0.30 0.00 37.74 2.43
757 820 1.082366 GCGCACCGACATCGTTTTT 60.082 52.632 0.30 0.00 37.74 1.94
781 844 4.559862 TGAATTCTTTCTCCTCCACCTC 57.440 45.455 7.05 0.00 32.78 3.85
797 860 3.755378 CCACCTCAGCAATTATCCTATGC 59.245 47.826 0.00 0.00 40.34 3.14
799 862 3.005554 CCTCAGCAATTATCCTATGCGG 58.994 50.000 0.00 0.00 44.60 5.69
800 863 2.417933 CTCAGCAATTATCCTATGCGGC 59.582 50.000 0.00 0.00 44.60 6.53
813 876 6.043854 TCCTATGCGGCACACATAATATAA 57.956 37.500 4.03 0.00 32.64 0.98
814 877 5.872617 TCCTATGCGGCACACATAATATAAC 59.127 40.000 4.03 0.00 32.64 1.89
817 880 5.605564 TGCGGCACACATAATATAACATC 57.394 39.130 0.00 0.00 0.00 3.06
819 882 5.704978 TGCGGCACACATAATATAACATCAT 59.295 36.000 0.00 0.00 0.00 2.45
820 883 6.206438 TGCGGCACACATAATATAACATCATT 59.794 34.615 0.00 0.00 0.00 2.57
821 884 6.524239 GCGGCACACATAATATAACATCATTG 59.476 38.462 0.00 0.00 0.00 2.82
822 885 7.584108 CGGCACACATAATATAACATCATTGT 58.416 34.615 0.00 0.00 37.82 2.71
823 886 8.716909 CGGCACACATAATATAACATCATTGTA 58.283 33.333 0.00 0.00 34.06 2.41
824 887 9.825972 GGCACACATAATATAACATCATTGTAC 57.174 33.333 0.00 0.00 34.06 2.90
890 954 1.893137 GCTGGAAATCGGGTTCCTTTT 59.107 47.619 16.03 0.00 46.29 2.27
891 955 2.352715 GCTGGAAATCGGGTTCCTTTTG 60.353 50.000 16.03 7.56 46.29 2.44
892 956 1.616374 TGGAAATCGGGTTCCTTTTGC 59.384 47.619 16.03 0.00 46.29 3.68
986 1055 7.455058 ACTCGGCCTATATATAGATACTCTGG 58.545 42.308 19.51 4.07 32.05 3.86
995 1064 1.384643 GATACTCTGGCCCTGGGGT 60.385 63.158 16.03 5.81 37.65 4.95
1014 1101 1.723542 CAGCAGCGAAACTTGCGTG 60.724 57.895 0.00 0.00 37.44 5.34
1025 1112 0.466555 ACTTGCGTGCCCAAACCTAA 60.467 50.000 0.00 0.00 0.00 2.69
1094 1190 1.590932 CGCAGGGATTGAGATTGAGG 58.409 55.000 0.00 0.00 0.00 3.86
1101 1197 3.070159 GGGATTGAGATTGAGGTCGATCA 59.930 47.826 9.45 0.00 38.86 2.92
1109 1205 2.159179 TGAGGTCGATCAATGGAGGA 57.841 50.000 0.00 0.00 0.00 3.71
1113 1209 3.246301 AGGTCGATCAATGGAGGATGAT 58.754 45.455 0.00 0.00 38.93 2.45
1164 1260 3.790437 ACGGCCTGCATCTCCCTG 61.790 66.667 0.00 0.00 0.00 4.45
1353 1449 4.695231 ACCGCTCGTCGTCAACCG 62.695 66.667 0.00 0.00 36.19 4.44
1378 1477 1.457831 AGACCTACCGGATGGGAGC 60.458 63.158 9.46 3.97 45.98 4.70
1818 1926 4.722700 ATGCCCCACGTGCTGGTC 62.723 66.667 19.63 13.76 38.60 4.02
1843 1951 4.135153 CGGTGACCGGAGAGCTGG 62.135 72.222 17.80 0.00 44.15 4.85
1959 2067 2.528743 GCATCGTGCTGGGTCATCG 61.529 63.158 3.20 0.00 40.96 3.84
1960 2068 2.202932 ATCGTGCTGGGTCATCGC 60.203 61.111 0.00 0.00 0.00 4.58
1961 2069 2.725312 ATCGTGCTGGGTCATCGCT 61.725 57.895 0.00 0.00 0.00 4.93
2034 2142 1.135046 CGAGCAGCAGTAATCCATCG 58.865 55.000 0.00 0.00 0.00 3.84
2035 2143 1.536922 CGAGCAGCAGTAATCCATCGT 60.537 52.381 0.00 0.00 0.00 3.73
2037 2145 1.759445 AGCAGCAGTAATCCATCGTCT 59.241 47.619 0.00 0.00 0.00 4.18
2038 2146 1.863454 GCAGCAGTAATCCATCGTCTG 59.137 52.381 0.00 0.00 0.00 3.51
2039 2147 2.481969 GCAGCAGTAATCCATCGTCTGA 60.482 50.000 0.00 0.00 0.00 3.27
2040 2148 3.785486 CAGCAGTAATCCATCGTCTGAA 58.215 45.455 0.00 0.00 0.00 3.02
2041 2149 4.183865 CAGCAGTAATCCATCGTCTGAAA 58.816 43.478 0.00 0.00 0.00 2.69
2042 2150 4.813161 CAGCAGTAATCCATCGTCTGAAAT 59.187 41.667 0.00 0.00 0.00 2.17
2043 2151 5.295292 CAGCAGTAATCCATCGTCTGAAATT 59.705 40.000 0.00 0.00 0.00 1.82
2044 2152 5.295292 AGCAGTAATCCATCGTCTGAAATTG 59.705 40.000 0.00 0.00 0.00 2.32
2045 2153 5.505286 CAGTAATCCATCGTCTGAAATTGC 58.495 41.667 0.00 0.00 0.00 3.56
2046 2154 5.065090 CAGTAATCCATCGTCTGAAATTGCA 59.935 40.000 0.00 0.00 0.00 4.08
2047 2155 4.361451 AATCCATCGTCTGAAATTGCAC 57.639 40.909 0.00 0.00 0.00 4.57
2048 2156 2.083774 TCCATCGTCTGAAATTGCACC 58.916 47.619 0.00 0.00 0.00 5.01
2049 2157 1.811965 CCATCGTCTGAAATTGCACCA 59.188 47.619 0.00 0.00 0.00 4.17
2050 2158 2.424601 CCATCGTCTGAAATTGCACCAT 59.575 45.455 0.00 0.00 0.00 3.55
2051 2159 3.431856 CATCGTCTGAAATTGCACCATG 58.568 45.455 0.00 0.00 0.00 3.66
2052 2160 1.199789 TCGTCTGAAATTGCACCATGC 59.800 47.619 0.00 0.00 45.29 4.06
2062 2170 1.427020 GCACCATGCGAGAGAAAGC 59.573 57.895 0.00 0.00 31.71 3.51
2063 2171 1.023513 GCACCATGCGAGAGAAAGCT 61.024 55.000 0.00 0.00 31.71 3.74
2064 2172 1.740380 GCACCATGCGAGAGAAAGCTA 60.740 52.381 0.00 0.00 31.71 3.32
2065 2173 2.200067 CACCATGCGAGAGAAAGCTAG 58.800 52.381 0.00 0.00 0.00 3.42
2066 2174 1.137872 ACCATGCGAGAGAAAGCTAGG 59.862 52.381 0.00 0.00 35.32 3.02
2094 2202 2.340999 GACGAAGCAAGTCGAGACG 58.659 57.895 10.87 0.00 43.86 4.18
2096 2204 1.081376 CGAAGCAAGTCGAGACGGT 60.081 57.895 0.00 0.00 43.86 4.83
2225 2333 4.717629 TGCTGAACGCGGAGTCGG 62.718 66.667 12.47 11.08 43.27 4.79
2226 2334 4.719369 GCTGAACGCGGAGTCGGT 62.719 66.667 12.47 0.00 36.79 4.69
2262 2370 1.153667 CAGGTCAGAGGAAGAGCGC 60.154 63.158 0.00 0.00 38.46 5.92
2271 2379 4.430765 GAAGAGCGCCCGTTCCGA 62.431 66.667 2.29 0.00 0.00 4.55
2310 2421 0.031721 GCTCCATGCAGCAAATAGGC 59.968 55.000 3.00 0.00 42.31 3.93
2370 2481 6.323739 ACATGTCCACTGTTTTTATGGTTCTT 59.676 34.615 0.00 0.00 34.89 2.52
2371 2482 6.783708 TGTCCACTGTTTTTATGGTTCTTT 57.216 33.333 0.00 0.00 34.89 2.52
2377 2488 6.363357 CACTGTTTTTATGGTTCTTTGCTAGC 59.637 38.462 8.10 8.10 0.00 3.42
2388 2499 3.027412 TCTTTGCTAGCCCTAGTCTGAG 58.973 50.000 13.29 0.00 35.65 3.35
2413 2524 4.162320 TGTTCAGAGTGTATCCAAGATCCC 59.838 45.833 0.00 0.00 0.00 3.85
2439 2550 2.414293 CGGGTCGCTGTACATATAGCTC 60.414 54.545 0.00 0.36 38.16 4.09
2442 2553 3.502595 GGTCGCTGTACATATAGCTCTCA 59.497 47.826 0.00 0.00 38.16 3.27
2498 2609 7.278875 TCTGTTTTGTTTCCTTTAAATGCCAT 58.721 30.769 0.00 0.00 0.00 4.40
2499 2610 7.226325 TCTGTTTTGTTTCCTTTAAATGCCATG 59.774 33.333 0.00 0.00 0.00 3.66
2504 2616 9.566432 TTTGTTTCCTTTAAATGCCATGTTTAT 57.434 25.926 0.00 0.00 0.00 1.40
2542 4489 5.613329 ACTCTGTACTCTAAGGGTATCTCG 58.387 45.833 0.00 0.00 0.00 4.04
2547 4494 2.617774 ACTCTAAGGGTATCTCGAACGC 59.382 50.000 0.00 0.00 0.00 4.84
2560 4507 0.512952 CGAACGCTGTCTCCCAAAAG 59.487 55.000 0.00 0.00 0.00 2.27
2562 4509 1.531578 GAACGCTGTCTCCCAAAAGAC 59.468 52.381 0.00 0.00 44.87 3.01
2563 4510 0.759346 ACGCTGTCTCCCAAAAGACT 59.241 50.000 5.71 0.00 44.90 3.24
2567 4514 3.075148 GCTGTCTCCCAAAAGACTAACC 58.925 50.000 5.71 0.00 44.90 2.85
2571 4518 3.055312 GTCTCCCAAAAGACTAACCGGAT 60.055 47.826 9.46 0.00 42.01 4.18
2572 4519 3.197116 TCTCCCAAAAGACTAACCGGATC 59.803 47.826 9.46 0.00 0.00 3.36
2583 4576 0.467384 AACCGGATCTGATGCAGGAG 59.533 55.000 9.46 5.77 31.51 3.69
2586 4579 1.301558 GGATCTGATGCAGGAGCCG 60.302 63.158 4.12 0.00 41.13 5.52
2597 4590 1.152881 AGGAGCCGGCCATTCAATC 60.153 57.895 26.15 12.38 0.00 2.67
2598 4591 2.546494 GGAGCCGGCCATTCAATCG 61.546 63.158 26.15 0.00 0.00 3.34
2604 4597 2.785425 GGCCATTCAATCGTGCCCC 61.785 63.158 0.00 0.00 36.07 5.80
2636 4629 8.425577 TTTAAAAGCGGATTTGAACAAATTGA 57.574 26.923 12.91 0.00 40.77 2.57
2659 4652 9.947433 TTGAAGGAATTTCATGCAAATAAGATT 57.053 25.926 1.99 0.00 44.90 2.40
2679 4672 6.238648 AGATTGAATTCACTTAAGTTCGGGT 58.761 36.000 7.89 0.00 0.00 5.28
2681 4674 4.963373 TGAATTCACTTAAGTTCGGGTCA 58.037 39.130 5.07 3.76 0.00 4.02
2725 4718 2.512485 TCGTCCGTTCAGCTAAAACA 57.488 45.000 10.71 0.00 0.00 2.83
2768 4762 2.327343 TGGACGGTGACCTCGTACG 61.327 63.158 9.53 9.53 43.79 3.67
2773 4767 3.170585 GTGACCTCGTACGCGTGC 61.171 66.667 24.59 21.11 39.49 5.34
2811 4805 1.586154 CCTCCGTTTGTGTCCATGCC 61.586 60.000 0.00 0.00 0.00 4.40
2812 4806 0.888736 CTCCGTTTGTGTCCATGCCA 60.889 55.000 0.00 0.00 0.00 4.92
2814 4808 0.602562 CCGTTTGTGTCCATGCCATT 59.397 50.000 0.00 0.00 0.00 3.16
2824 4818 0.392863 CCATGCCATTGTCGGAGTCA 60.393 55.000 0.00 0.00 0.00 3.41
2839 4833 1.915769 GTCAGAGTGGTCCCTGCCT 60.916 63.158 0.00 0.00 0.00 4.75
2840 4834 1.915266 TCAGAGTGGTCCCTGCCTG 60.915 63.158 0.00 0.00 0.00 4.85
2842 4836 4.416738 GAGTGGTCCCTGCCTGGC 62.417 72.222 12.87 12.87 0.00 4.85
2889 4912 1.079819 CACGAGGGAGTGCACGAAT 60.080 57.895 12.01 0.00 35.17 3.34
2921 4958 0.671781 GACGCACAACATCTCCAGCT 60.672 55.000 0.00 0.00 0.00 4.24
2923 4960 0.952497 CGCACAACATCTCCAGCTGT 60.952 55.000 13.81 0.00 0.00 4.40
2937 4974 2.483441 GCTGTAGCTCGACCTCTGA 58.517 57.895 0.00 0.00 38.21 3.27
2938 4975 1.028905 GCTGTAGCTCGACCTCTGAT 58.971 55.000 0.00 0.00 38.21 2.90
2977 5014 2.027377 GCCATATACATGAGCAGCTCCT 60.027 50.000 20.16 7.22 33.67 3.69
2980 5017 1.798626 ATACATGAGCAGCTCCTCCA 58.201 50.000 20.16 1.55 0.00 3.86
3006 5043 3.000819 TCCCCGCGACATCACCTT 61.001 61.111 8.23 0.00 0.00 3.50
3011 5048 2.511600 GCGACATCACCTTCCCCG 60.512 66.667 0.00 0.00 0.00 5.73
3017 5054 1.306141 ATCACCTTCCCCGCTCTCA 60.306 57.895 0.00 0.00 0.00 3.27
3045 5136 1.153066 TTCCGCTGGAGCACAACAA 60.153 52.632 0.00 0.00 42.21 2.83
3084 5184 3.537206 GACGCTGCAACCCACCTCT 62.537 63.158 0.00 0.00 0.00 3.69
3085 5185 2.743928 CGCTGCAACCCACCTCTC 60.744 66.667 0.00 0.00 0.00 3.20
3088 5188 1.002868 CTGCAACCCACCTCTCCTG 60.003 63.158 0.00 0.00 0.00 3.86
3090 5190 2.046892 CAACCCACCTCTCCTGCG 60.047 66.667 0.00 0.00 0.00 5.18
3107 5210 1.817881 CGGCGGACACCCTAATGTA 59.182 57.895 0.00 0.00 31.24 2.29
3108 5211 0.176219 CGGCGGACACCCTAATGTAA 59.824 55.000 0.00 0.00 31.24 2.41
3164 5278 1.003718 GGTTGTCCTTCCCTCCGTG 60.004 63.158 0.00 0.00 0.00 4.94
3181 5295 4.803426 GCCCACAGCGACGAGAGG 62.803 72.222 0.00 0.00 0.00 3.69
3182 5296 4.135153 CCCACAGCGACGAGAGGG 62.135 72.222 0.00 3.82 0.00 4.30
3184 5298 3.374402 CACAGCGACGAGAGGGGT 61.374 66.667 0.00 0.00 0.00 4.95
3185 5299 3.374402 ACAGCGACGAGAGGGGTG 61.374 66.667 0.00 0.00 41.07 4.61
3186 5300 4.135153 CAGCGACGAGAGGGGTGG 62.135 72.222 0.00 0.00 34.79 4.61
3189 5303 3.450115 CGACGAGAGGGGTGGGAC 61.450 72.222 0.00 0.00 0.00 4.46
3202 5737 0.460284 GTGGGACGATGCAGTGTAGG 60.460 60.000 0.00 0.00 0.00 3.18
3210 5745 1.812571 GATGCAGTGTAGGGTGGTTTG 59.187 52.381 0.00 0.00 0.00 2.93
3211 5746 0.548989 TGCAGTGTAGGGTGGTTTGT 59.451 50.000 0.00 0.00 0.00 2.83
3212 5747 1.064314 TGCAGTGTAGGGTGGTTTGTT 60.064 47.619 0.00 0.00 0.00 2.83
3214 5749 2.223711 GCAGTGTAGGGTGGTTTGTTTG 60.224 50.000 0.00 0.00 0.00 2.93
3215 5750 3.020984 CAGTGTAGGGTGGTTTGTTTGT 58.979 45.455 0.00 0.00 0.00 2.83
3216 5751 3.020984 AGTGTAGGGTGGTTTGTTTGTG 58.979 45.455 0.00 0.00 0.00 3.33
3217 5752 3.018149 GTGTAGGGTGGTTTGTTTGTGA 58.982 45.455 0.00 0.00 0.00 3.58
3218 5753 3.066203 GTGTAGGGTGGTTTGTTTGTGAG 59.934 47.826 0.00 0.00 0.00 3.51
3219 5754 2.525105 AGGGTGGTTTGTTTGTGAGT 57.475 45.000 0.00 0.00 0.00 3.41
3220 5755 2.099405 AGGGTGGTTTGTTTGTGAGTG 58.901 47.619 0.00 0.00 0.00 3.51
3221 5756 2.096248 GGGTGGTTTGTTTGTGAGTGA 58.904 47.619 0.00 0.00 0.00 3.41
3223 5758 2.099098 GGTGGTTTGTTTGTGAGTGAGG 59.901 50.000 0.00 0.00 0.00 3.86
3224 5759 3.013921 GTGGTTTGTTTGTGAGTGAGGA 58.986 45.455 0.00 0.00 0.00 3.71
3263 6198 8.546083 AGAAGTGGATAAGACATAAGAGACAT 57.454 34.615 0.00 0.00 0.00 3.06
3282 6217 1.153628 GTGGTCGTGGGAAGATCGG 60.154 63.158 0.00 0.00 0.00 4.18
3295 6230 4.690719 ATCGGGGCGTTCGTTGCA 62.691 61.111 0.00 0.00 0.00 4.08
3310 6245 1.781025 TTGCAGCCCGTGTTTCTTCG 61.781 55.000 0.00 0.00 0.00 3.79
3343 6278 0.176680 GCTGACGTGGGTGATCTCAT 59.823 55.000 0.00 0.00 0.00 2.90
3358 6314 6.073873 GGTGATCTCATTTGCTCTAAGATTCG 60.074 42.308 0.00 0.00 0.00 3.34
3404 6360 7.740805 GGAGATGTTCCTTCCAATAGTCTAAT 58.259 38.462 0.00 0.00 43.16 1.73
3406 6362 9.921637 GAGATGTTCCTTCCAATAGTCTAATAG 57.078 37.037 0.00 0.00 0.00 1.73
3409 6365 7.713750 TGTTCCTTCCAATAGTCTAATAGTCG 58.286 38.462 0.00 0.00 0.00 4.18
3410 6366 6.896021 TCCTTCCAATAGTCTAATAGTCGG 57.104 41.667 0.00 0.00 0.00 4.79
3426 6382 9.400638 CTAATAGTCGGATGTCAGATTTTAGTC 57.599 37.037 0.00 0.00 0.00 2.59
3430 6386 7.162082 AGTCGGATGTCAGATTTTAGTCTTTT 58.838 34.615 0.00 0.00 0.00 2.27
3445 6401 5.296813 AGTCTTTTCAATATGTTGTCGGC 57.703 39.130 1.86 0.00 36.69 5.54
3471 6427 3.976942 TCGACCGAACTTTCTTTTAGTCG 59.023 43.478 0.00 0.00 45.25 4.18
3477 6433 5.429615 CGAACTTTCTTTTAGTCGAACCAC 58.570 41.667 0.00 0.00 0.00 4.16
3479 6435 5.986004 ACTTTCTTTTAGTCGAACCACAG 57.014 39.130 0.00 0.00 0.00 3.66
3489 6445 9.715121 TTTTAGTCGAACCACAGTCTTTATTAT 57.285 29.630 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 61 1.712018 CCGTCGTCTCGCCATGACTA 61.712 60.000 0.00 0.00 31.05 2.59
93 95 5.911752 AGCAAAATAACAATGGTTGTGACA 58.088 33.333 0.00 0.00 44.59 3.58
96 98 7.540745 GGTAGTAGCAAAATAACAATGGTTGTG 59.459 37.037 0.00 0.00 44.59 3.33
103 105 6.174760 TCACCGGTAGTAGCAAAATAACAAT 58.825 36.000 6.87 0.00 0.00 2.71
109 111 4.481368 TGATCACCGGTAGTAGCAAAAT 57.519 40.909 6.87 0.00 0.00 1.82
125 128 5.921976 GTCACTGATGCAACAAAAATGATCA 59.078 36.000 0.00 0.00 0.00 2.92
144 147 2.261671 GTGTCATCCGCCGTCACT 59.738 61.111 0.00 0.00 0.00 3.41
211 214 1.071471 CGGTTCCAGCTCTTGTGGT 59.929 57.895 0.00 0.00 36.37 4.16
271 275 0.940991 GCTGCCGGTTGAAGCAAAAG 60.941 55.000 1.90 0.00 38.82 2.27
328 333 1.304381 GGAAGCTTCCATGGGTGCA 60.304 57.895 35.71 0.00 46.76 4.57
382 391 2.748058 AATGCCGCGGTTCCAGAAGT 62.748 55.000 28.70 0.00 0.00 3.01
393 402 0.454957 CTTGTTCCTGAAATGCCGCG 60.455 55.000 0.00 0.00 0.00 6.46
399 408 2.094675 CGCCATCCTTGTTCCTGAAAT 58.905 47.619 0.00 0.00 0.00 2.17
659 721 4.642437 TCAGATCGCAACTCATCTTCTACT 59.358 41.667 0.00 0.00 0.00 2.57
672 734 1.136774 CGAGACCGTCAGATCGCAA 59.863 57.895 0.40 0.00 0.00 4.85
715 778 3.520187 GAAAGTTTCGGCCCGTCTA 57.480 52.632 1.63 0.00 0.00 2.59
754 817 7.950124 AGGTGGAGGAGAAAGAATTCATAAAAA 59.050 33.333 8.44 0.00 38.06 1.94
755 818 7.470192 AGGTGGAGGAGAAAGAATTCATAAAA 58.530 34.615 8.44 0.00 38.06 1.52
756 819 7.032598 AGGTGGAGGAGAAAGAATTCATAAA 57.967 36.000 8.44 0.00 38.06 1.40
757 820 6.215431 TGAGGTGGAGGAGAAAGAATTCATAA 59.785 38.462 8.44 0.00 38.06 1.90
758 821 5.726308 TGAGGTGGAGGAGAAAGAATTCATA 59.274 40.000 8.44 0.00 38.06 2.15
759 822 4.537688 TGAGGTGGAGGAGAAAGAATTCAT 59.462 41.667 8.44 0.00 38.06 2.57
760 823 3.909995 TGAGGTGGAGGAGAAAGAATTCA 59.090 43.478 8.44 0.00 38.06 2.57
761 824 4.512484 CTGAGGTGGAGGAGAAAGAATTC 58.488 47.826 0.00 0.00 35.70 2.17
762 825 3.308046 GCTGAGGTGGAGGAGAAAGAATT 60.308 47.826 0.00 0.00 0.00 2.17
763 826 2.238395 GCTGAGGTGGAGGAGAAAGAAT 59.762 50.000 0.00 0.00 0.00 2.40
764 827 1.625818 GCTGAGGTGGAGGAGAAAGAA 59.374 52.381 0.00 0.00 0.00 2.52
765 828 1.270907 GCTGAGGTGGAGGAGAAAGA 58.729 55.000 0.00 0.00 0.00 2.52
766 829 0.979665 TGCTGAGGTGGAGGAGAAAG 59.020 55.000 0.00 0.00 0.00 2.62
767 830 1.434188 TTGCTGAGGTGGAGGAGAAA 58.566 50.000 0.00 0.00 0.00 2.52
768 831 1.661463 ATTGCTGAGGTGGAGGAGAA 58.339 50.000 0.00 0.00 0.00 2.87
769 832 1.661463 AATTGCTGAGGTGGAGGAGA 58.339 50.000 0.00 0.00 0.00 3.71
770 833 3.495806 GGATAATTGCTGAGGTGGAGGAG 60.496 52.174 0.00 0.00 0.00 3.69
771 834 2.439507 GGATAATTGCTGAGGTGGAGGA 59.560 50.000 0.00 0.00 0.00 3.71
772 835 2.441001 AGGATAATTGCTGAGGTGGAGG 59.559 50.000 0.00 0.00 0.00 4.30
773 836 3.853355 AGGATAATTGCTGAGGTGGAG 57.147 47.619 0.00 0.00 0.00 3.86
774 837 4.505566 GCATAGGATAATTGCTGAGGTGGA 60.506 45.833 0.00 0.00 33.61 4.02
775 838 3.755378 GCATAGGATAATTGCTGAGGTGG 59.245 47.826 0.00 0.00 33.61 4.61
781 844 2.095567 GTGCCGCATAGGATAATTGCTG 60.096 50.000 0.00 0.00 45.00 4.41
797 860 7.584108 ACAATGATGTTATATTATGTGTGCCG 58.416 34.615 0.00 0.00 35.91 5.69
822 885 8.628630 TGAAAATGAGGACATGTACAAATGTA 57.371 30.769 11.55 0.00 40.87 2.29
823 886 7.523293 TGAAAATGAGGACATGTACAAATGT 57.477 32.000 11.55 0.00 43.47 2.71
824 887 8.865978 CAATGAAAATGAGGACATGTACAAATG 58.134 33.333 11.55 0.00 36.79 2.32
825 888 7.546667 GCAATGAAAATGAGGACATGTACAAAT 59.453 33.333 11.55 0.00 36.79 2.32
826 889 6.867816 GCAATGAAAATGAGGACATGTACAAA 59.132 34.615 11.55 0.00 36.79 2.83
890 954 8.975295 TCTATCTATATAGTACTCCGTACAGCA 58.025 37.037 9.58 0.00 41.03 4.41
891 955 9.985730 ATCTATCTATATAGTACTCCGTACAGC 57.014 37.037 9.58 0.00 41.03 4.40
907 971 7.776618 TCGGCAAGGAAAAGATCTATCTATA 57.223 36.000 0.00 0.00 35.76 1.31
995 1064 2.938253 CGCAAGTTTCGCTGCTGA 59.062 55.556 0.00 0.00 0.00 4.26
1014 1101 2.794631 CGCGATTTGATTAGGTTTGGGC 60.795 50.000 0.00 0.00 0.00 5.36
1101 1197 2.551721 GGCGTCATGATCATCCTCCATT 60.552 50.000 4.86 0.00 0.00 3.16
1353 1449 1.102222 ATCCGGTAGGTCTGACTCGC 61.102 60.000 7.85 0.00 39.05 5.03
1495 1603 1.466558 CTTCTTCTTCTTCTTGCCCGC 59.533 52.381 0.00 0.00 0.00 6.13
1543 1651 0.108615 CCCTTGTACGTCAGCTCCAG 60.109 60.000 0.00 0.00 0.00 3.86
1545 1653 1.218316 CCCCTTGTACGTCAGCTCC 59.782 63.158 0.00 0.00 0.00 4.70
2034 2142 1.199789 TCGCATGGTGCAATTTCAGAC 59.800 47.619 2.63 0.00 45.36 3.51
2035 2143 1.469703 CTCGCATGGTGCAATTTCAGA 59.530 47.619 2.63 0.00 45.36 3.27
2037 2145 1.469703 CTCTCGCATGGTGCAATTTCA 59.530 47.619 2.63 0.00 45.36 2.69
2038 2146 1.739466 TCTCTCGCATGGTGCAATTTC 59.261 47.619 2.63 0.00 45.36 2.17
2039 2147 1.825090 TCTCTCGCATGGTGCAATTT 58.175 45.000 2.63 0.00 45.36 1.82
2040 2148 1.825090 TTCTCTCGCATGGTGCAATT 58.175 45.000 2.63 0.00 45.36 2.32
2041 2149 1.741706 CTTTCTCTCGCATGGTGCAAT 59.258 47.619 2.63 0.00 45.36 3.56
2042 2150 1.159285 CTTTCTCTCGCATGGTGCAA 58.841 50.000 2.63 0.00 45.36 4.08
2043 2151 1.300971 GCTTTCTCTCGCATGGTGCA 61.301 55.000 2.63 0.00 45.36 4.57
2044 2152 1.023513 AGCTTTCTCTCGCATGGTGC 61.024 55.000 0.00 0.00 40.69 5.01
2045 2153 2.200067 CTAGCTTTCTCTCGCATGGTG 58.800 52.381 0.00 0.00 0.00 4.17
2046 2154 1.137872 CCTAGCTTTCTCTCGCATGGT 59.862 52.381 0.00 0.00 0.00 3.55
2047 2155 1.410517 TCCTAGCTTTCTCTCGCATGG 59.589 52.381 0.00 0.00 0.00 3.66
2048 2156 2.863137 GTTCCTAGCTTTCTCTCGCATG 59.137 50.000 0.00 0.00 0.00 4.06
2049 2157 2.480416 CGTTCCTAGCTTTCTCTCGCAT 60.480 50.000 0.00 0.00 0.00 4.73
2050 2158 1.135373 CGTTCCTAGCTTTCTCTCGCA 60.135 52.381 0.00 0.00 0.00 5.10
2051 2159 1.132643 TCGTTCCTAGCTTTCTCTCGC 59.867 52.381 0.00 0.00 0.00 5.03
2052 2160 2.788030 GTCGTTCCTAGCTTTCTCTCG 58.212 52.381 0.00 0.00 0.00 4.04
2053 2161 2.478200 CCGTCGTTCCTAGCTTTCTCTC 60.478 54.545 0.00 0.00 0.00 3.20
2054 2162 1.473278 CCGTCGTTCCTAGCTTTCTCT 59.527 52.381 0.00 0.00 0.00 3.10
2055 2163 1.910688 CCGTCGTTCCTAGCTTTCTC 58.089 55.000 0.00 0.00 0.00 2.87
2056 2164 0.108756 GCCGTCGTTCCTAGCTTTCT 60.109 55.000 0.00 0.00 0.00 2.52
2057 2165 1.411493 CGCCGTCGTTCCTAGCTTTC 61.411 60.000 0.00 0.00 0.00 2.62
2058 2166 1.445582 CGCCGTCGTTCCTAGCTTT 60.446 57.895 0.00 0.00 0.00 3.51
2059 2167 2.181021 CGCCGTCGTTCCTAGCTT 59.819 61.111 0.00 0.00 0.00 3.74
2060 2168 2.749044 TCGCCGTCGTTCCTAGCT 60.749 61.111 0.00 0.00 36.96 3.32
2061 2169 2.578981 GTCGCCGTCGTTCCTAGC 60.579 66.667 0.00 0.00 36.96 3.42
2062 2170 2.244436 TTCGTCGCCGTCGTTCCTAG 62.244 60.000 3.41 0.00 36.96 3.02
2063 2171 2.244436 CTTCGTCGCCGTCGTTCCTA 62.244 60.000 3.41 0.00 36.96 2.94
2064 2172 3.606065 CTTCGTCGCCGTCGTTCCT 62.606 63.158 3.41 0.00 36.96 3.36
2065 2173 3.170585 CTTCGTCGCCGTCGTTCC 61.171 66.667 3.41 0.00 36.96 3.62
2066 2174 3.824510 GCTTCGTCGCCGTCGTTC 61.825 66.667 3.41 0.00 36.96 3.95
2113 2221 2.573869 CATCTCACAGGTCGGCGT 59.426 61.111 6.85 0.00 0.00 5.68
2370 2481 2.828661 TCTCAGACTAGGGCTAGCAA 57.171 50.000 18.24 0.00 36.66 3.91
2371 2482 2.091610 ACATCTCAGACTAGGGCTAGCA 60.092 50.000 18.24 0.00 36.66 3.49
2413 2524 1.989966 ATGTACAGCGACCCGTCTCG 61.990 60.000 0.33 0.00 36.70 4.04
2439 2550 9.386010 AGTTGTAGTACTACTGAGAACTATGAG 57.614 37.037 28.56 0.00 33.15 2.90
2504 2616 9.736414 AGAGTACAGAGTAGTGTATGAAAGTTA 57.264 33.333 0.00 0.00 35.40 2.24
2542 4489 1.531578 GTCTTTTGGGAGACAGCGTTC 59.468 52.381 0.44 0.00 44.30 3.95
2547 4494 3.326747 CGGTTAGTCTTTTGGGAGACAG 58.673 50.000 7.66 0.00 46.69 3.51
2560 4507 2.546795 CCTGCATCAGATCCGGTTAGTC 60.547 54.545 0.00 0.00 32.44 2.59
2562 4509 1.688735 TCCTGCATCAGATCCGGTTAG 59.311 52.381 0.00 0.00 32.44 2.34
2563 4510 1.688735 CTCCTGCATCAGATCCGGTTA 59.311 52.381 0.00 0.00 32.44 2.85
2567 4514 1.301558 GGCTCCTGCATCAGATCCG 60.302 63.158 0.00 0.00 41.91 4.18
2571 4518 4.166888 GCCGGCTCCTGCATCAGA 62.167 66.667 22.15 0.00 41.91 3.27
2583 4576 2.408835 CACGATTGAATGGCCGGC 59.591 61.111 21.18 21.18 0.00 6.13
2597 4590 3.868661 GCTTTTAAATATTTGGGGGCACG 59.131 43.478 11.05 0.00 0.00 5.34
2598 4591 3.868661 CGCTTTTAAATATTTGGGGGCAC 59.131 43.478 11.05 0.00 0.00 5.01
2604 4597 8.930760 TGTTCAAATCCGCTTTTAAATATTTGG 58.069 29.630 11.05 2.55 35.84 3.28
2636 4629 9.947433 TTCAATCTTATTTGCATGAAATTCCTT 57.053 25.926 0.00 0.00 35.74 3.36
2659 4652 4.963373 TGACCCGAACTTAAGTGAATTCA 58.037 39.130 9.34 3.38 0.00 2.57
2811 4805 1.273606 ACCACTCTGACTCCGACAATG 59.726 52.381 0.00 0.00 0.00 2.82
2812 4806 1.546476 GACCACTCTGACTCCGACAAT 59.454 52.381 0.00 0.00 0.00 2.71
2814 4808 0.894184 GGACCACTCTGACTCCGACA 60.894 60.000 0.00 0.00 0.00 4.35
2824 4818 2.608988 CCAGGCAGGGACCACTCT 60.609 66.667 0.00 0.00 0.00 3.24
2848 4871 4.803426 CACGGAGCTCCACCTCGC 62.803 72.222 31.67 3.61 35.14 5.03
2894 4917 0.250684 ATGTTGTGCGTCATGGTGGA 60.251 50.000 0.00 0.00 0.00 4.02
2901 4938 0.950555 GCTGGAGATGTTGTGCGTCA 60.951 55.000 0.00 0.00 35.60 4.35
2921 4958 0.741326 GCATCAGAGGTCGAGCTACA 59.259 55.000 18.63 4.55 0.00 2.74
2923 4960 0.741326 GTGCATCAGAGGTCGAGCTA 59.259 55.000 18.63 1.99 0.00 3.32
2935 4972 1.635487 AGGGCTTTTCTAGGTGCATCA 59.365 47.619 0.00 0.00 0.00 3.07
2936 4973 2.019984 CAGGGCTTTTCTAGGTGCATC 58.980 52.381 0.00 0.00 0.00 3.91
2937 4974 1.957113 GCAGGGCTTTTCTAGGTGCAT 60.957 52.381 0.00 0.00 0.00 3.96
2938 4975 0.609131 GCAGGGCTTTTCTAGGTGCA 60.609 55.000 0.00 0.00 0.00 4.57
2992 5029 2.511600 GGGAAGGTGATGTCGCGG 60.512 66.667 6.13 0.00 0.00 6.46
2993 5030 2.511600 GGGGAAGGTGATGTCGCG 60.512 66.667 0.00 0.00 0.00 5.87
3006 5043 1.076727 TCAAGAGTGAGAGCGGGGA 59.923 57.895 0.00 0.00 0.00 4.81
3088 5188 2.300850 TACATTAGGGTGTCCGCCGC 62.301 60.000 0.00 0.00 38.33 6.53
3090 5190 1.474498 CCTTACATTAGGGTGTCCGCC 60.474 57.143 0.00 0.00 38.33 6.13
3107 5210 1.002274 AGGAGCTCCATCGGACCTT 59.998 57.895 33.90 7.59 38.89 3.50
3108 5211 1.456705 GAGGAGCTCCATCGGACCT 60.457 63.158 33.90 11.28 38.89 3.85
3139 5253 1.675641 GGAAGGACAACCATGCGCT 60.676 57.895 9.73 0.00 38.94 5.92
3148 5262 2.747686 GCACGGAGGGAAGGACAA 59.252 61.111 0.00 0.00 0.00 3.18
3152 5266 4.410400 GTGGGCACGGAGGGAAGG 62.410 72.222 0.00 0.00 0.00 3.46
3164 5278 4.803426 CCTCTCGTCGCTGTGGGC 62.803 72.222 0.00 0.00 37.64 5.36
3174 5288 3.298300 ATCGTCCCACCCCTCTCGT 62.298 63.158 0.00 0.00 0.00 4.18
3175 5289 2.442272 ATCGTCCCACCCCTCTCG 60.442 66.667 0.00 0.00 0.00 4.04
3176 5290 3.095347 GCATCGTCCCACCCCTCTC 62.095 68.421 0.00 0.00 0.00 3.20
3177 5291 3.083997 GCATCGTCCCACCCCTCT 61.084 66.667 0.00 0.00 0.00 3.69
3179 5293 3.402681 CTGCATCGTCCCACCCCT 61.403 66.667 0.00 0.00 0.00 4.79
3180 5294 3.717294 ACTGCATCGTCCCACCCC 61.717 66.667 0.00 0.00 0.00 4.95
3181 5295 1.895020 TACACTGCATCGTCCCACCC 61.895 60.000 0.00 0.00 0.00 4.61
3182 5296 0.460284 CTACACTGCATCGTCCCACC 60.460 60.000 0.00 0.00 0.00 4.61
3184 5298 1.613317 CCCTACACTGCATCGTCCCA 61.613 60.000 0.00 0.00 0.00 4.37
3185 5299 1.144057 CCCTACACTGCATCGTCCC 59.856 63.158 0.00 0.00 0.00 4.46
3186 5300 0.460284 CACCCTACACTGCATCGTCC 60.460 60.000 0.00 0.00 0.00 4.79
3187 5301 0.460284 CCACCCTACACTGCATCGTC 60.460 60.000 0.00 0.00 0.00 4.20
3189 5303 0.036388 AACCACCCTACACTGCATCG 60.036 55.000 0.00 0.00 0.00 3.84
3202 5737 2.099098 CCTCACTCACAAACAAACCACC 59.901 50.000 0.00 0.00 0.00 4.61
3210 5745 1.543429 CCCCACTCCTCACTCACAAAC 60.543 57.143 0.00 0.00 0.00 2.93
3211 5746 0.764890 CCCCACTCCTCACTCACAAA 59.235 55.000 0.00 0.00 0.00 2.83
3212 5747 0.399949 ACCCCACTCCTCACTCACAA 60.400 55.000 0.00 0.00 0.00 3.33
3214 5749 0.832135 TCACCCCACTCCTCACTCAC 60.832 60.000 0.00 0.00 0.00 3.51
3215 5750 0.542938 CTCACCCCACTCCTCACTCA 60.543 60.000 0.00 0.00 0.00 3.41
3216 5751 1.261238 CCTCACCCCACTCCTCACTC 61.261 65.000 0.00 0.00 0.00 3.51
3217 5752 1.229336 CCTCACCCCACTCCTCACT 60.229 63.158 0.00 0.00 0.00 3.41
3218 5753 1.229209 TCCTCACCCCACTCCTCAC 60.229 63.158 0.00 0.00 0.00 3.51
3219 5754 1.079256 CTCCTCACCCCACTCCTCA 59.921 63.158 0.00 0.00 0.00 3.86
3220 5755 0.686112 CTCTCCTCACCCCACTCCTC 60.686 65.000 0.00 0.00 0.00 3.71
3221 5756 1.149782 TCTCTCCTCACCCCACTCCT 61.150 60.000 0.00 0.00 0.00 3.69
3223 5758 1.190643 CTTCTCTCCTCACCCCACTC 58.809 60.000 0.00 0.00 0.00 3.51
3224 5759 0.489567 ACTTCTCTCCTCACCCCACT 59.510 55.000 0.00 0.00 0.00 4.00
3263 6198 1.589630 CGATCTTCCCACGACCACA 59.410 57.895 0.00 0.00 0.00 4.17
3295 6230 1.219522 CGTTCGAAGAAACACGGGCT 61.220 55.000 0.00 0.00 45.90 5.19
3310 6245 2.230864 CGTCAGCGAATTTTTCCGTTC 58.769 47.619 0.00 0.00 41.33 3.95
3343 6278 4.021456 TCCTGACACGAATCTTAGAGCAAA 60.021 41.667 0.00 0.00 0.00 3.68
3358 6314 0.257039 AGGCCATTGGATCCTGACAC 59.743 55.000 14.23 0.00 0.00 3.67
3389 6345 7.887381 ACATCCGACTATTAGACTATTGGAAG 58.113 38.462 0.00 0.00 0.00 3.46
3396 6352 8.693120 AAATCTGACATCCGACTATTAGACTA 57.307 34.615 0.00 0.00 0.00 2.59
3404 6360 7.406031 AAGACTAAAATCTGACATCCGACTA 57.594 36.000 0.00 0.00 0.00 2.59
3406 6362 6.969828 AAAGACTAAAATCTGACATCCGAC 57.030 37.500 0.00 0.00 0.00 4.79
3426 6382 3.853671 GCAGCCGACAACATATTGAAAAG 59.146 43.478 0.00 0.00 39.30 2.27
3430 6386 2.279741 GAGCAGCCGACAACATATTGA 58.720 47.619 0.00 0.00 39.30 2.57
3445 6401 1.784525 AAGAAAGTTCGGTCGAGCAG 58.215 50.000 15.89 7.72 0.00 4.24


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

AutoCloner maintained by Alex Coulton.