Multiple sequence alignment - TraesCS2D01G030000

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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 TraesCS2D01G030000 chr2D 100.000 3656 0 0 1 3656 12325788 12322133 0.000000e+00 6752.0
1 TraesCS2D01G030000 chr2D 76.471 714 150 15 1210 1914 12304887 12304183 4.460000e-99 372.0
2 TraesCS2D01G030000 chr2D 75.592 676 146 15 1140 1804 542127607 542126940 2.120000e-82 316.0
3 TraesCS2D01G030000 chr2D 91.266 229 18 2 459 685 566250507 566250735 9.860000e-81 311.0
4 TraesCS2D01G030000 chr2D 80.808 297 55 2 3277 3572 610402111 610402406 7.900000e-57 231.0
5 TraesCS2D01G030000 chr2D 85.437 103 14 1 248 349 392089238 392089136 4.990000e-19 106.0
6 TraesCS2D01G030000 chr2D 88.136 59 5 2 186 244 487492026 487492082 6.550000e-08 69.4
7 TraesCS2D01G030000 chrUn 94.590 3623 138 19 1 3597 12448546 12452136 0.000000e+00 5552.0
8 TraesCS2D01G030000 chrUn 77.358 689 140 13 1204 1884 12462013 12462693 9.520000e-106 394.0
9 TraesCS2D01G030000 chrUn 83.186 113 17 2 2989 3101 94516880 94516770 6.460000e-18 102.0
10 TraesCS2D01G030000 chrUn 92.857 42 3 0 1393 1434 264862843 264862802 1.100000e-05 62.1
11 TraesCS2D01G030000 chrUn 92.857 42 3 0 1393 1434 299068962 299069003 1.100000e-05 62.1
12 TraesCS2D01G030000 chr3D 76.453 671 143 12 1140 1804 532125585 532124924 2.090000e-92 350.0
13 TraesCS2D01G030000 chr3D 78.425 292 47 13 3254 3540 441034168 441033888 3.750000e-40 176.0
14 TraesCS2D01G030000 chr3D 95.918 49 2 0 196 244 388381690 388381738 3.030000e-11 80.5
15 TraesCS2D01G030000 chr3B 76.042 672 144 15 1140 1804 704262616 704261955 2.100000e-87 333.0
16 TraesCS2D01G030000 chr3B 90.041 241 19 3 460 698 682655380 682655617 1.280000e-79 307.0
17 TraesCS2D01G030000 chr3B 74.503 553 129 9 2030 2573 68428240 68427691 2.840000e-56 230.0
18 TraesCS2D01G030000 chr3B 80.368 163 18 7 199 350 605663274 605663433 1.070000e-20 111.0
19 TraesCS2D01G030000 chr7B 91.630 227 18 1 460 685 40342898 40342672 2.740000e-81 313.0
20 TraesCS2D01G030000 chr7B 90.870 230 19 2 460 687 313691026 313690797 1.280000e-79 307.0
21 TraesCS2D01G030000 chr7B 89.431 246 20 4 456 698 102232194 102231952 4.590000e-79 305.0
22 TraesCS2D01G030000 chr7B 88.108 185 14 6 19 202 322488453 322488630 2.860000e-51 213.0
23 TraesCS2D01G030000 chr7B 80.909 110 21 0 2993 3102 58248057 58248166 1.810000e-13 87.9
24 TraesCS2D01G030000 chr5D 76.080 602 138 2 2027 2622 560884527 560885128 3.550000e-80 309.0
25 TraesCS2D01G030000 chr5D 91.429 175 15 0 25 199 42084357 42084183 1.310000e-59 241.0
26 TraesCS2D01G030000 chr5D 77.088 419 78 10 3250 3653 25303492 25303907 3.670000e-55 226.0
27 TraesCS2D01G030000 chr5D 94.318 88 5 0 348 435 369429895 369429808 6.370000e-28 135.0
28 TraesCS2D01G030000 chr5D 81.646 158 14 8 195 337 27893105 27893262 2.310000e-22 117.0
29 TraesCS2D01G030000 chr5D 84.043 94 15 0 3354 3447 560376905 560376812 1.400000e-14 91.6
30 TraesCS2D01G030000 chr5D 87.179 78 9 1 3370 3447 287445094 287445018 1.810000e-13 87.9
31 TraesCS2D01G030000 chr6A 90.041 241 19 3 460 698 514705112 514704875 1.280000e-79 307.0
32 TraesCS2D01G030000 chr6A 81.470 313 58 0 3292 3604 162402470 162402158 1.300000e-64 257.0
33 TraesCS2D01G030000 chr6A 80.695 259 45 5 3344 3599 336251124 336250868 2.880000e-46 196.0
34 TraesCS2D01G030000 chr6A 79.070 215 35 7 3256 3468 596077339 596077545 4.920000e-29 139.0
35 TraesCS2D01G030000 chr6B 80.332 422 67 10 3246 3653 14104806 14104387 4.590000e-79 305.0
36 TraesCS2D01G030000 chr6B 88.285 239 25 3 456 691 498584596 498584358 2.150000e-72 283.0
37 TraesCS2D01G030000 chr6B 96.875 32 1 0 3112 3143 459560330 459560299 2.000000e-03 54.7
38 TraesCS2D01G030000 chr6B 100.000 29 0 0 3108 3136 593995900 593995872 2.000000e-03 54.7
39 TraesCS2D01G030000 chr4B 89.627 241 19 4 460 698 519813023 519813259 5.930000e-78 302.0
40 TraesCS2D01G030000 chr1B 89.712 243 16 6 460 698 288163205 288162968 5.930000e-78 302.0
41 TraesCS2D01G030000 chr1B 75.273 275 55 12 3269 3539 674686919 674686654 6.410000e-23 119.0
42 TraesCS2D01G030000 chr7D 90.086 232 18 5 459 688 399481041 399480813 2.760000e-76 296.0
43 TraesCS2D01G030000 chr7D 87.395 238 25 3 463 698 60453001 60452767 6.020000e-68 268.0
44 TraesCS2D01G030000 chr7D 78.814 354 70 4 3252 3604 268831821 268831472 2.200000e-57 233.0
45 TraesCS2D01G030000 chr7D 89.560 182 18 1 19 199 363048660 363048841 2.840000e-56 230.0
46 TraesCS2D01G030000 chr7D 79.715 281 51 3 3245 3522 585552844 585553121 8.010000e-47 198.0
47 TraesCS2D01G030000 chr7D 84.536 97 15 0 1819 1915 568067747 568067843 3.010000e-16 97.1
48 TraesCS2D01G030000 chr7D 77.931 145 31 1 2993 3136 101394286 101394430 5.030000e-14 89.8
49 TraesCS2D01G030000 chr1D 89.700 233 20 4 456 685 415392931 415392700 9.930000e-76 294.0
50 TraesCS2D01G030000 chr1D 80.473 338 63 3 3254 3589 435361767 435361431 4.690000e-64 255.0
51 TraesCS2D01G030000 chr1D 80.952 231 40 4 3371 3599 432778420 432778648 2.900000e-41 180.0
52 TraesCS2D01G030000 chr1D 74.230 357 77 9 3257 3603 457852882 457853233 6.370000e-28 135.0
53 TraesCS2D01G030000 chr1D 90.323 93 7 2 342 432 344598774 344598866 1.780000e-23 121.0
54 TraesCS2D01G030000 chr4A 81.375 349 63 2 3256 3603 7614708 7614361 2.150000e-72 283.0
55 TraesCS2D01G030000 chr2A 74.816 679 146 21 1140 1804 684915741 684915074 2.150000e-72 283.0
56 TraesCS2D01G030000 chr2A 74.675 616 140 12 2030 2634 684913914 684913304 3.620000e-65 259.0
57 TraesCS2D01G030000 chr2A 80.723 332 59 3 3267 3597 179846152 179846479 1.690000e-63 254.0
58 TraesCS2D01G030000 chr2A 78.261 368 71 7 3279 3641 716237792 716237429 1.020000e-55 228.0
59 TraesCS2D01G030000 chr6D 87.449 247 22 8 454 698 200818723 200818484 3.600000e-70 276.0
60 TraesCS2D01G030000 chr6D 88.827 179 18 2 22 199 445836573 445836750 6.150000e-53 219.0
61 TraesCS2D01G030000 chr6D 82.716 162 16 8 199 349 29378337 29378177 2.290000e-27 134.0
62 TraesCS2D01G030000 chr6D 92.553 94 6 1 348 441 348087684 348087592 2.290000e-27 134.0
63 TraesCS2D01G030000 chr6D 100.000 29 0 0 3108 3136 397299653 397299625 2.000000e-03 54.7
64 TraesCS2D01G030000 chr2B 81.711 339 52 7 3257 3589 438878762 438878428 1.290000e-69 274.0
65 TraesCS2D01G030000 chr2B 86.561 253 29 3 448 698 760870955 760870706 1.290000e-69 274.0
66 TraesCS2D01G030000 chr2B 80.967 331 59 4 3255 3584 745726959 745727286 3.620000e-65 259.0
67 TraesCS2D01G030000 chr2B 77.540 187 23 9 185 356 222003690 222003872 1.080000e-15 95.3
68 TraesCS2D01G030000 chr2B 82.075 106 17 2 245 350 257071364 257071467 5.030000e-14 89.8
69 TraesCS2D01G030000 chr2B 86.441 59 6 2 186 244 572154973 572155029 3.050000e-06 63.9
70 TraesCS2D01G030000 chr5B 86.307 241 27 4 460 698 516404159 516403923 1.300000e-64 257.0
71 TraesCS2D01G030000 chr5B 90.116 172 16 1 29 199 447183491 447183320 4.750000e-54 222.0
72 TraesCS2D01G030000 chr5B 94.253 87 5 0 348 434 314297384 314297470 2.290000e-27 134.0
73 TraesCS2D01G030000 chr5B 82.530 166 16 4 200 354 615714230 615714067 2.290000e-27 134.0
74 TraesCS2D01G030000 chr5B 90.323 93 7 2 348 440 622382633 622382723 1.780000e-23 121.0
75 TraesCS2D01G030000 chr3A 80.655 336 60 5 3256 3589 621897240 621896908 4.690000e-64 255.0
76 TraesCS2D01G030000 chr3A 73.544 601 147 9 2030 2621 55706682 55706085 6.150000e-53 219.0
77 TraesCS2D01G030000 chr3A 100.000 40 0 0 204 243 21171506 21171467 1.410000e-09 75.0
78 TraesCS2D01G030000 chr5A 90.909 176 15 1 25 199 30657396 30657221 6.100000e-58 235.0
79 TraesCS2D01G030000 chr5A 81.271 299 48 7 3253 3548 658302168 658301875 6.100000e-58 235.0
80 TraesCS2D01G030000 chr5A 90.341 176 16 1 25 199 640393795 640393620 2.840000e-56 230.0
81 TraesCS2D01G030000 chr5A 79.078 282 51 7 3253 3530 600903183 600902906 1.730000e-43 187.0
82 TraesCS2D01G030000 chr5A 84.713 157 12 4 200 344 621020713 621020557 2.940000e-31 147.0
83 TraesCS2D01G030000 chr5A 82.883 111 16 3 241 349 652363826 652363717 3.010000e-16 97.1
84 TraesCS2D01G030000 chr5A 91.228 57 2 2 194 248 615864768 615864823 1.410000e-09 75.0
85 TraesCS2D01G030000 chr1A 80.573 314 54 7 3257 3568 570262809 570262501 6.100000e-58 235.0
86 TraesCS2D01G030000 chr1A 78.098 347 67 7 3253 3597 79500003 79500342 1.030000e-50 211.0
87 TraesCS2D01G030000 chr1A 94.186 86 5 0 351 436 495324210 495324125 8.240000e-27 132.0
88 TraesCS2D01G030000 chr1A 90.110 91 6 3 241 330 402935229 402935317 8.300000e-22 115.0
89 TraesCS2D01G030000 chr1A 83.486 109 15 3 248 353 349357854 349357746 8.360000e-17 99.0
90 TraesCS2D01G030000 chr1A 75.758 165 32 7 3252 3412 9987152 9987312 3.910000e-10 76.8
91 TraesCS2D01G030000 chr4D 80.667 300 55 3 3305 3603 460584967 460585264 2.840000e-56 230.0
92 TraesCS2D01G030000 chr4D 96.471 85 3 0 348 432 9306290 9306374 1.370000e-29 141.0
93 TraesCS2D01G030000 chr7A 89.205 176 17 2 26 200 394762965 394762791 6.150000e-53 219.0
94 TraesCS2D01G030000 chr7A 93.333 90 6 0 348 437 699736061 699736150 2.290000e-27 134.0
95 TraesCS2D01G030000 chr7A 93.617 47 3 0 198 244 540059955 540060001 1.820000e-08 71.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G030000 chr2D 12322133 12325788 3655 True 6752 6752 100.0000 1 3656 1 chr2D.!!$R2 3655
1 TraesCS2D01G030000 chr2D 12304183 12304887 704 True 372 372 76.4710 1210 1914 1 chr2D.!!$R1 704
2 TraesCS2D01G030000 chr2D 542126940 542127607 667 True 316 316 75.5920 1140 1804 1 chr2D.!!$R4 664
3 TraesCS2D01G030000 chrUn 12448546 12452136 3590 False 5552 5552 94.5900 1 3597 1 chrUn.!!$F1 3596
4 TraesCS2D01G030000 chrUn 12462013 12462693 680 False 394 394 77.3580 1204 1884 1 chrUn.!!$F2 680
5 TraesCS2D01G030000 chr3D 532124924 532125585 661 True 350 350 76.4530 1140 1804 1 chr3D.!!$R2 664
6 TraesCS2D01G030000 chr3B 704261955 704262616 661 True 333 333 76.0420 1140 1804 1 chr3B.!!$R2 664
7 TraesCS2D01G030000 chr3B 68427691 68428240 549 True 230 230 74.5030 2030 2573 1 chr3B.!!$R1 543
8 TraesCS2D01G030000 chr5D 560884527 560885128 601 False 309 309 76.0800 2027 2622 1 chr5D.!!$F3 595
9 TraesCS2D01G030000 chr2A 684913304 684915741 2437 True 271 283 74.7455 1140 2634 2 chr2A.!!$R2 1494
10 TraesCS2D01G030000 chr3A 55706085 55706682 597 True 219 219 73.5440 2030 2621 1 chr3A.!!$R2 591

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
944 954 0.172352 CGGCCAGTTGTTGTTGTTGT 59.828 50.0 2.24 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2859 3893 1.281925 ACCACCCAAGGCCCATAGAG 61.282 60.0 0.0 0.0 0.0 2.43 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
71 73 8.458843 GCATATTAGGTTTAGCTGAAGTCAAAA 58.541 33.333 0.00 0.00 0.00 2.44
482 485 5.848833 ACTACCTCCGTCCTAGTTTATTG 57.151 43.478 0.00 0.00 0.00 1.90
501 504 9.465199 GTTTATTGGTCCCCTTAGTATTTTGTA 57.535 33.333 0.00 0.00 0.00 2.41
563 566 4.457257 TGCATGTCACCGAAAATTACATCA 59.543 37.500 0.00 0.00 0.00 3.07
564 567 5.125257 TGCATGTCACCGAAAATTACATCAT 59.875 36.000 0.00 0.00 0.00 2.45
571 574 7.432252 GTCACCGAAAATTACATCATTGGATTC 59.568 37.037 0.00 0.00 0.00 2.52
589 592 6.674066 TGGATTCGTATTTGAACAAGTTTCC 58.326 36.000 0.00 0.00 0.00 3.13
698 704 1.763968 TCAGGATGACGGAGGTAGTG 58.236 55.000 0.00 0.00 42.56 2.74
791 797 5.801531 TCTGTTTTGGAGTGTTAGCTCTA 57.198 39.130 0.00 0.00 35.89 2.43
941 951 2.781158 GCCGGCCAGTTGTTGTTGT 61.781 57.895 18.11 0.00 0.00 3.32
942 952 1.813192 CCGGCCAGTTGTTGTTGTT 59.187 52.632 2.24 0.00 0.00 2.83
943 953 0.527385 CCGGCCAGTTGTTGTTGTTG 60.527 55.000 2.24 0.00 0.00 3.33
944 954 0.172352 CGGCCAGTTGTTGTTGTTGT 59.828 50.000 2.24 0.00 0.00 3.32
945 955 1.403514 CGGCCAGTTGTTGTTGTTGTT 60.404 47.619 2.24 0.00 0.00 2.83
946 956 1.999024 GGCCAGTTGTTGTTGTTGTTG 59.001 47.619 0.00 0.00 0.00 3.33
947 957 2.611722 GGCCAGTTGTTGTTGTTGTTGT 60.612 45.455 0.00 0.00 0.00 3.32
971 981 4.081972 TGTTCTTGTTACCAAGCAAGCAAA 60.082 37.500 0.00 0.00 46.33 3.68
972 982 4.727507 TCTTGTTACCAAGCAAGCAAAA 57.272 36.364 0.00 0.00 46.33 2.44
973 983 5.275067 TCTTGTTACCAAGCAAGCAAAAT 57.725 34.783 0.00 0.00 46.33 1.82
1045 1067 1.299850 GCCACGTCCCTGTTTTTGC 60.300 57.895 0.00 0.00 0.00 3.68
1063 1085 3.049708 TGCTTTCTGTCATCTCAGTGG 57.950 47.619 0.00 0.00 36.85 4.00
1123 1151 2.880890 GCAAGTGGCAAGAAGAAGAAGA 59.119 45.455 0.00 0.00 43.97 2.87
1188 1216 0.535335 GCAACCTCCACCAGATCGTA 59.465 55.000 0.00 0.00 0.00 3.43
1450 1478 1.906253 CTGTGCAGGATGGAGCTCT 59.094 57.895 14.64 0.00 36.81 4.09
1887 1960 2.024414 CCTGAATTCCCCATCGAAACC 58.976 52.381 2.27 0.00 0.00 3.27
1899 1972 4.021894 CCCATCGAAACCACAACCATTAAA 60.022 41.667 0.00 0.00 0.00 1.52
1948 2157 0.948623 CCGTGGTGAATCACTCGCAA 60.949 55.000 13.53 0.00 36.17 4.85
1969 2178 5.346822 GCAAATGTCCTAGAGCAACAATTTG 59.653 40.000 0.00 0.00 35.62 2.32
2403 3429 1.540267 CAGAGAGGTTCGAGGACAGT 58.460 55.000 0.00 0.00 0.00 3.55
2695 3727 2.890945 ACAATTTACCCAGTTGTGCTCC 59.109 45.455 0.00 0.00 34.98 4.70
2708 3740 1.270571 TGTGCTCCTTTGCGTCATGTA 60.271 47.619 0.00 0.00 35.36 2.29
2816 3848 1.466167 CTCCAGCAGATTTGGACGTTG 59.534 52.381 0.00 0.00 39.74 4.10
2818 3850 1.238439 CAGCAGATTTGGACGTTGGT 58.762 50.000 0.00 0.00 0.00 3.67
2819 3851 1.197721 CAGCAGATTTGGACGTTGGTC 59.802 52.381 0.00 0.00 42.66 4.02
2840 3874 3.139397 TCCAGTAAAGGGAATGGTGTTGT 59.861 43.478 0.00 0.00 34.32 3.32
2845 3879 4.929819 AAAGGGAATGGTGTTGTACAAC 57.070 40.909 28.13 28.13 41.50 3.32
2859 3893 8.388103 GGTGTTGTACAACTGTATCATGTAATC 58.612 37.037 32.58 10.30 41.67 1.75
2894 3928 3.477530 GGTGGTGGGCTCTACATTTATC 58.522 50.000 0.00 0.00 0.00 1.75
2971 4005 1.611936 GGCCTGTGGTCTTTCTCCTTC 60.612 57.143 0.00 0.00 0.00 3.46
2977 4011 5.188751 CCTGTGGTCTTTCTCCTTCTAAGAT 59.811 44.000 0.00 0.00 31.25 2.40
2989 4023 8.202461 TCTCCTTCTAAGATAAGTGTTTCCAA 57.798 34.615 0.00 0.00 0.00 3.53
3066 4100 6.183360 CCATACACGGACTAAAATGAGTGAAC 60.183 42.308 0.19 0.00 34.16 3.18
3070 4104 6.262273 ACACGGACTAAAATGAGTGAACAAAT 59.738 34.615 0.19 0.00 34.16 2.32
3074 4108 8.286800 CGGACTAAAATGAGTGAACAAATACAA 58.713 33.333 0.00 0.00 0.00 2.41
3102 4136 8.801715 AAATGTGTTTATATGCATTCGATTCC 57.198 30.769 3.54 0.00 31.95 3.01
3105 4139 6.426633 TGTGTTTATATGCATTCGATTCCGAT 59.573 34.615 3.54 0.00 45.10 4.18
3106 4140 6.955963 GTGTTTATATGCATTCGATTCCGATC 59.044 38.462 3.54 0.00 45.10 3.69
3107 4141 6.873605 TGTTTATATGCATTCGATTCCGATCT 59.126 34.615 3.54 0.00 45.10 2.75
3108 4142 7.387673 TGTTTATATGCATTCGATTCCGATCTT 59.612 33.333 3.54 0.00 45.10 2.40
3109 4143 7.905604 TTATATGCATTCGATTCCGATCTTT 57.094 32.000 3.54 0.00 45.10 2.52
3110 4144 6.808008 ATATGCATTCGATTCCGATCTTTT 57.192 33.333 3.54 0.00 45.10 2.27
3155 4189 1.737793 GTGGGAGTATTTGGCAACTCG 59.262 52.381 10.74 0.00 42.51 4.18
3156 4190 1.349688 TGGGAGTATTTGGCAACTCGT 59.650 47.619 10.74 0.00 42.51 4.18
3157 4191 2.224670 TGGGAGTATTTGGCAACTCGTT 60.225 45.455 10.74 0.00 42.51 3.85
3172 4206 5.526115 CAACTCGTTGTCTGGTCTTACTAA 58.474 41.667 1.71 0.00 35.92 2.24
3207 4241 0.246360 GGTAATGTTGGGGCAAGTGC 59.754 55.000 0.00 0.00 41.14 4.40
3213 4247 1.617850 TGTTGGGGCAAGTGCTATTTG 59.382 47.619 2.85 0.00 41.70 2.32
3222 4256 3.005791 GCAAGTGCTATTTGTTGGTCCTT 59.994 43.478 0.00 0.00 38.21 3.36
3231 4265 3.518634 TTGTTGGTCCTTGTGCTTTTC 57.481 42.857 0.00 0.00 0.00 2.29
3240 4274 5.473504 GGTCCTTGTGCTTTTCTAGAAATGA 59.526 40.000 26.83 11.26 0.00 2.57
3244 4278 7.025963 CCTTGTGCTTTTCTAGAAATGACATC 58.974 38.462 26.83 18.53 0.00 3.06
3301 4336 9.616156 AATCTATTCATCTCCAATCATGATAGC 57.384 33.333 9.04 0.00 0.00 2.97
3307 4342 7.682628 TCATCTCCAATCATGATAGCATAACA 58.317 34.615 9.04 0.00 32.27 2.41
3309 4344 8.789762 CATCTCCAATCATGATAGCATAACAAA 58.210 33.333 9.04 0.00 32.27 2.83
3310 4345 8.158169 TCTCCAATCATGATAGCATAACAAAC 57.842 34.615 9.04 0.00 32.27 2.93
3311 4346 7.774625 TCTCCAATCATGATAGCATAACAAACA 59.225 33.333 9.04 0.00 32.27 2.83
3312 4347 7.706159 TCCAATCATGATAGCATAACAAACAC 58.294 34.615 9.04 0.00 32.27 3.32
3313 4348 6.634035 CCAATCATGATAGCATAACAAACACG 59.366 38.462 9.04 0.00 32.27 4.49
3314 4349 6.925610 ATCATGATAGCATAACAAACACGT 57.074 33.333 6.36 0.00 32.27 4.49
3315 4350 6.105657 TCATGATAGCATAACAAACACGTG 57.894 37.500 15.48 15.48 32.27 4.49
3316 4351 5.872070 TCATGATAGCATAACAAACACGTGA 59.128 36.000 25.01 0.00 32.27 4.35
3317 4352 6.370166 TCATGATAGCATAACAAACACGTGAA 59.630 34.615 25.01 0.17 32.27 3.18
3318 4353 6.546972 TGATAGCATAACAAACACGTGAAA 57.453 33.333 25.01 0.56 0.00 2.69
3319 4354 7.139896 TGATAGCATAACAAACACGTGAAAT 57.860 32.000 25.01 4.89 0.00 2.17
3320 4355 8.257830 TGATAGCATAACAAACACGTGAAATA 57.742 30.769 25.01 8.05 0.00 1.40
3321 4356 8.722394 TGATAGCATAACAAACACGTGAAATAA 58.278 29.630 25.01 3.06 0.00 1.40
3322 4357 9.716507 GATAGCATAACAAACACGTGAAATAAT 57.283 29.630 25.01 5.44 0.00 1.28
3323 4358 7.795431 AGCATAACAAACACGTGAAATAATG 57.205 32.000 25.01 17.45 0.00 1.90
3324 4359 7.589395 AGCATAACAAACACGTGAAATAATGA 58.411 30.769 25.01 0.28 0.00 2.57
3325 4360 8.079203 AGCATAACAAACACGTGAAATAATGAA 58.921 29.630 25.01 6.06 0.00 2.57
3326 4361 8.695284 GCATAACAAACACGTGAAATAATGAAA 58.305 29.630 25.01 5.76 0.00 2.69
3358 4393 1.950909 ACTCATAGACCAGCTAGCGAC 59.049 52.381 9.55 2.35 31.33 5.19
3359 4394 0.945099 TCATAGACCAGCTAGCGACG 59.055 55.000 9.55 3.04 31.33 5.12
3362 4397 1.094073 TAGACCAGCTAGCGACGACC 61.094 60.000 9.55 0.00 0.00 4.79
3363 4398 3.736482 GACCAGCTAGCGACGACCG 62.736 68.421 9.55 0.00 42.21 4.79
3381 4416 1.499502 GCAAGAACTGAAGCGAGCC 59.500 57.895 0.00 0.00 0.00 4.70
3413 4448 1.117749 CCATCATCGCTCCTCCCTCA 61.118 60.000 0.00 0.00 0.00 3.86
3417 4452 1.151679 ATCGCTCCTCCCTCATCGA 59.848 57.895 0.00 0.00 0.00 3.59
3424 4459 2.363795 TCCCTCATCGAAGCCGGT 60.364 61.111 1.90 0.00 36.24 5.28
3430 4465 0.034198 TCATCGAAGCCGGTCAAACA 59.966 50.000 1.90 0.00 36.24 2.83
3447 4482 6.482308 GGTCAAACATTGTTGTAGTAGACAGT 59.518 38.462 2.13 0.00 39.88 3.55
3449 4484 7.223971 GTCAAACATTGTTGTAGTAGACAGTCA 59.776 37.037 2.13 0.00 39.88 3.41
3450 4485 7.931407 TCAAACATTGTTGTAGTAGACAGTCAT 59.069 33.333 2.13 0.00 39.88 3.06
3454 4489 7.931407 ACATTGTTGTAGTAGACAGTCATGAAA 59.069 33.333 2.66 0.00 39.88 2.69
3457 4492 7.666623 TGTTGTAGTAGACAGTCATGAAATCA 58.333 34.615 2.66 0.00 39.88 2.57
3460 4495 7.196331 TGTAGTAGACAGTCATGAAATCATCG 58.804 38.462 2.66 0.00 31.65 3.84
3468 4503 5.521372 CAGTCATGAAATCATCGTGCTAAGA 59.479 40.000 0.00 0.00 43.53 2.10
3479 4514 1.971357 CGTGCTAAGACCCCATAGGAT 59.029 52.381 0.00 0.00 39.89 3.24
3483 4518 4.042187 GTGCTAAGACCCCATAGGATCAAT 59.958 45.833 0.00 0.00 39.89 2.57
3485 4520 4.566488 GCTAAGACCCCATAGGATCAATGG 60.566 50.000 16.02 16.02 43.06 3.16
3501 4536 0.478072 ATGGACCAGAACAGCAACCA 59.522 50.000 0.00 0.00 0.00 3.67
3504 4539 0.798776 GACCAGAACAGCAACCATCG 59.201 55.000 0.00 0.00 0.00 3.84
3520 4555 2.033424 CCATCGTCGATGAAGAGTAGCA 59.967 50.000 31.82 0.00 42.09 3.49
3557 4592 1.419374 ATCAGAAGACACACGAACGC 58.581 50.000 0.00 0.00 0.00 4.84
3562 4597 0.179121 AAGACACACGAACGCAGACA 60.179 50.000 0.00 0.00 0.00 3.41
3565 4600 0.372334 ACACACGAACGCAGACAAAC 59.628 50.000 0.00 0.00 0.00 2.93
3566 4601 0.650476 CACACGAACGCAGACAAACG 60.650 55.000 0.00 0.00 0.00 3.60
3589 4624 1.656652 AACAAATCCGAGCAGATCCG 58.343 50.000 0.00 0.00 0.00 4.18
3593 4628 2.374830 AATCCGAGCAGATCCGCCAG 62.375 60.000 0.00 0.00 0.00 4.85
3597 4632 1.067250 GAGCAGATCCGCCAGAGAC 59.933 63.158 0.00 0.00 0.00 3.36
3598 4633 1.670949 GAGCAGATCCGCCAGAGACA 61.671 60.000 0.00 0.00 0.00 3.41
3599 4634 1.520342 GCAGATCCGCCAGAGACAC 60.520 63.158 0.00 0.00 0.00 3.67
3600 4635 1.893062 CAGATCCGCCAGAGACACA 59.107 57.895 0.00 0.00 0.00 3.72
3601 4636 0.463204 CAGATCCGCCAGAGACACAT 59.537 55.000 0.00 0.00 0.00 3.21
3602 4637 0.749649 AGATCCGCCAGAGACACATC 59.250 55.000 0.00 0.00 0.00 3.06
3603 4638 0.749649 GATCCGCCAGAGACACATCT 59.250 55.000 0.00 0.00 38.15 2.90
3615 4650 2.896243 ACACATCTCTACGTGTCGAC 57.104 50.000 9.11 9.11 42.61 4.20
3616 4651 1.467734 ACACATCTCTACGTGTCGACC 59.532 52.381 14.12 3.43 42.61 4.79
3617 4652 0.725686 ACATCTCTACGTGTCGACCG 59.274 55.000 20.16 20.16 0.00 4.79
3618 4653 1.004595 CATCTCTACGTGTCGACCGA 58.995 55.000 26.02 12.94 0.00 4.69
3619 4654 1.005340 ATCTCTACGTGTCGACCGAC 58.995 55.000 26.02 14.88 44.77 4.79
3627 4662 2.099831 GTCGACCGACGGTGCTAG 59.900 66.667 27.26 12.82 42.82 3.42
3628 4663 2.046988 TCGACCGACGGTGCTAGA 60.047 61.111 27.26 14.99 42.82 2.43
3629 4664 2.099831 CGACCGACGGTGCTAGAC 59.900 66.667 27.26 7.74 35.25 2.59
3630 4665 2.099831 GACCGACGGTGCTAGACG 59.900 66.667 27.26 0.00 35.25 4.18
3632 4667 1.361668 GACCGACGGTGCTAGACGTA 61.362 60.000 27.26 0.00 44.24 3.57
3633 4668 1.061570 CCGACGGTGCTAGACGTAC 59.938 63.158 5.48 0.00 44.24 3.67
3634 4669 1.061570 CGACGGTGCTAGACGTACC 59.938 63.158 7.40 0.00 44.24 3.34
3638 4673 3.715854 GGTGCTAGACGTACCACAG 57.284 57.895 0.00 0.00 46.52 3.66
3639 4674 0.172803 GGTGCTAGACGTACCACAGG 59.827 60.000 0.00 0.00 46.52 4.00
3640 4675 1.171308 GTGCTAGACGTACCACAGGA 58.829 55.000 0.00 0.00 0.00 3.86
3641 4676 1.542915 GTGCTAGACGTACCACAGGAA 59.457 52.381 0.00 0.00 0.00 3.36
3642 4677 1.542915 TGCTAGACGTACCACAGGAAC 59.457 52.381 0.00 0.00 0.00 3.62
3643 4678 1.542915 GCTAGACGTACCACAGGAACA 59.457 52.381 0.00 0.00 0.00 3.18
3644 4679 2.165845 GCTAGACGTACCACAGGAACAT 59.834 50.000 0.00 0.00 0.00 2.71
3645 4680 2.743636 AGACGTACCACAGGAACATG 57.256 50.000 0.00 0.00 0.00 3.21
3646 4681 1.275291 AGACGTACCACAGGAACATGG 59.725 52.381 0.00 0.00 41.87 3.66
3647 4682 0.323629 ACGTACCACAGGAACATGGG 59.676 55.000 0.00 0.00 40.65 4.00
3648 4683 1.024579 CGTACCACAGGAACATGGGC 61.025 60.000 0.00 0.00 40.65 5.36
3649 4684 0.328258 GTACCACAGGAACATGGGCT 59.672 55.000 0.00 0.00 40.65 5.19
3650 4685 1.557832 GTACCACAGGAACATGGGCTA 59.442 52.381 0.00 0.00 40.65 3.93
3651 4686 0.620556 ACCACAGGAACATGGGCTAG 59.379 55.000 0.00 0.00 40.65 3.42
3652 4687 0.107017 CCACAGGAACATGGGCTAGG 60.107 60.000 0.00 0.00 33.78 3.02
3653 4688 0.620556 CACAGGAACATGGGCTAGGT 59.379 55.000 0.00 0.00 0.00 3.08
3654 4689 0.620556 ACAGGAACATGGGCTAGGTG 59.379 55.000 0.00 0.00 0.00 4.00
3655 4690 0.911769 CAGGAACATGGGCTAGGTGA 59.088 55.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
142 145 9.042450 ACCAATGGATTCATCATTGCATATATT 57.958 29.630 6.16 0.00 45.89 1.28
225 228 8.370493 TGCTCCGATATTGAAATCTCTAAAAG 57.630 34.615 0.00 0.00 0.00 2.27
456 459 7.757941 ATAAACTAGGACGGAGGTAGTATTC 57.242 40.000 0.00 0.00 0.00 1.75
461 464 4.648307 ACCAATAAACTAGGACGGAGGTAG 59.352 45.833 0.00 0.00 0.00 3.18
530 533 8.994429 TTTTCGGTGACATGCATTATTATTTT 57.006 26.923 0.00 0.00 0.00 1.82
563 566 7.812669 GGAAACTTGTTCAAATACGAATCCAAT 59.187 33.333 0.00 0.00 0.00 3.16
564 567 7.142680 GGAAACTTGTTCAAATACGAATCCAA 58.857 34.615 0.00 0.00 0.00 3.53
571 574 6.055231 TCACTGGAAACTTGTTCAAATACG 57.945 37.500 0.00 0.00 0.00 3.06
589 592 9.800433 TGCATGTAACCAAAAATAATATCACTG 57.200 29.630 0.00 0.00 0.00 3.66
663 666 4.150897 TCCTGATTTATTGGTCCCTTCG 57.849 45.455 0.00 0.00 0.00 3.79
664 667 5.532779 GTCATCCTGATTTATTGGTCCCTTC 59.467 44.000 0.00 0.00 0.00 3.46
670 674 4.444876 CCTCCGTCATCCTGATTTATTGGT 60.445 45.833 0.00 0.00 0.00 3.67
698 704 1.137404 CCTGTGGCTGCAATTACGC 59.863 57.895 0.50 0.00 0.00 4.42
711 717 0.401738 ATGTTGTCTCCACCCCTGTG 59.598 55.000 0.00 0.00 42.39 3.66
713 719 0.692476 TCATGTTGTCTCCACCCCTG 59.308 55.000 0.00 0.00 0.00 4.45
722 728 6.418101 ACAAGTTATATGCCTCATGTTGTCT 58.582 36.000 0.00 0.00 0.00 3.41
760 766 2.032030 ACTCCAAAACAGAAACGCGATG 60.032 45.455 15.93 8.53 0.00 3.84
791 797 4.614946 GAGAGCTGCACTTTCAAACAAAT 58.385 39.130 1.02 0.00 29.82 2.32
971 981 7.715249 TCGATGCTTTCCTAGTATTTTGCTATT 59.285 33.333 0.00 0.00 28.37 1.73
972 982 7.217200 TCGATGCTTTCCTAGTATTTTGCTAT 58.783 34.615 0.00 0.00 28.37 2.97
973 983 6.578944 TCGATGCTTTCCTAGTATTTTGCTA 58.421 36.000 0.00 0.00 28.37 3.49
1045 1067 3.332919 CCACCACTGAGATGACAGAAAG 58.667 50.000 0.00 0.00 40.63 2.62
1107 1132 3.498774 AGCTTCTTCTTCTTCTTGCCA 57.501 42.857 0.00 0.00 0.00 4.92
1188 1216 4.250305 ACCGGCAGCTTGGACGTT 62.250 61.111 0.00 0.00 37.69 3.99
1450 1478 2.048222 CACCTTCCGCTCGCTCAA 60.048 61.111 0.00 0.00 0.00 3.02
1563 1603 2.969016 CAGGAGACGAGCAGCAGT 59.031 61.111 0.00 0.00 0.00 4.40
1785 1825 4.864916 TTTAGCGATGATCTTGTCAAGC 57.135 40.909 7.78 0.00 40.97 4.01
1836 1909 2.435805 GTCCCTGATCCTAAGCATGACA 59.564 50.000 0.00 0.00 0.00 3.58
1887 1960 6.753279 CCACTATGATTGCTTTAATGGTTGTG 59.247 38.462 0.00 0.00 0.00 3.33
1899 1972 7.494211 TGTAAATACGTACCACTATGATTGCT 58.506 34.615 0.00 0.00 0.00 3.91
1948 2157 6.655078 AACAAATTGTTGCTCTAGGACATT 57.345 33.333 10.91 0.00 39.45 2.71
2403 3429 2.092429 GGGTCCTTTGTCATCAGCCATA 60.092 50.000 0.00 0.00 0.00 2.74
2695 3727 5.920085 CATGAAATGTACATGACGCAAAG 57.080 39.130 9.63 0.33 45.22 2.77
2816 3848 2.041216 ACACCATTCCCTTTACTGGACC 59.959 50.000 0.00 0.00 32.92 4.46
2818 3850 3.139397 ACAACACCATTCCCTTTACTGGA 59.861 43.478 0.00 0.00 32.92 3.86
2819 3851 3.496331 ACAACACCATTCCCTTTACTGG 58.504 45.455 0.00 0.00 34.84 4.00
2820 3852 5.067273 TGTACAACACCATTCCCTTTACTG 58.933 41.667 0.00 0.00 0.00 2.74
2845 3879 6.155910 AGGCCCATAGAGATTACATGATACAG 59.844 42.308 0.00 0.00 0.00 2.74
2859 3893 1.281925 ACCACCCAAGGCCCATAGAG 61.282 60.000 0.00 0.00 0.00 2.43
2894 3928 7.775729 AACGCACAATTTAATCTCTTAAACG 57.224 32.000 0.00 0.00 39.10 3.60
2915 3949 8.500837 TTGATGCACAAAGTCTTAATTTAACG 57.499 30.769 0.00 0.00 35.39 3.18
2949 3983 0.402121 GGAGAAAGACCACAGGCCTT 59.598 55.000 0.00 0.00 0.00 4.35
2977 4011 8.262227 ACGAATGGAGTATATTGGAAACACTTA 58.738 33.333 0.00 0.00 42.67 2.24
2989 4023 9.647797 TTATATTTGCGAACGAATGGAGTATAT 57.352 29.630 0.00 0.00 31.97 0.86
3039 4073 5.642063 CACTCATTTTAGTCCGTGTATGGTT 59.358 40.000 0.00 0.00 0.00 3.67
3042 4076 6.367695 TGTTCACTCATTTTAGTCCGTGTATG 59.632 38.462 0.00 0.00 0.00 2.39
3046 4080 5.666969 TTGTTCACTCATTTTAGTCCGTG 57.333 39.130 0.00 0.00 0.00 4.94
3080 4114 5.755861 TCGGAATCGAATGCATATAAACACA 59.244 36.000 0.00 0.00 43.03 3.72
3128 4162 2.427095 GCCAAATACTCCCACCATTCAC 59.573 50.000 0.00 0.00 0.00 3.18
3129 4163 2.042297 TGCCAAATACTCCCACCATTCA 59.958 45.455 0.00 0.00 0.00 2.57
3172 4206 9.460019 CCAACATTACCCCAAATATCAAAATTT 57.540 29.630 0.00 0.00 0.00 1.82
3187 4221 0.894835 CACTTGCCCCAACATTACCC 59.105 55.000 0.00 0.00 0.00 3.69
3207 4241 4.853924 AAGCACAAGGACCAACAAATAG 57.146 40.909 0.00 0.00 0.00 1.73
3213 4247 4.134563 TCTAGAAAAGCACAAGGACCAAC 58.865 43.478 0.00 0.00 0.00 3.77
3222 4256 7.750229 AAGATGTCATTTCTAGAAAAGCACA 57.250 32.000 21.26 20.94 33.56 4.57
3311 4346 9.787532 CCAGATGTAATTTTCATTATTTCACGT 57.212 29.630 0.00 0.00 0.00 4.49
3321 4356 9.553064 GTCTATGAGTCCAGATGTAATTTTCAT 57.447 33.333 0.00 0.00 0.00 2.57
3322 4357 7.987458 GGTCTATGAGTCCAGATGTAATTTTCA 59.013 37.037 0.00 0.00 0.00 2.69
3323 4358 7.987458 TGGTCTATGAGTCCAGATGTAATTTTC 59.013 37.037 0.00 0.00 30.13 2.29
3324 4359 7.861629 TGGTCTATGAGTCCAGATGTAATTTT 58.138 34.615 0.00 0.00 30.13 1.82
3325 4360 7.437713 TGGTCTATGAGTCCAGATGTAATTT 57.562 36.000 0.00 0.00 30.13 1.82
3339 4374 1.069568 CGTCGCTAGCTGGTCTATGAG 60.070 57.143 13.93 0.00 0.00 2.90
3358 4393 1.493311 GCTTCAGTTCTTGCGGTCG 59.507 57.895 0.00 0.00 0.00 4.79
3359 4394 1.493311 CGCTTCAGTTCTTGCGGTC 59.507 57.895 0.00 0.00 43.97 4.79
3363 4398 1.499502 GGCTCGCTTCAGTTCTTGC 59.500 57.895 0.00 0.00 0.00 4.01
3365 4400 0.033504 TTCGGCTCGCTTCAGTTCTT 59.966 50.000 0.00 0.00 0.00 2.52
3366 4401 0.389166 CTTCGGCTCGCTTCAGTTCT 60.389 55.000 0.00 0.00 0.00 3.01
3367 4402 1.355066 CCTTCGGCTCGCTTCAGTTC 61.355 60.000 0.00 0.00 0.00 3.01
3368 4403 1.374758 CCTTCGGCTCGCTTCAGTT 60.375 57.895 0.00 0.00 0.00 3.16
3393 4428 1.074926 AGGGAGGAGCGATGATGGT 60.075 57.895 0.00 0.00 0.00 3.55
3396 4431 1.265236 GATGAGGGAGGAGCGATGAT 58.735 55.000 0.00 0.00 0.00 2.45
3402 4437 1.068921 GCTTCGATGAGGGAGGAGC 59.931 63.158 1.89 0.00 0.00 4.70
3404 4439 2.127869 CGGCTTCGATGAGGGAGGA 61.128 63.158 1.89 0.00 35.61 3.71
3413 4448 1.468520 CAATGTTTGACCGGCTTCGAT 59.531 47.619 0.00 0.00 35.61 3.59
3417 4452 1.754226 ACAACAATGTTTGACCGGCTT 59.246 42.857 0.00 0.00 35.91 4.35
3424 4459 7.269316 TGACTGTCTACTACAACAATGTTTGA 58.731 34.615 9.51 0.00 41.05 2.69
3430 4465 9.155975 GATTTCATGACTGTCTACTACAACAAT 57.844 33.333 9.51 0.00 37.74 2.71
3447 4482 4.811024 GGTCTTAGCACGATGATTTCATGA 59.189 41.667 0.00 0.00 36.57 3.07
3449 4484 4.130118 GGGTCTTAGCACGATGATTTCAT 58.870 43.478 0.00 0.00 39.70 2.57
3450 4485 3.531538 GGGTCTTAGCACGATGATTTCA 58.468 45.455 0.00 0.00 0.00 2.69
3454 4489 1.496060 TGGGGTCTTAGCACGATGAT 58.504 50.000 0.00 0.00 0.00 2.45
3457 4492 1.971357 CCTATGGGGTCTTAGCACGAT 59.029 52.381 0.00 0.00 0.00 3.73
3460 4495 2.972713 TGATCCTATGGGGTCTTAGCAC 59.027 50.000 10.09 0.00 43.02 4.40
3468 4503 2.065799 GGTCCATTGATCCTATGGGGT 58.934 52.381 18.74 0.00 42.32 4.95
3479 4514 2.229792 GTTGCTGTTCTGGTCCATTGA 58.770 47.619 0.00 0.00 0.00 2.57
3483 4518 0.478072 ATGGTTGCTGTTCTGGTCCA 59.522 50.000 0.00 0.00 0.00 4.02
3485 4520 0.798776 CGATGGTTGCTGTTCTGGTC 59.201 55.000 0.00 0.00 0.00 4.02
3501 4536 4.998033 TCTATGCTACTCTTCATCGACGAT 59.002 41.667 4.05 4.05 0.00 3.73
3504 4539 5.120986 TCGATCTATGCTACTCTTCATCGAC 59.879 44.000 0.00 0.00 36.79 4.20
3520 4555 6.924913 TCTGATTGGATCCTTTCGATCTAT 57.075 37.500 14.23 0.00 45.90 1.98
3539 4574 0.101579 TGCGTTCGTGTGTCTTCTGA 59.898 50.000 0.00 0.00 0.00 3.27
3541 4576 0.384309 TCTGCGTTCGTGTGTCTTCT 59.616 50.000 0.00 0.00 0.00 2.85
3557 4592 3.723764 CGGATTTGTTTGTCGTTTGTCTG 59.276 43.478 0.00 0.00 0.00 3.51
3562 4597 2.356382 TGCTCGGATTTGTTTGTCGTTT 59.644 40.909 0.00 0.00 0.00 3.60
3565 4600 1.798223 TCTGCTCGGATTTGTTTGTCG 59.202 47.619 0.00 0.00 0.00 4.35
3566 4601 3.181506 GGATCTGCTCGGATTTGTTTGTC 60.182 47.826 0.00 0.00 0.00 3.18
3597 4632 1.529214 CGGTCGACACGTAGAGATGTG 60.529 57.143 18.91 0.00 46.41 3.21
3598 4633 0.725686 CGGTCGACACGTAGAGATGT 59.274 55.000 18.91 0.00 0.00 3.06
3599 4634 1.004595 TCGGTCGACACGTAGAGATG 58.995 55.000 18.91 0.00 0.00 2.90
3600 4635 1.005340 GTCGGTCGACACGTAGAGAT 58.995 55.000 18.91 0.00 44.02 2.75
3601 4636 1.347097 CGTCGGTCGACACGTAGAGA 61.347 60.000 18.91 1.86 44.77 3.10
3602 4637 1.058438 CGTCGGTCGACACGTAGAG 59.942 63.158 18.91 7.96 44.77 2.43
3603 4638 2.382746 CCGTCGGTCGACACGTAGA 61.383 63.158 22.10 9.46 44.77 2.59
3604 4639 2.097160 CCGTCGGTCGACACGTAG 59.903 66.667 22.10 16.78 44.77 3.51
3605 4640 2.664851 ACCGTCGGTCGACACGTA 60.665 61.111 22.10 9.79 44.77 3.57
3606 4641 4.318021 CACCGTCGGTCGACACGT 62.318 66.667 22.10 13.86 44.77 4.49
3608 4643 2.845861 CTAGCACCGTCGGTCGACAC 62.846 65.000 15.67 6.94 44.77 3.67
3609 4644 2.669229 TAGCACCGTCGGTCGACA 60.669 61.111 15.67 0.00 44.77 4.35
3610 4645 2.099831 CTAGCACCGTCGGTCGAC 59.900 66.667 15.67 7.13 42.86 4.20
3611 4646 2.046988 TCTAGCACCGTCGGTCGA 60.047 61.111 15.67 6.05 42.86 4.20
3612 4647 2.099831 GTCTAGCACCGTCGGTCG 59.900 66.667 15.67 11.49 31.02 4.79
3613 4648 1.361668 TACGTCTAGCACCGTCGGTC 61.362 60.000 15.67 9.76 38.43 4.79
3614 4649 1.375908 TACGTCTAGCACCGTCGGT 60.376 57.895 12.23 12.23 38.43 4.69
3615 4650 1.061570 GTACGTCTAGCACCGTCGG 59.938 63.158 10.48 10.48 38.43 4.79
3616 4651 1.061570 GGTACGTCTAGCACCGTCG 59.938 63.158 0.00 0.00 38.43 5.12
3617 4652 0.179179 GTGGTACGTCTAGCACCGTC 60.179 60.000 9.06 0.00 43.03 4.79
3618 4653 0.890542 TGTGGTACGTCTAGCACCGT 60.891 55.000 15.87 7.04 46.63 4.83
3619 4654 0.179171 CTGTGGTACGTCTAGCACCG 60.179 60.000 15.87 7.71 46.63 4.94
3620 4655 0.172803 CCTGTGGTACGTCTAGCACC 59.827 60.000 15.87 7.73 46.63 5.01
3622 4657 1.542915 GTTCCTGTGGTACGTCTAGCA 59.457 52.381 0.00 0.00 0.00 3.49
3623 4658 1.542915 TGTTCCTGTGGTACGTCTAGC 59.457 52.381 0.00 0.00 0.00 3.42
3624 4659 3.428999 CCATGTTCCTGTGGTACGTCTAG 60.429 52.174 0.00 0.00 0.00 2.43
3625 4660 2.494471 CCATGTTCCTGTGGTACGTCTA 59.506 50.000 0.00 0.00 0.00 2.59
3626 4661 1.275291 CCATGTTCCTGTGGTACGTCT 59.725 52.381 0.00 0.00 0.00 4.18
3627 4662 1.674817 CCCATGTTCCTGTGGTACGTC 60.675 57.143 0.00 0.00 33.55 4.34
3628 4663 0.323629 CCCATGTTCCTGTGGTACGT 59.676 55.000 0.00 0.00 33.55 3.57
3629 4664 1.024579 GCCCATGTTCCTGTGGTACG 61.025 60.000 0.00 0.00 33.55 3.67
3630 4665 0.328258 AGCCCATGTTCCTGTGGTAC 59.672 55.000 0.00 0.00 33.55 3.34
3631 4666 1.837439 CTAGCCCATGTTCCTGTGGTA 59.163 52.381 0.00 0.00 33.55 3.25
3632 4667 0.620556 CTAGCCCATGTTCCTGTGGT 59.379 55.000 0.00 0.00 33.55 4.16
3633 4668 0.107017 CCTAGCCCATGTTCCTGTGG 60.107 60.000 0.00 0.00 35.22 4.17
3634 4669 0.620556 ACCTAGCCCATGTTCCTGTG 59.379 55.000 0.00 0.00 0.00 3.66
3635 4670 0.620556 CACCTAGCCCATGTTCCTGT 59.379 55.000 0.00 0.00 0.00 4.00
3636 4671 0.911769 TCACCTAGCCCATGTTCCTG 59.088 55.000 0.00 0.00 0.00 3.86
3637 4672 3.417330 TCACCTAGCCCATGTTCCT 57.583 52.632 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.