Multiple sequence alignment - TraesCS2D01G095200

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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 TraesCS2D01G095200 chr2D 100.000 3931 0 0 1 3931 47217482 47213552 0.000000e+00 7260.0
1 TraesCS2D01G095200 chr2D 83.607 671 87 10 2188 2857 299551561 299550913 3.360000e-170 608.0
2 TraesCS2D01G095200 chr2D 91.204 216 12 6 1172 1381 47216103 47215889 1.790000e-73 287.0
3 TraesCS2D01G095200 chr2D 91.204 216 12 6 1380 1594 47216311 47216102 1.790000e-73 287.0
4 TraesCS2D01G095200 chr2D 93.333 90 6 0 3255 3344 420572300 420572389 2.460000e-27 134.0
5 TraesCS2D01G095200 chr2D 92.105 76 6 0 759 834 646462796 646462721 1.490000e-19 108.0
6 TraesCS2D01G095200 chr1B 96.128 2712 68 15 1225 3931 321692888 321690209 0.000000e+00 4392.0
7 TraesCS2D01G095200 chr1B 94.958 119 6 0 836 954 321693161 321693043 1.870000e-43 187.0
8 TraesCS2D01G095200 chr1B 95.349 86 3 1 1070 1155 321692971 321692887 6.850000e-28 135.0
9 TraesCS2D01G095200 chr1B 73.248 471 84 35 48 499 632714407 632713960 2.460000e-27 134.0
10 TraesCS2D01G095200 chr1B 91.228 57 4 1 1020 1076 321693038 321692983 4.210000e-10 76.8
11 TraesCS2D01G095200 chr1A 94.737 2280 87 14 1658 3931 157962604 157964856 0.000000e+00 3515.0
12 TraesCS2D01G095200 chr1A 93.960 596 30 3 1070 1664 157960183 157960773 0.000000e+00 896.0
13 TraesCS2D01G095200 chr1A 76.408 284 37 24 231 500 534938220 534938487 4.120000e-25 126.0
14 TraesCS2D01G095200 chr6A 94.559 1838 73 10 1013 2831 92404738 92406567 0.000000e+00 2815.0
15 TraesCS2D01G095200 chr6A 91.597 119 4 2 836 954 92404625 92404737 4.070000e-35 159.0
16 TraesCS2D01G095200 chr6A 98.485 66 1 0 769 834 139057220 139057155 2.480000e-22 117.0
17 TraesCS2D01G095200 chr6A 96.970 66 2 0 769 834 97614000 97613935 1.150000e-20 111.0
18 TraesCS2D01G095200 chr2B 95.693 1718 62 6 1168 2884 783705851 783704145 0.000000e+00 2752.0
19 TraesCS2D01G095200 chr2B 95.156 867 29 5 3070 3931 783950187 783949329 0.000000e+00 1356.0
20 TraesCS2D01G095200 chr2B 95.272 698 31 2 2187 2884 783960227 783959532 0.000000e+00 1105.0
21 TraesCS2D01G095200 chr2B 90.268 596 30 4 996 1574 783961115 783960531 0.000000e+00 754.0
22 TraesCS2D01G095200 chr2B 95.833 312 10 2 1830 2140 783960535 783960226 5.860000e-138 501.0
23 TraesCS2D01G095200 chr2B 97.000 200 6 0 2866 3065 783704131 783703932 1.750000e-88 337.0
24 TraesCS2D01G095200 chr2B 95.960 198 8 0 2866 3063 783959518 783959321 4.900000e-84 322.0
25 TraesCS2D01G095200 chr2B 95.139 144 7 0 827 970 783961242 783961099 1.100000e-55 228.0
26 TraesCS2D01G095200 chr2B 94.444 90 5 0 3256 3345 231669449 231669538 5.300000e-29 139.0
27 TraesCS2D01G095200 chr2B 97.917 48 1 0 3212 3259 578975376 578975423 2.520000e-12 84.2
28 TraesCS2D01G095200 chr2B 94.231 52 3 0 3206 3257 4757349 4757400 3.260000e-11 80.5
29 TraesCS2D01G095200 chr1D 95.284 1336 16 11 996 2310 468418728 468420037 0.000000e+00 2074.0
30 TraesCS2D01G095200 chr1D 95.906 684 19 3 3253 3931 468432001 468432680 0.000000e+00 1099.0
31 TraesCS2D01G095200 chr1D 96.643 566 18 1 2308 2873 468424715 468425279 0.000000e+00 939.0
32 TraesCS2D01G095200 chr1D 95.556 135 6 0 836 970 468418610 468418744 2.380000e-52 217.0
33 TraesCS2D01G095200 chr1D 96.970 66 2 0 769 834 468418459 468418524 1.150000e-20 111.0
34 TraesCS2D01G095200 chr5B 95.576 1198 43 5 2504 3697 384737743 384736552 0.000000e+00 1910.0
35 TraesCS2D01G095200 chr5B 95.752 824 32 3 1679 2500 384739521 384738699 0.000000e+00 1325.0
36 TraesCS2D01G095200 chr5B 92.624 705 31 2 996 1683 384740663 384739963 0.000000e+00 994.0
37 TraesCS2D01G095200 chr5B 94.492 236 9 1 3696 3931 384725275 384725044 1.040000e-95 361.0
38 TraesCS2D01G095200 chr5B 92.537 134 10 0 837 970 384740780 384740647 4.010000e-45 193.0
39 TraesCS2D01G095200 chr5B 75.433 289 45 23 217 492 584596669 584596394 2.480000e-22 117.0
40 TraesCS2D01G095200 chr3B 93.114 973 49 9 2241 3213 462053547 462054501 0.000000e+00 1410.0
41 TraesCS2D01G095200 chr3B 94.710 586 25 3 3347 3931 462054502 462055082 0.000000e+00 905.0
42 TraesCS2D01G095200 chr3B 92.205 526 25 9 1383 1903 461711559 461711045 0.000000e+00 730.0
43 TraesCS2D01G095200 chr3B 88.424 406 20 14 996 1381 461711756 461711358 7.690000e-127 464.0
44 TraesCS2D01G095200 chr3B 95.000 120 4 2 2120 2239 462048592 462048709 1.870000e-43 187.0
45 TraesCS2D01G095200 chr3B 75.871 373 61 22 139 498 183460904 183460548 3.140000e-36 163.0
46 TraesCS2D01G095200 chr3B 74.693 407 72 30 32 423 634150850 634151240 6.800000e-33 152.0
47 TraesCS2D01G095200 chr3B 92.079 101 8 0 837 937 461712165 461712065 4.090000e-30 143.0
48 TraesCS2D01G095200 chr3B 92.632 95 6 1 3256 3349 566639658 566639564 6.850000e-28 135.0
49 TraesCS2D01G095200 chr3B 88.889 90 7 2 745 834 462619755 462619669 1.490000e-19 108.0
50 TraesCS2D01G095200 chr3D 81.209 1224 159 42 1435 2626 255525243 255524059 0.000000e+00 920.0
51 TraesCS2D01G095200 chr3D 76.420 352 57 22 160 498 129257887 129257549 2.430000e-37 167.0
52 TraesCS2D01G095200 chr3D 97.872 47 1 0 3213 3259 607513535 607513489 9.050000e-12 82.4
53 TraesCS2D01G095200 chr3A 81.979 1132 144 36 1507 2616 272780084 272778991 0.000000e+00 905.0
54 TraesCS2D01G095200 chr3A 74.126 286 58 16 240 517 421166117 421166394 1.930000e-18 104.0
55 TraesCS2D01G095200 chr2A 83.283 658 86 10 2188 2843 374721142 374720507 5.660000e-163 584.0
56 TraesCS2D01G095200 chr2A 90.909 88 4 2 747 834 279491547 279491464 8.930000e-22 115.0
57 TraesCS2D01G095200 chr2A 93.243 74 4 1 746 819 279483217 279483145 1.490000e-19 108.0
58 TraesCS2D01G095200 chr4A 79.253 241 33 14 74 307 477592737 477592967 6.800000e-33 152.0
59 TraesCS2D01G095200 chr4A 74.505 404 69 34 37 423 693202451 693202065 1.140000e-30 145.0
60 TraesCS2D01G095200 chr6D 78.992 238 34 15 138 366 36807449 36807679 8.800000e-32 148.0
61 TraesCS2D01G095200 chr7B 72.852 512 95 38 48 539 529199440 529198953 6.850000e-28 135.0
62 TraesCS2D01G095200 chr7B 75.076 329 57 24 223 539 710141934 710141619 3.190000e-26 130.0
63 TraesCS2D01G095200 chr7B 73.537 393 72 29 35 410 284917287 284917664 1.920000e-23 121.0
64 TraesCS2D01G095200 chr7B 89.011 91 10 0 744 834 555407430 555407340 3.210000e-21 113.0
65 TraesCS2D01G095200 chr7B 100.000 48 0 0 3212 3259 647818589 647818542 5.410000e-14 89.8
66 TraesCS2D01G095200 chr4D 74.406 379 67 26 139 507 298903115 298902757 6.850000e-28 135.0
67 TraesCS2D01G095200 chr4D 98.485 66 1 0 769 834 325886589 325886654 2.480000e-22 117.0
68 TraesCS2D01G095200 chr4B 90.196 102 10 0 3255 3356 396386924 396386823 2.460000e-27 134.0
69 TraesCS2D01G095200 chr6B 74.928 347 58 24 3 333 68409887 68409554 8.860000e-27 132.0
70 TraesCS2D01G095200 chr5A 92.857 70 5 0 871 940 417046215 417046284 6.950000e-18 102.0
71 TraesCS2D01G095200 chr7D 97.917 48 1 0 3212 3259 113227425 113227378 2.520000e-12 84.2


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 TraesCS2D01G095200 chr2D 47213552 47217482 3930 True 2611.333333 7260 94.136000 1 3931 3 chr2D.!!$R3 3930
1 TraesCS2D01G095200 chr2D 299550913 299551561 648 True 608.000000 608 83.607000 2188 2857 1 chr2D.!!$R1 669
2 TraesCS2D01G095200 chr1B 321690209 321693161 2952 True 1197.700000 4392 94.415750 836 3931 4 chr1B.!!$R2 3095
3 TraesCS2D01G095200 chr1A 157960183 157964856 4673 False 2205.500000 3515 94.348500 1070 3931 2 chr1A.!!$F2 2861
4 TraesCS2D01G095200 chr6A 92404625 92406567 1942 False 1487.000000 2815 93.078000 836 2831 2 chr6A.!!$F1 1995
5 TraesCS2D01G095200 chr2B 783703932 783705851 1919 True 1544.500000 2752 96.346500 1168 3065 2 chr2B.!!$R2 1897
6 TraesCS2D01G095200 chr2B 783949329 783950187 858 True 1356.000000 1356 95.156000 3070 3931 1 chr2B.!!$R1 861
7 TraesCS2D01G095200 chr2B 783959321 783961242 1921 True 582.000000 1105 94.494400 827 3063 5 chr2B.!!$R3 2236
8 TraesCS2D01G095200 chr1D 468432001 468432680 679 False 1099.000000 1099 95.906000 3253 3931 1 chr1D.!!$F2 678
9 TraesCS2D01G095200 chr1D 468424715 468425279 564 False 939.000000 939 96.643000 2308 2873 1 chr1D.!!$F1 565
10 TraesCS2D01G095200 chr1D 468418459 468420037 1578 False 800.666667 2074 95.936667 769 2310 3 chr1D.!!$F3 1541
11 TraesCS2D01G095200 chr5B 384736552 384740780 4228 True 1105.500000 1910 94.122250 837 3697 4 chr5B.!!$R3 2860
12 TraesCS2D01G095200 chr3B 462053547 462055082 1535 False 1157.500000 1410 93.912000 2241 3931 2 chr3B.!!$F3 1690
13 TraesCS2D01G095200 chr3B 461711045 461712165 1120 True 445.666667 730 90.902667 837 1903 3 chr3B.!!$R4 1066
14 TraesCS2D01G095200 chr3D 255524059 255525243 1184 True 920.000000 920 81.209000 1435 2626 1 chr3D.!!$R2 1191
15 TraesCS2D01G095200 chr3A 272778991 272780084 1093 True 905.000000 905 81.979000 1507 2616 1 chr3A.!!$R1 1109
16 TraesCS2D01G095200 chr2A 374720507 374721142 635 True 584.000000 584 83.283000 2188 2843 1 chr2A.!!$R3 655

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
797 798 1.021390 GCACAGATTGACTCCGTGGG 61.021 60.000 0.0 0.0 0.0 4.61 F
834 835 1.868519 GCTTCCGCCCAGTCGTAATAG 60.869 57.143 0.0 0.0 0.0 1.73 F
2326 4800 1.079127 GCACCTGGTACACGCTCAT 60.079 57.895 0.0 0.0 0.0 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2326 4800 3.119137 ACTGTCAGTATAGTTGATGCGCA 60.119 43.478 14.96 14.96 0.00 6.09 R
2677 6104 6.582295 GTGAAGTGACATTCGCAATATGTTTT 59.418 34.615 0.00 0.00 39.09 2.43 R
3694 7197 3.758023 TGCTATGAACCAAGAACACATGG 59.242 43.478 0.00 0.00 42.60 3.66 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
55 56 8.266392 TGAACTTTTTGCAAAATTGATGAACT 57.734 26.923 24.39 3.31 0.00 3.01
56 57 9.376075 TGAACTTTTTGCAAAATTGATGAACTA 57.624 25.926 24.39 5.54 0.00 2.24
133 134 8.716619 TCGAATGACTTTTACCAAAATTTACG 57.283 30.769 0.00 0.00 0.00 3.18
134 135 8.557864 TCGAATGACTTTTACCAAAATTTACGA 58.442 29.630 0.00 0.00 0.00 3.43
135 136 9.337091 CGAATGACTTTTACCAAAATTTACGAT 57.663 29.630 0.00 0.00 0.00 3.73
208 209 8.606727 TTTGCAAAACCAATTAATTGTTTTCG 57.393 26.923 19.99 12.79 32.32 3.46
209 210 7.539712 TGCAAAACCAATTAATTGTTTTCGA 57.460 28.000 19.99 13.65 32.32 3.71
210 211 7.974675 TGCAAAACCAATTAATTGTTTTCGAA 58.025 26.923 19.99 5.18 32.32 3.71
211 212 8.616076 TGCAAAACCAATTAATTGTTTTCGAAT 58.384 25.926 19.99 5.92 32.32 3.34
216 217 8.994429 ACCAATTAATTGTTTTCGAATATGCA 57.006 26.923 23.24 0.00 36.06 3.96
217 218 9.429359 ACCAATTAATTGTTTTCGAATATGCAA 57.571 25.926 23.24 2.85 36.06 4.08
218 219 9.687717 CCAATTAATTGTTTTCGAATATGCAAC 57.312 29.630 23.24 0.21 36.06 4.17
222 223 7.945033 AATTGTTTTCGAATATGCAACTTGT 57.055 28.000 0.00 0.00 0.00 3.16
223 224 7.945033 ATTGTTTTCGAATATGCAACTTGTT 57.055 28.000 0.00 0.00 0.00 2.83
224 225 7.763172 TTGTTTTCGAATATGCAACTTGTTT 57.237 28.000 0.00 0.00 0.00 2.83
225 226 7.388290 TGTTTTCGAATATGCAACTTGTTTC 57.612 32.000 0.00 0.00 0.00 2.78
226 227 7.199766 TGTTTTCGAATATGCAACTTGTTTCT 58.800 30.769 0.00 0.00 0.00 2.52
227 228 7.378461 TGTTTTCGAATATGCAACTTGTTTCTC 59.622 33.333 0.00 0.00 0.00 2.87
228 229 5.545658 TCGAATATGCAACTTGTTTCTCC 57.454 39.130 0.00 0.00 0.00 3.71
229 230 5.000591 TCGAATATGCAACTTGTTTCTCCA 58.999 37.500 0.00 0.00 0.00 3.86
230 231 5.471797 TCGAATATGCAACTTGTTTCTCCAA 59.528 36.000 0.00 0.00 0.00 3.53
231 232 6.016693 TCGAATATGCAACTTGTTTCTCCAAA 60.017 34.615 0.00 0.00 0.00 3.28
232 233 6.808212 CGAATATGCAACTTGTTTCTCCAAAT 59.192 34.615 0.00 0.00 0.00 2.32
233 234 7.329226 CGAATATGCAACTTGTTTCTCCAAATT 59.671 33.333 0.00 0.00 0.00 1.82
234 235 7.894376 ATATGCAACTTGTTTCTCCAAATTG 57.106 32.000 0.00 0.00 35.32 2.32
235 236 5.336150 TGCAACTTGTTTCTCCAAATTGA 57.664 34.783 0.00 0.00 34.41 2.57
236 237 5.916318 TGCAACTTGTTTCTCCAAATTGAT 58.084 33.333 0.00 0.00 34.41 2.57
237 238 5.754406 TGCAACTTGTTTCTCCAAATTGATG 59.246 36.000 0.00 0.00 34.41 3.07
238 239 5.984926 GCAACTTGTTTCTCCAAATTGATGA 59.015 36.000 0.00 0.00 34.41 2.92
239 240 6.479660 GCAACTTGTTTCTCCAAATTGATGAA 59.520 34.615 0.00 0.00 34.41 2.57
240 241 7.011295 GCAACTTGTTTCTCCAAATTGATGAAA 59.989 33.333 0.00 2.22 34.41 2.69
241 242 8.330302 CAACTTGTTTCTCCAAATTGATGAAAC 58.670 33.333 23.27 23.27 43.67 2.78
242 243 7.785033 ACTTGTTTCTCCAAATTGATGAAACT 58.215 30.769 26.56 15.01 43.72 2.66
243 244 8.260114 ACTTGTTTCTCCAAATTGATGAAACTT 58.740 29.630 26.56 16.83 43.72 2.66
244 245 9.101655 CTTGTTTCTCCAAATTGATGAAACTTT 57.898 29.630 26.56 0.00 43.72 2.66
245 246 9.447157 TTGTTTCTCCAAATTGATGAAACTTTT 57.553 25.926 26.56 0.00 43.72 2.27
246 247 9.447157 TGTTTCTCCAAATTGATGAAACTTTTT 57.553 25.926 26.56 0.00 43.72 1.94
296 297 9.657419 AAATCACTGAACTTTTCTCAAATTTGT 57.343 25.926 17.47 0.00 0.00 2.83
297 298 8.638685 ATCACTGAACTTTTCTCAAATTTGTG 57.361 30.769 17.47 15.10 0.00 3.33
298 299 7.825681 TCACTGAACTTTTCTCAAATTTGTGA 58.174 30.769 17.47 17.13 0.00 3.58
299 300 8.303156 TCACTGAACTTTTCTCAAATTTGTGAA 58.697 29.630 24.55 24.55 38.46 3.18
300 301 8.375465 CACTGAACTTTTCTCAAATTTGTGAAC 58.625 33.333 26.93 18.42 39.51 3.18
301 302 8.306761 ACTGAACTTTTCTCAAATTTGTGAACT 58.693 29.630 26.93 15.85 39.51 3.01
302 303 9.787532 CTGAACTTTTCTCAAATTTGTGAACTA 57.212 29.630 26.93 19.12 39.51 2.24
319 320 9.958234 TTGTGAACTATTTTTCAAAATCGATGA 57.042 25.926 0.00 0.00 39.24 2.92
320 321 9.958234 TGTGAACTATTTTTCAAAATCGATGAA 57.042 25.926 0.00 0.00 39.24 2.57
367 368 8.485976 TTTTTCCAATTTGTGATCGTTTTTCT 57.514 26.923 0.00 0.00 0.00 2.52
368 369 8.485976 TTTTCCAATTTGTGATCGTTTTTCTT 57.514 26.923 0.00 0.00 0.00 2.52
369 370 7.692908 TTCCAATTTGTGATCGTTTTTCTTC 57.307 32.000 0.00 0.00 0.00 2.87
370 371 6.800543 TCCAATTTGTGATCGTTTTTCTTCA 58.199 32.000 0.00 0.00 0.00 3.02
371 372 7.261325 TCCAATTTGTGATCGTTTTTCTTCAA 58.739 30.769 0.00 0.00 0.00 2.69
372 373 7.761704 TCCAATTTGTGATCGTTTTTCTTCAAA 59.238 29.630 0.00 0.00 0.00 2.69
373 374 8.386606 CCAATTTGTGATCGTTTTTCTTCAAAA 58.613 29.630 0.00 0.00 31.50 2.44
374 375 9.752274 CAATTTGTGATCGTTTTTCTTCAAAAA 57.248 25.926 0.00 0.00 38.84 1.94
376 377 9.919348 ATTTGTGATCGTTTTTCTTCAAAAATG 57.081 25.926 5.99 5.99 44.76 2.32
382 383 7.199898 TCGTTTTTCTTCAAAAATGACGAAC 57.800 32.000 9.69 0.00 46.03 3.95
383 384 6.251801 TCGTTTTTCTTCAAAAATGACGAACC 59.748 34.615 9.69 0.00 46.03 3.62
384 385 6.034044 CGTTTTTCTTCAAAAATGACGAACCA 59.966 34.615 6.36 0.00 45.65 3.67
385 386 7.253950 CGTTTTTCTTCAAAAATGACGAACCAT 60.254 33.333 6.36 0.00 45.65 3.55
386 387 8.387354 GTTTTTCTTCAAAAATGACGAACCATT 58.613 29.630 0.00 0.00 42.22 3.16
387 388 8.485976 TTTTCTTCAAAAATGACGAACCATTT 57.514 26.923 0.00 0.00 45.58 2.32
397 398 7.969387 AATGACGAACCATTTTTCATAATCG 57.031 32.000 0.00 0.00 33.29 3.34
398 399 6.729391 TGACGAACCATTTTTCATAATCGA 57.271 33.333 0.00 0.00 33.61 3.59
399 400 7.315247 TGACGAACCATTTTTCATAATCGAT 57.685 32.000 0.00 0.00 33.61 3.59
400 401 7.186128 TGACGAACCATTTTTCATAATCGATG 58.814 34.615 0.00 0.00 36.82 3.84
401 402 7.065204 TGACGAACCATTTTTCATAATCGATGA 59.935 33.333 0.00 0.00 43.11 2.92
437 438 9.838975 AAAAATTGCTGAACTTTTTCGAAATTT 57.161 22.222 12.12 5.57 36.31 1.82
438 439 8.825064 AAATTGCTGAACTTTTTCGAAATTTG 57.175 26.923 12.12 7.49 35.02 2.32
439 440 6.959671 TTGCTGAACTTTTTCGAAATTTGT 57.040 29.167 12.12 8.11 34.04 2.83
440 441 6.329838 TGCTGAACTTTTTCGAAATTTGTG 57.670 33.333 12.12 3.39 34.04 3.33
441 442 6.096036 TGCTGAACTTTTTCGAAATTTGTGA 58.904 32.000 12.12 0.00 34.04 3.58
442 443 6.587990 TGCTGAACTTTTTCGAAATTTGTGAA 59.412 30.769 12.12 0.78 34.04 3.18
443 444 7.116948 TGCTGAACTTTTTCGAAATTTGTGAAA 59.883 29.630 12.12 9.87 34.04 2.69
444 445 8.116136 GCTGAACTTTTTCGAAATTTGTGAAAT 58.884 29.630 12.12 0.00 34.04 2.17
502 503 9.611284 TCAATGAACTGTTTTTCTAAATCATCG 57.389 29.630 0.00 0.00 0.00 3.84
503 504 9.611284 CAATGAACTGTTTTTCTAAATCATCGA 57.389 29.630 0.00 0.00 0.00 3.59
505 506 9.612620 ATGAACTGTTTTTCTAAATCATCGAAC 57.387 29.630 0.00 0.00 0.00 3.95
506 507 8.836413 TGAACTGTTTTTCTAAATCATCGAACT 58.164 29.630 0.00 0.00 0.00 3.01
507 508 9.665264 GAACTGTTTTTCTAAATCATCGAACTT 57.335 29.630 0.00 0.00 0.00 2.66
523 524 9.958234 TCATCGAACTTATTTTCAAATTGTGAA 57.042 25.926 0.00 0.00 44.74 3.18
524 525 9.993881 CATCGAACTTATTTTCAAATTGTGAAC 57.006 29.630 0.00 0.00 46.09 3.18
525 526 8.264022 TCGAACTTATTTTCAAATTGTGAACG 57.736 30.769 0.00 0.00 46.09 3.95
526 527 7.911205 TCGAACTTATTTTCAAATTGTGAACGT 59.089 29.630 0.00 0.00 46.09 3.99
527 528 8.528295 CGAACTTATTTTCAAATTGTGAACGTT 58.472 29.630 0.00 0.00 46.09 3.99
543 544 9.746711 TTGTGAACGTTTTTATTTCAAAACATG 57.253 25.926 0.46 0.00 43.90 3.21
544 545 9.140286 TGTGAACGTTTTTATTTCAAAACATGA 57.860 25.926 0.46 0.00 43.90 3.07
557 558 8.523523 TTTCAAAACATGATGAACTATGCTTG 57.476 30.769 0.00 0.00 38.03 4.01
558 559 7.451501 TCAAAACATGATGAACTATGCTTGA 57.548 32.000 0.00 0.00 32.00 3.02
559 560 7.884257 TCAAAACATGATGAACTATGCTTGAA 58.116 30.769 0.00 0.00 31.75 2.69
560 561 8.358895 TCAAAACATGATGAACTATGCTTGAAA 58.641 29.630 0.00 0.00 31.75 2.69
561 562 8.430063 CAAAACATGATGAACTATGCTTGAAAC 58.570 33.333 0.00 0.00 0.00 2.78
562 563 7.458409 AACATGATGAACTATGCTTGAAACT 57.542 32.000 0.00 0.00 0.00 2.66
563 564 7.458409 ACATGATGAACTATGCTTGAAACTT 57.542 32.000 0.00 0.00 0.00 2.66
564 565 7.310664 ACATGATGAACTATGCTTGAAACTTG 58.689 34.615 0.00 0.00 0.00 3.16
565 566 7.175467 ACATGATGAACTATGCTTGAAACTTGA 59.825 33.333 0.00 0.00 0.00 3.02
566 567 7.692460 TGATGAACTATGCTTGAAACTTGAT 57.308 32.000 0.00 0.00 0.00 2.57
567 568 7.532571 TGATGAACTATGCTTGAAACTTGATG 58.467 34.615 0.00 0.00 0.00 3.07
568 569 7.391275 TGATGAACTATGCTTGAAACTTGATGA 59.609 33.333 0.00 0.00 0.00 2.92
569 570 7.137490 TGAACTATGCTTGAAACTTGATGAG 57.863 36.000 0.00 0.00 0.00 2.90
570 571 5.557891 ACTATGCTTGAAACTTGATGAGC 57.442 39.130 0.00 0.00 0.00 4.26
571 572 5.005740 ACTATGCTTGAAACTTGATGAGCA 58.994 37.500 0.00 0.00 43.35 4.26
573 574 4.859304 TGCTTGAAACTTGATGAGCATT 57.141 36.364 0.00 0.00 35.43 3.56
574 575 5.204409 TGCTTGAAACTTGATGAGCATTT 57.796 34.783 0.00 0.00 35.43 2.32
575 576 5.603596 TGCTTGAAACTTGATGAGCATTTT 58.396 33.333 0.00 0.00 35.43 1.82
576 577 6.050432 TGCTTGAAACTTGATGAGCATTTTT 58.950 32.000 0.00 0.00 35.43 1.94
577 578 6.018588 TGCTTGAAACTTGATGAGCATTTTTG 60.019 34.615 0.00 0.00 35.43 2.44
578 579 6.018507 GCTTGAAACTTGATGAGCATTTTTGT 60.019 34.615 0.00 0.00 0.00 2.83
579 580 7.169645 GCTTGAAACTTGATGAGCATTTTTGTA 59.830 33.333 0.00 0.00 0.00 2.41
580 581 8.939201 TTGAAACTTGATGAGCATTTTTGTAA 57.061 26.923 0.00 0.00 0.00 2.41
581 582 8.939201 TGAAACTTGATGAGCATTTTTGTAAA 57.061 26.923 0.00 0.00 0.00 2.01
582 583 9.376075 TGAAACTTGATGAGCATTTTTGTAAAA 57.624 25.926 0.00 0.00 0.00 1.52
653 654 6.469139 AAAAATTTCACGTTCGTGGTTTTT 57.531 29.167 24.47 24.47 36.82 1.94
760 761 9.778741 GAAAGGTTCAAATCTTTCCCTAATTTT 57.221 29.630 14.79 0.00 45.84 1.82
797 798 1.021390 GCACAGATTGACTCCGTGGG 61.021 60.000 0.00 0.00 0.00 4.61
834 835 1.868519 GCTTCCGCCCAGTCGTAATAG 60.869 57.143 0.00 0.00 0.00 1.73
844 929 4.082895 CCCAGTCGTAATAGGGATCGTTAG 60.083 50.000 0.00 0.00 44.30 2.34
858 943 5.348997 GGGATCGTTAGAAACAGAAGACTTG 59.651 44.000 0.00 0.00 0.00 3.16
958 1069 4.151157 GCGGTAAACGTTGTCACTTCTAAT 59.849 41.667 0.00 0.00 46.52 1.73
959 1070 5.667156 GCGGTAAACGTTGTCACTTCTAATC 60.667 44.000 0.00 0.00 46.52 1.75
963 1074 7.599998 GGTAAACGTTGTCACTTCTAATCCTAA 59.400 37.037 0.00 0.00 0.00 2.69
965 1076 6.342338 ACGTTGTCACTTCTAATCCTAACT 57.658 37.500 0.00 0.00 0.00 2.24
966 1077 6.388278 ACGTTGTCACTTCTAATCCTAACTC 58.612 40.000 0.00 0.00 0.00 3.01
968 1079 5.934402 TGTCACTTCTAATCCTAACTCCC 57.066 43.478 0.00 0.00 0.00 4.30
969 1080 4.401519 TGTCACTTCTAATCCTAACTCCCG 59.598 45.833 0.00 0.00 0.00 5.14
971 1082 5.021458 TCACTTCTAATCCTAACTCCCGTT 58.979 41.667 0.00 0.00 37.15 4.44
972 1083 5.482878 TCACTTCTAATCCTAACTCCCGTTT 59.517 40.000 0.00 0.00 34.59 3.60
973 1084 5.811100 CACTTCTAATCCTAACTCCCGTTTC 59.189 44.000 0.00 0.00 34.59 2.78
975 1086 5.848833 TCTAATCCTAACTCCCGTTTCTC 57.151 43.478 0.00 0.00 34.59 2.87
976 1087 5.266788 TCTAATCCTAACTCCCGTTTCTCA 58.733 41.667 0.00 0.00 34.59 3.27
977 1088 4.903045 AATCCTAACTCCCGTTTCTCAA 57.097 40.909 0.00 0.00 34.59 3.02
980 1091 5.038651 TCCTAACTCCCGTTTCTCAAAAA 57.961 39.130 0.00 0.00 34.59 1.94
1017 1362 2.797285 AATCCTAACTCCCGATCCCT 57.203 50.000 0.00 0.00 0.00 4.20
2040 4500 2.029623 GGGAGCTTCATGCATCATTGT 58.970 47.619 0.00 0.00 45.94 2.71
2281 4755 3.199071 AGGAGCAATATTTACGGACACCA 59.801 43.478 0.00 0.00 0.00 4.17
2326 4800 1.079127 GCACCTGGTACACGCTCAT 60.079 57.895 0.00 0.00 0.00 2.90
2500 4975 1.809271 GCTCATGGTCATCGCAGACAT 60.809 52.381 8.89 0.00 42.51 3.06
2677 6104 0.829990 TTGCAGCCGATAGATGGTGA 59.170 50.000 0.00 0.00 39.76 4.02
2776 6205 9.334693 CTGAAGAACACTGAATACTTAATTTGC 57.665 33.333 0.00 0.00 0.00 3.68
2838 6268 7.703621 GCATGTTGCTTCATGTAATTAGTGAAT 59.296 33.333 17.80 0.00 44.68 2.57
2976 6470 5.123979 GCCAAGGTCGATTCTTTTGATACTT 59.876 40.000 0.00 0.00 0.00 2.24
3060 6554 7.424227 ACTACTACGATGAGCTATAAGTCAC 57.576 40.000 0.00 0.00 0.00 3.67
3068 6562 7.229707 ACGATGAGCTATAAGTCACTGTTCTAT 59.770 37.037 0.00 0.00 0.00 1.98
3246 6740 6.270463 TGTTTACAGGGACTTATTGGTGTAGA 59.730 38.462 0.00 0.00 34.60 2.59
3287 6781 5.658474 TGTAGGGACTTTTTAGGGACTAGT 58.342 41.667 0.00 0.00 41.09 2.57
3476 6977 8.405531 CGACAATCCAATGATAACCTACAAAAT 58.594 33.333 0.00 0.00 0.00 1.82
3477 6978 9.520204 GACAATCCAATGATAACCTACAAAATG 57.480 33.333 0.00 0.00 0.00 2.32
3598 7101 5.012561 GGCACCCTATGATATCTTTCTGAGT 59.987 44.000 3.98 0.00 0.00 3.41
3599 7102 6.211584 GGCACCCTATGATATCTTTCTGAGTA 59.788 42.308 3.98 0.00 0.00 2.59
3600 7103 7.093112 GGCACCCTATGATATCTTTCTGAGTAT 60.093 40.741 3.98 0.00 0.00 2.12
3601 7104 8.972127 GCACCCTATGATATCTTTCTGAGTATA 58.028 37.037 3.98 0.00 0.00 1.47
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 8.895737 AGTTCATCAATTTTGCAAAAAGTTCAT 58.104 25.926 27.10 8.61 0.00 2.57
30 31 8.266392 AGTTCATCAATTTTGCAAAAAGTTCA 57.734 26.923 27.10 6.50 0.00 3.18
107 108 9.337091 CGTAAATTTTGGTAAAAGTCATTCGAT 57.663 29.630 0.00 0.00 33.22 3.59
108 109 8.557864 TCGTAAATTTTGGTAAAAGTCATTCGA 58.442 29.630 0.00 0.00 33.22 3.71
109 110 8.716619 TCGTAAATTTTGGTAAAAGTCATTCG 57.283 30.769 0.00 0.00 33.22 3.34
191 192 8.994429 TGCATATTCGAAAACAATTAATTGGT 57.006 26.923 27.43 21.21 41.96 3.67
192 193 9.687717 GTTGCATATTCGAAAACAATTAATTGG 57.312 29.630 27.43 12.60 41.96 3.16
196 197 9.469807 ACAAGTTGCATATTCGAAAACAATTAA 57.530 25.926 0.00 0.00 0.00 1.40
197 198 9.469807 AACAAGTTGCATATTCGAAAACAATTA 57.530 25.926 0.00 0.00 0.00 1.40
198 199 7.945033 ACAAGTTGCATATTCGAAAACAATT 57.055 28.000 0.00 0.00 0.00 2.32
199 200 7.945033 AACAAGTTGCATATTCGAAAACAAT 57.055 28.000 0.00 0.00 0.00 2.71
200 201 7.704472 AGAAACAAGTTGCATATTCGAAAACAA 59.296 29.630 0.00 1.63 0.00 2.83
201 202 7.199766 AGAAACAAGTTGCATATTCGAAAACA 58.800 30.769 0.00 0.00 0.00 2.83
202 203 7.148967 GGAGAAACAAGTTGCATATTCGAAAAC 60.149 37.037 0.00 1.31 0.00 2.43
203 204 6.861055 GGAGAAACAAGTTGCATATTCGAAAA 59.139 34.615 0.00 0.00 0.00 2.29
204 205 6.016693 TGGAGAAACAAGTTGCATATTCGAAA 60.017 34.615 0.00 0.00 0.00 3.46
205 206 5.471797 TGGAGAAACAAGTTGCATATTCGAA 59.528 36.000 0.00 0.00 0.00 3.71
206 207 5.000591 TGGAGAAACAAGTTGCATATTCGA 58.999 37.500 1.81 0.00 0.00 3.71
207 208 5.295431 TGGAGAAACAAGTTGCATATTCG 57.705 39.130 1.81 0.00 0.00 3.34
208 209 8.437742 CAATTTGGAGAAACAAGTTGCATATTC 58.562 33.333 1.81 3.29 39.85 1.75
209 210 8.149647 TCAATTTGGAGAAACAAGTTGCATATT 58.850 29.630 1.81 0.00 43.51 1.28
210 211 7.669427 TCAATTTGGAGAAACAAGTTGCATAT 58.331 30.769 1.81 0.00 43.51 1.78
211 212 7.048629 TCAATTTGGAGAAACAAGTTGCATA 57.951 32.000 1.81 0.00 43.51 3.14
212 213 5.916318 TCAATTTGGAGAAACAAGTTGCAT 58.084 33.333 1.81 0.00 43.51 3.96
213 214 5.336150 TCAATTTGGAGAAACAAGTTGCA 57.664 34.783 1.81 0.00 43.51 4.08
214 215 5.984926 TCATCAATTTGGAGAAACAAGTTGC 59.015 36.000 1.81 0.00 43.51 4.17
215 216 8.330302 GTTTCATCAATTTGGAGAAACAAGTTG 58.670 33.333 25.53 0.00 44.50 3.16
216 217 8.260114 AGTTTCATCAATTTGGAGAAACAAGTT 58.740 29.630 28.56 16.89 46.28 2.66
217 218 7.785033 AGTTTCATCAATTTGGAGAAACAAGT 58.215 30.769 28.56 17.10 46.28 3.16
218 219 8.652810 AAGTTTCATCAATTTGGAGAAACAAG 57.347 30.769 28.56 1.32 46.28 3.16
219 220 9.447157 AAAAGTTTCATCAATTTGGAGAAACAA 57.553 25.926 28.56 8.94 46.28 2.83
220 221 9.447157 AAAAAGTTTCATCAATTTGGAGAAACA 57.553 25.926 28.56 9.41 46.28 2.83
270 271 9.657419 ACAAATTTGAGAAAAGTTCAGTGATTT 57.343 25.926 24.64 0.00 0.00 2.17
271 272 9.090692 CACAAATTTGAGAAAAGTTCAGTGATT 57.909 29.630 24.64 0.00 0.00 2.57
272 273 8.469200 TCACAAATTTGAGAAAAGTTCAGTGAT 58.531 29.630 24.64 0.00 0.00 3.06
273 274 7.825681 TCACAAATTTGAGAAAAGTTCAGTGA 58.174 30.769 24.64 9.74 0.00 3.41
274 275 8.375465 GTTCACAAATTTGAGAAAAGTTCAGTG 58.625 33.333 25.98 10.39 38.99 3.66
275 276 8.306761 AGTTCACAAATTTGAGAAAAGTTCAGT 58.693 29.630 25.98 8.58 38.99 3.41
276 277 8.693542 AGTTCACAAATTTGAGAAAAGTTCAG 57.306 30.769 25.98 0.00 38.99 3.02
293 294 9.958234 TCATCGATTTTGAAAAATAGTTCACAA 57.042 25.926 0.00 0.00 38.64 3.33
294 295 9.958234 TTCATCGATTTTGAAAAATAGTTCACA 57.042 25.926 0.00 0.00 38.64 3.58
342 343 8.485976 AGAAAAACGATCACAAATTGGAAAAA 57.514 26.923 0.00 0.00 0.00 1.94
343 344 8.485976 AAGAAAAACGATCACAAATTGGAAAA 57.514 26.923 0.00 0.00 0.00 2.29
344 345 7.761704 TGAAGAAAAACGATCACAAATTGGAAA 59.238 29.630 0.00 0.00 0.00 3.13
345 346 7.261325 TGAAGAAAAACGATCACAAATTGGAA 58.739 30.769 0.00 0.00 0.00 3.53
346 347 6.800543 TGAAGAAAAACGATCACAAATTGGA 58.199 32.000 0.00 0.00 0.00 3.53
347 348 7.462109 TTGAAGAAAAACGATCACAAATTGG 57.538 32.000 0.00 0.00 0.00 3.16
348 349 9.752274 TTTTTGAAGAAAAACGATCACAAATTG 57.248 25.926 0.00 0.00 37.48 2.32
350 351 9.919348 CATTTTTGAAGAAAAACGATCACAAAT 57.081 25.926 0.00 0.00 42.46 2.32
351 352 9.144747 TCATTTTTGAAGAAAAACGATCACAAA 57.855 25.926 0.00 0.00 42.46 2.83
352 353 8.591312 GTCATTTTTGAAGAAAAACGATCACAA 58.409 29.630 0.00 0.00 42.46 3.33
353 354 7.044380 CGTCATTTTTGAAGAAAAACGATCACA 60.044 33.333 0.00 0.00 42.46 3.58
354 355 7.165154 TCGTCATTTTTGAAGAAAAACGATCAC 59.835 33.333 6.93 0.00 42.46 3.06
355 356 7.190191 TCGTCATTTTTGAAGAAAAACGATCA 58.810 30.769 6.93 0.00 42.46 2.92
356 357 7.603297 TCGTCATTTTTGAAGAAAAACGATC 57.397 32.000 6.93 0.00 42.46 3.69
357 358 7.043656 GGTTCGTCATTTTTGAAGAAAAACGAT 60.044 33.333 10.20 0.00 42.46 3.73
358 359 6.251801 GGTTCGTCATTTTTGAAGAAAAACGA 59.748 34.615 6.03 1.85 42.46 3.85
359 360 6.034044 TGGTTCGTCATTTTTGAAGAAAAACG 59.966 34.615 6.03 0.00 42.46 3.60
360 361 7.284518 TGGTTCGTCATTTTTGAAGAAAAAC 57.715 32.000 6.03 2.30 42.46 2.43
361 362 8.485976 AATGGTTCGTCATTTTTGAAGAAAAA 57.514 26.923 6.03 0.00 43.51 1.94
362 363 8.485976 AAATGGTTCGTCATTTTTGAAGAAAA 57.514 26.923 6.03 0.00 42.63 2.29
372 373 8.240682 TCGATTATGAAAAATGGTTCGTCATTT 58.759 29.630 7.80 7.80 45.86 2.32
373 374 7.757526 TCGATTATGAAAAATGGTTCGTCATT 58.242 30.769 0.00 0.00 38.84 2.57
374 375 7.315247 TCGATTATGAAAAATGGTTCGTCAT 57.685 32.000 0.00 0.00 33.63 3.06
375 376 6.729391 TCGATTATGAAAAATGGTTCGTCA 57.271 33.333 0.00 0.00 0.00 4.35
376 377 7.406553 TCATCGATTATGAAAAATGGTTCGTC 58.593 34.615 0.00 0.00 41.75 4.20
377 378 7.315247 TCATCGATTATGAAAAATGGTTCGT 57.685 32.000 0.00 0.00 41.75 3.85
411 412 9.838975 AAATTTCGAAAAAGTTCAGCAATTTTT 57.161 22.222 15.66 2.81 38.47 1.94
412 413 9.276397 CAAATTTCGAAAAAGTTCAGCAATTTT 57.724 25.926 15.66 3.25 30.72 1.82
413 414 8.450180 ACAAATTTCGAAAAAGTTCAGCAATTT 58.550 25.926 15.66 3.45 30.72 1.82
414 415 7.904461 CACAAATTTCGAAAAAGTTCAGCAATT 59.096 29.630 15.66 0.00 30.72 2.32
415 416 7.277539 TCACAAATTTCGAAAAAGTTCAGCAAT 59.722 29.630 15.66 0.00 30.72 3.56
416 417 6.587990 TCACAAATTTCGAAAAAGTTCAGCAA 59.412 30.769 15.66 0.00 30.72 3.91
417 418 6.096036 TCACAAATTTCGAAAAAGTTCAGCA 58.904 32.000 15.66 0.00 30.72 4.41
418 419 6.567769 TCACAAATTTCGAAAAAGTTCAGC 57.432 33.333 15.66 0.00 30.72 4.26
476 477 9.611284 CGATGATTTAGAAAAACAGTTCATTGA 57.389 29.630 0.00 0.00 30.17 2.57
477 478 9.611284 TCGATGATTTAGAAAAACAGTTCATTG 57.389 29.630 0.00 0.00 30.03 2.82
479 480 9.612620 GTTCGATGATTTAGAAAAACAGTTCAT 57.387 29.630 0.00 0.00 0.00 2.57
480 481 8.836413 AGTTCGATGATTTAGAAAAACAGTTCA 58.164 29.630 0.00 0.00 0.00 3.18
481 482 9.665264 AAGTTCGATGATTTAGAAAAACAGTTC 57.335 29.630 0.00 0.00 0.00 3.01
497 498 9.958234 TTCACAATTTGAAAATAAGTTCGATGA 57.042 25.926 2.79 0.00 41.51 2.92
498 499 9.993881 GTTCACAATTTGAAAATAAGTTCGATG 57.006 29.630 2.79 0.00 46.09 3.84
499 500 8.901748 CGTTCACAATTTGAAAATAAGTTCGAT 58.098 29.630 2.79 0.00 46.09 3.59
500 501 7.911205 ACGTTCACAATTTGAAAATAAGTTCGA 59.089 29.630 2.79 0.00 46.09 3.71
501 502 8.045750 ACGTTCACAATTTGAAAATAAGTTCG 57.954 30.769 2.79 5.20 46.09 3.95
531 532 9.146984 CAAGCATAGTTCATCATGTTTTGAAAT 57.853 29.630 11.34 11.34 38.03 2.17
532 533 8.358895 TCAAGCATAGTTCATCATGTTTTGAAA 58.641 29.630 9.11 0.00 38.03 2.69
533 534 7.884257 TCAAGCATAGTTCATCATGTTTTGAA 58.116 30.769 0.00 0.00 38.03 2.69
534 535 7.451501 TCAAGCATAGTTCATCATGTTTTGA 57.548 32.000 0.00 0.00 39.12 2.69
535 536 8.430063 GTTTCAAGCATAGTTCATCATGTTTTG 58.570 33.333 0.00 0.00 0.00 2.44
536 537 8.362639 AGTTTCAAGCATAGTTCATCATGTTTT 58.637 29.630 0.00 0.00 0.00 2.43
537 538 7.889469 AGTTTCAAGCATAGTTCATCATGTTT 58.111 30.769 0.00 0.00 0.00 2.83
538 539 7.458409 AGTTTCAAGCATAGTTCATCATGTT 57.542 32.000 0.00 0.00 0.00 2.71
539 540 7.175467 TCAAGTTTCAAGCATAGTTCATCATGT 59.825 33.333 0.00 0.00 0.00 3.21
540 541 7.532571 TCAAGTTTCAAGCATAGTTCATCATG 58.467 34.615 0.00 0.00 0.00 3.07
541 542 7.692460 TCAAGTTTCAAGCATAGTTCATCAT 57.308 32.000 0.00 0.00 0.00 2.45
542 543 7.391275 TCATCAAGTTTCAAGCATAGTTCATCA 59.609 33.333 0.00 0.00 0.00 3.07
543 544 7.755591 TCATCAAGTTTCAAGCATAGTTCATC 58.244 34.615 0.00 0.00 0.00 2.92
544 545 7.627939 GCTCATCAAGTTTCAAGCATAGTTCAT 60.628 37.037 0.00 0.00 0.00 2.57
545 546 6.348786 GCTCATCAAGTTTCAAGCATAGTTCA 60.349 38.462 0.00 0.00 0.00 3.18
546 547 6.026513 GCTCATCAAGTTTCAAGCATAGTTC 58.973 40.000 0.00 0.00 0.00 3.01
547 548 5.474532 TGCTCATCAAGTTTCAAGCATAGTT 59.525 36.000 0.00 0.00 35.02 2.24
548 549 5.005740 TGCTCATCAAGTTTCAAGCATAGT 58.994 37.500 0.00 0.00 35.02 2.12
549 550 5.556355 TGCTCATCAAGTTTCAAGCATAG 57.444 39.130 0.00 0.00 35.02 2.23
550 551 6.519679 AATGCTCATCAAGTTTCAAGCATA 57.480 33.333 7.96 0.00 46.60 3.14
552 553 4.859304 AATGCTCATCAAGTTTCAAGCA 57.141 36.364 0.00 0.00 43.20 3.91
553 554 6.018507 ACAAAAATGCTCATCAAGTTTCAAGC 60.019 34.615 0.00 0.00 0.00 4.01
554 555 7.473027 ACAAAAATGCTCATCAAGTTTCAAG 57.527 32.000 0.00 0.00 0.00 3.02
555 556 8.939201 TTACAAAAATGCTCATCAAGTTTCAA 57.061 26.923 0.00 0.00 0.00 2.69
556 557 8.939201 TTTACAAAAATGCTCATCAAGTTTCA 57.061 26.923 0.00 0.00 0.00 2.69
726 727 9.841880 GGAAAGATTTGAACCTTTCAGTAATAC 57.158 33.333 11.59 0.00 46.01 1.89
727 728 9.020731 GGGAAAGATTTGAACCTTTCAGTAATA 57.979 33.333 11.59 0.00 46.01 0.98
728 729 7.730332 AGGGAAAGATTTGAACCTTTCAGTAAT 59.270 33.333 11.59 0.00 46.01 1.89
729 730 7.066781 AGGGAAAGATTTGAACCTTTCAGTAA 58.933 34.615 11.59 0.00 46.01 2.24
730 731 6.610830 AGGGAAAGATTTGAACCTTTCAGTA 58.389 36.000 11.59 0.00 46.01 2.74
731 732 5.458595 AGGGAAAGATTTGAACCTTTCAGT 58.541 37.500 11.59 0.00 46.01 3.41
732 733 7.524717 TTAGGGAAAGATTTGAACCTTTCAG 57.475 36.000 11.59 0.00 46.01 3.02
733 734 8.491045 AATTAGGGAAAGATTTGAACCTTTCA 57.509 30.769 11.59 0.00 46.01 2.69
734 735 9.778741 AAAATTAGGGAAAGATTTGAACCTTTC 57.221 29.630 2.54 2.54 44.43 2.62
767 768 8.826710 CGGAGTCAATCTGTGCTTTATTATTAA 58.173 33.333 0.00 0.00 0.00 1.40
782 783 1.002087 GTGAACCCACGGAGTCAATCT 59.998 52.381 0.00 0.00 41.61 2.40
797 798 3.941194 GCGTATTGTGACGGTGAAC 57.059 52.632 0.00 0.00 43.13 3.18
834 835 5.074584 AGTCTTCTGTTTCTAACGATCCC 57.925 43.478 0.00 0.00 0.00 3.85
844 929 4.857037 ACGTTTTTGCAAGTCTTCTGTTTC 59.143 37.500 0.00 0.00 0.00 2.78
858 943 1.136872 TGCAGCGACAACGTTTTTGC 61.137 50.000 17.19 17.19 41.98 3.68
990 1101 7.225011 GGATCGGGAGTTAGGATTAGATTTTT 58.775 38.462 0.00 0.00 0.00 1.94
993 1104 4.778427 GGGATCGGGAGTTAGGATTAGATT 59.222 45.833 0.00 0.00 0.00 2.40
1017 1362 0.618968 GGAAGGGAGAGAGGCAGGAA 60.619 60.000 0.00 0.00 0.00 3.36
1191 1570 1.101635 TAGAGCTGTACATCGCCGCT 61.102 55.000 6.28 6.28 0.00 5.52
2040 4500 9.967451 TTCACAATAGTAAAGAATTCCCACATA 57.033 29.630 0.65 0.00 0.00 2.29
2326 4800 3.119137 ACTGTCAGTATAGTTGATGCGCA 60.119 43.478 14.96 14.96 0.00 6.09
2500 4975 7.854557 ATCGATCAATCTTTGAAGATGACAA 57.145 32.000 6.98 0.00 44.67 3.18
2677 6104 6.582295 GTGAAGTGACATTCGCAATATGTTTT 59.418 34.615 0.00 0.00 39.09 2.43
2776 6205 8.494016 AAACTAAATCAGGTAGGAGATTTTCG 57.506 34.615 5.81 2.01 40.50 3.46
2838 6268 8.792830 AGCTAATTAGTCAAGTTGCTGATTTA 57.207 30.769 13.91 8.81 38.92 1.40
2976 6470 9.327628 CCATGGAATTAAAAACATAATCATGCA 57.672 29.630 5.56 0.00 35.39 3.96
3068 6562 4.334203 ACACGCAAACTGATAACTGTTTCA 59.666 37.500 0.00 2.19 42.95 2.69
3316 6811 5.566469 CCCTGTTTGGTTCATAAGTCCTAA 58.434 41.667 0.00 0.00 0.00 2.69
3476 6977 5.999205 ATGGAAGTTTATGCATGTTTCCA 57.001 34.783 25.03 25.03 45.58 3.53
3477 6978 7.436080 CACATATGGAAGTTTATGCATGTTTCC 59.564 37.037 10.16 15.86 33.15 3.13
3694 7197 3.758023 TGCTATGAACCAAGAACACATGG 59.242 43.478 0.00 0.00 42.60 3.66


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

AutoCloner maintained by Alex Coulton.