Multiple sequence alignment - TraesCS5D01G287400

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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 TraesCS5D01G287400 chr5D 100.000 3584 0 0 1 3584 387118796 387115213 0.000000e+00 6619.0
1 TraesCS5D01G287400 chr5D 84.527 1480 175 29 1130 2585 387195504 387194055 0.000000e+00 1415.0
2 TraesCS5D01G287400 chr5D 80.523 1263 176 37 955 2175 387322193 387320959 0.000000e+00 905.0
3 TraesCS5D01G287400 chr5D 80.062 968 165 23 940 1892 388826854 388827808 0.000000e+00 693.0
4 TraesCS5D01G287400 chr5D 85.331 634 59 17 245 852 387196404 387195779 3.040000e-175 625.0
5 TraesCS5D01G287400 chr5D 81.278 454 73 9 2173 2620 388828152 388828599 1.220000e-94 357.0
6 TraesCS5D01G287400 chr5D 88.136 295 35 0 3287 3581 389110798 389111092 5.690000e-93 351.0
7 TraesCS5D01G287400 chr5D 91.165 249 20 2 892 1138 387195786 387195538 1.590000e-88 337.0
8 TraesCS5D01G287400 chr5D 80.863 371 60 5 2199 2565 387320877 387320514 7.580000e-72 281.0
9 TraesCS5D01G287400 chr5D 85.714 112 11 5 2992 3099 389110564 389110674 2.920000e-21 113.0
10 TraesCS5D01G287400 chr5D 100.000 34 0 0 321 354 387323056 387323023 2.990000e-06 63.9
11 TraesCS5D01G287400 chr5D 86.441 59 6 2 2534 2591 390696410 390696467 2.990000e-06 63.9
12 TraesCS5D01G287400 chr5A 94.337 1554 68 11 1576 3115 489901383 489899836 0.000000e+00 2364.0
13 TraesCS5D01G287400 chr5A 96.930 456 14 0 1019 1474 489901834 489901379 0.000000e+00 765.0
14 TraesCS5D01G287400 chr5A 83.180 761 124 3 955 1714 490046410 490045653 0.000000e+00 693.0
15 TraesCS5D01G287400 chr5A 84.405 731 74 16 245 948 489906639 489905922 0.000000e+00 682.0
16 TraesCS5D01G287400 chr5A 83.582 402 48 9 3191 3581 492031985 492032379 9.460000e-96 361.0
17 TraesCS5D01G287400 chr5A 87.702 309 24 4 3190 3484 489899831 489899523 7.360000e-92 348.0
18 TraesCS5D01G287400 chr5A 77.511 667 93 25 1947 2565 490045421 490044764 7.360000e-92 348.0
19 TraesCS5D01G287400 chr5A 82.278 395 57 9 2177 2565 491937084 491937471 2.670000e-86 329.0
20 TraesCS5D01G287400 chr5A 84.270 178 28 0 1721 1898 490045616 490045439 1.320000e-39 174.0
21 TraesCS5D01G287400 chr5A 86.777 121 12 4 2992 3109 492031858 492031977 8.070000e-27 132.0
22 TraesCS5D01G287400 chr5A 81.250 80 13 2 2513 2591 494233210 494233288 2.990000e-06 63.9
23 TraesCS5D01G287400 chr5B 84.303 1478 182 26 1130 2585 465592278 465590829 0.000000e+00 1399.0
24 TraesCS5D01G287400 chr5B 84.908 921 83 27 245 1138 465593203 465592312 0.000000e+00 880.0
25 TraesCS5D01G287400 chr5B 83.377 770 123 4 955 1723 465863927 465863162 0.000000e+00 708.0
26 TraesCS5D01G287400 chr5B 81.312 503 80 10 1396 1892 467176080 467176574 2.590000e-106 396.0
27 TraesCS5D01G287400 chr5B 83.582 402 47 10 3191 3581 467512326 467512719 3.400000e-95 359.0
28 TraesCS5D01G287400 chr5B 77.690 632 90 23 1979 2566 465862949 465862325 4.430000e-89 339.0
29 TraesCS5D01G287400 chr5B 80.142 423 75 6 2177 2595 467176933 467177350 1.250000e-79 307.0
30 TraesCS5D01G287400 chr5B 86.667 225 30 0 3339 3563 465870971 465871195 2.140000e-62 250.0
31 TraesCS5D01G287400 chr5B 86.517 178 17 5 37 213 465593630 465593459 4.720000e-44 189.0
32 TraesCS5D01G287400 chr5B 84.302 172 27 0 1726 1897 465863129 465862958 6.150000e-38 169.0
33 TraesCS5D01G287400 chr5B 85.950 121 13 4 2992 3109 467512199 467512318 3.760000e-25 126.0
34 TraesCS5D01G287400 chr5B 100.000 34 0 0 321 354 465866105 465866072 2.990000e-06 63.9
35 TraesCS5D01G287400 chr2A 83.938 193 26 3 1556 1747 70465805 70465617 2.840000e-41 180.0


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 TraesCS5D01G287400 chr5D 387115213 387118796 3583 True 6619.000000 6619 100.000000 1 3584 1 chr5D.!!$R1 3583
1 TraesCS5D01G287400 chr5D 387194055 387196404 2349 True 792.333333 1415 87.007667 245 2585 3 chr5D.!!$R2 2340
2 TraesCS5D01G287400 chr5D 388826854 388828599 1745 False 525.000000 693 80.670000 940 2620 2 chr5D.!!$F2 1680
3 TraesCS5D01G287400 chr5D 387320514 387323056 2542 True 416.633333 905 87.128667 321 2565 3 chr5D.!!$R3 2244
4 TraesCS5D01G287400 chr5D 389110564 389111092 528 False 232.000000 351 86.925000 2992 3581 2 chr5D.!!$F3 589
5 TraesCS5D01G287400 chr5A 489899523 489901834 2311 True 1159.000000 2364 92.989667 1019 3484 3 chr5A.!!$R2 2465
6 TraesCS5D01G287400 chr5A 489905922 489906639 717 True 682.000000 682 84.405000 245 948 1 chr5A.!!$R1 703
7 TraesCS5D01G287400 chr5A 490044764 490046410 1646 True 405.000000 693 81.653667 955 2565 3 chr5A.!!$R3 1610
8 TraesCS5D01G287400 chr5A 492031858 492032379 521 False 246.500000 361 85.179500 2992 3581 2 chr5A.!!$F3 589
9 TraesCS5D01G287400 chr5B 465590829 465593630 2801 True 822.666667 1399 85.242667 37 2585 3 chr5B.!!$R1 2548
10 TraesCS5D01G287400 chr5B 467176080 467177350 1270 False 351.500000 396 80.727000 1396 2595 2 chr5B.!!$F2 1199
11 TraesCS5D01G287400 chr5B 465862325 465866105 3780 True 319.975000 708 86.342250 321 2566 4 chr5B.!!$R2 2245
12 TraesCS5D01G287400 chr5B 467512199 467512719 520 False 242.500000 359 84.766000 2992 3581 2 chr5B.!!$F3 589

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
572 2366 0.317854 GCCGTGTCTGAAGCCAAAAC 60.318 55.0 0.0 0.0 0.0 2.43 F
1494 3641 0.880278 GTTGCACGAGAAGCCTGACA 60.880 55.0 0.0 0.0 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1578 3725 0.389025 TCTCGCTGCAACTGTTGAGA 59.611 50.0 23.81 13.66 0.0 3.27 R
2822 5208 0.387622 CCGCTGGTCTGCAAAACATG 60.388 55.0 0.00 0.00 0.0 3.21 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
59 60 3.243975 TGACCTCGGAACAGTAGGAAAAC 60.244 47.826 0.00 0.00 34.34 2.43
62 64 3.746492 CCTCGGAACAGTAGGAAAACTTG 59.254 47.826 0.00 0.00 31.64 3.16
67 69 5.296035 CGGAACAGTAGGAAAACTTGTTTCT 59.704 40.000 0.00 0.00 0.00 2.52
75 77 7.873505 AGTAGGAAAACTTGTTTCTAGTAGCTG 59.126 37.037 0.00 0.00 0.00 4.24
85 87 7.490657 TGTTTCTAGTAGCTGATCCCTTTAA 57.509 36.000 0.00 0.00 0.00 1.52
88 90 9.047371 GTTTCTAGTAGCTGATCCCTTTAAATC 57.953 37.037 0.00 0.00 0.00 2.17
126 128 7.277174 ACTTTGTGAAGACTATTTTTCCTGG 57.723 36.000 0.00 0.00 36.69 4.45
129 131 4.518970 TGTGAAGACTATTTTTCCTGGCAC 59.481 41.667 0.00 0.00 0.00 5.01
130 132 4.079253 TGAAGACTATTTTTCCTGGCACC 58.921 43.478 0.00 0.00 0.00 5.01
131 133 3.806949 AGACTATTTTTCCTGGCACCA 57.193 42.857 0.00 0.00 0.00 4.17
141 143 2.360726 TGGCACCAGCAGCATCTG 60.361 61.111 0.00 0.00 44.61 2.90
160 162 3.591527 TCTGGTGTTCCATTTACTCCCAT 59.408 43.478 0.00 0.00 43.43 4.00
161 163 3.947834 CTGGTGTTCCATTTACTCCCATC 59.052 47.826 0.00 0.00 43.43 3.51
167 169 6.260936 GTGTTCCATTTACTCCCATCACTATG 59.739 42.308 0.00 0.00 0.00 2.23
198 200 2.101415 ACCTTTGAAACCTTTGCAGCTC 59.899 45.455 0.00 0.00 0.00 4.09
207 209 0.723981 CTTTGCAGCTCGTCCTTAGC 59.276 55.000 0.00 0.00 40.40 3.09
213 215 2.413765 CTCGTCCTTAGCCTCGCC 59.586 66.667 0.00 0.00 0.00 5.54
214 216 2.044252 TCGTCCTTAGCCTCGCCT 60.044 61.111 0.00 0.00 0.00 5.52
216 218 0.818445 TCGTCCTTAGCCTCGCCTAG 60.818 60.000 0.00 0.00 0.00 3.02
219 221 2.210711 CCTTAGCCTCGCCTAGGGG 61.211 68.421 19.63 19.63 46.65 4.79
220 222 1.457831 CTTAGCCTCGCCTAGGGGT 60.458 63.158 23.98 9.03 46.65 4.95
222 224 0.468771 TTAGCCTCGCCTAGGGGTAC 60.469 60.000 23.98 14.75 46.65 3.34
223 225 1.648302 TAGCCTCGCCTAGGGGTACA 61.648 60.000 23.98 5.67 46.65 2.90
224 226 1.837499 GCCTCGCCTAGGGGTACAT 60.837 63.158 23.98 0.00 46.65 2.29
226 228 1.254954 CCTCGCCTAGGGGTACATAC 58.745 60.000 23.98 0.00 42.32 2.39
228 230 2.161030 CTCGCCTAGGGGTACATACTC 58.839 57.143 23.98 0.00 34.45 2.59
232 234 3.036091 GCCTAGGGGTACATACTCAACA 58.964 50.000 11.72 0.00 34.45 3.33
235 237 4.899457 CCTAGGGGTACATACTCAACATGA 59.101 45.833 0.00 0.00 0.00 3.07
365 591 4.278419 GTGTGCTTTAACTTGAGACCCATT 59.722 41.667 0.00 0.00 0.00 3.16
388 819 6.605471 TTGTATCTTTGCAAGGAGTAGAGA 57.395 37.500 16.88 7.27 0.00 3.10
389 820 6.214191 TGTATCTTTGCAAGGAGTAGAGAG 57.786 41.667 16.88 0.04 0.00 3.20
393 824 7.667575 ATCTTTGCAAGGAGTAGAGAGAATA 57.332 36.000 16.88 0.00 0.00 1.75
512 2120 3.434984 GCAAACACTCTGATCTCAACCTC 59.565 47.826 0.00 0.00 0.00 3.85
533 2326 2.797156 CAACTCTGTGGTCACTTTCTCG 59.203 50.000 2.66 0.00 0.00 4.04
537 2330 2.560981 TCTGTGGTCACTTTCTCGCATA 59.439 45.455 2.66 0.00 0.00 3.14
550 2343 1.404391 CTCGCATACTCCTACCGTGTT 59.596 52.381 0.00 0.00 0.00 3.32
551 2344 1.133598 TCGCATACTCCTACCGTGTTG 59.866 52.381 0.00 0.00 0.00 3.33
572 2366 0.317854 GCCGTGTCTGAAGCCAAAAC 60.318 55.000 0.00 0.00 0.00 2.43
593 2387 9.787532 CAAAACTGTTTTCTTCTTCTTACATGA 57.212 29.630 15.17 0.00 0.00 3.07
642 2436 3.394674 TCTGCACTGTTTCCGATGTTA 57.605 42.857 0.00 0.00 0.00 2.41
644 2438 4.323417 TCTGCACTGTTTCCGATGTTATT 58.677 39.130 0.00 0.00 0.00 1.40
647 2441 4.088648 GCACTGTTTCCGATGTTATTTCG 58.911 43.478 0.00 0.00 36.38 3.46
648 2442 4.142988 GCACTGTTTCCGATGTTATTTCGA 60.143 41.667 0.00 0.00 38.88 3.71
649 2443 5.550981 CACTGTTTCCGATGTTATTTCGAG 58.449 41.667 0.00 0.00 38.88 4.04
650 2444 5.120208 CACTGTTTCCGATGTTATTTCGAGT 59.880 40.000 0.00 0.00 38.88 4.18
651 2445 5.120208 ACTGTTTCCGATGTTATTTCGAGTG 59.880 40.000 0.00 0.00 38.88 3.51
659 2455 6.959311 CCGATGTTATTTCGAGTGGTTTTAAG 59.041 38.462 0.00 0.00 38.88 1.85
684 2480 5.216566 TCAGTTTCAGAAATATTTCCGCG 57.783 39.130 21.86 12.51 37.92 6.46
688 2484 1.939934 TCAGAAATATTTCCGCGCCTG 59.060 47.619 21.86 13.65 37.92 4.85
704 2500 3.848554 GCGCCTGCCGAAATTACTAAATC 60.849 47.826 0.00 0.00 40.02 2.17
706 2502 4.035208 CGCCTGCCGAAATTACTAAATCTT 59.965 41.667 0.00 0.00 40.02 2.40
711 2507 7.254795 CCTGCCGAAATTACTAAATCTTAGTGG 60.255 40.741 8.92 2.72 0.00 4.00
714 2510 8.283291 GCCGAAATTACTAAATCTTAGTGGATG 58.717 37.037 8.92 0.00 0.00 3.51
726 2522 8.812513 AATCTTAGTGGATGTCAATGATTTCA 57.187 30.769 0.00 0.00 0.00 2.69
731 2527 7.294017 AGTGGATGTCAATGATTTCAGTTTT 57.706 32.000 0.00 0.00 0.00 2.43
732 2528 7.729116 AGTGGATGTCAATGATTTCAGTTTTT 58.271 30.769 0.00 0.00 0.00 1.94
754 2550 2.060050 TTCGGCCAAAGGACTGAAAA 57.940 45.000 2.24 0.00 0.00 2.29
903 2746 7.194607 GTGAAACTCATCAAAATCTCACAGA 57.805 36.000 0.00 0.00 33.71 3.41
1006 3109 4.136796 ACTTTTCTACTTGTGCATGCAGA 58.863 39.130 23.41 18.82 0.00 4.26
1021 3124 2.486918 TGCAGAATATCTGGCGTCATG 58.513 47.619 9.25 0.00 44.43 3.07
1060 3163 1.695893 GAAAGATGCTGCGCGTGCTA 61.696 55.000 23.16 9.01 43.34 3.49
1138 3241 4.288626 TCAGTAAGGAAACAATGGGCTACT 59.711 41.667 0.00 0.00 0.00 2.57
1198 3343 6.435277 AGATTACAACAGCAGAATTGACCATT 59.565 34.615 0.00 0.00 0.00 3.16
1262 3407 5.123979 GCCTTTTGTTCTATGGTCCTTACAG 59.876 44.000 0.00 0.00 0.00 2.74
1494 3641 0.880278 GTTGCACGAGAAGCCTGACA 60.880 55.000 0.00 0.00 0.00 3.58
1524 3671 6.494893 TCTCTGTGTTTTGTGCATATTACC 57.505 37.500 0.00 0.00 0.00 2.85
1554 3701 2.957474 CTGGGGTTCCTTCTTTCCAAA 58.043 47.619 0.00 0.00 0.00 3.28
1578 3725 4.625800 GCTTTGGAGCGACTGGAT 57.374 55.556 0.00 0.00 39.48 3.41
1593 3740 1.467734 CTGGATCTCAACAGTTGCAGC 59.532 52.381 8.58 0.00 32.80 5.25
1600 3747 2.602211 CTCAACAGTTGCAGCGAGATAG 59.398 50.000 8.58 0.00 0.00 2.08
1606 3753 0.179073 TTGCAGCGAGATAGCTTCCC 60.179 55.000 0.00 0.00 46.80 3.97
1922 4142 3.040147 GCGATATGCCTACAGCCTTAA 57.960 47.619 0.00 0.00 42.71 1.85
1928 4148 7.494625 GCGATATGCCTACAGCCTTAATTATTA 59.505 37.037 0.00 0.00 42.71 0.98
2032 4256 3.575805 AGCAAATTCCTCCACCTCAAAA 58.424 40.909 0.00 0.00 0.00 2.44
2033 4257 3.321968 AGCAAATTCCTCCACCTCAAAAC 59.678 43.478 0.00 0.00 0.00 2.43
2035 4259 4.522789 GCAAATTCCTCCACCTCAAAACTA 59.477 41.667 0.00 0.00 0.00 2.24
2037 4261 6.295292 GCAAATTCCTCCACCTCAAAACTATT 60.295 38.462 0.00 0.00 0.00 1.73
2167 4413 4.193826 TCGCCCTGCTGAGATATTTATC 57.806 45.455 0.00 0.00 0.00 1.75
2237 4610 1.707427 AGGAAGCCAGAACCATGACTT 59.293 47.619 0.00 0.00 0.00 3.01
2449 4831 7.534282 TGACAAAAGAATTCGCAAATGCTATA 58.466 30.769 3.63 0.00 39.32 1.31
2612 4995 6.994496 TCAAAGCTCAGGATTATGGAATGTAG 59.006 38.462 0.00 0.00 0.00 2.74
2635 5018 7.602517 AGAGTCATATAATTTTAGATGGCGC 57.397 36.000 0.00 0.00 40.73 6.53
2639 5022 2.748461 TAATTTTAGATGGCGCGTGC 57.252 45.000 13.78 13.78 41.71 5.34
2687 5070 3.121929 TCTGGGCTAGATGGAACTCTT 57.878 47.619 0.00 0.00 0.00 2.85
2733 5116 5.530171 TGGCCAAGTAGAGTTAGTACTATCG 59.470 44.000 0.61 0.00 33.84 2.92
2738 5121 9.282569 CCAAGTAGAGTTAGTACTATCGGTAAT 57.717 37.037 2.79 0.00 33.84 1.89
2773 5159 7.675270 GTAATGAGATTACGACTCGCTAAAA 57.325 36.000 0.00 0.00 36.17 1.52
2776 5162 4.043037 AGATTACGACTCGCTAAAAGGG 57.957 45.455 0.00 0.00 0.00 3.95
2834 5220 5.068329 TGTGTTACATTCCATGTTTTGCAGA 59.932 36.000 0.00 0.00 41.63 4.26
2838 5224 3.006110 ACATTCCATGTTTTGCAGACCAG 59.994 43.478 0.00 0.00 41.63 4.00
2840 5226 0.387622 CCATGTTTTGCAGACCAGCG 60.388 55.000 0.00 0.00 37.31 5.18
2841 5227 0.387622 CATGTTTTGCAGACCAGCGG 60.388 55.000 0.00 0.00 37.31 5.52
2869 5255 3.003275 GCTCTAGTCACCTCGATTCAGAG 59.997 52.174 0.00 0.00 37.97 3.35
2887 5273 1.271656 GAGCAGCAATTCAGCAGGTTT 59.728 47.619 0.00 0.00 36.85 3.27
2889 5275 1.670967 GCAGCAATTCAGCAGGTTTCC 60.671 52.381 0.00 0.00 36.85 3.13
2890 5276 0.883833 AGCAATTCAGCAGGTTTCCG 59.116 50.000 0.00 0.00 36.85 4.30
2916 5302 4.217118 AGCATGAGGTTGACATTGAAGTTC 59.783 41.667 0.00 0.00 0.00 3.01
2918 5304 3.138304 TGAGGTTGACATTGAAGTTCCG 58.862 45.455 0.00 0.00 0.00 4.30
2921 5307 4.398319 AGGTTGACATTGAAGTTCCGATT 58.602 39.130 0.00 0.00 0.00 3.34
2929 5315 4.553330 TTGAAGTTCCGATTCTAAGGCT 57.447 40.909 0.00 0.00 0.00 4.58
2956 5342 6.951198 TCTCTAGCAGATCCCCTATCTAAAAG 59.049 42.308 0.00 0.00 43.42 2.27
2967 5353 5.391629 CCCCTATCTAAAAGTTCAAACGTGC 60.392 44.000 0.00 0.00 0.00 5.34
2986 5372 2.482336 TGCTTTGCACATACGTGGTTAG 59.518 45.455 0.00 0.00 43.81 2.34
2991 5377 5.641783 TTGCACATACGTGGTTAGTAGTA 57.358 39.130 0.00 0.00 43.81 1.82
2992 5378 5.840243 TGCACATACGTGGTTAGTAGTAT 57.160 39.130 0.00 0.00 43.81 2.12
2994 5380 7.332213 TGCACATACGTGGTTAGTAGTATTA 57.668 36.000 0.00 0.00 43.81 0.98
2995 5381 7.420002 TGCACATACGTGGTTAGTAGTATTAG 58.580 38.462 0.00 0.00 43.81 1.73
3046 5433 8.754991 TTAAAGAAAGATCCACCAAAGTAACA 57.245 30.769 0.00 0.00 0.00 2.41
3075 5464 6.127980 GGGAGAAAGTAATAGTGCCACTTTTC 60.128 42.308 1.02 6.75 41.36 2.29
3100 5489 3.225104 TCTCATATCATTGGGGCAAAGC 58.775 45.455 0.00 0.00 0.00 3.51
3115 5504 1.806542 CAAAGCGCTACATGGACAACT 59.193 47.619 12.05 0.00 0.00 3.16
3117 5506 2.295253 AGCGCTACATGGACAACTAC 57.705 50.000 8.99 0.00 0.00 2.73
3119 5508 2.159226 AGCGCTACATGGACAACTACTC 60.159 50.000 8.99 0.00 0.00 2.59
3120 5509 2.810650 CGCTACATGGACAACTACTCC 58.189 52.381 0.00 0.00 0.00 3.85
3121 5510 2.481449 CGCTACATGGACAACTACTCCC 60.481 54.545 0.00 0.00 0.00 4.30
3122 5511 2.766828 GCTACATGGACAACTACTCCCT 59.233 50.000 0.00 0.00 0.00 4.20
3123 5512 3.181474 GCTACATGGACAACTACTCCCTC 60.181 52.174 0.00 0.00 0.00 4.30
3124 5513 3.191888 ACATGGACAACTACTCCCTCT 57.808 47.619 0.00 0.00 0.00 3.69
3125 5514 2.834549 ACATGGACAACTACTCCCTCTG 59.165 50.000 0.00 0.00 0.00 3.35
3126 5515 2.696526 TGGACAACTACTCCCTCTGT 57.303 50.000 0.00 0.00 0.00 3.41
3127 5516 2.248248 TGGACAACTACTCCCTCTGTG 58.752 52.381 0.00 0.00 0.00 3.66
3128 5517 1.066787 GGACAACTACTCCCTCTGTGC 60.067 57.143 0.00 0.00 0.00 4.57
3129 5518 0.977395 ACAACTACTCCCTCTGTGCC 59.023 55.000 0.00 0.00 0.00 5.01
3130 5519 0.976641 CAACTACTCCCTCTGTGCCA 59.023 55.000 0.00 0.00 0.00 4.92
3131 5520 1.556911 CAACTACTCCCTCTGTGCCAT 59.443 52.381 0.00 0.00 0.00 4.40
3132 5521 2.766263 CAACTACTCCCTCTGTGCCATA 59.234 50.000 0.00 0.00 0.00 2.74
3133 5522 3.116096 ACTACTCCCTCTGTGCCATAA 57.884 47.619 0.00 0.00 0.00 1.90
3134 5523 3.658725 ACTACTCCCTCTGTGCCATAAT 58.341 45.455 0.00 0.00 0.00 1.28
3135 5524 4.816126 ACTACTCCCTCTGTGCCATAATA 58.184 43.478 0.00 0.00 0.00 0.98
3136 5525 5.407049 ACTACTCCCTCTGTGCCATAATAT 58.593 41.667 0.00 0.00 0.00 1.28
3137 5526 4.630644 ACTCCCTCTGTGCCATAATATG 57.369 45.455 0.00 0.00 0.00 1.78
3138 5527 4.234550 ACTCCCTCTGTGCCATAATATGA 58.765 43.478 1.10 0.00 0.00 2.15
3139 5528 4.285517 ACTCCCTCTGTGCCATAATATGAG 59.714 45.833 1.10 0.00 0.00 2.90
3140 5529 4.492646 TCCCTCTGTGCCATAATATGAGA 58.507 43.478 1.10 0.00 0.00 3.27
3141 5530 4.284490 TCCCTCTGTGCCATAATATGAGAC 59.716 45.833 1.10 0.00 0.00 3.36
3142 5531 4.040829 CCCTCTGTGCCATAATATGAGACA 59.959 45.833 1.10 3.43 0.00 3.41
3143 5532 5.280368 CCCTCTGTGCCATAATATGAGACAT 60.280 44.000 1.10 0.00 0.00 3.06
3144 5533 6.236409 CCTCTGTGCCATAATATGAGACATT 58.764 40.000 1.10 0.00 0.00 2.71
3145 5534 6.713903 CCTCTGTGCCATAATATGAGACATTT 59.286 38.462 1.10 0.00 0.00 2.32
3146 5535 7.230108 CCTCTGTGCCATAATATGAGACATTTT 59.770 37.037 1.10 0.00 0.00 1.82
3147 5536 8.523915 TCTGTGCCATAATATGAGACATTTTT 57.476 30.769 1.10 0.00 0.00 1.94
3182 5571 6.851222 AAAACGTCTCATATTATGGCAGAG 57.149 37.500 3.89 0.00 0.00 3.35
3183 5572 4.527509 ACGTCTCATATTATGGCAGAGG 57.472 45.455 3.89 8.19 0.00 3.69
3184 5573 3.259374 ACGTCTCATATTATGGCAGAGGG 59.741 47.826 14.53 6.19 0.00 4.30
3185 5574 3.511540 CGTCTCATATTATGGCAGAGGGA 59.488 47.826 3.89 0.00 0.00 4.20
3186 5575 4.381398 CGTCTCATATTATGGCAGAGGGAG 60.381 50.000 3.89 0.00 0.00 4.30
3187 5576 4.530161 GTCTCATATTATGGCAGAGGGAGT 59.470 45.833 3.89 0.00 0.00 3.85
3188 5577 5.717178 GTCTCATATTATGGCAGAGGGAGTA 59.283 44.000 3.89 0.00 0.00 2.59
3236 5627 2.016905 AGTGTCTCCTTGTGGCTACT 57.983 50.000 0.64 0.00 0.00 2.57
3276 5668 2.878406 TGCAGGTAAGCAGAAAACTGTC 59.122 45.455 0.00 0.00 40.11 3.51
3277 5669 2.878406 GCAGGTAAGCAGAAAACTGTCA 59.122 45.455 0.00 0.00 0.00 3.58
3279 5671 4.380531 CAGGTAAGCAGAAAACTGTCAGA 58.619 43.478 6.91 0.00 0.00 3.27
3280 5672 4.450419 CAGGTAAGCAGAAAACTGTCAGAG 59.550 45.833 6.91 0.00 0.00 3.35
3281 5673 3.748568 GGTAAGCAGAAAACTGTCAGAGG 59.251 47.826 6.91 0.00 0.00 3.69
3288 5697 4.991687 CAGAAAACTGTCAGAGGGAGTAAC 59.008 45.833 6.91 0.00 0.00 2.50
3291 5700 6.553852 AGAAAACTGTCAGAGGGAGTAACTTA 59.446 38.462 6.91 0.00 0.00 2.24
3322 5731 6.761714 AGTTAGAAAACTCAGTACCTTGTGTG 59.238 38.462 0.00 0.00 42.42 3.82
3337 5746 4.362279 CTTGTGTGCATAAATGGCCATAC 58.638 43.478 21.15 13.02 0.00 2.39
3432 5841 8.771920 TCTGTTCAAAGTAATCGTCAATACAT 57.228 30.769 0.00 0.00 0.00 2.29
3439 5848 5.972935 AGTAATCGTCAATACATGTGGTGA 58.027 37.500 9.11 8.87 0.00 4.02
3443 5852 4.242475 TCGTCAATACATGTGGTGACTTC 58.758 43.478 27.46 12.56 38.57 3.01
3466 5875 7.443302 TCCTGATAAGAATCCTTCTCATTGT 57.557 36.000 0.00 0.00 39.61 2.71
3489 5898 8.057536 TGTAGCTCTAAAAACCTTTGTTTCAA 57.942 30.769 0.00 0.00 43.80 2.69
3500 5909 4.142160 ACCTTTGTTTCAACCTCTTTCTGC 60.142 41.667 0.00 0.00 0.00 4.26
3503 5912 4.900635 TGTTTCAACCTCTTTCTGCTTC 57.099 40.909 0.00 0.00 0.00 3.86
3534 5943 0.459489 TTGTCCTTTGTGTGCCTTGC 59.541 50.000 0.00 0.00 0.00 4.01
3544 5953 1.180456 TGTGCCTTGCCAACCATCTG 61.180 55.000 0.00 0.00 0.00 2.90
3547 5956 1.888018 CCTTGCCAACCATCTGCAG 59.112 57.895 7.63 7.63 36.21 4.41
3566 5975 2.100584 CAGTCTCTTCCTCCTTCCGATG 59.899 54.545 0.00 0.00 0.00 3.84
3569 5978 3.055747 GTCTCTTCCTCCTTCCGATGTTT 60.056 47.826 0.00 0.00 0.00 2.83
3572 5981 3.195825 TCTTCCTCCTTCCGATGTTTCTC 59.804 47.826 0.00 0.00 0.00 2.87
3581 5990 0.721718 CGATGTTTCTCGTGAAGCCC 59.278 55.000 10.86 3.44 33.31 5.19
3582 5991 1.673033 CGATGTTTCTCGTGAAGCCCT 60.673 52.381 10.86 0.00 33.31 5.19
3583 5992 2.003301 GATGTTTCTCGTGAAGCCCTC 58.997 52.381 10.86 5.21 33.31 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 5.359860 ACTGTTCCGAGGTCAATTTCTTTTT 59.640 36.000 0.00 0.00 0.00 1.94
28 29 4.887655 ACTGTTCCGAGGTCAATTTCTTTT 59.112 37.500 0.00 0.00 0.00 2.27
29 30 4.461198 ACTGTTCCGAGGTCAATTTCTTT 58.539 39.130 0.00 0.00 0.00 2.52
30 31 4.086706 ACTGTTCCGAGGTCAATTTCTT 57.913 40.909 0.00 0.00 0.00 2.52
31 32 3.771577 ACTGTTCCGAGGTCAATTTCT 57.228 42.857 0.00 0.00 0.00 2.52
32 33 3.933332 CCTACTGTTCCGAGGTCAATTTC 59.067 47.826 0.00 0.00 0.00 2.17
33 34 3.581332 TCCTACTGTTCCGAGGTCAATTT 59.419 43.478 0.00 0.00 0.00 1.82
34 35 3.170717 TCCTACTGTTCCGAGGTCAATT 58.829 45.455 0.00 0.00 0.00 2.32
35 36 2.816411 TCCTACTGTTCCGAGGTCAAT 58.184 47.619 0.00 0.00 0.00 2.57
59 60 5.606348 AGGGATCAGCTACTAGAAACAAG 57.394 43.478 0.00 0.00 0.00 3.16
62 64 8.966069 ATTTAAAGGGATCAGCTACTAGAAAC 57.034 34.615 0.00 0.00 0.00 2.78
101 103 7.040686 GCCAGGAAAAATAGTCTTCACAAAGTA 60.041 37.037 0.00 0.00 33.95 2.24
102 104 6.239036 GCCAGGAAAAATAGTCTTCACAAAGT 60.239 38.462 0.00 0.00 33.95 2.66
103 105 6.152379 GCCAGGAAAAATAGTCTTCACAAAG 58.848 40.000 0.00 0.00 0.00 2.77
105 107 5.009610 GTGCCAGGAAAAATAGTCTTCACAA 59.990 40.000 0.00 0.00 0.00 3.33
107 109 4.082733 GGTGCCAGGAAAAATAGTCTTCAC 60.083 45.833 0.00 0.00 0.00 3.18
108 110 4.079253 GGTGCCAGGAAAAATAGTCTTCA 58.921 43.478 0.00 0.00 0.00 3.02
109 111 4.079253 TGGTGCCAGGAAAAATAGTCTTC 58.921 43.478 0.00 0.00 0.00 2.87
110 112 4.082125 CTGGTGCCAGGAAAAATAGTCTT 58.918 43.478 10.28 0.00 40.17 3.01
111 113 3.690460 CTGGTGCCAGGAAAAATAGTCT 58.310 45.455 10.28 0.00 40.17 3.24
112 114 2.164422 GCTGGTGCCAGGAAAAATAGTC 59.836 50.000 18.73 0.00 43.77 2.59
130 132 0.607217 TGGAACACCAGATGCTGCTG 60.607 55.000 0.00 0.14 35.66 4.41
131 133 1.763120 TGGAACACCAGATGCTGCT 59.237 52.632 0.00 0.00 0.00 4.24
160 162 3.298686 AGGTGATCTCGACCATAGTGA 57.701 47.619 3.73 0.00 35.76 3.41
161 163 4.115516 CAAAGGTGATCTCGACCATAGTG 58.884 47.826 3.73 0.00 35.76 2.74
167 169 2.742589 GGTTTCAAAGGTGATCTCGACC 59.257 50.000 0.00 0.00 32.48 4.79
198 200 1.655329 CTAGGCGAGGCTAAGGACG 59.345 63.158 7.76 0.00 0.00 4.79
207 209 1.203025 AGTATGTACCCCTAGGCGAGG 60.203 57.143 6.69 6.69 46.25 4.63
213 215 6.090483 CTCATGTTGAGTATGTACCCCTAG 57.910 45.833 0.00 0.00 39.58 3.02
268 494 6.718388 CATTTCAGCGATGTTTAGATGCTTA 58.282 36.000 0.00 0.00 32.66 3.09
269 495 5.575957 CATTTCAGCGATGTTTAGATGCTT 58.424 37.500 0.00 0.00 32.66 3.91
270 496 4.497006 GCATTTCAGCGATGTTTAGATGCT 60.497 41.667 16.00 0.00 35.67 3.79
305 531 3.252215 CGAGGTTGTTTGGCATCTTGTAA 59.748 43.478 0.00 0.00 0.00 2.41
307 533 1.608590 CGAGGTTGTTTGGCATCTTGT 59.391 47.619 0.00 0.00 0.00 3.16
393 824 9.071276 ACATTTAATCTTGTTCTCACAATGAGT 57.929 29.630 5.77 0.00 44.58 3.41
418 927 6.202954 AGCGGTGTTTAGATGCTTATTATCAC 59.797 38.462 0.00 0.00 30.27 3.06
420 929 6.423905 TGAGCGGTGTTTAGATGCTTATTATC 59.576 38.462 0.00 0.00 35.73 1.75
432 943 3.058293 TGCTGAATTTGAGCGGTGTTTAG 60.058 43.478 3.40 0.00 39.47 1.85
499 1768 4.244066 CACAGAGTTGAGGTTGAGATCAG 58.756 47.826 0.00 0.00 0.00 2.90
500 1769 3.007290 CCACAGAGTTGAGGTTGAGATCA 59.993 47.826 0.00 0.00 31.18 2.92
505 1774 2.115427 TGACCACAGAGTTGAGGTTGA 58.885 47.619 0.00 0.00 46.54 3.18
512 2120 2.797156 CGAGAAAGTGACCACAGAGTTG 59.203 50.000 2.78 0.00 0.00 3.16
533 2326 2.810650 CTCAACACGGTAGGAGTATGC 58.189 52.381 0.00 0.00 0.00 3.14
537 2330 1.874345 CGGCTCAACACGGTAGGAGT 61.874 60.000 0.00 0.00 0.00 3.85
550 2343 2.038814 TTGGCTTCAGACACGGCTCA 62.039 55.000 0.00 0.00 29.05 4.26
551 2344 0.884704 TTTGGCTTCAGACACGGCTC 60.885 55.000 0.00 0.00 29.05 4.70
642 2436 7.329588 ACTGAAACTTAAAACCACTCGAAAT 57.670 32.000 0.00 0.00 0.00 2.17
644 2438 6.746745 AACTGAAACTTAAAACCACTCGAA 57.253 33.333 0.00 0.00 0.00 3.71
647 2441 7.758495 TCTGAAACTGAAACTTAAAACCACTC 58.242 34.615 0.00 0.00 0.00 3.51
648 2442 7.696992 TCTGAAACTGAAACTTAAAACCACT 57.303 32.000 0.00 0.00 0.00 4.00
649 2443 8.751302 TTTCTGAAACTGAAACTTAAAACCAC 57.249 30.769 0.00 0.00 0.00 4.16
659 2455 6.032460 CGCGGAAATATTTCTGAAACTGAAAC 59.968 38.462 32.15 15.04 44.44 2.78
681 2477 1.149361 TAGTAATTTCGGCAGGCGCG 61.149 55.000 12.43 0.00 39.92 6.86
684 2480 5.500645 AAGATTTAGTAATTTCGGCAGGC 57.499 39.130 0.00 0.00 0.00 4.85
688 2484 7.781548 TCCACTAAGATTTAGTAATTTCGGC 57.218 36.000 1.50 0.00 0.00 5.54
704 2500 7.621428 ACTGAAATCATTGACATCCACTAAG 57.379 36.000 0.00 0.00 0.00 2.18
706 2502 8.408043 AAAACTGAAATCATTGACATCCACTA 57.592 30.769 0.00 0.00 0.00 2.74
714 2510 8.162245 GCCGAAATAAAAACTGAAATCATTGAC 58.838 33.333 0.00 0.00 0.00 3.18
725 2521 4.684242 GTCCTTTGGCCGAAATAAAAACTG 59.316 41.667 6.92 0.00 0.00 3.16
726 2522 4.587262 AGTCCTTTGGCCGAAATAAAAACT 59.413 37.500 6.92 1.31 0.00 2.66
731 2527 3.426787 TCAGTCCTTTGGCCGAAATAA 57.573 42.857 6.92 0.00 0.00 1.40
732 2528 3.426787 TTCAGTCCTTTGGCCGAAATA 57.573 42.857 6.92 0.00 0.00 1.40
866 2662 9.897744 TTGATGAGTTTCACTGAATTTCAATAC 57.102 29.630 0.01 0.00 0.00 1.89
868 2664 9.820725 TTTTGATGAGTTTCACTGAATTTCAAT 57.179 25.926 0.01 0.00 0.00 2.57
869 2665 9.820725 ATTTTGATGAGTTTCACTGAATTTCAA 57.179 25.926 0.01 4.92 0.00 2.69
870 2666 9.467258 GATTTTGATGAGTTTCACTGAATTTCA 57.533 29.630 0.00 0.00 0.00 2.69
871 2667 9.688592 AGATTTTGATGAGTTTCACTGAATTTC 57.311 29.630 0.00 0.00 0.00 2.17
872 2668 9.688592 GAGATTTTGATGAGTTTCACTGAATTT 57.311 29.630 0.00 0.00 0.00 1.82
873 2669 8.853126 TGAGATTTTGATGAGTTTCACTGAATT 58.147 29.630 0.00 0.00 0.00 2.17
874 2670 8.295288 GTGAGATTTTGATGAGTTTCACTGAAT 58.705 33.333 0.00 0.00 32.96 2.57
875 2671 7.282901 TGTGAGATTTTGATGAGTTTCACTGAA 59.717 33.333 0.00 0.00 35.82 3.02
876 2672 6.767423 TGTGAGATTTTGATGAGTTTCACTGA 59.233 34.615 0.00 0.00 35.82 3.41
877 2673 6.962686 TGTGAGATTTTGATGAGTTTCACTG 58.037 36.000 0.00 0.00 35.82 3.66
878 2674 6.994496 TCTGTGAGATTTTGATGAGTTTCACT 59.006 34.615 0.00 0.00 35.82 3.41
879 2675 7.194607 TCTGTGAGATTTTGATGAGTTTCAC 57.805 36.000 0.00 0.00 35.48 3.18
880 2676 7.806409 TTCTGTGAGATTTTGATGAGTTTCA 57.194 32.000 0.00 0.00 0.00 2.69
881 2677 8.348507 ACTTTCTGTGAGATTTTGATGAGTTTC 58.651 33.333 0.00 0.00 0.00 2.78
882 2678 8.230472 ACTTTCTGTGAGATTTTGATGAGTTT 57.770 30.769 0.00 0.00 0.00 2.66
883 2679 7.814264 ACTTTCTGTGAGATTTTGATGAGTT 57.186 32.000 0.00 0.00 0.00 3.01
977 3080 6.119144 TGCACAAGTAGAAAAGTTCAAGAC 57.881 37.500 0.00 0.00 0.00 3.01
1006 3109 4.277515 AGCATACATGACGCCAGATATT 57.722 40.909 0.00 0.00 0.00 1.28
1021 3124 3.861840 TCAGTGGCAGAAAGTAGCATAC 58.138 45.455 0.00 0.00 43.47 2.39
1060 3163 3.645975 CGCGCGGGAAACACAAGT 61.646 61.111 24.84 0.00 0.00 3.16
1138 3241 3.734463 TCTGTCTACGTGCATTTTCCAA 58.266 40.909 0.00 0.00 0.00 3.53
1262 3407 1.200020 GACAATAGCTGGTGTTGGCAC 59.800 52.381 15.97 6.13 44.53 5.01
1494 3641 6.882610 TGCACAAAACACAGAGATAGATTT 57.117 33.333 0.00 0.00 0.00 2.17
1524 3671 3.406595 GAACCCCAGCTCATCCCCG 62.407 68.421 0.00 0.00 0.00 5.73
1573 3720 1.467734 GCTGCAACTGTTGAGATCCAG 59.532 52.381 23.81 19.25 34.82 3.86
1578 3725 0.389025 TCTCGCTGCAACTGTTGAGA 59.611 50.000 23.81 13.66 0.00 3.27
1593 3740 5.712917 AGGTATCTTTAGGGAAGCTATCTCG 59.287 44.000 0.00 0.00 35.24 4.04
1600 3747 3.717392 AGGGAAGGTATCTTTAGGGAAGC 59.283 47.826 0.00 0.00 35.24 3.86
1606 3753 3.118261 TGCAGCAGGGAAGGTATCTTTAG 60.118 47.826 0.00 0.00 32.52 1.85
1914 4124 9.694137 GTACAGAGGTAGTAATAATTAAGGCTG 57.306 37.037 0.00 0.00 0.00 4.85
1969 4189 9.060347 ACTGACCATCTGCATAAAAATATGTAG 57.940 33.333 7.38 7.38 40.18 2.74
2035 4259 7.828223 GCTGAAGATCCATCCAGATATTGTAAT 59.172 37.037 0.00 0.00 28.11 1.89
2037 4261 6.270695 TGCTGAAGATCCATCCAGATATTGTA 59.729 38.462 0.00 0.00 28.11 2.41
2167 4413 5.163893 ACACGCTTGAATTTATTAGTCACGG 60.164 40.000 0.00 0.00 29.11 4.94
2217 4590 1.366319 AGTCATGGTTCTGGCTTCCT 58.634 50.000 0.00 0.00 0.00 3.36
2237 4610 7.340232 CCAAATGTGAGGGATCTTCAAAGATTA 59.660 37.037 6.70 0.00 45.39 1.75
2449 4831 2.355513 CCACAAGAGTAGCCTTGCTCAT 60.356 50.000 0.00 0.00 45.47 2.90
2612 4995 6.090898 ACGCGCCATCTAAAATTATATGACTC 59.909 38.462 5.73 0.00 0.00 3.36
2635 5018 2.184448 CAACAGGTTGAACAAAGCACG 58.816 47.619 6.29 0.00 42.93 5.34
2639 5022 5.925969 AGAACAAACAACAGGTTGAACAAAG 59.074 36.000 18.28 5.12 42.93 2.77
2742 5125 6.513556 CGAGTCGTAATCTCATTACTGACCAT 60.514 42.308 3.82 8.66 42.83 3.55
2765 5148 2.279935 TGCCTTTTCCCTTTTAGCGA 57.720 45.000 0.00 0.00 0.00 4.93
2767 5150 3.118992 CCAGATGCCTTTTCCCTTTTAGC 60.119 47.826 0.00 0.00 0.00 3.09
2768 5151 3.118992 GCCAGATGCCTTTTCCCTTTTAG 60.119 47.826 0.00 0.00 0.00 1.85
2769 5152 2.831526 GCCAGATGCCTTTTCCCTTTTA 59.168 45.455 0.00 0.00 0.00 1.52
2773 5159 4.772678 GCCAGATGCCTTTTCCCT 57.227 55.556 0.00 0.00 0.00 4.20
2822 5208 0.387622 CCGCTGGTCTGCAAAACATG 60.388 55.000 0.00 0.00 0.00 3.21
2838 5224 2.184579 GACTAGAGCCACCACCGC 59.815 66.667 0.00 0.00 0.00 5.68
2847 5233 2.946329 TCTGAATCGAGGTGACTAGAGC 59.054 50.000 0.00 0.00 45.58 4.09
2848 5234 3.003275 GCTCTGAATCGAGGTGACTAGAG 59.997 52.174 0.00 0.00 45.58 2.43
2869 5255 1.670967 GGAAACCTGCTGAATTGCTGC 60.671 52.381 0.00 0.00 41.36 5.25
2887 5273 0.955428 GTCAACCTCATGCTTGCGGA 60.955 55.000 14.98 0.00 31.84 5.54
2889 5275 0.806868 ATGTCAACCTCATGCTTGCG 59.193 50.000 0.00 0.00 0.00 4.85
2890 5276 2.229543 TCAATGTCAACCTCATGCTTGC 59.770 45.455 0.00 0.00 0.00 4.01
2916 5302 4.702612 TGCTAGAGATAGCCTTAGAATCGG 59.297 45.833 4.90 0.00 42.17 4.18
2918 5304 7.201821 GGATCTGCTAGAGATAGCCTTAGAATC 60.202 44.444 4.90 2.69 41.91 2.52
2921 5307 5.505780 GGATCTGCTAGAGATAGCCTTAGA 58.494 45.833 4.90 2.29 41.91 2.10
2929 5315 7.773099 TTAGATAGGGGATCTGCTAGAGATA 57.227 40.000 0.00 0.00 45.05 1.98
2967 5353 4.927425 ACTACTAACCACGTATGTGCAAAG 59.073 41.667 9.72 8.11 45.04 2.77
2979 5365 9.819267 ATGCTCTTTTCTAATACTACTAACCAC 57.181 33.333 0.00 0.00 0.00 4.16
2991 5377 9.896645 TGATAGAACAGAATGCTCTTTTCTAAT 57.103 29.630 12.83 5.34 46.53 1.73
2992 5378 9.896645 ATGATAGAACAGAATGCTCTTTTCTAA 57.103 29.630 12.83 2.50 46.53 2.10
2994 5380 8.804912 AATGATAGAACAGAATGCTCTTTTCT 57.195 30.769 8.80 8.80 38.65 2.52
3046 5433 4.288626 TGGCACTATTACTTTCTCCCACTT 59.711 41.667 0.00 0.00 0.00 3.16
3075 5464 2.108776 TGCCCCAATGATATGAGAAGGG 59.891 50.000 0.00 0.00 36.32 3.95
3100 5489 2.481449 GGGAGTAGTTGTCCATGTAGCG 60.481 54.545 0.00 0.00 35.57 4.26
3158 5547 6.260936 CCTCTGCCATAATATGAGACGTTTTT 59.739 38.462 1.10 0.00 0.00 1.94
3159 5548 5.760253 CCTCTGCCATAATATGAGACGTTTT 59.240 40.000 1.10 0.00 0.00 2.43
3160 5549 5.300752 CCTCTGCCATAATATGAGACGTTT 58.699 41.667 1.10 0.00 0.00 3.60
3161 5550 4.262635 CCCTCTGCCATAATATGAGACGTT 60.263 45.833 1.10 0.00 0.00 3.99
3162 5551 3.259374 CCCTCTGCCATAATATGAGACGT 59.741 47.826 1.10 0.00 0.00 4.34
3163 5552 3.511540 TCCCTCTGCCATAATATGAGACG 59.488 47.826 1.10 0.00 0.00 4.18
3164 5553 4.530161 ACTCCCTCTGCCATAATATGAGAC 59.470 45.833 1.10 0.00 0.00 3.36
3165 5554 4.756564 ACTCCCTCTGCCATAATATGAGA 58.243 43.478 1.10 0.00 0.00 3.27
3166 5555 6.805016 ATACTCCCTCTGCCATAATATGAG 57.195 41.667 1.10 0.00 0.00 2.90
3167 5556 7.901322 AGTAATACTCCCTCTGCCATAATATGA 59.099 37.037 1.10 0.00 0.00 2.15
3168 5557 8.083828 AGTAATACTCCCTCTGCCATAATATG 57.916 38.462 0.00 0.00 0.00 1.78
3169 5558 8.686739 AAGTAATACTCCCTCTGCCATAATAT 57.313 34.615 0.00 0.00 0.00 1.28
3170 5559 8.506196 AAAGTAATACTCCCTCTGCCATAATA 57.494 34.615 0.00 0.00 0.00 0.98
3171 5560 7.394144 AAAGTAATACTCCCTCTGCCATAAT 57.606 36.000 0.00 0.00 0.00 1.28
3172 5561 6.824958 AAAGTAATACTCCCTCTGCCATAA 57.175 37.500 0.00 0.00 0.00 1.90
3173 5562 7.073854 ACTAAAGTAATACTCCCTCTGCCATA 58.926 38.462 0.00 0.00 0.00 2.74
3174 5563 5.905913 ACTAAAGTAATACTCCCTCTGCCAT 59.094 40.000 0.00 0.00 0.00 4.40
3175 5564 5.278061 ACTAAAGTAATACTCCCTCTGCCA 58.722 41.667 0.00 0.00 0.00 4.92
3176 5565 5.873146 ACTAAAGTAATACTCCCTCTGCC 57.127 43.478 0.00 0.00 0.00 4.85
3177 5566 7.710044 GGTTTACTAAAGTAATACTCCCTCTGC 59.290 40.741 3.52 0.00 39.89 4.26
3178 5567 8.755977 TGGTTTACTAAAGTAATACTCCCTCTG 58.244 37.037 3.52 0.00 39.89 3.35
3179 5568 8.906238 TGGTTTACTAAAGTAATACTCCCTCT 57.094 34.615 3.52 0.00 39.89 3.69
3180 5569 9.543783 CATGGTTTACTAAAGTAATACTCCCTC 57.456 37.037 3.52 0.00 39.89 4.30
3181 5570 8.491958 CCATGGTTTACTAAAGTAATACTCCCT 58.508 37.037 2.57 0.00 39.89 4.20
3182 5571 8.488668 TCCATGGTTTACTAAAGTAATACTCCC 58.511 37.037 12.58 1.44 39.89 4.30
3183 5572 9.322773 GTCCATGGTTTACTAAAGTAATACTCC 57.677 37.037 12.58 5.57 39.89 3.85
3184 5573 9.880157 TGTCCATGGTTTACTAAAGTAATACTC 57.120 33.333 12.58 2.22 39.89 2.59
3217 5608 2.016905 AGTAGCCACAAGGAGACACT 57.983 50.000 0.00 0.00 36.89 3.55
3236 5627 0.547712 AGCCCAGTTCCTGCTTCCTA 60.548 55.000 0.00 0.00 29.17 2.94
3243 5634 1.841302 TACCTGCAGCCCAGTTCCTG 61.841 60.000 8.66 0.00 40.06 3.86
3276 5668 9.372369 CTAACTCATTTTAAGTTACTCCCTCTG 57.628 37.037 0.00 0.00 38.00 3.35
3277 5669 9.322769 TCTAACTCATTTTAAGTTACTCCCTCT 57.677 33.333 0.00 0.00 38.00 3.69
3307 5716 5.163723 CCATTTATGCACACAAGGTACTGAG 60.164 44.000 0.00 0.00 40.86 3.35
3319 5728 4.648307 TCAATGTATGGCCATTTATGCACA 59.352 37.500 26.37 20.85 32.81 4.57
3322 5731 4.240096 GCTCAATGTATGGCCATTTATGC 58.760 43.478 26.37 14.89 32.81 3.14
3337 5746 2.029728 CGCTTTAAGGAGACGCTCAATG 59.970 50.000 8.71 0.50 31.08 2.82
3432 5841 5.338381 GGATTCTTATCAGGAAGTCACCACA 60.338 44.000 0.00 0.00 32.09 4.17
3466 5875 7.340999 AGGTTGAAACAAAGGTTTTTAGAGCTA 59.659 33.333 0.00 0.00 46.84 3.32
3489 5898 3.903467 ACCAAAAGAAGCAGAAAGAGGT 58.097 40.909 0.00 0.00 0.00 3.85
3500 5909 7.649306 CACAAAGGACAAGATAACCAAAAGAAG 59.351 37.037 0.00 0.00 0.00 2.85
3503 5912 6.697019 CACACAAAGGACAAGATAACCAAAAG 59.303 38.462 0.00 0.00 0.00 2.27
3534 5943 2.354259 GAAGAGACTGCAGATGGTTGG 58.646 52.381 23.35 0.00 0.00 3.77
3544 5953 0.174617 CGGAAGGAGGAAGAGACTGC 59.825 60.000 0.00 0.00 0.00 4.40
3547 5956 2.104170 ACATCGGAAGGAGGAAGAGAC 58.896 52.381 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.