Multiple sequence alignment - TraesCS2D01G289300

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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 TraesCS2D01G289300 chr2D 100.000 2948 0 0 1 2948 371243647 371240700 0.000000e+00 5445
1 TraesCS2D01G289300 chr2D 97.222 144 2 2 2805 2948 133801610 133801751 2.940000e-60 243
2 TraesCS2D01G289300 chr2D 97.872 141 2 1 2808 2948 312889403 312889264 2.940000e-60 243
3 TraesCS2D01G289300 chr2D 97.203 143 3 1 2806 2948 173019521 173019380 1.060000e-59 241
4 TraesCS2D01G289300 chr2A 93.021 1920 94 20 916 2816 502064576 502062678 0.000000e+00 2767
5 TraesCS2D01G289300 chr2A 90.886 395 15 5 540 929 502066835 502066457 7.290000e-141 510
6 TraesCS2D01G289300 chr2A 91.346 208 13 3 1 203 502068430 502068223 2.240000e-71 279
7 TraesCS2D01G289300 chr2A 79.724 217 35 7 1166 1379 71587239 71587449 6.580000e-32 148
8 TraesCS2D01G289300 chr2B 91.569 1708 90 13 307 1983 440357316 440355632 0.000000e+00 2307
9 TraesCS2D01G289300 chr2B 87.642 793 52 15 2043 2816 440355628 440354863 0.000000e+00 880
10 TraesCS2D01G289300 chr2B 94.326 141 8 0 3 143 440358265 440358125 1.780000e-52 217
11 TraesCS2D01G289300 chr2B 84.409 186 21 7 230 412 1203051 1202871 3.020000e-40 176
12 TraesCS2D01G289300 chr2B 78.182 220 33 12 1166 1379 110370935 110371145 3.080000e-25 126
13 TraesCS2D01G289300 chr3D 86.316 285 38 1 210 494 233202370 233202087 2.850000e-80 309
14 TraesCS2D01G289300 chr3D 98.551 138 2 0 2811 2948 415760170 415760033 8.160000e-61 244
15 TraesCS2D01G289300 chr3D 97.203 143 4 0 2806 2948 154314873 154315015 2.940000e-60 243
16 TraesCS2D01G289300 chr7B 85.106 282 33 5 216 494 240925375 240925650 2.240000e-71 279
17 TraesCS2D01G289300 chr4D 98.551 138 2 0 2811 2948 431997640 431997777 8.160000e-61 244
18 TraesCS2D01G289300 chr4D 96.575 146 4 1 2804 2948 192124052 192124197 1.060000e-59 241
19 TraesCS2D01G289300 chr4D 94.194 155 7 2 2795 2948 390317571 390317418 4.910000e-58 235
20 TraesCS2D01G289300 chr5D 97.222 144 2 1 2805 2948 326990184 326990325 2.940000e-60 243
21 TraesCS2D01G289300 chr3B 87.831 189 23 0 211 399 284406938 284407126 3.820000e-54 222
22 TraesCS2D01G289300 chr7D 88.679 159 18 0 221 379 550550165 550550323 8.340000e-46 195
23 TraesCS2D01G289300 chr5A 84.158 202 30 2 211 411 342235587 342235387 8.340000e-46 195
24 TraesCS2D01G289300 chr4A 85.882 170 22 2 243 411 250822631 250822799 2.330000e-41 180
25 TraesCS2D01G289300 chr6B 86.875 160 20 1 211 370 60226808 60226650 8.400000e-41 178
26 TraesCS2D01G289300 chr6D 86.709 158 21 0 213 370 164539001 164539158 3.020000e-40 176


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 TraesCS2D01G289300 chr2D 371240700 371243647 2947 True 5445.000000 5445 100.000 1 2948 1 chr2D.!!$R3 2947
1 TraesCS2D01G289300 chr2A 502062678 502068430 5752 True 1185.333333 2767 91.751 1 2816 3 chr2A.!!$R1 2815
2 TraesCS2D01G289300 chr2B 440354863 440358265 3402 True 1134.666667 2307 91.179 3 2816 3 chr2B.!!$R2 2813

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
583 2323 0.178767 CCATCATCTTCCGCTGACCA 59.821 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2240 5924 0.321564 TCCGGGAGCAAGATGTTGTG 60.322 55.0 0.0 0.0 35.92 3.33 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
32 33 1.284657 GCATGTGTCTCGATGTCCTG 58.715 55.000 0.00 0.00 0.00 3.86
106 107 2.238353 GCGGCTGCCTGTATATGTG 58.762 57.895 17.92 0.00 33.98 3.21
218 614 9.972106 TTAGTTATCTATAGGGAGTTAGGCTAC 57.028 37.037 0.00 0.00 0.00 3.58
219 615 8.234601 AGTTATCTATAGGGAGTTAGGCTACT 57.765 38.462 0.00 0.00 0.00 2.57
220 616 8.330993 AGTTATCTATAGGGAGTTAGGCTACTC 58.669 40.741 12.76 12.76 43.05 2.59
221 617 6.721843 ATCTATAGGGAGTTAGGCTACTCA 57.278 41.667 19.03 6.05 45.07 3.41
222 618 5.878627 TCTATAGGGAGTTAGGCTACTCAC 58.121 45.833 19.03 16.95 46.69 3.51
225 621 2.458620 GGGAGTTAGGCTACTCACAGT 58.541 52.381 19.03 0.00 45.82 3.55
226 622 2.166664 GGGAGTTAGGCTACTCACAGTG 59.833 54.545 19.03 0.00 45.82 3.66
227 623 3.090037 GGAGTTAGGCTACTCACAGTGA 58.910 50.000 19.03 2.48 45.07 3.41
228 624 3.510360 GGAGTTAGGCTACTCACAGTGAA 59.490 47.826 19.03 0.00 45.07 3.18
229 625 4.381079 GGAGTTAGGCTACTCACAGTGAAG 60.381 50.000 19.03 1.12 45.07 3.02
230 626 4.408276 AGTTAGGCTACTCACAGTGAAGA 58.592 43.478 4.41 0.00 0.00 2.87
231 627 4.461081 AGTTAGGCTACTCACAGTGAAGAG 59.539 45.833 4.41 13.36 37.87 2.85
232 628 2.883026 AGGCTACTCACAGTGAAGAGT 58.117 47.619 20.79 20.79 46.19 3.24
233 629 4.035612 AGGCTACTCACAGTGAAGAGTA 57.964 45.455 20.79 20.79 42.92 2.59
234 630 4.408276 AGGCTACTCACAGTGAAGAGTAA 58.592 43.478 21.70 11.85 44.23 2.24
235 631 4.218852 AGGCTACTCACAGTGAAGAGTAAC 59.781 45.833 21.70 18.79 44.23 2.50
236 632 4.218852 GGCTACTCACAGTGAAGAGTAACT 59.781 45.833 21.70 7.23 44.23 2.24
237 633 5.279056 GGCTACTCACAGTGAAGAGTAACTT 60.279 44.000 21.70 6.97 44.23 2.66
291 1176 2.489329 GTTACTACCTACACAGTGCGGA 59.511 50.000 14.75 0.00 0.00 5.54
292 1177 1.174783 ACTACCTACACAGTGCGGAG 58.825 55.000 14.75 5.26 0.00 4.63
299 1184 3.129813 CCTACACAGTGCGGAGTAACATA 59.870 47.826 0.00 0.00 0.00 2.29
300 1185 3.887621 ACACAGTGCGGAGTAACATAT 57.112 42.857 0.00 0.00 0.00 1.78
303 1188 3.306973 CACAGTGCGGAGTAACATATGTG 59.693 47.826 9.63 0.00 33.18 3.21
304 1189 3.056107 ACAGTGCGGAGTAACATATGTGT 60.056 43.478 9.63 2.63 41.28 3.72
305 1190 3.306973 CAGTGCGGAGTAACATATGTGTG 59.693 47.826 9.63 0.00 38.92 3.82
318 1506 4.273235 ACATATGTGTGGTATCATGCAACG 59.727 41.667 7.78 0.00 37.14 4.10
332 1520 9.878599 GTATCATGCAACGCTTTATTTATTAGT 57.121 29.630 0.00 0.00 0.00 2.24
335 1523 9.284594 TCATGCAACGCTTTATTTATTAGTTTC 57.715 29.630 0.00 0.00 0.00 2.78
413 1601 7.704472 AGCTATTTTACTCAATTCGTCTCTCTG 59.296 37.037 0.00 0.00 0.00 3.35
417 1605 8.833231 TTTTACTCAATTCGTCTCTCTGATTT 57.167 30.769 0.00 0.00 0.00 2.17
484 1948 7.653767 ATTACTTCTGAAGTTACTTTCACCG 57.346 36.000 26.33 0.00 42.81 4.94
493 1957 3.006217 AGTTACTTTCACCGTGGGTAGTC 59.994 47.826 0.00 0.00 32.11 2.59
515 1979 8.485976 AGTCAAGAAAAATGAGCTATCTACAC 57.514 34.615 0.00 0.00 0.00 2.90
526 1990 2.297597 GCTATCTACACCTGTAGCCCAG 59.702 54.545 7.49 5.80 45.69 4.45
581 2321 1.162800 GCCCATCATCTTCCGCTGAC 61.163 60.000 0.00 0.00 0.00 3.51
582 2322 0.533755 CCCATCATCTTCCGCTGACC 60.534 60.000 0.00 0.00 0.00 4.02
583 2323 0.178767 CCATCATCTTCCGCTGACCA 59.821 55.000 0.00 0.00 0.00 4.02
584 2324 1.579698 CATCATCTTCCGCTGACCAG 58.420 55.000 0.00 0.00 0.00 4.00
585 2325 1.137675 CATCATCTTCCGCTGACCAGA 59.862 52.381 0.47 0.00 0.00 3.86
586 2326 1.266178 TCATCTTCCGCTGACCAGAA 58.734 50.000 0.47 0.00 0.00 3.02
587 2327 1.623311 TCATCTTCCGCTGACCAGAAA 59.377 47.619 0.47 0.00 0.00 2.52
588 2328 2.038426 TCATCTTCCGCTGACCAGAAAA 59.962 45.455 0.47 0.00 0.00 2.29
589 2329 2.169832 TCTTCCGCTGACCAGAAAAG 57.830 50.000 0.47 1.56 0.00 2.27
590 2330 1.416401 TCTTCCGCTGACCAGAAAAGT 59.584 47.619 0.47 0.00 0.00 2.66
591 2331 2.631062 TCTTCCGCTGACCAGAAAAGTA 59.369 45.455 0.47 0.00 0.00 2.24
592 2332 2.450609 TCCGCTGACCAGAAAAGTAC 57.549 50.000 0.47 0.00 0.00 2.73
593 2333 1.068474 CCGCTGACCAGAAAAGTACG 58.932 55.000 0.47 0.00 0.00 3.67
650 2390 0.615261 TATACATATCCGGCCGGCCA 60.615 55.000 42.78 28.30 35.37 5.36
688 2428 2.047213 AACCCAGTCTTCCGGCGAAA 62.047 55.000 9.30 0.00 0.00 3.46
718 2458 3.713288 CAATAGTCATAGAAACGCCCGA 58.287 45.455 0.00 0.00 0.00 5.14
750 2490 3.624831 GAAAAACGACGGCGAGCGG 62.625 63.158 22.49 9.92 41.64 5.52
758 2498 2.584970 CGGCGAGCGGCTTATTCA 60.585 61.111 14.40 0.00 42.94 2.57
782 2522 1.736645 CTGGTCGGCGATCGTTGTT 60.737 57.895 14.79 0.00 40.32 2.83
837 2577 1.376037 CAAGGCTCCCCGACACTTC 60.376 63.158 0.00 0.00 35.76 3.01
937 4576 6.198591 CACAAGCCTAGTACTATAAAACGAGC 59.801 42.308 2.33 0.00 0.00 5.03
1077 4744 5.301045 GCCTACCTTTTCCAGTTTTTGTACT 59.699 40.000 0.00 0.00 0.00 2.73
1952 5627 4.526970 GGCATCTTCAAGGAGTAATGGAA 58.473 43.478 0.00 0.00 0.00 3.53
1964 5639 4.448060 GGAGTAATGGAAACCGATCGATTC 59.552 45.833 18.66 19.03 31.40 2.52
2007 5682 4.577152 CACATGGTGTGGTGTGGT 57.423 55.556 0.00 0.00 44.27 4.16
2022 5697 0.727398 GTGGTTGCTTAGCGGCTTAG 59.273 55.000 8.26 10.14 0.00 2.18
2039 5714 3.795342 GCGCCGTACGTGCCATTT 61.795 61.111 15.21 0.00 46.11 2.32
2040 5715 2.454464 GCGCCGTACGTGCCATTTA 61.454 57.895 15.21 0.00 46.11 1.40
2041 5716 1.345856 CGCCGTACGTGCCATTTAC 59.654 57.895 15.21 0.00 36.87 2.01
2069 5744 6.092955 ACTATTTATGTCGCTTTATCGGGA 57.907 37.500 0.00 0.00 0.00 5.14
2071 5746 3.380479 TTATGTCGCTTTATCGGGAGG 57.620 47.619 0.00 0.00 0.00 4.30
2249 5933 2.359900 GCTCCGGAATTCACAACATCT 58.640 47.619 5.23 0.00 0.00 2.90
2250 5934 2.749621 GCTCCGGAATTCACAACATCTT 59.250 45.455 5.23 0.00 0.00 2.40
2251 5935 3.426695 GCTCCGGAATTCACAACATCTTG 60.427 47.826 5.23 0.00 0.00 3.02
2252 5936 2.487762 TCCGGAATTCACAACATCTTGC 59.512 45.455 0.00 0.00 0.00 4.01
2253 5937 2.489329 CCGGAATTCACAACATCTTGCT 59.511 45.455 7.93 0.00 0.00 3.91
2254 5938 3.426695 CCGGAATTCACAACATCTTGCTC 60.427 47.826 7.93 0.00 0.00 4.26
2255 5939 3.426695 CGGAATTCACAACATCTTGCTCC 60.427 47.826 7.93 0.00 0.00 4.70
2256 5940 3.119352 GGAATTCACAACATCTTGCTCCC 60.119 47.826 7.93 0.00 0.00 4.30
2257 5941 1.522668 TTCACAACATCTTGCTCCCG 58.477 50.000 0.00 0.00 0.00 5.14
2259 5943 0.321564 CACAACATCTTGCTCCCGGA 60.322 55.000 0.73 0.00 0.00 5.14
2260 5944 0.400213 ACAACATCTTGCTCCCGGAA 59.600 50.000 0.73 0.00 0.00 4.30
2292 5979 3.123620 GTTGGCCGAGCAGCTGAG 61.124 66.667 20.43 7.63 0.00 3.35
2293 5980 4.399395 TTGGCCGAGCAGCTGAGG 62.399 66.667 20.43 17.75 0.00 3.86
2311 5998 3.155167 GTAGCTACCAGCCCGCCT 61.155 66.667 13.20 0.00 43.77 5.52
2397 6087 2.178912 TAGCCTTTTGGTTGGTCTCG 57.821 50.000 0.00 0.00 42.99 4.04
2402 6092 3.677700 GCCTTTTGGTTGGTCTCGTTTTT 60.678 43.478 0.00 0.00 42.99 1.94
2404 6094 5.652518 CCTTTTGGTTGGTCTCGTTTTTAA 58.347 37.500 0.00 0.00 34.07 1.52
2405 6095 5.746721 CCTTTTGGTTGGTCTCGTTTTTAAG 59.253 40.000 0.00 0.00 34.07 1.85
2406 6096 5.900865 TTTGGTTGGTCTCGTTTTTAAGT 57.099 34.783 0.00 0.00 0.00 2.24
2407 6097 6.998968 TTTGGTTGGTCTCGTTTTTAAGTA 57.001 33.333 0.00 0.00 0.00 2.24
2408 6098 5.989551 TGGTTGGTCTCGTTTTTAAGTAC 57.010 39.130 0.00 0.00 0.00 2.73
2409 6099 5.673514 TGGTTGGTCTCGTTTTTAAGTACT 58.326 37.500 0.00 0.00 0.00 2.73
2411 6101 6.598850 TGGTTGGTCTCGTTTTTAAGTACTTT 59.401 34.615 14.49 0.00 0.00 2.66
2412 6102 7.121020 TGGTTGGTCTCGTTTTTAAGTACTTTT 59.879 33.333 14.49 0.00 0.00 2.27
2446 6136 5.526111 TGTTGCTCTAGGAAGTTTGTAACAC 59.474 40.000 0.00 0.00 0.00 3.32
2451 6141 6.585695 TCTAGGAAGTTTGTAACACGAGAT 57.414 37.500 0.00 0.00 0.00 2.75
2479 6169 2.524148 GGGTTTGCTTGCACCCCT 60.524 61.111 17.49 0.00 46.50 4.79
2546 6236 6.559810 CATTTAGTTGTGACCTGTTGTTTGA 58.440 36.000 0.00 0.00 0.00 2.69
2554 6244 5.126869 TGTGACCTGTTGTTTGAAACATGAT 59.873 36.000 11.97 0.00 41.79 2.45
2625 6316 5.123027 GGTTGCAACCTTCAAAACATTTTCA 59.877 36.000 36.26 0.00 45.75 2.69
2641 6332 2.949451 TTCAACCATTGCAACGTGTT 57.051 40.000 0.00 2.52 0.00 3.32
2674 6365 1.597027 CAACAACTCCCTTCGCCGT 60.597 57.895 0.00 0.00 0.00 5.68
2695 6386 1.344191 GGCTCCTCTCCTCATGCCTT 61.344 60.000 0.00 0.00 37.58 4.35
2708 6399 2.049063 GCCTTCTCGCACGTGACT 60.049 61.111 22.23 0.00 0.00 3.41
2776 6467 2.989639 CCGTGGAGCAAGGGATCA 59.010 61.111 0.00 0.00 29.60 2.92
2806 6497 1.788229 TGACCAAGATCTATCGCCCA 58.212 50.000 0.00 0.00 0.00 5.36
2809 6500 0.758734 CCAAGATCTATCGCCCACCA 59.241 55.000 0.00 0.00 0.00 4.17
2816 6507 1.899437 CTATCGCCCACCACCACTGT 61.899 60.000 0.00 0.00 0.00 3.55
2817 6508 2.178876 TATCGCCCACCACCACTGTG 62.179 60.000 0.00 0.00 42.39 3.66
2818 6509 4.562425 CGCCCACCACCACTGTGT 62.562 66.667 7.08 0.00 41.09 3.72
2819 6510 2.833227 GCCCACCACCACTGTGTA 59.167 61.111 7.08 0.00 41.09 2.90
2820 6511 1.149627 GCCCACCACCACTGTGTAA 59.850 57.895 7.08 0.00 41.09 2.41
2821 6512 0.251165 GCCCACCACCACTGTGTAAT 60.251 55.000 7.08 0.00 41.09 1.89
2822 6513 1.533625 CCCACCACCACTGTGTAATG 58.466 55.000 7.08 2.34 41.09 1.90
2823 6514 0.881118 CCACCACCACTGTGTAATGC 59.119 55.000 7.08 0.00 41.09 3.56
2824 6515 0.881118 CACCACCACTGTGTAATGCC 59.119 55.000 7.08 0.00 41.09 4.40
2825 6516 0.251165 ACCACCACTGTGTAATGCCC 60.251 55.000 7.08 0.00 41.09 5.36
2826 6517 0.251121 CCACCACTGTGTAATGCCCA 60.251 55.000 7.08 0.00 41.09 5.36
2827 6518 0.881118 CACCACTGTGTAATGCCCAC 59.119 55.000 7.08 0.00 37.72 4.61
2828 6519 0.605319 ACCACTGTGTAATGCCCACG 60.605 55.000 7.08 0.00 35.56 4.94
2829 6520 0.321210 CCACTGTGTAATGCCCACGA 60.321 55.000 7.08 0.00 35.56 4.35
2830 6521 1.678728 CCACTGTGTAATGCCCACGAT 60.679 52.381 7.08 0.00 35.56 3.73
2831 6522 1.398041 CACTGTGTAATGCCCACGATG 59.602 52.381 0.00 0.00 35.56 3.84
2832 6523 0.378257 CTGTGTAATGCCCACGATGC 59.622 55.000 0.00 0.00 35.56 3.91
2833 6524 1.351707 GTGTAATGCCCACGATGCG 59.648 57.895 0.00 0.00 0.00 4.73
2834 6525 1.817520 TGTAATGCCCACGATGCGG 60.818 57.895 0.00 0.00 0.00 5.69
2835 6526 2.899838 TAATGCCCACGATGCGGC 60.900 61.111 0.00 0.00 45.92 6.53
2836 6527 3.399105 TAATGCCCACGATGCGGCT 62.399 57.895 0.00 0.00 45.90 5.52
2837 6528 2.034048 TAATGCCCACGATGCGGCTA 62.034 55.000 0.00 0.00 45.90 3.93
2838 6529 2.680974 AATGCCCACGATGCGGCTAT 62.681 55.000 0.00 0.00 45.90 2.97
2839 6530 1.826340 ATGCCCACGATGCGGCTATA 61.826 55.000 0.00 0.00 45.90 1.31
2840 6531 1.079127 GCCCACGATGCGGCTATAT 60.079 57.895 0.00 0.00 42.21 0.86
2841 6532 1.084370 GCCCACGATGCGGCTATATC 61.084 60.000 0.00 0.00 42.21 1.63
2842 6533 0.532573 CCCACGATGCGGCTATATCT 59.467 55.000 0.00 0.00 0.00 1.98
2843 6534 1.469940 CCCACGATGCGGCTATATCTC 60.470 57.143 0.00 0.00 0.00 2.75
2844 6535 1.469940 CCACGATGCGGCTATATCTCC 60.470 57.143 0.00 0.00 0.00 3.71
2845 6536 0.818296 ACGATGCGGCTATATCTCCC 59.182 55.000 0.00 0.00 0.00 4.30
2846 6537 0.817654 CGATGCGGCTATATCTCCCA 59.182 55.000 0.00 0.00 0.00 4.37
2847 6538 1.469940 CGATGCGGCTATATCTCCCAC 60.470 57.143 0.00 0.00 0.00 4.61
2848 6539 0.532573 ATGCGGCTATATCTCCCACG 59.467 55.000 0.00 0.00 0.00 4.94
2849 6540 0.826256 TGCGGCTATATCTCCCACGT 60.826 55.000 0.00 0.00 0.00 4.49
2850 6541 0.388649 GCGGCTATATCTCCCACGTG 60.389 60.000 9.08 9.08 0.00 4.49
2851 6542 0.959553 CGGCTATATCTCCCACGTGT 59.040 55.000 15.65 0.00 0.00 4.49
2852 6543 1.068472 CGGCTATATCTCCCACGTGTC 60.068 57.143 15.65 0.00 0.00 3.67
2853 6544 1.068472 GGCTATATCTCCCACGTGTCG 60.068 57.143 15.65 4.04 0.00 4.35
2854 6545 1.878088 GCTATATCTCCCACGTGTCGA 59.122 52.381 15.65 8.55 0.00 4.20
2855 6546 2.095668 GCTATATCTCCCACGTGTCGAG 60.096 54.545 15.65 17.66 0.00 4.04
2856 6547 1.319541 ATATCTCCCACGTGTCGAGG 58.680 55.000 22.62 14.20 37.35 4.63
2857 6548 1.381928 TATCTCCCACGTGTCGAGGC 61.382 60.000 22.62 0.00 36.35 4.70
2858 6549 3.680786 CTCCCACGTGTCGAGGCA 61.681 66.667 15.65 0.00 36.35 4.75
2859 6550 3.916392 CTCCCACGTGTCGAGGCAC 62.916 68.421 15.65 0.00 36.35 5.01
2869 6560 2.478989 TCGAGGCACGACTTAGAGG 58.521 57.895 2.07 0.00 46.45 3.69
2870 6561 1.226717 CGAGGCACGACTTAGAGGC 60.227 63.158 0.00 0.00 45.77 4.70
2871 6562 1.890894 GAGGCACGACTTAGAGGCA 59.109 57.895 0.00 0.00 0.00 4.75
2872 6563 0.461961 GAGGCACGACTTAGAGGCAT 59.538 55.000 0.00 0.00 0.00 4.40
2873 6564 1.681793 GAGGCACGACTTAGAGGCATA 59.318 52.381 0.00 0.00 0.00 3.14
2874 6565 2.100916 GAGGCACGACTTAGAGGCATAA 59.899 50.000 0.00 0.00 0.00 1.90
2875 6566 2.159085 AGGCACGACTTAGAGGCATAAC 60.159 50.000 0.00 0.00 0.00 1.89
2876 6567 2.202566 GCACGACTTAGAGGCATAACC 58.797 52.381 0.00 0.00 39.61 2.85
2877 6568 2.460918 CACGACTTAGAGGCATAACCG 58.539 52.381 0.00 0.00 46.52 4.44
2878 6569 1.202382 ACGACTTAGAGGCATAACCGC 60.202 52.381 0.00 0.00 46.52 5.68
2879 6570 1.202371 CGACTTAGAGGCATAACCGCA 60.202 52.381 0.00 0.00 46.52 5.69
2880 6571 2.545952 CGACTTAGAGGCATAACCGCAT 60.546 50.000 0.00 0.00 46.52 4.73
2881 6572 3.305131 CGACTTAGAGGCATAACCGCATA 60.305 47.826 0.00 0.00 46.52 3.14
2882 6573 4.238514 GACTTAGAGGCATAACCGCATAG 58.761 47.826 0.00 0.00 46.52 2.23
2883 6574 3.641906 ACTTAGAGGCATAACCGCATAGT 59.358 43.478 0.00 0.00 46.52 2.12
2884 6575 2.533266 AGAGGCATAACCGCATAGTG 57.467 50.000 0.00 0.00 46.52 2.74
2885 6576 1.070758 AGAGGCATAACCGCATAGTGG 59.929 52.381 0.00 0.00 46.52 4.00
2893 6584 1.153353 ACCGCATAGTGGTTTTGTCG 58.847 50.000 0.00 0.00 44.78 4.35
2894 6585 0.179200 CCGCATAGTGGTTTTGTCGC 60.179 55.000 0.00 0.00 0.00 5.19
2895 6586 0.515127 CGCATAGTGGTTTTGTCGCA 59.485 50.000 0.00 0.00 0.00 5.10
2896 6587 1.069568 CGCATAGTGGTTTTGTCGCAA 60.070 47.619 0.00 0.00 0.00 4.85
2897 6588 2.584791 GCATAGTGGTTTTGTCGCAAG 58.415 47.619 0.00 0.00 0.00 4.01
2908 6599 3.694746 TCGCAAGACGGGTCATCT 58.305 55.556 1.17 0.00 45.01 2.90
2909 6600 1.972198 TCGCAAGACGGGTCATCTT 59.028 52.632 1.17 0.00 45.01 2.40
2910 6601 0.108804 TCGCAAGACGGGTCATCTTC 60.109 55.000 1.17 0.00 45.01 2.87
2911 6602 0.389817 CGCAAGACGGGTCATCTTCA 60.390 55.000 1.17 0.00 43.02 3.02
2912 6603 1.079503 GCAAGACGGGTCATCTTCAC 58.920 55.000 1.17 0.00 34.08 3.18
2913 6604 1.608025 GCAAGACGGGTCATCTTCACA 60.608 52.381 1.17 0.00 34.08 3.58
2914 6605 2.069273 CAAGACGGGTCATCTTCACAC 58.931 52.381 1.17 0.00 34.08 3.82
2915 6606 1.338107 AGACGGGTCATCTTCACACA 58.662 50.000 1.17 0.00 0.00 3.72
2916 6607 1.691976 AGACGGGTCATCTTCACACAA 59.308 47.619 1.17 0.00 0.00 3.33
2917 6608 2.303022 AGACGGGTCATCTTCACACAAT 59.697 45.455 1.17 0.00 0.00 2.71
2918 6609 2.673368 GACGGGTCATCTTCACACAATC 59.327 50.000 0.00 0.00 0.00 2.67
2919 6610 2.009774 CGGGTCATCTTCACACAATCC 58.990 52.381 0.00 0.00 0.00 3.01
2920 6611 2.369394 GGGTCATCTTCACACAATCCC 58.631 52.381 0.00 0.00 0.00 3.85
2921 6612 2.290896 GGGTCATCTTCACACAATCCCA 60.291 50.000 0.00 0.00 33.33 4.37
2922 6613 3.624777 GGTCATCTTCACACAATCCCAT 58.375 45.455 0.00 0.00 0.00 4.00
2923 6614 3.379372 GGTCATCTTCACACAATCCCATG 59.621 47.826 0.00 0.00 0.00 3.66
2924 6615 4.012374 GTCATCTTCACACAATCCCATGT 58.988 43.478 0.00 0.00 0.00 3.21
2925 6616 5.185454 GTCATCTTCACACAATCCCATGTA 58.815 41.667 0.00 0.00 30.84 2.29
2926 6617 5.647658 GTCATCTTCACACAATCCCATGTAA 59.352 40.000 0.00 0.00 30.84 2.41
2927 6618 6.319658 GTCATCTTCACACAATCCCATGTAAT 59.680 38.462 0.00 0.00 30.84 1.89
2928 6619 6.319405 TCATCTTCACACAATCCCATGTAATG 59.681 38.462 0.00 0.00 46.21 1.90
2947 6638 9.699410 ATGTAATGAACAAGAATGGGATAAAGA 57.301 29.630 0.00 0.00 42.70 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 0.169009 TCGAGACACATGCGACTGAG 59.831 55.000 0.00 0.00 0.00 3.35
32 33 1.221414 GCTTCACTGTGACACTGACC 58.779 55.000 18.22 0.40 0.00 4.02
71 72 3.741476 CCGGCTGCCTGTCAAAGC 61.741 66.667 17.92 0.00 36.17 3.51
106 107 0.508641 CGGCTACATATGCGCAGTTC 59.491 55.000 18.32 4.13 0.00 3.01
150 540 6.438763 AGCTACTTTTATTGTTTGTGAGTGC 58.561 36.000 0.00 0.00 0.00 4.40
196 592 8.108364 GTGAGTAGCCTAACTCCCTATAGATAA 58.892 40.741 0.00 0.00 44.40 1.75
203 599 3.268856 ACTGTGAGTAGCCTAACTCCCTA 59.731 47.826 8.51 0.00 44.40 3.53
205 601 2.166664 CACTGTGAGTAGCCTAACTCCC 59.833 54.545 0.32 0.00 44.40 4.30
211 607 4.035612 ACTCTTCACTGTGAGTAGCCTA 57.964 45.455 10.77 0.00 41.19 3.93
212 608 2.883026 ACTCTTCACTGTGAGTAGCCT 58.117 47.619 10.77 0.00 41.19 4.58
213 609 4.218852 AGTTACTCTTCACTGTGAGTAGCC 59.781 45.833 10.77 5.34 43.35 3.93
214 610 5.379732 AGTTACTCTTCACTGTGAGTAGC 57.620 43.478 10.77 11.41 43.74 3.58
226 622 8.533153 GCATGTTACTAATCGAAGTTACTCTTC 58.467 37.037 7.64 0.00 46.39 2.87
227 623 8.033038 TGCATGTTACTAATCGAAGTTACTCTT 58.967 33.333 7.64 0.00 39.32 2.85
228 624 7.544622 TGCATGTTACTAATCGAAGTTACTCT 58.455 34.615 7.64 0.00 31.82 3.24
229 625 7.751047 TGCATGTTACTAATCGAAGTTACTC 57.249 36.000 7.64 0.21 31.82 2.59
230 626 9.982651 ATATGCATGTTACTAATCGAAGTTACT 57.017 29.630 10.16 0.00 31.82 2.24
261 896 8.828644 CACTGTGTAGGTAGTAACATAGACTAG 58.171 40.741 0.00 0.00 37.14 2.57
270 905 2.489329 TCCGCACTGTGTAGGTAGTAAC 59.511 50.000 18.80 0.00 0.00 2.50
291 1176 6.591001 TGCATGATACCACACATATGTTACT 58.409 36.000 5.37 0.00 36.72 2.24
292 1177 6.859420 TGCATGATACCACACATATGTTAC 57.141 37.500 5.37 0.00 36.72 2.50
299 1184 1.401552 GCGTTGCATGATACCACACAT 59.598 47.619 0.00 0.00 0.00 3.21
300 1185 0.801872 GCGTTGCATGATACCACACA 59.198 50.000 0.00 0.00 0.00 3.72
303 1188 2.919666 AAAGCGTTGCATGATACCAC 57.080 45.000 0.00 0.00 0.00 4.16
304 1189 5.574891 AAATAAAGCGTTGCATGATACCA 57.425 34.783 0.00 0.00 0.00 3.25
305 1190 9.329913 CTAATAAATAAAGCGTTGCATGATACC 57.670 33.333 0.00 0.00 0.00 2.73
340 1528 9.761504 ACATCACACATATTAAGAGAAGATGAG 57.238 33.333 0.00 0.00 34.73 2.90
385 1573 9.176181 GAGAGACGAATTGAGTAAAATAGCTAG 57.824 37.037 0.00 0.00 0.00 3.42
393 1581 9.923143 TTAAATCAGAGAGACGAATTGAGTAAA 57.077 29.630 0.00 0.00 0.00 2.01
405 1593 8.948631 TGTGGTAATGATTAAATCAGAGAGAC 57.051 34.615 0.00 0.00 43.53 3.36
460 1924 7.170998 CACGGTGAAAGTAACTTCAGAAGTAAT 59.829 37.037 16.46 4.53 41.91 1.89
462 1926 5.981315 CACGGTGAAAGTAACTTCAGAAGTA 59.019 40.000 16.46 2.69 41.91 2.24
466 1930 3.493699 CCCACGGTGAAAGTAACTTCAGA 60.494 47.826 10.28 0.00 36.01 3.27
468 1932 2.171027 ACCCACGGTGAAAGTAACTTCA 59.829 45.455 10.28 0.00 32.98 3.02
472 1936 3.243839 TGACTACCCACGGTGAAAGTAAC 60.244 47.826 10.28 6.36 36.19 2.50
479 1943 1.707106 TTCTTGACTACCCACGGTGA 58.293 50.000 10.28 0.00 36.19 4.02
480 1944 2.536761 TTTCTTGACTACCCACGGTG 57.463 50.000 0.00 0.00 36.19 4.94
483 1947 4.378459 GCTCATTTTTCTTGACTACCCACG 60.378 45.833 0.00 0.00 0.00 4.94
484 1948 4.762251 AGCTCATTTTTCTTGACTACCCAC 59.238 41.667 0.00 0.00 0.00 4.61
493 1957 7.335422 ACAGGTGTAGATAGCTCATTTTTCTTG 59.665 37.037 0.00 0.00 0.00 3.02
526 1990 1.039233 TAGGCTACGCACCAGGTACC 61.039 60.000 2.73 2.73 0.00 3.34
531 1998 1.141881 CCACTAGGCTACGCACCAG 59.858 63.158 0.00 0.00 0.00 4.00
581 2321 3.564225 ACTTTTCTGGCGTACTTTTCTGG 59.436 43.478 0.00 0.00 0.00 3.86
582 2322 4.813296 ACTTTTCTGGCGTACTTTTCTG 57.187 40.909 0.00 0.00 0.00 3.02
583 2323 4.446719 CGTACTTTTCTGGCGTACTTTTCT 59.553 41.667 0.00 0.00 33.22 2.52
584 2324 4.695200 CGTACTTTTCTGGCGTACTTTTC 58.305 43.478 0.00 0.00 33.22 2.29
585 2325 3.059393 GCGTACTTTTCTGGCGTACTTTT 60.059 43.478 0.00 0.00 33.22 2.27
586 2326 2.477754 GCGTACTTTTCTGGCGTACTTT 59.522 45.455 0.00 0.00 33.22 2.66
587 2327 2.064014 GCGTACTTTTCTGGCGTACTT 58.936 47.619 0.00 0.00 33.22 2.24
588 2328 1.000060 TGCGTACTTTTCTGGCGTACT 60.000 47.619 0.00 0.00 33.22 2.73
589 2329 1.125566 GTGCGTACTTTTCTGGCGTAC 59.874 52.381 0.00 0.00 0.00 3.67
590 2330 1.421382 GTGCGTACTTTTCTGGCGTA 58.579 50.000 0.00 0.00 0.00 4.42
591 2331 1.554042 CGTGCGTACTTTTCTGGCGT 61.554 55.000 1.24 0.00 0.00 5.68
592 2332 1.129809 CGTGCGTACTTTTCTGGCG 59.870 57.895 1.24 0.00 0.00 5.69
593 2333 1.154469 GCGTGCGTACTTTTCTGGC 60.154 57.895 1.24 0.00 0.00 4.85
672 2412 2.624169 TTTTTCGCCGGAAGACTGG 58.376 52.632 5.05 0.00 44.87 4.00
695 2435 3.467803 GGGCGTTTCTATGACTATTGCT 58.532 45.455 0.00 0.00 0.00 3.91
696 2436 2.221055 CGGGCGTTTCTATGACTATTGC 59.779 50.000 0.00 0.00 0.00 3.56
697 2437 3.713288 TCGGGCGTTTCTATGACTATTG 58.287 45.455 0.00 0.00 0.00 1.90
698 2438 4.307432 CATCGGGCGTTTCTATGACTATT 58.693 43.478 0.00 0.00 0.00 1.73
700 2440 2.035449 CCATCGGGCGTTTCTATGACTA 59.965 50.000 0.00 0.00 0.00 2.59
701 2441 1.202533 CCATCGGGCGTTTCTATGACT 60.203 52.381 0.00 0.00 0.00 3.41
702 2442 1.202486 TCCATCGGGCGTTTCTATGAC 60.202 52.381 0.00 0.00 0.00 3.06
703 2443 1.116308 TCCATCGGGCGTTTCTATGA 58.884 50.000 0.00 0.00 0.00 2.15
704 2444 2.169832 ATCCATCGGGCGTTTCTATG 57.830 50.000 0.00 0.00 0.00 2.23
718 2458 5.526111 CGTCGTTTTTCCCTGTAATATCCAT 59.474 40.000 0.00 0.00 0.00 3.41
750 2490 2.271800 CGACCAGTGTCCTGAATAAGC 58.728 52.381 0.00 0.00 41.50 3.09
758 2498 2.680352 ATCGCCGACCAGTGTCCT 60.680 61.111 0.00 0.00 38.32 3.85
837 2577 0.666577 GTTCGATATTCGCCTCCCGG 60.667 60.000 0.00 0.00 40.21 5.73
937 4576 1.227823 TGACACAAAGCCCTCGTGG 60.228 57.895 0.00 0.00 34.91 4.94
972 4611 7.064728 GGAGCTAACCTTGATTAACTTGTACTG 59.935 40.741 0.00 0.00 0.00 2.74
1077 4744 6.112058 TGCATACATAGCAAGTATCAACACA 58.888 36.000 0.00 0.00 39.39 3.72
1128 4803 4.069304 TGACAAATTAACCCTCACCTTCG 58.931 43.478 0.00 0.00 0.00 3.79
1384 5059 2.584608 CTTCCCGAACCTGGCGAT 59.415 61.111 0.00 0.00 0.00 4.58
1689 5364 0.391661 AGATGCAGTTGACGCGGATT 60.392 50.000 12.47 0.00 0.00 3.01
1952 5627 5.597806 TGCATAGTTTAGAATCGATCGGTT 58.402 37.500 14.67 14.67 0.00 4.44
1964 5639 3.496130 CGAGCCTTGGATGCATAGTTTAG 59.504 47.826 0.00 0.00 0.00 1.85
2003 5678 0.727398 CTAAGCCGCTAAGCAACCAC 59.273 55.000 0.00 0.00 34.23 4.16
2004 5679 1.024579 GCTAAGCCGCTAAGCAACCA 61.025 55.000 0.00 0.00 36.26 3.67
2005 5680 1.722082 GCTAAGCCGCTAAGCAACC 59.278 57.895 0.00 0.00 36.26 3.77
2006 5681 1.348594 CGCTAAGCCGCTAAGCAAC 59.651 57.895 0.00 0.00 35.98 4.17
2007 5682 3.794270 CGCTAAGCCGCTAAGCAA 58.206 55.556 0.00 0.00 35.98 3.91
2022 5697 2.454464 TAAATGGCACGTACGGCGC 61.454 57.895 21.06 20.45 46.11 6.53
2040 5715 9.823098 CGATAAAGCGACATAAATAGTACTAGT 57.177 33.333 8.85 2.42 0.00 2.57
2041 5716 9.275231 CCGATAAAGCGACATAAATAGTACTAG 57.725 37.037 8.85 0.00 0.00 2.57
2069 5744 5.888982 ATCACGTTGGAGGTATATTTCCT 57.111 39.130 6.93 0.00 38.09 3.36
2071 5746 6.199393 GCAAATCACGTTGGAGGTATATTTC 58.801 40.000 0.00 0.00 0.00 2.17
2179 5863 4.776322 CGCCGGATCCAACTGCCA 62.776 66.667 13.41 0.00 0.00 4.92
2208 5892 2.202690 TAACGCGGCACAGATCGG 60.203 61.111 12.47 0.00 0.00 4.18
2240 5924 0.321564 TCCGGGAGCAAGATGTTGTG 60.322 55.000 0.00 0.00 35.92 3.33
2288 5975 1.403687 GGGCTGGTAGCTACCCTCAG 61.404 65.000 34.76 26.78 45.87 3.35
2290 5977 2.499827 CGGGCTGGTAGCTACCCTC 61.500 68.421 34.76 25.89 45.87 4.30
2291 5978 2.444140 CGGGCTGGTAGCTACCCT 60.444 66.667 34.76 0.00 45.87 4.34
2292 5979 4.237207 GCGGGCTGGTAGCTACCC 62.237 72.222 34.76 22.37 45.87 3.69
2293 5980 4.237207 GGCGGGCTGGTAGCTACC 62.237 72.222 32.37 32.37 46.62 3.18
2309 5996 3.121030 CCGAGGCTCAAACGCAGG 61.121 66.667 15.95 1.39 0.00 4.85
2380 6068 1.029681 AACGAGACCAACCAAAAGGC 58.970 50.000 0.00 0.00 0.00 4.35
2386 6076 5.673514 AGTACTTAAAAACGAGACCAACCA 58.326 37.500 0.00 0.00 0.00 3.67
2436 6126 3.306166 AGCGCATATCTCGTGTTACAAAC 59.694 43.478 11.47 0.00 0.00 2.93
2446 6136 0.532862 ACCCCAAAGCGCATATCTCG 60.533 55.000 11.47 0.00 0.00 4.04
2451 6141 0.897863 AGCAAACCCCAAAGCGCATA 60.898 50.000 11.47 0.00 0.00 3.14
2517 6207 6.490040 ACAACAGGTCACAACTAAATGCTAAT 59.510 34.615 0.00 0.00 0.00 1.73
2536 6226 6.699895 CATGGATCATGTTTCAAACAACAG 57.300 37.500 7.14 0.81 45.86 3.16
2554 6244 1.296392 CCCTCGAGTGCAACATGGA 59.704 57.895 12.31 0.00 41.43 3.41
2602 6293 6.175712 TGAAAATGTTTTGAAGGTTGCAAC 57.824 33.333 21.59 21.59 0.00 4.17
2625 6316 3.067461 ACATACAACACGTTGCAATGGTT 59.933 39.130 22.20 18.38 44.03 3.67
2674 6365 1.630126 GGCATGAGGAGAGGAGCCAA 61.630 60.000 0.00 0.00 41.63 4.52
2695 6386 0.666374 TGAAAGAGTCACGTGCGAGA 59.334 50.000 11.67 0.00 0.00 4.04
2708 6399 1.626321 TGGCGTCCTATTGGTGAAAGA 59.374 47.619 0.00 0.00 34.23 2.52
2776 6467 3.958147 CTTGGTCATCCAGCGGCGT 62.958 63.158 9.37 0.00 45.22 5.68
2783 6474 2.300152 GGCGATAGATCTTGGTCATCCA 59.700 50.000 0.00 0.00 39.69 3.41
2809 6500 0.605319 CGTGGGCATTACACAGTGGT 60.605 55.000 5.31 0.00 38.74 4.16
2816 6507 1.817520 CCGCATCGTGGGCATTACA 60.818 57.895 0.00 0.00 0.00 2.41
2817 6508 3.022287 CCGCATCGTGGGCATTAC 58.978 61.111 0.00 0.00 0.00 1.89
2823 6514 0.532573 AGATATAGCCGCATCGTGGG 59.467 55.000 0.00 0.00 33.18 4.61
2824 6515 1.469940 GGAGATATAGCCGCATCGTGG 60.470 57.143 0.00 0.00 36.10 4.94
2825 6516 1.469940 GGGAGATATAGCCGCATCGTG 60.470 57.143 0.00 0.00 0.00 4.35
2826 6517 0.818296 GGGAGATATAGCCGCATCGT 59.182 55.000 0.00 0.00 0.00 3.73
2827 6518 0.817654 TGGGAGATATAGCCGCATCG 59.182 55.000 0.00 0.00 0.00 3.84
2828 6519 1.469940 CGTGGGAGATATAGCCGCATC 60.470 57.143 0.00 0.00 0.00 3.91
2829 6520 0.532573 CGTGGGAGATATAGCCGCAT 59.467 55.000 0.00 0.00 0.00 4.73
2830 6521 0.826256 ACGTGGGAGATATAGCCGCA 60.826 55.000 0.00 0.00 0.00 5.69
2831 6522 0.388649 CACGTGGGAGATATAGCCGC 60.389 60.000 7.95 0.00 0.00 6.53
2832 6523 0.959553 ACACGTGGGAGATATAGCCG 59.040 55.000 21.57 0.00 0.00 5.52
2833 6524 1.068472 CGACACGTGGGAGATATAGCC 60.068 57.143 21.57 0.00 0.00 3.93
2834 6525 1.878088 TCGACACGTGGGAGATATAGC 59.122 52.381 21.57 0.00 0.00 2.97
2835 6526 2.484651 CCTCGACACGTGGGAGATATAG 59.515 54.545 29.41 15.13 36.95 1.31
2836 6527 2.501261 CCTCGACACGTGGGAGATATA 58.499 52.381 29.41 5.30 36.95 0.86
2837 6528 1.319541 CCTCGACACGTGGGAGATAT 58.680 55.000 29.41 6.39 36.95 1.63
2838 6529 1.381928 GCCTCGACACGTGGGAGATA 61.382 60.000 29.41 7.54 40.31 1.98
2839 6530 2.711922 GCCTCGACACGTGGGAGAT 61.712 63.158 29.41 7.79 40.31 2.75
2840 6531 3.371063 GCCTCGACACGTGGGAGA 61.371 66.667 29.41 19.95 40.31 3.71
2841 6532 3.680786 TGCCTCGACACGTGGGAG 61.681 66.667 24.04 24.04 40.31 4.30
2842 6533 3.986006 GTGCCTCGACACGTGGGA 61.986 66.667 21.57 15.34 40.31 4.37
2851 6542 1.654954 GCCTCTAAGTCGTGCCTCGA 61.655 60.000 0.00 0.00 46.83 4.04
2852 6543 1.226717 GCCTCTAAGTCGTGCCTCG 60.227 63.158 0.00 0.00 41.41 4.63
2853 6544 0.461961 ATGCCTCTAAGTCGTGCCTC 59.538 55.000 0.00 0.00 0.00 4.70
2854 6545 1.776662 TATGCCTCTAAGTCGTGCCT 58.223 50.000 0.00 0.00 0.00 4.75
2855 6546 2.202566 GTTATGCCTCTAAGTCGTGCC 58.797 52.381 0.00 0.00 0.00 5.01
2856 6547 2.202566 GGTTATGCCTCTAAGTCGTGC 58.797 52.381 0.00 0.00 0.00 5.34
2857 6548 2.460918 CGGTTATGCCTCTAAGTCGTG 58.539 52.381 0.00 0.00 34.25 4.35
2858 6549 1.202382 GCGGTTATGCCTCTAAGTCGT 60.202 52.381 0.00 0.00 34.25 4.34
2859 6550 1.202371 TGCGGTTATGCCTCTAAGTCG 60.202 52.381 0.00 0.00 34.25 4.18
2860 6551 2.596904 TGCGGTTATGCCTCTAAGTC 57.403 50.000 0.00 0.00 34.25 3.01
2861 6552 3.641906 ACTATGCGGTTATGCCTCTAAGT 59.358 43.478 0.00 0.00 34.25 2.24
2862 6553 3.990469 CACTATGCGGTTATGCCTCTAAG 59.010 47.826 0.00 0.00 34.25 2.18
2863 6554 3.244078 CCACTATGCGGTTATGCCTCTAA 60.244 47.826 0.00 0.00 34.25 2.10
2864 6555 2.299013 CCACTATGCGGTTATGCCTCTA 59.701 50.000 0.00 0.00 34.25 2.43
2865 6556 1.070758 CCACTATGCGGTTATGCCTCT 59.929 52.381 0.00 0.00 34.25 3.69
2866 6557 1.202651 ACCACTATGCGGTTATGCCTC 60.203 52.381 0.00 0.00 30.53 4.70
2867 6558 0.837272 ACCACTATGCGGTTATGCCT 59.163 50.000 0.00 0.00 30.53 4.75
2868 6559 1.675552 AACCACTATGCGGTTATGCC 58.324 50.000 0.00 0.00 45.00 4.40
2869 6560 3.119637 ACAAAACCACTATGCGGTTATGC 60.120 43.478 0.00 0.00 46.12 3.14
2870 6561 4.658071 GACAAAACCACTATGCGGTTATG 58.342 43.478 0.00 0.00 46.12 1.90
2871 6562 3.372822 CGACAAAACCACTATGCGGTTAT 59.627 43.478 0.00 0.00 46.12 1.89
2872 6563 2.737783 CGACAAAACCACTATGCGGTTA 59.262 45.455 0.00 0.00 46.12 2.85
2874 6565 1.153353 CGACAAAACCACTATGCGGT 58.847 50.000 0.00 0.00 38.85 5.68
2875 6566 0.179200 GCGACAAAACCACTATGCGG 60.179 55.000 0.00 0.00 0.00 5.69
2876 6567 0.515127 TGCGACAAAACCACTATGCG 59.485 50.000 0.00 0.00 0.00 4.73
2877 6568 2.225491 TCTTGCGACAAAACCACTATGC 59.775 45.455 0.00 0.00 0.00 3.14
2878 6569 3.664276 CGTCTTGCGACAAAACCACTATG 60.664 47.826 0.00 0.00 44.77 2.23
2879 6570 2.478894 CGTCTTGCGACAAAACCACTAT 59.521 45.455 0.00 0.00 44.77 2.12
2880 6571 1.862201 CGTCTTGCGACAAAACCACTA 59.138 47.619 0.00 0.00 44.77 2.74
2881 6572 0.655733 CGTCTTGCGACAAAACCACT 59.344 50.000 0.00 0.00 44.77 4.00
2882 6573 0.316689 CCGTCTTGCGACAAAACCAC 60.317 55.000 0.00 0.00 44.77 4.16
2883 6574 1.440938 CCCGTCTTGCGACAAAACCA 61.441 55.000 0.00 0.00 44.77 3.67
2884 6575 1.281656 CCCGTCTTGCGACAAAACC 59.718 57.895 0.00 0.00 44.77 3.27
2885 6576 0.041576 GACCCGTCTTGCGACAAAAC 60.042 55.000 0.00 0.00 44.77 2.43
2886 6577 0.462225 TGACCCGTCTTGCGACAAAA 60.462 50.000 0.00 0.00 44.77 2.44
2887 6578 0.250124 ATGACCCGTCTTGCGACAAA 60.250 50.000 0.00 0.00 44.77 2.83
2888 6579 0.669318 GATGACCCGTCTTGCGACAA 60.669 55.000 0.00 0.00 44.77 3.18
2889 6580 1.080093 GATGACCCGTCTTGCGACA 60.080 57.895 0.00 0.00 44.77 4.35
2890 6581 0.389948 AAGATGACCCGTCTTGCGAC 60.390 55.000 1.05 0.00 44.77 5.19
2891 6582 0.108804 GAAGATGACCCGTCTTGCGA 60.109 55.000 6.19 0.00 39.47 5.10
2892 6583 0.389817 TGAAGATGACCCGTCTTGCG 60.390 55.000 6.19 0.00 39.47 4.85
2893 6584 1.079503 GTGAAGATGACCCGTCTTGC 58.920 55.000 6.19 0.62 39.47 4.01
2894 6585 2.069273 GTGTGAAGATGACCCGTCTTG 58.931 52.381 6.19 0.00 39.47 3.02
2895 6586 1.691976 TGTGTGAAGATGACCCGTCTT 59.308 47.619 1.43 1.43 41.70 3.01
2896 6587 1.338107 TGTGTGAAGATGACCCGTCT 58.662 50.000 0.00 0.00 0.00 4.18
2897 6588 2.163818 TTGTGTGAAGATGACCCGTC 57.836 50.000 0.00 0.00 0.00 4.79
2898 6589 2.615493 GGATTGTGTGAAGATGACCCGT 60.615 50.000 0.00 0.00 0.00 5.28
2899 6590 2.009774 GGATTGTGTGAAGATGACCCG 58.990 52.381 0.00 0.00 0.00 5.28
2900 6591 2.290896 TGGGATTGTGTGAAGATGACCC 60.291 50.000 0.00 0.00 35.82 4.46
2901 6592 3.071874 TGGGATTGTGTGAAGATGACC 57.928 47.619 0.00 0.00 0.00 4.02
2902 6593 4.012374 ACATGGGATTGTGTGAAGATGAC 58.988 43.478 0.00 0.00 0.00 3.06
2903 6594 4.305539 ACATGGGATTGTGTGAAGATGA 57.694 40.909 0.00 0.00 0.00 2.92
2904 6595 6.319405 TCATTACATGGGATTGTGTGAAGATG 59.681 38.462 0.00 0.00 0.00 2.90
2905 6596 6.425735 TCATTACATGGGATTGTGTGAAGAT 58.574 36.000 0.00 0.00 0.00 2.40
2906 6597 5.814481 TCATTACATGGGATTGTGTGAAGA 58.186 37.500 0.00 0.00 0.00 2.87
2907 6598 6.072008 TGTTCATTACATGGGATTGTGTGAAG 60.072 38.462 0.00 0.00 36.80 3.02
2908 6599 5.772169 TGTTCATTACATGGGATTGTGTGAA 59.228 36.000 0.00 0.00 35.28 3.18
2909 6600 5.320277 TGTTCATTACATGGGATTGTGTGA 58.680 37.500 0.00 0.00 0.00 3.58
2910 6601 5.641783 TGTTCATTACATGGGATTGTGTG 57.358 39.130 0.00 0.00 0.00 3.82
2911 6602 6.009589 TCTTGTTCATTACATGGGATTGTGT 58.990 36.000 0.00 0.00 36.44 3.72
2912 6603 6.513806 TCTTGTTCATTACATGGGATTGTG 57.486 37.500 0.00 0.00 36.44 3.33
2913 6604 7.364056 CCATTCTTGTTCATTACATGGGATTGT 60.364 37.037 0.00 0.00 36.44 2.71
2914 6605 6.982141 CCATTCTTGTTCATTACATGGGATTG 59.018 38.462 0.00 0.00 36.44 2.67
2915 6606 7.116075 CCATTCTTGTTCATTACATGGGATT 57.884 36.000 0.00 0.00 36.44 3.01
2916 6607 6.720112 CCATTCTTGTTCATTACATGGGAT 57.280 37.500 0.00 0.00 36.44 3.85
2918 6609 5.266733 CCCATTCTTGTTCATTACATGGG 57.733 43.478 0.00 0.00 43.44 4.00
2919 6610 6.720112 ATCCCATTCTTGTTCATTACATGG 57.280 37.500 0.00 0.00 36.44 3.66
2920 6611 9.740239 CTTTATCCCATTCTTGTTCATTACATG 57.260 33.333 0.00 0.00 36.44 3.21
2921 6612 9.699410 TCTTTATCCCATTCTTGTTCATTACAT 57.301 29.630 0.00 0.00 36.44 2.29


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

AutoCloner maintained by Alex Coulton.