Multiple sequence alignment - TraesCS7D01G215700

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G215700 chr7D 100.000 2619 0 0 1 2619 175662912 175660294 0.000000e+00 4837.0
1 TraesCS7D01G215700 chr7A 89.225 1717 101 32 366 2039 177345102 177343427 0.000000e+00 2069.0
2 TraesCS7D01G215700 chr7A 92.883 281 20 0 1 281 177345364 177345084 2.430000e-110 409.0
3 TraesCS7D01G215700 chr7A 91.958 286 19 3 2043 2328 177343273 177342992 5.250000e-107 398.0
4 TraesCS7D01G215700 chr7B 90.270 1223 76 25 481 1668 141009291 141008077 0.000000e+00 1559.0
5 TraesCS7D01G215700 chr7B 93.255 682 36 6 1653 2328 141008060 141007383 0.000000e+00 996.0
6 TraesCS7D01G215700 chr5A 84.293 1025 106 30 728 1724 436352921 436353918 0.000000e+00 950.0
7 TraesCS7D01G215700 chr5A 83.647 1064 102 31 689 1708 436336869 436337904 0.000000e+00 935.0
8 TraesCS7D01G215700 chr5A 90.734 572 34 5 1774 2328 436622668 436623237 0.000000e+00 745.0
9 TraesCS7D01G215700 chr5A 88.912 478 46 5 1206 1679 436357175 436357649 1.350000e-162 582.0
10 TraesCS7D01G215700 chr5A 85.383 431 49 10 745 1166 436329417 436328992 4.000000e-118 435.0
11 TraesCS7D01G215700 chr5A 81.205 415 57 12 755 1164 436548621 436549019 5.440000e-82 315.0
12 TraesCS7D01G215700 chr5A 86.458 96 11 1 274 369 535519467 535519560 1.280000e-18 104.0
13 TraesCS7D01G215700 chr5A 77.419 186 14 20 457 639 436590614 436590774 4.640000e-13 86.1
14 TraesCS7D01G215700 chr5A 84.000 100 2 8 457 546 436381663 436381758 1.670000e-12 84.2
15 TraesCS7D01G215700 chr5D 84.059 1010 91 31 712 1687 335060577 335061550 0.000000e+00 909.0
16 TraesCS7D01G215700 chr5D 83.736 953 109 24 728 1658 335079237 335080165 0.000000e+00 859.0
17 TraesCS7D01G215700 chr5D 90.767 574 29 6 1774 2328 335133150 335133718 0.000000e+00 745.0
18 TraesCS7D01G215700 chr5D 84.495 703 63 26 493 1166 335120932 335121617 0.000000e+00 652.0
19 TraesCS7D01G215700 chr5D 90.985 477 32 5 1264 1731 335121615 335122089 1.320000e-177 632.0
20 TraesCS7D01G215700 chr5D 91.026 468 25 4 1264 1724 335087486 335087943 1.330000e-172 616.0
21 TraesCS7D01G215700 chr5D 82.409 739 72 30 457 1166 335086779 335087488 2.240000e-165 592.0
22 TraesCS7D01G215700 chr5D 86.325 468 44 9 715 1166 334970055 334969592 2.340000e-135 492.0
23 TraesCS7D01G215700 chr5D 96.220 291 11 0 2329 2619 500980704 500980994 6.560000e-131 477.0
24 TraesCS7D01G215700 chr5D 95.876 291 12 0 2329 2619 279215678 279215968 3.050000e-129 472.0
25 TraesCS7D01G215700 chr5D 83.463 514 43 21 679 1165 334991099 334990601 8.600000e-120 440.0
26 TraesCS7D01G215700 chr5B 89.649 570 35 11 1774 2324 392138789 392139353 0.000000e+00 704.0
27 TraesCS7D01G215700 chr5B 87.449 486 44 2 656 1128 392118522 392119003 6.370000e-151 544.0
28 TraesCS7D01G215700 chr5B 84.902 510 55 10 675 1166 391826810 391826305 1.810000e-136 496.0
29 TraesCS7D01G215700 chr5B 77.282 493 75 16 1774 2234 392151646 392152133 3.340000e-64 255.0
30 TraesCS7D01G215700 chr5B 89.247 93 9 1 274 366 567774277 567774368 5.920000e-22 115.0
31 TraesCS7D01G215700 chr5B 88.172 93 10 1 274 366 448809941 448810032 2.760000e-20 110.0
32 TraesCS7D01G215700 chr5B 91.026 78 7 0 279 356 669892616 669892539 3.560000e-19 106.0
33 TraesCS7D01G215700 chr5B 87.097 93 10 2 278 370 56822595 56822685 1.280000e-18 104.0
34 TraesCS7D01G215700 chr3D 97.251 291 8 0 2329 2619 608923054 608922764 6.510000e-136 494.0
35 TraesCS7D01G215700 chr3D 96.220 291 10 1 2329 2619 300119782 300119493 2.360000e-130 475.0
36 TraesCS7D01G215700 chr3D 95.876 291 12 0 2329 2619 410315806 410315516 3.050000e-129 472.0
37 TraesCS7D01G215700 chr3B 96.564 291 10 0 2329 2619 141742819 141742529 1.410000e-132 483.0
38 TraesCS7D01G215700 chr6B 96.220 291 10 1 2329 2619 571098466 571098755 2.360000e-130 475.0
39 TraesCS7D01G215700 chr2D 96.207 290 11 0 2329 2618 639930408 639930119 2.360000e-130 475.0
40 TraesCS7D01G215700 chr1D 95.876 291 12 0 2329 2619 299592332 299592042 3.050000e-129 472.0
41 TraesCS7D01G215700 chr1D 84.158 101 15 1 278 378 420645047 420644948 2.150000e-16 97.1
42 TraesCS7D01G215700 chr4B 89.773 88 7 2 278 365 606852425 606852340 7.660000e-21 111.0
43 TraesCS7D01G215700 chr1B 88.889 90 9 1 278 367 642936433 642936345 2.760000e-20 110.0
44 TraesCS7D01G215700 chr2B 87.500 88 9 2 281 368 731725706 731725621 1.660000e-17 100.0


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 TraesCS7D01G215700 chr7D 175660294 175662912 2618 True 4837.000000 4837 100.000000 1 2619 1 chr7D.!!$R1 2618
1 TraesCS7D01G215700 chr7A 177342992 177345364 2372 True 958.666667 2069 91.355333 1 2328 3 chr7A.!!$R1 2327
2 TraesCS7D01G215700 chr7B 141007383 141009291 1908 True 1277.500000 1559 91.762500 481 2328 2 chr7B.!!$R1 1847
3 TraesCS7D01G215700 chr5A 436336869 436337904 1035 False 935.000000 935 83.647000 689 1708 1 chr5A.!!$F1 1019
4 TraesCS7D01G215700 chr5A 436352921 436357649 4728 False 766.000000 950 86.602500 728 1724 2 chr5A.!!$F7 996
5 TraesCS7D01G215700 chr5A 436622668 436623237 569 False 745.000000 745 90.734000 1774 2328 1 chr5A.!!$F5 554
6 TraesCS7D01G215700 chr5D 335060577 335061550 973 False 909.000000 909 84.059000 712 1687 1 chr5D.!!$F2 975
7 TraesCS7D01G215700 chr5D 335079237 335080165 928 False 859.000000 859 83.736000 728 1658 1 chr5D.!!$F3 930
8 TraesCS7D01G215700 chr5D 335133150 335133718 568 False 745.000000 745 90.767000 1774 2328 1 chr5D.!!$F4 554
9 TraesCS7D01G215700 chr5D 335120932 335122089 1157 False 642.000000 652 87.740000 493 1731 2 chr5D.!!$F7 1238
10 TraesCS7D01G215700 chr5D 335086779 335087943 1164 False 604.000000 616 86.717500 457 1724 2 chr5D.!!$F6 1267
11 TraesCS7D01G215700 chr5B 392138789 392139353 564 False 704.000000 704 89.649000 1774 2324 1 chr5B.!!$F3 550
12 TraesCS7D01G215700 chr5B 391826305 391826810 505 True 496.000000 496 84.902000 675 1166 1 chr5B.!!$R1 491

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
291 292 0.0293 CAATAATGTTCGGCCCTGCG 59.971 55.0 0.0 0.0 0.0 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2157 4259 0.250553 TACCCCTGAAAACGGCAGTG 60.251 55.0 0.0 0.0 0.0 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
74 75 7.028962 CCAACGTCATTCAATTGATATGTTGT 58.971 34.615 27.81 21.71 36.00 3.32
105 106 1.254026 TTGGACGGGTGTCTAGTCTG 58.746 55.000 0.00 0.00 44.83 3.51
154 155 7.285566 TCCAAGGAGGATCTAAAAGATTCATG 58.714 38.462 0.00 0.00 43.07 3.07
157 158 7.937700 AGGAGGATCTAAAAGATTCATGGTA 57.062 36.000 0.00 0.00 34.53 3.25
160 161 6.226787 AGGATCTAAAAGATTCATGGTAGCG 58.773 40.000 0.00 0.00 34.53 4.26
182 183 0.798776 GGCGACTGAGGTGTTTGATG 59.201 55.000 0.00 0.00 0.00 3.07
209 210 2.109181 GATAGGCACGGGTGGAGC 59.891 66.667 0.43 0.00 0.00 4.70
261 262 3.136443 TGTCTTCAACACCTTGAGACCAT 59.864 43.478 0.00 0.00 37.70 3.55
277 278 9.177608 CTTGAGACCATAAAAGGTGATCAATAA 57.822 33.333 0.00 0.00 43.38 1.40
280 281 9.125026 GAGACCATAAAAGGTGATCAATAATGT 57.875 33.333 0.00 0.00 43.38 2.71
281 282 9.479549 AGACCATAAAAGGTGATCAATAATGTT 57.520 29.630 0.00 0.00 43.38 2.71
282 283 9.736023 GACCATAAAAGGTGATCAATAATGTTC 57.264 33.333 0.00 0.00 43.38 3.18
283 284 8.405531 ACCATAAAAGGTGATCAATAATGTTCG 58.594 33.333 0.00 0.00 41.30 3.95
284 285 7.862372 CCATAAAAGGTGATCAATAATGTTCGG 59.138 37.037 0.00 0.00 0.00 4.30
285 286 4.900635 AAGGTGATCAATAATGTTCGGC 57.099 40.909 0.00 0.00 0.00 5.54
286 287 3.214328 AGGTGATCAATAATGTTCGGCC 58.786 45.455 0.00 0.00 0.00 6.13
287 288 2.293399 GGTGATCAATAATGTTCGGCCC 59.707 50.000 0.00 0.00 0.00 5.80
288 289 3.214328 GTGATCAATAATGTTCGGCCCT 58.786 45.455 0.00 0.00 0.00 5.19
289 290 3.003689 GTGATCAATAATGTTCGGCCCTG 59.996 47.826 0.00 0.00 0.00 4.45
290 291 1.388547 TCAATAATGTTCGGCCCTGC 58.611 50.000 0.00 0.00 0.00 4.85
291 292 0.029300 CAATAATGTTCGGCCCTGCG 59.971 55.000 0.00 0.00 0.00 5.18
292 293 0.393808 AATAATGTTCGGCCCTGCGT 60.394 50.000 0.00 0.00 0.00 5.24
293 294 1.095228 ATAATGTTCGGCCCTGCGTG 61.095 55.000 0.00 0.00 0.00 5.34
300 301 2.676471 GGCCCTGCGTGGTGAATT 60.676 61.111 0.00 0.00 0.00 2.17
301 302 2.275380 GGCCCTGCGTGGTGAATTT 61.275 57.895 0.00 0.00 0.00 1.82
302 303 1.665442 GCCCTGCGTGGTGAATTTT 59.335 52.632 0.00 0.00 0.00 1.82
303 304 0.667184 GCCCTGCGTGGTGAATTTTG 60.667 55.000 0.00 0.00 0.00 2.44
304 305 0.673437 CCCTGCGTGGTGAATTTTGT 59.327 50.000 0.00 0.00 0.00 2.83
305 306 1.883275 CCCTGCGTGGTGAATTTTGTA 59.117 47.619 0.00 0.00 0.00 2.41
306 307 2.294791 CCCTGCGTGGTGAATTTTGTAA 59.705 45.455 0.00 0.00 0.00 2.41
307 308 3.056891 CCCTGCGTGGTGAATTTTGTAAT 60.057 43.478 0.00 0.00 0.00 1.89
308 309 3.919804 CCTGCGTGGTGAATTTTGTAATG 59.080 43.478 0.00 0.00 0.00 1.90
309 310 4.320861 CCTGCGTGGTGAATTTTGTAATGA 60.321 41.667 0.00 0.00 0.00 2.57
310 311 5.188327 TGCGTGGTGAATTTTGTAATGAA 57.812 34.783 0.00 0.00 0.00 2.57
311 312 5.777802 TGCGTGGTGAATTTTGTAATGAAT 58.222 33.333 0.00 0.00 0.00 2.57
312 313 5.632764 TGCGTGGTGAATTTTGTAATGAATG 59.367 36.000 0.00 0.00 0.00 2.67
313 314 5.861251 GCGTGGTGAATTTTGTAATGAATGA 59.139 36.000 0.00 0.00 0.00 2.57
314 315 6.531240 GCGTGGTGAATTTTGTAATGAATGAT 59.469 34.615 0.00 0.00 0.00 2.45
315 316 7.063308 GCGTGGTGAATTTTGTAATGAATGATT 59.937 33.333 0.00 0.00 0.00 2.57
316 317 8.374728 CGTGGTGAATTTTGTAATGAATGATTG 58.625 33.333 0.00 0.00 0.00 2.67
317 318 9.206870 GTGGTGAATTTTGTAATGAATGATTGT 57.793 29.630 0.00 0.00 0.00 2.71
416 417 4.822685 TGGCACAATGGCTAATGATTTT 57.177 36.364 3.90 0.00 44.10 1.82
515 524 6.189567 CGGCAAGAATAAAGTTTACATACCG 58.810 40.000 0.00 3.79 0.00 4.02
516 525 5.969435 GGCAAGAATAAAGTTTACATACCGC 59.031 40.000 0.00 0.00 0.00 5.68
580 598 3.677601 CGTACGTGTATACAGTCACAGG 58.322 50.000 5.62 6.43 36.77 4.00
780 832 1.125633 TAGAGGGTAATTCACGGCCC 58.874 55.000 0.00 0.00 41.36 5.80
867 925 2.022520 GGCACGGCCTATAAACTGC 58.977 57.895 0.00 0.00 46.69 4.40
898 973 2.355756 CCCCGAACAATACATCAGCAAG 59.644 50.000 0.00 0.00 0.00 4.01
921 1005 0.746204 TCGGCAACACAGCAACAAGA 60.746 50.000 0.00 0.00 35.83 3.02
983 1095 1.164041 CCTTTCGTGCACCTTCCGTT 61.164 55.000 12.15 0.00 0.00 4.44
1189 1318 2.744823 CGTACTCCCAAAGCATGCCATA 60.745 50.000 15.66 0.00 0.00 2.74
1649 1807 1.065709 GGTGTCCACCGGATAACACAT 60.066 52.381 26.84 0.00 42.92 3.21
1664 1824 7.371936 GGATAACACATCCTGTACTTAGCTAG 58.628 42.308 0.00 0.00 35.36 3.42
1665 1825 7.014422 GGATAACACATCCTGTACTTAGCTAGT 59.986 40.741 0.00 0.00 36.78 2.57
1666 1826 8.991783 ATAACACATCCTGTACTTAGCTAGTA 57.008 34.615 0.00 0.00 38.33 1.82
1709 1908 4.945246 TCATCCTCGTATTCTTTGTAGCC 58.055 43.478 0.00 0.00 0.00 3.93
1755 1955 6.869388 ACCTTTCTTTTCTCACTCGTATTCTC 59.131 38.462 0.00 0.00 0.00 2.87
1757 1957 8.244802 CCTTTCTTTTCTCACTCGTATTCTCTA 58.755 37.037 0.00 0.00 0.00 2.43
1811 2220 8.818622 ATTGAGAAGAAATTGATTGGAGATCA 57.181 30.769 0.00 0.00 0.00 2.92
1841 2250 1.614317 CCAGAACTTGGGCCCAGTAAG 60.614 57.143 26.87 22.35 43.75 2.34
1869 2286 0.455633 GCAGACTCGCATTTGCCAAG 60.456 55.000 0.00 0.00 37.91 3.61
1978 2532 7.275560 AGCAAAAGTCAACAAAGATTGTGTTAC 59.724 33.333 0.00 0.00 44.59 2.50
2084 3579 0.253327 CCAGGAGGAAAGTGGGCTAC 59.747 60.000 0.00 0.00 36.89 3.58
2128 4230 2.419297 GGTATCTGAGACAACTGGCAGG 60.419 54.545 20.34 4.16 0.00 4.85
2180 4597 1.682323 TGCCGTTTTCAGGGGTAAAAC 59.318 47.619 0.00 0.00 41.34 2.43
2186 4608 6.153756 CCGTTTTCAGGGGTAAAACAAATAG 58.846 40.000 10.86 0.00 43.71 1.73
2262 5159 0.966179 TCAGCGAACTCACCTAAGCA 59.034 50.000 0.00 0.00 0.00 3.91
2334 5817 3.855689 ATAGTCATTTGTGCACTTGGC 57.144 42.857 19.41 14.12 45.13 4.52
2335 5818 0.675633 AGTCATTTGTGCACTTGGCC 59.324 50.000 19.41 0.00 43.89 5.36
2336 5819 0.664166 GTCATTTGTGCACTTGGCCG 60.664 55.000 19.41 1.90 43.89 6.13
2337 5820 1.373246 CATTTGTGCACTTGGCCGG 60.373 57.895 19.41 0.00 43.89 6.13
2338 5821 1.832167 ATTTGTGCACTTGGCCGGT 60.832 52.632 19.41 0.00 43.89 5.28
2339 5822 2.086251 ATTTGTGCACTTGGCCGGTG 62.086 55.000 19.41 20.16 43.89 4.94
2358 5841 2.811317 CAGCGGCGAGGTTCTGTC 60.811 66.667 12.98 0.00 0.00 3.51
2359 5842 2.992114 AGCGGCGAGGTTCTGTCT 60.992 61.111 12.98 0.00 0.00 3.41
2360 5843 2.811317 GCGGCGAGGTTCTGTCTG 60.811 66.667 12.98 0.00 0.00 3.51
2361 5844 2.125912 CGGCGAGGTTCTGTCTGG 60.126 66.667 0.00 0.00 0.00 3.86
2362 5845 2.636412 CGGCGAGGTTCTGTCTGGA 61.636 63.158 0.00 0.00 0.00 3.86
2363 5846 1.901085 GGCGAGGTTCTGTCTGGAT 59.099 57.895 0.00 0.00 0.00 3.41
2364 5847 0.179097 GGCGAGGTTCTGTCTGGATC 60.179 60.000 0.00 0.00 0.00 3.36
2365 5848 0.179097 GCGAGGTTCTGTCTGGATCC 60.179 60.000 4.20 4.20 0.00 3.36
2366 5849 0.461961 CGAGGTTCTGTCTGGATCCC 59.538 60.000 9.90 0.00 0.00 3.85
2367 5850 0.461961 GAGGTTCTGTCTGGATCCCG 59.538 60.000 9.90 2.27 0.00 5.14
2368 5851 0.978146 AGGTTCTGTCTGGATCCCGG 60.978 60.000 9.90 0.00 0.00 5.73
2369 5852 1.522569 GTTCTGTCTGGATCCCGGG 59.477 63.158 16.85 16.85 0.00 5.73
2370 5853 1.689233 TTCTGTCTGGATCCCGGGG 60.689 63.158 23.50 6.77 0.00 5.73
2371 5854 3.866582 CTGTCTGGATCCCGGGGC 61.867 72.222 23.50 13.54 0.00 5.80
2442 5925 4.626081 GCGTGGTGCAGTCCCTGT 62.626 66.667 0.00 0.00 45.45 4.00
2443 5926 2.357517 CGTGGTGCAGTCCCTGTC 60.358 66.667 0.00 0.00 33.43 3.51
2444 5927 2.032681 GTGGTGCAGTCCCTGTCC 59.967 66.667 0.00 0.00 33.43 4.02
2445 5928 2.447572 TGGTGCAGTCCCTGTCCA 60.448 61.111 0.00 6.32 36.18 4.02
2446 5929 2.075566 TGGTGCAGTCCCTGTCCAA 61.076 57.895 0.00 0.00 35.86 3.53
2447 5930 1.302832 GGTGCAGTCCCTGTCCAAG 60.303 63.158 0.00 0.00 33.43 3.61
2448 5931 1.302832 GTGCAGTCCCTGTCCAAGG 60.303 63.158 0.00 0.00 46.94 3.61
2449 5932 2.360475 GCAGTCCCTGTCCAAGGC 60.360 66.667 0.00 0.00 45.89 4.35
2450 5933 2.046892 CAGTCCCTGTCCAAGGCG 60.047 66.667 0.00 0.00 45.89 5.52
2451 5934 3.322466 AGTCCCTGTCCAAGGCGG 61.322 66.667 0.00 0.00 45.89 6.13
2452 5935 3.319198 GTCCCTGTCCAAGGCGGA 61.319 66.667 0.00 0.00 45.89 5.54
2459 5942 4.128580 TCCAAGGCGGATCTGTGA 57.871 55.556 2.89 0.00 39.64 3.58
2460 5943 1.596934 TCCAAGGCGGATCTGTGAC 59.403 57.895 2.89 0.00 39.64 3.67
2461 5944 1.811266 CCAAGGCGGATCTGTGACG 60.811 63.158 2.89 0.00 36.56 4.35
2462 5945 1.811266 CAAGGCGGATCTGTGACGG 60.811 63.158 2.89 0.00 0.00 4.79
2465 5948 4.492160 GCGGATCTGTGACGGCGA 62.492 66.667 16.62 0.00 0.00 5.54
2466 5949 2.413351 CGGATCTGTGACGGCGAT 59.587 61.111 16.62 0.00 0.00 4.58
2467 5950 1.658717 CGGATCTGTGACGGCGATC 60.659 63.158 16.62 8.31 34.30 3.69
2468 5951 1.736586 GGATCTGTGACGGCGATCT 59.263 57.895 16.62 0.00 35.18 2.75
2469 5952 0.596083 GGATCTGTGACGGCGATCTG 60.596 60.000 16.62 7.53 35.18 2.90
2470 5953 1.211818 GATCTGTGACGGCGATCTGC 61.212 60.000 16.62 5.89 45.38 4.26
2471 5954 1.670949 ATCTGTGACGGCGATCTGCT 61.671 55.000 16.62 0.00 45.43 4.24
2472 5955 1.446792 CTGTGACGGCGATCTGCTT 60.447 57.895 16.62 0.00 45.43 3.91
2473 5956 1.005037 TGTGACGGCGATCTGCTTT 60.005 52.632 16.62 0.00 45.43 3.51
2474 5957 1.291184 TGTGACGGCGATCTGCTTTG 61.291 55.000 16.62 3.60 45.43 2.77
2475 5958 1.741401 TGACGGCGATCTGCTTTGG 60.741 57.895 16.62 1.27 45.43 3.28
2476 5959 1.447838 GACGGCGATCTGCTTTGGA 60.448 57.895 16.62 0.00 45.43 3.53
2477 5960 0.811616 GACGGCGATCTGCTTTGGAT 60.812 55.000 16.62 0.00 45.43 3.41
2478 5961 0.392998 ACGGCGATCTGCTTTGGATT 60.393 50.000 16.62 0.00 45.43 3.01
2479 5962 0.028505 CGGCGATCTGCTTTGGATTG 59.971 55.000 0.00 0.00 45.43 2.67
2480 5963 0.383231 GGCGATCTGCTTTGGATTGG 59.617 55.000 8.94 0.00 45.43 3.16
2481 5964 1.098050 GCGATCTGCTTTGGATTGGT 58.902 50.000 0.00 0.00 41.73 3.67
2482 5965 1.474077 GCGATCTGCTTTGGATTGGTT 59.526 47.619 0.00 0.00 41.73 3.67
2483 5966 2.478539 GCGATCTGCTTTGGATTGGTTC 60.479 50.000 0.00 0.00 41.73 3.62
2484 5967 2.223112 CGATCTGCTTTGGATTGGTTCG 60.223 50.000 0.00 0.00 0.00 3.95
2485 5968 1.533625 TCTGCTTTGGATTGGTTCGG 58.466 50.000 0.00 0.00 0.00 4.30
2486 5969 1.073125 TCTGCTTTGGATTGGTTCGGA 59.927 47.619 0.00 0.00 0.00 4.55
2487 5970 2.094675 CTGCTTTGGATTGGTTCGGAT 58.905 47.619 0.00 0.00 0.00 4.18
2488 5971 2.091541 TGCTTTGGATTGGTTCGGATC 58.908 47.619 0.00 0.00 0.00 3.36
2489 5972 2.091541 GCTTTGGATTGGTTCGGATCA 58.908 47.619 0.00 0.00 0.00 2.92
2490 5973 2.098117 GCTTTGGATTGGTTCGGATCAG 59.902 50.000 0.00 0.00 0.00 2.90
2491 5974 3.609853 CTTTGGATTGGTTCGGATCAGA 58.390 45.455 0.00 0.00 0.00 3.27
2492 5975 2.988010 TGGATTGGTTCGGATCAGAG 57.012 50.000 0.00 0.00 0.00 3.35
2493 5976 2.466846 TGGATTGGTTCGGATCAGAGA 58.533 47.619 0.00 0.00 0.00 3.10
2494 5977 2.168521 TGGATTGGTTCGGATCAGAGAC 59.831 50.000 0.00 0.00 0.00 3.36
2495 5978 2.464865 GATTGGTTCGGATCAGAGACG 58.535 52.381 0.00 0.00 0.00 4.18
2496 5979 0.530744 TTGGTTCGGATCAGAGACGG 59.469 55.000 0.00 0.00 0.00 4.79
2497 5980 0.611062 TGGTTCGGATCAGAGACGGT 60.611 55.000 0.00 0.00 0.00 4.83
2498 5981 0.179134 GGTTCGGATCAGAGACGGTG 60.179 60.000 0.00 0.00 0.00 4.94
2499 5982 0.809385 GTTCGGATCAGAGACGGTGA 59.191 55.000 0.00 0.00 0.00 4.02
2500 5983 0.809385 TTCGGATCAGAGACGGTGAC 59.191 55.000 0.00 0.00 0.00 3.67
2512 5995 4.451150 GGTGACGAGCATGCGGGA 62.451 66.667 13.01 0.00 35.12 5.14
2513 5996 2.202932 GTGACGAGCATGCGGGAT 60.203 61.111 13.01 0.00 35.12 3.85
2514 5997 2.106938 TGACGAGCATGCGGGATC 59.893 61.111 13.01 9.49 35.12 3.36
2515 5998 2.663188 GACGAGCATGCGGGATCC 60.663 66.667 13.01 1.92 35.12 3.36
2516 5999 3.157217 GACGAGCATGCGGGATCCT 62.157 63.158 13.01 0.00 35.12 3.24
2517 6000 2.109799 CGAGCATGCGGGATCCTT 59.890 61.111 13.01 0.00 0.00 3.36
2518 6001 1.958205 CGAGCATGCGGGATCCTTC 60.958 63.158 13.01 4.25 0.00 3.46
2519 6002 1.449353 GAGCATGCGGGATCCTTCT 59.551 57.895 13.01 0.00 0.00 2.85
2520 6003 0.602372 GAGCATGCGGGATCCTTCTC 60.602 60.000 13.01 5.82 0.00 2.87
2522 6005 1.301244 CATGCGGGATCCTTCTCGG 60.301 63.158 12.58 0.00 46.25 4.63
2523 6006 3.170490 ATGCGGGATCCTTCTCGGC 62.170 63.158 12.58 6.60 46.25 5.54
2524 6007 4.951963 GCGGGATCCTTCTCGGCG 62.952 72.222 12.58 0.00 46.25 6.46
2525 6008 4.286320 CGGGATCCTTCTCGGCGG 62.286 72.222 12.58 0.00 42.33 6.13
2526 6009 4.610714 GGGATCCTTCTCGGCGGC 62.611 72.222 12.58 0.00 0.00 6.53
2527 6010 3.541713 GGATCCTTCTCGGCGGCT 61.542 66.667 7.21 0.00 0.00 5.52
2528 6011 2.028337 GATCCTTCTCGGCGGCTC 59.972 66.667 7.21 0.00 0.00 4.70
2529 6012 2.443016 ATCCTTCTCGGCGGCTCT 60.443 61.111 7.21 0.00 0.00 4.09
2530 6013 2.414840 GATCCTTCTCGGCGGCTCTC 62.415 65.000 7.21 0.00 0.00 3.20
2531 6014 3.452786 CCTTCTCGGCGGCTCTCA 61.453 66.667 7.21 0.00 0.00 3.27
2532 6015 2.202676 CTTCTCGGCGGCTCTCAC 60.203 66.667 7.21 0.00 0.00 3.51
2533 6016 4.116328 TTCTCGGCGGCTCTCACG 62.116 66.667 7.21 0.00 0.00 4.35
2538 6021 3.423154 GGCGGCTCTCACGGTTTG 61.423 66.667 0.00 0.00 0.00 2.93
2539 6022 3.423154 GCGGCTCTCACGGTTTGG 61.423 66.667 0.00 0.00 0.00 3.28
2540 6023 3.423154 CGGCTCTCACGGTTTGGC 61.423 66.667 0.00 0.00 0.00 4.52
2541 6024 3.423154 GGCTCTCACGGTTTGGCG 61.423 66.667 0.00 0.00 0.00 5.69
2542 6025 2.357034 GCTCTCACGGTTTGGCGA 60.357 61.111 0.00 0.00 0.00 5.54
2543 6026 2.383527 GCTCTCACGGTTTGGCGAG 61.384 63.158 0.00 0.00 0.00 5.03
2544 6027 1.738099 CTCTCACGGTTTGGCGAGG 60.738 63.158 0.00 0.00 0.00 4.63
2545 6028 3.423154 CTCACGGTTTGGCGAGGC 61.423 66.667 0.00 0.00 0.00 4.70
2572 6055 3.557220 GCCCTTCTCCTAGGCTCC 58.443 66.667 2.96 0.00 43.62 4.70
2573 6056 1.383248 GCCCTTCTCCTAGGCTCCA 60.383 63.158 2.96 0.00 43.62 3.86
2574 6057 1.406860 GCCCTTCTCCTAGGCTCCAG 61.407 65.000 2.96 0.00 43.62 3.86
2575 6058 0.031616 CCCTTCTCCTAGGCTCCAGT 60.032 60.000 2.96 0.00 33.73 4.00
2576 6059 1.118838 CCTTCTCCTAGGCTCCAGTG 58.881 60.000 2.96 0.00 0.00 3.66
2577 6060 1.118838 CTTCTCCTAGGCTCCAGTGG 58.881 60.000 2.96 1.40 0.00 4.00
2578 6061 0.413832 TTCTCCTAGGCTCCAGTGGT 59.586 55.000 9.54 0.00 0.00 4.16
2579 6062 0.324738 TCTCCTAGGCTCCAGTGGTG 60.325 60.000 9.54 8.11 0.00 4.17
2580 6063 1.306141 TCCTAGGCTCCAGTGGTGG 60.306 63.158 9.54 4.82 46.63 4.61
2581 6064 2.586792 CTAGGCTCCAGTGGTGGC 59.413 66.667 25.81 25.81 44.60 5.01
2582 6065 2.203922 TAGGCTCCAGTGGTGGCA 60.204 61.111 31.92 18.86 44.60 4.92
2583 6066 2.527951 CTAGGCTCCAGTGGTGGCAC 62.528 65.000 31.92 9.70 44.60 5.01
2584 6067 4.269523 GGCTCCAGTGGTGGCACA 62.270 66.667 27.54 2.61 44.60 4.57
2614 6097 4.489771 CCGGTGCACCAGGGATCC 62.490 72.222 34.16 1.92 35.14 3.36
2615 6098 4.489771 CGGTGCACCAGGGATCCC 62.490 72.222 34.16 24.59 35.14 3.85
2616 6099 3.338250 GGTGCACCAGGGATCCCA 61.338 66.667 32.69 7.97 38.92 4.37
2617 6100 2.044946 GTGCACCAGGGATCCCAC 60.045 66.667 32.69 16.83 38.92 4.61
2618 6101 3.716195 TGCACCAGGGATCCCACG 61.716 66.667 32.69 22.75 38.92 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.882288 TCATAGAAGCACACTTTGTTGCA 59.118 39.130 0.00 0.00 35.82 4.08
45 46 8.559536 ACATATCAATTGAATGACGTTGGATAC 58.440 33.333 24.75 0.00 30.82 2.24
51 52 9.554724 GTAACAACATATCAATTGAATGACGTT 57.445 29.630 24.75 24.24 30.82 3.99
74 75 3.944650 CACCCGTCCAATCATCAATGTAA 59.055 43.478 0.00 0.00 0.00 2.41
105 106 1.129811 CCACCGTCGCTTTTACATTCC 59.870 52.381 0.00 0.00 0.00 3.01
142 143 4.196193 CCACCGCTACCATGAATCTTTTA 58.804 43.478 0.00 0.00 0.00 1.52
150 151 3.071837 TCGCCACCGCTACCATGA 61.072 61.111 0.00 0.00 0.00 3.07
154 155 3.701604 CTCAGTCGCCACCGCTACC 62.702 68.421 0.00 0.00 31.12 3.18
160 161 1.227853 AAACACCTCAGTCGCCACC 60.228 57.895 0.00 0.00 0.00 4.61
226 227 1.875514 TGAAGACAATGCACAGTCTGC 59.124 47.619 20.00 18.75 43.88 4.26
239 240 2.503765 TGGTCTCAAGGTGTTGAAGACA 59.496 45.455 14.24 2.63 42.27 3.41
261 262 6.183360 GGCCGAACATTATTGATCACCTTTTA 60.183 38.462 0.00 0.00 0.00 1.52
283 284 1.815817 AAAATTCACCACGCAGGGCC 61.816 55.000 0.00 0.00 43.89 5.80
284 285 0.667184 CAAAATTCACCACGCAGGGC 60.667 55.000 0.00 0.00 43.89 5.19
285 286 0.673437 ACAAAATTCACCACGCAGGG 59.327 50.000 0.00 0.00 43.89 4.45
286 287 3.634568 TTACAAAATTCACCACGCAGG 57.365 42.857 0.00 0.00 45.67 4.85
287 288 4.793071 TCATTACAAAATTCACCACGCAG 58.207 39.130 0.00 0.00 0.00 5.18
288 289 4.837896 TCATTACAAAATTCACCACGCA 57.162 36.364 0.00 0.00 0.00 5.24
289 290 5.861251 TCATTCATTACAAAATTCACCACGC 59.139 36.000 0.00 0.00 0.00 5.34
290 291 8.374728 CAATCATTCATTACAAAATTCACCACG 58.625 33.333 0.00 0.00 0.00 4.94
291 292 9.206870 ACAATCATTCATTACAAAATTCACCAC 57.793 29.630 0.00 0.00 0.00 4.16
372 373 9.403110 GCCAAAAATGATATCACAGTATTGATC 57.597 33.333 7.78 2.56 37.42 2.92
373 374 8.916062 TGCCAAAAATGATATCACAGTATTGAT 58.084 29.630 7.78 0.00 39.61 2.57
374 375 8.190122 GTGCCAAAAATGATATCACAGTATTGA 58.810 33.333 7.78 0.00 0.00 2.57
375 376 7.975058 TGTGCCAAAAATGATATCACAGTATTG 59.025 33.333 7.78 9.07 0.00 1.90
376 377 8.065473 TGTGCCAAAAATGATATCACAGTATT 57.935 30.769 7.78 0.00 0.00 1.89
377 378 7.643569 TGTGCCAAAAATGATATCACAGTAT 57.356 32.000 7.78 0.00 0.00 2.12
378 379 7.459795 TTGTGCCAAAAATGATATCACAGTA 57.540 32.000 7.78 0.00 34.93 2.74
379 380 5.981088 TGTGCCAAAAATGATATCACAGT 57.019 34.783 7.78 0.00 0.00 3.55
380 381 6.256975 CCATTGTGCCAAAAATGATATCACAG 59.743 38.462 7.78 0.00 36.13 3.66
381 382 6.107343 CCATTGTGCCAAAAATGATATCACA 58.893 36.000 7.78 0.00 36.13 3.58
382 383 5.006941 GCCATTGTGCCAAAAATGATATCAC 59.993 40.000 7.78 0.00 36.13 3.06
390 391 5.163281 TCATTAGCCATTGTGCCAAAAAT 57.837 34.783 0.00 0.00 0.00 1.82
403 404 1.754226 GGCCGGAAAAATCATTAGCCA 59.246 47.619 5.05 0.00 39.01 4.75
405 406 3.518634 TTGGCCGGAAAAATCATTAGC 57.481 42.857 5.05 0.00 0.00 3.09
467 471 8.351461 CCGGTAAAATGGTAACTGTTTTCTTTA 58.649 33.333 0.00 0.00 36.76 1.85
470 474 5.278610 GCCGGTAAAATGGTAACTGTTTTCT 60.279 40.000 1.90 0.00 36.76 2.52
471 475 4.919168 GCCGGTAAAATGGTAACTGTTTTC 59.081 41.667 1.90 0.00 36.76 2.29
472 476 4.341520 TGCCGGTAAAATGGTAACTGTTTT 59.658 37.500 1.90 1.22 38.22 2.43
580 598 1.008329 AGCACTAGAGAGACGCGTAC 58.992 55.000 13.97 10.07 32.20 3.67
625 643 1.061711 GCTGAGCATGTGATTCACGTC 59.938 52.381 8.57 5.21 37.14 4.34
867 925 4.452733 GTTCGGGGAGAGTGGGCG 62.453 72.222 0.00 0.00 0.00 6.13
898 973 2.833533 TTGCTGTGTTGCCGAGTGC 61.834 57.895 0.00 0.00 41.77 4.40
907 982 2.094675 AGTGCTTCTTGTTGCTGTGTT 58.905 42.857 0.00 0.00 0.00 3.32
921 1005 5.350504 AGATGATTGCTAGTACAGTGCTT 57.649 39.130 0.00 0.00 0.00 3.91
983 1095 0.939419 CATTGATCAATCAGCCGCGA 59.061 50.000 18.16 0.00 38.19 5.87
1105 1226 2.033602 TGCCCTGACGACGAGAGA 59.966 61.111 0.00 0.00 0.00 3.10
1107 1228 2.596338 TGTGCCCTGACGACGAGA 60.596 61.111 0.00 0.00 0.00 4.04
1189 1318 0.880278 CGTGGCCGTGCTGCTTATAT 60.880 55.000 0.00 0.00 0.00 0.86
1234 1375 3.950395 GGAGCAAATATCAGAAACCTGCT 59.050 43.478 0.00 0.00 41.15 4.24
1649 1807 6.385176 TGTCCTACTACTAGCTAAGTACAGGA 59.615 42.308 10.98 10.98 40.93 3.86
1664 1824 9.935241 ATGATCATCATTTACATGTCCTACTAC 57.065 33.333 0.00 0.00 32.13 2.73
1666 1826 8.099537 GGATGATCATCATTTACATGTCCTACT 58.900 37.037 31.49 0.00 37.20 2.57
1709 1908 4.094442 GGTGAACCGTCTTTAATTAGCAGG 59.906 45.833 0.00 0.00 0.00 4.85
1755 1955 8.837788 TCATAGTACTGAATTGAATGCCATAG 57.162 34.615 5.39 0.00 0.00 2.23
1757 1957 8.701908 AATCATAGTACTGAATTGAATGCCAT 57.298 30.769 5.39 0.00 0.00 4.40
1811 2220 3.807553 CCCAAGTTCTGGCAATTGTTTT 58.192 40.909 7.40 0.00 44.90 2.43
1841 2250 0.880278 TGCGAGTCTGCTTGAACCAC 60.880 55.000 8.13 0.00 35.36 4.16
1896 2323 2.587522 AGGGAAGAAGTTGAAGCAACC 58.412 47.619 6.67 0.00 44.49 3.77
1941 2475 6.219473 TGTTGACTTTTGCTTCTTTTTGTGA 58.781 32.000 0.00 0.00 0.00 3.58
1942 2476 6.464895 TGTTGACTTTTGCTTCTTTTTGTG 57.535 33.333 0.00 0.00 0.00 3.33
1978 2532 4.498241 TCTTCTGGTCGATTCTCATTGTG 58.502 43.478 0.00 0.00 0.00 3.33
2084 3579 5.237344 CCACTTCTAGACTGGTTTGTTCTTG 59.763 44.000 7.30 0.00 0.00 3.02
2128 4230 2.001872 GTTGGGCATAACAATGCTTGC 58.998 47.619 9.95 0.00 46.22 4.01
2154 4256 1.237285 CCCTGAAAACGGCAGTGGAG 61.237 60.000 0.00 0.00 0.00 3.86
2157 4259 0.250553 TACCCCTGAAAACGGCAGTG 60.251 55.000 0.00 0.00 0.00 3.66
2180 4597 3.609853 TCCACTTGCAGGCTACTATTTG 58.390 45.455 0.00 0.00 0.00 2.32
2186 4608 1.270839 TGAGTTCCACTTGCAGGCTAC 60.271 52.381 0.00 0.00 0.00 3.58
2262 5159 7.180051 TGCTAATTTCCAGGGTTGAACATATTT 59.820 33.333 0.00 0.00 0.00 1.40
2341 5824 2.811317 GACAGAACCTCGCCGCTG 60.811 66.667 0.00 0.00 34.65 5.18
2342 5825 2.992114 AGACAGAACCTCGCCGCT 60.992 61.111 0.00 0.00 0.00 5.52
2343 5826 2.811317 CAGACAGAACCTCGCCGC 60.811 66.667 0.00 0.00 0.00 6.53
2344 5827 1.949847 ATCCAGACAGAACCTCGCCG 61.950 60.000 0.00 0.00 0.00 6.46
2345 5828 0.179097 GATCCAGACAGAACCTCGCC 60.179 60.000 0.00 0.00 0.00 5.54
2346 5829 0.179097 GGATCCAGACAGAACCTCGC 60.179 60.000 6.95 0.00 0.00 5.03
2347 5830 0.461961 GGGATCCAGACAGAACCTCG 59.538 60.000 15.23 0.00 0.00 4.63
2348 5831 0.461961 CGGGATCCAGACAGAACCTC 59.538 60.000 15.23 0.00 0.00 3.85
2349 5832 0.978146 CCGGGATCCAGACAGAACCT 60.978 60.000 15.23 0.00 0.00 3.50
2350 5833 1.522569 CCGGGATCCAGACAGAACC 59.477 63.158 15.23 0.00 0.00 3.62
2351 5834 1.522569 CCCGGGATCCAGACAGAAC 59.477 63.158 18.48 0.00 0.00 3.01
2352 5835 1.689233 CCCCGGGATCCAGACAGAA 60.689 63.158 26.32 0.00 0.00 3.02
2353 5836 2.041922 CCCCGGGATCCAGACAGA 60.042 66.667 26.32 0.00 0.00 3.41
2354 5837 3.866582 GCCCCGGGATCCAGACAG 61.867 72.222 26.32 1.85 0.00 3.51
2420 5903 4.107051 GACTGCACCACGCCATGC 62.107 66.667 0.00 0.00 41.33 4.06
2421 5904 3.434319 GGACTGCACCACGCCATG 61.434 66.667 0.00 0.00 41.33 3.66
2422 5905 4.722700 GGGACTGCACCACGCCAT 62.723 66.667 0.00 0.00 41.33 4.40
2434 5917 3.322466 CCGCCTTGGACAGGGACT 61.322 66.667 4.47 0.00 44.16 3.85
2435 5918 3.319198 TCCGCCTTGGACAGGGAC 61.319 66.667 4.47 0.00 43.74 4.46
2443 5926 1.811266 CGTCACAGATCCGCCTTGG 60.811 63.158 0.00 0.00 40.09 3.61
2444 5927 1.811266 CCGTCACAGATCCGCCTTG 60.811 63.158 0.00 0.00 0.00 3.61
2445 5928 2.579201 CCGTCACAGATCCGCCTT 59.421 61.111 0.00 0.00 0.00 4.35
2446 5929 4.148825 GCCGTCACAGATCCGCCT 62.149 66.667 0.00 0.00 0.00 5.52
2448 5931 3.774959 ATCGCCGTCACAGATCCGC 62.775 63.158 0.00 0.00 0.00 5.54
2449 5932 1.658717 GATCGCCGTCACAGATCCG 60.659 63.158 0.00 0.00 35.88 4.18
2450 5933 0.596083 CAGATCGCCGTCACAGATCC 60.596 60.000 1.58 0.00 41.06 3.36
2451 5934 1.211818 GCAGATCGCCGTCACAGATC 61.212 60.000 0.00 0.00 40.61 2.75
2452 5935 1.227089 GCAGATCGCCGTCACAGAT 60.227 57.895 0.00 0.00 32.94 2.90
2453 5936 1.877576 AAGCAGATCGCCGTCACAGA 61.878 55.000 6.02 0.00 44.04 3.41
2454 5937 1.016130 AAAGCAGATCGCCGTCACAG 61.016 55.000 6.02 0.00 44.04 3.66
2455 5938 1.005037 AAAGCAGATCGCCGTCACA 60.005 52.632 6.02 0.00 44.04 3.58
2456 5939 1.421485 CAAAGCAGATCGCCGTCAC 59.579 57.895 6.02 0.00 44.04 3.67
2457 5940 1.741401 CCAAAGCAGATCGCCGTCA 60.741 57.895 6.02 0.00 44.04 4.35
2458 5941 0.811616 ATCCAAAGCAGATCGCCGTC 60.812 55.000 6.02 0.00 44.04 4.79
2459 5942 0.392998 AATCCAAAGCAGATCGCCGT 60.393 50.000 6.02 0.00 44.04 5.68
2460 5943 0.028505 CAATCCAAAGCAGATCGCCG 59.971 55.000 6.02 0.00 44.04 6.46
2461 5944 0.383231 CCAATCCAAAGCAGATCGCC 59.617 55.000 6.02 0.00 44.04 5.54
2462 5945 1.098050 ACCAATCCAAAGCAGATCGC 58.902 50.000 1.92 1.92 42.91 4.58
2463 5946 2.223112 CGAACCAATCCAAAGCAGATCG 60.223 50.000 0.00 0.00 0.00 3.69
2464 5947 2.098117 CCGAACCAATCCAAAGCAGATC 59.902 50.000 0.00 0.00 0.00 2.75
2465 5948 2.094675 CCGAACCAATCCAAAGCAGAT 58.905 47.619 0.00 0.00 0.00 2.90
2466 5949 1.073125 TCCGAACCAATCCAAAGCAGA 59.927 47.619 0.00 0.00 0.00 4.26
2467 5950 1.533625 TCCGAACCAATCCAAAGCAG 58.466 50.000 0.00 0.00 0.00 4.24
2468 5951 2.091541 GATCCGAACCAATCCAAAGCA 58.908 47.619 0.00 0.00 0.00 3.91
2469 5952 2.091541 TGATCCGAACCAATCCAAAGC 58.908 47.619 0.00 0.00 0.00 3.51
2470 5953 3.609853 TCTGATCCGAACCAATCCAAAG 58.390 45.455 0.00 0.00 0.00 2.77
2471 5954 3.263170 TCTCTGATCCGAACCAATCCAAA 59.737 43.478 0.00 0.00 0.00 3.28
2472 5955 2.837591 TCTCTGATCCGAACCAATCCAA 59.162 45.455 0.00 0.00 0.00 3.53
2473 5956 2.168521 GTCTCTGATCCGAACCAATCCA 59.831 50.000 0.00 0.00 0.00 3.41
2474 5957 2.799917 CGTCTCTGATCCGAACCAATCC 60.800 54.545 0.00 0.00 0.00 3.01
2475 5958 2.464865 CGTCTCTGATCCGAACCAATC 58.535 52.381 0.00 0.00 0.00 2.67
2476 5959 1.137086 CCGTCTCTGATCCGAACCAAT 59.863 52.381 0.00 0.00 0.00 3.16
2477 5960 0.530744 CCGTCTCTGATCCGAACCAA 59.469 55.000 0.00 0.00 0.00 3.67
2478 5961 0.611062 ACCGTCTCTGATCCGAACCA 60.611 55.000 0.00 0.00 0.00 3.67
2479 5962 0.179134 CACCGTCTCTGATCCGAACC 60.179 60.000 0.00 0.00 0.00 3.62
2480 5963 0.809385 TCACCGTCTCTGATCCGAAC 59.191 55.000 0.00 0.00 0.00 3.95
2481 5964 0.809385 GTCACCGTCTCTGATCCGAA 59.191 55.000 0.00 0.00 0.00 4.30
2482 5965 1.366854 CGTCACCGTCTCTGATCCGA 61.367 60.000 0.00 0.00 0.00 4.55
2483 5966 1.062685 CGTCACCGTCTCTGATCCG 59.937 63.158 0.00 0.00 0.00 4.18
2484 5967 0.378962 CTCGTCACCGTCTCTGATCC 59.621 60.000 0.00 0.00 35.01 3.36
2485 5968 0.248296 GCTCGTCACCGTCTCTGATC 60.248 60.000 0.00 0.00 35.01 2.92
2486 5969 0.960861 TGCTCGTCACCGTCTCTGAT 60.961 55.000 0.00 0.00 35.01 2.90
2487 5970 0.960861 ATGCTCGTCACCGTCTCTGA 60.961 55.000 0.00 0.00 35.01 3.27
2488 5971 0.799917 CATGCTCGTCACCGTCTCTG 60.800 60.000 0.00 0.00 35.01 3.35
2489 5972 1.508545 CATGCTCGTCACCGTCTCT 59.491 57.895 0.00 0.00 35.01 3.10
2490 5973 2.161486 GCATGCTCGTCACCGTCTC 61.161 63.158 11.37 0.00 35.01 3.36
2491 5974 2.125912 GCATGCTCGTCACCGTCT 60.126 61.111 11.37 0.00 35.01 4.18
2492 5975 3.545481 CGCATGCTCGTCACCGTC 61.545 66.667 17.13 0.00 35.01 4.79
2495 5978 3.740128 ATCCCGCATGCTCGTCACC 62.740 63.158 17.13 0.00 0.00 4.02
2496 5979 2.202932 ATCCCGCATGCTCGTCAC 60.203 61.111 17.13 0.00 0.00 3.67
2497 5980 2.106938 GATCCCGCATGCTCGTCA 59.893 61.111 17.13 0.00 0.00 4.35
2498 5981 2.650813 AAGGATCCCGCATGCTCGTC 62.651 60.000 17.13 8.26 30.26 4.20
2499 5982 2.650813 GAAGGATCCCGCATGCTCGT 62.651 60.000 17.13 5.06 30.26 4.18
2500 5983 1.958205 GAAGGATCCCGCATGCTCG 60.958 63.158 17.13 5.27 30.26 5.03
2501 5984 0.602372 GAGAAGGATCCCGCATGCTC 60.602 60.000 17.13 6.10 30.26 4.26
2502 5985 1.449353 GAGAAGGATCCCGCATGCT 59.551 57.895 17.13 0.00 33.76 3.79
2503 5986 1.958205 CGAGAAGGATCCCGCATGC 60.958 63.158 8.55 7.91 0.00 4.06
2504 5987 1.301244 CCGAGAAGGATCCCGCATG 60.301 63.158 8.55 0.00 45.00 4.06
2505 5988 3.142393 CCGAGAAGGATCCCGCAT 58.858 61.111 8.55 0.00 45.00 4.73
2506 5989 3.849951 GCCGAGAAGGATCCCGCA 61.850 66.667 8.55 0.00 45.00 5.69
2507 5990 4.951963 CGCCGAGAAGGATCCCGC 62.952 72.222 8.55 0.00 45.00 6.13
2508 5991 4.286320 CCGCCGAGAAGGATCCCG 62.286 72.222 8.55 4.49 45.00 5.14
2509 5992 4.610714 GCCGCCGAGAAGGATCCC 62.611 72.222 8.55 0.00 45.00 3.85
2510 5993 3.507597 GAGCCGCCGAGAAGGATCC 62.508 68.421 2.48 2.48 45.00 3.36
2511 5994 2.028337 GAGCCGCCGAGAAGGATC 59.972 66.667 0.00 0.00 45.00 3.36
2512 5995 2.443016 AGAGCCGCCGAGAAGGAT 60.443 61.111 0.00 0.00 45.00 3.24
2513 5996 3.141488 GAGAGCCGCCGAGAAGGA 61.141 66.667 0.00 0.00 45.00 3.36
2514 5997 3.452786 TGAGAGCCGCCGAGAAGG 61.453 66.667 0.00 0.00 44.97 3.46
2515 5998 2.202676 GTGAGAGCCGCCGAGAAG 60.203 66.667 0.00 0.00 0.00 2.85
2516 5999 4.116328 CGTGAGAGCCGCCGAGAA 62.116 66.667 0.00 0.00 0.00 2.87
2521 6004 3.423154 CAAACCGTGAGAGCCGCC 61.423 66.667 0.00 0.00 0.00 6.13
2522 6005 3.423154 CCAAACCGTGAGAGCCGC 61.423 66.667 0.00 0.00 0.00 6.53
2523 6006 3.423154 GCCAAACCGTGAGAGCCG 61.423 66.667 0.00 0.00 0.00 5.52
2524 6007 3.423154 CGCCAAACCGTGAGAGCC 61.423 66.667 0.00 0.00 0.00 4.70
2525 6008 2.357034 TCGCCAAACCGTGAGAGC 60.357 61.111 0.00 0.00 0.00 4.09
2526 6009 1.738099 CCTCGCCAAACCGTGAGAG 60.738 63.158 0.84 0.00 41.93 3.20
2527 6010 2.342279 CCTCGCCAAACCGTGAGA 59.658 61.111 0.84 0.00 41.93 3.27
2528 6011 3.423154 GCCTCGCCAAACCGTGAG 61.423 66.667 0.00 0.00 39.60 3.51
2555 6038 1.383248 TGGAGCCTAGGAGAAGGGC 60.383 63.158 14.75 0.00 45.57 5.19
2556 6039 0.031616 ACTGGAGCCTAGGAGAAGGG 60.032 60.000 14.75 0.00 37.11 3.95
2557 6040 1.118838 CACTGGAGCCTAGGAGAAGG 58.881 60.000 14.75 1.30 39.87 3.46
2558 6041 1.118838 CCACTGGAGCCTAGGAGAAG 58.881 60.000 14.75 6.31 0.00 2.85
2559 6042 0.413832 ACCACTGGAGCCTAGGAGAA 59.586 55.000 14.75 0.00 0.00 2.87
2560 6043 0.324738 CACCACTGGAGCCTAGGAGA 60.325 60.000 14.75 0.00 0.00 3.71
2561 6044 1.333636 CCACCACTGGAGCCTAGGAG 61.334 65.000 14.75 2.88 40.55 3.69
2562 6045 1.306141 CCACCACTGGAGCCTAGGA 60.306 63.158 14.75 0.00 40.55 2.94
2563 6046 3.036429 GCCACCACTGGAGCCTAGG 62.036 68.421 3.67 3.67 40.55 3.02
2564 6047 2.293318 TGCCACCACTGGAGCCTAG 61.293 63.158 0.71 0.00 40.55 3.02
2565 6048 2.203922 TGCCACCACTGGAGCCTA 60.204 61.111 0.71 0.00 40.55 3.93
2566 6049 3.958860 GTGCCACCACTGGAGCCT 61.959 66.667 0.71 0.00 40.55 4.58
2567 6050 4.269523 TGTGCCACCACTGGAGCC 62.270 66.667 0.71 0.23 40.55 4.70
2568 6051 2.980233 GTGTGCCACCACTGGAGC 60.980 66.667 0.71 5.01 40.55 4.70
2569 6052 1.302033 GAGTGTGCCACCACTGGAG 60.302 63.158 0.71 0.00 45.46 3.86
2570 6053 2.043604 CTGAGTGTGCCACCACTGGA 62.044 60.000 0.71 0.00 45.46 3.86
2571 6054 1.598962 CTGAGTGTGCCACCACTGG 60.599 63.158 5.61 0.00 45.46 4.00
2572 6055 1.598962 CCTGAGTGTGCCACCACTG 60.599 63.158 5.61 3.85 45.46 3.66
2574 6057 2.980233 GCCTGAGTGTGCCACCAC 60.980 66.667 0.00 0.00 42.40 4.16
2575 6058 3.480679 CTGCCTGAGTGTGCCACCA 62.481 63.158 0.00 0.77 34.49 4.17
2576 6059 2.670934 CTGCCTGAGTGTGCCACC 60.671 66.667 0.00 0.00 34.49 4.61
2577 6060 2.111878 ACTGCCTGAGTGTGCCAC 59.888 61.111 0.00 0.00 31.75 5.01
2578 6061 2.111669 CACTGCCTGAGTGTGCCA 59.888 61.111 0.00 0.00 46.30 4.92
2597 6080 4.489771 GGATCCCTGGTGCACCGG 62.490 72.222 34.14 34.14 42.13 5.28
2598 6081 4.489771 GGGATCCCTGGTGCACCG 62.490 72.222 30.07 23.10 39.43 4.94
2599 6082 3.338250 TGGGATCCCTGGTGCACC 61.338 66.667 31.05 29.67 36.94 5.01
2600 6083 2.044946 GTGGGATCCCTGGTGCAC 60.045 66.667 31.05 16.16 36.94 4.57
2601 6084 3.716195 CGTGGGATCCCTGGTGCA 61.716 66.667 31.05 7.30 36.94 4.57


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

AutoCloner maintained by Alex Coulton.