Multiple sequence alignment - TraesCS5A01G371800

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 TraesCS5A01G371800 chr5A 100.000 5395 0 0 1 5395 570498924 570504318 0.000000e+00 9963.0
1 TraesCS5A01G371800 chr5A 79.887 1064 194 16 3064 4117 22718139 22719192 0.000000e+00 761.0
2 TraesCS5A01G371800 chr5D 93.270 3596 136 44 1858 5395 451673240 451676787 0.000000e+00 5203.0
3 TraesCS5A01G371800 chr5D 89.238 1431 73 30 429 1828 451671774 451673154 0.000000e+00 1714.0
4 TraesCS5A01G371800 chr5D 80.208 1056 187 18 3070 4117 34077476 34076435 0.000000e+00 773.0
5 TraesCS5A01G371800 chr5D 91.354 347 23 6 1 345 451671237 451671578 8.180000e-128 468.0
6 TraesCS5A01G371800 chr5B 94.940 2332 101 10 1850 4171 551500657 551502981 0.000000e+00 3637.0
7 TraesCS5A01G371800 chr5B 90.744 994 65 14 4201 5179 551503296 551504277 0.000000e+00 1301.0
8 TraesCS5A01G371800 chr5B 87.849 1004 56 20 603 1564 551499157 551500136 0.000000e+00 1118.0
9 TraesCS5A01G371800 chr5B 79.716 1055 194 16 3070 4117 25268831 25267790 0.000000e+00 745.0
10 TraesCS5A01G371800 chr5B 93.407 273 10 3 1557 1828 551500321 551500586 1.090000e-106 398.0
11 TraesCS5A01G371800 chr5B 90.909 187 10 4 5215 5395 551504475 551504660 1.500000e-60 244.0
12 TraesCS5A01G371800 chr5B 93.182 44 2 1 4490 4533 551503549 551503591 4.510000e-06 63.9


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 TraesCS5A01G371800 chr5A 570498924 570504318 5394 False 9963.000000 9963 100.000000 1 5395 1 chr5A.!!$F2 5394
1 TraesCS5A01G371800 chr5A 22718139 22719192 1053 False 761.000000 761 79.887000 3064 4117 1 chr5A.!!$F1 1053
2 TraesCS5A01G371800 chr5D 451671237 451676787 5550 False 2461.666667 5203 91.287333 1 5395 3 chr5D.!!$F1 5394
3 TraesCS5A01G371800 chr5D 34076435 34077476 1041 True 773.000000 773 80.208000 3070 4117 1 chr5D.!!$R1 1047
4 TraesCS5A01G371800 chr5B 551499157 551504660 5503 False 1126.983333 3637 91.838500 603 5395 6 chr5B.!!$F1 4792
5 TraesCS5A01G371800 chr5B 25267790 25268831 1041 True 745.000000 745 79.716000 3070 4117 1 chr5B.!!$R1 1047

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
389 392 0.031178 GGTGTGACAGCTTTGCCTTG 59.969 55.0 7.64 0.0 0.00 3.61 F
1844 2247 0.179108 ATAGCCTTGCGACCGAGTTC 60.179 55.0 0.00 0.0 0.00 3.01 F
2734 3197 0.249031 GAACTGTGTTGCCAACTGCC 60.249 55.0 9.30 0.0 40.16 4.85 F
3285 3751 0.829990 TGATGCCTATCCAGTCGCAA 59.170 50.0 0.00 0.0 34.38 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2212 2674 0.322975 AGGATGTCAGTCACACAGGC 59.677 55.000 0.0 0.0 38.04 4.85 R
3414 3880 0.178903 ACTTGCTGGGGGAGACTGTA 60.179 55.000 0.0 0.0 0.00 2.74 R
4020 4492 0.036010 CTTCGATGGTGAGGGCTTGT 60.036 55.000 0.0 0.0 0.00 3.16 R
4969 5761 1.555075 TCCTGGCTGTTACATCACTCC 59.445 52.381 0.0 0.0 0.00 3.85 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
61 62 3.930634 AAGAAGATGCAAAAGAGCCAC 57.069 42.857 0.00 0.00 0.00 5.01
63 64 1.888512 GAAGATGCAAAAGAGCCACCA 59.111 47.619 0.00 0.00 0.00 4.17
76 78 3.146066 GAGCCACCATTAGTGTTCACAA 58.854 45.455 5.74 0.00 45.74 3.33
97 99 1.160137 AGGTCGCAGCTCAAACATTC 58.840 50.000 0.00 0.00 0.00 2.67
167 169 6.098409 TCCTTTCATCCGGATATATAAGAGGC 59.902 42.308 18.63 0.00 0.00 4.70
172 174 7.500992 TCATCCGGATATATAAGAGGCATTTC 58.499 38.462 18.63 0.00 0.00 2.17
173 175 5.902681 TCCGGATATATAAGAGGCATTTCG 58.097 41.667 0.00 0.00 0.00 3.46
174 176 5.655090 TCCGGATATATAAGAGGCATTTCGA 59.345 40.000 0.00 0.00 0.00 3.71
177 179 6.049790 GGATATATAAGAGGCATTTCGACCC 58.950 44.000 0.00 0.00 0.00 4.46
178 180 4.974645 ATATAAGAGGCATTTCGACCCA 57.025 40.909 0.00 0.00 0.00 4.51
179 181 3.864789 ATAAGAGGCATTTCGACCCAT 57.135 42.857 0.00 0.00 0.00 4.00
180 182 2.044123 AAGAGGCATTTCGACCCATC 57.956 50.000 0.00 0.00 0.00 3.51
182 184 1.281867 AGAGGCATTTCGACCCATCAA 59.718 47.619 0.00 0.00 0.00 2.57
183 185 1.672881 GAGGCATTTCGACCCATCAAG 59.327 52.381 0.00 0.00 0.00 3.02
184 186 1.281867 AGGCATTTCGACCCATCAAGA 59.718 47.619 0.00 0.00 0.00 3.02
185 187 1.401905 GGCATTTCGACCCATCAAGAC 59.598 52.381 0.00 0.00 0.00 3.01
186 188 2.083774 GCATTTCGACCCATCAAGACA 58.916 47.619 0.00 0.00 0.00 3.41
216 218 8.417176 GCTTTGATCAACACTTAATTTTACACG 58.583 33.333 7.89 0.00 0.00 4.49
217 219 7.845617 TTGATCAACACTTAATTTTACACGC 57.154 32.000 3.38 0.00 0.00 5.34
345 348 3.118531 ACCCTCATGGATTAGCTTGTCT 58.881 45.455 0.00 0.00 38.00 3.41
346 349 3.525199 ACCCTCATGGATTAGCTTGTCTT 59.475 43.478 0.00 0.00 38.00 3.01
347 350 3.881688 CCCTCATGGATTAGCTTGTCTTG 59.118 47.826 0.00 0.00 35.39 3.02
348 351 3.314635 CCTCATGGATTAGCTTGTCTTGC 59.685 47.826 0.00 0.00 34.57 4.01
349 352 4.197750 CTCATGGATTAGCTTGTCTTGCT 58.802 43.478 0.00 0.00 43.79 3.91
350 353 5.357742 TCATGGATTAGCTTGTCTTGCTA 57.642 39.130 0.00 0.00 41.46 3.49
351 354 5.363101 TCATGGATTAGCTTGTCTTGCTAG 58.637 41.667 0.00 0.00 42.89 3.42
352 355 4.142609 TGGATTAGCTTGTCTTGCTAGG 57.857 45.455 0.00 0.00 42.89 3.02
353 356 3.774766 TGGATTAGCTTGTCTTGCTAGGA 59.225 43.478 0.00 0.00 42.89 2.94
354 357 4.141846 TGGATTAGCTTGTCTTGCTAGGAG 60.142 45.833 0.00 0.00 42.89 3.69
355 358 3.895232 TTAGCTTGTCTTGCTAGGAGG 57.105 47.619 0.00 0.00 42.89 4.30
356 359 1.944177 AGCTTGTCTTGCTAGGAGGA 58.056 50.000 0.00 0.00 39.21 3.71
357 360 2.260822 AGCTTGTCTTGCTAGGAGGAA 58.739 47.619 0.00 0.00 39.21 3.36
358 361 2.027653 AGCTTGTCTTGCTAGGAGGAAC 60.028 50.000 0.00 0.00 39.21 3.62
359 362 2.937433 GCTTGTCTTGCTAGGAGGAACC 60.937 54.545 0.00 0.00 39.35 3.62
388 391 1.447317 CGGTGTGACAGCTTTGCCTT 61.447 55.000 13.27 0.00 0.00 4.35
389 392 0.031178 GGTGTGACAGCTTTGCCTTG 59.969 55.000 7.64 0.00 0.00 3.61
392 395 1.152694 TGACAGCTTTGCCTTGCCT 60.153 52.632 0.00 0.00 0.00 4.75
393 396 1.174712 TGACAGCTTTGCCTTGCCTC 61.175 55.000 0.00 0.00 0.00 4.70
395 398 2.283460 AGCTTTGCCTTGCCTCCC 60.283 61.111 0.00 0.00 0.00 4.30
396 399 3.385384 GCTTTGCCTTGCCTCCCC 61.385 66.667 0.00 0.00 0.00 4.81
397 400 2.681421 CTTTGCCTTGCCTCCCCC 60.681 66.667 0.00 0.00 0.00 5.40
398 401 3.192630 TTTGCCTTGCCTCCCCCT 61.193 61.111 0.00 0.00 0.00 4.79
399 402 3.224007 TTTGCCTTGCCTCCCCCTC 62.224 63.158 0.00 0.00 0.00 4.30
409 421 1.557371 GCCTCCCCCTCTATTATCTGC 59.443 57.143 0.00 0.00 0.00 4.26
484 623 7.617041 ATTATGTTGGAGAGCTTTGTACTTC 57.383 36.000 0.00 0.00 0.00 3.01
486 625 2.737252 GTTGGAGAGCTTTGTACTTCCG 59.263 50.000 0.00 0.00 0.00 4.30
507 646 6.698380 TCCGGTGAAGCTTTATAATAGATCC 58.302 40.000 0.00 0.00 0.00 3.36
515 654 7.251321 AGCTTTATAATAGATCCAGGTCCTG 57.749 40.000 12.40 12.40 0.00 3.86
516 655 6.789959 AGCTTTATAATAGATCCAGGTCCTGT 59.210 38.462 17.85 0.00 0.00 4.00
529 668 3.312421 CAGGTCCTGTTACACACACAAAG 59.688 47.826 11.09 0.00 0.00 2.77
545 684 2.949644 ACAAAGAAAAACTCGGGGACTG 59.050 45.455 0.00 0.00 0.00 3.51
557 696 5.623169 ACTCGGGGACTGTAAAAACATTAA 58.377 37.500 0.00 0.00 35.30 1.40
558 697 6.243148 ACTCGGGGACTGTAAAAACATTAAT 58.757 36.000 0.00 0.00 35.30 1.40
560 699 8.050930 ACTCGGGGACTGTAAAAACATTAATAT 58.949 33.333 0.00 0.00 35.30 1.28
563 702 9.511144 CGGGGACTGTAAAAACATTAATATTTC 57.489 33.333 0.00 0.00 0.00 2.17
588 727 4.703379 TTTGATCAACAAAGCCCCAAAT 57.297 36.364 7.89 0.00 42.57 2.32
595 734 6.524101 TCAACAAAGCCCCAAATCTTATAC 57.476 37.500 0.00 0.00 0.00 1.47
596 735 6.252995 TCAACAAAGCCCCAAATCTTATACT 58.747 36.000 0.00 0.00 0.00 2.12
597 736 6.152661 TCAACAAAGCCCCAAATCTTATACTG 59.847 38.462 0.00 0.00 0.00 2.74
754 896 4.391405 ACAAGCAGAGAAAAACAAAGGG 57.609 40.909 0.00 0.00 0.00 3.95
757 899 1.270305 GCAGAGAAAAACAAAGGGGGC 60.270 52.381 0.00 0.00 0.00 5.80
847 1003 2.680352 TCGTGCCTCCCTCCACTC 60.680 66.667 0.00 0.00 0.00 3.51
848 1004 2.681778 CGTGCCTCCCTCCACTCT 60.682 66.667 0.00 0.00 0.00 3.24
849 1005 2.716017 CGTGCCTCCCTCCACTCTC 61.716 68.421 0.00 0.00 0.00 3.20
850 1006 2.039624 TGCCTCCCTCCACTCTCC 59.960 66.667 0.00 0.00 0.00 3.71
863 1019 1.229658 CTCTCCTCCCCCACAACCT 60.230 63.158 0.00 0.00 0.00 3.50
865 1021 1.229658 CTCCTCCCCCACAACCTCT 60.230 63.158 0.00 0.00 0.00 3.69
866 1022 1.229529 TCCTCCCCCACAACCTCTC 60.230 63.158 0.00 0.00 0.00 3.20
867 1023 1.229658 CCTCCCCCACAACCTCTCT 60.230 63.158 0.00 0.00 0.00 3.10
885 1041 0.465460 CTCCCTCTCTCTCTCCACCG 60.465 65.000 0.00 0.00 0.00 4.94
896 1052 4.393778 TCCACCGTCTCCTCCCCC 62.394 72.222 0.00 0.00 0.00 5.40
916 1072 1.656095 CGACTCTCAACAAATCGAGCC 59.344 52.381 0.00 0.00 34.77 4.70
921 1077 3.210227 TCTCAACAAATCGAGCCAAACA 58.790 40.909 0.00 0.00 0.00 2.83
966 1122 1.348938 CGAGATCGACGCGTTCTCT 59.651 57.895 27.62 22.18 45.08 3.10
987 1143 4.508128 GATCCGGCCGTCGCTCAA 62.508 66.667 26.12 0.06 37.59 3.02
996 1152 4.821589 GTCGCTCAAGCCCGAGGG 62.822 72.222 3.22 3.22 44.92 4.30
1001 1157 3.327404 TCAAGCCCGAGGGTTCCC 61.327 66.667 10.26 0.00 41.85 3.97
1029 1205 1.004560 TTCTTGGAGCAGAGGCACG 60.005 57.895 0.00 0.00 44.61 5.34
1416 1602 2.284405 TGGGAGGAGGGGTTCGAC 60.284 66.667 0.00 0.00 0.00 4.20
1508 1712 1.634702 GTCTTCACCGTGAGCATCTC 58.365 55.000 0.64 0.00 34.92 2.75
1509 1713 0.532573 TCTTCACCGTGAGCATCTCC 59.467 55.000 0.64 0.00 34.92 3.71
1510 1714 0.534412 CTTCACCGTGAGCATCTCCT 59.466 55.000 0.64 0.00 34.92 3.69
1511 1715 0.532573 TTCACCGTGAGCATCTCCTC 59.467 55.000 0.64 0.00 34.92 3.71
1512 1716 1.142748 CACCGTGAGCATCTCCTCC 59.857 63.158 0.00 0.00 34.92 4.30
1620 2017 7.621832 TTTTTCAGTTGCTTGAACGAATATG 57.378 32.000 0.00 0.00 39.80 1.78
1652 2049 5.278808 GGTGGATGTCAATGGATCAATCATG 60.279 44.000 0.00 0.00 0.00 3.07
1702 2099 7.792374 TGGAGCAAAATCTGATAGTAACATC 57.208 36.000 0.00 0.00 0.00 3.06
1715 2113 9.599866 CTGATAGTAACATCACACCTTATGAAA 57.400 33.333 0.00 0.00 31.67 2.69
1724 2122 9.507329 ACATCACACCTTATGAAATATATGGAC 57.493 33.333 0.00 0.00 0.00 4.02
1725 2123 9.730705 CATCACACCTTATGAAATATATGGACT 57.269 33.333 0.00 0.00 0.00 3.85
1726 2124 9.950496 ATCACACCTTATGAAATATATGGACTC 57.050 33.333 0.00 0.00 0.00 3.36
1727 2125 8.375506 TCACACCTTATGAAATATATGGACTCC 58.624 37.037 0.00 0.00 0.00 3.85
1728 2126 8.378565 CACACCTTATGAAATATATGGACTCCT 58.621 37.037 0.00 0.00 0.00 3.69
1774 2172 4.697352 AGCTACAGTTGCTTTTCTATGTGG 59.303 41.667 3.36 0.00 37.52 4.17
1779 2177 3.194116 AGTTGCTTTTCTATGTGGCCATG 59.806 43.478 9.72 0.00 32.29 3.66
1834 2237 6.639632 TCCAGAATGAATTTATAGCCTTGC 57.360 37.500 0.00 0.00 39.69 4.01
1837 2240 6.138761 CAGAATGAATTTATAGCCTTGCGAC 58.861 40.000 0.00 0.00 39.69 5.19
1844 2247 0.179108 ATAGCCTTGCGACCGAGTTC 60.179 55.000 0.00 0.00 0.00 3.01
1852 2306 1.225745 CGACCGAGTTCAATTGCGC 60.226 57.895 0.00 0.00 0.00 6.09
1875 2329 4.573201 CCATGAACAATTGCAAATCATCCC 59.427 41.667 1.71 0.00 0.00 3.85
1896 2350 5.105392 TCCCTTAGCAAGTTGGCATATTTTG 60.105 40.000 4.75 0.00 35.83 2.44
1901 2355 6.544038 AGCAAGTTGGCATATTTTGTTTTC 57.456 33.333 4.75 0.00 35.83 2.29
1917 2371 6.773976 TTGTTTTCAGTGATTTCTTCCAGT 57.226 33.333 0.00 0.00 0.00 4.00
1925 2379 5.297776 CAGTGATTTCTTCCAGTCAGTTTGT 59.702 40.000 0.00 0.00 0.00 2.83
1975 2430 6.721208 TGATATGCCTTGTTCTTCTTTTCCTT 59.279 34.615 0.00 0.00 0.00 3.36
2033 2488 3.515602 ACAATTCTGGGAACTGCTTCT 57.484 42.857 0.00 0.00 0.00 2.85
2212 2674 6.505039 AAGAAAAACTCGTTTTAATTGCCG 57.495 33.333 8.07 0.00 41.45 5.69
2285 2748 4.183101 GGAACTGAGAGCTCATCAAGAAG 58.817 47.826 17.77 7.39 39.13 2.85
2335 2798 2.027169 GCTCCGTTATCCCCGTCG 59.973 66.667 0.00 0.00 0.00 5.12
2386 2849 5.352569 AGATGAGGTTTCAGTCATTAAAGCG 59.647 40.000 0.00 0.00 37.96 4.68
2446 2909 1.000955 GCTCGAAGGTCCAAGAAGACA 59.999 52.381 0.00 0.00 38.59 3.41
2500 2963 5.853936 TGCTATATTCACAGTGATGGTACC 58.146 41.667 4.43 4.43 0.00 3.34
2668 3131 5.048507 GTCTATTACAGTCACCGGAAATCC 58.951 45.833 9.46 0.00 0.00 3.01
2734 3197 0.249031 GAACTGTGTTGCCAACTGCC 60.249 55.000 9.30 0.00 40.16 4.85
2794 3257 4.628766 GGTTTACGGTCACTAAAGGCTAAG 59.371 45.833 0.00 0.00 0.00 2.18
2851 3314 3.392616 AGGGAGGTGATGATATTGACCAC 59.607 47.826 0.00 0.00 0.00 4.16
2898 3361 5.221048 CCGATGGATCACAGGTAAAATTTCC 60.221 44.000 0.00 0.00 0.00 3.13
2899 3362 5.590259 CGATGGATCACAGGTAAAATTTCCT 59.410 40.000 0.00 0.00 33.96 3.36
2917 3380 8.735692 AATTTCCTCTTTTTCTTTTCATTGCA 57.264 26.923 0.00 0.00 0.00 4.08
2920 3383 7.718272 TCCTCTTTTTCTTTTCATTGCATTG 57.282 32.000 2.08 2.08 0.00 2.82
2921 3384 7.274447 TCCTCTTTTTCTTTTCATTGCATTGT 58.726 30.769 8.36 0.00 0.00 2.71
2922 3385 7.225145 TCCTCTTTTTCTTTTCATTGCATTGTG 59.775 33.333 8.36 0.00 0.00 3.33
2953 3418 2.026262 TCAGTATCCTGTTCTTTGGCCC 60.026 50.000 0.00 0.00 39.82 5.80
2997 3463 7.424803 CACAGAACTGTTTTTGAATGTCCATA 58.575 34.615 4.63 0.00 42.83 2.74
3002 3468 8.647143 AACTGTTTTTGAATGTCCATAACTTG 57.353 30.769 0.00 0.00 0.00 3.16
3003 3469 6.701400 ACTGTTTTTGAATGTCCATAACTTGC 59.299 34.615 0.00 0.00 0.00 4.01
3042 3508 2.159476 TCAATTGCAGCGATCAAGAAGC 60.159 45.455 0.00 0.00 0.00 3.86
3285 3751 0.829990 TGATGCCTATCCAGTCGCAA 59.170 50.000 0.00 0.00 34.38 4.85
3414 3880 4.660938 GCCAAGACCCGGCCACTT 62.661 66.667 2.24 0.00 44.22 3.16
3528 3994 6.122277 GTCCTTTGATAACATCTGGGATGAA 58.878 40.000 13.51 3.00 0.00 2.57
3728 4194 2.615240 CCATGATTCACAAGGTGTCCGA 60.615 50.000 0.00 0.00 34.79 4.55
4041 4513 1.557269 AAGCCCTCACCATCGAAGCT 61.557 55.000 0.00 0.00 0.00 3.74
4047 4519 0.320374 TCACCATCGAAGCTCCGTTT 59.680 50.000 0.00 0.00 0.00 3.60
4056 4528 2.755650 GAAGCTCCGTTTGAGTTCTCA 58.244 47.619 0.00 0.00 43.48 3.27
4193 4666 1.619704 GCTGCCTTTTTCCCCCTGTAT 60.620 52.381 0.00 0.00 0.00 2.29
4274 5034 4.073200 GCCAGCCGCCTGCATTTT 62.073 61.111 0.00 0.00 44.83 1.82
4316 5076 4.039973 TCCTGCCTATCTTGTATTAACCGG 59.960 45.833 0.00 0.00 0.00 5.28
4317 5077 4.039973 CCTGCCTATCTTGTATTAACCGGA 59.960 45.833 9.46 0.00 0.00 5.14
4318 5078 5.280011 CCTGCCTATCTTGTATTAACCGGAT 60.280 44.000 9.46 0.00 0.00 4.18
4332 5092 9.268268 GTATTAACCGGATGATCTTTGTAATCA 57.732 33.333 9.46 0.00 37.53 2.57
4364 5124 6.159988 CCCTTGTACTAATCGATGAGGAATC 58.840 44.000 14.50 0.00 0.00 2.52
4372 5132 3.969287 TCGATGAGGAATCCCATCATC 57.031 47.619 21.94 19.64 40.18 2.92
4378 5138 5.557576 TGAGGAATCCCATCATCTTACTG 57.442 43.478 0.00 0.00 31.64 2.74
4483 5260 2.270352 AAATGACTGCCCGTTCTTGA 57.730 45.000 0.00 0.00 0.00 3.02
4486 5263 0.396435 TGACTGCCCGTTCTTGATGT 59.604 50.000 0.00 0.00 0.00 3.06
4645 5430 1.080974 ACGAGCTGCTGCAAAATGC 60.081 52.632 18.42 3.39 45.29 3.56
4673 5458 6.225318 TCAAAAGCATCCTCCAATCTTTTTG 58.775 36.000 0.00 0.00 35.52 2.44
4759 5546 6.029346 ACCTTTTGATGAATACTGGCTTTG 57.971 37.500 0.00 0.00 0.00 2.77
4780 5567 4.630111 TGTTTTCTTAATTTGCAGGGCAG 58.370 39.130 0.00 0.00 40.61 4.85
4781 5568 3.959535 TTTCTTAATTTGCAGGGCAGG 57.040 42.857 0.00 0.00 40.61 4.85
4782 5569 2.603075 TCTTAATTTGCAGGGCAGGT 57.397 45.000 0.00 0.00 40.61 4.00
4828 5615 0.035820 TATCGCGGGCCTGAGTTTTT 60.036 50.000 18.31 1.96 0.00 1.94
4865 5657 4.994217 TCATTTCGTCACATGCTGACTTTA 59.006 37.500 19.39 9.49 46.50 1.85
4891 5683 4.329462 AATTTTGCCGCTAGAAAAACCA 57.671 36.364 0.00 0.00 0.00 3.67
4969 5761 7.215789 ACTTGGTCAGAATATGATTAGCTCAG 58.784 38.462 0.00 0.00 40.92 3.35
5095 5890 8.557450 AGTTTTATACTATGTGAATGTCCCCTT 58.443 33.333 0.00 0.00 34.56 3.95
5096 5891 8.837389 GTTTTATACTATGTGAATGTCCCCTTC 58.163 37.037 0.00 0.00 0.00 3.46
5097 5892 7.684317 TTATACTATGTGAATGTCCCCTTCA 57.316 36.000 0.00 0.00 0.00 3.02
5158 5959 8.773404 AGTATTTACTATTTTGTGAGCGACTT 57.227 30.769 0.00 0.00 34.13 3.01
5165 5966 0.387929 TTGTGAGCGACTTCGACCTT 59.612 50.000 2.02 0.00 43.02 3.50
5247 6240 8.863086 AGGAATTGGGTACATCATAATCATTTG 58.137 33.333 0.00 0.00 0.00 2.32
5325 6318 3.733337 AGCAAGTTTCGGGCATAGATAG 58.267 45.455 0.00 0.00 0.00 2.08
5327 6320 4.040952 AGCAAGTTTCGGGCATAGATAGAT 59.959 41.667 0.00 0.00 0.00 1.98
5328 6321 5.246203 AGCAAGTTTCGGGCATAGATAGATA 59.754 40.000 0.00 0.00 0.00 1.98
5350 6343 2.482494 CCCAGATTTCAGGGTCTAGGT 58.518 52.381 0.00 0.00 37.84 3.08
5352 6345 3.118223 CCCAGATTTCAGGGTCTAGGTTC 60.118 52.174 0.00 0.00 37.84 3.62
5353 6346 3.430929 CCAGATTTCAGGGTCTAGGTTCG 60.431 52.174 0.00 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 4.316025 AGTAGGGTTAACCATGCACAAT 57.684 40.909 25.80 5.69 43.89 2.71
24 25 7.012421 GCATCTTCTTTAGTAGGGTTAACCATG 59.988 40.741 25.71 15.59 43.89 3.66
61 62 4.783242 CGACCTTTTGTGAACACTAATGG 58.217 43.478 21.76 21.76 42.52 3.16
63 64 3.880490 TGCGACCTTTTGTGAACACTAAT 59.120 39.130 6.51 0.00 0.00 1.73
76 78 1.609208 ATGTTTGAGCTGCGACCTTT 58.391 45.000 0.00 0.00 0.00 3.11
113 115 9.725206 TTCTTTTAGATAGGTGGGACTACTATT 57.275 33.333 0.00 0.00 30.69 1.73
119 121 6.070136 GGACTTTCTTTTAGATAGGTGGGACT 60.070 42.308 0.00 0.00 29.14 3.85
120 122 6.070136 AGGACTTTCTTTTAGATAGGTGGGAC 60.070 42.308 0.00 0.00 29.14 4.46
122 124 6.314899 AGGACTTTCTTTTAGATAGGTGGG 57.685 41.667 0.00 0.00 29.14 4.61
123 125 7.883311 TGAAAGGACTTTCTTTTAGATAGGTGG 59.117 37.037 21.40 0.00 46.67 4.61
124 126 8.848474 TGAAAGGACTTTCTTTTAGATAGGTG 57.152 34.615 21.40 0.00 46.67 4.00
125 127 9.674068 GATGAAAGGACTTTCTTTTAGATAGGT 57.326 33.333 21.40 0.00 46.67 3.08
129 131 6.599638 CCGGATGAAAGGACTTTCTTTTAGAT 59.400 38.462 21.40 8.88 46.67 1.98
149 151 6.323996 TCGAAATGCCTCTTATATATCCGGAT 59.676 38.462 22.95 22.95 0.00 4.18
153 155 6.049790 GGGTCGAAATGCCTCTTATATATCC 58.950 44.000 0.00 0.00 0.00 2.59
167 169 4.379813 CCTTTGTCTTGATGGGTCGAAATG 60.380 45.833 0.00 0.00 0.00 2.32
172 174 0.804989 GCCTTTGTCTTGATGGGTCG 59.195 55.000 0.00 0.00 0.00 4.79
173 175 2.206576 AGCCTTTGTCTTGATGGGTC 57.793 50.000 0.00 0.00 0.00 4.46
174 176 2.629617 CAAAGCCTTTGTCTTGATGGGT 59.370 45.455 9.06 0.00 35.94 4.51
177 179 5.381174 TGATCAAAGCCTTTGTCTTGATG 57.619 39.130 16.33 0.00 41.36 3.07
178 180 5.302568 TGTTGATCAAAGCCTTTGTCTTGAT 59.697 36.000 16.33 2.80 41.36 2.57
179 181 4.644234 TGTTGATCAAAGCCTTTGTCTTGA 59.356 37.500 16.33 0.00 41.36 3.02
180 182 4.741676 GTGTTGATCAAAGCCTTTGTCTTG 59.258 41.667 16.33 0.00 41.36 3.02
182 184 4.210331 AGTGTTGATCAAAGCCTTTGTCT 58.790 39.130 16.33 5.98 41.36 3.41
183 185 4.574599 AGTGTTGATCAAAGCCTTTGTC 57.425 40.909 16.33 13.11 41.36 3.18
184 186 6.463995 TTAAGTGTTGATCAAAGCCTTTGT 57.536 33.333 16.33 4.72 41.36 2.83
185 187 7.951530 AATTAAGTGTTGATCAAAGCCTTTG 57.048 32.000 10.35 10.99 41.96 2.77
186 188 8.962884 AAAATTAAGTGTTGATCAAAGCCTTT 57.037 26.923 10.35 3.79 0.00 3.11
216 218 6.764308 ATATATGTGGAATAAGGCACATGC 57.236 37.500 0.01 0.00 38.53 4.06
217 219 9.453572 AGTAATATATGTGGAATAAGGCACATG 57.546 33.333 0.01 0.00 38.53 3.21
222 224 9.672673 ATGACAGTAATATATGTGGAATAAGGC 57.327 33.333 0.00 0.00 0.00 4.35
276 278 5.749596 TGAATCACAACCGCAATAATAGG 57.250 39.130 0.00 0.00 0.00 2.57
318 321 3.070018 GCTAATCCATGAGGGTCATTCG 58.930 50.000 0.00 0.00 34.28 3.34
352 355 2.579738 GCCGAGTGGAGGTTCCTC 59.420 66.667 10.13 10.13 37.46 3.71
353 356 3.382832 CGCCGAGTGGAGGTTCCT 61.383 66.667 0.00 0.00 37.46 3.36
359 362 3.680786 TCACACCGCCGAGTGGAG 61.681 66.667 10.01 5.20 42.28 3.86
360 363 3.986006 GTCACACCGCCGAGTGGA 61.986 66.667 10.01 2.99 42.28 4.02
361 364 4.293648 TGTCACACCGCCGAGTGG 62.294 66.667 9.84 2.39 42.28 4.00
362 365 2.734723 CTGTCACACCGCCGAGTG 60.735 66.667 4.51 4.51 43.65 3.51
363 366 4.664677 GCTGTCACACCGCCGAGT 62.665 66.667 0.00 0.00 0.00 4.18
364 367 3.865929 AAGCTGTCACACCGCCGAG 62.866 63.158 0.00 0.00 0.00 4.63
365 368 3.454587 AAAGCTGTCACACCGCCGA 62.455 57.895 0.00 0.00 0.00 5.54
366 369 2.972505 AAAGCTGTCACACCGCCG 60.973 61.111 0.00 0.00 0.00 6.46
367 370 2.639286 CAAAGCTGTCACACCGCC 59.361 61.111 0.00 0.00 0.00 6.13
374 377 1.152694 AGGCAAGGCAAAGCTGTCA 60.153 52.632 0.00 0.00 0.00 3.58
388 391 2.907892 CAGATAATAGAGGGGGAGGCA 58.092 52.381 0.00 0.00 0.00 4.75
389 392 1.557371 GCAGATAATAGAGGGGGAGGC 59.443 57.143 0.00 0.00 0.00 4.70
417 429 8.390921 CCCCAAACATAATAACTCATATAGGGT 58.609 37.037 0.00 0.00 0.00 4.34
419 431 9.807921 AACCCCAAACATAATAACTCATATAGG 57.192 33.333 0.00 0.00 0.00 2.57
423 435 9.535170 TCAAAACCCCAAACATAATAACTCATA 57.465 29.630 0.00 0.00 0.00 2.15
424 436 8.311109 GTCAAAACCCCAAACATAATAACTCAT 58.689 33.333 0.00 0.00 0.00 2.90
425 437 7.256012 GGTCAAAACCCCAAACATAATAACTCA 60.256 37.037 0.00 0.00 39.93 3.41
426 438 7.094631 GGTCAAAACCCCAAACATAATAACTC 58.905 38.462 0.00 0.00 39.93 3.01
427 439 6.999950 GGTCAAAACCCCAAACATAATAACT 58.000 36.000 0.00 0.00 39.93 2.24
448 586 8.940952 GCTCTCCAACATAATAAATCATAGGTC 58.059 37.037 0.00 0.00 0.00 3.85
468 606 1.275573 ACCGGAAGTACAAAGCTCTCC 59.724 52.381 9.46 0.00 0.00 3.71
484 623 6.464222 TGGATCTATTATAAAGCTTCACCGG 58.536 40.000 0.00 0.00 0.00 5.28
486 625 7.454225 ACCTGGATCTATTATAAAGCTTCACC 58.546 38.462 0.00 0.00 0.00 4.02
493 632 9.930693 GTAACAGGACCTGGATCTATTATAAAG 57.069 37.037 25.34 0.00 35.51 1.85
515 654 5.510323 CCGAGTTTTTCTTTGTGTGTGTAAC 59.490 40.000 0.00 0.00 37.35 2.50
516 655 5.392165 CCCGAGTTTTTCTTTGTGTGTGTAA 60.392 40.000 0.00 0.00 0.00 2.41
529 668 5.163632 TGTTTTTACAGTCCCCGAGTTTTTC 60.164 40.000 0.00 0.00 0.00 2.29
557 696 7.983484 GGGCTTTGTTGATCAAATGAGAAATAT 59.017 33.333 10.35 0.00 43.78 1.28
558 697 7.322664 GGGCTTTGTTGATCAAATGAGAAATA 58.677 34.615 10.35 0.00 43.78 1.40
560 699 5.511202 GGGGCTTTGTTGATCAAATGAGAAA 60.511 40.000 10.35 0.00 43.78 2.52
563 702 3.258872 TGGGGCTTTGTTGATCAAATGAG 59.741 43.478 10.35 9.00 43.78 2.90
576 715 6.828785 AGTACAGTATAAGATTTGGGGCTTTG 59.171 38.462 0.00 0.00 0.00 2.77
584 723 9.760660 GCTTGTCAAAGTACAGTATAAGATTTG 57.239 33.333 0.00 0.00 35.69 2.32
588 727 8.896320 TTTGCTTGTCAAAGTACAGTATAAGA 57.104 30.769 0.00 0.00 39.58 2.10
595 734 8.801715 ACATATTTTTGCTTGTCAAAGTACAG 57.198 30.769 0.00 0.00 44.62 2.74
596 735 7.865385 GGACATATTTTTGCTTGTCAAAGTACA 59.135 33.333 0.00 0.00 44.62 2.90
597 736 8.082242 AGGACATATTTTTGCTTGTCAAAGTAC 58.918 33.333 4.52 0.00 44.62 2.73
778 934 0.955905 TAGGGGCAGAAAAACGTTGC 59.044 50.000 0.00 0.00 37.11 4.17
847 1003 1.229658 AGAGGTTGTGGGGGAGGAG 60.230 63.158 0.00 0.00 0.00 3.69
848 1004 1.229529 GAGAGGTTGTGGGGGAGGA 60.230 63.158 0.00 0.00 0.00 3.71
849 1005 1.229658 AGAGAGGTTGTGGGGGAGG 60.230 63.158 0.00 0.00 0.00 4.30
850 1006 1.268283 GGAGAGAGGTTGTGGGGGAG 61.268 65.000 0.00 0.00 0.00 4.30
863 1019 1.843851 GTGGAGAGAGAGAGGGAGAGA 59.156 57.143 0.00 0.00 0.00 3.10
865 1021 0.923358 GGTGGAGAGAGAGAGGGAGA 59.077 60.000 0.00 0.00 0.00 3.71
866 1022 0.465460 CGGTGGAGAGAGAGAGGGAG 60.465 65.000 0.00 0.00 0.00 4.30
867 1023 1.208844 ACGGTGGAGAGAGAGAGGGA 61.209 60.000 0.00 0.00 0.00 4.20
885 1041 1.454295 GAGAGTCGGGGGAGGAGAC 60.454 68.421 0.00 0.00 35.30 3.36
896 1052 1.656095 GGCTCGATTTGTTGAGAGTCG 59.344 52.381 0.00 0.00 34.04 4.18
916 1072 3.209266 GGATTTTGCCGGGTGTTTG 57.791 52.632 2.18 0.00 0.00 2.93
951 1107 0.653897 CGGTAGAGAACGCGTCGATC 60.654 60.000 14.44 11.34 0.00 3.69
952 1108 1.086067 TCGGTAGAGAACGCGTCGAT 61.086 55.000 14.44 0.13 0.00 3.59
955 1111 0.316854 GGATCGGTAGAGAACGCGTC 60.317 60.000 14.44 6.38 0.00 5.19
957 1113 1.368969 CGGATCGGTAGAGAACGCG 60.369 63.158 3.53 3.53 0.00 6.01
979 1135 4.821589 CCCTCGGGCTTGAGCGAC 62.822 72.222 0.00 0.00 43.26 5.19
996 1152 0.034476 AAGAAGACGAACCGGGGAAC 59.966 55.000 6.32 0.00 0.00 3.62
1001 1157 1.014564 GCTCCAAGAAGACGAACCGG 61.015 60.000 0.00 0.00 0.00 5.28
1089 1272 1.454201 GCGGAGGAGGAAAGGAAAAG 58.546 55.000 0.00 0.00 0.00 2.27
1141 1324 2.070039 CCACCATCTAGGCCGGGAA 61.070 63.158 2.18 0.00 43.14 3.97
1142 1325 2.445845 CCACCATCTAGGCCGGGA 60.446 66.667 2.18 0.00 43.14 5.14
1508 1712 0.398381 CAAGGAGAGGAGAGGGGAGG 60.398 65.000 0.00 0.00 0.00 4.30
1509 1713 1.048160 GCAAGGAGAGGAGAGGGGAG 61.048 65.000 0.00 0.00 0.00 4.30
1510 1714 1.002274 GCAAGGAGAGGAGAGGGGA 59.998 63.158 0.00 0.00 0.00 4.81
1511 1715 1.002792 AGCAAGGAGAGGAGAGGGG 59.997 63.158 0.00 0.00 0.00 4.79
1512 1716 1.336632 CCAGCAAGGAGAGGAGAGGG 61.337 65.000 0.00 0.00 41.22 4.30
1620 2017 3.440173 CCATTGACATCCACCAACTACAC 59.560 47.826 0.00 0.00 0.00 2.90
1652 2049 1.077716 AGGAATACAGTTGCCCGCC 60.078 57.895 0.00 0.00 0.00 6.13
1702 2099 8.378565 AGGAGTCCATATATTTCATAAGGTGTG 58.621 37.037 12.86 0.00 0.00 3.82
1718 2116 9.220906 ACTGGTAAACATAATAAGGAGTCCATA 57.779 33.333 12.86 3.85 0.00 2.74
1719 2117 8.102484 ACTGGTAAACATAATAAGGAGTCCAT 57.898 34.615 12.86 0.97 0.00 3.41
1720 2118 7.504926 ACTGGTAAACATAATAAGGAGTCCA 57.495 36.000 12.86 0.00 0.00 4.02
1722 2120 9.028185 CGTTACTGGTAAACATAATAAGGAGTC 57.972 37.037 0.00 0.00 0.00 3.36
1723 2121 8.752187 TCGTTACTGGTAAACATAATAAGGAGT 58.248 33.333 0.00 0.00 0.00 3.85
1724 2122 9.760077 ATCGTTACTGGTAAACATAATAAGGAG 57.240 33.333 0.00 0.00 0.00 3.69
1779 2177 4.142609 TGAGAGCAGGAAACATGATACC 57.857 45.455 0.00 0.00 0.00 2.73
1834 2237 1.225745 GCGCAATTGAACTCGGTCG 60.226 57.895 10.34 1.38 0.00 4.79
1837 2240 0.523968 CATGGCGCAATTGAACTCGG 60.524 55.000 10.83 0.00 0.00 4.63
1844 2247 3.377434 CAATTGTTCATGGCGCAATTG 57.623 42.857 22.83 22.83 46.79 2.32
1852 2306 4.573201 GGGATGATTTGCAATTGTTCATGG 59.427 41.667 15.26 0.00 0.00 3.66
1875 2329 7.656707 AAACAAAATATGCCAACTTGCTAAG 57.343 32.000 0.00 0.00 0.00 2.18
1896 2350 6.038714 ACTGACTGGAAGAAATCACTGAAAAC 59.961 38.462 0.00 0.00 37.43 2.43
1901 2355 5.297776 ACAAACTGACTGGAAGAAATCACTG 59.702 40.000 0.00 0.00 37.43 3.66
1913 2367 4.396166 AGTCACTCAAAACAAACTGACTGG 59.604 41.667 0.00 0.00 37.54 4.00
1917 2371 5.391950 GCTGAAGTCACTCAAAACAAACTGA 60.392 40.000 0.00 0.00 0.00 3.41
1925 2379 2.172505 TCCCTGCTGAAGTCACTCAAAA 59.827 45.455 0.00 0.00 0.00 2.44
1975 2430 1.955778 CTTTGTTCACATCCTGCCACA 59.044 47.619 0.00 0.00 0.00 4.17
2212 2674 0.322975 AGGATGTCAGTCACACAGGC 59.677 55.000 0.00 0.00 38.04 4.85
2257 2720 1.277273 TGAGCTCTCAGTTCCACCATG 59.723 52.381 16.19 0.00 34.14 3.66
2285 2748 0.445436 CGTTGTGAAGCATCAGAGGC 59.555 55.000 0.00 0.00 35.88 4.70
2335 2798 2.303022 TCCAGGGACAGAATCACAAGAC 59.697 50.000 0.00 0.00 30.38 3.01
2386 2849 5.269991 AGGATTTTTACCTTTCTTAGCCCC 58.730 41.667 0.00 0.00 33.55 5.80
2446 2909 1.747355 CTGCCTTCATCGCTTTGGAAT 59.253 47.619 0.00 0.00 0.00 3.01
2500 2963 4.360563 GCTCGGTACCATATGGATATTCG 58.639 47.826 28.77 20.67 38.94 3.34
2668 3131 1.067974 TCTACATGGTAACCGGCATCG 59.932 52.381 0.00 0.00 0.00 3.84
2794 3257 2.772287 CTCTTCAACAGAGGTTCACCC 58.228 52.381 0.00 0.00 45.10 4.61
2851 3314 1.944676 GGTTAGCAGCCGACGATCG 60.945 63.158 14.88 14.88 40.07 3.69
2898 3361 8.133754 TCACAATGCAATGAAAAGAAAAAGAG 57.866 30.769 9.20 0.00 0.00 2.85
2899 3362 8.489990 TTCACAATGCAATGAAAAGAAAAAGA 57.510 26.923 9.20 0.00 31.95 2.52
2936 3401 2.239654 CTCTGGGCCAAAGAACAGGATA 59.760 50.000 8.04 0.00 0.00 2.59
2953 3418 3.270877 GTGGTATACAACAAGGCCTCTG 58.729 50.000 5.23 9.66 0.00 3.35
2997 3463 5.376854 AGAAATATTGTTCAGCGCAAGTT 57.623 34.783 11.47 0.00 41.68 2.66
3002 3468 6.875926 ATTGAAAGAAATATTGTTCAGCGC 57.124 33.333 0.00 0.00 31.98 5.92
3003 3469 7.148771 TGCAATTGAAAGAAATATTGTTCAGCG 60.149 33.333 10.34 0.00 31.98 5.18
3042 3508 2.283298 CCATGAACTGACCCATCTTCG 58.717 52.381 0.00 0.00 0.00 3.79
3207 3673 2.706636 AAGTGACGTGCATGCACTT 58.293 47.368 39.46 34.17 45.21 3.16
3285 3751 5.366768 TCCTTCTCGGATCAGGTTATCAAAT 59.633 40.000 0.00 0.00 36.69 2.32
3414 3880 0.178903 ACTTGCTGGGGGAGACTGTA 60.179 55.000 0.00 0.00 0.00 2.74
3528 3994 1.077644 CTCTGCTGCCTGGCTGATT 60.078 57.895 27.16 0.00 38.94 2.57
3728 4194 1.668151 GGTTGCGCCTTCTTCTCGT 60.668 57.895 4.18 0.00 0.00 4.18
4020 4492 0.036010 CTTCGATGGTGAGGGCTTGT 60.036 55.000 0.00 0.00 0.00 3.16
4030 4502 0.320374 TCAAACGGAGCTTCGATGGT 59.680 50.000 24.16 2.26 0.00 3.55
4041 4513 1.610624 GGCCATGAGAACTCAAACGGA 60.611 52.381 16.80 0.00 43.58 4.69
4047 4519 1.900351 CTCGGGCCATGAGAACTCA 59.100 57.895 17.07 6.98 44.59 3.41
4076 4548 3.055580 CTAGGGCGAGCTCCATCC 58.944 66.667 8.47 7.32 0.00 3.51
4193 4666 3.610040 ATTAGACATGGAACGAGCACA 57.390 42.857 0.00 0.00 0.00 4.57
4274 5034 2.346803 GAGCAATCGCCTCTTTGTACA 58.653 47.619 0.00 0.00 39.83 2.90
4316 5076 7.072030 GGTTATGCGTGATTACAAAGATCATC 58.928 38.462 0.00 0.00 36.07 2.92
4317 5077 6.017109 GGGTTATGCGTGATTACAAAGATCAT 60.017 38.462 0.00 0.00 36.07 2.45
4318 5078 5.295787 GGGTTATGCGTGATTACAAAGATCA 59.704 40.000 0.00 0.00 0.00 2.92
4332 5092 4.098349 TCGATTAGTACAAGGGTTATGCGT 59.902 41.667 0.00 0.00 0.00 5.24
4364 5124 6.127897 GGTCAAAACTTCAGTAAGATGATGGG 60.128 42.308 0.00 0.00 36.50 4.00
4372 5132 7.698130 CAGAAACAAGGTCAAAACTTCAGTAAG 59.302 37.037 0.00 0.00 38.77 2.34
4378 5138 6.417930 GCATACAGAAACAAGGTCAAAACTTC 59.582 38.462 0.00 0.00 0.00 3.01
4483 5260 5.458041 AAGTTTCAGCAACAGCATTACAT 57.542 34.783 0.00 0.00 37.93 2.29
4486 5263 5.523188 CCAAAAAGTTTCAGCAACAGCATTA 59.477 36.000 0.00 0.00 37.93 1.90
4639 5424 3.196254 AGGATGCTTTTGATCCGCATTTT 59.804 39.130 9.33 1.42 43.77 1.82
4645 5430 2.042686 TGGAGGATGCTTTTGATCCG 57.957 50.000 0.00 0.00 43.78 4.18
4673 5458 2.389059 CGAGATCACATGACGATCCAC 58.611 52.381 19.54 14.90 40.17 4.02
4752 5539 5.526846 CCTGCAAATTAAGAAAACAAAGCCA 59.473 36.000 0.00 0.00 0.00 4.75
4759 5546 3.996363 CCTGCCCTGCAAATTAAGAAAAC 59.004 43.478 0.00 0.00 38.41 2.43
4780 5567 5.239963 TGTTCTCTACCGAAAATTCCAAACC 59.760 40.000 0.00 0.00 0.00 3.27
4781 5568 6.308371 TGTTCTCTACCGAAAATTCCAAAC 57.692 37.500 0.00 0.00 0.00 2.93
4782 5569 6.128391 CGATGTTCTCTACCGAAAATTCCAAA 60.128 38.462 0.00 0.00 0.00 3.28
4828 5615 9.478768 TGTGACGAAATGAGTTACTACAAATTA 57.521 29.630 0.00 0.00 0.00 1.40
4865 5657 8.254508 TGGTTTTTCTAGCGGCAAAATTATATT 58.745 29.630 1.45 0.00 0.00 1.28
4891 5683 8.916062 TGCACCATTATATTCAGACAAATCAAT 58.084 29.630 0.00 0.00 0.00 2.57
4912 5704 7.410728 CGACTATGACAATTTTTCAAATGCACC 60.411 37.037 0.00 0.00 0.00 5.01
4969 5761 1.555075 TCCTGGCTGTTACATCACTCC 59.445 52.381 0.00 0.00 0.00 3.85
5095 5890 9.554395 TTAACTACAGAAAGATTGTGATTGTGA 57.446 29.630 0.00 0.00 0.00 3.58
5096 5891 9.817365 CTTAACTACAGAAAGATTGTGATTGTG 57.183 33.333 0.00 0.00 0.00 3.33
5097 5892 8.507249 GCTTAACTACAGAAAGATTGTGATTGT 58.493 33.333 0.00 0.00 0.00 2.71
5098 5893 8.725148 AGCTTAACTACAGAAAGATTGTGATTG 58.275 33.333 0.00 0.00 0.00 2.67
5099 5894 8.725148 CAGCTTAACTACAGAAAGATTGTGATT 58.275 33.333 0.00 0.00 0.00 2.57
5100 5895 7.335422 CCAGCTTAACTACAGAAAGATTGTGAT 59.665 37.037 0.00 0.00 0.00 3.06
5293 6286 4.276431 CCCGAAACTTGCTAACTTGGTAAA 59.724 41.667 0.00 0.00 0.00 2.01
5345 6338 4.612943 GAGTCATCTTTAGCCGAACCTAG 58.387 47.826 0.00 0.00 0.00 3.02
5346 6339 3.066342 CGAGTCATCTTTAGCCGAACCTA 59.934 47.826 0.00 0.00 0.00 3.08
5347 6340 2.159226 CGAGTCATCTTTAGCCGAACCT 60.159 50.000 0.00 0.00 0.00 3.50
5348 6341 2.194271 CGAGTCATCTTTAGCCGAACC 58.806 52.381 0.00 0.00 0.00 3.62
5350 6343 1.822990 ACCGAGTCATCTTTAGCCGAA 59.177 47.619 0.00 0.00 0.00 4.30
5352 6345 2.295253 AACCGAGTCATCTTTAGCCG 57.705 50.000 0.00 0.00 0.00 5.52
5353 6346 4.120589 CCTTAACCGAGTCATCTTTAGCC 58.879 47.826 0.00 0.00 0.00 3.93


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

AutoCloner maintained by Alex Coulton.