Multiple sequence alignment - TraesCS5B01G198200

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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 TraesCS5B01G198200 chr5B 100.000 4279 0 0 1 4279 357154940 357159218 0.000000e+00 7902
1 TraesCS5B01G198200 chr5D 95.189 3097 97 23 773 3838 311355988 311359063 0.000000e+00 4846
2 TraesCS5B01G198200 chr5D 92.446 278 21 0 4002 4279 311359442 311359719 8.620000e-107 398
3 TraesCS5B01G198200 chr5D 90.299 134 10 2 4149 4279 311359722 311359855 5.690000e-39 172
4 TraesCS5B01G198200 chr5A 95.499 2155 79 11 777 2915 404558717 404560869 0.000000e+00 3426
5 TraesCS5B01G198200 chr5A 92.932 1047 55 12 2914 3945 404561127 404562169 0.000000e+00 1506
6 TraesCS5B01G198200 chr5A 97.531 81 2 0 4113 4193 404563390 404563470 5.770000e-29 139
7 TraesCS5B01G198200 chr3B 82.055 769 125 5 1 756 791653754 791652986 1.000000e-180 643


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 TraesCS5B01G198200 chr5B 357154940 357159218 4278 False 7902.000000 7902 100.000000 1 4279 1 chr5B.!!$F1 4278
1 TraesCS5B01G198200 chr5D 311355988 311359855 3867 False 1805.333333 4846 92.644667 773 4279 3 chr5D.!!$F1 3506
2 TraesCS5B01G198200 chr5A 404558717 404563470 4753 False 1690.333333 3426 95.320667 777 4193 3 chr5A.!!$F1 3416
3 TraesCS5B01G198200 chr3B 791652986 791653754 768 True 643.000000 643 82.055000 1 756 1 chr3B.!!$R1 755

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
390 391 0.036671 CCTCCCGGTACTTTGGTGTC 60.037 60.000 0.0 0.0 0.00 3.67 F
530 531 0.105039 GCCTTCCCGATCACTACTGG 59.895 60.000 0.0 0.0 0.00 4.00 F
759 773 0.249073 CCGCAGACCCTAATCGTGAG 60.249 60.000 0.0 0.0 0.00 3.51 F
1719 1750 1.002468 ACGAACACAGAATGCAGTTGC 60.002 47.619 0.0 0.0 42.53 4.17 F
1909 1941 1.518325 TTGCATACTGTCACCAACCG 58.482 50.000 0.0 0.0 0.00 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1462 1482 0.587768 CAACTCGATTGTGCACAGCA 59.412 50.000 20.59 6.67 35.60 4.41 R
1892 1924 1.794222 GCGGTTGGTGACAGTATGC 59.206 57.895 0.00 0.00 44.54 3.14 R
1909 1941 5.767816 ATTGTAATAAATCCCAAGTCCGC 57.232 39.130 0.00 0.00 0.00 5.54 R
3111 3415 0.107410 AACCTGGAAGAACACGTGCA 60.107 50.000 17.22 3.07 34.07 4.57 R
3694 4000 2.660670 ATTCCAAACGGTGTACCCAA 57.339 45.000 0.00 0.00 0.00 4.12 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
21 22 0.108138 GCATACGTGTGCCTTCTCCT 60.108 55.000 25.02 0.00 39.18 3.69
33 34 1.746220 CCTTCTCCTTCGATCGTCAGT 59.254 52.381 15.94 0.00 0.00 3.41
36 37 0.526524 CTCCTTCGATCGTCAGTGGC 60.527 60.000 15.94 0.00 0.00 5.01
39 40 1.406219 CTTCGATCGTCAGTGGCGTG 61.406 60.000 17.93 8.63 0.00 5.34
42 43 1.006825 CGATCGTCAGTGGCGTGAAA 61.007 55.000 17.93 0.00 0.00 2.69
83 84 1.484240 CAAAACTTTTGCCCTCACCCA 59.516 47.619 1.30 0.00 0.00 4.51
108 109 4.900652 ACGTAGTCTCCCTCATAGTAGAGA 59.099 45.833 0.00 0.00 29.74 3.10
111 112 6.370442 CGTAGTCTCCCTCATAGTAGAGATTG 59.630 46.154 0.00 0.00 37.67 2.67
113 114 5.135362 AGTCTCCCTCATAGTAGAGATTGGT 59.865 44.000 0.00 0.00 37.67 3.67
120 121 5.998981 CTCATAGTAGAGATTGGTACGGAGT 59.001 44.000 0.00 0.00 40.74 3.85
130 131 2.322658 TGGTACGGAGTTGAACCTCTT 58.677 47.619 0.00 0.00 37.78 2.85
136 137 3.060602 CGGAGTTGAACCTCTTTGACTC 58.939 50.000 0.00 0.00 34.32 3.36
141 142 1.768275 TGAACCTCTTTGACTCTGCCA 59.232 47.619 0.00 0.00 0.00 4.92
144 145 3.064900 ACCTCTTTGACTCTGCCAATC 57.935 47.619 0.00 0.00 0.00 2.67
145 146 2.641815 ACCTCTTTGACTCTGCCAATCT 59.358 45.455 0.00 0.00 0.00 2.40
147 148 3.439476 CCTCTTTGACTCTGCCAATCTTG 59.561 47.826 0.00 0.00 0.00 3.02
150 151 0.674581 TGACTCTGCCAATCTTGCGG 60.675 55.000 0.00 0.00 36.41 5.69
162 163 2.033911 TTGCGGGCAAGCTGATCA 59.966 55.556 1.21 0.00 38.13 2.92
166 167 0.744414 GCGGGCAAGCTGATCAACTA 60.744 55.000 0.00 0.00 0.00 2.24
168 169 1.383523 GGGCAAGCTGATCAACTACC 58.616 55.000 0.00 4.47 0.00 3.18
169 170 1.383523 GGCAAGCTGATCAACTACCC 58.616 55.000 0.00 0.00 0.00 3.69
171 172 1.676014 GCAAGCTGATCAACTACCCGT 60.676 52.381 0.00 0.00 0.00 5.28
180 181 0.389426 CAACTACCCGTTCCTGTCGG 60.389 60.000 0.00 0.00 46.49 4.79
183 184 0.737219 CTACCCGTTCCTGTCGGTAG 59.263 60.000 3.78 0.00 45.63 3.18
185 186 1.246737 ACCCGTTCCTGTCGGTAGAC 61.247 60.000 3.78 0.00 45.63 2.59
193 194 4.123609 TTCCTGTCGGTAGACTTCAGGAG 61.124 52.174 11.18 0.00 43.53 3.69
201 202 3.070302 GGTAGACTTCAGGAGCCTTATGG 59.930 52.174 0.00 0.00 0.00 2.74
225 226 0.613260 GAGCCCACACATACAGACCA 59.387 55.000 0.00 0.00 0.00 4.02
232 233 4.162320 CCCACACATACAGACCATCTAGTT 59.838 45.833 0.00 0.00 0.00 2.24
233 234 5.352284 CCACACATACAGACCATCTAGTTC 58.648 45.833 0.00 0.00 0.00 3.01
234 235 5.352284 CACACATACAGACCATCTAGTTCC 58.648 45.833 0.00 0.00 0.00 3.62
247 248 4.618920 TCTAGTTCCACCTTTTCAGGAC 57.381 45.455 0.00 0.00 44.19 3.85
249 250 1.850345 AGTTCCACCTTTTCAGGACCA 59.150 47.619 0.00 0.00 44.19 4.02
270 271 5.104193 ACCAGTCTTGCCATCATAATCTTCT 60.104 40.000 0.00 0.00 0.00 2.85
282 283 7.311486 CCATCATAATCTTCTATGATCACCCCA 60.311 40.741 0.00 0.00 43.89 4.96
285 286 3.845781 TCTTCTATGATCACCCCAAGC 57.154 47.619 0.00 0.00 0.00 4.01
291 292 1.696314 GATCACCCCAAGCCCCCTA 60.696 63.158 0.00 0.00 0.00 3.53
318 319 1.227674 GGGATCTCCATGCACGACC 60.228 63.158 0.00 0.00 37.91 4.79
333 334 0.103208 CGACCTTCCTCCAATCTCCG 59.897 60.000 0.00 0.00 0.00 4.63
339 340 1.769026 TCCTCCAATCTCCGAGACAG 58.231 55.000 0.00 0.00 0.00 3.51
345 346 3.515502 TCCAATCTCCGAGACAGAACAAT 59.484 43.478 0.00 0.00 0.00 2.71
351 352 4.065088 CTCCGAGACAGAACAATTGGAAA 58.935 43.478 10.83 0.00 0.00 3.13
366 367 8.887036 ACAATTGGAAAATAAACAAGTTCTCC 57.113 30.769 10.83 0.00 0.00 3.71
372 373 2.579410 TAAACAAGTTCTCCCCAGCC 57.421 50.000 0.00 0.00 0.00 4.85
377 378 3.787001 GTTCTCCCCAGCCTCCCG 61.787 72.222 0.00 0.00 0.00 5.14
384 385 2.298661 CCCAGCCTCCCGGTACTTT 61.299 63.158 0.00 0.00 0.00 2.66
390 391 0.036671 CCTCCCGGTACTTTGGTGTC 60.037 60.000 0.00 0.00 0.00 3.67
392 393 1.346722 CTCCCGGTACTTTGGTGTCTT 59.653 52.381 0.00 0.00 0.00 3.01
398 399 2.303175 GTACTTTGGTGTCTTGGCCAA 58.697 47.619 19.25 19.25 42.38 4.52
405 406 1.152567 TGTCTTGGCCAAACCCCAG 60.153 57.895 20.91 6.58 37.83 4.45
416 417 3.434309 CCAAACCCCAGATGAACTTCAT 58.566 45.455 3.80 3.80 40.34 2.57
420 421 4.118168 ACCCCAGATGAACTTCATGTTT 57.882 40.909 9.08 0.00 37.20 2.83
426 427 6.643770 CCCAGATGAACTTCATGTTTTCAAAG 59.356 38.462 9.08 0.51 37.20 2.77
429 430 9.472361 CAGATGAACTTCATGTTTTCAAAGAAT 57.528 29.630 9.08 0.00 37.20 2.40
435 436 7.715657 ACTTCATGTTTTCAAAGAATGCTGTA 58.284 30.769 0.00 0.00 31.22 2.74
441 442 5.618056 TTTCAAAGAATGCTGTAGAGCTG 57.382 39.130 13.66 1.86 46.39 4.24
471 472 2.934553 GTCCGTGTTAACCCTAGCAATC 59.065 50.000 2.48 0.00 0.00 2.67
476 477 2.290387 TGTTAACCCTAGCAATCGCCAA 60.290 45.455 2.48 0.00 39.83 4.52
487 488 2.215451 AATCGCCAACCATCCTGCCT 62.215 55.000 0.00 0.00 0.00 4.75
489 490 2.356278 GCCAACCATCCTGCCTCA 59.644 61.111 0.00 0.00 0.00 3.86
491 492 1.993653 CCAACCATCCTGCCTCAGA 59.006 57.895 0.00 0.00 32.44 3.27
492 493 0.549950 CCAACCATCCTGCCTCAGAT 59.450 55.000 0.00 0.00 32.44 2.90
495 496 0.467384 ACCATCCTGCCTCAGATTCG 59.533 55.000 0.00 0.00 32.44 3.34
497 498 1.270199 CCATCCTGCCTCAGATTCGAG 60.270 57.143 0.00 0.00 32.44 4.04
499 500 1.561643 TCCTGCCTCAGATTCGAGTT 58.438 50.000 0.00 0.00 32.44 3.01
510 511 2.917971 AGATTCGAGTTTCTTCGCTTCG 59.082 45.455 0.00 0.00 40.29 3.79
516 517 0.166161 GTTTCTTCGCTTCGGCCTTC 59.834 55.000 0.00 0.00 37.76 3.46
518 519 2.798148 TTCTTCGCTTCGGCCTTCCC 62.798 60.000 0.00 0.00 37.76 3.97
530 531 0.105039 GCCTTCCCGATCACTACTGG 59.895 60.000 0.00 0.00 0.00 4.00
531 532 0.753262 CCTTCCCGATCACTACTGGG 59.247 60.000 0.00 0.00 43.36 4.45
543 544 1.831736 ACTACTGGGTCCAATTCCTCG 59.168 52.381 0.00 0.00 0.00 4.63
549 550 0.107654 GGTCCAATTCCTCGTCCAGG 60.108 60.000 0.00 0.00 45.15 4.45
562 563 1.409427 CGTCCAGGAGTTCCATACCTC 59.591 57.143 0.28 0.00 38.89 3.85
564 565 3.687551 CGTCCAGGAGTTCCATACCTCTA 60.688 52.174 0.28 0.00 38.89 2.43
581 582 3.903090 CCTCTAAGCATCTCCTCCAGATT 59.097 47.826 0.00 0.00 40.20 2.40
582 583 4.262549 CCTCTAAGCATCTCCTCCAGATTG 60.263 50.000 0.00 0.00 40.20 2.67
587 588 3.975312 AGCATCTCCTCCAGATTGATCTT 59.025 43.478 0.00 0.00 40.20 2.40
589 590 5.605908 AGCATCTCCTCCAGATTGATCTTAA 59.394 40.000 0.00 0.00 40.20 1.85
590 591 5.700373 GCATCTCCTCCAGATTGATCTTAAC 59.300 44.000 0.00 0.00 40.20 2.01
593 594 6.197903 TCTCCTCCAGATTGATCTTAACTGA 58.802 40.000 0.00 0.00 34.22 3.41
594 595 6.097554 TCTCCTCCAGATTGATCTTAACTGAC 59.902 42.308 0.00 0.00 34.22 3.51
599 600 5.426504 CAGATTGATCTTAACTGACTGCCT 58.573 41.667 0.00 0.00 34.22 4.75
602 603 5.426689 TTGATCTTAACTGACTGCCTCAT 57.573 39.130 0.00 0.00 0.00 2.90
621 622 1.187087 TCTTCGAGGAAGAGCCCTTC 58.813 55.000 0.00 0.00 42.78 3.46
636 637 4.113815 TTCTCCGCCATGGCTGGG 62.114 66.667 33.02 28.38 43.36 4.45
644 645 3.790437 CATGGCTGGGTCCTCGCT 61.790 66.667 3.54 0.00 0.00 4.93
648 662 2.656069 GGCTGGGTCCTCGCTTGTA 61.656 63.158 3.54 0.00 0.00 2.41
649 663 1.522569 GCTGGGTCCTCGCTTGTAT 59.477 57.895 0.00 0.00 0.00 2.29
656 670 0.261991 TCCTCGCTTGTATCTCCCCT 59.738 55.000 0.00 0.00 0.00 4.79
661 675 0.105039 GCTTGTATCTCCCCTCGTGG 59.895 60.000 0.00 0.00 0.00 4.94
664 678 1.457831 GTATCTCCCCTCGTGGCCT 60.458 63.158 3.32 0.00 0.00 5.19
674 688 4.785453 CGTGGCCTCCTGGGAAGC 62.785 72.222 3.32 1.83 37.23 3.86
720 734 4.530857 GATCCCACCGGCGGTCAG 62.531 72.222 31.82 23.15 31.02 3.51
724 738 2.281208 CCACCGGCGGTCAGAAAA 60.281 61.111 31.82 0.00 31.02 2.29
753 767 4.547367 GCCGCCGCAGACCCTAAT 62.547 66.667 0.00 0.00 34.03 1.73
756 770 2.499685 GCCGCAGACCCTAATCGT 59.500 61.111 0.00 0.00 0.00 3.73
757 771 1.883084 GCCGCAGACCCTAATCGTG 60.883 63.158 0.00 0.00 0.00 4.35
758 772 1.813859 CCGCAGACCCTAATCGTGA 59.186 57.895 0.00 0.00 0.00 4.35
759 773 0.249073 CCGCAGACCCTAATCGTGAG 60.249 60.000 0.00 0.00 0.00 3.51
760 774 0.249073 CGCAGACCCTAATCGTGAGG 60.249 60.000 0.00 0.00 0.00 3.86
768 782 2.385803 CCTAATCGTGAGGGTAGGTGT 58.614 52.381 0.00 0.00 34.95 4.16
769 783 2.361438 CCTAATCGTGAGGGTAGGTGTC 59.639 54.545 0.00 0.00 34.95 3.67
770 784 1.933021 AATCGTGAGGGTAGGTGTCA 58.067 50.000 0.00 0.00 0.00 3.58
771 785 1.475403 ATCGTGAGGGTAGGTGTCAG 58.525 55.000 0.00 0.00 0.00 3.51
778 792 3.105283 GAGGGTAGGTGTCAGGTACAAT 58.895 50.000 0.00 0.00 40.63 2.71
790 804 5.473162 TGTCAGGTACAATCCAAATCAACTG 59.527 40.000 0.00 0.00 34.29 3.16
800 815 7.442062 ACAATCCAAATCAACTGAAAATGGAAC 59.558 33.333 12.62 0.00 37.52 3.62
825 840 3.373565 GAACAAAGCCCGGCCCAG 61.374 66.667 5.55 0.00 0.00 4.45
830 845 1.154221 AAAGCCCGGCCCAGTAAAA 59.846 52.632 5.55 0.00 0.00 1.52
853 868 1.830279 GTAGGTACCAAAACCAGCCC 58.170 55.000 15.94 0.00 42.40 5.19
854 869 1.353358 GTAGGTACCAAAACCAGCCCT 59.647 52.381 15.94 0.00 42.40 5.19
934 949 1.059006 CCCATCTCCTTCCCTCCCAG 61.059 65.000 0.00 0.00 0.00 4.45
984 999 2.202932 CCGCATCCCTCTCAACCG 60.203 66.667 0.00 0.00 0.00 4.44
1124 1139 2.187163 GCGTTCTGACTAGGCCCC 59.813 66.667 0.00 0.00 0.00 5.80
1163 1178 3.066190 GCAGCATTGGCAGGAGCA 61.066 61.111 9.89 0.00 44.61 4.26
1278 1293 1.136774 CGAGCGACATCGGAGACAA 59.863 57.895 3.08 0.00 42.51 3.18
1299 1314 3.001395 CGGATTCAGCTACCGTAAGAG 57.999 52.381 11.03 0.00 41.47 2.85
1331 1346 1.492176 CCCTAGCTCCCATGTGAATGT 59.508 52.381 0.00 0.00 0.00 2.71
1332 1347 2.705658 CCCTAGCTCCCATGTGAATGTA 59.294 50.000 0.00 0.00 0.00 2.29
1351 1366 8.394877 TGAATGTATTCGCTGATTTATTTTCGT 58.605 29.630 0.65 0.00 39.62 3.85
1358 1373 7.869016 TCGCTGATTTATTTTCGTAGGATAG 57.131 36.000 0.00 0.00 0.00 2.08
1359 1374 6.866770 TCGCTGATTTATTTTCGTAGGATAGG 59.133 38.462 0.00 0.00 0.00 2.57
1360 1375 6.866770 CGCTGATTTATTTTCGTAGGATAGGA 59.133 38.462 0.00 0.00 33.01 2.94
1361 1376 7.545965 CGCTGATTTATTTTCGTAGGATAGGAT 59.454 37.037 0.00 0.00 35.16 3.24
1362 1377 9.220767 GCTGATTTATTTTCGTAGGATAGGATT 57.779 33.333 0.00 0.00 35.16 3.01
1364 1379 9.502091 TGATTTATTTTCGTAGGATAGGATTGG 57.498 33.333 0.00 0.00 35.16 3.16
1365 1380 9.720769 GATTTATTTTCGTAGGATAGGATTGGA 57.279 33.333 0.00 0.00 35.16 3.53
1429 1449 1.298859 CTGTAGGTGGCCTTTGCGTC 61.299 60.000 3.32 0.00 38.85 5.19
1462 1482 4.816385 CGAGGCAAGGAATAATATGTGTGT 59.184 41.667 0.00 0.00 0.00 3.72
1505 1525 5.034797 GCTTTCTGTTGATTAATAACCGGC 58.965 41.667 0.00 0.00 0.00 6.13
1522 1542 2.755655 CCGGCAATGTTAATTGGTGGTA 59.244 45.455 0.00 0.00 42.98 3.25
1558 1578 1.645034 CATTGTGATCGCGAGGAAGT 58.355 50.000 16.66 0.00 0.00 3.01
1716 1747 2.238942 TGACGAACACAGAATGCAGT 57.761 45.000 0.00 0.00 42.53 4.40
1717 1748 2.560504 TGACGAACACAGAATGCAGTT 58.439 42.857 0.00 0.00 42.53 3.16
1718 1749 2.287644 TGACGAACACAGAATGCAGTTG 59.712 45.455 0.00 0.00 42.53 3.16
1719 1750 1.002468 ACGAACACAGAATGCAGTTGC 60.002 47.619 0.00 0.00 42.53 4.17
1892 1924 8.380644 GCTGCCGTATACAACTATACATAATTG 58.619 37.037 3.32 0.00 36.09 2.32
1909 1941 1.518325 TTGCATACTGTCACCAACCG 58.482 50.000 0.00 0.00 0.00 4.44
1911 1943 1.966493 GCATACTGTCACCAACCGCG 61.966 60.000 0.00 0.00 0.00 6.46
2689 2724 5.482163 TGATGACATGTTTCAGTCCTGTA 57.518 39.130 0.00 0.00 33.89 2.74
2779 2815 6.150976 TGAGTGCCATTAAGTTCTAACCAATG 59.849 38.462 9.31 9.31 34.30 2.82
2895 2931 2.436173 GCAAGGCCTGATAAGTCCTAGT 59.564 50.000 5.69 0.00 0.00 2.57
3060 3364 2.571653 AGCATCAACTACTGGGTTAGCA 59.428 45.455 0.00 0.00 0.00 3.49
3281 3586 3.691609 GGAGCACTTACCTCAAATGAAGG 59.308 47.826 0.00 0.00 0.00 3.46
3492 3798 3.138468 GTCCATATAGGGGGCTGTTCTTT 59.862 47.826 3.09 0.00 38.24 2.52
3549 3855 0.397941 TGCTGAAGCTTAGGCACAGT 59.602 50.000 18.10 0.00 42.37 3.55
3551 3857 2.003301 GCTGAAGCTTAGGCACAGTAC 58.997 52.381 19.13 6.14 42.37 2.73
3626 3932 5.484173 TGTGGAAATGATGTAGCGAAATC 57.516 39.130 0.00 0.00 0.00 2.17
3694 4000 6.100404 ACAATCACAAATGTTATGGCAAGT 57.900 33.333 0.00 0.00 0.00 3.16
3695 4001 6.523840 ACAATCACAAATGTTATGGCAAGTT 58.476 32.000 0.00 0.00 0.00 2.66
3696 4002 6.424509 ACAATCACAAATGTTATGGCAAGTTG 59.575 34.615 0.00 0.00 0.00 3.16
3697 4003 4.880759 TCACAAATGTTATGGCAAGTTGG 58.119 39.130 4.75 0.00 0.00 3.77
3698 4004 3.995705 CACAAATGTTATGGCAAGTTGGG 59.004 43.478 4.75 0.00 0.00 4.12
3699 4005 3.645687 ACAAATGTTATGGCAAGTTGGGT 59.354 39.130 4.75 0.00 0.00 4.51
3700 4006 4.835615 ACAAATGTTATGGCAAGTTGGGTA 59.164 37.500 4.75 0.00 0.00 3.69
3702 4008 3.510531 TGTTATGGCAAGTTGGGTACA 57.489 42.857 4.75 0.00 0.00 2.90
3703 4009 3.150767 TGTTATGGCAAGTTGGGTACAC 58.849 45.455 4.75 0.00 0.00 2.90
3704 4010 2.490509 GTTATGGCAAGTTGGGTACACC 59.509 50.000 4.75 0.00 40.81 4.16
3705 4011 0.608035 ATGGCAAGTTGGGTACACCG 60.608 55.000 4.75 0.00 44.64 4.94
3706 4012 1.228033 GGCAAGTTGGGTACACCGT 60.228 57.895 4.75 0.00 44.64 4.83
3708 4014 1.026584 GCAAGTTGGGTACACCGTTT 58.973 50.000 4.75 0.00 44.64 3.60
3709 4015 1.268845 GCAAGTTGGGTACACCGTTTG 60.269 52.381 4.75 0.00 44.64 2.93
3710 4016 1.335496 CAAGTTGGGTACACCGTTTGG 59.665 52.381 0.00 0.00 44.64 3.28
3711 4017 0.838608 AGTTGGGTACACCGTTTGGA 59.161 50.000 0.00 0.00 44.64 3.53
3712 4018 1.212441 AGTTGGGTACACCGTTTGGAA 59.788 47.619 0.00 0.00 44.64 3.53
3713 4019 2.158579 AGTTGGGTACACCGTTTGGAAT 60.159 45.455 0.00 0.00 44.64 3.01
3714 4020 2.624364 GTTGGGTACACCGTTTGGAATT 59.376 45.455 0.00 0.00 44.64 2.17
3715 4021 2.946785 TGGGTACACCGTTTGGAATTT 58.053 42.857 0.00 0.00 44.64 1.82
3830 4149 6.578023 ACTCTTGACCTATTGATGAGTAAGC 58.422 40.000 0.00 0.00 32.44 3.09
3869 4188 6.263168 ACCCGCTAAGATGAAAAATAAGATGG 59.737 38.462 0.00 0.00 0.00 3.51
3915 4234 3.898482 AGGTACATCCCAAATTACTGCC 58.102 45.455 0.00 0.00 36.75 4.85
3916 4235 3.527665 AGGTACATCCCAAATTACTGCCT 59.472 43.478 0.00 0.00 36.75 4.75
3920 4239 6.039382 GGTACATCCCAAATTACTGCCTAAAG 59.961 42.308 0.00 0.00 0.00 1.85
3938 4257 1.818642 AGTTGATCTGGACTTGCTGC 58.181 50.000 0.00 0.00 0.00 5.25
3992 4631 2.960688 GCTTGAGACGGGGAAGCCT 61.961 63.158 0.00 0.00 36.84 4.58
4014 4911 2.032528 CTTGCCGCTGGTTCAGGA 59.967 61.111 0.00 0.00 31.21 3.86
4020 4917 2.361737 GCTGGTTCAGGAAGGGGC 60.362 66.667 0.00 0.00 31.21 5.80
4053 5573 9.619316 CATTTTGATACCGTTTGAGAAATGTTA 57.381 29.630 0.00 0.00 31.86 2.41
4089 5609 4.821589 GGACCGCTCTCCTTGCCG 62.822 72.222 0.00 0.00 0.00 5.69
4101 5621 3.123804 CTCCTTGCCGTCATGTGTATAC 58.876 50.000 0.00 0.00 0.00 1.47
4105 5625 3.233684 TGCCGTCATGTGTATACGAAA 57.766 42.857 5.53 0.00 38.89 3.46
4155 5675 5.790593 CCACTGCTAGGAGTTTTGTAGTTA 58.209 41.667 15.07 0.00 0.00 2.24
4215 5870 3.405831 TGTTGATGCAGTCCTTGAGAAG 58.594 45.455 0.00 0.00 0.00 2.85
4225 5880 4.938226 CAGTCCTTGAGAAGTAATTGGGAC 59.062 45.833 0.00 0.00 41.35 4.46
4263 5918 7.286316 ACTCCAATTATGATCTTCCAATTCACC 59.714 37.037 0.00 0.00 0.00 4.02
4270 5925 9.699410 TTATGATCTTCCAATTCACCACTAAAT 57.301 29.630 0.00 0.00 0.00 1.40
4272 5927 9.872684 ATGATCTTCCAATTCACCACTAAATAT 57.127 29.630 0.00 0.00 0.00 1.28
4278 5933 9.967451 TTCCAATTCACCACTAAATATACTTCA 57.033 29.630 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.472878 CCACTGACGATCGAAGGAGAA 59.527 52.381 24.34 0.00 0.00 2.87
21 22 1.443702 CACGCCACTGACGATCGAA 60.444 57.895 24.34 8.64 0.00 3.71
33 34 1.336517 CCTCTTACTCGTTTCACGCCA 60.337 52.381 0.00 0.00 42.21 5.69
36 37 3.183775 CCAAACCTCTTACTCGTTTCACG 59.816 47.826 0.00 0.00 44.19 4.35
39 40 3.135994 TGCCAAACCTCTTACTCGTTTC 58.864 45.455 0.00 0.00 0.00 2.78
42 43 1.692519 ACTGCCAAACCTCTTACTCGT 59.307 47.619 0.00 0.00 0.00 4.18
69 70 1.228124 CGTCTGGGTGAGGGCAAAA 60.228 57.895 0.00 0.00 0.00 2.44
83 84 4.900652 TCTACTATGAGGGAGACTACGTCT 59.099 45.833 8.78 0.00 46.42 4.18
93 94 5.314529 CGTACCAATCTCTACTATGAGGGA 58.685 45.833 0.00 0.00 34.98 4.20
108 109 2.904434 AGAGGTTCAACTCCGTACCAAT 59.096 45.455 0.00 0.00 38.26 3.16
111 112 3.064931 CAAAGAGGTTCAACTCCGTACC 58.935 50.000 0.00 0.00 38.26 3.34
113 114 3.640029 AGTCAAAGAGGTTCAACTCCGTA 59.360 43.478 0.00 0.00 38.26 4.02
120 121 2.172505 TGGCAGAGTCAAAGAGGTTCAA 59.827 45.455 0.00 0.00 0.00 2.69
130 131 1.159285 CGCAAGATTGGCAGAGTCAA 58.841 50.000 0.00 0.00 43.02 3.18
145 146 1.603171 TTGATCAGCTTGCCCGCAA 60.603 52.632 1.58 1.58 0.00 4.85
147 148 0.744414 TAGTTGATCAGCTTGCCCGC 60.744 55.000 17.76 0.00 0.00 6.13
150 151 1.383523 GGGTAGTTGATCAGCTTGCC 58.616 55.000 17.76 18.04 0.00 4.52
156 157 2.233922 ACAGGAACGGGTAGTTGATCAG 59.766 50.000 0.00 0.00 44.35 2.90
169 170 1.538512 TGAAGTCTACCGACAGGAACG 59.461 52.381 0.00 0.00 42.73 3.95
180 181 3.961408 TCCATAAGGCTCCTGAAGTCTAC 59.039 47.826 0.00 0.00 39.71 2.59
183 184 4.429854 AATCCATAAGGCTCCTGAAGTC 57.570 45.455 0.00 0.00 33.74 3.01
185 186 4.785301 TCAAATCCATAAGGCTCCTGAAG 58.215 43.478 0.00 0.00 33.74 3.02
186 187 4.785301 CTCAAATCCATAAGGCTCCTGAA 58.215 43.478 0.00 0.00 33.74 3.02
192 193 1.570501 TGGGCTCAAATCCATAAGGCT 59.429 47.619 0.00 0.00 34.91 4.58
193 194 1.683385 GTGGGCTCAAATCCATAAGGC 59.317 52.381 0.00 0.00 35.28 4.35
201 202 3.375299 GTCTGTATGTGTGGGCTCAAATC 59.625 47.826 0.00 0.00 0.00 2.17
225 226 4.019231 GGTCCTGAAAAGGTGGAACTAGAT 60.019 45.833 0.00 0.00 34.90 1.98
232 233 1.420138 GACTGGTCCTGAAAAGGTGGA 59.580 52.381 2.23 0.00 0.00 4.02
233 234 1.421646 AGACTGGTCCTGAAAAGGTGG 59.578 52.381 2.23 0.00 0.00 4.61
234 235 2.880890 CAAGACTGGTCCTGAAAAGGTG 59.119 50.000 2.23 0.00 0.00 4.00
247 248 5.374921 AGAAGATTATGATGGCAAGACTGG 58.625 41.667 0.00 0.00 0.00 4.00
249 250 7.971201 TCATAGAAGATTATGATGGCAAGACT 58.029 34.615 0.00 0.00 35.64 3.24
270 271 1.360393 GGGGGCTTGGGGTGATCATA 61.360 60.000 0.00 0.00 0.00 2.15
282 283 1.384191 CTGGCTGTTTAGGGGGCTT 59.616 57.895 0.00 0.00 0.00 4.35
291 292 1.064166 CATGGAGATCCCTGGCTGTTT 60.064 52.381 0.00 0.00 35.38 2.83
303 304 0.179000 GGAAGGTCGTGCATGGAGAT 59.821 55.000 5.98 0.00 0.00 2.75
304 305 0.904865 AGGAAGGTCGTGCATGGAGA 60.905 55.000 5.98 0.00 0.00 3.71
306 307 1.596934 GAGGAAGGTCGTGCATGGA 59.403 57.895 5.98 0.00 0.00 3.41
318 319 2.100584 CTGTCTCGGAGATTGGAGGAAG 59.899 54.545 11.46 0.00 33.89 3.46
333 334 9.528018 TTGTTTATTTTCCAATTGTTCTGTCTC 57.472 29.630 4.43 0.00 0.00 3.36
345 346 5.900123 TGGGGAGAACTTGTTTATTTTCCAA 59.100 36.000 0.00 0.00 0.00 3.53
351 352 3.076032 AGGCTGGGGAGAACTTGTTTATT 59.924 43.478 0.00 0.00 0.00 1.40
372 373 0.974383 AGACACCAAAGTACCGGGAG 59.026 55.000 6.32 0.00 0.00 4.30
377 378 1.244816 GGCCAAGACACCAAAGTACC 58.755 55.000 0.00 0.00 0.00 3.34
379 380 2.738587 TTGGCCAAGACACCAAAGTA 57.261 45.000 16.05 0.00 42.87 2.24
384 385 1.456705 GGGTTTGGCCAAGACACCA 60.457 57.895 30.15 10.30 39.65 4.17
390 391 0.251742 TCATCTGGGGTTTGGCCAAG 60.252 55.000 19.48 5.83 39.65 3.61
392 393 0.541764 GTTCATCTGGGGTTTGGCCA 60.542 55.000 0.00 0.00 39.65 5.36
398 399 3.814504 ACATGAAGTTCATCTGGGGTT 57.185 42.857 15.60 0.00 34.28 4.11
405 406 8.219105 GCATTCTTTGAAAACATGAAGTTCATC 58.781 33.333 15.60 5.97 40.26 2.92
416 417 5.762045 GCTCTACAGCATTCTTTGAAAACA 58.238 37.500 0.00 0.00 46.06 2.83
435 436 2.659610 GACAGGCCGTTCAGCTCT 59.340 61.111 0.00 0.00 0.00 4.09
471 472 2.825836 GAGGCAGGATGGTTGGCG 60.826 66.667 0.00 0.00 44.93 5.69
476 477 0.467384 CGAATCTGAGGCAGGATGGT 59.533 55.000 0.00 0.00 35.86 3.55
487 488 3.577649 AGCGAAGAAACTCGAATCTGA 57.422 42.857 0.00 0.00 41.44 3.27
489 490 2.917971 CGAAGCGAAGAAACTCGAATCT 59.082 45.455 0.00 0.00 41.44 2.40
491 492 1.993370 CCGAAGCGAAGAAACTCGAAT 59.007 47.619 0.00 0.00 41.44 3.34
492 493 1.415374 CCGAAGCGAAGAAACTCGAA 58.585 50.000 0.00 0.00 41.44 3.71
495 496 0.670854 AGGCCGAAGCGAAGAAACTC 60.671 55.000 0.00 0.00 41.24 3.01
497 498 0.166161 GAAGGCCGAAGCGAAGAAAC 59.834 55.000 0.00 0.00 41.24 2.78
499 500 1.375523 GGAAGGCCGAAGCGAAGAA 60.376 57.895 0.00 0.00 41.24 2.52
510 511 0.105039 CAGTAGTGATCGGGAAGGCC 59.895 60.000 0.00 0.00 0.00 5.19
516 517 0.686441 TGGACCCAGTAGTGATCGGG 60.686 60.000 0.00 0.00 44.88 5.14
518 519 3.458189 GAATTGGACCCAGTAGTGATCG 58.542 50.000 0.00 0.00 0.00 3.69
519 520 3.456277 AGGAATTGGACCCAGTAGTGATC 59.544 47.826 0.00 0.00 0.00 2.92
525 526 1.829222 GACGAGGAATTGGACCCAGTA 59.171 52.381 0.00 0.00 0.00 2.74
530 531 0.107654 CCTGGACGAGGAATTGGACC 60.108 60.000 0.00 0.00 46.33 4.46
531 532 3.460648 CCTGGACGAGGAATTGGAC 57.539 57.895 0.00 0.00 46.33 4.02
543 544 2.753247 AGAGGTATGGAACTCCTGGAC 58.247 52.381 0.00 0.00 36.82 4.02
549 550 5.279256 GGAGATGCTTAGAGGTATGGAACTC 60.279 48.000 0.00 0.00 0.00 3.01
558 559 2.246067 TCTGGAGGAGATGCTTAGAGGT 59.754 50.000 0.00 0.00 0.00 3.85
562 563 4.952071 TCAATCTGGAGGAGATGCTTAG 57.048 45.455 0.00 0.00 40.89 2.18
564 565 3.975312 AGATCAATCTGGAGGAGATGCTT 59.025 43.478 0.00 0.00 40.89 3.91
581 582 4.713814 AGATGAGGCAGTCAGTTAAGATCA 59.286 41.667 0.00 0.00 39.07 2.92
582 583 5.275067 AGATGAGGCAGTCAGTTAAGATC 57.725 43.478 0.00 0.00 39.07 2.75
587 588 3.089284 TCGAAGATGAGGCAGTCAGTTA 58.911 45.455 0.00 0.00 39.07 2.24
589 590 1.476085 CTCGAAGATGAGGCAGTCAGT 59.524 52.381 0.00 0.00 39.07 3.41
590 591 2.206815 CTCGAAGATGAGGCAGTCAG 57.793 55.000 0.00 0.00 39.07 3.51
599 600 1.115467 GGGCTCTTCCTCGAAGATGA 58.885 55.000 4.64 0.27 45.84 2.92
602 603 1.187087 GAAGGGCTCTTCCTCGAAGA 58.813 55.000 15.98 4.16 45.01 2.87
621 622 4.864334 GACCCAGCCATGGCGGAG 62.864 72.222 34.79 27.44 46.19 4.63
632 633 1.067821 GAGATACAAGCGAGGACCCAG 59.932 57.143 0.00 0.00 0.00 4.45
636 637 0.389757 GGGGAGATACAAGCGAGGAC 59.610 60.000 0.00 0.00 0.00 3.85
644 645 1.335132 GGCCACGAGGGGAGATACAA 61.335 60.000 0.00 0.00 37.04 2.41
648 662 2.444895 GAGGCCACGAGGGGAGAT 60.445 66.667 5.01 0.00 37.04 2.75
649 663 4.779733 GGAGGCCACGAGGGGAGA 62.780 72.222 5.01 0.00 37.04 3.71
656 670 3.003173 CTTCCCAGGAGGCCACGA 61.003 66.667 5.01 0.00 34.51 4.35
664 678 3.385749 GAATCGCGGCTTCCCAGGA 62.386 63.158 6.13 0.00 0.00 3.86
687 701 1.268079 GGATCGCTGTCATCTGATCGA 59.732 52.381 1.64 1.64 38.45 3.59
688 702 1.668337 GGGATCGCTGTCATCTGATCG 60.668 57.143 1.84 0.00 38.45 3.69
696 710 3.770040 CCGGTGGGATCGCTGTCA 61.770 66.667 11.46 0.00 34.06 3.58
717 731 2.398554 GCCGCTGGCGATTTTCTGA 61.399 57.895 16.79 0.00 39.62 3.27
736 750 4.547367 ATTAGGGTCTGCGGCGGC 62.547 66.667 9.78 9.68 40.52 6.53
741 755 0.249073 CCTCACGATTAGGGTCTGCG 60.249 60.000 0.00 0.00 0.00 5.18
753 767 0.611062 CCTGACACCTACCCTCACGA 60.611 60.000 0.00 0.00 0.00 4.35
756 770 1.430075 TGTACCTGACACCTACCCTCA 59.570 52.381 0.00 0.00 31.20 3.86
757 771 2.226962 TGTACCTGACACCTACCCTC 57.773 55.000 0.00 0.00 31.20 4.30
758 772 2.708037 TTGTACCTGACACCTACCCT 57.292 50.000 0.00 0.00 37.96 4.34
759 773 2.169978 GGATTGTACCTGACACCTACCC 59.830 54.545 0.00 0.00 37.96 3.69
760 774 2.835764 TGGATTGTACCTGACACCTACC 59.164 50.000 0.00 0.00 37.96 3.18
761 775 4.546829 TTGGATTGTACCTGACACCTAC 57.453 45.455 0.00 0.00 37.96 3.18
762 776 5.249622 TGATTTGGATTGTACCTGACACCTA 59.750 40.000 0.00 0.00 37.96 3.08
763 777 4.042809 TGATTTGGATTGTACCTGACACCT 59.957 41.667 0.00 0.00 37.96 4.00
764 778 4.331968 TGATTTGGATTGTACCTGACACC 58.668 43.478 0.00 0.00 37.96 4.16
765 779 5.473504 AGTTGATTTGGATTGTACCTGACAC 59.526 40.000 0.00 0.00 37.96 3.67
766 780 5.473162 CAGTTGATTTGGATTGTACCTGACA 59.527 40.000 0.00 0.00 35.78 3.58
767 781 5.705441 TCAGTTGATTTGGATTGTACCTGAC 59.295 40.000 0.00 0.00 0.00 3.51
768 782 5.875224 TCAGTTGATTTGGATTGTACCTGA 58.125 37.500 0.00 0.00 0.00 3.86
769 783 6.573664 TTCAGTTGATTTGGATTGTACCTG 57.426 37.500 0.00 0.00 0.00 4.00
770 784 7.595819 TTTTCAGTTGATTTGGATTGTACCT 57.404 32.000 0.00 0.00 0.00 3.08
771 785 7.331687 CCATTTTCAGTTGATTTGGATTGTACC 59.668 37.037 0.00 0.00 0.00 3.34
778 792 6.462768 CCTGTTCCATTTTCAGTTGATTTGGA 60.463 38.462 4.87 4.87 0.00 3.53
790 804 5.514274 TGTTCACTTCCTGTTCCATTTTC 57.486 39.130 0.00 0.00 0.00 2.29
800 815 0.593128 CGGGCTTTGTTCACTTCCTG 59.407 55.000 0.00 0.00 0.00 3.86
825 840 5.704978 TGGTTTTGGTACCTACGGATTTTAC 59.295 40.000 14.36 0.00 39.04 2.01
830 845 2.355412 GCTGGTTTTGGTACCTACGGAT 60.355 50.000 14.36 0.00 39.04 4.18
841 856 2.961424 CCTGTAGGGCTGGTTTTGG 58.039 57.895 0.00 0.00 0.00 3.28
1124 1139 0.518636 CCAACAGAATCACAGGCACG 59.481 55.000 0.00 0.00 0.00 5.34
1331 1346 8.827177 ATCCTACGAAAATAAATCAGCGAATA 57.173 30.769 0.00 0.00 0.00 1.75
1332 1347 7.730364 ATCCTACGAAAATAAATCAGCGAAT 57.270 32.000 0.00 0.00 0.00 3.34
1351 1366 7.358255 ACCTACAGTATCCAATCCTATCCTA 57.642 40.000 0.00 0.00 0.00 2.94
1365 1380 6.791867 TTTCTGTGCAGATACCTACAGTAT 57.208 37.500 2.47 0.00 44.68 2.12
1462 1482 0.587768 CAACTCGATTGTGCACAGCA 59.412 50.000 20.59 6.67 35.60 4.41
1558 1578 1.885887 GCCTATTGTTGCAACTCCACA 59.114 47.619 28.61 7.65 0.00 4.17
1714 1745 7.425224 AAGATATAGTACTGAACCAGCAACT 57.575 36.000 5.39 0.00 35.88 3.16
1715 1746 7.549488 ACAAAGATATAGTACTGAACCAGCAAC 59.451 37.037 5.39 0.00 34.37 4.17
1716 1747 7.620880 ACAAAGATATAGTACTGAACCAGCAA 58.379 34.615 5.39 0.00 34.37 3.91
1717 1748 7.182817 ACAAAGATATAGTACTGAACCAGCA 57.817 36.000 5.39 0.00 34.37 4.41
1718 1749 9.765795 ATAACAAAGATATAGTACTGAACCAGC 57.234 33.333 5.39 0.00 34.37 4.85
1892 1924 1.794222 GCGGTTGGTGACAGTATGC 59.206 57.895 0.00 0.00 44.54 3.14
1909 1941 5.767816 ATTGTAATAAATCCCAAGTCCGC 57.232 39.130 0.00 0.00 0.00 5.54
1971 2003 8.237267 GCTGCAGACTGTATTTAGTTTTGTTAT 58.763 33.333 20.43 0.00 0.00 1.89
2716 2752 6.910433 GTGAAATCAACAAGTTACGTGTCATT 59.090 34.615 4.20 3.99 0.00 2.57
2779 2815 5.294552 GTGGATTGTGAGTTTATAGCTGGTC 59.705 44.000 0.00 0.00 0.00 4.02
3060 3364 4.628963 AGGCATTGGCTGAAGAAATTTT 57.371 36.364 12.53 0.00 40.87 1.82
3111 3415 0.107410 AACCTGGAAGAACACGTGCA 60.107 50.000 17.22 3.07 34.07 4.57
3281 3586 9.061610 CAATTTACGGTTACAAGATTGATGTTC 57.938 33.333 0.00 0.00 32.27 3.18
3492 3798 3.241530 ACTTGGACCAGCGAGGCA 61.242 61.111 0.00 0.00 43.14 4.75
3549 3855 9.093970 CGTATGAGTTAACAATCTGAATTGGTA 57.906 33.333 8.61 0.00 45.48 3.25
3551 3857 7.279981 TCCGTATGAGTTAACAATCTGAATTGG 59.720 37.037 8.61 0.00 45.48 3.16
3674 3980 5.481105 CCAACTTGCCATAACATTTGTGAT 58.519 37.500 0.00 0.00 0.00 3.06
3694 4000 2.660670 ATTCCAAACGGTGTACCCAA 57.339 45.000 0.00 0.00 0.00 4.12
3695 4001 2.660670 AATTCCAAACGGTGTACCCA 57.339 45.000 0.00 0.00 0.00 4.51
3696 4002 3.318557 TCAAAATTCCAAACGGTGTACCC 59.681 43.478 0.00 0.00 0.00 3.69
3697 4003 4.571372 TCAAAATTCCAAACGGTGTACC 57.429 40.909 0.00 0.00 0.00 3.34
3698 4004 5.525199 ACATCAAAATTCCAAACGGTGTAC 58.475 37.500 0.00 0.00 0.00 2.90
3699 4005 5.776173 ACATCAAAATTCCAAACGGTGTA 57.224 34.783 0.00 0.00 0.00 2.90
3700 4006 4.664150 ACATCAAAATTCCAAACGGTGT 57.336 36.364 0.00 0.00 0.00 4.16
3702 4008 6.642707 TCTAACATCAAAATTCCAAACGGT 57.357 33.333 0.00 0.00 0.00 4.83
3703 4009 8.532977 AAATCTAACATCAAAATTCCAAACGG 57.467 30.769 0.00 0.00 0.00 4.44
3704 4010 8.647226 GGAAATCTAACATCAAAATTCCAAACG 58.353 33.333 0.00 0.00 36.09 3.60
3705 4011 9.710900 AGGAAATCTAACATCAAAATTCCAAAC 57.289 29.630 0.00 0.00 38.00 2.93
3706 4012 9.927668 GAGGAAATCTAACATCAAAATTCCAAA 57.072 29.630 0.00 0.00 38.00 3.28
3708 4014 7.673504 TGGAGGAAATCTAACATCAAAATTCCA 59.326 33.333 0.00 0.00 38.00 3.53
3709 4015 8.066612 TGGAGGAAATCTAACATCAAAATTCC 57.933 34.615 0.00 0.00 36.25 3.01
3710 4016 7.704047 GCTGGAGGAAATCTAACATCAAAATTC 59.296 37.037 0.00 0.00 0.00 2.17
3711 4017 7.178983 TGCTGGAGGAAATCTAACATCAAAATT 59.821 33.333 0.00 0.00 0.00 1.82
3712 4018 6.664816 TGCTGGAGGAAATCTAACATCAAAAT 59.335 34.615 0.00 0.00 0.00 1.82
3713 4019 6.009589 TGCTGGAGGAAATCTAACATCAAAA 58.990 36.000 0.00 0.00 0.00 2.44
3714 4020 5.569355 TGCTGGAGGAAATCTAACATCAAA 58.431 37.500 0.00 0.00 0.00 2.69
3715 4021 5.178096 TGCTGGAGGAAATCTAACATCAA 57.822 39.130 0.00 0.00 0.00 2.57
3795 4113 4.207891 AGGTCAAGAGTTATGTCGCAAT 57.792 40.909 0.00 0.00 0.00 3.56
3797 4115 5.105513 TCAATAGGTCAAGAGTTATGTCGCA 60.106 40.000 0.00 0.00 0.00 5.10
3830 4149 9.355215 CATCTTAGCGGGTATACAAATACTTAG 57.645 37.037 5.01 0.00 38.44 2.18
3847 4166 6.145535 GCCCATCTTATTTTTCATCTTAGCG 58.854 40.000 0.00 0.00 0.00 4.26
3896 4215 6.602009 ACTTTAGGCAGTAATTTGGGATGTAC 59.398 38.462 0.00 0.00 0.00 2.90
3900 4219 6.252995 TCAACTTTAGGCAGTAATTTGGGAT 58.747 36.000 0.00 0.00 0.00 3.85
3902 4221 5.975693 TCAACTTTAGGCAGTAATTTGGG 57.024 39.130 0.00 0.00 0.00 4.12
3909 4228 4.777896 AGTCCAGATCAACTTTAGGCAGTA 59.222 41.667 0.00 0.00 0.00 2.74
3915 4234 4.142730 GCAGCAAGTCCAGATCAACTTTAG 60.143 45.833 0.00 0.00 33.53 1.85
3916 4235 3.753272 GCAGCAAGTCCAGATCAACTTTA 59.247 43.478 0.00 0.00 33.53 1.85
3920 4239 0.445436 CGCAGCAAGTCCAGATCAAC 59.555 55.000 0.00 0.00 0.00 3.18
3977 4616 1.125093 TCAAAGGCTTCCCCGTCTCA 61.125 55.000 0.00 0.00 39.21 3.27
3992 4631 0.749818 TGAACCAGCGGCAAGTCAAA 60.750 50.000 1.45 0.00 0.00 2.69
4014 4911 4.999469 ATCAAAATGAAAAAGGCCCCTT 57.001 36.364 0.00 0.00 37.98 3.95
4020 4917 7.865385 TCTCAAACGGTATCAAAATGAAAAAGG 59.135 33.333 0.00 0.00 0.00 3.11
4053 5573 4.938226 GGTCCTCTTCGAAATCATCAAACT 59.062 41.667 0.00 0.00 0.00 2.66
4089 5609 5.163893 CCAACTGGTTTCGTATACACATGAC 60.164 44.000 0.00 0.00 0.00 3.06
4101 5621 0.307760 GCACACTCCAACTGGTTTCG 59.692 55.000 0.00 0.00 36.34 3.46
4193 5846 3.490439 TCTCAAGGACTGCATCAACAA 57.510 42.857 0.00 0.00 0.00 2.83
4194 5847 3.181451 ACTTCTCAAGGACTGCATCAACA 60.181 43.478 0.00 0.00 0.00 3.33
4195 5848 3.406764 ACTTCTCAAGGACTGCATCAAC 58.593 45.455 0.00 0.00 0.00 3.18
4197 5850 4.890158 TTACTTCTCAAGGACTGCATCA 57.110 40.909 0.00 0.00 0.00 3.07
4198 5851 5.065731 CCAATTACTTCTCAAGGACTGCATC 59.934 44.000 0.00 0.00 0.00 3.91
4237 5892 7.286316 GGTGAATTGGAAGATCATAATTGGAGT 59.714 37.037 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.