Multiple sequence alignment - TraesCS2A01G514300

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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 TraesCS2A01G514300 chr2A 100.000 2732 0 0 1 2732 738920785 738923516 0.000000e+00 5046
1 TraesCS2A01G514300 chr2D 87.706 2188 108 57 588 2732 607283310 607285379 0.000000e+00 2401
2 TraesCS2A01G514300 chr2D 90.531 433 26 4 992 1421 603142116 603141696 2.380000e-155 558
3 TraesCS2A01G514300 chr2D 87.106 349 29 11 1 341 607282715 607283055 5.520000e-102 381
4 TraesCS2A01G514300 chr2D 94.215 121 7 0 1459 1579 603141691 603141571 4.650000e-43 185
5 TraesCS2A01G514300 chr2D 87.037 108 11 1 1472 1579 603141327 603141223 4.780000e-23 119
6 TraesCS2A01G514300 chr2B 88.016 2011 116 61 597 2565 739370005 739368078 0.000000e+00 2263
7 TraesCS2A01G514300 chr6A 99.342 456 3 0 2257 2712 184817907 184817452 0.000000e+00 826
8 TraesCS2A01G514300 chr7D 91.573 178 15 0 1207 1384 79964221 79964398 2.100000e-61 246
9 TraesCS2A01G514300 chr7B 91.573 178 15 0 1207 1384 27067544 27067721 2.100000e-61 246
10 TraesCS2A01G514300 chr7A 91.011 178 16 0 1207 1384 82942459 82942636 9.780000e-60 241
11 TraesCS2A01G514300 chr1D 80.000 185 33 4 1203 1385 475981249 475981067 1.710000e-27 134
12 TraesCS2A01G514300 chr1B 80.000 185 33 4 1203 1385 662193839 662193657 1.710000e-27 134
13 TraesCS2A01G514300 chr1A 80.000 185 33 4 1203 1385 571895377 571895195 1.710000e-27 134


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 TraesCS2A01G514300 chr2A 738920785 738923516 2731 False 5046.000000 5046 100.000000 1 2732 1 chr2A.!!$F1 2731
1 TraesCS2A01G514300 chr2D 607282715 607285379 2664 False 1391.000000 2401 87.406000 1 2732 2 chr2D.!!$F1 2731
2 TraesCS2A01G514300 chr2D 603141223 603142116 893 True 287.333333 558 90.594333 992 1579 3 chr2D.!!$R1 587
3 TraesCS2A01G514300 chr2B 739368078 739370005 1927 True 2263.000000 2263 88.016000 597 2565 1 chr2B.!!$R1 1968

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
725 812 0.033011 TCTTCTCTCTTCCCCCTCCG 60.033 60.0 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2568 2932 0.034186 CCCTCTGCCCAATTGTGCTA 60.034 55.0 14.13 1.86 0.0 3.49 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
28 29 1.449070 CTTTCGCGGGGGTAAGGAC 60.449 63.158 6.13 0.00 0.00 3.85
29 30 3.299524 TTTCGCGGGGGTAAGGACG 62.300 63.158 6.13 0.00 0.00 4.79
51 53 2.413837 TCTTTTCGTTGCCTAGTCAGC 58.586 47.619 0.00 0.00 0.00 4.26
64 66 4.390297 GCCTAGTCAGCTCTGTTTTGTAAG 59.610 45.833 0.00 0.00 0.00 2.34
65 67 4.932200 CCTAGTCAGCTCTGTTTTGTAAGG 59.068 45.833 0.00 0.00 0.00 2.69
66 68 3.142174 AGTCAGCTCTGTTTTGTAAGGC 58.858 45.455 0.00 0.00 0.00 4.35
67 69 2.878406 GTCAGCTCTGTTTTGTAAGGCA 59.122 45.455 0.00 0.00 0.00 4.75
68 70 3.503748 GTCAGCTCTGTTTTGTAAGGCAT 59.496 43.478 0.00 0.00 0.00 4.40
69 71 3.503363 TCAGCTCTGTTTTGTAAGGCATG 59.497 43.478 0.00 0.00 0.00 4.06
70 72 2.229784 AGCTCTGTTTTGTAAGGCATGC 59.770 45.455 9.90 9.90 0.00 4.06
71 73 2.030007 GCTCTGTTTTGTAAGGCATGCA 60.030 45.455 21.36 0.00 0.00 3.96
72 74 3.552684 GCTCTGTTTTGTAAGGCATGCAA 60.553 43.478 21.36 0.99 0.00 4.08
73 75 4.232221 CTCTGTTTTGTAAGGCATGCAAG 58.768 43.478 21.36 0.00 34.97 4.01
74 76 3.636300 TCTGTTTTGTAAGGCATGCAAGT 59.364 39.130 21.36 6.12 34.97 3.16
130 132 0.601841 AGCGGTTACTTGTTGACCCG 60.602 55.000 0.00 0.00 0.00 5.28
154 158 2.404923 TGTGAACGGAACTTGGACAA 57.595 45.000 0.00 0.00 0.00 3.18
164 168 3.003378 GGAACTTGGACAAGAAGAAACCG 59.997 47.826 18.15 0.00 40.79 4.44
249 254 3.118482 TGAGCAACAGAGAAGGATGGATC 60.118 47.826 0.00 0.00 0.00 3.36
250 255 2.158986 AGCAACAGAGAAGGATGGATCG 60.159 50.000 0.00 0.00 0.00 3.69
251 256 2.831333 CAACAGAGAAGGATGGATCGG 58.169 52.381 0.00 0.00 0.00 4.18
252 257 2.432146 CAACAGAGAAGGATGGATCGGA 59.568 50.000 0.00 0.00 0.00 4.55
258 263 2.366916 AGAAGGATGGATCGGATGTGAC 59.633 50.000 0.00 0.00 0.00 3.67
260 265 0.389391 GGATGGATCGGATGTGACGT 59.611 55.000 0.00 0.00 0.00 4.34
265 270 1.076533 GATCGGATGTGACGTTGCGT 61.077 55.000 0.00 0.00 45.10 5.24
271 276 1.726791 GATGTGACGTTGCGTTCATCT 59.273 47.619 21.01 4.69 42.13 2.90
272 277 1.136690 TGTGACGTTGCGTTCATCTC 58.863 50.000 0.00 0.00 41.37 2.75
279 284 4.180817 ACGTTGCGTTCATCTCATCATAA 58.819 39.130 0.00 0.00 36.35 1.90
290 295 8.946085 GTTCATCTCATCATAAAACTTACCACA 58.054 33.333 0.00 0.00 0.00 4.17
301 306 8.630037 CATAAAACTTACCACAAGAAAGAACCT 58.370 33.333 0.00 0.00 0.00 3.50
302 307 6.694877 AAACTTACCACAAGAAAGAACCTC 57.305 37.500 0.00 0.00 0.00 3.85
305 310 3.113260 ACCACAAGAAAGAACCTCTCG 57.887 47.619 0.00 0.00 0.00 4.04
330 338 0.882927 TTTTCTTGGACCGGCGACAG 60.883 55.000 9.30 0.00 0.00 3.51
331 339 1.750341 TTTCTTGGACCGGCGACAGA 61.750 55.000 9.30 0.00 0.00 3.41
341 349 1.282248 CGGCGACAGAACAACGATGT 61.282 55.000 0.00 0.00 43.14 3.06
351 359 0.593128 ACAACGATGTTGCTCCTTGC 59.407 50.000 9.45 0.00 35.91 4.01
352 360 0.877071 CAACGATGTTGCTCCTTGCT 59.123 50.000 0.00 0.00 43.37 3.91
353 361 2.076100 CAACGATGTTGCTCCTTGCTA 58.924 47.619 0.00 0.00 43.37 3.49
355 363 1.276421 ACGATGTTGCTCCTTGCTACT 59.724 47.619 0.00 0.00 45.30 2.57
356 364 1.929836 CGATGTTGCTCCTTGCTACTC 59.070 52.381 0.00 0.00 45.30 2.59
357 365 2.284190 GATGTTGCTCCTTGCTACTCC 58.716 52.381 0.00 0.00 45.30 3.85
358 366 0.324943 TGTTGCTCCTTGCTACTCCC 59.675 55.000 0.00 0.00 45.30 4.30
359 367 0.615850 GTTGCTCCTTGCTACTCCCT 59.384 55.000 0.00 0.00 42.58 4.20
360 368 0.905357 TTGCTCCTTGCTACTCCCTC 59.095 55.000 0.00 0.00 43.37 4.30
361 369 1.323271 TGCTCCTTGCTACTCCCTCG 61.323 60.000 0.00 0.00 43.37 4.63
362 370 1.324005 GCTCCTTGCTACTCCCTCGT 61.324 60.000 0.00 0.00 38.95 4.18
363 371 1.187087 CTCCTTGCTACTCCCTCGTT 58.813 55.000 0.00 0.00 0.00 3.85
364 372 1.550976 CTCCTTGCTACTCCCTCGTTT 59.449 52.381 0.00 0.00 0.00 3.60
365 373 1.975680 TCCTTGCTACTCCCTCGTTTT 59.024 47.619 0.00 0.00 0.00 2.43
366 374 2.370849 TCCTTGCTACTCCCTCGTTTTT 59.629 45.455 0.00 0.00 0.00 1.94
405 413 3.668596 AAACGTCTTACATTATGCGGC 57.331 42.857 0.00 0.00 0.00 6.53
406 414 1.205657 ACGTCTTACATTATGCGGCG 58.794 50.000 0.51 0.51 0.00 6.46
407 415 1.202325 ACGTCTTACATTATGCGGCGA 60.202 47.619 12.98 0.00 0.00 5.54
408 416 1.452025 CGTCTTACATTATGCGGCGAG 59.548 52.381 12.98 0.00 0.00 5.03
409 417 2.739292 GTCTTACATTATGCGGCGAGA 58.261 47.619 12.98 0.00 0.00 4.04
410 418 2.726760 GTCTTACATTATGCGGCGAGAG 59.273 50.000 12.98 0.00 0.00 3.20
411 419 2.361119 TCTTACATTATGCGGCGAGAGT 59.639 45.455 12.98 1.86 0.00 3.24
412 420 3.566742 TCTTACATTATGCGGCGAGAGTA 59.433 43.478 12.98 0.80 0.00 2.59
413 421 2.882927 ACATTATGCGGCGAGAGTAA 57.117 45.000 12.98 3.55 0.00 2.24
414 422 3.173668 ACATTATGCGGCGAGAGTAAA 57.826 42.857 12.98 0.00 0.00 2.01
415 423 3.728845 ACATTATGCGGCGAGAGTAAAT 58.271 40.909 12.98 0.00 0.00 1.40
416 424 3.494626 ACATTATGCGGCGAGAGTAAATG 59.505 43.478 12.98 12.82 0.00 2.32
417 425 3.446310 TTATGCGGCGAGAGTAAATGA 57.554 42.857 12.98 0.00 0.00 2.57
418 426 1.571919 ATGCGGCGAGAGTAAATGAC 58.428 50.000 12.98 0.00 0.00 3.06
419 427 0.800683 TGCGGCGAGAGTAAATGACG 60.801 55.000 12.98 0.00 0.00 4.35
420 428 0.524816 GCGGCGAGAGTAAATGACGA 60.525 55.000 12.98 0.00 0.00 4.20
421 429 1.467875 CGGCGAGAGTAAATGACGAG 58.532 55.000 0.00 0.00 0.00 4.18
426 434 3.059570 GCGAGAGTAAATGACGAGTTGTG 59.940 47.826 0.00 0.00 0.00 3.33
429 437 3.990469 AGAGTAAATGACGAGTTGTGCAG 59.010 43.478 0.00 0.00 0.00 4.41
431 439 0.235665 AAATGACGAGTTGTGCAGCG 59.764 50.000 0.00 0.00 0.00 5.18
432 440 1.568612 AATGACGAGTTGTGCAGCGG 61.569 55.000 0.00 0.00 0.00 5.52
435 443 1.959899 GACGAGTTGTGCAGCGGATG 61.960 60.000 0.00 0.00 0.00 3.51
445 453 3.635433 CAGCGGATGCAAATTCCAG 57.365 52.632 5.70 0.11 46.23 3.86
447 455 1.203052 CAGCGGATGCAAATTCCAGTT 59.797 47.619 5.70 0.00 46.23 3.16
449 457 1.469767 GCGGATGCAAATTCCAGTTCC 60.470 52.381 5.70 0.00 42.15 3.62
454 462 0.171231 GCAAATTCCAGTTCCGAGGC 59.829 55.000 0.00 0.00 0.00 4.70
455 463 0.447801 CAAATTCCAGTTCCGAGGCG 59.552 55.000 0.00 0.00 0.00 5.52
458 466 2.240162 ATTCCAGTTCCGAGGCGACC 62.240 60.000 0.00 0.00 0.00 4.79
461 469 1.738099 CAGTTCCGAGGCGACCAAG 60.738 63.158 0.00 0.00 0.00 3.61
462 470 2.207924 AGTTCCGAGGCGACCAAGT 61.208 57.895 0.00 0.00 0.00 3.16
463 471 0.896940 AGTTCCGAGGCGACCAAGTA 60.897 55.000 0.00 0.00 0.00 2.24
470 478 3.488090 GCGACCAAGTAGCCACGC 61.488 66.667 0.00 0.00 39.33 5.34
471 479 2.261671 CGACCAAGTAGCCACGCT 59.738 61.111 0.00 0.00 43.41 5.07
475 483 1.521681 CCAAGTAGCCACGCTAGCC 60.522 63.158 9.66 0.00 42.11 3.93
484 505 3.147595 ACGCTAGCCGCCATGAGA 61.148 61.111 9.66 0.00 41.76 3.27
498 519 2.294512 CCATGAGATGACGCTAGCTGTA 59.705 50.000 13.93 0.00 0.00 2.74
502 523 0.317938 GATGACGCTAGCTGTACCGG 60.318 60.000 13.93 0.00 0.00 5.28
504 525 0.961857 TGACGCTAGCTGTACCGGAA 60.962 55.000 9.46 0.00 0.00 4.30
551 572 1.136305 AGTACGACGGATGGATGTTGG 59.864 52.381 0.00 0.00 0.00 3.77
552 573 1.134907 GTACGACGGATGGATGTTGGT 60.135 52.381 0.00 0.00 0.00 3.67
554 575 1.006832 CGACGGATGGATGTTGGTTC 58.993 55.000 0.00 0.00 0.00 3.62
555 576 1.006832 GACGGATGGATGTTGGTTCG 58.993 55.000 0.00 0.00 0.00 3.95
571 592 4.426416 TGGTTCGGAGAATTGTACGTATG 58.574 43.478 7.15 0.00 45.90 2.39
572 593 4.082081 TGGTTCGGAGAATTGTACGTATGT 60.082 41.667 7.15 0.00 45.90 2.29
573 594 5.125257 TGGTTCGGAGAATTGTACGTATGTA 59.875 40.000 7.15 0.00 45.90 2.29
574 595 5.456822 GGTTCGGAGAATTGTACGTATGTAC 59.543 44.000 16.86 16.86 46.60 2.90
575 596 5.456822 GTTCGGAGAATTGTACGTATGTACC 59.543 44.000 20.06 6.89 46.18 3.34
576 597 5.730289 TTCGGAGAATTGTACGTATGTACCG 60.730 44.000 20.06 14.86 46.18 4.02
581 602 3.148823 GTACGTATGTACCGGACGC 57.851 57.895 9.46 0.00 44.25 5.19
583 604 1.090728 TACGTATGTACCGGACGCAA 58.909 50.000 9.46 0.00 40.19 4.85
584 605 0.179156 ACGTATGTACCGGACGCAAG 60.179 55.000 9.46 2.95 40.19 4.01
605 684 4.394712 GGTGAGACGGTGGGCCTG 62.395 72.222 4.53 0.00 0.00 4.85
684 768 3.143807 CAGTAGAGTACACTGCTGCTC 57.856 52.381 21.34 0.00 41.78 4.26
722 809 1.007842 GTCCTCTTCTCTCTTCCCCCT 59.992 57.143 0.00 0.00 0.00 4.79
725 812 0.033011 TCTTCTCTCTTCCCCCTCCG 60.033 60.000 0.00 0.00 0.00 4.63
830 917 3.452627 AGCAAATAGATAGATAGCCCGGG 59.547 47.826 19.09 19.09 0.00 5.73
831 918 3.798202 CAAATAGATAGATAGCCCGGGC 58.202 50.000 39.29 39.29 42.33 6.13
847 934 3.791586 GCTGGACTGGAGGGAGGC 61.792 72.222 0.00 0.00 0.00 4.70
850 937 2.190488 CTGGACTGGAGGGAGGCAAC 62.190 65.000 0.00 0.00 0.00 4.17
852 939 1.761174 GACTGGAGGGAGGCAACAA 59.239 57.895 0.00 0.00 41.41 2.83
870 957 1.893919 AAAGAGAGACCAGCTCCGCC 61.894 60.000 0.00 0.00 45.10 6.13
871 958 3.844090 GAGAGACCAGCTCCGCCC 61.844 72.222 0.00 0.00 45.10 6.13
892 979 0.039165 GCTGCACACCAAAAGCTACC 60.039 55.000 0.00 0.00 32.82 3.18
900 987 1.354705 ACCAAAAGCTACCCCTCCTTC 59.645 52.381 0.00 0.00 0.00 3.46
974 1071 2.030371 GCGTAGGAGCTTAGGTAGGTT 58.970 52.381 0.00 0.00 33.94 3.50
983 1080 2.158943 GCTTAGGTAGGTTGTAGGCAGG 60.159 54.545 0.00 0.00 0.00 4.85
984 1081 1.492764 TAGGTAGGTTGTAGGCAGGC 58.507 55.000 0.00 0.00 0.00 4.85
985 1082 0.546747 AGGTAGGTTGTAGGCAGGCA 60.547 55.000 0.00 0.00 0.00 4.75
986 1083 0.107654 GGTAGGTTGTAGGCAGGCAG 60.108 60.000 0.00 0.00 0.00 4.85
987 1084 0.744771 GTAGGTTGTAGGCAGGCAGC 60.745 60.000 0.00 0.00 44.65 5.25
1357 1457 4.143333 TCTTCTACCTGCGCGGCC 62.143 66.667 11.81 0.00 35.61 6.13
1722 2036 4.477975 GACACCTCCGACGCCGAG 62.478 72.222 0.00 0.00 38.22 4.63
1740 2054 1.520342 GGCCGAGTGAAGCAGCTAG 60.520 63.158 0.00 0.00 0.00 3.42
1744 2058 0.179089 CGAGTGAAGCAGCTAGGCAT 60.179 55.000 0.00 0.00 35.83 4.40
1748 2062 2.086869 GTGAAGCAGCTAGGCATCAAA 58.913 47.619 5.64 0.00 42.35 2.69
1749 2063 2.097142 GTGAAGCAGCTAGGCATCAAAG 59.903 50.000 5.64 0.00 42.35 2.77
1773 2087 4.400961 AGCGGCTTCCAGTCCAGC 62.401 66.667 0.00 0.00 35.07 4.85
1787 2101 3.443045 CAGCCATCCACAACCCGC 61.443 66.667 0.00 0.00 0.00 6.13
1819 2133 0.108963 TAGCTAGTCTCCGGAGAGCC 59.891 60.000 34.41 22.95 40.22 4.70
1844 2161 1.431488 CCGGCGTGTGATCAATCAGG 61.431 60.000 6.01 0.00 37.51 3.86
1855 2172 3.754850 TGATCAATCAGGTTCAGCACAAG 59.245 43.478 0.00 0.00 32.11 3.16
1858 2175 1.531423 ATCAGGTTCAGCACAAGCAG 58.469 50.000 0.00 0.00 45.49 4.24
1872 2189 0.694771 AAGCAGCTCAATCCAGTCCA 59.305 50.000 0.00 0.00 0.00 4.02
1875 2192 0.393537 CAGCTCAATCCAGTCCACCC 60.394 60.000 0.00 0.00 0.00 4.61
1886 2203 1.538135 GTCCACCCACCCACCTACT 60.538 63.158 0.00 0.00 0.00 2.57
1918 2235 4.899239 CCTAGCAAGCTCCGCCGG 62.899 72.222 0.00 0.00 0.00 6.13
2011 2332 2.173569 CTGGATAAGAACAAGGGAGGGG 59.826 54.545 0.00 0.00 0.00 4.79
2106 2428 3.191371 ACAATCGCCACCATCTTCTTTTC 59.809 43.478 0.00 0.00 0.00 2.29
2108 2430 2.699954 TCGCCACCATCTTCTTTTCTC 58.300 47.619 0.00 0.00 0.00 2.87
2121 2443 5.874810 TCTTCTTTTCTCTCTCTCTCTCTCG 59.125 44.000 0.00 0.00 0.00 4.04
2122 2444 3.938963 TCTTTTCTCTCTCTCTCTCTCGC 59.061 47.826 0.00 0.00 0.00 5.03
2123 2445 2.325583 TTCTCTCTCTCTCTCTCGCC 57.674 55.000 0.00 0.00 0.00 5.54
2124 2446 0.104120 TCTCTCTCTCTCTCTCGCCG 59.896 60.000 0.00 0.00 0.00 6.46
2125 2447 0.179084 CTCTCTCTCTCTCTCGCCGT 60.179 60.000 0.00 0.00 0.00 5.68
2126 2448 0.179094 TCTCTCTCTCTCTCGCCGTC 60.179 60.000 0.00 0.00 0.00 4.79
2127 2449 0.179084 CTCTCTCTCTCTCGCCGTCT 60.179 60.000 0.00 0.00 0.00 4.18
2128 2450 0.179094 TCTCTCTCTCTCGCCGTCTC 60.179 60.000 0.00 0.00 0.00 3.36
2129 2451 0.179084 CTCTCTCTCTCGCCGTCTCT 60.179 60.000 0.00 0.00 0.00 3.10
2130 2452 0.250793 TCTCTCTCTCGCCGTCTCTT 59.749 55.000 0.00 0.00 0.00 2.85
2131 2453 0.376852 CTCTCTCTCGCCGTCTCTTG 59.623 60.000 0.00 0.00 0.00 3.02
2174 2496 9.347240 AGATAAGCATCAATTAGCAGTACAATT 57.653 29.630 0.00 0.00 33.21 2.32
2226 2548 4.388499 ATCGCCGCCTCCGTTGTT 62.388 61.111 0.00 0.00 0.00 2.83
2227 2549 3.009192 ATCGCCGCCTCCGTTGTTA 62.009 57.895 0.00 0.00 0.00 2.41
2228 2550 3.484547 CGCCGCCTCCGTTGTTAC 61.485 66.667 0.00 0.00 0.00 2.50
2242 2564 4.915085 CCGTTGTTACTTGTTAATTGCTGG 59.085 41.667 0.00 0.00 0.00 4.85
2268 2590 4.788840 GCATCGCTTCTGGATTTTGATCTG 60.789 45.833 0.00 0.00 0.00 2.90
2284 2611 7.728847 TTTGATCTGGTATACAATTGATCCG 57.271 36.000 13.59 5.73 32.00 4.18
2351 2683 4.112341 GGGAGCAGCAGCAAAGCG 62.112 66.667 3.17 0.00 45.49 4.68
2418 2750 1.332997 GCCAGCATGCACTAATCAGTC 59.667 52.381 21.98 0.00 30.46 3.51
2419 2751 1.596260 CCAGCATGCACTAATCAGTCG 59.404 52.381 21.98 0.00 30.46 4.18
2449 2781 2.028020 ACTTTTCTCCGTCCATGTCTCC 60.028 50.000 0.00 0.00 0.00 3.71
2478 2813 2.092291 TGCGTCTGAATCCGAACGC 61.092 57.895 14.33 14.33 45.31 4.84
2508 2854 5.163001 TGCAATTATGGATCAGGGATTGGTA 60.163 40.000 0.00 0.00 0.00 3.25
2510 2856 4.993705 TTATGGATCAGGGATTGGTACC 57.006 45.455 4.43 4.43 0.00 3.34
2538 2902 1.014352 ATCTAATCGCCAACGCCAAC 58.986 50.000 0.00 0.00 39.84 3.77
2553 2917 1.569493 CAACGAACCAAGTGGAGCG 59.431 57.895 3.83 9.39 39.64 5.03
2558 2922 1.294659 GAACCAAGTGGAGCGAGCTG 61.295 60.000 0.84 0.00 38.94 4.24
2568 2932 4.823276 GCGAGCTGCATGAGTAGT 57.177 55.556 1.02 0.00 45.45 2.73
2569 2933 3.946950 GCGAGCTGCATGAGTAGTA 57.053 52.632 1.02 0.00 45.45 1.82
2570 2934 1.764851 GCGAGCTGCATGAGTAGTAG 58.235 55.000 1.02 0.00 45.45 2.57
2571 2935 1.764851 CGAGCTGCATGAGTAGTAGC 58.235 55.000 1.02 0.00 43.79 3.58
2572 2936 1.066152 CGAGCTGCATGAGTAGTAGCA 59.934 52.381 1.02 0.00 45.52 3.49
2576 2946 3.118482 AGCTGCATGAGTAGTAGCACAAT 60.118 43.478 1.02 0.00 45.52 2.71
2597 2967 2.722201 GGCAGAGGGGTCGTAGGTG 61.722 68.421 0.00 0.00 0.00 4.00
2605 2975 2.515429 AGGGGTCGTAGGTGGATTACTA 59.485 50.000 0.00 0.00 0.00 1.82
2608 2978 3.317430 GGGTCGTAGGTGGATTACTAGTG 59.683 52.174 5.39 0.00 0.00 2.74
2609 2979 3.243334 GGTCGTAGGTGGATTACTAGTGC 60.243 52.174 5.39 0.00 0.00 4.40
2610 2980 3.379372 GTCGTAGGTGGATTACTAGTGCA 59.621 47.826 5.39 0.00 0.00 4.57
2611 2981 4.037684 GTCGTAGGTGGATTACTAGTGCAT 59.962 45.833 5.39 0.00 0.00 3.96
2612 2982 4.037565 TCGTAGGTGGATTACTAGTGCATG 59.962 45.833 5.39 0.00 0.00 4.06
2613 2983 3.199880 AGGTGGATTACTAGTGCATGC 57.800 47.619 11.82 11.82 0.00 4.06
2614 2984 2.774234 AGGTGGATTACTAGTGCATGCT 59.226 45.455 20.33 1.26 0.00 3.79
2615 2985 2.874701 GGTGGATTACTAGTGCATGCTG 59.125 50.000 20.33 8.94 0.00 4.41
2616 2986 2.289002 GTGGATTACTAGTGCATGCTGC 59.711 50.000 20.33 11.82 45.29 5.25
2625 2995 2.354656 GCATGCTGCATGATGGCG 60.355 61.111 38.70 17.23 43.81 5.69
2626 2996 3.116463 CATGCTGCATGATGGCGT 58.884 55.556 33.22 0.00 43.81 5.68
2627 2997 1.299089 CATGCTGCATGATGGCGTG 60.299 57.895 33.22 8.94 43.81 5.34
2628 2998 1.751544 ATGCTGCATGATGGCGTGT 60.752 52.632 15.44 0.00 36.28 4.49
2629 2999 2.000215 ATGCTGCATGATGGCGTGTG 62.000 55.000 15.44 0.00 36.28 3.82
2630 3000 2.693762 GCTGCATGATGGCGTGTGT 61.694 57.895 0.00 0.00 36.28 3.72
2664 3034 0.913205 GGTTTTGGTTGGGTTGGGTT 59.087 50.000 0.00 0.00 0.00 4.11
2665 3035 1.407575 GGTTTTGGTTGGGTTGGGTTG 60.408 52.381 0.00 0.00 0.00 3.77
2666 3036 0.912486 TTTTGGTTGGGTTGGGTTGG 59.088 50.000 0.00 0.00 0.00 3.77
2667 3037 0.983378 TTTGGTTGGGTTGGGTTGGG 60.983 55.000 0.00 0.00 0.00 4.12
2668 3038 2.182858 TTGGTTGGGTTGGGTTGGGT 62.183 55.000 0.00 0.00 0.00 4.51
2716 3087 1.926511 ATCGGCTGGAAAGCAAAGCG 61.927 55.000 0.00 0.00 37.83 4.68
2724 3095 2.786564 GAAAGCAAAGCGACGCCCAG 62.787 60.000 17.79 7.45 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.449070 GTCCTTACCCCCGCGAAAG 60.449 63.158 8.23 2.90 0.00 2.62
13 14 4.738998 TCGTCCTTACCCCCGCGA 62.739 66.667 8.23 0.00 0.00 5.87
14 15 3.495352 GATCGTCCTTACCCCCGCG 62.495 68.421 0.00 0.00 0.00 6.46
29 30 3.062774 GCTGACTAGGCAACGAAAAGATC 59.937 47.826 0.00 0.00 46.39 2.75
38 40 2.464157 AACAGAGCTGACTAGGCAAC 57.536 50.000 0.00 0.00 0.00 4.17
51 53 3.921119 TGCATGCCTTACAAAACAGAG 57.079 42.857 16.68 0.00 0.00 3.35
64 66 7.969536 TCTAGAAGAAATATACTTGCATGCC 57.030 36.000 16.68 0.00 0.00 4.40
69 71 9.670719 GGCAAATTCTAGAAGAAATATACTTGC 57.329 33.333 11.53 12.21 37.82 4.01
130 132 4.201970 TGTCCAAGTTCCGTTCACATTTTC 60.202 41.667 0.00 0.00 0.00 2.29
183 187 0.109964 TCGCCACGCTGTAATTTTGC 60.110 50.000 0.00 0.00 0.00 3.68
214 218 1.978455 TTGCTCACCAACCCTCGTGT 61.978 55.000 0.00 0.00 0.00 4.49
249 254 1.129809 GAACGCAACGTCACATCCG 59.870 57.895 0.00 0.00 39.99 4.18
250 255 0.796312 ATGAACGCAACGTCACATCC 59.204 50.000 0.00 0.00 39.99 3.51
251 256 1.726791 AGATGAACGCAACGTCACATC 59.273 47.619 21.30 21.30 44.68 3.06
252 257 1.726791 GAGATGAACGCAACGTCACAT 59.273 47.619 10.75 10.75 39.99 3.21
258 263 4.777140 TTATGATGAGATGAACGCAACG 57.223 40.909 0.00 0.00 0.00 4.10
260 265 6.741992 AGTTTTATGATGAGATGAACGCAA 57.258 33.333 0.00 0.00 0.00 4.85
265 270 9.513906 TTGTGGTAAGTTTTATGATGAGATGAA 57.486 29.630 0.00 0.00 0.00 2.57
271 276 9.567776 TCTTTCTTGTGGTAAGTTTTATGATGA 57.432 29.630 0.00 0.00 0.00 2.92
279 284 6.424032 AGAGGTTCTTTCTTGTGGTAAGTTT 58.576 36.000 0.00 0.00 0.00 2.66
313 318 1.750341 TTCTGTCGCCGGTCCAAGAA 61.750 55.000 1.90 5.51 0.00 2.52
315 320 2.027625 GTTCTGTCGCCGGTCCAAG 61.028 63.158 1.90 0.00 0.00 3.61
323 331 0.865769 AACATCGTTGTTCTGTCGCC 59.134 50.000 6.04 0.00 42.43 5.54
330 338 2.918131 GCAAGGAGCAACATCGTTGTTC 60.918 50.000 13.36 13.36 44.24 3.18
344 352 1.187087 AACGAGGGAGTAGCAAGGAG 58.813 55.000 0.00 0.00 0.00 3.69
346 354 2.474410 AAAACGAGGGAGTAGCAAGG 57.526 50.000 0.00 0.00 0.00 3.61
383 391 4.408694 GCCGCATAATGTAAGACGTTTTT 58.591 39.130 0.00 0.00 0.00 1.94
384 392 3.484557 CGCCGCATAATGTAAGACGTTTT 60.485 43.478 0.00 0.00 0.00 2.43
385 393 2.029970 CGCCGCATAATGTAAGACGTTT 59.970 45.455 0.00 0.00 0.00 3.60
386 394 1.591158 CGCCGCATAATGTAAGACGTT 59.409 47.619 0.00 0.00 0.00 3.99
387 395 1.202325 TCGCCGCATAATGTAAGACGT 60.202 47.619 0.00 0.00 0.00 4.34
388 396 1.452025 CTCGCCGCATAATGTAAGACG 59.548 52.381 0.00 0.00 0.00 4.18
389 397 2.726760 CTCTCGCCGCATAATGTAAGAC 59.273 50.000 0.00 0.00 0.00 3.01
390 398 2.361119 ACTCTCGCCGCATAATGTAAGA 59.639 45.455 0.00 0.00 0.00 2.10
391 399 2.743938 ACTCTCGCCGCATAATGTAAG 58.256 47.619 0.00 0.00 0.00 2.34
392 400 2.882927 ACTCTCGCCGCATAATGTAA 57.117 45.000 0.00 0.00 0.00 2.41
393 401 3.994204 TTACTCTCGCCGCATAATGTA 57.006 42.857 0.00 0.00 0.00 2.29
394 402 2.882927 TTACTCTCGCCGCATAATGT 57.117 45.000 0.00 0.00 0.00 2.71
395 403 3.740832 TCATTTACTCTCGCCGCATAATG 59.259 43.478 0.00 0.00 0.00 1.90
396 404 3.741344 GTCATTTACTCTCGCCGCATAAT 59.259 43.478 0.00 0.00 0.00 1.28
397 405 3.120792 GTCATTTACTCTCGCCGCATAA 58.879 45.455 0.00 0.00 0.00 1.90
398 406 2.739292 GTCATTTACTCTCGCCGCATA 58.261 47.619 0.00 0.00 0.00 3.14
399 407 1.571919 GTCATTTACTCTCGCCGCAT 58.428 50.000 0.00 0.00 0.00 4.73
400 408 0.800683 CGTCATTTACTCTCGCCGCA 60.801 55.000 0.00 0.00 0.00 5.69
401 409 0.524816 TCGTCATTTACTCTCGCCGC 60.525 55.000 0.00 0.00 0.00 6.53
402 410 1.202154 ACTCGTCATTTACTCTCGCCG 60.202 52.381 0.00 0.00 0.00 6.46
403 411 2.563471 ACTCGTCATTTACTCTCGCC 57.437 50.000 0.00 0.00 0.00 5.54
404 412 3.059570 CACAACTCGTCATTTACTCTCGC 59.940 47.826 0.00 0.00 0.00 5.03
405 413 3.059570 GCACAACTCGTCATTTACTCTCG 59.940 47.826 0.00 0.00 0.00 4.04
406 414 3.987868 TGCACAACTCGTCATTTACTCTC 59.012 43.478 0.00 0.00 0.00 3.20
407 415 3.990092 TGCACAACTCGTCATTTACTCT 58.010 40.909 0.00 0.00 0.00 3.24
408 416 3.423645 GCTGCACAACTCGTCATTTACTC 60.424 47.826 0.00 0.00 0.00 2.59
409 417 2.480419 GCTGCACAACTCGTCATTTACT 59.520 45.455 0.00 0.00 0.00 2.24
410 418 2.721797 CGCTGCACAACTCGTCATTTAC 60.722 50.000 0.00 0.00 0.00 2.01
411 419 1.459209 CGCTGCACAACTCGTCATTTA 59.541 47.619 0.00 0.00 0.00 1.40
412 420 0.235665 CGCTGCACAACTCGTCATTT 59.764 50.000 0.00 0.00 0.00 2.32
413 421 1.568612 CCGCTGCACAACTCGTCATT 61.569 55.000 0.00 0.00 0.00 2.57
414 422 2.029288 CCGCTGCACAACTCGTCAT 61.029 57.895 0.00 0.00 0.00 3.06
415 423 2.434658 ATCCGCTGCACAACTCGTCA 62.435 55.000 0.00 0.00 0.00 4.35
416 424 1.738099 ATCCGCTGCACAACTCGTC 60.738 57.895 0.00 0.00 0.00 4.20
417 425 2.029288 CATCCGCTGCACAACTCGT 61.029 57.895 0.00 0.00 0.00 4.18
418 426 2.780643 CATCCGCTGCACAACTCG 59.219 61.111 0.00 0.00 0.00 4.18
429 437 1.469767 GGAACTGGAATTTGCATCCGC 60.470 52.381 0.51 0.00 39.98 5.54
431 439 2.091541 TCGGAACTGGAATTTGCATCC 58.908 47.619 0.00 0.00 37.48 3.51
432 440 2.098117 CCTCGGAACTGGAATTTGCATC 59.902 50.000 0.00 0.00 0.00 3.91
435 443 0.171231 GCCTCGGAACTGGAATTTGC 59.829 55.000 0.00 0.00 0.00 3.68
445 453 0.458025 CTACTTGGTCGCCTCGGAAC 60.458 60.000 0.00 0.00 0.00 3.62
447 455 2.707849 GCTACTTGGTCGCCTCGGA 61.708 63.158 0.00 0.00 0.00 4.55
449 457 2.202756 GGCTACTTGGTCGCCTCG 60.203 66.667 6.06 0.00 40.58 4.63
454 462 0.525668 CTAGCGTGGCTACTTGGTCG 60.526 60.000 0.00 0.00 40.44 4.79
455 463 0.806492 GCTAGCGTGGCTACTTGGTC 60.806 60.000 0.00 0.00 40.44 4.02
458 466 1.878522 CGGCTAGCGTGGCTACTTG 60.879 63.158 9.00 0.00 40.44 3.16
470 478 3.207677 GTCATCTCATGGCGGCTAG 57.792 57.895 11.43 5.36 0.00 3.42
484 505 0.750546 TCCGGTACAGCTAGCGTCAT 60.751 55.000 9.55 0.00 41.39 3.06
498 519 8.393671 TGTATTTGTAATTTTGTACTTCCGGT 57.606 30.769 0.00 0.00 0.00 5.28
513 534 8.994881 CGTCGTACTACGTATTTGTATTTGTAA 58.005 33.333 11.48 0.00 43.14 2.41
518 539 6.358118 TCCGTCGTACTACGTATTTGTATT 57.642 37.500 17.39 0.00 43.14 1.89
519 540 5.984233 TCCGTCGTACTACGTATTTGTAT 57.016 39.130 17.39 0.00 43.14 2.29
529 550 3.369385 CAACATCCATCCGTCGTACTAC 58.631 50.000 0.00 0.00 0.00 2.73
530 551 2.359848 CCAACATCCATCCGTCGTACTA 59.640 50.000 0.00 0.00 0.00 1.82
531 552 1.136305 CCAACATCCATCCGTCGTACT 59.864 52.381 0.00 0.00 0.00 2.73
532 553 1.134907 ACCAACATCCATCCGTCGTAC 60.135 52.381 0.00 0.00 0.00 3.67
533 554 1.187974 ACCAACATCCATCCGTCGTA 58.812 50.000 0.00 0.00 0.00 3.43
535 556 1.006832 GAACCAACATCCATCCGTCG 58.993 55.000 0.00 0.00 0.00 5.12
536 557 1.006832 CGAACCAACATCCATCCGTC 58.993 55.000 0.00 0.00 0.00 4.79
539 560 1.209504 TCTCCGAACCAACATCCATCC 59.790 52.381 0.00 0.00 0.00 3.51
543 564 3.081804 ACAATTCTCCGAACCAACATCC 58.918 45.455 0.00 0.00 0.00 3.51
551 572 6.488062 GTACATACGTACAATTCTCCGAAC 57.512 41.667 0.00 0.00 46.18 3.95
571 592 1.445582 CCTCACTTGCGTCCGGTAC 60.446 63.158 0.00 0.00 0.00 3.34
572 593 1.904865 ACCTCACTTGCGTCCGGTA 60.905 57.895 0.00 0.00 0.00 4.02
573 594 3.231736 ACCTCACTTGCGTCCGGT 61.232 61.111 0.00 0.00 0.00 5.28
574 595 2.738521 CACCTCACTTGCGTCCGG 60.739 66.667 0.00 0.00 0.00 5.14
575 596 1.734477 CTCACCTCACTTGCGTCCG 60.734 63.158 0.00 0.00 0.00 4.79
576 597 0.667792 GTCTCACCTCACTTGCGTCC 60.668 60.000 0.00 0.00 0.00 4.79
578 599 1.007271 CGTCTCACCTCACTTGCGT 60.007 57.895 0.00 0.00 0.00 5.24
579 600 1.734477 CCGTCTCACCTCACTTGCG 60.734 63.158 0.00 0.00 0.00 4.85
580 601 0.946221 CACCGTCTCACCTCACTTGC 60.946 60.000 0.00 0.00 0.00 4.01
581 602 0.319900 CCACCGTCTCACCTCACTTG 60.320 60.000 0.00 0.00 0.00 3.16
583 604 1.908793 CCCACCGTCTCACCTCACT 60.909 63.158 0.00 0.00 0.00 3.41
584 605 2.657237 CCCACCGTCTCACCTCAC 59.343 66.667 0.00 0.00 0.00 3.51
585 606 3.311110 GCCCACCGTCTCACCTCA 61.311 66.667 0.00 0.00 0.00 3.86
692 779 1.227002 GAAGAGGACATCGACGGCC 60.227 63.158 0.00 0.00 0.00 6.13
725 812 1.125633 TCATAAACTAGCCCCGGTCC 58.874 55.000 0.00 0.00 0.00 4.46
732 819 6.303839 TGGTTGGGATAATCATAAACTAGCC 58.696 40.000 0.00 0.00 0.00 3.93
830 917 3.791586 GCCTCCCTCCAGTCCAGC 61.792 72.222 0.00 0.00 0.00 4.85
831 918 1.920325 TTGCCTCCCTCCAGTCCAG 60.920 63.158 0.00 0.00 0.00 3.86
832 919 2.206900 TTGCCTCCCTCCAGTCCA 59.793 61.111 0.00 0.00 0.00 4.02
833 920 1.779061 TTGTTGCCTCCCTCCAGTCC 61.779 60.000 0.00 0.00 0.00 3.85
834 921 0.110486 TTTGTTGCCTCCCTCCAGTC 59.890 55.000 0.00 0.00 0.00 3.51
847 934 2.421619 GGAGCTGGTCTCTCTTTGTTG 58.578 52.381 6.83 0.00 41.60 3.33
850 937 3.432517 CGGAGCTGGTCTCTCTTTG 57.567 57.895 6.83 0.00 41.60 2.77
870 957 2.336088 CTTTTGGTGTGCAGCGGG 59.664 61.111 0.00 0.00 0.00 6.13
871 958 1.514678 TAGCTTTTGGTGTGCAGCGG 61.515 55.000 0.00 0.00 37.35 5.52
872 959 0.385974 GTAGCTTTTGGTGTGCAGCG 60.386 55.000 0.00 0.00 37.35 5.18
920 1007 2.837291 CTGCCCTCTCTCTCCCCG 60.837 72.222 0.00 0.00 0.00 5.73
924 1011 2.441164 TCGGCTGCCCTCTCTCTC 60.441 66.667 14.12 0.00 0.00 3.20
925 1012 2.441901 CTCGGCTGCCCTCTCTCT 60.442 66.667 14.12 0.00 0.00 3.10
956 1053 4.583907 CCTACAACCTACCTAAGCTCCTAC 59.416 50.000 0.00 0.00 0.00 3.18
1524 1636 3.127533 GTGGTCATGCCGGTCTGC 61.128 66.667 1.90 0.00 41.21 4.26
1722 2036 1.520342 CTAGCTGCTTCACTCGGCC 60.520 63.158 7.79 0.00 36.52 6.13
1723 2037 1.520342 CCTAGCTGCTTCACTCGGC 60.520 63.158 7.79 0.00 36.12 5.54
1724 2038 1.520342 GCCTAGCTGCTTCACTCGG 60.520 63.158 7.79 0.67 0.00 4.63
1725 2039 0.179089 ATGCCTAGCTGCTTCACTCG 60.179 55.000 7.79 0.00 0.00 4.18
1726 2040 1.134580 TGATGCCTAGCTGCTTCACTC 60.135 52.381 7.79 0.00 39.59 3.51
1727 2041 0.907486 TGATGCCTAGCTGCTTCACT 59.093 50.000 7.79 0.00 39.59 3.41
1740 2054 0.098376 CGCTGCTTCTCTTTGATGCC 59.902 55.000 0.00 0.00 42.91 4.40
1744 2058 3.972227 GCCGCTGCTTCTCTTTGA 58.028 55.556 0.00 0.00 33.53 2.69
1766 2080 1.380302 GGTTGTGGATGGCTGGACT 59.620 57.895 0.00 0.00 0.00 3.85
1767 2081 1.678970 GGGTTGTGGATGGCTGGAC 60.679 63.158 0.00 0.00 0.00 4.02
1790 2104 1.000731 GAGACTAGCTAGCTGCATGGG 59.999 57.143 27.68 11.76 45.94 4.00
1797 2111 1.071699 CTCTCCGGAGACTAGCTAGCT 59.928 57.143 30.49 23.12 41.86 3.32
1798 2112 1.519408 CTCTCCGGAGACTAGCTAGC 58.481 60.000 30.49 6.62 41.86 3.42
1799 2113 1.519408 GCTCTCCGGAGACTAGCTAG 58.481 60.000 30.49 18.99 41.86 3.42
1800 2114 0.108963 GGCTCTCCGGAGACTAGCTA 59.891 60.000 31.56 13.75 43.98 3.32
1832 2146 3.076621 TGTGCTGAACCTGATTGATCAC 58.923 45.455 0.00 0.00 32.50 3.06
1844 2161 0.664761 TTGAGCTGCTTGTGCTGAAC 59.335 50.000 2.53 0.00 41.30 3.18
1855 2172 1.028868 GGTGGACTGGATTGAGCTGC 61.029 60.000 0.00 0.00 0.00 5.25
1858 2175 0.678048 GTGGGTGGACTGGATTGAGC 60.678 60.000 0.00 0.00 0.00 4.26
1872 2189 1.131928 GGAACAGTAGGTGGGTGGGT 61.132 60.000 0.00 0.00 0.00 4.51
1875 2192 1.375523 GCGGAACAGTAGGTGGGTG 60.376 63.158 0.00 0.00 0.00 4.61
1886 2203 0.970937 CTAGGGAGACAGGCGGAACA 60.971 60.000 0.00 0.00 0.00 3.18
2106 2428 0.179084 ACGGCGAGAGAGAGAGAGAG 60.179 60.000 16.62 0.00 0.00 3.20
2108 2430 0.179084 AGACGGCGAGAGAGAGAGAG 60.179 60.000 16.62 0.00 0.00 3.20
2121 2443 3.123620 CAGCCAGCAAGAGACGGC 61.124 66.667 0.00 0.00 45.23 5.68
2122 2444 0.037326 TAACAGCCAGCAAGAGACGG 60.037 55.000 0.00 0.00 0.00 4.79
2123 2445 1.929836 GATAACAGCCAGCAAGAGACG 59.070 52.381 0.00 0.00 0.00 4.18
2124 2446 1.929836 CGATAACAGCCAGCAAGAGAC 59.070 52.381 0.00 0.00 0.00 3.36
2125 2447 1.824852 TCGATAACAGCCAGCAAGAGA 59.175 47.619 0.00 0.00 0.00 3.10
2126 2448 2.200067 CTCGATAACAGCCAGCAAGAG 58.800 52.381 0.00 0.00 0.00 2.85
2127 2449 1.550524 ACTCGATAACAGCCAGCAAGA 59.449 47.619 0.00 0.00 0.00 3.02
2128 2450 2.015736 ACTCGATAACAGCCAGCAAG 57.984 50.000 0.00 0.00 0.00 4.01
2129 2451 2.758423 TCTACTCGATAACAGCCAGCAA 59.242 45.455 0.00 0.00 0.00 3.91
2130 2452 2.375146 TCTACTCGATAACAGCCAGCA 58.625 47.619 0.00 0.00 0.00 4.41
2131 2453 3.651803 ATCTACTCGATAACAGCCAGC 57.348 47.619 0.00 0.00 0.00 4.85
2174 2496 7.094549 CCAACTGGGACGATTAATTAACAGAAA 60.095 37.037 14.68 0.00 40.01 2.52
2215 2537 5.151389 CAATTAACAAGTAACAACGGAGGC 58.849 41.667 0.00 0.00 0.00 4.70
2225 2547 4.513198 GCACCCAGCAATTAACAAGTAA 57.487 40.909 0.00 0.00 44.79 2.24
2242 2564 1.098050 AAATCCAGAAGCGATGCACC 58.902 50.000 0.00 0.00 0.00 5.01
2268 2590 4.081322 ACCACCGGATCAATTGTATACC 57.919 45.455 9.46 4.45 0.00 2.73
2284 2611 1.474077 ACTGGATACGTACGAACCACC 59.526 52.381 24.41 16.51 42.51 4.61
2351 2683 2.150397 AACCTAACGCGGATATGCTC 57.850 50.000 12.47 0.00 0.00 4.26
2392 2724 4.129737 GTGCATGCTGGCTGGCTG 62.130 66.667 20.33 2.91 34.04 4.85
2393 2725 2.488771 TTAGTGCATGCTGGCTGGCT 62.489 55.000 20.33 7.85 34.04 4.75
2394 2726 1.389609 ATTAGTGCATGCTGGCTGGC 61.390 55.000 20.33 0.00 34.04 4.85
2395 2727 0.666913 GATTAGTGCATGCTGGCTGG 59.333 55.000 20.33 0.00 34.04 4.85
2396 2728 1.333931 CTGATTAGTGCATGCTGGCTG 59.666 52.381 20.33 3.12 34.04 4.85
2397 2729 1.064906 ACTGATTAGTGCATGCTGGCT 60.065 47.619 20.33 15.88 35.34 4.75
2462 2797 2.987593 CGCGTTCGGATTCAGACG 59.012 61.111 0.00 0.00 0.00 4.18
2478 2813 0.238289 GATCCATAATTGCACCGGCG 59.762 55.000 0.00 0.00 45.35 6.46
2508 2854 1.270147 GCGATTAGATTAGCCACCGGT 60.270 52.381 0.00 0.00 0.00 5.28
2538 2902 2.383527 GCTCGCTCCACTTGGTTCG 61.384 63.158 0.00 0.84 36.34 3.95
2553 2917 2.159184 TGTGCTACTACTCATGCAGCTC 60.159 50.000 0.00 0.00 36.03 4.09
2558 2922 3.313526 CCCAATTGTGCTACTACTCATGC 59.686 47.826 4.43 0.00 0.00 4.06
2565 2929 2.092968 CCTCTGCCCAATTGTGCTACTA 60.093 50.000 14.13 0.00 0.00 1.82
2567 2931 1.098050 CCTCTGCCCAATTGTGCTAC 58.902 55.000 14.13 0.00 0.00 3.58
2568 2932 0.034186 CCCTCTGCCCAATTGTGCTA 60.034 55.000 14.13 1.86 0.00 3.49
2569 2933 1.304713 CCCTCTGCCCAATTGTGCT 60.305 57.895 14.13 0.00 0.00 4.40
2570 2934 2.353610 CCCCTCTGCCCAATTGTGC 61.354 63.158 5.89 5.89 0.00 4.57
2571 2935 0.967380 GACCCCTCTGCCCAATTGTG 60.967 60.000 4.43 0.00 0.00 3.33
2572 2936 1.384191 GACCCCTCTGCCCAATTGT 59.616 57.895 4.43 0.00 0.00 2.71
2576 2946 1.987855 CTACGACCCCTCTGCCCAA 60.988 63.158 0.00 0.00 0.00 4.12
2585 2955 1.785647 AGTAATCCACCTACGACCCC 58.214 55.000 0.00 0.00 0.00 4.95
2609 2979 1.299089 CACGCCATCATGCAGCATG 60.299 57.895 27.10 27.10 42.60 4.06
2610 2980 1.751544 ACACGCCATCATGCAGCAT 60.752 52.632 0.52 0.52 0.00 3.79
2611 2981 2.360225 ACACGCCATCATGCAGCA 60.360 55.556 0.00 0.00 0.00 4.41
2612 2982 2.101575 CACACGCCATCATGCAGC 59.898 61.111 0.00 0.00 0.00 5.25
2613 2983 1.135939 CACACACGCCATCATGCAG 59.864 57.895 0.00 0.00 0.00 4.41
2614 2984 1.600356 ACACACACGCCATCATGCA 60.600 52.632 0.00 0.00 0.00 3.96
2615 2985 1.154169 CACACACACGCCATCATGC 60.154 57.895 0.00 0.00 0.00 4.06
2616 2986 0.110101 CACACACACACGCCATCATG 60.110 55.000 0.00 0.00 0.00 3.07
2617 2987 0.534877 ACACACACACACGCCATCAT 60.535 50.000 0.00 0.00 0.00 2.45
2618 2988 1.153269 ACACACACACACGCCATCA 60.153 52.632 0.00 0.00 0.00 3.07
2619 2989 1.279539 CACACACACACACGCCATC 59.720 57.895 0.00 0.00 0.00 3.51
2620 2990 2.186160 CCACACACACACACGCCAT 61.186 57.895 0.00 0.00 0.00 4.40
2621 2991 2.821810 CCACACACACACACGCCA 60.822 61.111 0.00 0.00 0.00 5.69
2622 2992 3.582120 CCCACACACACACACGCC 61.582 66.667 0.00 0.00 0.00 5.68
2623 2993 2.822255 ACCCACACACACACACGC 60.822 61.111 0.00 0.00 0.00 5.34
2624 2994 0.813610 ATCACCCACACACACACACG 60.814 55.000 0.00 0.00 0.00 4.49
2625 2995 1.065401 CAATCACCCACACACACACAC 59.935 52.381 0.00 0.00 0.00 3.82
2626 2996 1.387539 CAATCACCCACACACACACA 58.612 50.000 0.00 0.00 0.00 3.72
2627 2997 0.667993 CCAATCACCCACACACACAC 59.332 55.000 0.00 0.00 0.00 3.82
2628 2998 0.257328 ACCAATCACCCACACACACA 59.743 50.000 0.00 0.00 0.00 3.72
2629 2999 1.398692 AACCAATCACCCACACACAC 58.601 50.000 0.00 0.00 0.00 3.82
2630 3000 2.151502 AAACCAATCACCCACACACA 57.848 45.000 0.00 0.00 0.00 3.72
2664 3034 0.923358 CTTGGCCTAATACCCACCCA 59.077 55.000 3.32 0.00 0.00 4.51
2665 3035 0.185175 CCTTGGCCTAATACCCACCC 59.815 60.000 3.32 0.00 0.00 4.61
2666 3036 0.467474 GCCTTGGCCTAATACCCACC 60.467 60.000 3.32 0.00 0.00 4.61
2667 3037 0.467474 GGCCTTGGCCTAATACCCAC 60.467 60.000 22.47 0.00 0.00 4.61
2668 3038 0.921749 TGGCCTTGGCCTAATACCCA 60.922 55.000 28.37 5.66 0.00 4.51
2702 3073 1.441016 GCGTCGCTTTGCTTTCCAG 60.441 57.895 10.68 0.00 0.00 3.86
2703 3074 2.637025 GCGTCGCTTTGCTTTCCA 59.363 55.556 10.68 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.