Multiple sequence alignment - TraesCS6A01G071600

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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 TraesCS6A01G071600 chr6A 100.000 3539 0 0 1 3539 39152285 39148747 0.000000e+00 6536
1 TraesCS6A01G071600 chr6D 90.254 1457 116 16 1217 2652 34980372 34978921 0.000000e+00 1881
2 TraesCS6A01G071600 chr6D 85.714 420 40 10 761 1170 34981028 34980619 3.270000e-115 425
3 TraesCS6A01G071600 chr6D 87.356 261 28 4 3279 3538 34978936 34978680 9.610000e-76 294
4 TraesCS6A01G071600 chr6B 88.377 955 99 6 1660 2609 72188035 72187088 0.000000e+00 1138
5 TraesCS6A01G071600 chr6B 98.387 620 7 1 2653 3272 478891006 478890390 0.000000e+00 1086
6 TraesCS6A01G071600 chr6B 83.163 879 82 29 3 854 72190658 72189819 0.000000e+00 743
7 TraesCS6A01G071600 chr6B 93.611 360 18 2 816 1170 72189128 72188769 1.870000e-147 532
8 TraesCS6A01G071600 chr6B 81.461 712 69 27 173 857 72189828 72189153 3.130000e-145 525
9 TraesCS6A01G071600 chr6B 90.000 360 21 11 1170 1516 72188598 72188241 5.390000e-123 451
10 TraesCS6A01G071600 chr6B 87.069 116 12 3 3420 3533 72186764 72186650 1.030000e-25 128
11 TraesCS6A01G071600 chr2B 99.517 621 2 1 2653 3273 8560235 8560854 0.000000e+00 1129
12 TraesCS6A01G071600 chr7B 99.355 620 4 0 2653 3272 64176159 64175540 0.000000e+00 1123
13 TraesCS6A01G071600 chr7B 97.604 626 15 0 2653 3278 706856020 706855395 0.000000e+00 1074
14 TraesCS6A01G071600 chr7B 86.177 463 50 5 2194 2652 608476438 608475986 4.110000e-134 488
15 TraesCS6A01G071600 chr5B 98.865 617 7 0 2653 3269 637139430 637140046 0.000000e+00 1101
16 TraesCS6A01G071600 chr3B 98.387 620 10 0 2653 3272 687653580 687652961 0.000000e+00 1090
17 TraesCS6A01G071600 chr3B 98.226 620 9 1 2653 3272 687623783 687623166 0.000000e+00 1083
18 TraesCS6A01G071600 chr3B 98.226 620 10 1 2653 3272 768735249 768735867 0.000000e+00 1083
19 TraesCS6A01G071600 chr5A 97.585 621 14 1 2653 3273 322889144 322888525 0.000000e+00 1062
20 TraesCS6A01G071600 chr7A 87.284 464 52 5 2194 2652 644856255 644855794 1.130000e-144 523
21 TraesCS6A01G071600 chr7A 96.739 92 1 2 814 904 46999381 46999471 6.120000e-33 152
22 TraesCS6A01G071600 chr7A 94.000 100 5 1 815 913 47052843 47052744 2.200000e-32 150
23 TraesCS6A01G071600 chr7A 93.000 100 3 3 816 911 47501580 47501481 3.680000e-30 143
24 TraesCS6A01G071600 chr7A 78.037 214 25 10 3315 3507 644855784 644855572 8.030000e-22 115
25 TraesCS6A01G071600 chr7D 85.129 464 40 9 2194 2652 560711534 560711095 6.970000e-122 448
26 TraesCS6A01G071600 chr7D 84.267 464 44 9 2194 2652 560685582 560685143 3.270000e-115 425
27 TraesCS6A01G071600 chr7D 88.106 227 21 6 2430 2652 560675563 560675339 7.530000e-67 265
28 TraesCS6A01G071600 chr7D 96.739 92 0 3 817 908 44403274 44403362 2.200000e-32 150
29 TraesCS6A01G071600 chr7D 96.739 92 0 3 817 908 44571491 44571579 2.200000e-32 150
30 TraesCS6A01G071600 chr7D 96.667 90 1 2 815 903 80201964 80202052 7.920000e-32 148
31 TraesCS6A01G071600 chr3D 94.792 96 2 3 816 908 510332894 510332989 2.850000e-31 147


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 TraesCS6A01G071600 chr6A 39148747 39152285 3538 True 6536.000000 6536 100.000000 1 3539 1 chr6A.!!$R1 3538
1 TraesCS6A01G071600 chr6D 34978680 34981028 2348 True 866.666667 1881 87.774667 761 3538 3 chr6D.!!$R1 2777
2 TraesCS6A01G071600 chr6B 478890390 478891006 616 True 1086.000000 1086 98.387000 2653 3272 1 chr6B.!!$R1 619
3 TraesCS6A01G071600 chr6B 72186650 72190658 4008 True 586.166667 1138 87.280167 3 3533 6 chr6B.!!$R2 3530
4 TraesCS6A01G071600 chr2B 8560235 8560854 619 False 1129.000000 1129 99.517000 2653 3273 1 chr2B.!!$F1 620
5 TraesCS6A01G071600 chr7B 64175540 64176159 619 True 1123.000000 1123 99.355000 2653 3272 1 chr7B.!!$R1 619
6 TraesCS6A01G071600 chr7B 706855395 706856020 625 True 1074.000000 1074 97.604000 2653 3278 1 chr7B.!!$R3 625
7 TraesCS6A01G071600 chr5B 637139430 637140046 616 False 1101.000000 1101 98.865000 2653 3269 1 chr5B.!!$F1 616
8 TraesCS6A01G071600 chr3B 687652961 687653580 619 True 1090.000000 1090 98.387000 2653 3272 1 chr3B.!!$R2 619
9 TraesCS6A01G071600 chr3B 687623166 687623783 617 True 1083.000000 1083 98.226000 2653 3272 1 chr3B.!!$R1 619
10 TraesCS6A01G071600 chr3B 768735249 768735867 618 False 1083.000000 1083 98.226000 2653 3272 1 chr3B.!!$F1 619
11 TraesCS6A01G071600 chr5A 322888525 322889144 619 True 1062.000000 1062 97.585000 2653 3273 1 chr5A.!!$R1 620
12 TraesCS6A01G071600 chr7A 644855572 644856255 683 True 319.000000 523 82.660500 2194 3507 2 chr7A.!!$R3 1313

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
241 242 0.038343 CAAAACCTCCACCCATTGCG 60.038 55.000 0.00 0.00 0.00 4.85 F
243 244 0.469144 AAACCTCCACCCATTGCGTT 60.469 50.000 0.00 0.00 0.00 4.84 F
326 327 0.505655 GTAAGTCGCGACACCACAAC 59.494 55.000 37.85 21.78 0.00 3.32 F
674 708 0.676466 TGGTGTTGCCTGCCTTATCG 60.676 55.000 0.00 0.00 38.35 2.92 F
1309 2289 1.066858 ACCGGTGTGCAGAACATAGAG 60.067 52.381 6.12 0.00 41.97 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1865 2919 0.447801 GTACCTGCTCATTGCCAACG 59.552 55.000 0.00 0.0 42.00 4.10 R
2218 3273 1.582502 GTAACCGTCGCAAAGAGATCG 59.417 52.381 0.00 0.0 0.00 3.69 R
2227 3282 1.588082 GAGGAAGGTAACCGTCGCA 59.412 57.895 0.00 0.0 32.91 5.10 R
2336 3392 0.691078 TTAGGGCAGTAGCTCCCAGG 60.691 60.000 10.68 0.0 44.52 4.45 R
3307 4376 0.033601 TGCCAGGTCCTTGTTGTTGT 60.034 50.000 0.00 0.0 0.00 3.32 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
23 24 1.593265 CTTTTGCCTGGGATGCCAC 59.407 57.895 0.00 0.00 0.00 5.01
37 38 0.252761 TGCCACACATCACCATCGAT 59.747 50.000 0.00 0.00 0.00 3.59
40 41 1.064505 CCACACATCACCATCGATTGC 59.935 52.381 0.00 0.00 0.00 3.56
41 42 1.009078 ACACATCACCATCGATTGCG 58.991 50.000 0.00 0.00 39.35 4.85
42 43 0.316442 CACATCACCATCGATTGCGC 60.316 55.000 0.00 0.00 37.46 6.09
74 75 7.599630 AATCACACATATCAACATTTTTGCC 57.400 32.000 0.00 0.00 0.00 4.52
88 89 2.685106 TTTGCCACCCCAACAATCTA 57.315 45.000 0.00 0.00 0.00 1.98
93 94 1.357761 CCACCCCAACAATCTAACCCT 59.642 52.381 0.00 0.00 0.00 4.34
98 99 1.818674 CCAACAATCTAACCCTGCACC 59.181 52.381 0.00 0.00 0.00 5.01
107 108 0.550147 AACCCTGCACCCCACTAGAT 60.550 55.000 0.00 0.00 0.00 1.98
186 187 1.281566 GCAAAATCCACAAACGCCGG 61.282 55.000 0.00 0.00 0.00 6.13
190 191 3.545124 ATCCACAAACGCCGGAGCA 62.545 57.895 5.05 0.00 39.83 4.26
191 192 4.025401 CCACAAACGCCGGAGCAC 62.025 66.667 5.05 0.00 39.83 4.40
200 201 2.395360 GCCGGAGCACGCAACAATA 61.395 57.895 5.05 0.00 42.52 1.90
204 205 1.448985 GGAGCACGCAACAATAAGGA 58.551 50.000 0.00 0.00 0.00 3.36
210 211 0.096976 CGCAACAATAAGGAGCCACG 59.903 55.000 0.00 0.00 0.00 4.94
236 237 1.480312 CCATGACAAAACCTCCACCCA 60.480 52.381 0.00 0.00 0.00 4.51
241 242 0.038343 CAAAACCTCCACCCATTGCG 60.038 55.000 0.00 0.00 0.00 4.85
243 244 0.469144 AAACCTCCACCCATTGCGTT 60.469 50.000 0.00 0.00 0.00 4.84
269 270 1.228367 CCTCCAGCAAGCCAACAGT 60.228 57.895 0.00 0.00 0.00 3.55
298 299 3.503839 TCACAACACCCCACCCCC 61.504 66.667 0.00 0.00 0.00 5.40
300 301 2.785389 ACAACACCCCACCCCCAT 60.785 61.111 0.00 0.00 0.00 4.00
301 302 2.283821 CAACACCCCACCCCCATG 60.284 66.667 0.00 0.00 0.00 3.66
312 313 0.550147 ACCCCCATGCCAGAGTAAGT 60.550 55.000 0.00 0.00 0.00 2.24
315 316 0.811616 CCCATGCCAGAGTAAGTCGC 60.812 60.000 0.00 0.00 0.00 5.19
326 327 0.505655 GTAAGTCGCGACACCACAAC 59.494 55.000 37.85 21.78 0.00 3.32
337 338 2.380285 ACCACAACCGTCCCAAGGT 61.380 57.895 0.00 0.00 45.29 3.50
358 359 2.732619 CCACCCTAGGTTCCGAGCC 61.733 68.421 8.29 0.00 31.02 4.70
409 422 4.840005 GAGGCCCACTAGCACCGC 62.840 72.222 0.00 0.00 0.00 5.68
435 448 4.758251 CCGGCGACAGTGATGGCA 62.758 66.667 9.30 0.00 0.00 4.92
460 473 3.010420 GTGATGAAGTAAGAGCCCAACC 58.990 50.000 0.00 0.00 0.00 3.77
464 477 1.823169 AAGTAAGAGCCCAACCGCGA 61.823 55.000 8.23 0.00 0.00 5.87
478 491 1.810030 CGCGACTAGGGTTTGGAGC 60.810 63.158 0.00 0.00 0.00 4.70
515 528 2.257409 AAACGGCATGGGAGCGAGAT 62.257 55.000 0.00 0.00 34.64 2.75
525 538 1.135867 GGAGCGAGATGAAGCGATTC 58.864 55.000 6.43 6.43 38.61 2.52
526 539 1.135867 GAGCGAGATGAAGCGATTCC 58.864 55.000 11.45 0.00 38.61 3.01
527 540 0.749649 AGCGAGATGAAGCGATTCCT 59.250 50.000 11.45 0.00 38.61 3.36
528 541 1.137872 AGCGAGATGAAGCGATTCCTT 59.862 47.619 11.45 0.00 38.61 3.36
529 542 2.362397 AGCGAGATGAAGCGATTCCTTA 59.638 45.455 11.45 0.00 38.61 2.69
530 543 2.473235 GCGAGATGAAGCGATTCCTTAC 59.527 50.000 11.45 0.00 0.00 2.34
531 544 3.797184 GCGAGATGAAGCGATTCCTTACT 60.797 47.826 11.45 4.84 0.00 2.24
532 545 4.363999 CGAGATGAAGCGATTCCTTACTT 58.636 43.478 11.45 0.00 0.00 2.24
533 546 4.442733 CGAGATGAAGCGATTCCTTACTTC 59.557 45.833 11.45 0.00 39.16 3.01
534 547 5.596845 GAGATGAAGCGATTCCTTACTTCT 58.403 41.667 11.45 3.72 39.39 2.85
535 548 5.355596 AGATGAAGCGATTCCTTACTTCTG 58.644 41.667 11.45 0.00 39.39 3.02
536 549 3.262420 TGAAGCGATTCCTTACTTCTGC 58.738 45.455 11.45 0.00 39.39 4.26
537 550 3.055819 TGAAGCGATTCCTTACTTCTGCT 60.056 43.478 11.45 0.00 39.39 4.24
538 551 3.618690 AGCGATTCCTTACTTCTGCTT 57.381 42.857 0.00 0.00 0.00 3.91
539 552 3.265791 AGCGATTCCTTACTTCTGCTTG 58.734 45.455 0.00 0.00 0.00 4.01
540 553 2.223135 GCGATTCCTTACTTCTGCTTGC 60.223 50.000 0.00 0.00 0.00 4.01
541 554 3.002791 CGATTCCTTACTTCTGCTTGCA 58.997 45.455 0.00 0.00 0.00 4.08
542 555 3.624861 CGATTCCTTACTTCTGCTTGCAT 59.375 43.478 0.00 0.00 0.00 3.96
553 566 3.813443 TCTGCTTGCATAAAGATCCTCC 58.187 45.455 0.00 0.00 38.24 4.30
554 567 3.200605 TCTGCTTGCATAAAGATCCTCCA 59.799 43.478 0.00 0.00 38.24 3.86
555 568 3.548770 TGCTTGCATAAAGATCCTCCAG 58.451 45.455 0.00 0.00 38.24 3.86
556 569 3.054139 TGCTTGCATAAAGATCCTCCAGT 60.054 43.478 0.00 0.00 38.24 4.00
557 570 3.950395 GCTTGCATAAAGATCCTCCAGTT 59.050 43.478 0.00 0.00 38.24 3.16
558 571 4.400567 GCTTGCATAAAGATCCTCCAGTTT 59.599 41.667 0.00 0.00 38.24 2.66
559 572 5.449725 GCTTGCATAAAGATCCTCCAGTTTC 60.450 44.000 0.00 0.00 38.24 2.78
560 573 5.441718 TGCATAAAGATCCTCCAGTTTCT 57.558 39.130 0.00 0.00 0.00 2.52
561 574 5.819991 TGCATAAAGATCCTCCAGTTTCTT 58.180 37.500 0.00 0.00 0.00 2.52
562 575 5.649395 TGCATAAAGATCCTCCAGTTTCTTG 59.351 40.000 0.00 0.00 0.00 3.02
563 576 5.882557 GCATAAAGATCCTCCAGTTTCTTGA 59.117 40.000 0.00 0.00 0.00 3.02
564 577 6.183360 GCATAAAGATCCTCCAGTTTCTTGAC 60.183 42.308 0.00 0.00 0.00 3.18
565 578 4.982241 AAGATCCTCCAGTTTCTTGACA 57.018 40.909 0.00 0.00 0.00 3.58
566 579 4.550076 AGATCCTCCAGTTTCTTGACAG 57.450 45.455 0.00 0.00 0.00 3.51
567 580 3.906846 AGATCCTCCAGTTTCTTGACAGT 59.093 43.478 0.00 0.00 0.00 3.55
576 589 6.650807 TCCAGTTTCTTGACAGTGCTTATAAG 59.349 38.462 8.20 8.20 0.00 1.73
584 597 6.121776 TGACAGTGCTTATAAGGAAAAGGA 57.878 37.500 14.28 0.00 0.00 3.36
591 604 6.374333 GTGCTTATAAGGAAAAGGATGTGTGA 59.626 38.462 14.28 0.00 0.00 3.58
593 606 7.067372 TGCTTATAAGGAAAAGGATGTGTGATG 59.933 37.037 14.28 0.00 0.00 3.07
594 607 5.841957 ATAAGGAAAAGGATGTGTGATGC 57.158 39.130 0.00 0.00 0.00 3.91
595 608 3.159213 AGGAAAAGGATGTGTGATGCA 57.841 42.857 0.00 0.00 0.00 3.96
596 609 3.705051 AGGAAAAGGATGTGTGATGCAT 58.295 40.909 0.00 0.00 0.00 3.96
598 611 2.953466 AAAGGATGTGTGATGCATGC 57.047 45.000 11.82 11.82 35.35 4.06
599 612 2.139323 AAGGATGTGTGATGCATGCT 57.861 45.000 20.33 4.11 44.87 3.79
600 613 3.286329 AAGGATGTGTGATGCATGCTA 57.714 42.857 20.33 5.73 42.74 3.49
602 615 3.409570 AGGATGTGTGATGCATGCTATC 58.590 45.455 20.33 18.81 41.96 2.08
604 617 3.756963 GGATGTGTGATGCATGCTATCAT 59.243 43.478 25.32 17.66 36.96 2.45
607 620 2.159037 GTGTGATGCATGCTATCATCGG 59.841 50.000 25.32 0.00 41.35 4.18
608 621 1.129998 GTGATGCATGCTATCATCGGC 59.870 52.381 25.32 14.69 41.35 5.54
674 708 0.676466 TGGTGTTGCCTGCCTTATCG 60.676 55.000 0.00 0.00 38.35 2.92
678 712 1.539388 TGTTGCCTGCCTTATCGTTTG 59.461 47.619 0.00 0.00 0.00 2.93
679 713 1.539827 GTTGCCTGCCTTATCGTTTGT 59.460 47.619 0.00 0.00 0.00 2.83
680 714 2.745281 GTTGCCTGCCTTATCGTTTGTA 59.255 45.455 0.00 0.00 0.00 2.41
681 715 2.352388 TGCCTGCCTTATCGTTTGTAC 58.648 47.619 0.00 0.00 0.00 2.90
682 716 2.289756 TGCCTGCCTTATCGTTTGTACA 60.290 45.455 0.00 0.00 0.00 2.90
683 717 2.943033 GCCTGCCTTATCGTTTGTACAT 59.057 45.455 0.00 0.00 0.00 2.29
684 718 4.124238 GCCTGCCTTATCGTTTGTACATA 58.876 43.478 0.00 0.00 0.00 2.29
714 748 5.017294 AGCTACTGATACCTTTTGAGCTC 57.983 43.478 6.82 6.82 33.92 4.09
727 761 7.542025 ACCTTTTGAGCTCTGCTAAAATTATG 58.458 34.615 16.19 1.89 38.61 1.90
735 769 9.840427 GAGCTCTGCTAAAATTATGTTTTAACA 57.160 29.630 6.43 0.00 39.88 2.41
752 786 9.081997 TGTTTTAACAGAAATGTGCTTTGTAAG 57.918 29.630 0.00 0.00 34.30 2.34
808 1509 2.359975 CTTCGCCTCCCCACAACC 60.360 66.667 0.00 0.00 0.00 3.77
809 1510 4.323477 TTCGCCTCCCCACAACCG 62.323 66.667 0.00 0.00 0.00 4.44
812 1513 4.410400 GCCTCCCCACAACCGGAG 62.410 72.222 9.46 1.96 44.59 4.63
813 1514 2.928396 CCTCCCCACAACCGGAGT 60.928 66.667 9.46 2.78 43.65 3.85
909 1666 2.939640 GCTACATCCCCGTTGTGTTGAT 60.940 50.000 0.00 0.00 0.00 2.57
936 1693 4.083271 GCACCTCACACCTTTCATTACTTC 60.083 45.833 0.00 0.00 0.00 3.01
938 1695 4.039973 ACCTCACACCTTTCATTACTTCGA 59.960 41.667 0.00 0.00 0.00 3.71
958 1717 6.913873 TCGATAGCATACGCACTACATATA 57.086 37.500 0.00 0.00 42.27 0.86
1164 1929 1.134901 CGAGGTTCGTCCGTCTCAG 59.865 63.158 0.00 0.00 41.99 3.35
1237 2217 1.215382 CACGGATGTCTTCCAGCGA 59.785 57.895 5.66 0.00 45.78 4.93
1240 2220 1.754803 ACGGATGTCTTCCAGCGATAA 59.245 47.619 5.66 0.00 45.78 1.75
1251 2231 5.928839 TCTTCCAGCGATAATGCTATCTTTC 59.071 40.000 0.00 0.00 45.23 2.62
1303 2283 1.803334 TATCAACCGGTGTGCAGAAC 58.197 50.000 8.52 0.00 0.00 3.01
1309 2289 1.066858 ACCGGTGTGCAGAACATAGAG 60.067 52.381 6.12 0.00 41.97 2.43
1421 2401 5.769484 TGTCGAGGTACTAATCATCCTTC 57.231 43.478 0.00 0.00 41.55 3.46
1423 2403 5.299531 TGTCGAGGTACTAATCATCCTTCAG 59.700 44.000 0.00 0.00 41.55 3.02
1433 2413 8.774546 ACTAATCATCCTTCAGATTCTCTACA 57.225 34.615 0.00 0.00 36.07 2.74
1488 2468 4.022589 TCTCCATGCTTGAGCTTTGAAAAG 60.023 41.667 4.44 0.00 42.66 2.27
1538 2562 4.638421 TCACATTCCTTTGTCGTGAGTTTT 59.362 37.500 0.00 0.00 32.99 2.43
1580 2606 5.473039 ACAGCTATTTTTCCATTCTGCAAC 58.527 37.500 0.00 0.00 0.00 4.17
1581 2607 5.244626 ACAGCTATTTTTCCATTCTGCAACT 59.755 36.000 0.00 0.00 0.00 3.16
1599 2629 4.143263 GCAACTTGAAATTTCTCGGCATTG 60.143 41.667 18.64 13.90 0.00 2.82
1619 2649 6.074356 GCATTGCAAGTGTCGTTCTTATTTTT 60.074 34.615 4.94 0.00 0.00 1.94
1621 2651 6.125327 TGCAAGTGTCGTTCTTATTTTTCA 57.875 33.333 0.00 0.00 0.00 2.69
1622 2652 6.734137 TGCAAGTGTCGTTCTTATTTTTCAT 58.266 32.000 0.00 0.00 0.00 2.57
1625 2655 8.539674 GCAAGTGTCGTTCTTATTTTTCATTTT 58.460 29.630 0.00 0.00 0.00 1.82
1774 2828 4.348656 GCTGACAGACATTGCACATAATG 58.651 43.478 6.65 0.00 42.38 1.90
1804 2858 1.616930 TCAACCCCATCCCGGCTAA 60.617 57.895 0.00 0.00 0.00 3.09
1878 2932 1.067199 CGCTTTCGTTGGCAATGAGC 61.067 55.000 20.42 19.43 44.65 4.26
1922 2976 5.207768 CAAATATGCAGTCTCAATAACGCC 58.792 41.667 0.00 0.00 0.00 5.68
1928 2982 2.076863 AGTCTCAATAACGCCAACTGC 58.923 47.619 0.00 0.00 0.00 4.40
1950 3004 3.997021 CACGGTAAGCTTTGATCTGAAGT 59.003 43.478 3.20 0.00 0.00 3.01
1951 3005 4.452455 CACGGTAAGCTTTGATCTGAAGTT 59.548 41.667 3.20 3.15 0.00 2.66
1952 3006 5.637810 CACGGTAAGCTTTGATCTGAAGTTA 59.362 40.000 3.20 6.11 0.00 2.24
1995 3049 3.124297 CCTTCGAAAGCAGCTCTACTTTG 59.876 47.826 9.92 0.00 36.28 2.77
2065 3119 2.648059 GGAGATTGGGATGAACCTGTG 58.352 52.381 0.00 0.00 38.98 3.66
2131 3185 8.425577 TTTATGATTCAGCAAGTAAGCTACTC 57.574 34.615 0.00 0.00 44.54 2.59
2140 3194 6.039270 CAGCAAGTAAGCTACTCATCTACTCT 59.961 42.308 0.00 0.00 44.54 3.24
2141 3195 6.039270 AGCAAGTAAGCTACTCATCTACTCTG 59.961 42.308 0.00 0.00 44.50 3.35
2142 3196 6.038825 GCAAGTAAGCTACTCATCTACTCTGA 59.961 42.308 0.00 0.00 38.26 3.27
2146 3200 7.996066 AGTAAGCTACTCATCTACTCTGATTGA 59.004 37.037 0.00 0.00 32.47 2.57
2161 3215 4.152938 TCTGATTGACTTGCATTCTTGTCG 59.847 41.667 0.00 0.00 32.64 4.35
2167 3221 2.358898 ACTTGCATTCTTGTCGCTTTGT 59.641 40.909 0.00 0.00 0.00 2.83
2173 3227 1.502231 TCTTGTCGCTTTGTCTGAGC 58.498 50.000 0.00 0.00 36.79 4.26
2174 3228 1.069204 TCTTGTCGCTTTGTCTGAGCT 59.931 47.619 0.00 0.00 37.99 4.09
2208 3263 2.446435 ACCGCTGCATCTATTTTGGTT 58.554 42.857 0.00 0.00 0.00 3.67
2218 3273 9.294030 CTGCATCTATTTTGGTTAGAATTTGAC 57.706 33.333 0.00 0.00 29.93 3.18
2227 3282 7.979444 TTGGTTAGAATTTGACGATCTCTTT 57.021 32.000 0.00 0.00 0.00 2.52
2334 3390 5.819991 TCAGCCTTCTCCACTTGATAAAAT 58.180 37.500 0.00 0.00 0.00 1.82
2336 3392 6.375455 TCAGCCTTCTCCACTTGATAAAATTC 59.625 38.462 0.00 0.00 0.00 2.17
2349 3405 5.684704 TGATAAAATTCCTGGGAGCTACTG 58.315 41.667 0.00 0.00 0.00 2.74
2361 3417 5.350547 TGGGAGCTACTGCCCTAATATATT 58.649 41.667 9.50 2.97 41.46 1.28
2448 3504 3.228188 TGTTTGAAGCTTCTGGATGGT 57.772 42.857 26.09 0.00 0.00 3.55
2478 3534 2.032528 CCCTCGTGCAAGGCTGAA 59.967 61.111 0.00 0.00 34.88 3.02
2502 3558 7.618019 ATCACTACAGGGAAATATTCAGCTA 57.382 36.000 0.00 0.00 0.00 3.32
2552 3616 8.421249 AAACCAAAATGATCTTCAGGTAATGA 57.579 30.769 0.00 0.00 35.62 2.57
2554 3618 6.604795 ACCAAAATGATCTTCAGGTAATGAGG 59.395 38.462 0.00 0.00 39.68 3.86
2556 3620 3.845781 TGATCTTCAGGTAATGAGGGC 57.154 47.619 0.00 0.00 39.68 5.19
2558 3622 3.718434 TGATCTTCAGGTAATGAGGGCAT 59.282 43.478 0.00 0.00 39.68 4.40
2563 3627 7.387265 TCTTCAGGTAATGAGGGCATATTAA 57.613 36.000 0.00 0.00 39.68 1.40
2574 3638 9.592196 AATGAGGGCATATTAACTTCATGTTAT 57.408 29.630 0.00 0.00 36.27 1.89
2579 3643 9.846248 GGGCATATTAACTTCATGTTATTGATC 57.154 33.333 0.00 0.00 40.41 2.92
2616 3684 1.386533 CATCTGGTGTTCAGGATGGC 58.613 55.000 0.00 0.00 43.53 4.40
2753 3821 2.428544 TGGCTTGCAACCCGTAATAT 57.571 45.000 6.31 0.00 0.00 1.28
3307 4376 4.202357 ACAGGAGTTTTATGACAGCACAGA 60.202 41.667 0.00 0.00 0.00 3.41
3308 4377 4.153117 CAGGAGTTTTATGACAGCACAGAC 59.847 45.833 0.00 0.00 0.00 3.51
3309 4378 4.065088 GGAGTTTTATGACAGCACAGACA 58.935 43.478 0.00 0.00 0.00 3.41
3310 4379 4.515191 GGAGTTTTATGACAGCACAGACAA 59.485 41.667 0.00 0.00 0.00 3.18
3321 4390 1.065551 GCACAGACAACAACAAGGACC 59.934 52.381 0.00 0.00 0.00 4.46
3324 4393 1.949525 CAGACAACAACAAGGACCTGG 59.050 52.381 0.00 0.00 0.00 4.45
3331 4400 0.542702 AACAAGGACCTGGCAATGGG 60.543 55.000 0.00 0.00 0.00 4.00
3332 4401 1.077265 CAAGGACCTGGCAATGGGT 59.923 57.895 0.00 0.00 38.70 4.51
3352 4421 1.363807 GTTTGGGCCTTCACTGCAC 59.636 57.895 4.53 0.00 0.00 4.57
3375 4444 7.320399 CACATGACTGTACATTAGGTAACTCA 58.680 38.462 0.00 0.00 40.58 3.41
3401 4470 3.952323 AGCTCATGAAATCATCCACAAGG 59.048 43.478 0.00 0.00 33.61 3.61
3511 4764 4.332268 TGGCAAGCAAAAACACAATCTTTC 59.668 37.500 0.00 0.00 0.00 2.62
3518 4771 5.175673 GCAAAAACACAATCTTTCTGTAGGC 59.824 40.000 0.00 0.00 0.00 3.93
3538 4791 3.953612 GGCCCAACTGATCATAATCACAA 59.046 43.478 0.00 0.00 36.98 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.683011 GCATCCCAGGCAAAAGCTCTA 60.683 52.381 0.00 0.00 0.00 2.43
1 2 0.969409 GCATCCCAGGCAAAAGCTCT 60.969 55.000 0.00 0.00 0.00 4.09
7 8 1.907807 GTGTGGCATCCCAGGCAAA 60.908 57.895 0.00 0.00 46.19 3.68
18 19 0.252761 ATCGATGGTGATGTGTGGCA 59.747 50.000 0.00 0.00 0.00 4.92
23 24 0.316442 GCGCAATCGATGGTGATGTG 60.316 55.000 17.63 10.09 38.10 3.21
37 38 3.298404 TGATTTTGGGCGGCGCAA 61.298 55.556 34.36 25.96 34.59 4.85
40 41 2.126502 GTGTGATTTTGGGCGGCG 60.127 61.111 0.51 0.51 0.00 6.46
41 42 0.814457 TATGTGTGATTTTGGGCGGC 59.186 50.000 0.00 0.00 0.00 6.53
42 43 2.687425 TGATATGTGTGATTTTGGGCGG 59.313 45.455 0.00 0.00 0.00 6.13
74 75 2.446435 CAGGGTTAGATTGTTGGGGTG 58.554 52.381 0.00 0.00 0.00 4.61
88 89 0.550147 ATCTAGTGGGGTGCAGGGTT 60.550 55.000 0.00 0.00 0.00 4.11
93 94 4.488770 TGATATGTATCTAGTGGGGTGCA 58.511 43.478 2.08 0.00 33.88 4.57
98 99 7.417229 CCACTGCTATGATATGTATCTAGTGGG 60.417 44.444 19.19 10.69 33.88 4.61
107 108 3.007940 GGTGCCCACTGCTATGATATGTA 59.992 47.826 0.00 0.00 42.00 2.29
182 183 1.917782 TTATTGTTGCGTGCTCCGGC 61.918 55.000 0.00 0.00 36.94 6.13
186 187 1.202076 GCTCCTTATTGTTGCGTGCTC 60.202 52.381 0.00 0.00 0.00 4.26
190 191 1.165270 GTGGCTCCTTATTGTTGCGT 58.835 50.000 0.00 0.00 0.00 5.24
191 192 0.096976 CGTGGCTCCTTATTGTTGCG 59.903 55.000 0.00 0.00 0.00 4.85
194 195 1.165270 GTGCGTGGCTCCTTATTGTT 58.835 50.000 0.00 0.00 0.00 2.83
210 211 1.372872 GGTTTTGTCATGGGCGTGC 60.373 57.895 0.00 0.00 0.00 5.34
219 220 2.315176 CAATGGGTGGAGGTTTTGTCA 58.685 47.619 0.00 0.00 0.00 3.58
236 237 1.675641 GAGGTGGAGGCAACGCAAT 60.676 57.895 0.00 0.00 46.39 3.56
241 242 2.360475 GCTGGAGGTGGAGGCAAC 60.360 66.667 0.00 0.00 0.00 4.17
243 244 2.853542 TTGCTGGAGGTGGAGGCA 60.854 61.111 0.00 0.00 0.00 4.75
281 282 3.503839 GGGGGTGGGGTGTTGTGA 61.504 66.667 0.00 0.00 0.00 3.58
282 283 3.159104 ATGGGGGTGGGGTGTTGTG 62.159 63.158 0.00 0.00 0.00 3.33
298 299 0.179137 TCGCGACTTACTCTGGCATG 60.179 55.000 3.71 0.00 0.00 4.06
300 301 1.211969 GTCGCGACTTACTCTGGCA 59.788 57.895 31.12 0.00 0.00 4.92
301 302 1.071567 GTGTCGCGACTTACTCTGGC 61.072 60.000 36.27 9.87 0.00 4.85
305 306 0.039798 TGTGGTGTCGCGACTTACTC 60.040 55.000 36.27 25.18 0.00 2.59
312 313 4.210093 ACGGTTGTGGTGTCGCGA 62.210 61.111 3.71 3.71 0.00 5.87
315 316 2.663852 GGGACGGTTGTGGTGTCG 60.664 66.667 0.00 0.00 33.45 4.35
326 327 2.032071 GTGGTGACCTTGGGACGG 59.968 66.667 2.11 0.00 0.00 4.79
337 338 0.613853 CTCGGAACCTAGGGTGGTGA 60.614 60.000 14.81 2.82 40.73 4.02
387 400 0.464554 GTGCTAGTGGGCCTCATTCC 60.465 60.000 4.53 0.00 0.00 3.01
435 448 2.239907 GGGCTCTTACTTCATCACCCTT 59.760 50.000 0.00 0.00 33.11 3.95
460 473 1.810030 GCTCCAAACCCTAGTCGCG 60.810 63.158 0.00 0.00 0.00 5.87
483 496 2.577593 CGTTTCCTCCGGAGACCC 59.422 66.667 33.39 15.53 33.87 4.46
497 510 2.735772 ATCTCGCTCCCATGCCGTT 61.736 57.895 0.00 0.00 0.00 4.44
501 514 1.505477 GCTTCATCTCGCTCCCATGC 61.505 60.000 0.00 0.00 0.00 4.06
515 528 3.055819 AGCAGAAGTAAGGAATCGCTTCA 60.056 43.478 0.92 0.00 39.62 3.02
525 538 6.238593 GGATCTTTATGCAAGCAGAAGTAAGG 60.239 42.308 15.82 5.37 31.70 2.69
526 539 6.541641 AGGATCTTTATGCAAGCAGAAGTAAG 59.458 38.462 15.82 6.93 31.70 2.34
527 540 6.418101 AGGATCTTTATGCAAGCAGAAGTAA 58.582 36.000 15.82 2.48 31.70 2.24
528 541 5.994250 AGGATCTTTATGCAAGCAGAAGTA 58.006 37.500 15.82 5.09 31.70 2.24
529 542 4.853007 AGGATCTTTATGCAAGCAGAAGT 58.147 39.130 15.82 7.68 31.70 3.01
530 543 4.275443 GGAGGATCTTTATGCAAGCAGAAG 59.725 45.833 12.19 12.19 33.73 2.85
531 544 4.202441 GGAGGATCTTTATGCAAGCAGAA 58.798 43.478 0.00 0.00 33.73 3.02
532 545 3.200605 TGGAGGATCTTTATGCAAGCAGA 59.799 43.478 0.00 0.00 33.73 4.26
533 546 3.548770 TGGAGGATCTTTATGCAAGCAG 58.451 45.455 0.00 0.00 33.73 4.24
534 547 3.054139 ACTGGAGGATCTTTATGCAAGCA 60.054 43.478 0.00 0.00 33.73 3.91
535 548 3.549794 ACTGGAGGATCTTTATGCAAGC 58.450 45.455 0.00 0.00 33.73 4.01
536 549 5.884792 AGAAACTGGAGGATCTTTATGCAAG 59.115 40.000 0.00 0.00 33.73 4.01
537 550 5.819991 AGAAACTGGAGGATCTTTATGCAA 58.180 37.500 0.00 0.00 33.73 4.08
538 551 5.441718 AGAAACTGGAGGATCTTTATGCA 57.558 39.130 0.00 0.00 33.73 3.96
539 552 5.882557 TCAAGAAACTGGAGGATCTTTATGC 59.117 40.000 0.00 0.00 33.73 3.14
540 553 6.881065 TGTCAAGAAACTGGAGGATCTTTATG 59.119 38.462 0.00 0.00 33.73 1.90
541 554 7.020827 TGTCAAGAAACTGGAGGATCTTTAT 57.979 36.000 0.00 0.00 33.73 1.40
542 555 6.043243 ACTGTCAAGAAACTGGAGGATCTTTA 59.957 38.462 0.00 0.00 33.73 1.85
553 566 6.650807 TCCTTATAAGCACTGTCAAGAAACTG 59.349 38.462 6.99 0.00 0.00 3.16
554 567 6.769512 TCCTTATAAGCACTGTCAAGAAACT 58.230 36.000 6.99 0.00 0.00 2.66
555 568 7.435068 TTCCTTATAAGCACTGTCAAGAAAC 57.565 36.000 6.99 0.00 0.00 2.78
556 569 8.458573 TTTTCCTTATAAGCACTGTCAAGAAA 57.541 30.769 6.99 5.53 0.00 2.52
557 570 7.174946 CCTTTTCCTTATAAGCACTGTCAAGAA 59.825 37.037 6.99 0.00 0.00 2.52
558 571 6.655003 CCTTTTCCTTATAAGCACTGTCAAGA 59.345 38.462 6.99 0.00 0.00 3.02
559 572 6.655003 TCCTTTTCCTTATAAGCACTGTCAAG 59.345 38.462 6.99 2.47 0.00 3.02
560 573 6.539173 TCCTTTTCCTTATAAGCACTGTCAA 58.461 36.000 6.99 0.00 0.00 3.18
561 574 6.121776 TCCTTTTCCTTATAAGCACTGTCA 57.878 37.500 6.99 0.00 0.00 3.58
562 575 6.599638 ACATCCTTTTCCTTATAAGCACTGTC 59.400 38.462 6.99 0.00 0.00 3.51
563 576 6.375455 CACATCCTTTTCCTTATAAGCACTGT 59.625 38.462 6.99 0.00 0.00 3.55
564 577 6.375455 ACACATCCTTTTCCTTATAAGCACTG 59.625 38.462 6.99 0.00 0.00 3.66
565 578 6.375455 CACACATCCTTTTCCTTATAAGCACT 59.625 38.462 6.99 0.00 0.00 4.40
566 579 6.374333 TCACACATCCTTTTCCTTATAAGCAC 59.626 38.462 6.99 0.00 0.00 4.40
567 580 6.480763 TCACACATCCTTTTCCTTATAAGCA 58.519 36.000 6.99 0.00 0.00 3.91
576 589 3.777478 CATGCATCACACATCCTTTTCC 58.223 45.455 0.00 0.00 0.00 3.13
584 597 3.435671 CGATGATAGCATGCATCACACAT 59.564 43.478 25.16 18.10 40.63 3.21
591 604 0.321034 ACGCCGATGATAGCATGCAT 60.321 50.000 21.98 11.35 34.11 3.96
593 606 0.588252 AAACGCCGATGATAGCATGC 59.412 50.000 10.51 10.51 34.11 4.06
594 607 4.668576 ATAAAACGCCGATGATAGCATG 57.331 40.909 0.00 0.00 34.11 4.06
595 608 4.515191 ACAATAAAACGCCGATGATAGCAT 59.485 37.500 0.00 0.00 37.47 3.79
596 609 3.874543 ACAATAAAACGCCGATGATAGCA 59.125 39.130 0.00 0.00 0.00 3.49
598 611 5.403897 ACACAATAAAACGCCGATGATAG 57.596 39.130 0.00 0.00 0.00 2.08
599 612 5.804692 AACACAATAAAACGCCGATGATA 57.195 34.783 0.00 0.00 0.00 2.15
600 613 4.695217 AACACAATAAAACGCCGATGAT 57.305 36.364 0.00 0.00 0.00 2.45
602 615 9.653067 TTATATAAACACAATAAAACGCCGATG 57.347 29.630 0.00 0.00 0.00 3.84
648 678 1.002315 GGCAGGCAACACCAATTTGAT 59.998 47.619 0.00 0.00 43.14 2.57
650 680 0.393820 AGGCAGGCAACACCAATTTG 59.606 50.000 0.00 0.00 43.14 2.32
657 691 1.165270 AACGATAAGGCAGGCAACAC 58.835 50.000 0.00 0.00 41.41 3.32
674 708 6.528423 CAGTAGCTCAGTCAGTATGTACAAAC 59.472 42.308 0.00 0.00 37.40 2.93
678 712 6.627395 ATCAGTAGCTCAGTCAGTATGTAC 57.373 41.667 0.00 0.00 37.40 2.90
679 713 6.711194 GGTATCAGTAGCTCAGTCAGTATGTA 59.289 42.308 0.00 0.00 37.40 2.29
680 714 5.533154 GGTATCAGTAGCTCAGTCAGTATGT 59.467 44.000 0.00 0.00 37.40 2.29
681 715 5.767665 AGGTATCAGTAGCTCAGTCAGTATG 59.232 44.000 0.00 0.00 33.52 2.39
682 716 5.947663 AGGTATCAGTAGCTCAGTCAGTAT 58.052 41.667 0.00 0.00 33.52 2.12
683 717 5.375283 AGGTATCAGTAGCTCAGTCAGTA 57.625 43.478 0.00 0.00 33.52 2.74
684 718 4.243793 AGGTATCAGTAGCTCAGTCAGT 57.756 45.455 0.00 0.00 33.52 3.41
727 761 9.083080 ACTTACAAAGCACATTTCTGTTAAAAC 57.917 29.630 0.00 0.00 31.62 2.43
735 769 7.996385 AGTTACAACTTACAAAGCACATTTCT 58.004 30.769 0.00 0.00 35.21 2.52
752 786 7.658575 TGGATGAGGTGTTAAGTTAGTTACAAC 59.341 37.037 0.00 0.00 0.00 3.32
785 1486 2.434774 GGGGAGGCGAAGGTGTTT 59.565 61.111 0.00 0.00 0.00 2.83
824 1581 1.829222 TCGATACCCCACTTCTCCAAC 59.171 52.381 0.00 0.00 0.00 3.77
909 1666 1.765904 TGAAAGGTGTGAGGTGCTACA 59.234 47.619 0.00 0.00 0.00 2.74
936 1693 8.561932 AAATATATGTAGTGCGTATGCTATCG 57.438 34.615 8.69 0.00 43.34 2.92
938 1695 7.926555 GGGAAATATATGTAGTGCGTATGCTAT 59.073 37.037 8.69 0.00 43.34 2.97
1105 1870 4.863925 GTCGCTCTCGGCAGAGGC 62.864 72.222 14.13 14.20 45.89 4.70
1141 1906 2.202272 CGGACGAACCTCGACGAC 60.202 66.667 2.59 0.00 43.74 4.34
1164 1929 2.125391 TGAGCTGCATCCACGAGC 60.125 61.111 1.02 0.00 0.00 5.03
1199 2146 2.348998 CCAGTCCTGGTGGCAGAC 59.651 66.667 5.11 0.00 45.53 3.51
1240 2220 7.256286 GCAGTCAAATTGAAGAAAGATAGCAT 58.744 34.615 0.00 0.00 0.00 3.79
1251 2231 4.572985 TGTCAAGGCAGTCAAATTGAAG 57.427 40.909 0.00 0.00 33.74 3.02
1303 2283 4.090090 ACATCCCGTAATCCTCCTCTATG 58.910 47.826 0.00 0.00 0.00 2.23
1309 2289 1.411612 ACGAACATCCCGTAATCCTCC 59.588 52.381 0.00 0.00 38.61 4.30
1423 2403 6.367422 CACTGGAACTTGTTCTGTAGAGAATC 59.633 42.308 5.51 0.00 40.40 2.52
1433 2413 4.523083 TGTTAAGCACTGGAACTTGTTCT 58.477 39.130 12.44 0.00 0.00 3.01
1488 2468 2.496470 ACCGACACAGAGAATAAGGACC 59.504 50.000 0.00 0.00 0.00 4.46
1538 2562 4.633565 GCTGTTCCATCCAAACAAACAAAA 59.366 37.500 0.00 0.00 36.27 2.44
1542 2566 3.733443 AGCTGTTCCATCCAAACAAAC 57.267 42.857 0.00 0.00 36.27 2.93
1580 2606 3.577667 TGCAATGCCGAGAAATTTCAAG 58.422 40.909 19.99 12.42 0.00 3.02
1581 2607 3.657015 TGCAATGCCGAGAAATTTCAA 57.343 38.095 19.99 1.10 0.00 2.69
1599 2629 7.623268 AATGAAAAATAAGAACGACACTTGC 57.377 32.000 0.00 0.00 0.00 4.01
1774 2828 1.271379 TGGGGTTGAGCTAACTTCTGC 60.271 52.381 0.00 0.00 39.31 4.26
1865 2919 0.447801 GTACCTGCTCATTGCCAACG 59.552 55.000 0.00 0.00 42.00 4.10
1878 2932 3.069016 TGCCGTATATTGTCCAGTACCTG 59.931 47.826 0.00 0.00 0.00 4.00
1922 2976 1.601903 TCAAAGCTTACCGTGCAGTTG 59.398 47.619 0.00 0.00 32.57 3.16
1928 2982 3.997021 ACTTCAGATCAAAGCTTACCGTG 59.003 43.478 0.00 0.00 0.00 4.94
1950 3004 8.588290 AGGATGCAACCTGTAACAAATAATAA 57.412 30.769 15.77 0.00 39.01 1.40
1951 3005 8.588290 AAGGATGCAACCTGTAACAAATAATA 57.412 30.769 17.31 0.00 40.49 0.98
1952 3006 7.480760 AAGGATGCAACCTGTAACAAATAAT 57.519 32.000 17.31 0.00 40.49 1.28
1995 3049 7.816031 TGGTTAAGTATGAGTTACTACTTGCAC 59.184 37.037 8.72 5.97 40.37 4.57
2032 3086 2.092375 CCAATCTCCCCAAGTAAGTCCC 60.092 54.545 0.00 0.00 0.00 4.46
2065 3119 8.416329 AGAATAATATCAGGGTGCAAATCAAAC 58.584 33.333 0.00 0.00 0.00 2.93
2131 3185 6.762187 AGAATGCAAGTCAATCAGAGTAGATG 59.238 38.462 0.00 0.00 30.01 2.90
2140 3194 3.365264 GCGACAAGAATGCAAGTCAATCA 60.365 43.478 0.00 0.00 30.01 2.57
2141 3195 3.120060 AGCGACAAGAATGCAAGTCAATC 60.120 43.478 0.00 0.00 30.01 2.67
2142 3196 2.816087 AGCGACAAGAATGCAAGTCAAT 59.184 40.909 0.00 0.00 30.01 2.57
2146 3200 2.358898 ACAAAGCGACAAGAATGCAAGT 59.641 40.909 0.00 0.00 0.00 3.16
2161 3215 3.576648 ACTTACGTAGCTCAGACAAAGC 58.423 45.455 0.00 0.00 40.14 3.51
2167 3221 5.007039 CGGTATGTTACTTACGTAGCTCAGA 59.993 44.000 0.00 0.00 42.11 3.27
2173 3227 3.727723 GCAGCGGTATGTTACTTACGTAG 59.272 47.826 0.00 0.00 0.00 3.51
2174 3228 3.128415 TGCAGCGGTATGTTACTTACGTA 59.872 43.478 0.00 0.00 0.00 3.57
2208 3263 5.288712 GTCGCAAAGAGATCGTCAAATTCTA 59.711 40.000 0.00 0.00 0.00 2.10
2218 3273 1.582502 GTAACCGTCGCAAAGAGATCG 59.417 52.381 0.00 0.00 0.00 3.69
2227 3282 1.588082 GAGGAAGGTAACCGTCGCA 59.412 57.895 0.00 0.00 32.91 5.10
2334 3390 1.995626 GGGCAGTAGCTCCCAGGAA 60.996 63.158 3.30 0.00 42.18 3.36
2336 3392 0.691078 TTAGGGCAGTAGCTCCCAGG 60.691 60.000 10.68 0.00 44.52 4.45
2349 3405 5.675538 AGAATCGAGCCAATATATTAGGGC 58.324 41.667 15.75 15.75 46.77 5.19
2361 3417 1.233950 TGCGCAAAAGAATCGAGCCA 61.234 50.000 8.16 0.00 0.00 4.75
2448 3504 2.550208 GCACGAGGGAAGGAAAGAGAAA 60.550 50.000 0.00 0.00 0.00 2.52
2478 3534 6.506538 AGCTGAATATTTCCCTGTAGTGAT 57.493 37.500 0.00 0.00 0.00 3.06
2502 3558 3.260380 CCTTCTCAAGTGTGATCTCCACT 59.740 47.826 11.40 11.40 45.86 4.00
2552 3616 8.995027 TCAATAACATGAAGTTAATATGCCCT 57.005 30.769 0.00 0.00 45.25 5.19
2574 3638 9.687210 GATGCAGCATTATTTTTATCAGATCAA 57.313 29.630 9.90 0.00 0.00 2.57
2579 3643 7.381408 CACCAGATGCAGCATTATTTTTATCAG 59.619 37.037 9.90 0.00 0.00 2.90
2580 3644 7.147863 ACACCAGATGCAGCATTATTTTTATCA 60.148 33.333 9.90 0.00 0.00 2.15
2581 3645 7.205297 ACACCAGATGCAGCATTATTTTTATC 58.795 34.615 9.90 0.00 0.00 1.75
2582 3646 7.116075 ACACCAGATGCAGCATTATTTTTAT 57.884 32.000 9.90 0.00 0.00 1.40
2583 3647 6.528537 ACACCAGATGCAGCATTATTTTTA 57.471 33.333 9.90 0.00 0.00 1.52
2589 3657 3.011818 CTGAACACCAGATGCAGCATTA 58.988 45.455 9.90 0.00 45.78 1.90
2616 3684 5.218139 GCTGGAACACATGAAGAAAAAGAG 58.782 41.667 0.00 0.00 0.00 2.85
2753 3821 0.684535 TCTGTCAGCCGTCCAAATCA 59.315 50.000 0.00 0.00 0.00 2.57
3281 4350 5.700832 TGTGCTGTCATAAAACTCCTGTAAG 59.299 40.000 0.00 0.00 0.00 2.34
3282 4351 5.616270 TGTGCTGTCATAAAACTCCTGTAA 58.384 37.500 0.00 0.00 0.00 2.41
3293 4362 4.195416 TGTTGTTGTCTGTGCTGTCATAA 58.805 39.130 0.00 0.00 0.00 1.90
3294 4363 3.802866 TGTTGTTGTCTGTGCTGTCATA 58.197 40.909 0.00 0.00 0.00 2.15
3295 4364 2.642427 TGTTGTTGTCTGTGCTGTCAT 58.358 42.857 0.00 0.00 0.00 3.06
3307 4376 0.033601 TGCCAGGTCCTTGTTGTTGT 60.034 50.000 0.00 0.00 0.00 3.32
3308 4377 1.110442 TTGCCAGGTCCTTGTTGTTG 58.890 50.000 0.00 0.00 0.00 3.33
3309 4378 1.688197 CATTGCCAGGTCCTTGTTGTT 59.312 47.619 0.00 0.00 0.00 2.83
3310 4379 1.331214 CATTGCCAGGTCCTTGTTGT 58.669 50.000 0.00 0.00 0.00 3.32
3321 4390 0.035176 CCCAAACAACCCATTGCCAG 59.965 55.000 0.00 0.00 39.66 4.85
3324 4393 1.302431 GGCCCAAACAACCCATTGC 60.302 57.895 0.00 0.00 39.66 3.56
3331 4400 0.249447 GCAGTGAAGGCCCAAACAAC 60.249 55.000 0.00 0.00 0.00 3.32
3332 4401 0.685785 TGCAGTGAAGGCCCAAACAA 60.686 50.000 0.00 0.00 0.00 2.83
3352 4421 8.251026 TCTTGAGTTACCTAATGTACAGTCATG 58.749 37.037 0.00 0.00 0.00 3.07
3375 4444 5.258841 TGTGGATGATTTCATGAGCTTCTT 58.741 37.500 0.00 0.00 36.57 2.52
3511 4764 4.422073 TTATGATCAGTTGGGCCTACAG 57.578 45.455 20.07 12.34 0.00 2.74


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

AutoCloner maintained by Alex Coulton.