Multiple sequence alignment - TraesCS1D01G083300

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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 TraesCS1D01G083300 chr1D 100.000 2047 0 0 866 2912 66323397 66321351 0.000000e+00 3781.0
1 TraesCS1D01G083300 chr1D 89.419 1153 100 12 910 2045 66389173 66390320 0.000000e+00 1434.0
2 TraesCS1D01G083300 chr1D 88.284 1212 100 18 874 2045 66354346 66353137 0.000000e+00 1413.0
3 TraesCS1D01G083300 chr1D 100.000 624 0 0 1 624 66324262 66323639 0.000000e+00 1153.0
4 TraesCS1D01G083300 chr1D 94.837 523 24 2 1 522 182471506 182470986 0.000000e+00 813.0
5 TraesCS1D01G083300 chr1D 81.633 392 70 2 1520 1910 66381967 66381577 1.010000e-84 324.0
6 TraesCS1D01G083300 chr1A 88.926 1183 105 10 888 2045 64836913 64835732 0.000000e+00 1435.0
7 TraesCS1D01G083300 chr1A 88.593 1201 92 26 867 2045 64896480 64897657 0.000000e+00 1417.0
8 TraesCS1D01G083300 chr1A 87.317 615 42 12 2313 2912 64898201 64898794 0.000000e+00 671.0
9 TraesCS1D01G083300 chr1A 81.864 397 66 4 1517 1910 65234528 65234921 2.160000e-86 329.0
10 TraesCS1D01G083300 chr1B 89.216 1122 97 14 939 2041 106903959 106905075 0.000000e+00 1380.0
11 TraesCS1D01G083300 chr1B 87.963 1188 114 12 874 2045 106817777 106816603 0.000000e+00 1375.0
12 TraesCS1D01G083300 chr1B 82.620 397 63 5 1517 1910 107130804 107131197 2.150000e-91 346.0
13 TraesCS1D01G083300 chr1B 97.143 35 1 0 874 908 106903084 106903118 3.130000e-05 60.2
14 TraesCS1D01G083300 chr6D 95.066 527 23 2 1 526 80034433 80033909 0.000000e+00 826.0
15 TraesCS1D01G083300 chr6D 94.636 522 24 3 1 522 193215813 193215296 0.000000e+00 806.0
16 TraesCS1D01G083300 chr6D 93.548 527 27 6 1 526 211651918 211652438 0.000000e+00 778.0
17 TraesCS1D01G083300 chr2D 94.518 529 25 3 1 527 99064663 99064137 0.000000e+00 813.0
18 TraesCS1D01G083300 chr7D 94.497 527 25 3 1 525 548394158 548393634 0.000000e+00 809.0
19 TraesCS1D01G083300 chr5D 94.455 523 26 2 1 522 444969879 444970399 0.000000e+00 802.0
20 TraesCS1D01G083300 chr3D 94.297 526 27 2 1 525 598078322 598078845 0.000000e+00 802.0
21 TraesCS1D01G083300 chr3D 94.253 522 25 3 1 522 135252397 135251881 0.000000e+00 793.0
22 TraesCS1D01G083300 chr6A 81.053 190 25 10 2684 2870 53066105 53065924 1.090000e-29 141.0
23 TraesCS1D01G083300 chr6A 80.952 189 27 8 2684 2870 53070281 53070100 1.090000e-29 141.0
24 TraesCS1D01G083300 chrUn 83.333 156 19 6 2684 2837 385385376 385385226 1.410000e-28 137.0
25 TraesCS1D01G083300 chr3B 81.739 115 14 7 2737 2846 18136700 18136812 4.000000e-14 89.8


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 TraesCS1D01G083300 chr1D 66321351 66324262 2911 True 2467.0 3781 100.0000 1 2912 2 chr1D.!!$R4 2911
1 TraesCS1D01G083300 chr1D 66389173 66390320 1147 False 1434.0 1434 89.4190 910 2045 1 chr1D.!!$F1 1135
2 TraesCS1D01G083300 chr1D 66353137 66354346 1209 True 1413.0 1413 88.2840 874 2045 1 chr1D.!!$R1 1171
3 TraesCS1D01G083300 chr1D 182470986 182471506 520 True 813.0 813 94.8370 1 522 1 chr1D.!!$R3 521
4 TraesCS1D01G083300 chr1A 64835732 64836913 1181 True 1435.0 1435 88.9260 888 2045 1 chr1A.!!$R1 1157
5 TraesCS1D01G083300 chr1A 64896480 64898794 2314 False 1044.0 1417 87.9550 867 2912 2 chr1A.!!$F2 2045
6 TraesCS1D01G083300 chr1B 106816603 106817777 1174 True 1375.0 1375 87.9630 874 2045 1 chr1B.!!$R1 1171
7 TraesCS1D01G083300 chr1B 106903084 106905075 1991 False 720.1 1380 93.1795 874 2041 2 chr1B.!!$F2 1167
8 TraesCS1D01G083300 chr6D 80033909 80034433 524 True 826.0 826 95.0660 1 526 1 chr6D.!!$R1 525
9 TraesCS1D01G083300 chr6D 193215296 193215813 517 True 806.0 806 94.6360 1 522 1 chr6D.!!$R2 521
10 TraesCS1D01G083300 chr6D 211651918 211652438 520 False 778.0 778 93.5480 1 526 1 chr6D.!!$F1 525
11 TraesCS1D01G083300 chr2D 99064137 99064663 526 True 813.0 813 94.5180 1 527 1 chr2D.!!$R1 526
12 TraesCS1D01G083300 chr7D 548393634 548394158 524 True 809.0 809 94.4970 1 525 1 chr7D.!!$R1 524
13 TraesCS1D01G083300 chr5D 444969879 444970399 520 False 802.0 802 94.4550 1 522 1 chr5D.!!$F1 521
14 TraesCS1D01G083300 chr3D 598078322 598078845 523 False 802.0 802 94.2970 1 525 1 chr3D.!!$F1 524
15 TraesCS1D01G083300 chr3D 135251881 135252397 516 True 793.0 793 94.2530 1 522 1 chr3D.!!$R1 521

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
276 278 0.037303 CCCATATCGCAGGAGGCAAT 59.963 55.0 0.0 0.0 45.17 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1979 2872 0.320596 GATGCAGCTAGCTAGGCAGG 60.321 60.0 27.47 13.15 45.94 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 73 2.327325 ACCGGCCATAGTCATAGGAT 57.673 50.000 0.00 0.00 0.00 3.24
92 94 4.054780 TCGCAACTTATAGATCACCACC 57.945 45.455 0.00 0.00 0.00 4.61
159 161 1.597854 CAGCAACGGACTCTTGCCA 60.598 57.895 4.27 0.00 44.36 4.92
187 189 4.737578 TCGGAGCAATATACCCTAGTTCT 58.262 43.478 0.00 0.00 0.00 3.01
276 278 0.037303 CCCATATCGCAGGAGGCAAT 59.963 55.000 0.00 0.00 45.17 3.56
295 297 4.034394 GCAATGTCGATGCTAAACTGATCA 59.966 41.667 2.24 0.00 40.64 2.92
431 433 1.617850 GTGTCAATTTGTGCCCATGGA 59.382 47.619 15.22 0.00 0.00 3.41
436 438 4.402155 GTCAATTTGTGCCCATGGATCTTA 59.598 41.667 15.22 0.00 0.00 2.10
442 444 4.608269 TGTGCCCATGGATCTTAAAATGA 58.392 39.130 15.22 0.00 0.00 2.57
443 445 5.022122 TGTGCCCATGGATCTTAAAATGAA 58.978 37.500 15.22 0.00 0.00 2.57
454 456 8.170061 TGGATCTTAAAATGAATGGGTATAGGG 58.830 37.037 0.00 0.00 0.00 3.53
465 467 5.789574 ATGGGTATAGGGAGTTTTTGTGA 57.210 39.130 0.00 0.00 0.00 3.58
486 488 3.576550 GAGTATGGGTTTGGGCAGAAAAA 59.423 43.478 0.00 0.00 0.00 1.94
488 490 2.166907 TGGGTTTGGGCAGAAAAAGA 57.833 45.000 0.00 0.00 0.00 2.52
501 503 1.131693 GAAAAAGATTGTACCCGCCCG 59.868 52.381 0.00 0.00 0.00 6.13
515 517 1.114722 CGCCCGTACCCTACCCATTA 61.115 60.000 0.00 0.00 0.00 1.90
522 524 2.910360 ACCCTACCCATTACCATCCT 57.090 50.000 0.00 0.00 0.00 3.24
523 525 4.753845 CGTACCCTACCCATTACCATCCTA 60.754 50.000 0.00 0.00 0.00 2.94
524 526 3.595021 ACCCTACCCATTACCATCCTAC 58.405 50.000 0.00 0.00 0.00 3.18
525 527 2.565834 CCCTACCCATTACCATCCTACG 59.434 54.545 0.00 0.00 0.00 3.51
526 528 3.503365 CCTACCCATTACCATCCTACGA 58.497 50.000 0.00 0.00 0.00 3.43
528 530 2.326428 ACCCATTACCATCCTACGAGG 58.674 52.381 0.00 0.00 36.46 4.63
538 540 1.263356 TCCTACGAGGAAACCAGTGG 58.737 55.000 7.91 7.91 42.51 4.00
539 541 0.249398 CCTACGAGGAAACCAGTGGG 59.751 60.000 15.21 0.00 37.67 4.61
540 542 0.249398 CTACGAGGAAACCAGTGGGG 59.751 60.000 15.21 0.00 44.81 4.96
541 543 0.178926 TACGAGGAAACCAGTGGGGA 60.179 55.000 15.21 0.00 41.15 4.81
542 544 1.296715 CGAGGAAACCAGTGGGGAG 59.703 63.158 15.21 0.00 41.15 4.30
543 545 1.002011 GAGGAAACCAGTGGGGAGC 60.002 63.158 15.21 0.00 41.15 4.70
544 546 2.359975 GGAAACCAGTGGGGAGCG 60.360 66.667 15.21 0.00 41.15 5.03
545 547 3.056328 GAAACCAGTGGGGAGCGC 61.056 66.667 15.21 0.00 41.15 5.92
546 548 4.660938 AAACCAGTGGGGAGCGCC 62.661 66.667 15.21 0.00 41.15 6.53
550 552 4.020617 CAGTGGGGAGCGCCTTGA 62.021 66.667 2.29 0.00 0.00 3.02
551 553 3.710722 AGTGGGGAGCGCCTTGAG 61.711 66.667 2.29 0.00 0.00 3.02
555 557 4.416738 GGGAGCGCCTTGAGCCTT 62.417 66.667 2.29 0.00 38.78 4.35
556 558 3.130160 GGAGCGCCTTGAGCCTTG 61.130 66.667 2.29 0.00 38.78 3.61
557 559 2.359230 GAGCGCCTTGAGCCTTGT 60.359 61.111 2.29 0.00 38.78 3.16
558 560 2.670934 AGCGCCTTGAGCCTTGTG 60.671 61.111 2.29 0.00 38.78 3.33
559 561 4.410743 GCGCCTTGAGCCTTGTGC 62.411 66.667 0.00 0.00 38.78 4.57
569 571 4.988598 CCTTGTGCTCGCGTGGGT 62.989 66.667 5.77 0.00 0.00 4.51
570 572 3.716006 CTTGTGCTCGCGTGGGTG 61.716 66.667 5.77 0.00 0.00 4.61
571 573 4.228567 TTGTGCTCGCGTGGGTGA 62.229 61.111 5.77 0.00 0.00 4.02
572 574 3.741830 TTGTGCTCGCGTGGGTGAA 62.742 57.895 5.77 0.00 31.08 3.18
573 575 2.742372 GTGCTCGCGTGGGTGAAT 60.742 61.111 5.77 0.00 31.08 2.57
574 576 1.447140 GTGCTCGCGTGGGTGAATA 60.447 57.895 5.77 0.00 31.08 1.75
575 577 1.017177 GTGCTCGCGTGGGTGAATAA 61.017 55.000 5.77 0.00 31.08 1.40
576 578 0.739462 TGCTCGCGTGGGTGAATAAG 60.739 55.000 5.77 0.00 31.08 1.73
577 579 1.429148 GCTCGCGTGGGTGAATAAGG 61.429 60.000 5.77 0.00 31.08 2.69
578 580 1.429148 CTCGCGTGGGTGAATAAGGC 61.429 60.000 5.77 0.00 31.08 4.35
579 581 2.469516 CGCGTGGGTGAATAAGGCC 61.470 63.158 0.00 0.00 0.00 5.19
580 582 1.377987 GCGTGGGTGAATAAGGCCA 60.378 57.895 5.01 0.00 0.00 5.36
581 583 1.654023 GCGTGGGTGAATAAGGCCAC 61.654 60.000 5.01 0.00 0.00 5.01
582 584 0.322098 CGTGGGTGAATAAGGCCACA 60.322 55.000 5.01 0.00 35.13 4.17
583 585 1.681780 CGTGGGTGAATAAGGCCACAT 60.682 52.381 5.01 0.00 35.13 3.21
584 586 2.420827 CGTGGGTGAATAAGGCCACATA 60.421 50.000 5.01 0.00 35.13 2.29
585 587 3.626930 GTGGGTGAATAAGGCCACATAA 58.373 45.455 5.01 0.00 35.13 1.90
586 588 4.215109 GTGGGTGAATAAGGCCACATAAT 58.785 43.478 5.01 0.00 35.13 1.28
587 589 4.649218 GTGGGTGAATAAGGCCACATAATT 59.351 41.667 5.01 0.00 35.13 1.40
588 590 4.892934 TGGGTGAATAAGGCCACATAATTC 59.107 41.667 5.01 7.03 35.13 2.17
589 591 4.280929 GGGTGAATAAGGCCACATAATTCC 59.719 45.833 5.01 0.00 35.13 3.01
590 592 4.892934 GGTGAATAAGGCCACATAATTCCA 59.107 41.667 5.01 0.00 35.13 3.53
591 593 5.539955 GGTGAATAAGGCCACATAATTCCAT 59.460 40.000 5.01 0.00 35.13 3.41
592 594 6.449698 GTGAATAAGGCCACATAATTCCATG 58.550 40.000 5.01 0.00 33.72 3.66
593 595 5.010922 TGAATAAGGCCACATAATTCCATGC 59.989 40.000 5.01 0.00 0.00 4.06
594 596 2.457813 AGGCCACATAATTCCATGCA 57.542 45.000 5.01 0.00 0.00 3.96
595 597 2.966915 AGGCCACATAATTCCATGCAT 58.033 42.857 5.01 0.00 0.00 3.96
596 598 3.311091 AGGCCACATAATTCCATGCATT 58.689 40.909 5.01 0.00 0.00 3.56
597 599 4.482030 AGGCCACATAATTCCATGCATTA 58.518 39.130 5.01 0.00 0.00 1.90
598 600 4.900652 AGGCCACATAATTCCATGCATTAA 59.099 37.500 5.01 0.00 0.00 1.40
599 601 5.011329 AGGCCACATAATTCCATGCATTAAG 59.989 40.000 5.01 0.00 0.00 1.85
600 602 5.221501 GGCCACATAATTCCATGCATTAAGT 60.222 40.000 0.00 0.00 0.00 2.24
601 603 5.922544 GCCACATAATTCCATGCATTAAGTC 59.077 40.000 0.00 0.00 0.00 3.01
602 604 6.449698 CCACATAATTCCATGCATTAAGTCC 58.550 40.000 0.00 0.00 0.00 3.85
603 605 6.449698 CACATAATTCCATGCATTAAGTCCC 58.550 40.000 0.00 0.00 0.00 4.46
604 606 6.040729 CACATAATTCCATGCATTAAGTCCCA 59.959 38.462 0.00 0.00 0.00 4.37
605 607 6.610830 ACATAATTCCATGCATTAAGTCCCAA 59.389 34.615 0.00 0.00 0.00 4.12
606 608 7.290714 ACATAATTCCATGCATTAAGTCCCAAT 59.709 33.333 0.00 0.00 0.00 3.16
607 609 5.540400 ATTCCATGCATTAAGTCCCAATG 57.460 39.130 0.00 0.00 36.63 2.82
613 615 3.680642 CATTAAGTCCCAATGCACTCG 57.319 47.619 0.00 0.00 0.00 4.18
614 616 1.448985 TTAAGTCCCAATGCACTCGC 58.551 50.000 0.00 0.00 39.24 5.03
615 617 0.392461 TAAGTCCCAATGCACTCGCC 60.392 55.000 0.00 0.00 37.32 5.54
616 618 3.134127 GTCCCAATGCACTCGCCC 61.134 66.667 0.00 0.00 37.32 6.13
617 619 4.424711 TCCCAATGCACTCGCCCC 62.425 66.667 0.00 0.00 37.32 5.80
618 620 4.431131 CCCAATGCACTCGCCCCT 62.431 66.667 0.00 0.00 37.32 4.79
619 621 3.136123 CCAATGCACTCGCCCCTG 61.136 66.667 0.00 0.00 37.32 4.45
620 622 2.046023 CAATGCACTCGCCCCTGA 60.046 61.111 0.00 0.00 37.32 3.86
621 623 1.675310 CAATGCACTCGCCCCTGAA 60.675 57.895 0.00 0.00 37.32 3.02
622 624 1.675641 AATGCACTCGCCCCTGAAC 60.676 57.895 0.00 0.00 37.32 3.18
623 625 2.129555 AATGCACTCGCCCCTGAACT 62.130 55.000 0.00 0.00 37.32 3.01
916 927 0.990818 ATTCCCCTTCCTCTGCTCCC 60.991 60.000 0.00 0.00 0.00 4.30
950 1775 0.251634 CCTCTCCCCTTCACTTCAGC 59.748 60.000 0.00 0.00 0.00 4.26
954 1779 2.037136 CCCCTTCACTTCAGCAGCG 61.037 63.158 0.00 0.00 0.00 5.18
968 1793 1.784062 CAGCGCACTTTCCTTCTCG 59.216 57.895 11.47 0.00 0.00 4.04
977 1803 2.152016 CTTTCCTTCTCGAAACCACCC 58.848 52.381 0.00 0.00 0.00 4.61
978 1804 1.430992 TTCCTTCTCGAAACCACCCT 58.569 50.000 0.00 0.00 0.00 4.34
982 1808 1.117142 TTCTCGAAACCACCCTCCGT 61.117 55.000 0.00 0.00 0.00 4.69
983 1809 1.374252 CTCGAAACCACCCTCCGTG 60.374 63.158 0.00 0.00 42.62 4.94
1112 1956 0.179029 CCCGACTTTGTCAACCTGGT 60.179 55.000 0.00 0.00 32.09 4.00
1163 2008 4.552365 CTCCGCCGCCATCCACAT 62.552 66.667 0.00 0.00 0.00 3.21
1168 2013 2.111878 CCGCCATCCACATCCTCC 59.888 66.667 0.00 0.00 0.00 4.30
1285 2136 2.596851 GGCCTTGTCCTCCTGCTCA 61.597 63.158 0.00 0.00 0.00 4.26
1465 2322 1.228894 TGCACCTCCCTCTTCGTCT 60.229 57.895 0.00 0.00 0.00 4.18
1605 2486 4.643387 GCCTGCGTGGTGTCCCTT 62.643 66.667 0.00 0.00 38.35 3.95
1624 2505 1.142748 CTCGAGGACACCATGCTCC 59.857 63.158 3.91 0.00 42.69 4.70
1786 2667 4.974438 TCGGGTTCCAGGTGGCCT 62.974 66.667 3.32 0.00 34.44 5.19
1787 2668 3.006728 CGGGTTCCAGGTGGCCTA 61.007 66.667 3.32 0.00 34.44 3.93
1842 2723 2.591429 CTGTTCACGCTGGTGGCA 60.591 61.111 0.00 0.00 44.50 4.92
1966 2859 2.435059 GCCTGTCAAGACGGAGCC 60.435 66.667 10.52 0.00 40.06 4.70
1967 2860 3.059982 CCTGTCAAGACGGAGCCA 58.940 61.111 10.52 0.00 40.06 4.75
1979 2872 1.893062 GGAGCCAATTCCAGCAACC 59.107 57.895 0.00 0.00 37.20 3.77
2045 2940 7.105241 AGCAACTTGAAGAAGATTTGACTTT 57.895 32.000 0.00 0.00 32.98 2.66
2046 2941 7.199078 AGCAACTTGAAGAAGATTTGACTTTC 58.801 34.615 0.00 0.00 32.98 2.62
2047 2942 6.419116 GCAACTTGAAGAAGATTTGACTTTCC 59.581 38.462 0.00 0.00 32.98 3.13
2048 2943 7.483307 CAACTTGAAGAAGATTTGACTTTCCA 58.517 34.615 0.00 0.00 32.98 3.53
2049 2944 7.269477 ACTTGAAGAAGATTTGACTTTCCAG 57.731 36.000 0.00 0.00 32.98 3.86
2050 2945 5.695851 TGAAGAAGATTTGACTTTCCAGC 57.304 39.130 0.00 0.00 0.00 4.85
2051 2946 4.214119 TGAAGAAGATTTGACTTTCCAGCG 59.786 41.667 0.00 0.00 0.00 5.18
2052 2947 2.485814 AGAAGATTTGACTTTCCAGCGC 59.514 45.455 0.00 0.00 0.00 5.92
2053 2948 1.896220 AGATTTGACTTTCCAGCGCA 58.104 45.000 11.47 0.00 0.00 6.09
2054 2949 2.229792 AGATTTGACTTTCCAGCGCAA 58.770 42.857 11.47 0.00 0.00 4.85
2055 2950 2.622942 AGATTTGACTTTCCAGCGCAAA 59.377 40.909 11.47 0.00 34.15 3.68
2056 2951 2.949451 TTTGACTTTCCAGCGCAAAA 57.051 40.000 11.47 6.31 29.39 2.44
2057 2952 2.949451 TTGACTTTCCAGCGCAAAAA 57.051 40.000 11.47 5.91 0.00 1.94
2094 2989 9.245481 AGATTTGACTTAAGTAGTACAGTAGCT 57.755 33.333 8.42 0.00 37.17 3.32
2149 3044 7.921214 AGTTTATGTCTGATTATCACTGTACCG 59.079 37.037 0.00 0.00 0.00 4.02
2150 3045 5.854010 ATGTCTGATTATCACTGTACCGT 57.146 39.130 0.00 0.00 0.00 4.83
2152 3047 4.201881 TGTCTGATTATCACTGTACCGTCG 60.202 45.833 0.00 0.00 0.00 5.12
2153 3048 3.943381 TCTGATTATCACTGTACCGTCGT 59.057 43.478 0.00 0.00 0.00 4.34
2154 3049 5.007039 GTCTGATTATCACTGTACCGTCGTA 59.993 44.000 0.00 0.00 0.00 3.43
2156 3051 5.813717 TGATTATCACTGTACCGTCGTAAG 58.186 41.667 0.00 0.00 0.00 2.34
2158 3053 5.627499 TTATCACTGTACCGTCGTAAGTT 57.373 39.130 0.00 0.00 39.48 2.66
2160 3055 5.627499 ATCACTGTACCGTCGTAAGTTTA 57.373 39.130 0.00 0.00 39.48 2.01
2161 3056 5.627499 TCACTGTACCGTCGTAAGTTTAT 57.373 39.130 0.00 0.00 39.48 1.40
2165 3060 6.968904 CACTGTACCGTCGTAAGTTTATGTAT 59.031 38.462 0.00 0.00 39.48 2.29
2166 3061 6.968904 ACTGTACCGTCGTAAGTTTATGTATG 59.031 38.462 0.00 0.00 39.48 2.39
2168 3063 7.706159 TGTACCGTCGTAAGTTTATGTATGAT 58.294 34.615 0.00 0.00 39.48 2.45
2172 3067 9.403110 ACCGTCGTAAGTTTATGTATGATTATC 57.597 33.333 0.00 0.00 39.48 1.75
2180 3075 8.383318 AGTTTATGTATGATTATCACTGCACC 57.617 34.615 0.00 0.00 0.00 5.01
2181 3076 7.171508 AGTTTATGTATGATTATCACTGCACCG 59.828 37.037 0.00 0.00 0.00 4.94
2182 3077 3.727726 TGTATGATTATCACTGCACCGG 58.272 45.455 0.00 0.00 0.00 5.28
2201 3097 3.548770 CGGATATATGCATGCTTGGGAT 58.451 45.455 20.33 5.95 0.00 3.85
2205 3101 6.072838 CGGATATATGCATGCTTGGGATTATC 60.073 42.308 20.33 13.80 0.00 1.75
2206 3102 6.774170 GGATATATGCATGCTTGGGATTATCA 59.226 38.462 20.33 0.00 0.00 2.15
2207 3103 7.286087 GGATATATGCATGCTTGGGATTATCAA 59.714 37.037 20.33 0.00 0.00 2.57
2208 3104 8.777578 ATATATGCATGCTTGGGATTATCAAT 57.222 30.769 20.33 1.28 0.00 2.57
2209 3105 5.818678 ATGCATGCTTGGGATTATCAATT 57.181 34.783 20.33 0.00 0.00 2.32
2210 3106 6.921486 ATGCATGCTTGGGATTATCAATTA 57.079 33.333 20.33 0.00 0.00 1.40
2211 3107 6.921486 TGCATGCTTGGGATTATCAATTAT 57.079 33.333 20.33 0.00 0.00 1.28
2212 3108 6.693466 TGCATGCTTGGGATTATCAATTATG 58.307 36.000 20.33 0.00 0.00 1.90
2216 3112 9.797556 CATGCTTGGGATTATCAATTATGTATG 57.202 33.333 0.00 0.00 0.00 2.39
2222 3118 7.669304 TGGGATTATCAATTATGTATGTGTGGG 59.331 37.037 0.00 0.00 0.00 4.61
2232 3128 2.443632 TGTATGTGTGGGGGTCTTTGAA 59.556 45.455 0.00 0.00 0.00 2.69
2237 3422 0.673985 GTGGGGGTCTTTGAAACTGC 59.326 55.000 0.00 0.00 0.00 4.40
2241 3426 1.594331 GGGTCTTTGAAACTGCGAGT 58.406 50.000 0.00 0.00 0.00 4.18
2263 3448 1.957877 GGAGTGCTGGGTAGTAGCTAG 59.042 57.143 8.27 8.27 41.66 3.42
2297 3487 7.608308 TTGTTTAAGCTTGACAAATTTTGCT 57.392 28.000 20.98 0.00 30.96 3.91
2311 3501 5.581126 AATTTTGCTCAAACTGTGTGAGA 57.419 34.783 27.93 12.62 44.44 3.27
2328 3541 5.296780 GTGTGAGACTTTTTCTTGGACATGA 59.703 40.000 0.00 0.00 33.22 3.07
2341 3554 5.936372 TCTTGGACATGAGAAGAAGAATGTG 59.064 40.000 0.00 0.00 33.51 3.21
2347 3560 3.653344 TGAGAAGAAGAATGTGTCGTGG 58.347 45.455 0.00 0.00 0.00 4.94
2354 3567 0.242825 GAATGTGTCGTGGTCTCGGA 59.757 55.000 0.00 0.00 0.00 4.55
2371 3584 4.265507 ACGGGAGGACCAGGGGTT 62.266 66.667 0.00 0.00 40.22 4.11
2493 3720 3.266510 AGCTATGCTTGACGATTTCCA 57.733 42.857 0.00 0.00 33.89 3.53
2495 3722 3.562973 AGCTATGCTTGACGATTTCCATG 59.437 43.478 0.00 0.00 33.89 3.66
2496 3723 3.561310 GCTATGCTTGACGATTTCCATGA 59.439 43.478 0.00 0.00 0.00 3.07
2561 3788 9.593134 ACTCACAATGCTAAACAAATTTAAACA 57.407 25.926 0.00 0.00 29.82 2.83
2589 3816 4.336280 AGAAGTTCAGACTTATTTGCCCC 58.664 43.478 5.50 0.00 45.88 5.80
2626 3853 1.070758 AGACTTTCACGTGCACTCCAT 59.929 47.619 16.19 0.00 0.00 3.41
2633 3860 2.044946 GTGCACTCCATCCACCCC 60.045 66.667 10.32 0.00 0.00 4.95
2635 3862 1.852157 TGCACTCCATCCACCCCTT 60.852 57.895 0.00 0.00 0.00 3.95
2639 3866 1.355720 CACTCCATCCACCCCTTTTCT 59.644 52.381 0.00 0.00 0.00 2.52
2667 3894 4.698780 TGCATCTTCTCAGATTTTGTCCAG 59.301 41.667 0.00 0.00 37.71 3.86
2677 3904 6.298361 TCAGATTTTGTCCAGTGAAGAATGA 58.702 36.000 0.00 0.00 0.00 2.57
2686 3913 1.347707 AGTGAAGAATGACCTTGCCGA 59.652 47.619 0.00 0.00 0.00 5.54
2692 3919 2.039084 AGAATGACCTTGCCGAAGTCTT 59.961 45.455 0.00 0.00 0.00 3.01
2710 3937 7.520614 CGAAGTCTTTGGAGCATTTCTTTTAGT 60.521 37.037 0.00 0.00 0.00 2.24
2711 3938 8.691661 AAGTCTTTGGAGCATTTCTTTTAGTA 57.308 30.769 0.00 0.00 0.00 1.82
2712 3939 8.329203 AGTCTTTGGAGCATTTCTTTTAGTAG 57.671 34.615 0.00 0.00 0.00 2.57
2713 3940 7.024171 GTCTTTGGAGCATTTCTTTTAGTAGC 58.976 38.462 0.00 0.00 0.00 3.58
2740 3967 7.174946 AGAGATTGATACCGTGAAAAATGTGTT 59.825 33.333 0.00 0.00 0.00 3.32
2745 3972 7.258441 TGATACCGTGAAAAATGTGTTTTCAA 58.742 30.769 14.06 2.05 46.16 2.69
2748 3975 6.337356 ACCGTGAAAAATGTGTTTTCAAGAT 58.663 32.000 21.24 8.27 46.16 2.40
2823 4051 5.362105 AAAACCCAAGTCAGTGTACTGTA 57.638 39.130 11.44 0.00 44.12 2.74
2828 4056 4.695455 CCCAAGTCAGTGTACTGTAATTGG 59.305 45.833 23.30 23.30 43.30 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 14 3.945921 GAGGGTTTGGCCATAGAAGTTAC 59.054 47.826 6.09 0.00 39.65 2.50
71 73 3.181469 GGGTGGTGATCTATAAGTTGCGA 60.181 47.826 0.00 0.00 0.00 5.10
92 94 1.486726 GTCACATAGGTTGGAGGAGGG 59.513 57.143 0.00 0.00 0.00 4.30
159 161 3.454812 AGGGTATATTGCTCCGAGTGTTT 59.545 43.478 0.00 0.00 0.00 2.83
187 189 1.078214 CAAAGAGAGGCGGCCATGA 60.078 57.895 23.09 0.00 0.00 3.07
262 264 1.522355 CGACATTGCCTCCTGCGAT 60.522 57.895 0.00 0.00 45.41 4.58
263 265 1.960040 ATCGACATTGCCTCCTGCGA 61.960 55.000 0.00 0.00 45.60 5.10
276 278 3.056179 TGGTGATCAGTTTAGCATCGACA 60.056 43.478 0.00 0.00 0.00 4.35
295 297 8.641498 AGTCTAAAATTCAAGTGATGATTGGT 57.359 30.769 0.00 0.00 38.03 3.67
359 361 2.576191 CCAATGGGTATCCGATGGGTAT 59.424 50.000 7.83 0.00 37.59 2.73
403 405 2.825532 GCACAAATTGACACCCATACCT 59.174 45.455 0.00 0.00 0.00 3.08
431 433 8.960064 ACTCCCTATACCCATTCATTTTAAGAT 58.040 33.333 0.00 0.00 0.00 2.40
436 438 8.539544 CAAAAACTCCCTATACCCATTCATTTT 58.460 33.333 0.00 0.00 0.00 1.82
442 444 6.147437 TCACAAAAACTCCCTATACCCATT 57.853 37.500 0.00 0.00 0.00 3.16
443 445 5.253096 ACTCACAAAAACTCCCTATACCCAT 59.747 40.000 0.00 0.00 0.00 4.00
454 456 5.508994 CCCAAACCCATACTCACAAAAACTC 60.509 44.000 0.00 0.00 0.00 3.01
465 467 2.990740 TTTCTGCCCAAACCCATACT 57.009 45.000 0.00 0.00 0.00 2.12
486 488 1.679559 GGTACGGGCGGGTACAATCT 61.680 60.000 16.14 0.00 43.57 2.40
488 490 2.734720 GGGTACGGGCGGGTACAAT 61.735 63.158 16.14 0.00 43.57 2.71
501 503 3.595021 AGGATGGTAATGGGTAGGGTAC 58.405 50.000 0.00 0.00 0.00 3.34
515 517 1.831736 CTGGTTTCCTCGTAGGATGGT 59.168 52.381 4.72 0.00 45.34 3.55
522 524 0.178926 TCCCCACTGGTTTCCTCGTA 60.179 55.000 0.00 0.00 34.77 3.43
523 525 1.460689 TCCCCACTGGTTTCCTCGT 60.461 57.895 0.00 0.00 34.77 4.18
524 526 1.296715 CTCCCCACTGGTTTCCTCG 59.703 63.158 0.00 0.00 34.77 4.63
525 527 1.002011 GCTCCCCACTGGTTTCCTC 60.002 63.158 0.00 0.00 34.77 3.71
526 528 2.895424 CGCTCCCCACTGGTTTCCT 61.895 63.158 0.00 0.00 34.77 3.36
528 530 3.056328 GCGCTCCCCACTGGTTTC 61.056 66.667 0.00 0.00 34.77 2.78
529 531 4.660938 GGCGCTCCCCACTGGTTT 62.661 66.667 7.64 0.00 34.77 3.27
533 535 3.965539 CTCAAGGCGCTCCCCACTG 62.966 68.421 7.64 0.00 0.00 3.66
534 536 3.710722 CTCAAGGCGCTCCCCACT 61.711 66.667 7.64 0.00 0.00 4.00
538 540 4.416738 AAGGCTCAAGGCGCTCCC 62.417 66.667 7.64 0.00 46.23 4.30
539 541 3.130160 CAAGGCTCAAGGCGCTCC 61.130 66.667 7.64 0.00 46.23 4.70
540 542 2.359230 ACAAGGCTCAAGGCGCTC 60.359 61.111 7.64 0.00 46.23 5.03
541 543 2.670934 CACAAGGCTCAAGGCGCT 60.671 61.111 7.64 0.00 46.23 5.92
542 544 4.410743 GCACAAGGCTCAAGGCGC 62.411 66.667 0.00 0.00 46.23 6.53
552 554 4.988598 ACCCACGCGAGCACAAGG 62.989 66.667 15.93 3.27 0.00 3.61
553 555 3.716006 CACCCACGCGAGCACAAG 61.716 66.667 15.93 0.00 0.00 3.16
554 556 3.632736 TATTCACCCACGCGAGCACAA 62.633 52.381 15.93 0.00 0.00 3.33
555 557 2.161078 TATTCACCCACGCGAGCACA 62.161 55.000 15.93 0.00 0.00 4.57
556 558 1.017177 TTATTCACCCACGCGAGCAC 61.017 55.000 15.93 0.00 0.00 4.40
557 559 0.739462 CTTATTCACCCACGCGAGCA 60.739 55.000 15.93 0.00 0.00 4.26
558 560 1.429148 CCTTATTCACCCACGCGAGC 61.429 60.000 15.93 0.00 0.00 5.03
559 561 1.429148 GCCTTATTCACCCACGCGAG 61.429 60.000 15.93 4.16 0.00 5.03
560 562 1.448893 GCCTTATTCACCCACGCGA 60.449 57.895 15.93 0.00 0.00 5.87
561 563 2.469516 GGCCTTATTCACCCACGCG 61.470 63.158 3.53 3.53 0.00 6.01
562 564 1.377987 TGGCCTTATTCACCCACGC 60.378 57.895 3.32 0.00 0.00 5.34
563 565 2.477880 GTGGCCTTATTCACCCACG 58.522 57.895 3.32 0.00 38.45 4.94
564 566 2.143876 ATGTGGCCTTATTCACCCAC 57.856 50.000 3.32 1.87 46.10 4.61
565 567 4.534647 ATTATGTGGCCTTATTCACCCA 57.465 40.909 3.32 0.00 33.29 4.51
566 568 4.280929 GGAATTATGTGGCCTTATTCACCC 59.719 45.833 3.32 0.00 33.29 4.61
567 569 4.892934 TGGAATTATGTGGCCTTATTCACC 59.107 41.667 3.32 0.00 33.29 4.02
568 570 6.449698 CATGGAATTATGTGGCCTTATTCAC 58.550 40.000 3.32 0.00 34.71 3.18
569 571 5.010922 GCATGGAATTATGTGGCCTTATTCA 59.989 40.000 3.32 0.00 0.00 2.57
570 572 5.010922 TGCATGGAATTATGTGGCCTTATTC 59.989 40.000 3.32 5.88 0.00 1.75
571 573 4.900652 TGCATGGAATTATGTGGCCTTATT 59.099 37.500 3.32 0.00 0.00 1.40
572 574 4.482030 TGCATGGAATTATGTGGCCTTAT 58.518 39.130 3.32 0.24 0.00 1.73
573 575 3.908476 TGCATGGAATTATGTGGCCTTA 58.092 40.909 3.32 0.00 0.00 2.69
574 576 2.749600 TGCATGGAATTATGTGGCCTT 58.250 42.857 3.32 0.00 0.00 4.35
575 577 2.457813 TGCATGGAATTATGTGGCCT 57.542 45.000 3.32 0.00 0.00 5.19
576 578 3.756933 AATGCATGGAATTATGTGGCC 57.243 42.857 0.00 0.00 0.00 5.36
577 579 5.846203 ACTTAATGCATGGAATTATGTGGC 58.154 37.500 0.00 0.00 30.78 5.01
578 580 6.449698 GGACTTAATGCATGGAATTATGTGG 58.550 40.000 0.00 0.00 31.61 4.17
579 581 6.040729 TGGGACTTAATGCATGGAATTATGTG 59.959 38.462 0.00 0.00 31.61 3.21
580 582 6.135454 TGGGACTTAATGCATGGAATTATGT 58.865 36.000 0.00 0.00 33.17 2.29
581 583 6.653526 TGGGACTTAATGCATGGAATTATG 57.346 37.500 0.00 0.00 0.00 1.90
582 584 7.673180 CATTGGGACTTAATGCATGGAATTAT 58.327 34.615 0.00 0.00 0.00 1.28
583 585 7.053316 CATTGGGACTTAATGCATGGAATTA 57.947 36.000 0.00 0.00 0.00 1.40
584 586 5.920903 CATTGGGACTTAATGCATGGAATT 58.079 37.500 0.00 0.00 0.00 2.17
585 587 5.540400 CATTGGGACTTAATGCATGGAAT 57.460 39.130 0.00 0.00 0.00 3.01
593 595 2.223340 GCGAGTGCATTGGGACTTAATG 60.223 50.000 0.00 0.00 46.62 1.90
594 596 2.017049 GCGAGTGCATTGGGACTTAAT 58.983 47.619 0.00 0.00 46.62 1.40
595 597 1.448985 GCGAGTGCATTGGGACTTAA 58.551 50.000 0.00 0.00 46.62 1.85
596 598 0.392461 GGCGAGTGCATTGGGACTTA 60.392 55.000 0.00 0.00 46.62 2.24
597 599 1.675641 GGCGAGTGCATTGGGACTT 60.676 57.895 0.00 0.00 46.62 3.01
599 601 3.134127 GGGCGAGTGCATTGGGAC 61.134 66.667 0.00 0.00 45.35 4.46
600 602 4.424711 GGGGCGAGTGCATTGGGA 62.425 66.667 0.00 0.00 45.35 4.37
601 603 4.431131 AGGGGCGAGTGCATTGGG 62.431 66.667 0.00 0.00 45.35 4.12
602 604 3.136123 CAGGGGCGAGTGCATTGG 61.136 66.667 0.00 0.00 45.35 3.16
603 605 1.675310 TTCAGGGGCGAGTGCATTG 60.675 57.895 0.00 0.00 45.35 2.82
604 606 1.675641 GTTCAGGGGCGAGTGCATT 60.676 57.895 0.00 0.00 45.35 3.56
605 607 2.045926 GTTCAGGGGCGAGTGCAT 60.046 61.111 0.00 0.00 45.35 3.96
606 608 3.241530 AGTTCAGGGGCGAGTGCA 61.242 61.111 0.00 0.00 45.35 4.57
865 867 2.594303 TCGCCTGTTGCCTGTTGG 60.594 61.111 0.00 0.00 36.24 3.77
929 940 1.552792 CTGAAGTGAAGGGGAGAGGAC 59.447 57.143 0.00 0.00 0.00 3.85
950 1775 0.667487 TCGAGAAGGAAAGTGCGCTG 60.667 55.000 9.73 0.00 0.00 5.18
954 1779 2.031944 GTGGTTTCGAGAAGGAAAGTGC 60.032 50.000 0.00 0.00 36.64 4.40
977 1803 2.352915 GATCGAGCGAGCACGGAG 60.353 66.667 14.16 0.00 40.15 4.63
978 1804 4.237809 CGATCGAGCGAGCACGGA 62.238 66.667 20.02 0.00 40.15 4.69
983 1809 1.069924 CATGGATCGATCGAGCGAGC 61.070 60.000 30.87 30.87 44.26 5.03
1091 1935 0.889186 CAGGTTGACAAAGTCGGGGG 60.889 60.000 0.00 0.00 34.95 5.40
1405 2259 1.153939 CGAGGAGGAACGTGCAGAG 60.154 63.158 0.00 0.00 0.00 3.35
1605 2486 1.323271 GGAGCATGGTGTCCTCGAGA 61.323 60.000 15.71 0.00 0.00 4.04
1763 2644 4.101448 CCTGGAACCCGAGGCTGG 62.101 72.222 0.00 0.00 0.00 4.85
1765 2646 3.322466 CACCTGGAACCCGAGGCT 61.322 66.667 0.00 0.00 31.90 4.58
1842 2723 1.596934 CATGTAGACCACCGGCTGT 59.403 57.895 0.00 0.00 0.00 4.40
1979 2872 0.320596 GATGCAGCTAGCTAGGCAGG 60.321 60.000 27.47 13.15 45.94 4.85
2067 2962 9.857957 GCTACTGTACTACTTAAGTCAAATCTT 57.142 33.333 12.39 0.00 39.80 2.40
2068 2963 9.245481 AGCTACTGTACTACTTAAGTCAAATCT 57.755 33.333 12.39 0.00 39.80 2.40
2069 2964 9.857957 AAGCTACTGTACTACTTAAGTCAAATC 57.142 33.333 12.39 1.52 39.80 2.17
2072 2967 9.512588 ACTAAGCTACTGTACTACTTAAGTCAA 57.487 33.333 12.39 0.00 39.80 3.18
2146 3041 9.403110 GATAATCATACATAAACTTACGACGGT 57.597 33.333 0.00 0.00 0.00 4.83
2147 3042 9.401873 TGATAATCATACATAAACTTACGACGG 57.598 33.333 0.00 0.00 0.00 4.79
2154 3049 8.840321 GGTGCAGTGATAATCATACATAAACTT 58.160 33.333 0.00 0.00 0.00 2.66
2156 3051 7.290842 CGGTGCAGTGATAATCATACATAAAC 58.709 38.462 0.00 0.00 0.00 2.01
2158 3053 5.931724 CCGGTGCAGTGATAATCATACATAA 59.068 40.000 0.00 0.00 0.00 1.90
2160 3055 4.040339 TCCGGTGCAGTGATAATCATACAT 59.960 41.667 0.00 0.00 0.00 2.29
2161 3056 3.386402 TCCGGTGCAGTGATAATCATACA 59.614 43.478 0.00 0.00 0.00 2.29
2165 3060 4.890158 ATATCCGGTGCAGTGATAATCA 57.110 40.909 0.00 0.00 0.00 2.57
2166 3061 5.235186 GCATATATCCGGTGCAGTGATAATC 59.765 44.000 8.98 0.00 38.68 1.75
2168 3063 4.020662 TGCATATATCCGGTGCAGTGATAA 60.021 41.667 12.26 0.00 43.30 1.75
2171 3066 1.691434 TGCATATATCCGGTGCAGTGA 59.309 47.619 12.26 0.00 43.30 3.41
2172 3067 2.168326 TGCATATATCCGGTGCAGTG 57.832 50.000 12.26 3.89 43.30 3.66
2177 3072 2.421073 CCAAGCATGCATATATCCGGTG 59.579 50.000 21.98 0.00 0.00 4.94
2179 3074 2.019249 CCCAAGCATGCATATATCCGG 58.981 52.381 21.98 4.01 0.00 5.14
2180 3075 2.989909 TCCCAAGCATGCATATATCCG 58.010 47.619 21.98 0.00 0.00 4.18
2181 3076 6.774170 TGATAATCCCAAGCATGCATATATCC 59.226 38.462 21.98 0.28 0.00 2.59
2182 3077 7.812690 TGATAATCCCAAGCATGCATATATC 57.187 36.000 21.98 15.88 0.00 1.63
2201 3097 6.916909 ACCCCCACACATACATAATTGATAA 58.083 36.000 0.00 0.00 0.00 1.75
2205 3101 4.792068 AGACCCCCACACATACATAATTG 58.208 43.478 0.00 0.00 0.00 2.32
2206 3102 5.466127 AAGACCCCCACACATACATAATT 57.534 39.130 0.00 0.00 0.00 1.40
2207 3103 5.044476 TCAAAGACCCCCACACATACATAAT 60.044 40.000 0.00 0.00 0.00 1.28
2208 3104 4.289934 TCAAAGACCCCCACACATACATAA 59.710 41.667 0.00 0.00 0.00 1.90
2209 3105 3.847184 TCAAAGACCCCCACACATACATA 59.153 43.478 0.00 0.00 0.00 2.29
2210 3106 2.647299 TCAAAGACCCCCACACATACAT 59.353 45.455 0.00 0.00 0.00 2.29
2211 3107 2.058705 TCAAAGACCCCCACACATACA 58.941 47.619 0.00 0.00 0.00 2.29
2212 3108 2.871096 TCAAAGACCCCCACACATAC 57.129 50.000 0.00 0.00 0.00 2.39
2216 3112 1.681264 CAGTTTCAAAGACCCCCACAC 59.319 52.381 0.00 0.00 0.00 3.82
2222 3118 1.264288 CACTCGCAGTTTCAAAGACCC 59.736 52.381 0.00 0.00 0.00 4.46
2232 3128 2.031163 GCACTCCCACTCGCAGTT 59.969 61.111 0.00 0.00 0.00 3.16
2237 3422 1.949847 CTACCCAGCACTCCCACTCG 61.950 65.000 0.00 0.00 0.00 4.18
2241 3426 0.976073 GCTACTACCCAGCACTCCCA 60.976 60.000 0.00 0.00 38.93 4.37
2263 3448 7.581476 TGTCAAGCTTAAACAATTGTACTAGC 58.419 34.615 21.72 21.72 0.00 3.42
2264 3449 9.944663 TTTGTCAAGCTTAAACAATTGTACTAG 57.055 29.630 20.91 10.01 33.28 2.57
2266 3451 9.816354 AATTTGTCAAGCTTAAACAATTGTACT 57.184 25.926 20.91 4.93 33.28 2.73
2278 3468 7.010367 CAGTTTGAGCAAAATTTGTCAAGCTTA 59.990 33.333 23.14 6.54 38.62 3.09
2279 3469 5.876460 AGTTTGAGCAAAATTTGTCAAGCTT 59.124 32.000 21.57 0.00 38.11 3.74
2297 3487 6.349280 CCAAGAAAAAGTCTCACACAGTTTGA 60.349 38.462 0.00 0.00 34.56 2.69
2311 3501 7.056635 TCTTCTTCTCATGTCCAAGAAAAAGT 58.943 34.615 13.67 0.00 36.07 2.66
2328 3541 3.322254 AGACCACGACACATTCTTCTTCT 59.678 43.478 0.00 0.00 0.00 2.85
2341 3554 4.112341 CCCGTCCGAGACCACGAC 62.112 72.222 0.00 0.00 38.32 4.34
2347 3560 3.139469 GGTCCTCCCGTCCGAGAC 61.139 72.222 0.00 0.00 30.97 3.36
2354 3567 2.405522 TAAACCCCTGGTCCTCCCGT 62.406 60.000 0.00 0.00 33.12 5.28
2559 3786 9.956720 CAAATAAGTCTGAACTTCTCAATTTGT 57.043 29.630 12.10 0.00 44.64 2.83
2560 3787 8.909671 GCAAATAAGTCTGAACTTCTCAATTTG 58.090 33.333 14.26 14.26 44.64 2.32
2561 3788 8.084684 GGCAAATAAGTCTGAACTTCTCAATTT 58.915 33.333 0.00 0.00 44.64 1.82
2562 3789 7.309438 GGGCAAATAAGTCTGAACTTCTCAATT 60.309 37.037 0.00 0.00 44.64 2.32
2563 3790 6.151817 GGGCAAATAAGTCTGAACTTCTCAAT 59.848 38.462 0.00 0.00 44.64 2.57
2564 3791 5.473504 GGGCAAATAAGTCTGAACTTCTCAA 59.526 40.000 0.00 0.00 44.64 3.02
2565 3792 5.003804 GGGCAAATAAGTCTGAACTTCTCA 58.996 41.667 0.00 0.00 44.64 3.27
2566 3793 4.396478 GGGGCAAATAAGTCTGAACTTCTC 59.604 45.833 0.00 0.00 44.64 2.87
2589 3816 3.006728 TAGTCCCACCTTGCCCCG 61.007 66.667 0.00 0.00 0.00 5.73
2596 3823 1.893801 CGTGAAAGTCTAGTCCCACCT 59.106 52.381 0.00 0.00 0.00 4.00
2656 3883 5.474876 AGGTCATTCTTCACTGGACAAAATC 59.525 40.000 0.00 0.00 0.00 2.17
2658 3885 4.792068 AGGTCATTCTTCACTGGACAAAA 58.208 39.130 0.00 0.00 0.00 2.44
2662 3889 2.485814 GCAAGGTCATTCTTCACTGGAC 59.514 50.000 0.00 0.00 0.00 4.02
2667 3894 1.808411 TCGGCAAGGTCATTCTTCAC 58.192 50.000 0.00 0.00 0.00 3.18
2677 3904 0.472471 TCCAAAGACTTCGGCAAGGT 59.528 50.000 0.00 0.00 33.37 3.50
2686 3913 7.588497 ACTAAAAGAAATGCTCCAAAGACTT 57.412 32.000 0.00 0.00 0.00 3.01
2692 3919 6.237901 TCTGCTACTAAAAGAAATGCTCCAA 58.762 36.000 0.00 0.00 0.00 3.53
2710 3937 5.592104 TTTCACGGTATCAATCTCTGCTA 57.408 39.130 0.00 0.00 0.00 3.49
2711 3938 4.471904 TTTCACGGTATCAATCTCTGCT 57.528 40.909 0.00 0.00 0.00 4.24
2712 3939 5.545658 TTTTTCACGGTATCAATCTCTGC 57.454 39.130 0.00 0.00 0.00 4.26
2713 3940 6.963242 CACATTTTTCACGGTATCAATCTCTG 59.037 38.462 0.00 0.00 0.00 3.35
2792 4019 7.264947 ACACTGACTTGGGTTTTAAATTCAAG 58.735 34.615 16.98 16.98 40.21 3.02
2793 4020 7.176589 ACACTGACTTGGGTTTTAAATTCAA 57.823 32.000 0.00 0.00 0.00 2.69
2794 4021 6.783708 ACACTGACTTGGGTTTTAAATTCA 57.216 33.333 0.00 0.00 0.00 2.57
2795 4022 7.860872 CAGTACACTGACTTGGGTTTTAAATTC 59.139 37.037 3.14 0.00 46.59 2.17
2796 4023 7.340999 ACAGTACACTGACTTGGGTTTTAAATT 59.659 33.333 16.05 0.00 46.59 1.82
2800 4027 5.362105 ACAGTACACTGACTTGGGTTTTA 57.638 39.130 16.05 0.00 46.59 1.52
2801 4028 4.230745 ACAGTACACTGACTTGGGTTTT 57.769 40.909 16.05 0.00 46.59 2.43
2802 4029 3.926058 ACAGTACACTGACTTGGGTTT 57.074 42.857 16.05 0.00 46.59 3.27
2803 4030 5.562298 ATTACAGTACACTGACTTGGGTT 57.438 39.130 16.05 0.00 46.59 4.11
2804 4031 5.305585 CAATTACAGTACACTGACTTGGGT 58.694 41.667 16.05 0.00 46.59 4.51
2805 4032 4.695455 CCAATTACAGTACACTGACTTGGG 59.305 45.833 16.05 7.78 46.59 4.12
2806 4033 5.305585 ACCAATTACAGTACACTGACTTGG 58.694 41.667 24.29 24.29 46.59 3.61
2879 4107 3.262660 GCTATAGTAAATACCCCGCCCTT 59.737 47.826 0.84 0.00 0.00 3.95
2884 4112 7.739498 AACAATTGCTATAGTAAATACCCCG 57.261 36.000 7.38 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.