Multiple sequence alignment - TraesCS7D01G484200

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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 TraesCS7D01G484200 chr7D 100.000 2403 0 0 1 2403 594148067 594150469 0.000000e+00 4438.0
1 TraesCS7D01G484200 chr7A 91.502 812 29 6 977 1761 686390406 686391204 0.000000e+00 1081.0
2 TraesCS7D01G484200 chr7A 95.841 529 22 0 2 530 98746855 98747383 0.000000e+00 856.0
3 TraesCS7D01G484200 chr7A 88.841 233 12 11 660 891 686390149 686390368 8.460000e-70 274.0
4 TraesCS7D01G484200 chr7A 75.743 404 76 14 983 1372 686474859 686475254 1.470000e-42 183.0
5 TraesCS7D01G484200 chr5D 88.095 546 51 5 1861 2403 78406668 78407202 9.370000e-179 636.0
6 TraesCS7D01G484200 chr5D 96.053 76 3 0 1791 1866 78406570 78406645 9.020000e-25 124.0
7 TraesCS7D01G484200 chr1D 93.269 416 22 4 1991 2403 232925960 232925548 2.040000e-170 608.0
8 TraesCS7D01G484200 chr4A 88.793 464 34 4 1861 2318 327403777 327403326 9.710000e-154 553.0
9 TraesCS7D01G484200 chr4A 96.104 77 3 0 1790 1866 327403876 327403800 2.510000e-25 126.0
10 TraesCS7D01G484200 chr3A 89.059 457 34 3 1866 2318 568533995 568533551 9.710000e-154 553.0
11 TraesCS7D01G484200 chr3A 86.179 246 23 3 1866 2108 748216351 748216114 3.070000e-64 255.0
12 TraesCS7D01G484200 chr3A 91.216 148 12 1 2172 2318 568533515 568533368 1.460000e-47 200.0
13 TraesCS7D01G484200 chr3A 88.235 102 9 3 2303 2402 748216092 748215992 4.200000e-23 119.0
14 TraesCS7D01G484200 chr5A 94.648 355 17 1 176 530 520091672 520092024 1.260000e-152 549.0
15 TraesCS7D01G484200 chr5A 95.652 184 8 0 1 184 520091306 520091489 1.810000e-76 296.0
16 TraesCS7D01G484200 chr5A 100.000 32 0 0 532 563 520092048 520092079 2.580000e-05 60.2
17 TraesCS7D01G484200 chr1A 88.147 464 37 4 1861 2318 155765639 155765188 9.780000e-149 536.0
18 TraesCS7D01G484200 chr2B 81.556 450 41 23 1778 2190 47613722 47613278 1.380000e-87 333.0
19 TraesCS7D01G484200 chr2B 98.276 58 1 0 1791 1848 669608842 669608899 4.230000e-18 102.0
20 TraesCS7D01G484200 chr2B 91.379 58 4 1 1791 1848 174339730 174339786 7.120000e-11 78.7
21 TraesCS7D01G484200 chr6B 81.839 435 42 19 1792 2190 233593963 233594396 4.950000e-87 331.0
22 TraesCS7D01G484200 chr5B 86.585 246 30 1 1866 2108 273341594 273341839 3.940000e-68 268.0
23 TraesCS7D01G484200 chr3B 89.610 77 6 2 1790 1864 805611165 805611241 1.970000e-16 97.1
24 TraesCS7D01G484200 chr3B 88.312 77 7 2 1790 1864 805617952 805618028 9.150000e-15 91.6
25 TraesCS7D01G484200 chr1B 90.000 70 7 0 1779 1848 428051025 428051094 9.150000e-15 91.6


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 TraesCS7D01G484200 chr7D 594148067 594150469 2402 False 4438.000000 4438 100.000000 1 2403 1 chr7D.!!$F1 2402
1 TraesCS7D01G484200 chr7A 98746855 98747383 528 False 856.000000 856 95.841000 2 530 1 chr7A.!!$F1 528
2 TraesCS7D01G484200 chr7A 686390149 686391204 1055 False 677.500000 1081 90.171500 660 1761 2 chr7A.!!$F3 1101
3 TraesCS7D01G484200 chr5D 78406570 78407202 632 False 380.000000 636 92.074000 1791 2403 2 chr5D.!!$F1 612
4 TraesCS7D01G484200 chr4A 327403326 327403876 550 True 339.500000 553 92.448500 1790 2318 2 chr4A.!!$R1 528
5 TraesCS7D01G484200 chr3A 568533368 568533995 627 True 376.500000 553 90.137500 1866 2318 2 chr3A.!!$R1 452
6 TraesCS7D01G484200 chr5A 520091306 520092079 773 False 301.733333 549 96.766667 1 563 3 chr5A.!!$F1 562

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
968 1191 0.108804 CACAAGCCCACGAGTCGTAT 60.109 55.0 19.43 1.82 38.32 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 2377 0.17921 TTTTCACGGCGCGAATTAGC 60.179 50.0 12.1 0.0 0.0 3.09 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
42 43 3.936203 GCCCCCACACAGACGTCA 61.936 66.667 19.50 0.00 0.00 4.35
247 439 0.598065 GCAACCTGCTTTGGACGATT 59.402 50.000 0.00 0.00 40.96 3.34
270 462 3.364441 GGTGAGTGCAATGCGCCA 61.364 61.111 15.78 10.25 40.23 5.69
306 498 2.296814 ATCGCCATCACGCTGCTACA 62.297 55.000 0.00 0.00 0.00 2.74
342 534 2.916502 TTACGTATGGCCGCAGCTGG 62.917 60.000 17.12 5.50 39.73 4.85
351 543 4.712425 CGCAGCTGGGCACAAAGC 62.712 66.667 18.62 0.00 44.65 3.51
494 688 2.672908 CCACCATGGCTGCTCAGA 59.327 61.111 13.04 0.00 0.00 3.27
564 780 4.907034 CGATCGCCTCCCGTGTCG 62.907 72.222 0.26 0.00 38.75 4.35
575 791 2.549282 CGTGTCGCCGGAAACAAG 59.451 61.111 5.05 6.93 30.24 3.16
576 792 2.241880 CGTGTCGCCGGAAACAAGT 61.242 57.895 5.05 0.00 30.24 3.16
577 793 1.278637 GTGTCGCCGGAAACAAGTG 59.721 57.895 5.05 0.00 30.24 3.16
578 794 1.144276 TGTCGCCGGAAACAAGTGA 59.856 52.632 5.05 0.00 0.00 3.41
579 795 0.250124 TGTCGCCGGAAACAAGTGAT 60.250 50.000 5.05 0.00 0.00 3.06
580 796 0.872388 GTCGCCGGAAACAAGTGATT 59.128 50.000 5.05 0.00 0.00 2.57
581 797 1.265905 GTCGCCGGAAACAAGTGATTT 59.734 47.619 5.05 0.00 0.00 2.17
582 798 2.481185 GTCGCCGGAAACAAGTGATTTA 59.519 45.455 5.05 0.00 0.00 1.40
583 799 3.058777 GTCGCCGGAAACAAGTGATTTAA 60.059 43.478 5.05 0.00 0.00 1.52
584 800 3.564644 TCGCCGGAAACAAGTGATTTAAA 59.435 39.130 5.05 0.00 0.00 1.52
585 801 3.666797 CGCCGGAAACAAGTGATTTAAAC 59.333 43.478 5.05 0.00 0.00 2.01
586 802 4.555906 CGCCGGAAACAAGTGATTTAAACT 60.556 41.667 5.05 0.00 0.00 2.66
587 803 5.286438 GCCGGAAACAAGTGATTTAAACTT 58.714 37.500 5.05 0.00 38.40 2.66
588 804 5.751509 GCCGGAAACAAGTGATTTAAACTTT 59.248 36.000 5.05 0.00 35.70 2.66
589 805 6.074516 GCCGGAAACAAGTGATTTAAACTTTC 60.075 38.462 5.05 0.00 35.70 2.62
590 806 6.419710 CCGGAAACAAGTGATTTAAACTTTCC 59.580 38.462 0.00 0.00 35.70 3.13
591 807 6.975772 CGGAAACAAGTGATTTAAACTTTCCA 59.024 34.615 0.00 0.00 35.70 3.53
592 808 7.651704 CGGAAACAAGTGATTTAAACTTTCCAT 59.348 33.333 0.00 0.00 35.70 3.41
593 809 9.325198 GGAAACAAGTGATTTAAACTTTCCATT 57.675 29.630 0.00 0.00 35.70 3.16
597 813 9.533253 ACAAGTGATTTAAACTTTCCATTTCTG 57.467 29.630 0.00 0.00 35.70 3.02
598 814 9.748708 CAAGTGATTTAAACTTTCCATTTCTGA 57.251 29.630 0.00 0.00 35.70 3.27
600 816 9.971922 AGTGATTTAAACTTTCCATTTCTGAAG 57.028 29.630 0.00 0.00 0.00 3.02
601 817 9.750125 GTGATTTAAACTTTCCATTTCTGAAGT 57.250 29.630 0.00 0.00 34.03 3.01
602 818 9.748708 TGATTTAAACTTTCCATTTCTGAAGTG 57.251 29.630 5.97 5.97 33.02 3.16
603 819 9.750125 GATTTAAACTTTCCATTTCTGAAGTGT 57.250 29.630 11.28 0.00 33.02 3.55
604 820 8.925161 TTTAAACTTTCCATTTCTGAAGTGTG 57.075 30.769 11.28 4.23 33.02 3.82
605 821 6.530019 AAACTTTCCATTTCTGAAGTGTGT 57.470 33.333 11.28 3.28 33.02 3.72
606 822 5.505173 ACTTTCCATTTCTGAAGTGTGTG 57.495 39.130 11.28 2.76 31.59 3.82
607 823 3.988379 TTCCATTTCTGAAGTGTGTGC 57.012 42.857 11.28 0.00 0.00 4.57
608 824 3.213206 TCCATTTCTGAAGTGTGTGCT 57.787 42.857 11.28 0.00 0.00 4.40
609 825 3.141398 TCCATTTCTGAAGTGTGTGCTC 58.859 45.455 11.28 0.00 0.00 4.26
610 826 3.144506 CCATTTCTGAAGTGTGTGCTCT 58.855 45.455 11.28 0.00 0.00 4.09
611 827 3.058432 CCATTTCTGAAGTGTGTGCTCTG 60.058 47.826 11.28 0.00 0.00 3.35
612 828 2.245159 TTCTGAAGTGTGTGCTCTGG 57.755 50.000 0.00 0.00 0.00 3.86
613 829 0.394192 TCTGAAGTGTGTGCTCTGGG 59.606 55.000 0.00 0.00 0.00 4.45
614 830 0.604780 CTGAAGTGTGTGCTCTGGGG 60.605 60.000 0.00 0.00 0.00 4.96
615 831 1.302832 GAAGTGTGTGCTCTGGGGG 60.303 63.158 0.00 0.00 0.00 5.40
616 832 2.056906 GAAGTGTGTGCTCTGGGGGT 62.057 60.000 0.00 0.00 0.00 4.95
617 833 1.645402 AAGTGTGTGCTCTGGGGGTT 61.645 55.000 0.00 0.00 0.00 4.11
618 834 0.766674 AGTGTGTGCTCTGGGGGTTA 60.767 55.000 0.00 0.00 0.00 2.85
619 835 0.321653 GTGTGTGCTCTGGGGGTTAG 60.322 60.000 0.00 0.00 0.00 2.34
620 836 1.299976 GTGTGCTCTGGGGGTTAGG 59.700 63.158 0.00 0.00 0.00 2.69
621 837 1.159905 TGTGCTCTGGGGGTTAGGA 59.840 57.895 0.00 0.00 0.00 2.94
622 838 0.253160 TGTGCTCTGGGGGTTAGGAT 60.253 55.000 0.00 0.00 0.00 3.24
623 839 0.470341 GTGCTCTGGGGGTTAGGATC 59.530 60.000 0.00 0.00 0.00 3.36
624 840 0.343372 TGCTCTGGGGGTTAGGATCT 59.657 55.000 0.00 0.00 0.00 2.75
625 841 1.052617 GCTCTGGGGGTTAGGATCTC 58.947 60.000 0.00 0.00 0.00 2.75
626 842 1.692762 GCTCTGGGGGTTAGGATCTCA 60.693 57.143 0.00 0.00 0.00 3.27
627 843 2.764269 CTCTGGGGGTTAGGATCTCAA 58.236 52.381 0.00 0.00 0.00 3.02
628 844 2.436173 CTCTGGGGGTTAGGATCTCAAC 59.564 54.545 0.00 0.00 0.00 3.18
629 845 1.490910 CTGGGGGTTAGGATCTCAACC 59.509 57.143 16.31 16.31 42.94 3.77
633 849 2.311124 GGTTAGGATCTCAACCCGTG 57.689 55.000 14.57 0.00 38.63 4.94
634 850 1.653151 GTTAGGATCTCAACCCGTGC 58.347 55.000 0.00 0.00 0.00 5.34
635 851 0.539986 TTAGGATCTCAACCCGTGCC 59.460 55.000 0.00 0.00 0.00 5.01
636 852 1.672854 TAGGATCTCAACCCGTGCCG 61.673 60.000 0.00 0.00 0.00 5.69
637 853 3.195698 GATCTCAACCCGTGCCGC 61.196 66.667 0.00 0.00 0.00 6.53
638 854 3.665675 GATCTCAACCCGTGCCGCT 62.666 63.158 0.00 0.00 0.00 5.52
639 855 3.958147 ATCTCAACCCGTGCCGCTG 62.958 63.158 0.00 0.00 0.00 5.18
653 869 3.567797 GCTGGACGAGGATTGCGC 61.568 66.667 0.00 0.00 0.00 6.09
654 870 2.892425 CTGGACGAGGATTGCGCC 60.892 66.667 4.18 0.00 0.00 6.53
655 871 3.664025 CTGGACGAGGATTGCGCCA 62.664 63.158 4.18 0.00 35.09 5.69
656 872 2.203070 GGACGAGGATTGCGCCAT 60.203 61.111 4.18 0.00 0.00 4.40
657 873 1.069090 GGACGAGGATTGCGCCATA 59.931 57.895 4.18 0.00 0.00 2.74
658 874 1.222115 GGACGAGGATTGCGCCATAC 61.222 60.000 4.18 0.00 0.00 2.39
691 907 9.754382 GTGCTCATTTTAATGTTGGATCATTAT 57.246 29.630 0.00 0.00 39.17 1.28
704 923 8.328014 TGTTGGATCATTATATAGCAAGCCATA 58.672 33.333 0.00 0.00 0.00 2.74
705 924 9.177608 GTTGGATCATTATATAGCAAGCCATAA 57.822 33.333 0.00 0.00 0.00 1.90
706 925 8.969260 TGGATCATTATATAGCAAGCCATAAG 57.031 34.615 0.00 0.00 0.00 1.73
707 926 7.500227 TGGATCATTATATAGCAAGCCATAAGC 59.500 37.037 0.00 0.00 44.25 3.09
708 927 7.040823 GGATCATTATATAGCAAGCCATAAGCC 60.041 40.741 0.00 0.00 45.47 4.35
709 928 6.122277 TCATTATATAGCAAGCCATAAGCCC 58.878 40.000 0.00 0.00 45.47 5.19
710 929 5.512942 TTATATAGCAAGCCATAAGCCCA 57.487 39.130 0.00 0.00 45.47 5.36
711 930 2.986534 ATAGCAAGCCATAAGCCCAT 57.013 45.000 0.00 0.00 45.47 4.00
786 1009 6.942163 TGGTACTACTCCTATATACTCCGT 57.058 41.667 0.00 0.00 0.00 4.69
787 1010 8.615360 ATGGTACTACTCCTATATACTCCGTA 57.385 38.462 0.00 0.00 0.00 4.02
788 1011 8.615360 TGGTACTACTCCTATATACTCCGTAT 57.385 38.462 0.00 0.00 33.05 3.06
789 1012 9.715119 TGGTACTACTCCTATATACTCCGTATA 57.285 37.037 0.00 0.00 35.77 1.47
831 1054 1.892209 TACGCGCTGAGATATCTCCA 58.108 50.000 26.33 15.04 42.20 3.86
871 1094 3.944055 AGGCTGCCTTGTATATCTACG 57.056 47.619 17.22 0.00 0.00 3.51
874 1097 3.235195 GCTGCCTTGTATATCTACGTCG 58.765 50.000 0.00 0.00 0.00 5.12
891 1114 7.270779 TCTACGTCGTGCTGGTCTATATATAT 58.729 38.462 8.47 0.00 0.00 0.86
892 1115 8.416329 TCTACGTCGTGCTGGTCTATATATATA 58.584 37.037 8.47 2.49 0.00 0.86
893 1116 9.205719 CTACGTCGTGCTGGTCTATATATATAT 57.794 37.037 8.47 10.10 0.00 0.86
895 1118 9.722184 ACGTCGTGCTGGTCTATATATATATAT 57.278 33.333 17.37 17.37 33.68 0.86
959 1182 2.929398 CAAAAACTCAACACAAGCCCAC 59.071 45.455 0.00 0.00 0.00 4.61
960 1183 0.738389 AAACTCAACACAAGCCCACG 59.262 50.000 0.00 0.00 0.00 4.94
963 1186 0.532862 CTCAACACAAGCCCACGAGT 60.533 55.000 0.00 0.00 0.00 4.18
964 1187 0.531974 TCAACACAAGCCCACGAGTC 60.532 55.000 0.00 0.00 0.00 3.36
968 1191 0.108804 CACAAGCCCACGAGTCGTAT 60.109 55.000 19.43 1.82 38.32 3.06
969 1192 0.606604 ACAAGCCCACGAGTCGTATT 59.393 50.000 19.43 8.21 38.32 1.89
970 1193 1.820519 ACAAGCCCACGAGTCGTATTA 59.179 47.619 19.43 0.00 38.32 0.98
971 1194 2.429610 ACAAGCCCACGAGTCGTATTAT 59.570 45.455 19.43 2.21 38.32 1.28
972 1195 3.118884 ACAAGCCCACGAGTCGTATTATT 60.119 43.478 19.43 8.57 38.32 1.40
973 1196 3.366440 AGCCCACGAGTCGTATTATTC 57.634 47.619 19.43 4.80 38.32 1.75
974 1197 2.049228 GCCCACGAGTCGTATTATTCG 58.951 52.381 19.43 3.78 38.32 3.34
975 1198 2.542411 GCCCACGAGTCGTATTATTCGT 60.542 50.000 19.43 0.00 46.07 3.85
998 1221 8.131731 TCGTAGATCTATCAAACATTCAGACAG 58.868 37.037 5.57 0.00 0.00 3.51
1050 1273 1.679944 GGCAAGGCAGCACTGATCTTA 60.680 52.381 0.81 0.00 35.83 2.10
1054 1277 2.465813 AGGCAGCACTGATCTTACTCT 58.534 47.619 0.81 0.00 0.00 3.24
1074 1297 0.463654 TCGCCATCCTTGTATGCCAC 60.464 55.000 0.00 0.00 0.00 5.01
1101 1324 1.414919 TCCTCTGCACACGGTAAGTTT 59.585 47.619 0.00 0.00 0.00 2.66
1146 1369 5.699001 TCCGTCGAAATATTATCCATTGTGG 59.301 40.000 0.00 0.00 39.43 4.17
1154 1377 8.725606 AAATATTATCCATTGTGGGTGCTAAT 57.274 30.769 0.00 0.00 38.32 1.73
1155 1378 9.821240 AAATATTATCCATTGTGGGTGCTAATA 57.179 29.630 0.00 1.56 38.32 0.98
1156 1379 9.995594 AATATTATCCATTGTGGGTGCTAATAT 57.004 29.630 0.00 3.40 38.32 1.28
1157 1380 7.944729 ATTATCCATTGTGGGTGCTAATATC 57.055 36.000 0.00 0.00 38.32 1.63
1246 1469 1.082690 GCAAGGAGTGTAAGCTGAGC 58.917 55.000 0.00 0.00 0.00 4.26
1267 1490 0.617935 TGTGCCATGAAATCGGAGGA 59.382 50.000 0.00 0.00 0.00 3.71
1372 1595 2.124403 CAGCTGCCACCATCCTCC 60.124 66.667 0.00 0.00 0.00 4.30
1417 1640 1.126846 CCGTGAGATCTTTGCAACGAC 59.873 52.381 7.91 2.98 0.00 4.34
1440 1667 2.540515 CAATAAGAGATCACGCCGTGT 58.459 47.619 17.83 4.51 34.79 4.49
1446 1673 0.040425 AGATCACGCCGTGTTTTTGC 60.040 50.000 17.83 0.00 34.79 3.68
1482 1732 4.617959 CGAATGGGTCGTCTAATGTGTAT 58.382 43.478 0.00 0.00 45.09 2.29
1502 1752 7.148423 TGTGTATGGAATTGAGTCAAGAAATCG 60.148 37.037 11.91 0.00 0.00 3.34
1505 1755 5.551233 TGGAATTGAGTCAAGAAATCGAGT 58.449 37.500 11.91 0.00 0.00 4.18
1512 1762 6.055588 TGAGTCAAGAAATCGAGTTTTTCCT 58.944 36.000 0.00 0.00 34.34 3.36
1540 1790 4.682778 TTAGCTGTGACCAAAGTACTGT 57.317 40.909 0.00 0.00 0.00 3.55
1554 1804 7.819900 ACCAAAGTACTGTTGTTTATTTGCAAA 59.180 29.630 15.44 15.44 0.00 3.68
1585 1835 0.871722 TTGCGCGAAACAATAGCTGT 59.128 45.000 12.10 0.00 41.27 4.40
1619 1869 6.680378 GCAGCAATTAATACCGGTTCAATTCT 60.680 38.462 15.04 11.84 0.00 2.40
1669 1919 5.186256 TGCACAGTGGAAGGGATAATAAA 57.814 39.130 1.84 0.00 0.00 1.40
1672 1922 6.321181 TGCACAGTGGAAGGGATAATAAAATC 59.679 38.462 1.84 0.00 0.00 2.17
1673 1923 6.547510 GCACAGTGGAAGGGATAATAAAATCT 59.452 38.462 1.84 0.00 0.00 2.40
1721 1971 6.642707 AGATACTACTAGAGGAACATGCAC 57.357 41.667 0.00 0.00 0.00 4.57
1755 2005 4.134563 CCGGGCAGCTATTGTTAAACTAT 58.865 43.478 0.00 0.00 0.00 2.12
1761 2011 8.630037 GGGCAGCTATTGTTAAACTATTACAAT 58.370 33.333 0.00 0.00 35.52 2.71
1762 2012 9.450807 GGCAGCTATTGTTAAACTATTACAATG 57.549 33.333 9.30 2.63 33.68 2.82
1763 2013 8.958043 GCAGCTATTGTTAAACTATTACAATGC 58.042 33.333 9.30 10.08 33.68 3.56
1764 2014 9.450807 CAGCTATTGTTAAACTATTACAATGCC 57.549 33.333 9.30 2.01 33.68 4.40
1765 2015 8.342634 AGCTATTGTTAAACTATTACAATGCCG 58.657 33.333 9.30 1.29 33.68 5.69
1766 2016 8.126700 GCTATTGTTAAACTATTACAATGCCGT 58.873 33.333 9.30 0.00 33.68 5.68
1767 2017 9.433317 CTATTGTTAAACTATTACAATGCCGTG 57.567 33.333 9.30 0.00 33.68 4.94
1768 2018 5.632959 TGTTAAACTATTACAATGCCGTGC 58.367 37.500 0.00 0.00 0.00 5.34
1769 2019 5.413213 TGTTAAACTATTACAATGCCGTGCT 59.587 36.000 0.00 0.00 0.00 4.40
1770 2020 6.072397 TGTTAAACTATTACAATGCCGTGCTT 60.072 34.615 0.00 0.00 0.00 3.91
1771 2021 5.385509 AAACTATTACAATGCCGTGCTTT 57.614 34.783 0.00 0.00 0.00 3.51
1772 2022 4.355543 ACTATTACAATGCCGTGCTTTG 57.644 40.909 17.10 17.10 45.20 2.77
1773 2023 1.994916 ATTACAATGCCGTGCTTTGC 58.005 45.000 18.02 0.00 44.10 3.68
1774 2024 0.958091 TTACAATGCCGTGCTTTGCT 59.042 45.000 18.02 11.34 44.10 3.91
1775 2025 1.814793 TACAATGCCGTGCTTTGCTA 58.185 45.000 18.02 10.69 44.10 3.49
1776 2026 0.240945 ACAATGCCGTGCTTTGCTAC 59.759 50.000 18.02 0.00 44.10 3.58
1777 2027 0.794229 CAATGCCGTGCTTTGCTACG 60.794 55.000 10.11 0.00 37.01 3.51
1781 2031 2.742372 CGTGCTTTGCTACGGGCT 60.742 61.111 4.43 0.00 42.39 5.19
1782 2032 1.447140 CGTGCTTTGCTACGGGCTA 60.447 57.895 4.43 0.00 42.39 3.93
1783 2033 0.810031 CGTGCTTTGCTACGGGCTAT 60.810 55.000 4.43 0.00 42.39 2.97
1784 2034 1.537348 CGTGCTTTGCTACGGGCTATA 60.537 52.381 4.43 0.00 42.39 1.31
1785 2035 2.557317 GTGCTTTGCTACGGGCTATAA 58.443 47.619 4.43 0.00 42.39 0.98
1786 2036 3.139077 GTGCTTTGCTACGGGCTATAAT 58.861 45.455 4.43 0.00 42.39 1.28
1787 2037 3.058914 GTGCTTTGCTACGGGCTATAATG 60.059 47.826 4.43 0.00 42.39 1.90
1788 2038 2.095718 GCTTTGCTACGGGCTATAATGC 60.096 50.000 4.43 1.80 42.39 3.56
1966 2274 6.488683 TCTTGATTTCAGAACGGTAAAATGGT 59.511 34.615 0.00 0.00 0.00 3.55
1967 2275 6.007936 TGATTTCAGAACGGTAAAATGGTG 57.992 37.500 0.00 0.00 0.00 4.17
1968 2276 4.839668 TTTCAGAACGGTAAAATGGTGG 57.160 40.909 0.00 0.00 0.00 4.61
2016 2324 9.426837 ACAACAAAAATCTAATGGATCATGTTG 57.573 29.630 19.88 19.88 45.24 3.33
2017 2325 8.385111 CAACAAAAATCTAATGGATCATGTTGC 58.615 33.333 14.17 0.00 40.63 4.17
2018 2326 7.613585 ACAAAAATCTAATGGATCATGTTGCA 58.386 30.769 0.08 0.08 32.76 4.08
2019 2327 7.762615 ACAAAAATCTAATGGATCATGTTGCAG 59.237 33.333 4.26 0.00 32.76 4.41
2020 2328 7.649533 AAAATCTAATGGATCATGTTGCAGA 57.350 32.000 4.26 0.00 32.76 4.26
2021 2329 6.630444 AATCTAATGGATCATGTTGCAGAC 57.370 37.500 4.26 0.00 32.76 3.51
2022 2330 5.101648 TCTAATGGATCATGTTGCAGACA 57.898 39.130 4.26 4.56 43.71 3.41
2033 2343 4.998671 TGTTGCAGACAATCTTTTTCCA 57.001 36.364 0.09 0.00 38.27 3.53
2067 2377 7.169982 GGAACTTATGGTTACTTCATGATCTCG 59.830 40.741 0.00 0.00 38.41 4.04
2091 2404 0.386226 TTCGCGCCGTGAAAATTTCC 60.386 50.000 11.13 0.00 0.00 3.13
2146 2459 7.011763 GCACATAGCGATGATGGTGATAAATAT 59.988 37.037 14.19 0.00 36.48 1.28
2169 2482 6.307031 TCATGTTGTAATTGTTGCTACGTT 57.693 33.333 0.00 0.00 0.00 3.99
2242 2555 4.733405 GCGCACGGAGGAAAAATAAATAAG 59.267 41.667 0.30 0.00 0.00 1.73
2243 2556 5.270853 CGCACGGAGGAAAAATAAATAAGG 58.729 41.667 0.00 0.00 0.00 2.69
2319 2633 6.739331 ACCTCCTAATAGCATATATCAGCC 57.261 41.667 0.00 0.00 0.00 4.85
2327 2641 7.646548 AATAGCATATATCAGCCGAGACTTA 57.353 36.000 0.00 0.00 0.00 2.24
2331 2645 5.061064 GCATATATCAGCCGAGACTTAAACG 59.939 44.000 0.00 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
306 498 4.715520 CGTAATCACGCAATAGCTGATT 57.284 40.909 0.00 14.63 43.90 2.57
325 517 4.838152 CCAGCTGCGGCCATACGT 62.838 66.667 15.55 0.00 39.73 3.57
351 543 1.458064 CAGTAACAACGGTAAGCGGTG 59.542 52.381 0.00 0.00 0.00 4.94
352 544 1.787012 CAGTAACAACGGTAAGCGGT 58.213 50.000 0.00 0.00 0.00 5.68
358 552 6.347563 CGGAATAAAAAGCAGTAACAACGGTA 60.348 38.462 0.00 0.00 0.00 4.02
530 724 4.692135 CGATCGCGATCTAAAATTTCTGG 58.308 43.478 37.76 19.33 40.82 3.86
563 779 3.546002 TTAAATCACTTGTTTCCGGCG 57.454 42.857 0.00 0.00 0.00 6.46
564 780 4.866921 AGTTTAAATCACTTGTTTCCGGC 58.133 39.130 0.00 0.00 0.00 6.13
565 781 6.419710 GGAAAGTTTAAATCACTTGTTTCCGG 59.580 38.462 0.00 0.00 34.59 5.14
566 782 6.975772 TGGAAAGTTTAAATCACTTGTTTCCG 59.024 34.615 0.00 0.00 33.79 4.30
567 783 8.887036 ATGGAAAGTTTAAATCACTTGTTTCC 57.113 30.769 0.00 0.00 34.59 3.13
571 787 9.533253 CAGAAATGGAAAGTTTAAATCACTTGT 57.467 29.630 0.00 0.00 34.59 3.16
572 788 9.748708 TCAGAAATGGAAAGTTTAAATCACTTG 57.251 29.630 0.00 0.00 34.59 3.16
574 790 9.971922 CTTCAGAAATGGAAAGTTTAAATCACT 57.028 29.630 0.00 0.00 0.00 3.41
575 791 9.750125 ACTTCAGAAATGGAAAGTTTAAATCAC 57.250 29.630 0.00 0.00 0.00 3.06
576 792 9.748708 CACTTCAGAAATGGAAAGTTTAAATCA 57.251 29.630 0.00 0.00 0.00 2.57
577 793 9.750125 ACACTTCAGAAATGGAAAGTTTAAATC 57.250 29.630 0.00 0.00 0.00 2.17
578 794 9.533253 CACACTTCAGAAATGGAAAGTTTAAAT 57.467 29.630 0.00 0.00 0.00 1.40
579 795 8.527810 ACACACTTCAGAAATGGAAAGTTTAAA 58.472 29.630 0.00 0.00 0.00 1.52
580 796 7.973388 CACACACTTCAGAAATGGAAAGTTTAA 59.027 33.333 0.00 0.00 0.00 1.52
581 797 7.479980 CACACACTTCAGAAATGGAAAGTTTA 58.520 34.615 0.00 0.00 0.00 2.01
582 798 6.332630 CACACACTTCAGAAATGGAAAGTTT 58.667 36.000 0.00 0.00 0.00 2.66
583 799 5.679638 GCACACACTTCAGAAATGGAAAGTT 60.680 40.000 0.00 0.00 0.00 2.66
584 800 4.202050 GCACACACTTCAGAAATGGAAAGT 60.202 41.667 0.00 0.00 0.00 2.66
585 801 4.037208 AGCACACACTTCAGAAATGGAAAG 59.963 41.667 0.00 0.00 0.00 2.62
586 802 3.953612 AGCACACACTTCAGAAATGGAAA 59.046 39.130 0.00 0.00 0.00 3.13
587 803 3.554934 AGCACACACTTCAGAAATGGAA 58.445 40.909 0.00 0.00 0.00 3.53
588 804 3.141398 GAGCACACACTTCAGAAATGGA 58.859 45.455 0.00 0.00 0.00 3.41
589 805 3.058432 CAGAGCACACACTTCAGAAATGG 60.058 47.826 0.00 0.00 0.00 3.16
590 806 3.058432 CCAGAGCACACACTTCAGAAATG 60.058 47.826 0.00 0.00 0.00 2.32
591 807 3.144506 CCAGAGCACACACTTCAGAAAT 58.855 45.455 0.00 0.00 0.00 2.17
592 808 2.564771 CCAGAGCACACACTTCAGAAA 58.435 47.619 0.00 0.00 0.00 2.52
593 809 1.202687 CCCAGAGCACACACTTCAGAA 60.203 52.381 0.00 0.00 0.00 3.02
594 810 0.394192 CCCAGAGCACACACTTCAGA 59.606 55.000 0.00 0.00 0.00 3.27
595 811 0.604780 CCCCAGAGCACACACTTCAG 60.605 60.000 0.00 0.00 0.00 3.02
596 812 1.451504 CCCCAGAGCACACACTTCA 59.548 57.895 0.00 0.00 0.00 3.02
597 813 1.302832 CCCCCAGAGCACACACTTC 60.303 63.158 0.00 0.00 0.00 3.01
598 814 1.645402 AACCCCCAGAGCACACACTT 61.645 55.000 0.00 0.00 0.00 3.16
599 815 0.766674 TAACCCCCAGAGCACACACT 60.767 55.000 0.00 0.00 0.00 3.55
600 816 0.321653 CTAACCCCCAGAGCACACAC 60.322 60.000 0.00 0.00 0.00 3.82
601 817 1.488705 CCTAACCCCCAGAGCACACA 61.489 60.000 0.00 0.00 0.00 3.72
602 818 1.198759 TCCTAACCCCCAGAGCACAC 61.199 60.000 0.00 0.00 0.00 3.82
603 819 0.253160 ATCCTAACCCCCAGAGCACA 60.253 55.000 0.00 0.00 0.00 4.57
604 820 0.470341 GATCCTAACCCCCAGAGCAC 59.530 60.000 0.00 0.00 0.00 4.40
605 821 0.343372 AGATCCTAACCCCCAGAGCA 59.657 55.000 0.00 0.00 0.00 4.26
606 822 1.052617 GAGATCCTAACCCCCAGAGC 58.947 60.000 0.00 0.00 0.00 4.09
607 823 2.436173 GTTGAGATCCTAACCCCCAGAG 59.564 54.545 0.00 0.00 0.00 3.35
608 824 2.478292 GTTGAGATCCTAACCCCCAGA 58.522 52.381 0.00 0.00 0.00 3.86
609 825 1.490910 GGTTGAGATCCTAACCCCCAG 59.509 57.143 14.76 0.00 40.31 4.45
610 826 1.591768 GGTTGAGATCCTAACCCCCA 58.408 55.000 14.76 0.00 40.31 4.96
614 830 1.742750 GCACGGGTTGAGATCCTAACC 60.743 57.143 16.58 16.58 44.38 2.85
615 831 1.653151 GCACGGGTTGAGATCCTAAC 58.347 55.000 0.00 0.00 0.00 2.34
616 832 0.539986 GGCACGGGTTGAGATCCTAA 59.460 55.000 0.00 0.00 0.00 2.69
617 833 2.208527 GGCACGGGTTGAGATCCTA 58.791 57.895 0.00 0.00 0.00 2.94
618 834 2.990479 GGCACGGGTTGAGATCCT 59.010 61.111 0.00 0.00 0.00 3.24
631 847 3.665675 AATCCTCGTCCAGCGGCAC 62.666 63.158 1.45 0.00 41.72 5.01
632 848 3.390521 AATCCTCGTCCAGCGGCA 61.391 61.111 1.45 0.00 41.72 5.69
633 849 2.892425 CAATCCTCGTCCAGCGGC 60.892 66.667 0.00 0.00 41.72 6.53
634 850 2.892425 GCAATCCTCGTCCAGCGG 60.892 66.667 0.00 0.00 41.72 5.52
635 851 3.257561 CGCAATCCTCGTCCAGCG 61.258 66.667 0.00 0.00 43.01 5.18
636 852 3.567797 GCGCAATCCTCGTCCAGC 61.568 66.667 0.30 0.00 0.00 4.85
637 853 2.892425 GGCGCAATCCTCGTCCAG 60.892 66.667 10.83 0.00 0.00 3.86
638 854 1.681486 TATGGCGCAATCCTCGTCCA 61.681 55.000 10.83 0.00 37.46 4.02
639 855 1.069090 TATGGCGCAATCCTCGTCC 59.931 57.895 10.83 0.00 0.00 4.79
640 856 0.529773 TGTATGGCGCAATCCTCGTC 60.530 55.000 10.83 0.00 0.00 4.20
641 857 0.530650 CTGTATGGCGCAATCCTCGT 60.531 55.000 10.83 0.00 0.00 4.18
642 858 1.835483 GCTGTATGGCGCAATCCTCG 61.835 60.000 10.83 0.00 0.00 4.63
643 859 0.815213 TGCTGTATGGCGCAATCCTC 60.815 55.000 10.83 0.00 32.40 3.71
644 860 0.816825 CTGCTGTATGGCGCAATCCT 60.817 55.000 10.83 0.00 35.46 3.24
645 861 1.650912 CTGCTGTATGGCGCAATCC 59.349 57.895 10.83 0.00 35.46 3.01
646 862 1.009222 GCTGCTGTATGGCGCAATC 60.009 57.895 10.83 0.00 35.46 2.67
647 863 2.827051 CGCTGCTGTATGGCGCAAT 61.827 57.895 10.83 5.96 42.28 3.56
648 864 3.498834 CGCTGCTGTATGGCGCAA 61.499 61.111 10.83 0.00 42.28 4.85
691 907 5.222027 TGTTATGGGCTTATGGCTTGCTATA 60.222 40.000 2.11 0.00 41.46 1.31
707 926 5.833131 ACTAATATTGGTGCCTTGTTATGGG 59.167 40.000 3.33 0.00 0.00 4.00
708 927 6.959639 ACTAATATTGGTGCCTTGTTATGG 57.040 37.500 3.33 0.00 0.00 2.74
709 928 7.500892 TGGTACTAATATTGGTGCCTTGTTATG 59.499 37.037 29.78 0.00 43.14 1.90
710 929 7.579105 TGGTACTAATATTGGTGCCTTGTTAT 58.421 34.615 29.78 0.00 43.14 1.89
711 930 6.959904 TGGTACTAATATTGGTGCCTTGTTA 58.040 36.000 29.78 13.86 43.14 2.41
782 1005 2.686405 AGACACAACTGCGATATACGGA 59.314 45.455 0.00 0.00 42.83 4.69
783 1006 3.043586 GAGACACAACTGCGATATACGG 58.956 50.000 0.00 0.00 42.83 4.02
784 1007 2.714480 CGAGACACAACTGCGATATACG 59.286 50.000 0.00 0.00 45.66 3.06
785 1008 3.692576 ACGAGACACAACTGCGATATAC 58.307 45.455 0.00 0.00 0.00 1.47
786 1009 3.626217 AGACGAGACACAACTGCGATATA 59.374 43.478 0.00 0.00 0.00 0.86
787 1010 2.423892 AGACGAGACACAACTGCGATAT 59.576 45.455 0.00 0.00 0.00 1.63
788 1011 1.810755 AGACGAGACACAACTGCGATA 59.189 47.619 0.00 0.00 0.00 2.92
789 1012 0.598562 AGACGAGACACAACTGCGAT 59.401 50.000 0.00 0.00 0.00 4.58
790 1013 1.232119 TAGACGAGACACAACTGCGA 58.768 50.000 0.00 0.00 0.00 5.10
791 1014 2.264109 ATAGACGAGACACAACTGCG 57.736 50.000 0.00 0.00 0.00 5.18
792 1015 4.904724 CGTATATAGACGAGACACAACTGC 59.095 45.833 14.56 0.00 45.82 4.40
853 1076 3.235195 CGACGTAGATATACAAGGCAGC 58.765 50.000 0.00 0.00 0.00 5.25
929 1152 8.020819 GCTTGTGTTGAGTTTTTGTGCTATATA 58.979 33.333 0.00 0.00 0.00 0.86
930 1153 6.863126 GCTTGTGTTGAGTTTTTGTGCTATAT 59.137 34.615 0.00 0.00 0.00 0.86
931 1154 6.205784 GCTTGTGTTGAGTTTTTGTGCTATA 58.794 36.000 0.00 0.00 0.00 1.31
932 1155 5.043248 GCTTGTGTTGAGTTTTTGTGCTAT 58.957 37.500 0.00 0.00 0.00 2.97
933 1156 4.420168 GCTTGTGTTGAGTTTTTGTGCTA 58.580 39.130 0.00 0.00 0.00 3.49
934 1157 3.253230 GCTTGTGTTGAGTTTTTGTGCT 58.747 40.909 0.00 0.00 0.00 4.40
935 1158 2.348362 GGCTTGTGTTGAGTTTTTGTGC 59.652 45.455 0.00 0.00 0.00 4.57
936 1159 2.929398 GGGCTTGTGTTGAGTTTTTGTG 59.071 45.455 0.00 0.00 0.00 3.33
937 1160 2.564947 TGGGCTTGTGTTGAGTTTTTGT 59.435 40.909 0.00 0.00 0.00 2.83
938 1161 2.929398 GTGGGCTTGTGTTGAGTTTTTG 59.071 45.455 0.00 0.00 0.00 2.44
939 1162 2.416701 CGTGGGCTTGTGTTGAGTTTTT 60.417 45.455 0.00 0.00 0.00 1.94
942 1165 0.107410 TCGTGGGCTTGTGTTGAGTT 60.107 50.000 0.00 0.00 0.00 3.01
943 1166 0.532862 CTCGTGGGCTTGTGTTGAGT 60.533 55.000 0.00 0.00 0.00 3.41
946 1169 1.831389 CGACTCGTGGGCTTGTGTTG 61.831 60.000 0.00 0.00 0.00 3.33
947 1170 1.594293 CGACTCGTGGGCTTGTGTT 60.594 57.895 0.00 0.00 0.00 3.32
950 1173 0.606604 AATACGACTCGTGGGCTTGT 59.393 50.000 14.47 0.00 41.39 3.16
951 1174 2.572191 TAATACGACTCGTGGGCTTG 57.428 50.000 14.47 0.00 41.39 4.01
959 1182 8.805688 TGATAGATCTACGAATAATACGACTCG 58.194 37.037 4.10 0.00 37.33 4.18
970 1193 9.469807 GTCTGAATGTTTGATAGATCTACGAAT 57.530 33.333 4.10 0.00 0.00 3.34
971 1194 8.466798 TGTCTGAATGTTTGATAGATCTACGAA 58.533 33.333 4.10 3.14 0.00 3.85
972 1195 7.996385 TGTCTGAATGTTTGATAGATCTACGA 58.004 34.615 4.10 0.00 0.00 3.43
973 1196 7.380870 CCTGTCTGAATGTTTGATAGATCTACG 59.619 40.741 4.10 0.00 0.00 3.51
974 1197 8.417106 TCCTGTCTGAATGTTTGATAGATCTAC 58.583 37.037 4.10 0.16 0.00 2.59
975 1198 8.539117 TCCTGTCTGAATGTTTGATAGATCTA 57.461 34.615 4.57 4.57 0.00 1.98
994 1217 1.661341 GATCTGTGGCACATCCTGTC 58.339 55.000 22.35 10.83 44.52 3.51
998 1221 1.524621 CCGGATCTGTGGCACATCC 60.525 63.158 24.18 24.18 44.52 3.51
1021 1244 1.096386 GCTGCCTTGCCTCTCATCTG 61.096 60.000 0.00 0.00 0.00 2.90
1050 1273 2.743183 GCATACAAGGATGGCGAAGAGT 60.743 50.000 0.00 0.00 0.00 3.24
1054 1277 3.094386 GGCATACAAGGATGGCGAA 57.906 52.632 2.86 0.00 41.85 4.70
1074 1297 2.049156 TGTGCAGAGGAGAACGCG 60.049 61.111 3.53 3.53 0.00 6.01
1101 1324 1.957186 GGTCGCTTGCGTACCAACA 60.957 57.895 22.00 0.37 33.28 3.33
1142 1365 4.972751 TGCATAGATATTAGCACCCACA 57.027 40.909 0.00 0.00 31.05 4.17
1146 1369 5.426504 AGCAGATGCATAGATATTAGCACC 58.573 41.667 7.68 0.00 45.16 5.01
1154 1377 4.961438 TGGACAAGCAGATGCATAGATA 57.039 40.909 7.68 0.00 45.16 1.98
1155 1378 3.851458 TGGACAAGCAGATGCATAGAT 57.149 42.857 7.68 0.00 45.16 1.98
1156 1379 3.851458 ATGGACAAGCAGATGCATAGA 57.149 42.857 7.68 0.00 45.16 1.98
1157 1380 3.252701 GGAATGGACAAGCAGATGCATAG 59.747 47.826 7.68 0.00 45.16 2.23
1267 1490 1.945394 CAGCAGAAGCAACTCTTGTGT 59.055 47.619 4.20 0.00 45.06 3.72
1372 1595 1.243342 TTTGATTGGTGCCGGCAGAG 61.243 55.000 33.73 0.00 0.00 3.35
1417 1640 0.861837 GGCGTGATCTCTTATTGCCG 59.138 55.000 0.00 0.00 0.00 5.69
1425 1648 1.531149 CAAAAACACGGCGTGATCTCT 59.469 47.619 42.65 20.35 36.96 3.10
1446 1673 6.875926 GACCCATTCGATTCATTTTGAAAG 57.124 37.500 0.00 0.00 40.12 2.62
1482 1732 5.551233 ACTCGATTTCTTGACTCAATTCCA 58.449 37.500 0.00 0.00 0.00 3.53
1502 1752 7.920682 TCACAGCTAAAAATCAAGGAAAAACTC 59.079 33.333 0.00 0.00 0.00 3.01
1505 1755 6.983890 GGTCACAGCTAAAAATCAAGGAAAAA 59.016 34.615 0.00 0.00 0.00 1.94
1512 1762 6.463995 ACTTTGGTCACAGCTAAAAATCAA 57.536 33.333 0.00 0.00 0.00 2.57
1518 1768 5.031066 ACAGTACTTTGGTCACAGCTAAA 57.969 39.130 0.00 0.00 0.00 1.85
1554 1804 6.994868 TGTTTCGCGCAAACTTATTTAATT 57.005 29.167 25.12 0.00 44.35 1.40
1561 1811 3.187637 AGCTATTGTTTCGCGCAAACTTA 59.812 39.130 25.12 18.44 44.35 2.24
1562 1812 2.031157 AGCTATTGTTTCGCGCAAACTT 60.031 40.909 25.12 18.35 44.35 2.66
1563 1813 1.535462 AGCTATTGTTTCGCGCAAACT 59.465 42.857 25.12 14.87 44.35 2.66
1564 1814 1.643810 CAGCTATTGTTTCGCGCAAAC 59.356 47.619 21.06 21.06 44.31 2.93
1565 1815 1.265635 ACAGCTATTGTTTCGCGCAAA 59.734 42.857 8.75 4.45 36.31 3.68
1566 1816 0.871722 ACAGCTATTGTTTCGCGCAA 59.128 45.000 8.75 0.00 36.31 4.85
1567 1817 1.715993 TACAGCTATTGTTTCGCGCA 58.284 45.000 8.75 0.00 41.29 6.09
1568 1818 2.284150 TCATACAGCTATTGTTTCGCGC 59.716 45.455 0.00 0.00 41.29 6.86
1569 1819 4.715520 ATCATACAGCTATTGTTTCGCG 57.284 40.909 0.00 0.00 41.29 5.87
1585 1835 7.144661 CCGGTATTAATTGCTGCAAAATCATA 58.855 34.615 20.06 10.30 0.00 2.15
1619 1869 5.278463 GCTGGAAGAAGACAAATACAGCAAA 60.278 40.000 0.00 0.00 46.68 3.68
1669 1919 8.854614 ATATTTTGGAAGCGCTATTAGAGATT 57.145 30.769 12.05 0.00 0.00 2.40
1672 1922 8.534333 TGTATATTTTGGAAGCGCTATTAGAG 57.466 34.615 12.05 0.00 0.00 2.43
1673 1923 8.896320 TTGTATATTTTGGAAGCGCTATTAGA 57.104 30.769 12.05 0.00 0.00 2.10
1755 2005 0.958091 AGCAAAGCACGGCATTGTAA 59.042 45.000 12.93 0.00 39.10 2.41
1761 2011 3.047280 CCGTAGCAAAGCACGGCA 61.047 61.111 15.85 0.00 42.39 5.69
1762 2012 3.799755 CCCGTAGCAAAGCACGGC 61.800 66.667 19.96 0.00 44.89 5.68
1763 2013 3.799755 GCCCGTAGCAAAGCACGG 61.800 66.667 19.03 19.03 45.37 4.94
1772 2022 4.124851 AGTATGCATTATAGCCCGTAGC 57.875 45.455 3.54 0.00 44.25 3.58
1773 2023 6.459848 GGTCTAGTATGCATTATAGCCCGTAG 60.460 46.154 3.54 0.00 0.00 3.51
1774 2024 5.359009 GGTCTAGTATGCATTATAGCCCGTA 59.641 44.000 3.54 0.00 0.00 4.02
1775 2025 4.159879 GGTCTAGTATGCATTATAGCCCGT 59.840 45.833 3.54 0.00 0.00 5.28
1776 2026 4.159693 TGGTCTAGTATGCATTATAGCCCG 59.840 45.833 3.54 0.00 0.00 6.13
1777 2027 5.677319 TGGTCTAGTATGCATTATAGCCC 57.323 43.478 3.54 7.71 0.00 5.19
1778 2028 6.878317 TCATGGTCTAGTATGCATTATAGCC 58.122 40.000 3.54 12.75 0.00 3.93
1779 2029 7.440556 CCATCATGGTCTAGTATGCATTATAGC 59.559 40.741 3.54 4.50 31.35 2.97
1780 2030 7.440556 GCCATCATGGTCTAGTATGCATTATAG 59.559 40.741 3.54 8.00 40.46 1.31
1781 2031 7.275183 GCCATCATGGTCTAGTATGCATTATA 58.725 38.462 3.54 0.00 40.46 0.98
1782 2032 6.118170 GCCATCATGGTCTAGTATGCATTAT 58.882 40.000 3.54 0.00 40.46 1.28
1783 2033 5.491070 GCCATCATGGTCTAGTATGCATTA 58.509 41.667 3.54 0.00 40.46 1.90
1784 2034 4.330250 GCCATCATGGTCTAGTATGCATT 58.670 43.478 3.54 0.00 40.46 3.56
1785 2035 3.618263 CGCCATCATGGTCTAGTATGCAT 60.618 47.826 5.31 3.79 40.46 3.96
1786 2036 2.289010 CGCCATCATGGTCTAGTATGCA 60.289 50.000 5.31 0.00 40.46 3.96
1787 2037 2.341257 CGCCATCATGGTCTAGTATGC 58.659 52.381 5.31 0.00 40.46 3.14
1788 2038 2.341257 GCGCCATCATGGTCTAGTATG 58.659 52.381 5.31 0.00 40.46 2.39
1818 2068 4.590918 TCTATTGTAAAAATGGACGGGCA 58.409 39.130 0.00 0.00 0.00 5.36
1880 2186 9.059023 AGTGACCCTTCTACCTAAGATTTATTT 57.941 33.333 0.00 0.00 33.05 1.40
1881 2187 8.625467 AGTGACCCTTCTACCTAAGATTTATT 57.375 34.615 0.00 0.00 33.05 1.40
1883 2189 7.456902 ACAAGTGACCCTTCTACCTAAGATTTA 59.543 37.037 0.00 0.00 33.05 1.40
1892 2198 5.240183 GGTAAAAACAAGTGACCCTTCTACC 59.760 44.000 0.00 0.00 0.00 3.18
1992 2300 8.095792 TGCAACATGATCCATTAGATTTTTGTT 58.904 29.630 0.00 0.00 34.42 2.83
2011 2319 5.534207 TGGAAAAAGATTGTCTGCAACAT 57.466 34.783 3.15 0.00 37.82 2.71
2012 2320 4.998671 TGGAAAAAGATTGTCTGCAACA 57.001 36.364 0.00 0.00 37.44 3.33
2013 2321 6.042143 TCTTTGGAAAAAGATTGTCTGCAAC 58.958 36.000 0.00 0.00 37.44 4.17
2014 2322 6.219417 TCTTTGGAAAAAGATTGTCTGCAA 57.781 33.333 0.00 0.00 39.16 4.08
2015 2323 5.850557 TCTTTGGAAAAAGATTGTCTGCA 57.149 34.783 0.00 0.00 34.15 4.41
2016 2324 6.585322 CAGATCTTTGGAAAAAGATTGTCTGC 59.415 38.462 13.37 2.48 46.33 4.26
2017 2325 7.040201 TCCAGATCTTTGGAAAAAGATTGTCTG 60.040 37.037 13.37 15.09 46.33 3.51
2018 2326 7.006509 TCCAGATCTTTGGAAAAAGATTGTCT 58.993 34.615 13.37 6.20 46.33 3.41
2019 2327 7.219484 TCCAGATCTTTGGAAAAAGATTGTC 57.781 36.000 13.37 4.33 46.33 3.18
2033 2343 8.383175 TGAAGTAACCATAAGTTCCAGATCTTT 58.617 33.333 0.00 0.00 40.05 2.52
2067 2377 0.179210 TTTTCACGGCGCGAATTAGC 60.179 50.000 12.10 0.00 0.00 3.09
2091 2404 5.342259 GTGTTGCTAAGCTATTTTGTTTCCG 59.658 40.000 0.00 0.00 0.00 4.30
2146 2459 5.933187 ACGTAGCAACAATTACAACATGA 57.067 34.783 0.00 0.00 0.00 3.07
2169 2482 0.961857 ATGTGATGCTCGCCTGCAAA 60.962 50.000 2.37 0.00 46.61 3.68
2318 2632 4.164294 CTGTTACTCCGTTTAAGTCTCGG 58.836 47.826 0.00 0.00 44.76 4.63
2319 2633 4.791974 ACTGTTACTCCGTTTAAGTCTCG 58.208 43.478 0.00 0.00 0.00 4.04
2327 2641 6.873997 TGATCATATGACTGTTACTCCGTTT 58.126 36.000 7.78 0.00 0.00 3.60
2331 2645 7.436673 GTGAACTGATCATATGACTGTTACTCC 59.563 40.741 19.99 13.24 40.97 3.85
2332 2646 8.194104 AGTGAACTGATCATATGACTGTTACTC 58.806 37.037 19.99 10.23 40.97 2.59
2375 2689 7.557358 AGTCAATATTCAAGGATACATTGCACA 59.443 33.333 0.00 0.00 41.41 4.57


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

AutoCloner maintained by Alex Coulton.