Multiple sequence alignment - TraesCS4D01G153200

Loading Multiple Alignment...

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 TraesCS4D01G153200 chr4D 100.000 9878 0 0 1 9878 191275317 191285194 0.000000e+00 18242.0
1 TraesCS4D01G153200 chr4D 83.111 225 29 6 8072 8288 398549801 398549578 7.830000e-46 196.0
2 TraesCS4D01G153200 chr4D 100.000 28 0 0 937 964 191276225 191276252 1.800000e-02 52.8
3 TraesCS4D01G153200 chr4D 100.000 28 0 0 909 936 191276253 191276280 1.800000e-02 52.8
4 TraesCS4D01G153200 chr4B 96.692 4957 99 24 1793 6726 211974528 211979442 0.000000e+00 8185.0
5 TraesCS4D01G153200 chr4B 95.387 2493 48 18 6774 9205 211979441 211981927 0.000000e+00 3904.0
6 TraesCS4D01G153200 chr4B 97.780 856 13 4 937 1788 211973633 211974486 0.000000e+00 1471.0
7 TraesCS4D01G153200 chr4B 94.595 407 19 3 9207 9611 211982165 211982570 2.340000e-175 627.0
8 TraesCS4D01G153200 chr4B 89.527 296 9 9 647 936 211973380 211973659 1.220000e-93 355.0
9 TraesCS4D01G153200 chr4B 85.356 239 23 5 8076 8305 368106287 368106052 4.610000e-58 237.0
10 TraesCS4D01G153200 chr4B 85.714 217 6 1 9609 9825 211983043 211983234 1.300000e-48 206.0
11 TraesCS4D01G153200 chr4A 96.306 4412 104 26 4092 8464 212688914 212693305 0.000000e+00 7190.0
12 TraesCS4D01G153200 chr4A 97.449 1411 33 3 2688 4096 212687352 212688761 0.000000e+00 2403.0
13 TraesCS4D01G153200 chr4A 89.977 1287 50 25 8461 9722 212693692 212694924 0.000000e+00 1589.0
14 TraesCS4D01G153200 chr4A 97.450 902 17 2 1789 2687 212683253 212684151 0.000000e+00 1533.0
15 TraesCS4D01G153200 chr4A 95.789 855 23 5 937 1788 212682370 212683214 0.000000e+00 1367.0
16 TraesCS4D01G153200 chr4A 88.104 269 12 8 683 936 212682134 212682397 1.610000e-77 302.0
17 TraesCS4D01G153200 chr7D 96.082 587 14 1 1 578 98776015 98775429 0.000000e+00 948.0
18 TraesCS4D01G153200 chr7D 84.390 205 20 8 8090 8288 506899057 506899255 3.640000e-44 191.0
19 TraesCS4D01G153200 chr2D 95.939 591 13 2 1 580 66562116 66561526 0.000000e+00 948.0
20 TraesCS4D01G153200 chr2D 94.444 90 4 1 1748 1836 386497965 386498054 4.810000e-28 137.0
21 TraesCS4D01G153200 chr3A 96.068 585 14 1 3 578 1737915 1738499 0.000000e+00 944.0
22 TraesCS4D01G153200 chr3A 90.057 523 38 7 78 589 675320124 675319605 0.000000e+00 665.0
23 TraesCS4D01G153200 chr3A 97.368 76 2 0 1 76 675320308 675320233 8.050000e-26 130.0
24 TraesCS4D01G153200 chr6D 94.816 598 20 3 1 589 450191670 450191075 0.000000e+00 922.0
25 TraesCS4D01G153200 chr6D 84.519 239 28 4 8077 8306 440639733 440639495 2.780000e-55 228.0
26 TraesCS4D01G153200 chr5A 94.314 598 24 2 1 589 440189231 440188635 0.000000e+00 907.0
27 TraesCS4D01G153200 chr5A 95.455 44 2 0 579 622 440188618 440188575 4.950000e-08 71.3
28 TraesCS4D01G153200 chr1B 91.776 608 29 7 1 589 90190698 90190093 0.000000e+00 826.0
29 TraesCS4D01G153200 chr2B 90.057 523 38 7 78 589 447731722 447731203 0.000000e+00 665.0
30 TraesCS4D01G153200 chr2B 94.444 90 4 1 1748 1836 457359142 457359231 4.810000e-28 137.0
31 TraesCS4D01G153200 chr2B 93.478 92 2 3 1744 1831 26724766 26724675 6.220000e-27 134.0
32 TraesCS4D01G153200 chr2B 97.368 76 2 0 1 76 447731906 447731831 8.050000e-26 130.0
33 TraesCS4D01G153200 chr5D 88.889 234 22 3 8075 8305 503469971 503470203 1.620000e-72 285.0
34 TraesCS4D01G153200 chr5D 93.684 95 1 4 1742 1831 34445511 34445605 4.810000e-28 137.0
35 TraesCS4D01G153200 chr5D 92.632 95 2 3 1748 1837 34445610 34445516 2.240000e-26 132.0
36 TraesCS4D01G153200 chr6A 84.583 240 28 6 8076 8306 588601124 588600885 7.720000e-56 230.0
37 TraesCS4D01G153200 chr1D 84.232 241 30 4 8073 8305 12174442 12174682 2.780000e-55 228.0
38 TraesCS4D01G153200 chr1D 83.817 241 31 3 8073 8305 12232123 12232363 1.290000e-53 222.0
39 TraesCS4D01G153200 chr2A 83.628 226 26 8 8078 8294 771620178 771620401 1.680000e-47 202.0
40 TraesCS4D01G153200 chr6B 81.070 243 32 9 8076 8308 42615878 42615640 2.190000e-41 182.0
41 TraesCS4D01G153200 chr3B 77.305 282 44 16 304 578 782651100 782651368 2.220000e-31 148.0
42 TraesCS4D01G153200 chr3B 96.774 31 1 0 8073 8103 367818426 367818456 1.800000e-02 52.8
43 TraesCS4D01G153200 chr3D 95.455 88 2 2 1746 1831 182423399 182423312 1.340000e-28 139.0
44 TraesCS4D01G153200 chr3D 95.349 86 2 2 1748 1831 182423307 182423392 1.730000e-27 135.0
45 TraesCS4D01G153200 chrUn 97.368 76 2 0 1 76 478995461 478995536 8.050000e-26 130.0
46 TraesCS4D01G153200 chr1A 95.312 64 2 1 79 141 479712484 479712547 6.310000e-17 100.0


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 TraesCS4D01G153200 chr4D 191275317 191285194 9877 False 18242.000000 18242 100.000000 1 9878 1 chr4D.!!$F1 9877
1 TraesCS4D01G153200 chr4B 211973380 211983234 9854 False 2458.000000 8185 93.282500 647 9825 6 chr4B.!!$F1 9178
2 TraesCS4D01G153200 chr4A 212682134 212694924 12790 False 2397.333333 7190 94.179167 683 9722 6 chr4A.!!$F1 9039
3 TraesCS4D01G153200 chr7D 98775429 98776015 586 True 948.000000 948 96.082000 1 578 1 chr7D.!!$R1 577
4 TraesCS4D01G153200 chr2D 66561526 66562116 590 True 948.000000 948 95.939000 1 580 1 chr2D.!!$R1 579
5 TraesCS4D01G153200 chr3A 1737915 1738499 584 False 944.000000 944 96.068000 3 578 1 chr3A.!!$F1 575
6 TraesCS4D01G153200 chr3A 675319605 675320308 703 True 397.500000 665 93.712500 1 589 2 chr3A.!!$R1 588
7 TraesCS4D01G153200 chr6D 450191075 450191670 595 True 922.000000 922 94.816000 1 589 1 chr6D.!!$R2 588
8 TraesCS4D01G153200 chr5A 440188575 440189231 656 True 489.150000 907 94.884500 1 622 2 chr5A.!!$R1 621
9 TraesCS4D01G153200 chr1B 90190093 90190698 605 True 826.000000 826 91.776000 1 589 1 chr1B.!!$R1 588
10 TraesCS4D01G153200 chr2B 447731203 447731906 703 True 397.500000 665 93.712500 1 589 2 chr2B.!!$R2 588

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
931 1098 0.326927 CCTAGGAAAAGCCGAACCCA 59.673 55.000 1.05 0.0 43.43 4.51 F
934 1101 0.826256 AGGAAAAGCCGAACCCAACC 60.826 55.000 0.00 0.0 43.43 3.77 F
1765 1938 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.0 0.00 2.44 F
2919 6344 2.091555 AGGGCCAACACTACCAAGAAAA 60.092 45.455 6.18 0.0 0.00 2.29 F
3532 6958 2.433868 TGGTAGTCGTGAGCTGTTTC 57.566 50.000 0.00 0.0 0.00 2.78 F
5475 9075 0.038159 GCTCCTAGGCGCACGATTAT 60.038 55.000 18.97 0.0 0.00 1.28 F
5539 9139 1.032114 AATTAGGCGGCTGACAAGGC 61.032 55.000 23.55 0.0 45.41 4.35 F
6742 10344 1.164411 TGCAATAGTGGGAAAGCACG 58.836 50.000 0.00 0.0 0.00 5.34 F
7953 11558 3.006967 ACCTCAGCGTCAAACTTATGAGT 59.993 43.478 0.00 0.0 37.87 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2919 6344 3.944015 GAGACAAGCCAGTATTGATTGCT 59.056 43.478 3.96 0.00 0.00 3.91 R
3227 6653 7.092079 TGTAACCTGCATGAATTTTCAGATTG 58.908 34.615 0.00 0.00 41.08 2.67 R
3260 6686 1.080093 CACGCCTTCTTACGGAGCA 60.080 57.895 0.00 0.00 0.00 4.26 R
4799 8397 1.853963 ACTGCAGACGGATAAGGAGT 58.146 50.000 23.35 0.00 0.00 3.85 R
5539 9139 2.584418 CTCATCGGCGCTGGAGTG 60.584 66.667 17.88 13.06 0.00 3.51 R
7555 11160 1.843992 CAGCGCCATTATTTTCTGCC 58.156 50.000 2.29 0.00 0.00 4.85 R
7838 11443 9.817809 TTATGCTTAGTTGACCTACTAAATGAG 57.182 33.333 5.78 0.00 39.43 2.90 R
8673 12727 1.883275 TGCACAAAATACAACTCCCCG 59.117 47.619 0.00 0.00 0.00 5.73 R
9107 13162 0.166814 CAAGCAAACCTACGCTCTGC 59.833 55.000 0.00 0.00 37.54 4.26 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
452 565 0.469144 GGAGGTTTGTTTGCCTGGGA 60.469 55.000 0.00 0.00 34.81 4.37
622 770 9.204570 GTACTCAAGTTTGCTCTTTCAATAGTA 57.795 33.333 0.00 0.00 0.00 1.82
623 771 8.089115 ACTCAAGTTTGCTCTTTCAATAGTAC 57.911 34.615 0.00 0.00 0.00 2.73
624 772 7.715249 ACTCAAGTTTGCTCTTTCAATAGTACA 59.285 33.333 0.00 0.00 0.00 2.90
625 773 8.087982 TCAAGTTTGCTCTTTCAATAGTACAG 57.912 34.615 0.00 0.00 0.00 2.74
626 774 7.715249 TCAAGTTTGCTCTTTCAATAGTACAGT 59.285 33.333 0.00 0.00 0.00 3.55
627 775 8.988934 CAAGTTTGCTCTTTCAATAGTACAGTA 58.011 33.333 0.00 0.00 0.00 2.74
628 776 8.764524 AGTTTGCTCTTTCAATAGTACAGTAG 57.235 34.615 0.00 0.00 0.00 2.57
629 777 8.368668 AGTTTGCTCTTTCAATAGTACAGTAGT 58.631 33.333 0.00 0.00 0.00 2.73
630 778 9.635520 GTTTGCTCTTTCAATAGTACAGTAGTA 57.364 33.333 0.00 0.00 0.00 1.82
631 779 9.856488 TTTGCTCTTTCAATAGTACAGTAGTAG 57.144 33.333 0.00 0.00 0.00 2.57
632 780 8.803397 TGCTCTTTCAATAGTACAGTAGTAGA 57.197 34.615 0.00 0.00 0.00 2.59
633 781 8.894731 TGCTCTTTCAATAGTACAGTAGTAGAG 58.105 37.037 0.00 4.34 0.00 2.43
634 782 9.111613 GCTCTTTCAATAGTACAGTAGTAGAGA 57.888 37.037 12.23 5.57 0.00 3.10
665 813 9.388346 GAGATACAGATAAACAAGATACAGACG 57.612 37.037 0.00 0.00 0.00 4.18
676 824 5.587043 ACAAGATACAGACGACCAAACAAAA 59.413 36.000 0.00 0.00 0.00 2.44
677 825 5.668558 AGATACAGACGACCAAACAAAAC 57.331 39.130 0.00 0.00 0.00 2.43
678 826 5.120399 AGATACAGACGACCAAACAAAACA 58.880 37.500 0.00 0.00 0.00 2.83
679 827 5.587043 AGATACAGACGACCAAACAAAACAA 59.413 36.000 0.00 0.00 0.00 2.83
680 828 4.506886 ACAGACGACCAAACAAAACAAA 57.493 36.364 0.00 0.00 0.00 2.83
686 834 2.857748 GACCAAACAAAACAAAGCCTCG 59.142 45.455 0.00 0.00 0.00 4.63
696 844 0.603707 CAAAGCCTCGTTGAGCCAGA 60.604 55.000 0.00 0.00 0.00 3.86
710 858 2.529136 CAGACTGGGGTGGGTGGA 60.529 66.667 0.00 0.00 0.00 4.02
735 883 0.673437 CAACCAAACACGCCCTCAAT 59.327 50.000 0.00 0.00 0.00 2.57
767 928 4.082523 TCGCTGGAGGCCGGAAAG 62.083 66.667 5.05 0.00 37.74 2.62
879 1046 2.591133 CATAAAACAAAAGCGTCCCCG 58.409 47.619 0.00 0.00 37.07 5.73
922 1089 3.202706 GCGGCGCCCTAGGAAAAG 61.203 66.667 23.58 4.03 0.00 2.27
923 1090 3.202706 CGGCGCCCTAGGAAAAGC 61.203 66.667 23.46 9.63 0.00 3.51
924 1091 2.829003 GGCGCCCTAGGAAAAGCC 60.829 66.667 18.11 14.96 37.61 4.35
925 1092 3.202706 GCGCCCTAGGAAAAGCCG 61.203 66.667 11.48 4.11 43.43 5.52
926 1093 2.582436 CGCCCTAGGAAAAGCCGA 59.418 61.111 11.48 0.00 43.43 5.54
927 1094 1.078708 CGCCCTAGGAAAAGCCGAA 60.079 57.895 11.48 0.00 43.43 4.30
928 1095 1.366854 CGCCCTAGGAAAAGCCGAAC 61.367 60.000 11.48 0.00 43.43 3.95
929 1096 1.030488 GCCCTAGGAAAAGCCGAACC 61.030 60.000 11.48 0.00 43.43 3.62
930 1097 0.393944 CCCTAGGAAAAGCCGAACCC 60.394 60.000 11.48 0.00 43.43 4.11
931 1098 0.326927 CCTAGGAAAAGCCGAACCCA 59.673 55.000 1.05 0.00 43.43 4.51
932 1099 1.271707 CCTAGGAAAAGCCGAACCCAA 60.272 52.381 1.05 0.00 43.43 4.12
933 1100 1.810755 CTAGGAAAAGCCGAACCCAAC 59.189 52.381 0.00 0.00 43.43 3.77
934 1101 0.826256 AGGAAAAGCCGAACCCAACC 60.826 55.000 0.00 0.00 43.43 3.77
935 1102 1.663739 GAAAAGCCGAACCCAACCC 59.336 57.895 0.00 0.00 0.00 4.11
936 1103 2.137425 GAAAAGCCGAACCCAACCCG 62.137 60.000 0.00 0.00 0.00 5.28
1334 1502 1.034292 GGACAGGAGCTGGATTTGGC 61.034 60.000 0.00 0.00 35.51 4.52
1407 1575 1.965754 GCTGCAGATTCGAGGGAGGT 61.966 60.000 20.43 0.00 0.00 3.85
1450 1618 4.082125 CTGGCAGGATTTTTAGTCTGGTT 58.918 43.478 6.61 0.00 0.00 3.67
1454 1622 4.762251 GCAGGATTTTTAGTCTGGTTCTGT 59.238 41.667 0.00 0.00 0.00 3.41
1616 1785 4.921470 ATTCCGACATTTGTTCAGTACG 57.079 40.909 0.00 0.00 0.00 3.67
1765 1938 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
1837 2054 3.632643 TTTTGGGACGGAGGTAATACC 57.367 47.619 0.07 0.07 38.99 2.73
1942 2163 6.118170 CACCTTATGTTTGACTGATCCTGAT 58.882 40.000 0.00 0.00 0.00 2.90
2293 2517 6.483307 AGAATGCGAATCTGATTCCGAAAATA 59.517 34.615 21.32 4.28 35.89 1.40
2407 2631 2.094545 GCTCTTGTGCCACCTTATTTGG 60.095 50.000 0.00 0.00 37.17 3.28
2741 6166 5.116084 ACATATTTCATAGCCTGTGGTGT 57.884 39.130 0.00 0.00 0.00 4.16
2919 6344 2.091555 AGGGCCAACACTACCAAGAAAA 60.092 45.455 6.18 0.00 0.00 2.29
3061 6486 5.193679 GCCCTTATATCTTTGTCCACTGTT 58.806 41.667 0.00 0.00 0.00 3.16
3062 6487 5.652452 GCCCTTATATCTTTGTCCACTGTTT 59.348 40.000 0.00 0.00 0.00 2.83
3215 6641 7.824779 AGACTAGATGAACCCTTGTGAATTAAC 59.175 37.037 0.00 0.00 0.00 2.01
3227 6653 9.172820 CCCTTGTGAATTAACGTAAAAACTTAC 57.827 33.333 0.00 0.00 0.00 2.34
3260 6686 4.019792 TCATGCAGGTTACAGTTGATGT 57.980 40.909 0.00 0.00 46.45 3.06
3532 6958 2.433868 TGGTAGTCGTGAGCTGTTTC 57.566 50.000 0.00 0.00 0.00 2.78
3540 6966 6.560253 AGTCGTGAGCTGTTTCAAAAATAT 57.440 33.333 0.00 0.00 0.00 1.28
3579 7006 3.010584 ACTTTCTGCTGGGTGGTAATGAT 59.989 43.478 0.00 0.00 0.00 2.45
3770 7197 6.110543 TCAACTTATTTGATGACAGATGCG 57.889 37.500 0.00 0.00 39.45 4.73
4198 7786 5.715279 TCACCACTGTAGTCTTACTGCTATT 59.285 40.000 0.00 0.00 31.77 1.73
4230 7818 8.141298 TGTGTCCTGTACCTTCATCTTTATTA 57.859 34.615 0.00 0.00 0.00 0.98
4528 8125 6.656314 ATGCATCAATGTTGCTTGTTAATG 57.344 33.333 16.08 0.00 40.77 1.90
4799 8397 6.540914 ACAGGTTTGATTCTTTCGTTAGACAA 59.459 34.615 0.00 0.00 0.00 3.18
5208 8808 4.384056 CCATGACAGAGTGAAAACAGACT 58.616 43.478 0.00 0.00 0.00 3.24
5441 9041 8.777413 GCAGTATGTTGCTAGAATGAAATATCA 58.223 33.333 0.00 0.00 40.89 2.15
5475 9075 0.038159 GCTCCTAGGCGCACGATTAT 60.038 55.000 18.97 0.00 0.00 1.28
5539 9139 1.032114 AATTAGGCGGCTGACAAGGC 61.032 55.000 23.55 0.00 45.41 4.35
5756 9356 6.775629 GGAAAGAGACAGAGGAGTATAGACAT 59.224 42.308 0.00 0.00 0.00 3.06
6462 10062 9.103861 CTCTATCTGCAGATACGTAATCATAGA 57.896 37.037 28.69 20.80 37.03 1.98
6661 10263 6.187727 TGCTAGGGCAATAGCTTTAGTAAT 57.812 37.500 18.20 0.00 46.81 1.89
6662 10264 6.601332 TGCTAGGGCAATAGCTTTAGTAATT 58.399 36.000 18.20 0.00 46.81 1.40
6663 10265 7.060421 TGCTAGGGCAATAGCTTTAGTAATTT 58.940 34.615 18.20 0.00 46.81 1.82
6664 10266 7.013274 TGCTAGGGCAATAGCTTTAGTAATTTG 59.987 37.037 18.20 0.00 46.81 2.32
6742 10344 1.164411 TGCAATAGTGGGAAAGCACG 58.836 50.000 0.00 0.00 0.00 5.34
6992 10594 5.008019 CACAAGAACACAAAGCTATCACACT 59.992 40.000 0.00 0.00 0.00 3.55
7122 10724 6.428083 TTGTCAACTGGTCCAAGTTAGATA 57.572 37.500 0.00 0.00 38.34 1.98
7539 11144 9.965824 TGAGAAAGAACTGGAAAATCAAAATAC 57.034 29.630 0.00 0.00 0.00 1.89
7555 11160 5.997746 TCAAAATACCAGTGTCCTCTTCAAG 59.002 40.000 0.00 0.00 0.00 3.02
7916 11521 6.970484 ACATGACTTGGATTTGACAAACTAC 58.030 36.000 1.94 0.00 0.00 2.73
7925 11530 8.121305 TGGATTTGACAAACTACATTGCTAAT 57.879 30.769 1.94 0.00 33.52 1.73
7953 11558 3.006967 ACCTCAGCGTCAAACTTATGAGT 59.993 43.478 0.00 0.00 37.87 3.41
8118 11724 6.715347 AGGCCACTTCATATTTTTATGTCC 57.285 37.500 5.01 0.00 0.00 4.02
8300 11932 5.007682 GGCCTTGTATACAAAAACAGAGGA 58.992 41.667 18.55 0.00 35.15 3.71
8312 11944 7.305474 ACAAAAACAGAGGAAGTAATATTGCG 58.695 34.615 0.00 0.00 0.00 4.85
8313 11945 6.436843 AAAACAGAGGAAGTAATATTGCGG 57.563 37.500 0.00 0.00 0.00 5.69
8314 11946 5.353394 AACAGAGGAAGTAATATTGCGGA 57.647 39.130 0.00 0.00 0.00 5.54
8315 11947 5.353394 ACAGAGGAAGTAATATTGCGGAA 57.647 39.130 0.00 0.00 0.00 4.30
8316 11948 5.930135 ACAGAGGAAGTAATATTGCGGAAT 58.070 37.500 7.49 7.49 0.00 3.01
8317 11949 5.760253 ACAGAGGAAGTAATATTGCGGAATG 59.240 40.000 12.93 0.00 0.00 2.67
8318 11950 4.757149 AGAGGAAGTAATATTGCGGAATGC 59.243 41.667 12.93 0.28 46.70 3.56
8319 11951 4.718961 AGGAAGTAATATTGCGGAATGCT 58.281 39.130 12.93 1.56 46.63 3.79
8321 11953 5.239525 AGGAAGTAATATTGCGGAATGCTTC 59.760 40.000 12.93 17.16 46.63 3.86
8322 11954 5.438761 AAGTAATATTGCGGAATGCTTCC 57.561 39.130 12.93 5.20 46.63 3.46
8460 12114 3.841643 ACTGCAGTTATTCTTGCAATGC 58.158 40.909 15.25 11.12 36.81 3.56
8461 12115 3.508793 ACTGCAGTTATTCTTGCAATGCT 59.491 39.130 15.25 1.17 36.81 3.79
8462 12116 4.021719 ACTGCAGTTATTCTTGCAATGCTT 60.022 37.500 15.25 4.71 36.81 3.91
8463 12117 5.183713 ACTGCAGTTATTCTTGCAATGCTTA 59.816 36.000 15.25 0.97 36.81 3.09
8570 12618 4.019950 TGCATTGTCAGAGAGGAGAAATCA 60.020 41.667 0.00 0.00 0.00 2.57
8614 12667 5.148502 TGTCTTCCAGAGTTCCTAGTTCTT 58.851 41.667 0.00 0.00 0.00 2.52
8617 12670 6.660094 GTCTTCCAGAGTTCCTAGTTCTTCTA 59.340 42.308 0.00 0.00 0.00 2.10
8618 12671 6.660094 TCTTCCAGAGTTCCTAGTTCTTCTAC 59.340 42.308 0.00 0.00 0.00 2.59
8667 12721 5.804639 TGTGTGTTGGCTGTAATCTAGAAT 58.195 37.500 0.00 0.00 0.00 2.40
8673 12727 8.604890 GTGTTGGCTGTAATCTAGAATTCTAAC 58.395 37.037 15.85 11.41 0.00 2.34
8920 12974 4.514066 TCGCAAGTTTAGAAGAACCCTTTC 59.486 41.667 0.00 0.00 39.48 2.62
8954 13008 3.055530 TGTGTGTGGAATTGCAAGGTTTT 60.056 39.130 4.94 0.00 0.00 2.43
9127 13182 1.512926 CAGAGCGTAGGTTTGCTTGT 58.487 50.000 0.00 0.00 42.60 3.16
9273 13574 7.838079 TTTTATCATTAATGCTATGCCACCT 57.162 32.000 10.76 0.00 0.00 4.00
9504 13815 9.562408 TTGTATTTTGTGTCAAACCTACATCTA 57.438 29.630 12.92 2.91 0.00 1.98
9567 13878 6.474630 AGTTATACGGTAGGACTAGGAGATG 58.525 44.000 0.00 0.00 0.00 2.90
9701 14487 9.475505 CAAAATCACAAAATTGCAATAATACGG 57.524 29.630 13.39 1.67 0.00 4.02
9722 14508 4.797349 CGGTGGAGTTCTCGTATCTAAAAC 59.203 45.833 0.00 0.00 0.00 2.43
9723 14509 5.107824 GGTGGAGTTCTCGTATCTAAAACC 58.892 45.833 0.00 0.00 0.00 3.27
9724 14510 5.337009 GGTGGAGTTCTCGTATCTAAAACCA 60.337 44.000 0.00 0.00 0.00 3.67
9725 14511 6.338937 GTGGAGTTCTCGTATCTAAAACCAT 58.661 40.000 0.00 0.00 0.00 3.55
9726 14512 6.255887 GTGGAGTTCTCGTATCTAAAACCATG 59.744 42.308 0.00 0.00 0.00 3.66
9727 14513 6.070995 TGGAGTTCTCGTATCTAAAACCATGT 60.071 38.462 0.00 0.00 0.00 3.21
9728 14514 6.255887 GGAGTTCTCGTATCTAAAACCATGTG 59.744 42.308 0.00 0.00 0.00 3.21
9729 14515 6.106673 AGTTCTCGTATCTAAAACCATGTGG 58.893 40.000 0.00 0.00 42.17 4.17
9730 14516 5.925506 TCTCGTATCTAAAACCATGTGGA 57.074 39.130 5.96 0.00 38.94 4.02
9731 14517 5.902681 TCTCGTATCTAAAACCATGTGGAG 58.097 41.667 5.96 0.00 38.94 3.86
9732 14518 5.421056 TCTCGTATCTAAAACCATGTGGAGT 59.579 40.000 5.96 0.00 38.94 3.85
9733 14519 6.045072 TCGTATCTAAAACCATGTGGAGTT 57.955 37.500 5.96 2.03 38.94 3.01
9734 14520 6.103997 TCGTATCTAAAACCATGTGGAGTTC 58.896 40.000 5.96 0.00 38.94 3.01
9735 14521 5.005394 CGTATCTAAAACCATGTGGAGTTCG 59.995 44.000 5.96 0.00 38.94 3.95
9736 14522 3.071479 TCTAAAACCATGTGGAGTTCGC 58.929 45.455 5.96 0.00 38.94 4.70
9737 14523 0.591170 AAAACCATGTGGAGTTCGCG 59.409 50.000 5.96 0.00 38.94 5.87
9738 14524 0.534203 AAACCATGTGGAGTTCGCGT 60.534 50.000 5.77 0.00 38.94 6.01
9739 14525 0.319083 AACCATGTGGAGTTCGCGTA 59.681 50.000 5.77 0.00 38.94 4.42
9740 14526 0.535335 ACCATGTGGAGTTCGCGTAT 59.465 50.000 5.77 0.00 38.94 3.06
9741 14527 1.209128 CCATGTGGAGTTCGCGTATC 58.791 55.000 5.77 2.47 37.39 2.24
9742 14528 1.202417 CCATGTGGAGTTCGCGTATCT 60.202 52.381 5.77 2.82 37.39 1.98
9743 14529 2.034179 CCATGTGGAGTTCGCGTATCTA 59.966 50.000 5.77 0.00 37.39 1.98
9744 14530 3.490249 CCATGTGGAGTTCGCGTATCTAA 60.490 47.826 5.77 0.00 37.39 2.10
9745 14531 3.853831 TGTGGAGTTCGCGTATCTAAA 57.146 42.857 5.77 0.00 0.00 1.85
9746 14532 4.177165 TGTGGAGTTCGCGTATCTAAAA 57.823 40.909 5.77 0.00 0.00 1.52
9779 14565 9.467258 GGTTACTCTTTATTTGTTTTGTTACCC 57.533 33.333 0.00 0.00 0.00 3.69
9787 14573 5.838531 TTTGTTTTGTTACCCTTGTCGAT 57.161 34.783 0.00 0.00 0.00 3.59
9829 14615 9.653287 TCGTGATATGGGATAATTAGAAACATC 57.347 33.333 0.00 0.00 0.00 3.06
9830 14616 9.658799 CGTGATATGGGATAATTAGAAACATCT 57.341 33.333 0.00 0.00 0.00 2.90
9849 14635 8.697507 AACATCTGTTTCTTCTTATCTTTGGT 57.302 30.769 0.00 0.00 33.93 3.67
9850 14636 8.103948 ACATCTGTTTCTTCTTATCTTTGGTG 57.896 34.615 0.00 0.00 0.00 4.17
9851 14637 7.721399 ACATCTGTTTCTTCTTATCTTTGGTGT 59.279 33.333 0.00 0.00 0.00 4.16
9852 14638 7.730364 TCTGTTTCTTCTTATCTTTGGTGTC 57.270 36.000 0.00 0.00 0.00 3.67
9853 14639 6.423905 TCTGTTTCTTCTTATCTTTGGTGTCG 59.576 38.462 0.00 0.00 0.00 4.35
9854 14640 5.468746 TGTTTCTTCTTATCTTTGGTGTCGG 59.531 40.000 0.00 0.00 0.00 4.79
9855 14641 4.884668 TCTTCTTATCTTTGGTGTCGGT 57.115 40.909 0.00 0.00 0.00 4.69
9856 14642 5.988310 TCTTCTTATCTTTGGTGTCGGTA 57.012 39.130 0.00 0.00 0.00 4.02
9857 14643 6.349243 TCTTCTTATCTTTGGTGTCGGTAA 57.651 37.500 0.00 0.00 0.00 2.85
9858 14644 6.761312 TCTTCTTATCTTTGGTGTCGGTAAA 58.239 36.000 0.00 0.00 0.00 2.01
9859 14645 7.391620 TCTTCTTATCTTTGGTGTCGGTAAAT 58.608 34.615 0.00 0.00 0.00 1.40
9860 14646 6.978343 TCTTATCTTTGGTGTCGGTAAATG 57.022 37.500 0.00 0.00 0.00 2.32
9861 14647 6.703319 TCTTATCTTTGGTGTCGGTAAATGA 58.297 36.000 0.00 0.00 0.00 2.57
9862 14648 6.816640 TCTTATCTTTGGTGTCGGTAAATGAG 59.183 38.462 0.00 0.00 0.00 2.90
9863 14649 4.345859 TCTTTGGTGTCGGTAAATGAGT 57.654 40.909 0.00 0.00 0.00 3.41
9864 14650 4.062293 TCTTTGGTGTCGGTAAATGAGTG 58.938 43.478 0.00 0.00 0.00 3.51
9865 14651 2.465860 TGGTGTCGGTAAATGAGTGG 57.534 50.000 0.00 0.00 0.00 4.00
9866 14652 1.695242 TGGTGTCGGTAAATGAGTGGT 59.305 47.619 0.00 0.00 0.00 4.16
9867 14653 2.073816 GGTGTCGGTAAATGAGTGGTG 58.926 52.381 0.00 0.00 0.00 4.17
9868 14654 2.073816 GTGTCGGTAAATGAGTGGTGG 58.926 52.381 0.00 0.00 0.00 4.61
9869 14655 1.084289 GTCGGTAAATGAGTGGTGGC 58.916 55.000 0.00 0.00 0.00 5.01
9870 14656 0.687920 TCGGTAAATGAGTGGTGGCA 59.312 50.000 0.00 0.00 0.00 4.92
9871 14657 0.802494 CGGTAAATGAGTGGTGGCAC 59.198 55.000 9.70 9.70 0.00 5.01
9872 14658 1.880221 CGGTAAATGAGTGGTGGCACA 60.880 52.381 20.82 2.61 0.00 4.57
9873 14659 2.235016 GGTAAATGAGTGGTGGCACAA 58.765 47.619 20.82 4.91 44.16 3.33
9874 14660 2.228822 GGTAAATGAGTGGTGGCACAAG 59.771 50.000 20.82 0.00 44.16 3.16
9875 14661 1.331214 AAATGAGTGGTGGCACAAGG 58.669 50.000 20.82 0.00 44.16 3.61
9876 14662 0.540365 AATGAGTGGTGGCACAAGGG 60.540 55.000 20.82 0.00 44.16 3.95
9877 14663 1.426251 ATGAGTGGTGGCACAAGGGA 61.426 55.000 20.82 0.00 44.16 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
622 770 9.204337 TCTGTATCTCTACTTCTCTACTACTGT 57.796 37.037 0.00 0.00 0.00 3.55
639 787 9.388346 CGTCTGTATCTTGTTTATCTGTATCTC 57.612 37.037 0.00 0.00 0.00 2.75
640 788 9.121658 TCGTCTGTATCTTGTTTATCTGTATCT 57.878 33.333 0.00 0.00 0.00 1.98
641 789 9.171701 GTCGTCTGTATCTTGTTTATCTGTATC 57.828 37.037 0.00 0.00 0.00 2.24
642 790 8.136165 GGTCGTCTGTATCTTGTTTATCTGTAT 58.864 37.037 0.00 0.00 0.00 2.29
643 791 7.121611 TGGTCGTCTGTATCTTGTTTATCTGTA 59.878 37.037 0.00 0.00 0.00 2.74
644 792 6.071560 TGGTCGTCTGTATCTTGTTTATCTGT 60.072 38.462 0.00 0.00 0.00 3.41
645 793 6.330278 TGGTCGTCTGTATCTTGTTTATCTG 58.670 40.000 0.00 0.00 0.00 2.90
660 808 3.303229 GCTTTGTTTTGTTTGGTCGTCTG 59.697 43.478 0.00 0.00 0.00 3.51
665 813 2.857748 CGAGGCTTTGTTTTGTTTGGTC 59.142 45.455 0.00 0.00 0.00 4.02
686 834 1.302832 CACCCCAGTCTGGCTCAAC 60.303 63.158 13.99 0.00 35.79 3.18
696 844 2.038762 ACTTCCACCCACCCCAGT 60.039 61.111 0.00 0.00 0.00 4.00
710 858 1.140804 GCGTGTTTGGTTGCCACTT 59.859 52.632 0.00 0.00 30.78 3.16
735 883 0.602638 AGCGAGCGAACATTTGGTCA 60.603 50.000 10.78 0.00 38.65 4.02
767 928 1.541588 AGCGGAACTGATTGCCTTTTC 59.458 47.619 0.00 0.00 0.00 2.29
879 1046 4.966005 GCGAAAGGTTTGGCTTCC 57.034 55.556 2.52 0.00 38.61 3.46
917 1084 1.663739 GGGTTGGGTTCGGCTTTTC 59.336 57.895 0.00 0.00 0.00 2.29
918 1085 2.197605 CGGGTTGGGTTCGGCTTTT 61.198 57.895 0.00 0.00 0.00 2.27
919 1086 2.596338 CGGGTTGGGTTCGGCTTT 60.596 61.111 0.00 0.00 0.00 3.51
930 1097 3.615509 TTTCCTAGGGCGCGGGTTG 62.616 63.158 8.83 0.00 0.00 3.77
931 1098 2.814913 CTTTTCCTAGGGCGCGGGTT 62.815 60.000 8.83 0.00 0.00 4.11
932 1099 3.324108 TTTTCCTAGGGCGCGGGT 61.324 61.111 8.83 0.00 0.00 5.28
933 1100 2.513897 CTTTTCCTAGGGCGCGGG 60.514 66.667 8.83 0.00 0.00 6.13
934 1101 3.202706 GCTTTTCCTAGGGCGCGG 61.203 66.667 8.83 0.00 0.00 6.46
935 1102 3.202706 GGCTTTTCCTAGGGCGCG 61.203 66.667 9.46 0.00 0.00 6.86
936 1103 3.202706 CGGCTTTTCCTAGGGCGC 61.203 66.667 9.46 0.00 41.52 6.53
938 1105 1.030488 GGTTCGGCTTTTCCTAGGGC 61.030 60.000 9.46 3.85 0.00 5.19
939 1106 0.393944 GGGTTCGGCTTTTCCTAGGG 60.394 60.000 9.46 0.00 0.00 3.53
940 1107 0.326927 TGGGTTCGGCTTTTCCTAGG 59.673 55.000 0.82 0.82 0.00 3.02
941 1108 1.810755 GTTGGGTTCGGCTTTTCCTAG 59.189 52.381 0.00 0.00 0.00 3.02
942 1109 1.546099 GGTTGGGTTCGGCTTTTCCTA 60.546 52.381 0.00 0.00 0.00 2.94
943 1110 0.826256 GGTTGGGTTCGGCTTTTCCT 60.826 55.000 0.00 0.00 0.00 3.36
944 1111 1.663739 GGTTGGGTTCGGCTTTTCC 59.336 57.895 0.00 0.00 0.00 3.13
945 1112 0.826256 AGGGTTGGGTTCGGCTTTTC 60.826 55.000 0.00 0.00 0.00 2.29
1036 1204 2.519541 CATCTCCTCCTCCGCGGA 60.520 66.667 29.03 29.03 40.30 5.54
1334 1502 0.460284 ACTAGCACCGGCAAGAATCG 60.460 55.000 0.00 0.00 44.61 3.34
1450 1618 5.722021 TCTTGCACACTATAGACAACAGA 57.278 39.130 6.78 0.00 0.00 3.41
1616 1785 7.307455 GCATCTTACAAGCAGCCTAAACTATAC 60.307 40.741 0.00 0.00 0.00 1.47
1765 1938 9.868277 CAGACTAGACAAATCTAAGACAAGAAT 57.132 33.333 0.00 0.00 36.98 2.40
1837 2054 5.300539 ACATCTATCTACACTGTACAGCCAG 59.699 44.000 22.90 16.06 38.45 4.85
1920 2141 6.482641 CAGATCAGGATCAGTCAAACATAAGG 59.517 42.308 11.55 0.00 40.22 2.69
1942 2163 6.882610 AGAATACAAAAATGACACAGCAGA 57.117 33.333 0.00 0.00 0.00 4.26
2407 2631 7.584987 CCCGATGAACAATTAATCCATAGAAC 58.415 38.462 0.00 0.00 0.00 3.01
2741 6166 9.932207 TCAACTTCTTTTTGTCGGATAGTTATA 57.068 29.630 0.00 0.00 0.00 0.98
2815 6240 7.305418 CGAACAAGATTTCAAAGTTTACTGTGC 60.305 37.037 0.00 0.00 31.23 4.57
2919 6344 3.944015 GAGACAAGCCAGTATTGATTGCT 59.056 43.478 3.96 0.00 0.00 3.91
3227 6653 7.092079 TGTAACCTGCATGAATTTTCAGATTG 58.908 34.615 0.00 0.00 41.08 2.67
3260 6686 1.080093 CACGCCTTCTTACGGAGCA 60.080 57.895 0.00 0.00 0.00 4.26
3579 7006 8.898761 CACACATAATTGCCCTACAAATTAGTA 58.101 33.333 0.00 0.00 42.86 1.82
3770 7197 6.536582 TCTCATTCGAGAATCCTGATTTTGAC 59.463 38.462 0.00 0.00 45.47 3.18
4198 7786 5.931294 TGAAGGTACAGGACACAATAAACA 58.069 37.500 0.00 0.00 0.00 2.83
4230 7818 8.206189 AGTGAAAAATTTGTGAATCTGAACCAT 58.794 29.630 0.00 0.00 0.00 3.55
4275 7864 5.888161 AGAAACACACAAACTTCATCCTCTT 59.112 36.000 0.00 0.00 0.00 2.85
4277 7866 5.066505 ACAGAAACACACAAACTTCATCCTC 59.933 40.000 0.00 0.00 0.00 3.71
4278 7867 4.949856 ACAGAAACACACAAACTTCATCCT 59.050 37.500 0.00 0.00 0.00 3.24
4377 7974 8.674607 AGAAACTACTTCTGGTTTAAACACAAG 58.325 33.333 19.57 17.47 43.09 3.16
4799 8397 1.853963 ACTGCAGACGGATAAGGAGT 58.146 50.000 23.35 0.00 0.00 3.85
5208 8808 6.349280 GCACTAGCATCAGTTGTTTTTCCATA 60.349 38.462 0.00 0.00 41.58 2.74
5441 9041 5.449553 CCTAGGAGCACCTAATTTTTCCAT 58.550 41.667 11.31 0.00 46.59 3.41
5539 9139 2.584418 CTCATCGGCGCTGGAGTG 60.584 66.667 17.88 13.06 0.00 3.51
5674 9274 3.067091 CTGCAGCTCCTCCACTGT 58.933 61.111 0.00 0.00 36.26 3.55
5756 9356 7.455953 ACCATCTATGCTCTAATCTGAACCATA 59.544 37.037 0.00 0.00 0.00 2.74
6462 10062 5.782331 TGGATCCTCGAGAATAAGATGGATT 59.218 40.000 15.71 0.00 33.56 3.01
6661 10263 6.507958 TGTTATATACAGCAAGCAAGCAAA 57.492 33.333 3.19 0.00 36.85 3.68
6742 10344 8.801715 TTTAAGAAGAATTTGATGCACAAGAC 57.198 30.769 0.00 0.00 39.77 3.01
6992 10594 1.958579 AGCTGAAATTTGCTGCTGTCA 59.041 42.857 7.89 0.00 38.80 3.58
7555 11160 1.843992 CAGCGCCATTATTTTCTGCC 58.156 50.000 2.29 0.00 0.00 4.85
7838 11443 9.817809 TTATGCTTAGTTGACCTACTAAATGAG 57.182 33.333 5.78 0.00 39.43 2.90
7916 11521 5.928839 ACGCTGAGGTATCTTATTAGCAATG 59.071 40.000 0.00 0.00 0.00 2.82
7925 11530 5.401531 AAGTTTGACGCTGAGGTATCTTA 57.598 39.130 0.00 0.00 0.00 2.10
8059 11665 6.116126 ACGGAGGGATTAGAATTTGAGAAAG 58.884 40.000 0.00 0.00 0.00 2.62
8074 11680 5.190677 CCTTGTATACAAAAACGGAGGGAT 58.809 41.667 18.55 0.00 35.15 3.85
8313 11945 4.184079 AGCTGAAAATGTGGAAGCATTC 57.816 40.909 0.00 0.00 46.67 2.67
8314 11946 4.282703 AGAAGCTGAAAATGTGGAAGCATT 59.717 37.500 0.00 0.00 40.43 3.56
8315 11947 3.830755 AGAAGCTGAAAATGTGGAAGCAT 59.169 39.130 0.00 0.00 36.32 3.79
8316 11948 3.225104 AGAAGCTGAAAATGTGGAAGCA 58.775 40.909 0.00 0.00 36.32 3.91
8317 11949 3.930634 AGAAGCTGAAAATGTGGAAGC 57.069 42.857 0.00 0.00 0.00 3.86
8318 11950 5.707298 TCCTAAGAAGCTGAAAATGTGGAAG 59.293 40.000 0.00 0.00 0.00 3.46
8319 11951 5.473504 GTCCTAAGAAGCTGAAAATGTGGAA 59.526 40.000 0.00 0.00 0.00 3.53
8321 11953 5.006386 AGTCCTAAGAAGCTGAAAATGTGG 58.994 41.667 0.00 0.00 0.00 4.17
8322 11954 6.348868 GGAAGTCCTAAGAAGCTGAAAATGTG 60.349 42.308 0.00 0.00 0.00 3.21
8323 11955 5.707764 GGAAGTCCTAAGAAGCTGAAAATGT 59.292 40.000 0.00 0.00 0.00 2.71
8324 11956 5.707298 TGGAAGTCCTAAGAAGCTGAAAATG 59.293 40.000 0.00 0.00 36.82 2.32
8325 11957 5.880901 TGGAAGTCCTAAGAAGCTGAAAAT 58.119 37.500 0.00 0.00 36.82 1.82
8329 11961 3.904339 AGTTGGAAGTCCTAAGAAGCTGA 59.096 43.478 0.00 0.00 36.82 4.26
8330 11962 4.278975 AGTTGGAAGTCCTAAGAAGCTG 57.721 45.455 0.00 0.00 36.82 4.24
8460 12114 7.329717 ACGAGATTGAAAGAGCAACTAAGTAAG 59.670 37.037 0.00 0.00 0.00 2.34
8461 12115 7.152645 ACGAGATTGAAAGAGCAACTAAGTAA 58.847 34.615 0.00 0.00 0.00 2.24
8462 12116 6.688578 ACGAGATTGAAAGAGCAACTAAGTA 58.311 36.000 0.00 0.00 0.00 2.24
8463 12117 5.542779 ACGAGATTGAAAGAGCAACTAAGT 58.457 37.500 0.00 0.00 0.00 2.24
8505 12553 2.425143 AGGCAGCATAGCTAGCAAAA 57.575 45.000 18.83 1.78 36.40 2.44
8617 12670 7.148239 GGCAAATAAATAGCTCTACAACACAGT 60.148 37.037 0.00 0.00 0.00 3.55
8618 12671 7.066284 AGGCAAATAAATAGCTCTACAACACAG 59.934 37.037 0.00 0.00 0.00 3.66
8667 12721 5.470777 CACAAAATACAACTCCCCGTTAGAA 59.529 40.000 0.00 0.00 33.63 2.10
8673 12727 1.883275 TGCACAAAATACAACTCCCCG 59.117 47.619 0.00 0.00 0.00 5.73
9107 13162 0.166814 CAAGCAAACCTACGCTCTGC 59.833 55.000 0.00 0.00 37.54 4.26
9540 13851 8.034313 TCTCCTAGTCCTACCGTATAACTTAA 57.966 38.462 0.00 0.00 0.00 1.85
9541 13852 7.618019 TCTCCTAGTCCTACCGTATAACTTA 57.382 40.000 0.00 0.00 0.00 2.24
9675 14461 9.475505 CCGTATTATTGCAATTTTGTGATTTTG 57.524 29.630 18.75 0.00 0.00 2.44
9681 14467 6.096036 TCCACCGTATTATTGCAATTTTGTG 58.904 36.000 18.75 14.99 0.00 3.33
9695 14481 4.205587 AGATACGAGAACTCCACCGTATT 58.794 43.478 0.00 0.00 44.86 1.89
9701 14487 5.717119 TGGTTTTAGATACGAGAACTCCAC 58.283 41.667 0.00 0.00 0.00 4.02
9722 14508 1.202417 AGATACGCGAACTCCACATGG 60.202 52.381 15.93 0.00 0.00 3.66
9723 14509 2.209838 AGATACGCGAACTCCACATG 57.790 50.000 15.93 0.00 0.00 3.21
9724 14510 4.380841 TTTAGATACGCGAACTCCACAT 57.619 40.909 15.93 0.00 0.00 3.21
9725 14511 3.853831 TTTAGATACGCGAACTCCACA 57.146 42.857 15.93 0.00 0.00 4.17
9726 14512 3.305361 GGTTTTAGATACGCGAACTCCAC 59.695 47.826 15.93 6.37 0.00 4.02
9727 14513 3.056678 TGGTTTTAGATACGCGAACTCCA 60.057 43.478 15.93 9.23 0.00 3.86
9728 14514 3.514645 TGGTTTTAGATACGCGAACTCC 58.485 45.455 15.93 6.77 0.00 3.85
9729 14515 4.565564 ACATGGTTTTAGATACGCGAACTC 59.434 41.667 15.93 6.13 0.00 3.01
9730 14516 4.328983 CACATGGTTTTAGATACGCGAACT 59.671 41.667 15.93 11.37 0.00 3.01
9731 14517 4.493545 CCACATGGTTTTAGATACGCGAAC 60.494 45.833 15.93 4.28 0.00 3.95
9732 14518 3.619483 CCACATGGTTTTAGATACGCGAA 59.381 43.478 15.93 0.00 0.00 4.70
9733 14519 3.191669 CCACATGGTTTTAGATACGCGA 58.808 45.455 15.93 0.00 0.00 5.87
9734 14520 3.585748 CCACATGGTTTTAGATACGCG 57.414 47.619 3.53 3.53 0.00 6.01
9779 14565 2.515641 GTGACATGCACATCGACAAG 57.484 50.000 13.27 0.00 46.91 3.16
9825 14611 7.721399 ACACCAAAGATAAGAAGAAACAGATGT 59.279 33.333 0.00 0.00 0.00 3.06
9826 14612 8.103948 ACACCAAAGATAAGAAGAAACAGATG 57.896 34.615 0.00 0.00 0.00 2.90
9827 14613 7.118390 CGACACCAAAGATAAGAAGAAACAGAT 59.882 37.037 0.00 0.00 0.00 2.90
9828 14614 6.423905 CGACACCAAAGATAAGAAGAAACAGA 59.576 38.462 0.00 0.00 0.00 3.41
9829 14615 6.347725 CCGACACCAAAGATAAGAAGAAACAG 60.348 42.308 0.00 0.00 0.00 3.16
9830 14616 5.468746 CCGACACCAAAGATAAGAAGAAACA 59.531 40.000 0.00 0.00 0.00 2.83
9831 14617 5.469084 ACCGACACCAAAGATAAGAAGAAAC 59.531 40.000 0.00 0.00 0.00 2.78
9832 14618 5.617252 ACCGACACCAAAGATAAGAAGAAA 58.383 37.500 0.00 0.00 0.00 2.52
9833 14619 5.223449 ACCGACACCAAAGATAAGAAGAA 57.777 39.130 0.00 0.00 0.00 2.52
9834 14620 4.884668 ACCGACACCAAAGATAAGAAGA 57.115 40.909 0.00 0.00 0.00 2.87
9835 14621 7.333423 TCATTTACCGACACCAAAGATAAGAAG 59.667 37.037 0.00 0.00 0.00 2.85
9836 14622 7.162761 TCATTTACCGACACCAAAGATAAGAA 58.837 34.615 0.00 0.00 0.00 2.52
9837 14623 6.703319 TCATTTACCGACACCAAAGATAAGA 58.297 36.000 0.00 0.00 0.00 2.10
9838 14624 6.594159 ACTCATTTACCGACACCAAAGATAAG 59.406 38.462 0.00 0.00 0.00 1.73
9839 14625 6.370442 CACTCATTTACCGACACCAAAGATAA 59.630 38.462 0.00 0.00 0.00 1.75
9840 14626 5.872617 CACTCATTTACCGACACCAAAGATA 59.127 40.000 0.00 0.00 0.00 1.98
9841 14627 4.695455 CACTCATTTACCGACACCAAAGAT 59.305 41.667 0.00 0.00 0.00 2.40
9842 14628 4.062293 CACTCATTTACCGACACCAAAGA 58.938 43.478 0.00 0.00 0.00 2.52
9843 14629 3.188460 CCACTCATTTACCGACACCAAAG 59.812 47.826 0.00 0.00 0.00 2.77
9844 14630 3.142951 CCACTCATTTACCGACACCAAA 58.857 45.455 0.00 0.00 0.00 3.28
9845 14631 2.105134 ACCACTCATTTACCGACACCAA 59.895 45.455 0.00 0.00 0.00 3.67
9846 14632 1.695242 ACCACTCATTTACCGACACCA 59.305 47.619 0.00 0.00 0.00 4.17
9847 14633 2.073816 CACCACTCATTTACCGACACC 58.926 52.381 0.00 0.00 0.00 4.16
9848 14634 2.073816 CCACCACTCATTTACCGACAC 58.926 52.381 0.00 0.00 0.00 3.67
9849 14635 1.609580 GCCACCACTCATTTACCGACA 60.610 52.381 0.00 0.00 0.00 4.35
9850 14636 1.084289 GCCACCACTCATTTACCGAC 58.916 55.000 0.00 0.00 0.00 4.79
9851 14637 0.687920 TGCCACCACTCATTTACCGA 59.312 50.000 0.00 0.00 0.00 4.69
9852 14638 0.802494 GTGCCACCACTCATTTACCG 59.198 55.000 0.00 0.00 38.93 4.02
9853 14639 1.904287 TGTGCCACCACTCATTTACC 58.096 50.000 0.00 0.00 42.54 2.85
9854 14640 2.228822 CCTTGTGCCACCACTCATTTAC 59.771 50.000 0.00 0.00 42.54 2.01
9855 14641 2.513753 CCTTGTGCCACCACTCATTTA 58.486 47.619 0.00 0.00 42.54 1.40
9856 14642 1.331214 CCTTGTGCCACCACTCATTT 58.669 50.000 0.00 0.00 42.54 2.32
9857 14643 0.540365 CCCTTGTGCCACCACTCATT 60.540 55.000 0.00 0.00 42.54 2.57
9858 14644 1.075482 CCCTTGTGCCACCACTCAT 59.925 57.895 0.00 0.00 42.54 2.90
9859 14645 2.075566 TCCCTTGTGCCACCACTCA 61.076 57.895 0.00 0.00 42.54 3.41
9860 14646 2.836154 TCCCTTGTGCCACCACTC 59.164 61.111 0.00 0.00 42.54 3.51


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

AutoCloner maintained by Alex Coulton.