Multiple sequence alignment - TraesCS7B01G446700

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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 TraesCS7B01G446700 chr7B 100.000 5113 0 0 1 5113 709593619 709588507 0.000000e+00 9443.0
1 TraesCS7B01G446700 chr7B 87.237 1857 149 50 1606 3444 709530706 709528920 0.000000e+00 2036.0
2 TraesCS7B01G446700 chr7B 85.631 1204 145 18 1725 2916 709515672 709514485 0.000000e+00 1240.0
3 TraesCS7B01G446700 chr7B 84.061 985 115 21 2191 3155 711205584 711206546 0.000000e+00 911.0
4 TraesCS7B01G446700 chr7B 82.343 572 74 17 2889 3453 709514438 709513887 5.990000e-129 472.0
5 TraesCS7B01G446700 chr7B 87.654 162 16 2 1147 1308 709531109 709530952 8.740000e-43 185.0
6 TraesCS7B01G446700 chr7B 87.261 157 9 9 4548 4696 709527568 709527415 8.800000e-38 169.0
7 TraesCS7B01G446700 chr7B 84.337 166 14 8 4769 4922 709527412 709527247 8.870000e-33 152.0
8 TraesCS7B01G446700 chr7B 80.851 141 18 5 1173 1307 709607870 709607733 9.060000e-18 102.0
9 TraesCS7B01G446700 chr7B 93.333 45 3 0 1158 1202 709516645 709516601 3.300000e-07 67.6
10 TraesCS7B01G446700 chr7B 95.000 40 2 0 3749 3788 711207281 711207320 4.270000e-06 63.9
11 TraesCS7B01G446700 chr7B 75.912 137 20 8 3601 3731 711207097 711207226 1.990000e-04 58.4
12 TraesCS7B01G446700 chr7A 89.023 2241 169 40 1606 3819 709285798 709283608 0.000000e+00 2704.0
13 TraesCS7B01G446700 chr7A 84.560 1807 216 41 1662 3436 709755235 709757010 0.000000e+00 1733.0
14 TraesCS7B01G446700 chr7A 81.126 1510 220 37 1919 3388 709265468 709263984 0.000000e+00 1149.0
15 TraesCS7B01G446700 chr7A 90.141 639 52 7 3901 4534 709283576 709282944 0.000000e+00 821.0
16 TraesCS7B01G446700 chr7A 88.434 562 27 19 4571 5108 709299121 709298574 1.200000e-180 643.0
17 TraesCS7B01G446700 chr7A 89.784 509 39 4 3696 4203 709299756 709299260 1.550000e-179 640.0
18 TraesCS7B01G446700 chr7A 88.274 307 22 8 3376 3669 709300058 709299753 6.300000e-94 355.0
19 TraesCS7B01G446700 chr7A 84.247 292 32 11 4541 4823 709282816 709282530 6.520000e-69 272.0
20 TraesCS7B01G446700 chr7A 81.553 309 37 10 1615 1917 709265803 709265509 2.380000e-58 237.0
21 TraesCS7B01G446700 chr7A 81.447 318 19 18 4824 5108 709282460 709282150 1.850000e-54 224.0
22 TraesCS7B01G446700 chr7A 91.667 72 6 0 1239 1310 709392764 709392693 3.260000e-17 100.0
23 TraesCS7B01G446700 chr7A 78.286 175 16 14 3574 3734 709757157 709757323 5.450000e-15 93.5
24 TraesCS7B01G446700 chr7A 82.857 105 14 4 687 790 671142385 671142284 1.960000e-14 91.6
25 TraesCS7B01G446700 chr7D 93.109 1727 93 19 1724 3437 616276416 616274703 0.000000e+00 2507.0
26 TraesCS7B01G446700 chr7D 83.024 2427 306 64 1059 3436 617027166 617029535 0.000000e+00 2102.0
27 TraesCS7B01G446700 chr7D 89.713 1604 114 26 1992 3554 616331549 616329956 0.000000e+00 2001.0
28 TraesCS7B01G446700 chr7D 81.535 1511 222 34 1919 3388 616220146 616221640 0.000000e+00 1192.0
29 TraesCS7B01G446700 chr7D 81.340 1463 218 28 1738 3153 616257557 616256103 0.000000e+00 1138.0
30 TraesCS7B01G446700 chr7D 89.127 699 25 15 1 649 616278502 616277805 0.000000e+00 822.0
31 TraesCS7B01G446700 chr7D 90.878 581 27 11 4541 5112 616314449 616313886 0.000000e+00 756.0
32 TraesCS7B01G446700 chr7D 91.706 422 22 5 1054 1467 616277012 616276596 1.600000e-159 573.0
33 TraesCS7B01G446700 chr7D 90.887 406 33 3 3 405 616370208 616369804 4.500000e-150 542.0
34 TraesCS7B01G446700 chr7D 86.463 458 41 9 1108 1551 616333803 616333353 2.770000e-132 483.0
35 TraesCS7B01G446700 chr7D 82.278 553 61 21 3 522 616430483 616429935 1.310000e-120 444.0
36 TraesCS7B01G446700 chr7D 91.331 323 21 2 1662 1984 616333310 616332995 7.860000e-118 435.0
37 TraesCS7B01G446700 chr7D 85.672 335 35 9 4010 4338 616316897 616316570 1.760000e-89 340.0
38 TraesCS7B01G446700 chr7D 87.649 251 17 4 4872 5108 616273467 616273217 3.900000e-71 279.0
39 TraesCS7B01G446700 chr7D 83.180 327 26 10 723 1049 616277542 616277245 6.520000e-69 272.0
40 TraesCS7B01G446700 chr7D 86.066 244 27 4 3559 3796 616317157 616316915 6.570000e-64 255.0
41 TraesCS7B01G446700 chr7D 86.667 240 18 9 4567 4796 616273832 616273597 2.360000e-63 254.0
42 TraesCS7B01G446700 chr7D 85.845 219 25 4 4606 4823 616316043 616315830 1.430000e-55 228.0
43 TraesCS7B01G446700 chr7D 84.388 237 18 8 4872 5108 616315698 616315481 1.110000e-51 215.0
44 TraesCS7B01G446700 chr7D 79.683 315 44 10 1606 1914 616219802 616220102 5.190000e-50 209.0
45 TraesCS7B01G446700 chr7D 85.821 134 16 1 1173 1306 616258025 616257895 6.900000e-29 139.0
46 TraesCS7B01G446700 chr7D 78.378 148 16 10 3601 3734 617029727 617029872 1.180000e-11 82.4
47 TraesCS7B01G446700 chr7D 77.333 150 18 9 3600 3734 616274524 616274376 1.970000e-09 75.0
48 TraesCS7B01G446700 chr1D 85.064 2176 238 49 1115 3272 408625398 408627504 0.000000e+00 2137.0
49 TraesCS7B01G446700 chr1D 79.525 1558 237 45 1919 3436 486240627 486242142 0.000000e+00 1035.0
50 TraesCS7B01G446700 chr1D 81.671 371 39 17 39 405 408620357 408620702 1.080000e-71 281.0
51 TraesCS7B01G446700 chr1B 79.795 1559 232 48 1919 3436 677254881 677256397 0.000000e+00 1057.0
52 TraesCS7B01G446700 chr1A 79.008 1572 251 46 1919 3453 583924637 583926166 0.000000e+00 1002.0
53 TraesCS7B01G446700 chrUn 80.251 319 29 18 1076 1373 29741525 29741830 5.190000e-50 209.0
54 TraesCS7B01G446700 chr4B 88.462 78 4 2 1295 1372 667921142 667921070 7.050000e-14 89.8
55 TraesCS7B01G446700 chr2D 81.373 102 13 5 692 790 485455820 485455918 1.530000e-10 78.7
56 TraesCS7B01G446700 chr2D 87.719 57 4 3 673 727 642134291 642134346 4.270000e-06 63.9
57 TraesCS7B01G446700 chr3D 91.071 56 4 1 687 742 153174571 153174517 1.970000e-09 75.0
58 TraesCS7B01G446700 chr5A 77.778 117 23 3 677 790 341949348 341949464 9.190000e-08 69.4
59 TraesCS7B01G446700 chr3B 77.586 116 22 4 678 790 726479148 726479262 3.300000e-07 67.6
60 TraesCS7B01G446700 chr3B 88.679 53 4 2 679 730 748457484 748457433 4.270000e-06 63.9
61 TraesCS7B01G446700 chr6B 89.091 55 2 3 673 727 29990725 29990775 1.190000e-06 65.8
62 TraesCS7B01G446700 chr3A 77.049 122 21 6 672 790 670851321 670851204 4.270000e-06 63.9


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 TraesCS7B01G446700 chr7B 709588507 709593619 5112 True 9443.000000 9443 100.000000 1 5113 1 chr7B.!!$R1 5112
1 TraesCS7B01G446700 chr7B 709527247 709531109 3862 True 635.500000 2036 86.622250 1147 4922 4 chr7B.!!$R4 3775
2 TraesCS7B01G446700 chr7B 709513887 709516645 2758 True 593.200000 1240 87.102333 1158 3453 3 chr7B.!!$R3 2295
3 TraesCS7B01G446700 chr7B 711205584 711207320 1736 False 344.433333 911 84.991000 2191 3788 3 chr7B.!!$F1 1597
4 TraesCS7B01G446700 chr7A 709282150 709285798 3648 True 1005.250000 2704 86.214500 1606 5108 4 chr7A.!!$R4 3502
5 TraesCS7B01G446700 chr7A 709755235 709757323 2088 False 913.250000 1733 81.423000 1662 3734 2 chr7A.!!$F1 2072
6 TraesCS7B01G446700 chr7A 709263984 709265803 1819 True 693.000000 1149 81.339500 1615 3388 2 chr7A.!!$R3 1773
7 TraesCS7B01G446700 chr7A 709298574 709300058 1484 True 546.000000 643 88.830667 3376 5108 3 chr7A.!!$R5 1732
8 TraesCS7B01G446700 chr7D 617027166 617029872 2706 False 1092.200000 2102 80.701000 1059 3734 2 chr7D.!!$F2 2675
9 TraesCS7B01G446700 chr7D 616329956 616333803 3847 True 973.000000 2001 89.169000 1108 3554 3 chr7D.!!$R6 2446
10 TraesCS7B01G446700 chr7D 616219802 616221640 1838 False 700.500000 1192 80.609000 1606 3388 2 chr7D.!!$F1 1782
11 TraesCS7B01G446700 chr7D 616273217 616278502 5285 True 683.142857 2507 86.967286 1 5108 7 chr7D.!!$R4 5107
12 TraesCS7B01G446700 chr7D 616256103 616258025 1922 True 638.500000 1138 83.580500 1173 3153 2 chr7D.!!$R3 1980
13 TraesCS7B01G446700 chr7D 616429935 616430483 548 True 444.000000 444 82.278000 3 522 1 chr7D.!!$R2 519
14 TraesCS7B01G446700 chr7D 616313886 616317157 3271 True 358.800000 756 86.569800 3559 5112 5 chr7D.!!$R5 1553
15 TraesCS7B01G446700 chr1D 408625398 408627504 2106 False 2137.000000 2137 85.064000 1115 3272 1 chr1D.!!$F2 2157
16 TraesCS7B01G446700 chr1D 486240627 486242142 1515 False 1035.000000 1035 79.525000 1919 3436 1 chr1D.!!$F3 1517
17 TraesCS7B01G446700 chr1B 677254881 677256397 1516 False 1057.000000 1057 79.795000 1919 3436 1 chr1B.!!$F1 1517
18 TraesCS7B01G446700 chr1A 583924637 583926166 1529 False 1002.000000 1002 79.008000 1919 3453 1 chr1A.!!$F1 1534

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
656 726 0.101219 GCCGCCATTTGGAATCAGAC 59.899 55.000 0.00 0.0 37.39 3.51 F
673 743 0.250338 GACATCCCCTCGTATTGGCC 60.250 60.000 0.00 0.0 0.00 5.36 F
908 1167 0.258774 GCCCAGATCTAGGCCCAAAA 59.741 55.000 20.41 0.0 43.76 2.44 F
1133 1623 0.461548 TCTGACAGATCCACCGATGC 59.538 55.000 0.00 0.0 0.00 3.91 F
2345 5003 1.153168 ATCGGGTGCTATGGTGTGC 60.153 57.895 0.00 0.0 0.00 4.57 F
3557 6461 0.254747 TTATTTCTCCTGGTGCCCCG 59.745 55.000 0.00 0.0 0.00 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1514 2521 1.065709 TGACCTAAAACATCGAGCCCC 60.066 52.381 0.00 0.0 0.00 5.80 R
2582 5255 2.095768 TGAAAGCTTGCAGATGTAACGC 60.096 45.455 1.85 0.0 0.00 4.84 R
2759 5440 6.603237 TTAATTGACAAGTCATATGCCTCG 57.397 37.500 3.43 0.0 39.64 4.63 R
2960 5722 4.842531 TCATCTCCATTGGAAGCTTGTA 57.157 40.909 2.10 0.0 0.00 2.41 R
4086 8820 0.764369 TGGTGCTGAAGAGACCCTGT 60.764 55.000 0.00 0.0 0.00 4.00 R
4518 9672 0.318441 TGCTCCTCCTCGTCTTTGTG 59.682 55.000 0.00 0.0 0.00 3.33 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
417 452 6.724893 TTGATAGATATCAAGACCGACCAA 57.275 37.500 10.51 0.00 45.03 3.67
455 498 7.892609 TGAATAGAGTGTGTATGCGGTATATT 58.107 34.615 0.00 0.00 0.00 1.28
482 525 6.209361 ACATGCACGAGTGTCTATAATACAG 58.791 40.000 5.07 0.00 0.00 2.74
635 705 0.315251 GGCTTTTGGGACTCTGCAAC 59.685 55.000 0.00 0.00 0.00 4.17
645 715 2.282391 TCTGCAACTGCCGCCATT 60.282 55.556 0.00 0.00 41.18 3.16
649 719 2.929903 GCAACTGCCGCCATTTGGA 61.930 57.895 0.00 0.00 33.60 3.53
650 720 1.664873 CAACTGCCGCCATTTGGAA 59.335 52.632 0.00 0.00 37.39 3.53
651 721 0.247185 CAACTGCCGCCATTTGGAAT 59.753 50.000 0.00 0.00 37.39 3.01
652 722 0.532115 AACTGCCGCCATTTGGAATC 59.468 50.000 0.00 0.00 37.39 2.52
653 723 0.611618 ACTGCCGCCATTTGGAATCA 60.612 50.000 0.00 0.00 37.39 2.57
654 724 0.101759 CTGCCGCCATTTGGAATCAG 59.898 55.000 0.00 0.00 37.39 2.90
655 725 0.323269 TGCCGCCATTTGGAATCAGA 60.323 50.000 0.00 0.00 37.39 3.27
656 726 0.101219 GCCGCCATTTGGAATCAGAC 59.899 55.000 0.00 0.00 37.39 3.51
657 727 1.462616 CCGCCATTTGGAATCAGACA 58.537 50.000 0.00 0.00 37.39 3.41
658 728 2.026641 CCGCCATTTGGAATCAGACAT 58.973 47.619 0.00 0.00 37.39 3.06
659 729 2.033801 CCGCCATTTGGAATCAGACATC 59.966 50.000 0.00 0.00 37.39 3.06
660 730 2.033801 CGCCATTTGGAATCAGACATCC 59.966 50.000 0.00 0.00 37.39 3.51
661 731 2.363359 GCCATTTGGAATCAGACATCCC 59.637 50.000 0.00 0.00 37.39 3.85
662 732 2.961062 CCATTTGGAATCAGACATCCCC 59.039 50.000 2.30 0.00 37.39 4.81
663 733 3.373438 CCATTTGGAATCAGACATCCCCT 60.373 47.826 2.30 0.00 37.39 4.79
664 734 3.652057 TTTGGAATCAGACATCCCCTC 57.348 47.619 2.30 0.00 34.68 4.30
665 735 1.123077 TGGAATCAGACATCCCCTCG 58.877 55.000 2.30 0.00 34.68 4.63
666 736 1.123928 GGAATCAGACATCCCCTCGT 58.876 55.000 0.00 0.00 0.00 4.18
667 737 2.317040 GGAATCAGACATCCCCTCGTA 58.683 52.381 0.00 0.00 0.00 3.43
668 738 2.900546 GGAATCAGACATCCCCTCGTAT 59.099 50.000 0.00 0.00 0.00 3.06
669 739 3.325135 GGAATCAGACATCCCCTCGTATT 59.675 47.826 0.00 0.00 0.00 1.89
670 740 4.310769 GAATCAGACATCCCCTCGTATTG 58.689 47.826 0.00 0.00 0.00 1.90
671 741 2.039418 TCAGACATCCCCTCGTATTGG 58.961 52.381 0.00 0.00 0.00 3.16
672 742 0.759346 AGACATCCCCTCGTATTGGC 59.241 55.000 0.00 0.00 0.00 4.52
673 743 0.250338 GACATCCCCTCGTATTGGCC 60.250 60.000 0.00 0.00 0.00 5.36
674 744 1.073199 CATCCCCTCGTATTGGCCC 59.927 63.158 0.00 0.00 0.00 5.80
675 745 2.154074 ATCCCCTCGTATTGGCCCC 61.154 63.158 0.00 0.00 0.00 5.80
676 746 4.250305 CCCCTCGTATTGGCCCCG 62.250 72.222 0.00 0.00 0.00 5.73
677 747 4.929707 CCCTCGTATTGGCCCCGC 62.930 72.222 0.00 0.00 0.00 6.13
678 748 3.861797 CCTCGTATTGGCCCCGCT 61.862 66.667 0.00 0.00 0.00 5.52
679 749 2.280186 CTCGTATTGGCCCCGCTC 60.280 66.667 0.00 0.00 0.00 5.03
680 750 3.809374 CTCGTATTGGCCCCGCTCC 62.809 68.421 0.00 0.00 0.00 4.70
681 751 4.929707 CGTATTGGCCCCGCTCCC 62.930 72.222 0.00 0.00 0.00 4.30
682 752 4.581093 GTATTGGCCCCGCTCCCC 62.581 72.222 0.00 0.00 0.00 4.81
690 760 3.925090 CCCGCTCCCCCATCGTAC 61.925 72.222 0.00 0.00 0.00 3.67
691 761 3.925090 CCGCTCCCCCATCGTACC 61.925 72.222 0.00 0.00 0.00 3.34
692 762 3.925090 CGCTCCCCCATCGTACCC 61.925 72.222 0.00 0.00 0.00 3.69
693 763 3.557290 GCTCCCCCATCGTACCCC 61.557 72.222 0.00 0.00 0.00 4.95
694 764 3.231736 CTCCCCCATCGTACCCCG 61.232 72.222 0.00 0.00 38.13 5.73
699 769 4.524318 CCATCGTACCCCGCGCTT 62.524 66.667 5.56 0.00 36.19 4.68
700 770 2.960129 CATCGTACCCCGCGCTTC 60.960 66.667 5.56 0.00 36.19 3.86
701 771 4.564116 ATCGTACCCCGCGCTTCG 62.564 66.667 5.56 0.52 36.19 3.79
749 1008 2.039624 TCTCTGCCCCACCTCTCC 59.960 66.667 0.00 0.00 0.00 3.71
756 1015 2.760385 CCCACCTCTCCGACCTCC 60.760 72.222 0.00 0.00 0.00 4.30
759 1018 2.361357 ACCTCTCCGACCTCCGTG 60.361 66.667 0.00 0.00 36.31 4.94
761 1020 2.045242 CTCTCCGACCTCCGTGGA 60.045 66.667 0.00 0.00 39.71 4.02
762 1021 2.360852 TCTCCGACCTCCGTGGAC 60.361 66.667 0.00 0.00 39.71 4.02
774 1033 2.125225 GTGGACCCCCTCCCTCTT 59.875 66.667 0.00 0.00 38.49 2.85
811 1070 4.284550 GCAGGTGGGCTTGGTGGA 62.285 66.667 0.00 0.00 0.00 4.02
828 1087 3.005539 AGGTGTGGCTCGGCTGAT 61.006 61.111 0.00 0.00 0.00 2.90
830 1089 2.265739 GTGTGGCTCGGCTGATGA 59.734 61.111 0.00 0.00 0.00 2.92
839 1098 3.567797 GGCTGATGACGCTTCGGC 61.568 66.667 14.11 14.11 43.37 5.54
862 1121 4.473520 CTGGATGGCGCTTCGGGT 62.474 66.667 7.64 0.00 0.00 5.28
863 1122 4.776322 TGGATGGCGCTTCGGGTG 62.776 66.667 7.64 0.00 0.00 4.61
906 1165 3.660724 GCCCAGATCTAGGCCCAA 58.339 61.111 20.41 0.00 43.76 4.12
907 1166 1.922821 GCCCAGATCTAGGCCCAAA 59.077 57.895 20.41 0.00 43.76 3.28
908 1167 0.258774 GCCCAGATCTAGGCCCAAAA 59.741 55.000 20.41 0.00 43.76 2.44
944 1203 4.043100 GGCGGGCCAGTTAGGGTT 62.043 66.667 4.39 0.00 38.09 4.11
945 1204 2.750237 GCGGGCCAGTTAGGGTTG 60.750 66.667 4.39 0.00 38.09 3.77
946 1205 2.754375 CGGGCCAGTTAGGGTTGT 59.246 61.111 4.39 0.00 38.09 3.32
947 1206 1.674322 CGGGCCAGTTAGGGTTGTG 60.674 63.158 4.39 0.00 38.09 3.33
948 1207 1.765074 GGGCCAGTTAGGGTTGTGA 59.235 57.895 4.39 0.00 38.09 3.58
949 1208 0.608308 GGGCCAGTTAGGGTTGTGAC 60.608 60.000 4.39 0.00 38.09 3.67
1017 1276 4.019321 GGGGGTATGTATGCAGTGATATGT 60.019 45.833 0.00 0.00 0.00 2.29
1049 1308 5.341617 TCCACGTTGTAATGGTTGTTTTTC 58.658 37.500 0.00 0.00 37.27 2.29
1051 1310 5.004916 CCACGTTGTAATGGTTGTTTTTCAC 59.995 40.000 0.00 0.00 0.00 3.18
1052 1311 5.802956 CACGTTGTAATGGTTGTTTTTCACT 59.197 36.000 0.00 0.00 0.00 3.41
1057 1544 9.659830 GTTGTAATGGTTGTTTTTCACTACTAG 57.340 33.333 0.00 0.00 32.23 2.57
1086 1573 3.895656 AGAAGGTAAGCTGCGGTATCATA 59.104 43.478 0.00 0.00 0.00 2.15
1088 1575 2.299297 AGGTAAGCTGCGGTATCATACC 59.701 50.000 3.37 3.37 45.52 2.73
1101 1590 2.777459 TCATACCCTCCCTCTCCTTC 57.223 55.000 0.00 0.00 0.00 3.46
1102 1591 2.227703 TCATACCCTCCCTCTCCTTCT 58.772 52.381 0.00 0.00 0.00 2.85
1133 1623 0.461548 TCTGACAGATCCACCGATGC 59.538 55.000 0.00 0.00 0.00 3.91
1204 1696 1.203441 AGCAGCCCATGGAAGAGACA 61.203 55.000 15.22 0.00 0.00 3.41
1428 2411 1.450312 CACGGATCTGAACCCCTGC 60.450 63.158 9.00 0.00 0.00 4.85
1499 2482 7.373617 TCAGCTATTACCCACTTCATGATTA 57.626 36.000 0.00 0.00 0.00 1.75
1502 2509 8.509690 CAGCTATTACCCACTTCATGATTATTG 58.490 37.037 0.00 0.00 0.00 1.90
1598 2609 8.432805 TCTTTCCTAGAAATATCATCAAGGACC 58.567 37.037 0.00 0.00 0.00 4.46
1599 2610 7.690454 TTCCTAGAAATATCATCAAGGACCA 57.310 36.000 0.00 0.00 0.00 4.02
1600 2611 7.308450 TCCTAGAAATATCATCAAGGACCAG 57.692 40.000 0.00 0.00 0.00 4.00
1601 2612 7.075797 TCCTAGAAATATCATCAAGGACCAGA 58.924 38.462 0.00 0.00 0.00 3.86
1603 2614 8.381636 CCTAGAAATATCATCAAGGACCAGATT 58.618 37.037 0.00 0.00 0.00 2.40
1604 2615 9.790344 CTAGAAATATCATCAAGGACCAGATTT 57.210 33.333 0.00 0.00 0.00 2.17
1660 2780 9.412460 AGATTTCTCTTCCAAAATATATGCACA 57.588 29.630 0.00 0.00 0.00 4.57
1680 2802 4.692155 CACATTCAGCTCATTGTGTCTACA 59.308 41.667 4.63 0.00 35.79 2.74
1698 2820 5.047519 GTCTACAGGTGGCAGTTAGTTCTAA 60.048 44.000 0.00 0.00 0.00 2.10
1865 2999 5.192927 GTGATCTATGTTTTGATGGTCCCA 58.807 41.667 0.00 0.00 0.00 4.37
1866 3000 5.066505 GTGATCTATGTTTTGATGGTCCCAC 59.933 44.000 0.00 0.00 0.00 4.61
2241 4899 7.934120 AGGAATATCTGGCTTTACAATACTCAC 59.066 37.037 0.00 0.00 0.00 3.51
2345 5003 1.153168 ATCGGGTGCTATGGTGTGC 60.153 57.895 0.00 0.00 0.00 4.57
2483 5150 3.506455 GCGAGTGATCCCTATAGTGCTTA 59.494 47.826 0.00 0.00 0.00 3.09
2498 5165 3.568007 AGTGCTTAATGGTTGCTCGAAAA 59.432 39.130 0.00 0.00 0.00 2.29
2582 5255 2.409975 CAAGCATTTTGCCAGTGAAGG 58.590 47.619 0.00 0.00 46.52 3.46
2637 5314 3.070018 CACAGGTTAGCTGGTCTTTCTG 58.930 50.000 16.05 0.00 0.00 3.02
2975 5745 4.520492 AGTTTGACTACAAGCTTCCAATGG 59.480 41.667 0.00 0.00 43.10 3.16
3455 6324 5.712152 ATTCAGGACTTTGTGCCTTTTAG 57.288 39.130 0.00 0.00 30.41 1.85
3462 6331 1.327303 TTGTGCCTTTTAGTGCCTGG 58.673 50.000 0.00 0.00 0.00 4.45
3463 6332 0.539438 TGTGCCTTTTAGTGCCTGGG 60.539 55.000 0.00 0.00 0.00 4.45
3464 6333 1.076549 TGCCTTTTAGTGCCTGGGG 59.923 57.895 0.00 0.00 0.00 4.96
3465 6334 1.382629 GCCTTTTAGTGCCTGGGGA 59.617 57.895 0.00 0.00 0.00 4.81
3470 6353 4.546674 CCTTTTAGTGCCTGGGGATAAAT 58.453 43.478 0.00 0.00 0.00 1.40
3503 6407 5.301805 GTCATGTTCCTTTTCCTTCCTTTCA 59.698 40.000 0.00 0.00 0.00 2.69
3519 6423 3.991773 CCTTTCACATCATGCCTTGTTTG 59.008 43.478 0.00 0.00 0.00 2.93
3554 6458 2.507407 TGGTTATTTCTCCTGGTGCC 57.493 50.000 0.00 0.00 0.00 5.01
3557 6461 0.254747 TTATTTCTCCTGGTGCCCCG 59.745 55.000 0.00 0.00 0.00 5.73
3661 6616 2.565834 TCCACTGGTAGCAGAACTTACC 59.434 50.000 27.87 0.00 0.00 2.85
3675 8273 6.402766 GCAGAACTTACCGCACAAAATGTATA 60.403 38.462 0.00 0.00 0.00 1.47
3676 8274 6.959311 CAGAACTTACCGCACAAAATGTATAC 59.041 38.462 0.00 0.00 0.00 1.47
3718 8326 6.597832 CAAACCCCATATTTGGTCAAACTA 57.402 37.500 1.26 0.00 41.91 2.24
3735 8343 6.961554 GTCAAACTATGAAGCTAAACATTCGG 59.038 38.462 6.35 2.29 40.50 4.30
3782 8441 6.959606 AATACTTCATAGACATGGGCCTAT 57.040 37.500 4.53 0.00 32.61 2.57
3788 8447 5.593786 TCATAGACATGGGCCTATAGATGT 58.406 41.667 0.00 5.50 32.61 3.06
3796 8501 2.339769 GGCCTATAGATGTCCCCTGTT 58.660 52.381 0.00 0.00 0.00 3.16
3797 8502 2.303311 GGCCTATAGATGTCCCCTGTTC 59.697 54.545 0.00 0.00 0.00 3.18
3798 8503 3.243724 GCCTATAGATGTCCCCTGTTCT 58.756 50.000 0.00 0.00 0.00 3.01
3819 8524 5.200483 TCTGGGAAACTGAAACAACTGATT 58.800 37.500 0.00 0.00 0.00 2.57
3898 8632 7.015584 TCAGCTCAAGATATGATTACTTGGCTA 59.984 37.037 17.07 9.89 41.34 3.93
4028 8762 2.479566 ATCAAGCATCCAACTGACGT 57.520 45.000 0.00 0.00 0.00 4.34
4030 8764 3.394674 TCAAGCATCCAACTGACGTTA 57.605 42.857 0.00 0.00 0.00 3.18
4031 8765 3.064207 TCAAGCATCCAACTGACGTTAC 58.936 45.455 0.00 0.00 0.00 2.50
4032 8766 2.094762 AGCATCCAACTGACGTTACC 57.905 50.000 0.00 0.00 0.00 2.85
4038 8772 2.614983 TCCAACTGACGTTACCTTTTGC 59.385 45.455 0.00 0.00 0.00 3.68
4039 8773 2.356382 CCAACTGACGTTACCTTTTGCA 59.644 45.455 0.00 0.00 0.00 4.08
4086 8820 2.597217 CTTTGGCCGGGCAAGACA 60.597 61.111 37.60 25.22 0.00 3.41
4182 8922 5.354767 TGCTATGTTGCTCAGATTCTGTAG 58.645 41.667 13.23 10.25 32.61 2.74
4192 8932 5.389520 CTCAGATTCTGTAGTCCCCTGATA 58.610 45.833 13.23 0.00 32.61 2.15
4204 8944 4.412528 AGTCCCCTGATATCTGTTTAACCC 59.587 45.833 3.98 0.00 0.00 4.11
4231 8971 1.857965 TCCTGATCCTGGAGTGAGTG 58.142 55.000 1.52 0.00 0.00 3.51
4235 8975 2.166050 CTGATCCTGGAGTGAGTGAGTG 59.834 54.545 1.52 0.00 0.00 3.51
4268 9008 1.168714 GGGAGTCTTGCACCATGTTC 58.831 55.000 0.00 0.00 0.00 3.18
4276 9016 1.003839 GCACCATGTTCGGGAGTGA 60.004 57.895 0.86 0.00 0.00 3.41
4277 9017 0.392998 GCACCATGTTCGGGAGTGAT 60.393 55.000 0.86 0.00 0.00 3.06
4278 9018 1.950484 GCACCATGTTCGGGAGTGATT 60.950 52.381 0.86 0.00 0.00 2.57
4315 9055 0.529378 ACTGGTAGCCCGAGTAAACG 59.471 55.000 0.00 0.00 0.00 3.60
4329 9069 5.220643 CCGAGTAAACGTTGTTACCTTTTGT 60.221 40.000 0.00 0.00 35.01 2.83
4399 9551 9.577110 ACATAAATTTTGCTACATGACATCTTG 57.423 29.630 0.00 0.00 0.00 3.02
4422 9574 1.537990 GCTCGTTTGGTTTGGCATTGT 60.538 47.619 0.00 0.00 0.00 2.71
4445 9597 1.070909 CGAATTTGCGGTTTGTTTGGC 60.071 47.619 0.00 0.00 0.00 4.52
4486 9640 0.103572 GGTTGCCCTGCAGCATATTG 59.896 55.000 8.66 0.00 43.64 1.90
4489 9643 0.323633 TGCCCTGCAGCATATTGTGT 60.324 50.000 8.66 0.00 38.00 3.72
4501 9655 4.277672 AGCATATTGTGTTGATCATCAGGC 59.722 41.667 6.72 5.00 0.00 4.85
4512 9666 1.637338 TCATCAGGCTCAGTGTGTCT 58.363 50.000 0.00 0.00 0.00 3.41
4513 9667 1.274447 TCATCAGGCTCAGTGTGTCTG 59.726 52.381 18.50 18.50 44.85 3.51
4515 9669 0.676184 TCAGGCTCAGTGTGTCTGAC 59.324 55.000 22.17 0.00 46.77 3.51
4517 9671 1.123077 AGGCTCAGTGTGTCTGACAA 58.877 50.000 12.81 0.40 46.77 3.18
4518 9672 1.202580 AGGCTCAGTGTGTCTGACAAC 60.203 52.381 12.81 12.47 46.77 3.32
4519 9673 1.473257 GGCTCAGTGTGTCTGACAACA 60.473 52.381 12.81 10.12 46.77 3.33
4560 9891 3.332919 GCTGATGACTGTCATGTTCAGT 58.667 45.455 27.54 19.93 46.86 3.41
4561 9892 3.124806 GCTGATGACTGTCATGTTCAGTG 59.875 47.826 27.54 14.15 44.68 3.66
4588 9928 1.480545 GCACCAAAACCAAACCAGACT 59.519 47.619 0.00 0.00 0.00 3.24
4599 9939 6.824305 ACCAAACCAGACTGATCTAAAATG 57.176 37.500 3.32 0.00 32.25 2.32
4602 9942 7.505585 ACCAAACCAGACTGATCTAAAATGAAA 59.494 33.333 3.32 0.00 32.25 2.69
4603 9943 7.809806 CCAAACCAGACTGATCTAAAATGAAAC 59.190 37.037 3.32 0.00 32.25 2.78
4604 9944 8.571336 CAAACCAGACTGATCTAAAATGAAACT 58.429 33.333 3.32 0.00 32.25 2.66
4605 9945 9.793259 AAACCAGACTGATCTAAAATGAAACTA 57.207 29.630 3.32 0.00 32.25 2.24
4706 10056 6.861065 TCAATTTCTTCAGTCCAGTGTAAC 57.139 37.500 0.00 0.00 0.00 2.50
4758 10110 6.605594 AGGTCATTTCCACAAAAGAAGTTACA 59.394 34.615 0.00 0.00 0.00 2.41
4796 10148 2.601763 CCTACAAGTCCATTACGAACGC 59.398 50.000 0.00 0.00 0.00 4.84
4815 10167 2.355756 CGCATTGACTTTCCCAGGTATG 59.644 50.000 0.00 0.00 0.00 2.39
5069 10530 9.459640 CAGAATTTTGCTCATATAATCAACAGG 57.540 33.333 0.00 0.00 0.00 4.00
5082 10543 9.745018 ATATAATCAACAGGGTTCTATTGATGG 57.255 33.333 1.36 0.00 43.89 3.51
5108 10569 5.885912 ACAAAGCTTGTTTTGTAGAGAGGAA 59.114 36.000 12.58 0.00 46.40 3.36
5112 10573 4.389374 CTTGTTTTGTAGAGAGGAAGGCA 58.611 43.478 0.00 0.00 0.00 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 8.804743 GTCAAAAGCAATCTACATTTGATGATG 58.195 33.333 2.99 0.00 40.75 3.07
359 373 6.808829 TGATACACTATAAAACACTACCCGG 58.191 40.000 0.00 0.00 0.00 5.73
417 452 6.699204 CACACTCTATTCAGTCGCATCTAAAT 59.301 38.462 0.00 0.00 0.00 1.40
455 498 8.192110 TGTATTATAGACACTCGTGCATGTTAA 58.808 33.333 5.68 0.00 0.00 2.01
482 525 9.005777 TGGTCAATATTACAACTTACCAAAGTC 57.994 33.333 0.00 0.00 45.37 3.01
538 608 9.862371 GGATAAATCAAGATATGACTCGTACAT 57.138 33.333 0.00 0.00 41.93 2.29
544 614 6.597280 GCCAGGGATAAATCAAGATATGACTC 59.403 42.308 0.00 0.00 41.93 3.36
547 617 6.296662 GGAGCCAGGGATAAATCAAGATATGA 60.297 42.308 0.00 0.00 43.67 2.15
560 630 1.490490 GACAACATGGAGCCAGGGATA 59.510 52.381 6.11 0.00 31.33 2.59
561 631 0.257039 GACAACATGGAGCCAGGGAT 59.743 55.000 6.11 0.00 31.33 3.85
563 633 0.679002 CTGACAACATGGAGCCAGGG 60.679 60.000 6.11 0.00 31.33 4.45
611 681 1.882623 CAGAGTCCCAAAAGCCAAGTC 59.117 52.381 0.00 0.00 0.00 3.01
635 705 0.101759 CTGATTCCAAATGGCGGCAG 59.898 55.000 19.29 3.35 34.44 4.85
645 715 1.486310 CGAGGGGATGTCTGATTCCAA 59.514 52.381 10.58 0.00 33.43 3.53
649 719 3.071602 CCAATACGAGGGGATGTCTGATT 59.928 47.826 0.00 0.00 0.00 2.57
650 720 2.634940 CCAATACGAGGGGATGTCTGAT 59.365 50.000 0.00 0.00 0.00 2.90
651 721 2.039418 CCAATACGAGGGGATGTCTGA 58.961 52.381 0.00 0.00 0.00 3.27
652 722 1.541233 GCCAATACGAGGGGATGTCTG 60.541 57.143 0.00 0.00 0.00 3.51
653 723 0.759346 GCCAATACGAGGGGATGTCT 59.241 55.000 0.00 0.00 0.00 3.41
654 724 0.250338 GGCCAATACGAGGGGATGTC 60.250 60.000 0.00 0.00 0.00 3.06
655 725 1.705997 GGGCCAATACGAGGGGATGT 61.706 60.000 4.39 0.00 0.00 3.06
656 726 1.073199 GGGCCAATACGAGGGGATG 59.927 63.158 4.39 0.00 0.00 3.51
657 727 2.154074 GGGGCCAATACGAGGGGAT 61.154 63.158 4.39 0.00 0.00 3.85
658 728 2.770904 GGGGCCAATACGAGGGGA 60.771 66.667 4.39 0.00 0.00 4.81
659 729 4.250305 CGGGGCCAATACGAGGGG 62.250 72.222 4.39 0.00 0.00 4.79
660 730 4.929707 GCGGGGCCAATACGAGGG 62.930 72.222 4.39 0.00 0.00 4.30
661 731 3.809374 GAGCGGGGCCAATACGAGG 62.809 68.421 4.39 0.00 0.00 4.63
662 732 2.280186 GAGCGGGGCCAATACGAG 60.280 66.667 4.39 0.00 0.00 4.18
663 733 3.857038 GGAGCGGGGCCAATACGA 61.857 66.667 4.39 0.00 0.00 3.43
664 734 4.929707 GGGAGCGGGGCCAATACG 62.930 72.222 4.39 4.34 0.00 3.06
665 735 4.581093 GGGGAGCGGGGCCAATAC 62.581 72.222 4.39 0.00 0.00 1.89
673 743 3.925090 GTACGATGGGGGAGCGGG 61.925 72.222 0.00 0.00 37.96 6.13
674 744 3.925090 GGTACGATGGGGGAGCGG 61.925 72.222 0.00 0.00 37.96 5.52
675 745 3.925090 GGGTACGATGGGGGAGCG 61.925 72.222 0.00 0.00 40.13 5.03
676 746 3.557290 GGGGTACGATGGGGGAGC 61.557 72.222 0.00 0.00 0.00 4.70
732 991 2.039624 GGAGAGGTGGGGCAGAGA 59.960 66.667 0.00 0.00 0.00 3.10
759 1018 3.412408 GCAAGAGGGAGGGGGTCC 61.412 72.222 0.00 0.00 46.10 4.46
811 1070 3.005539 ATCAGCCGAGCCACACCT 61.006 61.111 0.00 0.00 0.00 4.00
845 1104 4.473520 ACCCGAAGCGCCATCCAG 62.474 66.667 2.29 0.00 0.00 3.86
846 1105 4.776322 CACCCGAAGCGCCATCCA 62.776 66.667 2.29 0.00 0.00 3.41
883 1142 1.070445 CCTAGATCTGGGCTTGCGG 59.930 63.158 12.76 0.00 0.00 5.69
891 1150 2.355010 CCTTTTGGGCCTAGATCTGG 57.645 55.000 5.18 1.30 35.46 3.86
904 1163 1.276138 GACCCAATTCAGGCCCTTTTG 59.724 52.381 0.00 0.00 0.00 2.44
905 1164 1.132881 TGACCCAATTCAGGCCCTTTT 60.133 47.619 0.00 0.00 0.00 2.27
906 1165 0.486879 TGACCCAATTCAGGCCCTTT 59.513 50.000 0.00 0.00 0.00 3.11
907 1166 0.040204 CTGACCCAATTCAGGCCCTT 59.960 55.000 0.00 0.00 39.59 3.95
908 1167 1.693640 CTGACCCAATTCAGGCCCT 59.306 57.895 0.00 0.00 39.59 5.19
927 1186 4.043100 AACCCTAACTGGCCCGCC 62.043 66.667 0.00 0.00 0.00 6.13
935 1194 3.740141 CGTCACAAGTCACAACCCTAACT 60.740 47.826 0.00 0.00 0.00 2.24
943 1202 0.528901 CGACCCGTCACAAGTCACAA 60.529 55.000 0.00 0.00 0.00 3.33
944 1203 1.066752 CGACCCGTCACAAGTCACA 59.933 57.895 0.00 0.00 0.00 3.58
945 1204 1.066918 ACGACCCGTCACAAGTCAC 59.933 57.895 0.00 0.00 33.69 3.67
946 1205 3.528853 ACGACCCGTCACAAGTCA 58.471 55.556 0.00 0.00 33.69 3.41
1017 1276 5.105106 ACCATTACAACGTGGATCTACATGA 60.105 40.000 15.88 0.00 38.86 3.07
1049 1308 7.717875 AGCTTACCTTCTGATCTACTAGTAGTG 59.282 40.741 25.58 15.63 34.84 2.74
1051 1310 7.308348 GCAGCTTACCTTCTGATCTACTAGTAG 60.308 44.444 21.87 21.87 32.26 2.57
1052 1311 6.487331 GCAGCTTACCTTCTGATCTACTAGTA 59.513 42.308 1.89 1.89 32.26 1.82
1057 1544 3.376540 CGCAGCTTACCTTCTGATCTAC 58.623 50.000 0.00 0.00 32.26 2.59
1086 1573 1.707200 GGAGAAGGAGAGGGAGGGT 59.293 63.158 0.00 0.00 0.00 4.34
1088 1575 0.551879 TACGGAGAAGGAGAGGGAGG 59.448 60.000 0.00 0.00 0.00 4.30
1101 1590 2.557056 TCTGTCAGAAACACCTACGGAG 59.443 50.000 0.00 0.00 33.24 4.63
1102 1591 2.589720 TCTGTCAGAAACACCTACGGA 58.410 47.619 0.00 0.00 33.24 4.69
1428 2411 7.257722 ACAGAAGACCAAATATATTTTTGCCG 58.742 34.615 8.01 4.04 35.67 5.69
1478 2461 8.396272 ACAATAATCATGAAGTGGGTAATAGC 57.604 34.615 0.00 0.00 0.00 2.97
1511 2518 1.379527 CTAAAACATCGAGCCCCCAC 58.620 55.000 0.00 0.00 0.00 4.61
1514 2521 1.065709 TGACCTAAAACATCGAGCCCC 60.066 52.381 0.00 0.00 0.00 5.80
1515 2522 2.396590 TGACCTAAAACATCGAGCCC 57.603 50.000 0.00 0.00 0.00 5.19
1572 2583 8.432805 GGTCCTTGATGATATTTCTAGGAAAGA 58.567 37.037 16.04 0.00 43.53 2.52
1581 2592 8.688747 AGAAATCTGGTCCTTGATGATATTTC 57.311 34.615 0.00 0.00 33.24 2.17
1632 2745 8.853126 TGCATATATTTTGGAAGAGAAATCTGG 58.147 33.333 0.00 0.00 0.00 3.86
1660 2780 4.019860 ACCTGTAGACACAATGAGCTGAAT 60.020 41.667 0.00 0.00 33.22 2.57
1680 2802 5.499004 TTGATTAGAACTAACTGCCACCT 57.501 39.130 0.00 0.00 0.00 4.00
1698 2820 8.922931 ATTTTTAGCCAGGTTGAATTTTTGAT 57.077 26.923 0.00 0.00 0.00 2.57
1715 2837 6.450545 ACAAGAAAGGAGCTGAATTTTTAGC 58.549 36.000 0.00 0.00 40.18 3.09
1865 2999 4.042884 TCAGAATCCAGATCATTGGGAGT 58.957 43.478 0.00 0.00 38.81 3.85
1866 3000 4.141551 TGTCAGAATCCAGATCATTGGGAG 60.142 45.833 0.00 0.00 38.81 4.30
2098 4749 9.657419 AATTCGAATGGCTGATAAATTTTCTTT 57.343 25.926 12.25 0.00 0.00 2.52
2241 4899 4.326504 ACAAATTCCAGAACAAGCCTTG 57.673 40.909 2.11 2.11 0.00 3.61
2345 5003 5.660629 TTGTGTGGTACGATTAAGTTGTG 57.339 39.130 0.00 0.00 0.00 3.33
2483 5150 5.355350 CCTTCTCTATTTTCGAGCAACCATT 59.645 40.000 0.00 0.00 0.00 3.16
2498 5165 8.635765 TTAAACTTCATTGTTGCCTTCTCTAT 57.364 30.769 0.00 0.00 0.00 1.98
2582 5255 2.095768 TGAAAGCTTGCAGATGTAACGC 60.096 45.455 1.85 0.00 0.00 4.84
2584 5257 7.019774 TGATATGAAAGCTTGCAGATGTAAC 57.980 36.000 19.37 5.49 0.00 2.50
2759 5440 6.603237 TTAATTGACAAGTCATATGCCTCG 57.397 37.500 3.43 0.00 39.64 4.63
2960 5722 4.842531 TCATCTCCATTGGAAGCTTGTA 57.157 40.909 2.10 0.00 0.00 2.41
2975 5745 5.752472 CACTGGACATCTTACACATCATCTC 59.248 44.000 0.00 0.00 0.00 2.75
3102 5895 5.188434 CAGAAGCATTTCCCAAGATACAGA 58.812 41.667 0.00 0.00 33.64 3.41
3455 6324 6.549736 ACAATTAACTATTTATCCCCAGGCAC 59.450 38.462 0.00 0.00 0.00 5.01
3470 6353 8.934023 AGGAAAAGGAACATGACAATTAACTA 57.066 30.769 0.00 0.00 0.00 2.24
3503 6407 3.006110 CAGGTTCAAACAAGGCATGATGT 59.994 43.478 0.00 0.00 0.00 3.06
3554 6458 1.153823 CAGTAGCTCCAACGACGGG 60.154 63.158 0.00 0.00 0.00 5.28
3557 6461 3.299340 TCTTTCAGTAGCTCCAACGAC 57.701 47.619 0.00 0.00 0.00 4.34
3661 6616 3.961860 CAGCGATGTATACATTTTGTGCG 59.038 43.478 19.19 16.57 36.57 5.34
3675 8273 1.139058 GGACTCCCATTACAGCGATGT 59.861 52.381 12.53 12.53 0.00 3.06
3676 8274 1.138859 TGGACTCCCATTACAGCGATG 59.861 52.381 0.00 0.00 37.58 3.84
3718 8326 4.331968 TCCAACCGAATGTTTAGCTTCAT 58.668 39.130 0.00 0.00 34.00 2.57
3750 8409 9.039870 CCATGTCTATGAAGTATTTGTTCTCTC 57.960 37.037 0.00 0.00 36.36 3.20
3796 8501 4.229304 TCAGTTGTTTCAGTTTCCCAGA 57.771 40.909 0.00 0.00 0.00 3.86
3797 8502 5.520376 AATCAGTTGTTTCAGTTTCCCAG 57.480 39.130 0.00 0.00 0.00 4.45
3798 8503 7.004086 AGATAATCAGTTGTTTCAGTTTCCCA 58.996 34.615 0.00 0.00 0.00 4.37
3898 8632 3.782523 TGCTCCCACTCCTCTCATATTTT 59.217 43.478 0.00 0.00 0.00 1.82
4038 8772 2.097954 TCGCTGCAGGAAAAGCAATATG 59.902 45.455 17.12 0.00 42.17 1.78
4039 8773 2.368439 TCGCTGCAGGAAAAGCAATAT 58.632 42.857 17.12 0.00 42.17 1.28
4086 8820 0.764369 TGGTGCTGAAGAGACCCTGT 60.764 55.000 0.00 0.00 0.00 4.00
4132 8872 7.070821 TCCCACCAATTAAGATCTACTCCTTAC 59.929 40.741 0.00 0.00 0.00 2.34
4134 8874 5.970640 TCCCACCAATTAAGATCTACTCCTT 59.029 40.000 0.00 0.00 0.00 3.36
4152 8892 1.312815 GAGCAACATAGCATCCCACC 58.687 55.000 0.00 0.00 36.85 4.61
4182 8922 4.445879 GGGGTTAAACAGATATCAGGGGAC 60.446 50.000 5.32 0.00 0.00 4.46
4192 8932 5.131142 CAGGATACAGAGGGGTTAAACAGAT 59.869 44.000 0.00 0.00 41.41 2.90
4204 8944 3.164268 CTCCAGGATCAGGATACAGAGG 58.836 54.545 6.59 0.00 34.62 3.69
4231 8971 2.158813 TCCCCAACAGAGAAACACACTC 60.159 50.000 0.00 0.00 34.95 3.51
4235 8975 2.104963 AGACTCCCCAACAGAGAAACAC 59.895 50.000 0.00 0.00 35.27 3.32
4268 9008 8.750298 AGTACATAGGAATAATAATCACTCCCG 58.250 37.037 0.00 0.00 0.00 5.14
4303 9043 1.460743 GGTAACAACGTTTACTCGGGC 59.539 52.381 0.00 0.00 33.21 6.13
4315 9055 8.672214 TTTTCGTTAGAACAAAAGGTAACAAC 57.328 30.769 0.00 0.00 35.86 3.32
4329 9069 6.861065 AGATTTGACAGCTTTTCGTTAGAA 57.139 33.333 0.00 0.00 33.98 2.10
4399 9551 1.661509 GCCAAACCAAACGAGCAGC 60.662 57.895 0.00 0.00 0.00 5.25
4422 9574 2.853731 AACAAACCGCAAATTCGTCA 57.146 40.000 0.00 0.00 0.00 4.35
4445 9597 4.207165 CCCAGGTATTTCAGTTGGTATGG 58.793 47.826 0.00 0.00 0.00 2.74
4486 9640 2.676839 CACTGAGCCTGATGATCAACAC 59.323 50.000 0.00 0.00 0.00 3.32
4489 9643 2.303890 ACACACTGAGCCTGATGATCAA 59.696 45.455 0.00 0.00 0.00 2.57
4512 9666 2.483013 CCTCCTCGTCTTTGTGTTGTCA 60.483 50.000 0.00 0.00 0.00 3.58
4513 9667 2.135933 CCTCCTCGTCTTTGTGTTGTC 58.864 52.381 0.00 0.00 0.00 3.18
4514 9668 1.760613 TCCTCCTCGTCTTTGTGTTGT 59.239 47.619 0.00 0.00 0.00 3.32
4515 9669 2.408050 CTCCTCCTCGTCTTTGTGTTG 58.592 52.381 0.00 0.00 0.00 3.33
4517 9671 0.318762 GCTCCTCCTCGTCTTTGTGT 59.681 55.000 0.00 0.00 0.00 3.72
4518 9672 0.318441 TGCTCCTCCTCGTCTTTGTG 59.682 55.000 0.00 0.00 0.00 3.33
4519 9673 0.605589 CTGCTCCTCCTCGTCTTTGT 59.394 55.000 0.00 0.00 0.00 2.83
4526 9682 2.132996 ATCAGCCTGCTCCTCCTCG 61.133 63.158 0.00 0.00 0.00 4.63
4758 10110 4.785453 GCTGTAGCGCCAGGGCTT 62.785 66.667 14.79 0.00 41.39 4.35
4796 10148 7.645058 AATTACATACCTGGGAAAGTCAATG 57.355 36.000 0.00 0.00 0.00 2.82
5015 10471 5.695851 TTCAAACTCTTCAGAATTGGAGC 57.304 39.130 0.00 0.00 29.24 4.70
5069 10530 5.904362 AGCTTTGTTCCATCAATAGAACC 57.096 39.130 0.00 0.00 41.36 3.62


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

AutoCloner maintained by Alex Coulton.