Multiple sequence alignment - TraesCS6B01G230200

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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 TraesCS6B01G230200 chr6B 100.000 4426 0 0 3147 7572 370130136 370134561 0.000000e+00 8174.0
1 TraesCS6B01G230200 chr6B 100.000 2778 0 0 1 2778 370126990 370129767 0.000000e+00 5131.0
2 TraesCS6B01G230200 chr6B 95.973 149 5 1 7424 7571 297295574 297295722 2.730000e-59 241.0
3 TraesCS6B01G230200 chr6B 95.302 149 5 2 7424 7571 297288061 297288208 1.270000e-57 235.0
4 TraesCS6B01G230200 chr6B 95.302 149 6 1 7424 7571 297291852 297292000 1.270000e-57 235.0
5 TraesCS6B01G230200 chr6B 93.333 150 9 1 7424 7572 370141281 370141430 3.560000e-53 220.0
6 TraesCS6B01G230200 chr6B 82.787 122 15 4 7280 7400 226389703 226389587 3.740000e-18 104.0
7 TraesCS6B01G230200 chr6B 86.364 88 12 0 4656 4743 370129132 370129219 6.250000e-16 97.1
8 TraesCS6B01G230200 chr6B 86.364 88 12 0 2143 2230 370131645 370131732 6.250000e-16 97.1
9 TraesCS6B01G230200 chr6D 95.289 4245 112 32 3147 7351 208260340 208264536 0.000000e+00 6650.0
10 TraesCS6B01G230200 chr6D 96.652 1852 45 5 926 2777 208258430 208260264 0.000000e+00 3061.0
11 TraesCS6B01G230200 chr6D 85.563 284 30 4 1633 1908 4103949 4104229 3.460000e-73 287.0
12 TraesCS6B01G230200 chr6D 98.551 69 1 0 857 925 208258320 208258388 1.030000e-23 122.0
13 TraesCS6B01G230200 chr6D 86.364 88 12 0 4656 4743 208259631 208259718 6.250000e-16 97.1
14 TraesCS6B01G230200 chr6D 86.364 88 12 0 2143 2230 208261850 208261937 6.250000e-16 97.1
15 TraesCS6B01G230200 chr6A 95.035 2739 65 28 4750 7423 296312686 296315418 0.000000e+00 4239.0
16 TraesCS6B01G230200 chr6A 97.470 1818 34 3 960 2777 292623676 292621871 0.000000e+00 3092.0
17 TraesCS6B01G230200 chr6A 96.644 1609 52 2 3147 4754 292621795 292620188 0.000000e+00 2671.0
18 TraesCS6B01G230200 chr6A 87.958 764 86 6 1 762 34415505 34416264 0.000000e+00 896.0
19 TraesCS6B01G230200 chr6A 87.370 768 92 5 1 765 595412705 595411940 0.000000e+00 876.0
20 TraesCS6B01G230200 chr6A 98.333 60 1 0 857 916 292624935 292624876 1.040000e-18 106.0
21 TraesCS6B01G230200 chr6A 98.333 60 1 0 857 916 292625033 292624974 1.040000e-18 106.0
22 TraesCS6B01G230200 chr6A 86.364 88 12 0 4659 4746 292622499 292622412 6.250000e-16 97.1
23 TraesCS6B01G230200 chr6A 97.727 44 1 0 857 900 292625321 292625278 8.150000e-10 76.8
24 TraesCS6B01G230200 chr6A 83.133 83 9 3 2363 2445 292622567 292622490 3.790000e-08 71.3
25 TraesCS6B01G230200 chr2D 85.260 1194 137 13 3147 4335 12565895 12567054 0.000000e+00 1194.0
26 TraesCS6B01G230200 chr2D 81.679 262 41 5 2444 2702 461385162 461384905 2.140000e-50 211.0
27 TraesCS6B01G230200 chr2D 91.489 94 7 1 762 855 430318739 430318831 2.220000e-25 128.0
28 TraesCS6B01G230200 chr2D 93.671 79 5 0 2699 2777 12565754 12565832 1.330000e-22 119.0
29 TraesCS6B01G230200 chr5B 92.026 765 56 5 1 762 67956139 67956901 0.000000e+00 1070.0
30 TraesCS6B01G230200 chr5B 90.327 765 57 14 1 760 548311308 548312060 0.000000e+00 987.0
31 TraesCS6B01G230200 chr5B 94.667 150 7 1 7423 7571 181487798 181487947 1.640000e-56 231.0
32 TraesCS6B01G230200 chr3D 88.613 764 83 4 1 762 383600969 383601730 0.000000e+00 926.0
33 TraesCS6B01G230200 chr3D 86.207 145 18 2 1471 1615 134326223 134326365 1.020000e-33 156.0
34 TraesCS6B01G230200 chr3D 84.828 145 20 2 1471 1615 134260795 134260937 2.200000e-30 145.0
35 TraesCS6B01G230200 chr7B 88.613 764 78 6 1 762 531585108 531585864 0.000000e+00 920.0
36 TraesCS6B01G230200 chr7B 84.746 118 12 4 7281 7398 394409712 394409823 6.210000e-21 113.0
37 TraesCS6B01G230200 chr3A 88.327 771 83 4 1 765 495251041 495250272 0.000000e+00 918.0
38 TraesCS6B01G230200 chr3A 80.085 472 56 22 1468 1908 691321304 691320840 4.410000e-82 316.0
39 TraesCS6B01G230200 chr3A 79.704 473 57 24 1468 1908 408190990 408191455 9.550000e-79 305.0
40 TraesCS6B01G230200 chr3A 87.234 94 11 1 762 855 17000183 17000091 1.040000e-18 106.0
41 TraesCS6B01G230200 chr5A 87.435 764 85 8 1 762 439875377 439876131 0.000000e+00 869.0
42 TraesCS6B01G230200 chr5A 86.897 145 17 2 1474 1618 700792068 700791926 2.190000e-35 161.0
43 TraesCS6B01G230200 chr5A 87.591 137 15 2 1474 1610 700796535 700796401 2.830000e-34 158.0
44 TraesCS6B01G230200 chr1D 87.240 768 90 7 1 762 52289568 52288803 0.000000e+00 869.0
45 TraesCS6B01G230200 chr1D 85.563 284 30 5 1633 1908 62355030 62354750 3.460000e-73 287.0
46 TraesCS6B01G230200 chr1D 78.821 458 68 13 3147 3602 483008921 483009351 1.610000e-71 281.0
47 TraesCS6B01G230200 chr1D 84.733 262 38 2 2443 2702 483008550 483008811 2.100000e-65 261.0
48 TraesCS6B01G230200 chr1D 93.960 149 8 1 7424 7571 356942263 356942115 2.750000e-54 224.0
49 TraesCS6B01G230200 chr1D 85.000 120 11 3 7279 7398 263069323 263069211 1.730000e-21 115.0
50 TraesCS6B01G230200 chr2A 79.211 659 123 11 3426 4082 606519993 606519347 5.390000e-121 446.0
51 TraesCS6B01G230200 chr2A 84.615 247 31 5 3147 3390 13021438 13021680 9.820000e-59 239.0
52 TraesCS6B01G230200 chr2A 80.303 264 43 7 2444 2702 606521016 606520757 2.790000e-44 191.0
53 TraesCS6B01G230200 chr2A 84.746 118 13 5 7283 7397 4808031 4808146 6.210000e-21 113.0
54 TraesCS6B01G230200 chr2B 78.636 660 126 12 3426 4082 543552120 543551473 2.530000e-114 424.0
55 TraesCS6B01G230200 chr2B 94.631 149 6 2 7424 7571 153613585 153613732 5.910000e-56 230.0
56 TraesCS6B01G230200 chr2B 80.567 247 42 4 2460 2702 543553284 543553040 1.300000e-42 185.0
57 TraesCS6B01G230200 chr2B 87.500 64 7 1 792 855 776821309 776821247 1.050000e-08 73.1
58 TraesCS6B01G230200 chr1A 80.508 472 55 21 1468 1908 11208603 11209068 2.040000e-85 327.0
59 TraesCS6B01G230200 chr1A 79.381 388 45 11 3147 3529 579106549 579106192 2.730000e-59 241.0
60 TraesCS6B01G230200 chr7A 85.965 285 29 4 1633 1908 705416705 705416423 2.070000e-75 294.0
61 TraesCS6B01G230200 chr7A 90.566 106 6 4 764 867 372753476 372753373 3.680000e-28 137.0
62 TraesCS6B01G230200 chr7D 85.866 283 29 4 1633 1907 539211986 539212265 2.670000e-74 291.0
63 TraesCS6B01G230200 chr4B 77.612 469 71 15 1468 1904 171093718 171093252 3.510000e-63 254.0
64 TraesCS6B01G230200 chr4B 83.465 127 16 5 7274 7398 467009365 467009488 6.210000e-21 113.0
65 TraesCS6B01G230200 chr4B 86.154 65 6 3 792 855 38606264 38606202 4.900000e-07 67.6
66 TraesCS6B01G230200 chrUn 84.766 256 33 2 2448 2702 316150188 316150438 1.260000e-62 252.0
67 TraesCS6B01G230200 chr1B 84.766 256 33 2 2448 2702 671337922 671338172 1.260000e-62 252.0
68 TraesCS6B01G230200 chr1B 84.436 257 33 3 2447 2702 671294609 671294859 5.870000e-61 246.0
69 TraesCS6B01G230200 chr1B 93.421 152 9 1 7422 7572 643599392 643599241 2.750000e-54 224.0
70 TraesCS6B01G230200 chr1B 83.621 116 14 2 7283 7398 273607630 273607520 3.740000e-18 104.0
71 TraesCS6B01G230200 chr3B 93.960 149 8 1 7424 7571 442634392 442634540 2.750000e-54 224.0
72 TraesCS6B01G230200 chr3B 84.553 123 10 4 7277 7398 487844896 487844782 6.210000e-21 113.0
73 TraesCS6B01G230200 chr4A 88.276 145 15 2 1474 1618 602904641 602904499 1.010000e-38 172.0
74 TraesCS6B01G230200 chr4A 100.000 31 0 0 824 854 645738412 645738442 2.950000e-04 58.4
75 TraesCS6B01G230200 chr4A 100.000 31 0 0 824 854 645770953 645770983 2.950000e-04 58.4
76 TraesCS6B01G230200 chr4D 83.516 91 11 4 766 855 26191540 26191453 1.750000e-11 82.4


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 TraesCS6B01G230200 chr6B 370126990 370134561 7571 False 3374.80 8174 93.182000 1 7572 4 chr6B.!!$F3 7571
1 TraesCS6B01G230200 chr6B 297288061 297295722 7661 False 237.00 241 95.525667 7424 7571 3 chr6B.!!$F2 147
2 TraesCS6B01G230200 chr6D 208258320 208264536 6216 False 2005.44 6650 92.644000 857 7351 5 chr6D.!!$F2 6494
3 TraesCS6B01G230200 chr6A 296312686 296315418 2732 False 4239.00 4239 95.035000 4750 7423 1 chr6A.!!$F2 2673
4 TraesCS6B01G230200 chr6A 34415505 34416264 759 False 896.00 896 87.958000 1 762 1 chr6A.!!$F1 761
5 TraesCS6B01G230200 chr6A 292620188 292625321 5133 True 888.60 3092 94.000571 857 4754 7 chr6A.!!$R2 3897
6 TraesCS6B01G230200 chr6A 595411940 595412705 765 True 876.00 876 87.370000 1 765 1 chr6A.!!$R1 764
7 TraesCS6B01G230200 chr2D 12565754 12567054 1300 False 656.50 1194 89.465500 2699 4335 2 chr2D.!!$F2 1636
8 TraesCS6B01G230200 chr5B 67956139 67956901 762 False 1070.00 1070 92.026000 1 762 1 chr5B.!!$F1 761
9 TraesCS6B01G230200 chr5B 548311308 548312060 752 False 987.00 987 90.327000 1 760 1 chr5B.!!$F3 759
10 TraesCS6B01G230200 chr3D 383600969 383601730 761 False 926.00 926 88.613000 1 762 1 chr3D.!!$F3 761
11 TraesCS6B01G230200 chr7B 531585108 531585864 756 False 920.00 920 88.613000 1 762 1 chr7B.!!$F2 761
12 TraesCS6B01G230200 chr3A 495250272 495251041 769 True 918.00 918 88.327000 1 765 1 chr3A.!!$R2 764
13 TraesCS6B01G230200 chr5A 439875377 439876131 754 False 869.00 869 87.435000 1 762 1 chr5A.!!$F1 761
14 TraesCS6B01G230200 chr1D 52288803 52289568 765 True 869.00 869 87.240000 1 762 1 chr1D.!!$R1 761
15 TraesCS6B01G230200 chr1D 483008550 483009351 801 False 271.00 281 81.777000 2443 3602 2 chr1D.!!$F1 1159
16 TraesCS6B01G230200 chr2A 606519347 606521016 1669 True 318.50 446 79.757000 2444 4082 2 chr2A.!!$R1 1638
17 TraesCS6B01G230200 chr2B 543551473 543553284 1811 True 304.50 424 79.601500 2460 4082 2 chr2B.!!$R2 1622

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
769 792 0.394565 ATAGGAGCTCCCGTCATTGC 59.605 55.000 29.54 0.46 40.87 3.56 F
781 804 0.971959 GTCATTGCCTTGGCCATCCA 60.972 55.000 6.09 0.46 41.55 3.41 F
1635 3225 1.933853 GGCATAGTCGATCACAACACC 59.066 52.381 0.00 0.00 0.00 4.16 F
1739 3329 1.570501 TGCAGGAATGCCCTCCTTTAT 59.429 47.619 0.91 0.00 43.76 1.40 F
3263 5245 0.679002 GCAGCAGAGGAGGCATGAAA 60.679 55.000 0.00 0.00 0.00 2.69 F
3390 5544 0.694771 ATGAACTTCCAGGAGCTGCA 59.305 50.000 8.35 0.00 0.00 4.41 F
3704 5858 1.005748 CTGACTTGAGCGCCTGTCA 60.006 57.895 17.12 17.12 37.76 3.58 F
4371 6526 1.115467 GATCTCCCTCACCGTGATGT 58.885 55.000 0.62 0.00 0.00 3.06 F
4479 6634 1.306141 AGGATGCCAAGGGAGACGA 60.306 57.895 0.00 0.00 0.00 4.20 F
4519 6674 2.325082 GCACGTCAACGGCAAGGAT 61.325 57.895 7.53 0.00 44.95 3.24 F
5772 7933 2.436417 TGTGCTTCAAAGTGGGCTATC 58.564 47.619 0.00 0.00 0.00 2.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1635 3225 0.946221 GGAGTGCACTGGACGTTGAG 60.946 60.000 27.27 0.00 0.00 3.02 R
1673 3263 3.522343 AGGGTAACAGTATCCTCCCAAAC 59.478 47.826 0.00 0.00 35.80 2.93 R
3263 5245 1.264749 TACGGCCTTCAGCACCAGAT 61.265 55.000 0.00 0.00 46.50 2.90 R
3265 5247 1.448540 CTACGGCCTTCAGCACCAG 60.449 63.158 0.00 0.00 46.50 4.00 R
4401 6556 0.386100 CTCTATGCGGACGATGTCGG 60.386 60.000 7.38 0.59 44.95 4.79 R
4519 6674 1.398692 GCTGTCCCCACAACTTTTCA 58.601 50.000 0.00 0.00 29.82 2.69 R
4707 6862 1.750193 TCTCGGCCACCAAATCAATC 58.250 50.000 2.24 0.00 0.00 2.67 R
5715 7876 3.694535 AACAACGTTACGCAATTTGGA 57.305 38.095 4.09 0.00 0.00 3.53 R
5772 7933 3.806316 AATGAGCGTGTTAAACCTTCG 57.194 42.857 0.00 0.00 0.00 3.79 R
5856 8017 5.945784 ACTTCCAAAGCATGAAGTAAGCATA 59.054 36.000 0.00 0.00 36.28 3.14 R
7529 17275 0.809385 GACACGACGATCCCTTGAGA 59.191 55.000 0.00 0.00 0.00 3.27 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
152 154 8.962111 GTCTCAAAATTTGTTCTCAAGATTCAC 58.038 33.333 5.56 0.00 34.88 3.18
566 582 9.388506 CTAATTGAACATGAGAATGTCTAGGTT 57.611 33.333 0.00 0.00 32.87 3.50
596 614 0.727398 GCACGGCAGACCAATTAGTC 59.273 55.000 0.00 0.00 37.01 2.59
641 664 6.776094 ACAGTGATAGCGCTATTTTCTTTTC 58.224 36.000 29.53 16.16 32.56 2.29
669 692 1.198094 TCCATCTCGGAAACCTGCCA 61.198 55.000 0.00 0.00 42.52 4.92
744 767 2.034879 GCACTTTGCCGCAGCTAGA 61.035 57.895 0.00 0.00 37.42 2.43
765 788 0.539901 GCCTATAGGAGCTCCCGTCA 60.540 60.000 29.54 12.59 40.87 4.35
766 789 1.893210 GCCTATAGGAGCTCCCGTCAT 60.893 57.143 29.54 18.50 40.87 3.06
767 790 2.530701 CCTATAGGAGCTCCCGTCATT 58.469 52.381 29.54 12.24 40.87 2.57
768 791 2.232452 CCTATAGGAGCTCCCGTCATTG 59.768 54.545 29.54 16.48 40.87 2.82
769 792 0.394565 ATAGGAGCTCCCGTCATTGC 59.605 55.000 29.54 0.46 40.87 3.56
770 793 1.686325 TAGGAGCTCCCGTCATTGCC 61.686 60.000 29.54 0.17 40.87 4.52
771 794 2.586792 GAGCTCCCGTCATTGCCT 59.413 61.111 0.87 0.00 0.00 4.75
772 795 1.078143 GAGCTCCCGTCATTGCCTT 60.078 57.895 0.87 0.00 0.00 4.35
773 796 1.372087 GAGCTCCCGTCATTGCCTTG 61.372 60.000 0.87 0.00 0.00 3.61
774 797 2.409870 GCTCCCGTCATTGCCTTGG 61.410 63.158 0.00 0.00 0.00 3.61
775 798 2.361104 TCCCGTCATTGCCTTGGC 60.361 61.111 4.43 4.43 0.00 4.52
776 799 3.451894 CCCGTCATTGCCTTGGCC 61.452 66.667 9.35 0.00 0.00 5.36
777 800 2.676121 CCGTCATTGCCTTGGCCA 60.676 61.111 0.00 0.00 0.00 5.36
778 801 2.053865 CCGTCATTGCCTTGGCCAT 61.054 57.895 6.09 0.34 0.00 4.40
779 802 1.434696 CGTCATTGCCTTGGCCATC 59.565 57.895 6.09 0.00 0.00 3.51
780 803 1.818555 GTCATTGCCTTGGCCATCC 59.181 57.895 6.09 0.00 0.00 3.51
781 804 0.971959 GTCATTGCCTTGGCCATCCA 60.972 55.000 6.09 0.46 41.55 3.41
794 817 5.596836 TGGCCATCCAAACAAAGATATTC 57.403 39.130 0.00 0.00 39.99 1.75
795 818 4.097741 TGGCCATCCAAACAAAGATATTCG 59.902 41.667 0.00 0.00 39.99 3.34
796 819 4.499696 GGCCATCCAAACAAAGATATTCGG 60.500 45.833 0.00 0.00 0.00 4.30
797 820 4.499696 GCCATCCAAACAAAGATATTCGGG 60.500 45.833 0.00 0.00 0.00 5.14
798 821 4.887071 CCATCCAAACAAAGATATTCGGGA 59.113 41.667 0.00 0.00 0.00 5.14
799 822 5.536161 CCATCCAAACAAAGATATTCGGGAT 59.464 40.000 0.00 0.00 33.09 3.85
800 823 6.040842 CCATCCAAACAAAGATATTCGGGATT 59.959 38.462 0.00 0.00 30.57 3.01
801 824 6.693315 TCCAAACAAAGATATTCGGGATTC 57.307 37.500 0.00 0.00 0.00 2.52
802 825 6.423182 TCCAAACAAAGATATTCGGGATTCT 58.577 36.000 0.00 0.00 0.00 2.40
803 826 6.542370 TCCAAACAAAGATATTCGGGATTCTC 59.458 38.462 0.00 0.00 0.00 2.87
804 827 6.318648 CCAAACAAAGATATTCGGGATTCTCA 59.681 38.462 0.00 0.00 0.00 3.27
805 828 7.148086 CCAAACAAAGATATTCGGGATTCTCAA 60.148 37.037 0.00 0.00 0.00 3.02
806 829 7.938140 AACAAAGATATTCGGGATTCTCAAA 57.062 32.000 0.00 0.00 0.00 2.69
807 830 8.525290 AACAAAGATATTCGGGATTCTCAAAT 57.475 30.769 0.00 0.00 0.00 2.32
808 831 7.934457 ACAAAGATATTCGGGATTCTCAAATG 58.066 34.615 0.00 0.00 0.00 2.32
809 832 6.566197 AAGATATTCGGGATTCTCAAATGC 57.434 37.500 0.00 0.00 32.79 3.56
810 833 5.006386 AGATATTCGGGATTCTCAAATGCC 58.994 41.667 0.00 0.00 46.84 4.40
816 839 2.830104 GGATTCTCAAATGCCAATGCC 58.170 47.619 0.00 0.00 36.33 4.40
817 840 2.168936 GGATTCTCAAATGCCAATGCCA 59.831 45.455 0.00 0.00 36.33 4.92
818 841 3.369681 GGATTCTCAAATGCCAATGCCAA 60.370 43.478 0.00 0.00 36.33 4.52
819 842 3.985019 TTCTCAAATGCCAATGCCAAT 57.015 38.095 0.00 0.00 36.33 3.16
820 843 3.985019 TCTCAAATGCCAATGCCAATT 57.015 38.095 0.00 0.00 36.33 2.32
821 844 4.289238 TCTCAAATGCCAATGCCAATTT 57.711 36.364 0.00 0.00 36.33 1.82
822 845 4.653868 TCTCAAATGCCAATGCCAATTTT 58.346 34.783 0.00 0.00 36.33 1.82
823 846 5.071370 TCTCAAATGCCAATGCCAATTTTT 58.929 33.333 0.00 0.00 36.33 1.94
824 847 5.048643 TCTCAAATGCCAATGCCAATTTTTG 60.049 36.000 0.00 0.00 36.33 2.44
839 862 6.667007 CAATTTTTGGGCCTCAATATCAAC 57.333 37.500 4.53 0.00 34.98 3.18
840 863 6.171921 CAATTTTTGGGCCTCAATATCAACA 58.828 36.000 4.53 0.00 34.98 3.33
841 864 6.564557 ATTTTTGGGCCTCAATATCAACAT 57.435 33.333 4.53 0.00 34.98 2.71
842 865 5.596836 TTTTGGGCCTCAATATCAACATC 57.403 39.130 4.53 0.00 34.98 3.06
843 866 3.228188 TGGGCCTCAATATCAACATCC 57.772 47.619 4.53 0.00 0.00 3.51
844 867 2.513317 TGGGCCTCAATATCAACATCCA 59.487 45.455 4.53 0.00 0.00 3.41
845 868 3.053019 TGGGCCTCAATATCAACATCCAA 60.053 43.478 4.53 0.00 0.00 3.53
846 869 3.960102 GGGCCTCAATATCAACATCCAAA 59.040 43.478 0.84 0.00 0.00 3.28
847 870 4.202151 GGGCCTCAATATCAACATCCAAAC 60.202 45.833 0.84 0.00 0.00 2.93
848 871 4.498009 GGCCTCAATATCAACATCCAAACG 60.498 45.833 0.00 0.00 0.00 3.60
849 872 4.335315 GCCTCAATATCAACATCCAAACGA 59.665 41.667 0.00 0.00 0.00 3.85
850 873 5.163663 GCCTCAATATCAACATCCAAACGAA 60.164 40.000 0.00 0.00 0.00 3.85
851 874 6.489675 CCTCAATATCAACATCCAAACGAAG 58.510 40.000 0.00 0.00 0.00 3.79
853 876 6.841119 TCAATATCAACATCCAAACGAAGTG 58.159 36.000 0.00 0.00 45.00 3.16
854 877 6.429692 TCAATATCAACATCCAAACGAAGTGT 59.570 34.615 0.00 0.00 45.00 3.55
855 878 4.749245 ATCAACATCCAAACGAAGTGTC 57.251 40.909 0.00 0.00 45.00 3.67
930 1380 4.260985 TGAACGTGTACGAACTAGGGATA 58.739 43.478 11.79 0.00 43.02 2.59
962 2552 2.125753 CTCTCTCCACGCCTGCAC 60.126 66.667 0.00 0.00 0.00 4.57
1003 2593 2.841988 AGGAGGGAGGCGAGATGC 60.842 66.667 0.00 0.00 45.38 3.91
1204 2794 2.041265 AGGCCGAGATGGGTTCCT 59.959 61.111 0.00 0.00 38.63 3.36
1208 2798 4.814900 CGAGATGGGTTCCTCGTG 57.185 61.111 0.00 0.00 44.99 4.35
1264 2854 8.497910 AATGCACTCTATTCCTCTTCCTATTA 57.502 34.615 0.00 0.00 0.00 0.98
1457 3047 4.946478 ACTACCAGTGATCTATTGAGGC 57.054 45.455 0.00 0.00 0.00 4.70
1458 3048 2.898729 ACCAGTGATCTATTGAGGCG 57.101 50.000 0.00 0.00 0.00 5.52
1459 3049 2.388735 ACCAGTGATCTATTGAGGCGA 58.611 47.619 0.00 0.00 0.00 5.54
1460 3050 2.363680 ACCAGTGATCTATTGAGGCGAG 59.636 50.000 0.00 0.00 0.00 5.03
1461 3051 2.363680 CCAGTGATCTATTGAGGCGAGT 59.636 50.000 0.00 0.00 0.00 4.18
1462 3052 3.570125 CCAGTGATCTATTGAGGCGAGTA 59.430 47.826 0.00 0.00 0.00 2.59
1463 3053 4.219507 CCAGTGATCTATTGAGGCGAGTAT 59.780 45.833 0.00 0.00 0.00 2.12
1589 3179 4.734108 GCCATCTCGGTAGACAAAGTAGTC 60.734 50.000 0.00 0.00 36.51 2.59
1618 3208 2.345617 TGACGAATTGGAGCGGCA 59.654 55.556 1.45 0.00 44.33 5.69
1635 3225 1.933853 GGCATAGTCGATCACAACACC 59.066 52.381 0.00 0.00 0.00 4.16
1739 3329 1.570501 TGCAGGAATGCCCTCCTTTAT 59.429 47.619 0.91 0.00 43.76 1.40
1740 3330 2.782925 TGCAGGAATGCCCTCCTTTATA 59.217 45.455 0.91 0.00 43.76 0.98
1801 3391 2.671070 CCCCTCATTCACAGGCGT 59.329 61.111 0.00 0.00 0.00 5.68
1940 3530 5.957842 TGTTACTTCAGCCAACCAATAAG 57.042 39.130 0.00 0.00 0.00 1.73
2349 3939 5.841810 TCAATTGGGACTTAAGTGCTTTTG 58.158 37.500 24.08 21.81 36.56 2.44
2777 4758 2.606587 AAGGCAATGGAGGCGAGGT 61.607 57.895 0.00 0.00 39.37 3.85
3220 5202 3.126225 GGACAGCAGAGCAGCAGC 61.126 66.667 0.00 0.00 42.56 5.25
3263 5245 0.679002 GCAGCAGAGGAGGCATGAAA 60.679 55.000 0.00 0.00 0.00 2.69
3265 5247 1.948145 CAGCAGAGGAGGCATGAAATC 59.052 52.381 0.00 0.00 0.00 2.17
3390 5544 0.694771 ATGAACTTCCAGGAGCTGCA 59.305 50.000 8.35 0.00 0.00 4.41
3704 5858 1.005748 CTGACTTGAGCGCCTGTCA 60.006 57.895 17.12 17.12 37.76 3.58
4161 6316 2.899838 GCACCGTGTCCACAAGCA 60.900 61.111 0.00 0.00 0.00 3.91
4371 6526 1.115467 GATCTCCCTCACCGTGATGT 58.885 55.000 0.62 0.00 0.00 3.06
4479 6634 1.306141 AGGATGCCAAGGGAGACGA 60.306 57.895 0.00 0.00 0.00 4.20
4495 6650 3.245797 AGACGACACACTTGATCAATCG 58.754 45.455 21.01 21.01 0.00 3.34
4519 6674 2.325082 GCACGTCAACGGCAAGGAT 61.325 57.895 7.53 0.00 44.95 3.24
4707 6862 5.805994 GTGAGTTAGGAGTTTGATAGGTTCG 59.194 44.000 0.00 0.00 0.00 3.95
4806 6961 4.901197 TGGCTCTTGGACTAACAATACA 57.099 40.909 0.00 0.00 0.00 2.29
4825 6980 4.322057 ACAAGGCAATCCCAGTATTCTT 57.678 40.909 0.00 0.00 35.39 2.52
4984 7139 5.848559 GTCTTCTTGCTTTCGTTGAAGATTC 59.151 40.000 0.00 0.00 42.97 2.52
5163 7323 6.207614 GGTCTATTTTTCTCACTTGCTTCCTT 59.792 38.462 0.00 0.00 0.00 3.36
5677 7838 3.587797 AAATGAAAGGCTGTGCTGATG 57.412 42.857 0.00 0.00 0.00 3.07
5699 7860 6.995511 TGCTGGTTATATTTGGTAACTGTC 57.004 37.500 0.00 0.00 33.60 3.51
5715 7876 8.321353 TGGTAACTGTCAGATCTTCATTACATT 58.679 33.333 6.91 0.00 37.61 2.71
5772 7933 2.436417 TGTGCTTCAAAGTGGGCTATC 58.564 47.619 0.00 0.00 0.00 2.08
5856 8017 2.355716 CCCTGGTGTTGTGAATACCGAT 60.356 50.000 0.00 0.00 44.79 4.18
6199 8362 2.679837 CCACATTCCAGCAGTACATCAC 59.320 50.000 0.00 0.00 0.00 3.06
6406 8577 5.883115 TCTACATCTGGTCTCTTGTCTACAG 59.117 44.000 0.00 0.00 0.00 2.74
6463 8634 5.812642 CAGTTACAGCTTATAACCAGGAGTG 59.187 44.000 12.17 2.52 33.74 3.51
6472 8643 6.148480 GCTTATAACCAGGAGTGCTAATCATG 59.852 42.308 0.00 0.00 0.00 3.07
6785 8959 2.162681 CTTTCCGAACTGCTTCCCAAT 58.837 47.619 0.00 0.00 0.00 3.16
6797 8971 4.095946 TGCTTCCCAATAATTCAAAGCCT 58.904 39.130 0.00 0.00 38.61 4.58
6994 9194 2.351706 AAGACCCGGCAGTTGTTTTA 57.648 45.000 0.00 0.00 0.00 1.52
6999 9199 1.950909 CCCGGCAGTTGTTTTACAAGA 59.049 47.619 0.00 0.00 39.00 3.02
7002 9202 3.042887 CGGCAGTTGTTTTACAAGAAGC 58.957 45.455 0.00 0.00 39.00 3.86
7003 9203 3.243068 CGGCAGTTGTTTTACAAGAAGCT 60.243 43.478 0.00 0.00 39.00 3.74
7004 9204 4.024387 CGGCAGTTGTTTTACAAGAAGCTA 60.024 41.667 0.00 0.00 39.00 3.32
7212 9425 1.098869 TGTTTCACTTTGCTTCCGCA 58.901 45.000 0.00 0.00 46.24 5.69
7222 9435 2.742372 CTTCCGCACACCCCTTCG 60.742 66.667 0.00 0.00 0.00 3.79
7235 9448 1.247567 CCCTTCGTGCAACCATTCTT 58.752 50.000 0.00 0.00 0.00 2.52
7239 9452 3.364964 CCTTCGTGCAACCATTCTTGTAC 60.365 47.826 0.00 0.00 34.44 2.90
7242 9455 3.889196 GTGCAACCATTCTTGTACGAA 57.111 42.857 0.00 0.00 28.84 3.85
7250 9463 8.372521 GCAACCATTCTTGTACGAAAATTAATG 58.627 33.333 0.00 0.00 0.00 1.90
7303 9517 9.305555 CCAATTGAAAGGATCCATATAGTTGAT 57.694 33.333 15.82 0.00 0.00 2.57
7311 9525 6.905776 AGGATCCATATAGTTGATTAGAGGGG 59.094 42.308 15.82 0.00 0.00 4.79
7533 17279 3.379445 GGAACCGACGCCCTCTCA 61.379 66.667 0.00 0.00 0.00 3.27
7554 17300 0.100861 GGGATCGTCGTGTCTCTTCC 59.899 60.000 0.00 0.00 0.00 3.46
7571 17317 4.300345 TCTTCCGGACATATAAAAGGGGA 58.700 43.478 1.83 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 91 9.883142 TTTGAAAAATACTGAACAAACTTGGAT 57.117 25.926 0.00 0.00 0.00 3.41
179 184 3.248363 GTGAACAAATTTGGAAAGCTGGC 59.752 43.478 21.74 1.88 0.00 4.85
417 428 5.106673 CGACCTCCTACAACTGAATTTTTCC 60.107 44.000 0.00 0.00 0.00 3.13
450 463 7.039363 CCAAAAACTACAGTCCATTTATTGGGA 60.039 37.037 0.00 0.00 46.45 4.37
566 582 1.153147 TGCCGTGCAAACCACTACA 60.153 52.632 0.00 0.00 42.42 2.74
596 614 0.660595 ACTCGAACACGCGACTTCAG 60.661 55.000 15.93 13.83 36.17 3.02
641 664 1.939974 TCCGAGATGGAAAATCGCAG 58.060 50.000 0.00 0.00 46.38 5.18
741 764 1.641714 GGGAGCTCCTATAGGCCTCTA 59.358 57.143 31.36 2.12 35.23 2.43
744 767 1.077625 CGGGAGCTCCTATAGGCCT 59.922 63.158 31.36 11.78 35.95 5.19
772 795 4.097741 CGAATATCTTTGTTTGGATGGCCA 59.902 41.667 8.56 8.56 44.17 5.36
773 796 4.499696 CCGAATATCTTTGTTTGGATGGCC 60.500 45.833 0.00 0.00 30.78 5.36
774 797 4.499696 CCCGAATATCTTTGTTTGGATGGC 60.500 45.833 0.00 0.00 30.78 4.40
775 798 4.887071 TCCCGAATATCTTTGTTTGGATGG 59.113 41.667 0.00 0.00 30.78 3.51
776 799 6.639632 ATCCCGAATATCTTTGTTTGGATG 57.360 37.500 0.00 0.00 30.78 3.51
777 800 7.062957 AGAATCCCGAATATCTTTGTTTGGAT 58.937 34.615 0.00 0.00 30.78 3.41
778 801 6.423182 AGAATCCCGAATATCTTTGTTTGGA 58.577 36.000 0.00 0.00 30.78 3.53
779 802 6.318648 TGAGAATCCCGAATATCTTTGTTTGG 59.681 38.462 0.00 0.00 0.00 3.28
780 803 7.320443 TGAGAATCCCGAATATCTTTGTTTG 57.680 36.000 0.00 0.00 0.00 2.93
781 804 7.938140 TTGAGAATCCCGAATATCTTTGTTT 57.062 32.000 0.00 0.00 0.00 2.83
782 805 7.938140 TTTGAGAATCCCGAATATCTTTGTT 57.062 32.000 0.00 0.00 0.00 2.83
783 806 7.469181 GCATTTGAGAATCCCGAATATCTTTGT 60.469 37.037 0.00 0.00 0.00 2.83
784 807 6.860023 GCATTTGAGAATCCCGAATATCTTTG 59.140 38.462 0.00 0.00 0.00 2.77
785 808 6.015940 GGCATTTGAGAATCCCGAATATCTTT 60.016 38.462 0.00 0.00 0.00 2.52
786 809 5.474876 GGCATTTGAGAATCCCGAATATCTT 59.525 40.000 0.00 0.00 0.00 2.40
787 810 5.006386 GGCATTTGAGAATCCCGAATATCT 58.994 41.667 0.00 0.00 0.00 1.98
788 811 4.761739 TGGCATTTGAGAATCCCGAATATC 59.238 41.667 0.00 0.00 0.00 1.63
789 812 4.728772 TGGCATTTGAGAATCCCGAATAT 58.271 39.130 0.00 0.00 0.00 1.28
790 813 4.163441 TGGCATTTGAGAATCCCGAATA 57.837 40.909 0.00 0.00 0.00 1.75
791 814 3.017048 TGGCATTTGAGAATCCCGAAT 57.983 42.857 0.00 0.00 0.00 3.34
792 815 2.505650 TGGCATTTGAGAATCCCGAA 57.494 45.000 0.00 0.00 0.00 4.30
793 816 2.505650 TTGGCATTTGAGAATCCCGA 57.494 45.000 0.00 0.00 0.00 5.14
794 817 2.800629 GCATTGGCATTTGAGAATCCCG 60.801 50.000 2.44 0.00 40.72 5.14
795 818 2.484241 GGCATTGGCATTTGAGAATCCC 60.484 50.000 5.17 0.00 43.71 3.85
796 819 2.168936 TGGCATTGGCATTTGAGAATCC 59.831 45.455 9.11 0.00 43.71 3.01
797 820 3.530265 TGGCATTGGCATTTGAGAATC 57.470 42.857 9.11 0.00 43.71 2.52
798 821 3.985019 TTGGCATTGGCATTTGAGAAT 57.015 38.095 14.21 0.00 43.71 2.40
799 822 3.985019 ATTGGCATTGGCATTTGAGAA 57.015 38.095 14.21 0.00 43.71 2.87
800 823 3.985019 AATTGGCATTGGCATTTGAGA 57.015 38.095 14.21 0.00 43.71 3.27
801 824 5.157781 CAAAAATTGGCATTGGCATTTGAG 58.842 37.500 23.12 11.92 43.71 3.02
802 825 4.022242 CCAAAAATTGGCATTGGCATTTGA 60.022 37.500 26.57 10.86 45.17 2.69
803 826 4.238514 CCAAAAATTGGCATTGGCATTTG 58.761 39.130 21.66 21.66 45.17 2.32
804 827 4.522722 CCAAAAATTGGCATTGGCATTT 57.477 36.364 14.21 13.44 45.17 2.32
816 839 6.171921 TGTTGATATTGAGGCCCAAAAATTG 58.828 36.000 10.21 0.00 38.43 2.32
817 840 6.371595 TGTTGATATTGAGGCCCAAAAATT 57.628 33.333 10.21 0.00 38.43 1.82
818 841 6.408434 GGATGTTGATATTGAGGCCCAAAAAT 60.408 38.462 10.21 7.52 38.43 1.82
819 842 5.104982 GGATGTTGATATTGAGGCCCAAAAA 60.105 40.000 10.21 3.56 38.43 1.94
820 843 4.405358 GGATGTTGATATTGAGGCCCAAAA 59.595 41.667 10.21 0.00 38.43 2.44
821 844 3.960102 GGATGTTGATATTGAGGCCCAAA 59.040 43.478 10.21 0.48 38.43 3.28
822 845 3.053019 TGGATGTTGATATTGAGGCCCAA 60.053 43.478 0.00 3.76 39.41 4.12
823 846 2.513317 TGGATGTTGATATTGAGGCCCA 59.487 45.455 0.00 0.00 0.00 5.36
824 847 3.228188 TGGATGTTGATATTGAGGCCC 57.772 47.619 0.00 0.00 0.00 5.80
825 848 4.498009 CGTTTGGATGTTGATATTGAGGCC 60.498 45.833 0.00 0.00 0.00 5.19
826 849 4.335315 TCGTTTGGATGTTGATATTGAGGC 59.665 41.667 0.00 0.00 0.00 4.70
827 850 6.094048 ACTTCGTTTGGATGTTGATATTGAGG 59.906 38.462 0.00 0.00 29.33 3.86
828 851 6.963242 CACTTCGTTTGGATGTTGATATTGAG 59.037 38.462 0.00 0.00 31.17 3.02
829 852 6.429692 ACACTTCGTTTGGATGTTGATATTGA 59.570 34.615 0.00 0.00 31.17 2.57
830 853 6.611381 ACACTTCGTTTGGATGTTGATATTG 58.389 36.000 0.00 0.00 31.17 1.90
831 854 6.429692 TGACACTTCGTTTGGATGTTGATATT 59.570 34.615 0.00 0.00 31.17 1.28
832 855 5.937540 TGACACTTCGTTTGGATGTTGATAT 59.062 36.000 0.00 0.00 31.17 1.63
833 856 5.301555 TGACACTTCGTTTGGATGTTGATA 58.698 37.500 0.00 0.00 31.17 2.15
834 857 4.133820 TGACACTTCGTTTGGATGTTGAT 58.866 39.130 0.00 0.00 31.17 2.57
835 858 3.536570 TGACACTTCGTTTGGATGTTGA 58.463 40.909 0.00 0.00 31.17 3.18
836 859 3.961477 TGACACTTCGTTTGGATGTTG 57.039 42.857 0.00 0.00 31.17 3.33
837 860 4.398044 AGTTTGACACTTCGTTTGGATGTT 59.602 37.500 0.00 0.00 31.17 2.71
838 861 3.945285 AGTTTGACACTTCGTTTGGATGT 59.055 39.130 0.00 0.00 33.62 3.06
839 862 4.552166 AGTTTGACACTTCGTTTGGATG 57.448 40.909 0.00 0.00 27.32 3.51
840 863 5.124776 TGAAAGTTTGACACTTCGTTTGGAT 59.875 36.000 0.00 0.00 45.77 3.41
841 864 4.456222 TGAAAGTTTGACACTTCGTTTGGA 59.544 37.500 0.00 0.00 45.77 3.53
842 865 4.728534 TGAAAGTTTGACACTTCGTTTGG 58.271 39.130 0.00 0.00 45.77 3.28
843 866 5.060446 GGTTGAAAGTTTGACACTTCGTTTG 59.940 40.000 0.00 0.00 45.77 2.93
844 867 5.158494 GGTTGAAAGTTTGACACTTCGTTT 58.842 37.500 0.00 0.00 45.77 3.60
845 868 4.216687 TGGTTGAAAGTTTGACACTTCGTT 59.783 37.500 0.00 0.00 45.77 3.85
846 869 3.754323 TGGTTGAAAGTTTGACACTTCGT 59.246 39.130 0.00 0.00 45.77 3.85
847 870 4.349663 TGGTTGAAAGTTTGACACTTCG 57.650 40.909 0.00 0.00 45.77 3.79
848 871 6.035975 CCATTTGGTTGAAAGTTTGACACTTC 59.964 38.462 0.00 0.00 45.77 3.01
849 872 6.295575 TCCATTTGGTTGAAAGTTTGACACTT 60.296 34.615 0.00 0.00 41.09 3.16
850 873 5.186797 TCCATTTGGTTGAAAGTTTGACACT 59.813 36.000 0.00 0.00 34.96 3.55
851 874 5.415221 TCCATTTGGTTGAAAGTTTGACAC 58.585 37.500 0.00 0.00 36.34 3.67
852 875 5.186797 ACTCCATTTGGTTGAAAGTTTGACA 59.813 36.000 0.00 0.00 36.34 3.58
853 876 5.519927 CACTCCATTTGGTTGAAAGTTTGAC 59.480 40.000 0.00 0.00 36.34 3.18
854 877 5.395103 CCACTCCATTTGGTTGAAAGTTTGA 60.395 40.000 0.00 0.00 36.34 2.69
855 878 4.810491 CCACTCCATTTGGTTGAAAGTTTG 59.190 41.667 0.00 0.00 36.34 2.93
891 914 2.129146 CATGGGCCAATGGACGCAT 61.129 57.895 11.89 16.17 39.74 4.73
930 1380 3.637273 GAGGCCCGTGACCTGGTT 61.637 66.667 0.00 0.00 37.77 3.67
1208 2798 1.282930 GACGGTGAGAAAGTGGCGAC 61.283 60.000 0.00 0.00 0.00 5.19
1264 2854 5.877012 CAGTACAATCAGTAAGCATGAGGTT 59.123 40.000 0.00 0.00 39.18 3.50
1355 2945 6.018180 GGACGGATCGAGCTAAAATTGTTATT 60.018 38.462 0.00 0.00 0.00 1.40
1457 3047 0.458543 AGCAGTTGCACCGATACTCG 60.459 55.000 6.90 0.00 45.16 4.18
1458 3048 2.579207 TAGCAGTTGCACCGATACTC 57.421 50.000 6.90 0.00 45.16 2.59
1459 3049 3.458189 GATTAGCAGTTGCACCGATACT 58.542 45.455 6.90 0.00 45.16 2.12
1460 3050 2.218759 CGATTAGCAGTTGCACCGATAC 59.781 50.000 6.90 0.00 45.16 2.24
1461 3051 2.469826 CGATTAGCAGTTGCACCGATA 58.530 47.619 6.90 0.00 45.16 2.92
1462 3052 1.290203 CGATTAGCAGTTGCACCGAT 58.710 50.000 6.90 0.00 45.16 4.18
1463 3053 0.739462 CCGATTAGCAGTTGCACCGA 60.739 55.000 6.90 0.00 45.16 4.69
1517 3107 7.291411 TCTACTACCCTCTAATTTCTGCATC 57.709 40.000 0.00 0.00 0.00 3.91
1589 3179 2.586258 ATTCGTCATCAACCTCGGAG 57.414 50.000 0.00 0.00 0.00 4.63
1618 3208 4.495422 GTTGAGGTGTTGTGATCGACTAT 58.505 43.478 0.00 0.00 0.00 2.12
1635 3225 0.946221 GGAGTGCACTGGACGTTGAG 60.946 60.000 27.27 0.00 0.00 3.02
1673 3263 3.522343 AGGGTAACAGTATCCTCCCAAAC 59.478 47.826 0.00 0.00 35.80 2.93
1739 3329 8.739972 CCCATGTCATATACAGCGCTATATATA 58.260 37.037 23.97 18.70 42.70 0.86
1740 3330 7.451566 TCCCATGTCATATACAGCGCTATATAT 59.548 37.037 20.03 20.03 42.70 0.86
1940 3530 4.719040 AGATACAAAACGCACGAAAATCC 58.281 39.130 0.00 0.00 0.00 3.01
2236 3826 7.945033 TGAGCTAAAATTGGCAACTAAAAAG 57.055 32.000 0.00 0.00 37.10 2.27
2349 3939 7.226720 TGCAGCTAAAGTAAGTATCATTAAGCC 59.773 37.037 0.00 0.00 0.00 4.35
2620 4215 6.038050 CCTTGTTGAGAAGATTAAGGATGAGC 59.962 42.308 0.00 0.00 37.46 4.26
3161 5142 2.044650 GATGCTTGCCTGGCTCCA 60.045 61.111 21.03 13.85 0.00 3.86
3220 5202 1.807165 CACCGAGACGATGCACCAG 60.807 63.158 0.00 0.00 0.00 4.00
3263 5245 1.264749 TACGGCCTTCAGCACCAGAT 61.265 55.000 0.00 0.00 46.50 2.90
3265 5247 1.448540 CTACGGCCTTCAGCACCAG 60.449 63.158 0.00 0.00 46.50 4.00
3390 5544 3.200605 TGCTATCAGACCACACATTCCAT 59.799 43.478 0.00 0.00 0.00 3.41
3407 5561 3.950395 GGTTCTCTGCAAAATCCTGCTAT 59.050 43.478 0.00 0.00 43.07 2.97
3627 5781 2.747686 GCCGGAAACTGAGGACCA 59.252 61.111 5.05 0.00 0.00 4.02
3704 5858 4.510167 ATTTTGAGAGGACCGATGGATT 57.490 40.909 0.00 0.00 0.00 3.01
3792 5946 2.353406 GCAACTTAGACCTGCGGTTCTA 60.353 50.000 0.00 0.00 35.25 2.10
3889 6043 2.685999 GAGGCCTTGGCATCCCTT 59.314 61.111 6.77 0.00 0.00 3.95
3971 6126 3.971702 GTTCCTGTGGGCTGGGCT 61.972 66.667 0.00 0.00 34.83 5.19
4190 6345 2.108168 CTGGGAATTCTCCTCACGGTA 58.892 52.381 2.04 0.00 42.05 4.02
4278 6433 4.087892 CACCCTCCTCCACTGCGG 62.088 72.222 0.00 0.00 0.00 5.69
4401 6556 0.386100 CTCTATGCGGACGATGTCGG 60.386 60.000 7.38 0.59 44.95 4.79
4415 6570 1.709578 TCCTGGCAATCTCGCTCTAT 58.290 50.000 0.00 0.00 0.00 1.98
4473 6628 3.301906 CGATTGATCAAGTGTGTCGTCTC 59.698 47.826 14.54 1.60 0.00 3.36
4479 6634 1.453155 GGGCGATTGATCAAGTGTGT 58.547 50.000 14.54 0.00 0.00 3.72
4519 6674 1.398692 GCTGTCCCCACAACTTTTCA 58.601 50.000 0.00 0.00 29.82 2.69
4707 6862 1.750193 TCTCGGCCACCAAATCAATC 58.250 50.000 2.24 0.00 0.00 2.67
4806 6961 6.774656 CAGAATAAGAATACTGGGATTGCCTT 59.225 38.462 0.00 0.00 0.00 4.35
4825 6980 5.435686 AGTTAGCAACCATGACCAGAATA 57.564 39.130 0.00 0.00 0.00 1.75
4984 7139 4.082026 CCTGCTAAATTTTCCCTTCACTGG 60.082 45.833 0.00 0.00 0.00 4.00
5134 7294 5.239525 AGCAAGTGAGAAAAATAGACCACAC 59.760 40.000 0.00 0.00 0.00 3.82
5197 7357 4.284490 TCAGACCTCTACAAAGAAGCACAT 59.716 41.667 0.00 0.00 0.00 3.21
5677 7838 6.821665 TCTGACAGTTACCAAATATAACCAGC 59.178 38.462 1.59 0.00 33.74 4.85
5699 7860 7.166970 CGCAATTTGGAATGTAATGAAGATCTG 59.833 37.037 0.00 0.00 0.00 2.90
5715 7876 3.694535 AACAACGTTACGCAATTTGGA 57.305 38.095 4.09 0.00 0.00 3.53
5772 7933 3.806316 AATGAGCGTGTTAAACCTTCG 57.194 42.857 0.00 0.00 0.00 3.79
5856 8017 5.945784 ACTTCCAAAGCATGAAGTAAGCATA 59.054 36.000 0.00 0.00 36.28 3.14
6199 8362 7.875041 CCTCTGAAACATTAGTATGACTATGGG 59.125 40.741 0.00 0.00 35.65 4.00
6348 8519 7.025485 GCTCTAAATCAAGCAAATAAGAGCT 57.975 36.000 12.45 0.00 47.00 4.09
6463 8634 6.604735 AATCGTCTGGTTAACATGATTAGC 57.395 37.500 8.10 0.00 0.00 3.09
6634 8805 5.136816 ACAACATAATTGATGCAACAGCA 57.863 34.783 0.00 0.00 43.41 4.41
6785 8959 7.668052 TCTTAGTTTGGCTTAGGCTTTGAATTA 59.332 33.333 7.43 0.00 38.73 1.40
6920 9118 5.431179 AAAATAGAATACCAGTCACGGGT 57.569 39.130 4.55 4.55 42.48 5.28
7122 9323 9.981114 TGGTTTTTCCTCTTCATTTCTTAATTC 57.019 29.630 0.00 0.00 37.07 2.17
7173 9386 9.959749 TGAAACATGAAACCTTACTATGTTTTC 57.040 29.630 12.96 8.40 46.18 2.29
7178 9391 9.398170 CAAAGTGAAACATGAAACCTTACTATG 57.602 33.333 0.00 0.00 41.43 2.23
7212 9425 2.203294 GGTTGCACGAAGGGGTGT 60.203 61.111 0.00 0.00 40.08 4.16
7222 9435 3.889196 TTCGTACAAGAATGGTTGCAC 57.111 42.857 0.00 0.00 0.00 4.57
7321 9535 5.748670 TGGTAGTTGCCTATTCACTAACA 57.251 39.130 0.00 0.00 0.00 2.41
7324 9548 8.644374 AAAAATTGGTAGTTGCCTATTCACTA 57.356 30.769 0.00 0.00 33.93 2.74
7369 9593 5.885352 TGGACAAGCTATTTATTGCTAAGCA 59.115 36.000 0.00 0.00 37.88 3.91
7370 9594 6.260936 TCTGGACAAGCTATTTATTGCTAAGC 59.739 38.462 0.00 0.00 37.88 3.09
7379 9603 5.903010 TCCACCTATCTGGACAAGCTATTTA 59.097 40.000 0.00 0.00 35.23 1.40
7529 17275 0.809385 GACACGACGATCCCTTGAGA 59.191 55.000 0.00 0.00 0.00 3.27
7533 17279 1.473278 GAAGAGACACGACGATCCCTT 59.527 52.381 0.00 0.87 0.00 3.95


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

AutoCloner maintained by Alex Coulton.