Multiple sequence alignment - TraesCS7D01G258700

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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 TraesCS7D01G258700 chr7D 100.000 8185 0 0 1 8185 234357036 234348852 0.000000e+00 15115.0
1 TraesCS7D01G258700 chr7D 89.542 765 69 6 1568 2324 234655407 234654646 0.000000e+00 959.0
2 TraesCS7D01G258700 chr7D 87.732 701 42 22 715 1390 234561917 234561236 0.000000e+00 778.0
3 TraesCS7D01G258700 chr7D 86.326 724 63 16 1577 2293 234561226 234560532 0.000000e+00 756.0
4 TraesCS7D01G258700 chr7D 79.144 724 127 14 4155 4861 234652371 234651655 5.750000e-131 479.0
5 TraesCS7D01G258700 chr7D 78.371 712 129 15 4157 4861 234558290 234557597 9.750000e-119 438.0
6 TraesCS7D01G258700 chr7D 91.903 247 17 3 3212 3457 234353552 234353308 7.870000e-90 342.0
7 TraesCS7D01G258700 chr7D 91.903 247 17 3 3485 3729 234353825 234353580 7.870000e-90 342.0
8 TraesCS7D01G258700 chr7D 97.241 145 2 2 5678 5820 266214245 266214389 2.280000e-60 244.0
9 TraesCS7D01G258700 chr7D 100.000 85 0 0 6743 6827 234350210 234350126 3.060000e-34 158.0
10 TraesCS7D01G258700 chr7D 100.000 85 0 0 6827 6911 234350294 234350210 3.060000e-34 158.0
11 TraesCS7D01G258700 chr7D 100.000 30 0 0 6759 6788 566095610 566095639 1.000000e-03 56.5
12 TraesCS7D01G258700 chr7D 100.000 30 0 0 6843 6872 566095610 566095639 1.000000e-03 56.5
13 TraesCS7D01G258700 chr7B 96.496 4880 107 18 848 5677 206344973 206340108 0.000000e+00 8006.0
14 TraesCS7D01G258700 chr7B 94.757 1316 55 7 3286 4592 209144530 209143220 0.000000e+00 2036.0
15 TraesCS7D01G258700 chr7B 95.800 1000 36 4 5834 6827 206340084 206339085 0.000000e+00 1609.0
16 TraesCS7D01G258700 chr7B 86.787 1438 59 52 6821 8183 206339174 206337793 0.000000e+00 1482.0
17 TraesCS7D01G258700 chr7B 92.169 830 51 7 2910 3729 209145652 209144827 0.000000e+00 1160.0
18 TraesCS7D01G258700 chr7B 94.173 738 39 2 1 734 206346620 206345883 0.000000e+00 1122.0
19 TraesCS7D01G258700 chr7B 88.411 768 56 15 1568 2324 209646719 209645974 0.000000e+00 894.0
20 TraesCS7D01G258700 chr7B 85.827 762 75 18 5887 6633 209139043 209138300 0.000000e+00 778.0
21 TraesCS7D01G258700 chr7B 84.480 741 57 21 1577 2293 209148572 209147866 0.000000e+00 678.0
22 TraesCS7D01G258700 chr7B 83.449 719 56 27 1603 2293 206516731 206516048 1.950000e-170 610.0
23 TraesCS7D01G258700 chr7B 94.986 359 13 4 6918 7273 209138293 209137937 7.170000e-155 558.0
24 TraesCS7D01G258700 chr7B 78.809 722 128 13 4157 4861 209323332 209322619 5.790000e-126 462.0
25 TraesCS7D01G258700 chr7B 78.670 722 130 16 4157 4861 206513806 206513092 7.490000e-125 459.0
26 TraesCS7D01G258700 chr7B 78.591 724 131 14 4155 4861 209643700 209642984 2.690000e-124 457.0
27 TraesCS7D01G258700 chr7B 90.909 341 20 5 3212 3546 209145073 209144738 1.620000e-121 448.0
28 TraesCS7D01G258700 chr7B 89.329 328 14 7 1092 1414 206517052 206516741 7.700000e-105 392.0
29 TraesCS7D01G258700 chr7B 92.664 259 3 3 848 1100 206345777 206345529 7.810000e-95 359.0
30 TraesCS7D01G258700 chr7B 84.794 388 24 10 1091 1478 209148971 209148619 2.810000e-94 357.0
31 TraesCS7D01G258700 chr7B 91.506 259 17 4 3473 3729 206342586 206342331 1.310000e-92 351.0
32 TraesCS7D01G258700 chr7B 91.057 246 20 2 3212 3457 206342303 206342060 1.700000e-86 331.0
33 TraesCS7D01G258700 chr7B 84.765 361 13 10 715 1039 206517405 206517051 2.850000e-84 324.0
34 TraesCS7D01G258700 chr7B 85.057 348 13 9 715 1028 209149530 209149188 1.330000e-82 318.0
35 TraesCS7D01G258700 chr7B 92.982 171 11 1 3559 3729 209144530 209144361 1.760000e-61 248.0
36 TraesCS7D01G258700 chr7B 92.381 105 3 1 1310 1414 209148668 209148569 2.380000e-30 145.0
37 TraesCS7D01G258700 chr7B 91.765 85 4 2 769 850 206345883 206345799 1.870000e-21 115.0
38 TraesCS7D01G258700 chr7B 75.641 234 48 9 5270 5498 226586501 226586272 3.120000e-19 108.0
39 TraesCS7D01G258700 chr7B 94.118 68 4 0 1411 1478 206516858 206516791 4.040000e-18 104.0
40 TraesCS7D01G258700 chr7B 97.872 47 1 0 804 850 206345041 206344995 1.890000e-11 82.4
41 TraesCS7D01G258700 chr7B 85.333 75 6 2 5812 5881 616756885 616756959 1.140000e-08 73.1
42 TraesCS7D01G258700 chr7A 97.020 2752 48 13 2947 5688 247259773 247257046 0.000000e+00 4597.0
43 TraesCS7D01G258700 chr7A 91.320 1371 49 36 823 2147 247275033 247273687 0.000000e+00 1808.0
44 TraesCS7D01G258700 chr7A 96.840 981 25 5 5812 6790 247257047 247256071 0.000000e+00 1635.0
45 TraesCS7D01G258700 chr7A 87.357 1226 75 25 1115 2293 248544928 248543736 0.000000e+00 1332.0
46 TraesCS7D01G258700 chr7A 95.706 815 35 0 2141 2955 247268480 247267666 0.000000e+00 1312.0
47 TraesCS7D01G258700 chr7A 87.310 922 74 25 6828 7724 247256118 247255215 0.000000e+00 1014.0
48 TraesCS7D01G258700 chr7A 90.922 716 53 7 1584 2291 249283233 249282522 0.000000e+00 952.0
49 TraesCS7D01G258700 chr7A 83.894 714 54 24 1574 2261 248936043 248936721 6.970000e-175 625.0
50 TraesCS7D01G258700 chr7A 85.192 574 49 19 715 1272 248935399 248935952 2.580000e-154 556.0
51 TraesCS7D01G258700 chr7A 78.601 715 135 12 4155 4861 248541413 248540709 2.690000e-124 457.0
52 TraesCS7D01G258700 chr7A 77.854 727 128 17 4152 4861 248938939 248939649 3.530000e-113 420.0
53 TraesCS7D01G258700 chr7A 92.276 246 17 2 3212 3457 247259242 247258999 1.690000e-91 348.0
54 TraesCS7D01G258700 chr7A 89.057 265 13 5 3473 3729 247259526 247259270 1.710000e-81 315.0
55 TraesCS7D01G258700 chr7A 86.010 193 11 6 7721 7913 247252814 247252638 8.380000e-45 193.0
56 TraesCS7D01G258700 chr7A 85.864 191 5 8 8002 8185 247252615 247252440 5.050000e-42 183.0
57 TraesCS7D01G258700 chr7A 89.091 110 8 1 687 792 248546605 248546496 5.150000e-27 134.0
58 TraesCS7D01G258700 chr3B 91.319 2108 138 14 2286 4379 145508280 145506204 0.000000e+00 2837.0
59 TraesCS7D01G258700 chr3B 92.171 562 40 2 4407 4966 145506209 145505650 0.000000e+00 791.0
60 TraesCS7D01G258700 chr3B 88.820 322 28 5 5065 5385 145505657 145505343 9.960000e-104 388.0
61 TraesCS7D01G258700 chr3B 89.879 247 12 4 1605 1844 145509031 145508791 1.030000e-78 305.0
62 TraesCS7D01G258700 chr3B 97.163 141 4 0 5680 5820 719382759 719382899 1.060000e-58 239.0
63 TraesCS7D01G258700 chr3B 80.198 303 30 14 6995 7275 145502521 145502227 5.010000e-47 200.0
64 TraesCS7D01G258700 chr3B 98.039 51 1 0 1395 1445 145509184 145509134 1.130000e-13 89.8
65 TraesCS7D01G258700 chr3B 91.935 62 5 0 1145 1206 145509637 145509576 4.070000e-13 87.9
66 TraesCS7D01G258700 chr3B 86.154 65 6 3 5821 5882 52738458 52738394 5.300000e-07 67.6
67 TraesCS7D01G258700 chr3B 80.769 78 15 0 5808 5885 740802457 740802534 2.470000e-05 62.1
68 TraesCS7D01G258700 chr3B 94.595 37 1 1 1481 1516 145509186 145509150 1.000000e-03 56.5
69 TraesCS7D01G258700 chr1B 89.857 700 63 6 1 693 393448453 393447755 0.000000e+00 893.0
70 TraesCS7D01G258700 chr1B 91.121 214 13 2 5668 5878 471753556 471753766 1.340000e-72 285.0
71 TraesCS7D01G258700 chr1B 78.281 221 40 8 5268 5484 388770784 388770568 1.430000e-27 135.0
72 TraesCS7D01G258700 chr6D 88.617 694 75 2 1 690 318951071 318950378 0.000000e+00 841.0
73 TraesCS7D01G258700 chr6D 79.483 619 100 15 31 647 154593384 154592791 1.640000e-111 414.0
74 TraesCS7D01G258700 chr6D 91.925 161 10 2 5656 5814 263622284 263622125 1.070000e-53 222.0
75 TraesCS7D01G258700 chr3D 88.445 701 67 6 1 696 29709332 29708641 0.000000e+00 833.0
76 TraesCS7D01G258700 chr3D 91.121 214 19 0 5668 5881 371367034 371366821 2.890000e-74 291.0
77 TraesCS7D01G258700 chr3D 91.304 161 11 3 5655 5814 368513534 368513376 4.970000e-52 217.0
78 TraesCS7D01G258700 chr3D 82.803 157 24 3 5267 5422 201318735 201318581 3.980000e-28 137.0
79 TraesCS7D01G258700 chr3D 94.030 67 3 1 5815 5880 360634039 360634105 5.230000e-17 100.0
80 TraesCS7D01G258700 chr3D 93.939 66 4 0 5812 5877 589761283 589761218 5.230000e-17 100.0
81 TraesCS7D01G258700 chr5A 87.624 703 78 7 1 696 90614449 90613749 0.000000e+00 808.0
82 TraesCS7D01G258700 chr5A 88.158 684 59 9 12 690 74104972 74105638 0.000000e+00 795.0
83 TraesCS7D01G258700 chr4B 87.518 697 79 6 1 690 282888764 282888069 0.000000e+00 798.0
84 TraesCS7D01G258700 chr4B 85.646 209 26 4 5668 5874 464158277 464158483 4.970000e-52 217.0
85 TraesCS7D01G258700 chr1A 87.013 693 83 5 1 687 442464082 442464773 0.000000e+00 774.0
86 TraesCS7D01G258700 chr1A 91.250 80 5 2 5812 5889 28758887 28758966 3.120000e-19 108.0
87 TraesCS7D01G258700 chr6A 86.638 696 83 4 1 691 40614901 40614211 0.000000e+00 761.0
88 TraesCS7D01G258700 chr6A 94.667 150 8 0 5668 5817 602454242 602454093 4.940000e-57 233.0
89 TraesCS7D01G258700 chr6B 78.539 438 76 9 262 686 278131055 278131487 1.050000e-68 272.0
90 TraesCS7D01G258700 chr6B 78.378 222 41 7 5267 5484 394939803 394939585 3.980000e-28 137.0
91 TraesCS7D01G258700 chrUn 92.353 170 10 3 5660 5827 87983104 87983272 1.060000e-58 239.0
92 TraesCS7D01G258700 chr4A 93.038 158 8 3 5668 5824 556761610 556761765 2.300000e-55 228.0
93 TraesCS7D01G258700 chr4A 89.333 75 8 0 5812 5886 626981511 626981585 2.430000e-15 95.3
94 TraesCS7D01G258700 chr2D 78.603 229 44 5 5268 5493 469034223 469033997 6.620000e-31 147.0
95 TraesCS7D01G258700 chr2D 87.324 71 9 0 5812 5882 545726126 545726196 1.890000e-11 82.4
96 TraesCS7D01G258700 chr1D 82.895 152 20 5 5260 5409 225706223 225706076 1.850000e-26 132.0
97 TraesCS7D01G258700 chr2B 83.750 80 12 1 5812 5891 37003980 37004058 3.170000e-09 75.0


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 TraesCS7D01G258700 chr7D 234348852 234357036 8184 True 15115.000000 15115 100.000000 1 8185 1 chr7D.!!$R1 8184
1 TraesCS7D01G258700 chr7D 234651655 234655407 3752 True 719.000000 959 84.343000 1568 4861 2 chr7D.!!$R4 3293
2 TraesCS7D01G258700 chr7D 234557597 234561917 4320 True 657.333333 778 84.143000 715 4861 3 chr7D.!!$R3 4146
3 TraesCS7D01G258700 chr7D 234350126 234353825 3699 True 250.000000 342 95.951500 3212 6911 4 chr7D.!!$R2 3699
4 TraesCS7D01G258700 chr7B 206337793 206346620 8827 True 1495.266667 8006 93.124444 1 8183 9 chr7B.!!$R3 8182
5 TraesCS7D01G258700 chr7B 209642984 209646719 3735 True 675.500000 894 83.501000 1568 4861 2 chr7B.!!$R7 3293
6 TraesCS7D01G258700 chr7B 209143220 209149530 6310 True 673.750000 2036 89.691125 715 4592 8 chr7B.!!$R6 3877
7 TraesCS7D01G258700 chr7B 209137937 209139043 1106 True 668.000000 778 90.406500 5887 7273 2 chr7B.!!$R5 1386
8 TraesCS7D01G258700 chr7B 209322619 209323332 713 True 462.000000 462 78.809000 4157 4861 1 chr7B.!!$R1 704
9 TraesCS7D01G258700 chr7B 206513092 206517405 4313 True 377.800000 610 86.066200 715 4861 5 chr7B.!!$R4 4146
10 TraesCS7D01G258700 chr7A 247273687 247275033 1346 True 1808.000000 1808 91.320000 823 2147 1 chr7A.!!$R2 1324
11 TraesCS7D01G258700 chr7A 247267666 247268480 814 True 1312.000000 1312 95.706000 2141 2955 1 chr7A.!!$R1 814
12 TraesCS7D01G258700 chr7A 247252440 247259773 7333 True 1183.571429 4597 90.625286 2947 8185 7 chr7A.!!$R4 5238
13 TraesCS7D01G258700 chr7A 249282522 249283233 711 True 952.000000 952 90.922000 1584 2291 1 chr7A.!!$R3 707
14 TraesCS7D01G258700 chr7A 248540709 248546605 5896 True 641.000000 1332 85.016333 687 4861 3 chr7A.!!$R5 4174
15 TraesCS7D01G258700 chr7A 248935399 248939649 4250 False 533.666667 625 82.313333 715 4861 3 chr7A.!!$F1 4146
16 TraesCS7D01G258700 chr3B 145502227 145509637 7410 True 594.400000 2837 90.869500 1145 7275 8 chr3B.!!$R2 6130
17 TraesCS7D01G258700 chr1B 393447755 393448453 698 True 893.000000 893 89.857000 1 693 1 chr1B.!!$R2 692
18 TraesCS7D01G258700 chr6D 318950378 318951071 693 True 841.000000 841 88.617000 1 690 1 chr6D.!!$R3 689
19 TraesCS7D01G258700 chr6D 154592791 154593384 593 True 414.000000 414 79.483000 31 647 1 chr6D.!!$R1 616
20 TraesCS7D01G258700 chr3D 29708641 29709332 691 True 833.000000 833 88.445000 1 696 1 chr3D.!!$R1 695
21 TraesCS7D01G258700 chr5A 90613749 90614449 700 True 808.000000 808 87.624000 1 696 1 chr5A.!!$R1 695
22 TraesCS7D01G258700 chr5A 74104972 74105638 666 False 795.000000 795 88.158000 12 690 1 chr5A.!!$F1 678
23 TraesCS7D01G258700 chr4B 282888069 282888764 695 True 798.000000 798 87.518000 1 690 1 chr4B.!!$R1 689
24 TraesCS7D01G258700 chr1A 442464082 442464773 691 False 774.000000 774 87.013000 1 687 1 chr1A.!!$F2 686
25 TraesCS7D01G258700 chr6A 40614211 40614901 690 True 761.000000 761 86.638000 1 691 1 chr6A.!!$R1 690

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
76 77 0.758734 CCCGCCACTGATGATAAGGA 59.241 55.000 0.00 0.00 0.00 3.36 F
1189 3515 0.320858 TGTGTTTCTCCGCCGCAATA 60.321 50.000 0.00 0.00 0.00 1.90 F
1850 4472 0.248784 GTACCGGCGACAGTATGGAC 60.249 60.000 9.30 0.00 43.62 4.02 F
2554 5952 1.527844 GAGGCATGCTGGACCCATC 60.528 63.158 18.92 0.00 0.00 3.51 F
2851 6249 0.043940 AAGGATCCTCCAGCCAGAGT 59.956 55.000 16.52 0.00 39.61 3.24 F
3110 6539 0.179129 GCAGGAACATGCGGAATTGG 60.179 55.000 0.00 0.00 36.28 3.16 F
6855 14396 0.694771 AGCAATCAGAAGGGCACTGA 59.305 50.000 0.00 9.82 46.17 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1670 4244 1.687493 CTCCGCCCTCTCCCTCTTT 60.687 63.158 0.00 0.00 0.0 2.52 R
2850 6248 0.238289 CTTGGTGGTGATGCAACGAC 59.762 55.000 0.00 0.00 0.0 4.34 R
2851 6249 0.888736 CCTTGGTGGTGATGCAACGA 60.889 55.000 0.00 0.00 0.0 3.85 R
3553 6993 2.857186 TGCCATGTTAAGACTGCTGA 57.143 45.000 0.00 0.00 0.0 4.26 R
6829 14370 2.424956 GCCCTTCTGATTGCTTAGTTGG 59.575 50.000 0.00 0.00 0.0 3.77 R
6869 14410 0.188342 ACCAGGCCATCAAAACACCT 59.812 50.000 5.01 0.00 0.0 4.00 R
7761 17758 0.177604 GAGTGATCTGGTCCAGCTGG 59.822 60.000 27.87 27.87 0.0 4.85 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 0.966179 ACTTTTTCGGGTGAATGCCC 59.034 50.000 0.00 0.00 45.21 5.36
76 77 0.758734 CCCGCCACTGATGATAAGGA 59.241 55.000 0.00 0.00 0.00 3.36
83 85 5.189180 GCCACTGATGATAAGGAAAGAAGT 58.811 41.667 0.00 0.00 0.00 3.01
137 139 6.095300 CCATATGCCAGTGTTGAACAAATCTA 59.905 38.462 0.00 0.00 0.00 1.98
426 428 4.912766 TGTTGCGGTTATTTCGAACATTTC 59.087 37.500 0.00 0.00 0.00 2.17
512 514 7.763985 TGCAAGATAGATCGAACATTGTCTTTA 59.236 33.333 0.00 0.00 0.00 1.85
721 726 7.613022 TGGCTCATTAAGAAAAGTTGAGATCAT 59.387 33.333 4.54 0.00 36.72 2.45
739 748 1.673767 ATGTTGGACATGGGTCTCCT 58.326 50.000 0.00 0.00 43.77 3.69
821 2119 1.327690 AAGGAGGATTAGCGCCGTCA 61.328 55.000 2.29 0.00 0.00 4.35
1046 3194 2.764128 TAAGCCTCGCCTCCCCAG 60.764 66.667 0.00 0.00 0.00 4.45
1047 3195 3.618855 TAAGCCTCGCCTCCCCAGT 62.619 63.158 0.00 0.00 0.00 4.00
1189 3515 0.320858 TGTGTTTCTCCGCCGCAATA 60.321 50.000 0.00 0.00 0.00 1.90
1349 3772 3.064820 TCGACTTGCTGGTGAAGTTTTTC 59.935 43.478 0.00 0.00 33.71 2.29
1454 3983 3.428870 TGTTCGATTTCTTCTCGACTTGC 59.571 43.478 0.00 0.00 44.18 4.01
1459 3988 2.440539 TTCTTCTCGACTTGCTGGTC 57.559 50.000 0.00 0.00 0.00 4.02
1624 4186 4.214332 GGGTTCAGAATTCACTTGACTCAC 59.786 45.833 8.44 0.00 0.00 3.51
1670 4244 0.824109 CAGGCGTGATGGTAGAGGAA 59.176 55.000 0.00 0.00 0.00 3.36
1807 4405 2.591715 GCCATCGTCCGGGGAATG 60.592 66.667 0.00 2.61 0.00 2.67
1842 4464 4.409218 GCGACAGTACCGGCGACA 62.409 66.667 8.94 0.00 0.00 4.35
1843 4465 2.202440 CGACAGTACCGGCGACAG 60.202 66.667 9.30 0.00 0.00 3.51
1844 4466 2.960170 GACAGTACCGGCGACAGT 59.040 61.111 9.30 2.51 0.00 3.55
1845 4467 1.638388 CGACAGTACCGGCGACAGTA 61.638 60.000 9.30 0.00 0.00 2.74
1846 4468 0.737219 GACAGTACCGGCGACAGTAT 59.263 55.000 9.30 0.00 0.00 2.12
1847 4469 0.454600 ACAGTACCGGCGACAGTATG 59.545 55.000 9.30 1.62 46.00 2.39
1848 4470 0.248907 CAGTACCGGCGACAGTATGG 60.249 60.000 9.30 0.00 43.62 2.74
1849 4471 0.394762 AGTACCGGCGACAGTATGGA 60.395 55.000 9.30 0.00 43.62 3.41
1850 4472 0.248784 GTACCGGCGACAGTATGGAC 60.249 60.000 9.30 0.00 43.62 4.02
1851 4473 1.717791 TACCGGCGACAGTATGGACG 61.718 60.000 9.30 0.00 43.62 4.79
1852 4474 2.767445 CCGGCGACAGTATGGACGA 61.767 63.158 9.30 0.00 43.62 4.20
1853 4475 1.585521 CGGCGACAGTATGGACGAC 60.586 63.158 0.00 0.00 43.62 4.34
2157 4788 3.719268 TGGGATACTGCTTCATGTGTT 57.281 42.857 0.00 0.00 0.00 3.32
2497 5895 2.872557 CATTGGTCTGCACCTGCG 59.127 61.111 0.00 0.00 44.17 5.18
2499 5897 3.925630 ATTGGTCTGCACCTGCGGG 62.926 63.158 11.02 11.02 46.99 6.13
2554 5952 1.527844 GAGGCATGCTGGACCCATC 60.528 63.158 18.92 0.00 0.00 3.51
2850 6248 0.758123 GAAGGATCCTCCAGCCAGAG 59.242 60.000 16.52 0.00 39.61 3.35
2851 6249 0.043940 AAGGATCCTCCAGCCAGAGT 59.956 55.000 16.52 0.00 39.61 3.24
3110 6539 0.179129 GCAGGAACATGCGGAATTGG 60.179 55.000 0.00 0.00 36.28 3.16
6823 14364 4.854173 TGGTGTACCGTCCTACTTACATA 58.146 43.478 0.00 0.00 39.43 2.29
6824 14365 4.883585 TGGTGTACCGTCCTACTTACATAG 59.116 45.833 0.00 0.00 39.43 2.23
6825 14366 4.884164 GGTGTACCGTCCTACTTACATAGT 59.116 45.833 0.00 0.00 41.04 2.12
6826 14367 5.008118 GGTGTACCGTCCTACTTACATAGTC 59.992 48.000 0.00 0.00 38.33 2.59
6827 14368 5.586243 GTGTACCGTCCTACTTACATAGTCA 59.414 44.000 0.00 0.00 38.33 3.41
6828 14369 5.586243 TGTACCGTCCTACTTACATAGTCAC 59.414 44.000 0.00 0.00 38.33 3.67
6829 14370 3.950395 ACCGTCCTACTTACATAGTCACC 59.050 47.826 0.00 0.00 38.33 4.02
6830 14371 3.317430 CCGTCCTACTTACATAGTCACCC 59.683 52.174 0.00 0.00 38.33 4.61
6832 14373 4.400251 CGTCCTACTTACATAGTCACCCAA 59.600 45.833 0.00 0.00 38.33 4.12
6833 14374 5.658468 GTCCTACTTACATAGTCACCCAAC 58.342 45.833 0.00 0.00 38.33 3.77
6834 14375 5.421374 GTCCTACTTACATAGTCACCCAACT 59.579 44.000 0.00 0.00 38.33 3.16
6835 14376 6.604795 GTCCTACTTACATAGTCACCCAACTA 59.395 42.308 0.00 0.00 38.33 2.24
6836 14377 7.123247 GTCCTACTTACATAGTCACCCAACTAA 59.877 40.741 0.00 0.00 38.33 2.24
6837 14378 7.341256 TCCTACTTACATAGTCACCCAACTAAG 59.659 40.741 0.00 0.00 38.33 2.18
6838 14379 5.731591 ACTTACATAGTCACCCAACTAAGC 58.268 41.667 0.00 0.00 35.47 3.09
6839 14380 5.247564 ACTTACATAGTCACCCAACTAAGCA 59.752 40.000 0.00 0.00 35.47 3.91
6840 14381 4.634012 ACATAGTCACCCAACTAAGCAA 57.366 40.909 0.00 0.00 35.47 3.91
6841 14382 5.179452 ACATAGTCACCCAACTAAGCAAT 57.821 39.130 0.00 0.00 35.47 3.56
6842 14383 5.186198 ACATAGTCACCCAACTAAGCAATC 58.814 41.667 0.00 0.00 35.47 2.67
6843 14384 3.788227 AGTCACCCAACTAAGCAATCA 57.212 42.857 0.00 0.00 0.00 2.57
6844 14385 3.679389 AGTCACCCAACTAAGCAATCAG 58.321 45.455 0.00 0.00 0.00 2.90
6845 14386 3.327757 AGTCACCCAACTAAGCAATCAGA 59.672 43.478 0.00 0.00 0.00 3.27
6846 14387 4.072131 GTCACCCAACTAAGCAATCAGAA 58.928 43.478 0.00 0.00 0.00 3.02
6847 14388 4.154918 GTCACCCAACTAAGCAATCAGAAG 59.845 45.833 0.00 0.00 0.00 2.85
6848 14389 3.441572 CACCCAACTAAGCAATCAGAAGG 59.558 47.826 0.00 0.00 0.00 3.46
6849 14390 3.019564 CCCAACTAAGCAATCAGAAGGG 58.980 50.000 0.00 0.00 0.00 3.95
6850 14391 2.424956 CCAACTAAGCAATCAGAAGGGC 59.575 50.000 0.00 0.00 0.00 5.19
6851 14392 3.084039 CAACTAAGCAATCAGAAGGGCA 58.916 45.455 0.00 0.00 0.00 5.36
6852 14393 2.716217 ACTAAGCAATCAGAAGGGCAC 58.284 47.619 0.00 0.00 0.00 5.01
6853 14394 2.307098 ACTAAGCAATCAGAAGGGCACT 59.693 45.455 0.00 0.00 0.00 4.40
6854 14395 1.542492 AAGCAATCAGAAGGGCACTG 58.458 50.000 0.00 0.00 36.80 3.66
6855 14396 0.694771 AGCAATCAGAAGGGCACTGA 59.305 50.000 0.00 9.82 46.17 3.41
6856 14397 0.807496 GCAATCAGAAGGGCACTGAC 59.193 55.000 9.65 0.00 45.19 3.51
6857 14398 1.883638 GCAATCAGAAGGGCACTGACA 60.884 52.381 9.65 0.00 45.19 3.58
6858 14399 2.507484 CAATCAGAAGGGCACTGACAA 58.493 47.619 9.65 0.00 45.19 3.18
6859 14400 2.886523 CAATCAGAAGGGCACTGACAAA 59.113 45.455 9.65 0.00 45.19 2.83
6860 14401 2.727123 TCAGAAGGGCACTGACAAAA 57.273 45.000 0.00 0.00 39.10 2.44
6861 14402 2.575532 TCAGAAGGGCACTGACAAAAG 58.424 47.619 0.00 0.00 39.10 2.27
6862 14403 2.172505 TCAGAAGGGCACTGACAAAAGA 59.827 45.455 0.00 0.00 39.10 2.52
6863 14404 2.951642 CAGAAGGGCACTGACAAAAGAA 59.048 45.455 0.00 0.00 37.54 2.52
6864 14405 3.004106 CAGAAGGGCACTGACAAAAGAAG 59.996 47.826 0.00 0.00 37.54 2.85
6865 14406 1.322442 AGGGCACTGACAAAAGAAGC 58.678 50.000 0.00 0.00 0.00 3.86
6866 14407 1.032014 GGGCACTGACAAAAGAAGCA 58.968 50.000 0.00 0.00 0.00 3.91
6867 14408 1.000938 GGGCACTGACAAAAGAAGCAG 60.001 52.381 0.00 0.00 34.65 4.24
6868 14409 1.949525 GGCACTGACAAAAGAAGCAGA 59.050 47.619 0.00 0.00 32.86 4.26
6869 14410 2.358898 GGCACTGACAAAAGAAGCAGAA 59.641 45.455 0.00 0.00 32.86 3.02
6870 14411 3.549625 GGCACTGACAAAAGAAGCAGAAG 60.550 47.826 0.00 0.00 32.86 2.85
6871 14412 3.549625 GCACTGACAAAAGAAGCAGAAGG 60.550 47.826 0.00 0.00 32.86 3.46
6872 14413 3.629398 CACTGACAAAAGAAGCAGAAGGT 59.371 43.478 0.00 0.00 32.86 3.50
6873 14414 3.629398 ACTGACAAAAGAAGCAGAAGGTG 59.371 43.478 0.00 0.00 32.86 4.00
6874 14415 3.620488 TGACAAAAGAAGCAGAAGGTGT 58.380 40.909 0.00 0.00 0.00 4.16
6875 14416 4.016444 TGACAAAAGAAGCAGAAGGTGTT 58.984 39.130 0.00 0.00 0.00 3.32
6876 14417 4.462483 TGACAAAAGAAGCAGAAGGTGTTT 59.538 37.500 0.00 0.00 31.13 2.83
6877 14418 5.047377 TGACAAAAGAAGCAGAAGGTGTTTT 60.047 36.000 0.00 0.00 28.05 2.43
6878 14419 5.170748 ACAAAAGAAGCAGAAGGTGTTTTG 58.829 37.500 0.00 0.00 41.29 2.44
6879 14420 5.047377 ACAAAAGAAGCAGAAGGTGTTTTGA 60.047 36.000 16.06 0.00 39.71 2.69
6880 14421 5.859205 AAAGAAGCAGAAGGTGTTTTGAT 57.141 34.783 0.00 0.00 28.05 2.57
6881 14422 4.843220 AGAAGCAGAAGGTGTTTTGATG 57.157 40.909 0.00 0.00 28.05 3.07
6882 14423 3.571401 AGAAGCAGAAGGTGTTTTGATGG 59.429 43.478 0.00 0.00 28.05 3.51
6883 14424 1.615392 AGCAGAAGGTGTTTTGATGGC 59.385 47.619 0.00 0.00 0.00 4.40
6884 14425 1.337167 GCAGAAGGTGTTTTGATGGCC 60.337 52.381 0.00 0.00 0.00 5.36
6885 14426 2.242043 CAGAAGGTGTTTTGATGGCCT 58.758 47.619 3.32 0.00 0.00 5.19
6886 14427 2.029649 CAGAAGGTGTTTTGATGGCCTG 60.030 50.000 3.32 0.00 0.00 4.85
6887 14428 1.273327 GAAGGTGTTTTGATGGCCTGG 59.727 52.381 3.32 0.00 0.00 4.45
6888 14429 0.188342 AGGTGTTTTGATGGCCTGGT 59.812 50.000 3.32 0.00 0.00 4.00
6889 14430 0.318120 GGTGTTTTGATGGCCTGGTG 59.682 55.000 3.32 0.00 0.00 4.17
6890 14431 1.039856 GTGTTTTGATGGCCTGGTGT 58.960 50.000 3.32 0.00 0.00 4.16
6891 14432 2.235016 GTGTTTTGATGGCCTGGTGTA 58.765 47.619 3.32 0.00 0.00 2.90
6892 14433 2.030274 GTGTTTTGATGGCCTGGTGTAC 60.030 50.000 3.32 0.00 0.00 2.90
6893 14434 1.544246 GTTTTGATGGCCTGGTGTACC 59.456 52.381 3.32 0.00 0.00 3.34
6894 14435 0.322098 TTTGATGGCCTGGTGTACCG 60.322 55.000 3.32 0.00 39.43 4.02
6895 14436 1.485294 TTGATGGCCTGGTGTACCGT 61.485 55.000 3.32 0.00 39.43 4.83
6896 14437 1.153429 GATGGCCTGGTGTACCGTC 60.153 63.158 3.32 0.00 39.43 4.79
6897 14438 2.588856 GATGGCCTGGTGTACCGTCC 62.589 65.000 3.32 0.00 39.43 4.79
6898 14439 3.001406 GGCCTGGTGTACCGTCCT 61.001 66.667 0.00 0.00 39.43 3.85
6899 14440 1.683365 GGCCTGGTGTACCGTCCTA 60.683 63.158 0.00 0.00 39.43 2.94
6900 14441 1.514553 GCCTGGTGTACCGTCCTAC 59.485 63.158 0.00 0.00 39.43 3.18
6901 14442 0.969409 GCCTGGTGTACCGTCCTACT 60.969 60.000 0.00 0.00 39.43 2.57
6902 14443 1.553706 CCTGGTGTACCGTCCTACTT 58.446 55.000 0.00 0.00 39.43 2.24
6903 14444 2.726821 CCTGGTGTACCGTCCTACTTA 58.273 52.381 0.00 0.00 39.43 2.24
6904 14445 2.424956 CCTGGTGTACCGTCCTACTTAC 59.575 54.545 0.00 0.00 39.43 2.34
6905 14446 3.084039 CTGGTGTACCGTCCTACTTACA 58.916 50.000 0.00 0.00 39.43 2.41
6906 14447 3.698040 CTGGTGTACCGTCCTACTTACAT 59.302 47.826 0.00 0.00 39.43 2.29
6915 14456 9.364989 GTACCGTCCTACTTACATAGTCTATAG 57.635 40.741 0.00 0.00 38.33 1.31
7314 14892 1.334869 GCTCAACAGTTGGTTCCTGTG 59.665 52.381 13.52 0.00 42.17 3.66
7323 14908 3.117284 AGTTGGTTCCTGTGGGTGTTTAT 60.117 43.478 0.00 0.00 0.00 1.40
7329 14914 3.904717 TCCTGTGGGTGTTTATGTGTTT 58.095 40.909 0.00 0.00 0.00 2.83
7330 14915 3.634448 TCCTGTGGGTGTTTATGTGTTTG 59.366 43.478 0.00 0.00 0.00 2.93
7332 14917 4.261572 CCTGTGGGTGTTTATGTGTTTGAG 60.262 45.833 0.00 0.00 0.00 3.02
7333 14918 3.067461 TGTGGGTGTTTATGTGTTTGAGC 59.933 43.478 0.00 0.00 0.00 4.26
7334 14919 3.067461 GTGGGTGTTTATGTGTTTGAGCA 59.933 43.478 0.00 0.00 0.00 4.26
7335 14920 3.317711 TGGGTGTTTATGTGTTTGAGCAG 59.682 43.478 0.00 0.00 0.00 4.24
7336 14921 3.568007 GGGTGTTTATGTGTTTGAGCAGA 59.432 43.478 0.00 0.00 0.00 4.26
7337 14922 4.218417 GGGTGTTTATGTGTTTGAGCAGAT 59.782 41.667 0.00 0.00 0.00 2.90
7338 14923 5.278957 GGGTGTTTATGTGTTTGAGCAGATT 60.279 40.000 0.00 0.00 0.00 2.40
7339 14924 6.215845 GGTGTTTATGTGTTTGAGCAGATTT 58.784 36.000 0.00 0.00 0.00 2.17
7340 14925 6.701400 GGTGTTTATGTGTTTGAGCAGATTTT 59.299 34.615 0.00 0.00 0.00 1.82
7341 14926 7.224557 GGTGTTTATGTGTTTGAGCAGATTTTT 59.775 33.333 0.00 0.00 0.00 1.94
7371 14956 1.672363 TCAGTGTTGAGCAGCTTTGTG 59.328 47.619 0.00 0.00 0.00 3.33
7387 14972 3.487626 TGTGTGCTGGTGGCTCCA 61.488 61.111 8.20 8.20 45.01 3.86
7454 15039 2.665000 CCAGTCTGCCACCGATGT 59.335 61.111 0.00 0.00 0.00 3.06
7455 15040 1.742880 CCAGTCTGCCACCGATGTG 60.743 63.158 0.00 0.00 42.39 3.21
7459 15044 2.124983 CTGCCACCGATGTGAGGG 60.125 66.667 0.00 0.00 45.76 4.30
7460 15045 2.606213 TGCCACCGATGTGAGGGA 60.606 61.111 0.00 0.00 45.76 4.20
7511 15096 2.802792 CATGCGTTGGCTGGGATG 59.197 61.111 0.00 0.00 40.82 3.51
7576 15161 4.218635 CAGTGTCGCTATATATGGTGGAGT 59.781 45.833 9.47 0.00 0.00 3.85
7626 15219 4.020928 ACCTTTTTGACCGTCCTTTGTTTT 60.021 37.500 0.00 0.00 0.00 2.43
7646 15239 1.191535 TCCACCCGATCGAAACAGAT 58.808 50.000 18.66 0.00 0.00 2.90
7660 15253 0.109086 ACAGATTGGCGAGTCGTGAG 60.109 55.000 15.08 0.53 0.00 3.51
7664 15257 1.132643 GATTGGCGAGTCGTGAGTAGT 59.867 52.381 15.08 0.00 0.00 2.73
7668 15261 0.521659 GCGAGTCGTGAGTAGTGAGC 60.522 60.000 15.08 0.00 0.00 4.26
7669 15262 0.097325 CGAGTCGTGAGTAGTGAGCC 59.903 60.000 3.82 0.00 0.00 4.70
7671 15264 1.131504 GAGTCGTGAGTAGTGAGCCAG 59.868 57.143 0.00 0.00 0.00 4.85
7673 15266 1.746220 GTCGTGAGTAGTGAGCCAGAT 59.254 52.381 0.00 0.00 0.00 2.90
7674 15267 2.164624 GTCGTGAGTAGTGAGCCAGATT 59.835 50.000 0.00 0.00 0.00 2.40
7675 15268 2.423892 TCGTGAGTAGTGAGCCAGATTC 59.576 50.000 0.00 0.00 0.00 2.52
7676 15269 2.792890 CGTGAGTAGTGAGCCAGATTCG 60.793 54.545 0.00 0.00 0.00 3.34
7677 15270 2.423892 GTGAGTAGTGAGCCAGATTCGA 59.576 50.000 0.00 0.00 0.00 3.71
7678 15271 2.685388 TGAGTAGTGAGCCAGATTCGAG 59.315 50.000 0.00 0.00 0.00 4.04
7679 15272 1.407258 AGTAGTGAGCCAGATTCGAGC 59.593 52.381 0.00 0.00 0.00 5.03
7680 15273 0.747255 TAGTGAGCCAGATTCGAGCC 59.253 55.000 0.00 0.00 0.00 4.70
7683 15276 1.886777 GAGCCAGATTCGAGCCAGC 60.887 63.158 0.00 0.00 0.00 4.85
7761 17758 1.742268 GCCAGATTCCTGAGAAACTGC 59.258 52.381 7.37 1.47 46.30 4.40
7762 17759 2.363683 CCAGATTCCTGAGAAACTGCC 58.636 52.381 7.37 0.00 46.30 4.85
7763 17760 2.290514 CCAGATTCCTGAGAAACTGCCA 60.291 50.000 7.37 0.00 46.30 4.92
7764 17761 3.008330 CAGATTCCTGAGAAACTGCCAG 58.992 50.000 0.00 0.00 43.34 4.85
7765 17762 1.742268 GATTCCTGAGAAACTGCCAGC 59.258 52.381 0.00 0.00 35.09 4.85
7766 17763 0.767375 TTCCTGAGAAACTGCCAGCT 59.233 50.000 0.00 0.00 0.00 4.24
7767 17764 0.035881 TCCTGAGAAACTGCCAGCTG 59.964 55.000 6.78 6.78 0.00 4.24
7768 17765 0.959372 CCTGAGAAACTGCCAGCTGG 60.959 60.000 29.34 29.34 38.53 4.85
7769 17766 0.035881 CTGAGAAACTGCCAGCTGGA 59.964 55.000 37.21 19.62 37.39 3.86
7770 17767 0.250467 TGAGAAACTGCCAGCTGGAC 60.250 55.000 37.21 25.98 37.39 4.02
7772 17769 1.228245 GAAACTGCCAGCTGGACCA 60.228 57.895 37.21 23.52 37.39 4.02
7773 17770 1.228367 AAACTGCCAGCTGGACCAG 60.228 57.895 37.21 32.23 37.39 4.00
7774 17771 1.708993 AAACTGCCAGCTGGACCAGA 61.709 55.000 34.09 15.23 37.39 3.86
7775 17772 1.495579 AACTGCCAGCTGGACCAGAT 61.496 55.000 34.09 24.96 37.39 2.90
7776 17773 1.153208 CTGCCAGCTGGACCAGATC 60.153 63.158 37.21 16.86 37.39 2.75
7777 17774 1.907222 CTGCCAGCTGGACCAGATCA 61.907 60.000 37.21 20.57 37.39 2.92
7778 17775 1.451028 GCCAGCTGGACCAGATCAC 60.451 63.158 37.21 11.32 37.39 3.06
7779 17776 1.908340 GCCAGCTGGACCAGATCACT 61.908 60.000 37.21 9.59 37.39 3.41
7780 17777 0.177604 CCAGCTGGACCAGATCACTC 59.822 60.000 29.88 6.05 37.39 3.51
7781 17778 0.900421 CAGCTGGACCAGATCACTCA 59.100 55.000 26.25 0.00 32.44 3.41
7814 17811 3.509575 CCAATTCTCGTCAAAATCCCCAA 59.490 43.478 0.00 0.00 0.00 4.12
7817 17814 2.500229 TCTCGTCAAAATCCCCAACAC 58.500 47.619 0.00 0.00 0.00 3.32
7879 17899 2.038813 TGCCTCCGACAGATCCCA 59.961 61.111 0.00 0.00 0.00 4.37
7921 17945 3.274586 CGCACTGCACTGCACTGT 61.275 61.111 16.94 0.00 36.94 3.55
7923 17947 1.293963 CGCACTGCACTGCACTGTAT 61.294 55.000 16.94 0.00 36.94 2.29
7947 17971 1.948145 AGTCATCATACGTCGAGTCCC 59.052 52.381 0.00 0.00 0.00 4.46
7968 17992 4.179599 CCCCCTCCCCTCTCCTCC 62.180 77.778 0.00 0.00 0.00 4.30
7969 17993 4.179599 CCCCTCCCCTCTCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
7970 17994 4.179599 CCCTCCCCTCTCCTCCCC 62.180 77.778 0.00 0.00 0.00 4.81
7971 17995 3.039526 CCTCCCCTCTCCTCCCCT 61.040 72.222 0.00 0.00 0.00 4.79
8065 18109 2.348666 CCGAAATCGTCAAGATCCACAC 59.651 50.000 1.79 0.00 38.98 3.82
8066 18110 2.348666 CGAAATCGTCAAGATCCACACC 59.651 50.000 0.00 0.00 38.98 4.16
8067 18111 3.334691 GAAATCGTCAAGATCCACACCA 58.665 45.455 0.00 0.00 38.98 4.17
8068 18112 2.386661 ATCGTCAAGATCCACACCAC 57.613 50.000 0.00 0.00 33.45 4.16
8069 18113 1.044611 TCGTCAAGATCCACACCACA 58.955 50.000 0.00 0.00 0.00 4.17
8070 18114 1.000843 TCGTCAAGATCCACACCACAG 59.999 52.381 0.00 0.00 0.00 3.66
8071 18115 1.160137 GTCAAGATCCACACCACAGC 58.840 55.000 0.00 0.00 0.00 4.40
8074 18118 0.603707 AAGATCCACACCACAGCACG 60.604 55.000 0.00 0.00 0.00 5.34
8136 18189 0.391927 CGCCCTTCATTAACCCGACA 60.392 55.000 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 2.620251 TTCCTTATCATCAGTGGCGG 57.380 50.000 0.00 0.00 0.00 6.13
76 77 2.163818 TCGCATCAACCGACTTCTTT 57.836 45.000 0.00 0.00 0.00 2.52
83 85 0.454600 GGAGTAGTCGCATCAACCGA 59.545 55.000 0.00 0.00 0.00 4.69
426 428 2.132089 TAAAGGGGTTGCAGGGGACG 62.132 60.000 0.00 0.00 0.00 4.79
512 514 2.293184 TGCCACCTCTCCCTATCTTTCT 60.293 50.000 0.00 0.00 0.00 2.52
597 599 2.554344 GCCAAATCCAGTGGTAGTTGGA 60.554 50.000 29.22 6.07 46.79 3.53
721 726 0.692476 CAGGAGACCCATGTCCAACA 59.308 55.000 3.17 0.00 40.93 3.33
739 748 3.399181 CCCGCTGGGCCTAGTTCA 61.399 66.667 18.47 0.00 35.35 3.18
797 806 2.756829 GGCGCTAATCCTCCTTCTAAC 58.243 52.381 7.64 0.00 0.00 2.34
798 807 1.340248 CGGCGCTAATCCTCCTTCTAA 59.660 52.381 7.64 0.00 0.00 2.10
821 2119 2.394632 GTTTGGACTTTGGACCCCTTT 58.605 47.619 0.00 0.00 0.00 3.11
1189 3515 2.035449 TCAACACACGAAGAATCCGAGT 59.965 45.455 0.00 0.00 0.00 4.18
1624 4186 6.202226 GCTGGAAACTAAGAAACAACAAGAG 58.798 40.000 0.00 0.00 0.00 2.85
1670 4244 1.687493 CTCCGCCCTCTCCCTCTTT 60.687 63.158 0.00 0.00 0.00 2.52
1842 4464 3.524606 CCCGCCGTCGTCCATACT 61.525 66.667 0.00 0.00 0.00 2.12
2116 4747 1.024579 ATTCGGTTCATCGCACCACC 61.025 55.000 0.00 0.00 33.36 4.61
2497 5895 2.667724 CGTGTCTCTACGAACAACTCCC 60.668 54.545 0.00 0.00 46.46 4.30
2499 5897 1.977412 GCGTGTCTCTACGAACAACTC 59.023 52.381 2.14 0.00 46.46 3.01
2554 5952 1.938577 GCACAGCTGTCAGTATCATGG 59.061 52.381 18.64 2.46 0.00 3.66
2589 5987 1.956629 TTCCAGGCCTCGAACCGATC 61.957 60.000 8.95 0.00 34.61 3.69
2649 6047 1.077501 CCACCTCCGCATCCACAAT 60.078 57.895 0.00 0.00 0.00 2.71
2650 6048 2.184020 CTCCACCTCCGCATCCACAA 62.184 60.000 0.00 0.00 0.00 3.33
2850 6248 0.238289 CTTGGTGGTGATGCAACGAC 59.762 55.000 0.00 0.00 0.00 4.34
2851 6249 0.888736 CCTTGGTGGTGATGCAACGA 60.889 55.000 0.00 0.00 0.00 3.85
3553 6993 2.857186 TGCCATGTTAAGACTGCTGA 57.143 45.000 0.00 0.00 0.00 4.26
6823 14364 3.327757 TCTGATTGCTTAGTTGGGTGACT 59.672 43.478 0.00 0.00 0.00 3.41
6824 14365 3.674997 TCTGATTGCTTAGTTGGGTGAC 58.325 45.455 0.00 0.00 0.00 3.67
6825 14366 4.326826 CTTCTGATTGCTTAGTTGGGTGA 58.673 43.478 0.00 0.00 0.00 4.02
6826 14367 3.441572 CCTTCTGATTGCTTAGTTGGGTG 59.558 47.826 0.00 0.00 0.00 4.61
6827 14368 3.562176 CCCTTCTGATTGCTTAGTTGGGT 60.562 47.826 0.00 0.00 0.00 4.51
6828 14369 3.019564 CCCTTCTGATTGCTTAGTTGGG 58.980 50.000 0.00 0.00 0.00 4.12
6829 14370 2.424956 GCCCTTCTGATTGCTTAGTTGG 59.575 50.000 0.00 0.00 0.00 3.77
6830 14371 3.084039 TGCCCTTCTGATTGCTTAGTTG 58.916 45.455 0.00 0.00 0.00 3.16
6832 14373 2.307098 AGTGCCCTTCTGATTGCTTAGT 59.693 45.455 0.00 0.00 0.00 2.24
6833 14374 2.681848 CAGTGCCCTTCTGATTGCTTAG 59.318 50.000 0.00 0.00 35.20 2.18
6834 14375 2.305635 TCAGTGCCCTTCTGATTGCTTA 59.694 45.455 0.00 0.00 37.07 3.09
6835 14376 1.074405 TCAGTGCCCTTCTGATTGCTT 59.926 47.619 0.00 0.00 37.07 3.91
6836 14377 0.694771 TCAGTGCCCTTCTGATTGCT 59.305 50.000 0.00 0.00 37.07 3.91
6837 14378 0.807496 GTCAGTGCCCTTCTGATTGC 59.193 55.000 0.00 0.00 42.63 3.56
6838 14379 2.189594 TGTCAGTGCCCTTCTGATTG 57.810 50.000 0.00 0.00 42.63 2.67
6839 14380 2.957402 TTGTCAGTGCCCTTCTGATT 57.043 45.000 0.00 0.00 42.63 2.57
6840 14381 2.957402 TTTGTCAGTGCCCTTCTGAT 57.043 45.000 0.00 0.00 42.63 2.90
6841 14382 2.172505 TCTTTTGTCAGTGCCCTTCTGA 59.827 45.455 0.00 0.00 39.25 3.27
6842 14383 2.575532 TCTTTTGTCAGTGCCCTTCTG 58.424 47.619 0.00 0.00 0.00 3.02
6843 14384 3.217626 CTTCTTTTGTCAGTGCCCTTCT 58.782 45.455 0.00 0.00 0.00 2.85
6844 14385 2.287849 GCTTCTTTTGTCAGTGCCCTTC 60.288 50.000 0.00 0.00 0.00 3.46
6845 14386 1.683385 GCTTCTTTTGTCAGTGCCCTT 59.317 47.619 0.00 0.00 0.00 3.95
6846 14387 1.322442 GCTTCTTTTGTCAGTGCCCT 58.678 50.000 0.00 0.00 0.00 5.19
6847 14388 1.000938 CTGCTTCTTTTGTCAGTGCCC 60.001 52.381 0.00 0.00 0.00 5.36
6848 14389 1.949525 TCTGCTTCTTTTGTCAGTGCC 59.050 47.619 0.00 0.00 0.00 5.01
6849 14390 3.549625 CCTTCTGCTTCTTTTGTCAGTGC 60.550 47.826 0.00 0.00 0.00 4.40
6850 14391 3.629398 ACCTTCTGCTTCTTTTGTCAGTG 59.371 43.478 0.00 0.00 0.00 3.66
6851 14392 3.629398 CACCTTCTGCTTCTTTTGTCAGT 59.371 43.478 0.00 0.00 0.00 3.41
6852 14393 3.629398 ACACCTTCTGCTTCTTTTGTCAG 59.371 43.478 0.00 0.00 0.00 3.51
6853 14394 3.620488 ACACCTTCTGCTTCTTTTGTCA 58.380 40.909 0.00 0.00 0.00 3.58
6854 14395 4.639135 AACACCTTCTGCTTCTTTTGTC 57.361 40.909 0.00 0.00 0.00 3.18
6855 14396 5.047377 TCAAAACACCTTCTGCTTCTTTTGT 60.047 36.000 0.00 0.00 31.85 2.83
6856 14397 5.410067 TCAAAACACCTTCTGCTTCTTTTG 58.590 37.500 0.00 0.00 0.00 2.44
6857 14398 5.659440 TCAAAACACCTTCTGCTTCTTTT 57.341 34.783 0.00 0.00 0.00 2.27
6858 14399 5.452356 CCATCAAAACACCTTCTGCTTCTTT 60.452 40.000 0.00 0.00 0.00 2.52
6859 14400 4.038402 CCATCAAAACACCTTCTGCTTCTT 59.962 41.667 0.00 0.00 0.00 2.52
6860 14401 3.571401 CCATCAAAACACCTTCTGCTTCT 59.429 43.478 0.00 0.00 0.00 2.85
6861 14402 3.858503 GCCATCAAAACACCTTCTGCTTC 60.859 47.826 0.00 0.00 0.00 3.86
6862 14403 2.036346 GCCATCAAAACACCTTCTGCTT 59.964 45.455 0.00 0.00 0.00 3.91
6863 14404 1.615392 GCCATCAAAACACCTTCTGCT 59.385 47.619 0.00 0.00 0.00 4.24
6864 14405 1.337167 GGCCATCAAAACACCTTCTGC 60.337 52.381 0.00 0.00 0.00 4.26
6865 14406 2.029649 CAGGCCATCAAAACACCTTCTG 60.030 50.000 5.01 0.00 0.00 3.02
6866 14407 2.242043 CAGGCCATCAAAACACCTTCT 58.758 47.619 5.01 0.00 0.00 2.85
6867 14408 1.273327 CCAGGCCATCAAAACACCTTC 59.727 52.381 5.01 0.00 0.00 3.46
6868 14409 1.341080 CCAGGCCATCAAAACACCTT 58.659 50.000 5.01 0.00 0.00 3.50
6869 14410 0.188342 ACCAGGCCATCAAAACACCT 59.812 50.000 5.01 0.00 0.00 4.00
6870 14411 0.318120 CACCAGGCCATCAAAACACC 59.682 55.000 5.01 0.00 0.00 4.16
6871 14412 1.039856 ACACCAGGCCATCAAAACAC 58.960 50.000 5.01 0.00 0.00 3.32
6872 14413 2.235016 GTACACCAGGCCATCAAAACA 58.765 47.619 5.01 0.00 0.00 2.83
6873 14414 1.544246 GGTACACCAGGCCATCAAAAC 59.456 52.381 5.01 0.00 35.64 2.43
6874 14415 1.884497 CGGTACACCAGGCCATCAAAA 60.884 52.381 5.01 0.00 35.14 2.44
6875 14416 0.322098 CGGTACACCAGGCCATCAAA 60.322 55.000 5.01 0.00 35.14 2.69
6876 14417 1.298340 CGGTACACCAGGCCATCAA 59.702 57.895 5.01 0.00 35.14 2.57
6877 14418 1.895020 GACGGTACACCAGGCCATCA 61.895 60.000 5.01 0.00 35.14 3.07
6878 14419 1.153429 GACGGTACACCAGGCCATC 60.153 63.158 5.01 0.00 35.14 3.51
6879 14420 2.666098 GGACGGTACACCAGGCCAT 61.666 63.158 5.01 0.00 37.56 4.40
6880 14421 2.444004 TAGGACGGTACACCAGGCCA 62.444 60.000 5.01 2.24 39.26 5.36
6881 14422 1.683365 TAGGACGGTACACCAGGCC 60.683 63.158 0.00 0.00 37.78 5.19
6882 14423 0.969409 AGTAGGACGGTACACCAGGC 60.969 60.000 0.00 0.00 35.14 4.85
6883 14424 1.553706 AAGTAGGACGGTACACCAGG 58.446 55.000 0.00 0.00 35.14 4.45
6884 14425 3.084039 TGTAAGTAGGACGGTACACCAG 58.916 50.000 0.00 0.00 35.14 4.00
6885 14426 3.153369 TGTAAGTAGGACGGTACACCA 57.847 47.619 0.00 0.00 35.14 4.17
6886 14427 4.884164 ACTATGTAAGTAGGACGGTACACC 59.116 45.833 0.00 0.00 36.36 4.16
6887 14428 5.819901 AGACTATGTAAGTAGGACGGTACAC 59.180 44.000 0.00 0.00 39.07 2.90
6888 14429 5.994250 AGACTATGTAAGTAGGACGGTACA 58.006 41.667 0.00 0.00 39.07 2.90
6889 14430 9.364989 CTATAGACTATGTAAGTAGGACGGTAC 57.635 40.741 5.17 0.00 39.07 3.34
6890 14431 9.314133 TCTATAGACTATGTAAGTAGGACGGTA 57.686 37.037 5.17 0.00 39.07 4.02
6891 14432 8.200024 TCTATAGACTATGTAAGTAGGACGGT 57.800 38.462 5.17 0.00 39.07 4.83
6892 14433 8.313292 ACTCTATAGACTATGTAAGTAGGACGG 58.687 40.741 5.17 0.00 39.07 4.79
6893 14434 9.357652 GACTCTATAGACTATGTAAGTAGGACG 57.642 40.741 5.17 0.00 39.07 4.79
6898 14439 9.911138 CGACAGACTCTATAGACTATGTAAGTA 57.089 37.037 8.94 0.00 39.07 2.24
6899 14440 8.423349 ACGACAGACTCTATAGACTATGTAAGT 58.577 37.037 8.94 9.36 42.80 2.24
6900 14441 8.821147 ACGACAGACTCTATAGACTATGTAAG 57.179 38.462 8.94 8.91 0.00 2.34
6901 14442 7.871973 GGACGACAGACTCTATAGACTATGTAA 59.128 40.741 8.94 0.00 0.00 2.41
6902 14443 7.015001 TGGACGACAGACTCTATAGACTATGTA 59.985 40.741 8.94 0.00 0.00 2.29
6903 14444 6.183360 TGGACGACAGACTCTATAGACTATGT 60.183 42.308 8.77 8.77 0.00 2.29
6904 14445 6.224584 TGGACGACAGACTCTATAGACTATG 58.775 44.000 5.17 0.54 0.00 2.23
6905 14446 6.422344 TGGACGACAGACTCTATAGACTAT 57.578 41.667 0.00 0.00 0.00 2.12
6906 14447 5.866159 TGGACGACAGACTCTATAGACTA 57.134 43.478 0.00 0.00 0.00 2.59
7145 14704 8.250143 TCAGAGGTGTATCTAATTGCAGAATA 57.750 34.615 0.00 0.00 0.00 1.75
7283 14861 0.601046 CTGTTGAGCACCTCAGCGAA 60.601 55.000 4.95 0.00 43.08 4.70
7284 14862 1.005748 CTGTTGAGCACCTCAGCGA 60.006 57.895 4.95 0.00 43.08 4.93
7294 14872 1.334869 CACAGGAACCAACTGTTGAGC 59.665 52.381 21.49 9.81 46.38 4.26
7314 14892 3.568007 TCTGCTCAAACACATAAACACCC 59.432 43.478 0.00 0.00 0.00 4.61
7351 14936 1.672363 CACAAAGCTGCTCAACACTGA 59.328 47.619 1.00 0.00 0.00 3.41
7387 14972 2.888447 GCAGCCCACACTCTCCACT 61.888 63.158 0.00 0.00 0.00 4.00
7390 14975 1.073897 AAAGCAGCCCACACTCTCC 59.926 57.895 0.00 0.00 0.00 3.71
7454 15039 0.631998 ATCTCCCTCCCTCTCCCTCA 60.632 60.000 0.00 0.00 0.00 3.86
7455 15040 0.565674 AATCTCCCTCCCTCTCCCTC 59.434 60.000 0.00 0.00 0.00 4.30
7459 15044 2.182516 TTCCAATCTCCCTCCCTCTC 57.817 55.000 0.00 0.00 0.00 3.20
7460 15045 2.416638 CATTCCAATCTCCCTCCCTCT 58.583 52.381 0.00 0.00 0.00 3.69
7498 15083 1.825191 CCATCCATCCCAGCCAACG 60.825 63.158 0.00 0.00 0.00 4.10
7511 15096 1.468914 GAAAGTTCCAAGTCGCCATCC 59.531 52.381 0.00 0.00 0.00 3.51
7589 15180 7.413548 CGGTCAAAAAGGTTAAAGCACATTTTT 60.414 33.333 4.71 4.71 46.31 1.94
7606 15199 4.930405 GGAAAAACAAAGGACGGTCAAAAA 59.070 37.500 10.76 0.00 0.00 1.94
7626 15219 0.970640 TCTGTTTCGATCGGGTGGAA 59.029 50.000 16.41 0.00 0.00 3.53
7646 15239 0.240145 CACTACTCACGACTCGCCAA 59.760 55.000 0.00 0.00 0.00 4.52
7660 15253 1.537135 GGCTCGAATCTGGCTCACTAC 60.537 57.143 0.00 0.00 0.00 2.73
7664 15257 1.519246 CTGGCTCGAATCTGGCTCA 59.481 57.895 0.00 0.00 0.00 4.26
7668 15261 2.587194 CGGCTGGCTCGAATCTGG 60.587 66.667 0.00 0.00 0.00 3.86
7669 15262 2.587194 CCGGCTGGCTCGAATCTG 60.587 66.667 0.00 0.00 0.00 2.90
7671 15264 2.586357 GACCGGCTGGCTCGAATC 60.586 66.667 12.89 0.00 39.70 2.52
7761 17758 0.177604 GAGTGATCTGGTCCAGCTGG 59.822 60.000 27.87 27.87 0.00 4.85
7762 17759 0.900421 TGAGTGATCTGGTCCAGCTG 59.100 55.000 14.64 6.78 0.00 4.24
7763 17760 1.761784 GATGAGTGATCTGGTCCAGCT 59.238 52.381 14.64 4.09 0.00 4.24
7764 17761 1.483827 TGATGAGTGATCTGGTCCAGC 59.516 52.381 14.64 1.61 31.55 4.85
7765 17762 3.900966 TTGATGAGTGATCTGGTCCAG 57.099 47.619 13.21 13.21 31.55 3.86
7766 17763 4.681512 CGATTTGATGAGTGATCTGGTCCA 60.682 45.833 0.00 0.00 31.55 4.02
7767 17764 3.806521 CGATTTGATGAGTGATCTGGTCC 59.193 47.826 0.00 0.00 31.55 4.46
7768 17765 4.686972 TCGATTTGATGAGTGATCTGGTC 58.313 43.478 0.00 0.00 31.55 4.02
7769 17766 4.743057 TCGATTTGATGAGTGATCTGGT 57.257 40.909 0.00 0.00 31.55 4.00
7770 17767 4.272018 GGTTCGATTTGATGAGTGATCTGG 59.728 45.833 0.00 0.00 31.55 3.86
7772 17769 5.089970 TGGTTCGATTTGATGAGTGATCT 57.910 39.130 0.00 0.00 31.55 2.75
7773 17770 5.801350 TTGGTTCGATTTGATGAGTGATC 57.199 39.130 0.00 0.00 0.00 2.92
7774 17771 6.600822 AGAATTGGTTCGATTTGATGAGTGAT 59.399 34.615 0.00 0.00 39.38 3.06
7775 17772 5.939883 AGAATTGGTTCGATTTGATGAGTGA 59.060 36.000 0.00 0.00 39.38 3.41
7776 17773 6.187125 AGAATTGGTTCGATTTGATGAGTG 57.813 37.500 0.00 0.00 39.38 3.51
7777 17774 5.063944 CGAGAATTGGTTCGATTTGATGAGT 59.936 40.000 0.00 0.00 39.38 3.41
7778 17775 5.063944 ACGAGAATTGGTTCGATTTGATGAG 59.936 40.000 9.72 0.00 39.93 2.90
7779 17776 4.935205 ACGAGAATTGGTTCGATTTGATGA 59.065 37.500 9.72 0.00 39.93 2.92
7780 17777 5.163864 TGACGAGAATTGGTTCGATTTGATG 60.164 40.000 9.72 0.00 39.93 3.07
7781 17778 4.935205 TGACGAGAATTGGTTCGATTTGAT 59.065 37.500 9.72 0.00 39.93 2.57
7864 17865 2.808315 CGTGGGATCTGTCGGAGG 59.192 66.667 0.00 0.00 0.00 4.30
7921 17945 4.036380 ACTCGACGTATGATGACTGCAATA 59.964 41.667 0.00 0.00 0.00 1.90
7923 17947 2.163613 ACTCGACGTATGATGACTGCAA 59.836 45.455 0.00 0.00 0.00 4.08
7960 17984 4.548513 CGGGGGAGGGGAGGAGAG 62.549 77.778 0.00 0.00 0.00 3.20
7966 17990 2.868790 AATAAAGGCGGGGGAGGGGA 62.869 60.000 0.00 0.00 0.00 4.81
7967 17991 1.944896 AAATAAAGGCGGGGGAGGGG 61.945 60.000 0.00 0.00 0.00 4.79
7968 17992 0.848053 TAAATAAAGGCGGGGGAGGG 59.152 55.000 0.00 0.00 0.00 4.30
7969 17993 1.493446 AGTAAATAAAGGCGGGGGAGG 59.507 52.381 0.00 0.00 0.00 4.30
7970 17994 2.486727 GGAGTAAATAAAGGCGGGGGAG 60.487 54.545 0.00 0.00 0.00 4.30
7971 17995 1.491754 GGAGTAAATAAAGGCGGGGGA 59.508 52.381 0.00 0.00 0.00 4.81


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

AutoCloner maintained by Alex Coulton.