Multiple sequence alignment - TraesCS7A01G034100

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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 TraesCS7A01G034100 chr7A 100.000 3185 0 0 1 3185 14920686 14917502 0.000000e+00 5882.0
1 TraesCS7A01G034100 chr7A 74.872 780 160 20 1314 2064 618677792 618678564 3.960000e-84 322.0
2 TraesCS7A01G034100 chr7A 82.383 193 34 0 1314 1506 619022980 619023172 5.460000e-38 169.0
3 TraesCS7A01G034100 chr7D 93.389 2284 93 22 169 2402 16121177 16118902 0.000000e+00 3328.0
4 TraesCS7A01G034100 chr7D 88.789 223 21 4 4 224 16121375 16121155 1.460000e-68 270.0
5 TraesCS7A01G034100 chr7D 90.286 175 15 2 1581 1753 582031182 582031008 8.890000e-56 228.0
6 TraesCS7A01G034100 chr7D 94.488 127 7 0 2839 2965 16118600 16118474 2.510000e-46 196.0
7 TraesCS7A01G034100 chr7D 74.522 471 95 11 1318 1765 17207233 17207701 7.020000e-42 182.0
8 TraesCS7A01G034100 chr7D 92.920 113 8 0 2564 2676 16118903 16118791 7.070000e-37 165.0
9 TraesCS7A01G034100 chr7D 95.946 74 2 1 1581 1653 59952311 59952384 5.580000e-23 119.0
10 TraesCS7A01G034100 chr7D 94.118 51 3 0 1707 1757 105389012 105389062 9.470000e-11 78.7
11 TraesCS7A01G034100 chr3D 94.184 2132 90 12 305 2402 584758286 584760417 0.000000e+00 3219.0
12 TraesCS7A01G034100 chr3D 91.667 192 13 3 1 191 584732488 584732677 2.440000e-66 263.0
13 TraesCS7A01G034100 chr3D 94.488 127 7 0 2839 2965 584760721 584760847 2.510000e-46 196.0
14 TraesCS7A01G034100 chr3D 92.920 113 8 0 2564 2676 584760416 584760528 7.070000e-37 165.0
15 TraesCS7A01G034100 chr3D 83.221 149 7 7 169 307 584732693 584732833 1.550000e-23 121.0
16 TraesCS7A01G034100 chr3D 92.157 51 4 0 1707 1757 573966329 573966279 4.410000e-09 73.1
17 TraesCS7A01G034100 chr4A 90.637 2136 131 22 312 2402 718753811 718751700 0.000000e+00 2772.0
18 TraesCS7A01G034100 chr4A 74.735 471 94 11 1318 1765 717050921 717050453 1.510000e-43 187.0
19 TraesCS7A01G034100 chr4A 97.059 68 1 1 209 276 718753881 718753815 2.600000e-21 113.0
20 TraesCS7A01G034100 chr7B 92.775 1924 93 10 473 2373 711443148 711441248 0.000000e+00 2741.0
21 TraesCS7A01G034100 chr7B 75.479 783 151 24 1314 2064 580135127 580135900 8.460000e-91 344.0
22 TraesCS7A01G034100 chr7B 75.000 776 160 20 1314 2060 580133993 580134763 8.520000e-86 327.0
23 TraesCS7A01G034100 chr7B 85.217 345 19 11 2839 3165 711440955 711440625 3.060000e-85 326.0
24 TraesCS7A01G034100 chr7B 93.197 147 6 1 230 372 711443611 711443465 2.490000e-51 213.0
25 TraesCS7A01G034100 chr7B 100.000 86 0 0 111 196 711444619 711444534 3.290000e-35 159.0
26 TraesCS7A01G034100 chr5D 95.882 170 7 0 2399 2568 368995357 368995526 3.130000e-70 276.0
27 TraesCS7A01G034100 chr5D 95.238 168 8 0 2677 2844 447433600 447433767 1.880000e-67 267.0
28 TraesCS7A01G034100 chr5D 92.614 176 11 2 2388 2562 103374583 103374757 5.270000e-63 252.0
29 TraesCS7A01G034100 chr5D 91.525 177 13 2 2386 2562 250070220 250070394 3.170000e-60 243.0
30 TraesCS7A01G034100 chr5D 94.118 51 3 0 1707 1757 72403788 72403838 9.470000e-11 78.7
31 TraesCS7A01G034100 chr1D 96.364 165 6 0 2401 2565 130310227 130310063 4.050000e-69 272.0
32 TraesCS7A01G034100 chr1D 94.767 172 9 0 2397 2568 77381513 77381684 5.240000e-68 268.0
33 TraesCS7A01G034100 chr1D 94.118 51 3 0 1707 1757 393105135 393105085 9.470000e-11 78.7
34 TraesCS7A01G034100 chr5A 94.798 173 8 1 2672 2844 676319304 676319133 5.240000e-68 268.0
35 TraesCS7A01G034100 chr5A 92.935 184 12 1 2386 2569 382566624 382566806 1.880000e-67 267.0
36 TraesCS7A01G034100 chr5A 94.253 174 9 1 2400 2573 690414180 690414008 6.770000e-67 265.0
37 TraesCS7A01G034100 chr5A 95.181 166 8 0 2680 2845 126692727 126692562 2.440000e-66 263.0
38 TraesCS7A01G034100 chr3A 95.266 169 8 0 2401 2569 264047744 264047576 5.240000e-68 268.0
39 TraesCS7A01G034100 chr3A 95.238 168 8 0 2676 2843 41183444 41183277 1.880000e-67 267.0
40 TraesCS7A01G034100 chr6A 94.737 171 9 0 2677 2847 38743448 38743618 1.880000e-67 267.0
41 TraesCS7A01G034100 chr2B 94.737 171 9 0 2400 2570 594834040 594833870 1.880000e-67 267.0
42 TraesCS7A01G034100 chr3B 94.220 173 10 0 2401 2573 279588 279416 6.770000e-67 265.0
43 TraesCS7A01G034100 chr3B 93.220 177 12 0 2400 2576 672963606 672963430 8.760000e-66 261.0
44 TraesCS7A01G034100 chr3B 90.374 187 16 2 2386 2572 495839428 495839612 8.830000e-61 244.0
45 TraesCS7A01G034100 chr2D 94.737 171 8 1 2672 2842 628554731 628554900 6.770000e-67 265.0
46 TraesCS7A01G034100 chr2D 90.909 187 14 2 2381 2567 275232233 275232050 6.820000e-62 248.0
47 TraesCS7A01G034100 chr2D 95.946 74 2 1 1581 1653 7330102 7330175 5.580000e-23 119.0
48 TraesCS7A01G034100 chr1A 94.706 170 9 0 2675 2844 499624072 499623903 6.770000e-67 265.0
49 TraesCS7A01G034100 chrUn 94.152 171 9 1 2674 2844 61009439 61009608 3.150000e-65 259.0
50 TraesCS7A01G034100 chr5B 92.737 179 11 1 2680 2858 45810575 45810399 1.130000e-64 257.0
51 TraesCS7A01G034100 chr5B 91.573 178 13 2 2386 2562 660591169 660591345 8.830000e-61 244.0
52 TraesCS7A01G034100 chr5B 90.710 183 15 2 2383 2565 106354394 106354214 3.170000e-60 243.0
53 TraesCS7A01G034100 chr1B 92.179 179 12 2 2389 2566 62447227 62447404 5.270000e-63 252.0
54 TraesCS7A01G034100 chr4D 92.135 178 13 1 1581 1757 318927920 318928097 1.900000e-62 250.0
55 TraesCS7A01G034100 chr6B 91.160 181 15 1 2389 2569 462030915 462031094 8.830000e-61 244.0
56 TraesCS7A01G034100 chr6D 95.946 74 2 1 1581 1653 55766599 55766672 5.580000e-23 119.0
57 TraesCS7A01G034100 chr4B 94.118 51 3 0 1707 1757 668105493 668105543 9.470000e-11 78.7
58 TraesCS7A01G034100 chr4B 94.118 51 3 0 1707 1757 668113149 668113199 9.470000e-11 78.7


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 TraesCS7A01G034100 chr7A 14917502 14920686 3184 True 5882.000000 5882 100.00000 1 3185 1 chr7A.!!$R1 3184
1 TraesCS7A01G034100 chr7A 618677792 618678564 772 False 322.000000 322 74.87200 1314 2064 1 chr7A.!!$F1 750
2 TraesCS7A01G034100 chr7D 16118474 16121375 2901 True 989.750000 3328 92.39650 4 2965 4 chr7D.!!$R2 2961
3 TraesCS7A01G034100 chr3D 584758286 584760847 2561 False 1193.333333 3219 93.86400 305 2965 3 chr3D.!!$F2 2660
4 TraesCS7A01G034100 chr4A 718751700 718753881 2181 True 1442.500000 2772 93.84800 209 2402 2 chr4A.!!$R2 2193
5 TraesCS7A01G034100 chr7B 711440625 711444619 3994 True 859.750000 2741 92.79725 111 3165 4 chr7B.!!$R1 3054
6 TraesCS7A01G034100 chr7B 580133993 580135900 1907 False 335.500000 344 75.23950 1314 2064 2 chr7B.!!$F1 750

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
23 24 0.039617 CCAATCTTTTGCGCGAACCA 60.040 50.000 12.10 0.0 0.00 3.67 F
809 2022 0.478072 TTGGCATCCCACAAGAGTGT 59.522 50.000 0.00 0.0 44.39 3.55 F
1779 4158 1.135139 GAGTGGTGCAGCGAGATAGAA 59.865 52.381 11.91 0.0 0.00 2.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1964 4352 0.112995 ACAAGCAAATGGAGGGCTCA 59.887 50.000 0.00 0.0 36.76 4.26 R
2037 4425 1.004560 CACGCTCCAAGGCTGAGAA 60.005 57.895 6.07 0.0 31.26 2.87 R
2831 5281 0.105453 ATGGATGCTACTCCCTCCGT 60.105 55.000 0.00 0.0 34.12 4.69 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
23 24 0.039617 CCAATCTTTTGCGCGAACCA 60.040 50.000 12.10 0.00 0.00 3.67
36 37 2.437359 AACCATGCCTGCTCGCTC 60.437 61.111 0.00 0.00 0.00 5.03
44 45 1.432270 GCCTGCTCGCTCATGGTTAC 61.432 60.000 0.00 0.00 0.00 2.50
55 56 1.066430 TCATGGTTACCGAGAGTTGGC 60.066 52.381 0.00 0.00 0.00 4.52
217 588 7.655328 CAGGATCAGGAAACAATCAGTAGTATC 59.345 40.741 0.00 0.00 0.00 2.24
289 1232 8.340443 CAACGGAAAGCCTTATAATAAGTAACC 58.660 37.037 0.00 0.00 0.00 2.85
310 1257 3.691118 CCAGAGTCTGAGAGAGAGAACAG 59.309 52.174 22.09 0.00 32.44 3.16
533 1732 4.887655 TGCCTACGAATCATCTAGAACTCA 59.112 41.667 0.00 0.00 0.00 3.41
602 1801 5.278758 CCGGTTAAGCTTTGATTTTCCTCAA 60.279 40.000 3.20 0.00 33.42 3.02
799 2012 1.815003 CTGTCTGAACTTTGGCATCCC 59.185 52.381 0.00 0.00 0.00 3.85
808 2021 1.542915 CTTTGGCATCCCACAAGAGTG 59.457 52.381 0.00 0.00 41.97 3.51
809 2022 0.478072 TTGGCATCCCACAAGAGTGT 59.522 50.000 0.00 0.00 44.39 3.55
810 2023 1.357137 TGGCATCCCACAAGAGTGTA 58.643 50.000 0.00 0.00 44.39 2.90
905 2127 8.523915 AGGAAATATACATTGTTCTTGCATGA 57.476 30.769 0.00 0.00 0.00 3.07
1023 2253 1.817099 GAGCCCCAGCAGATTGTCG 60.817 63.158 0.00 0.00 43.56 4.35
1026 2256 1.904771 CCCCAGCAGATTGTCGGTA 59.095 57.895 0.00 0.00 0.00 4.02
1043 2273 9.715121 ATTGTCGGTAGTTTCTACTTCAATTAA 57.285 29.630 6.83 0.00 35.78 1.40
1185 2415 2.831333 CGTGCAGCATTCTCTTCCTAT 58.169 47.619 0.00 0.00 0.00 2.57
1667 4046 3.686726 GGATGGATATTTCAGATCGTGCC 59.313 47.826 0.00 0.00 0.00 5.01
1779 4158 1.135139 GAGTGGTGCAGCGAGATAGAA 59.865 52.381 11.91 0.00 0.00 2.10
1974 4362 3.071206 GACGAGCTGAGCCCTCCA 61.071 66.667 0.00 0.00 0.00 3.86
2031 4419 3.679980 CGAGCAACAACTTGTACTATGCT 59.320 43.478 15.57 15.57 41.70 3.79
2037 4425 6.183360 GCAACAACTTGTACTATGCTCATCAT 60.183 38.462 8.46 0.00 39.17 2.45
2281 4729 6.564709 TGCTAGGCTGCTATTGAATTTATG 57.435 37.500 0.00 0.00 0.00 1.90
2305 4753 4.433615 TGTTTATTCTTCTAGGCAGAGCG 58.566 43.478 0.00 0.00 30.73 5.03
2400 4850 4.067896 CCTTGTGAACACATTAGCTGTCT 58.932 43.478 8.46 0.00 41.52 3.41
2401 4851 5.237815 CCTTGTGAACACATTAGCTGTCTA 58.762 41.667 8.46 0.00 41.52 2.59
2402 4852 5.120830 CCTTGTGAACACATTAGCTGTCTAC 59.879 44.000 8.46 0.00 41.52 2.59
2403 4853 5.468540 TGTGAACACATTAGCTGTCTACT 57.531 39.130 3.39 0.00 35.29 2.57
2404 4854 5.470368 TGTGAACACATTAGCTGTCTACTC 58.530 41.667 3.39 0.00 35.29 2.59
2405 4855 4.865365 GTGAACACATTAGCTGTCTACTCC 59.135 45.833 0.00 0.00 35.29 3.85
2406 4856 4.081642 TGAACACATTAGCTGTCTACTCCC 60.082 45.833 0.00 0.00 35.29 4.30
2407 4857 3.714144 ACACATTAGCTGTCTACTCCCT 58.286 45.455 0.00 0.00 35.29 4.20
2408 4858 3.702045 ACACATTAGCTGTCTACTCCCTC 59.298 47.826 0.00 0.00 35.29 4.30
2409 4859 3.068873 CACATTAGCTGTCTACTCCCTCC 59.931 52.174 0.00 0.00 35.29 4.30
2410 4860 2.054232 TTAGCTGTCTACTCCCTCCG 57.946 55.000 0.00 0.00 0.00 4.63
2411 4861 0.917533 TAGCTGTCTACTCCCTCCGT 59.082 55.000 0.00 0.00 0.00 4.69
2412 4862 0.039911 AGCTGTCTACTCCCTCCGTT 59.960 55.000 0.00 0.00 0.00 4.44
2413 4863 0.456628 GCTGTCTACTCCCTCCGTTC 59.543 60.000 0.00 0.00 0.00 3.95
2414 4864 1.104630 CTGTCTACTCCCTCCGTTCC 58.895 60.000 0.00 0.00 0.00 3.62
2415 4865 0.702902 TGTCTACTCCCTCCGTTCCT 59.297 55.000 0.00 0.00 0.00 3.36
2416 4866 1.918262 TGTCTACTCCCTCCGTTCCTA 59.082 52.381 0.00 0.00 0.00 2.94
2417 4867 2.512896 TGTCTACTCCCTCCGTTCCTAT 59.487 50.000 0.00 0.00 0.00 2.57
2418 4868 3.718434 TGTCTACTCCCTCCGTTCCTATA 59.282 47.826 0.00 0.00 0.00 1.31
2419 4869 4.353191 TGTCTACTCCCTCCGTTCCTATAT 59.647 45.833 0.00 0.00 0.00 0.86
2420 4870 5.549228 TGTCTACTCCCTCCGTTCCTATATA 59.451 44.000 0.00 0.00 0.00 0.86
2421 4871 6.217074 TGTCTACTCCCTCCGTTCCTATATAT 59.783 42.308 0.00 0.00 0.00 0.86
2422 4872 7.118060 GTCTACTCCCTCCGTTCCTATATATT 58.882 42.308 0.00 0.00 0.00 1.28
2423 4873 7.614974 GTCTACTCCCTCCGTTCCTATATATTT 59.385 40.741 0.00 0.00 0.00 1.40
2424 4874 6.607004 ACTCCCTCCGTTCCTATATATTTG 57.393 41.667 0.00 0.00 0.00 2.32
2425 4875 6.082707 ACTCCCTCCGTTCCTATATATTTGT 58.917 40.000 0.00 0.00 0.00 2.83
2426 4876 6.210984 ACTCCCTCCGTTCCTATATATTTGTC 59.789 42.308 0.00 0.00 0.00 3.18
2427 4877 6.320518 TCCCTCCGTTCCTATATATTTGTCT 58.679 40.000 0.00 0.00 0.00 3.41
2428 4878 6.785963 TCCCTCCGTTCCTATATATTTGTCTT 59.214 38.462 0.00 0.00 0.00 3.01
2429 4879 7.291651 TCCCTCCGTTCCTATATATTTGTCTTT 59.708 37.037 0.00 0.00 0.00 2.52
2430 4880 7.937394 CCCTCCGTTCCTATATATTTGTCTTTT 59.063 37.037 0.00 0.00 0.00 2.27
2431 4881 9.338622 CCTCCGTTCCTATATATTTGTCTTTTT 57.661 33.333 0.00 0.00 0.00 1.94
2465 4915 3.900971 TGGACTACCACATACGGATGTA 58.099 45.455 14.23 0.00 44.82 2.29
2466 4916 4.476297 TGGACTACCACATACGGATGTAT 58.524 43.478 14.23 7.46 44.82 2.29
2506 4956 7.138692 AGTGTAGATTCACTCATTTTGCTTC 57.861 36.000 0.00 0.00 44.07 3.86
2507 4957 6.017933 GTGTAGATTCACTCATTTTGCTTCG 58.982 40.000 0.00 0.00 35.68 3.79
2508 4958 5.700832 TGTAGATTCACTCATTTTGCTTCGT 59.299 36.000 0.00 0.00 0.00 3.85
2509 4959 6.871492 TGTAGATTCACTCATTTTGCTTCGTA 59.129 34.615 0.00 0.00 0.00 3.43
2510 4960 6.992063 AGATTCACTCATTTTGCTTCGTAT 57.008 33.333 0.00 0.00 0.00 3.06
2511 4961 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
2512 4962 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
2513 4963 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
2514 4964 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
2515 4965 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
2516 4966 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
2517 4967 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
2518 4968 6.090898 ACTCATTTTGCTTCGTATGTAGTCAC 59.909 38.462 0.00 0.00 0.00 3.67
2519 4969 6.163476 TCATTTTGCTTCGTATGTAGTCACT 58.837 36.000 0.00 0.00 0.00 3.41
2520 4970 6.649141 TCATTTTGCTTCGTATGTAGTCACTT 59.351 34.615 0.00 0.00 0.00 3.16
2521 4971 5.839262 TTTGCTTCGTATGTAGTCACTTG 57.161 39.130 0.00 0.00 0.00 3.16
2522 4972 4.514781 TGCTTCGTATGTAGTCACTTGT 57.485 40.909 0.00 0.00 0.00 3.16
2523 4973 4.878439 TGCTTCGTATGTAGTCACTTGTT 58.122 39.130 0.00 0.00 0.00 2.83
2524 4974 6.016213 TGCTTCGTATGTAGTCACTTGTTA 57.984 37.500 0.00 0.00 0.00 2.41
2525 4975 6.448852 TGCTTCGTATGTAGTCACTTGTTAA 58.551 36.000 0.00 0.00 0.00 2.01
2526 4976 6.924612 TGCTTCGTATGTAGTCACTTGTTAAA 59.075 34.615 0.00 0.00 0.00 1.52
2527 4977 7.438757 TGCTTCGTATGTAGTCACTTGTTAAAA 59.561 33.333 0.00 0.00 0.00 1.52
2528 4978 8.440833 GCTTCGTATGTAGTCACTTGTTAAAAT 58.559 33.333 0.00 0.00 0.00 1.82
2556 5006 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
2557 5007 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
2558 5008 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
2559 5009 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
2560 5010 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
2561 5011 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
2562 5012 6.069705 ACAAATATTTAGGAACGGAGGGAA 57.930 37.500 0.00 0.00 0.00 3.97
2678 5128 2.715749 TCCCATGTGGAGTAGCAATG 57.284 50.000 0.00 0.00 38.61 2.82
2681 5131 3.118408 TCCCATGTGGAGTAGCAATGTAC 60.118 47.826 0.00 0.00 38.61 2.90
2682 5132 3.118261 CCCATGTGGAGTAGCAATGTACT 60.118 47.826 0.00 0.00 37.39 2.73
2683 5133 4.122776 CCATGTGGAGTAGCAATGTACTC 58.877 47.826 11.77 11.77 45.70 2.59
2688 5138 3.737032 GAGTAGCAATGTACTCCCTCC 57.263 52.381 10.05 0.00 42.16 4.30
2689 5139 2.032620 AGTAGCAATGTACTCCCTCCG 58.967 52.381 0.00 0.00 0.00 4.63
2690 5140 1.755380 GTAGCAATGTACTCCCTCCGT 59.245 52.381 0.00 0.00 0.00 4.69
2691 5141 1.276622 AGCAATGTACTCCCTCCGTT 58.723 50.000 0.00 0.00 0.00 4.44
2692 5142 2.463752 AGCAATGTACTCCCTCCGTTA 58.536 47.619 0.00 0.00 0.00 3.18
2694 5144 2.167900 GCAATGTACTCCCTCCGTTACT 59.832 50.000 0.00 0.00 0.00 2.24
2695 5145 3.382546 GCAATGTACTCCCTCCGTTACTA 59.617 47.826 0.00 0.00 0.00 1.82
2696 5146 4.142093 GCAATGTACTCCCTCCGTTACTAA 60.142 45.833 0.00 0.00 0.00 2.24
2697 5147 5.625197 GCAATGTACTCCCTCCGTTACTAAA 60.625 44.000 0.00 0.00 0.00 1.85
2698 5148 6.579865 CAATGTACTCCCTCCGTTACTAAAT 58.420 40.000 0.00 0.00 0.00 1.40
2699 5149 7.685155 GCAATGTACTCCCTCCGTTACTAAATA 60.685 40.741 0.00 0.00 0.00 1.40
2702 5152 8.310122 TGTACTCCCTCCGTTACTAAATATTT 57.690 34.615 5.89 5.89 0.00 1.40
2704 5154 7.191593 ACTCCCTCCGTTACTAAATATTTGT 57.808 36.000 11.05 9.18 0.00 2.83
2706 5156 7.125356 ACTCCCTCCGTTACTAAATATTTGTCT 59.875 37.037 11.05 0.00 0.00 3.41
2707 5157 7.854337 TCCCTCCGTTACTAAATATTTGTCTT 58.146 34.615 11.05 0.00 0.00 3.01
2708 5158 8.323567 TCCCTCCGTTACTAAATATTTGTCTTT 58.676 33.333 11.05 0.00 0.00 2.52
2709 5159 8.610035 CCCTCCGTTACTAAATATTTGTCTTTC 58.390 37.037 11.05 0.00 0.00 2.62
2726 5176 8.990163 TTGTCTTTCTAGAGGTTTTAAATGGT 57.010 30.769 0.00 0.00 0.00 3.55
2727 5177 8.391075 TGTCTTTCTAGAGGTTTTAAATGGTG 57.609 34.615 0.00 0.00 0.00 4.17
2728 5178 8.215050 TGTCTTTCTAGAGGTTTTAAATGGTGA 58.785 33.333 0.00 0.00 0.00 4.02
2729 5179 8.504815 GTCTTTCTAGAGGTTTTAAATGGTGAC 58.495 37.037 0.00 0.00 0.00 3.67
2730 5180 8.437575 TCTTTCTAGAGGTTTTAAATGGTGACT 58.562 33.333 0.00 0.00 0.00 3.41
2731 5181 9.720769 CTTTCTAGAGGTTTTAAATGGTGACTA 57.279 33.333 0.00 0.00 0.00 2.59
2732 5182 9.498176 TTTCTAGAGGTTTTAAATGGTGACTAC 57.502 33.333 0.00 0.00 0.00 2.73
2734 5184 8.822805 TCTAGAGGTTTTAAATGGTGACTACAT 58.177 33.333 0.00 0.00 0.00 2.29
2737 5187 7.548075 AGAGGTTTTAAATGGTGACTACATACG 59.452 37.037 0.00 0.00 0.00 3.06
2739 5189 7.879160 AGGTTTTAAATGGTGACTACATACGAA 59.121 33.333 0.00 0.00 0.00 3.85
2740 5190 8.173130 GGTTTTAAATGGTGACTACATACGAAG 58.827 37.037 0.00 0.00 0.00 3.79
2742 5192 4.465632 AATGGTGACTACATACGAAGCA 57.534 40.909 0.00 0.00 0.00 3.91
2743 5193 3.945981 TGGTGACTACATACGAAGCAA 57.054 42.857 0.00 0.00 0.00 3.91
2744 5194 4.260139 TGGTGACTACATACGAAGCAAA 57.740 40.909 0.00 0.00 0.00 3.68
2747 5197 5.121611 TGGTGACTACATACGAAGCAAAATG 59.878 40.000 0.00 0.00 0.00 2.32
2748 5198 5.350365 GGTGACTACATACGAAGCAAAATGA 59.650 40.000 0.00 0.00 0.00 2.57
2749 5199 6.455646 GGTGACTACATACGAAGCAAAATGAG 60.456 42.308 0.00 0.00 0.00 2.90
2750 5200 6.090898 GTGACTACATACGAAGCAAAATGAGT 59.909 38.462 0.00 0.00 0.00 3.41
2751 5201 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
2755 5205 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
2756 5206 6.372659 ACATACGAAGCAAAATGAGTGAATCT 59.627 34.615 0.00 0.00 0.00 2.40
2757 5207 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
2758 5208 6.170675 ACGAAGCAAAATGAGTGAATCTAC 57.829 37.500 0.00 0.00 0.00 2.59
2759 5209 5.700832 ACGAAGCAAAATGAGTGAATCTACA 59.299 36.000 0.00 0.00 0.00 2.74
2760 5210 6.017933 CGAAGCAAAATGAGTGAATCTACAC 58.982 40.000 0.00 0.00 40.60 2.90
2834 5284 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
2835 5285 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
2836 5286 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
2837 5287 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
2870 5351 5.809562 TCCATCAAAACAAATGTGTGTTCAC 59.190 36.000 0.00 0.00 40.86 3.18
2899 5380 6.870769 AGGAATGATTTTCATGAAAAGCGAT 58.129 32.000 32.37 26.15 46.28 4.58
2910 5391 7.751047 TCATGAAAAGCGATTACTAGTACAC 57.249 36.000 0.91 0.00 0.00 2.90
2970 5451 3.583806 AGTTCAGACTGAGAATGAAGCG 58.416 45.455 5.10 0.00 33.99 4.68
3032 5531 4.338710 GTGTACAGGCCGGCCCAA 62.339 66.667 41.72 24.62 36.58 4.12
3040 5539 3.521796 GCCGGCCCAATCTTCAGC 61.522 66.667 18.11 0.00 0.00 4.26
3041 5540 2.273449 CCGGCCCAATCTTCAGCT 59.727 61.111 0.00 0.00 0.00 4.24
3042 5541 2.117156 CCGGCCCAATCTTCAGCTG 61.117 63.158 7.63 7.63 0.00 4.24
3043 5542 2.117156 CGGCCCAATCTTCAGCTGG 61.117 63.158 15.13 0.00 0.00 4.85
3045 5544 3.930504 CCCAATCTTCAGCTGGGC 58.069 61.111 15.13 0.00 43.35 5.36
3046 5545 1.305623 CCCAATCTTCAGCTGGGCT 59.694 57.895 15.13 0.00 43.35 5.19
3047 5546 0.324091 CCCAATCTTCAGCTGGGCTT 60.324 55.000 15.13 2.50 43.35 4.35
3048 5547 1.553706 CCAATCTTCAGCTGGGCTTT 58.446 50.000 15.13 0.40 36.40 3.51
3049 5548 1.475682 CCAATCTTCAGCTGGGCTTTC 59.524 52.381 15.13 0.00 36.40 2.62
3050 5549 1.131883 CAATCTTCAGCTGGGCTTTCG 59.868 52.381 15.13 0.00 36.40 3.46
3051 5550 1.028868 ATCTTCAGCTGGGCTTTCGC 61.029 55.000 15.13 0.00 36.40 4.70
3052 5551 1.968017 CTTCAGCTGGGCTTTCGCA 60.968 57.895 15.13 0.00 36.40 5.10
3053 5552 1.518056 CTTCAGCTGGGCTTTCGCAA 61.518 55.000 15.13 0.00 36.40 4.85
3059 5558 2.125952 GGGCTTTCGCAACATGCC 60.126 61.111 0.00 0.00 41.12 4.40
3134 5633 3.312890 AGGCTGTAGAATGAGGTGCTAT 58.687 45.455 0.00 0.00 0.00 2.97
3162 5661 2.752354 TGATCGCACATTTTAACCCTGG 59.248 45.455 0.00 0.00 0.00 4.45
3165 5664 1.067915 CGCACATTTTAACCCTGGTGG 60.068 52.381 0.00 0.00 41.37 4.61
3174 5673 2.593436 CCCTGGTGGTTTCGCGTT 60.593 61.111 5.77 0.00 0.00 4.84
3175 5674 2.190841 CCCTGGTGGTTTCGCGTTT 61.191 57.895 5.77 0.00 0.00 3.60
3176 5675 1.730451 CCCTGGTGGTTTCGCGTTTT 61.730 55.000 5.77 0.00 0.00 2.43
3177 5676 0.317519 CCTGGTGGTTTCGCGTTTTC 60.318 55.000 5.77 0.00 0.00 2.29
3178 5677 0.317519 CTGGTGGTTTCGCGTTTTCC 60.318 55.000 5.77 5.73 0.00 3.13
3179 5678 0.748729 TGGTGGTTTCGCGTTTTCCT 60.749 50.000 5.77 0.00 0.00 3.36
3180 5679 1.228533 GGTGGTTTCGCGTTTTCCTA 58.771 50.000 5.77 0.00 0.00 2.94
3181 5680 1.196127 GGTGGTTTCGCGTTTTCCTAG 59.804 52.381 5.77 0.00 0.00 3.02
3182 5681 1.869132 GTGGTTTCGCGTTTTCCTAGT 59.131 47.619 5.77 0.00 0.00 2.57
3183 5682 2.288729 GTGGTTTCGCGTTTTCCTAGTT 59.711 45.455 5.77 0.00 0.00 2.24
3184 5683 2.944349 TGGTTTCGCGTTTTCCTAGTTT 59.056 40.909 5.77 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.802715 CGCGCAAAAGATTGGCTGG 60.803 57.895 8.75 0.00 37.02 4.85
2 3 0.387239 GTTCGCGCAAAAGATTGGCT 60.387 50.000 8.75 0.00 37.02 4.75
3 4 1.344226 GGTTCGCGCAAAAGATTGGC 61.344 55.000 8.75 0.00 37.02 4.52
4 5 0.039617 TGGTTCGCGCAAAAGATTGG 60.040 50.000 8.75 0.00 37.02 3.16
5 6 1.650153 CATGGTTCGCGCAAAAGATTG 59.350 47.619 8.75 0.00 39.65 2.67
6 7 1.981254 CATGGTTCGCGCAAAAGATT 58.019 45.000 8.75 0.00 0.00 2.40
7 8 0.456653 GCATGGTTCGCGCAAAAGAT 60.457 50.000 8.75 0.00 0.00 2.40
8 9 1.081509 GCATGGTTCGCGCAAAAGA 60.082 52.632 8.75 0.00 0.00 2.52
9 10 2.088178 GGCATGGTTCGCGCAAAAG 61.088 57.895 8.75 0.00 0.00 2.27
10 11 2.049618 GGCATGGTTCGCGCAAAA 60.050 55.556 8.75 0.00 0.00 2.44
15 16 3.869272 GAGCAGGCATGGTTCGCG 61.869 66.667 3.89 0.00 37.25 5.87
23 24 2.203167 CCATGAGCGAGCAGGCAT 60.203 61.111 0.00 0.00 34.64 4.40
36 37 1.066143 AGCCAACTCTCGGTAACCATG 60.066 52.381 0.00 0.00 0.00 3.66
44 45 1.216710 GAGTCCAGCCAACTCTCGG 59.783 63.158 4.04 0.00 40.03 4.63
73 74 2.681848 GCTGGTGAATGTGATCAGGAAG 59.318 50.000 0.00 0.00 0.00 3.46
190 226 4.916041 ACTGATTGTTTCCTGATCCTGA 57.084 40.909 0.00 0.00 0.00 3.86
191 227 5.738909 ACTACTGATTGTTTCCTGATCCTG 58.261 41.667 0.00 0.00 0.00 3.86
192 228 7.566879 AGATACTACTGATTGTTTCCTGATCCT 59.433 37.037 0.00 0.00 0.00 3.24
193 229 7.731054 AGATACTACTGATTGTTTCCTGATCC 58.269 38.462 0.00 0.00 0.00 3.36
194 230 9.606631 AAAGATACTACTGATTGTTTCCTGATC 57.393 33.333 0.00 0.00 0.00 2.92
195 231 9.965902 AAAAGATACTACTGATTGTTTCCTGAT 57.034 29.630 0.00 0.00 0.00 2.90
226 597 1.350684 TGCATGGGTCTGCTTGTTCTA 59.649 47.619 0.00 0.00 42.75 2.10
289 1232 3.127548 GCTGTTCTCTCTCTCAGACTCTG 59.872 52.174 0.00 0.00 0.00 3.35
379 1334 2.482333 CCGGCGTCTTCGATCTCCT 61.482 63.158 6.01 0.00 39.71 3.69
585 1784 6.016860 GCCAATTTTTGAGGAAAATCAAAGCT 60.017 34.615 2.54 0.00 46.70 3.74
647 1850 9.219603 ACAATTATTTATACCATGAGACGGATG 57.780 33.333 0.00 0.00 0.00 3.51
780 1992 1.144708 TGGGATGCCAAAGTTCAGACA 59.855 47.619 2.13 0.00 0.00 3.41
1023 2253 7.881751 ACAGGGTTAATTGAAGTAGAAACTACC 59.118 37.037 0.00 0.00 33.75 3.18
1026 2256 7.778382 ACAACAGGGTTAATTGAAGTAGAAACT 59.222 33.333 0.00 0.00 37.65 2.66
1043 2273 2.708861 TGTAATCCAGACACAACAGGGT 59.291 45.455 0.00 0.00 0.00 4.34
1539 3918 0.824109 TGGGAGATGTAAGTGGAGCG 59.176 55.000 0.00 0.00 0.00 5.03
1667 4046 2.757896 CGATGAATTGACCGTTGAACG 58.242 47.619 11.30 11.30 42.11 3.95
1680 4059 1.143481 TCATGGTCCATGGCGATGAAT 59.857 47.619 28.01 4.56 41.66 2.57
1779 4158 1.615392 GCCTGCACAAAAGATTCTGGT 59.385 47.619 0.00 0.00 0.00 4.00
1964 4352 0.112995 ACAAGCAAATGGAGGGCTCA 59.887 50.000 0.00 0.00 36.76 4.26
1974 4362 2.339712 GGGCGCACACAAGCAAAT 59.660 55.556 10.83 0.00 34.54 2.32
2031 4419 2.421107 GCTCCAAGGCTGAGAATGATGA 60.421 50.000 6.07 0.00 31.26 2.92
2037 4425 1.004560 CACGCTCCAAGGCTGAGAA 60.005 57.895 6.07 0.00 31.26 2.87
2228 4639 7.044249 GCACTTAAGAAAAGAAAACGAACTTCC 60.044 37.037 10.09 0.00 0.00 3.46
2281 4729 5.220491 CGCTCTGCCTAGAAGAATAAACAAC 60.220 44.000 0.00 0.00 31.21 3.32
2305 4753 2.229792 TGTCCAAATCTGGTTGCTGAC 58.770 47.619 0.00 0.00 43.97 3.51
2318 4767 6.409524 AGAGATTCAAGCAAAATGTCCAAA 57.590 33.333 0.00 0.00 29.14 3.28
2400 4850 7.243824 ACAAATATATAGGAACGGAGGGAGTA 58.756 38.462 0.00 0.00 0.00 2.59
2401 4851 6.082707 ACAAATATATAGGAACGGAGGGAGT 58.917 40.000 0.00 0.00 0.00 3.85
2402 4852 6.437793 AGACAAATATATAGGAACGGAGGGAG 59.562 42.308 0.00 0.00 0.00 4.30
2403 4853 6.320518 AGACAAATATATAGGAACGGAGGGA 58.679 40.000 0.00 0.00 0.00 4.20
2404 4854 6.607004 AGACAAATATATAGGAACGGAGGG 57.393 41.667 0.00 0.00 0.00 4.30
2405 4855 8.904099 AAAAGACAAATATATAGGAACGGAGG 57.096 34.615 0.00 0.00 0.00 4.30
2429 4879 9.575868 TGTGGTAGTCCATTTAAAATGACTAAA 57.424 29.630 22.02 14.98 46.20 1.85
2430 4880 9.747898 ATGTGGTAGTCCATTTAAAATGACTAA 57.252 29.630 22.02 12.92 46.20 2.24
2432 4882 9.174166 GTATGTGGTAGTCCATTTAAAATGACT 57.826 33.333 20.29 20.29 46.20 3.41
2433 4883 8.120465 CGTATGTGGTAGTCCATTTAAAATGAC 58.880 37.037 10.81 10.81 46.20 3.06
2434 4884 7.281324 CCGTATGTGGTAGTCCATTTAAAATGA 59.719 37.037 0.00 0.00 46.20 2.57
2435 4885 7.281324 TCCGTATGTGGTAGTCCATTTAAAATG 59.719 37.037 0.00 0.00 46.20 2.32
2436 4886 7.340256 TCCGTATGTGGTAGTCCATTTAAAAT 58.660 34.615 0.00 0.00 46.20 1.82
2437 4887 6.709281 TCCGTATGTGGTAGTCCATTTAAAA 58.291 36.000 0.00 0.00 46.20 1.52
2438 4888 6.297080 TCCGTATGTGGTAGTCCATTTAAA 57.703 37.500 0.00 0.00 46.20 1.52
2439 4889 5.936187 TCCGTATGTGGTAGTCCATTTAA 57.064 39.130 0.00 0.00 46.20 1.52
2440 4890 5.364446 ACATCCGTATGTGGTAGTCCATTTA 59.636 40.000 0.00 0.00 44.79 1.40
2441 4891 4.163458 ACATCCGTATGTGGTAGTCCATTT 59.837 41.667 0.00 0.00 44.79 2.32
2442 4892 3.709653 ACATCCGTATGTGGTAGTCCATT 59.290 43.478 0.00 0.00 44.79 3.16
2443 4893 3.305720 ACATCCGTATGTGGTAGTCCAT 58.694 45.455 0.00 0.00 44.79 3.41
2444 4894 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02
2445 4895 4.806330 CATACATCCGTATGTGGTAGTCC 58.194 47.826 3.56 0.00 46.70 3.85
2483 4933 6.017933 CGAAGCAAAATGAGTGAATCTACAC 58.982 40.000 0.00 0.00 40.60 2.90
2484 4934 5.700832 ACGAAGCAAAATGAGTGAATCTACA 59.299 36.000 0.00 0.00 0.00 2.74
2485 4935 6.170675 ACGAAGCAAAATGAGTGAATCTAC 57.829 37.500 0.00 0.00 0.00 2.59
2486 4936 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
2487 4937 6.372659 ACATACGAAGCAAAATGAGTGAATCT 59.627 34.615 0.00 0.00 0.00 2.40
2488 4938 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
2489 4939 6.500684 ACATACGAAGCAAAATGAGTGAAT 57.499 33.333 0.00 0.00 0.00 2.57
2490 4940 5.940192 ACATACGAAGCAAAATGAGTGAA 57.060 34.783 0.00 0.00 0.00 3.18
2491 4941 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
2492 4942 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
2493 4943 6.090898 GTGACTACATACGAAGCAAAATGAGT 59.909 38.462 0.00 0.00 0.00 3.41
2494 4944 6.311445 AGTGACTACATACGAAGCAAAATGAG 59.689 38.462 0.00 0.00 0.00 2.90
2495 4945 6.163476 AGTGACTACATACGAAGCAAAATGA 58.837 36.000 0.00 0.00 0.00 2.57
2496 4946 6.408858 AGTGACTACATACGAAGCAAAATG 57.591 37.500 0.00 0.00 0.00 2.32
2497 4947 6.426937 ACAAGTGACTACATACGAAGCAAAAT 59.573 34.615 0.00 0.00 0.00 1.82
2498 4948 5.756347 ACAAGTGACTACATACGAAGCAAAA 59.244 36.000 0.00 0.00 0.00 2.44
2499 4949 5.294356 ACAAGTGACTACATACGAAGCAAA 58.706 37.500 0.00 0.00 0.00 3.68
2500 4950 4.878439 ACAAGTGACTACATACGAAGCAA 58.122 39.130 0.00 0.00 0.00 3.91
2501 4951 4.514781 ACAAGTGACTACATACGAAGCA 57.485 40.909 0.00 0.00 0.00 3.91
2502 4952 6.939551 TTAACAAGTGACTACATACGAAGC 57.060 37.500 0.00 0.00 0.00 3.86
2530 4980 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
2531 4981 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
2532 4982 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
2533 4983 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
2534 4984 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
2535 4985 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
2536 4986 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2537 4987 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2538 4988 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
2539 4989 5.703730 TCCCTCCGTTCCTAAATATTTGT 57.296 39.130 11.05 0.00 0.00 2.83
2540 4990 8.154856 TCTATTCCCTCCGTTCCTAAATATTTG 58.845 37.037 11.05 1.40 0.00 2.32
2541 4991 8.271398 TCTATTCCCTCCGTTCCTAAATATTT 57.729 34.615 5.89 5.89 0.00 1.40
2542 4992 7.867160 TCTATTCCCTCCGTTCCTAAATATT 57.133 36.000 0.00 0.00 0.00 1.28
2543 4993 7.867160 TTCTATTCCCTCCGTTCCTAAATAT 57.133 36.000 0.00 0.00 0.00 1.28
2544 4994 7.679732 TTTCTATTCCCTCCGTTCCTAAATA 57.320 36.000 0.00 0.00 0.00 1.40
2545 4995 6.570654 TTTCTATTCCCTCCGTTCCTAAAT 57.429 37.500 0.00 0.00 0.00 1.40
2546 4996 5.628433 GCTTTCTATTCCCTCCGTTCCTAAA 60.628 44.000 0.00 0.00 0.00 1.85
2547 4997 4.141779 GCTTTCTATTCCCTCCGTTCCTAA 60.142 45.833 0.00 0.00 0.00 2.69
2548 4998 3.387050 GCTTTCTATTCCCTCCGTTCCTA 59.613 47.826 0.00 0.00 0.00 2.94
2549 4999 2.170817 GCTTTCTATTCCCTCCGTTCCT 59.829 50.000 0.00 0.00 0.00 3.36
2550 5000 2.093128 TGCTTTCTATTCCCTCCGTTCC 60.093 50.000 0.00 0.00 0.00 3.62
2551 5001 3.261981 TGCTTTCTATTCCCTCCGTTC 57.738 47.619 0.00 0.00 0.00 3.95
2552 5002 3.610911 CTTGCTTTCTATTCCCTCCGTT 58.389 45.455 0.00 0.00 0.00 4.44
2553 5003 2.092914 CCTTGCTTTCTATTCCCTCCGT 60.093 50.000 0.00 0.00 0.00 4.69
2554 5004 2.565841 CCTTGCTTTCTATTCCCTCCG 58.434 52.381 0.00 0.00 0.00 4.63
2555 5005 2.423517 CCCCTTGCTTTCTATTCCCTCC 60.424 54.545 0.00 0.00 0.00 4.30
2556 5006 2.242452 ACCCCTTGCTTTCTATTCCCTC 59.758 50.000 0.00 0.00 0.00 4.30
2557 5007 2.288525 ACCCCTTGCTTTCTATTCCCT 58.711 47.619 0.00 0.00 0.00 4.20
2558 5008 2.828661 ACCCCTTGCTTTCTATTCCC 57.171 50.000 0.00 0.00 0.00 3.97
2559 5009 5.483685 AAAAACCCCTTGCTTTCTATTCC 57.516 39.130 0.00 0.00 0.00 3.01
2595 5045 6.147328 GTCCCTATCAGTACAAGAACACAAAC 59.853 42.308 0.00 0.00 0.00 2.93
2642 5092 4.058417 TGGGAGCATAGAGAGCATAGAT 57.942 45.455 0.00 0.00 0.00 1.98
2646 5096 2.038689 CACATGGGAGCATAGAGAGCAT 59.961 50.000 0.00 0.00 0.00 3.79
2676 5126 8.488308 AATATTTAGTAACGGAGGGAGTACAT 57.512 34.615 0.00 0.00 0.00 2.29
2677 5127 7.902920 AATATTTAGTAACGGAGGGAGTACA 57.097 36.000 0.00 0.00 0.00 2.90
2678 5128 8.200120 ACAAATATTTAGTAACGGAGGGAGTAC 58.800 37.037 0.00 0.00 0.00 2.73
2681 5131 7.498443 AGACAAATATTTAGTAACGGAGGGAG 58.502 38.462 0.00 0.00 0.00 4.30
2682 5132 7.427989 AGACAAATATTTAGTAACGGAGGGA 57.572 36.000 0.00 0.00 0.00 4.20
2683 5133 8.502105 AAAGACAAATATTTAGTAACGGAGGG 57.498 34.615 0.00 0.00 0.00 4.30
2684 5134 9.379791 AGAAAGACAAATATTTAGTAACGGAGG 57.620 33.333 0.00 0.00 0.00 4.30
2702 5152 8.215050 TCACCATTTAAAACCTCTAGAAAGACA 58.785 33.333 0.00 0.00 0.00 3.41
2704 5154 8.437575 AGTCACCATTTAAAACCTCTAGAAAGA 58.562 33.333 0.00 0.00 0.00 2.52
2706 5156 9.498176 GTAGTCACCATTTAAAACCTCTAGAAA 57.502 33.333 0.00 0.00 0.00 2.52
2707 5157 8.653191 TGTAGTCACCATTTAAAACCTCTAGAA 58.347 33.333 0.00 0.00 0.00 2.10
2708 5158 8.197592 TGTAGTCACCATTTAAAACCTCTAGA 57.802 34.615 0.00 0.00 0.00 2.43
2711 5161 7.548075 CGTATGTAGTCACCATTTAAAACCTCT 59.452 37.037 0.00 0.00 0.00 3.69
2712 5162 7.546667 TCGTATGTAGTCACCATTTAAAACCTC 59.453 37.037 0.00 0.00 0.00 3.85
2713 5163 7.388437 TCGTATGTAGTCACCATTTAAAACCT 58.612 34.615 0.00 0.00 0.00 3.50
2714 5164 7.599630 TCGTATGTAGTCACCATTTAAAACC 57.400 36.000 0.00 0.00 0.00 3.27
2715 5165 7.691050 GCTTCGTATGTAGTCACCATTTAAAAC 59.309 37.037 0.00 0.00 0.00 2.43
2716 5166 7.388224 TGCTTCGTATGTAGTCACCATTTAAAA 59.612 33.333 0.00 0.00 0.00 1.52
2717 5167 6.874664 TGCTTCGTATGTAGTCACCATTTAAA 59.125 34.615 0.00 0.00 0.00 1.52
2719 5169 5.968254 TGCTTCGTATGTAGTCACCATTTA 58.032 37.500 0.00 0.00 0.00 1.40
2721 5171 4.465632 TGCTTCGTATGTAGTCACCATT 57.534 40.909 0.00 0.00 0.00 3.16
2722 5172 4.465632 TTGCTTCGTATGTAGTCACCAT 57.534 40.909 0.00 0.00 0.00 3.55
2723 5173 3.945981 TTGCTTCGTATGTAGTCACCA 57.054 42.857 0.00 0.00 0.00 4.17
2724 5174 5.350365 TCATTTTGCTTCGTATGTAGTCACC 59.650 40.000 0.00 0.00 0.00 4.02
2726 5176 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
2727 5177 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
2728 5178 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
2729 5179 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
2730 5180 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
2731 5181 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
2732 5182 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
2734 5184 6.871492 TGTAGATTCACTCATTTTGCTTCGTA 59.129 34.615 0.00 0.00 0.00 3.43
2735 5185 5.700832 TGTAGATTCACTCATTTTGCTTCGT 59.299 36.000 0.00 0.00 0.00 3.85
2737 5187 7.138692 AGTGTAGATTCACTCATTTTGCTTC 57.861 36.000 0.00 0.00 44.07 3.86
2809 5259 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
2811 5261 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
2812 5262 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
2814 5264 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2815 5265 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2816 5266 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
2819 5269 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
2820 5270 5.011840 GCTACTCCCTCCGTTCCTAAATATT 59.988 44.000 0.00 0.00 0.00 1.28
2821 5271 4.527427 GCTACTCCCTCCGTTCCTAAATAT 59.473 45.833 0.00 0.00 0.00 1.28
2822 5272 3.893813 GCTACTCCCTCCGTTCCTAAATA 59.106 47.826 0.00 0.00 0.00 1.40
2823 5273 2.699321 GCTACTCCCTCCGTTCCTAAAT 59.301 50.000 0.00 0.00 0.00 1.40
2824 5274 2.105766 GCTACTCCCTCCGTTCCTAAA 58.894 52.381 0.00 0.00 0.00 1.85
2825 5275 1.006281 TGCTACTCCCTCCGTTCCTAA 59.994 52.381 0.00 0.00 0.00 2.69
2826 5276 0.627451 TGCTACTCCCTCCGTTCCTA 59.373 55.000 0.00 0.00 0.00 2.94
2828 5278 0.389757 GATGCTACTCCCTCCGTTCC 59.610 60.000 0.00 0.00 0.00 3.62
2829 5279 0.389757 GGATGCTACTCCCTCCGTTC 59.610 60.000 0.00 0.00 0.00 3.95
2830 5280 0.325296 TGGATGCTACTCCCTCCGTT 60.325 55.000 0.00 0.00 34.12 4.44
2831 5281 0.105453 ATGGATGCTACTCCCTCCGT 60.105 55.000 0.00 0.00 34.12 4.69
2832 5282 0.605589 GATGGATGCTACTCCCTCCG 59.394 60.000 0.00 0.00 34.12 4.63
2833 5283 1.722034 TGATGGATGCTACTCCCTCC 58.278 55.000 0.00 0.00 34.12 4.30
2834 5284 3.845781 TTTGATGGATGCTACTCCCTC 57.154 47.619 0.00 0.00 34.12 4.30
2835 5285 3.266772 TGTTTTGATGGATGCTACTCCCT 59.733 43.478 0.00 0.00 34.12 4.20
2836 5286 3.620488 TGTTTTGATGGATGCTACTCCC 58.380 45.455 0.00 0.00 34.12 4.30
2837 5287 5.643379 TTTGTTTTGATGGATGCTACTCC 57.357 39.130 0.00 0.00 35.74 3.85
2870 5351 8.823818 GCTTTTCATGAAAATCATTCCTATTGG 58.176 33.333 28.86 15.79 39.29 3.16
2899 5380 4.880120 AGCTATCAGCACGTGTACTAGTAA 59.120 41.667 18.38 0.00 45.56 2.24
2910 5391 1.886313 CTGCCCAGCTATCAGCACG 60.886 63.158 0.38 0.00 45.56 5.34
2996 5495 1.582610 CGCAATACAAGGCCCAACGT 61.583 55.000 0.00 0.00 0.00 3.99
3002 5501 1.396996 CTGTACACGCAATACAAGGCC 59.603 52.381 0.00 0.00 32.27 5.19
3032 5531 3.165606 CGAAAGCCCAGCTGAAGAT 57.834 52.632 17.39 1.20 39.62 2.40
3045 5544 2.504681 GCCGGCATGTTGCGAAAG 60.505 61.111 24.80 0.00 46.21 2.62
3046 5545 4.049640 GGCCGGCATGTTGCGAAA 62.050 61.111 30.85 0.00 46.21 3.46
3070 5569 0.441533 CAATGTGAGTGACTCTGCGC 59.558 55.000 14.42 0.00 0.00 6.09
3142 5641 2.752903 ACCAGGGTTAAAATGTGCGATC 59.247 45.455 0.00 0.00 0.00 3.69
3145 5644 1.067915 CCACCAGGGTTAAAATGTGCG 60.068 52.381 0.00 0.00 0.00 5.34
3162 5661 1.869132 ACTAGGAAAACGCGAAACCAC 59.131 47.619 15.93 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.