Multiple sequence alignment - TraesCS7D01G551000

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G551000 chr7D 100.000 2711 0 0 1 2711 634710584 634707874 0.000000e+00 5007.0
1 TraesCS7D01G551000 chr7D 87.302 1764 162 28 423 2144 634677513 634679256 0.000000e+00 1960.0
2 TraesCS7D01G551000 chr7D 85.981 1712 199 28 451 2144 634669504 634671192 0.000000e+00 1794.0
3 TraesCS7D01G551000 chr7D 95.098 204 9 1 2509 2711 269986105 269985902 1.210000e-83 320.0
4 TraesCS7D01G551000 chr7D 85.385 130 17 2 295 423 76395564 76395692 1.690000e-27 134.0
5 TraesCS7D01G551000 chr7D 77.249 189 33 9 223 408 158318700 158318881 4.780000e-18 102.0
6 TraesCS7D01G551000 chr7A 95.352 2302 96 9 1 2298 731252104 731254398 0.000000e+00 3648.0
7 TraesCS7D01G551000 chr7A 92.779 1274 90 2 861 2133 731236443 731237715 0.000000e+00 1842.0
8 TraesCS7D01G551000 chr7A 86.590 1663 186 27 491 2144 731389588 731387954 0.000000e+00 1801.0
9 TraesCS7D01G551000 chr7A 87.842 1497 146 21 423 1906 731501724 731500251 0.000000e+00 1724.0
10 TraesCS7D01G551000 chr7A 86.865 1576 153 24 423 1989 731017241 731018771 0.000000e+00 1714.0
11 TraesCS7D01G551000 chr7A 90.644 1133 101 5 1015 2144 731283062 731281932 0.000000e+00 1500.0
12 TraesCS7D01G551000 chr7A 88.759 685 62 9 1 674 731235269 731235949 0.000000e+00 824.0
13 TraesCS7D01G551000 chr7A 78.808 604 89 16 432 1011 731292466 731291878 1.190000e-98 370.0
14 TraesCS7D01G551000 chr7A 92.308 208 10 5 1 205 731115760 731115964 9.500000e-75 291.0
15 TraesCS7D01G551000 chr7A 91.827 208 11 5 1 205 731147932 731148136 4.420000e-73 285.0
16 TraesCS7D01G551000 chr7A 91.748 206 11 5 3 205 731176482 731176684 5.710000e-72 281.0
17 TraesCS7D01G551000 chr7A 91.748 206 11 5 3 205 731205216 731205418 5.710000e-72 281.0
18 TraesCS7D01G551000 chr7A 90.686 204 13 5 5 205 731213778 731213978 1.600000e-67 267.0
19 TraesCS7D01G551000 chr7A 85.930 199 23 4 423 619 731352368 731352173 9.840000e-50 207.0
20 TraesCS7D01G551000 chr7A 98.795 83 1 0 2427 2509 731254741 731254823 6.050000e-32 148.0
21 TraesCS7D01G551000 chr7A 76.596 235 51 4 194 427 727826233 727826464 2.830000e-25 126.0
22 TraesCS7D01G551000 chr7A 100.000 40 0 0 2389 2428 731254378 731254417 1.040000e-09 75.0
23 TraesCS7D01G551000 chr4B 88.038 1580 154 17 423 1989 625077737 625079294 0.000000e+00 1838.0
24 TraesCS7D01G551000 chr7B 85.934 1756 182 30 432 2144 741588879 741587146 0.000000e+00 1814.0
25 TraesCS7D01G551000 chr7B 86.246 1694 192 30 464 2144 741548886 741550551 0.000000e+00 1799.0
26 TraesCS7D01G551000 chr7B 81.897 116 16 3 294 408 529260571 529260682 2.870000e-15 93.5
27 TraesCS7D01G551000 chr6D 95.122 205 9 1 2507 2710 28893583 28893379 3.370000e-84 322.0
28 TraesCS7D01G551000 chr5D 95.122 205 9 1 2507 2710 210459608 210459404 3.370000e-84 322.0
29 TraesCS7D01G551000 chr2D 95.122 205 9 1 2507 2710 22500726 22500522 3.370000e-84 322.0
30 TraesCS7D01G551000 chr1D 95.098 204 9 1 2506 2708 203866201 203866404 1.210000e-83 320.0
31 TraesCS7D01G551000 chr4A 93.488 215 13 1 2498 2711 435506799 435507013 4.360000e-83 318.0
32 TraesCS7D01G551000 chr4A 80.000 260 44 4 164 423 637212831 637212580 4.610000e-43 185.0
33 TraesCS7D01G551000 chr6B 93.056 216 13 2 2497 2710 682836544 682836329 5.630000e-82 315.0
34 TraesCS7D01G551000 chr6B 76.429 280 41 11 161 425 27977419 27977688 7.880000e-26 128.0
35 TraesCS7D01G551000 chr6B 79.518 166 25 7 264 424 205276452 205276613 2.850000e-20 110.0
36 TraesCS7D01G551000 chr1A 93.810 210 12 1 2502 2710 343407407 343407616 5.630000e-82 315.0
37 TraesCS7D01G551000 chr1A 78.191 188 29 9 223 406 574169071 574168892 2.850000e-20 110.0
38 TraesCS7D01G551000 chr2A 93.023 215 14 1 2497 2710 229539119 229539333 2.030000e-81 313.0
39 TraesCS7D01G551000 chrUn 91.748 206 11 5 3 205 368508241 368508039 5.710000e-72 281.0
40 TraesCS7D01G551000 chr3A 79.545 264 53 1 164 427 275545171 275544909 1.280000e-43 187.0
41 TraesCS7D01G551000 chr4D 86.139 101 8 3 324 423 501514776 501514681 1.330000e-18 104.0
42 TraesCS7D01G551000 chr5B 79.310 116 22 2 195 309 369160856 369160970 2.240000e-11 80.5


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 TraesCS7D01G551000 chr7D 634707874 634710584 2710 True 5007.000000 5007 100.000 1 2711 1 chr7D.!!$R2 2710
1 TraesCS7D01G551000 chr7D 634677513 634679256 1743 False 1960.000000 1960 87.302 423 2144 1 chr7D.!!$F4 1721
2 TraesCS7D01G551000 chr7D 634669504 634671192 1688 False 1794.000000 1794 85.981 451 2144 1 chr7D.!!$F3 1693
3 TraesCS7D01G551000 chr7A 731387954 731389588 1634 True 1801.000000 1801 86.590 491 2144 1 chr7A.!!$R4 1653
4 TraesCS7D01G551000 chr7A 731500251 731501724 1473 True 1724.000000 1724 87.842 423 1906 1 chr7A.!!$R5 1483
5 TraesCS7D01G551000 chr7A 731017241 731018771 1530 False 1714.000000 1714 86.865 423 1989 1 chr7A.!!$F2 1566
6 TraesCS7D01G551000 chr7A 731281932 731283062 1130 True 1500.000000 1500 90.644 1015 2144 1 chr7A.!!$R1 1129
7 TraesCS7D01G551000 chr7A 731235269 731237715 2446 False 1333.000000 1842 90.769 1 2133 2 chr7A.!!$F8 2132
8 TraesCS7D01G551000 chr7A 731252104 731254823 2719 False 1290.333333 3648 98.049 1 2509 3 chr7A.!!$F9 2508
9 TraesCS7D01G551000 chr7A 731291878 731292466 588 True 370.000000 370 78.808 432 1011 1 chr7A.!!$R2 579
10 TraesCS7D01G551000 chr4B 625077737 625079294 1557 False 1838.000000 1838 88.038 423 1989 1 chr4B.!!$F1 1566
11 TraesCS7D01G551000 chr7B 741587146 741588879 1733 True 1814.000000 1814 85.934 432 2144 1 chr7B.!!$R1 1712
12 TraesCS7D01G551000 chr7B 741548886 741550551 1665 False 1799.000000 1799 86.246 464 2144 1 chr7B.!!$F2 1680

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
186 191 0.314935 GTGCTGGGATTGTGTGTTGG 59.685 55.0 0.00 0.0 0.0 3.77 F
569 597 0.323360 GTGTCTTTATGGGCCTGGCA 60.323 55.0 22.05 0.0 0.0 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1683 2076 0.974383 GAGGGAAAGGACTCGAACCA 59.026 55.0 10.29 0.0 0.00 3.67 R
2343 2756 0.108329 GCTACCTGCTGAGGCGTTAA 60.108 55.0 0.00 0.0 44.33 2.01 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
27 28 2.095516 GCTGCTTTGGTGACTTAAGAGC 60.096 50.000 10.09 6.31 0.00 4.09
28 29 3.141398 CTGCTTTGGTGACTTAAGAGCA 58.859 45.455 10.09 10.70 0.00 4.26
186 191 0.314935 GTGCTGGGATTGTGTGTTGG 59.685 55.000 0.00 0.00 0.00 3.77
217 222 7.116736 AGGATAGTCCGAACAACCATAATTTT 58.883 34.615 0.00 0.00 42.75 1.82
368 374 6.524586 CCTTGAAGACGACTTTAATCATTTGC 59.475 38.462 5.42 0.00 36.39 3.68
443 449 6.385649 AGTCTTAGCAGTATGAGAGTTAGC 57.614 41.667 0.00 0.00 39.69 3.09
508 526 5.654603 TCTTTGTTCCTTCTAGCGATGTA 57.345 39.130 0.00 0.00 0.00 2.29
517 535 5.867716 TCCTTCTAGCGATGTAGTTTTTGTC 59.132 40.000 0.00 0.00 0.00 3.18
518 536 5.063564 CCTTCTAGCGATGTAGTTTTTGTCC 59.936 44.000 0.00 0.00 0.00 4.02
528 548 7.201232 CGATGTAGTTTTTGTCCGCTTATTTTG 60.201 37.037 0.00 0.00 0.00 2.44
569 597 0.323360 GTGTCTTTATGGGCCTGGCA 60.323 55.000 22.05 0.00 0.00 4.92
592 620 4.287067 AGATAGGAGAAAGGCTTGTGTTCA 59.713 41.667 0.00 0.00 0.00 3.18
636 664 1.559682 TGGGCTTAGAAGGATGTCACC 59.440 52.381 0.00 0.00 0.00 4.02
701 732 3.687698 GGAAACCATTAGCACGTGTATGT 59.312 43.478 18.38 3.61 0.00 2.29
718 749 0.892755 TGTTATGTCTCGCTCCCGTT 59.107 50.000 0.00 0.00 35.54 4.44
766 798 2.032549 GTCATGCGCTATCATGTCCAAC 60.033 50.000 9.73 0.00 43.18 3.77
828 860 4.204012 CAATTAAGGCCGGGTCAAAGATA 58.796 43.478 2.18 0.00 0.00 1.98
851 883 2.522721 GCTAGATATTCGATCGCGTTCG 59.477 50.000 28.61 28.61 40.46 3.95
933 1285 4.283467 CGGTGATCCCTCCACTATAAATCA 59.717 45.833 0.00 0.00 35.05 2.57
966 1319 2.739913 CTCGCCGAAACCATCAACTTTA 59.260 45.455 0.00 0.00 0.00 1.85
1028 1414 2.699954 CAATGTGACCCTCCAGTACAC 58.300 52.381 0.00 0.00 0.00 2.90
1140 1526 3.380637 CCAAGACCTGCGTACTAGTGTAT 59.619 47.826 5.39 0.00 0.00 2.29
1228 1614 2.867624 TCAAAAGCATTCCAGAGCTGT 58.132 42.857 0.00 0.00 41.70 4.40
1554 1941 1.195442 TGTATCCGGCACCACCTCAA 61.195 55.000 0.00 0.00 35.61 3.02
1649 2039 4.116238 GCCAACTTCTCTAGCAGTGATAC 58.884 47.826 0.00 0.00 0.00 2.24
1679 2072 4.711399 CAGATGCAGTCCTTTGATATGGA 58.289 43.478 0.00 0.00 0.00 3.41
1683 2076 6.837568 AGATGCAGTCCTTTGATATGGATTTT 59.162 34.615 0.00 0.00 34.58 1.82
1862 2266 5.569059 CGTGTTCTTTGAGCCAAATCATAAC 59.431 40.000 1.56 5.29 32.70 1.89
1875 2279 8.199449 AGCCAAATCATAACTAATTCCAATGTG 58.801 33.333 0.00 0.00 0.00 3.21
2026 2435 5.359756 CACCAGCTATGCACTAGACAATTA 58.640 41.667 0.00 0.00 0.00 1.40
2104 2514 7.618502 ATTTCATGCTATTTTGGTGTACGTA 57.381 32.000 0.00 0.00 0.00 3.57
2230 2643 7.971183 AAAGAGTTAGACAAGGTTCTCAATC 57.029 36.000 0.00 0.00 0.00 2.67
2246 2659 4.565166 TCTCAATCGCTACAACAATTACCG 59.435 41.667 0.00 0.00 0.00 4.02
2258 2671 2.560542 ACAATTACCGGAAATGCTTGCA 59.439 40.909 9.46 0.00 0.00 4.08
2276 2689 3.988819 TGCAGCCTAAAAACAATTGGAC 58.011 40.909 10.83 0.00 0.00 4.02
2277 2690 3.640967 TGCAGCCTAAAAACAATTGGACT 59.359 39.130 10.83 0.00 0.00 3.85
2278 2691 4.237724 GCAGCCTAAAAACAATTGGACTC 58.762 43.478 10.83 0.00 0.00 3.36
2279 2692 4.809673 CAGCCTAAAAACAATTGGACTCC 58.190 43.478 10.83 0.00 0.00 3.85
2280 2693 4.280677 CAGCCTAAAAACAATTGGACTCCA 59.719 41.667 10.83 0.00 0.00 3.86
2281 2694 4.280929 AGCCTAAAAACAATTGGACTCCAC 59.719 41.667 10.83 0.00 30.78 4.02
2282 2695 4.280929 GCCTAAAAACAATTGGACTCCACT 59.719 41.667 10.83 0.00 30.78 4.00
2283 2696 5.772521 CCTAAAAACAATTGGACTCCACTG 58.227 41.667 10.83 1.08 30.78 3.66
2284 2697 3.733443 AAAACAATTGGACTCCACTGC 57.267 42.857 10.83 0.00 30.78 4.40
2285 2698 1.620822 AACAATTGGACTCCACTGCC 58.379 50.000 10.83 0.00 30.78 4.85
2286 2699 0.606401 ACAATTGGACTCCACTGCCG 60.606 55.000 10.83 0.00 30.78 5.69
2287 2700 1.002134 AATTGGACTCCACTGCCGG 60.002 57.895 0.00 0.00 30.78 6.13
2288 2701 3.628646 ATTGGACTCCACTGCCGGC 62.629 63.158 22.73 22.73 30.78 6.13
2290 2703 4.101448 GGACTCCACTGCCGGCAT 62.101 66.667 32.87 14.90 0.00 4.40
2291 2704 2.821366 GACTCCACTGCCGGCATG 60.821 66.667 32.87 27.16 0.00 4.06
2292 2705 4.415150 ACTCCACTGCCGGCATGG 62.415 66.667 34.15 34.15 42.50 3.66
2298 2711 4.431131 CTGCCGGCATGGGACCTT 62.431 66.667 32.87 0.00 38.63 3.50
2299 2712 3.944250 CTGCCGGCATGGGACCTTT 62.944 63.158 32.87 0.00 38.63 3.11
2300 2713 3.140814 GCCGGCATGGGACCTTTC 61.141 66.667 24.80 0.00 38.63 2.62
2301 2714 2.440247 CCGGCATGGGACCTTTCC 60.440 66.667 0.00 0.00 41.95 3.13
2302 2715 2.677228 CGGCATGGGACCTTTCCT 59.323 61.111 0.00 0.00 42.38 3.36
2303 2716 1.000896 CGGCATGGGACCTTTCCTT 60.001 57.895 0.00 0.00 42.38 3.36
2304 2717 1.315257 CGGCATGGGACCTTTCCTTG 61.315 60.000 0.00 0.00 42.38 3.61
2305 2718 0.251787 GGCATGGGACCTTTCCTTGT 60.252 55.000 0.00 0.00 42.38 3.16
2306 2719 1.177401 GCATGGGACCTTTCCTTGTC 58.823 55.000 0.00 0.00 42.38 3.18
2307 2720 1.547675 GCATGGGACCTTTCCTTGTCA 60.548 52.381 0.00 0.00 42.38 3.58
2308 2721 2.885554 GCATGGGACCTTTCCTTGTCAT 60.886 50.000 0.00 0.00 42.38 3.06
2309 2722 2.879103 TGGGACCTTTCCTTGTCATC 57.121 50.000 0.00 0.00 42.38 2.92
2310 2723 1.003118 TGGGACCTTTCCTTGTCATCG 59.997 52.381 0.00 0.00 42.38 3.84
2311 2724 1.087501 GGACCTTTCCTTGTCATCGC 58.912 55.000 0.00 0.00 39.13 4.58
2312 2725 1.087501 GACCTTTCCTTGTCATCGCC 58.912 55.000 0.00 0.00 0.00 5.54
2313 2726 0.673644 ACCTTTCCTTGTCATCGCCG 60.674 55.000 0.00 0.00 0.00 6.46
2314 2727 1.425428 CTTTCCTTGTCATCGCCGC 59.575 57.895 0.00 0.00 0.00 6.53
2315 2728 1.003839 TTTCCTTGTCATCGCCGCT 60.004 52.632 0.00 0.00 0.00 5.52
2316 2729 1.298157 TTTCCTTGTCATCGCCGCTG 61.298 55.000 0.00 0.00 0.00 5.18
2317 2730 3.869272 CCTTGTCATCGCCGCTGC 61.869 66.667 0.00 0.00 0.00 5.25
2318 2731 3.120385 CTTGTCATCGCCGCTGCA 61.120 61.111 0.00 0.00 37.32 4.41
2319 2732 3.372676 CTTGTCATCGCCGCTGCAC 62.373 63.158 0.00 0.00 37.32 4.57
2337 2750 4.840005 GCTACGGTGGCCAGGCTC 62.840 72.222 5.11 4.97 0.00 4.70
2338 2751 3.390521 CTACGGTGGCCAGGCTCA 61.391 66.667 5.11 4.82 0.00 4.26
2339 2752 3.376935 CTACGGTGGCCAGGCTCAG 62.377 68.421 5.11 8.45 0.00 3.35
2350 2763 3.188011 GGCTCAGCCTTTAACGCC 58.812 61.111 9.09 0.00 46.69 5.68
2351 2764 1.377333 GGCTCAGCCTTTAACGCCT 60.377 57.895 9.09 0.00 46.69 5.52
2352 2765 1.369839 GGCTCAGCCTTTAACGCCTC 61.370 60.000 9.09 0.00 46.69 4.70
2353 2766 0.673644 GCTCAGCCTTTAACGCCTCA 60.674 55.000 0.00 0.00 0.00 3.86
2354 2767 1.363744 CTCAGCCTTTAACGCCTCAG 58.636 55.000 0.00 0.00 0.00 3.35
2355 2768 0.673644 TCAGCCTTTAACGCCTCAGC 60.674 55.000 0.00 0.00 0.00 4.26
2356 2769 0.955428 CAGCCTTTAACGCCTCAGCA 60.955 55.000 0.00 0.00 39.83 4.41
2357 2770 0.674895 AGCCTTTAACGCCTCAGCAG 60.675 55.000 0.00 0.00 39.83 4.24
2358 2771 1.648467 GCCTTTAACGCCTCAGCAGG 61.648 60.000 0.00 0.00 43.82 4.85
2359 2772 0.321653 CCTTTAACGCCTCAGCAGGT 60.322 55.000 0.00 0.00 42.74 4.00
2360 2773 1.066430 CCTTTAACGCCTCAGCAGGTA 60.066 52.381 0.00 0.00 42.74 3.08
2361 2774 2.271800 CTTTAACGCCTCAGCAGGTAG 58.728 52.381 0.00 0.00 42.74 3.18
2362 2775 0.108329 TTAACGCCTCAGCAGGTAGC 60.108 55.000 0.00 0.00 42.74 3.58
2371 2784 3.813596 GCAGGTAGCCGAATGTGG 58.186 61.111 0.00 0.00 37.23 4.17
2372 2785 1.078426 GCAGGTAGCCGAATGTGGT 60.078 57.895 0.00 0.00 37.23 4.16
2373 2786 1.090052 GCAGGTAGCCGAATGTGGTC 61.090 60.000 0.00 0.00 37.23 4.02
2374 2787 0.537188 CAGGTAGCCGAATGTGGTCT 59.463 55.000 0.00 0.00 0.00 3.85
2375 2788 0.537188 AGGTAGCCGAATGTGGTCTG 59.463 55.000 0.00 0.00 0.00 3.51
2376 2789 0.462047 GGTAGCCGAATGTGGTCTGG 60.462 60.000 0.00 0.00 0.00 3.86
2377 2790 1.090052 GTAGCCGAATGTGGTCTGGC 61.090 60.000 0.00 0.00 46.07 4.85
2378 2791 3.499737 GCCGAATGTGGTCTGGCG 61.500 66.667 0.00 0.00 35.77 5.69
2379 2792 2.047274 CCGAATGTGGTCTGGCGT 60.047 61.111 0.00 0.00 0.00 5.68
2380 2793 1.216977 CCGAATGTGGTCTGGCGTA 59.783 57.895 0.00 0.00 0.00 4.42
2381 2794 0.806102 CCGAATGTGGTCTGGCGTAG 60.806 60.000 0.00 0.00 0.00 3.51
2382 2795 0.806102 CGAATGTGGTCTGGCGTAGG 60.806 60.000 0.00 0.00 0.00 3.18
2383 2796 0.249398 GAATGTGGTCTGGCGTAGGT 59.751 55.000 0.00 0.00 0.00 3.08
2384 2797 0.690762 AATGTGGTCTGGCGTAGGTT 59.309 50.000 0.00 0.00 0.00 3.50
2385 2798 0.249398 ATGTGGTCTGGCGTAGGTTC 59.751 55.000 0.00 0.00 0.00 3.62
2386 2799 1.116536 TGTGGTCTGGCGTAGGTTCA 61.117 55.000 0.00 0.00 0.00 3.18
2387 2800 0.249398 GTGGTCTGGCGTAGGTTCAT 59.751 55.000 0.00 0.00 0.00 2.57
2492 3230 0.696501 GCTCCTTGGGACTTGGGTTA 59.303 55.000 0.00 0.00 0.00 2.85
2509 3247 3.433740 GGGTTAATTAGCTGGGGAGTGAG 60.434 52.174 0.00 0.00 0.00 3.51
2510 3248 3.454812 GGTTAATTAGCTGGGGAGTGAGA 59.545 47.826 0.00 0.00 0.00 3.27
2511 3249 4.443621 GTTAATTAGCTGGGGAGTGAGAC 58.556 47.826 0.00 0.00 0.00 3.36
2512 3250 2.559381 ATTAGCTGGGGAGTGAGACT 57.441 50.000 0.00 0.00 0.00 3.24
2513 3251 3.689872 ATTAGCTGGGGAGTGAGACTA 57.310 47.619 0.00 0.00 0.00 2.59
2514 3252 2.438800 TAGCTGGGGAGTGAGACTAC 57.561 55.000 0.00 0.00 0.00 2.73
2519 3257 3.376082 GGGAGTGAGACTACCCACA 57.624 57.895 0.00 0.00 43.74 4.17
2520 3258 1.640917 GGGAGTGAGACTACCCACAA 58.359 55.000 0.00 0.00 43.74 3.33
2521 3259 2.188817 GGGAGTGAGACTACCCACAAT 58.811 52.381 0.00 0.00 43.74 2.71
2522 3260 2.093447 GGGAGTGAGACTACCCACAATG 60.093 54.545 0.00 0.00 43.74 2.82
2523 3261 2.832129 GGAGTGAGACTACCCACAATGA 59.168 50.000 0.00 0.00 35.84 2.57
2524 3262 3.260884 GGAGTGAGACTACCCACAATGAA 59.739 47.826 0.00 0.00 35.84 2.57
2525 3263 4.262894 GGAGTGAGACTACCCACAATGAAA 60.263 45.833 0.00 0.00 35.84 2.69
2526 3264 4.899502 AGTGAGACTACCCACAATGAAAG 58.100 43.478 0.00 0.00 35.84 2.62
2527 3265 4.348168 AGTGAGACTACCCACAATGAAAGT 59.652 41.667 0.00 0.00 35.84 2.66
2528 3266 5.542635 AGTGAGACTACCCACAATGAAAGTA 59.457 40.000 0.00 0.00 35.84 2.24
2529 3267 6.042781 AGTGAGACTACCCACAATGAAAGTAA 59.957 38.462 0.00 0.00 35.84 2.24
2530 3268 6.147328 GTGAGACTACCCACAATGAAAGTAAC 59.853 42.308 0.00 0.00 33.72 2.50
2531 3269 6.182507 AGACTACCCACAATGAAAGTAACA 57.817 37.500 0.00 0.00 0.00 2.41
2532 3270 6.779860 AGACTACCCACAATGAAAGTAACAT 58.220 36.000 0.00 0.00 0.00 2.71
2533 3271 7.913789 AGACTACCCACAATGAAAGTAACATA 58.086 34.615 0.00 0.00 0.00 2.29
2534 3272 8.041323 AGACTACCCACAATGAAAGTAACATAG 58.959 37.037 0.00 0.00 0.00 2.23
2535 3273 7.110155 ACTACCCACAATGAAAGTAACATAGG 58.890 38.462 0.00 0.00 0.00 2.57
2536 3274 5.887754 ACCCACAATGAAAGTAACATAGGT 58.112 37.500 0.00 0.00 0.00 3.08
2537 3275 5.710099 ACCCACAATGAAAGTAACATAGGTG 59.290 40.000 0.00 0.00 35.23 4.00
2538 3276 5.125417 CCCACAATGAAAGTAACATAGGTGG 59.875 44.000 17.05 17.05 44.08 4.61
2539 3277 5.710099 CCACAATGAAAGTAACATAGGTGGT 59.290 40.000 16.34 0.00 42.12 4.16
2540 3278 6.882140 CCACAATGAAAGTAACATAGGTGGTA 59.118 38.462 16.34 0.00 42.12 3.25
2541 3279 7.392113 CCACAATGAAAGTAACATAGGTGGTAA 59.608 37.037 16.34 0.00 42.12 2.85
2542 3280 8.234546 CACAATGAAAGTAACATAGGTGGTAAC 58.765 37.037 0.00 0.00 33.58 2.50
2559 3297 5.914033 TGGTAACATCACACTTATCTAGGC 58.086 41.667 0.00 0.00 46.17 3.93
2560 3298 5.423931 TGGTAACATCACACTTATCTAGGCA 59.576 40.000 0.00 0.00 46.17 4.75
2561 3299 6.070481 TGGTAACATCACACTTATCTAGGCAA 60.070 38.462 0.00 0.00 46.17 4.52
2562 3300 6.821665 GGTAACATCACACTTATCTAGGCAAA 59.178 38.462 0.00 0.00 0.00 3.68
2563 3301 7.335924 GGTAACATCACACTTATCTAGGCAAAA 59.664 37.037 0.00 0.00 0.00 2.44
2564 3302 7.944729 AACATCACACTTATCTAGGCAAAAT 57.055 32.000 0.00 0.00 0.00 1.82
2566 3304 8.668510 ACATCACACTTATCTAGGCAAAATAG 57.331 34.615 0.00 0.00 0.00 1.73
2567 3305 8.486210 ACATCACACTTATCTAGGCAAAATAGA 58.514 33.333 0.00 0.00 33.93 1.98
2568 3306 9.499479 CATCACACTTATCTAGGCAAAATAGAT 57.501 33.333 1.51 1.51 41.66 1.98
2569 3307 8.893219 TCACACTTATCTAGGCAAAATAGATG 57.107 34.615 5.87 0.00 39.68 2.90
2570 3308 8.704668 TCACACTTATCTAGGCAAAATAGATGA 58.295 33.333 5.87 0.00 39.68 2.92
2571 3309 9.499479 CACACTTATCTAGGCAAAATAGATGAT 57.501 33.333 5.87 0.00 39.68 2.45
2572 3310 9.499479 ACACTTATCTAGGCAAAATAGATGATG 57.501 33.333 5.87 4.45 39.68 3.07
2573 3311 9.499479 CACTTATCTAGGCAAAATAGATGATGT 57.501 33.333 5.87 0.75 39.68 3.06
2574 3312 9.499479 ACTTATCTAGGCAAAATAGATGATGTG 57.501 33.333 5.87 0.00 39.68 3.21
2575 3313 8.853077 TTATCTAGGCAAAATAGATGATGTGG 57.147 34.615 5.87 0.00 39.68 4.17
2576 3314 5.065914 TCTAGGCAAAATAGATGATGTGGC 58.934 41.667 0.00 0.00 32.08 5.01
2577 3315 3.634504 AGGCAAAATAGATGATGTGGCA 58.365 40.909 0.00 0.00 33.54 4.92
2578 3316 4.220724 AGGCAAAATAGATGATGTGGCAT 58.779 39.130 0.00 0.00 33.54 4.40
2579 3317 4.038763 AGGCAAAATAGATGATGTGGCATG 59.961 41.667 0.00 0.00 33.54 4.06
2580 3318 4.202182 GGCAAAATAGATGATGTGGCATGT 60.202 41.667 0.00 0.00 32.18 3.21
2581 3319 5.009911 GGCAAAATAGATGATGTGGCATGTA 59.990 40.000 0.00 0.00 32.18 2.29
2582 3320 6.461370 GGCAAAATAGATGATGTGGCATGTAA 60.461 38.462 0.00 0.00 32.18 2.41
2583 3321 7.149973 GCAAAATAGATGATGTGGCATGTAAT 58.850 34.615 0.00 0.00 29.35 1.89
2584 3322 7.654520 GCAAAATAGATGATGTGGCATGTAATT 59.345 33.333 0.00 0.00 29.35 1.40
2589 3327 9.743581 ATAGATGATGTGGCATGTAATTAATGA 57.256 29.630 0.00 0.00 29.35 2.57
2590 3328 8.467963 AGATGATGTGGCATGTAATTAATGAA 57.532 30.769 0.00 0.00 0.00 2.57
2591 3329 8.573885 AGATGATGTGGCATGTAATTAATGAAG 58.426 33.333 0.00 0.00 0.00 3.02
2592 3330 7.878547 TGATGTGGCATGTAATTAATGAAGA 57.121 32.000 0.00 0.00 0.00 2.87
2593 3331 8.291191 TGATGTGGCATGTAATTAATGAAGAA 57.709 30.769 0.00 0.00 0.00 2.52
2594 3332 8.747471 TGATGTGGCATGTAATTAATGAAGAAA 58.253 29.630 0.00 0.00 0.00 2.52
2595 3333 9.241317 GATGTGGCATGTAATTAATGAAGAAAG 57.759 33.333 0.00 0.00 0.00 2.62
2596 3334 8.347004 TGTGGCATGTAATTAATGAAGAAAGA 57.653 30.769 0.00 0.00 0.00 2.52
2597 3335 8.461222 TGTGGCATGTAATTAATGAAGAAAGAG 58.539 33.333 0.00 0.00 0.00 2.85
2598 3336 8.677300 GTGGCATGTAATTAATGAAGAAAGAGA 58.323 33.333 0.00 0.00 0.00 3.10
2599 3337 8.896744 TGGCATGTAATTAATGAAGAAAGAGAG 58.103 33.333 10.14 0.00 0.00 3.20
2600 3338 8.348507 GGCATGTAATTAATGAAGAAAGAGAGG 58.651 37.037 10.14 0.00 0.00 3.69
2601 3339 7.859875 GCATGTAATTAATGAAGAAAGAGAGGC 59.140 37.037 10.14 0.00 0.00 4.70
2602 3340 8.896744 CATGTAATTAATGAAGAAAGAGAGGCA 58.103 33.333 0.00 0.00 0.00 4.75
2603 3341 9.638176 ATGTAATTAATGAAGAAAGAGAGGCAT 57.362 29.630 0.00 0.00 0.00 4.40
2604 3342 8.896744 TGTAATTAATGAAGAAAGAGAGGCATG 58.103 33.333 0.00 0.00 0.00 4.06
2605 3343 7.951347 AATTAATGAAGAAAGAGAGGCATGT 57.049 32.000 0.00 0.00 0.00 3.21
2606 3344 6.748333 TTAATGAAGAAAGAGAGGCATGTG 57.252 37.500 0.00 0.00 0.00 3.21
2607 3345 3.063510 TGAAGAAAGAGAGGCATGTGG 57.936 47.619 0.00 0.00 0.00 4.17
2608 3346 2.373169 TGAAGAAAGAGAGGCATGTGGT 59.627 45.455 0.00 0.00 0.00 4.16
2609 3347 3.582647 TGAAGAAAGAGAGGCATGTGGTA 59.417 43.478 0.00 0.00 0.00 3.25
2610 3348 4.041567 TGAAGAAAGAGAGGCATGTGGTAA 59.958 41.667 0.00 0.00 0.00 2.85
2611 3349 3.944087 AGAAAGAGAGGCATGTGGTAAC 58.056 45.455 0.00 0.00 0.00 2.50
2630 3368 8.352137 TGGTAACATAGCTAGTTACTGTAACA 57.648 34.615 27.12 19.73 46.49 2.41
2631 3369 8.974238 TGGTAACATAGCTAGTTACTGTAACAT 58.026 33.333 27.12 16.67 46.49 2.71
2632 3370 9.460906 GGTAACATAGCTAGTTACTGTAACATC 57.539 37.037 27.12 16.94 46.49 3.06
2634 3372 8.928270 AACATAGCTAGTTACTGTAACATCAC 57.072 34.615 27.12 15.70 41.07 3.06
2635 3373 8.063200 ACATAGCTAGTTACTGTAACATCACA 57.937 34.615 27.12 12.96 41.07 3.58
2636 3374 8.696374 ACATAGCTAGTTACTGTAACATCACAT 58.304 33.333 27.12 14.32 41.07 3.21
2640 3378 9.751542 AGCTAGTTACTGTAACATCACATATTC 57.248 33.333 27.12 8.94 41.07 1.75
2641 3379 9.529325 GCTAGTTACTGTAACATCACATATTCA 57.471 33.333 27.12 2.76 41.07 2.57
2648 3386 9.376075 ACTGTAACATCACATATTCAAGAGAAG 57.624 33.333 0.00 0.00 37.14 2.85
2649 3387 9.591792 CTGTAACATCACATATTCAAGAGAAGA 57.408 33.333 0.00 0.00 37.14 2.87
2662 3400 5.944013 TCAAGAGAAGATGAGTCTACAACG 58.056 41.667 0.00 0.00 33.30 4.10
2663 3401 5.473846 TCAAGAGAAGATGAGTCTACAACGT 59.526 40.000 0.00 0.00 33.30 3.99
2664 3402 6.653740 TCAAGAGAAGATGAGTCTACAACGTA 59.346 38.462 0.00 0.00 33.30 3.57
2665 3403 7.174426 TCAAGAGAAGATGAGTCTACAACGTAA 59.826 37.037 0.00 0.00 33.30 3.18
2666 3404 7.633193 AGAGAAGATGAGTCTACAACGTAAT 57.367 36.000 0.00 0.00 33.30 1.89
2667 3405 8.734218 AGAGAAGATGAGTCTACAACGTAATA 57.266 34.615 0.00 0.00 33.30 0.98
2668 3406 9.175312 AGAGAAGATGAGTCTACAACGTAATAA 57.825 33.333 0.00 0.00 33.30 1.40
2669 3407 9.440784 GAGAAGATGAGTCTACAACGTAATAAG 57.559 37.037 0.00 0.00 33.30 1.73
2670 3408 8.958506 AGAAGATGAGTCTACAACGTAATAAGT 58.041 33.333 0.00 0.00 33.30 2.24
2671 3409 8.912787 AAGATGAGTCTACAACGTAATAAGTG 57.087 34.615 0.00 0.00 33.30 3.16
2672 3410 8.277490 AGATGAGTCTACAACGTAATAAGTGA 57.723 34.615 0.00 0.00 31.36 3.41
2673 3411 8.737175 AGATGAGTCTACAACGTAATAAGTGAA 58.263 33.333 0.00 0.00 31.36 3.18
2674 3412 8.912787 ATGAGTCTACAACGTAATAAGTGAAG 57.087 34.615 0.00 0.00 0.00 3.02
2675 3413 7.879070 TGAGTCTACAACGTAATAAGTGAAGT 58.121 34.615 0.00 0.00 0.00 3.01
2676 3414 7.806487 TGAGTCTACAACGTAATAAGTGAAGTG 59.194 37.037 0.00 0.00 0.00 3.16
2677 3415 7.879070 AGTCTACAACGTAATAAGTGAAGTGA 58.121 34.615 0.00 0.00 0.00 3.41
2678 3416 8.521176 AGTCTACAACGTAATAAGTGAAGTGAT 58.479 33.333 0.00 0.00 0.00 3.06
2679 3417 8.584600 GTCTACAACGTAATAAGTGAAGTGATG 58.415 37.037 0.00 0.00 0.00 3.07
2680 3418 6.165659 ACAACGTAATAAGTGAAGTGATGC 57.834 37.500 0.00 0.00 0.00 3.91
2681 3419 5.699001 ACAACGTAATAAGTGAAGTGATGCA 59.301 36.000 0.00 0.00 0.00 3.96
2682 3420 6.371548 ACAACGTAATAAGTGAAGTGATGCAT 59.628 34.615 0.00 0.00 0.00 3.96
2683 3421 6.349973 ACGTAATAAGTGAAGTGATGCATG 57.650 37.500 2.46 0.00 0.00 4.06
2684 3422 6.106003 ACGTAATAAGTGAAGTGATGCATGA 58.894 36.000 2.46 0.00 0.00 3.07
2685 3423 6.036083 ACGTAATAAGTGAAGTGATGCATGAC 59.964 38.462 8.39 8.39 0.00 3.06
2686 3424 6.035975 CGTAATAAGTGAAGTGATGCATGACA 59.964 38.462 18.76 1.11 0.00 3.58
2687 3425 5.808042 ATAAGTGAAGTGATGCATGACAC 57.192 39.130 18.76 14.04 37.30 3.67
2688 3426 3.130280 AGTGAAGTGATGCATGACACA 57.870 42.857 18.76 14.25 39.18 3.72
2689 3427 3.479489 AGTGAAGTGATGCATGACACAA 58.521 40.909 18.76 0.00 39.18 3.33
2690 3428 3.251729 AGTGAAGTGATGCATGACACAAC 59.748 43.478 18.76 12.09 39.18 3.32
2691 3429 3.003585 GTGAAGTGATGCATGACACAACA 59.996 43.478 18.76 13.99 39.18 3.33
2692 3430 3.003585 TGAAGTGATGCATGACACAACAC 59.996 43.478 18.76 11.21 39.18 3.32
2693 3431 2.574450 AGTGATGCATGACACAACACA 58.426 42.857 18.76 0.00 39.18 3.72
2694 3432 3.151554 AGTGATGCATGACACAACACAT 58.848 40.909 18.76 0.00 39.18 3.21
2695 3433 4.325972 AGTGATGCATGACACAACACATA 58.674 39.130 18.76 0.00 39.18 2.29
2696 3434 4.945543 AGTGATGCATGACACAACACATAT 59.054 37.500 18.76 0.00 39.18 1.78
2697 3435 5.032220 GTGATGCATGACACAACACATATG 58.968 41.667 11.72 0.00 37.05 1.78
2698 3436 4.701171 TGATGCATGACACAACACATATGT 59.299 37.500 2.46 1.41 42.46 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 1.873591 AGTAAACAAGCGCCTCAGTTG 59.126 47.619 2.29 3.93 0.00 3.16
28 29 1.873591 CAGTAAACAAGCGCCTCAGTT 59.126 47.619 2.29 0.48 0.00 3.16
186 191 5.068723 TGGTTGTTCGGACTATCCTTATCTC 59.931 44.000 0.00 0.00 33.30 2.75
217 222 2.510411 CAGCCCATATGTGCGGGA 59.490 61.111 4.44 0.00 46.34 5.14
408 414 5.490159 ACTGCTAAGACTACTAGAACGTCT 58.510 41.667 0.00 2.14 39.53 4.18
443 449 4.872691 AGAACAGACTCAAATCCTATTGCG 59.127 41.667 0.00 0.00 0.00 4.85
483 501 5.179555 ACATCGCTAGAAGGAACAAAGAAAC 59.820 40.000 0.00 0.00 0.00 2.78
508 526 7.034685 AGTACAAAATAAGCGGACAAAAACT 57.965 32.000 0.00 0.00 0.00 2.66
517 535 5.445845 ACGAAACAAGTACAAAATAAGCGG 58.554 37.500 0.00 0.00 0.00 5.52
518 536 7.456358 GTACGAAACAAGTACAAAATAAGCG 57.544 36.000 0.00 0.00 42.77 4.68
569 597 4.287067 TGAACACAAGCCTTTCTCCTATCT 59.713 41.667 0.00 0.00 0.00 1.98
592 620 0.390209 GCCGTGCAAATGAATTGGCT 60.390 50.000 4.13 0.00 39.54 4.75
701 732 4.082408 CCATATAACGGGAGCGAGACATAA 60.082 45.833 0.00 0.00 0.00 1.90
736 767 4.554036 GCGCATGACCTCCCCTCC 62.554 72.222 0.30 0.00 0.00 4.30
738 769 1.460305 ATAGCGCATGACCTCCCCT 60.460 57.895 11.47 0.00 0.00 4.79
828 860 3.766676 ACGCGATCGAATATCTAGCAT 57.233 42.857 21.57 0.00 39.41 3.79
966 1319 5.016831 AGGATAAAACCAGCGAAGGAAAAT 58.983 37.500 0.16 0.00 0.00 1.82
1140 1526 4.722700 GCCGCCTTGCCCTCTTCA 62.723 66.667 0.00 0.00 0.00 3.02
1228 1614 4.641645 CACCTCCTTGCACCGCCA 62.642 66.667 0.00 0.00 0.00 5.69
1416 1802 3.072330 TGAGAAGCATGTCCACCTTGTAA 59.928 43.478 0.00 0.00 0.00 2.41
1554 1941 2.604686 TCAAGCCGGCTCTCCTGT 60.605 61.111 32.93 10.49 0.00 4.00
1679 2072 3.154710 GGGAAAGGACTCGAACCAAAAT 58.845 45.455 10.29 0.00 0.00 1.82
1683 2076 0.974383 GAGGGAAAGGACTCGAACCA 59.026 55.000 10.29 0.00 0.00 3.67
2012 2421 5.939883 AGCAATCAAGTAATTGTCTAGTGCA 59.060 36.000 14.85 0.00 38.60 4.57
2015 2424 7.119846 GGTTCAGCAATCAAGTAATTGTCTAGT 59.880 37.037 2.43 0.00 38.60 2.57
2026 2435 2.887152 GACCAAGGTTCAGCAATCAAGT 59.113 45.455 0.00 0.00 0.00 3.16
2104 2514 5.130350 TCAACTCGTTTCTCTCCCAAAAAT 58.870 37.500 0.00 0.00 0.00 1.82
2200 2613 8.439993 AGAACCTTGTCTAACTCTTTTCTTTC 57.560 34.615 0.00 0.00 0.00 2.62
2230 2643 4.339429 CATTTCCGGTAATTGTTGTAGCG 58.661 43.478 3.17 0.00 41.03 4.26
2258 2671 4.280929 GTGGAGTCCAATTGTTTTTAGGCT 59.719 41.667 15.09 0.00 34.18 4.58
2281 2694 3.944250 AAAGGTCCCATGCCGGCAG 62.944 63.158 35.36 24.60 0.00 4.85
2282 2695 3.936772 GAAAGGTCCCATGCCGGCA 62.937 63.158 34.80 34.80 0.00 5.69
2283 2696 3.140814 GAAAGGTCCCATGCCGGC 61.141 66.667 22.73 22.73 0.00 6.13
2284 2697 2.440247 GGAAAGGTCCCATGCCGG 60.440 66.667 0.00 0.00 38.08 6.13
2285 2698 1.000896 AAGGAAAGGTCCCATGCCG 60.001 57.895 0.00 0.00 46.30 5.69
2286 2699 0.251787 ACAAGGAAAGGTCCCATGCC 60.252 55.000 0.00 0.00 46.30 4.40
2287 2700 1.177401 GACAAGGAAAGGTCCCATGC 58.823 55.000 0.00 0.00 46.30 4.06
2288 2701 2.584835 TGACAAGGAAAGGTCCCATG 57.415 50.000 0.00 0.00 46.30 3.66
2289 2702 2.356125 CGATGACAAGGAAAGGTCCCAT 60.356 50.000 0.00 0.00 46.30 4.00
2290 2703 1.003118 CGATGACAAGGAAAGGTCCCA 59.997 52.381 0.00 0.00 46.30 4.37
2291 2704 1.739067 CGATGACAAGGAAAGGTCCC 58.261 55.000 0.00 0.00 46.30 4.46
2292 2705 1.087501 GCGATGACAAGGAAAGGTCC 58.912 55.000 0.00 0.00 45.35 4.46
2293 2706 1.087501 GGCGATGACAAGGAAAGGTC 58.912 55.000 0.00 0.00 34.63 3.85
2294 2707 0.673644 CGGCGATGACAAGGAAAGGT 60.674 55.000 0.00 0.00 0.00 3.50
2295 2708 1.982073 GCGGCGATGACAAGGAAAGG 61.982 60.000 12.98 0.00 0.00 3.11
2296 2709 1.021390 AGCGGCGATGACAAGGAAAG 61.021 55.000 12.98 0.00 0.00 2.62
2297 2710 1.003839 AGCGGCGATGACAAGGAAA 60.004 52.632 12.98 0.00 0.00 3.13
2298 2711 1.741401 CAGCGGCGATGACAAGGAA 60.741 57.895 22.19 0.00 0.00 3.36
2299 2712 2.125552 CAGCGGCGATGACAAGGA 60.126 61.111 22.19 0.00 0.00 3.36
2300 2713 3.869272 GCAGCGGCGATGACAAGG 61.869 66.667 30.95 0.45 0.00 3.61
2301 2714 3.120385 TGCAGCGGCGATGACAAG 61.120 61.111 30.95 1.33 45.35 3.16
2302 2715 3.422303 GTGCAGCGGCGATGACAA 61.422 61.111 30.95 10.58 45.35 3.18
2320 2733 4.840005 GAGCCTGGCCACCGTAGC 62.840 72.222 16.57 0.00 0.00 3.58
2321 2734 3.376935 CTGAGCCTGGCCACCGTAG 62.377 68.421 16.57 1.17 0.00 3.51
2322 2735 3.390521 CTGAGCCTGGCCACCGTA 61.391 66.667 16.57 0.00 0.00 4.02
2334 2747 4.303257 AGGCGTTAAAGGCTGAGC 57.697 55.556 16.38 0.00 45.75 4.26
2339 2752 1.648467 CCTGCTGAGGCGTTAAAGGC 61.648 60.000 6.86 6.86 42.25 4.35
2340 2753 0.321653 ACCTGCTGAGGCGTTAAAGG 60.322 55.000 0.00 0.00 44.33 3.11
2341 2754 2.271800 CTACCTGCTGAGGCGTTAAAG 58.728 52.381 0.00 0.00 44.33 1.85
2342 2755 1.674817 GCTACCTGCTGAGGCGTTAAA 60.675 52.381 0.00 0.00 44.33 1.52
2343 2756 0.108329 GCTACCTGCTGAGGCGTTAA 60.108 55.000 0.00 0.00 44.33 2.01
2344 2757 1.515954 GCTACCTGCTGAGGCGTTA 59.484 57.895 0.00 0.00 44.33 3.18
2345 2758 2.266055 GCTACCTGCTGAGGCGTT 59.734 61.111 0.00 0.00 44.33 4.84
2346 2759 3.775654 GGCTACCTGCTGAGGCGT 61.776 66.667 0.00 0.00 44.33 5.68
2353 2766 1.221840 CCACATTCGGCTACCTGCT 59.778 57.895 0.00 0.00 42.39 4.24
2354 2767 1.078426 ACCACATTCGGCTACCTGC 60.078 57.895 0.00 0.00 41.94 4.85
2355 2768 0.537188 AGACCACATTCGGCTACCTG 59.463 55.000 0.00 0.00 0.00 4.00
2356 2769 0.537188 CAGACCACATTCGGCTACCT 59.463 55.000 0.00 0.00 0.00 3.08
2357 2770 0.462047 CCAGACCACATTCGGCTACC 60.462 60.000 0.00 0.00 0.00 3.18
2358 2771 1.090052 GCCAGACCACATTCGGCTAC 61.090 60.000 0.00 0.00 39.73 3.58
2359 2772 1.220749 GCCAGACCACATTCGGCTA 59.779 57.895 0.00 0.00 39.73 3.93
2360 2773 2.045926 GCCAGACCACATTCGGCT 60.046 61.111 0.00 0.00 39.73 5.52
2361 2774 2.845752 TACGCCAGACCACATTCGGC 62.846 60.000 0.00 0.00 39.45 5.54
2362 2775 0.806102 CTACGCCAGACCACATTCGG 60.806 60.000 0.00 0.00 0.00 4.30
2363 2776 0.806102 CCTACGCCAGACCACATTCG 60.806 60.000 0.00 0.00 0.00 3.34
2364 2777 0.249398 ACCTACGCCAGACCACATTC 59.751 55.000 0.00 0.00 0.00 2.67
2365 2778 0.690762 AACCTACGCCAGACCACATT 59.309 50.000 0.00 0.00 0.00 2.71
2366 2779 0.249398 GAACCTACGCCAGACCACAT 59.751 55.000 0.00 0.00 0.00 3.21
2367 2780 1.116536 TGAACCTACGCCAGACCACA 61.117 55.000 0.00 0.00 0.00 4.17
2368 2781 0.249398 ATGAACCTACGCCAGACCAC 59.751 55.000 0.00 0.00 0.00 4.16
2369 2782 0.535335 GATGAACCTACGCCAGACCA 59.465 55.000 0.00 0.00 0.00 4.02
2370 2783 0.527817 CGATGAACCTACGCCAGACC 60.528 60.000 0.00 0.00 0.00 3.85
2371 2784 1.146358 GCGATGAACCTACGCCAGAC 61.146 60.000 0.00 0.00 45.35 3.51
2372 2785 1.141019 GCGATGAACCTACGCCAGA 59.859 57.895 0.00 0.00 45.35 3.86
2373 2786 3.706140 GCGATGAACCTACGCCAG 58.294 61.111 0.00 0.00 45.35 4.85
2377 2790 1.876714 CGGTGGCGATGAACCTACG 60.877 63.158 0.00 0.00 34.06 3.51
2378 2791 2.171725 GCGGTGGCGATGAACCTAC 61.172 63.158 0.00 0.00 34.06 3.18
2379 2792 2.185867 GCGGTGGCGATGAACCTA 59.814 61.111 0.00 0.00 34.06 3.08
2380 2793 4.778143 GGCGGTGGCGATGAACCT 62.778 66.667 0.00 0.00 41.24 3.50
2492 3230 2.839228 AGTCTCACTCCCCAGCTAATT 58.161 47.619 0.00 0.00 0.00 1.40
2509 3247 7.280205 CCTATGTTACTTTCATTGTGGGTAGTC 59.720 40.741 0.00 0.00 0.00 2.59
2510 3248 7.110155 CCTATGTTACTTTCATTGTGGGTAGT 58.890 38.462 0.00 0.00 0.00 2.73
2511 3249 7.065803 CACCTATGTTACTTTCATTGTGGGTAG 59.934 40.741 0.00 0.00 0.00 3.18
2512 3250 6.882140 CACCTATGTTACTTTCATTGTGGGTA 59.118 38.462 0.00 0.00 0.00 3.69
2513 3251 5.710099 CACCTATGTTACTTTCATTGTGGGT 59.290 40.000 0.00 0.00 0.00 4.51
2514 3252 5.125417 CCACCTATGTTACTTTCATTGTGGG 59.875 44.000 14.06 0.00 39.94 4.61
2515 3253 5.710099 ACCACCTATGTTACTTTCATTGTGG 59.290 40.000 17.44 17.44 43.91 4.17
2516 3254 6.817765 ACCACCTATGTTACTTTCATTGTG 57.182 37.500 0.00 0.00 32.18 3.33
2517 3255 7.940137 TGTTACCACCTATGTTACTTTCATTGT 59.060 33.333 0.00 0.00 0.00 2.71
2518 3256 8.330466 TGTTACCACCTATGTTACTTTCATTG 57.670 34.615 0.00 0.00 0.00 2.82
2519 3257 9.174166 GATGTTACCACCTATGTTACTTTCATT 57.826 33.333 0.00 0.00 0.00 2.57
2520 3258 8.325787 TGATGTTACCACCTATGTTACTTTCAT 58.674 33.333 0.00 0.00 0.00 2.57
2521 3259 7.604927 GTGATGTTACCACCTATGTTACTTTCA 59.395 37.037 0.00 0.00 0.00 2.69
2522 3260 7.604927 TGTGATGTTACCACCTATGTTACTTTC 59.395 37.037 0.00 0.00 33.80 2.62
2523 3261 7.389607 GTGTGATGTTACCACCTATGTTACTTT 59.610 37.037 0.00 0.00 33.80 2.66
2524 3262 6.877322 GTGTGATGTTACCACCTATGTTACTT 59.123 38.462 0.00 0.00 33.80 2.24
2525 3263 6.212791 AGTGTGATGTTACCACCTATGTTACT 59.787 38.462 0.00 0.00 33.80 2.24
2526 3264 6.403878 AGTGTGATGTTACCACCTATGTTAC 58.596 40.000 0.00 0.00 33.80 2.50
2527 3265 6.614694 AGTGTGATGTTACCACCTATGTTA 57.385 37.500 0.00 0.00 33.80 2.41
2528 3266 5.499004 AGTGTGATGTTACCACCTATGTT 57.501 39.130 0.00 0.00 33.80 2.71
2529 3267 5.499004 AAGTGTGATGTTACCACCTATGT 57.501 39.130 0.00 0.00 33.80 2.29
2530 3268 7.500992 AGATAAGTGTGATGTTACCACCTATG 58.499 38.462 0.00 0.00 33.80 2.23
2531 3269 7.676683 AGATAAGTGTGATGTTACCACCTAT 57.323 36.000 0.00 0.00 33.80 2.57
2532 3270 7.287005 CCTAGATAAGTGTGATGTTACCACCTA 59.713 40.741 0.00 0.00 33.80 3.08
2533 3271 6.098409 CCTAGATAAGTGTGATGTTACCACCT 59.902 42.308 0.00 0.00 33.80 4.00
2534 3272 6.281405 CCTAGATAAGTGTGATGTTACCACC 58.719 44.000 0.00 0.00 33.80 4.61
2535 3273 5.753921 GCCTAGATAAGTGTGATGTTACCAC 59.246 44.000 0.00 0.00 35.23 4.16
2536 3274 5.423931 TGCCTAGATAAGTGTGATGTTACCA 59.576 40.000 0.00 0.00 0.00 3.25
2537 3275 5.914033 TGCCTAGATAAGTGTGATGTTACC 58.086 41.667 0.00 0.00 0.00 2.85
2538 3276 7.843490 TTTGCCTAGATAAGTGTGATGTTAC 57.157 36.000 0.00 0.00 0.00 2.50
2540 3278 7.944729 ATTTTGCCTAGATAAGTGTGATGTT 57.055 32.000 0.00 0.00 0.00 2.71
2541 3279 8.486210 TCTATTTTGCCTAGATAAGTGTGATGT 58.514 33.333 0.00 0.00 0.00 3.06
2542 3280 8.893219 TCTATTTTGCCTAGATAAGTGTGATG 57.107 34.615 0.00 0.00 0.00 3.07
2543 3281 9.499479 CATCTATTTTGCCTAGATAAGTGTGAT 57.501 33.333 0.00 0.00 34.84 3.06
2544 3282 8.704668 TCATCTATTTTGCCTAGATAAGTGTGA 58.295 33.333 0.00 0.00 34.84 3.58
2545 3283 8.893219 TCATCTATTTTGCCTAGATAAGTGTG 57.107 34.615 0.00 0.00 34.84 3.82
2546 3284 9.499479 CATCATCTATTTTGCCTAGATAAGTGT 57.501 33.333 0.00 0.00 34.84 3.55
2547 3285 9.499479 ACATCATCTATTTTGCCTAGATAAGTG 57.501 33.333 0.00 0.00 34.84 3.16
2548 3286 9.499479 CACATCATCTATTTTGCCTAGATAAGT 57.501 33.333 0.00 0.00 34.84 2.24
2549 3287 8.944029 CCACATCATCTATTTTGCCTAGATAAG 58.056 37.037 0.00 0.00 34.84 1.73
2550 3288 7.391554 GCCACATCATCTATTTTGCCTAGATAA 59.608 37.037 0.00 0.00 34.84 1.75
2551 3289 6.881065 GCCACATCATCTATTTTGCCTAGATA 59.119 38.462 0.00 0.00 34.84 1.98
2552 3290 5.709164 GCCACATCATCTATTTTGCCTAGAT 59.291 40.000 0.00 0.00 36.58 1.98
2553 3291 5.065914 GCCACATCATCTATTTTGCCTAGA 58.934 41.667 0.00 0.00 0.00 2.43
2554 3292 4.823442 TGCCACATCATCTATTTTGCCTAG 59.177 41.667 0.00 0.00 0.00 3.02
2555 3293 4.790937 TGCCACATCATCTATTTTGCCTA 58.209 39.130 0.00 0.00 0.00 3.93
2556 3294 3.634504 TGCCACATCATCTATTTTGCCT 58.365 40.909 0.00 0.00 0.00 4.75
2557 3295 4.202182 ACATGCCACATCATCTATTTTGCC 60.202 41.667 0.00 0.00 0.00 4.52
2558 3296 4.940463 ACATGCCACATCATCTATTTTGC 58.060 39.130 0.00 0.00 0.00 3.68
2563 3301 9.743581 TCATTAATTACATGCCACATCATCTAT 57.256 29.630 0.00 0.00 0.00 1.98
2564 3302 9.571816 TTCATTAATTACATGCCACATCATCTA 57.428 29.630 0.00 0.00 0.00 1.98
2565 3303 8.467963 TTCATTAATTACATGCCACATCATCT 57.532 30.769 0.00 0.00 0.00 2.90
2566 3304 8.570488 TCTTCATTAATTACATGCCACATCATC 58.430 33.333 0.00 0.00 0.00 2.92
2567 3305 8.467963 TCTTCATTAATTACATGCCACATCAT 57.532 30.769 0.00 0.00 0.00 2.45
2568 3306 7.878547 TCTTCATTAATTACATGCCACATCA 57.121 32.000 0.00 0.00 0.00 3.07
2569 3307 9.241317 CTTTCTTCATTAATTACATGCCACATC 57.759 33.333 0.00 0.00 0.00 3.06
2570 3308 8.970020 TCTTTCTTCATTAATTACATGCCACAT 58.030 29.630 0.00 0.00 0.00 3.21
2571 3309 8.347004 TCTTTCTTCATTAATTACATGCCACA 57.653 30.769 0.00 0.00 0.00 4.17
2572 3310 8.677300 TCTCTTTCTTCATTAATTACATGCCAC 58.323 33.333 0.00 0.00 0.00 5.01
2573 3311 8.806429 TCTCTTTCTTCATTAATTACATGCCA 57.194 30.769 0.00 0.00 0.00 4.92
2574 3312 8.348507 CCTCTCTTTCTTCATTAATTACATGCC 58.651 37.037 0.00 0.00 0.00 4.40
2575 3313 7.859875 GCCTCTCTTTCTTCATTAATTACATGC 59.140 37.037 0.00 0.00 0.00 4.06
2576 3314 8.896744 TGCCTCTCTTTCTTCATTAATTACATG 58.103 33.333 0.00 0.00 0.00 3.21
2577 3315 9.638176 ATGCCTCTCTTTCTTCATTAATTACAT 57.362 29.630 0.00 0.00 0.00 2.29
2578 3316 8.896744 CATGCCTCTCTTTCTTCATTAATTACA 58.103 33.333 0.00 0.00 0.00 2.41
2579 3317 8.897752 ACATGCCTCTCTTTCTTCATTAATTAC 58.102 33.333 0.00 0.00 0.00 1.89
2580 3318 8.896744 CACATGCCTCTCTTTCTTCATTAATTA 58.103 33.333 0.00 0.00 0.00 1.40
2581 3319 7.147949 CCACATGCCTCTCTTTCTTCATTAATT 60.148 37.037 0.00 0.00 0.00 1.40
2582 3320 6.320672 CCACATGCCTCTCTTTCTTCATTAAT 59.679 38.462 0.00 0.00 0.00 1.40
2583 3321 5.649395 CCACATGCCTCTCTTTCTTCATTAA 59.351 40.000 0.00 0.00 0.00 1.40
2584 3322 5.188434 CCACATGCCTCTCTTTCTTCATTA 58.812 41.667 0.00 0.00 0.00 1.90
2585 3323 4.015084 CCACATGCCTCTCTTTCTTCATT 58.985 43.478 0.00 0.00 0.00 2.57
2586 3324 3.009916 ACCACATGCCTCTCTTTCTTCAT 59.990 43.478 0.00 0.00 0.00 2.57
2587 3325 2.373169 ACCACATGCCTCTCTTTCTTCA 59.627 45.455 0.00 0.00 0.00 3.02
2588 3326 3.064900 ACCACATGCCTCTCTTTCTTC 57.935 47.619 0.00 0.00 0.00 2.87
2589 3327 4.202461 TGTTACCACATGCCTCTCTTTCTT 60.202 41.667 0.00 0.00 0.00 2.52
2590 3328 3.327757 TGTTACCACATGCCTCTCTTTCT 59.672 43.478 0.00 0.00 0.00 2.52
2591 3329 3.674997 TGTTACCACATGCCTCTCTTTC 58.325 45.455 0.00 0.00 0.00 2.62
2592 3330 3.788227 TGTTACCACATGCCTCTCTTT 57.212 42.857 0.00 0.00 0.00 2.52
2593 3331 4.684485 GCTATGTTACCACATGCCTCTCTT 60.684 45.833 0.00 0.00 43.92 2.85
2594 3332 3.181461 GCTATGTTACCACATGCCTCTCT 60.181 47.826 0.00 0.00 43.92 3.10
2595 3333 3.134458 GCTATGTTACCACATGCCTCTC 58.866 50.000 0.00 0.00 43.92 3.20
2596 3334 2.774234 AGCTATGTTACCACATGCCTCT 59.226 45.455 0.00 0.00 43.92 3.69
2597 3335 3.199880 AGCTATGTTACCACATGCCTC 57.800 47.619 0.00 0.00 43.92 4.70
2598 3336 3.711704 ACTAGCTATGTTACCACATGCCT 59.288 43.478 0.00 0.00 43.92 4.75
2599 3337 4.073293 ACTAGCTATGTTACCACATGCC 57.927 45.455 0.00 0.00 43.92 4.40
2600 3338 6.201044 CAGTAACTAGCTATGTTACCACATGC 59.799 42.308 25.92 11.98 46.31 4.06
2601 3339 7.265673 ACAGTAACTAGCTATGTTACCACATG 58.734 38.462 25.92 22.03 46.31 3.21
2602 3340 7.419711 ACAGTAACTAGCTATGTTACCACAT 57.580 36.000 25.92 14.84 46.31 3.21
2603 3341 6.845758 ACAGTAACTAGCTATGTTACCACA 57.154 37.500 25.92 6.86 46.31 4.17
2604 3342 8.246180 TGTTACAGTAACTAGCTATGTTACCAC 58.754 37.037 25.92 20.75 46.31 4.16
2605 3343 8.352137 TGTTACAGTAACTAGCTATGTTACCA 57.648 34.615 25.92 19.04 46.31 3.25
2606 3344 9.460906 GATGTTACAGTAACTAGCTATGTTACC 57.539 37.037 25.92 17.65 46.31 2.85
2609 3347 8.528643 TGTGATGTTACAGTAACTAGCTATGTT 58.471 33.333 21.56 7.75 39.38 2.71
2610 3348 8.063200 TGTGATGTTACAGTAACTAGCTATGT 57.937 34.615 21.56 0.00 39.38 2.29
2614 3352 9.751542 GAATATGTGATGTTACAGTAACTAGCT 57.248 33.333 21.56 6.57 39.38 3.32
2615 3353 9.529325 TGAATATGTGATGTTACAGTAACTAGC 57.471 33.333 21.56 12.59 39.38 3.42
2622 3360 9.376075 CTTCTCTTGAATATGTGATGTTACAGT 57.624 33.333 0.00 0.00 33.44 3.55
2623 3361 9.591792 TCTTCTCTTGAATATGTGATGTTACAG 57.408 33.333 0.00 0.00 33.44 2.74
2627 3365 9.327628 CTCATCTTCTCTTGAATATGTGATGTT 57.672 33.333 0.00 0.00 37.75 2.71
2628 3366 8.484575 ACTCATCTTCTCTTGAATATGTGATGT 58.515 33.333 10.75 3.38 37.75 3.06
2629 3367 8.890124 ACTCATCTTCTCTTGAATATGTGATG 57.110 34.615 10.75 0.00 37.75 3.07
2630 3368 8.926374 AGACTCATCTTCTCTTGAATATGTGAT 58.074 33.333 10.75 0.00 37.75 3.06
2631 3369 8.303780 AGACTCATCTTCTCTTGAATATGTGA 57.696 34.615 10.75 0.00 37.75 3.58
2632 3370 9.462174 GTAGACTCATCTTCTCTTGAATATGTG 57.538 37.037 0.00 0.00 37.75 3.21
2633 3371 9.194972 TGTAGACTCATCTTCTCTTGAATATGT 57.805 33.333 0.00 0.00 37.75 2.29
2636 3374 8.184848 CGTTGTAGACTCATCTTCTCTTGAATA 58.815 37.037 0.00 0.00 36.29 1.75
2637 3375 7.032580 CGTTGTAGACTCATCTTCTCTTGAAT 58.967 38.462 0.00 0.00 36.29 2.57
2638 3376 6.016192 ACGTTGTAGACTCATCTTCTCTTGAA 60.016 38.462 0.00 0.00 36.29 2.69
2639 3377 5.473846 ACGTTGTAGACTCATCTTCTCTTGA 59.526 40.000 0.00 0.00 36.29 3.02
2640 3378 5.704888 ACGTTGTAGACTCATCTTCTCTTG 58.295 41.667 0.00 0.00 36.29 3.02
2641 3379 5.968528 ACGTTGTAGACTCATCTTCTCTT 57.031 39.130 0.00 0.00 36.29 2.85
2642 3380 7.633193 ATTACGTTGTAGACTCATCTTCTCT 57.367 36.000 0.00 0.00 36.29 3.10
2643 3381 9.440784 CTTATTACGTTGTAGACTCATCTTCTC 57.559 37.037 0.00 0.00 36.29 2.87
2644 3382 8.958506 ACTTATTACGTTGTAGACTCATCTTCT 58.041 33.333 0.00 0.00 36.29 2.85
2645 3383 9.011407 CACTTATTACGTTGTAGACTCATCTTC 57.989 37.037 0.00 0.00 36.29 2.87
2646 3384 8.737175 TCACTTATTACGTTGTAGACTCATCTT 58.263 33.333 0.00 0.00 36.29 2.40
2647 3385 8.277490 TCACTTATTACGTTGTAGACTCATCT 57.723 34.615 0.00 0.00 39.15 2.90
2648 3386 8.906636 TTCACTTATTACGTTGTAGACTCATC 57.093 34.615 0.00 0.00 0.00 2.92
2649 3387 8.521176 ACTTCACTTATTACGTTGTAGACTCAT 58.479 33.333 0.00 0.00 0.00 2.90
2650 3388 7.806487 CACTTCACTTATTACGTTGTAGACTCA 59.194 37.037 0.00 0.00 0.00 3.41
2651 3389 8.019669 TCACTTCACTTATTACGTTGTAGACTC 58.980 37.037 0.00 0.00 0.00 3.36
2652 3390 7.879070 TCACTTCACTTATTACGTTGTAGACT 58.121 34.615 0.00 0.00 0.00 3.24
2653 3391 8.584600 CATCACTTCACTTATTACGTTGTAGAC 58.415 37.037 0.00 0.00 0.00 2.59
2654 3392 7.274904 GCATCACTTCACTTATTACGTTGTAGA 59.725 37.037 0.00 0.00 0.00 2.59
2655 3393 7.062956 TGCATCACTTCACTTATTACGTTGTAG 59.937 37.037 0.00 0.00 0.00 2.74
2656 3394 6.869388 TGCATCACTTCACTTATTACGTTGTA 59.131 34.615 0.00 0.00 0.00 2.41
2657 3395 5.699001 TGCATCACTTCACTTATTACGTTGT 59.301 36.000 0.00 0.00 0.00 3.32
2658 3396 6.164408 TGCATCACTTCACTTATTACGTTG 57.836 37.500 0.00 0.00 0.00 4.10
2659 3397 6.593770 TCATGCATCACTTCACTTATTACGTT 59.406 34.615 0.00 0.00 0.00 3.99
2660 3398 6.036083 GTCATGCATCACTTCACTTATTACGT 59.964 38.462 0.00 0.00 0.00 3.57
2661 3399 6.035975 TGTCATGCATCACTTCACTTATTACG 59.964 38.462 1.37 0.00 0.00 3.18
2662 3400 7.148423 TGTGTCATGCATCACTTCACTTATTAC 60.148 37.037 16.78 0.00 35.82 1.89
2663 3401 6.878389 TGTGTCATGCATCACTTCACTTATTA 59.122 34.615 16.78 0.00 35.82 0.98
2664 3402 5.706833 TGTGTCATGCATCACTTCACTTATT 59.293 36.000 16.78 0.00 35.82 1.40
2665 3403 5.247862 TGTGTCATGCATCACTTCACTTAT 58.752 37.500 16.78 0.00 35.82 1.73
2666 3404 4.640364 TGTGTCATGCATCACTTCACTTA 58.360 39.130 16.78 0.00 35.82 2.24
2667 3405 3.479489 TGTGTCATGCATCACTTCACTT 58.521 40.909 16.78 0.00 35.82 3.16
2668 3406 3.130280 TGTGTCATGCATCACTTCACT 57.870 42.857 16.78 0.00 35.82 3.41
2669 3407 3.003585 TGTTGTGTCATGCATCACTTCAC 59.996 43.478 16.78 12.29 35.82 3.18
2670 3408 3.003585 GTGTTGTGTCATGCATCACTTCA 59.996 43.478 16.78 13.00 35.82 3.02
2671 3409 3.003585 TGTGTTGTGTCATGCATCACTTC 59.996 43.478 16.78 11.17 35.82 3.01
2672 3410 2.950975 TGTGTTGTGTCATGCATCACTT 59.049 40.909 16.78 0.00 35.82 3.16
2673 3411 2.574450 TGTGTTGTGTCATGCATCACT 58.426 42.857 16.78 0.00 35.82 3.41
2674 3412 3.564235 ATGTGTTGTGTCATGCATCAC 57.436 42.857 10.76 10.76 35.43 3.06
2675 3413 4.701171 ACATATGTGTTGTGTCATGCATCA 59.299 37.500 7.78 0.00 34.01 3.07
2676 3414 5.239359 ACATATGTGTTGTGTCATGCATC 57.761 39.130 7.78 0.00 34.01 3.91
2677 3415 5.648178 AACATATGTGTTGTGTCATGCAT 57.352 34.783 9.63 0.00 46.43 3.96


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

AutoCloner maintained by Alex Coulton.