Multiple sequence alignment - TraesCS6B01G008500

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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 TraesCS6B01G008500 chr6B 100.000 2798 0 0 1 2798 5556202 5553405 0.000000e+00 5168.0
1 TraesCS6B01G008500 chr6B 98.132 1499 25 2 545 2040 5072716 5071218 0.000000e+00 2610.0
2 TraesCS6B01G008500 chr6B 92.380 1798 133 4 242 2036 2809403 2807607 0.000000e+00 2558.0
3 TraesCS6B01G008500 chr6B 96.200 1421 51 2 545 1965 2803080 2801663 0.000000e+00 2322.0
4 TraesCS6B01G008500 chr6B 92.450 1563 118 0 545 2107 8889526 8887964 0.000000e+00 2233.0
5 TraesCS6B01G008500 chr6B 88.314 676 52 8 1331 2006 5077625 5076977 0.000000e+00 785.0
6 TraesCS6B01G008500 chr6B 85.118 551 62 8 1 532 365739618 365739069 1.900000e-151 545.0
7 TraesCS6B01G008500 chr6B 87.762 286 22 7 2524 2798 2799846 2799563 3.480000e-84 322.0
8 TraesCS6B01G008500 chr6B 87.967 241 21 7 2288 2521 5071192 5070953 7.630000e-71 278.0
9 TraesCS6B01G008500 chr6B 85.957 235 24 5 2524 2751 5070989 5070757 2.780000e-60 243.0
10 TraesCS6B01G008500 chr6B 92.357 157 11 1 2133 2288 490332863 490332707 3.630000e-54 222.0
11 TraesCS6B01G008500 chr6B 90.506 158 15 0 1 158 2809584 2809427 2.820000e-50 209.0
12 TraesCS6B01G008500 chr6D 91.587 1569 104 9 545 2107 1373069 1374615 0.000000e+00 2141.0
13 TraesCS6B01G008500 chr6D 78.596 570 67 30 6 547 302632935 302632393 2.690000e-85 326.0
14 TraesCS6B01G008500 chr6D 86.559 186 18 4 2108 2287 419592584 419592768 6.110000e-47 198.0
15 TraesCS6B01G008500 chr3A 92.226 1505 111 2 545 2049 731787474 731785976 0.000000e+00 2126.0
16 TraesCS6B01G008500 chr3A 93.548 93 4 2 2429 2521 51753232 51753322 1.350000e-28 137.0
17 TraesCS6B01G008500 chr7B 74.979 1195 255 27 626 1789 680854463 680853282 6.910000e-141 510.0
18 TraesCS6B01G008500 chr7B 75.869 489 78 30 21 499 89954492 89954034 2.180000e-51 213.0
19 TraesCS6B01G008500 chr1B 82.740 562 68 12 6 548 296550823 296550272 9.070000e-130 473.0
20 TraesCS6B01G008500 chr1B 89.444 180 19 0 2108 2287 54700569 54700748 7.800000e-56 228.0
21 TraesCS6B01G008500 chr3B 83.152 552 55 15 1 538 25387251 25387778 1.170000e-128 470.0
22 TraesCS6B01G008500 chr3B 83.969 393 44 10 169 545 450824444 450824055 2.650000e-95 359.0
23 TraesCS6B01G008500 chr3B 90.659 182 17 0 2108 2289 776188683 776188502 2.780000e-60 243.0
24 TraesCS6B01G008500 chr3B 91.667 96 5 3 2436 2531 71403657 71403749 2.260000e-26 130.0
25 TraesCS6B01G008500 chr3B 91.304 92 7 1 2430 2521 26656538 26656448 1.050000e-24 124.0
26 TraesCS6B01G008500 chr3B 96.000 50 0 2 2520 2569 509794944 509794897 2.310000e-11 80.5
27 TraesCS6B01G008500 chr2D 81.317 562 77 13 1 551 155340472 155339928 5.540000e-117 431.0
28 TraesCS6B01G008500 chr2D 77.348 543 79 25 25 545 633573757 633574277 5.900000e-72 281.0
29 TraesCS6B01G008500 chr5B 80.075 532 80 16 25 544 58188711 58189228 3.400000e-99 372.0
30 TraesCS6B01G008500 chr5B 79.135 532 77 20 25 548 116897699 116897194 1.240000e-88 337.0
31 TraesCS6B01G008500 chr5B 87.097 124 14 2 2441 2564 227646629 227646508 3.760000e-29 139.0
32 TraesCS6B01G008500 chr5B 95.652 46 2 0 2107 2152 611854784 611854739 1.070000e-09 75.0
33 TraesCS6B01G008500 chr5B 95.556 45 2 0 2108 2152 509470067 509470023 3.870000e-09 73.1
34 TraesCS6B01G008500 chr6A 79.576 519 77 15 43 549 109685255 109685756 7.420000e-91 344.0
35 TraesCS6B01G008500 chr3D 79.813 535 59 29 31 548 409934306 409933804 7.420000e-91 344.0
36 TraesCS6B01G008500 chr3D 77.738 557 79 34 11 545 532181062 532181595 1.630000e-77 300.0
37 TraesCS6B01G008500 chr3D 86.282 277 27 6 274 549 3352551 3352817 9.800000e-75 291.0
38 TraesCS6B01G008500 chr3D 92.857 112 5 3 2455 2564 11463497 11463387 2.880000e-35 159.0
39 TraesCS6B01G008500 chr2B 78.216 583 70 28 1 545 472625485 472624922 1.250000e-83 320.0
40 TraesCS6B01G008500 chr2B 81.491 389 50 8 1 379 705879950 705879574 1.630000e-77 300.0
41 TraesCS6B01G008500 chr2B 91.758 182 14 1 2108 2288 598956379 598956198 4.630000e-63 252.0
42 TraesCS6B01G008500 chr2B 89.305 187 15 3 2108 2289 360845686 360845872 2.170000e-56 230.0
43 TraesCS6B01G008500 chr2B 91.406 128 6 2 2440 2567 743741017 743740895 1.330000e-38 171.0
44 TraesCS6B01G008500 chr2B 91.753 97 5 3 2426 2521 13713004 13713098 6.290000e-27 132.0
45 TraesCS6B01G008500 chr7D 78.119 521 87 21 1407 1912 601589506 601588998 3.500000e-79 305.0
46 TraesCS6B01G008500 chr7D 78.030 528 73 22 21 532 183031338 183030838 2.730000e-75 292.0
47 TraesCS6B01G008500 chr7D 80.403 347 59 3 1436 1773 554212971 554212625 3.580000e-64 255.0
48 TraesCS6B01G008500 chr7D 86.592 179 20 4 2109 2286 351087527 351087702 7.910000e-46 195.0
49 TraesCS6B01G008500 chr7D 74.161 298 54 17 1511 1792 585178289 585178579 4.930000e-18 102.0
50 TraesCS6B01G008500 chr7A 87.222 180 22 1 2108 2287 52329104 52328926 1.310000e-48 204.0
51 TraesCS6B01G008500 chr7A 72.074 487 94 26 1340 1793 675388564 675389041 1.060000e-19 108.0
52 TraesCS6B01G008500 chr4A 85.897 156 14 5 2139 2287 621812369 621812215 2.880000e-35 159.0
53 TraesCS6B01G008500 chr4B 90.517 116 5 3 2441 2556 464223347 464223238 6.240000e-32 148.0
54 TraesCS6B01G008500 chr4B 88.333 120 6 3 2452 2564 286072509 286072627 1.350000e-28 137.0
55 TraesCS6B01G008500 chrUn 90.909 99 5 4 2437 2535 394816486 394816392 2.260000e-26 130.0
56 TraesCS6B01G008500 chr4D 100.000 45 0 0 2524 2568 136689474 136689430 1.790000e-12 84.2


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 TraesCS6B01G008500 chr6B 5553405 5556202 2797 True 5168.000000 5168 100.000000 1 2798 1 chr6B.!!$R2 2797
1 TraesCS6B01G008500 chr6B 8887964 8889526 1562 True 2233.000000 2233 92.450000 545 2107 1 chr6B.!!$R3 1562
2 TraesCS6B01G008500 chr6B 2807607 2809584 1977 True 1383.500000 2558 91.443000 1 2036 2 chr6B.!!$R7 2035
3 TraesCS6B01G008500 chr6B 2799563 2803080 3517 True 1322.000000 2322 91.981000 545 2798 2 chr6B.!!$R6 2253
4 TraesCS6B01G008500 chr6B 5070757 5072716 1959 True 1043.666667 2610 90.685333 545 2751 3 chr6B.!!$R8 2206
5 TraesCS6B01G008500 chr6B 5076977 5077625 648 True 785.000000 785 88.314000 1331 2006 1 chr6B.!!$R1 675
6 TraesCS6B01G008500 chr6B 365739069 365739618 549 True 545.000000 545 85.118000 1 532 1 chr6B.!!$R4 531
7 TraesCS6B01G008500 chr6D 1373069 1374615 1546 False 2141.000000 2141 91.587000 545 2107 1 chr6D.!!$F1 1562
8 TraesCS6B01G008500 chr6D 302632393 302632935 542 True 326.000000 326 78.596000 6 547 1 chr6D.!!$R1 541
9 TraesCS6B01G008500 chr3A 731785976 731787474 1498 True 2126.000000 2126 92.226000 545 2049 1 chr3A.!!$R1 1504
10 TraesCS6B01G008500 chr7B 680853282 680854463 1181 True 510.000000 510 74.979000 626 1789 1 chr7B.!!$R2 1163
11 TraesCS6B01G008500 chr1B 296550272 296550823 551 True 473.000000 473 82.740000 6 548 1 chr1B.!!$R1 542
12 TraesCS6B01G008500 chr3B 25387251 25387778 527 False 470.000000 470 83.152000 1 538 1 chr3B.!!$F1 537
13 TraesCS6B01G008500 chr2D 155339928 155340472 544 True 431.000000 431 81.317000 1 551 1 chr2D.!!$R1 550
14 TraesCS6B01G008500 chr2D 633573757 633574277 520 False 281.000000 281 77.348000 25 545 1 chr2D.!!$F1 520
15 TraesCS6B01G008500 chr5B 58188711 58189228 517 False 372.000000 372 80.075000 25 544 1 chr5B.!!$F1 519
16 TraesCS6B01G008500 chr5B 116897194 116897699 505 True 337.000000 337 79.135000 25 548 1 chr5B.!!$R1 523
17 TraesCS6B01G008500 chr6A 109685255 109685756 501 False 344.000000 344 79.576000 43 549 1 chr6A.!!$F1 506
18 TraesCS6B01G008500 chr3D 409933804 409934306 502 True 344.000000 344 79.813000 31 548 1 chr3D.!!$R2 517
19 TraesCS6B01G008500 chr3D 532181062 532181595 533 False 300.000000 300 77.738000 11 545 1 chr3D.!!$F2 534
20 TraesCS6B01G008500 chr2B 472624922 472625485 563 True 320.000000 320 78.216000 1 545 1 chr2B.!!$R1 544
21 TraesCS6B01G008500 chr7D 601588998 601589506 508 True 305.000000 305 78.119000 1407 1912 1 chr7D.!!$R3 505
22 TraesCS6B01G008500 chr7D 183030838 183031338 500 True 292.000000 292 78.030000 21 532 1 chr7D.!!$R1 511

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
611 705 1.800805 CACTGAAGCTTGTCGGACAT 58.199 50.0 12.26 0.0 0.0 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2218 3873 0.035439 AACGTGGTAGGCTGGGATTG 60.035 55.0 0.0 0.0 0.0 2.67 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
202 216 2.829458 GCCGACTCCGACTAGCCT 60.829 66.667 0.00 0.00 38.22 4.58
211 225 4.803426 GACTAGCCTGCGCACGCT 62.803 66.667 31.31 31.31 42.51 5.07
389 477 4.278419 GGCATTGATCGCCTTTTTAGGTAT 59.722 41.667 3.09 0.00 46.56 2.73
411 501 4.742417 TGCGGGAAATGTATGTTTGAATG 58.258 39.130 0.00 0.00 0.00 2.67
604 698 2.289945 CCTCTTAGGCACTGAAGCTTGT 60.290 50.000 2.10 0.00 41.52 3.16
611 705 1.800805 CACTGAAGCTTGTCGGACAT 58.199 50.000 12.26 0.00 0.00 3.06
1899 2036 4.137543 CCCCTTGGATTTAGAGCATGTAC 58.862 47.826 0.00 0.00 0.00 2.90
2006 2149 8.041323 ACGTCTGGTTCTTATTGTGATATCTTT 58.959 33.333 3.98 0.00 0.00 2.52
2057 3712 8.973378 GTATCTGTTAGCACTAATCTTGATCAC 58.027 37.037 0.00 0.00 0.00 3.06
2058 3713 7.175347 TCTGTTAGCACTAATCTTGATCACT 57.825 36.000 0.00 0.00 0.00 3.41
2063 3718 8.821894 GTTAGCACTAATCTTGATCACTTTAGG 58.178 37.037 16.79 10.31 0.00 2.69
2085 3740 5.045797 AGGGGAGTTATTGTCCAAGTAGTTC 60.046 44.000 0.00 0.00 35.57 3.01
2107 3762 1.154469 GCTTGCACGCCGTTAGTTC 60.154 57.895 3.29 0.00 0.00 3.01
2108 3763 1.837538 GCTTGCACGCCGTTAGTTCA 61.838 55.000 3.29 0.00 0.00 3.18
2109 3764 0.584396 CTTGCACGCCGTTAGTTCAA 59.416 50.000 0.00 0.00 0.00 2.69
2110 3765 1.196808 CTTGCACGCCGTTAGTTCAAT 59.803 47.619 0.00 0.00 0.00 2.57
2111 3766 2.081725 TGCACGCCGTTAGTTCAATA 57.918 45.000 0.00 0.00 0.00 1.90
2112 3767 2.414806 TGCACGCCGTTAGTTCAATAA 58.585 42.857 0.00 0.00 0.00 1.40
2113 3768 3.004171 TGCACGCCGTTAGTTCAATAAT 58.996 40.909 0.00 0.00 0.00 1.28
2114 3769 3.181515 TGCACGCCGTTAGTTCAATAATG 60.182 43.478 0.00 0.00 0.00 1.90
2115 3770 3.350912 CACGCCGTTAGTTCAATAATGC 58.649 45.455 0.00 0.00 0.00 3.56
2116 3771 3.063452 CACGCCGTTAGTTCAATAATGCT 59.937 43.478 0.00 0.00 0.00 3.79
2117 3772 4.269123 CACGCCGTTAGTTCAATAATGCTA 59.731 41.667 0.00 0.00 0.00 3.49
2118 3773 4.269363 ACGCCGTTAGTTCAATAATGCTAC 59.731 41.667 0.00 0.00 0.00 3.58
2119 3774 4.269123 CGCCGTTAGTTCAATAATGCTACA 59.731 41.667 0.00 0.00 0.00 2.74
2120 3775 5.050363 CGCCGTTAGTTCAATAATGCTACAT 60.050 40.000 0.00 0.00 0.00 2.29
2121 3776 6.363473 GCCGTTAGTTCAATAATGCTACATC 58.637 40.000 0.00 0.00 0.00 3.06
2122 3777 6.202954 GCCGTTAGTTCAATAATGCTACATCT 59.797 38.462 0.00 0.00 0.00 2.90
2123 3778 7.384115 GCCGTTAGTTCAATAATGCTACATCTA 59.616 37.037 0.00 0.00 0.00 1.98
2124 3779 8.700644 CCGTTAGTTCAATAATGCTACATCTAC 58.299 37.037 0.00 0.00 0.00 2.59
2125 3780 8.417928 CGTTAGTTCAATAATGCTACATCTACG 58.582 37.037 0.00 0.00 0.00 3.51
2126 3781 9.245962 GTTAGTTCAATAATGCTACATCTACGT 57.754 33.333 0.00 0.00 0.00 3.57
2129 3784 9.811995 AGTTCAATAATGCTACATCTACGTAAA 57.188 29.630 0.00 0.00 0.00 2.01
2148 3803 6.215477 GTAAAACGTTACGAAAGCTTACCT 57.785 37.500 13.03 0.00 30.76 3.08
2149 3804 7.333288 GTAAAACGTTACGAAAGCTTACCTA 57.667 36.000 13.03 0.00 30.76 3.08
2150 3805 6.843069 AAAACGTTACGAAAGCTTACCTAA 57.157 33.333 13.03 0.00 0.00 2.69
2151 3806 5.829233 AACGTTACGAAAGCTTACCTAAC 57.171 39.130 13.03 4.85 0.00 2.34
2152 3807 5.126396 ACGTTACGAAAGCTTACCTAACT 57.874 39.130 13.03 0.00 0.00 2.24
2153 3808 5.532557 ACGTTACGAAAGCTTACCTAACTT 58.467 37.500 13.03 0.00 0.00 2.66
2154 3809 5.403466 ACGTTACGAAAGCTTACCTAACTTG 59.597 40.000 13.03 0.00 0.00 3.16
2155 3810 5.630680 CGTTACGAAAGCTTACCTAACTTGA 59.369 40.000 0.00 0.00 0.00 3.02
2156 3811 6.399354 CGTTACGAAAGCTTACCTAACTTGAC 60.399 42.308 0.00 0.00 0.00 3.18
2157 3812 5.211174 ACGAAAGCTTACCTAACTTGACT 57.789 39.130 0.00 0.00 0.00 3.41
2158 3813 6.336842 ACGAAAGCTTACCTAACTTGACTA 57.663 37.500 0.00 0.00 0.00 2.59
2159 3814 6.752168 ACGAAAGCTTACCTAACTTGACTAA 58.248 36.000 0.00 0.00 0.00 2.24
2160 3815 7.212274 ACGAAAGCTTACCTAACTTGACTAAA 58.788 34.615 0.00 0.00 0.00 1.85
2161 3816 7.876582 ACGAAAGCTTACCTAACTTGACTAAAT 59.123 33.333 0.00 0.00 0.00 1.40
2162 3817 8.718734 CGAAAGCTTACCTAACTTGACTAAATT 58.281 33.333 0.00 0.00 0.00 1.82
2175 3830 8.809468 ACTTGACTAAATTAAATTCTCTCCCC 57.191 34.615 0.00 0.00 0.00 4.81
2176 3831 7.834681 ACTTGACTAAATTAAATTCTCTCCCCC 59.165 37.037 0.00 0.00 0.00 5.40
2193 3848 1.822371 CCCCCTGATTTTAAACGGTGG 59.178 52.381 0.00 0.00 0.00 4.61
2194 3849 2.521126 CCCCTGATTTTAAACGGTGGT 58.479 47.619 0.00 0.00 0.00 4.16
2195 3850 2.230266 CCCCTGATTTTAAACGGTGGTG 59.770 50.000 0.00 0.00 0.00 4.17
2196 3851 2.230266 CCCTGATTTTAAACGGTGGTGG 59.770 50.000 0.00 0.00 0.00 4.61
2197 3852 2.230266 CCTGATTTTAAACGGTGGTGGG 59.770 50.000 0.00 0.00 0.00 4.61
2198 3853 1.614413 TGATTTTAAACGGTGGTGGGC 59.386 47.619 0.00 0.00 0.00 5.36
2199 3854 0.970640 ATTTTAAACGGTGGTGGGCC 59.029 50.000 0.00 0.00 0.00 5.80
2200 3855 1.114119 TTTTAAACGGTGGTGGGCCC 61.114 55.000 17.59 17.59 0.00 5.80
2201 3856 2.998301 TTTAAACGGTGGTGGGCCCC 62.998 60.000 22.27 10.91 0.00 5.80
2207 3862 4.048470 GTGGTGGGCCCCTTCCTC 62.048 72.222 22.27 15.79 0.00 3.71
2214 3869 4.439901 GCCCCTTCCTCCCCCTCT 62.440 72.222 0.00 0.00 0.00 3.69
2215 3870 2.040359 CCCCTTCCTCCCCCTCTC 60.040 72.222 0.00 0.00 0.00 3.20
2216 3871 2.652113 CCCCTTCCTCCCCCTCTCT 61.652 68.421 0.00 0.00 0.00 3.10
2217 3872 1.074850 CCCTTCCTCCCCCTCTCTC 60.075 68.421 0.00 0.00 0.00 3.20
2218 3873 1.074850 CCTTCCTCCCCCTCTCTCC 60.075 68.421 0.00 0.00 0.00 3.71
2219 3874 1.706575 CTTCCTCCCCCTCTCTCCA 59.293 63.158 0.00 0.00 0.00 3.86
2220 3875 0.043334 CTTCCTCCCCCTCTCTCCAA 59.957 60.000 0.00 0.00 0.00 3.53
2221 3876 0.725133 TTCCTCCCCCTCTCTCCAAT 59.275 55.000 0.00 0.00 0.00 3.16
2222 3877 0.266152 TCCTCCCCCTCTCTCCAATC 59.734 60.000 0.00 0.00 0.00 2.67
2223 3878 0.766288 CCTCCCCCTCTCTCCAATCC 60.766 65.000 0.00 0.00 0.00 3.01
2224 3879 0.766288 CTCCCCCTCTCTCCAATCCC 60.766 65.000 0.00 0.00 0.00 3.85
2225 3880 1.004758 CCCCCTCTCTCCAATCCCA 59.995 63.158 0.00 0.00 0.00 4.37
2226 3881 1.059006 CCCCCTCTCTCCAATCCCAG 61.059 65.000 0.00 0.00 0.00 4.45
2227 3882 1.704007 CCCCTCTCTCCAATCCCAGC 61.704 65.000 0.00 0.00 0.00 4.85
2228 3883 1.704007 CCCTCTCTCCAATCCCAGCC 61.704 65.000 0.00 0.00 0.00 4.85
2229 3884 0.693767 CCTCTCTCCAATCCCAGCCT 60.694 60.000 0.00 0.00 0.00 4.58
2230 3885 1.413662 CCTCTCTCCAATCCCAGCCTA 60.414 57.143 0.00 0.00 0.00 3.93
2231 3886 1.691434 CTCTCTCCAATCCCAGCCTAC 59.309 57.143 0.00 0.00 0.00 3.18
2232 3887 0.761802 CTCTCCAATCCCAGCCTACC 59.238 60.000 0.00 0.00 0.00 3.18
2233 3888 0.044092 TCTCCAATCCCAGCCTACCA 59.956 55.000 0.00 0.00 0.00 3.25
2234 3889 0.181350 CTCCAATCCCAGCCTACCAC 59.819 60.000 0.00 0.00 0.00 4.16
2235 3890 1.153168 CCAATCCCAGCCTACCACG 60.153 63.158 0.00 0.00 0.00 4.94
2236 3891 1.602237 CAATCCCAGCCTACCACGT 59.398 57.895 0.00 0.00 0.00 4.49
2237 3892 0.035439 CAATCCCAGCCTACCACGTT 60.035 55.000 0.00 0.00 0.00 3.99
2238 3893 0.035439 AATCCCAGCCTACCACGTTG 60.035 55.000 0.00 0.00 0.00 4.10
2239 3894 2.536997 ATCCCAGCCTACCACGTTGC 62.537 60.000 0.00 0.00 0.00 4.17
2240 3895 2.347490 CCAGCCTACCACGTTGCT 59.653 61.111 0.00 0.00 33.52 3.91
2241 3896 1.741770 CCAGCCTACCACGTTGCTC 60.742 63.158 0.00 0.00 30.08 4.26
2242 3897 1.293498 CAGCCTACCACGTTGCTCT 59.707 57.895 0.00 0.00 30.08 4.09
2243 3898 0.320771 CAGCCTACCACGTTGCTCTT 60.321 55.000 0.00 0.00 30.08 2.85
2244 3899 0.396811 AGCCTACCACGTTGCTCTTT 59.603 50.000 0.00 0.00 0.00 2.52
2245 3900 1.621814 AGCCTACCACGTTGCTCTTTA 59.378 47.619 0.00 0.00 0.00 1.85
2246 3901 1.730612 GCCTACCACGTTGCTCTTTAC 59.269 52.381 0.00 0.00 0.00 2.01
2247 3902 1.990563 CCTACCACGTTGCTCTTTACG 59.009 52.381 0.00 0.00 43.08 3.18
2258 3913 6.814343 CGTTGCTCTTTACGTTACTTTATGT 58.186 36.000 0.00 0.00 33.33 2.29
2259 3914 7.285788 CGTTGCTCTTTACGTTACTTTATGTT 58.714 34.615 0.00 0.00 33.33 2.71
2260 3915 7.795272 CGTTGCTCTTTACGTTACTTTATGTTT 59.205 33.333 0.00 0.00 33.33 2.83
2261 3916 8.889000 GTTGCTCTTTACGTTACTTTATGTTTG 58.111 33.333 0.00 0.00 0.00 2.93
2262 3917 8.145316 TGCTCTTTACGTTACTTTATGTTTGT 57.855 30.769 0.00 0.00 0.00 2.83
2263 3918 8.065407 TGCTCTTTACGTTACTTTATGTTTGTG 58.935 33.333 0.00 0.00 0.00 3.33
2264 3919 8.066000 GCTCTTTACGTTACTTTATGTTTGTGT 58.934 33.333 0.00 0.00 0.00 3.72
2265 3920 9.925268 CTCTTTACGTTACTTTATGTTTGTGTT 57.075 29.630 0.00 0.00 0.00 3.32
2270 3925 8.532408 ACGTTACTTTATGTTTGTGTTTTACG 57.468 30.769 0.00 0.00 0.00 3.18
2271 3926 8.174422 ACGTTACTTTATGTTTGTGTTTTACGT 58.826 29.630 0.00 0.00 0.00 3.57
2272 3927 9.630310 CGTTACTTTATGTTTGTGTTTTACGTA 57.370 29.630 0.00 0.00 0.00 3.57
2276 3931 9.872757 ACTTTATGTTTGTGTTTTACGTAGATG 57.127 29.630 0.00 0.00 0.00 2.90
2277 3932 9.872757 CTTTATGTTTGTGTTTTACGTAGATGT 57.127 29.630 0.00 0.00 0.00 3.06
2280 3935 6.879962 TGTTTGTGTTTTACGTAGATGTAGC 58.120 36.000 0.00 0.00 0.00 3.58
2281 3936 6.479331 TGTTTGTGTTTTACGTAGATGTAGCA 59.521 34.615 0.00 0.00 0.00 3.49
2282 3937 7.171848 TGTTTGTGTTTTACGTAGATGTAGCAT 59.828 33.333 0.00 0.00 0.00 3.79
2283 3938 7.661127 TTGTGTTTTACGTAGATGTAGCATT 57.339 32.000 0.00 0.00 0.00 3.56
2284 3939 8.760103 TTGTGTTTTACGTAGATGTAGCATTA 57.240 30.769 0.00 0.00 0.00 1.90
2285 3940 8.176814 TGTGTTTTACGTAGATGTAGCATTAC 57.823 34.615 0.00 0.00 0.00 1.89
2286 3941 8.030692 TGTGTTTTACGTAGATGTAGCATTACT 58.969 33.333 0.00 0.00 0.00 2.24
2287 3942 8.318876 GTGTTTTACGTAGATGTAGCATTACTG 58.681 37.037 0.00 0.00 0.00 2.74
2376 4032 0.824595 GTGGGCTCCATGCATGCATA 60.825 55.000 31.73 17.29 45.15 3.14
2385 4041 4.938028 TCCATGCATGCATATAGGGATTT 58.062 39.130 31.73 4.96 34.91 2.17
2391 4047 4.491676 CATGCATATAGGGATTTGCTTGC 58.508 43.478 0.00 0.00 39.83 4.01
2416 4072 4.466726 AGGTTGGTCAGTTAGTTAGCTAGG 59.533 45.833 0.00 0.00 0.00 3.02
2423 4079 6.035217 GTCAGTTAGTTAGCTAGGTTAGTGC 58.965 44.000 0.00 0.00 0.00 4.40
2431 4087 1.683790 CTAGGTTAGTGCGTGCGTGC 61.684 60.000 0.00 0.00 0.00 5.34
2466 4126 6.371825 ACTCCCTTCGTTTCAAAATAGATGAC 59.628 38.462 0.00 0.00 0.00 3.06
2467 4127 5.646360 TCCCTTCGTTTCAAAATAGATGACC 59.354 40.000 0.00 0.00 0.00 4.02
2468 4128 5.163652 CCCTTCGTTTCAAAATAGATGACCC 60.164 44.000 0.00 0.00 0.00 4.46
2482 4142 9.802039 AAATAGATGACCCAACTTTGTACTAAA 57.198 29.630 0.00 0.00 0.00 1.85
2483 4143 9.449719 AATAGATGACCCAACTTTGTACTAAAG 57.550 33.333 13.08 13.08 0.00 1.85
2503 4163 9.841295 ACTAAAGTTTAGTACAAAGTTGGATCA 57.159 29.630 23.73 0.00 0.00 2.92
2506 4166 9.574516 AAAGTTTAGTACAAAGTTGGATCATCT 57.425 29.630 0.00 0.00 0.00 2.90
2513 4173 8.960591 AGTACAAAGTTGGATCATCTATTTTGG 58.039 33.333 11.01 0.00 0.00 3.28
2514 4174 8.956426 GTACAAAGTTGGATCATCTATTTTGGA 58.044 33.333 11.01 2.87 0.00 3.53
2515 4175 8.421249 ACAAAGTTGGATCATCTATTTTGGAA 57.579 30.769 11.01 0.00 0.00 3.53
2516 4176 8.306761 ACAAAGTTGGATCATCTATTTTGGAAC 58.693 33.333 11.01 0.00 0.00 3.62
2517 4177 6.683974 AGTTGGATCATCTATTTTGGAACG 57.316 37.500 0.00 0.00 0.00 3.95
2518 4178 5.590259 AGTTGGATCATCTATTTTGGAACGG 59.410 40.000 0.00 0.00 0.00 4.44
2519 4179 5.366482 TGGATCATCTATTTTGGAACGGA 57.634 39.130 0.00 0.00 0.00 4.69
2520 4180 5.368145 TGGATCATCTATTTTGGAACGGAG 58.632 41.667 0.00 0.00 0.00 4.63
2522 4182 6.099125 TGGATCATCTATTTTGGAACGGAGTA 59.901 38.462 0.00 0.00 45.00 2.59
2523 4183 7.162082 GGATCATCTATTTTGGAACGGAGTAT 58.838 38.462 0.00 0.00 45.00 2.12
2524 4184 8.311836 GGATCATCTATTTTGGAACGGAGTATA 58.688 37.037 0.00 0.00 45.00 1.47
2525 4185 9.360093 GATCATCTATTTTGGAACGGAGTATAG 57.640 37.037 0.00 0.00 45.00 1.31
2526 4186 8.246430 TCATCTATTTTGGAACGGAGTATAGT 57.754 34.615 0.00 0.00 45.00 2.12
2527 4187 9.358406 TCATCTATTTTGGAACGGAGTATAGTA 57.642 33.333 0.00 0.00 45.00 1.82
2528 4188 9.408069 CATCTATTTTGGAACGGAGTATAGTAC 57.592 37.037 0.00 0.00 45.00 2.73
2529 4189 8.523915 TCTATTTTGGAACGGAGTATAGTACA 57.476 34.615 0.00 0.00 45.00 2.90
2530 4190 8.970020 TCTATTTTGGAACGGAGTATAGTACAA 58.030 33.333 0.00 0.00 45.00 2.41
2531 4191 9.590451 CTATTTTGGAACGGAGTATAGTACAAA 57.410 33.333 0.00 0.00 45.00 2.83
2532 4192 7.894376 TTTTGGAACGGAGTATAGTACAAAG 57.106 36.000 0.00 0.00 45.00 2.77
2565 4225 1.772836 TTAGGAACGGAGGGAGTAGC 58.227 55.000 0.00 0.00 0.00 3.58
2567 4227 0.924823 AGGAACGGAGGGAGTAGCTA 59.075 55.000 0.00 0.00 0.00 3.32
2568 4228 1.133730 AGGAACGGAGGGAGTAGCTAG 60.134 57.143 0.00 0.00 0.00 3.42
2573 4233 1.404843 GGAGGGAGTAGCTAGGTGTG 58.595 60.000 4.27 0.00 0.00 3.82
2574 4234 1.342175 GGAGGGAGTAGCTAGGTGTGT 60.342 57.143 4.27 0.00 0.00 3.72
2579 4239 1.546476 GAGTAGCTAGGTGTGTGCACT 59.454 52.381 19.41 0.00 44.65 4.40
2616 4276 2.106857 TCCCTTTTGTATTGGTCCGTGT 59.893 45.455 0.00 0.00 0.00 4.49
2619 4279 2.529780 TTTGTATTGGTCCGTGTCGT 57.470 45.000 0.00 0.00 0.00 4.34
2620 4280 1.785768 TTGTATTGGTCCGTGTCGTG 58.214 50.000 0.00 0.00 0.00 4.35
2621 4281 0.675083 TGTATTGGTCCGTGTCGTGT 59.325 50.000 0.00 0.00 0.00 4.49
2622 4282 1.065358 GTATTGGTCCGTGTCGTGTG 58.935 55.000 0.00 0.00 0.00 3.82
2689 4354 1.613437 AGGCATTTGTCACCGGAAAAG 59.387 47.619 9.46 0.00 0.00 2.27
2691 4356 2.607038 GGCATTTGTCACCGGAAAAGAC 60.607 50.000 9.46 11.20 0.00 3.01
2695 4360 3.842007 TTGTCACCGGAAAAGACCTTA 57.158 42.857 9.46 0.00 0.00 2.69
2701 4366 2.277084 CCGGAAAAGACCTTATGTCCG 58.723 52.381 16.25 16.25 45.68 4.79
2713 4378 3.127030 CCTTATGTCCGGTTTGCTTCTTC 59.873 47.826 0.00 0.00 0.00 2.87
2726 4391 1.987074 GCTTCTTCTTCGACCTTCGTC 59.013 52.381 0.00 0.00 41.35 4.20
2727 4392 2.597520 CTTCTTCTTCGACCTTCGTCC 58.402 52.381 0.00 0.00 41.35 4.79
2742 4407 0.098905 CGTCCGAGCGAATGAGAGAA 59.901 55.000 0.00 0.00 0.00 2.87
2753 4422 4.601019 CGAATGAGAGAAAGAGAGAGCTC 58.399 47.826 5.27 5.27 41.62 4.09
2760 4429 1.336755 GAAAGAGAGAGCTCGCTAGGG 59.663 57.143 20.64 0.00 45.98 3.53
2763 4432 1.107945 GAGAGAGCTCGCTAGGGTTT 58.892 55.000 20.64 0.00 34.09 3.27
2764 4433 2.092321 AGAGAGAGCTCGCTAGGGTTTA 60.092 50.000 20.64 0.00 45.98 2.01
2786 4455 2.202932 CATTCGGGTCGCAGGAGG 60.203 66.667 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.341976 GCCCCTCCCATTAGAAAAGCA 60.342 52.381 0.00 0.00 0.00 3.91
161 175 3.858868 TTCTGTGCTGGGCGTCGTC 62.859 63.158 0.00 0.00 0.00 4.20
225 239 1.154282 TGTCGACGTCTGTCATCGC 60.154 57.895 14.70 0.00 45.80 4.58
389 477 4.742417 CATTCAAACATACATTTCCCGCA 58.258 39.130 0.00 0.00 0.00 5.69
411 501 4.133796 GGCCGCCAAGATGGTTGC 62.134 66.667 3.91 1.50 40.46 4.17
604 698 1.381327 GTCCCTCCCTCATGTCCGA 60.381 63.158 0.00 0.00 0.00 4.55
672 766 4.342092 AGTGTCATGTGGATGATATCGTCA 59.658 41.667 23.22 7.18 40.78 4.35
1755 1890 0.109153 TGCTCTCTTTGAGGCAGCAA 59.891 50.000 8.02 0.00 42.87 3.91
1804 1941 4.574599 ACTTGTCATCTTCCTTTTGCAC 57.425 40.909 0.00 0.00 0.00 4.57
2057 3712 5.816682 ACTTGGACAATAACTCCCCTAAAG 58.183 41.667 0.00 0.00 0.00 1.85
2058 3713 5.853572 ACTTGGACAATAACTCCCCTAAA 57.146 39.130 0.00 0.00 0.00 1.85
2063 3718 4.868734 CGAACTACTTGGACAATAACTCCC 59.131 45.833 0.00 0.00 0.00 4.30
2107 3762 8.898555 CGTTTTACGTAGATGTAGCATTATTG 57.101 34.615 0.00 0.00 36.74 1.90
2125 3780 6.215477 AGGTAAGCTTTCGTAACGTTTTAC 57.785 37.500 5.91 6.41 35.17 2.01
2126 3781 7.651704 AGTTAGGTAAGCTTTCGTAACGTTTTA 59.348 33.333 27.85 5.47 38.82 1.52
2127 3782 6.479990 AGTTAGGTAAGCTTTCGTAACGTTTT 59.520 34.615 27.85 16.55 38.82 2.43
2128 3783 5.985530 AGTTAGGTAAGCTTTCGTAACGTTT 59.014 36.000 27.85 16.80 38.82 3.60
2129 3784 5.532557 AGTTAGGTAAGCTTTCGTAACGTT 58.467 37.500 27.85 17.29 38.82 3.99
2130 3785 5.126396 AGTTAGGTAAGCTTTCGTAACGT 57.874 39.130 27.85 19.39 38.82 3.99
2131 3786 5.630680 TCAAGTTAGGTAAGCTTTCGTAACG 59.369 40.000 27.85 20.31 38.82 3.18
2132 3787 6.644181 AGTCAAGTTAGGTAAGCTTTCGTAAC 59.356 38.462 27.49 27.49 36.09 2.50
2133 3788 6.752168 AGTCAAGTTAGGTAAGCTTTCGTAA 58.248 36.000 3.20 9.24 0.00 3.18
2134 3789 6.336842 AGTCAAGTTAGGTAAGCTTTCGTA 57.663 37.500 3.20 2.37 0.00 3.43
2135 3790 5.211174 AGTCAAGTTAGGTAAGCTTTCGT 57.789 39.130 3.20 3.53 0.00 3.85
2136 3791 7.647907 TTTAGTCAAGTTAGGTAAGCTTTCG 57.352 36.000 3.20 0.00 0.00 3.46
2149 3804 9.244292 GGGGAGAGAATTTAATTTAGTCAAGTT 57.756 33.333 0.00 0.00 0.00 2.66
2150 3805 7.834681 GGGGGAGAGAATTTAATTTAGTCAAGT 59.165 37.037 0.00 0.00 0.00 3.16
2151 3806 8.226819 GGGGGAGAGAATTTAATTTAGTCAAG 57.773 38.462 0.00 0.00 0.00 3.02
2173 3828 1.822371 CCACCGTTTAAAATCAGGGGG 59.178 52.381 7.03 7.03 39.43 5.40
2174 3829 2.230266 CACCACCGTTTAAAATCAGGGG 59.770 50.000 0.00 0.00 0.00 4.79
2175 3830 2.230266 CCACCACCGTTTAAAATCAGGG 59.770 50.000 0.00 0.00 0.00 4.45
2176 3831 2.230266 CCCACCACCGTTTAAAATCAGG 59.770 50.000 0.00 0.00 0.00 3.86
2177 3832 2.352323 GCCCACCACCGTTTAAAATCAG 60.352 50.000 0.00 0.00 0.00 2.90
2178 3833 1.614413 GCCCACCACCGTTTAAAATCA 59.386 47.619 0.00 0.00 0.00 2.57
2179 3834 1.067425 GGCCCACCACCGTTTAAAATC 60.067 52.381 0.00 0.00 35.26 2.17
2180 3835 0.970640 GGCCCACCACCGTTTAAAAT 59.029 50.000 0.00 0.00 35.26 1.82
2181 3836 1.114119 GGGCCCACCACCGTTTAAAA 61.114 55.000 19.95 0.00 39.85 1.52
2182 3837 1.531128 GGGCCCACCACCGTTTAAA 60.531 57.895 19.95 0.00 39.85 1.52
2183 3838 2.115695 GGGCCCACCACCGTTTAA 59.884 61.111 19.95 0.00 39.85 1.52
2184 3839 3.969119 GGGGCCCACCACCGTTTA 61.969 66.667 26.86 0.00 42.91 2.01
2190 3845 4.048470 GAGGAAGGGGCCCACCAC 62.048 72.222 30.83 24.14 42.91 4.16
2197 3852 4.439901 AGAGGGGGAGGAAGGGGC 62.440 72.222 0.00 0.00 0.00 5.80
2198 3853 2.040359 GAGAGGGGGAGGAAGGGG 60.040 72.222 0.00 0.00 0.00 4.79
2199 3854 1.074850 GAGAGAGGGGGAGGAAGGG 60.075 68.421 0.00 0.00 0.00 3.95
2200 3855 1.074850 GGAGAGAGGGGGAGGAAGG 60.075 68.421 0.00 0.00 0.00 3.46
2201 3856 0.043334 TTGGAGAGAGGGGGAGGAAG 59.957 60.000 0.00 0.00 0.00 3.46
2202 3857 0.725133 ATTGGAGAGAGGGGGAGGAA 59.275 55.000 0.00 0.00 0.00 3.36
2203 3858 0.266152 GATTGGAGAGAGGGGGAGGA 59.734 60.000 0.00 0.00 0.00 3.71
2204 3859 0.766288 GGATTGGAGAGAGGGGGAGG 60.766 65.000 0.00 0.00 0.00 4.30
2205 3860 0.766288 GGGATTGGAGAGAGGGGGAG 60.766 65.000 0.00 0.00 0.00 4.30
2206 3861 1.318380 GGGATTGGAGAGAGGGGGA 59.682 63.158 0.00 0.00 0.00 4.81
2207 3862 1.004758 TGGGATTGGAGAGAGGGGG 59.995 63.158 0.00 0.00 0.00 5.40
2208 3863 1.704007 GCTGGGATTGGAGAGAGGGG 61.704 65.000 0.00 0.00 0.00 4.79
2209 3864 1.704007 GGCTGGGATTGGAGAGAGGG 61.704 65.000 0.00 0.00 0.00 4.30
2210 3865 0.693767 AGGCTGGGATTGGAGAGAGG 60.694 60.000 0.00 0.00 0.00 3.69
2211 3866 1.691434 GTAGGCTGGGATTGGAGAGAG 59.309 57.143 0.00 0.00 0.00 3.20
2212 3867 1.692762 GGTAGGCTGGGATTGGAGAGA 60.693 57.143 0.00 0.00 0.00 3.10
2213 3868 0.761802 GGTAGGCTGGGATTGGAGAG 59.238 60.000 0.00 0.00 0.00 3.20
2214 3869 0.044092 TGGTAGGCTGGGATTGGAGA 59.956 55.000 0.00 0.00 0.00 3.71
2215 3870 0.181350 GTGGTAGGCTGGGATTGGAG 59.819 60.000 0.00 0.00 0.00 3.86
2216 3871 1.622607 CGTGGTAGGCTGGGATTGGA 61.623 60.000 0.00 0.00 0.00 3.53
2217 3872 1.153168 CGTGGTAGGCTGGGATTGG 60.153 63.158 0.00 0.00 0.00 3.16
2218 3873 0.035439 AACGTGGTAGGCTGGGATTG 60.035 55.000 0.00 0.00 0.00 2.67
2219 3874 0.035439 CAACGTGGTAGGCTGGGATT 60.035 55.000 0.00 0.00 0.00 3.01
2220 3875 1.602237 CAACGTGGTAGGCTGGGAT 59.398 57.895 0.00 0.00 0.00 3.85
2221 3876 3.065306 CAACGTGGTAGGCTGGGA 58.935 61.111 0.00 0.00 0.00 4.37
2222 3877 2.746277 GCAACGTGGTAGGCTGGG 60.746 66.667 0.00 0.00 0.00 4.45
2223 3878 1.741770 GAGCAACGTGGTAGGCTGG 60.742 63.158 0.00 0.00 36.59 4.85
2224 3879 0.320771 AAGAGCAACGTGGTAGGCTG 60.321 55.000 0.00 0.00 36.59 4.85
2225 3880 0.396811 AAAGAGCAACGTGGTAGGCT 59.603 50.000 0.00 0.00 39.75 4.58
2226 3881 1.730612 GTAAAGAGCAACGTGGTAGGC 59.269 52.381 0.00 0.00 0.00 3.93
2227 3882 1.990563 CGTAAAGAGCAACGTGGTAGG 59.009 52.381 0.00 0.00 34.48 3.18
2234 3889 6.814343 ACATAAAGTAACGTAAAGAGCAACG 58.186 36.000 0.00 0.00 44.47 4.10
2235 3890 8.889000 CAAACATAAAGTAACGTAAAGAGCAAC 58.111 33.333 0.00 0.00 0.00 4.17
2236 3891 8.614346 ACAAACATAAAGTAACGTAAAGAGCAA 58.386 29.630 0.00 0.00 0.00 3.91
2237 3892 8.065407 CACAAACATAAAGTAACGTAAAGAGCA 58.935 33.333 0.00 0.00 0.00 4.26
2238 3893 8.066000 ACACAAACATAAAGTAACGTAAAGAGC 58.934 33.333 0.00 0.00 0.00 4.09
2239 3894 9.925268 AACACAAACATAAAGTAACGTAAAGAG 57.075 29.630 0.00 0.00 0.00 2.85
2244 3899 9.630310 CGTAAAACACAAACATAAAGTAACGTA 57.370 29.630 0.00 0.00 0.00 3.57
2245 3900 8.174422 ACGTAAAACACAAACATAAAGTAACGT 58.826 29.630 0.00 0.00 0.00 3.99
2246 3901 8.532408 ACGTAAAACACAAACATAAAGTAACG 57.468 30.769 0.00 0.00 0.00 3.18
2250 3905 9.872757 CATCTACGTAAAACACAAACATAAAGT 57.127 29.630 0.00 0.00 0.00 2.66
2251 3906 9.872757 ACATCTACGTAAAACACAAACATAAAG 57.127 29.630 0.00 0.00 0.00 1.85
2254 3909 8.649841 GCTACATCTACGTAAAACACAAACATA 58.350 33.333 0.00 0.00 0.00 2.29
2255 3910 7.171848 TGCTACATCTACGTAAAACACAAACAT 59.828 33.333 0.00 0.00 0.00 2.71
2256 3911 6.479331 TGCTACATCTACGTAAAACACAAACA 59.521 34.615 0.00 0.00 0.00 2.83
2257 3912 6.879962 TGCTACATCTACGTAAAACACAAAC 58.120 36.000 0.00 0.00 0.00 2.93
2258 3913 7.661127 ATGCTACATCTACGTAAAACACAAA 57.339 32.000 0.00 0.00 0.00 2.83
2259 3914 7.661127 AATGCTACATCTACGTAAAACACAA 57.339 32.000 0.00 0.00 0.00 3.33
2260 3915 8.030692 AGTAATGCTACATCTACGTAAAACACA 58.969 33.333 0.00 0.00 0.00 3.72
2261 3916 8.318876 CAGTAATGCTACATCTACGTAAAACAC 58.681 37.037 0.00 0.00 0.00 3.32
2262 3917 7.009815 GCAGTAATGCTACATCTACGTAAAACA 59.990 37.037 8.13 0.00 0.00 2.83
2263 3918 7.335491 GCAGTAATGCTACATCTACGTAAAAC 58.665 38.462 8.13 0.00 0.00 2.43
2264 3919 6.477688 GGCAGTAATGCTACATCTACGTAAAA 59.522 38.462 15.61 0.00 34.73 1.52
2265 3920 5.981315 GGCAGTAATGCTACATCTACGTAAA 59.019 40.000 15.61 0.00 34.73 2.01
2266 3921 5.526115 GGCAGTAATGCTACATCTACGTAA 58.474 41.667 15.61 0.00 34.73 3.18
2267 3922 4.319984 CGGCAGTAATGCTACATCTACGTA 60.320 45.833 15.61 0.00 34.73 3.57
2268 3923 3.550233 CGGCAGTAATGCTACATCTACGT 60.550 47.826 15.61 0.00 34.73 3.57
2269 3924 2.980476 CGGCAGTAATGCTACATCTACG 59.020 50.000 15.61 3.48 34.73 3.51
2270 3925 3.978687 ACGGCAGTAATGCTACATCTAC 58.021 45.455 15.61 0.00 34.73 2.59
2271 3926 4.665833 AACGGCAGTAATGCTACATCTA 57.334 40.909 15.61 0.00 34.73 1.98
2272 3927 3.543680 AACGGCAGTAATGCTACATCT 57.456 42.857 15.61 0.00 34.73 2.90
2273 3928 4.369182 ACTAACGGCAGTAATGCTACATC 58.631 43.478 15.61 0.00 34.73 3.06
2274 3929 4.402056 ACTAACGGCAGTAATGCTACAT 57.598 40.909 15.61 2.14 34.73 2.29
2275 3930 3.880047 ACTAACGGCAGTAATGCTACA 57.120 42.857 15.61 0.00 34.73 2.74
2276 3931 3.308866 CCAACTAACGGCAGTAATGCTAC 59.691 47.826 15.61 0.00 34.73 3.58
2277 3932 3.527533 CCAACTAACGGCAGTAATGCTA 58.472 45.455 15.61 0.00 34.73 3.49
2278 3933 2.356135 CCAACTAACGGCAGTAATGCT 58.644 47.619 15.61 0.00 34.73 3.79
2279 3934 1.400494 CCCAACTAACGGCAGTAATGC 59.600 52.381 6.61 6.61 0.00 3.56
2280 3935 1.400494 GCCCAACTAACGGCAGTAATG 59.600 52.381 0.00 0.00 45.01 1.90
2281 3936 1.746470 GCCCAACTAACGGCAGTAAT 58.254 50.000 0.00 0.00 45.01 1.89
2282 3937 3.236604 GCCCAACTAACGGCAGTAA 57.763 52.632 0.00 0.00 45.01 2.24
2287 3942 2.489751 GCATGCCCAACTAACGGC 59.510 61.111 6.36 0.00 45.92 5.68
2288 3943 3.196648 GGCATGCCCAACTAACGG 58.803 61.111 27.24 0.00 0.00 4.44
2317 3972 1.414181 CTACATGCCGAGTCCAGGATT 59.586 52.381 0.00 0.00 0.00 3.01
2364 4020 4.679639 GCAAATCCCTATATGCATGCATGG 60.680 45.833 37.43 29.61 38.63 3.66
2376 4032 4.210331 CAACCTAGCAAGCAAATCCCTAT 58.790 43.478 0.00 0.00 0.00 2.57
2385 4041 0.764890 ACTGACCAACCTAGCAAGCA 59.235 50.000 0.00 0.00 0.00 3.91
2391 4047 5.662674 AGCTAACTAACTGACCAACCTAG 57.337 43.478 0.00 0.00 0.00 3.02
2416 4072 1.438710 CAAGCACGCACGCACTAAC 60.439 57.895 0.00 0.00 0.00 2.34
2431 4087 2.100989 ACGAAGGGAGTAGCTACCAAG 58.899 52.381 20.31 7.71 36.80 3.61
2448 4108 6.001460 AGTTGGGTCATCTATTTTGAAACGA 58.999 36.000 0.00 0.00 0.00 3.85
2498 4158 5.368989 ACTCCGTTCCAAAATAGATGATCC 58.631 41.667 0.00 0.00 0.00 3.36
2499 4159 9.360093 CTATACTCCGTTCCAAAATAGATGATC 57.640 37.037 0.00 0.00 0.00 2.92
2500 4160 8.871125 ACTATACTCCGTTCCAAAATAGATGAT 58.129 33.333 0.00 0.00 0.00 2.45
2501 4161 8.246430 ACTATACTCCGTTCCAAAATAGATGA 57.754 34.615 0.00 0.00 0.00 2.92
2502 4162 9.408069 GTACTATACTCCGTTCCAAAATAGATG 57.592 37.037 0.00 0.00 0.00 2.90
2503 4163 9.139734 TGTACTATACTCCGTTCCAAAATAGAT 57.860 33.333 0.00 0.00 0.00 1.98
2504 4164 8.523915 TGTACTATACTCCGTTCCAAAATAGA 57.476 34.615 0.00 0.00 0.00 1.98
2505 4165 9.590451 TTTGTACTATACTCCGTTCCAAAATAG 57.410 33.333 0.00 0.00 0.00 1.73
2506 4166 9.590451 CTTTGTACTATACTCCGTTCCAAAATA 57.410 33.333 0.00 0.00 0.00 1.40
2507 4167 8.098912 ACTTTGTACTATACTCCGTTCCAAAAT 58.901 33.333 0.00 0.00 0.00 1.82
2508 4168 7.444299 ACTTTGTACTATACTCCGTTCCAAAA 58.556 34.615 0.00 0.00 0.00 2.44
2509 4169 6.996509 ACTTTGTACTATACTCCGTTCCAAA 58.003 36.000 0.00 0.00 0.00 3.28
2510 4170 6.594788 ACTTTGTACTATACTCCGTTCCAA 57.405 37.500 0.00 0.00 0.00 3.53
2511 4171 6.392354 CAACTTTGTACTATACTCCGTTCCA 58.608 40.000 0.00 0.00 0.00 3.53
2512 4172 5.809051 CCAACTTTGTACTATACTCCGTTCC 59.191 44.000 0.00 0.00 0.00 3.62
2513 4173 5.809051 CCCAACTTTGTACTATACTCCGTTC 59.191 44.000 0.00 0.00 0.00 3.95
2514 4174 5.246883 ACCCAACTTTGTACTATACTCCGTT 59.753 40.000 0.00 0.00 0.00 4.44
2515 4175 4.774200 ACCCAACTTTGTACTATACTCCGT 59.226 41.667 0.00 0.00 0.00 4.69
2516 4176 5.105635 TGACCCAACTTTGTACTATACTCCG 60.106 44.000 0.00 0.00 0.00 4.63
2517 4177 6.290294 TGACCCAACTTTGTACTATACTCC 57.710 41.667 0.00 0.00 0.00 3.85
2518 4178 7.783042 AGATGACCCAACTTTGTACTATACTC 58.217 38.462 0.00 0.00 0.00 2.59
2519 4179 7.735326 AGATGACCCAACTTTGTACTATACT 57.265 36.000 0.00 0.00 0.00 2.12
2524 4184 8.047310 CCTAAATAGATGACCCAACTTTGTACT 58.953 37.037 0.00 0.00 0.00 2.73
2525 4185 8.044908 TCCTAAATAGATGACCCAACTTTGTAC 58.955 37.037 0.00 0.00 0.00 2.90
2526 4186 8.153221 TCCTAAATAGATGACCCAACTTTGTA 57.847 34.615 0.00 0.00 0.00 2.41
2527 4187 7.027874 TCCTAAATAGATGACCCAACTTTGT 57.972 36.000 0.00 0.00 0.00 2.83
2528 4188 7.414098 CGTTCCTAAATAGATGACCCAACTTTG 60.414 40.741 0.00 0.00 0.00 2.77
2529 4189 6.598064 CGTTCCTAAATAGATGACCCAACTTT 59.402 38.462 0.00 0.00 0.00 2.66
2530 4190 6.113411 CGTTCCTAAATAGATGACCCAACTT 58.887 40.000 0.00 0.00 0.00 2.66
2531 4191 5.396436 CCGTTCCTAAATAGATGACCCAACT 60.396 44.000 0.00 0.00 0.00 3.16
2532 4192 4.814771 CCGTTCCTAAATAGATGACCCAAC 59.185 45.833 0.00 0.00 0.00 3.77
2548 4208 0.924823 TAGCTACTCCCTCCGTTCCT 59.075 55.000 0.00 0.00 0.00 3.36
2634 4295 6.373779 CCTCACTTATTACAACACAAGCTTG 58.626 40.000 24.84 24.84 0.00 4.01
2644 4305 2.352388 GCACGGCCTCACTTATTACAA 58.648 47.619 0.00 0.00 0.00 2.41
2689 4354 2.109425 AGCAAACCGGACATAAGGTC 57.891 50.000 9.46 0.00 46.20 3.85
2691 4356 2.711542 AGAAGCAAACCGGACATAAGG 58.288 47.619 9.46 0.00 0.00 2.69
2695 4360 2.568623 AGAAGAAGCAAACCGGACAT 57.431 45.000 9.46 0.00 0.00 3.06
2701 4366 2.495084 AGGTCGAAGAAGAAGCAAACC 58.505 47.619 0.00 0.00 39.69 3.27
2713 4378 1.514443 GCTCGGACGAAGGTCGAAG 60.514 63.158 4.40 0.00 43.74 3.79
2726 4391 2.098280 TCTCTTTCTCTCATTCGCTCGG 59.902 50.000 0.00 0.00 0.00 4.63
2727 4392 3.064682 TCTCTCTTTCTCTCATTCGCTCG 59.935 47.826 0.00 0.00 0.00 5.03
2742 4407 0.257616 ACCCTAGCGAGCTCTCTCTT 59.742 55.000 10.04 0.00 37.19 2.85
2753 4422 0.463116 AATGCCGGTAAACCCTAGCG 60.463 55.000 1.90 0.00 38.06 4.26


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

AutoCloner maintained by Alex Coulton.