Multiple sequence alignment - TraesCS1D01G431800

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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 TraesCS1D01G431800 chr1D 100.000 3329 0 0 1 3329 481716986 481720314 0.000000e+00 6148.0
1 TraesCS1D01G431800 chr1D 91.340 1351 103 10 1012 2354 481326857 481325513 0.000000e+00 1834.0
2 TraesCS1D01G431800 chr1D 98.352 364 4 2 2893 3256 49523643 49524004 3.620000e-179 638.0
3 TraesCS1D01G431800 chr1D 98.246 228 3 1 2667 2893 49523363 49523590 6.690000e-107 398.0
4 TraesCS1D01G431800 chr1D 97.414 232 5 1 2437 2667 4236202 4236433 8.660000e-106 394.0
5 TraesCS1D01G431800 chr1A 92.860 2381 122 33 1 2348 578543729 578546094 0.000000e+00 3411.0
6 TraesCS1D01G431800 chr1A 90.842 1365 109 10 995 2354 577720246 577718893 0.000000e+00 1814.0
7 TraesCS1D01G431800 chr1B 91.327 1372 97 13 990 2354 669703471 669702115 0.000000e+00 1855.0
8 TraesCS1D01G431800 chr1B 97.106 1071 31 0 1343 2413 670401213 670402283 0.000000e+00 1807.0
9 TraesCS1D01G431800 chr1B 89.551 1158 100 9 1198 2354 669462981 669461844 0.000000e+00 1448.0
10 TraesCS1D01G431800 chr1B 90.223 583 29 19 776 1347 670395698 670396263 0.000000e+00 736.0
11 TraesCS1D01G431800 chr1B 87.461 638 48 13 1 609 670391726 670392360 0.000000e+00 706.0
12 TraesCS1D01G431800 chr1B 87.500 280 13 6 295 554 670392752 670393029 1.500000e-78 303.0
13 TraesCS1D01G431800 chr1B 86.076 158 12 9 460 609 670392663 670392818 9.560000e-36 161.0
14 TraesCS1D01G431800 chr2D 85.169 1335 163 27 994 2304 28969161 28970484 0.000000e+00 1336.0
15 TraesCS1D01G431800 chr2D 86.405 1221 149 12 1084 2294 27970728 27969515 0.000000e+00 1319.0
16 TraesCS1D01G431800 chr2D 98.169 437 6 2 2893 3329 558933896 558933462 0.000000e+00 761.0
17 TraesCS1D01G431800 chr2D 93.077 260 11 6 2669 2923 22603445 22603188 1.130000e-99 374.0
18 TraesCS1D01G431800 chr2D 96.364 165 5 1 2730 2893 5268853 5269017 1.520000e-68 270.0
19 TraesCS1D01G431800 chr2D 83.774 265 40 2 59 320 497919524 497919260 7.130000e-62 248.0
20 TraesCS1D01G431800 chr2D 81.013 79 11 4 324 402 621029609 621029683 3.590000e-05 60.2
21 TraesCS1D01G431800 chr2A 85.942 1252 161 12 1078 2320 30869084 30870329 0.000000e+00 1323.0
22 TraesCS1D01G431800 chr2A 94.444 252 14 0 2416 2667 715297425 715297676 4.030000e-104 388.0
23 TraesCS1D01G431800 chr2A 81.481 270 46 3 54 320 642219239 642218971 5.590000e-53 219.0
24 TraesCS1D01G431800 chr2A 92.708 96 6 1 3232 3327 174436742 174436836 1.610000e-28 137.0
25 TraesCS1D01G431800 chr2A 94.737 76 2 2 2669 2743 174436348 174436422 2.100000e-22 117.0
26 TraesCS1D01G431800 chr2A 94.444 54 3 0 2671 2724 766449964 766449911 2.130000e-12 84.2
27 TraesCS1D01G431800 chr2A 91.667 60 4 1 2669 2727 37095770 37095829 7.650000e-12 82.4
28 TraesCS1D01G431800 chr2A 85.526 76 9 2 2669 2743 743551895 743551969 9.900000e-11 78.7
29 TraesCS1D01G431800 chr3D 97.325 673 7 2 2667 3329 591993164 591992493 0.000000e+00 1133.0
30 TraesCS1D01G431800 chr3D 98.419 253 4 0 2415 2667 309916759 309917011 2.360000e-121 446.0
31 TraesCS1D01G431800 chr3D 93.774 257 14 2 2411 2667 25785002 25784748 5.210000e-103 385.0
32 TraesCS1D01G431800 chr3D 85.246 61 8 1 349 408 64649793 64649733 9.970000e-06 62.1
33 TraesCS1D01G431800 chr7A 96.339 437 15 1 2893 3329 84759741 84760176 0.000000e+00 717.0
34 TraesCS1D01G431800 chr7A 95.035 423 17 4 2908 3329 107615664 107616083 0.000000e+00 662.0
35 TraesCS1D01G431800 chr7A 96.053 228 7 2 2667 2893 107615377 107615603 1.460000e-98 370.0
36 TraesCS1D01G431800 chr3A 95.881 437 16 2 2893 3329 202646042 202645608 0.000000e+00 706.0
37 TraesCS1D01G431800 chr3A 96.891 193 5 1 2702 2893 202655433 202655241 4.140000e-84 322.0
38 TraesCS1D01G431800 chr3A 83.395 271 31 10 57 319 207847010 207847274 4.290000e-59 239.0
39 TraesCS1D01G431800 chr3A 88.000 75 9 0 2669 2743 20895013 20894939 4.570000e-14 89.8
40 TraesCS1D01G431800 chr3A 94.340 53 3 0 2672 2724 736312166 736312114 7.650000e-12 82.4
41 TraesCS1D01G431800 chr6A 94.799 423 18 4 2908 3329 194716665 194717084 0.000000e+00 656.0
42 TraesCS1D01G431800 chr6A 94.819 193 8 2 2702 2893 194716413 194716604 1.940000e-77 300.0
43 TraesCS1D01G431800 chr6A 91.509 106 7 2 3222 3327 429391922 429391819 9.630000e-31 145.0
44 TraesCS1D01G431800 chr6A 75.884 311 58 15 338 639 422314252 422314554 3.460000e-30 143.0
45 TraesCS1D01G431800 chr6A 78.788 165 25 7 447 609 184928289 184928445 5.880000e-18 102.0
46 TraesCS1D01G431800 chr3B 92.391 368 20 6 2966 3327 757868484 757868849 4.920000e-143 518.0
47 TraesCS1D01G431800 chr3B 83.459 266 41 1 57 319 245514212 245514477 9.230000e-61 244.0
48 TraesCS1D01G431800 chr3B 79.688 128 15 7 369 487 403346693 403346568 7.650000e-12 82.4
49 TraesCS1D01G431800 chr3B 95.833 48 1 1 358 405 595274617 595274571 3.560000e-10 76.8
50 TraesCS1D01G431800 chr7D 97.628 253 5 1 2415 2667 579141127 579141378 1.830000e-117 433.0
51 TraesCS1D01G431800 chr7D 94.862 253 12 1 2415 2667 4729564 4729313 8.660000e-106 394.0
52 TraesCS1D01G431800 chr5D 96.032 252 10 0 2416 2667 15347034 15346783 8.600000e-111 411.0
53 TraesCS1D01G431800 chr5D 94.048 252 15 0 2416 2667 11244605 11244354 1.870000e-102 383.0
54 TraesCS1D01G431800 chr5D 94.048 252 14 1 2416 2667 7251744 7251494 6.740000e-102 381.0
55 TraesCS1D01G431800 chr6D 95.175 228 3 2 2667 2893 38532559 38532339 1.470000e-93 353.0
56 TraesCS1D01G431800 chr6D 96.774 186 5 1 2709 2893 131673181 131672996 3.230000e-80 309.0
57 TraesCS1D01G431800 chr7B 74.684 395 64 26 344 716 549917354 549916974 3.460000e-30 143.0
58 TraesCS1D01G431800 chr7B 87.179 78 9 1 516 593 582253121 582253045 1.650000e-13 87.9
59 TraesCS1D01G431800 chr7B 78.689 122 13 5 372 490 715249298 715249187 5.960000e-08 69.4
60 TraesCS1D01G431800 chr7B 88.000 50 4 2 430 479 599854255 599854302 1.290000e-04 58.4
61 TraesCS1D01G431800 chr6B 77.381 252 48 9 386 634 461129087 461128842 1.250000e-29 141.0
62 TraesCS1D01G431800 chr5A 84.158 101 10 6 522 620 311985764 311985668 3.540000e-15 93.5
63 TraesCS1D01G431800 chr4A 87.879 66 7 1 428 493 436824212 436824148 3.560000e-10 76.8
64 TraesCS1D01G431800 chr4B 81.395 86 11 5 406 490 58942777 58942696 7.710000e-07 65.8
65 TraesCS1D01G431800 chr4B 81.395 86 11 5 406 490 58980257 58980338 7.710000e-07 65.8
66 TraesCS1D01G431800 chr5B 97.368 38 0 1 346 383 615370513 615370477 2.770000e-06 63.9


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 TraesCS1D01G431800 chr1D 481716986 481720314 3328 False 6148.0 6148 100.000 1 3329 1 chr1D.!!$F2 3328
1 TraesCS1D01G431800 chr1D 481325513 481326857 1344 True 1834.0 1834 91.340 1012 2354 1 chr1D.!!$R1 1342
2 TraesCS1D01G431800 chr1D 49523363 49524004 641 False 518.0 638 98.299 2667 3256 2 chr1D.!!$F3 589
3 TraesCS1D01G431800 chr1A 578543729 578546094 2365 False 3411.0 3411 92.860 1 2348 1 chr1A.!!$F1 2347
4 TraesCS1D01G431800 chr1A 577718893 577720246 1353 True 1814.0 1814 90.842 995 2354 1 chr1A.!!$R1 1359
5 TraesCS1D01G431800 chr1B 669702115 669703471 1356 True 1855.0 1855 91.327 990 2354 1 chr1B.!!$R2 1364
6 TraesCS1D01G431800 chr1B 670401213 670402283 1070 False 1807.0 1807 97.106 1343 2413 1 chr1B.!!$F1 1070
7 TraesCS1D01G431800 chr1B 669461844 669462981 1137 True 1448.0 1448 89.551 1198 2354 1 chr1B.!!$R1 1156
8 TraesCS1D01G431800 chr1B 670391726 670396263 4537 False 476.5 736 87.815 1 1347 4 chr1B.!!$F2 1346
9 TraesCS1D01G431800 chr2D 28969161 28970484 1323 False 1336.0 1336 85.169 994 2304 1 chr2D.!!$F2 1310
10 TraesCS1D01G431800 chr2D 27969515 27970728 1213 True 1319.0 1319 86.405 1084 2294 1 chr2D.!!$R2 1210
11 TraesCS1D01G431800 chr2A 30869084 30870329 1245 False 1323.0 1323 85.942 1078 2320 1 chr2A.!!$F1 1242
12 TraesCS1D01G431800 chr3D 591992493 591993164 671 True 1133.0 1133 97.325 2667 3329 1 chr3D.!!$R3 662
13 TraesCS1D01G431800 chr7A 107615377 107616083 706 False 516.0 662 95.544 2667 3329 2 chr7A.!!$F2 662
14 TraesCS1D01G431800 chr6A 194716413 194717084 671 False 478.0 656 94.809 2702 3329 2 chr6A.!!$F3 627

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
799 4031 0.110056 TCGTTCCACTCGTCGCTTAC 60.11 55.0 0.0 0.0 0.0 2.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2638 5915 0.029433 GGGAGAAATGATTTCGCGGC 59.971 55.0 13.97 3.19 44.29 6.53 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
25 26 8.609478 CTCGAGACTAAACTAAATCTCAGTTC 57.391 38.462 6.58 0.00 37.97 3.01
45 46 3.351740 TCGCTGAATTTTAGCAATCCCA 58.648 40.909 12.92 0.00 41.18 4.37
50 51 6.092533 CGCTGAATTTTAGCAATCCCAATTTT 59.907 34.615 12.92 0.00 41.18 1.82
84 85 3.924922 ACCTCCGTCCCTAAATAGATGT 58.075 45.455 0.00 0.00 0.00 3.06
87 88 4.344102 CCTCCGTCCCTAAATAGATGTCAA 59.656 45.833 0.00 0.00 0.00 3.18
495 1249 8.075574 TGTTTCTGATGCATACAAAAAGTACAG 58.924 33.333 0.00 0.00 35.05 2.74
737 3125 5.228665 GTTTCAAAACTAGCTAGACTCGGT 58.771 41.667 27.45 1.08 36.03 4.69
750 3138 0.255318 ACTCGGTCGTCCAGATACCT 59.745 55.000 0.00 0.00 0.00 3.08
752 3140 1.872313 CTCGGTCGTCCAGATACCTAC 59.128 57.143 0.00 0.00 0.00 3.18
753 3141 0.950116 CGGTCGTCCAGATACCTACC 59.050 60.000 0.00 0.00 0.00 3.18
755 3143 1.955080 GGTCGTCCAGATACCTACCAG 59.045 57.143 0.00 0.00 0.00 4.00
799 4031 0.110056 TCGTTCCACTCGTCGCTTAC 60.110 55.000 0.00 0.00 0.00 2.34
854 4090 2.331893 CCGGCGTGCTCCATTTCAA 61.332 57.895 6.01 0.00 0.00 2.69
861 4097 1.126846 GTGCTCCATTTCAACTCGTCG 59.873 52.381 0.00 0.00 0.00 5.12
873 4109 0.166814 ACTCGTCGGTAGTAACGTGC 59.833 55.000 7.61 1.39 39.78 5.34
874 4110 0.854853 CTCGTCGGTAGTAACGTGCG 60.855 60.000 16.69 16.69 39.78 5.34
901 4137 0.524862 CAGCTCAAATGGCTCCACAC 59.475 55.000 0.00 0.00 38.03 3.82
902 4138 0.111061 AGCTCAAATGGCTCCACACA 59.889 50.000 0.00 0.00 34.70 3.72
948 4184 1.135859 GTCGGTATATACTCGGCGGTG 60.136 57.143 7.21 2.81 0.00 4.94
956 4192 2.486636 TACTCGGCGGTGCAAGACAG 62.487 60.000 7.21 0.00 0.00 3.51
957 4193 3.865929 CTCGGCGGTGCAAGACAGT 62.866 63.158 7.21 0.00 0.00 3.55
958 4194 3.414700 CGGCGGTGCAAGACAGTC 61.415 66.667 0.00 0.00 0.00 3.51
959 4195 3.050275 GGCGGTGCAAGACAGTCC 61.050 66.667 0.00 0.00 0.00 3.85
960 4196 2.280797 GCGGTGCAAGACAGTCCA 60.281 61.111 0.00 0.00 0.00 4.02
961 4197 2.607892 GCGGTGCAAGACAGTCCAC 61.608 63.158 0.00 0.00 0.00 4.02
962 4198 1.227527 CGGTGCAAGACAGTCCACA 60.228 57.895 9.76 0.00 0.00 4.17
971 4207 1.898472 AGACAGTCCACAGTCATCAGG 59.102 52.381 5.20 0.00 35.20 3.86
983 4224 1.819288 GTCATCAGGACCTCACTCGAA 59.181 52.381 0.00 0.00 40.83 3.71
985 4226 1.821753 CATCAGGACCTCACTCGAACT 59.178 52.381 0.00 0.00 0.00 3.01
986 4227 1.535833 TCAGGACCTCACTCGAACTC 58.464 55.000 0.00 0.00 0.00 3.01
988 4229 0.961358 AGGACCTCACTCGAACTCGG 60.961 60.000 0.00 0.00 40.29 4.63
991 4232 2.202492 CTCACTCGAACTCGGCCG 60.202 66.667 22.12 22.12 40.29 6.13
992 4233 4.415332 TCACTCGAACTCGGCCGC 62.415 66.667 23.51 5.12 40.29 6.53
998 4246 2.125106 GAACTCGGCCGCTCCATT 60.125 61.111 23.51 9.65 34.01 3.16
2389 5666 2.158957 TGACGAAGCTGGTCTTTTGTCT 60.159 45.455 16.47 0.00 39.34 3.41
2413 5690 8.015087 TCTTGACGAAAATTGTTGCAGTAATAG 58.985 33.333 0.00 0.00 0.00 1.73
2414 5691 7.197071 TGACGAAAATTGTTGCAGTAATAGT 57.803 32.000 0.00 0.00 0.00 2.12
2415 5692 7.295201 TGACGAAAATTGTTGCAGTAATAGTC 58.705 34.615 0.00 2.26 0.00 2.59
2416 5693 7.041712 TGACGAAAATTGTTGCAGTAATAGTCA 60.042 33.333 14.12 14.12 0.00 3.41
2417 5694 7.816640 ACGAAAATTGTTGCAGTAATAGTCAT 58.183 30.769 0.00 0.00 0.00 3.06
2418 5695 8.941977 ACGAAAATTGTTGCAGTAATAGTCATA 58.058 29.630 0.00 0.00 0.00 2.15
2419 5696 9.425893 CGAAAATTGTTGCAGTAATAGTCATAG 57.574 33.333 0.00 0.00 0.00 2.23
2434 5711 8.494016 AATAGTCATAGATTAAAATAGCCCGC 57.506 34.615 0.00 0.00 0.00 6.13
2435 5712 4.929808 AGTCATAGATTAAAATAGCCCGCG 59.070 41.667 0.00 0.00 0.00 6.46
2436 5713 4.927425 GTCATAGATTAAAATAGCCCGCGA 59.073 41.667 8.23 0.00 0.00 5.87
2437 5714 5.407387 GTCATAGATTAAAATAGCCCGCGAA 59.593 40.000 8.23 0.00 0.00 4.70
2438 5715 5.992829 TCATAGATTAAAATAGCCCGCGAAA 59.007 36.000 8.23 0.00 0.00 3.46
2439 5716 6.653320 TCATAGATTAAAATAGCCCGCGAAAT 59.347 34.615 8.23 0.00 0.00 2.17
2440 5717 7.820386 TCATAGATTAAAATAGCCCGCGAAATA 59.180 33.333 8.23 0.00 0.00 1.40
2441 5718 6.481954 AGATTAAAATAGCCCGCGAAATAG 57.518 37.500 8.23 0.00 0.00 1.73
2442 5719 4.477302 TTAAAATAGCCCGCGAAATAGC 57.523 40.909 8.23 1.83 0.00 2.97
2443 5720 1.235724 AAATAGCCCGCGAAATAGCC 58.764 50.000 8.23 0.00 0.00 3.93
2444 5721 0.949105 AATAGCCCGCGAAATAGCCG 60.949 55.000 8.23 0.00 0.00 5.52
2468 5745 3.948380 CTGCGCTATAGCTGCCTG 58.052 61.111 27.09 19.67 38.89 4.85
2469 5746 1.667191 CTGCGCTATAGCTGCCTGG 60.667 63.158 27.09 17.92 38.89 4.45
2470 5747 2.358003 GCGCTATAGCTGCCTGGG 60.358 66.667 21.98 6.20 39.32 4.45
2471 5748 2.872388 GCGCTATAGCTGCCTGGGA 61.872 63.158 21.98 0.00 39.32 4.37
2472 5749 1.291588 CGCTATAGCTGCCTGGGAG 59.708 63.158 21.98 11.32 39.32 4.30
2473 5750 1.003959 GCTATAGCTGCCTGGGAGC 60.004 63.158 30.25 30.25 38.21 4.70
2474 5751 1.676384 CTATAGCTGCCTGGGAGCC 59.324 63.158 32.88 17.30 37.12 4.70
2475 5752 0.835543 CTATAGCTGCCTGGGAGCCT 60.836 60.000 32.88 23.53 37.12 4.58
2476 5753 0.833834 TATAGCTGCCTGGGAGCCTC 60.834 60.000 32.88 9.74 37.12 4.70
2485 5762 4.593864 GGGAGCCTCGCCGCTAAG 62.594 72.222 0.00 0.00 39.87 2.18
2487 5764 4.214327 GAGCCTCGCCGCTAAGCT 62.214 66.667 0.00 0.00 39.87 3.74
2488 5765 2.833582 AGCCTCGCCGCTAAGCTA 60.834 61.111 0.00 0.00 37.32 3.32
2489 5766 2.148558 GAGCCTCGCCGCTAAGCTAT 62.149 60.000 0.00 0.00 39.87 2.97
2490 5767 2.024319 GCCTCGCCGCTAAGCTATG 61.024 63.158 0.00 0.00 0.00 2.23
2491 5768 1.373497 CCTCGCCGCTAAGCTATGG 60.373 63.158 0.00 0.00 0.00 2.74
2492 5769 2.024319 CTCGCCGCTAAGCTATGGC 61.024 63.158 8.04 8.04 44.09 4.40
2508 5785 2.729491 GCTGTTGCCGCGAAAACC 60.729 61.111 8.23 0.00 0.00 3.27
2509 5786 3.030652 CTGTTGCCGCGAAAACCT 58.969 55.556 8.23 0.00 0.00 3.50
2510 5787 1.082104 CTGTTGCCGCGAAAACCTC 60.082 57.895 8.23 0.00 0.00 3.85
2511 5788 1.781025 CTGTTGCCGCGAAAACCTCA 61.781 55.000 8.23 0.00 0.00 3.86
2512 5789 1.357334 GTTGCCGCGAAAACCTCAA 59.643 52.632 8.23 0.00 0.00 3.02
2513 5790 0.933047 GTTGCCGCGAAAACCTCAAC 60.933 55.000 8.23 6.25 0.00 3.18
2514 5791 1.377366 TTGCCGCGAAAACCTCAACA 61.377 50.000 8.23 0.00 0.00 3.33
2515 5792 1.169661 TGCCGCGAAAACCTCAACAT 61.170 50.000 8.23 0.00 0.00 2.71
2516 5793 0.800012 GCCGCGAAAACCTCAACATA 59.200 50.000 8.23 0.00 0.00 2.29
2517 5794 1.400494 GCCGCGAAAACCTCAACATAT 59.600 47.619 8.23 0.00 0.00 1.78
2518 5795 2.538939 GCCGCGAAAACCTCAACATATC 60.539 50.000 8.23 0.00 0.00 1.63
2519 5796 2.031683 CCGCGAAAACCTCAACATATCC 59.968 50.000 8.23 0.00 0.00 2.59
2520 5797 2.031683 CGCGAAAACCTCAACATATCCC 59.968 50.000 0.00 0.00 0.00 3.85
2521 5798 3.279434 GCGAAAACCTCAACATATCCCT 58.721 45.455 0.00 0.00 0.00 4.20
2522 5799 3.312697 GCGAAAACCTCAACATATCCCTC 59.687 47.826 0.00 0.00 0.00 4.30
2523 5800 4.770795 CGAAAACCTCAACATATCCCTCT 58.229 43.478 0.00 0.00 0.00 3.69
2524 5801 5.684030 GCGAAAACCTCAACATATCCCTCTA 60.684 44.000 0.00 0.00 0.00 2.43
2525 5802 6.346096 CGAAAACCTCAACATATCCCTCTAA 58.654 40.000 0.00 0.00 0.00 2.10
2526 5803 6.821665 CGAAAACCTCAACATATCCCTCTAAA 59.178 38.462 0.00 0.00 0.00 1.85
2527 5804 7.499232 CGAAAACCTCAACATATCCCTCTAAAT 59.501 37.037 0.00 0.00 0.00 1.40
2528 5805 8.525290 AAAACCTCAACATATCCCTCTAAATG 57.475 34.615 0.00 0.00 0.00 2.32
2529 5806 6.192970 ACCTCAACATATCCCTCTAAATGG 57.807 41.667 0.00 0.00 0.00 3.16
2530 5807 5.911178 ACCTCAACATATCCCTCTAAATGGA 59.089 40.000 0.00 0.00 34.54 3.41
2531 5808 6.564152 ACCTCAACATATCCCTCTAAATGGAT 59.436 38.462 0.00 0.00 43.68 3.41
2532 5809 7.739444 ACCTCAACATATCCCTCTAAATGGATA 59.261 37.037 1.06 1.06 45.24 2.59
2533 5810 8.605947 CCTCAACATATCCCTCTAAATGGATAA 58.394 37.037 2.63 0.00 44.55 1.75
2552 5829 2.831685 AAAAATCGGCAAAACCCTCC 57.168 45.000 0.00 0.00 33.26 4.30
2553 5830 1.710816 AAAATCGGCAAAACCCTCCA 58.289 45.000 0.00 0.00 33.26 3.86
2554 5831 1.256812 AAATCGGCAAAACCCTCCAG 58.743 50.000 0.00 0.00 33.26 3.86
2555 5832 0.404040 AATCGGCAAAACCCTCCAGA 59.596 50.000 0.00 0.00 33.26 3.86
2556 5833 0.404040 ATCGGCAAAACCCTCCAGAA 59.596 50.000 0.00 0.00 33.26 3.02
2557 5834 0.183971 TCGGCAAAACCCTCCAGAAA 59.816 50.000 0.00 0.00 33.26 2.52
2558 5835 1.203001 TCGGCAAAACCCTCCAGAAAT 60.203 47.619 0.00 0.00 33.26 2.17
2559 5836 1.202348 CGGCAAAACCCTCCAGAAATC 59.798 52.381 0.00 0.00 33.26 2.17
2560 5837 2.247358 GGCAAAACCCTCCAGAAATCA 58.753 47.619 0.00 0.00 0.00 2.57
2561 5838 2.833943 GGCAAAACCCTCCAGAAATCAT 59.166 45.455 0.00 0.00 0.00 2.45
2562 5839 3.118992 GGCAAAACCCTCCAGAAATCATC 60.119 47.826 0.00 0.00 0.00 2.92
2563 5840 3.766051 GCAAAACCCTCCAGAAATCATCT 59.234 43.478 0.00 0.00 39.68 2.90
2564 5841 4.142293 GCAAAACCCTCCAGAAATCATCTC 60.142 45.833 0.00 0.00 35.73 2.75
2565 5842 5.259632 CAAAACCCTCCAGAAATCATCTCT 58.740 41.667 0.00 0.00 35.73 3.10
2566 5843 4.769345 AACCCTCCAGAAATCATCTCTC 57.231 45.455 0.00 0.00 35.73 3.20
2567 5844 3.044894 ACCCTCCAGAAATCATCTCTCC 58.955 50.000 0.00 0.00 35.73 3.71
2568 5845 2.371510 CCCTCCAGAAATCATCTCTCCC 59.628 54.545 0.00 0.00 35.73 4.30
2569 5846 3.044156 CCTCCAGAAATCATCTCTCCCA 58.956 50.000 0.00 0.00 35.73 4.37
2570 5847 3.181456 CCTCCAGAAATCATCTCTCCCAC 60.181 52.174 0.00 0.00 35.73 4.61
2571 5848 2.774234 TCCAGAAATCATCTCTCCCACC 59.226 50.000 0.00 0.00 35.73 4.61
2572 5849 2.507058 CCAGAAATCATCTCTCCCACCA 59.493 50.000 0.00 0.00 35.73 4.17
2573 5850 3.433314 CCAGAAATCATCTCTCCCACCAG 60.433 52.174 0.00 0.00 35.73 4.00
2574 5851 3.453717 CAGAAATCATCTCTCCCACCAGA 59.546 47.826 0.00 0.00 35.73 3.86
2575 5852 4.080695 CAGAAATCATCTCTCCCACCAGAA 60.081 45.833 0.00 0.00 35.73 3.02
2576 5853 4.537688 AGAAATCATCTCTCCCACCAGAAA 59.462 41.667 0.00 0.00 30.46 2.52
2577 5854 4.934797 AATCATCTCTCCCACCAGAAAA 57.065 40.909 0.00 0.00 0.00 2.29
2578 5855 5.463051 AATCATCTCTCCCACCAGAAAAT 57.537 39.130 0.00 0.00 0.00 1.82
2579 5856 4.934797 TCATCTCTCCCACCAGAAAATT 57.065 40.909 0.00 0.00 0.00 1.82
2580 5857 5.261040 TCATCTCTCCCACCAGAAAATTT 57.739 39.130 0.00 0.00 0.00 1.82
2581 5858 5.644188 TCATCTCTCCCACCAGAAAATTTT 58.356 37.500 2.28 2.28 0.00 1.82
2582 5859 5.711976 TCATCTCTCCCACCAGAAAATTTTC 59.288 40.000 21.00 21.00 37.45 2.29
2583 5860 4.407365 TCTCTCCCACCAGAAAATTTTCC 58.593 43.478 24.01 9.23 37.92 3.13
2584 5861 3.153919 TCTCCCACCAGAAAATTTTCCG 58.846 45.455 24.01 15.78 37.92 4.30
2585 5862 1.616374 TCCCACCAGAAAATTTTCCGC 59.384 47.619 24.01 3.86 37.92 5.54
2586 5863 1.337728 CCCACCAGAAAATTTTCCGCC 60.338 52.381 24.01 3.51 37.92 6.13
2587 5864 1.342819 CCACCAGAAAATTTTCCGCCA 59.657 47.619 24.01 0.00 37.92 5.69
2588 5865 2.028203 CCACCAGAAAATTTTCCGCCAT 60.028 45.455 24.01 5.65 37.92 4.40
2589 5866 3.556843 CCACCAGAAAATTTTCCGCCATT 60.557 43.478 24.01 4.97 37.92 3.16
2590 5867 4.064388 CACCAGAAAATTTTCCGCCATTT 58.936 39.130 24.01 4.29 37.92 2.32
2591 5868 4.064388 ACCAGAAAATTTTCCGCCATTTG 58.936 39.130 24.01 14.81 37.92 2.32
2592 5869 3.120234 CCAGAAAATTTTCCGCCATTTGC 60.120 43.478 24.01 0.00 37.92 3.68
2593 5870 3.073678 AGAAAATTTTCCGCCATTTGCC 58.926 40.909 24.01 0.00 37.92 4.52
2594 5871 1.437625 AAATTTTCCGCCATTTGCCG 58.562 45.000 0.00 0.00 36.24 5.69
2595 5872 1.018752 AATTTTCCGCCATTTGCCGC 61.019 50.000 0.00 0.00 36.24 6.53
2596 5873 1.887344 ATTTTCCGCCATTTGCCGCT 61.887 50.000 0.00 0.00 36.24 5.52
2597 5874 1.244697 TTTTCCGCCATTTGCCGCTA 61.245 50.000 0.00 0.00 36.24 4.26
2598 5875 1.034838 TTTCCGCCATTTGCCGCTAT 61.035 50.000 0.00 0.00 36.24 2.97
2599 5876 1.034838 TTCCGCCATTTGCCGCTATT 61.035 50.000 0.00 0.00 36.24 1.73
2600 5877 1.299316 CCGCCATTTGCCGCTATTG 60.299 57.895 0.00 0.00 36.24 1.90
2601 5878 1.945662 CGCCATTTGCCGCTATTGC 60.946 57.895 0.00 0.00 36.24 3.56
2602 5879 1.592400 GCCATTTGCCGCTATTGCC 60.592 57.895 0.00 0.00 35.36 4.52
2603 5880 1.067916 CCATTTGCCGCTATTGCCC 59.932 57.895 0.00 0.00 35.36 5.36
2604 5881 1.674764 CCATTTGCCGCTATTGCCCA 61.675 55.000 0.00 0.00 35.36 5.36
2605 5882 0.528249 CATTTGCCGCTATTGCCCAC 60.528 55.000 0.00 0.00 35.36 4.61
2606 5883 0.684153 ATTTGCCGCTATTGCCCACT 60.684 50.000 0.00 0.00 35.36 4.00
2607 5884 0.034960 TTTGCCGCTATTGCCCACTA 60.035 50.000 0.00 0.00 35.36 2.74
2608 5885 0.182537 TTGCCGCTATTGCCCACTAT 59.817 50.000 0.00 0.00 35.36 2.12
2609 5886 0.534877 TGCCGCTATTGCCCACTATG 60.535 55.000 0.00 0.00 35.36 2.23
2610 5887 1.237285 GCCGCTATTGCCCACTATGG 61.237 60.000 0.00 0.00 37.25 2.74
2619 5896 3.923864 CCACTATGGCGGCCGCTA 61.924 66.667 45.23 42.13 41.60 4.26
2620 5897 2.343758 CACTATGGCGGCCGCTAT 59.656 61.111 43.70 43.70 44.40 2.97
2621 5898 1.589630 CACTATGGCGGCCGCTATA 59.410 57.895 41.64 41.64 42.29 1.31
2623 5900 2.577059 TATGGCGGCCGCTATAGC 59.423 61.111 41.59 29.45 42.29 2.97
2624 5901 1.982395 TATGGCGGCCGCTATAGCT 60.982 57.895 41.59 28.21 42.29 3.32
2625 5902 2.225791 TATGGCGGCCGCTATAGCTG 62.226 60.000 41.59 16.77 42.29 4.24
2630 5907 2.358003 GCCGCTATAGCTGCTGGG 60.358 66.667 27.86 19.26 45.80 4.45
2631 5908 2.872388 GCCGCTATAGCTGCTGGGA 61.872 63.158 27.86 0.00 45.80 4.37
2632 5909 1.291588 CCGCTATAGCTGCTGGGAG 59.708 63.158 21.98 7.61 39.32 4.30
2633 5910 1.181741 CCGCTATAGCTGCTGGGAGA 61.182 60.000 21.98 0.00 39.32 3.71
2634 5911 0.243365 CGCTATAGCTGCTGGGAGAG 59.757 60.000 21.98 4.64 39.32 3.20
2635 5912 0.607620 GCTATAGCTGCTGGGAGAGG 59.392 60.000 17.75 0.00 38.21 3.69
2636 5913 0.607620 CTATAGCTGCTGGGAGAGGC 59.392 60.000 13.43 0.00 0.00 4.70
2637 5914 0.833834 TATAGCTGCTGGGAGAGGCC 60.834 60.000 13.43 0.00 0.00 5.19
2650 5927 4.856801 AGGCCGCCGCGAAATCAT 62.857 61.111 15.93 0.00 35.02 2.45
2651 5928 3.887868 GGCCGCCGCGAAATCATT 61.888 61.111 15.93 0.00 35.02 2.57
2652 5929 2.102161 GCCGCCGCGAAATCATTT 59.898 55.556 15.93 0.00 0.00 2.32
2653 5930 1.939299 GCCGCCGCGAAATCATTTC 60.939 57.895 15.93 0.00 36.32 2.17
2654 5931 1.721487 CCGCCGCGAAATCATTTCT 59.279 52.632 15.93 0.00 37.52 2.52
2655 5932 0.316196 CCGCCGCGAAATCATTTCTC 60.316 55.000 15.93 0.00 37.52 2.87
2656 5933 0.316196 CGCCGCGAAATCATTTCTCC 60.316 55.000 8.23 0.00 37.52 3.71
2657 5934 0.029433 GCCGCGAAATCATTTCTCCC 59.971 55.000 8.23 0.00 37.52 4.30
2658 5935 0.304705 CCGCGAAATCATTTCTCCCG 59.695 55.000 8.23 7.85 37.52 5.14
2659 5936 0.316196 CGCGAAATCATTTCTCCCGC 60.316 55.000 0.00 6.25 37.52 6.13
2660 5937 0.316196 GCGAAATCATTTCTCCCGCG 60.316 55.000 8.50 0.00 37.52 6.46
2661 5938 1.286501 CGAAATCATTTCTCCCGCGA 58.713 50.000 8.23 0.00 37.52 5.87
2662 5939 1.867233 CGAAATCATTTCTCCCGCGAT 59.133 47.619 8.23 0.00 37.52 4.58
2663 5940 2.287915 CGAAATCATTTCTCCCGCGATT 59.712 45.455 8.23 0.00 37.52 3.34
2664 5941 3.242739 CGAAATCATTTCTCCCGCGATTT 60.243 43.478 8.23 1.37 38.61 2.17
2665 5942 4.672409 GAAATCATTTCTCCCGCGATTTT 58.328 39.130 8.23 0.00 36.65 1.82
2798 6086 2.415491 GCACCTGGGCTTATTTCGTTTC 60.415 50.000 0.00 0.00 0.00 2.78
2974 6315 3.632145 GGAAAACTTTTGCTCCTCTGTCA 59.368 43.478 0.00 0.00 0.00 3.58
3054 6395 0.253394 CTTTCCCCTCCTTCCTCCCT 60.253 60.000 0.00 0.00 0.00 4.20
3150 6491 5.608860 AGATAAGAACAGGGATAAGGGGAAG 59.391 44.000 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 3.761218 TGGGATTGCTAAAATTCAGCGAA 59.239 39.130 6.14 3.81 42.13 4.70
25 26 3.781079 TGGGATTGCTAAAATTCAGCG 57.219 42.857 7.32 0.00 42.13 5.18
50 51 7.919385 AGGGACGGAGGTAGTAATATTTTTA 57.081 36.000 0.00 0.00 0.00 1.52
495 1249 5.146482 TGTTTACTTTCTTGCGTACACAC 57.854 39.130 0.00 0.00 0.00 3.82
713 3100 4.323868 CCGAGTCTAGCTAGTTTTGAAACG 59.676 45.833 20.10 13.92 43.51 3.60
737 3125 4.395625 CATACTGGTAGGTATCTGGACGA 58.604 47.826 0.00 0.00 30.90 4.20
750 3138 5.395682 AAGTTTACTCGTGCATACTGGTA 57.604 39.130 0.00 0.00 0.00 3.25
752 3140 3.617263 GGAAGTTTACTCGTGCATACTGG 59.383 47.826 0.00 0.00 0.00 4.00
753 3141 4.495422 AGGAAGTTTACTCGTGCATACTG 58.505 43.478 0.00 0.00 0.00 2.74
755 3143 4.689345 ACAAGGAAGTTTACTCGTGCATAC 59.311 41.667 0.00 0.00 0.00 2.39
799 4031 0.250038 CGGCATACTCTGGGATGTGG 60.250 60.000 0.00 0.00 0.00 4.17
854 4090 0.166814 GCACGTTACTACCGACGAGT 59.833 55.000 0.00 0.00 41.53 4.18
861 4097 0.457337 CTGGGACGCACGTTACTACC 60.457 60.000 0.00 0.00 0.00 3.18
873 4109 1.081892 CATTTGAGCTGACTGGGACG 58.918 55.000 0.00 0.00 0.00 4.79
874 4110 1.457346 CCATTTGAGCTGACTGGGAC 58.543 55.000 0.00 0.00 0.00 4.46
948 4184 2.072298 GATGACTGTGGACTGTCTTGC 58.928 52.381 15.29 0.00 42.83 4.01
956 4192 1.205893 GAGGTCCTGATGACTGTGGAC 59.794 57.143 0.00 5.86 45.86 4.02
957 4193 1.203174 TGAGGTCCTGATGACTGTGGA 60.203 52.381 0.00 0.00 43.89 4.02
958 4194 1.066573 GTGAGGTCCTGATGACTGTGG 60.067 57.143 0.00 0.00 43.89 4.17
959 4195 1.898472 AGTGAGGTCCTGATGACTGTG 59.102 52.381 0.00 0.00 43.89 3.66
960 4196 2.175202 GAGTGAGGTCCTGATGACTGT 58.825 52.381 0.00 0.00 43.89 3.55
961 4197 1.133982 CGAGTGAGGTCCTGATGACTG 59.866 57.143 0.00 0.00 43.89 3.51
962 4198 1.004862 TCGAGTGAGGTCCTGATGACT 59.995 52.381 0.00 0.00 43.89 3.41
971 4207 1.153997 GCCGAGTTCGAGTGAGGTC 60.154 63.158 2.59 0.00 43.02 3.85
983 4224 2.735772 ATCAATGGAGCGGCCGAGT 61.736 57.895 33.48 16.13 40.66 4.18
985 4226 2.203056 CATCAATGGAGCGGCCGA 60.203 61.111 33.48 8.40 40.66 5.54
2007 5278 4.742201 GTCTGCCGGAGAAGCGCA 62.742 66.667 11.47 0.00 30.26 6.09
2181 5458 4.367023 GACCGCTGCACGTACCCA 62.367 66.667 0.00 0.00 41.42 4.51
2343 5620 2.660064 AAGAATCAGGTCGCCGGCT 61.660 57.895 26.68 1.35 0.00 5.52
2380 5657 6.034470 GCAACAATTTTCGTCAAGACAAAAGA 59.966 34.615 0.72 0.00 30.81 2.52
2389 5666 7.644490 ACTATTACTGCAACAATTTTCGTCAA 58.356 30.769 0.00 0.00 0.00 3.18
2413 5690 4.927425 TCGCGGGCTATTTTAATCTATGAC 59.073 41.667 6.13 0.00 0.00 3.06
2414 5691 5.142061 TCGCGGGCTATTTTAATCTATGA 57.858 39.130 6.13 0.00 0.00 2.15
2415 5692 5.856126 TTCGCGGGCTATTTTAATCTATG 57.144 39.130 6.13 0.00 0.00 2.23
2416 5693 7.201617 GCTATTTCGCGGGCTATTTTAATCTAT 60.202 37.037 6.13 0.00 0.00 1.98
2417 5694 6.091713 GCTATTTCGCGGGCTATTTTAATCTA 59.908 38.462 6.13 0.00 0.00 1.98
2418 5695 5.106673 GCTATTTCGCGGGCTATTTTAATCT 60.107 40.000 6.13 0.00 0.00 2.40
2419 5696 5.086727 GCTATTTCGCGGGCTATTTTAATC 58.913 41.667 6.13 0.00 0.00 1.75
2420 5697 4.082949 GGCTATTTCGCGGGCTATTTTAAT 60.083 41.667 6.13 0.00 0.00 1.40
2421 5698 3.251487 GGCTATTTCGCGGGCTATTTTAA 59.749 43.478 6.13 0.00 0.00 1.52
2422 5699 2.809696 GGCTATTTCGCGGGCTATTTTA 59.190 45.455 6.13 0.00 0.00 1.52
2423 5700 1.607148 GGCTATTTCGCGGGCTATTTT 59.393 47.619 6.13 0.00 0.00 1.82
2424 5701 1.235724 GGCTATTTCGCGGGCTATTT 58.764 50.000 6.13 0.00 0.00 1.40
2425 5702 0.949105 CGGCTATTTCGCGGGCTATT 60.949 55.000 6.13 0.00 0.00 1.73
2426 5703 1.374252 CGGCTATTTCGCGGGCTAT 60.374 57.895 6.13 0.00 0.00 2.97
2427 5704 2.028484 CGGCTATTTCGCGGGCTA 59.972 61.111 6.13 0.00 0.00 3.93
2434 5711 0.710567 CAGCTATCGCGGCTATTTCG 59.289 55.000 6.13 0.00 42.32 3.46
2455 5732 1.003959 GCTCCCAGGCAGCTATAGC 60.004 63.158 17.33 17.33 42.49 2.97
2456 5733 0.835543 AGGCTCCCAGGCAGCTATAG 60.836 60.000 1.24 0.00 44.19 1.31
2457 5734 0.833834 GAGGCTCCCAGGCAGCTATA 60.834 60.000 1.24 0.00 44.19 1.31
2458 5735 2.040043 AGGCTCCCAGGCAGCTAT 60.040 61.111 1.24 0.00 44.19 2.97
2459 5736 2.765807 GAGGCTCCCAGGCAGCTA 60.766 66.667 1.24 0.00 44.19 3.32
2468 5745 4.593864 CTTAGCGGCGAGGCTCCC 62.594 72.222 12.98 10.25 43.54 4.30
2470 5747 2.148558 ATAGCTTAGCGGCGAGGCTC 62.149 60.000 21.77 3.87 43.54 4.70
2471 5748 2.203771 ATAGCTTAGCGGCGAGGCT 61.204 57.895 21.81 21.81 46.88 4.58
2472 5749 2.024319 CATAGCTTAGCGGCGAGGC 61.024 63.158 12.98 9.10 37.29 4.70
2473 5750 1.373497 CCATAGCTTAGCGGCGAGG 60.373 63.158 12.98 0.00 37.29 4.63
2474 5751 2.024319 GCCATAGCTTAGCGGCGAG 61.024 63.158 12.98 0.00 34.26 5.03
2475 5752 2.029073 GCCATAGCTTAGCGGCGA 59.971 61.111 12.98 0.00 34.26 5.54
2490 5767 2.729491 GTTTTCGCGGCAACAGCC 60.729 61.111 6.13 0.00 45.19 4.85
2491 5768 2.729491 GGTTTTCGCGGCAACAGC 60.729 61.111 18.88 2.59 0.00 4.40
2492 5769 1.082104 GAGGTTTTCGCGGCAACAG 60.082 57.895 18.88 0.00 0.00 3.16
2493 5770 1.377366 TTGAGGTTTTCGCGGCAACA 61.377 50.000 18.88 4.47 0.00 3.33
2494 5771 0.933047 GTTGAGGTTTTCGCGGCAAC 60.933 55.000 6.13 9.59 0.00 4.17
2495 5772 1.357334 GTTGAGGTTTTCGCGGCAA 59.643 52.632 6.13 0.00 0.00 4.52
2496 5773 1.169661 ATGTTGAGGTTTTCGCGGCA 61.170 50.000 6.13 0.00 0.00 5.69
2497 5774 0.800012 TATGTTGAGGTTTTCGCGGC 59.200 50.000 6.13 0.00 0.00 6.53
2498 5775 2.031683 GGATATGTTGAGGTTTTCGCGG 59.968 50.000 6.13 0.00 0.00 6.46
2499 5776 2.031683 GGGATATGTTGAGGTTTTCGCG 59.968 50.000 0.00 0.00 0.00 5.87
2500 5777 3.279434 AGGGATATGTTGAGGTTTTCGC 58.721 45.455 0.00 0.00 0.00 4.70
2501 5778 4.770795 AGAGGGATATGTTGAGGTTTTCG 58.229 43.478 0.00 0.00 0.00 3.46
2502 5779 8.624776 CATTTAGAGGGATATGTTGAGGTTTTC 58.375 37.037 0.00 0.00 0.00 2.29
2503 5780 7.561356 CCATTTAGAGGGATATGTTGAGGTTTT 59.439 37.037 0.00 0.00 0.00 2.43
2504 5781 7.062957 CCATTTAGAGGGATATGTTGAGGTTT 58.937 38.462 0.00 0.00 0.00 3.27
2505 5782 6.389869 TCCATTTAGAGGGATATGTTGAGGTT 59.610 38.462 0.00 0.00 29.03 3.50
2506 5783 5.911178 TCCATTTAGAGGGATATGTTGAGGT 59.089 40.000 0.00 0.00 29.03 3.85
2507 5784 6.439636 TCCATTTAGAGGGATATGTTGAGG 57.560 41.667 0.00 0.00 29.03 3.86
2533 5810 2.037121 CTGGAGGGTTTTGCCGATTTTT 59.963 45.455 0.00 0.00 38.44 1.94
2534 5811 1.618343 CTGGAGGGTTTTGCCGATTTT 59.382 47.619 0.00 0.00 38.44 1.82
2535 5812 1.203001 TCTGGAGGGTTTTGCCGATTT 60.203 47.619 0.00 0.00 38.44 2.17
2536 5813 0.404040 TCTGGAGGGTTTTGCCGATT 59.596 50.000 0.00 0.00 38.44 3.34
2537 5814 0.404040 TTCTGGAGGGTTTTGCCGAT 59.596 50.000 0.00 0.00 38.44 4.18
2538 5815 0.183971 TTTCTGGAGGGTTTTGCCGA 59.816 50.000 0.00 0.00 38.44 5.54
2539 5816 1.202348 GATTTCTGGAGGGTTTTGCCG 59.798 52.381 0.00 0.00 38.44 5.69
2540 5817 2.247358 TGATTTCTGGAGGGTTTTGCC 58.753 47.619 0.00 0.00 0.00 4.52
2541 5818 3.766051 AGATGATTTCTGGAGGGTTTTGC 59.234 43.478 0.00 0.00 31.79 3.68
2542 5819 5.259632 AGAGATGATTTCTGGAGGGTTTTG 58.740 41.667 0.00 0.00 33.74 2.44
2543 5820 5.504853 GAGAGATGATTTCTGGAGGGTTTT 58.495 41.667 0.00 0.00 33.74 2.43
2544 5821 4.080072 GGAGAGATGATTTCTGGAGGGTTT 60.080 45.833 0.00 0.00 33.74 3.27
2545 5822 3.457749 GGAGAGATGATTTCTGGAGGGTT 59.542 47.826 0.00 0.00 33.74 4.11
2546 5823 3.044894 GGAGAGATGATTTCTGGAGGGT 58.955 50.000 0.00 0.00 33.74 4.34
2547 5824 2.371510 GGGAGAGATGATTTCTGGAGGG 59.628 54.545 0.00 0.00 33.74 4.30
2548 5825 3.044156 TGGGAGAGATGATTTCTGGAGG 58.956 50.000 0.00 0.00 33.74 4.30
2549 5826 3.181456 GGTGGGAGAGATGATTTCTGGAG 60.181 52.174 0.00 0.00 33.74 3.86
2550 5827 2.774234 GGTGGGAGAGATGATTTCTGGA 59.226 50.000 0.00 0.00 33.74 3.86
2551 5828 2.507058 TGGTGGGAGAGATGATTTCTGG 59.493 50.000 0.00 0.00 33.74 3.86
2552 5829 3.453717 TCTGGTGGGAGAGATGATTTCTG 59.546 47.826 0.00 0.00 33.74 3.02
2553 5830 3.729108 TCTGGTGGGAGAGATGATTTCT 58.271 45.455 0.00 0.00 37.41 2.52
2554 5831 4.494091 TTCTGGTGGGAGAGATGATTTC 57.506 45.455 0.00 0.00 0.00 2.17
2555 5832 4.934797 TTTCTGGTGGGAGAGATGATTT 57.065 40.909 0.00 0.00 0.00 2.17
2556 5833 4.934797 TTTTCTGGTGGGAGAGATGATT 57.065 40.909 0.00 0.00 0.00 2.57
2557 5834 5.463051 AATTTTCTGGTGGGAGAGATGAT 57.537 39.130 0.00 0.00 0.00 2.45
2558 5835 4.934797 AATTTTCTGGTGGGAGAGATGA 57.065 40.909 0.00 0.00 0.00 2.92
2559 5836 5.105595 GGAAAATTTTCTGGTGGGAGAGATG 60.106 44.000 25.86 0.00 37.35 2.90
2560 5837 5.019470 GGAAAATTTTCTGGTGGGAGAGAT 58.981 41.667 25.86 0.00 37.35 2.75
2561 5838 4.407365 GGAAAATTTTCTGGTGGGAGAGA 58.593 43.478 25.86 0.00 37.35 3.10
2562 5839 3.191371 CGGAAAATTTTCTGGTGGGAGAG 59.809 47.826 25.89 6.17 39.36 3.20
2563 5840 3.153919 CGGAAAATTTTCTGGTGGGAGA 58.846 45.455 25.89 0.00 39.36 3.71
2564 5841 2.352715 GCGGAAAATTTTCTGGTGGGAG 60.353 50.000 31.32 14.58 42.46 4.30
2565 5842 1.616374 GCGGAAAATTTTCTGGTGGGA 59.384 47.619 31.32 0.00 42.46 4.37
2566 5843 1.337728 GGCGGAAAATTTTCTGGTGGG 60.338 52.381 31.32 15.59 42.46 4.61
2567 5844 1.342819 TGGCGGAAAATTTTCTGGTGG 59.657 47.619 31.32 16.92 42.46 4.61
2568 5845 2.810439 TGGCGGAAAATTTTCTGGTG 57.190 45.000 31.32 19.20 42.46 4.17
2569 5846 4.064388 CAAATGGCGGAAAATTTTCTGGT 58.936 39.130 31.32 12.92 42.46 4.00
2570 5847 3.120234 GCAAATGGCGGAAAATTTTCTGG 60.120 43.478 31.32 22.60 42.46 3.86
2571 5848 3.120234 GGCAAATGGCGGAAAATTTTCTG 60.120 43.478 28.20 28.20 46.16 3.02
2572 5849 3.073678 GGCAAATGGCGGAAAATTTTCT 58.926 40.909 25.86 7.25 46.16 2.52
2573 5850 3.469899 GGCAAATGGCGGAAAATTTTC 57.530 42.857 20.51 20.51 46.16 2.29
2584 5861 1.592400 GGCAATAGCGGCAAATGGC 60.592 57.895 1.45 4.41 43.41 4.40
2585 5862 1.067916 GGGCAATAGCGGCAAATGG 59.932 57.895 1.45 0.00 43.41 3.16
2586 5863 0.528249 GTGGGCAATAGCGGCAAATG 60.528 55.000 1.45 0.00 43.41 2.32
2587 5864 0.684153 AGTGGGCAATAGCGGCAAAT 60.684 50.000 1.45 0.00 43.41 2.32
2588 5865 0.034960 TAGTGGGCAATAGCGGCAAA 60.035 50.000 1.45 0.00 43.41 3.68
2589 5866 0.182537 ATAGTGGGCAATAGCGGCAA 59.817 50.000 1.45 0.00 43.41 4.52
2590 5867 0.534877 CATAGTGGGCAATAGCGGCA 60.535 55.000 1.45 0.00 43.41 5.69
2591 5868 1.237285 CCATAGTGGGCAATAGCGGC 61.237 60.000 0.00 0.00 43.41 6.53
2592 5869 2.932663 CCATAGTGGGCAATAGCGG 58.067 57.895 0.00 0.00 43.41 5.52
2603 5880 0.458543 CTATAGCGGCCGCCATAGTG 60.459 60.000 40.29 26.48 43.17 2.74
2604 5881 1.890894 CTATAGCGGCCGCCATAGT 59.109 57.895 40.29 29.34 43.17 2.12
2605 5882 1.519455 GCTATAGCGGCCGCCATAG 60.519 63.158 42.63 42.63 42.74 2.23
2606 5883 2.577059 GCTATAGCGGCCGCCATA 59.423 61.111 44.47 37.39 43.17 2.74
2616 5893 0.607620 CCTCTCCCAGCAGCTATAGC 59.392 60.000 17.33 17.33 42.49 2.97
2617 5894 0.607620 GCCTCTCCCAGCAGCTATAG 59.392 60.000 0.00 0.00 0.00 1.31
2618 5895 0.833834 GGCCTCTCCCAGCAGCTATA 60.834 60.000 0.00 0.00 0.00 1.31
2619 5896 2.146061 GGCCTCTCCCAGCAGCTAT 61.146 63.158 0.00 0.00 0.00 2.97
2620 5897 2.765807 GGCCTCTCCCAGCAGCTA 60.766 66.667 0.00 0.00 0.00 3.32
2633 5910 4.856801 ATGATTTCGCGGCGGCCT 62.857 61.111 23.46 6.88 35.02 5.19
2634 5911 3.409959 AAATGATTTCGCGGCGGCC 62.410 57.895 23.46 9.54 35.02 6.13
2635 5912 1.939299 GAAATGATTTCGCGGCGGC 60.939 57.895 23.46 6.12 0.00 6.53
2636 5913 0.316196 GAGAAATGATTTCGCGGCGG 60.316 55.000 23.46 3.89 44.29 6.13
2637 5914 0.316196 GGAGAAATGATTTCGCGGCG 60.316 55.000 17.70 17.70 44.29 6.46
2638 5915 0.029433 GGGAGAAATGATTTCGCGGC 59.971 55.000 13.97 3.19 44.29 6.53
2639 5916 0.304705 CGGGAGAAATGATTTCGCGG 59.695 55.000 13.97 6.33 44.29 6.46
2640 5917 0.316196 GCGGGAGAAATGATTTCGCG 60.316 55.000 13.97 12.28 46.09 5.87
2641 5918 0.316196 CGCGGGAGAAATGATTTCGC 60.316 55.000 12.37 12.37 44.29 4.70
2642 5919 1.286501 TCGCGGGAGAAATGATTTCG 58.713 50.000 6.13 2.68 44.29 3.46
2643 5920 3.971032 AATCGCGGGAGAAATGATTTC 57.029 42.857 9.82 9.82 39.96 2.17
2644 5921 4.718940 AAAATCGCGGGAGAAATGATTT 57.281 36.364 6.13 0.00 40.05 2.17
2645 5922 4.881850 ACTAAAATCGCGGGAGAAATGATT 59.118 37.500 6.13 0.00 0.00 2.57
2646 5923 4.273480 CACTAAAATCGCGGGAGAAATGAT 59.727 41.667 6.13 0.00 0.00 2.45
2647 5924 3.621268 CACTAAAATCGCGGGAGAAATGA 59.379 43.478 6.13 0.00 0.00 2.57
2648 5925 3.374058 ACACTAAAATCGCGGGAGAAATG 59.626 43.478 6.13 4.26 0.00 2.32
2649 5926 3.606687 ACACTAAAATCGCGGGAGAAAT 58.393 40.909 6.13 0.00 0.00 2.17
2650 5927 2.997986 GACACTAAAATCGCGGGAGAAA 59.002 45.455 6.13 0.00 0.00 2.52
2651 5928 2.232941 AGACACTAAAATCGCGGGAGAA 59.767 45.455 6.13 0.00 0.00 2.87
2652 5929 1.822990 AGACACTAAAATCGCGGGAGA 59.177 47.619 6.13 0.00 0.00 3.71
2653 5930 2.295253 AGACACTAAAATCGCGGGAG 57.705 50.000 6.13 0.00 0.00 4.30
2654 5931 2.100252 CCTAGACACTAAAATCGCGGGA 59.900 50.000 6.13 4.03 0.00 5.14
2655 5932 2.159142 ACCTAGACACTAAAATCGCGGG 60.159 50.000 6.13 0.00 0.00 6.13
2656 5933 3.114065 GACCTAGACACTAAAATCGCGG 58.886 50.000 6.13 0.00 0.00 6.46
2657 5934 4.030134 AGACCTAGACACTAAAATCGCG 57.970 45.455 0.00 0.00 0.00 5.87
2658 5935 4.995124 TGAGACCTAGACACTAAAATCGC 58.005 43.478 0.00 0.00 0.00 4.58
2659 5936 6.197364 ACTGAGACCTAGACACTAAAATCG 57.803 41.667 0.00 0.00 0.00 3.34
2660 5937 6.093771 TCGACTGAGACCTAGACACTAAAATC 59.906 42.308 0.00 0.00 0.00 2.17
2661 5938 5.944599 TCGACTGAGACCTAGACACTAAAAT 59.055 40.000 0.00 0.00 0.00 1.82
2662 5939 5.180868 GTCGACTGAGACCTAGACACTAAAA 59.819 44.000 8.70 0.00 35.22 1.52
2663 5940 4.694509 GTCGACTGAGACCTAGACACTAAA 59.305 45.833 8.70 0.00 35.22 1.85
2664 5941 4.020396 AGTCGACTGAGACCTAGACACTAA 60.020 45.833 19.30 0.00 41.83 2.24
2665 5942 3.514706 AGTCGACTGAGACCTAGACACTA 59.485 47.826 19.30 0.00 41.83 2.74
2974 6315 0.399376 GGTGGGGGTTCAGGGTTTTT 60.399 55.000 0.00 0.00 0.00 1.94
3054 6395 2.040606 GTAGGGGAGGCAGGGACA 59.959 66.667 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.