Multiple sequence alignment - TraesCS3D01G269000

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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 TraesCS3D01G269000 chr3D 100.000 5929 0 0 944 6872 373810711 373804783 0.000000e+00 10949.0
1 TraesCS3D01G269000 chr3D 100.000 706 0 0 1 706 373811654 373810949 0.000000e+00 1304.0
2 TraesCS3D01G269000 chr3D 98.684 228 3 0 4866 5093 1305478 1305251 8.300000e-109 405.0
3 TraesCS3D01G269000 chr3D 91.429 245 19 2 5 248 606920861 606920618 1.100000e-87 335.0
4 TraesCS3D01G269000 chr3D 79.927 274 32 18 5068 5333 438263731 438263989 5.480000e-41 180.0
5 TraesCS3D01G269000 chr3A 96.849 3332 65 16 1260 4560 495256005 495252683 0.000000e+00 5535.0
6 TraesCS3D01G269000 chr3A 96.418 698 17 3 5355 6050 495252304 495251613 0.000000e+00 1144.0
7 TraesCS3D01G269000 chr3A 93.496 492 28 3 6383 6872 495249227 495248738 0.000000e+00 728.0
8 TraesCS3D01G269000 chr3A 97.531 324 8 0 945 1268 495256807 495256484 7.790000e-154 555.0
9 TraesCS3D01G269000 chr3A 95.253 316 13 1 393 706 495257136 495256821 3.700000e-137 499.0
10 TraesCS3D01G269000 chr3A 95.484 310 13 1 4558 4866 495252602 495252293 1.720000e-135 494.0
11 TraesCS3D01G269000 chr3A 93.284 268 14 4 6044 6310 495249489 495249225 6.460000e-105 392.0
12 TraesCS3D01G269000 chr3A 91.954 87 3 3 6303 6387 86403123 86403207 1.210000e-22 119.0
13 TraesCS3D01G269000 chr3A 92.593 81 1 3 6307 6386 83731827 83731751 2.030000e-20 111.0
14 TraesCS3D01G269000 chr3A 88.235 51 6 0 1535 1585 19638250 19638300 2.070000e-05 62.1
15 TraesCS3D01G269000 chr3B 97.247 3197 54 14 1693 4865 487497388 487494202 0.000000e+00 5385.0
16 TraesCS3D01G269000 chr3B 93.326 959 51 7 5355 6309 487494212 487493263 0.000000e+00 1404.0
17 TraesCS3D01G269000 chr3B 96.101 436 16 1 1260 1695 487497992 487497558 0.000000e+00 710.0
18 TraesCS3D01G269000 chr3B 96.942 327 6 2 945 1268 487498800 487498475 4.690000e-151 545.0
19 TraesCS3D01G269000 chr3B 90.883 351 7 2 356 706 487499138 487498813 1.360000e-121 448.0
20 TraesCS3D01G269000 chr3B 91.131 327 27 2 6386 6711 487493261 487492936 6.330000e-120 442.0
21 TraesCS3D01G269000 chr3B 89.888 89 4 3 6300 6387 254234943 254235027 7.290000e-20 110.0
22 TraesCS3D01G269000 chr5D 98.684 228 3 0 4866 5093 329429334 329429107 8.300000e-109 405.0
23 TraesCS3D01G269000 chr5D 93.574 249 16 0 5083 5331 496735451 496735699 8.420000e-99 372.0
24 TraesCS3D01G269000 chr5D 85.232 237 34 1 6637 6872 412624136 412623900 6.890000e-60 243.0
25 TraesCS3D01G269000 chr5D 83.193 238 35 5 6638 6872 539469351 539469116 5.400000e-51 213.0
26 TraesCS3D01G269000 chr5D 89.437 142 15 0 1677 1818 180473674 180473815 5.480000e-41 180.0
27 TraesCS3D01G269000 chr5D 85.714 161 20 2 1683 1841 345851039 345850880 4.260000e-37 167.0
28 TraesCS3D01G269000 chr5D 100.000 28 0 0 1535 1562 482419959 482419986 1.200000e-02 52.8
29 TraesCS3D01G269000 chr2D 95.618 251 11 0 5082 5332 131306001 131305751 2.980000e-108 403.0
30 TraesCS3D01G269000 chr2D 89.965 289 21 6 5 290 537456021 537456304 3.920000e-97 366.0
31 TraesCS3D01G269000 chr2D 88.889 288 23 5 1535 1818 367231163 367231445 5.100000e-91 346.0
32 TraesCS3D01G269000 chr2D 87.797 295 27 7 5 290 373610816 373611110 3.070000e-88 337.0
33 TraesCS3D01G269000 chr2D 87.797 295 27 7 5 290 373613172 373613466 3.070000e-88 337.0
34 TraesCS3D01G269000 chr2D 77.333 225 32 10 1563 1771 517691875 517692096 1.570000e-21 115.0
35 TraesCS3D01G269000 chr1D 95.257 253 12 0 5077 5329 50046630 50046882 1.070000e-107 401.0
36 TraesCS3D01G269000 chr1D 93.385 257 15 2 5077 5332 75854012 75853757 5.030000e-101 379.0
37 TraesCS3D01G269000 chr1D 96.507 229 7 1 4866 5093 75855282 75855054 1.810000e-100 377.0
38 TraesCS3D01G269000 chr1D 95.595 227 9 1 4868 5093 50045380 50045606 5.070000e-96 363.0
39 TraesCS3D01G269000 chr4A 94.094 254 15 0 5077 5330 641002210 641002463 3.010000e-103 387.0
40 TraesCS3D01G269000 chr4A 92.544 228 17 0 4866 5093 641000968 641001195 1.850000e-85 327.0
41 TraesCS3D01G269000 chr4A 92.683 82 1 3 6306 6386 35625877 35625800 5.630000e-21 113.0
42 TraesCS3D01G269000 chr4A 83.051 118 7 7 6516 6621 705534392 705534276 2.040000e-15 95.3
43 TraesCS3D01G269000 chr4A 84.375 64 8 2 6016 6078 6016289 6016227 2.070000e-05 62.1
44 TraesCS3D01G269000 chr6D 95.102 245 11 1 5088 5332 469368709 469368466 1.080000e-102 385.0
45 TraesCS3D01G269000 chr6D 96.507 229 7 1 4866 5093 469369976 469369748 1.810000e-100 377.0
46 TraesCS3D01G269000 chr6D 87.797 295 25 9 5 290 386161115 386160823 1.100000e-87 335.0
47 TraesCS3D01G269000 chr6D 87.153 288 32 4 5 290 403404081 403403797 8.600000e-84 322.0
48 TraesCS3D01G269000 chr6D 86.532 297 28 10 5 290 386158720 386158425 4.000000e-82 316.0
49 TraesCS3D01G269000 chr6D 90.141 142 14 0 1677 1818 460588154 460588013 1.180000e-42 185.0
50 TraesCS3D01G269000 chr6D 86.928 153 18 1 1681 1833 430040249 430040099 3.300000e-38 171.0
51 TraesCS3D01G269000 chr2A 90.753 292 21 6 1532 1818 497444479 497444769 1.080000e-102 385.0
52 TraesCS3D01G269000 chr2A 92.946 241 16 1 5082 5322 433712416 433712655 3.940000e-92 350.0
53 TraesCS3D01G269000 chr2A 90.625 224 21 0 4866 5089 433711169 433711392 1.450000e-76 298.0
54 TraesCS3D01G269000 chr2A 78.648 281 32 18 6379 6638 722766804 722767077 1.980000e-35 161.0
55 TraesCS3D01G269000 chr2A 78.214 280 35 16 6379 6638 722758268 722758541 9.230000e-34 156.0
56 TraesCS3D01G269000 chr2A 78.136 279 37 17 6379 6638 722761113 722761386 9.230000e-34 156.0
57 TraesCS3D01G269000 chr2A 78.136 279 37 17 6379 6638 722763958 722764231 9.230000e-34 156.0
58 TraesCS3D01G269000 chr2A 91.765 85 2 3 6303 6386 76356378 76356298 5.630000e-21 113.0
59 TraesCS3D01G269000 chr2A 90.588 85 3 4 6303 6386 688971625 688971545 2.620000e-19 108.0
60 TraesCS3D01G269000 chr2B 90.169 295 20 7 1532 1818 436030550 436030843 6.510000e-100 375.0
61 TraesCS3D01G269000 chr1A 96.444 225 8 0 4869 5093 560439265 560439041 8.420000e-99 372.0
62 TraesCS3D01G269000 chr1A 92.941 255 17 1 5077 5331 560437810 560437557 3.030000e-98 370.0
63 TraesCS3D01G269000 chr4B 94.239 243 12 2 5089 5331 348147018 348146778 3.030000e-98 370.0
64 TraesCS3D01G269000 chr4B 100.000 28 0 0 6258 6285 438597815 438597788 1.200000e-02 52.8
65 TraesCS3D01G269000 chr7D 91.057 246 19 3 5 248 438691720 438691964 5.140000e-86 329.0
66 TraesCS3D01G269000 chr7D 84.615 234 33 3 6641 6872 220251108 220250876 5.360000e-56 230.0
67 TraesCS3D01G269000 chr7D 78.868 265 32 17 5077 5331 83375568 83375318 2.570000e-34 158.0
68 TraesCS3D01G269000 chr7D 86.607 112 12 3 6380 6488 382289204 382289315 3.370000e-23 121.0
69 TraesCS3D01G269000 chr7D 75.000 276 32 20 6380 6621 150676504 150676776 7.340000e-15 93.5
70 TraesCS3D01G269000 chr7D 82.203 118 8 7 6516 6621 528549331 528549215 9.490000e-14 89.8
71 TraesCS3D01G269000 chr7A 93.304 224 13 2 4862 5085 38946624 38946845 5.140000e-86 329.0
72 TraesCS3D01G269000 chr7A 84.746 118 14 4 6380 6493 430326066 430326183 1.570000e-21 115.0
73 TraesCS3D01G269000 chr1B 86.411 287 35 3 5 290 133164313 133164030 1.860000e-80 311.0
74 TraesCS3D01G269000 chr1B 84.581 227 34 1 6641 6866 507847100 507847326 2.490000e-54 224.0
75 TraesCS3D01G269000 chr1B 92.683 82 1 3 6306 6386 112863575 112863652 5.630000e-21 113.0
76 TraesCS3D01G269000 chr1B 83.051 118 7 7 6516 6621 189343865 189343749 2.040000e-15 95.3
77 TraesCS3D01G269000 chr6B 86.555 238 27 5 6638 6872 276217153 276216918 2.460000e-64 257.0
78 TraesCS3D01G269000 chr5B 84.255 235 34 3 6640 6872 451150934 451151167 6.930000e-55 226.0
79 TraesCS3D01G269000 chr5B 94.737 76 2 1 6304 6379 149315650 149315723 4.350000e-22 117.0
80 TraesCS3D01G269000 chr5B 86.111 108 13 2 6376 6481 184755425 184755318 1.570000e-21 115.0
81 TraesCS3D01G269000 chr5B 83.051 118 7 7 6516 6621 671369462 671369578 2.040000e-15 95.3
82 TraesCS3D01G269000 chr7B 83.761 234 37 1 6640 6872 32551132 32550899 3.230000e-53 220.0
83 TraesCS3D01G269000 chr7B 83.471 121 10 6 6526 6638 25327468 25327350 3.390000e-18 104.0
84 TraesCS3D01G269000 chr7B 83.051 118 7 7 6516 6621 202766632 202766516 2.040000e-15 95.3
85 TraesCS3D01G269000 chr5A 83.613 238 33 6 6638 6871 480272356 480272591 1.160000e-52 219.0
86 TraesCS3D01G269000 chr5A 90.000 90 2 5 6299 6386 646832747 646832831 7.290000e-20 110.0
87 TraesCS3D01G269000 chr6A 85.075 67 7 3 6013 6078 489841806 489841742 1.600000e-06 65.8
88 TraesCS3D01G269000 chr4D 96.970 33 1 0 6258 6290 355279535 355279503 1.000000e-03 56.5


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 TraesCS3D01G269000 chr3D 373804783 373811654 6871 True 6126.500000 10949 100.000000 1 6872 2 chr3D.!!$R3 6871
1 TraesCS3D01G269000 chr3A 495248738 495257136 8398 True 1335.285714 5535 95.473571 393 6872 7 chr3A.!!$R2 6479
2 TraesCS3D01G269000 chr3B 487492936 487499138 6202 True 1489.000000 5385 94.271667 356 6711 6 chr3B.!!$R1 6355
3 TraesCS3D01G269000 chr2D 373610816 373613466 2650 False 337.000000 337 87.797000 5 290 2 chr2D.!!$F4 285
4 TraesCS3D01G269000 chr1D 50045380 50046882 1502 False 382.000000 401 95.426000 4868 5329 2 chr1D.!!$F1 461
5 TraesCS3D01G269000 chr1D 75853757 75855282 1525 True 378.000000 379 94.946000 4866 5332 2 chr1D.!!$R1 466
6 TraesCS3D01G269000 chr4A 641000968 641002463 1495 False 357.000000 387 93.319000 4866 5330 2 chr4A.!!$F1 464
7 TraesCS3D01G269000 chr6D 469368466 469369976 1510 True 381.000000 385 95.804500 4866 5332 2 chr6D.!!$R5 466
8 TraesCS3D01G269000 chr6D 386158425 386161115 2690 True 325.500000 335 87.164500 5 290 2 chr6D.!!$R4 285
9 TraesCS3D01G269000 chr2A 433711169 433712655 1486 False 324.000000 350 91.785500 4866 5322 2 chr2A.!!$F2 456
10 TraesCS3D01G269000 chr1A 560437557 560439265 1708 True 371.000000 372 94.692500 4869 5331 2 chr1A.!!$R1 462

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
349 359 0.101939 GGTCCCCGCGTTAGAGTTAG 59.898 60.00 4.92 0.0 0.00 2.34 F
596 608 0.168128 GAATCCCACGAACCAAAGCG 59.832 55.00 0.00 0.0 0.00 4.68 F
2148 3341 0.184692 TGTGGGAGTGCAATGGTTGA 59.815 50.00 0.00 0.0 0.00 3.18 F
3016 4278 5.411831 TGTATTCTGTTGATGCTCTGTCT 57.588 39.13 0.00 0.0 0.00 3.41 F
4228 5512 1.111277 AAATGATTTAGTGCCCCGGC 58.889 50.00 0.00 0.0 42.35 6.13 F
4307 5591 0.679640 CCCCAACACACACACACACT 60.680 55.00 0.00 0.0 0.00 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2057 3240 3.884091 AGAGAGAGATTGCCATGCATTTC 59.116 43.478 0.0 0.0 38.76 2.17 R
2477 3670 0.675083 CACTTGGGCAAGCAATGTCA 59.325 50.000 0.0 0.0 41.99 3.58 R
3307 4569 3.057969 TGAGTCCATGTTAGTGCCAAG 57.942 47.619 0.0 0.0 0.00 3.61 R
4303 5587 2.136026 AGAGGAAAGGGGTGAAAGTGT 58.864 47.619 0.0 0.0 0.00 3.55 R
5622 9266 0.318441 CGAGGATGTCACGCCCATAT 59.682 55.000 0.0 0.0 0.00 1.78 R
6052 9696 2.996621 CGACCCAAACAAACAAAAAGCA 59.003 40.909 0.0 0.0 0.00 3.91 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
43 44 0.107268 GGACACGTTGTACCCTTGGT 59.893 55.000 0.00 0.00 40.16 3.67
46 47 1.487558 ACACGTTGTACCCTTGGTCTT 59.512 47.619 0.00 0.00 37.09 3.01
97 99 5.440234 AACTCATGACGACTAATAGCGAT 57.560 39.130 10.15 0.00 0.00 4.58
101 103 3.826236 TGACGACTAATAGCGATAGGC 57.174 47.619 10.15 0.00 44.05 3.93
170 173 1.337118 CAGTATCTCAGGGAGGAGCC 58.663 60.000 0.00 0.00 34.84 4.70
181 184 2.363925 AGGAGCCCCCGTAGTCAC 60.364 66.667 0.00 0.00 40.87 3.67
187 190 2.683933 CCCCGTAGTCACTGCCCT 60.684 66.667 0.00 0.00 0.00 5.19
189 192 1.982395 CCCGTAGTCACTGCCCTGA 60.982 63.158 0.00 0.00 0.00 3.86
204 207 1.187087 CCTGAGGAGTAGGCGAGTTT 58.813 55.000 0.00 0.00 0.00 2.66
219 222 1.725164 GAGTTTGCCGAACCTCGTTAG 59.275 52.381 0.00 0.00 38.40 2.34
227 230 3.000727 CCGAACCTCGTTAGCAAATCTT 58.999 45.455 0.00 0.00 38.40 2.40
229 232 3.678072 CGAACCTCGTTAGCAAATCTTGA 59.322 43.478 0.00 0.00 34.72 3.02
239 242 6.546395 GTTAGCAAATCTTGATGTCGTCATT 58.454 36.000 0.00 0.00 36.54 2.57
240 243 7.464045 CGTTAGCAAATCTTGATGTCGTCATTA 60.464 37.037 0.00 0.00 36.54 1.90
241 244 6.932356 AGCAAATCTTGATGTCGTCATTAT 57.068 33.333 0.00 0.00 36.54 1.28
242 245 6.722301 AGCAAATCTTGATGTCGTCATTATG 58.278 36.000 0.00 0.00 36.54 1.90
243 246 5.397534 GCAAATCTTGATGTCGTCATTATGC 59.602 40.000 0.00 0.32 36.54 3.14
244 247 6.722301 CAAATCTTGATGTCGTCATTATGCT 58.278 36.000 0.00 0.00 36.54 3.79
245 248 5.919272 ATCTTGATGTCGTCATTATGCTG 57.081 39.130 0.00 0.00 36.54 4.41
255 265 3.521560 GTCATTATGCTGTGTTCCTCGA 58.478 45.455 0.00 0.00 0.00 4.04
274 284 2.755650 GATGGATCGATTGCGTACCTT 58.244 47.619 0.00 0.00 38.98 3.50
275 285 3.909430 GATGGATCGATTGCGTACCTTA 58.091 45.455 0.00 0.00 38.98 2.69
276 286 3.804786 TGGATCGATTGCGTACCTTAA 57.195 42.857 0.00 0.00 38.98 1.85
280 290 6.282167 TGGATCGATTGCGTACCTTAAATTA 58.718 36.000 0.00 0.00 38.98 1.40
304 314 6.920569 ATTCTAACATTATTCACACGGACC 57.079 37.500 0.00 0.00 0.00 4.46
305 315 5.670792 TCTAACATTATTCACACGGACCT 57.329 39.130 0.00 0.00 0.00 3.85
306 316 6.778834 TCTAACATTATTCACACGGACCTA 57.221 37.500 0.00 0.00 0.00 3.08
307 317 7.172868 TCTAACATTATTCACACGGACCTAA 57.827 36.000 0.00 0.00 0.00 2.69
308 318 7.613585 TCTAACATTATTCACACGGACCTAAA 58.386 34.615 0.00 0.00 0.00 1.85
309 319 6.490566 AACATTATTCACACGGACCTAAAC 57.509 37.500 0.00 0.00 0.00 2.01
311 321 5.642063 ACATTATTCACACGGACCTAAACAG 59.358 40.000 0.00 0.00 0.00 3.16
312 322 5.471556 TTATTCACACGGACCTAAACAGA 57.528 39.130 0.00 0.00 0.00 3.41
313 323 2.806608 TCACACGGACCTAAACAGAC 57.193 50.000 0.00 0.00 0.00 3.51
316 326 2.736721 CACACGGACCTAAACAGACATG 59.263 50.000 0.00 0.00 0.00 3.21
317 327 2.631062 ACACGGACCTAAACAGACATGA 59.369 45.455 0.00 0.00 0.00 3.07
319 329 2.897969 ACGGACCTAAACAGACATGAGT 59.102 45.455 0.00 0.00 0.00 3.41
321 331 4.158025 ACGGACCTAAACAGACATGAGTAG 59.842 45.833 0.00 0.00 0.00 2.57
322 332 4.398358 CGGACCTAAACAGACATGAGTAGA 59.602 45.833 0.00 0.00 0.00 2.59
324 334 6.262496 CGGACCTAAACAGACATGAGTAGATA 59.738 42.308 0.00 0.00 0.00 1.98
325 335 7.201794 CGGACCTAAACAGACATGAGTAGATAA 60.202 40.741 0.00 0.00 0.00 1.75
326 336 8.475639 GGACCTAAACAGACATGAGTAGATAAA 58.524 37.037 0.00 0.00 0.00 1.40
327 337 9.871238 GACCTAAACAGACATGAGTAGATAAAA 57.129 33.333 0.00 0.00 0.00 1.52
331 341 8.511604 AAACAGACATGAGTAGATAAAATGGG 57.488 34.615 0.00 0.00 0.00 4.00
334 344 6.708054 CAGACATGAGTAGATAAAATGGGTCC 59.292 42.308 0.00 0.00 0.00 4.46
335 345 5.941788 ACATGAGTAGATAAAATGGGTCCC 58.058 41.667 0.00 0.00 0.00 4.46
336 346 5.163088 ACATGAGTAGATAAAATGGGTCCCC 60.163 44.000 5.13 0.00 0.00 4.81
337 347 3.389983 TGAGTAGATAAAATGGGTCCCCG 59.610 47.826 5.13 0.00 39.42 5.73
338 348 2.105993 AGTAGATAAAATGGGTCCCCGC 59.894 50.000 5.13 0.00 39.42 6.13
340 350 0.464916 GATAAAATGGGTCCCCGCGT 60.465 55.000 5.13 0.00 39.42 6.01
342 352 0.617413 TAAAATGGGTCCCCGCGTTA 59.383 50.000 5.13 0.00 39.42 3.18
343 353 0.678684 AAAATGGGTCCCCGCGTTAG 60.679 55.000 5.13 0.00 39.42 2.34
346 356 3.073101 GGGTCCCCGCGTTAGAGT 61.073 66.667 4.92 0.00 0.00 3.24
347 357 2.653087 GGGTCCCCGCGTTAGAGTT 61.653 63.158 4.92 0.00 0.00 3.01
348 358 1.322538 GGGTCCCCGCGTTAGAGTTA 61.323 60.000 4.92 0.00 0.00 2.24
349 359 0.101939 GGTCCCCGCGTTAGAGTTAG 59.898 60.000 4.92 0.00 0.00 2.34
350 360 1.098050 GTCCCCGCGTTAGAGTTAGA 58.902 55.000 4.92 0.00 0.00 2.10
351 361 1.098050 TCCCCGCGTTAGAGTTAGAC 58.902 55.000 4.92 0.00 0.00 2.59
354 364 1.475682 CCCGCGTTAGAGTTAGACCTT 59.524 52.381 4.92 0.00 0.00 3.50
362 372 5.357314 CGTTAGAGTTAGACCTTGATCTCCA 59.643 44.000 0.00 0.00 0.00 3.86
363 373 6.127703 CGTTAGAGTTAGACCTTGATCTCCAA 60.128 42.308 0.00 0.00 0.00 3.53
499 511 1.349026 CATCCACACCTCCAGTTGACT 59.651 52.381 0.00 0.00 0.00 3.41
596 608 0.168128 GAATCCCACGAACCAAAGCG 59.832 55.000 0.00 0.00 0.00 4.68
606 618 2.739292 GAACCAAAGCGGAAAGGAAAC 58.261 47.619 0.00 0.00 38.63 2.78
995 1010 4.447342 CATTTGCCGCCTCCCCCT 62.447 66.667 0.00 0.00 0.00 4.79
1029 1044 3.376935 ATCTTCCAGGCGAGTGCGG 62.377 63.158 0.00 0.00 44.10 5.69
1091 1107 3.502123 TCGGTTTCTGATGGGTCTTTT 57.498 42.857 0.00 0.00 0.00 2.27
1175 1191 3.371063 GAGGTCGTCGAGGTGCCA 61.371 66.667 18.21 0.00 0.00 4.92
1381 2381 4.163552 TGACGTTTAGACATCACACGATC 58.836 43.478 0.00 0.00 34.90 3.69
1628 2628 4.778534 ATTGCATGCTGATGTATTAGGC 57.221 40.909 20.33 0.00 31.50 3.93
1649 2650 5.893824 AGGCAGGATATGTTTTTAGGAAAGG 59.106 40.000 0.00 0.00 0.00 3.11
1792 2965 2.366916 CCGAGATTAGTTGGATCTGCCT 59.633 50.000 0.00 0.00 34.13 4.75
2148 3341 0.184692 TGTGGGAGTGCAATGGTTGA 59.815 50.000 0.00 0.00 0.00 3.18
3016 4278 5.411831 TGTATTCTGTTGATGCTCTGTCT 57.588 39.130 0.00 0.00 0.00 3.41
3889 5152 3.072184 AGCTGTCCCTGGCTTATAATGAG 59.928 47.826 0.00 0.00 34.96 2.90
4228 5512 1.111277 AAATGATTTAGTGCCCCGGC 58.889 50.000 0.00 0.00 42.35 6.13
4304 5588 3.520402 CCCCCAACACACACACAC 58.480 61.111 0.00 0.00 0.00 3.82
4305 5589 1.379176 CCCCCAACACACACACACA 60.379 57.895 0.00 0.00 0.00 3.72
4307 5591 0.679640 CCCCAACACACACACACACT 60.680 55.000 0.00 0.00 0.00 3.55
4308 5592 1.173043 CCCAACACACACACACACTT 58.827 50.000 0.00 0.00 0.00 3.16
4309 5593 1.543802 CCCAACACACACACACACTTT 59.456 47.619 0.00 0.00 0.00 2.66
4401 5685 3.418675 CTGCTTGCTTGATTGGCAG 57.581 52.632 0.00 0.00 43.03 4.85
4754 6124 1.380302 GCTGACAACCATCCCCAGT 59.620 57.895 0.00 0.00 0.00 4.00
4772 6142 3.244700 CCAGTTCTCACCTGGTCAGATTT 60.245 47.826 0.00 0.00 43.73 2.17
5338 8980 4.760047 ACGGGAGCGAGCGCAATT 62.760 61.111 17.68 0.00 44.88 2.32
5339 8981 3.499737 CGGGAGCGAGCGCAATTT 61.500 61.111 17.68 0.00 44.88 1.82
5340 8982 2.877691 GGGAGCGAGCGCAATTTT 59.122 55.556 17.68 0.00 44.88 1.82
5341 8983 1.212751 GGGAGCGAGCGCAATTTTT 59.787 52.632 17.68 0.00 44.88 1.94
5478 9120 8.349245 TGTCATACAATTTCGTTTGTGAAGAAT 58.651 29.630 10.09 0.00 40.00 2.40
5521 9165 5.298026 TGTGCTGTGTATGATCTACTCTCTC 59.702 44.000 0.00 0.00 0.00 3.20
5622 9266 2.366640 TTGGTGGACATTTCCGGAAA 57.633 45.000 30.71 30.71 46.37 3.13
5754 9398 3.798337 CACAAAATTTCAAGTGCTCGCTT 59.202 39.130 0.00 0.00 0.00 4.68
5824 9468 2.562298 GGTTGTCATGAATTCCAAGCCA 59.438 45.455 12.53 0.00 31.07 4.75
6037 9681 4.572571 ACCGGCCGAGGCAAACAA 62.573 61.111 30.73 0.00 44.11 2.83
6039 9683 2.635443 CCGGCCGAGGCAAACAAAT 61.635 57.895 30.73 0.00 44.11 2.32
6052 9696 7.054491 AGGCAAACAAATGTGATTTTAGTCT 57.946 32.000 0.00 0.00 0.00 3.24
6313 12090 9.788960 GAATTTGAAATTATCACAAGTACTCCC 57.211 33.333 2.71 0.00 37.92 4.30
6314 12091 9.533831 AATTTGAAATTATCACAAGTACTCCCT 57.466 29.630 0.49 0.00 37.92 4.20
6315 12092 8.561738 TTTGAAATTATCACAAGTACTCCCTC 57.438 34.615 0.00 0.00 37.92 4.30
6316 12093 6.650120 TGAAATTATCACAAGTACTCCCTCC 58.350 40.000 0.00 0.00 31.50 4.30
6317 12094 4.939052 ATTATCACAAGTACTCCCTCCG 57.061 45.455 0.00 0.00 0.00 4.63
6318 12095 2.233305 ATCACAAGTACTCCCTCCGT 57.767 50.000 0.00 0.00 0.00 4.69
6319 12096 2.885135 TCACAAGTACTCCCTCCGTA 57.115 50.000 0.00 0.00 0.00 4.02
6320 12097 3.159213 TCACAAGTACTCCCTCCGTAA 57.841 47.619 0.00 0.00 0.00 3.18
6321 12098 3.499338 TCACAAGTACTCCCTCCGTAAA 58.501 45.455 0.00 0.00 0.00 2.01
6322 12099 3.256631 TCACAAGTACTCCCTCCGTAAAC 59.743 47.826 0.00 0.00 0.00 2.01
6323 12100 3.257624 CACAAGTACTCCCTCCGTAAACT 59.742 47.826 0.00 0.00 0.00 2.66
6324 12101 4.460382 CACAAGTACTCCCTCCGTAAACTA 59.540 45.833 0.00 0.00 0.00 2.24
6325 12102 5.126707 CACAAGTACTCCCTCCGTAAACTAT 59.873 44.000 0.00 0.00 0.00 2.12
6326 12103 6.319658 CACAAGTACTCCCTCCGTAAACTATA 59.680 42.308 0.00 0.00 0.00 1.31
6327 12104 6.891908 ACAAGTACTCCCTCCGTAAACTATAA 59.108 38.462 0.00 0.00 0.00 0.98
6328 12105 7.562821 ACAAGTACTCCCTCCGTAAACTATAAT 59.437 37.037 0.00 0.00 0.00 1.28
6329 12106 9.071276 CAAGTACTCCCTCCGTAAACTATAATA 57.929 37.037 0.00 0.00 0.00 0.98
6330 12107 9.819754 AAGTACTCCCTCCGTAAACTATAATAT 57.180 33.333 0.00 0.00 0.00 1.28
6336 12113 8.964772 TCCCTCCGTAAACTATAATATAAGAGC 58.035 37.037 0.00 0.00 0.00 4.09
6337 12114 7.914346 CCCTCCGTAAACTATAATATAAGAGCG 59.086 40.741 0.00 0.00 0.00 5.03
6338 12115 8.457261 CCTCCGTAAACTATAATATAAGAGCGT 58.543 37.037 0.00 0.00 0.00 5.07
6339 12116 9.837525 CTCCGTAAACTATAATATAAGAGCGTT 57.162 33.333 0.00 0.00 0.00 4.84
6355 12132 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
6356 12133 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
6357 12134 7.828712 AGAGCGTTTAGATCACTACTTTAGTT 58.171 34.615 0.00 0.00 37.82 2.24
6358 12135 8.954350 AGAGCGTTTAGATCACTACTTTAGTTA 58.046 33.333 0.00 0.00 37.82 2.24
6359 12136 9.733219 GAGCGTTTAGATCACTACTTTAGTTAT 57.267 33.333 0.00 0.00 36.76 1.89
6360 12137 9.733219 AGCGTTTAGATCACTACTTTAGTTATC 57.267 33.333 0.00 0.95 38.88 1.75
6361 12138 9.733219 GCGTTTAGATCACTACTTTAGTTATCT 57.267 33.333 12.46 12.46 46.18 1.98
6429 12206 4.588528 ACATTTATTGTTGCCTGGTGAGTT 59.411 37.500 0.00 0.00 33.74 3.01
6432 12209 2.363306 TTGTTGCCTGGTGAGTTCAT 57.637 45.000 0.00 0.00 0.00 2.57
6483 12261 4.263418 TGAATGTGAGTGGTCCAATCATGA 60.263 41.667 23.89 14.49 40.47 3.07
6698 12476 3.306472 ACCTAGCCTACTTCTCTCCTG 57.694 52.381 0.00 0.00 0.00 3.86
6738 12516 3.743521 TCACAAGAGTTGACCATTGAGG 58.256 45.455 0.00 0.00 45.67 3.86
6756 12534 4.780815 TGAGGGCAAATACCATCAACTAG 58.219 43.478 0.00 0.00 46.84 2.57
6764 12542 7.603024 GGCAAATACCATCAACTAGGTAGTATC 59.397 40.741 0.00 0.00 43.15 2.24
6766 12544 7.793948 AATACCATCAACTAGGTAGTATCCC 57.206 40.000 0.00 0.00 43.15 3.85
6769 12547 6.930475 ACCATCAACTAGGTAGTATCCCTTA 58.070 40.000 0.00 0.00 36.07 2.69
6782 12560 3.577805 ATCCCTTATTGTAGTGGTGGC 57.422 47.619 0.00 0.00 0.00 5.01
6838 12617 2.918345 GCAAGCCATGCGAACACCA 61.918 57.895 0.00 0.00 46.87 4.17
6839 12618 1.659233 CAAGCCATGCGAACACCAA 59.341 52.632 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.260377 CGACTCCGACATTACAAGTATGTTA 58.740 40.000 0.00 0.00 38.33 2.41
1 2 5.100259 CGACTCCGACATTACAAGTATGTT 58.900 41.667 0.00 0.00 38.33 2.71
2 3 4.439700 CCGACTCCGACATTACAAGTATGT 60.440 45.833 0.00 0.00 39.86 2.29
3 4 4.042398 CCGACTCCGACATTACAAGTATG 58.958 47.826 0.00 0.00 38.22 2.39
13 14 1.521450 AACGTGTCCGACTCCGACAT 61.521 55.000 15.15 2.41 38.22 3.06
43 44 6.331572 TGGGGTGCCTCTTCATATATAAAAGA 59.668 38.462 9.41 9.41 0.00 2.52
46 47 5.512404 CGTGGGGTGCCTCTTCATATATAAA 60.512 44.000 0.00 0.00 0.00 1.40
57 58 1.412453 TTACAACGTGGGGTGCCTCT 61.412 55.000 0.00 0.00 0.00 3.69
97 99 4.096003 GCACCCCTTGCGAGCCTA 62.096 66.667 0.00 0.00 42.79 3.93
170 173 2.683933 AGGGCAGTGACTACGGGG 60.684 66.667 0.00 0.00 0.00 5.73
181 184 2.790791 CGCCTACTCCTCAGGGCAG 61.791 68.421 0.00 0.00 44.27 4.85
187 190 0.246635 GCAAACTCGCCTACTCCTCA 59.753 55.000 0.00 0.00 0.00 3.86
204 207 0.249953 TTTGCTAACGAGGTTCGGCA 60.250 50.000 3.37 0.62 45.59 5.69
219 222 5.397534 GCATAATGACGACATCAAGATTTGC 59.602 40.000 0.00 0.00 41.93 3.68
227 230 3.860641 ACACAGCATAATGACGACATCA 58.139 40.909 0.00 0.00 43.13 3.07
229 232 3.623060 GGAACACAGCATAATGACGACAT 59.377 43.478 0.00 0.00 38.50 3.06
239 242 2.107366 TCCATCGAGGAACACAGCATA 58.893 47.619 0.00 0.00 45.65 3.14
240 243 0.904649 TCCATCGAGGAACACAGCAT 59.095 50.000 0.00 0.00 45.65 3.79
241 244 2.361189 TCCATCGAGGAACACAGCA 58.639 52.632 0.00 0.00 45.65 4.41
255 265 2.910688 AAGGTACGCAATCGATCCAT 57.089 45.000 0.00 0.00 39.41 3.41
280 290 7.110155 AGGTCCGTGTGAATAATGTTAGAATT 58.890 34.615 0.00 0.00 0.00 2.17
290 300 5.221481 TGTCTGTTTAGGTCCGTGTGAATAA 60.221 40.000 0.00 0.00 0.00 1.40
291 301 4.281435 TGTCTGTTTAGGTCCGTGTGAATA 59.719 41.667 0.00 0.00 0.00 1.75
292 302 3.070446 TGTCTGTTTAGGTCCGTGTGAAT 59.930 43.478 0.00 0.00 0.00 2.57
293 303 2.431419 TGTCTGTTTAGGTCCGTGTGAA 59.569 45.455 0.00 0.00 0.00 3.18
294 304 2.033372 TGTCTGTTTAGGTCCGTGTGA 58.967 47.619 0.00 0.00 0.00 3.58
295 305 2.519377 TGTCTGTTTAGGTCCGTGTG 57.481 50.000 0.00 0.00 0.00 3.82
297 307 3.254060 CTCATGTCTGTTTAGGTCCGTG 58.746 50.000 0.00 0.00 0.00 4.94
298 308 2.897969 ACTCATGTCTGTTTAGGTCCGT 59.102 45.455 0.00 0.00 0.00 4.69
299 309 3.594603 ACTCATGTCTGTTTAGGTCCG 57.405 47.619 0.00 0.00 0.00 4.79
305 315 9.613428 CCCATTTTATCTACTCATGTCTGTTTA 57.387 33.333 0.00 0.00 0.00 2.01
306 316 8.109634 ACCCATTTTATCTACTCATGTCTGTTT 58.890 33.333 0.00 0.00 0.00 2.83
307 317 7.633789 ACCCATTTTATCTACTCATGTCTGTT 58.366 34.615 0.00 0.00 0.00 3.16
308 318 7.200434 ACCCATTTTATCTACTCATGTCTGT 57.800 36.000 0.00 0.00 0.00 3.41
309 319 6.708054 GGACCCATTTTATCTACTCATGTCTG 59.292 42.308 0.00 0.00 0.00 3.51
311 321 5.998363 GGGACCCATTTTATCTACTCATGTC 59.002 44.000 5.33 0.00 0.00 3.06
312 322 5.941788 GGGACCCATTTTATCTACTCATGT 58.058 41.667 5.33 0.00 0.00 3.21
331 341 1.098050 TCTAACTCTAACGCGGGGAC 58.902 55.000 12.47 0.00 0.00 4.46
334 344 1.101331 AGGTCTAACTCTAACGCGGG 58.899 55.000 12.47 0.00 0.00 6.13
335 345 2.163010 TCAAGGTCTAACTCTAACGCGG 59.837 50.000 12.47 0.00 0.00 6.46
336 346 3.482722 TCAAGGTCTAACTCTAACGCG 57.517 47.619 3.53 3.53 0.00 6.01
337 347 5.251601 AGATCAAGGTCTAACTCTAACGC 57.748 43.478 0.00 0.00 0.00 4.84
338 348 5.357314 TGGAGATCAAGGTCTAACTCTAACG 59.643 44.000 0.00 0.00 0.00 3.18
340 350 7.201830 CGATTGGAGATCAAGGTCTAACTCTAA 60.202 40.741 0.00 0.00 38.95 2.10
342 352 5.068460 CGATTGGAGATCAAGGTCTAACTCT 59.932 44.000 0.00 0.00 38.95 3.24
343 353 5.285651 CGATTGGAGATCAAGGTCTAACTC 58.714 45.833 0.00 0.00 38.95 3.01
346 356 4.286707 TCCGATTGGAGATCAAGGTCTAA 58.713 43.478 0.00 0.00 40.17 2.10
347 357 3.910989 TCCGATTGGAGATCAAGGTCTA 58.089 45.455 0.00 0.00 40.17 2.59
348 358 2.752030 TCCGATTGGAGATCAAGGTCT 58.248 47.619 0.00 0.00 40.17 3.85
377 387 4.739793 TGATTTGGTGATGAGTTTTCCCT 58.260 39.130 0.00 0.00 0.00 4.20
379 389 5.185635 TGGATGATTTGGTGATGAGTTTTCC 59.814 40.000 0.00 0.00 0.00 3.13
380 390 6.271488 TGGATGATTTGGTGATGAGTTTTC 57.729 37.500 0.00 0.00 0.00 2.29
478 490 0.036732 TCAACTGGAGGTGTGGATGC 59.963 55.000 0.00 0.00 0.00 3.91
596 608 5.121611 CCAAATATTTTGGCGTTTCCTTTCC 59.878 40.000 6.11 0.00 35.26 3.13
606 618 3.885724 AAGGGTCCAAATATTTTGGCG 57.114 42.857 13.05 0.00 39.38 5.69
1029 1044 3.077556 TGGAGAGGAGAAGGGCGC 61.078 66.667 0.00 0.00 0.00 6.53
1091 1107 2.761208 ACCAAAACCAACATCCGAAACA 59.239 40.909 0.00 0.00 0.00 2.83
1374 2374 4.478206 AGATGAATGTTGGAGATCGTGT 57.522 40.909 0.00 0.00 0.00 4.49
1381 2381 8.712285 AATTAATGCAAAGATGAATGTTGGAG 57.288 30.769 0.00 0.00 0.00 3.86
1533 2533 5.008514 TGCATTGCATGTACGCATTTACTAT 59.991 36.000 7.38 0.00 42.62 2.12
1545 2545 6.294286 CCTGATATCAATGTGCATTGCATGTA 60.294 38.462 15.49 5.19 45.77 2.29
1547 2547 4.923281 CCTGATATCAATGTGCATTGCATG 59.077 41.667 15.49 9.44 45.77 4.06
1548 2548 4.587262 ACCTGATATCAATGTGCATTGCAT 59.413 37.500 15.49 13.21 45.77 3.96
1851 3033 7.542477 CACATAACAAGACTCTAGTTCGTTCAT 59.458 37.037 0.00 0.00 0.00 2.57
1852 3034 6.861572 CACATAACAAGACTCTAGTTCGTTCA 59.138 38.462 0.00 0.00 0.00 3.18
1927 3109 5.413309 AGAGACTAACTTTCCCACATGAG 57.587 43.478 0.00 0.00 0.00 2.90
1929 3111 6.878317 TGATAGAGACTAACTTTCCCACATG 58.122 40.000 0.00 0.00 0.00 3.21
2057 3240 3.884091 AGAGAGAGATTGCCATGCATTTC 59.116 43.478 0.00 0.00 38.76 2.17
2160 3353 7.223260 TCACAGCATGAATTTCTTTGAAGAT 57.777 32.000 0.00 0.00 39.69 2.40
2477 3670 0.675083 CACTTGGGCAAGCAATGTCA 59.325 50.000 0.00 0.00 41.99 3.58
3016 4278 5.809001 ACTGAAGTAAGAAGATGGAATGCA 58.191 37.500 0.00 0.00 0.00 3.96
3307 4569 3.057969 TGAGTCCATGTTAGTGCCAAG 57.942 47.619 0.00 0.00 0.00 3.61
3617 4880 7.060600 TCACTTGCTGAAAATAATAGTCACG 57.939 36.000 0.00 0.00 0.00 4.35
3870 5133 3.648067 CTCCTCATTATAAGCCAGGGACA 59.352 47.826 7.11 0.00 0.00 4.02
3889 5152 4.479786 ACAGGATAGCAGAAAAGTCTCC 57.520 45.455 0.00 0.00 28.78 3.71
4228 5512 2.302952 CGTCATGGCATACGGAGCG 61.303 63.158 16.51 7.37 35.51 5.03
4303 5587 2.136026 AGAGGAAAGGGGTGAAAGTGT 58.864 47.619 0.00 0.00 0.00 3.55
4304 5588 2.158608 ACAGAGGAAAGGGGTGAAAGTG 60.159 50.000 0.00 0.00 0.00 3.16
4305 5589 2.136026 ACAGAGGAAAGGGGTGAAAGT 58.864 47.619 0.00 0.00 0.00 2.66
4307 5591 3.460340 TGTAACAGAGGAAAGGGGTGAAA 59.540 43.478 0.00 0.00 0.00 2.69
4308 5592 3.050089 TGTAACAGAGGAAAGGGGTGAA 58.950 45.455 0.00 0.00 0.00 3.18
4309 5593 2.696775 TGTAACAGAGGAAAGGGGTGA 58.303 47.619 0.00 0.00 0.00 4.02
4617 5987 6.897413 ACCCCTATTGCTATTTTGTTCAGAAT 59.103 34.615 0.00 0.00 0.00 2.40
4734 6104 2.351276 GGGGATGGTTGTCAGCGT 59.649 61.111 0.00 0.00 31.40 5.07
4772 6142 4.720775 TCTAACCGGGTTTCCCTAAAAA 57.279 40.909 19.02 0.00 42.67 1.94
5324 8966 4.868195 AAAAATTGCGCTCGCTCC 57.132 50.000 9.73 0.00 42.51 4.70
5340 8982 8.336806 CACATTTTTCTTTAGCTGATGCAAAAA 58.663 29.630 0.00 6.69 42.74 1.94
5341 8983 7.495279 ACACATTTTTCTTTAGCTGATGCAAAA 59.505 29.630 0.00 0.16 42.74 2.44
5342 8984 6.985645 ACACATTTTTCTTTAGCTGATGCAAA 59.014 30.769 0.00 0.00 42.74 3.68
5343 8985 6.514947 ACACATTTTTCTTTAGCTGATGCAA 58.485 32.000 0.00 0.00 42.74 4.08
5344 8986 6.088016 ACACATTTTTCTTTAGCTGATGCA 57.912 33.333 0.00 0.00 42.74 3.96
5345 8987 6.088616 GTGACACATTTTTCTTTAGCTGATGC 59.911 38.462 0.00 0.00 40.05 3.91
5346 8988 6.303970 CGTGACACATTTTTCTTTAGCTGATG 59.696 38.462 6.37 0.00 0.00 3.07
5347 8989 6.373779 CGTGACACATTTTTCTTTAGCTGAT 58.626 36.000 6.37 0.00 0.00 2.90
5348 8990 5.277779 CCGTGACACATTTTTCTTTAGCTGA 60.278 40.000 6.37 0.00 0.00 4.26
5349 8991 4.911610 CCGTGACACATTTTTCTTTAGCTG 59.088 41.667 6.37 0.00 0.00 4.24
5350 8992 4.819630 TCCGTGACACATTTTTCTTTAGCT 59.180 37.500 6.37 0.00 0.00 3.32
5351 8993 5.103290 TCCGTGACACATTTTTCTTTAGC 57.897 39.130 6.37 0.00 0.00 3.09
5352 8994 9.672086 TTTTATCCGTGACACATTTTTCTTTAG 57.328 29.630 6.37 0.00 0.00 1.85
5354 8996 8.934507 TTTTTATCCGTGACACATTTTTCTTT 57.065 26.923 6.37 0.00 0.00 2.52
5478 9120 2.894126 ACAACTGGTTCACCAAACACAA 59.106 40.909 0.00 0.00 46.97 3.33
5521 9165 6.537301 TCGTAATACCTCTTACATTTTGGCAG 59.463 38.462 0.00 0.00 32.27 4.85
5622 9266 0.318441 CGAGGATGTCACGCCCATAT 59.682 55.000 0.00 0.00 0.00 1.78
5824 9468 3.672808 CAGCTCCAGAGTTCACAATCTT 58.327 45.455 0.00 0.00 0.00 2.40
5931 9575 6.132791 TCTGACGATAGAACCAATGACTAC 57.867 41.667 0.00 0.00 41.38 2.73
5966 9610 3.022406 GGAGGTATTCACACGGACTACT 58.978 50.000 0.00 0.00 33.45 2.57
6037 9681 8.947055 AACAAAAAGCAGACTAAAATCACATT 57.053 26.923 0.00 0.00 0.00 2.71
6039 9683 7.816995 ACAAACAAAAAGCAGACTAAAATCACA 59.183 29.630 0.00 0.00 0.00 3.58
6052 9696 2.996621 CGACCCAAACAAACAAAAAGCA 59.003 40.909 0.00 0.00 0.00 3.91
6158 11933 3.922171 AATTTGGACAAAAACCAGCCA 57.078 38.095 1.17 0.00 38.70 4.75
6310 12087 8.964772 GCTCTTATATTATAGTTTACGGAGGGA 58.035 37.037 0.00 0.00 0.00 4.20
6311 12088 7.914346 CGCTCTTATATTATAGTTTACGGAGGG 59.086 40.741 0.00 0.00 0.00 4.30
6312 12089 8.457261 ACGCTCTTATATTATAGTTTACGGAGG 58.543 37.037 0.00 0.00 0.00 4.30
6313 12090 9.837525 AACGCTCTTATATTATAGTTTACGGAG 57.162 33.333 0.00 0.00 0.00 4.63
6329 12106 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
6330 12107 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
6331 12108 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
6332 12109 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
6333 12110 9.733219 ATAACTAAAGTAGTGATCTAAACGCTC 57.267 33.333 0.00 0.00 39.39 5.03
6334 12111 9.733219 GATAACTAAAGTAGTGATCTAAACGCT 57.267 33.333 5.75 0.00 41.55 5.07
6383 12160 9.902684 ATGTATCAGATCTTCTTCTTTCAATGT 57.097 29.630 0.00 0.00 0.00 2.71
6395 12172 8.844244 AGGCAACAATAAATGTATCAGATCTTC 58.156 33.333 0.00 0.00 42.99 2.87
6429 12206 7.649533 AAATGATTTGGTTGAGCATCTATGA 57.350 32.000 0.00 0.00 34.92 2.15
6432 12209 7.465353 TCAAAATGATTTGGTTGAGCATCTA 57.535 32.000 0.00 0.00 44.88 1.98
6483 12261 2.811431 TCGGCAACTTCGTCATGAAAAT 59.189 40.909 0.00 0.00 35.79 1.82
6493 12271 3.081133 CGTGGATCGGCAACTTCG 58.919 61.111 0.00 0.00 35.71 3.79
6501 12279 3.781770 GAGCCTGAGCGTGGATCGG 62.782 68.421 0.00 0.00 46.67 4.18
6698 12476 0.466124 AAGACAATCTCCTAGCCCGC 59.534 55.000 0.00 0.00 0.00 6.13
6738 12516 5.681639 ACTACCTAGTTGATGGTATTTGCC 58.318 41.667 0.00 0.00 38.05 4.52
6756 12534 6.239515 CCACCACTACAATAAGGGATACTACC 60.240 46.154 0.00 0.00 0.00 3.18
6764 12542 1.283613 TGGCCACCACTACAATAAGGG 59.716 52.381 0.00 0.00 0.00 3.95
6766 12544 4.096382 GTCAATGGCCACCACTACAATAAG 59.904 45.833 8.16 0.00 35.80 1.73
6769 12547 2.446435 GTCAATGGCCACCACTACAAT 58.554 47.619 8.16 0.00 35.80 2.71
6782 12560 2.730550 GGCAACTTTGAGGTCAATGG 57.269 50.000 9.64 2.37 35.91 3.16
6838 12617 8.525316 TGACATCAATGTGCTTCAATAATCTTT 58.475 29.630 0.00 0.00 41.95 2.52
6839 12618 8.058667 TGACATCAATGTGCTTCAATAATCTT 57.941 30.769 0.00 0.00 41.95 2.40


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

AutoCloner maintained by Alex Coulton.