Multiple sequence alignment - TraesCS7A01G529800

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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 TraesCS7A01G529800 chr7A 100.000 2552 0 0 1 2552 709273149 709275700 0.000000e+00 4713
1 TraesCS7A01G529800 chr7A 92.958 497 26 5 1 495 721879115 721878626 0.000000e+00 715
2 TraesCS7A01G529800 chr7A 93.487 476 26 3 1 474 85203633 85204105 0.000000e+00 702
3 TraesCS7A01G529800 chr7A 93.023 473 28 3 1 472 88818071 88817603 0.000000e+00 686
4 TraesCS7A01G529800 chr7A 92.243 477 31 4 1 475 709165533 709165061 0.000000e+00 671
5 TraesCS7A01G529800 chr7D 92.452 1974 125 13 570 2527 90563634 90561669 0.000000e+00 2798
6 TraesCS7A01G529800 chrUn 92.104 1925 109 19 611 2527 43407879 43409768 0.000000e+00 2673
7 TraesCS7A01G529800 chr5D 91.463 1968 125 13 568 2527 44511943 44513875 0.000000e+00 2663
8 TraesCS7A01G529800 chr5D 90.923 1972 119 21 568 2527 357075968 357074045 0.000000e+00 2595
9 TraesCS7A01G529800 chr5D 90.702 1753 122 21 558 2300 336262614 336264335 0.000000e+00 2296
10 TraesCS7A01G529800 chr3B 91.112 1969 127 11 568 2527 370213881 370215810 0.000000e+00 2623
11 TraesCS7A01G529800 chr3B 89.971 1745 134 22 568 2300 661407797 661409512 0.000000e+00 2215
12 TraesCS7A01G529800 chr3A 90.369 2004 139 19 568 2527 593512228 593514221 0.000000e+00 2582
13 TraesCS7A01G529800 chr3A 93.983 482 19 6 1 475 290420409 290419931 0.000000e+00 721
14 TraesCS7A01G529800 chr3A 92.662 477 28 5 1 474 109996414 109996886 0.000000e+00 680
15 TraesCS7A01G529800 chr3D 90.591 1860 148 17 568 2415 370069643 370071487 0.000000e+00 2440
16 TraesCS7A01G529800 chr2D 93.394 1650 91 11 911 2552 84781128 84782767 0.000000e+00 2427
17 TraesCS7A01G529800 chr4D 93.171 1640 98 12 896 2527 78732473 78730840 0.000000e+00 2396
18 TraesCS7A01G529800 chr4D 93.605 344 21 1 568 911 496435126 496434784 1.750000e-141 512
19 TraesCS7A01G529800 chr7B 89.836 1771 131 32 551 2306 743805884 743807620 0.000000e+00 2228
20 TraesCS7A01G529800 chr6A 89.245 1776 125 27 568 2306 61540324 61538578 0.000000e+00 2161
21 TraesCS7A01G529800 chr2A 93.082 477 25 6 1 474 100850729 100851200 0.000000e+00 691
22 TraesCS7A01G529800 chr2A 93.053 475 27 4 1 472 682013157 682012686 0.000000e+00 689
23 TraesCS7A01G529800 chr5A 92.827 474 29 3 1 472 447193769 447193299 0.000000e+00 682
24 TraesCS7A01G529800 chr4B 92.118 406 28 4 568 971 660380883 660380480 1.020000e-158 569


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 TraesCS7A01G529800 chr7A 709273149 709275700 2551 False 4713 4713 100.000 1 2552 1 chr7A.!!$F2 2551
1 TraesCS7A01G529800 chr7D 90561669 90563634 1965 True 2798 2798 92.452 570 2527 1 chr7D.!!$R1 1957
2 TraesCS7A01G529800 chrUn 43407879 43409768 1889 False 2673 2673 92.104 611 2527 1 chrUn.!!$F1 1916
3 TraesCS7A01G529800 chr5D 44511943 44513875 1932 False 2663 2663 91.463 568 2527 1 chr5D.!!$F1 1959
4 TraesCS7A01G529800 chr5D 357074045 357075968 1923 True 2595 2595 90.923 568 2527 1 chr5D.!!$R1 1959
5 TraesCS7A01G529800 chr5D 336262614 336264335 1721 False 2296 2296 90.702 558 2300 1 chr5D.!!$F2 1742
6 TraesCS7A01G529800 chr3B 370213881 370215810 1929 False 2623 2623 91.112 568 2527 1 chr3B.!!$F1 1959
7 TraesCS7A01G529800 chr3B 661407797 661409512 1715 False 2215 2215 89.971 568 2300 1 chr3B.!!$F2 1732
8 TraesCS7A01G529800 chr3A 593512228 593514221 1993 False 2582 2582 90.369 568 2527 1 chr3A.!!$F2 1959
9 TraesCS7A01G529800 chr3D 370069643 370071487 1844 False 2440 2440 90.591 568 2415 1 chr3D.!!$F1 1847
10 TraesCS7A01G529800 chr2D 84781128 84782767 1639 False 2427 2427 93.394 911 2552 1 chr2D.!!$F1 1641
11 TraesCS7A01G529800 chr4D 78730840 78732473 1633 True 2396 2396 93.171 896 2527 1 chr4D.!!$R1 1631
12 TraesCS7A01G529800 chr7B 743805884 743807620 1736 False 2228 2228 89.836 551 2306 1 chr7B.!!$F1 1755
13 TraesCS7A01G529800 chr6A 61538578 61540324 1746 True 2161 2161 89.245 568 2306 1 chr6A.!!$R1 1738

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
208 209 0.105349 CCTGGCCATTGATTCCCCAT 60.105 55.0 5.51 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2040 2181 1.129998 CAGAGCTGAGGCACATTTTCG 59.87 52.381 0.0 0.0 41.7 3.46 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
22 23 4.571243 GGAGACGGAGAGAGAGGG 57.429 66.667 0.00 0.00 0.00 4.30
23 24 1.916738 GGAGACGGAGAGAGAGGGA 59.083 63.158 0.00 0.00 0.00 4.20
24 25 0.464916 GGAGACGGAGAGAGAGGGAC 60.465 65.000 0.00 0.00 0.00 4.46
26 27 0.254747 AGACGGAGAGAGAGGGACTG 59.745 60.000 0.00 0.00 41.55 3.51
27 28 0.750182 GACGGAGAGAGAGGGACTGG 60.750 65.000 0.00 0.00 41.55 4.00
28 29 1.454847 CGGAGAGAGAGGGACTGGG 60.455 68.421 0.00 0.00 41.55 4.45
29 30 1.760480 GGAGAGAGAGGGACTGGGC 60.760 68.421 0.00 0.00 41.55 5.36
30 31 2.043450 AGAGAGAGGGACTGGGCG 60.043 66.667 0.00 0.00 41.55 6.13
31 32 3.151022 GAGAGAGGGACTGGGCGG 61.151 72.222 0.00 0.00 41.55 6.13
52 53 4.135153 CGAGGGGCGAGTCTGGTG 62.135 72.222 0.00 0.00 44.57 4.17
53 54 2.997897 GAGGGGCGAGTCTGGTGT 60.998 66.667 0.00 0.00 0.00 4.16
54 55 3.302347 GAGGGGCGAGTCTGGTGTG 62.302 68.421 0.00 0.00 0.00 3.82
55 56 4.394712 GGGGCGAGTCTGGTGTGG 62.395 72.222 0.00 0.00 0.00 4.17
56 57 4.394712 GGGCGAGTCTGGTGTGGG 62.395 72.222 0.00 0.00 0.00 4.61
58 59 4.314440 GCGAGTCTGGTGTGGGCA 62.314 66.667 0.00 0.00 0.00 5.36
59 60 2.357517 CGAGTCTGGTGTGGGCAC 60.358 66.667 0.00 0.00 44.53 5.01
80 81 3.047877 CGAGAACCGCCGGCTTTT 61.048 61.111 26.68 17.26 0.00 2.27
81 82 1.738830 CGAGAACCGCCGGCTTTTA 60.739 57.895 26.68 0.00 0.00 1.52
82 83 1.087771 CGAGAACCGCCGGCTTTTAT 61.088 55.000 26.68 14.42 0.00 1.40
83 84 1.803625 CGAGAACCGCCGGCTTTTATA 60.804 52.381 26.68 0.00 0.00 0.98
84 85 1.865340 GAGAACCGCCGGCTTTTATAG 59.135 52.381 26.68 6.56 0.00 1.31
93 94 1.569984 GCTTTTATAGCCGCTCCGC 59.430 57.895 0.00 0.00 44.48 5.54
104 105 3.170585 GCTCCGCGTCGTGTGTAC 61.171 66.667 4.92 0.00 0.00 2.90
127 128 2.760385 CGAGGGAGGGGAGGTGTC 60.760 72.222 0.00 0.00 0.00 3.67
128 129 2.760385 GAGGGAGGGGAGGTGTCG 60.760 72.222 0.00 0.00 0.00 4.35
129 130 4.400251 AGGGAGGGGAGGTGTCGG 62.400 72.222 0.00 0.00 0.00 4.79
173 174 2.838386 CGTGAGGAATCAATGGCAAG 57.162 50.000 0.00 0.00 0.00 4.01
174 175 1.402968 CGTGAGGAATCAATGGCAAGG 59.597 52.381 0.00 0.00 0.00 3.61
175 176 1.135721 GTGAGGAATCAATGGCAAGGC 59.864 52.381 0.00 0.00 0.00 4.35
176 177 1.006281 TGAGGAATCAATGGCAAGGCT 59.994 47.619 0.00 0.00 0.00 4.58
177 178 1.407979 GAGGAATCAATGGCAAGGCTG 59.592 52.381 0.00 0.00 0.00 4.85
178 179 1.006281 AGGAATCAATGGCAAGGCTGA 59.994 47.619 0.00 0.00 0.00 4.26
179 180 1.135721 GGAATCAATGGCAAGGCTGAC 59.864 52.381 0.00 0.00 0.00 3.51
181 182 1.471119 ATCAATGGCAAGGCTGACAG 58.529 50.000 0.00 0.00 46.30 3.51
182 183 0.609957 TCAATGGCAAGGCTGACAGG 60.610 55.000 4.26 0.00 46.30 4.00
183 184 1.980772 AATGGCAAGGCTGACAGGC 60.981 57.895 20.87 20.87 46.30 4.85
202 203 3.625099 GCAGCCTGGCCATTGATT 58.375 55.556 16.57 0.00 0.00 2.57
203 204 1.440476 GCAGCCTGGCCATTGATTC 59.560 57.895 16.57 0.00 0.00 2.52
204 205 2.024590 GCAGCCTGGCCATTGATTCC 62.025 60.000 16.57 0.00 0.00 3.01
205 206 1.075748 AGCCTGGCCATTGATTCCC 60.076 57.895 16.57 0.00 0.00 3.97
206 207 2.136229 GCCTGGCCATTGATTCCCC 61.136 63.158 5.51 0.00 0.00 4.81
207 208 1.310715 CCTGGCCATTGATTCCCCA 59.689 57.895 5.51 0.00 0.00 4.96
208 209 0.105349 CCTGGCCATTGATTCCCCAT 60.105 55.000 5.51 0.00 0.00 4.00
209 210 1.045407 CTGGCCATTGATTCCCCATG 58.955 55.000 5.51 0.00 0.00 3.66
210 211 0.398806 TGGCCATTGATTCCCCATGG 60.399 55.000 0.00 4.14 35.59 3.66
211 212 1.123246 GGCCATTGATTCCCCATGGG 61.123 60.000 25.30 25.30 46.11 4.00
226 227 2.359975 GGGAACCGAGGCAGTTGG 60.360 66.667 0.00 0.00 40.86 3.77
227 228 2.359975 GGAACCGAGGCAGTTGGG 60.360 66.667 0.00 0.00 33.08 4.12
228 229 2.359975 GAACCGAGGCAGTTGGGG 60.360 66.667 0.00 0.00 33.08 4.96
229 230 3.920093 GAACCGAGGCAGTTGGGGG 62.920 68.421 0.00 0.00 33.08 5.40
230 231 4.974438 ACCGAGGCAGTTGGGGGA 62.974 66.667 0.00 0.00 33.08 4.81
231 232 3.646715 CCGAGGCAGTTGGGGGAA 61.647 66.667 0.00 0.00 0.00 3.97
232 233 2.045926 CGAGGCAGTTGGGGGAAG 60.046 66.667 0.00 0.00 0.00 3.46
233 234 2.592993 CGAGGCAGTTGGGGGAAGA 61.593 63.158 0.00 0.00 0.00 2.87
234 235 1.002011 GAGGCAGTTGGGGGAAGAC 60.002 63.158 0.00 0.00 0.00 3.01
235 236 2.359975 GGCAGTTGGGGGAAGACG 60.360 66.667 0.00 0.00 0.00 4.18
236 237 2.747686 GCAGTTGGGGGAAGACGA 59.252 61.111 0.00 0.00 0.00 4.20
237 238 1.376037 GCAGTTGGGGGAAGACGAG 60.376 63.158 0.00 0.00 0.00 4.18
238 239 1.376037 CAGTTGGGGGAAGACGAGC 60.376 63.158 0.00 0.00 0.00 5.03
239 240 2.046217 GTTGGGGGAAGACGAGCC 60.046 66.667 0.00 0.00 0.00 4.70
240 241 3.702048 TTGGGGGAAGACGAGCCG 61.702 66.667 0.00 0.00 0.00 5.52
251 252 4.778415 CGAGCCGTCGTGTCCCTG 62.778 72.222 0.00 0.00 41.57 4.45
252 253 3.371063 GAGCCGTCGTGTCCCTGA 61.371 66.667 0.00 0.00 0.00 3.86
253 254 3.628280 GAGCCGTCGTGTCCCTGAC 62.628 68.421 0.00 0.00 0.00 3.51
291 292 1.272781 TTTTGCGCCAAAACAGTTCG 58.727 45.000 4.18 0.00 38.24 3.95
292 293 1.142778 TTTGCGCCAAAACAGTTCGC 61.143 50.000 4.18 9.55 45.23 4.70
293 294 2.729491 GCGCCAAAACAGTTCGCC 60.729 61.111 0.00 0.00 39.91 5.54
294 295 2.050442 CGCCAAAACAGTTCGCCC 60.050 61.111 0.00 0.00 0.00 6.13
295 296 2.338620 GCCAAAACAGTTCGCCCC 59.661 61.111 0.00 0.00 0.00 5.80
296 297 2.642700 CCAAAACAGTTCGCCCCG 59.357 61.111 0.00 0.00 0.00 5.73
297 298 2.642700 CAAAACAGTTCGCCCCGG 59.357 61.111 0.00 0.00 0.00 5.73
298 299 3.292159 AAAACAGTTCGCCCCGGC 61.292 61.111 0.00 0.00 37.85 6.13
369 370 2.153913 CTGTTTTCGGCTCAGGTCG 58.846 57.895 0.00 0.00 42.51 4.79
370 371 1.291877 CTGTTTTCGGCTCAGGTCGG 61.292 60.000 0.00 0.00 41.35 4.79
371 372 2.358247 TTTTCGGCTCAGGTCGGC 60.358 61.111 0.00 0.00 41.35 5.54
372 373 3.171828 TTTTCGGCTCAGGTCGGCA 62.172 57.895 0.00 0.00 41.35 5.69
373 374 2.668185 TTTTCGGCTCAGGTCGGCAA 62.668 55.000 0.00 0.00 41.35 4.52
374 375 2.668185 TTTCGGCTCAGGTCGGCAAA 62.668 55.000 0.00 0.00 41.35 3.68
375 376 2.668185 TTCGGCTCAGGTCGGCAAAA 62.668 55.000 0.00 0.00 41.35 2.44
376 377 2.258013 CGGCTCAGGTCGGCAAAAA 61.258 57.895 0.00 0.00 36.86 1.94
377 378 1.586154 CGGCTCAGGTCGGCAAAAAT 61.586 55.000 0.00 0.00 36.86 1.82
378 379 0.171231 GGCTCAGGTCGGCAAAAATC 59.829 55.000 0.00 0.00 0.00 2.17
379 380 0.179189 GCTCAGGTCGGCAAAAATCG 60.179 55.000 0.00 0.00 0.00 3.34
380 381 0.447801 CTCAGGTCGGCAAAAATCGG 59.552 55.000 0.00 0.00 0.00 4.18
381 382 0.958382 TCAGGTCGGCAAAAATCGGG 60.958 55.000 0.00 0.00 0.00 5.14
382 383 2.180769 GGTCGGCAAAAATCGGGC 59.819 61.111 0.00 0.00 0.00 6.13
383 384 2.340328 GGTCGGCAAAAATCGGGCT 61.340 57.895 0.00 0.00 0.00 5.19
384 385 1.136774 GTCGGCAAAAATCGGGCTC 59.863 57.895 0.00 0.00 0.00 4.70
385 386 2.043980 TCGGCAAAAATCGGGCTCC 61.044 57.895 0.00 0.00 0.00 4.70
386 387 2.046285 CGGCAAAAATCGGGCTCCT 61.046 57.895 0.00 0.00 0.00 3.69
387 388 1.512694 GGCAAAAATCGGGCTCCTG 59.487 57.895 0.00 0.00 0.00 3.86
388 389 1.512694 GCAAAAATCGGGCTCCTGG 59.487 57.895 0.00 0.00 0.00 4.45
389 390 1.948721 GCAAAAATCGGGCTCCTGGG 61.949 60.000 0.00 0.00 0.00 4.45
390 391 1.000359 AAAAATCGGGCTCCTGGGG 60.000 57.895 0.00 0.00 0.00 4.96
391 392 2.514516 AAAAATCGGGCTCCTGGGGG 62.515 60.000 0.00 0.00 0.00 5.40
409 410 3.656045 CGCGACTGGGCCGTTTTT 61.656 61.111 0.00 0.00 0.00 1.94
443 444 4.494515 AAAAACGCCTGGGGAGAC 57.505 55.556 18.53 0.00 0.00 3.36
474 475 4.887615 GGCTGGAGATGCCCTAAC 57.112 61.111 0.00 0.00 44.32 2.34
475 476 1.227674 GGCTGGAGATGCCCTAACG 60.228 63.158 0.00 0.00 44.32 3.18
476 477 1.686325 GGCTGGAGATGCCCTAACGA 61.686 60.000 0.00 0.00 44.32 3.85
477 478 0.178068 GCTGGAGATGCCCTAACGAA 59.822 55.000 0.00 0.00 34.97 3.85
478 479 1.808133 GCTGGAGATGCCCTAACGAAG 60.808 57.143 0.00 0.00 34.97 3.79
479 480 1.757118 CTGGAGATGCCCTAACGAAGA 59.243 52.381 0.00 0.00 34.97 2.87
480 481 2.366916 CTGGAGATGCCCTAACGAAGAT 59.633 50.000 0.00 0.00 34.97 2.40
481 482 2.103094 TGGAGATGCCCTAACGAAGATG 59.897 50.000 0.00 0.00 34.97 2.90
482 483 2.548920 GGAGATGCCCTAACGAAGATGG 60.549 54.545 0.00 0.00 0.00 3.51
483 484 2.103263 GAGATGCCCTAACGAAGATGGT 59.897 50.000 0.00 0.00 0.00 3.55
484 485 2.158900 AGATGCCCTAACGAAGATGGTG 60.159 50.000 0.00 0.00 0.00 4.17
485 486 0.251916 TGCCCTAACGAAGATGGTGG 59.748 55.000 0.00 0.00 0.00 4.61
486 487 0.539986 GCCCTAACGAAGATGGTGGA 59.460 55.000 0.00 0.00 0.00 4.02
487 488 1.141053 GCCCTAACGAAGATGGTGGAT 59.859 52.381 0.00 0.00 0.00 3.41
488 489 2.838736 CCCTAACGAAGATGGTGGATG 58.161 52.381 0.00 0.00 0.00 3.51
489 490 2.434336 CCCTAACGAAGATGGTGGATGA 59.566 50.000 0.00 0.00 0.00 2.92
490 491 3.071602 CCCTAACGAAGATGGTGGATGAT 59.928 47.826 0.00 0.00 0.00 2.45
491 492 4.060900 CCTAACGAAGATGGTGGATGATG 58.939 47.826 0.00 0.00 0.00 3.07
492 493 3.634397 AACGAAGATGGTGGATGATGT 57.366 42.857 0.00 0.00 0.00 3.06
493 494 3.634397 ACGAAGATGGTGGATGATGTT 57.366 42.857 0.00 0.00 0.00 2.71
494 495 3.273434 ACGAAGATGGTGGATGATGTTG 58.727 45.455 0.00 0.00 0.00 3.33
495 496 2.032550 CGAAGATGGTGGATGATGTTGC 59.967 50.000 0.00 0.00 0.00 4.17
496 497 2.812836 AGATGGTGGATGATGTTGCA 57.187 45.000 0.00 0.00 0.00 4.08
497 498 3.090210 AGATGGTGGATGATGTTGCAA 57.910 42.857 0.00 0.00 0.00 4.08
498 499 3.433343 AGATGGTGGATGATGTTGCAAA 58.567 40.909 0.00 0.00 0.00 3.68
499 500 4.028131 AGATGGTGGATGATGTTGCAAAT 58.972 39.130 0.00 0.00 0.00 2.32
500 501 3.872511 TGGTGGATGATGTTGCAAATC 57.127 42.857 0.00 7.63 0.00 2.17
501 502 3.163467 TGGTGGATGATGTTGCAAATCA 58.837 40.909 19.58 19.58 38.37 2.57
502 503 3.056678 TGGTGGATGATGTTGCAAATCAC 60.057 43.478 19.65 14.94 36.89 3.06
503 504 3.194116 GGTGGATGATGTTGCAAATCACT 59.806 43.478 19.65 12.49 36.89 3.41
504 505 4.322198 GGTGGATGATGTTGCAAATCACTT 60.322 41.667 19.65 10.17 36.89 3.16
505 506 4.624024 GTGGATGATGTTGCAAATCACTTG 59.376 41.667 19.65 0.00 36.89 3.16
506 507 4.178540 GGATGATGTTGCAAATCACTTGG 58.821 43.478 19.65 0.00 36.89 3.61
507 508 3.029320 TGATGTTGCAAATCACTTGGC 57.971 42.857 15.74 0.00 35.38 4.52
508 509 2.364647 TGATGTTGCAAATCACTTGGCA 59.635 40.909 15.74 2.51 35.38 4.92
509 510 3.007074 TGATGTTGCAAATCACTTGGCAT 59.993 39.130 15.74 6.64 35.38 4.40
510 511 3.029320 TGTTGCAAATCACTTGGCATC 57.971 42.857 0.00 0.00 35.38 3.91
511 512 2.288948 TGTTGCAAATCACTTGGCATCC 60.289 45.455 0.00 0.00 35.38 3.51
512 513 1.630223 TGCAAATCACTTGGCATCCA 58.370 45.000 0.00 0.00 35.38 3.41
513 514 1.546923 TGCAAATCACTTGGCATCCAG 59.453 47.619 0.00 0.00 33.81 3.86
514 515 1.134907 GCAAATCACTTGGCATCCAGG 60.135 52.381 0.00 0.00 36.63 4.45
515 516 2.449464 CAAATCACTTGGCATCCAGGA 58.551 47.619 1.84 0.00 34.05 3.86
516 517 2.827322 CAAATCACTTGGCATCCAGGAA 59.173 45.455 0.00 0.00 34.05 3.36
517 518 2.905415 ATCACTTGGCATCCAGGAAA 57.095 45.000 0.00 0.00 34.05 3.13
518 519 2.205022 TCACTTGGCATCCAGGAAAG 57.795 50.000 0.00 0.00 34.05 2.62
519 520 1.180029 CACTTGGCATCCAGGAAAGG 58.820 55.000 0.00 0.00 34.05 3.11
520 521 0.779997 ACTTGGCATCCAGGAAAGGT 59.220 50.000 0.00 0.00 34.05 3.50
521 522 1.992557 ACTTGGCATCCAGGAAAGGTA 59.007 47.619 0.00 0.00 34.05 3.08
522 523 2.025887 ACTTGGCATCCAGGAAAGGTAG 60.026 50.000 0.00 0.00 34.05 3.18
523 524 1.965414 TGGCATCCAGGAAAGGTAGA 58.035 50.000 0.00 0.00 0.00 2.59
524 525 1.559682 TGGCATCCAGGAAAGGTAGAC 59.440 52.381 0.00 0.00 0.00 2.59
525 526 1.840635 GGCATCCAGGAAAGGTAGACT 59.159 52.381 0.00 0.00 0.00 3.24
526 527 2.239907 GGCATCCAGGAAAGGTAGACTT 59.760 50.000 0.00 0.00 42.52 3.01
527 528 3.274288 GCATCCAGGAAAGGTAGACTTG 58.726 50.000 0.00 0.00 39.96 3.16
528 529 3.307762 GCATCCAGGAAAGGTAGACTTGT 60.308 47.826 0.00 0.00 39.96 3.16
529 530 4.508662 CATCCAGGAAAGGTAGACTTGTC 58.491 47.826 0.00 0.00 39.96 3.18
530 531 3.858135 TCCAGGAAAGGTAGACTTGTCT 58.142 45.455 8.41 8.41 39.96 3.41
531 532 4.232091 TCCAGGAAAGGTAGACTTGTCTT 58.768 43.478 8.66 0.00 39.96 3.01
532 533 4.658901 TCCAGGAAAGGTAGACTTGTCTTT 59.341 41.667 8.66 0.00 39.96 2.52
533 534 4.757149 CCAGGAAAGGTAGACTTGTCTTTG 59.243 45.833 8.66 0.00 39.96 2.77
534 535 4.214332 CAGGAAAGGTAGACTTGTCTTTGC 59.786 45.833 8.66 2.96 39.96 3.68
535 536 4.134563 GGAAAGGTAGACTTGTCTTTGCA 58.865 43.478 8.66 0.00 39.96 4.08
536 537 4.578928 GGAAAGGTAGACTTGTCTTTGCAA 59.421 41.667 8.66 0.00 39.96 4.08
538 539 4.689612 AGGTAGACTTGTCTTTGCAAGA 57.310 40.909 8.66 0.00 46.34 3.02
539 540 4.636249 AGGTAGACTTGTCTTTGCAAGAG 58.364 43.478 8.66 0.73 46.34 2.85
540 541 3.748568 GGTAGACTTGTCTTTGCAAGAGG 59.251 47.826 8.66 0.00 46.34 3.69
541 542 2.856222 AGACTTGTCTTTGCAAGAGGG 58.144 47.619 12.05 0.00 46.34 4.30
542 543 1.268079 GACTTGTCTTTGCAAGAGGGC 59.732 52.381 12.05 0.00 46.34 5.19
543 544 0.239347 CTTGTCTTTGCAAGAGGGCG 59.761 55.000 0.00 0.00 46.34 6.13
544 545 0.465460 TTGTCTTTGCAAGAGGGCGT 60.465 50.000 0.00 0.00 38.41 5.68
545 546 1.165907 TGTCTTTGCAAGAGGGCGTG 61.166 55.000 0.00 0.00 38.41 5.34
546 547 1.148273 TCTTTGCAAGAGGGCGTGT 59.852 52.632 0.00 0.00 36.28 4.49
547 548 0.884704 TCTTTGCAAGAGGGCGTGTC 60.885 55.000 0.00 0.00 36.28 3.67
548 549 2.175184 CTTTGCAAGAGGGCGTGTCG 62.175 60.000 0.00 0.00 36.28 4.35
549 550 2.933878 TTTGCAAGAGGGCGTGTCGT 62.934 55.000 0.00 0.00 36.28 4.34
550 551 3.112709 GCAAGAGGGCGTGTCGTC 61.113 66.667 0.00 0.00 0.00 4.20
551 552 2.338620 CAAGAGGGCGTGTCGTCA 59.661 61.111 0.00 0.00 30.88 4.35
552 553 1.079819 CAAGAGGGCGTGTCGTCAT 60.080 57.895 0.00 0.00 30.88 3.06
553 554 0.172578 CAAGAGGGCGTGTCGTCATA 59.827 55.000 0.00 0.00 30.88 2.15
554 555 1.112113 AAGAGGGCGTGTCGTCATAT 58.888 50.000 0.00 0.00 30.88 1.78
555 556 0.385751 AGAGGGCGTGTCGTCATATG 59.614 55.000 0.00 0.00 30.88 1.78
556 557 0.597637 GAGGGCGTGTCGTCATATGG 60.598 60.000 2.13 0.00 30.88 2.74
560 561 2.094182 GGGCGTGTCGTCATATGGATAT 60.094 50.000 2.13 0.00 30.88 1.63
563 564 5.348986 GGCGTGTCGTCATATGGATATAAT 58.651 41.667 2.13 0.00 0.00 1.28
566 567 6.197282 GCGTGTCGTCATATGGATATAATGAG 59.803 42.308 2.13 0.00 0.00 2.90
585 586 9.951866 ATAATGAGGGGTTAATTATCCTTTTGT 57.048 29.630 11.51 3.06 0.00 2.83
671 672 1.370778 CGTGTGCACCGACTCGTTA 60.371 57.895 15.69 0.00 0.00 3.18
678 679 1.973138 CACCGACTCGTTACGTGAAT 58.027 50.000 13.73 0.00 0.00 2.57
734 735 1.562672 CCTTACAGGTGGGACCAGGG 61.563 65.000 0.00 0.00 41.95 4.45
769 770 6.275335 GCCAATTGTATTCATACTGTTGCAT 58.725 36.000 4.43 0.00 34.41 3.96
783 784 0.612453 TTGCATGCATGGCTTGAGGA 60.612 50.000 27.34 0.00 36.06 3.71
812 829 2.679642 AGCCGCTGAGCAGAGAGT 60.680 61.111 4.88 0.00 34.23 3.24
845 871 2.955614 GCTATATAAGCGGGCGAAAGA 58.044 47.619 0.00 0.00 42.53 2.52
906 934 0.742990 CGAGAGAGAGAGAGCACGGT 60.743 60.000 0.00 0.00 0.00 4.83
953 1030 1.605738 ACGACGGTGGGAAGCTAGT 60.606 57.895 0.00 0.00 0.00 2.57
960 1037 1.073284 GGTGGGAAGCTAGTTGTGGAA 59.927 52.381 0.00 0.00 0.00 3.53
986 1092 1.078426 CGGCGTTGAGATCCCCTTT 60.078 57.895 0.00 0.00 0.00 3.11
1041 1147 3.071206 ACCTCGCGGATGCAGAGT 61.071 61.111 6.13 0.00 42.97 3.24
1059 1165 3.133464 CGGGCGCATGTGGACATT 61.133 61.111 10.83 0.00 33.61 2.71
1125 1231 2.550208 GGTTTCTCACACACCGAGGAAT 60.550 50.000 0.00 0.00 30.73 3.01
1160 1266 0.242555 TACGTGTGCAGCGAGAATGA 59.757 50.000 16.16 0.00 0.00 2.57
1194 1300 2.402305 GCAATTGCACCATTTTCGTGA 58.598 42.857 25.36 0.00 41.59 4.35
1281 1387 1.078918 CGATGCTCTGGCCAAGACA 60.079 57.895 7.01 5.15 37.74 3.41
1284 1390 1.208052 GATGCTCTGGCCAAGACACTA 59.792 52.381 7.01 0.00 37.74 2.74
1322 1428 2.799017 AGAGCATGAAGAATGGTTGCA 58.201 42.857 0.00 0.00 46.95 4.08
1334 1440 2.729455 GTTGCACATGCTGCCACA 59.271 55.556 14.85 0.79 46.51 4.17
1381 1487 1.208052 CGAAAGAAGAGATGGAGGGCA 59.792 52.381 0.00 0.00 0.00 5.36
1441 1547 4.944317 GGATGTTGAAGAAGAAGGTTAGGG 59.056 45.833 0.00 0.00 0.00 3.53
1456 1562 4.476479 AGGTTAGGGAGCTTGAAGATCAAT 59.524 41.667 12.87 2.51 35.59 2.57
1497 1603 5.686159 TTTGCAATTACTTTTGGGCATTG 57.314 34.783 0.00 0.00 0.00 2.82
1528 1634 3.936453 GGTAATCGCACTGGTTGTAATGA 59.064 43.478 0.00 0.00 0.00 2.57
1541 1647 9.241919 ACTGGTTGTAATGATGAAAATGTATGA 57.758 29.630 0.00 0.00 0.00 2.15
1725 1837 5.286267 TGATCAATGAATGCAGCTCTCTA 57.714 39.130 0.00 0.00 0.00 2.43
1746 1858 8.109634 TCTCTACTCTGCCTTTTTATCCAAAAT 58.890 33.333 0.00 0.00 33.73 1.82
1773 1889 3.527253 TCCTCTATGGGCCAAATTCAGAA 59.473 43.478 11.89 0.00 36.20 3.02
1775 1891 4.522022 CCTCTATGGGCCAAATTCAGAATC 59.478 45.833 11.89 0.00 0.00 2.52
1783 1899 3.249559 GCCAAATTCAGAATCTAGAGCCG 59.750 47.826 0.00 0.00 0.00 5.52
1806 1922 0.601311 GCAGGCTAGACTAATGGGCG 60.601 60.000 0.00 0.00 0.00 6.13
1847 1966 2.554370 TTTGGGGGTTCTCTTACGTG 57.446 50.000 0.00 0.00 0.00 4.49
1854 1973 4.262592 GGGGGTTCTCTTACGTGTTTTCTA 60.263 45.833 0.00 0.00 0.00 2.10
1948 2068 5.452078 TCCAGAGCCAAACAATTAAGTTG 57.548 39.130 0.00 0.00 43.64 3.16
2033 2174 7.598493 CACCGTGATTTAAATCAAAGACCAAAT 59.402 33.333 28.02 6.87 46.13 2.32
2265 2410 5.624159 ACAGATGGAAAGACTTTGACATGA 58.376 37.500 15.66 0.00 0.00 3.07
2278 2423 5.251700 ACTTTGACATGAGTAGGGAAGGAAT 59.748 40.000 0.00 0.00 0.00 3.01
2295 2440 7.015292 GGGAAGGAATGTATACATAGTGAGACA 59.985 40.741 18.56 0.00 35.10 3.41
2389 2550 3.067833 TGTTTGCATTGCCACATGATTG 58.932 40.909 6.12 0.00 0.00 2.67
2430 2614 4.019950 GGTTTAGGGTTAGAGTGGCACTTA 60.020 45.833 22.98 12.79 0.00 2.24
2445 2629 8.879427 AGTGGCACTTAGTTTAGGATTTAAAT 57.121 30.769 15.88 0.00 0.00 1.40
2479 2665 7.503521 TTGCATGTTAGTTCATGACTTGTTA 57.496 32.000 10.28 0.00 45.41 2.41
2527 2716 2.042433 TCACCCCCTCCGATTTTCATTT 59.958 45.455 0.00 0.00 0.00 2.32
2528 2717 2.831526 CACCCCCTCCGATTTTCATTTT 59.168 45.455 0.00 0.00 0.00 1.82
2529 2718 3.260632 CACCCCCTCCGATTTTCATTTTT 59.739 43.478 0.00 0.00 0.00 1.94
2530 2719 3.513912 ACCCCCTCCGATTTTCATTTTTC 59.486 43.478 0.00 0.00 0.00 2.29
2531 2720 3.513515 CCCCCTCCGATTTTCATTTTTCA 59.486 43.478 0.00 0.00 0.00 2.69
2532 2721 4.162131 CCCCCTCCGATTTTCATTTTTCAT 59.838 41.667 0.00 0.00 0.00 2.57
2533 2722 5.338300 CCCCCTCCGATTTTCATTTTTCATT 60.338 40.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.614294 TCTCTCTCCGTCTCCGTCTT 59.386 55.000 0.00 0.00 0.00 3.01
2 3 0.812412 CCTCTCTCTCCGTCTCCGTC 60.812 65.000 0.00 0.00 0.00 4.79
4 5 1.525077 CCCTCTCTCTCCGTCTCCG 60.525 68.421 0.00 0.00 0.00 4.63
6 7 0.544697 AGTCCCTCTCTCTCCGTCTC 59.455 60.000 0.00 0.00 0.00 3.36
7 8 0.254747 CAGTCCCTCTCTCTCCGTCT 59.745 60.000 0.00 0.00 0.00 4.18
8 9 0.750182 CCAGTCCCTCTCTCTCCGTC 60.750 65.000 0.00 0.00 0.00 4.79
9 10 1.304952 CCAGTCCCTCTCTCTCCGT 59.695 63.158 0.00 0.00 0.00 4.69
11 12 1.760480 GCCCAGTCCCTCTCTCTCC 60.760 68.421 0.00 0.00 0.00 3.71
12 13 2.124693 CGCCCAGTCCCTCTCTCTC 61.125 68.421 0.00 0.00 0.00 3.20
14 15 3.151022 CCGCCCAGTCCCTCTCTC 61.151 72.222 0.00 0.00 0.00 3.20
35 36 4.135153 CACCAGACTCGCCCCTCG 62.135 72.222 0.00 0.00 40.15 4.63
36 37 2.997897 ACACCAGACTCGCCCCTC 60.998 66.667 0.00 0.00 0.00 4.30
37 38 3.314331 CACACCAGACTCGCCCCT 61.314 66.667 0.00 0.00 0.00 4.79
38 39 4.394712 CCACACCAGACTCGCCCC 62.395 72.222 0.00 0.00 0.00 5.80
39 40 4.394712 CCCACACCAGACTCGCCC 62.395 72.222 0.00 0.00 0.00 6.13
41 42 4.314440 TGCCCACACCAGACTCGC 62.314 66.667 0.00 0.00 0.00 5.03
42 43 2.357517 GTGCCCACACCAGACTCG 60.358 66.667 0.00 0.00 41.21 4.18
63 64 1.087771 ATAAAAGCCGGCGGTTCTCG 61.088 55.000 28.82 0.11 42.76 4.04
64 65 1.865340 CTATAAAAGCCGGCGGTTCTC 59.135 52.381 28.82 10.78 0.00 2.87
65 66 1.949465 CTATAAAAGCCGGCGGTTCT 58.051 50.000 28.82 14.46 0.00 3.01
66 67 0.306840 GCTATAAAAGCCGGCGGTTC 59.693 55.000 28.82 12.03 46.25 3.62
67 68 2.400911 GCTATAAAAGCCGGCGGTT 58.599 52.632 28.82 20.57 46.25 4.44
68 69 4.136250 GCTATAAAAGCCGGCGGT 57.864 55.556 28.82 10.86 46.25 5.68
110 111 2.760385 GACACCTCCCCTCCCTCG 60.760 72.222 0.00 0.00 0.00 4.63
111 112 2.760385 CGACACCTCCCCTCCCTC 60.760 72.222 0.00 0.00 0.00 4.30
112 113 4.400251 CCGACACCTCCCCTCCCT 62.400 72.222 0.00 0.00 0.00 4.20
148 149 3.969250 TTGATTCCTCACGGGCGGC 62.969 63.158 0.00 0.00 34.39 6.53
149 150 1.153168 ATTGATTCCTCACGGGCGG 60.153 57.895 0.00 0.00 34.39 6.13
150 151 1.439353 CCATTGATTCCTCACGGGCG 61.439 60.000 0.00 0.00 34.39 6.13
151 152 1.728490 GCCATTGATTCCTCACGGGC 61.728 60.000 0.00 0.00 41.19 6.13
152 153 0.394216 TGCCATTGATTCCTCACGGG 60.394 55.000 0.00 0.00 0.00 5.28
153 154 1.402968 CTTGCCATTGATTCCTCACGG 59.597 52.381 0.00 0.00 0.00 4.94
154 155 1.402968 CCTTGCCATTGATTCCTCACG 59.597 52.381 0.00 0.00 0.00 4.35
155 156 1.135721 GCCTTGCCATTGATTCCTCAC 59.864 52.381 0.00 0.00 0.00 3.51
156 157 1.006281 AGCCTTGCCATTGATTCCTCA 59.994 47.619 0.00 0.00 0.00 3.86
157 158 1.407979 CAGCCTTGCCATTGATTCCTC 59.592 52.381 0.00 0.00 0.00 3.71
158 159 1.006281 TCAGCCTTGCCATTGATTCCT 59.994 47.619 0.00 0.00 0.00 3.36
159 160 1.135721 GTCAGCCTTGCCATTGATTCC 59.864 52.381 0.00 0.00 0.00 3.01
160 161 1.820519 TGTCAGCCTTGCCATTGATTC 59.179 47.619 0.00 0.00 0.00 2.52
161 162 1.822990 CTGTCAGCCTTGCCATTGATT 59.177 47.619 0.00 0.00 0.00 2.57
162 163 1.471119 CTGTCAGCCTTGCCATTGAT 58.529 50.000 0.00 0.00 0.00 2.57
163 164 0.609957 CCTGTCAGCCTTGCCATTGA 60.610 55.000 0.00 0.00 0.00 2.57
164 165 1.888018 CCTGTCAGCCTTGCCATTG 59.112 57.895 0.00 0.00 0.00 2.82
165 166 1.980772 GCCTGTCAGCCTTGCCATT 60.981 57.895 0.00 0.00 0.00 3.16
166 167 2.362120 GCCTGTCAGCCTTGCCAT 60.362 61.111 0.00 0.00 0.00 4.40
171 172 4.711949 CTGCCGCCTGTCAGCCTT 62.712 66.667 0.00 0.00 0.00 4.35
185 186 1.440476 GAATCAATGGCCAGGCTGC 59.560 57.895 13.05 4.60 0.00 5.25
186 187 1.397390 GGGAATCAATGGCCAGGCTG 61.397 60.000 13.05 7.75 0.00 4.85
187 188 1.075748 GGGAATCAATGGCCAGGCT 60.076 57.895 13.05 0.00 0.00 4.58
188 189 2.136229 GGGGAATCAATGGCCAGGC 61.136 63.158 13.05 1.26 0.00 4.85
189 190 0.105349 ATGGGGAATCAATGGCCAGG 60.105 55.000 13.05 6.17 0.00 4.45
190 191 1.045407 CATGGGGAATCAATGGCCAG 58.955 55.000 13.05 0.00 0.00 4.85
191 192 0.398806 CCATGGGGAATCAATGGCCA 60.399 55.000 8.56 8.56 35.59 5.36
192 193 2.444281 CCATGGGGAATCAATGGCC 58.556 57.895 2.85 0.00 35.59 5.36
203 204 4.506255 GCCTCGGTTCCCATGGGG 62.506 72.222 30.93 14.69 46.11 4.96
204 205 3.704231 CTGCCTCGGTTCCCATGGG 62.704 68.421 26.30 26.30 0.00 4.00
205 206 2.124570 CTGCCTCGGTTCCCATGG 60.125 66.667 4.14 4.14 0.00 3.66
206 207 1.002134 AACTGCCTCGGTTCCCATG 60.002 57.895 0.00 0.00 0.00 3.66
207 208 1.002134 CAACTGCCTCGGTTCCCAT 60.002 57.895 0.00 0.00 29.62 4.00
208 209 2.429930 CAACTGCCTCGGTTCCCA 59.570 61.111 0.00 0.00 29.62 4.37
209 210 2.359975 CCAACTGCCTCGGTTCCC 60.360 66.667 0.00 0.00 29.62 3.97
210 211 2.359975 CCCAACTGCCTCGGTTCC 60.360 66.667 0.00 0.00 29.62 3.62
211 212 2.359975 CCCCAACTGCCTCGGTTC 60.360 66.667 0.00 0.00 29.62 3.62
212 213 3.966543 CCCCCAACTGCCTCGGTT 61.967 66.667 0.00 0.00 32.65 4.44
213 214 4.974438 TCCCCCAACTGCCTCGGT 62.974 66.667 0.00 0.00 0.00 4.69
214 215 3.628646 CTTCCCCCAACTGCCTCGG 62.629 68.421 0.00 0.00 0.00 4.63
215 216 2.045926 CTTCCCCCAACTGCCTCG 60.046 66.667 0.00 0.00 0.00 4.63
216 217 1.002011 GTCTTCCCCCAACTGCCTC 60.002 63.158 0.00 0.00 0.00 4.70
217 218 2.895424 CGTCTTCCCCCAACTGCCT 61.895 63.158 0.00 0.00 0.00 4.75
218 219 2.359975 CGTCTTCCCCCAACTGCC 60.360 66.667 0.00 0.00 0.00 4.85
219 220 1.376037 CTCGTCTTCCCCCAACTGC 60.376 63.158 0.00 0.00 0.00 4.40
220 221 1.376037 GCTCGTCTTCCCCCAACTG 60.376 63.158 0.00 0.00 0.00 3.16
221 222 2.593956 GGCTCGTCTTCCCCCAACT 61.594 63.158 0.00 0.00 0.00 3.16
222 223 2.046217 GGCTCGTCTTCCCCCAAC 60.046 66.667 0.00 0.00 0.00 3.77
223 224 3.702048 CGGCTCGTCTTCCCCCAA 61.702 66.667 0.00 0.00 0.00 4.12
234 235 4.778415 CAGGGACACGACGGCTCG 62.778 72.222 0.00 5.08 46.06 5.03
235 236 3.371063 TCAGGGACACGACGGCTC 61.371 66.667 0.00 0.00 0.00 4.70
236 237 3.681835 GTCAGGGACACGACGGCT 61.682 66.667 0.00 0.00 32.09 5.52
271 272 1.656095 CGAACTGTTTTGGCGCAAAAA 59.344 42.857 18.68 18.68 43.50 1.94
272 273 1.272781 CGAACTGTTTTGGCGCAAAA 58.727 45.000 10.83 8.15 40.41 2.44
273 274 1.142778 GCGAACTGTTTTGGCGCAAA 61.143 50.000 10.83 0.00 46.19 3.68
274 275 1.587613 GCGAACTGTTTTGGCGCAA 60.588 52.632 10.83 0.00 46.19 4.85
275 276 2.025441 GCGAACTGTTTTGGCGCA 59.975 55.556 10.83 0.00 46.19 6.09
276 277 2.729491 GGCGAACTGTTTTGGCGC 60.729 61.111 13.79 13.79 46.20 6.53
277 278 2.050442 GGGCGAACTGTTTTGGCG 60.050 61.111 11.96 5.00 41.72 5.69
278 279 2.338620 GGGGCGAACTGTTTTGGC 59.661 61.111 10.46 10.46 40.35 4.52
279 280 2.642700 CGGGGCGAACTGTTTTGG 59.357 61.111 0.00 0.00 0.00 3.28
280 281 2.642700 CCGGGGCGAACTGTTTTG 59.357 61.111 0.00 0.00 0.00 2.44
281 282 3.292159 GCCGGGGCGAACTGTTTT 61.292 61.111 2.18 0.00 0.00 2.43
346 347 4.445545 GAGCCGAAAACAGCGCCG 62.446 66.667 2.29 0.00 0.00 6.46
347 348 3.314388 CTGAGCCGAAAACAGCGCC 62.314 63.158 2.29 0.00 0.00 6.53
348 349 2.174349 CTGAGCCGAAAACAGCGC 59.826 61.111 0.00 0.00 0.00 5.92
349 350 1.901650 GACCTGAGCCGAAAACAGCG 61.902 60.000 0.00 0.00 0.00 5.18
350 351 1.869690 GACCTGAGCCGAAAACAGC 59.130 57.895 0.00 0.00 0.00 4.40
351 352 1.291877 CCGACCTGAGCCGAAAACAG 61.292 60.000 0.00 0.00 0.00 3.16
352 353 1.301401 CCGACCTGAGCCGAAAACA 60.301 57.895 0.00 0.00 0.00 2.83
353 354 2.677979 GCCGACCTGAGCCGAAAAC 61.678 63.158 0.00 0.00 0.00 2.43
354 355 2.358247 GCCGACCTGAGCCGAAAA 60.358 61.111 0.00 0.00 0.00 2.29
355 356 2.668185 TTTGCCGACCTGAGCCGAAA 62.668 55.000 0.00 0.00 0.00 3.46
356 357 2.668185 TTTTGCCGACCTGAGCCGAA 62.668 55.000 0.00 0.00 0.00 4.30
357 358 2.668185 TTTTTGCCGACCTGAGCCGA 62.668 55.000 0.00 0.00 0.00 5.54
358 359 1.586154 ATTTTTGCCGACCTGAGCCG 61.586 55.000 0.00 0.00 0.00 5.52
359 360 0.171231 GATTTTTGCCGACCTGAGCC 59.829 55.000 0.00 0.00 0.00 4.70
360 361 0.179189 CGATTTTTGCCGACCTGAGC 60.179 55.000 0.00 0.00 0.00 4.26
361 362 0.447801 CCGATTTTTGCCGACCTGAG 59.552 55.000 0.00 0.00 0.00 3.35
362 363 0.958382 CCCGATTTTTGCCGACCTGA 60.958 55.000 0.00 0.00 0.00 3.86
363 364 1.506262 CCCGATTTTTGCCGACCTG 59.494 57.895 0.00 0.00 0.00 4.00
364 365 2.340328 GCCCGATTTTTGCCGACCT 61.340 57.895 0.00 0.00 0.00 3.85
365 366 2.180769 GCCCGATTTTTGCCGACC 59.819 61.111 0.00 0.00 0.00 4.79
366 367 1.136774 GAGCCCGATTTTTGCCGAC 59.863 57.895 0.00 0.00 0.00 4.79
367 368 2.043980 GGAGCCCGATTTTTGCCGA 61.044 57.895 0.00 0.00 0.00 5.54
368 369 2.046285 AGGAGCCCGATTTTTGCCG 61.046 57.895 0.00 0.00 0.00 5.69
369 370 1.512694 CAGGAGCCCGATTTTTGCC 59.487 57.895 0.00 0.00 0.00 4.52
370 371 1.512694 CCAGGAGCCCGATTTTTGC 59.487 57.895 0.00 0.00 0.00 3.68
371 372 1.322538 CCCCAGGAGCCCGATTTTTG 61.323 60.000 0.00 0.00 0.00 2.44
372 373 1.000359 CCCCAGGAGCCCGATTTTT 60.000 57.895 0.00 0.00 0.00 1.94
373 374 2.683475 CCCCAGGAGCCCGATTTT 59.317 61.111 0.00 0.00 0.00 1.82
374 375 3.420482 CCCCCAGGAGCCCGATTT 61.420 66.667 0.00 0.00 33.47 2.17
392 393 3.656045 AAAAACGGCCCAGTCGCG 61.656 61.111 0.00 0.00 32.11 5.87
426 427 1.228459 GGTCTCCCCAGGCGTTTTT 60.228 57.895 0.00 0.00 0.00 1.94
427 428 2.125766 GAGGTCTCCCCAGGCGTTTT 62.126 60.000 0.00 0.00 34.66 2.43
428 429 2.529389 AGGTCTCCCCAGGCGTTT 60.529 61.111 0.00 0.00 34.66 3.60
429 430 3.003763 GAGGTCTCCCCAGGCGTT 61.004 66.667 0.00 0.00 34.66 4.84
458 459 0.178068 TTCGTTAGGGCATCTCCAGC 59.822 55.000 0.00 0.00 36.21 4.85
459 460 1.757118 TCTTCGTTAGGGCATCTCCAG 59.243 52.381 0.00 0.00 36.21 3.86
460 461 1.860641 TCTTCGTTAGGGCATCTCCA 58.139 50.000 0.00 0.00 36.21 3.86
461 462 2.548920 CCATCTTCGTTAGGGCATCTCC 60.549 54.545 0.00 0.00 0.00 3.71
462 463 2.103263 ACCATCTTCGTTAGGGCATCTC 59.897 50.000 0.00 0.00 0.00 2.75
463 464 2.119495 ACCATCTTCGTTAGGGCATCT 58.881 47.619 0.00 0.00 0.00 2.90
464 465 2.213499 CACCATCTTCGTTAGGGCATC 58.787 52.381 0.00 0.00 0.00 3.91
465 466 1.134098 CCACCATCTTCGTTAGGGCAT 60.134 52.381 0.00 0.00 0.00 4.40
466 467 0.251916 CCACCATCTTCGTTAGGGCA 59.748 55.000 0.00 0.00 0.00 5.36
467 468 0.539986 TCCACCATCTTCGTTAGGGC 59.460 55.000 0.00 0.00 0.00 5.19
468 469 2.434336 TCATCCACCATCTTCGTTAGGG 59.566 50.000 0.00 0.00 0.00 3.53
469 470 3.819564 TCATCCACCATCTTCGTTAGG 57.180 47.619 0.00 0.00 0.00 2.69
470 471 4.697514 ACATCATCCACCATCTTCGTTAG 58.302 43.478 0.00 0.00 0.00 2.34
471 472 4.753516 ACATCATCCACCATCTTCGTTA 57.246 40.909 0.00 0.00 0.00 3.18
472 473 3.634397 ACATCATCCACCATCTTCGTT 57.366 42.857 0.00 0.00 0.00 3.85
473 474 3.273434 CAACATCATCCACCATCTTCGT 58.727 45.455 0.00 0.00 0.00 3.85
474 475 2.032550 GCAACATCATCCACCATCTTCG 59.967 50.000 0.00 0.00 0.00 3.79
475 476 3.018856 TGCAACATCATCCACCATCTTC 58.981 45.455 0.00 0.00 0.00 2.87
476 477 3.090210 TGCAACATCATCCACCATCTT 57.910 42.857 0.00 0.00 0.00 2.40
477 478 2.812836 TGCAACATCATCCACCATCT 57.187 45.000 0.00 0.00 0.00 2.90
478 479 3.872511 TTTGCAACATCATCCACCATC 57.127 42.857 0.00 0.00 0.00 3.51
479 480 3.770388 TGATTTGCAACATCATCCACCAT 59.230 39.130 15.74 0.00 0.00 3.55
480 481 3.056678 GTGATTTGCAACATCATCCACCA 60.057 43.478 19.97 0.00 33.22 4.17
481 482 3.194116 AGTGATTTGCAACATCATCCACC 59.806 43.478 19.97 11.37 33.22 4.61
482 483 4.445452 AGTGATTTGCAACATCATCCAC 57.555 40.909 19.97 12.17 33.22 4.02
483 484 4.322123 CCAAGTGATTTGCAACATCATCCA 60.322 41.667 19.97 0.00 35.37 3.41
484 485 4.178540 CCAAGTGATTTGCAACATCATCC 58.821 43.478 19.97 12.33 35.37 3.51
485 486 3.615496 GCCAAGTGATTTGCAACATCATC 59.385 43.478 19.97 12.61 35.37 2.92
486 487 3.007074 TGCCAAGTGATTTGCAACATCAT 59.993 39.130 19.97 4.66 35.37 2.45
487 488 2.364647 TGCCAAGTGATTTGCAACATCA 59.635 40.909 15.74 15.74 35.37 3.07
488 489 3.029320 TGCCAAGTGATTTGCAACATC 57.971 42.857 0.00 6.65 35.37 3.06
489 490 3.592059 GATGCCAAGTGATTTGCAACAT 58.408 40.909 0.00 0.00 35.37 2.71
490 491 2.288948 GGATGCCAAGTGATTTGCAACA 60.289 45.455 0.00 0.00 35.37 3.33
491 492 2.288948 TGGATGCCAAGTGATTTGCAAC 60.289 45.455 0.00 0.00 35.37 4.17
492 493 1.969208 TGGATGCCAAGTGATTTGCAA 59.031 42.857 0.00 0.00 35.37 4.08
493 494 1.546923 CTGGATGCCAAGTGATTTGCA 59.453 47.619 0.00 0.00 35.37 4.08
494 495 1.134907 CCTGGATGCCAAGTGATTTGC 60.135 52.381 0.00 0.00 35.37 3.68
495 496 2.449464 TCCTGGATGCCAAGTGATTTG 58.551 47.619 0.00 0.00 36.50 2.32
496 497 2.905415 TCCTGGATGCCAAGTGATTT 57.095 45.000 0.00 0.00 30.80 2.17
497 498 2.905415 TTCCTGGATGCCAAGTGATT 57.095 45.000 0.00 0.00 30.80 2.57
498 499 2.622452 CCTTTCCTGGATGCCAAGTGAT 60.622 50.000 0.00 0.00 30.80 3.06
499 500 1.272092 CCTTTCCTGGATGCCAAGTGA 60.272 52.381 0.00 0.00 30.80 3.41
500 501 1.180029 CCTTTCCTGGATGCCAAGTG 58.820 55.000 0.00 0.00 30.80 3.16
501 502 0.779997 ACCTTTCCTGGATGCCAAGT 59.220 50.000 0.00 0.00 30.80 3.16
502 503 2.239654 TCTACCTTTCCTGGATGCCAAG 59.760 50.000 0.00 0.00 30.80 3.61
503 504 2.026262 GTCTACCTTTCCTGGATGCCAA 60.026 50.000 0.00 0.00 30.80 4.52
504 505 1.559682 GTCTACCTTTCCTGGATGCCA 59.440 52.381 0.00 0.00 0.00 4.92
505 506 1.840635 AGTCTACCTTTCCTGGATGCC 59.159 52.381 0.00 0.00 0.00 4.40
506 507 3.274288 CAAGTCTACCTTTCCTGGATGC 58.726 50.000 0.00 0.00 0.00 3.91
507 508 4.223923 AGACAAGTCTACCTTTCCTGGATG 59.776 45.833 0.00 0.00 38.35 3.51
508 509 4.430441 AGACAAGTCTACCTTTCCTGGAT 58.570 43.478 0.00 0.00 38.35 3.41
509 510 3.858135 AGACAAGTCTACCTTTCCTGGA 58.142 45.455 0.00 0.00 38.35 3.86
510 511 4.625607 AAGACAAGTCTACCTTTCCTGG 57.374 45.455 2.72 0.00 39.39 4.45
511 512 4.214332 GCAAAGACAAGTCTACCTTTCCTG 59.786 45.833 2.72 0.00 39.39 3.86
512 513 4.141482 TGCAAAGACAAGTCTACCTTTCCT 60.141 41.667 2.72 0.00 39.39 3.36
513 514 4.134563 TGCAAAGACAAGTCTACCTTTCC 58.865 43.478 2.72 0.00 39.39 3.13
514 515 5.751243 TTGCAAAGACAAGTCTACCTTTC 57.249 39.130 2.72 0.00 39.39 2.62
530 531 2.250939 CGACACGCCCTCTTGCAAA 61.251 57.895 0.00 0.00 0.00 3.68
531 532 2.664851 CGACACGCCCTCTTGCAA 60.665 61.111 0.00 0.00 0.00 4.08
532 533 3.858868 GACGACACGCCCTCTTGCA 62.859 63.158 0.00 0.00 0.00 4.08
533 534 3.112709 GACGACACGCCCTCTTGC 61.113 66.667 0.00 0.00 0.00 4.01
534 535 0.172578 TATGACGACACGCCCTCTTG 59.827 55.000 0.00 0.00 0.00 3.02
535 536 1.112113 ATATGACGACACGCCCTCTT 58.888 50.000 0.00 0.00 0.00 2.85
536 537 0.385751 CATATGACGACACGCCCTCT 59.614 55.000 0.00 0.00 0.00 3.69
537 538 0.597637 CCATATGACGACACGCCCTC 60.598 60.000 3.65 0.00 0.00 4.30
538 539 1.040893 TCCATATGACGACACGCCCT 61.041 55.000 3.65 0.00 0.00 5.19
539 540 0.033504 ATCCATATGACGACACGCCC 59.966 55.000 3.65 0.00 0.00 6.13
540 541 2.717580 TATCCATATGACGACACGCC 57.282 50.000 3.65 0.00 0.00 5.68
541 542 6.033966 TCATTATATCCATATGACGACACGC 58.966 40.000 3.65 0.00 0.00 5.34
542 543 6.693113 CCTCATTATATCCATATGACGACACG 59.307 42.308 3.65 0.00 0.00 4.49
543 544 6.980978 CCCTCATTATATCCATATGACGACAC 59.019 42.308 3.65 0.00 0.00 3.67
544 545 6.098266 CCCCTCATTATATCCATATGACGACA 59.902 42.308 3.65 0.00 0.00 4.35
545 546 6.098409 ACCCCTCATTATATCCATATGACGAC 59.902 42.308 3.65 0.00 0.00 4.34
546 547 6.202331 ACCCCTCATTATATCCATATGACGA 58.798 40.000 3.65 0.00 0.00 4.20
547 548 6.485830 ACCCCTCATTATATCCATATGACG 57.514 41.667 3.65 0.00 0.00 4.35
554 555 9.588432 AGGATAATTAACCCCTCATTATATCCA 57.412 33.333 8.09 0.00 39.01 3.41
560 561 9.416284 GACAAAAGGATAATTAACCCCTCATTA 57.584 33.333 8.09 0.00 0.00 1.90
563 564 6.011096 AGGACAAAAGGATAATTAACCCCTCA 60.011 38.462 8.09 0.00 0.00 3.86
566 567 6.192044 TGAGGACAAAAGGATAATTAACCCC 58.808 40.000 8.09 1.96 0.00 4.95
585 586 0.686789 CACATGGACACCACTGAGGA 59.313 55.000 0.00 0.00 41.22 3.71
671 672 0.389948 GGAGACGGCAGAATTCACGT 60.390 55.000 18.44 18.44 42.88 4.49
752 753 5.217393 CCATGCATGCAACAGTATGAATAC 58.783 41.667 26.68 0.00 39.69 1.89
769 770 4.421365 GGTTCCTCAAGCCATGCA 57.579 55.556 0.00 0.00 0.00 3.96
800 816 1.279152 CGCAATGACTCTCTGCTCAG 58.721 55.000 0.00 0.00 33.82 3.35
812 829 2.928801 ATATAGCACACCCGCAATGA 57.071 45.000 0.00 0.00 0.00 2.57
888 914 0.732571 CACCGTGCTCTCTCTCTCTC 59.267 60.000 0.00 0.00 0.00 3.20
889 915 0.679640 CCACCGTGCTCTCTCTCTCT 60.680 60.000 0.00 0.00 0.00 3.10
906 934 3.680786 CTCTCGCCGTGGTCACCA 61.681 66.667 0.00 0.00 0.00 4.17
986 1092 2.685017 ACATGGAGCTCGGAGCCA 60.685 61.111 25.49 17.60 43.77 4.75
1041 1147 3.620419 AATGTCCACATGCGCCCGA 62.620 57.895 4.18 0.00 36.56 5.14
1059 1165 1.863662 GCGGACAGACGAAGACAGGA 61.864 60.000 0.00 0.00 35.47 3.86
1087 1193 2.505982 CCTCCGATCAACGCCCAT 59.494 61.111 0.00 0.00 41.07 4.00
1088 1194 3.781307 CCCTCCGATCAACGCCCA 61.781 66.667 0.00 0.00 41.07 5.36
1160 1266 2.654863 CAATTGCCCCGATTCTTACCT 58.345 47.619 0.00 0.00 0.00 3.08
1194 1300 2.579873 CCATTGCTCAAAGATCCCGAT 58.420 47.619 0.00 0.00 0.00 4.18
1281 1387 6.128063 GCTCTTCTTGCAGTTCATTCATTAGT 60.128 38.462 0.00 0.00 0.00 2.24
1284 1390 4.521639 TGCTCTTCTTGCAGTTCATTCATT 59.478 37.500 0.00 0.00 35.31 2.57
1322 1428 3.041701 CCGTTTGTGGCAGCATGT 58.958 55.556 0.00 0.00 39.31 3.21
1381 1487 2.424557 CTCTCTGTCAGTGCATGCTTT 58.575 47.619 20.33 3.77 0.00 3.51
1441 1547 7.148188 TGGTATTTGTGATTGATCTTCAAGCTC 60.148 37.037 6.99 4.30 42.72 4.09
1456 1562 5.481824 TGCAAATGGGTATTGGTATTTGTGA 59.518 36.000 0.00 0.00 40.70 3.58
1497 1603 3.554337 CCAGTGCGATTACCATACCTACC 60.554 52.174 0.00 0.00 0.00 3.18
1541 1647 9.116067 CAAATTCCTCCATAATTCATGCATTTT 57.884 29.630 0.00 0.00 32.84 1.82
1725 1837 6.954102 ACCTATTTTGGATAAAAAGGCAGAGT 59.046 34.615 0.00 0.00 41.00 3.24
1746 1858 2.579624 TTGGCCCATAGAGGAACCTA 57.420 50.000 0.00 0.00 41.22 3.08
1773 1889 1.743321 GCCTGCACTCGGCTCTAGAT 61.743 60.000 8.16 0.00 44.17 1.98
1775 1891 2.105930 GCCTGCACTCGGCTCTAG 59.894 66.667 8.16 0.00 44.17 2.43
1783 1899 2.224161 CCCATTAGTCTAGCCTGCACTC 60.224 54.545 0.00 0.00 0.00 3.51
1806 1922 1.683385 GGGCCTAATTGGATGCAGTTC 59.317 52.381 0.84 0.00 38.35 3.01
1908 2028 8.850156 GGCTCTGGAATAATTCAATTAGCTTTA 58.150 33.333 0.00 0.00 0.00 1.85
2033 2174 3.145286 TGAGGCACATTTTCGATGACAA 58.855 40.909 0.00 0.00 0.00 3.18
2040 2181 1.129998 CAGAGCTGAGGCACATTTTCG 59.870 52.381 0.00 0.00 41.70 3.46
2187 2332 4.636435 CCACGCGGTCCTGGGTTT 62.636 66.667 12.47 0.00 32.02 3.27
2240 2385 4.058124 TGTCAAAGTCTTTCCATCTGTCG 58.942 43.478 0.00 0.00 0.00 4.35
2265 2410 8.232412 TCACTATGTATACATTCCTTCCCTACT 58.768 37.037 22.90 0.00 37.76 2.57
2278 2423 8.293699 ACATTCACTGTCTCACTATGTATACA 57.706 34.615 8.27 8.27 29.94 2.29
2295 2440 3.549997 GCGTGTGCAAACATTCACT 57.450 47.368 8.00 0.00 42.15 3.41
2389 2550 2.514803 ACCAAGTGCCATTCTAACCAC 58.485 47.619 0.00 0.00 0.00 4.16
2398 2559 2.694616 AACCCTAAACCAAGTGCCAT 57.305 45.000 0.00 0.00 0.00 4.40
2445 2629 9.368674 CATGAACTAACATGCAAATTTATTCCA 57.631 29.630 0.00 0.00 40.54 3.53


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

AutoCloner maintained by Alex Coulton.