Multiple sequence alignment - TraesCS3D01G544900

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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 TraesCS3D01G544900 chr3D 100.000 2991 0 0 1 2991 614268222 614271212 0.000000e+00 5524.0
1 TraesCS3D01G544900 chr3D 74.140 727 155 24 2275 2991 594518014 594517311 1.370000e-68 270.0
2 TraesCS3D01G544900 chr3D 78.218 202 38 4 1757 1955 614087324 614087126 1.130000e-24 124.0
3 TraesCS3D01G544900 chr3A 92.108 1774 72 23 420 2161 750547495 750549232 0.000000e+00 2438.0
4 TraesCS3D01G544900 chr3A 84.968 632 81 9 2364 2991 750549233 750549854 1.960000e-176 628.0
5 TraesCS3D01G544900 chr3A 82.578 287 28 8 1 268 750547209 750547492 1.790000e-57 233.0
6 TraesCS3D01G544900 chr3A 80.189 212 33 5 1670 1873 749818051 749817841 1.860000e-32 150.0
7 TraesCS3D01G544900 chr3B 91.220 672 30 8 323 989 823591909 823592556 0.000000e+00 887.0
8 TraesCS3D01G544900 chr3B 89.365 630 64 3 1590 2216 823593063 823593692 0.000000e+00 789.0
9 TraesCS3D01G544900 chr3B 93.631 471 29 1 989 1459 823592594 823593063 0.000000e+00 702.0
10 TraesCS3D01G544900 chr3B 87.266 267 18 11 1 267 823590435 823590685 1.050000e-74 291.0
11 TraesCS3D01G544900 chr3B 100.000 28 0 0 286 313 823590683 823590710 5.000000e-03 52.8
12 TraesCS3D01G544900 chr7D 77.406 717 136 17 2282 2991 154201822 154202519 1.290000e-108 403.0
13 TraesCS3D01G544900 chr7D 76.006 646 133 13 2281 2910 595934214 595934853 6.220000e-82 315.0
14 TraesCS3D01G544900 chr5D 77.025 679 134 17 2275 2945 11436460 11437124 1.310000e-98 370.0
15 TraesCS3D01G544900 chr5D 76.840 652 128 17 2275 2910 425035862 425036506 2.210000e-91 346.0
16 TraesCS3D01G544900 chr5A 76.462 667 130 16 2275 2931 105413713 105413064 1.330000e-88 337.0
17 TraesCS3D01G544900 chr5A 75.113 663 139 18 2275 2927 625734790 625734144 1.360000e-73 287.0
18 TraesCS3D01G544900 chr6B 74.743 681 147 22 2275 2945 631805205 631805870 6.310000e-72 281.0
19 TraesCS3D01G544900 chrUn 80.189 212 33 5 1670 1873 290458914 290458704 1.860000e-32 150.0
20 TraesCS3D01G544900 chrUn 80.189 212 33 5 1670 1873 290481897 290481687 1.860000e-32 150.0
21 TraesCS3D01G544900 chr4A 91.489 47 3 1 1513 1558 539835566 539835612 2.490000e-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 TraesCS3D01G544900 chr3D 614268222 614271212 2990 False 5524.000000 5524 100.000000 1 2991 1 chr3D.!!$F1 2990
1 TraesCS3D01G544900 chr3D 594517311 594518014 703 True 270.000000 270 74.140000 2275 2991 1 chr3D.!!$R1 716
2 TraesCS3D01G544900 chr3A 750547209 750549854 2645 False 1099.666667 2438 86.551333 1 2991 3 chr3A.!!$F1 2990
3 TraesCS3D01G544900 chr3B 823590435 823593692 3257 False 544.360000 887 92.296400 1 2216 5 chr3B.!!$F1 2215
4 TraesCS3D01G544900 chr7D 154201822 154202519 697 False 403.000000 403 77.406000 2282 2991 1 chr7D.!!$F1 709
5 TraesCS3D01G544900 chr7D 595934214 595934853 639 False 315.000000 315 76.006000 2281 2910 1 chr7D.!!$F2 629
6 TraesCS3D01G544900 chr5D 11436460 11437124 664 False 370.000000 370 77.025000 2275 2945 1 chr5D.!!$F1 670
7 TraesCS3D01G544900 chr5D 425035862 425036506 644 False 346.000000 346 76.840000 2275 2910 1 chr5D.!!$F2 635
8 TraesCS3D01G544900 chr5A 105413064 105413713 649 True 337.000000 337 76.462000 2275 2931 1 chr5A.!!$R1 656
9 TraesCS3D01G544900 chr5A 625734144 625734790 646 True 287.000000 287 75.113000 2275 2927 1 chr5A.!!$R2 652
10 TraesCS3D01G544900 chr6B 631805205 631805870 665 False 281.000000 281 74.743000 2275 2945 1 chr6B.!!$F1 670

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
664 1882 0.60613 TGGTGCTGCACGATCAATGT 60.606 50.0 24.86 0.0 34.83 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2217 3479 0.036388 AACATAGGCGTGGGTGAGTG 60.036 55.0 0.0 0.0 0.0 3.51 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
86 87 2.681591 AGGTCGTCCTCCATCGGA 59.318 61.111 0.00 0.00 40.58 4.55
129 130 4.873129 CGCTGCGCTACGGTGGAT 62.873 66.667 9.88 0.00 0.00 3.41
130 131 2.962253 GCTGCGCTACGGTGGATC 60.962 66.667 9.73 0.00 0.00 3.36
247 273 3.712907 GGGCCCGGTCAGCTGTAA 61.713 66.667 14.67 0.00 0.00 2.41
268 294 3.793819 ATTGCAATGGGCCTTTTCTTT 57.206 38.095 12.09 0.00 43.89 2.52
271 297 4.470334 TGCAATGGGCCTTTTCTTTATC 57.530 40.909 4.53 0.00 43.89 1.75
272 298 3.837146 TGCAATGGGCCTTTTCTTTATCA 59.163 39.130 4.53 0.00 43.89 2.15
273 299 4.183865 GCAATGGGCCTTTTCTTTATCAC 58.816 43.478 4.53 0.00 36.11 3.06
275 301 3.825908 TGGGCCTTTTCTTTATCACCT 57.174 42.857 4.53 0.00 0.00 4.00
276 302 3.430453 TGGGCCTTTTCTTTATCACCTG 58.570 45.455 4.53 0.00 0.00 4.00
277 303 3.075283 TGGGCCTTTTCTTTATCACCTGA 59.925 43.478 4.53 0.00 0.00 3.86
278 304 3.444034 GGGCCTTTTCTTTATCACCTGAC 59.556 47.826 0.84 0.00 0.00 3.51
279 305 3.444034 GGCCTTTTCTTTATCACCTGACC 59.556 47.826 0.00 0.00 0.00 4.02
280 306 4.079253 GCCTTTTCTTTATCACCTGACCA 58.921 43.478 0.00 0.00 0.00 4.02
281 307 4.522789 GCCTTTTCTTTATCACCTGACCAA 59.477 41.667 0.00 0.00 0.00 3.67
282 308 5.010617 GCCTTTTCTTTATCACCTGACCAAA 59.989 40.000 0.00 0.00 0.00 3.28
283 309 6.447162 CCTTTTCTTTATCACCTGACCAAAC 58.553 40.000 0.00 0.00 0.00 2.93
284 310 6.040391 CCTTTTCTTTATCACCTGACCAAACA 59.960 38.462 0.00 0.00 0.00 2.83
285 311 7.255942 CCTTTTCTTTATCACCTGACCAAACAT 60.256 37.037 0.00 0.00 0.00 2.71
286 312 6.817765 TTCTTTATCACCTGACCAAACATC 57.182 37.500 0.00 0.00 0.00 3.06
287 313 6.126863 TCTTTATCACCTGACCAAACATCT 57.873 37.500 0.00 0.00 0.00 2.90
313 339 4.800471 GCCTGTTTTGCTTGAGTATATTGC 59.200 41.667 0.00 0.00 0.00 3.56
315 341 5.323371 TGTTTTGCTTGAGTATATTGCCC 57.677 39.130 0.00 0.00 0.00 5.36
318 344 4.981806 TTGCTTGAGTATATTGCCCAAC 57.018 40.909 0.00 0.00 0.00 3.77
319 345 3.287222 TGCTTGAGTATATTGCCCAACC 58.713 45.455 0.00 0.00 0.00 3.77
376 1591 3.245229 ACAATGCCACCCTTATGTTCTCA 60.245 43.478 0.00 0.00 0.00 3.27
462 1677 3.758554 ACAAACATATGGGACTGTGCTTC 59.241 43.478 7.80 0.00 0.00 3.86
647 1865 3.381272 AGCCAAACATATCGGTTGAATGG 59.619 43.478 4.97 0.00 0.00 3.16
662 1880 1.402968 GAATGGTGCTGCACGATCAAT 59.597 47.619 26.66 14.18 31.94 2.57
664 1882 0.606130 TGGTGCTGCACGATCAATGT 60.606 50.000 24.86 0.00 34.83 2.71
670 1888 1.395954 CTGCACGATCAATGTGTCTGG 59.604 52.381 0.00 0.00 39.53 3.86
679 1897 1.264020 CAATGTGTCTGGTTCCACACG 59.736 52.381 0.00 0.00 45.03 4.49
791 2009 4.672899 ACCAAAACCCACATAGTAAGCAT 58.327 39.130 0.00 0.00 0.00 3.79
792 2010 5.822204 ACCAAAACCCACATAGTAAGCATA 58.178 37.500 0.00 0.00 0.00 3.14
793 2011 6.431722 ACCAAAACCCACATAGTAAGCATAT 58.568 36.000 0.00 0.00 0.00 1.78
794 2012 7.579105 ACCAAAACCCACATAGTAAGCATATA 58.421 34.615 0.00 0.00 0.00 0.86
828 2046 2.098117 AGATTTTGGCAGCAGCGATAAC 59.902 45.455 0.00 0.00 43.41 1.89
834 2052 2.872245 TGGCAGCAGCGATAACTAATTC 59.128 45.455 0.00 0.00 43.41 2.17
875 2093 6.033966 CCCCGTAACAAAGAATAAGAAATGC 58.966 40.000 0.00 0.00 0.00 3.56
928 2146 3.763897 CCCGAATGGATCCAAAAGAGTTT 59.236 43.478 20.67 6.34 37.49 2.66
973 2194 1.070601 GCACCCAGCAGGAAAACAAAT 59.929 47.619 0.00 0.00 44.79 2.32
974 2195 2.485302 GCACCCAGCAGGAAAACAAATT 60.485 45.455 0.00 0.00 44.79 1.82
975 2196 3.244044 GCACCCAGCAGGAAAACAAATTA 60.244 43.478 0.00 0.00 44.79 1.40
976 2197 4.742138 GCACCCAGCAGGAAAACAAATTAA 60.742 41.667 0.00 0.00 44.79 1.40
1095 2354 2.280445 CGTTGCCGAAAACAAAAAGGTC 59.720 45.455 0.00 0.00 35.63 3.85
1103 2362 5.064579 CCGAAAACAAAAAGGTCAATTGCTT 59.935 36.000 0.00 0.00 0.00 3.91
1111 2370 2.508526 AGGTCAATTGCTTGTCCTGTC 58.491 47.619 0.00 0.00 45.46 3.51
1136 2395 2.734606 CTGGTTCATTCGTTCGCTTGTA 59.265 45.455 0.00 0.00 0.00 2.41
1186 2445 1.070289 CTAAACCTACGGGATGCCTCC 59.930 57.143 0.28 0.00 41.26 4.30
1239 2498 3.717707 CGTCATCGGAGATGGTTATGTT 58.282 45.455 9.77 0.00 45.12 2.71
1285 2544 0.470080 GGTCATGGGGATCCTCTCGA 60.470 60.000 14.22 6.31 0.00 4.04
1488 2747 6.293900 GCTATCTAAGTACTCCCTCGGTAAAC 60.294 46.154 0.00 0.00 0.00 2.01
1494 2753 9.294614 CTAAGTACTCCCTCGGTAAACTAATAT 57.705 37.037 0.00 0.00 0.00 1.28
1497 2756 7.887495 AGTACTCCCTCGGTAAACTAATATAGG 59.113 40.741 0.00 0.00 0.00 2.57
1499 2758 5.969086 TCCCTCGGTAAACTAATATAGGGT 58.031 41.667 0.00 0.00 42.58 4.34
1500 2759 6.012745 TCCCTCGGTAAACTAATATAGGGTC 58.987 44.000 0.00 0.00 42.58 4.46
1501 2760 5.105997 CCCTCGGTAAACTAATATAGGGTCG 60.106 48.000 0.00 0.00 38.09 4.79
1502 2761 5.105997 CCTCGGTAAACTAATATAGGGTCGG 60.106 48.000 0.00 0.00 0.00 4.79
1503 2762 5.385198 TCGGTAAACTAATATAGGGTCGGT 58.615 41.667 0.00 0.00 0.00 4.69
1504 2763 5.241506 TCGGTAAACTAATATAGGGTCGGTG 59.758 44.000 0.00 0.00 0.00 4.94
1505 2764 5.241506 CGGTAAACTAATATAGGGTCGGTGA 59.758 44.000 0.00 0.00 0.00 4.02
1506 2765 6.569226 CGGTAAACTAATATAGGGTCGGTGAG 60.569 46.154 0.00 0.00 0.00 3.51
1507 2766 6.491403 GGTAAACTAATATAGGGTCGGTGAGA 59.509 42.308 0.00 0.00 0.00 3.27
1508 2767 7.178097 GGTAAACTAATATAGGGTCGGTGAGAT 59.822 40.741 0.00 0.00 0.00 2.75
1509 2768 6.837471 AACTAATATAGGGTCGGTGAGATC 57.163 41.667 0.00 0.00 0.00 2.75
1510 2769 5.888901 ACTAATATAGGGTCGGTGAGATCA 58.111 41.667 0.00 0.00 0.00 2.92
1511 2770 5.711036 ACTAATATAGGGTCGGTGAGATCAC 59.289 44.000 4.33 4.33 45.72 3.06
1512 2771 2.757894 ATAGGGTCGGTGAGATCACT 57.242 50.000 12.43 0.00 45.73 3.41
1513 2772 3.878237 ATAGGGTCGGTGAGATCACTA 57.122 47.619 12.43 0.00 45.73 2.74
1514 2773 2.526888 AGGGTCGGTGAGATCACTAA 57.473 50.000 12.43 0.00 45.73 2.24
1515 2774 2.816411 AGGGTCGGTGAGATCACTAAA 58.184 47.619 12.43 0.00 45.73 1.85
1679 2941 5.414789 TCATGAAAATAGGTTGGTCTCGA 57.585 39.130 0.00 0.00 0.00 4.04
1798 3060 3.074412 GTCAAACACGGACAAGATGGAT 58.926 45.455 0.00 0.00 35.36 3.41
1837 3099 2.044252 CTGCTGGCCCTTGATGCT 60.044 61.111 0.00 0.00 0.00 3.79
1839 3101 3.145551 GCTGGCCCTTGATGCTGG 61.146 66.667 0.00 0.00 0.00 4.85
1906 3168 1.224039 CTACCTCGACCGTCTCCCT 59.776 63.158 0.00 0.00 0.00 4.20
1922 3184 1.422161 CCCTGGGGATGATGAGGACC 61.422 65.000 4.27 0.00 37.50 4.46
1925 3187 0.253113 TGGGGATGATGAGGACCACA 60.253 55.000 0.00 0.00 33.13 4.17
1943 3205 5.788450 ACCACAATGACAACAACAAGAAAA 58.212 33.333 0.00 0.00 0.00 2.29
1996 3258 1.688735 AGTCAGCTAGCATAATGGCGA 59.311 47.619 18.83 0.00 39.27 5.54
1998 3260 1.688735 TCAGCTAGCATAATGGCGACT 59.311 47.619 18.83 0.00 39.27 4.18
2000 3262 0.514691 GCTAGCATAATGGCGACTGC 59.485 55.000 10.63 0.00 39.27 4.40
2098 3360 8.451908 AAAGACATAAAACCTATACCAGCATC 57.548 34.615 0.00 0.00 0.00 3.91
2180 3442 2.307496 TTGTGAACAGCCCATGGAAT 57.693 45.000 15.22 0.00 0.00 3.01
2188 3450 2.099405 CAGCCCATGGAATAACCGTTT 58.901 47.619 15.22 0.00 42.61 3.60
2190 3452 1.470805 GCCCATGGAATAACCGTTTGC 60.471 52.381 15.22 0.00 42.61 3.68
2204 3466 2.004017 CGTTTGCTAAATGGGCGACTA 58.996 47.619 0.00 0.00 0.00 2.59
2207 3469 3.343941 TTGCTAAATGGGCGACTAGTT 57.656 42.857 0.00 0.00 32.51 2.24
2216 3478 0.953960 GGCGACTAGTTGGGTGGTTG 60.954 60.000 12.18 0.00 0.00 3.77
2217 3479 1.574702 GCGACTAGTTGGGTGGTTGC 61.575 60.000 12.18 0.00 31.87 4.17
2218 3480 0.250124 CGACTAGTTGGGTGGTTGCA 60.250 55.000 1.70 0.00 0.00 4.08
2219 3481 1.235724 GACTAGTTGGGTGGTTGCAC 58.764 55.000 0.00 0.00 0.00 4.57
2220 3482 0.843984 ACTAGTTGGGTGGTTGCACT 59.156 50.000 0.00 0.00 0.00 4.40
2221 3483 1.202770 ACTAGTTGGGTGGTTGCACTC 60.203 52.381 0.00 0.00 0.00 3.51
2222 3484 0.840617 TAGTTGGGTGGTTGCACTCA 59.159 50.000 0.00 0.00 33.06 3.41
2223 3485 0.751643 AGTTGGGTGGTTGCACTCAC 60.752 55.000 9.44 9.44 34.94 3.51
2226 3488 2.194597 GGTGGTTGCACTCACCCA 59.805 61.111 21.09 5.48 45.60 4.51
2227 3489 3.432186 GTGGTTGCACTCACCCAC 58.568 61.111 3.60 3.69 46.24 4.61
2228 3490 2.203139 TGGTTGCACTCACCCACG 60.203 61.111 3.60 0.00 29.03 4.94
2229 3491 3.660111 GGTTGCACTCACCCACGC 61.660 66.667 0.00 0.00 0.00 5.34
2230 3492 3.660111 GTTGCACTCACCCACGCC 61.660 66.667 0.00 0.00 0.00 5.68
2231 3493 3.872603 TTGCACTCACCCACGCCT 61.873 61.111 0.00 0.00 0.00 5.52
2232 3494 2.512355 TTGCACTCACCCACGCCTA 61.512 57.895 0.00 0.00 0.00 3.93
2233 3495 1.836999 TTGCACTCACCCACGCCTAT 61.837 55.000 0.00 0.00 0.00 2.57
2234 3496 1.815421 GCACTCACCCACGCCTATG 60.815 63.158 0.00 0.00 0.00 2.23
2235 3497 1.596934 CACTCACCCACGCCTATGT 59.403 57.895 0.00 0.00 0.00 2.29
2236 3498 0.036388 CACTCACCCACGCCTATGTT 60.036 55.000 0.00 0.00 0.00 2.71
2237 3499 0.690762 ACTCACCCACGCCTATGTTT 59.309 50.000 0.00 0.00 0.00 2.83
2238 3500 1.338769 ACTCACCCACGCCTATGTTTC 60.339 52.381 0.00 0.00 0.00 2.78
2239 3501 0.981183 TCACCCACGCCTATGTTTCT 59.019 50.000 0.00 0.00 0.00 2.52
2240 3502 1.086696 CACCCACGCCTATGTTTCTG 58.913 55.000 0.00 0.00 0.00 3.02
2241 3503 0.981183 ACCCACGCCTATGTTTCTGA 59.019 50.000 0.00 0.00 0.00 3.27
2242 3504 1.559682 ACCCACGCCTATGTTTCTGAT 59.440 47.619 0.00 0.00 0.00 2.90
2243 3505 1.942657 CCCACGCCTATGTTTCTGATG 59.057 52.381 0.00 0.00 0.00 3.07
2244 3506 2.632377 CCACGCCTATGTTTCTGATGT 58.368 47.619 0.00 0.00 0.00 3.06
2245 3507 3.009723 CCACGCCTATGTTTCTGATGTT 58.990 45.455 0.00 0.00 0.00 2.71
2246 3508 4.188462 CCACGCCTATGTTTCTGATGTTA 58.812 43.478 0.00 0.00 0.00 2.41
2247 3509 4.816385 CCACGCCTATGTTTCTGATGTTAT 59.184 41.667 0.00 0.00 0.00 1.89
2248 3510 5.296780 CCACGCCTATGTTTCTGATGTTATT 59.703 40.000 0.00 0.00 0.00 1.40
2249 3511 6.481976 CCACGCCTATGTTTCTGATGTTATTA 59.518 38.462 0.00 0.00 0.00 0.98
2250 3512 7.307396 CCACGCCTATGTTTCTGATGTTATTAG 60.307 40.741 0.00 0.00 0.00 1.73
2251 3513 7.224753 CACGCCTATGTTTCTGATGTTATTAGT 59.775 37.037 0.00 0.00 0.00 2.24
2252 3514 7.224753 ACGCCTATGTTTCTGATGTTATTAGTG 59.775 37.037 0.00 0.00 0.00 2.74
2253 3515 7.355778 GCCTATGTTTCTGATGTTATTAGTGC 58.644 38.462 0.00 0.00 0.00 4.40
2254 3516 7.520614 GCCTATGTTTCTGATGTTATTAGTGCC 60.521 40.741 0.00 0.00 0.00 5.01
2255 3517 7.498900 CCTATGTTTCTGATGTTATTAGTGCCA 59.501 37.037 0.00 0.00 0.00 4.92
2256 3518 6.741992 TGTTTCTGATGTTATTAGTGCCAG 57.258 37.500 0.00 0.00 0.00 4.85
2257 3519 6.472016 TGTTTCTGATGTTATTAGTGCCAGA 58.528 36.000 0.00 0.00 0.00 3.86
2258 3520 6.595326 TGTTTCTGATGTTATTAGTGCCAGAG 59.405 38.462 0.00 0.00 31.86 3.35
2259 3521 5.282055 TCTGATGTTATTAGTGCCAGAGG 57.718 43.478 0.00 0.00 0.00 3.69
2260 3522 4.962362 TCTGATGTTATTAGTGCCAGAGGA 59.038 41.667 0.00 0.00 0.00 3.71
2261 3523 5.023533 TGATGTTATTAGTGCCAGAGGAC 57.976 43.478 0.00 0.00 0.00 3.85
2262 3524 3.520290 TGTTATTAGTGCCAGAGGACG 57.480 47.619 0.00 0.00 0.00 4.79
2263 3525 2.829720 TGTTATTAGTGCCAGAGGACGT 59.170 45.455 0.00 0.00 0.00 4.34
2264 3526 3.259876 TGTTATTAGTGCCAGAGGACGTT 59.740 43.478 0.00 0.00 0.00 3.99
2265 3527 4.463539 TGTTATTAGTGCCAGAGGACGTTA 59.536 41.667 0.00 0.00 0.00 3.18
2266 3528 5.047164 TGTTATTAGTGCCAGAGGACGTTAA 60.047 40.000 0.00 0.00 0.00 2.01
2267 3529 4.755266 ATTAGTGCCAGAGGACGTTAAT 57.245 40.909 0.00 0.00 0.00 1.40
2268 3530 2.386661 AGTGCCAGAGGACGTTAATG 57.613 50.000 0.00 0.00 0.00 1.90
2269 3531 1.623811 AGTGCCAGAGGACGTTAATGT 59.376 47.619 0.00 0.00 0.00 2.71
2270 3532 2.829720 AGTGCCAGAGGACGTTAATGTA 59.170 45.455 0.00 0.00 0.00 2.29
2271 3533 3.119101 AGTGCCAGAGGACGTTAATGTAG 60.119 47.826 0.00 0.00 0.00 2.74
2272 3534 3.093814 TGCCAGAGGACGTTAATGTAGA 58.906 45.455 0.00 0.00 0.00 2.59
2273 3535 3.512329 TGCCAGAGGACGTTAATGTAGAA 59.488 43.478 0.00 0.00 0.00 2.10
2300 3563 5.883673 TCGACAAAGGGTGGATTTTATTAGG 59.116 40.000 0.00 0.00 28.37 2.69
2319 3582 7.961326 ATTAGGTTAAAATGGAGCATCAAGT 57.039 32.000 0.00 0.00 36.25 3.16
2321 3584 5.079643 AGGTTAAAATGGAGCATCAAGTGT 58.920 37.500 0.00 0.00 36.25 3.55
2347 3611 0.679505 ACACTATGAGCACACACCGT 59.320 50.000 0.00 0.00 0.00 4.83
2360 3624 2.167219 CACCGTCCTATGCACAGCG 61.167 63.158 0.00 0.00 0.00 5.18
2413 3681 3.808726 ACACAAAATACGCCGACAACTAA 59.191 39.130 0.00 0.00 0.00 2.24
2434 3703 4.301637 ACAAAGCGTAAAAGACCAAAGG 57.698 40.909 0.00 0.00 0.00 3.11
2460 3729 4.023536 TGTGTAGGCGAGGAAAAATGAAAC 60.024 41.667 0.00 0.00 0.00 2.78
2471 3740 4.509970 GGAAAAATGAAACAGAAAACCCGG 59.490 41.667 0.00 0.00 0.00 5.73
2473 3742 5.545063 AAAATGAAACAGAAAACCCGGAT 57.455 34.783 0.73 0.00 0.00 4.18
2520 3790 5.443230 TGTACCAATGACCATATCCACAA 57.557 39.130 0.00 0.00 0.00 3.33
2529 3799 2.817258 ACCATATCCACAACAACCAACG 59.183 45.455 0.00 0.00 0.00 4.10
2562 3832 4.761739 ACATGGTCGACAATGTTCTTCAAT 59.238 37.500 29.13 7.58 0.00 2.57
2616 3886 1.300465 CCGCCGTCATCAGATCCAG 60.300 63.158 0.00 0.00 0.00 3.86
2620 3890 0.395686 CCGTCATCAGATCCAGCCAT 59.604 55.000 0.00 0.00 0.00 4.40
2647 3919 5.405797 GCTTGAATCTTGATTTTCACCCTC 58.594 41.667 0.00 0.00 31.87 4.30
2651 3923 6.985117 TGAATCTTGATTTTCACCCTCAAAG 58.015 36.000 0.00 0.00 0.00 2.77
2689 3961 1.706443 GAGCAATGCCTTCAACAAGC 58.294 50.000 0.00 0.00 0.00 4.01
2719 3996 1.660560 AAGACATCGCCATTGCCAGC 61.661 55.000 0.00 0.00 0.00 4.85
2720 3997 2.044650 ACATCGCCATTGCCAGCT 60.045 55.556 0.00 0.00 0.00 4.24
2721 3998 2.332362 GACATCGCCATTGCCAGCTG 62.332 60.000 6.78 6.78 0.00 4.24
2727 4004 0.954452 GCCATTGCCAGCTGGTATAC 59.046 55.000 32.81 17.25 37.57 1.47
2766 4045 0.676151 GGCTTTCACCCAGAGCTCAG 60.676 60.000 17.77 8.01 36.66 3.35
2815 4096 1.137086 AGTCACTCAAGTGTTGTCGCT 59.863 47.619 9.82 0.00 45.76 4.93
2822 4103 1.526887 CAAGTGTTGTCGCTACCACTG 59.473 52.381 1.91 0.00 38.14 3.66
2823 4104 0.600255 AGTGTTGTCGCTACCACTGC 60.600 55.000 0.49 0.00 36.82 4.40
2835 4116 2.584418 CACTGCTCTGCGATCCCG 60.584 66.667 0.00 0.00 39.16 5.14
2837 4118 3.842923 CTGCTCTGCGATCCCGGT 61.843 66.667 0.00 0.00 36.06 5.28
2924 4216 0.238817 TTTGCATAACACCGCCGAAC 59.761 50.000 0.00 0.00 0.00 3.95
2925 4217 0.885150 TTGCATAACACCGCCGAACA 60.885 50.000 0.00 0.00 0.00 3.18
2931 4223 4.007940 CACCGCCGAACACAACCG 62.008 66.667 0.00 0.00 0.00 4.44
2946 4238 1.961180 AACCGCCGGATCTTGAGAGG 61.961 60.000 11.71 0.00 0.00 3.69
2966 4258 1.549170 GCTAACCTTCTCCGAAGACCA 59.451 52.381 5.24 0.00 0.00 4.02
2978 4270 0.804989 GAAGACCATTCGGCAACCAG 59.195 55.000 0.00 0.00 34.57 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 4.128643 CTCTTCTCCGAATACTCCTACGT 58.871 47.826 0.00 0.00 0.00 3.57
123 124 3.217242 CGATTGATCCGGATCCACC 57.783 57.895 35.72 19.90 37.02 4.61
223 249 4.292145 TGACCGGGCCCATTGCAA 62.292 61.111 24.92 0.00 43.89 4.08
224 250 4.738998 CTGACCGGGCCCATTGCA 62.739 66.667 24.92 12.90 43.89 4.08
230 256 2.552231 ATTTACAGCTGACCGGGCCC 62.552 60.000 23.35 13.57 0.00 5.80
247 273 3.793819 AAGAAAAGGCCCATTGCAATT 57.206 38.095 9.83 0.00 43.89 2.32
268 294 3.118775 CCGAGATGTTTGGTCAGGTGATA 60.119 47.826 0.00 0.00 0.00 2.15
271 297 1.442769 CCGAGATGTTTGGTCAGGTG 58.557 55.000 0.00 0.00 0.00 4.00
272 298 0.321653 GCCGAGATGTTTGGTCAGGT 60.322 55.000 0.00 0.00 32.26 4.00
273 299 1.026718 GGCCGAGATGTTTGGTCAGG 61.027 60.000 0.00 0.00 34.80 3.86
275 301 0.321564 CAGGCCGAGATGTTTGGTCA 60.322 55.000 0.00 0.00 37.42 4.02
276 302 0.321653 ACAGGCCGAGATGTTTGGTC 60.322 55.000 0.00 0.00 34.89 4.02
277 303 0.110486 AACAGGCCGAGATGTTTGGT 59.890 50.000 2.36 0.00 36.23 3.67
278 304 1.247567 AAACAGGCCGAGATGTTTGG 58.752 50.000 17.39 0.00 45.38 3.28
279 305 2.664916 CAAAACAGGCCGAGATGTTTG 58.335 47.619 18.47 13.59 46.16 2.93
281 307 0.598065 GCAAAACAGGCCGAGATGTT 59.402 50.000 2.36 2.36 41.28 2.71
282 308 0.250901 AGCAAAACAGGCCGAGATGT 60.251 50.000 0.00 0.00 0.00 3.06
283 309 0.883833 AAGCAAAACAGGCCGAGATG 59.116 50.000 0.00 0.00 0.00 2.90
284 310 0.883833 CAAGCAAAACAGGCCGAGAT 59.116 50.000 0.00 0.00 0.00 2.75
285 311 0.179032 TCAAGCAAAACAGGCCGAGA 60.179 50.000 0.00 0.00 0.00 4.04
286 312 0.239347 CTCAAGCAAAACAGGCCGAG 59.761 55.000 0.00 0.00 0.00 4.63
287 313 0.465460 ACTCAAGCAAAACAGGCCGA 60.465 50.000 0.00 0.00 0.00 5.54
313 339 0.894835 GGGTAGCATTGTTGGTTGGG 59.105 55.000 0.00 0.00 34.79 4.12
315 341 5.659440 AATAAGGGTAGCATTGTTGGTTG 57.341 39.130 1.41 0.00 34.79 3.77
318 344 4.869861 GCAAAATAAGGGTAGCATTGTTGG 59.130 41.667 1.41 0.00 0.00 3.77
319 345 5.723295 AGCAAAATAAGGGTAGCATTGTTG 58.277 37.500 1.41 5.21 0.00 3.33
353 1568 3.763897 GAGAACATAAGGGTGGCATTGTT 59.236 43.478 0.00 0.00 0.00 2.83
355 1570 3.355378 TGAGAACATAAGGGTGGCATTG 58.645 45.455 0.00 0.00 0.00 2.82
356 1571 3.737559 TGAGAACATAAGGGTGGCATT 57.262 42.857 0.00 0.00 0.00 3.56
357 1572 3.737559 TTGAGAACATAAGGGTGGCAT 57.262 42.857 0.00 0.00 0.00 4.40
358 1573 3.517296 TTTGAGAACATAAGGGTGGCA 57.483 42.857 0.00 0.00 0.00 4.92
359 1574 4.864704 TTTTTGAGAACATAAGGGTGGC 57.135 40.909 0.00 0.00 0.00 5.01
432 1647 5.357878 CAGTCCCATATGTTTGTGCAGTAAT 59.642 40.000 1.24 0.00 0.00 1.89
462 1677 3.303329 CGTGATTACATGATGGCTTTCGG 60.303 47.826 0.00 0.00 35.25 4.30
647 1865 0.518636 ACACATTGATCGTGCAGCAC 59.481 50.000 16.21 16.21 37.93 4.40
662 1880 0.537653 TTCGTGTGGAACCAGACACA 59.462 50.000 18.55 4.30 44.60 3.72
664 1882 1.066071 TGTTTCGTGTGGAACCAGACA 60.066 47.619 18.55 5.79 39.78 3.41
670 1888 3.963383 ACTCAATGTTTCGTGTGGAAC 57.037 42.857 0.00 0.00 33.42 3.62
700 1918 8.859236 ATTTATATGATGATGGTGTTCCTCAG 57.141 34.615 0.00 0.00 34.23 3.35
763 1981 7.663043 TTACTATGTGGGTTTTGGTCTTTTT 57.337 32.000 0.00 0.00 0.00 1.94
765 1983 5.243060 GCTTACTATGTGGGTTTTGGTCTTT 59.757 40.000 0.00 0.00 0.00 2.52
770 1988 6.959639 ATATGCTTACTATGTGGGTTTTGG 57.040 37.500 0.00 0.00 0.00 3.28
791 2009 6.708949 GCCAAAATCTCAAGGAACGGTATATA 59.291 38.462 0.00 0.00 0.00 0.86
792 2010 5.531287 GCCAAAATCTCAAGGAACGGTATAT 59.469 40.000 0.00 0.00 0.00 0.86
793 2011 4.879545 GCCAAAATCTCAAGGAACGGTATA 59.120 41.667 0.00 0.00 0.00 1.47
794 2012 3.694566 GCCAAAATCTCAAGGAACGGTAT 59.305 43.478 0.00 0.00 0.00 2.73
828 2046 7.148407 GGGGAAATCTATGCATGTACGAATTAG 60.148 40.741 10.16 0.00 0.00 1.73
834 2052 2.736721 CGGGGAAATCTATGCATGTACG 59.263 50.000 10.16 0.00 0.00 3.67
875 2093 1.532868 GATTACTATGCTGCTTGCCGG 59.467 52.381 0.00 0.00 42.00 6.13
973 2194 3.052455 TGCTTGAGGATCGTTGCTTAA 57.948 42.857 9.27 0.00 38.61 1.85
974 2195 2.760634 TGCTTGAGGATCGTTGCTTA 57.239 45.000 9.27 0.00 38.61 3.09
975 2196 2.012673 GATGCTTGAGGATCGTTGCTT 58.987 47.619 0.00 4.69 38.61 3.91
976 2197 1.065926 TGATGCTTGAGGATCGTTGCT 60.066 47.619 7.80 0.00 44.53 3.91
1095 2354 3.087031 AGATGGACAGGACAAGCAATTG 58.913 45.455 0.00 0.00 0.00 2.32
1103 2362 1.728323 TGAACCAGATGGACAGGACA 58.272 50.000 5.72 0.00 38.94 4.02
1111 2370 1.062587 GCGAACGAATGAACCAGATGG 59.937 52.381 0.00 0.00 42.17 3.51
1186 2445 1.376543 AACTGAGGCTGCAATCGATG 58.623 50.000 0.00 0.00 0.00 3.84
1239 2498 1.810755 AGACGTGAGAACTCGCACATA 59.189 47.619 13.01 0.00 45.11 2.29
1285 2544 3.037431 GGTGATTAGCAGCGAGATCAT 57.963 47.619 10.34 0.00 34.99 2.45
1488 2747 6.197364 GTGATCTCACCGACCCTATATTAG 57.803 45.833 0.00 0.00 40.85 1.73
1500 2759 7.113684 GATCTAAACGATTTAGTGATCTCACCG 59.886 40.741 6.71 5.71 42.49 4.94
1501 2760 7.921214 TGATCTAAACGATTTAGTGATCTCACC 59.079 37.037 6.71 0.00 42.49 4.02
1502 2761 8.747666 GTGATCTAAACGATTTAGTGATCTCAC 58.252 37.037 13.52 2.01 42.49 3.51
1503 2762 8.687242 AGTGATCTAAACGATTTAGTGATCTCA 58.313 33.333 13.52 9.23 42.49 3.27
1505 2764 9.953697 GTAGTGATCTAAACGATTTAGTGATCT 57.046 33.333 13.52 11.31 42.49 2.75
1506 2765 9.953697 AGTAGTGATCTAAACGATTTAGTGATC 57.046 33.333 13.52 11.54 42.49 2.92
1577 2836 6.929606 CGACCTTAATTAATTACTCCCTCTGG 59.070 42.308 7.43 3.74 0.00 3.86
1580 2839 7.983484 TGAACGACCTTAATTAATTACTCCCTC 59.017 37.037 7.43 1.12 0.00 4.30
1679 2941 1.203052 CAGCATCACCAAAGCCGAAAT 59.797 47.619 0.00 0.00 0.00 2.17
1837 3099 1.067295 AGACAAACCAGATGAGCCCA 58.933 50.000 0.00 0.00 0.00 5.36
1839 3101 0.807496 GCAGACAAACCAGATGAGCC 59.193 55.000 0.00 0.00 0.00 4.70
1906 3168 0.253113 TGTGGTCCTCATCATCCCCA 60.253 55.000 0.00 0.00 0.00 4.96
1922 3184 7.961855 TCATTTTTCTTGTTGTTGTCATTGTG 58.038 30.769 0.00 0.00 0.00 3.33
1925 3187 7.254863 GCCATCATTTTTCTTGTTGTTGTCATT 60.255 33.333 0.00 0.00 0.00 2.57
1943 3205 1.949525 GGCTACAATGTCGCCATCATT 59.050 47.619 21.95 0.00 42.82 2.57
2000 3262 0.886490 GACAAGGTGGCACTGTCTGG 60.886 60.000 24.67 12.43 0.00 3.86
2001 3263 0.886490 GGACAAGGTGGCACTGTCTG 60.886 60.000 28.27 18.23 0.00 3.51
2165 3427 1.676006 CGGTTATTCCATGGGCTGTTC 59.324 52.381 13.02 0.00 35.57 3.18
2180 3442 1.469308 CGCCCATTTAGCAAACGGTTA 59.531 47.619 0.00 0.00 0.00 2.85
2188 3450 2.627945 CAACTAGTCGCCCATTTAGCA 58.372 47.619 0.00 0.00 0.00 3.49
2190 3452 2.093128 ACCCAACTAGTCGCCCATTTAG 60.093 50.000 0.00 0.00 0.00 1.85
2197 3459 0.953960 CAACCACCCAACTAGTCGCC 60.954 60.000 0.00 0.00 0.00 5.54
2204 3466 0.751643 GTGAGTGCAACCACCCAACT 60.752 55.000 8.16 0.00 43.09 3.16
2207 3469 2.194597 GGTGAGTGCAACCACCCA 59.805 61.111 21.85 0.00 46.14 4.51
2216 3478 1.815421 CATAGGCGTGGGTGAGTGC 60.815 63.158 0.00 0.00 0.00 4.40
2217 3479 0.036388 AACATAGGCGTGGGTGAGTG 60.036 55.000 0.00 0.00 0.00 3.51
2218 3480 0.690762 AAACATAGGCGTGGGTGAGT 59.309 50.000 0.00 0.00 0.00 3.41
2219 3481 1.066143 AGAAACATAGGCGTGGGTGAG 60.066 52.381 0.00 0.00 0.00 3.51
2220 3482 0.981183 AGAAACATAGGCGTGGGTGA 59.019 50.000 0.00 0.00 0.00 4.02
2221 3483 1.086696 CAGAAACATAGGCGTGGGTG 58.913 55.000 0.00 0.00 0.00 4.61
2222 3484 0.981183 TCAGAAACATAGGCGTGGGT 59.019 50.000 0.00 0.00 0.00 4.51
2223 3485 1.942657 CATCAGAAACATAGGCGTGGG 59.057 52.381 0.00 0.00 0.00 4.61
2224 3486 2.632377 ACATCAGAAACATAGGCGTGG 58.368 47.619 0.00 0.00 0.00 4.94
2225 3487 5.991328 ATAACATCAGAAACATAGGCGTG 57.009 39.130 0.00 0.00 0.00 5.34
2226 3488 7.224753 CACTAATAACATCAGAAACATAGGCGT 59.775 37.037 0.00 0.00 0.00 5.68
2227 3489 7.567571 CACTAATAACATCAGAAACATAGGCG 58.432 38.462 0.00 0.00 0.00 5.52
2228 3490 7.355778 GCACTAATAACATCAGAAACATAGGC 58.644 38.462 0.00 0.00 0.00 3.93
2229 3491 7.498900 TGGCACTAATAACATCAGAAACATAGG 59.501 37.037 0.00 0.00 0.00 2.57
2230 3492 8.437360 TGGCACTAATAACATCAGAAACATAG 57.563 34.615 0.00 0.00 0.00 2.23
2231 3493 8.264347 TCTGGCACTAATAACATCAGAAACATA 58.736 33.333 0.00 0.00 0.00 2.29
2232 3494 7.112122 TCTGGCACTAATAACATCAGAAACAT 58.888 34.615 0.00 0.00 0.00 2.71
2233 3495 6.472016 TCTGGCACTAATAACATCAGAAACA 58.528 36.000 0.00 0.00 0.00 2.83
2234 3496 6.037610 CCTCTGGCACTAATAACATCAGAAAC 59.962 42.308 0.00 0.00 30.76 2.78
2235 3497 6.070251 TCCTCTGGCACTAATAACATCAGAAA 60.070 38.462 0.00 0.00 30.76 2.52
2236 3498 5.425217 TCCTCTGGCACTAATAACATCAGAA 59.575 40.000 0.00 0.00 30.76 3.02
2237 3499 4.962362 TCCTCTGGCACTAATAACATCAGA 59.038 41.667 0.00 0.00 0.00 3.27
2238 3500 5.053145 GTCCTCTGGCACTAATAACATCAG 58.947 45.833 0.00 0.00 0.00 2.90
2239 3501 4.441495 CGTCCTCTGGCACTAATAACATCA 60.441 45.833 0.00 0.00 0.00 3.07
2240 3502 4.051922 CGTCCTCTGGCACTAATAACATC 58.948 47.826 0.00 0.00 0.00 3.06
2241 3503 3.451178 ACGTCCTCTGGCACTAATAACAT 59.549 43.478 0.00 0.00 0.00 2.71
2242 3504 2.829720 ACGTCCTCTGGCACTAATAACA 59.170 45.455 0.00 0.00 0.00 2.41
2243 3505 3.521947 ACGTCCTCTGGCACTAATAAC 57.478 47.619 0.00 0.00 0.00 1.89
2244 3506 5.664294 TTAACGTCCTCTGGCACTAATAA 57.336 39.130 0.00 0.00 0.00 1.40
2245 3507 5.128171 ACATTAACGTCCTCTGGCACTAATA 59.872 40.000 0.00 0.00 0.00 0.98
2246 3508 4.081087 ACATTAACGTCCTCTGGCACTAAT 60.081 41.667 0.00 0.00 0.00 1.73
2247 3509 3.259876 ACATTAACGTCCTCTGGCACTAA 59.740 43.478 0.00 0.00 0.00 2.24
2248 3510 2.829720 ACATTAACGTCCTCTGGCACTA 59.170 45.455 0.00 0.00 0.00 2.74
2249 3511 1.623811 ACATTAACGTCCTCTGGCACT 59.376 47.619 0.00 0.00 0.00 4.40
2250 3512 2.094762 ACATTAACGTCCTCTGGCAC 57.905 50.000 0.00 0.00 0.00 5.01
2251 3513 3.093814 TCTACATTAACGTCCTCTGGCA 58.906 45.455 0.00 0.00 0.00 4.92
2252 3514 3.795623 TCTACATTAACGTCCTCTGGC 57.204 47.619 0.00 0.00 0.00 4.85
2253 3515 6.019801 CGAAATTCTACATTAACGTCCTCTGG 60.020 42.308 0.00 0.00 0.00 3.86
2254 3516 6.750501 TCGAAATTCTACATTAACGTCCTCTG 59.249 38.462 0.00 0.00 0.00 3.35
2255 3517 6.750963 GTCGAAATTCTACATTAACGTCCTCT 59.249 38.462 0.00 0.00 0.00 3.69
2256 3518 6.529125 TGTCGAAATTCTACATTAACGTCCTC 59.471 38.462 0.00 0.00 0.00 3.71
2257 3519 6.392354 TGTCGAAATTCTACATTAACGTCCT 58.608 36.000 0.00 0.00 0.00 3.85
2258 3520 6.636666 TGTCGAAATTCTACATTAACGTCC 57.363 37.500 0.00 0.00 0.00 4.79
2259 3521 7.686938 CCTTTGTCGAAATTCTACATTAACGTC 59.313 37.037 1.14 0.00 0.00 4.34
2260 3522 7.360607 CCCTTTGTCGAAATTCTACATTAACGT 60.361 37.037 1.14 0.00 0.00 3.99
2261 3523 6.959311 CCCTTTGTCGAAATTCTACATTAACG 59.041 38.462 1.14 0.00 0.00 3.18
2262 3524 7.749126 CACCCTTTGTCGAAATTCTACATTAAC 59.251 37.037 1.14 0.00 0.00 2.01
2263 3525 7.094549 CCACCCTTTGTCGAAATTCTACATTAA 60.095 37.037 1.14 0.00 0.00 1.40
2264 3526 6.373216 CCACCCTTTGTCGAAATTCTACATTA 59.627 38.462 1.14 0.00 0.00 1.90
2265 3527 5.183140 CCACCCTTTGTCGAAATTCTACATT 59.817 40.000 1.14 0.00 0.00 2.71
2266 3528 4.700213 CCACCCTTTGTCGAAATTCTACAT 59.300 41.667 1.14 0.00 0.00 2.29
2267 3529 4.069304 CCACCCTTTGTCGAAATTCTACA 58.931 43.478 0.00 0.00 0.00 2.74
2268 3530 4.320870 TCCACCCTTTGTCGAAATTCTAC 58.679 43.478 0.00 0.00 0.00 2.59
2269 3531 4.627284 TCCACCCTTTGTCGAAATTCTA 57.373 40.909 0.00 0.00 0.00 2.10
2270 3532 3.502123 TCCACCCTTTGTCGAAATTCT 57.498 42.857 0.00 0.00 0.00 2.40
2271 3533 4.783764 AATCCACCCTTTGTCGAAATTC 57.216 40.909 0.00 0.00 0.00 2.17
2272 3534 5.545063 AAAATCCACCCTTTGTCGAAATT 57.455 34.783 0.00 0.00 0.00 1.82
2273 3535 6.850752 ATAAAATCCACCCTTTGTCGAAAT 57.149 33.333 0.00 0.00 0.00 2.17
2300 3563 8.673711 TGTATACACTTGATGCTCCATTTTAAC 58.326 33.333 0.08 0.00 0.00 2.01
2319 3582 6.367695 GTGTGTGCTCATAGTGTTTGTATACA 59.632 38.462 0.08 0.08 0.00 2.29
2321 3584 5.872617 GGTGTGTGCTCATAGTGTTTGTATA 59.127 40.000 0.00 0.00 0.00 1.47
2347 3611 1.807755 GCATCTTCGCTGTGCATAGGA 60.808 52.381 12.79 5.17 38.68 2.94
2360 3624 4.507710 TGGTGTTGTCTATCTGCATCTTC 58.492 43.478 0.00 0.00 0.00 2.87
2369 3633 5.699001 TGTATGTGTGTTGGTGTTGTCTATC 59.301 40.000 0.00 0.00 0.00 2.08
2374 3638 3.348119 TGTGTATGTGTGTTGGTGTTGT 58.652 40.909 0.00 0.00 0.00 3.32
2413 3681 3.697542 ACCTTTGGTCTTTTACGCTTTGT 59.302 39.130 0.00 0.00 0.00 2.83
2434 3703 4.873827 TCATTTTTCCTCGCCTACACATAC 59.126 41.667 0.00 0.00 0.00 2.39
2460 3729 3.592059 TCTAAACGATCCGGGTTTTCTG 58.408 45.455 11.77 4.86 38.47 3.02
2471 3740 3.661936 GCAAATCGCGGATCTAAACGATC 60.662 47.826 6.13 0.00 43.91 3.69
2473 3742 1.591158 GCAAATCGCGGATCTAAACGA 59.409 47.619 6.13 0.00 39.11 3.85
2520 3790 2.215196 GTGGTGTCATACGTTGGTTGT 58.785 47.619 0.00 0.00 0.00 3.32
2545 3815 6.545508 CATTGCTATTGAAGAACATTGTCGA 58.454 36.000 0.00 0.00 0.00 4.20
2550 3820 5.927281 AGGCATTGCTATTGAAGAACATT 57.073 34.783 8.82 0.00 0.00 2.71
2616 3886 7.845632 TGAAAATCAAGATTCAAGCCTTATGGC 60.846 37.037 11.67 11.67 43.55 4.40
2620 3890 6.071391 GGGTGAAAATCAAGATTCAAGCCTTA 60.071 38.462 0.00 0.00 37.31 2.69
2647 3919 7.062839 GCTCGGATATGCTTAGACTTATCTTTG 59.937 40.741 0.00 0.00 36.29 2.77
2651 3923 5.955488 TGCTCGGATATGCTTAGACTTATC 58.045 41.667 0.00 0.00 0.00 1.75
2689 3961 1.266404 GCGATGTCTTTGCGTCGTTAG 60.266 52.381 9.02 0.00 46.20 2.34
2766 4045 2.585247 GCTACGTGCATCCGGTCC 60.585 66.667 0.00 0.00 42.31 4.46
2786 4067 1.001597 ACTTGAGTGACTTCGACGGTC 60.002 52.381 9.89 9.89 0.00 4.79
2822 4103 2.336809 CTACCGGGATCGCAGAGC 59.663 66.667 6.32 0.00 43.63 4.09
2823 4104 0.889638 TAGCTACCGGGATCGCAGAG 60.890 60.000 6.32 4.61 43.63 3.35
2835 4116 0.931005 GCACATCGCTTGTAGCTACC 59.069 55.000 21.01 5.04 39.60 3.18
2837 4118 0.454196 TCGCACATCGCTTGTAGCTA 59.546 50.000 0.00 0.00 39.60 3.32
2924 4216 1.361668 CTCAAGATCCGGCGGTTGTG 61.362 60.000 27.32 18.87 0.00 3.33
2925 4217 1.079127 CTCAAGATCCGGCGGTTGT 60.079 57.895 27.32 14.00 0.00 3.32
2931 4223 0.753262 TTAGCCTCTCAAGATCCGGC 59.247 55.000 0.00 1.52 40.99 6.13
2946 4238 1.549170 TGGTCTTCGGAGAAGGTTAGC 59.451 52.381 0.00 2.08 45.90 3.09
2966 4258 1.369091 GATGACGCTGGTTGCCGAAT 61.369 55.000 0.00 0.00 38.78 3.34
2973 4265 3.056458 TCCACGATGACGCTGGTT 58.944 55.556 0.00 0.00 43.96 3.67


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

AutoCloner maintained by Alex Coulton.