Multiple sequence alignment - TraesCS6B01G149800

Loading Multiple Alignment...

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 TraesCS6B01G149800 chr6B 100.000 6195 0 0 1 6195 151126202 151132396 0.000000e+00 11441
1 TraesCS6B01G149800 chr6B 79.013 1601 320 12 3590 5179 694677701 694679296 0.000000e+00 1081
2 TraesCS6B01G149800 chr6B 84.699 183 20 5 1091 1266 694674556 694674737 6.380000e-40 176
3 TraesCS6B01G149800 chr6D 94.043 5842 222 60 17 5783 78263712 78269502 0.000000e+00 8745
4 TraesCS6B01G149800 chr6D 87.220 313 30 6 14 323 78254593 78254898 1.280000e-91 348
5 TraesCS6B01G149800 chr6D 92.562 121 9 0 331 451 78263576 78263696 2.300000e-39 174
6 TraesCS6B01G149800 chr6A 94.001 4634 195 42 1236 5832 93810940 93815527 0.000000e+00 6940
7 TraesCS6B01G149800 chr6A 88.789 1668 105 37 1 1631 93809324 93810946 0.000000e+00 1969
8 TraesCS6B01G149800 chr7A 78.826 1601 323 12 3590 5179 625638940 625640535 0.000000e+00 1064
9 TraesCS6B01G149800 chr7A 84.699 183 20 5 1091 1266 625636004 625636185 6.380000e-40 176
10 TraesCS6B01G149800 chr7D 78.763 1601 324 12 3590 5179 543728162 543729757 0.000000e+00 1059
11 TraesCS6B01G149800 chr7D 91.011 356 29 3 5841 6195 617770176 617769823 1.560000e-130 477
12 TraesCS6B01G149800 chr7D 84.699 183 20 5 1091 1266 543725269 543725450 6.380000e-40 176
13 TraesCS6B01G149800 chr3A 91.218 353 26 4 5844 6195 728775910 728776258 5.620000e-130 475
14 TraesCS6B01G149800 chr2B 92.727 330 22 2 5868 6195 756947559 756947888 5.620000e-130 475
15 TraesCS6B01G149800 chr2B 92.121 330 23 3 5868 6195 776896009 776895681 4.370000e-126 462
16 TraesCS6B01G149800 chr1D 92.705 329 19 4 5868 6195 452335111 452335435 2.610000e-128 470
17 TraesCS6B01G149800 chr1D 92.705 329 19 4 5868 6195 452352986 452352662 2.610000e-128 470
18 TraesCS6B01G149800 chr1B 92.424 330 20 4 5868 6195 367558898 367559224 3.380000e-127 466
19 TraesCS6B01G149800 chr1B 91.642 335 24 3 5861 6195 32447690 32447360 1.570000e-125 460
20 TraesCS6B01G149800 chr3D 92.073 328 22 2 5868 6195 254460095 254459772 5.660000e-125 459


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 TraesCS6B01G149800 chr6B 151126202 151132396 6194 False 11441.0 11441 100.0000 1 6195 1 chr6B.!!$F1 6194
1 TraesCS6B01G149800 chr6B 694674556 694679296 4740 False 628.5 1081 81.8560 1091 5179 2 chr6B.!!$F2 4088
2 TraesCS6B01G149800 chr6D 78263576 78269502 5926 False 4459.5 8745 93.3025 17 5783 2 chr6D.!!$F2 5766
3 TraesCS6B01G149800 chr6A 93809324 93815527 6203 False 4454.5 6940 91.3950 1 5832 2 chr6A.!!$F1 5831
4 TraesCS6B01G149800 chr7A 625636004 625640535 4531 False 620.0 1064 81.7625 1091 5179 2 chr7A.!!$F1 4088
5 TraesCS6B01G149800 chr7D 543725269 543729757 4488 False 617.5 1059 81.7310 1091 5179 2 chr7D.!!$F1 4088

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
896 1050 0.610232 CTCCCACTTTTCCCCAGCAG 60.610 60.0 0.00 0.0 0.00 4.24 F
1297 1471 0.179189 CCGCCGATTTTGTCTTCTGC 60.179 55.0 0.00 0.0 0.00 4.26 F
1842 3034 0.332632 ATGTGTTGTGGGGGATCTGG 59.667 55.0 0.00 0.0 0.00 3.86 F
2141 3336 2.843730 TCTAGCTCCACTCTGAGTCTCT 59.156 50.0 7.49 5.3 34.74 3.10 F
3693 6277 1.573108 TGCCTAGAGGAAGGAACTGG 58.427 55.0 0.00 0.0 39.15 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1827 3019 0.681243 GAAGCCAGATCCCCCACAAC 60.681 60.0 0.0 0.0 0.00 3.32 R
3033 4904 0.239613 TTGCACACACACACACACAC 59.760 50.0 0.0 0.0 0.00 3.82 R
3693 6277 0.393537 CAGCAGATCACCCTGGAACC 60.394 60.0 0.0 0.0 34.82 3.62 R
4021 6611 5.919141 ACGTTTACATACAGAGTTCACAGAC 59.081 40.0 0.0 0.0 0.00 3.51 R
5284 7884 0.601311 GGCGACTCTGAAACACTGCT 60.601 55.0 0.0 0.0 0.00 4.24 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
21 25 3.086282 GGGACCGAAAGCCATAGAAAAA 58.914 45.455 0.00 0.00 0.00 1.94
66 186 2.032528 CCAGCCAGCCAAACGAGA 59.967 61.111 0.00 0.00 0.00 4.04
74 194 4.038642 AGCCAGCCAAACGAGAAAAATAAA 59.961 37.500 0.00 0.00 0.00 1.40
75 195 4.747605 GCCAGCCAAACGAGAAAAATAAAA 59.252 37.500 0.00 0.00 0.00 1.52
90 210 7.890655 AGAAAAATAAAACCTAGAGCCTGACAT 59.109 33.333 0.00 0.00 0.00 3.06
91 211 9.174166 GAAAAATAAAACCTAGAGCCTGACATA 57.826 33.333 0.00 0.00 0.00 2.29
92 212 9.700831 AAAAATAAAACCTAGAGCCTGACATAT 57.299 29.630 0.00 0.00 0.00 1.78
114 234 3.083997 CCCGCAAGCCCTCCTACT 61.084 66.667 0.00 0.00 0.00 2.57
123 243 2.363795 CCTCCTACTGGCCCGACA 60.364 66.667 0.00 0.00 0.00 4.35
125 245 3.064987 CTCCTACTGGCCCGACACG 62.065 68.421 0.00 0.00 0.00 4.49
134 254 2.878429 CCCGACACGTGAGAGAGG 59.122 66.667 25.01 16.06 0.00 3.69
135 255 2.179517 CCGACACGTGAGAGAGGC 59.820 66.667 25.01 0.00 0.00 4.70
151 272 2.763448 AGAGGCTCATTTCTCTTACGCT 59.237 45.455 18.26 0.00 37.06 5.07
152 273 3.954904 AGAGGCTCATTTCTCTTACGCTA 59.045 43.478 18.26 0.00 37.06 4.26
158 279 6.034591 GCTCATTTCTCTTACGCTAGTAACA 58.965 40.000 0.00 0.00 37.87 2.41
168 289 7.361127 TCTTACGCTAGTAACATAGAAGATGC 58.639 38.462 0.00 0.00 37.87 3.91
237 361 1.029681 TGCATATACGACAGTCGCCT 58.970 50.000 23.09 12.52 45.12 5.52
254 378 1.537990 GCCTGAAAACACGCCAAACAT 60.538 47.619 0.00 0.00 0.00 2.71
258 382 4.208253 CCTGAAAACACGCCAAACATAAAC 59.792 41.667 0.00 0.00 0.00 2.01
285 409 7.454380 TCAATTTGGATGAGTCTAAAACCCAAT 59.546 33.333 0.00 0.00 38.16 3.16
301 425 7.468141 AAACCCAATGACTTTTATCCTCTTC 57.532 36.000 0.00 0.00 0.00 2.87
327 452 2.656069 GCCAGCTCAACCTCCGGTA 61.656 63.158 0.00 0.00 33.12 4.02
376 501 3.436924 CTTTAACCCCCGCACCGC 61.437 66.667 0.00 0.00 0.00 5.68
394 519 1.927210 CGAATGTTCATCCTCGCCG 59.073 57.895 0.00 0.00 0.00 6.46
541 670 6.337356 TCATGAAATTACAGTGAGTGCGATA 58.663 36.000 0.00 0.00 0.00 2.92
576 709 5.979517 CCTTTAAAAGAAAAGACCAGCACTG 59.020 40.000 0.00 0.00 38.50 3.66
578 711 6.959639 TTAAAAGAAAAGACCAGCACTGAT 57.040 33.333 0.00 0.00 0.00 2.90
580 713 2.693069 AGAAAAGACCAGCACTGATCG 58.307 47.619 0.00 0.00 0.00 3.69
704 843 4.948080 ACCCTTCCCACGGACGGT 62.948 66.667 2.84 0.00 39.20 4.83
708 847 2.677524 TTCCCACGGACGGTCGAT 60.678 61.111 1.43 0.00 0.00 3.59
718 857 2.197643 GACGGTCGATATCGCCCTCC 62.198 65.000 21.72 17.22 34.87 4.30
739 878 2.503382 CCCCCACAAACCAAACCCG 61.503 63.158 0.00 0.00 0.00 5.28
756 895 3.735029 GGCACGTCCTCTCGTCGT 61.735 66.667 0.00 0.00 42.27 4.34
834 988 1.468395 GCTTCGTCTTCTTCCTCCTCG 60.468 57.143 0.00 0.00 0.00 4.63
895 1049 1.360393 ACTCCCACTTTTCCCCAGCA 61.360 55.000 0.00 0.00 0.00 4.41
896 1050 0.610232 CTCCCACTTTTCCCCAGCAG 60.610 60.000 0.00 0.00 0.00 4.24
897 1051 2.278330 CCCACTTTTCCCCAGCAGC 61.278 63.158 0.00 0.00 0.00 5.25
898 1052 1.531365 CCACTTTTCCCCAGCAGCA 60.531 57.895 0.00 0.00 0.00 4.41
899 1053 1.530013 CCACTTTTCCCCAGCAGCAG 61.530 60.000 0.00 0.00 0.00 4.24
900 1054 1.905354 ACTTTTCCCCAGCAGCAGC 60.905 57.895 0.00 0.00 42.56 5.25
901 1055 1.904865 CTTTTCCCCAGCAGCAGCA 60.905 57.895 3.17 0.00 45.49 4.41
902 1056 1.874345 CTTTTCCCCAGCAGCAGCAG 61.874 60.000 3.17 0.00 45.49 4.24
950 1110 2.038975 AGGAGCCAACCCTAGCGA 59.961 61.111 0.00 0.00 30.92 4.93
951 1111 2.022240 GAGGAGCCAACCCTAGCGAG 62.022 65.000 0.00 0.00 33.36 5.03
1297 1471 0.179189 CCGCCGATTTTGTCTTCTGC 60.179 55.000 0.00 0.00 0.00 4.26
1417 2411 9.794719 ATCTGAGTACATACTGCTACAATACTA 57.205 33.333 0.00 0.00 36.50 1.82
1460 2454 5.957771 TTAGTGGAACATAGAGCAGGAAT 57.042 39.130 0.00 0.00 44.52 3.01
1576 2768 3.492337 GAGATGGTTAGAGGGAGACGAT 58.508 50.000 0.00 0.00 0.00 3.73
1704 2896 1.878734 GAACGTAGATCTACCTCCCCG 59.121 57.143 24.01 15.09 32.61 5.73
1816 3008 3.808218 ATGGGTGTGTGGGTGGTGC 62.808 63.158 0.00 0.00 0.00 5.01
1827 3019 0.887933 GGGTGGTGCTGGTTTATGTG 59.112 55.000 0.00 0.00 0.00 3.21
1842 3034 0.332632 ATGTGTTGTGGGGGATCTGG 59.667 55.000 0.00 0.00 0.00 3.86
2103 3298 9.046296 AGTGATTCATATTAGGTGAATTTCGAC 57.954 33.333 3.22 0.32 44.10 4.20
2141 3336 2.843730 TCTAGCTCCACTCTGAGTCTCT 59.156 50.000 7.49 5.30 34.74 3.10
2171 3366 3.135348 TGCATCTAATTCCCCACTGAGAG 59.865 47.826 0.00 0.00 0.00 3.20
2213 3408 6.054295 TCGTAGTTAGGAGTCCAGAGTATTC 58.946 44.000 12.86 0.00 0.00 1.75
2355 3554 3.065371 GTGATATGTGGTTGGTTAGCTGC 59.935 47.826 0.00 0.00 0.00 5.25
2370 3569 2.956132 AGCTGCCTATCTGCTCTTCTA 58.044 47.619 0.00 0.00 45.28 2.10
2447 3646 6.357367 AGTTATCTTTGTCTTCAGGTGTTGT 58.643 36.000 0.00 0.00 0.00 3.32
2533 3732 6.214412 AGGATGTCAGTCCTCTTTGAGTTTAT 59.786 38.462 0.00 0.00 45.51 1.40
2739 3938 3.193691 TCAGCTAGTCAACTGTCTTAGGC 59.806 47.826 0.00 0.00 35.37 3.93
2747 3946 5.885912 AGTCAACTGTCTTAGGCTTGAAAAA 59.114 36.000 0.00 0.00 0.00 1.94
2780 3979 4.081420 TGTGGAGAAGCAGTAAGAAGGATC 60.081 45.833 0.00 0.00 0.00 3.36
2781 3980 4.081420 GTGGAGAAGCAGTAAGAAGGATCA 60.081 45.833 0.00 0.00 0.00 2.92
2782 3981 4.081420 TGGAGAAGCAGTAAGAAGGATCAC 60.081 45.833 0.00 0.00 0.00 3.06
3145 5019 7.222224 GCGCTGTAAACTGTTCTACTAATACAT 59.778 37.037 0.00 0.00 0.00 2.29
3316 5190 7.119846 GTGCTTAAATAGTGAAGTTGTGAGGAT 59.880 37.037 0.00 0.00 0.00 3.24
3430 5725 3.221771 TCAACTTGCTAGCAACACCAAT 58.778 40.909 26.06 6.12 0.00 3.16
3503 5801 9.393249 TGTTTGATTTCGATTTTGAGTTATCAC 57.607 29.630 0.00 0.00 34.35 3.06
3581 5879 9.906660 TCTGTTATTGACAATTGTTTTGGTATC 57.093 29.630 13.36 0.00 37.93 2.24
3693 6277 1.573108 TGCCTAGAGGAAGGAACTGG 58.427 55.000 0.00 0.00 39.15 4.00
4021 6611 4.707448 AGATTGTCACCTAGGGATATAGCG 59.293 45.833 14.81 0.00 0.00 4.26
4588 7178 1.629861 TCTTGCACACTGGATGGATCA 59.370 47.619 0.00 0.00 0.00 2.92
4633 7223 0.965866 CCGACTCTGGTGTGCTCCTA 60.966 60.000 0.00 0.00 0.00 2.94
4642 7232 2.500098 TGGTGTGCTCCTAAGTGATACC 59.500 50.000 0.00 0.00 0.00 2.73
4836 7426 3.079578 CAATGGACTTGAGTGATGCTGT 58.920 45.455 0.00 0.00 36.97 4.40
4939 7529 2.813908 GTTGCCGTGAGCCTACCG 60.814 66.667 0.00 0.00 42.71 4.02
5086 7676 2.203480 TTTGCCTGGGGACACAGC 60.203 61.111 0.00 0.00 37.16 4.40
5164 7754 2.412089 GTGGACGCTGACTGAAATACAC 59.588 50.000 0.00 0.00 0.00 2.90
5217 7807 1.538950 CCAGAAAGTCTCCAGCAAAGC 59.461 52.381 0.00 0.00 0.00 3.51
5222 7812 0.036022 AGTCTCCAGCAAAGCTCACC 59.964 55.000 0.00 0.00 36.40 4.02
5226 7816 1.898574 CCAGCAAAGCTCACCGGTT 60.899 57.895 2.97 0.00 36.40 4.44
5228 7818 1.600916 AGCAAAGCTCACCGGTTCC 60.601 57.895 2.97 0.00 30.62 3.62
5229 7819 1.600916 GCAAAGCTCACCGGTTCCT 60.601 57.895 2.97 0.00 31.82 3.36
5230 7820 1.856265 GCAAAGCTCACCGGTTCCTG 61.856 60.000 2.97 0.00 31.82 3.86
5231 7821 0.250295 CAAAGCTCACCGGTTCCTGA 60.250 55.000 2.97 0.00 31.82 3.86
5232 7822 0.472471 AAAGCTCACCGGTTCCTGAA 59.528 50.000 2.97 0.00 31.82 3.02
5233 7823 0.472471 AAGCTCACCGGTTCCTGAAA 59.528 50.000 2.97 0.00 0.00 2.69
5235 7825 1.578206 GCTCACCGGTTCCTGAAAGC 61.578 60.000 2.97 1.66 0.00 3.51
5238 7828 0.609131 CACCGGTTCCTGAAAGCCAT 60.609 55.000 2.97 0.00 31.44 4.40
5239 7829 0.609131 ACCGGTTCCTGAAAGCCATG 60.609 55.000 0.00 0.00 31.44 3.66
5240 7830 1.508088 CGGTTCCTGAAAGCCATGC 59.492 57.895 0.00 0.00 31.44 4.06
5241 7831 1.243342 CGGTTCCTGAAAGCCATGCA 61.243 55.000 0.00 0.00 31.44 3.96
5243 7833 1.344114 GGTTCCTGAAAGCCATGCAAA 59.656 47.619 0.00 0.00 0.00 3.68
5245 7835 2.997986 GTTCCTGAAAGCCATGCAAATG 59.002 45.455 0.00 0.00 0.00 2.32
5251 7851 1.941377 AAGCCATGCAAATGGGAAGA 58.059 45.000 8.41 0.00 41.94 2.87
5260 7860 3.840666 TGCAAATGGGAAGACTAGTCTCT 59.159 43.478 25.34 15.22 39.39 3.10
5272 7872 8.833493 GGAAGACTAGTCTCTAGTAGATCAAAC 58.167 40.741 25.34 1.71 39.39 2.93
5283 7883 4.615513 AGTAGATCAAACCTGGCTACTCT 58.384 43.478 0.00 0.00 36.94 3.24
5284 7884 5.767670 AGTAGATCAAACCTGGCTACTCTA 58.232 41.667 0.00 0.00 36.94 2.43
5304 7904 0.601311 GCAGTGTTTCAGAGTCGCCT 60.601 55.000 0.00 0.00 0.00 5.52
5306 7906 0.039074 AGTGTTTCAGAGTCGCCTCG 60.039 55.000 0.00 0.00 42.86 4.63
5307 7907 0.318784 GTGTTTCAGAGTCGCCTCGT 60.319 55.000 0.00 0.00 42.86 4.18
5310 7912 1.068748 GTTTCAGAGTCGCCTCGTGTA 60.069 52.381 0.00 0.00 42.86 2.90
5329 7931 8.375608 TCGTGTAGTCTATGAAGTAGGAATAC 57.624 38.462 0.00 0.00 0.00 1.89
5338 7940 5.831702 TGAAGTAGGAATACGTTCTCTCC 57.168 43.478 0.00 0.00 34.68 3.71
5350 7961 2.047465 CTCTCCGCTGCTGCTGTT 60.047 61.111 14.03 0.00 36.97 3.16
5489 8100 1.373748 GTCTCCGGCGCAACACTTA 60.374 57.895 10.83 0.00 0.00 2.24
5553 8164 7.961351 TGATGTTGTAATTGGTCCTGAAATTT 58.039 30.769 0.00 0.00 0.00 1.82
5555 8166 7.353414 TGTTGTAATTGGTCCTGAAATTTCA 57.647 32.000 19.45 19.45 35.57 2.69
5626 8237 1.687494 CGCGAGCTGCTTGGTTACTC 61.687 60.000 18.18 0.00 43.27 2.59
5627 8238 0.390472 GCGAGCTGCTTGGTTACTCT 60.390 55.000 18.18 0.00 41.73 3.24
5669 8280 7.733402 TTACTAATACCGCTGACAAAAACTT 57.267 32.000 0.00 0.00 0.00 2.66
5743 8355 5.055265 TCAGGACTGGTTGTATGGAAAAA 57.945 39.130 0.00 0.00 0.00 1.94
5744 8356 4.825085 TCAGGACTGGTTGTATGGAAAAAC 59.175 41.667 0.00 0.00 0.00 2.43
5745 8357 4.582656 CAGGACTGGTTGTATGGAAAAACA 59.417 41.667 0.00 0.00 0.00 2.83
5748 8360 3.895041 ACTGGTTGTATGGAAAAACAGGG 59.105 43.478 5.53 0.00 43.90 4.45
5779 8391 1.081509 CCCCGCGACATTTGTTGTG 60.082 57.895 8.23 4.78 39.18 3.33
5791 8403 7.307101 GCGACATTTGTTGTGGATTGTAATTTT 60.307 33.333 0.00 0.00 39.18 1.82
5794 8406 8.825745 ACATTTGTTGTGGATTGTAATTTTCAC 58.174 29.630 0.00 0.00 37.11 3.18
5817 8429 6.650807 CACAGCTTACAAGGATCTTTCTACAA 59.349 38.462 0.00 0.00 0.00 2.41
5900 8512 9.597170 AAAAGAAATAGGTATTCTTAGTCCGTC 57.403 33.333 2.29 0.00 44.22 4.79
5901 8513 7.893124 AGAAATAGGTATTCTTAGTCCGTCA 57.107 36.000 0.00 0.00 33.41 4.35
5902 8514 8.480133 AGAAATAGGTATTCTTAGTCCGTCAT 57.520 34.615 0.00 0.00 33.41 3.06
5903 8515 8.361139 AGAAATAGGTATTCTTAGTCCGTCATG 58.639 37.037 0.00 0.00 33.41 3.07
5904 8516 4.323553 AGGTATTCTTAGTCCGTCATGC 57.676 45.455 0.00 0.00 0.00 4.06
5905 8517 3.961408 AGGTATTCTTAGTCCGTCATGCT 59.039 43.478 0.00 0.00 0.00 3.79
5906 8518 5.138276 AGGTATTCTTAGTCCGTCATGCTA 58.862 41.667 0.00 0.00 0.00 3.49
5907 8519 5.775701 AGGTATTCTTAGTCCGTCATGCTAT 59.224 40.000 0.00 0.00 0.00 2.97
5908 8520 6.267928 AGGTATTCTTAGTCCGTCATGCTATT 59.732 38.462 0.00 0.00 0.00 1.73
5909 8521 6.929606 GGTATTCTTAGTCCGTCATGCTATTT 59.070 38.462 0.00 0.00 0.00 1.40
5910 8522 7.441458 GGTATTCTTAGTCCGTCATGCTATTTT 59.559 37.037 0.00 0.00 0.00 1.82
5911 8523 6.662414 TTCTTAGTCCGTCATGCTATTTTG 57.338 37.500 0.00 0.00 0.00 2.44
5912 8524 5.730550 TCTTAGTCCGTCATGCTATTTTGT 58.269 37.500 0.00 0.00 0.00 2.83
5913 8525 6.869695 TCTTAGTCCGTCATGCTATTTTGTA 58.130 36.000 0.00 0.00 0.00 2.41
5914 8526 6.978659 TCTTAGTCCGTCATGCTATTTTGTAG 59.021 38.462 0.00 0.00 0.00 2.74
5915 8527 5.339008 AGTCCGTCATGCTATTTTGTAGA 57.661 39.130 0.00 0.00 0.00 2.59
5916 8528 5.730550 AGTCCGTCATGCTATTTTGTAGAA 58.269 37.500 0.00 0.00 0.00 2.10
5917 8529 6.170506 AGTCCGTCATGCTATTTTGTAGAAA 58.829 36.000 0.00 0.00 0.00 2.52
5918 8530 6.653320 AGTCCGTCATGCTATTTTGTAGAAAA 59.347 34.615 0.00 0.00 35.52 2.29
5919 8531 6.741358 GTCCGTCATGCTATTTTGTAGAAAAC 59.259 38.462 0.00 0.00 33.86 2.43
5920 8532 6.027749 CCGTCATGCTATTTTGTAGAAAACC 58.972 40.000 0.00 0.00 33.86 3.27
5921 8533 6.027749 CGTCATGCTATTTTGTAGAAAACCC 58.972 40.000 0.00 0.00 33.86 4.11
5922 8534 6.330278 GTCATGCTATTTTGTAGAAAACCCC 58.670 40.000 0.00 0.00 33.86 4.95
5923 8535 6.152831 GTCATGCTATTTTGTAGAAAACCCCT 59.847 38.462 0.00 0.00 33.86 4.79
5924 8536 5.975693 TGCTATTTTGTAGAAAACCCCTG 57.024 39.130 0.00 0.00 33.86 4.45
5925 8537 5.636123 TGCTATTTTGTAGAAAACCCCTGA 58.364 37.500 0.00 0.00 33.86 3.86
5926 8538 6.252995 TGCTATTTTGTAGAAAACCCCTGAT 58.747 36.000 0.00 0.00 33.86 2.90
5927 8539 6.152661 TGCTATTTTGTAGAAAACCCCTGATG 59.847 38.462 0.00 0.00 33.86 3.07
5928 8540 6.152831 GCTATTTTGTAGAAAACCCCTGATGT 59.847 38.462 0.00 0.00 33.86 3.06
5929 8541 6.994421 ATTTTGTAGAAAACCCCTGATGTT 57.006 33.333 0.00 0.00 33.86 2.71
5930 8542 6.800072 TTTTGTAGAAAACCCCTGATGTTT 57.200 33.333 0.00 0.00 37.52 2.83
5931 8543 6.399639 TTTGTAGAAAACCCCTGATGTTTC 57.600 37.500 0.00 0.00 34.97 2.78
5932 8544 5.319043 TGTAGAAAACCCCTGATGTTTCT 57.681 39.130 0.00 0.00 34.97 2.52
5933 8545 5.070001 TGTAGAAAACCCCTGATGTTTCTG 58.930 41.667 7.57 0.00 34.97 3.02
5934 8546 3.500343 AGAAAACCCCTGATGTTTCTGG 58.500 45.455 0.00 0.00 39.91 3.86
5935 8547 1.632589 AAACCCCTGATGTTTCTGGC 58.367 50.000 0.00 0.00 39.12 4.85
5936 8548 0.482446 AACCCCTGATGTTTCTGGCA 59.518 50.000 0.00 0.00 39.12 4.92
5937 8549 0.706433 ACCCCTGATGTTTCTGGCAT 59.294 50.000 0.00 0.00 39.12 4.40
5938 8550 1.077663 ACCCCTGATGTTTCTGGCATT 59.922 47.619 0.00 0.00 39.12 3.56
5939 8551 2.311542 ACCCCTGATGTTTCTGGCATTA 59.688 45.455 0.00 0.00 39.12 1.90
5940 8552 3.245586 ACCCCTGATGTTTCTGGCATTAA 60.246 43.478 0.00 0.00 39.12 1.40
5941 8553 3.768757 CCCCTGATGTTTCTGGCATTAAA 59.231 43.478 0.00 0.00 39.12 1.52
5942 8554 4.381932 CCCCTGATGTTTCTGGCATTAAAC 60.382 45.833 15.09 15.09 39.12 2.01
5943 8555 4.381932 CCCTGATGTTTCTGGCATTAAACC 60.382 45.833 17.76 8.22 39.12 3.27
5944 8556 4.463891 CCTGATGTTTCTGGCATTAAACCT 59.536 41.667 17.76 11.19 35.23 3.50
5945 8557 5.389859 TGATGTTTCTGGCATTAAACCTG 57.610 39.130 17.76 0.06 35.23 4.00
5946 8558 3.658757 TGTTTCTGGCATTAAACCTGC 57.341 42.857 17.76 0.00 35.23 4.85
5947 8559 2.961741 TGTTTCTGGCATTAAACCTGCA 59.038 40.909 17.76 0.00 41.47 4.41
5948 8560 3.005684 TGTTTCTGGCATTAAACCTGCAG 59.994 43.478 17.76 6.78 41.47 4.41
5949 8561 2.584835 TCTGGCATTAAACCTGCAGT 57.415 45.000 13.81 0.00 41.47 4.40
5950 8562 3.712016 TCTGGCATTAAACCTGCAGTA 57.288 42.857 13.81 0.00 41.47 2.74
5951 8563 3.343617 TCTGGCATTAAACCTGCAGTAC 58.656 45.455 13.81 0.00 41.47 2.73
5952 8564 3.081061 CTGGCATTAAACCTGCAGTACA 58.919 45.455 13.81 0.00 41.47 2.90
5953 8565 3.696045 TGGCATTAAACCTGCAGTACAT 58.304 40.909 13.81 0.00 41.47 2.29
5954 8566 4.849518 TGGCATTAAACCTGCAGTACATA 58.150 39.130 13.81 0.00 41.47 2.29
5955 8567 5.445069 TGGCATTAAACCTGCAGTACATAT 58.555 37.500 13.81 0.00 41.47 1.78
5956 8568 5.890985 TGGCATTAAACCTGCAGTACATATT 59.109 36.000 13.81 0.98 41.47 1.28
5957 8569 7.057264 TGGCATTAAACCTGCAGTACATATTA 58.943 34.615 13.81 0.05 41.47 0.98
5958 8570 7.558081 TGGCATTAAACCTGCAGTACATATTAA 59.442 33.333 13.81 8.69 41.47 1.40
5959 8571 8.410141 GGCATTAAACCTGCAGTACATATTAAA 58.590 33.333 13.81 0.00 41.47 1.52
5960 8572 9.965824 GCATTAAACCTGCAGTACATATTAAAT 57.034 29.630 13.81 0.00 39.46 1.40
5999 8611 9.715121 ACTCATATCTTTTAAACCGTAACTTCA 57.285 29.630 0.00 0.00 0.00 3.02
6109 8721 8.525290 AAAAATACTATCTAGGCTGCAATGTT 57.475 30.769 0.50 0.00 0.00 2.71
6110 8722 9.627123 AAAAATACTATCTAGGCTGCAATGTTA 57.373 29.630 0.50 0.00 0.00 2.41
6111 8723 9.627123 AAAATACTATCTAGGCTGCAATGTTAA 57.373 29.630 0.50 0.00 0.00 2.01
6112 8724 9.799106 AAATACTATCTAGGCTGCAATGTTAAT 57.201 29.630 0.50 0.00 0.00 1.40
6113 8725 9.442047 AATACTATCTAGGCTGCAATGTTAATC 57.558 33.333 0.50 0.00 0.00 1.75
6114 8726 6.830912 ACTATCTAGGCTGCAATGTTAATCA 58.169 36.000 0.50 0.00 0.00 2.57
6115 8727 7.282585 ACTATCTAGGCTGCAATGTTAATCAA 58.717 34.615 0.50 0.00 0.00 2.57
6116 8728 5.818136 TCTAGGCTGCAATGTTAATCAAC 57.182 39.130 0.50 0.00 35.06 3.18
6157 8769 6.548441 TTTTTCACACCGGTACTGATTTAG 57.452 37.500 6.87 0.00 0.00 1.85
6158 8770 3.880047 TCACACCGGTACTGATTTAGG 57.120 47.619 6.87 0.00 0.00 2.69
6159 8771 3.167485 TCACACCGGTACTGATTTAGGT 58.833 45.455 6.87 0.00 0.00 3.08
6160 8772 3.579586 TCACACCGGTACTGATTTAGGTT 59.420 43.478 6.87 0.00 0.00 3.50
6161 8773 3.682858 CACACCGGTACTGATTTAGGTTG 59.317 47.826 6.87 0.00 0.00 3.77
6162 8774 3.267483 CACCGGTACTGATTTAGGTTGG 58.733 50.000 6.87 0.00 0.00 3.77
6163 8775 2.237893 ACCGGTACTGATTTAGGTTGGG 59.762 50.000 4.49 0.00 0.00 4.12
6164 8776 2.420967 CCGGTACTGATTTAGGTTGGGG 60.421 54.545 2.31 0.00 0.00 4.96
6165 8777 2.502538 CGGTACTGATTTAGGTTGGGGA 59.497 50.000 0.00 0.00 0.00 4.81
6166 8778 3.135895 CGGTACTGATTTAGGTTGGGGAT 59.864 47.826 0.00 0.00 0.00 3.85
6167 8779 4.461198 GGTACTGATTTAGGTTGGGGATG 58.539 47.826 0.00 0.00 0.00 3.51
6168 8780 4.165372 GGTACTGATTTAGGTTGGGGATGA 59.835 45.833 0.00 0.00 0.00 2.92
6169 8781 4.946160 ACTGATTTAGGTTGGGGATGAA 57.054 40.909 0.00 0.00 0.00 2.57
6170 8782 4.600062 ACTGATTTAGGTTGGGGATGAAC 58.400 43.478 0.00 0.00 0.00 3.18
6171 8783 4.044065 ACTGATTTAGGTTGGGGATGAACA 59.956 41.667 0.00 0.00 0.00 3.18
6172 8784 4.340617 TGATTTAGGTTGGGGATGAACAC 58.659 43.478 0.00 0.00 0.00 3.32
6173 8785 2.891191 TTAGGTTGGGGATGAACACC 57.109 50.000 0.00 0.00 43.64 4.16
6174 8786 2.053747 TAGGTTGGGGATGAACACCT 57.946 50.000 0.00 0.00 43.74 4.00
6175 8787 0.698818 AGGTTGGGGATGAACACCTC 59.301 55.000 0.00 0.00 43.74 3.85
6176 8788 0.404040 GGTTGGGGATGAACACCTCA 59.596 55.000 0.00 0.00 43.74 3.86
6177 8789 1.614317 GGTTGGGGATGAACACCTCAG 60.614 57.143 0.00 0.00 43.74 3.35
6178 8790 0.038166 TTGGGGATGAACACCTCAGC 59.962 55.000 0.00 0.00 43.74 4.26
6179 8791 1.133181 TGGGGATGAACACCTCAGCA 61.133 55.000 0.00 0.00 42.55 4.41
6180 8792 0.038166 GGGGATGAACACCTCAGCAA 59.962 55.000 0.00 0.00 42.55 3.91
6181 8793 1.547675 GGGGATGAACACCTCAGCAAA 60.548 52.381 0.00 0.00 42.55 3.68
6182 8794 2.238521 GGGATGAACACCTCAGCAAAA 58.761 47.619 0.00 0.00 42.55 2.44
6183 8795 2.827921 GGGATGAACACCTCAGCAAAAT 59.172 45.455 0.00 0.00 42.55 1.82
6184 8796 3.119352 GGGATGAACACCTCAGCAAAATC 60.119 47.826 0.00 0.00 42.55 2.17
6185 8797 3.507233 GGATGAACACCTCAGCAAAATCA 59.493 43.478 0.00 0.00 42.55 2.57
6186 8798 4.380233 GGATGAACACCTCAGCAAAATCAG 60.380 45.833 0.00 0.00 42.55 2.90
6187 8799 2.294233 TGAACACCTCAGCAAAATCAGC 59.706 45.455 0.00 0.00 0.00 4.26
6188 8800 1.985473 ACACCTCAGCAAAATCAGCA 58.015 45.000 0.00 0.00 0.00 4.41
6189 8801 2.522185 ACACCTCAGCAAAATCAGCAT 58.478 42.857 0.00 0.00 0.00 3.79
6190 8802 2.895404 ACACCTCAGCAAAATCAGCATT 59.105 40.909 0.00 0.00 0.00 3.56
6191 8803 3.250744 CACCTCAGCAAAATCAGCATTG 58.749 45.455 0.00 0.00 0.00 2.82
6192 8804 2.232941 ACCTCAGCAAAATCAGCATTGG 59.767 45.455 0.00 0.00 0.00 3.16
6193 8805 2.494471 CCTCAGCAAAATCAGCATTGGA 59.506 45.455 0.00 0.00 0.00 3.53
6194 8806 3.508762 CTCAGCAAAATCAGCATTGGAC 58.491 45.455 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 25 4.398044 CCTACCAGTTAATGCGTGGATTTT 59.602 41.667 0.00 0.00 35.17 1.82
66 186 9.700831 ATATGTCAGGCTCTAGGTTTTATTTTT 57.299 29.630 0.00 0.00 0.00 1.94
74 194 3.389329 CCACATATGTCAGGCTCTAGGTT 59.611 47.826 5.07 0.00 0.00 3.50
75 195 2.968574 CCACATATGTCAGGCTCTAGGT 59.031 50.000 5.07 0.00 0.00 3.08
108 228 3.066190 CGTGTCGGGCCAGTAGGA 61.066 66.667 4.39 0.00 36.89 2.94
114 234 3.680786 CTCTCACGTGTCGGGCCA 61.681 66.667 16.51 0.00 0.00 5.36
134 254 6.034591 TGTTACTAGCGTAAGAGAAATGAGC 58.965 40.000 0.00 0.00 36.35 4.26
135 255 9.388346 CTATGTTACTAGCGTAAGAGAAATGAG 57.612 37.037 0.00 0.00 36.35 2.90
142 262 7.535940 GCATCTTCTATGTTACTAGCGTAAGAG 59.464 40.741 0.00 0.00 36.35 2.85
143 263 7.361127 GCATCTTCTATGTTACTAGCGTAAGA 58.639 38.462 0.00 0.00 36.35 2.10
144 264 6.583050 GGCATCTTCTATGTTACTAGCGTAAG 59.417 42.308 0.00 0.00 36.35 2.34
145 265 6.040054 TGGCATCTTCTATGTTACTAGCGTAA 59.960 38.462 0.00 0.00 33.38 3.18
168 289 9.188588 GTGCAAGATGTGAAATATCAAATATGG 57.811 33.333 0.00 0.00 36.85 2.74
237 361 5.000012 AGTTTATGTTTGGCGTGTTTTCA 58.000 34.783 0.00 0.00 0.00 2.69
258 382 6.434028 TGGGTTTTAGACTCATCCAAATTGAG 59.566 38.462 0.00 0.00 44.95 3.02
276 400 7.309194 CGAAGAGGATAAAAGTCATTGGGTTTT 60.309 37.037 3.45 3.45 0.00 2.43
277 401 6.151144 CGAAGAGGATAAAAGTCATTGGGTTT 59.849 38.462 0.00 0.00 0.00 3.27
376 501 1.927210 CGGCGAGGATGAACATTCG 59.073 57.895 0.00 5.02 36.23 3.34
394 519 2.509336 CGGTGGAGACGATGTGGC 60.509 66.667 0.00 0.00 0.00 5.01
541 670 6.680148 TTTCTTTTAAAGGGGCTTTGCTAT 57.320 33.333 4.77 0.00 35.21 2.97
580 713 2.125961 AGGGTAGTGCGACCGGATC 61.126 63.158 9.46 0.32 40.76 3.36
704 843 3.371063 GCGGGAGGGCGATATCGA 61.371 66.667 28.63 0.00 43.02 3.59
718 857 2.840102 TTTGGTTTGTGGGGGCGG 60.840 61.111 0.00 0.00 0.00 6.13
739 878 3.664223 GACGACGAGAGGACGTGCC 62.664 68.421 2.38 0.00 46.52 5.01
834 988 0.035739 TAGCCGGATTTAATCGGGGC 59.964 55.000 25.78 24.17 46.50 5.80
1297 1471 0.527817 GCCCAGACCGTAATCACTCG 60.528 60.000 0.00 0.00 0.00 4.18
1417 2411 7.607991 CACTAAATCAGTTCCAATCCAGTAACT 59.392 37.037 0.00 0.00 34.26 2.24
1460 2454 3.271729 TGCAAACCAGTTGAACTACGAA 58.728 40.909 0.00 0.00 39.87 3.85
1576 2768 0.106918 AGGGCAAACAAACCGTGAGA 60.107 50.000 0.00 0.00 0.00 3.27
1704 2896 2.744741 GGCTTCCTTTACTGTTCTCAGC 59.255 50.000 0.00 0.00 44.77 4.26
1816 3008 1.892474 CCCCCACAACACATAAACCAG 59.108 52.381 0.00 0.00 0.00 4.00
1827 3019 0.681243 GAAGCCAGATCCCCCACAAC 60.681 60.000 0.00 0.00 0.00 3.32
1842 3034 2.021355 AGCAGCATGTACTCAGAAGC 57.979 50.000 0.00 0.00 39.31 3.86
1964 3156 3.719268 TGGTATCAGCACCAAACAGAT 57.281 42.857 0.00 0.00 45.65 2.90
2103 3298 5.826586 AGCTAGATGTGTGTATCTCTTTCG 58.173 41.667 0.00 0.00 38.35 3.46
2141 3336 4.079844 TGGGGAATTAGATGCATGTTCTCA 60.080 41.667 2.46 4.14 0.00 3.27
2171 3366 3.467803 ACGATATGGCTTCCTTTACTGC 58.532 45.455 0.00 0.00 0.00 4.40
2213 3408 4.287766 ACAAAGCCCTTAACTGGACTAG 57.712 45.455 0.00 0.00 0.00 2.57
2290 3489 6.098552 TCTCTTTCTGATGCTTCTGATCTGAT 59.901 38.462 9.51 0.00 30.59 2.90
2291 3490 5.421374 TCTCTTTCTGATGCTTCTGATCTGA 59.579 40.000 9.51 0.00 30.91 3.27
2292 3491 5.521010 GTCTCTTTCTGATGCTTCTGATCTG 59.479 44.000 9.51 0.00 30.91 2.90
2293 3492 5.395546 GGTCTCTTTCTGATGCTTCTGATCT 60.396 44.000 9.51 0.00 30.91 2.75
2294 3493 4.810491 GGTCTCTTTCTGATGCTTCTGATC 59.190 45.833 9.51 0.00 30.91 2.92
2355 3554 4.646945 TGTTGGAGTAGAAGAGCAGATAGG 59.353 45.833 0.00 0.00 0.00 2.57
2447 3646 7.953005 TTCCAATGAATAATTAACAGGAGCA 57.047 32.000 0.00 0.00 0.00 4.26
2475 3674 3.011708 AGGCAGGTGTTCCATCCTAAATT 59.988 43.478 0.00 0.00 36.46 1.82
2553 3752 9.167311 AGAGTTGATTATAGAATCCACAAACAC 57.833 33.333 14.58 8.11 39.23 3.32
2606 3805 2.112190 ACTACTAGAGGAAGGGCAAGC 58.888 52.381 0.00 0.00 0.00 4.01
2686 3885 5.135508 TCTTAGACCACACTTCTAGCAAC 57.864 43.478 0.00 0.00 0.00 4.17
2689 3888 8.950208 ATTTAATCTTAGACCACACTTCTAGC 57.050 34.615 0.00 0.00 0.00 3.42
2747 3946 5.688807 ACTGCTTCTCCACATAGCATAATT 58.311 37.500 0.00 0.00 43.33 1.40
2748 3947 5.301835 ACTGCTTCTCCACATAGCATAAT 57.698 39.130 0.00 0.00 43.33 1.28
2780 3979 3.091545 ACCTGATGCTAAATTGGTGGTG 58.908 45.455 0.00 0.00 0.00 4.17
2781 3980 3.010584 AGACCTGATGCTAAATTGGTGGT 59.989 43.478 0.00 0.00 0.00 4.16
2782 3981 3.624777 AGACCTGATGCTAAATTGGTGG 58.375 45.455 0.00 0.00 0.00 4.61
3032 4903 0.886490 TGCACACACACACACACACA 60.886 50.000 0.00 0.00 0.00 3.72
3033 4904 0.239613 TTGCACACACACACACACAC 59.760 50.000 0.00 0.00 0.00 3.82
3034 4905 0.239613 GTTGCACACACACACACACA 59.760 50.000 0.00 0.00 0.00 3.72
3038 4909 0.525311 CCTTGTTGCACACACACACA 59.475 50.000 0.00 0.00 33.98 3.72
3039 4910 0.801836 GCCTTGTTGCACACACACAC 60.802 55.000 0.00 0.00 33.98 3.82
3145 5019 8.208224 TGTGTATCCAGAAAACTTCTAAACAGA 58.792 33.333 0.00 0.00 38.11 3.41
3503 5801 6.495110 TGTAACGTGTTCAACTAAGTTACG 57.505 37.500 19.03 10.14 43.76 3.18
3581 5879 1.860326 CAAAAACCGGCTGCAGAAAAG 59.140 47.619 20.43 4.83 0.00 2.27
3677 6261 3.897141 GAACCCAGTTCCTTCCTCTAG 57.103 52.381 0.00 0.00 36.65 2.43
3693 6277 0.393537 CAGCAGATCACCCTGGAACC 60.394 60.000 0.00 0.00 34.82 3.62
4021 6611 5.919141 ACGTTTACATACAGAGTTCACAGAC 59.081 40.000 0.00 0.00 0.00 3.51
4588 7178 1.402787 CACCAGAAACCACCAGCTTT 58.597 50.000 0.00 0.00 0.00 3.51
4939 7529 7.611855 CCACCAAATATCATAATTCTACCTCCC 59.388 40.741 0.00 0.00 0.00 4.30
4945 7535 8.439971 ACTGAGCCACCAAATATCATAATTCTA 58.560 33.333 0.00 0.00 0.00 2.10
5059 7649 2.045926 CAGGCAAACCTCGGAGGG 60.046 66.667 26.94 11.31 46.34 4.30
5074 7664 2.666190 CACGTGCTGTGTCCCCAG 60.666 66.667 0.82 0.00 43.88 4.45
5086 7676 2.002586 GATCCTTCCATGACACACGTG 58.997 52.381 15.48 15.48 35.47 4.49
5217 7807 0.955919 GGCTTTCAGGAACCGGTGAG 60.956 60.000 8.52 0.00 0.00 3.51
5222 7812 1.243342 TGCATGGCTTTCAGGAACCG 61.243 55.000 0.00 0.00 0.00 4.44
5226 7816 1.551430 CCATTTGCATGGCTTTCAGGA 59.449 47.619 0.00 0.00 43.95 3.86
5235 7825 4.627255 AGACTAGTCTTCCCATTTGCATGG 60.627 45.833 20.00 0.00 42.70 3.66
5238 7828 3.840666 AGAGACTAGTCTTCCCATTTGCA 59.159 43.478 25.86 0.00 40.61 4.08
5239 7829 4.479786 AGAGACTAGTCTTCCCATTTGC 57.520 45.455 25.86 10.19 40.61 3.68
5240 7830 6.783708 ACTAGAGACTAGTCTTCCCATTTG 57.216 41.667 25.86 12.55 40.61 2.32
5241 7831 7.874252 TCTACTAGAGACTAGTCTTCCCATTT 58.126 38.462 25.86 9.92 40.61 2.32
5243 7833 7.293771 TGATCTACTAGAGACTAGTCTTCCCAT 59.706 40.741 25.86 13.33 40.61 4.00
5245 7835 7.069877 TGATCTACTAGAGACTAGTCTTCCC 57.930 44.000 25.86 13.71 40.61 3.97
5251 7851 7.057894 CCAGGTTTGATCTACTAGAGACTAGT 58.942 42.308 14.41 14.41 36.87 2.57
5260 7860 5.767670 AGAGTAGCCAGGTTTGATCTACTA 58.232 41.667 2.97 0.00 38.95 1.82
5283 7883 1.336887 GGCGACTCTGAAACACTGCTA 60.337 52.381 0.00 0.00 0.00 3.49
5284 7884 0.601311 GGCGACTCTGAAACACTGCT 60.601 55.000 0.00 0.00 0.00 4.24
5304 7904 7.170489 CGTATTCCTACTTCATAGACTACACGA 59.830 40.741 0.00 0.00 31.83 4.35
5306 7906 8.152309 ACGTATTCCTACTTCATAGACTACAC 57.848 38.462 0.00 0.00 31.83 2.90
5307 7907 8.743085 AACGTATTCCTACTTCATAGACTACA 57.257 34.615 0.00 0.00 31.83 2.74
5310 7912 7.994334 AGAGAACGTATTCCTACTTCATAGACT 59.006 37.037 0.00 0.00 35.18 3.24
5329 7931 3.184683 GCAGCAGCGGAGAGAACG 61.185 66.667 0.00 0.00 0.00 3.95
5350 7961 7.128234 AGTTACCTTGTAGTAGACCAAACAA 57.872 36.000 0.00 0.00 0.00 2.83
5511 8122 4.002506 ATCAGTGTCGCCACGGCA 62.003 61.111 9.11 0.00 46.56 5.69
5524 8135 5.882000 TCAGGACCAATTACAACATCATCAG 59.118 40.000 0.00 0.00 0.00 2.90
5626 8237 6.867662 AGTAAACAAACAATGTGAGAGGAG 57.132 37.500 0.00 0.00 42.99 3.69
5627 8238 8.918202 ATTAGTAAACAAACAATGTGAGAGGA 57.082 30.769 0.00 0.00 42.99 3.71
5743 8355 1.202940 GGGAAGCAAAACTCTCCCTGT 60.203 52.381 0.00 0.00 40.16 4.00
5744 8356 1.539157 GGGAAGCAAAACTCTCCCTG 58.461 55.000 0.00 0.00 40.16 4.45
5745 8357 0.405973 GGGGAAGCAAAACTCTCCCT 59.594 55.000 5.98 0.00 41.69 4.20
5748 8360 1.876664 GCGGGGAAGCAAAACTCTC 59.123 57.895 0.00 0.00 37.05 3.20
5779 8391 7.542130 CCTTGTAAGCTGTGAAAATTACAATCC 59.458 37.037 9.14 0.00 43.40 3.01
5791 8403 5.489792 AGAAAGATCCTTGTAAGCTGTGA 57.510 39.130 0.00 0.00 0.00 3.58
5794 8406 7.672983 TTTGTAGAAAGATCCTTGTAAGCTG 57.327 36.000 0.00 0.00 0.00 4.24
5874 8486 9.597170 GACGGACTAAGAATACCTATTTCTTTT 57.403 33.333 4.22 0.00 0.00 2.27
5875 8487 8.755977 TGACGGACTAAGAATACCTATTTCTTT 58.244 33.333 4.22 0.00 0.00 2.52
5876 8488 8.302515 TGACGGACTAAGAATACCTATTTCTT 57.697 34.615 4.33 4.33 0.00 2.52
5877 8489 7.893124 TGACGGACTAAGAATACCTATTTCT 57.107 36.000 0.00 0.00 0.00 2.52
5878 8490 7.116519 GCATGACGGACTAAGAATACCTATTTC 59.883 40.741 0.00 0.00 0.00 2.17
5879 8491 6.929606 GCATGACGGACTAAGAATACCTATTT 59.070 38.462 0.00 0.00 0.00 1.40
5880 8492 6.267928 AGCATGACGGACTAAGAATACCTATT 59.732 38.462 0.00 0.00 0.00 1.73
5881 8493 5.775701 AGCATGACGGACTAAGAATACCTAT 59.224 40.000 0.00 0.00 0.00 2.57
5882 8494 5.138276 AGCATGACGGACTAAGAATACCTA 58.862 41.667 0.00 0.00 0.00 3.08
5883 8495 3.961408 AGCATGACGGACTAAGAATACCT 59.039 43.478 0.00 0.00 0.00 3.08
5884 8496 4.323553 AGCATGACGGACTAAGAATACC 57.676 45.455 0.00 0.00 0.00 2.73
5885 8497 7.948278 AAATAGCATGACGGACTAAGAATAC 57.052 36.000 0.00 0.00 0.00 1.89
5886 8498 7.985184 ACAAAATAGCATGACGGACTAAGAATA 59.015 33.333 0.00 0.00 0.00 1.75
5887 8499 6.823689 ACAAAATAGCATGACGGACTAAGAAT 59.176 34.615 0.00 0.00 0.00 2.40
5888 8500 6.170506 ACAAAATAGCATGACGGACTAAGAA 58.829 36.000 0.00 0.00 0.00 2.52
5889 8501 5.730550 ACAAAATAGCATGACGGACTAAGA 58.269 37.500 0.00 0.00 0.00 2.10
5890 8502 6.978659 TCTACAAAATAGCATGACGGACTAAG 59.021 38.462 0.00 0.00 0.00 2.18
5891 8503 6.869695 TCTACAAAATAGCATGACGGACTAA 58.130 36.000 0.00 0.00 0.00 2.24
5892 8504 6.459670 TCTACAAAATAGCATGACGGACTA 57.540 37.500 0.00 0.00 0.00 2.59
5893 8505 5.339008 TCTACAAAATAGCATGACGGACT 57.661 39.130 0.00 0.00 0.00 3.85
5894 8506 6.417191 TTTCTACAAAATAGCATGACGGAC 57.583 37.500 0.00 0.00 0.00 4.79
5895 8507 6.128117 GGTTTTCTACAAAATAGCATGACGGA 60.128 38.462 0.00 0.00 33.98 4.69
5896 8508 6.027749 GGTTTTCTACAAAATAGCATGACGG 58.972 40.000 0.00 0.00 33.98 4.79
5897 8509 6.027749 GGGTTTTCTACAAAATAGCATGACG 58.972 40.000 0.00 0.00 33.98 4.35
5898 8510 6.152831 AGGGGTTTTCTACAAAATAGCATGAC 59.847 38.462 0.00 0.00 33.98 3.06
5899 8511 6.152661 CAGGGGTTTTCTACAAAATAGCATGA 59.847 38.462 0.00 0.00 33.98 3.07
5900 8512 6.152661 TCAGGGGTTTTCTACAAAATAGCATG 59.847 38.462 0.00 0.00 33.98 4.06
5901 8513 6.252995 TCAGGGGTTTTCTACAAAATAGCAT 58.747 36.000 0.00 0.00 33.98 3.79
5902 8514 5.636123 TCAGGGGTTTTCTACAAAATAGCA 58.364 37.500 0.00 0.00 33.98 3.49
5903 8515 6.152831 ACATCAGGGGTTTTCTACAAAATAGC 59.847 38.462 0.00 0.00 33.98 2.97
5904 8516 7.703058 ACATCAGGGGTTTTCTACAAAATAG 57.297 36.000 0.00 0.00 33.98 1.73
5905 8517 8.485578 AAACATCAGGGGTTTTCTACAAAATA 57.514 30.769 0.00 0.00 35.01 1.40
5906 8518 6.994421 AACATCAGGGGTTTTCTACAAAAT 57.006 33.333 0.00 0.00 33.98 1.82
5907 8519 6.609616 AGAAACATCAGGGGTTTTCTACAAAA 59.390 34.615 0.00 0.00 38.50 2.44
5908 8520 6.040391 CAGAAACATCAGGGGTTTTCTACAAA 59.960 38.462 0.00 0.00 38.50 2.83
5909 8521 5.534654 CAGAAACATCAGGGGTTTTCTACAA 59.465 40.000 0.00 0.00 38.50 2.41
5910 8522 5.070001 CAGAAACATCAGGGGTTTTCTACA 58.930 41.667 0.00 0.00 38.50 2.74
5911 8523 4.459337 CCAGAAACATCAGGGGTTTTCTAC 59.541 45.833 0.00 0.00 38.50 2.59
5912 8524 4.662278 CCAGAAACATCAGGGGTTTTCTA 58.338 43.478 0.00 0.00 38.50 2.10
5913 8525 3.500343 CCAGAAACATCAGGGGTTTTCT 58.500 45.455 0.00 0.00 38.50 2.52
5914 8526 2.029020 GCCAGAAACATCAGGGGTTTTC 60.029 50.000 0.00 0.00 38.50 2.29
5915 8527 1.970640 GCCAGAAACATCAGGGGTTTT 59.029 47.619 0.00 0.00 38.50 2.43
5916 8528 1.133199 TGCCAGAAACATCAGGGGTTT 60.133 47.619 0.00 0.00 40.91 3.27
5917 8529 0.482446 TGCCAGAAACATCAGGGGTT 59.518 50.000 0.00 0.00 0.00 4.11
5918 8530 0.706433 ATGCCAGAAACATCAGGGGT 59.294 50.000 0.00 0.00 0.00 4.95
5919 8531 1.856629 AATGCCAGAAACATCAGGGG 58.143 50.000 0.00 0.00 0.00 4.79
5920 8532 4.381932 GGTTTAATGCCAGAAACATCAGGG 60.382 45.833 7.16 0.00 37.30 4.45
5921 8533 4.463891 AGGTTTAATGCCAGAAACATCAGG 59.536 41.667 7.16 0.00 37.30 3.86
5922 8534 5.404946 CAGGTTTAATGCCAGAAACATCAG 58.595 41.667 7.16 0.00 37.30 2.90
5923 8535 4.321899 GCAGGTTTAATGCCAGAAACATCA 60.322 41.667 7.16 0.00 37.30 3.07
5924 8536 4.176271 GCAGGTTTAATGCCAGAAACATC 58.824 43.478 7.16 0.00 37.30 3.06
5925 8537 3.577848 TGCAGGTTTAATGCCAGAAACAT 59.422 39.130 7.16 0.00 43.18 2.71
5926 8538 2.961741 TGCAGGTTTAATGCCAGAAACA 59.038 40.909 7.16 0.00 43.18 2.83
5927 8539 3.005791 ACTGCAGGTTTAATGCCAGAAAC 59.994 43.478 19.93 0.00 43.18 2.78
5928 8540 3.230134 ACTGCAGGTTTAATGCCAGAAA 58.770 40.909 19.93 0.00 43.18 2.52
5929 8541 2.875296 ACTGCAGGTTTAATGCCAGAA 58.125 42.857 19.93 0.00 43.18 3.02
5930 8542 2.584835 ACTGCAGGTTTAATGCCAGA 57.415 45.000 19.93 0.00 43.18 3.86
5931 8543 3.081061 TGTACTGCAGGTTTAATGCCAG 58.919 45.455 19.93 0.00 43.18 4.85
5932 8544 3.147553 TGTACTGCAGGTTTAATGCCA 57.852 42.857 19.93 0.00 43.18 4.92
5933 8545 6.391227 AATATGTACTGCAGGTTTAATGCC 57.609 37.500 19.93 0.00 43.18 4.40
5934 8546 9.965824 ATTTAATATGTACTGCAGGTTTAATGC 57.034 29.630 19.93 0.00 44.11 3.56
5973 8585 9.715121 TGAAGTTACGGTTTAAAAGATATGAGT 57.285 29.630 0.00 0.00 0.00 3.41
6084 8696 8.525290 AACATTGCAGCCTAGATAGTATTTTT 57.475 30.769 0.00 0.00 0.00 1.94
6085 8697 9.627123 TTAACATTGCAGCCTAGATAGTATTTT 57.373 29.630 0.00 0.00 0.00 1.82
6086 8698 9.799106 ATTAACATTGCAGCCTAGATAGTATTT 57.201 29.630 0.00 0.00 0.00 1.40
6087 8699 9.442047 GATTAACATTGCAGCCTAGATAGTATT 57.558 33.333 0.00 0.00 0.00 1.89
6088 8700 8.597167 TGATTAACATTGCAGCCTAGATAGTAT 58.403 33.333 0.00 0.00 0.00 2.12
6089 8701 7.962441 TGATTAACATTGCAGCCTAGATAGTA 58.038 34.615 0.00 0.00 0.00 1.82
6090 8702 6.830912 TGATTAACATTGCAGCCTAGATAGT 58.169 36.000 0.00 0.00 0.00 2.12
6091 8703 7.227314 TGTTGATTAACATTGCAGCCTAGATAG 59.773 37.037 0.00 0.00 41.66 2.08
6092 8704 7.053498 TGTTGATTAACATTGCAGCCTAGATA 58.947 34.615 0.00 0.00 41.66 1.98
6093 8705 5.887598 TGTTGATTAACATTGCAGCCTAGAT 59.112 36.000 0.00 0.00 41.66 1.98
6094 8706 5.252547 TGTTGATTAACATTGCAGCCTAGA 58.747 37.500 0.00 0.00 41.66 2.43
6095 8707 5.565592 TGTTGATTAACATTGCAGCCTAG 57.434 39.130 0.00 0.00 41.66 3.02
6096 8708 5.973899 TTGTTGATTAACATTGCAGCCTA 57.026 34.783 3.63 0.00 45.56 3.93
6097 8709 4.870123 TTGTTGATTAACATTGCAGCCT 57.130 36.364 3.63 0.00 45.56 4.58
6098 8710 5.459110 CATTGTTGATTAACATTGCAGCC 57.541 39.130 10.97 0.00 45.56 4.85
6134 8746 5.470777 CCTAAATCAGTACCGGTGTGAAAAA 59.529 40.000 19.93 8.41 0.00 1.94
6135 8747 4.998672 CCTAAATCAGTACCGGTGTGAAAA 59.001 41.667 19.93 8.74 0.00 2.29
6136 8748 4.040706 ACCTAAATCAGTACCGGTGTGAAA 59.959 41.667 19.93 9.07 0.00 2.69
6137 8749 3.579586 ACCTAAATCAGTACCGGTGTGAA 59.420 43.478 19.93 4.52 0.00 3.18
6138 8750 3.167485 ACCTAAATCAGTACCGGTGTGA 58.833 45.455 19.93 20.12 0.00 3.58
6139 8751 3.604875 ACCTAAATCAGTACCGGTGTG 57.395 47.619 19.93 15.02 0.00 3.82
6140 8752 3.307199 CCAACCTAAATCAGTACCGGTGT 60.307 47.826 19.93 0.19 0.00 4.16
6141 8753 3.267483 CCAACCTAAATCAGTACCGGTG 58.733 50.000 19.93 0.00 0.00 4.94
6142 8754 2.237893 CCCAACCTAAATCAGTACCGGT 59.762 50.000 13.98 13.98 0.00 5.28
6143 8755 2.420967 CCCCAACCTAAATCAGTACCGG 60.421 54.545 0.00 0.00 0.00 5.28
6144 8756 2.502538 TCCCCAACCTAAATCAGTACCG 59.497 50.000 0.00 0.00 0.00 4.02
6145 8757 4.165372 TCATCCCCAACCTAAATCAGTACC 59.835 45.833 0.00 0.00 0.00 3.34
6146 8758 5.367945 TCATCCCCAACCTAAATCAGTAC 57.632 43.478 0.00 0.00 0.00 2.73
6147 8759 5.251932 TGTTCATCCCCAACCTAAATCAGTA 59.748 40.000 0.00 0.00 0.00 2.74
6148 8760 4.044065 TGTTCATCCCCAACCTAAATCAGT 59.956 41.667 0.00 0.00 0.00 3.41
6149 8761 4.399303 GTGTTCATCCCCAACCTAAATCAG 59.601 45.833 0.00 0.00 0.00 2.90
6150 8762 4.340617 GTGTTCATCCCCAACCTAAATCA 58.659 43.478 0.00 0.00 0.00 2.57
6151 8763 3.699538 GGTGTTCATCCCCAACCTAAATC 59.300 47.826 0.00 0.00 0.00 2.17
6152 8764 3.336694 AGGTGTTCATCCCCAACCTAAAT 59.663 43.478 0.00 0.00 0.00 1.40
6153 8765 2.719705 AGGTGTTCATCCCCAACCTAAA 59.280 45.455 0.00 0.00 0.00 1.85
6154 8766 2.307686 GAGGTGTTCATCCCCAACCTAA 59.692 50.000 0.00 0.00 0.00 2.69
6155 8767 1.913419 GAGGTGTTCATCCCCAACCTA 59.087 52.381 0.00 0.00 0.00 3.08
6156 8768 0.698818 GAGGTGTTCATCCCCAACCT 59.301 55.000 0.00 0.00 0.00 3.50
6157 8769 0.404040 TGAGGTGTTCATCCCCAACC 59.596 55.000 0.00 0.00 0.00 3.77
6158 8770 1.826385 CTGAGGTGTTCATCCCCAAC 58.174 55.000 0.00 0.00 34.68 3.77
6159 8771 0.038166 GCTGAGGTGTTCATCCCCAA 59.962 55.000 0.00 0.00 34.68 4.12
6160 8772 1.133181 TGCTGAGGTGTTCATCCCCA 61.133 55.000 0.00 0.00 34.68 4.96
6161 8773 0.038166 TTGCTGAGGTGTTCATCCCC 59.962 55.000 0.00 0.00 34.68 4.81
6162 8774 1.909700 TTTGCTGAGGTGTTCATCCC 58.090 50.000 0.00 0.00 34.68 3.85
6163 8775 3.507233 TGATTTTGCTGAGGTGTTCATCC 59.493 43.478 0.00 0.00 34.68 3.51
6164 8776 4.730657 CTGATTTTGCTGAGGTGTTCATC 58.269 43.478 0.00 0.00 34.68 2.92
6165 8777 3.057033 GCTGATTTTGCTGAGGTGTTCAT 60.057 43.478 0.00 0.00 34.68 2.57
6166 8778 2.294233 GCTGATTTTGCTGAGGTGTTCA 59.706 45.455 0.00 0.00 0.00 3.18
6167 8779 2.294233 TGCTGATTTTGCTGAGGTGTTC 59.706 45.455 0.00 0.00 0.00 3.18
6168 8780 2.309613 TGCTGATTTTGCTGAGGTGTT 58.690 42.857 0.00 0.00 0.00 3.32
6169 8781 1.985473 TGCTGATTTTGCTGAGGTGT 58.015 45.000 0.00 0.00 0.00 4.16
6170 8782 3.250744 CAATGCTGATTTTGCTGAGGTG 58.749 45.455 0.00 0.00 0.00 4.00
6171 8783 2.232941 CCAATGCTGATTTTGCTGAGGT 59.767 45.455 0.00 0.00 0.00 3.85
6172 8784 2.494471 TCCAATGCTGATTTTGCTGAGG 59.506 45.455 0.00 0.00 0.00 3.86
6173 8785 3.508762 GTCCAATGCTGATTTTGCTGAG 58.491 45.455 0.00 0.00 0.00 3.35
6174 8786 3.581024 GTCCAATGCTGATTTTGCTGA 57.419 42.857 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.