Multiple sequence alignment - TraesCS2D01G594700

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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 TraesCS2D01G594700 chr2D 100.000 3455 0 0 1 3455 648341114 648344568 0.000000e+00 6381.0
1 TraesCS2D01G594700 chr2D 92.771 83 5 1 2179 2260 547032091 547032009 6.060000e-23 119.0
2 TraesCS2D01G594700 chr2B 91.195 1942 115 16 620 2514 784267893 784269825 0.000000e+00 2588.0
3 TraesCS2D01G594700 chrUn 96.958 1512 46 0 1111 2622 31096337 31094826 0.000000e+00 2538.0
4 TraesCS2D01G594700 chrUn 87.136 824 63 18 2661 3448 31094829 31094013 0.000000e+00 894.0
5 TraesCS2D01G594700 chrUn 84.575 765 66 32 351 1100 31097109 31096382 0.000000e+00 712.0
6 TraesCS2D01G594700 chrUn 83.333 354 44 11 3 355 31097932 31097593 2.590000e-81 313.0
7 TraesCS2D01G594700 chr4A 92.661 109 8 0 2921 3029 57532511 57532403 1.280000e-34 158.0
8 TraesCS2D01G594700 chr6B 89.076 119 11 2 2915 3032 509496175 509496058 2.780000e-31 147.0
9 TraesCS2D01G594700 chr1A 87.903 124 9 3 2915 3032 369274322 369274445 1.290000e-29 141.0
10 TraesCS2D01G594700 chr3B 87.395 119 13 2 2915 3032 22059125 22059242 6.010000e-28 135.0
11 TraesCS2D01G594700 chr2A 91.753 97 7 1 2179 2274 689613221 689613317 2.160000e-27 134.0
12 TraesCS2D01G594700 chr5B 78.673 211 36 8 2591 2794 657399342 657399134 7.780000e-27 132.0
13 TraesCS2D01G594700 chr1D 88.608 79 8 1 2850 2927 398493708 398493786 1.020000e-15 95.3


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 TraesCS2D01G594700 chr2D 648341114 648344568 3454 False 6381.00 6381 100.0000 1 3455 1 chr2D.!!$F1 3454
1 TraesCS2D01G594700 chr2B 784267893 784269825 1932 False 2588.00 2588 91.1950 620 2514 1 chr2B.!!$F1 1894
2 TraesCS2D01G594700 chrUn 31094013 31097932 3919 True 1114.25 2538 88.0005 3 3448 4 chrUn.!!$R1 3445

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
297 308 0.179156 GTGGCGGACGAATCGACTAA 60.179 55.0 10.55 0.0 36.46 2.24 F
1109 1633 0.402121 GAAGAAGGAGCCCTTGGTGT 59.598 55.0 10.77 0.0 44.82 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1816 2383 0.318784 GCAGTCTCGACGAACACCTT 60.319 55.0 0.0 0.0 36.20 3.50 R
2766 3345 0.036732 TGGACCAACCACAGAGCATC 59.963 55.0 0.0 0.0 44.64 3.91 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 0.648441 GTCAACAAACTGCGACGTCA 59.352 50.000 17.16 0.00 0.00 4.35
73 74 1.291132 GTCAATGGCGAGGCTAAGTC 58.709 55.000 0.00 0.00 0.00 3.01
81 82 1.115467 CGAGGCTAAGTCATGACCCT 58.885 55.000 22.21 19.92 0.00 4.34
91 92 2.284625 ATGACCCTGCCGGAGACA 60.285 61.111 5.05 0.00 34.64 3.41
98 99 0.745845 CCTGCCGGAGACAAGAATGG 60.746 60.000 5.05 0.00 0.00 3.16
109 110 2.079158 ACAAGAATGGTGATGTGAGCG 58.921 47.619 0.00 0.00 0.00 5.03
112 113 1.002257 AATGGTGATGTGAGCGGCA 60.002 52.632 1.45 0.00 0.00 5.69
145 146 1.202348 CCAGCTGTGACATCCTAGTCG 60.202 57.143 13.81 0.00 41.41 4.18
158 159 2.065906 CTAGTCGGAGGCGAGGAAGC 62.066 65.000 0.00 0.00 36.95 3.86
168 169 1.661341 GCGAGGAAGCAGATTGACAT 58.339 50.000 0.00 0.00 37.05 3.06
169 170 1.329906 GCGAGGAAGCAGATTGACATG 59.670 52.381 0.00 0.00 37.05 3.21
171 172 2.362736 GAGGAAGCAGATTGACATGCA 58.637 47.619 2.57 0.00 45.01 3.96
192 193 4.603535 GTGGGGGTGCAGTGGCTT 62.604 66.667 0.00 0.00 41.91 4.35
201 202 0.828762 TGCAGTGGCTTGCCTGAAAT 60.829 50.000 13.18 0.00 43.43 2.17
203 204 1.753073 GCAGTGGCTTGCCTGAAATAT 59.247 47.619 13.18 0.00 38.13 1.28
206 207 4.454678 CAGTGGCTTGCCTGAAATATCTA 58.545 43.478 13.18 0.00 0.00 1.98
209 210 5.767168 AGTGGCTTGCCTGAAATATCTAATC 59.233 40.000 13.18 0.00 0.00 1.75
217 218 4.219944 CCTGAAATATCTAATCGTCGGGGA 59.780 45.833 0.00 0.00 0.00 4.81
232 233 1.141185 GGGGAGGTTTAGAGGGATGG 58.859 60.000 0.00 0.00 0.00 3.51
233 234 1.628327 GGGGAGGTTTAGAGGGATGGT 60.628 57.143 0.00 0.00 0.00 3.55
234 235 1.769465 GGGAGGTTTAGAGGGATGGTC 59.231 57.143 0.00 0.00 0.00 4.02
235 236 2.478292 GGAGGTTTAGAGGGATGGTCA 58.522 52.381 0.00 0.00 0.00 4.02
236 237 3.049344 GGAGGTTTAGAGGGATGGTCAT 58.951 50.000 0.00 0.00 0.00 3.06
237 238 3.459969 GGAGGTTTAGAGGGATGGTCATT 59.540 47.826 0.00 0.00 0.00 2.57
238 239 4.455606 GAGGTTTAGAGGGATGGTCATTG 58.544 47.826 0.00 0.00 0.00 2.82
239 240 3.203040 AGGTTTAGAGGGATGGTCATTGG 59.797 47.826 0.00 0.00 0.00 3.16
240 241 3.053619 GGTTTAGAGGGATGGTCATTGGT 60.054 47.826 0.00 0.00 0.00 3.67
241 242 3.931907 TTAGAGGGATGGTCATTGGTG 57.068 47.619 0.00 0.00 0.00 4.17
242 243 0.921896 AGAGGGATGGTCATTGGTGG 59.078 55.000 0.00 0.00 0.00 4.61
243 244 0.753111 GAGGGATGGTCATTGGTGGC 60.753 60.000 0.00 0.00 0.00 5.01
244 245 2.120909 GGGATGGTCATTGGTGGCG 61.121 63.158 0.00 0.00 0.00 5.69
245 246 2.120909 GGATGGTCATTGGTGGCGG 61.121 63.158 0.00 0.00 0.00 6.13
246 247 2.755469 ATGGTCATTGGTGGCGGC 60.755 61.111 0.00 0.00 0.00 6.53
247 248 3.582242 ATGGTCATTGGTGGCGGCA 62.582 57.895 7.97 7.97 0.00 5.69
255 256 2.671619 GGTGGCGGCAGTAAAGCA 60.672 61.111 13.91 0.00 35.83 3.91
256 257 2.690778 GGTGGCGGCAGTAAAGCAG 61.691 63.158 13.91 0.00 35.83 4.24
291 302 3.195698 GGCAGTGGCGGACGAATC 61.196 66.667 0.00 0.00 42.47 2.52
295 306 2.181021 GTGGCGGACGAATCGACT 59.819 61.111 10.55 0.00 36.46 4.18
297 308 0.179156 GTGGCGGACGAATCGACTAA 60.179 55.000 10.55 0.00 36.46 2.24
298 309 0.742505 TGGCGGACGAATCGACTAAT 59.257 50.000 10.55 0.00 36.46 1.73
301 312 1.779724 GCGGACGAATCGACTAATGTC 59.220 52.381 10.55 0.00 39.70 3.06
321 332 0.955919 GGTTGCGTTTCAGGAGGAGG 60.956 60.000 0.00 0.00 0.00 4.30
325 336 1.258445 GCGTTTCAGGAGGAGGAGGA 61.258 60.000 0.00 0.00 0.00 3.71
326 337 0.820871 CGTTTCAGGAGGAGGAGGAG 59.179 60.000 0.00 0.00 0.00 3.69
327 338 1.199615 GTTTCAGGAGGAGGAGGAGG 58.800 60.000 0.00 0.00 0.00 4.30
328 339 0.618968 TTTCAGGAGGAGGAGGAGGC 60.619 60.000 0.00 0.00 0.00 4.70
329 340 1.522917 TTCAGGAGGAGGAGGAGGCT 61.523 60.000 0.00 0.00 0.00 4.58
330 341 1.761667 CAGGAGGAGGAGGAGGCTG 60.762 68.421 0.00 0.00 0.00 4.85
349 360 3.139077 CTGGAGGTAGAAAACACACCAC 58.861 50.000 0.00 0.00 34.62 4.16
355 366 2.128771 AGAAAACACACCACAGCAGT 57.871 45.000 0.00 0.00 0.00 4.40
357 368 2.943033 AGAAAACACACCACAGCAGTAC 59.057 45.455 0.00 0.00 0.00 2.73
358 369 2.411628 AAACACACCACAGCAGTACA 57.588 45.000 0.00 0.00 0.00 2.90
370 869 3.688185 ACAGCAGTACAATGAAGATGCAG 59.312 43.478 0.00 0.00 36.15 4.41
372 871 2.681848 GCAGTACAATGAAGATGCAGCT 59.318 45.455 0.00 0.00 33.92 4.24
373 872 3.128242 GCAGTACAATGAAGATGCAGCTT 59.872 43.478 18.77 18.77 33.92 3.74
383 882 8.433126 CAATGAAGATGCAGCTTTAAAAGAAAG 58.567 33.333 19.75 0.00 0.00 2.62
385 884 7.141363 TGAAGATGCAGCTTTAAAAGAAAGTC 58.859 34.615 19.75 1.64 0.00 3.01
405 905 4.097892 AGTCGACTTGCACCAAAATTTCTT 59.902 37.500 13.58 0.00 0.00 2.52
406 906 4.207019 GTCGACTTGCACCAAAATTTCTTG 59.793 41.667 8.70 0.00 0.00 3.02
427 927 2.750712 GGGCGAACTTACAAATAGCCAA 59.249 45.455 5.91 0.00 44.40 4.52
432 932 3.818295 ACTTACAAATAGCCAACCCCA 57.182 42.857 0.00 0.00 0.00 4.96
435 935 5.833340 ACTTACAAATAGCCAACCCCATTA 58.167 37.500 0.00 0.00 0.00 1.90
436 936 6.440354 ACTTACAAATAGCCAACCCCATTAT 58.560 36.000 0.00 0.00 0.00 1.28
443 944 8.482128 CAAATAGCCAACCCCATTATAAAAAGA 58.518 33.333 0.00 0.00 0.00 2.52
444 945 7.839680 ATAGCCAACCCCATTATAAAAAGAG 57.160 36.000 0.00 0.00 0.00 2.85
454 955 8.757877 CCCCATTATAAAAAGAGTCCATGAAAA 58.242 33.333 0.00 0.00 0.00 2.29
471 972 5.369685 TGAAAATGAGCGCATTAGTTTCA 57.630 34.783 21.50 21.50 43.71 2.69
474 975 5.565592 AAATGAGCGCATTAGTTTCATGA 57.434 34.783 16.35 0.00 43.71 3.07
498 999 8.919145 TGAAAACAATAGGGTACACTTTGAAAT 58.081 29.630 20.05 0.14 0.00 2.17
508 1009 8.638873 AGGGTACACTTTGAAATAAGAAAAAGG 58.361 33.333 0.00 0.00 34.61 3.11
509 1010 7.384115 GGGTACACTTTGAAATAAGAAAAAGGC 59.616 37.037 0.00 0.00 34.61 4.35
510 1011 7.114388 GGTACACTTTGAAATAAGAAAAAGGCG 59.886 37.037 0.00 0.00 34.61 5.52
513 1014 7.435192 ACACTTTGAAATAAGAAAAAGGCGAAG 59.565 33.333 0.00 0.00 34.61 3.79
514 1015 7.435192 CACTTTGAAATAAGAAAAAGGCGAAGT 59.565 33.333 0.00 0.00 34.61 3.01
577 1083 4.278170 TCCAGAAAATGTTGCACGAATCTT 59.722 37.500 0.00 0.00 0.00 2.40
584 1090 4.560136 TGTTGCACGAATCTTAAAGCAA 57.440 36.364 0.00 0.00 39.38 3.91
588 1094 6.494893 TTGCACGAATCTTAAAGCAACTAT 57.505 33.333 0.00 0.00 37.10 2.12
589 1095 6.494893 TGCACGAATCTTAAAGCAACTATT 57.505 33.333 0.00 0.00 0.00 1.73
591 1097 5.739161 GCACGAATCTTAAAGCAACTATTGG 59.261 40.000 0.00 0.00 0.00 3.16
592 1098 6.403200 GCACGAATCTTAAAGCAACTATTGGA 60.403 38.462 0.00 0.00 0.00 3.53
593 1099 7.679638 GCACGAATCTTAAAGCAACTATTGGAT 60.680 37.037 0.00 0.00 0.00 3.41
595 1101 6.634436 CGAATCTTAAAGCAACTATTGGATGC 59.366 38.462 0.00 0.00 40.34 3.91
596 1102 7.408756 AATCTTAAAGCAACTATTGGATGCA 57.591 32.000 5.14 0.00 42.45 3.96
597 1103 7.592885 ATCTTAAAGCAACTATTGGATGCAT 57.407 32.000 0.00 0.00 42.45 3.96
631 1137 5.001237 TGCATGCATGGTAGAAAAATCAG 57.999 39.130 27.34 0.00 0.00 2.90
657 1163 1.069636 GGCTCTTCGCTTTGTCAACTG 60.070 52.381 0.00 0.00 39.13 3.16
682 1188 1.004440 GGTTCTGCTTGGCGTCTCT 60.004 57.895 0.00 0.00 0.00 3.10
722 1228 0.603569 CCGAGTAGGACAGCACAACT 59.396 55.000 0.00 0.00 45.00 3.16
781 1287 4.144051 CGAAAACATACAAAACACGCTGTC 59.856 41.667 0.00 0.00 0.00 3.51
919 1427 2.484264 CACGTCCTTGAGTTTGAATCCC 59.516 50.000 0.00 0.00 0.00 3.85
920 1428 2.084546 CGTCCTTGAGTTTGAATCCCC 58.915 52.381 0.00 0.00 0.00 4.81
1001 1512 4.453480 TTGTCAAAGATTTCCTCCCACT 57.547 40.909 0.00 0.00 0.00 4.00
1024 1535 1.078918 CTCCAGCATCAACCGCTCA 60.079 57.895 0.00 0.00 37.72 4.26
1100 1624 2.006169 GCAACAGCTAGAAGAAGGAGC 58.994 52.381 0.00 0.00 36.42 4.70
1101 1625 2.626840 CAACAGCTAGAAGAAGGAGCC 58.373 52.381 0.00 0.00 36.87 4.70
1102 1626 1.199615 ACAGCTAGAAGAAGGAGCCC 58.800 55.000 0.00 0.00 36.87 5.19
1103 1627 1.273552 ACAGCTAGAAGAAGGAGCCCT 60.274 52.381 0.00 0.00 36.87 5.19
1107 1631 2.192263 CTAGAAGAAGGAGCCCTTGGT 58.808 52.381 10.77 0.00 44.82 3.67
1109 1633 0.402121 GAAGAAGGAGCCCTTGGTGT 59.598 55.000 10.77 0.00 44.82 4.16
1152 1719 1.874345 CGTCCTACTTCGTGTGCCCT 61.874 60.000 0.00 0.00 0.00 5.19
1454 2021 1.793134 AACAAGAGACCGTCGCGAGT 61.793 55.000 10.24 4.40 0.00 4.18
1545 2112 3.537874 GTACCCGGCTCTGCGGAT 61.538 66.667 0.00 0.00 0.00 4.18
1672 2239 3.770040 CCGTCGACAGGGATGGCA 61.770 66.667 17.16 0.00 36.37 4.92
1831 2398 0.879765 GGAGAAGGTGTTCGTCGAGA 59.120 55.000 0.00 0.00 37.79 4.04
1835 2402 0.318784 AAGGTGTTCGTCGAGACTGC 60.319 55.000 0.00 0.00 0.00 4.40
2188 2755 2.513666 GATCAATCGCCCGGCACA 60.514 61.111 10.77 0.00 0.00 4.57
2393 2960 0.621862 CTCCAGGCCCTCTACCCTTT 60.622 60.000 0.00 0.00 0.00 3.11
2402 2969 3.821748 CCCTCTACCCTTTCTAATTGCC 58.178 50.000 0.00 0.00 0.00 4.52
2485 3058 1.133598 GCATGTAGCAGCTTTGCATGA 59.866 47.619 25.69 0.00 44.79 3.07
2535 3108 1.303074 TCTCTGCCTTGCTTGCTGG 60.303 57.895 0.00 0.00 0.00 4.85
2607 3180 5.213891 ACAATTTTGGTCCCTCAAACATC 57.786 39.130 0.00 0.00 36.49 3.06
2609 3182 3.320610 TTTTGGTCCCTCAAACATCCA 57.679 42.857 0.00 0.00 36.49 3.41
2632 3205 2.524300 CCCGTTTGGTCACTGTACG 58.476 57.895 0.00 0.00 0.00 3.67
2633 3206 2.524300 CCGTTTGGTCACTGTACGG 58.476 57.895 0.00 0.00 44.67 4.02
2634 3207 0.947180 CCGTTTGGTCACTGTACGGG 60.947 60.000 6.65 0.00 45.88 5.28
2635 3208 1.562575 CGTTTGGTCACTGTACGGGC 61.563 60.000 6.65 0.00 0.00 6.13
2636 3209 1.301087 TTTGGTCACTGTACGGGCG 60.301 57.895 6.65 0.00 0.00 6.13
2637 3210 2.030490 TTTGGTCACTGTACGGGCGT 62.030 55.000 6.65 0.00 0.00 5.68
2638 3211 2.431942 GGTCACTGTACGGGCGTG 60.432 66.667 6.65 2.63 0.00 5.34
2639 3212 2.337532 GTCACTGTACGGGCGTGT 59.662 61.111 6.65 0.00 0.00 4.49
2640 3213 1.731969 GTCACTGTACGGGCGTGTC 60.732 63.158 6.65 0.00 0.00 3.67
2641 3214 2.431942 CACTGTACGGGCGTGTCC 60.432 66.667 6.65 0.00 0.00 4.02
2653 3226 2.452767 CGTGTCCGCTTTAACTCCC 58.547 57.895 0.00 0.00 0.00 4.30
2654 3227 0.037605 CGTGTCCGCTTTAACTCCCT 60.038 55.000 0.00 0.00 0.00 4.20
2655 3228 1.203052 CGTGTCCGCTTTAACTCCCTA 59.797 52.381 0.00 0.00 0.00 3.53
2656 3229 2.159142 CGTGTCCGCTTTAACTCCCTAT 60.159 50.000 0.00 0.00 0.00 2.57
2657 3230 3.677976 CGTGTCCGCTTTAACTCCCTATT 60.678 47.826 0.00 0.00 0.00 1.73
2658 3231 4.259356 GTGTCCGCTTTAACTCCCTATTT 58.741 43.478 0.00 0.00 0.00 1.40
2659 3232 5.422145 GTGTCCGCTTTAACTCCCTATTTA 58.578 41.667 0.00 0.00 0.00 1.40
2665 3238 7.612633 TCCGCTTTAACTCCCTATTTATTTGTT 59.387 33.333 0.00 0.00 0.00 2.83
2685 3258 1.858091 CATGTAGTCATGTCCCTCGC 58.142 55.000 0.00 0.00 44.37 5.03
2717 3296 9.558396 TTCATATACTTACATGCATGTGATTGA 57.442 29.630 36.72 24.80 41.89 2.57
2719 3298 9.769093 CATATACTTACATGCATGTGATTGATG 57.231 33.333 36.72 26.37 41.89 3.07
2722 3301 5.066893 ACTTACATGCATGTGATTGATGGAC 59.933 40.000 36.72 0.00 41.89 4.02
2734 3313 5.811613 GTGATTGATGGACAAGAAGAGAGAG 59.188 44.000 0.00 0.00 42.02 3.20
2736 3315 6.212187 TGATTGATGGACAAGAAGAGAGAGAA 59.788 38.462 0.00 0.00 42.02 2.87
2737 3316 6.425210 TTGATGGACAAGAAGAGAGAGAAA 57.575 37.500 0.00 0.00 34.20 2.52
2738 3317 6.425210 TGATGGACAAGAAGAGAGAGAAAA 57.575 37.500 0.00 0.00 0.00 2.29
2739 3318 6.830912 TGATGGACAAGAAGAGAGAGAAAAA 58.169 36.000 0.00 0.00 0.00 1.94
2821 3400 0.391597 ACAAGACCGTCGACCAACAT 59.608 50.000 10.58 0.00 0.00 2.71
2824 3403 1.374252 GACCGTCGACCAACATGCT 60.374 57.895 10.58 0.00 0.00 3.79
2827 3406 0.948623 CCGTCGACCAACATGCTCAA 60.949 55.000 10.58 0.00 0.00 3.02
2829 3408 1.464608 CGTCGACCAACATGCTCAAAT 59.535 47.619 10.58 0.00 0.00 2.32
2839 3418 6.540189 ACCAACATGCTCAAATACTCTCATAC 59.460 38.462 0.00 0.00 0.00 2.39
2840 3419 6.765036 CCAACATGCTCAAATACTCTCATACT 59.235 38.462 0.00 0.00 0.00 2.12
2841 3420 7.042187 CCAACATGCTCAAATACTCTCATACTC 60.042 40.741 0.00 0.00 0.00 2.59
2842 3421 7.117285 ACATGCTCAAATACTCTCATACTCA 57.883 36.000 0.00 0.00 0.00 3.41
2843 3422 7.733969 ACATGCTCAAATACTCTCATACTCAT 58.266 34.615 0.00 0.00 0.00 2.90
2844 3423 7.871973 ACATGCTCAAATACTCTCATACTCATC 59.128 37.037 0.00 0.00 0.00 2.92
2845 3424 7.594351 TGCTCAAATACTCTCATACTCATCT 57.406 36.000 0.00 0.00 0.00 2.90
2847 3426 8.791675 TGCTCAAATACTCTCATACTCATCTAG 58.208 37.037 0.00 0.00 0.00 2.43
2850 3431 9.072375 TCAAATACTCTCATACTCATCTAGTGG 57.928 37.037 0.00 0.00 39.39 4.00
2866 3447 2.328319 AGTGGGAATTGCACAAACCAT 58.672 42.857 0.00 0.00 0.00 3.55
2869 3450 2.036992 TGGGAATTGCACAAACCATCAC 59.963 45.455 0.00 0.41 0.00 3.06
2887 3468 5.397447 CCATCACTTATTGGGGCTAGTGTTA 60.397 44.000 0.00 0.00 39.16 2.41
2890 3471 2.607631 TATTGGGGCTAGTGTTACGC 57.392 50.000 0.00 0.00 0.00 4.42
2897 3478 2.486592 GGGCTAGTGTTACGCAAAACAT 59.513 45.455 4.36 0.00 41.18 2.71
2919 3500 7.723324 ACATCTACTATACAGGTTTATTGCGT 58.277 34.615 0.00 0.00 0.00 5.24
2930 3511 6.081693 CAGGTTTATTGCGTAAAACACCTAC 58.918 40.000 11.52 0.00 41.51 3.18
2999 3580 4.338682 CGCAGGTAGGTCTAATCTAGTGTT 59.661 45.833 0.00 0.00 0.00 3.32
3000 3581 5.163540 CGCAGGTAGGTCTAATCTAGTGTTT 60.164 44.000 0.00 0.00 0.00 2.83
3001 3582 6.043411 GCAGGTAGGTCTAATCTAGTGTTTG 58.957 44.000 0.00 0.00 0.00 2.93
3049 3630 1.209127 GCAATTCCCAACCGACACG 59.791 57.895 0.00 0.00 0.00 4.49
3052 3633 3.912745 ATTCCCAACCGACACGCCC 62.913 63.158 0.00 0.00 0.00 6.13
3113 3694 1.079503 GATGGCTCGTTTCTCACACC 58.920 55.000 0.00 0.00 0.00 4.16
3114 3695 0.321653 ATGGCTCGTTTCTCACACCC 60.322 55.000 0.00 0.00 0.00 4.61
3115 3696 2.027625 GGCTCGTTTCTCACACCCG 61.028 63.158 0.00 0.00 0.00 5.28
3168 3749 0.883833 CATTTCTCACACCCCACTGC 59.116 55.000 0.00 0.00 0.00 4.40
3174 3755 1.821759 CACACCCCACTGCGAACAA 60.822 57.895 0.00 0.00 0.00 2.83
3175 3756 1.077357 ACACCCCACTGCGAACAAA 60.077 52.632 0.00 0.00 0.00 2.83
3187 3768 5.005586 CACTGCGAACAAAATCACAACAATT 59.994 36.000 0.00 0.00 0.00 2.32
3208 3789 1.234821 GCGATGGGTTGTTTCTCACA 58.765 50.000 0.00 0.00 0.00 3.58
3209 3790 1.606668 GCGATGGGTTGTTTCTCACAA 59.393 47.619 0.00 0.00 43.55 3.33
3224 3805 3.115554 CTCACAAACCGCCTTGAAAAAG 58.884 45.455 2.13 0.00 0.00 2.27
3227 3808 3.929610 CACAAACCGCCTTGAAAAAGAAA 59.070 39.130 2.13 0.00 0.00 2.52
3238 3819 5.061684 CCTTGAAAAAGAAACACAACGGTTC 59.938 40.000 0.00 0.00 0.00 3.62
3249 3830 3.142951 CACAACGGTTCAAGATGGGTTA 58.857 45.455 0.00 0.00 0.00 2.85
3283 3864 2.094854 GCCTCAGCCTCAGAACAAATTG 60.095 50.000 0.00 0.00 0.00 2.32
3287 3868 0.968405 GCCTCAGAACAAATTGGCCA 59.032 50.000 0.00 0.00 34.81 5.36
3307 3888 3.214328 CAATAGGCCCAGTAAAATCGCT 58.786 45.455 0.00 0.00 0.00 4.93
3353 3962 5.598769 ACCTATTAACTAAGTCCATCGCAC 58.401 41.667 0.00 0.00 0.00 5.34
3360 3969 1.730501 AAGTCCATCGCACATCACAG 58.269 50.000 0.00 0.00 0.00 3.66
3365 3974 2.102438 ATCGCACATCACAGCCACG 61.102 57.895 0.00 0.00 0.00 4.94
3366 3975 4.450122 CGCACATCACAGCCACGC 62.450 66.667 0.00 0.00 0.00 5.34
3367 3976 4.107051 GCACATCACAGCCACGCC 62.107 66.667 0.00 0.00 0.00 5.68
3375 3984 3.164269 CAGCCACGCCCCCTATCT 61.164 66.667 0.00 0.00 0.00 1.98
3380 3989 2.201771 ACGCCCCCTATCTCCCTC 59.798 66.667 0.00 0.00 0.00 4.30
3382 3991 2.956047 GCCCCCTATCTCCCTCCT 59.044 66.667 0.00 0.00 0.00 3.69
3436 4045 1.973812 GCCAAGGACAAGCACCTCC 60.974 63.158 0.00 0.00 36.67 4.30
3438 4047 0.890996 CCAAGGACAAGCACCTCCAC 60.891 60.000 0.00 0.00 36.67 4.02
3448 4057 2.203938 ACCTCCACCATCACCCGT 60.204 61.111 0.00 0.00 0.00 5.28
3449 4058 2.291043 ACCTCCACCATCACCCGTC 61.291 63.158 0.00 0.00 0.00 4.79
3450 4059 2.184322 CTCCACCATCACCCGTCG 59.816 66.667 0.00 0.00 0.00 5.12
3451 4060 2.283316 TCCACCATCACCCGTCGA 60.283 61.111 0.00 0.00 0.00 4.20
3452 4061 2.125673 CCACCATCACCCGTCGAC 60.126 66.667 5.18 5.18 0.00 4.20
3453 4062 2.506217 CACCATCACCCGTCGACG 60.506 66.667 30.33 30.33 39.44 5.12
3454 4063 2.674033 ACCATCACCCGTCGACGA 60.674 61.111 37.65 19.39 43.02 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.159028 CCTCCTTCCTTCCTAAGCGAAG 60.159 54.545 0.00 9.25 39.22 3.79
34 35 0.232303 GTCGCAGTTTGTTGACTCGG 59.768 55.000 0.00 0.00 0.00 4.63
40 41 2.036217 CATTGACGTCGCAGTTTGTTG 58.964 47.619 11.62 0.00 0.00 3.33
41 42 1.002900 CCATTGACGTCGCAGTTTGTT 60.003 47.619 11.62 0.00 0.00 2.83
57 58 1.486310 TCATGACTTAGCCTCGCCATT 59.514 47.619 0.00 0.00 0.00 3.16
73 74 2.184020 TTGTCTCCGGCAGGGTCATG 62.184 60.000 2.05 0.00 38.33 3.07
81 82 0.321564 CACCATTCTTGTCTCCGGCA 60.322 55.000 0.00 0.00 0.00 5.69
91 92 1.742761 CCGCTCACATCACCATTCTT 58.257 50.000 0.00 0.00 0.00 2.52
98 99 3.857854 CGCTGCCGCTCACATCAC 61.858 66.667 0.00 0.00 0.00 3.06
145 146 0.813210 CAATCTGCTTCCTCGCCTCC 60.813 60.000 0.00 0.00 0.00 4.30
147 148 0.107945 GTCAATCTGCTTCCTCGCCT 60.108 55.000 0.00 0.00 0.00 5.52
158 159 0.448990 CACCCGTGCATGTCAATCTG 59.551 55.000 4.96 0.00 0.00 2.90
185 186 3.659183 AGATATTTCAGGCAAGCCACT 57.341 42.857 14.40 0.00 38.92 4.00
192 193 4.556233 CCGACGATTAGATATTTCAGGCA 58.444 43.478 0.00 0.00 0.00 4.75
201 202 2.965671 ACCTCCCCGACGATTAGATA 57.034 50.000 0.00 0.00 0.00 1.98
203 204 1.856629 AAACCTCCCCGACGATTAGA 58.143 50.000 0.00 0.00 0.00 2.10
206 207 1.755380 CTCTAAACCTCCCCGACGATT 59.245 52.381 0.00 0.00 0.00 3.34
209 210 1.673808 CCCTCTAAACCTCCCCGACG 61.674 65.000 0.00 0.00 0.00 5.12
217 218 3.203040 CCAATGACCATCCCTCTAAACCT 59.797 47.826 0.00 0.00 0.00 3.50
232 233 0.958382 TTACTGCCGCCACCAATGAC 60.958 55.000 0.00 0.00 0.00 3.06
233 234 0.250945 TTTACTGCCGCCACCAATGA 60.251 50.000 0.00 0.00 0.00 2.57
234 235 0.171007 CTTTACTGCCGCCACCAATG 59.829 55.000 0.00 0.00 0.00 2.82
235 236 1.595093 GCTTTACTGCCGCCACCAAT 61.595 55.000 0.00 0.00 0.00 3.16
236 237 2.265182 GCTTTACTGCCGCCACCAA 61.265 57.895 0.00 0.00 0.00 3.67
237 238 2.671619 GCTTTACTGCCGCCACCA 60.672 61.111 0.00 0.00 0.00 4.17
238 239 2.671619 TGCTTTACTGCCGCCACC 60.672 61.111 0.00 0.00 0.00 4.61
239 240 1.966451 ACTGCTTTACTGCCGCCAC 60.966 57.895 0.00 0.00 0.00 5.01
240 241 1.965930 CACTGCTTTACTGCCGCCA 60.966 57.895 0.00 0.00 0.00 5.69
241 242 1.639298 CTCACTGCTTTACTGCCGCC 61.639 60.000 0.00 0.00 0.00 6.13
242 243 1.639298 CCTCACTGCTTTACTGCCGC 61.639 60.000 0.00 0.00 0.00 6.53
243 244 1.021390 CCCTCACTGCTTTACTGCCG 61.021 60.000 0.00 0.00 0.00 5.69
244 245 0.678048 CCCCTCACTGCTTTACTGCC 60.678 60.000 0.00 0.00 0.00 4.85
245 246 0.324943 TCCCCTCACTGCTTTACTGC 59.675 55.000 0.00 0.00 0.00 4.40
246 247 1.065854 CCTCCCCTCACTGCTTTACTG 60.066 57.143 0.00 0.00 0.00 2.74
247 248 1.280457 CCTCCCCTCACTGCTTTACT 58.720 55.000 0.00 0.00 0.00 2.24
295 306 1.801771 CCTGAAACGCAACCGACATTA 59.198 47.619 0.00 0.00 38.29 1.90
297 308 0.250124 TCCTGAAACGCAACCGACAT 60.250 50.000 0.00 0.00 38.29 3.06
298 309 0.878523 CTCCTGAAACGCAACCGACA 60.879 55.000 0.00 0.00 38.29 4.35
301 312 1.291877 CTCCTCCTGAAACGCAACCG 61.292 60.000 0.00 0.00 41.14 4.44
308 319 1.199615 CCTCCTCCTCCTCCTGAAAC 58.800 60.000 0.00 0.00 0.00 2.78
321 332 1.867363 TTTCTACCTCCAGCCTCCTC 58.133 55.000 0.00 0.00 0.00 3.71
325 336 2.054799 TGTGTTTTCTACCTCCAGCCT 58.945 47.619 0.00 0.00 0.00 4.58
326 337 2.152016 GTGTGTTTTCTACCTCCAGCC 58.848 52.381 0.00 0.00 0.00 4.85
327 338 2.152016 GGTGTGTTTTCTACCTCCAGC 58.848 52.381 0.00 0.00 0.00 4.85
328 339 3.139077 GTGGTGTGTTTTCTACCTCCAG 58.861 50.000 0.00 0.00 35.51 3.86
329 340 2.506231 TGTGGTGTGTTTTCTACCTCCA 59.494 45.455 0.00 0.00 35.51 3.86
330 341 3.139077 CTGTGGTGTGTTTTCTACCTCC 58.861 50.000 0.00 0.00 35.51 4.30
349 360 3.487042 GCTGCATCTTCATTGTACTGCTG 60.487 47.826 0.00 0.00 0.00 4.41
355 366 8.109705 TCTTTTAAAGCTGCATCTTCATTGTA 57.890 30.769 2.77 0.00 0.00 2.41
357 368 7.878477 TTCTTTTAAAGCTGCATCTTCATTG 57.122 32.000 2.77 0.00 0.00 2.82
358 369 8.146412 ACTTTCTTTTAAAGCTGCATCTTCATT 58.854 29.630 2.77 0.00 0.00 2.57
370 869 5.171516 GTGCAAGTCGACTTTCTTTTAAAGC 59.828 40.000 27.79 22.59 33.11 3.51
372 871 5.124138 TGGTGCAAGTCGACTTTCTTTTAAA 59.876 36.000 27.79 3.71 33.11 1.52
373 872 4.636648 TGGTGCAAGTCGACTTTCTTTTAA 59.363 37.500 27.79 4.46 33.11 1.52
383 882 3.964909 AGAAATTTTGGTGCAAGTCGAC 58.035 40.909 7.70 7.70 0.00 4.20
385 884 3.490526 CCAAGAAATTTTGGTGCAAGTCG 59.509 43.478 1.30 0.00 42.16 4.18
405 905 2.290387 TGGCTATTTGTAAGTTCGCCCA 60.290 45.455 0.00 0.00 35.28 5.36
406 906 2.361789 TGGCTATTTGTAAGTTCGCCC 58.638 47.619 0.00 0.00 35.28 6.13
407 907 3.427098 GGTTGGCTATTTGTAAGTTCGCC 60.427 47.826 0.00 0.00 36.64 5.54
427 927 6.980577 TCATGGACTCTTTTTATAATGGGGT 58.019 36.000 0.00 0.00 0.00 4.95
435 935 7.253422 CGCTCATTTTCATGGACTCTTTTTAT 58.747 34.615 0.00 0.00 0.00 1.40
436 936 6.611381 CGCTCATTTTCATGGACTCTTTTTA 58.389 36.000 0.00 0.00 0.00 1.52
443 944 1.825090 TGCGCTCATTTTCATGGACT 58.175 45.000 9.73 0.00 0.00 3.85
444 945 2.857592 ATGCGCTCATTTTCATGGAC 57.142 45.000 9.73 0.00 0.00 4.02
454 955 5.565592 TTTCATGAAACTAATGCGCTCAT 57.434 34.783 16.91 4.39 33.53 2.90
455 956 5.153513 GTTTTCATGAAACTAATGCGCTCA 58.846 37.500 20.35 1.60 43.44 4.26
459 960 7.220683 CCCTATTGTTTTCATGAAACTAATGCG 59.779 37.037 25.14 19.01 46.25 4.73
471 972 8.472007 TTCAAAGTGTACCCTATTGTTTTCAT 57.528 30.769 0.00 0.00 0.00 2.57
498 999 7.174253 ACATGATGTTACTTCGCCTTTTTCTTA 59.826 33.333 0.00 0.00 0.00 2.10
500 1001 5.473504 ACATGATGTTACTTCGCCTTTTTCT 59.526 36.000 0.00 0.00 0.00 2.52
501 1002 5.699839 ACATGATGTTACTTCGCCTTTTTC 58.300 37.500 0.00 0.00 0.00 2.29
507 1008 7.478520 AAGTATTACATGATGTTACTTCGCC 57.521 36.000 13.98 0.00 31.76 5.54
508 1009 8.600625 TCAAAGTATTACATGATGTTACTTCGC 58.399 33.333 18.01 0.14 34.57 4.70
549 1051 5.000591 TCGTGCAACATTTTCTGGATAGAA 58.999 37.500 0.00 0.00 37.73 2.10
551 1053 4.944962 TCGTGCAACATTTTCTGGATAG 57.055 40.909 0.00 0.00 35.74 2.08
552 1054 5.647658 AGATTCGTGCAACATTTTCTGGATA 59.352 36.000 0.00 0.00 35.74 2.59
553 1055 4.460382 AGATTCGTGCAACATTTTCTGGAT 59.540 37.500 0.00 0.00 35.74 3.41
554 1056 3.820467 AGATTCGTGCAACATTTTCTGGA 59.180 39.130 0.00 0.00 35.74 3.86
555 1057 4.164822 AGATTCGTGCAACATTTTCTGG 57.835 40.909 0.00 0.00 35.74 3.86
577 1083 6.736519 GCATCATGCATCCAATAGTTGCTTTA 60.737 38.462 4.20 0.00 44.26 1.85
608 1114 5.361571 TCTGATTTTTCTACCATGCATGCAT 59.638 36.000 27.46 27.46 37.08 3.96
609 1115 4.705991 TCTGATTTTTCTACCATGCATGCA 59.294 37.500 25.04 25.04 0.00 3.96
610 1116 5.039333 GTCTGATTTTTCTACCATGCATGC 58.961 41.667 21.69 11.82 0.00 4.06
611 1117 5.450965 GGGTCTGATTTTTCTACCATGCATG 60.451 44.000 20.19 20.19 31.58 4.06
612 1118 4.646492 GGGTCTGATTTTTCTACCATGCAT 59.354 41.667 0.00 0.00 31.58 3.96
624 1130 2.616510 CGAAGAGCCTGGGTCTGATTTT 60.617 50.000 27.57 12.67 39.62 1.82
657 1163 1.569479 GCCAAGCAGAACCGACAGAC 61.569 60.000 0.00 0.00 0.00 3.51
682 1188 1.823470 GTTGCATATGAGGCGCCCA 60.823 57.895 26.15 21.45 0.00 5.36
781 1287 6.094061 TCTTTTTAAAATAAATCCACGCGGG 58.906 36.000 12.47 6.05 38.37 6.13
923 1434 0.833834 AGATGGATGTAGCGAGGGGG 60.834 60.000 0.00 0.00 0.00 5.40
1001 1512 2.899900 AGCGGTTGATGCTGGAGATATA 59.100 45.455 0.00 0.00 42.14 0.86
1024 1535 0.615331 AATGGCGGATCGATGGCTAT 59.385 50.000 0.54 6.87 0.00 2.97
1100 1624 2.576191 TCCTCCATTAGAACACCAAGGG 59.424 50.000 0.00 0.00 0.00 3.95
1101 1625 3.370953 CCTCCTCCATTAGAACACCAAGG 60.371 52.174 0.00 0.00 0.00 3.61
1102 1626 3.264450 ACCTCCTCCATTAGAACACCAAG 59.736 47.826 0.00 0.00 0.00 3.61
1103 1627 3.009033 CACCTCCTCCATTAGAACACCAA 59.991 47.826 0.00 0.00 0.00 3.67
1104 1628 2.571653 CACCTCCTCCATTAGAACACCA 59.428 50.000 0.00 0.00 0.00 4.17
1107 1631 3.107601 CTCCACCTCCTCCATTAGAACA 58.892 50.000 0.00 0.00 0.00 3.18
1109 1633 2.045885 ACCTCCACCTCCTCCATTAGAA 59.954 50.000 0.00 0.00 0.00 2.10
1504 2071 2.693762 CGACGAGTTCCCTACCGCA 61.694 63.158 0.00 0.00 0.00 5.69
1545 2112 3.282745 GAAGACGTCGAGCAGGGCA 62.283 63.158 10.46 0.00 0.00 5.36
1816 2383 0.318784 GCAGTCTCGACGAACACCTT 60.319 55.000 0.00 0.00 36.20 3.50
1970 2537 2.743538 GCAGCATGTCCACGAGCA 60.744 61.111 0.00 0.00 39.31 4.26
2393 2960 5.827797 ACAAAAGAAGAGTGTGGCAATTAGA 59.172 36.000 0.00 0.00 0.00 2.10
2402 2969 8.147642 AGTTTCATCTACAAAAGAAGAGTGTG 57.852 34.615 0.00 0.00 37.89 3.82
2485 3058 6.996509 ACTGAAGTTGGCATCACAAAATAAT 58.003 32.000 0.00 0.00 31.17 1.28
2559 3132 3.702045 GACTGACTGTAGATGCCCTAACT 59.298 47.826 0.00 0.00 0.00 2.24
2618 3191 1.301087 CGCCCGTACAGTGACCAAA 60.301 57.895 0.00 0.00 0.00 3.28
2619 3192 2.340809 CGCCCGTACAGTGACCAA 59.659 61.111 0.00 0.00 0.00 3.67
2620 3193 2.913578 ACGCCCGTACAGTGACCA 60.914 61.111 0.00 0.00 0.00 4.02
2621 3194 2.431942 CACGCCCGTACAGTGACC 60.432 66.667 0.00 0.00 38.06 4.02
2622 3195 1.731969 GACACGCCCGTACAGTGAC 60.732 63.158 12.62 5.15 39.04 3.67
2623 3196 2.646719 GACACGCCCGTACAGTGA 59.353 61.111 12.62 0.00 39.04 3.41
2624 3197 2.431942 GGACACGCCCGTACAGTG 60.432 66.667 0.00 0.05 41.28 3.66
2625 3198 4.047059 CGGACACGCCCGTACAGT 62.047 66.667 3.67 0.00 44.23 3.55
2635 3208 0.037605 AGGGAGTTAAAGCGGACACG 60.038 55.000 0.00 0.00 44.63 4.49
2636 3209 3.538634 ATAGGGAGTTAAAGCGGACAC 57.461 47.619 0.00 0.00 0.00 3.67
2637 3210 4.563140 AAATAGGGAGTTAAAGCGGACA 57.437 40.909 0.00 0.00 0.00 4.02
2638 3211 7.066645 ACAAATAAATAGGGAGTTAAAGCGGAC 59.933 37.037 0.00 0.00 0.00 4.79
2639 3212 7.114095 ACAAATAAATAGGGAGTTAAAGCGGA 58.886 34.615 0.00 0.00 0.00 5.54
2640 3213 7.329588 ACAAATAAATAGGGAGTTAAAGCGG 57.670 36.000 0.00 0.00 0.00 5.52
2641 3214 8.455682 TGAACAAATAAATAGGGAGTTAAAGCG 58.544 33.333 0.00 0.00 0.00 4.68
2647 3220 9.975218 ACTACATGAACAAATAAATAGGGAGTT 57.025 29.630 0.00 0.00 0.00 3.01
2648 3221 9.614792 GACTACATGAACAAATAAATAGGGAGT 57.385 33.333 0.00 0.00 0.00 3.85
2649 3222 9.613428 TGACTACATGAACAAATAAATAGGGAG 57.387 33.333 0.00 0.00 0.00 4.30
2668 3241 1.557099 AAGCGAGGGACATGACTACA 58.443 50.000 0.00 0.00 0.00 2.74
2704 3283 4.274978 TCTTGTCCATCAATCACATGCAT 58.725 39.130 0.00 0.00 35.35 3.96
2766 3345 0.036732 TGGACCAACCACAGAGCATC 59.963 55.000 0.00 0.00 44.64 3.91
2779 3358 1.212688 CTGCCACATAGGATTGGACCA 59.787 52.381 0.00 0.00 41.22 4.02
2821 3400 7.594351 AGATGAGTATGAGAGTATTTGAGCA 57.406 36.000 0.00 0.00 0.00 4.26
2824 3403 9.072375 CCACTAGATGAGTATGAGAGTATTTGA 57.928 37.037 0.00 0.00 35.64 2.69
2827 3406 7.760607 TCCCACTAGATGAGTATGAGAGTATT 58.239 38.462 0.00 0.00 35.64 1.89
2829 3408 6.765355 TCCCACTAGATGAGTATGAGAGTA 57.235 41.667 0.00 0.00 35.64 2.59
2839 3418 3.877559 TGTGCAATTCCCACTAGATGAG 58.122 45.455 0.00 0.00 34.38 2.90
2840 3419 3.998913 TGTGCAATTCCCACTAGATGA 57.001 42.857 0.00 0.00 34.38 2.92
2841 3420 4.380867 GGTTTGTGCAATTCCCACTAGATG 60.381 45.833 0.00 0.00 34.38 2.90
2842 3421 3.763897 GGTTTGTGCAATTCCCACTAGAT 59.236 43.478 0.00 0.00 34.38 1.98
2843 3422 3.153919 GGTTTGTGCAATTCCCACTAGA 58.846 45.455 0.00 0.00 34.38 2.43
2844 3423 2.890311 TGGTTTGTGCAATTCCCACTAG 59.110 45.455 0.00 0.00 34.38 2.57
2845 3424 2.950781 TGGTTTGTGCAATTCCCACTA 58.049 42.857 0.00 0.00 34.38 2.74
2847 3426 2.036992 TGATGGTTTGTGCAATTCCCAC 59.963 45.455 0.00 0.00 0.00 4.61
2850 3431 3.665745 AGTGATGGTTTGTGCAATTCC 57.334 42.857 0.00 0.00 0.00 3.01
2866 3447 4.382254 CGTAACACTAGCCCCAATAAGTGA 60.382 45.833 8.21 0.00 41.47 3.41
2869 3450 2.870411 GCGTAACACTAGCCCCAATAAG 59.130 50.000 0.00 0.00 0.00 1.73
2887 3468 5.974108 ACCTGTATAGTAGATGTTTTGCGT 58.026 37.500 0.00 0.00 0.00 5.24
2919 3500 9.195411 CAACAAACTCGTATAGTAGGTGTTTTA 57.805 33.333 6.96 0.00 37.84 1.52
2922 3503 5.636543 GCAACAAACTCGTATAGTAGGTGTT 59.363 40.000 0.00 0.00 37.50 3.32
2930 3511 6.573725 GTGTTTTCTGCAACAAACTCGTATAG 59.426 38.462 17.15 0.00 38.40 1.31
2980 3561 6.786967 TCCAAACACTAGATTAGACCTACC 57.213 41.667 0.00 0.00 0.00 3.18
3071 3652 6.835174 TCTTAGATGTACTACGTATCAGGGT 58.165 40.000 0.00 0.00 0.00 4.34
3113 3694 5.056480 TCTTGTGATATTGTTCATAGGCGG 58.944 41.667 0.00 0.00 0.00 6.13
3114 3695 6.791887 ATCTTGTGATATTGTTCATAGGCG 57.208 37.500 0.00 0.00 0.00 5.52
3115 3696 8.623903 TGAAATCTTGTGATATTGTTCATAGGC 58.376 33.333 0.00 0.00 31.70 3.93
3168 3749 4.657963 CGCGAATTGTTGTGATTTTGTTCG 60.658 41.667 0.00 0.00 39.87 3.95
3174 3755 3.500982 CCATCGCGAATTGTTGTGATTT 58.499 40.909 15.24 0.00 33.29 2.17
3175 3756 2.159393 CCCATCGCGAATTGTTGTGATT 60.159 45.455 15.24 0.00 33.29 2.57
3187 3768 0.034198 TGAGAAACAACCCATCGCGA 59.966 50.000 13.09 13.09 0.00 5.87
3208 3789 3.930229 GTGTTTCTTTTTCAAGGCGGTTT 59.070 39.130 0.00 0.00 0.00 3.27
3209 3790 3.056465 TGTGTTTCTTTTTCAAGGCGGTT 60.056 39.130 0.00 0.00 0.00 4.44
3224 3805 3.550030 CCCATCTTGAACCGTTGTGTTTC 60.550 47.826 0.00 0.00 0.00 2.78
3227 3808 1.133915 ACCCATCTTGAACCGTTGTGT 60.134 47.619 0.00 0.00 0.00 3.72
3249 3830 1.679032 GCTGAGGCGGGTGTAGAAAAT 60.679 52.381 0.00 0.00 0.00 1.82
3261 3842 0.603707 TTTGTTCTGAGGCTGAGGCG 60.604 55.000 0.00 0.00 39.81 5.52
3287 3868 3.577805 AGCGATTTTACTGGGCCTATT 57.422 42.857 4.53 0.00 0.00 1.73
3350 3959 4.107051 GGCGTGGCTGTGATGTGC 62.107 66.667 0.00 0.00 0.00 4.57
3360 3969 3.942439 GGAGATAGGGGGCGTGGC 61.942 72.222 0.00 0.00 0.00 5.01
3365 3974 0.838554 GAAGGAGGGAGATAGGGGGC 60.839 65.000 0.00 0.00 0.00 5.80
3366 3975 0.178888 GGAAGGAGGGAGATAGGGGG 60.179 65.000 0.00 0.00 0.00 5.40
3367 3976 0.543174 CGGAAGGAGGGAGATAGGGG 60.543 65.000 0.00 0.00 0.00 4.79
3375 3984 0.115745 AACTACCACGGAAGGAGGGA 59.884 55.000 0.00 0.00 35.08 4.20
3436 4045 2.506217 CGTCGACGGGTGATGGTG 60.506 66.667 29.70 0.00 35.37 4.17


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

AutoCloner maintained by Alex Coulton.