Multiple sequence alignment - TraesCS6D01G316100

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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 TraesCS6D01G316100 chr6D 100.000 4502 0 0 1 4502 424953573 424949072 0.000000e+00 8314
1 TraesCS6D01G316100 chr6D 87.295 2566 268 42 3 2546 227525765 227528294 0.000000e+00 2880
2 TraesCS6D01G316100 chr4A 86.821 2633 295 40 21 2636 460274060 460271463 0.000000e+00 2892
3 TraesCS6D01G316100 chr4A 85.485 1991 250 32 123 2100 499960926 499962890 0.000000e+00 2039
4 TraesCS6D01G316100 chr4A 81.739 575 66 24 3243 3798 460271114 460270560 1.150000e-120 444
5 TraesCS6D01G316100 chr2D 87.724 2346 241 33 311 2644 354686923 354689233 0.000000e+00 2693
6 TraesCS6D01G316100 chr2D 82.577 551 67 17 3237 3770 354689656 354690194 4.100000e-125 459
7 TraesCS6D01G316100 chr2D 82.918 281 34 10 4020 4293 354692368 354692641 1.620000e-59 241
8 TraesCS6D01G316100 chr5D 89.437 2130 195 24 3 2126 43333732 43335837 0.000000e+00 2660
9 TraesCS6D01G316100 chr5D 83.854 576 64 16 3237 3795 43336440 43337003 5.160000e-144 521
10 TraesCS6D01G316100 chr5D 87.823 271 18 8 2375 2637 43335838 43336101 2.030000e-78 303
11 TraesCS6D01G316100 chr5D 82.857 280 27 13 4020 4293 43337467 43337731 9.740000e-57 231
12 TraesCS6D01G316100 chr7D 84.961 2540 327 44 123 2636 316754163 316756673 0.000000e+00 2523
13 TraesCS6D01G316100 chr3B 86.408 2347 258 47 310 2641 233304043 233301743 0.000000e+00 2510
14 TraesCS6D01G316100 chr3B 81.985 544 72 13 3243 3770 233249997 233249464 5.350000e-119 438
15 TraesCS6D01G316100 chr3B 81.139 281 39 9 4020 4293 233248981 233248708 3.530000e-51 213
16 TraesCS6D01G316100 chr5B 87.097 2201 210 37 3 2192 488989672 488991809 0.000000e+00 2423
17 TraesCS6D01G316100 chr5B 88.337 463 47 5 2184 2645 488991831 488992287 2.370000e-152 549
18 TraesCS6D01G316100 chr5B 82.723 573 58 26 3240 3795 488992625 488993173 5.270000e-129 472
19 TraesCS6D01G316100 chr2A 84.325 2488 330 46 155 2615 413478947 413476493 0.000000e+00 2379
20 TraesCS6D01G316100 chr7B 84.809 2383 260 49 278 2644 198613883 198611587 0.000000e+00 2302
21 TraesCS6D01G316100 chr1A 83.618 2515 320 63 155 2615 67013686 67016162 0.000000e+00 2278
22 TraesCS6D01G316100 chr1A 81.295 278 24 12 3 274 576612572 576612827 2.750000e-47 200
23 TraesCS6D01G316100 chr3D 92.687 1299 83 9 1 1297 133260898 133259610 0.000000e+00 1862
24 TraesCS6D01G316100 chr4D 90.888 1306 103 12 1 1297 344296089 344294791 0.000000e+00 1738
25 TraesCS6D01G316100 chr4D 89.586 941 80 15 2223 3155 344253284 344252354 0.000000e+00 1179
26 TraesCS6D01G316100 chr4D 90.562 890 65 14 1350 2229 344294798 344293918 0.000000e+00 1160
27 TraesCS6D01G316100 chr4D 88.408 716 56 11 3178 3876 344252036 344251331 0.000000e+00 837
28 TraesCS6D01G316100 chr4B 83.070 1140 162 23 17 1139 409736907 409735782 0.000000e+00 1007
29 TraesCS6D01G316100 chr4B 83.349 1057 133 31 1351 2390 409735703 409734673 0.000000e+00 937
30 TraesCS6D01G316100 chr6B 84.746 354 46 7 3350 3701 252551948 252551601 9.270000e-92 348
31 TraesCS6D01G316100 chr1D 88.686 274 22 6 3 274 480345061 480345327 4.340000e-85 326


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 TraesCS6D01G316100 chr6D 424949072 424953573 4501 True 8314.00 8314 100.000000 1 4502 1 chr6D.!!$R1 4501
1 TraesCS6D01G316100 chr6D 227525765 227528294 2529 False 2880.00 2880 87.295000 3 2546 1 chr6D.!!$F1 2543
2 TraesCS6D01G316100 chr4A 499960926 499962890 1964 False 2039.00 2039 85.485000 123 2100 1 chr4A.!!$F1 1977
3 TraesCS6D01G316100 chr4A 460270560 460274060 3500 True 1668.00 2892 84.280000 21 3798 2 chr4A.!!$R1 3777
4 TraesCS6D01G316100 chr2D 354686923 354692641 5718 False 1131.00 2693 84.406333 311 4293 3 chr2D.!!$F1 3982
5 TraesCS6D01G316100 chr5D 43333732 43337731 3999 False 928.75 2660 85.992750 3 4293 4 chr5D.!!$F1 4290
6 TraesCS6D01G316100 chr7D 316754163 316756673 2510 False 2523.00 2523 84.961000 123 2636 1 chr7D.!!$F1 2513
7 TraesCS6D01G316100 chr3B 233301743 233304043 2300 True 2510.00 2510 86.408000 310 2641 1 chr3B.!!$R1 2331
8 TraesCS6D01G316100 chr3B 233248708 233249997 1289 True 325.50 438 81.562000 3243 4293 2 chr3B.!!$R2 1050
9 TraesCS6D01G316100 chr5B 488989672 488993173 3501 False 1148.00 2423 86.052333 3 3795 3 chr5B.!!$F1 3792
10 TraesCS6D01G316100 chr2A 413476493 413478947 2454 True 2379.00 2379 84.325000 155 2615 1 chr2A.!!$R1 2460
11 TraesCS6D01G316100 chr7B 198611587 198613883 2296 True 2302.00 2302 84.809000 278 2644 1 chr7B.!!$R1 2366
12 TraesCS6D01G316100 chr1A 67013686 67016162 2476 False 2278.00 2278 83.618000 155 2615 1 chr1A.!!$F1 2460
13 TraesCS6D01G316100 chr3D 133259610 133260898 1288 True 1862.00 1862 92.687000 1 1297 1 chr3D.!!$R1 1296
14 TraesCS6D01G316100 chr4D 344293918 344296089 2171 True 1449.00 1738 90.725000 1 2229 2 chr4D.!!$R2 2228
15 TraesCS6D01G316100 chr4D 344251331 344253284 1953 True 1008.00 1179 88.997000 2223 3876 2 chr4D.!!$R1 1653
16 TraesCS6D01G316100 chr4B 409734673 409736907 2234 True 972.00 1007 83.209500 17 2390 2 chr4B.!!$R1 2373

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
505 534 2.301296 TCTCAGCAGGAAGGAGTCTTTG 59.699 50.000 0.00 0.0 32.52 2.77 F
902 949 2.810400 GCAGAAGCTGGACCAAGTACAA 60.810 50.000 0.00 0.0 37.91 2.41 F
1635 1706 4.999950 ACTGTCATCTGAAGTAAAGCCTTG 59.000 41.667 0.00 0.0 0.00 3.61 F
3141 3317 0.981183 AATGTACTGTTCTCGGGCCA 59.019 50.000 4.39 0.0 0.00 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1375 1440 0.110295 ATGCAACACTGTGGTAGCCA 59.890 50.0 13.09 4.25 0.00 4.75 R
1845 1919 2.163815 CCAGAGGCTTTCTTCTGCATTG 59.836 50.0 0.00 0.00 32.41 2.82 R
3170 3346 0.320683 GGCACATGCAAAAAGGTCCC 60.321 55.0 6.15 0.00 44.36 4.46 R
3983 4742 0.981183 ACGAGGGGTGCATTCTACAA 59.019 50.0 0.00 0.00 0.00 2.41 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
103 114 7.686438 TGTGTAGTAATGATTGCAACTGAAT 57.314 32.000 0.00 0.00 0.00 2.57
205 222 7.687941 AATACTGGATTCACAAGTAAACTGG 57.312 36.000 0.00 0.00 0.00 4.00
229 250 7.441836 GGTGTGGAACCTTTCTATTTGAAATT 58.558 34.615 0.00 0.00 46.55 1.82
256 279 8.594881 ATGTTGCATGTAGCTTATAGTACTTC 57.405 34.615 0.00 0.00 45.94 3.01
258 281 8.909923 TGTTGCATGTAGCTTATAGTACTTCTA 58.090 33.333 0.00 0.00 45.94 2.10
304 328 4.138290 TCTGCGTTTTTCCTTATGTCCAA 58.862 39.130 0.00 0.00 0.00 3.53
313 337 7.938563 TTTTCCTTATGTCCAAAACATTTCG 57.061 32.000 0.00 0.00 46.73 3.46
357 381 4.222336 ACACCAATTTTCCCTGTTCATGA 58.778 39.130 0.00 0.00 0.00 3.07
386 410 6.176183 CCTCTGAATACCAACTCTGTTGATT 58.824 40.000 11.47 4.91 0.00 2.57
408 432 7.386848 TGATTAAGCAACTACTTCACAACCTAC 59.613 37.037 0.00 0.00 0.00 3.18
426 450 4.202284 ACCTACGGTCTGCTTGAAGTTTTA 60.202 41.667 0.00 0.00 0.00 1.52
505 534 2.301296 TCTCAGCAGGAAGGAGTCTTTG 59.699 50.000 0.00 0.00 32.52 2.77
538 567 9.234384 CTAAAGCAGCTGATATCAATTTTTCTG 57.766 33.333 20.43 8.19 0.00 3.02
626 666 2.943199 GCTTCCAAGGGACTCCAATCAG 60.943 54.545 0.00 0.00 38.49 2.90
658 698 3.894427 TGATTCTCCTATCACTCCTGCTC 59.106 47.826 0.00 0.00 29.82 4.26
705 745 4.742417 CCTCTCACTGTCATACAAGTGAG 58.258 47.826 21.30 21.30 45.24 3.51
721 761 3.347216 AGTGAGGGAATTCCAATGAACG 58.653 45.455 25.67 0.00 38.24 3.95
815 860 6.161855 TCTTTGTAATATGAGTCTCGGCAT 57.838 37.500 0.00 0.00 0.00 4.40
863 910 3.834813 TCCCTATCTGTGATATGCAGACC 59.165 47.826 8.29 0.00 44.52 3.85
902 949 2.810400 GCAGAAGCTGGACCAAGTACAA 60.810 50.000 0.00 0.00 37.91 2.41
1002 1050 9.138062 CTCAAAATATCTCGAGAAGTGGATATG 57.862 37.037 20.91 11.06 33.40 1.78
1384 1449 8.761497 GTTTATCTTTTTCTTTTTGGCTACCAC 58.239 33.333 0.00 0.00 30.78 4.16
1417 1484 8.330302 GCATATGCACCAAATTAATTCTTGAAC 58.670 33.333 22.84 0.00 41.59 3.18
1454 1524 9.347240 CAAGATCCATTTTCTCCATATGTAACT 57.653 33.333 1.24 0.00 0.00 2.24
1493 1563 6.560253 TTATTCTGTCCAGCACTCTTTTTC 57.440 37.500 0.00 0.00 0.00 2.29
1506 1577 6.429385 AGCACTCTTTTTCTTGACATAGAAGG 59.571 38.462 0.00 0.00 35.69 3.46
1635 1706 4.999950 ACTGTCATCTGAAGTAAAGCCTTG 59.000 41.667 0.00 0.00 0.00 3.61
1679 1750 7.552687 TCACTTCATACTTCACTGTGAGTTTTT 59.447 33.333 10.77 0.00 0.00 1.94
1780 1854 7.894376 AATTTGCATTTTGTCTATTCACAGG 57.106 32.000 0.00 0.00 0.00 4.00
1845 1919 4.811024 TGCATACGAGAATTTGACAGGATC 59.189 41.667 0.00 0.00 0.00 3.36
1849 1923 5.808042 ACGAGAATTTGACAGGATCAATG 57.192 39.130 0.00 0.00 46.80 2.82
2024 2103 9.308318 GTTATACTTTCCATCAACTCTCTCTTC 57.692 37.037 0.00 0.00 0.00 2.87
2172 2285 5.105554 TGCTCTACCACTTCTGAATCTCTTC 60.106 44.000 0.00 0.00 0.00 2.87
2180 2295 6.261826 CCACTTCTGAATCTCTTCAACTGTTT 59.738 38.462 0.00 0.00 40.78 2.83
2246 2396 5.990120 AGCTGAGTAAAAAGCCATTCAAT 57.010 34.783 0.00 0.00 40.42 2.57
2273 2423 5.473504 TGTATTCTCTTTCAAGCTTCAACCC 59.526 40.000 0.00 0.00 0.00 4.11
2312 2462 5.542779 ACAAACTCTCTCATGTAAGTCCAC 58.457 41.667 0.00 0.00 0.00 4.02
2406 2560 7.447510 TCTTATTTTACTTTCCCCCTCCTAG 57.552 40.000 0.00 0.00 0.00 3.02
2439 2594 6.358974 TCACACTTGATACTCATCCTCAAA 57.641 37.500 0.00 0.00 0.00 2.69
2440 2595 6.950842 TCACACTTGATACTCATCCTCAAAT 58.049 36.000 0.00 0.00 0.00 2.32
2441 2596 7.397221 TCACACTTGATACTCATCCTCAAATT 58.603 34.615 0.00 0.00 0.00 1.82
2542 2701 4.410448 GCAAAGCTATGAAGAGTTTCAGC 58.590 43.478 0.00 0.00 45.89 4.26
2551 2710 1.726853 AGAGTTTCAGCGTGGTATGC 58.273 50.000 0.00 0.00 0.00 3.14
2560 2719 2.030363 CAGCGTGGTATGCCTTGAAAAA 60.030 45.455 0.16 0.00 35.27 1.94
2615 2786 9.665719 AAAATTGATTCCAAAACAAACTAGTGT 57.334 25.926 0.00 0.00 35.67 3.55
2617 2788 7.397892 TTGATTCCAAAACAAACTAGTGTCA 57.602 32.000 0.00 0.00 0.00 3.58
2652 2824 4.960938 TGTGTTGGGAGCTGCTATATAAG 58.039 43.478 0.15 0.00 0.00 1.73
2655 2827 5.641209 GTGTTGGGAGCTGCTATATAAGATG 59.359 44.000 0.15 0.00 0.00 2.90
2678 2850 4.810491 GTGATTTGACAATGTTTGCCAGTT 59.190 37.500 0.00 0.00 0.00 3.16
2689 2861 5.437289 TGTTTGCCAGTTAATCACTTCTG 57.563 39.130 0.00 0.00 30.92 3.02
2700 2872 7.321271 CAGTTAATCACTTCTGCTTGTAAAACG 59.679 37.037 0.00 0.00 30.92 3.60
2704 2876 3.058914 CACTTCTGCTTGTAAAACGAGGG 60.059 47.826 0.00 0.00 30.15 4.30
2710 2882 3.892588 TGCTTGTAAAACGAGGGGAAAAT 59.107 39.130 0.00 0.00 30.15 1.82
2711 2883 4.234574 GCTTGTAAAACGAGGGGAAAATG 58.765 43.478 0.00 0.00 30.15 2.32
2713 2885 5.699097 TTGTAAAACGAGGGGAAAATGAG 57.301 39.130 0.00 0.00 0.00 2.90
2714 2886 3.504520 TGTAAAACGAGGGGAAAATGAGC 59.495 43.478 0.00 0.00 0.00 4.26
2719 2892 2.304761 ACGAGGGGAAAATGAGCTACAA 59.695 45.455 0.00 0.00 0.00 2.41
2721 2894 3.686016 GAGGGGAAAATGAGCTACAACA 58.314 45.455 0.00 0.00 0.00 3.33
2730 2903 6.882610 AAATGAGCTACAACAGTGATGAAA 57.117 33.333 7.47 0.00 0.00 2.69
2735 2908 6.262944 TGAGCTACAACAGTGATGAAAAACAT 59.737 34.615 7.47 0.00 42.47 2.71
2784 2957 2.233922 AGGTCAGTTGTATGAAGGGTCG 59.766 50.000 0.00 0.00 0.00 4.79
2790 2963 4.998672 CAGTTGTATGAAGGGTCGGTTAAA 59.001 41.667 0.00 0.00 0.00 1.52
2804 2977 8.711170 AGGGTCGGTTAAAATTTATCTGATCTA 58.289 33.333 12.85 0.00 0.00 1.98
2841 3014 8.239038 TGTAATTGTAACCTGGTTTGATGAAA 57.761 30.769 18.58 4.37 0.00 2.69
2851 3024 6.098124 ACCTGGTTTGATGAAACTTGAATCAA 59.902 34.615 7.72 0.00 41.21 2.57
2883 3057 6.969993 TTTTAGGAGCAAATGGTAAGTTGT 57.030 33.333 0.00 0.00 33.90 3.32
2890 3064 6.974622 GGAGCAAATGGTAAGTTGTATGATTG 59.025 38.462 0.00 0.00 33.90 2.67
2899 3073 8.432013 TGGTAAGTTGTATGATTGATGCTCTAT 58.568 33.333 0.00 0.00 0.00 1.98
2905 3079 9.608617 GTTGTATGATTGATGCTCTATTGAATG 57.391 33.333 0.00 0.00 0.00 2.67
2927 3101 5.007682 TGAGTAAGAACCCATAAACCAAGC 58.992 41.667 0.00 0.00 0.00 4.01
2930 3104 5.710567 AGTAAGAACCCATAAACCAAGCTTC 59.289 40.000 0.00 0.00 0.00 3.86
2933 3107 4.280929 AGAACCCATAAACCAAGCTTCAAC 59.719 41.667 0.00 0.00 0.00 3.18
2950 3124 8.206325 AGCTTCAACTCAGTATGTTTGATATG 57.794 34.615 0.00 0.00 38.38 1.78
2951 3125 7.826252 AGCTTCAACTCAGTATGTTTGATATGT 59.174 33.333 0.00 0.00 38.38 2.29
2975 3149 8.471609 TGTACGGAAGATAGTTGAATGTGATTA 58.528 33.333 0.00 0.00 0.00 1.75
2978 3152 9.046296 ACGGAAGATAGTTGAATGTGATTATTC 57.954 33.333 0.00 0.00 37.53 1.75
3084 3260 3.220110 CATGTCCTGCTGCCTATCATTT 58.780 45.455 0.00 0.00 0.00 2.32
3094 3270 5.129320 TGCTGCCTATCATTTTCTAGTCAGA 59.871 40.000 0.00 0.00 0.00 3.27
3095 3271 5.695816 GCTGCCTATCATTTTCTAGTCAGAG 59.304 44.000 0.00 0.00 30.73 3.35
3096 3272 6.166984 TGCCTATCATTTTCTAGTCAGAGG 57.833 41.667 0.00 0.00 30.73 3.69
3097 3273 5.070981 TGCCTATCATTTTCTAGTCAGAGGG 59.929 44.000 0.00 0.00 30.73 4.30
3098 3274 5.546526 CCTATCATTTTCTAGTCAGAGGGC 58.453 45.833 0.00 0.00 30.73 5.19
3122 3298 7.870445 GGCAAATGTTTTCTTGGACATTAGTTA 59.130 33.333 2.55 0.00 43.58 2.24
3139 3315 3.858247 AGTTAATGTACTGTTCTCGGGC 58.142 45.455 0.00 0.00 0.00 6.13
3141 3317 0.981183 AATGTACTGTTCTCGGGCCA 59.019 50.000 4.39 0.00 0.00 5.36
3146 3322 1.995376 ACTGTTCTCGGGCCAATTTT 58.005 45.000 4.39 0.00 0.00 1.82
3155 3331 6.844097 TCTCGGGCCAATTTTAATTTTAGT 57.156 33.333 4.39 0.00 0.00 2.24
3157 3333 7.093992 TCTCGGGCCAATTTTAATTTTAGTTG 58.906 34.615 4.39 0.00 0.00 3.16
3159 3335 7.616313 TCGGGCCAATTTTAATTTTAGTTGAT 58.384 30.769 4.39 0.00 0.00 2.57
3160 3336 7.547370 TCGGGCCAATTTTAATTTTAGTTGATG 59.453 33.333 4.39 0.00 0.00 3.07
3162 3338 7.336679 GGGCCAATTTTAATTTTAGTTGATGCT 59.663 33.333 4.39 0.00 0.00 3.79
3171 3347 9.906660 TTAATTTTAGTTGATGCTACTTGTTGG 57.093 29.630 0.00 0.00 0.00 3.77
3172 3348 5.957842 TTTAGTTGATGCTACTTGTTGGG 57.042 39.130 0.00 0.00 0.00 4.12
3173 3349 3.788227 AGTTGATGCTACTTGTTGGGA 57.212 42.857 0.00 0.00 0.00 4.37
3174 3350 3.412386 AGTTGATGCTACTTGTTGGGAC 58.588 45.455 0.00 0.00 0.00 4.46
3175 3351 2.488153 GTTGATGCTACTTGTTGGGACC 59.512 50.000 0.00 0.00 0.00 4.46
3176 3352 1.985159 TGATGCTACTTGTTGGGACCT 59.015 47.619 0.00 0.00 0.00 3.85
3217 3781 7.380423 ACTAAATGCTAGTCCCAATCATACT 57.620 36.000 0.00 0.00 0.00 2.12
3220 3784 3.653164 TGCTAGTCCCAATCATACTCCA 58.347 45.455 0.00 0.00 0.00 3.86
3228 3792 6.953520 AGTCCCAATCATACTCCAATTTTTCA 59.046 34.615 0.00 0.00 0.00 2.69
3274 3980 6.769341 AGCATGCTCATATGATTAGTCAAACA 59.231 34.615 16.30 0.00 38.01 2.83
3307 4013 5.533154 GTCTTTACTATCTCTGCAGCCTCTA 59.467 44.000 9.47 0.00 0.00 2.43
3308 4014 5.533154 TCTTTACTATCTCTGCAGCCTCTAC 59.467 44.000 9.47 0.00 0.00 2.59
3326 4048 6.500041 CCTCTACAATTAGTCAGTGCTCTAC 58.500 44.000 0.00 0.00 0.00 2.59
3458 4183 5.527951 TGCGTTCAAGTTATTCAAAAGCAT 58.472 33.333 0.00 0.00 31.17 3.79
3511 4237 2.399396 ACCAAATTGACTTTCGCACG 57.601 45.000 0.00 0.00 0.00 5.34
3559 4286 7.921786 AATGTGTAATTCATCGGAGAAAAGA 57.078 32.000 0.00 0.00 43.58 2.52
3569 4296 6.324819 TCATCGGAGAAAAGAAATGCATTTC 58.675 36.000 34.85 34.85 43.58 2.17
3662 4390 3.097614 ACCGTGAGCAACTCCTATACTT 58.902 45.455 0.00 0.00 0.00 2.24
3690 4419 2.688958 GCCACCTACTCTACTTCGTGAT 59.311 50.000 0.00 0.00 0.00 3.06
3691 4420 3.130693 GCCACCTACTCTACTTCGTGATT 59.869 47.826 0.00 0.00 0.00 2.57
3711 4440 8.082852 CGTGATTTATATAGTACCTCTGTTGCT 58.917 37.037 0.00 0.00 0.00 3.91
3718 4447 8.713708 ATATAGTACCTCTGTTGCTATCACTT 57.286 34.615 0.00 0.00 0.00 3.16
3719 4448 5.746990 AGTACCTCTGTTGCTATCACTTT 57.253 39.130 0.00 0.00 0.00 2.66
3737 4466 8.915057 ATCACTTTTGCATACTAAGCATATCT 57.085 30.769 0.00 0.00 42.33 1.98
3738 4467 8.737168 TCACTTTTGCATACTAAGCATATCTT 57.263 30.769 0.00 0.00 42.33 2.40
3834 4563 7.734865 TGGGAGTTGGATGTATAGTATCTCAAT 59.265 37.037 0.00 0.00 0.00 2.57
3836 4565 8.254508 GGAGTTGGATGTATAGTATCTCAATCC 58.745 40.741 0.00 0.00 0.00 3.01
3838 4567 8.589338 AGTTGGATGTATAGTATCTCAATCCAC 58.411 37.037 12.27 9.43 35.66 4.02
3866 4624 4.561735 TTTCTCCATTCCGTGTGTTTTC 57.438 40.909 0.00 0.00 0.00 2.29
3876 4634 3.119316 TCCGTGTGTTTTCAAGCATTTGT 60.119 39.130 0.00 0.00 35.73 2.83
3884 4642 7.280428 TGTGTTTTCAAGCATTTGTCATTTCAT 59.720 29.630 0.00 0.00 35.73 2.57
3977 4736 8.432110 TGATATATCGCGTTAATTATTGGCAT 57.568 30.769 5.77 0.00 0.00 4.40
3978 4737 8.888716 TGATATATCGCGTTAATTATTGGCATT 58.111 29.630 5.77 0.00 0.00 3.56
3983 4742 5.294799 TCGCGTTAATTATTGGCATTACTGT 59.705 36.000 5.77 0.00 0.00 3.55
4004 6491 1.066430 TGTAGAATGCACCCCTCGTTC 60.066 52.381 0.00 0.00 0.00 3.95
4027 6514 5.130975 TCTCAATAGCATGGTAGTGATGGTT 59.869 40.000 28.82 7.12 33.66 3.67
4028 6515 5.368145 TCAATAGCATGGTAGTGATGGTTC 58.632 41.667 26.12 0.00 33.66 3.62
4029 6516 2.315925 AGCATGGTAGTGATGGTTCG 57.684 50.000 0.00 0.00 0.00 3.95
4030 6517 1.555075 AGCATGGTAGTGATGGTTCGT 59.445 47.619 0.00 0.00 0.00 3.85
4031 6518 1.665679 GCATGGTAGTGATGGTTCGTG 59.334 52.381 0.00 0.00 0.00 4.35
4032 6519 1.665679 CATGGTAGTGATGGTTCGTGC 59.334 52.381 0.00 0.00 0.00 5.34
4034 6521 1.346395 TGGTAGTGATGGTTCGTGCTT 59.654 47.619 0.00 0.00 0.00 3.91
4035 6522 2.224426 TGGTAGTGATGGTTCGTGCTTT 60.224 45.455 0.00 0.00 0.00 3.51
4073 6853 5.139727 TGTGAAATGTTTTGGAGAGGACAT 58.860 37.500 0.00 0.00 34.41 3.06
4074 6854 5.598005 TGTGAAATGTTTTGGAGAGGACATT 59.402 36.000 0.00 0.00 42.66 2.71
4076 6856 6.986231 GTGAAATGTTTTGGAGAGGACATTTT 59.014 34.615 12.74 0.67 46.71 1.82
4077 6857 6.985645 TGAAATGTTTTGGAGAGGACATTTTG 59.014 34.615 12.74 0.00 46.71 2.44
4082 6862 7.164803 TGTTTTGGAGAGGACATTTTGTTTTT 58.835 30.769 0.00 0.00 0.00 1.94
4083 6863 7.333174 TGTTTTGGAGAGGACATTTTGTTTTTC 59.667 33.333 0.00 0.00 0.00 2.29
4085 6865 6.790232 TGGAGAGGACATTTTGTTTTTCTT 57.210 33.333 0.00 0.00 0.00 2.52
4086 6866 7.181569 TGGAGAGGACATTTTGTTTTTCTTT 57.818 32.000 0.00 0.00 0.00 2.52
4087 6867 7.619965 TGGAGAGGACATTTTGTTTTTCTTTT 58.380 30.769 0.00 0.00 0.00 2.27
4111 6891 9.605955 TTTGAATAACATTACAGTGTTTCATCG 57.394 29.630 0.00 0.00 42.08 3.84
4112 6892 8.541133 TGAATAACATTACAGTGTTTCATCGA 57.459 30.769 0.00 0.00 42.08 3.59
4113 6893 8.994170 TGAATAACATTACAGTGTTTCATCGAA 58.006 29.630 0.00 0.00 42.08 3.71
4187 6969 7.353414 TCACCAAAACCAAATTCAGTTCATA 57.647 32.000 0.00 0.00 0.00 2.15
4293 7075 8.379902 CAAAACTAGTTCACCAACAATTCAAAC 58.620 33.333 8.95 0.00 34.60 2.93
4294 7076 7.404671 AACTAGTTCACCAACAATTCAAACT 57.595 32.000 1.12 0.00 34.60 2.66
4295 7077 8.514330 AACTAGTTCACCAACAATTCAAACTA 57.486 30.769 1.12 0.00 34.60 2.24
4296 7078 8.154649 ACTAGTTCACCAACAATTCAAACTAG 57.845 34.615 14.55 14.55 45.05 2.57
4297 7079 7.773690 ACTAGTTCACCAACAATTCAAACTAGT 59.226 33.333 15.56 15.56 46.36 2.57
4298 7080 7.404671 AGTTCACCAACAATTCAAACTAGTT 57.595 32.000 1.12 1.12 34.60 2.24
4299 7081 7.480810 AGTTCACCAACAATTCAAACTAGTTC 58.519 34.615 8.95 0.00 34.60 3.01
4300 7082 7.122055 AGTTCACCAACAATTCAAACTAGTTCA 59.878 33.333 8.95 0.00 34.60 3.18
4301 7083 7.397892 TCACCAACAATTCAAACTAGTTCAA 57.602 32.000 8.95 5.53 0.00 2.69
4302 7084 7.479980 TCACCAACAATTCAAACTAGTTCAAG 58.520 34.615 8.95 2.56 0.00 3.02
4303 7085 7.122055 TCACCAACAATTCAAACTAGTTCAAGT 59.878 33.333 8.95 1.58 0.00 3.16
4304 7086 8.402472 CACCAACAATTCAAACTAGTTCAAGTA 58.598 33.333 8.95 0.00 0.00 2.24
4305 7087 8.962679 ACCAACAATTCAAACTAGTTCAAGTAA 58.037 29.630 8.95 0.06 0.00 2.24
4306 7088 9.796120 CCAACAATTCAAACTAGTTCAAGTAAA 57.204 29.630 8.95 0.00 0.00 2.01
4357 7139 9.949174 ATTTCAACAAATTGCCAAATTTAGTTC 57.051 25.926 0.00 0.00 42.77 3.01
4358 7140 8.498054 TTCAACAAATTGCCAAATTTAGTTCA 57.502 26.923 0.00 0.00 42.77 3.18
4359 7141 8.498054 TCAACAAATTGCCAAATTTAGTTCAA 57.502 26.923 0.00 0.00 42.77 2.69
4360 7142 9.118300 TCAACAAATTGCCAAATTTAGTTCAAT 57.882 25.926 0.00 0.00 42.77 2.57
4361 7143 9.733219 CAACAAATTGCCAAATTTAGTTCAATT 57.267 25.926 0.00 10.62 42.77 2.32
4362 7144 9.733219 AACAAATTGCCAAATTTAGTTCAATTG 57.267 25.926 14.35 0.00 42.77 2.32
4363 7145 8.901793 ACAAATTGCCAAATTTAGTTCAATTGT 58.098 25.926 5.13 12.41 42.77 2.71
4368 7150 9.770097 TTGCCAAATTTAGTTCAATTGTATTCA 57.230 25.926 5.13 0.00 0.00 2.57
4369 7151 9.770097 TGCCAAATTTAGTTCAATTGTATTCAA 57.230 25.926 5.13 0.00 37.98 2.69
4424 7206 9.598517 AGTTCAGCAAATTTAGTTCATGAAAAA 57.401 25.926 10.35 8.69 0.00 1.94
4427 7209 9.985730 TCAGCAAATTTAGTTCATGAAAAATCT 57.014 25.926 10.35 5.63 0.00 2.40
4495 7277 9.883142 AGTTCACCAATTTTTGAATAAAGTTCA 57.117 25.926 2.56 0.00 34.34 3.18
4496 7278 9.914923 GTTCACCAATTTTTGAATAAAGTTCAC 57.085 29.630 2.56 0.00 34.34 3.18
4497 7279 9.883142 TTCACCAATTTTTGAATAAAGTTCACT 57.117 25.926 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 7.759489 AATTGGCTATTTACAAACAGACTGA 57.241 32.000 10.08 0.00 0.00 3.41
29 33 0.108520 CTGCCGCATTCAAATTGGCT 60.109 50.000 13.84 0.00 45.90 4.75
79 90 7.686438 ATTCAGTTGCAATCATTACTACACA 57.314 32.000 0.59 0.00 0.00 3.72
144 155 9.755804 GTCATGATCAGTCATAAAATAGAGTGA 57.244 33.333 0.00 0.00 43.14 3.41
193 210 3.284617 GGTTCCACACCAGTTTACTTGT 58.715 45.455 0.00 0.00 46.42 3.16
274 297 5.712152 AAGGAAAAACGCAGAATTCAGAT 57.288 34.783 8.44 0.00 0.00 2.90
304 328 3.190535 CCGAATTCAGGACCGAAATGTTT 59.809 43.478 6.22 0.00 0.00 2.83
313 337 1.276989 TGGTACACCGAATTCAGGACC 59.723 52.381 18.98 16.55 39.43 4.46
357 381 5.721960 ACAGAGTTGGTATTCAGAGGTGTAT 59.278 40.000 0.00 0.00 0.00 2.29
386 410 5.224888 CGTAGGTTGTGAAGTAGTTGCTTA 58.775 41.667 0.00 0.00 0.00 3.09
408 432 4.545823 TTGTAAAACTTCAAGCAGACCG 57.454 40.909 0.00 0.00 0.00 4.79
497 526 5.004916 GCTGCTTTAGTCGATACAAAGACTC 59.995 44.000 16.12 4.21 45.46 3.36
505 534 6.382608 TGATATCAGCTGCTTTAGTCGATAC 58.617 40.000 9.47 0.04 0.00 2.24
538 567 5.842907 ACTTCTTTTTGCATTAACTCCACC 58.157 37.500 0.00 0.00 0.00 4.61
580 612 5.240403 GCTTGACTCTTTCATTTGGAGAAGT 59.760 40.000 0.00 0.00 32.84 3.01
658 698 5.977635 TGGTATGTCTTCATTACTCACAGG 58.022 41.667 0.00 0.00 35.70 4.00
705 745 2.163613 GTCCACGTTCATTGGAATTCCC 59.836 50.000 21.90 4.11 44.94 3.97
721 761 1.388547 TGTTGGTCAGCAAAGTCCAC 58.611 50.000 0.00 0.00 0.00 4.02
793 837 8.438513 CAATATGCCGAGACTCATATTACAAAG 58.561 37.037 2.82 0.00 41.39 2.77
842 887 3.580022 TGGTCTGCATATCACAGATAGGG 59.420 47.826 7.95 0.00 45.40 3.53
863 910 8.350722 AGCTTCTGCATTATTCATTGTAGAATG 58.649 33.333 6.25 6.25 41.58 2.67
1002 1050 7.094205 TGCTTCCTCAGATATTTGGAAAAGAAC 60.094 37.037 0.00 0.00 38.01 3.01
1231 1288 5.502079 TCAACTACCTTTTGTTGTTCCAGA 58.498 37.500 0.00 0.00 40.26 3.86
1375 1440 0.110295 ATGCAACACTGTGGTAGCCA 59.890 50.000 13.09 4.25 0.00 4.75
1428 1496 9.347240 AGTTACATATGGAGAAAATGGATCTTG 57.653 33.333 7.80 0.00 0.00 3.02
1493 1563 8.831550 GCTTATAGGAAAACCTTCTATGTCAAG 58.168 37.037 0.00 0.00 0.00 3.02
1543 1614 2.040278 TCCAATCTCACCCCTCACTTTG 59.960 50.000 0.00 0.00 0.00 2.77
1604 1675 9.390795 CTTTACTTCAGATGACAGTTTTGATTG 57.609 33.333 3.97 0.00 0.00 2.67
1612 1683 4.899352 AGGCTTTACTTCAGATGACAGT 57.101 40.909 0.00 4.08 0.00 3.55
1613 1684 4.999950 ACAAGGCTTTACTTCAGATGACAG 59.000 41.667 0.00 0.00 0.00 3.51
1679 1750 3.006537 AGCAAGTAGGCAGTTTAGAACGA 59.993 43.478 0.00 0.00 36.23 3.85
1770 1844 8.190784 GGAACCAACAATTTATCCTGTGAATAG 58.809 37.037 0.00 0.00 0.00 1.73
1771 1845 8.062065 GGAACCAACAATTTATCCTGTGAATA 57.938 34.615 0.00 0.00 0.00 1.75
1772 1846 6.935167 GGAACCAACAATTTATCCTGTGAAT 58.065 36.000 0.00 0.00 0.00 2.57
1845 1919 2.163815 CCAGAGGCTTTCTTCTGCATTG 59.836 50.000 0.00 0.00 32.41 2.82
1849 1923 2.191128 TTCCAGAGGCTTTCTTCTGC 57.809 50.000 0.00 0.00 32.41 4.26
1970 2049 9.238368 CAGTGGTTTGATTTTATAGTAGGGAAA 57.762 33.333 0.00 0.00 0.00 3.13
2246 2396 8.730680 GGTTGAAGCTTGAAAGAGAATACATTA 58.269 33.333 2.10 0.00 0.00 1.90
2273 2423 3.069289 GTTTGTTGGGTAAGGACCTACG 58.931 50.000 0.00 0.00 46.09 3.51
2296 2446 7.158021 AGAAGAAAAGTGGACTTACATGAGAG 58.842 38.462 0.00 0.00 34.61 3.20
2389 2541 3.878086 ACAACTAGGAGGGGGAAAGTAA 58.122 45.455 0.00 0.00 0.00 2.24
2390 2542 3.572661 ACAACTAGGAGGGGGAAAGTA 57.427 47.619 0.00 0.00 0.00 2.24
2392 2544 2.375509 ACAACAACTAGGAGGGGGAAAG 59.624 50.000 0.00 0.00 0.00 2.62
2406 2560 8.083462 TGAGTATCAAGTGTGATAACAACAAC 57.917 34.615 0.00 0.00 45.97 3.32
2463 2620 3.220110 CCTGAGTCATGCCTGCATAAAT 58.780 45.455 3.98 0.00 34.91 1.40
2542 2701 4.701956 AGATTTTTCAAGGCATACCACG 57.298 40.909 0.00 0.00 39.06 4.94
2597 2768 6.016610 GCCTATGACACTAGTTTGTTTTGGAA 60.017 38.462 0.00 0.00 0.00 3.53
2615 2786 3.700539 CCAACACATCAAATGGCCTATGA 59.299 43.478 3.32 6.21 33.60 2.15
2617 2788 3.033184 CCCAACACATCAAATGGCCTAT 58.967 45.455 3.32 0.00 33.60 2.57
2652 2824 4.989797 TGGCAAACATTGTCAAATCACATC 59.010 37.500 0.00 0.00 43.24 3.06
2655 2827 4.370917 ACTGGCAAACATTGTCAAATCAC 58.629 39.130 0.00 0.00 45.83 3.06
2670 2842 3.754965 AGCAGAAGTGATTAACTGGCAA 58.245 40.909 0.00 0.00 39.81 4.52
2678 2850 6.147164 CCTCGTTTTACAAGCAGAAGTGATTA 59.853 38.462 0.00 0.00 28.88 1.75
2689 2861 3.994204 TTTTCCCCTCGTTTTACAAGC 57.006 42.857 0.00 0.00 0.00 4.01
2700 2872 3.686016 TGTTGTAGCTCATTTTCCCCTC 58.314 45.455 0.00 0.00 0.00 4.30
2704 2876 5.412594 TCATCACTGTTGTAGCTCATTTTCC 59.587 40.000 0.00 0.00 0.00 3.13
2710 2882 5.588246 TGTTTTTCATCACTGTTGTAGCTCA 59.412 36.000 0.00 0.00 0.00 4.26
2711 2883 6.060028 TGTTTTTCATCACTGTTGTAGCTC 57.940 37.500 0.00 0.00 0.00 4.09
2713 2885 7.698836 AAATGTTTTTCATCACTGTTGTAGC 57.301 32.000 0.00 0.00 35.48 3.58
2719 2892 8.859090 TCCAGATAAAATGTTTTTCATCACTGT 58.141 29.630 0.00 0.00 35.48 3.55
2758 2931 5.962031 ACCCTTCATACAACTGACCTATACA 59.038 40.000 0.00 0.00 0.00 2.29
2759 2932 6.481434 ACCCTTCATACAACTGACCTATAC 57.519 41.667 0.00 0.00 0.00 1.47
2760 2933 5.301045 CGACCCTTCATACAACTGACCTATA 59.699 44.000 0.00 0.00 0.00 1.31
2761 2934 4.099573 CGACCCTTCATACAACTGACCTAT 59.900 45.833 0.00 0.00 0.00 2.57
2762 2935 3.446161 CGACCCTTCATACAACTGACCTA 59.554 47.826 0.00 0.00 0.00 3.08
2763 2936 2.233922 CGACCCTTCATACAACTGACCT 59.766 50.000 0.00 0.00 0.00 3.85
2872 3046 7.285566 AGAGCATCAATCATACAACTTACCAT 58.714 34.615 0.00 0.00 37.82 3.55
2873 3047 6.653020 AGAGCATCAATCATACAACTTACCA 58.347 36.000 0.00 0.00 37.82 3.25
2877 3051 8.969260 TCAATAGAGCATCAATCATACAACTT 57.031 30.769 0.00 0.00 37.82 2.66
2890 3064 7.172361 GGGTTCTTACTCATTCAATAGAGCATC 59.828 40.741 0.00 0.00 35.28 3.91
2899 3073 7.235079 TGGTTTATGGGTTCTTACTCATTCAA 58.765 34.615 0.00 0.00 42.98 2.69
2905 3079 5.254115 AGCTTGGTTTATGGGTTCTTACTC 58.746 41.667 0.00 0.00 0.00 2.59
2930 3104 7.704899 TCCGTACATATCAAACATACTGAGTTG 59.295 37.037 0.00 0.00 0.00 3.16
2933 3107 8.135529 TCTTCCGTACATATCAAACATACTGAG 58.864 37.037 0.00 0.00 0.00 3.35
2950 3124 7.772332 AATCACATTCAACTATCTTCCGTAC 57.228 36.000 0.00 0.00 0.00 3.67
2978 3152 9.874205 AACATGGGAACTAATTCATAACAAATG 57.126 29.630 0.00 0.00 36.46 2.32
2992 3166 9.816787 ACCTTTAGAAATAAAACATGGGAACTA 57.183 29.630 0.00 0.00 0.00 2.24
3036 3212 7.223777 GCCAGAGAAAACTCATGTCTATACTTC 59.776 40.741 0.00 0.00 0.00 3.01
3039 3215 5.755861 GGCCAGAGAAAACTCATGTCTATAC 59.244 44.000 0.00 0.00 0.00 1.47
3041 3217 4.225942 TGGCCAGAGAAAACTCATGTCTAT 59.774 41.667 0.00 0.00 0.00 1.98
3084 3260 4.640771 AACATTTGCCCTCTGACTAGAA 57.359 40.909 0.00 0.00 31.21 2.10
3094 3270 3.037549 TGTCCAAGAAAACATTTGCCCT 58.962 40.909 0.00 0.00 0.00 5.19
3095 3271 3.467374 TGTCCAAGAAAACATTTGCCC 57.533 42.857 0.00 0.00 0.00 5.36
3096 3272 6.223120 ACTAATGTCCAAGAAAACATTTGCC 58.777 36.000 6.09 0.00 42.00 4.52
3097 3273 7.713764 AACTAATGTCCAAGAAAACATTTGC 57.286 32.000 6.09 0.00 42.00 3.68
3122 3298 0.981183 TGGCCCGAGAACAGTACATT 59.019 50.000 0.00 0.00 0.00 2.71
3135 3311 7.676104 GCATCAACTAAAATTAAAATTGGCCCG 60.676 37.037 0.00 0.00 0.00 6.13
3146 3322 8.519526 CCCAACAAGTAGCATCAACTAAAATTA 58.480 33.333 0.00 0.00 0.00 1.40
3155 3331 2.375174 AGGTCCCAACAAGTAGCATCAA 59.625 45.455 0.00 0.00 0.00 2.57
3157 3333 2.789409 AGGTCCCAACAAGTAGCATC 57.211 50.000 0.00 0.00 0.00 3.91
3159 3335 3.306472 AAAAGGTCCCAACAAGTAGCA 57.694 42.857 0.00 0.00 0.00 3.49
3160 3336 3.798889 GCAAAAAGGTCCCAACAAGTAGC 60.799 47.826 0.00 0.00 0.00 3.58
3162 3338 3.366396 TGCAAAAAGGTCCCAACAAGTA 58.634 40.909 0.00 0.00 0.00 2.24
3164 3340 2.977772 TGCAAAAAGGTCCCAACAAG 57.022 45.000 0.00 0.00 0.00 3.16
3165 3341 2.503356 ACATGCAAAAAGGTCCCAACAA 59.497 40.909 0.00 0.00 0.00 2.83
3166 3342 2.114616 ACATGCAAAAAGGTCCCAACA 58.885 42.857 0.00 0.00 0.00 3.33
3167 3343 2.482864 CACATGCAAAAAGGTCCCAAC 58.517 47.619 0.00 0.00 0.00 3.77
3168 3344 1.202627 GCACATGCAAAAAGGTCCCAA 60.203 47.619 0.00 0.00 41.59 4.12
3169 3345 0.392336 GCACATGCAAAAAGGTCCCA 59.608 50.000 0.00 0.00 41.59 4.37
3170 3346 0.320683 GGCACATGCAAAAAGGTCCC 60.321 55.000 6.15 0.00 44.36 4.46
3171 3347 0.392336 TGGCACATGCAAAAAGGTCC 59.608 50.000 6.15 0.00 44.36 4.46
3172 3348 2.237393 TTGGCACATGCAAAAAGGTC 57.763 45.000 6.15 0.00 44.36 3.85
3173 3349 2.934886 ATTGGCACATGCAAAAAGGT 57.065 40.000 6.15 0.00 44.36 3.50
3174 3350 3.929094 AGTATTGGCACATGCAAAAAGG 58.071 40.909 6.15 0.00 44.36 3.11
3175 3351 7.457868 CATTTAGTATTGGCACATGCAAAAAG 58.542 34.615 6.15 0.00 44.36 2.27
3176 3352 6.128336 GCATTTAGTATTGGCACATGCAAAAA 60.128 34.615 6.15 0.00 44.36 1.94
3228 3792 7.692460 TGCTGAAGAAACTAATGTCATGATT 57.308 32.000 0.00 0.00 0.00 2.57
3245 3950 6.649557 TGACTAATCATATGAGCATGCTGAAG 59.350 38.462 28.27 11.66 0.00 3.02
3307 4013 6.992715 ACAAAAGTAGAGCACTGACTAATTGT 59.007 34.615 0.00 6.51 37.63 2.71
3308 4014 7.426929 ACAAAAGTAGAGCACTGACTAATTG 57.573 36.000 0.00 6.02 37.63 2.32
3458 4183 7.156876 TCTTCTTCTTTCAGCTTGTTCAAAA 57.843 32.000 0.00 0.00 0.00 2.44
3533 4259 9.443323 TCTTTTCTCCGATGAATTACACATTAA 57.557 29.630 0.00 0.00 0.00 1.40
3546 4272 5.517770 GGAAATGCATTTCTTTTCTCCGATG 59.482 40.000 37.77 0.00 44.21 3.84
3559 4286 3.404224 TGCACACATGGAAATGCATTT 57.596 38.095 24.33 24.33 42.92 2.32
3569 4296 2.462889 GTGAAACTGTTGCACACATGG 58.537 47.619 23.59 0.00 33.76 3.66
3670 4399 4.985538 AATCACGAAGTAGAGTAGGTGG 57.014 45.455 0.00 0.00 41.61 4.61
3691 4420 9.809395 AGTGATAGCAACAGAGGTACTATATAA 57.191 33.333 0.00 0.00 41.55 0.98
3738 4467 7.971183 AGTTCCACTTTTAGCAAAACAAAAA 57.029 28.000 0.00 0.00 0.00 1.94
3803 4532 2.754946 TACATCCAACTCCCACGAAC 57.245 50.000 0.00 0.00 0.00 3.95
3810 4539 8.254508 GGATTGAGATACTATACATCCAACTCC 58.745 40.741 0.00 0.00 0.00 3.85
3811 4540 8.807118 TGGATTGAGATACTATACATCCAACTC 58.193 37.037 0.00 0.00 33.31 3.01
3852 4610 4.320608 AATGCTTGAAAACACACGGAAT 57.679 36.364 0.00 0.00 0.00 3.01
3956 4714 8.175069 CAGTAATGCCAATAATTAACGCGATAT 58.825 33.333 15.93 0.13 0.00 1.63
3962 4720 9.433317 CTACAACAGTAATGCCAATAATTAACG 57.567 33.333 0.00 0.00 0.00 3.18
3971 4729 5.309323 GCATTCTACAACAGTAATGCCAA 57.691 39.130 6.69 0.00 45.31 4.52
3972 4730 4.963276 GCATTCTACAACAGTAATGCCA 57.037 40.909 6.69 0.00 45.31 4.92
3977 4736 3.329520 AGGGGTGCATTCTACAACAGTAA 59.670 43.478 0.00 0.00 0.00 2.24
3978 4737 2.910319 AGGGGTGCATTCTACAACAGTA 59.090 45.455 0.00 0.00 0.00 2.74
3983 4742 0.981183 ACGAGGGGTGCATTCTACAA 59.019 50.000 0.00 0.00 0.00 2.41
4004 6491 4.965814 ACCATCACTACCATGCTATTGAG 58.034 43.478 0.00 0.00 0.00 3.02
4027 6514 8.390354 CACAATTATAGATGAAAGAAAGCACGA 58.610 33.333 0.00 0.00 0.00 4.35
4028 6515 8.390354 TCACAATTATAGATGAAAGAAAGCACG 58.610 33.333 0.00 0.00 0.00 5.34
4061 6841 6.790232 AGAAAAACAAAATGTCCTCTCCAA 57.210 33.333 0.00 0.00 0.00 3.53
4062 6842 6.790232 AAGAAAAACAAAATGTCCTCTCCA 57.210 33.333 0.00 0.00 0.00 3.86
4085 6865 9.605955 CGATGAAACACTGTAATGTTATTCAAA 57.394 29.630 0.00 0.00 42.01 2.69
4086 6866 8.994170 TCGATGAAACACTGTAATGTTATTCAA 58.006 29.630 0.00 0.00 42.01 2.69
4087 6867 8.541133 TCGATGAAACACTGTAATGTTATTCA 57.459 30.769 0.00 0.00 42.01 2.57
4103 6883 7.382218 ATTCAAGTGAATTGGTTTCGATGAAAC 59.618 33.333 12.73 12.73 44.07 2.78
4104 6884 6.384258 TCAAGTGAATTGGTTTCGATGAAA 57.616 33.333 0.00 0.00 39.54 2.69
4106 6886 6.573664 ATTCAAGTGAATTGGTTTCGATGA 57.426 33.333 0.54 0.00 41.64 2.92
4142 6924 8.043710 TGGTGAACAAAAGTTTCAATATTGGTT 58.956 29.630 15.36 8.57 34.78 3.67
4160 6942 5.413309 ACTGAATTTGGTTTTGGTGAACA 57.587 34.783 0.00 0.00 0.00 3.18
4187 6969 8.206126 AGGATGGGATTTTTGTTTGAATACTT 57.794 30.769 0.00 0.00 0.00 2.24
4331 7113 9.949174 GAACTAAATTTGGCAATTTGTTGAAAT 57.051 25.926 14.87 0.00 41.77 2.17
4332 7114 8.950210 TGAACTAAATTTGGCAATTTGTTGAAA 58.050 25.926 14.87 2.63 41.77 2.69
4333 7115 8.498054 TGAACTAAATTTGGCAATTTGTTGAA 57.502 26.923 14.87 4.44 41.77 2.69
4334 7116 8.498054 TTGAACTAAATTTGGCAATTTGTTGA 57.502 26.923 14.87 6.93 41.77 3.18
4335 7117 9.733219 AATTGAACTAAATTTGGCAATTTGTTG 57.267 25.926 14.87 8.43 41.77 3.33
4336 7118 9.733219 CAATTGAACTAAATTTGGCAATTTGTT 57.267 25.926 13.60 11.37 41.77 2.83
4337 7119 8.901793 ACAATTGAACTAAATTTGGCAATTTGT 58.098 25.926 13.59 12.50 41.77 2.83
4342 7124 9.770097 TGAATACAATTGAACTAAATTTGGCAA 57.230 25.926 13.59 0.00 0.00 4.52
4343 7125 9.770097 TTGAATACAATTGAACTAAATTTGGCA 57.230 25.926 13.59 0.00 0.00 4.92
4398 7180 9.598517 TTTTTCATGAACTAAATTTGCTGAACT 57.401 25.926 7.89 0.00 0.00 3.01
4401 7183 9.985730 AGATTTTTCATGAACTAAATTTGCTGA 57.014 25.926 15.78 0.00 0.00 4.26
4469 7251 9.883142 TGAACTTTATTCAAAAATTGGTGAACT 57.117 25.926 6.28 1.17 36.62 3.01
4470 7252 9.914923 GTGAACTTTATTCAAAAATTGGTGAAC 57.085 29.630 6.28 0.00 36.62 3.18
4471 7253 9.883142 AGTGAACTTTATTCAAAAATTGGTGAA 57.117 25.926 6.54 6.54 38.09 3.18


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

AutoCloner maintained by Alex Coulton.