Multiple sequence alignment - TraesCS6B01G203300

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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 TraesCS6B01G203300 chr6B 100.000 3661 0 0 1 3661 248512812 248509152 0.000000e+00 6761
1 TraesCS6B01G203300 chr6B 94.284 1347 66 3 1302 2637 249449107 249447761 0.000000e+00 2050
2 TraesCS6B01G203300 chr6B 87.416 898 84 20 1880 2753 249385677 249384785 0.000000e+00 1005
3 TraesCS6B01G203300 chr6B 94.146 632 33 4 1 630 249450800 249450171 0.000000e+00 959
4 TraesCS6B01G203300 chr6B 89.452 730 50 2 1013 1742 249386425 249385723 0.000000e+00 896
5 TraesCS6B01G203300 chr6B 89.905 525 22 10 627 1124 249449689 249449169 0.000000e+00 647
6 TraesCS6B01G203300 chr6B 91.642 335 16 8 637 964 249386755 249386426 1.550000e-123 453
7 TraesCS6B01G203300 chr6B 83.871 341 37 7 3321 3661 248390377 248390055 3.550000e-80 309
8 TraesCS6B01G203300 chr6B 93.137 102 7 0 2823 2924 289915338 289915237 2.280000e-32 150
9 TraesCS6B01G203300 chr6B 89.286 112 12 0 3513 3624 248387135 248387024 1.370000e-29 141
10 TraesCS6B01G203300 chr6B 90.909 88 8 0 2666 2753 249444092 249444005 6.420000e-23 119
11 TraesCS6B01G203300 chr6D 95.604 1888 67 3 792 2667 142990295 142988412 0.000000e+00 3013
12 TraesCS6B01G203300 chr6D 88.739 666 43 14 2996 3661 142926288 142925655 0.000000e+00 785
13 TraesCS6B01G203300 chr6D 75.498 1506 280 62 1111 2589 143092300 143090857 0.000000e+00 654
14 TraesCS6B01G203300 chr6D 86.618 411 47 6 330 733 15375608 15376017 7.210000e-122 448
15 TraesCS6B01G203300 chr6D 81.362 279 44 5 1 274 143071277 143071002 1.710000e-53 220
16 TraesCS6B01G203300 chr6D 85.417 144 12 7 3518 3661 142858090 142857956 1.370000e-29 141
17 TraesCS6B01G203300 chr6A 95.596 1703 62 2 969 2660 188001259 187999559 0.000000e+00 2717
18 TraesCS6B01G203300 chr6A 89.713 661 47 9 3001 3661 187975322 187974683 0.000000e+00 824
19 TraesCS6B01G203300 chr6A 82.698 341 41 11 3321 3661 187912376 187912054 1.660000e-73 287
20 TraesCS6B01G203300 chr6A 82.796 279 40 5 1 274 188242734 188242459 3.650000e-60 243
21 TraesCS6B01G203300 chr6A 88.421 190 10 5 788 977 188001694 188001517 6.160000e-53 219
22 TraesCS6B01G203300 chr6A 91.139 79 7 0 3513 3591 187909307 187909229 1.390000e-19 108
23 TraesCS6B01G203300 chr4D 92.635 1317 59 8 788 2092 7654815 7656105 0.000000e+00 1860
24 TraesCS6B01G203300 chr4D 95.797 571 24 0 2090 2660 7704368 7704938 0.000000e+00 922
25 TraesCS6B01G203300 chr3B 73.506 1540 305 72 1127 2628 76115201 76116675 4.250000e-134 488
26 TraesCS6B01G203300 chr7B 86.232 414 49 6 324 731 594412645 594412234 3.360000e-120 442
27 TraesCS6B01G203300 chr7B 76.350 389 85 4 1129 1512 704827301 704826915 6.200000e-48 202
28 TraesCS6B01G203300 chr7A 85.749 407 54 3 333 735 116783506 116783100 9.390000e-116 427
29 TraesCS6B01G203300 chr7A 83.333 414 63 6 325 733 35007827 35007415 9.600000e-101 377
30 TraesCS6B01G203300 chr7A 83.092 414 65 4 325 733 534403140 534403553 4.460000e-99 372
31 TraesCS6B01G203300 chr3D 83.619 409 58 7 334 735 597748720 597749126 3.450000e-100 375
32 TraesCS6B01G203300 chr3D 75.120 832 161 39 1121 1929 48252167 48251359 7.520000e-92 348
33 TraesCS6B01G203300 chr3D 89.381 113 12 0 2823 2935 510313222 510313110 3.810000e-30 143
34 TraesCS6B01G203300 chr2A 83.373 415 59 9 326 733 414294715 414294304 3.450000e-100 375
35 TraesCS6B01G203300 chr2A 83.171 410 64 4 329 733 350776955 350776546 1.610000e-98 370
36 TraesCS6B01G203300 chr5B 94.118 102 6 0 2823 2924 225884365 225884264 4.890000e-34 156
37 TraesCS6B01G203300 chr5B 93.137 102 7 0 2823 2924 510555853 510555752 2.280000e-32 150
38 TraesCS6B01G203300 chr4B 94.118 102 6 0 2823 2924 345977367 345977266 4.890000e-34 156
39 TraesCS6B01G203300 chr3A 93.269 104 7 0 2823 2926 750382027 750382130 1.760000e-33 154
40 TraesCS6B01G203300 chr2B 94.059 101 6 0 2823 2923 688836058 688836158 1.760000e-33 154
41 TraesCS6B01G203300 chr2B 94.792 96 5 0 2823 2918 385003847 385003942 2.280000e-32 150
42 TraesCS6B01G203300 chr2B 93.137 102 7 0 2823 2924 578134197 578134096 2.280000e-32 150


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 TraesCS6B01G203300 chr6B 248509152 248512812 3660 True 6761.000000 6761 100.000000 1 3661 1 chr6B.!!$R1 3660
1 TraesCS6B01G203300 chr6B 249444005 249450800 6795 True 943.750000 2050 92.311000 1 2753 4 chr6B.!!$R5 2752
2 TraesCS6B01G203300 chr6B 249384785 249386755 1970 True 784.666667 1005 89.503333 637 2753 3 chr6B.!!$R4 2116
3 TraesCS6B01G203300 chr6B 248387024 248390377 3353 True 225.000000 309 86.578500 3321 3661 2 chr6B.!!$R3 340
4 TraesCS6B01G203300 chr6D 142988412 142990295 1883 True 3013.000000 3013 95.604000 792 2667 1 chr6D.!!$R3 1875
5 TraesCS6B01G203300 chr6D 142925655 142926288 633 True 785.000000 785 88.739000 2996 3661 1 chr6D.!!$R2 665
6 TraesCS6B01G203300 chr6D 143090857 143092300 1443 True 654.000000 654 75.498000 1111 2589 1 chr6D.!!$R5 1478
7 TraesCS6B01G203300 chr6A 187999559 188001694 2135 True 1468.000000 2717 92.008500 788 2660 2 chr6A.!!$R4 1872
8 TraesCS6B01G203300 chr6A 187974683 187975322 639 True 824.000000 824 89.713000 3001 3661 1 chr6A.!!$R1 660
9 TraesCS6B01G203300 chr4D 7654815 7656105 1290 False 1860.000000 1860 92.635000 788 2092 1 chr4D.!!$F1 1304
10 TraesCS6B01G203300 chr4D 7704368 7704938 570 False 922.000000 922 95.797000 2090 2660 1 chr4D.!!$F2 570
11 TraesCS6B01G203300 chr3B 76115201 76116675 1474 False 488.000000 488 73.506000 1127 2628 1 chr3B.!!$F1 1501
12 TraesCS6B01G203300 chr3D 48251359 48252167 808 True 348.000000 348 75.120000 1121 1929 1 chr3D.!!$R1 808

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
71 72 0.401105 ATGCAGAGGCCTGGGTCTAT 60.401 55.000 12.00 0.0 40.72 1.98 F
76 77 0.468400 GAGGCCTGGGTCTATCGTCT 60.468 60.000 12.00 0.0 0.00 4.18 F
583 586 0.704664 AATCTCCCAAACCTCACCCC 59.295 55.000 0.00 0.0 0.00 4.95 F
1003 1789 1.222661 AGCATTCGAGCTGCCATGA 59.777 52.632 15.88 0.0 44.66 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1602 2394 2.747855 CCCTTGAACGGCCTGCTC 60.748 66.667 0.00 0.0 0.00 4.26 R
1671 2463 4.704103 AGGTCCGGCAGGCTCAGA 62.704 66.667 0.00 0.0 37.47 3.27 R
2378 3227 0.980423 GCTCCTGGTCAAACCTCTCT 59.020 55.000 0.00 0.0 39.58 3.10 R
2795 7284 0.100861 GAAAAACGCCAACCGGACAA 59.899 50.000 9.46 0.0 42.52 3.18 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
38 39 3.784338 ACTTTGCAATAAATGATGGCCG 58.216 40.909 0.00 0.00 32.83 6.13
44 45 1.330234 ATAAATGATGGCCGCATGCA 58.670 45.000 19.57 0.00 43.89 3.96
71 72 0.401105 ATGCAGAGGCCTGGGTCTAT 60.401 55.000 12.00 0.00 40.72 1.98
76 77 0.468400 GAGGCCTGGGTCTATCGTCT 60.468 60.000 12.00 0.00 0.00 4.18
141 143 2.163509 GGGAGCTTCTTCTTTCAACCC 58.836 52.381 0.00 0.00 0.00 4.11
142 144 2.224892 GGGAGCTTCTTCTTTCAACCCT 60.225 50.000 0.00 0.00 32.93 4.34
160 162 6.958192 TCAACCCTTAGTCTACATCTTTAGGT 59.042 38.462 0.00 0.00 0.00 3.08
166 168 7.549488 CCTTAGTCTACATCTTTAGGTGTTTGG 59.451 40.741 0.29 0.00 0.00 3.28
182 184 6.039382 AGGTGTTTGGATAAGAAGTTGACAAC 59.961 38.462 10.47 10.47 0.00 3.32
193 195 2.572290 AGTTGACAACTACAAGCCCAC 58.428 47.619 19.28 0.00 40.69 4.61
207 209 5.976458 ACAAGCCCACCATACATTTATTTG 58.024 37.500 0.00 0.00 0.00 2.32
214 216 7.201956 GCCCACCATACATTTATTTGTATCCAA 60.202 37.037 0.00 0.00 40.07 3.53
248 250 2.811431 TGCGTTGGACCTCAAACTTATG 59.189 45.455 0.00 0.00 37.08 1.90
263 265 3.466836 ACTTATGTATGATGGGCACGTG 58.533 45.455 12.28 12.28 0.00 4.49
305 308 4.335315 ACTTTGAAAACATCGCTCACTCAA 59.665 37.500 0.00 0.00 0.00 3.02
313 316 2.638556 TCGCTCACTCAAAGTAGAGC 57.361 50.000 15.47 15.47 41.53 4.09
347 350 5.465935 ACAACGTGTTTGGCAATATTTAGG 58.534 37.500 0.00 0.00 39.84 2.69
448 451 3.023119 TGGCGCATGAAGGAATTATGTT 58.977 40.909 10.83 0.00 0.00 2.71
449 452 3.066621 TGGCGCATGAAGGAATTATGTTC 59.933 43.478 10.83 0.00 0.00 3.18
516 519 1.353358 TGACGAGGAACTAGACCAGGA 59.647 52.381 0.00 0.00 41.55 3.86
534 537 8.043710 AGACCAGGAAAGTGAAGATAAGTTATG 58.956 37.037 0.00 0.00 0.00 1.90
563 566 7.981102 AGGGTTAAGATTGACTCACTAAAAC 57.019 36.000 0.00 0.00 0.00 2.43
575 578 6.262273 TGACTCACTAAAACAATCTCCCAAAC 59.738 38.462 0.00 0.00 0.00 2.93
583 586 0.704664 AATCTCCCAAACCTCACCCC 59.295 55.000 0.00 0.00 0.00 4.95
597 600 3.120108 CTCACCCCCTTCCCTGTTAATA 58.880 50.000 0.00 0.00 0.00 0.98
601 604 5.088026 CACCCCCTTCCCTGTTAATAAAAA 58.912 41.667 0.00 0.00 0.00 1.94
602 605 5.186992 CACCCCCTTCCCTGTTAATAAAAAG 59.813 44.000 0.00 0.00 0.00 2.27
613 616 9.231297 CCCTGTTAATAAAAAGATGAGAGTTGA 57.769 33.333 0.00 0.00 0.00 3.18
638 1126 5.424895 AGTCTCAAGTCTCATGCTTATTCCT 59.575 40.000 0.00 0.00 0.00 3.36
681 1169 9.036671 CCGTAACCAAACAATAAATTTGAAGTT 57.963 29.630 0.00 0.00 39.01 2.66
688 1176 9.758470 CAAACAATAAATTTGAAGTTTCGTACG 57.242 29.630 9.53 9.53 39.01 3.67
704 1192 7.903431 AGTTTCGTACGCATTTAATTCTCATTC 59.097 33.333 11.24 0.00 0.00 2.67
708 1196 3.315191 ACGCATTTAATTCTCATTCCCCG 59.685 43.478 0.00 0.00 0.00 5.73
724 1212 1.693404 CCCCGACTCTAATTACCCCCA 60.693 57.143 0.00 0.00 0.00 4.96
781 1269 3.057315 CCATGGACGCACAAAAGATTCTT 60.057 43.478 5.56 0.00 0.00 2.52
889 1409 4.717233 ATGCATACCAGATTCGCAAAAA 57.283 36.364 0.00 0.00 35.98 1.94
890 1410 4.717233 TGCATACCAGATTCGCAAAAAT 57.283 36.364 0.00 0.00 0.00 1.82
891 1411 5.826601 TGCATACCAGATTCGCAAAAATA 57.173 34.783 0.00 0.00 0.00 1.40
892 1412 6.201226 TGCATACCAGATTCGCAAAAATAA 57.799 33.333 0.00 0.00 0.00 1.40
1003 1789 1.222661 AGCATTCGAGCTGCCATGA 59.777 52.632 15.88 0.00 44.66 3.07
1671 2463 2.364579 TTCCGTATGAGGCCCGGT 60.365 61.111 15.74 0.00 42.30 5.28
1701 2493 1.664306 GGACCTGTTTCCGTCGTCT 59.336 57.895 0.00 0.00 0.00 4.18
2080 2929 3.431725 GGCGCTGCAGTGGGTAAC 61.432 66.667 27.56 11.01 0.00 2.50
2187 3036 2.600769 ACGTCCTCGGCAACCTCT 60.601 61.111 0.00 0.00 41.85 3.69
2489 3338 2.666207 CCCGGGATGACGTTTGGA 59.334 61.111 18.48 0.00 0.00 3.53
2663 7131 5.655488 CTTGTTCCTGTACCAGAGTAGATG 58.345 45.833 0.00 0.00 32.44 2.90
2673 7162 8.129496 TGTACCAGAGTAGATGTCAATAACAA 57.871 34.615 0.00 0.00 42.37 2.83
2675 7164 9.035607 GTACCAGAGTAGATGTCAATAACAATG 57.964 37.037 0.00 0.00 42.37 2.82
2688 7177 9.513906 TGTCAATAACAATGATAAACAAGGAGA 57.486 29.630 0.00 0.00 34.03 3.71
2689 7178 9.994432 GTCAATAACAATGATAAACAAGGAGAG 57.006 33.333 0.00 0.00 0.00 3.20
2753 7242 6.209391 AGCAATGCTACATCCACTTAAAGTTT 59.791 34.615 5.69 0.00 36.99 2.66
2754 7243 6.868339 GCAATGCTACATCCACTTAAAGTTTT 59.132 34.615 0.00 0.00 0.00 2.43
2755 7244 7.384932 GCAATGCTACATCCACTTAAAGTTTTT 59.615 33.333 0.00 0.00 0.00 1.94
2792 7281 8.559536 TCATATACTTAAAGTTACGTCTACGGG 58.440 37.037 7.50 0.00 44.95 5.28
2793 7282 4.440839 ACTTAAAGTTACGTCTACGGGG 57.559 45.455 7.50 0.00 44.95 5.73
2794 7283 4.079253 ACTTAAAGTTACGTCTACGGGGA 58.921 43.478 7.50 0.00 44.95 4.81
2795 7284 4.706962 ACTTAAAGTTACGTCTACGGGGAT 59.293 41.667 7.50 0.00 44.95 3.85
2796 7285 5.185828 ACTTAAAGTTACGTCTACGGGGATT 59.814 40.000 7.50 0.00 44.95 3.01
2797 7286 3.515330 AAGTTACGTCTACGGGGATTG 57.485 47.619 7.50 0.00 44.95 2.67
2798 7287 2.450476 AGTTACGTCTACGGGGATTGT 58.550 47.619 7.50 0.00 44.95 2.71
2799 7288 2.424956 AGTTACGTCTACGGGGATTGTC 59.575 50.000 7.50 0.00 44.95 3.18
2800 7289 1.392589 TACGTCTACGGGGATTGTCC 58.607 55.000 7.50 0.00 44.95 4.02
2806 7295 2.437716 CGGGGATTGTCCGGTTGG 60.438 66.667 0.00 0.00 43.45 3.77
2807 7296 2.754254 GGGGATTGTCCGGTTGGC 60.754 66.667 0.00 0.00 37.43 4.52
2808 7297 3.131478 GGGATTGTCCGGTTGGCG 61.131 66.667 0.00 0.00 37.43 5.69
2809 7298 2.359478 GGATTGTCCGGTTGGCGT 60.359 61.111 0.00 0.00 34.14 5.68
2810 7299 1.969589 GGATTGTCCGGTTGGCGTT 60.970 57.895 0.00 0.00 34.14 4.84
2811 7300 1.520600 GGATTGTCCGGTTGGCGTTT 61.521 55.000 0.00 0.00 34.14 3.60
2812 7301 0.312729 GATTGTCCGGTTGGCGTTTT 59.687 50.000 0.00 0.00 34.14 2.43
2813 7302 0.747852 ATTGTCCGGTTGGCGTTTTT 59.252 45.000 0.00 0.00 34.14 1.94
2814 7303 0.100861 TTGTCCGGTTGGCGTTTTTC 59.899 50.000 0.00 0.00 34.14 2.29
2815 7304 1.008194 GTCCGGTTGGCGTTTTTCC 60.008 57.895 0.00 0.00 34.14 3.13
2816 7305 1.453379 TCCGGTTGGCGTTTTTCCA 60.453 52.632 0.00 0.00 34.14 3.53
2817 7306 0.824182 TCCGGTTGGCGTTTTTCCAT 60.824 50.000 0.00 0.00 32.92 3.41
2818 7307 0.665972 CCGGTTGGCGTTTTTCCATG 60.666 55.000 0.00 0.00 32.92 3.66
2819 7308 0.665972 CGGTTGGCGTTTTTCCATGG 60.666 55.000 4.97 4.97 32.92 3.66
2820 7309 0.320334 GGTTGGCGTTTTTCCATGGG 60.320 55.000 13.02 0.00 32.92 4.00
2821 7310 0.948623 GTTGGCGTTTTTCCATGGGC 60.949 55.000 13.02 5.83 32.92 5.36
2822 7311 1.402896 TTGGCGTTTTTCCATGGGCA 61.403 50.000 13.02 0.00 32.92 5.36
2823 7312 1.374125 GGCGTTTTTCCATGGGCAC 60.374 57.895 13.02 2.77 0.00 5.01
2836 7325 2.282391 GGCACCCATGTCAGCACA 60.282 61.111 0.00 0.00 36.78 4.57
2837 7326 2.629656 GGCACCCATGTCAGCACAC 61.630 63.158 0.00 0.00 34.48 3.82
2838 7327 1.898094 GCACCCATGTCAGCACACA 60.898 57.895 0.00 0.00 34.48 3.72
2839 7328 1.859427 GCACCCATGTCAGCACACAG 61.859 60.000 0.00 0.00 34.48 3.66
2840 7329 1.073722 ACCCATGTCAGCACACAGG 59.926 57.895 0.00 0.00 34.48 4.00
2841 7330 2.338015 CCCATGTCAGCACACAGGC 61.338 63.158 0.00 0.00 34.48 4.85
2842 7331 1.601477 CCATGTCAGCACACAGGCA 60.601 57.895 0.00 0.00 34.48 4.75
2843 7332 0.963856 CCATGTCAGCACACAGGCAT 60.964 55.000 0.00 0.00 34.48 4.40
2844 7333 0.450583 CATGTCAGCACACAGGCATC 59.549 55.000 0.00 0.00 34.48 3.91
2845 7334 0.327259 ATGTCAGCACACAGGCATCT 59.673 50.000 0.00 0.00 34.48 2.90
2846 7335 0.109153 TGTCAGCACACAGGCATCTT 59.891 50.000 0.00 0.00 35.83 2.40
2847 7336 1.347378 TGTCAGCACACAGGCATCTTA 59.653 47.619 0.00 0.00 35.83 2.10
2848 7337 2.026915 TGTCAGCACACAGGCATCTTAT 60.027 45.455 0.00 0.00 35.83 1.73
2849 7338 3.197549 TGTCAGCACACAGGCATCTTATA 59.802 43.478 0.00 0.00 35.83 0.98
2850 7339 3.806521 GTCAGCACACAGGCATCTTATAG 59.193 47.826 0.00 0.00 35.83 1.31
2851 7340 2.547211 CAGCACACAGGCATCTTATAGC 59.453 50.000 0.00 0.00 35.83 2.97
2852 7341 2.171237 AGCACACAGGCATCTTATAGCA 59.829 45.455 0.00 0.00 35.83 3.49
2853 7342 3.144506 GCACACAGGCATCTTATAGCAT 58.855 45.455 0.00 0.00 0.00 3.79
2854 7343 3.188048 GCACACAGGCATCTTATAGCATC 59.812 47.826 0.00 0.00 0.00 3.91
2855 7344 4.383173 CACACAGGCATCTTATAGCATCA 58.617 43.478 0.00 0.00 0.00 3.07
2856 7345 5.001874 CACACAGGCATCTTATAGCATCAT 58.998 41.667 0.00 0.00 0.00 2.45
2857 7346 6.168389 CACACAGGCATCTTATAGCATCATA 58.832 40.000 0.00 0.00 0.00 2.15
2858 7347 6.822170 CACACAGGCATCTTATAGCATCATAT 59.178 38.462 0.00 0.00 0.00 1.78
2859 7348 7.336176 CACACAGGCATCTTATAGCATCATATT 59.664 37.037 0.00 0.00 0.00 1.28
2860 7349 7.551974 ACACAGGCATCTTATAGCATCATATTC 59.448 37.037 0.00 0.00 0.00 1.75
2861 7350 7.551617 CACAGGCATCTTATAGCATCATATTCA 59.448 37.037 0.00 0.00 0.00 2.57
2862 7351 8.105197 ACAGGCATCTTATAGCATCATATTCAA 58.895 33.333 0.00 0.00 0.00 2.69
2863 7352 9.121658 CAGGCATCTTATAGCATCATATTCAAT 57.878 33.333 0.00 0.00 0.00 2.57
2864 7353 9.121658 AGGCATCTTATAGCATCATATTCAATG 57.878 33.333 0.00 0.00 0.00 2.82
2865 7354 8.350722 GGCATCTTATAGCATCATATTCAATGG 58.649 37.037 0.00 0.00 0.00 3.16
2866 7355 7.861372 GCATCTTATAGCATCATATTCAATGGC 59.139 37.037 0.00 0.00 0.00 4.40
2867 7356 9.121658 CATCTTATAGCATCATATTCAATGGCT 57.878 33.333 0.00 0.00 0.00 4.75
2875 7364 9.524496 AGCATCATATTCAATGGCTATAAAAGA 57.476 29.630 0.00 0.00 0.00 2.52
2884 7373 9.631257 TTCAATGGCTATAAAAGATGAATGAGA 57.369 29.630 0.00 0.00 0.00 3.27
2885 7374 9.060347 TCAATGGCTATAAAAGATGAATGAGAC 57.940 33.333 0.00 0.00 0.00 3.36
2886 7375 7.992754 ATGGCTATAAAAGATGAATGAGACC 57.007 36.000 0.00 0.00 0.00 3.85
2887 7376 6.299141 TGGCTATAAAAGATGAATGAGACCC 58.701 40.000 0.00 0.00 0.00 4.46
2888 7377 6.126507 TGGCTATAAAAGATGAATGAGACCCA 60.127 38.462 0.00 0.00 0.00 4.51
2889 7378 6.772716 GGCTATAAAAGATGAATGAGACCCAA 59.227 38.462 0.00 0.00 0.00 4.12
2890 7379 7.449704 GGCTATAAAAGATGAATGAGACCCAAT 59.550 37.037 0.00 0.00 0.00 3.16
2891 7380 8.854117 GCTATAAAAGATGAATGAGACCCAATT 58.146 33.333 0.00 0.00 0.00 2.32
2898 7387 9.956640 AAGATGAATGAGACCCAATTATATCTC 57.043 33.333 5.47 5.47 38.46 2.75
2905 7394 8.956446 TGAGACCCAATTATATCTCATGTAGA 57.044 34.615 9.51 0.00 41.99 2.59
2906 7395 9.552695 TGAGACCCAATTATATCTCATGTAGAT 57.447 33.333 9.51 10.99 46.95 1.98
2907 7396 9.814899 GAGACCCAATTATATCTCATGTAGATG 57.185 37.037 14.33 0.00 44.95 2.90
2908 7397 9.552695 AGACCCAATTATATCTCATGTAGATGA 57.447 33.333 14.33 2.15 44.95 2.92
2936 7425 9.912634 TTCTAGCAGAACTGGAAAATTAAAATG 57.087 29.630 3.99 0.00 42.34 2.32
2937 7426 9.295825 TCTAGCAGAACTGGAAAATTAAAATGA 57.704 29.630 3.99 0.00 32.07 2.57
2949 7438 9.394477 GGAAAATTAAAATGATATACCTCGTGC 57.606 33.333 0.00 0.00 0.00 5.34
2950 7439 9.103048 GAAAATTAAAATGATATACCTCGTGCG 57.897 33.333 0.00 0.00 0.00 5.34
2951 7440 7.724305 AATTAAAATGATATACCTCGTGCGT 57.276 32.000 0.00 0.00 0.00 5.24
2952 7441 7.724305 ATTAAAATGATATACCTCGTGCGTT 57.276 32.000 0.00 0.00 0.00 4.84
2953 7442 8.821147 ATTAAAATGATATACCTCGTGCGTTA 57.179 30.769 0.00 0.00 0.00 3.18
2954 7443 6.520792 AAAATGATATACCTCGTGCGTTAC 57.479 37.500 0.00 0.00 0.00 2.50
2955 7444 5.449107 AATGATATACCTCGTGCGTTACT 57.551 39.130 0.00 0.00 0.00 2.24
2956 7445 6.564709 AATGATATACCTCGTGCGTTACTA 57.435 37.500 0.00 0.00 0.00 1.82
2957 7446 5.348418 TGATATACCTCGTGCGTTACTAC 57.652 43.478 0.00 0.00 0.00 2.73
2967 7456 3.446507 CGTTACTACGGGCATTGGT 57.553 52.632 0.00 0.00 43.94 3.67
2968 7457 1.729284 CGTTACTACGGGCATTGGTT 58.271 50.000 0.00 0.00 43.94 3.67
2969 7458 1.395608 CGTTACTACGGGCATTGGTTG 59.604 52.381 0.00 0.00 43.94 3.77
2970 7459 4.373777 CGTTACTACGGGCATTGGTTGC 62.374 54.545 0.00 0.00 43.96 4.17
2987 7476 9.806203 CATTGGTTGCAATAATATTTTGAGAGA 57.194 29.630 0.59 0.00 0.00 3.10
3131 7620 8.863086 CCATATGAACATACCAAAGGAATGAAT 58.137 33.333 3.65 0.00 0.00 2.57
3150 7639 2.388310 TGTATGGTCGCATTTCCGAA 57.612 45.000 0.00 0.00 39.17 4.30
3161 7650 2.487762 GCATTTCCGAAAGATGGACACA 59.512 45.455 0.00 0.00 34.56 3.72
3169 7658 1.227999 AAGATGGACACAACCGCACG 61.228 55.000 0.00 0.00 0.00 5.34
3195 7684 1.828979 TATTTTGCCGGGGACTGTTC 58.171 50.000 2.18 0.00 0.00 3.18
3210 7699 4.210746 GGACTGTTCGGACAAACTAGAAAC 59.789 45.833 0.00 0.00 34.85 2.78
3212 7701 4.809426 ACTGTTCGGACAAACTAGAAACTG 59.191 41.667 0.00 0.00 34.85 3.16
3213 7702 5.013568 TGTTCGGACAAACTAGAAACTGA 57.986 39.130 0.00 0.00 31.49 3.41
3214 7703 5.047847 TGTTCGGACAAACTAGAAACTGAG 58.952 41.667 0.00 0.00 31.49 3.35
3215 7704 5.163488 TGTTCGGACAAACTAGAAACTGAGA 60.163 40.000 0.00 0.00 31.49 3.27
3216 7705 5.723672 TCGGACAAACTAGAAACTGAGAT 57.276 39.130 0.00 0.00 0.00 2.75
3217 7706 5.710984 TCGGACAAACTAGAAACTGAGATC 58.289 41.667 0.00 0.00 0.00 2.75
3218 7707 4.559251 CGGACAAACTAGAAACTGAGATCG 59.441 45.833 0.00 0.00 0.00 3.69
3231 7720 1.079503 GAGATCGTGTGGTTTCAGCC 58.920 55.000 0.00 0.00 0.00 4.85
3242 7731 1.600636 TTTCAGCCACCGCCTCTTG 60.601 57.895 0.00 0.00 34.57 3.02
3243 7732 3.551496 TTCAGCCACCGCCTCTTGG 62.551 63.158 0.00 0.00 34.57 3.61
3253 7742 2.815308 CCTCTTGGCGCTATCCGT 59.185 61.111 7.64 0.00 39.71 4.69
3254 7743 1.300233 CCTCTTGGCGCTATCCGTC 60.300 63.158 7.64 0.00 43.18 4.79
3255 7744 1.300233 CTCTTGGCGCTATCCGTCC 60.300 63.158 7.64 0.00 41.91 4.79
3256 7745 1.739338 CTCTTGGCGCTATCCGTCCT 61.739 60.000 7.64 0.00 41.91 3.85
3257 7746 1.300233 CTTGGCGCTATCCGTCCTC 60.300 63.158 7.64 0.00 41.91 3.71
3258 7747 2.701163 CTTGGCGCTATCCGTCCTCC 62.701 65.000 7.64 0.00 41.91 4.30
3259 7748 3.992317 GGCGCTATCCGTCCTCCC 61.992 72.222 7.64 0.00 39.71 4.30
3260 7749 3.224324 GCGCTATCCGTCCTCCCA 61.224 66.667 0.00 0.00 39.71 4.37
3261 7750 2.792947 GCGCTATCCGTCCTCCCAA 61.793 63.158 0.00 0.00 39.71 4.12
3262 7751 2.050269 CGCTATCCGTCCTCCCAAT 58.950 57.895 0.00 0.00 0.00 3.16
3263 7752 0.038159 CGCTATCCGTCCTCCCAATC 60.038 60.000 0.00 0.00 0.00 2.67
3264 7753 0.038159 GCTATCCGTCCTCCCAATCG 60.038 60.000 0.00 0.00 0.00 3.34
3265 7754 0.603569 CTATCCGTCCTCCCAATCGG 59.396 60.000 0.00 0.00 43.65 4.18
3266 7755 0.105862 TATCCGTCCTCCCAATCGGT 60.106 55.000 0.00 0.00 42.95 4.69
3310 7799 2.293856 ACTCCCCAGGATCCACATACTT 60.294 50.000 15.82 0.00 0.00 2.24
3319 7808 4.225942 AGGATCCACATACTTCAGAGCAAA 59.774 41.667 15.82 0.00 0.00 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.784338 CGGCCATCATTTATTGCAAAGT 58.216 40.909 1.71 0.00 0.00 2.66
44 45 2.307768 CAGGCCTCTGCATTGATTGAT 58.692 47.619 0.00 0.00 40.13 2.57
94 96 6.425735 TCAGATAGATGGGCAAAAGATCAAA 58.574 36.000 0.00 0.00 0.00 2.69
141 143 8.311836 TCCAAACACCTAAAGATGTAGACTAAG 58.688 37.037 0.00 0.00 0.00 2.18
142 144 8.197592 TCCAAACACCTAAAGATGTAGACTAA 57.802 34.615 0.00 0.00 0.00 2.24
160 162 7.771361 TGTAGTTGTCAACTTCTTATCCAAACA 59.229 33.333 22.81 13.61 42.81 2.83
166 168 6.128254 GGGCTTGTAGTTGTCAACTTCTTATC 60.128 42.308 22.81 9.60 42.81 1.75
182 184 6.959639 AATAAATGTATGGTGGGCTTGTAG 57.040 37.500 0.00 0.00 0.00 2.74
207 209 7.478520 ACGCAAAGTCATATAAGTTGGATAC 57.521 36.000 0.00 0.00 0.00 2.24
214 216 4.634443 GGTCCAACGCAAAGTCATATAAGT 59.366 41.667 0.00 0.00 0.00 2.24
248 250 0.588252 GATGCACGTGCCCATCATAC 59.412 55.000 35.72 14.63 41.18 2.39
292 295 2.857152 GCTCTACTTTGAGTGAGCGATG 59.143 50.000 12.96 0.00 38.54 3.84
293 296 2.493675 TGCTCTACTTTGAGTGAGCGAT 59.506 45.455 18.48 0.00 44.60 4.58
297 300 5.132897 ACTCTTGCTCTACTTTGAGTGAG 57.867 43.478 0.00 0.00 36.51 3.51
305 308 5.462398 CGTTGTTTGTACTCTTGCTCTACTT 59.538 40.000 0.00 0.00 0.00 2.24
347 350 6.371825 CCTACACTAAACTCACATTTCCCTTC 59.628 42.308 0.00 0.00 0.00 3.46
516 519 9.401058 CCCTTCATCATAACTTATCTTCACTTT 57.599 33.333 0.00 0.00 0.00 2.66
534 537 6.410540 AGTGAGTCAATCTTAACCCTTCATC 58.589 40.000 0.00 0.00 0.00 2.92
563 566 1.616994 GGGGTGAGGTTTGGGAGATTG 60.617 57.143 0.00 0.00 0.00 2.67
568 571 1.388217 AAGGGGGTGAGGTTTGGGA 60.388 57.895 0.00 0.00 0.00 4.37
575 578 0.549169 TAACAGGGAAGGGGGTGAGG 60.549 60.000 0.00 0.00 0.00 3.86
583 586 8.807948 TCTCATCTTTTTATTAACAGGGAAGG 57.192 34.615 0.00 0.00 0.00 3.46
597 600 7.772757 ACTTGAGACTTCAACTCTCATCTTTTT 59.227 33.333 0.00 0.00 42.93 1.94
601 604 5.774690 AGACTTGAGACTTCAACTCTCATCT 59.225 40.000 0.00 0.00 42.93 2.90
602 605 6.024552 AGACTTGAGACTTCAACTCTCATC 57.975 41.667 0.00 0.00 42.93 2.92
613 616 6.070309 AGGAATAAGCATGAGACTTGAGACTT 60.070 38.462 0.00 0.00 0.00 3.01
614 617 5.424895 AGGAATAAGCATGAGACTTGAGACT 59.575 40.000 0.00 0.00 0.00 3.24
638 1126 9.917887 TTGGTTACGGGATTAGGAATTTATAAA 57.082 29.630 0.00 0.00 0.00 1.40
660 1148 8.710835 ACGAAACTTCAAATTTATTGTTTGGT 57.289 26.923 16.24 16.24 37.22 3.67
681 1169 6.238266 GGGAATGAGAATTAAATGCGTACGAA 60.238 38.462 21.65 9.67 0.00 3.85
688 1176 4.580580 AGTCGGGGAATGAGAATTAAATGC 59.419 41.667 0.00 0.00 0.00 3.56
704 1192 1.054231 GGGGGTAATTAGAGTCGGGG 58.946 60.000 0.00 0.00 0.00 5.73
708 1196 2.124411 TGGCTGGGGGTAATTAGAGTC 58.876 52.381 0.00 0.00 0.00 3.36
724 1212 2.364324 TCTCTTCTGTACGTGTTTGGCT 59.636 45.455 0.00 0.00 0.00 4.75
781 1269 7.821652 TGTTTAAGCGGTTTATCAAATGATCA 58.178 30.769 4.64 0.00 36.05 2.92
905 1425 6.024049 GTGTCAATCTTTGTCCGATCATTTC 58.976 40.000 0.00 0.00 0.00 2.17
909 1429 4.271696 AGTGTCAATCTTTGTCCGATCA 57.728 40.909 0.00 0.00 0.00 2.92
988 1774 1.709147 GCGTTCATGGCAGCTCGAAT 61.709 55.000 0.00 0.00 0.00 3.34
989 1775 2.390599 GCGTTCATGGCAGCTCGAA 61.391 57.895 0.00 0.00 0.00 3.71
1327 2119 4.891727 GCGCGACATGGGTCCGAT 62.892 66.667 12.10 0.00 41.13 4.18
1602 2394 2.747855 CCCTTGAACGGCCTGCTC 60.748 66.667 0.00 0.00 0.00 4.26
1671 2463 4.704103 AGGTCCGGCAGGCTCAGA 62.704 66.667 0.00 0.00 37.47 3.27
2155 3004 3.362262 CGTCCTCCGTCACCTTGA 58.638 61.111 0.00 0.00 0.00 3.02
2187 3036 1.475280 GACGACCATGTGCAGGTAGTA 59.525 52.381 8.95 0.00 43.64 1.82
2378 3227 0.980423 GCTCCTGGTCAAACCTCTCT 59.020 55.000 0.00 0.00 39.58 3.10
2489 3338 3.997064 GAGCTCGATGTGCGCCAGT 62.997 63.158 4.18 0.00 40.61 4.00
2663 7131 9.994432 CTCTCCTTGTTTATCATTGTTATTGAC 57.006 33.333 0.00 0.00 0.00 3.18
2722 7211 3.003068 GTGGATGTAGCATTGCTCATGAC 59.997 47.826 15.81 8.38 40.44 3.06
2766 7255 8.559536 CCCGTAGACGTAACTTTAAGTATATGA 58.440 37.037 0.00 0.00 31.81 2.15
2767 7256 7.805071 CCCCGTAGACGTAACTTTAAGTATATG 59.195 40.741 0.00 2.24 37.74 1.78
2768 7257 7.719633 TCCCCGTAGACGTAACTTTAAGTATAT 59.280 37.037 0.00 0.00 37.74 0.86
2769 7258 7.051623 TCCCCGTAGACGTAACTTTAAGTATA 58.948 38.462 0.00 0.00 37.74 1.47
2770 7259 5.885912 TCCCCGTAGACGTAACTTTAAGTAT 59.114 40.000 0.00 0.00 37.74 2.12
2771 7260 5.250200 TCCCCGTAGACGTAACTTTAAGTA 58.750 41.667 0.00 0.00 37.74 2.24
2772 7261 4.079253 TCCCCGTAGACGTAACTTTAAGT 58.921 43.478 0.85 0.00 37.74 2.24
2773 7262 4.701956 TCCCCGTAGACGTAACTTTAAG 57.298 45.455 0.85 0.00 37.74 1.85
2774 7263 5.047377 ACAATCCCCGTAGACGTAACTTTAA 60.047 40.000 0.85 0.00 37.74 1.52
2775 7264 4.462483 ACAATCCCCGTAGACGTAACTTTA 59.538 41.667 0.85 0.00 37.74 1.85
2776 7265 3.259123 ACAATCCCCGTAGACGTAACTTT 59.741 43.478 0.85 0.00 37.74 2.66
2777 7266 2.827921 ACAATCCCCGTAGACGTAACTT 59.172 45.455 0.85 0.00 37.74 2.66
2778 7267 2.424956 GACAATCCCCGTAGACGTAACT 59.575 50.000 0.85 0.00 37.74 2.24
2779 7268 2.480244 GGACAATCCCCGTAGACGTAAC 60.480 54.545 0.85 0.00 37.74 2.50
2780 7269 1.750778 GGACAATCCCCGTAGACGTAA 59.249 52.381 0.85 0.00 37.74 3.18
2781 7270 1.392589 GGACAATCCCCGTAGACGTA 58.607 55.000 0.85 0.00 37.74 3.57
2782 7271 1.660560 CGGACAATCCCCGTAGACGT 61.661 60.000 0.85 0.00 41.91 4.34
2783 7272 1.065273 CGGACAATCCCCGTAGACG 59.935 63.158 0.00 0.00 41.91 4.18
2784 7273 1.325476 ACCGGACAATCCCCGTAGAC 61.325 60.000 9.46 0.00 45.14 2.59
2785 7274 0.615544 AACCGGACAATCCCCGTAGA 60.616 55.000 9.46 0.00 45.14 2.59
2786 7275 0.461339 CAACCGGACAATCCCCGTAG 60.461 60.000 9.46 0.00 45.14 3.51
2787 7276 1.597989 CAACCGGACAATCCCCGTA 59.402 57.895 9.46 0.00 45.14 4.02
2788 7277 2.349755 CAACCGGACAATCCCCGT 59.650 61.111 9.46 0.00 45.14 5.28
2789 7278 2.437716 CCAACCGGACAATCCCCG 60.438 66.667 9.46 0.00 46.10 5.73
2790 7279 2.754254 GCCAACCGGACAATCCCC 60.754 66.667 9.46 0.00 31.13 4.81
2791 7280 3.131478 CGCCAACCGGACAATCCC 61.131 66.667 9.46 0.00 31.13 3.85
2792 7281 1.520600 AAACGCCAACCGGACAATCC 61.521 55.000 9.46 0.00 42.52 3.01
2793 7282 0.312729 AAAACGCCAACCGGACAATC 59.687 50.000 9.46 0.00 42.52 2.67
2794 7283 0.747852 AAAAACGCCAACCGGACAAT 59.252 45.000 9.46 0.00 42.52 2.71
2795 7284 0.100861 GAAAAACGCCAACCGGACAA 59.899 50.000 9.46 0.00 42.52 3.18
2796 7285 1.726533 GGAAAAACGCCAACCGGACA 61.727 55.000 9.46 0.00 42.52 4.02
2797 7286 1.008194 GGAAAAACGCCAACCGGAC 60.008 57.895 9.46 0.00 42.52 4.79
2798 7287 0.824182 ATGGAAAAACGCCAACCGGA 60.824 50.000 9.46 0.00 42.52 5.14
2799 7288 0.665972 CATGGAAAAACGCCAACCGG 60.666 55.000 0.00 0.00 42.52 5.28
2800 7289 0.665972 CCATGGAAAAACGCCAACCG 60.666 55.000 5.56 0.00 39.21 4.44
2801 7290 0.320334 CCCATGGAAAAACGCCAACC 60.320 55.000 15.22 0.00 39.21 3.77
2802 7291 0.948623 GCCCATGGAAAAACGCCAAC 60.949 55.000 15.22 0.00 39.21 3.77
2803 7292 1.369321 GCCCATGGAAAAACGCCAA 59.631 52.632 15.22 0.00 39.21 4.52
2804 7293 1.834378 TGCCCATGGAAAAACGCCA 60.834 52.632 15.22 0.00 40.24 5.69
2805 7294 1.374125 GTGCCCATGGAAAAACGCC 60.374 57.895 15.22 0.00 0.00 5.68
2806 7295 1.374125 GGTGCCCATGGAAAAACGC 60.374 57.895 15.22 7.45 0.00 4.84
2807 7296 1.291906 GGGTGCCCATGGAAAAACG 59.708 57.895 15.22 0.00 35.81 3.60
2808 7297 2.446512 TGGGTGCCCATGGAAAAAC 58.553 52.632 15.22 5.43 41.89 2.43
2818 7307 3.064324 GTGCTGACATGGGTGCCC 61.064 66.667 0.00 0.00 0.00 5.36
2819 7308 2.282391 TGTGCTGACATGGGTGCC 60.282 61.111 0.00 0.00 0.00 5.01
2820 7309 1.859427 CTGTGTGCTGACATGGGTGC 61.859 60.000 0.00 0.00 33.63 5.01
2821 7310 1.239296 CCTGTGTGCTGACATGGGTG 61.239 60.000 0.00 0.00 33.63 4.61
2822 7311 1.073722 CCTGTGTGCTGACATGGGT 59.926 57.895 0.00 0.00 33.63 4.51
2823 7312 2.338015 GCCTGTGTGCTGACATGGG 61.338 63.158 0.00 0.00 33.63 4.00
2824 7313 0.963856 ATGCCTGTGTGCTGACATGG 60.964 55.000 0.00 0.00 33.63 3.66
2825 7314 0.450583 GATGCCTGTGTGCTGACATG 59.549 55.000 0.00 0.00 33.63 3.21
2826 7315 0.327259 AGATGCCTGTGTGCTGACAT 59.673 50.000 0.00 0.00 33.63 3.06
2827 7316 0.109153 AAGATGCCTGTGTGCTGACA 59.891 50.000 0.00 0.00 0.00 3.58
2828 7317 2.099141 TAAGATGCCTGTGTGCTGAC 57.901 50.000 0.00 0.00 0.00 3.51
2829 7318 3.742327 GCTATAAGATGCCTGTGTGCTGA 60.742 47.826 0.00 0.00 0.00 4.26
2830 7319 2.547211 GCTATAAGATGCCTGTGTGCTG 59.453 50.000 0.00 0.00 0.00 4.41
2831 7320 2.171237 TGCTATAAGATGCCTGTGTGCT 59.829 45.455 0.00 0.00 0.00 4.40
2832 7321 2.564771 TGCTATAAGATGCCTGTGTGC 58.435 47.619 0.00 0.00 0.00 4.57
2833 7322 4.383173 TGATGCTATAAGATGCCTGTGTG 58.617 43.478 0.00 0.00 0.00 3.82
2834 7323 4.694760 TGATGCTATAAGATGCCTGTGT 57.305 40.909 0.00 0.00 0.00 3.72
2835 7324 7.551617 TGAATATGATGCTATAAGATGCCTGTG 59.448 37.037 0.00 0.00 0.00 3.66
2836 7325 7.627311 TGAATATGATGCTATAAGATGCCTGT 58.373 34.615 0.00 0.00 0.00 4.00
2837 7326 8.502105 TTGAATATGATGCTATAAGATGCCTG 57.498 34.615 0.00 0.00 0.00 4.85
2838 7327 9.121658 CATTGAATATGATGCTATAAGATGCCT 57.878 33.333 0.00 0.00 0.00 4.75
2839 7328 8.350722 CCATTGAATATGATGCTATAAGATGCC 58.649 37.037 0.00 0.00 0.00 4.40
2840 7329 7.861372 GCCATTGAATATGATGCTATAAGATGC 59.139 37.037 0.00 0.00 0.00 3.91
2841 7330 9.121658 AGCCATTGAATATGATGCTATAAGATG 57.878 33.333 0.00 0.00 0.00 2.90
2849 7338 9.524496 TCTTTTATAGCCATTGAATATGATGCT 57.476 29.630 0.00 0.00 0.00 3.79
2858 7347 9.631257 TCTCATTCATCTTTTATAGCCATTGAA 57.369 29.630 0.00 0.00 0.00 2.69
2859 7348 9.060347 GTCTCATTCATCTTTTATAGCCATTGA 57.940 33.333 0.00 0.00 0.00 2.57
2860 7349 8.295288 GGTCTCATTCATCTTTTATAGCCATTG 58.705 37.037 0.00 0.00 0.00 2.82
2861 7350 7.449704 GGGTCTCATTCATCTTTTATAGCCATT 59.550 37.037 0.00 0.00 0.00 3.16
2862 7351 6.944862 GGGTCTCATTCATCTTTTATAGCCAT 59.055 38.462 0.00 0.00 0.00 4.40
2863 7352 6.126507 TGGGTCTCATTCATCTTTTATAGCCA 60.127 38.462 0.00 0.00 0.00 4.75
2864 7353 6.299141 TGGGTCTCATTCATCTTTTATAGCC 58.701 40.000 0.00 0.00 0.00 3.93
2865 7354 7.807977 TTGGGTCTCATTCATCTTTTATAGC 57.192 36.000 0.00 0.00 0.00 2.97
2872 7361 9.956640 GAGATATAATTGGGTCTCATTCATCTT 57.043 33.333 9.55 0.00 37.60 2.40
2873 7362 9.109246 TGAGATATAATTGGGTCTCATTCATCT 57.891 33.333 11.92 0.00 41.40 2.90
2881 7370 9.814899 CATCTACATGAGATATAATTGGGTCTC 57.185 37.037 0.00 8.16 43.52 3.36
2882 7371 9.552695 TCATCTACATGAGATATAATTGGGTCT 57.447 33.333 0.00 0.00 43.52 3.85
2910 7399 9.912634 CATTTTAATTTTCCAGTTCTGCTAGAA 57.087 29.630 0.00 0.00 0.00 2.10
2911 7400 9.295825 TCATTTTAATTTTCCAGTTCTGCTAGA 57.704 29.630 0.00 0.00 0.00 2.43
2923 7412 9.394477 GCACGAGGTATATCATTTTAATTTTCC 57.606 33.333 0.00 0.00 0.00 3.13
2924 7413 9.103048 CGCACGAGGTATATCATTTTAATTTTC 57.897 33.333 0.00 0.00 0.00 2.29
2925 7414 8.617809 ACGCACGAGGTATATCATTTTAATTTT 58.382 29.630 0.00 0.00 0.00 1.82
2926 7415 8.149973 ACGCACGAGGTATATCATTTTAATTT 57.850 30.769 0.00 0.00 0.00 1.82
2927 7416 7.724305 ACGCACGAGGTATATCATTTTAATT 57.276 32.000 0.00 0.00 0.00 1.40
2928 7417 7.724305 AACGCACGAGGTATATCATTTTAAT 57.276 32.000 0.00 0.00 0.00 1.40
2929 7418 7.922278 AGTAACGCACGAGGTATATCATTTTAA 59.078 33.333 0.00 0.00 0.00 1.52
2930 7419 7.428020 AGTAACGCACGAGGTATATCATTTTA 58.572 34.615 0.00 0.00 0.00 1.52
2931 7420 6.278363 AGTAACGCACGAGGTATATCATTTT 58.722 36.000 0.00 0.00 0.00 1.82
2932 7421 5.839621 AGTAACGCACGAGGTATATCATTT 58.160 37.500 0.00 0.00 0.00 2.32
2933 7422 5.449107 AGTAACGCACGAGGTATATCATT 57.551 39.130 0.00 0.00 0.00 2.57
2934 7423 5.390251 CGTAGTAACGCACGAGGTATATCAT 60.390 44.000 0.00 0.00 43.12 2.45
2935 7424 4.084380 CGTAGTAACGCACGAGGTATATCA 60.084 45.833 0.00 0.00 43.12 2.15
2936 7425 4.389645 CGTAGTAACGCACGAGGTATATC 58.610 47.826 0.00 0.00 43.12 1.63
2937 7426 4.395581 CGTAGTAACGCACGAGGTATAT 57.604 45.455 0.00 0.00 43.12 0.86
2938 7427 3.859745 CGTAGTAACGCACGAGGTATA 57.140 47.619 0.00 0.00 43.12 1.47
2939 7428 2.744787 CGTAGTAACGCACGAGGTAT 57.255 50.000 0.00 0.00 43.12 2.73
2961 7450 9.806203 TCTCTCAAAATATTATTGCAACCAATG 57.194 29.630 15.18 3.63 41.58 2.82
2993 7482 9.650539 TTCACACAATCAAATCTCTTTCAAAAA 57.349 25.926 0.00 0.00 0.00 1.94
2994 7483 9.304731 CTTCACACAATCAAATCTCTTTCAAAA 57.695 29.630 0.00 0.00 0.00 2.44
2995 7484 7.436080 GCTTCACACAATCAAATCTCTTTCAAA 59.564 33.333 0.00 0.00 0.00 2.69
2996 7485 6.919662 GCTTCACACAATCAAATCTCTTTCAA 59.080 34.615 0.00 0.00 0.00 2.69
2997 7486 6.039605 TGCTTCACACAATCAAATCTCTTTCA 59.960 34.615 0.00 0.00 0.00 2.69
2998 7487 6.441274 TGCTTCACACAATCAAATCTCTTTC 58.559 36.000 0.00 0.00 0.00 2.62
2999 7488 6.395426 TGCTTCACACAATCAAATCTCTTT 57.605 33.333 0.00 0.00 0.00 2.52
3111 7600 8.137437 CCATACATTCATTCCTTTGGTATGTTC 58.863 37.037 0.00 0.00 36.51 3.18
3115 7604 6.486657 CGACCATACATTCATTCCTTTGGTAT 59.513 38.462 0.00 0.00 36.41 2.73
3118 7607 4.498009 GCGACCATACATTCATTCCTTTGG 60.498 45.833 0.00 0.00 0.00 3.28
3131 7620 2.388310 TTCGGAAATGCGACCATACA 57.612 45.000 0.00 0.00 0.00 2.29
3150 7639 1.227999 CGTGCGGTTGTGTCCATCTT 61.228 55.000 0.00 0.00 0.00 2.40
3161 7650 3.308866 GCAAAATATCTACTCGTGCGGTT 59.691 43.478 0.00 0.00 0.00 4.44
3169 7658 3.071167 AGTCCCCGGCAAAATATCTACTC 59.929 47.826 0.00 0.00 0.00 2.59
3195 7684 4.559251 CGATCTCAGTTTCTAGTTTGTCCG 59.441 45.833 0.00 0.00 0.00 4.79
3210 7699 1.728971 GCTGAAACCACACGATCTCAG 59.271 52.381 0.00 1.12 34.69 3.35
3212 7701 1.079503 GGCTGAAACCACACGATCTC 58.920 55.000 0.00 0.00 0.00 2.75
3213 7702 0.396435 TGGCTGAAACCACACGATCT 59.604 50.000 0.00 0.00 33.75 2.75
3214 7703 2.927004 TGGCTGAAACCACACGATC 58.073 52.632 0.00 0.00 33.75 3.69
3237 7726 1.300233 GGACGGATAGCGCCAAGAG 60.300 63.158 2.29 0.00 0.00 2.85
3242 7731 3.992317 GGGAGGACGGATAGCGCC 61.992 72.222 2.29 0.00 0.00 6.53
3243 7732 2.100879 ATTGGGAGGACGGATAGCGC 62.101 60.000 0.00 0.00 0.00 5.92
3245 7734 0.038159 CGATTGGGAGGACGGATAGC 60.038 60.000 0.00 0.00 0.00 2.97
3251 7740 2.104331 CGACCGATTGGGAGGACG 59.896 66.667 3.39 0.00 40.75 4.79
3253 7742 2.412323 CGTCGACCGATTGGGAGGA 61.412 63.158 10.58 0.00 40.75 3.71
3254 7743 2.104331 CGTCGACCGATTGGGAGG 59.896 66.667 10.58 0.00 40.75 4.30
3255 7744 1.516386 CACGTCGACCGATTGGGAG 60.516 63.158 10.58 0.00 40.75 4.30
3256 7745 1.929806 CTCACGTCGACCGATTGGGA 61.930 60.000 10.58 0.70 40.75 4.37
3257 7746 1.516386 CTCACGTCGACCGATTGGG 60.516 63.158 10.58 0.00 40.75 4.12
3258 7747 0.109458 TTCTCACGTCGACCGATTGG 60.109 55.000 10.58 0.00 40.70 3.16
3259 7748 1.260206 CTTCTCACGTCGACCGATTG 58.740 55.000 10.58 2.42 40.70 2.67
3260 7749 0.456312 GCTTCTCACGTCGACCGATT 60.456 55.000 10.58 0.00 40.70 3.34
3261 7750 1.136984 GCTTCTCACGTCGACCGAT 59.863 57.895 10.58 0.00 40.70 4.18
3262 7751 2.183858 CTGCTTCTCACGTCGACCGA 62.184 60.000 10.58 6.06 40.70 4.69
3263 7752 1.797933 CTGCTTCTCACGTCGACCG 60.798 63.158 10.58 7.90 44.03 4.79
3264 7753 0.455295 CTCTGCTTCTCACGTCGACC 60.455 60.000 10.58 0.00 0.00 4.79
3265 7754 1.068287 GCTCTGCTTCTCACGTCGAC 61.068 60.000 5.18 5.18 0.00 4.20
3266 7755 1.210413 GCTCTGCTTCTCACGTCGA 59.790 57.895 0.00 0.00 0.00 4.20
3319 7808 2.358615 TTGATGTGCCGAGCGCTT 60.359 55.556 13.26 0.00 40.03 4.68
3373 7862 1.433121 GGAGGAGGATCAGCAGGAAT 58.567 55.000 0.00 0.00 36.25 3.01
3500 7989 4.382541 TGCGGCAGAGGAGGAGGA 62.383 66.667 0.00 0.00 0.00 3.71
3501 7990 3.847602 CTGCGGCAGAGGAGGAGG 61.848 72.222 25.33 0.00 32.44 4.30


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

AutoCloner maintained by Alex Coulton.