Multiple sequence alignment - TraesCS6B01G326100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6B01G326100 chr6B 100.000 3883 0 0 1 3883 575380809 575376927 0.000000e+00 7171
1 TraesCS6B01G326100 chr6B 80.398 352 50 8 2420 2771 575926527 575926859 2.320000e-62 250
2 TraesCS6B01G326100 chr6D 87.072 2336 143 54 677 2957 385468902 385466671 0.000000e+00 2494
3 TraesCS6B01G326100 chr6D 75.223 783 158 15 3016 3787 265305570 265306327 4.810000e-89 339
4 TraesCS6B01G326100 chr6D 77.215 632 84 34 914 1512 385635201 385635805 8.100000e-82 315
5 TraesCS6B01G326100 chr6D 90.604 149 13 1 528 675 385469789 385469641 3.060000e-46 196
6 TraesCS6B01G326100 chr6D 77.528 356 56 10 2420 2771 385636271 385636606 3.960000e-45 193
7 TraesCS6B01G326100 chr6D 87.736 106 11 2 2216 2320 385636170 385636274 5.270000e-24 122
8 TraesCS6B01G326100 chr6A 88.727 1100 64 27 678 1761 529609638 529608583 0.000000e+00 1290
9 TraesCS6B01G326100 chr6A 90.949 917 70 7 1960 2874 529606406 529605501 0.000000e+00 1221
10 TraesCS6B01G326100 chr6A 93.678 522 32 1 4 525 51392116 51391596 0.000000e+00 780
11 TraesCS6B01G326100 chr6A 77.165 508 99 14 3155 3653 552752627 552753126 2.950000e-71 279
12 TraesCS6B01G326100 chr6A 79.733 375 46 15 2420 2793 530089898 530090243 1.080000e-60 244
13 TraesCS6B01G326100 chr6A 85.606 132 15 4 2190 2320 530089773 530089901 6.770000e-28 135
14 TraesCS6B01G326100 chr1B 93.487 522 30 2 4 525 626668941 626668424 0.000000e+00 773
15 TraesCS6B01G326100 chr1B 93.156 526 32 3 1 525 667883274 667883796 0.000000e+00 769
16 TraesCS6B01G326100 chr2A 93.156 526 32 4 4 525 519353071 519352546 0.000000e+00 769
17 TraesCS6B01G326100 chr1A 93.143 525 34 2 1 525 147698133 147698655 0.000000e+00 769
18 TraesCS6B01G326100 chr1A 93.103 522 34 2 4 525 8219429 8218910 0.000000e+00 763
19 TraesCS6B01G326100 chr5B 93.117 523 35 1 4 525 610011883 610011361 0.000000e+00 765
20 TraesCS6B01G326100 chr7A 92.925 523 33 3 1 523 633422129 633422647 0.000000e+00 758
21 TraesCS6B01G326100 chr7A 78.247 639 123 12 3092 3718 509648625 509647991 2.810000e-106 396
22 TraesCS6B01G326100 chr7A 73.516 438 86 20 3361 3780 126778994 126778569 5.230000e-29 139
23 TraesCS6B01G326100 chr2D 92.912 522 30 2 4 525 586848832 586848318 0.000000e+00 752
24 TraesCS6B01G326100 chr2D 78.815 793 136 15 3084 3868 403182115 403181347 4.480000e-139 505
25 TraesCS6B01G326100 chr2D 78.298 470 93 7 3084 3547 509846006 509845540 1.060000e-75 294
26 TraesCS6B01G326100 chr2D 77.727 440 86 6 3012 3444 625225237 625224803 3.850000e-65 259
27 TraesCS6B01G326100 chr2B 78.378 703 133 12 3012 3702 105762728 105762033 4.610000e-119 438
28 TraesCS6B01G326100 chr2B 78.571 448 82 12 3088 3527 789515992 789515551 2.280000e-72 283
29 TraesCS6B01G326100 chr2B 78.313 415 73 14 3035 3439 646065196 646064789 6.440000e-63 252
30 TraesCS6B01G326100 chr1D 76.876 493 98 6 3390 3878 364110423 364110903 8.270000e-67 265
31 TraesCS6B01G326100 chr4B 78.171 339 67 6 3401 3736 645447053 645447387 3.930000e-50 209
32 TraesCS6B01G326100 chrUn 74.847 489 99 18 3213 3689 131206389 131205913 2.370000e-47 200
33 TraesCS6B01G326100 chr5A 76.444 225 50 2 3084 3308 537021447 537021226 6.820000e-23 119
34 TraesCS6B01G326100 chr3D 90.123 81 7 1 2876 2956 608213074 608213153 1.910000e-18 104


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 TraesCS6B01G326100 chr6B 575376927 575380809 3882 True 7171.0 7171 100.000000 1 3883 1 chr6B.!!$R1 3882
1 TraesCS6B01G326100 chr6D 385466671 385469789 3118 True 1345.0 2494 88.838000 528 2957 2 chr6D.!!$R1 2429
2 TraesCS6B01G326100 chr6D 265305570 265306327 757 False 339.0 339 75.223000 3016 3787 1 chr6D.!!$F1 771
3 TraesCS6B01G326100 chr6D 385635201 385636606 1405 False 210.0 315 80.826333 914 2771 3 chr6D.!!$F2 1857
4 TraesCS6B01G326100 chr6A 529605501 529609638 4137 True 1255.5 1290 89.838000 678 2874 2 chr6A.!!$R2 2196
5 TraesCS6B01G326100 chr6A 51391596 51392116 520 True 780.0 780 93.678000 4 525 1 chr6A.!!$R1 521
6 TraesCS6B01G326100 chr1B 626668424 626668941 517 True 773.0 773 93.487000 4 525 1 chr1B.!!$R1 521
7 TraesCS6B01G326100 chr1B 667883274 667883796 522 False 769.0 769 93.156000 1 525 1 chr1B.!!$F1 524
8 TraesCS6B01G326100 chr2A 519352546 519353071 525 True 769.0 769 93.156000 4 525 1 chr2A.!!$R1 521
9 TraesCS6B01G326100 chr1A 147698133 147698655 522 False 769.0 769 93.143000 1 525 1 chr1A.!!$F1 524
10 TraesCS6B01G326100 chr1A 8218910 8219429 519 True 763.0 763 93.103000 4 525 1 chr1A.!!$R1 521
11 TraesCS6B01G326100 chr5B 610011361 610011883 522 True 765.0 765 93.117000 4 525 1 chr5B.!!$R1 521
12 TraesCS6B01G326100 chr7A 633422129 633422647 518 False 758.0 758 92.925000 1 523 1 chr7A.!!$F1 522
13 TraesCS6B01G326100 chr7A 509647991 509648625 634 True 396.0 396 78.247000 3092 3718 1 chr7A.!!$R2 626
14 TraesCS6B01G326100 chr2D 586848318 586848832 514 True 752.0 752 92.912000 4 525 1 chr2D.!!$R3 521
15 TraesCS6B01G326100 chr2D 403181347 403182115 768 True 505.0 505 78.815000 3084 3868 1 chr2D.!!$R1 784
16 TraesCS6B01G326100 chr2B 105762033 105762728 695 True 438.0 438 78.378000 3012 3702 1 chr2B.!!$R1 690

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
945 1712 0.179062 AAGCATCGATCAGGAGCCAC 60.179 55.0 0.0 0.0 0.0 5.01 F
1966 4754 0.032403 CCGTGTCGTCAACCCTTACA 59.968 55.0 0.0 0.0 0.0 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2270 5058 0.392998 CACTTCCGTGGATCCCTTGG 60.393 60.0 9.90 8.5 37.50 3.61 R
3662 6505 0.248907 TTGTGCGCTAGCCGTAGATC 60.249 55.0 9.73 0.0 44.33 2.75 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
39 40 0.389948 GAGTACCGAGTTGTGGCCAG 60.390 60.000 5.11 0.00 0.00 4.85
56 57 1.524621 AGCGTTGTTGCTGAGTGCT 60.525 52.632 0.00 0.00 45.28 4.40
164 165 2.675075 CCGCCAACCCCGTTCATT 60.675 61.111 0.00 0.00 0.00 2.57
173 174 3.637714 CCGTTCATTATCGCCGGG 58.362 61.111 2.18 0.00 35.11 5.73
280 281 0.460284 AGTTCGCCGATGTGATGACC 60.460 55.000 0.00 0.00 0.00 4.02
423 437 1.002011 GCCCACCTCCTGTTTCCTC 60.002 63.158 0.00 0.00 0.00 3.71
425 440 1.068121 CCCACCTCCTGTTTCCTCTT 58.932 55.000 0.00 0.00 0.00 2.85
436 451 7.093289 CCTCCTGTTTCCTCTTTATAGTTGAGA 60.093 40.741 0.00 0.00 0.00 3.27
502 518 1.257675 TCAATACATCGCGATTGCACG 59.742 47.619 21.14 10.51 42.97 5.34
525 541 3.370953 GCCCACATCTTGTCCTTCTACAT 60.371 47.826 0.00 0.00 0.00 2.29
526 542 4.848357 CCCACATCTTGTCCTTCTACATT 58.152 43.478 0.00 0.00 0.00 2.71
549 565 3.680490 TCGATGTGTAATTTGGCTTCCA 58.320 40.909 0.00 0.00 0.00 3.53
552 568 4.498009 CGATGTGTAATTTGGCTTCCATCC 60.498 45.833 0.00 0.00 31.53 3.51
554 570 2.099098 GTGTAATTTGGCTTCCATCCGG 59.901 50.000 0.00 0.00 31.53 5.14
558 574 1.473258 TTTGGCTTCCATCCGGATTG 58.527 50.000 16.19 12.38 42.41 2.67
594 610 6.424207 CAGACACATATCTCATGAACATCCAG 59.576 42.308 0.00 0.00 0.00 3.86
599 616 8.127327 CACATATCTCATGAACATCCAGAAAAC 58.873 37.037 0.00 0.00 0.00 2.43
634 651 5.975693 AAGGCATTCCAATCGAAGTTTTA 57.024 34.783 0.00 0.00 32.78 1.52
675 692 0.320683 TGTGATGGAAGTGAGCACCG 60.321 55.000 0.00 0.00 0.00 4.94
695 1449 1.671054 CGTGGATTGGTTGGAGCGT 60.671 57.895 0.00 0.00 0.00 5.07
710 1470 1.858091 AGCGTATCTGGCTCATTTCG 58.142 50.000 0.00 0.00 35.37 3.46
718 1478 2.486966 GCTCATTTCGCACCTGCC 59.513 61.111 0.00 0.00 37.91 4.85
828 1595 1.485124 TGCGAGATCTTCCTAGCCAA 58.515 50.000 0.00 0.00 34.50 4.52
862 1629 1.745115 CCACCACACGCATACCCAG 60.745 63.158 0.00 0.00 0.00 4.45
932 1699 2.159599 CGCAGGTGAGAAGAAAAGCATC 60.160 50.000 0.00 0.00 0.00 3.91
945 1712 0.179062 AAGCATCGATCAGGAGCCAC 60.179 55.000 0.00 0.00 0.00 5.01
966 1733 4.760840 GCGCGCACGAGAGAGTCA 62.761 66.667 29.10 0.00 43.93 3.41
967 1734 2.126850 CGCGCACGAGAGAGTCAA 60.127 61.111 8.75 0.00 43.93 3.18
1311 2093 2.228822 GCAAGGTGACGAAATGACCATT 59.771 45.455 0.00 0.00 31.61 3.16
1326 2111 0.309922 CCATTGATCACGCATGCTCC 59.690 55.000 17.13 0.60 0.00 4.70
1341 2126 2.926242 TCCCCGCTTCCCTCGTTT 60.926 61.111 0.00 0.00 0.00 3.60
1342 2127 2.033602 CCCCGCTTCCCTCGTTTT 59.966 61.111 0.00 0.00 0.00 2.43
1345 2130 1.574702 CCCGCTTCCCTCGTTTTGAC 61.575 60.000 0.00 0.00 0.00 3.18
1346 2131 1.491563 CGCTTCCCTCGTTTTGACG 59.508 57.895 0.00 0.00 0.00 4.35
1347 2132 0.942410 CGCTTCCCTCGTTTTGACGA 60.942 55.000 1.50 1.50 40.06 4.20
1348 2133 1.223187 GCTTCCCTCGTTTTGACGAA 58.777 50.000 3.15 0.00 41.87 3.85
1349 2134 1.600485 GCTTCCCTCGTTTTGACGAAA 59.400 47.619 3.15 0.00 41.87 3.46
1357 2142 4.904154 CCTCGTTTTGACGAAATGACTTTC 59.096 41.667 6.04 0.00 41.87 2.62
1376 2161 0.982673 CGTCTCTTTTCGCGTCGATT 59.017 50.000 5.77 0.00 35.23 3.34
1543 2339 1.751162 CTCGCTCTCCCCGTCTCTT 60.751 63.158 0.00 0.00 0.00 2.85
1565 2361 2.882927 TCTTGCACGTGTTGACTAGT 57.117 45.000 18.38 0.00 0.00 2.57
1606 2402 2.357034 GAGGCGCTCGGTTTCACA 60.357 61.111 7.64 0.00 0.00 3.58
1607 2403 2.665185 AGGCGCTCGGTTTCACAC 60.665 61.111 7.64 0.00 0.00 3.82
1609 2405 2.325082 GGCGCTCGGTTTCACACAT 61.325 57.895 7.64 0.00 0.00 3.21
1689 2487 0.446222 CAATCGCGACCGGTCAAATT 59.554 50.000 32.80 23.56 34.56 1.82
1704 2502 4.161333 GTCAAATTGATCGAGCAAACCAG 58.839 43.478 21.22 10.70 0.00 4.00
1751 3010 0.978146 ACTCGCCTTCTACATGGGCT 60.978 55.000 8.10 0.00 43.29 5.19
1757 3016 0.465097 CTTCTACATGGGCTGGCCTG 60.465 60.000 21.72 17.74 36.10 4.85
1769 3028 1.100510 CTGGCCTGGTTGATCATGTG 58.899 55.000 3.32 0.00 0.00 3.21
1902 3183 0.966370 GCTCTCCCTACCGTGTCACT 60.966 60.000 0.65 0.00 0.00 3.41
1905 3186 2.126071 CCCTACCGTGTCACTGCG 60.126 66.667 0.65 0.00 0.00 5.18
1906 3187 2.632544 CCCTACCGTGTCACTGCGA 61.633 63.158 0.65 0.00 0.00 5.10
1908 3189 1.443872 CTACCGTGTCACTGCGACC 60.444 63.158 0.65 0.00 44.71 4.79
1909 3190 2.814183 CTACCGTGTCACTGCGACCC 62.814 65.000 0.65 0.00 44.71 4.46
1966 4754 0.032403 CCGTGTCGTCAACCCTTACA 59.968 55.000 0.00 0.00 0.00 2.41
1992 4780 1.457643 CCTCCCCTCCGCACTATCA 60.458 63.158 0.00 0.00 0.00 2.15
2009 4797 7.063426 CGCACTATCAAAGAGTTTATTCACTCA 59.937 37.037 3.78 0.00 45.08 3.41
2018 4806 3.010584 AGTTTATTCACTCATGCCCTGGT 59.989 43.478 0.00 0.00 0.00 4.00
2040 4828 0.690192 TTTGACCATCGAGGCTCCAA 59.310 50.000 9.32 3.19 43.14 3.53
2089 4877 1.760613 CAGGGAGGGCTCACGTAAATA 59.239 52.381 0.00 0.00 38.25 1.40
2118 4906 1.263217 GGCGTAATTTACCTGATGCGG 59.737 52.381 1.04 0.00 0.00 5.69
2246 5034 1.614385 ATGCTACGACGTCGAAGTTG 58.386 50.000 41.52 24.80 43.02 3.16
2252 5040 3.272439 ACGACGTCGAAGTTGTCAATA 57.728 42.857 41.52 0.00 43.02 1.90
2270 5058 9.764363 TTGTCAATATACATAGAGAACATCCAC 57.236 33.333 0.00 0.00 0.00 4.02
2323 5111 2.093973 ACGATGCTCAAGGAAGGTACAG 60.094 50.000 0.00 0.00 0.00 2.74
2364 5153 4.525874 TGATCATTTTGTACATGTGCCCAA 59.474 37.500 9.11 5.99 0.00 4.12
2370 5159 4.679373 TTGTACATGTGCCCAAAATGTT 57.321 36.364 9.11 0.00 36.08 2.71
2387 5176 5.587388 AATGTTAAAGACCATCATGCCAG 57.413 39.130 0.00 0.00 0.00 4.85
2427 5216 1.122227 ACTTGGCATGCAGGTTTGTT 58.878 45.000 21.36 0.00 0.00 2.83
2432 5221 1.805428 GCATGCAGGTTTGTTCCCGT 61.805 55.000 14.21 0.00 0.00 5.28
2802 5602 6.555315 GTCTCGAAATTAACCAAGCATGATT 58.445 36.000 0.00 0.00 0.00 2.57
2803 5603 7.029563 GTCTCGAAATTAACCAAGCATGATTT 58.970 34.615 0.00 0.00 0.00 2.17
2804 5604 7.008628 GTCTCGAAATTAACCAAGCATGATTTG 59.991 37.037 0.00 0.00 0.00 2.32
2845 5645 5.178623 TGTCCTGTCGTTGATTGTTGATTAC 59.821 40.000 0.00 0.00 0.00 1.89
2870 5670 6.579666 AAGTCACTGCACAATTATTGTCAT 57.420 33.333 7.71 0.00 43.23 3.06
2871 5671 5.946298 AGTCACTGCACAATTATTGTCATG 58.054 37.500 7.71 4.67 43.23 3.07
2872 5672 5.474532 AGTCACTGCACAATTATTGTCATGT 59.525 36.000 7.71 4.40 43.23 3.21
2877 5700 6.654582 ACTGCACAATTATTGTCATGTAGTCA 59.345 34.615 7.71 0.00 43.23 3.41
2890 5713 8.846943 TGTCATGTAGTCAACTGAAATACAAT 57.153 30.769 9.05 0.00 34.36 2.71
2913 5736 8.726988 CAATTGAGCTTCATTCAAATTTTGGAT 58.273 29.630 9.18 3.16 38.01 3.41
2936 5759 7.752239 GGATCAAATAGAAAACTGACACATGTG 59.248 37.037 24.25 24.25 0.00 3.21
2937 5760 6.437928 TCAAATAGAAAACTGACACATGTGC 58.562 36.000 25.68 17.85 0.00 4.57
2943 5766 1.078709 ACTGACACATGTGCGTATGC 58.921 50.000 25.68 8.78 43.20 3.14
2957 5780 2.284288 GCGTATGCGTTTCTCTTGTACG 60.284 50.000 4.81 0.00 40.81 3.67
2958 5781 2.912967 CGTATGCGTTTCTCTTGTACGT 59.087 45.455 0.00 0.00 37.58 3.57
2959 5782 4.090729 CGTATGCGTTTCTCTTGTACGTA 58.909 43.478 0.00 0.00 37.58 3.57
2960 5783 4.731961 CGTATGCGTTTCTCTTGTACGTAT 59.268 41.667 0.00 0.00 41.96 3.06
2961 5784 5.330571 CGTATGCGTTTCTCTTGTACGTATG 60.331 44.000 0.00 0.00 40.06 2.39
2962 5785 3.904571 TGCGTTTCTCTTGTACGTATGT 58.095 40.909 0.00 0.00 37.58 2.29
2963 5786 3.671459 TGCGTTTCTCTTGTACGTATGTG 59.329 43.478 0.00 0.00 37.58 3.21
2964 5787 3.916172 GCGTTTCTCTTGTACGTATGTGA 59.084 43.478 0.00 0.00 37.58 3.58
2965 5788 4.383649 GCGTTTCTCTTGTACGTATGTGAA 59.616 41.667 0.00 3.04 37.58 3.18
2966 5789 5.107760 GCGTTTCTCTTGTACGTATGTGAAA 60.108 40.000 0.00 8.51 37.58 2.69
2967 5790 6.400727 GCGTTTCTCTTGTACGTATGTGAAAT 60.401 38.462 17.57 0.00 37.58 2.17
2968 5791 7.507304 CGTTTCTCTTGTACGTATGTGAAATT 58.493 34.615 17.57 0.00 0.00 1.82
2969 5792 7.474332 CGTTTCTCTTGTACGTATGTGAAATTG 59.526 37.037 17.57 13.02 0.00 2.32
2970 5793 7.956420 TTCTCTTGTACGTATGTGAAATTGT 57.044 32.000 0.00 0.00 0.00 2.71
2971 5794 7.346208 TCTCTTGTACGTATGTGAAATTGTG 57.654 36.000 0.00 0.00 0.00 3.33
2972 5795 7.149307 TCTCTTGTACGTATGTGAAATTGTGA 58.851 34.615 0.00 0.00 0.00 3.58
2973 5796 7.654116 TCTCTTGTACGTATGTGAAATTGTGAA 59.346 33.333 0.00 0.00 0.00 3.18
2974 5797 8.317891 TCTTGTACGTATGTGAAATTGTGAAT 57.682 30.769 0.00 0.00 0.00 2.57
2975 5798 8.227119 TCTTGTACGTATGTGAAATTGTGAATG 58.773 33.333 0.00 0.00 0.00 2.67
2976 5799 7.659652 TGTACGTATGTGAAATTGTGAATGA 57.340 32.000 0.00 0.00 0.00 2.57
2977 5800 8.089115 TGTACGTATGTGAAATTGTGAATGAA 57.911 30.769 0.00 0.00 0.00 2.57
2978 5801 8.012809 TGTACGTATGTGAAATTGTGAATGAAC 58.987 33.333 0.00 0.00 0.00 3.18
2979 5802 6.964908 ACGTATGTGAAATTGTGAATGAACA 58.035 32.000 0.00 0.00 0.00 3.18
2980 5803 7.592938 ACGTATGTGAAATTGTGAATGAACAT 58.407 30.769 0.00 0.00 0.00 2.71
2981 5804 8.081633 ACGTATGTGAAATTGTGAATGAACATT 58.918 29.630 0.00 0.00 0.00 2.71
2982 5805 8.914654 CGTATGTGAAATTGTGAATGAACATTT 58.085 29.630 1.56 0.00 0.00 2.32
2985 5808 8.279695 TGTGAAATTGTGAATGAACATTTACG 57.720 30.769 14.41 0.00 39.34 3.18
2986 5809 7.096271 TGTGAAATTGTGAATGAACATTTACGC 60.096 33.333 14.41 5.74 39.34 4.42
2987 5810 6.364706 TGAAATTGTGAATGAACATTTACGCC 59.635 34.615 14.41 5.71 39.34 5.68
2988 5811 3.463533 TGTGAATGAACATTTACGCCG 57.536 42.857 14.41 0.00 39.34 6.46
2989 5812 2.173964 GTGAATGAACATTTACGCCGC 58.826 47.619 6.68 0.00 29.66 6.53
2990 5813 2.080693 TGAATGAACATTTACGCCGCT 58.919 42.857 1.56 0.00 0.00 5.52
2991 5814 2.095213 TGAATGAACATTTACGCCGCTC 59.905 45.455 1.56 0.00 0.00 5.03
2992 5815 2.024176 ATGAACATTTACGCCGCTCT 57.976 45.000 0.00 0.00 0.00 4.09
2993 5816 1.355971 TGAACATTTACGCCGCTCTC 58.644 50.000 0.00 0.00 0.00 3.20
2994 5817 1.067142 TGAACATTTACGCCGCTCTCT 60.067 47.619 0.00 0.00 0.00 3.10
2995 5818 2.000447 GAACATTTACGCCGCTCTCTT 59.000 47.619 0.00 0.00 0.00 2.85
2996 5819 1.359848 ACATTTACGCCGCTCTCTTG 58.640 50.000 0.00 0.00 0.00 3.02
2997 5820 1.067142 ACATTTACGCCGCTCTCTTGA 60.067 47.619 0.00 0.00 0.00 3.02
2998 5821 1.324736 CATTTACGCCGCTCTCTTGAC 59.675 52.381 0.00 0.00 0.00 3.18
2999 5822 0.389426 TTTACGCCGCTCTCTTGACC 60.389 55.000 0.00 0.00 0.00 4.02
3000 5823 1.248785 TTACGCCGCTCTCTTGACCT 61.249 55.000 0.00 0.00 0.00 3.85
3001 5824 1.654954 TACGCCGCTCTCTTGACCTC 61.655 60.000 0.00 0.00 0.00 3.85
3002 5825 2.705821 CGCCGCTCTCTTGACCTCT 61.706 63.158 0.00 0.00 0.00 3.69
3003 5826 1.140804 GCCGCTCTCTTGACCTCTC 59.859 63.158 0.00 0.00 0.00 3.20
3004 5827 1.431440 CCGCTCTCTTGACCTCTCG 59.569 63.158 0.00 0.00 0.00 4.04
3005 5828 1.309499 CCGCTCTCTTGACCTCTCGT 61.309 60.000 0.00 0.00 0.00 4.18
3006 5829 0.523966 CGCTCTCTTGACCTCTCGTT 59.476 55.000 0.00 0.00 0.00 3.85
3007 5830 1.730772 CGCTCTCTTGACCTCTCGTTG 60.731 57.143 0.00 0.00 0.00 4.10
3008 5831 1.403514 GCTCTCTTGACCTCTCGTTGG 60.404 57.143 0.00 0.00 0.00 3.77
3009 5832 0.603569 TCTCTTGACCTCTCGTTGGC 59.396 55.000 0.00 0.00 0.00 4.52
3010 5833 0.390472 CTCTTGACCTCTCGTTGGCC 60.390 60.000 0.00 0.00 0.00 5.36
3054 5877 2.717044 CGTCCCCAGTATCCGCACA 61.717 63.158 0.00 0.00 0.00 4.57
3056 5879 1.045407 GTCCCCAGTATCCGCACATA 58.955 55.000 0.00 0.00 0.00 2.29
3066 5889 4.686091 AGTATCCGCACATATTCAATGTCG 59.314 41.667 0.00 0.00 0.00 4.35
3071 5894 3.555547 CGCACATATTCAATGTCGGAGAA 59.444 43.478 0.00 0.00 39.69 2.87
3077 5900 6.814644 ACATATTCAATGTCGGAGAAACGTTA 59.185 34.615 0.00 0.00 39.69 3.18
3082 5905 3.713858 TGTCGGAGAAACGTTAACTGA 57.286 42.857 0.00 4.02 39.69 3.41
3122 5950 1.375396 CTCGTTCAATGCCCGTCCA 60.375 57.895 0.00 0.00 0.00 4.02
3136 5965 0.583438 CGTCCATCTTTATGCTGCCG 59.417 55.000 0.00 0.00 0.00 5.69
3143 5972 2.014128 TCTTTATGCTGCCGTTAAGCC 58.986 47.619 0.00 0.00 40.06 4.35
3168 5997 2.032071 CCGCCGAGGAACCAACTT 59.968 61.111 0.00 0.00 45.00 2.66
3171 6000 2.677979 GCCGAGGAACCAACTTCGC 61.678 63.158 0.00 0.00 37.89 4.70
3177 6006 2.203153 AACCAACTTCGCCGCTGT 60.203 55.556 0.00 0.00 0.00 4.40
3186 6015 3.725459 CGCCGCTGTGCATTGACA 61.725 61.111 0.00 0.00 0.00 3.58
3190 6019 1.509644 CCGCTGTGCATTGACACACT 61.510 55.000 9.03 0.00 45.36 3.55
3192 6021 0.946528 GCTGTGCATTGACACACTCA 59.053 50.000 9.03 0.00 45.36 3.41
3202 6036 0.249489 GACACACTCAGACGCTTGGT 60.249 55.000 0.00 0.00 0.00 3.67
3203 6037 0.178068 ACACACTCAGACGCTTGGTT 59.822 50.000 0.00 0.00 0.00 3.67
3204 6038 1.299541 CACACTCAGACGCTTGGTTT 58.700 50.000 0.00 0.00 0.00 3.27
3205 6039 1.670811 CACACTCAGACGCTTGGTTTT 59.329 47.619 0.00 0.00 0.00 2.43
3210 6044 3.632145 ACTCAGACGCTTGGTTTTTCATT 59.368 39.130 0.00 0.00 0.00 2.57
3220 6054 5.708948 CTTGGTTTTTCATTAGAATCCGCA 58.291 37.500 0.00 0.00 32.89 5.69
3230 6064 7.873719 TCATTAGAATCCGCAATTTAAAGGA 57.126 32.000 0.00 0.00 37.17 3.36
3232 6066 7.773224 TCATTAGAATCCGCAATTTAAAGGAGA 59.227 33.333 0.00 0.00 36.08 3.71
3234 6068 5.253330 AGAATCCGCAATTTAAAGGAGACA 58.747 37.500 0.00 0.00 36.08 3.41
3243 6077 4.513406 TTTAAAGGAGACAACACCTGGT 57.487 40.909 0.00 0.00 37.20 4.00
3245 6079 3.382083 AAAGGAGACAACACCTGGTTT 57.618 42.857 0.00 0.00 37.72 3.27
3275 6109 0.867746 CACAACACATCCACTCCACG 59.132 55.000 0.00 0.00 0.00 4.94
3281 6115 1.139734 CATCCACTCCACGTCCTCG 59.860 63.158 0.00 0.00 43.34 4.63
3294 6131 1.918293 TCCTCGTCCCTTGCACCAT 60.918 57.895 0.00 0.00 0.00 3.55
3308 6145 1.133823 GCACCATATCCACCATGACCA 60.134 52.381 0.00 0.00 0.00 4.02
3314 6151 0.921166 ATCCACCATGACCATGAGCA 59.079 50.000 11.28 0.00 41.20 4.26
3398 6238 4.363990 CAGAGCCGTCGTGCCAGT 62.364 66.667 2.61 0.00 0.00 4.00
3472 6315 4.078516 GGAGACGGGGTCCAACGG 62.079 72.222 9.62 0.00 33.84 4.44
3484 6327 2.587753 CAACGGTGACACCACGCT 60.588 61.111 24.18 2.33 44.09 5.07
3524 6367 3.232213 GTCGACTTGACTATGGAGCAA 57.768 47.619 8.70 0.00 44.58 3.91
3531 6374 0.179100 GACTATGGAGCAAGCGCAGA 60.179 55.000 11.47 0.00 42.27 4.26
3534 6377 2.225791 TATGGAGCAAGCGCAGACGT 62.226 55.000 11.47 0.00 42.27 4.34
3539 6382 0.179161 AGCAAGCGCAGACGTACTAG 60.179 55.000 11.47 0.00 42.27 2.57
3542 6385 1.065701 CAAGCGCAGACGTACTAGGAT 59.934 52.381 11.47 0.00 42.83 3.24
3546 6389 1.033574 GCAGACGTACTAGGATGCCT 58.966 55.000 0.00 0.00 37.71 4.75
3561 6404 2.281345 CCTCCATGGCGGATGAGC 60.281 66.667 16.30 0.00 45.19 4.26
3595 6438 3.482722 GACTCTTATGTCGACGTTCCA 57.517 47.619 16.79 0.00 0.00 3.53
3601 6444 2.432628 GTCGACGTTCCAGCAGGG 60.433 66.667 0.00 0.00 34.83 4.45
3620 6463 0.762461 GGCAGGAGGAGCAGAGGTAT 60.762 60.000 0.00 0.00 0.00 2.73
3684 6527 3.289704 TACGGCTAGCGCACAAGCA 62.290 57.895 24.56 7.54 42.27 3.91
3689 6532 1.577328 GCTAGCGCACAAGCAAGGAA 61.577 55.000 20.32 0.00 42.27 3.36
3729 6572 1.501337 GGCGAACCCGAACTTCGTTT 61.501 55.000 10.22 3.11 42.07 3.60
3730 6573 0.305617 GCGAACCCGAACTTCGTTTT 59.694 50.000 10.22 2.77 42.07 2.43
3736 6579 0.237498 CCGAACTTCGTTTTGGAGCC 59.763 55.000 10.22 0.00 38.40 4.70
3737 6580 0.110823 CGAACTTCGTTTTGGAGCCG 60.111 55.000 2.84 0.00 34.72 5.52
3740 6583 1.082104 CTTCGTTTTGGAGCCGCAC 60.082 57.895 0.00 0.00 0.00 5.34
3741 6584 1.781025 CTTCGTTTTGGAGCCGCACA 61.781 55.000 0.00 0.00 0.00 4.57
3756 6599 1.517361 CACATGCTCTACGAGGCCA 59.483 57.895 5.01 0.00 0.00 5.36
3859 6703 4.415332 GAGGACGAGAACGCCGCA 62.415 66.667 0.00 0.00 43.96 5.69
3874 6718 2.892425 GCAAGCTGCGCGTCCTAT 60.892 61.111 8.43 0.00 31.71 2.57
3875 6719 3.009140 CAAGCTGCGCGTCCTATG 58.991 61.111 8.43 0.00 0.00 2.23
3876 6720 2.892425 AAGCTGCGCGTCCTATGC 60.892 61.111 8.43 3.52 0.00 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 57 2.211250 AGTAACTGTCGTAGCCAGGA 57.789 50.000 0.00 0.00 0.00 3.86
164 165 0.466543 ATGTGTTTAGCCCGGCGATA 59.533 50.000 9.30 0.00 0.00 2.92
173 174 2.813754 TGTCCAGCTCAATGTGTTTAGC 59.186 45.455 0.00 0.00 35.16 3.09
280 281 3.697045 AGATAGAAGTCGACAGTCCCTTG 59.303 47.826 19.50 0.00 0.00 3.61
423 437 5.066505 GTGGGCCACAATCTCAACTATAAAG 59.933 44.000 31.26 0.00 34.08 1.85
425 440 4.523083 GTGGGCCACAATCTCAACTATAA 58.477 43.478 31.26 0.00 34.08 0.98
436 451 0.328258 GTACAGAGGTGGGCCACAAT 59.672 55.000 35.69 24.52 35.86 2.71
479 494 3.185188 GTGCAATCGCGATGTATTGATCT 59.815 43.478 24.47 0.00 42.97 2.75
502 518 0.329596 AGAAGGACAAGATGTGGGCC 59.670 55.000 0.00 0.00 0.00 5.80
525 541 4.394920 GGAAGCCAAATTACACATCGAGAA 59.605 41.667 0.00 0.00 0.00 2.87
526 542 3.938963 GGAAGCCAAATTACACATCGAGA 59.061 43.478 0.00 0.00 0.00 4.04
549 565 1.409661 GCAACCCCTAACAATCCGGAT 60.410 52.381 12.38 12.38 0.00 4.18
552 568 1.094785 CTGCAACCCCTAACAATCCG 58.905 55.000 0.00 0.00 0.00 4.18
554 570 2.488153 GTGTCTGCAACCCCTAACAATC 59.512 50.000 0.00 0.00 0.00 2.67
558 574 2.200373 ATGTGTCTGCAACCCCTAAC 57.800 50.000 0.00 0.00 0.00 2.34
615 632 6.955407 GCATTTTAAAACTTCGATTGGAATGC 59.045 34.615 1.97 12.00 38.88 3.56
620 637 4.326009 CCCGCATTTTAAAACTTCGATTGG 59.674 41.667 15.48 8.01 0.00 3.16
622 639 5.379732 TCCCGCATTTTAAAACTTCGATT 57.620 34.783 15.48 0.00 0.00 3.34
626 643 6.329496 TCATGATCCCGCATTTTAAAACTTC 58.671 36.000 1.97 0.00 0.00 3.01
634 651 2.301346 GGTCTCATGATCCCGCATTTT 58.699 47.619 0.00 0.00 0.00 1.82
664 681 1.816863 ATCCACGACGGTGCTCACTT 61.817 55.000 0.00 0.00 43.00 3.16
675 692 1.635663 CGCTCCAACCAATCCACGAC 61.636 60.000 0.00 0.00 0.00 4.34
695 1449 1.486310 AGGTGCGAAATGAGCCAGATA 59.514 47.619 0.00 0.00 0.00 1.98
718 1478 2.169789 CCAGCACGATCCTGAAGCG 61.170 63.158 0.00 0.00 32.03 4.68
828 1595 3.681835 GGCCTCGTCGTCACAGGT 61.682 66.667 0.00 0.00 0.00 4.00
862 1629 2.973945 AGGATCGTAAACCTTGCACTC 58.026 47.619 0.00 0.00 31.95 3.51
908 1675 2.483876 CTTTTCTTCTCACCTGCGTCA 58.516 47.619 0.00 0.00 0.00 4.35
954 1721 2.535931 CGACTCGATTGACTCTCTCGTG 60.536 54.545 0.00 0.00 34.19 4.35
955 1722 1.661617 CGACTCGATTGACTCTCTCGT 59.338 52.381 0.00 0.00 34.19 4.18
956 1723 1.927838 TCGACTCGATTGACTCTCTCG 59.072 52.381 0.00 0.00 0.00 4.04
1149 1931 2.930040 TCGGAATCAGAATTGAAGCGAC 59.070 45.455 0.00 0.00 36.78 5.19
1272 2054 1.313812 GCTCGGTCTCGGAGAAGGAA 61.314 60.000 9.72 0.00 34.09 3.36
1311 2093 2.190313 GGGGAGCATGCGTGATCA 59.810 61.111 24.44 0.00 42.47 2.92
1326 2111 1.302192 TCAAAACGAGGGAAGCGGG 60.302 57.895 0.00 0.00 0.00 6.13
1357 2142 0.982673 AATCGACGCGAAAAGAGACG 59.017 50.000 15.93 5.32 39.99 4.18
1360 2145 2.486128 CAACAATCGACGCGAAAAGAG 58.514 47.619 15.93 0.29 39.99 2.85
1376 2161 3.215568 CTGCAACCACGGCCAACA 61.216 61.111 2.24 0.00 0.00 3.33
1398 2183 1.202394 TGCATGCACACAAAGGTCAAC 60.202 47.619 18.46 0.00 0.00 3.18
1543 2339 3.936453 ACTAGTCAACACGTGCAAGAAAA 59.064 39.130 17.22 2.18 0.00 2.29
1565 2361 3.436577 AAGGACAGAAGACGTCTCCTA 57.563 47.619 20.33 0.00 30.87 2.94
1653 2451 4.978186 CGATTGACTTGTCAATTGCTGAT 58.022 39.130 24.18 6.79 40.08 2.90
1659 2457 2.159627 GGTCGCGATTGACTTGTCAATT 59.840 45.455 24.18 12.19 40.08 2.32
1660 2458 1.732259 GGTCGCGATTGACTTGTCAAT 59.268 47.619 23.77 23.77 42.39 2.57
1666 2464 1.445582 GACCGGTCGCGATTGACTT 60.446 57.895 20.85 0.00 38.91 3.01
1673 2471 0.390603 ATCAATTTGACCGGTCGCGA 60.391 50.000 28.70 19.33 0.00 5.87
1675 2473 0.026285 CGATCAATTTGACCGGTCGC 59.974 55.000 28.70 8.33 27.45 5.19
1689 2487 1.299648 CCCCTGGTTTGCTCGATCA 59.700 57.895 0.00 0.00 0.00 2.92
1698 2496 2.361865 GACCGGTTTCCCCCTGGTTT 62.362 60.000 9.42 0.00 33.47 3.27
1701 2499 2.360439 TTTGACCGGTTTCCCCCTGG 62.360 60.000 9.42 0.00 0.00 4.45
1704 2502 1.884075 GCATTTGACCGGTTTCCCCC 61.884 60.000 9.42 0.00 0.00 5.40
1732 2530 1.522569 GCCCATGTAGAAGGCGAGT 59.477 57.895 0.00 0.00 36.84 4.18
1751 3010 0.966875 GCACATGATCAACCAGGCCA 60.967 55.000 5.01 0.00 0.00 5.36
1757 3016 1.715585 CCGACGCACATGATCAACC 59.284 57.895 0.00 0.00 0.00 3.77
1769 3028 4.135493 GCTTCTTGACGCCGACGC 62.135 66.667 0.00 0.00 45.53 5.19
1859 3140 1.421485 CGCACTTTCATCCACGAGC 59.579 57.895 0.00 0.00 0.00 5.03
1910 3191 4.779733 TCAGAGGAGGGGGTCGGC 62.780 72.222 0.00 0.00 0.00 5.54
1911 3192 2.760385 GTCAGAGGAGGGGGTCGG 60.760 72.222 0.00 0.00 0.00 4.79
1966 4754 1.636769 GCGGAGGGGAGGAGGATTTT 61.637 60.000 0.00 0.00 0.00 1.82
1992 4780 5.416952 CAGGGCATGAGTGAATAAACTCTTT 59.583 40.000 0.00 0.00 45.69 2.52
2028 4816 1.258445 AACGGTCTTGGAGCCTCGAT 61.258 55.000 0.00 0.00 0.00 3.59
2040 4828 3.038280 TGTATCCATGATCCAACGGTCT 58.962 45.455 0.00 0.00 0.00 3.85
2089 4877 7.222000 TCAGGTAAATTACGCCTTTTTGAAT 57.778 32.000 0.00 0.00 0.00 2.57
2147 4935 9.836864 ACATACAAAGTATGATTCTTCAGCATA 57.163 29.630 20.46 0.00 34.73 3.14
2217 5005 1.463056 CGTCGTAGCATTTTCCTGCAA 59.537 47.619 0.00 0.00 44.77 4.08
2246 5034 8.367911 TGGTGGATGTTCTCTATGTATATTGAC 58.632 37.037 0.00 0.00 0.00 3.18
2252 5040 5.072329 CCCTTGGTGGATGTTCTCTATGTAT 59.928 44.000 0.00 0.00 38.35 2.29
2270 5058 0.392998 CACTTCCGTGGATCCCTTGG 60.393 60.000 9.90 8.50 37.50 3.61
2323 5111 0.460284 CAGGGCGTATGTGTGGTCTC 60.460 60.000 0.00 0.00 0.00 3.36
2364 5153 5.625197 GCTGGCATGATGGTCTTTAACATTT 60.625 40.000 0.00 0.00 0.00 2.32
2370 5159 2.804986 TGCTGGCATGATGGTCTTTA 57.195 45.000 0.00 0.00 0.00 1.85
2387 5176 4.097741 AGTGGATCGATATAGCAGAGATGC 59.902 45.833 0.00 0.00 0.00 3.91
2427 5216 1.034356 TCTCGTTGAACTTCACGGGA 58.966 50.000 10.45 10.45 31.54 5.14
2432 5221 5.789521 TGGTGAATATCTCGTTGAACTTCA 58.210 37.500 0.00 0.00 31.25 3.02
2712 5512 2.052237 GTGCGTGCGTTGTCCTTG 60.052 61.111 0.00 0.00 0.00 3.61
2744 5544 1.743252 GCCAGCTGAACGAAGAGGG 60.743 63.158 17.39 0.00 0.00 4.30
2802 5602 7.144661 CAGGACAAGTACAAATACAAATGCAA 58.855 34.615 0.00 0.00 33.30 4.08
2803 5603 6.264292 ACAGGACAAGTACAAATACAAATGCA 59.736 34.615 0.00 0.00 33.30 3.96
2804 5604 6.677913 ACAGGACAAGTACAAATACAAATGC 58.322 36.000 0.00 0.00 33.30 3.56
2805 5605 7.015289 CGACAGGACAAGTACAAATACAAATG 58.985 38.462 0.00 0.00 33.30 2.32
2806 5606 6.708949 ACGACAGGACAAGTACAAATACAAAT 59.291 34.615 0.00 0.00 33.30 2.32
2807 5607 6.050432 ACGACAGGACAAGTACAAATACAAA 58.950 36.000 0.00 0.00 33.30 2.83
2845 5645 6.207928 TGACAATAATTGTGCAGTGACTTTG 58.792 36.000 0.00 0.00 45.52 2.77
2870 5670 7.661437 AGCTCAATTGTATTTCAGTTGACTACA 59.339 33.333 5.13 1.58 44.06 2.74
2871 5671 8.034058 AGCTCAATTGTATTTCAGTTGACTAC 57.966 34.615 5.13 0.00 44.06 2.73
2872 5672 8.621532 AAGCTCAATTGTATTTCAGTTGACTA 57.378 30.769 5.13 0.00 44.06 2.59
2877 5700 8.579006 TGAATGAAGCTCAATTGTATTTCAGTT 58.421 29.630 18.56 14.54 0.00 3.16
2890 5713 7.443477 TGATCCAAAATTTGAATGAAGCTCAA 58.557 30.769 7.37 0.00 0.00 3.02
2910 5733 7.752239 CACATGTGTCAGTTTTCTATTTGATCC 59.248 37.037 18.03 0.00 0.00 3.36
2913 5736 6.437928 GCACATGTGTCAGTTTTCTATTTGA 58.562 36.000 26.01 0.00 0.00 2.69
2921 5744 3.609175 GCATACGCACATGTGTCAGTTTT 60.609 43.478 26.01 12.18 39.74 2.43
2926 5749 0.669012 ACGCATACGCACATGTGTCA 60.669 50.000 26.01 12.41 44.28 3.58
2936 5759 2.284288 CGTACAAGAGAAACGCATACGC 60.284 50.000 0.00 0.00 45.53 4.42
2943 5766 6.442487 TTTCACATACGTACAAGAGAAACG 57.558 37.500 0.00 0.00 42.17 3.60
2959 5782 8.914654 CGTAAATGTTCATTCACAATTTCACAT 58.085 29.630 0.00 0.00 0.00 3.21
2960 5783 7.096271 GCGTAAATGTTCATTCACAATTTCACA 60.096 33.333 0.00 0.00 0.00 3.58
2961 5784 7.219922 GCGTAAATGTTCATTCACAATTTCAC 58.780 34.615 0.00 0.00 0.00 3.18
2962 5785 6.364706 GGCGTAAATGTTCATTCACAATTTCA 59.635 34.615 0.00 0.00 0.00 2.69
2963 5786 6.452350 CGGCGTAAATGTTCATTCACAATTTC 60.452 38.462 0.00 0.00 0.00 2.17
2964 5787 5.344665 CGGCGTAAATGTTCATTCACAATTT 59.655 36.000 0.00 0.00 0.00 1.82
2965 5788 4.856487 CGGCGTAAATGTTCATTCACAATT 59.144 37.500 0.00 0.00 0.00 2.32
2966 5789 4.411327 CGGCGTAAATGTTCATTCACAAT 58.589 39.130 0.00 0.00 0.00 2.71
2967 5790 3.816091 CGGCGTAAATGTTCATTCACAA 58.184 40.909 0.00 0.00 0.00 3.33
2968 5791 2.413502 GCGGCGTAAATGTTCATTCACA 60.414 45.455 9.37 0.00 0.00 3.58
2969 5792 2.159572 AGCGGCGTAAATGTTCATTCAC 60.160 45.455 9.37 0.00 0.00 3.18
2970 5793 2.080693 AGCGGCGTAAATGTTCATTCA 58.919 42.857 9.37 0.00 0.00 2.57
2971 5794 2.351726 AGAGCGGCGTAAATGTTCATTC 59.648 45.455 9.37 0.00 0.00 2.67
2972 5795 2.351726 GAGAGCGGCGTAAATGTTCATT 59.648 45.455 9.37 0.00 0.00 2.57
2973 5796 1.933853 GAGAGCGGCGTAAATGTTCAT 59.066 47.619 9.37 0.00 0.00 2.57
2974 5797 1.067142 AGAGAGCGGCGTAAATGTTCA 60.067 47.619 9.37 0.00 0.00 3.18
2975 5798 1.641577 AGAGAGCGGCGTAAATGTTC 58.358 50.000 9.37 0.00 0.00 3.18
2976 5799 1.732259 CAAGAGAGCGGCGTAAATGTT 59.268 47.619 9.37 0.00 0.00 2.71
2977 5800 1.067142 TCAAGAGAGCGGCGTAAATGT 60.067 47.619 9.37 0.00 0.00 2.71
2978 5801 1.324736 GTCAAGAGAGCGGCGTAAATG 59.675 52.381 9.37 0.92 0.00 2.32
2979 5802 1.641577 GTCAAGAGAGCGGCGTAAAT 58.358 50.000 9.37 0.00 0.00 1.40
2980 5803 0.389426 GGTCAAGAGAGCGGCGTAAA 60.389 55.000 9.37 0.00 31.89 2.01
2981 5804 1.214589 GGTCAAGAGAGCGGCGTAA 59.785 57.895 9.37 0.00 31.89 3.18
2982 5805 1.654954 GAGGTCAAGAGAGCGGCGTA 61.655 60.000 9.37 0.00 46.62 4.42
2983 5806 2.992114 AGGTCAAGAGAGCGGCGT 60.992 61.111 9.37 0.00 46.62 5.68
2984 5807 2.202676 GAGGTCAAGAGAGCGGCG 60.203 66.667 0.51 0.51 46.62 6.46
2985 5808 1.140804 GAGAGGTCAAGAGAGCGGC 59.859 63.158 0.00 0.00 46.62 6.53
2986 5809 1.309499 ACGAGAGGTCAAGAGAGCGG 61.309 60.000 0.00 0.00 46.62 5.52
2987 5810 0.523966 AACGAGAGGTCAAGAGAGCG 59.476 55.000 0.00 0.00 46.62 5.03
2988 5811 1.403514 CCAACGAGAGGTCAAGAGAGC 60.404 57.143 0.00 0.00 42.53 4.09
2989 5812 1.403514 GCCAACGAGAGGTCAAGAGAG 60.404 57.143 0.00 0.00 0.00 3.20
2990 5813 0.603569 GCCAACGAGAGGTCAAGAGA 59.396 55.000 0.00 0.00 0.00 3.10
2991 5814 0.390472 GGCCAACGAGAGGTCAAGAG 60.390 60.000 0.00 0.00 0.00 2.85
2992 5815 1.671742 GGCCAACGAGAGGTCAAGA 59.328 57.895 0.00 0.00 0.00 3.02
2993 5816 1.376037 GGGCCAACGAGAGGTCAAG 60.376 63.158 4.39 0.00 30.51 3.02
2994 5817 2.747686 GGGCCAACGAGAGGTCAA 59.252 61.111 4.39 0.00 30.51 3.18
2995 5818 3.319198 GGGGCCAACGAGAGGTCA 61.319 66.667 4.39 0.00 30.51 4.02
2996 5819 4.452733 CGGGGCCAACGAGAGGTC 62.453 72.222 13.19 0.00 0.00 3.85
2998 5821 4.452733 GTCGGGGCCAACGAGAGG 62.453 72.222 20.30 0.00 41.50 3.69
2999 5822 4.452733 GGTCGGGGCCAACGAGAG 62.453 72.222 20.30 0.00 41.50 3.20
3004 5827 4.452733 CTCTCGGTCGGGGCCAAC 62.453 72.222 4.39 2.23 0.00 3.77
3032 5855 3.152400 GGATACTGGGGACGCGGT 61.152 66.667 12.47 6.12 0.00 5.68
3046 5869 2.807967 CCGACATTGAATATGTGCGGAT 59.192 45.455 16.56 0.00 41.09 4.18
3054 5877 7.548075 AGTTAACGTTTCTCCGACATTGAATAT 59.452 33.333 5.91 0.00 0.00 1.28
3056 5879 5.699458 AGTTAACGTTTCTCCGACATTGAAT 59.301 36.000 5.91 0.00 0.00 2.57
3077 5900 6.812160 GTGGTAAATATCTGTCTCGTTCAGTT 59.188 38.462 0.00 0.00 34.86 3.16
3082 5905 6.282199 AGTGTGGTAAATATCTGTCTCGTT 57.718 37.500 0.00 0.00 0.00 3.85
3096 5924 2.147958 GGCATTGAACGAGTGTGGTAA 58.852 47.619 0.00 0.00 0.00 2.85
3122 5950 2.618709 GGCTTAACGGCAGCATAAAGAT 59.381 45.455 0.00 0.00 39.21 2.40
3152 5981 2.380410 CGAAGTTGGTTCCTCGGCG 61.380 63.158 0.00 0.00 0.00 6.46
3168 5997 3.422303 GTCAATGCACAGCGGCGA 61.422 61.111 12.98 0.00 36.28 5.54
3171 6000 3.342909 TGTGTCAATGCACAGCGG 58.657 55.556 6.44 0.00 43.54 5.52
3177 6006 1.501169 CGTCTGAGTGTGTCAATGCA 58.499 50.000 0.00 0.00 33.60 3.96
3186 6015 2.038387 AAAACCAAGCGTCTGAGTGT 57.962 45.000 0.00 0.00 0.00 3.55
3190 6019 5.060506 TCTAATGAAAAACCAAGCGTCTGA 58.939 37.500 0.00 0.00 0.00 3.27
3192 6021 6.349363 GGATTCTAATGAAAAACCAAGCGTCT 60.349 38.462 0.00 0.00 35.63 4.18
3203 6037 9.364989 CCTTTAAATTGCGGATTCTAATGAAAA 57.635 29.630 0.00 0.00 35.63 2.29
3204 6038 8.744652 TCCTTTAAATTGCGGATTCTAATGAAA 58.255 29.630 0.00 0.00 35.63 2.69
3205 6039 8.287439 TCCTTTAAATTGCGGATTCTAATGAA 57.713 30.769 0.00 0.00 36.54 2.57
3210 6044 6.411376 TGTCTCCTTTAAATTGCGGATTCTA 58.589 36.000 0.00 0.00 0.00 2.10
3220 6054 5.454966 ACCAGGTGTTGTCTCCTTTAAATT 58.545 37.500 0.00 0.00 35.65 1.82
3230 6064 3.201266 TGGAGTTAAACCAGGTGTTGTCT 59.799 43.478 0.00 0.00 37.23 3.41
3232 6066 3.284617 GTGGAGTTAAACCAGGTGTTGT 58.715 45.455 0.00 0.00 37.23 3.32
3234 6068 3.284617 GTGTGGAGTTAAACCAGGTGTT 58.715 45.455 0.00 0.00 38.14 3.32
3243 6077 3.687125 TGTGTTGTGGTGTGGAGTTAAA 58.313 40.909 0.00 0.00 0.00 1.52
3245 6079 3.472652 GATGTGTTGTGGTGTGGAGTTA 58.527 45.455 0.00 0.00 0.00 2.24
3275 6109 2.047179 GGTGCAAGGGACGAGGAC 60.047 66.667 0.00 0.00 0.00 3.85
3281 6115 1.680338 GTGGATATGGTGCAAGGGAC 58.320 55.000 0.00 0.00 0.00 4.46
3294 6131 2.105306 CTGCTCATGGTCATGGTGGATA 59.895 50.000 10.61 0.00 39.24 2.59
3314 6151 1.228894 TCTCCCACAGAGCGTTCCT 60.229 57.895 0.00 0.00 42.90 3.36
3402 6242 2.579787 CGACATGACGGCCTCGAC 60.580 66.667 9.78 0.00 40.11 4.20
3412 6252 3.785859 GGGAGCTGGCCGACATGA 61.786 66.667 0.00 0.00 0.00 3.07
3468 6311 2.587753 CAGCGTGGTGTCACCGTT 60.588 61.111 17.27 1.43 42.58 4.44
3472 6315 3.044305 GCTCCAGCGTGGTGTCAC 61.044 66.667 0.00 0.00 39.03 3.67
3524 6367 0.663688 CATCCTAGTACGTCTGCGCT 59.336 55.000 9.73 0.00 42.83 5.92
3531 6374 1.964223 CATGGAGGCATCCTAGTACGT 59.036 52.381 19.75 0.00 46.80 3.57
3580 6423 1.403647 CCTGCTGGAACGTCGACATAA 60.404 52.381 17.16 0.00 34.57 1.90
3588 6431 4.335647 CTGCCCCTGCTGGAACGT 62.336 66.667 11.88 0.00 38.71 3.99
3601 6444 0.762461 ATACCTCTGCTCCTCCTGCC 60.762 60.000 0.00 0.00 0.00 4.85
3662 6505 0.248907 TTGTGCGCTAGCCGTAGATC 60.249 55.000 9.73 0.00 44.33 2.75
3672 6515 1.577328 GCTTCCTTGCTTGTGCGCTA 61.577 55.000 9.73 0.00 43.34 4.26
3832 6676 3.343788 CTCGTCCTCGACCACCTGC 62.344 68.421 0.00 0.00 41.35 4.85
3834 6678 1.074423 TTCTCGTCCTCGACCACCT 59.926 57.895 0.00 0.00 41.35 4.00


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

AutoCloner maintained by Alex Coulton.