Multiple sequence alignment - TraesCS7D01G439400

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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 TraesCS7D01G439400 chr7D 100.000 3633 0 0 1 3633 559104261 559107893 0.000000e+00 6709.0
1 TraesCS7D01G439400 chr7D 90.732 1748 124 17 860 2595 559225309 559227030 0.000000e+00 2296.0
2 TraesCS7D01G439400 chr7D 96.819 503 14 2 3124 3625 36416949 36416448 0.000000e+00 839.0
3 TraesCS7D01G439400 chr7D 96.450 507 14 4 3127 3633 454501697 454501195 0.000000e+00 833.0
4 TraesCS7D01G439400 chr7D 95.866 508 19 1 3126 3633 111851632 111852137 0.000000e+00 821.0
5 TraesCS7D01G439400 chr7D 93.492 461 24 4 142 601 530646312 530646767 0.000000e+00 680.0
6 TraesCS7D01G439400 chr7D 96.479 142 5 0 1 142 530646142 530646283 6.060000e-58 235.0
7 TraesCS7D01G439400 chr7B 94.473 1918 88 7 693 2602 607280234 607282141 0.000000e+00 2939.0
8 TraesCS7D01G439400 chr7B 94.321 1532 73 5 1043 2564 607171723 607173250 0.000000e+00 2335.0
9 TraesCS7D01G439400 chr7B 87.870 338 27 7 2677 3004 718953922 718954255 5.690000e-103 385.0
10 TraesCS7D01G439400 chr7B 95.455 242 7 2 2887 3125 511458782 511459022 2.050000e-102 383.0
11 TraesCS7D01G439400 chr7B 91.971 137 11 0 622 758 607166706 607166842 3.700000e-45 193.0
12 TraesCS7D01G439400 chr7B 89.231 65 6 1 1967 2030 478908613 478908549 3.010000e-11 80.5
13 TraesCS7D01G439400 chr7B 100.000 29 0 0 3097 3125 718955094 718955122 2.000000e-03 54.7
14 TraesCS7D01G439400 chr7A 93.638 1839 96 11 771 2595 643991930 643993761 0.000000e+00 2728.0
15 TraesCS7D01G439400 chr7A 88.000 175 17 3 602 772 643991285 643991459 1.710000e-48 204.0
16 TraesCS7D01G439400 chr6B 91.919 1485 105 7 1101 2584 276304035 276302565 0.000000e+00 2063.0
17 TraesCS7D01G439400 chr2D 99.169 602 4 1 1 601 114640776 114640175 0.000000e+00 1083.0
18 TraesCS7D01G439400 chr2D 97.244 508 13 1 3126 3633 588238263 588237757 0.000000e+00 859.0
19 TraesCS7D01G439400 chr2D 78.593 327 46 20 2677 2992 546783875 546783562 1.030000e-45 195.0
20 TraesCS7D01G439400 chr6A 88.818 787 55 23 966 1742 191662756 191663519 0.000000e+00 935.0
21 TraesCS7D01G439400 chr6A 89.307 505 41 5 1738 2242 191668553 191669044 3.980000e-174 621.0
22 TraesCS7D01G439400 chr6A 92.736 413 17 3 2726 3125 555315896 555316308 5.230000e-163 584.0
23 TraesCS7D01G439400 chr6A 88.184 347 40 1 2238 2584 191683203 191683548 2.610000e-111 412.0
24 TraesCS7D01G439400 chr6A 91.262 206 17 1 2677 2881 217705797 217705592 2.760000e-71 279.0
25 TraesCS7D01G439400 chr1D 95.611 524 22 1 3111 3633 100880357 100880880 0.000000e+00 839.0
26 TraesCS7D01G439400 chr1D 95.035 141 7 0 3493 3633 100881153 100881293 4.720000e-54 222.0
27 TraesCS7D01G439400 chr3D 95.678 509 22 0 3125 3633 580280641 580281149 0.000000e+00 819.0
28 TraesCS7D01G439400 chr3D 96.024 503 19 1 3132 3633 611086490 611086992 0.000000e+00 817.0
29 TraesCS7D01G439400 chr3D 95.276 508 23 1 3126 3633 553238889 553239395 0.000000e+00 804.0
30 TraesCS7D01G439400 chr3D 91.974 461 25 7 142 601 590673998 590674447 1.420000e-178 636.0
31 TraesCS7D01G439400 chr3D 97.183 142 3 1 1 142 590673829 590673969 4.690000e-59 239.0
32 TraesCS7D01G439400 chr4D 89.701 602 32 5 28 601 68487989 68487390 0.000000e+00 741.0
33 TraesCS7D01G439400 chr4D 95.342 365 14 3 3119 3483 112069894 112069533 8.750000e-161 577.0
34 TraesCS7D01G439400 chr2B 95.133 452 12 5 2677 3125 406043023 406042579 0.000000e+00 704.0
35 TraesCS7D01G439400 chr2B 78.601 243 39 10 2677 2913 263689708 263689943 8.130000e-32 148.0
36 TraesCS7D01G439400 chr1A 88.069 461 52 3 142 601 1203845 1204303 8.870000e-151 544.0
37 TraesCS7D01G439400 chr1A 94.928 138 4 1 4 141 1203681 1203815 2.840000e-51 213.0
38 TraesCS7D01G439400 chr1A 78.289 152 24 9 2181 2327 551156481 551156334 5.000000e-14 89.8
39 TraesCS7D01G439400 chr4A 88.112 286 32 2 317 601 729046148 729046432 4.490000e-89 339.0
40 TraesCS7D01G439400 chr4A 90.419 167 15 1 142 308 729044707 729044872 6.110000e-53 219.0
41 TraesCS7D01G439400 chr4A 94.928 138 4 1 4 141 729044543 729044677 2.840000e-51 213.0
42 TraesCS7D01G439400 chr5A 93.396 212 14 0 2677 2888 452074965 452074754 7.570000e-82 315.0
43 TraesCS7D01G439400 chr5A 88.845 251 12 6 2886 3125 452070274 452070029 9.870000e-76 294.0
44 TraesCS7D01G439400 chr5A 83.673 196 12 9 2839 3015 118775064 118774870 2.240000e-37 167.0
45 TraesCS7D01G439400 chr1B 78.289 152 24 9 2181 2327 630466427 630466280 5.000000e-14 89.8


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 TraesCS7D01G439400 chr7D 559104261 559107893 3632 False 6709.00 6709 100.0000 1 3633 1 chr7D.!!$F2 3632
1 TraesCS7D01G439400 chr7D 559225309 559227030 1721 False 2296.00 2296 90.7320 860 2595 1 chr7D.!!$F3 1735
2 TraesCS7D01G439400 chr7D 36416448 36416949 501 True 839.00 839 96.8190 3124 3625 1 chr7D.!!$R1 501
3 TraesCS7D01G439400 chr7D 454501195 454501697 502 True 833.00 833 96.4500 3127 3633 1 chr7D.!!$R2 506
4 TraesCS7D01G439400 chr7D 111851632 111852137 505 False 821.00 821 95.8660 3126 3633 1 chr7D.!!$F1 507
5 TraesCS7D01G439400 chr7D 530646142 530646767 625 False 457.50 680 94.9855 1 601 2 chr7D.!!$F4 600
6 TraesCS7D01G439400 chr7B 607280234 607282141 1907 False 2939.00 2939 94.4730 693 2602 1 chr7B.!!$F4 1909
7 TraesCS7D01G439400 chr7B 607171723 607173250 1527 False 2335.00 2335 94.3210 1043 2564 1 chr7B.!!$F3 1521
8 TraesCS7D01G439400 chr7B 718953922 718955122 1200 False 219.85 385 93.9350 2677 3125 2 chr7B.!!$F5 448
9 TraesCS7D01G439400 chr7A 643991285 643993761 2476 False 1466.00 2728 90.8190 602 2595 2 chr7A.!!$F1 1993
10 TraesCS7D01G439400 chr6B 276302565 276304035 1470 True 2063.00 2063 91.9190 1101 2584 1 chr6B.!!$R1 1483
11 TraesCS7D01G439400 chr2D 114640175 114640776 601 True 1083.00 1083 99.1690 1 601 1 chr2D.!!$R1 600
12 TraesCS7D01G439400 chr2D 588237757 588238263 506 True 859.00 859 97.2440 3126 3633 1 chr2D.!!$R3 507
13 TraesCS7D01G439400 chr6A 191662756 191663519 763 False 935.00 935 88.8180 966 1742 1 chr6A.!!$F1 776
14 TraesCS7D01G439400 chr1D 100880357 100881293 936 False 530.50 839 95.3230 3111 3633 2 chr1D.!!$F1 522
15 TraesCS7D01G439400 chr3D 580280641 580281149 508 False 819.00 819 95.6780 3125 3633 1 chr3D.!!$F2 508
16 TraesCS7D01G439400 chr3D 611086490 611086992 502 False 817.00 817 96.0240 3132 3633 1 chr3D.!!$F3 501
17 TraesCS7D01G439400 chr3D 553238889 553239395 506 False 804.00 804 95.2760 3126 3633 1 chr3D.!!$F1 507
18 TraesCS7D01G439400 chr3D 590673829 590674447 618 False 437.50 636 94.5785 1 601 2 chr3D.!!$F4 600
19 TraesCS7D01G439400 chr4D 68487390 68487989 599 True 741.00 741 89.7010 28 601 1 chr4D.!!$R1 573
20 TraesCS7D01G439400 chr1A 1203681 1204303 622 False 378.50 544 91.4985 4 601 2 chr1A.!!$F1 597
21 TraesCS7D01G439400 chr4A 729044543 729046432 1889 False 257.00 339 91.1530 4 601 3 chr4A.!!$F1 597

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
869 2643 0.106918 GTATCCCCATCCAACGGCAA 60.107 55.0 0.0 0.0 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2694 4512 0.105453 GGCATGGGTCTCCTCCTCTA 60.105 60.0 0.0 0.0 0.0 2.43 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
537 1835 5.485353 TGATCCAGTCCATTCCTGTATATCC 59.515 44.000 0.00 0.00 0.00 2.59
590 1888 1.754803 CCTAACGGATGGTAGCACTGA 59.245 52.381 0.00 0.00 0.00 3.41
621 1919 3.580458 CCATACCAGTTAGGCTCATAGCT 59.420 47.826 0.00 0.00 41.99 3.32
623 1921 2.540265 CCAGTTAGGCTCATAGCTGG 57.460 55.000 9.41 9.41 44.46 4.85
626 1924 4.142609 CAGTTAGGCTCATAGCTGGAAA 57.857 45.455 0.00 0.00 41.99 3.13
627 1925 4.517285 CAGTTAGGCTCATAGCTGGAAAA 58.483 43.478 0.00 0.00 41.99 2.29
650 1952 6.817765 AAAGATAGGAAAATCGCTGTCAAA 57.182 33.333 0.00 0.00 0.00 2.69
652 1954 6.183309 AGATAGGAAAATCGCTGTCAAAAC 57.817 37.500 0.00 0.00 0.00 2.43
681 1983 1.534729 ACATGCCGAAACCCTTCTTC 58.465 50.000 0.00 0.00 0.00 2.87
687 1989 3.263425 TGCCGAAACCCTTCTTCTAATCT 59.737 43.478 0.00 0.00 0.00 2.40
689 1991 4.095036 GCCGAAACCCTTCTTCTAATCTTG 59.905 45.833 0.00 0.00 0.00 3.02
758 2060 1.727857 CGTTCAAGCGGGTAAATGCAC 60.728 52.381 0.00 0.00 0.00 4.57
772 2074 4.346734 AAATGCACGTTTCAGATGCTAG 57.653 40.909 0.00 0.00 40.13 3.42
773 2075 1.725641 TGCACGTTTCAGATGCTAGG 58.274 50.000 0.00 0.00 40.13 3.02
774 2076 1.275010 TGCACGTTTCAGATGCTAGGA 59.725 47.619 0.00 0.00 40.13 2.94
775 2077 2.289382 TGCACGTTTCAGATGCTAGGAA 60.289 45.455 0.00 0.00 40.13 3.36
776 2078 2.939103 GCACGTTTCAGATGCTAGGAAT 59.061 45.455 0.00 0.00 36.40 3.01
778 2080 4.142600 GCACGTTTCAGATGCTAGGAATTT 60.143 41.667 0.00 0.00 36.40 1.82
779 2081 5.327091 CACGTTTCAGATGCTAGGAATTTG 58.673 41.667 0.00 0.00 0.00 2.32
781 2083 5.106555 ACGTTTCAGATGCTAGGAATTTGTG 60.107 40.000 0.00 0.00 0.00 3.33
869 2643 0.106918 GTATCCCCATCCAACGGCAA 60.107 55.000 0.00 0.00 0.00 4.52
902 2676 1.226575 CTACCGCAAGCGATGACGA 60.227 57.895 16.97 0.00 42.83 4.20
903 2677 1.472276 CTACCGCAAGCGATGACGAC 61.472 60.000 16.97 0.00 42.83 4.34
904 2678 2.202703 TACCGCAAGCGATGACGACA 62.203 55.000 16.97 0.00 42.83 4.35
936 2712 4.435436 CCGTGCAGGAGTAGCGCA 62.435 66.667 11.47 0.00 45.00 6.09
1090 2900 2.943690 TCGAAGACAAGATAGTCTCCGG 59.056 50.000 0.00 0.00 44.97 5.14
1091 2901 3.621709 TCGAAGACAAGATAGTCTCCGGT 60.622 47.826 0.00 0.00 44.97 5.28
1092 2902 5.689375 TCGAAGACAAGATAGTCTCCGGTG 61.689 50.000 0.00 0.00 44.97 4.94
1093 2903 1.751924 AGACAAGATAGTCTCCGGTGC 59.248 52.381 0.00 0.00 45.35 5.01
1094 2904 0.456221 ACAAGATAGTCTCCGGTGCG 59.544 55.000 0.00 0.00 0.00 5.34
1095 2905 0.872021 CAAGATAGTCTCCGGTGCGC 60.872 60.000 0.00 0.00 0.00 6.09
1098 2908 1.725557 GATAGTCTCCGGTGCGCTCA 61.726 60.000 9.73 0.00 0.00 4.26
1099 2909 1.109920 ATAGTCTCCGGTGCGCTCAT 61.110 55.000 9.73 0.00 0.00 2.90
1100 2910 1.725557 TAGTCTCCGGTGCGCTCATC 61.726 60.000 9.73 0.00 0.00 2.92
1102 2912 4.147449 CTCCGGTGCGCTCATCCA 62.147 66.667 9.73 0.00 0.00 3.41
1104 2914 2.969238 CCGGTGCGCTCATCCATC 60.969 66.667 9.73 0.00 0.00 3.51
1106 2916 2.507944 GGTGCGCTCATCCATCCT 59.492 61.111 9.73 0.00 0.00 3.24
1107 2917 1.596477 GGTGCGCTCATCCATCCTC 60.596 63.158 9.73 0.00 0.00 3.71
1108 2918 1.445095 GTGCGCTCATCCATCCTCT 59.555 57.895 9.73 0.00 0.00 3.69
1110 2920 0.105593 TGCGCTCATCCATCCTCTTC 59.894 55.000 9.73 0.00 0.00 2.87
1111 2921 0.602372 GCGCTCATCCATCCTCTTCC 60.602 60.000 0.00 0.00 0.00 3.46
1112 2922 0.755079 CGCTCATCCATCCTCTTCCA 59.245 55.000 0.00 0.00 0.00 3.53
1400 3210 3.751246 TACGTGGAGGCGTTCGGG 61.751 66.667 0.00 0.00 43.04 5.14
1707 3523 1.345415 TCTTCACCAACCTTACGGACC 59.655 52.381 0.00 0.00 0.00 4.46
2125 3941 4.704833 CCTGTGGGTGGTGCGGAG 62.705 72.222 0.00 0.00 0.00 4.63
2426 4242 2.435805 GAGGTGCCTGGAACTGATCATA 59.564 50.000 4.46 0.00 0.00 2.15
2495 4311 2.429739 GCGAAGTTGCAGCAAGCC 60.430 61.111 8.49 0.00 44.83 4.35
2552 4368 3.895041 GGACTTTCCTTGACCAATTTCCA 59.105 43.478 0.00 0.00 32.53 3.53
2553 4369 4.528206 GGACTTTCCTTGACCAATTTCCAT 59.472 41.667 0.00 0.00 32.53 3.41
2567 4383 7.945134 ACCAATTTCCATATGATGCTTAGAAC 58.055 34.615 3.65 0.00 0.00 3.01
2580 4396 8.437360 TGATGCTTAGAACCATTTATGTACTG 57.563 34.615 0.00 0.00 0.00 2.74
2603 4421 3.226346 CGTCCTCGTTTTGATCTACCA 57.774 47.619 0.00 0.00 0.00 3.25
2604 4422 3.179830 CGTCCTCGTTTTGATCTACCAG 58.820 50.000 0.00 0.00 0.00 4.00
2605 4423 3.367087 CGTCCTCGTTTTGATCTACCAGT 60.367 47.826 0.00 0.00 0.00 4.00
2606 4424 4.566987 GTCCTCGTTTTGATCTACCAGTT 58.433 43.478 0.00 0.00 0.00 3.16
2607 4425 4.995487 GTCCTCGTTTTGATCTACCAGTTT 59.005 41.667 0.00 0.00 0.00 2.66
2608 4426 5.469084 GTCCTCGTTTTGATCTACCAGTTTT 59.531 40.000 0.00 0.00 0.00 2.43
2609 4427 5.468746 TCCTCGTTTTGATCTACCAGTTTTG 59.531 40.000 0.00 0.00 0.00 2.44
2610 4428 5.103290 TCGTTTTGATCTACCAGTTTTGC 57.897 39.130 0.00 0.00 0.00 3.68
2611 4429 4.819630 TCGTTTTGATCTACCAGTTTTGCT 59.180 37.500 0.00 0.00 0.00 3.91
2612 4430 5.992829 TCGTTTTGATCTACCAGTTTTGCTA 59.007 36.000 0.00 0.00 0.00 3.49
2613 4431 6.483974 TCGTTTTGATCTACCAGTTTTGCTAA 59.516 34.615 0.00 0.00 0.00 3.09
2614 4432 6.797033 CGTTTTGATCTACCAGTTTTGCTAAG 59.203 38.462 0.00 0.00 0.00 2.18
2615 4433 7.519970 CGTTTTGATCTACCAGTTTTGCTAAGT 60.520 37.037 0.00 0.00 0.00 2.24
2616 4434 7.435068 TTTGATCTACCAGTTTTGCTAAGTC 57.565 36.000 0.00 0.00 0.00 3.01
2617 4435 6.360370 TGATCTACCAGTTTTGCTAAGTCT 57.640 37.500 0.00 0.00 0.00 3.24
2618 4436 6.398918 TGATCTACCAGTTTTGCTAAGTCTC 58.601 40.000 0.00 0.00 0.00 3.36
2619 4437 6.211584 TGATCTACCAGTTTTGCTAAGTCTCT 59.788 38.462 0.00 0.00 0.00 3.10
2620 4438 6.420913 TCTACCAGTTTTGCTAAGTCTCTT 57.579 37.500 0.00 0.00 0.00 2.85
2621 4439 6.827727 TCTACCAGTTTTGCTAAGTCTCTTT 58.172 36.000 0.00 0.00 0.00 2.52
2622 4440 7.280356 TCTACCAGTTTTGCTAAGTCTCTTTT 58.720 34.615 0.00 0.00 0.00 2.27
2623 4441 6.775594 ACCAGTTTTGCTAAGTCTCTTTTT 57.224 33.333 0.00 0.00 0.00 1.94
2648 4466 9.855021 TTTTTCGAGGATGAAAGGATTTTATTC 57.145 29.630 0.00 0.00 39.27 1.75
2649 4467 7.568199 TTCGAGGATGAAAGGATTTTATTCC 57.432 36.000 0.00 0.00 39.27 3.01
2650 4468 6.658849 TCGAGGATGAAAGGATTTTATTCCA 58.341 36.000 0.00 0.00 39.27 3.53
2651 4469 7.116075 TCGAGGATGAAAGGATTTTATTCCAA 58.884 34.615 0.00 0.00 39.27 3.53
2652 4470 7.283127 TCGAGGATGAAAGGATTTTATTCCAAG 59.717 37.037 0.00 0.00 39.27 3.61
2653 4471 7.067494 CGAGGATGAAAGGATTTTATTCCAAGT 59.933 37.037 0.00 0.00 39.27 3.16
2654 4472 8.670521 AGGATGAAAGGATTTTATTCCAAGTT 57.329 30.769 0.00 0.00 39.27 2.66
2655 4473 9.104713 AGGATGAAAGGATTTTATTCCAAGTTT 57.895 29.630 0.00 0.00 39.27 2.66
2660 4478 9.639601 GAAAGGATTTTATTCCAAGTTTACAGG 57.360 33.333 0.00 0.00 39.27 4.00
2661 4479 7.718334 AGGATTTTATTCCAAGTTTACAGGG 57.282 36.000 0.00 0.00 38.32 4.45
2662 4480 7.246027 AGGATTTTATTCCAAGTTTACAGGGT 58.754 34.615 0.00 0.00 38.32 4.34
2663 4481 7.733047 AGGATTTTATTCCAAGTTTACAGGGTT 59.267 33.333 0.00 0.00 38.32 4.11
2664 4482 9.027202 GGATTTTATTCCAAGTTTACAGGGTTA 57.973 33.333 0.00 0.00 35.72 2.85
2670 4488 7.852971 TTCCAAGTTTACAGGGTTATAATCG 57.147 36.000 0.00 0.00 0.00 3.34
2671 4489 7.185318 TCCAAGTTTACAGGGTTATAATCGA 57.815 36.000 0.00 0.00 0.00 3.59
2672 4490 7.270047 TCCAAGTTTACAGGGTTATAATCGAG 58.730 38.462 0.00 0.00 0.00 4.04
2673 4491 7.124599 TCCAAGTTTACAGGGTTATAATCGAGA 59.875 37.037 0.00 0.00 0.00 4.04
2674 4492 7.438459 CCAAGTTTACAGGGTTATAATCGAGAG 59.562 40.741 0.00 0.00 0.00 3.20
2675 4493 7.052142 AGTTTACAGGGTTATAATCGAGAGG 57.948 40.000 0.00 0.00 0.00 3.69
2678 4496 3.069729 ACAGGGTTATAATCGAGAGGCAC 59.930 47.826 0.00 0.00 0.00 5.01
2681 4499 3.306818 GGTTATAATCGAGAGGCACGAC 58.693 50.000 0.00 0.00 42.37 4.34
2691 4509 2.189521 GGCACGACCCTACCCATG 59.810 66.667 0.00 0.00 0.00 3.66
2717 4535 2.285368 AGGAGACCCATGCCCGAA 60.285 61.111 0.00 0.00 33.88 4.30
2749 4567 1.453197 CCGACCCAATAAGGCACCC 60.453 63.158 0.00 0.00 35.39 4.61
2805 4624 2.749044 AGACCGCTTGCATGCCTG 60.749 61.111 16.68 8.99 0.00 4.85
2818 4637 3.673599 GCCTGGAGTTTGGCTGTC 58.326 61.111 0.00 0.00 45.26 3.51
2830 4650 1.600916 GGCTGTCGTTGCCTTTCCT 60.601 57.895 8.38 0.00 46.38 3.36
2847 4668 0.105039 CCTCTGTACCGATGCCCTTC 59.895 60.000 0.00 0.00 0.00 3.46
2857 4678 2.558380 GATGCCCTTCCGCCTCCTTT 62.558 60.000 0.00 0.00 0.00 3.11
2870 4691 3.991121 CGCCTCCTTTTATAGCTAAGCTC 59.009 47.826 0.00 0.00 40.44 4.09
2914 4735 2.353406 GCGAGGTGGTACTAAAAGAGCA 60.353 50.000 0.00 0.00 0.00 4.26
2932 4760 1.303317 ACCTCCCATTCGTTGCCAC 60.303 57.895 0.00 0.00 0.00 5.01
2971 4799 1.878775 GTGCATGACCTTCAGCCAC 59.121 57.895 0.00 0.00 0.00 5.01
2973 4801 0.607217 TGCATGACCTTCAGCCACTG 60.607 55.000 0.00 0.00 0.00 3.66
3004 4832 2.817665 AGGCCGAACTAGTACTCCTTT 58.182 47.619 0.00 0.00 0.00 3.11
3005 4833 3.171528 AGGCCGAACTAGTACTCCTTTT 58.828 45.455 0.00 0.00 0.00 2.27
3007 4835 4.961099 AGGCCGAACTAGTACTCCTTTTAT 59.039 41.667 0.00 0.00 0.00 1.40
3010 4838 6.922407 GGCCGAACTAGTACTCCTTTTATTAG 59.078 42.308 0.00 0.00 0.00 1.73
3011 4839 6.922407 GCCGAACTAGTACTCCTTTTATTAGG 59.078 42.308 0.00 0.00 36.59 2.69
3013 4841 7.201893 CCGAACTAGTACTCCTTTTATTAGGCT 60.202 40.741 0.00 0.00 35.15 4.58
3014 4842 7.648510 CGAACTAGTACTCCTTTTATTAGGCTG 59.351 40.741 0.00 0.00 35.15 4.85
3017 4845 8.476447 ACTAGTACTCCTTTTATTAGGCTGAAC 58.524 37.037 0.00 0.00 35.15 3.18
3018 4846 7.497773 AGTACTCCTTTTATTAGGCTGAACT 57.502 36.000 0.00 0.00 35.15 3.01
3019 4847 8.605325 AGTACTCCTTTTATTAGGCTGAACTA 57.395 34.615 0.00 0.00 35.15 2.24
3020 4848 9.043548 AGTACTCCTTTTATTAGGCTGAACTAA 57.956 33.333 0.00 0.00 37.35 2.24
3021 4849 9.096160 GTACTCCTTTTATTAGGCTGAACTAAC 57.904 37.037 0.00 0.00 35.90 2.34
3022 4850 7.919151 ACTCCTTTTATTAGGCTGAACTAACT 58.081 34.615 0.00 0.00 35.90 2.24
3023 4851 8.041919 ACTCCTTTTATTAGGCTGAACTAACTC 58.958 37.037 0.00 0.00 35.90 3.01
3024 4852 8.147244 TCCTTTTATTAGGCTGAACTAACTCT 57.853 34.615 0.00 0.00 35.90 3.24
3025 4853 8.041323 TCCTTTTATTAGGCTGAACTAACTCTG 58.959 37.037 0.00 0.00 35.90 3.35
3026 4854 8.041323 CCTTTTATTAGGCTGAACTAACTCTGA 58.959 37.037 0.00 0.00 35.90 3.27
3027 4855 9.092876 CTTTTATTAGGCTGAACTAACTCTGAG 57.907 37.037 2.45 2.45 35.90 3.35
3028 4856 7.956328 TTATTAGGCTGAACTAACTCTGAGA 57.044 36.000 12.44 0.00 35.90 3.27
3029 4857 8.540507 TTATTAGGCTGAACTAACTCTGAGAT 57.459 34.615 12.44 1.53 35.90 2.75
3030 4858 4.734398 AGGCTGAACTAACTCTGAGATG 57.266 45.455 12.44 3.48 0.00 2.90
3031 4859 3.450457 AGGCTGAACTAACTCTGAGATGG 59.550 47.826 12.44 4.05 0.00 3.51
3032 4860 3.431486 GGCTGAACTAACTCTGAGATGGG 60.431 52.174 12.44 0.34 0.00 4.00
3033 4861 3.791245 CTGAACTAACTCTGAGATGGGC 58.209 50.000 12.44 0.00 0.00 5.36
3034 4862 2.501723 TGAACTAACTCTGAGATGGGCC 59.498 50.000 12.44 0.00 0.00 5.80
3035 4863 2.559381 ACTAACTCTGAGATGGGCCT 57.441 50.000 12.44 0.00 0.00 5.19
3036 4864 2.839228 ACTAACTCTGAGATGGGCCTT 58.161 47.619 12.44 0.00 0.00 4.35
3037 4865 3.995636 ACTAACTCTGAGATGGGCCTTA 58.004 45.455 12.44 0.00 0.00 2.69
3038 4866 4.561752 ACTAACTCTGAGATGGGCCTTAT 58.438 43.478 12.44 0.00 0.00 1.73
3039 4867 4.591072 ACTAACTCTGAGATGGGCCTTATC 59.409 45.833 12.44 6.03 0.00 1.75
3040 4868 3.051940 ACTCTGAGATGGGCCTTATCA 57.948 47.619 15.04 15.04 0.00 2.15
3041 4869 2.703007 ACTCTGAGATGGGCCTTATCAC 59.297 50.000 12.24 14.09 0.00 3.06
3042 4870 2.702478 CTCTGAGATGGGCCTTATCACA 59.298 50.000 12.24 16.96 0.00 3.58
3043 4871 3.114606 TCTGAGATGGGCCTTATCACAA 58.885 45.455 12.24 2.15 0.00 3.33
3044 4872 3.523157 TCTGAGATGGGCCTTATCACAAA 59.477 43.478 12.24 6.60 0.00 2.83
3045 4873 3.620488 TGAGATGGGCCTTATCACAAAC 58.380 45.455 12.24 8.15 0.00 2.93
3046 4874 3.010027 TGAGATGGGCCTTATCACAAACA 59.990 43.478 12.24 9.89 0.00 2.83
3047 4875 4.210331 GAGATGGGCCTTATCACAAACAT 58.790 43.478 18.51 3.84 0.00 2.71
3048 4876 3.956199 AGATGGGCCTTATCACAAACATG 59.044 43.478 18.51 0.00 0.00 3.21
3049 4877 1.824230 TGGGCCTTATCACAAACATGC 59.176 47.619 4.53 0.00 0.00 4.06
3050 4878 1.824230 GGGCCTTATCACAAACATGCA 59.176 47.619 0.84 0.00 0.00 3.96
3051 4879 2.431782 GGGCCTTATCACAAACATGCAT 59.568 45.455 0.84 0.00 0.00 3.96
3052 4880 3.450578 GGCCTTATCACAAACATGCATG 58.549 45.455 25.09 25.09 0.00 4.06
3053 4881 2.861935 GCCTTATCACAAACATGCATGC 59.138 45.455 26.53 11.82 0.00 4.06
3054 4882 3.676598 GCCTTATCACAAACATGCATGCA 60.677 43.478 26.53 25.04 0.00 3.96
3055 4883 4.689071 CCTTATCACAAACATGCATGCAT 58.311 39.130 27.46 27.46 37.08 3.96
3056 4884 5.736777 GCCTTATCACAAACATGCATGCATA 60.737 40.000 31.73 15.76 34.91 3.14
3057 4885 5.688621 CCTTATCACAAACATGCATGCATAC 59.311 40.000 31.73 0.00 34.91 2.39
3058 4886 4.994907 ATCACAAACATGCATGCATACT 57.005 36.364 31.73 18.96 34.91 2.12
3059 4887 4.359971 TCACAAACATGCATGCATACTC 57.640 40.909 31.73 0.00 34.91 2.59
3060 4888 3.129113 TCACAAACATGCATGCATACTCC 59.871 43.478 31.73 0.00 34.91 3.85
3061 4889 3.090790 ACAAACATGCATGCATACTCCA 58.909 40.909 31.73 3.08 34.91 3.86
3062 4890 3.702548 ACAAACATGCATGCATACTCCAT 59.297 39.130 31.73 13.79 34.91 3.41
3063 4891 4.202080 ACAAACATGCATGCATACTCCATC 60.202 41.667 31.73 0.00 34.91 3.51
3064 4892 2.148768 ACATGCATGCATACTCCATCG 58.851 47.619 31.73 19.01 34.91 3.84
3065 4893 2.148768 CATGCATGCATACTCCATCGT 58.851 47.619 31.73 4.96 34.91 3.73
3066 4894 2.330440 TGCATGCATACTCCATCGTT 57.670 45.000 18.46 0.00 0.00 3.85
3067 4895 3.467374 TGCATGCATACTCCATCGTTA 57.533 42.857 18.46 0.00 0.00 3.18
3068 4896 3.392882 TGCATGCATACTCCATCGTTAG 58.607 45.455 18.46 0.00 0.00 2.34
3069 4897 3.181466 TGCATGCATACTCCATCGTTAGT 60.181 43.478 18.46 0.00 0.00 2.24
3070 4898 3.185188 GCATGCATACTCCATCGTTAGTG 59.815 47.826 14.21 0.00 0.00 2.74
3071 4899 2.821546 TGCATACTCCATCGTTAGTGC 58.178 47.619 0.00 0.00 0.00 4.40
3072 4900 2.167487 TGCATACTCCATCGTTAGTGCA 59.833 45.455 0.00 0.00 0.00 4.57
3073 4901 2.797156 GCATACTCCATCGTTAGTGCAG 59.203 50.000 0.00 0.00 0.00 4.41
3074 4902 2.579207 TACTCCATCGTTAGTGCAGC 57.421 50.000 0.00 0.00 0.00 5.25
3075 4903 0.458543 ACTCCATCGTTAGTGCAGCG 60.459 55.000 0.00 0.00 0.00 5.18
3076 4904 0.458543 CTCCATCGTTAGTGCAGCGT 60.459 55.000 0.00 0.00 31.98 5.07
3077 4905 0.037697 TCCATCGTTAGTGCAGCGTT 60.038 50.000 0.00 0.00 31.98 4.84
3078 4906 0.370273 CCATCGTTAGTGCAGCGTTC 59.630 55.000 0.00 0.00 31.98 3.95
3079 4907 1.067693 CATCGTTAGTGCAGCGTTCA 58.932 50.000 0.00 0.00 31.98 3.18
3080 4908 1.068474 ATCGTTAGTGCAGCGTTCAC 58.932 50.000 0.00 0.00 31.98 3.18
3081 4909 0.031585 TCGTTAGTGCAGCGTTCACT 59.968 50.000 11.96 11.96 45.71 3.41
3082 4910 1.267533 TCGTTAGTGCAGCGTTCACTA 59.732 47.619 10.34 10.34 43.75 2.74
3101 4929 1.506262 AAAAATGCTACCGCCAGCG 59.494 52.632 4.75 4.75 44.88 5.18
3102 4930 1.241315 AAAAATGCTACCGCCAGCGT 61.241 50.000 11.55 2.03 44.88 5.07
3103 4931 2.046314 AATGCTACCGCCAGCGTT 60.046 55.556 11.55 7.82 44.88 4.84
3104 4932 2.398554 AATGCTACCGCCAGCGTTG 61.399 57.895 11.55 0.00 46.46 4.10
3107 4935 4.388499 CTACCGCCAGCGTTGGGT 62.388 66.667 20.66 12.50 45.16 4.51
3108 4936 3.894547 CTACCGCCAGCGTTGGGTT 62.895 63.158 20.66 1.34 45.16 4.11
3111 4939 3.591835 CGCCAGCGTTGGGTTGTT 61.592 61.111 20.66 0.00 45.16 2.83
3112 4940 2.335011 GCCAGCGTTGGGTTGTTC 59.665 61.111 20.66 0.00 45.16 3.18
3113 4941 2.193536 GCCAGCGTTGGGTTGTTCT 61.194 57.895 20.66 0.00 45.16 3.01
3114 4942 0.887387 GCCAGCGTTGGGTTGTTCTA 60.887 55.000 20.66 0.00 45.16 2.10
3115 4943 1.600023 CCAGCGTTGGGTTGTTCTAA 58.400 50.000 10.99 0.00 41.05 2.10
3116 4944 1.265905 CCAGCGTTGGGTTGTTCTAAC 59.734 52.381 10.99 0.00 41.05 2.34
3121 4949 5.048991 CAGCGTTGGGTTGTTCTAACTAAAT 60.049 40.000 0.00 0.00 0.00 1.40
3122 4950 5.533528 AGCGTTGGGTTGTTCTAACTAAATT 59.466 36.000 0.00 0.00 0.00 1.82
3287 5154 8.280497 GCCGACGTCATATATTTATTCTGTTTT 58.720 33.333 17.16 0.00 0.00 2.43
3566 5789 1.813513 AGGGACATCTGCTTGTTTCG 58.186 50.000 0.00 0.00 0.00 3.46
3568 5791 1.610624 GGGACATCTGCTTGTTTCGGA 60.611 52.381 0.00 0.00 0.00 4.55
3592 5815 8.084684 GGATAGAACAATTTCTCACTTTTTGCT 58.915 33.333 0.00 0.00 41.48 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
537 1835 7.751348 GGTGATACAAGACTATATAGAGCGTTG 59.249 40.741 16.79 14.06 0.00 4.10
590 1888 6.922540 AGCCTAACTGGTATGGGAAAATATT 58.077 36.000 0.00 0.00 38.35 1.28
626 1924 6.817765 TTGACAGCGATTTTCCTATCTTTT 57.182 33.333 0.00 0.00 0.00 2.27
627 1925 6.817765 TTTGACAGCGATTTTCCTATCTTT 57.182 33.333 0.00 0.00 0.00 2.52
629 1927 5.163854 CGTTTTGACAGCGATTTTCCTATCT 60.164 40.000 0.00 0.00 0.00 1.98
635 1937 4.733405 AGTTTCGTTTTGACAGCGATTTTC 59.267 37.500 0.00 0.00 34.52 2.29
650 1952 4.555348 TTCGGCATGTTTTAGTTTCGTT 57.445 36.364 0.00 0.00 0.00 3.85
652 1954 3.666797 GGTTTCGGCATGTTTTAGTTTCG 59.333 43.478 0.00 0.00 0.00 3.46
681 1983 8.395633 CGTTAGGGGTCAAAATAACAAGATTAG 58.604 37.037 0.00 0.00 0.00 1.73
687 1989 6.478129 AGATCGTTAGGGGTCAAAATAACAA 58.522 36.000 0.00 0.00 0.00 2.83
689 1991 5.233689 CGAGATCGTTAGGGGTCAAAATAAC 59.766 44.000 0.00 0.00 34.11 1.89
716 2018 4.551603 CGAGGATCATCATGTTTTTCTCGC 60.552 45.833 8.28 0.00 35.88 5.03
758 2060 5.327091 CACAAATTCCTAGCATCTGAAACG 58.673 41.667 0.00 0.00 0.00 3.60
772 2074 4.668289 CTGCGTAATTACCCACAAATTCC 58.332 43.478 10.01 0.00 0.00 3.01
773 2075 4.102649 GCTGCGTAATTACCCACAAATTC 58.897 43.478 10.01 0.00 0.00 2.17
774 2076 3.426963 CGCTGCGTAATTACCCACAAATT 60.427 43.478 14.93 0.00 0.00 1.82
775 2077 2.096819 CGCTGCGTAATTACCCACAAAT 59.903 45.455 14.93 0.00 0.00 2.32
776 2078 1.465387 CGCTGCGTAATTACCCACAAA 59.535 47.619 14.93 0.00 0.00 2.83
778 2080 0.037139 ACGCTGCGTAATTACCCACA 60.037 50.000 27.89 5.43 38.73 4.17
779 2081 0.648958 GACGCTGCGTAATTACCCAC 59.351 55.000 29.03 8.36 41.37 4.61
781 2083 1.206523 GAGACGCTGCGTAATTACCC 58.793 55.000 29.03 13.57 41.37 3.69
869 2643 0.743097 GGTAGCGATACTTGACCCGT 59.257 55.000 11.10 0.00 0.00 5.28
902 2676 3.598019 ACGGTGTAATTACGGTGATGT 57.402 42.857 10.92 1.41 33.56 3.06
936 2712 1.779092 TCTAGGTAGGATAGGCACGGT 59.221 52.381 0.00 0.00 0.00 4.83
1090 2900 0.179062 AAGAGGATGGATGAGCGCAC 60.179 55.000 11.47 3.13 0.00 5.34
1091 2901 0.105593 GAAGAGGATGGATGAGCGCA 59.894 55.000 11.47 0.00 0.00 6.09
1092 2902 0.602372 GGAAGAGGATGGATGAGCGC 60.602 60.000 0.00 0.00 0.00 5.92
1093 2903 0.755079 TGGAAGAGGATGGATGAGCG 59.245 55.000 0.00 0.00 0.00 5.03
1094 2904 2.290197 GGATGGAAGAGGATGGATGAGC 60.290 54.545 0.00 0.00 0.00 4.26
1095 2905 2.977580 TGGATGGAAGAGGATGGATGAG 59.022 50.000 0.00 0.00 0.00 2.90
1154 2964 2.763215 GGGTTGATGTGGCCCTGA 59.237 61.111 0.00 0.00 39.31 3.86
1217 3027 4.400109 GCCGAGAGCGTGACACGA 62.400 66.667 31.08 0.00 46.05 4.35
1371 3181 1.153823 CCACGTACCTCTCCGCTTG 60.154 63.158 0.00 0.00 0.00 4.01
1707 3523 1.562575 AACGCCGCAACTAACCTTCG 61.563 55.000 0.00 0.00 0.00 3.79
1942 3758 2.099921 TCAAAGAGATCTCCTACTGCGC 59.900 50.000 19.30 0.00 0.00 6.09
2125 3941 0.166814 GCCATCGTCTCTGTTGTTGC 59.833 55.000 0.00 0.00 0.00 4.17
2336 4152 4.489771 CCGATGCCCCACTGGACC 62.490 72.222 0.00 0.00 35.39 4.46
2366 4182 1.897802 AGAACCCTATCAACGTCGGTT 59.102 47.619 0.00 0.00 39.50 4.44
2426 4242 2.452114 CCCTCCTCCCTGTCACCT 59.548 66.667 0.00 0.00 0.00 4.00
2540 4356 7.289310 TCTAAGCATCATATGGAAATTGGTCA 58.711 34.615 2.13 0.00 0.00 4.02
2550 4366 9.017509 ACATAAATGGTTCTAAGCATCATATGG 57.982 33.333 25.16 16.31 45.54 2.74
2567 4383 4.974275 CGAGGACGTACAGTACATAAATGG 59.026 45.833 11.37 0.00 35.65 3.16
2596 4414 6.613153 AGAGACTTAGCAAAACTGGTAGAT 57.387 37.500 0.00 0.00 0.00 1.98
2622 4440 9.855021 GAATAAAATCCTTTCATCCTCGAAAAA 57.145 29.630 0.00 0.00 34.59 1.94
2623 4441 8.466798 GGAATAAAATCCTTTCATCCTCGAAAA 58.533 33.333 0.00 0.00 34.59 2.29
2624 4442 7.613801 TGGAATAAAATCCTTTCATCCTCGAAA 59.386 33.333 0.00 0.00 40.35 3.46
2625 4443 7.116075 TGGAATAAAATCCTTTCATCCTCGAA 58.884 34.615 0.00 0.00 40.35 3.71
2626 4444 6.658849 TGGAATAAAATCCTTTCATCCTCGA 58.341 36.000 0.00 0.00 40.35 4.04
2627 4445 6.942532 TGGAATAAAATCCTTTCATCCTCG 57.057 37.500 0.00 0.00 40.35 4.63
2628 4446 8.298729 ACTTGGAATAAAATCCTTTCATCCTC 57.701 34.615 0.00 0.00 40.35 3.71
2629 4447 8.670521 AACTTGGAATAAAATCCTTTCATCCT 57.329 30.769 0.00 0.00 40.35 3.24
2634 4452 9.639601 CCTGTAAACTTGGAATAAAATCCTTTC 57.360 33.333 0.00 0.00 40.35 2.62
2635 4453 8.593679 CCCTGTAAACTTGGAATAAAATCCTTT 58.406 33.333 0.00 0.00 40.35 3.11
2636 4454 7.733047 ACCCTGTAAACTTGGAATAAAATCCTT 59.267 33.333 0.00 0.00 40.35 3.36
2637 4455 7.246027 ACCCTGTAAACTTGGAATAAAATCCT 58.754 34.615 0.00 0.00 40.35 3.24
2638 4456 7.476540 ACCCTGTAAACTTGGAATAAAATCC 57.523 36.000 0.00 0.00 40.10 3.01
2644 4462 9.550406 CGATTATAACCCTGTAAACTTGGAATA 57.450 33.333 0.00 0.00 0.00 1.75
2645 4463 8.269317 TCGATTATAACCCTGTAAACTTGGAAT 58.731 33.333 0.00 0.00 0.00 3.01
2646 4464 7.622713 TCGATTATAACCCTGTAAACTTGGAA 58.377 34.615 0.00 0.00 0.00 3.53
2647 4465 7.124599 TCTCGATTATAACCCTGTAAACTTGGA 59.875 37.037 0.00 0.00 0.00 3.53
2648 4466 7.270047 TCTCGATTATAACCCTGTAAACTTGG 58.730 38.462 0.00 0.00 0.00 3.61
2649 4467 7.438459 CCTCTCGATTATAACCCTGTAAACTTG 59.562 40.741 0.00 0.00 0.00 3.16
2650 4468 7.498443 CCTCTCGATTATAACCCTGTAAACTT 58.502 38.462 0.00 0.00 0.00 2.66
2651 4469 6.462628 GCCTCTCGATTATAACCCTGTAAACT 60.463 42.308 0.00 0.00 0.00 2.66
2652 4470 5.695363 GCCTCTCGATTATAACCCTGTAAAC 59.305 44.000 0.00 0.00 0.00 2.01
2653 4471 5.364446 TGCCTCTCGATTATAACCCTGTAAA 59.636 40.000 0.00 0.00 0.00 2.01
2654 4472 4.897076 TGCCTCTCGATTATAACCCTGTAA 59.103 41.667 0.00 0.00 0.00 2.41
2655 4473 4.280174 GTGCCTCTCGATTATAACCCTGTA 59.720 45.833 0.00 0.00 0.00 2.74
2656 4474 3.069729 GTGCCTCTCGATTATAACCCTGT 59.930 47.826 0.00 0.00 0.00 4.00
2657 4475 3.654414 GTGCCTCTCGATTATAACCCTG 58.346 50.000 0.00 0.00 0.00 4.45
2658 4476 2.296471 CGTGCCTCTCGATTATAACCCT 59.704 50.000 0.00 0.00 0.00 4.34
2659 4477 2.295349 TCGTGCCTCTCGATTATAACCC 59.705 50.000 0.00 0.00 32.30 4.11
2660 4478 3.306818 GTCGTGCCTCTCGATTATAACC 58.693 50.000 0.00 0.00 39.45 2.85
2661 4479 3.306818 GGTCGTGCCTCTCGATTATAAC 58.693 50.000 0.00 0.00 39.45 1.89
2662 4480 2.295349 GGGTCGTGCCTCTCGATTATAA 59.705 50.000 0.00 0.00 39.45 0.98
2663 4481 1.884579 GGGTCGTGCCTCTCGATTATA 59.115 52.381 0.00 0.00 39.45 0.98
2664 4482 0.674534 GGGTCGTGCCTCTCGATTAT 59.325 55.000 0.00 0.00 39.45 1.28
2665 4483 0.395311 AGGGTCGTGCCTCTCGATTA 60.395 55.000 0.00 0.00 39.45 1.75
2666 4484 0.395311 TAGGGTCGTGCCTCTCGATT 60.395 55.000 0.00 0.00 39.45 3.34
2667 4485 1.102222 GTAGGGTCGTGCCTCTCGAT 61.102 60.000 0.00 0.00 39.45 3.59
2668 4486 1.748122 GTAGGGTCGTGCCTCTCGA 60.748 63.158 0.00 0.00 37.43 4.04
2669 4487 2.772691 GGTAGGGTCGTGCCTCTCG 61.773 68.421 0.00 0.00 37.43 4.04
2670 4488 2.424733 GGGTAGGGTCGTGCCTCTC 61.425 68.421 0.00 0.00 37.43 3.20
2671 4489 2.363925 GGGTAGGGTCGTGCCTCT 60.364 66.667 0.00 0.00 37.43 3.69
2672 4490 2.064581 ATGGGTAGGGTCGTGCCTC 61.065 63.158 0.00 0.00 37.43 4.70
2673 4491 2.040606 ATGGGTAGGGTCGTGCCT 59.959 61.111 0.00 0.00 37.43 4.75
2674 4492 2.189521 CATGGGTAGGGTCGTGCC 59.810 66.667 0.00 0.00 0.00 5.01
2675 4493 2.189521 CCATGGGTAGGGTCGTGC 59.810 66.667 2.85 0.00 0.00 5.34
2694 4512 0.105453 GGCATGGGTCTCCTCCTCTA 60.105 60.000 0.00 0.00 0.00 2.43
2696 4514 2.447714 GGGCATGGGTCTCCTCCTC 61.448 68.421 0.00 0.00 0.00 3.71
2697 4515 2.367512 GGGCATGGGTCTCCTCCT 60.368 66.667 0.00 0.00 0.00 3.69
2698 4516 3.866582 CGGGCATGGGTCTCCTCC 61.867 72.222 0.00 0.00 0.00 4.30
2699 4517 2.367202 TTCGGGCATGGGTCTCCTC 61.367 63.158 0.00 0.00 0.00 3.71
2730 4548 1.453197 GGTGCCTTATTGGGTCGGG 60.453 63.158 0.00 0.00 36.00 5.14
2784 4603 1.286880 GCATGCAAGCGGTCTGTTT 59.713 52.632 14.21 0.00 0.00 2.83
2792 4611 1.870055 AAACTCCAGGCATGCAAGCG 61.870 55.000 21.36 4.65 34.64 4.68
2794 4613 0.245539 CCAAACTCCAGGCATGCAAG 59.754 55.000 21.36 12.94 0.00 4.01
2805 4624 1.282875 GCAACGACAGCCAAACTCC 59.717 57.895 0.00 0.00 0.00 3.85
2817 4636 1.001633 GGTACAGAGGAAAGGCAACGA 59.998 52.381 0.00 0.00 46.39 3.85
2818 4637 1.439679 GGTACAGAGGAAAGGCAACG 58.560 55.000 0.00 0.00 46.39 4.10
2824 4644 1.473434 GGGCATCGGTACAGAGGAAAG 60.473 57.143 11.89 0.00 0.00 2.62
2830 4650 1.672854 CGGAAGGGCATCGGTACAGA 61.673 60.000 0.00 0.00 0.00 3.41
2847 4668 3.067833 GCTTAGCTATAAAAGGAGGCGG 58.932 50.000 0.00 0.00 0.00 6.13
2857 4678 2.824341 GGTAGGCCGAGCTTAGCTATAA 59.176 50.000 6.75 0.00 39.88 0.98
2887 4708 1.940883 TAGTACCACCTCGCTTGCCG 61.941 60.000 0.00 0.00 38.61 5.69
2888 4709 0.248289 TTAGTACCACCTCGCTTGCC 59.752 55.000 0.00 0.00 0.00 4.52
2914 4735 1.303317 GTGGCAACGAATGGGAGGT 60.303 57.895 0.00 0.00 42.51 3.85
2932 4760 1.439201 CTGATGTGTTGTGCGTGCG 60.439 57.895 0.00 0.00 0.00 5.34
2989 4817 8.693625 TCAGCCTAATAAAAGGAGTACTAGTTC 58.306 37.037 0.00 0.00 39.15 3.01
3004 4832 7.956328 TCTCAGAGTTAGTTCAGCCTAATAA 57.044 36.000 0.00 0.00 30.13 1.40
3005 4833 7.014711 CCATCTCAGAGTTAGTTCAGCCTAATA 59.985 40.741 0.00 0.00 30.13 0.98
3007 4835 5.127845 CCATCTCAGAGTTAGTTCAGCCTAA 59.872 44.000 0.00 0.00 0.00 2.69
3010 4838 3.431486 CCCATCTCAGAGTTAGTTCAGCC 60.431 52.174 0.00 0.00 0.00 4.85
3011 4839 3.791245 CCCATCTCAGAGTTAGTTCAGC 58.209 50.000 0.00 0.00 0.00 4.26
3013 4841 2.501723 GGCCCATCTCAGAGTTAGTTCA 59.498 50.000 0.00 0.00 0.00 3.18
3014 4842 2.769095 AGGCCCATCTCAGAGTTAGTTC 59.231 50.000 0.00 0.00 0.00 3.01
3017 4845 4.590647 TGATAAGGCCCATCTCAGAGTTAG 59.409 45.833 14.36 0.00 0.00 2.34
3018 4846 4.345257 GTGATAAGGCCCATCTCAGAGTTA 59.655 45.833 14.36 0.00 0.00 2.24
3019 4847 3.135530 GTGATAAGGCCCATCTCAGAGTT 59.864 47.826 14.36 0.00 0.00 3.01
3020 4848 2.703007 GTGATAAGGCCCATCTCAGAGT 59.297 50.000 14.36 0.00 0.00 3.24
3021 4849 2.702478 TGTGATAAGGCCCATCTCAGAG 59.298 50.000 14.36 0.00 0.00 3.35
3022 4850 2.763039 TGTGATAAGGCCCATCTCAGA 58.237 47.619 14.36 2.66 0.00 3.27
3023 4851 3.565764 TTGTGATAAGGCCCATCTCAG 57.434 47.619 15.42 0.00 30.19 3.35
3024 4852 3.010027 TGTTTGTGATAAGGCCCATCTCA 59.990 43.478 14.36 13.71 0.00 3.27
3025 4853 3.620488 TGTTTGTGATAAGGCCCATCTC 58.380 45.455 14.36 11.67 0.00 2.75
3026 4854 3.737559 TGTTTGTGATAAGGCCCATCT 57.262 42.857 14.36 0.00 0.00 2.90
3027 4855 3.491447 GCATGTTTGTGATAAGGCCCATC 60.491 47.826 0.00 3.13 0.00 3.51
3028 4856 2.431782 GCATGTTTGTGATAAGGCCCAT 59.568 45.455 0.00 0.00 0.00 4.00
3029 4857 1.824230 GCATGTTTGTGATAAGGCCCA 59.176 47.619 0.00 0.00 0.00 5.36
3030 4858 1.824230 TGCATGTTTGTGATAAGGCCC 59.176 47.619 0.00 0.00 0.00 5.80
3031 4859 3.450578 CATGCATGTTTGTGATAAGGCC 58.549 45.455 18.91 0.00 0.00 5.19
3032 4860 2.861935 GCATGCATGTTTGTGATAAGGC 59.138 45.455 26.79 4.83 0.00 4.35
3033 4861 4.112716 TGCATGCATGTTTGTGATAAGG 57.887 40.909 26.79 0.00 0.00 2.69
3034 4862 6.500910 AGTATGCATGCATGTTTGTGATAAG 58.499 36.000 37.43 0.00 37.82 1.73
3035 4863 6.453926 AGTATGCATGCATGTTTGTGATAA 57.546 33.333 37.43 15.07 37.82 1.75
3036 4864 5.008911 GGAGTATGCATGCATGTTTGTGATA 59.991 40.000 37.43 15.79 37.82 2.15
3037 4865 4.202080 GGAGTATGCATGCATGTTTGTGAT 60.202 41.667 37.43 15.82 37.82 3.06
3038 4866 3.129113 GGAGTATGCATGCATGTTTGTGA 59.871 43.478 37.43 17.24 37.82 3.58
3039 4867 3.119424 TGGAGTATGCATGCATGTTTGTG 60.119 43.478 37.43 3.24 37.82 3.33
3040 4868 3.090790 TGGAGTATGCATGCATGTTTGT 58.909 40.909 37.43 18.01 37.82 2.83
3041 4869 3.786516 TGGAGTATGCATGCATGTTTG 57.213 42.857 37.43 4.46 37.82 2.93
3051 4879 2.167487 TGCACTAACGATGGAGTATGCA 59.833 45.455 0.00 0.00 44.23 3.96
3052 4880 2.797156 CTGCACTAACGATGGAGTATGC 59.203 50.000 0.00 0.00 31.37 3.14
3053 4881 2.797156 GCTGCACTAACGATGGAGTATG 59.203 50.000 0.00 0.00 37.79 2.39
3054 4882 2.543861 CGCTGCACTAACGATGGAGTAT 60.544 50.000 0.00 0.00 37.79 2.12
3055 4883 1.202256 CGCTGCACTAACGATGGAGTA 60.202 52.381 0.00 0.00 37.79 2.59
3056 4884 0.458543 CGCTGCACTAACGATGGAGT 60.459 55.000 0.00 0.00 37.79 3.85
3057 4885 0.458543 ACGCTGCACTAACGATGGAG 60.459 55.000 0.00 0.00 38.46 3.86
3058 4886 0.037697 AACGCTGCACTAACGATGGA 60.038 50.000 0.00 0.00 0.00 3.41
3059 4887 0.370273 GAACGCTGCACTAACGATGG 59.630 55.000 0.00 0.00 0.00 3.51
3060 4888 1.067693 TGAACGCTGCACTAACGATG 58.932 50.000 0.00 0.00 0.00 3.84
3061 4889 1.068474 GTGAACGCTGCACTAACGAT 58.932 50.000 0.00 0.00 33.57 3.73
3062 4890 0.031585 AGTGAACGCTGCACTAACGA 59.968 50.000 0.00 0.00 44.27 3.85
3063 4891 1.693467 TAGTGAACGCTGCACTAACG 58.307 50.000 9.37 0.00 44.27 3.18
3090 4918 3.894547 AACCCAACGCTGGCGGTAG 62.895 63.158 18.99 9.88 41.99 3.18
3091 4919 3.943691 AACCCAACGCTGGCGGTA 61.944 61.111 18.99 0.00 41.99 4.02
3094 4922 3.536498 GAACAACCCAACGCTGGCG 62.536 63.158 13.56 13.56 41.99 5.69
3095 4923 0.887387 TAGAACAACCCAACGCTGGC 60.887 55.000 0.00 0.00 41.99 4.85
3096 4924 1.265905 GTTAGAACAACCCAACGCTGG 59.734 52.381 0.00 0.00 43.10 4.85
3097 4925 2.218603 AGTTAGAACAACCCAACGCTG 58.781 47.619 0.00 0.00 0.00 5.18
3098 4926 2.632987 AGTTAGAACAACCCAACGCT 57.367 45.000 0.00 0.00 0.00 5.07
3099 4927 4.816786 TTTAGTTAGAACAACCCAACGC 57.183 40.909 0.00 0.00 0.00 4.84
3100 4928 7.804600 GGTTAATTTAGTTAGAACAACCCAACG 59.195 37.037 0.00 0.00 0.00 4.10
3101 4929 8.853126 AGGTTAATTTAGTTAGAACAACCCAAC 58.147 33.333 6.50 0.00 0.00 3.77
3102 4930 8.999905 AGGTTAATTTAGTTAGAACAACCCAA 57.000 30.769 6.50 0.00 0.00 4.12
3121 4949 6.672836 GCTGCGCGTTTAAGTATTTAGGTTAA 60.673 38.462 8.43 0.00 0.00 2.01
3122 4950 5.220453 GCTGCGCGTTTAAGTATTTAGGTTA 60.220 40.000 8.43 0.00 0.00 2.85
3566 5789 8.084684 AGCAAAAAGTGAGAAATTGTTCTATCC 58.915 33.333 0.00 0.00 44.42 2.59
3568 5791 9.822185 AAAGCAAAAAGTGAGAAATTGTTCTAT 57.178 25.926 0.00 0.00 44.42 1.98
3592 5815 7.821846 ACCAAAGCAACTCAATTACAAAGAAAA 59.178 29.630 0.00 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.