Multiple sequence alignment - TraesCS4D01G365500

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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 TraesCS4D01G365500 chr4D 100.000 4595 0 0 1 4595 509538103 509533509 0.000000e+00 8486
1 TraesCS4D01G365500 chr4D 86.739 1576 174 17 23 1576 509510741 509512303 0.000000e+00 1720
2 TraesCS4D01G365500 chr4D 87.549 1020 127 0 1955 2974 509517203 509518222 0.000000e+00 1181
3 TraesCS4D01G365500 chr4D 87.013 847 109 1 2137 2982 509483370 509482524 0.000000e+00 953
4 TraesCS4D01G365500 chr4D 96.364 550 20 0 1572 2121 509516964 509517513 0.000000e+00 905
5 TraesCS4D01G365500 chr4D 85.322 729 83 12 3002 3718 509482459 509481743 0.000000e+00 732
6 TraesCS4D01G365500 chr4D 87.188 320 30 8 3717 4029 509480770 509480455 2.030000e-93 353
7 TraesCS4D01G365500 chr4D 86.288 299 41 0 1823 2121 509536137 509535839 4.430000e-85 326
8 TraesCS4D01G365500 chr4B 88.402 2440 233 25 2121 4541 657244357 657246765 0.000000e+00 2892
9 TraesCS4D01G365500 chr4B 86.188 1962 245 15 23 1962 657255641 657253684 0.000000e+00 2098
10 TraesCS4D01G365500 chr4B 88.422 881 102 0 2099 2979 657271775 657272655 0.000000e+00 1062
11 TraesCS4D01G365500 chr4B 87.643 874 106 2 2102 2974 657253832 657252960 0.000000e+00 1014
12 TraesCS4D01G365500 chr4B 86.345 725 83 11 3002 3715 657272723 657273442 0.000000e+00 776
13 TraesCS4D01G365500 chr4B 85.256 624 73 11 63 676 657270608 657271222 3.900000e-175 625
14 TraesCS4D01G365500 chr4B 83.503 588 85 11 3002 3580 657252878 657252294 5.230000e-149 538
15 TraesCS4D01G365500 chr4B 80.175 570 72 30 3717 4278 657274380 657274916 5.570000e-104 388
16 TraesCS4D01G365500 chr4B 86.577 149 20 0 1955 2103 657271775 657271923 1.020000e-36 165
17 TraesCS4D01G365500 chr5A 89.002 2264 197 23 2102 4343 698449783 698447550 0.000000e+00 2754
18 TraesCS4D01G365500 chr5A 87.506 2129 227 17 2099 4209 698483677 698481570 0.000000e+00 2422
19 TraesCS4D01G365500 chr5A 85.172 1976 265 11 1 1962 698451596 698449635 0.000000e+00 2001
20 TraesCS4D01G365500 chr5A 84.615 1976 263 18 15 1962 698456904 698454942 0.000000e+00 1927
21 TraesCS4D01G365500 chr5A 86.889 1167 134 11 2560 3720 698454518 698453365 0.000000e+00 1290
22 TraesCS4D01G365500 chr5A 87.921 861 104 0 2121 2981 698372103 698371243 0.000000e+00 1014
23 TraesCS4D01G365500 chr5A 85.970 727 81 9 3002 3718 698360678 698359963 0.000000e+00 758
24 TraesCS4D01G365500 chr5A 87.282 574 69 4 2102 2673 698455090 698454519 0.000000e+00 652
25 TraesCS4D01G365500 chr5A 83.721 645 103 1 1317 1959 698388838 698389482 3.930000e-170 608
26 TraesCS4D01G365500 chr5A 86.526 475 47 6 3251 3720 698371235 698370773 1.480000e-139 507
27 TraesCS4D01G365500 chr5A 85.481 489 58 8 1 476 698490491 698490003 8.880000e-137 497
28 TraesCS4D01G365500 chr5A 80.210 571 70 31 3717 4278 698358963 698358427 5.570000e-104 388
29 TraesCS4D01G365500 chr5A 83.193 238 31 7 3797 4028 698452553 698452319 4.660000e-50 209
30 TraesCS4D01G365500 chr5A 84.106 151 22 1 1955 2103 698389332 698389482 1.330000e-30 145
31 TraesCS4D01G365500 chr5A 80.392 204 22 13 4407 4595 698387868 698387668 6.200000e-29 139
32 TraesCS4D01G365500 chr1B 82.465 1785 278 20 50 1811 297056955 297058727 0.000000e+00 1530
33 TraesCS4D01G365500 chr1D 82.353 1785 280 17 50 1811 203268359 203270131 0.000000e+00 1519
34 TraesCS4D01G365500 chr1A 82.765 1671 267 8 153 1811 257415565 257417226 0.000000e+00 1471
35 TraesCS4D01G365500 chr6B 79.363 1885 352 23 95 1959 19233025 19234892 0.000000e+00 1291
36 TraesCS4D01G365500 chr6D 79.645 1690 321 12 285 1958 10452382 10454064 0.000000e+00 1194


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 TraesCS4D01G365500 chr4D 509533509 509538103 4594 True 4406.000000 8486 93.144000 1 4595 2 chr4D.!!$R2 4594
1 TraesCS4D01G365500 chr4D 509510741 509512303 1562 False 1720.000000 1720 86.739000 23 1576 1 chr4D.!!$F1 1553
2 TraesCS4D01G365500 chr4D 509516964 509518222 1258 False 1043.000000 1181 91.956500 1572 2974 2 chr4D.!!$F2 1402
3 TraesCS4D01G365500 chr4D 509480455 509483370 2915 True 679.333333 953 86.507667 2137 4029 3 chr4D.!!$R1 1892
4 TraesCS4D01G365500 chr4B 657244357 657246765 2408 False 2892.000000 2892 88.402000 2121 4541 1 chr4B.!!$F1 2420
5 TraesCS4D01G365500 chr4B 657252294 657255641 3347 True 1216.666667 2098 85.778000 23 3580 3 chr4B.!!$R1 3557
6 TraesCS4D01G365500 chr4B 657270608 657274916 4308 False 603.200000 1062 85.355000 63 4278 5 chr4B.!!$F2 4215
7 TraesCS4D01G365500 chr5A 698481570 698483677 2107 True 2422.000000 2422 87.506000 2099 4209 1 chr5A.!!$R2 2110
8 TraesCS4D01G365500 chr5A 698447550 698456904 9354 True 1472.166667 2754 86.025500 1 4343 6 chr5A.!!$R6 4342
9 TraesCS4D01G365500 chr5A 698370773 698372103 1330 True 760.500000 1014 87.223500 2121 3720 2 chr5A.!!$R5 1599
10 TraesCS4D01G365500 chr5A 698358427 698360678 2251 True 573.000000 758 83.090000 3002 4278 2 chr5A.!!$R4 1276
11 TraesCS4D01G365500 chr5A 698388838 698389482 644 False 376.500000 608 83.913500 1317 2103 2 chr5A.!!$F1 786
12 TraesCS4D01G365500 chr1B 297056955 297058727 1772 False 1530.000000 1530 82.465000 50 1811 1 chr1B.!!$F1 1761
13 TraesCS4D01G365500 chr1D 203268359 203270131 1772 False 1519.000000 1519 82.353000 50 1811 1 chr1D.!!$F1 1761
14 TraesCS4D01G365500 chr1A 257415565 257417226 1661 False 1471.000000 1471 82.765000 153 1811 1 chr1A.!!$F1 1658
15 TraesCS4D01G365500 chr6B 19233025 19234892 1867 False 1291.000000 1291 79.363000 95 1959 1 chr6B.!!$F1 1864
16 TraesCS4D01G365500 chr6D 10452382 10454064 1682 False 1194.000000 1194 79.645000 285 1958 1 chr6D.!!$F1 1673

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
865 914 0.100503 GCTGAGAGCTCTCGAACTCC 59.899 60.0 32.86 16.3 45.72 3.85 F
876 925 0.179234 TCGAACTCCACAGCAACCAA 59.821 50.0 0.00 0.0 0.00 3.67 F
2222 2420 0.247460 TGCAGATTGACCTCACTCCG 59.753 55.0 0.00 0.0 0.00 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2632 2945 0.174617 CAGTTTTGGTTTGCCACGGT 59.825 50.000 0.0 0.0 46.01 4.83 R
2635 2948 1.136891 AGAGCAGTTTTGGTTTGCCAC 59.863 47.619 0.0 0.0 46.01 5.01 R
3748 10430 0.038599 TGCAGCATCAACATCCAGGT 59.961 50.000 0.0 0.0 0.00 4.00 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
17 18 3.314331 CCTCCTCTGCACCACCGT 61.314 66.667 0.00 0.00 0.00 4.83
18 19 2.262915 CTCCTCTGCACCACCGTC 59.737 66.667 0.00 0.00 0.00 4.79
19 20 3.633094 CTCCTCTGCACCACCGTCG 62.633 68.421 0.00 0.00 0.00 5.12
42 43 4.154347 CTCCTCCTGCTGGCGGTC 62.154 72.222 17.26 0.00 39.22 4.79
167 200 2.686835 GGTCTGCTCCTCCTGGCT 60.687 66.667 0.00 0.00 0.00 4.75
171 204 4.382541 TGCTCCTCCTGGCTCGGA 62.383 66.667 0.00 0.00 0.00 4.55
249 282 3.842923 CTCACCGGCAGGCTCGAT 61.843 66.667 0.00 0.00 42.76 3.59
331 364 4.496336 GCTCCATCCCGGCAAGCT 62.496 66.667 0.00 0.00 32.87 3.74
486 529 2.286732 AGCAGGCTCCCCAGGATT 60.287 61.111 0.00 0.00 0.00 3.01
532 581 1.189524 CCTCACCAACCCGGACTACA 61.190 60.000 0.73 0.00 38.63 2.74
639 688 1.089920 GCAGCAACATCACCTACCTG 58.910 55.000 0.00 0.00 0.00 4.00
645 694 2.305927 CAACATCACCTACCTGGACCTT 59.694 50.000 0.00 0.00 39.71 3.50
648 697 2.409064 TCACCTACCTGGACCTTTCA 57.591 50.000 0.00 0.00 39.71 2.69
656 705 2.443255 ACCTGGACCTTTCACAGAACAT 59.557 45.455 0.00 0.00 34.21 2.71
692 741 1.226435 CGGACTCGCTTTCGGAGAG 60.226 63.158 0.00 0.00 45.38 3.20
733 782 1.303317 AACCTGTCCGTCAATGCCC 60.303 57.895 0.00 0.00 0.00 5.36
738 787 1.519455 GTCCGTCAATGCCCTCTCG 60.519 63.158 0.00 0.00 0.00 4.04
784 833 2.998493 CTGGGTAAGCTCCAGGACT 58.002 57.895 11.34 0.00 45.95 3.85
810 859 3.763897 GGGTTGGCAATAACAATCTGACT 59.236 43.478 1.92 0.00 32.22 3.41
844 893 0.739813 GTTCCTTGGGTCGATGTCCG 60.740 60.000 0.00 0.00 40.25 4.79
865 914 0.100503 GCTGAGAGCTCTCGAACTCC 59.899 60.000 32.86 16.30 45.72 3.85
876 925 0.179234 TCGAACTCCACAGCAACCAA 59.821 50.000 0.00 0.00 0.00 3.67
879 928 2.024414 GAACTCCACAGCAACCAACTT 58.976 47.619 0.00 0.00 0.00 2.66
895 944 1.069765 CTTGGTGGATCGATCCCGG 59.930 63.158 35.72 19.37 46.59 5.73
897 946 4.315941 GGTGGATCGATCCCGGCC 62.316 72.222 35.72 29.45 46.59 6.13
898 947 3.546543 GTGGATCGATCCCGGCCA 61.547 66.667 35.72 18.89 46.59 5.36
917 966 1.541147 CATTCTTGGCCAGCTCGAAAA 59.459 47.619 5.11 0.00 0.00 2.29
937 986 1.002366 GCTACAGCACCTTGACATCG 58.998 55.000 0.00 0.00 41.59 3.84
938 987 1.645034 CTACAGCACCTTGACATCGG 58.355 55.000 0.00 0.00 0.00 4.18
957 1006 0.958876 GGAACGCCGGATTGGTTTCT 60.959 55.000 5.05 0.00 41.21 2.52
959 1008 2.285977 GAACGCCGGATTGGTTTCTAT 58.714 47.619 5.05 0.00 41.21 1.98
1027 1076 1.142667 TGTCCATGAACCAGCTCACAA 59.857 47.619 0.00 0.00 0.00 3.33
1032 1081 2.418368 TGAACCAGCTCACAAGTGTT 57.582 45.000 0.00 0.00 0.00 3.32
1043 1092 0.466189 ACAAGTGTTCTGCCACCAGG 60.466 55.000 0.00 0.00 39.61 4.45
1091 1140 4.211164 TGAGTTCAACATAGCGTCAAACAG 59.789 41.667 0.00 0.00 0.00 3.16
1103 1152 1.521423 GTCAAACAGACTCGTTGGTCG 59.479 52.381 0.00 0.00 44.09 4.79
1126 1175 4.607024 CGCAGGTTTTGTTCACGG 57.393 55.556 0.00 0.00 0.00 4.94
1135 1184 0.394488 TTTGTTCACGGACTGGCCAA 60.394 50.000 7.01 0.00 35.94 4.52
1224 1273 4.681483 GCAACCAAGCTGAAATTCTTGTAC 59.319 41.667 0.00 0.00 38.33 2.90
1290 1339 3.935993 GCTGGTGAGCCTAGAACAA 57.064 52.632 0.00 0.00 39.57 2.83
1291 1340 1.443802 GCTGGTGAGCCTAGAACAAC 58.556 55.000 0.00 0.00 39.57 3.32
1789 1841 3.512516 GCGTCCATCCCAGCTTGC 61.513 66.667 0.00 0.00 0.00 4.01
2000 2052 4.704833 CTGGTCACGGTGCCCCAG 62.705 72.222 23.27 23.27 38.63 4.45
2005 2057 2.669569 CACGGTGCCCCAGTCTTG 60.670 66.667 0.00 0.00 0.00 3.02
2016 2212 3.486383 CCCCAGTCTTGCACTCTTAAAA 58.514 45.455 0.00 0.00 30.26 1.52
2018 2214 4.022849 CCCCAGTCTTGCACTCTTAAAAAG 60.023 45.833 0.00 0.00 30.26 2.27
2118 2316 2.640316 ACCAGTTGACAGGGAAGTTC 57.360 50.000 0.00 0.00 0.00 3.01
2119 2317 1.143073 ACCAGTTGACAGGGAAGTTCC 59.857 52.381 13.99 13.99 35.23 3.62
2153 2351 1.762957 ACAGTGCACCAGTCTTACACT 59.237 47.619 14.63 0.00 42.09 3.55
2158 2356 4.344102 AGTGCACCAGTCTTACACTCTTAA 59.656 41.667 14.63 0.00 36.95 1.85
2160 2358 5.177696 GTGCACCAGTCTTACACTCTTAAAG 59.822 44.000 5.22 0.00 30.26 1.85
2168 2366 7.062371 CAGTCTTACACTCTTAAAGATGAACGG 59.938 40.741 0.00 0.00 30.26 4.44
2202 2400 6.211587 TCTGGCAATATTCATGAAACCTTG 57.788 37.500 13.09 15.77 0.00 3.61
2217 2415 1.421268 ACCTTGTGCAGATTGACCTCA 59.579 47.619 0.00 0.00 0.00 3.86
2222 2420 0.247460 TGCAGATTGACCTCACTCCG 59.753 55.000 0.00 0.00 0.00 4.63
2225 2423 0.252284 AGATTGACCTCACTCCGGGT 60.252 55.000 0.00 0.00 38.70 5.28
2226 2424 1.006758 AGATTGACCTCACTCCGGGTA 59.993 52.381 0.00 0.00 35.77 3.69
2280 2478 4.085876 CCAAGTTGCTGGTGGGAG 57.914 61.111 0.00 0.00 0.00 4.30
2288 2486 0.257328 TGCTGGTGGGAGTTCAAACA 59.743 50.000 0.00 0.00 0.00 2.83
2427 2626 4.295141 TCCATCCGTAATTGAAACCTGT 57.705 40.909 0.00 0.00 0.00 4.00
2432 2631 4.658063 TCCGTAATTGAAACCTGTGGATT 58.342 39.130 0.00 0.00 0.00 3.01
2437 2636 6.072728 CGTAATTGAAACCTGTGGATTTCTCA 60.073 38.462 0.00 0.00 36.09 3.27
2438 2637 5.972107 ATTGAAACCTGTGGATTTCTCAG 57.028 39.130 0.00 0.00 36.09 3.35
2456 2655 3.237746 TCAGCATCCTAGATCTTGGGAG 58.762 50.000 21.08 14.99 32.28 4.30
2484 2683 3.118408 TGTTCTTTGGTGATATCCCCTCG 60.118 47.826 5.78 0.00 0.00 4.63
2505 2704 0.249573 GGGTCGAAACGAGTGTTCCA 60.250 55.000 0.00 0.00 37.31 3.53
2506 2705 1.607251 GGGTCGAAACGAGTGTTCCAT 60.607 52.381 0.00 0.00 37.31 3.41
2512 2711 4.921515 TCGAAACGAGTGTTCCATTTCTAG 59.078 41.667 0.00 0.00 37.31 2.43
2526 2725 4.260170 CATTTCTAGCAGTTCTGAGCCTT 58.740 43.478 3.84 0.00 0.00 4.35
2613 2926 0.846693 ACCTGTCCAGCAACTCCTTT 59.153 50.000 0.00 0.00 0.00 3.11
2665 2978 0.523966 AAACTGCTCTCTCGAGTCGG 59.476 55.000 13.54 3.60 39.53 4.79
2667 2980 1.022451 ACTGCTCTCTCGAGTCGGTC 61.022 60.000 13.54 0.26 39.53 4.79
2790 3103 0.832135 TCCCTACATGGATCGGGAGC 60.832 60.000 0.53 0.00 40.69 4.70
2806 3119 2.560105 GGGAGCCATCTTCCATTATTGC 59.440 50.000 0.00 0.00 37.94 3.56
2823 3136 8.571336 CCATTATTGCAAATCCTTAGACTTAGG 58.429 37.037 1.71 0.76 0.00 2.69
2850 3163 2.038387 ATTTCACCGGAGAAATCCCG 57.962 50.000 27.78 0.00 42.86 5.14
2859 3178 1.340114 GGAGAAATCCCGCCAGAGTTT 60.340 52.381 0.00 0.00 0.00 2.66
2874 3193 3.499918 CAGAGTTTTCGAGGCTTTCACAT 59.500 43.478 0.00 0.00 0.00 3.21
2898 8410 0.399454 AGCTGCTCGATATGGCCAAT 59.601 50.000 10.96 4.59 0.00 3.16
2954 8466 3.019564 GCAACTTTACATCCATGAGGCT 58.980 45.455 0.00 0.00 33.74 4.58
2969 8481 2.175499 TGAGGCTTAATCTTCCCCCATG 59.825 50.000 0.00 0.00 0.00 3.66
2983 8495 0.251165 CCCATGGGTCGAACCAAGTT 60.251 55.000 29.10 7.41 45.13 2.66
2987 8499 0.547075 TGGGTCGAACCAAGTTGGAA 59.453 50.000 28.80 7.83 40.96 3.53
2994 8506 7.180165 GGTCGAACCAAGTTGGAATTTCCAA 62.180 44.000 28.80 23.89 45.34 3.53
3036 8602 3.490933 GGAAGGGCTGTGAACAAACTTTC 60.491 47.826 0.00 2.30 0.00 2.62
3037 8603 2.733956 AGGGCTGTGAACAAACTTTCA 58.266 42.857 0.00 0.00 32.94 2.69
3039 8605 3.513515 AGGGCTGTGAACAAACTTTCAAA 59.486 39.130 0.00 0.00 37.24 2.69
3040 8606 3.865164 GGGCTGTGAACAAACTTTCAAAG 59.135 43.478 0.00 0.00 41.94 2.77
3042 8608 5.351458 GGCTGTGAACAAACTTTCAAAGAT 58.649 37.500 3.49 0.00 41.68 2.40
3088 8654 9.964253 GTATCGATCTATCATGCAATTTACTTG 57.036 33.333 0.00 0.00 37.94 3.16
3122 8688 2.159043 CGGATGAGCTAACACACCTGAT 60.159 50.000 0.00 0.00 0.00 2.90
3149 8715 2.105821 TCCGGTTTCTGAACTTGTCCAT 59.894 45.455 0.00 0.00 36.03 3.41
3159 8725 6.542821 TCTGAACTTGTCCATAAATGACCTT 58.457 36.000 0.00 0.00 0.00 3.50
3259 8825 2.950309 CTCATTCCTCCCAGCATTTCAG 59.050 50.000 0.00 0.00 0.00 3.02
3298 8864 5.709164 AGCATGCTAAATCTCTCAAACAACT 59.291 36.000 21.21 0.00 0.00 3.16
3431 9000 4.168291 GGGCGAGGGAGCTGAAGG 62.168 72.222 0.00 0.00 37.29 3.46
3459 9031 2.297129 GCTCAGAGACCTGGGGCTT 61.297 63.158 0.00 0.00 41.26 4.35
3482 9054 4.065088 TGTTACTCTGTGATTCTTGGCAC 58.935 43.478 0.00 0.00 35.63 5.01
3671 9263 9.906660 TGTATGCTCCTTTTATTTTTACAGTTG 57.093 29.630 0.00 0.00 0.00 3.16
3672 9264 9.908152 GTATGCTCCTTTTATTTTTACAGTTGT 57.092 29.630 0.00 0.00 0.00 3.32
3675 9267 9.959749 TGCTCCTTTTATTTTTACAGTTGTAAG 57.040 29.630 5.03 0.00 41.03 2.34
3676 9268 9.961265 GCTCCTTTTATTTTTACAGTTGTAAGT 57.039 29.630 5.03 0.24 41.03 2.24
3748 10430 0.594028 GTGTGAATATCTCGCCGCGA 60.594 55.000 15.90 15.90 33.24 5.87
3770 10452 0.889994 TGGATGTTGATGCTGCAACC 59.110 50.000 6.36 2.14 45.75 3.77
3788 10470 1.557832 ACCCTTGCGGCTAAGTATTCA 59.442 47.619 0.00 0.00 33.26 2.57
3931 10617 6.825721 GGATCAAAAGGAGCTTCAGAGAAATA 59.174 38.462 0.00 0.00 30.93 1.40
3963 10649 9.392259 CTGATATCAGCATCCACACATATTTAT 57.608 33.333 19.47 0.00 37.15 1.40
4078 10765 9.398538 TGTTAGCTAACTTAGAAACTTTCCAAA 57.601 29.630 31.14 7.54 37.12 3.28
4079 10766 9.880064 GTTAGCTAACTTAGAAACTTTCCAAAG 57.120 33.333 26.07 10.58 36.42 2.77
4103 10793 6.590292 AGTCCTTAACATCAATACGAACTGTG 59.410 38.462 0.00 0.00 0.00 3.66
4123 10815 5.597806 TGTGGTGTAACAGAGTTAGTCTTG 58.402 41.667 0.00 0.00 39.98 3.02
4155 10847 4.072131 TCAGTTATGCCAGAGAAAACACC 58.928 43.478 0.00 0.00 0.00 4.16
4160 10852 1.403679 TGCCAGAGAAAACACCAAACG 59.596 47.619 0.00 0.00 0.00 3.60
4171 10863 1.420138 ACACCAAACGATCCTCCAGTT 59.580 47.619 0.00 0.00 0.00 3.16
4173 10865 3.262420 CACCAAACGATCCTCCAGTTAG 58.738 50.000 0.00 0.00 0.00 2.34
4187 10879 6.155737 TCCTCCAGTTAGTCCAGTAATTTACC 59.844 42.308 2.92 0.00 0.00 2.85
4225 10921 7.585579 AGTAGAATCCTGGCTACTAGTTAAC 57.414 40.000 0.00 0.00 43.95 2.01
4236 10932 7.506114 TGGCTACTAGTTAACCTAAATCATGG 58.494 38.462 0.00 0.00 0.00 3.66
4260 10956 6.147985 GGAAATCCTGTAACTCAGTTGACTTC 59.852 42.308 0.00 0.00 42.19 3.01
4279 10975 4.021894 ACTTCTGTTGAGCAGTACTACTGG 60.022 45.833 16.43 0.36 46.01 4.00
4319 11015 6.920210 ACTCTGATGATGACATATACACAACG 59.080 38.462 0.00 0.00 36.82 4.10
4381 11077 0.315568 GTTCTGGAGCAGTCAGACGT 59.684 55.000 0.00 0.00 40.51 4.34
4385 11081 0.733150 TGGAGCAGTCAGACGTATCG 59.267 55.000 0.00 0.00 0.00 2.92
4395 11091 5.977725 CAGTCAGACGTATCGAACCATTTAT 59.022 40.000 0.00 0.00 0.00 1.40
4397 11093 7.010183 CAGTCAGACGTATCGAACCATTTATTT 59.990 37.037 0.00 0.00 0.00 1.40
4422 11119 5.182001 GGTCTTGTGTTCAGTGAGCAATAAT 59.818 40.000 11.59 0.00 0.00 1.28
4468 11166 7.639113 TTATCCAATCAAACTTGGGTGTATC 57.361 36.000 3.20 0.00 44.85 2.24
4496 11194 1.216444 GTCTGTGCATGGCTCGAGA 59.784 57.895 18.75 0.00 0.00 4.04
4506 11204 1.839424 TGGCTCGAGACATCTCTGAA 58.161 50.000 19.45 0.00 40.75 3.02
4509 11207 1.532921 GCTCGAGACATCTCTGAACCG 60.533 57.143 18.75 0.00 40.75 4.44
4541 11240 5.184864 TGACACAATGAAGGTTTGTTCAGTT 59.815 36.000 0.00 0.00 39.78 3.16
4542 11241 6.036577 ACACAATGAAGGTTTGTTCAGTTT 57.963 33.333 0.00 0.00 39.78 2.66
4543 11242 6.099341 ACACAATGAAGGTTTGTTCAGTTTC 58.901 36.000 0.00 0.00 39.78 2.78
4544 11243 6.098679 CACAATGAAGGTTTGTTCAGTTTCA 58.901 36.000 0.00 0.00 39.78 2.69
4545 11244 6.757947 CACAATGAAGGTTTGTTCAGTTTCAT 59.242 34.615 0.00 0.00 39.78 2.57
4546 11245 6.980397 ACAATGAAGGTTTGTTCAGTTTCATC 59.020 34.615 0.00 0.00 39.78 2.92
4547 11246 6.713762 ATGAAGGTTTGTTCAGTTTCATCA 57.286 33.333 0.00 0.00 39.78 3.07
4548 11247 6.135290 TGAAGGTTTGTTCAGTTTCATCAG 57.865 37.500 0.00 0.00 32.54 2.90
4549 11248 4.574599 AGGTTTGTTCAGTTTCATCAGC 57.425 40.909 0.00 0.00 0.00 4.26
4550 11249 3.953612 AGGTTTGTTCAGTTTCATCAGCA 59.046 39.130 0.00 0.00 0.00 4.41
4551 11250 4.402155 AGGTTTGTTCAGTTTCATCAGCAA 59.598 37.500 0.00 0.00 0.00 3.91
4552 11251 4.504097 GGTTTGTTCAGTTTCATCAGCAAC 59.496 41.667 0.00 0.00 0.00 4.17
4553 11252 4.979943 TTGTTCAGTTTCATCAGCAACA 57.020 36.364 0.00 0.00 0.00 3.33
4554 11253 4.556942 TGTTCAGTTTCATCAGCAACAG 57.443 40.909 0.00 0.00 0.00 3.16
4555 11254 3.243168 TGTTCAGTTTCATCAGCAACAGC 60.243 43.478 0.00 0.00 0.00 4.40
4556 11255 2.574450 TCAGTTTCATCAGCAACAGCA 58.426 42.857 0.00 0.00 0.00 4.41
4557 11256 2.950975 TCAGTTTCATCAGCAACAGCAA 59.049 40.909 0.00 0.00 0.00 3.91
4558 11257 3.004002 TCAGTTTCATCAGCAACAGCAAG 59.996 43.478 0.00 0.00 0.00 4.01
4559 11258 3.004002 CAGTTTCATCAGCAACAGCAAGA 59.996 43.478 0.00 0.00 0.00 3.02
4560 11259 3.825014 AGTTTCATCAGCAACAGCAAGAT 59.175 39.130 0.00 0.00 0.00 2.40
4561 11260 5.005740 AGTTTCATCAGCAACAGCAAGATA 58.994 37.500 0.00 0.00 0.00 1.98
4562 11261 5.651139 AGTTTCATCAGCAACAGCAAGATAT 59.349 36.000 0.00 0.00 0.00 1.63
4563 11262 5.746307 TTCATCAGCAACAGCAAGATATC 57.254 39.130 0.00 0.00 0.00 1.63
4564 11263 4.773013 TCATCAGCAACAGCAAGATATCA 58.227 39.130 5.32 0.00 0.00 2.15
4565 11264 5.374071 TCATCAGCAACAGCAAGATATCAT 58.626 37.500 5.32 0.00 0.00 2.45
4566 11265 5.469084 TCATCAGCAACAGCAAGATATCATC 59.531 40.000 5.32 0.00 0.00 2.92
4567 11266 4.773013 TCAGCAACAGCAAGATATCATCA 58.227 39.130 5.32 0.00 0.00 3.07
4568 11267 5.187687 TCAGCAACAGCAAGATATCATCAA 58.812 37.500 5.32 0.00 0.00 2.57
4569 11268 5.826208 TCAGCAACAGCAAGATATCATCAAT 59.174 36.000 5.32 0.00 0.00 2.57
4570 11269 6.017357 TCAGCAACAGCAAGATATCATCAATC 60.017 38.462 5.32 0.00 0.00 2.67
4571 11270 5.826208 AGCAACAGCAAGATATCATCAATCA 59.174 36.000 5.32 0.00 0.00 2.57
4572 11271 6.320418 AGCAACAGCAAGATATCATCAATCAA 59.680 34.615 5.32 0.00 0.00 2.57
4573 11272 7.014326 AGCAACAGCAAGATATCATCAATCAAT 59.986 33.333 5.32 0.00 0.00 2.57
4574 11273 7.326305 GCAACAGCAAGATATCATCAATCAATC 59.674 37.037 5.32 0.00 0.00 2.67
4575 11274 8.568794 CAACAGCAAGATATCATCAATCAATCT 58.431 33.333 5.32 0.00 0.00 2.40
4576 11275 9.788889 AACAGCAAGATATCATCAATCAATCTA 57.211 29.630 5.32 0.00 0.00 1.98
4577 11276 9.438228 ACAGCAAGATATCATCAATCAATCTAG 57.562 33.333 5.32 0.00 0.00 2.43
4578 11277 9.438228 CAGCAAGATATCATCAATCAATCTAGT 57.562 33.333 5.32 0.00 0.00 2.57
4579 11278 9.438228 AGCAAGATATCATCAATCAATCTAGTG 57.562 33.333 5.32 0.00 0.00 2.74
4580 11279 8.666573 GCAAGATATCATCAATCAATCTAGTGG 58.333 37.037 5.32 0.00 0.00 4.00
4581 11280 9.939802 CAAGATATCATCAATCAATCTAGTGGA 57.060 33.333 5.32 0.00 0.00 4.02
4587 11286 8.672823 TCATCAATCAATCTAGTGGAAATCTG 57.327 34.615 0.00 0.00 0.00 2.90
4588 11287 8.270030 TCATCAATCAATCTAGTGGAAATCTGT 58.730 33.333 0.00 0.00 0.00 3.41
4589 11288 8.900781 CATCAATCAATCTAGTGGAAATCTGTT 58.099 33.333 0.00 0.00 0.00 3.16
4590 11289 8.868522 TCAATCAATCTAGTGGAAATCTGTTT 57.131 30.769 0.00 0.00 0.00 2.83
4591 11290 9.300681 TCAATCAATCTAGTGGAAATCTGTTTT 57.699 29.630 0.00 0.00 0.00 2.43
4594 11293 8.792830 TCAATCTAGTGGAAATCTGTTTTAGG 57.207 34.615 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.680786 CGACGGTGGTGCAGAGGA 61.681 66.667 0.00 0.00 0.00 3.71
16 17 4.200283 CAGGAGGAGGAGCGCGAC 62.200 72.222 12.10 1.97 0.00 5.19
19 20 4.527583 CAGCAGGAGGAGGAGCGC 62.528 72.222 0.00 0.00 0.00 5.92
20 21 3.847602 CCAGCAGGAGGAGGAGCG 61.848 72.222 0.00 0.00 36.89 5.03
21 22 4.173924 GCCAGCAGGAGGAGGAGC 62.174 72.222 0.00 0.00 36.89 4.70
189 222 4.377708 AGCGACGTGATGCTGCCA 62.378 61.111 0.00 0.00 40.62 4.92
193 226 2.097038 GCTTGAGCGACGTGATGCT 61.097 57.895 6.27 6.27 45.90 3.79
348 381 2.669569 TTGCTGCCGAGGTTGAGC 60.670 61.111 0.00 0.00 0.00 4.26
352 385 0.823356 AACATGTTGCTGCCGAGGTT 60.823 50.000 11.07 0.00 0.00 3.50
486 529 3.625897 CCCAGGTCGAGGTGCACA 61.626 66.667 20.43 0.00 0.00 4.57
532 581 1.589716 GGCATTGGCGAGAACTTGCT 61.590 55.000 12.85 0.00 42.47 3.91
639 688 4.646572 AGAGAATGTTCTGTGAAAGGTCC 58.353 43.478 0.00 0.00 37.73 4.46
645 694 2.612972 GCCGGAGAGAATGTTCTGTGAA 60.613 50.000 5.05 0.00 37.73 3.18
648 697 0.250513 GGCCGGAGAGAATGTTCTGT 59.749 55.000 5.05 0.00 37.73 3.41
656 705 1.831286 GGTATCGGGCCGGAGAGAA 60.831 63.158 27.98 5.47 0.00 2.87
692 741 2.072487 TACATGAGGCTGGGGAGGC 61.072 63.158 0.00 0.00 0.00 4.70
701 750 1.279271 ACAGGTTGAGGTACATGAGGC 59.721 52.381 0.00 0.00 34.18 4.70
733 782 2.520982 TGGTATCCGGCCCGAGAG 60.521 66.667 3.71 0.00 0.00 3.20
771 820 1.596934 CCGCAAGTCCTGGAGCTTA 59.403 57.895 0.00 0.00 0.00 3.09
837 886 4.728058 GCTCTCAGCTCGGACATC 57.272 61.111 0.00 0.00 38.45 3.06
897 946 1.167851 TTTCGAGCTGGCCAAGAATG 58.832 50.000 7.01 0.00 0.00 2.67
898 947 1.815003 CTTTTCGAGCTGGCCAAGAAT 59.185 47.619 7.01 0.00 0.00 2.40
917 966 1.404717 CGATGTCAAGGTGCTGTAGCT 60.405 52.381 5.38 0.00 42.66 3.32
937 986 1.929806 GAAACCAATCCGGCGTTCCC 61.930 60.000 6.01 0.00 39.03 3.97
938 987 0.958876 AGAAACCAATCCGGCGTTCC 60.959 55.000 6.01 0.00 39.03 3.62
948 997 7.643123 ACTCCTGTGGAATAATAGAAACCAAT 58.357 34.615 0.00 0.00 32.32 3.16
957 1006 3.525609 TGCCCAACTCCTGTGGAATAATA 59.474 43.478 0.00 0.00 0.00 0.98
959 1008 1.707989 TGCCCAACTCCTGTGGAATAA 59.292 47.619 0.00 0.00 0.00 1.40
1027 1076 1.645402 AACCCTGGTGGCAGAACACT 61.645 55.000 0.00 0.00 41.09 3.55
1091 1140 3.046280 GGAATCCGACCAACGAGTC 57.954 57.895 0.00 0.00 45.77 3.36
1103 1152 1.611491 TGAACAAAACCTGCGGAATCC 59.389 47.619 0.00 0.00 0.00 3.01
1112 1161 1.675552 CCAGTCCGTGAACAAAACCT 58.324 50.000 0.00 0.00 0.00 3.50
1126 1175 2.923121 TGATATGAGCTTTGGCCAGTC 58.077 47.619 5.11 2.34 39.73 3.51
1135 1184 4.529897 TGCACTTGGAATGATATGAGCTT 58.470 39.130 0.00 0.00 0.00 3.74
1224 1273 2.301346 ACAAGGTTGTTGCTGAAGAGG 58.699 47.619 0.00 0.00 38.47 3.69
1290 1339 2.368875 AGAGTTCACCGACAAATCCAGT 59.631 45.455 0.00 0.00 0.00 4.00
1291 1340 2.996621 GAGAGTTCACCGACAAATCCAG 59.003 50.000 0.00 0.00 0.00 3.86
1789 1841 5.614324 TTCCCTGATACATCCAAGTAGTG 57.386 43.478 0.00 0.00 0.00 2.74
2000 2052 6.152379 CCATTCCTTTTTAAGAGTGCAAGAC 58.848 40.000 0.00 0.00 0.00 3.01
2005 2057 6.967199 CGATTACCATTCCTTTTTAAGAGTGC 59.033 38.462 0.00 0.00 0.00 4.40
2016 2212 5.940470 GCCAGATATTCGATTACCATTCCTT 59.060 40.000 0.00 0.00 0.00 3.36
2018 2214 5.245531 TGCCAGATATTCGATTACCATTCC 58.754 41.667 0.00 0.00 0.00 3.01
2118 2316 1.290324 CTGTGACCAGTCAGACGGG 59.710 63.158 17.52 17.52 40.75 5.28
2119 2317 4.974792 CTGTGACCAGTCAGACGG 57.025 61.111 0.00 9.20 40.75 4.79
2144 2342 6.867293 ACCGTTCATCTTTAAGAGTGTAAGAC 59.133 38.462 0.03 0.00 31.31 3.01
2153 2351 9.976511 ATATTCGATTACCGTTCATCTTTAAGA 57.023 29.630 0.00 0.00 39.75 2.10
2158 2356 6.868864 CCAGATATTCGATTACCGTTCATCTT 59.131 38.462 0.00 0.00 39.75 2.40
2160 2358 5.062308 GCCAGATATTCGATTACCGTTCATC 59.938 44.000 0.00 0.00 39.75 2.92
2168 2366 9.926751 CATGAATATTGCCAGATATTCGATTAC 57.073 33.333 14.58 0.00 45.54 1.89
2202 2400 1.731720 GGAGTGAGGTCAATCTGCAC 58.268 55.000 7.32 0.00 40.45 4.57
2217 2415 2.445905 TGATAGATCCAGTACCCGGAGT 59.554 50.000 0.73 0.99 35.56 3.85
2222 2420 7.074653 TGGTTATTTGATAGATCCAGTACCC 57.925 40.000 0.00 0.00 0.00 3.69
2226 2424 9.125026 GTGAATTGGTTATTTGATAGATCCAGT 57.875 33.333 0.00 0.00 0.00 4.00
2280 2478 9.754382 AAATCCATAGCAATCATATGTTTGAAC 57.246 29.630 24.34 11.55 0.00 3.18
2427 2626 5.153675 AGATCTAGGATGCTGAGAAATCCA 58.846 41.667 14.59 3.34 44.17 3.41
2432 2631 3.645212 CCCAAGATCTAGGATGCTGAGAA 59.355 47.826 5.91 0.00 0.00 2.87
2437 2636 1.977129 GCTCCCAAGATCTAGGATGCT 59.023 52.381 13.42 0.00 0.00 3.79
2438 2637 1.696336 TGCTCCCAAGATCTAGGATGC 59.304 52.381 13.42 16.72 0.00 3.91
2456 2655 5.343249 GGATATCACCAAAGAACATGTTGC 58.657 41.667 17.58 7.82 0.00 4.17
2484 2683 0.857287 GAACACTCGTTTCGACCCAC 59.143 55.000 0.00 0.00 34.75 4.61
2505 2704 4.512484 GAAGGCTCAGAACTGCTAGAAAT 58.488 43.478 0.00 0.00 0.00 2.17
2506 2705 3.307059 GGAAGGCTCAGAACTGCTAGAAA 60.307 47.826 0.00 0.00 0.00 2.52
2512 2711 1.377536 GATGGAAGGCTCAGAACTGC 58.622 55.000 0.00 0.00 0.00 4.40
2526 2725 2.174639 ACCACTGAAGTTGTTGGATGGA 59.825 45.455 0.00 0.00 0.00 3.41
2562 2761 9.236006 ACTTGCAGATAAGAAAGTTGTGATAAT 57.764 29.630 0.00 0.00 33.51 1.28
2632 2945 0.174617 CAGTTTTGGTTTGCCACGGT 59.825 50.000 0.00 0.00 46.01 4.83
2635 2948 1.136891 AGAGCAGTTTTGGTTTGCCAC 59.863 47.619 0.00 0.00 46.01 5.01
2665 2978 1.434696 CATTGCCGGCAAGATGGAC 59.565 57.895 41.38 5.43 39.47 4.02
2667 2980 2.809706 CCATTGCCGGCAAGATGG 59.190 61.111 41.38 38.17 39.47 3.51
2695 3008 4.016706 CAGGAACCGCGGGAAGGT 62.017 66.667 31.76 4.28 45.29 3.50
2727 3040 2.532715 ATGTCCAGGGTGGCCAGT 60.533 61.111 5.11 0.00 37.47 4.00
2790 3103 6.415206 AGGATTTGCAATAATGGAAGATGG 57.585 37.500 0.00 0.00 38.19 3.51
2793 3106 8.055181 AGTCTAAGGATTTGCAATAATGGAAGA 58.945 33.333 0.00 0.00 38.19 2.87
2806 3119 7.979444 TGTTTGACCTAAGTCTAAGGATTTG 57.021 36.000 0.00 0.00 43.91 2.32
2823 3136 4.561735 TTCTCCGGTGAAATTGTTTGAC 57.438 40.909 16.30 0.00 0.00 3.18
2850 3163 1.197949 GAAAGCCTCGAAAACTCTGGC 59.802 52.381 1.53 1.53 43.52 4.85
2859 3178 3.329386 CTGAAGATGTGAAAGCCTCGAA 58.671 45.455 0.00 0.00 0.00 3.71
2874 3193 1.269988 GCCATATCGAGCAGCTGAAGA 60.270 52.381 20.43 13.19 0.00 2.87
2940 8452 5.221925 GGGAAGATTAAGCCTCATGGATGTA 60.222 44.000 0.00 0.00 34.57 2.29
2943 8455 3.075134 GGGGAAGATTAAGCCTCATGGAT 59.925 47.826 0.00 0.00 34.57 3.41
2969 8481 1.905637 ATTCCAACTTGGTTCGACCC 58.094 50.000 7.72 0.00 39.03 4.46
2983 8495 2.158740 TGACCGACAGTTGGAAATTCCA 60.159 45.455 14.52 11.23 46.61 3.53
2987 8499 2.925724 TGTTGACCGACAGTTGGAAAT 58.074 42.857 14.52 0.00 0.00 2.17
2994 8506 2.168521 CCAGGATATGTTGACCGACAGT 59.831 50.000 0.00 0.00 32.19 3.55
2997 8509 3.458189 CTTCCAGGATATGTTGACCGAC 58.542 50.000 0.00 0.00 0.00 4.79
2999 8511 2.485479 CCCTTCCAGGATATGTTGACCG 60.485 54.545 0.00 0.00 37.67 4.79
3022 8588 5.108517 GCCATCTTTGAAAGTTTGTTCACA 58.891 37.500 4.68 0.00 37.24 3.58
3036 8602 5.067153 TGTTATTAACCCGATGCCATCTTTG 59.933 40.000 2.75 0.00 0.00 2.77
3037 8603 5.197451 TGTTATTAACCCGATGCCATCTTT 58.803 37.500 2.75 0.00 0.00 2.52
3039 8605 4.389374 CTGTTATTAACCCGATGCCATCT 58.611 43.478 2.75 0.00 0.00 2.90
3040 8606 3.502211 CCTGTTATTAACCCGATGCCATC 59.498 47.826 4.17 0.00 0.00 3.51
3042 8608 2.240160 ACCTGTTATTAACCCGATGCCA 59.760 45.455 4.17 0.00 0.00 4.92
3088 8654 2.748605 CTCATCCGGTATGTTCTCTGC 58.251 52.381 0.00 0.00 36.89 4.26
3099 8665 0.249398 GGTGTGTTAGCTCATCCGGT 59.751 55.000 0.00 0.00 0.00 5.28
3122 8688 2.885616 AGTTCAGAAACCGGAGACCTA 58.114 47.619 9.46 0.00 35.92 3.08
3159 8725 2.165167 CTTTCTGGAATGCTGCCTGAA 58.835 47.619 0.00 0.00 40.27 3.02
3238 8804 2.950309 CTGAAATGCTGGGAGGAATGAG 59.050 50.000 0.00 0.00 0.00 2.90
3239 8805 2.577563 TCTGAAATGCTGGGAGGAATGA 59.422 45.455 0.00 0.00 0.00 2.57
3298 8864 1.302949 GTATGTGGCCCTCCAAGCA 59.697 57.895 0.00 0.00 45.53 3.91
3375 8941 3.626924 AACGGGAAGCCGCAGAGT 61.627 61.111 0.00 0.00 36.58 3.24
3431 9000 0.871057 GTCTCTGAGCTTTGTGTGGC 59.129 55.000 0.00 0.00 0.00 5.01
3459 9031 4.515191 GTGCCAAGAATCACAGAGTAACAA 59.485 41.667 0.00 0.00 33.63 2.83
3482 9054 1.515521 AAGCCAGAAGCCGAAAACGG 61.516 55.000 4.21 4.21 45.47 4.44
3569 9141 3.739519 GCGCCTGACAACTATCTTCATCT 60.740 47.826 0.00 0.00 0.00 2.90
3748 10430 0.038599 TGCAGCATCAACATCCAGGT 59.961 50.000 0.00 0.00 0.00 4.00
3778 10460 4.130118 GCATCCACCACCTGAATACTTAG 58.870 47.826 0.00 0.00 0.00 2.18
3779 10461 3.118038 GGCATCCACCACCTGAATACTTA 60.118 47.826 0.00 0.00 0.00 2.24
3788 10470 0.706433 ATTGAAGGCATCCACCACCT 59.294 50.000 0.00 0.00 34.45 4.00
3998 10684 8.291191 TGAATCATTATTCATTTGTGCTGGTA 57.709 30.769 0.00 0.00 45.17 3.25
4078 10765 6.590292 CACAGTTCGTATTGATGTTAAGGACT 59.410 38.462 0.00 0.00 0.00 3.85
4079 10766 6.183360 CCACAGTTCGTATTGATGTTAAGGAC 60.183 42.308 0.00 0.00 0.00 3.85
4080 10767 5.872617 CCACAGTTCGTATTGATGTTAAGGA 59.127 40.000 0.00 0.00 0.00 3.36
4103 10793 9.485206 TTTTATCAAGACTAACTCTGTTACACC 57.515 33.333 0.00 0.00 0.00 4.16
4123 10815 4.570772 TCTGGCATAACTGACGCTTTTATC 59.429 41.667 0.00 0.00 30.50 1.75
4155 10847 3.056107 TGGACTAACTGGAGGATCGTTTG 60.056 47.826 0.00 0.00 34.37 2.93
4160 10852 6.487299 AATTACTGGACTAACTGGAGGATC 57.513 41.667 0.00 0.00 0.00 3.36
4171 10863 5.263599 TGTCTCGGGTAAATTACTGGACTA 58.736 41.667 2.96 0.00 0.00 2.59
4173 10865 4.460948 TGTCTCGGGTAAATTACTGGAC 57.539 45.455 2.96 7.09 0.00 4.02
4187 10879 0.738975 TCTACTTGGCGATGTCTCGG 59.261 55.000 0.00 0.00 45.15 4.63
4225 10921 7.775093 TGAGTTACAGGATTTCCATGATTTAGG 59.225 37.037 0.00 0.00 38.89 2.69
4279 10975 3.250744 TCAGAGTATTGCGTGCTTGTAC 58.749 45.455 0.00 0.00 0.00 2.90
4319 11015 2.496899 TTGCTCCACAATCTTCCTCC 57.503 50.000 0.00 0.00 31.73 4.30
4395 11091 2.682856 GCTCACTGAACACAAGACCAAA 59.317 45.455 0.00 0.00 0.00 3.28
4397 11093 1.209261 TGCTCACTGAACACAAGACCA 59.791 47.619 0.00 0.00 0.00 4.02
4460 11157 3.865745 CAGACATTTCAGTCGATACACCC 59.134 47.826 0.00 0.00 43.24 4.61
4468 11166 2.159612 CCATGCACAGACATTTCAGTCG 60.160 50.000 0.00 0.00 43.24 4.18
4496 11194 3.193691 CACTTACCTCGGTTCAGAGATGT 59.806 47.826 0.00 0.00 40.57 3.06
4506 11204 2.631062 TCATTGTGTCACTTACCTCGGT 59.369 45.455 4.27 0.00 0.00 4.69
4509 11207 4.642429 ACCTTCATTGTGTCACTTACCTC 58.358 43.478 4.27 0.00 0.00 3.85
4541 11240 5.187687 TGATATCTTGCTGTTGCTGATGAA 58.812 37.500 3.98 0.00 40.48 2.57
4542 11241 4.773013 TGATATCTTGCTGTTGCTGATGA 58.227 39.130 3.98 0.00 40.48 2.92
4543 11242 5.238650 TGATGATATCTTGCTGTTGCTGATG 59.761 40.000 3.98 0.00 40.48 3.07
4544 11243 5.374071 TGATGATATCTTGCTGTTGCTGAT 58.626 37.500 3.98 0.00 40.48 2.90
4545 11244 4.773013 TGATGATATCTTGCTGTTGCTGA 58.227 39.130 3.98 0.00 40.48 4.26
4546 11245 5.494632 TTGATGATATCTTGCTGTTGCTG 57.505 39.130 3.98 0.00 40.48 4.41
4547 11246 5.826208 TGATTGATGATATCTTGCTGTTGCT 59.174 36.000 3.98 0.00 40.48 3.91
4548 11247 6.068473 TGATTGATGATATCTTGCTGTTGC 57.932 37.500 3.98 0.00 40.20 4.17
4549 11248 8.568794 AGATTGATTGATGATATCTTGCTGTTG 58.431 33.333 3.98 0.00 0.00 3.33
4550 11249 8.693120 AGATTGATTGATGATATCTTGCTGTT 57.307 30.769 3.98 0.00 0.00 3.16
4551 11250 9.438228 CTAGATTGATTGATGATATCTTGCTGT 57.562 33.333 3.98 0.00 0.00 4.40
4552 11251 9.438228 ACTAGATTGATTGATGATATCTTGCTG 57.562 33.333 3.98 0.00 0.00 4.41
4553 11252 9.438228 CACTAGATTGATTGATGATATCTTGCT 57.562 33.333 3.98 0.00 0.00 3.91
4554 11253 8.666573 CCACTAGATTGATTGATGATATCTTGC 58.333 37.037 3.98 0.00 0.00 4.01
4555 11254 9.939802 TCCACTAGATTGATTGATGATATCTTG 57.060 33.333 3.98 0.00 0.00 3.02
4561 11260 9.286170 CAGATTTCCACTAGATTGATTGATGAT 57.714 33.333 0.00 0.00 0.00 2.45
4562 11261 8.270030 ACAGATTTCCACTAGATTGATTGATGA 58.730 33.333 0.00 0.00 0.00 2.92
4563 11262 8.447924 ACAGATTTCCACTAGATTGATTGATG 57.552 34.615 0.00 0.00 0.00 3.07
4564 11263 9.471702 AAACAGATTTCCACTAGATTGATTGAT 57.528 29.630 0.00 0.00 0.00 2.57
4565 11264 8.868522 AAACAGATTTCCACTAGATTGATTGA 57.131 30.769 0.00 0.00 0.00 2.57
4568 11267 9.401058 CCTAAAACAGATTTCCACTAGATTGAT 57.599 33.333 0.00 0.00 32.27 2.57
4569 11268 8.792830 CCTAAAACAGATTTCCACTAGATTGA 57.207 34.615 0.00 0.00 32.27 2.57


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

AutoCloner maintained by Alex Coulton.