Multiple sequence alignment - TraesCS2A01G282800

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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 TraesCS2A01G282800 chr2A 100.000 3932 0 0 1605 5536 474307263 474311194 0.000000e+00 7262.0
1 TraesCS2A01G282800 chr2A 100.000 1142 0 0 1 1142 474305659 474306800 0.000000e+00 2109.0
2 TraesCS2A01G282800 chr2A 97.921 433 9 0 710 1142 474284267 474284699 0.000000e+00 750.0
3 TraesCS2A01G282800 chr2A 94.413 358 17 2 1 357 161823966 161823611 1.050000e-151 547.0
4 TraesCS2A01G282800 chr2A 93.855 358 22 0 351 708 161823548 161823191 1.750000e-149 540.0
5 TraesCS2A01G282800 chr2A 92.308 52 3 1 3477 3527 444324872 444324821 7.690000e-09 73.1
6 TraesCS2A01G282800 chr2A 100.000 37 0 0 3268 3304 474308871 474308907 9.950000e-08 69.4
7 TraesCS2A01G282800 chr2A 100.000 37 0 0 3213 3249 474308926 474308962 9.950000e-08 69.4
8 TraesCS2A01G282800 chr2B 91.763 2258 106 35 3302 5533 421706775 421708978 0.000000e+00 3066.0
9 TraesCS2A01G282800 chr2B 93.799 1645 69 10 1641 3269 421705042 421706669 0.000000e+00 2442.0
10 TraesCS2A01G282800 chr2B 95.161 248 7 3 827 1074 421704151 421704393 2.420000e-103 387.0
11 TraesCS2A01G282800 chr2D 91.556 1279 71 16 2017 3269 354740953 354742220 0.000000e+00 1729.0
12 TraesCS2A01G282800 chr2D 91.141 1174 78 14 3710 4870 354742705 354743865 0.000000e+00 1568.0
13 TraesCS2A01G282800 chr2D 94.787 633 18 6 4912 5536 354743863 354744488 0.000000e+00 972.0
14 TraesCS2A01G282800 chr2D 92.327 391 27 3 3302 3690 354742326 354742715 2.250000e-153 553.0
15 TraesCS2A01G282800 chr2D 90.706 269 16 7 710 978 354683089 354683348 3.170000e-92 350.0
16 TraesCS2A01G282800 chr2D 92.517 147 9 1 1641 1785 354740523 354740669 5.620000e-50 209.0
17 TraesCS2A01G282800 chr2D 95.402 87 2 2 990 1074 354739807 354739893 2.690000e-28 137.0
18 TraesCS2A01G282800 chr2D 82.692 104 12 4 717 819 348192925 348193023 2.750000e-13 87.9
19 TraesCS2A01G282800 chr1A 95.480 354 16 0 351 704 549760203 549760556 2.890000e-157 566.0
20 TraesCS2A01G282800 chr1A 85.263 95 8 5 772 863 419032369 419032278 5.900000e-15 93.5
21 TraesCS2A01G282800 chr4A 95.170 352 17 0 351 702 684919842 684920193 1.740000e-154 556.0
22 TraesCS2A01G282800 chr4A 94.150 359 21 0 351 709 4819061 4818703 1.050000e-151 547.0
23 TraesCS2A01G282800 chr4A 94.134 358 19 2 1 357 684919423 684919779 1.360000e-150 544.0
24 TraesCS2A01G282800 chr4A 93.575 358 21 2 1 357 4819480 4819124 2.940000e-147 532.0
25 TraesCS2A01G282800 chr4A 78.378 148 17 13 717 863 534164845 534164712 1.280000e-11 82.4
26 TraesCS2A01G282800 chr7A 94.693 358 17 1 351 708 48652860 48653215 6.270000e-154 555.0
27 TraesCS2A01G282800 chr7A 93.855 358 18 4 1 357 48652443 48652797 2.270000e-148 536.0
28 TraesCS2A01G282800 chr7A 80.380 158 23 6 720 875 54675436 54675285 4.530000e-21 113.0
29 TraesCS2A01G282800 chr7A 81.457 151 17 8 717 863 511930531 511930674 4.530000e-21 113.0
30 TraesCS2A01G282800 chr5A 93.973 365 22 0 351 715 596576724 596577088 2.250000e-153 553.0
31 TraesCS2A01G282800 chr5A 94.413 358 20 0 351 708 467053312 467052955 8.110000e-153 551.0
32 TraesCS2A01G282800 chr5A 94.413 358 18 2 1 357 206733059 206733415 2.920000e-152 549.0
33 TraesCS2A01G282800 chr5A 94.413 358 16 3 1 357 596576307 596576661 1.050000e-151 547.0
34 TraesCS2A01G282800 chr6A 93.923 362 22 0 351 712 577871621 577871260 1.050000e-151 547.0
35 TraesCS2A01G282800 chr6A 93.296 358 23 1 1 357 577872041 577871684 1.370000e-145 527.0
36 TraesCS2A01G282800 chr3A 93.261 371 25 0 351 721 702934699 702934329 1.050000e-151 547.0
37 TraesCS2A01G282800 chr3A 94.134 358 19 2 1 357 702935118 702934762 1.360000e-150 544.0
38 TraesCS2A01G282800 chr5D 93.575 358 20 2 1 357 77440826 77441181 1.060000e-146 531.0
39 TraesCS2A01G282800 chr5D 81.046 153 22 7 714 862 526576230 526576081 1.260000e-21 115.0
40 TraesCS2A01G282800 chr1B 83.582 134 13 8 732 863 491242040 491242166 3.500000e-22 117.0
41 TraesCS2A01G282800 chr1B 89.333 75 5 2 3745 3816 49796791 49796865 2.120000e-14 91.6
42 TraesCS2A01G282800 chr1B 90.141 71 4 2 3745 3812 338891160 338891230 7.640000e-14 89.8
43 TraesCS2A01G282800 chr1B 89.189 74 5 2 3745 3815 683735794 683735721 7.640000e-14 89.8
44 TraesCS2A01G282800 chr1B 75.497 151 23 9 727 873 631067581 631067441 1.670000e-05 62.1
45 TraesCS2A01G282800 chr3D 79.195 149 20 5 717 863 290856126 290856265 5.900000e-15 93.5
46 TraesCS2A01G282800 chrUn 89.189 74 5 2 3745 3815 223708590 223708517 7.640000e-14 89.8
47 TraesCS2A01G282800 chrUn 90.141 71 4 2 3745 3812 246708891 246708961 7.640000e-14 89.8
48 TraesCS2A01G282800 chrUn 89.189 74 5 2 3745 3815 266189737 266189664 7.640000e-14 89.8
49 TraesCS2A01G282800 chr7D 78.378 148 24 6 717 863 21001056 21001196 7.640000e-14 89.8
50 TraesCS2A01G282800 chr7D 82.609 69 8 3 717 785 18884700 18884764 2.150000e-04 58.4
51 TraesCS2A01G282800 chr6B 90.141 71 4 2 3745 3812 128901881 128901951 7.640000e-14 89.8
52 TraesCS2A01G282800 chr6B 90.141 71 4 2 3745 3812 626823001 626823071 7.640000e-14 89.8
53 TraesCS2A01G282800 chr1D 89.189 74 5 2 3745 3815 350967056 350966983 7.640000e-14 89.8
54 TraesCS2A01G282800 chr4D 90.000 70 4 2 3749 3815 241300530 241300461 2.750000e-13 87.9
55 TraesCS2A01G282800 chr4D 87.838 74 6 2 3745 3815 135037617 135037544 3.550000e-12 84.2
56 TraesCS2A01G282800 chr6D 91.071 56 2 2 3745 3797 41308088 41308033 7.690000e-09 73.1
57 TraesCS2A01G282800 chr5B 100.000 29 0 0 835 863 21728574 21728602 3.000000e-03 54.7


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 TraesCS2A01G282800 chr2A 474305659 474311194 5535 False 2377.450000 7262 100.000000 1 5536 4 chr2A.!!$F2 5535
1 TraesCS2A01G282800 chr2A 161823191 161823966 775 True 543.500000 547 94.134000 1 708 2 chr2A.!!$R2 707
2 TraesCS2A01G282800 chr2B 421704151 421708978 4827 False 1965.000000 3066 93.574333 827 5533 3 chr2B.!!$F1 4706
3 TraesCS2A01G282800 chr2D 354739807 354744488 4681 False 861.333333 1729 92.955000 990 5536 6 chr2D.!!$F3 4546
4 TraesCS2A01G282800 chr4A 684919423 684920193 770 False 550.000000 556 94.652000 1 702 2 chr4A.!!$F1 701
5 TraesCS2A01G282800 chr4A 4818703 4819480 777 True 539.500000 547 93.862500 1 709 2 chr4A.!!$R2 708
6 TraesCS2A01G282800 chr7A 48652443 48653215 772 False 545.500000 555 94.274000 1 708 2 chr7A.!!$F2 707
7 TraesCS2A01G282800 chr5A 596576307 596577088 781 False 550.000000 553 94.193000 1 715 2 chr5A.!!$F2 714
8 TraesCS2A01G282800 chr6A 577871260 577872041 781 True 537.000000 547 93.609500 1 712 2 chr6A.!!$R1 711
9 TraesCS2A01G282800 chr3A 702934329 702935118 789 True 545.500000 547 93.697500 1 721 2 chr3A.!!$R1 720

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
459 533 1.340017 ACGCAACACAGGCCTGATAAT 60.340 47.619 39.19 18.37 0.0 1.28 F
1686 1855 1.067071 ACGGGTTCAAGATCGGAGTTC 60.067 52.381 0.00 0.00 0.0 3.01 F
2411 2655 0.399833 TGTGTGGCCATGCTTGAGTA 59.600 50.000 9.72 0.00 0.0 2.59 F
3647 3974 0.032952 TGGCTTAAGTCTCGCAACGT 59.967 50.000 8.83 0.00 0.0 3.99 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2392 2626 0.399833 TACTCAAGCATGGCCACACA 59.600 50.0 8.16 0.0 0.00 3.72 R
3465 3790 2.103153 TCTTCCTCCAACAGGTCAGT 57.897 50.0 0.00 0.0 43.95 3.41 R
4362 4709 1.572085 CCTGCTCACTTGAAGCCACG 61.572 60.0 0.00 0.0 0.00 4.94 R
4935 5285 0.107945 GGCAGCAGGACTCGAGATTT 60.108 55.0 21.68 0.0 0.00 2.17 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
203 207 5.048224 ACGTGCTATAGGCGTGATAAGTTAT 60.048 40.000 1.04 0.00 45.43 1.89
259 263 2.552599 TGCTATCGAAACACACCCAA 57.447 45.000 0.00 0.00 0.00 4.12
269 273 3.812156 AACACACCCAAGTTTTTAGGC 57.188 42.857 0.00 0.00 0.00 3.93
325 329 3.134081 CGGTAACTCATGTACAATCCCCT 59.866 47.826 0.00 0.00 0.00 4.79
459 533 1.340017 ACGCAACACAGGCCTGATAAT 60.340 47.619 39.19 18.37 0.00 1.28
598 674 4.492232 AGCCTCCGGGGTCATTTA 57.508 55.556 0.00 0.00 39.40 1.40
601 677 1.837090 CCTCCGGGGTCATTTAGGG 59.163 63.158 0.00 0.00 0.00 3.53
621 697 1.671742 GAGGCGAGGTCAAAGGACA 59.328 57.895 0.00 0.00 46.17 4.02
646 722 7.283580 CAGGGGATCGTGTGGTATTTTAAAATA 59.716 37.037 15.19 15.19 0.00 1.40
672 748 6.912951 AGAAGTAGAGGTGTAGCAGTTTTA 57.087 37.500 0.00 0.00 0.00 1.52
682 758 7.858498 AGGTGTAGCAGTTTTACTTATATGGT 58.142 34.615 0.00 0.00 0.00 3.55
782 858 6.915544 TAGGAACTACAGTACATACGACTG 57.084 41.667 0.00 1.32 44.61 3.51
783 859 5.494724 AGGAACTACAGTACATACGACTGA 58.505 41.667 9.64 0.00 45.88 3.41
784 860 5.942236 AGGAACTACAGTACATACGACTGAA 59.058 40.000 9.64 0.00 45.88 3.02
785 861 6.602406 AGGAACTACAGTACATACGACTGAAT 59.398 38.462 9.64 0.00 45.88 2.57
786 862 6.911511 GGAACTACAGTACATACGACTGAATC 59.088 42.308 9.64 2.73 46.01 2.52
800 876 5.704217 GACTGAATCGAGTGGATAAACAC 57.296 43.478 0.00 0.00 41.63 3.32
801 877 5.147330 ACTGAATCGAGTGGATAAACACA 57.853 39.130 0.00 0.00 43.72 3.72
802 878 4.929808 ACTGAATCGAGTGGATAAACACAC 59.070 41.667 0.00 0.00 43.72 3.82
803 879 4.888917 TGAATCGAGTGGATAAACACACA 58.111 39.130 0.00 0.00 43.72 3.72
804 880 5.301555 TGAATCGAGTGGATAAACACACAA 58.698 37.500 0.00 0.00 43.72 3.33
805 881 5.760743 TGAATCGAGTGGATAAACACACAAA 59.239 36.000 0.00 0.00 43.72 2.83
806 882 6.261158 TGAATCGAGTGGATAAACACACAAAA 59.739 34.615 0.00 0.00 43.72 2.44
807 883 6.817765 ATCGAGTGGATAAACACACAAAAT 57.182 33.333 0.00 0.00 43.72 1.82
808 884 5.996219 TCGAGTGGATAAACACACAAAATG 58.004 37.500 0.00 0.00 43.72 2.32
809 885 5.529430 TCGAGTGGATAAACACACAAAATGT 59.471 36.000 0.00 0.00 44.81 2.71
870 946 7.721399 AGCATCTTATATTTGTGAAGTTAGGGG 59.279 37.037 0.00 0.00 0.00 4.79
871 947 7.502561 GCATCTTATATTTGTGAAGTTAGGGGT 59.497 37.037 0.00 0.00 0.00 4.95
892 968 7.392393 AGGGGTATAACAGATAAAAACACACAC 59.608 37.037 0.00 0.00 0.00 3.82
984 1060 2.660552 CGTCGCTTGGGTGTTCGT 60.661 61.111 0.00 0.00 0.00 3.85
985 1061 2.935955 GTCGCTTGGGTGTTCGTG 59.064 61.111 0.00 0.00 0.00 4.35
986 1062 1.885850 GTCGCTTGGGTGTTCGTGT 60.886 57.895 0.00 0.00 0.00 4.49
1137 1276 8.572855 AAAACCATTCCATTGAAAGAAACAAA 57.427 26.923 0.00 0.00 33.32 2.83
1138 1277 7.552458 AACCATTCCATTGAAAGAAACAAAC 57.448 32.000 0.00 0.00 33.32 2.93
1139 1278 6.648192 ACCATTCCATTGAAAGAAACAAACA 58.352 32.000 0.00 0.00 33.32 2.83
1140 1279 7.281841 ACCATTCCATTGAAAGAAACAAACAT 58.718 30.769 0.00 0.00 33.32 2.71
1141 1280 8.428063 ACCATTCCATTGAAAGAAACAAACATA 58.572 29.630 0.00 0.00 33.32 2.29
1633 1791 3.619038 GTCGTTCCTCTATCTTTTGCCTG 59.381 47.826 0.00 0.00 0.00 4.85
1686 1855 1.067071 ACGGGTTCAAGATCGGAGTTC 60.067 52.381 0.00 0.00 0.00 3.01
1698 1867 2.513897 GAGTTCGAATGCCGGGGG 60.514 66.667 2.18 0.00 39.14 5.40
1705 1874 1.589630 GAATGCCGGGGGTTGTTTC 59.410 57.895 2.18 0.00 0.00 2.78
1723 1894 8.519526 GGTTGTTTCTGTGATTGTTATATTCCA 58.480 33.333 0.00 0.00 0.00 3.53
1742 1913 1.415659 CAGGGGCTGATGGAAGTAGAG 59.584 57.143 0.00 0.00 32.44 2.43
1768 1939 4.023279 CGATTGGGTGTTGTTCTTTGATGA 60.023 41.667 0.00 0.00 0.00 2.92
1785 1956 8.201464 TCTTTGATGAAATTGGATGGATTCATG 58.799 33.333 4.72 0.00 41.29 3.07
1787 1958 7.426606 TGATGAAATTGGATGGATTCATGTT 57.573 32.000 4.72 0.00 41.29 2.71
1938 2144 4.782019 TGGCTTTCGCTGTGATAATTTT 57.218 36.364 0.00 0.00 36.09 1.82
1940 2146 4.217334 TGGCTTTCGCTGTGATAATTTTGA 59.783 37.500 0.00 0.00 36.09 2.69
1941 2147 5.105797 TGGCTTTCGCTGTGATAATTTTGAT 60.106 36.000 0.00 0.00 36.09 2.57
1959 2165 8.697846 ATTTTGATTGCATTCTTGATACAGTG 57.302 30.769 9.81 0.00 0.00 3.66
1999 2205 1.529865 CCATGCGATGCAGATACAGTG 59.470 52.381 0.00 0.00 43.65 3.66
2058 2291 8.777413 CAAGGATGTGTCAATACCATAAGTATG 58.223 37.037 0.00 0.00 40.98 2.39
2119 2352 1.360551 CGAGACCTATGCCTGGACG 59.639 63.158 0.00 0.00 0.00 4.79
2179 2412 3.131933 CACAGAACAGATCAGTAGGAGGG 59.868 52.174 0.00 0.00 0.00 4.30
2197 2431 1.692519 GGGACAGTGTTGGTGTACTCT 59.307 52.381 0.00 0.00 0.00 3.24
2198 2432 2.104281 GGGACAGTGTTGGTGTACTCTT 59.896 50.000 0.00 0.00 0.00 2.85
2199 2433 3.433173 GGGACAGTGTTGGTGTACTCTTT 60.433 47.826 0.00 0.00 0.00 2.52
2200 2434 4.202284 GGGACAGTGTTGGTGTACTCTTTA 60.202 45.833 0.00 0.00 0.00 1.85
2201 2435 5.362263 GGACAGTGTTGGTGTACTCTTTAA 58.638 41.667 0.00 0.00 0.00 1.52
2202 2436 5.995897 GGACAGTGTTGGTGTACTCTTTAAT 59.004 40.000 0.00 0.00 0.00 1.40
2203 2437 6.147328 GGACAGTGTTGGTGTACTCTTTAATC 59.853 42.308 0.00 0.00 0.00 1.75
2344 2578 2.616510 GCAGTAGCAGGTGGAACAATCT 60.617 50.000 0.00 0.00 40.27 2.40
2394 2628 3.325753 GTGGCAGGAGGAGGCTGT 61.326 66.667 0.00 0.00 0.00 4.40
2395 2629 3.324930 TGGCAGGAGGAGGCTGTG 61.325 66.667 0.00 0.00 0.00 3.66
2411 2655 0.399833 TGTGTGGCCATGCTTGAGTA 59.600 50.000 9.72 0.00 0.00 2.59
2712 2956 7.630242 ACCTCATGATTGTTACGAAAATGAT 57.370 32.000 0.00 0.00 0.00 2.45
2715 2959 9.013490 CCTCATGATTGTTACGAAAATGATTTC 57.987 33.333 0.00 0.00 41.27 2.17
2771 3017 5.222048 TGGAATAGTGGCACTAGGAAAACTT 60.222 40.000 29.14 17.98 33.66 2.66
2848 3096 1.044790 GGGCATGGCTAGCACCAAAT 61.045 55.000 19.78 0.00 44.65 2.32
2855 3103 4.027674 TGGCTAGCACCAAATTCAAGTA 57.972 40.909 18.24 0.00 36.55 2.24
2955 3205 5.633830 ATGTGGCTACATTGCATAATAGC 57.366 39.130 10.30 12.79 45.01 2.97
3117 3369 3.082548 GGCAAAGTCTAAAGGAAGGGTC 58.917 50.000 0.00 0.00 0.00 4.46
3236 3488 7.990886 TCCAACATCACCTATTTAGTGTTATCC 59.009 37.037 0.00 0.00 36.58 2.59
3249 3501 3.003480 GTGTTATCCTTCAGTGCAGGAC 58.997 50.000 14.13 3.02 43.52 3.85
3269 3521 4.927425 GGACGACTTACAATAGCTTGACAA 59.073 41.667 0.00 0.00 36.20 3.18
3270 3522 5.163982 GGACGACTTACAATAGCTTGACAAC 60.164 44.000 0.00 0.00 36.20 3.32
3271 3523 5.294356 ACGACTTACAATAGCTTGACAACA 58.706 37.500 0.00 0.00 36.20 3.33
3272 3524 5.932303 ACGACTTACAATAGCTTGACAACAT 59.068 36.000 0.00 0.00 36.20 2.71
3273 3525 6.090898 ACGACTTACAATAGCTTGACAACATC 59.909 38.462 0.00 0.00 36.20 3.06
3274 3526 6.090763 CGACTTACAATAGCTTGACAACATCA 59.909 38.462 0.00 0.00 36.20 3.07
3275 3527 7.133891 ACTTACAATAGCTTGACAACATCAC 57.866 36.000 0.00 0.00 36.92 3.06
3276 3528 6.149474 ACTTACAATAGCTTGACAACATCACC 59.851 38.462 0.00 0.00 36.92 4.02
3277 3529 4.655963 ACAATAGCTTGACAACATCACCT 58.344 39.130 0.00 0.00 36.92 4.00
3278 3530 5.804639 ACAATAGCTTGACAACATCACCTA 58.195 37.500 0.00 0.00 36.92 3.08
3279 3531 6.418101 ACAATAGCTTGACAACATCACCTAT 58.582 36.000 0.00 0.00 36.92 2.57
3280 3532 6.886459 ACAATAGCTTGACAACATCACCTATT 59.114 34.615 0.00 0.00 39.95 1.73
3281 3533 7.394359 ACAATAGCTTGACAACATCACCTATTT 59.606 33.333 0.00 0.33 38.66 1.40
3282 3534 8.892723 CAATAGCTTGACAACATCACCTATTTA 58.107 33.333 0.00 0.00 38.66 1.40
3283 3535 6.992063 AGCTTGACAACATCACCTATTTAG 57.008 37.500 0.00 0.00 36.92 1.85
3284 3536 6.476378 AGCTTGACAACATCACCTATTTAGT 58.524 36.000 0.00 0.00 36.92 2.24
3285 3537 6.372659 AGCTTGACAACATCACCTATTTAGTG 59.627 38.462 0.00 0.00 36.92 2.74
3286 3538 6.149474 GCTTGACAACATCACCTATTTAGTGT 59.851 38.462 0.00 0.00 36.92 3.55
3287 3539 7.308589 GCTTGACAACATCACCTATTTAGTGTT 60.309 37.037 0.00 0.00 36.92 3.32
3289 3541 9.733556 TTGACAACATCACCTATTTAGTGTTAT 57.266 29.630 0.00 0.00 36.92 1.89
3290 3542 9.378551 TGACAACATCACCTATTTAGTGTTATC 57.621 33.333 0.00 0.00 36.58 1.75
3291 3543 8.732746 ACAACATCACCTATTTAGTGTTATCC 57.267 34.615 0.00 0.00 36.58 2.59
3295 3547 8.768397 ACATCACCTATTTAGTGTTATCCTTCA 58.232 33.333 0.00 0.00 36.58 3.02
3359 3684 0.906775 ATTTGGGCAAGCCAGATTGG 59.093 50.000 13.87 0.00 41.55 3.16
3456 3781 3.609853 CTCCATCATGAGACCGGAAAAA 58.390 45.455 9.46 0.00 34.11 1.94
3580 3907 6.590234 AAAGCGAAATCATAGGTCCTTTTT 57.410 33.333 0.00 0.00 0.00 1.94
3608 3935 7.935755 TCTCAACAGAGAAAGAATCATCTTGTT 59.064 33.333 0.00 8.91 45.19 2.83
3647 3974 0.032952 TGGCTTAAGTCTCGCAACGT 59.967 50.000 8.83 0.00 0.00 3.99
3742 4069 3.323979 TGGACAGAACTGAAGGTAACCTC 59.676 47.826 8.87 0.00 30.89 3.85
3880 4207 9.988815 AAAAGTCGATGCTAATTATGTAGAGAT 57.011 29.630 0.00 0.00 0.00 2.75
3930 4257 8.263940 TCGGTTTTTGAACTAGATTATTGGAG 57.736 34.615 0.00 0.00 0.00 3.86
3941 4269 7.628234 ACTAGATTATTGGAGGGAGCAATATG 58.372 38.462 0.00 0.00 0.00 1.78
4144 4473 4.460505 GTGTATTAAACTGGTTCACACGC 58.539 43.478 3.21 0.00 0.00 5.34
4362 4709 3.851098 TGTAAAAATTGGGCCAATACGC 58.149 40.909 30.89 18.76 32.43 4.42
4384 4731 1.002430 TGGCTTCAAGTGAGCAGGTAG 59.998 52.381 0.00 0.00 0.00 3.18
4446 4793 4.375272 ACCTAGATGTCGATTTGCAGATG 58.625 43.478 0.00 0.00 0.00 2.90
4466 4813 7.862372 GCAGATGTTTTGTTTAATGAGACTTCA 59.138 33.333 0.00 0.00 37.81 3.02
4493 4840 3.384168 TGTTCAGGTCCAGGCTGTATAT 58.616 45.455 14.43 0.00 0.00 0.86
4582 4929 3.713826 TCCTTCCATCTTGTAACACCC 57.286 47.619 0.00 0.00 0.00 4.61
4618 4965 8.767478 ATACGTTTTGCTGTACTTGTAAGTAT 57.233 30.769 7.66 0.00 42.88 2.12
4646 4994 7.542130 GTCTCAAATGGAAATATTGTGTTGGTC 59.458 37.037 0.00 0.00 0.00 4.02
4661 5009 3.222603 GTTGGTCTTCCAGTTCATTGGT 58.777 45.455 0.00 0.00 45.22 3.67
4680 5028 3.006940 GGTTCCATGCGACACAAAGATA 58.993 45.455 0.00 0.00 0.00 1.98
4700 5048 4.124943 CCCTGCAGGCTGGAGCAT 62.125 66.667 28.41 0.00 44.36 3.79
4701 5049 2.516460 CCTGCAGGCTGGAGCATC 60.516 66.667 28.41 5.56 44.36 3.91
4702 5050 2.590645 CTGCAGGCTGGAGCATCT 59.409 61.111 23.27 0.00 44.36 2.90
4703 5051 1.693152 CCTGCAGGCTGGAGCATCTA 61.693 60.000 28.41 0.00 44.36 1.98
4704 5052 0.397187 CTGCAGGCTGGAGCATCTAT 59.603 55.000 23.27 0.00 44.36 1.98
4705 5053 0.108019 TGCAGGCTGGAGCATCTATG 59.892 55.000 17.64 0.00 44.36 2.23
4706 5054 0.395686 GCAGGCTGGAGCATCTATGA 59.604 55.000 17.64 0.00 44.36 2.15
4707 5055 1.202734 GCAGGCTGGAGCATCTATGAA 60.203 52.381 17.64 0.00 44.36 2.57
4708 5056 2.492012 CAGGCTGGAGCATCTATGAAC 58.508 52.381 6.61 0.00 44.36 3.18
4709 5057 2.104451 CAGGCTGGAGCATCTATGAACT 59.896 50.000 6.61 0.00 44.36 3.01
4712 5060 3.563390 GGCTGGAGCATCTATGAACTTTC 59.437 47.826 0.20 0.00 44.36 2.62
4733 5081 3.513119 TCTGTGAACTGATGAGAGGAAGG 59.487 47.826 0.00 0.00 0.00 3.46
4737 5085 4.081198 GTGAACTGATGAGAGGAAGGACAT 60.081 45.833 0.00 0.00 0.00 3.06
4751 5099 7.013369 AGAGGAAGGACATTTTTGTGTTACTTC 59.987 37.037 12.76 12.76 41.06 3.01
4776 5124 5.070313 GGCCCAAATAGAAATTGCTCCATTA 59.930 40.000 0.00 0.00 0.00 1.90
4779 5127 7.172019 GCCCAAATAGAAATTGCTCCATTATTG 59.828 37.037 0.00 0.00 0.00 1.90
4788 5136 1.869767 GCTCCATTATTGAGACAGGCG 59.130 52.381 0.00 0.00 31.26 5.52
4805 5153 1.062587 GGCGCTACAATGTAACAGCAG 59.937 52.381 7.64 2.06 33.55 4.24
4873 5221 7.990917 TGTTTAAAGATGCTTGTAGTTTGTGA 58.009 30.769 0.00 0.00 0.00 3.58
4874 5222 8.629158 TGTTTAAAGATGCTTGTAGTTTGTGAT 58.371 29.630 0.00 0.00 0.00 3.06
4878 5226 8.947055 AAAGATGCTTGTAGTTTGTGATTTTT 57.053 26.923 0.00 0.00 0.00 1.94
4930 5280 5.083122 TCAGTTTAATGCTCCAAATTCCCA 58.917 37.500 0.00 0.00 0.00 4.37
4932 5282 6.213195 TCAGTTTAATGCTCCAAATTCCCAAT 59.787 34.615 0.00 0.00 0.00 3.16
4935 5285 1.642112 TGCTCCAAATTCCCAATGCA 58.358 45.000 0.00 0.00 0.00 3.96
5078 5437 9.535878 GGTTTATTTTATTGAAAGTGACACCAA 57.464 29.630 0.84 0.00 0.00 3.67
5170 5529 2.621338 TGCTAAAATCGTCTGCCTCAG 58.379 47.619 0.00 0.00 0.00 3.35
5335 5694 2.094734 GGTTACCTGTAAAATGCCGACG 59.905 50.000 0.00 0.00 0.00 5.12
5381 5741 6.160684 CGGATAACGTATTTCCATGTCCATA 58.839 40.000 10.77 0.00 37.93 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
203 207 6.535150 TCAAAAATTACCACGATGTTTTTGCA 59.465 30.769 13.70 0.00 43.81 4.08
245 249 4.096682 CCTAAAAACTTGGGTGTGTTTCGA 59.903 41.667 0.00 0.00 35.63 3.71
259 263 4.517453 TCATGTTACTTGCGCCTAAAAACT 59.483 37.500 4.18 0.00 0.00 2.66
269 273 8.912658 AGTTCGTATATTATCATGTTACTTGCG 58.087 33.333 0.00 0.00 0.00 4.85
325 329 5.045869 CCTCTCCTTGGTCAAAGTTACCATA 60.046 44.000 0.00 0.00 46.16 2.74
342 346 8.041323 CACTGTATTTTATACACAACCTCTCCT 58.959 37.037 0.00 0.00 0.00 3.69
459 533 8.445275 AAGTTACCATGATATTCGTATGCAAA 57.555 30.769 0.00 0.00 0.00 3.68
598 674 3.864983 TTTGACCTCGCCTCCCCCT 62.865 63.158 0.00 0.00 0.00 4.79
601 677 2.269241 CCTTTGACCTCGCCTCCC 59.731 66.667 0.00 0.00 0.00 4.30
621 697 4.847990 TTAAAATACCACACGATCCCCT 57.152 40.909 0.00 0.00 0.00 4.79
646 722 5.810080 ACTGCTACACCTCTACTTCTTTT 57.190 39.130 0.00 0.00 0.00 2.27
663 739 7.277098 CACGTGTACCATATAAGTAAAACTGCT 59.723 37.037 7.58 0.00 0.00 4.24
672 748 3.196039 TGGCACACGTGTACCATATAAGT 59.804 43.478 32.24 0.00 36.59 2.24
682 758 3.665190 TGTGATATTTGGCACACGTGTA 58.335 40.909 22.90 5.59 39.86 2.90
755 831 9.618890 AGTCGTATGTACTGTAGTTCCTATTAA 57.381 33.333 0.00 0.00 0.00 1.40
756 832 9.049523 CAGTCGTATGTACTGTAGTTCCTATTA 57.950 37.037 0.00 0.00 39.61 0.98
757 833 7.772292 TCAGTCGTATGTACTGTAGTTCCTATT 59.228 37.037 11.72 0.00 43.88 1.73
758 834 7.278135 TCAGTCGTATGTACTGTAGTTCCTAT 58.722 38.462 11.72 0.00 43.88 2.57
759 835 6.643388 TCAGTCGTATGTACTGTAGTTCCTA 58.357 40.000 11.72 0.00 43.88 2.94
760 836 5.494724 TCAGTCGTATGTACTGTAGTTCCT 58.505 41.667 11.72 0.00 43.88 3.36
761 837 5.808042 TCAGTCGTATGTACTGTAGTTCC 57.192 43.478 11.72 0.00 43.88 3.62
762 838 6.628065 CGATTCAGTCGTATGTACTGTAGTTC 59.372 42.308 11.72 0.00 45.19 3.01
763 839 6.484540 CGATTCAGTCGTATGTACTGTAGTT 58.515 40.000 11.72 0.00 45.19 2.24
764 840 6.045698 CGATTCAGTCGTATGTACTGTAGT 57.954 41.667 11.72 0.00 45.19 2.73
775 851 9.173844 TGTGTTTATCCACTCGATTCAGTCGTA 62.174 40.741 0.00 0.00 40.87 3.43
776 852 8.448303 TGTGTTTATCCACTCGATTCAGTCGT 62.448 42.308 0.00 0.00 40.87 4.34
777 853 6.128842 TGTGTTTATCCACTCGATTCAGTCG 61.129 44.000 0.00 0.00 41.13 4.18
778 854 5.062308 GTGTGTTTATCCACTCGATTCAGTC 59.938 44.000 0.00 0.00 36.30 3.51
779 855 4.929808 GTGTGTTTATCCACTCGATTCAGT 59.070 41.667 0.00 0.00 36.30 3.41
780 856 4.929211 TGTGTGTTTATCCACTCGATTCAG 59.071 41.667 0.00 0.00 36.30 3.02
781 857 4.888917 TGTGTGTTTATCCACTCGATTCA 58.111 39.130 0.00 0.00 36.30 2.57
782 858 5.856126 TTGTGTGTTTATCCACTCGATTC 57.144 39.130 0.00 0.00 36.30 2.52
783 859 6.627395 TTTTGTGTGTTTATCCACTCGATT 57.373 33.333 0.00 0.00 36.30 3.34
784 860 6.206634 ACATTTTGTGTGTTTATCCACTCGAT 59.793 34.615 0.00 0.00 40.28 3.59
785 861 5.529430 ACATTTTGTGTGTTTATCCACTCGA 59.471 36.000 0.00 0.00 40.28 4.04
786 862 5.757886 ACATTTTGTGTGTTTATCCACTCG 58.242 37.500 0.00 0.00 40.28 4.18
966 1042 3.411351 CGAACACCCAAGCGACGG 61.411 66.667 0.00 0.00 0.00 4.79
968 1044 1.433837 AACACGAACACCCAAGCGAC 61.434 55.000 0.00 0.00 0.00 5.19
984 1060 1.340889 GCCATTCTCTGCCACAAAACA 59.659 47.619 0.00 0.00 0.00 2.83
985 1061 2.070262 GCCATTCTCTGCCACAAAAC 57.930 50.000 0.00 0.00 0.00 2.43
1611 1769 3.619038 CAGGCAAAAGATAGAGGAACGAC 59.381 47.826 0.00 0.00 0.00 4.34
1633 1791 2.159934 CGACGACAACCACGAATTAACC 60.160 50.000 0.00 0.00 34.70 2.85
1686 1855 2.207788 GAAACAACCCCCGGCATTCG 62.208 60.000 0.00 0.00 38.88 3.34
1698 1867 9.559958 CTGGAATATAACAATCACAGAAACAAC 57.440 33.333 0.00 0.00 0.00 3.32
1705 1874 4.520492 GCCCCTGGAATATAACAATCACAG 59.480 45.833 0.00 0.00 0.00 3.66
1723 1894 1.694048 CCTCTACTTCCATCAGCCCCT 60.694 57.143 0.00 0.00 0.00 4.79
1742 1913 1.892209 AGAACAACACCCAATCGTCC 58.108 50.000 0.00 0.00 0.00 4.79
1768 1939 6.875195 GTCACAAACATGAATCCATCCAATTT 59.125 34.615 0.00 0.00 0.00 1.82
1785 1956 5.772521 AGCATATCAAACCAAGTCACAAAC 58.227 37.500 0.00 0.00 0.00 2.93
1787 1958 6.488344 TGTTAGCATATCAAACCAAGTCACAA 59.512 34.615 0.00 0.00 0.00 3.33
1854 2060 1.736126 TCGTATTCTCTCGTCGCAAGT 59.264 47.619 0.00 0.00 39.48 3.16
1855 2061 2.367772 CTCGTATTCTCTCGTCGCAAG 58.632 52.381 0.00 0.00 0.00 4.01
1924 2130 6.474427 AGAATGCAATCAAAATTATCACAGCG 59.526 34.615 4.25 0.00 0.00 5.18
1938 2144 5.499313 TCCACTGTATCAAGAATGCAATCA 58.501 37.500 4.25 0.00 28.87 2.57
1940 2146 7.285566 ACTATCCACTGTATCAAGAATGCAAT 58.714 34.615 0.00 0.00 28.87 3.56
1941 2147 6.653020 ACTATCCACTGTATCAAGAATGCAA 58.347 36.000 0.00 0.00 28.87 4.08
1959 2165 4.292643 TGGTGGGGTAACTTAGACTATCC 58.707 47.826 0.00 0.00 0.00 2.59
2098 2331 1.112113 TCCAGGCATAGGTCTCGTTC 58.888 55.000 0.00 0.00 0.00 3.95
2119 2352 6.735678 AAACTTTGATTTGTTTTGTCCACC 57.264 33.333 0.00 0.00 33.21 4.61
2179 2412 6.929606 AGATTAAAGAGTACACCAACACTGTC 59.070 38.462 0.00 0.00 0.00 3.51
2197 2431 6.055588 CGCCTCTCCTGGAATAAAGATTAAA 58.944 40.000 0.00 0.00 0.00 1.52
2198 2432 5.454755 CCGCCTCTCCTGGAATAAAGATTAA 60.455 44.000 0.00 0.00 0.00 1.40
2199 2433 4.040461 CCGCCTCTCCTGGAATAAAGATTA 59.960 45.833 0.00 0.00 0.00 1.75
2200 2434 3.181450 CCGCCTCTCCTGGAATAAAGATT 60.181 47.826 0.00 0.00 0.00 2.40
2201 2435 2.370189 CCGCCTCTCCTGGAATAAAGAT 59.630 50.000 0.00 0.00 0.00 2.40
2202 2436 1.762957 CCGCCTCTCCTGGAATAAAGA 59.237 52.381 0.00 0.00 0.00 2.52
2203 2437 1.811941 GCCGCCTCTCCTGGAATAAAG 60.812 57.143 0.00 0.00 0.00 1.85
2344 2578 0.679002 CGTCCCTCCCGACACTAAGA 60.679 60.000 0.00 0.00 32.74 2.10
2391 2625 0.892358 ACTCAAGCATGGCCACACAG 60.892 55.000 8.16 0.00 0.00 3.66
2392 2626 0.399833 TACTCAAGCATGGCCACACA 59.600 50.000 8.16 0.00 0.00 3.72
2394 2628 1.682702 CCATACTCAAGCATGGCCACA 60.683 52.381 8.16 0.00 35.60 4.17
2395 2629 1.027357 CCATACTCAAGCATGGCCAC 58.973 55.000 8.16 0.00 35.60 5.01
2411 2655 1.293458 AGGTGTCTCCTCATCCTCCAT 59.707 52.381 0.00 0.00 44.42 3.41
2419 2663 0.542938 CTCCACCAGGTGTCTCCTCA 60.543 60.000 18.82 0.00 46.24 3.86
2471 2715 4.910913 ACAAACAACCCAATCCCCTAAAAT 59.089 37.500 0.00 0.00 0.00 1.82
2712 2956 6.729690 ATCCTCCTTTTGTGTTCAATGAAA 57.270 33.333 0.00 0.00 33.32 2.69
2715 2959 7.219484 AGTTATCCTCCTTTTGTGTTCAATG 57.781 36.000 0.00 0.00 33.32 2.82
2793 3041 8.331931 TGGGAATGACAGTAAACCTCTATATT 57.668 34.615 0.00 0.00 0.00 1.28
2848 3096 7.933577 ACTGTCATTTGAACTCATCTACTTGAA 59.066 33.333 0.00 0.00 0.00 2.69
2855 3103 6.767456 AGAAGACTGTCATTTGAACTCATCT 58.233 36.000 10.88 0.00 0.00 2.90
2955 3205 4.274459 GGGAAAAGATTGATCTCGGTGATG 59.726 45.833 0.00 0.00 35.76 3.07
3117 3369 3.188254 TGACCATATTTGTTGTGAGTGCG 59.812 43.478 0.00 0.00 0.00 5.34
3236 3488 2.288213 TGTAAGTCGTCCTGCACTGAAG 60.288 50.000 0.00 0.00 0.00 3.02
3249 3501 5.839262 TGTTGTCAAGCTATTGTAAGTCG 57.161 39.130 0.00 0.00 37.68 4.18
3269 3521 8.768397 TGAAGGATAACACTAAATAGGTGATGT 58.232 33.333 0.00 0.00 38.01 3.06
3270 3522 9.265901 CTGAAGGATAACACTAAATAGGTGATG 57.734 37.037 0.00 0.00 38.01 3.07
3271 3523 8.993424 ACTGAAGGATAACACTAAATAGGTGAT 58.007 33.333 0.00 0.00 38.01 3.06
3272 3524 8.258007 CACTGAAGGATAACACTAAATAGGTGA 58.742 37.037 0.00 0.00 38.01 4.02
3273 3525 7.011482 GCACTGAAGGATAACACTAAATAGGTG 59.989 40.741 0.00 0.00 40.19 4.00
3274 3526 7.048512 GCACTGAAGGATAACACTAAATAGGT 58.951 38.462 0.00 0.00 0.00 3.08
3275 3527 7.047891 TGCACTGAAGGATAACACTAAATAGG 58.952 38.462 0.00 0.00 0.00 2.57
3276 3528 7.225538 CCTGCACTGAAGGATAACACTAAATAG 59.774 40.741 0.00 0.00 36.91 1.73
3277 3529 7.047891 CCTGCACTGAAGGATAACACTAAATA 58.952 38.462 0.00 0.00 36.91 1.40
3278 3530 5.882557 CCTGCACTGAAGGATAACACTAAAT 59.117 40.000 0.00 0.00 36.91 1.40
3279 3531 5.012664 TCCTGCACTGAAGGATAACACTAAA 59.987 40.000 0.86 0.00 38.96 1.85
3280 3532 4.530553 TCCTGCACTGAAGGATAACACTAA 59.469 41.667 0.86 0.00 38.96 2.24
3281 3533 4.093743 TCCTGCACTGAAGGATAACACTA 58.906 43.478 0.86 0.00 38.96 2.74
3282 3534 2.906389 TCCTGCACTGAAGGATAACACT 59.094 45.455 0.86 0.00 38.96 3.55
3283 3535 3.334583 TCCTGCACTGAAGGATAACAC 57.665 47.619 0.86 0.00 38.96 3.32
3290 3542 3.054802 ACCTAGAAATCCTGCACTGAAGG 60.055 47.826 0.00 0.00 36.02 3.46
3291 3543 4.213564 ACCTAGAAATCCTGCACTGAAG 57.786 45.455 0.00 0.00 0.00 3.02
3295 3547 3.507622 GCAAAACCTAGAAATCCTGCACT 59.492 43.478 0.00 0.00 0.00 4.40
3398 3723 3.128242 AGCTGCTCATGTAGAAAATGCAC 59.872 43.478 0.00 0.00 0.00 4.57
3465 3790 2.103153 TCTTCCTCCAACAGGTCAGT 57.897 50.000 0.00 0.00 43.95 3.41
3546 3872 8.072567 CCTATGATTTCGCTTTTCTTCCATTAG 58.927 37.037 0.00 0.00 0.00 1.73
3713 4040 6.875972 ACCTTCAGTTCTGTCCACTATTAT 57.124 37.500 0.00 0.00 0.00 1.28
3742 4069 6.879458 CCCTTTCCCCATAAAGTATAATCTCG 59.121 42.308 0.00 0.00 35.16 4.04
3928 4255 2.050144 TGGGTCTCATATTGCTCCCTC 58.950 52.381 0.00 0.00 36.23 4.30
3930 4257 3.297134 TTTGGGTCTCATATTGCTCCC 57.703 47.619 0.00 0.00 35.85 4.30
4171 4500 8.891501 AGCCCCTAAATTATGCTAGTAAATAGT 58.108 33.333 0.00 0.00 33.65 2.12
4172 4501 9.167311 CAGCCCCTAAATTATGCTAGTAAATAG 57.833 37.037 0.00 0.00 34.31 1.73
4173 4502 8.665906 ACAGCCCCTAAATTATGCTAGTAAATA 58.334 33.333 0.00 0.00 0.00 1.40
4174 4503 7.526918 ACAGCCCCTAAATTATGCTAGTAAAT 58.473 34.615 0.00 0.00 0.00 1.40
4175 4504 6.906848 ACAGCCCCTAAATTATGCTAGTAAA 58.093 36.000 0.00 0.00 0.00 2.01
4187 4516 5.888161 CAGTGAAATTAGACAGCCCCTAAAT 59.112 40.000 0.00 0.00 30.85 1.40
4362 4709 1.572085 CCTGCTCACTTGAAGCCACG 61.572 60.000 0.00 0.00 0.00 4.94
4384 4731 3.620488 TGATCATAGGAAAACAGGGTGC 58.380 45.455 0.00 0.00 0.00 5.01
4466 4813 1.963515 GCCTGGACCTGAACAACAATT 59.036 47.619 0.00 0.00 0.00 2.32
4493 4840 1.318576 TATCTCTTCTCATGGCGCGA 58.681 50.000 12.10 0.00 0.00 5.87
4582 4929 2.781973 GCAAAACGTATAACAGGACGCG 60.782 50.000 3.53 3.53 42.81 6.01
4618 4965 7.871973 CCAACACAATATTTCCATTTGAGACAA 59.128 33.333 0.00 0.00 0.00 3.18
4646 4994 3.367703 GCATGGAACCAATGAACTGGAAG 60.368 47.826 0.00 0.00 38.96 3.46
4661 5009 3.006940 GGTATCTTTGTGTCGCATGGAA 58.993 45.455 0.00 0.00 0.00 3.53
4699 5047 8.316946 TCATCAGTTCACAGAAAGTTCATAGAT 58.683 33.333 0.00 0.00 0.00 1.98
4700 5048 7.670364 TCATCAGTTCACAGAAAGTTCATAGA 58.330 34.615 0.00 0.00 0.00 1.98
4701 5049 7.816513 TCTCATCAGTTCACAGAAAGTTCATAG 59.183 37.037 0.00 0.00 0.00 2.23
4702 5050 7.670364 TCTCATCAGTTCACAGAAAGTTCATA 58.330 34.615 0.00 0.00 0.00 2.15
4703 5051 6.528321 TCTCATCAGTTCACAGAAAGTTCAT 58.472 36.000 0.00 0.00 0.00 2.57
4704 5052 5.917462 TCTCATCAGTTCACAGAAAGTTCA 58.083 37.500 0.00 0.00 0.00 3.18
4705 5053 5.407995 CCTCTCATCAGTTCACAGAAAGTTC 59.592 44.000 0.00 0.00 0.00 3.01
4706 5054 5.070981 TCCTCTCATCAGTTCACAGAAAGTT 59.929 40.000 0.00 0.00 0.00 2.66
4707 5055 4.590647 TCCTCTCATCAGTTCACAGAAAGT 59.409 41.667 0.00 0.00 0.00 2.66
4708 5056 5.144692 TCCTCTCATCAGTTCACAGAAAG 57.855 43.478 0.00 0.00 0.00 2.62
4709 5057 5.512060 CCTTCCTCTCATCAGTTCACAGAAA 60.512 44.000 0.00 0.00 0.00 2.52
4712 5060 3.513119 TCCTTCCTCTCATCAGTTCACAG 59.487 47.826 0.00 0.00 0.00 3.66
4733 5081 3.978855 GGCCGAAGTAACACAAAAATGTC 59.021 43.478 0.00 0.00 30.55 3.06
4737 5085 2.376109 TGGGCCGAAGTAACACAAAAA 58.624 42.857 0.00 0.00 0.00 1.94
4751 5099 2.223805 GGAGCAATTTCTATTTGGGCCG 60.224 50.000 0.00 0.00 0.00 6.13
4776 5124 2.283298 CATTGTAGCGCCTGTCTCAAT 58.717 47.619 2.29 3.74 0.00 2.57
4779 5127 2.579207 TACATTGTAGCGCCTGTCTC 57.421 50.000 2.29 0.00 0.00 3.36
4788 5136 2.711542 ACCCTGCTGTTACATTGTAGC 58.288 47.619 3.91 3.91 36.72 3.58
4805 5153 6.314400 TGTTCGCTATAGTGTTATGAAAACCC 59.686 38.462 12.89 0.00 0.00 4.11
4878 5226 9.942850 TGTATACAGATTTCAGAGATGTTTCAA 57.057 29.630 0.08 0.00 0.00 2.69
4930 5280 2.012673 GCAGGACTCGAGATTTGCATT 58.987 47.619 21.68 0.00 0.00 3.56
4932 5282 0.610174 AGCAGGACTCGAGATTTGCA 59.390 50.000 27.79 0.00 34.17 4.08
4935 5285 0.107945 GGCAGCAGGACTCGAGATTT 60.108 55.000 21.68 0.00 0.00 2.17
5003 5355 5.979993 TCTCACCAGTGTTTGTACTTTGTA 58.020 37.500 0.00 0.00 0.00 2.41
5004 5356 4.839121 TCTCACCAGTGTTTGTACTTTGT 58.161 39.130 0.00 0.00 0.00 2.83
5005 5357 5.811399 TTCTCACCAGTGTTTGTACTTTG 57.189 39.130 0.00 0.00 0.00 2.77
5006 5358 5.708230 TGTTTCTCACCAGTGTTTGTACTTT 59.292 36.000 0.00 0.00 0.00 2.66
5007 5359 5.250200 TGTTTCTCACCAGTGTTTGTACTT 58.750 37.500 0.00 0.00 0.00 2.24
5008 5360 4.839121 TGTTTCTCACCAGTGTTTGTACT 58.161 39.130 0.00 0.00 0.00 2.73
5009 5361 5.751243 ATGTTTCTCACCAGTGTTTGTAC 57.249 39.130 0.00 0.00 0.00 2.90
5078 5437 2.508526 GTGTCAGCAAACCTGGATTCT 58.491 47.619 0.00 0.00 42.05 2.40
5170 5529 1.333258 GCAGAGCAATCGCGTTTATCC 60.333 52.381 5.77 0.00 45.49 2.59
5401 5761 1.546773 CCCCGAGTGGTGAATTCCAAA 60.547 52.381 2.27 0.00 39.34 3.28
5404 5764 1.077716 CCCCCGAGTGGTGAATTCC 60.078 63.158 2.27 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.