Multiple sequence alignment - TraesCS1D01G353300

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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 TraesCS1D01G353300 chr1D 100.000 5553 0 0 557 6109 439029059 439023507 0.000000e+00 10255.0
1 TraesCS1D01G353300 chr1D 100.000 288 0 0 1 288 439029615 439029328 3.240000e-147 532.0
2 TraesCS1D01G353300 chr1D 83.728 338 46 6 1324 1659 439027480 439027150 1.650000e-80 311.0
3 TraesCS1D01G353300 chr1D 83.728 338 46 6 2136 2466 439028292 439027957 1.650000e-80 311.0
4 TraesCS1D01G353300 chr1A 92.947 4140 213 37 573 4657 535319114 535314999 0.000000e+00 5954.0
5 TraesCS1D01G353300 chr1A 92.896 915 38 16 4828 5732 535314969 535314072 0.000000e+00 1304.0
6 TraesCS1D01G353300 chr1A 94.606 241 9 4 48 288 535319827 535319591 2.690000e-98 370.0
7 TraesCS1D01G353300 chr1A 81.723 383 62 8 1280 1659 535317576 535317199 4.600000e-81 313.0
8 TraesCS1D01G353300 chr1A 92.202 218 17 0 5892 6109 535313744 535313527 5.950000e-80 309.0
9 TraesCS1D01G353300 chr1A 81.088 386 63 7 2089 2466 535318391 535318008 3.580000e-77 300.0
10 TraesCS1D01G353300 chr1A 87.429 175 6 8 5733 5893 535314020 535313848 2.910000e-43 187.0
11 TraesCS1D01G353300 chr1A 90.476 42 3 1 4626 4666 14074748 14074789 3.000000e-03 54.7
12 TraesCS1D01G353300 chr1B 93.587 3103 134 23 1681 4746 595183920 595180846 0.000000e+00 4567.0
13 TraesCS1D01G353300 chr1B 87.436 1170 96 19 557 1681 595185143 595183980 0.000000e+00 1299.0
14 TraesCS1D01G353300 chr1B 92.353 680 32 10 4828 5493 595180847 595180174 0.000000e+00 950.0
15 TraesCS1D01G353300 chr1B 86.064 653 46 19 5493 6109 595178726 595178083 0.000000e+00 660.0
16 TraesCS1D01G353300 chr1B 89.007 282 12 8 15 288 595185936 595185666 1.270000e-86 331.0
17 TraesCS1D01G353300 chr1B 81.627 381 62 6 2092 2466 595184380 595184002 5.950000e-80 309.0
18 TraesCS1D01G353300 chr1B 80.105 382 61 8 1280 1659 595183491 595183123 2.810000e-68 270.0
19 TraesCS1D01G353300 chr1B 96.875 32 1 0 4850 4881 426499645 426499676 3.000000e-03 54.7
20 TraesCS1D01G353300 chr1B 92.105 38 2 1 4632 4669 213904211 213904175 1.100000e-02 52.8
21 TraesCS1D01G353300 chr2D 86.134 476 53 8 3935 4403 117114249 117114718 9.140000e-138 501.0
22 TraesCS1D01G353300 chr2D 97.143 35 1 0 4632 4666 363977939 363977905 6.610000e-05 60.2
23 TraesCS1D01G353300 chr3A 79.161 739 109 37 2781 3498 511077350 511076636 2.580000e-128 470.0
24 TraesCS1D01G353300 chr3A 97.143 35 1 0 1661 1695 33632792 33632758 6.610000e-05 60.2
25 TraesCS1D01G353300 chr3D 78.668 736 112 34 2781 3498 390668566 390667858 1.210000e-121 448.0
26 TraesCS1D01G353300 chr3D 96.842 95 3 0 4745 4839 482205969 482205875 6.340000e-35 159.0
27 TraesCS1D01G353300 chr3B 78.408 741 111 36 2781 3501 508254863 508254152 2.610000e-118 436.0
28 TraesCS1D01G353300 chr3B 89.552 134 12 2 4742 4874 111565279 111565411 1.050000e-37 169.0
29 TraesCS1D01G353300 chr7A 90.226 133 8 4 4745 4876 7041022 7041150 1.050000e-37 169.0
30 TraesCS1D01G353300 chr7A 87.179 117 15 0 1922 2038 32368380 32368264 3.840000e-27 134.0
31 TraesCS1D01G353300 chr4D 97.917 96 2 0 4741 4836 147455383 147455478 3.790000e-37 167.0
32 TraesCS1D01G353300 chr4D 84.173 139 22 0 3083 3221 340551470 340551332 1.070000e-27 135.0
33 TraesCS1D01G353300 chr5D 97.872 94 2 0 4739 4832 21789205 21789112 4.900000e-36 163.0
34 TraesCS1D01G353300 chr5D 92.105 38 3 0 4629 4666 530069286 530069323 3.000000e-03 54.7
35 TraesCS1D01G353300 chr7B 97.849 93 2 0 4738 4830 544134566 544134474 1.760000e-35 161.0
36 TraesCS1D01G353300 chr7B 84.553 123 18 1 1917 2038 524862520 524862642 2.990000e-23 121.0
37 TraesCS1D01G353300 chr5A 95.918 98 4 0 4734 4831 46706996 46707093 6.340000e-35 159.0
38 TraesCS1D01G353300 chr5A 95.000 100 4 1 4742 4841 472698364 472698266 8.200000e-34 156.0
39 TraesCS1D01G353300 chr5A 88.618 123 9 4 4738 4859 413843415 413843533 1.770000e-30 145.0
40 TraesCS1D01G353300 chr5A 96.875 32 1 0 4628 4659 594959623 594959654 3.000000e-03 54.7
41 TraesCS1D01G353300 chr4B 84.892 139 21 0 3083 3221 422033088 422032950 2.300000e-29 141.0
42 TraesCS1D01G353300 chr4B 86.992 123 15 1 1917 2038 481987116 481987238 2.970000e-28 137.0
43 TraesCS1D01G353300 chr4A 84.559 136 21 0 3083 3218 127484671 127484806 1.070000e-27 135.0
44 TraesCS1D01G353300 chr4A 89.899 99 10 0 1931 2029 440949186 440949284 1.790000e-25 128.0
45 TraesCS1D01G353300 chr4A 100.000 31 0 0 4631 4661 591699688 591699658 2.380000e-04 58.4
46 TraesCS1D01G353300 chr2B 86.179 123 16 1 1917 2038 720560952 720561074 1.380000e-26 132.0
47 TraesCS1D01G353300 chr6A 85.366 123 17 1 1917 2038 108749802 108749680 6.430000e-25 126.0
48 TraesCS1D01G353300 chrUn 87.037 108 14 0 1931 2038 135302455 135302562 8.320000e-24 122.0
49 TraesCS1D01G353300 chr2A 84.553 123 18 1 1917 2038 159922249 159922127 2.990000e-23 121.0
50 TraesCS1D01G353300 chr6B 94.595 37 2 0 4629 4665 637038259 637038223 2.380000e-04 58.4
51 TraesCS1D01G353300 chr7D 96.875 32 1 0 4850 4881 545268969 545269000 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 TraesCS1D01G353300 chr1D 439023507 439029615 6108 True 2852.250000 10255 91.864000 1 6109 4 chr1D.!!$R1 6108
1 TraesCS1D01G353300 chr1A 535313527 535319827 6300 True 1248.142857 5954 88.984429 48 6109 7 chr1A.!!$R1 6061
2 TraesCS1D01G353300 chr1B 595178083 595185936 7853 True 1198.000000 4567 87.168429 15 6109 7 chr1B.!!$R2 6094
3 TraesCS1D01G353300 chr3A 511076636 511077350 714 True 470.000000 470 79.161000 2781 3498 1 chr3A.!!$R2 717
4 TraesCS1D01G353300 chr3D 390667858 390668566 708 True 448.000000 448 78.668000 2781 3498 1 chr3D.!!$R1 717
5 TraesCS1D01G353300 chr3B 508254152 508254863 711 True 436.000000 436 78.408000 2781 3501 1 chr3B.!!$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
882 1166 0.108138 ACAAATCGCGCCTAGCTTCT 60.108 50.0 0.0 0.0 45.59 2.85 F
929 1220 0.385751 CGCATGTGTAGATCCGACCT 59.614 55.0 0.0 0.0 0.00 3.85 F
1396 1717 0.392461 TTTCTACGGGCTGATGTGGC 60.392 55.0 0.0 0.0 0.00 5.01 F
1870 2253 0.904649 AGATGGATTGAGGTGTCGCA 59.095 50.0 0.0 0.0 0.00 5.10 F
2970 3380 0.826062 GCCCAAATTATGCAGCACCT 59.174 50.0 0.0 0.0 0.00 4.00 F
3920 4334 0.756903 AGCTTCGTACAACCAGTGGT 59.243 50.0 9.7 9.7 37.65 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2563 2970 0.690192 TGCAATGAACTCGGGGAAGA 59.310 50.000 0.00 0.00 0.00 2.87 R
2692 3100 4.002906 AGCAGACAAAAACGAGGTATCA 57.997 40.909 0.00 0.00 0.00 2.15 R
2742 3152 5.220710 AGCCTACCATAAGCAGTGAATAG 57.779 43.478 0.00 0.00 0.00 1.73 R
3627 4040 0.322648 AGAAAGGGCTGCCATTTTGC 59.677 50.000 29.21 18.66 37.65 3.68 R
4509 4937 2.486472 AATCAGGACCAGCTCACAAG 57.514 50.000 0.00 0.00 0.00 3.16 R
5913 7995 0.109723 GCCTACCATTTCCGCCCATA 59.890 55.000 0.00 0.00 0.00 2.74 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
19 20 2.861462 CTCAATCACGGAGAGGAGTC 57.139 55.000 0.00 0.00 34.24 3.36
20 21 1.407258 CTCAATCACGGAGAGGAGTCC 59.593 57.143 0.00 0.00 34.24 3.85
26 27 3.878519 GGAGAGGAGTCCGCGTCG 61.879 72.222 4.92 0.00 0.00 5.12
104 111 3.370231 AACCGATTTGCCGCACCC 61.370 61.111 0.00 0.00 0.00 4.61
660 937 2.587194 CTGCTCGCCGATCCAAGG 60.587 66.667 0.00 0.00 0.00 3.61
882 1166 0.108138 ACAAATCGCGCCTAGCTTCT 60.108 50.000 0.00 0.00 45.59 2.85
894 1181 2.378038 CTAGCTTCTGTCTCTCTGCCT 58.622 52.381 0.00 0.00 0.00 4.75
929 1220 0.385751 CGCATGTGTAGATCCGACCT 59.614 55.000 0.00 0.00 0.00 3.85
935 1226 2.950309 TGTGTAGATCCGACCTTAGCTC 59.050 50.000 0.00 0.00 0.00 4.09
937 1228 4.141551 TGTGTAGATCCGACCTTAGCTCTA 60.142 45.833 0.00 0.00 0.00 2.43
942 1233 1.284198 TCCGACCTTAGCTCTACCACT 59.716 52.381 0.00 0.00 0.00 4.00
945 1236 2.033372 GACCTTAGCTCTACCACTCCC 58.967 57.143 0.00 0.00 0.00 4.30
948 1239 1.677052 CTTAGCTCTACCACTCCCGAC 59.323 57.143 0.00 0.00 0.00 4.79
994 1315 1.555967 TTTGCCCCTGTGATTTAGGC 58.444 50.000 0.00 0.00 44.13 3.93
1119 1440 2.883122 TAATTACGGGCCACAAGGTT 57.117 45.000 4.39 0.00 37.19 3.50
1192 1513 1.215647 GGTCGGTCATCGCTCACTT 59.784 57.895 0.00 0.00 39.05 3.16
1226 1547 5.649831 AGCTTGTTTCTGTTTCTGAAGTTCT 59.350 36.000 4.17 0.00 0.00 3.01
1288 1609 1.188863 GAGGGCCATCTGCATGTTTT 58.811 50.000 10.91 0.00 43.89 2.43
1305 1626 7.145323 GCATGTTTTTGCTCTAAGGTAGAAAA 58.855 34.615 0.00 0.00 39.57 2.29
1332 1653 8.553459 AGAAACTGTATAACACTTCATCCTTG 57.447 34.615 0.00 0.00 0.00 3.61
1384 1705 6.843676 CAATCAACTTGCAAGATTTCTACG 57.156 37.500 32.50 8.21 30.04 3.51
1390 1711 1.277842 TGCAAGATTTCTACGGGCTGA 59.722 47.619 0.00 0.00 0.00 4.26
1396 1717 0.392461 TTTCTACGGGCTGATGTGGC 60.392 55.000 0.00 0.00 0.00 5.01
1428 1749 7.926555 AGTATAAGTATCAAAACTGACCATCCG 59.073 37.037 0.00 0.00 0.00 4.18
1446 1767 6.072673 ACCATCCGTAGTTTCTTGAATTTGTC 60.073 38.462 0.00 0.00 0.00 3.18
1478 1799 1.959042 ACTGTCTGTGACTTTGCTGG 58.041 50.000 0.00 0.00 33.15 4.85
1494 1815 3.780902 TGCTGGTCAACATATACTCGTG 58.219 45.455 0.00 0.00 0.00 4.35
1571 1892 9.762933 TGCTAATTTACAGCAAAAAGAGAAATT 57.237 25.926 0.00 0.00 45.71 1.82
1577 1898 9.467258 TTTACAGCAAAAAGAGAAATTGAGATG 57.533 29.630 0.00 0.00 0.00 2.90
1665 1987 1.227383 GTTGCTATGGAGGGGTGGG 59.773 63.158 0.00 0.00 0.00 4.61
1670 1992 1.780919 GCTATGGAGGGGTGGGTTAAT 59.219 52.381 0.00 0.00 0.00 1.40
1703 2086 4.376450 CTTGTTAAGCTCGTGAGTGTTC 57.624 45.455 0.00 0.00 0.00 3.18
1738 2121 3.482722 ACAGACTACGATGTGTTACGG 57.517 47.619 0.00 0.00 0.00 4.02
1745 2128 1.135199 ACGATGTGTTACGGCCTACAG 60.135 52.381 0.00 0.00 0.00 2.74
1749 2132 2.246469 TGTGTTACGGCCTACAGGTTA 58.754 47.619 0.00 0.00 37.57 2.85
1870 2253 0.904649 AGATGGATTGAGGTGTCGCA 59.095 50.000 0.00 0.00 0.00 5.10
1900 2285 3.255642 TGCCACCTAAGAAAAGATTGTGC 59.744 43.478 0.00 0.00 0.00 4.57
1920 2305 2.254459 CTGTGTTGTACTAGCGAGCTG 58.746 52.381 7.99 0.73 0.00 4.24
1940 2333 3.047796 TGCTCGTGAAACTCGTTAAGTC 58.952 45.455 0.00 0.00 37.17 3.01
2030 2423 1.957177 TCGATCGCTCATTAGGCTCTT 59.043 47.619 11.09 0.00 0.00 2.85
2064 2464 4.141801 TGGACTCCGTATGTTAAATCTGGG 60.142 45.833 0.00 0.00 0.00 4.45
2094 2494 5.003402 GGTTGATTACATTGTTCGATTTGCG 59.997 40.000 0.00 0.00 42.69 4.85
2110 2510 5.107607 CGATTTGCGTGTTTCTAGTGTAAGT 60.108 40.000 0.00 0.00 34.64 2.24
2118 2518 7.359014 GCGTGTTTCTAGTGTAAGTTAGAAAGG 60.359 40.741 6.87 2.76 43.03 3.11
2300 2703 7.178712 ACTTTGCTGATTTACATATACTCGC 57.821 36.000 0.00 0.00 0.00 5.03
2303 2706 4.988540 TGCTGATTTACATATACTCGCACC 59.011 41.667 0.00 0.00 0.00 5.01
2327 2730 1.528807 GCCGCTTTTGTTGTTTTGCAC 60.529 47.619 0.00 0.00 0.00 4.57
2375 2782 9.950680 TTTTGCTAATTTACAGTGAAAAGAGAG 57.049 29.630 0.00 0.00 0.00 3.20
2390 2797 8.465999 GTGAAAAGAGAGATCAAGATACTGAGA 58.534 37.037 0.00 0.00 0.00 3.27
2555 2962 1.399727 CGCTTTTTCCAGCAAGTACGG 60.400 52.381 0.00 0.00 40.09 4.02
2563 2970 1.002087 CCAGCAAGTACGGTTCTTCCT 59.998 52.381 0.00 0.00 0.00 3.36
2570 2977 1.206610 GTACGGTTCTTCCTCTTCCCC 59.793 57.143 0.00 0.00 0.00 4.81
2590 2997 3.057315 CCCGAGTTCATTGCAAAGATTGT 60.057 43.478 1.71 0.00 0.00 2.71
2607 3015 5.079643 AGATTGTGTCAAGCCCTTTATTGT 58.920 37.500 0.00 0.00 0.00 2.71
2680 3088 4.854399 ACATGTCATGTTTGTTAACCGTG 58.146 39.130 12.87 0.00 41.63 4.94
2698 3106 3.059188 CCGTGTTTGTCACTGTTGATACC 60.059 47.826 0.00 0.00 44.16 2.73
2700 3108 4.084537 CGTGTTTGTCACTGTTGATACCTC 60.085 45.833 0.00 0.00 44.16 3.85
2785 3195 7.312899 AGGCTATTTATTTGTTTCACCTTTCG 58.687 34.615 0.00 0.00 0.00 3.46
2970 3380 0.826062 GCCCAAATTATGCAGCACCT 59.174 50.000 0.00 0.00 0.00 4.00
3003 3413 7.233389 TCTCTAGAATAGCTTGTTTCACACT 57.767 36.000 0.00 0.00 38.99 3.55
3457 3868 1.279271 AGACTTCCACGCTATTTGGCT 59.721 47.619 0.00 0.00 33.71 4.75
3587 4000 4.513442 TGGCATTCTATAACAGTGGTGAC 58.487 43.478 0.00 0.00 0.00 3.67
3636 4049 7.866898 TGTGTATTCATATATGTGCAAAATGGC 59.133 33.333 12.42 4.00 0.00 4.40
3639 4052 4.873817 TCATATATGTGCAAAATGGCAGC 58.126 39.130 12.42 0.00 45.96 5.25
3647 4060 1.271001 GCAAAATGGCAGCCCTTTCTT 60.271 47.619 14.47 0.00 0.00 2.52
3664 4078 9.174166 GCCCTTTCTTCATTATTACACTTCTTA 57.826 33.333 0.00 0.00 0.00 2.10
3681 4095 5.413833 ACTTCTTAATGCATGTTCAGGAGTG 59.586 40.000 0.00 0.00 0.00 3.51
3692 4106 6.736794 GCATGTTCAGGAGTGATTTTGACTTT 60.737 38.462 0.00 0.00 30.85 2.66
3765 4179 6.855763 ATGGGATTTGACAAAAATCAGCTA 57.144 33.333 4.41 0.00 38.15 3.32
3816 4230 6.382869 AATGAGGTATTTGCATTACTCTGC 57.617 37.500 7.13 0.00 42.62 4.26
3819 4233 5.104776 TGAGGTATTTGCATTACTCTGCTCT 60.105 40.000 7.13 0.00 42.75 4.09
3920 4334 0.756903 AGCTTCGTACAACCAGTGGT 59.243 50.000 9.70 9.70 37.65 4.16
3990 4405 3.717707 TCTCATTCGTATAGCTTGTGCC 58.282 45.455 0.00 0.00 40.80 5.01
4015 4430 5.972107 AGATTGCAAATGCTCTTGTACTT 57.028 34.783 1.71 0.00 42.66 2.24
4022 4437 5.385617 CAAATGCTCTTGTACTTGTACTGC 58.614 41.667 11.53 10.44 0.00 4.40
4023 4438 4.543590 ATGCTCTTGTACTTGTACTGCT 57.456 40.909 11.53 1.36 0.00 4.24
4024 4439 5.661056 ATGCTCTTGTACTTGTACTGCTA 57.339 39.130 11.53 4.23 0.00 3.49
4218 4633 9.859427 TTTGGTTTGAAATTCATCTTGCTATAG 57.141 29.630 0.00 0.00 0.00 1.31
4227 4642 3.645212 TCATCTTGCTATAGCTGAAGCCT 59.355 43.478 24.61 9.33 43.38 4.58
4390 4805 1.490490 AGTCCTGGCTTTGTTGAGACA 59.510 47.619 0.00 0.00 32.62 3.41
4509 4937 3.375299 CAGGTAAACCATCTGCTGTTAGC 59.625 47.826 1.26 0.00 39.26 3.09
4579 5007 5.887598 ACAATCTAATGCATAAGCCTCAACA 59.112 36.000 0.00 0.00 41.13 3.33
4626 5054 4.523943 TGTGATGGCTAAGCAGTGAAATTT 59.476 37.500 0.00 0.00 0.00 1.82
4655 5083 6.079336 TGTTACTCCCTCCGATCCATATTAA 58.921 40.000 0.00 0.00 0.00 1.40
4660 5088 6.049955 TCCCTCCGATCCATATTAATTGAC 57.950 41.667 0.00 0.00 0.00 3.18
4661 5089 5.045869 TCCCTCCGATCCATATTAATTGACC 60.046 44.000 0.00 0.00 0.00 4.02
4691 5119 6.535508 GTCAATTAATATGGATCGGAGGTAGC 59.464 42.308 0.00 0.00 0.00 3.58
4744 5172 6.838382 ACTGTTACTCCCTCTGTAAACAAAT 58.162 36.000 0.00 0.00 32.58 2.32
4746 5174 7.876582 ACTGTTACTCCCTCTGTAAACAAATAC 59.123 37.037 0.00 0.00 32.58 1.89
4747 5175 7.970102 TGTTACTCCCTCTGTAAACAAATACT 58.030 34.615 0.00 0.00 32.58 2.12
4748 5176 8.092687 TGTTACTCCCTCTGTAAACAAATACTC 58.907 37.037 0.00 0.00 32.58 2.59
4749 5177 6.051179 ACTCCCTCTGTAAACAAATACTCC 57.949 41.667 0.00 0.00 0.00 3.85
4750 5178 5.045797 ACTCCCTCTGTAAACAAATACTCCC 60.046 44.000 0.00 0.00 0.00 4.30
4751 5179 5.098663 TCCCTCTGTAAACAAATACTCCCT 58.901 41.667 0.00 0.00 0.00 4.20
4752 5180 5.189145 TCCCTCTGTAAACAAATACTCCCTC 59.811 44.000 0.00 0.00 0.00 4.30
4753 5181 5.189934 CCCTCTGTAAACAAATACTCCCTCT 59.810 44.000 0.00 0.00 0.00 3.69
4754 5182 6.109359 CCTCTGTAAACAAATACTCCCTCTG 58.891 44.000 0.00 0.00 0.00 3.35
4755 5183 6.295916 CCTCTGTAAACAAATACTCCCTCTGT 60.296 42.308 0.00 0.00 0.00 3.41
4756 5184 7.093465 CCTCTGTAAACAAATACTCCCTCTGTA 60.093 40.741 0.00 0.00 0.00 2.74
4757 5185 8.197592 TCTGTAAACAAATACTCCCTCTGTAA 57.802 34.615 0.00 0.00 0.00 2.41
4758 5186 8.653191 TCTGTAAACAAATACTCCCTCTGTAAA 58.347 33.333 0.00 0.00 0.00 2.01
4759 5187 8.611654 TGTAAACAAATACTCCCTCTGTAAAC 57.388 34.615 0.00 0.00 0.00 2.01
4760 5188 8.434392 TGTAAACAAATACTCCCTCTGTAAACT 58.566 33.333 0.00 0.00 0.00 2.66
4761 5189 9.933723 GTAAACAAATACTCCCTCTGTAAACTA 57.066 33.333 0.00 0.00 0.00 2.24
4771 5199 9.939424 ACTCCCTCTGTAAACTAATATAAGAGT 57.061 33.333 0.00 0.00 0.00 3.24
4773 5201 9.710818 TCCCTCTGTAAACTAATATAAGAGTGT 57.289 33.333 0.00 0.00 0.00 3.55
4823 5251 9.813446 AAACACTCTTATATTAGTTTACGGAGG 57.187 33.333 0.00 0.00 0.00 4.30
4824 5252 7.949434 ACACTCTTATATTAGTTTACGGAGGG 58.051 38.462 0.00 0.00 0.00 4.30
4825 5253 7.781693 ACACTCTTATATTAGTTTACGGAGGGA 59.218 37.037 0.00 0.00 0.00 4.20
4826 5254 8.298140 CACTCTTATATTAGTTTACGGAGGGAG 58.702 40.741 0.00 0.00 0.00 4.30
4851 5279 9.408069 AGTAGAACTTTAGTGATCTAAAACGTG 57.592 33.333 0.00 0.00 42.97 4.49
5145 5573 0.106015 ACTTCCCAACTGCAAAGCCT 60.106 50.000 0.00 0.00 0.00 4.58
5203 5631 9.436957 CAAGGTGTACATAACTATCATAATCCC 57.563 37.037 0.00 0.00 0.00 3.85
5210 5638 8.933522 ACATAACTATCATAATCCCCCAGTAT 57.066 34.615 0.00 0.00 0.00 2.12
5249 5677 0.731417 TAGACGCTAGAGAACCACGC 59.269 55.000 0.00 0.00 0.00 5.34
5366 5797 2.821991 ATGACGCTTGTAGCCCTATC 57.178 50.000 0.00 0.00 38.18 2.08
5367 5798 1.776662 TGACGCTTGTAGCCCTATCT 58.223 50.000 0.00 0.00 38.18 1.98
5368 5799 2.940158 TGACGCTTGTAGCCCTATCTA 58.060 47.619 0.00 0.00 38.18 1.98
5369 5800 3.497332 TGACGCTTGTAGCCCTATCTAT 58.503 45.455 0.00 0.00 38.18 1.98
5396 5831 3.857923 CCGAACATTTTTGGCTTTGTG 57.142 42.857 0.00 0.00 28.83 3.33
5454 5895 5.329035 ACCCATGCTGTTATGATGAAAAC 57.671 39.130 0.00 0.00 0.00 2.43
5531 7419 4.769215 GTGAGTGTCACCGTTTTATGTTC 58.231 43.478 0.00 0.00 41.37 3.18
5533 7421 5.007332 GTGAGTGTCACCGTTTTATGTTCTT 59.993 40.000 0.00 0.00 41.37 2.52
5536 7424 3.003897 TGTCACCGTTTTATGTTCTTGGC 59.996 43.478 0.00 0.00 0.00 4.52
5568 7459 9.691362 TTTTAACAGTTTAATCAAGGCAATCTC 57.309 29.630 0.00 0.00 0.00 2.75
5595 7486 7.838884 AGGTCTAAATGGTAAACTGACTACTC 58.161 38.462 0.00 0.00 0.00 2.59
5645 7540 6.037786 TCTAGAATCTCGTGACCACATTTT 57.962 37.500 0.00 0.00 0.00 1.82
5646 7541 6.464222 TCTAGAATCTCGTGACCACATTTTT 58.536 36.000 0.00 0.00 0.00 1.94
5686 7581 5.552472 CGTTCTTTCAACGCATGTTTTTCTG 60.552 40.000 0.00 0.00 35.72 3.02
5695 7590 4.037923 ACGCATGTTTTTCTGTTCTTCCAT 59.962 37.500 0.00 0.00 0.00 3.41
5696 7591 4.984161 CGCATGTTTTTCTGTTCTTCCATT 59.016 37.500 0.00 0.00 0.00 3.16
5720 7615 0.179094 ATGATTTGGCAGCCGCAATG 60.179 50.000 12.52 0.00 41.24 2.82
5742 7688 4.083537 TGCAAGTTTGTTATAGCAGGAACG 60.084 41.667 0.00 0.00 0.00 3.95
5748 7709 3.259064 TGTTATAGCAGGAACGAAGCAC 58.741 45.455 0.00 0.00 0.00 4.40
5823 7794 0.821517 ACAGTGTGTGTGACGAGGAA 59.178 50.000 0.00 0.00 38.28 3.36
5824 7795 1.202417 ACAGTGTGTGTGACGAGGAAG 60.202 52.381 0.00 0.00 38.28 3.46
5825 7796 0.249489 AGTGTGTGTGACGAGGAAGC 60.249 55.000 0.00 0.00 0.00 3.86
5826 7797 0.249489 GTGTGTGTGACGAGGAAGCT 60.249 55.000 0.00 0.00 0.00 3.74
5827 7798 1.000607 GTGTGTGTGACGAGGAAGCTA 60.001 52.381 0.00 0.00 0.00 3.32
5828 7799 1.893137 TGTGTGTGACGAGGAAGCTAT 59.107 47.619 0.00 0.00 0.00 2.97
5829 7800 3.086282 TGTGTGTGACGAGGAAGCTATA 58.914 45.455 0.00 0.00 0.00 1.31
5830 7801 3.699538 TGTGTGTGACGAGGAAGCTATAT 59.300 43.478 0.00 0.00 0.00 0.86
5831 7802 4.885325 TGTGTGTGACGAGGAAGCTATATA 59.115 41.667 0.00 0.00 0.00 0.86
5833 7804 4.885325 TGTGTGACGAGGAAGCTATATACA 59.115 41.667 0.00 0.00 0.00 2.29
5987 8069 0.463204 CCATCTGCTCGGTGATCTGT 59.537 55.000 0.00 0.00 0.00 3.41
6035 8117 0.905337 AGCAGTCTAGGCCGGTCTTT 60.905 55.000 17.04 0.00 0.00 2.52
6055 8137 6.316390 GTCTTTACATCGTCCTTGGATTCATT 59.684 38.462 0.00 0.00 0.00 2.57
6056 8138 6.884295 TCTTTACATCGTCCTTGGATTCATTT 59.116 34.615 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 0.101399 CGGACTCCTCTCCGTGATTG 59.899 60.000 0.00 0.00 46.93 2.67
3 4 2.494677 CGGACTCCTCTCCGTGATT 58.505 57.895 0.00 0.00 46.93 2.57
4 5 4.244326 CGGACTCCTCTCCGTGAT 57.756 61.111 0.00 0.00 46.93 3.06
9 10 3.878519 CGACGCGGACTCCTCTCC 61.879 72.222 12.47 0.00 0.00 3.71
10 11 4.539881 GCGACGCGGACTCCTCTC 62.540 72.222 12.47 0.00 0.00 3.20
172 179 0.398098 GGGGGATTCACGTCTAGGGA 60.398 60.000 0.00 0.00 0.00 4.20
213 231 3.752167 GACGGGGGAGGAGGAGGA 61.752 72.222 0.00 0.00 0.00 3.71
248 266 1.227973 GAATCGGGGGATGGCAGAC 60.228 63.158 0.00 0.00 0.00 3.51
760 1037 1.883084 GGCGCGATTGGACTAGTGG 60.883 63.158 12.10 0.00 0.00 4.00
762 1039 2.104331 CGGCGCGATTGGACTAGT 59.896 61.111 12.10 0.00 0.00 2.57
882 1166 0.972134 CTTGGTGAGGCAGAGAGACA 59.028 55.000 0.00 0.00 0.00 3.41
894 1181 1.070105 GCGTGGGTACACTTGGTGA 59.930 57.895 4.62 0.00 45.50 4.02
929 1220 1.684248 GGTCGGGAGTGGTAGAGCTAA 60.684 57.143 0.00 0.00 0.00 3.09
935 1226 1.305046 ACCAGGTCGGGAGTGGTAG 60.305 63.158 1.64 0.00 42.99 3.18
937 1228 2.748641 ATCACCAGGTCGGGAGTGGT 62.749 60.000 0.00 0.00 45.83 4.16
942 1233 1.968493 GCTATTATCACCAGGTCGGGA 59.032 52.381 0.00 0.00 40.22 5.14
945 1236 7.730364 ATTAAAAGCTATTATCACCAGGTCG 57.270 36.000 0.00 0.00 0.00 4.79
948 1239 8.697507 AGGAATTAAAAGCTATTATCACCAGG 57.302 34.615 0.00 0.00 0.00 4.45
978 1274 1.823899 CGGCCTAAATCACAGGGGC 60.824 63.158 0.00 0.00 41.80 5.80
979 1275 0.463833 GTCGGCCTAAATCACAGGGG 60.464 60.000 0.00 0.00 33.44 4.79
980 1276 0.810031 CGTCGGCCTAAATCACAGGG 60.810 60.000 0.00 0.00 33.44 4.45
994 1315 4.794439 TGCTGCGTCCATCGTCGG 62.794 66.667 0.00 0.00 42.13 4.79
1119 1440 2.615447 GCGATTGAGGATCTTGATTGCA 59.385 45.455 0.00 0.00 33.37 4.08
1226 1547 4.100529 GCGCAAATCTACGTACACTCTAA 58.899 43.478 0.30 0.00 0.00 2.10
1288 1609 9.436957 CAGTTTCTATTTTCTACCTTAGAGCAA 57.563 33.333 0.00 0.00 35.96 3.91
1316 1637 7.823745 AACAGAAACAAGGATGAAGTGTTAT 57.176 32.000 0.00 0.00 34.46 1.89
1317 1638 8.918202 ATAACAGAAACAAGGATGAAGTGTTA 57.082 30.769 0.00 0.00 34.46 2.41
1332 1653 7.559590 AGCATCACAGGATTATAACAGAAAC 57.440 36.000 0.00 0.00 0.00 2.78
1376 1697 1.747206 GCCACATCAGCCCGTAGAAAT 60.747 52.381 0.00 0.00 0.00 2.17
1384 1705 1.974236 ACTAGATAGCCACATCAGCCC 59.026 52.381 0.00 0.00 0.00 5.19
1413 1734 4.755123 AGAAACTACGGATGGTCAGTTTTG 59.245 41.667 0.00 0.00 40.38 2.44
1415 1736 4.618920 AGAAACTACGGATGGTCAGTTT 57.381 40.909 0.00 0.00 42.36 2.66
1418 1739 4.188247 TCAAGAAACTACGGATGGTCAG 57.812 45.455 0.00 0.00 0.00 3.51
1421 1742 5.768164 ACAAATTCAAGAAACTACGGATGGT 59.232 36.000 0.00 0.00 0.00 3.55
1446 1767 8.142994 AGTCACAGACAGTAACTTTTAACATG 57.857 34.615 0.00 0.00 34.60 3.21
1459 1780 1.210478 ACCAGCAAAGTCACAGACAGT 59.790 47.619 0.00 0.00 34.60 3.55
1478 1799 5.220605 GGGAAAAGCACGAGTATATGTTGAC 60.221 44.000 0.00 0.00 0.00 3.18
1494 1815 5.049060 ACAAAACAACAAAAGTGGGAAAAGC 60.049 36.000 0.00 0.00 0.00 3.51
1665 1987 1.063174 CAAGCCGAGCAGCTCATTAAC 59.937 52.381 22.49 6.17 44.11 2.01
1670 1992 0.034756 TTAACAAGCCGAGCAGCTCA 59.965 50.000 22.49 0.00 44.11 4.26
1703 2086 0.728129 TCTGTTAACGAGCGCTCACG 60.728 55.000 34.69 25.47 44.07 4.35
1738 2121 2.168728 CCCTCACTCTTAACCTGTAGGC 59.831 54.545 0.00 0.00 39.32 3.93
1745 2128 2.633481 AGTCACACCCTCACTCTTAACC 59.367 50.000 0.00 0.00 0.00 2.85
1749 2132 3.933861 AAAAGTCACACCCTCACTCTT 57.066 42.857 0.00 0.00 0.00 2.85
1875 2258 6.458210 CACAATCTTTTCTTAGGTGGCAATT 58.542 36.000 0.00 0.00 0.00 2.32
1876 2259 5.567423 GCACAATCTTTTCTTAGGTGGCAAT 60.567 40.000 0.00 0.00 0.00 3.56
1880 2263 4.520492 ACAGCACAATCTTTTCTTAGGTGG 59.480 41.667 0.00 0.00 0.00 4.61
1895 2278 2.131972 CGCTAGTACAACACAGCACAA 58.868 47.619 0.00 0.00 33.48 3.33
1900 2285 2.254459 CAGCTCGCTAGTACAACACAG 58.746 52.381 0.00 0.00 0.00 3.66
1920 2305 3.306818 AGACTTAACGAGTTTCACGAGC 58.693 45.455 0.00 0.00 39.19 5.03
1940 2333 6.709643 CCAATCACTAATTTCAGCTCGTTAG 58.290 40.000 0.00 0.00 0.00 2.34
1955 2348 6.946340 TCTTAATGAACAGAGCCAATCACTA 58.054 36.000 0.00 0.00 0.00 2.74
2030 2423 1.341089 ACGGAGTCCATCAGTAGCTCA 60.341 52.381 10.49 0.00 29.74 4.26
2064 2464 5.180492 TCGAACAATGTAATCAACCAACTCC 59.820 40.000 0.00 0.00 0.00 3.85
2094 2494 8.976471 GTCCTTTCTAACTTACACTAGAAACAC 58.024 37.037 0.00 0.00 38.57 3.32
2110 2510 6.248569 AGTTTGAGAGGTTGTCCTTTCTAA 57.751 37.500 6.41 3.00 45.24 2.10
2118 2518 6.410540 AGGATGAATAGTTTGAGAGGTTGTC 58.589 40.000 0.00 0.00 0.00 3.18
2266 2669 7.767261 TGTAAATCAGCAAAGTAACAAACAGT 58.233 30.769 0.00 0.00 0.00 3.55
2300 2703 0.875474 CAACAAAAGCGGCAAGGGTG 60.875 55.000 1.45 0.00 0.00 4.61
2303 2706 1.650825 AAACAACAAAAGCGGCAAGG 58.349 45.000 1.45 0.00 0.00 3.61
2310 2713 4.157649 CAAAGGTGCAAAACAACAAAAGC 58.842 39.130 0.00 0.00 39.04 3.51
2555 2962 1.268066 ACTCGGGGAAGAGGAAGAAC 58.732 55.000 0.00 0.00 42.31 3.01
2563 2970 0.690192 TGCAATGAACTCGGGGAAGA 59.310 50.000 0.00 0.00 0.00 2.87
2570 2977 4.539870 ACACAATCTTTGCAATGAACTCG 58.460 39.130 17.82 10.26 0.00 4.18
2590 2997 8.189119 AGAATAAAACAATAAAGGGCTTGACA 57.811 30.769 0.00 0.00 0.00 3.58
2653 3061 6.795114 CGGTTAACAAACATGACATGTACTTC 59.205 38.462 21.10 8.46 44.07 3.01
2680 3088 4.056050 ACGAGGTATCAACAGTGACAAAC 58.944 43.478 0.00 0.00 36.31 2.93
2692 3100 4.002906 AGCAGACAAAAACGAGGTATCA 57.997 40.909 0.00 0.00 0.00 2.15
2698 3106 5.845985 TGATAGAAGCAGACAAAAACGAG 57.154 39.130 0.00 0.00 0.00 4.18
2742 3152 5.220710 AGCCTACCATAAGCAGTGAATAG 57.779 43.478 0.00 0.00 0.00 1.73
2970 3380 9.815306 AACAAGCTATTCTAGAGATATACCTCA 57.185 33.333 0.00 0.00 35.68 3.86
2998 3408 7.657336 ACATTTATTAACCCTGTGAAAGTGTG 58.343 34.615 0.00 0.00 0.00 3.82
3562 3973 2.880890 CCACTGTTATAGAATGCCAGCC 59.119 50.000 0.00 0.00 0.00 4.85
3563 3974 3.313526 CACCACTGTTATAGAATGCCAGC 59.686 47.826 0.00 0.00 0.00 4.85
3564 3975 4.572389 GTCACCACTGTTATAGAATGCCAG 59.428 45.833 0.00 0.00 0.00 4.85
3627 4040 0.322648 AGAAAGGGCTGCCATTTTGC 59.677 50.000 29.21 18.66 37.65 3.68
3636 4049 7.337942 AGAAGTGTAATAATGAAGAAAGGGCTG 59.662 37.037 0.00 0.00 0.00 4.85
3664 4078 5.244402 TCAAAATCACTCCTGAACATGCATT 59.756 36.000 0.00 0.00 0.00 3.56
3692 4106 8.817100 CATCGTCAAGCTACAAAATTCATAGTA 58.183 33.333 0.00 0.00 0.00 1.82
3843 4257 7.251704 CCTGCACAGGTAGAATTTAGTAATG 57.748 40.000 8.61 0.00 43.61 1.90
3920 4334 2.742348 TGATACTCGGCTCCAAGGTAA 58.258 47.619 0.00 0.00 0.00 2.85
3990 4405 4.346734 ACAAGAGCATTTGCAATCTACG 57.653 40.909 0.00 0.00 45.16 3.51
4015 4430 5.047306 ACAGCAAATCAGTAGTAGCAGTACA 60.047 40.000 0.00 0.00 0.00 2.90
4022 4437 5.641209 AGAAAGCACAGCAAATCAGTAGTAG 59.359 40.000 0.00 0.00 0.00 2.57
4023 4438 5.409520 CAGAAAGCACAGCAAATCAGTAGTA 59.590 40.000 0.00 0.00 0.00 1.82
4024 4439 4.214971 CAGAAAGCACAGCAAATCAGTAGT 59.785 41.667 0.00 0.00 0.00 2.73
4218 4633 6.295249 AGAATCTAAGGATTTAGGCTTCAGC 58.705 40.000 0.00 0.00 41.68 4.26
4390 4805 5.347620 AGCCATTGTTGTTATGCATCATT 57.652 34.783 0.19 0.00 0.00 2.57
4509 4937 2.486472 AATCAGGACCAGCTCACAAG 57.514 50.000 0.00 0.00 0.00 3.16
4545 4973 9.373750 CTTATGCATTAGATTGTTCATGTAACG 57.626 33.333 3.54 0.00 41.30 3.18
4551 4979 6.774170 TGAGGCTTATGCATTAGATTGTTCAT 59.226 34.615 16.63 0.00 41.91 2.57
4579 5007 8.686334 ACACAAAGAGTAGAAAAACATGTCAAT 58.314 29.630 0.00 0.00 0.00 2.57
4626 5054 4.717778 TGGATCGGAGGGAGTAACAAAATA 59.282 41.667 0.00 0.00 0.00 1.40
4660 5088 4.093408 CGATCCATATTAATTGACGCAGGG 59.907 45.833 0.00 0.00 0.00 4.45
4661 5089 4.093408 CCGATCCATATTAATTGACGCAGG 59.907 45.833 0.00 0.00 0.00 4.85
4747 5175 9.710818 ACACTCTTATATTAGTTTACAGAGGGA 57.289 33.333 2.59 0.00 34.50 4.20
4797 5225 9.813446 CCTCCGTAAACTAATATAAGAGTGTTT 57.187 33.333 0.00 0.00 0.00 2.83
4798 5226 8.419442 CCCTCCGTAAACTAATATAAGAGTGTT 58.581 37.037 0.00 0.00 0.00 3.32
4799 5227 7.781693 TCCCTCCGTAAACTAATATAAGAGTGT 59.218 37.037 0.00 0.00 0.00 3.55
4800 5228 8.174733 TCCCTCCGTAAACTAATATAAGAGTG 57.825 38.462 0.00 0.00 0.00 3.51
4801 5229 8.003629 ACTCCCTCCGTAAACTAATATAAGAGT 58.996 37.037 0.00 0.00 0.00 3.24
4802 5230 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
4803 5231 9.512588 CTACTCCCTCCGTAAACTAATATAAGA 57.487 37.037 0.00 0.00 0.00 2.10
4804 5232 9.512588 TCTACTCCCTCCGTAAACTAATATAAG 57.487 37.037 0.00 0.00 0.00 1.73
4805 5233 9.866655 TTCTACTCCCTCCGTAAACTAATATAA 57.133 33.333 0.00 0.00 0.00 0.98
4806 5234 9.289782 GTTCTACTCCCTCCGTAAACTAATATA 57.710 37.037 0.00 0.00 0.00 0.86
4807 5235 8.003629 AGTTCTACTCCCTCCGTAAACTAATAT 58.996 37.037 0.00 0.00 0.00 1.28
4808 5236 7.349598 AGTTCTACTCCCTCCGTAAACTAATA 58.650 38.462 0.00 0.00 0.00 0.98
4809 5237 6.193504 AGTTCTACTCCCTCCGTAAACTAAT 58.806 40.000 0.00 0.00 0.00 1.73
4810 5238 5.574188 AGTTCTACTCCCTCCGTAAACTAA 58.426 41.667 0.00 0.00 0.00 2.24
4811 5239 5.184892 AGTTCTACTCCCTCCGTAAACTA 57.815 43.478 0.00 0.00 0.00 2.24
4812 5240 4.044946 AGTTCTACTCCCTCCGTAAACT 57.955 45.455 0.00 0.00 0.00 2.66
4813 5241 4.797800 AAGTTCTACTCCCTCCGTAAAC 57.202 45.455 0.00 0.00 0.00 2.01
4814 5242 6.012745 ACTAAAGTTCTACTCCCTCCGTAAA 58.987 40.000 0.00 0.00 0.00 2.01
4815 5243 5.416952 CACTAAAGTTCTACTCCCTCCGTAA 59.583 44.000 0.00 0.00 0.00 3.18
4816 5244 4.946157 CACTAAAGTTCTACTCCCTCCGTA 59.054 45.833 0.00 0.00 0.00 4.02
4817 5245 3.762823 CACTAAAGTTCTACTCCCTCCGT 59.237 47.826 0.00 0.00 0.00 4.69
4818 5246 4.015084 TCACTAAAGTTCTACTCCCTCCG 58.985 47.826 0.00 0.00 0.00 4.63
4819 5247 5.894964 AGATCACTAAAGTTCTACTCCCTCC 59.105 44.000 0.00 0.00 0.00 4.30
4820 5248 8.522542 TTAGATCACTAAAGTTCTACTCCCTC 57.477 38.462 0.00 0.00 35.92 4.30
4821 5249 8.896722 TTTAGATCACTAAAGTTCTACTCCCT 57.103 34.615 0.00 0.00 41.71 4.20
4822 5250 9.368674 GTTTTAGATCACTAAAGTTCTACTCCC 57.631 37.037 0.00 0.00 45.40 4.30
4823 5251 9.074443 CGTTTTAGATCACTAAAGTTCTACTCC 57.926 37.037 0.00 0.00 45.40 3.85
4824 5252 9.623350 ACGTTTTAGATCACTAAAGTTCTACTC 57.377 33.333 0.00 0.00 45.40 2.59
4825 5253 9.408069 CACGTTTTAGATCACTAAAGTTCTACT 57.592 33.333 0.00 0.00 45.40 2.57
4826 5254 9.189723 ACACGTTTTAGATCACTAAAGTTCTAC 57.810 33.333 0.00 0.00 45.40 2.59
4885 5313 9.585099 GAAAATAAGGTTGATTATGAACATGCA 57.415 29.630 0.00 0.00 0.00 3.96
5145 5573 4.681421 CTTCGCAGGAAGCTGTGA 57.319 55.556 0.00 0.00 42.90 3.58
5161 5589 2.102588 ACCTTGACTGTAACTTCGCACT 59.897 45.455 0.00 0.00 0.00 4.40
5210 5638 6.550163 GTCTACATACCCCAGGAGTAGATTA 58.450 44.000 13.91 0.00 41.96 1.75
5249 5677 5.861787 GTCCTGAACCATCAAAATAAAACCG 59.138 40.000 0.00 0.00 34.49 4.44
5366 5797 7.623268 GCCAAAAATGTTCGGCTAAATATAG 57.377 36.000 0.00 0.00 41.50 1.31
5393 5828 9.542462 GGCATTATACTAGTAAAGAACATCACA 57.458 33.333 6.70 0.00 0.00 3.58
5395 5830 7.870954 CCGGCATTATACTAGTAAAGAACATCA 59.129 37.037 6.70 0.00 0.00 3.07
5396 5831 7.148623 GCCGGCATTATACTAGTAAAGAACATC 60.149 40.741 24.80 0.00 0.00 3.06
5454 5895 2.615447 ACAGTTCATGTCAACAGCACAG 59.385 45.455 0.00 0.00 37.75 3.66
5531 7419 8.751302 ATTAAACTGTTAAAATTACCGCCAAG 57.249 30.769 0.00 0.00 32.98 3.61
5533 7421 7.883217 TGATTAAACTGTTAAAATTACCGCCA 58.117 30.769 0.00 0.00 32.98 5.69
5536 7424 8.856247 GCCTTGATTAAACTGTTAAAATTACCG 58.144 33.333 0.00 0.00 32.98 4.02
5568 7459 8.968969 AGTAGTCAGTTTACCATTTAGACCTAG 58.031 37.037 0.00 0.00 0.00 3.02
5595 7486 5.164954 CCTCCTTTTCTGACTTCTAACTCG 58.835 45.833 0.00 0.00 0.00 4.18
5645 7540 8.557864 TGAAAGAACGTGATTCGGTTTTATAAA 58.442 29.630 0.00 0.00 40.67 1.40
5646 7541 8.085720 TGAAAGAACGTGATTCGGTTTTATAA 57.914 30.769 0.00 0.00 40.67 0.98
5647 7542 7.655236 TGAAAGAACGTGATTCGGTTTTATA 57.345 32.000 0.00 0.00 40.67 0.98
5649 7544 5.987777 TGAAAGAACGTGATTCGGTTTTA 57.012 34.783 0.00 0.00 40.67 1.52
5652 7547 3.302870 CGTTGAAAGAACGTGATTCGGTT 60.303 43.478 0.00 0.00 40.67 4.44
5653 7548 2.220133 CGTTGAAAGAACGTGATTCGGT 59.780 45.455 0.00 0.00 44.57 4.69
5654 7549 2.822827 CGTTGAAAGAACGTGATTCGG 58.177 47.619 0.00 0.00 42.69 4.30
5655 7550 2.222624 GCGTTGAAAGAACGTGATTCG 58.777 47.619 8.57 0.00 44.69 3.34
5686 7581 5.464389 GCCAAATCATATGCAATGGAAGAAC 59.536 40.000 18.84 3.42 0.00 3.01
5695 7590 1.067364 CGGCTGCCAAATCATATGCAA 59.933 47.619 20.29 0.00 32.58 4.08
5696 7591 0.669619 CGGCTGCCAAATCATATGCA 59.330 50.000 20.29 0.00 0.00 3.96
5720 7615 4.153475 TCGTTCCTGCTATAACAAACTTGC 59.847 41.667 0.00 0.00 0.00 4.01
5742 7688 1.331756 CCTGACTTGTGTGTGTGCTTC 59.668 52.381 0.00 0.00 0.00 3.86
5748 7709 0.464373 AGTGCCCTGACTTGTGTGTG 60.464 55.000 0.00 0.00 0.00 3.82
5808 7779 1.324383 TAGCTTCCTCGTCACACACA 58.676 50.000 0.00 0.00 0.00 3.72
5829 7800 9.678260 GCATCTCCCTTTCAGATATATTTGTAT 57.322 33.333 3.39 0.00 0.00 2.29
5830 7801 8.884323 AGCATCTCCCTTTCAGATATATTTGTA 58.116 33.333 3.39 0.00 0.00 2.41
5831 7802 7.753630 AGCATCTCCCTTTCAGATATATTTGT 58.246 34.615 3.39 0.00 0.00 2.83
5833 7804 8.223330 ACAAGCATCTCCCTTTCAGATATATTT 58.777 33.333 0.00 0.00 0.00 1.40
5913 7995 0.109723 GCCTACCATTTCCGCCCATA 59.890 55.000 0.00 0.00 0.00 2.74
5917 7999 2.274104 TGGCCTACCATTTCCGCC 59.726 61.111 3.32 0.00 42.67 6.13
5987 8069 1.950909 GGTCACCGGAACAATGTTGAA 59.049 47.619 9.46 0.00 0.00 2.69
6035 8117 5.989477 AGAAATGAATCCAAGGACGATGTA 58.011 37.500 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.