Multiple sequence alignment - TraesCS5A01G032400

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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 TraesCS5A01G032400 chr5A 100.000 2531 0 0 1 2531 29683177 29685707 0.000000e+00 4674.0
1 TraesCS5A01G032400 chr5B 91.371 1773 83 21 70 1824 35531734 35533454 0.000000e+00 2362.0
2 TraesCS5A01G032400 chr5D 89.328 1874 116 26 113 1959 41407996 41409812 0.000000e+00 2276.0
3 TraesCS5A01G032400 chr5D 93.617 94 6 0 2438 2531 41430217 41430310 9.440000e-30 141.0
4 TraesCS5A01G032400 chr3A 98.210 447 8 0 1958 2404 383354335 383353889 0.000000e+00 782.0
5 TraesCS5A01G032400 chr3B 95.323 449 18 3 1955 2403 805263285 805263730 0.000000e+00 710.0
6 TraesCS5A01G032400 chr3D 79.741 464 80 14 1947 2403 453184672 453185128 8.730000e-85 324.0
7 TraesCS5A01G032400 chr1B 97.814 183 3 1 2218 2400 542760619 542760438 5.260000e-82 315.0
8 TraesCS5A01G032400 chr1B 98.675 151 2 0 2083 2233 542760790 542760640 4.150000e-68 268.0
9 TraesCS5A01G032400 chr1B 96.825 126 4 0 1958 2083 542760976 542760851 7.090000e-51 211.0
10 TraesCS5A01G032400 chr2A 77.826 460 88 14 1953 2405 376516390 376516842 3.210000e-69 272.0
11 TraesCS5A01G032400 chr6B 95.161 62 3 0 2335 2396 705282575 705282514 5.760000e-17 99.0
12 TraesCS5A01G032400 chr4B 100.000 33 0 0 2370 2402 606764070 606764038 7.560000e-06 62.1
13 TraesCS5A01G032400 chr7A 94.118 34 2 0 2370 2403 47929916 47929883 5.000000e-03 52.8
14 TraesCS5A01G032400 chr4A 100.000 28 0 0 2370 2397 58558430 58558403 5.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G032400 chr5A 29683177 29685707 2530 False 4674.000000 4674 100.000000 1 2531 1 chr5A.!!$F1 2530
1 TraesCS5A01G032400 chr5B 35531734 35533454 1720 False 2362.000000 2362 91.371000 70 1824 1 chr5B.!!$F1 1754
2 TraesCS5A01G032400 chr5D 41407996 41409812 1816 False 2276.000000 2276 89.328000 113 1959 1 chr5D.!!$F1 1846
3 TraesCS5A01G032400 chr1B 542760438 542760976 538 True 264.666667 315 97.771333 1958 2400 3 chr1B.!!$R1 442

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
33 34 0.386113 CCTAACCACGAGCTAGAGGC 59.614 60.0 10.13 0.0 42.19 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1716 1745 0.179094 ACTGTTGCGACGACTCCAAA 60.179 50.0 0.0 0.0 0.0 3.28 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 3.423380 TCAGGTCCGCTCCTCCTA 58.577 61.111 0.00 0.00 35.37 2.94
18 19 1.695465 TCAGGTCCGCTCCTCCTAA 59.305 57.895 0.00 0.00 35.37 2.69
19 20 0.683504 TCAGGTCCGCTCCTCCTAAC 60.684 60.000 0.00 0.00 35.37 2.34
20 21 1.381463 AGGTCCGCTCCTCCTAACC 60.381 63.158 0.00 0.00 31.32 2.85
21 22 1.684734 GGTCCGCTCCTCCTAACCA 60.685 63.158 0.00 0.00 0.00 3.67
22 23 1.516423 GTCCGCTCCTCCTAACCAC 59.484 63.158 0.00 0.00 0.00 4.16
23 24 2.050350 TCCGCTCCTCCTAACCACG 61.050 63.158 0.00 0.00 0.00 4.94
24 25 2.050350 CCGCTCCTCCTAACCACGA 61.050 63.158 0.00 0.00 0.00 4.35
25 26 1.433879 CGCTCCTCCTAACCACGAG 59.566 63.158 0.00 0.00 0.00 4.18
26 27 1.142097 GCTCCTCCTAACCACGAGC 59.858 63.158 0.00 0.00 39.21 5.03
27 28 1.324005 GCTCCTCCTAACCACGAGCT 61.324 60.000 0.00 0.00 42.13 4.09
28 29 2.022754 GCTCCTCCTAACCACGAGCTA 61.023 57.143 0.00 0.00 42.13 3.32
29 30 1.950909 CTCCTCCTAACCACGAGCTAG 59.049 57.143 0.00 0.00 0.00 3.42
30 31 1.562942 TCCTCCTAACCACGAGCTAGA 59.437 52.381 0.00 0.00 0.00 2.43
31 32 1.950909 CCTCCTAACCACGAGCTAGAG 59.049 57.143 0.00 0.00 0.00 2.43
32 33 1.950909 CTCCTAACCACGAGCTAGAGG 59.049 57.143 8.71 8.71 0.00 3.69
33 34 0.386113 CCTAACCACGAGCTAGAGGC 59.614 60.000 10.13 0.00 42.19 4.70
42 43 4.504132 GCTAGAGGCGGTGTCTTG 57.496 61.111 0.00 0.00 0.00 3.02
43 44 1.811679 GCTAGAGGCGGTGTCTTGC 60.812 63.158 0.00 0.00 36.01 4.01
49 50 3.050275 GCGGTGTCTTGCCTGACC 61.050 66.667 4.14 0.00 36.21 4.02
50 51 2.358737 CGGTGTCTTGCCTGACCC 60.359 66.667 4.14 4.45 36.21 4.46
51 52 2.358737 GGTGTCTTGCCTGACCCG 60.359 66.667 4.14 0.00 36.21 5.28
52 53 2.426023 GTGTCTTGCCTGACCCGT 59.574 61.111 4.14 0.00 36.21 5.28
53 54 1.668151 GTGTCTTGCCTGACCCGTC 60.668 63.158 4.14 0.00 36.21 4.79
54 55 1.837051 TGTCTTGCCTGACCCGTCT 60.837 57.895 4.14 0.00 36.21 4.18
55 56 1.079750 GTCTTGCCTGACCCGTCTC 60.080 63.158 0.00 0.00 0.00 3.36
56 57 2.125912 CTTGCCTGACCCGTCTCG 60.126 66.667 0.00 0.00 0.00 4.04
57 58 4.373116 TTGCCTGACCCGTCTCGC 62.373 66.667 0.00 0.00 0.00 5.03
61 62 3.461773 CTGACCCGTCTCGCCCAT 61.462 66.667 0.00 0.00 0.00 4.00
62 63 2.043752 TGACCCGTCTCGCCCATA 60.044 61.111 0.00 0.00 0.00 2.74
63 64 2.351336 CTGACCCGTCTCGCCCATAC 62.351 65.000 0.00 0.00 0.00 2.39
64 65 3.480225 GACCCGTCTCGCCCATACG 62.480 68.421 0.00 0.00 36.42 3.06
65 66 3.214123 CCCGTCTCGCCCATACGA 61.214 66.667 0.00 0.00 38.89 3.43
66 67 2.561956 CCCGTCTCGCCCATACGAT 61.562 63.158 0.00 0.00 42.02 3.73
67 68 1.081376 CCGTCTCGCCCATACGATC 60.081 63.158 0.00 0.00 42.02 3.69
68 69 1.081376 CGTCTCGCCCATACGATCC 60.081 63.158 0.00 0.00 42.02 3.36
83 84 2.138320 CGATCCTGTCCATCCATTTCG 58.862 52.381 0.00 0.00 0.00 3.46
89 90 1.202639 TGTCCATCCATTTCGATCGGG 60.203 52.381 16.41 8.59 0.00 5.14
149 150 2.128771 ATCCCCAACACCTTGAATCG 57.871 50.000 0.00 0.00 0.00 3.34
152 153 1.960689 CCCCAACACCTTGAATCGTTT 59.039 47.619 0.00 0.00 0.00 3.60
155 156 2.393764 CAACACCTTGAATCGTTTGGC 58.606 47.619 0.00 0.00 0.00 4.52
159 160 3.016736 CACCTTGAATCGTTTGGCCTAT 58.983 45.455 3.32 0.00 0.00 2.57
192 193 1.284198 AGAGTAGGACGGAAGCCTGTA 59.716 52.381 0.00 0.00 37.97 2.74
208 209 7.822822 GGAAGCCTGTATTAAGAAAGTAAGACA 59.177 37.037 0.00 0.00 34.80 3.41
226 227 6.849588 AAGACAAAATTCAATGACAAAGCC 57.150 33.333 0.00 0.00 0.00 4.35
230 231 7.816031 AGACAAAATTCAATGACAAAGCCATAG 59.184 33.333 0.00 0.00 0.00 2.23
231 232 7.444299 ACAAAATTCAATGACAAAGCCATAGT 58.556 30.769 0.00 0.00 0.00 2.12
232 233 7.599998 ACAAAATTCAATGACAAAGCCATAGTC 59.400 33.333 0.00 0.00 0.00 2.59
233 234 6.839124 AATTCAATGACAAAGCCATAGTCA 57.161 33.333 0.00 0.00 45.26 3.41
234 235 5.627499 TTCAATGACAAAGCCATAGTCAC 57.373 39.130 0.00 0.00 44.15 3.67
235 236 4.009675 TCAATGACAAAGCCATAGTCACC 58.990 43.478 0.00 0.00 44.15 4.02
239 259 1.071699 ACAAAGCCATAGTCACCACGT 59.928 47.619 0.00 0.00 0.00 4.49
268 288 1.301716 GCACTCGTCTCTTTGGCCA 60.302 57.895 0.00 0.00 0.00 5.36
392 412 2.625790 TCCCTGGAACGGAACAAAAATG 59.374 45.455 0.00 0.00 36.31 2.32
505 525 5.822519 TGTTATTGGATGGATGCACTCTAAC 59.177 40.000 0.00 0.00 0.00 2.34
506 526 3.998913 TTGGATGGATGCACTCTAACA 57.001 42.857 0.00 0.00 0.00 2.41
663 685 3.379372 GCCACACAATGCTGAGTTCATAT 59.621 43.478 0.00 0.00 0.00 1.78
664 686 4.497006 GCCACACAATGCTGAGTTCATATC 60.497 45.833 0.00 0.00 0.00 1.63
665 687 4.880120 CCACACAATGCTGAGTTCATATCT 59.120 41.667 0.00 0.00 0.00 1.98
666 688 5.220796 CCACACAATGCTGAGTTCATATCTG 60.221 44.000 0.00 0.00 0.00 2.90
667 689 5.583457 CACACAATGCTGAGTTCATATCTGA 59.417 40.000 0.00 0.00 0.00 3.27
668 690 5.816258 ACACAATGCTGAGTTCATATCTGAG 59.184 40.000 0.00 0.00 31.68 3.35
669 691 5.816258 CACAATGCTGAGTTCATATCTGAGT 59.184 40.000 0.00 0.00 31.68 3.41
670 692 6.315642 CACAATGCTGAGTTCATATCTGAGTT 59.684 38.462 0.00 0.00 31.68 3.01
671 693 6.538021 ACAATGCTGAGTTCATATCTGAGTTC 59.462 38.462 0.00 0.00 31.68 3.01
672 694 5.665916 TGCTGAGTTCATATCTGAGTTCA 57.334 39.130 0.00 0.00 31.68 3.18
673 695 6.231258 TGCTGAGTTCATATCTGAGTTCAT 57.769 37.500 0.00 0.00 31.68 2.57
674 696 7.352079 TGCTGAGTTCATATCTGAGTTCATA 57.648 36.000 0.00 0.00 31.68 2.15
830 852 5.948992 ATTGTAGAGAGTTTCTTGCCAAC 57.051 39.130 0.00 0.00 37.36 3.77
997 1019 4.179579 GCGGTGAGCGATTTGGCC 62.180 66.667 8.74 0.00 35.41 5.36
999 1021 3.140814 GGTGAGCGATTTGGCCCC 61.141 66.667 0.00 0.00 0.00 5.80
1230 1252 0.951558 GGGACTGCAACAACGACAAT 59.048 50.000 0.00 0.00 0.00 2.71
1491 1513 2.436087 CTTTCGTCACCCAGTCCGCT 62.436 60.000 0.00 0.00 0.00 5.52
1494 1516 3.681835 GTCACCCAGTCCGCTCGT 61.682 66.667 0.00 0.00 0.00 4.18
1571 1593 4.579127 GCCATCGGTAGGCCATTT 57.421 55.556 5.01 0.00 46.50 2.32
1574 1596 2.514803 GCCATCGGTAGGCCATTTATT 58.485 47.619 5.01 0.00 46.50 1.40
1589 1611 4.262377 CCATTTATTGGTTGTGGTGCTTCA 60.262 41.667 0.00 0.00 40.99 3.02
1599 1621 5.508825 GGTTGTGGTGCTTCAATCATTGTTA 60.509 40.000 0.00 0.00 0.00 2.41
1610 1632 8.550376 GCTTCAATCATTGTTATTGTTGTTGTT 58.450 29.630 0.00 0.00 36.07 2.83
1636 1658 9.161629 TGTTGTTGTTGTATCTATATTGTGAGG 57.838 33.333 0.00 0.00 0.00 3.86
1673 1695 0.613012 AAGGGGTTCTCTTGCCATGC 60.613 55.000 0.00 0.00 0.00 4.06
1693 1722 6.149973 CCATGCTTGTTTAGTCAGAATCTTCA 59.850 38.462 0.00 0.00 0.00 3.02
1724 1753 7.792374 TTATGTCAAGCATATCTTTGGAGTC 57.208 36.000 0.00 0.00 39.56 3.36
1764 1793 2.447408 TATGAGGAACGGGTAGCAGA 57.553 50.000 0.00 0.00 0.00 4.26
1798 1827 7.815549 TGTTGAATACTAGTCGTTGCATAAAGA 59.184 33.333 0.00 0.00 0.00 2.52
1838 1867 4.318332 TCTCACATGCTTCTTTCGTTCAT 58.682 39.130 0.00 0.00 0.00 2.57
1841 1870 4.631377 TCACATGCTTCTTTCGTTCATAGG 59.369 41.667 0.00 0.00 0.00 2.57
1843 1872 2.985896 TGCTTCTTTCGTTCATAGGGG 58.014 47.619 0.00 0.00 0.00 4.79
1867 1896 6.381133 GGAAAATGGAGGGAACATGTAGAAAT 59.619 38.462 0.00 0.00 0.00 2.17
1889 1918 8.785329 AAATAGAAAAGTTTCTTTTGGCAACA 57.215 26.923 11.36 0.00 44.70 3.33
1890 1919 8.962884 AATAGAAAAGTTTCTTTTGGCAACAT 57.037 26.923 11.36 0.00 46.19 2.71
1926 1955 5.574970 AATTTACAGGAATGGGGCAAAAA 57.425 34.783 0.00 0.00 0.00 1.94
1927 1956 5.777526 ATTTACAGGAATGGGGCAAAAAT 57.222 34.783 0.00 0.00 0.00 1.82
1928 1957 6.882768 ATTTACAGGAATGGGGCAAAAATA 57.117 33.333 0.00 0.00 0.00 1.40
2080 2110 3.185797 GCTGGTCGTAGTACAAAAACCTG 59.814 47.826 0.38 7.22 0.00 4.00
2127 2218 5.239525 AGAAATTGGAAAACGAGGAGTTCAG 59.760 40.000 0.00 0.00 43.37 3.02
2136 2227 5.615925 AACGAGGAGTTCAGGCTATTTAT 57.384 39.130 0.00 0.00 39.16 1.40
2275 2402 2.918712 CCAAGACTAGCGATTGGGAT 57.081 50.000 11.58 0.00 39.87 3.85
2366 2493 4.451900 GAGAAGCCGGATTTGAGGATTTA 58.548 43.478 6.32 0.00 36.13 1.40
2403 2530 2.528041 CCGAACAGGCCCTTAGTATC 57.472 55.000 0.00 0.00 0.00 2.24
2404 2531 1.760613 CCGAACAGGCCCTTAGTATCA 59.239 52.381 0.00 0.00 0.00 2.15
2405 2532 2.169769 CCGAACAGGCCCTTAGTATCAA 59.830 50.000 0.00 0.00 0.00 2.57
2406 2533 3.370103 CCGAACAGGCCCTTAGTATCAAA 60.370 47.826 0.00 0.00 0.00 2.69
2407 2534 3.871594 CGAACAGGCCCTTAGTATCAAAG 59.128 47.826 0.00 0.00 0.00 2.77
2408 2535 3.933861 ACAGGCCCTTAGTATCAAAGG 57.066 47.619 0.00 0.00 42.73 3.11
2409 2536 3.460825 ACAGGCCCTTAGTATCAAAGGA 58.539 45.455 0.00 0.00 45.41 3.36
2410 2537 3.850173 ACAGGCCCTTAGTATCAAAGGAA 59.150 43.478 0.00 0.00 45.41 3.36
2411 2538 4.291249 ACAGGCCCTTAGTATCAAAGGAAA 59.709 41.667 0.00 0.00 45.41 3.13
2412 2539 5.222254 ACAGGCCCTTAGTATCAAAGGAAAA 60.222 40.000 0.00 0.00 45.41 2.29
2413 2540 5.714806 CAGGCCCTTAGTATCAAAGGAAAAA 59.285 40.000 0.00 0.00 45.41 1.94
2414 2541 5.715279 AGGCCCTTAGTATCAAAGGAAAAAC 59.285 40.000 0.00 0.00 45.41 2.43
2415 2542 5.479027 GGCCCTTAGTATCAAAGGAAAAACA 59.521 40.000 3.44 0.00 45.41 2.83
2416 2543 6.387465 GCCCTTAGTATCAAAGGAAAAACAC 58.613 40.000 3.44 0.00 45.41 3.32
2417 2544 6.015772 GCCCTTAGTATCAAAGGAAAAACACA 60.016 38.462 3.44 0.00 45.41 3.72
2418 2545 7.470841 GCCCTTAGTATCAAAGGAAAAACACAA 60.471 37.037 3.44 0.00 45.41 3.33
2419 2546 7.865889 CCCTTAGTATCAAAGGAAAAACACAAC 59.134 37.037 3.44 0.00 45.41 3.32
2420 2547 8.410141 CCTTAGTATCAAAGGAAAAACACAACA 58.590 33.333 0.00 0.00 45.41 3.33
2421 2548 9.796120 CTTAGTATCAAAGGAAAAACACAACAA 57.204 29.630 0.00 0.00 0.00 2.83
2424 2551 9.495572 AGTATCAAAGGAAAAACACAACAAAAA 57.504 25.926 0.00 0.00 0.00 1.94
2447 2574 7.939784 AAAAATTACAACTCATCCTACCTCC 57.060 36.000 0.00 0.00 0.00 4.30
2448 2575 6.893020 AAATTACAACTCATCCTACCTCCT 57.107 37.500 0.00 0.00 0.00 3.69
2449 2576 6.893020 AATTACAACTCATCCTACCTCCTT 57.107 37.500 0.00 0.00 0.00 3.36
2450 2577 6.893020 ATTACAACTCATCCTACCTCCTTT 57.107 37.500 0.00 0.00 0.00 3.11
2451 2578 6.697641 TTACAACTCATCCTACCTCCTTTT 57.302 37.500 0.00 0.00 0.00 2.27
2452 2579 7.801893 TTACAACTCATCCTACCTCCTTTTA 57.198 36.000 0.00 0.00 0.00 1.52
2453 2580 6.301169 ACAACTCATCCTACCTCCTTTTAG 57.699 41.667 0.00 0.00 0.00 1.85
2454 2581 6.023603 ACAACTCATCCTACCTCCTTTTAGA 58.976 40.000 0.00 0.00 0.00 2.10
2455 2582 6.674419 ACAACTCATCCTACCTCCTTTTAGAT 59.326 38.462 0.00 0.00 0.00 1.98
2456 2583 7.182930 ACAACTCATCCTACCTCCTTTTAGATT 59.817 37.037 0.00 0.00 0.00 2.40
2457 2584 7.757242 ACTCATCCTACCTCCTTTTAGATTT 57.243 36.000 0.00 0.00 0.00 2.17
2458 2585 7.797062 ACTCATCCTACCTCCTTTTAGATTTC 58.203 38.462 0.00 0.00 0.00 2.17
2459 2586 7.138054 TCATCCTACCTCCTTTTAGATTTCC 57.862 40.000 0.00 0.00 0.00 3.13
2460 2587 6.909158 TCATCCTACCTCCTTTTAGATTTCCT 59.091 38.462 0.00 0.00 0.00 3.36
2461 2588 8.071854 TCATCCTACCTCCTTTTAGATTTCCTA 58.928 37.037 0.00 0.00 0.00 2.94
2462 2589 7.672122 TCCTACCTCCTTTTAGATTTCCTAC 57.328 40.000 0.00 0.00 0.00 3.18
2463 2590 7.194050 TCCTACCTCCTTTTAGATTTCCTACA 58.806 38.462 0.00 0.00 0.00 2.74
2464 2591 7.125356 TCCTACCTCCTTTTAGATTTCCTACAC 59.875 40.741 0.00 0.00 0.00 2.90
2465 2592 6.697641 ACCTCCTTTTAGATTTCCTACACA 57.302 37.500 0.00 0.00 0.00 3.72
2466 2593 7.086685 ACCTCCTTTTAGATTTCCTACACAA 57.913 36.000 0.00 0.00 0.00 3.33
2467 2594 7.168905 ACCTCCTTTTAGATTTCCTACACAAG 58.831 38.462 0.00 0.00 0.00 3.16
2468 2595 7.017254 ACCTCCTTTTAGATTTCCTACACAAGA 59.983 37.037 0.00 0.00 0.00 3.02
2469 2596 7.883311 CCTCCTTTTAGATTTCCTACACAAGAA 59.117 37.037 0.00 0.00 0.00 2.52
2470 2597 8.617290 TCCTTTTAGATTTCCTACACAAGAAC 57.383 34.615 0.00 0.00 0.00 3.01
2471 2598 7.386848 TCCTTTTAGATTTCCTACACAAGAACG 59.613 37.037 0.00 0.00 0.00 3.95
2472 2599 7.360946 CCTTTTAGATTTCCTACACAAGAACGG 60.361 40.741 0.00 0.00 0.00 4.44
2473 2600 4.884668 AGATTTCCTACACAAGAACGGA 57.115 40.909 0.00 0.00 0.00 4.69
2474 2601 5.223449 AGATTTCCTACACAAGAACGGAA 57.777 39.130 0.00 0.00 32.30 4.30
2475 2602 5.617252 AGATTTCCTACACAAGAACGGAAA 58.383 37.500 0.00 0.00 44.87 3.13
2477 2604 5.682943 TTTCCTACACAAGAACGGAAATG 57.317 39.130 0.00 0.00 38.45 2.32
2478 2605 3.670625 TCCTACACAAGAACGGAAATGG 58.329 45.455 0.00 0.00 0.00 3.16
2479 2606 2.747446 CCTACACAAGAACGGAAATGGG 59.253 50.000 0.00 0.00 0.00 4.00
2480 2607 1.616159 ACACAAGAACGGAAATGGGG 58.384 50.000 0.00 0.00 0.00 4.96
2481 2608 1.133606 ACACAAGAACGGAAATGGGGT 60.134 47.619 0.00 0.00 0.00 4.95
2482 2609 1.539827 CACAAGAACGGAAATGGGGTC 59.460 52.381 0.00 0.00 0.00 4.46
2483 2610 1.423921 ACAAGAACGGAAATGGGGTCT 59.576 47.619 0.00 0.00 0.00 3.85
2484 2611 2.158519 ACAAGAACGGAAATGGGGTCTT 60.159 45.455 0.00 0.00 0.00 3.01
2485 2612 2.488153 CAAGAACGGAAATGGGGTCTTC 59.512 50.000 0.00 0.00 0.00 2.87
2486 2613 1.702957 AGAACGGAAATGGGGTCTTCA 59.297 47.619 0.00 0.00 0.00 3.02
2487 2614 2.107552 AGAACGGAAATGGGGTCTTCAA 59.892 45.455 0.00 0.00 0.00 2.69
2488 2615 1.905637 ACGGAAATGGGGTCTTCAAC 58.094 50.000 0.00 0.00 0.00 3.18
2489 2616 0.802494 CGGAAATGGGGTCTTCAACG 59.198 55.000 0.00 0.00 0.00 4.10
2490 2617 1.609580 CGGAAATGGGGTCTTCAACGA 60.610 52.381 0.00 0.00 0.00 3.85
2491 2618 1.810755 GGAAATGGGGTCTTCAACGAC 59.189 52.381 0.00 0.00 0.00 4.34
2492 2619 2.552373 GGAAATGGGGTCTTCAACGACT 60.552 50.000 0.00 0.00 34.38 4.18
2493 2620 2.951229 AATGGGGTCTTCAACGACTT 57.049 45.000 0.00 0.00 34.38 3.01
2494 2621 4.320870 GAAATGGGGTCTTCAACGACTTA 58.679 43.478 0.00 0.00 34.38 2.24
2495 2622 4.360951 AATGGGGTCTTCAACGACTTAA 57.639 40.909 0.00 0.00 34.38 1.85
2496 2623 3.842007 TGGGGTCTTCAACGACTTAAA 57.158 42.857 0.00 0.00 34.38 1.52
2497 2624 3.469739 TGGGGTCTTCAACGACTTAAAC 58.530 45.455 0.00 0.00 34.38 2.01
2498 2625 2.477754 GGGGTCTTCAACGACTTAAACG 59.522 50.000 0.00 0.00 34.38 3.60
2499 2626 3.126073 GGGTCTTCAACGACTTAAACGT 58.874 45.455 0.00 2.25 45.89 3.99
2500 2627 4.298332 GGGTCTTCAACGACTTAAACGTA 58.702 43.478 7.58 0.00 43.16 3.57
2501 2628 4.744631 GGGTCTTCAACGACTTAAACGTAA 59.255 41.667 7.58 0.75 43.16 3.18
2502 2629 5.332581 GGGTCTTCAACGACTTAAACGTAAC 60.333 44.000 7.58 0.00 43.16 2.50
2503 2630 5.231991 GGTCTTCAACGACTTAAACGTAACA 59.768 40.000 7.58 0.00 43.16 2.41
2504 2631 6.237808 GGTCTTCAACGACTTAAACGTAACAA 60.238 38.462 7.58 2.24 43.16 2.83
2505 2632 6.621017 GTCTTCAACGACTTAAACGTAACAAC 59.379 38.462 7.58 1.82 43.16 3.32
2506 2633 6.309980 TCTTCAACGACTTAAACGTAACAACA 59.690 34.615 7.58 0.00 43.16 3.33
2507 2634 6.586868 TCAACGACTTAAACGTAACAACAT 57.413 33.333 7.58 0.00 43.16 2.71
2508 2635 6.639212 TCAACGACTTAAACGTAACAACATC 58.361 36.000 7.58 0.00 43.16 3.06
2509 2636 6.476380 TCAACGACTTAAACGTAACAACATCT 59.524 34.615 7.58 0.00 43.16 2.90
2510 2637 6.833342 ACGACTTAAACGTAACAACATCTT 57.167 33.333 5.73 0.00 42.17 2.40
2511 2638 7.928908 ACGACTTAAACGTAACAACATCTTA 57.071 32.000 5.73 0.00 42.17 2.10
2512 2639 8.351495 ACGACTTAAACGTAACAACATCTTAA 57.649 30.769 5.73 0.00 42.17 1.85
2513 2640 8.981647 ACGACTTAAACGTAACAACATCTTAAT 58.018 29.630 5.73 0.00 42.17 1.40
2514 2641 9.801714 CGACTTAAACGTAACAACATCTTAATT 57.198 29.630 0.00 0.00 0.00 1.40
2530 2657 9.407380 ACATCTTAATTATACTTTGCATGTGGA 57.593 29.630 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.683504 GTTAGGAGGAGCGGACCTGA 60.684 60.000 4.99 0.00 40.73 3.86
1 2 1.677637 GGTTAGGAGGAGCGGACCTG 61.678 65.000 4.99 0.00 40.73 4.00
2 3 1.381463 GGTTAGGAGGAGCGGACCT 60.381 63.158 0.00 0.00 43.64 3.85
3 4 1.684734 TGGTTAGGAGGAGCGGACC 60.685 63.158 0.00 0.00 0.00 4.46
4 5 1.516423 GTGGTTAGGAGGAGCGGAC 59.484 63.158 0.00 0.00 0.00 4.79
5 6 2.050350 CGTGGTTAGGAGGAGCGGA 61.050 63.158 0.00 0.00 0.00 5.54
6 7 2.005960 CTCGTGGTTAGGAGGAGCGG 62.006 65.000 0.00 0.00 35.66 5.52
7 8 1.433879 CTCGTGGTTAGGAGGAGCG 59.566 63.158 0.00 0.00 35.66 5.03
8 9 1.142097 GCTCGTGGTTAGGAGGAGC 59.858 63.158 0.00 0.00 42.30 4.70
9 10 1.950909 CTAGCTCGTGGTTAGGAGGAG 59.049 57.143 0.00 0.00 38.83 3.69
10 11 1.562942 TCTAGCTCGTGGTTAGGAGGA 59.437 52.381 0.00 0.00 38.83 3.71
11 12 1.950909 CTCTAGCTCGTGGTTAGGAGG 59.049 57.143 0.00 0.00 38.83 4.30
12 13 1.950909 CCTCTAGCTCGTGGTTAGGAG 59.049 57.143 10.55 8.58 40.80 3.69
13 14 2.022754 GCCTCTAGCTCGTGGTTAGGA 61.023 57.143 17.07 4.91 38.99 2.94
14 15 0.386113 GCCTCTAGCTCGTGGTTAGG 59.614 60.000 8.02 11.35 38.99 2.69
15 16 0.029567 CGCCTCTAGCTCGTGGTTAG 59.970 60.000 8.02 0.00 40.39 2.34
16 17 1.381928 CCGCCTCTAGCTCGTGGTTA 61.382 60.000 8.02 0.00 40.39 2.85
17 18 2.711922 CCGCCTCTAGCTCGTGGTT 61.712 63.158 8.02 0.00 40.39 3.67
18 19 3.141488 CCGCCTCTAGCTCGTGGT 61.141 66.667 8.02 0.00 40.39 4.16
19 20 3.141488 ACCGCCTCTAGCTCGTGG 61.141 66.667 2.08 2.08 40.39 4.94
20 21 2.103143 CACCGCCTCTAGCTCGTG 59.897 66.667 0.00 0.00 40.39 4.35
21 22 2.361357 ACACCGCCTCTAGCTCGT 60.361 61.111 0.00 0.00 40.39 4.18
22 23 1.658686 AAGACACCGCCTCTAGCTCG 61.659 60.000 0.00 0.00 40.39 5.03
23 24 0.179124 CAAGACACCGCCTCTAGCTC 60.179 60.000 0.00 0.00 40.39 4.09
24 25 1.893786 CAAGACACCGCCTCTAGCT 59.106 57.895 0.00 0.00 40.39 3.32
25 26 1.811679 GCAAGACACCGCCTCTAGC 60.812 63.158 0.00 0.00 38.52 3.42
26 27 1.153549 GGCAAGACACCGCCTCTAG 60.154 63.158 0.00 0.00 45.29 2.43
27 28 2.978824 GGCAAGACACCGCCTCTA 59.021 61.111 0.00 0.00 45.29 2.43
32 33 3.050275 GGTCAGGCAAGACACCGC 61.050 66.667 11.40 0.00 40.29 5.68
33 34 2.358737 GGGTCAGGCAAGACACCG 60.359 66.667 11.40 0.00 40.29 4.94
34 35 2.358737 CGGGTCAGGCAAGACACC 60.359 66.667 11.40 9.06 38.73 4.16
35 36 1.668151 GACGGGTCAGGCAAGACAC 60.668 63.158 11.40 7.26 40.29 3.67
36 37 1.816863 GAGACGGGTCAGGCAAGACA 61.817 60.000 11.40 0.00 40.29 3.41
37 38 1.079750 GAGACGGGTCAGGCAAGAC 60.080 63.158 1.17 1.92 37.80 3.01
38 39 2.636412 CGAGACGGGTCAGGCAAGA 61.636 63.158 1.17 0.00 0.00 3.02
39 40 2.125912 CGAGACGGGTCAGGCAAG 60.126 66.667 1.17 0.00 0.00 4.01
40 41 4.373116 GCGAGACGGGTCAGGCAA 62.373 66.667 1.17 0.00 32.62 4.52
44 45 2.125326 TATGGGCGAGACGGGTCAG 61.125 63.158 1.17 0.00 0.00 3.51
45 46 2.043752 TATGGGCGAGACGGGTCA 60.044 61.111 1.17 0.00 0.00 4.02
46 47 2.416260 GTATGGGCGAGACGGGTC 59.584 66.667 0.00 0.00 0.00 4.46
47 48 3.524606 CGTATGGGCGAGACGGGT 61.525 66.667 8.86 0.00 35.58 5.28
48 49 2.473664 GATCGTATGGGCGAGACGGG 62.474 65.000 16.28 0.00 44.43 5.28
49 50 1.081376 GATCGTATGGGCGAGACGG 60.081 63.158 16.28 0.00 44.43 4.79
50 51 1.081376 GGATCGTATGGGCGAGACG 60.081 63.158 10.48 10.48 44.43 4.18
51 52 0.039074 CAGGATCGTATGGGCGAGAC 60.039 60.000 0.00 0.00 44.43 3.36
52 53 0.467474 ACAGGATCGTATGGGCGAGA 60.467 55.000 0.00 0.00 44.43 4.04
53 54 0.039074 GACAGGATCGTATGGGCGAG 60.039 60.000 0.00 0.00 44.43 5.03
54 55 1.461091 GGACAGGATCGTATGGGCGA 61.461 60.000 0.00 0.00 45.32 5.54
55 56 1.006102 GGACAGGATCGTATGGGCG 60.006 63.158 0.00 0.00 0.00 6.13
56 57 0.687354 ATGGACAGGATCGTATGGGC 59.313 55.000 0.00 0.00 0.00 5.36
57 58 1.276421 GGATGGACAGGATCGTATGGG 59.724 57.143 0.00 0.00 0.00 4.00
58 59 1.970640 TGGATGGACAGGATCGTATGG 59.029 52.381 0.00 0.00 0.00 2.74
59 60 3.969287 ATGGATGGACAGGATCGTATG 57.031 47.619 0.00 0.00 0.00 2.39
60 61 4.561530 CGAAATGGATGGACAGGATCGTAT 60.562 45.833 0.00 0.00 0.00 3.06
61 62 3.243737 CGAAATGGATGGACAGGATCGTA 60.244 47.826 0.00 0.00 0.00 3.43
62 63 2.483714 CGAAATGGATGGACAGGATCGT 60.484 50.000 0.00 0.00 0.00 3.73
63 64 2.138320 CGAAATGGATGGACAGGATCG 58.862 52.381 0.00 0.00 0.00 3.69
64 65 3.475566 TCGAAATGGATGGACAGGATC 57.524 47.619 0.00 0.00 0.00 3.36
65 66 3.555795 CGATCGAAATGGATGGACAGGAT 60.556 47.826 10.26 0.00 0.00 3.24
66 67 2.224042 CGATCGAAATGGATGGACAGGA 60.224 50.000 10.26 0.00 0.00 3.86
67 68 2.138320 CGATCGAAATGGATGGACAGG 58.862 52.381 10.26 0.00 0.00 4.00
68 69 2.138320 CCGATCGAAATGGATGGACAG 58.862 52.381 18.66 0.00 0.00 3.51
89 90 2.180159 TTTAGTCAGAGGGTGGCCGC 62.180 60.000 8.12 8.12 0.00 6.53
159 160 8.985315 TCCGTCCTACTCTATAAATAAAGTCA 57.015 34.615 0.00 0.00 0.00 3.41
180 181 5.161943 ACTTTCTTAATACAGGCTTCCGT 57.838 39.130 0.00 0.00 0.00 4.69
183 184 8.773404 TGTCTTACTTTCTTAATACAGGCTTC 57.227 34.615 0.00 0.00 0.00 3.86
208 209 7.599998 GTGACTATGGCTTTGTCATTGAATTTT 59.400 33.333 17.59 0.00 41.78 1.82
215 216 3.758554 GTGGTGACTATGGCTTTGTCATT 59.241 43.478 17.59 0.00 41.78 2.57
234 235 2.181021 GCTAGTCGGACCACGTGG 59.819 66.667 32.83 32.83 44.69 4.94
235 236 1.443872 GTGCTAGTCGGACCACGTG 60.444 63.158 9.08 9.08 44.69 4.49
239 259 1.303074 ACGAGTGCTAGTCGGACCA 60.303 57.895 4.14 0.00 44.80 4.02
244 264 2.510874 CAAAGAGACGAGTGCTAGTCG 58.489 52.381 10.54 10.54 45.89 4.18
268 288 1.988107 TCTTGAGCTCATGGGGAACTT 59.012 47.619 24.74 0.00 0.00 2.66
392 412 4.599047 TGGAAATGACAAATGACCCAAC 57.401 40.909 0.00 0.00 0.00 3.77
505 525 4.665833 TGTCGGGGTACATATTCTCTTG 57.334 45.455 0.00 0.00 0.00 3.02
506 526 5.687166 TTTGTCGGGGTACATATTCTCTT 57.313 39.130 0.00 0.00 0.00 2.85
627 649 3.826524 TGTGTGGCCAGAAAATTACAGA 58.173 40.909 5.11 0.00 0.00 3.41
687 709 8.766476 CATGTATCCAGAAGGTAATGATAGGAT 58.234 37.037 0.00 0.00 38.17 3.24
704 726 5.934043 CGAAAATATCCTCTGCATGTATCCA 59.066 40.000 0.00 0.00 0.00 3.41
705 727 6.166279 TCGAAAATATCCTCTGCATGTATCC 58.834 40.000 0.00 0.00 0.00 2.59
830 852 2.755103 GCCTAATCCTGACCAACCAAAG 59.245 50.000 0.00 0.00 0.00 2.77
845 867 8.577164 TTAGTTATAGGAGGGAAAAGCCTAAT 57.423 34.615 0.00 0.00 37.78 1.73
990 1012 1.152483 CGGATCCATGGGGCCAAAT 60.152 57.895 13.02 0.00 0.00 2.32
992 1014 3.819652 CCGGATCCATGGGGCCAA 61.820 66.667 13.02 0.00 0.00 4.52
996 1018 2.448542 ACCTCCGGATCCATGGGG 60.449 66.667 13.02 13.98 0.00 4.96
997 1019 2.072487 ACACCTCCGGATCCATGGG 61.072 63.158 13.02 12.00 0.00 4.00
999 1021 1.146930 CCACACCTCCGGATCCATG 59.853 63.158 13.41 3.56 0.00 3.66
1047 1069 3.123620 CTGCTGCTCCGGCTTGTC 61.124 66.667 0.00 0.00 39.59 3.18
1230 1252 2.288213 GGATGCGTCGAACTCATGGATA 60.288 50.000 0.00 0.00 0.00 2.59
1293 1315 2.758089 CGCCGACTGTAGGTACGCT 61.758 63.158 8.76 0.00 0.00 5.07
1449 1471 3.147595 CAGATCTCGGCGGGGTCA 61.148 66.667 23.81 0.00 0.00 4.02
1494 1516 3.909258 GAAGAAGGCGGCGACACGA 62.909 63.158 18.30 0.00 35.47 4.35
1571 1593 4.148079 TGATTGAAGCACCACAACCAATA 58.852 39.130 0.00 0.00 0.00 1.90
1574 1596 2.064434 TGATTGAAGCACCACAACCA 57.936 45.000 0.00 0.00 0.00 3.67
1589 1611 9.160496 ACAACAACAACAACAATAACAATGATT 57.840 25.926 0.00 0.00 0.00 2.57
1599 1621 7.816995 AGATACAACAACAACAACAACAACAAT 59.183 29.630 0.00 0.00 0.00 2.71
1610 1632 9.161629 CCTCACAATATAGATACAACAACAACA 57.838 33.333 0.00 0.00 0.00 3.33
1636 1658 2.616510 CCTTAGCCAGGCCAGCATATAC 60.617 54.545 18.87 0.00 35.13 1.47
1643 1665 2.558380 GAACCCCTTAGCCAGGCCAG 62.558 65.000 8.22 4.32 42.29 4.85
1658 1680 1.251251 ACAAGCATGGCAAGAGAACC 58.749 50.000 0.00 0.00 0.00 3.62
1659 1681 3.375782 AAACAAGCATGGCAAGAGAAC 57.624 42.857 0.00 0.00 0.00 3.01
1699 1728 7.172190 CGACTCCAAAGATATGCTTGACATAAT 59.828 37.037 0.00 0.00 44.36 1.28
1705 1734 4.433615 GACGACTCCAAAGATATGCTTGA 58.566 43.478 0.00 0.00 36.80 3.02
1716 1745 0.179094 ACTGTTGCGACGACTCCAAA 60.179 50.000 0.00 0.00 0.00 3.28
1746 1775 0.824759 GTCTGCTACCCGTTCCTCAT 59.175 55.000 0.00 0.00 0.00 2.90
1764 1793 7.724305 ACGACTAGTATTCAACAACAAATGT 57.276 32.000 0.00 0.00 46.82 2.71
1798 1827 3.265221 TGAGATTTTCAGTGGCCATCTCT 59.735 43.478 23.87 9.75 40.34 3.10
1838 1867 2.650013 TGTTCCCTCCATTTTCCCCTA 58.350 47.619 0.00 0.00 0.00 3.53
1841 1870 2.820178 ACATGTTCCCTCCATTTTCCC 58.180 47.619 0.00 0.00 0.00 3.97
1843 1872 6.834168 TTTCTACATGTTCCCTCCATTTTC 57.166 37.500 2.30 0.00 0.00 2.29
1902 1931 5.669164 TTTGCCCCATTCCTGTAAATTAC 57.331 39.130 0.00 0.00 0.00 1.89
1943 1972 4.677182 ACAGGCCCTAAGATCAAACATTT 58.323 39.130 0.00 0.00 0.00 2.32
1944 1973 4.322057 ACAGGCCCTAAGATCAAACATT 57.678 40.909 0.00 0.00 0.00 2.71
1945 1974 4.273318 GAACAGGCCCTAAGATCAAACAT 58.727 43.478 0.00 0.00 0.00 2.71
2048 2078 0.325296 TACGACCAGCCCCAGATCTT 60.325 55.000 0.00 0.00 0.00 2.40
2080 2110 3.423154 CGGCGAAACACCAGCTCC 61.423 66.667 0.00 0.00 0.00 4.70
2127 2218 3.565902 GTGGCAACTCTCCATAAATAGCC 59.434 47.826 0.00 0.00 39.95 3.93
2136 2227 4.329545 GGCGGTGGCAACTCTCCA 62.330 66.667 0.00 0.00 42.47 3.86
2275 2402 2.941210 GGCAACCGAACTCCATGAA 58.059 52.632 0.00 0.00 0.00 2.57
2366 2493 1.529244 GCAACTGCCCAACTCCAGT 60.529 57.895 0.00 0.00 43.69 4.00
2385 2512 3.536956 TTGATACTAAGGGCCTGTTCG 57.463 47.619 6.92 0.00 0.00 3.95
2423 2550 7.699878 AGGAGGTAGGATGAGTTGTAATTTTT 58.300 34.615 0.00 0.00 0.00 1.94
2424 2551 7.272144 AGGAGGTAGGATGAGTTGTAATTTT 57.728 36.000 0.00 0.00 0.00 1.82
2425 2552 6.893020 AGGAGGTAGGATGAGTTGTAATTT 57.107 37.500 0.00 0.00 0.00 1.82
2426 2553 6.893020 AAGGAGGTAGGATGAGTTGTAATT 57.107 37.500 0.00 0.00 0.00 1.40
2427 2554 6.893020 AAAGGAGGTAGGATGAGTTGTAAT 57.107 37.500 0.00 0.00 0.00 1.89
2428 2555 6.697641 AAAAGGAGGTAGGATGAGTTGTAA 57.302 37.500 0.00 0.00 0.00 2.41
2429 2556 7.186972 TCTAAAAGGAGGTAGGATGAGTTGTA 58.813 38.462 0.00 0.00 0.00 2.41
2430 2557 6.023603 TCTAAAAGGAGGTAGGATGAGTTGT 58.976 40.000 0.00 0.00 0.00 3.32
2431 2558 6.546428 TCTAAAAGGAGGTAGGATGAGTTG 57.454 41.667 0.00 0.00 0.00 3.16
2432 2559 7.757242 AATCTAAAAGGAGGTAGGATGAGTT 57.243 36.000 0.00 0.00 0.00 3.01
2433 2560 7.147461 GGAAATCTAAAAGGAGGTAGGATGAGT 60.147 40.741 0.00 0.00 0.00 3.41
2434 2561 7.071824 AGGAAATCTAAAAGGAGGTAGGATGAG 59.928 40.741 0.00 0.00 0.00 2.90
2435 2562 6.909158 AGGAAATCTAAAAGGAGGTAGGATGA 59.091 38.462 0.00 0.00 0.00 2.92
2436 2563 7.142995 AGGAAATCTAAAAGGAGGTAGGATG 57.857 40.000 0.00 0.00 0.00 3.51
2437 2564 7.849904 TGTAGGAAATCTAAAAGGAGGTAGGAT 59.150 37.037 0.00 0.00 0.00 3.24
2438 2565 7.125356 GTGTAGGAAATCTAAAAGGAGGTAGGA 59.875 40.741 0.00 0.00 0.00 2.94
2439 2566 7.093024 TGTGTAGGAAATCTAAAAGGAGGTAGG 60.093 40.741 0.00 0.00 0.00 3.18
2440 2567 7.848128 TGTGTAGGAAATCTAAAAGGAGGTAG 58.152 38.462 0.00 0.00 0.00 3.18
2441 2568 7.801893 TGTGTAGGAAATCTAAAAGGAGGTA 57.198 36.000 0.00 0.00 0.00 3.08
2442 2569 6.697641 TGTGTAGGAAATCTAAAAGGAGGT 57.302 37.500 0.00 0.00 0.00 3.85
2443 2570 7.394816 TCTTGTGTAGGAAATCTAAAAGGAGG 58.605 38.462 0.00 0.00 0.00 4.30
2444 2571 8.722394 GTTCTTGTGTAGGAAATCTAAAAGGAG 58.278 37.037 0.00 0.00 0.00 3.69
2445 2572 7.386848 CGTTCTTGTGTAGGAAATCTAAAAGGA 59.613 37.037 0.00 0.00 0.00 3.36
2446 2573 7.360946 CCGTTCTTGTGTAGGAAATCTAAAAGG 60.361 40.741 0.00 0.00 0.00 3.11
2447 2574 7.386848 TCCGTTCTTGTGTAGGAAATCTAAAAG 59.613 37.037 0.00 0.00 0.00 2.27
2448 2575 7.218614 TCCGTTCTTGTGTAGGAAATCTAAAA 58.781 34.615 0.00 0.00 0.00 1.52
2449 2576 6.761312 TCCGTTCTTGTGTAGGAAATCTAAA 58.239 36.000 0.00 0.00 0.00 1.85
2450 2577 6.349243 TCCGTTCTTGTGTAGGAAATCTAA 57.651 37.500 0.00 0.00 0.00 2.10
2451 2578 5.988310 TCCGTTCTTGTGTAGGAAATCTA 57.012 39.130 0.00 0.00 0.00 1.98
2452 2579 4.884668 TCCGTTCTTGTGTAGGAAATCT 57.115 40.909 0.00 0.00 0.00 2.40
2453 2580 5.934935 TTTCCGTTCTTGTGTAGGAAATC 57.065 39.130 4.10 0.00 43.52 2.17
2456 2583 4.069304 CCATTTCCGTTCTTGTGTAGGAA 58.931 43.478 0.00 0.00 39.00 3.36
2457 2584 3.558321 CCCATTTCCGTTCTTGTGTAGGA 60.558 47.826 0.00 0.00 0.00 2.94
2458 2585 2.747446 CCCATTTCCGTTCTTGTGTAGG 59.253 50.000 0.00 0.00 0.00 3.18
2459 2586 2.747446 CCCCATTTCCGTTCTTGTGTAG 59.253 50.000 0.00 0.00 0.00 2.74
2460 2587 2.106857 ACCCCATTTCCGTTCTTGTGTA 59.893 45.455 0.00 0.00 0.00 2.90
2461 2588 1.133606 ACCCCATTTCCGTTCTTGTGT 60.134 47.619 0.00 0.00 0.00 3.72
2462 2589 1.539827 GACCCCATTTCCGTTCTTGTG 59.460 52.381 0.00 0.00 0.00 3.33
2463 2590 1.423921 AGACCCCATTTCCGTTCTTGT 59.576 47.619 0.00 0.00 0.00 3.16
2464 2591 2.200373 AGACCCCATTTCCGTTCTTG 57.800 50.000 0.00 0.00 0.00 3.02
2465 2592 2.107552 TGAAGACCCCATTTCCGTTCTT 59.892 45.455 0.00 0.00 0.00 2.52
2466 2593 1.702957 TGAAGACCCCATTTCCGTTCT 59.297 47.619 0.00 0.00 0.00 3.01
2467 2594 2.194201 TGAAGACCCCATTTCCGTTC 57.806 50.000 0.00 0.00 0.00 3.95
2468 2595 2.235891 GTTGAAGACCCCATTTCCGTT 58.764 47.619 0.00 0.00 0.00 4.44
2469 2596 1.880646 CGTTGAAGACCCCATTTCCGT 60.881 52.381 0.00 0.00 0.00 4.69
2470 2597 0.802494 CGTTGAAGACCCCATTTCCG 59.198 55.000 0.00 0.00 0.00 4.30
2471 2598 1.810755 GTCGTTGAAGACCCCATTTCC 59.189 52.381 0.00 0.00 35.22 3.13
2472 2599 2.779506 AGTCGTTGAAGACCCCATTTC 58.220 47.619 0.00 0.00 41.83 2.17
2473 2600 2.951229 AGTCGTTGAAGACCCCATTT 57.049 45.000 0.00 0.00 41.83 2.32
2474 2601 2.951229 AAGTCGTTGAAGACCCCATT 57.049 45.000 0.00 0.00 41.83 3.16
2475 2602 4.070009 GTTTAAGTCGTTGAAGACCCCAT 58.930 43.478 0.00 0.00 41.83 4.00
2476 2603 3.469739 GTTTAAGTCGTTGAAGACCCCA 58.530 45.455 0.00 0.00 41.83 4.96
2477 2604 2.477754 CGTTTAAGTCGTTGAAGACCCC 59.522 50.000 0.00 0.00 41.83 4.95
2478 2605 3.126073 ACGTTTAAGTCGTTGAAGACCC 58.874 45.455 2.70 0.00 41.83 4.46
2479 2606 5.231991 TGTTACGTTTAAGTCGTTGAAGACC 59.768 40.000 11.70 0.00 41.83 3.85
2480 2607 6.259743 TGTTACGTTTAAGTCGTTGAAGAC 57.740 37.500 11.70 6.09 41.72 3.01
2481 2608 6.309980 TGTTGTTACGTTTAAGTCGTTGAAGA 59.690 34.615 11.70 0.42 41.72 2.87
2482 2609 6.468484 TGTTGTTACGTTTAAGTCGTTGAAG 58.532 36.000 11.70 0.00 41.72 3.02
2483 2610 6.400579 TGTTGTTACGTTTAAGTCGTTGAA 57.599 33.333 11.70 1.38 41.72 2.69
2484 2611 6.476380 AGATGTTGTTACGTTTAAGTCGTTGA 59.524 34.615 11.70 1.77 41.72 3.18
2485 2612 6.642917 AGATGTTGTTACGTTTAAGTCGTTG 58.357 36.000 11.70 0.00 41.72 4.10
2486 2613 6.833342 AGATGTTGTTACGTTTAAGTCGTT 57.167 33.333 11.70 0.00 41.72 3.85
2487 2614 6.833342 AAGATGTTGTTACGTTTAAGTCGT 57.167 33.333 0.00 11.31 43.86 4.34
2488 2615 9.801714 AATTAAGATGTTGTTACGTTTAAGTCG 57.198 29.630 0.00 1.59 0.00 4.18
2504 2631 9.407380 TCCACATGCAAAGTATAATTAAGATGT 57.593 29.630 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.