Multiple sequence alignment - TraesCS3A01G237300

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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 TraesCS3A01G237300 chr3A 100.000 9494 0 0 1 9494 443811697 443821190 0.000000e+00 17533.0
1 TraesCS3A01G237300 chr3D 96.118 7213 185 32 1 7156 328969854 328977028 0.000000e+00 11681.0
2 TraesCS3A01G237300 chr3D 94.597 1314 64 3 8178 9488 328978153 328979462 0.000000e+00 2026.0
3 TraesCS3A01G237300 chr3D 86.364 814 55 22 7368 8132 328977346 328978152 0.000000e+00 837.0
4 TraesCS3A01G237300 chr3D 84.228 298 21 9 8105 8382 24163317 24163026 5.650000e-67 267.0
5 TraesCS3A01G237300 chr3D 86.928 153 12 4 8146 8290 213381531 213381683 2.120000e-36 165.0
6 TraesCS3A01G237300 chr3D 90.083 121 10 2 8380 8500 24162484 24162366 1.280000e-33 156.0
7 TraesCS3A01G237300 chr3D 90.083 121 10 2 8380 8500 24162968 24162850 1.280000e-33 156.0
8 TraesCS3A01G237300 chr3B 96.281 3791 102 17 9 3778 426304975 426308747 0.000000e+00 6183.0
9 TraesCS3A01G237300 chr3B 95.412 3226 89 15 3775 6964 426308869 426312071 0.000000e+00 5083.0
10 TraesCS3A01G237300 chr3B 89.817 1915 136 21 7510 9397 426312821 426314703 0.000000e+00 2401.0
11 TraesCS3A01G237300 chr3B 88.081 495 35 11 6965 7451 426312190 426312668 4.980000e-157 566.0
12 TraesCS3A01G237300 chr3B 81.879 149 19 7 7003 7147 579287734 579287878 1.670000e-22 119.0
13 TraesCS3A01G237300 chr3B 81.879 149 19 7 7003 7147 579304391 579304535 1.670000e-22 119.0
14 TraesCS3A01G237300 chr3B 92.537 67 4 1 9429 9494 426314704 426314770 2.820000e-15 95.3
15 TraesCS3A01G237300 chr4A 93.393 333 21 1 4085 4417 479426473 479426142 8.570000e-135 492.0
16 TraesCS3A01G237300 chr4A 93.093 333 23 0 4085 4417 480552907 480552575 1.110000e-133 488.0
17 TraesCS3A01G237300 chr4A 93.116 276 19 0 4142 4417 481059710 481059435 1.150000e-108 405.0
18 TraesCS3A01G237300 chr4A 92.462 199 15 0 4085 4283 479612234 479612036 1.560000e-72 285.0
19 TraesCS3A01G237300 chr4A 93.151 146 10 0 4085 4230 479895753 479895608 2.080000e-51 215.0
20 TraesCS3A01G237300 chr4A 91.946 149 12 0 4269 4417 480562470 480562322 9.660000e-50 209.0
21 TraesCS3A01G237300 chr4A 86.387 191 24 2 4094 4283 480413560 480413371 3.470000e-49 207.0
22 TraesCS3A01G237300 chr4A 90.164 122 11 1 8380 8501 309397136 309397256 3.550000e-34 158.0
23 TraesCS3A01G237300 chr4A 89.655 58 6 0 4226 4283 480969788 480969731 3.680000e-09 75.0
24 TraesCS3A01G237300 chr4D 93.114 334 19 2 4085 4414 96729088 96729421 3.990000e-133 486.0
25 TraesCS3A01G237300 chr4D 91.273 275 14 2 4142 4414 96896869 96897135 5.420000e-97 366.0
26 TraesCS3A01G237300 chr4D 79.457 258 42 9 13 265 497416158 497415907 1.270000e-38 172.0
27 TraesCS3A01G237300 chr4D 79.087 263 43 11 9 265 497426686 497426430 4.560000e-38 171.0
28 TraesCS3A01G237300 chr4D 79.365 252 42 9 18 265 497412913 497412668 1.640000e-37 169.0
29 TraesCS3A01G237300 chr4D 81.212 165 18 6 7003 7157 437027041 437026880 4.660000e-23 121.0
30 TraesCS3A01G237300 chr1D 86.063 287 31 7 1 285 314016862 314017141 5.570000e-77 300.0
31 TraesCS3A01G237300 chr1D 84.228 298 20 10 8105 8382 180365204 180365494 2.030000e-66 265.0
32 TraesCS3A01G237300 chr1D 83.893 298 21 10 8105 8382 254474066 254473776 9.460000e-65 259.0
33 TraesCS3A01G237300 chr1D 83.502 297 23 11 8105 8382 180365777 180366066 4.400000e-63 254.0
34 TraesCS3A01G237300 chr1D 90.083 121 10 2 8380 8500 180365552 180365670 1.280000e-33 156.0
35 TraesCS3A01G237300 chr1D 91.566 83 5 2 7003 7085 69266034 69265954 7.790000e-21 113.0
36 TraesCS3A01G237300 chr1D 93.750 48 3 0 7114 7161 468152185 468152232 1.320000e-08 73.1
37 TraesCS3A01G237300 chr2D 84.228 298 21 12 8105 8382 33932327 33932618 5.650000e-67 267.0
38 TraesCS3A01G237300 chr2D 84.228 298 21 12 8105 8382 630264532 630264241 5.650000e-67 267.0
39 TraesCS3A01G237300 chr2D 92.771 83 5 1 7003 7085 612720137 612720218 1.670000e-22 119.0
40 TraesCS3A01G237300 chr7A 83.594 256 31 9 1 251 16717088 16716839 7.420000e-56 230.0
41 TraesCS3A01G237300 chr7A 80.069 291 43 12 9 296 96155619 96155897 1.620000e-47 202.0
42 TraesCS3A01G237300 chr2A 83.750 240 27 6 29 262 445771079 445771312 5.770000e-52 217.0
43 TraesCS3A01G237300 chr5D 82.463 268 21 15 8105 8359 317385275 317385021 2.690000e-50 211.0
44 TraesCS3A01G237300 chr5D 90.083 121 10 2 8380 8500 6238982 6239100 1.280000e-33 156.0
45 TraesCS3A01G237300 chr5D 90.083 121 10 2 8380 8500 432308072 432308190 1.280000e-33 156.0
46 TraesCS3A01G237300 chr5D 81.203 133 23 2 301 433 380016153 380016283 1.300000e-18 106.0
47 TraesCS3A01G237300 chr5D 93.182 44 3 0 7664 7707 329271112 329271069 2.210000e-06 65.8
48 TraesCS3A01G237300 chr5B 84.974 193 8 7 8211 8382 48448174 48447982 9.800000e-40 176.0
49 TraesCS3A01G237300 chr5B 80.814 172 21 7 6996 7157 607838383 607838552 3.600000e-24 124.0
50 TraesCS3A01G237300 chr5B 80.110 181 21 9 6991 7160 672106845 672107021 4.660000e-23 121.0
51 TraesCS3A01G237300 chrUn 90.083 121 10 2 8380 8500 30304114 30304232 1.280000e-33 156.0
52 TraesCS3A01G237300 chr1B 89.524 105 9 2 8280 8382 218001478 218001374 2.150000e-26 132.0
53 TraesCS3A01G237300 chr4B 91.860 86 6 1 7000 7085 28618456 28618540 1.670000e-22 119.0
54 TraesCS3A01G237300 chr5A 77.019 161 27 7 7003 7160 475527337 475527184 6.110000e-12 84.2
55 TraesCS3A01G237300 chr2B 88.235 68 8 0 301 368 91037352 91037419 2.200000e-11 82.4
56 TraesCS3A01G237300 chr7D 85.714 70 9 1 427 496 181846792 181846860 1.320000e-08 73.1


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 TraesCS3A01G237300 chr3A 443811697 443821190 9493 False 17533.00 17533 100.000000 1 9494 1 chr3A.!!$F1 9493
1 TraesCS3A01G237300 chr3D 328969854 328979462 9608 False 4848.00 11681 92.359667 1 9488 3 chr3D.!!$F2 9487
2 TraesCS3A01G237300 chr3B 426304975 426314770 9795 False 2865.66 6183 92.425600 9 9494 5 chr3B.!!$F3 9485
3 TraesCS3A01G237300 chr1D 180365204 180366066 862 False 225.00 265 85.937667 8105 8500 3 chr1D.!!$F3 395

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
623 633 0.169009 TGCATCGACTCTCGTGTCTG 59.831 55.000 0.00 0.00 41.35 3.51 F
624 634 0.169230 GCATCGACTCTCGTGTCTGT 59.831 55.000 0.00 0.00 41.35 3.41 F
872 888 0.336737 TCCACTCTCTTCCTCCCCTC 59.663 60.000 0.00 0.00 0.00 4.30 F
1623 1645 1.007842 GAGAGAGAGAGGGAAAGGGGT 59.992 57.143 0.00 0.00 0.00 4.95 F
2382 2404 4.194640 GCTGATCTTCTGGAACTTATGCA 58.805 43.478 0.00 0.00 0.00 3.96 F
3386 3415 3.347216 AGGTGGTATGTCTTTGTCATGC 58.653 45.455 0.00 0.00 0.00 4.06 F
4494 4673 3.031013 ACATGATGATGACCGTAGACCA 58.969 45.455 0.00 0.00 33.36 4.02 F
5720 5905 0.537143 ACCCAAGCGCAAACTGATGA 60.537 50.000 11.47 0.00 0.00 2.92 F
6810 7013 0.520412 CCAATTTCGCTACGTTGCCG 60.520 55.000 16.22 11.23 40.83 5.69 F
7463 7903 1.100510 CCACAGATGCCACCAATGAG 58.899 55.000 0.00 0.00 0.00 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1497 1519 0.105913 CACTACTCTCCCTCCTCCCC 60.106 65.000 0.0 0.0 0.00 4.81 R
1819 1841 0.323178 CCATTCTTCCTGGCACTGCT 60.323 55.000 0.0 0.0 0.00 4.24 R
2427 2449 1.067635 CCCGTTCCAAAAATGCTGGAG 60.068 52.381 0.0 0.0 43.79 3.86 R
2430 2452 1.068434 ACACCCGTTCCAAAAATGCTG 59.932 47.619 0.0 0.0 0.00 4.41 R
4311 4490 1.590238 CGATCTTGATGAAGTGACCGC 59.410 52.381 0.0 0.0 0.00 5.68 R
4741 4920 1.161563 GGCGAAAACCTGTCAACCGA 61.162 55.000 0.0 0.0 0.00 4.69 R
6028 6213 0.179000 GTGATTGATGGAGAGGCGGT 59.821 55.000 0.0 0.0 0.00 5.68 R
7272 7680 0.323725 CTGCACCCAAATACCCAGCT 60.324 55.000 0.0 0.0 0.00 4.24 R
7773 8340 1.096416 TTTGTCGCAACGAGGGTTTT 58.904 45.000 0.0 0.0 36.23 2.43 R
9301 10220 0.107312 AGATGACATGCACCTGCTCC 60.107 55.000 0.0 0.0 42.66 4.70 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
82 84 5.578336 TGTTTGACAAATTTCATGCGAAACA 59.422 32.000 3.49 0.00 43.75 2.83
100 102 1.227556 AGAGCAGCGGTGTTTCGTT 60.228 52.632 17.07 0.00 0.00 3.85
110 112 2.595095 CGGTGTTTCGTTGGTGAAAAAC 59.405 45.455 1.76 1.76 42.72 2.43
118 120 8.936864 TGTTTCGTTGGTGAAAAACAAATAAAT 58.063 25.926 0.00 0.00 39.40 1.40
186 189 6.429624 CAAAATGCTTAACCTTTTTGCCTTC 58.570 36.000 8.22 0.00 34.93 3.46
299 303 5.487433 CCCGGAAGCCAAATTAATTTTTCT 58.513 37.500 10.77 8.03 0.00 2.52
371 375 1.202604 ACTGATGTCGTCGGGTGTTTT 60.203 47.619 5.86 0.00 37.54 2.43
374 378 3.666274 TGATGTCGTCGGGTGTTTTTAT 58.334 40.909 0.00 0.00 0.00 1.40
540 550 0.372334 GTACACGCATGGCTTTACGG 59.628 55.000 0.00 0.00 0.00 4.02
622 632 0.169230 GTGCATCGACTCTCGTGTCT 59.831 55.000 0.00 0.00 41.35 3.41
623 633 0.169009 TGCATCGACTCTCGTGTCTG 59.831 55.000 0.00 0.00 41.35 3.51
624 634 0.169230 GCATCGACTCTCGTGTCTGT 59.831 55.000 0.00 0.00 41.35 3.41
625 635 1.792273 GCATCGACTCTCGTGTCTGTC 60.792 57.143 0.00 0.00 41.35 3.51
668 681 4.263209 CCGCACGCAAGCAAACCA 62.263 61.111 0.00 0.00 45.62 3.67
669 682 3.024043 CGCACGCAAGCAAACCAC 61.024 61.111 0.00 0.00 45.62 4.16
670 683 2.658268 GCACGCAAGCAAACCACC 60.658 61.111 0.00 0.00 45.62 4.61
671 684 2.027460 CACGCAAGCAAACCACCC 59.973 61.111 0.00 0.00 45.62 4.61
672 685 3.591835 ACGCAAGCAAACCACCCG 61.592 61.111 0.00 0.00 45.62 5.28
673 686 4.999939 CGCAAGCAAACCACCCGC 63.000 66.667 0.00 0.00 0.00 6.13
674 687 4.662961 GCAAGCAAACCACCCGCC 62.663 66.667 0.00 0.00 0.00 6.13
872 888 0.336737 TCCACTCTCTTCCTCCCCTC 59.663 60.000 0.00 0.00 0.00 4.30
1357 1373 1.416813 CGTCGATGTGGAGAAGCTGC 61.417 60.000 0.00 0.00 0.00 5.25
1478 1500 4.430765 GAAGCGGCGGTCGGAGAA 62.431 66.667 13.68 0.00 39.69 2.87
1479 1501 4.436998 AAGCGGCGGTCGGAGAAG 62.437 66.667 13.68 0.00 39.69 2.85
1492 1514 2.309162 TCGGAGAAGGAGAAGGAGAAGA 59.691 50.000 0.00 0.00 0.00 2.87
1497 1519 1.562783 AGGAGAAGGAGAAGAACCCG 58.437 55.000 0.00 0.00 0.00 5.28
1623 1645 1.007842 GAGAGAGAGAGGGAAAGGGGT 59.992 57.143 0.00 0.00 0.00 4.95
1819 1841 7.365497 TCCAAGCATGAGAAGTATGAAGATA 57.635 36.000 0.00 0.00 0.00 1.98
1991 2013 9.703892 TGTTTAGTTATGCATGCTTTAATTTGT 57.296 25.926 20.33 6.37 0.00 2.83
1992 2014 9.956797 GTTTAGTTATGCATGCTTTAATTTGTG 57.043 29.630 20.33 0.00 0.00 3.33
2153 2175 4.746611 GGTTGCAAAGAGTCCATTTTTCAG 59.253 41.667 0.00 0.00 0.00 3.02
2188 2210 4.836125 TTTCTTGTGCTTTGTCTCCATC 57.164 40.909 0.00 0.00 0.00 3.51
2382 2404 4.194640 GCTGATCTTCTGGAACTTATGCA 58.805 43.478 0.00 0.00 0.00 3.96
3154 3183 8.394121 GGTCTGAACATAGACATCAAGAAAATC 58.606 37.037 8.04 0.00 46.97 2.17
3370 3399 8.304596 TCATAACTAATCTAAATAGCGAGGTGG 58.695 37.037 0.00 0.00 0.00 4.61
3386 3415 3.347216 AGGTGGTATGTCTTTGTCATGC 58.653 45.455 0.00 0.00 0.00 4.06
3568 3597 6.782082 TCAGAGTGAGATAATACAACTGCT 57.218 37.500 0.00 0.00 0.00 4.24
3696 3729 6.575267 TGCATGGAGTGGAATTTATCATTTG 58.425 36.000 0.00 0.00 0.00 2.32
3807 3965 5.841957 ATCCTTGTATTGTGATCTTTGCC 57.158 39.130 0.00 0.00 0.00 4.52
3941 4099 8.641498 AGTTGAACTGACCAATCAATTATCTT 57.359 30.769 0.00 0.00 35.70 2.40
4194 4373 4.543590 ACAGCTATCTGATAAATCCCCG 57.456 45.455 0.00 0.00 42.95 5.73
4311 4490 5.246203 TCGGGATGGTGATTTATCCTTAGAG 59.754 44.000 0.00 0.00 42.03 2.43
4494 4673 3.031013 ACATGATGATGACCGTAGACCA 58.969 45.455 0.00 0.00 33.36 4.02
4551 4730 7.390996 CAGAAGAGGAATGATATGAATTCTGGG 59.609 40.741 7.05 0.00 38.16 4.45
4741 4920 6.043590 TGGAGTTTCATATCCTATGCATGACT 59.956 38.462 10.16 0.00 36.50 3.41
4743 4922 6.162079 AGTTTCATATCCTATGCATGACTCG 58.838 40.000 10.16 0.00 0.00 4.18
4794 4973 1.858739 TTGGGTGGCCTAATCCGCTT 61.859 55.000 3.32 0.00 36.85 4.68
4915 5094 2.743538 TGCATGTCGGCAGCAGAC 60.744 61.111 17.93 17.93 39.25 3.51
5111 5290 1.238439 CGTGAAGCAAAGGGTGATGT 58.762 50.000 0.00 0.00 0.00 3.06
5112 5291 1.197721 CGTGAAGCAAAGGGTGATGTC 59.802 52.381 0.00 0.00 0.00 3.06
5113 5292 2.229792 GTGAAGCAAAGGGTGATGTCA 58.770 47.619 0.00 0.00 0.00 3.58
5407 5592 5.789643 TTTCTCACTATGGCTTTTGCTTT 57.210 34.783 0.00 0.00 46.54 3.51
5720 5905 0.537143 ACCCAAGCGCAAACTGATGA 60.537 50.000 11.47 0.00 0.00 2.92
5771 5956 2.158623 AGGACACAGAAATGCTTGACCA 60.159 45.455 0.00 0.00 0.00 4.02
5775 5960 3.436704 ACACAGAAATGCTTGACCATACG 59.563 43.478 0.00 0.00 0.00 3.06
5819 6004 2.282462 CCCTGTCTTGCACCACCC 60.282 66.667 0.00 0.00 0.00 4.61
5865 6050 3.664107 TGCAACTACAGAATCTGGTGAC 58.336 45.455 15.38 0.00 35.51 3.67
5895 6080 2.295885 CCTCCAGCAATCACAGAATCC 58.704 52.381 0.00 0.00 0.00 3.01
6028 6213 5.070981 GGTTCTGATGAAGATATGGAGGTGA 59.929 44.000 0.00 0.00 33.93 4.02
6171 6356 1.893919 GCTCGCAGGAGGTTCCTTCT 61.894 60.000 0.00 0.00 46.91 2.85
6195 6380 4.142381 GCAAATGAAGAACCAGGTGATACC 60.142 45.833 0.00 0.00 38.99 2.73
6196 6381 3.933861 ATGAAGAACCAGGTGATACCC 57.066 47.619 0.00 0.00 39.75 3.69
6321 6506 5.098211 GCAGCAGTTGAAAAAGATATGGAC 58.902 41.667 0.00 0.00 0.00 4.02
6378 6563 7.516198 AGTGAATGCATCTAACTTTGTTTCT 57.484 32.000 0.00 0.00 0.00 2.52
6535 6720 1.536907 TCCGAGGGGTTTGTGCCTA 60.537 57.895 0.00 0.00 33.83 3.93
6536 6721 1.128809 TCCGAGGGGTTTGTGCCTAA 61.129 55.000 0.00 0.00 33.83 2.69
6630 6823 4.982701 GTGGGCTGGCTTGCTGGT 62.983 66.667 0.00 0.00 0.00 4.00
6631 6824 3.256178 TGGGCTGGCTTGCTGGTA 61.256 61.111 0.00 0.00 0.00 3.25
6679 6872 4.437587 AGCTGCTGGTGGGGCATC 62.438 66.667 0.00 0.00 39.07 3.91
6767 6970 2.283351 GCATGCGCTTTCAATTTCATCC 59.717 45.455 9.73 0.00 34.30 3.51
6770 6973 1.922545 GCGCTTTCAATTTCATCCTGC 59.077 47.619 0.00 0.00 0.00 4.85
6809 7012 0.796870 GCCAATTTCGCTACGTTGCC 60.797 55.000 16.22 0.00 0.00 4.52
6810 7013 0.520412 CCAATTTCGCTACGTTGCCG 60.520 55.000 16.22 11.23 40.83 5.69
6862 7066 3.678072 GTCTACACATTGCAACGCTTAGA 59.322 43.478 0.00 0.00 0.00 2.10
6871 7075 5.530519 TTGCAACGCTTAGACTGAAATAG 57.469 39.130 0.00 0.00 0.00 1.73
6877 7081 5.411781 ACGCTTAGACTGAAATAGAGGTTG 58.588 41.667 0.00 0.00 0.00 3.77
6930 7134 8.840833 TCATGATGCAAGTAGTTTTACAGTTA 57.159 30.769 0.00 0.00 31.96 2.24
6931 7135 9.278978 TCATGATGCAAGTAGTTTTACAGTTAA 57.721 29.630 0.00 0.00 31.96 2.01
6932 7136 9.891828 CATGATGCAAGTAGTTTTACAGTTAAA 57.108 29.630 0.00 0.00 31.96 1.52
7085 7408 7.278868 GGAGTAAAATGAGGTGAATCTACACTG 59.721 40.741 0.00 0.00 40.22 3.66
7086 7409 5.886960 AAAATGAGGTGAATCTACACTGC 57.113 39.130 0.00 0.00 40.22 4.40
7088 7411 1.893137 TGAGGTGAATCTACACTGCGT 59.107 47.619 0.00 0.00 40.22 5.24
7089 7412 2.094700 TGAGGTGAATCTACACTGCGTC 60.095 50.000 0.00 0.00 40.22 5.19
7090 7413 2.164624 GAGGTGAATCTACACTGCGTCT 59.835 50.000 0.00 0.00 40.22 4.18
7091 7414 3.353557 AGGTGAATCTACACTGCGTCTA 58.646 45.455 0.00 0.00 40.22 2.59
7092 7415 3.954904 AGGTGAATCTACACTGCGTCTAT 59.045 43.478 0.00 0.00 40.22 1.98
7093 7416 5.131067 AGGTGAATCTACACTGCGTCTATA 58.869 41.667 0.00 0.00 40.22 1.31
7094 7417 5.770663 AGGTGAATCTACACTGCGTCTATAT 59.229 40.000 0.00 0.00 40.22 0.86
7095 7418 6.940867 AGGTGAATCTACACTGCGTCTATATA 59.059 38.462 0.00 0.00 40.22 0.86
7099 7422 8.933807 TGAATCTACACTGCGTCTATATACTAC 58.066 37.037 0.00 0.00 0.00 2.73
7124 7452 6.415573 ACCATTTGTAGTAGGTGAAATCTCC 58.584 40.000 0.00 0.00 32.04 3.71
7129 7457 8.754991 TTTGTAGTAGGTGAAATCTCCAAAAA 57.245 30.769 4.50 0.00 32.20 1.94
7214 7622 3.910648 ACGGAAGAAAACGTAGGAAGAG 58.089 45.455 0.00 0.00 42.15 2.85
7227 7635 5.774184 ACGTAGGAAGAGTTTCTACTTTCCT 59.226 40.000 17.58 17.58 44.66 3.36
7228 7636 6.944862 ACGTAGGAAGAGTTTCTACTTTCCTA 59.055 38.462 16.35 16.35 42.96 2.94
7245 7653 7.612677 ACTTTCCTACATACAAGTCTTAGGTG 58.387 38.462 0.00 0.00 32.55 4.00
7272 7680 6.903883 TTTGTACTTTGCCGCAATTTTTAA 57.096 29.167 6.64 0.00 0.00 1.52
7312 7720 5.677852 GCAGCTGATTCACATGCAATTTAGA 60.678 40.000 20.43 0.00 35.39 2.10
7351 7759 1.880941 GACTCCTATGTCCTTGGGGT 58.119 55.000 0.00 0.00 36.01 4.95
7463 7903 1.100510 CCACAGATGCCACCAATGAG 58.899 55.000 0.00 0.00 0.00 2.90
7464 7904 1.340308 CCACAGATGCCACCAATGAGA 60.340 52.381 0.00 0.00 0.00 3.27
7465 7905 2.014857 CACAGATGCCACCAATGAGAG 58.985 52.381 0.00 0.00 0.00 3.20
7475 7915 3.251729 CCACCAATGAGAGAAACACTGTG 59.748 47.826 6.19 6.19 0.00 3.66
7493 7933 3.767673 CTGTGGAGGTTAGGCTTGTACTA 59.232 47.826 0.00 0.00 0.00 1.82
7495 7935 3.102204 TGGAGGTTAGGCTTGTACTACC 58.898 50.000 0.00 0.00 0.00 3.18
7525 7974 4.101235 GTTTAGATCGTGTTCGTACTCCC 58.899 47.826 0.00 0.00 38.33 4.30
7534 7983 2.890311 TGTTCGTACTCCCTCCGTAAAA 59.110 45.455 0.00 0.00 0.00 1.52
7535 7984 3.057315 TGTTCGTACTCCCTCCGTAAAAG 60.057 47.826 0.00 0.00 0.00 2.27
7541 7990 5.919141 CGTACTCCCTCCGTAAAAGAATATG 59.081 44.000 0.00 0.00 0.00 1.78
7543 7992 6.749036 ACTCCCTCCGTAAAAGAATATGAT 57.251 37.500 0.00 0.00 0.00 2.45
7570 8118 8.715088 AGCGTTTAGATCGTTAAAATAGTGTTT 58.285 29.630 0.00 0.00 0.00 2.83
7614 8167 5.677319 ATAGGTAGTGCAAAGTGCTTAGA 57.323 39.130 1.43 0.00 45.31 2.10
7621 8174 3.005554 TGCAAAGTGCTTAGAGAGATGC 58.994 45.455 1.43 0.00 45.31 3.91
7746 8306 7.885399 CCTTGCATTATAGAAGCCCTTACTATT 59.115 37.037 0.00 0.00 0.00 1.73
7749 8309 8.217799 TGCATTATAGAAGCCCTTACTATTGTT 58.782 33.333 0.00 0.00 0.00 2.83
7826 8393 3.553096 CCTCACGACCCATGCTTACTATC 60.553 52.174 0.00 0.00 0.00 2.08
7896 8464 4.225942 ACTGGGCATCTCTGACTTTATTCA 59.774 41.667 0.00 0.00 0.00 2.57
7949 8518 3.346315 TCGACAAAGCATGACATTCCAT 58.654 40.909 0.00 0.00 0.00 3.41
7954 8523 1.306148 AGCATGACATTCCATCGCAG 58.694 50.000 0.00 0.00 0.00 5.18
7955 8524 1.019673 GCATGACATTCCATCGCAGT 58.980 50.000 0.00 0.00 0.00 4.40
7961 8530 2.613595 GACATTCCATCGCAGTGCATTA 59.386 45.455 16.83 0.00 0.00 1.90
8059 8629 6.780457 AGATTTAAGACCATTGGACATTGG 57.220 37.500 10.37 10.74 37.73 3.16
8064 8634 4.860802 AGACCATTGGACATTGGACATA 57.139 40.909 17.40 0.00 36.13 2.29
8127 8699 8.175716 CACTCCGATTAATCCACTTTTCTAAAC 58.824 37.037 9.87 0.00 0.00 2.01
8185 8763 9.334693 GAAGAATTTGATTATGCAATATCCGAC 57.665 33.333 0.00 0.00 0.00 4.79
8335 8931 5.939457 TGCTATGTCAGTATCTATACGTGC 58.061 41.667 0.00 0.00 38.28 5.34
8438 9096 3.255888 GGTTAGAGAGCCCCTTTGTTTTG 59.744 47.826 0.00 0.00 0.00 2.44
8495 9153 7.425224 TTTTAATTCCAGGGTTTCTGTGAAA 57.575 32.000 0.00 0.00 41.83 2.69
8640 9558 3.791545 ACCTCTAATTTCCCAATGCCCTA 59.208 43.478 0.00 0.00 0.00 3.53
8667 9585 6.385766 AGAGAAGAGATCCCTTGAATTTGT 57.614 37.500 0.00 0.00 0.00 2.83
8752 9670 2.126228 CGCGCTACAAACGGGAGA 60.126 61.111 5.56 0.00 45.25 3.71
8878 9796 2.058829 CTGTTGTGTTGACACCCGCC 62.059 60.000 11.42 0.00 45.88 6.13
8966 9884 3.091545 TCCCCTGCATTCTTGAATTGTC 58.908 45.455 0.00 0.00 0.00 3.18
9007 9926 3.923017 AGTTGTGCTGATTAAGGCAAC 57.077 42.857 0.00 0.00 40.26 4.17
9032 9951 9.787435 ACTGTATTGTTGTATTTGGTCTTCTTA 57.213 29.630 0.00 0.00 0.00 2.10
9039 9958 6.614694 TGTATTTGGTCTTCTTAGTAGGCA 57.385 37.500 0.00 0.00 0.00 4.75
9040 9959 7.195374 TGTATTTGGTCTTCTTAGTAGGCAT 57.805 36.000 0.00 0.00 0.00 4.40
9052 9971 7.898014 TCTTAGTAGGCATACTCTTGATTCA 57.102 36.000 15.39 0.00 41.46 2.57
9103 10022 4.658901 TCTGGAAGGGAGTAGTGTTTTTCT 59.341 41.667 0.00 0.00 0.00 2.52
9133 10052 1.272147 GGGTGTCATTCCTGGCTTTCT 60.272 52.381 0.00 0.00 0.00 2.52
9169 10088 7.178274 ACAAAAATGTCATGGTATTAAGGAGCA 59.822 33.333 0.00 0.00 0.00 4.26
9195 10114 5.105228 AGCATGTGGGTGATTTGAATTAAGG 60.105 40.000 0.00 0.00 0.00 2.69
9197 10116 6.574073 GCATGTGGGTGATTTGAATTAAGGAA 60.574 38.462 0.00 0.00 0.00 3.36
9223 10142 8.814038 AGCCTGATAATTTTCTTGATGTTAGT 57.186 30.769 0.00 0.00 0.00 2.24
9237 10156 9.213777 TCTTGATGTTAGTAAGGGTATGAGAAT 57.786 33.333 0.00 0.00 0.00 2.40
9249 10168 4.640647 GGGTATGAGAATGGGTTTCAGAAC 59.359 45.833 0.00 0.00 36.75 3.01
9290 10209 4.633980 CAAGCGACCTTGGCAAAC 57.366 55.556 0.00 0.00 43.75 2.93
9291 10210 1.732917 CAAGCGACCTTGGCAAACA 59.267 52.632 0.00 0.00 43.75 2.83
9301 10220 3.569701 ACCTTGGCAAACAGACATGTAAG 59.430 43.478 0.00 0.00 39.29 2.34
9304 10223 3.411446 TGGCAAACAGACATGTAAGGAG 58.589 45.455 0.00 0.00 39.29 3.69
9314 10233 1.674441 CATGTAAGGAGCAGGTGCATG 59.326 52.381 4.48 0.00 45.16 4.06
9340 10259 3.055819 TCTTCTGGCTGGTCACATCTAAC 60.056 47.826 0.00 0.00 0.00 2.34
9341 10260 2.256306 TCTGGCTGGTCACATCTAACA 58.744 47.619 0.00 0.00 0.00 2.41
9362 10281 4.346418 ACACATTCCTTTTTAACATGCCCA 59.654 37.500 0.00 0.00 0.00 5.36
9391 10310 9.241317 CACATCTAATGCATTCCTTTTGAATAC 57.759 33.333 16.86 0.00 41.85 1.89
9421 10340 6.267928 GGAGTATTTTCCTGCTCTCATACCTA 59.732 42.308 0.00 0.00 34.27 3.08
9456 10376 4.630644 TCTCAAGAGTCTCCAAGCAAAT 57.369 40.909 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 26 9.953825 GATACTAACACGAACATCTACAAAAAG 57.046 33.333 0.00 0.00 0.00 2.27
37 39 2.949142 TGCTTGCGATACTAACACGAA 58.051 42.857 0.00 0.00 0.00 3.85
82 84 1.227556 AACGAAACACCGCTGCTCT 60.228 52.632 0.00 0.00 0.00 4.09
90 92 3.576648 TGTTTTTCACCAACGAAACACC 58.423 40.909 0.00 0.00 37.15 4.16
157 160 5.816955 AAAAGGTTAAGCATTTTGGCCTA 57.183 34.783 3.32 0.00 39.28 3.93
262 266 4.083565 GCTTCCGGGCCCAAAAATATATA 58.916 43.478 24.92 0.00 0.00 0.86
263 267 2.897326 GCTTCCGGGCCCAAAAATATAT 59.103 45.455 24.92 0.00 0.00 0.86
264 268 2.312390 GCTTCCGGGCCCAAAAATATA 58.688 47.619 24.92 0.00 0.00 0.86
516 526 4.770874 GCCATGCGTGTACCGGGT 62.771 66.667 6.32 4.46 36.94 5.28
1411 1427 1.531840 CCCTCTCATCCGATCCCGT 60.532 63.158 0.00 0.00 0.00 5.28
1476 1498 2.093921 CGGGTTCTTCTCCTTCTCCTTC 60.094 54.545 0.00 0.00 0.00 3.46
1477 1499 1.903183 CGGGTTCTTCTCCTTCTCCTT 59.097 52.381 0.00 0.00 0.00 3.36
1478 1500 1.562783 CGGGTTCTTCTCCTTCTCCT 58.437 55.000 0.00 0.00 0.00 3.69
1479 1501 0.537653 CCGGGTTCTTCTCCTTCTCC 59.462 60.000 0.00 0.00 0.00 3.71
1480 1502 0.537653 CCCGGGTTCTTCTCCTTCTC 59.462 60.000 14.18 0.00 0.00 2.87
1481 1503 0.910088 CCCCGGGTTCTTCTCCTTCT 60.910 60.000 21.85 0.00 0.00 2.85
1492 1514 4.416601 CTCCCTCCTCCCCGGGTT 62.417 72.222 21.85 0.00 41.40 4.11
1497 1519 0.105913 CACTACTCTCCCTCCTCCCC 60.106 65.000 0.00 0.00 0.00 4.81
1623 1645 0.914902 TCTCCCTCTCTCTGTCCCGA 60.915 60.000 0.00 0.00 0.00 5.14
1819 1841 0.323178 CCATTCTTCCTGGCACTGCT 60.323 55.000 0.00 0.00 0.00 4.24
2000 2022 7.438564 TGCAGTCACAGTATCAAACTAAGTAA 58.561 34.615 0.00 0.00 35.76 2.24
2017 2039 2.859806 GCACAAGTCCAAATGCAGTCAC 60.860 50.000 0.00 0.00 38.00 3.67
2181 2203 4.283467 CCAAATAGGTACGATGGATGGAGA 59.717 45.833 0.00 0.00 32.82 3.71
2182 2204 4.569943 CCAAATAGGTACGATGGATGGAG 58.430 47.826 0.00 0.00 32.82 3.86
2427 2449 1.067635 CCCGTTCCAAAAATGCTGGAG 60.068 52.381 0.00 0.00 43.79 3.86
2430 2452 1.068434 ACACCCGTTCCAAAAATGCTG 59.932 47.619 0.00 0.00 0.00 4.41
3154 3183 6.127703 TGGACTTTACTCGGACTAGAATCAAG 60.128 42.308 0.00 0.00 0.00 3.02
3254 3283 8.789825 AATCTACTACGGACTTATCGTATGAT 57.210 34.615 2.37 2.37 41.39 2.45
3562 3591 7.668052 TGACCAATATTTACCTAACAAGCAGTT 59.332 33.333 0.22 0.22 44.27 3.16
3563 3592 7.172342 TGACCAATATTTACCTAACAAGCAGT 58.828 34.615 0.00 0.00 0.00 4.40
3564 3593 7.624360 TGACCAATATTTACCTAACAAGCAG 57.376 36.000 0.00 0.00 0.00 4.24
3566 3595 8.220755 TCATGACCAATATTTACCTAACAAGC 57.779 34.615 0.00 0.00 0.00 4.01
3696 3729 9.294030 CAATATGCTTTTTCTCTGAAATACACC 57.706 33.333 0.00 0.00 0.00 4.16
3941 4099 2.421952 GCCAGTTTAGATCCATGCCTGA 60.422 50.000 0.00 0.00 0.00 3.86
4194 4373 4.365899 AAACCTTTGGTCGTTTGAAGAC 57.634 40.909 0.00 0.00 33.12 3.01
4311 4490 1.590238 CGATCTTGATGAAGTGACCGC 59.410 52.381 0.00 0.00 0.00 5.68
4494 4673 3.519913 GGAACCTCCTATCTCCACTTTGT 59.480 47.826 0.00 0.00 32.53 2.83
4741 4920 1.161563 GGCGAAAACCTGTCAACCGA 61.162 55.000 0.00 0.00 0.00 4.69
4743 4922 1.658114 GGGCGAAAACCTGTCAACC 59.342 57.895 0.00 0.00 0.00 3.77
4915 5094 3.953775 ACCAGTTGCCTCCCACCG 61.954 66.667 0.00 0.00 0.00 4.94
5111 5290 8.506437 CATCAGAACTTTTTACAGCACTTATGA 58.494 33.333 0.00 0.00 0.00 2.15
5112 5291 7.272084 GCATCAGAACTTTTTACAGCACTTATG 59.728 37.037 0.00 0.00 0.00 1.90
5113 5292 7.175641 AGCATCAGAACTTTTTACAGCACTTAT 59.824 33.333 0.00 0.00 0.00 1.73
5695 5880 0.605589 GTTTGCGCTTGGGTAGGAGT 60.606 55.000 9.73 0.00 0.00 3.85
5720 5905 8.697507 ATTCTCTTGTGTTAAGTCCATTTTCT 57.302 30.769 0.00 0.00 0.00 2.52
5771 5956 3.270877 GTCAATTCCTTCAGTGGCGTAT 58.729 45.455 0.00 0.00 0.00 3.06
5775 5960 0.804989 CCGTCAATTCCTTCAGTGGC 59.195 55.000 0.00 0.00 0.00 5.01
5819 6004 2.887152 GGCCCTTCAATAATGCCAGTAG 59.113 50.000 0.00 0.00 41.76 2.57
5865 6050 0.321564 TTGCTGGAGGTGAATCCACG 60.322 55.000 0.00 0.00 44.56 4.94
6007 6192 4.590647 GGTCACCTCCATATCTTCATCAGA 59.409 45.833 0.00 0.00 35.33 3.27
6028 6213 0.179000 GTGATTGATGGAGAGGCGGT 59.821 55.000 0.00 0.00 0.00 5.68
6130 6315 9.322773 CGAGCCATCAATATGTTCTATGATTAT 57.677 33.333 0.00 0.00 30.39 1.28
6171 6356 2.942804 TCACCTGGTTCTTCATTTGCA 58.057 42.857 0.00 0.00 0.00 4.08
6321 6506 1.471676 GGGCTGTCATCAGTAACCTCG 60.472 57.143 0.00 0.00 43.05 4.63
6378 6563 3.023119 ACTTGCAACAACATCCAACTCA 58.977 40.909 0.00 0.00 0.00 3.41
6498 6683 8.914011 CCCTCGGAGAATAAGGAATTAAAAATT 58.086 33.333 6.58 0.00 34.09 1.82
6535 6720 3.751518 ACTCAAAATAACTCCAGGCGTT 58.248 40.909 0.00 0.00 0.00 4.84
6536 6721 3.418684 ACTCAAAATAACTCCAGGCGT 57.581 42.857 0.00 0.00 0.00 5.68
6622 6815 3.062639 CACGTTAAGCTCATACCAGCAAG 59.937 47.826 0.00 0.00 42.40 4.01
6623 6816 3.000041 CACGTTAAGCTCATACCAGCAA 59.000 45.455 0.00 0.00 42.40 3.91
6624 6817 2.616960 CACGTTAAGCTCATACCAGCA 58.383 47.619 0.00 0.00 42.40 4.41
6625 6818 1.327764 GCACGTTAAGCTCATACCAGC 59.672 52.381 0.00 0.00 39.99 4.85
6626 6819 1.933853 GGCACGTTAAGCTCATACCAG 59.066 52.381 0.00 0.00 0.00 4.00
6627 6820 1.553248 AGGCACGTTAAGCTCATACCA 59.447 47.619 0.00 0.00 0.00 3.25
6628 6821 1.933853 CAGGCACGTTAAGCTCATACC 59.066 52.381 0.00 0.00 0.00 2.73
6629 6822 2.348666 CACAGGCACGTTAAGCTCATAC 59.651 50.000 0.00 0.00 0.00 2.39
6630 6823 2.616960 CACAGGCACGTTAAGCTCATA 58.383 47.619 0.00 0.00 0.00 2.15
6631 6824 1.442769 CACAGGCACGTTAAGCTCAT 58.557 50.000 0.00 0.00 0.00 2.90
6767 6970 8.772705 TGGCAGTAATTTTAAATTTTTCTGCAG 58.227 29.630 30.13 7.63 44.70 4.41
6809 7012 9.485591 CTAGCCTACAAACAAATTATTAACACG 57.514 33.333 0.00 0.00 0.00 4.49
6886 7090 5.130311 TCATGAAGCTAAGGGTGCAAGTATA 59.870 40.000 0.00 0.00 31.64 1.47
6930 7134 9.495572 TGTAACTGAAAAATGTTTTTGAGGTTT 57.504 25.926 17.47 9.17 37.93 3.27
6931 7135 8.931775 GTGTAACTGAAAAATGTTTTTGAGGTT 58.068 29.630 17.47 14.75 37.93 3.50
6932 7136 8.474006 GTGTAACTGAAAAATGTTTTTGAGGT 57.526 30.769 17.47 14.68 42.92 3.85
6954 7159 9.745880 CGTTATCAACTTCCTACAATATAGTGT 57.254 33.333 11.05 11.05 35.43 3.55
7129 7457 9.901172 ACTCCATCCGTTTCTAAATATAAGTTT 57.099 29.630 0.00 0.00 0.00 2.66
7174 7581 8.188799 TCTTCCGTTTAGTGATATCAAGTACTG 58.811 37.037 7.07 1.10 0.00 2.74
7176 7583 8.922058 TTCTTCCGTTTAGTGATATCAAGTAC 57.078 34.615 7.07 3.08 0.00 2.73
7214 7622 9.708092 AAGACTTGTATGTAGGAAAGTAGAAAC 57.292 33.333 0.00 0.00 33.14 2.78
7245 7653 6.460664 AAATTGCGGCAAAGTACAAAATAC 57.539 33.333 20.48 0.00 0.00 1.89
7272 7680 0.323725 CTGCACCCAAATACCCAGCT 60.324 55.000 0.00 0.00 0.00 4.24
7382 7790 5.406477 GCCACCATTTCTGATTTTTCACTTC 59.594 40.000 0.00 0.00 0.00 3.01
7463 7903 3.665190 CCTAACCTCCACAGTGTTTCTC 58.335 50.000 0.00 0.00 0.00 2.87
7464 7904 2.224548 GCCTAACCTCCACAGTGTTTCT 60.225 50.000 0.00 0.00 0.00 2.52
7465 7905 2.152016 GCCTAACCTCCACAGTGTTTC 58.848 52.381 0.00 0.00 0.00 2.78
7475 7915 3.372897 AGGTAGTACAAGCCTAACCTCC 58.627 50.000 2.06 0.00 0.00 4.30
7493 7933 0.381089 CGATCTAAACGCTCGGAGGT 59.619 55.000 7.20 0.25 0.00 3.85
7495 7935 1.202154 ACACGATCTAAACGCTCGGAG 60.202 52.381 0.00 0.00 35.68 4.63
7525 7974 7.639162 AACGCTATCATATTCTTTTACGGAG 57.361 36.000 0.00 0.00 0.00 4.63
7541 7990 9.990888 CACTATTTTAACGATCTAAACGCTATC 57.009 33.333 0.00 0.00 0.00 2.08
7543 7992 8.915871 ACACTATTTTAACGATCTAAACGCTA 57.084 30.769 0.00 0.00 0.00 4.26
7614 8167 7.766278 ACTTGATTTATTGTACGAAGCATCTCT 59.234 33.333 0.00 0.00 0.00 3.10
7650 8203 8.617809 ACCGGTGTTTATTTATAAGCACTAATG 58.382 33.333 21.07 13.20 46.78 1.90
7651 8204 8.617809 CACCGGTGTTTATTTATAAGCACTAAT 58.382 33.333 26.95 9.83 46.78 1.73
7652 8205 7.414319 GCACCGGTGTTTATTTATAAGCACTAA 60.414 37.037 33.92 0.00 46.78 2.24
7695 8255 7.499232 GGTGCTTAGATAAAATGCCTAGAGAAA 59.501 37.037 0.00 0.00 0.00 2.52
7704 8264 4.997565 TGCAAGGTGCTTAGATAAAATGC 58.002 39.130 1.43 0.00 45.31 3.56
7773 8340 1.096416 TTTGTCGCAACGAGGGTTTT 58.904 45.000 0.00 0.00 36.23 2.43
7811 8378 3.384168 TGACAGGATAGTAAGCATGGGT 58.616 45.455 0.00 0.00 0.00 4.51
7856 8424 4.276926 GCCCAGTCCTTGATGTATTTGATC 59.723 45.833 0.00 0.00 0.00 2.92
7857 8425 4.210331 GCCCAGTCCTTGATGTATTTGAT 58.790 43.478 0.00 0.00 0.00 2.57
7866 8434 1.489649 CAGAGATGCCCAGTCCTTGAT 59.510 52.381 0.00 0.00 0.00 2.57
7896 8464 1.904287 ATCTCTCGCTCGAGGCTTAT 58.096 50.000 15.58 5.43 42.20 1.73
8059 8629 9.347934 GATGTAGTAGCTCAATGTACATATGTC 57.652 37.037 12.68 5.06 35.06 3.06
8181 8759 3.868757 TTGTGAATCCACTCTAGTCGG 57.131 47.619 0.00 0.00 43.55 4.79
8438 9096 3.485743 GTGAGCCAAATTCGTGTTTTGAC 59.514 43.478 8.38 0.00 36.40 3.18
8495 9153 8.537728 TCCAATGTTTATAGGCTTGATCAAAT 57.462 30.769 9.88 2.65 0.00 2.32
8545 9396 9.166222 TGCTTCATATCCCTAGAAACCTTAATA 57.834 33.333 0.00 0.00 0.00 0.98
8640 9558 4.344938 TCAAGGGATCTCTTCTCTTCCT 57.655 45.455 4.37 0.00 41.59 3.36
8667 9585 1.619363 ATCACCCTTGCCCAGGCTA 60.619 57.895 10.58 0.80 42.29 3.93
8735 9653 2.126228 TCTCCCGTTTGTAGCGCG 60.126 61.111 0.00 0.00 0.00 6.86
8752 9670 2.124819 CAAGCTGAGGCGATGGCT 60.125 61.111 0.00 0.00 44.37 4.75
8811 9729 1.795768 TGCAGGAGTCAAAGTAAGCG 58.204 50.000 0.00 0.00 0.00 4.68
8878 9796 2.838386 ACAATGCAAGCATAGCTTCG 57.162 45.000 8.12 0.00 46.77 3.79
9032 9951 9.905713 TTTTAATGAATCAAGAGTATGCCTACT 57.094 29.630 0.79 0.79 40.98 2.57
9040 9959 7.975616 GCAAGCCATTTTAATGAATCAAGAGTA 59.024 33.333 4.07 0.00 38.70 2.59
9052 9971 8.842280 CCATCAAATAATGCAAGCCATTTTAAT 58.158 29.630 0.00 0.00 41.29 1.40
9103 10022 2.238521 GAATGACACCCTCTTTGGCAA 58.761 47.619 0.00 0.00 34.98 4.52
9133 10052 6.945435 ACCATGACATTTTTGTGGTGTATCTA 59.055 34.615 0.00 0.00 41.38 1.98
9169 10088 4.895668 ATTCAAATCACCCACATGCTTT 57.104 36.364 0.00 0.00 0.00 3.51
9195 10114 8.992835 AACATCAAGAAAATTATCAGGCTTTC 57.007 30.769 0.00 0.00 0.00 2.62
9197 10116 9.247861 ACTAACATCAAGAAAATTATCAGGCTT 57.752 29.630 0.00 0.00 0.00 4.35
9209 10128 9.042450 TCTCATACCCTTACTAACATCAAGAAA 57.958 33.333 0.00 0.00 0.00 2.52
9223 10142 5.729229 TCTGAAACCCATTCTCATACCCTTA 59.271 40.000 0.00 0.00 38.92 2.69
9237 10156 6.381498 TTGGTATATCAGTTCTGAAACCCA 57.619 37.500 19.74 14.52 35.92 4.51
9249 10168 7.730084 TGGATCTCTGAACTTTGGTATATCAG 58.270 38.462 0.00 0.00 39.04 2.90
9290 10209 2.625737 CACCTGCTCCTTACATGTCTG 58.374 52.381 0.00 0.00 0.00 3.51
9291 10210 1.065854 GCACCTGCTCCTTACATGTCT 60.066 52.381 0.00 0.00 38.21 3.41
9301 10220 0.107312 AGATGACATGCACCTGCTCC 60.107 55.000 0.00 0.00 42.66 4.70
9304 10223 1.400846 CAGAAGATGACATGCACCTGC 59.599 52.381 0.00 0.00 42.50 4.85
9314 10233 1.002430 TGTGACCAGCCAGAAGATGAC 59.998 52.381 0.00 0.00 0.00 3.06
9340 10259 4.892433 TGGGCATGTTAAAAAGGAATGTG 58.108 39.130 0.00 0.00 0.00 3.21
9341 10260 4.592778 ACTGGGCATGTTAAAAAGGAATGT 59.407 37.500 0.00 0.00 0.00 2.71
9362 10281 6.660521 TCAAAAGGAATGCATTAGATGTGACT 59.339 34.615 12.97 0.00 0.00 3.41
9391 10310 4.446371 AGAGCAGGAAAATACTCCATTCG 58.554 43.478 0.00 0.00 38.02 3.34
9421 10340 5.082425 ACTCTTGAGAAAAGCAATCCCAAT 58.918 37.500 4.49 0.00 0.00 3.16
9456 10376 3.225798 GTGCCCAAGGTGCAAGCA 61.226 61.111 0.00 0.00 41.06 3.91


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

AutoCloner maintained by Alex Coulton.