Multiple sequence alignment - TraesCS1B01G435300

Loading Multiple Alignment...

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 TraesCS1B01G435300 chr1B 100.000 2267 0 0 1 2267 659315866 659318132 0.000000e+00 4187.0
1 TraesCS1B01G435300 chr1B 87.960 598 53 9 832 1422 659182356 659182941 0.000000e+00 688.0
2 TraesCS1B01G435300 chr1B 86.348 564 56 10 814 1368 659294545 659295096 1.500000e-166 595.0
3 TraesCS1B01G435300 chr1B 84.186 645 49 21 748 1368 658968937 658969552 5.430000e-161 577.0
4 TraesCS1B01G435300 chr1B 86.397 544 54 9 832 1368 659285899 659286429 5.430000e-161 577.0
5 TraesCS1B01G435300 chr1B 81.308 535 59 15 1 518 659325218 659325728 1.630000e-106 396.0
6 TraesCS1B01G435300 chr1B 78.616 477 56 29 1812 2267 659295172 659295623 7.980000e-70 274.0
7 TraesCS1B01G435300 chr1B 78.586 481 54 27 1809 2267 658969605 658970058 2.870000e-69 272.0
8 TraesCS1B01G435300 chr1B 78.170 481 56 27 1809 2267 659003188 659003641 6.210000e-66 261.0
9 TraesCS1B01G435300 chr1B 78.448 464 54 28 1823 2267 659034285 659034721 6.210000e-66 261.0
10 TraesCS1B01G435300 chr1B 78.224 473 58 30 1812 2267 659074054 659074498 6.210000e-66 261.0
11 TraesCS1B01G435300 chr1B 85.882 255 20 8 2026 2267 659322436 659322687 8.030000e-65 257.0
12 TraesCS1B01G435300 chr1B 77.895 475 58 31 1812 2267 659286505 659286951 3.740000e-63 252.0
13 TraesCS1B01G435300 chr1B 83.333 198 19 8 1962 2149 659184643 659184836 1.080000e-38 171.0
14 TraesCS1B01G435300 chr1B 83.333 198 19 9 1962 2149 659289316 659289509 1.080000e-38 171.0
15 TraesCS1B01G435300 chr1B 82.828 198 20 8 1962 2149 659006570 659006763 5.010000e-37 165.0
16 TraesCS1B01G435300 chr1B 82.828 198 20 8 1962 2149 659076836 659077029 5.010000e-37 165.0
17 TraesCS1B01G435300 chr1B 81.250 208 12 14 728 926 659326096 659326285 2.350000e-30 143.0
18 TraesCS1B01G435300 chr1B 81.915 188 15 9 748 921 659073375 659073557 8.440000e-30 141.0
19 TraesCS1B01G435300 chr1B 94.444 36 2 0 780 815 658922765 658922800 3.150000e-04 56.5
20 TraesCS1B01G435300 chr1A 92.224 733 41 9 3 729 568387352 568388074 0.000000e+00 1024.0
21 TraesCS1B01G435300 chr1A 93.371 528 22 6 902 1422 568388897 568389418 0.000000e+00 769.0
22 TraesCS1B01G435300 chr1A 92.408 461 31 3 1810 2267 568389474 568389933 0.000000e+00 654.0
23 TraesCS1B01G435300 chr1A 87.593 540 43 14 751 1286 568383255 568383774 2.490000e-169 604.0
24 TraesCS1B01G435300 chr1A 84.261 629 62 17 748 1368 568265837 568266436 1.510000e-161 579.0
25 TraesCS1B01G435300 chr1A 82.584 534 55 14 1 518 568397504 568398015 9.610000e-119 436.0
26 TraesCS1B01G435300 chr1A 82.172 488 40 29 803 1287 568398457 568398900 2.130000e-100 375.0
27 TraesCS1B01G435300 chr1A 87.421 318 25 9 1961 2267 568384113 568384426 3.580000e-93 351.0
28 TraesCS1B01G435300 chr1A 90.083 242 14 4 1182 1416 568268157 568268395 2.830000e-79 305.0
29 TraesCS1B01G435300 chr1A 83.895 267 29 9 2006 2267 568266936 568267193 2.250000e-60 243.0
30 TraesCS1B01G435300 chr1A 86.792 159 8 8 753 908 568393319 568393467 5.010000e-37 165.0
31 TraesCS1B01G435300 chr1A 85.621 153 11 6 1816 1961 568122511 568122659 1.400000e-32 150.0
32 TraesCS1B01G435300 chr1A 92.784 97 2 3 728 824 568388132 568388223 3.930000e-28 135.0
33 TraesCS1B01G435300 chr1D 94.891 548 20 3 810 1353 473987173 473987716 0.000000e+00 850.0
34 TraesCS1B01G435300 chr1D 86.377 690 40 21 745 1422 473879598 473880245 0.000000e+00 704.0
35 TraesCS1B01G435300 chr1D 87.199 539 50 9 751 1287 473965823 473966344 1.500000e-166 595.0
36 TraesCS1B01G435300 chr1D 85.204 588 54 18 748 1325 473960989 473961553 7.020000e-160 573.0
37 TraesCS1B01G435300 chr1D 80.030 666 55 43 728 1368 473996804 473997416 2.690000e-114 422.0
38 TraesCS1B01G435300 chr1D 93.571 280 12 3 1 280 473970282 473970555 1.620000e-111 412.0
39 TraesCS1B01G435300 chr1D 95.367 259 12 0 278 536 473986616 473986874 1.620000e-111 412.0
40 TraesCS1B01G435300 chr1D 81.495 535 58 15 1 518 473995933 473996443 3.510000e-108 401.0
41 TraesCS1B01G435300 chr1D 95.781 237 9 1 2032 2267 473987959 473988195 4.570000e-102 381.0
42 TraesCS1B01G435300 chr1D 86.834 319 25 10 1962 2267 473966682 473966996 7.760000e-90 340.0
43 TraesCS1B01G435300 chr1D 79.281 473 70 19 1809 2267 473961671 473962129 2.830000e-79 305.0
44 TraesCS1B01G435300 chr1D 94.180 189 9 1 1809 1995 473987771 473987959 1.020000e-73 287.0
45 TraesCS1B01G435300 chr1D 88.382 241 19 5 2026 2262 473993107 473993342 4.770000e-72 281.0
46 TraesCS1B01G435300 chr1D 83.013 312 26 12 1962 2264 473997809 473998102 8.030000e-65 257.0
47 TraesCS1B01G435300 chr1D 92.517 147 10 1 1809 1955 473880300 473880445 2.280000e-50 209.0
48 TraesCS1B01G435300 chr1D 85.093 161 11 7 751 908 473992078 473992228 3.900000e-33 152.0
49 TraesCS1B01G435300 chr3D 85.750 400 41 10 1423 1816 43778475 43778864 2.100000e-110 409.0
50 TraesCS1B01G435300 chr3D 86.603 209 17 6 1610 1816 511127539 511127340 1.050000e-53 220.0
51 TraesCS1B01G435300 chr7D 85.323 402 35 15 1419 1816 426544887 426545268 5.870000e-106 394.0
52 TraesCS1B01G435300 chr7D 83.459 399 46 10 1434 1820 550840098 550839708 9.960000e-94 353.0
53 TraesCS1B01G435300 chr3A 85.496 393 31 9 1423 1809 746052340 746052712 9.820000e-104 387.0
54 TraesCS1B01G435300 chr3A 84.615 403 38 11 1423 1809 34039458 34039064 1.640000e-101 379.0
55 TraesCS1B01G435300 chr3A 84.250 400 42 9 1423 1809 9302171 9302562 9.890000e-99 370.0
56 TraesCS1B01G435300 chr6A 84.439 392 45 10 1423 1809 447628292 447628672 2.750000e-99 372.0
57 TraesCS1B01G435300 chr6A 84.814 349 41 7 1423 1768 602991615 602991954 7.760000e-90 340.0
58 TraesCS1B01G435300 chr2B 84.328 402 40 10 1423 1808 17463851 17464245 2.750000e-99 372.0
59 TraesCS1B01G435300 chr2B 83.051 413 47 10 1423 1821 17167960 17168363 9.960000e-94 353.0
60 TraesCS1B01G435300 chr2B 80.637 408 44 13 1415 1808 698301699 698302085 1.330000e-72 283.0
61 TraesCS1B01G435300 chr2B 83.165 297 30 12 1434 1720 711224896 711225182 1.040000e-63 254.0
62 TraesCS1B01G435300 chr2B 79.177 389 54 16 1424 1798 53712083 53712458 6.250000e-61 244.0
63 TraesCS1B01G435300 chrUn 84.000 400 43 9 1423 1809 81721229 81721620 4.600000e-97 364.0
64 TraesCS1B01G435300 chr7B 84.595 383 38 14 1433 1812 664400495 664400131 5.950000e-96 361.0
65 TraesCS1B01G435300 chr7B 87.562 201 14 5 1962 2153 152913695 152913497 2.930000e-54 222.0
66 TraesCS1B01G435300 chr5A 84.424 321 35 8 1496 1809 462166545 462166233 3.660000e-78 302.0
67 TraesCS1B01G435300 chr4A 81.250 400 45 21 1419 1807 629108694 629108314 1.700000e-76 296.0


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 TraesCS1B01G435300 chr1B 659315866 659318132 2266 False 4187.000000 4187 100.000000 1 2267 1 chr1B.!!$F3 2266
1 TraesCS1B01G435300 chr1B 659294545 659295623 1078 False 434.500000 595 82.482000 814 2267 2 chr1B.!!$F9 1453
2 TraesCS1B01G435300 chr1B 659182356 659184836 2480 False 429.500000 688 85.646500 832 2149 2 chr1B.!!$F7 1317
3 TraesCS1B01G435300 chr1B 658968937 658970058 1121 False 424.500000 577 81.386000 748 2267 2 chr1B.!!$F4 1519
4 TraesCS1B01G435300 chr1B 659285899 659289509 3610 False 333.333333 577 82.541667 832 2267 3 chr1B.!!$F8 1435
5 TraesCS1B01G435300 chr1B 659322436 659326285 3849 False 265.333333 396 82.813333 1 2267 3 chr1B.!!$F10 2266
6 TraesCS1B01G435300 chr1B 659003188 659006763 3575 False 213.000000 261 80.499000 1809 2267 2 chr1B.!!$F5 458
7 TraesCS1B01G435300 chr1A 568383255 568393467 10212 False 528.857143 1024 90.370429 3 2267 7 chr1A.!!$F3 2264
8 TraesCS1B01G435300 chr1A 568397504 568398900 1396 False 405.500000 436 82.378000 1 1287 2 chr1A.!!$F4 1286
9 TraesCS1B01G435300 chr1A 568265837 568268395 2558 False 375.666667 579 86.079667 748 2267 3 chr1A.!!$F2 1519
10 TraesCS1B01G435300 chr1D 473879598 473880445 847 False 456.500000 704 89.447000 745 1955 2 chr1D.!!$F1 1210
11 TraesCS1B01G435300 chr1D 473960989 473970555 9566 False 445.000000 595 86.417800 1 2267 5 chr1D.!!$F2 2266
12 TraesCS1B01G435300 chr1D 473986616 473998102 11486 False 382.555556 850 88.692444 1 2267 9 chr1D.!!$F3 2266

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
166 2949 0.033796 TAGCAGTAGCACGTACCCCT 60.034 55.0 0.0 0.0 45.49 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1423 10000 0.538287 GGGAGCTGTTGCACCTTTCT 60.538 55.0 0.0 0.0 46.88 2.52 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
24 2807 6.982160 TTGGTAATTAACTCGGATAGGCTA 57.018 37.500 1.50 0.00 0.00 3.93
45 2828 0.396811 GAGGGTGCACACTTGGTACT 59.603 55.000 25.24 0.00 0.00 2.73
78 2861 6.663523 GGATTAGAGGGGTTTCAGAAAAATGA 59.336 38.462 0.00 0.00 0.00 2.57
91 2874 6.392354 TCAGAAAAATGATGGAAATGAGCAC 58.608 36.000 0.00 0.00 0.00 4.40
93 2876 5.246656 AGAAAAATGATGGAAATGAGCACCA 59.753 36.000 0.00 0.00 38.09 4.17
106 2889 3.173151 TGAGCACCAAGATCAGAGGTTA 58.827 45.455 0.00 0.00 37.82 2.85
113 2896 4.202441 CCAAGATCAGAGGTTATTGGGTG 58.798 47.826 0.00 0.00 34.80 4.61
138 2921 2.619147 CACCTGTGCATCTCTCTTCTG 58.381 52.381 0.00 0.00 0.00 3.02
139 2922 1.554160 ACCTGTGCATCTCTCTTCTGG 59.446 52.381 0.00 0.00 0.00 3.86
140 2923 1.829849 CCTGTGCATCTCTCTTCTGGA 59.170 52.381 0.00 0.00 0.00 3.86
141 2924 2.435069 CCTGTGCATCTCTCTTCTGGAT 59.565 50.000 0.00 0.00 0.00 3.41
142 2925 3.640498 CCTGTGCATCTCTCTTCTGGATA 59.360 47.826 0.00 0.00 0.00 2.59
143 2926 4.262121 CCTGTGCATCTCTCTTCTGGATAG 60.262 50.000 0.00 0.00 0.00 2.08
144 2927 3.640498 TGTGCATCTCTCTTCTGGATAGG 59.360 47.826 0.00 0.00 0.00 2.57
145 2928 3.894427 GTGCATCTCTCTTCTGGATAGGA 59.106 47.826 0.00 0.00 0.00 2.94
146 2929 4.343526 GTGCATCTCTCTTCTGGATAGGAA 59.656 45.833 0.00 0.00 0.00 3.36
147 2930 5.011943 GTGCATCTCTCTTCTGGATAGGAAT 59.988 44.000 0.00 0.00 0.00 3.01
149 2932 6.436847 TGCATCTCTCTTCTGGATAGGAATAG 59.563 42.308 0.00 0.00 0.00 1.73
152 2935 6.009589 TCTCTCTTCTGGATAGGAATAGCAG 58.990 44.000 0.00 0.00 0.00 4.24
162 2945 3.712091 AGGAATAGCAGTAGCACGTAC 57.288 47.619 0.00 0.00 45.49 3.67
166 2949 0.033796 TAGCAGTAGCACGTACCCCT 60.034 55.000 0.00 0.00 45.49 4.79
172 2955 0.333993 TAGCACGTACCCCTTCCTCT 59.666 55.000 0.00 0.00 0.00 3.69
208 2992 1.139989 CTATTGGCTGATACGCACGG 58.860 55.000 0.00 0.00 0.00 4.94
227 3011 1.474879 GGCTTACGAAGAGCTCTCTGT 59.525 52.381 18.55 19.82 40.36 3.41
231 3015 0.800012 ACGAAGAGCTCTCTGTCGAC 59.200 55.000 32.35 9.11 39.85 4.20
241 3025 0.174389 CTCTGTCGACCCATGTCAGG 59.826 60.000 14.12 0.00 41.85 3.86
259 3043 1.805945 GATCACACACGGCCGAGAC 60.806 63.158 35.90 9.89 0.00 3.36
260 3048 3.626680 ATCACACACGGCCGAGACG 62.627 63.158 35.90 22.30 41.40 4.18
388 3192 2.736144 TGGAACCACGTAGCAAGTAG 57.264 50.000 0.00 0.00 0.00 2.57
435 3239 6.930731 TGAATACCAAAAAGGAAATACAGCC 58.069 36.000 0.00 0.00 41.22 4.85
442 3246 3.627395 AAGGAAATACAGCCATCGACA 57.373 42.857 0.00 0.00 0.00 4.35
455 3259 3.119884 GCCATCGACACATGATTTTCACA 60.120 43.478 0.00 0.00 0.00 3.58
500 3304 3.559238 ATTCGACGCTGAAAATTGCTT 57.441 38.095 0.00 0.00 0.00 3.91
545 3450 1.402787 CACCAAAGGCTTCACAGGTT 58.597 50.000 0.00 0.00 0.00 3.50
549 3454 2.035066 CCAAAGGCTTCACAGGTTTCTG 59.965 50.000 0.00 0.00 46.10 3.02
594 3499 6.599638 AGCTGGTAATTTTTACTTAGCTGGAG 59.400 38.462 19.21 0.00 36.95 3.86
656 3567 8.522003 ACAGCTATGATATCTAGAAGATGTGTG 58.478 37.037 9.37 0.00 35.37 3.82
669 3580 9.770097 CTAGAAGATGTGTGTAATGTTGGATAT 57.230 33.333 0.00 0.00 0.00 1.63
670 3581 8.442632 AGAAGATGTGTGTAATGTTGGATATG 57.557 34.615 0.00 0.00 0.00 1.78
683 3601 3.298686 TGGATATGACTCCAGACGTCT 57.701 47.619 13.58 13.58 40.43 4.18
701 3624 1.845791 TCTTAGGAATGCCCTCATGCA 59.154 47.619 0.00 0.00 43.31 3.96
718 3641 0.614812 GCACATCTGGGCCCAAAAAT 59.385 50.000 28.29 16.76 38.87 1.82
776 3767 1.946768 CAGAAAACCTGCGAGAACCAA 59.053 47.619 0.00 0.00 35.89 3.67
777 3768 1.947456 AGAAAACCTGCGAGAACCAAC 59.053 47.619 0.00 0.00 0.00 3.77
778 3769 1.001706 GAAAACCTGCGAGAACCAACC 60.002 52.381 0.00 0.00 0.00 3.77
779 3770 0.106918 AAACCTGCGAGAACCAACCA 60.107 50.000 0.00 0.00 0.00 3.67
824 3828 4.602340 TTTAACCCACAGAGAGAGACAC 57.398 45.455 0.00 0.00 0.00 3.67
926 3963 1.625818 GAGCAAAGGACTTCCAGGAGA 59.374 52.381 0.00 0.00 38.89 3.71
927 3964 1.349357 AGCAAAGGACTTCCAGGAGAC 59.651 52.381 0.00 0.00 38.89 3.36
928 3965 1.611936 GCAAAGGACTTCCAGGAGACC 60.612 57.143 0.00 0.00 38.89 3.85
1236 9796 3.090532 GGTCGCATCCCCTTCCCT 61.091 66.667 0.00 0.00 0.00 4.20
1368 9935 3.244526 TGCTGTATTTGTCTGCTTCCTGA 60.245 43.478 0.00 0.00 0.00 3.86
1382 9949 5.423015 TGCTTCCTGAGAAAAGTATGCTAG 58.577 41.667 0.00 0.00 0.00 3.42
1416 9993 9.982291 TTTGTCGTTAGCATAATAGATGTTTTC 57.018 29.630 0.00 0.00 0.00 2.29
1437 10014 3.807622 TCTTAACGAGAAAGGTGCAACAG 59.192 43.478 3.64 0.00 39.98 3.16
1438 10015 0.663153 AACGAGAAAGGTGCAACAGC 59.337 50.000 3.64 0.00 39.98 4.40
1439 10016 0.179045 ACGAGAAAGGTGCAACAGCT 60.179 50.000 3.64 0.00 44.48 4.24
1440 10017 0.514691 CGAGAAAGGTGCAACAGCTC 59.485 55.000 3.64 6.49 41.59 4.09
1441 10018 0.877743 GAGAAAGGTGCAACAGCTCC 59.122 55.000 3.64 0.57 41.59 4.70
1442 10019 0.538287 AGAAAGGTGCAACAGCTCCC 60.538 55.000 3.64 0.00 41.59 4.30
1446 10023 4.643387 GTGCAACAGCTCCCGGGT 62.643 66.667 22.86 0.00 36.32 5.28
1462 10039 2.669240 GTGCCCCTACACCCTCAC 59.331 66.667 0.00 0.00 34.35 3.51
1463 10040 3.000819 TGCCCCTACACCCTCACG 61.001 66.667 0.00 0.00 0.00 4.35
1464 10041 2.682494 GCCCCTACACCCTCACGA 60.682 66.667 0.00 0.00 0.00 4.35
1465 10042 2.288025 GCCCCTACACCCTCACGAA 61.288 63.158 0.00 0.00 0.00 3.85
1466 10043 1.595357 CCCCTACACCCTCACGAAC 59.405 63.158 0.00 0.00 0.00 3.95
1467 10044 1.189524 CCCCTACACCCTCACGAACA 61.190 60.000 0.00 0.00 0.00 3.18
1468 10045 0.682852 CCCTACACCCTCACGAACAA 59.317 55.000 0.00 0.00 0.00 2.83
1469 10046 1.278127 CCCTACACCCTCACGAACAAT 59.722 52.381 0.00 0.00 0.00 2.71
1470 10047 2.498481 CCCTACACCCTCACGAACAATA 59.502 50.000 0.00 0.00 0.00 1.90
1471 10048 3.055675 CCCTACACCCTCACGAACAATAA 60.056 47.826 0.00 0.00 0.00 1.40
1472 10049 4.563993 CCCTACACCCTCACGAACAATAAA 60.564 45.833 0.00 0.00 0.00 1.40
1473 10050 5.183228 CCTACACCCTCACGAACAATAAAT 58.817 41.667 0.00 0.00 0.00 1.40
1474 10051 5.646360 CCTACACCCTCACGAACAATAAATT 59.354 40.000 0.00 0.00 0.00 1.82
1475 10052 6.150474 CCTACACCCTCACGAACAATAAATTT 59.850 38.462 0.00 0.00 0.00 1.82
1476 10053 5.768317 ACACCCTCACGAACAATAAATTTG 58.232 37.500 0.00 0.00 0.00 2.32
1477 10054 5.300792 ACACCCTCACGAACAATAAATTTGT 59.699 36.000 0.00 0.00 0.00 2.83
1478 10055 6.487331 ACACCCTCACGAACAATAAATTTGTA 59.513 34.615 0.00 0.00 31.50 2.41
1479 10056 7.013464 ACACCCTCACGAACAATAAATTTGTAA 59.987 33.333 0.00 0.00 31.50 2.41
1480 10057 7.863375 CACCCTCACGAACAATAAATTTGTAAA 59.137 33.333 0.00 0.00 31.50 2.01
1481 10058 8.414778 ACCCTCACGAACAATAAATTTGTAAAA 58.585 29.630 0.00 0.00 31.50 1.52
1482 10059 9.250624 CCCTCACGAACAATAAATTTGTAAAAA 57.749 29.630 0.00 0.00 31.50 1.94
1521 10098 8.902540 AAAAATATTTGAAACTTTCAGGGACC 57.097 30.769 0.39 0.00 41.38 4.46
1522 10099 7.610580 AAATATTTGAAACTTTCAGGGACCA 57.389 32.000 0.00 0.00 41.38 4.02
1523 10100 7.610580 AATATTTGAAACTTTCAGGGACCAA 57.389 32.000 4.43 0.00 41.38 3.67
1524 10101 5.948742 ATTTGAAACTTTCAGGGACCAAA 57.051 34.783 4.43 0.00 41.38 3.28
1525 10102 4.729227 TTGAAACTTTCAGGGACCAAAC 57.271 40.909 4.43 0.00 41.38 2.93
1526 10103 3.702792 TGAAACTTTCAGGGACCAAACA 58.297 40.909 0.00 0.00 34.08 2.83
1527 10104 4.285863 TGAAACTTTCAGGGACCAAACAT 58.714 39.130 0.00 0.00 34.08 2.71
1528 10105 4.099266 TGAAACTTTCAGGGACCAAACATG 59.901 41.667 0.00 0.00 34.08 3.21
1529 10106 3.593442 ACTTTCAGGGACCAAACATGA 57.407 42.857 0.00 0.00 0.00 3.07
1530 10107 4.118168 ACTTTCAGGGACCAAACATGAT 57.882 40.909 0.00 0.00 0.00 2.45
1531 10108 4.082125 ACTTTCAGGGACCAAACATGATC 58.918 43.478 0.00 0.00 0.00 2.92
1532 10109 3.805066 TTCAGGGACCAAACATGATCA 57.195 42.857 0.00 0.00 0.00 2.92
1533 10110 3.805066 TCAGGGACCAAACATGATCAA 57.195 42.857 0.00 0.00 0.00 2.57
1534 10111 4.111255 TCAGGGACCAAACATGATCAAA 57.889 40.909 0.00 0.00 0.00 2.69
1535 10112 4.081406 TCAGGGACCAAACATGATCAAAG 58.919 43.478 0.00 0.00 0.00 2.77
1536 10113 4.081406 CAGGGACCAAACATGATCAAAGA 58.919 43.478 0.00 0.00 0.00 2.52
1537 10114 4.708421 CAGGGACCAAACATGATCAAAGAT 59.292 41.667 0.00 0.00 0.00 2.40
1538 10115 5.186409 CAGGGACCAAACATGATCAAAGATT 59.814 40.000 0.00 0.00 0.00 2.40
1539 10116 5.781818 AGGGACCAAACATGATCAAAGATTT 59.218 36.000 0.00 0.00 0.00 2.17
1540 10117 5.870978 GGGACCAAACATGATCAAAGATTTG 59.129 40.000 0.00 8.22 39.48 2.32
1556 10133 9.985730 TCAAAGATTTGATATCTTGCAAAGTTT 57.014 25.926 0.00 0.00 42.53 2.66
1558 10135 9.985730 AAAGATTTGATATCTTGCAAAGTTTCA 57.014 25.926 0.00 0.41 46.34 2.69
1559 10136 9.635520 AAGATTTGATATCTTGCAAAGTTTCAG 57.364 29.630 0.00 0.00 46.34 3.02
1560 10137 9.017509 AGATTTGATATCTTGCAAAGTTTCAGA 57.982 29.630 0.00 0.00 46.34 3.27
1561 10138 9.630098 GATTTGATATCTTGCAAAGTTTCAGAA 57.370 29.630 0.00 2.29 46.34 3.02
1562 10139 9.985730 ATTTGATATCTTGCAAAGTTTCAGAAA 57.014 25.926 0.00 0.00 46.34 2.52
1563 10140 8.801715 TTGATATCTTGCAAAGTTTCAGAAAC 57.198 30.769 17.11 17.11 46.34 2.78
1564 10141 7.939782 TGATATCTTGCAAAGTTTCAGAAACA 58.060 30.769 24.85 4.16 46.34 2.83
1565 10142 8.412456 TGATATCTTGCAAAGTTTCAGAAACAA 58.588 29.630 24.85 11.13 46.34 2.83
1566 10143 9.248291 GATATCTTGCAAAGTTTCAGAAACAAA 57.752 29.630 24.85 11.52 46.34 2.83
1567 10144 9.768662 ATATCTTGCAAAGTTTCAGAAACAAAT 57.231 25.926 24.85 10.22 46.34 2.32
1569 10146 8.994429 TCTTGCAAAGTTTCAGAAACAAATAA 57.006 26.923 24.85 13.14 46.34 1.40
1570 10147 8.868916 TCTTGCAAAGTTTCAGAAACAAATAAC 58.131 29.630 24.85 11.33 46.34 1.89
1571 10148 7.532682 TGCAAAGTTTCAGAAACAAATAACC 57.467 32.000 24.85 9.10 43.79 2.85
1572 10149 7.327214 TGCAAAGTTTCAGAAACAAATAACCT 58.673 30.769 24.85 2.03 43.79 3.50
1573 10150 7.821846 TGCAAAGTTTCAGAAACAAATAACCTT 59.178 29.630 24.85 7.71 43.79 3.50
1574 10151 8.328146 GCAAAGTTTCAGAAACAAATAACCTTC 58.672 33.333 24.85 0.00 43.79 3.46
1575 10152 9.364989 CAAAGTTTCAGAAACAAATAACCTTCA 57.635 29.630 24.85 0.00 43.79 3.02
1577 10154 9.533253 AAGTTTCAGAAACAAATAACCTTCATG 57.467 29.630 24.85 0.00 43.79 3.07
1578 10155 8.143835 AGTTTCAGAAACAAATAACCTTCATGG 58.856 33.333 24.85 0.00 43.79 3.66
1579 10156 7.831691 TTCAGAAACAAATAACCTTCATGGA 57.168 32.000 0.00 0.00 39.71 3.41
1580 10157 8.421249 TTCAGAAACAAATAACCTTCATGGAT 57.579 30.769 0.00 0.00 39.71 3.41
1581 10158 8.055279 TCAGAAACAAATAACCTTCATGGATC 57.945 34.615 0.00 0.00 39.71 3.36
1582 10159 7.122650 TCAGAAACAAATAACCTTCATGGATCC 59.877 37.037 4.20 4.20 39.71 3.36
1583 10160 6.381133 AGAAACAAATAACCTTCATGGATCCC 59.619 38.462 9.90 0.00 39.71 3.85
1584 10161 5.472301 ACAAATAACCTTCATGGATCCCT 57.528 39.130 9.90 0.00 39.71 4.20
1585 10162 5.449553 ACAAATAACCTTCATGGATCCCTC 58.550 41.667 9.90 0.00 39.71 4.30
1586 10163 5.044179 ACAAATAACCTTCATGGATCCCTCA 60.044 40.000 9.90 0.00 39.71 3.86
1587 10164 4.713792 ATAACCTTCATGGATCCCTCAC 57.286 45.455 9.90 0.00 39.71 3.51
1588 10165 1.216990 ACCTTCATGGATCCCTCACC 58.783 55.000 9.90 0.00 39.71 4.02
1589 10166 1.216064 CCTTCATGGATCCCTCACCA 58.784 55.000 9.90 0.00 40.57 4.17
1590 10167 1.565759 CCTTCATGGATCCCTCACCAA 59.434 52.381 9.90 0.00 39.69 3.67
1591 10168 2.025037 CCTTCATGGATCCCTCACCAAA 60.025 50.000 9.90 0.00 39.69 3.28
1592 10169 3.564133 CCTTCATGGATCCCTCACCAAAA 60.564 47.826 9.90 0.00 39.69 2.44
1593 10170 3.824001 TCATGGATCCCTCACCAAAAA 57.176 42.857 9.90 0.00 39.69 1.94
1666 10243 3.634397 TTTTAGGTGAGGGCTCATGAG 57.366 47.619 18.84 18.84 42.18 2.90
1667 10244 2.550277 TTAGGTGAGGGCTCATGAGA 57.450 50.000 27.04 1.45 42.18 3.27
1668 10245 2.783379 TAGGTGAGGGCTCATGAGAT 57.217 50.000 27.04 10.95 42.18 2.75
1669 10246 1.129917 AGGTGAGGGCTCATGAGATG 58.870 55.000 27.04 0.93 42.18 2.90
1670 10247 0.835941 GGTGAGGGCTCATGAGATGT 59.164 55.000 27.04 8.84 42.18 3.06
1671 10248 1.211457 GGTGAGGGCTCATGAGATGTT 59.789 52.381 27.04 7.97 42.18 2.71
1672 10249 2.356535 GGTGAGGGCTCATGAGATGTTT 60.357 50.000 27.04 6.15 42.18 2.83
1673 10250 3.350833 GTGAGGGCTCATGAGATGTTTT 58.649 45.455 27.04 4.72 42.18 2.43
1674 10251 3.760684 GTGAGGGCTCATGAGATGTTTTT 59.239 43.478 27.04 3.65 42.18 1.94
1712 10289 9.598517 TTAAAACTTTGCAAGATCATCAAAAGT 57.401 25.926 0.00 9.50 30.47 2.66
1713 10290 8.496707 AAAACTTTGCAAGATCATCAAAAGTT 57.503 26.923 16.93 16.93 30.47 2.66
1714 10291 8.496707 AAACTTTGCAAGATCATCAAAAGTTT 57.503 26.923 22.79 22.79 32.73 2.66
1715 10292 7.473027 ACTTTGCAAGATCATCAAAAGTTTG 57.527 32.000 0.00 0.00 39.48 2.93
1743 10320 9.513906 TCATATTTGATGTACCAAAGTTTCAGA 57.486 29.630 4.08 0.00 39.13 3.27
1748 10325 9.883142 TTTGATGTACCAAAGTTTCAGATTTTT 57.117 25.926 0.00 0.00 32.77 1.94
1782 10359 8.335532 TGTTTTGAATTACTGTTCATAGAGGG 57.664 34.615 0.00 0.00 37.88 4.30
1783 10360 7.942341 TGTTTTGAATTACTGTTCATAGAGGGT 59.058 33.333 0.00 0.00 37.88 4.34
1784 10361 7.921786 TTTGAATTACTGTTCATAGAGGGTG 57.078 36.000 0.00 0.00 37.88 4.61
1785 10362 6.620877 TGAATTACTGTTCATAGAGGGTGT 57.379 37.500 0.00 0.00 33.41 4.16
1786 10363 7.727578 TGAATTACTGTTCATAGAGGGTGTA 57.272 36.000 0.00 0.00 33.41 2.90
1787 10364 7.782049 TGAATTACTGTTCATAGAGGGTGTAG 58.218 38.462 0.00 0.00 33.41 2.74
1788 10365 6.732896 ATTACTGTTCATAGAGGGTGTAGG 57.267 41.667 0.00 0.00 0.00 3.18
1789 10366 3.375699 ACTGTTCATAGAGGGTGTAGGG 58.624 50.000 0.00 0.00 0.00 3.53
1790 10367 2.700897 CTGTTCATAGAGGGTGTAGGGG 59.299 54.545 0.00 0.00 0.00 4.79
1791 10368 1.416772 GTTCATAGAGGGTGTAGGGGC 59.583 57.143 0.00 0.00 0.00 5.80
1792 10369 0.639943 TCATAGAGGGTGTAGGGGCA 59.360 55.000 0.00 0.00 0.00 5.36
1793 10370 0.759346 CATAGAGGGTGTAGGGGCAC 59.241 60.000 0.00 0.00 38.56 5.01
1894 10477 0.032217 CCACCCTGGCCCAATGTATT 60.032 55.000 0.00 0.00 0.00 1.89
1933 15525 6.948309 AGCACAATTAGACAATTTCCCTACTT 59.052 34.615 0.00 0.00 31.82 2.24
1989 15660 6.426587 ACCTCATGCCTACATAGAACAAAAT 58.573 36.000 0.00 0.00 33.67 1.82
2024 15699 5.717038 GAGCAAGTCTCTTCTATTTGAGC 57.283 43.478 0.00 0.00 38.78 4.26
2057 15738 7.939784 TCAGAGTTCAGATAAGCTTACAGTA 57.060 36.000 8.70 0.00 0.00 2.74
2211 15900 5.067805 GCATTGGTTAGAATAACAGGAAGGG 59.932 44.000 2.42 0.00 0.00 3.95
2217 15906 6.296259 GGTTAGAATAACAGGAAGGGAAGTGA 60.296 42.308 2.42 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 2807 1.064003 TACCAAGTGTGCACCCTCAT 58.936 50.000 15.69 0.00 0.00 2.90
45 2828 5.044476 TGAAACCCCTCTAATCCAATGCTAA 60.044 40.000 0.00 0.00 0.00 3.09
78 2861 3.952323 CTGATCTTGGTGCTCATTTCCAT 59.048 43.478 0.00 0.00 0.00 3.41
91 2874 4.202441 CACCCAATAACCTCTGATCTTGG 58.798 47.826 0.00 0.00 34.31 3.61
93 2876 4.848357 CACACCCAATAACCTCTGATCTT 58.152 43.478 0.00 0.00 0.00 2.40
127 2910 6.560361 TGCTATTCCTATCCAGAAGAGAGAT 58.440 40.000 0.00 0.00 35.74 2.75
128 2911 5.958321 TGCTATTCCTATCCAGAAGAGAGA 58.042 41.667 0.00 0.00 35.74 3.10
129 2912 5.774690 ACTGCTATTCCTATCCAGAAGAGAG 59.225 44.000 0.00 0.00 35.11 3.20
130 2913 5.710646 ACTGCTATTCCTATCCAGAAGAGA 58.289 41.667 0.00 0.00 35.11 3.10
131 2914 6.350110 GCTACTGCTATTCCTATCCAGAAGAG 60.350 46.154 0.00 0.00 36.01 2.85
132 2915 5.478679 GCTACTGCTATTCCTATCCAGAAGA 59.521 44.000 0.00 0.00 36.03 2.87
133 2916 5.244851 TGCTACTGCTATTCCTATCCAGAAG 59.755 44.000 0.00 0.00 40.48 2.85
134 2917 5.011125 GTGCTACTGCTATTCCTATCCAGAA 59.989 44.000 0.00 0.00 40.48 3.02
135 2918 4.524714 GTGCTACTGCTATTCCTATCCAGA 59.475 45.833 0.00 0.00 40.48 3.86
136 2919 4.617067 CGTGCTACTGCTATTCCTATCCAG 60.617 50.000 0.00 0.00 40.48 3.86
137 2920 3.255888 CGTGCTACTGCTATTCCTATCCA 59.744 47.826 0.00 0.00 40.48 3.41
138 2921 3.256136 ACGTGCTACTGCTATTCCTATCC 59.744 47.826 0.00 0.00 40.48 2.59
139 2922 4.506886 ACGTGCTACTGCTATTCCTATC 57.493 45.455 0.00 0.00 40.48 2.08
140 2923 4.217983 GGTACGTGCTACTGCTATTCCTAT 59.782 45.833 3.01 0.00 40.48 2.57
141 2924 3.567164 GGTACGTGCTACTGCTATTCCTA 59.433 47.826 3.01 0.00 40.48 2.94
142 2925 2.361438 GGTACGTGCTACTGCTATTCCT 59.639 50.000 3.01 0.00 40.48 3.36
143 2926 2.545322 GGGTACGTGCTACTGCTATTCC 60.545 54.545 3.01 0.00 40.48 3.01
144 2927 2.545322 GGGGTACGTGCTACTGCTATTC 60.545 54.545 3.01 0.00 40.48 1.75
145 2928 1.411612 GGGGTACGTGCTACTGCTATT 59.588 52.381 3.01 0.00 40.48 1.73
146 2929 1.038280 GGGGTACGTGCTACTGCTAT 58.962 55.000 3.01 0.00 40.48 2.97
147 2930 0.033796 AGGGGTACGTGCTACTGCTA 60.034 55.000 3.01 0.00 40.48 3.49
149 2932 0.459759 GAAGGGGTACGTGCTACTGC 60.460 60.000 3.01 0.00 40.20 4.40
152 2935 0.459078 GAGGAAGGGGTACGTGCTAC 59.541 60.000 3.01 0.00 27.87 3.58
162 2945 4.148825 CGCCACGAGAGGAAGGGG 62.149 72.222 0.00 0.00 0.00 4.79
166 2949 3.311110 AAGGCGCCACGAGAGGAA 61.311 61.111 31.54 0.00 0.00 3.36
200 2984 0.179181 CTCTTCGTAAGCCGTGCGTA 60.179 55.000 0.00 0.00 36.61 4.42
206 2990 0.736053 AGAGAGCTCTTCGTAAGCCG 59.264 55.000 19.36 0.00 40.75 5.52
208 2992 2.789779 CGACAGAGAGCTCTTCGTAAGC 60.790 54.545 22.46 7.96 37.98 3.09
216 3000 0.033601 ATGGGTCGACAGAGAGCTCT 60.034 55.000 18.28 18.28 41.37 4.09
231 3015 1.742761 GTGTGTGATCCTGACATGGG 58.257 55.000 0.00 0.00 0.00 4.00
241 3025 1.805945 GTCTCGGCCGTGTGTGATC 60.806 63.158 27.15 7.18 0.00 2.92
259 3043 0.176449 TCTCTGGATGCATGGTGACG 59.824 55.000 2.46 0.00 0.00 4.35
260 3048 2.158856 TCATCTCTGGATGCATGGTGAC 60.159 50.000 2.46 0.00 46.41 3.67
263 3051 2.405559 TCTCATCTCTGGATGCATGGT 58.594 47.619 2.46 0.00 46.41 3.55
281 3069 0.957395 CTGCACCAACGGAAGCATCT 60.957 55.000 5.62 0.00 36.90 2.90
388 3192 6.206634 TCAGTTTTGAAATACCTGACCATGTC 59.793 38.462 0.00 0.00 0.00 3.06
435 3239 5.090757 CCTTGTGAAAATCATGTGTCGATG 58.909 41.667 0.00 0.00 0.00 3.84
442 3246 7.781324 ACTAAATCCCTTGTGAAAATCATGT 57.219 32.000 0.00 0.00 0.00 3.21
455 3259 8.950007 TTTTCTGTTCCATAACTAAATCCCTT 57.050 30.769 0.00 0.00 36.51 3.95
469 3273 2.223144 CAGCGTCGAATTTTCTGTTCCA 59.777 45.455 0.00 0.00 0.00 3.53
500 3304 0.961857 ACGATGGCAGCTTTGATGCA 60.962 50.000 9.93 0.00 45.68 3.96
549 3454 2.106477 AGCTAGTCTTTGCTCCAAGC 57.894 50.000 0.00 0.00 42.82 4.01
562 3467 9.819267 CTAAGTAAAAATTACCAGCTAGCTAGT 57.181 33.333 18.86 19.36 0.00 2.57
564 3469 8.483758 AGCTAAGTAAAAATTACCAGCTAGCTA 58.516 33.333 18.86 1.28 35.73 3.32
566 3471 7.410485 CAGCTAAGTAAAAATTACCAGCTAGC 58.590 38.462 18.72 6.62 35.73 3.42
613 3518 2.286294 GCTGTAGAAACTGGATGCATCG 59.714 50.000 20.15 10.12 0.00 3.84
614 3519 3.539604 AGCTGTAGAAACTGGATGCATC 58.460 45.455 18.81 18.81 0.00 3.91
616 3521 4.162131 TCATAGCTGTAGAAACTGGATGCA 59.838 41.667 0.00 0.00 0.00 3.96
669 3580 2.873094 TCCTAAGACGTCTGGAGTCA 57.127 50.000 20.85 5.78 40.84 3.41
670 3581 3.735514 GCATTCCTAAGACGTCTGGAGTC 60.736 52.174 20.85 10.73 38.81 3.36
701 3624 0.614812 GCATTTTTGGGCCCAGATGT 59.385 50.000 30.03 16.60 0.00 3.06
718 3641 6.884295 ACATAGAAAGCCTGTGTAATTAAGCA 59.116 34.615 0.00 0.00 44.04 3.91
776 3767 2.703007 GCTGAGGAGAGGATAACATGGT 59.297 50.000 0.00 0.00 0.00 3.55
777 3768 2.038295 GGCTGAGGAGAGGATAACATGG 59.962 54.545 0.00 0.00 0.00 3.66
778 3769 2.702478 TGGCTGAGGAGAGGATAACATG 59.298 50.000 0.00 0.00 0.00 3.21
779 3770 2.703007 GTGGCTGAGGAGAGGATAACAT 59.297 50.000 0.00 0.00 0.00 2.71
824 3828 2.957902 TATAGGCCCTGGGGGTGTCG 62.958 65.000 16.03 0.00 46.51 4.35
866 3903 3.878160 TTGGTTTGGTTTGGTGTCTTC 57.122 42.857 0.00 0.00 0.00 2.87
1236 9796 5.045869 CCAGAATCCTTGGGTCTTGTACTTA 60.046 44.000 0.00 0.00 0.00 2.24
1278 9841 7.067615 TCAGAGTATCCTATGTCTGTTGAGAAC 59.932 40.741 0.00 0.00 38.09 3.01
1382 9949 1.804151 TGCTAACGACAAAGTCATGCC 59.196 47.619 0.00 0.00 32.09 4.40
1391 9958 9.378551 AGAAAACATCTATTATGCTAACGACAA 57.621 29.630 0.00 0.00 36.32 3.18
1416 9993 3.607078 GCTGTTGCACCTTTCTCGTTAAG 60.607 47.826 0.00 0.00 39.41 1.85
1422 9999 0.877743 GGAGCTGTTGCACCTTTCTC 59.122 55.000 0.00 0.00 44.80 2.87
1423 10000 0.538287 GGGAGCTGTTGCACCTTTCT 60.538 55.000 0.00 0.00 46.88 2.52
1424 10001 1.856265 CGGGAGCTGTTGCACCTTTC 61.856 60.000 0.00 0.00 46.88 2.62
1430 10007 4.641645 CACCCGGGAGCTGTTGCA 62.642 66.667 32.02 0.00 42.74 4.08
1445 10022 2.669240 GTGAGGGTGTAGGGGCAC 59.331 66.667 0.00 0.00 38.56 5.01
1446 10023 3.000819 CGTGAGGGTGTAGGGGCA 61.001 66.667 0.00 0.00 0.00 5.36
1447 10024 2.288025 TTCGTGAGGGTGTAGGGGC 61.288 63.158 0.00 0.00 0.00 5.80
1448 10025 1.189524 TGTTCGTGAGGGTGTAGGGG 61.190 60.000 0.00 0.00 0.00 4.79
1449 10026 0.682852 TTGTTCGTGAGGGTGTAGGG 59.317 55.000 0.00 0.00 0.00 3.53
1450 10027 2.762535 ATTGTTCGTGAGGGTGTAGG 57.237 50.000 0.00 0.00 0.00 3.18
1451 10028 6.737254 AATTTATTGTTCGTGAGGGTGTAG 57.263 37.500 0.00 0.00 0.00 2.74
1452 10029 6.487331 ACAAATTTATTGTTCGTGAGGGTGTA 59.513 34.615 0.00 0.00 0.00 2.90
1453 10030 5.300792 ACAAATTTATTGTTCGTGAGGGTGT 59.699 36.000 0.00 0.00 0.00 4.16
1454 10031 5.768317 ACAAATTTATTGTTCGTGAGGGTG 58.232 37.500 0.00 0.00 0.00 4.61
1455 10032 7.513371 TTACAAATTTATTGTTCGTGAGGGT 57.487 32.000 0.00 0.00 34.11 4.34
1496 10073 8.490311 TGGTCCCTGAAAGTTTCAAATATTTTT 58.510 29.630 18.55 0.00 39.58 1.94
1497 10074 8.028652 TGGTCCCTGAAAGTTTCAAATATTTT 57.971 30.769 18.55 0.00 39.58 1.82
1498 10075 7.610580 TGGTCCCTGAAAGTTTCAAATATTT 57.389 32.000 18.55 0.00 39.58 1.40
1499 10076 7.610580 TTGGTCCCTGAAAGTTTCAAATATT 57.389 32.000 18.55 0.00 39.58 1.28
1500 10077 7.070571 TGTTTGGTCCCTGAAAGTTTCAAATAT 59.929 33.333 18.55 0.00 39.58 1.28
1501 10078 6.381420 TGTTTGGTCCCTGAAAGTTTCAAATA 59.619 34.615 18.55 4.84 39.58 1.40
1502 10079 5.188751 TGTTTGGTCCCTGAAAGTTTCAAAT 59.811 36.000 18.55 0.00 39.58 2.32
1503 10080 4.528596 TGTTTGGTCCCTGAAAGTTTCAAA 59.471 37.500 18.55 6.87 39.58 2.69
1504 10081 4.090090 TGTTTGGTCCCTGAAAGTTTCAA 58.910 39.130 18.55 2.19 39.58 2.69
1505 10082 3.702792 TGTTTGGTCCCTGAAAGTTTCA 58.297 40.909 17.16 17.16 38.17 2.69
1506 10083 4.340950 TCATGTTTGGTCCCTGAAAGTTTC 59.659 41.667 8.75 8.75 0.00 2.78
1507 10084 4.285863 TCATGTTTGGTCCCTGAAAGTTT 58.714 39.130 0.00 0.00 0.00 2.66
1508 10085 3.909732 TCATGTTTGGTCCCTGAAAGTT 58.090 40.909 0.00 0.00 0.00 2.66
1509 10086 3.593442 TCATGTTTGGTCCCTGAAAGT 57.407 42.857 0.00 0.00 0.00 2.66
1510 10087 4.081406 TGATCATGTTTGGTCCCTGAAAG 58.919 43.478 0.00 0.00 31.48 2.62
1511 10088 4.111255 TGATCATGTTTGGTCCCTGAAA 57.889 40.909 0.00 0.00 31.48 2.69
1512 10089 3.805066 TGATCATGTTTGGTCCCTGAA 57.195 42.857 0.00 0.00 31.48 3.02
1513 10090 3.805066 TTGATCATGTTTGGTCCCTGA 57.195 42.857 0.00 0.00 31.48 3.86
1514 10091 4.081406 TCTTTGATCATGTTTGGTCCCTG 58.919 43.478 0.00 0.00 31.48 4.45
1515 10092 4.387026 TCTTTGATCATGTTTGGTCCCT 57.613 40.909 0.00 0.00 31.48 4.20
1516 10093 5.665916 AATCTTTGATCATGTTTGGTCCC 57.334 39.130 0.00 0.00 31.48 4.46
1517 10094 6.690530 TCAAATCTTTGATCATGTTTGGTCC 58.309 36.000 16.08 0.00 41.88 4.46
1532 10109 9.985730 TGAAACTTTGCAAGATATCAAATCTTT 57.014 25.926 5.32 0.00 36.32 2.52
1533 10110 9.635520 CTGAAACTTTGCAAGATATCAAATCTT 57.364 29.630 5.32 0.00 38.78 2.40
1534 10111 9.017509 TCTGAAACTTTGCAAGATATCAAATCT 57.982 29.630 5.32 0.00 32.51 2.40
1535 10112 9.630098 TTCTGAAACTTTGCAAGATATCAAATC 57.370 29.630 5.32 0.00 32.51 2.17
1536 10113 9.985730 TTTCTGAAACTTTGCAAGATATCAAAT 57.014 25.926 5.32 0.00 32.51 2.32
1537 10114 9.248291 GTTTCTGAAACTTTGCAAGATATCAAA 57.752 29.630 22.55 0.00 38.35 2.69
1538 10115 8.412456 TGTTTCTGAAACTTTGCAAGATATCAA 58.588 29.630 27.75 5.10 41.90 2.57
1539 10116 7.939782 TGTTTCTGAAACTTTGCAAGATATCA 58.060 30.769 27.75 3.28 41.90 2.15
1540 10117 8.801715 TTGTTTCTGAAACTTTGCAAGATATC 57.198 30.769 27.75 0.00 41.90 1.63
1541 10118 9.768662 ATTTGTTTCTGAAACTTTGCAAGATAT 57.231 25.926 27.75 8.35 41.90 1.63
1543 10120 9.598517 TTATTTGTTTCTGAAACTTTGCAAGAT 57.401 25.926 27.75 13.36 41.90 2.40
1544 10121 8.868916 GTTATTTGTTTCTGAAACTTTGCAAGA 58.131 29.630 27.75 11.64 41.90 3.02
1545 10122 8.116136 GGTTATTTGTTTCTGAAACTTTGCAAG 58.884 33.333 27.75 0.00 41.90 4.01
1546 10123 7.821846 AGGTTATTTGTTTCTGAAACTTTGCAA 59.178 29.630 27.75 14.54 41.90 4.08
1547 10124 7.327214 AGGTTATTTGTTTCTGAAACTTTGCA 58.673 30.769 27.75 9.89 41.90 4.08
1548 10125 7.770801 AGGTTATTTGTTTCTGAAACTTTGC 57.229 32.000 27.75 15.48 41.90 3.68
1549 10126 9.364989 TGAAGGTTATTTGTTTCTGAAACTTTG 57.635 29.630 27.75 0.00 41.90 2.77
1551 10128 9.533253 CATGAAGGTTATTTGTTTCTGAAACTT 57.467 29.630 27.75 17.39 41.90 2.66
1552 10129 8.143835 CCATGAAGGTTATTTGTTTCTGAAACT 58.856 33.333 27.75 14.54 41.90 2.66
1553 10130 8.141268 TCCATGAAGGTTATTTGTTTCTGAAAC 58.859 33.333 22.94 22.94 39.14 2.78
1554 10131 8.243961 TCCATGAAGGTTATTTGTTTCTGAAA 57.756 30.769 0.00 0.00 39.02 2.69
1555 10132 7.831691 TCCATGAAGGTTATTTGTTTCTGAA 57.168 32.000 0.00 0.00 39.02 3.02
1556 10133 7.122650 GGATCCATGAAGGTTATTTGTTTCTGA 59.877 37.037 6.95 0.00 39.02 3.27
1557 10134 7.260603 GGATCCATGAAGGTTATTTGTTTCTG 58.739 38.462 6.95 0.00 39.02 3.02
1558 10135 6.381133 GGGATCCATGAAGGTTATTTGTTTCT 59.619 38.462 15.23 0.00 39.02 2.52
1559 10136 6.381133 AGGGATCCATGAAGGTTATTTGTTTC 59.619 38.462 15.23 0.00 39.02 2.78
1560 10137 6.263754 AGGGATCCATGAAGGTTATTTGTTT 58.736 36.000 15.23 0.00 39.02 2.83
1561 10138 5.842339 AGGGATCCATGAAGGTTATTTGTT 58.158 37.500 15.23 0.00 39.02 2.83
1562 10139 5.044179 TGAGGGATCCATGAAGGTTATTTGT 60.044 40.000 15.23 0.00 39.02 2.83
1563 10140 5.300286 GTGAGGGATCCATGAAGGTTATTTG 59.700 44.000 15.23 0.00 39.02 2.32
1564 10141 5.449553 GTGAGGGATCCATGAAGGTTATTT 58.550 41.667 15.23 0.00 39.02 1.40
1565 10142 4.141158 GGTGAGGGATCCATGAAGGTTATT 60.141 45.833 15.23 0.00 39.02 1.40
1566 10143 3.395941 GGTGAGGGATCCATGAAGGTTAT 59.604 47.826 15.23 0.00 39.02 1.89
1567 10144 2.777692 GGTGAGGGATCCATGAAGGTTA 59.222 50.000 15.23 0.00 39.02 2.85
1568 10145 1.566231 GGTGAGGGATCCATGAAGGTT 59.434 52.381 15.23 0.00 39.02 3.50
1569 10146 1.216990 GGTGAGGGATCCATGAAGGT 58.783 55.000 15.23 0.00 39.02 3.50
1570 10147 1.216064 TGGTGAGGGATCCATGAAGG 58.784 55.000 15.23 0.00 39.47 3.46
1571 10148 3.370840 TTTGGTGAGGGATCCATGAAG 57.629 47.619 15.23 0.00 33.50 3.02
1572 10149 3.824001 TTTTGGTGAGGGATCCATGAA 57.176 42.857 15.23 0.00 33.50 2.57
1573 10150 3.824001 TTTTTGGTGAGGGATCCATGA 57.176 42.857 15.23 0.00 33.50 3.07
1618 10195 9.651913 AACAAAATCACTGTTCAAAGTTTATGT 57.348 25.926 0.00 0.00 31.29 2.29
1648 10225 2.550277 TCTCATGAGCCCTCACCTAA 57.450 50.000 18.36 0.00 43.11 2.69
1650 10227 1.129917 CATCTCATGAGCCCTCACCT 58.870 55.000 18.36 0.00 43.11 4.00
1651 10228 0.835941 ACATCTCATGAGCCCTCACC 59.164 55.000 18.36 0.00 43.11 4.02
1652 10229 2.706339 AACATCTCATGAGCCCTCAC 57.294 50.000 18.36 0.00 43.11 3.51
1653 10230 3.726557 AAAACATCTCATGAGCCCTCA 57.273 42.857 18.36 0.17 44.59 3.86
1686 10263 9.598517 ACTTTTGATGATCTTGCAAAGTTTTAA 57.401 25.926 0.00 0.00 46.34 1.52
1687 10264 9.598517 AACTTTTGATGATCTTGCAAAGTTTTA 57.401 25.926 15.31 0.00 46.34 1.52
1688 10265 8.496707 AACTTTTGATGATCTTGCAAAGTTTT 57.503 26.923 15.31 6.88 46.34 2.43
1689 10266 8.392612 CAAACTTTTGATGATCTTGCAAAGTTT 58.607 29.630 21.05 21.05 41.91 2.66
1690 10267 7.765360 TCAAACTTTTGATGATCTTGCAAAGTT 59.235 29.630 15.31 15.31 42.53 2.66
1691 10268 7.267128 TCAAACTTTTGATGATCTTGCAAAGT 58.733 30.769 0.00 2.14 42.53 2.66
1692 10269 7.703298 TCAAACTTTTGATGATCTTGCAAAG 57.297 32.000 0.00 1.54 42.95 2.77
1717 10294 9.513906 TCTGAAACTTTGGTACATCAAATATGA 57.486 29.630 0.00 0.00 39.30 2.15
1722 10299 9.883142 AAAAATCTGAAACTTTGGTACATCAAA 57.117 25.926 0.00 0.00 39.30 2.69
1756 10333 8.792633 CCCTCTATGAACAGTAATTCAAAACAA 58.207 33.333 0.00 0.00 41.78 2.83
1757 10334 7.942341 ACCCTCTATGAACAGTAATTCAAAACA 59.058 33.333 0.00 0.00 41.78 2.83
1758 10335 8.237267 CACCCTCTATGAACAGTAATTCAAAAC 58.763 37.037 0.00 0.00 41.78 2.43
1759 10336 7.942341 ACACCCTCTATGAACAGTAATTCAAAA 59.058 33.333 0.00 0.00 41.78 2.44
1760 10337 7.458397 ACACCCTCTATGAACAGTAATTCAAA 58.542 34.615 0.00 0.00 41.78 2.69
1761 10338 7.016153 ACACCCTCTATGAACAGTAATTCAA 57.984 36.000 0.00 0.00 41.78 2.69
1762 10339 6.620877 ACACCCTCTATGAACAGTAATTCA 57.379 37.500 0.00 0.00 42.62 2.57
1763 10340 7.210873 CCTACACCCTCTATGAACAGTAATTC 58.789 42.308 0.00 0.00 0.00 2.17
1764 10341 6.099845 CCCTACACCCTCTATGAACAGTAATT 59.900 42.308 0.00 0.00 0.00 1.40
1765 10342 5.602978 CCCTACACCCTCTATGAACAGTAAT 59.397 44.000 0.00 0.00 0.00 1.89
1766 10343 4.960469 CCCTACACCCTCTATGAACAGTAA 59.040 45.833 0.00 0.00 0.00 2.24
1767 10344 4.543689 CCCTACACCCTCTATGAACAGTA 58.456 47.826 0.00 0.00 0.00 2.74
1768 10345 3.375699 CCCTACACCCTCTATGAACAGT 58.624 50.000 0.00 0.00 0.00 3.55
1769 10346 2.700897 CCCCTACACCCTCTATGAACAG 59.299 54.545 0.00 0.00 0.00 3.16
1770 10347 2.759355 CCCCTACACCCTCTATGAACA 58.241 52.381 0.00 0.00 0.00 3.18
1771 10348 1.416772 GCCCCTACACCCTCTATGAAC 59.583 57.143 0.00 0.00 0.00 3.18
1772 10349 1.009060 TGCCCCTACACCCTCTATGAA 59.991 52.381 0.00 0.00 0.00 2.57
1773 10350 0.639943 TGCCCCTACACCCTCTATGA 59.360 55.000 0.00 0.00 0.00 2.15
1774 10351 0.759346 GTGCCCCTACACCCTCTATG 59.241 60.000 0.00 0.00 34.35 2.23
1775 10352 3.242355 GTGCCCCTACACCCTCTAT 57.758 57.895 0.00 0.00 34.35 1.98
1776 10353 4.800764 GTGCCCCTACACCCTCTA 57.199 61.111 0.00 0.00 34.35 2.43
1782 10359 2.933834 ACCTGGGTGCCCCTACAC 60.934 66.667 11.10 0.00 45.70 2.90
1783 10360 2.933287 CACCTGGGTGCCCCTACA 60.933 66.667 6.84 0.00 45.70 2.74
1791 10368 7.302116 TGATAAGTATTTTCAGCACCTGGGTG 61.302 42.308 14.79 14.79 46.38 4.61
1792 10369 3.525800 AAGTATTTTCAGCACCTGGGT 57.474 42.857 0.00 0.00 31.51 4.51
1793 10370 5.066505 GTGATAAGTATTTTCAGCACCTGGG 59.933 44.000 0.00 0.00 36.74 4.45
1794 10371 6.124088 GTGATAAGTATTTTCAGCACCTGG 57.876 41.667 0.00 0.00 36.74 4.45
1801 10378 6.639686 GCATGCATGGTGATAAGTATTTTCAG 59.360 38.462 27.34 0.00 36.74 3.02
1802 10379 6.096564 TGCATGCATGGTGATAAGTATTTTCA 59.903 34.615 27.34 8.42 33.66 2.69
1803 10380 6.506147 TGCATGCATGGTGATAAGTATTTTC 58.494 36.000 27.34 5.90 0.00 2.29
1804 10381 6.468333 TGCATGCATGGTGATAAGTATTTT 57.532 33.333 27.34 0.00 0.00 1.82
1805 10382 6.659745 ATGCATGCATGGTGATAAGTATTT 57.340 33.333 31.74 2.65 35.03 1.40
1904 15496 6.378280 AGGGAAATTGTCTAATTGTGCTAAGG 59.622 38.462 0.00 0.00 36.65 2.69
2004 15679 6.434018 AATGCTCAAATAGAAGAGACTTGC 57.566 37.500 0.00 0.00 33.74 4.01
2024 15699 7.020010 GCTTATCTGAACTCTGAACACAAATG 58.980 38.462 0.00 0.00 0.00 2.32
2057 15738 8.935844 GTCCTGAAAAGTTGAGAAAACATTTTT 58.064 29.630 0.00 0.00 0.00 1.94
2211 15900 6.408858 ACACACAATCGACAATATCACTTC 57.591 37.500 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.