Multiple sequence alignment - TraesCS1D01G265900

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 TraesCS1D01G265900 chr1D 100.000 2542 0 0 1 2542 361843822 361846363 0.000000e+00 4695.0
1 TraesCS1D01G265900 chr1D 89.008 373 33 6 1295 1665 361914733 361915099 2.980000e-124 455.0
2 TraesCS1D01G265900 chr1D 80.317 315 43 16 897 1206 361914293 361914593 1.180000e-53 220.0
3 TraesCS1D01G265900 chr1D 91.736 121 10 0 2419 2539 98920400 98920520 4.350000e-38 169.0
4 TraesCS1D01G265900 chr1D 90.164 122 12 0 2418 2539 355500774 355500895 2.620000e-35 159.0
5 TraesCS1D01G265900 chr1D 76.271 236 51 3 1321 1552 361358670 361358904 1.240000e-23 121.0
6 TraesCS1D01G265900 chr1D 86.139 101 5 3 1927 2027 361915587 361915678 1.610000e-17 100.0
7 TraesCS1D01G265900 chr1A 88.872 1932 153 31 1 1887 461350248 461352162 0.000000e+00 2320.0
8 TraesCS1D01G265900 chr1A 81.243 853 112 36 898 1732 461372582 461373404 0.000000e+00 645.0
9 TraesCS1D01G265900 chr1A 87.776 499 29 12 1871 2350 461352421 461352906 2.860000e-154 555.0
10 TraesCS1D01G265900 chr1A 85.246 122 9 5 1910 2027 461375238 461375354 1.600000e-22 117.0
11 TraesCS1D01G265900 chr1A 86.667 60 8 0 1321 1380 460997976 460997917 1.630000e-07 67.6
12 TraesCS1D01G265900 chr1B 90.341 1056 92 6 1 1055 484351943 484352989 0.000000e+00 1376.0
13 TraesCS1D01G265900 chr1B 90.396 656 41 7 1045 1691 484360469 484361111 0.000000e+00 843.0
14 TraesCS1D01G265900 chr1B 81.750 937 105 38 898 1800 484376158 484377062 0.000000e+00 723.0
15 TraesCS1D01G265900 chr1B 89.030 237 16 4 1940 2176 484363028 484363254 4.140000e-73 285.0
16 TraesCS1D01G265900 chr1B 92.857 84 6 0 2222 2305 484363250 484363333 3.430000e-24 122.0
17 TraesCS1D01G265900 chr1B 97.500 40 1 0 1761 1800 484361299 484361338 4.540000e-08 69.4
18 TraesCS1D01G265900 chr3B 74.953 535 122 12 5 533 339603 340131 4.230000e-58 235.0
19 TraesCS1D01G265900 chr7D 91.200 125 11 0 2418 2542 26754868 26754992 1.210000e-38 171.0
20 TraesCS1D01G265900 chr7D 90.411 73 5 2 2348 2419 401823634 401823705 7.490000e-16 95.3
21 TraesCS1D01G265900 chr5D 91.200 125 11 0 2418 2542 45993968 45993844 1.210000e-38 171.0
22 TraesCS1D01G265900 chr5D 87.200 125 16 0 2418 2542 310032712 310032588 2.640000e-30 143.0
23 TraesCS1D01G265900 chr4D 90.984 122 11 0 2418 2539 433957226 433957347 5.630000e-37 165.0
24 TraesCS1D01G265900 chr4D 90.278 72 7 0 2348 2419 85826659 85826730 7.490000e-16 95.3
25 TraesCS1D01G265900 chr4D 73.964 169 33 10 306 469 382019541 382019703 9.820000e-05 58.4
26 TraesCS1D01G265900 chr4D 77.083 96 20 2 306 400 431690295 431690201 1.000000e-03 54.7
27 TraesCS1D01G265900 chr3D 90.164 122 12 0 2418 2539 131236996 131237117 2.620000e-35 159.0
28 TraesCS1D01G265900 chr7B 88.000 125 15 0 2418 2542 717051358 717051234 5.670000e-32 148.0
29 TraesCS1D01G265900 chr5A 94.286 35 2 0 304 338 59674901 59674867 1.000000e-03 54.7


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G265900 chr1D 361843822 361846363 2541 False 4695.000000 4695 100.000000 1 2542 1 chr1D.!!$F4 2541
1 TraesCS1D01G265900 chr1D 361914293 361915678 1385 False 258.333333 455 85.154667 897 2027 3 chr1D.!!$F5 1130
2 TraesCS1D01G265900 chr1A 461350248 461352906 2658 False 1437.500000 2320 88.324000 1 2350 2 chr1A.!!$F1 2349
3 TraesCS1D01G265900 chr1A 461372582 461375354 2772 False 381.000000 645 83.244500 898 2027 2 chr1A.!!$F2 1129
4 TraesCS1D01G265900 chr1B 484351943 484352989 1046 False 1376.000000 1376 90.341000 1 1055 1 chr1B.!!$F1 1054
5 TraesCS1D01G265900 chr1B 484376158 484377062 904 False 723.000000 723 81.750000 898 1800 1 chr1B.!!$F2 902
6 TraesCS1D01G265900 chr1B 484360469 484363333 2864 False 329.850000 843 92.445750 1045 2305 4 chr1B.!!$F3 1260
7 TraesCS1D01G265900 chr3B 339603 340131 528 False 235.000000 235 74.953000 5 533 1 chr3B.!!$F1 528

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
22 23 0.300491 CACAACACAACCTCGACGTG 59.7 55.0 0.0 0.0 36.7 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1553 1659 0.322277 ACTGCTCTGCTCAACCCATG 60.322 55.0 0.0 0.0 0.0 3.66 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
22 23 0.300491 CACAACACAACCTCGACGTG 59.700 55.000 0.00 0.00 36.70 4.49
63 64 0.603975 AAACAAGCCCTCTGTCGCTC 60.604 55.000 0.00 0.00 33.09 5.03
69 70 3.842923 CCTCTGTCGCTCCGCCAT 61.843 66.667 0.00 0.00 0.00 4.40
113 114 0.822532 GGAGATCGCCCGACTCCTAA 60.823 60.000 21.30 0.00 44.54 2.69
117 118 3.446570 CGCCCGACTCCTAACCGT 61.447 66.667 0.00 0.00 0.00 4.83
164 166 3.890527 GAGTGACTGGCCAATCCAT 57.109 52.632 12.49 0.00 45.50 3.41
190 195 3.181486 TGGTGCGCAAAAAGAACATGTTA 60.181 39.130 14.00 0.00 0.00 2.41
210 215 0.936600 TGTCGCATGTGTGTTGACTG 59.063 50.000 6.09 0.00 35.35 3.51
216 221 2.287188 GCATGTGTGTTGACTGAAGTGG 60.287 50.000 0.00 0.00 0.00 4.00
219 224 0.813610 TGTGTTGACTGAAGTGGCCG 60.814 55.000 0.00 0.00 0.00 6.13
266 271 1.599047 CCTCCGCCTCACATTGACT 59.401 57.895 0.00 0.00 0.00 3.41
401 407 0.684535 TTTTGGGCCCTTTTGCTAGC 59.315 50.000 25.70 8.10 0.00 3.42
406 412 1.406903 GGCCCTTTTGCTAGCATCAT 58.593 50.000 20.13 0.00 0.00 2.45
411 417 3.635373 CCCTTTTGCTAGCATCATCATGT 59.365 43.478 20.13 0.00 31.86 3.21
413 419 4.337274 CCTTTTGCTAGCATCATCATGTCA 59.663 41.667 20.13 0.00 31.86 3.58
455 461 4.917887 GGTGACATATCAGCGAATGATC 57.082 45.455 6.81 0.00 46.01 2.92
500 509 1.515954 CGTCAACGTGGAGGCCTAT 59.484 57.895 4.42 0.00 34.11 2.57
501 510 0.806102 CGTCAACGTGGAGGCCTATG 60.806 60.000 4.42 0.00 34.11 2.23
551 560 2.328319 GGCTCCAATCTCCTCTCTGAT 58.672 52.381 0.00 0.00 0.00 2.90
593 602 7.224557 ACAAACTTGCAAAATATTCTTGTGTCC 59.775 33.333 0.00 0.00 0.00 4.02
596 605 8.177119 ACTTGCAAAATATTCTTGTGTCCTAA 57.823 30.769 0.00 0.00 0.00 2.69
747 756 5.059587 GTGCACATACAACATTTGACGATTG 59.940 40.000 13.17 0.00 0.00 2.67
842 852 2.110967 GCTGATGCGCTGGACATGT 61.111 57.895 9.73 0.00 0.00 3.21
916 926 1.981495 AGTCCAAGCTAGCAAGGAGTT 59.019 47.619 23.65 14.58 29.68 3.01
978 999 3.566261 CTGACGCAGCAAATCCGT 58.434 55.556 0.00 0.00 37.99 4.69
979 1000 2.749541 CTGACGCAGCAAATCCGTA 58.250 52.632 0.00 0.00 35.06 4.02
980 1001 1.290203 CTGACGCAGCAAATCCGTAT 58.710 50.000 0.00 0.00 35.06 3.06
1046 1067 2.126596 CCAGGCACAACCACAGCAA 61.127 57.895 0.00 0.00 43.14 3.91
1070 1092 0.926155 CATCATTCCACGAGCAGACG 59.074 55.000 0.00 0.00 39.31 4.18
1071 1093 0.807667 ATCATTCCACGAGCAGACGC 60.808 55.000 0.00 0.00 36.70 5.19
1091 1118 1.376553 GGACAGTGCAGAGCTTCCC 60.377 63.158 0.00 0.00 0.00 3.97
1147 1174 2.293452 ACTCCTGGTCATCCTGATCCTT 60.293 50.000 0.00 0.00 35.11 3.36
1211 1238 1.742831 TGGTTGCTGATTGCCGTATTC 59.257 47.619 0.00 0.00 42.00 1.75
1223 1250 5.895636 TTGCCGTATTCTGATTTCATTGT 57.104 34.783 0.00 0.00 0.00 2.71
1224 1251 6.993786 TTGCCGTATTCTGATTTCATTGTA 57.006 33.333 0.00 0.00 0.00 2.41
1293 1357 6.663944 AGTTAACAAGGCGATTAACTGATC 57.336 37.500 17.38 0.00 45.49 2.92
1304 1406 5.616424 GCGATTAACTGATCTGATTCCATGC 60.616 44.000 6.60 0.00 0.00 4.06
1305 1407 5.389202 CGATTAACTGATCTGATTCCATGCG 60.389 44.000 6.60 0.00 0.00 4.73
1306 1408 2.996249 ACTGATCTGATTCCATGCGT 57.004 45.000 6.60 0.00 0.00 5.24
1307 1409 2.558378 ACTGATCTGATTCCATGCGTG 58.442 47.619 6.60 0.00 0.00 5.34
1308 1410 1.263484 CTGATCTGATTCCATGCGTGC 59.737 52.381 0.00 0.00 0.00 5.34
1309 1411 0.234106 GATCTGATTCCATGCGTGCG 59.766 55.000 0.00 0.00 0.00 5.34
1310 1412 0.462581 ATCTGATTCCATGCGTGCGT 60.463 50.000 0.00 0.00 0.00 5.24
1311 1413 1.061411 CTGATTCCATGCGTGCGTG 59.939 57.895 7.08 7.08 0.00 5.34
1460 1562 4.529219 TTCCGATGCGCCGATGCT 62.529 61.111 4.18 0.00 35.36 3.79
1520 1622 0.461516 ACTGATCGCACATGCTCAGG 60.462 55.000 20.79 8.54 43.48 3.86
1534 1636 3.877559 TGCTCAGGACATAAGATGTTGG 58.122 45.455 0.00 0.00 45.03 3.77
1553 1659 2.160813 TGGACCGAAAATAAAAGCTCGC 59.839 45.455 0.00 0.00 0.00 5.03
1570 1676 1.676635 GCATGGGTTGAGCAGAGCA 60.677 57.895 0.00 0.00 0.00 4.26
1573 1679 0.322277 ATGGGTTGAGCAGAGCAGTG 60.322 55.000 0.00 0.00 0.00 3.66
1615 1724 1.338337 CCACGCCCAACAACAATTGTA 59.662 47.619 12.39 0.00 44.59 2.41
1668 1809 3.879295 CTCTCCAGAAAAAGCTGTTGTCA 59.121 43.478 0.00 0.00 34.06 3.58
1691 1832 5.539582 TTGCTCCGTGAATAAACACATAC 57.460 39.130 0.00 0.00 40.34 2.39
1693 1834 5.182487 TGCTCCGTGAATAAACACATACAT 58.818 37.500 0.00 0.00 40.34 2.29
1694 1835 6.342111 TGCTCCGTGAATAAACACATACATA 58.658 36.000 0.00 0.00 40.34 2.29
1723 1948 2.932614 GTGTATGCGTCTCTGCTCAATT 59.067 45.455 0.00 0.00 35.36 2.32
1800 3697 1.587547 GTGAATGGATCCTTCTCGGC 58.412 55.000 14.23 1.02 0.00 5.54
1818 3786 1.337821 GCGCGAGTCGGGATAATTAG 58.662 55.000 31.06 0.00 42.31 1.73
1820 3788 2.316792 CGCGAGTCGGGATAATTAGTG 58.683 52.381 23.88 0.00 42.31 2.74
1821 3789 2.673833 GCGAGTCGGGATAATTAGTGG 58.326 52.381 15.52 0.00 0.00 4.00
1823 3791 3.056749 GCGAGTCGGGATAATTAGTGGAT 60.057 47.826 15.52 0.00 0.00 3.41
2092 6053 8.296211 ACTAAGGTAGATCTCTCTTTGGTTAC 57.704 38.462 13.48 0.00 32.66 2.50
2117 6078 2.267426 TGAGCAATATCACCGTTCACG 58.733 47.619 0.00 0.00 39.44 4.35
2118 6079 1.004927 GAGCAATATCACCGTTCACGC 60.005 52.381 0.00 0.00 38.18 5.34
2120 6081 0.315059 CAATATCACCGTTCACGCGC 60.315 55.000 5.73 0.00 38.18 6.86
2122 6083 2.601628 ATATCACCGTTCACGCGCGA 62.602 55.000 39.36 13.15 38.18 5.87
2124 6085 3.990806 CACCGTTCACGCGCGAAA 61.991 61.111 39.36 26.06 38.18 3.46
2125 6086 3.263422 ACCGTTCACGCGCGAAAA 61.263 55.556 39.36 25.68 38.18 2.29
2126 6087 2.052941 CCGTTCACGCGCGAAAAA 60.053 55.556 39.36 23.06 38.18 1.94
2163 6124 0.319900 GCTCACAGTGTCGGTCATGT 60.320 55.000 0.00 0.00 0.00 3.21
2182 6143 7.707893 GGTCATGTAGCATGCTTGAATAAAAAT 59.292 33.333 28.02 3.05 36.70 1.82
2198 6159 8.081633 TGAATAAAAATGTGACACTGTTCATCC 58.918 33.333 7.20 0.00 0.00 3.51
2215 6189 2.083628 TCCGTCTATCCCTCTTTCCC 57.916 55.000 0.00 0.00 0.00 3.97
2225 6199 4.740154 TCCCTCTTTCCCAAAGATTGAA 57.260 40.909 0.00 0.00 45.75 2.69
2230 6204 5.393896 CCTCTTTCCCAAAGATTGAAGATGC 60.394 44.000 0.00 0.00 45.75 3.91
2232 6206 6.484288 TCTTTCCCAAAGATTGAAGATGCTA 58.516 36.000 0.00 0.00 42.31 3.49
2239 6213 4.333913 AGATTGAAGATGCTACAGCGAT 57.666 40.909 0.00 0.00 45.83 4.58
2313 6287 3.769201 GGCCATTCATGCCTAGGC 58.231 61.111 27.71 27.71 45.70 3.93
2314 6288 1.152368 GGCCATTCATGCCTAGGCT 59.848 57.895 33.07 16.79 45.70 4.58
2315 6289 0.401738 GGCCATTCATGCCTAGGCTA 59.598 55.000 33.07 20.21 45.70 3.93
2354 6328 3.646715 CCAGCTCACCCGGGGAAA 61.647 66.667 27.92 8.64 0.00 3.13
2355 6329 2.677228 CAGCTCACCCGGGGAAAT 59.323 61.111 27.92 0.00 0.00 2.17
2356 6330 1.632018 CCAGCTCACCCGGGGAAATA 61.632 60.000 27.92 3.72 0.00 1.40
2357 6331 0.474184 CAGCTCACCCGGGGAAATAT 59.526 55.000 27.92 0.00 0.00 1.28
2358 6332 0.765510 AGCTCACCCGGGGAAATATC 59.234 55.000 27.92 6.83 0.00 1.63
2359 6333 0.765510 GCTCACCCGGGGAAATATCT 59.234 55.000 27.92 0.00 0.00 1.98
2360 6334 1.543429 GCTCACCCGGGGAAATATCTG 60.543 57.143 27.92 11.60 0.00 2.90
2361 6335 1.072331 CTCACCCGGGGAAATATCTGG 59.928 57.143 27.92 1.65 0.00 3.86
2362 6336 0.843984 CACCCGGGGAAATATCTGGT 59.156 55.000 27.92 0.00 0.00 4.00
2363 6337 2.051692 CACCCGGGGAAATATCTGGTA 58.948 52.381 27.92 0.00 0.00 3.25
2364 6338 2.052468 ACCCGGGGAAATATCTGGTAC 58.948 52.381 27.92 0.00 0.00 3.34
2365 6339 2.335933 CCCGGGGAAATATCTGGTACT 58.664 52.381 14.71 0.00 0.00 2.73
2366 6340 2.302157 CCCGGGGAAATATCTGGTACTC 59.698 54.545 14.71 0.00 0.00 2.59
2367 6341 2.302157 CCGGGGAAATATCTGGTACTCC 59.698 54.545 0.00 0.00 0.00 3.85
2368 6342 3.240302 CGGGGAAATATCTGGTACTCCT 58.760 50.000 0.00 0.00 34.23 3.69
2369 6343 4.413760 CGGGGAAATATCTGGTACTCCTA 58.586 47.826 0.00 0.00 34.23 2.94
2370 6344 4.220163 CGGGGAAATATCTGGTACTCCTAC 59.780 50.000 0.00 0.00 34.23 3.18
2371 6345 4.531339 GGGGAAATATCTGGTACTCCTACC 59.469 50.000 0.00 0.00 42.83 3.18
2372 6346 4.531339 GGGAAATATCTGGTACTCCTACCC 59.469 50.000 0.00 0.00 41.92 3.69
2373 6347 4.531339 GGAAATATCTGGTACTCCTACCCC 59.469 50.000 0.00 0.00 41.92 4.95
2374 6348 5.404395 GAAATATCTGGTACTCCTACCCCT 58.596 45.833 0.00 0.00 41.92 4.79
2375 6349 6.469828 GGAAATATCTGGTACTCCTACCCCTA 60.470 46.154 0.00 0.00 41.92 3.53
2376 6350 5.799978 ATATCTGGTACTCCTACCCCTAG 57.200 47.826 0.00 0.00 41.92 3.02
2377 6351 2.141911 TCTGGTACTCCTACCCCTAGG 58.858 57.143 0.06 0.06 41.92 3.02
2378 6352 2.141911 CTGGTACTCCTACCCCTAGGA 58.858 57.143 11.48 0.00 45.66 2.94
2379 6353 2.723010 CTGGTACTCCTACCCCTAGGAT 59.277 54.545 11.48 0.00 46.47 3.24
2380 6354 2.449730 TGGTACTCCTACCCCTAGGATG 59.550 54.545 11.48 3.25 46.47 3.51
2381 6355 2.450115 GGTACTCCTACCCCTAGGATGT 59.550 54.545 11.48 9.77 46.47 3.06
2382 6356 3.116823 GGTACTCCTACCCCTAGGATGTT 60.117 52.174 11.48 0.00 46.47 2.71
2383 6357 3.331718 ACTCCTACCCCTAGGATGTTC 57.668 52.381 11.48 0.00 46.47 3.18
2384 6358 2.090663 ACTCCTACCCCTAGGATGTTCC 60.091 54.545 11.48 0.00 46.47 3.62
2386 6360 2.179424 TCCTACCCCTAGGATGTTCCTC 59.821 54.545 11.48 0.00 45.66 3.71
2387 6361 2.240279 CTACCCCTAGGATGTTCCTCG 58.760 57.143 11.48 0.00 45.66 4.63
2388 6362 0.338814 ACCCCTAGGATGTTCCTCGT 59.661 55.000 11.48 0.00 45.66 4.18
2389 6363 0.753262 CCCCTAGGATGTTCCTCGTG 59.247 60.000 11.48 0.00 45.66 4.35
2390 6364 0.105039 CCCTAGGATGTTCCTCGTGC 59.895 60.000 11.48 0.00 45.66 5.34
2391 6365 1.115467 CCTAGGATGTTCCTCGTGCT 58.885 55.000 1.05 0.00 45.66 4.40
2392 6366 1.482593 CCTAGGATGTTCCTCGTGCTT 59.517 52.381 1.05 0.00 45.66 3.91
2393 6367 2.482142 CCTAGGATGTTCCTCGTGCTTC 60.482 54.545 1.05 0.00 45.66 3.86
2394 6368 0.976641 AGGATGTTCCTCGTGCTTCA 59.023 50.000 0.00 0.00 45.66 3.02
2395 6369 1.347707 AGGATGTTCCTCGTGCTTCAA 59.652 47.619 0.00 0.00 45.66 2.69
2396 6370 2.151202 GGATGTTCCTCGTGCTTCAAA 58.849 47.619 0.00 0.00 32.53 2.69
2397 6371 2.552315 GGATGTTCCTCGTGCTTCAAAA 59.448 45.455 0.00 0.00 32.53 2.44
2398 6372 3.555518 GATGTTCCTCGTGCTTCAAAAC 58.444 45.455 0.00 0.00 0.00 2.43
2399 6373 2.639065 TGTTCCTCGTGCTTCAAAACT 58.361 42.857 0.00 0.00 0.00 2.66
2400 6374 2.612212 TGTTCCTCGTGCTTCAAAACTC 59.388 45.455 0.00 0.00 0.00 3.01
2401 6375 1.497991 TCCTCGTGCTTCAAAACTCG 58.502 50.000 0.00 0.00 0.00 4.18
2402 6376 0.512952 CCTCGTGCTTCAAAACTCGG 59.487 55.000 0.00 0.00 0.00 4.63
2403 6377 1.217882 CTCGTGCTTCAAAACTCGGT 58.782 50.000 0.00 0.00 0.00 4.69
2404 6378 2.400399 CTCGTGCTTCAAAACTCGGTA 58.600 47.619 0.00 0.00 0.00 4.02
2405 6379 2.400399 TCGTGCTTCAAAACTCGGTAG 58.600 47.619 0.00 0.00 0.00 3.18
2406 6380 1.136336 CGTGCTTCAAAACTCGGTAGC 60.136 52.381 0.00 0.00 0.00 3.58
2407 6381 1.871039 GTGCTTCAAAACTCGGTAGCA 59.129 47.619 0.00 0.00 36.38 3.49
2408 6382 1.871039 TGCTTCAAAACTCGGTAGCAC 59.129 47.619 0.00 0.00 34.05 4.40
2409 6383 1.871039 GCTTCAAAACTCGGTAGCACA 59.129 47.619 0.00 0.00 0.00 4.57
2410 6384 2.484264 GCTTCAAAACTCGGTAGCACAT 59.516 45.455 0.00 0.00 0.00 3.21
2411 6385 3.058224 GCTTCAAAACTCGGTAGCACATT 60.058 43.478 0.00 0.00 0.00 2.71
2412 6386 4.556699 GCTTCAAAACTCGGTAGCACATTT 60.557 41.667 0.00 0.00 0.00 2.32
2413 6387 5.508200 TTCAAAACTCGGTAGCACATTTT 57.492 34.783 0.00 0.00 0.00 1.82
2414 6388 5.508200 TCAAAACTCGGTAGCACATTTTT 57.492 34.783 0.00 0.00 0.00 1.94
2415 6389 6.621316 TCAAAACTCGGTAGCACATTTTTA 57.379 33.333 0.00 0.00 0.00 1.52
2416 6390 7.028926 TCAAAACTCGGTAGCACATTTTTAA 57.971 32.000 0.00 0.00 0.00 1.52
2417 6391 7.481642 TCAAAACTCGGTAGCACATTTTTAAA 58.518 30.769 0.00 0.00 0.00 1.52
2418 6392 8.138712 TCAAAACTCGGTAGCACATTTTTAAAT 58.861 29.630 0.00 0.00 0.00 1.40
2419 6393 8.424731 CAAAACTCGGTAGCACATTTTTAAATC 58.575 33.333 0.00 0.00 0.00 2.17
2420 6394 7.448748 AACTCGGTAGCACATTTTTAAATCT 57.551 32.000 0.00 0.00 0.00 2.40
2421 6395 7.448748 ACTCGGTAGCACATTTTTAAATCTT 57.551 32.000 0.00 0.00 0.00 2.40
2422 6396 7.882179 ACTCGGTAGCACATTTTTAAATCTTT 58.118 30.769 0.00 0.00 0.00 2.52
2423 6397 9.005777 ACTCGGTAGCACATTTTTAAATCTTTA 57.994 29.630 0.00 0.00 0.00 1.85
2424 6398 9.274065 CTCGGTAGCACATTTTTAAATCTTTAC 57.726 33.333 0.00 0.00 0.00 2.01
2425 6399 9.005777 TCGGTAGCACATTTTTAAATCTTTACT 57.994 29.630 0.00 0.00 0.00 2.24
2426 6400 9.274065 CGGTAGCACATTTTTAAATCTTTACTC 57.726 33.333 0.00 0.00 0.00 2.59
2457 6431 7.765695 AAATCTGAGTTGGTAATGATTGTGT 57.234 32.000 0.00 0.00 0.00 3.72
2458 6432 6.748333 ATCTGAGTTGGTAATGATTGTGTG 57.252 37.500 0.00 0.00 0.00 3.82
2459 6433 4.455533 TCTGAGTTGGTAATGATTGTGTGC 59.544 41.667 0.00 0.00 0.00 4.57
2460 6434 3.505680 TGAGTTGGTAATGATTGTGTGCC 59.494 43.478 0.00 0.00 0.00 5.01
2461 6435 3.758554 GAGTTGGTAATGATTGTGTGCCT 59.241 43.478 0.00 0.00 0.00 4.75
2462 6436 3.507233 AGTTGGTAATGATTGTGTGCCTG 59.493 43.478 0.00 0.00 0.00 4.85
2463 6437 1.818060 TGGTAATGATTGTGTGCCTGC 59.182 47.619 0.00 0.00 0.00 4.85
2464 6438 1.134946 GGTAATGATTGTGTGCCTGCC 59.865 52.381 0.00 0.00 0.00 4.85
2465 6439 1.818060 GTAATGATTGTGTGCCTGCCA 59.182 47.619 0.00 0.00 0.00 4.92
2466 6440 1.563924 AATGATTGTGTGCCTGCCAT 58.436 45.000 0.00 0.00 0.00 4.40
2467 6441 1.108776 ATGATTGTGTGCCTGCCATC 58.891 50.000 0.00 0.00 0.00 3.51
2468 6442 0.038599 TGATTGTGTGCCTGCCATCT 59.961 50.000 0.00 0.00 0.00 2.90
2469 6443 1.180029 GATTGTGTGCCTGCCATCTT 58.820 50.000 0.00 0.00 0.00 2.40
2470 6444 2.290832 TGATTGTGTGCCTGCCATCTTA 60.291 45.455 0.00 0.00 0.00 2.10
2471 6445 2.512692 TTGTGTGCCTGCCATCTTAT 57.487 45.000 0.00 0.00 0.00 1.73
2472 6446 3.643199 TTGTGTGCCTGCCATCTTATA 57.357 42.857 0.00 0.00 0.00 0.98
2473 6447 3.862877 TGTGTGCCTGCCATCTTATAT 57.137 42.857 0.00 0.00 0.00 0.86
2474 6448 4.169059 TGTGTGCCTGCCATCTTATATT 57.831 40.909 0.00 0.00 0.00 1.28
2475 6449 4.535781 TGTGTGCCTGCCATCTTATATTT 58.464 39.130 0.00 0.00 0.00 1.40
2476 6450 4.338964 TGTGTGCCTGCCATCTTATATTTG 59.661 41.667 0.00 0.00 0.00 2.32
2477 6451 3.890756 TGTGCCTGCCATCTTATATTTGG 59.109 43.478 0.00 0.00 0.00 3.28
2478 6452 3.256631 GTGCCTGCCATCTTATATTTGGG 59.743 47.826 0.00 0.00 0.00 4.12
2479 6453 3.139957 TGCCTGCCATCTTATATTTGGGA 59.860 43.478 0.00 0.00 0.00 4.37
2480 6454 4.202706 TGCCTGCCATCTTATATTTGGGAT 60.203 41.667 0.00 0.00 29.97 3.85
2481 6455 4.400567 GCCTGCCATCTTATATTTGGGATC 59.599 45.833 0.00 0.00 29.97 3.36
2482 6456 4.637534 CCTGCCATCTTATATTTGGGATCG 59.362 45.833 0.00 0.00 29.97 3.69
2483 6457 5.241403 TGCCATCTTATATTTGGGATCGT 57.759 39.130 0.00 0.00 0.00 3.73
2484 6458 5.245531 TGCCATCTTATATTTGGGATCGTC 58.754 41.667 0.00 0.00 0.00 4.20
2485 6459 4.330074 GCCATCTTATATTTGGGATCGTCG 59.670 45.833 0.00 0.00 0.00 5.12
2486 6460 4.870426 CCATCTTATATTTGGGATCGTCGG 59.130 45.833 0.00 0.00 0.00 4.79
2487 6461 5.337250 CCATCTTATATTTGGGATCGTCGGA 60.337 44.000 0.00 0.00 0.00 4.55
2488 6462 5.995565 TCTTATATTTGGGATCGTCGGAT 57.004 39.130 0.00 0.00 34.96 4.18
2489 6463 5.962433 TCTTATATTTGGGATCGTCGGATC 58.038 41.667 0.00 0.00 46.85 3.36
2490 6464 5.715279 TCTTATATTTGGGATCGTCGGATCT 59.285 40.000 4.30 0.00 46.77 2.75
2491 6465 2.533266 ATTTGGGATCGTCGGATCTG 57.467 50.000 0.00 0.00 46.77 2.90
2492 6466 0.179084 TTTGGGATCGTCGGATCTGC 60.179 55.000 0.00 0.00 46.77 4.26
2493 6467 1.326951 TTGGGATCGTCGGATCTGCA 61.327 55.000 0.00 0.00 46.77 4.41
2494 6468 1.115326 TGGGATCGTCGGATCTGCAT 61.115 55.000 0.00 0.00 46.77 3.96
2495 6469 0.389166 GGGATCGTCGGATCTGCATC 60.389 60.000 0.00 0.00 46.77 3.91
2496 6470 0.600557 GGATCGTCGGATCTGCATCT 59.399 55.000 0.00 0.00 46.77 2.90
2497 6471 1.668337 GGATCGTCGGATCTGCATCTG 60.668 57.143 0.00 0.00 46.77 2.90
2498 6472 1.268079 GATCGTCGGATCTGCATCTGA 59.732 52.381 0.00 0.00 44.66 3.27
2501 6475 1.066422 TCGGATCTGCATCTGACGC 59.934 57.895 0.00 0.00 39.21 5.19
2502 6476 1.227060 CGGATCTGCATCTGACGCA 60.227 57.895 0.00 0.00 37.58 5.24
2503 6477 1.485838 CGGATCTGCATCTGACGCAC 61.486 60.000 0.00 0.00 37.58 5.34
2504 6478 0.460811 GGATCTGCATCTGACGCACA 60.461 55.000 0.00 0.00 35.08 4.57
2505 6479 1.362768 GATCTGCATCTGACGCACAA 58.637 50.000 0.00 0.00 35.08 3.33
2506 6480 1.061711 GATCTGCATCTGACGCACAAC 59.938 52.381 0.00 0.00 35.08 3.32
2507 6481 0.249826 TCTGCATCTGACGCACAACA 60.250 50.000 0.00 0.00 35.08 3.33
2508 6482 0.110509 CTGCATCTGACGCACAACAC 60.111 55.000 0.00 0.00 35.08 3.32
2509 6483 0.813210 TGCATCTGACGCACAACACA 60.813 50.000 0.00 0.00 33.55 3.72
2510 6484 0.307453 GCATCTGACGCACAACACAA 59.693 50.000 0.00 0.00 0.00 3.33
2511 6485 1.268488 GCATCTGACGCACAACACAAA 60.268 47.619 0.00 0.00 0.00 2.83
2512 6486 2.642995 CATCTGACGCACAACACAAAG 58.357 47.619 0.00 0.00 0.00 2.77
2513 6487 0.376852 TCTGACGCACAACACAAAGC 59.623 50.000 0.00 0.00 0.00 3.51
2514 6488 0.098552 CTGACGCACAACACAAAGCA 59.901 50.000 0.00 0.00 0.00 3.91
2515 6489 0.523519 TGACGCACAACACAAAGCAA 59.476 45.000 0.00 0.00 0.00 3.91
2516 6490 1.133982 TGACGCACAACACAAAGCAAT 59.866 42.857 0.00 0.00 0.00 3.56
2517 6491 1.780860 GACGCACAACACAAAGCAATC 59.219 47.619 0.00 0.00 0.00 2.67
2518 6492 1.405105 ACGCACAACACAAAGCAATCT 59.595 42.857 0.00 0.00 0.00 2.40
2519 6493 1.782569 CGCACAACACAAAGCAATCTG 59.217 47.619 0.00 0.00 0.00 2.90
2520 6494 2.795681 CGCACAACACAAAGCAATCTGT 60.796 45.455 0.00 0.00 0.00 3.41
2521 6495 2.536803 GCACAACACAAAGCAATCTGTG 59.463 45.455 0.81 0.81 46.76 3.66
2537 6511 7.697352 CAATCTGTGCAATTTTACACAAAGA 57.303 32.000 7.04 3.49 45.55 2.52
2538 6512 7.558137 CAATCTGTGCAATTTTACACAAAGAC 58.442 34.615 7.04 0.00 45.55 3.01
2539 6513 6.201226 TCTGTGCAATTTTACACAAAGACA 57.799 33.333 7.04 0.00 45.55 3.41
2540 6514 6.033341 TCTGTGCAATTTTACACAAAGACAC 58.967 36.000 7.04 0.00 45.55 3.67
2541 6515 5.105752 TGTGCAATTTTACACAAAGACACC 58.894 37.500 0.00 0.00 43.48 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 0.603975 GAGGGCTTGTTTGACTCGCT 60.604 55.000 0.00 0.00 0.00 4.93
39 40 2.147150 GACAGAGGGCTTGTTTGACTC 58.853 52.381 0.00 0.00 0.00 3.36
63 64 0.870307 CCGTCGTTTCTCTATGGCGG 60.870 60.000 0.00 0.00 44.78 6.13
69 70 0.899720 AATGGCCCGTCGTTTCTCTA 59.100 50.000 0.00 0.00 0.00 2.43
117 118 1.610554 GACTTCCCCGATGAACCCGA 61.611 60.000 0.00 0.00 0.00 5.14
119 120 1.153429 CGACTTCCCCGATGAACCC 60.153 63.158 0.00 0.00 0.00 4.11
144 146 1.133181 TGGATTGGCCAGTCACTCCA 61.133 55.000 27.45 20.59 43.33 3.86
163 165 3.059166 GTTCTTTTTGCGCACCATGAAT 58.941 40.909 11.12 0.00 0.00 2.57
164 166 2.159184 TGTTCTTTTTGCGCACCATGAA 60.159 40.909 11.12 10.79 0.00 2.57
190 195 1.532437 CAGTCAACACACATGCGACAT 59.468 47.619 0.00 0.00 35.13 3.06
193 198 1.866601 CTTCAGTCAACACACATGCGA 59.133 47.619 0.00 0.00 0.00 5.10
210 215 0.948678 TACTTTGTTGCGGCCACTTC 59.051 50.000 2.24 0.00 0.00 3.01
216 221 1.153842 GGGCATACTTTGTTGCGGC 60.154 57.895 0.00 0.00 39.78 6.53
219 224 2.298729 TCCTTTGGGCATACTTTGTTGC 59.701 45.455 0.00 0.00 38.14 4.17
266 271 8.262227 ACATTCCACGGTTGAATCTATAACTTA 58.738 33.333 4.60 0.00 30.16 2.24
371 377 0.890683 GGCCCAAAAGGTGTGATGAG 59.109 55.000 0.00 0.00 38.26 2.90
401 407 3.634910 TGAGCCCAAATGACATGATGATG 59.365 43.478 0.00 0.00 35.49 3.07
406 412 3.438216 TCTTGAGCCCAAATGACATGA 57.562 42.857 0.00 0.00 0.00 3.07
411 417 1.826720 GGCATTCTTGAGCCCAAATGA 59.173 47.619 0.00 0.00 45.18 2.57
455 461 1.553248 TGGTCGTGGAGGTATTTCTGG 59.447 52.381 0.00 0.00 0.00 3.86
551 560 5.303747 AGTTTGTGAATGTTTGTTCGACA 57.696 34.783 0.00 0.00 0.00 4.35
747 756 1.081376 CGGAGCGGTGGATCGATAC 60.081 63.158 0.00 0.00 0.00 2.24
768 777 8.779303 TGTATGAAAAGAACGCTTTCTATTCAA 58.221 29.630 5.81 0.00 43.32 2.69
769 778 8.317891 TGTATGAAAAGAACGCTTTCTATTCA 57.682 30.769 5.81 0.00 43.32 2.57
780 789 6.309494 TCAGTCGGTTATGTATGAAAAGAACG 59.691 38.462 0.00 0.00 0.00 3.95
842 852 5.023533 GTGTTAGGCACATCTCCATCTTA 57.976 43.478 0.00 0.00 46.91 2.10
895 905 1.277557 ACTCCTTGCTAGCTTGGACTG 59.722 52.381 20.20 15.47 0.00 3.51
916 926 5.826737 TCGTGGTTTGGGATAAACTTGTTTA 59.173 36.000 8.18 8.18 0.00 2.01
975 996 3.489785 GTCCGTTCTTGAAGCATATACGG 59.510 47.826 0.00 0.00 46.08 4.02
976 997 4.109766 TGTCCGTTCTTGAAGCATATACG 58.890 43.478 0.00 0.00 0.00 3.06
978 999 6.161855 AGATGTCCGTTCTTGAAGCATATA 57.838 37.500 0.00 0.00 0.00 0.86
979 1000 5.028549 AGATGTCCGTTCTTGAAGCATAT 57.971 39.130 0.00 0.00 0.00 1.78
980 1001 4.471904 AGATGTCCGTTCTTGAAGCATA 57.528 40.909 0.00 0.00 0.00 3.14
1046 1067 2.489329 CTGCTCGTGGAATGATGGTTTT 59.511 45.455 0.00 0.00 0.00 2.43
1070 1092 3.890936 AAGCTCTGCACTGTCCCGC 62.891 63.158 0.00 0.00 0.00 6.13
1071 1093 1.739562 GAAGCTCTGCACTGTCCCG 60.740 63.158 0.00 0.00 0.00 5.14
1099 1126 4.116747 ACTCTTCATCGTTGCTCCTAAG 57.883 45.455 0.00 0.00 0.00 2.18
1223 1250 7.929245 TCACTTGTGTGTGTAAGCTAAAGATTA 59.071 33.333 0.46 0.00 44.14 1.75
1224 1251 6.765989 TCACTTGTGTGTGTAAGCTAAAGATT 59.234 34.615 0.46 0.00 44.14 2.40
1293 1357 1.061411 CACGCACGCATGGAATCAG 59.939 57.895 0.00 0.00 0.00 2.90
1305 1407 4.077188 GAACTCGGCTGCACGCAC 62.077 66.667 0.50 0.36 41.67 5.34
1309 1411 3.842925 TTGGGGAACTCGGCTGCAC 62.843 63.158 0.50 0.00 0.00 4.57
1310 1412 3.551496 CTTGGGGAACTCGGCTGCA 62.551 63.158 0.50 0.00 0.00 4.41
1311 1413 2.747855 CTTGGGGAACTCGGCTGC 60.748 66.667 0.00 0.00 0.00 5.25
1394 1496 3.414700 CAGTTCACGCAGCCGTCC 61.415 66.667 0.00 0.00 46.39 4.79
1520 1622 5.873179 TTTTCGGTCCAACATCTTATGTC 57.127 39.130 0.00 0.00 44.07 3.06
1534 1636 3.465122 TGCGAGCTTTTATTTTCGGTC 57.535 42.857 0.00 0.00 33.89 4.79
1553 1659 0.322277 ACTGCTCTGCTCAACCCATG 60.322 55.000 0.00 0.00 0.00 3.66
1570 1676 2.030562 GCACGTACAGCCACCACT 59.969 61.111 0.00 0.00 0.00 4.00
1591 1700 3.656045 GTTGTTGGGCGTGGACCG 61.656 66.667 0.00 0.00 40.40 4.79
1615 1724 2.975410 TAACGACGACGATGACAACT 57.025 45.000 15.32 0.00 42.66 3.16
1668 1809 5.645929 TGTATGTGTTTATTCACGGAGCAAT 59.354 36.000 0.00 0.00 40.74 3.56
1691 1832 6.525976 CAGAGACGCATACACTGATACATATG 59.474 42.308 0.00 0.00 0.00 1.78
1693 1834 5.562890 GCAGAGACGCATACACTGATACATA 60.563 44.000 0.00 0.00 0.00 2.29
1694 1835 4.794329 GCAGAGACGCATACACTGATACAT 60.794 45.833 0.00 0.00 0.00 2.29
1800 3697 2.316792 CACTAATTATCCCGACTCGCG 58.683 52.381 0.00 0.00 40.47 5.87
1813 3781 9.120538 ACTTGCGTAAATAATGATCCACTAATT 57.879 29.630 0.00 0.00 0.00 1.40
1818 3786 6.358118 TGACTTGCGTAAATAATGATCCAC 57.642 37.500 0.00 0.00 0.00 4.02
1820 3788 5.049405 CCCTGACTTGCGTAAATAATGATCC 60.049 44.000 0.00 0.00 0.00 3.36
1821 3789 5.560953 GCCCTGACTTGCGTAAATAATGATC 60.561 44.000 0.00 0.00 0.00 2.92
1823 3791 3.625764 GCCCTGACTTGCGTAAATAATGA 59.374 43.478 0.00 0.00 0.00 2.57
1935 5892 4.670992 GCATGCATATTCGCGAGATGATTT 60.671 41.667 27.66 13.69 41.60 2.17
2003 5964 2.348125 CGAGAAGCTAGACGAGATCACG 60.348 54.545 11.16 11.16 39.31 4.35
2004 5965 2.032377 CCGAGAAGCTAGACGAGATCAC 60.032 54.545 0.00 0.00 0.00 3.06
2005 5966 2.214347 CCGAGAAGCTAGACGAGATCA 58.786 52.381 0.00 0.00 0.00 2.92
2092 6053 2.540515 ACGGTGATATTGCTCAAGTCG 58.459 47.619 0.00 0.00 0.00 4.18
2126 6087 2.412089 GAGCGCGTATCTCAGTGTTTTT 59.588 45.455 8.43 0.00 0.00 1.94
2127 6088 1.993370 GAGCGCGTATCTCAGTGTTTT 59.007 47.619 8.43 0.00 0.00 2.43
2138 6099 1.514228 CGACACTGTGAGCGCGTAT 60.514 57.895 15.86 0.00 0.00 3.06
2163 6124 7.541783 GTGTCACATTTTTATTCAAGCATGCTA 59.458 33.333 23.00 5.74 0.00 3.49
2182 6143 1.686587 AGACGGATGAACAGTGTCACA 59.313 47.619 5.62 0.49 32.08 3.58
2198 6159 3.451178 TCTTTGGGAAAGAGGGATAGACG 59.549 47.826 0.00 0.00 42.31 4.18
2215 6189 4.330894 TCGCTGTAGCATCTTCAATCTTTG 59.669 41.667 4.59 0.00 42.21 2.77
2225 6199 0.747255 ACCGAATCGCTGTAGCATCT 59.253 50.000 0.00 0.00 42.21 2.90
2230 6204 1.472276 GCGTCACCGAATCGCTGTAG 61.472 60.000 0.00 0.00 45.29 2.74
2232 6206 2.809601 GCGTCACCGAATCGCTGT 60.810 61.111 0.00 0.00 45.29 4.40
2239 6213 0.179111 GATGGATCTGCGTCACCGAA 60.179 55.000 0.00 0.00 35.63 4.30
2310 6284 4.709690 GGCAGGTACTCCTAGCCT 57.290 61.111 15.25 0.00 45.62 4.58
2312 6286 0.394565 CCATGGCAGGTACTCCTAGC 59.605 60.000 0.00 0.00 43.07 3.42
2313 6287 0.394565 GCCATGGCAGGTACTCCTAG 59.605 60.000 32.08 0.00 43.07 3.02
2314 6288 2.528134 GCCATGGCAGGTACTCCTA 58.472 57.895 32.08 0.00 43.07 2.94
2315 6289 3.324713 GCCATGGCAGGTACTCCT 58.675 61.111 32.08 0.00 46.37 3.69
2337 6311 1.632018 TATTTCCCCGGGTGAGCTGG 61.632 60.000 21.85 1.65 0.00 4.85
2338 6312 0.474184 ATATTTCCCCGGGTGAGCTG 59.526 55.000 21.85 2.11 0.00 4.24
2344 6318 2.052468 GTACCAGATATTTCCCCGGGT 58.948 52.381 21.85 2.42 0.00 5.28
2376 6350 1.808411 TTGAAGCACGAGGAACATCC 58.192 50.000 0.00 0.00 36.58 3.51
2377 6351 3.251004 AGTTTTGAAGCACGAGGAACATC 59.749 43.478 0.00 0.00 0.00 3.06
2378 6352 3.214328 AGTTTTGAAGCACGAGGAACAT 58.786 40.909 0.00 0.00 0.00 2.71
2379 6353 2.612212 GAGTTTTGAAGCACGAGGAACA 59.388 45.455 0.00 0.00 0.00 3.18
2380 6354 2.348591 CGAGTTTTGAAGCACGAGGAAC 60.349 50.000 0.00 0.00 0.00 3.62
2381 6355 1.864711 CGAGTTTTGAAGCACGAGGAA 59.135 47.619 0.00 0.00 0.00 3.36
2382 6356 1.497991 CGAGTTTTGAAGCACGAGGA 58.502 50.000 0.00 0.00 0.00 3.71
2383 6357 0.512952 CCGAGTTTTGAAGCACGAGG 59.487 55.000 0.00 0.00 0.00 4.63
2384 6358 1.217882 ACCGAGTTTTGAAGCACGAG 58.782 50.000 0.00 0.00 0.00 4.18
2385 6359 2.400399 CTACCGAGTTTTGAAGCACGA 58.600 47.619 0.00 0.00 0.00 4.35
2386 6360 1.136336 GCTACCGAGTTTTGAAGCACG 60.136 52.381 0.00 0.00 0.00 5.34
2387 6361 1.871039 TGCTACCGAGTTTTGAAGCAC 59.129 47.619 0.00 0.00 35.20 4.40
2388 6362 1.871039 GTGCTACCGAGTTTTGAAGCA 59.129 47.619 0.00 0.00 37.62 3.91
2389 6363 1.871039 TGTGCTACCGAGTTTTGAAGC 59.129 47.619 0.00 0.00 0.00 3.86
2390 6364 4.749245 AATGTGCTACCGAGTTTTGAAG 57.251 40.909 0.00 0.00 0.00 3.02
2391 6365 5.508200 AAAATGTGCTACCGAGTTTTGAA 57.492 34.783 0.00 0.00 0.00 2.69
2392 6366 5.508200 AAAAATGTGCTACCGAGTTTTGA 57.492 34.783 0.00 0.00 0.00 2.69
2393 6367 7.687005 TTTAAAAATGTGCTACCGAGTTTTG 57.313 32.000 0.00 0.00 0.00 2.44
2394 6368 8.357402 AGATTTAAAAATGTGCTACCGAGTTTT 58.643 29.630 0.00 0.00 0.00 2.43
2395 6369 7.882179 AGATTTAAAAATGTGCTACCGAGTTT 58.118 30.769 0.00 0.00 0.00 2.66
2396 6370 7.448748 AGATTTAAAAATGTGCTACCGAGTT 57.551 32.000 0.00 0.00 0.00 3.01
2397 6371 7.448748 AAGATTTAAAAATGTGCTACCGAGT 57.551 32.000 0.00 0.00 0.00 4.18
2398 6372 9.274065 GTAAAGATTTAAAAATGTGCTACCGAG 57.726 33.333 0.00 0.00 0.00 4.63
2399 6373 9.005777 AGTAAAGATTTAAAAATGTGCTACCGA 57.994 29.630 0.00 0.00 0.00 4.69
2400 6374 9.274065 GAGTAAAGATTTAAAAATGTGCTACCG 57.726 33.333 0.00 0.00 0.00 4.02
2431 6405 8.641541 ACACAATCATTACCAACTCAGATTTTT 58.358 29.630 0.00 0.00 0.00 1.94
2432 6406 8.084073 CACACAATCATTACCAACTCAGATTTT 58.916 33.333 0.00 0.00 0.00 1.82
2433 6407 7.596494 CACACAATCATTACCAACTCAGATTT 58.404 34.615 0.00 0.00 0.00 2.17
2434 6408 6.349611 GCACACAATCATTACCAACTCAGATT 60.350 38.462 0.00 0.00 0.00 2.40
2435 6409 5.124457 GCACACAATCATTACCAACTCAGAT 59.876 40.000 0.00 0.00 0.00 2.90
2436 6410 4.455533 GCACACAATCATTACCAACTCAGA 59.544 41.667 0.00 0.00 0.00 3.27
2437 6411 4.379813 GGCACACAATCATTACCAACTCAG 60.380 45.833 0.00 0.00 0.00 3.35
2438 6412 3.505680 GGCACACAATCATTACCAACTCA 59.494 43.478 0.00 0.00 0.00 3.41
2439 6413 3.758554 AGGCACACAATCATTACCAACTC 59.241 43.478 0.00 0.00 0.00 3.01
2440 6414 3.507233 CAGGCACACAATCATTACCAACT 59.493 43.478 0.00 0.00 0.00 3.16
2441 6415 3.836949 CAGGCACACAATCATTACCAAC 58.163 45.455 0.00 0.00 0.00 3.77
2442 6416 2.230992 GCAGGCACACAATCATTACCAA 59.769 45.455 0.00 0.00 0.00 3.67
2443 6417 1.818060 GCAGGCACACAATCATTACCA 59.182 47.619 0.00 0.00 0.00 3.25
2444 6418 1.134946 GGCAGGCACACAATCATTACC 59.865 52.381 0.00 0.00 0.00 2.85
2445 6419 1.818060 TGGCAGGCACACAATCATTAC 59.182 47.619 0.00 0.00 0.00 1.89
2446 6420 2.212812 TGGCAGGCACACAATCATTA 57.787 45.000 0.00 0.00 0.00 1.90
2447 6421 1.479323 GATGGCAGGCACACAATCATT 59.521 47.619 0.00 0.00 0.00 2.57
2448 6422 1.108776 GATGGCAGGCACACAATCAT 58.891 50.000 0.00 0.00 0.00 2.45
2449 6423 0.038599 AGATGGCAGGCACACAATCA 59.961 50.000 0.00 0.00 0.00 2.57
2450 6424 1.180029 AAGATGGCAGGCACACAATC 58.820 50.000 0.00 0.00 0.00 2.67
2451 6425 2.512692 TAAGATGGCAGGCACACAAT 57.487 45.000 0.00 0.00 0.00 2.71
2452 6426 2.512692 ATAAGATGGCAGGCACACAA 57.487 45.000 0.00 0.00 0.00 3.33
2453 6427 3.862877 ATATAAGATGGCAGGCACACA 57.137 42.857 0.00 0.00 0.00 3.72
2454 6428 4.261741 CCAAATATAAGATGGCAGGCACAC 60.262 45.833 0.00 0.00 0.00 3.82
2455 6429 3.890756 CCAAATATAAGATGGCAGGCACA 59.109 43.478 0.00 0.00 0.00 4.57
2456 6430 3.256631 CCCAAATATAAGATGGCAGGCAC 59.743 47.826 0.00 0.00 32.71 5.01
2457 6431 3.139957 TCCCAAATATAAGATGGCAGGCA 59.860 43.478 0.00 0.00 32.71 4.75
2458 6432 3.766545 TCCCAAATATAAGATGGCAGGC 58.233 45.455 0.00 0.00 32.71 4.85
2459 6433 4.637534 CGATCCCAAATATAAGATGGCAGG 59.362 45.833 0.00 0.00 32.71 4.85
2460 6434 5.248640 ACGATCCCAAATATAAGATGGCAG 58.751 41.667 0.00 0.00 32.71 4.85
2461 6435 5.241403 ACGATCCCAAATATAAGATGGCA 57.759 39.130 0.00 0.00 32.71 4.92
2462 6436 4.330074 CGACGATCCCAAATATAAGATGGC 59.670 45.833 0.00 0.00 32.71 4.40
2463 6437 4.870426 CCGACGATCCCAAATATAAGATGG 59.130 45.833 0.00 0.00 0.00 3.51
2464 6438 5.720202 TCCGACGATCCCAAATATAAGATG 58.280 41.667 0.00 0.00 0.00 2.90
2465 6439 5.995565 TCCGACGATCCCAAATATAAGAT 57.004 39.130 0.00 0.00 0.00 2.40
2466 6440 5.715279 AGATCCGACGATCCCAAATATAAGA 59.285 40.000 0.00 0.00 45.32 2.10
2467 6441 5.807520 CAGATCCGACGATCCCAAATATAAG 59.192 44.000 0.00 0.00 45.32 1.73
2468 6442 5.720202 CAGATCCGACGATCCCAAATATAA 58.280 41.667 0.00 0.00 45.32 0.98
2469 6443 4.381612 GCAGATCCGACGATCCCAAATATA 60.382 45.833 0.00 0.00 45.32 0.86
2470 6444 3.617531 GCAGATCCGACGATCCCAAATAT 60.618 47.826 0.00 0.00 45.32 1.28
2471 6445 2.288825 GCAGATCCGACGATCCCAAATA 60.289 50.000 0.00 0.00 45.32 1.40
2472 6446 1.541233 GCAGATCCGACGATCCCAAAT 60.541 52.381 0.00 0.00 45.32 2.32
2473 6447 0.179084 GCAGATCCGACGATCCCAAA 60.179 55.000 0.00 0.00 45.32 3.28
2474 6448 1.326951 TGCAGATCCGACGATCCCAA 61.327 55.000 0.00 0.00 45.32 4.12
2475 6449 1.115326 ATGCAGATCCGACGATCCCA 61.115 55.000 0.00 0.00 45.32 4.37
2476 6450 0.389166 GATGCAGATCCGACGATCCC 60.389 60.000 0.00 0.00 45.32 3.85
2477 6451 0.600557 AGATGCAGATCCGACGATCC 59.399 55.000 0.00 0.00 45.32 3.36
2478 6452 1.268079 TCAGATGCAGATCCGACGATC 59.732 52.381 0.00 0.00 44.65 3.69
2479 6453 1.000827 GTCAGATGCAGATCCGACGAT 60.001 52.381 0.00 0.00 28.60 3.73
2480 6454 0.382158 GTCAGATGCAGATCCGACGA 59.618 55.000 0.00 0.00 28.60 4.20
2481 6455 2.878743 GTCAGATGCAGATCCGACG 58.121 57.895 0.00 0.00 28.60 5.12
2482 6456 1.211818 GCGTCAGATGCAGATCCGAC 61.212 60.000 9.95 0.00 34.02 4.79
2483 6457 1.066422 GCGTCAGATGCAGATCCGA 59.934 57.895 9.95 0.00 0.00 4.55
2484 6458 1.227060 TGCGTCAGATGCAGATCCG 60.227 57.895 13.66 0.00 34.76 4.18
2485 6459 0.460811 TGTGCGTCAGATGCAGATCC 60.461 55.000 18.08 6.77 41.37 3.36
2486 6460 1.061711 GTTGTGCGTCAGATGCAGATC 59.938 52.381 18.08 11.86 41.37 2.75
2487 6461 1.081892 GTTGTGCGTCAGATGCAGAT 58.918 50.000 18.08 0.00 41.37 2.90
2488 6462 0.249826 TGTTGTGCGTCAGATGCAGA 60.250 50.000 18.08 14.16 41.37 4.26
2489 6463 0.110509 GTGTTGTGCGTCAGATGCAG 60.111 55.000 18.08 0.00 41.37 4.41
2490 6464 0.813210 TGTGTTGTGCGTCAGATGCA 60.813 50.000 13.66 13.66 37.87 3.96
2491 6465 0.307453 TTGTGTTGTGCGTCAGATGC 59.693 50.000 7.77 7.77 0.00 3.91
2492 6466 2.642995 CTTTGTGTTGTGCGTCAGATG 58.357 47.619 0.00 0.00 0.00 2.90
2493 6467 1.002468 GCTTTGTGTTGTGCGTCAGAT 60.002 47.619 0.00 0.00 0.00 2.90
2494 6468 0.376852 GCTTTGTGTTGTGCGTCAGA 59.623 50.000 0.00 0.00 0.00 3.27
2495 6469 0.098552 TGCTTTGTGTTGTGCGTCAG 59.901 50.000 0.00 0.00 0.00 3.51
2496 6470 0.523519 TTGCTTTGTGTTGTGCGTCA 59.476 45.000 0.00 0.00 0.00 4.35
2497 6471 1.780860 GATTGCTTTGTGTTGTGCGTC 59.219 47.619 0.00 0.00 0.00 5.19
2498 6472 1.405105 AGATTGCTTTGTGTTGTGCGT 59.595 42.857 0.00 0.00 0.00 5.24
2499 6473 1.782569 CAGATTGCTTTGTGTTGTGCG 59.217 47.619 0.00 0.00 0.00 5.34
2500 6474 2.536803 CACAGATTGCTTTGTGTTGTGC 59.463 45.455 0.00 0.00 39.77 4.57
2519 6493 5.635549 GGTGTCTTTGTGTAAAATTGCAC 57.364 39.130 7.34 7.34 42.98 4.57


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

AutoCloner maintained by Alex Coulton.