Multiple sequence alignment - TraesCS1A01G411500

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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 TraesCS1A01G411500 chr1A 100.000 4953 0 0 1 4953 572024124 572019172 0.000000e+00 9147.0
1 TraesCS1A01G411500 chr1A 72.414 261 51 18 63 314 14497414 14497166 4.140000e-06 63.9
2 TraesCS1A01G411500 chr1B 91.918 3477 155 54 755 4178 662559293 662555890 0.000000e+00 4748.0
3 TraesCS1A01G411500 chr1B 88.889 729 78 3 1 726 662560393 662559665 0.000000e+00 894.0
4 TraesCS1A01G411500 chr1B 82.973 787 70 34 4177 4953 662555855 662555123 0.000000e+00 652.0
5 TraesCS1A01G411500 chr1B 73.050 282 55 17 63 335 551758888 551758619 4.110000e-11 80.5
6 TraesCS1A01G411500 chr1B 71.217 337 74 19 7 331 174731128 174730803 4.140000e-06 63.9
7 TraesCS1A01G411500 chr1D 95.040 2520 93 17 1675 4177 476259156 476256652 0.000000e+00 3932.0
8 TraesCS1A01G411500 chr1D 85.370 1121 82 32 624 1690 476260262 476259170 0.000000e+00 1086.0
9 TraesCS1A01G411500 chr1D 83.415 609 61 23 4178 4777 476256589 476256012 3.400000e-146 529.0
10 TraesCS1A01G411500 chr1D 93.985 133 3 4 4822 4953 476255993 476255865 3.910000e-46 196.0
11 TraesCS1A01G411500 chr2B 81.305 797 117 23 2595 3372 143275992 143276775 7.040000e-173 617.0
12 TraesCS1A01G411500 chr2B 79.876 482 81 11 2895 3372 143741948 143742417 6.140000e-89 339.0
13 TraesCS1A01G411500 chr2B 83.806 247 33 4 3408 3650 143276883 143277126 1.390000e-55 228.0
14 TraesCS1A01G411500 chr2B 75.000 332 72 9 3 330 383272998 383272674 5.170000e-30 143.0
15 TraesCS1A01G411500 chr2D 80.535 822 103 33 2543 3330 90503669 90504467 3.320000e-161 579.0
16 TraesCS1A01G411500 chr2D 77.721 588 69 36 1728 2297 90502892 90503435 2.240000e-78 303.0
17 TraesCS1A01G411500 chr2D 87.923 207 17 5 2895 3100 90710454 90710653 2.300000e-58 237.0
18 TraesCS1A01G411500 chr2D 84.052 232 25 5 3408 3628 90504609 90504839 3.880000e-51 213.0
19 TraesCS1A01G411500 chr2D 81.780 236 33 8 3821 4052 90504889 90505118 6.550000e-44 189.0
20 TraesCS1A01G411500 chr2D 80.426 235 30 11 3821 4052 90713405 90713626 1.100000e-36 165.0
21 TraesCS1A01G411500 chr2A 84.192 582 70 15 2760 3327 90423438 90424011 3.370000e-151 545.0
22 TraesCS1A01G411500 chr2A 80.092 437 69 10 2946 3372 90518257 90518685 4.820000e-80 309.0
23 TraesCS1A01G411500 chr2A 80.000 235 27 12 3827 4052 90521332 90521555 6.640000e-34 156.0
24 TraesCS1A01G411500 chr3D 74.672 229 43 9 7 234 557929407 557929193 2.460000e-13 87.9
25 TraesCS1A01G411500 chr4B 86.111 72 9 1 625 696 496483610 496483680 5.320000e-10 76.8
26 TraesCS1A01G411500 chr5B 86.441 59 6 2 624 682 629954555 629954611 4.140000e-06 63.9
27 TraesCS1A01G411500 chr5B 100.000 29 0 0 63 91 86171649 86171621 2.000000e-03 54.7
28 TraesCS1A01G411500 chr6A 72.031 261 52 17 63 314 589952286 589952534 1.930000e-04 58.4
29 TraesCS1A01G411500 chr6A 71.685 279 56 20 63 331 616215738 616215473 6.930000e-04 56.5


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 TraesCS1A01G411500 chr1A 572019172 572024124 4952 True 9147.00 9147 100.000000 1 4953 1 chr1A.!!$R2 4952
1 TraesCS1A01G411500 chr1B 662555123 662560393 5270 True 2098.00 4748 87.926667 1 4953 3 chr1B.!!$R3 4952
2 TraesCS1A01G411500 chr1D 476255865 476260262 4397 True 1435.75 3932 89.452500 624 4953 4 chr1D.!!$R1 4329
3 TraesCS1A01G411500 chr2B 143275992 143277126 1134 False 422.50 617 82.555500 2595 3650 2 chr2B.!!$F2 1055
4 TraesCS1A01G411500 chr2D 90502892 90505118 2226 False 321.00 579 81.022000 1728 4052 4 chr2D.!!$F1 2324
5 TraesCS1A01G411500 chr2D 90710454 90713626 3172 False 201.00 237 84.174500 2895 4052 2 chr2D.!!$F2 1157
6 TraesCS1A01G411500 chr2A 90423438 90424011 573 False 545.00 545 84.192000 2760 3327 1 chr2A.!!$F1 567
7 TraesCS1A01G411500 chr2A 90518257 90521555 3298 False 232.50 309 80.046000 2946 4052 2 chr2A.!!$F2 1106

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
844 1194 0.030235 TCACTGTTCACGGACTCACG 59.970 55.0 0.00 0.0 40.31 4.35 F
1892 2357 0.178861 AGGAGGGGGAGCTCAAGAAA 60.179 55.0 17.19 0.0 0.00 2.52 F
1893 2358 0.922626 GGAGGGGGAGCTCAAGAAAT 59.077 55.0 17.19 0.0 0.00 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2368 2873 0.666374 GACAACAAAAGGGACGTGGG 59.334 55.000 0.0 0.0 0.00 4.61 R
3760 8434 1.674651 TAGCTCTGGTGCGTCGAGT 60.675 57.895 0.0 0.0 38.13 4.18 R
4040 8725 3.827302 TCTAGTGGTCTCCTCAGTGAAAC 59.173 47.826 0.0 0.0 0.00 2.78 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 1.705002 TTGGATCCGGCCCACTATGG 61.705 60.000 13.95 0.00 37.25 2.74
36 37 4.678743 GCCCACCTTGACCCCACC 62.679 72.222 0.00 0.00 0.00 4.61
91 92 1.821966 TAGCCACTTCCCTCCCCTCA 61.822 60.000 0.00 0.00 0.00 3.86
96 97 1.003696 CACTTCCCTCCCCTCAAGTTC 59.996 57.143 0.00 0.00 0.00 3.01
101 102 0.547712 CCTCCCCTCAAGTTCCCTCA 60.548 60.000 0.00 0.00 0.00 3.86
102 103 0.908198 CTCCCCTCAAGTTCCCTCAG 59.092 60.000 0.00 0.00 0.00 3.35
119 120 3.701454 GCCCCTAGCTCCTATCCG 58.299 66.667 0.00 0.00 38.99 4.18
137 138 2.739407 GGCGAACTTCGACCTTCTC 58.261 57.895 15.43 0.00 43.36 2.87
162 163 0.329261 TGGCAGGAAGTGGATCCAAG 59.671 55.000 18.20 3.70 42.27 3.61
174 175 4.080638 AGTGGATCCAAGTTCAAGATCTCC 60.081 45.833 18.20 0.00 37.24 3.71
175 176 3.200825 TGGATCCAAGTTCAAGATCTCCC 59.799 47.826 13.46 0.00 37.24 4.30
186 187 1.323412 AGATCTCCCGATCCGTTGAG 58.677 55.000 0.00 0.00 45.83 3.02
222 224 2.123251 GGGGCGAGGAGGAGATGA 60.123 66.667 0.00 0.00 0.00 2.92
223 225 2.503382 GGGGCGAGGAGGAGATGAC 61.503 68.421 0.00 0.00 0.00 3.06
234 236 0.326264 GGAGATGACTGCCCACTTGT 59.674 55.000 0.00 0.00 0.00 3.16
249 251 3.088532 CACTTGTCTCTCTGCTAGTCCT 58.911 50.000 0.00 0.00 0.00 3.85
294 296 1.360911 GACTCTCTCCGCGGGAATC 59.639 63.158 27.83 10.66 0.00 2.52
300 302 3.072468 TCCGCGGGAATCCTTCGT 61.072 61.111 27.83 0.00 0.00 3.85
325 327 0.248215 CGCAAATGACGCTTGGATCC 60.248 55.000 4.20 4.20 0.00 3.36
327 329 1.368641 CAAATGACGCTTGGATCCGA 58.631 50.000 7.39 3.96 0.00 4.55
328 330 1.062587 CAAATGACGCTTGGATCCGAC 59.937 52.381 7.39 0.00 0.00 4.79
359 361 1.855451 CCTAACCCCTTGGGGTGGT 60.855 63.158 29.29 17.81 45.98 4.16
372 374 2.345991 GTGGTGCGCTTGTCCCTA 59.654 61.111 9.73 0.00 0.00 3.53
379 381 1.445582 CGCTTGTCCCTACGGTGTC 60.446 63.158 0.00 0.00 0.00 3.67
380 382 1.669440 GCTTGTCCCTACGGTGTCA 59.331 57.895 0.00 0.00 0.00 3.58
383 385 1.823169 TTGTCCCTACGGTGTCAGGC 61.823 60.000 0.00 0.00 0.00 4.85
393 395 1.202348 CGGTGTCAGGCTATGAGTCAG 60.202 57.143 0.00 0.00 39.07 3.51
402 404 4.800993 CAGGCTATGAGTCAGAGTTAAACG 59.199 45.833 15.85 0.00 0.00 3.60
404 406 4.425520 GCTATGAGTCAGAGTTAAACGCT 58.574 43.478 15.85 0.00 0.00 5.07
405 407 4.865365 GCTATGAGTCAGAGTTAAACGCTT 59.135 41.667 15.85 0.00 0.00 4.68
406 408 5.220303 GCTATGAGTCAGAGTTAAACGCTTG 60.220 44.000 15.85 0.00 0.00 4.01
417 419 2.044888 AAACGCTTGCATGGTTTACG 57.955 45.000 13.68 6.31 32.51 3.18
423 425 1.000283 CTTGCATGGTTTACGGCCAAA 60.000 47.619 2.24 0.00 39.72 3.28
427 429 0.038983 ATGGTTTACGGCCAAAACGC 60.039 50.000 19.24 14.30 39.72 4.84
494 497 2.203070 GTGATAGCCCCACAGCCG 60.203 66.667 0.00 0.00 34.81 5.52
570 573 2.544359 CTTGTCGTCGCAACCACG 59.456 61.111 0.00 0.00 38.67 4.94
576 579 3.103911 GTCGCAACCACGAGGACG 61.104 66.667 5.68 6.64 43.89 4.79
613 616 2.022902 CGATCTCACGTCGACCGG 59.977 66.667 10.58 0.00 41.40 5.28
659 662 3.196207 ATGTGGGCCAGTCTGCGTT 62.196 57.895 6.40 0.00 0.00 4.84
684 687 2.829003 CCTGCTCTACCTCGCCGA 60.829 66.667 0.00 0.00 0.00 5.54
717 721 2.593026 GGACATGGAGGGAACAACAAA 58.407 47.619 0.00 0.00 0.00 2.83
719 723 2.558359 GACATGGAGGGAACAACAAAGG 59.442 50.000 0.00 0.00 0.00 3.11
726 730 1.441732 GGAACAACAAAGGCGGTCGT 61.442 55.000 0.00 0.00 0.00 4.34
729 733 1.952133 CAACAAAGGCGGTCGTCGA 60.952 57.895 0.00 0.00 42.43 4.20
730 734 1.005394 AACAAAGGCGGTCGTCGAT 60.005 52.632 0.00 0.00 42.43 3.59
757 1104 4.663636 AGACTAGTTTTACGTTGCATGC 57.336 40.909 11.82 11.82 0.00 4.06
762 1109 4.970472 AGTTTTACGTTGCATGCAATTG 57.030 36.364 33.94 28.97 38.28 2.32
772 1119 5.276489 CGTTGCATGCAATTGTATGGATTTC 60.276 40.000 33.94 20.73 38.14 2.17
780 1127 8.426881 TGCAATTGTATGGATTTCATGATTTG 57.573 30.769 7.40 0.00 37.30 2.32
797 1144 5.569355 TGATTTGAAATGAGCCACTCCTTA 58.431 37.500 0.00 0.00 0.00 2.69
798 1145 5.415701 TGATTTGAAATGAGCCACTCCTTAC 59.584 40.000 0.00 0.00 0.00 2.34
799 1146 2.972625 TGAAATGAGCCACTCCTTACG 58.027 47.619 0.00 0.00 0.00 3.18
804 1151 1.291132 GAGCCACTCCTTACGCAATC 58.709 55.000 0.00 0.00 0.00 2.67
816 1166 6.046593 TCCTTACGCAATCGATATTTGAGTT 58.953 36.000 11.05 0.00 38.01 3.01
840 1190 1.362717 CGGTCACTGTTCACGGACT 59.637 57.895 0.00 0.00 0.00 3.85
844 1194 0.030235 TCACTGTTCACGGACTCACG 59.970 55.000 0.00 0.00 40.31 4.35
845 1195 0.939577 CACTGTTCACGGACTCACGG 60.940 60.000 0.00 0.00 38.39 4.94
846 1196 1.105167 ACTGTTCACGGACTCACGGA 61.105 55.000 0.00 0.00 38.39 4.69
847 1197 0.663568 CTGTTCACGGACTCACGGAC 60.664 60.000 0.00 0.00 38.39 4.79
848 1198 1.728426 GTTCACGGACTCACGGACG 60.728 63.158 0.00 0.00 38.39 4.79
850 1200 1.727511 TTCACGGACTCACGGACGTT 61.728 55.000 0.00 0.00 37.48 3.99
854 1204 1.554042 CGGACTCACGGACGTTTTGG 61.554 60.000 0.00 0.00 0.00 3.28
856 1206 1.226030 GACTCACGGACGTTTTGGGG 61.226 60.000 0.00 0.00 0.00 4.96
857 1207 2.592287 TCACGGACGTTTTGGGGC 60.592 61.111 0.00 0.00 0.00 5.80
865 1219 2.556257 GACGTTTTGGGGCAATTTTGT 58.444 42.857 0.00 0.00 0.00 2.83
883 1237 9.927668 CAATTTTGTTAGGTCCAATTGTAGATT 57.072 29.630 4.43 0.00 32.48 2.40
884 1238 9.927668 AATTTTGTTAGGTCCAATTGTAGATTG 57.072 29.630 4.43 0.00 0.00 2.67
914 1280 6.508404 GCAGGCGCAAAATATTTCATACTTTG 60.508 38.462 10.83 0.00 35.65 2.77
915 1281 6.751425 CAGGCGCAAAATATTTCATACTTTGA 59.249 34.615 10.83 0.00 34.79 2.69
916 1282 6.974622 AGGCGCAAAATATTTCATACTTTGAG 59.025 34.615 10.83 0.85 34.79 3.02
917 1283 6.751888 GGCGCAAAATATTTCATACTTTGAGT 59.248 34.615 10.83 0.00 34.79 3.41
918 1284 7.253750 GGCGCAAAATATTTCATACTTTGAGTG 60.254 37.037 10.83 0.00 34.79 3.51
919 1285 7.253750 GCGCAAAATATTTCATACTTTGAGTGG 60.254 37.037 0.30 0.00 34.79 4.00
920 1286 7.220683 CGCAAAATATTTCATACTTTGAGTGGG 59.779 37.037 0.10 0.00 34.79 4.61
924 1290 3.350219 TTCATACTTTGAGTGGGGAGC 57.650 47.619 0.00 0.00 35.27 4.70
926 1292 1.066143 CATACTTTGAGTGGGGAGCGT 60.066 52.381 0.00 0.00 0.00 5.07
964 1330 2.105128 GCATACTCGCCGAGCAGT 59.895 61.111 15.20 0.00 32.04 4.40
1037 1422 8.646900 TGCTTCTTGTTTATTTTTATTCCACCT 58.353 29.630 0.00 0.00 0.00 4.00
1303 1696 2.948720 GCAGCCGAGGTGAAGGTCT 61.949 63.158 7.19 0.00 32.22 3.85
1322 1731 1.156322 TCCTCCCTCCCTGAACCTCT 61.156 60.000 0.00 0.00 0.00 3.69
1337 1746 1.557832 ACCTCTAGAGAGTCGTCTGCT 59.442 52.381 21.76 0.00 40.48 4.24
1406 1820 0.594540 CTCTGCTTCCGCGATGAGAG 60.595 60.000 8.23 6.94 39.65 3.20
1483 1897 1.568504 TTAGGGTGTGAGATTCGGCT 58.431 50.000 0.00 0.00 0.00 5.52
1485 1899 0.250513 AGGGTGTGAGATTCGGCTTC 59.749 55.000 0.00 0.00 0.00 3.86
1504 1918 1.265095 TCGCGTTACCTCCGATGATAC 59.735 52.381 5.77 0.00 0.00 2.24
1556 1970 0.897621 GGGGGCTGGTGAGAAATTTG 59.102 55.000 0.00 0.00 0.00 2.32
1558 1972 1.632589 GGGCTGGTGAGAAATTTGGT 58.367 50.000 0.00 0.00 0.00 3.67
1567 1981 2.061028 GAGAAATTTGGTTGCCAAGCG 58.939 47.619 0.00 0.00 44.84 4.68
1681 2146 7.437267 GCTAAATCAATACAGCAGCAATCAAAT 59.563 33.333 0.00 0.00 34.13 2.32
1804 2269 4.964262 AGGAAACAATGGTACCGGTATAGA 59.036 41.667 19.19 5.08 0.00 1.98
1871 2336 2.846193 ACCACGCAACAGAAAGTACAT 58.154 42.857 0.00 0.00 0.00 2.29
1892 2357 0.178861 AGGAGGGGGAGCTCAAGAAA 60.179 55.000 17.19 0.00 0.00 2.52
1893 2358 0.922626 GGAGGGGGAGCTCAAGAAAT 59.077 55.000 17.19 0.00 0.00 2.17
1901 2366 4.339530 GGGGAGCTCAAGAAATTCATTACC 59.660 45.833 17.19 1.58 0.00 2.85
1926 2391 6.045072 AGAACACTAACACGGATAATTCCA 57.955 37.500 0.00 0.00 42.74 3.53
1928 2393 6.538742 AGAACACTAACACGGATAATTCCATG 59.461 38.462 0.00 0.00 42.74 3.66
2025 2495 1.004044 ACTTCTTGCAGGATCCACTGG 59.996 52.381 15.82 1.24 38.90 4.00
2030 2500 2.359169 GCAGGATCCACTGGTCGGA 61.359 63.158 15.82 0.00 38.90 4.55
2071 2541 8.396390 CCATAGATGTCTCATTGAAAAACAGAG 58.604 37.037 0.00 0.00 0.00 3.35
2081 2551 3.476552 TGAAAAACAGAGGTTCATCGCT 58.523 40.909 0.00 0.00 35.82 4.93
2157 2635 2.222445 GGTTGTGTGTAGTTGCTTACGG 59.778 50.000 0.00 0.00 0.00 4.02
2175 2653 6.797033 GCTTACGGTATTATATGCTTTGCTTG 59.203 38.462 0.00 0.00 0.00 4.01
2189 2667 6.671190 TGCTTTGCTTGTATCATGCATATAC 58.329 36.000 0.00 8.81 42.47 1.47
2368 2873 4.458989 TCAACCATGCCACTTAGATGTTTC 59.541 41.667 0.00 0.00 0.00 2.78
2373 2878 1.737793 GCCACTTAGATGTTTCCCACG 59.262 52.381 0.00 0.00 0.00 4.94
2405 2917 3.811083 TGTCTGTCAAATAACGGTTGGT 58.189 40.909 3.07 0.00 0.00 3.67
2520 3032 7.807687 TTATAGTTTAGTTCTCTGTCAACGC 57.192 36.000 0.00 0.00 0.00 4.84
2521 3033 4.054780 AGTTTAGTTCTCTGTCAACGCA 57.945 40.909 0.00 0.00 0.00 5.24
2634 3155 6.543831 AGTTGCCAATCATAGTATGTTTCTCC 59.456 38.462 9.94 0.69 0.00 3.71
2636 3157 5.822519 TGCCAATCATAGTATGTTTCTCCAC 59.177 40.000 9.94 0.00 0.00 4.02
2670 3191 5.390991 GCCAAAACTAGTGCTATCAGTTGAC 60.391 44.000 0.00 0.00 32.96 3.18
2673 3194 5.584253 AACTAGTGCTATCAGTTGACGAT 57.416 39.130 0.00 0.00 31.47 3.73
2753 3283 7.668525 AACAAAGACTAGCATACTTACAACC 57.331 36.000 0.00 0.00 0.00 3.77
2824 3356 5.364446 TCCCTGTAGAACTTTGTGAGTGTTA 59.636 40.000 0.00 0.00 39.00 2.41
3136 5323 1.135139 AGGTATGCTACTGTGCACGAG 59.865 52.381 13.13 12.94 46.33 4.18
3285 5486 5.576384 TGTGAAAGTTTGTTCAACAAGCATC 59.424 36.000 18.16 15.18 41.03 3.91
3333 5535 4.260948 GCCCGTGAATGCAAAATTCAAAAA 60.261 37.500 2.87 0.00 39.43 1.94
3440 6520 7.552687 TGCTCTTATCAACTTCAATACGGAAAT 59.447 33.333 0.00 0.00 0.00 2.17
3760 8434 0.323360 GTGGGCCAGCATACCAGAAA 60.323 55.000 6.40 0.00 34.39 2.52
4183 8931 9.968743 GTTCTGTACTTGTTTATGCTGTAATAC 57.031 33.333 0.00 0.00 0.00 1.89
4187 8935 9.292846 TGTACTTGTTTATGCTGTAATACTACG 57.707 33.333 0.00 0.00 0.00 3.51
4397 9155 8.312669 AGATGGTTAATAGACTATATGCCTCC 57.687 38.462 0.00 0.00 0.00 4.30
4526 9284 7.093992 TGGACAAACTGTTCCTTTTTGTTAAG 58.906 34.615 0.00 0.00 42.19 1.85
4528 9286 6.403049 ACAAACTGTTCCTTTTTGTTAAGGG 58.597 36.000 0.00 0.00 44.01 3.95
4536 9294 5.805728 TCCTTTTTGTTAAGGGCAAAACAA 58.194 33.333 7.05 7.05 42.99 2.83
4581 9339 4.576463 CCCAGACTGCATCAATACTTTACC 59.424 45.833 0.00 0.00 0.00 2.85
4583 9341 4.870426 CAGACTGCATCAATACTTTACCGT 59.130 41.667 0.00 0.00 0.00 4.83
4592 9350 3.620427 ATACTTTACCGTGATGCACCA 57.380 42.857 0.00 0.00 0.00 4.17
4607 9371 1.305802 ACCAGAGATGGTGGCGGTA 60.306 57.895 0.00 0.00 41.33 4.02
4608 9372 1.330655 ACCAGAGATGGTGGCGGTAG 61.331 60.000 0.00 0.00 41.33 3.18
4609 9373 1.227380 CAGAGATGGTGGCGGTAGC 60.227 63.158 0.00 0.00 44.18 3.58
4612 9376 2.203070 GATGGTGGCGGTAGCTGG 60.203 66.667 0.00 0.00 44.37 4.85
4613 9377 3.009115 ATGGTGGCGGTAGCTGGT 61.009 61.111 0.00 0.00 44.37 4.00
4616 9380 4.697756 GTGGCGGTAGCTGGTGCA 62.698 66.667 0.00 0.00 44.37 4.57
4617 9381 3.716195 TGGCGGTAGCTGGTGCAT 61.716 61.111 0.00 0.00 44.37 3.96
4618 9382 3.204827 GGCGGTAGCTGGTGCATG 61.205 66.667 0.00 0.00 44.37 4.06
4619 9383 3.204827 GCGGTAGCTGGTGCATGG 61.205 66.667 0.00 0.00 42.74 3.66
4620 9384 2.268920 CGGTAGCTGGTGCATGGT 59.731 61.111 0.00 0.00 42.74 3.55
4621 9385 1.377202 CGGTAGCTGGTGCATGGTT 60.377 57.895 0.00 0.00 42.74 3.67
4622 9386 0.107897 CGGTAGCTGGTGCATGGTTA 60.108 55.000 0.00 0.00 42.74 2.85
4623 9387 1.668419 GGTAGCTGGTGCATGGTTAG 58.332 55.000 0.00 0.00 42.74 2.34
4624 9388 1.065418 GGTAGCTGGTGCATGGTTAGT 60.065 52.381 0.00 0.00 42.74 2.24
4625 9389 2.009774 GTAGCTGGTGCATGGTTAGTG 58.990 52.381 0.00 0.00 42.74 2.74
4626 9390 0.692476 AGCTGGTGCATGGTTAGTGA 59.308 50.000 0.00 0.00 42.74 3.41
4627 9391 1.089920 GCTGGTGCATGGTTAGTGAG 58.910 55.000 0.00 0.00 39.41 3.51
4628 9392 1.742761 CTGGTGCATGGTTAGTGAGG 58.257 55.000 0.00 0.00 0.00 3.86
4629 9393 0.327924 TGGTGCATGGTTAGTGAGGG 59.672 55.000 0.00 0.00 0.00 4.30
4630 9394 0.328258 GGTGCATGGTTAGTGAGGGT 59.672 55.000 0.00 0.00 0.00 4.34
4631 9395 1.453155 GTGCATGGTTAGTGAGGGTG 58.547 55.000 0.00 0.00 0.00 4.61
4632 9396 0.327924 TGCATGGTTAGTGAGGGTGG 59.672 55.000 0.00 0.00 0.00 4.61
4633 9397 0.618458 GCATGGTTAGTGAGGGTGGA 59.382 55.000 0.00 0.00 0.00 4.02
4678 9442 1.136500 GCGGTAGCCCATATAGCCTAC 59.864 57.143 0.00 0.00 37.42 3.18
4679 9443 2.736347 CGGTAGCCCATATAGCCTACT 58.264 52.381 0.00 0.00 0.00 2.57
4682 9446 3.447944 GGTAGCCCATATAGCCTACTGTC 59.552 52.174 0.00 0.00 0.00 3.51
4688 9452 2.549064 TATAGCCTACTGTCGCCGTA 57.451 50.000 0.00 0.00 0.00 4.02
4704 9468 1.242076 CGTATACCGGTCCGAGGATT 58.758 55.000 12.40 0.00 0.00 3.01
4705 9469 1.068748 CGTATACCGGTCCGAGGATTG 60.069 57.143 12.40 0.00 0.00 2.67
4733 9497 6.825610 TGTGCAAAACTTTCAAATAGGGATT 58.174 32.000 0.00 0.00 0.00 3.01
4750 9514 3.306019 GGGATTCAATCGTGCCAAACTTT 60.306 43.478 0.00 0.00 0.00 2.66
4769 9533 9.592720 CAAACTTTGTTCAAAAGGTTAAAACAG 57.407 29.630 1.07 0.00 35.17 3.16
4815 9584 5.968676 AAAAAGGCTTTTTAGGGAAGGTT 57.031 34.783 30.82 8.10 40.80 3.50
4817 9586 7.440505 AAAAAGGCTTTTTAGGGAAGGTTAA 57.559 32.000 30.82 0.00 40.80 2.01
4819 9588 6.415206 AAGGCTTTTTAGGGAAGGTTAAAC 57.585 37.500 0.00 0.00 0.00 2.01
4820 9589 5.460416 AGGCTTTTTAGGGAAGGTTAAACA 58.540 37.500 0.00 0.00 0.00 2.83
4821 9590 5.538813 AGGCTTTTTAGGGAAGGTTAAACAG 59.461 40.000 0.00 0.00 0.00 3.16
4822 9591 5.303589 GGCTTTTTAGGGAAGGTTAAACAGT 59.696 40.000 0.00 0.00 0.00 3.55
4823 9592 6.183360 GGCTTTTTAGGGAAGGTTAAACAGTT 60.183 38.462 0.00 0.00 0.00 3.16
4824 9593 7.270047 GCTTTTTAGGGAAGGTTAAACAGTTT 58.730 34.615 3.49 3.49 0.00 2.66
4825 9594 7.767198 GCTTTTTAGGGAAGGTTAAACAGTTTT 59.233 33.333 3.25 0.00 0.00 2.43
4826 9595 9.661563 CTTTTTAGGGAAGGTTAAACAGTTTTT 57.338 29.630 3.25 0.00 0.00 1.94
4869 9638 3.947834 CAGTTATTTCGGCCTCTTTGGAT 59.052 43.478 0.00 0.00 38.35 3.41
4925 9694 1.762063 GCCCCCAAATGGTCCATCC 60.762 63.158 4.39 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 0.394352 GTCAAGGTGGGCCATAGTGG 60.394 60.000 10.70 0.00 41.55 4.00
19 20 4.678743 GGTGGGGTCAAGGTGGGC 62.679 72.222 0.00 0.00 0.00 5.36
36 37 5.352569 GGATTGCGAACAGGGATGAATATAG 59.647 44.000 0.00 0.00 0.00 1.31
91 92 1.275421 GCTAGGGGCTGAGGGAACTT 61.275 60.000 0.00 0.00 38.44 2.66
102 103 1.985116 CCGGATAGGAGCTAGGGGC 60.985 68.421 0.00 0.00 45.00 5.80
119 120 0.736672 GGAGAAGGTCGAAGTTCGCC 60.737 60.000 20.42 21.96 40.21 5.54
137 138 3.136123 CACTTCCTGCCATGCCGG 61.136 66.667 0.00 0.00 34.20 6.13
174 175 0.384669 GGTCCTACTCAACGGATCGG 59.615 60.000 0.00 0.00 0.00 4.18
175 176 1.334243 GAGGTCCTACTCAACGGATCG 59.666 57.143 0.00 0.00 35.55 3.69
186 187 0.034059 CGCATGGGATGAGGTCCTAC 59.966 60.000 3.11 0.00 46.91 3.18
222 224 0.683973 CAGAGAGACAAGTGGGCAGT 59.316 55.000 0.00 0.00 0.00 4.40
223 225 0.673022 GCAGAGAGACAAGTGGGCAG 60.673 60.000 0.00 0.00 0.00 4.85
234 236 1.214175 CTCCCAGGACTAGCAGAGAGA 59.786 57.143 0.00 0.00 0.00 3.10
268 270 2.829458 GGAGAGAGTCCGACCCCG 60.829 72.222 0.00 0.00 34.84 5.73
283 285 3.072468 ACGAAGGATTCCCGCGGA 61.072 61.111 30.73 8.21 43.81 5.54
287 289 1.518572 CGGACACGAAGGATTCCCG 60.519 63.158 0.00 0.00 43.81 5.14
294 296 2.677003 ATTTGCGCGGACACGAAGG 61.677 57.895 8.83 0.00 44.60 3.46
300 302 4.083600 GCGTCATTTGCGCGGACA 62.084 61.111 8.83 0.00 45.36 4.02
354 356 3.248446 TAGGGACAAGCGCACCACC 62.248 63.158 11.47 7.71 0.00 4.61
372 374 0.818296 GACTCATAGCCTGACACCGT 59.182 55.000 0.00 0.00 0.00 4.83
379 381 4.800993 CGTTTAACTCTGACTCATAGCCTG 59.199 45.833 0.00 0.00 0.00 4.85
380 382 4.678309 GCGTTTAACTCTGACTCATAGCCT 60.678 45.833 0.00 0.00 0.00 4.58
383 385 5.220303 GCAAGCGTTTAACTCTGACTCATAG 60.220 44.000 0.00 0.00 0.00 2.23
393 395 2.989422 ACCATGCAAGCGTTTAACTC 57.011 45.000 0.00 0.00 0.00 3.01
402 404 1.153842 GGCCGTAAACCATGCAAGC 60.154 57.895 0.00 0.00 0.00 4.01
404 406 1.040646 TTTGGCCGTAAACCATGCAA 58.959 45.000 0.00 0.00 36.96 4.08
405 407 1.040646 TTTTGGCCGTAAACCATGCA 58.959 45.000 0.00 0.00 36.96 3.96
406 408 1.424403 GTTTTGGCCGTAAACCATGC 58.576 50.000 17.97 0.00 36.96 4.06
417 419 3.747976 ATCCGCAGCGTTTTGGCC 61.748 61.111 15.05 0.00 0.00 5.36
467 469 3.275338 GCTATCACAGCCAGCCGC 61.275 66.667 0.00 0.00 45.23 6.53
476 478 2.998097 GGCTGTGGGGCTATCACA 59.002 61.111 8.13 8.13 42.11 3.58
477 479 2.044806 ATCGGCTGTGGGGCTATCAC 62.045 60.000 0.00 0.00 38.46 3.06
478 480 1.766059 ATCGGCTGTGGGGCTATCA 60.766 57.895 0.00 0.00 38.46 2.15
479 481 1.302033 CATCGGCTGTGGGGCTATC 60.302 63.158 0.00 0.00 38.46 2.08
480 482 2.831770 CATCGGCTGTGGGGCTAT 59.168 61.111 0.00 0.00 38.46 2.97
481 483 4.175337 GCATCGGCTGTGGGGCTA 62.175 66.667 0.00 0.00 38.46 3.93
502 505 2.665185 GCGTGTGACTCCGCCTTT 60.665 61.111 8.61 0.00 43.96 3.11
525 528 3.555324 TCACCTGTTGCGGCTCCA 61.555 61.111 0.00 0.00 0.00 3.86
576 579 3.188786 GATGGACGTGCACGAGCC 61.189 66.667 42.94 37.19 43.02 4.70
659 662 0.339859 AGGTAGAGCAGGACATGGGA 59.660 55.000 0.00 0.00 0.00 4.37
702 706 0.821711 CGCCTTTGTTGTTCCCTCCA 60.822 55.000 0.00 0.00 0.00 3.86
717 721 1.028330 TACTTCATCGACGACCGCCT 61.028 55.000 0.00 0.00 38.37 5.52
719 723 0.376152 TCTACTTCATCGACGACCGC 59.624 55.000 0.00 0.00 38.37 5.68
726 730 7.369803 ACGTAAAACTAGTCTACTTCATCGA 57.630 36.000 0.00 0.00 0.00 3.59
729 733 7.149973 TGCAACGTAAAACTAGTCTACTTCAT 58.850 34.615 0.00 0.00 0.00 2.57
730 734 6.506147 TGCAACGTAAAACTAGTCTACTTCA 58.494 36.000 0.00 0.00 0.00 3.02
772 1119 4.401519 AGGAGTGGCTCATTTCAAATCATG 59.598 41.667 0.00 0.00 31.08 3.07
780 1127 1.666189 GCGTAAGGAGTGGCTCATTTC 59.334 52.381 1.44 0.00 35.99 2.17
788 1135 2.225068 ATCGATTGCGTAAGGAGTGG 57.775 50.000 0.00 0.00 40.51 4.00
789 1136 5.462068 TCAAATATCGATTGCGTAAGGAGTG 59.538 40.000 1.71 0.00 40.51 3.51
797 1144 6.021596 GTCAAAACTCAAATATCGATTGCGT 58.978 36.000 1.71 0.00 38.98 5.24
798 1145 5.452302 GGTCAAAACTCAAATATCGATTGCG 59.548 40.000 1.71 0.00 39.35 4.85
799 1146 5.452302 CGGTCAAAACTCAAATATCGATTGC 59.548 40.000 1.71 0.00 0.00 3.56
804 1151 4.390603 TGACCGGTCAAAACTCAAATATCG 59.609 41.667 34.60 0.00 36.53 2.92
816 1166 1.658994 GTGAACAGTGACCGGTCAAA 58.341 50.000 37.75 15.29 41.85 2.69
837 1187 1.226030 CCCCAAAACGTCCGTGAGTC 61.226 60.000 0.00 0.00 0.00 3.36
840 1190 2.592287 GCCCCAAAACGTCCGTGA 60.592 61.111 0.00 0.00 0.00 4.35
844 1194 1.870402 CAAAATTGCCCCAAAACGTCC 59.130 47.619 0.00 0.00 0.00 4.79
845 1195 2.556257 ACAAAATTGCCCCAAAACGTC 58.444 42.857 0.00 0.00 0.00 4.34
846 1196 2.700722 ACAAAATTGCCCCAAAACGT 57.299 40.000 0.00 0.00 0.00 3.99
847 1197 3.496507 CCTAACAAAATTGCCCCAAAACG 59.503 43.478 0.00 0.00 0.00 3.60
848 1198 4.456535 ACCTAACAAAATTGCCCCAAAAC 58.543 39.130 0.00 0.00 0.00 2.43
850 1200 3.071747 GGACCTAACAAAATTGCCCCAAA 59.928 43.478 0.00 0.00 0.00 3.28
854 1204 4.551702 ATTGGACCTAACAAAATTGCCC 57.448 40.909 0.00 0.00 0.00 5.36
856 1206 7.375053 TCTACAATTGGACCTAACAAAATTGC 58.625 34.615 10.83 0.00 40.32 3.56
857 1207 9.927668 AATCTACAATTGGACCTAACAAAATTG 57.072 29.630 10.83 9.88 41.68 2.32
865 1219 6.374333 GCAAGACAATCTACAATTGGACCTAA 59.626 38.462 10.83 0.00 33.56 2.69
898 1264 7.068716 GCTCCCCACTCAAAGTATGAAATATTT 59.931 37.037 0.00 0.00 37.67 1.40
908 1274 0.320374 CACGCTCCCCACTCAAAGTA 59.680 55.000 0.00 0.00 0.00 2.24
1019 1402 6.203808 AGGCGAGGTGGAATAAAAATAAAC 57.796 37.500 0.00 0.00 0.00 2.01
1037 1422 3.760035 GGCAACTCGAGGAGGCGA 61.760 66.667 18.41 0.00 38.74 5.54
1303 1696 1.156322 AGAGGTTCAGGGAGGGAGGA 61.156 60.000 0.00 0.00 0.00 3.71
1322 1731 0.249676 ACCGAGCAGACGACTCTCTA 59.750 55.000 0.00 0.00 35.09 2.43
1483 1897 0.742505 ATCATCGGAGGTAACGCGAA 59.257 50.000 15.93 0.00 46.39 4.70
1485 1899 1.682982 GTATCATCGGAGGTAACGCG 58.317 55.000 3.53 3.53 46.39 6.01
1504 1918 1.258982 GCACTACTGATGCGGAATTCG 59.741 52.381 0.00 0.00 42.76 3.34
1549 1963 0.512518 GCGCTTGGCAACCAAATTTC 59.487 50.000 0.00 0.00 43.44 2.17
1550 1964 0.106521 AGCGCTTGGCAACCAAATTT 59.893 45.000 2.64 0.00 43.44 1.82
1553 1967 2.727544 GAGCGCTTGGCAACCAAA 59.272 55.556 13.26 0.00 43.44 3.28
1567 1981 3.119029 TGAAATTAAGCTTGCATGGGAGC 60.119 43.478 9.86 0.00 39.17 4.70
1645 2062 6.963805 GCTGTATTGATTTAGCTGTCTGAAAC 59.036 38.462 0.00 0.00 33.53 2.78
1681 2146 4.465632 ACATCGCCTTGTATGTTAGTCA 57.534 40.909 0.00 0.00 32.43 3.41
1707 2172 8.716909 GTGTCAATCAAAGACAAAAAGGAAAAA 58.283 29.630 0.00 0.00 46.50 1.94
1708 2173 7.062839 CGTGTCAATCAAAGACAAAAAGGAAAA 59.937 33.333 0.00 0.00 46.50 2.29
1709 2174 6.529829 CGTGTCAATCAAAGACAAAAAGGAAA 59.470 34.615 0.00 0.00 46.50 3.13
1710 2175 6.033341 CGTGTCAATCAAAGACAAAAAGGAA 58.967 36.000 0.00 0.00 46.50 3.36
1711 2176 5.124776 ACGTGTCAATCAAAGACAAAAAGGA 59.875 36.000 0.00 0.00 46.50 3.36
1852 2317 2.805671 TCATGTACTTTCTGTTGCGTGG 59.194 45.455 0.00 0.00 0.00 4.94
1871 2336 1.306482 CTTGAGCTCCCCCTCCTCA 60.306 63.158 12.15 0.00 34.07 3.86
1892 2357 5.575606 CGTGTTAGTGTTCTCGGTAATGAAT 59.424 40.000 0.00 0.00 0.00 2.57
1893 2358 4.919168 CGTGTTAGTGTTCTCGGTAATGAA 59.081 41.667 0.00 0.00 0.00 2.57
1901 2366 5.231568 GGAATTATCCGTGTTAGTGTTCTCG 59.768 44.000 0.00 0.00 35.59 4.04
1926 2391 1.002134 CGGTGCTGGTTCCTTCCAT 60.002 57.895 0.00 0.00 36.84 3.41
1928 2393 2.359975 CCGGTGCTGGTTCCTTCC 60.360 66.667 0.00 0.00 0.00 3.46
1937 2402 1.372087 GCTCATCTTTCCCGGTGCTG 61.372 60.000 0.00 0.00 0.00 4.41
2025 2495 2.548920 GGGATGGATCACATTCTCCGAC 60.549 54.545 0.00 0.00 40.72 4.79
2071 2541 2.030805 ACTTTCAAGCAAGCGATGAACC 60.031 45.455 13.32 0.00 33.13 3.62
2081 2551 1.953686 CCTCCGGAAACTTTCAAGCAA 59.046 47.619 5.23 0.00 0.00 3.91
2130 2600 3.118408 AGCAACTACACACAACCAGAGAA 60.118 43.478 0.00 0.00 0.00 2.87
2157 2635 9.282247 GCATGATACAAGCAAAGCATATAATAC 57.718 33.333 0.00 0.00 0.00 1.89
2175 2653 6.867550 TCTAGCAGGTGTATATGCATGATAC 58.132 40.000 10.16 13.02 45.01 2.24
2189 2667 7.988737 TGAAATAATGTTTGATCTAGCAGGTG 58.011 34.615 0.04 0.00 0.00 4.00
2368 2873 0.666374 GACAACAAAAGGGACGTGGG 59.334 55.000 0.00 0.00 0.00 4.61
2373 2878 4.712122 TTTGACAGACAACAAAAGGGAC 57.288 40.909 0.00 0.00 38.29 4.46
2405 2917 1.135141 GCTTGATGGCGCCAATTACAA 60.135 47.619 36.33 30.14 0.00 2.41
2504 3016 3.428999 GGCTATGCGTTGACAGAGAACTA 60.429 47.826 0.00 0.00 30.28 2.24
2520 3032 6.925610 TTGATAGCACTAGTTTTGGCTATG 57.074 37.500 23.09 0.00 46.43 2.23
2636 3157 3.498397 CACTAGTTTTGGCTACACACTGG 59.502 47.826 0.00 0.00 0.00 4.00
2670 3191 4.970662 ATCATGACCAAAACCAAGATCG 57.029 40.909 0.00 0.00 0.00 3.69
2673 3194 6.069088 AGGGTATATCATGACCAAAACCAAGA 60.069 38.462 0.00 0.00 37.47 3.02
2824 3356 4.684724 TGGATAGTAGGTGTTCTTGAGGT 58.315 43.478 0.00 0.00 0.00 3.85
2914 3454 7.226720 TGGAAAGAACTAAGATGGCGAATATTC 59.773 37.037 5.30 5.30 0.00 1.75
2916 3456 6.591935 TGGAAAGAACTAAGATGGCGAATAT 58.408 36.000 0.00 0.00 0.00 1.28
2918 3458 4.843728 TGGAAAGAACTAAGATGGCGAAT 58.156 39.130 0.00 0.00 0.00 3.34
2919 3459 4.253685 CTGGAAAGAACTAAGATGGCGAA 58.746 43.478 0.00 0.00 0.00 4.70
2920 3460 3.861840 CTGGAAAGAACTAAGATGGCGA 58.138 45.455 0.00 0.00 0.00 5.54
2921 3461 2.352960 GCTGGAAAGAACTAAGATGGCG 59.647 50.000 0.00 0.00 0.00 5.69
2922 3462 2.685388 GGCTGGAAAGAACTAAGATGGC 59.315 50.000 0.00 0.00 0.00 4.40
2923 3463 3.054065 AGGGCTGGAAAGAACTAAGATGG 60.054 47.826 0.00 0.00 0.00 3.51
3285 5486 3.686726 GGAAAGTGCAATAGGACACTCAG 59.313 47.826 0.00 0.00 46.17 3.35
3333 5535 8.143193 TCAATCATGTAACAGCAGACAATTTTT 58.857 29.630 0.00 0.00 0.00 1.94
3434 6514 3.017771 GCCAAGGGCCCAATTTCCG 62.018 63.158 27.56 4.51 44.06 4.30
3658 8329 4.225497 GGCACCAGCATGTAGGTC 57.775 61.111 8.07 4.60 44.61 3.85
3760 8434 1.674651 TAGCTCTGGTGCGTCGAGT 60.675 57.895 0.00 0.00 38.13 4.18
4040 8725 3.827302 TCTAGTGGTCTCCTCAGTGAAAC 59.173 47.826 0.00 0.00 0.00 2.78
4128 8813 6.974622 CCACTAAAATACTGCATTCATTCACC 59.025 38.462 0.00 0.00 0.00 4.02
4197 8945 3.922171 TTGTTGGGCAAAAAGGAATGT 57.078 38.095 0.00 0.00 33.53 2.71
4341 9099 7.715265 ATTTATGCACTAACATTCGGAGTAG 57.285 36.000 0.00 0.00 0.00 2.57
4345 9103 9.729023 CATTTTATTTATGCACTAACATTCGGA 57.271 29.630 0.00 0.00 0.00 4.55
4346 9104 9.729023 TCATTTTATTTATGCACTAACATTCGG 57.271 29.630 0.00 0.00 0.00 4.30
4397 9155 4.689612 ACATGTATGGTGCCTAGGTTAG 57.310 45.455 11.31 0.00 0.00 2.34
4498 9256 6.203915 AACAAAAAGGAACAGTTTGTCCAAAC 59.796 34.615 13.66 13.66 43.44 2.93
4554 9312 2.592102 ATTGATGCAGTCTGGGTGTT 57.408 45.000 1.14 0.00 0.00 3.32
4581 9339 2.686602 CCATCTCTGGTGCATCACG 58.313 57.895 0.00 0.00 37.79 4.35
4592 9350 1.381872 AGCTACCGCCACCATCTCT 60.382 57.895 0.00 0.00 36.60 3.10
4607 9371 0.692476 TCACTAACCATGCACCAGCT 59.308 50.000 0.00 0.00 42.74 4.24
4608 9372 1.089920 CTCACTAACCATGCACCAGC 58.910 55.000 0.00 0.00 42.57 4.85
4609 9373 1.679944 CCCTCACTAACCATGCACCAG 60.680 57.143 0.00 0.00 0.00 4.00
4612 9376 1.453155 CACCCTCACTAACCATGCAC 58.547 55.000 0.00 0.00 0.00 4.57
4613 9377 0.327924 CCACCCTCACTAACCATGCA 59.672 55.000 0.00 0.00 0.00 3.96
4615 9379 1.065418 GGTCCACCCTCACTAACCATG 60.065 57.143 0.00 0.00 0.00 3.66
4616 9380 1.203440 AGGTCCACCCTCACTAACCAT 60.203 52.381 0.00 0.00 40.71 3.55
4617 9381 0.192566 AGGTCCACCCTCACTAACCA 59.807 55.000 0.00 0.00 40.71 3.67
4618 9382 2.242882 TAGGTCCACCCTCACTAACC 57.757 55.000 0.00 0.00 44.81 2.85
4619 9383 2.158943 GCATAGGTCCACCCTCACTAAC 60.159 54.545 0.00 0.00 44.81 2.34
4620 9384 2.116238 GCATAGGTCCACCCTCACTAA 58.884 52.381 0.00 0.00 44.81 2.24
4621 9385 1.291033 AGCATAGGTCCACCCTCACTA 59.709 52.381 0.00 0.00 44.81 2.74
4622 9386 0.043334 AGCATAGGTCCACCCTCACT 59.957 55.000 0.00 0.00 44.81 3.41
4623 9387 1.413077 GTAGCATAGGTCCACCCTCAC 59.587 57.143 0.00 0.00 44.81 3.51
4624 9388 1.691482 GGTAGCATAGGTCCACCCTCA 60.691 57.143 0.00 0.00 44.81 3.86
4625 9389 1.049402 GGTAGCATAGGTCCACCCTC 58.951 60.000 0.00 0.00 44.81 4.30
4627 9391 1.746517 CGGTAGCATAGGTCCACCC 59.253 63.158 0.00 0.00 36.42 4.61
4628 9392 1.069258 GCGGTAGCATAGGTCCACC 59.931 63.158 0.00 0.00 44.35 4.61
4629 9393 4.752514 GCGGTAGCATAGGTCCAC 57.247 61.111 0.00 0.00 44.35 4.02
4688 9452 0.105862 TCCAATCCTCGGACCGGTAT 60.106 55.000 15.25 2.31 0.00 2.73
4704 9468 6.705381 CCTATTTGAAAGTTTTGCACAATCCA 59.295 34.615 0.00 0.00 0.00 3.41
4705 9469 6.147656 CCCTATTTGAAAGTTTTGCACAATCC 59.852 38.462 0.00 0.00 0.00 3.01
4733 9497 3.129462 TGAACAAAGTTTGGCACGATTGA 59.871 39.130 19.45 0.00 33.59 2.57
4796 9565 5.900699 TGTTTAACCTTCCCTAAAAAGCCTT 59.099 36.000 0.00 0.00 0.00 4.35
4799 9568 6.401047 ACTGTTTAACCTTCCCTAAAAAGC 57.599 37.500 0.00 0.00 28.98 3.51
4800 9569 9.661563 AAAAACTGTTTAACCTTCCCTAAAAAG 57.338 29.630 6.16 0.00 31.32 2.27
4824 9593 8.949177 ACTGTTTAACCTTCTCGTTTCTAAAAA 58.051 29.630 0.00 0.00 0.00 1.94
4825 9594 8.496707 ACTGTTTAACCTTCTCGTTTCTAAAA 57.503 30.769 0.00 0.00 0.00 1.52
4826 9595 8.496707 AACTGTTTAACCTTCTCGTTTCTAAA 57.503 30.769 0.00 0.00 0.00 1.85
4827 9596 9.768662 ATAACTGTTTAACCTTCTCGTTTCTAA 57.231 29.630 0.00 0.00 0.00 2.10
4828 9597 9.768662 AATAACTGTTTAACCTTCTCGTTTCTA 57.231 29.630 0.00 0.00 0.00 2.10
4829 9598 8.672823 AATAACTGTTTAACCTTCTCGTTTCT 57.327 30.769 0.00 0.00 0.00 2.52
4830 9599 9.378597 GAAATAACTGTTTAACCTTCTCGTTTC 57.621 33.333 0.00 0.00 0.00 2.78
4831 9600 8.066000 CGAAATAACTGTTTAACCTTCTCGTTT 58.934 33.333 0.00 0.00 0.00 3.60
4832 9601 7.307573 CCGAAATAACTGTTTAACCTTCTCGTT 60.308 37.037 0.00 0.00 0.00 3.85
4833 9602 6.146673 CCGAAATAACTGTTTAACCTTCTCGT 59.853 38.462 0.00 0.00 0.00 4.18
4834 9603 6.531439 CCGAAATAACTGTTTAACCTTCTCG 58.469 40.000 0.00 0.00 0.00 4.04
4835 9604 6.312487 GCCGAAATAACTGTTTAACCTTCTC 58.688 40.000 0.00 0.00 0.00 2.87
4836 9605 5.182570 GGCCGAAATAACTGTTTAACCTTCT 59.817 40.000 0.00 0.00 0.00 2.85
4837 9606 5.182570 AGGCCGAAATAACTGTTTAACCTTC 59.817 40.000 0.00 0.00 0.00 3.46
4838 9607 5.074804 AGGCCGAAATAACTGTTTAACCTT 58.925 37.500 0.00 0.00 0.00 3.50
4839 9608 4.659115 AGGCCGAAATAACTGTTTAACCT 58.341 39.130 0.00 0.00 0.00 3.50
4840 9609 4.698780 AGAGGCCGAAATAACTGTTTAACC 59.301 41.667 0.00 0.00 0.00 2.85
4841 9610 5.874895 AGAGGCCGAAATAACTGTTTAAC 57.125 39.130 0.00 0.00 0.00 2.01
4842 9611 6.294286 CCAAAGAGGCCGAAATAACTGTTTAA 60.294 38.462 0.00 0.00 0.00 1.52
4843 9612 5.182380 CCAAAGAGGCCGAAATAACTGTTTA 59.818 40.000 0.00 0.00 0.00 2.01
4869 9638 4.697756 GCAGGTGCAGCCCGTACA 62.698 66.667 13.29 0.00 41.59 2.90
4925 9694 4.326504 AATGCCCAGTTTTCTTTCACTG 57.673 40.909 0.00 0.00 40.23 3.66


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

AutoCloner maintained by Alex Coulton.