Multiple sequence alignment - TraesCS6D01G016300

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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 TraesCS6D01G016300 chr6D 100.000 5247 0 0 1 5247 6575607 6570361 0.000000e+00 9690.0
1 TraesCS6D01G016300 chr6A 90.155 4195 230 73 204 4281 6189113 6193241 0.000000e+00 5289.0
2 TraesCS6D01G016300 chr6A 90.798 326 8 7 4277 4596 6196057 6196366 2.920000e-112 416.0
3 TraesCS6D01G016300 chr6A 87.313 268 21 8 4779 5033 6196585 6196852 1.430000e-75 294.0
4 TraesCS6D01G016300 chr6A 90.291 103 8 2 4613 4713 448652176 448652074 3.300000e-27 134.0
5 TraesCS6D01G016300 chr6A 96.721 61 2 0 5187 5247 6197354 6197414 9.300000e-18 102.0
6 TraesCS6D01G016300 chr6B 90.675 2016 71 55 2417 4367 12117621 12115658 0.000000e+00 2573.0
7 TraesCS6D01G016300 chr6B 89.304 2113 113 53 319 2373 12119682 12117625 0.000000e+00 2545.0
8 TraesCS6D01G016300 chr6B 90.149 538 39 9 4714 5247 12115587 12115060 0.000000e+00 688.0
9 TraesCS6D01G016300 chr6B 91.071 112 10 0 3 114 12120048 12119937 9.100000e-33 152.0
10 TraesCS6D01G016300 chr6B 93.204 103 4 3 112 213 12119834 12119734 1.180000e-31 148.0
11 TraesCS6D01G016300 chr6B 100.000 29 0 0 232 260 12119729 12119701 3.000000e-03 54.7
12 TraesCS6D01G016300 chr1D 85.265 604 42 20 3493 4056 342121197 342120601 3.520000e-161 579.0
13 TraesCS6D01G016300 chr1D 92.727 55 0 4 2544 2598 342121719 342121669 5.630000e-10 76.8
14 TraesCS6D01G016300 chr1B 83.223 453 55 11 3496 3930 457954775 457954326 3.810000e-106 396.0
15 TraesCS6D01G016300 chr1B 92.727 55 0 4 2544 2598 458005519 458005469 5.630000e-10 76.8
16 TraesCS6D01G016300 chr1A 83.473 357 41 10 3549 3887 441794158 441793802 3.050000e-82 316.0
17 TraesCS6D01G016300 chr1A 77.818 275 54 5 3456 3728 317813383 317813652 4.200000e-36 163.0
18 TraesCS6D01G016300 chr1A 90.909 55 1 4 2544 2598 441797333 441797283 2.620000e-08 71.3
19 TraesCS6D01G016300 chrUn 80.645 279 45 7 3453 3728 28396954 28397226 1.920000e-49 207.0
20 TraesCS6D01G016300 chr5A 80.287 279 46 7 3453 3728 708807359 708807087 8.910000e-48 202.0
21 TraesCS6D01G016300 chr5A 92.308 104 6 2 4613 4714 670102644 670102747 4.230000e-31 147.0
22 TraesCS6D01G016300 chr4B 80.287 279 46 7 3453 3728 671632082 671631810 8.910000e-48 202.0
23 TraesCS6D01G016300 chr4B 91.346 104 7 2 4613 4714 483095542 483095645 1.970000e-29 141.0
24 TraesCS6D01G016300 chr2D 94.175 103 4 2 4613 4713 549605279 549605177 7.040000e-34 156.0
25 TraesCS6D01G016300 chr2D 94.175 103 4 2 4613 4713 550066689 550066587 7.040000e-34 156.0
26 TraesCS6D01G016300 chr2D 92.233 103 6 2 4613 4713 306338971 306338869 1.520000e-30 145.0
27 TraesCS6D01G016300 chr7D 92.233 103 6 2 4613 4713 45145877 45145775 1.520000e-30 145.0
28 TraesCS6D01G016300 chr3B 89.091 110 10 2 4613 4720 465094518 465094409 9.170000e-28 135.0
29 TraesCS6D01G016300 chr5B 90.291 103 8 2 4613 4713 610350174 610350072 3.300000e-27 134.0
30 TraesCS6D01G016300 chr7B 97.436 39 1 0 4583 4621 734383315 734383353 3.390000e-07 67.6
31 TraesCS6D01G016300 chr7A 94.737 38 1 1 4585 4621 27519536 27519573 2.040000e-04 58.4


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 TraesCS6D01G016300 chr6D 6570361 6575607 5246 True 9690.000000 9690 100.00000 1 5247 1 chr6D.!!$R1 5246
1 TraesCS6D01G016300 chr6A 6189113 6197414 8301 False 1525.250000 5289 91.24675 204 5247 4 chr6A.!!$F1 5043
2 TraesCS6D01G016300 chr6B 12115060 12120048 4988 True 1026.783333 2573 92.40050 3 5247 6 chr6B.!!$R1 5244
3 TraesCS6D01G016300 chr1D 342120601 342121719 1118 True 327.900000 579 88.99600 2544 4056 2 chr1D.!!$R1 1512

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
942 1090 0.190815 AATGGAAACCAACCCTGCCT 59.809 50.000 0.00 0.0 36.95 4.75 F
2278 2490 0.033920 TGATGCCGATGATTCCTCCG 59.966 55.000 0.00 0.0 0.00 4.63 F
2290 2511 0.106419 TTCCTCCGCCCAACTTTTGT 60.106 50.000 0.00 0.0 0.00 2.83 F
2800 3049 1.227674 CATCTACAAGCCGGGGAGC 60.228 63.158 2.18 0.0 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2680 2926 2.076863 CCGGCCTTCTTGAAGTAGTTG 58.923 52.381 0.0 0.0 0.00 3.16 R
4130 4609 1.003355 CAAGCTGCGGGAAGAGGAA 60.003 57.895 0.0 0.0 0.00 3.36 R
4140 4619 1.128692 GTAGGCTAACAACAAGCTGCG 59.871 52.381 0.0 0.0 39.97 5.18 R
4336 7670 0.033504 ACCATCACACGTCCTCACAC 59.966 55.000 0.0 0.0 0.00 3.82 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
44 45 4.754667 GAGGACCGGCGAACCACC 62.755 72.222 9.30 4.03 34.57 4.61
157 263 8.731591 AATGATCCCCTTAAATTTATCTGCAT 57.268 30.769 0.00 0.00 0.00 3.96
266 372 1.168714 GGAGCTCGTCCTTTTGCATT 58.831 50.000 7.83 0.00 42.99 3.56
267 373 2.356135 GGAGCTCGTCCTTTTGCATTA 58.644 47.619 7.83 0.00 42.99 1.90
272 378 6.426937 GGAGCTCGTCCTTTTGCATTATATAA 59.573 38.462 7.83 0.00 42.99 0.98
362 468 1.593265 CACAAGGGGAAAGCCATGC 59.407 57.895 0.00 0.00 35.15 4.06
413 522 0.923358 CCCAATACCTAGCAACCCCA 59.077 55.000 0.00 0.00 0.00 4.96
415 524 2.375146 CCAATACCTAGCAACCCCAAC 58.625 52.381 0.00 0.00 0.00 3.77
427 536 1.227823 CCCCAACTTCACTGCGACA 60.228 57.895 0.00 0.00 0.00 4.35
480 602 1.273327 GCCACCTCAAATGGGTTTCAG 59.727 52.381 0.00 0.00 37.73 3.02
505 627 4.449131 CTCAAGGCAGCTATGATTTCAGA 58.551 43.478 0.00 0.00 0.00 3.27
518 640 3.251245 TGATTTCAGAAAAGCGGCGTTAA 59.749 39.130 9.37 0.00 33.44 2.01
520 642 3.907894 TTCAGAAAAGCGGCGTTAATT 57.092 38.095 9.37 1.03 0.00 1.40
530 652 3.064207 GCGGCGTTAATTCCATATGAGA 58.936 45.455 9.37 0.00 0.00 3.27
535 657 4.213482 GCGTTAATTCCATATGAGACACCC 59.787 45.833 3.65 0.00 0.00 4.61
578 700 2.087646 TGTGTAGCACAGCACAACAAA 58.912 42.857 0.00 0.00 41.89 2.83
581 703 1.403679 GTAGCACAGCACAACAAACCA 59.596 47.619 0.00 0.00 0.00 3.67
582 704 0.894141 AGCACAGCACAACAAACCAA 59.106 45.000 0.00 0.00 0.00 3.67
634 756 1.398390 GTTTCCATAGCAACGCCTCTG 59.602 52.381 0.00 0.00 0.00 3.35
645 768 3.119708 GCAACGCCTCTGATGAGAAAAAT 60.120 43.478 0.00 0.00 42.73 1.82
647 770 5.220931 GCAACGCCTCTGATGAGAAAAATAT 60.221 40.000 0.00 0.00 42.73 1.28
649 772 7.348201 CAACGCCTCTGATGAGAAAAATATAC 58.652 38.462 0.00 0.00 42.73 1.47
663 786 8.066612 AGAAAAATATACAACTTGACCATGGG 57.933 34.615 18.09 0.00 0.00 4.00
669 792 2.290323 ACAACTTGACCATGGGCTCTAC 60.290 50.000 21.02 1.95 0.00 2.59
684 807 3.516700 GGCTCTACCCTTTGTACCTTGTA 59.483 47.826 0.00 0.00 0.00 2.41
687 810 5.156608 TCTACCCTTTGTACCTTGTAAGC 57.843 43.478 0.00 0.00 0.00 3.09
692 815 4.261447 CCCTTTGTACCTTGTAAGCACAAC 60.261 45.833 8.58 0.00 39.75 3.32
724 847 7.335673 TCAAACACATCCGCAAAGATAGATAAA 59.664 33.333 0.00 0.00 0.00 1.40
727 850 6.823689 ACACATCCGCAAAGATAGATAAACTT 59.176 34.615 0.00 0.00 0.00 2.66
819 948 1.539827 CATTCAAACCGGGACAAGGAC 59.460 52.381 6.32 0.00 0.00 3.85
888 1033 2.677914 CAAGGACCCCTTTCCAAAACT 58.322 47.619 0.00 0.00 41.69 2.66
910 1055 2.493278 GCCCAAAAGATAAAGCTGAGCA 59.507 45.455 7.39 0.00 0.00 4.26
934 1079 4.450053 CCAAGAAGCAAAATGGAAACCAA 58.550 39.130 0.00 0.00 36.95 3.67
942 1090 0.190815 AATGGAAACCAACCCTGCCT 59.809 50.000 0.00 0.00 36.95 4.75
947 1095 2.603933 AAACCAACCCTGCCTTGCCT 62.604 55.000 0.00 0.00 0.00 4.75
948 1096 2.993264 CCAACCCTGCCTTGCCTG 60.993 66.667 0.00 0.00 0.00 4.85
949 1097 3.688159 CAACCCTGCCTTGCCTGC 61.688 66.667 0.00 0.00 0.00 4.85
1001 1152 1.893801 CACTCCGGGTAGTCCATATCC 59.106 57.143 0.00 0.00 34.36 2.59
1002 1153 1.787676 ACTCCGGGTAGTCCATATCCT 59.212 52.381 0.00 0.00 31.67 3.24
1003 1154 2.225066 ACTCCGGGTAGTCCATATCCTC 60.225 54.545 0.00 0.00 31.67 3.71
1004 1155 2.041891 CTCCGGGTAGTCCATATCCTCT 59.958 54.545 0.00 0.00 31.67 3.69
1011 1162 5.458362 GGGTAGTCCATATCCTCTCTCTTCA 60.458 48.000 0.00 0.00 31.10 3.02
1024 1175 2.166664 CTCTCTTCAACCTTACCCTCGG 59.833 54.545 0.00 0.00 0.00 4.63
1034 1185 1.210967 CTTACCCTCGGCCACCAAATA 59.789 52.381 2.24 0.00 0.00 1.40
1035 1186 1.287217 TACCCTCGGCCACCAAATAA 58.713 50.000 2.24 0.00 0.00 1.40
1092 1243 0.682855 GTTCCCCAATCATGCGGGAA 60.683 55.000 14.40 14.59 46.34 3.97
1155 1320 2.108970 GTAGTTACTGGGAGTGGGGAG 58.891 57.143 0.00 0.00 0.00 4.30
1156 1321 0.492276 AGTTACTGGGAGTGGGGAGT 59.508 55.000 0.00 0.00 0.00 3.85
1157 1322 0.613777 GTTACTGGGAGTGGGGAGTG 59.386 60.000 0.00 0.00 0.00 3.51
1158 1323 0.546747 TTACTGGGAGTGGGGAGTGG 60.547 60.000 0.00 0.00 0.00 4.00
1159 1324 2.471084 TACTGGGAGTGGGGAGTGGG 62.471 65.000 0.00 0.00 0.00 4.61
1160 1325 4.675303 TGGGAGTGGGGAGTGGGG 62.675 72.222 0.00 0.00 0.00 4.96
1161 1326 4.348495 GGGAGTGGGGAGTGGGGA 62.348 72.222 0.00 0.00 0.00 4.81
1162 1327 2.689034 GGAGTGGGGAGTGGGGAG 60.689 72.222 0.00 0.00 0.00 4.30
1163 1328 2.122954 GAGTGGGGAGTGGGGAGT 59.877 66.667 0.00 0.00 0.00 3.85
1164 1329 2.203998 AGTGGGGAGTGGGGAGTG 60.204 66.667 0.00 0.00 0.00 3.51
1165 1330 3.330720 GTGGGGAGTGGGGAGTGG 61.331 72.222 0.00 0.00 0.00 4.00
1166 1331 3.537506 TGGGGAGTGGGGAGTGGA 61.538 66.667 0.00 0.00 0.00 4.02
1167 1332 3.009714 GGGGAGTGGGGAGTGGAC 61.010 72.222 0.00 0.00 0.00 4.02
1168 1333 2.122954 GGGAGTGGGGAGTGGACT 59.877 66.667 0.00 0.00 0.00 3.85
1521 1694 1.571460 GTTCACGCAGCAGTTCCTG 59.429 57.895 0.00 0.00 35.93 3.86
1611 1784 2.485582 CAGCAGCAGCAGCATCAC 59.514 61.111 12.92 0.00 45.49 3.06
1612 1785 2.033602 AGCAGCAGCAGCATCACA 59.966 55.556 12.92 0.00 45.49 3.58
1616 1789 2.181021 GCAGCAGCATCACAAGCC 59.819 61.111 0.00 0.00 41.58 4.35
2113 2325 3.622060 ATGGCGGACACGGAAAGGG 62.622 63.158 0.00 0.00 41.36 3.95
2278 2490 0.033920 TGATGCCGATGATTCCTCCG 59.966 55.000 0.00 0.00 0.00 4.63
2290 2511 0.106419 TTCCTCCGCCCAACTTTTGT 60.106 50.000 0.00 0.00 0.00 2.83
2392 2625 3.844577 GCAGATGAGATGCAGTGTTTT 57.155 42.857 0.00 0.00 43.31 2.43
2407 2640 4.511454 CAGTGTTTTCTGCTACTAGTTGCA 59.489 41.667 26.56 26.56 38.87 4.08
2431 2665 1.630223 TGCTCCAAATTGTGCCATGA 58.370 45.000 0.00 0.00 0.00 3.07
2438 2672 2.927477 CAAATTGTGCCATGACAGATGC 59.073 45.455 0.00 0.00 0.00 3.91
2472 2706 7.201635 GCTTGAATTGTTCCAATTTCTTGTTGT 60.202 33.333 3.90 0.00 0.00 3.32
2476 2710 9.276397 GAATTGTTCCAATTTCTTGTTGTTTTG 57.724 29.630 3.90 0.00 0.00 2.44
2520 2754 4.448732 GGTTTGGTTTGTTCATCATTGCTC 59.551 41.667 0.00 0.00 0.00 4.26
2522 2756 5.471556 TTGGTTTGTTCATCATTGCTCAT 57.528 34.783 0.00 0.00 0.00 2.90
2799 3048 1.447643 CCATCTACAAGCCGGGGAG 59.552 63.158 2.18 0.00 0.00 4.30
2800 3049 1.227674 CATCTACAAGCCGGGGAGC 60.228 63.158 2.18 0.00 0.00 4.70
2801 3050 2.797278 ATCTACAAGCCGGGGAGCG 61.797 63.158 2.18 0.00 38.01 5.03
2802 3051 4.530857 CTACAAGCCGGGGAGCGG 62.531 72.222 2.18 0.00 38.01 5.52
3806 4264 2.480610 AACGCCAATGCCATAGCCG 61.481 57.895 0.00 0.00 38.69 5.52
3889 4347 3.315949 GACACCCACTACGGCCCA 61.316 66.667 0.00 0.00 0.00 5.36
3934 4401 3.736100 CGTGGCGGCAATGCAGAA 61.736 61.111 15.50 0.00 36.28 3.02
4130 4609 4.058124 GCCGGAGAAAATTTGCTTCTTTT 58.942 39.130 5.05 0.00 33.24 2.27
4132 4611 5.333339 GCCGGAGAAAATTTGCTTCTTTTTC 60.333 40.000 5.05 0.00 38.84 2.29
4135 4614 6.144563 CGGAGAAAATTTGCTTCTTTTTCCTC 59.855 38.462 0.00 0.00 39.18 3.71
4136 4615 7.212976 GGAGAAAATTTGCTTCTTTTTCCTCT 58.787 34.615 0.00 0.00 39.18 3.69
4138 4617 8.654230 AGAAAATTTGCTTCTTTTTCCTCTTC 57.346 30.769 0.00 0.00 39.18 2.87
4140 4619 4.937201 TTTGCTTCTTTTTCCTCTTCCC 57.063 40.909 0.00 0.00 0.00 3.97
4141 4620 2.504367 TGCTTCTTTTTCCTCTTCCCG 58.496 47.619 0.00 0.00 0.00 5.14
4142 4621 1.200252 GCTTCTTTTTCCTCTTCCCGC 59.800 52.381 0.00 0.00 0.00 6.13
4143 4622 2.504367 CTTCTTTTTCCTCTTCCCGCA 58.496 47.619 0.00 0.00 0.00 5.69
4307 7635 1.964373 GTTTGTCGACCATGGCCGT 60.964 57.895 20.40 0.00 0.00 5.68
4317 7651 4.273969 TCGACCATGGCCGTTTATATTTTC 59.726 41.667 20.40 0.21 0.00 2.29
4339 7673 9.930693 TTTTCCTGTTATTTTTGTAACAAGTGT 57.069 25.926 1.75 0.00 42.25 3.55
4340 7674 8.918961 TTCCTGTTATTTTTGTAACAAGTGTG 57.081 30.769 1.75 0.00 42.25 3.82
4341 7675 8.282455 TCCTGTTATTTTTGTAACAAGTGTGA 57.718 30.769 1.75 0.00 42.25 3.58
4342 7676 8.402472 TCCTGTTATTTTTGTAACAAGTGTGAG 58.598 33.333 1.75 0.00 42.25 3.51
4343 7677 7.647715 CCTGTTATTTTTGTAACAAGTGTGAGG 59.352 37.037 1.75 0.00 42.25 3.86
4344 7678 8.282455 TGTTATTTTTGTAACAAGTGTGAGGA 57.718 30.769 0.00 0.00 40.53 3.71
4345 7679 8.185505 TGTTATTTTTGTAACAAGTGTGAGGAC 58.814 33.333 0.00 0.00 40.53 3.85
4386 7730 1.079197 CAGTGTCGGCAGGTGCATA 60.079 57.895 4.01 0.00 44.36 3.14
4425 7769 0.542467 TACCTTGTACGGCCACAGGA 60.542 55.000 2.24 0.00 0.00 3.86
4578 7926 4.469227 ACTCAAATCTCACTGTGATAGCCT 59.531 41.667 11.45 0.00 0.00 4.58
4579 7927 5.658634 ACTCAAATCTCACTGTGATAGCCTA 59.341 40.000 11.45 0.00 0.00 3.93
4580 7928 6.154203 TCAAATCTCACTGTGATAGCCTAG 57.846 41.667 11.45 0.00 0.00 3.02
4581 7929 4.599047 AATCTCACTGTGATAGCCTAGC 57.401 45.455 11.45 0.00 0.00 3.42
4582 7930 3.018423 TCTCACTGTGATAGCCTAGCA 57.982 47.619 11.45 0.00 0.00 3.49
4584 7932 3.963374 TCTCACTGTGATAGCCTAGCAAT 59.037 43.478 11.45 0.00 0.00 3.56
4587 7935 6.268617 TCTCACTGTGATAGCCTAGCAATTAT 59.731 38.462 11.45 0.00 0.00 1.28
4588 7936 6.226052 TCACTGTGATAGCCTAGCAATTATG 58.774 40.000 6.36 0.00 0.00 1.90
4589 7937 5.410746 CACTGTGATAGCCTAGCAATTATGG 59.589 44.000 0.32 0.00 0.00 2.74
4590 7938 5.072329 ACTGTGATAGCCTAGCAATTATGGT 59.928 40.000 0.00 0.00 41.03 3.55
4591 7939 5.308014 TGTGATAGCCTAGCAATTATGGTG 58.692 41.667 0.00 0.00 37.91 4.17
4592 7940 4.697352 GTGATAGCCTAGCAATTATGGTGG 59.303 45.833 0.00 0.00 37.91 4.61
4593 7941 4.350816 TGATAGCCTAGCAATTATGGTGGT 59.649 41.667 0.00 0.00 37.91 4.16
4594 7942 2.936202 AGCCTAGCAATTATGGTGGTG 58.064 47.619 0.00 0.00 37.91 4.17
4595 7943 2.242196 AGCCTAGCAATTATGGTGGTGT 59.758 45.455 0.00 0.00 37.91 4.16
4596 7944 3.023832 GCCTAGCAATTATGGTGGTGTT 58.976 45.455 0.00 0.00 37.91 3.32
4597 7945 3.066760 GCCTAGCAATTATGGTGGTGTTC 59.933 47.826 0.00 0.00 37.91 3.18
4598 7946 3.312421 CCTAGCAATTATGGTGGTGTTCG 59.688 47.826 0.00 0.00 37.91 3.95
4599 7947 2.091541 AGCAATTATGGTGGTGTTCGG 58.908 47.619 0.00 0.00 35.55 4.30
4600 7948 1.816224 GCAATTATGGTGGTGTTCGGT 59.184 47.619 0.00 0.00 0.00 4.69
4601 7949 2.230266 GCAATTATGGTGGTGTTCGGTT 59.770 45.455 0.00 0.00 0.00 4.44
4602 7950 3.672241 GCAATTATGGTGGTGTTCGGTTC 60.672 47.826 0.00 0.00 0.00 3.62
4603 7951 3.713826 ATTATGGTGGTGTTCGGTTCT 57.286 42.857 0.00 0.00 0.00 3.01
4604 7952 2.754946 TATGGTGGTGTTCGGTTCTC 57.245 50.000 0.00 0.00 0.00 2.87
4605 7953 1.056660 ATGGTGGTGTTCGGTTCTCT 58.943 50.000 0.00 0.00 0.00 3.10
4606 7954 1.707106 TGGTGGTGTTCGGTTCTCTA 58.293 50.000 0.00 0.00 0.00 2.43
4607 7955 1.616865 TGGTGGTGTTCGGTTCTCTAG 59.383 52.381 0.00 0.00 0.00 2.43
4608 7956 1.617357 GGTGGTGTTCGGTTCTCTAGT 59.383 52.381 0.00 0.00 0.00 2.57
4609 7957 2.352519 GGTGGTGTTCGGTTCTCTAGTC 60.353 54.545 0.00 0.00 0.00 2.59
4610 7958 1.891150 TGGTGTTCGGTTCTCTAGTCC 59.109 52.381 0.00 0.00 0.00 3.85
4611 7959 2.169330 GGTGTTCGGTTCTCTAGTCCT 58.831 52.381 0.00 0.00 0.00 3.85
4612 7960 3.245016 TGGTGTTCGGTTCTCTAGTCCTA 60.245 47.826 0.00 0.00 0.00 2.94
4613 7961 3.377798 GGTGTTCGGTTCTCTAGTCCTAG 59.622 52.174 0.00 0.00 34.56 3.02
4614 7962 3.377798 GTGTTCGGTTCTCTAGTCCTAGG 59.622 52.174 0.82 0.82 34.06 3.02
4615 7963 3.265221 TGTTCGGTTCTCTAGTCCTAGGA 59.735 47.826 7.62 7.62 34.06 2.94
4616 7964 3.557228 TCGGTTCTCTAGTCCTAGGAC 57.443 52.381 31.29 31.29 44.86 3.85
4660 8008 4.293610 CCCCCTGTTTGGTTTGCT 57.706 55.556 0.00 0.00 0.00 3.91
4661 8009 3.448469 CCCCCTGTTTGGTTTGCTA 57.552 52.632 0.00 0.00 0.00 3.49
4662 8010 1.256812 CCCCCTGTTTGGTTTGCTAG 58.743 55.000 0.00 0.00 0.00 3.42
4663 8011 1.256812 CCCCTGTTTGGTTTGCTAGG 58.743 55.000 0.00 0.00 0.00 3.02
4664 8012 1.203001 CCCCTGTTTGGTTTGCTAGGA 60.203 52.381 0.00 0.00 0.00 2.94
4665 8013 2.593026 CCCTGTTTGGTTTGCTAGGAA 58.407 47.619 0.00 0.00 0.00 3.36
4666 8014 3.165071 CCCTGTTTGGTTTGCTAGGAAT 58.835 45.455 0.00 0.00 0.00 3.01
4667 8015 3.578282 CCCTGTTTGGTTTGCTAGGAATT 59.422 43.478 0.00 0.00 0.00 2.17
4668 8016 4.040339 CCCTGTTTGGTTTGCTAGGAATTT 59.960 41.667 0.00 0.00 0.00 1.82
4669 8017 5.454613 CCCTGTTTGGTTTGCTAGGAATTTT 60.455 40.000 0.00 0.00 0.00 1.82
4670 8018 6.054941 CCTGTTTGGTTTGCTAGGAATTTTT 58.945 36.000 0.00 0.00 0.00 1.94
4707 8055 4.400529 AAAAGTCCATGGAACCAAACAC 57.599 40.909 18.20 1.36 0.00 3.32
4708 8056 1.995376 AGTCCATGGAACCAAACACC 58.005 50.000 18.20 0.00 0.00 4.16
4709 8057 0.966179 GTCCATGGAACCAAACACCC 59.034 55.000 18.20 0.00 0.00 4.61
4710 8058 0.178947 TCCATGGAACCAAACACCCC 60.179 55.000 13.46 0.00 0.00 4.95
4711 8059 1.191489 CCATGGAACCAAACACCCCC 61.191 60.000 5.56 0.00 0.00 5.40
4712 8060 0.178935 CATGGAACCAAACACCCCCT 60.179 55.000 0.00 0.00 0.00 4.79
4829 8341 4.088421 CGAAACCTCGCAGCGTAT 57.912 55.556 15.93 0.00 38.45 3.06
4845 8357 2.603652 GCGTATCGGAAAGAGAGAGAGC 60.604 54.545 0.00 0.00 0.00 4.09
4975 8497 1.815003 CATCGAGCGGCAATGTCCA 60.815 57.895 1.45 0.00 0.00 4.02
5057 8583 3.384532 GCCCGGGGAGACGTGTTA 61.385 66.667 25.28 0.00 0.00 2.41
5059 8585 1.980772 CCCGGGGAGACGTGTTAGT 60.981 63.158 14.71 0.00 0.00 2.24
5066 8592 2.230508 GGGAGACGTGTTAGTGATGACA 59.769 50.000 0.00 0.00 0.00 3.58
5067 8593 3.305813 GGGAGACGTGTTAGTGATGACAA 60.306 47.826 0.00 0.00 0.00 3.18
5072 8598 6.452242 AGACGTGTTAGTGATGACAACAATA 58.548 36.000 0.00 0.00 34.20 1.90
5142 8668 0.531974 GGCGGGCAACATTCGAGATA 60.532 55.000 0.00 0.00 39.74 1.98
5152 8678 2.623889 ACATTCGAGATAGAAGGGGACG 59.376 50.000 0.00 0.00 36.37 4.79
5166 8692 0.810648 GGGACGAAATTCATGCTGCA 59.189 50.000 4.13 4.13 0.00 4.41
5169 8695 2.223203 GGACGAAATTCATGCTGCAGAG 60.223 50.000 20.43 6.39 0.00 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.639082 CCCCAAAATCTGCAACTTTGAATAC 59.361 40.000 13.60 0.00 32.87 1.89
1 2 5.541868 TCCCCAAAATCTGCAACTTTGAATA 59.458 36.000 13.60 0.39 32.87 1.75
14 15 1.299939 GGTCCTCCTCCCCAAAATCT 58.700 55.000 0.00 0.00 0.00 2.40
16 17 1.571773 CCGGTCCTCCTCCCCAAAAT 61.572 60.000 0.00 0.00 0.00 1.82
44 45 0.908198 AGCTGCCCAGACCTTTAGAG 59.092 55.000 0.00 0.00 0.00 2.43
129 235 8.641541 GCAGATAAATTTAAGGGGATCATTTCA 58.358 33.333 1.21 0.00 0.00 2.69
137 243 5.457686 AGCATGCAGATAAATTTAAGGGGA 58.542 37.500 21.98 0.00 0.00 4.81
149 255 3.497103 ATGGTTGCTAGCATGCAGATA 57.503 42.857 20.13 2.40 44.27 1.98
157 263 3.678806 GCTACTGTACATGGTTGCTAGCA 60.679 47.826 14.93 14.93 36.00 3.49
217 323 4.019051 TCATCTGCTTCTCCATGAGGAAAA 60.019 41.667 0.00 0.00 45.19 2.29
218 324 3.520721 TCATCTGCTTCTCCATGAGGAAA 59.479 43.478 0.00 0.00 45.19 3.13
219 325 3.109928 TCATCTGCTTCTCCATGAGGAA 58.890 45.455 0.00 0.00 45.19 3.36
220 326 2.699321 CTCATCTGCTTCTCCATGAGGA 59.301 50.000 0.00 0.00 43.21 3.71
221 327 2.699321 TCTCATCTGCTTCTCCATGAGG 59.301 50.000 7.70 0.00 41.75 3.86
222 328 4.039366 TCATCTCATCTGCTTCTCCATGAG 59.961 45.833 0.00 1.98 42.47 2.90
314 420 9.310716 GTTAAGGGTCACTAATGTAGTTATCAC 57.689 37.037 0.00 0.00 36.76 3.06
362 468 0.439985 CGACGATTCTGTGCAACCTG 59.560 55.000 0.00 0.00 34.36 4.00
413 522 4.434713 AAACTTTTGTCGCAGTGAAGTT 57.565 36.364 0.00 0.00 40.99 2.66
415 524 4.970003 CCTAAAACTTTTGTCGCAGTGAAG 59.030 41.667 0.00 0.00 0.00 3.02
427 536 6.809689 CGTTTGAACTCAACCCTAAAACTTTT 59.190 34.615 0.00 0.00 35.28 2.27
505 627 4.336993 TCATATGGAATTAACGCCGCTTTT 59.663 37.500 2.13 0.00 0.00 2.27
518 640 1.072331 GGCGGGTGTCTCATATGGAAT 59.928 52.381 2.13 0.00 0.00 3.01
520 642 0.689412 TGGCGGGTGTCTCATATGGA 60.689 55.000 2.13 0.00 0.00 3.41
530 652 1.921346 TGGGTCTATTGGCGGGTGT 60.921 57.895 0.00 0.00 0.00 4.16
535 657 2.277084 GTAGTTGTGGGTCTATTGGCG 58.723 52.381 0.00 0.00 0.00 5.69
560 682 1.403679 GGTTTGTTGTGCTGTGCTACA 59.596 47.619 0.00 0.00 0.00 2.74
562 684 1.756430 TGGTTTGTTGTGCTGTGCTA 58.244 45.000 0.00 0.00 0.00 3.49
569 691 0.380378 TCGCTCTTGGTTTGTTGTGC 59.620 50.000 0.00 0.00 0.00 4.57
571 693 2.479560 GCTTTCGCTCTTGGTTTGTTGT 60.480 45.455 0.00 0.00 0.00 3.32
578 700 0.603975 GTCTGGCTTTCGCTCTTGGT 60.604 55.000 0.00 0.00 36.09 3.67
581 703 0.603975 GGTGTCTGGCTTTCGCTCTT 60.604 55.000 0.00 0.00 36.09 2.85
582 704 1.004440 GGTGTCTGGCTTTCGCTCT 60.004 57.895 0.00 0.00 36.09 4.09
594 716 2.074547 CGTAATTGGTGACGGTGTCT 57.925 50.000 0.00 0.00 35.43 3.41
645 768 3.780294 AGAGCCCATGGTCAAGTTGTATA 59.220 43.478 11.73 0.00 41.53 1.47
647 770 1.985159 AGAGCCCATGGTCAAGTTGTA 59.015 47.619 11.73 0.00 41.53 2.41
649 772 2.359900 GTAGAGCCCATGGTCAAGTTG 58.640 52.381 11.73 0.00 41.53 3.16
663 786 3.697619 ACAAGGTACAAAGGGTAGAGC 57.302 47.619 0.00 0.00 31.13 4.09
669 792 3.482436 TGTGCTTACAAGGTACAAAGGG 58.518 45.455 0.00 0.00 0.00 3.95
673 796 4.771903 TCAGTTGTGCTTACAAGGTACAA 58.228 39.130 0.00 0.00 37.06 2.41
674 797 4.409718 TCAGTTGTGCTTACAAGGTACA 57.590 40.909 0.00 0.00 0.00 2.90
675 798 5.744666 TTTCAGTTGTGCTTACAAGGTAC 57.255 39.130 0.00 0.00 0.00 3.34
676 799 6.058833 TGATTTCAGTTGTGCTTACAAGGTA 58.941 36.000 0.00 0.00 0.00 3.08
677 800 4.887071 TGATTTCAGTTGTGCTTACAAGGT 59.113 37.500 0.00 0.00 0.00 3.50
678 801 5.437289 TGATTTCAGTTGTGCTTACAAGG 57.563 39.130 0.00 0.00 0.00 3.61
679 802 6.751425 TGTTTGATTTCAGTTGTGCTTACAAG 59.249 34.615 0.00 0.00 0.00 3.16
684 807 5.070770 TGTGTTTGATTTCAGTTGTGCTT 57.929 34.783 0.00 0.00 0.00 3.91
687 810 4.676471 CGGATGTGTTTGATTTCAGTTGTG 59.324 41.667 0.00 0.00 0.00 3.33
692 815 3.557577 TGCGGATGTGTTTGATTTCAG 57.442 42.857 0.00 0.00 0.00 3.02
747 873 8.478877 GGTCTCTCATTAACATCTCTCCTTTTA 58.521 37.037 0.00 0.00 0.00 1.52
754 880 7.429374 TGAATGGTCTCTCATTAACATCTCT 57.571 36.000 0.00 0.00 37.47 3.10
771 900 2.852449 TGCTCCTTAGGGAATGAATGGT 59.148 45.455 0.00 0.00 41.69 3.55
819 948 2.224719 CCCTTTATGGCTCATCTCCTGG 60.225 54.545 0.00 0.00 0.00 4.45
888 1033 2.493278 GCTCAGCTTTATCTTTTGGGCA 59.507 45.455 0.00 0.00 35.38 5.36
910 1055 3.494924 GGTTTCCATTTTGCTTCTTGGCT 60.495 43.478 0.00 0.00 0.00 4.75
942 1090 1.606313 GTTAAGGGCAGGCAGGCAA 60.606 57.895 5.69 0.00 46.44 4.52
947 1095 2.223464 GATGGGGTTAAGGGCAGGCA 62.223 60.000 0.00 0.00 0.00 4.75
948 1096 1.455773 GATGGGGTTAAGGGCAGGC 60.456 63.158 0.00 0.00 0.00 4.85
949 1097 1.230212 GGATGGGGTTAAGGGCAGG 59.770 63.158 0.00 0.00 0.00 4.85
1001 1152 3.129638 CGAGGGTAAGGTTGAAGAGAGAG 59.870 52.174 0.00 0.00 0.00 3.20
1002 1153 3.090037 CGAGGGTAAGGTTGAAGAGAGA 58.910 50.000 0.00 0.00 0.00 3.10
1003 1154 2.166664 CCGAGGGTAAGGTTGAAGAGAG 59.833 54.545 0.00 0.00 0.00 3.20
1004 1155 2.176889 CCGAGGGTAAGGTTGAAGAGA 58.823 52.381 0.00 0.00 0.00 3.10
1011 1162 2.599757 GGTGGCCGAGGGTAAGGTT 61.600 63.158 0.00 0.00 0.00 3.50
1024 1175 3.055891 AGCAGGAATTGTTATTTGGTGGC 60.056 43.478 0.00 0.00 0.00 5.01
1034 1185 2.557924 TGAAATGCGAGCAGGAATTGTT 59.442 40.909 3.58 0.00 0.00 2.83
1035 1186 2.161855 TGAAATGCGAGCAGGAATTGT 58.838 42.857 3.58 0.00 0.00 2.71
1092 1243 1.134788 CCGACCTGAAATTACTCCGCT 60.135 52.381 0.00 0.00 0.00 5.52
1155 1320 1.831652 CTCCACAGTCCACTCCCCAC 61.832 65.000 0.00 0.00 0.00 4.61
1156 1321 1.536418 CTCCACAGTCCACTCCCCA 60.536 63.158 0.00 0.00 0.00 4.96
1157 1322 1.536662 ACTCCACAGTCCACTCCCC 60.537 63.158 0.00 0.00 0.00 4.81
1158 1323 1.674057 CACTCCACAGTCCACTCCC 59.326 63.158 0.00 0.00 0.00 4.30
1159 1324 0.832135 TCCACTCCACAGTCCACTCC 60.832 60.000 0.00 0.00 0.00 3.85
1160 1325 0.605589 CTCCACTCCACAGTCCACTC 59.394 60.000 0.00 0.00 0.00 3.51
1161 1326 0.105453 ACTCCACTCCACAGTCCACT 60.105 55.000 0.00 0.00 0.00 4.00
1162 1327 0.759346 AACTCCACTCCACAGTCCAC 59.241 55.000 0.00 0.00 0.00 4.02
1163 1328 0.758734 CAACTCCACTCCACAGTCCA 59.241 55.000 0.00 0.00 0.00 4.02
1164 1329 0.035458 CCAACTCCACTCCACAGTCC 59.965 60.000 0.00 0.00 0.00 3.85
1165 1330 0.035458 CCCAACTCCACTCCACAGTC 59.965 60.000 0.00 0.00 0.00 3.51
1166 1331 0.399949 TCCCAACTCCACTCCACAGT 60.400 55.000 0.00 0.00 0.00 3.55
1167 1332 0.322975 CTCCCAACTCCACTCCACAG 59.677 60.000 0.00 0.00 0.00 3.66
1168 1333 1.127567 CCTCCCAACTCCACTCCACA 61.128 60.000 0.00 0.00 0.00 4.17
2010 2207 2.426023 GAGGAACAGTGGTGGCGT 59.574 61.111 0.00 0.00 0.00 5.68
2278 2490 3.275617 AAAAGGGAACAAAAGTTGGGC 57.724 42.857 0.00 0.00 34.12 5.36
2290 2511 3.256704 TGAGAAGGGAGCTAAAAGGGAA 58.743 45.455 0.00 0.00 0.00 3.97
2386 2614 5.418310 TTGCAACTAGTAGCAGAAAACAC 57.582 39.130 0.00 0.00 42.39 3.32
2407 2640 3.818180 TGGCACAATTTGGAGCAATTTT 58.182 36.364 15.07 0.00 31.92 1.82
2549 2783 6.201234 CACAAATCATCATCACACAAAGCAAA 59.799 34.615 0.00 0.00 0.00 3.68
2680 2926 2.076863 CCGGCCTTCTTGAAGTAGTTG 58.923 52.381 0.00 0.00 0.00 3.16
3934 4401 3.569049 CTCGCCGTCGTCCTTGGTT 62.569 63.158 0.00 0.00 36.96 3.67
4130 4609 1.003355 CAAGCTGCGGGAAGAGGAA 60.003 57.895 0.00 0.00 0.00 3.36
4132 4611 1.302832 AACAAGCTGCGGGAAGAGG 60.303 57.895 0.00 0.00 0.00 3.69
4135 4614 1.197721 CTAACAACAAGCTGCGGGAAG 59.802 52.381 0.00 0.00 0.00 3.46
4136 4615 1.234821 CTAACAACAAGCTGCGGGAA 58.765 50.000 0.00 0.00 0.00 3.97
4138 4617 1.210155 GCTAACAACAAGCTGCGGG 59.790 57.895 0.00 0.00 37.01 6.13
4140 4619 1.128692 GTAGGCTAACAACAAGCTGCG 59.871 52.381 0.00 0.00 39.97 5.18
4141 4620 1.468914 GGTAGGCTAACAACAAGCTGC 59.531 52.381 4.28 0.00 39.97 5.25
4142 4621 2.778299 TGGTAGGCTAACAACAAGCTG 58.222 47.619 10.45 0.00 39.97 4.24
4143 4622 3.347216 CATGGTAGGCTAACAACAAGCT 58.653 45.455 17.50 0.00 39.97 3.74
4260 4764 3.566742 GTCTAAGAGCTAGCTAGTGACCC 59.433 52.174 19.38 2.88 0.00 4.46
4317 7651 7.647715 CCTCACACTTGTTACAAAAATAACAGG 59.352 37.037 0.00 6.31 43.93 4.00
4333 7667 1.794701 CATCACACGTCCTCACACTTG 59.205 52.381 0.00 0.00 0.00 3.16
4334 7668 1.270305 CCATCACACGTCCTCACACTT 60.270 52.381 0.00 0.00 0.00 3.16
4335 7669 0.318441 CCATCACACGTCCTCACACT 59.682 55.000 0.00 0.00 0.00 3.55
4336 7670 0.033504 ACCATCACACGTCCTCACAC 59.966 55.000 0.00 0.00 0.00 3.82
4337 7671 0.317160 GACCATCACACGTCCTCACA 59.683 55.000 0.00 0.00 0.00 3.58
4338 7672 0.317160 TGACCATCACACGTCCTCAC 59.683 55.000 0.00 0.00 0.00 3.51
4339 7673 1.044611 TTGACCATCACACGTCCTCA 58.955 50.000 0.00 0.00 0.00 3.86
4340 7674 2.002586 CATTGACCATCACACGTCCTC 58.997 52.381 0.00 0.00 0.00 3.71
4341 7675 1.339055 CCATTGACCATCACACGTCCT 60.339 52.381 0.00 0.00 0.00 3.85
4342 7676 1.086696 CCATTGACCATCACACGTCC 58.913 55.000 0.00 0.00 0.00 4.79
4343 7677 1.086696 CCCATTGACCATCACACGTC 58.913 55.000 0.00 0.00 0.00 4.34
4344 7678 0.690192 TCCCATTGACCATCACACGT 59.310 50.000 0.00 0.00 0.00 4.49
4345 7679 1.066215 TCTCCCATTGACCATCACACG 60.066 52.381 0.00 0.00 0.00 4.49
4403 7747 1.274167 CTGTGGCCGTACAAGGTAGAA 59.726 52.381 0.00 0.00 0.00 2.10
4404 7748 0.892755 CTGTGGCCGTACAAGGTAGA 59.107 55.000 0.00 0.00 0.00 2.59
4405 7749 0.108329 CCTGTGGCCGTACAAGGTAG 60.108 60.000 0.00 0.00 0.00 3.18
4406 7750 0.542467 TCCTGTGGCCGTACAAGGTA 60.542 55.000 0.00 0.00 0.00 3.08
4578 7926 3.275143 CCGAACACCACCATAATTGCTA 58.725 45.455 0.00 0.00 0.00 3.49
4579 7927 2.091541 CCGAACACCACCATAATTGCT 58.908 47.619 0.00 0.00 0.00 3.91
4580 7928 1.816224 ACCGAACACCACCATAATTGC 59.184 47.619 0.00 0.00 0.00 3.56
4581 7929 3.756434 AGAACCGAACACCACCATAATTG 59.244 43.478 0.00 0.00 0.00 2.32
4582 7930 4.007659 GAGAACCGAACACCACCATAATT 58.992 43.478 0.00 0.00 0.00 1.40
4584 7932 2.635915 AGAGAACCGAACACCACCATAA 59.364 45.455 0.00 0.00 0.00 1.90
4587 7935 1.616865 CTAGAGAACCGAACACCACCA 59.383 52.381 0.00 0.00 0.00 4.17
4588 7936 1.617357 ACTAGAGAACCGAACACCACC 59.383 52.381 0.00 0.00 0.00 4.61
4589 7937 2.352519 GGACTAGAGAACCGAACACCAC 60.353 54.545 0.00 0.00 0.00 4.16
4590 7938 1.891150 GGACTAGAGAACCGAACACCA 59.109 52.381 0.00 0.00 0.00 4.17
4591 7939 2.169330 AGGACTAGAGAACCGAACACC 58.831 52.381 0.00 0.00 0.00 4.16
4592 7940 3.377798 CCTAGGACTAGAGAACCGAACAC 59.622 52.174 1.05 0.00 35.21 3.32
4593 7941 3.265221 TCCTAGGACTAGAGAACCGAACA 59.735 47.826 7.62 0.00 35.21 3.18
4594 7942 3.627123 GTCCTAGGACTAGAGAACCGAAC 59.373 52.174 31.12 3.26 41.57 3.95
4595 7943 3.883669 GTCCTAGGACTAGAGAACCGAA 58.116 50.000 31.12 0.00 41.57 4.30
4596 7944 3.557228 GTCCTAGGACTAGAGAACCGA 57.443 52.381 31.12 0.00 41.57 4.69
4643 7991 1.256812 CTAGCAAACCAAACAGGGGG 58.743 55.000 0.00 0.00 43.89 5.40
4644 7992 1.203001 TCCTAGCAAACCAAACAGGGG 60.203 52.381 0.00 0.00 43.89 4.79
4645 7993 2.286365 TCCTAGCAAACCAAACAGGG 57.714 50.000 0.00 0.00 43.89 4.45
4646 7994 4.871933 AATTCCTAGCAAACCAAACAGG 57.128 40.909 0.00 0.00 45.67 4.00
4685 8033 4.383661 GGTGTTTGGTTCCATGGACTTTTT 60.384 41.667 15.91 0.00 0.00 1.94
4686 8034 3.133901 GGTGTTTGGTTCCATGGACTTTT 59.866 43.478 15.91 0.00 0.00 2.27
4687 8035 2.698274 GGTGTTTGGTTCCATGGACTTT 59.302 45.455 15.91 0.00 0.00 2.66
4688 8036 2.316108 GGTGTTTGGTTCCATGGACTT 58.684 47.619 15.91 0.00 0.00 3.01
4689 8037 1.480498 GGGTGTTTGGTTCCATGGACT 60.480 52.381 15.91 0.00 0.00 3.85
4690 8038 0.966179 GGGTGTTTGGTTCCATGGAC 59.034 55.000 15.91 9.83 0.00 4.02
4691 8039 0.178947 GGGGTGTTTGGTTCCATGGA 60.179 55.000 11.44 11.44 0.00 3.41
4692 8040 1.191489 GGGGGTGTTTGGTTCCATGG 61.191 60.000 4.97 4.97 0.00 3.66
4693 8041 0.178935 AGGGGGTGTTTGGTTCCATG 60.179 55.000 0.00 0.00 0.00 3.66
4694 8042 1.462426 TAGGGGGTGTTTGGTTCCAT 58.538 50.000 0.00 0.00 0.00 3.41
4695 8043 1.076350 CATAGGGGGTGTTTGGTTCCA 59.924 52.381 0.00 0.00 0.00 3.53
4696 8044 1.356398 TCATAGGGGGTGTTTGGTTCC 59.644 52.381 0.00 0.00 0.00 3.62
4697 8045 2.307686 TCTCATAGGGGGTGTTTGGTTC 59.692 50.000 0.00 0.00 0.00 3.62
4698 8046 2.308866 CTCTCATAGGGGGTGTTTGGTT 59.691 50.000 0.00 0.00 0.00 3.67
4699 8047 1.916181 CTCTCATAGGGGGTGTTTGGT 59.084 52.381 0.00 0.00 0.00 3.67
4700 8048 1.212935 CCTCTCATAGGGGGTGTTTGG 59.787 57.143 0.00 0.00 42.32 3.28
4701 8049 2.717639 CCTCTCATAGGGGGTGTTTG 57.282 55.000 0.00 0.00 42.32 2.93
4710 8058 9.702253 ATGTTAGGTATATACACCTCTCATAGG 57.298 37.037 5.82 0.00 46.34 2.57
4733 8081 5.065613 TGGTAGGTAGAATACGGGTATGT 57.934 43.478 0.00 0.00 44.28 2.29
4776 8124 2.201732 CGGCGAACATTGCTATGTAGT 58.798 47.619 14.19 0.00 44.14 2.73
4829 8341 1.032657 CCGGCTCTCTCTCTTTCCGA 61.033 60.000 0.00 0.00 39.23 4.55
4845 8357 4.089757 TCTTCCTCCCCCTCCCGG 62.090 72.222 0.00 0.00 0.00 5.73
4859 8371 0.600255 CGGCGTGTGTTCTTCCTCTT 60.600 55.000 0.00 0.00 0.00 2.85
4860 8372 1.006102 CGGCGTGTGTTCTTCCTCT 60.006 57.895 0.00 0.00 0.00 3.69
4905 8426 1.205064 GATTTGCCGCCGATCATCG 59.795 57.895 0.00 0.00 40.07 3.84
4964 8486 3.940640 CGCCGATGGACATTGCCG 61.941 66.667 0.00 0.00 0.00 5.69
4975 8497 1.078497 TCATTGACTTGCCGCCGAT 60.078 52.632 0.00 0.00 0.00 4.18
5047 8573 4.295870 TGTTGTCATCACTAACACGTCTC 58.704 43.478 0.00 0.00 30.06 3.36
5055 8581 6.873605 CAGTCACCTATTGTTGTCATCACTAA 59.126 38.462 0.00 0.00 0.00 2.24
5057 8583 5.012046 TCAGTCACCTATTGTTGTCATCACT 59.988 40.000 0.00 0.00 0.00 3.41
5059 8585 5.482163 TCAGTCACCTATTGTTGTCATCA 57.518 39.130 0.00 0.00 0.00 3.07
5066 8592 3.009723 CGCCATTCAGTCACCTATTGTT 58.990 45.455 0.00 0.00 0.00 2.83
5067 8593 2.236146 TCGCCATTCAGTCACCTATTGT 59.764 45.455 0.00 0.00 0.00 2.71
5072 8598 1.599047 CCTCGCCATTCAGTCACCT 59.401 57.895 0.00 0.00 0.00 4.00
5122 8648 3.508840 CTCGAATGTTGCCCGCCC 61.509 66.667 0.00 0.00 0.00 6.13
5126 8652 3.134458 CCTTCTATCTCGAATGTTGCCC 58.866 50.000 0.00 0.00 0.00 5.36
5133 8659 3.225177 TCGTCCCCTTCTATCTCGAAT 57.775 47.619 0.00 0.00 0.00 3.34
5134 8660 2.723322 TCGTCCCCTTCTATCTCGAA 57.277 50.000 0.00 0.00 0.00 3.71
5142 8668 2.025887 AGCATGAATTTCGTCCCCTTCT 60.026 45.455 0.00 0.00 0.00 2.85
5166 8692 2.029288 CGTGGCACGATGTTGCTCT 61.029 57.895 34.85 0.00 46.05 4.09
5169 8695 3.353836 ACCGTGGCACGATGTTGC 61.354 61.111 38.91 0.00 46.05 4.17


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

AutoCloner maintained by Alex Coulton.