Multiple sequence alignment - TraesCS7D01G220900

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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 TraesCS7D01G220900 chr7D 100.000 3883 0 0 1 3883 181609620 181605738 0.000000e+00 7171
1 TraesCS7D01G220900 chr7A 94.556 1488 62 13 1925 3402 190470327 190471805 0.000000e+00 2281
2 TraesCS7D01G220900 chr7A 96.375 938 28 5 856 1787 190469203 190470140 0.000000e+00 1539
3 TraesCS7D01G220900 chr7A 85.693 664 87 6 1 663 190468306 190468962 0.000000e+00 693
4 TraesCS7D01G220900 chr7A 90.850 153 4 2 1788 1940 190470174 190470316 3.060000e-46 196
5 TraesCS7D01G220900 chr7A 92.913 127 7 1 3757 3883 190471952 190472076 2.380000e-42 183
6 TraesCS7D01G220900 chr7A 88.667 150 12 3 3445 3594 190471806 190471950 1.110000e-40 178
7 TraesCS7D01G220900 chr7B 96.293 998 31 5 771 1764 149614564 149613569 0.000000e+00 1633
8 TraesCS7D01G220900 chr7B 92.914 1002 52 13 2469 3458 149612448 149611454 0.000000e+00 1439
9 TraesCS7D01G220900 chr7B 95.646 666 16 2 1807 2468 149613147 149612491 0.000000e+00 1057
10 TraesCS7D01G220900 chr7B 90.404 198 17 2 3574 3769 82692437 82692634 3.850000e-65 259
11 TraesCS7D01G220900 chr7B 93.798 129 8 0 3755 3883 149611352 149611224 1.100000e-45 195
12 TraesCS7D01G220900 chr6D 94.675 169 9 0 3590 3758 266777474 266777642 2.980000e-66 263
13 TraesCS7D01G220900 chr4D 95.706 163 7 0 3595 3757 468208806 468208644 2.980000e-66 263
14 TraesCS7D01G220900 chr3D 95.706 163 7 0 3595 3757 486424949 486424787 2.980000e-66 263
15 TraesCS7D01G220900 chr1D 95.706 163 7 0 3595 3757 450202053 450202215 2.980000e-66 263
16 TraesCS7D01G220900 chr2D 94.643 168 9 0 3590 3757 412716020 412716187 1.070000e-65 261
17 TraesCS7D01G220900 chr5D 92.737 179 12 1 3579 3757 498492529 498492352 1.380000e-64 257
18 TraesCS7D01G220900 chr2B 94.048 168 10 0 3590 3757 485894152 485894319 4.980000e-64 255
19 TraesCS7D01G220900 chr5B 91.351 185 11 3 3573 3757 428578994 428579173 8.330000e-62 248


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 TraesCS7D01G220900 chr7D 181605738 181609620 3882 True 7171 7171 100.00000 1 3883 1 chr7D.!!$R1 3882
1 TraesCS7D01G220900 chr7A 190468306 190472076 3770 False 845 2281 91.50900 1 3883 6 chr7A.!!$F1 3882
2 TraesCS7D01G220900 chr7B 149611224 149614564 3340 True 1081 1633 94.66275 771 3883 4 chr7B.!!$R1 3112

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
215 216 0.108186 TCGGCCATCATGTCAGTGTC 60.108 55.0 2.24 0.0 0.00 3.67 F
436 437 0.237235 GCTCTAGATGCCTCTCGACG 59.763 60.0 0.00 0.0 32.66 5.12 F
624 625 0.693049 TTGGCAGGAAGAGGAAGGAC 59.307 55.0 0.00 0.0 0.00 3.85 F
1783 1867 0.257616 ATAACGGAACATGGGGGTGG 59.742 55.0 0.00 0.0 0.00 4.61 F
1791 1875 0.330431 ACATGGGGGTGGGGGATAAT 60.330 55.0 0.00 0.0 0.00 1.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1096 1174 0.106918 TTCTTGCCGGTGAAGGTGTT 60.107 50.000 1.9 0.0 0.00 3.32 R
1770 1854 0.996762 TATCCCCCACCCCCATGTTC 60.997 60.000 0.0 0.0 0.00 3.18 R
1853 2328 1.211949 GATGGCTAAACTGGGCTACCA 59.788 52.381 0.0 0.0 46.94 3.25 R
2861 3413 0.468029 AAGAAGCCCCACAACACCTG 60.468 55.000 0.0 0.0 0.00 4.00 R
3015 3567 1.069227 CCAGGTTTGCGACAACTAAGC 60.069 52.381 0.0 0.0 0.00 3.09 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
46 47 2.489971 TGTTTGTCAAAGACTAGGGCG 58.510 47.619 0.00 0.00 33.15 6.13
48 49 1.344065 TTGTCAAAGACTAGGGCGGA 58.656 50.000 0.00 0.00 33.15 5.54
117 118 3.241530 TGGTGGCAGACGGCTTCT 61.242 61.111 0.00 0.00 44.01 2.85
131 132 1.639298 GCTTCTGCGGTGGTCATGTC 61.639 60.000 0.00 0.00 0.00 3.06
149 150 2.508887 GCTGGACTCTGCGAGCAG 60.509 66.667 18.20 18.20 44.86 4.24
151 152 2.601666 TGGACTCTGCGAGCAGGT 60.602 61.111 22.93 18.84 43.75 4.00
164 165 1.372683 GCAGGTGCTGAAGGACTGA 59.627 57.895 1.86 0.00 36.56 3.41
177 178 3.562397 GACTGAGTCCTCGTCCTCT 57.438 57.895 0.00 0.00 31.70 3.69
184 185 0.391395 GTCCTCGTCCTCTGACTCGA 60.391 60.000 0.00 0.00 39.47 4.04
197 198 3.191581 TCTGACTCGAGGAGTTTGATGTC 59.808 47.826 18.41 2.22 43.53 3.06
200 201 0.108804 TCGAGGAGTTTGATGTCGGC 60.109 55.000 0.00 0.00 0.00 5.54
215 216 0.108186 TCGGCCATCATGTCAGTGTC 60.108 55.000 2.24 0.00 0.00 3.67
216 217 0.391528 CGGCCATCATGTCAGTGTCA 60.392 55.000 2.24 0.00 0.00 3.58
227 228 3.357203 TGTCAGTGTCATCCTCCTCTAC 58.643 50.000 0.00 0.00 0.00 2.59
229 230 3.380004 GTCAGTGTCATCCTCCTCTACAG 59.620 52.174 0.00 0.00 0.00 2.74
231 232 2.103373 GTGTCATCCTCCTCTACAGCA 58.897 52.381 0.00 0.00 0.00 4.41
233 234 2.961741 TGTCATCCTCCTCTACAGCATC 59.038 50.000 0.00 0.00 0.00 3.91
247 248 2.060980 GCATCGTCCTCCACCTCCT 61.061 63.158 0.00 0.00 0.00 3.69
289 290 0.678048 GGCTTTGAAGGCGGTCATCT 60.678 55.000 1.35 0.00 41.93 2.90
293 294 0.250234 TTGAAGGCGGTCATCTCCTG 59.750 55.000 0.00 0.00 0.00 3.86
294 295 1.522580 GAAGGCGGTCATCTCCTGC 60.523 63.158 0.00 0.00 0.00 4.85
296 297 2.202987 GGCGGTCATCTCCTGCTG 60.203 66.667 0.00 0.00 0.00 4.41
300 301 0.742281 CGGTCATCTCCTGCTGGTTG 60.742 60.000 9.73 6.59 34.23 3.77
318 319 3.134458 GTTGCATATAGCTCCACCTCAC 58.866 50.000 0.00 0.00 45.94 3.51
327 328 1.059913 CTCCACCTCACTTGGAACCT 58.940 55.000 0.00 0.00 42.76 3.50
329 330 0.474184 CCACCTCACTTGGAACCTGT 59.526 55.000 0.00 0.00 36.02 4.00
332 333 0.679505 CCTCACTTGGAACCTGTCGA 59.320 55.000 0.00 0.00 0.00 4.20
333 334 1.337260 CCTCACTTGGAACCTGTCGAG 60.337 57.143 0.00 0.00 0.00 4.04
334 335 0.679505 TCACTTGGAACCTGTCGAGG 59.320 55.000 0.00 0.00 46.21 4.63
347 348 1.017387 GTCGAGGGCCATGACAATTC 58.983 55.000 19.56 0.00 32.91 2.17
354 355 2.358195 GGGCCATGACAATTCCCTAAGT 60.358 50.000 4.39 0.00 34.19 2.24
360 361 5.529060 CCATGACAATTCCCTAAGTCTAAGC 59.471 44.000 0.00 0.00 32.41 3.09
365 366 4.608948 ATTCCCTAAGTCTAAGCGGATG 57.391 45.455 0.00 0.00 0.00 3.51
383 384 2.347490 GCGAGGTGACATGGTGGT 59.653 61.111 0.00 0.00 0.00 4.16
385 386 1.671166 CGAGGTGACATGGTGGTGA 59.329 57.895 0.00 0.00 0.00 4.02
387 388 1.480545 CGAGGTGACATGGTGGTGATA 59.519 52.381 0.00 0.00 0.00 2.15
390 391 2.768527 AGGTGACATGGTGGTGATAGAG 59.231 50.000 0.00 0.00 0.00 2.43
392 393 2.766263 GTGACATGGTGGTGATAGAGGA 59.234 50.000 0.00 0.00 0.00 3.71
396 397 4.104086 ACATGGTGGTGATAGAGGAAAGA 58.896 43.478 0.00 0.00 0.00 2.52
399 400 3.519510 TGGTGGTGATAGAGGAAAGAAGG 59.480 47.826 0.00 0.00 0.00 3.46
400 401 3.536570 GTGGTGATAGAGGAAAGAAGGC 58.463 50.000 0.00 0.00 0.00 4.35
411 412 2.275318 GAAAGAAGGCGGAGATGTGAG 58.725 52.381 0.00 0.00 0.00 3.51
417 418 1.142748 GCGGAGATGTGAGGAGTGG 59.857 63.158 0.00 0.00 0.00 4.00
434 435 3.028916 GGCTCTAGATGCCTCTCGA 57.971 57.895 19.92 0.00 46.38 4.04
436 437 0.237235 GCTCTAGATGCCTCTCGACG 59.763 60.000 0.00 0.00 32.66 5.12
449 450 3.907194 CCTCTCGACGAGCGTTTTATATC 59.093 47.826 20.11 0.00 41.80 1.63
453 454 2.399754 CGACGAGCGTTTTATATCCGAC 59.600 50.000 0.00 0.00 34.64 4.79
458 459 4.443063 CGAGCGTTTTATATCCGACAATGA 59.557 41.667 0.00 0.00 0.00 2.57
508 509 5.064707 CCGAGAACTCTCTCTGAGAAACTAG 59.935 48.000 8.95 6.63 45.26 2.57
511 512 5.642063 AGAACTCTCTCTGAGAAACTAGTCG 59.358 44.000 8.95 0.00 45.39 4.18
514 515 3.009253 TCTCTCTGAGAAACTAGTCGGGT 59.991 47.826 8.95 0.00 35.59 5.28
533 534 3.165071 GGTGACAGGAAAAATGGATGGT 58.835 45.455 0.00 0.00 0.00 3.55
568 569 2.761767 GGGGTATTAATGGGTGCGTTTT 59.238 45.455 0.00 0.00 0.00 2.43
615 616 6.365970 AGTATATACTCCATTGGCAGGAAG 57.634 41.667 9.71 0.00 34.08 3.46
616 617 6.084738 AGTATATACTCCATTGGCAGGAAGA 58.915 40.000 9.71 0.00 34.08 2.87
617 618 3.853355 ATACTCCATTGGCAGGAAGAG 57.147 47.619 0.00 1.34 34.08 2.85
619 620 0.914644 CTCCATTGGCAGGAAGAGGA 59.085 55.000 0.00 0.00 34.08 3.71
621 622 1.283029 TCCATTGGCAGGAAGAGGAAG 59.717 52.381 0.00 0.00 30.71 3.46
623 624 1.283029 CATTGGCAGGAAGAGGAAGGA 59.717 52.381 0.00 0.00 0.00 3.36
624 625 0.693049 TTGGCAGGAAGAGGAAGGAC 59.307 55.000 0.00 0.00 0.00 3.85
628 629 2.572104 GGCAGGAAGAGGAAGGACTTTA 59.428 50.000 0.00 0.00 0.00 1.85
641 642 6.329460 AGGAAGGACTTTAAAAGTACACTCCT 59.671 38.462 1.54 1.54 45.25 3.69
643 644 6.496144 AGGACTTTAAAAGTACACTCCTGT 57.504 37.500 0.00 0.00 45.18 4.00
663 664 3.181488 TGTCACGTCGGTTGAGTTTAGAA 60.181 43.478 0.00 0.00 0.00 2.10
665 666 3.985279 TCACGTCGGTTGAGTTTAGAATG 59.015 43.478 0.00 0.00 0.00 2.67
668 669 4.863131 ACGTCGGTTGAGTTTAGAATGATC 59.137 41.667 0.00 0.00 0.00 2.92
669 670 5.103000 CGTCGGTTGAGTTTAGAATGATCT 58.897 41.667 0.00 0.00 39.82 2.75
670 671 5.577164 CGTCGGTTGAGTTTAGAATGATCTT 59.423 40.000 0.00 0.00 37.10 2.40
671 672 6.237595 CGTCGGTTGAGTTTAGAATGATCTTC 60.238 42.308 0.00 0.00 37.10 2.87
672 673 6.590292 GTCGGTTGAGTTTAGAATGATCTTCA 59.410 38.462 0.00 0.00 37.10 3.02
673 674 7.117812 GTCGGTTGAGTTTAGAATGATCTTCAA 59.882 37.037 0.00 0.00 37.10 2.69
674 675 7.659799 TCGGTTGAGTTTAGAATGATCTTCAAA 59.340 33.333 0.00 0.00 33.01 2.69
679 680 9.730705 TGAGTTTAGAATGATCTTCAAATCAGT 57.269 29.630 0.00 0.00 38.96 3.41
684 685 9.605275 TTAGAATGATCTTCAAATCAGTACCTG 57.395 33.333 0.00 0.00 38.96 4.00
685 686 7.628234 AGAATGATCTTCAAATCAGTACCTGT 58.372 34.615 0.00 0.00 38.96 4.00
686 687 8.762645 AGAATGATCTTCAAATCAGTACCTGTA 58.237 33.333 0.00 0.00 38.96 2.74
687 688 9.383519 GAATGATCTTCAAATCAGTACCTGTAA 57.616 33.333 0.00 0.00 38.96 2.41
688 689 8.723942 ATGATCTTCAAATCAGTACCTGTAAC 57.276 34.615 0.00 0.00 38.96 2.50
689 690 7.907389 TGATCTTCAAATCAGTACCTGTAACT 58.093 34.615 0.00 0.00 32.03 2.24
690 691 8.035394 TGATCTTCAAATCAGTACCTGTAACTC 58.965 37.037 0.00 0.00 32.03 3.01
691 692 7.297936 TCTTCAAATCAGTACCTGTAACTCA 57.702 36.000 0.00 0.00 32.61 3.41
692 693 7.378966 TCTTCAAATCAGTACCTGTAACTCAG 58.621 38.462 0.00 0.00 43.27 3.35
693 694 5.479306 TCAAATCAGTACCTGTAACTCAGC 58.521 41.667 0.00 0.00 42.38 4.26
694 695 4.473477 AATCAGTACCTGTAACTCAGCC 57.527 45.455 0.00 0.00 42.38 4.85
695 696 3.170991 TCAGTACCTGTAACTCAGCCT 57.829 47.619 0.00 0.00 42.38 4.58
696 697 3.090037 TCAGTACCTGTAACTCAGCCTC 58.910 50.000 0.00 0.00 42.38 4.70
697 698 2.166664 CAGTACCTGTAACTCAGCCTCC 59.833 54.545 0.00 0.00 42.38 4.30
698 699 2.176889 GTACCTGTAACTCAGCCTCCA 58.823 52.381 0.00 0.00 42.38 3.86
699 700 1.958288 ACCTGTAACTCAGCCTCCAT 58.042 50.000 0.00 0.00 42.38 3.41
700 701 2.269940 ACCTGTAACTCAGCCTCCATT 58.730 47.619 0.00 0.00 42.38 3.16
701 702 2.644798 ACCTGTAACTCAGCCTCCATTT 59.355 45.455 0.00 0.00 42.38 2.32
702 703 3.844211 ACCTGTAACTCAGCCTCCATTTA 59.156 43.478 0.00 0.00 42.38 1.40
703 704 4.475016 ACCTGTAACTCAGCCTCCATTTAT 59.525 41.667 0.00 0.00 42.38 1.40
739 740 5.939883 TGAACAGTACCTCATCCTTCAAATG 59.060 40.000 0.00 0.00 0.00 2.32
740 741 4.848357 ACAGTACCTCATCCTTCAAATGG 58.152 43.478 0.00 0.00 0.00 3.16
741 742 4.536090 ACAGTACCTCATCCTTCAAATGGA 59.464 41.667 0.00 0.00 38.06 3.41
742 743 5.121811 CAGTACCTCATCCTTCAAATGGAG 58.878 45.833 0.00 0.00 36.99 3.86
743 744 3.010200 ACCTCATCCTTCAAATGGAGC 57.990 47.619 0.00 0.00 36.99 4.70
744 745 2.579860 ACCTCATCCTTCAAATGGAGCT 59.420 45.455 0.00 0.00 36.99 4.09
745 746 3.212685 CCTCATCCTTCAAATGGAGCTC 58.787 50.000 4.71 4.71 36.99 4.09
747 748 1.945394 CATCCTTCAAATGGAGCTCCG 59.055 52.381 27.43 13.45 39.43 4.63
749 786 1.351017 TCCTTCAAATGGAGCTCCGTT 59.649 47.619 30.86 30.86 46.66 4.44
786 823 4.130118 AGGCGGCTATAAAGATTCTGTTG 58.870 43.478 11.03 0.00 0.00 3.33
826 865 2.689983 GAGGTAAAATCACATGGGCTGG 59.310 50.000 0.00 0.00 0.00 4.85
936 1014 1.960250 CGCCGTAAACCCAACCGAA 60.960 57.895 0.00 0.00 0.00 4.30
1085 1163 3.543537 CTCCCTCGGGTGGATCAG 58.456 66.667 1.18 0.00 36.47 2.90
1170 1248 9.606631 GAATCCTTCAATCTCAACAGTAAGTAT 57.393 33.333 0.00 0.00 0.00 2.12
1181 1260 7.774157 TCTCAACAGTAAGTATAGTCCGAGATT 59.226 37.037 0.00 0.00 0.00 2.40
1184 1263 8.407064 CAACAGTAAGTATAGTCCGAGATTTCT 58.593 37.037 0.00 0.00 0.00 2.52
1188 1267 6.394025 AAGTATAGTCCGAGATTTCTGGTC 57.606 41.667 0.00 0.00 0.00 4.02
1699 1782 3.940209 ACCGTTGTAACTGTCGGATAA 57.060 42.857 11.25 0.00 44.86 1.75
1701 1784 3.507233 ACCGTTGTAACTGTCGGATAAGA 59.493 43.478 11.25 0.00 44.86 2.10
1729 1812 7.041372 TGCTAATCCTTTTGTTTCACTAGTCAC 60.041 37.037 0.00 0.00 0.00 3.67
1770 1854 3.634568 TGTGAAGGTGCAAAATAACGG 57.365 42.857 0.00 0.00 0.00 4.44
1783 1867 0.257616 ATAACGGAACATGGGGGTGG 59.742 55.000 0.00 0.00 0.00 4.61
1787 1871 2.944390 GAACATGGGGGTGGGGGA 60.944 66.667 0.00 0.00 0.00 4.81
1789 1873 0.996762 GAACATGGGGGTGGGGGATA 60.997 60.000 0.00 0.00 0.00 2.59
1790 1874 0.556380 AACATGGGGGTGGGGGATAA 60.556 55.000 0.00 0.00 0.00 1.75
1791 1875 0.330431 ACATGGGGGTGGGGGATAAT 60.330 55.000 0.00 0.00 0.00 1.28
1792 1876 1.059364 ACATGGGGGTGGGGGATAATA 60.059 52.381 0.00 0.00 0.00 0.98
1793 1877 2.297044 CATGGGGGTGGGGGATAATAT 58.703 52.381 0.00 0.00 0.00 1.28
1795 1879 0.335019 GGGGGTGGGGGATAATATGC 59.665 60.000 0.00 0.00 0.00 3.14
1796 1880 1.382914 GGGGTGGGGGATAATATGCT 58.617 55.000 0.00 0.00 0.00 3.79
1797 1881 2.568979 GGGGTGGGGGATAATATGCTA 58.431 52.381 0.00 0.00 0.00 3.49
1799 1883 3.308904 GGGGTGGGGGATAATATGCTAAC 60.309 52.174 0.00 0.00 0.00 2.34
1800 1884 3.308904 GGGTGGGGGATAATATGCTAACC 60.309 52.174 0.00 0.00 0.00 2.85
1801 1885 3.332485 GGTGGGGGATAATATGCTAACCA 59.668 47.826 6.32 3.85 0.00 3.67
1802 1886 4.017499 GGTGGGGGATAATATGCTAACCAT 60.017 45.833 6.65 0.00 37.97 3.55
1803 1887 5.518367 GGTGGGGGATAATATGCTAACCATT 60.518 44.000 6.65 0.00 35.34 3.16
1804 1888 6.016555 GTGGGGGATAATATGCTAACCATTT 58.983 40.000 6.65 0.00 35.34 2.32
1805 1889 6.496911 GTGGGGGATAATATGCTAACCATTTT 59.503 38.462 6.65 0.00 35.34 1.82
1848 2323 9.201989 TCTAAGAGGATCAGCTAAAGATAAACA 57.798 33.333 0.00 0.00 37.82 2.83
1849 2324 9.823647 CTAAGAGGATCAGCTAAAGATAAACAA 57.176 33.333 0.00 0.00 37.82 2.83
1851 2326 9.520515 AAGAGGATCAGCTAAAGATAAACAAAA 57.479 29.630 0.00 0.00 37.82 2.44
1852 2327 9.692325 AGAGGATCAGCTAAAGATAAACAAAAT 57.308 29.630 0.00 0.00 37.82 1.82
1921 2396 6.735556 ACAGGATATGGTGATTTCTTTCCTT 58.264 36.000 0.00 0.00 30.05 3.36
1954 2455 4.984161 GCAACAGTTATGTGCTGATGTTTT 59.016 37.500 0.00 0.00 40.39 2.43
1957 2458 7.329226 GCAACAGTTATGTGCTGATGTTTTATT 59.671 33.333 0.00 0.00 40.39 1.40
2029 2530 1.208535 TGGGTAATACAGCCTTGGACG 59.791 52.381 0.00 0.00 45.71 4.79
2282 2787 5.643777 AGTTGTAGAAAATCTGTAAGCGCAT 59.356 36.000 11.47 0.00 0.00 4.73
2284 2789 5.175127 TGTAGAAAATCTGTAAGCGCATGA 58.825 37.500 11.47 0.00 0.00 3.07
2429 2934 9.268268 TGGTAACTTCTTTAGTTTGTGTCTATG 57.732 33.333 0.00 0.00 44.73 2.23
2483 3030 3.643763 CTGATACCTAGCACGTCATTCC 58.356 50.000 0.00 0.00 0.00 3.01
2497 3044 6.728200 CACGTCATTCCTGTGCATTAAATAT 58.272 36.000 0.00 0.00 0.00 1.28
2522 3070 3.781079 TGGTGTTTCACTTGCTTGAAG 57.219 42.857 0.06 0.00 36.84 3.02
2670 3219 9.378551 CATATGCTTTTACCAAGACTTGTAGTA 57.621 33.333 14.03 7.24 0.00 1.82
2676 3225 6.921486 TTACCAAGACTTGTAGTATGTGGA 57.079 37.500 14.03 0.00 29.00 4.02
2703 3253 6.458342 CCAATTTATTCGCCAGAACTTAGGTC 60.458 42.308 0.00 0.00 39.48 3.85
2710 3260 1.339151 CCAGAACTTAGGTCTGGCCAC 60.339 57.143 30.41 0.00 43.58 5.01
2794 3344 5.545658 TTTCTTGTGCGAGTTCATATTCC 57.454 39.130 0.00 0.00 0.00 3.01
2832 3384 5.215160 GCTGTTATGTTTCTTGTCTTGTGG 58.785 41.667 0.00 0.00 0.00 4.17
2855 3407 6.265196 TGGTAACACTCTTTTTGCTTCATGAT 59.735 34.615 0.00 0.00 46.17 2.45
2861 3413 8.133627 ACACTCTTTTTGCTTCATGATATATGC 58.866 33.333 0.00 0.00 0.00 3.14
3131 3683 5.406649 TGGCCTTAGTTAATTTGATTTGCG 58.593 37.500 3.32 0.00 0.00 4.85
3207 3759 7.391148 TTCCTATTGGTCAGTTTATTGAAGC 57.609 36.000 0.00 0.00 34.23 3.86
3291 3843 1.344438 CCTGGCAGTGTTACACTCTCA 59.656 52.381 15.79 14.56 43.43 3.27
3313 3866 2.185004 TGGGAAACACTAGCTTCTGC 57.815 50.000 0.00 0.00 40.05 4.26
3421 3977 3.559597 CCCGAAACACCCACCATAAAGTA 60.560 47.826 0.00 0.00 0.00 2.24
3423 3979 4.334481 CCGAAACACCCACCATAAAGTATC 59.666 45.833 0.00 0.00 0.00 2.24
3424 3980 4.938832 CGAAACACCCACCATAAAGTATCA 59.061 41.667 0.00 0.00 0.00 2.15
3426 3982 6.458206 CGAAACACCCACCATAAAGTATCATG 60.458 42.308 0.00 0.00 0.00 3.07
3431 3992 7.093945 ACACCCACCATAAAGTATCATGAAAAC 60.094 37.037 0.00 1.01 0.00 2.43
3433 3994 6.379703 CCCACCATAAAGTATCATGAAAACCA 59.620 38.462 0.00 0.00 0.00 3.67
3446 4007 2.231478 TGAAAACCAAAACTTGCGGACA 59.769 40.909 0.00 0.00 0.00 4.02
3458 4019 1.255882 TGCGGACATCAATTGCCTTT 58.744 45.000 0.00 0.00 0.00 3.11
3531 4092 1.909700 TGGTGTCTGAGGGCATTTTC 58.090 50.000 0.00 0.00 0.00 2.29
3599 4160 9.877178 TCTTCTTTCTTTCTAATGATGTACTCC 57.123 33.333 0.00 0.00 0.00 3.85
3600 4161 9.103861 CTTCTTTCTTTCTAATGATGTACTCCC 57.896 37.037 0.00 0.00 0.00 4.30
3601 4162 8.380742 TCTTTCTTTCTAATGATGTACTCCCT 57.619 34.615 0.00 0.00 0.00 4.20
3602 4163 8.478877 TCTTTCTTTCTAATGATGTACTCCCTC 58.521 37.037 0.00 0.00 0.00 4.30
3603 4164 7.979786 TTCTTTCTAATGATGTACTCCCTCT 57.020 36.000 0.00 0.00 0.00 3.69
3604 4165 7.353414 TCTTTCTAATGATGTACTCCCTCTG 57.647 40.000 0.00 0.00 0.00 3.35
3605 4166 6.897966 TCTTTCTAATGATGTACTCCCTCTGT 59.102 38.462 0.00 0.00 0.00 3.41
3606 4167 7.400339 TCTTTCTAATGATGTACTCCCTCTGTT 59.600 37.037 0.00 0.00 0.00 3.16
3607 4168 6.716934 TCTAATGATGTACTCCCTCTGTTC 57.283 41.667 0.00 0.00 0.00 3.18
3608 4169 4.762289 AATGATGTACTCCCTCTGTTCC 57.238 45.455 0.00 0.00 0.00 3.62
3609 4170 3.474798 TGATGTACTCCCTCTGTTCCT 57.525 47.619 0.00 0.00 0.00 3.36
3610 4171 4.603094 TGATGTACTCCCTCTGTTCCTA 57.397 45.455 0.00 0.00 0.00 2.94
3611 4172 4.942944 TGATGTACTCCCTCTGTTCCTAA 58.057 43.478 0.00 0.00 0.00 2.69
3612 4173 5.338632 TGATGTACTCCCTCTGTTCCTAAA 58.661 41.667 0.00 0.00 0.00 1.85
3613 4174 5.964477 TGATGTACTCCCTCTGTTCCTAAAT 59.036 40.000 0.00 0.00 0.00 1.40
3614 4175 7.130099 TGATGTACTCCCTCTGTTCCTAAATA 58.870 38.462 0.00 0.00 0.00 1.40
3615 4176 7.789831 TGATGTACTCCCTCTGTTCCTAAATAT 59.210 37.037 0.00 0.00 0.00 1.28
3616 4177 9.310449 GATGTACTCCCTCTGTTCCTAAATATA 57.690 37.037 0.00 0.00 0.00 0.86
3617 4178 9.670442 ATGTACTCCCTCTGTTCCTAAATATAA 57.330 33.333 0.00 0.00 0.00 0.98
3618 4179 9.144298 TGTACTCCCTCTGTTCCTAAATATAAG 57.856 37.037 0.00 0.00 0.00 1.73
3619 4180 9.145442 GTACTCCCTCTGTTCCTAAATATAAGT 57.855 37.037 0.00 0.00 0.00 2.24
3620 4181 8.625467 ACTCCCTCTGTTCCTAAATATAAGTT 57.375 34.615 0.00 0.00 0.00 2.66
3621 4182 9.059023 ACTCCCTCTGTTCCTAAATATAAGTTT 57.941 33.333 0.00 0.00 0.00 2.66
3622 4183 9.907229 CTCCCTCTGTTCCTAAATATAAGTTTT 57.093 33.333 0.00 0.00 0.00 2.43
3644 4205 9.827411 GTTTTTGTAGAGATTTCACTATGAACC 57.173 33.333 0.00 0.00 35.89 3.62
3645 4206 9.567776 TTTTTGTAGAGATTTCACTATGAACCA 57.432 29.630 0.00 0.00 35.89 3.67
3646 4207 8.547967 TTTGTAGAGATTTCACTATGAACCAC 57.452 34.615 0.00 0.00 35.89 4.16
3647 4208 7.239763 TGTAGAGATTTCACTATGAACCACA 57.760 36.000 0.00 0.00 35.89 4.17
3648 4209 7.851228 TGTAGAGATTTCACTATGAACCACAT 58.149 34.615 0.00 0.00 35.89 3.21
3649 4210 8.977412 TGTAGAGATTTCACTATGAACCACATA 58.023 33.333 0.00 0.00 35.89 2.29
3650 4211 9.250624 GTAGAGATTTCACTATGAACCACATAC 57.749 37.037 0.00 0.00 35.89 2.39
3651 4212 6.980978 AGAGATTTCACTATGAACCACATACG 59.019 38.462 0.00 0.00 35.89 3.06
3652 4213 6.049149 AGATTTCACTATGAACCACATACGG 58.951 40.000 0.00 0.00 35.89 4.02
3653 4214 5.408880 TTTCACTATGAACCACATACGGA 57.591 39.130 0.00 0.00 35.89 4.69
3654 4215 5.607939 TTCACTATGAACCACATACGGAT 57.392 39.130 0.00 0.00 40.07 4.18
3655 4216 4.944048 TCACTATGAACCACATACGGATG 58.056 43.478 5.94 5.94 40.07 3.51
3656 4217 5.105106 TTCACTATGAACCACATACGGATGT 60.105 40.000 7.68 7.68 37.89 3.06
3657 4218 5.595133 TCACTATGAACCACATACGGATGTA 59.405 40.000 14.23 0.00 44.82 2.29
3658 4219 6.266786 TCACTATGAACCACATACGGATGTAT 59.733 38.462 14.23 5.54 44.82 2.29
3659 4220 7.449086 TCACTATGAACCACATACGGATGTATA 59.551 37.037 14.23 6.48 44.82 1.47
3660 4221 8.251026 CACTATGAACCACATACGGATGTATAT 58.749 37.037 14.23 1.68 44.82 0.86
3661 4222 9.470399 ACTATGAACCACATACGGATGTATATA 57.530 33.333 14.23 7.10 44.82 0.86
3666 4227 9.193133 GAACCACATACGGATGTATATATATGC 57.807 37.037 14.23 4.69 44.82 3.14
3667 4228 8.245195 ACCACATACGGATGTATATATATGCA 57.755 34.615 14.23 14.81 44.82 3.96
3668 4229 8.870116 ACCACATACGGATGTATATATATGCAT 58.130 33.333 21.89 21.89 44.82 3.96
3669 4230 9.710900 CCACATACGGATGTATATATATGCATT 57.289 33.333 22.40 12.55 44.82 3.56
3697 4258 7.093322 AGTGTAGATTCATTCATTTTGCTCC 57.907 36.000 0.00 0.00 0.00 4.70
3698 4259 6.096001 AGTGTAGATTCATTCATTTTGCTCCC 59.904 38.462 0.00 0.00 0.00 4.30
3699 4260 6.096001 GTGTAGATTCATTCATTTTGCTCCCT 59.904 38.462 0.00 0.00 0.00 4.20
3700 4261 7.283127 GTGTAGATTCATTCATTTTGCTCCCTA 59.717 37.037 0.00 0.00 0.00 3.53
3701 4262 8.000709 TGTAGATTCATTCATTTTGCTCCCTAT 58.999 33.333 0.00 0.00 0.00 2.57
3702 4263 9.507329 GTAGATTCATTCATTTTGCTCCCTATA 57.493 33.333 0.00 0.00 0.00 1.31
3707 4268 9.507329 TTCATTCATTTTGCTCCCTATATAGTC 57.493 33.333 8.92 0.00 0.00 2.59
3708 4269 8.103305 TCATTCATTTTGCTCCCTATATAGTCC 58.897 37.037 8.92 0.00 0.00 3.85
3709 4270 7.387265 TTCATTTTGCTCCCTATATAGTCCA 57.613 36.000 8.92 0.00 0.00 4.02
3710 4271 6.769512 TCATTTTGCTCCCTATATAGTCCAC 58.230 40.000 8.92 0.00 0.00 4.02
3711 4272 5.562298 TTTTGCTCCCTATATAGTCCACC 57.438 43.478 8.92 0.00 0.00 4.61
3712 4273 4.487282 TTGCTCCCTATATAGTCCACCT 57.513 45.455 8.92 0.00 0.00 4.00
3713 4274 5.610429 TTGCTCCCTATATAGTCCACCTA 57.390 43.478 8.92 0.00 0.00 3.08
3714 4275 5.194473 TGCTCCCTATATAGTCCACCTAG 57.806 47.826 8.92 0.00 0.00 3.02
3715 4276 4.606697 TGCTCCCTATATAGTCCACCTAGT 59.393 45.833 8.92 0.00 0.00 2.57
3716 4277 4.951094 GCTCCCTATATAGTCCACCTAGTG 59.049 50.000 8.92 0.00 0.00 2.74
3733 4294 8.472007 CACCTAGTGGAATCTCTATAAAGACT 57.528 38.462 0.00 0.00 37.04 3.24
3734 4295 8.919145 CACCTAGTGGAATCTCTATAAAGACTT 58.081 37.037 0.00 0.00 37.04 3.01
3752 4313 6.667558 AGACTTATATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
3753 4314 6.379579 AGACTTATATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
3776 4339 8.268605 GGGAGTAAATAATTGGAGAAGTCTCTT 58.731 37.037 8.19 0.00 42.48 2.85
3777 4340 9.674068 GGAGTAAATAATTGGAGAAGTCTCTTT 57.326 33.333 8.19 3.03 42.48 2.52
3855 4418 7.232188 ACGATATCAGATCCAGGTAAAGACTA 58.768 38.462 3.12 0.00 0.00 2.59
3856 4419 7.392113 ACGATATCAGATCCAGGTAAAGACTAG 59.608 40.741 3.12 0.00 0.00 2.57
3872 4435 3.646637 AGACTAGCACCACTTAACAAGGT 59.353 43.478 0.00 0.00 35.65 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 0.541863 AACTAGGGAAGCGTGGGATG 59.458 55.000 0.00 0.00 0.00 3.51
63 64 1.737363 GCGCTCTCACAACTAGGGAAG 60.737 57.143 0.00 0.00 0.00 3.46
99 100 3.050275 GAAGCCGTCTGCCACCAC 61.050 66.667 0.00 0.00 42.71 4.16
110 111 3.958147 ATGACCACCGCAGAAGCCG 62.958 63.158 0.00 0.00 37.52 5.52
112 113 1.639298 GACATGACCACCGCAGAAGC 61.639 60.000 0.00 0.00 37.42 3.86
122 123 0.900182 AGAGTCCAGCGACATGACCA 60.900 55.000 0.00 0.00 41.87 4.02
149 150 3.523806 GACTCAGTCCTTCAGCACC 57.476 57.895 0.00 0.00 0.00 5.01
176 177 3.506810 GACATCAAACTCCTCGAGTCAG 58.493 50.000 12.31 9.29 42.59 3.51
177 178 2.095212 CGACATCAAACTCCTCGAGTCA 60.095 50.000 12.31 0.00 42.59 3.41
184 185 0.620556 ATGGCCGACATCAAACTCCT 59.379 50.000 0.00 0.00 33.53 3.69
197 198 0.391528 TGACACTGACATGATGGCCG 60.392 55.000 0.00 0.00 0.00 6.13
200 201 3.464907 GAGGATGACACTGACATGATGG 58.535 50.000 0.00 0.00 0.00 3.51
207 208 3.357203 TGTAGAGGAGGATGACACTGAC 58.643 50.000 0.00 0.00 0.00 3.51
209 210 2.100584 GCTGTAGAGGAGGATGACACTG 59.899 54.545 0.00 0.00 0.00 3.66
215 216 1.959985 ACGATGCTGTAGAGGAGGATG 59.040 52.381 0.00 0.00 0.00 3.51
216 217 2.235016 GACGATGCTGTAGAGGAGGAT 58.765 52.381 0.00 0.00 0.00 3.24
227 228 1.142748 GAGGTGGAGGACGATGCTG 59.857 63.158 0.00 0.00 0.00 4.41
229 230 1.617947 AAGGAGGTGGAGGACGATGC 61.618 60.000 0.00 0.00 0.00 3.91
231 232 0.978146 CCAAGGAGGTGGAGGACGAT 60.978 60.000 0.00 0.00 41.65 3.73
233 234 2.982130 CCAAGGAGGTGGAGGACG 59.018 66.667 0.00 0.00 41.65 4.79
266 267 3.127533 CCGCCTTCAAAGCCCTCG 61.128 66.667 0.00 0.00 0.00 4.63
275 276 1.900351 CAGGAGATGACCGCCTTCA 59.100 57.895 0.00 0.00 42.87 3.02
282 283 1.028868 GCAACCAGCAGGAGATGACC 61.029 60.000 0.35 0.00 44.79 4.02
293 294 1.876156 GTGGAGCTATATGCAACCAGC 59.124 52.381 8.33 8.33 45.38 4.85
294 295 2.105477 AGGTGGAGCTATATGCAACCAG 59.895 50.000 0.00 0.00 45.38 4.00
296 297 2.104792 TGAGGTGGAGCTATATGCAACC 59.895 50.000 0.00 0.00 45.94 3.77
300 301 3.397482 CAAGTGAGGTGGAGCTATATGC 58.603 50.000 0.00 0.00 43.29 3.14
302 303 3.928754 TCCAAGTGAGGTGGAGCTATAT 58.071 45.455 0.00 0.00 40.33 0.86
303 304 3.398318 TCCAAGTGAGGTGGAGCTATA 57.602 47.619 0.00 0.00 40.33 1.31
318 319 1.376037 GCCCTCGACAGGTTCCAAG 60.376 63.158 0.00 0.00 38.30 3.61
327 328 0.327924 AATTGTCATGGCCCTCGACA 59.672 50.000 13.35 13.35 37.87 4.35
329 330 0.107214 GGAATTGTCATGGCCCTCGA 60.107 55.000 0.00 0.00 0.00 4.04
332 333 2.413406 AGGGAATTGTCATGGCCCT 58.587 52.632 0.00 0.00 44.17 5.19
333 334 2.310538 CTTAGGGAATTGTCATGGCCC 58.689 52.381 0.00 0.00 39.12 5.80
334 335 2.952310 GACTTAGGGAATTGTCATGGCC 59.048 50.000 0.00 0.00 0.00 5.36
347 348 1.270358 GCCATCCGCTTAGACTTAGGG 60.270 57.143 0.00 0.00 0.00 3.53
354 355 1.756950 ACCTCGCCATCCGCTTAGA 60.757 57.895 0.00 0.00 36.73 2.10
360 361 1.884464 CATGTCACCTCGCCATCCG 60.884 63.158 0.00 0.00 38.61 4.18
365 366 2.436646 CCACCATGTCACCTCGCC 60.437 66.667 0.00 0.00 0.00 5.54
372 373 3.114643 TCCTCTATCACCACCATGTCA 57.885 47.619 0.00 0.00 0.00 3.58
374 375 4.104086 TCTTTCCTCTATCACCACCATGT 58.896 43.478 0.00 0.00 0.00 3.21
378 379 3.682999 GCCTTCTTTCCTCTATCACCACC 60.683 52.174 0.00 0.00 0.00 4.61
383 384 2.695666 CTCCGCCTTCTTTCCTCTATCA 59.304 50.000 0.00 0.00 0.00 2.15
385 386 3.033659 TCTCCGCCTTCTTTCCTCTAT 57.966 47.619 0.00 0.00 0.00 1.98
387 388 1.484240 CATCTCCGCCTTCTTTCCTCT 59.516 52.381 0.00 0.00 0.00 3.69
390 391 1.066143 TCACATCTCCGCCTTCTTTCC 60.066 52.381 0.00 0.00 0.00 3.13
392 393 1.065854 CCTCACATCTCCGCCTTCTTT 60.066 52.381 0.00 0.00 0.00 2.52
396 397 0.616111 ACTCCTCACATCTCCGCCTT 60.616 55.000 0.00 0.00 0.00 4.35
399 400 1.142748 CCACTCCTCACATCTCCGC 59.857 63.158 0.00 0.00 0.00 5.54
400 401 1.142748 GCCACTCCTCACATCTCCG 59.857 63.158 0.00 0.00 0.00 4.63
417 418 0.237235 CGTCGAGAGGCATCTAGAGC 59.763 60.000 11.59 6.28 37.79 4.09
431 432 2.287644 TCGGATATAAAACGCTCGTCGA 59.712 45.455 6.82 0.00 41.67 4.20
434 435 3.425577 TGTCGGATATAAAACGCTCGT 57.574 42.857 0.00 0.00 0.00 4.18
436 437 5.900339 TCATTGTCGGATATAAAACGCTC 57.100 39.130 0.00 0.00 0.00 5.03
449 450 2.313717 CTGCCGCACATCATTGTCGG 62.314 60.000 10.55 10.55 43.42 4.79
453 454 2.777972 CCCCTGCCGCACATCATTG 61.778 63.158 0.00 0.00 0.00 2.82
458 459 4.431131 CCTTCCCCTGCCGCACAT 62.431 66.667 0.00 0.00 0.00 3.21
488 489 5.163794 CCGACTAGTTTCTCAGAGAGAGTTC 60.164 48.000 3.68 0.00 44.98 3.01
491 492 3.625764 CCCGACTAGTTTCTCAGAGAGAG 59.374 52.174 0.00 0.37 46.14 3.20
508 509 1.539827 CCATTTTTCCTGTCACCCGAC 59.460 52.381 0.00 0.00 42.93 4.79
511 512 2.497273 CCATCCATTTTTCCTGTCACCC 59.503 50.000 0.00 0.00 0.00 4.61
514 515 5.421693 CCATTACCATCCATTTTTCCTGTCA 59.578 40.000 0.00 0.00 0.00 3.58
519 520 4.202111 CGACCCATTACCATCCATTTTTCC 60.202 45.833 0.00 0.00 0.00 3.13
533 534 2.852714 TACCCCTTCTCGACCCATTA 57.147 50.000 0.00 0.00 0.00 1.90
568 569 3.623960 CCACAGACGTGTTTTCCACTAAA 59.376 43.478 0.00 0.00 41.93 1.85
570 571 2.431419 TCCACAGACGTGTTTTCCACTA 59.569 45.455 0.00 0.00 41.93 2.74
574 575 2.285977 ACTTCCACAGACGTGTTTTCC 58.714 47.619 0.00 0.00 41.93 3.13
581 582 5.443283 TGGAGTATATACTTCCACAGACGT 58.557 41.667 20.93 0.00 36.50 4.34
585 586 5.934625 GCCAATGGAGTATATACTTCCACAG 59.065 44.000 24.41 20.42 36.80 3.66
588 589 5.013079 CCTGCCAATGGAGTATATACTTCCA 59.987 44.000 24.26 24.26 37.66 3.53
591 592 6.558775 TCTTCCTGCCAATGGAGTATATACTT 59.441 38.462 16.46 0.00 36.50 2.24
594 595 5.485353 CCTCTTCCTGCCAATGGAGTATATA 59.515 44.000 2.05 0.00 34.76 0.86
595 596 4.288105 CCTCTTCCTGCCAATGGAGTATAT 59.712 45.833 2.05 0.00 34.76 0.86
615 616 6.649973 GGAGTGTACTTTTAAAGTCCTTCCTC 59.350 42.308 14.03 12.19 41.77 3.71
616 617 6.329460 AGGAGTGTACTTTTAAAGTCCTTCCT 59.671 38.462 14.03 17.01 41.22 3.36
617 618 6.427242 CAGGAGTGTACTTTTAAAGTCCTTCC 59.573 42.308 14.03 15.34 41.22 3.46
619 620 6.896883 ACAGGAGTGTACTTTTAAAGTCCTT 58.103 36.000 14.03 3.38 41.22 3.36
621 622 6.202379 GTGACAGGAGTGTACTTTTAAAGTCC 59.798 42.308 14.03 8.80 41.77 3.85
623 624 5.751990 CGTGACAGGAGTGTACTTTTAAAGT 59.248 40.000 14.99 14.99 45.40 2.66
624 625 5.751990 ACGTGACAGGAGTGTACTTTTAAAG 59.248 40.000 2.81 2.81 36.88 1.85
628 629 3.714391 GACGTGACAGGAGTGTACTTTT 58.286 45.455 0.00 0.00 36.88 2.27
641 642 2.358582 TCTAAACTCAACCGACGTGACA 59.641 45.455 0.00 0.00 0.00 3.58
643 644 3.713858 TTCTAAACTCAACCGACGTGA 57.286 42.857 0.00 0.00 0.00 4.35
677 678 2.225293 TGGAGGCTGAGTTACAGGTACT 60.225 50.000 0.00 0.00 45.82 2.73
678 679 2.176889 TGGAGGCTGAGTTACAGGTAC 58.823 52.381 0.00 0.00 45.82 3.34
679 680 2.615986 TGGAGGCTGAGTTACAGGTA 57.384 50.000 0.00 0.00 45.82 3.08
680 681 1.958288 ATGGAGGCTGAGTTACAGGT 58.042 50.000 0.00 0.00 45.82 4.00
681 682 3.356529 AAATGGAGGCTGAGTTACAGG 57.643 47.619 0.00 0.00 45.82 4.00
683 684 7.775053 AAAAATAAATGGAGGCTGAGTTACA 57.225 32.000 0.00 0.00 0.00 2.41
709 710 6.126863 AGGATGAGGTACTGTTCATTTTCA 57.873 37.500 8.66 0.00 41.55 2.69
710 711 6.655003 TGAAGGATGAGGTACTGTTCATTTTC 59.345 38.462 16.00 16.00 41.55 2.29
722 723 3.782523 AGCTCCATTTGAAGGATGAGGTA 59.217 43.478 0.00 0.00 33.99 3.08
727 728 1.945394 CGGAGCTCCATTTGAAGGATG 59.055 52.381 31.67 7.51 33.99 3.51
729 730 0.984230 ACGGAGCTCCATTTGAAGGA 59.016 50.000 31.67 0.00 35.14 3.36
757 794 3.828921 TCTTTATAGCCGCCTCTGTCTA 58.171 45.455 0.00 0.00 0.00 2.59
764 801 4.130118 CAACAGAATCTTTATAGCCGCCT 58.870 43.478 0.00 0.00 0.00 5.52
769 806 9.334693 CAACAACTTCAACAGAATCTTTATAGC 57.665 33.333 0.00 0.00 0.00 2.97
786 823 4.757149 ACCTCAGATGCTTACAACAACTTC 59.243 41.667 0.00 0.00 0.00 3.01
826 865 0.802494 CACGCACATGGACCCTTTAC 59.198 55.000 0.00 0.00 0.00 2.01
936 1014 3.461773 CGAGGTGCGGTGGGATCT 61.462 66.667 0.00 0.00 36.03 2.75
977 1055 4.082523 GCAGTAGCGGGGCACTCA 62.083 66.667 0.00 0.00 0.00 3.41
1085 1163 3.057946 GGTGAAGGTGTTCTTGATCTTGC 60.058 47.826 0.00 0.00 35.50 4.01
1096 1174 0.106918 TTCTTGCCGGTGAAGGTGTT 60.107 50.000 1.90 0.00 0.00 3.32
1118 1196 3.692406 GGAAGGGTGAGTCGGCGT 61.692 66.667 6.85 0.00 0.00 5.68
1170 1248 2.024273 AGGGACCAGAAATCTCGGACTA 60.024 50.000 0.00 0.00 0.00 2.59
1171 1249 1.196012 GGGACCAGAAATCTCGGACT 58.804 55.000 0.00 0.00 0.00 3.85
1181 1260 1.553417 CCAAGAGAGGAGGGACCAGAA 60.553 57.143 0.00 0.00 42.04 3.02
1184 1263 1.089978 TACCAAGAGAGGAGGGACCA 58.910 55.000 0.00 0.00 42.04 4.02
1188 1267 1.827969 CACTGTACCAAGAGAGGAGGG 59.172 57.143 0.00 0.00 0.00 4.30
1699 1782 6.064717 AGTGAAACAAAAGGATTAGCACTCT 58.935 36.000 0.00 0.00 41.43 3.24
1701 1784 6.998673 ACTAGTGAAACAAAAGGATTAGCACT 59.001 34.615 0.00 0.00 41.43 4.40
1729 1812 5.062683 CACATGTAATTCGTCCACTCTTCAG 59.937 44.000 0.00 0.00 0.00 3.02
1741 1824 4.418013 TTGCACCTTCACATGTAATTCG 57.582 40.909 0.00 0.00 0.00 3.34
1770 1854 0.996762 TATCCCCCACCCCCATGTTC 60.997 60.000 0.00 0.00 0.00 3.18
1823 2298 9.823647 TTGTTTATCTTTAGCTGATCCTCTTAG 57.176 33.333 0.00 0.00 0.00 2.18
1846 2321 4.021456 GCTAAACTGGGCTACCAATTTTGT 60.021 41.667 0.00 0.00 43.16 2.83
1847 2322 4.494484 GCTAAACTGGGCTACCAATTTTG 58.506 43.478 0.00 0.00 43.16 2.44
1848 2323 3.513912 GGCTAAACTGGGCTACCAATTTT 59.486 43.478 0.00 0.00 43.16 1.82
1853 2328 1.211949 GATGGCTAAACTGGGCTACCA 59.788 52.381 0.00 0.00 46.94 3.25
1854 2329 1.211949 TGATGGCTAAACTGGGCTACC 59.788 52.381 0.00 0.00 37.24 3.18
1890 2365 6.931281 AGAAATCACCATATCCTGTATTGACG 59.069 38.462 0.00 0.00 0.00 4.35
1921 2396 8.183536 CAGCACATAACTGTTGCTTCAAATATA 58.816 33.333 2.69 0.00 37.53 0.86
1954 2455 9.077885 GATCCAGGATAAAACATTAGGCAAATA 57.922 33.333 0.32 0.00 0.00 1.40
1957 2458 5.530915 CGATCCAGGATAAAACATTAGGCAA 59.469 40.000 0.32 0.00 0.00 4.52
1973 2474 4.021894 CCTAGAAAGGTGATACGATCCAGG 60.022 50.000 0.00 0.00 38.19 4.45
2029 2530 2.991250 TGCCAGATTAGCTCTTCCAAC 58.009 47.619 0.00 0.00 29.16 3.77
2429 2934 2.210116 TCACTTTTTCACTCGTGGAGC 58.790 47.619 0.00 0.00 32.04 4.70
2497 3044 6.214191 TCAAGCAAGTGAAACACCATTTAA 57.786 33.333 0.00 0.00 41.43 1.52
2611 3160 6.778069 TGTGGATTATGTTAGGAACCAAACAA 59.222 34.615 0.00 0.00 38.05 2.83
2670 3219 3.766591 TGGCGAATAAATTGGTTCCACAT 59.233 39.130 0.00 0.00 0.00 3.21
2676 3225 5.722021 AAGTTCTGGCGAATAAATTGGTT 57.278 34.783 0.00 0.00 0.00 3.67
2710 3260 2.228822 GTGTTCAATTGGCTACCACAGG 59.771 50.000 5.42 0.00 30.78 4.00
2794 3344 9.638239 AAACATAACAGCACATTATTTTGGTAG 57.362 29.630 0.00 0.00 0.00 3.18
2855 3407 1.409521 GCCCCACAACACCTGCATATA 60.410 52.381 0.00 0.00 0.00 0.86
2861 3413 0.468029 AAGAAGCCCCACAACACCTG 60.468 55.000 0.00 0.00 0.00 4.00
2945 3497 2.416547 CCGACGTGCTTTTCTTGATCAT 59.583 45.455 0.00 0.00 0.00 2.45
3009 3561 1.234615 TGCGACAACTAAGCTTGGCC 61.235 55.000 9.86 0.00 0.00 5.36
3015 3567 1.069227 CCAGGTTTGCGACAACTAAGC 60.069 52.381 0.00 0.00 0.00 3.09
3131 3683 4.437930 GGATGCTTTGAACTGTCTGCATAC 60.438 45.833 0.00 0.00 36.65 2.39
3207 3759 5.781210 TCAGCTCCTCAATGTACATAGAG 57.219 43.478 9.21 13.35 0.00 2.43
3291 3843 3.744660 CAGAAGCTAGTGTTTCCCAAGT 58.255 45.455 0.00 0.00 34.54 3.16
3324 3878 8.041919 TGGTGTCATTCAAATATGCAATCAAAT 58.958 29.630 0.00 0.00 0.00 2.32
3326 3880 6.932947 TGGTGTCATTCAAATATGCAATCAA 58.067 32.000 0.00 0.00 0.00 2.57
3341 3895 4.081531 CACCCATAAAGCAATGGTGTCATT 60.082 41.667 10.70 0.00 44.29 2.57
3421 3977 4.057432 CCGCAAGTTTTGGTTTTCATGAT 58.943 39.130 0.00 0.00 0.00 2.45
3423 3979 3.245048 GTCCGCAAGTTTTGGTTTTCATG 59.755 43.478 0.00 0.00 0.00 3.07
3424 3980 3.118956 TGTCCGCAAGTTTTGGTTTTCAT 60.119 39.130 0.00 0.00 0.00 2.57
3426 3982 2.882324 TGTCCGCAAGTTTTGGTTTTC 58.118 42.857 0.00 0.00 0.00 2.29
3431 3992 2.791383 TTGATGTCCGCAAGTTTTGG 57.209 45.000 0.00 0.00 0.00 3.28
3433 3994 3.059166 GCAATTGATGTCCGCAAGTTTT 58.941 40.909 10.34 0.00 0.00 2.43
3446 4007 8.160106 TGTTATTAACCCAAAAAGGCAATTGAT 58.840 29.630 10.34 0.00 35.39 2.57
3577 4138 8.482128 AGAGGGAGTACATCATTAGAAAGAAAG 58.518 37.037 0.00 0.00 0.00 2.62
3593 4154 9.145442 ACTTATATTTAGGAACAGAGGGAGTAC 57.855 37.037 0.00 0.00 0.00 2.73
3594 4155 9.725206 AACTTATATTTAGGAACAGAGGGAGTA 57.275 33.333 0.00 0.00 0.00 2.59
3595 4156 8.625467 AACTTATATTTAGGAACAGAGGGAGT 57.375 34.615 0.00 0.00 0.00 3.85
3596 4157 9.907229 AAAACTTATATTTAGGAACAGAGGGAG 57.093 33.333 0.00 0.00 0.00 4.30
3618 4179 9.827411 GGTTCATAGTGAAATCTCTACAAAAAC 57.173 33.333 0.00 0.00 38.22 2.43
3619 4180 9.567776 TGGTTCATAGTGAAATCTCTACAAAAA 57.432 29.630 0.00 0.00 38.22 1.94
3620 4181 8.999431 GTGGTTCATAGTGAAATCTCTACAAAA 58.001 33.333 0.00 0.00 38.22 2.44
3621 4182 8.154203 TGTGGTTCATAGTGAAATCTCTACAAA 58.846 33.333 0.00 0.00 38.22 2.83
3622 4183 7.676004 TGTGGTTCATAGTGAAATCTCTACAA 58.324 34.615 0.00 0.00 38.22 2.41
3623 4184 7.239763 TGTGGTTCATAGTGAAATCTCTACA 57.760 36.000 0.00 0.00 38.22 2.74
3624 4185 9.250624 GTATGTGGTTCATAGTGAAATCTCTAC 57.749 37.037 0.00 0.00 38.22 2.59
3625 4186 8.135529 CGTATGTGGTTCATAGTGAAATCTCTA 58.864 37.037 0.00 0.00 38.22 2.43
3626 4187 6.980978 CGTATGTGGTTCATAGTGAAATCTCT 59.019 38.462 0.00 0.00 38.22 3.10
3627 4188 6.201044 CCGTATGTGGTTCATAGTGAAATCTC 59.799 42.308 0.00 0.00 38.22 2.75
3628 4189 6.049149 CCGTATGTGGTTCATAGTGAAATCT 58.951 40.000 0.00 0.00 38.22 2.40
3629 4190 6.046593 TCCGTATGTGGTTCATAGTGAAATC 58.953 40.000 0.00 0.00 38.22 2.17
3630 4191 5.984725 TCCGTATGTGGTTCATAGTGAAAT 58.015 37.500 0.00 0.00 38.22 2.17
3631 4192 5.408880 TCCGTATGTGGTTCATAGTGAAA 57.591 39.130 0.00 0.00 38.22 2.69
3632 4193 5.105106 ACATCCGTATGTGGTTCATAGTGAA 60.105 40.000 0.00 0.00 44.79 3.18
3633 4194 4.404394 ACATCCGTATGTGGTTCATAGTGA 59.596 41.667 0.00 0.00 44.79 3.41
3634 4195 4.693283 ACATCCGTATGTGGTTCATAGTG 58.307 43.478 0.00 0.00 44.79 2.74
3635 4196 6.665992 ATACATCCGTATGTGGTTCATAGT 57.334 37.500 3.56 0.00 45.99 2.12
3640 4201 9.193133 GCATATATATACATCCGTATGTGGTTC 57.807 37.037 3.56 0.00 45.99 3.62
3641 4202 8.700973 TGCATATATATACATCCGTATGTGGTT 58.299 33.333 3.56 0.00 45.99 3.67
3642 4203 8.245195 TGCATATATATACATCCGTATGTGGT 57.755 34.615 3.56 0.00 45.99 4.16
3643 4204 9.710900 AATGCATATATATACATCCGTATGTGG 57.289 33.333 8.59 0.00 45.99 4.17
3671 4232 8.677300 GGAGCAAAATGAATGAATCTACACTTA 58.323 33.333 0.00 0.00 0.00 2.24
3672 4233 7.363268 GGGAGCAAAATGAATGAATCTACACTT 60.363 37.037 0.00 0.00 0.00 3.16
3673 4234 6.096001 GGGAGCAAAATGAATGAATCTACACT 59.904 38.462 0.00 0.00 0.00 3.55
3674 4235 6.096001 AGGGAGCAAAATGAATGAATCTACAC 59.904 38.462 0.00 0.00 0.00 2.90
3675 4236 6.189859 AGGGAGCAAAATGAATGAATCTACA 58.810 36.000 0.00 0.00 0.00 2.74
3676 4237 6.705863 AGGGAGCAAAATGAATGAATCTAC 57.294 37.500 0.00 0.00 0.00 2.59
3681 4242 9.507329 GACTATATAGGGAGCAAAATGAATGAA 57.493 33.333 14.25 0.00 0.00 2.57
3682 4243 8.103305 GGACTATATAGGGAGCAAAATGAATGA 58.897 37.037 14.25 0.00 0.00 2.57
3683 4244 7.884877 TGGACTATATAGGGAGCAAAATGAATG 59.115 37.037 14.25 0.00 0.00 2.67
3684 4245 7.885399 GTGGACTATATAGGGAGCAAAATGAAT 59.115 37.037 14.25 0.00 0.00 2.57
3685 4246 7.224297 GTGGACTATATAGGGAGCAAAATGAA 58.776 38.462 14.25 0.00 0.00 2.57
3686 4247 6.239887 GGTGGACTATATAGGGAGCAAAATGA 60.240 42.308 14.25 0.00 0.00 2.57
3687 4248 5.940470 GGTGGACTATATAGGGAGCAAAATG 59.060 44.000 14.25 0.00 0.00 2.32
3688 4249 5.852250 AGGTGGACTATATAGGGAGCAAAAT 59.148 40.000 14.25 0.00 0.00 1.82
3689 4250 5.224441 AGGTGGACTATATAGGGAGCAAAA 58.776 41.667 14.25 0.00 0.00 2.44
3690 4251 4.827789 AGGTGGACTATATAGGGAGCAAA 58.172 43.478 14.25 0.00 0.00 3.68
3691 4252 4.487282 AGGTGGACTATATAGGGAGCAA 57.513 45.455 14.25 0.00 0.00 3.91
3692 4253 4.606697 ACTAGGTGGACTATATAGGGAGCA 59.393 45.833 14.25 0.00 0.00 4.26
3693 4254 4.951094 CACTAGGTGGACTATATAGGGAGC 59.049 50.000 14.25 6.81 0.00 4.70
3708 4269 8.472007 AGTCTTTATAGAGATTCCACTAGGTG 57.528 38.462 0.00 0.00 35.89 4.00
3726 4287 8.645110 CCCTCCGTTCCTAAATATAAGTCTTTA 58.355 37.037 0.00 0.00 0.00 1.85
3727 4288 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
3728 4289 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
3729 4290 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
3730 4291 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
3731 4292 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
3732 4293 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
3733 4294 8.551682 TTTACTCCCTCCGTTCCTAAATATAA 57.448 34.615 0.00 0.00 0.00 0.98
3734 4295 8.731591 ATTTACTCCCTCCGTTCCTAAATATA 57.268 34.615 0.00 0.00 0.00 0.86
3735 4296 7.628501 ATTTACTCCCTCCGTTCCTAAATAT 57.371 36.000 0.00 0.00 0.00 1.28
3736 4297 8.551682 TTATTTACTCCCTCCGTTCCTAAATA 57.448 34.615 0.00 0.00 0.00 1.40
3737 4298 5.970501 ATTTACTCCCTCCGTTCCTAAAT 57.029 39.130 0.00 0.00 0.00 1.40
3738 4299 6.872585 TTATTTACTCCCTCCGTTCCTAAA 57.127 37.500 0.00 0.00 0.00 1.85
3739 4300 7.277396 CAATTATTTACTCCCTCCGTTCCTAA 58.723 38.462 0.00 0.00 0.00 2.69
3740 4301 6.183361 CCAATTATTTACTCCCTCCGTTCCTA 60.183 42.308 0.00 0.00 0.00 2.94
3741 4302 5.397559 CCAATTATTTACTCCCTCCGTTCCT 60.398 44.000 0.00 0.00 0.00 3.36
3742 4303 4.820173 CCAATTATTTACTCCCTCCGTTCC 59.180 45.833 0.00 0.00 0.00 3.62
3743 4304 5.677567 TCCAATTATTTACTCCCTCCGTTC 58.322 41.667 0.00 0.00 0.00 3.95
3744 4305 5.427481 TCTCCAATTATTTACTCCCTCCGTT 59.573 40.000 0.00 0.00 0.00 4.44
3745 4306 4.966805 TCTCCAATTATTTACTCCCTCCGT 59.033 41.667 0.00 0.00 0.00 4.69
3746 4307 5.546621 TCTCCAATTATTTACTCCCTCCG 57.453 43.478 0.00 0.00 0.00 4.63
3747 4308 6.901300 ACTTCTCCAATTATTTACTCCCTCC 58.099 40.000 0.00 0.00 0.00 4.30
3748 4309 7.797062 AGACTTCTCCAATTATTTACTCCCTC 58.203 38.462 0.00 0.00 0.00 4.30
3749 4310 7.625682 AGAGACTTCTCCAATTATTTACTCCCT 59.374 37.037 2.47 0.00 43.88 4.20
3750 4311 7.797062 AGAGACTTCTCCAATTATTTACTCCC 58.203 38.462 2.47 0.00 43.88 4.30
3751 4312 9.674068 AAAGAGACTTCTCCAATTATTTACTCC 57.326 33.333 2.47 0.00 43.88 3.85
3814 4377 7.378461 TCTGATATCGTTTGCTTTCAAAACAAC 59.622 33.333 0.00 0.00 43.12 3.32
3855 4418 3.849563 TGTACCTTGTTAAGTGGTGCT 57.150 42.857 9.63 0.00 37.37 4.40
3856 4419 5.447624 AAATGTACCTTGTTAAGTGGTGC 57.552 39.130 0.00 0.00 37.07 5.01


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

AutoCloner maintained by Alex Coulton.