Multiple sequence alignment - TraesCS7A01G189900

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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 TraesCS7A01G189900 chr7A 100.000 4447 0 0 1 4447 147072476 147068030 0.000000e+00 8213.0
1 TraesCS7A01G189900 chr7B 94.583 2160 77 15 782 2912 108729901 108727753 0.000000e+00 3304.0
2 TraesCS7A01G189900 chr7B 94.485 1088 35 11 2914 3978 108727711 108726626 0.000000e+00 1653.0
3 TraesCS7A01G189900 chr7B 83.301 521 66 10 3 519 108830318 108829815 1.130000e-125 460.0
4 TraesCS7A01G189900 chr7B 91.813 171 7 4 4015 4180 108726628 108726460 9.620000e-57 231.0
5 TraesCS7A01G189900 chr7B 95.745 47 0 2 3783 3828 108726738 108726693 1.720000e-09 75.0
6 TraesCS7A01G189900 chr7B 94.737 38 2 0 4053 4090 120391278 120391241 4.800000e-05 60.2
7 TraesCS7A01G189900 chr7D 92.886 1715 75 23 700 2387 146390874 146389180 0.000000e+00 2447.0
8 TraesCS7A01G189900 chr7D 94.521 1442 59 13 2914 4349 146388677 146387250 0.000000e+00 2207.0
9 TraesCS7A01G189900 chr7D 83.029 713 82 18 3 695 146391609 146390916 1.060000e-170 610.0
10 TraesCS7A01G189900 chr7D 89.655 493 16 13 2428 2912 146389184 146388719 2.960000e-166 595.0
11 TraesCS7A01G189900 chr7D 80.213 657 89 28 4 644 236578678 236578047 5.240000e-124 455.0
12 TraesCS7A01G189900 chr7D 93.182 44 2 1 4053 4096 621127310 621127352 3.710000e-06 63.9


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 TraesCS7A01G189900 chr7A 147068030 147072476 4446 True 8213.00 8213 100.00000 1 4447 1 chr7A.!!$R1 4446
1 TraesCS7A01G189900 chr7B 108726460 108729901 3441 True 1315.75 3304 94.15650 782 4180 4 chr7B.!!$R3 3398
2 TraesCS7A01G189900 chr7B 108829815 108830318 503 True 460.00 460 83.30100 3 519 1 chr7B.!!$R1 516
3 TraesCS7A01G189900 chr7D 146387250 146391609 4359 True 1464.75 2447 90.02275 3 4349 4 chr7D.!!$R2 4346
4 TraesCS7A01G189900 chr7D 236578047 236578678 631 True 455.00 455 80.21300 4 644 1 chr7D.!!$R1 640

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
657 678 0.178767 CAATGTCAGAGGATCCGGCA 59.821 55.000 5.98 0.0 33.66 5.69 F
1266 1354 0.392706 CCAACAAACCCTTCAAGGCC 59.607 55.000 0.00 0.0 32.73 5.19 F
1267 1355 1.118838 CAACAAACCCTTCAAGGCCA 58.881 50.000 5.01 0.0 32.73 5.36 F
1664 1755 1.131126 CCGCAGCTCGTCATTTTGATT 59.869 47.619 5.15 0.0 36.19 2.57 F
3270 3427 1.120530 ACCCATGTATCTGGACGGAC 58.879 55.000 0.00 0.0 38.69 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1677 1768 1.774639 AAAATGCAAGCAGCTGTTCG 58.225 45.000 16.64 0.0 45.94 3.95 R
3254 3411 3.085443 GACTGTCCGTCCAGATACATG 57.915 52.381 5.66 0.0 36.62 3.21 R
3270 3427 6.725246 AGAAACAAAGTTCAAATACGGACTG 58.275 36.000 0.00 0.0 0.00 3.51 R
3330 3488 1.455773 TCGCCATCTCTCCCGTCAT 60.456 57.895 0.00 0.0 0.00 3.06 R
4383 4571 0.237235 GCGCACGGAGAAAAATGTGA 59.763 50.000 0.30 0.0 34.29 3.58 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
32 33 7.119997 GTGTCGCAATGTCTATTCTTTCATAC 58.880 38.462 0.00 0.00 0.00 2.39
45 46 6.801539 TTCTTTCATACTCACCAATCACAC 57.198 37.500 0.00 0.00 0.00 3.82
58 59 5.122239 CACCAATCACACGATAAATCAGTGT 59.878 40.000 11.94 11.94 41.53 3.55
106 110 3.921119 TGTTGTTGTCAGATGCATTCC 57.079 42.857 0.00 0.00 0.00 3.01
116 120 4.571580 GTCAGATGCATTCCTCTTTCAGAG 59.428 45.833 0.00 0.00 41.96 3.35
182 186 7.003939 TCATACATATGCAACAAGAGAAACG 57.996 36.000 1.58 0.00 33.76 3.60
225 230 8.352942 CAAAAACTCAGAAGCTTGTTATTACCT 58.647 33.333 2.10 0.00 0.00 3.08
255 260 3.416156 GTGATGGAGCAAGGAAGTTTCT 58.584 45.455 0.00 0.00 0.00 2.52
256 261 3.823304 GTGATGGAGCAAGGAAGTTTCTT 59.177 43.478 0.00 0.00 0.00 2.52
257 262 4.074970 TGATGGAGCAAGGAAGTTTCTTC 58.925 43.478 0.00 1.39 0.00 2.87
261 266 1.876156 AGCAAGGAAGTTTCTTCAGCG 59.124 47.619 10.88 0.00 0.00 5.18
268 273 1.377333 GTTTCTTCAGCGGAGGGGG 60.377 63.158 0.00 0.00 0.00 5.40
296 301 1.419012 GCAGACTGGGATGATGATGGA 59.581 52.381 4.26 0.00 0.00 3.41
299 304 3.583526 CAGACTGGGATGATGATGGAGAT 59.416 47.826 0.00 0.00 0.00 2.75
307 312 0.673022 GATGATGGAGATGAGCCGCC 60.673 60.000 0.00 0.00 0.00 6.13
371 376 2.546321 CGCGAGCAGACACACAAC 59.454 61.111 0.00 0.00 0.00 3.32
392 397 2.092291 GTCAACGAATCGGCAGCGA 61.092 57.895 7.80 0.00 0.00 4.93
394 399 2.048597 AACGAATCGGCAGCGACA 60.049 55.556 7.80 0.00 0.00 4.35
398 403 1.351430 CGAATCGGCAGCGACAAAGA 61.351 55.000 0.00 0.00 0.00 2.52
434 439 1.081242 GGCGAACCGACAACGACTA 60.081 57.895 0.00 0.00 42.66 2.59
438 443 0.706729 GAACCGACAACGACTAAGCG 59.293 55.000 0.00 0.00 42.66 4.68
540 559 2.313267 TTCGACGGGAACAACAAGC 58.687 52.632 0.00 0.00 0.00 4.01
541 560 1.161563 TTCGACGGGAACAACAAGCC 61.162 55.000 0.00 0.00 0.00 4.35
551 572 4.202253 GGGAACAACAAGCCTCTTTCATTT 60.202 41.667 0.00 0.00 0.00 2.32
574 595 3.806316 TCTTTTTCGATTTGGACGAGC 57.194 42.857 0.00 0.00 40.72 5.03
613 634 6.001460 ACAATACGTCCATTTTTCTGAAGGA 58.999 36.000 0.00 0.00 0.00 3.36
623 644 6.453092 CATTTTTCTGAAGGAATGTCAAGCT 58.547 36.000 15.02 0.00 33.53 3.74
644 665 3.930336 TGTGACATCTCTCCACAATGTC 58.070 45.455 7.57 7.57 46.06 3.06
652 673 3.703556 TCTCTCCACAATGTCAGAGGATC 59.296 47.826 15.30 0.00 34.30 3.36
657 678 0.178767 CAATGTCAGAGGATCCGGCA 59.821 55.000 5.98 0.00 33.66 5.69
694 716 3.393106 CCTGGTTGGCCCCAATGC 61.393 66.667 0.00 0.00 38.28 3.56
709 769 4.008330 CCCAATGCCAGATGCTTATAGAG 58.992 47.826 0.00 0.00 42.00 2.43
721 781 9.356433 CAGATGCTTATAGAGATAAGATGTGTG 57.644 37.037 8.54 0.38 45.16 3.82
722 782 9.087871 AGATGCTTATAGAGATAAGATGTGTGT 57.912 33.333 8.54 0.00 45.16 3.72
733 793 7.671302 AGATAAGATGTGTGTATGTGGGTATC 58.329 38.462 0.00 0.00 0.00 2.24
741 801 4.342665 TGTGTATGTGGGTATCTGCGATTA 59.657 41.667 0.00 0.00 0.00 1.75
742 802 5.011635 TGTGTATGTGGGTATCTGCGATTAT 59.988 40.000 0.00 0.00 0.00 1.28
743 803 6.209788 TGTGTATGTGGGTATCTGCGATTATA 59.790 38.462 0.00 0.00 0.00 0.98
744 804 7.093509 TGTGTATGTGGGTATCTGCGATTATAT 60.094 37.037 0.00 0.00 0.00 0.86
745 805 8.410912 GTGTATGTGGGTATCTGCGATTATATA 58.589 37.037 0.00 0.00 0.00 0.86
746 806 8.630037 TGTATGTGGGTATCTGCGATTATATAG 58.370 37.037 0.00 0.00 0.00 1.31
747 807 5.902681 TGTGGGTATCTGCGATTATATAGC 58.097 41.667 0.00 0.00 0.00 2.97
748 808 4.976731 GTGGGTATCTGCGATTATATAGCG 59.023 45.833 0.00 3.52 33.27 4.26
749 809 4.643334 TGGGTATCTGCGATTATATAGCGT 59.357 41.667 8.32 0.00 33.27 5.07
750 810 4.976731 GGGTATCTGCGATTATATAGCGTG 59.023 45.833 8.32 3.80 33.27 5.34
752 812 6.034591 GGTATCTGCGATTATATAGCGTGTT 58.965 40.000 8.32 2.43 33.27 3.32
770 830 5.049267 GCGTGTTAAAAAGTCCAGGAATACA 60.049 40.000 0.00 0.00 0.00 2.29
771 831 6.599437 CGTGTTAAAAAGTCCAGGAATACAG 58.401 40.000 0.00 0.00 0.00 2.74
773 833 7.119262 CGTGTTAAAAAGTCCAGGAATACAGAT 59.881 37.037 0.00 0.00 0.00 2.90
775 835 9.362151 TGTTAAAAAGTCCAGGAATACAGATTT 57.638 29.630 0.00 0.00 0.00 2.17
779 839 7.923414 AAAGTCCAGGAATACAGATTTGTAC 57.077 36.000 0.00 0.00 42.29 2.90
823 896 5.121221 ACCCAGAAAATCTTTAAGCAACG 57.879 39.130 0.00 0.00 0.00 4.10
970 1051 2.789203 GACGCCGTGCTAAGCTTCG 61.789 63.158 0.00 0.23 0.00 3.79
1025 1106 3.532155 GGCGACAGGAGAGGCGAT 61.532 66.667 0.00 0.00 0.00 4.58
1253 1341 1.691434 GGCCATTTCTTGGTCCAACAA 59.309 47.619 0.00 0.00 44.99 2.83
1255 1343 4.049860 GGCCATTTCTTGGTCCAACAAAC 61.050 47.826 7.15 0.00 44.99 2.93
1256 1344 3.727726 CCATTTCTTGGTCCAACAAACC 58.272 45.455 7.15 0.00 40.99 3.27
1258 1346 2.838637 TTCTTGGTCCAACAAACCCT 57.161 45.000 0.00 0.00 35.84 4.34
1260 1348 2.661718 TCTTGGTCCAACAAACCCTTC 58.338 47.619 0.00 0.00 35.84 3.46
1261 1349 2.024846 TCTTGGTCCAACAAACCCTTCA 60.025 45.455 0.00 0.00 35.84 3.02
1263 1351 2.383855 TGGTCCAACAAACCCTTCAAG 58.616 47.619 0.00 0.00 35.84 3.02
1264 1352 1.686587 GGTCCAACAAACCCTTCAAGG 59.313 52.381 0.00 0.00 34.30 3.61
1265 1353 1.068588 GTCCAACAAACCCTTCAAGGC 59.931 52.381 0.00 0.00 32.73 4.35
1266 1354 0.392706 CCAACAAACCCTTCAAGGCC 59.607 55.000 0.00 0.00 32.73 5.19
1267 1355 1.118838 CAACAAACCCTTCAAGGCCA 58.881 50.000 5.01 0.00 32.73 5.36
1268 1356 1.484240 CAACAAACCCTTCAAGGCCAA 59.516 47.619 5.01 0.00 32.73 4.52
1269 1357 1.872773 ACAAACCCTTCAAGGCCAAA 58.127 45.000 5.01 0.00 32.73 3.28
1270 1358 2.192263 ACAAACCCTTCAAGGCCAAAA 58.808 42.857 5.01 0.00 32.73 2.44
1271 1359 2.573915 ACAAACCCTTCAAGGCCAAAAA 59.426 40.909 5.01 0.00 32.73 1.94
1371 1460 2.543067 ATTGTCCGAAGCTGGAGGCC 62.543 60.000 0.00 0.00 43.05 5.19
1574 1663 6.128172 CCGTAAGATTCTTCAGCAAATCAGTT 60.128 38.462 1.27 0.00 43.02 3.16
1664 1755 1.131126 CCGCAGCTCGTCATTTTGATT 59.869 47.619 5.15 0.00 36.19 2.57
1666 1757 2.523015 GCAGCTCGTCATTTTGATTGG 58.477 47.619 0.00 0.00 0.00 3.16
1667 1758 2.095059 GCAGCTCGTCATTTTGATTGGT 60.095 45.455 0.00 0.00 0.00 3.67
1677 1768 9.405587 TCGTCATTTTGATTGGTCTTTAAATTC 57.594 29.630 0.00 0.00 0.00 2.17
1931 2024 2.027653 TGTCATATCGTTGGCAGGTCAA 60.028 45.455 0.00 0.00 0.00 3.18
1961 2054 1.299541 CCCCTAACAGTGCTAATGCG 58.700 55.000 0.00 0.00 43.34 4.73
1993 2086 2.364970 CAAGGAAGTGTGCCCAAATGAA 59.635 45.455 0.00 0.00 0.00 2.57
2017 2110 9.336171 GAAAGTTATTCTCTTCATGCTTCCTAT 57.664 33.333 0.00 0.00 0.00 2.57
2049 2157 4.122046 GGTTCTTGCAGTTGCTCATTTTT 58.878 39.130 5.62 0.00 42.66 1.94
2466 2574 9.754382 CAATCTGTAATTTATGCTGCCTTAATT 57.246 29.630 0.00 2.24 0.00 1.40
2480 2588 6.463049 GCTGCCTTAATTGATAGTCTGGTAGA 60.463 42.308 0.00 0.00 0.00 2.59
2504 2612 3.610040 ATATGTTGTCTGGCTGAACGA 57.390 42.857 0.00 0.00 0.00 3.85
2621 2729 3.861840 ACTCCATACGGATTTCACTGTG 58.138 45.455 0.17 0.17 41.79 3.66
2622 2730 3.260884 ACTCCATACGGATTTCACTGTGT 59.739 43.478 7.79 0.00 41.79 3.72
2806 2921 3.000727 GGTCGAATTTGTACCTGGAGTG 58.999 50.000 0.00 0.00 0.00 3.51
2887 3002 3.243501 GCAAATTTGTTGACCAGCTCTCA 60.244 43.478 19.03 0.00 0.00 3.27
2912 3027 6.989169 AGGAGCAAATTAGTTAGTAGCATGAG 59.011 38.462 0.00 0.00 0.00 2.90
2982 3137 8.641499 TTTCAGTGTAAGTAAGCAAATTTTGG 57.359 30.769 10.96 0.00 0.00 3.28
3043 3198 5.530915 TGCATGGGAGTTTAATATGTACTGC 59.469 40.000 0.00 0.00 0.00 4.40
3254 3411 8.706322 ATCAAAATACACCCTTAATATCACCC 57.294 34.615 0.00 0.00 0.00 4.61
3270 3427 1.120530 ACCCATGTATCTGGACGGAC 58.879 55.000 0.00 0.00 38.69 4.79
3330 3488 6.322456 CACTCTGTTCTTGTCCTAGGATATCA 59.678 42.308 16.27 5.52 0.00 2.15
3543 3701 7.985184 TGGTACATAGAAAGGTAAATAGCAGTG 59.015 37.037 0.00 0.00 0.00 3.66
3554 3712 7.112779 AGGTAAATAGCAGTGTAAATCAAGCT 58.887 34.615 0.00 0.00 40.82 3.74
3588 3746 6.870971 TTCTACACTGAAAATAAAACGGCT 57.129 33.333 0.00 0.00 0.00 5.52
3630 3788 5.412594 CGAGGATCATTCTTTTTCCACTCAA 59.587 40.000 0.00 0.00 33.17 3.02
3646 3804 7.239763 TCCACTCAATTGAGATGTGTAAGTA 57.760 36.000 36.15 10.23 44.74 2.24
3945 4125 6.048732 ACAAAGATTGAACCCAAACAACTT 57.951 33.333 0.00 0.00 35.67 2.66
3947 4127 7.616313 ACAAAGATTGAACCCAAACAACTTAA 58.384 30.769 0.00 0.00 35.67 1.85
3973 4153 3.968265 AGTGGGTTGATTATGGAGGTTG 58.032 45.455 0.00 0.00 0.00 3.77
3984 4164 6.705825 TGATTATGGAGGTTGACGTATTGATG 59.294 38.462 0.00 0.00 0.00 3.07
3985 4165 4.753516 ATGGAGGTTGACGTATTGATGA 57.246 40.909 0.00 0.00 0.00 2.92
3996 4176 7.841915 TGACGTATTGATGAAAATGCTTCTA 57.158 32.000 0.00 0.00 0.00 2.10
4010 4191 9.275398 GAAAATGCTTCTATCAATCAGATCTCT 57.725 33.333 0.00 0.00 38.19 3.10
4014 4195 5.409214 GCTTCTATCAATCAGATCTCTTGCC 59.591 44.000 8.94 0.00 38.19 4.52
4165 4353 6.677781 TGAGTGTTCGATCAAAAAGTTCTT 57.322 33.333 0.00 0.00 0.00 2.52
4195 4383 2.686558 TGCATTCTTGAAACAGCGTC 57.313 45.000 0.00 0.00 0.00 5.19
4200 4388 2.254546 TCTTGAAACAGCGTCCACAT 57.745 45.000 0.00 0.00 0.00 3.21
4226 4414 2.639065 TGGCAGTTGAAACGAGTTTCT 58.361 42.857 23.73 6.68 46.67 2.52
4234 4422 7.431084 GCAGTTGAAACGAGTTTCTTTTATTCA 59.569 33.333 23.73 4.85 46.67 2.57
4235 4423 8.734030 CAGTTGAAACGAGTTTCTTTTATTCAC 58.266 33.333 23.73 10.99 46.67 3.18
4236 4424 8.455682 AGTTGAAACGAGTTTCTTTTATTCACA 58.544 29.630 23.73 3.59 46.67 3.58
4237 4425 8.734030 GTTGAAACGAGTTTCTTTTATTCACAG 58.266 33.333 23.73 0.00 46.67 3.66
4238 4426 6.910433 TGAAACGAGTTTCTTTTATTCACAGC 59.090 34.615 23.73 0.40 46.67 4.40
4239 4427 6.619801 AACGAGTTTCTTTTATTCACAGCT 57.380 33.333 0.00 0.00 0.00 4.24
4240 4428 5.990408 ACGAGTTTCTTTTATTCACAGCTG 58.010 37.500 13.48 13.48 0.00 4.24
4241 4429 5.527582 ACGAGTTTCTTTTATTCACAGCTGT 59.472 36.000 15.25 15.25 0.00 4.40
4242 4430 6.038271 ACGAGTTTCTTTTATTCACAGCTGTT 59.962 34.615 18.94 5.57 0.00 3.16
4243 4431 6.912591 CGAGTTTCTTTTATTCACAGCTGTTT 59.087 34.615 18.94 7.80 0.00 2.83
4244 4432 7.112148 CGAGTTTCTTTTATTCACAGCTGTTTC 59.888 37.037 18.94 0.00 0.00 2.78
4252 4440 3.325293 TCACAGCTGTTTCCATCTCTC 57.675 47.619 18.94 0.00 0.00 3.20
4254 4442 1.620819 ACAGCTGTTTCCATCTCTCGT 59.379 47.619 15.25 0.00 0.00 4.18
4256 4444 3.119316 ACAGCTGTTTCCATCTCTCGTAG 60.119 47.826 15.25 0.00 0.00 3.51
4262 4450 5.235516 TGTTTCCATCTCTCGTAGTTTTCC 58.764 41.667 0.00 0.00 0.00 3.13
4282 4470 4.541705 TCCAAACAAACTTCCTCCATTCA 58.458 39.130 0.00 0.00 0.00 2.57
4283 4471 4.340950 TCCAAACAAACTTCCTCCATTCAC 59.659 41.667 0.00 0.00 0.00 3.18
4301 4489 6.262049 CCATTCACGTTGGTTCCATATATGAA 59.738 38.462 14.54 4.18 0.00 2.57
4335 4523 7.667043 ATCACAAATATTTCTGTGTACACGT 57.333 32.000 20.61 5.84 42.86 4.49
4349 4537 1.523758 ACACGTGATGCTTCCTTTCC 58.476 50.000 25.01 0.00 0.00 3.13
4350 4538 1.202758 ACACGTGATGCTTCCTTTCCA 60.203 47.619 25.01 0.00 0.00 3.53
4351 4539 1.879380 CACGTGATGCTTCCTTTCCAA 59.121 47.619 10.90 0.00 0.00 3.53
4352 4540 2.293122 CACGTGATGCTTCCTTTCCAAA 59.707 45.455 10.90 0.00 0.00 3.28
4353 4541 3.057315 CACGTGATGCTTCCTTTCCAAAT 60.057 43.478 10.90 0.00 0.00 2.32
4354 4542 3.573967 ACGTGATGCTTCCTTTCCAAATT 59.426 39.130 0.00 0.00 0.00 1.82
4355 4543 4.168760 CGTGATGCTTCCTTTCCAAATTC 58.831 43.478 0.00 0.00 0.00 2.17
4356 4544 4.498241 GTGATGCTTCCTTTCCAAATTCC 58.502 43.478 0.00 0.00 0.00 3.01
4357 4545 4.021192 GTGATGCTTCCTTTCCAAATTCCA 60.021 41.667 0.00 0.00 0.00 3.53
4358 4546 4.592351 TGATGCTTCCTTTCCAAATTCCAA 59.408 37.500 0.00 0.00 0.00 3.53
4359 4547 4.335400 TGCTTCCTTTCCAAATTCCAAC 57.665 40.909 0.00 0.00 0.00 3.77
4360 4548 3.708631 TGCTTCCTTTCCAAATTCCAACA 59.291 39.130 0.00 0.00 0.00 3.33
4361 4549 4.058124 GCTTCCTTTCCAAATTCCAACAC 58.942 43.478 0.00 0.00 0.00 3.32
4362 4550 4.202253 GCTTCCTTTCCAAATTCCAACACT 60.202 41.667 0.00 0.00 0.00 3.55
4363 4551 5.010617 GCTTCCTTTCCAAATTCCAACACTA 59.989 40.000 0.00 0.00 0.00 2.74
4364 4552 6.462347 GCTTCCTTTCCAAATTCCAACACTAA 60.462 38.462 0.00 0.00 0.00 2.24
4365 4553 6.648879 TCCTTTCCAAATTCCAACACTAAG 57.351 37.500 0.00 0.00 0.00 2.18
4366 4554 6.369629 TCCTTTCCAAATTCCAACACTAAGA 58.630 36.000 0.00 0.00 0.00 2.10
4367 4555 7.010160 TCCTTTCCAAATTCCAACACTAAGAT 58.990 34.615 0.00 0.00 0.00 2.40
4368 4556 8.167392 TCCTTTCCAAATTCCAACACTAAGATA 58.833 33.333 0.00 0.00 0.00 1.98
4369 4557 8.971073 CCTTTCCAAATTCCAACACTAAGATAT 58.029 33.333 0.00 0.00 0.00 1.63
4370 4558 9.793252 CTTTCCAAATTCCAACACTAAGATATG 57.207 33.333 0.00 0.00 0.00 1.78
4371 4559 7.333528 TCCAAATTCCAACACTAAGATATGC 57.666 36.000 0.00 0.00 0.00 3.14
4372 4560 7.118723 TCCAAATTCCAACACTAAGATATGCT 58.881 34.615 0.00 0.00 0.00 3.79
4373 4561 7.615365 TCCAAATTCCAACACTAAGATATGCTT 59.385 33.333 0.00 0.00 40.68 3.91
4374 4562 7.917505 CCAAATTCCAACACTAAGATATGCTTC 59.082 37.037 0.00 0.00 38.05 3.86
4375 4563 8.461222 CAAATTCCAACACTAAGATATGCTTCA 58.539 33.333 0.00 0.00 38.05 3.02
4376 4564 6.985188 TTCCAACACTAAGATATGCTTCAC 57.015 37.500 0.00 0.00 38.05 3.18
4377 4565 6.048732 TCCAACACTAAGATATGCTTCACA 57.951 37.500 0.00 0.00 38.05 3.58
4378 4566 6.472016 TCCAACACTAAGATATGCTTCACAA 58.528 36.000 0.00 0.00 38.05 3.33
4379 4567 7.112122 TCCAACACTAAGATATGCTTCACAAT 58.888 34.615 0.00 0.00 38.05 2.71
4380 4568 7.611467 TCCAACACTAAGATATGCTTCACAATT 59.389 33.333 0.00 0.00 38.05 2.32
4381 4569 8.892723 CCAACACTAAGATATGCTTCACAATTA 58.107 33.333 0.00 0.00 38.05 1.40
4394 4582 9.715121 ATGCTTCACAATTAATCACATTTTTCT 57.285 25.926 0.00 0.00 0.00 2.52
4395 4583 9.195411 TGCTTCACAATTAATCACATTTTTCTC 57.805 29.630 0.00 0.00 0.00 2.87
4396 4584 8.650714 GCTTCACAATTAATCACATTTTTCTCC 58.349 33.333 0.00 0.00 0.00 3.71
4397 4585 8.741101 TTCACAATTAATCACATTTTTCTCCG 57.259 30.769 0.00 0.00 0.00 4.63
4398 4586 7.881142 TCACAATTAATCACATTTTTCTCCGT 58.119 30.769 0.00 0.00 0.00 4.69
4399 4587 7.807433 TCACAATTAATCACATTTTTCTCCGTG 59.193 33.333 0.00 0.00 0.00 4.94
4400 4588 6.586082 ACAATTAATCACATTTTTCTCCGTGC 59.414 34.615 0.00 0.00 0.00 5.34
4401 4589 2.900122 ATCACATTTTTCTCCGTGCG 57.100 45.000 0.00 0.00 0.00 5.34
4402 4590 0.237235 TCACATTTTTCTCCGTGCGC 59.763 50.000 0.00 0.00 0.00 6.09
4403 4591 0.238289 CACATTTTTCTCCGTGCGCT 59.762 50.000 9.73 0.00 0.00 5.92
4404 4592 1.463056 CACATTTTTCTCCGTGCGCTA 59.537 47.619 9.73 0.00 0.00 4.26
4405 4593 2.095853 CACATTTTTCTCCGTGCGCTAT 59.904 45.455 9.73 0.00 0.00 2.97
4406 4594 2.351726 ACATTTTTCTCCGTGCGCTATC 59.648 45.455 9.73 0.00 0.00 2.08
4407 4595 2.087501 TTTTTCTCCGTGCGCTATCA 57.912 45.000 9.73 0.00 0.00 2.15
4408 4596 1.355971 TTTTCTCCGTGCGCTATCAC 58.644 50.000 9.73 0.00 0.00 3.06
4417 4605 3.592381 GTGCGCTATCACGATTCATTT 57.408 42.857 9.73 0.00 34.06 2.32
4418 4606 3.940303 GTGCGCTATCACGATTCATTTT 58.060 40.909 9.73 0.00 34.06 1.82
4419 4607 3.720818 GTGCGCTATCACGATTCATTTTG 59.279 43.478 9.73 0.00 34.06 2.44
4420 4608 3.373748 TGCGCTATCACGATTCATTTTGT 59.626 39.130 9.73 0.00 34.06 2.83
4421 4609 3.720818 GCGCTATCACGATTCATTTTGTG 59.279 43.478 0.00 0.00 34.06 3.33
4422 4610 4.494035 GCGCTATCACGATTCATTTTGTGA 60.494 41.667 0.00 0.00 44.58 3.58
4423 4611 4.957967 CGCTATCACGATTCATTTTGTGAC 59.042 41.667 0.00 0.00 43.42 3.67
4424 4612 5.445806 CGCTATCACGATTCATTTTGTGACA 60.446 40.000 0.00 0.00 43.42 3.58
4425 4613 6.489675 GCTATCACGATTCATTTTGTGACAT 58.510 36.000 0.00 0.00 43.42 3.06
4426 4614 7.516627 CGCTATCACGATTCATTTTGTGACATA 60.517 37.037 0.00 0.00 43.42 2.29
4427 4615 7.795734 GCTATCACGATTCATTTTGTGACATAG 59.204 37.037 0.00 0.00 43.42 2.23
4428 4616 7.848223 ATCACGATTCATTTTGTGACATAGA 57.152 32.000 0.00 0.00 43.42 1.98
4429 4617 7.060600 TCACGATTCATTTTGTGACATAGAC 57.939 36.000 0.00 0.00 36.50 2.59
4430 4618 6.648725 TCACGATTCATTTTGTGACATAGACA 59.351 34.615 0.00 0.00 36.50 3.41
4431 4619 7.334171 TCACGATTCATTTTGTGACATAGACAT 59.666 33.333 0.00 0.00 36.50 3.06
4432 4620 7.637519 CACGATTCATTTTGTGACATAGACATC 59.362 37.037 0.00 0.00 36.32 3.06
4433 4621 6.842780 CGATTCATTTTGTGACATAGACATCG 59.157 38.462 0.00 0.00 36.32 3.84
4434 4622 7.464577 CGATTCATTTTGTGACATAGACATCGT 60.465 37.037 0.00 0.00 34.94 3.73
4435 4623 7.433708 TTCATTTTGTGACATAGACATCGTT 57.566 32.000 0.00 0.00 36.32 3.85
4436 4624 7.060600 TCATTTTGTGACATAGACATCGTTC 57.939 36.000 0.00 0.00 0.00 3.95
4437 4625 6.648725 TCATTTTGTGACATAGACATCGTTCA 59.351 34.615 0.00 0.00 0.00 3.18
4438 4626 7.334171 TCATTTTGTGACATAGACATCGTTCAT 59.666 33.333 0.00 0.00 0.00 2.57
4439 4627 8.603181 CATTTTGTGACATAGACATCGTTCATA 58.397 33.333 0.00 0.00 0.00 2.15
4440 4628 8.541133 TTTTGTGACATAGACATCGTTCATAA 57.459 30.769 0.00 0.00 0.00 1.90
4441 4629 8.716646 TTTGTGACATAGACATCGTTCATAAT 57.283 30.769 0.00 0.00 0.00 1.28
4442 4630 8.716646 TTGTGACATAGACATCGTTCATAATT 57.283 30.769 0.00 0.00 0.00 1.40
4443 4631 9.810545 TTGTGACATAGACATCGTTCATAATTA 57.189 29.630 0.00 0.00 0.00 1.40
4444 4632 9.810545 TGTGACATAGACATCGTTCATAATTAA 57.189 29.630 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.698803 AGACATTGCGACACATTGCTA 58.301 42.857 0.00 0.00 36.04 3.49
1 2 1.527034 AGACATTGCGACACATTGCT 58.473 45.000 0.00 0.00 36.04 3.91
11 12 7.340699 GTGAGTATGAAAGAATAGACATTGCG 58.659 38.462 0.00 0.00 0.00 4.85
19 20 8.607459 GTGTGATTGGTGAGTATGAAAGAATAG 58.393 37.037 0.00 0.00 0.00 1.73
32 33 5.582269 ACTGATTTATCGTGTGATTGGTGAG 59.418 40.000 0.00 0.00 35.99 3.51
45 46 6.841119 TGAACCAATTGACACTGATTTATCG 58.159 36.000 7.12 0.00 0.00 2.92
125 129 9.308318 ACGATTGCAATTTTAGTGTTTAGTTTT 57.692 25.926 14.33 0.00 0.00 2.43
180 184 9.642327 AGTTTTTGAAATAAGTGTAAAAACCGT 57.358 25.926 15.72 1.66 45.33 4.83
225 230 1.198094 TGCTCCATCACCTCCCGAAA 61.198 55.000 0.00 0.00 0.00 3.46
255 260 4.649705 TCCACCCCCTCCGCTGAA 62.650 66.667 0.00 0.00 0.00 3.02
268 273 1.608717 ATCCCAGTCTGCGTCTCCAC 61.609 60.000 0.00 0.00 0.00 4.02
358 363 0.541392 TGACCTGTTGTGTGTCTGCT 59.459 50.000 0.00 0.00 0.00 4.24
364 369 2.348498 CGATTCGTTGACCTGTTGTGTG 60.348 50.000 0.00 0.00 0.00 3.82
371 376 1.970917 GCTGCCGATTCGTTGACCTG 61.971 60.000 5.20 0.00 0.00 4.00
392 397 1.600916 GGACCTTGCGCCTCTTTGT 60.601 57.895 4.18 0.00 0.00 2.83
394 399 2.358737 CGGACCTTGCGCCTCTTT 60.359 61.111 4.18 0.00 0.00 2.52
425 430 1.443872 CCTCGCGCTTAGTCGTTGT 60.444 57.895 5.56 0.00 0.00 3.32
427 432 1.154073 GACCTCGCGCTTAGTCGTT 60.154 57.895 5.56 0.00 0.00 3.85
434 439 4.493747 GCCTACGACCTCGCGCTT 62.494 66.667 5.56 0.00 44.43 4.68
522 527 1.161563 GGCTTGTTGTTCCCGTCGAA 61.162 55.000 0.00 0.00 0.00 3.71
523 528 1.595929 GGCTTGTTGTTCCCGTCGA 60.596 57.895 0.00 0.00 0.00 4.20
526 531 0.182775 AAGAGGCTTGTTGTTCCCGT 59.817 50.000 0.00 0.00 0.00 5.28
527 532 1.266989 GAAAGAGGCTTGTTGTTCCCG 59.733 52.381 0.00 0.00 0.00 5.14
551 572 4.973663 GCTCGTCCAAATCGAAAAAGAAAA 59.026 37.500 0.00 0.00 36.89 2.29
585 606 7.359262 TCAGAAAAATGGACGTATTGTACTG 57.641 36.000 0.00 0.00 30.20 2.74
588 609 7.162761 TCCTTCAGAAAAATGGACGTATTGTA 58.837 34.615 0.00 0.00 0.00 2.41
593 614 6.001460 ACATTCCTTCAGAAAAATGGACGTA 58.999 36.000 16.73 0.00 38.21 3.57
594 615 4.827284 ACATTCCTTCAGAAAAATGGACGT 59.173 37.500 16.73 0.00 38.21 4.34
599 620 6.365247 CAGCTTGACATTCCTTCAGAAAAATG 59.635 38.462 13.07 13.07 38.21 2.32
600 621 6.041296 ACAGCTTGACATTCCTTCAGAAAAAT 59.959 34.615 0.00 0.00 38.21 1.82
605 626 3.071457 TCACAGCTTGACATTCCTTCAGA 59.929 43.478 0.00 0.00 0.00 3.27
623 644 3.930336 GACATTGTGGAGAGATGTCACA 58.070 45.455 9.99 0.00 45.54 3.58
693 715 7.492020 CACATCTTATCTCTATAAGCATCTGGC 59.508 40.741 0.00 0.00 42.93 4.85
694 716 8.530311 ACACATCTTATCTCTATAAGCATCTGG 58.470 37.037 0.00 0.00 42.93 3.86
709 769 7.600375 CAGATACCCACATACACACATCTTATC 59.400 40.741 0.00 0.00 0.00 1.75
721 781 7.595502 GCTATATAATCGCAGATACCCACATAC 59.404 40.741 0.00 0.00 45.12 2.39
722 782 7.521585 CGCTATATAATCGCAGATACCCACATA 60.522 40.741 0.00 0.00 45.12 2.29
728 788 5.579718 ACACGCTATATAATCGCAGATACC 58.420 41.667 4.53 0.00 45.12 2.73
733 793 8.273557 ACTTTTTAACACGCTATATAATCGCAG 58.726 33.333 4.53 1.69 0.00 5.18
741 801 6.646267 TCCTGGACTTTTTAACACGCTATAT 58.354 36.000 0.00 0.00 0.00 0.86
742 802 6.040209 TCCTGGACTTTTTAACACGCTATA 57.960 37.500 0.00 0.00 0.00 1.31
743 803 4.901868 TCCTGGACTTTTTAACACGCTAT 58.098 39.130 0.00 0.00 0.00 2.97
744 804 4.339872 TCCTGGACTTTTTAACACGCTA 57.660 40.909 0.00 0.00 0.00 4.26
745 805 3.202829 TCCTGGACTTTTTAACACGCT 57.797 42.857 0.00 0.00 0.00 5.07
746 806 3.974871 TTCCTGGACTTTTTAACACGC 57.025 42.857 0.00 0.00 0.00 5.34
747 807 6.425721 TCTGTATTCCTGGACTTTTTAACACG 59.574 38.462 0.00 0.00 0.00 4.49
748 808 7.739498 TCTGTATTCCTGGACTTTTTAACAC 57.261 36.000 0.00 0.00 0.00 3.32
749 809 8.934023 AATCTGTATTCCTGGACTTTTTAACA 57.066 30.769 0.00 0.00 0.00 2.41
750 810 9.626045 CAAATCTGTATTCCTGGACTTTTTAAC 57.374 33.333 0.00 0.00 0.00 2.01
752 812 8.934023 ACAAATCTGTATTCCTGGACTTTTTA 57.066 30.769 0.00 0.00 32.54 1.52
763 823 9.793252 TTCTACGTTAGTACAAATCTGTATTCC 57.207 33.333 0.00 0.00 40.16 3.01
770 830 9.715121 TTCCATTTTCTACGTTAGTACAAATCT 57.285 29.630 0.00 0.00 0.00 2.40
771 831 9.750882 GTTCCATTTTCTACGTTAGTACAAATC 57.249 33.333 0.00 0.00 0.00 2.17
773 833 8.659925 TGTTCCATTTTCTACGTTAGTACAAA 57.340 30.769 0.00 0.00 0.00 2.83
775 835 7.660112 TCTGTTCCATTTTCTACGTTAGTACA 58.340 34.615 0.00 0.00 0.00 2.90
779 839 6.128363 GGGTTCTGTTCCATTTTCTACGTTAG 60.128 42.308 0.00 0.00 0.00 2.34
803 876 4.485163 CCCGTTGCTTAAAGATTTTCTGG 58.515 43.478 0.00 0.00 0.00 3.86
1249 1337 1.872773 TTGGCCTTGAAGGGTTTGTT 58.127 45.000 13.99 0.00 35.37 2.83
1269 1357 6.178239 ACTTTGCTATCGCTACGAATTTTT 57.822 33.333 0.00 0.00 39.99 1.94
1270 1358 5.796350 ACTTTGCTATCGCTACGAATTTT 57.204 34.783 0.00 0.00 39.99 1.82
1271 1359 5.796350 AACTTTGCTATCGCTACGAATTT 57.204 34.783 0.00 0.00 39.99 1.82
1272 1360 5.796350 AAACTTTGCTATCGCTACGAATT 57.204 34.783 0.00 0.00 39.99 2.17
1273 1361 7.223971 TCAATAAACTTTGCTATCGCTACGAAT 59.776 33.333 0.00 0.00 39.99 3.34
1291 1379 4.811557 AGATCGGCTGCTAAGTCAATAAAC 59.188 41.667 0.00 0.00 0.00 2.01
1294 1382 4.672587 AAGATCGGCTGCTAAGTCAATA 57.327 40.909 0.00 0.00 0.00 1.90
1371 1460 4.394712 GGTGACTGCCCCCGTCAG 62.395 72.222 0.00 0.00 41.62 3.51
1436 1525 3.451894 GCAAATGCCCCCAGTCCG 61.452 66.667 0.00 0.00 34.31 4.79
1439 1528 2.284112 CCAGCAAATGCCCCCAGT 60.284 61.111 0.94 0.00 43.38 4.00
1574 1663 9.915629 AACGTTATATTCTGCCAAATTTTGTAA 57.084 25.926 0.00 0.00 0.00 2.41
1664 1755 4.320202 GCAGCTGTTCGAATTTAAAGACCA 60.320 41.667 16.64 0.00 0.00 4.02
1666 1757 5.035784 AGCAGCTGTTCGAATTTAAAGAC 57.964 39.130 16.64 0.00 0.00 3.01
1667 1758 5.451908 CAAGCAGCTGTTCGAATTTAAAGA 58.548 37.500 16.64 0.00 0.00 2.52
1677 1768 1.774639 AAAATGCAAGCAGCTGTTCG 58.225 45.000 16.64 0.00 45.94 3.95
1704 1797 8.864069 ACAATGAAGAACACTCTCTATAATCG 57.136 34.615 0.00 0.00 0.00 3.34
1931 2024 5.428783 AGCACTGTTAGGGGTATAGAACAAT 59.571 40.000 0.00 0.00 0.00 2.71
1977 2070 5.806654 ATAACTTTCATTTGGGCACACTT 57.193 34.783 0.00 0.00 0.00 3.16
1980 2073 5.774690 AGAGAATAACTTTCATTTGGGCACA 59.225 36.000 0.00 0.00 0.00 4.57
2017 2110 4.112634 ACTGCAAGAACCCTCCAATTAA 57.887 40.909 0.00 0.00 37.43 1.40
2466 2574 9.588096 ACAACATATACATCTACCAGACTATCA 57.412 33.333 0.00 0.00 0.00 2.15
2480 2588 4.811024 CGTTCAGCCAGACAACATATACAT 59.189 41.667 0.00 0.00 0.00 2.29
2504 2612 9.793252 CCAATCAAAAGTAAGATGATTTCGAAT 57.207 29.630 0.00 0.00 40.75 3.34
2806 2921 8.648557 AAACAAAAATTAAGCAAGGAAGAGAC 57.351 30.769 0.00 0.00 0.00 3.36
2887 3002 6.889198 TCATGCTACTAACTAATTTGCTCCT 58.111 36.000 0.00 0.00 0.00 3.69
2912 3027 4.501071 ACATATAACGTGAGGGTGACAAC 58.499 43.478 0.00 0.00 0.00 3.32
2982 3137 5.284079 TCACAATTTCAAAGAAAGCAGAGC 58.716 37.500 0.00 0.00 0.00 4.09
3043 3198 8.659491 CGAGGTTGTGTCATCATATATAAATGG 58.341 37.037 8.03 0.00 0.00 3.16
3166 3323 7.305474 ACTTACAATTGTGATTCCGACATTTC 58.695 34.615 21.42 0.00 0.00 2.17
3254 3411 3.085443 GACTGTCCGTCCAGATACATG 57.915 52.381 5.66 0.00 36.62 3.21
3270 3427 6.725246 AGAAACAAAGTTCAAATACGGACTG 58.275 36.000 0.00 0.00 0.00 3.51
3330 3488 1.455773 TCGCCATCTCTCCCGTCAT 60.456 57.895 0.00 0.00 0.00 3.06
3543 3701 7.253422 AGAAACACATGCATAGCTTGATTTAC 58.747 34.615 0.00 6.42 37.20 2.01
3588 3746 9.695155 TGATCCTCGGAATATCTTATGTACATA 57.305 33.333 11.62 11.62 0.00 2.29
3646 3804 5.385198 TCAGAAGCAGGTCAAATTTAGGTT 58.615 37.500 0.00 0.00 0.00 3.50
3653 3811 2.799017 TGCATCAGAAGCAGGTCAAAT 58.201 42.857 0.00 0.00 37.02 2.32
3897 4055 5.924356 TGTGAATCCAACTAAACTCTGTCA 58.076 37.500 0.00 0.00 0.00 3.58
3947 4127 5.203528 CCTCCATAATCAACCCACTTTGAT 58.796 41.667 0.00 0.00 46.18 2.57
3973 4153 8.551205 TGATAGAAGCATTTTCATCAATACGTC 58.449 33.333 0.00 0.00 0.00 4.34
3984 4164 9.275398 AGAGATCTGATTGATAGAAGCATTTTC 57.725 33.333 0.00 0.00 35.14 2.29
3985 4165 9.629878 AAGAGATCTGATTGATAGAAGCATTTT 57.370 29.630 0.00 0.00 35.14 1.82
3996 4176 3.464907 CACGGCAAGAGATCTGATTGAT 58.535 45.455 17.51 3.54 38.27 2.57
4003 4184 0.610174 TTCTGCACGGCAAGAGATCT 59.390 50.000 0.00 0.00 38.41 2.75
4031 4212 3.087031 AGGCAACATCAGGAAGACAATG 58.913 45.455 0.00 0.00 41.41 2.82
4044 4226 3.753272 CACTGTGCTAGTTAAGGCAACAT 59.247 43.478 0.00 0.00 40.26 2.71
4165 4353 1.469703 CAAGAATGCATCCAACGCTCA 59.530 47.619 0.00 0.00 0.00 4.26
4195 4383 1.077265 AACTGCCAAGGGGATGTGG 59.923 57.895 0.00 0.00 38.00 4.17
4200 4388 0.821711 CGTTTCAACTGCCAAGGGGA 60.822 55.000 0.00 0.00 35.59 4.81
4240 4428 5.235516 TGGAAAACTACGAGAGATGGAAAC 58.764 41.667 0.00 0.00 0.00 2.78
4241 4429 5.477607 TGGAAAACTACGAGAGATGGAAA 57.522 39.130 0.00 0.00 0.00 3.13
4242 4430 5.477607 TTGGAAAACTACGAGAGATGGAA 57.522 39.130 0.00 0.00 0.00 3.53
4243 4431 5.221561 TGTTTGGAAAACTACGAGAGATGGA 60.222 40.000 4.65 0.00 0.00 3.41
4244 4432 4.994852 TGTTTGGAAAACTACGAGAGATGG 59.005 41.667 4.65 0.00 0.00 3.51
4252 4440 5.886992 AGGAAGTTTGTTTGGAAAACTACG 58.113 37.500 2.26 0.00 44.93 3.51
4254 4442 5.952947 TGGAGGAAGTTTGTTTGGAAAACTA 59.047 36.000 2.26 0.00 44.93 2.24
4256 4444 5.079689 TGGAGGAAGTTTGTTTGGAAAAC 57.920 39.130 0.00 0.00 37.71 2.43
4262 4450 4.202010 ACGTGAATGGAGGAAGTTTGTTTG 60.202 41.667 0.00 0.00 0.00 2.93
4282 4470 5.820947 GGAACTTCATATATGGAACCAACGT 59.179 40.000 12.78 0.00 0.00 3.99
4283 4471 6.055588 AGGAACTTCATATATGGAACCAACG 58.944 40.000 12.78 0.00 27.25 4.10
4301 4489 9.520515 ACAGAAATATTTGTGATTGTAGGAACT 57.479 29.630 26.90 2.37 37.39 3.01
4335 4523 4.158786 TGGAATTTGGAAAGGAAGCATCA 58.841 39.130 0.00 0.00 0.00 3.07
4349 4537 8.461222 TGAAGCATATCTTAGTGTTGGAATTTG 58.539 33.333 0.00 0.00 34.56 2.32
4350 4538 8.462016 GTGAAGCATATCTTAGTGTTGGAATTT 58.538 33.333 0.00 0.00 34.56 1.82
4351 4539 7.611467 TGTGAAGCATATCTTAGTGTTGGAATT 59.389 33.333 0.00 0.00 34.56 2.17
4352 4540 7.112122 TGTGAAGCATATCTTAGTGTTGGAAT 58.888 34.615 0.00 0.00 34.56 3.01
4353 4541 6.472016 TGTGAAGCATATCTTAGTGTTGGAA 58.528 36.000 0.00 0.00 34.56 3.53
4354 4542 6.048732 TGTGAAGCATATCTTAGTGTTGGA 57.951 37.500 0.00 0.00 34.56 3.53
4355 4543 6.741992 TTGTGAAGCATATCTTAGTGTTGG 57.258 37.500 0.00 0.00 34.56 3.77
4368 4556 9.715121 AGAAAAATGTGATTAATTGTGAAGCAT 57.285 25.926 0.00 0.00 0.00 3.79
4369 4557 9.195411 GAGAAAAATGTGATTAATTGTGAAGCA 57.805 29.630 0.00 0.00 0.00 3.91
4370 4558 8.650714 GGAGAAAAATGTGATTAATTGTGAAGC 58.349 33.333 0.00 0.00 0.00 3.86
4371 4559 8.853345 CGGAGAAAAATGTGATTAATTGTGAAG 58.147 33.333 0.00 0.00 0.00 3.02
4372 4560 8.356657 ACGGAGAAAAATGTGATTAATTGTGAA 58.643 29.630 0.00 0.00 0.00 3.18
4373 4561 7.807433 CACGGAGAAAAATGTGATTAATTGTGA 59.193 33.333 0.00 0.00 34.29 3.58
4374 4562 7.410728 GCACGGAGAAAAATGTGATTAATTGTG 60.411 37.037 0.00 0.00 34.29 3.33
4375 4563 6.586082 GCACGGAGAAAAATGTGATTAATTGT 59.414 34.615 0.00 0.00 34.29 2.71
4376 4564 6.237279 CGCACGGAGAAAAATGTGATTAATTG 60.237 38.462 0.00 0.00 34.29 2.32
4377 4565 5.799936 CGCACGGAGAAAAATGTGATTAATT 59.200 36.000 0.00 0.00 34.29 1.40
4378 4566 5.331902 CGCACGGAGAAAAATGTGATTAAT 58.668 37.500 0.00 0.00 34.29 1.40
4379 4567 4.717991 CGCACGGAGAAAAATGTGATTAA 58.282 39.130 0.00 0.00 34.29 1.40
4380 4568 3.425625 GCGCACGGAGAAAAATGTGATTA 60.426 43.478 0.30 0.00 34.29 1.75
4381 4569 2.668279 GCGCACGGAGAAAAATGTGATT 60.668 45.455 0.30 0.00 34.29 2.57
4382 4570 1.135689 GCGCACGGAGAAAAATGTGAT 60.136 47.619 0.30 0.00 34.29 3.06
4383 4571 0.237235 GCGCACGGAGAAAAATGTGA 59.763 50.000 0.30 0.00 34.29 3.58
4384 4572 0.238289 AGCGCACGGAGAAAAATGTG 59.762 50.000 11.47 0.00 35.48 3.21
4385 4573 1.803334 TAGCGCACGGAGAAAAATGT 58.197 45.000 11.47 0.00 0.00 2.71
4386 4574 2.351418 TGATAGCGCACGGAGAAAAATG 59.649 45.455 11.47 0.00 0.00 2.32
4387 4575 2.351726 GTGATAGCGCACGGAGAAAAAT 59.648 45.455 11.47 0.00 0.00 1.82
4388 4576 1.730064 GTGATAGCGCACGGAGAAAAA 59.270 47.619 11.47 0.00 0.00 1.94
4389 4577 1.355971 GTGATAGCGCACGGAGAAAA 58.644 50.000 11.47 0.00 0.00 2.29
4390 4578 3.044809 GTGATAGCGCACGGAGAAA 57.955 52.632 11.47 0.00 0.00 2.52
4391 4579 4.806571 GTGATAGCGCACGGAGAA 57.193 55.556 11.47 0.00 0.00 2.87
4397 4585 3.592381 AAATGAATCGTGATAGCGCAC 57.408 42.857 11.47 0.00 35.46 5.34
4398 4586 3.373748 ACAAAATGAATCGTGATAGCGCA 59.626 39.130 11.47 0.00 0.00 6.09
4399 4587 3.720818 CACAAAATGAATCGTGATAGCGC 59.279 43.478 0.00 0.00 0.00 5.92
4400 4588 4.957967 GTCACAAAATGAATCGTGATAGCG 59.042 41.667 0.00 0.00 40.27 4.26
4401 4589 5.868257 TGTCACAAAATGAATCGTGATAGC 58.132 37.500 0.00 0.00 40.27 2.97
4402 4590 9.034544 TCTATGTCACAAAATGAATCGTGATAG 57.965 33.333 0.00 0.00 40.27 2.08
4403 4591 8.817100 GTCTATGTCACAAAATGAATCGTGATA 58.183 33.333 0.00 0.00 40.27 2.15
4404 4592 7.334171 TGTCTATGTCACAAAATGAATCGTGAT 59.666 33.333 0.00 0.00 40.27 3.06
4405 4593 6.648725 TGTCTATGTCACAAAATGAATCGTGA 59.351 34.615 0.00 0.00 39.72 4.35
4406 4594 6.830736 TGTCTATGTCACAAAATGAATCGTG 58.169 36.000 0.00 0.00 39.72 4.35
4407 4595 7.464577 CGATGTCTATGTCACAAAATGAATCGT 60.465 37.037 0.00 0.00 39.72 3.73
4408 4596 6.842780 CGATGTCTATGTCACAAAATGAATCG 59.157 38.462 0.00 0.00 39.72 3.34
4409 4597 7.688372 ACGATGTCTATGTCACAAAATGAATC 58.312 34.615 0.00 0.00 39.72 2.52
4410 4598 7.615582 ACGATGTCTATGTCACAAAATGAAT 57.384 32.000 0.00 0.00 39.72 2.57
4411 4599 7.172361 TGAACGATGTCTATGTCACAAAATGAA 59.828 33.333 0.00 0.00 39.72 2.57
4412 4600 6.648725 TGAACGATGTCTATGTCACAAAATGA 59.351 34.615 0.00 0.00 33.79 2.57
4413 4601 6.830736 TGAACGATGTCTATGTCACAAAATG 58.169 36.000 0.00 0.00 0.00 2.32
4414 4602 7.615582 ATGAACGATGTCTATGTCACAAAAT 57.384 32.000 0.00 0.00 0.00 1.82
4415 4603 8.541133 TTATGAACGATGTCTATGTCACAAAA 57.459 30.769 0.00 0.00 0.00 2.44
4416 4604 8.716646 ATTATGAACGATGTCTATGTCACAAA 57.283 30.769 0.00 0.00 0.00 2.83
4417 4605 8.716646 AATTATGAACGATGTCTATGTCACAA 57.283 30.769 0.00 0.00 0.00 3.33
4418 4606 9.810545 TTAATTATGAACGATGTCTATGTCACA 57.189 29.630 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.