Multiple sequence alignment - TraesCS7B01G061200

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G061200 chr7B 100.000 4576 0 0 1 4576 63854579 63859154 0.000000e+00 8451.0
1 TraesCS7B01G061200 chr7A 92.609 3450 175 30 579 3971 109840446 109843872 0.000000e+00 4885.0
2 TraesCS7B01G061200 chr7A 90.167 600 30 8 3986 4573 109843968 109844550 0.000000e+00 754.0
3 TraesCS7B01G061200 chr7D 91.948 3465 175 35 562 3971 105247528 105250943 0.000000e+00 4758.0
4 TraesCS7B01G061200 chr7D 80.952 903 123 20 2790 3670 105288007 105288882 0.000000e+00 669.0
5 TraesCS7B01G061200 chr7D 88.582 543 36 13 4054 4576 105251082 105251618 1.800000e-178 636.0
6 TraesCS7B01G061200 chr7D 76.615 449 69 20 53 494 105246849 105247268 9.970000e-52 215.0
7 TraesCS7B01G061200 chr7D 100.000 29 0 0 3986 4014 105251039 105251067 2.000000e-03 54.7


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G061200 chr7B 63854579 63859154 4575 False 8451.000 8451 100.00000 1 4576 1 chr7B.!!$F1 4575
1 TraesCS7B01G061200 chr7A 109840446 109844550 4104 False 2819.500 4885 91.38800 579 4573 2 chr7A.!!$F1 3994
2 TraesCS7B01G061200 chr7D 105246849 105251618 4769 False 1415.925 4758 89.28625 53 4576 4 chr7D.!!$F2 4523
3 TraesCS7B01G061200 chr7D 105288007 105288882 875 False 669.000 669 80.95200 2790 3670 1 chr7D.!!$F1 880

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
43 44 0.241749 TCGTGCCTTGTCGTATTCGT 59.758 50.000 0.0 0.0 38.33 3.85 F
960 1190 0.527385 CGCACCACACACCCAAAAAG 60.527 55.000 0.0 0.0 0.00 2.27 F
1081 1316 1.112315 CCCACTCCGATCTCTCCAGG 61.112 65.000 0.0 0.0 0.00 4.45 F
2685 2971 1.135575 GTGCTGCCTGCTTAATGACAC 60.136 52.381 0.0 0.0 43.37 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1872 2141 0.034767 CAGGCTGCTCAGGGAAATCA 60.035 55.000 0.00 0.0 0.00 2.57 R
2787 3073 2.045524 TGGCCTTCCAAAGCAAAATGA 58.954 42.857 3.32 0.0 39.99 2.57 R
2998 3286 2.483877 TCTGCAAAAGCATTCCGTAGTG 59.516 45.455 0.00 0.0 0.00 2.74 R
3831 4147 0.039256 TGCCACGCTTTGAGATTTGC 60.039 50.000 0.00 0.0 0.00 3.68 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
29 30 6.968131 TTATCTGCATATTATTCCTCGTGC 57.032 37.500 0.00 0.00 0.00 5.34
30 31 3.664107 TCTGCATATTATTCCTCGTGCC 58.336 45.455 0.00 0.00 0.00 5.01
31 32 3.324846 TCTGCATATTATTCCTCGTGCCT 59.675 43.478 0.00 0.00 0.00 4.75
32 33 4.067896 CTGCATATTATTCCTCGTGCCTT 58.932 43.478 0.00 0.00 0.00 4.35
33 34 3.814842 TGCATATTATTCCTCGTGCCTTG 59.185 43.478 0.00 0.00 0.00 3.61
34 35 3.815401 GCATATTATTCCTCGTGCCTTGT 59.185 43.478 0.00 0.00 0.00 3.16
35 36 4.083802 GCATATTATTCCTCGTGCCTTGTC 60.084 45.833 0.00 0.00 0.00 3.18
36 37 2.004583 TTATTCCTCGTGCCTTGTCG 57.995 50.000 0.00 0.00 0.00 4.35
37 38 0.892755 TATTCCTCGTGCCTTGTCGT 59.107 50.000 0.00 0.00 0.00 4.34
38 39 0.892755 ATTCCTCGTGCCTTGTCGTA 59.107 50.000 0.00 0.00 0.00 3.43
39 40 0.892755 TTCCTCGTGCCTTGTCGTAT 59.107 50.000 0.00 0.00 0.00 3.06
40 41 0.892755 TCCTCGTGCCTTGTCGTATT 59.107 50.000 0.00 0.00 0.00 1.89
41 42 1.135199 TCCTCGTGCCTTGTCGTATTC 60.135 52.381 0.00 0.00 0.00 1.75
42 43 0.914551 CTCGTGCCTTGTCGTATTCG 59.085 55.000 0.00 0.00 38.55 3.34
43 44 0.241749 TCGTGCCTTGTCGTATTCGT 59.758 50.000 0.00 0.00 38.33 3.85
44 45 0.638746 CGTGCCTTGTCGTATTCGTC 59.361 55.000 0.00 0.00 38.33 4.20
45 46 0.997196 GTGCCTTGTCGTATTCGTCC 59.003 55.000 0.00 0.00 38.33 4.79
46 47 0.892755 TGCCTTGTCGTATTCGTCCT 59.107 50.000 0.00 0.00 38.33 3.85
47 48 1.274167 TGCCTTGTCGTATTCGTCCTT 59.726 47.619 0.00 0.00 38.33 3.36
48 49 1.659098 GCCTTGTCGTATTCGTCCTTG 59.341 52.381 0.00 0.00 38.33 3.61
49 50 2.929592 GCCTTGTCGTATTCGTCCTTGT 60.930 50.000 0.00 0.00 38.33 3.16
50 51 2.666508 CCTTGTCGTATTCGTCCTTGTG 59.333 50.000 0.00 0.00 38.33 3.33
51 52 2.357327 TGTCGTATTCGTCCTTGTGG 57.643 50.000 0.00 0.00 38.33 4.17
65 66 2.289010 CCTTGTGGGTGGAGATTTTTGC 60.289 50.000 0.00 0.00 0.00 3.68
68 69 2.971330 TGTGGGTGGAGATTTTTGCAAT 59.029 40.909 0.00 0.00 0.00 3.56
127 128 4.997905 TTTTGAAGTTCTGCATCGAGAG 57.002 40.909 4.17 0.00 0.00 3.20
146 147 8.475331 TCGAGAGAATAACAAGGTTCAAATAC 57.525 34.615 0.00 0.00 37.03 1.89
147 148 7.274904 TCGAGAGAATAACAAGGTTCAAATACG 59.725 37.037 0.00 0.00 37.03 3.06
148 149 7.063074 CGAGAGAATAACAAGGTTCAAATACGT 59.937 37.037 0.00 0.00 0.00 3.57
149 150 8.252964 AGAGAATAACAAGGTTCAAATACGTC 57.747 34.615 0.00 0.00 0.00 4.34
150 151 7.876068 AGAGAATAACAAGGTTCAAATACGTCA 59.124 33.333 0.00 0.00 0.00 4.35
151 152 8.385898 AGAATAACAAGGTTCAAATACGTCAA 57.614 30.769 0.00 0.00 0.00 3.18
152 153 8.842280 AGAATAACAAGGTTCAAATACGTCAAA 58.158 29.630 0.00 0.00 0.00 2.69
153 154 8.791355 AATAACAAGGTTCAAATACGTCAAAC 57.209 30.769 0.00 0.00 0.00 2.93
154 155 5.821516 ACAAGGTTCAAATACGTCAAACA 57.178 34.783 0.00 0.00 0.00 2.83
155 156 6.197364 ACAAGGTTCAAATACGTCAAACAA 57.803 33.333 0.00 0.00 0.00 2.83
156 157 6.622549 ACAAGGTTCAAATACGTCAAACAAA 58.377 32.000 0.00 0.00 0.00 2.83
157 158 7.262048 ACAAGGTTCAAATACGTCAAACAAAT 58.738 30.769 0.00 0.00 0.00 2.32
158 159 8.407064 ACAAGGTTCAAATACGTCAAACAAATA 58.593 29.630 0.00 0.00 0.00 1.40
189 190 5.593968 TGCATTGATGACCAATAATTGAGC 58.406 37.500 0.00 0.00 43.27 4.26
192 193 6.759827 GCATTGATGACCAATAATTGAGCTTT 59.240 34.615 0.00 0.00 43.27 3.51
193 194 7.254319 GCATTGATGACCAATAATTGAGCTTTG 60.254 37.037 0.00 0.00 43.27 2.77
194 195 6.839124 TGATGACCAATAATTGAGCTTTGT 57.161 33.333 0.00 0.00 0.00 2.83
201 202 8.141835 ACCAATAATTGAGCTTTGTGAAAAAC 57.858 30.769 0.00 0.00 0.00 2.43
203 204 8.610896 CCAATAATTGAGCTTTGTGAAAAACAA 58.389 29.630 0.00 0.00 44.97 2.83
204 205 9.985318 CAATAATTGAGCTTTGTGAAAAACAAA 57.015 25.926 3.83 3.83 44.97 2.83
205 206 9.986833 AATAATTGAGCTTTGTGAAAAACAAAC 57.013 25.926 0.00 0.00 44.97 2.93
206 207 5.854431 TTGAGCTTTGTGAAAAACAAACC 57.146 34.783 0.00 0.00 44.97 3.27
207 208 4.249661 TGAGCTTTGTGAAAAACAAACCC 58.750 39.130 0.00 0.00 44.97 4.11
208 209 3.605634 AGCTTTGTGAAAAACAAACCCC 58.394 40.909 0.00 0.00 44.97 4.95
215 238 3.553917 GTGAAAAACAAACCCCGTTGATG 59.446 43.478 0.00 0.00 32.59 3.07
219 242 2.675075 AAACCCCGTTGATGCCCG 60.675 61.111 0.00 0.00 0.00 6.13
233 256 4.196193 TGATGCCCGATAAGTAAAGTTGG 58.804 43.478 0.00 0.00 0.00 3.77
237 260 3.427098 GCCCGATAAGTAAAGTTGGCAAC 60.427 47.826 22.48 22.48 37.58 4.17
240 263 4.331717 CCGATAAGTAAAGTTGGCAACGAT 59.668 41.667 23.47 18.20 42.51 3.73
288 311 8.541133 TGTACTTAAATGTCGATGATTGTGAA 57.459 30.769 0.00 0.00 0.00 3.18
291 314 7.401860 ACTTAAATGTCGATGATTGTGAATCG 58.598 34.615 0.00 0.00 45.46 3.34
300 323 6.239226 CGATGATTGTGAATCGATAATGCTC 58.761 40.000 0.00 0.00 46.70 4.26
302 325 6.923928 TGATTGTGAATCGATAATGCTCAA 57.076 33.333 0.00 3.27 40.84 3.02
303 326 7.500720 TGATTGTGAATCGATAATGCTCAAT 57.499 32.000 0.00 7.72 39.01 2.57
304 327 7.933396 TGATTGTGAATCGATAATGCTCAATT 58.067 30.769 0.00 0.00 37.28 2.32
305 328 8.407832 TGATTGTGAATCGATAATGCTCAATTT 58.592 29.630 0.00 0.00 37.28 1.82
306 329 7.974243 TTGTGAATCGATAATGCTCAATTTG 57.026 32.000 0.00 0.00 0.00 2.32
307 330 5.972973 TGTGAATCGATAATGCTCAATTTGC 59.027 36.000 0.00 0.00 0.00 3.68
308 331 5.114572 GTGAATCGATAATGCTCAATTTGCG 59.885 40.000 0.00 0.00 0.00 4.85
309 332 5.007528 TGAATCGATAATGCTCAATTTGCGA 59.992 36.000 0.00 0.00 37.17 5.10
310 333 5.618056 ATCGATAATGCTCAATTTGCGAT 57.382 34.783 0.00 0.00 37.94 4.58
311 334 5.022335 TCGATAATGCTCAATTTGCGATC 57.978 39.130 0.00 0.00 31.68 3.69
312 335 4.511082 TCGATAATGCTCAATTTGCGATCA 59.489 37.500 0.00 0.00 31.68 2.92
313 336 5.007528 TCGATAATGCTCAATTTGCGATCAA 59.992 36.000 0.00 0.00 31.68 2.57
314 337 5.854866 CGATAATGCTCAATTTGCGATCAAT 59.145 36.000 0.00 0.00 31.33 2.57
348 371 7.751732 TGTCATATGTTGTCTGAAATTAGCAC 58.248 34.615 1.90 0.00 0.00 4.40
350 373 8.236586 GTCATATGTTGTCTGAAATTAGCACAA 58.763 33.333 1.90 0.00 0.00 3.33
351 374 8.791675 TCATATGTTGTCTGAAATTAGCACAAA 58.208 29.630 1.90 0.00 0.00 2.83
352 375 9.409312 CATATGTTGTCTGAAATTAGCACAAAA 57.591 29.630 0.00 0.00 0.00 2.44
353 376 9.979578 ATATGTTGTCTGAAATTAGCACAAAAA 57.020 25.926 0.00 0.00 0.00 1.94
405 429 5.956642 TGTATACAAAAGAAAATTCGGGCC 58.043 37.500 2.20 0.00 0.00 5.80
415 439 7.654022 AAGAAAATTCGGGCCAATAAGATTA 57.346 32.000 4.39 0.00 0.00 1.75
418 442 7.505585 AGAAAATTCGGGCCAATAAGATTATCA 59.494 33.333 4.39 0.00 0.00 2.15
423 447 8.877864 TTCGGGCCAATAAGATTATCATAATT 57.122 30.769 4.39 0.00 0.00 1.40
424 448 8.506168 TCGGGCCAATAAGATTATCATAATTC 57.494 34.615 4.39 0.00 0.00 2.17
449 473 8.474025 TCATTTAGGGCATGTTTAAATTGTAGG 58.526 33.333 0.00 0.00 0.00 3.18
450 474 7.784470 TTTAGGGCATGTTTAAATTGTAGGT 57.216 32.000 0.00 0.00 0.00 3.08
456 480 7.094975 GGGCATGTTTAAATTGTAGGTTTTTCC 60.095 37.037 0.00 0.00 0.00 3.13
475 499 9.778741 GTTTTTCCTAAGAATTTTGGAGGATTT 57.221 29.630 1.87 0.00 38.99 2.17
476 500 9.777297 TTTTTCCTAAGAATTTTGGAGGATTTG 57.223 29.630 1.87 0.00 38.99 2.32
486 510 9.591792 GAATTTTGGAGGATTTGAATTCTAAGG 57.408 33.333 7.05 0.00 33.17 2.69
489 513 8.899887 TTTGGAGGATTTGAATTCTAAGGAAT 57.100 30.769 7.05 0.02 43.26 3.01
512 536 1.540267 TTGCCGTGGAAACCCATTAG 58.460 50.000 0.00 0.00 35.89 1.73
513 537 0.693622 TGCCGTGGAAACCCATTAGA 59.306 50.000 0.00 0.00 35.89 2.10
519 703 5.560724 CCGTGGAAACCCATTAGATCATAT 58.439 41.667 0.00 0.00 35.89 1.78
521 705 6.230472 CGTGGAAACCCATTAGATCATATGA 58.770 40.000 8.10 8.10 35.89 2.15
548 732 9.886132 TTGGGACTACTAAGTTTCTATGAAATC 57.114 33.333 0.00 0.00 35.56 2.17
560 744 9.732130 AGTTTCTATGAAATCTATTCCTATGCC 57.268 33.333 0.00 0.00 0.00 4.40
603 820 9.334693 CTCATTTTATTTTTCCTTCAGAAGTCG 57.665 33.333 9.41 0.00 35.40 4.18
610 827 4.826274 TTCCTTCAGAAGTCGAATCCAT 57.174 40.909 9.41 0.00 0.00 3.41
621 838 4.113354 AGTCGAATCCATTTTCGCTCTAC 58.887 43.478 1.92 0.00 46.14 2.59
638 855 3.024547 TCTACCCATCACCTTCTCTTCG 58.975 50.000 0.00 0.00 0.00 3.79
664 881 7.041916 GCAATTCTCCAAAATTCATGTGTTTGA 60.042 33.333 15.41 4.05 34.80 2.69
665 882 7.951530 ATTCTCCAAAATTCATGTGTTTGAC 57.048 32.000 15.41 0.00 34.80 3.18
670 887 6.979817 TCCAAAATTCATGTGTTTGACTTCTG 59.020 34.615 15.41 4.16 34.80 3.02
742 960 4.761739 TGGTGACATCTCATCCTTTGTTTC 59.238 41.667 0.00 0.00 33.40 2.78
746 964 7.428826 GTGACATCTCATCCTTTGTTTCTTTT 58.571 34.615 0.00 0.00 0.00 2.27
747 965 7.922811 GTGACATCTCATCCTTTGTTTCTTTTT 59.077 33.333 0.00 0.00 0.00 1.94
748 966 8.137437 TGACATCTCATCCTTTGTTTCTTTTTC 58.863 33.333 0.00 0.00 0.00 2.29
749 967 8.242729 ACATCTCATCCTTTGTTTCTTTTTCT 57.757 30.769 0.00 0.00 0.00 2.52
750 968 8.699130 ACATCTCATCCTTTGTTTCTTTTTCTT 58.301 29.630 0.00 0.00 0.00 2.52
751 969 9.189723 CATCTCATCCTTTGTTTCTTTTTCTTC 57.810 33.333 0.00 0.00 0.00 2.87
752 970 8.525290 TCTCATCCTTTGTTTCTTTTTCTTCT 57.475 30.769 0.00 0.00 0.00 2.85
753 971 9.627123 TCTCATCCTTTGTTTCTTTTTCTTCTA 57.373 29.630 0.00 0.00 0.00 2.10
781 999 6.159988 TCCTACATTTTTAAAACCCGCAATG 58.840 36.000 0.00 3.56 0.00 2.82
789 1007 5.455056 TTAAAACCCGCAATGCTAAGAAA 57.545 34.783 2.94 0.00 0.00 2.52
850 1069 1.168714 CAGCTTTACAGGACTTGGCC 58.831 55.000 0.00 0.00 0.00 5.36
960 1190 0.527385 CGCACCACACACCCAAAAAG 60.527 55.000 0.00 0.00 0.00 2.27
1007 1240 1.663739 GGAAACCCTCAAAACGGCC 59.336 57.895 0.00 0.00 0.00 6.13
1080 1315 1.743321 GCCCACTCCGATCTCTCCAG 61.743 65.000 0.00 0.00 0.00 3.86
1081 1316 1.112315 CCCACTCCGATCTCTCCAGG 61.112 65.000 0.00 0.00 0.00 4.45
1109 1344 2.516225 CGCCCCGAGAATTTCCCC 60.516 66.667 0.00 0.00 0.00 4.81
1233 1468 1.884497 CGTGGAGGAGACTGACTGACT 60.884 57.143 0.00 0.00 44.43 3.41
1346 1603 1.600912 GCTCTCTAGATTTCGCCGTCC 60.601 57.143 0.00 0.00 0.00 4.79
1419 1676 2.912025 CGTGGGCTTGGCAGGTTT 60.912 61.111 0.00 0.00 0.00 3.27
1420 1677 2.919494 CGTGGGCTTGGCAGGTTTC 61.919 63.158 0.00 0.00 0.00 2.78
1640 1909 3.087065 CGTCCTGGATTTGGGGGT 58.913 61.111 0.00 0.00 0.00 4.95
1690 1959 3.650950 GCCTGAAGGGGTGCCTGA 61.651 66.667 0.00 0.00 35.18 3.86
1754 2023 1.521457 GCGATGCGGTGGAGATCAA 60.521 57.895 0.00 0.00 0.00 2.57
1794 2063 3.103911 CGGCAGTTCGTCCGTGAC 61.104 66.667 0.00 0.00 40.72 3.67
1815 2084 1.671742 GGAGGTTCAGCTGTCGGAA 59.328 57.895 14.67 0.00 0.00 4.30
1825 2094 2.525629 TGTCGGAAGAGGTGGGCA 60.526 61.111 0.00 0.00 43.49 5.36
1832 2101 1.680249 GGAAGAGGTGGGCATGAAGAC 60.680 57.143 0.00 0.00 0.00 3.01
1968 2245 6.109359 ACATCTTTGTAATAGAGCTGTGGAC 58.891 40.000 0.00 0.00 33.16 4.02
1993 2271 3.636300 TGCAAGGCTGAACTTACATGTTT 59.364 39.130 2.30 0.00 0.00 2.83
1999 2277 5.359576 AGGCTGAACTTACATGTTTGTTGAA 59.640 36.000 17.13 7.67 37.28 2.69
2000 2278 6.040842 AGGCTGAACTTACATGTTTGTTGAAT 59.959 34.615 17.13 0.00 37.28 2.57
2001 2279 7.230510 AGGCTGAACTTACATGTTTGTTGAATA 59.769 33.333 17.13 4.63 37.28 1.75
2002 2280 8.028938 GGCTGAACTTACATGTTTGTTGAATAT 58.971 33.333 17.13 0.00 37.28 1.28
2066 2344 7.385205 TGCTTAGTCTAGAATCAAACTGTGAAC 59.615 37.037 0.00 0.00 40.50 3.18
2478 2764 5.032863 GCACTGTATGACATCAAGCATTTC 58.967 41.667 0.00 0.00 0.00 2.17
2685 2971 1.135575 GTGCTGCCTGCTTAATGACAC 60.136 52.381 0.00 0.00 43.37 3.67
2695 2981 4.079253 TGCTTAATGACACCCTTCCTTTC 58.921 43.478 0.00 0.00 0.00 2.62
2787 3073 3.985127 TGAGCAGATCCATTTTGGGAAT 58.015 40.909 0.00 0.00 41.12 3.01
2863 3149 7.033791 TGATTGTCAGAGGAACGTTATTCTAC 58.966 38.462 0.00 7.29 0.00 2.59
2913 3201 5.330455 TGCAGTCTGACTAGGATTACAAG 57.670 43.478 10.47 0.00 0.00 3.16
2998 3286 5.630661 TGTTCTCAGCTAGTCTTACAGAC 57.369 43.478 0.00 0.00 45.38 3.51
3011 3299 3.762288 TCTTACAGACACTACGGAATGCT 59.238 43.478 0.00 0.00 0.00 3.79
3037 3325 2.746362 CAGATCTTTTGGTGCTCAGGTC 59.254 50.000 0.00 0.00 0.00 3.85
3085 3373 1.413118 TAGAATGCGCTGAGGATGGA 58.587 50.000 9.73 0.00 0.00 3.41
3237 3525 3.368843 GCACCTGAGAGCTGACATTCTTA 60.369 47.826 0.00 0.00 0.00 2.10
3238 3526 4.682859 GCACCTGAGAGCTGACATTCTTAT 60.683 45.833 0.00 0.00 0.00 1.73
3278 3572 4.036498 GCAGAATTATGCTCAGCAGACAAT 59.964 41.667 17.62 1.60 43.65 2.71
3357 3656 5.614324 TGTCAAGGGTAGAATACTCCATG 57.386 43.478 0.00 0.00 45.42 3.66
3472 3781 1.458445 CAAGATCTGCACACACAGTCG 59.542 52.381 0.00 0.00 38.84 4.18
3628 3944 3.051803 TGGATCCTATGTCCTGAGTCCTT 60.052 47.826 14.23 0.00 36.68 3.36
3664 3980 2.211806 TGCGTGTTAAGTGTACCCAAC 58.788 47.619 0.00 0.00 0.00 3.77
3717 4033 4.602995 TGTAAAACACAAGCGGATTTGAC 58.397 39.130 0.57 0.00 32.95 3.18
3738 4054 1.289160 TTGGAAGGGAGTGATGAGGG 58.711 55.000 0.00 0.00 0.00 4.30
3780 4096 1.173043 CATGTACCGTGCCCACAATT 58.827 50.000 0.00 0.00 0.00 2.32
3788 4104 4.274147 ACCGTGCCCACAATTTGAATATA 58.726 39.130 2.79 0.00 0.00 0.86
3819 4135 5.804473 TGTATGCCAAATACGCTTTTGAATG 59.196 36.000 11.15 0.00 38.58 2.67
3831 4147 3.985925 GCTTTTGAATGCCTCTGTTCTTG 59.014 43.478 0.00 0.00 0.00 3.02
3845 4161 3.631144 TGTTCTTGCAAATCTCAAAGCG 58.369 40.909 0.00 0.00 0.00 4.68
3849 4165 0.039256 TGCAAATCTCAAAGCGTGGC 60.039 50.000 0.00 0.00 0.00 5.01
3946 4262 4.015764 TGCTATGCCAGAATACTTGCAAA 58.984 39.130 0.00 0.00 45.41 3.68
3947 4263 5.732528 CTGCTATGCCAGAATACTTGCAAAG 60.733 44.000 0.00 0.00 45.41 2.77
4042 4439 5.780793 TCTGAAAGAAAGGTAGCCTAGTCTT 59.219 40.000 7.73 7.73 42.31 3.01
4043 4440 6.270231 TCTGAAAGAAAGGTAGCCTAGTCTTT 59.730 38.462 18.68 18.68 42.31 2.52
4044 4441 6.231211 TGAAAGAAAGGTAGCCTAGTCTTTG 58.769 40.000 21.46 0.00 42.77 2.77
4045 4442 4.828072 AGAAAGGTAGCCTAGTCTTTGG 57.172 45.455 5.15 0.00 31.13 3.28
4046 4443 4.168883 AGAAAGGTAGCCTAGTCTTTGGT 58.831 43.478 5.15 0.00 31.13 3.67
4047 4444 4.597940 AGAAAGGTAGCCTAGTCTTTGGTT 59.402 41.667 5.15 0.00 31.13 3.67
4048 4445 4.995624 AAGGTAGCCTAGTCTTTGGTTT 57.004 40.909 0.00 0.00 31.13 3.27
4049 4446 4.995624 AGGTAGCCTAGTCTTTGGTTTT 57.004 40.909 0.00 0.00 28.47 2.43
4050 4447 6.443995 AAGGTAGCCTAGTCTTTGGTTTTA 57.556 37.500 0.00 0.00 31.13 1.52
4051 4448 6.051179 AGGTAGCCTAGTCTTTGGTTTTAG 57.949 41.667 0.00 0.00 28.47 1.85
4213 4612 3.379650 GCTAGTAATTCTGGCCGCA 57.620 52.632 0.00 0.00 43.45 5.69
4232 4631 1.806542 CACTTCATCCAACCGTTCCAG 59.193 52.381 0.00 0.00 0.00 3.86
4240 4639 1.474879 CCAACCGTTCCAGTGTTTTGT 59.525 47.619 0.00 0.00 0.00 2.83
4257 4656 7.602265 AGTGTTTTGTTTATGTGAATTATGGGC 59.398 33.333 0.00 0.00 0.00 5.36
4265 4664 3.884895 TGTGAATTATGGGCCTGTACAG 58.115 45.455 16.34 16.34 0.00 2.74
4280 4679 8.705594 GGGCCTGTACAGATGTGTATATATAAT 58.294 37.037 24.68 0.00 41.29 1.28
4298 4697 1.919012 TGGTTGCTTCACCAGTGGA 59.081 52.632 18.40 0.00 42.27 4.02
4399 4816 2.743664 TGTCATGCCGACTTGAATTCTG 59.256 45.455 7.05 2.42 45.60 3.02
4417 4834 7.393234 TGAATTCTGTGGGATTAAAACTACAGG 59.607 37.037 19.13 7.42 36.93 4.00
4443 4860 3.848272 AGATAAACATGTGTTTGGCGG 57.152 42.857 18.61 0.00 46.56 6.13
4453 4870 2.597217 TTTGGCGGCACAGGAAGG 60.597 61.111 12.92 0.00 0.00 3.46
4458 4875 2.435586 CGGCACAGGAAGGCAGAG 60.436 66.667 0.00 0.00 0.00 3.35
4459 4876 2.753029 GGCACAGGAAGGCAGAGT 59.247 61.111 0.00 0.00 0.00 3.24
4513 4930 5.964958 TTTCCCTTCAAAATAGAGTGCAG 57.035 39.130 0.00 0.00 0.00 4.41
4515 4932 4.579869 TCCCTTCAAAATAGAGTGCAGAC 58.420 43.478 0.00 0.00 0.00 3.51
4523 4941 6.595326 TCAAAATAGAGTGCAGACGAATCATT 59.405 34.615 0.00 0.00 0.00 2.57
4524 4942 6.992063 AAATAGAGTGCAGACGAATCATTT 57.008 33.333 0.00 0.00 0.00 2.32
4555 4973 8.455903 TCTAAGGATTTGAATCATGTGAATCC 57.544 34.615 13.75 13.75 43.80 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.454106 GCACGAGGAATAATATGCAGATAAATT 58.546 33.333 0.00 0.00 33.27 1.82
4 5 7.066284 GGCACGAGGAATAATATGCAGATAAAT 59.934 37.037 0.00 0.00 34.73 1.40
5 6 6.371548 GGCACGAGGAATAATATGCAGATAAA 59.628 38.462 0.00 0.00 34.73 1.40
6 7 5.874810 GGCACGAGGAATAATATGCAGATAA 59.125 40.000 0.00 0.00 34.73 1.75
7 8 5.187772 AGGCACGAGGAATAATATGCAGATA 59.812 40.000 0.00 0.00 34.73 1.98
8 9 4.019860 AGGCACGAGGAATAATATGCAGAT 60.020 41.667 0.00 0.00 34.73 2.90
9 10 3.324846 AGGCACGAGGAATAATATGCAGA 59.675 43.478 0.00 0.00 34.73 4.26
10 11 3.668447 AGGCACGAGGAATAATATGCAG 58.332 45.455 0.00 0.00 34.73 4.41
11 12 3.769739 AGGCACGAGGAATAATATGCA 57.230 42.857 0.00 0.00 34.73 3.96
12 13 3.815401 ACAAGGCACGAGGAATAATATGC 59.185 43.478 0.00 0.00 0.00 3.14
13 14 4.150627 CGACAAGGCACGAGGAATAATATG 59.849 45.833 0.00 0.00 0.00 1.78
14 15 4.202223 ACGACAAGGCACGAGGAATAATAT 60.202 41.667 0.00 0.00 0.00 1.28
15 16 3.131577 ACGACAAGGCACGAGGAATAATA 59.868 43.478 0.00 0.00 0.00 0.98
16 17 2.093658 ACGACAAGGCACGAGGAATAAT 60.094 45.455 0.00 0.00 0.00 1.28
17 18 1.274167 ACGACAAGGCACGAGGAATAA 59.726 47.619 0.00 0.00 0.00 1.40
18 19 0.892755 ACGACAAGGCACGAGGAATA 59.107 50.000 0.00 0.00 0.00 1.75
19 20 0.892755 TACGACAAGGCACGAGGAAT 59.107 50.000 0.00 0.00 0.00 3.01
20 21 0.892755 ATACGACAAGGCACGAGGAA 59.107 50.000 0.00 0.00 0.00 3.36
21 22 0.892755 AATACGACAAGGCACGAGGA 59.107 50.000 0.00 0.00 0.00 3.71
22 23 1.278238 GAATACGACAAGGCACGAGG 58.722 55.000 0.00 0.00 0.00 4.63
23 24 0.914551 CGAATACGACAAGGCACGAG 59.085 55.000 0.00 0.00 42.66 4.18
24 25 0.241749 ACGAATACGACAAGGCACGA 59.758 50.000 0.00 0.00 42.66 4.35
25 26 0.638746 GACGAATACGACAAGGCACG 59.361 55.000 0.00 0.00 42.66 5.34
26 27 0.997196 GGACGAATACGACAAGGCAC 59.003 55.000 0.00 0.00 42.66 5.01
27 28 0.892755 AGGACGAATACGACAAGGCA 59.107 50.000 0.00 0.00 42.66 4.75
28 29 1.659098 CAAGGACGAATACGACAAGGC 59.341 52.381 0.00 0.00 42.66 4.35
29 30 2.666508 CACAAGGACGAATACGACAAGG 59.333 50.000 0.00 0.00 42.66 3.61
30 31 2.666508 CCACAAGGACGAATACGACAAG 59.333 50.000 0.00 0.00 43.06 3.16
31 32 2.610976 CCCACAAGGACGAATACGACAA 60.611 50.000 0.00 0.00 43.06 3.18
32 33 1.067425 CCCACAAGGACGAATACGACA 60.067 52.381 0.00 0.00 43.06 4.35
33 34 1.067354 ACCCACAAGGACGAATACGAC 60.067 52.381 0.00 0.00 40.20 4.34
34 35 1.067425 CACCCACAAGGACGAATACGA 60.067 52.381 0.00 0.00 40.20 3.43
35 36 1.355971 CACCCACAAGGACGAATACG 58.644 55.000 0.00 0.00 41.77 3.06
36 37 1.276989 TCCACCCACAAGGACGAATAC 59.723 52.381 0.00 0.00 39.89 1.89
37 38 1.553248 CTCCACCCACAAGGACGAATA 59.447 52.381 0.00 0.00 39.89 1.75
38 39 0.324943 CTCCACCCACAAGGACGAAT 59.675 55.000 0.00 0.00 39.89 3.34
39 40 0.761323 TCTCCACCCACAAGGACGAA 60.761 55.000 0.00 0.00 39.89 3.85
40 41 0.544357 ATCTCCACCCACAAGGACGA 60.544 55.000 0.00 0.00 39.89 4.20
41 42 0.324943 AATCTCCACCCACAAGGACG 59.675 55.000 0.00 0.00 39.89 4.79
42 43 2.586648 AAATCTCCACCCACAAGGAC 57.413 50.000 0.00 0.00 39.89 3.85
43 44 3.230134 CAAAAATCTCCACCCACAAGGA 58.770 45.455 0.00 0.00 39.89 3.36
44 45 2.289010 GCAAAAATCTCCACCCACAAGG 60.289 50.000 0.00 0.00 43.78 3.61
45 46 2.364970 TGCAAAAATCTCCACCCACAAG 59.635 45.455 0.00 0.00 0.00 3.16
46 47 2.392662 TGCAAAAATCTCCACCCACAA 58.607 42.857 0.00 0.00 0.00 3.33
47 48 2.079170 TGCAAAAATCTCCACCCACA 57.921 45.000 0.00 0.00 0.00 4.17
48 49 3.259123 AGATTGCAAAAATCTCCACCCAC 59.741 43.478 1.71 0.00 31.78 4.61
49 50 3.509442 AGATTGCAAAAATCTCCACCCA 58.491 40.909 1.71 0.00 31.78 4.51
50 51 4.115401 GAGATTGCAAAAATCTCCACCC 57.885 45.455 14.93 0.00 44.17 4.61
95 96 9.846248 ATGCAGAACTTCAAAAATTAGTATGTC 57.154 29.630 0.00 0.00 0.00 3.06
96 97 9.846248 GATGCAGAACTTCAAAAATTAGTATGT 57.154 29.630 0.00 0.00 0.00 2.29
105 106 5.056480 TCTCTCGATGCAGAACTTCAAAAA 58.944 37.500 0.00 0.00 0.00 1.94
115 116 4.160439 ACCTTGTTATTCTCTCGATGCAGA 59.840 41.667 0.00 0.00 0.00 4.26
127 128 8.898792 GTTTGACGTATTTGAACCTTGTTATTC 58.101 33.333 0.00 0.00 0.00 1.75
129 130 7.932335 TGTTTGACGTATTTGAACCTTGTTAT 58.068 30.769 0.00 0.00 0.00 1.89
130 131 7.317842 TGTTTGACGTATTTGAACCTTGTTA 57.682 32.000 0.00 0.00 0.00 2.41
131 132 6.197364 TGTTTGACGTATTTGAACCTTGTT 57.803 33.333 0.00 0.00 0.00 2.83
132 133 5.821516 TGTTTGACGTATTTGAACCTTGT 57.178 34.783 0.00 0.00 0.00 3.16
133 134 7.692908 ATTTGTTTGACGTATTTGAACCTTG 57.307 32.000 0.00 0.00 0.00 3.61
134 135 9.804758 TTTATTTGTTTGACGTATTTGAACCTT 57.195 25.926 0.00 0.00 0.00 3.50
135 136 9.804758 TTTTATTTGTTTGACGTATTTGAACCT 57.195 25.926 0.00 0.00 0.00 3.50
192 193 2.561419 TCAACGGGGTTTGTTTTTCACA 59.439 40.909 0.00 0.00 0.00 3.58
193 194 3.233684 TCAACGGGGTTTGTTTTTCAC 57.766 42.857 0.00 0.00 0.00 3.18
194 195 3.786635 CATCAACGGGGTTTGTTTTTCA 58.213 40.909 0.00 0.00 0.00 2.69
201 202 2.969827 GGGCATCAACGGGGTTTG 59.030 61.111 0.00 0.00 0.00 2.93
203 204 1.628238 TATCGGGCATCAACGGGGTT 61.628 55.000 0.00 0.00 0.00 4.11
204 205 1.628238 TTATCGGGCATCAACGGGGT 61.628 55.000 0.00 0.00 0.00 4.95
205 206 0.884704 CTTATCGGGCATCAACGGGG 60.885 60.000 0.00 0.00 0.00 5.73
206 207 0.179056 ACTTATCGGGCATCAACGGG 60.179 55.000 0.00 0.00 0.00 5.28
207 208 2.519377 TACTTATCGGGCATCAACGG 57.481 50.000 0.00 0.00 0.00 4.44
208 209 3.869246 ACTTTACTTATCGGGCATCAACG 59.131 43.478 0.00 0.00 0.00 4.10
215 238 2.361789 TGCCAACTTTACTTATCGGGC 58.638 47.619 0.00 0.00 40.51 6.13
219 242 8.193250 TCTTATCGTTGCCAACTTTACTTATC 57.807 34.615 5.96 0.00 0.00 1.75
233 256 7.794349 GCACATAAAGAGTTATCTTATCGTTGC 59.206 37.037 0.00 0.00 45.25 4.17
277 300 7.125536 TGAGCATTATCGATTCACAATCATC 57.874 36.000 1.71 0.00 37.78 2.92
288 311 5.179929 TGATCGCAAATTGAGCATTATCGAT 59.820 36.000 2.16 2.16 39.86 3.59
291 314 8.906636 ATATTGATCGCAAATTGAGCATTATC 57.093 30.769 0.00 0.00 37.59 1.75
351 374 9.764363 GTCTCTTTAACCAGATTTTCCAATTTT 57.236 29.630 0.00 0.00 0.00 1.82
352 375 8.923270 TGTCTCTTTAACCAGATTTTCCAATTT 58.077 29.630 0.00 0.00 0.00 1.82
353 376 8.477419 TGTCTCTTTAACCAGATTTTCCAATT 57.523 30.769 0.00 0.00 0.00 2.32
354 377 8.477419 TTGTCTCTTTAACCAGATTTTCCAAT 57.523 30.769 0.00 0.00 0.00 3.16
358 381 9.750125 ACAATTTGTCTCTTTAACCAGATTTTC 57.250 29.630 0.00 0.00 0.00 2.29
385 409 5.476091 TTGGCCCGAATTTTCTTTTGTAT 57.524 34.783 0.00 0.00 0.00 2.29
388 412 6.162777 TCTTATTGGCCCGAATTTTCTTTTG 58.837 36.000 0.00 0.00 0.00 2.44
398 422 8.877864 AATTATGATAATCTTATTGGCCCGAA 57.122 30.769 0.00 0.00 0.00 4.30
423 447 8.474025 CCTACAATTTAAACATGCCCTAAATGA 58.526 33.333 0.00 0.00 0.00 2.57
424 448 8.257306 ACCTACAATTTAAACATGCCCTAAATG 58.743 33.333 0.00 0.00 0.00 2.32
427 451 7.784470 AACCTACAATTTAAACATGCCCTAA 57.216 32.000 0.00 0.00 0.00 2.69
449 473 9.778741 AAATCCTCCAAAATTCTTAGGAAAAAC 57.221 29.630 0.00 0.00 39.68 2.43
450 474 9.777297 CAAATCCTCCAAAATTCTTAGGAAAAA 57.223 29.630 0.00 0.00 39.68 1.94
497 521 7.391554 AATCATATGATCTAATGGGTTTCCACG 59.608 37.037 18.44 0.00 38.80 4.94
498 522 8.517878 CAATCATATGATCTAATGGGTTTCCAC 58.482 37.037 18.44 0.00 38.80 4.02
501 525 7.890127 TCCCAATCATATGATCTAATGGGTTTC 59.110 37.037 33.24 0.00 44.00 2.78
519 703 8.603898 TCATAGAAACTTAGTAGTCCCAATCA 57.396 34.615 0.00 0.00 31.99 2.57
548 732 3.489355 TGCAATGTGGGCATAGGAATAG 58.511 45.455 0.00 0.00 36.11 1.73
558 742 0.391528 GGTTTCCATGCAATGTGGGC 60.392 55.000 5.01 0.00 44.81 5.36
560 744 1.894466 TGAGGTTTCCATGCAATGTGG 59.106 47.619 0.00 0.00 44.81 4.17
571 787 9.208022 CTGAAGGAAAAATAAAATGAGGTTTCC 57.792 33.333 5.09 5.09 42.77 3.13
603 820 3.541632 TGGGTAGAGCGAAAATGGATTC 58.458 45.455 0.00 0.00 0.00 2.52
610 827 1.906574 AGGTGATGGGTAGAGCGAAAA 59.093 47.619 0.00 0.00 0.00 2.29
621 838 0.250234 TGCGAAGAGAAGGTGATGGG 59.750 55.000 0.00 0.00 0.00 4.00
638 855 6.790285 AACACATGAATTTTGGAGAATTGC 57.210 33.333 0.00 0.00 29.75 3.56
751 969 9.673454 GCGGGTTTTAAAAATGTAGGAATATAG 57.327 33.333 1.31 0.00 0.00 1.31
752 970 9.186837 TGCGGGTTTTAAAAATGTAGGAATATA 57.813 29.630 1.31 0.00 0.00 0.86
753 971 8.068892 TGCGGGTTTTAAAAATGTAGGAATAT 57.931 30.769 1.31 0.00 0.00 1.28
772 990 1.173913 GGTTTCTTAGCATTGCGGGT 58.826 50.000 2.38 0.00 0.00 5.28
775 993 2.083774 TGAGGGTTTCTTAGCATTGCG 58.916 47.619 2.38 0.00 0.00 4.85
781 999 5.904362 ATCACATTTGAGGGTTTCTTAGC 57.096 39.130 0.00 0.00 34.35 3.09
789 1007 9.705290 GTGTAAATTTTTATCACATTTGAGGGT 57.295 29.630 0.00 0.00 34.35 4.34
850 1069 1.258720 GCCTTTTTGCTGTCTTTTGCG 59.741 47.619 0.00 0.00 0.00 4.85
1007 1240 2.051879 TTCTTGTTCTCTCGTGCTCG 57.948 50.000 0.81 0.81 38.55 5.03
1207 1442 0.671781 CAGTCTCCTCCACGCCTTTG 60.672 60.000 0.00 0.00 0.00 2.77
1208 1443 0.832135 TCAGTCTCCTCCACGCCTTT 60.832 55.000 0.00 0.00 0.00 3.11
1404 1661 2.203625 GGAAACCTGCCAAGCCCA 60.204 61.111 0.00 0.00 0.00 5.36
1423 1680 0.176449 GCATTCCCCTGCCAAATCAC 59.824 55.000 0.00 0.00 36.10 3.06
1698 1967 4.379243 CTGAACCTGCCGCCGTCT 62.379 66.667 0.00 0.00 0.00 4.18
1731 2000 4.889856 TCCACCGCATCGCCATCG 62.890 66.667 0.00 0.00 0.00 3.84
1794 2063 2.811317 GACAGCTGAACCTCCGCG 60.811 66.667 23.35 0.00 0.00 6.46
1815 2084 0.617413 CAGTCTTCATGCCCACCTCT 59.383 55.000 0.00 0.00 0.00 3.69
1825 2094 4.275810 CCATTTCCATCCACAGTCTTCAT 58.724 43.478 0.00 0.00 0.00 2.57
1832 2101 1.033746 AGCGCCATTTCCATCCACAG 61.034 55.000 2.29 0.00 0.00 3.66
1872 2141 0.034767 CAGGCTGCTCAGGGAAATCA 60.035 55.000 0.00 0.00 0.00 2.57
1968 2245 4.637534 ACATGTAAGTTCAGCCTTGCATAG 59.362 41.667 0.00 3.38 43.19 2.23
2478 2764 6.260493 AGAAGATTAGCTGCAGCAATTTAGAG 59.740 38.462 38.24 0.00 45.16 2.43
2742 3028 7.888021 TCAAATAAGCCTGGATAAAACTTCTCA 59.112 33.333 0.00 0.00 0.00 3.27
2787 3073 2.045524 TGGCCTTCCAAAGCAAAATGA 58.954 42.857 3.32 0.00 39.99 2.57
2820 3106 3.179443 TCATACCTGCAAATCTCCGAC 57.821 47.619 0.00 0.00 0.00 4.79
2823 3109 4.883585 TGACAATCATACCTGCAAATCTCC 59.116 41.667 0.00 0.00 0.00 3.71
2863 3149 5.521735 CCGATCTTCTAATGTGACAGGAAAG 59.478 44.000 0.00 0.00 0.00 2.62
2998 3286 2.483877 TCTGCAAAAGCATTCCGTAGTG 59.516 45.455 0.00 0.00 0.00 2.74
3011 3299 3.384146 TGAGCACCAAAAGATCTGCAAAA 59.616 39.130 0.00 0.00 31.71 2.44
3037 3325 7.644551 GCGTATCTCGGGTTATCATCTATTAAG 59.355 40.741 0.00 0.00 40.26 1.85
3085 3373 3.795688 TCAAAGAGCAGAACCCTCATT 57.204 42.857 0.00 0.00 0.00 2.57
3237 3525 1.089920 GCTGCTCACATCGGACAAAT 58.910 50.000 0.00 0.00 0.00 2.32
3238 3526 0.250252 TGCTGCTCACATCGGACAAA 60.250 50.000 0.00 0.00 0.00 2.83
3278 3572 7.487822 ACATCTTCCTTCAGAAAGTGAGATA 57.512 36.000 0.00 0.00 36.21 1.98
3357 3656 5.907197 TCGTCATTCTCTCAAACAAAGAC 57.093 39.130 0.00 0.00 0.00 3.01
3472 3781 7.326789 TGAAAAAGAATTCAATCTTCGACATGC 59.673 33.333 8.44 0.00 38.69 4.06
3485 3794 6.985117 AGCTAACATGCTGAAAAAGAATTCA 58.015 32.000 8.44 0.00 42.33 2.57
3628 3944 2.867368 CACGCAACTGTAACCACAAGTA 59.133 45.455 0.00 0.00 33.22 2.24
3664 3980 3.117434 CGAAGCAAACGGATTAACCAG 57.883 47.619 0.00 0.00 38.90 4.00
3678 3994 2.831685 ACAGTGTATTCACCGAAGCA 57.168 45.000 0.00 0.00 44.83 3.91
3717 4033 2.356535 CCCTCATCACTCCCTTCCAAAG 60.357 54.545 0.00 0.00 0.00 2.77
3738 4054 6.402222 TGGAGTAGAATGCTTCTCTTTTCTC 58.598 40.000 7.24 0.00 41.14 2.87
3755 4071 0.104304 GGGCACGGTACATGGAGTAG 59.896 60.000 0.00 0.00 32.19 2.57
3801 4117 3.848726 AGGCATTCAAAAGCGTATTTGG 58.151 40.909 12.87 0.48 40.04 3.28
3810 4126 3.985925 GCAAGAACAGAGGCATTCAAAAG 59.014 43.478 0.00 0.00 0.00 2.27
3819 4135 2.816087 TGAGATTTGCAAGAACAGAGGC 59.184 45.455 0.00 0.00 0.00 4.70
3831 4147 0.039256 TGCCACGCTTTGAGATTTGC 60.039 50.000 0.00 0.00 0.00 3.68
3849 4165 3.807538 GCGCACCCTGCATCTGTG 61.808 66.667 0.30 6.14 45.36 3.66
3896 4212 2.092968 GCATGTCATAGGTCTTCACCCA 60.093 50.000 0.00 0.00 45.12 4.51
3946 4262 8.721133 TTATGGTGAGTGTATGGTATGTATCT 57.279 34.615 0.00 0.00 0.00 1.98
3947 4263 8.035394 CCTTATGGTGAGTGTATGGTATGTATC 58.965 40.741 0.00 0.00 0.00 2.24
3953 4269 5.274015 TGTCCTTATGGTGAGTGTATGGTA 58.726 41.667 0.00 0.00 34.23 3.25
4014 4411 2.289506 GGCTACCTTTCTTTCAGACGGT 60.290 50.000 0.00 0.00 34.08 4.83
4017 4414 5.186215 AGACTAGGCTACCTTTCTTTCAGAC 59.814 44.000 0.00 0.00 34.61 3.51
4042 4439 8.383175 AGGACAAGATATGTTCTCTAAAACCAA 58.617 33.333 0.00 0.00 45.24 3.67
4043 4440 7.918076 AGGACAAGATATGTTCTCTAAAACCA 58.082 34.615 0.00 0.00 45.24 3.67
4160 4559 9.503427 GCACAATTACACTCCTTATTATCAAAC 57.497 33.333 0.00 0.00 0.00 2.93
4161 4560 9.461312 AGCACAATTACACTCCTTATTATCAAA 57.539 29.630 0.00 0.00 0.00 2.69
4213 4612 2.185004 CTGGAACGGTTGGATGAAGT 57.815 50.000 0.00 0.00 0.00 3.01
4232 4631 7.148490 GGCCCATAATTCACATAAACAAAACAC 60.148 37.037 0.00 0.00 0.00 3.32
4240 4639 6.427441 TGTACAGGCCCATAATTCACATAAA 58.573 36.000 0.00 0.00 0.00 1.40
4399 4816 8.209917 CTACATTCCTGTAGTTTTAATCCCAC 57.790 38.462 4.91 0.00 46.54 4.61
4417 4834 6.468956 CGCCAAACACATGTTTATCTACATTC 59.531 38.462 9.58 0.00 45.54 2.67
4430 4847 1.372004 CTGTGCCGCCAAACACATG 60.372 57.895 0.00 0.00 45.18 3.21
4443 4860 2.409948 ATTACTCTGCCTTCCTGTGC 57.590 50.000 0.00 0.00 0.00 4.57
4483 4900 9.147732 ACTCTATTTTGAAGGGAAAATGTCTTT 57.852 29.630 0.00 0.00 36.44 2.52
4541 4959 7.933577 TCATGTACCTAAGGATTCACATGATTC 59.066 37.037 10.30 0.00 44.28 2.52


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

AutoCloner maintained by Alex Coulton.