Multiple sequence alignment - TraesCS2D01G327500

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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 TraesCS2D01G327500 chr2D 100.000 4286 0 0 1 4286 420738254 420742539 0.000000e+00 7915.0
1 TraesCS2D01G327500 chr2D 76.153 759 135 35 3026 3750 557950933 557951679 1.470000e-94 357.0
2 TraesCS2D01G327500 chr2A 95.433 1292 45 8 867 2152 566456359 566457642 0.000000e+00 2047.0
3 TraesCS2D01G327500 chr2A 93.064 1139 65 10 2925 4057 566460089 566461219 0.000000e+00 1653.0
4 TraesCS2D01G327500 chr2A 96.361 742 24 2 2152 2893 566459350 566460088 0.000000e+00 1218.0
5 TraesCS2D01G327500 chr2A 87.188 320 34 5 496 810 566455462 566455779 1.470000e-94 357.0
6 TraesCS2D01G327500 chr2A 88.764 267 23 5 148 409 566454641 566454905 1.920000e-83 320.0
7 TraesCS2D01G327500 chr2A 90.789 228 8 2 4061 4286 566469760 566469976 4.190000e-75 292.0
8 TraesCS2D01G327500 chr2A 91.358 81 4 3 789 869 566456020 566456097 1.630000e-19 108.0
9 TraesCS2D01G327500 chr2B 94.756 1087 52 4 1808 2893 493329394 493330476 0.000000e+00 1687.0
10 TraesCS2D01G327500 chr2B 95.100 1000 43 2 2925 3922 493330477 493331472 0.000000e+00 1570.0
11 TraesCS2D01G327500 chr2B 96.871 831 23 3 986 1815 493311226 493312054 0.000000e+00 1387.0
12 TraesCS2D01G327500 chr2B 87.082 867 65 18 2 858 493307759 493308588 0.000000e+00 937.0
13 TraesCS2D01G327500 chr5B 80.441 1723 264 30 1052 2737 689180330 689178644 0.000000e+00 1247.0
14 TraesCS2D01G327500 chr5B 90.541 74 5 2 3166 3238 689176107 689176035 3.530000e-16 97.1
15 TraesCS2D01G327500 chr1B 75.564 1596 306 59 1041 2599 10048453 10046905 0.000000e+00 710.0
16 TraesCS2D01G327500 chr7B 74.713 1566 318 55 1052 2570 700904363 700902829 1.010000e-175 627.0
17 TraesCS2D01G327500 chr7B 74.775 1554 288 67 1041 2547 700960203 700958707 1.710000e-168 603.0
18 TraesCS2D01G327500 chr7B 76.183 634 133 13 1917 2533 702554194 702554826 6.920000e-83 318.0
19 TraesCS2D01G327500 chr7B 78.733 442 85 9 2200 2634 702461285 702461724 1.950000e-73 287.0
20 TraesCS2D01G327500 chr7B 73.423 523 106 24 1321 1816 701646032 701646548 9.530000e-37 165.0
21 TraesCS2D01G327500 chr7B 73.499 483 87 30 3026 3481 702258551 702259019 1.240000e-30 145.0
22 TraesCS2D01G327500 chr7A 75.048 1551 283 71 1045 2547 701604958 701603464 3.640000e-175 625.0
23 TraesCS2D01G327500 chr7A 73.630 1259 269 38 1321 2547 702237724 702238951 1.100000e-115 427.0
24 TraesCS2D01G327500 chr7A 73.558 1040 221 30 1504 2518 701599547 701598537 8.820000e-92 348.0
25 TraesCS2D01G327500 chr7A 75.556 675 85 42 3095 3743 704041897 704042517 4.250000e-65 259.0
26 TraesCS2D01G327500 chr7A 89.831 59 6 0 2867 2925 703603777 703603835 4.600000e-10 76.8
27 TraesCS2D01G327500 chr7D 73.924 1557 325 53 1041 2547 611857454 611855929 6.260000e-153 551.0
28 TraesCS2D01G327500 chr7D 73.347 1467 293 66 1128 2547 612286877 612288292 1.820000e-123 453.0
29 TraesCS2D01G327500 chr7D 73.569 1275 267 47 1321 2546 612326179 612327432 1.420000e-114 424.0
30 TraesCS2D01G327500 chr7D 74.691 1051 217 39 1625 2634 612935428 612936470 5.120000e-114 422.0
31 TraesCS2D01G327500 chr7D 74.089 494 86 29 3026 3494 612833746 612834222 9.530000e-37 165.0
32 TraesCS2D01G327500 chr7D 79.661 236 39 6 1041 1273 611649342 611649113 1.230000e-35 161.0
33 TraesCS2D01G327500 chr7D 88.462 78 8 1 2875 2951 612833723 612833800 4.560000e-15 93.5
34 TraesCS2D01G327500 chr7D 90.323 62 5 1 4176 4236 612886293 612886354 3.550000e-11 80.5
35 TraesCS2D01G327500 chr5D 74.671 304 51 16 3094 3384 545993082 545992792 1.260000e-20 111.0
36 TraesCS2D01G327500 chr4A 81.507 146 16 6 3094 3238 623363600 623363735 4.530000e-20 110.0


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 TraesCS2D01G327500 chr2D 420738254 420742539 4285 False 7915.00 7915 100.0000 1 4286 1 chr2D.!!$F1 4285
1 TraesCS2D01G327500 chr2D 557950933 557951679 746 False 357.00 357 76.1530 3026 3750 1 chr2D.!!$F2 724
2 TraesCS2D01G327500 chr2A 566454641 566461219 6578 False 950.50 2047 92.0280 148 4057 6 chr2A.!!$F2 3909
3 TraesCS2D01G327500 chr2B 493329394 493331472 2078 False 1628.50 1687 94.9280 1808 3922 2 chr2B.!!$F2 2114
4 TraesCS2D01G327500 chr2B 493307759 493312054 4295 False 1162.00 1387 91.9765 2 1815 2 chr2B.!!$F1 1813
5 TraesCS2D01G327500 chr5B 689176035 689180330 4295 True 672.05 1247 85.4910 1052 3238 2 chr5B.!!$R1 2186
6 TraesCS2D01G327500 chr1B 10046905 10048453 1548 True 710.00 710 75.5640 1041 2599 1 chr1B.!!$R1 1558
7 TraesCS2D01G327500 chr7B 700902829 700904363 1534 True 627.00 627 74.7130 1052 2570 1 chr7B.!!$R1 1518
8 TraesCS2D01G327500 chr7B 700958707 700960203 1496 True 603.00 603 74.7750 1041 2547 1 chr7B.!!$R2 1506
9 TraesCS2D01G327500 chr7B 702554194 702554826 632 False 318.00 318 76.1830 1917 2533 1 chr7B.!!$F4 616
10 TraesCS2D01G327500 chr7A 701598537 701604958 6421 True 486.50 625 74.3030 1045 2547 2 chr7A.!!$R1 1502
11 TraesCS2D01G327500 chr7A 702237724 702238951 1227 False 427.00 427 73.6300 1321 2547 1 chr7A.!!$F1 1226
12 TraesCS2D01G327500 chr7A 704041897 704042517 620 False 259.00 259 75.5560 3095 3743 1 chr7A.!!$F3 648
13 TraesCS2D01G327500 chr7D 611855929 611857454 1525 True 551.00 551 73.9240 1041 2547 1 chr7D.!!$R2 1506
14 TraesCS2D01G327500 chr7D 612286877 612288292 1415 False 453.00 453 73.3470 1128 2547 1 chr7D.!!$F1 1419
15 TraesCS2D01G327500 chr7D 612326179 612327432 1253 False 424.00 424 73.5690 1321 2546 1 chr7D.!!$F2 1225
16 TraesCS2D01G327500 chr7D 612935428 612936470 1042 False 422.00 422 74.6910 1625 2634 1 chr7D.!!$F4 1009

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
616 1097 0.179015 TCGGTAGTTTGCCAAAGCCA 60.179 50.0 0.00 0.0 38.69 4.75 F
937 4144 0.319813 CGATACTGCATCCATCGCCA 60.320 55.0 10.54 0.0 35.64 5.69 F
2115 5820 0.176910 TGTGTTTGGAGCACTCACGA 59.823 50.0 0.00 0.0 37.70 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 5548 0.537653 GTGCAGGAGAAGGTAGGGAC 59.462 60.0 0.00 0.0 0.00 4.46 R
2330 7786 0.805614 TCTCCACTTCTTCGAGAGCG 59.194 55.0 0.00 0.0 39.35 5.03 R
3333 11258 0.677731 TTGGCCATCGCAGGAAAGAG 60.678 55.0 6.09 0.0 36.38 2.85 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
33 34 2.100797 CGCGTCAACGGACCGATA 59.899 61.111 23.38 1.79 41.13 2.92
35 36 1.469126 CGCGTCAACGGACCGATAAG 61.469 60.000 23.38 8.53 41.13 1.73
77 78 0.789383 GATTTGTTCGGACGCTTGCG 60.789 55.000 13.70 13.70 38.05 4.85
80 81 2.813908 GTTCGGACGCTTGCGGAT 60.814 61.111 19.19 0.00 37.14 4.18
81 82 2.813474 TTCGGACGCTTGCGGATG 60.813 61.111 19.19 7.95 37.14 3.51
89 90 0.454957 CGCTTGCGGATGGTTTGAAG 60.455 55.000 7.16 0.00 0.00 3.02
95 96 0.684153 CGGATGGTTTGAAGGGCCAT 60.684 55.000 6.18 0.00 44.82 4.40
194 195 1.235724 GTCCAGGTGGTGTGCTTTAC 58.764 55.000 0.00 0.00 36.34 2.01
219 224 5.830799 ATATAGACATGGTGGAGCATTGA 57.169 39.130 0.00 0.00 0.00 2.57
246 251 3.062122 CCTTTAACAAGGGTTAGGCGA 57.938 47.619 0.00 0.00 45.63 5.54
266 271 5.812127 GGCGATTGATTCAAAGGCTTAAAAT 59.188 36.000 18.55 3.32 31.81 1.82
331 336 4.471904 TTTGGATCACAAGAGCGAGTAT 57.528 40.909 0.00 0.00 40.82 2.12
332 337 5.592104 TTTGGATCACAAGAGCGAGTATA 57.408 39.130 0.00 0.00 40.82 1.47
347 352 9.179909 AGAGCGAGTATAACACTATAATAGCAT 57.820 33.333 7.22 0.00 38.43 3.79
367 372 7.759489 AGCATAACACAAAATTGGTCTTAGA 57.241 32.000 0.00 0.00 0.00 2.10
368 373 8.177119 AGCATAACACAAAATTGGTCTTAGAA 57.823 30.769 0.00 0.00 0.00 2.10
413 423 9.920946 AAGTTTATATCCAATTCACATGTACCT 57.079 29.630 0.00 0.00 0.00 3.08
516 997 9.853921 GTACCGAGTATAAAATAAAACATTCCG 57.146 33.333 0.00 0.00 0.00 4.30
541 1022 6.422776 AAAATGGAGTACTTGCATTAGACG 57.577 37.500 0.00 0.00 45.78 4.18
556 1037 5.296780 GCATTAGACGGATGAATCAAAAGGA 59.703 40.000 0.00 0.00 0.00 3.36
563 1044 4.397417 CGGATGAATCAAAAGGAAAGAGCT 59.603 41.667 0.00 0.00 0.00 4.09
583 1064 9.608718 AAGAGCTAGTTTCTATCCAATACCTAT 57.391 33.333 0.00 0.00 0.00 2.57
591 1072 3.795688 ATCCAATACCTATGTGCCCAG 57.204 47.619 0.00 0.00 0.00 4.45
607 1088 3.254657 TGCCCAGAATTTTCGGTAGTTTG 59.745 43.478 0.00 0.00 0.00 2.93
615 1096 0.955905 TTCGGTAGTTTGCCAAAGCC 59.044 50.000 0.00 0.00 38.69 4.35
616 1097 0.179015 TCGGTAGTTTGCCAAAGCCA 60.179 50.000 0.00 0.00 38.69 4.75
806 1556 7.362747 CGTTCTACAAAATGGAGTAGTAGGAGT 60.363 40.741 0.00 0.00 38.97 3.85
807 1557 8.964772 GTTCTACAAAATGGAGTAGTAGGAGTA 58.035 37.037 0.00 0.00 38.97 2.59
808 1558 8.517062 TCTACAAAATGGAGTAGTAGGAGTAC 57.483 38.462 0.00 0.00 38.97 2.73
906 4108 3.724374 TGGTCGCCTCGAATTTAATAGG 58.276 45.455 0.00 0.00 37.72 2.57
932 4139 1.072331 GGGAACCGATACTGCATCCAT 59.928 52.381 1.44 0.00 40.86 3.41
933 4140 2.417719 GGAACCGATACTGCATCCATC 58.582 52.381 0.00 0.00 0.00 3.51
934 4141 2.061773 GAACCGATACTGCATCCATCG 58.938 52.381 14.44 14.44 40.88 3.84
935 4142 0.319900 ACCGATACTGCATCCATCGC 60.320 55.000 15.46 0.00 40.09 4.58
936 4143 1.016130 CCGATACTGCATCCATCGCC 61.016 60.000 15.46 0.00 40.09 5.54
937 4144 0.319813 CGATACTGCATCCATCGCCA 60.320 55.000 10.54 0.00 35.64 5.69
939 4146 2.430465 GATACTGCATCCATCGCCATT 58.570 47.619 0.00 0.00 0.00 3.16
940 4147 1.596603 TACTGCATCCATCGCCATTG 58.403 50.000 0.00 0.00 0.00 2.82
941 4148 1.105167 ACTGCATCCATCGCCATTGG 61.105 55.000 0.00 0.00 35.45 3.16
942 4149 1.076850 TGCATCCATCGCCATTGGT 60.077 52.632 4.26 0.00 35.64 3.67
1452 5033 4.221422 GCCGCCTCCATCGTGCTA 62.221 66.667 0.00 0.00 0.00 3.49
1843 5486 1.003580 AGGAGGTGTTACTACGGACGA 59.996 52.381 0.00 0.00 0.00 4.20
1853 5496 1.270732 ACTACGGACGACAGAGACACT 60.271 52.381 0.00 0.00 0.00 3.55
1902 5548 3.484547 GGCGCCGTTCGTACCTTG 61.485 66.667 12.58 0.00 41.07 3.61
2022 5724 3.644966 TTCATGGTGAAGTGGATACCC 57.355 47.619 0.00 0.00 31.83 3.69
2115 5820 0.176910 TGTGTTTGGAGCACTCACGA 59.823 50.000 0.00 0.00 37.70 4.35
2139 5844 3.070159 TCATCTCCTTGGGATGAATCGAC 59.930 47.826 4.20 0.00 44.17 4.20
2330 7786 5.561679 AGAGTCCAAACTATTTCCTTGACC 58.438 41.667 0.00 0.00 35.28 4.02
2549 8022 0.750850 TTAGCTCCGGTGAGTATGGC 59.249 55.000 7.92 0.00 40.95 4.40
2709 8186 6.957920 TGACCATCAAATTTTGAAGACTGA 57.042 33.333 15.34 0.00 43.95 3.41
2844 8355 9.489084 GTTGGGCTTTTAATTTACTCAATCTTT 57.511 29.630 0.00 0.00 0.00 2.52
2894 10715 7.148255 CCTTGTATTTTGCAGCTGTATTCAGTA 60.148 37.037 16.64 0.00 43.05 2.74
2906 10727 8.333908 CAGCTGTATTCAGTAGCAAAAAGATAG 58.666 37.037 5.25 0.00 43.05 2.08
2907 10728 8.043710 AGCTGTATTCAGTAGCAAAAAGATAGT 58.956 33.333 1.02 0.00 43.05 2.12
2908 10729 8.669243 GCTGTATTCAGTAGCAAAAAGATAGTT 58.331 33.333 1.02 0.00 43.05 2.24
2914 10735 9.436957 TTCAGTAGCAAAAAGATAGTTTCTAGG 57.563 33.333 0.00 0.00 33.05 3.02
2915 10736 8.594550 TCAGTAGCAAAAAGATAGTTTCTAGGT 58.405 33.333 0.00 0.00 33.05 3.08
2916 10737 9.220767 CAGTAGCAAAAAGATAGTTTCTAGGTT 57.779 33.333 0.00 0.00 33.05 3.50
2919 10740 8.563123 AGCAAAAAGATAGTTTCTAGGTTACC 57.437 34.615 0.00 0.00 33.05 2.85
2920 10741 8.383947 AGCAAAAAGATAGTTTCTAGGTTACCT 58.616 33.333 9.57 9.57 37.71 3.08
2921 10742 9.662947 GCAAAAAGATAGTTTCTAGGTTACCTA 57.337 33.333 11.02 11.02 34.61 3.08
3078 10978 8.443160 GTGAACGTCTCATCTGAATTTTATTGA 58.557 33.333 0.00 0.00 36.14 2.57
3142 11045 4.759782 TGTATTTCTCTCTGCTTACAGCC 58.240 43.478 0.00 0.00 44.10 4.85
3157 11069 6.072728 TGCTTACAGCCTGTATTGTGTTTTAG 60.073 38.462 5.21 0.00 41.51 1.85
3189 11101 6.700020 CGACAGCAATCTTTACTCATAACAG 58.300 40.000 0.00 0.00 0.00 3.16
3297 11222 6.399743 CCTCTCTACATGATTCTCATCCATG 58.600 44.000 0.00 0.00 34.28 3.66
3333 11258 1.565305 TTGTGCATCAACAAAACCGC 58.435 45.000 0.00 0.00 37.12 5.68
3433 11372 2.169832 TGCCAGTGTACTGAAGCTTC 57.830 50.000 19.89 19.89 46.59 3.86
3452 11391 3.475566 TCATATGTGGCTCTAAGTGGC 57.524 47.619 1.90 0.00 0.00 5.01
3574 11525 4.248058 AGCTTATGGTTTCAATTGCTTGC 58.752 39.130 0.00 0.00 32.11 4.01
3576 11527 4.567971 CTTATGGTTTCAATTGCTTGCCA 58.432 39.130 0.00 6.91 32.11 4.92
3740 11713 3.299340 TCGGTTTCCTCTCTTTTCTCG 57.701 47.619 0.00 0.00 0.00 4.04
3910 11883 4.733230 GCATTTGTGTGTACTGTTTGCTGA 60.733 41.667 0.00 0.00 0.00 4.26
3984 11958 3.015934 CCAACATCAATGGTGTGTGTG 57.984 47.619 0.00 0.00 43.86 3.82
4013 11987 7.255906 CCTGCTGATGTTTATCTGAGAGAGTAT 60.256 40.741 0.00 0.00 35.06 2.12
4057 12031 2.367377 CCAGGGCAGAGGGGATCA 60.367 66.667 0.00 0.00 0.00 2.92
4058 12032 2.002977 CCAGGGCAGAGGGGATCAA 61.003 63.158 0.00 0.00 0.00 2.57
4060 12034 0.554792 CAGGGCAGAGGGGATCAAAT 59.445 55.000 0.00 0.00 0.00 2.32
4108 12082 7.672240 AGATTAATAGCTAGTTAACTGAGGCC 58.328 38.462 18.56 0.00 0.00 5.19
4109 12083 7.511028 AGATTAATAGCTAGTTAACTGAGGCCT 59.489 37.037 18.56 3.86 0.00 5.19
4111 12085 2.821437 AGCTAGTTAACTGAGGCCTGA 58.179 47.619 12.00 0.00 0.00 3.86
4112 12086 2.763448 AGCTAGTTAACTGAGGCCTGAG 59.237 50.000 18.72 18.72 0.00 3.35
4114 12088 1.280457 AGTTAACTGAGGCCTGAGGG 58.720 55.000 24.01 0.00 0.00 4.30
4115 12089 0.984995 GTTAACTGAGGCCTGAGGGT 59.015 55.000 24.01 13.14 34.45 4.34
4116 12090 2.185387 GTTAACTGAGGCCTGAGGGTA 58.815 52.381 24.01 12.10 34.45 3.69
4117 12091 2.570302 GTTAACTGAGGCCTGAGGGTAA 59.430 50.000 24.01 17.10 34.45 2.85
4120 12094 1.008938 ACTGAGGCCTGAGGGTAATCT 59.991 52.381 24.01 0.00 34.45 2.40
4121 12095 2.122768 CTGAGGCCTGAGGGTAATCTT 58.877 52.381 12.00 0.00 34.45 2.40
4122 12096 3.309296 CTGAGGCCTGAGGGTAATCTTA 58.691 50.000 12.00 0.00 34.45 2.10
4123 12097 3.711704 CTGAGGCCTGAGGGTAATCTTAA 59.288 47.826 12.00 0.00 34.45 1.85
4125 12099 2.439880 AGGCCTGAGGGTAATCTTAAGC 59.560 50.000 3.11 0.00 34.45 3.09
4126 12100 2.439880 GGCCTGAGGGTAATCTTAAGCT 59.560 50.000 0.00 0.00 34.45 3.74
4128 12102 3.134804 GCCTGAGGGTAATCTTAAGCTGA 59.865 47.826 0.00 0.00 34.45 4.26
4129 12103 4.384208 GCCTGAGGGTAATCTTAAGCTGAA 60.384 45.833 0.00 0.00 34.45 3.02
4130 12104 5.688766 GCCTGAGGGTAATCTTAAGCTGAAT 60.689 44.000 0.00 0.00 34.45 2.57
4131 12105 5.994668 CCTGAGGGTAATCTTAAGCTGAATC 59.005 44.000 0.00 0.00 0.00 2.52
4133 12107 7.200434 TGAGGGTAATCTTAAGCTGAATCTT 57.800 36.000 0.00 0.00 0.00 2.40
4134 12108 7.633789 TGAGGGTAATCTTAAGCTGAATCTTT 58.366 34.615 0.00 0.00 0.00 2.52
4135 12109 7.554118 TGAGGGTAATCTTAAGCTGAATCTTTG 59.446 37.037 0.00 0.00 0.00 2.77
4136 12110 7.633789 AGGGTAATCTTAAGCTGAATCTTTGA 58.366 34.615 0.00 0.00 0.00 2.69
4138 12112 7.554476 GGGTAATCTTAAGCTGAATCTTTGAGT 59.446 37.037 0.00 0.00 0.00 3.41
4139 12113 8.951243 GGTAATCTTAAGCTGAATCTTTGAGTT 58.049 33.333 0.00 0.00 0.00 3.01
4141 12115 7.992754 ATCTTAAGCTGAATCTTTGAGTTGT 57.007 32.000 0.00 0.00 0.00 3.32
4142 12116 9.507329 AATCTTAAGCTGAATCTTTGAGTTGTA 57.493 29.630 0.00 0.00 0.00 2.41
4143 12117 8.539770 TCTTAAGCTGAATCTTTGAGTTGTAG 57.460 34.615 0.00 0.00 0.00 2.74
4144 12118 5.619625 AAGCTGAATCTTTGAGTTGTAGC 57.380 39.130 0.00 0.00 0.00 3.58
4146 12120 3.181516 GCTGAATCTTTGAGTTGTAGCCG 60.182 47.826 0.00 0.00 0.00 5.52
4147 12121 2.742053 TGAATCTTTGAGTTGTAGCCGC 59.258 45.455 0.00 0.00 0.00 6.53
4148 12122 2.770164 ATCTTTGAGTTGTAGCCGCT 57.230 45.000 0.00 0.00 0.00 5.52
4149 12123 1.795768 TCTTTGAGTTGTAGCCGCTG 58.204 50.000 2.16 0.00 0.00 5.18
4150 12124 0.166814 CTTTGAGTTGTAGCCGCTGC 59.833 55.000 2.16 1.45 37.95 5.25
4151 12125 0.533978 TTTGAGTTGTAGCCGCTGCA 60.534 50.000 7.12 7.12 41.13 4.41
4158 12132 1.971695 GTAGCCGCTGCAACCCTTT 60.972 57.895 2.16 0.00 41.13 3.11
4160 12134 0.825840 TAGCCGCTGCAACCCTTTTT 60.826 50.000 2.16 0.00 41.13 1.94
4177 12151 1.656652 TTTTCTAGATGAGCCGCTGC 58.343 50.000 0.00 0.00 37.95 5.25
4178 12152 0.536724 TTTCTAGATGAGCCGCTGCA 59.463 50.000 0.00 0.00 41.13 4.41
4179 12153 0.536724 TTCTAGATGAGCCGCTGCAA 59.463 50.000 0.00 0.00 41.13 4.08
4181 12155 1.153369 TAGATGAGCCGCTGCAACC 60.153 57.895 0.00 0.00 41.13 3.77
4183 12157 3.984193 GATGAGCCGCTGCAACCCT 62.984 63.158 0.00 0.00 41.13 4.34
4185 12159 4.704833 GAGCCGCTGCAACCCTGA 62.705 66.667 0.00 0.00 41.13 3.86
4186 12160 3.984193 GAGCCGCTGCAACCCTGAT 62.984 63.158 0.00 0.00 41.13 2.90
4187 12161 2.124736 GCCGCTGCAACCCTGATA 60.125 61.111 0.00 0.00 37.47 2.15
4188 12162 2.182842 GCCGCTGCAACCCTGATAG 61.183 63.158 0.00 0.00 37.47 2.08
4189 12163 2.182842 CCGCTGCAACCCTGATAGC 61.183 63.158 0.00 0.00 33.41 2.97
4190 12164 1.450134 CGCTGCAACCCTGATAGCA 60.450 57.895 0.00 0.00 35.29 3.49
4191 12165 0.816825 CGCTGCAACCCTGATAGCAT 60.817 55.000 0.00 0.00 35.29 3.79
4192 12166 0.666913 GCTGCAACCCTGATAGCATG 59.333 55.000 0.00 0.00 36.28 4.06
4194 12168 2.372264 CTGCAACCCTGATAGCATGTT 58.628 47.619 0.00 0.00 36.28 2.71
4195 12169 2.357009 CTGCAACCCTGATAGCATGTTC 59.643 50.000 0.00 0.00 36.28 3.18
4196 12170 2.025981 TGCAACCCTGATAGCATGTTCT 60.026 45.455 0.00 0.00 31.05 3.01
4197 12171 2.615912 GCAACCCTGATAGCATGTTCTC 59.384 50.000 0.00 0.00 0.00 2.87
4198 12172 3.683847 GCAACCCTGATAGCATGTTCTCT 60.684 47.826 0.00 0.00 0.00 3.10
4200 12174 4.851639 ACCCTGATAGCATGTTCTCTTT 57.148 40.909 0.00 0.00 0.00 2.52
4204 12178 5.884792 CCCTGATAGCATGTTCTCTTTTCTT 59.115 40.000 0.00 0.00 0.00 2.52
4205 12179 6.183360 CCCTGATAGCATGTTCTCTTTTCTTG 60.183 42.308 0.00 0.00 0.00 3.02
4206 12180 6.373774 CCTGATAGCATGTTCTCTTTTCTTGT 59.626 38.462 0.00 0.00 0.00 3.16
4207 12181 7.369803 TGATAGCATGTTCTCTTTTCTTGTC 57.630 36.000 0.00 0.00 0.00 3.18
4208 12182 7.164122 TGATAGCATGTTCTCTTTTCTTGTCT 58.836 34.615 0.00 0.00 0.00 3.41
4210 12184 6.705863 AGCATGTTCTCTTTTCTTGTCTTT 57.294 33.333 0.00 0.00 0.00 2.52
4211 12185 7.807977 AGCATGTTCTCTTTTCTTGTCTTTA 57.192 32.000 0.00 0.00 0.00 1.85
4212 12186 8.401490 AGCATGTTCTCTTTTCTTGTCTTTAT 57.599 30.769 0.00 0.00 0.00 1.40
4214 12188 9.468532 GCATGTTCTCTTTTCTTGTCTTTATTT 57.531 29.630 0.00 0.00 0.00 1.40
4218 12192 9.464714 GTTCTCTTTTCTTGTCTTTATTTTCCC 57.535 33.333 0.00 0.00 0.00 3.97
4219 12193 8.996651 TCTCTTTTCTTGTCTTTATTTTCCCT 57.003 30.769 0.00 0.00 0.00 4.20
4220 12194 9.421399 TCTCTTTTCTTGTCTTTATTTTCCCTT 57.579 29.630 0.00 0.00 0.00 3.95
4268 13538 1.994779 GGCAATGCCTCAATGTTTTCG 59.005 47.619 18.47 0.00 46.69 3.46
4270 13540 2.409378 GCAATGCCTCAATGTTTTCGTG 59.591 45.455 0.00 0.00 0.00 4.35
4271 13541 3.641648 CAATGCCTCAATGTTTTCGTGT 58.358 40.909 0.00 0.00 0.00 4.49
4273 13543 1.262950 TGCCTCAATGTTTTCGTGTCG 59.737 47.619 0.00 0.00 0.00 4.35
4274 13544 1.529438 GCCTCAATGTTTTCGTGTCGA 59.471 47.619 0.00 0.00 0.00 4.20
4275 13545 2.411547 GCCTCAATGTTTTCGTGTCGAG 60.412 50.000 0.00 0.00 37.14 4.04
4276 13546 2.411547 CCTCAATGTTTTCGTGTCGAGC 60.412 50.000 0.00 0.00 37.14 5.03
4277 13547 2.205911 TCAATGTTTTCGTGTCGAGCA 58.794 42.857 0.00 0.00 37.14 4.26
4278 13548 2.609916 TCAATGTTTTCGTGTCGAGCAA 59.390 40.909 0.00 0.00 37.14 3.91
4279 13549 3.064134 TCAATGTTTTCGTGTCGAGCAAA 59.936 39.130 0.00 0.00 37.14 3.68
4280 13550 3.684103 ATGTTTTCGTGTCGAGCAAAA 57.316 38.095 0.00 0.00 37.14 2.44
4281 13551 3.473093 TGTTTTCGTGTCGAGCAAAAA 57.527 38.095 0.00 0.00 37.14 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.289109 CGCGTCCGGATGTCTGTTTT 61.289 55.000 24.33 0.00 0.00 2.43
28 29 1.472026 CCCAACACGGTACCTTATCGG 60.472 57.143 10.90 5.00 36.40 4.18
30 31 2.624636 CACCCAACACGGTACCTTATC 58.375 52.381 10.90 0.00 33.67 1.75
33 34 1.452801 CCACCCAACACGGTACCTT 59.547 57.895 10.90 0.00 33.67 3.50
35 36 2.670592 GCCACCCAACACGGTACC 60.671 66.667 0.16 0.16 33.67 3.34
77 78 0.826062 CATGGCCCTTCAAACCATCC 59.174 55.000 0.00 0.00 42.31 3.51
80 81 1.047002 CAACATGGCCCTTCAAACCA 58.953 50.000 0.00 0.00 37.99 3.67
81 82 0.321346 CCAACATGGCCCTTCAAACC 59.679 55.000 0.00 0.00 0.00 3.27
89 90 1.202976 AGCTCATATCCAACATGGCCC 60.203 52.381 0.00 0.00 37.47 5.80
95 96 8.217111 TGGTTGAAATATAGCTCATATCCAACA 58.783 33.333 22.07 14.90 0.00 3.33
163 164 5.072600 ACACCACCTGGACAAAAATCTACTA 59.927 40.000 0.00 0.00 38.94 1.82
194 195 7.333323 TCAATGCTCCACCATGTCTATATATG 58.667 38.462 0.00 0.00 0.00 1.78
243 248 6.892310 ATTTTAAGCCTTTGAATCAATCGC 57.108 33.333 0.00 1.60 0.00 4.58
266 271 8.729805 ATTGCTTGGTCTTTTCATTTGTTTAA 57.270 26.923 0.00 0.00 0.00 1.52
501 909 9.554395 ACTCCATTTTTCGGAATGTTTTATTTT 57.446 25.926 0.00 0.00 35.68 1.82
505 985 8.398878 AGTACTCCATTTTTCGGAATGTTTTA 57.601 30.769 0.00 0.00 35.68 1.52
516 997 6.961554 CGTCTAATGCAAGTACTCCATTTTTC 59.038 38.462 20.29 12.69 32.07 2.29
541 1022 5.911378 AGCTCTTTCCTTTTGATTCATCC 57.089 39.130 0.00 0.00 0.00 3.51
556 1037 8.325477 AGGTATTGGATAGAAACTAGCTCTTT 57.675 34.615 0.00 0.00 0.00 2.52
563 1044 7.256547 GGGCACATAGGTATTGGATAGAAACTA 60.257 40.741 0.00 0.00 0.00 2.24
583 1064 2.224670 ACTACCGAAAATTCTGGGCACA 60.225 45.455 0.00 0.00 0.00 4.57
591 1072 4.149922 GCTTTGGCAAACTACCGAAAATTC 59.850 41.667 8.93 0.00 38.54 2.17
607 1088 3.814283 TGTCAAATTCAAATGGCTTTGGC 59.186 39.130 8.76 6.38 41.74 4.52
615 1096 8.449397 TGGTTGAAACTTTGTCAAATTCAAATG 58.551 29.630 20.71 3.66 40.48 2.32
616 1097 8.558973 TGGTTGAAACTTTGTCAAATTCAAAT 57.441 26.923 20.71 0.00 40.48 2.32
717 1203 8.262227 TCTGTTTGAAACTTAGTGGACTTCTAA 58.738 33.333 9.69 0.00 0.00 2.10
775 1263 8.217131 ACTACTCCATTTTGTAGAACGTTTTT 57.783 30.769 0.46 0.00 39.36 1.94
906 4108 0.384669 CAGTATCGGTTCCCCTCGTC 59.615 60.000 0.00 0.00 0.00 4.20
918 4125 0.319813 TGGCGATGGATGCAGTATCG 60.320 55.000 19.56 19.56 44.65 2.92
932 4139 2.933492 GCTACAAGTACACCAATGGCGA 60.933 50.000 0.00 0.00 0.00 5.54
933 4140 1.396996 GCTACAAGTACACCAATGGCG 59.603 52.381 0.00 0.00 0.00 5.69
934 4141 2.420022 CAGCTACAAGTACACCAATGGC 59.580 50.000 0.00 0.00 0.00 4.40
935 4142 3.009723 CCAGCTACAAGTACACCAATGG 58.990 50.000 0.00 0.00 0.00 3.16
936 4143 3.436704 CACCAGCTACAAGTACACCAATG 59.563 47.826 0.00 0.00 0.00 2.82
937 4144 3.072476 ACACCAGCTACAAGTACACCAAT 59.928 43.478 0.00 0.00 0.00 3.16
939 4146 2.043992 ACACCAGCTACAAGTACACCA 58.956 47.619 0.00 0.00 0.00 4.17
940 4147 2.833631 ACACCAGCTACAAGTACACC 57.166 50.000 0.00 0.00 0.00 4.16
1037 4561 3.141488 AGTCTGGTCCGCCGCTAG 61.141 66.667 0.00 0.00 37.67 3.42
1038 4562 3.449227 CAGTCTGGTCCGCCGCTA 61.449 66.667 0.00 0.00 37.67 4.26
1050 4574 0.108424 GAAGGACGCTGATGCAGTCT 60.108 55.000 0.00 0.00 40.15 3.24
1365 4946 2.750637 GGGAGAGCCACGACGAGA 60.751 66.667 0.00 0.00 35.15 4.04
1843 5486 1.896465 GAGTTGCCCTAGTGTCTCTGT 59.104 52.381 0.00 0.00 0.00 3.41
1902 5548 0.537653 GTGCAGGAGAAGGTAGGGAC 59.462 60.000 0.00 0.00 0.00 4.46
2022 5724 6.634805 TGTGCTTTTCTATCTCCTGAGTAAG 58.365 40.000 0.00 0.00 0.00 2.34
2160 7573 6.014669 GCTGATCTCTGTAGGATGACCTTAAT 60.015 42.308 0.00 0.00 45.36 1.40
2330 7786 0.805614 TCTCCACTTCTTCGAGAGCG 59.194 55.000 0.00 0.00 39.35 5.03
2574 8049 5.061853 ACAGTTATATCCTTGCTGCATCTG 58.938 41.667 1.84 4.42 0.00 2.90
2705 8182 5.573380 AACTGGGATACATATGCATCAGT 57.427 39.130 16.15 10.31 39.74 3.41
2709 8186 7.262990 ACTGATAACTGGGATACATATGCAT 57.737 36.000 3.79 3.79 39.74 3.96
2758 8235 2.890808 TCGCCCACTCATGAGTAATC 57.109 50.000 27.44 16.85 40.20 1.75
2822 8328 8.850452 CACGAAAGATTGAGTAAATTAAAAGCC 58.150 33.333 0.00 0.00 0.00 4.35
2860 10681 3.348119 TGCAAAATACAAGGGCGTCATA 58.652 40.909 0.00 0.00 0.00 2.15
2863 10684 1.732405 GCTGCAAAATACAAGGGCGTC 60.732 52.381 0.00 0.00 0.00 5.19
2894 10715 8.383947 AGGTAACCTAGAAACTATCTTTTTGCT 58.616 33.333 0.00 0.00 37.05 3.91
2909 10730 9.537852 TGAGACATTAACTTTAGGTAACCTAGA 57.462 33.333 0.00 0.00 37.42 2.43
2912 10733 9.047947 AGATGAGACATTAACTTTAGGTAACCT 57.952 33.333 0.00 0.00 37.71 3.50
2913 10734 9.099454 CAGATGAGACATTAACTTTAGGTAACC 57.901 37.037 0.00 0.00 37.17 2.85
2914 10735 9.871238 TCAGATGAGACATTAACTTTAGGTAAC 57.129 33.333 0.00 0.00 0.00 2.50
2917 10738 9.965902 AATTCAGATGAGACATTAACTTTAGGT 57.034 29.630 0.00 0.00 0.00 3.08
3054 10953 7.905493 GGTCAATAAAATTCAGATGAGACGTTC 59.095 37.037 0.00 0.00 0.00 3.95
3057 10956 7.307493 TGGTCAATAAAATTCAGATGAGACG 57.693 36.000 0.00 0.00 0.00 4.18
3078 10978 8.576442 CAGAACTTAACTGGAACAAAATATGGT 58.424 33.333 0.00 0.00 38.70 3.55
3142 11045 4.726416 CTGGCAGCTAAAACACAATACAG 58.274 43.478 0.00 0.00 0.00 2.74
3189 11101 4.404507 TGTGCTCAAATTTAAGAGTCGC 57.595 40.909 7.22 6.86 34.39 5.19
3297 11222 1.881973 ACAACACATGTCCACAGATGC 59.118 47.619 0.00 0.00 37.96 3.91
3333 11258 0.677731 TTGGCCATCGCAGGAAAGAG 60.678 55.000 6.09 0.00 36.38 2.85
3433 11372 2.874701 GTGCCACTTAGAGCCACATATG 59.125 50.000 0.00 0.00 0.00 1.78
3452 11391 9.612620 GAACCATTCAGAAATTAACTAAGTGTG 57.387 33.333 0.00 0.00 0.00 3.82
3574 11525 3.899734 TCATCAAAATGAAACAGCGTGG 58.100 40.909 0.00 0.00 38.97 4.94
3576 11527 3.922240 GCATCATCAAAATGAAACAGCGT 59.078 39.130 0.00 0.00 44.85 5.07
3617 11569 5.757320 ACATCTATTGCTGCACAATCTACTC 59.243 40.000 14.94 0.00 46.28 2.59
3668 11637 3.092301 ACCAGAAAGCTAATTTGGCTCC 58.908 45.455 7.78 3.74 39.30 4.70
3740 11713 3.292460 AGTGACCCTAGATGCAGTAGTC 58.708 50.000 0.00 0.00 0.00 2.59
3929 11902 5.079689 TCGGCACTTCTGATTGTATACAA 57.920 39.130 20.14 20.14 40.51 2.41
3938 11911 2.233676 TGTGTACATCGGCACTTCTGAT 59.766 45.455 0.00 0.00 41.40 2.90
3942 11915 2.546368 TGTTTGTGTACATCGGCACTTC 59.454 45.455 0.00 0.00 36.63 3.01
3945 11918 1.069500 GGTGTTTGTGTACATCGGCAC 60.069 52.381 0.00 6.91 36.26 5.01
3983 11957 5.364735 TCTCAGATAAACATCAGCAGGATCA 59.635 40.000 0.00 0.00 32.57 2.92
3984 11958 5.851720 TCTCAGATAAACATCAGCAGGATC 58.148 41.667 0.00 0.00 32.57 3.36
4013 11987 5.755409 TTCTTGATAAGCCAAGGAGTACA 57.245 39.130 0.00 0.00 42.72 2.90
4027 12001 3.523157 TCTGCCCTGGTCAATTCTTGATA 59.477 43.478 0.00 0.00 42.47 2.15
4083 12057 7.511028 AGGCCTCAGTTAACTAGCTATTAATCT 59.489 37.037 18.51 7.44 0.00 2.40
4084 12058 7.600752 CAGGCCTCAGTTAACTAGCTATTAATC 59.399 40.741 0.00 5.84 0.00 1.75
4085 12059 7.290248 TCAGGCCTCAGTTAACTAGCTATTAAT 59.710 37.037 0.00 0.00 0.00 1.40
4086 12060 6.610020 TCAGGCCTCAGTTAACTAGCTATTAA 59.390 38.462 0.00 0.00 0.00 1.40
4087 12061 6.134055 TCAGGCCTCAGTTAACTAGCTATTA 58.866 40.000 0.00 0.00 0.00 0.98
4088 12062 4.962995 TCAGGCCTCAGTTAACTAGCTATT 59.037 41.667 0.00 7.27 0.00 1.73
4089 12063 4.547671 TCAGGCCTCAGTTAACTAGCTAT 58.452 43.478 0.00 9.28 0.00 2.97
4090 12064 3.954904 CTCAGGCCTCAGTTAACTAGCTA 59.045 47.826 0.00 0.00 0.00 3.32
4092 12066 2.159028 CCTCAGGCCTCAGTTAACTAGC 60.159 54.545 0.00 11.37 0.00 3.42
4093 12067 2.432510 CCCTCAGGCCTCAGTTAACTAG 59.567 54.545 0.00 6.48 0.00 2.57
4094 12068 2.225547 ACCCTCAGGCCTCAGTTAACTA 60.226 50.000 0.00 0.00 36.11 2.24
4095 12069 1.280457 CCCTCAGGCCTCAGTTAACT 58.720 55.000 0.00 1.12 0.00 2.24
4096 12070 0.984995 ACCCTCAGGCCTCAGTTAAC 59.015 55.000 0.00 0.00 36.11 2.01
4099 12073 1.840635 GATTACCCTCAGGCCTCAGTT 59.159 52.381 0.00 0.00 36.11 3.16
4100 12074 1.008938 AGATTACCCTCAGGCCTCAGT 59.991 52.381 0.00 0.00 36.11 3.41
4101 12075 1.799933 AGATTACCCTCAGGCCTCAG 58.200 55.000 0.00 0.00 36.11 3.35
4104 12078 2.439880 GCTTAAGATTACCCTCAGGCCT 59.560 50.000 6.67 0.00 36.11 5.19
4105 12079 2.439880 AGCTTAAGATTACCCTCAGGCC 59.560 50.000 6.67 0.00 36.11 5.19
4106 12080 3.134804 TCAGCTTAAGATTACCCTCAGGC 59.865 47.826 6.67 0.00 36.11 4.85
4108 12082 6.825610 AGATTCAGCTTAAGATTACCCTCAG 58.174 40.000 6.67 0.00 0.00 3.35
4109 12083 6.814954 AGATTCAGCTTAAGATTACCCTCA 57.185 37.500 6.67 0.00 0.00 3.86
4111 12085 7.633789 TCAAAGATTCAGCTTAAGATTACCCT 58.366 34.615 6.67 0.00 0.00 4.34
4112 12086 7.554476 ACTCAAAGATTCAGCTTAAGATTACCC 59.446 37.037 6.67 0.00 0.00 3.69
4114 12088 9.766277 CAACTCAAAGATTCAGCTTAAGATTAC 57.234 33.333 6.67 0.00 0.00 1.89
4115 12089 9.507329 ACAACTCAAAGATTCAGCTTAAGATTA 57.493 29.630 6.67 0.00 0.00 1.75
4116 12090 8.401490 ACAACTCAAAGATTCAGCTTAAGATT 57.599 30.769 6.67 0.00 0.00 2.40
4117 12091 7.992754 ACAACTCAAAGATTCAGCTTAAGAT 57.007 32.000 6.67 0.00 0.00 2.40
4120 12094 6.149474 GGCTACAACTCAAAGATTCAGCTTAA 59.851 38.462 0.00 0.00 0.00 1.85
4121 12095 5.643777 GGCTACAACTCAAAGATTCAGCTTA 59.356 40.000 0.00 0.00 0.00 3.09
4122 12096 4.457257 GGCTACAACTCAAAGATTCAGCTT 59.543 41.667 0.00 0.00 0.00 3.74
4123 12097 4.006319 GGCTACAACTCAAAGATTCAGCT 58.994 43.478 0.00 0.00 0.00 4.24
4125 12099 3.181516 GCGGCTACAACTCAAAGATTCAG 60.182 47.826 0.00 0.00 0.00 3.02
4126 12100 2.742053 GCGGCTACAACTCAAAGATTCA 59.258 45.455 0.00 0.00 0.00 2.57
4128 12102 2.744202 CAGCGGCTACAACTCAAAGATT 59.256 45.455 0.26 0.00 0.00 2.40
4129 12103 2.350522 CAGCGGCTACAACTCAAAGAT 58.649 47.619 0.26 0.00 0.00 2.40
4130 12104 1.795768 CAGCGGCTACAACTCAAAGA 58.204 50.000 0.26 0.00 0.00 2.52
4131 12105 0.166814 GCAGCGGCTACAACTCAAAG 59.833 55.000 0.26 0.00 36.96 2.77
4133 12107 0.533978 TTGCAGCGGCTACAACTCAA 60.534 50.000 11.50 2.92 41.91 3.02
4134 12108 1.070615 TTGCAGCGGCTACAACTCA 59.929 52.632 11.50 0.00 41.91 3.41
4135 12109 1.497722 GTTGCAGCGGCTACAACTC 59.502 57.895 29.79 12.01 43.83 3.01
4136 12110 1.966451 GGTTGCAGCGGCTACAACT 60.966 57.895 33.21 0.00 45.77 3.16
4138 12112 2.671619 GGGTTGCAGCGGCTACAA 60.672 61.111 22.39 11.50 45.77 2.41
4139 12113 2.690653 AAAGGGTTGCAGCGGCTACA 62.691 55.000 22.39 0.00 45.77 2.74
4141 12115 0.825840 AAAAAGGGTTGCAGCGGCTA 60.826 50.000 10.92 0.00 41.91 3.93
4142 12116 2.133641 AAAAAGGGTTGCAGCGGCT 61.134 52.632 10.92 0.00 41.91 5.52
4143 12117 2.421314 AAAAAGGGTTGCAGCGGC 59.579 55.556 0.31 0.31 41.68 6.53
4158 12132 1.066215 TGCAGCGGCTCATCTAGAAAA 60.066 47.619 10.92 0.00 41.91 2.29
4160 12134 0.536724 TTGCAGCGGCTCATCTAGAA 59.463 50.000 10.92 0.00 41.91 2.10
4162 12136 1.156645 GGTTGCAGCGGCTCATCTAG 61.157 60.000 10.92 0.00 41.91 2.43
4163 12137 1.153369 GGTTGCAGCGGCTCATCTA 60.153 57.895 10.92 0.00 41.91 1.98
4164 12138 2.437359 GGTTGCAGCGGCTCATCT 60.437 61.111 10.92 0.00 41.91 2.90
4165 12139 3.512516 GGGTTGCAGCGGCTCATC 61.513 66.667 10.92 1.09 41.91 2.92
4166 12140 4.039092 AGGGTTGCAGCGGCTCAT 62.039 61.111 10.92 0.00 41.91 2.90
4168 12142 2.593468 TATCAGGGTTGCAGCGGCTC 62.593 60.000 10.92 3.26 41.91 4.70
4169 12143 2.599645 CTATCAGGGTTGCAGCGGCT 62.600 60.000 10.92 0.00 41.91 5.52
4172 12146 0.816825 ATGCTATCAGGGTTGCAGCG 60.817 55.000 0.00 0.00 38.87 5.18
4173 12147 0.666913 CATGCTATCAGGGTTGCAGC 59.333 55.000 0.00 0.00 38.87 5.25
4175 12149 2.025981 AGAACATGCTATCAGGGTTGCA 60.026 45.455 0.00 0.00 39.83 4.08
4176 12150 2.615912 GAGAACATGCTATCAGGGTTGC 59.384 50.000 0.00 0.00 0.00 4.17
4177 12151 4.148128 AGAGAACATGCTATCAGGGTTG 57.852 45.455 0.00 0.00 0.00 3.77
4178 12152 4.851639 AAGAGAACATGCTATCAGGGTT 57.148 40.909 0.00 0.00 0.00 4.11
4179 12153 4.851639 AAAGAGAACATGCTATCAGGGT 57.148 40.909 0.00 0.00 0.00 4.34
4181 12155 6.373774 ACAAGAAAAGAGAACATGCTATCAGG 59.626 38.462 0.00 0.00 0.00 3.86
4183 12157 7.164122 AGACAAGAAAAGAGAACATGCTATCA 58.836 34.615 0.00 0.00 0.00 2.15
4184 12158 7.608308 AGACAAGAAAAGAGAACATGCTATC 57.392 36.000 0.00 0.00 0.00 2.08
4185 12159 7.992754 AAGACAAGAAAAGAGAACATGCTAT 57.007 32.000 0.00 0.00 0.00 2.97
4186 12160 7.807977 AAAGACAAGAAAAGAGAACATGCTA 57.192 32.000 0.00 0.00 0.00 3.49
4187 12161 6.705863 AAAGACAAGAAAAGAGAACATGCT 57.294 33.333 0.00 0.00 0.00 3.79
4188 12162 9.468532 AAATAAAGACAAGAAAAGAGAACATGC 57.531 29.630 0.00 0.00 0.00 4.06
4192 12166 9.464714 GGGAAAATAAAGACAAGAAAAGAGAAC 57.535 33.333 0.00 0.00 0.00 3.01
4194 12168 8.996651 AGGGAAAATAAAGACAAGAAAAGAGA 57.003 30.769 0.00 0.00 0.00 3.10
4236 13506 1.544724 GCATTGCCCTCCTGTGTAAA 58.455 50.000 0.00 0.00 0.00 2.01
4237 13507 0.323360 GGCATTGCCCTCCTGTGTAA 60.323 55.000 17.28 0.00 44.06 2.41
4249 13519 2.409378 CACGAAAACATTGAGGCATTGC 59.591 45.455 0.00 0.00 0.00 3.56
4256 13526 2.220824 TGCTCGACACGAAAACATTGAG 59.779 45.455 0.00 0.00 34.74 3.02
4257 13527 2.205911 TGCTCGACACGAAAACATTGA 58.794 42.857 0.00 0.00 34.74 2.57
4259 13529 3.684103 TTTGCTCGACACGAAAACATT 57.316 38.095 0.00 0.00 34.74 2.71


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

AutoCloner maintained by Alex Coulton.