Multiple sequence alignment - TraesCS3B01G125200

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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 TraesCS3B01G125200 chr3B 100.000 3554 0 0 1 3554 99499756 99503309 0.000000e+00 6564.0
1 TraesCS3B01G125200 chr3D 95.188 2473 68 22 340 2795 61802094 61804532 0.000000e+00 3860.0
2 TraesCS3B01G125200 chr3D 94.413 358 18 2 2954 3310 61804712 61805068 1.870000e-152 549.0
3 TraesCS3B01G125200 chr3D 92.469 239 16 2 3316 3554 61805114 61805350 1.220000e-89 340.0
4 TraesCS3B01G125200 chr3D 92.638 163 11 1 2792 2954 61804607 61804768 2.130000e-57 233.0
5 TraesCS3B01G125200 chr3D 87.097 186 10 4 168 341 61801749 61801932 7.780000e-47 198.0
6 TraesCS3B01G125200 chr3A 91.390 2834 141 32 168 2954 70847638 70850415 0.000000e+00 3786.0
7 TraesCS3B01G125200 chr3A 87.013 231 19 7 3325 3554 70850788 70851008 2.120000e-62 250.0
8 TraesCS3B01G125200 chr6B 93.284 134 8 1 39 172 716890474 716890342 2.800000e-46 196.0
9 TraesCS3B01G125200 chr5B 93.846 130 8 0 44 173 379877940 379878069 2.800000e-46 196.0
10 TraesCS3B01G125200 chr2B 92.647 136 10 0 41 176 789946960 789947095 2.800000e-46 196.0
11 TraesCS3B01G125200 chr2B 81.579 114 15 5 1063 1173 592802066 592802176 4.890000e-14 89.8
12 TraesCS3B01G125200 chr2B 100.000 34 0 0 787 820 70882668 70882701 2.960000e-06 63.9
13 TraesCS3B01G125200 chr4B 90.476 147 12 2 44 188 339479044 339478898 3.620000e-45 193.0
14 TraesCS3B01G125200 chr4B 84.034 119 11 7 1065 1179 48991657 48991771 1.350000e-19 108.0
15 TraesCS3B01G125200 chr4B 100.000 33 0 0 787 819 115547415 115547447 1.070000e-05 62.1
16 TraesCS3B01G125200 chr4B 100.000 33 0 0 787 819 664964800 664964832 1.070000e-05 62.1
17 TraesCS3B01G125200 chr4B 100.000 33 0 0 787 819 665024205 665024237 1.070000e-05 62.1
18 TraesCS3B01G125200 chr7B 90.476 147 11 3 44 188 575370725 575370870 1.300000e-44 191.0
19 TraesCS3B01G125200 chr7B 90.845 142 12 1 33 174 336723381 336723521 4.680000e-44 189.0
20 TraesCS3B01G125200 chr1B 91.429 140 10 2 40 179 499219534 499219671 1.300000e-44 191.0
21 TraesCS3B01G125200 chr1B 87.805 164 14 5 22 185 56893217 56893374 1.680000e-43 187.0
22 TraesCS3B01G125200 chr5D 90.845 142 11 2 36 176 126553375 126553235 4.680000e-44 189.0
23 TraesCS3B01G125200 chr4D 71.463 827 190 36 1664 2464 34089867 34090673 1.010000e-40 178.0
24 TraesCS3B01G125200 chr4D 82.051 117 17 3 1065 1179 34089120 34089234 2.920000e-16 97.1
25 TraesCS3B01G125200 chr4A 71.029 787 178 37 1706 2464 568193751 568194515 1.030000e-30 145.0
26 TraesCS3B01G125200 chr4A 83.193 119 12 7 1065 1179 568192966 568193080 6.280000e-18 102.0
27 TraesCS3B01G125200 chr2D 82.051 117 15 5 1063 1176 505814507 505814620 1.050000e-15 95.3
28 TraesCS3B01G125200 chr2A 82.051 117 15 5 1063 1176 650243674 650243787 1.050000e-15 95.3
29 TraesCS3B01G125200 chrUn 100.000 34 0 0 787 820 306885095 306885062 2.960000e-06 63.9
30 TraesCS3B01G125200 chrUn 100.000 33 0 0 787 819 178719377 178719409 1.070000e-05 62.1
31 TraesCS3B01G125200 chrUn 100.000 33 0 0 787 819 196134138 196134106 1.070000e-05 62.1
32 TraesCS3B01G125200 chrUn 100.000 33 0 0 787 819 196162482 196162450 1.070000e-05 62.1
33 TraesCS3B01G125200 chrUn 100.000 33 0 0 787 819 255568508 255568540 1.070000e-05 62.1


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 TraesCS3B01G125200 chr3B 99499756 99503309 3553 False 6564 6564 100.0000 1 3554 1 chr3B.!!$F1 3553
1 TraesCS3B01G125200 chr3D 61801749 61805350 3601 False 1036 3860 92.3610 168 3554 5 chr3D.!!$F1 3386
2 TraesCS3B01G125200 chr3A 70847638 70851008 3370 False 2018 3786 89.2015 168 3554 2 chr3A.!!$F1 3386

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
53 54 0.179161 CTGCCAACGTACTCTCTCCG 60.179 60.0 0.00 0.0 0.00 4.63 F
55 56 0.179169 GCCAACGTACTCTCTCCGTC 60.179 60.0 0.00 0.0 32.95 4.79 F
56 57 0.450983 CCAACGTACTCTCTCCGTCC 59.549 60.0 0.00 0.0 32.95 4.79 F
488 664 0.756294 ACATGTCCGGTCACTGTCAA 59.244 50.0 2.72 0.0 0.00 3.18 F
1593 1803 0.837260 ACTACCCGGGGTAAGCAACA 60.837 55.0 27.92 4.9 37.76 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1167 1377 0.171455 CGAAGGAGACCTGGTTCTCG 59.829 60.0 0.0 1.91 42.74 4.04 R
1591 1801 0.179018 GCTCTGGTTGGTTGGTCTGT 60.179 55.0 0.0 0.00 0.00 3.41 R
1592 1802 0.179020 TGCTCTGGTTGGTTGGTCTG 60.179 55.0 0.0 0.00 0.00 3.51 R
1595 1805 0.258774 ACTTGCTCTGGTTGGTTGGT 59.741 50.0 0.0 0.00 0.00 3.67 R
3306 3626 0.109964 CATACCGTTTGTTGCGTGGG 60.110 55.0 0.0 0.00 0.00 4.61 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
37 38 9.787532 TTAAATAATACTCAACTGATTTGCTGC 57.212 29.630 0.00 0.00 34.88 5.25
38 39 4.708726 AATACTCAACTGATTTGCTGCC 57.291 40.909 0.00 0.00 34.88 4.85
39 40 1.985473 ACTCAACTGATTTGCTGCCA 58.015 45.000 0.00 0.00 34.88 4.92
40 41 2.309613 ACTCAACTGATTTGCTGCCAA 58.690 42.857 0.00 0.00 34.88 4.52
41 42 2.035066 ACTCAACTGATTTGCTGCCAAC 59.965 45.455 0.00 0.00 34.88 3.77
42 43 1.001487 TCAACTGATTTGCTGCCAACG 60.001 47.619 0.00 0.00 34.88 4.10
43 44 1.032014 AACTGATTTGCTGCCAACGT 58.968 45.000 0.00 0.00 0.00 3.99
44 45 1.890876 ACTGATTTGCTGCCAACGTA 58.109 45.000 0.00 0.00 0.00 3.57
45 46 1.535462 ACTGATTTGCTGCCAACGTAC 59.465 47.619 0.00 0.00 0.00 3.67
46 47 1.806542 CTGATTTGCTGCCAACGTACT 59.193 47.619 0.00 0.00 0.00 2.73
47 48 1.804151 TGATTTGCTGCCAACGTACTC 59.196 47.619 0.00 0.00 0.00 2.59
48 49 2.076863 GATTTGCTGCCAACGTACTCT 58.923 47.619 0.00 0.00 0.00 3.24
49 50 1.508632 TTTGCTGCCAACGTACTCTC 58.491 50.000 0.00 0.00 0.00 3.20
50 51 0.679505 TTGCTGCCAACGTACTCTCT 59.320 50.000 0.00 0.00 0.00 3.10
51 52 0.243907 TGCTGCCAACGTACTCTCTC 59.756 55.000 0.00 0.00 0.00 3.20
52 53 0.458716 GCTGCCAACGTACTCTCTCC 60.459 60.000 0.00 0.00 0.00 3.71
53 54 0.179161 CTGCCAACGTACTCTCTCCG 60.179 60.000 0.00 0.00 0.00 4.63
54 55 0.892358 TGCCAACGTACTCTCTCCGT 60.892 55.000 0.00 0.00 36.17 4.69
55 56 0.179169 GCCAACGTACTCTCTCCGTC 60.179 60.000 0.00 0.00 32.95 4.79
56 57 0.450983 CCAACGTACTCTCTCCGTCC 59.549 60.000 0.00 0.00 32.95 4.79
57 58 1.162698 CAACGTACTCTCTCCGTCCA 58.837 55.000 0.00 0.00 32.95 4.02
58 59 1.538512 CAACGTACTCTCTCCGTCCAA 59.461 52.381 0.00 0.00 32.95 3.53
59 60 1.901591 ACGTACTCTCTCCGTCCAAA 58.098 50.000 0.00 0.00 0.00 3.28
60 61 2.233271 ACGTACTCTCTCCGTCCAAAA 58.767 47.619 0.00 0.00 0.00 2.44
61 62 2.624838 ACGTACTCTCTCCGTCCAAAAA 59.375 45.455 0.00 0.00 0.00 1.94
62 63 3.257624 ACGTACTCTCTCCGTCCAAAAAT 59.742 43.478 0.00 0.00 0.00 1.82
63 64 4.460382 ACGTACTCTCTCCGTCCAAAAATA 59.540 41.667 0.00 0.00 0.00 1.40
64 65 4.797349 CGTACTCTCTCCGTCCAAAAATAC 59.203 45.833 0.00 0.00 0.00 1.89
65 66 5.392811 CGTACTCTCTCCGTCCAAAAATACT 60.393 44.000 0.00 0.00 0.00 2.12
66 67 5.074584 ACTCTCTCCGTCCAAAAATACTC 57.925 43.478 0.00 0.00 0.00 2.59
67 68 4.106029 TCTCTCCGTCCAAAAATACTCG 57.894 45.455 0.00 0.00 0.00 4.18
68 69 3.508793 TCTCTCCGTCCAAAAATACTCGT 59.491 43.478 0.00 0.00 0.00 4.18
69 70 3.841643 TCTCCGTCCAAAAATACTCGTC 58.158 45.455 0.00 0.00 0.00 4.20
70 71 3.256383 TCTCCGTCCAAAAATACTCGTCA 59.744 43.478 0.00 0.00 0.00 4.35
71 72 4.081862 TCTCCGTCCAAAAATACTCGTCAT 60.082 41.667 0.00 0.00 0.00 3.06
72 73 4.178540 TCCGTCCAAAAATACTCGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
73 74 3.930229 CCGTCCAAAAATACTCGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
74 75 4.390603 CCGTCCAAAAATACTCGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
75 76 5.106869 CCGTCCAAAAATACTCGTCATCAAA 60.107 40.000 0.00 0.00 0.00 2.69
76 77 6.367421 CGTCCAAAAATACTCGTCATCAAAA 58.633 36.000 0.00 0.00 0.00 2.44
77 78 7.021196 CGTCCAAAAATACTCGTCATCAAAAT 58.979 34.615 0.00 0.00 0.00 1.82
78 79 8.172484 CGTCCAAAAATACTCGTCATCAAAATA 58.828 33.333 0.00 0.00 0.00 1.40
79 80 9.490663 GTCCAAAAATACTCGTCATCAAAATAG 57.509 33.333 0.00 0.00 0.00 1.73
80 81 9.443323 TCCAAAAATACTCGTCATCAAAATAGA 57.557 29.630 0.00 0.00 0.00 1.98
81 82 9.490663 CCAAAAATACTCGTCATCAAAATAGAC 57.509 33.333 0.00 0.00 0.00 2.59
93 94 9.612620 GTCATCAAAATAGACGAAAAGAAATGT 57.387 29.630 0.00 0.00 0.00 2.71
127 128 9.393786 ACTAAAATACATGTAGATACATCCCCT 57.606 33.333 11.91 0.00 44.57 4.79
130 131 9.936329 AAAATACATGTAGATACATCCCCTTTT 57.064 29.630 11.91 5.79 44.57 2.27
135 136 8.723365 ACATGTAGATACATCCCCTTTTATTCA 58.277 33.333 0.00 0.00 44.57 2.57
136 137 9.745018 CATGTAGATACATCCCCTTTTATTCAT 57.255 33.333 2.47 0.00 44.57 2.57
141 142 9.713684 AGATACATCCCCTTTTATTCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
144 145 8.378115 ACATCCCCTTTTATTCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
145 146 8.260114 ACATCCCCTTTTATTCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
146 147 7.789202 TCCCCTTTTATTCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
147 148 8.200024 TCCCCTTTTATTCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
148 149 8.313292 TCCCCTTTTATTCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
149 150 8.096414 CCCCTTTTATTCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
156 157 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
157 158 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
158 159 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
159 160 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
160 161 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
161 162 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
162 163 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
179 180 4.886489 GGACGGAAGGAGTACTATGTTACT 59.114 45.833 0.00 0.00 0.00 2.24
180 181 5.359292 GGACGGAAGGAGTACTATGTTACTT 59.641 44.000 0.00 0.00 0.00 2.24
223 224 5.401531 AATGCTGCAATCTTCATGTCTTT 57.598 34.783 6.36 0.00 0.00 2.52
232 233 6.151817 GCAATCTTCATGTCTTTTACTCCCTT 59.848 38.462 0.00 0.00 0.00 3.95
241 242 4.459337 GTCTTTTACTCCCTTTGTCCCATG 59.541 45.833 0.00 0.00 0.00 3.66
257 258 5.939883 TGTCCCATGATGTAAGAAAGTTCAG 59.060 40.000 0.00 0.00 0.00 3.02
322 335 5.679638 GCCTCAAGCACAAAAGAGAAAAAGA 60.680 40.000 0.00 0.00 42.97 2.52
442 618 6.644181 GTGCTTTATAACGGTACTCCCTATTC 59.356 42.308 0.00 0.00 0.00 1.75
446 622 7.516198 TTATAACGGTACTCCCTATTCACTC 57.484 40.000 0.00 0.00 0.00 3.51
448 624 4.785346 ACGGTACTCCCTATTCACTCTA 57.215 45.455 0.00 0.00 0.00 2.43
485 661 3.695830 ATTAACATGTCCGGTCACTGT 57.304 42.857 2.72 7.18 0.00 3.55
488 664 0.756294 ACATGTCCGGTCACTGTCAA 59.244 50.000 2.72 0.00 0.00 3.18
523 718 7.126268 TCCATGGATGTATAGGGACTCATATTG 59.874 40.741 11.44 0.00 41.75 1.90
573 768 4.093850 ACCATTGGTAAAATCTTACGTCGC 59.906 41.667 6.54 0.00 38.69 5.19
793 1001 6.143438 CCGAACGATTTCACACCAGTATATAC 59.857 42.308 4.60 4.60 0.00 1.47
795 1003 7.381408 CGAACGATTTCACACCAGTATATACAT 59.619 37.037 15.18 0.00 0.00 2.29
796 1004 7.946655 ACGATTTCACACCAGTATATACATG 57.053 36.000 15.18 11.74 0.00 3.21
797 1005 6.423905 ACGATTTCACACCAGTATATACATGC 59.576 38.462 15.18 0.00 0.00 4.06
798 1006 6.423604 CGATTTCACACCAGTATATACATGCA 59.576 38.462 15.18 0.00 0.00 3.96
799 1007 7.359514 CGATTTCACACCAGTATATACATGCAG 60.360 40.741 15.18 6.96 0.00 4.41
800 1008 5.213891 TCACACCAGTATATACATGCAGG 57.786 43.478 15.18 0.00 30.96 4.85
801 1009 4.653801 TCACACCAGTATATACATGCAGGT 59.346 41.667 9.77 9.77 37.16 4.00
802 1010 5.130311 TCACACCAGTATATACATGCAGGTT 59.870 40.000 10.25 0.00 35.00 3.50
803 1011 5.466728 CACACCAGTATATACATGCAGGTTC 59.533 44.000 10.25 0.00 35.00 3.62
804 1012 4.997395 CACCAGTATATACATGCAGGTTCC 59.003 45.833 10.25 0.00 35.00 3.62
805 1013 4.658435 ACCAGTATATACATGCAGGTTCCA 59.342 41.667 10.25 0.00 33.73 3.53
806 1014 5.131977 ACCAGTATATACATGCAGGTTCCAA 59.868 40.000 10.25 0.00 33.73 3.53
807 1015 6.061441 CCAGTATATACATGCAGGTTCCAAA 58.939 40.000 10.25 0.00 0.00 3.28
808 1016 6.205464 CCAGTATATACATGCAGGTTCCAAAG 59.795 42.308 10.25 0.00 0.00 2.77
809 1017 6.767902 CAGTATATACATGCAGGTTCCAAAGT 59.232 38.462 10.25 0.00 0.00 2.66
810 1018 6.767902 AGTATATACATGCAGGTTCCAAAGTG 59.232 38.462 10.25 0.00 0.00 3.16
811 1019 2.071778 ACATGCAGGTTCCAAAGTGT 57.928 45.000 0.00 0.00 0.00 3.55
812 1020 3.222173 ACATGCAGGTTCCAAAGTGTA 57.778 42.857 0.00 0.00 0.00 2.90
813 1021 3.766545 ACATGCAGGTTCCAAAGTGTAT 58.233 40.909 0.00 0.00 0.00 2.29
814 1022 4.151883 ACATGCAGGTTCCAAAGTGTATT 58.848 39.130 0.00 0.00 0.00 1.89
815 1023 4.588528 ACATGCAGGTTCCAAAGTGTATTT 59.411 37.500 0.00 0.00 0.00 1.40
816 1024 4.846779 TGCAGGTTCCAAAGTGTATTTC 57.153 40.909 0.00 0.00 0.00 2.17
1029 1239 2.266627 GCTGTTGCCTGCTGCTTCT 61.267 57.895 0.00 0.00 42.00 2.85
1030 1240 0.957395 GCTGTTGCCTGCTGCTTCTA 60.957 55.000 0.00 0.00 42.00 2.10
1284 1494 4.323477 TTCCGGGACAACGCCCTG 62.323 66.667 0.00 0.00 46.44 4.45
1344 1554 1.838345 CGTCGTACATACACAAGAGCG 59.162 52.381 0.00 0.00 0.00 5.03
1491 1701 3.190849 CCTGACCGCATCGTGCTG 61.191 66.667 8.07 4.62 42.25 4.41
1494 1704 2.125912 GACCGCATCGTGCTGACT 60.126 61.111 8.01 0.00 42.25 3.41
1591 1801 1.832998 CTTACTACCCGGGGTAAGCAA 59.167 52.381 26.84 17.33 37.76 3.91
1592 1802 1.194218 TACTACCCGGGGTAAGCAAC 58.806 55.000 27.92 0.00 37.76 4.17
1593 1803 0.837260 ACTACCCGGGGTAAGCAACA 60.837 55.000 27.92 4.90 37.76 3.33
1594 1804 0.107848 CTACCCGGGGTAAGCAACAG 60.108 60.000 27.92 11.16 37.76 3.16
1595 1805 0.544833 TACCCGGGGTAAGCAACAGA 60.545 55.000 27.92 0.00 34.97 3.41
1596 1806 1.376812 CCCGGGGTAAGCAACAGAC 60.377 63.158 14.71 0.00 0.00 3.51
1597 1807 1.376812 CCGGGGTAAGCAACAGACC 60.377 63.158 0.00 0.00 0.00 3.85
1598 1808 1.373435 CGGGGTAAGCAACAGACCA 59.627 57.895 0.00 0.00 34.73 4.02
1614 1832 0.258774 ACCAACCAACCAGAGCAAGT 59.741 50.000 0.00 0.00 0.00 3.16
1701 1923 4.764771 CGGTGGAGGACGGGGGTA 62.765 72.222 0.00 0.00 0.00 3.69
2088 2310 0.110238 TGTACTCGTACAACGACGCC 60.110 55.000 7.41 0.00 46.73 5.68
2169 2391 3.570638 CTCGCCGCCATGCTCTTG 61.571 66.667 0.00 0.00 0.00 3.02
2433 2655 4.032452 TGCCATTGCTCGGAGCCA 62.032 61.111 26.00 16.77 41.51 4.75
2436 2658 2.586245 CATTGCTCGGAGCCAGGA 59.414 61.111 26.00 10.67 41.51 3.86
2508 2730 3.267860 GCGAGGATGAGCCGCTTG 61.268 66.667 0.00 0.00 44.83 4.01
2852 3164 4.998033 CCTCACTCAACCTCCTAAACTTTC 59.002 45.833 0.00 0.00 0.00 2.62
2856 3168 5.237344 CACTCAACCTCCTAAACTTTCTGTG 59.763 44.000 0.00 0.00 0.00 3.66
2901 3213 7.884816 AAATCAGCAAATCTGTTCATTTCTG 57.115 32.000 0.00 0.00 43.32 3.02
2905 3217 7.663827 TCAGCAAATCTGTTCATTTCTGATTT 58.336 30.769 0.00 0.00 43.32 2.17
2934 3246 9.515020 AAAAATATGAGTAATGCCGTACAAATG 57.485 29.630 0.00 0.00 0.00 2.32
2935 3247 8.445275 AAATATGAGTAATGCCGTACAAATGA 57.555 30.769 0.00 0.00 0.00 2.57
2936 3248 5.734855 ATGAGTAATGCCGTACAAATGAC 57.265 39.130 0.00 0.00 0.00 3.06
2937 3249 4.570930 TGAGTAATGCCGTACAAATGACA 58.429 39.130 0.00 0.00 0.00 3.58
2938 3250 5.182487 TGAGTAATGCCGTACAAATGACAT 58.818 37.500 0.00 0.00 0.00 3.06
2939 3251 5.293324 TGAGTAATGCCGTACAAATGACATC 59.707 40.000 0.00 0.00 0.00 3.06
2940 3252 4.574828 AGTAATGCCGTACAAATGACATCC 59.425 41.667 0.00 0.00 0.00 3.51
2941 3253 2.779755 TGCCGTACAAATGACATCCT 57.220 45.000 0.00 0.00 0.00 3.24
2942 3254 3.066291 TGCCGTACAAATGACATCCTT 57.934 42.857 0.00 0.00 0.00 3.36
2943 3255 3.417101 TGCCGTACAAATGACATCCTTT 58.583 40.909 0.00 0.00 0.00 3.11
2944 3256 3.190327 TGCCGTACAAATGACATCCTTTG 59.810 43.478 7.76 7.76 38.13 2.77
2945 3257 3.190535 GCCGTACAAATGACATCCTTTGT 59.809 43.478 16.24 16.24 45.07 2.83
2958 3270 6.336842 ACATCCTTTGTCTGATTTTTCCTG 57.663 37.500 0.00 0.00 30.89 3.86
2959 3271 6.070656 ACATCCTTTGTCTGATTTTTCCTGA 58.929 36.000 0.00 0.00 30.89 3.86
2960 3272 6.723052 ACATCCTTTGTCTGATTTTTCCTGAT 59.277 34.615 0.00 0.00 30.89 2.90
2961 3273 7.234166 ACATCCTTTGTCTGATTTTTCCTGATT 59.766 33.333 0.00 0.00 30.89 2.57
2962 3274 8.742777 CATCCTTTGTCTGATTTTTCCTGATTA 58.257 33.333 0.00 0.00 0.00 1.75
2963 3275 8.704849 TCCTTTGTCTGATTTTTCCTGATTAA 57.295 30.769 0.00 0.00 0.00 1.40
2964 3276 9.142014 TCCTTTGTCTGATTTTTCCTGATTAAA 57.858 29.630 0.00 0.00 0.00 1.52
2965 3277 9.762933 CCTTTGTCTGATTTTTCCTGATTAAAA 57.237 29.630 0.00 0.00 0.00 1.52
3016 3328 2.160813 CCTTTGTCCGATTTTGGTACGG 59.839 50.000 0.00 0.00 46.71 4.02
3094 3406 7.501225 TGATTGACTGTGGTATAGAGATCGTAA 59.499 37.037 0.00 0.00 0.00 3.18
3119 3431 7.831753 ACACTATATGTCATACATGGAGTAGC 58.168 38.462 0.00 0.00 39.53 3.58
3245 3565 7.789202 TTGATCTCATCAAAATGGGGTTTTA 57.211 32.000 0.00 0.00 45.57 1.52
3263 3583 9.027202 GGGGTTTTACTATTTATCAAGAAACCA 57.973 33.333 14.36 0.00 43.94 3.67
3310 3630 3.653539 GTAACAAACCATTGGACCCAC 57.346 47.619 10.37 0.00 41.01 4.61
3311 3631 1.036707 AACAAACCATTGGACCCACG 58.963 50.000 10.37 0.00 41.01 4.94
3314 3634 0.757188 AAACCATTGGACCCACGCAA 60.757 50.000 10.37 0.00 0.00 4.85
3387 3759 9.853177 ATAGTTACTCCCTATCAAAATGAAAGG 57.147 33.333 0.00 0.00 0.00 3.11
3388 3760 7.928873 AGTTACTCCCTATCAAAATGAAAGGA 58.071 34.615 0.00 0.00 0.00 3.36
3389 3761 8.560903 AGTTACTCCCTATCAAAATGAAAGGAT 58.439 33.333 0.00 0.00 0.00 3.24
3390 3762 8.841300 GTTACTCCCTATCAAAATGAAAGGATC 58.159 37.037 0.00 0.00 0.00 3.36
3391 3763 7.218314 ACTCCCTATCAAAATGAAAGGATCT 57.782 36.000 0.00 0.00 0.00 2.75
3392 3764 7.286313 ACTCCCTATCAAAATGAAAGGATCTC 58.714 38.462 0.00 0.00 0.00 2.75
3393 3765 7.092264 ACTCCCTATCAAAATGAAAGGATCTCA 60.092 37.037 0.00 0.00 0.00 3.27
3394 3766 7.642186 TCCCTATCAAAATGAAAGGATCTCAA 58.358 34.615 0.00 0.00 0.00 3.02
3395 3767 8.284435 TCCCTATCAAAATGAAAGGATCTCAAT 58.716 33.333 0.00 0.00 0.00 2.57
3396 3768 8.574737 CCCTATCAAAATGAAAGGATCTCAATC 58.425 37.037 0.00 0.00 0.00 2.67
3397 3769 9.128404 CCTATCAAAATGAAAGGATCTCAATCA 57.872 33.333 0.00 0.00 33.21 2.57
3400 3772 7.778083 TCAAAATGAAAGGATCTCAATCATGG 58.222 34.615 0.00 0.00 33.21 3.66
3401 3773 6.726490 AAATGAAAGGATCTCAATCATGGG 57.274 37.500 0.00 0.00 33.21 4.00
3402 3774 3.559069 TGAAAGGATCTCAATCATGGGC 58.441 45.455 0.00 0.00 33.21 5.36
3405 3777 2.703947 AGGATCTCAATCATGGGCTCT 58.296 47.619 0.00 0.00 33.21 4.09
3435 3814 7.621832 TCGATGTTGAAATCAAAACAATGTC 57.378 32.000 0.00 0.00 39.57 3.06
3438 3817 7.999878 CGATGTTGAAATCAAAACAATGTCAAG 59.000 33.333 0.00 0.00 39.57 3.02
3548 3927 6.194235 TGAGAGCATATTTACCCCAAAACAT 58.806 36.000 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 9.787532 GCAGCAAATCAGTTGAGTATTATTTAA 57.212 29.630 0.00 0.00 39.87 1.52
12 13 8.405531 GGCAGCAAATCAGTTGAGTATTATTTA 58.594 33.333 0.00 0.00 39.87 1.40
13 14 7.093814 TGGCAGCAAATCAGTTGAGTATTATTT 60.094 33.333 0.00 0.00 39.87 1.40
14 15 6.377996 TGGCAGCAAATCAGTTGAGTATTATT 59.622 34.615 0.00 0.00 39.87 1.40
15 16 5.887598 TGGCAGCAAATCAGTTGAGTATTAT 59.112 36.000 0.00 0.00 39.87 1.28
16 17 5.252547 TGGCAGCAAATCAGTTGAGTATTA 58.747 37.500 0.00 0.00 39.87 0.98
17 18 4.081406 TGGCAGCAAATCAGTTGAGTATT 58.919 39.130 0.00 0.00 39.87 1.89
18 19 3.689347 TGGCAGCAAATCAGTTGAGTAT 58.311 40.909 0.00 0.00 39.87 2.12
19 20 3.138884 TGGCAGCAAATCAGTTGAGTA 57.861 42.857 0.00 0.00 39.87 2.59
20 21 1.985473 TGGCAGCAAATCAGTTGAGT 58.015 45.000 0.00 0.00 39.87 3.41
21 22 2.669364 GTTGGCAGCAAATCAGTTGAG 58.331 47.619 0.00 0.00 39.87 3.02
22 23 1.001487 CGTTGGCAGCAAATCAGTTGA 60.001 47.619 1.39 0.00 39.87 3.18
23 24 1.269206 ACGTTGGCAGCAAATCAGTTG 60.269 47.619 1.39 0.00 40.50 3.16
24 25 1.032014 ACGTTGGCAGCAAATCAGTT 58.968 45.000 1.39 0.00 0.00 3.16
25 26 1.535462 GTACGTTGGCAGCAAATCAGT 59.465 47.619 1.39 0.00 0.00 3.41
26 27 1.806542 AGTACGTTGGCAGCAAATCAG 59.193 47.619 1.39 0.00 0.00 2.90
27 28 1.804151 GAGTACGTTGGCAGCAAATCA 59.196 47.619 1.39 0.00 0.00 2.57
28 29 2.076863 AGAGTACGTTGGCAGCAAATC 58.923 47.619 1.39 0.00 0.00 2.17
29 30 2.076863 GAGAGTACGTTGGCAGCAAAT 58.923 47.619 1.39 0.00 0.00 2.32
30 31 1.070134 AGAGAGTACGTTGGCAGCAAA 59.930 47.619 1.39 0.00 0.00 3.68
31 32 0.679505 AGAGAGTACGTTGGCAGCAA 59.320 50.000 1.39 0.00 0.00 3.91
32 33 0.243907 GAGAGAGTACGTTGGCAGCA 59.756 55.000 1.39 0.00 0.00 4.41
33 34 0.458716 GGAGAGAGTACGTTGGCAGC 60.459 60.000 0.00 0.00 0.00 5.25
34 35 0.179161 CGGAGAGAGTACGTTGGCAG 60.179 60.000 0.00 0.00 0.00 4.85
35 36 0.892358 ACGGAGAGAGTACGTTGGCA 60.892 55.000 0.00 0.00 37.61 4.92
36 37 0.179169 GACGGAGAGAGTACGTTGGC 60.179 60.000 0.00 0.00 41.40 4.52
37 38 0.450983 GGACGGAGAGAGTACGTTGG 59.549 60.000 0.00 0.00 41.40 3.77
38 39 1.162698 TGGACGGAGAGAGTACGTTG 58.837 55.000 0.00 0.00 41.40 4.10
39 40 1.901591 TTGGACGGAGAGAGTACGTT 58.098 50.000 0.00 0.00 41.40 3.99
40 41 1.901591 TTTGGACGGAGAGAGTACGT 58.098 50.000 0.00 0.00 44.35 3.57
41 42 3.293311 TTTTTGGACGGAGAGAGTACG 57.707 47.619 0.00 0.00 0.00 3.67
42 43 5.963594 AGTATTTTTGGACGGAGAGAGTAC 58.036 41.667 0.00 0.00 0.00 2.73
43 44 5.163683 CGAGTATTTTTGGACGGAGAGAGTA 60.164 44.000 0.00 0.00 0.00 2.59
44 45 4.380655 CGAGTATTTTTGGACGGAGAGAGT 60.381 45.833 0.00 0.00 0.00 3.24
45 46 4.106197 CGAGTATTTTTGGACGGAGAGAG 58.894 47.826 0.00 0.00 0.00 3.20
46 47 3.508793 ACGAGTATTTTTGGACGGAGAGA 59.491 43.478 0.00 0.00 0.00 3.10
47 48 3.846360 ACGAGTATTTTTGGACGGAGAG 58.154 45.455 0.00 0.00 0.00 3.20
48 49 3.256383 TGACGAGTATTTTTGGACGGAGA 59.744 43.478 0.00 0.00 0.00 3.71
49 50 3.581755 TGACGAGTATTTTTGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
50 51 3.663995 TGACGAGTATTTTTGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
51 52 3.930229 TGATGACGAGTATTTTTGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
52 53 5.524511 TTGATGACGAGTATTTTTGGACG 57.475 39.130 0.00 0.00 0.00 4.79
53 54 9.490663 CTATTTTGATGACGAGTATTTTTGGAC 57.509 33.333 0.00 0.00 0.00 4.02
54 55 9.443323 TCTATTTTGATGACGAGTATTTTTGGA 57.557 29.630 0.00 0.00 0.00 3.53
55 56 9.490663 GTCTATTTTGATGACGAGTATTTTTGG 57.509 33.333 0.00 0.00 0.00 3.28
67 68 9.612620 ACATTTCTTTTCGTCTATTTTGATGAC 57.387 29.630 0.00 0.00 32.39 3.06
101 102 9.393786 AGGGGATGTATCTACATGTATTTTAGT 57.606 33.333 5.91 0.00 46.20 2.24
104 105 9.936329 AAAAGGGGATGTATCTACATGTATTTT 57.064 29.630 5.91 3.18 46.20 1.82
109 110 8.723365 TGAATAAAAGGGGATGTATCTACATGT 58.277 33.333 2.69 2.69 46.20 3.21
110 111 9.745018 ATGAATAAAAGGGGATGTATCTACATG 57.255 33.333 7.55 0.00 46.20 3.21
115 116 9.713684 TCAAAATGAATAAAAGGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
118 119 9.486123 TCATCAAAATGAATAAAAGGGGATGTA 57.514 29.630 0.00 0.00 38.97 2.29
119 120 8.260114 GTCATCAAAATGAATAAAAGGGGATGT 58.740 33.333 0.00 0.00 43.42 3.06
120 121 8.259411 TGTCATCAAAATGAATAAAAGGGGATG 58.741 33.333 0.00 0.00 43.42 3.51
121 122 8.378115 TGTCATCAAAATGAATAAAAGGGGAT 57.622 30.769 0.00 0.00 43.42 3.85
122 123 7.789202 TGTCATCAAAATGAATAAAAGGGGA 57.211 32.000 0.00 0.00 43.42 4.81
123 124 8.096414 ACTTGTCATCAAAATGAATAAAAGGGG 58.904 33.333 0.00 0.00 43.42 4.79
131 132 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
132 133 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
133 134 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
134 135 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
135 136 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
136 137 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
137 138 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
138 139 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
139 140 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
140 141 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
141 142 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
142 143 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
143 144 2.660189 TCCGTCCGGAAATACTTGTC 57.340 50.000 5.23 0.00 42.05 3.18
153 154 0.911769 TAGTACTCCTTCCGTCCGGA 59.088 55.000 0.00 0.00 43.52 5.14
154 155 1.607628 CATAGTACTCCTTCCGTCCGG 59.392 57.143 0.00 0.00 0.00 5.14
155 156 2.295885 ACATAGTACTCCTTCCGTCCG 58.704 52.381 0.00 0.00 0.00 4.79
156 157 4.886489 AGTAACATAGTACTCCTTCCGTCC 59.114 45.833 0.00 0.00 27.56 4.79
157 158 6.448207 AAGTAACATAGTACTCCTTCCGTC 57.552 41.667 0.00 0.00 33.05 4.79
158 159 6.847421 AAAGTAACATAGTACTCCTTCCGT 57.153 37.500 0.00 0.00 33.05 4.69
159 160 8.246180 TGTAAAAGTAACATAGTACTCCTTCCG 58.754 37.037 0.00 0.00 33.05 4.30
160 161 9.363763 GTGTAAAAGTAACATAGTACTCCTTCC 57.636 37.037 0.00 0.00 33.05 3.46
189 190 7.578310 AGATTGCAGCATTTGTTAGACATAT 57.422 32.000 0.00 0.00 0.00 1.78
241 242 9.871238 TCCTGTAATACTGAACTTTCTTACATC 57.129 33.333 0.00 0.00 29.55 3.06
257 258 6.448207 AGTACTCTTTCCGTCCTGTAATAC 57.552 41.667 0.00 0.00 0.00 1.89
264 277 3.369242 AGCTAGTACTCTTTCCGTCCT 57.631 47.619 0.00 0.00 0.00 3.85
442 618 7.798596 ATTGACCTTGATTTAGCATAGAGTG 57.201 36.000 0.00 0.00 0.00 3.51
448 624 8.752187 ACATGTTAATTGACCTTGATTTAGCAT 58.248 29.630 0.00 0.00 0.00 3.79
504 699 5.100811 TGCCCAATATGAGTCCCTATACAT 58.899 41.667 0.00 0.00 0.00 2.29
505 700 4.498493 TGCCCAATATGAGTCCCTATACA 58.502 43.478 0.00 0.00 0.00 2.29
533 728 5.182950 CCAATGGTTAGAGCATGTACAACAA 59.817 40.000 0.00 0.00 36.31 2.83
534 729 4.699735 CCAATGGTTAGAGCATGTACAACA 59.300 41.667 0.00 0.00 36.31 3.33
573 768 5.047306 TGGCTGATATTCCTATAACCTCACG 60.047 44.000 0.00 0.00 0.00 4.35
793 1001 4.789012 AATACACTTTGGAACCTGCATG 57.211 40.909 0.00 0.00 0.00 4.06
795 1003 3.572255 GGAAATACACTTTGGAACCTGCA 59.428 43.478 0.00 0.00 0.00 4.41
796 1004 3.056821 GGGAAATACACTTTGGAACCTGC 60.057 47.826 0.00 0.00 0.00 4.85
797 1005 3.190535 CGGGAAATACACTTTGGAACCTG 59.809 47.826 0.00 0.00 0.00 4.00
798 1006 3.418047 CGGGAAATACACTTTGGAACCT 58.582 45.455 0.00 0.00 0.00 3.50
799 1007 2.490509 CCGGGAAATACACTTTGGAACC 59.509 50.000 0.00 0.00 0.00 3.62
800 1008 2.094906 GCCGGGAAATACACTTTGGAAC 60.095 50.000 2.18 0.00 0.00 3.62
801 1009 2.164338 GCCGGGAAATACACTTTGGAA 58.836 47.619 2.18 0.00 0.00 3.53
802 1010 1.074084 TGCCGGGAAATACACTTTGGA 59.926 47.619 2.18 0.00 0.00 3.53
803 1011 1.540267 TGCCGGGAAATACACTTTGG 58.460 50.000 2.18 0.00 0.00 3.28
804 1012 3.866883 AATGCCGGGAAATACACTTTG 57.133 42.857 0.00 0.00 0.00 2.77
805 1013 4.082245 CAGAAATGCCGGGAAATACACTTT 60.082 41.667 0.00 0.00 0.00 2.66
806 1014 3.443681 CAGAAATGCCGGGAAATACACTT 59.556 43.478 0.00 0.00 0.00 3.16
807 1015 3.016736 CAGAAATGCCGGGAAATACACT 58.983 45.455 0.00 0.00 0.00 3.55
808 1016 2.479560 GCAGAAATGCCGGGAAATACAC 60.480 50.000 0.00 0.00 0.00 2.90
809 1017 1.748493 GCAGAAATGCCGGGAAATACA 59.252 47.619 0.00 0.00 0.00 2.29
810 1018 1.067060 GGCAGAAATGCCGGGAAATAC 59.933 52.381 0.00 0.00 45.79 1.89
811 1019 1.398692 GGCAGAAATGCCGGGAAATA 58.601 50.000 0.00 0.00 45.79 1.40
812 1020 2.201927 GGCAGAAATGCCGGGAAAT 58.798 52.632 0.00 0.00 45.79 2.17
813 1021 3.693411 GGCAGAAATGCCGGGAAA 58.307 55.556 0.00 0.00 45.79 3.13
1083 1293 1.601419 CTCTCCACCCGGCGAAGTAA 61.601 60.000 9.30 0.00 0.00 2.24
1167 1377 0.171455 CGAAGGAGACCTGGTTCTCG 59.829 60.000 0.00 1.91 42.74 4.04
1260 1470 4.344865 TTGTCCCGGAAGCTGGCC 62.345 66.667 0.73 0.00 0.00 5.36
1284 1494 1.079336 GCCGTGGTAGTCCTGGAAC 60.079 63.158 0.00 0.00 33.73 3.62
1344 1554 4.932200 AGCAAGATAAAGCAGAGTACACAC 59.068 41.667 0.00 0.00 0.00 3.82
1350 1560 4.904241 AGACAAGCAAGATAAAGCAGAGT 58.096 39.130 0.00 0.00 0.00 3.24
1591 1801 0.179018 GCTCTGGTTGGTTGGTCTGT 60.179 55.000 0.00 0.00 0.00 3.41
1592 1802 0.179020 TGCTCTGGTTGGTTGGTCTG 60.179 55.000 0.00 0.00 0.00 3.51
1593 1803 0.550914 TTGCTCTGGTTGGTTGGTCT 59.449 50.000 0.00 0.00 0.00 3.85
1594 1804 0.954452 CTTGCTCTGGTTGGTTGGTC 59.046 55.000 0.00 0.00 0.00 4.02
1595 1805 0.258774 ACTTGCTCTGGTTGGTTGGT 59.741 50.000 0.00 0.00 0.00 3.67
1596 1806 0.954452 GACTTGCTCTGGTTGGTTGG 59.046 55.000 0.00 0.00 0.00 3.77
1597 1807 1.334869 GTGACTTGCTCTGGTTGGTTG 59.665 52.381 0.00 0.00 0.00 3.77
1598 1808 1.212935 AGTGACTTGCTCTGGTTGGTT 59.787 47.619 0.00 0.00 0.00 3.67
1860 2082 0.681564 CTAGGACGTCCTCCAGCACT 60.682 60.000 39.49 16.90 44.77 4.40
2292 2514 1.382522 GCATGTCCATCCACACGAAT 58.617 50.000 0.00 0.00 0.00 3.34
2433 2655 1.136329 AGCACACCCTGAACCATCCT 61.136 55.000 0.00 0.00 0.00 3.24
2436 2658 0.606401 CGAAGCACACCCTGAACCAT 60.606 55.000 0.00 0.00 0.00 3.55
2508 2730 1.826385 CCTTGTTCCACCTGTCCATC 58.174 55.000 0.00 0.00 0.00 3.51
2852 3164 4.818546 AGAAACAAATCAGAGTGGACACAG 59.181 41.667 5.14 0.00 0.00 3.66
2856 3168 8.567948 TGATTTTAGAAACAAATCAGAGTGGAC 58.432 33.333 4.35 0.00 42.90 4.02
2912 3224 6.989759 TGTCATTTGTACGGCATTACTCATAT 59.010 34.615 0.00 0.00 0.00 1.78
2913 3225 6.342111 TGTCATTTGTACGGCATTACTCATA 58.658 36.000 0.00 0.00 0.00 2.15
2915 3227 4.570930 TGTCATTTGTACGGCATTACTCA 58.429 39.130 0.00 0.00 0.00 3.41
2916 3228 5.277345 GGATGTCATTTGTACGGCATTACTC 60.277 44.000 0.00 0.00 0.00 2.59
2917 3229 4.574828 GGATGTCATTTGTACGGCATTACT 59.425 41.667 0.00 0.00 0.00 2.24
2918 3230 4.574828 AGGATGTCATTTGTACGGCATTAC 59.425 41.667 0.00 0.00 0.00 1.89
2919 3231 4.776349 AGGATGTCATTTGTACGGCATTA 58.224 39.130 0.00 0.00 0.00 1.90
2920 3232 3.620488 AGGATGTCATTTGTACGGCATT 58.380 40.909 0.00 0.00 0.00 3.56
2921 3233 3.281727 AGGATGTCATTTGTACGGCAT 57.718 42.857 0.00 0.00 0.00 4.40
2922 3234 2.779755 AGGATGTCATTTGTACGGCA 57.220 45.000 0.00 0.00 0.00 5.69
2923 3235 3.758300 CAAAGGATGTCATTTGTACGGC 58.242 45.455 10.93 0.00 41.19 5.68
2936 3248 6.579666 TCAGGAAAAATCAGACAAAGGATG 57.420 37.500 0.00 0.00 0.00 3.51
2937 3249 7.787623 AATCAGGAAAAATCAGACAAAGGAT 57.212 32.000 0.00 0.00 0.00 3.24
2938 3250 8.704849 TTAATCAGGAAAAATCAGACAAAGGA 57.295 30.769 0.00 0.00 0.00 3.36
2939 3251 9.762933 TTTTAATCAGGAAAAATCAGACAAAGG 57.237 29.630 0.00 0.00 0.00 3.11
2964 3276 8.492748 CGTACGTATGGCATCACTAATATTTTT 58.507 33.333 1.65 0.00 0.00 1.94
2965 3277 7.868922 TCGTACGTATGGCATCACTAATATTTT 59.131 33.333 16.05 0.00 0.00 1.82
2966 3278 7.327761 GTCGTACGTATGGCATCACTAATATTT 59.672 37.037 16.05 0.00 0.00 1.40
2967 3279 6.805271 GTCGTACGTATGGCATCACTAATATT 59.195 38.462 16.05 0.00 0.00 1.28
2968 3280 6.072342 TGTCGTACGTATGGCATCACTAATAT 60.072 38.462 17.84 0.00 0.00 1.28
2972 3284 2.944349 TGTCGTACGTATGGCATCACTA 59.056 45.455 17.84 0.00 0.00 2.74
3016 3328 2.344025 GACGGTGTGATTGGTAGGTTC 58.656 52.381 0.00 0.00 0.00 3.62
3025 3337 2.104792 CCTATCCATGGACGGTGTGATT 59.895 50.000 18.99 0.00 0.00 2.57
3094 3406 7.671819 AGCTACTCCATGTATGACATATAGTGT 59.328 37.037 12.72 6.43 45.83 3.55
3298 3618 1.459455 TTGTTGCGTGGGTCCAATGG 61.459 55.000 0.00 0.00 0.00 3.16
3306 3626 0.109964 CATACCGTTTGTTGCGTGGG 60.110 55.000 0.00 0.00 0.00 4.61
3310 3630 0.869068 TCCACATACCGTTTGTTGCG 59.131 50.000 0.00 0.00 0.00 4.85
3311 3631 1.604755 TGTCCACATACCGTTTGTTGC 59.395 47.619 0.00 0.00 0.00 4.17
3314 3634 3.811083 TCTTTGTCCACATACCGTTTGT 58.189 40.909 0.00 0.00 0.00 2.83
3356 3728 7.924358 TTTTGATAGGGAGTAACTATAGCCA 57.076 36.000 0.00 0.00 31.58 4.75
3385 3757 2.703947 AGAGCCCATGATTGAGATCCT 58.296 47.619 0.00 0.00 0.00 3.24
3387 3759 3.147629 CCAAGAGCCCATGATTGAGATC 58.852 50.000 0.00 0.00 0.00 2.75
3388 3760 2.752154 GCCAAGAGCCCATGATTGAGAT 60.752 50.000 0.00 0.00 34.35 2.75
3389 3761 1.409241 GCCAAGAGCCCATGATTGAGA 60.409 52.381 0.00 0.00 34.35 3.27
3390 3762 1.030457 GCCAAGAGCCCATGATTGAG 58.970 55.000 0.00 0.00 34.35 3.02
3391 3763 0.332293 TGCCAAGAGCCCATGATTGA 59.668 50.000 0.00 0.00 42.71 2.57
3392 3764 1.340248 GATGCCAAGAGCCCATGATTG 59.660 52.381 0.00 0.00 42.71 2.67
3393 3765 1.700955 GATGCCAAGAGCCCATGATT 58.299 50.000 0.00 0.00 42.71 2.57
3394 3766 0.536687 CGATGCCAAGAGCCCATGAT 60.537 55.000 0.00 0.00 42.71 2.45
3395 3767 1.153107 CGATGCCAAGAGCCCATGA 60.153 57.895 0.00 0.00 42.71 3.07
3396 3768 0.536687 ATCGATGCCAAGAGCCCATG 60.537 55.000 0.00 0.00 42.71 3.66
3397 3769 0.536687 CATCGATGCCAAGAGCCCAT 60.537 55.000 13.37 0.00 42.71 4.00
3398 3770 1.153107 CATCGATGCCAAGAGCCCA 60.153 57.895 13.37 0.00 42.71 5.36
3399 3771 0.749454 AACATCGATGCCAAGAGCCC 60.749 55.000 25.11 0.00 42.71 5.19
3400 3772 0.379669 CAACATCGATGCCAAGAGCC 59.620 55.000 25.11 0.00 42.71 4.70
3401 3773 1.372582 TCAACATCGATGCCAAGAGC 58.627 50.000 25.11 0.00 44.14 4.09
3402 3774 4.095334 TGATTTCAACATCGATGCCAAGAG 59.905 41.667 25.11 8.84 0.00 2.85
3405 3777 4.780275 TTGATTTCAACATCGATGCCAA 57.220 36.364 25.11 12.17 0.00 4.52
3435 3814 4.771590 TTCTTTTGCCATGCTAGTCTTG 57.228 40.909 0.00 0.00 0.00 3.02
3438 3817 4.503741 TGTTTCTTTTGCCATGCTAGTC 57.496 40.909 0.00 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.