Multiple sequence alignment - TraesCS7B01G364600

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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 TraesCS7B01G364600 chr7B 100.000 5415 0 0 1 5415 627610034 627615448 0.000000e+00 10000
1 TraesCS7B01G364600 chr7B 86.530 2836 203 93 997 3723 628736587 628733822 0.000000e+00 2955
2 TraesCS7B01G364600 chr7B 92.453 583 32 6 3866 4441 628733415 628732838 0.000000e+00 822
3 TraesCS7B01G364600 chr7B 80.420 572 46 29 193 752 628737277 628736760 5.120000e-100 375
4 TraesCS7B01G364600 chr7B 91.176 102 5 3 3762 3863 628733695 628733598 9.460000e-28 135
5 TraesCS7B01G364600 chr7A 92.332 5373 212 79 149 5415 660494448 660499726 0.000000e+00 7456
6 TraesCS7B01G364600 chr7A 86.093 2826 180 104 997 3723 661281269 661278558 0.000000e+00 2844
7 TraesCS7B01G364600 chr7A 93.276 580 30 5 3866 4441 661278120 661277546 0.000000e+00 846
8 TraesCS7B01G364600 chr7A 80.855 585 49 27 181 752 661281986 661281452 8.450000e-108 401
9 TraesCS7B01G364600 chr7A 93.396 106 5 2 3762 3867 661278431 661278328 7.260000e-34 156
10 TraesCS7B01G364600 chr7D 94.739 2680 74 26 2152 4801 571480113 571482755 0.000000e+00 4106
11 TraesCS7B01G364600 chr7D 87.149 2817 202 88 997 3723 571977282 571974536 0.000000e+00 3049
12 TraesCS7B01G364600 chr7D 91.139 2054 61 49 146 2172 571478142 571480101 0.000000e+00 2673
13 TraesCS7B01G364600 chr7D 95.635 504 16 2 3943 4440 571974061 571973558 0.000000e+00 804
14 TraesCS7B01G364600 chr7D 80.103 387 34 15 185 565 571978248 571977899 1.160000e-61 248
15 TraesCS7B01G364600 chr7D 88.276 145 11 5 610 752 571977600 571977460 9.330000e-38 169
16 TraesCS7B01G364600 chr2A 95.000 80 4 0 1007 1086 708058378 708058457 5.690000e-25 126


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 TraesCS7B01G364600 chr7B 627610034 627615448 5414 False 10000.00 10000 100.00000 1 5415 1 chr7B.!!$F1 5414
1 TraesCS7B01G364600 chr7B 628732838 628737277 4439 True 1071.75 2955 87.64475 193 4441 4 chr7B.!!$R1 4248
2 TraesCS7B01G364600 chr7A 660494448 660499726 5278 False 7456.00 7456 92.33200 149 5415 1 chr7A.!!$F1 5266
3 TraesCS7B01G364600 chr7A 661277546 661281986 4440 True 1061.75 2844 88.40500 181 4441 4 chr7A.!!$R1 4260
4 TraesCS7B01G364600 chr7D 571478142 571482755 4613 False 3389.50 4106 92.93900 146 4801 2 chr7D.!!$F1 4655
5 TraesCS7B01G364600 chr7D 571973558 571978248 4690 True 1067.50 3049 87.79075 185 4440 4 chr7D.!!$R1 4255

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
68 69 0.034756 TGGGTCAATGACACGGACTG 59.965 55.000 15.86 0.0 39.08 3.51 F
69 70 0.034896 GGGTCAATGACACGGACTGT 59.965 55.000 15.86 0.0 33.68 3.55 F
1273 1638 0.166597 CATGCGTGTGTGCCTAACTG 59.833 55.000 0.00 0.0 0.00 3.16 F
1274 1639 1.577328 ATGCGTGTGTGCCTAACTGC 61.577 55.000 0.00 0.0 0.00 4.40 F
2307 2824 1.005630 GCACGTCTTGTCTGCCTCT 60.006 57.895 0.00 0.0 0.00 3.69 F
2308 2825 1.011451 GCACGTCTTGTCTGCCTCTC 61.011 60.000 0.00 0.0 0.00 3.20 F
2327 2846 1.452108 CATCCTTGTCGCCTTCCCC 60.452 63.158 0.00 0.0 0.00 4.81 F
3380 3941 1.665137 TTAAGGAAGGGAGGGGACAC 58.335 55.000 0.00 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1776 2205 2.879026 AGCGGAAAGGAACAAAGAGAAC 59.121 45.455 0.00 0.0 0.00 3.01 R
2093 2571 6.092807 ACTCTGATATTTTCTTGCCTTTCGAC 59.907 38.462 0.00 0.0 0.00 4.20 R
2289 2806 1.005630 AGAGGCAGACAAGACGTGC 60.006 57.895 0.00 0.0 36.42 5.34 R
3038 3575 1.182667 GCAACCCTTTCCGGCTTATT 58.817 50.000 0.00 0.0 0.00 1.40 R
3570 4131 1.065102 CTTGAATTGAGAGGGCATGCG 59.935 52.381 12.44 0.0 0.00 4.73 R
3739 4415 1.526225 GAACCGGCCTGGCTAATCC 60.526 63.158 19.68 0.0 43.94 3.01 R
4312 5235 3.706373 GGCGCCTCCCTCTTCACA 61.706 66.667 22.15 0.0 0.00 3.58 R
5053 5982 0.811281 GCCCAGTAGAAACCACATGC 59.189 55.000 0.00 0.0 0.00 4.06 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
36 37 9.707957 ATCCATTTAACAACAACTAATATGGGA 57.292 29.630 0.00 0.00 32.76 4.37
37 38 9.707957 TCCATTTAACAACAACTAATATGGGAT 57.292 29.630 0.00 0.00 32.76 3.85
38 39 9.748708 CCATTTAACAACAACTAATATGGGATG 57.251 33.333 0.00 0.00 0.00 3.51
39 40 9.748708 CATTTAACAACAACTAATATGGGATGG 57.251 33.333 0.00 0.00 0.00 3.51
40 41 9.707957 ATTTAACAACAACTAATATGGGATGGA 57.292 29.630 0.00 0.00 0.00 3.41
41 42 8.746052 TTAACAACAACTAATATGGGATGGAG 57.254 34.615 0.00 0.00 0.00 3.86
42 43 5.694995 ACAACAACTAATATGGGATGGAGG 58.305 41.667 0.00 0.00 0.00 4.30
43 44 5.072741 CAACAACTAATATGGGATGGAGGG 58.927 45.833 0.00 0.00 0.00 4.30
44 45 4.315993 ACAACTAATATGGGATGGAGGGT 58.684 43.478 0.00 0.00 0.00 4.34
45 46 5.482580 ACAACTAATATGGGATGGAGGGTA 58.517 41.667 0.00 0.00 0.00 3.69
46 47 6.098446 ACAACTAATATGGGATGGAGGGTAT 58.902 40.000 0.00 0.00 0.00 2.73
47 48 6.012508 ACAACTAATATGGGATGGAGGGTATG 60.013 42.308 0.00 0.00 0.00 2.39
48 49 5.927465 ACTAATATGGGATGGAGGGTATGA 58.073 41.667 0.00 0.00 0.00 2.15
49 50 6.524996 ACTAATATGGGATGGAGGGTATGAT 58.475 40.000 0.00 0.00 0.00 2.45
50 51 5.722172 AATATGGGATGGAGGGTATGATG 57.278 43.478 0.00 0.00 0.00 3.07
51 52 1.746157 TGGGATGGAGGGTATGATGG 58.254 55.000 0.00 0.00 0.00 3.51
52 53 0.995024 GGGATGGAGGGTATGATGGG 59.005 60.000 0.00 0.00 0.00 4.00
53 54 1.747444 GGATGGAGGGTATGATGGGT 58.253 55.000 0.00 0.00 0.00 4.51
54 55 1.630878 GGATGGAGGGTATGATGGGTC 59.369 57.143 0.00 0.00 0.00 4.46
55 56 2.338809 GATGGAGGGTATGATGGGTCA 58.661 52.381 0.00 0.00 39.04 4.02
56 57 2.278657 TGGAGGGTATGATGGGTCAA 57.721 50.000 0.00 0.00 38.01 3.18
57 58 2.787956 TGGAGGGTATGATGGGTCAAT 58.212 47.619 0.00 0.00 38.01 2.57
58 59 2.442878 TGGAGGGTATGATGGGTCAATG 59.557 50.000 0.00 0.00 38.01 2.82
59 60 2.711009 GGAGGGTATGATGGGTCAATGA 59.289 50.000 0.00 0.00 38.01 2.57
60 61 3.496870 GGAGGGTATGATGGGTCAATGAC 60.497 52.174 4.51 4.51 38.01 3.06
61 62 3.122480 AGGGTATGATGGGTCAATGACA 58.878 45.455 15.86 0.00 38.01 3.58
62 63 3.117888 AGGGTATGATGGGTCAATGACAC 60.118 47.826 15.86 12.65 38.01 3.67
63 64 2.872245 GGTATGATGGGTCAATGACACG 59.128 50.000 15.86 0.00 39.08 4.49
64 65 2.042686 ATGATGGGTCAATGACACGG 57.957 50.000 15.86 0.00 39.08 4.94
65 66 0.980423 TGATGGGTCAATGACACGGA 59.020 50.000 15.86 0.00 39.08 4.69
66 67 1.338674 TGATGGGTCAATGACACGGAC 60.339 52.381 15.86 7.53 39.08 4.79
67 68 0.984230 ATGGGTCAATGACACGGACT 59.016 50.000 15.86 0.00 39.08 3.85
68 69 0.034756 TGGGTCAATGACACGGACTG 59.965 55.000 15.86 0.00 39.08 3.51
69 70 0.034896 GGGTCAATGACACGGACTGT 59.965 55.000 15.86 0.00 33.68 3.55
70 71 1.542547 GGGTCAATGACACGGACTGTT 60.543 52.381 15.86 0.00 33.68 3.16
71 72 2.218603 GGTCAATGACACGGACTGTTT 58.781 47.619 15.86 0.00 33.68 2.83
72 73 2.616842 GGTCAATGACACGGACTGTTTT 59.383 45.455 15.86 0.00 33.68 2.43
73 74 3.810941 GGTCAATGACACGGACTGTTTTA 59.189 43.478 15.86 0.00 33.68 1.52
74 75 4.454504 GGTCAATGACACGGACTGTTTTAT 59.545 41.667 15.86 0.00 33.68 1.40
75 76 5.390567 GGTCAATGACACGGACTGTTTTATC 60.391 44.000 15.86 0.00 33.68 1.75
76 77 5.178623 GTCAATGACACGGACTGTTTTATCA 59.821 40.000 8.74 0.00 31.03 2.15
77 78 5.408299 TCAATGACACGGACTGTTTTATCAG 59.592 40.000 0.00 0.00 40.80 2.90
78 79 3.064207 TGACACGGACTGTTTTATCAGC 58.936 45.455 0.00 0.00 38.84 4.26
79 80 3.064207 GACACGGACTGTTTTATCAGCA 58.936 45.455 0.00 0.00 38.84 4.41
80 81 3.472652 ACACGGACTGTTTTATCAGCAA 58.527 40.909 0.00 0.00 38.84 3.91
81 82 3.880490 ACACGGACTGTTTTATCAGCAAA 59.120 39.130 0.00 0.00 38.84 3.68
82 83 4.336993 ACACGGACTGTTTTATCAGCAAAA 59.663 37.500 0.00 0.00 38.84 2.44
83 84 5.163602 ACACGGACTGTTTTATCAGCAAAAA 60.164 36.000 0.00 0.00 38.84 1.94
105 106 8.688747 AAAAATCACATTAAAGATGCCCAAAA 57.311 26.923 0.00 0.00 0.00 2.44
106 107 7.671495 AAATCACATTAAAGATGCCCAAAAC 57.329 32.000 0.00 0.00 0.00 2.43
107 108 5.146010 TCACATTAAAGATGCCCAAAACC 57.854 39.130 0.00 0.00 0.00 3.27
108 109 4.590647 TCACATTAAAGATGCCCAAAACCA 59.409 37.500 0.00 0.00 0.00 3.67
109 110 5.070981 TCACATTAAAGATGCCCAAAACCAA 59.929 36.000 0.00 0.00 0.00 3.67
110 111 5.762218 CACATTAAAGATGCCCAAAACCAAA 59.238 36.000 0.00 0.00 0.00 3.28
111 112 6.430616 CACATTAAAGATGCCCAAAACCAAAT 59.569 34.615 0.00 0.00 0.00 2.32
112 113 6.654582 ACATTAAAGATGCCCAAAACCAAATC 59.345 34.615 0.00 0.00 0.00 2.17
113 114 3.701205 AAGATGCCCAAAACCAAATCC 57.299 42.857 0.00 0.00 0.00 3.01
114 115 1.908619 AGATGCCCAAAACCAAATCCC 59.091 47.619 0.00 0.00 0.00 3.85
115 116 1.908619 GATGCCCAAAACCAAATCCCT 59.091 47.619 0.00 0.00 0.00 4.20
116 117 1.055040 TGCCCAAAACCAAATCCCTG 58.945 50.000 0.00 0.00 0.00 4.45
117 118 1.347062 GCCCAAAACCAAATCCCTGA 58.653 50.000 0.00 0.00 0.00 3.86
118 119 1.696884 GCCCAAAACCAAATCCCTGAA 59.303 47.619 0.00 0.00 0.00 3.02
119 120 2.105649 GCCCAAAACCAAATCCCTGAAA 59.894 45.455 0.00 0.00 0.00 2.69
120 121 3.244875 GCCCAAAACCAAATCCCTGAAAT 60.245 43.478 0.00 0.00 0.00 2.17
121 122 4.749476 GCCCAAAACCAAATCCCTGAAATT 60.749 41.667 0.00 0.00 0.00 1.82
122 123 5.384336 CCCAAAACCAAATCCCTGAAATTT 58.616 37.500 0.00 0.00 0.00 1.82
123 124 5.473162 CCCAAAACCAAATCCCTGAAATTTC 59.527 40.000 11.41 11.41 0.00 2.17
124 125 5.473162 CCAAAACCAAATCCCTGAAATTTCC 59.527 40.000 15.48 0.00 0.00 3.13
125 126 4.908601 AACCAAATCCCTGAAATTTCCC 57.091 40.909 15.48 0.00 0.00 3.97
126 127 4.146245 ACCAAATCCCTGAAATTTCCCT 57.854 40.909 15.48 0.00 0.00 4.20
127 128 4.096681 ACCAAATCCCTGAAATTTCCCTC 58.903 43.478 15.48 0.00 0.00 4.30
128 129 4.202825 ACCAAATCCCTGAAATTTCCCTCT 60.203 41.667 15.48 0.00 0.00 3.69
129 130 4.403752 CCAAATCCCTGAAATTTCCCTCTC 59.596 45.833 15.48 0.00 0.00 3.20
130 131 5.267587 CAAATCCCTGAAATTTCCCTCTCT 58.732 41.667 15.48 0.00 0.00 3.10
131 132 4.787135 ATCCCTGAAATTTCCCTCTCTC 57.213 45.455 15.48 0.00 0.00 3.20
132 133 3.808189 TCCCTGAAATTTCCCTCTCTCT 58.192 45.455 15.48 0.00 0.00 3.10
133 134 3.777522 TCCCTGAAATTTCCCTCTCTCTC 59.222 47.826 15.48 0.00 0.00 3.20
134 135 3.779738 CCCTGAAATTTCCCTCTCTCTCT 59.220 47.826 15.48 0.00 0.00 3.10
135 136 4.141733 CCCTGAAATTTCCCTCTCTCTCTC 60.142 50.000 15.48 0.00 0.00 3.20
136 137 4.716287 CCTGAAATTTCCCTCTCTCTCTCT 59.284 45.833 15.48 0.00 0.00 3.10
137 138 5.163416 CCTGAAATTTCCCTCTCTCTCTCTC 60.163 48.000 15.48 0.00 0.00 3.20
138 139 4.400884 TGAAATTTCCCTCTCTCTCTCTCG 59.599 45.833 15.48 0.00 0.00 4.04
139 140 1.757682 TTTCCCTCTCTCTCTCTCGC 58.242 55.000 0.00 0.00 0.00 5.03
140 141 0.916086 TTCCCTCTCTCTCTCTCGCT 59.084 55.000 0.00 0.00 0.00 4.93
141 142 0.180171 TCCCTCTCTCTCTCTCGCTG 59.820 60.000 0.00 0.00 0.00 5.18
142 143 1.447317 CCCTCTCTCTCTCTCGCTGC 61.447 65.000 0.00 0.00 0.00 5.25
143 144 0.747644 CCTCTCTCTCTCTCGCTGCA 60.748 60.000 0.00 0.00 0.00 4.41
144 145 1.311859 CTCTCTCTCTCTCGCTGCAT 58.688 55.000 0.00 0.00 0.00 3.96
155 156 0.723459 TCGCTGCATATACGTACGCG 60.723 55.000 16.72 3.53 44.93 6.01
157 158 1.272784 GCTGCATATACGTACGCGCA 61.273 55.000 16.72 14.81 42.83 6.09
191 192 3.590466 AACAGCCCATGCCACCTCC 62.590 63.158 0.00 0.00 38.69 4.30
209 211 0.833834 CCCCATGCCGGAGATCTACT 60.834 60.000 5.05 0.00 36.56 2.57
567 868 2.100991 GGGTGAGTACGTACGCCG 59.899 66.667 23.92 0.00 44.03 6.46
701 1031 0.618458 TAGTTGACCTGACCATGCCC 59.382 55.000 0.00 0.00 0.00 5.36
702 1032 1.136329 AGTTGACCTGACCATGCCCT 61.136 55.000 0.00 0.00 0.00 5.19
726 1056 2.289444 GCGCTGGCTCCTATTAATACCA 60.289 50.000 0.00 3.32 35.83 3.25
759 1090 3.034635 GCACTCCTCTCCTCCTTCATAA 58.965 50.000 0.00 0.00 0.00 1.90
760 1091 3.645687 GCACTCCTCTCCTCCTTCATAAT 59.354 47.826 0.00 0.00 0.00 1.28
761 1092 4.262420 GCACTCCTCTCCTCCTTCATAATC 60.262 50.000 0.00 0.00 0.00 1.75
762 1093 4.898265 CACTCCTCTCCTCCTTCATAATCA 59.102 45.833 0.00 0.00 0.00 2.57
763 1094 5.543405 CACTCCTCTCCTCCTTCATAATCAT 59.457 44.000 0.00 0.00 0.00 2.45
764 1095 6.723515 CACTCCTCTCCTCCTTCATAATCATA 59.276 42.308 0.00 0.00 0.00 2.15
782 1113 1.322538 TACCCCTCTCGGTAAACGGC 61.323 60.000 0.00 0.00 44.45 5.68
789 1120 3.718097 CGGTAAACGGCGCTTGCA 61.718 61.111 6.90 0.00 41.71 4.08
806 1137 3.474570 AGCAGCCGATCCCTCCAC 61.475 66.667 0.00 0.00 0.00 4.02
808 1139 3.866582 CAGCCGATCCCTCCACCC 61.867 72.222 0.00 0.00 0.00 4.61
813 1144 3.480133 GATCCCTCCACCCACCCG 61.480 72.222 0.00 0.00 0.00 5.28
866 1202 2.427095 GCTTCTTGTGTTGGTTCCACTT 59.573 45.455 0.00 0.00 33.92 3.16
869 1205 2.025793 TCTTGTGTTGGTTCCACTTCCA 60.026 45.455 0.00 0.00 33.92 3.53
870 1206 1.757682 TGTGTTGGTTCCACTTCCAC 58.242 50.000 0.00 0.00 33.92 4.02
871 1207 1.283613 TGTGTTGGTTCCACTTCCACT 59.716 47.619 0.00 0.00 33.92 4.00
873 1209 0.668535 GTTGGTTCCACTTCCACTGC 59.331 55.000 0.00 0.00 33.12 4.40
874 1210 0.550914 TTGGTTCCACTTCCACTGCT 59.449 50.000 0.00 0.00 33.12 4.24
876 1212 0.179018 GGTTCCACTTCCACTGCTGT 60.179 55.000 0.00 0.00 0.00 4.40
878 1214 0.819259 TTCCACTTCCACTGCTGTGC 60.819 55.000 17.57 0.00 42.54 4.57
879 1215 2.610694 CCACTTCCACTGCTGTGCG 61.611 63.158 17.57 11.17 42.54 5.34
916 1252 3.827898 CAGCCGTCGGTCCTCTCC 61.828 72.222 13.94 0.00 0.00 3.71
920 1256 1.820481 CCGTCGGTCCTCTCCTCTC 60.820 68.421 2.08 0.00 0.00 3.20
921 1257 1.222387 CGTCGGTCCTCTCCTCTCT 59.778 63.158 0.00 0.00 0.00 3.10
922 1258 0.393267 CGTCGGTCCTCTCCTCTCTT 60.393 60.000 0.00 0.00 0.00 2.85
923 1259 1.385528 GTCGGTCCTCTCCTCTCTTC 58.614 60.000 0.00 0.00 0.00 2.87
924 1260 1.064979 GTCGGTCCTCTCCTCTCTTCT 60.065 57.143 0.00 0.00 0.00 2.85
937 1273 0.383949 CTCTTCTAGCTCCTGCCGAC 59.616 60.000 0.00 0.00 40.80 4.79
943 1279 2.626255 TAGCTCCTGCCGACCGATCT 62.626 60.000 0.00 0.00 40.80 2.75
1087 1427 1.645704 GCTCGTGCTCGACTACCTGA 61.646 60.000 6.80 0.00 41.35 3.86
1101 1444 3.700109 CTGACCAGGAAGCTCGGA 58.300 61.111 0.00 0.00 0.00 4.55
1266 1631 3.663176 ACCAGCATGCGTGTGTGC 61.663 61.111 13.01 0.00 41.57 4.57
1267 1632 4.409218 CCAGCATGCGTGTGTGCC 62.409 66.667 13.01 0.00 42.20 5.01
1268 1633 3.359523 CAGCATGCGTGTGTGCCT 61.360 61.111 13.01 0.00 42.20 4.75
1269 1634 2.034317 CAGCATGCGTGTGTGCCTA 61.034 57.895 13.01 0.00 42.20 3.93
1270 1635 1.302431 AGCATGCGTGTGTGCCTAA 60.302 52.632 13.01 0.00 42.20 2.69
1271 1636 1.154225 GCATGCGTGTGTGCCTAAC 60.154 57.895 0.00 0.00 35.35 2.34
1272 1637 1.577328 GCATGCGTGTGTGCCTAACT 61.577 55.000 0.00 0.00 35.35 2.24
1273 1638 0.166597 CATGCGTGTGTGCCTAACTG 59.833 55.000 0.00 0.00 0.00 3.16
1274 1639 1.577328 ATGCGTGTGTGCCTAACTGC 61.577 55.000 0.00 0.00 0.00 4.40
1292 1657 4.132336 ACTGCCTATATGCTTGTGTGATG 58.868 43.478 1.58 0.00 0.00 3.07
1353 1728 1.751351 CATGAGTACTTCGCTCCCTGA 59.249 52.381 0.00 0.00 32.31 3.86
1370 1745 6.179906 TCCCTGAGGATGATTTATCTGTTC 57.820 41.667 0.00 0.00 37.19 3.18
1455 1836 3.010808 TGACGTCCCAAATCCCCTTAAAT 59.989 43.478 14.12 0.00 0.00 1.40
1640 2059 2.675767 GCGTATGCATGATTGTCCAG 57.324 50.000 10.16 0.00 42.15 3.86
1776 2205 6.064060 TCCAGCCTATTAATTCCATGAACAG 58.936 40.000 0.00 0.00 0.00 3.16
1845 2278 2.128771 TCCAAATCTAAGGTGGCTGC 57.871 50.000 0.00 0.00 32.10 5.25
2066 2541 6.758806 TTCCCCCTCTTTATATGTCCTAAC 57.241 41.667 0.00 0.00 0.00 2.34
2144 2629 8.258007 TGAGATCACCACCAAATTAACTAGTAG 58.742 37.037 0.00 0.00 0.00 2.57
2145 2630 8.375493 AGATCACCACCAAATTAACTAGTAGA 57.625 34.615 3.59 0.00 0.00 2.59
2192 2709 8.430801 AGAGATCAAATTCTTGCACAGTATAC 57.569 34.615 0.00 0.00 32.14 1.47
2307 2824 1.005630 GCACGTCTTGTCTGCCTCT 60.006 57.895 0.00 0.00 0.00 3.69
2308 2825 1.011451 GCACGTCTTGTCTGCCTCTC 61.011 60.000 0.00 0.00 0.00 3.20
2327 2846 1.452108 CATCCTTGTCGCCTTCCCC 60.452 63.158 0.00 0.00 0.00 4.81
2494 3013 6.301169 TGGGGACAAACTTAACACAAAAAT 57.699 33.333 0.00 0.00 37.44 1.82
2626 3147 3.190878 GCAAGATGCCTTCCCGTG 58.809 61.111 0.00 0.00 37.42 4.94
2825 3351 5.987347 CACAGTACATCATAGATGCACATCA 59.013 40.000 12.87 0.15 40.22 3.07
3080 3617 3.838565 TGTTGGCATGAGAAAAACCCTA 58.161 40.909 0.00 0.00 0.00 3.53
3354 3913 4.915667 GCACACAAACTATATATCTCGCGA 59.084 41.667 9.26 9.26 0.00 5.87
3355 3914 5.164177 GCACACAAACTATATATCTCGCGAC 60.164 44.000 3.71 0.00 0.00 5.19
3380 3941 1.665137 TTAAGGAAGGGAGGGGACAC 58.335 55.000 0.00 0.00 0.00 3.67
3393 3954 3.888930 GAGGGGACACTGAAAATGAAACA 59.111 43.478 0.00 0.00 0.00 2.83
3402 3963 9.334693 GACACTGAAAATGAAACATAACAGATC 57.665 33.333 0.00 0.00 0.00 2.75
3555 4116 3.638160 GTGGATAATGTAGTACCACCCGA 59.362 47.826 0.00 0.00 43.29 5.14
3570 4131 3.123804 CACCCGACAGCTCATTATACAC 58.876 50.000 0.00 0.00 0.00 2.90
3638 4212 5.391312 AGAATTCAAGCGCCAAAATAACT 57.609 34.783 2.29 2.42 0.00 2.24
3644 4218 4.098416 CAAGCGCCAAAATAACTAGCTTC 58.902 43.478 2.29 0.00 40.86 3.86
3675 4271 7.290110 AGCCCTTAATTTGTGATAATTAGGC 57.710 36.000 0.00 0.00 39.36 3.93
3739 4415 8.824781 TGTGGTTTGTTCATGATTTTAATTGTG 58.175 29.630 0.00 0.00 0.00 3.33
3776 4465 5.180271 GGTTCCGTTGTACTTGATCCATTA 58.820 41.667 0.00 0.00 0.00 1.90
3816 4505 2.130395 CTCATGCCAGCTACGTACATG 58.870 52.381 13.97 13.97 39.53 3.21
3938 4853 9.388506 ACTCACTTATTTTCCAGTCTAATGATG 57.611 33.333 0.00 0.00 0.00 3.07
4312 5235 0.971386 CCAGGTTTGAGCAAGGCAAT 59.029 50.000 0.00 0.00 0.00 3.56
4378 5301 3.362706 TGGGTTCGAGTACTTAGCTGAT 58.637 45.455 0.00 0.00 0.00 2.90
4738 5665 9.628746 AACATAAATTTTGGTGGTTCGTATTAC 57.371 29.630 0.00 0.00 0.00 1.89
4853 5782 0.594110 GAGACTAATCTCCCGCTCCG 59.406 60.000 0.00 0.00 45.06 4.63
4891 5820 2.758979 AGGGAGGTTATATATGTCGCCG 59.241 50.000 0.00 0.00 0.00 6.46
4913 5842 5.389516 CCGTCCACTTGTTTATCTTTCTTCG 60.390 44.000 0.00 0.00 0.00 3.79
4970 5899 0.108377 CCTGTTTTAATTGGGCCCGC 60.108 55.000 19.37 0.00 0.00 6.13
4977 5906 1.858739 TAATTGGGCCCGCTCCAAGT 61.859 55.000 19.37 7.18 46.05 3.16
4995 5924 7.003402 TCCAAGTTTCCAATAAATCAAAGGG 57.997 36.000 0.00 0.00 0.00 3.95
5022 5951 8.603181 GCAACTGCCCATTTTAAATTACTATTG 58.397 33.333 0.00 0.00 34.31 1.90
5096 6025 6.279882 CCTTTGACCTGAATTTGCAGTTTTA 58.720 36.000 0.00 0.00 34.06 1.52
5119 6048 6.575162 ACCAAGGAATTAAGCAGTAAACAG 57.425 37.500 0.00 0.00 0.00 3.16
5123 6052 7.809806 CCAAGGAATTAAGCAGTAAACAGAAAG 59.190 37.037 0.00 0.00 0.00 2.62
5125 6054 8.100508 AGGAATTAAGCAGTAAACAGAAAGTC 57.899 34.615 0.00 0.00 0.00 3.01
5126 6055 7.939588 AGGAATTAAGCAGTAAACAGAAAGTCT 59.060 33.333 0.00 0.00 0.00 3.24
5254 6183 5.754890 CCTTTCCATGTGGACAAAAAGAAAG 59.245 40.000 11.12 12.01 45.39 2.62
5258 6187 5.067674 TCCATGTGGACAAAAAGAAAGACAG 59.932 40.000 0.00 0.00 39.78 3.51
5266 6195 6.747739 GGACAAAAAGAAAGACAGACAAAGTC 59.252 38.462 0.00 0.00 36.26 3.01
5272 6201 5.858381 AGAAAGACAGACAAAGTCATAGCA 58.142 37.500 0.00 0.00 38.46 3.49
5292 6221 5.376625 AGCACACAAGTGGAGATTCTTTAA 58.623 37.500 5.08 0.00 45.98 1.52
5386 6316 7.716560 TCAGTTAGTAACTTGAAAACCCCTAAC 59.283 37.037 13.00 0.00 40.46 2.34
5387 6317 7.718314 CAGTTAGTAACTTGAAAACCCCTAACT 59.282 37.037 13.00 0.00 42.25 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 9.707957 TCCCATATTAGTTGTTGTTAAATGGAT 57.292 29.630 0.00 0.00 34.57 3.41
11 12 9.707957 ATCCCATATTAGTTGTTGTTAAATGGA 57.292 29.630 0.00 0.00 34.57 3.41
12 13 9.748708 CATCCCATATTAGTTGTTGTTAAATGG 57.251 33.333 0.00 0.00 0.00 3.16
13 14 9.748708 CCATCCCATATTAGTTGTTGTTAAATG 57.251 33.333 0.00 0.00 0.00 2.32
14 15 9.707957 TCCATCCCATATTAGTTGTTGTTAAAT 57.292 29.630 0.00 0.00 0.00 1.40
15 16 9.184523 CTCCATCCCATATTAGTTGTTGTTAAA 57.815 33.333 0.00 0.00 0.00 1.52
16 17 7.777910 CCTCCATCCCATATTAGTTGTTGTTAA 59.222 37.037 0.00 0.00 0.00 2.01
17 18 7.287061 CCTCCATCCCATATTAGTTGTTGTTA 58.713 38.462 0.00 0.00 0.00 2.41
18 19 6.129179 CCTCCATCCCATATTAGTTGTTGTT 58.871 40.000 0.00 0.00 0.00 2.83
19 20 5.399038 CCCTCCATCCCATATTAGTTGTTGT 60.399 44.000 0.00 0.00 0.00 3.32
20 21 5.072741 CCCTCCATCCCATATTAGTTGTTG 58.927 45.833 0.00 0.00 0.00 3.33
21 22 4.731929 ACCCTCCATCCCATATTAGTTGTT 59.268 41.667 0.00 0.00 0.00 2.83
22 23 4.315993 ACCCTCCATCCCATATTAGTTGT 58.684 43.478 0.00 0.00 0.00 3.32
23 24 6.215431 TCATACCCTCCATCCCATATTAGTTG 59.785 42.308 0.00 0.00 0.00 3.16
24 25 6.339220 TCATACCCTCCATCCCATATTAGTT 58.661 40.000 0.00 0.00 0.00 2.24
25 26 5.927465 TCATACCCTCCATCCCATATTAGT 58.073 41.667 0.00 0.00 0.00 2.24
26 27 6.183361 CCATCATACCCTCCATCCCATATTAG 60.183 46.154 0.00 0.00 0.00 1.73
27 28 5.671735 CCATCATACCCTCCATCCCATATTA 59.328 44.000 0.00 0.00 0.00 0.98
28 29 4.479796 CCATCATACCCTCCATCCCATATT 59.520 45.833 0.00 0.00 0.00 1.28
29 30 4.050037 CCATCATACCCTCCATCCCATAT 58.950 47.826 0.00 0.00 0.00 1.78
30 31 3.463825 CCATCATACCCTCCATCCCATA 58.536 50.000 0.00 0.00 0.00 2.74
31 32 2.281966 CCATCATACCCTCCATCCCAT 58.718 52.381 0.00 0.00 0.00 4.00
32 33 1.746157 CCATCATACCCTCCATCCCA 58.254 55.000 0.00 0.00 0.00 4.37
33 34 0.995024 CCCATCATACCCTCCATCCC 59.005 60.000 0.00 0.00 0.00 3.85
34 35 1.630878 GACCCATCATACCCTCCATCC 59.369 57.143 0.00 0.00 0.00 3.51
35 36 2.338809 TGACCCATCATACCCTCCATC 58.661 52.381 0.00 0.00 0.00 3.51
36 37 2.512910 TGACCCATCATACCCTCCAT 57.487 50.000 0.00 0.00 0.00 3.41
37 38 2.278657 TTGACCCATCATACCCTCCA 57.721 50.000 0.00 0.00 33.85 3.86
38 39 2.711009 TCATTGACCCATCATACCCTCC 59.289 50.000 0.00 0.00 33.85 4.30
39 40 3.136443 TGTCATTGACCCATCATACCCTC 59.864 47.826 14.05 0.00 33.85 4.30
40 41 3.117888 GTGTCATTGACCCATCATACCCT 60.118 47.826 14.05 0.00 33.85 4.34
41 42 3.214328 GTGTCATTGACCCATCATACCC 58.786 50.000 14.05 0.00 33.85 3.69
42 43 2.872245 CGTGTCATTGACCCATCATACC 59.128 50.000 14.05 0.00 33.85 2.73
43 44 2.872245 CCGTGTCATTGACCCATCATAC 59.128 50.000 14.05 3.14 33.85 2.39
44 45 2.769095 TCCGTGTCATTGACCCATCATA 59.231 45.455 14.05 0.00 33.85 2.15
45 46 1.559219 TCCGTGTCATTGACCCATCAT 59.441 47.619 14.05 0.00 33.85 2.45
46 47 0.980423 TCCGTGTCATTGACCCATCA 59.020 50.000 14.05 0.00 0.00 3.07
47 48 1.066143 AGTCCGTGTCATTGACCCATC 60.066 52.381 14.05 2.18 0.00 3.51
48 49 0.984230 AGTCCGTGTCATTGACCCAT 59.016 50.000 14.05 0.00 0.00 4.00
49 50 0.034756 CAGTCCGTGTCATTGACCCA 59.965 55.000 14.05 0.00 0.00 4.51
50 51 0.034896 ACAGTCCGTGTCATTGACCC 59.965 55.000 14.05 1.59 31.90 4.46
51 52 1.878953 AACAGTCCGTGTCATTGACC 58.121 50.000 14.05 5.00 39.03 4.02
52 53 3.963383 AAAACAGTCCGTGTCATTGAC 57.037 42.857 9.93 9.93 39.03 3.18
53 54 5.301555 TGATAAAACAGTCCGTGTCATTGA 58.698 37.500 0.00 0.00 39.03 2.57
54 55 5.605564 TGATAAAACAGTCCGTGTCATTG 57.394 39.130 0.00 0.00 39.03 2.82
55 56 4.154195 GCTGATAAAACAGTCCGTGTCATT 59.846 41.667 0.00 0.00 39.03 2.57
56 57 3.684788 GCTGATAAAACAGTCCGTGTCAT 59.315 43.478 0.00 0.00 39.03 3.06
57 58 3.064207 GCTGATAAAACAGTCCGTGTCA 58.936 45.455 0.00 0.00 39.03 3.58
58 59 3.064207 TGCTGATAAAACAGTCCGTGTC 58.936 45.455 0.00 0.00 39.03 3.67
59 60 3.120321 TGCTGATAAAACAGTCCGTGT 57.880 42.857 0.00 0.00 43.24 4.49
60 61 4.481930 TTTGCTGATAAAACAGTCCGTG 57.518 40.909 0.00 0.00 39.73 4.94
61 62 5.508200 TTTTTGCTGATAAAACAGTCCGT 57.492 34.783 0.00 0.00 39.73 4.69
80 81 8.567104 GTTTTGGGCATCTTTAATGTGATTTTT 58.433 29.630 0.00 0.00 0.00 1.94
81 82 7.174772 GGTTTTGGGCATCTTTAATGTGATTTT 59.825 33.333 0.00 0.00 0.00 1.82
82 83 6.654582 GGTTTTGGGCATCTTTAATGTGATTT 59.345 34.615 0.00 0.00 0.00 2.17
83 84 6.172630 GGTTTTGGGCATCTTTAATGTGATT 58.827 36.000 0.00 0.00 0.00 2.57
84 85 5.248020 TGGTTTTGGGCATCTTTAATGTGAT 59.752 36.000 0.00 0.00 0.00 3.06
85 86 4.590647 TGGTTTTGGGCATCTTTAATGTGA 59.409 37.500 0.00 0.00 0.00 3.58
86 87 4.892433 TGGTTTTGGGCATCTTTAATGTG 58.108 39.130 0.00 0.00 0.00 3.21
87 88 5.559148 TTGGTTTTGGGCATCTTTAATGT 57.441 34.783 0.00 0.00 0.00 2.71
88 89 6.093909 GGATTTGGTTTTGGGCATCTTTAATG 59.906 38.462 0.00 0.00 0.00 1.90
89 90 6.179756 GGATTTGGTTTTGGGCATCTTTAAT 58.820 36.000 0.00 0.00 0.00 1.40
90 91 5.513962 GGGATTTGGTTTTGGGCATCTTTAA 60.514 40.000 0.00 0.00 0.00 1.52
91 92 4.019771 GGGATTTGGTTTTGGGCATCTTTA 60.020 41.667 0.00 0.00 0.00 1.85
92 93 3.244875 GGGATTTGGTTTTGGGCATCTTT 60.245 43.478 0.00 0.00 0.00 2.52
93 94 2.305635 GGGATTTGGTTTTGGGCATCTT 59.694 45.455 0.00 0.00 0.00 2.40
94 95 1.908619 GGGATTTGGTTTTGGGCATCT 59.091 47.619 0.00 0.00 0.00 2.90
95 96 1.908619 AGGGATTTGGTTTTGGGCATC 59.091 47.619 0.00 0.00 0.00 3.91
96 97 1.629861 CAGGGATTTGGTTTTGGGCAT 59.370 47.619 0.00 0.00 0.00 4.40
97 98 1.055040 CAGGGATTTGGTTTTGGGCA 58.945 50.000 0.00 0.00 0.00 5.36
98 99 1.347062 TCAGGGATTTGGTTTTGGGC 58.653 50.000 0.00 0.00 0.00 5.36
99 100 4.639078 ATTTCAGGGATTTGGTTTTGGG 57.361 40.909 0.00 0.00 0.00 4.12
100 101 5.473162 GGAAATTTCAGGGATTTGGTTTTGG 59.527 40.000 19.49 0.00 0.00 3.28
101 102 5.473162 GGGAAATTTCAGGGATTTGGTTTTG 59.527 40.000 19.49 0.00 0.00 2.44
102 103 5.372363 AGGGAAATTTCAGGGATTTGGTTTT 59.628 36.000 19.49 0.00 0.00 2.43
103 104 4.913355 AGGGAAATTTCAGGGATTTGGTTT 59.087 37.500 19.49 0.00 0.00 3.27
104 105 4.502415 AGGGAAATTTCAGGGATTTGGTT 58.498 39.130 19.49 0.00 0.00 3.67
105 106 4.096681 GAGGGAAATTTCAGGGATTTGGT 58.903 43.478 19.49 0.00 0.00 3.67
106 107 4.356436 AGAGGGAAATTTCAGGGATTTGG 58.644 43.478 19.49 0.00 0.00 3.28
107 108 5.267587 AGAGAGGGAAATTTCAGGGATTTG 58.732 41.667 19.49 0.00 0.00 2.32
108 109 5.254972 AGAGAGAGGGAAATTTCAGGGATTT 59.745 40.000 19.49 0.00 0.00 2.17
109 110 4.792972 AGAGAGAGGGAAATTTCAGGGATT 59.207 41.667 19.49 1.32 0.00 3.01
110 111 4.378961 AGAGAGAGGGAAATTTCAGGGAT 58.621 43.478 19.49 1.60 0.00 3.85
111 112 3.777522 GAGAGAGAGGGAAATTTCAGGGA 59.222 47.826 19.49 0.00 0.00 4.20
112 113 3.779738 AGAGAGAGAGGGAAATTTCAGGG 59.220 47.826 19.49 0.00 0.00 4.45
113 114 4.716287 AGAGAGAGAGAGGGAAATTTCAGG 59.284 45.833 19.49 0.00 0.00 3.86
114 115 5.450412 CGAGAGAGAGAGAGGGAAATTTCAG 60.450 48.000 19.49 0.00 0.00 3.02
115 116 4.400884 CGAGAGAGAGAGAGGGAAATTTCA 59.599 45.833 19.49 0.00 0.00 2.69
116 117 4.736464 GCGAGAGAGAGAGAGGGAAATTTC 60.736 50.000 9.83 9.83 0.00 2.17
117 118 3.132111 GCGAGAGAGAGAGAGGGAAATTT 59.868 47.826 0.00 0.00 0.00 1.82
118 119 2.693074 GCGAGAGAGAGAGAGGGAAATT 59.307 50.000 0.00 0.00 0.00 1.82
119 120 2.091885 AGCGAGAGAGAGAGAGGGAAAT 60.092 50.000 0.00 0.00 0.00 2.17
120 121 1.283613 AGCGAGAGAGAGAGAGGGAAA 59.716 52.381 0.00 0.00 0.00 3.13
121 122 0.916086 AGCGAGAGAGAGAGAGGGAA 59.084 55.000 0.00 0.00 0.00 3.97
122 123 0.180171 CAGCGAGAGAGAGAGAGGGA 59.820 60.000 0.00 0.00 0.00 4.20
123 124 1.447317 GCAGCGAGAGAGAGAGAGGG 61.447 65.000 0.00 0.00 0.00 4.30
124 125 0.747644 TGCAGCGAGAGAGAGAGAGG 60.748 60.000 0.00 0.00 0.00 3.69
125 126 1.311859 ATGCAGCGAGAGAGAGAGAG 58.688 55.000 0.00 0.00 0.00 3.20
126 127 2.629336 TATGCAGCGAGAGAGAGAGA 57.371 50.000 0.00 0.00 0.00 3.10
127 128 3.181521 CGTATATGCAGCGAGAGAGAGAG 60.182 52.174 0.00 0.00 0.00 3.20
128 129 2.739379 CGTATATGCAGCGAGAGAGAGA 59.261 50.000 0.00 0.00 0.00 3.10
129 130 2.482336 ACGTATATGCAGCGAGAGAGAG 59.518 50.000 9.19 0.00 0.00 3.20
130 131 2.495084 ACGTATATGCAGCGAGAGAGA 58.505 47.619 9.19 0.00 0.00 3.10
131 132 2.979401 ACGTATATGCAGCGAGAGAG 57.021 50.000 9.19 0.00 0.00 3.20
132 133 2.157085 CGTACGTATATGCAGCGAGAGA 59.843 50.000 7.22 0.00 0.00 3.10
133 134 2.496926 CGTACGTATATGCAGCGAGAG 58.503 52.381 7.22 0.00 0.00 3.20
134 135 1.399343 GCGTACGTATATGCAGCGAGA 60.399 52.381 17.90 0.00 42.13 4.04
135 136 0.975544 GCGTACGTATATGCAGCGAG 59.024 55.000 17.90 0.00 42.13 5.03
136 137 3.081741 GCGTACGTATATGCAGCGA 57.918 52.632 17.90 0.00 42.13 4.93
137 138 1.688848 CGCGTACGTATATGCAGCG 59.311 57.895 17.90 12.57 42.60 5.18
138 139 1.272784 TGCGCGTACGTATATGCAGC 61.273 55.000 17.90 15.67 42.60 5.25
139 140 0.429736 GTGCGCGTACGTATATGCAG 59.570 55.000 17.90 10.16 42.60 4.41
140 141 0.029700 AGTGCGCGTACGTATATGCA 59.970 50.000 21.51 15.56 42.60 3.96
141 142 1.126079 AAGTGCGCGTACGTATATGC 58.874 50.000 21.51 13.27 42.83 3.14
142 143 1.136992 GCAAGTGCGCGTACGTATATG 60.137 52.381 21.51 16.21 42.83 1.78
143 144 1.126079 GCAAGTGCGCGTACGTATAT 58.874 50.000 21.51 0.43 42.83 0.86
144 145 0.179169 TGCAAGTGCGCGTACGTATA 60.179 50.000 21.51 7.99 45.83 1.47
191 192 1.001406 GAAGTAGATCTCCGGCATGGG 59.999 57.143 0.00 0.00 38.76 4.00
209 211 1.601419 GACGGGGTGTGATCGGAGAA 61.601 60.000 0.00 0.00 43.58 2.87
518 548 2.885266 ACTTTTCCTTTTTCCTCTCGGC 59.115 45.455 0.00 0.00 0.00 5.54
529 559 3.497584 CCAGCTGGAGAGACTTTTCCTTT 60.498 47.826 29.88 0.00 37.39 3.11
530 560 2.039613 CCAGCTGGAGAGACTTTTCCTT 59.960 50.000 29.88 0.00 37.39 3.36
567 868 3.075884 ACTACGTATAGCTAGGCAGAGC 58.924 50.000 0.00 3.39 43.19 4.09
619 927 1.066587 GGCTACGGCTCTGCTACTG 59.933 63.158 0.00 0.00 38.73 2.74
701 1031 0.676184 TAATAGGAGCCAGCGCAGAG 59.324 55.000 11.47 0.00 37.52 3.35
702 1032 1.119684 TTAATAGGAGCCAGCGCAGA 58.880 50.000 11.47 0.00 37.52 4.26
726 1056 0.681564 AGGAGTGCGAGGAAGACGAT 60.682 55.000 0.00 0.00 0.00 3.73
789 1120 3.474570 GTGGAGGGATCGGCTGCT 61.475 66.667 0.00 0.00 0.00 4.24
794 1125 3.480133 GGTGGGTGGAGGGATCGG 61.480 72.222 0.00 0.00 0.00 4.18
873 1209 2.887568 GATCTCCACGGCGCACAG 60.888 66.667 10.83 1.82 0.00 3.66
874 1210 4.794439 CGATCTCCACGGCGCACA 62.794 66.667 10.83 0.00 0.00 4.57
916 1252 0.667993 CGGCAGGAGCTAGAAGAGAG 59.332 60.000 0.00 0.00 41.70 3.20
920 1256 1.439644 GGTCGGCAGGAGCTAGAAG 59.560 63.158 0.00 0.00 40.05 2.85
921 1257 2.415608 CGGTCGGCAGGAGCTAGAA 61.416 63.158 0.00 0.00 41.03 2.10
922 1258 2.626255 ATCGGTCGGCAGGAGCTAGA 62.626 60.000 0.00 0.00 41.03 2.43
923 1259 2.136196 GATCGGTCGGCAGGAGCTAG 62.136 65.000 0.00 0.00 41.03 3.42
924 1260 2.123854 ATCGGTCGGCAGGAGCTA 60.124 61.111 0.00 0.00 41.03 3.32
1087 1427 3.394836 GCCTCCGAGCTTCCTGGT 61.395 66.667 0.00 0.00 0.00 4.00
1266 1631 4.512944 CACACAAGCATATAGGCAGTTAGG 59.487 45.833 12.54 1.47 35.83 2.69
1267 1632 5.359756 TCACACAAGCATATAGGCAGTTAG 58.640 41.667 12.54 4.96 35.83 2.34
1268 1633 5.351948 TCACACAAGCATATAGGCAGTTA 57.648 39.130 12.54 0.00 35.83 2.24
1269 1634 4.220693 TCACACAAGCATATAGGCAGTT 57.779 40.909 12.54 0.00 35.83 3.16
1270 1635 3.912496 TCACACAAGCATATAGGCAGT 57.088 42.857 12.54 6.90 35.83 4.40
1271 1636 4.383173 TCATCACACAAGCATATAGGCAG 58.617 43.478 12.54 6.24 35.83 4.85
1272 1637 4.141642 ACTCATCACACAAGCATATAGGCA 60.142 41.667 12.54 0.00 35.83 4.75
1273 1638 4.384056 ACTCATCACACAAGCATATAGGC 58.616 43.478 0.00 0.00 0.00 3.93
1274 1639 6.286758 AGAACTCATCACACAAGCATATAGG 58.713 40.000 0.00 0.00 0.00 2.57
1370 1745 5.006746 CAGACGGGAGAAGGAAATTAAATCG 59.993 44.000 0.00 0.00 0.00 3.34
1473 1873 8.308931 TGTTAGTTCCGTCAAAAGATATACACT 58.691 33.333 0.00 0.00 0.00 3.55
1597 2007 7.272515 CGCACACGGACAAATAATTAATTTCTT 59.727 33.333 5.91 0.00 33.73 2.52
1640 2059 4.724074 TTTGATGCATGATTGAGAACCC 57.276 40.909 2.46 0.00 0.00 4.11
1776 2205 2.879026 AGCGGAAAGGAACAAAGAGAAC 59.121 45.455 0.00 0.00 0.00 3.01
2093 2571 6.092807 ACTCTGATATTTTCTTGCCTTTCGAC 59.907 38.462 0.00 0.00 0.00 4.20
2144 2629 6.096987 TCTCTCTCTCTCTCTCTCTACAGTTC 59.903 46.154 0.00 0.00 0.00 3.01
2145 2630 5.958380 TCTCTCTCTCTCTCTCTCTACAGTT 59.042 44.000 0.00 0.00 0.00 3.16
2289 2806 1.005630 AGAGGCAGACAAGACGTGC 60.006 57.895 0.00 0.00 36.42 5.34
2307 2824 1.602237 GGAAGGCGACAAGGATGGA 59.398 57.895 0.00 0.00 0.00 3.41
2308 2825 1.452108 GGGAAGGCGACAAGGATGG 60.452 63.158 0.00 0.00 0.00 3.51
2327 2846 6.270927 TGAGAATATCCTTCTGTTATGGGGAG 59.729 42.308 0.00 0.00 0.00 4.30
2494 3013 2.436109 GCAAGGTGGAAGGCCTCA 59.564 61.111 5.23 0.00 34.81 3.86
2725 3247 5.129650 AGAGAAAGTCCTAACATTAGAGCCC 59.870 44.000 0.00 0.00 32.47 5.19
2892 3429 6.460676 GCAATTTCTGAATACAATCAGGGAGG 60.461 42.308 4.63 0.00 45.55 4.30
3038 3575 1.182667 GCAACCCTTTCCGGCTTATT 58.817 50.000 0.00 0.00 0.00 1.40
3059 3596 2.676748 AGGGTTTTTCTCATGCCAACA 58.323 42.857 0.00 0.00 0.00 3.33
3080 3617 2.093235 GGCTCTGCCTTGATAGAACACT 60.093 50.000 0.73 0.00 46.69 3.55
3553 4114 2.459934 TGCGTGTATAATGAGCTGTCG 58.540 47.619 0.00 0.00 0.00 4.35
3555 4116 2.545526 GCATGCGTGTATAATGAGCTGT 59.454 45.455 0.00 0.00 0.00 4.40
3570 4131 1.065102 CTTGAATTGAGAGGGCATGCG 59.935 52.381 12.44 0.00 0.00 4.73
3638 4212 8.326529 ACAAATTAAGGGCTAGTTAAGAAGCTA 58.673 33.333 8.46 0.00 38.80 3.32
3739 4415 1.526225 GAACCGGCCTGGCTAATCC 60.526 63.158 19.68 0.00 43.94 3.01
3816 4505 5.271598 AGAGACCAGATCATCCTCATATCC 58.728 45.833 0.00 0.00 0.00 2.59
4312 5235 3.706373 GGCGCCTCCCTCTTCACA 61.706 66.667 22.15 0.00 0.00 3.58
4516 5442 9.504708 AGTACTACTAGCTATATACCACAACTG 57.495 37.037 0.00 0.00 0.00 3.16
4645 5572 9.462606 AAATTTTTCCTTCTTATCCATAGTCGT 57.537 29.630 0.00 0.00 0.00 4.34
4661 5588 8.548877 TCTAGCACCAGATACTAAATTTTTCCT 58.451 33.333 0.00 0.00 0.00 3.36
4709 5636 6.574350 ACGAACCACCAAAATTTATGTTTCA 58.426 32.000 0.00 0.00 0.00 2.69
4713 5640 8.794553 TGTAATACGAACCACCAAAATTTATGT 58.205 29.630 0.00 0.00 0.00 2.29
4725 5652 7.705214 AGAGTAGATTCTGTAATACGAACCAC 58.295 38.462 0.00 1.30 0.00 4.16
4738 5665 7.493971 CCCAACAGACAAATAGAGTAGATTCTG 59.506 40.741 0.00 0.00 0.00 3.02
4756 5683 2.435372 ACACAAGAAAGCCCAACAGA 57.565 45.000 0.00 0.00 0.00 3.41
4819 5746 9.915629 GAGATTAGTCTCGAATGTATAACCATT 57.084 33.333 0.00 0.00 41.35 3.16
4891 5820 5.469084 ACCGAAGAAAGATAAACAAGTGGAC 59.531 40.000 0.00 0.00 0.00 4.02
4952 5881 0.894835 AGCGGGCCCAATTAAAACAG 59.105 50.000 24.92 1.45 0.00 3.16
4963 5892 3.062466 GAAACTTGGAGCGGGCCC 61.062 66.667 13.57 13.57 0.00 5.80
4970 5899 7.099120 CCCTTTGATTTATTGGAAACTTGGAG 58.901 38.462 0.00 0.00 0.00 3.86
4977 5906 5.309282 AGTTGCCCCTTTGATTTATTGGAAA 59.691 36.000 0.00 0.00 0.00 3.13
5022 5951 2.570135 GGGCTGATCTGAGAAATGTCC 58.430 52.381 3.42 0.00 0.00 4.02
5053 5982 0.811281 GCCCAGTAGAAACCACATGC 59.189 55.000 0.00 0.00 0.00 4.06
5096 6025 6.303839 TCTGTTTACTGCTTAATTCCTTGGT 58.696 36.000 0.00 0.00 0.00 3.67
5119 6048 7.697691 TGATCTGACTTTTCAAACAGACTTTC 58.302 34.615 0.00 0.00 41.16 2.62
5123 6052 9.950680 TTTAATGATCTGACTTTTCAAACAGAC 57.049 29.630 0.00 0.00 41.16 3.51
5185 6114 9.891828 GCATCGGATAAACATTTAATTCATGTA 57.108 29.630 4.10 0.00 33.54 2.29
5188 6117 9.248291 GTTGCATCGGATAAACATTTAATTCAT 57.752 29.630 9.61 0.00 0.00 2.57
5254 6183 4.058124 TGTGTGCTATGACTTTGTCTGTC 58.942 43.478 0.00 0.00 33.15 3.51
5258 6187 4.319766 CCACTTGTGTGCTATGACTTTGTC 60.320 45.833 0.00 0.00 42.54 3.18
5266 6195 4.511527 AGAATCTCCACTTGTGTGCTATG 58.488 43.478 0.00 0.00 42.54 2.23
5292 6221 9.747898 TCCCTTTCACGGCATATAAATATATTT 57.252 29.630 14.86 14.86 0.00 1.40
5386 6316 6.420604 GTCCACATGTTGGTGTTTGAAATTAG 59.579 38.462 0.00 0.00 46.97 1.73
5387 6317 6.276847 GTCCACATGTTGGTGTTTGAAATTA 58.723 36.000 0.00 0.00 46.97 1.40


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

AutoCloner maintained by Alex Coulton.