Multiple sequence alignment - TraesCS2D01G329100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


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

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G329100 chr2D 100.000 2522 0 0 1 2522 422201961 422204482 0.000000e+00 4658.0
1 TraesCS2D01G329100 chr2D 90.972 144 11 2 1 142 537440188 537440331 2.560000e-45 193.0
2 TraesCS2D01G329100 chr2B 95.280 1377 54 6 1154 2522 494860303 494861676 0.000000e+00 2172.0
3 TraesCS2D01G329100 chr2B 91.182 1032 46 13 141 1152 494859334 494860340 0.000000e+00 1360.0
4 TraesCS2D01G329100 chr2A 93.952 1389 60 9 1154 2522 568483806 568485190 0.000000e+00 2078.0
5 TraesCS2D01G329100 chr2A 89.195 944 53 24 232 1153 568482928 568483844 0.000000e+00 1133.0
6 TraesCS2D01G329100 chr2A 88.679 53 6 0 175 227 568482854 568482906 5.820000e-07 65.8
7 TraesCS2D01G329100 chr7D 88.298 188 22 0 2335 2522 561566449 561566636 2.520000e-55 226.0
8 TraesCS2D01G329100 chr7B 84.862 218 22 9 2113 2328 202165028 202164820 2.540000e-50 209.0
9 TraesCS2D01G329100 chr7B 93.056 144 8 2 1 142 645602437 645602294 2.540000e-50 209.0
10 TraesCS2D01G329100 chr7B 85.083 181 25 2 2336 2514 609914387 609914567 1.540000e-42 183.0
11 TraesCS2D01G329100 chr7B 84.892 139 18 2 2336 2472 610088088 610088225 1.220000e-28 137.0
12 TraesCS2D01G329100 chr4B 92.000 150 10 2 1 148 652820765 652820914 2.540000e-50 209.0
13 TraesCS2D01G329100 chr5D 91.667 144 10 2 1 142 446272189 446272046 5.500000e-47 198.0
14 TraesCS2D01G329100 chr5D 90.278 144 12 2 1 142 369292965 369293108 1.190000e-43 187.0
15 TraesCS2D01G329100 chr5D 90.278 144 12 2 1 142 444353976 444353833 1.190000e-43 187.0
16 TraesCS2D01G329100 chr6D 85.635 181 24 1 2344 2522 417900672 417900852 3.310000e-44 189.0
17 TraesCS2D01G329100 chr6D 90.278 144 12 2 1 142 411471801 411471658 1.190000e-43 187.0
18 TraesCS2D01G329100 chr7A 90.278 144 12 2 1 142 91638075 91637932 1.190000e-43 187.0
19 TraesCS2D01G329100 chr6A 90.278 144 12 2 1 142 70956723 70956866 1.190000e-43 187.0
20 TraesCS2D01G329100 chr4D 84.293 191 25 5 2336 2522 466023174 466023363 5.540000e-42 182.0
21 TraesCS2D01G329100 chr3A 82.447 188 30 3 2336 2521 568032511 568032325 7.220000e-36 161.0
22 TraesCS2D01G329100 chr5B 80.240 167 27 4 2359 2522 402745278 402745115 1.230000e-23 121.0


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 TraesCS2D01G329100 chr2D 422201961 422204482 2521 False 4658.000000 4658 100.000000 1 2522 1 chr2D.!!$F1 2521
1 TraesCS2D01G329100 chr2B 494859334 494861676 2342 False 1766.000000 2172 93.231000 141 2522 2 chr2B.!!$F1 2381
2 TraesCS2D01G329100 chr2A 568482854 568485190 2336 False 1092.266667 2078 90.608667 175 2522 3 chr2A.!!$F1 2347

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
879 913 0.471971 TCCCTAGACCCCATGCTAGC 60.472 60.0 8.1 8.1 34.22 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2431 2502 0.329596 AAAGGGCGAGCCTCAAGAAT 59.67 50.0 14.33 0.0 36.1 2.4 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
75 76 9.620660 ATTGATAATTTTTACACAAACTCGGTC 57.379 29.630 0.00 0.00 0.00 4.79
76 77 8.155821 TGATAATTTTTACACAAACTCGGTCA 57.844 30.769 0.00 0.00 0.00 4.02
77 78 8.622157 TGATAATTTTTACACAAACTCGGTCAA 58.378 29.630 0.00 0.00 0.00 3.18
78 79 9.453325 GATAATTTTTACACAAACTCGGTCAAA 57.547 29.630 0.00 0.00 0.00 2.69
79 80 7.514573 AATTTTTACACAAACTCGGTCAAAC 57.485 32.000 0.00 0.00 0.00 2.93
80 81 5.883503 TTTTACACAAACTCGGTCAAACT 57.116 34.783 0.00 0.00 0.00 2.66
81 82 5.883503 TTTACACAAACTCGGTCAAACTT 57.116 34.783 0.00 0.00 0.00 2.66
82 83 5.883503 TTACACAAACTCGGTCAAACTTT 57.116 34.783 0.00 0.00 0.00 2.66
83 84 6.981762 TTACACAAACTCGGTCAAACTTTA 57.018 33.333 0.00 0.00 0.00 1.85
84 85 5.883503 ACACAAACTCGGTCAAACTTTAA 57.116 34.783 0.00 0.00 0.00 1.52
85 86 5.875930 ACACAAACTCGGTCAAACTTTAAG 58.124 37.500 0.00 0.00 0.00 1.85
86 87 5.644636 ACACAAACTCGGTCAAACTTTAAGA 59.355 36.000 0.00 0.00 0.00 2.10
87 88 6.317893 ACACAAACTCGGTCAAACTTTAAGAT 59.682 34.615 0.00 0.00 0.00 2.40
88 89 7.496591 ACACAAACTCGGTCAAACTTTAAGATA 59.503 33.333 0.00 0.00 0.00 1.98
89 90 7.797123 CACAAACTCGGTCAAACTTTAAGATAC 59.203 37.037 0.00 0.00 0.00 2.24
90 91 7.713942 ACAAACTCGGTCAAACTTTAAGATACT 59.286 33.333 0.00 0.00 0.00 2.12
91 92 8.557029 CAAACTCGGTCAAACTTTAAGATACTT 58.443 33.333 0.00 0.00 0.00 2.24
92 93 8.672823 AACTCGGTCAAACTTTAAGATACTTT 57.327 30.769 0.00 0.00 0.00 2.66
93 94 8.084590 ACTCGGTCAAACTTTAAGATACTTTG 57.915 34.615 0.00 0.00 0.00 2.77
94 95 7.929785 ACTCGGTCAAACTTTAAGATACTTTGA 59.070 33.333 0.00 1.85 0.00 2.69
95 96 8.080083 TCGGTCAAACTTTAAGATACTTTGAC 57.920 34.615 20.82 20.82 45.17 3.18
96 97 7.007697 CGGTCAAACTTTAAGATACTTTGACG 58.992 38.462 21.51 16.37 46.12 4.35
97 98 6.795593 GGTCAAACTTTAAGATACTTTGACGC 59.204 38.462 21.51 15.23 46.12 5.19
98 99 7.307811 GGTCAAACTTTAAGATACTTTGACGCT 60.308 37.037 21.51 0.00 46.12 5.07
99 100 7.740781 GTCAAACTTTAAGATACTTTGACGCTC 59.259 37.037 17.09 2.71 40.26 5.03
100 101 6.723131 AACTTTAAGATACTTTGACGCTCC 57.277 37.500 0.00 0.00 0.00 4.70
101 102 5.790593 ACTTTAAGATACTTTGACGCTCCA 58.209 37.500 0.00 0.00 0.00 3.86
102 103 6.228258 ACTTTAAGATACTTTGACGCTCCAA 58.772 36.000 0.00 0.00 0.00 3.53
103 104 6.147328 ACTTTAAGATACTTTGACGCTCCAAC 59.853 38.462 0.00 0.00 0.00 3.77
104 105 3.678056 AGATACTTTGACGCTCCAACA 57.322 42.857 0.00 0.00 0.00 3.33
105 106 4.002906 AGATACTTTGACGCTCCAACAA 57.997 40.909 0.00 0.00 0.00 2.83
106 107 4.385825 AGATACTTTGACGCTCCAACAAA 58.614 39.130 0.00 0.00 33.49 2.83
109 110 3.420839 CTTTGACGCTCCAACAAAGTT 57.579 42.857 0.00 0.00 42.76 2.66
110 111 2.842208 TTGACGCTCCAACAAAGTTG 57.158 45.000 3.00 3.00 0.00 3.16
111 112 1.021202 TGACGCTCCAACAAAGTTGG 58.979 50.000 20.09 20.09 40.87 3.77
112 113 1.305201 GACGCTCCAACAAAGTTGGA 58.695 50.000 25.17 25.17 45.61 3.53
113 114 1.673920 GACGCTCCAACAAAGTTGGAA 59.326 47.619 26.25 14.03 46.85 3.53
114 115 1.676006 ACGCTCCAACAAAGTTGGAAG 59.324 47.619 26.25 23.81 46.85 3.46
115 116 1.676006 CGCTCCAACAAAGTTGGAAGT 59.324 47.619 26.25 0.00 46.85 3.01
116 117 2.875933 CGCTCCAACAAAGTTGGAAGTA 59.124 45.455 26.25 9.67 46.85 2.24
117 118 3.303791 CGCTCCAACAAAGTTGGAAGTAC 60.304 47.826 26.25 16.95 46.85 2.73
118 119 3.630312 GCTCCAACAAAGTTGGAAGTACA 59.370 43.478 26.25 8.75 46.85 2.90
119 120 4.278419 GCTCCAACAAAGTTGGAAGTACAT 59.722 41.667 26.25 0.00 46.85 2.29
120 121 5.221244 GCTCCAACAAAGTTGGAAGTACATT 60.221 40.000 26.25 0.00 46.85 2.71
121 122 6.385649 TCCAACAAAGTTGGAAGTACATTC 57.614 37.500 24.83 0.00 44.90 2.67
122 123 6.126409 TCCAACAAAGTTGGAAGTACATTCT 58.874 36.000 24.83 0.00 44.90 2.40
123 124 6.605594 TCCAACAAAGTTGGAAGTACATTCTT 59.394 34.615 24.83 0.00 44.90 2.52
124 125 7.123547 TCCAACAAAGTTGGAAGTACATTCTTT 59.876 33.333 24.83 0.00 44.90 2.52
125 126 8.410141 CCAACAAAGTTGGAAGTACATTCTTTA 58.590 33.333 21.24 0.00 42.06 1.85
126 127 9.796120 CAACAAAGTTGGAAGTACATTCTTTAA 57.204 29.630 2.05 0.00 38.07 1.52
129 130 9.463443 CAAAGTTGGAAGTACATTCTTTAAAGG 57.537 33.333 15.13 2.13 38.07 3.11
130 131 8.990163 AAGTTGGAAGTACATTCTTTAAAGGA 57.010 30.769 15.13 7.05 38.07 3.36
131 132 8.392372 AGTTGGAAGTACATTCTTTAAAGGAC 57.608 34.615 15.13 6.27 38.07 3.85
132 133 7.172703 AGTTGGAAGTACATTCTTTAAAGGACG 59.827 37.037 15.13 1.24 38.07 4.79
133 134 5.935789 TGGAAGTACATTCTTTAAAGGACGG 59.064 40.000 15.13 5.52 38.07 4.79
134 135 6.168389 GGAAGTACATTCTTTAAAGGACGGA 58.832 40.000 15.13 0.00 38.07 4.69
135 136 6.313164 GGAAGTACATTCTTTAAAGGACGGAG 59.687 42.308 15.13 1.11 38.07 4.63
136 137 5.731591 AGTACATTCTTTAAAGGACGGAGG 58.268 41.667 15.13 1.98 0.00 4.30
137 138 3.951663 ACATTCTTTAAAGGACGGAGGG 58.048 45.455 15.13 0.45 0.00 4.30
138 139 3.585732 ACATTCTTTAAAGGACGGAGGGA 59.414 43.478 15.13 0.00 0.00 4.20
139 140 3.975168 TTCTTTAAAGGACGGAGGGAG 57.025 47.619 15.13 0.00 0.00 4.30
140 141 2.898662 TCTTTAAAGGACGGAGGGAGT 58.101 47.619 15.13 0.00 0.00 3.85
141 142 4.051661 TCTTTAAAGGACGGAGGGAGTA 57.948 45.455 15.13 0.00 0.00 2.59
142 143 4.617593 TCTTTAAAGGACGGAGGGAGTAT 58.382 43.478 15.13 0.00 0.00 2.12
143 144 4.404715 TCTTTAAAGGACGGAGGGAGTATG 59.595 45.833 15.13 0.00 0.00 2.39
144 145 1.497161 AAAGGACGGAGGGAGTATGG 58.503 55.000 0.00 0.00 0.00 2.74
145 146 1.049289 AAGGACGGAGGGAGTATGGC 61.049 60.000 0.00 0.00 0.00 4.40
146 147 1.457831 GGACGGAGGGAGTATGGCT 60.458 63.158 0.00 0.00 0.00 4.75
147 148 1.742768 GACGGAGGGAGTATGGCTG 59.257 63.158 0.00 0.00 0.00 4.85
152 153 1.544314 GGAGGGAGTATGGCTGAATGC 60.544 57.143 0.00 0.00 41.94 3.56
159 160 4.132336 GAGTATGGCTGAATGCAGAATCA 58.868 43.478 4.31 0.00 45.17 2.57
170 171 5.183713 TGAATGCAGAATCACCTTAACTTGG 59.816 40.000 0.00 0.00 0.00 3.61
194 195 3.047280 GCACATCACAACGGCCGA 61.047 61.111 35.90 9.64 0.00 5.54
288 306 1.198637 CGAGCTTGCCAGGAAAAAGAG 59.801 52.381 0.00 0.00 0.00 2.85
294 312 1.202927 TGCCAGGAAAAAGAGAGGTGG 60.203 52.381 0.00 0.00 0.00 4.61
534 555 6.406093 TTTGCAAGACATCAACACAAAAAG 57.594 33.333 0.00 0.00 0.00 2.27
574 604 3.633418 AGCCTTGTGGAGTAGTAGTAGG 58.367 50.000 0.00 0.00 34.57 3.18
575 605 2.101082 GCCTTGTGGAGTAGTAGTAGGC 59.899 54.545 0.00 0.00 39.99 3.93
576 606 3.633418 CCTTGTGGAGTAGTAGTAGGCT 58.367 50.000 0.00 0.00 34.57 4.58
577 607 4.789807 CCTTGTGGAGTAGTAGTAGGCTA 58.210 47.826 0.00 0.00 34.57 3.93
578 608 4.822896 CCTTGTGGAGTAGTAGTAGGCTAG 59.177 50.000 0.00 0.00 34.57 3.42
579 609 5.438833 CTTGTGGAGTAGTAGTAGGCTAGT 58.561 45.833 7.12 7.12 35.25 2.57
580 610 6.409005 CCTTGTGGAGTAGTAGTAGGCTAGTA 60.409 46.154 4.95 4.95 32.41 1.82
581 611 6.172136 TGTGGAGTAGTAGTAGGCTAGTAG 57.828 45.833 9.34 0.00 34.71 2.57
687 717 5.420421 AGTGAGATTAGCTCTTGTGCTCTTA 59.580 40.000 0.00 0.00 44.27 2.10
716 748 6.533730 TGGATGCTTTGGGTTGATAGTATAG 58.466 40.000 0.00 0.00 0.00 1.31
792 826 4.393990 GGGGGTTCGTTAAACAAGACTATG 59.606 45.833 0.00 0.00 39.81 2.23
853 887 0.997932 CTCAGCTAGCTTTGACTGCG 59.002 55.000 16.46 0.70 35.28 5.18
874 908 3.954904 CGTATCTATCCCTAGACCCCATG 59.045 52.174 0.00 0.00 36.81 3.66
877 911 3.001086 TCTATCCCTAGACCCCATGCTA 58.999 50.000 0.00 0.00 0.00 3.49
878 912 2.334006 ATCCCTAGACCCCATGCTAG 57.666 55.000 0.00 0.00 35.10 3.42
879 913 0.471971 TCCCTAGACCCCATGCTAGC 60.472 60.000 8.10 8.10 34.22 3.42
880 914 0.764369 CCCTAGACCCCATGCTAGCA 60.764 60.000 21.85 21.85 34.22 3.49
881 915 1.131638 CCTAGACCCCATGCTAGCAA 58.868 55.000 23.54 5.32 34.22 3.91
882 916 1.071385 CCTAGACCCCATGCTAGCAAG 59.929 57.143 23.54 17.93 34.22 4.01
958 995 3.307059 CCAACCCTGTACCTTCTCTTCAG 60.307 52.174 0.00 0.00 0.00 3.02
1017 1065 0.394192 CCATGAGCCGCAGAAGGATA 59.606 55.000 0.00 0.00 0.00 2.59
1086 1134 1.222113 GCTCTACCTTCCCACTGCC 59.778 63.158 0.00 0.00 0.00 4.85
1125 1173 0.114364 TCCCTGCTACTGTCTCCACA 59.886 55.000 0.00 0.00 0.00 4.17
1126 1174 0.247736 CCCTGCTACTGTCTCCACAC 59.752 60.000 0.00 0.00 0.00 3.82
1132 1180 2.732597 GCTACTGTCTCCACACATCGAC 60.733 54.545 0.00 0.00 0.00 4.20
1133 1181 0.241213 ACTGTCTCCACACATCGACG 59.759 55.000 0.00 0.00 0.00 5.12
1134 1182 0.241213 CTGTCTCCACACATCGACGT 59.759 55.000 0.00 0.00 0.00 4.34
1135 1183 0.039527 TGTCTCCACACATCGACGTG 60.040 55.000 10.56 10.56 42.81 4.49
1146 1194 5.599359 CACATCGACGTGTATCTCTATCT 57.401 43.478 2.88 0.00 32.00 1.98
1147 1195 5.378180 CACATCGACGTGTATCTCTATCTG 58.622 45.833 2.88 0.00 32.00 2.90
1148 1196 5.050023 CACATCGACGTGTATCTCTATCTGT 60.050 44.000 2.88 0.00 32.00 3.41
1149 1197 6.145696 CACATCGACGTGTATCTCTATCTGTA 59.854 42.308 2.88 0.00 32.00 2.74
1150 1198 6.874664 ACATCGACGTGTATCTCTATCTGTAT 59.125 38.462 0.00 0.00 0.00 2.29
1151 1199 7.388224 ACATCGACGTGTATCTCTATCTGTATT 59.612 37.037 0.00 0.00 0.00 1.89
1152 1200 8.870879 CATCGACGTGTATCTCTATCTGTATTA 58.129 37.037 0.00 0.00 0.00 0.98
1153 1201 8.237282 TCGACGTGTATCTCTATCTGTATTAC 57.763 38.462 0.00 0.00 0.00 1.89
1154 1202 8.087136 TCGACGTGTATCTCTATCTGTATTACT 58.913 37.037 0.00 0.00 0.00 2.24
1155 1203 9.351570 CGACGTGTATCTCTATCTGTATTACTA 57.648 37.037 0.00 0.00 0.00 1.82
1163 1211 9.953565 ATCTCTATCTGTATTACTACTGTCTCC 57.046 37.037 0.00 0.00 0.00 3.71
1164 1212 8.935741 TCTCTATCTGTATTACTACTGTCTCCA 58.064 37.037 0.00 0.00 0.00 3.86
1165 1213 8.905660 TCTATCTGTATTACTACTGTCTCCAC 57.094 38.462 0.00 0.00 0.00 4.02
1166 1214 6.963083 ATCTGTATTACTACTGTCTCCACC 57.037 41.667 0.00 0.00 0.00 4.61
1167 1215 4.880120 TCTGTATTACTACTGTCTCCACCG 59.120 45.833 0.00 0.00 0.00 4.94
1168 1216 3.949754 TGTATTACTACTGTCTCCACCGG 59.050 47.826 0.00 0.00 0.00 5.28
1169 1217 2.592102 TTACTACTGTCTCCACCGGT 57.408 50.000 0.00 0.00 0.00 5.28
1170 1218 2.119801 TACTACTGTCTCCACCGGTC 57.880 55.000 2.59 0.00 0.00 4.79
1171 1219 0.959372 ACTACTGTCTCCACCGGTCG 60.959 60.000 2.59 0.00 0.00 4.79
1172 1220 1.654954 CTACTGTCTCCACCGGTCGG 61.655 65.000 2.59 10.72 42.03 4.79
1193 1241 6.038492 GTCGGCCTATCTCTATCTGTATTACC 59.962 46.154 0.00 0.00 0.00 2.85
1295 1343 4.319133 GCTCGGGGCAAAAGATGA 57.681 55.556 0.00 0.00 41.35 2.92
1307 1355 3.486542 GCAAAAGATGACCTGAATCTCGC 60.487 47.826 0.00 0.00 33.17 5.03
1308 1356 2.611225 AAGATGACCTGAATCTCGCC 57.389 50.000 0.00 0.00 33.17 5.54
1310 1358 0.103208 GATGACCTGAATCTCGCCGT 59.897 55.000 0.00 0.00 0.00 5.68
1527 1575 3.123804 CGACGATGAACCCTAAATCAGG 58.876 50.000 0.00 0.00 45.07 3.86
1641 1693 5.939764 TGCAGGATACATATAGCTTAGGG 57.060 43.478 0.00 0.00 41.41 3.53
1800 1852 0.396974 AGAAGGGGCAGTTTTGTGCA 60.397 50.000 0.00 0.00 45.93 4.57
1918 1981 2.838736 AGTGTGTGTCAACATCCTCAC 58.161 47.619 0.00 0.00 38.92 3.51
2016 2079 6.414732 TCTTGTTCTGTTTTCTCCTTCTGAA 58.585 36.000 0.00 0.00 0.00 3.02
2048 2111 5.212934 CAATGCTCACATCATAGTTCATGC 58.787 41.667 0.00 0.00 34.62 4.06
2129 2194 3.325135 CCTCGAGGTGGGCTAGATTTTAT 59.675 47.826 24.04 0.00 0.00 1.40
2130 2195 4.527038 CCTCGAGGTGGGCTAGATTTTATA 59.473 45.833 24.04 0.00 0.00 0.98
2131 2196 5.011738 CCTCGAGGTGGGCTAGATTTTATAA 59.988 44.000 24.04 0.00 0.00 0.98
2133 2198 6.522054 TCGAGGTGGGCTAGATTTTATAAAG 58.478 40.000 0.00 0.00 0.00 1.85
2134 2199 6.099269 TCGAGGTGGGCTAGATTTTATAAAGT 59.901 38.462 0.00 0.00 0.00 2.66
2136 2201 7.929785 CGAGGTGGGCTAGATTTTATAAAGTTA 59.070 37.037 0.00 0.00 0.00 2.24
2137 2202 9.274206 GAGGTGGGCTAGATTTTATAAAGTTAG 57.726 37.037 0.00 3.86 0.00 2.34
2138 2203 7.720074 AGGTGGGCTAGATTTTATAAAGTTAGC 59.280 37.037 19.24 19.24 33.19 3.09
2156 2222 5.830991 AGTTAGCATCCCAAACAGTTAACAA 59.169 36.000 8.61 0.00 32.38 2.83
2163 2229 5.446860 TCCCAAACAGTTAACAATGTACCA 58.553 37.500 8.61 0.00 0.00 3.25
2198 2264 6.976351 TTCCAAAGGAAAAGGAATGGCTTCC 61.976 44.000 7.41 7.41 43.78 3.46
2220 2286 5.608437 TCCTAGGCCATTCTGAGATTACATT 59.392 40.000 5.01 0.00 0.00 2.71
2271 2337 3.764434 ACAAGAGGAAGATCTACGCAAGA 59.236 43.478 0.00 0.00 43.62 3.02
2307 2373 4.522022 CCAGAGAATGGGCAATAAGATTCC 59.478 45.833 0.00 0.00 46.36 3.01
2351 2422 4.157840 GCCAATCGTTTTTGGGAAGATACT 59.842 41.667 13.65 0.00 45.25 2.12
2366 2437 2.979678 AGATACTTGGTTGGGTGACACT 59.020 45.455 5.39 0.00 0.00 3.55
2367 2438 2.922740 TACTTGGTTGGGTGACACTC 57.077 50.000 5.39 1.01 0.00 3.51
2380 2451 4.888239 GGGTGACACTCTATTAGCTCTACA 59.112 45.833 5.39 0.00 0.00 2.74
2431 2502 2.160721 AGAGGATTCGGTGGCTTCTA 57.839 50.000 0.00 0.00 0.00 2.10
2443 2514 3.202097 GTGGCTTCTATTCTTGAGGCTC 58.798 50.000 7.79 7.79 36.86 4.70
2447 2518 0.753262 TCTATTCTTGAGGCTCGCCC 59.247 55.000 10.42 0.00 36.58 6.13
2451 2522 0.981183 TTCTTGAGGCTCGCCCTTTA 59.019 50.000 10.42 0.00 46.60 1.85
2515 2586 3.721087 AGTGGATCCATTCGGTTTCTT 57.279 42.857 19.62 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 9.620660 GACCGAGTTTGTGTAAAAATTATCAAT 57.379 29.630 0.00 0.00 0.00 2.57
50 51 8.622157 TGACCGAGTTTGTGTAAAAATTATCAA 58.378 29.630 0.00 0.00 0.00 2.57
51 52 8.155821 TGACCGAGTTTGTGTAAAAATTATCA 57.844 30.769 0.00 0.00 0.00 2.15
52 53 9.453325 TTTGACCGAGTTTGTGTAAAAATTATC 57.547 29.630 0.00 0.00 0.00 1.75
53 54 9.240159 GTTTGACCGAGTTTGTGTAAAAATTAT 57.760 29.630 0.00 0.00 0.00 1.28
54 55 8.460428 AGTTTGACCGAGTTTGTGTAAAAATTA 58.540 29.630 0.00 0.00 0.00 1.40
55 56 7.317390 AGTTTGACCGAGTTTGTGTAAAAATT 58.683 30.769 0.00 0.00 0.00 1.82
56 57 6.859017 AGTTTGACCGAGTTTGTGTAAAAAT 58.141 32.000 0.00 0.00 0.00 1.82
57 58 6.256912 AGTTTGACCGAGTTTGTGTAAAAA 57.743 33.333 0.00 0.00 0.00 1.94
58 59 5.883503 AGTTTGACCGAGTTTGTGTAAAA 57.116 34.783 0.00 0.00 0.00 1.52
59 60 5.883503 AAGTTTGACCGAGTTTGTGTAAA 57.116 34.783 0.00 0.00 0.00 2.01
60 61 5.883503 AAAGTTTGACCGAGTTTGTGTAA 57.116 34.783 0.00 0.00 0.00 2.41
61 62 6.817641 TCTTAAAGTTTGACCGAGTTTGTGTA 59.182 34.615 0.00 0.00 0.00 2.90
62 63 5.644636 TCTTAAAGTTTGACCGAGTTTGTGT 59.355 36.000 0.00 0.00 0.00 3.72
63 64 6.114221 TCTTAAAGTTTGACCGAGTTTGTG 57.886 37.500 0.00 0.00 0.00 3.33
64 65 6.937436 ATCTTAAAGTTTGACCGAGTTTGT 57.063 33.333 0.00 0.00 0.00 2.83
65 66 8.084590 AGTATCTTAAAGTTTGACCGAGTTTG 57.915 34.615 0.00 0.00 0.00 2.93
66 67 8.672823 AAGTATCTTAAAGTTTGACCGAGTTT 57.327 30.769 0.00 0.00 0.00 2.66
67 68 8.557029 CAAAGTATCTTAAAGTTTGACCGAGTT 58.443 33.333 0.00 0.00 38.84 3.01
68 69 7.929785 TCAAAGTATCTTAAAGTTTGACCGAGT 59.070 33.333 0.00 0.00 39.93 4.18
69 70 8.306680 TCAAAGTATCTTAAAGTTTGACCGAG 57.693 34.615 0.00 0.00 39.93 4.63
74 75 7.095355 GGAGCGTCAAAGTATCTTAAAGTTTGA 60.095 37.037 0.00 5.05 41.61 2.69
75 76 7.015877 GGAGCGTCAAAGTATCTTAAAGTTTG 58.984 38.462 0.00 1.14 38.20 2.93
76 77 6.708949 TGGAGCGTCAAAGTATCTTAAAGTTT 59.291 34.615 0.00 0.00 0.00 2.66
77 78 6.228258 TGGAGCGTCAAAGTATCTTAAAGTT 58.772 36.000 0.00 0.00 0.00 2.66
78 79 5.790593 TGGAGCGTCAAAGTATCTTAAAGT 58.209 37.500 0.00 0.00 0.00 2.66
79 80 6.147164 TGTTGGAGCGTCAAAGTATCTTAAAG 59.853 38.462 0.00 0.00 0.00 1.85
80 81 5.992829 TGTTGGAGCGTCAAAGTATCTTAAA 59.007 36.000 0.00 0.00 0.00 1.52
81 82 5.543714 TGTTGGAGCGTCAAAGTATCTTAA 58.456 37.500 0.00 0.00 0.00 1.85
82 83 5.142061 TGTTGGAGCGTCAAAGTATCTTA 57.858 39.130 0.00 0.00 0.00 2.10
83 84 4.002906 TGTTGGAGCGTCAAAGTATCTT 57.997 40.909 0.00 0.00 0.00 2.40
84 85 3.678056 TGTTGGAGCGTCAAAGTATCT 57.322 42.857 0.00 0.00 0.00 1.98
85 86 4.712763 CTTTGTTGGAGCGTCAAAGTATC 58.287 43.478 8.20 0.00 41.40 2.24
86 87 4.749245 CTTTGTTGGAGCGTCAAAGTAT 57.251 40.909 8.20 0.00 41.40 2.12
90 91 2.159310 CCAACTTTGTTGGAGCGTCAAA 60.159 45.455 21.06 0.00 42.06 2.69
91 92 1.403679 CCAACTTTGTTGGAGCGTCAA 59.596 47.619 21.06 0.00 42.06 3.18
92 93 1.021202 CCAACTTTGTTGGAGCGTCA 58.979 50.000 21.06 0.00 42.06 4.35
93 94 1.305201 TCCAACTTTGTTGGAGCGTC 58.695 50.000 23.38 0.00 43.17 5.19
94 95 3.487576 TCCAACTTTGTTGGAGCGT 57.512 47.368 23.38 0.00 43.17 5.07
98 99 6.126409 AGAATGTACTTCCAACTTTGTTGGA 58.874 36.000 23.38 23.38 46.08 3.53
99 100 6.391227 AGAATGTACTTCCAACTTTGTTGG 57.609 37.500 19.97 19.97 40.87 3.77
100 101 9.796120 TTAAAGAATGTACTTCCAACTTTGTTG 57.204 29.630 0.00 3.69 34.11 3.33
103 104 9.463443 CCTTTAAAGAATGTACTTCCAACTTTG 57.537 33.333 16.98 0.00 34.11 2.77
104 105 9.416284 TCCTTTAAAGAATGTACTTCCAACTTT 57.584 29.630 16.98 0.00 34.11 2.66
105 106 8.847196 GTCCTTTAAAGAATGTACTTCCAACTT 58.153 33.333 16.98 0.00 34.11 2.66
106 107 7.172703 CGTCCTTTAAAGAATGTACTTCCAACT 59.827 37.037 16.98 0.00 34.11 3.16
107 108 7.295930 CGTCCTTTAAAGAATGTACTTCCAAC 58.704 38.462 16.98 0.00 34.11 3.77
108 109 6.428771 CCGTCCTTTAAAGAATGTACTTCCAA 59.571 38.462 16.98 0.00 34.11 3.53
109 110 5.935789 CCGTCCTTTAAAGAATGTACTTCCA 59.064 40.000 16.98 0.00 34.11 3.53
110 111 6.168389 TCCGTCCTTTAAAGAATGTACTTCC 58.832 40.000 16.98 0.00 34.11 3.46
111 112 6.313164 CCTCCGTCCTTTAAAGAATGTACTTC 59.687 42.308 16.98 0.00 0.00 3.01
112 113 6.171213 CCTCCGTCCTTTAAAGAATGTACTT 58.829 40.000 16.98 0.00 0.00 2.24
113 114 5.338137 CCCTCCGTCCTTTAAAGAATGTACT 60.338 44.000 16.98 0.00 0.00 2.73
114 115 4.874396 CCCTCCGTCCTTTAAAGAATGTAC 59.126 45.833 16.98 5.84 0.00 2.90
115 116 4.778958 TCCCTCCGTCCTTTAAAGAATGTA 59.221 41.667 16.98 0.00 0.00 2.29
116 117 3.585732 TCCCTCCGTCCTTTAAAGAATGT 59.414 43.478 16.98 0.00 0.00 2.71
117 118 4.192317 CTCCCTCCGTCCTTTAAAGAATG 58.808 47.826 16.98 1.25 0.00 2.67
118 119 3.844804 ACTCCCTCCGTCCTTTAAAGAAT 59.155 43.478 16.98 0.00 0.00 2.40
119 120 3.245441 ACTCCCTCCGTCCTTTAAAGAA 58.755 45.455 16.98 0.00 0.00 2.52
120 121 2.898662 ACTCCCTCCGTCCTTTAAAGA 58.101 47.619 16.98 0.24 0.00 2.52
121 122 4.443034 CCATACTCCCTCCGTCCTTTAAAG 60.443 50.000 8.32 8.32 0.00 1.85
122 123 3.453353 CCATACTCCCTCCGTCCTTTAAA 59.547 47.826 0.00 0.00 0.00 1.52
123 124 3.036091 CCATACTCCCTCCGTCCTTTAA 58.964 50.000 0.00 0.00 0.00 1.52
124 125 2.674420 CCATACTCCCTCCGTCCTTTA 58.326 52.381 0.00 0.00 0.00 1.85
125 126 1.497161 CCATACTCCCTCCGTCCTTT 58.503 55.000 0.00 0.00 0.00 3.11
126 127 1.049289 GCCATACTCCCTCCGTCCTT 61.049 60.000 0.00 0.00 0.00 3.36
127 128 1.457831 GCCATACTCCCTCCGTCCT 60.458 63.158 0.00 0.00 0.00 3.85
128 129 1.457831 AGCCATACTCCCTCCGTCC 60.458 63.158 0.00 0.00 0.00 4.79
129 130 0.755698 TCAGCCATACTCCCTCCGTC 60.756 60.000 0.00 0.00 0.00 4.79
130 131 0.325296 TTCAGCCATACTCCCTCCGT 60.325 55.000 0.00 0.00 0.00 4.69
131 132 1.051812 ATTCAGCCATACTCCCTCCG 58.948 55.000 0.00 0.00 0.00 4.63
132 133 1.544314 GCATTCAGCCATACTCCCTCC 60.544 57.143 0.00 0.00 37.23 4.30
133 134 1.141657 TGCATTCAGCCATACTCCCTC 59.858 52.381 0.00 0.00 44.83 4.30
134 135 1.142465 CTGCATTCAGCCATACTCCCT 59.858 52.381 0.00 0.00 44.83 4.20
135 136 1.141657 TCTGCATTCAGCCATACTCCC 59.858 52.381 0.00 0.00 44.83 4.30
136 137 2.627515 TCTGCATTCAGCCATACTCC 57.372 50.000 0.00 0.00 44.83 3.85
137 138 4.024218 GTGATTCTGCATTCAGCCATACTC 60.024 45.833 0.00 0.00 44.83 2.59
138 139 3.881688 GTGATTCTGCATTCAGCCATACT 59.118 43.478 0.00 0.00 44.83 2.12
139 140 3.004106 GGTGATTCTGCATTCAGCCATAC 59.996 47.826 10.77 0.00 44.83 2.39
140 141 3.117776 AGGTGATTCTGCATTCAGCCATA 60.118 43.478 15.73 0.00 44.83 2.74
141 142 2.029623 GGTGATTCTGCATTCAGCCAT 58.970 47.619 10.77 0.00 44.83 4.40
142 143 1.005097 AGGTGATTCTGCATTCAGCCA 59.995 47.619 15.73 0.00 44.83 4.75
143 144 1.760192 AGGTGATTCTGCATTCAGCC 58.240 50.000 15.73 10.36 44.83 4.85
144 145 4.397417 AGTTAAGGTGATTCTGCATTCAGC 59.603 41.667 12.95 12.95 45.96 4.26
145 146 6.320171 CAAGTTAAGGTGATTCTGCATTCAG 58.680 40.000 0.00 0.00 41.67 3.02
146 147 5.183713 CCAAGTTAAGGTGATTCTGCATTCA 59.816 40.000 0.00 0.00 0.00 2.57
147 148 5.393461 CCCAAGTTAAGGTGATTCTGCATTC 60.393 44.000 0.00 0.00 0.00 2.67
152 153 3.191371 GTGCCCAAGTTAAGGTGATTCTG 59.809 47.826 0.00 0.00 0.00 3.02
159 160 0.539669 GCAGGTGCCCAAGTTAAGGT 60.540 55.000 0.00 0.00 34.31 3.50
170 171 1.286880 GTTGTGATGTGCAGGTGCC 59.713 57.895 0.00 0.00 41.18 5.01
182 183 0.820074 AAATTGGTCGGCCGTTGTGA 60.820 50.000 27.15 9.23 37.67 3.58
194 195 4.658063 TGAAGTCGTCCCATAAAATTGGT 58.342 39.130 0.00 0.00 34.77 3.67
288 306 1.909781 TGGGACCGTGTACCACCTC 60.910 63.158 4.05 0.00 42.36 3.85
294 312 3.067180 TCGATCTATTTGGGACCGTGTAC 59.933 47.826 0.00 0.00 0.00 2.90
365 384 2.033151 GTCGCTGTACTTTTTCTGCGTT 60.033 45.455 13.75 0.00 46.38 4.84
435 455 0.180406 GACACATTATCACCCCCGCT 59.820 55.000 0.00 0.00 0.00 5.52
468 489 2.034221 GCCGGGTTCTTCTTGGCT 59.966 61.111 2.18 0.00 42.44 4.75
493 514 1.432514 AATCCAGCTATGCGCATACG 58.567 50.000 25.78 20.76 42.61 3.06
495 516 1.536766 GCAAATCCAGCTATGCGCATA 59.463 47.619 27.39 27.39 42.61 3.14
534 555 2.944542 GCTAGGGCAAAAAGTCTACCCC 60.945 54.545 0.00 0.00 41.86 4.95
574 604 4.792521 ATATGTGTGCCTAGCTACTAGC 57.207 45.455 0.00 0.00 42.84 3.42
575 605 8.056407 TGAATATATGTGTGCCTAGCTACTAG 57.944 38.462 0.00 0.00 34.16 2.57
576 606 8.417273 TTGAATATATGTGTGCCTAGCTACTA 57.583 34.615 0.00 0.00 0.00 1.82
577 607 6.918067 TGAATATATGTGTGCCTAGCTACT 57.082 37.500 0.00 0.00 0.00 2.57
578 608 7.962964 TTTGAATATATGTGTGCCTAGCTAC 57.037 36.000 0.00 0.00 0.00 3.58
579 609 9.653287 GTATTTGAATATATGTGTGCCTAGCTA 57.347 33.333 0.00 0.00 0.00 3.32
580 610 8.156820 TGTATTTGAATATATGTGTGCCTAGCT 58.843 33.333 0.00 0.00 0.00 3.32
581 611 8.322906 TGTATTTGAATATATGTGTGCCTAGC 57.677 34.615 0.00 0.00 0.00 3.42
623 653 9.806203 TGTGTAAGCGCCGTATATTAATATATT 57.194 29.630 16.37 2.97 0.00 1.28
624 654 9.241317 GTGTGTAAGCGCCGTATATTAATATAT 57.759 33.333 16.37 3.81 0.00 0.86
625 655 7.429051 CGTGTGTAAGCGCCGTATATTAATATA 59.571 37.037 2.29 10.55 0.00 0.86
687 717 2.158475 TCAACCCAAAGCATCCAAGAGT 60.158 45.455 0.00 0.00 0.00 3.24
716 748 1.523758 CTGGTTGTGCCTGGTAAGTC 58.476 55.000 0.00 0.00 38.35 3.01
792 826 0.245813 GTTCTGACCGTACCACCCTC 59.754 60.000 0.00 0.00 0.00 4.30
853 887 3.707102 GCATGGGGTCTAGGGATAGATAC 59.293 52.174 0.00 0.00 0.00 2.24
877 911 0.540365 TTTAGGCTGGCTTGCTTGCT 60.540 50.000 9.68 0.00 0.00 3.91
878 912 0.318120 TTTTAGGCTGGCTTGCTTGC 59.682 50.000 9.68 0.00 0.00 4.01
879 913 1.340889 TGTTTTAGGCTGGCTTGCTTG 59.659 47.619 9.68 0.00 0.00 4.01
880 914 1.341209 GTGTTTTAGGCTGGCTTGCTT 59.659 47.619 9.68 0.00 0.00 3.91
881 915 0.961753 GTGTTTTAGGCTGGCTTGCT 59.038 50.000 9.68 0.00 0.00 3.91
882 916 0.961753 AGTGTTTTAGGCTGGCTTGC 59.038 50.000 9.68 0.00 0.00 4.01
883 917 1.270550 CCAGTGTTTTAGGCTGGCTTG 59.729 52.381 9.68 0.00 42.54 4.01
884 918 1.620822 CCAGTGTTTTAGGCTGGCTT 58.379 50.000 9.68 0.00 42.54 4.35
885 919 3.346426 CCAGTGTTTTAGGCTGGCT 57.654 52.632 9.28 9.28 42.54 4.75
906 942 8.415950 TGTTGAGATTTTATAGGGAAAGCAAA 57.584 30.769 0.00 0.00 0.00 3.68
958 995 3.563808 TGTGTTTGTGTGTCAATAGGAGC 59.436 43.478 0.00 0.00 35.84 4.70
1017 1065 0.820891 CCACAAGGACTGCACTGCTT 60.821 55.000 1.98 0.00 36.89 3.91
1125 1173 5.057819 ACAGATAGAGATACACGTCGATGT 58.942 41.667 3.92 3.92 36.56 3.06
1126 1174 5.599359 ACAGATAGAGATACACGTCGATG 57.401 43.478 2.26 2.26 0.00 3.84
1137 1185 9.953565 GGAGACAGTAGTAATACAGATAGAGAT 57.046 37.037 2.81 0.00 0.00 2.75
1138 1186 8.935741 TGGAGACAGTAGTAATACAGATAGAGA 58.064 37.037 2.81 0.00 35.01 3.10
1139 1187 8.995220 GTGGAGACAGTAGTAATACAGATAGAG 58.005 40.741 2.81 0.00 44.46 2.43
1140 1188 7.937942 GGTGGAGACAGTAGTAATACAGATAGA 59.062 40.741 2.81 0.00 44.46 1.98
1141 1189 7.095144 CGGTGGAGACAGTAGTAATACAGATAG 60.095 44.444 2.81 0.00 44.46 2.08
1142 1190 6.709397 CGGTGGAGACAGTAGTAATACAGATA 59.291 42.308 2.81 0.00 44.46 1.98
1143 1191 5.531659 CGGTGGAGACAGTAGTAATACAGAT 59.468 44.000 2.81 0.00 44.46 2.90
1144 1192 4.880120 CGGTGGAGACAGTAGTAATACAGA 59.120 45.833 2.81 0.00 44.46 3.41
1145 1193 4.036498 CCGGTGGAGACAGTAGTAATACAG 59.964 50.000 2.81 0.00 44.46 2.74
1146 1194 3.949754 CCGGTGGAGACAGTAGTAATACA 59.050 47.826 2.81 0.00 44.46 2.29
1147 1195 3.950395 ACCGGTGGAGACAGTAGTAATAC 59.050 47.826 6.12 0.00 44.46 1.89
1148 1196 4.202441 GACCGGTGGAGACAGTAGTAATA 58.798 47.826 14.63 0.00 44.46 0.98
1149 1197 3.022406 GACCGGTGGAGACAGTAGTAAT 58.978 50.000 14.63 0.00 44.46 1.89
1150 1198 2.440409 GACCGGTGGAGACAGTAGTAA 58.560 52.381 14.63 0.00 44.46 2.24
1151 1199 1.676916 CGACCGGTGGAGACAGTAGTA 60.677 57.143 14.63 0.00 44.46 1.82
1152 1200 0.959372 CGACCGGTGGAGACAGTAGT 60.959 60.000 14.63 0.00 44.46 2.73
1153 1201 1.654954 CCGACCGGTGGAGACAGTAG 61.655 65.000 19.32 0.00 44.46 2.57
1154 1202 1.676635 CCGACCGGTGGAGACAGTA 60.677 63.158 19.32 0.00 44.46 2.74
1155 1203 2.989824 CCGACCGGTGGAGACAGT 60.990 66.667 19.32 0.00 44.46 3.55
1156 1204 4.436998 GCCGACCGGTGGAGACAG 62.437 72.222 19.32 1.54 44.46 3.51
1159 1207 3.369410 ATAGGCCGACCGGTGGAGA 62.369 63.158 19.32 6.35 42.76 3.71
1160 1208 2.838225 ATAGGCCGACCGGTGGAG 60.838 66.667 19.32 9.33 42.76 3.86
1161 1209 2.836360 GATAGGCCGACCGGTGGA 60.836 66.667 19.32 0.00 42.76 4.02
1162 1210 2.838225 AGATAGGCCGACCGGTGG 60.838 66.667 14.63 12.00 42.76 4.61
1163 1211 0.536687 TAGAGATAGGCCGACCGGTG 60.537 60.000 14.63 4.10 42.76 4.94
1164 1212 0.404812 ATAGAGATAGGCCGACCGGT 59.595 55.000 6.92 6.92 42.76 5.28
1165 1213 1.096416 GATAGAGATAGGCCGACCGG 58.904 60.000 0.00 0.00 42.76 5.28
1166 1214 1.740585 CAGATAGAGATAGGCCGACCG 59.259 57.143 0.00 0.00 42.76 4.79
1167 1215 2.797786 ACAGATAGAGATAGGCCGACC 58.202 52.381 0.00 0.00 0.00 4.79
1168 1216 6.038492 GGTAATACAGATAGAGATAGGCCGAC 59.962 46.154 0.00 0.00 0.00 4.79
1169 1217 6.120905 GGTAATACAGATAGAGATAGGCCGA 58.879 44.000 0.00 0.00 0.00 5.54
1170 1218 5.007823 CGGTAATACAGATAGAGATAGGCCG 59.992 48.000 0.00 0.00 0.00 6.13
1171 1219 5.887035 ACGGTAATACAGATAGAGATAGGCC 59.113 44.000 0.00 0.00 0.00 5.19
1172 1220 8.680039 ATACGGTAATACAGATAGAGATAGGC 57.320 38.462 0.00 0.00 0.00 3.93
1193 1241 6.544564 ACCAACAAACAGGGGAAATATATACG 59.455 38.462 0.00 0.00 0.00 3.06
1295 1343 2.490217 CGACGGCGAGATTCAGGT 59.510 61.111 16.62 0.00 40.82 4.00
1527 1575 2.512705 ACTATGTACCTAGCTACGGGC 58.487 52.381 12.18 0.00 42.19 6.13
1641 1693 7.653311 GCATTCTTGTTCCATAATATTTGGGTC 59.347 37.037 13.40 9.19 34.85 4.46
1800 1852 2.048023 CCCCAAGCGTGCACATCAT 61.048 57.895 18.64 0.00 0.00 2.45
1918 1981 4.619973 TGTCAACAAGCAGCAAAATAAGG 58.380 39.130 0.00 0.00 0.00 2.69
2016 2079 1.927487 TGTGAGCATTGCCCATTCTT 58.073 45.000 4.70 0.00 0.00 2.52
2048 2111 4.564041 AGGCGAGCATCTTCTTATACATG 58.436 43.478 0.00 0.00 0.00 3.21
2129 2194 7.502895 TGTTAACTGTTTGGGATGCTAACTTTA 59.497 33.333 7.22 1.45 0.00 1.85
2130 2195 6.322712 TGTTAACTGTTTGGGATGCTAACTTT 59.677 34.615 7.22 2.13 0.00 2.66
2131 2196 5.830991 TGTTAACTGTTTGGGATGCTAACTT 59.169 36.000 7.22 0.00 0.00 2.66
2133 2198 5.699097 TGTTAACTGTTTGGGATGCTAAC 57.301 39.130 7.22 0.00 0.00 2.34
2134 2199 6.266558 ACATTGTTAACTGTTTGGGATGCTAA 59.733 34.615 7.22 0.00 0.00 3.09
2136 2201 4.588528 ACATTGTTAACTGTTTGGGATGCT 59.411 37.500 7.22 0.00 0.00 3.79
2137 2202 4.881920 ACATTGTTAACTGTTTGGGATGC 58.118 39.130 7.22 0.00 0.00 3.91
2138 2203 6.015856 TGGTACATTGTTAACTGTTTGGGATG 60.016 38.462 7.22 2.26 0.00 3.51
2156 2222 9.554395 CCTTTGGAAAAACTTTTATTGGTACAT 57.446 29.630 0.00 0.00 39.30 2.29
2175 2241 3.258722 AGCCATTCCTTTTCCTTTGGA 57.741 42.857 0.00 0.00 0.00 3.53
2198 2264 6.206243 CCAAATGTAATCTCAGAATGGCCTAG 59.794 42.308 3.32 0.00 36.16 3.02
2220 2286 3.892284 TCTTGTGCAGTAAAACCTCCAA 58.108 40.909 0.00 0.00 0.00 3.53
2307 2373 3.054802 GCCACCCATATTCCTAGGATCAG 60.055 52.174 13.57 3.23 0.00 2.90
2351 2422 4.564821 GCTAATAGAGTGTCACCCAACCAA 60.565 45.833 0.00 0.00 0.00 3.67
2366 2437 9.696572 ATAATCGGGTATTGTAGAGCTAATAGA 57.303 33.333 0.00 0.00 0.00 1.98
2408 2479 1.826385 AGCCACCGAATCCTCTTTTG 58.174 50.000 0.00 0.00 0.00 2.44
2431 2502 0.329596 AAAGGGCGAGCCTCAAGAAT 59.670 50.000 14.33 0.00 36.10 2.40
2443 2514 3.733684 CGGAATTGGATGTTTAAAGGGCG 60.734 47.826 0.00 0.00 0.00 6.13
2447 2518 4.805192 CCATGCGGAATTGGATGTTTAAAG 59.195 41.667 0.00 0.00 36.09 1.85
2451 2522 1.134729 GCCATGCGGAATTGGATGTTT 60.135 47.619 0.07 0.00 36.09 2.83


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

AutoCloner maintained by Alex Coulton.