Multiple sequence alignment - TraesCS7A01G506000

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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 TraesCS7A01G506000 chr7A 100.000 2474 0 0 1 2474 693814579 693817052 0.000000e+00 4569.0
1 TraesCS7A01G506000 chr7A 80.665 993 101 54 602 1577 693838238 693839156 0.000000e+00 686.0
2 TraesCS7A01G506000 chr7A 84.836 488 59 12 995 1479 694022593 694022118 6.190000e-131 477.0
3 TraesCS7A01G506000 chr7A 100.000 234 0 0 2241 2474 694078368 694078135 1.360000e-117 433.0
4 TraesCS7A01G506000 chr7A 83.229 477 52 15 1100 1574 694093128 694092678 1.770000e-111 412.0
5 TraesCS7A01G506000 chr7A 87.261 157 10 3 652 808 694093464 694093318 1.180000e-38 171.0
6 TraesCS7A01G506000 chr7A 97.059 34 0 1 306 338 693814810 693814843 3.440000e-04 56.5
7 TraesCS7A01G506000 chr7A 97.059 34 0 1 232 265 693814884 693814916 3.440000e-04 56.5
8 TraesCS7A01G506000 chr7B 92.982 1653 80 18 710 2336 681688464 681690106 0.000000e+00 2377.0
9 TraesCS7A01G506000 chr7B 85.092 1308 105 40 572 1841 682791822 682790567 0.000000e+00 1253.0
10 TraesCS7A01G506000 chr7B 78.550 993 112 58 771 1754 681750332 681751232 5.970000e-156 560.0
11 TraesCS7A01G506000 chr7B 81.749 526 47 22 1232 1754 681780146 681780625 6.410000e-106 394.0
12 TraesCS7A01G506000 chr7B 84.884 344 39 10 287 621 681688122 681688461 3.940000e-88 335.0
13 TraesCS7A01G506000 chr7B 93.333 165 10 1 2311 2474 681692312 681692476 2.460000e-60 243.0
14 TraesCS7A01G506000 chr7B 84.000 250 20 5 652 900 682886693 682886463 3.200000e-54 222.0
15 TraesCS7A01G506000 chr7B 78.488 172 33 4 267 436 27786062 27785893 2.600000e-20 110.0
16 TraesCS7A01G506000 chr7D 90.764 1570 78 27 269 1824 602042159 602043675 0.000000e+00 2034.0
17 TraesCS7A01G506000 chr7D 87.481 1294 94 36 572 1826 602410306 602409042 0.000000e+00 1430.0
18 TraesCS7A01G506000 chr7D 93.919 592 35 1 1883 2474 602043674 602044264 0.000000e+00 893.0
19 TraesCS7A01G506000 chr7D 84.407 590 58 17 946 1530 602295041 602294481 1.290000e-152 549.0
20 TraesCS7A01G506000 chr7D 76.711 1198 147 78 602 1770 602072501 602073595 1.670000e-151 545.0
21 TraesCS7A01G506000 chr7D 88.485 330 38 0 1150 1479 602194635 602194306 1.380000e-107 399.0
22 TraesCS7A01G506000 chr7D 80.625 320 34 17 599 912 602196704 602197001 3.200000e-54 222.0
23 TraesCS7A01G506000 chr7D 80.919 283 28 9 607 887 602632846 602632588 1.500000e-47 200.0
24 TraesCS7A01G506000 chr7D 81.667 240 17 9 596 833 602295349 602295135 9.090000e-40 174.0
25 TraesCS7A01G506000 chr7D 82.857 105 18 0 267 371 510310401 510310505 7.280000e-16 95.3
26 TraesCS7A01G506000 chr7D 85.897 78 3 3 809 886 602194874 602194805 2.640000e-10 76.8
27 TraesCS7A01G506000 chrUn 80.478 1004 98 38 611 1606 87232701 87231788 0.000000e+00 678.0


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 TraesCS7A01G506000 chr7A 693814579 693817052 2473 False 1560.666667 4569 98.039333 1 2474 3 chr7A.!!$F2 2473
1 TraesCS7A01G506000 chr7A 693838238 693839156 918 False 686.000000 686 80.665000 602 1577 1 chr7A.!!$F1 975
2 TraesCS7A01G506000 chr7A 694092678 694093464 786 True 291.500000 412 85.245000 652 1574 2 chr7A.!!$R3 922
3 TraesCS7A01G506000 chr7B 682790567 682791822 1255 True 1253.000000 1253 85.092000 572 1841 1 chr7B.!!$R2 1269
4 TraesCS7A01G506000 chr7B 681688122 681692476 4354 False 985.000000 2377 90.399667 287 2474 3 chr7B.!!$F3 2187
5 TraesCS7A01G506000 chr7B 681750332 681751232 900 False 560.000000 560 78.550000 771 1754 1 chr7B.!!$F1 983
6 TraesCS7A01G506000 chr7D 602042159 602044264 2105 False 1463.500000 2034 92.341500 269 2474 2 chr7D.!!$F4 2205
7 TraesCS7A01G506000 chr7D 602409042 602410306 1264 True 1430.000000 1430 87.481000 572 1826 1 chr7D.!!$R1 1254
8 TraesCS7A01G506000 chr7D 602072501 602073595 1094 False 545.000000 545 76.711000 602 1770 1 chr7D.!!$F2 1168
9 TraesCS7A01G506000 chr7D 602294481 602295349 868 True 361.500000 549 83.037000 596 1530 2 chr7D.!!$R4 934
10 TraesCS7A01G506000 chr7D 602194306 602194874 568 True 237.900000 399 87.191000 809 1479 2 chr7D.!!$R3 670
11 TraesCS7A01G506000 chrUn 87231788 87232701 913 True 678.000000 678 80.478000 611 1606 1 chrUn.!!$R1 995

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
101 102 0.173029 TCGGCGCGGTTTACAGAATA 59.827 50.0 15.06 0.0 0.0 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2080 2298 0.246635 GGTAGATGATGCGCGGGTAT 59.753 55.0 8.83 1.94 0.0 2.73 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
65 66 7.713734 AAAAACTAAAGTAGGGGGAATAAGC 57.286 36.000 0.00 0.00 0.00 3.09
66 67 6.397217 AAACTAAAGTAGGGGGAATAAGCA 57.603 37.500 0.00 0.00 0.00 3.91
67 68 6.592207 AACTAAAGTAGGGGGAATAAGCAT 57.408 37.500 0.00 0.00 0.00 3.79
68 69 5.941788 ACTAAAGTAGGGGGAATAAGCATG 58.058 41.667 0.00 0.00 0.00 4.06
69 70 4.881157 AAAGTAGGGGGAATAAGCATGT 57.119 40.909 0.00 0.00 0.00 3.21
70 71 3.864789 AGTAGGGGGAATAAGCATGTG 57.135 47.619 0.00 0.00 0.00 3.21
71 72 3.123273 AGTAGGGGGAATAAGCATGTGT 58.877 45.455 0.00 0.00 0.00 3.72
72 73 3.527665 AGTAGGGGGAATAAGCATGTGTT 59.472 43.478 0.00 0.00 0.00 3.32
73 74 3.018423 AGGGGGAATAAGCATGTGTTC 57.982 47.619 0.00 0.00 0.00 3.18
74 75 2.582636 AGGGGGAATAAGCATGTGTTCT 59.417 45.455 0.00 0.00 0.00 3.01
75 76 2.952310 GGGGGAATAAGCATGTGTTCTC 59.048 50.000 0.00 0.00 0.00 2.87
76 77 3.620488 GGGGAATAAGCATGTGTTCTCA 58.380 45.455 0.00 0.00 0.00 3.27
77 78 3.378427 GGGGAATAAGCATGTGTTCTCAC 59.622 47.826 0.00 0.00 44.08 3.51
78 79 3.063997 GGGAATAAGCATGTGTTCTCACG 59.936 47.826 0.00 0.00 46.49 4.35
79 80 3.684788 GGAATAAGCATGTGTTCTCACGT 59.315 43.478 0.00 0.00 46.49 4.49
80 81 4.201724 GGAATAAGCATGTGTTCTCACGTC 60.202 45.833 0.00 0.00 46.49 4.34
81 82 1.512926 AAGCATGTGTTCTCACGTCC 58.487 50.000 0.00 0.00 46.49 4.79
82 83 0.681733 AGCATGTGTTCTCACGTCCT 59.318 50.000 0.00 0.00 46.49 3.85
83 84 1.071605 GCATGTGTTCTCACGTCCTC 58.928 55.000 0.00 0.00 46.49 3.71
84 85 1.340658 CATGTGTTCTCACGTCCTCG 58.659 55.000 0.00 0.00 46.49 4.63
85 86 0.243907 ATGTGTTCTCACGTCCTCGG 59.756 55.000 0.00 0.00 46.49 4.63
86 87 1.733399 GTGTTCTCACGTCCTCGGC 60.733 63.158 0.00 0.00 41.85 5.54
87 88 2.504244 GTTCTCACGTCCTCGGCG 60.504 66.667 0.00 0.00 41.85 6.46
88 89 4.415332 TTCTCACGTCCTCGGCGC 62.415 66.667 0.00 0.00 41.85 6.53
94 95 4.781959 CGTCCTCGGCGCGGTTTA 62.782 66.667 16.40 0.00 0.00 2.01
95 96 3.184003 GTCCTCGGCGCGGTTTAC 61.184 66.667 16.40 2.97 0.00 2.01
96 97 3.682885 TCCTCGGCGCGGTTTACA 61.683 61.111 16.40 0.00 0.00 2.41
97 98 3.186047 CCTCGGCGCGGTTTACAG 61.186 66.667 15.06 4.33 0.00 2.74
98 99 2.126228 CTCGGCGCGGTTTACAGA 60.126 61.111 15.06 0.00 0.00 3.41
99 100 1.735198 CTCGGCGCGGTTTACAGAA 60.735 57.895 15.06 0.00 0.00 3.02
100 101 1.079681 TCGGCGCGGTTTACAGAAT 60.080 52.632 15.06 0.00 0.00 2.40
101 102 0.173029 TCGGCGCGGTTTACAGAATA 59.827 50.000 15.06 0.00 0.00 1.75
102 103 1.000884 CGGCGCGGTTTACAGAATAA 58.999 50.000 8.83 0.00 0.00 1.40
103 104 1.595794 CGGCGCGGTTTACAGAATAAT 59.404 47.619 8.83 0.00 0.00 1.28
104 105 2.598907 CGGCGCGGTTTACAGAATAATG 60.599 50.000 8.83 0.00 0.00 1.90
105 106 2.610374 GGCGCGGTTTACAGAATAATGA 59.390 45.455 8.83 0.00 0.00 2.57
106 107 3.303132 GGCGCGGTTTACAGAATAATGAG 60.303 47.826 8.83 0.00 0.00 2.90
107 108 3.303132 GCGCGGTTTACAGAATAATGAGG 60.303 47.826 8.83 0.00 0.00 3.86
108 109 3.869246 CGCGGTTTACAGAATAATGAGGT 59.131 43.478 0.00 0.00 0.00 3.85
109 110 5.045215 CGCGGTTTACAGAATAATGAGGTA 58.955 41.667 0.00 0.00 0.00 3.08
110 111 5.175126 CGCGGTTTACAGAATAATGAGGTAG 59.825 44.000 0.00 0.00 0.00 3.18
111 112 6.278363 GCGGTTTACAGAATAATGAGGTAGA 58.722 40.000 0.00 0.00 0.00 2.59
112 113 6.929606 GCGGTTTACAGAATAATGAGGTAGAT 59.070 38.462 0.00 0.00 0.00 1.98
113 114 7.441458 GCGGTTTACAGAATAATGAGGTAGATT 59.559 37.037 0.00 0.00 0.00 2.40
114 115 9.976511 CGGTTTACAGAATAATGAGGTAGATTA 57.023 33.333 0.00 0.00 0.00 1.75
119 120 8.423906 ACAGAATAATGAGGTAGATTATCCGT 57.576 34.615 0.00 0.00 0.00 4.69
120 121 8.871125 ACAGAATAATGAGGTAGATTATCCGTT 58.129 33.333 0.00 0.00 0.00 4.44
121 122 9.712305 CAGAATAATGAGGTAGATTATCCGTTT 57.288 33.333 0.00 0.00 0.00 3.60
125 126 7.568199 AATGAGGTAGATTATCCGTTTTTGG 57.432 36.000 0.00 0.00 0.00 3.28
126 127 6.302535 TGAGGTAGATTATCCGTTTTTGGA 57.697 37.500 0.00 0.00 43.58 3.53
127 128 6.346096 TGAGGTAGATTATCCGTTTTTGGAG 58.654 40.000 0.00 0.00 42.45 3.86
128 129 6.070424 TGAGGTAGATTATCCGTTTTTGGAGT 60.070 38.462 0.00 0.00 42.45 3.85
129 130 6.113411 AGGTAGATTATCCGTTTTTGGAGTG 58.887 40.000 0.00 0.00 42.45 3.51
130 131 6.070424 AGGTAGATTATCCGTTTTTGGAGTGA 60.070 38.462 0.00 0.00 42.45 3.41
131 132 6.596497 GGTAGATTATCCGTTTTTGGAGTGAA 59.404 38.462 0.00 0.00 42.45 3.18
132 133 6.743575 AGATTATCCGTTTTTGGAGTGAAG 57.256 37.500 0.00 0.00 42.45 3.02
133 134 5.648092 AGATTATCCGTTTTTGGAGTGAAGG 59.352 40.000 0.00 0.00 42.45 3.46
134 135 2.721425 TCCGTTTTTGGAGTGAAGGT 57.279 45.000 0.00 0.00 33.05 3.50
135 136 3.842007 TCCGTTTTTGGAGTGAAGGTA 57.158 42.857 0.00 0.00 33.05 3.08
136 137 4.360951 TCCGTTTTTGGAGTGAAGGTAT 57.639 40.909 0.00 0.00 33.05 2.73
137 138 4.069304 TCCGTTTTTGGAGTGAAGGTATG 58.931 43.478 0.00 0.00 33.05 2.39
138 139 3.818773 CCGTTTTTGGAGTGAAGGTATGT 59.181 43.478 0.00 0.00 0.00 2.29
139 140 4.998672 CCGTTTTTGGAGTGAAGGTATGTA 59.001 41.667 0.00 0.00 0.00 2.29
140 141 5.470777 CCGTTTTTGGAGTGAAGGTATGTAA 59.529 40.000 0.00 0.00 0.00 2.41
141 142 6.150474 CCGTTTTTGGAGTGAAGGTATGTAAT 59.850 38.462 0.00 0.00 0.00 1.89
142 143 7.334921 CCGTTTTTGGAGTGAAGGTATGTAATA 59.665 37.037 0.00 0.00 0.00 0.98
143 144 8.889717 CGTTTTTGGAGTGAAGGTATGTAATAT 58.110 33.333 0.00 0.00 0.00 1.28
145 146 9.747898 TTTTTGGAGTGAAGGTATGTAATATGT 57.252 29.630 0.00 0.00 0.00 2.29
146 147 8.731275 TTTGGAGTGAAGGTATGTAATATGTG 57.269 34.615 0.00 0.00 0.00 3.21
147 148 6.288294 TGGAGTGAAGGTATGTAATATGTGC 58.712 40.000 0.00 0.00 0.00 4.57
148 149 5.701290 GGAGTGAAGGTATGTAATATGTGCC 59.299 44.000 0.00 0.00 0.00 5.01
149 150 6.464465 GGAGTGAAGGTATGTAATATGTGCCT 60.464 42.308 0.00 0.00 0.00 4.75
150 151 6.291377 AGTGAAGGTATGTAATATGTGCCTG 58.709 40.000 0.00 0.00 0.00 4.85
151 152 5.470098 GTGAAGGTATGTAATATGTGCCTGG 59.530 44.000 0.00 0.00 0.00 4.45
152 153 5.131977 TGAAGGTATGTAATATGTGCCTGGT 59.868 40.000 0.00 0.00 0.00 4.00
153 154 5.228945 AGGTATGTAATATGTGCCTGGTC 57.771 43.478 0.00 0.00 0.00 4.02
154 155 4.658435 AGGTATGTAATATGTGCCTGGTCA 59.342 41.667 0.00 0.00 0.00 4.02
155 156 5.131977 AGGTATGTAATATGTGCCTGGTCAA 59.868 40.000 0.00 0.00 0.00 3.18
156 157 6.003950 GGTATGTAATATGTGCCTGGTCAAT 58.996 40.000 0.00 0.00 0.00 2.57
157 158 6.490040 GGTATGTAATATGTGCCTGGTCAATT 59.510 38.462 0.00 2.39 0.00 2.32
158 159 5.833406 TGTAATATGTGCCTGGTCAATTG 57.167 39.130 0.00 0.00 0.00 2.32
159 160 5.260424 TGTAATATGTGCCTGGTCAATTGT 58.740 37.500 5.13 0.00 0.00 2.71
160 161 5.714333 TGTAATATGTGCCTGGTCAATTGTT 59.286 36.000 5.13 0.00 0.00 2.83
161 162 4.724074 ATATGTGCCTGGTCAATTGTTG 57.276 40.909 5.13 0.00 0.00 3.33
162 163 2.064434 TGTGCCTGGTCAATTGTTGA 57.936 45.000 5.13 0.00 37.33 3.18
163 164 1.955778 TGTGCCTGGTCAATTGTTGAG 59.044 47.619 5.13 0.00 41.01 3.02
164 165 1.956477 GTGCCTGGTCAATTGTTGAGT 59.044 47.619 5.13 0.00 41.01 3.41
165 166 1.955778 TGCCTGGTCAATTGTTGAGTG 59.044 47.619 5.13 0.00 41.01 3.51
166 167 1.956477 GCCTGGTCAATTGTTGAGTGT 59.044 47.619 5.13 0.00 41.01 3.55
167 168 2.030805 GCCTGGTCAATTGTTGAGTGTC 60.031 50.000 5.13 0.00 41.01 3.67
168 169 2.224079 CCTGGTCAATTGTTGAGTGTCG 59.776 50.000 5.13 0.00 41.01 4.35
169 170 3.130633 CTGGTCAATTGTTGAGTGTCGA 58.869 45.455 5.13 0.00 41.01 4.20
170 171 3.536570 TGGTCAATTGTTGAGTGTCGAA 58.463 40.909 5.13 0.00 41.01 3.71
171 172 3.559655 TGGTCAATTGTTGAGTGTCGAAG 59.440 43.478 5.13 0.00 41.01 3.79
172 173 3.545633 GTCAATTGTTGAGTGTCGAAGC 58.454 45.455 5.13 0.00 41.01 3.86
173 174 2.220824 TCAATTGTTGAGTGTCGAAGCG 59.779 45.455 5.13 0.00 34.08 4.68
174 175 1.148310 ATTGTTGAGTGTCGAAGCGG 58.852 50.000 0.00 0.00 0.00 5.52
175 176 0.179094 TTGTTGAGTGTCGAAGCGGT 60.179 50.000 0.00 0.00 0.00 5.68
176 177 0.874175 TGTTGAGTGTCGAAGCGGTG 60.874 55.000 0.00 0.00 0.00 4.94
177 178 1.300620 TTGAGTGTCGAAGCGGTGG 60.301 57.895 0.00 0.00 0.00 4.61
178 179 2.023414 TTGAGTGTCGAAGCGGTGGT 62.023 55.000 0.00 0.00 0.00 4.16
179 180 1.300697 GAGTGTCGAAGCGGTGGTT 60.301 57.895 0.00 0.00 0.00 3.67
180 181 1.557443 GAGTGTCGAAGCGGTGGTTG 61.557 60.000 0.00 0.00 0.00 3.77
181 182 1.593209 GTGTCGAAGCGGTGGTTGA 60.593 57.895 0.00 0.00 0.00 3.18
182 183 0.949105 GTGTCGAAGCGGTGGTTGAT 60.949 55.000 0.00 0.00 0.00 2.57
183 184 0.604073 TGTCGAAGCGGTGGTTGATA 59.396 50.000 0.00 0.00 0.00 2.15
184 185 1.206132 TGTCGAAGCGGTGGTTGATAT 59.794 47.619 0.00 0.00 0.00 1.63
185 186 2.277084 GTCGAAGCGGTGGTTGATATT 58.723 47.619 0.00 0.00 0.00 1.28
186 187 2.676342 GTCGAAGCGGTGGTTGATATTT 59.324 45.455 0.00 0.00 0.00 1.40
187 188 2.933906 TCGAAGCGGTGGTTGATATTTC 59.066 45.455 0.00 0.00 0.00 2.17
188 189 2.936498 CGAAGCGGTGGTTGATATTTCT 59.064 45.455 0.00 0.00 0.00 2.52
189 190 3.001330 CGAAGCGGTGGTTGATATTTCTC 59.999 47.826 0.00 0.00 0.00 2.87
190 191 2.919228 AGCGGTGGTTGATATTTCTCC 58.081 47.619 0.00 0.00 0.00 3.71
191 192 1.947456 GCGGTGGTTGATATTTCTCCC 59.053 52.381 0.00 0.00 0.00 4.30
192 193 2.682563 GCGGTGGTTGATATTTCTCCCA 60.683 50.000 0.00 0.00 0.00 4.37
193 194 2.943033 CGGTGGTTGATATTTCTCCCAC 59.057 50.000 12.87 12.87 40.07 4.61
194 195 3.370527 CGGTGGTTGATATTTCTCCCACT 60.371 47.826 17.48 0.00 40.37 4.00
195 196 4.200092 GGTGGTTGATATTTCTCCCACTC 58.800 47.826 17.48 9.28 40.37 3.51
196 197 4.324254 GGTGGTTGATATTTCTCCCACTCA 60.324 45.833 17.48 0.00 40.37 3.41
197 198 5.440610 GTGGTTGATATTTCTCCCACTCAT 58.559 41.667 13.55 0.00 38.86 2.90
198 199 5.297776 GTGGTTGATATTTCTCCCACTCATG 59.702 44.000 13.55 0.00 38.86 3.07
199 200 5.044919 TGGTTGATATTTCTCCCACTCATGT 60.045 40.000 0.00 0.00 0.00 3.21
200 201 5.297776 GGTTGATATTTCTCCCACTCATGTG 59.702 44.000 0.00 0.00 43.45 3.21
201 202 4.454678 TGATATTTCTCCCACTCATGTGC 58.545 43.478 0.00 0.00 42.54 4.57
202 203 2.134789 ATTTCTCCCACTCATGTGCC 57.865 50.000 0.00 0.00 42.54 5.01
203 204 0.321564 TTTCTCCCACTCATGTGCCG 60.322 55.000 0.00 0.00 42.54 5.69
204 205 2.124983 CTCCCACTCATGTGCCGG 60.125 66.667 0.00 0.00 42.54 6.13
205 206 2.927856 TCCCACTCATGTGCCGGT 60.928 61.111 1.90 0.00 42.54 5.28
206 207 2.747460 CCCACTCATGTGCCGGTG 60.747 66.667 1.90 0.00 42.54 4.94
207 208 2.032528 CCACTCATGTGCCGGTGT 59.967 61.111 1.90 0.00 42.54 4.16
208 209 1.295101 CCACTCATGTGCCGGTGTA 59.705 57.895 1.90 0.00 42.54 2.90
209 210 0.740868 CCACTCATGTGCCGGTGTAG 60.741 60.000 1.90 0.00 42.54 2.74
210 211 0.246360 CACTCATGTGCCGGTGTAGA 59.754 55.000 1.90 0.00 37.38 2.59
211 212 0.973632 ACTCATGTGCCGGTGTAGAA 59.026 50.000 1.90 0.00 0.00 2.10
212 213 1.346395 ACTCATGTGCCGGTGTAGAAA 59.654 47.619 1.90 0.00 0.00 2.52
213 214 1.732259 CTCATGTGCCGGTGTAGAAAC 59.268 52.381 1.90 0.00 0.00 2.78
214 215 1.070914 TCATGTGCCGGTGTAGAAACA 59.929 47.619 1.90 0.00 0.00 2.83
215 216 1.876799 CATGTGCCGGTGTAGAAACAA 59.123 47.619 1.90 0.00 37.36 2.83
216 217 2.264005 TGTGCCGGTGTAGAAACAAT 57.736 45.000 1.90 0.00 37.36 2.71
217 218 1.876799 TGTGCCGGTGTAGAAACAATG 59.123 47.619 1.90 0.00 37.36 2.82
218 219 0.878416 TGCCGGTGTAGAAACAATGC 59.122 50.000 1.90 0.00 37.36 3.56
219 220 1.165270 GCCGGTGTAGAAACAATGCT 58.835 50.000 1.90 0.00 37.36 3.79
220 221 2.289756 TGCCGGTGTAGAAACAATGCTA 60.290 45.455 1.90 0.00 37.36 3.49
221 222 2.095372 GCCGGTGTAGAAACAATGCTAC 59.905 50.000 1.90 0.00 37.36 3.58
222 223 3.331150 CCGGTGTAGAAACAATGCTACA 58.669 45.455 0.00 0.00 43.26 2.74
227 228 3.751175 TGTAGAAACAATGCTACACTGGC 59.249 43.478 0.00 0.00 41.31 4.85
228 229 2.162681 AGAAACAATGCTACACTGGCC 58.837 47.619 0.00 0.00 0.00 5.36
229 230 2.162681 GAAACAATGCTACACTGGCCT 58.837 47.619 3.32 0.00 0.00 5.19
230 231 3.009033 AGAAACAATGCTACACTGGCCTA 59.991 43.478 3.32 0.00 0.00 3.93
231 232 3.433306 AACAATGCTACACTGGCCTAA 57.567 42.857 3.32 0.00 0.00 2.69
232 233 2.991250 ACAATGCTACACTGGCCTAAG 58.009 47.619 3.32 0.00 0.00 2.18
233 234 2.305927 ACAATGCTACACTGGCCTAAGT 59.694 45.455 3.32 0.00 0.00 2.24
234 235 2.939103 CAATGCTACACTGGCCTAAGTC 59.061 50.000 3.32 0.00 0.00 3.01
235 236 1.938585 TGCTACACTGGCCTAAGTCT 58.061 50.000 3.32 0.00 0.00 3.24
236 237 1.550524 TGCTACACTGGCCTAAGTCTG 59.449 52.381 3.32 0.00 0.00 3.51
237 238 1.740718 GCTACACTGGCCTAAGTCTGC 60.741 57.143 3.32 4.48 0.00 4.26
238 239 1.827969 CTACACTGGCCTAAGTCTGCT 59.172 52.381 3.32 0.00 0.00 4.24
239 240 0.610687 ACACTGGCCTAAGTCTGCTC 59.389 55.000 3.32 0.00 0.00 4.26
240 241 0.610174 CACTGGCCTAAGTCTGCTCA 59.390 55.000 3.32 0.00 0.00 4.26
241 242 1.209019 CACTGGCCTAAGTCTGCTCAT 59.791 52.381 3.32 0.00 0.00 2.90
242 243 2.432146 CACTGGCCTAAGTCTGCTCATA 59.568 50.000 3.32 0.00 0.00 2.15
243 244 3.107601 ACTGGCCTAAGTCTGCTCATAA 58.892 45.455 3.32 0.00 0.00 1.90
244 245 3.713764 ACTGGCCTAAGTCTGCTCATAAT 59.286 43.478 3.32 0.00 0.00 1.28
245 246 4.202305 ACTGGCCTAAGTCTGCTCATAATC 60.202 45.833 3.32 0.00 0.00 1.75
246 247 3.711190 TGGCCTAAGTCTGCTCATAATCA 59.289 43.478 3.32 0.00 0.00 2.57
247 248 4.164030 TGGCCTAAGTCTGCTCATAATCAA 59.836 41.667 3.32 0.00 0.00 2.57
248 249 5.126067 GGCCTAAGTCTGCTCATAATCAAA 58.874 41.667 0.00 0.00 0.00 2.69
249 250 5.008118 GGCCTAAGTCTGCTCATAATCAAAC 59.992 44.000 0.00 0.00 0.00 2.93
250 251 5.819901 GCCTAAGTCTGCTCATAATCAAACT 59.180 40.000 0.00 0.00 0.00 2.66
251 252 6.986817 GCCTAAGTCTGCTCATAATCAAACTA 59.013 38.462 0.00 0.00 0.00 2.24
252 253 7.495934 GCCTAAGTCTGCTCATAATCAAACTAA 59.504 37.037 0.00 0.00 0.00 2.24
253 254 9.553064 CCTAAGTCTGCTCATAATCAAACTAAT 57.447 33.333 0.00 0.00 0.00 1.73
268 269 9.787532 AATCAAACTAATATTGAACGTTCATGG 57.212 29.630 30.10 19.35 39.98 3.66
269 270 7.757526 TCAAACTAATATTGAACGTTCATGGG 58.242 34.615 30.10 18.31 37.00 4.00
270 271 6.693315 AACTAATATTGAACGTTCATGGGG 57.307 37.500 30.10 19.21 37.00 4.96
271 272 5.751586 ACTAATATTGAACGTTCATGGGGT 58.248 37.500 30.10 19.76 37.00 4.95
272 273 6.184789 ACTAATATTGAACGTTCATGGGGTT 58.815 36.000 30.10 20.74 37.00 4.11
273 274 7.340256 ACTAATATTGAACGTTCATGGGGTTA 58.660 34.615 30.10 20.75 37.00 2.85
274 275 7.996644 ACTAATATTGAACGTTCATGGGGTTAT 59.003 33.333 30.10 20.29 37.00 1.89
275 276 7.654022 AATATTGAACGTTCATGGGGTTATT 57.346 32.000 30.10 20.22 37.00 1.40
276 277 5.576447 ATTGAACGTTCATGGGGTTATTC 57.424 39.130 30.10 0.00 37.00 1.75
277 278 3.349022 TGAACGTTCATGGGGTTATTCC 58.651 45.455 26.53 0.00 31.01 3.01
278 279 2.032680 ACGTTCATGGGGTTATTCCG 57.967 50.000 0.00 0.00 37.00 4.30
285 286 6.327154 GTTCATGGGGTTATTCCGTTAAAAG 58.673 40.000 0.00 0.00 37.00 2.27
309 310 8.240883 AGTTGAGCGTAGTTAAAATAGAGTTG 57.759 34.615 0.00 0.00 0.00 3.16
349 353 1.000506 TGAACGTTCCAGAGGTAGCAC 59.999 52.381 24.78 0.00 0.00 4.40
373 377 2.554272 CTGGTTGCGCCGTGTTAC 59.446 61.111 4.18 0.00 41.21 2.50
374 378 2.961669 CTGGTTGCGCCGTGTTACC 61.962 63.158 4.18 3.45 41.21 2.85
377 381 2.048033 TTGCGCCGTGTTACCGAT 60.048 55.556 4.18 0.00 0.00 4.18
379 383 0.802994 TTGCGCCGTGTTACCGATAG 60.803 55.000 4.18 0.00 0.00 2.08
386 390 2.190981 CGTGTTACCGATAGTGCTTCC 58.809 52.381 0.00 0.00 0.00 3.46
409 413 4.026804 CGAATTTGTATCGGCAGACTGTAC 60.027 45.833 3.99 0.00 36.68 2.90
410 414 2.554806 TTGTATCGGCAGACTGTACG 57.445 50.000 13.30 13.30 0.00 3.67
437 441 4.569719 TCCTGAGGAATAAAACCCACTC 57.430 45.455 0.00 0.00 0.00 3.51
445 449 6.610830 AGGAATAAAACCCACTCTTTCTTCA 58.389 36.000 0.00 0.00 0.00 3.02
446 450 6.490381 AGGAATAAAACCCACTCTTTCTTCAC 59.510 38.462 0.00 0.00 0.00 3.18
474 480 6.833342 AAATGTTGAGTGCTGAAAATGAAC 57.167 33.333 0.00 0.00 0.00 3.18
480 488 3.694734 AGTGCTGAAAATGAACAACACG 58.305 40.909 0.00 0.00 37.90 4.49
517 526 6.595716 ACGTGAAATATTTCTCTTTCTCCCAG 59.404 38.462 24.77 10.56 38.02 4.45
703 729 3.047877 GTGGGAAACACCGGCGAG 61.048 66.667 9.30 2.48 44.49 5.03
707 733 3.423154 GAAACACCGGCGAGCCAG 61.423 66.667 9.30 5.27 35.37 4.85
764 807 4.941309 GGAACCACCCGCAACCGT 62.941 66.667 0.00 0.00 0.00 4.83
780 826 2.783288 CGTAACCGCCTCCTCCTCC 61.783 68.421 0.00 0.00 0.00 4.30
781 827 2.042230 TAACCGCCTCCTCCTCCC 60.042 66.667 0.00 0.00 0.00 4.30
782 828 2.633557 TAACCGCCTCCTCCTCCCT 61.634 63.158 0.00 0.00 0.00 4.20
1180 1292 1.542187 GGAGGACCACTACCGCACTT 61.542 60.000 0.00 0.00 35.97 3.16
1493 1671 0.038166 AATCTCAAGGGCCGCTTTGA 59.962 50.000 13.31 13.31 32.75 2.69
1494 1672 0.257039 ATCTCAAGGGCCGCTTTGAT 59.743 50.000 14.08 12.15 33.25 2.57
1495 1673 0.038166 TCTCAAGGGCCGCTTTGATT 59.962 50.000 14.08 0.00 33.25 2.57
1496 1674 0.453390 CTCAAGGGCCGCTTTGATTC 59.547 55.000 14.08 0.00 33.25 2.52
1497 1675 0.965363 TCAAGGGCCGCTTTGATTCC 60.965 55.000 10.78 0.00 0.00 3.01
1498 1676 0.967380 CAAGGGCCGCTTTGATTCCT 60.967 55.000 0.00 0.00 0.00 3.36
1542 1721 6.129300 GCGCTGTAAATAATTTGTGAAACGTT 60.129 34.615 0.00 0.00 42.39 3.99
1599 1790 3.953766 CGAGCTAGAGACGCAGAAATTA 58.046 45.455 0.00 0.00 0.00 1.40
1666 1865 8.465999 TGTCAATACAAATAAAACATAGCAGGG 58.534 33.333 0.00 0.00 30.91 4.45
1704 1907 2.219674 GCTCATGATTAACGCCTCTTCG 59.780 50.000 0.00 0.00 0.00 3.79
1775 1992 1.002366 CCACTGACTACTGAATGCGC 58.998 55.000 0.00 0.00 0.00 6.09
1834 2052 6.150140 AGTCTATCAATTTCCAGTTCTTGCAC 59.850 38.462 0.00 0.00 0.00 4.57
1853 2071 2.224079 CACGTGAAATGCTAGCAACTGT 59.776 45.455 23.54 13.79 0.00 3.55
1910 2128 8.149647 TGCATTTTCCAGTTAAAAAGACATGAT 58.850 29.630 0.00 0.00 32.42 2.45
1945 2163 2.093500 CCACTGGATGTTTGATCCTCGA 60.093 50.000 0.00 0.00 38.95 4.04
1965 2183 3.066342 CGATGCATTTCCTTCTGAAGCAT 59.934 43.478 11.93 11.40 43.60 3.79
1969 2187 3.734293 GCATTTCCTTCTGAAGCATCTGC 60.734 47.826 11.93 12.90 42.49 4.26
2015 2233 0.533755 ATCATGCAAGCGGACTAGCC 60.534 55.000 0.00 0.00 38.01 3.93
2040 2258 5.162000 GCAAGGACTGTAATTGCTCATAC 57.838 43.478 17.47 0.00 44.57 2.39
2041 2259 4.635765 GCAAGGACTGTAATTGCTCATACA 59.364 41.667 17.47 0.00 44.57 2.29
2053 2271 9.672673 GTAATTGCTCATACATTATCTACCCAT 57.327 33.333 0.00 0.00 0.00 4.00
2057 2275 8.621532 TGCTCATACATTATCTACCCATTTTC 57.378 34.615 0.00 0.00 0.00 2.29
2080 2298 5.092554 TGTTCTATGGGCGATAAACAAGA 57.907 39.130 11.65 0.00 0.00 3.02
2081 2299 5.680619 TGTTCTATGGGCGATAAACAAGAT 58.319 37.500 11.65 0.00 0.00 2.40
2082 2300 6.822442 TGTTCTATGGGCGATAAACAAGATA 58.178 36.000 11.65 0.00 0.00 1.98
2084 2302 5.790593 TCTATGGGCGATAAACAAGATACC 58.209 41.667 0.00 0.00 0.00 2.73
2085 2303 3.202829 TGGGCGATAAACAAGATACCC 57.797 47.619 0.00 0.00 36.60 3.69
2095 2320 0.792640 CAAGATACCCGCGCATCATC 59.207 55.000 8.75 4.13 0.00 2.92
2100 2325 2.137425 TACCCGCGCATCATCTACCG 62.137 60.000 8.75 0.00 0.00 4.02
2105 2330 1.326245 CGCGCATCATCTACCGAAAAA 59.674 47.619 8.75 0.00 0.00 1.94
2235 2460 4.576053 TGAGTAGCCATGATGCAATGTTAC 59.424 41.667 0.00 0.00 0.00 2.50
2301 2526 4.603989 TGCCAATGTCACAACAATTCAT 57.396 36.364 0.00 0.00 39.30 2.57
2369 4825 7.499321 AATTTCAACACAACCTTACGTATGA 57.501 32.000 9.88 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 7.243091 TGCTTATTCCCCCTACTTTAGTTTTT 58.757 34.615 0.00 0.00 0.00 1.94
42 43 6.796648 TGCTTATTCCCCCTACTTTAGTTTT 58.203 36.000 0.00 0.00 0.00 2.43
43 44 6.397217 TGCTTATTCCCCCTACTTTAGTTT 57.603 37.500 0.00 0.00 0.00 2.66
44 45 6.069029 ACATGCTTATTCCCCCTACTTTAGTT 60.069 38.462 0.00 0.00 0.00 2.24
45 46 5.432060 ACATGCTTATTCCCCCTACTTTAGT 59.568 40.000 0.00 0.00 0.00 2.24
46 47 5.765182 CACATGCTTATTCCCCCTACTTTAG 59.235 44.000 0.00 0.00 0.00 1.85
47 48 5.192923 ACACATGCTTATTCCCCCTACTTTA 59.807 40.000 0.00 0.00 0.00 1.85
48 49 4.017499 ACACATGCTTATTCCCCCTACTTT 60.017 41.667 0.00 0.00 0.00 2.66
49 50 3.527665 ACACATGCTTATTCCCCCTACTT 59.472 43.478 0.00 0.00 0.00 2.24
50 51 3.123273 ACACATGCTTATTCCCCCTACT 58.877 45.455 0.00 0.00 0.00 2.57
51 52 3.577805 ACACATGCTTATTCCCCCTAC 57.422 47.619 0.00 0.00 0.00 3.18
52 53 3.785887 AGAACACATGCTTATTCCCCCTA 59.214 43.478 0.00 0.00 0.00 3.53
53 54 2.582636 AGAACACATGCTTATTCCCCCT 59.417 45.455 0.00 0.00 0.00 4.79
54 55 2.952310 GAGAACACATGCTTATTCCCCC 59.048 50.000 0.00 0.00 0.00 5.40
55 56 3.378427 GTGAGAACACATGCTTATTCCCC 59.622 47.826 0.00 0.00 45.32 4.81
56 57 3.063997 CGTGAGAACACATGCTTATTCCC 59.936 47.826 0.00 0.00 46.20 3.97
57 58 3.684788 ACGTGAGAACACATGCTTATTCC 59.315 43.478 0.00 0.00 46.20 3.01
58 59 4.201724 GGACGTGAGAACACATGCTTATTC 60.202 45.833 0.00 0.00 46.20 1.75
59 60 3.684788 GGACGTGAGAACACATGCTTATT 59.315 43.478 0.00 0.00 46.20 1.40
60 61 3.055819 AGGACGTGAGAACACATGCTTAT 60.056 43.478 0.00 0.00 46.20 1.73
61 62 2.299013 AGGACGTGAGAACACATGCTTA 59.701 45.455 0.00 0.00 46.20 3.09
62 63 1.070758 AGGACGTGAGAACACATGCTT 59.929 47.619 0.00 0.00 46.20 3.91
63 64 0.681733 AGGACGTGAGAACACATGCT 59.318 50.000 0.00 0.00 46.20 3.79
64 65 1.071605 GAGGACGTGAGAACACATGC 58.928 55.000 0.00 0.00 46.20 4.06
65 66 1.340658 CGAGGACGTGAGAACACATG 58.659 55.000 0.00 0.00 46.20 3.21
66 67 0.243907 CCGAGGACGTGAGAACACAT 59.756 55.000 0.00 0.00 46.20 3.21
67 68 1.658114 CCGAGGACGTGAGAACACA 59.342 57.895 0.00 0.00 46.20 3.72
68 69 1.733399 GCCGAGGACGTGAGAACAC 60.733 63.158 0.00 0.00 42.88 3.32
69 70 2.649034 GCCGAGGACGTGAGAACA 59.351 61.111 0.00 0.00 37.88 3.18
70 71 2.504244 CGCCGAGGACGTGAGAAC 60.504 66.667 0.00 0.00 37.88 3.01
71 72 4.415332 GCGCCGAGGACGTGAGAA 62.415 66.667 0.00 0.00 37.88 2.87
77 78 4.781959 TAAACCGCGCCGAGGACG 62.782 66.667 15.49 0.00 39.43 4.79
78 79 3.184003 GTAAACCGCGCCGAGGAC 61.184 66.667 15.49 0.00 0.00 3.85
79 80 3.636313 CTGTAAACCGCGCCGAGGA 62.636 63.158 15.49 0.00 0.00 3.71
80 81 3.186047 CTGTAAACCGCGCCGAGG 61.186 66.667 4.98 4.98 0.00 4.63
81 82 1.082117 ATTCTGTAAACCGCGCCGAG 61.082 55.000 0.00 0.00 0.00 4.63
82 83 0.173029 TATTCTGTAAACCGCGCCGA 59.827 50.000 0.00 0.00 0.00 5.54
83 84 1.000884 TTATTCTGTAAACCGCGCCG 58.999 50.000 0.00 0.00 0.00 6.46
84 85 2.610374 TCATTATTCTGTAAACCGCGCC 59.390 45.455 0.00 0.00 0.00 6.53
85 86 3.303132 CCTCATTATTCTGTAAACCGCGC 60.303 47.826 0.00 0.00 0.00 6.86
86 87 3.869246 ACCTCATTATTCTGTAAACCGCG 59.131 43.478 0.00 0.00 0.00 6.46
87 88 6.278363 TCTACCTCATTATTCTGTAAACCGC 58.722 40.000 0.00 0.00 0.00 5.68
88 89 8.888579 AATCTACCTCATTATTCTGTAAACCG 57.111 34.615 0.00 0.00 0.00 4.44
93 94 9.529823 ACGGATAATCTACCTCATTATTCTGTA 57.470 33.333 0.00 0.00 0.00 2.74
94 95 8.423906 ACGGATAATCTACCTCATTATTCTGT 57.576 34.615 0.00 0.00 0.00 3.41
95 96 9.712305 AAACGGATAATCTACCTCATTATTCTG 57.288 33.333 0.00 0.00 0.00 3.02
99 100 9.284968 CCAAAAACGGATAATCTACCTCATTAT 57.715 33.333 0.00 0.00 0.00 1.28
100 101 8.487848 TCCAAAAACGGATAATCTACCTCATTA 58.512 33.333 0.00 0.00 0.00 1.90
101 102 7.343357 TCCAAAAACGGATAATCTACCTCATT 58.657 34.615 0.00 0.00 0.00 2.57
102 103 6.895782 TCCAAAAACGGATAATCTACCTCAT 58.104 36.000 0.00 0.00 0.00 2.90
103 104 6.070424 ACTCCAAAAACGGATAATCTACCTCA 60.070 38.462 0.00 0.00 33.56 3.86
104 105 6.258068 CACTCCAAAAACGGATAATCTACCTC 59.742 42.308 0.00 0.00 33.56 3.85
105 106 6.070424 TCACTCCAAAAACGGATAATCTACCT 60.070 38.462 0.00 0.00 33.56 3.08
106 107 6.110707 TCACTCCAAAAACGGATAATCTACC 58.889 40.000 0.00 0.00 33.56 3.18
107 108 7.201617 CCTTCACTCCAAAAACGGATAATCTAC 60.202 40.741 0.00 0.00 33.56 2.59
108 109 6.821665 CCTTCACTCCAAAAACGGATAATCTA 59.178 38.462 0.00 0.00 33.56 1.98
109 110 5.648092 CCTTCACTCCAAAAACGGATAATCT 59.352 40.000 0.00 0.00 33.56 2.40
110 111 5.414765 ACCTTCACTCCAAAAACGGATAATC 59.585 40.000 0.00 0.00 33.56 1.75
111 112 5.321927 ACCTTCACTCCAAAAACGGATAAT 58.678 37.500 0.00 0.00 33.56 1.28
112 113 4.721132 ACCTTCACTCCAAAAACGGATAA 58.279 39.130 0.00 0.00 33.56 1.75
113 114 4.360951 ACCTTCACTCCAAAAACGGATA 57.639 40.909 0.00 0.00 33.56 2.59
114 115 3.223674 ACCTTCACTCCAAAAACGGAT 57.776 42.857 0.00 0.00 33.56 4.18
115 116 2.721425 ACCTTCACTCCAAAAACGGA 57.279 45.000 0.00 0.00 0.00 4.69
116 117 3.818773 ACATACCTTCACTCCAAAAACGG 59.181 43.478 0.00 0.00 0.00 4.44
117 118 6.548441 TTACATACCTTCACTCCAAAAACG 57.452 37.500 0.00 0.00 0.00 3.60
119 120 9.747898 ACATATTACATACCTTCACTCCAAAAA 57.252 29.630 0.00 0.00 0.00 1.94
120 121 9.173021 CACATATTACATACCTTCACTCCAAAA 57.827 33.333 0.00 0.00 0.00 2.44
121 122 7.282224 GCACATATTACATACCTTCACTCCAAA 59.718 37.037 0.00 0.00 0.00 3.28
122 123 6.765989 GCACATATTACATACCTTCACTCCAA 59.234 38.462 0.00 0.00 0.00 3.53
123 124 6.288294 GCACATATTACATACCTTCACTCCA 58.712 40.000 0.00 0.00 0.00 3.86
124 125 5.701290 GGCACATATTACATACCTTCACTCC 59.299 44.000 0.00 0.00 0.00 3.85
125 126 6.425114 CAGGCACATATTACATACCTTCACTC 59.575 42.308 0.00 0.00 0.00 3.51
126 127 6.291377 CAGGCACATATTACATACCTTCACT 58.709 40.000 0.00 0.00 0.00 3.41
127 128 5.470098 CCAGGCACATATTACATACCTTCAC 59.530 44.000 0.00 0.00 0.00 3.18
128 129 5.131977 ACCAGGCACATATTACATACCTTCA 59.868 40.000 0.00 0.00 0.00 3.02
129 130 5.621193 ACCAGGCACATATTACATACCTTC 58.379 41.667 0.00 0.00 0.00 3.46
130 131 5.131977 TGACCAGGCACATATTACATACCTT 59.868 40.000 0.00 0.00 0.00 3.50
131 132 4.658435 TGACCAGGCACATATTACATACCT 59.342 41.667 0.00 0.00 0.00 3.08
132 133 4.968259 TGACCAGGCACATATTACATACC 58.032 43.478 0.00 0.00 0.00 2.73
133 134 7.013274 ACAATTGACCAGGCACATATTACATAC 59.987 37.037 13.59 0.00 0.00 2.39
134 135 7.059788 ACAATTGACCAGGCACATATTACATA 58.940 34.615 13.59 0.00 0.00 2.29
135 136 5.893255 ACAATTGACCAGGCACATATTACAT 59.107 36.000 13.59 0.00 0.00 2.29
136 137 5.260424 ACAATTGACCAGGCACATATTACA 58.740 37.500 13.59 0.00 0.00 2.41
137 138 5.835113 ACAATTGACCAGGCACATATTAC 57.165 39.130 13.59 0.00 0.00 1.89
138 139 5.948758 TCAACAATTGACCAGGCACATATTA 59.051 36.000 13.59 0.00 34.08 0.98
139 140 4.771577 TCAACAATTGACCAGGCACATATT 59.228 37.500 13.59 0.00 34.08 1.28
140 141 4.343231 TCAACAATTGACCAGGCACATAT 58.657 39.130 13.59 0.00 34.08 1.78
141 142 3.758023 CTCAACAATTGACCAGGCACATA 59.242 43.478 13.59 0.00 35.46 2.29
142 143 2.559668 CTCAACAATTGACCAGGCACAT 59.440 45.455 13.59 0.00 35.46 3.21
143 144 1.955778 CTCAACAATTGACCAGGCACA 59.044 47.619 13.59 0.00 35.46 4.57
144 145 1.956477 ACTCAACAATTGACCAGGCAC 59.044 47.619 13.59 0.00 35.46 5.01
145 146 1.955778 CACTCAACAATTGACCAGGCA 59.044 47.619 13.59 0.00 35.46 4.75
146 147 1.956477 ACACTCAACAATTGACCAGGC 59.044 47.619 13.59 0.00 35.46 4.85
147 148 2.224079 CGACACTCAACAATTGACCAGG 59.776 50.000 13.59 0.93 35.46 4.45
148 149 3.130633 TCGACACTCAACAATTGACCAG 58.869 45.455 13.59 6.60 35.46 4.00
149 150 3.186702 TCGACACTCAACAATTGACCA 57.813 42.857 13.59 0.00 35.46 4.02
150 151 3.607078 GCTTCGACACTCAACAATTGACC 60.607 47.826 13.59 0.00 35.46 4.02
151 152 3.545633 GCTTCGACACTCAACAATTGAC 58.454 45.455 13.59 0.00 35.46 3.18
152 153 2.220824 CGCTTCGACACTCAACAATTGA 59.779 45.455 13.59 0.00 38.17 2.57
153 154 2.563976 CGCTTCGACACTCAACAATTG 58.436 47.619 3.24 3.24 0.00 2.32
154 155 1.531149 CCGCTTCGACACTCAACAATT 59.469 47.619 0.00 0.00 0.00 2.32
155 156 1.148310 CCGCTTCGACACTCAACAAT 58.852 50.000 0.00 0.00 0.00 2.71
156 157 0.179094 ACCGCTTCGACACTCAACAA 60.179 50.000 0.00 0.00 0.00 2.83
157 158 0.874175 CACCGCTTCGACACTCAACA 60.874 55.000 0.00 0.00 0.00 3.33
158 159 1.557443 CCACCGCTTCGACACTCAAC 61.557 60.000 0.00 0.00 0.00 3.18
159 160 1.300620 CCACCGCTTCGACACTCAA 60.301 57.895 0.00 0.00 0.00 3.02
160 161 2.023414 AACCACCGCTTCGACACTCA 62.023 55.000 0.00 0.00 0.00 3.41
161 162 1.300697 AACCACCGCTTCGACACTC 60.301 57.895 0.00 0.00 0.00 3.51
162 163 1.594293 CAACCACCGCTTCGACACT 60.594 57.895 0.00 0.00 0.00 3.55
163 164 0.949105 ATCAACCACCGCTTCGACAC 60.949 55.000 0.00 0.00 0.00 3.67
164 165 0.604073 TATCAACCACCGCTTCGACA 59.396 50.000 0.00 0.00 0.00 4.35
165 166 1.935933 ATATCAACCACCGCTTCGAC 58.064 50.000 0.00 0.00 0.00 4.20
166 167 2.684001 AATATCAACCACCGCTTCGA 57.316 45.000 0.00 0.00 0.00 3.71
167 168 2.936498 AGAAATATCAACCACCGCTTCG 59.064 45.455 0.00 0.00 0.00 3.79
168 169 3.312697 GGAGAAATATCAACCACCGCTTC 59.687 47.826 0.00 0.00 0.00 3.86
169 170 3.279434 GGAGAAATATCAACCACCGCTT 58.721 45.455 0.00 0.00 0.00 4.68
170 171 2.421529 GGGAGAAATATCAACCACCGCT 60.422 50.000 0.00 0.00 0.00 5.52
171 172 1.947456 GGGAGAAATATCAACCACCGC 59.053 52.381 0.00 0.00 0.00 5.68
172 173 2.943033 GTGGGAGAAATATCAACCACCG 59.057 50.000 0.00 0.00 43.36 4.94
173 174 4.200092 GAGTGGGAGAAATATCAACCACC 58.800 47.826 14.36 6.54 46.99 4.61
174 175 4.843728 TGAGTGGGAGAAATATCAACCAC 58.156 43.478 11.60 11.60 46.55 4.16
175 176 5.044919 ACATGAGTGGGAGAAATATCAACCA 60.045 40.000 0.00 0.00 33.04 3.67
176 177 5.297776 CACATGAGTGGGAGAAATATCAACC 59.702 44.000 0.00 0.00 42.13 3.77
177 178 5.220931 GCACATGAGTGGGAGAAATATCAAC 60.221 44.000 0.00 0.00 45.98 3.18
178 179 4.883585 GCACATGAGTGGGAGAAATATCAA 59.116 41.667 0.00 0.00 45.98 2.57
179 180 4.454678 GCACATGAGTGGGAGAAATATCA 58.545 43.478 0.00 0.00 45.98 2.15
180 181 3.817647 GGCACATGAGTGGGAGAAATATC 59.182 47.826 0.00 0.00 45.98 1.63
181 182 3.745480 CGGCACATGAGTGGGAGAAATAT 60.745 47.826 0.00 0.00 45.98 1.28
182 183 2.419990 CGGCACATGAGTGGGAGAAATA 60.420 50.000 0.00 0.00 45.98 1.40
183 184 1.679944 CGGCACATGAGTGGGAGAAAT 60.680 52.381 0.00 0.00 45.98 2.17
184 185 0.321564 CGGCACATGAGTGGGAGAAA 60.322 55.000 0.00 0.00 45.98 2.52
185 186 1.296392 CGGCACATGAGTGGGAGAA 59.704 57.895 0.00 0.00 45.98 2.87
186 187 2.659063 CCGGCACATGAGTGGGAGA 61.659 63.158 0.00 0.00 45.98 3.71
187 188 2.124983 CCGGCACATGAGTGGGAG 60.125 66.667 0.00 0.00 45.98 4.30
188 189 2.927856 ACCGGCACATGAGTGGGA 60.928 61.111 0.00 0.00 45.98 4.37
189 190 2.178876 TACACCGGCACATGAGTGGG 62.179 60.000 0.00 0.00 45.98 4.61
190 191 0.740868 CTACACCGGCACATGAGTGG 60.741 60.000 0.00 0.44 45.98 4.00
192 193 0.973632 TTCTACACCGGCACATGAGT 59.026 50.000 0.00 0.00 0.00 3.41
193 194 1.732259 GTTTCTACACCGGCACATGAG 59.268 52.381 0.00 0.00 0.00 2.90
194 195 1.070914 TGTTTCTACACCGGCACATGA 59.929 47.619 0.00 0.00 0.00 3.07
195 196 1.518325 TGTTTCTACACCGGCACATG 58.482 50.000 0.00 0.00 0.00 3.21
196 197 2.264005 TTGTTTCTACACCGGCACAT 57.736 45.000 0.00 0.00 32.98 3.21
197 198 1.876799 CATTGTTTCTACACCGGCACA 59.123 47.619 0.00 0.00 32.98 4.57
198 199 1.401018 GCATTGTTTCTACACCGGCAC 60.401 52.381 0.00 0.00 32.98 5.01
199 200 0.878416 GCATTGTTTCTACACCGGCA 59.122 50.000 0.00 0.00 32.98 5.69
200 201 1.165270 AGCATTGTTTCTACACCGGC 58.835 50.000 0.00 0.00 32.98 6.13
201 202 3.331150 TGTAGCATTGTTTCTACACCGG 58.669 45.455 0.00 0.00 39.91 5.28
205 206 3.751175 GCCAGTGTAGCATTGTTTCTACA 59.249 43.478 0.00 0.00 41.80 2.74
206 207 3.127030 GGCCAGTGTAGCATTGTTTCTAC 59.873 47.826 0.00 0.00 36.58 2.59
207 208 3.009033 AGGCCAGTGTAGCATTGTTTCTA 59.991 43.478 5.01 0.00 0.00 2.10
208 209 2.162681 GGCCAGTGTAGCATTGTTTCT 58.837 47.619 0.00 0.00 0.00 2.52
209 210 2.162681 AGGCCAGTGTAGCATTGTTTC 58.837 47.619 5.01 0.00 0.00 2.78
210 211 2.292828 AGGCCAGTGTAGCATTGTTT 57.707 45.000 5.01 0.00 0.00 2.83
211 212 3.244911 ACTTAGGCCAGTGTAGCATTGTT 60.245 43.478 5.01 0.00 0.00 2.83
212 213 2.305927 ACTTAGGCCAGTGTAGCATTGT 59.694 45.455 5.01 0.00 0.00 2.71
213 214 2.939103 GACTTAGGCCAGTGTAGCATTG 59.061 50.000 5.01 0.00 0.00 2.82
214 215 2.840651 AGACTTAGGCCAGTGTAGCATT 59.159 45.455 5.01 0.00 0.00 3.56
215 216 2.169352 CAGACTTAGGCCAGTGTAGCAT 59.831 50.000 5.01 0.00 0.00 3.79
216 217 1.550524 CAGACTTAGGCCAGTGTAGCA 59.449 52.381 5.01 0.00 0.00 3.49
217 218 1.740718 GCAGACTTAGGCCAGTGTAGC 60.741 57.143 5.01 4.50 0.00 3.58
218 219 1.827969 AGCAGACTTAGGCCAGTGTAG 59.172 52.381 5.01 0.00 0.00 2.74
219 220 1.825474 GAGCAGACTTAGGCCAGTGTA 59.175 52.381 5.01 0.00 0.00 2.90
220 221 0.610687 GAGCAGACTTAGGCCAGTGT 59.389 55.000 5.01 0.00 0.00 3.55
221 222 0.610174 TGAGCAGACTTAGGCCAGTG 59.390 55.000 5.01 0.00 0.00 3.66
222 223 1.577736 ATGAGCAGACTTAGGCCAGT 58.422 50.000 5.01 0.00 0.00 4.00
223 224 3.827008 TTATGAGCAGACTTAGGCCAG 57.173 47.619 5.01 0.00 0.00 4.85
224 225 3.711190 TGATTATGAGCAGACTTAGGCCA 59.289 43.478 5.01 0.00 0.00 5.36
225 226 4.342862 TGATTATGAGCAGACTTAGGCC 57.657 45.455 0.00 0.00 0.00 5.19
226 227 5.819901 AGTTTGATTATGAGCAGACTTAGGC 59.180 40.000 0.00 0.00 33.37 3.93
227 228 8.948631 TTAGTTTGATTATGAGCAGACTTAGG 57.051 34.615 4.26 0.00 37.70 2.69
242 243 9.787532 CCATGAACGTTCAATATTAGTTTGATT 57.212 29.630 32.69 10.05 41.13 2.57
243 244 8.405531 CCCATGAACGTTCAATATTAGTTTGAT 58.594 33.333 32.69 10.49 41.13 2.57
244 245 7.148154 CCCCATGAACGTTCAATATTAGTTTGA 60.148 37.037 32.69 6.82 41.13 2.69
245 246 6.972328 CCCCATGAACGTTCAATATTAGTTTG 59.028 38.462 32.69 21.82 41.13 2.93
246 247 6.661805 ACCCCATGAACGTTCAATATTAGTTT 59.338 34.615 32.69 11.96 41.13 2.66
247 248 6.184789 ACCCCATGAACGTTCAATATTAGTT 58.815 36.000 32.69 12.69 41.13 2.24
248 249 5.751586 ACCCCATGAACGTTCAATATTAGT 58.248 37.500 32.69 21.38 41.13 2.24
249 250 6.693315 AACCCCATGAACGTTCAATATTAG 57.307 37.500 32.69 20.81 41.13 1.73
250 251 8.754991 AATAACCCCATGAACGTTCAATATTA 57.245 30.769 32.69 23.78 41.13 0.98
251 252 7.201875 GGAATAACCCCATGAACGTTCAATATT 60.202 37.037 32.69 24.82 41.13 1.28
252 253 6.264518 GGAATAACCCCATGAACGTTCAATAT 59.735 38.462 32.69 15.69 41.13 1.28
253 254 5.591067 GGAATAACCCCATGAACGTTCAATA 59.409 40.000 32.69 18.47 41.13 1.90
254 255 4.401202 GGAATAACCCCATGAACGTTCAAT 59.599 41.667 32.69 17.77 41.13 2.57
255 256 3.759618 GGAATAACCCCATGAACGTTCAA 59.240 43.478 32.69 16.27 41.13 2.69
256 257 3.349022 GGAATAACCCCATGAACGTTCA 58.651 45.455 31.41 31.41 42.14 3.18
257 258 2.353579 CGGAATAACCCCATGAACGTTC 59.646 50.000 21.42 21.42 34.64 3.95
258 259 2.290450 ACGGAATAACCCCATGAACGTT 60.290 45.455 0.00 0.00 34.64 3.99
259 260 1.279846 ACGGAATAACCCCATGAACGT 59.720 47.619 0.00 0.00 34.64 3.99
260 261 2.032680 ACGGAATAACCCCATGAACG 57.967 50.000 0.00 0.00 34.64 3.95
261 262 5.900865 TTTAACGGAATAACCCCATGAAC 57.099 39.130 0.00 0.00 34.64 3.18
262 263 6.011481 ACTTTTAACGGAATAACCCCATGAA 58.989 36.000 0.00 0.00 34.64 2.57
263 264 5.572252 ACTTTTAACGGAATAACCCCATGA 58.428 37.500 0.00 0.00 34.64 3.07
264 265 5.907866 ACTTTTAACGGAATAACCCCATG 57.092 39.130 0.00 0.00 34.64 3.66
265 266 6.011481 TCAACTTTTAACGGAATAACCCCAT 58.989 36.000 0.00 0.00 34.64 4.00
266 267 5.383476 TCAACTTTTAACGGAATAACCCCA 58.617 37.500 0.00 0.00 34.64 4.96
267 268 5.620654 GCTCAACTTTTAACGGAATAACCCC 60.621 44.000 0.00 0.00 34.64 4.95
268 269 5.396484 GCTCAACTTTTAACGGAATAACCC 58.604 41.667 0.00 0.00 34.64 4.11
269 270 5.084055 CGCTCAACTTTTAACGGAATAACC 58.916 41.667 0.00 0.00 0.00 2.85
270 271 5.682869 ACGCTCAACTTTTAACGGAATAAC 58.317 37.500 0.00 0.00 0.00 1.89
271 272 5.927954 ACGCTCAACTTTTAACGGAATAA 57.072 34.783 0.00 0.00 0.00 1.40
272 273 6.158598 ACTACGCTCAACTTTTAACGGAATA 58.841 36.000 0.00 0.00 0.00 1.75
273 274 4.992951 ACTACGCTCAACTTTTAACGGAAT 59.007 37.500 0.00 0.00 0.00 3.01
274 275 4.370917 ACTACGCTCAACTTTTAACGGAA 58.629 39.130 0.00 0.00 0.00 4.30
275 276 3.981211 ACTACGCTCAACTTTTAACGGA 58.019 40.909 0.00 0.00 0.00 4.69
276 277 4.720530 AACTACGCTCAACTTTTAACGG 57.279 40.909 0.00 0.00 0.00 4.44
277 278 8.703823 ATTTTAACTACGCTCAACTTTTAACG 57.296 30.769 0.00 0.00 0.00 3.18
285 286 6.954297 GCAACTCTATTTTAACTACGCTCAAC 59.046 38.462 0.00 0.00 0.00 3.18
319 320 7.166167 ACCTCTGGAACGTTCAATATTAGTTT 58.834 34.615 28.24 1.20 0.00 2.66
321 322 6.295719 ACCTCTGGAACGTTCAATATTAGT 57.704 37.500 28.24 13.72 0.00 2.24
334 338 1.448013 GCGGTGCTACCTCTGGAAC 60.448 63.158 4.21 0.00 35.66 3.62
366 370 2.190981 GGAAGCACTATCGGTAACACG 58.809 52.381 0.00 0.00 0.00 4.49
373 377 2.936498 ACAAATTCGGAAGCACTATCGG 59.064 45.455 0.00 0.00 0.00 4.18
374 378 5.387444 CGATACAAATTCGGAAGCACTATCG 60.387 44.000 12.36 12.36 33.05 2.92
386 390 2.930040 ACAGTCTGCCGATACAAATTCG 59.070 45.455 0.00 0.00 36.38 3.34
474 480 1.594518 CGTGGAGCAAAAGACGTGTTG 60.595 52.381 0.00 0.00 0.00 3.33
480 488 3.626028 ATTTCACGTGGAGCAAAAGAC 57.374 42.857 17.00 0.00 0.00 3.01
517 526 2.620585 AGAGGAGCTGTTTTTGCTGTTC 59.379 45.455 0.00 0.00 41.30 3.18
621 640 2.680352 GGAGAGAGGGACACCGCA 60.680 66.667 0.00 0.00 43.47 5.69
675 701 0.671251 GTTTCCCACGTTGCCATTGA 59.329 50.000 0.00 0.00 0.00 2.57
764 807 2.042230 GGGAGGAGGAGGCGGTTA 60.042 66.667 0.00 0.00 0.00 2.85
780 826 2.748388 CGGGGTTATATAGGGAGGAGG 58.252 57.143 0.00 0.00 0.00 4.30
781 827 2.108970 GCGGGGTTATATAGGGAGGAG 58.891 57.143 0.00 0.00 0.00 3.69
782 828 1.617804 CGCGGGGTTATATAGGGAGGA 60.618 57.143 0.00 0.00 0.00 3.71
1599 1790 6.074648 TCCAATTACAATTGTCAGAACCCTT 58.925 36.000 15.85 0.00 43.24 3.95
1704 1907 4.318332 CCTCCCTTGAAAATCCAAAAAGC 58.682 43.478 0.00 0.00 0.00 3.51
1775 1992 5.851047 AAAACCGAACTATTTCACCTACG 57.149 39.130 0.00 0.00 0.00 3.51
1813 2031 4.759693 ACGTGCAAGAACTGGAAATTGATA 59.240 37.500 6.65 0.00 0.00 2.15
1834 2052 2.224079 ACACAGTTGCTAGCATTTCACG 59.776 45.455 20.13 11.89 0.00 4.35
1945 2163 4.098044 CAGATGCTTCAGAAGGAAATGCAT 59.902 41.667 8.64 6.73 45.06 3.96
1965 2183 5.534654 GCTAAGAAGAATAGGAGAGAGCAGA 59.465 44.000 0.00 0.00 0.00 4.26
1969 2187 5.476945 GGAGGCTAAGAAGAATAGGAGAGAG 59.523 48.000 0.00 0.00 0.00 3.20
2015 2233 2.813779 GCAATTACAGTCCTTGCTCG 57.186 50.000 11.15 0.00 41.52 5.03
2041 2259 9.799106 CCATAGAACAGAAAATGGGTAGATAAT 57.201 33.333 0.00 0.00 36.12 1.28
2053 2271 5.941058 TGTTTATCGCCCATAGAACAGAAAA 59.059 36.000 0.00 0.00 0.00 2.29
2057 2275 5.116180 TCTTGTTTATCGCCCATAGAACAG 58.884 41.667 0.00 0.00 0.00 3.16
2080 2298 0.246635 GGTAGATGATGCGCGGGTAT 59.753 55.000 8.83 1.94 0.00 2.73
2081 2299 1.663739 GGTAGATGATGCGCGGGTA 59.336 57.895 8.83 0.00 0.00 3.69
2082 2300 2.421739 GGTAGATGATGCGCGGGT 59.578 61.111 8.83 0.00 0.00 5.28
2084 2302 0.874175 TTTCGGTAGATGATGCGCGG 60.874 55.000 8.83 0.00 0.00 6.46
2085 2303 0.927537 TTTTCGGTAGATGATGCGCG 59.072 50.000 0.00 0.00 0.00 6.86
2105 2330 7.856894 GCACATGACAAACATTTTAAAAGCAAT 59.143 29.630 6.79 0.00 37.07 3.56
2145 2370 0.097150 GCCGCGTTCCTGAAATCTTC 59.903 55.000 4.92 0.00 0.00 2.87
2215 2440 3.312421 ACGTAACATTGCATCATGGCTAC 59.688 43.478 3.53 3.90 34.04 3.58
2235 2460 6.322491 TGAATCAGTGAGTGACAACTATACG 58.678 40.000 0.00 0.00 38.28 3.06
2344 4800 8.497554 GTCATACGTAAGGTTGTGTTGAAATTA 58.502 33.333 0.00 0.00 46.39 1.40
2358 4814 8.879759 AGTGTATTGAAATTGTCATACGTAAGG 58.120 33.333 0.00 0.00 37.73 2.69
2430 4887 4.398988 TGAAATATGTGACCTGGCATTGAC 59.601 41.667 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.