Multiple sequence alignment - TraesCS1D01G131900

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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 TraesCS1D01G131900 chr1D 100.000 3503 0 0 1 3503 155738549 155735047 0.000000e+00 6469.0
1 TraesCS1D01G131900 chr1D 92.056 214 13 4 1 212 185835280 185835491 7.350000e-77 298.0
2 TraesCS1D01G131900 chr1A 95.924 2208 52 6 377 2580 185116577 185118750 0.000000e+00 3544.0
3 TraesCS1D01G131900 chr1A 98.355 304 5 0 2567 2870 185118767 185119070 5.150000e-148 534.0
4 TraesCS1D01G131900 chr1A 94.382 178 7 2 3257 3433 185119429 185119604 1.600000e-68 270.0
5 TraesCS1D01G131900 chr1A 90.659 182 9 3 208 383 185114780 185114959 5.850000e-58 235.0
6 TraesCS1D01G131900 chr1A 86.458 192 14 4 3063 3242 185119165 185119356 2.130000e-47 200.0
7 TraesCS1D01G131900 chr1A 95.918 98 3 1 3407 3503 185141261 185141358 1.300000e-34 158.0
8 TraesCS1D01G131900 chr1B 92.111 2459 72 32 438 2832 236952657 236955057 0.000000e+00 3354.0
9 TraesCS1D01G131900 chr1B 91.845 233 13 3 208 440 236947669 236947895 1.570000e-83 320.0
10 TraesCS1D01G131900 chr1B 92.056 214 15 2 1 212 179677543 179677756 2.040000e-77 300.0
11 TraesCS1D01G131900 chr1B 89.500 200 16 3 2739 2937 236955055 236955250 7.510000e-62 248.0
12 TraesCS1D01G131900 chr1B 96.396 111 4 0 3393 3503 236957563 236957673 2.150000e-42 183.0
13 TraesCS1D01G131900 chr1B 92.063 126 8 1 3063 3188 236955322 236955445 3.590000e-40 176.0
14 TraesCS1D01G131900 chr5D 93.396 212 13 1 1 211 306484837 306485048 2.630000e-81 313.0
15 TraesCS1D01G131900 chr5D 87.805 82 7 2 3368 3446 391992654 391992735 3.720000e-15 93.5
16 TraesCS1D01G131900 chr6D 92.991 214 13 2 1 212 229771116 229770903 9.440000e-81 311.0
17 TraesCS1D01G131900 chr2D 93.333 210 13 1 1 209 251930518 251930727 3.400000e-80 309.0
18 TraesCS1D01G131900 chr3D 92.523 214 14 2 1 212 204440122 204440335 4.390000e-79 305.0
19 TraesCS1D01G131900 chr3D 92.857 210 14 1 1 209 481209264 481209473 1.580000e-78 303.0
20 TraesCS1D01G131900 chr3D 92.823 209 14 1 2 209 169882124 169881916 5.680000e-78 302.0
21 TraesCS1D01G131900 chr3D 92.537 67 2 2 3368 3431 163135478 163135412 3.720000e-15 93.5
22 TraesCS1D01G131900 chr3D 76.821 151 27 7 1589 1738 414628017 414627874 1.040000e-10 78.7
23 TraesCS1D01G131900 chr7D 92.056 214 15 2 1 212 346416945 346416732 2.040000e-77 300.0
24 TraesCS1D01G131900 chr7D 83.529 85 11 2 3368 3449 500775538 500775454 3.750000e-10 76.8
25 TraesCS1D01G131900 chr5B 87.805 82 7 2 3368 3446 472754762 472754843 3.720000e-15 93.5
26 TraesCS1D01G131900 chr2B 84.946 93 11 2 3361 3450 249200253 249200161 1.340000e-14 91.6
27 TraesCS1D01G131900 chr4A 85.185 81 10 1 3371 3449 651625932 651625852 8.060000e-12 82.4
28 TraesCS1D01G131900 chr4A 86.957 69 9 0 2996 3064 12578987 12578919 1.040000e-10 78.7
29 TraesCS1D01G131900 chr3B 85.000 80 8 3 3368 3444 732437940 732437862 1.040000e-10 78.7
30 TraesCS1D01G131900 chr3B 80.583 103 16 4 1589 1690 540455544 540455445 3.750000e-10 76.8
31 TraesCS1D01G131900 chr3A 76.821 151 27 7 1589 1738 535825170 535825313 1.040000e-10 78.7


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 TraesCS1D01G131900 chr1D 155735047 155738549 3502 True 6469.00 6469 100.0000 1 3503 1 chr1D.!!$R1 3502
1 TraesCS1D01G131900 chr1A 185114780 185119604 4824 False 956.60 3544 93.1556 208 3433 5 chr1A.!!$F2 3225
2 TraesCS1D01G131900 chr1B 236952657 236957673 5016 False 990.25 3354 92.5175 438 3503 4 chr1B.!!$F3 3065

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
671 2315 0.392998 AAGTGCCCTACAATCTGCCG 60.393 55.000 0.00 0.0 0.0 5.69 F
1584 3240 1.001887 GGTGCACGGGGGATTTGTA 60.002 57.895 11.45 0.0 0.0 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2386 4081 0.661020 GTCACAACCGGAACAAGTGG 59.339 55.0 9.46 0.0 0.00 4.00 R
3058 4871 0.036306 ATCCACTCGGGTTGGTGAAC 59.964 55.0 0.00 0.0 38.11 3.18 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
39 40 8.798859 AGAGAAAATTTATCAGTGCATGTACT 57.201 30.769 11.03 11.03 0.00 2.73
40 41 9.236006 AGAGAAAATTTATCAGTGCATGTACTT 57.764 29.630 14.34 3.49 0.00 2.24
41 42 9.846248 GAGAAAATTTATCAGTGCATGTACTTT 57.154 29.630 14.34 7.48 0.00 2.66
80 81 9.935241 ATTGTAATTAATGCATTGGTAAACACA 57.065 25.926 22.27 12.57 0.00 3.72
81 82 9.764363 TTGTAATTAATGCATTGGTAAACACAA 57.236 25.926 22.27 16.76 0.00 3.33
82 83 9.935241 TGTAATTAATGCATTGGTAAACACAAT 57.065 25.926 22.27 7.27 39.00 2.71
103 104 2.575694 TTTTGAAGAAAGCAAGCGCA 57.424 40.000 11.47 0.00 42.27 6.09
104 105 2.798976 TTTGAAGAAAGCAAGCGCAT 57.201 40.000 11.47 0.00 42.27 4.73
105 106 2.798976 TTGAAGAAAGCAAGCGCATT 57.201 40.000 11.47 0.00 42.27 3.56
106 107 3.913548 TTGAAGAAAGCAAGCGCATTA 57.086 38.095 11.47 0.00 42.27 1.90
107 108 3.913548 TGAAGAAAGCAAGCGCATTAA 57.086 38.095 11.47 0.00 42.27 1.40
108 109 4.439305 TGAAGAAAGCAAGCGCATTAAT 57.561 36.364 11.47 0.00 42.27 1.40
109 110 4.808558 TGAAGAAAGCAAGCGCATTAATT 58.191 34.783 11.47 0.00 42.27 1.40
110 111 4.622313 TGAAGAAAGCAAGCGCATTAATTG 59.378 37.500 11.47 6.00 42.27 2.32
111 112 4.439305 AGAAAGCAAGCGCATTAATTGA 57.561 36.364 11.47 0.00 42.27 2.57
112 113 4.418392 AGAAAGCAAGCGCATTAATTGAG 58.582 39.130 11.47 0.00 42.27 3.02
113 114 3.855689 AAGCAAGCGCATTAATTGAGT 57.144 38.095 11.47 0.00 42.27 3.41
114 115 4.963276 AAGCAAGCGCATTAATTGAGTA 57.037 36.364 11.47 0.00 42.27 2.59
115 116 4.542662 AGCAAGCGCATTAATTGAGTAG 57.457 40.909 11.47 0.00 42.27 2.57
116 117 3.941483 AGCAAGCGCATTAATTGAGTAGT 59.059 39.130 11.47 0.00 42.27 2.73
117 118 4.396166 AGCAAGCGCATTAATTGAGTAGTT 59.604 37.500 11.47 0.00 42.27 2.24
118 119 5.095490 GCAAGCGCATTAATTGAGTAGTTT 58.905 37.500 11.47 0.00 38.36 2.66
119 120 5.572896 GCAAGCGCATTAATTGAGTAGTTTT 59.427 36.000 11.47 0.00 38.36 2.43
120 121 6.452872 GCAAGCGCATTAATTGAGTAGTTTTG 60.453 38.462 11.47 0.00 38.36 2.44
121 122 5.095490 AGCGCATTAATTGAGTAGTTTTGC 58.905 37.500 11.47 0.00 0.00 3.68
122 123 4.856487 GCGCATTAATTGAGTAGTTTTGCA 59.144 37.500 0.30 0.00 0.00 4.08
123 124 5.344665 GCGCATTAATTGAGTAGTTTTGCAA 59.655 36.000 0.30 0.00 0.00 4.08
124 125 6.128956 GCGCATTAATTGAGTAGTTTTGCAAA 60.129 34.615 8.05 8.05 0.00 3.68
125 126 7.219922 CGCATTAATTGAGTAGTTTTGCAAAC 58.780 34.615 12.39 7.48 0.00 2.93
126 127 7.114811 CGCATTAATTGAGTAGTTTTGCAAACT 59.885 33.333 12.39 14.31 0.00 2.66
127 128 9.405587 GCATTAATTGAGTAGTTTTGCAAACTA 57.594 29.630 12.39 13.34 0.00 2.24
140 141 9.605955 AGTTTTGCAAACTACAAAAATTGTTTC 57.394 25.926 12.39 0.00 45.64 2.78
141 142 9.387123 GTTTTGCAAACTACAAAAATTGTTTCA 57.613 25.926 12.39 0.00 45.64 2.69
142 143 8.941127 TTTGCAAACTACAAAAATTGTTTCAC 57.059 26.923 8.05 0.00 42.22 3.18
143 144 7.066374 TGCAAACTACAAAAATTGTTTCACC 57.934 32.000 0.54 0.00 42.22 4.02
144 145 6.650807 TGCAAACTACAAAAATTGTTTCACCA 59.349 30.769 0.54 0.00 42.22 4.17
145 146 6.958752 GCAAACTACAAAAATTGTTTCACCAC 59.041 34.615 0.54 0.00 42.22 4.16
146 147 7.148490 GCAAACTACAAAAATTGTTTCACCACT 60.148 33.333 0.54 0.00 42.22 4.00
147 148 8.379902 CAAACTACAAAAATTGTTTCACCACTC 58.620 33.333 0.54 0.00 42.22 3.51
148 149 7.164230 ACTACAAAAATTGTTTCACCACTCA 57.836 32.000 0.54 0.00 42.22 3.41
149 150 7.033185 ACTACAAAAATTGTTTCACCACTCAC 58.967 34.615 0.54 0.00 42.22 3.51
150 151 5.175127 ACAAAAATTGTTTCACCACTCACC 58.825 37.500 0.00 0.00 42.22 4.02
151 152 5.174395 CAAAAATTGTTTCACCACTCACCA 58.826 37.500 0.00 0.00 0.00 4.17
152 153 5.612725 AAAATTGTTTCACCACTCACCAT 57.387 34.783 0.00 0.00 0.00 3.55
153 154 4.853924 AATTGTTTCACCACTCACCATC 57.146 40.909 0.00 0.00 0.00 3.51
154 155 3.576078 TTGTTTCACCACTCACCATCT 57.424 42.857 0.00 0.00 0.00 2.90
155 156 4.698201 TTGTTTCACCACTCACCATCTA 57.302 40.909 0.00 0.00 0.00 1.98
156 157 4.002906 TGTTTCACCACTCACCATCTAC 57.997 45.455 0.00 0.00 0.00 2.59
157 158 3.244422 TGTTTCACCACTCACCATCTACC 60.244 47.826 0.00 0.00 0.00 3.18
158 159 2.623418 TCACCACTCACCATCTACCT 57.377 50.000 0.00 0.00 0.00 3.08
159 160 2.902608 TCACCACTCACCATCTACCTT 58.097 47.619 0.00 0.00 0.00 3.50
160 161 4.055710 TCACCACTCACCATCTACCTTA 57.944 45.455 0.00 0.00 0.00 2.69
161 162 4.620723 TCACCACTCACCATCTACCTTAT 58.379 43.478 0.00 0.00 0.00 1.73
162 163 5.030147 TCACCACTCACCATCTACCTTATT 58.970 41.667 0.00 0.00 0.00 1.40
163 164 5.104941 TCACCACTCACCATCTACCTTATTG 60.105 44.000 0.00 0.00 0.00 1.90
164 165 4.164221 ACCACTCACCATCTACCTTATTGG 59.836 45.833 0.00 0.00 42.93 3.16
201 202 8.990163 AATTAAGCCTTATAAATCGGAAAGGA 57.010 30.769 9.13 0.00 40.85 3.36
202 203 8.622948 ATTAAGCCTTATAAATCGGAAAGGAG 57.377 34.615 9.13 0.00 40.85 3.69
203 204 4.974399 AGCCTTATAAATCGGAAAGGAGG 58.026 43.478 9.13 1.56 40.85 4.30
204 205 4.412528 AGCCTTATAAATCGGAAAGGAGGT 59.587 41.667 9.13 0.00 40.85 3.85
205 206 5.605488 AGCCTTATAAATCGGAAAGGAGGTA 59.395 40.000 9.13 0.00 40.85 3.08
206 207 5.932883 GCCTTATAAATCGGAAAGGAGGTAG 59.067 44.000 9.13 0.00 40.85 3.18
207 208 6.464039 GCCTTATAAATCGGAAAGGAGGTAGT 60.464 42.308 9.13 0.00 40.85 2.73
208 209 7.256083 GCCTTATAAATCGGAAAGGAGGTAGTA 60.256 40.741 9.13 0.00 40.85 1.82
209 210 8.645110 CCTTATAAATCGGAAAGGAGGTAGTAA 58.355 37.037 0.01 0.00 40.85 2.24
212 213 5.354842 AATCGGAAAGGAGGTAGTAAAGG 57.645 43.478 0.00 0.00 0.00 3.11
213 214 3.102204 TCGGAAAGGAGGTAGTAAAGGG 58.898 50.000 0.00 0.00 0.00 3.95
214 215 2.836372 CGGAAAGGAGGTAGTAAAGGGT 59.164 50.000 0.00 0.00 0.00 4.34
215 216 3.369157 CGGAAAGGAGGTAGTAAAGGGTG 60.369 52.174 0.00 0.00 0.00 4.61
263 264 5.211174 ACAATATTAGGTAGGAAGACCGC 57.789 43.478 0.00 0.00 44.88 5.68
297 298 6.607198 ACCAACTTTCAACATATCCCCATTAG 59.393 38.462 0.00 0.00 0.00 1.73
298 299 6.040842 CCAACTTTCAACATATCCCCATTAGG 59.959 42.308 0.00 0.00 0.00 2.69
299 300 5.140454 ACTTTCAACATATCCCCATTAGGC 58.860 41.667 0.00 0.00 0.00 3.93
302 303 5.402054 TCAACATATCCCCATTAGGCTTT 57.598 39.130 0.00 0.00 0.00 3.51
303 304 5.776358 TCAACATATCCCCATTAGGCTTTT 58.224 37.500 0.00 0.00 0.00 2.27
304 305 5.833131 TCAACATATCCCCATTAGGCTTTTC 59.167 40.000 0.00 0.00 0.00 2.29
336 342 2.357517 CTCAGGACACGGGCACAC 60.358 66.667 0.00 0.00 0.00 3.82
354 360 1.522258 CACAACTTTTGCACGAATGGC 59.478 47.619 0.00 0.00 0.00 4.40
383 389 5.287674 TGATTGAATTGGCCACAGAAAAA 57.712 34.783 3.88 0.00 0.00 1.94
392 2022 6.662865 TTGGCCACAGAAAAATTAGAATCA 57.337 33.333 3.88 0.00 0.00 2.57
405 2035 5.720371 ATTAGAATCAGAGAGGATCACCG 57.280 43.478 0.00 0.00 41.83 4.94
408 2038 1.993956 ATCAGAGAGGATCACCGGAG 58.006 55.000 9.46 0.00 41.83 4.63
429 2059 4.578871 AGCAGATTACATTACAGCACACA 58.421 39.130 0.00 0.00 0.00 3.72
452 2082 3.074369 TCCTCCGGAGATTGCGCA 61.074 61.111 33.39 5.66 0.00 6.09
453 2083 2.125147 CCTCCGGAGATTGCGCAA 60.125 61.111 33.39 27.24 0.00 4.85
458 2088 0.811219 CCGGAGATTGCGCAAGATCA 60.811 55.000 28.62 4.82 43.02 2.92
476 2107 9.080915 GCAAGATCACTTTATCATTTCTTTTCC 57.919 33.333 0.00 0.00 33.70 3.13
487 2123 2.109425 TTCTTTTCCGGGAAGCTAGC 57.891 50.000 6.62 6.62 0.00 3.42
671 2315 0.392998 AAGTGCCCTACAATCTGCCG 60.393 55.000 0.00 0.00 0.00 5.69
1323 2978 3.724374 TCATTTTACCACCGATCGATCC 58.276 45.455 18.66 2.50 0.00 3.36
1350 3006 2.751436 GCATTCAGCCAGCGGGAA 60.751 61.111 7.23 0.00 37.23 3.97
1351 3007 2.123428 GCATTCAGCCAGCGGGAAT 61.123 57.895 7.23 6.72 37.23 3.01
1352 3008 1.731700 CATTCAGCCAGCGGGAATG 59.268 57.895 18.75 18.75 41.12 2.67
1353 3009 2.123428 ATTCAGCCAGCGGGAATGC 61.123 57.895 7.23 0.00 35.59 3.56
1359 3015 2.425592 CAGCGGGAATGCGGGATA 59.574 61.111 0.00 0.00 40.67 2.59
1360 3016 1.003355 CAGCGGGAATGCGGGATAT 60.003 57.895 0.00 0.00 40.67 1.63
1361 3017 1.021390 CAGCGGGAATGCGGGATATC 61.021 60.000 0.00 0.00 40.67 1.63
1362 3018 2.100631 GCGGGAATGCGGGATATCG 61.101 63.158 0.00 0.00 0.00 2.92
1400 3056 2.417651 CGGCTAATGAACGGTCCTTGTA 60.418 50.000 0.00 0.00 0.00 2.41
1584 3240 1.001887 GGTGCACGGGGGATTTGTA 60.002 57.895 11.45 0.00 0.00 2.41
1633 3289 2.606213 TGGAGATGGTCGTGGCCA 60.606 61.111 0.00 0.00 43.48 5.36
1823 3479 4.719369 GGAAGCAGTCGACGGCGT 62.719 66.667 30.16 28.32 41.91 5.68
2139 3813 2.409651 GCCGGAGCAGTAGACGAG 59.590 66.667 5.05 0.00 39.53 4.18
2141 3815 2.409651 CGGAGCAGTAGACGAGGC 59.590 66.667 0.00 0.00 0.00 4.70
2142 3816 2.809010 GGAGCAGTAGACGAGGCC 59.191 66.667 0.00 0.00 0.00 5.19
2143 3817 2.409651 GAGCAGTAGACGAGGCCG 59.590 66.667 0.00 0.00 42.50 6.13
2144 3818 2.045242 AGCAGTAGACGAGGCCGA 60.045 61.111 0.00 0.00 39.50 5.54
2145 3819 2.102553 GCAGTAGACGAGGCCGAC 59.897 66.667 0.00 0.00 39.50 4.79
2146 3820 2.403987 CAGTAGACGAGGCCGACG 59.596 66.667 20.26 20.26 39.50 5.12
2147 3821 3.507009 AGTAGACGAGGCCGACGC 61.507 66.667 21.41 15.14 39.50 5.19
2450 4145 4.322385 GGTTGCCGCGGTTGACAC 62.322 66.667 28.70 15.47 0.00 3.67
2749 4474 9.383519 GATAGACATGAGAGGACAAACATAAAA 57.616 33.333 0.00 0.00 0.00 1.52
2755 4480 7.510549 TGAGAGGACAAACATAAAAAGAAGG 57.489 36.000 0.00 0.00 0.00 3.46
2756 4481 6.016276 TGAGAGGACAAACATAAAAAGAAGGC 60.016 38.462 0.00 0.00 0.00 4.35
2791 4516 3.072184 AGTGTGAGTTGGAGCAGAAGAAT 59.928 43.478 0.00 0.00 0.00 2.40
2792 4517 3.817647 GTGTGAGTTGGAGCAGAAGAATT 59.182 43.478 0.00 0.00 0.00 2.17
2919 4732 2.882137 GGAAGGACGACAAAACATTGGA 59.118 45.455 0.00 0.00 0.00 3.53
2932 4745 7.090173 ACAAAACATTGGACCAAATTAGATCG 58.910 34.615 11.82 0.00 0.00 3.69
2937 4750 4.987408 TGGACCAAATTAGATCGACGTA 57.013 40.909 0.00 0.00 0.00 3.57
2938 4751 4.675510 TGGACCAAATTAGATCGACGTAC 58.324 43.478 0.00 0.00 0.00 3.67
2939 4752 4.047142 GGACCAAATTAGATCGACGTACC 58.953 47.826 0.00 0.00 0.00 3.34
2941 4754 3.129287 ACCAAATTAGATCGACGTACCGT 59.871 43.478 0.00 0.00 45.10 4.83
2951 4764 1.069596 ACGTACCGTCCACCCAAAC 59.930 57.895 0.00 0.00 33.69 2.93
2954 4767 3.534054 TACCGTCCACCCAAACCGC 62.534 63.158 0.00 0.00 0.00 5.68
2968 4781 2.594303 CCGCCAAGTGGACAGCAA 60.594 61.111 0.18 0.00 34.74 3.91
2969 4782 2.192861 CCGCCAAGTGGACAGCAAA 61.193 57.895 0.18 0.00 34.74 3.68
2978 4791 1.748493 GTGGACAGCAAAAACCAGTCA 59.252 47.619 0.00 0.00 32.89 3.41
2981 4794 2.033424 GGACAGCAAAAACCAGTCAGAC 59.967 50.000 0.00 0.00 0.00 3.51
2983 4796 2.301346 CAGCAAAAACCAGTCAGACCT 58.699 47.619 0.00 0.00 0.00 3.85
2987 4800 3.808728 CAAAAACCAGTCAGACCTGAGA 58.191 45.455 0.00 0.00 40.75 3.27
2988 4801 4.199310 CAAAAACCAGTCAGACCTGAGAA 58.801 43.478 0.00 0.00 40.75 2.87
2989 4802 4.503714 AAAACCAGTCAGACCTGAGAAA 57.496 40.909 0.00 0.00 40.75 2.52
2990 4803 3.760580 AACCAGTCAGACCTGAGAAAG 57.239 47.619 0.00 0.00 40.75 2.62
2998 4811 4.170723 CCTGAGAAAGGCGACGTC 57.829 61.111 5.18 5.18 39.93 4.34
2999 4812 1.446272 CCTGAGAAAGGCGACGTCC 60.446 63.158 10.58 2.55 39.93 4.79
3000 4813 1.289066 CTGAGAAAGGCGACGTCCA 59.711 57.895 10.58 0.00 0.00 4.02
3003 4816 0.038526 GAGAAAGGCGACGTCCAAGA 60.039 55.000 10.58 0.00 0.00 3.02
3004 4817 0.038159 AGAAAGGCGACGTCCAAGAG 60.038 55.000 10.58 0.00 0.00 2.85
3005 4818 0.319641 GAAAGGCGACGTCCAAGAGT 60.320 55.000 10.58 0.00 0.00 3.24
3006 4819 0.319641 AAAGGCGACGTCCAAGAGTC 60.320 55.000 10.58 0.00 0.00 3.36
3008 4821 1.733399 GGCGACGTCCAAGAGTCAC 60.733 63.158 10.58 0.00 37.23 3.67
3010 4823 1.442184 CGACGTCCAAGAGTCACCG 60.442 63.158 10.58 0.00 37.23 4.94
3011 4824 1.848932 CGACGTCCAAGAGTCACCGA 61.849 60.000 10.58 0.00 37.23 4.69
3012 4825 0.526662 GACGTCCAAGAGTCACCGAT 59.473 55.000 3.51 0.00 37.34 4.18
3014 4827 0.526211 CGTCCAAGAGTCACCGATGA 59.474 55.000 0.00 0.00 0.00 2.92
3032 4845 1.217244 ACGGAGTACATTGCGTCCC 59.783 57.895 0.00 0.00 41.38 4.46
3035 4848 1.816074 GGAGTACATTGCGTCCCAAA 58.184 50.000 0.00 0.00 36.92 3.28
3036 4849 1.737793 GGAGTACATTGCGTCCCAAAG 59.262 52.381 0.00 0.00 36.92 2.77
3037 4850 1.737793 GAGTACATTGCGTCCCAAAGG 59.262 52.381 0.00 0.00 36.92 3.11
3038 4851 0.170339 GTACATTGCGTCCCAAAGGC 59.830 55.000 0.00 0.00 36.92 4.35
3039 4852 0.037590 TACATTGCGTCCCAAAGGCT 59.962 50.000 0.00 0.00 39.53 4.58
3040 4853 1.244019 ACATTGCGTCCCAAAGGCTC 61.244 55.000 0.00 0.00 39.53 4.70
3041 4854 1.074775 ATTGCGTCCCAAAGGCTCA 59.925 52.632 0.00 0.00 39.53 4.26
3042 4855 0.323725 ATTGCGTCCCAAAGGCTCAT 60.324 50.000 0.00 0.00 39.53 2.90
3043 4856 0.326595 TTGCGTCCCAAAGGCTCATA 59.673 50.000 0.00 0.00 39.53 2.15
3044 4857 0.392461 TGCGTCCCAAAGGCTCATAC 60.392 55.000 0.00 0.00 39.53 2.39
3045 4858 1.429148 GCGTCCCAAAGGCTCATACG 61.429 60.000 0.00 0.00 35.85 3.06
3046 4859 1.429148 CGTCCCAAAGGCTCATACGC 61.429 60.000 0.00 0.00 0.00 4.42
3047 4860 0.392461 GTCCCAAAGGCTCATACGCA 60.392 55.000 0.00 0.00 0.00 5.24
3048 4861 0.392461 TCCCAAAGGCTCATACGCAC 60.392 55.000 0.00 0.00 0.00 5.34
3049 4862 1.705337 CCCAAAGGCTCATACGCACG 61.705 60.000 0.00 0.00 0.00 5.34
3050 4863 1.705337 CCAAAGGCTCATACGCACGG 61.705 60.000 0.00 0.00 0.00 4.94
3051 4864 1.019278 CAAAGGCTCATACGCACGGT 61.019 55.000 0.00 0.00 0.00 4.83
3052 4865 0.533491 AAAGGCTCATACGCACGGTA 59.467 50.000 0.00 0.00 35.11 4.02
3053 4866 0.102481 AAGGCTCATACGCACGGTAG 59.898 55.000 0.00 0.00 33.84 3.18
3054 4867 1.949631 GGCTCATACGCACGGTAGC 60.950 63.158 0.00 0.00 33.84 3.58
3055 4868 1.226859 GCTCATACGCACGGTAGCA 60.227 57.895 0.00 0.00 33.84 3.49
3056 4869 0.597637 GCTCATACGCACGGTAGCAT 60.598 55.000 0.00 0.00 33.84 3.79
3057 4870 1.335597 GCTCATACGCACGGTAGCATA 60.336 52.381 0.00 0.00 33.84 3.14
3058 4871 2.585845 CTCATACGCACGGTAGCATAG 58.414 52.381 0.00 0.00 33.84 2.23
3059 4872 1.951602 TCATACGCACGGTAGCATAGT 59.048 47.619 0.00 0.00 33.84 2.12
3060 4873 2.359848 TCATACGCACGGTAGCATAGTT 59.640 45.455 0.00 0.00 33.84 2.24
3061 4874 2.480224 TACGCACGGTAGCATAGTTC 57.520 50.000 0.00 0.00 0.00 3.01
3115 4928 0.527113 CGCTGAAATCACCAATGCCA 59.473 50.000 0.00 0.00 0.00 4.92
3153 4966 2.087009 GTTCCACCGAGACGCTTCG 61.087 63.158 2.47 2.47 40.18 3.79
3156 4969 2.087009 CCACCGAGACGCTTCGAAC 61.087 63.158 10.35 0.00 43.03 3.95
3197 5030 3.305398 ACGGAGTCAAAACTAGCAGAG 57.695 47.619 0.00 0.00 29.74 3.35
3198 5031 2.028930 ACGGAGTCAAAACTAGCAGAGG 60.029 50.000 0.00 0.00 29.74 3.69
3200 5033 3.555168 CGGAGTCAAAACTAGCAGAGGTT 60.555 47.826 0.00 0.00 36.27 3.50
3248 5093 5.402398 GGTAACAAGGAATTCAACTGCATC 58.598 41.667 7.93 0.00 0.00 3.91
3249 5094 5.048083 GGTAACAAGGAATTCAACTGCATCA 60.048 40.000 7.93 0.00 0.00 3.07
3250 5095 5.534207 AACAAGGAATTCAACTGCATCAA 57.466 34.783 7.93 0.00 0.00 2.57
3251 5096 5.733620 ACAAGGAATTCAACTGCATCAAT 57.266 34.783 7.93 0.00 0.00 2.57
3254 5099 6.014840 ACAAGGAATTCAACTGCATCAATTCT 60.015 34.615 7.93 0.00 36.11 2.40
3255 5100 6.205101 AGGAATTCAACTGCATCAATTCTC 57.795 37.500 7.93 8.53 36.11 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 9.236006 AGTACATGCACTGATAAATTTTCTCTT 57.764 29.630 0.00 0.00 0.00 2.85
14 15 8.798859 AGTACATGCACTGATAAATTTTCTCT 57.201 30.769 0.00 0.00 0.00 3.10
15 16 9.846248 AAAGTACATGCACTGATAAATTTTCTC 57.154 29.630 0.00 0.00 0.00 2.87
19 20 9.520204 GCATAAAGTACATGCACTGATAAATTT 57.480 29.630 10.82 0.00 46.47 1.82
54 55 9.935241 TGTGTTTACCAATGCATTAATTACAAT 57.065 25.926 12.53 0.00 0.00 2.71
55 56 9.764363 TTGTGTTTACCAATGCATTAATTACAA 57.236 25.926 12.53 14.01 0.00 2.41
56 57 9.935241 ATTGTGTTTACCAATGCATTAATTACA 57.065 25.926 12.53 10.02 31.52 2.41
83 84 2.886081 TGCGCTTGCTTTCTTCAAAAA 58.114 38.095 9.73 0.00 40.12 1.94
84 85 2.575694 TGCGCTTGCTTTCTTCAAAA 57.424 40.000 9.73 0.00 40.12 2.44
85 86 2.798976 ATGCGCTTGCTTTCTTCAAA 57.201 40.000 9.73 0.00 40.12 2.69
86 87 2.798976 AATGCGCTTGCTTTCTTCAA 57.201 40.000 9.73 0.00 40.12 2.69
87 88 3.913548 TTAATGCGCTTGCTTTCTTCA 57.086 38.095 9.73 0.00 40.12 3.02
88 89 4.858692 TCAATTAATGCGCTTGCTTTCTTC 59.141 37.500 9.73 0.00 40.12 2.87
89 90 4.808558 TCAATTAATGCGCTTGCTTTCTT 58.191 34.783 9.73 0.00 40.12 2.52
90 91 4.082571 ACTCAATTAATGCGCTTGCTTTCT 60.083 37.500 9.73 0.00 40.12 2.52
91 92 4.168760 ACTCAATTAATGCGCTTGCTTTC 58.831 39.130 9.73 0.00 40.12 2.62
92 93 4.178545 ACTCAATTAATGCGCTTGCTTT 57.821 36.364 9.73 0.00 40.12 3.51
93 94 3.855689 ACTCAATTAATGCGCTTGCTT 57.144 38.095 9.73 0.00 40.12 3.91
94 95 3.941483 ACTACTCAATTAATGCGCTTGCT 59.059 39.130 9.73 0.00 40.12 3.91
95 96 4.278678 ACTACTCAATTAATGCGCTTGC 57.721 40.909 9.73 0.00 39.78 4.01
96 97 6.452872 GCAAAACTACTCAATTAATGCGCTTG 60.453 38.462 9.73 4.21 0.00 4.01
97 98 5.572896 GCAAAACTACTCAATTAATGCGCTT 59.427 36.000 9.73 0.00 0.00 4.68
98 99 5.095490 GCAAAACTACTCAATTAATGCGCT 58.905 37.500 9.73 0.00 0.00 5.92
99 100 4.856487 TGCAAAACTACTCAATTAATGCGC 59.144 37.500 0.00 0.00 34.16 6.09
100 101 6.926280 TTGCAAAACTACTCAATTAATGCG 57.074 33.333 0.00 0.00 34.16 4.73
101 102 8.298030 AGTTTGCAAAACTACTCAATTAATGC 57.702 30.769 14.67 0.00 0.00 3.56
114 115 9.605955 GAAACAATTTTTGTAGTTTGCAAAACT 57.394 25.926 14.67 15.13 44.59 2.66
115 116 9.387123 TGAAACAATTTTTGTAGTTTGCAAAAC 57.613 25.926 14.67 10.26 44.59 2.43
116 117 9.387123 GTGAAACAATTTTTGTAGTTTGCAAAA 57.613 25.926 14.67 0.00 44.59 2.44
117 118 8.017946 GGTGAAACAATTTTTGTAGTTTGCAAA 58.982 29.630 8.05 8.05 44.59 3.68
118 119 7.173218 TGGTGAAACAATTTTTGTAGTTTGCAA 59.827 29.630 0.00 0.00 44.59 4.08
119 120 6.650807 TGGTGAAACAATTTTTGTAGTTTGCA 59.349 30.769 0.00 0.00 44.59 4.08
120 121 6.958752 GTGGTGAAACAATTTTTGTAGTTTGC 59.041 34.615 0.00 0.00 44.59 3.68
121 122 8.250538 AGTGGTGAAACAATTTTTGTAGTTTG 57.749 30.769 0.00 0.00 44.59 2.93
122 123 8.091449 TGAGTGGTGAAACAATTTTTGTAGTTT 58.909 29.630 0.00 0.00 44.59 2.66
123 124 7.544217 GTGAGTGGTGAAACAATTTTTGTAGTT 59.456 33.333 0.00 0.00 44.59 2.24
124 125 7.033185 GTGAGTGGTGAAACAATTTTTGTAGT 58.967 34.615 0.00 0.00 44.59 2.73
125 126 6.475402 GGTGAGTGGTGAAACAATTTTTGTAG 59.525 38.462 0.00 0.00 44.59 2.74
126 127 6.071334 TGGTGAGTGGTGAAACAATTTTTGTA 60.071 34.615 0.00 0.00 44.59 2.41
128 129 5.174395 TGGTGAGTGGTGAAACAATTTTTG 58.826 37.500 0.00 0.00 39.98 2.44
129 130 5.413309 TGGTGAGTGGTGAAACAATTTTT 57.587 34.783 0.00 0.00 39.98 1.94
130 131 5.363580 AGATGGTGAGTGGTGAAACAATTTT 59.636 36.000 0.00 0.00 39.98 1.82
131 132 4.895297 AGATGGTGAGTGGTGAAACAATTT 59.105 37.500 0.00 0.00 39.98 1.82
132 133 4.473444 AGATGGTGAGTGGTGAAACAATT 58.527 39.130 0.00 0.00 39.98 2.32
133 134 4.104383 AGATGGTGAGTGGTGAAACAAT 57.896 40.909 0.00 0.00 39.98 2.71
134 135 3.576078 AGATGGTGAGTGGTGAAACAA 57.424 42.857 0.00 0.00 39.98 2.83
135 136 3.244422 GGTAGATGGTGAGTGGTGAAACA 60.244 47.826 0.00 0.00 39.98 2.83
136 137 3.008049 AGGTAGATGGTGAGTGGTGAAAC 59.992 47.826 0.00 0.00 0.00 2.78
137 138 3.248024 AGGTAGATGGTGAGTGGTGAAA 58.752 45.455 0.00 0.00 0.00 2.69
138 139 2.902608 AGGTAGATGGTGAGTGGTGAA 58.097 47.619 0.00 0.00 0.00 3.18
139 140 2.623418 AGGTAGATGGTGAGTGGTGA 57.377 50.000 0.00 0.00 0.00 4.02
140 141 5.118990 CAATAAGGTAGATGGTGAGTGGTG 58.881 45.833 0.00 0.00 0.00 4.17
141 142 4.164221 CCAATAAGGTAGATGGTGAGTGGT 59.836 45.833 0.00 0.00 0.00 4.16
142 143 4.708177 CCAATAAGGTAGATGGTGAGTGG 58.292 47.826 0.00 0.00 0.00 4.00
175 176 9.416284 TCCTTTCCGATTTATAAGGCTTAATTT 57.584 29.630 11.59 0.00 37.62 1.82
176 177 8.990163 TCCTTTCCGATTTATAAGGCTTAATT 57.010 30.769 11.59 0.00 37.62 1.40
177 178 7.665974 CCTCCTTTCCGATTTATAAGGCTTAAT 59.334 37.037 11.59 1.98 37.62 1.40
178 179 6.996282 CCTCCTTTCCGATTTATAAGGCTTAA 59.004 38.462 11.59 0.00 37.62 1.85
179 180 6.100714 ACCTCCTTTCCGATTTATAAGGCTTA 59.899 38.462 9.79 9.79 37.62 3.09
180 181 5.104067 ACCTCCTTTCCGATTTATAAGGCTT 60.104 40.000 4.58 4.58 37.62 4.35
181 182 4.412528 ACCTCCTTTCCGATTTATAAGGCT 59.587 41.667 0.00 0.00 37.62 4.58
182 183 4.715713 ACCTCCTTTCCGATTTATAAGGC 58.284 43.478 0.00 0.00 37.62 4.35
183 184 7.063934 ACTACCTCCTTTCCGATTTATAAGG 57.936 40.000 0.00 0.00 38.78 2.69
186 187 8.645110 CCTTTACTACCTCCTTTCCGATTTATA 58.355 37.037 0.00 0.00 0.00 0.98
187 188 7.419865 CCCTTTACTACCTCCTTTCCGATTTAT 60.420 40.741 0.00 0.00 0.00 1.40
188 189 6.126968 CCCTTTACTACCTCCTTTCCGATTTA 60.127 42.308 0.00 0.00 0.00 1.40
189 190 5.338953 CCCTTTACTACCTCCTTTCCGATTT 60.339 44.000 0.00 0.00 0.00 2.17
190 191 4.163649 CCCTTTACTACCTCCTTTCCGATT 59.836 45.833 0.00 0.00 0.00 3.34
191 192 3.710165 CCCTTTACTACCTCCTTTCCGAT 59.290 47.826 0.00 0.00 0.00 4.18
192 193 3.102204 CCCTTTACTACCTCCTTTCCGA 58.898 50.000 0.00 0.00 0.00 4.55
193 194 2.836372 ACCCTTTACTACCTCCTTTCCG 59.164 50.000 0.00 0.00 0.00 4.30
194 195 3.054582 CCACCCTTTACTACCTCCTTTCC 60.055 52.174 0.00 0.00 0.00 3.13
195 196 3.054582 CCCACCCTTTACTACCTCCTTTC 60.055 52.174 0.00 0.00 0.00 2.62
196 197 2.917600 CCCACCCTTTACTACCTCCTTT 59.082 50.000 0.00 0.00 0.00 3.11
197 198 2.157895 ACCCACCCTTTACTACCTCCTT 60.158 50.000 0.00 0.00 0.00 3.36
198 199 1.439944 ACCCACCCTTTACTACCTCCT 59.560 52.381 0.00 0.00 0.00 3.69
199 200 1.962558 ACCCACCCTTTACTACCTCC 58.037 55.000 0.00 0.00 0.00 4.30
200 201 4.356436 TCTAACCCACCCTTTACTACCTC 58.644 47.826 0.00 0.00 0.00 3.85
201 202 4.046360 TCTCTAACCCACCCTTTACTACCT 59.954 45.833 0.00 0.00 0.00 3.08
202 203 4.356436 TCTCTAACCCACCCTTTACTACC 58.644 47.826 0.00 0.00 0.00 3.18
203 204 5.684291 GCATCTCTAACCCACCCTTTACTAC 60.684 48.000 0.00 0.00 0.00 2.73
204 205 4.407945 GCATCTCTAACCCACCCTTTACTA 59.592 45.833 0.00 0.00 0.00 1.82
205 206 3.200165 GCATCTCTAACCCACCCTTTACT 59.800 47.826 0.00 0.00 0.00 2.24
206 207 3.542648 GCATCTCTAACCCACCCTTTAC 58.457 50.000 0.00 0.00 0.00 2.01
207 208 2.508300 GGCATCTCTAACCCACCCTTTA 59.492 50.000 0.00 0.00 0.00 1.85
208 209 1.285078 GGCATCTCTAACCCACCCTTT 59.715 52.381 0.00 0.00 0.00 3.11
209 210 0.919710 GGCATCTCTAACCCACCCTT 59.080 55.000 0.00 0.00 0.00 3.95
210 211 0.988678 GGGCATCTCTAACCCACCCT 60.989 60.000 0.00 0.00 43.64 4.34
211 212 0.988678 AGGGCATCTCTAACCCACCC 60.989 60.000 0.00 0.00 46.88 4.61
212 213 1.802553 TAGGGCATCTCTAACCCACC 58.197 55.000 0.00 0.00 46.88 4.61
213 214 3.744660 CATTAGGGCATCTCTAACCCAC 58.255 50.000 0.00 0.00 46.88 4.61
214 215 2.106511 GCATTAGGGCATCTCTAACCCA 59.893 50.000 0.00 0.00 46.88 4.51
215 216 2.553247 GGCATTAGGGCATCTCTAACCC 60.553 54.545 0.00 0.00 44.62 4.11
263 264 3.699038 TGTTGAAAGTTGGTCCCAAGAAG 59.301 43.478 0.00 0.00 36.52 2.85
266 267 5.105756 GGATATGTTGAAAGTTGGTCCCAAG 60.106 44.000 0.00 0.00 36.52 3.61
316 322 3.695606 TGCCCGTGTCCTGAGAGC 61.696 66.667 0.00 0.00 0.00 4.09
324 330 0.454196 AAAAGTTGTGTGCCCGTGTC 59.546 50.000 0.00 0.00 0.00 3.67
336 342 0.777631 CGCCATTCGTGCAAAAGTTG 59.222 50.000 0.00 0.00 0.00 3.16
354 360 2.684374 TGGCCAATTCAATCATCTGTCG 59.316 45.455 0.61 0.00 0.00 4.35
383 389 4.526262 CCGGTGATCCTCTCTGATTCTAAT 59.474 45.833 0.00 0.00 0.00 1.73
392 2022 0.754957 CTGCTCCGGTGATCCTCTCT 60.755 60.000 7.92 0.00 0.00 3.10
405 2035 4.034510 GTGTGCTGTAATGTAATCTGCTCC 59.965 45.833 0.00 0.00 0.00 4.70
408 2038 4.944962 TGTGTGCTGTAATGTAATCTGC 57.055 40.909 0.00 0.00 0.00 4.26
452 2082 8.462016 CCGGAAAAGAAATGATAAAGTGATCTT 58.538 33.333 0.00 0.00 35.14 2.40
453 2083 7.067494 CCCGGAAAAGAAATGATAAAGTGATCT 59.933 37.037 0.73 0.00 0.00 2.75
458 2088 6.350194 GCTTCCCGGAAAAGAAATGATAAAGT 60.350 38.462 17.68 0.00 0.00 2.66
476 2107 0.318275 CTTCGCTAGCTAGCTTCCCG 60.318 60.000 36.02 23.39 46.85 5.14
487 2123 8.803201 TTGATACTAATTGTGATCTTCGCTAG 57.197 34.615 0.00 0.00 0.00 3.42
671 2315 2.158928 TCGTCTCTCTCTACCTACCTGC 60.159 54.545 0.00 0.00 0.00 4.85
682 2326 0.374063 TGATTCGCGTCGTCTCTCTC 59.626 55.000 5.77 0.00 0.00 3.20
826 2470 3.979497 CTTCACCCCACCCCACCC 61.979 72.222 0.00 0.00 0.00 4.61
988 2640 2.092538 CCTTCCTCATGGTCAATGCTCT 60.093 50.000 0.00 0.00 36.11 4.09
1184 2836 3.274586 CCATCACGCCGAGCATGG 61.275 66.667 0.00 0.00 0.00 3.66
1323 2978 1.022735 GGCTGAATGCTGATCCAGTG 58.977 55.000 0.00 0.00 42.39 3.66
1350 3006 5.084818 TCACAAATATCGATATCCCGCAT 57.915 39.130 18.01 0.00 0.00 4.73
1351 3007 4.529109 TCACAAATATCGATATCCCGCA 57.471 40.909 18.01 0.92 0.00 5.69
1352 3008 6.422776 AAATCACAAATATCGATATCCCGC 57.577 37.500 18.01 0.00 0.00 6.13
1353 3009 7.957484 GTGAAAATCACAAATATCGATATCCCG 59.043 37.037 18.01 11.65 46.22 5.14
1400 3056 3.560105 GCCTTGGATAGCTCCTGAAAAT 58.440 45.455 0.00 0.00 42.59 1.82
1575 3231 2.489938 TCTGCCACACTACAAATCCC 57.510 50.000 0.00 0.00 0.00 3.85
1633 3289 1.376424 CGCTCATCTTGGTGCCACT 60.376 57.895 0.00 0.00 0.00 4.00
2386 4081 0.661020 GTCACAACCGGAACAAGTGG 59.339 55.000 9.46 0.00 0.00 4.00
2450 4145 2.579787 CGTCGGCAGCGTCTAAGG 60.580 66.667 0.00 0.00 0.00 2.69
2749 4474 1.764571 TAGTGTGGTGCCGCCTTCTT 61.765 55.000 0.00 0.00 38.35 2.52
2755 4480 3.253955 CACTTAGTGTGGTGCCGC 58.746 61.111 3.88 0.00 42.68 6.53
2870 4682 2.496070 TCCTACTTTGGATGTGACTCGG 59.504 50.000 0.00 0.00 0.00 4.63
2873 4685 6.472686 GAGTATCCTACTTTGGATGTGACT 57.527 41.667 6.32 2.42 45.58 3.41
2899 4711 3.304458 GGTCCAATGTTTTGTCGTCCTTC 60.304 47.826 0.00 0.00 0.00 3.46
2903 4715 3.701532 TTGGTCCAATGTTTTGTCGTC 57.298 42.857 0.00 0.00 0.00 4.20
2916 4729 3.880047 ACGTCGATCTAATTTGGTCCA 57.120 42.857 0.00 0.00 0.00 4.02
2937 4750 4.941309 GCGGTTTGGGTGGACGGT 62.941 66.667 0.00 0.00 0.00 4.83
2939 4752 4.939368 TGGCGGTTTGGGTGGACG 62.939 66.667 0.00 0.00 0.00 4.79
2941 4754 2.203422 CTTGGCGGTTTGGGTGGA 60.203 61.111 0.00 0.00 0.00 4.02
2942 4755 2.520741 ACTTGGCGGTTTGGGTGG 60.521 61.111 0.00 0.00 0.00 4.61
2943 4756 2.727544 CACTTGGCGGTTTGGGTG 59.272 61.111 0.00 0.00 0.00 4.61
2944 4757 2.520741 CCACTTGGCGGTTTGGGT 60.521 61.111 0.00 0.00 0.00 4.51
2945 4758 2.203422 TCCACTTGGCGGTTTGGG 60.203 61.111 0.00 0.00 34.44 4.12
2946 4759 1.795170 CTGTCCACTTGGCGGTTTGG 61.795 60.000 0.00 0.00 34.44 3.28
2947 4760 1.654220 CTGTCCACTTGGCGGTTTG 59.346 57.895 0.00 0.00 34.44 2.93
2948 4761 2.193536 GCTGTCCACTTGGCGGTTT 61.194 57.895 0.00 0.00 34.44 3.27
2949 4762 2.594592 GCTGTCCACTTGGCGGTT 60.595 61.111 0.00 0.00 34.44 4.44
2951 4764 1.733402 TTTTGCTGTCCACTTGGCGG 61.733 55.000 0.00 0.00 34.44 6.13
2954 4767 1.480137 TGGTTTTTGCTGTCCACTTGG 59.520 47.619 0.00 0.00 0.00 3.61
2968 4781 4.455606 CTTTCTCAGGTCTGACTGGTTTT 58.544 43.478 7.85 0.00 38.98 2.43
2969 4782 3.181450 CCTTTCTCAGGTCTGACTGGTTT 60.181 47.826 7.85 0.00 37.99 3.27
2978 4791 1.179814 ACGTCGCCTTTCTCAGGTCT 61.180 55.000 0.00 0.00 46.07 3.85
2983 4796 0.319555 CTTGGACGTCGCCTTTCTCA 60.320 55.000 9.92 0.00 0.00 3.27
2987 4800 0.319641 GACTCTTGGACGTCGCCTTT 60.320 55.000 9.92 0.00 0.00 3.11
2988 4801 1.289380 GACTCTTGGACGTCGCCTT 59.711 57.895 9.92 0.00 0.00 4.35
2989 4802 1.901948 TGACTCTTGGACGTCGCCT 60.902 57.895 9.92 0.00 32.93 5.52
2990 4803 1.733399 GTGACTCTTGGACGTCGCC 60.733 63.158 9.92 0.00 35.27 5.54
2991 4804 1.733399 GGTGACTCTTGGACGTCGC 60.733 63.158 9.92 3.20 39.32 5.19
2993 4806 0.526662 ATCGGTGACTCTTGGACGTC 59.473 55.000 7.13 7.13 0.00 4.34
2994 4807 0.243907 CATCGGTGACTCTTGGACGT 59.756 55.000 0.00 0.00 0.00 4.34
2995 4808 0.526211 TCATCGGTGACTCTTGGACG 59.474 55.000 0.00 0.00 0.00 4.79
3010 4823 1.852895 GACGCAATGTACTCCGTCATC 59.147 52.381 17.00 0.00 46.57 2.92
3011 4824 1.922570 GACGCAATGTACTCCGTCAT 58.077 50.000 17.00 0.00 46.57 3.06
3012 4825 3.411808 GACGCAATGTACTCCGTCA 57.588 52.632 17.00 0.00 46.57 4.35
3014 4827 1.217244 GGGACGCAATGTACTCCGT 59.783 57.895 0.00 0.00 36.53 4.69
3015 4828 0.390603 TTGGGACGCAATGTACTCCG 60.391 55.000 0.00 0.00 0.00 4.63
3016 4829 1.737793 CTTTGGGACGCAATGTACTCC 59.262 52.381 5.70 0.00 0.00 3.85
3017 4830 1.737793 CCTTTGGGACGCAATGTACTC 59.262 52.381 5.70 0.00 33.58 2.59
3018 4831 1.821216 CCTTTGGGACGCAATGTACT 58.179 50.000 5.70 0.00 33.58 2.73
3019 4832 0.170339 GCCTTTGGGACGCAATGTAC 59.830 55.000 5.70 0.18 33.58 2.90
3020 4833 0.037590 AGCCTTTGGGACGCAATGTA 59.962 50.000 5.70 0.00 33.58 2.29
3021 4834 1.228552 AGCCTTTGGGACGCAATGT 60.229 52.632 5.70 0.00 33.58 2.71
3022 4835 1.243342 TGAGCCTTTGGGACGCAATG 61.243 55.000 5.70 8.31 33.58 2.82
3023 4836 0.323725 ATGAGCCTTTGGGACGCAAT 60.324 50.000 5.70 0.00 33.58 3.56
3024 4837 0.326595 TATGAGCCTTTGGGACGCAA 59.673 50.000 0.00 0.00 33.58 4.85
3025 4838 0.392461 GTATGAGCCTTTGGGACGCA 60.392 55.000 0.00 0.00 33.58 5.24
3026 4839 1.429148 CGTATGAGCCTTTGGGACGC 61.429 60.000 0.00 0.00 33.58 5.19
3027 4840 1.429148 GCGTATGAGCCTTTGGGACG 61.429 60.000 0.00 0.00 33.01 4.79
3028 4841 0.392461 TGCGTATGAGCCTTTGGGAC 60.392 55.000 0.00 0.00 36.02 4.46
3029 4842 0.392461 GTGCGTATGAGCCTTTGGGA 60.392 55.000 0.00 0.00 36.02 4.37
3030 4843 1.705337 CGTGCGTATGAGCCTTTGGG 61.705 60.000 0.00 0.00 36.02 4.12
3032 4845 1.019278 ACCGTGCGTATGAGCCTTTG 61.019 55.000 0.00 0.00 36.02 2.77
3035 4848 1.734137 CTACCGTGCGTATGAGCCT 59.266 57.895 0.00 0.00 36.02 4.58
3036 4849 1.949631 GCTACCGTGCGTATGAGCC 60.950 63.158 0.00 0.00 36.02 4.70
3037 4850 0.597637 ATGCTACCGTGCGTATGAGC 60.598 55.000 0.00 0.00 35.36 4.26
3038 4851 2.031069 ACTATGCTACCGTGCGTATGAG 60.031 50.000 0.00 0.00 34.42 2.90
3039 4852 1.951602 ACTATGCTACCGTGCGTATGA 59.048 47.619 0.00 0.00 34.42 2.15
3040 4853 2.417339 ACTATGCTACCGTGCGTATG 57.583 50.000 0.00 0.00 34.42 2.39
3041 4854 2.359848 TGAACTATGCTACCGTGCGTAT 59.640 45.455 0.00 0.00 34.42 3.06
3042 4855 1.744522 TGAACTATGCTACCGTGCGTA 59.255 47.619 0.00 0.00 35.36 4.42
3043 4856 0.528924 TGAACTATGCTACCGTGCGT 59.471 50.000 0.00 0.00 35.36 5.24
3044 4857 0.921347 GTGAACTATGCTACCGTGCG 59.079 55.000 0.00 0.00 35.36 5.34
3045 4858 1.287425 GGTGAACTATGCTACCGTGC 58.713 55.000 0.00 0.00 0.00 5.34
3046 4859 2.665649 TGGTGAACTATGCTACCGTG 57.334 50.000 0.00 0.00 35.98 4.94
3047 4860 2.354403 GGTTGGTGAACTATGCTACCGT 60.354 50.000 0.00 0.00 35.98 4.83
3048 4861 2.277084 GGTTGGTGAACTATGCTACCG 58.723 52.381 0.00 0.00 35.98 4.02
3049 4862 2.640184 GGGTTGGTGAACTATGCTACC 58.360 52.381 0.00 0.00 32.15 3.18
3050 4863 2.093869 TCGGGTTGGTGAACTATGCTAC 60.094 50.000 0.00 0.00 32.15 3.58
3051 4864 2.167693 CTCGGGTTGGTGAACTATGCTA 59.832 50.000 0.00 0.00 32.15 3.49
3052 4865 0.981183 TCGGGTTGGTGAACTATGCT 59.019 50.000 0.00 0.00 32.15 3.79
3053 4866 1.338769 ACTCGGGTTGGTGAACTATGC 60.339 52.381 0.00 0.00 32.15 3.14
3054 4867 2.346803 CACTCGGGTTGGTGAACTATG 58.653 52.381 0.00 0.00 35.69 2.23
3055 4868 1.278127 CCACTCGGGTTGGTGAACTAT 59.722 52.381 0.00 0.00 35.69 2.12
3056 4869 0.682852 CCACTCGGGTTGGTGAACTA 59.317 55.000 0.00 0.00 35.69 2.24
3057 4870 1.052124 TCCACTCGGGTTGGTGAACT 61.052 55.000 0.00 0.00 38.11 3.01
3058 4871 0.036306 ATCCACTCGGGTTGGTGAAC 59.964 55.000 0.00 0.00 38.11 3.18
3059 4872 0.768622 AATCCACTCGGGTTGGTGAA 59.231 50.000 0.00 0.00 32.88 3.18
3060 4873 2.458892 AATCCACTCGGGTTGGTGA 58.541 52.632 0.00 0.00 32.88 4.02
3115 4928 0.251608 CCCAATCCCCTTTCACGGTT 60.252 55.000 0.00 0.00 0.00 4.44
3188 5021 0.323908 AGCTCGGAACCTCTGCTAGT 60.324 55.000 0.00 0.00 31.71 2.57
3191 5024 1.490574 ATTAGCTCGGAACCTCTGCT 58.509 50.000 0.00 0.00 37.72 4.24
3197 5030 4.650754 TCAAGACTATTAGCTCGGAACC 57.349 45.455 0.00 0.00 0.00 3.62
3198 5031 5.867716 TGTTTCAAGACTATTAGCTCGGAAC 59.132 40.000 0.00 0.00 0.00 3.62
3200 5033 5.654603 TGTTTCAAGACTATTAGCTCGGA 57.345 39.130 0.00 0.00 0.00 4.55
3235 5080 8.665643 TTTTTGAGAATTGATGCAGTTGAATT 57.334 26.923 0.00 0.00 0.00 2.17
3303 5206 4.147219 AGCGCAGAAATACTTTGTGTTC 57.853 40.909 11.47 0.00 36.40 3.18


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

AutoCloner maintained by Alex Coulton.