Multiple sequence alignment - TraesCS7A01G515200

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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 TraesCS7A01G515200 chr7A 100.000 2602 0 0 1 2602 700821761 700824362 0.000000e+00 4806.0
1 TraesCS7A01G515200 chr7D 88.123 1886 103 46 322 2123 610920352 610922200 0.000000e+00 2130.0
2 TraesCS7A01G515200 chr7D 87.551 490 28 12 1965 2452 610922040 610922498 1.060000e-148 536.0
3 TraesCS7A01G515200 chr7D 96.407 167 6 0 2436 2602 610923190 610923356 2.550000e-70 276.0
4 TraesCS7A01G515200 chr7D 79.457 258 41 10 2155 2407 628227641 628227391 3.440000e-39 172.0
5 TraesCS7A01G515200 chr7D 89.655 58 4 2 400 455 629902177 629902234 3.590000e-09 73.1
6 TraesCS7A01G515200 chr7D 97.368 38 1 0 409 446 570645310 570645273 6.010000e-07 65.8
7 TraesCS7A01G515200 chr7B 86.773 2064 88 75 635 2602 699953302 699955276 0.000000e+00 2128.0
8 TraesCS7A01G515200 chr7B 79.104 268 42 12 2145 2407 730778666 730778924 3.440000e-39 172.0
9 TraesCS7A01G515200 chr7B 79.104 268 42 12 2145 2407 730805446 730805704 3.440000e-39 172.0
10 TraesCS7A01G515200 chr7B 87.970 133 7 7 651 774 699933197 699933329 5.800000e-32 148.0
11 TraesCS7A01G515200 chr7B 98.551 69 1 0 761 829 699950082 699950150 3.520000e-24 122.0
12 TraesCS7A01G515200 chr7B 92.308 52 4 0 405 456 648164176 648164227 9.990000e-10 75.0
13 TraesCS7A01G515200 chr1B 79.762 336 62 4 1079 1414 642495929 642496258 3.350000e-59 239.0
14 TraesCS7A01G515200 chr1A 77.750 400 78 6 1029 1424 557989322 557989714 4.330000e-58 235.0
15 TraesCS7A01G515200 chr1D 78.613 346 68 4 1079 1424 465583415 465583754 9.370000e-55 224.0
16 TraesCS7A01G515200 chr1D 91.837 49 4 0 407 455 356864754 356864802 4.650000e-08 69.4
17 TraesCS7A01G515200 chrUn 78.386 347 69 4 1072 1413 16702871 16702526 1.210000e-53 220.0
18 TraesCS7A01G515200 chrUn 78.386 347 69 4 1072 1413 16713410 16713065 1.210000e-53 220.0
19 TraesCS7A01G515200 chrUn 78.386 347 69 4 1072 1413 141677253 141676908 1.210000e-53 220.0
20 TraesCS7A01G515200 chr2A 77.746 355 70 7 1066 1413 20554514 20554162 2.620000e-50 209.0
21 TraesCS7A01G515200 chr3B 78.088 251 42 10 2156 2404 529674221 529674460 2.090000e-31 147.0
22 TraesCS7A01G515200 chr5A 78.924 223 38 6 2190 2406 314671999 314672218 2.700000e-30 143.0
23 TraesCS7A01G515200 chr5A 83.117 154 22 4 1253 1405 7453745 7453895 1.260000e-28 137.0
24 TraesCS7A01G515200 chr4D 84.000 150 16 5 2262 2410 32942503 32942361 1.260000e-28 137.0
25 TraesCS7A01G515200 chr4D 95.122 41 2 0 409 449 507687425 507687385 6.010000e-07 65.8
26 TraesCS7A01G515200 chr5D 80.723 166 30 2 1253 1418 490870383 490870546 7.560000e-26 128.0
27 TraesCS7A01G515200 chr2B 76.190 252 54 5 2161 2409 756184511 756184759 7.560000e-26 128.0
28 TraesCS7A01G515200 chr2B 92.000 50 3 1 409 458 201368858 201368810 4.650000e-08 69.4
29 TraesCS7A01G515200 chr5B 80.120 166 31 2 1253 1418 605336463 605336626 3.520000e-24 122.0
30 TraesCS7A01G515200 chr2D 90.566 53 5 0 403 455 164536491 164536543 1.290000e-08 71.3
31 TraesCS7A01G515200 chr4A 94.737 38 2 0 403 440 353108797 353108834 2.800000e-05 60.2


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 TraesCS7A01G515200 chr7A 700821761 700824362 2601 False 4806.000000 4806 100.000000 1 2602 1 chr7A.!!$F1 2601
1 TraesCS7A01G515200 chr7D 610920352 610923356 3004 False 980.666667 2130 90.693667 322 2602 3 chr7D.!!$F2 2280
2 TraesCS7A01G515200 chr7B 699950082 699955276 5194 False 1125.000000 2128 92.662000 635 2602 2 chr7B.!!$F5 1967

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
187 188 0.108281 TTCCCACACAAACACGTCGA 60.108 50.0 0.00 0.00 0.00 4.20 F
212 213 0.251787 ATGGCCACAACTTTCCCTCC 60.252 55.0 8.16 0.00 0.00 4.30 F
1458 4110 0.310854 TATGCAGTGCGACGATCGAT 59.689 50.0 24.34 5.96 43.74 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1435 4087 0.030773 ATCGTCGCACTGCATACGAT 59.969 50.000 24.97 24.97 45.32 3.73 R
1486 4138 0.099436 GCATCCACCGCAGTTCAATC 59.901 55.000 0.00 0.00 0.00 2.67 R
2566 6021 4.396166 GTCAATGGTGAAAACGGATCATCT 59.604 41.667 0.00 0.00 34.87 2.90 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
48 49 3.431922 AAATCATGGATGCTCAAAGCG 57.568 42.857 0.00 0.00 46.26 4.68
49 50 0.666913 ATCATGGATGCTCAAAGCGC 59.333 50.000 0.00 0.00 46.26 5.92
50 51 0.677414 TCATGGATGCTCAAAGCGCA 60.677 50.000 11.47 0.00 46.26 6.09
58 59 2.083002 TGCTCAAAGCGCATATGTCAA 58.917 42.857 11.47 0.00 46.26 3.18
59 60 2.159531 TGCTCAAAGCGCATATGTCAAC 60.160 45.455 11.47 0.00 46.26 3.18
60 61 2.159531 GCTCAAAGCGCATATGTCAACA 60.160 45.455 11.47 0.00 0.00 3.33
61 62 3.670359 GCTCAAAGCGCATATGTCAACAA 60.670 43.478 11.47 0.00 0.00 2.83
62 63 3.820689 TCAAAGCGCATATGTCAACAAC 58.179 40.909 11.47 0.00 0.00 3.32
63 64 2.916716 CAAAGCGCATATGTCAACAACC 59.083 45.455 11.47 0.00 0.00 3.77
64 65 1.819928 AGCGCATATGTCAACAACCA 58.180 45.000 11.47 0.00 0.00 3.67
65 66 1.468520 AGCGCATATGTCAACAACCAC 59.531 47.619 11.47 0.00 0.00 4.16
66 67 1.468520 GCGCATATGTCAACAACCACT 59.531 47.619 0.30 0.00 0.00 4.00
67 68 2.675844 GCGCATATGTCAACAACCACTA 59.324 45.455 0.30 0.00 0.00 2.74
68 69 3.126171 GCGCATATGTCAACAACCACTAA 59.874 43.478 0.30 0.00 0.00 2.24
70 71 5.694816 CGCATATGTCAACAACCACTAAAA 58.305 37.500 4.29 0.00 0.00 1.52
90 91 5.629079 AAAAATCCAGGTCAAGATTCGAC 57.371 39.130 0.00 0.00 31.54 4.20
91 92 3.981071 AATCCAGGTCAAGATTCGACA 57.019 42.857 0.00 0.00 34.97 4.35
92 93 4.494091 AATCCAGGTCAAGATTCGACAT 57.506 40.909 0.00 0.00 34.97 3.06
94 95 4.386867 TCCAGGTCAAGATTCGACATAC 57.613 45.455 0.00 0.00 34.97 2.39
95 96 3.767131 TCCAGGTCAAGATTCGACATACA 59.233 43.478 0.00 0.00 34.97 2.29
96 97 3.865745 CCAGGTCAAGATTCGACATACAC 59.134 47.826 0.00 0.00 34.97 2.90
97 98 4.494484 CAGGTCAAGATTCGACATACACA 58.506 43.478 0.00 0.00 34.97 3.72
98 99 4.929211 CAGGTCAAGATTCGACATACACAA 59.071 41.667 0.00 0.00 34.97 3.33
100 101 5.639506 AGGTCAAGATTCGACATACACAAAG 59.360 40.000 0.00 0.00 34.97 2.77
101 102 5.637810 GGTCAAGATTCGACATACACAAAGA 59.362 40.000 0.00 0.00 34.97 2.52
102 103 6.183360 GGTCAAGATTCGACATACACAAAGAG 60.183 42.308 0.00 0.00 34.97 2.85
104 105 7.116376 GTCAAGATTCGACATACACAAAGAGAA 59.884 37.037 0.00 0.00 33.43 2.87
105 106 7.655732 TCAAGATTCGACATACACAAAGAGAAA 59.344 33.333 0.00 0.00 0.00 2.52
107 108 9.653287 AAGATTCGACATACACAAAGAGAAATA 57.347 29.630 0.00 0.00 0.00 1.40
108 109 9.653287 AGATTCGACATACACAAAGAGAAATAA 57.347 29.630 0.00 0.00 0.00 1.40
136 137 8.655935 AAAAGACAAATTCAGATGGGAATAGT 57.344 30.769 0.00 0.00 36.51 2.12
137 138 7.636150 AAGACAAATTCAGATGGGAATAGTG 57.364 36.000 0.00 0.00 36.51 2.74
138 139 6.725364 AGACAAATTCAGATGGGAATAGTGT 58.275 36.000 0.00 0.00 37.88 3.55
140 141 8.328758 AGACAAATTCAGATGGGAATAGTGTTA 58.671 33.333 0.00 0.00 36.53 2.41
141 142 8.877864 ACAAATTCAGATGGGAATAGTGTTAA 57.122 30.769 0.00 0.00 36.51 2.01
142 143 9.308000 ACAAATTCAGATGGGAATAGTGTTAAA 57.692 29.630 0.00 0.00 36.51 1.52
148 149 9.627123 TCAGATGGGAATAGTGTTAAATTAAGG 57.373 33.333 0.00 0.00 0.00 2.69
149 150 9.627123 CAGATGGGAATAGTGTTAAATTAAGGA 57.373 33.333 0.00 0.00 0.00 3.36
150 151 9.628500 AGATGGGAATAGTGTTAAATTAAGGAC 57.372 33.333 0.00 0.00 0.00 3.85
151 152 9.628500 GATGGGAATAGTGTTAAATTAAGGACT 57.372 33.333 3.67 3.67 0.00 3.85
153 154 7.832187 TGGGAATAGTGTTAAATTAAGGACTGG 59.168 37.037 7.32 0.00 0.00 4.00
155 156 9.895138 GGAATAGTGTTAAATTAAGGACTGGTA 57.105 33.333 7.32 0.00 0.00 3.25
159 160 8.788325 AGTGTTAAATTAAGGACTGGTATCAC 57.212 34.615 0.00 0.00 0.00 3.06
160 161 7.827729 AGTGTTAAATTAAGGACTGGTATCACC 59.172 37.037 0.00 0.00 39.22 4.02
162 163 7.827236 TGTTAAATTAAGGACTGGTATCACCTG 59.173 37.037 0.00 1.11 42.22 4.00
163 164 6.636454 AAATTAAGGACTGGTATCACCTGA 57.364 37.500 8.97 0.00 39.29 3.86
165 166 7.931015 AATTAAGGACTGGTATCACCTGATA 57.069 36.000 8.97 0.00 39.29 2.15
176 177 3.695830 TCACCTGATACTTTCCCACAC 57.304 47.619 0.00 0.00 0.00 3.82
177 178 2.976185 TCACCTGATACTTTCCCACACA 59.024 45.455 0.00 0.00 0.00 3.72
178 179 3.392947 TCACCTGATACTTTCCCACACAA 59.607 43.478 0.00 0.00 0.00 3.33
179 180 4.141287 CACCTGATACTTTCCCACACAAA 58.859 43.478 0.00 0.00 0.00 2.83
180 181 4.023193 CACCTGATACTTTCCCACACAAAC 60.023 45.833 0.00 0.00 0.00 2.93
181 182 4.141287 CCTGATACTTTCCCACACAAACA 58.859 43.478 0.00 0.00 0.00 2.83
182 183 4.023193 CCTGATACTTTCCCACACAAACAC 60.023 45.833 0.00 0.00 0.00 3.32
183 184 3.562141 TGATACTTTCCCACACAAACACG 59.438 43.478 0.00 0.00 0.00 4.49
186 187 0.727970 TTTCCCACACAAACACGTCG 59.272 50.000 0.00 0.00 0.00 5.12
187 188 0.108281 TTCCCACACAAACACGTCGA 60.108 50.000 0.00 0.00 0.00 4.20
188 189 0.806884 TCCCACACAAACACGTCGAC 60.807 55.000 5.18 5.18 0.00 4.20
190 191 1.639534 CACACAAACACGTCGACCC 59.360 57.895 10.58 0.00 0.00 4.46
191 192 1.522130 ACACAAACACGTCGACCCC 60.522 57.895 10.58 0.00 0.00 4.95
192 193 2.109593 ACAAACACGTCGACCCCC 59.890 61.111 10.58 0.00 0.00 5.40
193 194 2.109387 CAAACACGTCGACCCCCA 59.891 61.111 10.58 0.00 0.00 4.96
195 196 1.302192 AAACACGTCGACCCCCATG 60.302 57.895 10.58 3.59 0.00 3.66
196 197 2.741486 AAACACGTCGACCCCCATGG 62.741 60.000 10.58 4.14 41.37 3.66
202 203 4.358841 CGACCCCCATGGCCACAA 62.359 66.667 8.16 0.00 37.83 3.33
203 204 2.679996 GACCCCCATGGCCACAAC 60.680 66.667 8.16 0.00 37.83 3.32
204 205 3.192630 ACCCCCATGGCCACAACT 61.193 61.111 8.16 0.00 37.83 3.16
205 206 2.120274 CCCCCATGGCCACAACTT 59.880 61.111 8.16 0.00 0.00 2.66
206 207 1.536174 CCCCCATGGCCACAACTTT 60.536 57.895 8.16 0.00 0.00 2.66
207 208 1.543944 CCCCCATGGCCACAACTTTC 61.544 60.000 8.16 0.00 0.00 2.62
208 209 1.543944 CCCCATGGCCACAACTTTCC 61.544 60.000 8.16 0.00 0.00 3.13
209 210 1.543944 CCCATGGCCACAACTTTCCC 61.544 60.000 8.16 0.00 0.00 3.97
210 211 0.542702 CCATGGCCACAACTTTCCCT 60.543 55.000 8.16 0.00 0.00 4.20
211 212 0.890683 CATGGCCACAACTTTCCCTC 59.109 55.000 8.16 0.00 0.00 4.30
212 213 0.251787 ATGGCCACAACTTTCCCTCC 60.252 55.000 8.16 0.00 0.00 4.30
213 214 1.606601 GGCCACAACTTTCCCTCCC 60.607 63.158 0.00 0.00 0.00 4.30
214 215 1.606601 GCCACAACTTTCCCTCCCC 60.607 63.158 0.00 0.00 0.00 4.81
215 216 1.303317 CCACAACTTTCCCTCCCCG 60.303 63.158 0.00 0.00 0.00 5.73
216 217 1.971695 CACAACTTTCCCTCCCCGC 60.972 63.158 0.00 0.00 0.00 6.13
217 218 2.746277 CAACTTTCCCTCCCCGCG 60.746 66.667 0.00 0.00 0.00 6.46
218 219 4.717313 AACTTTCCCTCCCCGCGC 62.717 66.667 0.00 0.00 0.00 6.86
270 271 2.045242 GAAAAGGGGGAGGCGGAC 60.045 66.667 0.00 0.00 0.00 4.79
271 272 3.640257 GAAAAGGGGGAGGCGGACC 62.640 68.421 0.00 0.00 0.00 4.46
306 307 4.742201 GCAGAGCACGGCGGAAGA 62.742 66.667 13.24 0.00 0.00 2.87
308 309 4.070552 AGAGCACGGCGGAAGACC 62.071 66.667 13.24 0.00 33.32 3.85
318 319 3.998672 GGAAGACCGACGGTGGCA 61.999 66.667 27.26 0.00 35.25 4.92
319 320 2.029964 GAAGACCGACGGTGGCAA 59.970 61.111 27.26 0.00 35.25 4.52
320 321 2.027625 GAAGACCGACGGTGGCAAG 61.028 63.158 27.26 0.00 35.25 4.01
321 322 3.530910 AAGACCGACGGTGGCAAGG 62.531 63.158 27.26 0.00 35.25 3.61
373 374 2.550855 CGAACTATACATGGCATGCCCT 60.551 50.000 33.44 22.10 34.56 5.19
402 403 4.673441 CCGTCTCGTCTGATGAGTTATTT 58.327 43.478 22.57 0.00 33.10 1.40
404 405 5.577164 CCGTCTCGTCTGATGAGTTATTTTT 59.423 40.000 22.57 0.00 33.10 1.94
442 443 7.364200 TGTTCCATAATGTAAGACGTTTTTGG 58.636 34.615 0.00 0.00 33.76 3.28
472 473 7.938563 AAACTAGATGATCGATTAGCACTTC 57.061 36.000 8.22 0.00 0.00 3.01
474 475 7.283625 ACTAGATGATCGATTAGCACTTCTT 57.716 36.000 8.22 0.00 0.00 2.52
476 477 8.851145 ACTAGATGATCGATTAGCACTTCTTTA 58.149 33.333 8.22 0.00 0.00 1.85
477 478 9.853555 CTAGATGATCGATTAGCACTTCTTTAT 57.146 33.333 8.22 0.00 0.00 1.40
572 576 3.249917 GCGTACCATGTCCCAAAATTTG 58.750 45.455 0.00 0.00 0.00 2.32
573 577 3.057174 GCGTACCATGTCCCAAAATTTGA 60.057 43.478 7.37 0.00 0.00 2.69
574 578 4.559704 GCGTACCATGTCCCAAAATTTGAA 60.560 41.667 7.37 0.00 0.00 2.69
575 579 5.533482 CGTACCATGTCCCAAAATTTGAAA 58.467 37.500 7.37 0.00 0.00 2.69
576 580 5.986135 CGTACCATGTCCCAAAATTTGAAAA 59.014 36.000 7.37 0.00 0.00 2.29
577 581 6.145371 CGTACCATGTCCCAAAATTTGAAAAG 59.855 38.462 7.37 0.00 0.00 2.27
578 582 4.821260 ACCATGTCCCAAAATTTGAAAAGC 59.179 37.500 7.37 0.00 0.00 3.51
579 583 4.820716 CCATGTCCCAAAATTTGAAAAGCA 59.179 37.500 7.37 0.00 0.00 3.91
580 584 5.298777 CCATGTCCCAAAATTTGAAAAGCAA 59.701 36.000 7.37 0.00 33.88 3.91
581 585 5.809719 TGTCCCAAAATTTGAAAAGCAAC 57.190 34.783 7.37 0.00 35.91 4.17
582 586 5.495640 TGTCCCAAAATTTGAAAAGCAACT 58.504 33.333 7.37 0.00 35.91 3.16
584 588 6.093357 TGTCCCAAAATTTGAAAAGCAACTTC 59.907 34.615 7.37 0.00 35.91 3.01
585 589 5.293079 TCCCAAAATTTGAAAAGCAACTTCG 59.707 36.000 7.37 0.00 35.91 3.79
586 590 5.293079 CCCAAAATTTGAAAAGCAACTTCGA 59.707 36.000 7.37 0.00 35.91 3.71
588 592 7.408910 CCAAAATTTGAAAAGCAACTTCGATT 58.591 30.769 7.37 0.00 35.91 3.34
589 593 7.909641 CCAAAATTTGAAAAGCAACTTCGATTT 59.090 29.630 7.37 0.00 35.91 2.17
591 595 9.838975 AAAATTTGAAAAGCAACTTCGATTTTT 57.161 22.222 0.00 0.00 35.91 1.94
755 3374 5.333566 ACTATTTTTGTGGGGAGAAAGGA 57.666 39.130 0.00 0.00 0.00 3.36
890 3513 0.384669 GGTCACCTACCTCCGAATCG 59.615 60.000 0.00 0.00 45.75 3.34
931 3557 2.360475 GCTCCTGTTGAGGCCACC 60.360 66.667 5.01 0.00 41.73 4.61
932 3558 3.160585 CTCCTGTTGAGGCCACCA 58.839 61.111 5.01 0.00 39.57 4.17
934 3560 2.055689 CTCCTGTTGAGGCCACCACA 62.056 60.000 5.01 6.16 39.57 4.17
994 3643 3.547468 GGAATCAAAATCAATTCGCGTGG 59.453 43.478 5.77 0.00 33.57 4.94
1352 4004 1.005748 TCCACTGCTTCTGCGAGTG 60.006 57.895 0.00 0.00 42.42 3.51
1422 4074 2.183300 GACATCGGTGCGTGCCTA 59.817 61.111 0.00 0.00 0.00 3.93
1433 4085 4.477975 GTGCCTACGCTCGCGAGT 62.478 66.667 34.46 20.88 42.83 4.18
1434 4086 4.476410 TGCCTACGCTCGCGAGTG 62.476 66.667 39.80 39.80 44.11 3.51
1435 4087 4.175489 GCCTACGCTCGCGAGTGA 62.175 66.667 45.61 30.33 41.24 3.41
1436 4088 2.716244 CCTACGCTCGCGAGTGAT 59.284 61.111 45.61 32.79 41.24 3.06
1437 4089 1.369448 CCTACGCTCGCGAGTGATC 60.369 63.158 45.61 25.50 41.24 2.92
1438 4090 1.719425 CTACGCTCGCGAGTGATCG 60.719 63.158 45.61 35.15 41.24 3.69
1439 4091 2.362764 CTACGCTCGCGAGTGATCGT 62.363 60.000 45.61 37.93 41.24 3.73
1440 4092 1.147557 TACGCTCGCGAGTGATCGTA 61.148 55.000 45.61 36.99 41.24 3.43
1441 4093 1.082692 CGCTCGCGAGTGATCGTAT 60.083 57.895 39.29 0.00 41.24 3.06
1442 4094 1.323827 CGCTCGCGAGTGATCGTATG 61.324 60.000 39.29 11.97 41.24 2.39
1443 4095 1.601147 GCTCGCGAGTGATCGTATGC 61.601 60.000 34.46 15.43 35.26 3.14
1444 4096 0.317020 CTCGCGAGTGATCGTATGCA 60.317 55.000 27.79 0.00 35.26 3.96
1445 4097 0.317020 TCGCGAGTGATCGTATGCAG 60.317 55.000 3.71 0.00 35.26 4.41
1446 4098 0.592500 CGCGAGTGATCGTATGCAGT 60.593 55.000 0.00 0.00 35.26 4.40
1447 4099 0.848942 GCGAGTGATCGTATGCAGTG 59.151 55.000 0.00 0.00 35.26 3.66
1448 4100 0.848942 CGAGTGATCGTATGCAGTGC 59.151 55.000 8.58 8.58 0.00 4.40
1449 4101 0.848942 GAGTGATCGTATGCAGTGCG 59.151 55.000 11.20 0.00 37.27 5.34
1453 4105 2.871828 TCGTATGCAGTGCGACGA 59.128 55.556 30.22 30.22 43.49 4.20
1454 4106 1.431845 TCGTATGCAGTGCGACGAT 59.568 52.632 30.22 14.22 41.86 3.73
1455 4107 0.591488 TCGTATGCAGTGCGACGATC 60.591 55.000 30.22 10.47 41.86 3.69
1456 4108 1.840061 GTATGCAGTGCGACGATCG 59.160 57.895 14.88 14.88 43.89 3.69
1457 4109 0.591488 GTATGCAGTGCGACGATCGA 60.591 55.000 24.34 0.00 43.74 3.59
1458 4110 0.310854 TATGCAGTGCGACGATCGAT 59.689 50.000 24.34 5.96 43.74 3.59
1459 4111 0.310854 ATGCAGTGCGACGATCGATA 59.689 50.000 24.34 1.52 43.74 2.92
1460 4112 0.310854 TGCAGTGCGACGATCGATAT 59.689 50.000 24.34 0.00 43.74 1.63
1461 4113 0.705094 GCAGTGCGACGATCGATATG 59.295 55.000 24.34 11.86 43.74 1.78
1462 4114 0.705094 CAGTGCGACGATCGATATGC 59.295 55.000 24.34 18.55 43.74 3.14
1463 4115 0.310854 AGTGCGACGATCGATATGCA 59.689 50.000 24.34 20.82 43.74 3.96
1464 4116 1.068264 AGTGCGACGATCGATATGCAT 60.068 47.619 24.34 3.79 43.74 3.96
1465 4117 1.058270 GTGCGACGATCGATATGCATG 59.942 52.381 24.34 2.97 43.74 4.06
1466 4118 1.335872 TGCGACGATCGATATGCATGT 60.336 47.619 24.34 1.23 43.74 3.21
1467 4119 1.058270 GCGACGATCGATATGCATGTG 59.942 52.381 24.34 0.00 43.74 3.21
1468 4120 2.319472 CGACGATCGATATGCATGTGT 58.681 47.619 24.34 0.00 43.74 3.72
1469 4121 2.089581 CGACGATCGATATGCATGTGTG 59.910 50.000 24.34 0.00 43.74 3.82
1483 4135 4.570369 TGCATGTGTGGTTCGTTATCTATG 59.430 41.667 0.00 0.00 0.00 2.23
1484 4136 4.570772 GCATGTGTGGTTCGTTATCTATGT 59.429 41.667 0.00 0.00 0.00 2.29
1486 4138 6.477742 CATGTGTGGTTCGTTATCTATGTTG 58.522 40.000 0.00 0.00 0.00 3.33
1487 4139 5.785243 TGTGTGGTTCGTTATCTATGTTGA 58.215 37.500 0.00 0.00 0.00 3.18
1511 4200 2.440613 TGCGGTGGATGCATGCAT 60.441 55.556 32.66 32.66 37.44 3.96
1512 4201 2.027024 GCGGTGGATGCATGCATG 59.973 61.111 36.73 22.30 36.70 4.06
1655 4347 0.464554 GCCACCTAGCTGTTGGATCC 60.465 60.000 4.20 4.20 0.00 3.36
1680 4373 8.531982 CCAAATCTATATACCTTCCATCTCGAA 58.468 37.037 0.00 0.00 0.00 3.71
1725 4423 4.774726 TCAGCTTAGGACAAGAGATCAAGT 59.225 41.667 0.00 0.00 0.00 3.16
1905 4604 4.737855 TTCCTATCAGTGTAGGTGCTTC 57.262 45.455 14.60 0.00 41.65 3.86
1956 4656 9.020813 GTTTTCTCAACACCTTTGTATCTTTTC 57.979 33.333 0.00 0.00 33.55 2.29
1958 4658 6.053005 TCTCAACACCTTTGTATCTTTTCGT 58.947 36.000 0.00 0.00 33.55 3.85
1959 4659 6.540914 TCTCAACACCTTTGTATCTTTTCGTT 59.459 34.615 0.00 0.00 33.55 3.85
1960 4660 6.491394 TCAACACCTTTGTATCTTTTCGTTG 58.509 36.000 0.00 0.00 33.55 4.10
1972 4677 4.477780 TCTTTTCGTTGCTTTTTCGTTGT 58.522 34.783 0.00 0.00 0.00 3.32
1999 4735 3.951037 TGTGCTTGTGTTGGTTGTATTCT 59.049 39.130 0.00 0.00 0.00 2.40
2003 4739 5.468746 TGCTTGTGTTGGTTGTATTCTAGAC 59.531 40.000 0.00 0.00 0.00 2.59
2019 4755 0.112412 AGACGGGGTTGATGGCTTTT 59.888 50.000 0.00 0.00 0.00 2.27
2039 4775 5.373812 TTTTTAATTCAAAGTTGGGCCCA 57.626 34.783 24.45 24.45 0.00 5.36
2060 4797 4.443457 CCATCCGAGCCTCATTTCTTAGAA 60.443 45.833 0.00 0.00 0.00 2.10
2150 4896 5.023533 TCTTACTGCACATTGATACTCCC 57.976 43.478 0.00 0.00 0.00 4.30
2151 4897 4.469586 TCTTACTGCACATTGATACTCCCA 59.530 41.667 0.00 0.00 0.00 4.37
2208 4954 7.404203 TCGTAAAGTCAAACTTGCTTAAGTTC 58.596 34.615 4.02 0.00 41.76 3.01
2214 4960 4.636648 TCAAACTTGCTTAAGTTCGACCAA 59.363 37.500 4.02 0.00 41.76 3.67
2225 4971 7.858879 GCTTAAGTTCGACCAATTTTGTAGAAA 59.141 33.333 4.02 0.00 0.00 2.52
2266 5012 9.569167 CTACAATATGGAATACACATAGTACGG 57.431 37.037 0.00 0.00 35.05 4.02
2294 5040 9.753674 ACTATATGTCCCAAAGAATCTCAAAAA 57.246 29.630 0.00 0.00 0.00 1.94
2566 6021 3.701542 CCTCTCTAACAGCACACCTGATA 59.298 47.826 0.00 0.00 44.64 2.15
2592 6047 4.522405 TGATCCGTTTTCACCATTGACATT 59.478 37.500 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 4.178540 CGCTTTGAGCATCCATGATTTTT 58.821 39.130 0.00 0.00 42.58 1.94
27 28 3.777478 CGCTTTGAGCATCCATGATTTT 58.223 40.909 0.00 0.00 42.58 1.82
28 29 2.480759 GCGCTTTGAGCATCCATGATTT 60.481 45.455 0.00 0.00 42.58 2.17
29 30 1.066605 GCGCTTTGAGCATCCATGATT 59.933 47.619 0.00 0.00 42.58 2.57
30 31 0.666913 GCGCTTTGAGCATCCATGAT 59.333 50.000 0.00 0.00 42.58 2.45
32 33 1.804598 TGCGCTTTGAGCATCCATG 59.195 52.632 9.73 0.00 42.58 3.66
33 34 4.324471 TGCGCTTTGAGCATCCAT 57.676 50.000 9.73 0.00 42.58 3.41
40 41 3.745332 TGTTGACATATGCGCTTTGAG 57.255 42.857 9.73 0.00 0.00 3.02
42 43 2.916716 GGTTGTTGACATATGCGCTTTG 59.083 45.455 9.73 6.09 0.00 2.77
43 44 2.556189 TGGTTGTTGACATATGCGCTTT 59.444 40.909 9.73 0.00 0.00 3.51
44 45 2.095263 GTGGTTGTTGACATATGCGCTT 60.095 45.455 9.73 4.59 0.00 4.68
45 46 1.468520 GTGGTTGTTGACATATGCGCT 59.531 47.619 9.73 0.00 0.00 5.92
46 47 1.468520 AGTGGTTGTTGACATATGCGC 59.531 47.619 0.00 0.00 0.00 6.09
47 48 4.937696 TTAGTGGTTGTTGACATATGCG 57.062 40.909 1.58 0.00 0.00 4.73
68 69 5.070001 TGTCGAATCTTGACCTGGATTTTT 58.930 37.500 0.00 0.00 35.46 1.94
70 71 4.286297 TGTCGAATCTTGACCTGGATTT 57.714 40.909 0.00 0.00 35.46 2.17
72 73 4.405680 TGTATGTCGAATCTTGACCTGGAT 59.594 41.667 0.00 0.00 35.46 3.41
73 74 3.767131 TGTATGTCGAATCTTGACCTGGA 59.233 43.478 0.00 0.00 35.46 3.86
74 75 3.865745 GTGTATGTCGAATCTTGACCTGG 59.134 47.826 0.00 0.00 35.46 4.45
75 76 4.494484 TGTGTATGTCGAATCTTGACCTG 58.506 43.478 0.00 0.00 35.46 4.00
76 77 4.801330 TGTGTATGTCGAATCTTGACCT 57.199 40.909 0.00 0.00 35.46 3.85
78 79 6.586463 TCTCTTTGTGTATGTCGAATCTTGAC 59.414 38.462 0.00 0.00 36.88 3.18
80 81 6.951256 TCTCTTTGTGTATGTCGAATCTTG 57.049 37.500 0.00 0.00 0.00 3.02
82 83 9.653287 TTATTTCTCTTTGTGTATGTCGAATCT 57.347 29.630 0.00 0.00 0.00 2.40
111 112 8.526147 CACTATTCCCATCTGAATTTGTCTTTT 58.474 33.333 0.00 0.00 36.41 2.27
112 113 7.671398 ACACTATTCCCATCTGAATTTGTCTTT 59.329 33.333 0.00 0.00 36.41 2.52
113 114 7.177878 ACACTATTCCCATCTGAATTTGTCTT 58.822 34.615 0.00 0.00 36.41 3.01
114 115 6.725364 ACACTATTCCCATCTGAATTTGTCT 58.275 36.000 0.00 0.00 36.41 3.41
116 117 8.877864 TTAACACTATTCCCATCTGAATTTGT 57.122 30.769 0.00 0.00 36.41 2.83
122 123 9.627123 CCTTAATTTAACACTATTCCCATCTGA 57.373 33.333 0.00 0.00 0.00 3.27
125 126 9.628500 AGTCCTTAATTTAACACTATTCCCATC 57.372 33.333 0.00 0.00 0.00 3.51
126 127 9.408648 CAGTCCTTAATTTAACACTATTCCCAT 57.591 33.333 0.00 0.00 0.00 4.00
128 129 7.832685 ACCAGTCCTTAATTTAACACTATTCCC 59.167 37.037 0.00 0.00 0.00 3.97
129 130 8.803397 ACCAGTCCTTAATTTAACACTATTCC 57.197 34.615 0.00 0.00 0.00 3.01
134 135 7.827729 GGTGATACCAGTCCTTAATTTAACACT 59.172 37.037 0.00 0.00 38.42 3.55
135 136 7.827729 AGGTGATACCAGTCCTTAATTTAACAC 59.172 37.037 0.28 0.00 41.95 3.32
136 137 7.827236 CAGGTGATACCAGTCCTTAATTTAACA 59.173 37.037 0.28 0.00 41.95 2.41
137 138 8.044908 TCAGGTGATACCAGTCCTTAATTTAAC 58.955 37.037 0.28 0.00 41.95 2.01
138 139 8.153221 TCAGGTGATACCAGTCCTTAATTTAA 57.847 34.615 0.28 0.00 41.95 1.52
140 141 6.636454 TCAGGTGATACCAGTCCTTAATTT 57.364 37.500 0.28 0.00 41.95 1.82
141 142 6.831664 ATCAGGTGATACCAGTCCTTAATT 57.168 37.500 0.28 0.00 41.95 1.40
142 143 7.304497 GTATCAGGTGATACCAGTCCTTAAT 57.696 40.000 16.32 0.00 46.87 1.40
155 156 3.587061 TGTGTGGGAAAGTATCAGGTGAT 59.413 43.478 0.00 0.00 38.51 3.06
158 159 4.142038 GTTTGTGTGGGAAAGTATCAGGT 58.858 43.478 0.00 0.00 0.00 4.00
159 160 4.023193 GTGTTTGTGTGGGAAAGTATCAGG 60.023 45.833 0.00 0.00 0.00 3.86
160 161 4.319477 CGTGTTTGTGTGGGAAAGTATCAG 60.319 45.833 0.00 0.00 0.00 2.90
162 163 3.562557 ACGTGTTTGTGTGGGAAAGTATC 59.437 43.478 0.00 0.00 0.00 2.24
163 164 3.547746 ACGTGTTTGTGTGGGAAAGTAT 58.452 40.909 0.00 0.00 0.00 2.12
165 166 1.741145 GACGTGTTTGTGTGGGAAAGT 59.259 47.619 0.00 0.00 0.00 2.66
166 167 1.267832 CGACGTGTTTGTGTGGGAAAG 60.268 52.381 0.00 0.00 0.00 2.62
168 169 0.108281 TCGACGTGTTTGTGTGGGAA 60.108 50.000 0.00 0.00 0.00 3.97
169 170 0.806884 GTCGACGTGTTTGTGTGGGA 60.807 55.000 0.00 0.00 0.00 4.37
170 171 1.639534 GTCGACGTGTTTGTGTGGG 59.360 57.895 0.00 0.00 0.00 4.61
172 173 1.639534 GGGTCGACGTGTTTGTGTG 59.360 57.895 9.92 0.00 0.00 3.82
173 174 1.522130 GGGGTCGACGTGTTTGTGT 60.522 57.895 9.92 0.00 0.00 3.72
174 175 2.248835 GGGGGTCGACGTGTTTGTG 61.249 63.158 9.92 0.00 0.00 3.33
175 176 2.047213 ATGGGGGTCGACGTGTTTGT 62.047 55.000 9.92 0.00 0.00 2.83
176 177 1.302192 ATGGGGGTCGACGTGTTTG 60.302 57.895 9.92 0.00 0.00 2.93
177 178 1.302192 CATGGGGGTCGACGTGTTT 60.302 57.895 9.92 0.00 0.00 2.83
178 179 2.345991 CATGGGGGTCGACGTGTT 59.654 61.111 9.92 0.00 0.00 3.32
179 180 3.702048 CCATGGGGGTCGACGTGT 61.702 66.667 9.92 0.00 0.00 4.49
186 187 2.679996 GTTGTGGCCATGGGGGTC 60.680 66.667 9.72 0.00 43.63 4.46
187 188 2.325101 AAAGTTGTGGCCATGGGGGT 62.325 55.000 9.72 0.00 39.65 4.95
188 189 1.536174 AAAGTTGTGGCCATGGGGG 60.536 57.895 9.72 0.00 40.85 5.40
190 191 1.543944 GGGAAAGTTGTGGCCATGGG 61.544 60.000 9.72 0.00 0.00 4.00
191 192 0.542702 AGGGAAAGTTGTGGCCATGG 60.543 55.000 9.72 7.63 0.00 3.66
192 193 0.890683 GAGGGAAAGTTGTGGCCATG 59.109 55.000 9.72 0.00 0.00 3.66
193 194 0.251787 GGAGGGAAAGTTGTGGCCAT 60.252 55.000 9.72 0.00 0.00 4.40
195 196 1.606601 GGGAGGGAAAGTTGTGGCC 60.607 63.158 0.00 0.00 0.00 5.36
196 197 1.606601 GGGGAGGGAAAGTTGTGGC 60.607 63.158 0.00 0.00 0.00 5.01
198 199 1.971695 GCGGGGAGGGAAAGTTGTG 60.972 63.158 0.00 0.00 0.00 3.33
199 200 2.434774 GCGGGGAGGGAAAGTTGT 59.565 61.111 0.00 0.00 0.00 3.32
253 254 2.045242 GTCCGCCTCCCCCTTTTC 60.045 66.667 0.00 0.00 0.00 2.29
289 290 4.742201 TCTTCCGCCGTGCTCTGC 62.742 66.667 0.00 0.00 0.00 4.26
303 304 2.030562 CTTGCCACCGTCGGTCTT 59.969 61.111 15.67 0.00 31.02 3.01
304 305 4.003788 CCTTGCCACCGTCGGTCT 62.004 66.667 15.67 0.00 31.02 3.85
308 309 4.003788 AGACCCTTGCCACCGTCG 62.004 66.667 0.00 0.00 0.00 5.12
309 310 2.358737 CAGACCCTTGCCACCGTC 60.359 66.667 0.00 0.00 0.00 4.79
311 312 3.850098 AAGCAGACCCTTGCCACCG 62.850 63.158 0.00 0.00 45.18 4.94
312 313 1.973812 GAAGCAGACCCTTGCCACC 60.974 63.158 0.00 0.00 45.18 4.61
313 314 1.973812 GGAAGCAGACCCTTGCCAC 60.974 63.158 0.00 0.00 45.18 5.01
314 315 1.719063 AAGGAAGCAGACCCTTGCCA 61.719 55.000 0.00 0.00 45.18 4.92
316 317 0.037447 AGAAGGAAGCAGACCCTTGC 59.963 55.000 0.00 0.00 42.43 4.01
318 319 2.037385 AGAGAAGGAAGCAGACCCTT 57.963 50.000 0.00 0.00 44.85 3.95
319 320 1.905894 GAAGAGAAGGAAGCAGACCCT 59.094 52.381 0.00 0.00 0.00 4.34
320 321 1.404851 CGAAGAGAAGGAAGCAGACCC 60.405 57.143 0.00 0.00 0.00 4.46
321 322 1.546476 TCGAAGAGAAGGAAGCAGACC 59.454 52.381 0.00 0.00 0.00 3.85
442 443 9.411801 TGCTAATCGATCATCTAGTTTAATGTC 57.588 33.333 0.00 0.00 0.00 3.06
490 491 6.463995 TTATCACCTGCACAAAGAAAACTT 57.536 33.333 0.00 0.00 0.00 2.66
598 602 1.545841 ATCGAAGTTGCTTTTCCCCC 58.454 50.000 0.00 0.00 0.00 5.40
599 603 3.317150 CAAATCGAAGTTGCTTTTCCCC 58.683 45.455 0.00 0.00 0.00 4.81
600 604 2.731451 GCAAATCGAAGTTGCTTTTCCC 59.269 45.455 22.98 0.76 46.31 3.97
755 3374 0.951558 GTGCCACGTGATTTTCCTGT 59.048 50.000 19.30 0.00 0.00 4.00
853 3472 1.895131 ACCATGCATCCAAACAACTCC 59.105 47.619 0.00 0.00 0.00 3.85
886 3509 5.784177 AGGCTGTTTATATCATCGTCGATT 58.216 37.500 4.63 0.00 0.00 3.34
890 3513 4.083802 GCCAAGGCTGTTTATATCATCGTC 60.084 45.833 3.29 0.00 38.26 4.20
1224 3876 1.050988 AGGAGGTGACCATCCCGATG 61.051 60.000 3.63 0.00 36.14 3.84
1253 3905 0.253044 GAAGCAGGTGTAGATGGGCA 59.747 55.000 0.00 0.00 0.00 5.36
1420 4072 1.719425 CGATCACTCGCGAGCGTAG 60.719 63.158 34.83 21.66 39.83 3.51
1430 4082 0.848942 CGCACTGCATACGATCACTC 59.151 55.000 1.11 0.00 0.00 3.51
1431 4083 0.455815 TCGCACTGCATACGATCACT 59.544 50.000 1.11 0.00 0.00 3.41
1432 4084 0.572590 GTCGCACTGCATACGATCAC 59.427 55.000 8.77 0.00 38.22 3.06
1433 4085 0.865639 CGTCGCACTGCATACGATCA 60.866 55.000 16.98 0.00 39.03 2.92
1434 4086 0.591488 TCGTCGCACTGCATACGATC 60.591 55.000 19.40 3.52 40.07 3.69
1435 4087 0.030773 ATCGTCGCACTGCATACGAT 59.969 50.000 24.97 24.97 45.32 3.73
1436 4088 0.591488 GATCGTCGCACTGCATACGA 60.591 55.000 23.32 23.32 45.49 3.43
1437 4089 1.840061 GATCGTCGCACTGCATACG 59.160 57.895 16.16 16.16 38.39 3.06
1438 4090 0.591488 TCGATCGTCGCACTGCATAC 60.591 55.000 15.94 0.00 40.21 2.39
1439 4091 0.310854 ATCGATCGTCGCACTGCATA 59.689 50.000 15.94 0.00 40.21 3.14
1440 4092 0.310854 TATCGATCGTCGCACTGCAT 59.689 50.000 15.94 0.01 40.21 3.96
1441 4093 0.310854 ATATCGATCGTCGCACTGCA 59.689 50.000 15.94 0.00 40.21 4.41
1442 4094 0.705094 CATATCGATCGTCGCACTGC 59.295 55.000 15.94 0.00 40.21 4.40
1443 4095 0.705094 GCATATCGATCGTCGCACTG 59.295 55.000 15.94 6.73 40.21 3.66
1444 4096 0.310854 TGCATATCGATCGTCGCACT 59.689 50.000 15.94 0.00 40.21 4.40
1445 4097 1.058270 CATGCATATCGATCGTCGCAC 59.942 52.381 15.94 4.24 40.21 5.34
1446 4098 1.335872 ACATGCATATCGATCGTCGCA 60.336 47.619 15.94 18.25 40.21 5.10
1447 4099 1.058270 CACATGCATATCGATCGTCGC 59.942 52.381 15.94 13.42 40.21 5.19
1448 4100 2.089581 CACACATGCATATCGATCGTCG 59.910 50.000 15.94 3.38 42.10 5.12
1449 4101 2.409715 CCACACATGCATATCGATCGTC 59.590 50.000 15.94 1.49 0.00 4.20
1450 4102 2.224042 ACCACACATGCATATCGATCGT 60.224 45.455 15.94 5.23 0.00 3.73
1451 4103 2.407090 ACCACACATGCATATCGATCG 58.593 47.619 9.36 9.36 0.00 3.69
1452 4104 3.120889 CGAACCACACATGCATATCGATC 60.121 47.826 0.00 0.00 0.00 3.69
1453 4105 2.802247 CGAACCACACATGCATATCGAT 59.198 45.455 2.16 2.16 0.00 3.59
1454 4106 2.200899 CGAACCACACATGCATATCGA 58.799 47.619 0.00 0.00 0.00 3.59
1455 4107 1.933181 ACGAACCACACATGCATATCG 59.067 47.619 0.00 4.09 35.36 2.92
1456 4108 5.466728 AGATAACGAACCACACATGCATATC 59.533 40.000 0.00 0.00 0.00 1.63
1457 4109 5.368145 AGATAACGAACCACACATGCATAT 58.632 37.500 0.00 0.00 0.00 1.78
1458 4110 4.765273 AGATAACGAACCACACATGCATA 58.235 39.130 0.00 0.00 0.00 3.14
1459 4111 3.609853 AGATAACGAACCACACATGCAT 58.390 40.909 0.00 0.00 0.00 3.96
1460 4112 3.052455 AGATAACGAACCACACATGCA 57.948 42.857 0.00 0.00 0.00 3.96
1461 4113 4.570772 ACATAGATAACGAACCACACATGC 59.429 41.667 0.00 0.00 0.00 4.06
1462 4114 6.312672 TCAACATAGATAACGAACCACACATG 59.687 38.462 0.00 0.00 0.00 3.21
1463 4115 6.403049 TCAACATAGATAACGAACCACACAT 58.597 36.000 0.00 0.00 0.00 3.21
1464 4116 5.785243 TCAACATAGATAACGAACCACACA 58.215 37.500 0.00 0.00 0.00 3.72
1465 4117 6.903883 ATCAACATAGATAACGAACCACAC 57.096 37.500 0.00 0.00 0.00 3.82
1466 4118 7.100409 TCAATCAACATAGATAACGAACCACA 58.900 34.615 0.00 0.00 0.00 4.17
1467 4119 7.534085 TCAATCAACATAGATAACGAACCAC 57.466 36.000 0.00 0.00 0.00 4.16
1468 4120 7.822334 AGTTCAATCAACATAGATAACGAACCA 59.178 33.333 0.00 0.00 37.48 3.67
1469 4121 8.116753 CAGTTCAATCAACATAGATAACGAACC 58.883 37.037 0.00 0.00 37.48 3.62
1483 4135 1.234821 TCCACCGCAGTTCAATCAAC 58.765 50.000 0.00 0.00 34.86 3.18
1484 4136 1.811965 CATCCACCGCAGTTCAATCAA 59.188 47.619 0.00 0.00 0.00 2.57
1486 4138 0.099436 GCATCCACCGCAGTTCAATC 59.901 55.000 0.00 0.00 0.00 2.67
1487 4139 0.608856 TGCATCCACCGCAGTTCAAT 60.609 50.000 0.00 0.00 33.55 2.57
1511 4200 4.657408 TTGGCGTGCCATCCTGCA 62.657 61.111 15.40 0.00 46.64 4.41
1512 4201 4.120331 GTTGGCGTGCCATCCTGC 62.120 66.667 15.40 0.00 46.64 4.85
1513 4202 2.048023 ATGTTGGCGTGCCATCCTG 61.048 57.895 15.40 0.00 46.64 3.86
1514 4203 2.048023 CATGTTGGCGTGCCATCCT 61.048 57.895 15.40 4.14 46.64 3.24
1572 4264 1.327690 ATCCCGTCTACGTGCATGGT 61.328 55.000 11.36 4.68 37.74 3.55
1655 4347 9.360093 GTTCGAGATGGAAGGTATATAGATTTG 57.640 37.037 0.00 0.00 0.00 2.32
1680 4373 0.398522 TACCCCTCTCGCATCATGGT 60.399 55.000 0.00 0.00 0.00 3.55
1725 4423 1.127567 CACACCCCCTCACCAGAGAA 61.128 60.000 0.00 0.00 44.98 2.87
1811 4509 2.531206 AGAAGATAGAAACAGCGCGTC 58.469 47.619 8.43 0.00 0.00 5.19
1812 4510 2.531206 GAGAAGATAGAAACAGCGCGT 58.469 47.619 8.43 0.00 0.00 6.01
1905 4604 2.358322 ACAACACAAACCCACCCTAG 57.642 50.000 0.00 0.00 0.00 3.02
1956 4656 4.967575 ACATTAGACAACGAAAAAGCAACG 59.032 37.500 0.00 0.00 0.00 4.10
1958 4658 4.737765 GCACATTAGACAACGAAAAAGCAA 59.262 37.500 0.00 0.00 0.00 3.91
1959 4659 4.036262 AGCACATTAGACAACGAAAAAGCA 59.964 37.500 0.00 0.00 0.00 3.91
1960 4660 4.537015 AGCACATTAGACAACGAAAAAGC 58.463 39.130 0.00 0.00 0.00 3.51
1972 4677 3.951037 ACAACCAACACAAGCACATTAGA 59.049 39.130 0.00 0.00 0.00 2.10
1999 4735 0.988832 AAAGCCATCAACCCCGTCTA 59.011 50.000 0.00 0.00 0.00 2.59
2019 4755 4.019771 GGATGGGCCCAACTTTGAATTAAA 60.020 41.667 32.58 0.00 0.00 1.52
2037 4773 2.338577 AAGAAATGAGGCTCGGATGG 57.661 50.000 10.42 0.00 0.00 3.51
2039 4775 5.359194 TTTCTAAGAAATGAGGCTCGGAT 57.641 39.130 10.42 0.00 0.00 4.18
2133 4879 2.292569 GCATGGGAGTATCAATGTGCAG 59.707 50.000 0.00 0.00 36.25 4.41
2136 4882 2.564771 ACGCATGGGAGTATCAATGTG 58.435 47.619 17.76 0.00 43.01 3.21
2249 4995 9.784680 CATATAGTTCCGTACTATGTGTATTCC 57.215 37.037 16.67 0.00 46.95 3.01
2266 5012 8.964476 TTGAGATTCTTTGGGACATATAGTTC 57.036 34.615 0.00 0.00 39.30 3.01
2362 5108 5.591099 TGAAGTTCTGGATTTGTTCAAAGC 58.409 37.500 4.17 5.16 0.00 3.51
2398 5144 9.289782 ACGTTCGTTAATAATATACTACCTCCT 57.710 33.333 0.00 0.00 0.00 3.69
2532 5987 8.780249 GTGCTGTTAGAGAGGTAAAACATTTTA 58.220 33.333 0.00 0.00 31.88 1.52
2566 6021 4.396166 GTCAATGGTGAAAACGGATCATCT 59.604 41.667 0.00 0.00 34.87 2.90


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

AutoCloner maintained by Alex Coulton.