Multiple sequence alignment - TraesCS7D01G322700

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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 TraesCS7D01G322700 chr7D 100.000 2737 0 0 1 2737 412760376 412763112 0.000000e+00 5055.0
1 TraesCS7D01G322700 chr7D 100.000 664 0 0 3004 3667 412763379 412764042 0.000000e+00 1227.0
2 TraesCS7D01G322700 chr7D 93.023 172 11 1 3390 3560 184490826 184490997 2.190000e-62 250.0
3 TraesCS7D01G322700 chr7D 93.865 163 10 0 3398 3560 171004905 171005067 2.830000e-61 246.0
4 TraesCS7D01G322700 chr7D 94.340 159 7 2 3402 3560 40774485 40774641 3.660000e-60 243.0
5 TraesCS7D01G322700 chr7A 91.870 2792 102 63 1 2737 473920173 473922894 0.000000e+00 3783.0
6 TraesCS7D01G322700 chr7A 88.000 325 33 5 3077 3397 473923391 473923713 2.670000e-101 379.0
7 TraesCS7D01G322700 chr7A 85.455 110 6 3 3561 3667 473923701 473923803 5.010000e-19 106.0
8 TraesCS7D01G322700 chr7A 89.091 55 5 1 3017 3071 575102128 575102075 2.360000e-07 67.6
9 TraesCS7D01G322700 chr7B 92.150 2637 98 52 1 2607 426971799 426974356 0.000000e+00 3622.0
10 TraesCS7D01G322700 chr7B 87.945 365 42 2 3004 3367 426975413 426975776 2.620000e-116 429.0
11 TraesCS7D01G322700 chr7B 93.023 172 11 1 3390 3560 153569941 153570112 2.190000e-62 250.0
12 TraesCS7D01G322700 chr7B 96.296 135 5 0 2603 2737 426974823 426974957 4.770000e-54 222.0
13 TraesCS7D01G322700 chr7B 90.816 98 9 0 3300 3397 426975751 426975848 8.260000e-27 132.0
14 TraesCS7D01G322700 chr7B 85.135 74 8 3 3006 3077 41361250 41361178 5.080000e-09 73.1
15 TraesCS7D01G322700 chr7B 92.683 41 3 0 3289 3329 531893239 531893199 3.950000e-05 60.2
16 TraesCS7D01G322700 chr2A 86.923 260 25 8 1510 1769 765547466 765547216 2.160000e-72 283.0
17 TraesCS7D01G322700 chr2A 84.561 285 34 5 1476 1759 765393253 765392978 1.300000e-69 274.0
18 TraesCS7D01G322700 chr2A 86.328 256 26 6 1504 1759 765374120 765374366 1.680000e-68 270.0
19 TraesCS7D01G322700 chr2A 83.721 258 33 7 1502 1759 765515993 765515745 6.120000e-58 235.0
20 TraesCS7D01G322700 chr2A 90.000 140 14 0 1213 1352 765442210 765442071 8.090000e-42 182.0
21 TraesCS7D01G322700 chr2B 86.328 256 26 8 1504 1759 798958087 798958333 1.680000e-68 270.0
22 TraesCS7D01G322700 chr2B 85.130 269 31 7 1502 1770 799029603 799029862 2.170000e-67 267.0
23 TraesCS7D01G322700 chr2B 83.721 258 33 7 1502 1759 799107219 799106971 6.120000e-58 235.0
24 TraesCS7D01G322700 chr2B 92.308 143 11 0 1210 1352 799107558 799107416 1.730000e-48 204.0
25 TraesCS7D01G322700 chr2B 89.726 146 15 0 1207 1352 799029267 799029412 1.740000e-43 187.0
26 TraesCS7D01G322700 chr2B 88.732 142 16 0 1210 1351 799047569 799047428 1.350000e-39 174.0
27 TraesCS7D01G322700 chr2B 97.143 35 1 0 3295 3329 178320811 178320777 3.950000e-05 60.2
28 TraesCS7D01G322700 chr2D 84.211 285 35 7 1476 1759 639746400 639746125 6.040000e-68 268.0
29 TraesCS7D01G322700 chr2D 82.667 300 40 7 1476 1773 639821493 639821204 4.700000e-64 255.0
30 TraesCS7D01G322700 chr2D 84.387 269 33 6 1502 1770 639890714 639890455 4.700000e-64 255.0
31 TraesCS7D01G322700 chr2D 89.865 148 13 2 1207 1352 639821818 639821671 4.830000e-44 189.0
32 TraesCS7D01G322700 chr2D 90.210 143 14 0 1210 1352 639746742 639746600 1.740000e-43 187.0
33 TraesCS7D01G322700 chr1D 94.578 166 8 1 3395 3560 470504506 470504342 4.700000e-64 255.0
34 TraesCS7D01G322700 chr5D 94.479 163 9 0 3398 3560 343298542 343298380 6.080000e-63 252.0
35 TraesCS7D01G322700 chr6A 93.452 168 10 1 3394 3560 66790952 66790785 7.860000e-62 248.0
36 TraesCS7D01G322700 chr6A 89.394 66 7 0 3006 3071 609375644 609375709 2.350000e-12 84.2
37 TraesCS7D01G322700 chr4A 94.340 159 9 0 3402 3560 736316780 736316622 1.020000e-60 244.0
38 TraesCS7D01G322700 chr3B 93.293 164 9 2 3398 3560 737445893 737445731 1.320000e-59 241.0
39 TraesCS7D01G322700 chr4D 89.091 55 6 0 1208 1262 69680128 69680074 6.570000e-08 69.4
40 TraesCS7D01G322700 chr4B 97.143 35 1 0 3295 3329 453767765 453767799 3.950000e-05 60.2
41 TraesCS7D01G322700 chr3D 100.000 30 0 0 3300 3329 437829154 437829183 5.120000e-04 56.5
42 TraesCS7D01G322700 chr1B 100.000 30 0 0 3300 3329 250426874 250426903 5.120000e-04 56.5
43 TraesCS7D01G322700 chr1A 100.000 30 0 0 3300 3329 171453429 171453400 5.120000e-04 56.5


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 TraesCS7D01G322700 chr7D 412760376 412764042 3666 False 3141.000000 5055 100.000000 1 3667 2 chr7D.!!$F4 3666
1 TraesCS7D01G322700 chr7A 473920173 473923803 3630 False 1422.666667 3783 88.441667 1 3667 3 chr7A.!!$F1 3666
2 TraesCS7D01G322700 chr7B 426971799 426975848 4049 False 1101.250000 3622 91.801750 1 3397 4 chr7B.!!$F2 3396
3 TraesCS7D01G322700 chr2B 799029267 799029862 595 False 227.000000 267 87.428000 1207 1770 2 chr2B.!!$F2 563
4 TraesCS7D01G322700 chr2B 799106971 799107558 587 True 219.500000 235 88.014500 1210 1759 2 chr2B.!!$R3 549
5 TraesCS7D01G322700 chr2D 639746125 639746742 617 True 227.500000 268 87.210500 1210 1759 2 chr2D.!!$R2 549
6 TraesCS7D01G322700 chr2D 639821204 639821818 614 True 222.000000 255 86.266000 1207 1773 2 chr2D.!!$R3 566

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
335 344 0.538584 TCAACGAGCATCATCCAGCT 59.461 50.000 0.00 0.00 45.25 4.24 F
1797 1937 1.764723 TGCATGCATGGACTAGCTAGT 59.235 47.619 26.35 26.35 39.71 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1801 1941 0.176680 GATCGGCAAGGCAGAGAAGA 59.823 55.0 0.0 0.0 36.09 2.87 R
3462 4696 0.040781 GTGTTGGCGTGCGTTTGTAT 60.041 50.0 0.0 0.0 0.00 2.29 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
42 44 2.158755 ACTCTCAACTGGGAAACTGTGG 60.159 50.000 0.00 0.00 0.00 4.17
129 131 5.793817 CTTCTCTCTCTCCATCGATCTCTA 58.206 45.833 0.00 0.00 0.00 2.43
203 212 2.357034 CCACGCGTGCCTGTAACT 60.357 61.111 33.17 0.00 0.00 2.24
235 244 6.128172 CCTCATGTTTACATCAGGTTCAAGTC 60.128 42.308 4.76 0.00 39.45 3.01
236 245 6.533730 TCATGTTTACATCAGGTTCAAGTCT 58.466 36.000 0.00 0.00 33.61 3.24
238 247 6.618287 TGTTTACATCAGGTTCAAGTCTTG 57.382 37.500 6.21 6.21 0.00 3.02
239 248 6.353323 TGTTTACATCAGGTTCAAGTCTTGA 58.647 36.000 11.36 11.36 38.04 3.02
247 256 1.662517 TTCAAGTCTTGAACGCAGCA 58.337 45.000 21.59 0.67 44.21 4.41
266 275 6.615264 CAGCATGCACTTATCATCTTTAGT 57.385 37.500 21.98 0.00 0.00 2.24
267 276 6.427974 CAGCATGCACTTATCATCTTTAGTG 58.572 40.000 21.98 0.00 40.65 2.74
268 277 6.037940 CAGCATGCACTTATCATCTTTAGTGT 59.962 38.462 21.98 0.00 40.02 3.55
269 278 7.225341 CAGCATGCACTTATCATCTTTAGTGTA 59.775 37.037 21.98 0.00 40.02 2.90
271 280 9.208022 GCATGCACTTATCATCTTTAGTGTATA 57.792 33.333 14.21 0.00 40.42 1.47
313 322 1.062121 TCCTCTAGCAACCAGGCCTAT 60.062 52.381 3.98 0.00 0.00 2.57
324 333 1.506493 CAGGCCTATCATCAACGAGC 58.494 55.000 3.98 0.00 0.00 5.03
331 340 3.931468 CCTATCATCAACGAGCATCATCC 59.069 47.826 0.00 0.00 33.17 3.51
333 342 2.830104 TCATCAACGAGCATCATCCAG 58.170 47.619 0.00 0.00 33.17 3.86
334 343 1.263484 CATCAACGAGCATCATCCAGC 59.737 52.381 0.00 0.00 33.17 4.85
335 344 0.538584 TCAACGAGCATCATCCAGCT 59.461 50.000 0.00 0.00 45.25 4.24
345 354 6.786967 AGCATCATCCAGCTCTTTAATTTT 57.213 33.333 0.00 0.00 36.00 1.82
347 356 5.751990 GCATCATCCAGCTCTTTAATTTTGG 59.248 40.000 0.00 0.00 0.00 3.28
348 357 6.628844 GCATCATCCAGCTCTTTAATTTTGGT 60.629 38.462 0.00 0.00 0.00 3.67
353 362 5.473504 TCCAGCTCTTTAATTTTGGTGAGTC 59.526 40.000 0.00 0.00 0.00 3.36
354 363 5.335976 CCAGCTCTTTAATTTTGGTGAGTCC 60.336 44.000 0.00 0.00 0.00 3.85
356 365 6.012745 AGCTCTTTAATTTTGGTGAGTCCAT 58.987 36.000 0.00 0.00 46.60 3.41
357 366 6.494835 AGCTCTTTAATTTTGGTGAGTCCATT 59.505 34.615 0.00 0.00 46.60 3.16
358 367 7.669722 AGCTCTTTAATTTTGGTGAGTCCATTA 59.330 33.333 0.00 0.00 46.60 1.90
359 368 8.303876 GCTCTTTAATTTTGGTGAGTCCATTAA 58.696 33.333 0.00 0.00 46.60 1.40
399 413 5.496556 TCCCAGGTACAAATATGTCTTGTG 58.503 41.667 0.00 0.00 41.05 3.33
411 425 9.689075 CAAATATGTCTTGTGTTGTTATAGTCG 57.311 33.333 0.00 0.00 0.00 4.18
413 427 6.946229 ATGTCTTGTGTTGTTATAGTCGTC 57.054 37.500 0.00 0.00 0.00 4.20
414 428 6.080648 TGTCTTGTGTTGTTATAGTCGTCT 57.919 37.500 0.00 0.00 0.00 4.18
415 429 5.918576 TGTCTTGTGTTGTTATAGTCGTCTG 59.081 40.000 0.00 0.00 0.00 3.51
418 432 5.632244 TGTGTTGTTATAGTCGTCTGCTA 57.368 39.130 0.00 0.00 0.00 3.49
419 433 6.203808 TGTGTTGTTATAGTCGTCTGCTAT 57.796 37.500 0.00 0.00 34.05 2.97
420 434 7.324354 TGTGTTGTTATAGTCGTCTGCTATA 57.676 36.000 0.00 0.00 32.15 1.31
421 435 7.937649 TGTGTTGTTATAGTCGTCTGCTATAT 58.062 34.615 0.00 0.00 33.14 0.86
422 436 9.059260 TGTGTTGTTATAGTCGTCTGCTATATA 57.941 33.333 0.00 0.00 33.14 0.86
428 442 9.800299 GTTATAGTCGTCTGCTATATATGATCG 57.200 37.037 0.00 0.00 33.14 3.69
553 569 7.227873 TGGTACATGTATTATGTTATGTGGGG 58.772 38.462 9.18 0.00 35.55 4.96
850 875 9.135189 TGAAACCGAAATAGTAGCTATTAGGTA 57.865 33.333 19.49 0.00 41.79 3.08
1374 1443 2.012414 TTCGTTCGCCACTTCGTCG 61.012 57.895 0.00 0.00 0.00 5.12
1781 1921 2.673258 TGCAAATCTCCATCCATGCAT 58.327 42.857 0.00 0.00 38.73 3.96
1782 1922 2.364002 TGCAAATCTCCATCCATGCATG 59.636 45.455 20.19 20.19 38.73 4.06
1783 1923 2.866460 GCAAATCTCCATCCATGCATGC 60.866 50.000 21.69 11.82 34.10 4.06
1784 1924 2.364002 CAAATCTCCATCCATGCATGCA 59.636 45.455 25.04 25.04 0.00 3.96
1785 1925 2.604912 ATCTCCATCCATGCATGCAT 57.395 45.000 27.46 27.46 37.08 3.96
1796 1936 2.538512 TGCATGCATGGACTAGCTAG 57.461 50.000 27.34 19.44 0.00 3.42
1797 1937 1.764723 TGCATGCATGGACTAGCTAGT 59.235 47.619 26.35 26.35 39.71 2.57
1810 1950 4.451900 ACTAGCTAGTCTCTCTTCTCTGC 58.548 47.826 20.95 0.00 0.00 4.26
1811 1951 2.654863 AGCTAGTCTCTCTTCTCTGCC 58.345 52.381 0.00 0.00 0.00 4.85
1812 1952 2.242196 AGCTAGTCTCTCTTCTCTGCCT 59.758 50.000 0.00 0.00 0.00 4.75
1813 1953 3.023832 GCTAGTCTCTCTTCTCTGCCTT 58.976 50.000 0.00 0.00 0.00 4.35
1814 1954 3.181487 GCTAGTCTCTCTTCTCTGCCTTG 60.181 52.174 0.00 0.00 0.00 3.61
1815 1955 1.550072 AGTCTCTCTTCTCTGCCTTGC 59.450 52.381 0.00 0.00 0.00 4.01
1816 1956 0.901124 TCTCTCTTCTCTGCCTTGCC 59.099 55.000 0.00 0.00 0.00 4.52
1817 1957 0.459934 CTCTCTTCTCTGCCTTGCCG 60.460 60.000 0.00 0.00 0.00 5.69
1818 1958 0.900182 TCTCTTCTCTGCCTTGCCGA 60.900 55.000 0.00 0.00 0.00 5.54
1819 1959 0.177604 CTCTTCTCTGCCTTGCCGAT 59.822 55.000 0.00 0.00 0.00 4.18
1820 1960 0.176680 TCTTCTCTGCCTTGCCGATC 59.823 55.000 0.00 0.00 0.00 3.69
1821 1961 0.177604 CTTCTCTGCCTTGCCGATCT 59.822 55.000 0.00 0.00 0.00 2.75
1822 1962 1.410517 CTTCTCTGCCTTGCCGATCTA 59.589 52.381 0.00 0.00 0.00 1.98
1823 1963 1.485124 TCTCTGCCTTGCCGATCTAA 58.515 50.000 0.00 0.00 0.00 2.10
1824 1964 2.042464 TCTCTGCCTTGCCGATCTAAT 58.958 47.619 0.00 0.00 0.00 1.73
1825 1965 2.435805 TCTCTGCCTTGCCGATCTAATT 59.564 45.455 0.00 0.00 0.00 1.40
1826 1966 2.805099 CTCTGCCTTGCCGATCTAATTC 59.195 50.000 0.00 0.00 0.00 2.17
1827 1967 2.170397 TCTGCCTTGCCGATCTAATTCA 59.830 45.455 0.00 0.00 0.00 2.57
1839 1979 5.678483 CCGATCTAATTCAGCAACGAATTTG 59.322 40.000 12.24 10.86 41.71 2.32
1852 1992 5.220567 GCAACGAATTTGGTTGTTCAATTGT 60.221 36.000 20.69 0.00 45.01 2.71
1861 2001 6.067263 TGGTTGTTCAATTGTAGTGCTAAC 57.933 37.500 5.13 1.35 0.00 2.34
1863 2003 6.142817 GGTTGTTCAATTGTAGTGCTAACTG 58.857 40.000 5.13 0.00 37.19 3.16
1908 2048 2.160853 GGAGGAAGGGTGGGTGGTT 61.161 63.158 0.00 0.00 0.00 3.67
2040 2180 3.484547 GACAACCCTAACGCGCGG 61.485 66.667 35.22 18.29 0.00 6.46
2211 2351 2.750350 GGTGGGTGTAGCAGTGCT 59.250 61.111 23.44 23.44 43.41 4.40
2363 2503 8.246430 TCCTCCAAGAACACTTAACGATATAT 57.754 34.615 0.00 0.00 0.00 0.86
2466 2610 5.049954 TGACGACTACTTGCCATTTTTACAC 60.050 40.000 0.00 0.00 0.00 2.90
2576 2720 7.552050 AATTTCAGTAATGGGATTTGGAACA 57.448 32.000 0.00 0.00 0.00 3.18
2675 3290 6.041182 ACATCATTGTATACTTGCATTGGCAT 59.959 34.615 4.17 0.00 41.68 4.40
3025 3828 4.722526 TCTTCAACCATTCTTTCTCCCA 57.277 40.909 0.00 0.00 0.00 4.37
3032 3835 5.728637 ACCATTCTTTCTCCCACAAAATC 57.271 39.130 0.00 0.00 0.00 2.17
3123 4313 7.042051 AGCATATGTACTATAAGTTGTTTGCGG 60.042 37.037 4.29 0.00 0.00 5.69
3175 4365 1.656818 ATCCATGAACTTTGGGCGCG 61.657 55.000 0.00 0.00 34.85 6.86
3183 4373 2.357034 TTTGGGCGCGACAGTCTC 60.357 61.111 17.00 0.00 0.00 3.36
3190 4380 1.367078 CGCGACAGTCTCGAGATCG 60.367 63.158 25.30 25.30 46.14 3.69
3194 4384 1.370609 GACAGTCTCGAGATCGACCA 58.629 55.000 19.90 0.00 44.22 4.02
3205 4395 3.265791 GAGATCGACCAATGGGATATGC 58.734 50.000 3.55 0.00 38.05 3.14
3206 4396 2.026822 AGATCGACCAATGGGATATGCC 60.027 50.000 6.26 6.26 38.05 4.40
3291 4483 8.212259 ACTTATATGAATGATACTGCTCCCTT 57.788 34.615 0.00 0.00 0.00 3.95
3296 4488 4.943705 TGAATGATACTGCTCCCTTTGTTC 59.056 41.667 0.00 0.00 0.00 3.18
3297 4489 4.574674 ATGATACTGCTCCCTTTGTTCA 57.425 40.909 0.00 0.00 0.00 3.18
3298 4490 4.365514 TGATACTGCTCCCTTTGTTCAA 57.634 40.909 0.00 0.00 0.00 2.69
3306 4498 6.098266 ACTGCTCCCTTTGTTCAAAATTAACT 59.902 34.615 0.00 0.00 0.00 2.24
3326 4518 3.681897 ACTGTCGCTGAAATGAGTGAATC 59.318 43.478 0.00 0.00 34.31 2.52
3327 4519 3.930336 TGTCGCTGAAATGAGTGAATCT 58.070 40.909 0.00 0.00 34.31 2.40
3331 4523 6.595326 TGTCGCTGAAATGAGTGAATCTAAAT 59.405 34.615 0.00 0.00 34.31 1.40
3335 4527 6.909357 GCTGAAATGAGTGAATCTAAATTCCG 59.091 38.462 0.00 0.00 40.57 4.30
3338 4530 9.443323 TGAAATGAGTGAATCTAAATTCCGTTA 57.557 29.630 0.00 0.00 40.57 3.18
3415 4649 6.330004 TGTATTTACGAAAAAGGGTTTCCC 57.670 37.500 0.00 0.00 45.90 3.97
3435 4669 4.481368 CCCCCGCTGTATATATAAAGCA 57.519 45.455 27.16 8.15 42.50 3.91
3436 4670 4.189231 CCCCCGCTGTATATATAAAGCAC 58.811 47.826 27.16 5.81 42.50 4.40
3437 4671 4.323180 CCCCCGCTGTATATATAAAGCACA 60.323 45.833 27.16 9.68 42.50 4.57
3438 4672 5.242434 CCCCGCTGTATATATAAAGCACAA 58.758 41.667 27.16 0.00 42.50 3.33
3439 4673 5.880332 CCCCGCTGTATATATAAAGCACAAT 59.120 40.000 27.16 0.00 42.50 2.71
3440 4674 6.037172 CCCCGCTGTATATATAAAGCACAATC 59.963 42.308 27.16 4.83 42.50 2.67
3441 4675 6.593770 CCCGCTGTATATATAAAGCACAATCA 59.406 38.462 27.16 5.13 42.50 2.57
3442 4676 7.413000 CCCGCTGTATATATAAAGCACAATCAC 60.413 40.741 27.16 2.14 42.50 3.06
3443 4677 7.413000 CCGCTGTATATATAAAGCACAATCACC 60.413 40.741 27.16 3.08 42.50 4.02
3444 4678 7.117667 CGCTGTATATATAAAGCACAATCACCA 59.882 37.037 27.16 3.94 42.50 4.17
3445 4679 8.230486 GCTGTATATATAAAGCACAATCACCAC 58.770 37.037 24.42 0.00 42.06 4.16
3446 4680 9.271828 CTGTATATATAAAGCACAATCACCACA 57.728 33.333 0.00 0.00 0.00 4.17
3447 4681 9.620259 TGTATATATAAAGCACAATCACCACAA 57.380 29.630 0.00 0.00 0.00 3.33
3448 4682 9.878599 GTATATATAAAGCACAATCACCACAAC 57.121 33.333 0.00 0.00 0.00 3.32
3449 4683 6.832520 ATATAAAGCACAATCACCACAACA 57.167 33.333 0.00 0.00 0.00 3.33
3450 4684 5.726980 ATAAAGCACAATCACCACAACAT 57.273 34.783 0.00 0.00 0.00 2.71
3451 4685 3.648339 AAGCACAATCACCACAACATC 57.352 42.857 0.00 0.00 0.00 3.06
3452 4686 2.585330 AGCACAATCACCACAACATCA 58.415 42.857 0.00 0.00 0.00 3.07
3453 4687 2.957680 AGCACAATCACCACAACATCAA 59.042 40.909 0.00 0.00 0.00 2.57
3454 4688 3.005050 AGCACAATCACCACAACATCAAG 59.995 43.478 0.00 0.00 0.00 3.02
3455 4689 3.858129 GCACAATCACCACAACATCAAGG 60.858 47.826 0.00 0.00 0.00 3.61
3456 4690 3.569277 CACAATCACCACAACATCAAGGA 59.431 43.478 0.00 0.00 0.00 3.36
3457 4691 4.037803 CACAATCACCACAACATCAAGGAA 59.962 41.667 0.00 0.00 0.00 3.36
3458 4692 4.279169 ACAATCACCACAACATCAAGGAAG 59.721 41.667 0.00 0.00 0.00 3.46
3459 4693 3.855255 TCACCACAACATCAAGGAAGA 57.145 42.857 0.00 0.00 0.00 2.87
3460 4694 4.163441 TCACCACAACATCAAGGAAGAA 57.837 40.909 0.00 0.00 0.00 2.52
3461 4695 4.136796 TCACCACAACATCAAGGAAGAAG 58.863 43.478 0.00 0.00 0.00 2.85
3462 4696 4.136796 CACCACAACATCAAGGAAGAAGA 58.863 43.478 0.00 0.00 0.00 2.87
3463 4697 4.763793 CACCACAACATCAAGGAAGAAGAT 59.236 41.667 0.00 0.00 0.00 2.40
3464 4698 5.939883 CACCACAACATCAAGGAAGAAGATA 59.060 40.000 0.00 0.00 0.00 1.98
3465 4699 5.940470 ACCACAACATCAAGGAAGAAGATAC 59.060 40.000 0.00 0.00 0.00 2.24
3466 4700 5.939883 CCACAACATCAAGGAAGAAGATACA 59.060 40.000 0.00 0.00 0.00 2.29
3467 4701 6.430925 CCACAACATCAAGGAAGAAGATACAA 59.569 38.462 0.00 0.00 0.00 2.41
3468 4702 7.040478 CCACAACATCAAGGAAGAAGATACAAA 60.040 37.037 0.00 0.00 0.00 2.83
3469 4703 7.805071 CACAACATCAAGGAAGAAGATACAAAC 59.195 37.037 0.00 0.00 0.00 2.93
3470 4704 6.727824 ACATCAAGGAAGAAGATACAAACG 57.272 37.500 0.00 0.00 0.00 3.60
3471 4705 5.122396 ACATCAAGGAAGAAGATACAAACGC 59.878 40.000 0.00 0.00 0.00 4.84
3472 4706 4.637276 TCAAGGAAGAAGATACAAACGCA 58.363 39.130 0.00 0.00 0.00 5.24
3473 4707 4.451096 TCAAGGAAGAAGATACAAACGCAC 59.549 41.667 0.00 0.00 0.00 5.34
3474 4708 2.993899 AGGAAGAAGATACAAACGCACG 59.006 45.455 0.00 0.00 0.00 5.34
3475 4709 2.474032 GGAAGAAGATACAAACGCACGC 60.474 50.000 0.00 0.00 0.00 5.34
3476 4710 1.076332 AGAAGATACAAACGCACGCC 58.924 50.000 0.00 0.00 0.00 5.68
3477 4711 0.793861 GAAGATACAAACGCACGCCA 59.206 50.000 0.00 0.00 0.00 5.69
3478 4712 1.195900 GAAGATACAAACGCACGCCAA 59.804 47.619 0.00 0.00 0.00 4.52
3479 4713 0.515564 AGATACAAACGCACGCCAAC 59.484 50.000 0.00 0.00 0.00 3.77
3480 4714 0.236187 GATACAAACGCACGCCAACA 59.764 50.000 0.00 0.00 0.00 3.33
3481 4715 0.040781 ATACAAACGCACGCCAACAC 60.041 50.000 0.00 0.00 0.00 3.32
3482 4716 2.049475 TACAAACGCACGCCAACACC 62.049 55.000 0.00 0.00 0.00 4.16
3483 4717 3.134792 AAACGCACGCCAACACCA 61.135 55.556 0.00 0.00 0.00 4.17
3484 4718 3.404141 AAACGCACGCCAACACCAC 62.404 57.895 0.00 0.00 0.00 4.16
3486 4720 4.605967 CGCACGCCAACACCACAC 62.606 66.667 0.00 0.00 0.00 3.82
3487 4721 3.209097 GCACGCCAACACCACACT 61.209 61.111 0.00 0.00 0.00 3.55
3488 4722 3.022287 CACGCCAACACCACACTC 58.978 61.111 0.00 0.00 0.00 3.51
3489 4723 1.817520 CACGCCAACACCACACTCA 60.818 57.895 0.00 0.00 0.00 3.41
3490 4724 1.078072 ACGCCAACACCACACTCAA 60.078 52.632 0.00 0.00 0.00 3.02
3491 4725 1.355210 CGCCAACACCACACTCAAC 59.645 57.895 0.00 0.00 0.00 3.18
3492 4726 1.355210 GCCAACACCACACTCAACG 59.645 57.895 0.00 0.00 0.00 4.10
3493 4727 1.355210 CCAACACCACACTCAACGC 59.645 57.895 0.00 0.00 0.00 4.84
3494 4728 1.372838 CCAACACCACACTCAACGCA 61.373 55.000 0.00 0.00 0.00 5.24
3495 4729 0.248054 CAACACCACACTCAACGCAC 60.248 55.000 0.00 0.00 0.00 5.34
3496 4730 0.675208 AACACCACACTCAACGCACA 60.675 50.000 0.00 0.00 0.00 4.57
3497 4731 1.351707 CACCACACTCAACGCACAC 59.648 57.895 0.00 0.00 0.00 3.82
3498 4732 1.078778 ACCACACTCAACGCACACA 60.079 52.632 0.00 0.00 0.00 3.72
3499 4733 1.351707 CCACACTCAACGCACACAC 59.648 57.895 0.00 0.00 0.00 3.82
3500 4734 1.351707 CACACTCAACGCACACACC 59.648 57.895 0.00 0.00 0.00 4.16
3501 4735 1.817941 ACACTCAACGCACACACCC 60.818 57.895 0.00 0.00 0.00 4.61
3502 4736 1.817520 CACTCAACGCACACACCCA 60.818 57.895 0.00 0.00 0.00 4.51
3503 4737 1.078072 ACTCAACGCACACACCCAA 60.078 52.632 0.00 0.00 0.00 4.12
3504 4738 1.095228 ACTCAACGCACACACCCAAG 61.095 55.000 0.00 0.00 0.00 3.61
3505 4739 1.785041 CTCAACGCACACACCCAAGG 61.785 60.000 0.00 0.00 0.00 3.61
3506 4740 3.216292 AACGCACACACCCAAGGC 61.216 61.111 0.00 0.00 0.00 4.35
3509 4743 3.357079 GCACACACCCAAGGCGAG 61.357 66.667 0.00 0.00 0.00 5.03
3510 4744 2.425592 CACACACCCAAGGCGAGA 59.574 61.111 0.00 0.00 0.00 4.04
3511 4745 1.003355 CACACACCCAAGGCGAGAT 60.003 57.895 0.00 0.00 0.00 2.75
3512 4746 0.249120 CACACACCCAAGGCGAGATA 59.751 55.000 0.00 0.00 0.00 1.98
3513 4747 0.249398 ACACACCCAAGGCGAGATAC 59.751 55.000 0.00 0.00 0.00 2.24
3514 4748 0.249120 CACACCCAAGGCGAGATACA 59.751 55.000 0.00 0.00 0.00 2.29
3515 4749 0.981183 ACACCCAAGGCGAGATACAA 59.019 50.000 0.00 0.00 0.00 2.41
3516 4750 1.349688 ACACCCAAGGCGAGATACAAA 59.650 47.619 0.00 0.00 0.00 2.83
3517 4751 2.009774 CACCCAAGGCGAGATACAAAG 58.990 52.381 0.00 0.00 0.00 2.77
3518 4752 1.065418 ACCCAAGGCGAGATACAAAGG 60.065 52.381 0.00 0.00 0.00 3.11
3519 4753 1.065418 CCCAAGGCGAGATACAAAGGT 60.065 52.381 0.00 0.00 0.00 3.50
3520 4754 2.009774 CCAAGGCGAGATACAAAGGTG 58.990 52.381 0.00 0.00 0.00 4.00
3521 4755 1.398390 CAAGGCGAGATACAAAGGTGC 59.602 52.381 0.00 0.00 0.00 5.01
3522 4756 0.107654 AGGCGAGATACAAAGGTGCC 60.108 55.000 0.00 0.00 41.27 5.01
3523 4757 1.429148 GGCGAGATACAAAGGTGCCG 61.429 60.000 0.00 0.00 0.00 5.69
3524 4758 0.459585 GCGAGATACAAAGGTGCCGA 60.460 55.000 0.00 0.00 0.00 5.54
3525 4759 1.560923 CGAGATACAAAGGTGCCGAG 58.439 55.000 0.00 0.00 0.00 4.63
3526 4760 1.291132 GAGATACAAAGGTGCCGAGC 58.709 55.000 0.00 0.00 0.00 5.03
3527 4761 0.613260 AGATACAAAGGTGCCGAGCA 59.387 50.000 0.00 0.00 35.60 4.26
3536 4770 2.203084 TGCCGAGCACCGAAAACA 60.203 55.556 0.00 0.00 41.76 2.83
3537 4771 2.251371 GCCGAGCACCGAAAACAC 59.749 61.111 0.00 0.00 41.76 3.32
3538 4772 2.943653 CCGAGCACCGAAAACACC 59.056 61.111 0.00 0.00 41.76 4.16
3539 4773 1.890041 CCGAGCACCGAAAACACCA 60.890 57.895 0.00 0.00 41.76 4.17
3540 4774 1.278637 CGAGCACCGAAAACACCAC 59.721 57.895 0.00 0.00 41.76 4.16
3541 4775 1.652563 GAGCACCGAAAACACCACC 59.347 57.895 0.00 0.00 0.00 4.61
3542 4776 1.792118 GAGCACCGAAAACACCACCC 61.792 60.000 0.00 0.00 0.00 4.61
3543 4777 2.852180 GCACCGAAAACACCACCCC 61.852 63.158 0.00 0.00 0.00 4.95
3544 4778 1.454111 CACCGAAAACACCACCCCA 60.454 57.895 0.00 0.00 0.00 4.96
3545 4779 1.038130 CACCGAAAACACCACCCCAA 61.038 55.000 0.00 0.00 0.00 4.12
3546 4780 1.038681 ACCGAAAACACCACCCCAAC 61.039 55.000 0.00 0.00 0.00 3.77
3547 4781 1.357334 CGAAAACACCACCCCAACG 59.643 57.895 0.00 0.00 0.00 4.10
3548 4782 1.096386 CGAAAACACCACCCCAACGA 61.096 55.000 0.00 0.00 0.00 3.85
3549 4783 0.382873 GAAAACACCACCCCAACGAC 59.617 55.000 0.00 0.00 0.00 4.34
3550 4784 1.378124 AAAACACCACCCCAACGACG 61.378 55.000 0.00 0.00 0.00 5.12
3551 4785 2.254737 AAACACCACCCCAACGACGA 62.255 55.000 0.00 0.00 0.00 4.20
3552 4786 2.663852 CACCACCCCAACGACGAC 60.664 66.667 0.00 0.00 0.00 4.34
3553 4787 2.841044 ACCACCCCAACGACGACT 60.841 61.111 0.00 0.00 0.00 4.18
3554 4788 1.531365 ACCACCCCAACGACGACTA 60.531 57.895 0.00 0.00 0.00 2.59
3555 4789 1.114722 ACCACCCCAACGACGACTAA 61.115 55.000 0.00 0.00 0.00 2.24
3556 4790 0.389426 CCACCCCAACGACGACTAAG 60.389 60.000 0.00 0.00 0.00 2.18
3557 4791 1.012486 CACCCCAACGACGACTAAGC 61.012 60.000 0.00 0.00 0.00 3.09
3558 4792 1.290955 CCCCAACGACGACTAAGCA 59.709 57.895 0.00 0.00 0.00 3.91
3559 4793 1.012486 CCCCAACGACGACTAAGCAC 61.012 60.000 0.00 0.00 0.00 4.40
3560 4794 1.342082 CCCAACGACGACTAAGCACG 61.342 60.000 0.00 0.00 0.00 5.34
3561 4795 0.386352 CCAACGACGACTAAGCACGA 60.386 55.000 0.00 0.00 0.00 4.35
3562 4796 0.701303 CAACGACGACTAAGCACGAC 59.299 55.000 0.00 0.00 0.00 4.34
3592 4826 5.756833 TGTATGCATGCTTGATACTCTGAAG 59.243 40.000 20.33 0.00 0.00 3.02
3593 4827 4.212143 TGCATGCTTGATACTCTGAAGT 57.788 40.909 20.33 0.00 39.66 3.01
3594 4828 4.186926 TGCATGCTTGATACTCTGAAGTC 58.813 43.478 20.33 0.00 36.92 3.01
3595 4829 4.081254 TGCATGCTTGATACTCTGAAGTCT 60.081 41.667 20.33 0.00 36.92 3.24
3596 4830 4.270566 GCATGCTTGATACTCTGAAGTCTG 59.729 45.833 11.37 0.00 36.92 3.51
3597 4831 5.658468 CATGCTTGATACTCTGAAGTCTGA 58.342 41.667 0.00 0.00 36.92 3.27
3598 4832 5.728637 TGCTTGATACTCTGAAGTCTGAA 57.271 39.130 0.00 0.00 36.92 3.02
3602 4836 7.039714 TGCTTGATACTCTGAAGTCTGAACTTA 60.040 37.037 0.00 0.00 45.80 2.24
3658 4892 5.386958 GGGTAAACTAGCCCTTCTTTTTG 57.613 43.478 0.00 0.00 41.63 2.44
3660 4894 5.537295 GGGTAAACTAGCCCTTCTTTTTGAA 59.463 40.000 0.00 0.00 41.63 2.69
3663 4897 7.982919 GGTAAACTAGCCCTTCTTTTTGAAAAA 59.017 33.333 2.83 2.83 33.79 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
203 212 2.552599 TGTAAACATGAGGTCCGCAA 57.447 45.000 0.00 0.00 0.00 4.85
242 251 3.984508 AAGATGATAAGTGCATGCTGC 57.015 42.857 20.33 11.82 45.29 5.25
243 252 6.037940 ACACTAAAGATGATAAGTGCATGCTG 59.962 38.462 20.33 4.68 42.44 4.41
244 253 6.118170 ACACTAAAGATGATAAGTGCATGCT 58.882 36.000 20.33 0.40 42.44 3.79
245 254 6.369059 ACACTAAAGATGATAAGTGCATGC 57.631 37.500 11.82 11.82 42.44 4.06
263 272 9.582648 TGTGAGCTATGACCTATTTATACACTA 57.417 33.333 0.00 0.00 0.00 2.74
264 273 8.478775 TGTGAGCTATGACCTATTTATACACT 57.521 34.615 0.00 0.00 0.00 3.55
265 274 9.197694 CTTGTGAGCTATGACCTATTTATACAC 57.802 37.037 0.00 0.00 0.00 2.90
266 275 7.872993 GCTTGTGAGCTATGACCTATTTATACA 59.127 37.037 0.00 0.00 45.65 2.29
267 276 8.245701 GCTTGTGAGCTATGACCTATTTATAC 57.754 38.462 0.00 0.00 45.65 1.47
313 322 2.830104 CTGGATGATGCTCGTTGATGA 58.170 47.619 0.00 0.00 0.00 2.92
324 333 6.755141 CACCAAAATTAAAGAGCTGGATGATG 59.245 38.462 0.00 0.00 0.00 3.07
331 340 5.241506 TGGACTCACCAAAATTAAAGAGCTG 59.758 40.000 0.00 0.00 46.75 4.24
333 342 5.705609 TGGACTCACCAAAATTAAAGAGC 57.294 39.130 0.00 0.00 46.75 4.09
376 385 5.013704 ACACAAGACATATTTGTACCTGGGA 59.986 40.000 0.00 0.00 36.67 4.37
389 402 7.753580 CAGACGACTATAACAACACAAGACATA 59.246 37.037 0.00 0.00 0.00 2.29
393 406 4.921515 GCAGACGACTATAACAACACAAGA 59.078 41.667 0.00 0.00 0.00 3.02
411 425 6.802348 ACAAACGACGATCATATATAGCAGAC 59.198 38.462 0.00 0.00 0.00 3.51
413 427 7.440281 CAACAAACGACGATCATATATAGCAG 58.560 38.462 0.00 0.00 0.00 4.24
414 428 6.128929 GCAACAAACGACGATCATATATAGCA 60.129 38.462 0.00 0.00 0.00 3.49
415 429 6.128929 TGCAACAAACGACGATCATATATAGC 60.129 38.462 0.00 0.00 0.00 2.97
418 432 6.036626 TGTTGCAACAAACGACGATCATATAT 59.963 34.615 29.36 0.00 35.67 0.86
419 433 5.348997 TGTTGCAACAAACGACGATCATATA 59.651 36.000 29.36 0.00 35.67 0.86
420 434 4.153296 TGTTGCAACAAACGACGATCATAT 59.847 37.500 29.36 0.00 35.67 1.78
421 435 3.495001 TGTTGCAACAAACGACGATCATA 59.505 39.130 29.36 0.82 35.67 2.15
422 436 2.289274 TGTTGCAACAAACGACGATCAT 59.711 40.909 29.36 0.00 35.67 2.45
423 437 1.666189 TGTTGCAACAAACGACGATCA 59.334 42.857 29.36 1.59 35.67 2.92
424 438 2.376915 TGTTGCAACAAACGACGATC 57.623 45.000 29.36 0.00 35.67 3.69
425 439 2.548057 AGATGTTGCAACAAACGACGAT 59.452 40.909 34.06 16.55 43.03 3.73
426 440 1.937223 AGATGTTGCAACAAACGACGA 59.063 42.857 34.06 10.37 43.03 4.20
427 441 2.036217 CAGATGTTGCAACAAACGACG 58.964 47.619 34.06 19.41 43.03 5.12
428 442 3.035942 GACAGATGTTGCAACAAACGAC 58.964 45.455 34.06 21.06 43.03 4.34
469 483 5.077134 CGCAGGTTGATGGATCAGATATA 57.923 43.478 0.00 0.00 38.19 0.86
472 486 2.251409 CGCAGGTTGATGGATCAGAT 57.749 50.000 0.00 0.00 38.19 2.90
553 569 0.910088 ACCTACAGCCTTCAGGACCC 60.910 60.000 0.00 0.00 37.39 4.46
788 811 4.159135 GGACTGGTCAGTTAATTAGGACGA 59.841 45.833 5.02 4.33 42.66 4.20
912 942 8.311109 ACAATACAACACATACAGACAGACATA 58.689 33.333 0.00 0.00 0.00 2.29
925 955 5.736813 ACCCGTACATACAATACAACACAT 58.263 37.500 0.00 0.00 0.00 3.21
929 959 5.455525 GTCGTACCCGTACATACAATACAAC 59.544 44.000 5.88 0.00 35.87 3.32
1374 1443 1.222766 CGAGCTCTGCATGCAGGATC 61.223 60.000 39.72 33.70 43.75 3.36
1481 1603 2.107141 GTCGGATCTTCCTGCCCG 59.893 66.667 0.00 0.00 43.02 6.13
1638 1778 1.960040 TTCCTCATGCCGATGACGCT 61.960 55.000 0.00 0.00 34.71 5.07
1788 1928 4.451900 GCAGAGAAGAGAGACTAGCTAGT 58.548 47.826 26.35 26.35 39.71 2.57
1789 1929 3.815401 GGCAGAGAAGAGAGACTAGCTAG 59.185 52.174 19.44 19.44 0.00 3.42
1791 1931 2.242196 AGGCAGAGAAGAGAGACTAGCT 59.758 50.000 0.00 0.00 0.00 3.32
1792 1932 2.654863 AGGCAGAGAAGAGAGACTAGC 58.345 52.381 0.00 0.00 0.00 3.42
1793 1933 3.181487 GCAAGGCAGAGAAGAGAGACTAG 60.181 52.174 0.00 0.00 0.00 2.57
1795 1935 1.550072 GCAAGGCAGAGAAGAGAGACT 59.450 52.381 0.00 0.00 0.00 3.24
1796 1936 1.405391 GGCAAGGCAGAGAAGAGAGAC 60.405 57.143 0.00 0.00 0.00 3.36
1797 1937 0.901124 GGCAAGGCAGAGAAGAGAGA 59.099 55.000 0.00 0.00 0.00 3.10
1799 1939 0.900182 TCGGCAAGGCAGAGAAGAGA 60.900 55.000 0.00 0.00 0.00 3.10
1800 1940 0.177604 ATCGGCAAGGCAGAGAAGAG 59.822 55.000 0.00 0.00 36.09 2.85
1801 1941 0.176680 GATCGGCAAGGCAGAGAAGA 59.823 55.000 0.00 0.00 36.09 2.87
1803 1943 1.485124 TAGATCGGCAAGGCAGAGAA 58.515 50.000 0.00 0.00 36.09 2.87
1805 1945 2.540265 ATTAGATCGGCAAGGCAGAG 57.460 50.000 0.00 0.00 36.09 3.35
1806 1946 2.170397 TGAATTAGATCGGCAAGGCAGA 59.830 45.455 0.00 0.00 37.15 4.26
1807 1947 2.547211 CTGAATTAGATCGGCAAGGCAG 59.453 50.000 0.00 0.00 0.00 4.85
1814 1954 5.730568 AAATTCGTTGCTGAATTAGATCGGC 60.731 40.000 10.94 1.23 45.36 5.54
1815 1955 5.409643 AATTCGTTGCTGAATTAGATCGG 57.590 39.130 9.42 0.00 44.53 4.18
1816 1956 5.678483 CCAAATTCGTTGCTGAATTAGATCG 59.322 40.000 10.94 0.00 45.36 3.69
1817 1957 6.555315 ACCAAATTCGTTGCTGAATTAGATC 58.445 36.000 10.94 0.00 45.36 2.75
1818 1958 6.515272 ACCAAATTCGTTGCTGAATTAGAT 57.485 33.333 10.94 0.00 45.36 1.98
1819 1959 5.957842 ACCAAATTCGTTGCTGAATTAGA 57.042 34.783 10.94 0.00 45.36 2.10
1820 1960 5.920273 ACAACCAAATTCGTTGCTGAATTAG 59.080 36.000 14.96 8.99 45.36 1.73
1821 1961 5.837437 ACAACCAAATTCGTTGCTGAATTA 58.163 33.333 14.96 0.00 45.36 1.40
1823 1963 4.320608 ACAACCAAATTCGTTGCTGAAT 57.679 36.364 14.96 0.00 43.57 2.57
1824 1964 3.791973 ACAACCAAATTCGTTGCTGAA 57.208 38.095 14.96 0.00 43.57 3.02
1825 1965 3.129462 TGAACAACCAAATTCGTTGCTGA 59.871 39.130 14.96 0.00 43.57 4.26
1826 1966 3.443037 TGAACAACCAAATTCGTTGCTG 58.557 40.909 14.96 0.00 43.57 4.41
1827 1967 3.791973 TGAACAACCAAATTCGTTGCT 57.208 38.095 14.96 6.23 43.57 3.91
1839 1979 6.017440 TCAGTTAGCACTACAATTGAACAACC 60.017 38.462 13.59 0.00 0.00 3.77
1852 1992 4.980573 ACCCACAAAATCAGTTAGCACTA 58.019 39.130 0.00 0.00 0.00 2.74
1861 2001 5.574055 CGATCAAATCAACCCACAAAATCAG 59.426 40.000 0.00 0.00 0.00 2.90
1863 2003 5.469479 ACGATCAAATCAACCCACAAAATC 58.531 37.500 0.00 0.00 0.00 2.17
2363 2503 6.726299 ACTCTGAATCCTCCGGATCAAATATA 59.274 38.462 3.57 0.00 42.27 0.86
2549 2693 7.328277 TCCAAATCCCATTACTGAAATTACG 57.672 36.000 0.00 0.00 0.00 3.18
3008 3811 4.935352 TTTGTGGGAGAAAGAATGGTTG 57.065 40.909 0.00 0.00 0.00 3.77
3013 3816 5.316987 AGTCGATTTTGTGGGAGAAAGAAT 58.683 37.500 0.00 0.00 0.00 2.40
3017 3820 6.234920 TCATAAGTCGATTTTGTGGGAGAAA 58.765 36.000 0.00 0.00 0.00 2.52
3055 3858 7.866393 GTCCGCAATAGTATATGTAAGTTGACT 59.134 37.037 0.00 0.00 0.00 3.41
3139 4329 0.457851 GATCCTCTGTCCTCCACACG 59.542 60.000 0.00 0.00 0.00 4.49
3183 4373 3.515630 CATATCCCATTGGTCGATCTCG 58.484 50.000 1.20 0.00 41.45 4.04
3267 4459 8.944029 CAAAGGGAGCAGTATCATTCATATAAG 58.056 37.037 0.00 0.00 0.00 1.73
3284 4476 6.280643 ACAGTTAATTTTGAACAAAGGGAGC 58.719 36.000 0.46 0.00 0.00 4.70
3291 4483 6.125327 TCAGCGACAGTTAATTTTGAACAA 57.875 33.333 0.00 0.00 0.00 2.83
3296 4488 6.857964 ACTCATTTCAGCGACAGTTAATTTTG 59.142 34.615 0.00 0.00 0.00 2.44
3297 4489 6.857964 CACTCATTTCAGCGACAGTTAATTTT 59.142 34.615 0.00 0.00 0.00 1.82
3298 4490 6.204688 TCACTCATTTCAGCGACAGTTAATTT 59.795 34.615 0.00 0.00 0.00 1.82
3306 4498 3.930336 AGATTCACTCATTTCAGCGACA 58.070 40.909 0.00 0.00 0.00 4.35
3355 4547 6.976934 AATACAACCAGGTTCACTCATTTT 57.023 33.333 0.12 0.00 0.00 1.82
3414 4648 4.189231 GTGCTTTATATATACAGCGGGGG 58.811 47.826 20.58 0.00 38.55 5.40
3415 4649 4.827692 TGTGCTTTATATATACAGCGGGG 58.172 43.478 20.58 0.00 38.55 5.73
3416 4650 6.593770 TGATTGTGCTTTATATATACAGCGGG 59.406 38.462 20.58 0.00 38.55 6.13
3417 4651 7.413000 GGTGATTGTGCTTTATATATACAGCGG 60.413 40.741 20.58 1.17 38.55 5.52
3418 4652 7.117667 TGGTGATTGTGCTTTATATATACAGCG 59.882 37.037 20.58 1.06 38.55 5.18
3419 4653 8.230486 GTGGTGATTGTGCTTTATATATACAGC 58.770 37.037 19.66 19.66 36.78 4.40
3420 4654 9.271828 TGTGGTGATTGTGCTTTATATATACAG 57.728 33.333 2.07 2.07 0.00 2.74
3421 4655 9.620259 TTGTGGTGATTGTGCTTTATATATACA 57.380 29.630 0.00 0.00 0.00 2.29
3422 4656 9.878599 GTTGTGGTGATTGTGCTTTATATATAC 57.121 33.333 0.00 0.00 0.00 1.47
3423 4657 9.620259 TGTTGTGGTGATTGTGCTTTATATATA 57.380 29.630 0.00 0.00 0.00 0.86
3424 4658 8.518430 TGTTGTGGTGATTGTGCTTTATATAT 57.482 30.769 0.00 0.00 0.00 0.86
3425 4659 7.929941 TGTTGTGGTGATTGTGCTTTATATA 57.070 32.000 0.00 0.00 0.00 0.86
3426 4660 6.832520 TGTTGTGGTGATTGTGCTTTATAT 57.167 33.333 0.00 0.00 0.00 0.86
3427 4661 6.432472 TGATGTTGTGGTGATTGTGCTTTATA 59.568 34.615 0.00 0.00 0.00 0.98
3428 4662 5.243507 TGATGTTGTGGTGATTGTGCTTTAT 59.756 36.000 0.00 0.00 0.00 1.40
3429 4663 4.582240 TGATGTTGTGGTGATTGTGCTTTA 59.418 37.500 0.00 0.00 0.00 1.85
3430 4664 3.384146 TGATGTTGTGGTGATTGTGCTTT 59.616 39.130 0.00 0.00 0.00 3.51
3431 4665 2.957680 TGATGTTGTGGTGATTGTGCTT 59.042 40.909 0.00 0.00 0.00 3.91
3432 4666 2.585330 TGATGTTGTGGTGATTGTGCT 58.415 42.857 0.00 0.00 0.00 4.40
3433 4667 3.311106 CTTGATGTTGTGGTGATTGTGC 58.689 45.455 0.00 0.00 0.00 4.57
3434 4668 3.569277 TCCTTGATGTTGTGGTGATTGTG 59.431 43.478 0.00 0.00 0.00 3.33
3435 4669 3.831323 TCCTTGATGTTGTGGTGATTGT 58.169 40.909 0.00 0.00 0.00 2.71
3436 4670 4.520111 TCTTCCTTGATGTTGTGGTGATTG 59.480 41.667 0.00 0.00 0.00 2.67
3437 4671 4.728772 TCTTCCTTGATGTTGTGGTGATT 58.271 39.130 0.00 0.00 0.00 2.57
3438 4672 4.371624 TCTTCCTTGATGTTGTGGTGAT 57.628 40.909 0.00 0.00 0.00 3.06
3439 4673 3.855255 TCTTCCTTGATGTTGTGGTGA 57.145 42.857 0.00 0.00 0.00 4.02
3440 4674 4.136796 TCTTCTTCCTTGATGTTGTGGTG 58.863 43.478 0.00 0.00 0.00 4.17
3441 4675 4.437682 TCTTCTTCCTTGATGTTGTGGT 57.562 40.909 0.00 0.00 0.00 4.16
3442 4676 5.939883 TGTATCTTCTTCCTTGATGTTGTGG 59.060 40.000 0.00 0.00 0.00 4.17
3443 4677 7.439157 TTGTATCTTCTTCCTTGATGTTGTG 57.561 36.000 0.00 0.00 0.00 3.33
3444 4678 7.307989 CGTTTGTATCTTCTTCCTTGATGTTGT 60.308 37.037 0.00 0.00 0.00 3.32
3445 4679 7.017645 CGTTTGTATCTTCTTCCTTGATGTTG 58.982 38.462 0.00 0.00 0.00 3.33
3446 4680 6.348540 GCGTTTGTATCTTCTTCCTTGATGTT 60.349 38.462 0.00 0.00 0.00 2.71
3447 4681 5.122396 GCGTTTGTATCTTCTTCCTTGATGT 59.878 40.000 0.00 0.00 0.00 3.06
3448 4682 5.122239 TGCGTTTGTATCTTCTTCCTTGATG 59.878 40.000 0.00 0.00 0.00 3.07
3449 4683 5.122396 GTGCGTTTGTATCTTCTTCCTTGAT 59.878 40.000 0.00 0.00 0.00 2.57
3450 4684 4.451096 GTGCGTTTGTATCTTCTTCCTTGA 59.549 41.667 0.00 0.00 0.00 3.02
3451 4685 4.666655 CGTGCGTTTGTATCTTCTTCCTTG 60.667 45.833 0.00 0.00 0.00 3.61
3452 4686 3.432252 CGTGCGTTTGTATCTTCTTCCTT 59.568 43.478 0.00 0.00 0.00 3.36
3453 4687 2.993899 CGTGCGTTTGTATCTTCTTCCT 59.006 45.455 0.00 0.00 0.00 3.36
3454 4688 2.474032 GCGTGCGTTTGTATCTTCTTCC 60.474 50.000 0.00 0.00 0.00 3.46
3455 4689 2.474032 GGCGTGCGTTTGTATCTTCTTC 60.474 50.000 0.00 0.00 0.00 2.87
3456 4690 1.463444 GGCGTGCGTTTGTATCTTCTT 59.537 47.619 0.00 0.00 0.00 2.52
3457 4691 1.076332 GGCGTGCGTTTGTATCTTCT 58.924 50.000 0.00 0.00 0.00 2.85
3458 4692 0.793861 TGGCGTGCGTTTGTATCTTC 59.206 50.000 0.00 0.00 0.00 2.87
3459 4693 1.069500 GTTGGCGTGCGTTTGTATCTT 60.069 47.619 0.00 0.00 0.00 2.40
3460 4694 0.515564 GTTGGCGTGCGTTTGTATCT 59.484 50.000 0.00 0.00 0.00 1.98
3461 4695 0.236187 TGTTGGCGTGCGTTTGTATC 59.764 50.000 0.00 0.00 0.00 2.24
3462 4696 0.040781 GTGTTGGCGTGCGTTTGTAT 60.041 50.000 0.00 0.00 0.00 2.29
3463 4697 1.352404 GTGTTGGCGTGCGTTTGTA 59.648 52.632 0.00 0.00 0.00 2.41
3464 4698 2.101380 GTGTTGGCGTGCGTTTGT 59.899 55.556 0.00 0.00 0.00 2.83
3465 4699 2.653766 GGTGTTGGCGTGCGTTTG 60.654 61.111 0.00 0.00 0.00 2.93
3466 4700 3.134792 TGGTGTTGGCGTGCGTTT 61.135 55.556 0.00 0.00 0.00 3.60
3467 4701 3.883180 GTGGTGTTGGCGTGCGTT 61.883 61.111 0.00 0.00 0.00 4.84
3469 4703 4.605967 GTGTGGTGTTGGCGTGCG 62.606 66.667 0.00 0.00 0.00 5.34
3470 4704 3.181169 GAGTGTGGTGTTGGCGTGC 62.181 63.158 0.00 0.00 0.00 5.34
3471 4705 1.372838 TTGAGTGTGGTGTTGGCGTG 61.373 55.000 0.00 0.00 0.00 5.34
3472 4706 1.078072 TTGAGTGTGGTGTTGGCGT 60.078 52.632 0.00 0.00 0.00 5.68
3473 4707 1.355210 GTTGAGTGTGGTGTTGGCG 59.645 57.895 0.00 0.00 0.00 5.69
3474 4708 1.355210 CGTTGAGTGTGGTGTTGGC 59.645 57.895 0.00 0.00 0.00 4.52
3475 4709 1.355210 GCGTTGAGTGTGGTGTTGG 59.645 57.895 0.00 0.00 0.00 3.77
3476 4710 0.248054 GTGCGTTGAGTGTGGTGTTG 60.248 55.000 0.00 0.00 0.00 3.33
3477 4711 0.675208 TGTGCGTTGAGTGTGGTGTT 60.675 50.000 0.00 0.00 0.00 3.32
3478 4712 1.078778 TGTGCGTTGAGTGTGGTGT 60.079 52.632 0.00 0.00 0.00 4.16
3479 4713 1.351707 GTGTGCGTTGAGTGTGGTG 59.648 57.895 0.00 0.00 0.00 4.17
3480 4714 1.078778 TGTGTGCGTTGAGTGTGGT 60.079 52.632 0.00 0.00 0.00 4.16
3481 4715 1.351707 GTGTGTGCGTTGAGTGTGG 59.648 57.895 0.00 0.00 0.00 4.17
3482 4716 1.351707 GGTGTGTGCGTTGAGTGTG 59.648 57.895 0.00 0.00 0.00 3.82
3483 4717 1.817941 GGGTGTGTGCGTTGAGTGT 60.818 57.895 0.00 0.00 0.00 3.55
3484 4718 1.372838 TTGGGTGTGTGCGTTGAGTG 61.373 55.000 0.00 0.00 0.00 3.51
3485 4719 1.078072 TTGGGTGTGTGCGTTGAGT 60.078 52.632 0.00 0.00 0.00 3.41
3486 4720 1.648720 CTTGGGTGTGTGCGTTGAG 59.351 57.895 0.00 0.00 0.00 3.02
3487 4721 1.821759 CCTTGGGTGTGTGCGTTGA 60.822 57.895 0.00 0.00 0.00 3.18
3488 4722 2.721231 CCTTGGGTGTGTGCGTTG 59.279 61.111 0.00 0.00 0.00 4.10
3489 4723 3.216292 GCCTTGGGTGTGTGCGTT 61.216 61.111 0.00 0.00 0.00 4.84
3492 4726 3.357079 CTCGCCTTGGGTGTGTGC 61.357 66.667 0.00 0.00 34.40 4.57
3493 4727 0.249120 TATCTCGCCTTGGGTGTGTG 59.751 55.000 0.00 0.00 34.40 3.82
3494 4728 0.249398 GTATCTCGCCTTGGGTGTGT 59.751 55.000 0.00 0.00 34.40 3.72
3495 4729 0.249120 TGTATCTCGCCTTGGGTGTG 59.751 55.000 0.00 0.00 34.40 3.82
3496 4730 0.981183 TTGTATCTCGCCTTGGGTGT 59.019 50.000 0.00 0.00 34.40 4.16
3497 4731 2.009774 CTTTGTATCTCGCCTTGGGTG 58.990 52.381 0.00 0.00 33.99 4.61
3498 4732 1.065418 CCTTTGTATCTCGCCTTGGGT 60.065 52.381 0.00 0.00 0.00 4.51
3499 4733 1.065418 ACCTTTGTATCTCGCCTTGGG 60.065 52.381 0.00 0.00 0.00 4.12
3500 4734 2.009774 CACCTTTGTATCTCGCCTTGG 58.990 52.381 0.00 0.00 0.00 3.61
3501 4735 1.398390 GCACCTTTGTATCTCGCCTTG 59.602 52.381 0.00 0.00 0.00 3.61
3502 4736 1.679032 GGCACCTTTGTATCTCGCCTT 60.679 52.381 0.00 0.00 35.17 4.35
3503 4737 0.107654 GGCACCTTTGTATCTCGCCT 60.108 55.000 0.00 0.00 35.17 5.52
3504 4738 1.429148 CGGCACCTTTGTATCTCGCC 61.429 60.000 0.00 0.00 34.68 5.54
3505 4739 0.459585 TCGGCACCTTTGTATCTCGC 60.460 55.000 0.00 0.00 0.00 5.03
3506 4740 1.560923 CTCGGCACCTTTGTATCTCG 58.439 55.000 0.00 0.00 0.00 4.04
3507 4741 1.291132 GCTCGGCACCTTTGTATCTC 58.709 55.000 0.00 0.00 0.00 2.75
3508 4742 0.613260 TGCTCGGCACCTTTGTATCT 59.387 50.000 0.00 0.00 31.71 1.98
3509 4743 3.153024 TGCTCGGCACCTTTGTATC 57.847 52.632 0.00 0.00 31.71 2.24
3519 4753 2.203084 TGTTTTCGGTGCTCGGCA 60.203 55.556 0.00 0.00 39.77 5.69
3520 4754 2.251371 GTGTTTTCGGTGCTCGGC 59.749 61.111 0.70 0.00 39.77 5.54
3521 4755 1.890041 TGGTGTTTTCGGTGCTCGG 60.890 57.895 0.70 0.00 39.77 4.63
3522 4756 1.278637 GTGGTGTTTTCGGTGCTCG 59.721 57.895 0.00 0.00 40.90 5.03
3523 4757 1.652563 GGTGGTGTTTTCGGTGCTC 59.347 57.895 0.00 0.00 0.00 4.26
3524 4758 1.826487 GGGTGGTGTTTTCGGTGCT 60.826 57.895 0.00 0.00 0.00 4.40
3525 4759 2.725641 GGGTGGTGTTTTCGGTGC 59.274 61.111 0.00 0.00 0.00 5.01
3526 4760 1.038130 TTGGGGTGGTGTTTTCGGTG 61.038 55.000 0.00 0.00 0.00 4.94
3527 4761 1.038681 GTTGGGGTGGTGTTTTCGGT 61.039 55.000 0.00 0.00 0.00 4.69
3528 4762 1.737201 GTTGGGGTGGTGTTTTCGG 59.263 57.895 0.00 0.00 0.00 4.30
3529 4763 1.096386 TCGTTGGGGTGGTGTTTTCG 61.096 55.000 0.00 0.00 0.00 3.46
3530 4764 0.382873 GTCGTTGGGGTGGTGTTTTC 59.617 55.000 0.00 0.00 0.00 2.29
3531 4765 1.378124 CGTCGTTGGGGTGGTGTTTT 61.378 55.000 0.00 0.00 0.00 2.43
3532 4766 1.820481 CGTCGTTGGGGTGGTGTTT 60.820 57.895 0.00 0.00 0.00 2.83
3533 4767 2.203098 CGTCGTTGGGGTGGTGTT 60.203 61.111 0.00 0.00 0.00 3.32
3534 4768 3.155861 TCGTCGTTGGGGTGGTGT 61.156 61.111 0.00 0.00 0.00 4.16
3535 4769 1.808531 TAGTCGTCGTTGGGGTGGTG 61.809 60.000 0.00 0.00 0.00 4.17
3536 4770 1.114722 TTAGTCGTCGTTGGGGTGGT 61.115 55.000 0.00 0.00 0.00 4.16
3537 4771 0.389426 CTTAGTCGTCGTTGGGGTGG 60.389 60.000 0.00 0.00 0.00 4.61
3538 4772 1.012486 GCTTAGTCGTCGTTGGGGTG 61.012 60.000 0.00 0.00 0.00 4.61
3539 4773 1.291272 GCTTAGTCGTCGTTGGGGT 59.709 57.895 0.00 0.00 0.00 4.95
3540 4774 1.012486 GTGCTTAGTCGTCGTTGGGG 61.012 60.000 0.00 0.00 0.00 4.96
3541 4775 1.342082 CGTGCTTAGTCGTCGTTGGG 61.342 60.000 0.00 0.00 0.00 4.12
3542 4776 0.386352 TCGTGCTTAGTCGTCGTTGG 60.386 55.000 0.00 0.00 0.00 3.77
3543 4777 0.701303 GTCGTGCTTAGTCGTCGTTG 59.299 55.000 0.00 0.00 0.00 4.10
3544 4778 0.723790 CGTCGTGCTTAGTCGTCGTT 60.724 55.000 0.00 0.00 35.03 3.85
3545 4779 1.154525 CGTCGTGCTTAGTCGTCGT 60.155 57.895 0.00 0.00 35.03 4.34
3546 4780 0.451628 TTCGTCGTGCTTAGTCGTCG 60.452 55.000 10.36 10.36 39.11 5.12
3547 4781 1.892468 ATTCGTCGTGCTTAGTCGTC 58.108 50.000 0.00 0.00 0.00 4.20
3548 4782 3.181503 ACATATTCGTCGTGCTTAGTCGT 60.182 43.478 0.00 0.00 0.00 4.34
3549 4783 3.360533 ACATATTCGTCGTGCTTAGTCG 58.639 45.455 0.00 0.00 0.00 4.18
3550 4784 5.164177 GCATACATATTCGTCGTGCTTAGTC 60.164 44.000 0.00 0.00 31.52 2.59
3551 4785 4.680110 GCATACATATTCGTCGTGCTTAGT 59.320 41.667 0.00 0.00 31.52 2.24
3552 4786 4.679654 TGCATACATATTCGTCGTGCTTAG 59.320 41.667 0.00 0.00 33.90 2.18
3553 4787 4.612943 TGCATACATATTCGTCGTGCTTA 58.387 39.130 0.00 0.00 33.90 3.09
3554 4788 3.453424 TGCATACATATTCGTCGTGCTT 58.547 40.909 0.00 0.00 33.90 3.91
3555 4789 3.092334 TGCATACATATTCGTCGTGCT 57.908 42.857 0.00 0.00 33.90 4.40
3556 4790 3.725356 CATGCATACATATTCGTCGTGC 58.275 45.455 0.00 0.00 33.67 5.34
3557 4791 3.429881 AGCATGCATACATATTCGTCGTG 59.570 43.478 21.98 0.00 33.67 4.35
3558 4792 3.653344 AGCATGCATACATATTCGTCGT 58.347 40.909 21.98 0.00 33.67 4.34
3559 4793 4.150451 TCAAGCATGCATACATATTCGTCG 59.850 41.667 21.98 0.00 33.67 5.12
3560 4794 5.596268 TCAAGCATGCATACATATTCGTC 57.404 39.130 21.98 0.00 33.67 4.20
3561 4795 6.875726 AGTATCAAGCATGCATACATATTCGT 59.124 34.615 21.98 0.00 33.67 3.85
3562 4796 7.277319 AGAGTATCAAGCATGCATACATATTCG 59.723 37.037 21.98 0.00 37.82 3.34
3592 4826 9.973246 CACACACACATATTATTAAGTTCAGAC 57.027 33.333 0.00 0.00 0.00 3.51
3593 4827 9.719355 ACACACACACATATTATTAAGTTCAGA 57.281 29.630 0.00 0.00 0.00 3.27
3594 4828 9.759259 CACACACACACATATTATTAAGTTCAG 57.241 33.333 0.00 0.00 0.00 3.02
3595 4829 9.278978 ACACACACACACATATTATTAAGTTCA 57.721 29.630 0.00 0.00 0.00 3.18
3602 4836 8.486210 AGAGGATACACACACACACATATTATT 58.514 33.333 0.00 0.00 41.41 1.40
3625 4859 3.070302 GCTAGTTTACCCCATCCTCAGAG 59.930 52.174 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.