Multiple sequence alignment - TraesCS1D01G006000

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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 TraesCS1D01G006000 chr1D 100.000 4574 0 0 1 4574 2715952 2720525 0.000000e+00 8447.0
1 TraesCS1D01G006000 chr1D 87.101 2915 332 28 1216 4110 2888447 2885557 0.000000e+00 3260.0
2 TraesCS1D01G006000 chr1D 78.270 1873 358 32 2114 3954 12534047 12535902 0.000000e+00 1158.0
3 TraesCS1D01G006000 chr1D 86.471 717 72 13 3573 4280 2477992 2477292 0.000000e+00 763.0
4 TraesCS1D01G006000 chr1D 95.000 180 7 2 4280 4457 200883188 200883367 9.690000e-72 281.0
5 TraesCS1D01G006000 chr1D 83.969 262 31 7 948 1208 2888771 2888520 1.640000e-59 241.0
6 TraesCS1D01G006000 chr1D 95.918 49 2 0 4453 4501 2477294 2477246 3.790000e-11 80.5
7 TraesCS1D01G006000 chr1A 97.072 2220 62 3 1907 4123 2518061 2520280 0.000000e+00 3736.0
8 TraesCS1D01G006000 chr1A 87.053 3159 360 30 939 4075 2441529 2438398 0.000000e+00 3522.0
9 TraesCS1D01G006000 chr1A 96.975 1653 41 4 1 1648 2489428 2491076 0.000000e+00 2767.0
10 TraesCS1D01G006000 chr1A 99.251 267 2 0 1645 1911 2513267 2513533 2.470000e-132 483.0
11 TraesCS1D01G006000 chr1A 91.489 188 15 1 4270 4456 574299802 574299615 1.630000e-64 257.0
12 TraesCS1D01G006000 chr1A 98.551 69 1 0 4140 4208 2520271 2520339 6.210000e-24 122.0
13 TraesCS1D01G006000 chr1B 86.059 2238 264 25 2063 4274 712872 715087 0.000000e+00 2361.0
14 TraesCS1D01G006000 chr1B 85.803 2247 283 20 1952 4176 1941949 1939717 0.000000e+00 2350.0
15 TraesCS1D01G006000 chr1B 85.422 2298 278 40 1912 4175 1810398 1808124 0.000000e+00 2335.0
16 TraesCS1D01G006000 chr1B 87.100 2031 231 21 2063 4075 717536 719553 0.000000e+00 2270.0
17 TraesCS1D01G006000 chr1B 85.865 1988 237 21 2127 4075 884161 882179 0.000000e+00 2074.0
18 TraesCS1D01G006000 chr1B 91.130 1195 103 2 828 2019 885361 884167 0.000000e+00 1616.0
19 TraesCS1D01G006000 chr1B 85.944 996 120 10 872 1860 1943052 1942070 0.000000e+00 1046.0
20 TraesCS1D01G006000 chr1B 88.018 893 93 8 948 1836 711737 712619 0.000000e+00 1044.0
21 TraesCS1D01G006000 chr1B 85.865 948 119 9 953 1895 1812056 1811119 0.000000e+00 994.0
22 TraesCS1D01G006000 chr1B 88.000 675 59 13 93 756 886136 885473 0.000000e+00 778.0
23 TraesCS1D01G006000 chr1B 90.862 383 35 0 1454 1836 716901 717283 8.770000e-142 514.0
24 TraesCS1D01G006000 chr7D 95.676 185 8 0 4271 4455 29807474 29807290 9.620000e-77 298.0
25 TraesCS1D01G006000 chr7D 95.906 171 7 0 4280 4450 152309564 152309734 1.250000e-70 278.0
26 TraesCS1D01G006000 chr7D 93.182 44 3 0 492 535 611319026 611319069 1.060000e-06 65.8
27 TraesCS1D01G006000 chr2B 95.604 182 8 0 4274 4455 354689799 354689980 4.480000e-75 292.0
28 TraesCS1D01G006000 chr2B 93.820 178 11 0 4278 4455 723776594 723776417 7.540000e-68 268.0
29 TraesCS1D01G006000 chr2B 92.391 184 14 0 4275 4458 493206788 493206605 3.510000e-66 263.0
30 TraesCS1D01G006000 chr3A 93.923 181 11 0 4278 4458 573854202 573854022 1.620000e-69 274.0
31 TraesCS1D01G006000 chr3A 76.333 300 63 7 1470 1765 710837477 710837772 2.200000e-33 154.0
32 TraesCS1D01G006000 chr5D 93.370 181 11 1 4275 4455 2786459 2786280 2.710000e-67 267.0
33 TraesCS1D01G006000 chr5D 80.368 163 30 2 23 185 95062878 95062718 6.210000e-24 122.0
34 TraesCS1D01G006000 chr3D 82.036 167 28 2 15 180 429314740 429314905 1.720000e-29 141.0
35 TraesCS1D01G006000 chr3D 81.657 169 28 3 454 620 104031526 104031359 2.220000e-28 137.0
36 TraesCS1D01G006000 chr3D 78.488 172 31 6 454 621 325515704 325515873 1.740000e-19 108.0
37 TraesCS1D01G006000 chr5A 79.891 184 30 5 1 179 89707183 89707002 1.340000e-25 128.0
38 TraesCS1D01G006000 chr4A 85.556 90 13 0 25 114 719420619 719420530 1.350000e-15 95.3
39 TraesCS1D01G006000 chr7A 83.750 80 11 2 457 535 612031202 612031124 1.760000e-09 75.0
40 TraesCS1D01G006000 chr2A 97.297 37 1 0 76 112 442668340 442668304 3.820000e-06 63.9
41 TraesCS1D01G006000 chr4B 100.000 29 0 0 491 519 582552140 582552168 2.000000e-03 54.7


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 TraesCS1D01G006000 chr1D 2715952 2720525 4573 False 8447.000000 8447 100.000000 1 4574 1 chr1D.!!$F1 4573
1 TraesCS1D01G006000 chr1D 2885557 2888771 3214 True 1750.500000 3260 85.535000 948 4110 2 chr1D.!!$R2 3162
2 TraesCS1D01G006000 chr1D 12534047 12535902 1855 False 1158.000000 1158 78.270000 2114 3954 1 chr1D.!!$F2 1840
3 TraesCS1D01G006000 chr1D 2477246 2477992 746 True 421.750000 763 91.194500 3573 4501 2 chr1D.!!$R1 928
4 TraesCS1D01G006000 chr1A 2438398 2441529 3131 True 3522.000000 3522 87.053000 939 4075 1 chr1A.!!$R1 3136
5 TraesCS1D01G006000 chr1A 2489428 2491076 1648 False 2767.000000 2767 96.975000 1 1648 1 chr1A.!!$F1 1647
6 TraesCS1D01G006000 chr1A 2518061 2520339 2278 False 1929.000000 3736 97.811500 1907 4208 2 chr1A.!!$F3 2301
7 TraesCS1D01G006000 chr1B 1939717 1943052 3335 True 1698.000000 2350 85.873500 872 4176 2 chr1B.!!$R3 3304
8 TraesCS1D01G006000 chr1B 1808124 1812056 3932 True 1664.500000 2335 85.643500 953 4175 2 chr1B.!!$R2 3222
9 TraesCS1D01G006000 chr1B 711737 719553 7816 False 1547.250000 2361 88.009750 948 4274 4 chr1B.!!$F1 3326
10 TraesCS1D01G006000 chr1B 882179 886136 3957 True 1489.333333 2074 88.331667 93 4075 3 chr1B.!!$R1 3982

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
650 663 0.801872 GGATAATGTGTGTGCGTGCA 59.198 50.000 0.0 0.0 0.0 4.57 F
1459 1611 3.089784 CGCACGCCAATGGTAGTC 58.910 61.111 0.0 0.0 0.0 2.59 F
1700 1856 0.248296 GCTTTTGTTTCCGTGTCGCA 60.248 50.000 0.0 0.0 0.0 5.10 F
2983 3957 0.251341 GTCAGAGCCCACCAACCATT 60.251 55.000 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1459 1611 1.431488 CGAGGGTCAATGGCATCACG 61.431 60.0 0.00 0.0 0.00 4.35 R
3357 4361 1.844687 ATTTTCCTGCCAGCTCTTCC 58.155 50.0 0.00 0.0 0.00 3.46 R
3480 4499 0.668401 GCATTTTTCGCAGCTTGCCT 60.668 50.0 3.09 0.0 41.12 4.75 R
4517 10207 0.037419 CGGCCTGGGTTTGGAATTTG 60.037 55.0 0.00 0.0 0.00 2.32 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
37 39 2.136878 CCACGGATCAGGGAGAGGG 61.137 68.421 0.00 0.00 0.00 4.30
132 134 4.035102 GTGGGTCACAGGGGGAGC 62.035 72.222 0.00 0.00 34.08 4.70
487 497 5.235831 GTCCTACACTTAACACTTGTGGTTC 59.764 44.000 5.72 0.00 36.16 3.62
489 499 4.230745 ACACTTAACACTTGTGGTTCCT 57.769 40.909 5.72 0.00 36.16 3.36
550 560 2.160205 CAGTGAGAGTAGACGTTCCCA 58.840 52.381 0.00 0.00 0.00 4.37
621 632 2.952978 CAGCTTAGTATCTCGGAGGTGT 59.047 50.000 4.96 0.00 32.75 4.16
623 634 4.024670 AGCTTAGTATCTCGGAGGTGTTT 58.975 43.478 4.96 0.00 0.00 2.83
624 635 5.067413 CAGCTTAGTATCTCGGAGGTGTTTA 59.933 44.000 4.96 0.00 32.75 2.01
625 636 5.834204 AGCTTAGTATCTCGGAGGTGTTTAT 59.166 40.000 4.96 0.00 0.00 1.40
626 637 7.002879 AGCTTAGTATCTCGGAGGTGTTTATA 58.997 38.462 4.96 0.00 0.00 0.98
650 663 0.801872 GGATAATGTGTGTGCGTGCA 59.198 50.000 0.00 0.00 0.00 4.57
1459 1611 3.089784 CGCACGCCAATGGTAGTC 58.910 61.111 0.00 0.00 0.00 2.59
1698 1854 2.285756 TGTAGCTTTTGTTTCCGTGTCG 59.714 45.455 0.00 0.00 0.00 4.35
1700 1856 0.248296 GCTTTTGTTTCCGTGTCGCA 60.248 50.000 0.00 0.00 0.00 5.10
1794 1950 2.760385 GCTGCTAGGGACGAGGGT 60.760 66.667 0.00 0.00 0.00 4.34
1809 1965 1.135333 GAGGGTCAACTCCTCGATGAC 59.865 57.143 7.43 7.43 42.73 3.06
1860 2073 3.122948 ACGTACGTAGCAGCAAAAGATTG 59.877 43.478 21.41 0.00 39.65 2.67
2073 3039 6.072175 TGCCACATCCTAATTAATTTATCGCC 60.072 38.462 5.91 0.00 0.00 5.54
2743 3717 5.489792 AGAAACTGGACTATTTGAGCTCA 57.510 39.130 13.74 13.74 0.00 4.26
2853 3827 4.999311 GTGCATGATATGGTGCTTGATCTA 59.001 41.667 0.00 0.00 41.78 1.98
2983 3957 0.251341 GTCAGAGCCCACCAACCATT 60.251 55.000 0.00 0.00 0.00 3.16
3134 4108 5.529060 GGAGAAATCACCACAGTATTGATCC 59.471 44.000 0.00 0.00 0.00 3.36
3367 4371 0.389166 GACGTCACTGGAAGAGCTGG 60.389 60.000 11.55 0.00 37.43 4.85
3440 4459 3.055094 GTGCTCCTCCTTTACTGGAATGA 60.055 47.826 0.00 0.00 35.43 2.57
3480 4499 6.215841 TGTGTAATTATTTGGTGGAGTCCCTA 59.784 38.462 6.74 0.00 0.00 3.53
3517 4536 7.530426 AAAATGCAGAGTCTAACAATTTCCT 57.470 32.000 0.00 0.00 0.00 3.36
3540 4562 2.507407 TAGGGGATGCAAGGTTTGAC 57.493 50.000 0.00 0.00 0.00 3.18
3828 9505 0.391661 GAGAGTGCCGCTTCCATGAA 60.392 55.000 0.00 0.00 0.00 2.57
3855 9532 0.474184 CGGGGCCATCTATGTTTCCT 59.526 55.000 4.39 0.00 0.00 3.36
3934 9611 1.610673 AGCGGTGACCTGGATGTCT 60.611 57.895 0.00 0.00 36.21 3.41
4112 9797 9.847224 TGAGTACTTTCTCTCAGGTTTATTTTT 57.153 29.630 0.00 0.00 36.04 1.94
4208 9898 2.577606 ACCCCAATGACAATGACGAA 57.422 45.000 0.00 0.00 0.00 3.85
4209 9899 3.085952 ACCCCAATGACAATGACGAAT 57.914 42.857 0.00 0.00 0.00 3.34
4219 9909 1.867233 CAATGACGAATGACGATCCCC 59.133 52.381 0.00 0.00 45.77 4.81
4245 9935 4.373116 GGTCAAGCTCCGGTCGCA 62.373 66.667 18.08 0.00 0.00 5.10
4258 9948 1.208614 GTCGCAGCTTGGCTTCTTG 59.791 57.895 0.00 0.00 36.40 3.02
4263 9953 0.386476 CAGCTTGGCTTCTTGTGCAA 59.614 50.000 0.00 0.00 36.40 4.08
4265 9955 0.598419 GCTTGGCTTCTTGTGCAACC 60.598 55.000 0.00 0.00 34.36 3.77
4280 9970 2.288213 TGCAACCGAGTGTGAGAGTTAG 60.288 50.000 0.00 0.00 0.00 2.34
4281 9971 2.927014 GCAACCGAGTGTGAGAGTTAGG 60.927 54.545 0.00 0.00 0.00 2.69
4282 9972 2.289592 ACCGAGTGTGAGAGTTAGGT 57.710 50.000 0.00 0.00 0.00 3.08
4283 9973 1.887198 ACCGAGTGTGAGAGTTAGGTG 59.113 52.381 0.00 0.00 0.00 4.00
4284 9974 1.202582 CCGAGTGTGAGAGTTAGGTGG 59.797 57.143 0.00 0.00 0.00 4.61
4285 9975 1.887198 CGAGTGTGAGAGTTAGGTGGT 59.113 52.381 0.00 0.00 0.00 4.16
4286 9976 2.351835 CGAGTGTGAGAGTTAGGTGGTG 60.352 54.545 0.00 0.00 0.00 4.17
4287 9977 2.628657 GAGTGTGAGAGTTAGGTGGTGT 59.371 50.000 0.00 0.00 0.00 4.16
4288 9978 3.039011 AGTGTGAGAGTTAGGTGGTGTT 58.961 45.455 0.00 0.00 0.00 3.32
4289 9979 3.454812 AGTGTGAGAGTTAGGTGGTGTTT 59.545 43.478 0.00 0.00 0.00 2.83
4290 9980 3.560068 GTGTGAGAGTTAGGTGGTGTTTG 59.440 47.826 0.00 0.00 0.00 2.93
4291 9981 3.139077 GTGAGAGTTAGGTGGTGTTTGG 58.861 50.000 0.00 0.00 0.00 3.28
4292 9982 2.775384 TGAGAGTTAGGTGGTGTTTGGT 59.225 45.455 0.00 0.00 0.00 3.67
4293 9983 3.201266 TGAGAGTTAGGTGGTGTTTGGTT 59.799 43.478 0.00 0.00 0.00 3.67
4294 9984 3.813724 GAGAGTTAGGTGGTGTTTGGTTC 59.186 47.826 0.00 0.00 0.00 3.62
4295 9985 3.458487 AGAGTTAGGTGGTGTTTGGTTCT 59.542 43.478 0.00 0.00 0.00 3.01
4296 9986 4.079958 AGAGTTAGGTGGTGTTTGGTTCTT 60.080 41.667 0.00 0.00 0.00 2.52
4297 9987 4.606210 AGTTAGGTGGTGTTTGGTTCTTT 58.394 39.130 0.00 0.00 0.00 2.52
4298 9988 5.757988 AGTTAGGTGGTGTTTGGTTCTTTA 58.242 37.500 0.00 0.00 0.00 1.85
4299 9989 5.826208 AGTTAGGTGGTGTTTGGTTCTTTAG 59.174 40.000 0.00 0.00 0.00 1.85
4300 9990 4.245251 AGGTGGTGTTTGGTTCTTTAGT 57.755 40.909 0.00 0.00 0.00 2.24
4301 9991 4.204799 AGGTGGTGTTTGGTTCTTTAGTC 58.795 43.478 0.00 0.00 0.00 2.59
4302 9992 3.317149 GGTGGTGTTTGGTTCTTTAGTCC 59.683 47.826 0.00 0.00 0.00 3.85
4303 9993 4.204799 GTGGTGTTTGGTTCTTTAGTCCT 58.795 43.478 0.00 0.00 0.00 3.85
4304 9994 5.370679 GTGGTGTTTGGTTCTTTAGTCCTA 58.629 41.667 0.00 0.00 0.00 2.94
4305 9995 5.469084 GTGGTGTTTGGTTCTTTAGTCCTAG 59.531 44.000 0.00 0.00 0.00 3.02
4306 9996 5.001874 GGTGTTTGGTTCTTTAGTCCTAGG 58.998 45.833 0.82 0.82 0.00 3.02
4307 9997 5.221783 GGTGTTTGGTTCTTTAGTCCTAGGA 60.222 44.000 7.62 7.62 0.00 2.94
4308 9998 5.699915 GTGTTTGGTTCTTTAGTCCTAGGAC 59.300 44.000 31.29 31.29 44.86 3.85
4355 10045 2.849294 AAAGACTCTCAAGGAGGTGC 57.151 50.000 0.00 0.00 45.83 5.01
4356 10046 2.022718 AAGACTCTCAAGGAGGTGCT 57.977 50.000 0.00 0.00 45.83 4.40
4357 10047 2.022718 AGACTCTCAAGGAGGTGCTT 57.977 50.000 0.00 0.00 45.83 3.91
4358 10048 1.899142 AGACTCTCAAGGAGGTGCTTC 59.101 52.381 0.00 0.00 45.83 3.86
4359 10049 1.899142 GACTCTCAAGGAGGTGCTTCT 59.101 52.381 0.00 0.00 45.83 2.85
4360 10050 3.093057 GACTCTCAAGGAGGTGCTTCTA 58.907 50.000 0.00 0.00 45.83 2.10
4361 10051 3.511477 ACTCTCAAGGAGGTGCTTCTAA 58.489 45.455 0.00 0.00 45.83 2.10
4362 10052 3.513515 ACTCTCAAGGAGGTGCTTCTAAG 59.486 47.826 0.00 0.00 45.83 2.18
4363 10053 2.834549 TCTCAAGGAGGTGCTTCTAAGG 59.165 50.000 0.00 0.00 0.00 2.69
4364 10054 2.834549 CTCAAGGAGGTGCTTCTAAGGA 59.165 50.000 0.00 0.00 0.00 3.36
4365 10055 2.567615 TCAAGGAGGTGCTTCTAAGGAC 59.432 50.000 5.86 5.86 45.39 3.85
4366 10056 2.569404 CAAGGAGGTGCTTCTAAGGACT 59.431 50.000 13.12 1.24 45.42 3.85
4367 10057 2.909217 AGGAGGTGCTTCTAAGGACTT 58.091 47.619 13.12 6.52 45.42 3.01
4368 10058 3.252351 AGGAGGTGCTTCTAAGGACTTT 58.748 45.455 13.12 3.63 45.42 2.66
4369 10059 3.653352 AGGAGGTGCTTCTAAGGACTTTT 59.347 43.478 13.12 1.47 45.42 2.27
4370 10060 4.844655 AGGAGGTGCTTCTAAGGACTTTTA 59.155 41.667 13.12 0.00 45.42 1.52
4371 10061 5.046231 AGGAGGTGCTTCTAAGGACTTTTAG 60.046 44.000 13.12 0.00 45.42 1.85
4372 10062 4.580868 AGGTGCTTCTAAGGACTTTTAGC 58.419 43.478 13.12 0.00 45.42 3.09
4373 10063 4.041691 AGGTGCTTCTAAGGACTTTTAGCA 59.958 41.667 13.12 9.74 45.42 3.49
4374 10064 4.760204 GGTGCTTCTAAGGACTTTTAGCAA 59.240 41.667 13.12 1.75 45.42 3.91
4375 10065 5.240844 GGTGCTTCTAAGGACTTTTAGCAAA 59.759 40.000 13.12 0.00 45.42 3.68
4376 10066 6.238925 GGTGCTTCTAAGGACTTTTAGCAAAA 60.239 38.462 13.12 0.00 45.42 2.44
4377 10067 7.200455 GTGCTTCTAAGGACTTTTAGCAAAAA 58.800 34.615 7.07 0.00 43.15 1.94
4388 10078 6.013842 CTTTTAGCAAAAAGTCCTACCCTG 57.986 41.667 3.06 0.00 44.36 4.45
4389 10079 4.717279 TTAGCAAAAAGTCCTACCCTGT 57.283 40.909 0.00 0.00 0.00 4.00
4390 10080 3.595190 AGCAAAAAGTCCTACCCTGTT 57.405 42.857 0.00 0.00 0.00 3.16
4391 10081 3.910989 AGCAAAAAGTCCTACCCTGTTT 58.089 40.909 0.00 0.00 0.00 2.83
4392 10082 3.636764 AGCAAAAAGTCCTACCCTGTTTG 59.363 43.478 0.00 0.00 39.24 2.93
4393 10083 3.243737 GCAAAAAGTCCTACCCTGTTTGG 60.244 47.826 5.49 0.00 37.53 3.28
4394 10084 3.958147 CAAAAAGTCCTACCCTGTTTGGT 59.042 43.478 0.00 0.00 42.62 3.67
4395 10085 3.965470 AAAGTCCTACCCTGTTTGGTT 57.035 42.857 0.00 0.00 39.91 3.67
4396 10086 3.965470 AAGTCCTACCCTGTTTGGTTT 57.035 42.857 0.00 0.00 39.91 3.27
4397 10087 3.223674 AGTCCTACCCTGTTTGGTTTG 57.776 47.619 0.00 0.00 39.91 2.93
4398 10088 1.611977 GTCCTACCCTGTTTGGTTTGC 59.388 52.381 0.00 0.00 39.91 3.68
4399 10089 1.497286 TCCTACCCTGTTTGGTTTGCT 59.503 47.619 0.00 0.00 39.91 3.91
4400 10090 2.712087 TCCTACCCTGTTTGGTTTGCTA 59.288 45.455 0.00 0.00 39.91 3.49
4401 10091 3.081804 CCTACCCTGTTTGGTTTGCTAG 58.918 50.000 0.00 0.00 39.91 3.42
4402 10092 1.995376 ACCCTGTTTGGTTTGCTAGG 58.005 50.000 0.00 0.00 33.91 3.02
4403 10093 1.256812 CCCTGTTTGGTTTGCTAGGG 58.743 55.000 0.00 0.00 38.96 3.53
4404 10094 1.203001 CCCTGTTTGGTTTGCTAGGGA 60.203 52.381 0.00 0.00 46.19 4.20
4405 10095 1.886542 CCTGTTTGGTTTGCTAGGGAC 59.113 52.381 0.00 0.00 0.00 4.46
4406 10096 2.489073 CCTGTTTGGTTTGCTAGGGACT 60.489 50.000 0.00 0.00 46.37 3.85
4407 10097 3.222603 CTGTTTGGTTTGCTAGGGACTT 58.777 45.455 0.00 0.00 41.75 3.01
4408 10098 3.636764 CTGTTTGGTTTGCTAGGGACTTT 59.363 43.478 0.00 0.00 41.75 2.66
4409 10099 4.027437 TGTTTGGTTTGCTAGGGACTTTT 58.973 39.130 0.00 0.00 41.75 2.27
4410 10100 4.468153 TGTTTGGTTTGCTAGGGACTTTTT 59.532 37.500 0.00 0.00 41.75 1.94
4411 10101 4.929819 TTGGTTTGCTAGGGACTTTTTC 57.070 40.909 0.00 0.00 41.75 2.29
4412 10102 4.178956 TGGTTTGCTAGGGACTTTTTCT 57.821 40.909 0.00 0.00 41.75 2.52
4413 10103 5.313280 TGGTTTGCTAGGGACTTTTTCTA 57.687 39.130 0.00 0.00 41.75 2.10
4414 10104 5.313712 TGGTTTGCTAGGGACTTTTTCTAG 58.686 41.667 0.00 0.00 41.75 2.43
4415 10105 5.163131 TGGTTTGCTAGGGACTTTTTCTAGT 60.163 40.000 0.00 0.00 41.75 2.57
4416 10106 5.411977 GGTTTGCTAGGGACTTTTTCTAGTC 59.588 44.000 0.00 0.00 43.05 2.59
4447 10137 4.415881 AAAATTCCCTGGAACCAAACAC 57.584 40.909 0.00 0.00 36.91 3.32
4448 10138 2.009681 ATTCCCTGGAACCAAACACC 57.990 50.000 0.00 0.00 36.91 4.16
4449 10139 0.105913 TTCCCTGGAACCAAACACCC 60.106 55.000 0.00 0.00 0.00 4.61
4450 10140 1.533033 CCCTGGAACCAAACACCCC 60.533 63.158 0.00 0.00 0.00 4.95
4451 10141 1.533033 CCTGGAACCAAACACCCCC 60.533 63.158 0.00 0.00 0.00 5.40
4452 10142 1.541672 CTGGAACCAAACACCCCCT 59.458 57.895 0.00 0.00 0.00 4.79
4453 10143 0.105709 CTGGAACCAAACACCCCCTT 60.106 55.000 0.00 0.00 0.00 3.95
4454 10144 1.146152 CTGGAACCAAACACCCCCTTA 59.854 52.381 0.00 0.00 0.00 2.69
4466 10156 1.149986 CCCCCTTATTCCCTCCCTTC 58.850 60.000 0.00 0.00 0.00 3.46
4498 10188 2.227388 AGCTGTTTCGGAGCAAATTCTG 59.773 45.455 0.00 0.00 39.05 3.02
4501 10191 2.552315 TGTTTCGGAGCAAATTCTGGAC 59.448 45.455 0.00 0.00 0.00 4.02
4502 10192 1.821216 TTCGGAGCAAATTCTGGACC 58.179 50.000 0.00 0.00 0.00 4.46
4503 10193 0.984230 TCGGAGCAAATTCTGGACCT 59.016 50.000 0.00 0.00 0.00 3.85
4504 10194 1.089920 CGGAGCAAATTCTGGACCTG 58.910 55.000 0.00 0.00 0.00 4.00
4505 10195 1.611673 CGGAGCAAATTCTGGACCTGT 60.612 52.381 0.00 0.00 0.00 4.00
4506 10196 1.815003 GGAGCAAATTCTGGACCTGTG 59.185 52.381 0.00 0.00 0.00 3.66
4507 10197 2.508526 GAGCAAATTCTGGACCTGTGT 58.491 47.619 0.00 0.00 0.00 3.72
4508 10198 3.559171 GGAGCAAATTCTGGACCTGTGTA 60.559 47.826 0.00 0.00 0.00 2.90
4509 10199 4.072131 GAGCAAATTCTGGACCTGTGTAA 58.928 43.478 0.00 0.00 0.00 2.41
4510 10200 4.666512 AGCAAATTCTGGACCTGTGTAAT 58.333 39.130 0.00 0.00 0.00 1.89
4511 10201 5.815581 AGCAAATTCTGGACCTGTGTAATA 58.184 37.500 0.00 0.00 0.00 0.98
4512 10202 6.426587 AGCAAATTCTGGACCTGTGTAATAT 58.573 36.000 0.00 0.00 0.00 1.28
4513 10203 6.543831 AGCAAATTCTGGACCTGTGTAATATC 59.456 38.462 0.00 0.00 0.00 1.63
4514 10204 6.543831 GCAAATTCTGGACCTGTGTAATATCT 59.456 38.462 0.00 0.00 0.00 1.98
4515 10205 7.467811 GCAAATTCTGGACCTGTGTAATATCTG 60.468 40.741 0.00 0.00 0.00 2.90
4516 10206 5.614324 TTCTGGACCTGTGTAATATCTGG 57.386 43.478 0.00 0.00 0.00 3.86
4517 10207 3.388024 TCTGGACCTGTGTAATATCTGGC 59.612 47.826 0.00 0.00 0.00 4.85
4518 10208 3.111484 TGGACCTGTGTAATATCTGGCA 58.889 45.455 0.00 0.00 0.00 4.92
4519 10209 3.521531 TGGACCTGTGTAATATCTGGCAA 59.478 43.478 0.00 0.00 0.00 4.52
4520 10210 4.018870 TGGACCTGTGTAATATCTGGCAAA 60.019 41.667 0.00 0.00 0.00 3.68
4521 10211 5.133221 GGACCTGTGTAATATCTGGCAAAT 58.867 41.667 0.00 0.00 0.00 2.32
4522 10212 5.594317 GGACCTGTGTAATATCTGGCAAATT 59.406 40.000 0.00 0.00 0.00 1.82
4523 10213 6.238759 GGACCTGTGTAATATCTGGCAAATTC 60.239 42.308 0.00 0.00 0.00 2.17
4524 10214 5.594317 ACCTGTGTAATATCTGGCAAATTCC 59.406 40.000 0.00 0.00 0.00 3.01
4525 10215 5.593909 CCTGTGTAATATCTGGCAAATTCCA 59.406 40.000 0.00 0.00 34.42 3.53
4526 10216 6.096705 CCTGTGTAATATCTGGCAAATTCCAA 59.903 38.462 0.00 0.00 35.36 3.53
4527 10217 7.363705 CCTGTGTAATATCTGGCAAATTCCAAA 60.364 37.037 0.00 0.00 35.36 3.28
4528 10218 7.319646 TGTGTAATATCTGGCAAATTCCAAAC 58.680 34.615 0.00 0.00 35.36 2.93
4529 10219 6.756542 GTGTAATATCTGGCAAATTCCAAACC 59.243 38.462 0.00 0.00 35.36 3.27
4530 10220 5.357742 AATATCTGGCAAATTCCAAACCC 57.642 39.130 0.00 0.00 35.36 4.11
4531 10221 2.094100 TCTGGCAAATTCCAAACCCA 57.906 45.000 0.00 0.00 35.36 4.51
4532 10222 1.969923 TCTGGCAAATTCCAAACCCAG 59.030 47.619 0.00 0.00 40.84 4.45
4533 10223 1.002315 CTGGCAAATTCCAAACCCAGG 59.998 52.381 0.00 0.00 36.94 4.45
4534 10224 0.321564 GGCAAATTCCAAACCCAGGC 60.322 55.000 0.00 0.00 0.00 4.85
4535 10225 0.321564 GCAAATTCCAAACCCAGGCC 60.322 55.000 0.00 0.00 0.00 5.19
4536 10226 0.037419 CAAATTCCAAACCCAGGCCG 60.037 55.000 0.00 0.00 0.00 6.13
4537 10227 1.826340 AAATTCCAAACCCAGGCCGC 61.826 55.000 0.00 0.00 0.00 6.53
4538 10228 3.521765 ATTCCAAACCCAGGCCGCA 62.522 57.895 0.00 0.00 0.00 5.69
4539 10229 3.740495 TTCCAAACCCAGGCCGCAA 62.740 57.895 0.00 0.00 0.00 4.85
4540 10230 2.996734 CCAAACCCAGGCCGCAAT 60.997 61.111 0.00 0.00 0.00 3.56
4541 10231 2.582493 CCAAACCCAGGCCGCAATT 61.582 57.895 0.00 0.00 0.00 2.32
4542 10232 1.079888 CAAACCCAGGCCGCAATTC 60.080 57.895 0.00 0.00 0.00 2.17
4543 10233 2.282783 AAACCCAGGCCGCAATTCC 61.283 57.895 0.00 0.00 0.00 3.01
4544 10234 4.759205 ACCCAGGCCGCAATTCCC 62.759 66.667 0.00 0.00 0.00 3.97
4550 10240 3.439540 GCCGCAATTCCCGCAGAA 61.440 61.111 0.00 0.00 39.32 3.02
4552 10242 1.356624 CCGCAATTCCCGCAGAATC 59.643 57.895 0.00 0.00 44.75 2.52
4553 10243 1.356624 CGCAATTCCCGCAGAATCC 59.643 57.895 0.00 0.00 44.75 3.01
4554 10244 1.375853 CGCAATTCCCGCAGAATCCA 61.376 55.000 0.00 0.00 44.75 3.41
4555 10245 0.383231 GCAATTCCCGCAGAATCCAG 59.617 55.000 0.00 0.00 44.75 3.86
4556 10246 0.383231 CAATTCCCGCAGAATCCAGC 59.617 55.000 0.00 0.00 44.75 4.85
4562 10252 2.899339 GCAGAATCCAGCGCCCTC 60.899 66.667 2.29 0.00 0.00 4.30
4563 10253 2.587194 CAGAATCCAGCGCCCTCG 60.587 66.667 2.29 0.00 39.07 4.63
4564 10254 2.759973 AGAATCCAGCGCCCTCGA 60.760 61.111 2.29 0.00 38.10 4.04
4565 10255 2.136878 AGAATCCAGCGCCCTCGAT 61.137 57.895 2.29 0.00 38.10 3.59
4566 10256 1.666234 GAATCCAGCGCCCTCGATC 60.666 63.158 2.29 0.00 38.10 3.69
4567 10257 2.093537 GAATCCAGCGCCCTCGATCT 62.094 60.000 2.29 0.00 38.10 2.75
4568 10258 2.374830 AATCCAGCGCCCTCGATCTG 62.375 60.000 2.29 0.00 38.10 2.90
4569 10259 4.598894 CCAGCGCCCTCGATCTGG 62.599 72.222 2.29 0.00 38.78 3.86
4570 10260 3.531207 CAGCGCCCTCGATCTGGA 61.531 66.667 2.29 0.00 38.10 3.86
4571 10261 3.532155 AGCGCCCTCGATCTGGAC 61.532 66.667 2.29 0.00 38.10 4.02
4572 10262 4.593864 GCGCCCTCGATCTGGACC 62.594 72.222 0.00 0.00 38.10 4.46
4573 10263 2.835431 CGCCCTCGATCTGGACCT 60.835 66.667 3.53 0.00 38.10 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 21 2.136878 CCCTCTCCCTGATCCGTGG 61.137 68.421 0.00 0.00 0.00 4.94
22 24 1.532794 CCTCCCTCTCCCTGATCCG 60.533 68.421 0.00 0.00 0.00 4.18
132 134 4.421479 AACCGCCGTCGCTGAGAG 62.421 66.667 0.00 0.00 0.00 3.20
450 460 2.901839 GTGTAGGACTTGAACCCTGGTA 59.098 50.000 0.00 0.00 34.11 3.25
550 560 4.678287 CGTCATATACGCCTTTGTAACGAT 59.322 41.667 0.00 0.00 46.10 3.73
601 612 3.300239 ACACCTCCGAGATACTAAGCT 57.700 47.619 0.00 0.00 0.00 3.74
623 634 7.704899 GCACGCACACACATTATCCTATATATA 59.295 37.037 0.00 0.00 0.00 0.86
624 635 6.535150 GCACGCACACACATTATCCTATATAT 59.465 38.462 0.00 0.00 0.00 0.86
625 636 5.867174 GCACGCACACACATTATCCTATATA 59.133 40.000 0.00 0.00 0.00 0.86
626 637 4.690748 GCACGCACACACATTATCCTATAT 59.309 41.667 0.00 0.00 0.00 0.86
636 647 3.065233 CCTATAAATGCACGCACACACAT 59.935 43.478 0.00 0.00 0.00 3.21
1459 1611 1.431488 CGAGGGTCAATGGCATCACG 61.431 60.000 0.00 0.00 0.00 4.35
1698 1854 2.408271 TGGTCATGTCAGGATTCTGC 57.592 50.000 0.00 0.00 40.69 4.26
1700 1856 5.447778 AATCTTGGTCATGTCAGGATTCT 57.552 39.130 16.74 4.14 36.60 2.40
1860 2073 3.312697 GGTCGCCTGGAAAGAATAATGAC 59.687 47.826 0.00 0.00 0.00 3.06
2049 3015 6.322491 GGCGATAAATTAATTAGGATGTGGC 58.678 40.000 0.01 0.00 0.00 5.01
2466 3439 9.206690 TCTATCTGTAGATCTTGACCATTTCTT 57.793 33.333 0.00 0.00 36.05 2.52
2638 3612 9.632638 CCTTATCTCAAAATCCTCTGGAAATAA 57.367 33.333 0.00 0.00 34.34 1.40
2743 3717 5.163663 CGAGCTCATTGAAGTAACTCTCTCT 60.164 44.000 15.40 0.00 0.00 3.10
2853 3827 5.630121 TGTTCACTGGACAAGGAACATAAT 58.370 37.500 11.89 0.00 39.30 1.28
2983 3957 2.445427 CATACTTGTGGCATTGACCCA 58.555 47.619 0.00 0.00 0.00 4.51
3134 4108 8.299570 GGTGTAATAAATTCTCAATATGCCTGG 58.700 37.037 0.00 0.00 0.00 4.45
3357 4361 1.844687 ATTTTCCTGCCAGCTCTTCC 58.155 50.000 0.00 0.00 0.00 3.46
3367 4371 2.562298 TCACATCCACCAATTTTCCTGC 59.438 45.455 0.00 0.00 0.00 4.85
3440 4459 4.456280 TTACACATGCTCTCATCGTTCT 57.544 40.909 0.00 0.00 0.00 3.01
3480 4499 0.668401 GCATTTTTCGCAGCTTGCCT 60.668 50.000 3.09 0.00 41.12 4.75
3517 4536 2.896685 CAAACCTTGCATCCCCTAAACA 59.103 45.455 0.00 0.00 0.00 2.83
3540 4562 1.746615 CCAACCATCCCAGCTGACG 60.747 63.158 17.39 4.69 0.00 4.35
3828 9505 1.507140 TAGATGGCCCCGTGAGAAAT 58.493 50.000 0.00 0.00 0.00 2.17
3855 9532 1.555075 AGTTTTGGCATAGCTCCTCGA 59.445 47.619 0.00 0.00 0.00 4.04
3955 9634 4.122046 AGGTAAACACCGACTTGTTGTAC 58.878 43.478 0.00 0.00 39.70 2.90
4208 9898 1.221840 GCACACAGGGGATCGTCAT 59.778 57.895 0.00 0.00 0.00 3.06
4209 9899 2.662596 GCACACAGGGGATCGTCA 59.337 61.111 0.00 0.00 0.00 4.35
4219 9909 2.281070 AGCTTGACCGGCACACAG 60.281 61.111 0.00 4.47 0.00 3.66
4242 9932 1.081641 CACAAGAAGCCAAGCTGCG 60.082 57.895 0.00 0.00 39.64 5.18
4245 9935 0.386838 GTTGCACAAGAAGCCAAGCT 59.613 50.000 0.00 0.00 42.56 3.74
4258 9948 0.249489 ACTCTCACACTCGGTTGCAC 60.249 55.000 0.00 0.00 0.00 4.57
4263 9953 1.887198 CACCTAACTCTCACACTCGGT 59.113 52.381 0.00 0.00 0.00 4.69
4265 9955 1.887198 ACCACCTAACTCTCACACTCG 59.113 52.381 0.00 0.00 0.00 4.18
4280 9970 3.317149 GGACTAAAGAACCAAACACCACC 59.683 47.826 0.00 0.00 0.00 4.61
4281 9971 4.204799 AGGACTAAAGAACCAAACACCAC 58.795 43.478 0.00 0.00 0.00 4.16
4282 9972 4.513406 AGGACTAAAGAACCAAACACCA 57.487 40.909 0.00 0.00 0.00 4.17
4283 9973 5.001874 CCTAGGACTAAAGAACCAAACACC 58.998 45.833 1.05 0.00 0.00 4.16
4284 9974 5.699915 GTCCTAGGACTAAAGAACCAAACAC 59.300 44.000 31.12 2.21 41.57 3.32
4285 9975 5.861727 GTCCTAGGACTAAAGAACCAAACA 58.138 41.667 31.12 0.00 41.57 2.83
4334 10024 3.137360 AGCACCTCCTTGAGAGTCTTTTT 59.863 43.478 0.00 0.00 41.47 1.94
4335 10025 2.708325 AGCACCTCCTTGAGAGTCTTTT 59.292 45.455 0.00 0.00 41.47 2.27
4336 10026 2.334023 AGCACCTCCTTGAGAGTCTTT 58.666 47.619 0.00 0.00 41.47 2.52
4337 10027 2.022718 AGCACCTCCTTGAGAGTCTT 57.977 50.000 0.00 0.00 41.47 3.01
4338 10028 1.899142 GAAGCACCTCCTTGAGAGTCT 59.101 52.381 0.00 0.00 41.47 3.24
4339 10029 1.899142 AGAAGCACCTCCTTGAGAGTC 59.101 52.381 0.00 0.00 41.47 3.36
4340 10030 2.022718 AGAAGCACCTCCTTGAGAGT 57.977 50.000 0.00 0.00 41.47 3.24
4341 10031 3.118811 CCTTAGAAGCACCTCCTTGAGAG 60.119 52.174 0.00 0.00 42.83 3.20
4342 10032 2.834549 CCTTAGAAGCACCTCCTTGAGA 59.165 50.000 0.00 0.00 0.00 3.27
4343 10033 2.834549 TCCTTAGAAGCACCTCCTTGAG 59.165 50.000 0.00 0.00 0.00 3.02
4344 10034 2.567615 GTCCTTAGAAGCACCTCCTTGA 59.432 50.000 0.00 0.00 0.00 3.02
4345 10035 2.569404 AGTCCTTAGAAGCACCTCCTTG 59.431 50.000 0.00 0.00 0.00 3.61
4346 10036 2.909217 AGTCCTTAGAAGCACCTCCTT 58.091 47.619 0.00 0.00 0.00 3.36
4347 10037 2.632763 AGTCCTTAGAAGCACCTCCT 57.367 50.000 0.00 0.00 0.00 3.69
4348 10038 3.704800 AAAGTCCTTAGAAGCACCTCC 57.295 47.619 0.00 0.00 0.00 4.30
4349 10039 4.632251 GCTAAAAGTCCTTAGAAGCACCTC 59.368 45.833 0.00 0.00 31.59 3.85
4350 10040 4.041691 TGCTAAAAGTCCTTAGAAGCACCT 59.958 41.667 6.73 0.00 31.59 4.00
4351 10041 4.324267 TGCTAAAAGTCCTTAGAAGCACC 58.676 43.478 6.73 0.00 31.59 5.01
4352 10042 5.941948 TTGCTAAAAGTCCTTAGAAGCAC 57.058 39.130 9.21 0.00 31.59 4.40
4353 10043 6.952773 TTTTGCTAAAAGTCCTTAGAAGCA 57.047 33.333 6.73 6.73 31.59 3.91
4354 10044 7.859613 CTTTTTGCTAAAAGTCCTTAGAAGC 57.140 36.000 20.79 0.00 43.34 3.86
4366 10056 5.451354 ACAGGGTAGGACTTTTTGCTAAAA 58.549 37.500 5.93 5.93 28.34 1.52
4367 10057 5.056553 ACAGGGTAGGACTTTTTGCTAAA 57.943 39.130 0.00 0.00 28.34 1.85
4368 10058 4.717279 ACAGGGTAGGACTTTTTGCTAA 57.283 40.909 0.00 0.00 28.34 3.09
4369 10059 4.717279 AACAGGGTAGGACTTTTTGCTA 57.283 40.909 0.00 0.00 0.00 3.49
4370 10060 3.595190 AACAGGGTAGGACTTTTTGCT 57.405 42.857 0.00 0.00 0.00 3.91
4371 10061 3.243737 CCAAACAGGGTAGGACTTTTTGC 60.244 47.826 0.00 0.00 35.41 3.68
4372 10062 3.958147 ACCAAACAGGGTAGGACTTTTTG 59.042 43.478 0.00 0.00 43.89 2.44
4373 10063 4.259933 ACCAAACAGGGTAGGACTTTTT 57.740 40.909 0.00 0.00 43.89 1.94
4374 10064 3.965470 ACCAAACAGGGTAGGACTTTT 57.035 42.857 0.00 0.00 43.89 2.27
4375 10065 3.958147 CAAACCAAACAGGGTAGGACTTT 59.042 43.478 0.00 0.00 41.32 2.66
4376 10066 3.562182 CAAACCAAACAGGGTAGGACTT 58.438 45.455 0.00 0.00 41.32 3.01
4377 10067 2.751816 GCAAACCAAACAGGGTAGGACT 60.752 50.000 0.00 0.00 41.32 3.85
4378 10068 1.611977 GCAAACCAAACAGGGTAGGAC 59.388 52.381 0.00 0.00 41.32 3.85
4379 10069 1.497286 AGCAAACCAAACAGGGTAGGA 59.503 47.619 0.00 0.00 41.32 2.94
4380 10070 1.995376 AGCAAACCAAACAGGGTAGG 58.005 50.000 0.00 0.00 41.32 3.18
4381 10071 3.081804 CCTAGCAAACCAAACAGGGTAG 58.918 50.000 0.00 0.00 41.32 3.18
4382 10072 2.224917 CCCTAGCAAACCAAACAGGGTA 60.225 50.000 0.00 0.00 41.32 3.69
4383 10073 1.480498 CCCTAGCAAACCAAACAGGGT 60.480 52.381 0.00 0.00 45.04 4.34
4384 10074 1.203001 TCCCTAGCAAACCAAACAGGG 60.203 52.381 0.00 0.00 43.52 4.45
4385 10075 1.886542 GTCCCTAGCAAACCAAACAGG 59.113 52.381 0.00 0.00 45.67 4.00
4386 10076 2.863809 AGTCCCTAGCAAACCAAACAG 58.136 47.619 0.00 0.00 0.00 3.16
4387 10077 3.306472 AAGTCCCTAGCAAACCAAACA 57.694 42.857 0.00 0.00 0.00 2.83
4388 10078 4.665833 AAAAGTCCCTAGCAAACCAAAC 57.334 40.909 0.00 0.00 0.00 2.93
4389 10079 4.959839 AGAAAAAGTCCCTAGCAAACCAAA 59.040 37.500 0.00 0.00 0.00 3.28
4390 10080 4.542697 AGAAAAAGTCCCTAGCAAACCAA 58.457 39.130 0.00 0.00 0.00 3.67
4391 10081 4.178956 AGAAAAAGTCCCTAGCAAACCA 57.821 40.909 0.00 0.00 0.00 3.67
4392 10082 5.314529 ACTAGAAAAAGTCCCTAGCAAACC 58.685 41.667 0.00 0.00 34.70 3.27
4393 10083 6.483385 GACTAGAAAAAGTCCCTAGCAAAC 57.517 41.667 0.00 0.00 40.06 2.93
4425 10115 4.384757 GGTGTTTGGTTCCAGGGAATTTTT 60.385 41.667 3.73 0.00 36.45 1.94
4426 10116 3.135712 GGTGTTTGGTTCCAGGGAATTTT 59.864 43.478 3.73 0.00 36.45 1.82
4427 10117 2.703536 GGTGTTTGGTTCCAGGGAATTT 59.296 45.455 3.73 0.00 36.45 1.82
4428 10118 2.325484 GGTGTTTGGTTCCAGGGAATT 58.675 47.619 3.73 0.00 36.45 2.17
4429 10119 1.482365 GGGTGTTTGGTTCCAGGGAAT 60.482 52.381 3.73 0.00 36.45 3.01
4430 10120 0.105913 GGGTGTTTGGTTCCAGGGAA 60.106 55.000 0.00 0.00 0.00 3.97
4431 10121 1.539665 GGGTGTTTGGTTCCAGGGA 59.460 57.895 0.00 0.00 0.00 4.20
4432 10122 1.533033 GGGGTGTTTGGTTCCAGGG 60.533 63.158 0.00 0.00 0.00 4.45
4433 10123 1.533033 GGGGGTGTTTGGTTCCAGG 60.533 63.158 0.00 0.00 0.00 4.45
4434 10124 0.105709 AAGGGGGTGTTTGGTTCCAG 60.106 55.000 0.00 0.00 0.00 3.86
4435 10125 1.232909 TAAGGGGGTGTTTGGTTCCA 58.767 50.000 0.00 0.00 0.00 3.53
4436 10126 2.615986 ATAAGGGGGTGTTTGGTTCC 57.384 50.000 0.00 0.00 0.00 3.62
4437 10127 2.829720 GGAATAAGGGGGTGTTTGGTTC 59.170 50.000 0.00 0.00 0.00 3.62
4438 10128 2.493875 GGGAATAAGGGGGTGTTTGGTT 60.494 50.000 0.00 0.00 0.00 3.67
4439 10129 1.078159 GGGAATAAGGGGGTGTTTGGT 59.922 52.381 0.00 0.00 0.00 3.67
4440 10130 1.361197 AGGGAATAAGGGGGTGTTTGG 59.639 52.381 0.00 0.00 0.00 3.28
4441 10131 2.623239 GGAGGGAATAAGGGGGTGTTTG 60.623 54.545 0.00 0.00 0.00 2.93
4442 10132 1.644337 GGAGGGAATAAGGGGGTGTTT 59.356 52.381 0.00 0.00 0.00 2.83
4443 10133 1.305886 GGAGGGAATAAGGGGGTGTT 58.694 55.000 0.00 0.00 0.00 3.32
4444 10134 0.626574 GGGAGGGAATAAGGGGGTGT 60.627 60.000 0.00 0.00 0.00 4.16
4445 10135 0.328548 AGGGAGGGAATAAGGGGGTG 60.329 60.000 0.00 0.00 0.00 4.61
4446 10136 0.430196 AAGGGAGGGAATAAGGGGGT 59.570 55.000 0.00 0.00 0.00 4.95
4447 10137 1.149986 GAAGGGAGGGAATAAGGGGG 58.850 60.000 0.00 0.00 0.00 5.40
4448 10138 0.765510 CGAAGGGAGGGAATAAGGGG 59.234 60.000 0.00 0.00 0.00 4.79
4449 10139 1.416772 GTCGAAGGGAGGGAATAAGGG 59.583 57.143 0.00 0.00 0.00 3.95
4450 10140 1.068741 CGTCGAAGGGAGGGAATAAGG 59.931 57.143 0.00 0.00 0.00 2.69
4451 10141 1.755380 ACGTCGAAGGGAGGGAATAAG 59.245 52.381 0.00 0.00 34.85 1.73
4452 10142 1.856629 ACGTCGAAGGGAGGGAATAA 58.143 50.000 0.00 0.00 34.85 1.40
4453 10143 1.753073 GAACGTCGAAGGGAGGGAATA 59.247 52.381 0.00 0.00 34.85 1.75
4454 10144 0.535797 GAACGTCGAAGGGAGGGAAT 59.464 55.000 0.00 0.00 34.85 3.01
4466 10156 0.784778 GAAACAGCTCCAGAACGTCG 59.215 55.000 0.00 0.00 0.00 5.12
4498 10188 3.838244 TGCCAGATATTACACAGGTCC 57.162 47.619 0.00 0.00 0.00 4.46
4501 10191 5.593909 TGGAATTTGCCAGATATTACACAGG 59.406 40.000 0.00 0.00 33.10 4.00
4502 10192 6.698008 TGGAATTTGCCAGATATTACACAG 57.302 37.500 0.00 0.00 33.10 3.66
4503 10193 7.319646 GTTTGGAATTTGCCAGATATTACACA 58.680 34.615 0.00 0.00 39.52 3.72
4504 10194 6.756542 GGTTTGGAATTTGCCAGATATTACAC 59.243 38.462 0.00 0.00 39.52 2.90
4505 10195 6.127196 GGGTTTGGAATTTGCCAGATATTACA 60.127 38.462 0.00 0.00 39.52 2.41
4506 10196 6.127196 TGGGTTTGGAATTTGCCAGATATTAC 60.127 38.462 0.00 0.00 39.52 1.89
4507 10197 5.960811 TGGGTTTGGAATTTGCCAGATATTA 59.039 36.000 0.00 0.00 39.52 0.98
4508 10198 4.782156 TGGGTTTGGAATTTGCCAGATATT 59.218 37.500 0.00 0.00 39.52 1.28
4509 10199 4.360889 TGGGTTTGGAATTTGCCAGATAT 58.639 39.130 0.00 0.00 39.52 1.63
4510 10200 3.768757 CTGGGTTTGGAATTTGCCAGATA 59.231 43.478 0.00 0.00 39.52 1.98
4511 10201 2.568509 CTGGGTTTGGAATTTGCCAGAT 59.431 45.455 0.00 0.00 39.52 2.90
4512 10202 1.969923 CTGGGTTTGGAATTTGCCAGA 59.030 47.619 0.00 0.00 39.52 3.86
4513 10203 1.002315 CCTGGGTTTGGAATTTGCCAG 59.998 52.381 0.00 0.00 39.52 4.85
4514 10204 1.055040 CCTGGGTTTGGAATTTGCCA 58.945 50.000 0.00 0.00 35.78 4.92
4515 10205 0.321564 GCCTGGGTTTGGAATTTGCC 60.322 55.000 0.00 0.00 0.00 4.52
4516 10206 0.321564 GGCCTGGGTTTGGAATTTGC 60.322 55.000 0.00 0.00 0.00 3.68
4517 10207 0.037419 CGGCCTGGGTTTGGAATTTG 60.037 55.000 0.00 0.00 0.00 2.32
4518 10208 1.826340 GCGGCCTGGGTTTGGAATTT 61.826 55.000 0.00 0.00 0.00 1.82
4519 10209 2.282783 GCGGCCTGGGTTTGGAATT 61.283 57.895 0.00 0.00 0.00 2.17
4520 10210 2.679996 GCGGCCTGGGTTTGGAAT 60.680 61.111 0.00 0.00 0.00 3.01
4521 10211 3.740495 TTGCGGCCTGGGTTTGGAA 62.740 57.895 0.00 0.00 0.00 3.53
4522 10212 3.521765 ATTGCGGCCTGGGTTTGGA 62.522 57.895 0.00 0.00 0.00 3.53
4523 10213 2.505635 GAATTGCGGCCTGGGTTTGG 62.506 60.000 0.00 0.00 0.00 3.28
4524 10214 1.079888 GAATTGCGGCCTGGGTTTG 60.080 57.895 0.00 0.00 0.00 2.93
4525 10215 2.282783 GGAATTGCGGCCTGGGTTT 61.283 57.895 0.00 0.00 0.00 3.27
4526 10216 2.679996 GGAATTGCGGCCTGGGTT 60.680 61.111 0.00 0.00 0.00 4.11
4527 10217 4.759205 GGGAATTGCGGCCTGGGT 62.759 66.667 0.00 0.00 0.00 4.51
4533 10223 2.668261 GATTCTGCGGGAATTGCGGC 62.668 60.000 20.31 20.31 43.90 6.53
4534 10224 1.356624 GATTCTGCGGGAATTGCGG 59.643 57.895 0.00 0.00 43.90 5.69
4535 10225 1.356624 GGATTCTGCGGGAATTGCG 59.643 57.895 6.25 0.00 43.90 4.85
4536 10226 0.383231 CTGGATTCTGCGGGAATTGC 59.617 55.000 6.25 0.00 43.90 3.56
4537 10227 0.383231 GCTGGATTCTGCGGGAATTG 59.617 55.000 6.25 2.91 43.90 2.32
4538 10228 2.799176 GCTGGATTCTGCGGGAATT 58.201 52.632 6.25 0.00 43.90 2.17
4539 10229 4.567318 GCTGGATTCTGCGGGAAT 57.433 55.556 4.70 4.70 46.24 3.01
4545 10235 2.899339 GAGGGCGCTGGATTCTGC 60.899 66.667 8.56 0.00 34.96 4.26
4546 10236 2.374830 ATCGAGGGCGCTGGATTCTG 62.375 60.000 20.34 0.00 37.46 3.02
4547 10237 2.093537 GATCGAGGGCGCTGGATTCT 62.094 60.000 25.29 8.25 37.46 2.40
4548 10238 1.666234 GATCGAGGGCGCTGGATTC 60.666 63.158 25.29 16.05 37.46 2.52
4549 10239 2.136878 AGATCGAGGGCGCTGGATT 61.137 57.895 25.29 14.46 37.46 3.01
4550 10240 2.522923 AGATCGAGGGCGCTGGAT 60.523 61.111 24.91 24.91 37.46 3.41
4551 10241 3.531207 CAGATCGAGGGCGCTGGA 61.531 66.667 17.50 17.50 37.46 3.86
4552 10242 4.598894 CCAGATCGAGGGCGCTGG 62.599 72.222 8.56 7.36 39.97 4.85
4553 10243 3.531207 TCCAGATCGAGGGCGCTG 61.531 66.667 8.56 0.52 37.46 5.18
4554 10244 3.532155 GTCCAGATCGAGGGCGCT 61.532 66.667 7.64 1.38 37.46 5.92
4555 10245 4.593864 GGTCCAGATCGAGGGCGC 62.594 72.222 0.00 0.00 37.46 6.53
4556 10246 2.835431 AGGTCCAGATCGAGGGCG 60.835 66.667 7.30 0.00 39.35 6.13


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

AutoCloner maintained by Alex Coulton.