Multiple sequence alignment - TraesCS4B01G276200

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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 TraesCS4B01G276200 chr4B 100.000 9889 0 0 1 9889 555924225 555934113 0.000000e+00 18262.0
1 TraesCS4B01G276200 chr4D 95.620 8174 174 57 191 8267 444532134 444524048 0.000000e+00 12942.0
2 TraesCS4B01G276200 chr4D 95.065 770 29 6 8266 9029 444523944 444523178 0.000000e+00 1203.0
3 TraesCS4B01G276200 chr4D 93.711 318 17 3 9312 9626 444523185 444522868 3.230000e-129 473.0
4 TraesCS4B01G276200 chr4D 100.000 28 0 0 9849 9876 444522774 444522747 1.800000e-02 52.8
5 TraesCS4B01G276200 chr4A 96.051 6635 160 43 536 7125 21854181 21847604 0.000000e+00 10707.0
6 TraesCS4B01G276200 chr4A 92.780 2770 102 42 7122 9829 21847482 21844749 0.000000e+00 3917.0
7 TraesCS4B01G276200 chr4A 91.600 250 16 3 266 515 21856650 21856406 3.420000e-89 340.0
8 TraesCS4B01G276200 chr4A 91.608 143 11 1 1 143 21856798 21856657 7.840000e-46 196.0
9 TraesCS4B01G276200 chr1A 75.484 465 83 22 7293 7745 176459804 176460249 2.180000e-46 198.0
10 TraesCS4B01G276200 chr1D 74.837 461 90 19 7293 7744 181636776 181637219 1.700000e-42 185.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G276200 chr4B 555924225 555934113 9888 False 18262.0 18262 100.00000 1 9889 1 chr4B.!!$F1 9888
1 TraesCS4B01G276200 chr4D 444522747 444532134 9387 True 3667.7 12942 96.09900 191 9876 4 chr4D.!!$R1 9685
2 TraesCS4B01G276200 chr4A 21844749 21856798 12049 True 3790.0 10707 93.00975 1 9829 4 chr4A.!!$R1 9828

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
174 175 0.318614 CCCGCACCAACACATCAAAC 60.319 55.000 0.00 0.0 0.00 2.93 F
175 176 0.383590 CCGCACCAACACATCAAACA 59.616 50.000 0.00 0.0 0.00 2.83 F
201 202 0.826672 AACCGACCTCCACTTCGTCT 60.827 55.000 0.00 0.0 33.23 4.18 F
885 3105 1.030457 ACGACACGGAGACTTTCTGT 58.970 50.000 0.00 0.0 46.49 3.41 F
1484 3721 0.035152 AGATGGAATGCTGAACCGCA 60.035 50.000 0.00 0.0 45.10 5.69 F
2946 5221 1.202031 GCAGAAGCGGAAACCAATACG 60.202 52.381 0.00 0.0 0.00 3.06 F
3866 6145 1.090052 GTGGCTGTGGCGGAATAGAC 61.090 60.000 0.00 0.0 39.81 2.59 F
3872 6151 1.758280 TGTGGCGGAATAGACGGTATT 59.242 47.619 0.00 0.0 0.00 1.89 F
4977 7258 3.568430 ACCAGCTACCTTTGTTAAACAGC 59.432 43.478 0.00 0.0 0.00 4.40 F
6055 8336 5.009854 ACCAAGTTTTGATGTGTTCCTTG 57.990 39.130 0.00 0.0 0.00 3.61 F
6454 8735 4.415881 TCTTAAGTTGGTTCTGTCAGCA 57.584 40.909 1.63 0.0 0.00 4.41 F
7575 9995 4.647424 TTGGAATGTCAAGGTGTGTTTC 57.353 40.909 0.00 0.0 0.00 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1416 3651 0.043334 AGTGGAGCCTCACCCAGTAT 59.957 55.000 0.00 0.00 38.34 2.12 R
1439 3674 0.525761 AAATGGAATTCGCCGGTGTG 59.474 50.000 16.01 0.00 33.67 3.82 R
1440 3675 0.525761 CAAATGGAATTCGCCGGTGT 59.474 50.000 16.01 0.00 33.67 4.16 R
2808 5083 0.251916 GGGGCACTACACATGCACTA 59.748 55.000 0.00 0.00 46.19 2.74 R
3163 5438 0.454600 TCGTCCCTCTGATTACACGC 59.545 55.000 0.00 0.00 0.00 5.34 R
4608 6889 1.199789 TCACAATGCGCAATCTTGTCC 59.800 47.619 21.61 0.00 30.99 4.02 R
4977 7258 0.034756 TGGCCGATATCCAATCACCG 59.965 55.000 0.00 0.00 0.00 4.94 R
5133 7414 3.086282 TGACGATGTACCAGCAGAAGTA 58.914 45.455 0.00 0.00 0.00 2.24 R
6369 8650 4.639755 TGTCGACCATTTCATGCATGTAAT 59.360 37.500 25.43 23.44 0.00 1.89 R
7421 9841 4.429854 AAGCAGGGGCAAATAAACAAAA 57.570 36.364 0.00 0.00 44.61 2.44 R
8089 10527 1.550524 AGCCAATTGACAGCTCTCGTA 59.449 47.619 7.12 0.00 28.40 3.43 R
9007 11564 0.179062 CTCTATGGCTGCCACTGGAC 60.179 60.000 25.99 0.00 35.80 4.02 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
28 29 2.813908 GTTTCGCGGTCGAGCCAT 60.814 61.111 6.13 0.00 46.34 4.40
42 43 2.612672 CGAGCCATCGTCACTAACTCTA 59.387 50.000 0.00 0.00 44.09 2.43
43 44 3.251245 CGAGCCATCGTCACTAACTCTAT 59.749 47.826 0.00 0.00 44.09 1.98
55 56 7.427214 GTCACTAACTCTATGGTGTAATCCTC 58.573 42.308 0.00 0.00 0.00 3.71
58 59 5.878406 AACTCTATGGTGTAATCCTCTGG 57.122 43.478 0.00 0.00 0.00 3.86
78 79 1.447317 CTGCACAACTCCCACCACAC 61.447 60.000 0.00 0.00 0.00 3.82
80 81 1.166531 GCACAACTCCCACCACACTC 61.167 60.000 0.00 0.00 0.00 3.51
88 89 1.681666 CCACCACACTCTGGCATCT 59.318 57.895 0.00 0.00 45.32 2.90
116 117 4.735662 ATGAGCGACTATCGTCTTCTAC 57.264 45.455 0.00 0.00 42.81 2.59
130 131 3.548268 GTCTTCTACGACAACATAGCAGC 59.452 47.826 0.00 0.00 34.11 5.25
143 144 2.341807 TAGCAGCGATGTGGCTCTCG 62.342 60.000 1.22 4.74 42.53 4.04
144 145 2.491621 CAGCGATGTGGCTCTCGA 59.508 61.111 10.89 0.00 42.53 4.04
145 146 1.588403 CAGCGATGTGGCTCTCGAG 60.588 63.158 5.93 5.93 42.53 4.04
155 156 2.182030 CTCTCGAGCAACCCCGTC 59.818 66.667 7.81 0.00 0.00 4.79
156 157 3.358076 CTCTCGAGCAACCCCGTCC 62.358 68.421 7.81 0.00 0.00 4.79
157 158 4.452733 CTCGAGCAACCCCGTCCC 62.453 72.222 0.00 0.00 0.00 4.46
168 169 4.920112 CCGTCCCGCACCAACACA 62.920 66.667 0.00 0.00 0.00 3.72
169 170 2.668212 CGTCCCGCACCAACACAT 60.668 61.111 0.00 0.00 0.00 3.21
170 171 2.677003 CGTCCCGCACCAACACATC 61.677 63.158 0.00 0.00 0.00 3.06
171 172 1.599518 GTCCCGCACCAACACATCA 60.600 57.895 0.00 0.00 0.00 3.07
172 173 1.149401 TCCCGCACCAACACATCAA 59.851 52.632 0.00 0.00 0.00 2.57
173 174 0.466372 TCCCGCACCAACACATCAAA 60.466 50.000 0.00 0.00 0.00 2.69
174 175 0.318614 CCCGCACCAACACATCAAAC 60.319 55.000 0.00 0.00 0.00 2.93
175 176 0.383590 CCGCACCAACACATCAAACA 59.616 50.000 0.00 0.00 0.00 2.83
176 177 1.000385 CCGCACCAACACATCAAACAT 60.000 47.619 0.00 0.00 0.00 2.71
177 178 2.052891 CGCACCAACACATCAAACATG 58.947 47.619 0.00 0.00 0.00 3.21
178 179 2.543445 CGCACCAACACATCAAACATGT 60.543 45.455 0.00 0.00 0.00 3.21
179 180 3.052036 GCACCAACACATCAAACATGTC 58.948 45.455 0.00 0.00 0.00 3.06
180 181 3.299162 CACCAACACATCAAACATGTCG 58.701 45.455 0.00 0.00 0.00 4.35
181 182 3.003171 CACCAACACATCAAACATGTCGA 59.997 43.478 0.00 0.00 0.00 4.20
182 183 3.629855 ACCAACACATCAAACATGTCGAA 59.370 39.130 0.00 0.00 0.00 3.71
183 184 4.097135 ACCAACACATCAAACATGTCGAAA 59.903 37.500 0.00 0.00 0.00 3.46
184 185 4.440758 CCAACACATCAAACATGTCGAAAC 59.559 41.667 0.00 0.00 0.00 2.78
185 186 4.223320 ACACATCAAACATGTCGAAACC 57.777 40.909 0.00 0.00 0.00 3.27
186 187 3.225548 CACATCAAACATGTCGAAACCG 58.774 45.455 0.00 0.00 0.00 4.44
187 188 3.059257 CACATCAAACATGTCGAAACCGA 60.059 43.478 0.00 0.00 0.00 4.69
201 202 0.826672 AACCGACCTCCACTTCGTCT 60.827 55.000 0.00 0.00 33.23 4.18
217 218 4.135153 CTGCGACCGGGGTCTCTG 62.135 72.222 15.40 8.11 42.54 3.35
219 220 3.692406 GCGACCGGGGTCTCTGTT 61.692 66.667 15.40 0.00 42.54 3.16
382 383 4.754667 GAACGGCCACCTCGACCC 62.755 72.222 2.24 0.00 0.00 4.46
482 483 3.022287 CGCCGGCACATTGTATCC 58.978 61.111 28.98 0.00 0.00 2.59
520 521 2.442272 ATGTCCCTCTCCCGGTCG 60.442 66.667 0.00 0.00 0.00 4.79
523 524 3.016971 TCCCTCTCCCGGTCGGTA 61.017 66.667 8.67 0.00 0.00 4.02
527 2731 3.650298 CTCTCCCGGTCGGTACCCA 62.650 68.421 6.25 0.00 43.54 4.51
723 2934 3.582148 CGGAAACCCGGCCTAAAC 58.418 61.111 0.00 0.00 43.22 2.01
885 3105 1.030457 ACGACACGGAGACTTTCTGT 58.970 50.000 0.00 0.00 46.49 3.41
1458 3695 0.525761 CACACCGGCGAATTCCATTT 59.474 50.000 9.30 0.00 0.00 2.32
1467 3704 2.679837 GCGAATTCCATTTGAGCTGAGA 59.320 45.455 0.00 0.00 0.00 3.27
1484 3721 0.035152 AGATGGAATGCTGAACCGCA 60.035 50.000 0.00 0.00 45.10 5.69
1521 3758 9.809395 ATGAGATAGTAGTACTATTAGGTTGCA 57.191 33.333 21.15 12.73 41.21 4.08
1595 3841 7.756395 AGACTCATGATTCAAACAAATGTCT 57.244 32.000 14.75 7.72 0.00 3.41
1655 3901 4.526650 ACCTCCACCATTTACCATTTCAAC 59.473 41.667 0.00 0.00 0.00 3.18
1823 4069 6.767902 AGCTAGATCTGGATAATTCGCAAAAA 59.232 34.615 10.75 0.00 0.00 1.94
1825 4071 7.041780 GCTAGATCTGGATAATTCGCAAAAAGA 60.042 37.037 10.75 0.00 0.00 2.52
1939 4185 7.445945 ACTGCAGAAGTAGAAAACACTAAGAT 58.554 34.615 23.35 0.00 37.36 2.40
1952 4198 5.234466 ACACTAAGATGGCAATAGGGATC 57.766 43.478 12.70 0.00 0.00 3.36
2066 4324 6.725364 ACAGATATTGGTGTTCTTTCCTGAT 58.275 36.000 0.00 0.00 0.00 2.90
2105 4364 5.658468 TGCTCAACATTCAACAAAATGTGA 58.342 33.333 3.25 3.46 46.49 3.58
2110 4369 6.700960 TCAACATTCAACAAAATGTGATGTCC 59.299 34.615 3.25 0.00 46.49 4.02
2111 4370 5.221880 ACATTCAACAAAATGTGATGTCCG 58.778 37.500 1.69 0.00 45.68 4.79
2112 4371 4.909696 TTCAACAAAATGTGATGTCCGT 57.090 36.364 0.00 0.00 32.07 4.69
2113 4372 4.909696 TCAACAAAATGTGATGTCCGTT 57.090 36.364 0.00 0.00 32.07 4.44
2114 4373 5.255710 TCAACAAAATGTGATGTCCGTTT 57.744 34.783 0.00 0.00 32.07 3.60
2115 4374 5.039984 TCAACAAAATGTGATGTCCGTTTG 58.960 37.500 0.00 0.00 32.07 2.93
2116 4375 4.647424 ACAAAATGTGATGTCCGTTTGT 57.353 36.364 0.00 0.00 35.08 2.83
2117 4376 5.004922 ACAAAATGTGATGTCCGTTTGTT 57.995 34.783 0.00 0.00 36.13 2.83
2118 4377 6.137794 ACAAAATGTGATGTCCGTTTGTTA 57.862 33.333 0.00 0.00 36.13 2.41
2119 4378 6.744112 ACAAAATGTGATGTCCGTTTGTTAT 58.256 32.000 0.00 0.00 36.13 1.89
2120 4379 7.877003 ACAAAATGTGATGTCCGTTTGTTATA 58.123 30.769 0.00 0.00 36.13 0.98
2121 4380 8.519526 ACAAAATGTGATGTCCGTTTGTTATAT 58.480 29.630 0.00 0.00 36.13 0.86
2122 4381 9.995957 CAAAATGTGATGTCCGTTTGTTATATA 57.004 29.630 0.00 0.00 0.00 0.86
2186 4458 3.536158 TTCTACGTGCTGTTTTGATGC 57.464 42.857 0.00 0.00 0.00 3.91
2193 4465 2.733026 GTGCTGTTTTGATGCCATTCAC 59.267 45.455 0.00 0.00 0.00 3.18
2471 4743 3.837355 AGAAGACCTTCAAACAGGCATT 58.163 40.909 11.80 0.00 41.84 3.56
2808 5083 3.628008 TCTCTATGTGTGTATGTCGGGT 58.372 45.455 0.00 0.00 0.00 5.28
2815 5090 1.828595 TGTGTATGTCGGGTAGTGCAT 59.171 47.619 0.00 0.00 0.00 3.96
2911 5186 1.228094 TGAGTGCCGCCACATTTGA 60.228 52.632 0.00 0.00 44.53 2.69
2946 5221 1.202031 GCAGAAGCGGAAACCAATACG 60.202 52.381 0.00 0.00 0.00 3.06
2952 5227 3.086282 AGCGGAAACCAATACGGAAATT 58.914 40.909 0.00 0.00 38.63 1.82
3161 5436 2.592308 GTGGAGGATGGGAGTGGC 59.408 66.667 0.00 0.00 0.00 5.01
3162 5437 3.083349 TGGAGGATGGGAGTGGCG 61.083 66.667 0.00 0.00 0.00 5.69
3163 5438 3.866582 GGAGGATGGGAGTGGCGG 61.867 72.222 0.00 0.00 0.00 6.13
3170 5445 4.382320 GGGAGTGGCGGCGTGTAA 62.382 66.667 9.37 0.00 0.00 2.41
3298 5573 1.132073 ACGCATATTTTCGCATGTGCA 59.868 42.857 0.00 0.00 40.37 4.57
3339 5614 3.800826 GGGAGTTATGCCGGAACAT 57.199 52.632 5.05 1.93 0.00 2.71
3342 5617 1.668419 GAGTTATGCCGGAACATGCT 58.332 50.000 5.05 3.19 0.00 3.79
3392 5667 7.148423 GCTGTGTAAATTTCCATTTCCATTTCC 60.148 37.037 0.00 0.00 34.29 3.13
3393 5668 7.739825 TGTGTAAATTTCCATTTCCATTTCCA 58.260 30.769 0.00 0.00 34.29 3.53
3394 5669 8.381636 TGTGTAAATTTCCATTTCCATTTCCAT 58.618 29.630 0.00 0.00 34.29 3.41
3395 5670 9.230122 GTGTAAATTTCCATTTCCATTTCCATT 57.770 29.630 0.00 0.00 34.29 3.16
3396 5671 9.804977 TGTAAATTTCCATTTCCATTTCCATTT 57.195 25.926 0.00 0.00 34.29 2.32
3398 5673 7.943079 AATTTCCATTTCCATTTCCATTTCC 57.057 32.000 0.00 0.00 0.00 3.13
3399 5674 6.445451 TTTCCATTTCCATTTCCATTTCCA 57.555 33.333 0.00 0.00 0.00 3.53
3400 5675 6.639590 TTCCATTTCCATTTCCATTTCCAT 57.360 33.333 0.00 0.00 0.00 3.41
3401 5676 6.639590 TCCATTTCCATTTCCATTTCCATT 57.360 33.333 0.00 0.00 0.00 3.16
3402 5677 7.030234 TCCATTTCCATTTCCATTTCCATTT 57.970 32.000 0.00 0.00 0.00 2.32
3403 5678 7.111466 TCCATTTCCATTTCCATTTCCATTTC 58.889 34.615 0.00 0.00 0.00 2.17
3404 5679 6.319405 CCATTTCCATTTCCATTTCCATTTCC 59.681 38.462 0.00 0.00 0.00 3.13
3405 5680 6.445451 TTTCCATTTCCATTTCCATTTCCA 57.555 33.333 0.00 0.00 0.00 3.53
3406 5681 6.639590 TTCCATTTCCATTTCCATTTCCAT 57.360 33.333 0.00 0.00 0.00 3.41
3407 5682 6.639590 TCCATTTCCATTTCCATTTCCATT 57.360 33.333 0.00 0.00 0.00 3.16
3408 5683 7.030234 TCCATTTCCATTTCCATTTCCATTT 57.970 32.000 0.00 0.00 0.00 2.32
3409 5684 7.468496 TCCATTTCCATTTCCATTTCCATTTT 58.532 30.769 0.00 0.00 0.00 1.82
3416 5691 6.016108 CCATTTCCATTTCCATTTTTGTGCTT 60.016 34.615 0.00 0.00 0.00 3.91
3866 6145 1.090052 GTGGCTGTGGCGGAATAGAC 61.090 60.000 0.00 0.00 39.81 2.59
3872 6151 1.758280 TGTGGCGGAATAGACGGTATT 59.242 47.619 0.00 0.00 0.00 1.89
4062 6343 5.105392 CCAGCATTTTTGCCTGGTATAGAAA 60.105 40.000 0.00 0.00 34.90 2.52
4198 6479 8.621532 TCTTTGTAGCTTGTTACAAGATTGAT 57.378 30.769 26.94 10.02 42.59 2.57
4231 6512 3.826524 TGTCTGTGGAAGCATACCAAAA 58.173 40.909 0.00 0.00 39.22 2.44
4232 6513 4.211125 TGTCTGTGGAAGCATACCAAAAA 58.789 39.130 0.00 0.00 39.22 1.94
4233 6514 4.832266 TGTCTGTGGAAGCATACCAAAAAT 59.168 37.500 0.00 0.00 39.22 1.82
4298 6579 4.147321 ACATGTGTTTCTTCATGAGCCTT 58.853 39.130 0.00 0.00 42.52 4.35
4403 6684 3.679025 CAGTGCTTAAGAGTCAAGAGCAG 59.321 47.826 6.67 2.08 43.27 4.24
4608 6889 7.703058 ATAAAGGTGGACAAAGAAAGGTATG 57.297 36.000 0.00 0.00 0.00 2.39
4619 6900 5.904362 AAGAAAGGTATGGACAAGATTGC 57.096 39.130 0.00 0.00 0.00 3.56
4870 7151 6.252995 TCTAACCATAAACTTGGCCAGAAAT 58.747 36.000 5.11 0.00 40.68 2.17
4959 7240 5.335661 GCCACTTGAACATAAAGGTAACCAG 60.336 44.000 0.00 0.00 37.17 4.00
4977 7258 3.568430 ACCAGCTACCTTTGTTAAACAGC 59.432 43.478 0.00 0.00 0.00 4.40
6055 8336 5.009854 ACCAAGTTTTGATGTGTTCCTTG 57.990 39.130 0.00 0.00 0.00 3.61
6091 8372 6.019479 CACTAACAAGTTGAACTGACACTCTC 60.019 42.308 10.54 0.00 0.00 3.20
6333 8614 6.819397 ACAGTAAGCAGTTATTTCCCTTTC 57.181 37.500 0.00 0.00 0.00 2.62
6337 8618 8.023706 CAGTAAGCAGTTATTTCCCTTTCTTTC 58.976 37.037 0.00 0.00 0.00 2.62
6354 8635 8.782144 CCTTTCTTTCTATATCTTGAGATTGGC 58.218 37.037 0.00 0.00 36.05 4.52
6369 8650 5.044476 TGAGATTGGCCCTTTTTACAGGATA 60.044 40.000 0.00 0.00 35.71 2.59
6429 8710 7.829725 CAAATCATGGACCATCTTCACTTTTA 58.170 34.615 3.21 0.00 0.00 1.52
6430 8711 8.306038 CAAATCATGGACCATCTTCACTTTTAA 58.694 33.333 3.21 0.00 0.00 1.52
6454 8735 4.415881 TCTTAAGTTGGTTCTGTCAGCA 57.584 40.909 1.63 0.00 0.00 4.41
6924 9210 8.793592 CCCTTAAATATTGTTGTTATCTAGGGC 58.206 37.037 0.00 0.00 30.67 5.19
7574 9994 5.612725 AATTGGAATGTCAAGGTGTGTTT 57.387 34.783 0.00 0.00 0.00 2.83
7575 9995 4.647424 TTGGAATGTCAAGGTGTGTTTC 57.353 40.909 0.00 0.00 0.00 2.78
7798 10218 7.584123 CGATTTTCAGTTTCTTTAGTCACACTG 59.416 37.037 0.00 0.00 34.22 3.66
7959 10384 5.867716 TCCTTGCAAGTCTCGTTTACTTATC 59.132 40.000 24.35 0.00 35.44 1.75
8007 10432 6.602406 AGAGAGATCTTCCCATTTGAATTGTG 59.398 38.462 0.00 0.00 0.00 3.33
8038 10465 5.046376 CCATTTTTCAAGCAAGGAGGGTAAT 60.046 40.000 0.00 0.00 0.00 1.89
8094 10532 8.488651 AGTAACATTACCCAGAAAATTACGAG 57.511 34.615 0.00 0.00 34.19 4.18
8230 10670 0.598065 GTGGCAAACCTGGTAAGCTG 59.402 55.000 18.91 8.13 36.63 4.24
8383 10928 4.156739 CCATTAGTCCTTCAGCTTGTTTCC 59.843 45.833 0.00 0.00 0.00 3.13
8651 11197 3.193691 GTGCTGGCAGAAGTAAGTCTCTA 59.806 47.826 20.86 0.00 0.00 2.43
8680 11226 3.683822 CAGAGCACTCTTTTCTCATGTCC 59.316 47.826 0.00 0.00 37.98 4.02
8730 11281 2.455674 TGTCGCTGATGCTACTGTTT 57.544 45.000 0.00 0.00 36.09 2.83
8817 11373 1.566018 GACGGTCCAAAGGCTTGTCG 61.566 60.000 0.00 3.60 0.00 4.35
9111 11668 1.144276 TCTTTCCCGTTGCGTGTGA 59.856 52.632 0.00 0.00 0.00 3.58
9175 11732 9.710818 TCAGTTAAATTAGTATGTACTCCCTCT 57.289 33.333 0.00 0.00 37.73 3.69
9276 11833 1.550524 TCTGGCTGTGCTTACTAGTGG 59.449 52.381 5.39 0.00 0.00 4.00
9280 11837 2.168521 GGCTGTGCTTACTAGTGGATCA 59.831 50.000 5.39 0.00 0.00 2.92
9282 11839 3.118956 GCTGTGCTTACTAGTGGATCAGT 60.119 47.826 5.39 0.00 0.00 3.41
9294 11851 8.289939 ACTAGTGGATCAGTTAAATTAGTCGA 57.710 34.615 0.00 0.00 0.00 4.20
9296 11853 9.582431 CTAGTGGATCAGTTAAATTAGTCGAAA 57.418 33.333 0.00 0.00 0.00 3.46
9355 11912 4.057428 GCTGTCTCGGGCTGTCGT 62.057 66.667 0.00 0.00 0.00 4.34
9386 11943 5.459107 GCACTGACTGTTATACATCCGTTAG 59.541 44.000 0.00 0.00 0.00 2.34
9390 11947 6.270815 TGACTGTTATACATCCGTTAGCTTC 58.729 40.000 0.00 0.00 0.00 3.86
9449 12007 2.813474 CGAAGCCATCGCCGTCAA 60.813 61.111 0.00 0.00 45.89 3.18
9507 12067 0.173255 TTGTGCGATCGATCAGCTGA 59.827 50.000 28.97 20.79 0.00 4.26
9565 12125 1.535028 TGCTTTAACATGGTGTGCTCG 59.465 47.619 0.00 0.00 0.00 5.03
9590 12150 5.189180 AGAACTGGTGCCTATTTTCATCTC 58.811 41.667 0.00 0.00 0.00 2.75
9592 12152 5.957771 ACTGGTGCCTATTTTCATCTCTA 57.042 39.130 0.00 0.00 0.00 2.43
9614 12183 0.249573 GGCGGCTATAACCTGCGTTA 60.250 55.000 0.00 0.00 38.79 3.18
9626 12195 1.135402 CCTGCGTTAACAGATTTGGGC 60.135 52.381 6.39 0.00 40.25 5.36
9627 12196 0.885196 TGCGTTAACAGATTTGGGCC 59.115 50.000 6.39 0.00 0.00 5.80
9628 12197 1.173913 GCGTTAACAGATTTGGGCCT 58.826 50.000 4.53 0.00 0.00 5.19
9630 12199 2.432444 CGTTAACAGATTTGGGCCTCA 58.568 47.619 4.53 0.00 0.00 3.86
9636 12205 1.475280 CAGATTTGGGCCTCACACATG 59.525 52.381 4.53 0.00 0.00 3.21
9655 12232 0.464916 GTGCAACCCTATAACCCGGG 60.465 60.000 22.25 22.25 46.26 5.73
9665 12242 0.474184 ATAACCCGGGAAGATGCTGG 59.526 55.000 32.02 0.00 33.51 4.85
9669 12246 4.473520 CGGGAAGATGCTGGCGGT 62.474 66.667 0.00 0.00 0.00 5.68
9670 12247 2.044946 GGGAAGATGCTGGCGGTT 60.045 61.111 0.00 0.00 0.00 4.44
9671 12248 2.115291 GGGAAGATGCTGGCGGTTC 61.115 63.158 0.00 0.00 0.00 3.62
9672 12249 2.115291 GGAAGATGCTGGCGGTTCC 61.115 63.158 0.00 0.00 0.00 3.62
9673 12250 2.044946 AAGATGCTGGCGGTTCCC 60.045 61.111 0.00 0.00 0.00 3.97
9674 12251 2.819984 GAAGATGCTGGCGGTTCCCA 62.820 60.000 0.00 0.00 0.00 4.37
9707 12284 2.926200 CTCGTCATTGTTACTCCTGCTG 59.074 50.000 0.00 0.00 0.00 4.41
9745 12333 1.668151 GTCGCACCACAAGAGGTCC 60.668 63.158 0.00 0.00 40.77 4.46
9747 12335 2.741092 GCACCACAAGAGGTCCGA 59.259 61.111 0.00 0.00 40.77 4.55
9748 12336 1.374758 GCACCACAAGAGGTCCGAG 60.375 63.158 0.00 0.00 40.77 4.63
9750 12338 2.266055 CCACAAGAGGTCCGAGCC 59.734 66.667 0.00 0.00 0.00 4.70
9775 12373 2.125269 CGCCGACCTTTACCCCTG 60.125 66.667 0.00 0.00 0.00 4.45
9794 12392 2.047274 CCACGACTCCATTGCCGT 60.047 61.111 0.00 0.00 35.46 5.68
9799 12397 1.270412 ACGACTCCATTGCCGTAAACA 60.270 47.619 0.00 0.00 33.13 2.83
9801 12399 2.030457 CGACTCCATTGCCGTAAACATC 59.970 50.000 0.00 0.00 0.00 3.06
9804 12402 4.079253 ACTCCATTGCCGTAAACATCTTT 58.921 39.130 0.00 0.00 0.00 2.52
9826 12424 5.455056 TTTTTAGAAGCCATTGCCGTAAA 57.545 34.783 0.00 0.00 38.69 2.01
9827 12425 4.428615 TTTAGAAGCCATTGCCGTAAAC 57.571 40.909 0.00 0.00 38.69 2.01
9828 12426 2.200373 AGAAGCCATTGCCGTAAACT 57.800 45.000 0.00 0.00 38.69 2.66
9829 12427 2.514803 AGAAGCCATTGCCGTAAACTT 58.485 42.857 0.00 0.00 38.69 2.66
9830 12428 2.890945 AGAAGCCATTGCCGTAAACTTT 59.109 40.909 0.00 0.00 38.69 2.66
9831 12429 3.320826 AGAAGCCATTGCCGTAAACTTTT 59.679 39.130 0.00 0.00 38.69 2.27
9832 12430 3.025287 AGCCATTGCCGTAAACTTTTG 57.975 42.857 0.00 0.00 38.69 2.44
9833 12431 2.364002 AGCCATTGCCGTAAACTTTTGT 59.636 40.909 0.00 0.00 38.69 2.83
9834 12432 3.127589 GCCATTGCCGTAAACTTTTGTT 58.872 40.909 0.00 0.00 45.94 2.83
9835 12433 4.682050 AGCCATTGCCGTAAACTTTTGTTT 60.682 37.500 0.00 0.00 46.01 2.83
9836 12434 5.452077 AGCCATTGCCGTAAACTTTTGTTTA 60.452 36.000 0.00 0.00 44.00 2.01
9837 12435 7.228120 AGCCATTGCCGTAAACTTTTGTTTAG 61.228 38.462 2.14 0.00 45.34 1.85
9838 12436 9.291234 AGCCATTGCCGTAAACTTTTGTTTAGA 62.291 37.037 2.14 0.00 45.34 2.10
9876 12474 2.853003 GCAAACTCGATCTACGGAGTTC 59.147 50.000 12.35 0.00 37.78 3.01
9877 12475 3.672511 GCAAACTCGATCTACGGAGTTCA 60.673 47.826 12.35 0.00 37.78 3.18
9878 12476 3.761311 AACTCGATCTACGGAGTTCAC 57.239 47.619 6.53 0.00 37.78 3.18
9879 12477 2.015587 ACTCGATCTACGGAGTTCACC 58.984 52.381 6.53 0.00 37.78 4.02
9880 12478 1.334243 CTCGATCTACGGAGTTCACCC 59.666 57.143 6.53 0.00 37.78 4.61
9881 12479 0.384669 CGATCTACGGAGTTCACCCC 59.615 60.000 6.53 0.00 37.78 4.95
9882 12480 0.751452 GATCTACGGAGTTCACCCCC 59.249 60.000 0.56 0.00 37.78 5.40
9883 12481 0.338814 ATCTACGGAGTTCACCCCCT 59.661 55.000 0.00 0.00 37.78 4.79
9884 12482 0.324091 TCTACGGAGTTCACCCCCTC 60.324 60.000 0.00 0.00 37.78 4.30
9885 12483 1.305549 TACGGAGTTCACCCCCTCC 60.306 63.158 0.00 0.00 37.78 4.30
9886 12484 2.810488 TACGGAGTTCACCCCCTCCC 62.810 65.000 0.00 0.00 43.65 4.30
9887 12485 3.015753 GGAGTTCACCCCCTCCCC 61.016 72.222 0.00 0.00 41.22 4.81
9888 12486 2.125225 GAGTTCACCCCCTCCCCT 59.875 66.667 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 6.039047 GGATTACACCATAGAGTTAGTGACGA 59.961 42.308 0.00 0.00 34.33 4.20
35 36 5.304614 GCCAGAGGATTACACCATAGAGTTA 59.695 44.000 0.00 0.00 0.00 2.24
42 43 1.133976 GCAGCCAGAGGATTACACCAT 60.134 52.381 0.00 0.00 0.00 3.55
43 44 0.253044 GCAGCCAGAGGATTACACCA 59.747 55.000 0.00 0.00 0.00 4.17
55 56 2.113774 TGGGAGTTGTGCAGCCAG 59.886 61.111 0.00 0.00 0.00 4.85
58 59 2.203337 TGGTGGGAGTTGTGCAGC 60.203 61.111 0.00 0.00 0.00 5.25
116 117 1.005662 CACATCGCTGCTATGTTGTCG 60.006 52.381 16.10 3.02 35.39 4.35
153 154 1.169661 TTGATGTGTTGGTGCGGGAC 61.170 55.000 0.00 0.00 0.00 4.46
154 155 0.466372 TTTGATGTGTTGGTGCGGGA 60.466 50.000 0.00 0.00 0.00 5.14
155 156 0.318614 GTTTGATGTGTTGGTGCGGG 60.319 55.000 0.00 0.00 0.00 6.13
156 157 0.383590 TGTTTGATGTGTTGGTGCGG 59.616 50.000 0.00 0.00 0.00 5.69
157 158 2.052891 CATGTTTGATGTGTTGGTGCG 58.947 47.619 0.00 0.00 0.00 5.34
158 159 3.052036 GACATGTTTGATGTGTTGGTGC 58.948 45.455 0.00 0.00 31.52 5.01
159 160 3.003171 TCGACATGTTTGATGTGTTGGTG 59.997 43.478 0.00 0.00 31.52 4.17
160 161 3.210227 TCGACATGTTTGATGTGTTGGT 58.790 40.909 0.00 0.00 31.52 3.67
161 162 3.894782 TCGACATGTTTGATGTGTTGG 57.105 42.857 0.00 0.00 31.52 3.77
162 163 4.440758 GGTTTCGACATGTTTGATGTGTTG 59.559 41.667 0.00 0.00 31.52 3.33
163 164 4.606961 GGTTTCGACATGTTTGATGTGTT 58.393 39.130 0.00 0.00 31.52 3.32
164 165 3.303725 CGGTTTCGACATGTTTGATGTGT 60.304 43.478 0.00 0.00 39.00 3.72
165 166 3.059257 TCGGTTTCGACATGTTTGATGTG 60.059 43.478 0.00 0.00 40.88 3.21
166 167 3.135225 TCGGTTTCGACATGTTTGATGT 58.865 40.909 0.00 0.00 40.88 3.06
167 168 3.804518 TCGGTTTCGACATGTTTGATG 57.195 42.857 0.00 0.00 40.88 3.07
178 179 0.316204 GAAGTGGAGGTCGGTTTCGA 59.684 55.000 0.00 0.00 43.86 3.71
179 180 1.007336 CGAAGTGGAGGTCGGTTTCG 61.007 60.000 0.00 0.00 33.62 3.46
180 181 0.033090 ACGAAGTGGAGGTCGGTTTC 59.967 55.000 0.00 0.00 42.51 2.78
181 182 2.130512 ACGAAGTGGAGGTCGGTTT 58.869 52.632 0.00 0.00 42.51 3.27
182 183 3.866539 ACGAAGTGGAGGTCGGTT 58.133 55.556 0.00 0.00 42.51 4.44
217 218 2.237066 GCACGCACCTTGCCAAAAC 61.237 57.895 0.00 0.00 41.12 2.43
246 247 3.749064 GCACCGAGAGCTCACCGA 61.749 66.667 24.07 0.00 0.00 4.69
286 287 4.421479 CGAAGGTCGCCGTCAGCT 62.421 66.667 11.02 0.00 40.39 4.24
289 290 1.672030 TAGTCGAAGGTCGCCGTCA 60.672 57.895 11.02 0.00 40.21 4.35
351 352 4.681978 GTTCTGACAGCCCGCCGT 62.682 66.667 0.00 0.00 0.00 5.68
482 483 0.107268 TGGAGGATGGATGATGTGCG 59.893 55.000 0.00 0.00 0.00 5.34
523 524 2.594303 CATGTGCCGTGTGTGGGT 60.594 61.111 0.00 0.00 0.00 4.51
527 2731 2.664851 CGGTCATGTGCCGTGTGT 60.665 61.111 18.51 0.00 43.84 3.72
926 3146 0.627986 AGGCTTTTATCTGGCTGGCT 59.372 50.000 2.00 0.00 37.69 4.75
1416 3651 0.043334 AGTGGAGCCTCACCCAGTAT 59.957 55.000 0.00 0.00 38.34 2.12
1439 3674 0.525761 AAATGGAATTCGCCGGTGTG 59.474 50.000 16.01 0.00 33.67 3.82
1440 3675 0.525761 CAAATGGAATTCGCCGGTGT 59.474 50.000 16.01 0.00 33.67 4.16
1458 3695 1.835531 TCAGCATTCCATCTCAGCTCA 59.164 47.619 0.00 0.00 32.35 4.26
1467 3704 4.740922 TGCGGTTCAGCATTCCAT 57.259 50.000 0.00 0.00 42.92 3.41
1521 3758 5.009210 TGAAAACTGGCGTAATTAAGCAACT 59.991 36.000 22.17 0.54 34.54 3.16
1580 3826 7.363268 GGAATCTGGCTAGACATTTGTTTGAAT 60.363 37.037 0.13 0.00 35.34 2.57
1595 3841 1.904771 CACCACCGGAATCTGGCTA 59.095 57.895 9.46 0.00 0.00 3.93
1761 4007 2.292192 CCAACAACCCCCATTGACCTAT 60.292 50.000 0.00 0.00 33.57 2.57
1823 4069 7.285401 CCAGATCTAGCTACTCTTCTTCTTTCT 59.715 40.741 0.00 0.00 0.00 2.52
1825 4071 6.895204 ACCAGATCTAGCTACTCTTCTTCTTT 59.105 38.462 0.00 0.00 0.00 2.52
1939 4185 1.216064 AGCACTGATCCCTATTGCCA 58.784 50.000 0.00 0.00 33.48 4.92
2066 4324 3.083293 TGAGCATGTAAGCTGAATTGCA 58.917 40.909 12.66 0.00 46.75 4.08
2193 4465 8.360390 TGAATAGTATCTGGCACACTAAGTATG 58.640 37.037 3.72 0.00 0.00 2.39
2326 4598 3.952323 CTGGAAATCAGAATGGAGCACAT 59.048 43.478 0.00 0.00 46.18 3.21
2471 4743 2.080336 CTTCAAAGCCCAGGTCCCCA 62.080 60.000 0.00 0.00 0.00 4.96
2808 5083 0.251916 GGGGCACTACACATGCACTA 59.748 55.000 0.00 0.00 46.19 2.74
2815 5090 0.548989 AACAACAGGGGCACTACACA 59.451 50.000 0.00 0.00 0.00 3.72
2911 5186 5.006746 CCGCTTCTGCTAAGAAATACGAAAT 59.993 40.000 3.87 0.00 41.89 2.17
2940 5215 7.502120 AATCATCTCCAGAATTTCCGTATTG 57.498 36.000 0.00 0.00 0.00 1.90
2946 5221 5.611374 TCCGTAATCATCTCCAGAATTTCC 58.389 41.667 0.00 0.00 0.00 3.13
2952 5227 3.031013 TGCTTCCGTAATCATCTCCAGA 58.969 45.455 0.00 0.00 0.00 3.86
3161 5436 0.527817 GTCCCTCTGATTACACGCCG 60.528 60.000 0.00 0.00 0.00 6.46
3162 5437 0.527817 CGTCCCTCTGATTACACGCC 60.528 60.000 0.00 0.00 0.00 5.68
3163 5438 0.454600 TCGTCCCTCTGATTACACGC 59.545 55.000 0.00 0.00 0.00 5.34
3170 5445 2.619177 CTGTAATCGTCGTCCCTCTGAT 59.381 50.000 0.00 0.00 0.00 2.90
3339 5614 2.354510 CTGAAACAGAAACGGAACAGCA 59.645 45.455 0.00 0.00 32.44 4.41
3342 5617 2.354510 CAGCTGAAACAGAAACGGAACA 59.645 45.455 8.42 0.00 32.44 3.18
3392 5667 6.563222 AGCACAAAAATGGAAATGGAAATG 57.437 33.333 0.00 0.00 0.00 2.32
3393 5668 7.068470 ACAAAGCACAAAAATGGAAATGGAAAT 59.932 29.630 0.00 0.00 0.00 2.17
3394 5669 6.376581 ACAAAGCACAAAAATGGAAATGGAAA 59.623 30.769 0.00 0.00 0.00 3.13
3395 5670 5.884792 ACAAAGCACAAAAATGGAAATGGAA 59.115 32.000 0.00 0.00 0.00 3.53
3396 5671 5.435291 ACAAAGCACAAAAATGGAAATGGA 58.565 33.333 0.00 0.00 0.00 3.41
3397 5672 5.754543 ACAAAGCACAAAAATGGAAATGG 57.245 34.783 0.00 0.00 0.00 3.16
3398 5673 6.692249 GGAAACAAAGCACAAAAATGGAAATG 59.308 34.615 0.00 0.00 0.00 2.32
3399 5674 6.376581 TGGAAACAAAGCACAAAAATGGAAAT 59.623 30.769 0.00 0.00 37.44 2.17
3400 5675 5.707298 TGGAAACAAAGCACAAAAATGGAAA 59.293 32.000 0.00 0.00 37.44 3.13
3401 5676 5.248640 TGGAAACAAAGCACAAAAATGGAA 58.751 33.333 0.00 0.00 37.44 3.53
3402 5677 4.836825 TGGAAACAAAGCACAAAAATGGA 58.163 34.783 0.00 0.00 37.44 3.41
4038 6319 3.953612 TCTATACCAGGCAAAAATGCTGG 59.046 43.478 13.88 13.88 38.31 4.85
4062 6343 6.642733 TTTTAGGTGAAGATTGATCCTCCT 57.357 37.500 0.00 0.00 0.00 3.69
4231 6512 8.538701 TCAAATGGCCAACTACATCAATAAATT 58.461 29.630 10.96 0.00 0.00 1.82
4232 6513 8.076910 TCAAATGGCCAACTACATCAATAAAT 57.923 30.769 10.96 0.00 0.00 1.40
4233 6514 7.178274 ACTCAAATGGCCAACTACATCAATAAA 59.822 33.333 10.96 0.00 0.00 1.40
4298 6579 2.827921 TGTTGCTCTCTGCTGTCTGATA 59.172 45.455 0.00 0.00 43.37 2.15
4380 6661 2.414825 GCTCTTGACTCTTAAGCACTGC 59.585 50.000 0.00 0.00 33.21 4.40
4403 6684 9.598517 TTCAATATATTTGGGTTTTTCTGCATC 57.401 29.630 0.00 0.00 0.00 3.91
4608 6889 1.199789 TCACAATGCGCAATCTTGTCC 59.800 47.619 21.61 0.00 30.99 4.02
4725 7006 9.584839 GCACAAAAACTATTTAGCAAATTTGAG 57.415 29.630 22.31 11.06 32.38 3.02
4870 7151 3.349927 CAGCCATTTGATTCAGTCCAGA 58.650 45.455 0.00 0.00 0.00 3.86
4959 7240 2.551032 ACCGCTGTTTAACAAAGGTAGC 59.449 45.455 18.13 8.13 36.57 3.58
4977 7258 0.034756 TGGCCGATATCCAATCACCG 59.965 55.000 0.00 0.00 0.00 4.94
5133 7414 3.086282 TGACGATGTACCAGCAGAAGTA 58.914 45.455 0.00 0.00 0.00 2.24
5194 7475 4.166531 TGGGCTTAGTTTTATATTCCCGGT 59.833 41.667 0.00 0.00 35.33 5.28
6149 8430 5.721232 AGTACATAACTGAGCCACACTAAC 58.279 41.667 0.00 0.00 36.93 2.34
6333 8614 6.777782 AGGGCCAATCTCAAGATATAGAAAG 58.222 40.000 6.18 0.00 33.73 2.62
6337 8618 7.830099 AAAAAGGGCCAATCTCAAGATATAG 57.170 36.000 6.18 0.00 33.73 1.31
6354 8635 7.581213 TGCATGTAATATCCTGTAAAAAGGG 57.419 36.000 0.00 0.00 37.96 3.95
6369 8650 4.639755 TGTCGACCATTTCATGCATGTAAT 59.360 37.500 25.43 23.44 0.00 1.89
6430 8711 4.816925 GCTGACAGAACCAACTTAAGAAGT 59.183 41.667 10.09 0.15 45.46 3.01
6454 8735 6.862209 TGCAAATTAACAGAAAGTTCAGTGT 58.138 32.000 0.00 0.00 41.64 3.55
6924 9210 5.473504 GGCCCCAATAACATCACTACTAATG 59.526 44.000 0.00 0.00 0.00 1.90
7364 9784 6.005823 CACATCAATGGCCATCTTAATCCTA 58.994 40.000 21.08 0.00 0.00 2.94
7421 9841 4.429854 AAGCAGGGGCAAATAAACAAAA 57.570 36.364 0.00 0.00 44.61 2.44
7601 10021 7.093354 ACATTAATATGACTACGAGCCATCAG 58.907 38.462 0.00 0.00 35.65 2.90
7748 10168 5.709164 GCCCCGTAATAGTACAGATTAGAGA 59.291 44.000 0.78 0.00 0.00 3.10
7959 10384 8.272545 TCTTTCACATGAACTATTCTGAATGG 57.727 34.615 13.01 12.29 33.13 3.16
8038 10465 9.845740 TTATGCTCTTAACATATAAAGCAAGGA 57.154 29.630 0.00 0.00 42.41 3.36
8089 10527 1.550524 AGCCAATTGACAGCTCTCGTA 59.449 47.619 7.12 0.00 28.40 3.43
8111 10549 2.873472 CTGTAAACACTAAACGGCACCA 59.127 45.455 0.00 0.00 0.00 4.17
8230 10670 6.557110 ACCAACATACAGTGTGTGTTTTTAC 58.443 36.000 29.24 0.00 43.32 2.01
8651 11197 4.786425 AGAAAAGAGTGCTCTGGAAACTT 58.214 39.130 2.11 0.00 40.36 2.66
8680 11226 4.962155 AGTTGTCAAGACCTAAACAGGAG 58.038 43.478 0.00 0.00 0.00 3.69
8934 11490 1.320555 CTATACACAACGCGCTCACAC 59.679 52.381 5.73 0.00 0.00 3.82
9000 11557 3.832237 CTGCCACTGGACCGTTGCT 62.832 63.158 0.00 0.00 0.00 3.91
9007 11564 0.179062 CTCTATGGCTGCCACTGGAC 60.179 60.000 25.99 0.00 35.80 4.02
9062 11619 1.135228 GTCTCTTCTCTTCTGCCGACC 60.135 57.143 0.00 0.00 0.00 4.79
9241 11798 4.355588 ACAGCCAGATATACTACTCCCTCT 59.644 45.833 0.00 0.00 0.00 3.69
9245 11802 3.829601 AGCACAGCCAGATATACTACTCC 59.170 47.826 0.00 0.00 0.00 3.85
9276 11833 8.391106 AGCACATTTCGACTAATTTAACTGATC 58.609 33.333 0.00 0.00 0.00 2.92
9280 11837 7.871853 ACAAGCACATTTCGACTAATTTAACT 58.128 30.769 0.00 0.00 0.00 2.24
9296 11853 9.326413 GGTGTACTATATCTTTTACAAGCACAT 57.674 33.333 0.00 0.00 0.00 3.21
9355 11912 1.116536 TAACAGTCAGTGCCGGTGGA 61.117 55.000 1.90 0.00 0.00 4.02
9386 11943 5.032309 CTGTTATTCAGGGCTGCAGAAGC 62.032 52.174 20.43 2.06 42.20 3.86
9443 12001 1.781025 TTTGCTCAAGGCGTTGACGG 61.781 55.000 17.46 10.40 45.43 4.79
9449 12007 1.152756 AGGGTTTTGCTCAAGGCGT 60.153 52.632 0.00 0.00 45.43 5.68
9507 12067 0.886043 GTAAACCAAACGCCGGTCCT 60.886 55.000 1.90 0.00 34.99 3.85
9565 12125 5.649831 AGATGAAAATAGGCACCAGTTCTTC 59.350 40.000 0.00 0.00 0.00 2.87
9590 12150 1.779569 CAGGTTATAGCCGCCGTTAG 58.220 55.000 0.00 0.00 0.00 2.34
9592 12152 1.523032 GCAGGTTATAGCCGCCGTT 60.523 57.895 10.00 0.00 0.00 4.44
9614 12183 1.133513 TGTGTGAGGCCCAAATCTGTT 60.134 47.619 0.00 0.00 0.00 3.16
9630 12199 3.352648 GGTTATAGGGTTGCACATGTGT 58.647 45.455 26.01 8.57 0.00 3.72
9636 12205 0.464916 CCCGGGTTATAGGGTTGCAC 60.465 60.000 14.18 0.00 42.67 4.57
9655 12232 2.115291 GGGAACCGCCAGCATCTTC 61.115 63.158 0.00 0.00 40.86 2.87
9690 12267 1.340017 GGCCAGCAGGAGTAACAATGA 60.340 52.381 0.00 0.00 36.89 2.57
9692 12269 0.392998 CGGCCAGCAGGAGTAACAAT 60.393 55.000 2.24 0.00 36.89 2.71
9693 12270 1.003839 CGGCCAGCAGGAGTAACAA 60.004 57.895 2.24 0.00 36.89 2.83
9725 12313 2.358737 CCTCTTGTGGTGCGACCC 60.359 66.667 3.33 0.00 37.50 4.46
9761 12349 2.271173 GGGCAGGGGTAAAGGTCG 59.729 66.667 0.00 0.00 0.00 4.79
9767 12365 2.203877 AGTCGTGGGCAGGGGTAA 60.204 61.111 0.00 0.00 0.00 2.85
9775 12373 3.134127 GGCAATGGAGTCGTGGGC 61.134 66.667 0.00 0.00 0.00 5.36
9804 12402 5.010213 AGTTTACGGCAATGGCTTCTAAAAA 59.990 36.000 5.02 0.00 40.87 1.94
9809 12407 2.200373 AGTTTACGGCAATGGCTTCT 57.800 45.000 5.02 0.00 40.87 2.85
9810 12408 3.297830 AAAGTTTACGGCAATGGCTTC 57.702 42.857 5.02 0.00 40.87 3.86
9811 12409 3.181470 ACAAAAGTTTACGGCAATGGCTT 60.181 39.130 5.02 0.00 40.87 4.35
9812 12410 2.364002 ACAAAAGTTTACGGCAATGGCT 59.636 40.909 5.02 0.00 40.87 4.75
9814 12412 6.210078 TCTAAACAAAAGTTTACGGCAATGG 58.790 36.000 0.00 0.00 0.00 3.16
9815 12413 7.566868 GCTTCTAAACAAAAGTTTACGGCAATG 60.567 37.037 0.00 0.00 0.00 2.82
9816 12414 6.419710 GCTTCTAAACAAAAGTTTACGGCAAT 59.580 34.615 0.00 0.00 0.00 3.56
9820 12418 5.823353 TGGCTTCTAAACAAAAGTTTACGG 58.177 37.500 0.00 0.00 0.00 4.02
9821 12419 7.096230 CCAATGGCTTCTAAACAAAAGTTTACG 60.096 37.037 0.00 0.00 0.00 3.18
9822 12420 7.307160 GCCAATGGCTTCTAAACAAAAGTTTAC 60.307 37.037 18.47 0.00 46.69 2.01
9823 12421 6.704050 GCCAATGGCTTCTAAACAAAAGTTTA 59.296 34.615 18.47 0.00 46.69 2.01
9825 12423 5.056480 GCCAATGGCTTCTAAACAAAAGTT 58.944 37.500 18.47 0.00 46.69 2.66
9826 12424 4.631131 GCCAATGGCTTCTAAACAAAAGT 58.369 39.130 18.47 0.00 46.69 2.66
9846 12444 2.270297 ATCGAGTTTGCGGCAATGCC 62.270 55.000 17.19 15.52 46.75 4.40
9847 12445 0.863119 GATCGAGTTTGCGGCAATGC 60.863 55.000 17.19 12.38 0.00 3.56


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

AutoCloner maintained by Alex Coulton.