Multiple sequence alignment - TraesCS1B01G225600

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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 TraesCS1B01G225600 chr1B 100.000 4772 0 0 1 4772 405180478 405185249 0.000000e+00 8813.0
1 TraesCS1B01G225600 chr1B 93.079 419 21 2 182 600 205873270 205872860 1.470000e-169 606.0
2 TraesCS1B01G225600 chr1B 96.537 231 5 1 4094 4321 405184337 405184567 3.490000e-101 379.0
3 TraesCS1B01G225600 chr1B 96.537 231 5 1 3860 4090 405184571 405184798 3.490000e-101 379.0
4 TraesCS1B01G225600 chr1B 92.821 195 13 1 599 792 205872366 205872172 1.010000e-71 281.0
5 TraesCS1B01G225600 chr1B 89.950 199 14 3 788 985 205872102 205871909 7.930000e-63 252.0
6 TraesCS1B01G225600 chr1D 97.650 3107 64 5 984 4089 300062340 300065438 0.000000e+00 5325.0
7 TraesCS1B01G225600 chr1D 89.828 698 41 9 4094 4772 300065216 300065902 0.000000e+00 869.0
8 TraesCS1B01G225600 chr1A 97.041 3109 85 3 984 4090 374566662 374569765 0.000000e+00 5225.0
9 TraesCS1B01G225600 chr1A 91.954 261 20 1 4094 4353 374569537 374569797 9.760000e-97 364.0
10 TraesCS1B01G225600 chr1A 87.240 337 21 6 4452 4772 374569797 374570127 9.760000e-97 364.0
11 TraesCS1B01G225600 chr4A 100.000 985 0 0 1 985 509347381 509348365 0.000000e+00 1820.0
12 TraesCS1B01G225600 chr4A 96.364 165 6 0 188 352 472962417 472962253 6.090000e-69 272.0
13 TraesCS1B01G225600 chr6D 97.136 419 11 1 182 600 4357736 4357319 0.000000e+00 706.0
14 TraesCS1B01G225600 chr6D 94.241 191 11 0 1 191 4358003 4357813 4.670000e-75 292.0
15 TraesCS1B01G225600 chr2A 95.227 419 9 2 182 600 139840266 139839859 0.000000e+00 652.0
16 TraesCS1B01G225600 chr2A 95.266 338 13 2 262 597 554081417 554081753 2.530000e-147 532.0
17 TraesCS1B01G225600 chr2A 90.537 391 26 6 599 988 139839376 139838996 1.530000e-139 507.0
18 TraesCS1B01G225600 chr2A 96.751 277 9 0 1 277 554081125 554081401 3.360000e-126 462.0
19 TraesCS1B01G225600 chr2A 92.708 192 13 1 1 191 139840534 139840343 4.700000e-70 276.0
20 TraesCS1B01G225600 chr2D 86.842 190 24 1 796 985 343099115 343098927 1.350000e-50 211.0
21 TraesCS1B01G225600 chr2D 86.243 189 24 2 796 983 343099176 343099363 2.250000e-48 204.0
22 TraesCS1B01G225600 chr7B 89.062 64 7 0 537 600 601109232 601109169 3.960000e-11 80.5
23 TraesCS1B01G225600 chr5A 89.062 64 7 0 537 600 105411313 105411250 3.960000e-11 80.5


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 TraesCS1B01G225600 chr1B 405180478 405185249 4771 False 3190.333333 8813 97.691333 1 4772 3 chr1B.!!$F1 4771
1 TraesCS1B01G225600 chr1B 205871909 205873270 1361 True 379.666667 606 91.950000 182 985 3 chr1B.!!$R1 803
2 TraesCS1B01G225600 chr1D 300062340 300065902 3562 False 3097.000000 5325 93.739000 984 4772 2 chr1D.!!$F1 3788
3 TraesCS1B01G225600 chr1A 374566662 374570127 3465 False 1984.333333 5225 92.078333 984 4772 3 chr1A.!!$F1 3788
4 TraesCS1B01G225600 chr4A 509347381 509348365 984 False 1820.000000 1820 100.000000 1 985 1 chr4A.!!$F1 984
5 TraesCS1B01G225600 chr6D 4357319 4358003 684 True 499.000000 706 95.688500 1 600 2 chr6D.!!$R1 599
6 TraesCS1B01G225600 chr2A 554081125 554081753 628 False 497.000000 532 96.008500 1 597 2 chr2A.!!$F1 596
7 TraesCS1B01G225600 chr2A 139838996 139840534 1538 True 478.333333 652 92.824000 1 988 3 chr2A.!!$R1 987

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
1245 1936 2.033141 TTCGTCCCCGTCGTCTCT 59.967 61.111 0.00 0.0 35.01 3.10 F
2004 2695 1.221414 CTAACCTGCGCTATCTTGGC 58.779 55.000 9.73 0.0 0.00 4.52 F
2538 3229 1.002033 GTTGAGCTTGTTGAGGCACTG 60.002 52.381 0.00 0.0 41.55 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2058 2749 0.324614 ACAGGGCAATCACATCACGA 59.675 50.000 0.00 0.0 0.00 4.35 R
3309 4000 1.136147 GGCACTTGCATTCTCAGCG 59.864 57.895 3.15 0.0 44.36 5.18 R
4085 4778 0.108774 TCCATGTACGCCAACCACAA 59.891 50.000 0.00 0.0 0.00 3.33 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
1241 1932 3.677648 CCACTTCGTCCCCGTCGT 61.678 66.667 0.00 0.00 35.01 4.34
1245 1936 2.033141 TTCGTCCCCGTCGTCTCT 59.967 61.111 0.00 0.00 35.01 3.10
1253 1944 3.733960 CGTCGTCTCTCACCCGCA 61.734 66.667 0.00 0.00 0.00 5.69
1608 2299 3.068881 CCGGTCCTCTTCAAGCCA 58.931 61.111 0.00 0.00 0.00 4.75
2001 2692 2.965831 TGATCCTAACCTGCGCTATCTT 59.034 45.455 9.73 0.00 0.00 2.40
2004 2695 1.221414 CTAACCTGCGCTATCTTGGC 58.779 55.000 9.73 0.00 0.00 4.52
2058 2749 4.011966 TGCATCAACTGTCAATGAGAGT 57.988 40.909 7.27 7.27 37.79 3.24
2287 2978 6.318648 GCTGGTGTCAGATTTTGATTGGTATA 59.681 38.462 0.00 0.00 43.49 1.47
2419 3110 1.021202 CCGTTCAGCTCGATCTCTCT 58.979 55.000 0.00 0.00 0.00 3.10
2538 3229 1.002033 GTTGAGCTTGTTGAGGCACTG 60.002 52.381 0.00 0.00 41.55 3.66
2726 3417 2.278332 AGGGGAAGCAAGTCTGAAAC 57.722 50.000 0.00 0.00 0.00 2.78
2749 3440 4.206375 TCAACCTGCTGAAGAACAAATCA 58.794 39.130 0.00 0.00 0.00 2.57
2886 3577 1.675641 GAGGGCACGCAACCTGATT 60.676 57.895 0.00 0.00 37.18 2.57
2973 3664 1.262640 ATAACCGGGTCGTGGAGCTT 61.263 55.000 6.32 0.00 0.00 3.74
2990 3681 8.556194 CGTGGAGCTTATTAATAGTATGCAAAA 58.444 33.333 0.00 0.00 0.00 2.44
3309 4000 3.379688 GTGCCAATGATCCTCTTCTTTCC 59.620 47.826 0.00 0.00 0.00 3.13
3921 4614 8.246430 TGTTAGGTCTTTGTATACTATCCCAG 57.754 38.462 4.17 0.00 0.00 4.45
3988 4681 5.105392 TGAAAGTGCCAGTGAAAATCAAAGT 60.105 36.000 0.00 0.00 0.00 2.66
3990 4683 4.936891 AGTGCCAGTGAAAATCAAAGTTC 58.063 39.130 0.00 0.00 0.00 3.01
4043 4736 8.745464 AAAAGAGTATTTTGACTAGAGACGTC 57.255 34.615 7.70 7.70 0.00 4.34
4044 4737 7.690952 AAGAGTATTTTGACTAGAGACGTCT 57.309 36.000 20.18 20.18 36.75 4.18
4047 4740 8.885722 AGAGTATTTTGACTAGAGACGTCTTAG 58.114 37.037 21.08 21.95 33.84 2.18
4048 4741 8.789825 AGTATTTTGACTAGAGACGTCTTAGA 57.210 34.615 27.08 14.72 33.84 2.10
4049 4742 9.398538 AGTATTTTGACTAGAGACGTCTTAGAT 57.601 33.333 27.08 17.68 33.84 1.98
4055 4748 9.445878 TTGACTAGAGACGTCTTAGATAAAAGA 57.554 33.333 27.08 7.80 33.84 2.52
4056 4749 9.616156 TGACTAGAGACGTCTTAGATAAAAGAT 57.384 33.333 27.08 12.28 37.78 2.40
4057 4750 9.872757 GACTAGAGACGTCTTAGATAAAAGATG 57.127 37.037 27.08 4.65 44.59 2.90
4064 4757 7.456684 CGTCTTAGATAAAAGATGTGGAGTG 57.543 40.000 0.00 0.00 37.78 3.51
4065 4758 6.477033 CGTCTTAGATAAAAGATGTGGAGTGG 59.523 42.308 0.00 0.00 37.78 4.00
4066 4759 6.763610 GTCTTAGATAAAAGATGTGGAGTGGG 59.236 42.308 0.00 0.00 37.78 4.61
4067 4760 6.672218 TCTTAGATAAAAGATGTGGAGTGGGA 59.328 38.462 0.00 0.00 30.54 4.37
4068 4761 5.365021 AGATAAAAGATGTGGAGTGGGAG 57.635 43.478 0.00 0.00 0.00 4.30
4069 4762 2.887151 AAAAGATGTGGAGTGGGAGG 57.113 50.000 0.00 0.00 0.00 4.30
4070 4763 1.747444 AAAGATGTGGAGTGGGAGGT 58.253 50.000 0.00 0.00 0.00 3.85
4071 4764 0.987294 AAGATGTGGAGTGGGAGGTG 59.013 55.000 0.00 0.00 0.00 4.00
4072 4765 0.117140 AGATGTGGAGTGGGAGGTGA 59.883 55.000 0.00 0.00 0.00 4.02
4073 4766 1.207791 GATGTGGAGTGGGAGGTGAT 58.792 55.000 0.00 0.00 0.00 3.06
4074 4767 2.023015 AGATGTGGAGTGGGAGGTGATA 60.023 50.000 0.00 0.00 0.00 2.15
4075 4768 1.866015 TGTGGAGTGGGAGGTGATAG 58.134 55.000 0.00 0.00 0.00 2.08
4076 4769 1.361197 TGTGGAGTGGGAGGTGATAGA 59.639 52.381 0.00 0.00 0.00 1.98
4077 4770 2.023015 TGTGGAGTGGGAGGTGATAGAT 60.023 50.000 0.00 0.00 0.00 1.98
4078 4771 2.366916 GTGGAGTGGGAGGTGATAGATG 59.633 54.545 0.00 0.00 0.00 2.90
4079 4772 2.023015 TGGAGTGGGAGGTGATAGATGT 60.023 50.000 0.00 0.00 0.00 3.06
4080 4773 3.041946 GGAGTGGGAGGTGATAGATGTT 58.958 50.000 0.00 0.00 0.00 2.71
4081 4774 3.456277 GGAGTGGGAGGTGATAGATGTTT 59.544 47.826 0.00 0.00 0.00 2.83
4082 4775 4.446371 GAGTGGGAGGTGATAGATGTTTG 58.554 47.826 0.00 0.00 0.00 2.93
4083 4776 3.846588 AGTGGGAGGTGATAGATGTTTGT 59.153 43.478 0.00 0.00 0.00 2.83
4084 4777 4.289672 AGTGGGAGGTGATAGATGTTTGTT 59.710 41.667 0.00 0.00 0.00 2.83
4085 4778 5.010282 GTGGGAGGTGATAGATGTTTGTTT 58.990 41.667 0.00 0.00 0.00 2.83
4086 4779 5.476945 GTGGGAGGTGATAGATGTTTGTTTT 59.523 40.000 0.00 0.00 0.00 2.43
4087 4780 5.476599 TGGGAGGTGATAGATGTTTGTTTTG 59.523 40.000 0.00 0.00 0.00 2.44
4088 4781 5.476945 GGGAGGTGATAGATGTTTGTTTTGT 59.523 40.000 0.00 0.00 0.00 2.83
4089 4782 6.381801 GGAGGTGATAGATGTTTGTTTTGTG 58.618 40.000 0.00 0.00 0.00 3.33
4090 4783 6.331369 AGGTGATAGATGTTTGTTTTGTGG 57.669 37.500 0.00 0.00 0.00 4.17
4091 4784 5.833131 AGGTGATAGATGTTTGTTTTGTGGT 59.167 36.000 0.00 0.00 0.00 4.16
4092 4785 6.323739 AGGTGATAGATGTTTGTTTTGTGGTT 59.676 34.615 0.00 0.00 0.00 3.67
4093 4786 6.420604 GGTGATAGATGTTTGTTTTGTGGTTG 59.579 38.462 0.00 0.00 0.00 3.77
4094 4787 6.420604 GTGATAGATGTTTGTTTTGTGGTTGG 59.579 38.462 0.00 0.00 0.00 3.77
4095 4788 3.530535 AGATGTTTGTTTTGTGGTTGGC 58.469 40.909 0.00 0.00 0.00 4.52
4096 4789 1.714794 TGTTTGTTTTGTGGTTGGCG 58.285 45.000 0.00 0.00 0.00 5.69
4097 4790 1.000955 TGTTTGTTTTGTGGTTGGCGT 59.999 42.857 0.00 0.00 0.00 5.68
4098 4791 2.230508 TGTTTGTTTTGTGGTTGGCGTA 59.769 40.909 0.00 0.00 0.00 4.42
4099 4792 2.563471 TTGTTTTGTGGTTGGCGTAC 57.437 45.000 0.00 0.00 0.00 3.67
4100 4793 1.460504 TGTTTTGTGGTTGGCGTACA 58.539 45.000 0.00 0.00 0.00 2.90
4101 4794 2.025155 TGTTTTGTGGTTGGCGTACAT 58.975 42.857 0.00 0.00 0.00 2.29
4102 4795 2.223595 TGTTTTGTGGTTGGCGTACATG 60.224 45.455 0.00 0.00 0.00 3.21
4103 4796 0.955178 TTTGTGGTTGGCGTACATGG 59.045 50.000 0.00 0.00 0.00 3.66
4104 4797 0.108774 TTGTGGTTGGCGTACATGGA 59.891 50.000 0.00 0.00 0.00 3.41
4105 4798 0.326595 TGTGGTTGGCGTACATGGAT 59.673 50.000 0.00 0.00 0.00 3.41
4106 4799 0.732571 GTGGTTGGCGTACATGGATG 59.267 55.000 0.00 0.00 0.00 3.51
4107 4800 0.326595 TGGTTGGCGTACATGGATGT 59.673 50.000 0.00 0.00 44.48 3.06
4108 4801 1.271652 TGGTTGGCGTACATGGATGTT 60.272 47.619 0.00 0.00 41.97 2.71
4109 4802 2.027100 TGGTTGGCGTACATGGATGTTA 60.027 45.455 0.00 0.00 41.97 2.41
4110 4803 3.011119 GGTTGGCGTACATGGATGTTAA 58.989 45.455 0.00 0.00 41.97 2.01
4111 4804 3.181504 GGTTGGCGTACATGGATGTTAAC 60.182 47.826 0.00 0.00 41.97 2.01
4112 4805 2.634600 TGGCGTACATGGATGTTAACC 58.365 47.619 2.48 0.00 41.97 2.85
4113 4806 2.237643 TGGCGTACATGGATGTTAACCT 59.762 45.455 2.48 0.00 41.97 3.50
4114 4807 2.870411 GGCGTACATGGATGTTAACCTC 59.130 50.000 2.48 2.50 41.97 3.85
4115 4808 3.431766 GGCGTACATGGATGTTAACCTCT 60.432 47.826 10.23 0.00 41.97 3.69
4116 4809 4.189231 GCGTACATGGATGTTAACCTCTT 58.811 43.478 10.23 0.00 41.97 2.85
4117 4810 4.270325 GCGTACATGGATGTTAACCTCTTC 59.730 45.833 10.23 0.00 41.97 2.87
4118 4811 5.661458 CGTACATGGATGTTAACCTCTTCT 58.339 41.667 10.23 0.00 41.97 2.85
4119 4812 5.520288 CGTACATGGATGTTAACCTCTTCTG 59.480 44.000 10.23 8.03 41.97 3.02
4120 4813 4.848357 ACATGGATGTTAACCTCTTCTGG 58.152 43.478 10.23 0.00 37.90 3.86
4121 4814 4.289672 ACATGGATGTTAACCTCTTCTGGT 59.710 41.667 10.23 0.00 38.95 4.00
4122 4815 5.487488 ACATGGATGTTAACCTCTTCTGGTA 59.513 40.000 10.23 0.00 37.20 3.25
4123 4816 6.012858 ACATGGATGTTAACCTCTTCTGGTAA 60.013 38.462 10.23 0.00 37.20 2.85
4124 4817 6.442541 TGGATGTTAACCTCTTCTGGTAAA 57.557 37.500 10.23 0.00 39.83 2.01
4125 4818 7.027874 TGGATGTTAACCTCTTCTGGTAAAT 57.972 36.000 10.23 0.00 39.83 1.40
4126 4819 7.466804 TGGATGTTAACCTCTTCTGGTAAATT 58.533 34.615 10.23 0.00 39.83 1.82
4127 4820 7.947890 TGGATGTTAACCTCTTCTGGTAAATTT 59.052 33.333 10.23 0.00 39.83 1.82
4128 4821 8.803235 GGATGTTAACCTCTTCTGGTAAATTTT 58.197 33.333 10.23 0.00 39.83 1.82
4129 4822 9.841880 GATGTTAACCTCTTCTGGTAAATTTTC 57.158 33.333 2.48 0.00 39.83 2.29
4130 4823 8.990163 TGTTAACCTCTTCTGGTAAATTTTCT 57.010 30.769 2.48 0.00 39.83 2.52
4131 4824 8.846211 TGTTAACCTCTTCTGGTAAATTTTCTG 58.154 33.333 2.48 0.00 39.83 3.02
4132 4825 8.847196 GTTAACCTCTTCTGGTAAATTTTCTGT 58.153 33.333 0.00 0.00 39.83 3.41
4133 4826 7.898014 AACCTCTTCTGGTAAATTTTCTGTT 57.102 32.000 0.00 0.00 39.83 3.16
4134 4827 8.990163 AACCTCTTCTGGTAAATTTTCTGTTA 57.010 30.769 0.00 0.00 39.83 2.41
4135 4828 8.622948 ACCTCTTCTGGTAAATTTTCTGTTAG 57.377 34.615 0.00 0.00 38.79 2.34
4136 4829 7.665974 ACCTCTTCTGGTAAATTTTCTGTTAGG 59.334 37.037 0.00 0.00 38.79 2.69
4137 4830 7.665974 CCTCTTCTGGTAAATTTTCTGTTAGGT 59.334 37.037 0.00 0.00 0.00 3.08
4138 4831 8.617290 TCTTCTGGTAAATTTTCTGTTAGGTC 57.383 34.615 0.00 0.00 0.00 3.85
4139 4832 8.437575 TCTTCTGGTAAATTTTCTGTTAGGTCT 58.562 33.333 0.00 0.00 0.00 3.85
4140 4833 8.990163 TTCTGGTAAATTTTCTGTTAGGTCTT 57.010 30.769 0.00 0.00 0.00 3.01
4141 4834 8.990163 TCTGGTAAATTTTCTGTTAGGTCTTT 57.010 30.769 0.00 0.00 0.00 2.52
4142 4835 8.846211 TCTGGTAAATTTTCTGTTAGGTCTTTG 58.154 33.333 0.00 0.00 0.00 2.77
4143 4836 8.528044 TGGTAAATTTTCTGTTAGGTCTTTGT 57.472 30.769 0.00 0.00 0.00 2.83
4144 4837 9.629878 TGGTAAATTTTCTGTTAGGTCTTTGTA 57.370 29.630 0.00 0.00 0.00 2.41
4153 4846 8.474710 TCTGTTAGGTCTTTGTATACTATCCC 57.525 38.462 4.17 0.00 0.00 3.85
4154 4847 8.063153 TCTGTTAGGTCTTTGTATACTATCCCA 58.937 37.037 4.17 0.00 0.00 4.37
4155 4848 8.246430 TGTTAGGTCTTTGTATACTATCCCAG 57.754 38.462 4.17 0.00 0.00 4.45
4156 4849 8.063153 TGTTAGGTCTTTGTATACTATCCCAGA 58.937 37.037 4.17 0.00 0.00 3.86
4157 4850 8.578151 GTTAGGTCTTTGTATACTATCCCAGAG 58.422 40.741 4.17 0.00 0.00 3.35
4158 4851 6.078664 AGGTCTTTGTATACTATCCCAGAGG 58.921 44.000 4.17 0.00 0.00 3.69
4159 4852 5.279556 GGTCTTTGTATACTATCCCAGAGGC 60.280 48.000 4.17 0.00 0.00 4.70
4160 4853 5.540719 GTCTTTGTATACTATCCCAGAGGCT 59.459 44.000 4.17 0.00 0.00 4.58
4161 4854 6.720288 GTCTTTGTATACTATCCCAGAGGCTA 59.280 42.308 4.17 0.00 0.00 3.93
4162 4855 6.948886 TCTTTGTATACTATCCCAGAGGCTAG 59.051 42.308 4.17 0.00 37.79 3.42
4163 4856 5.862422 TGTATACTATCCCAGAGGCTAGT 57.138 43.478 4.17 1.65 45.15 2.57
4164 4857 6.215515 TGTATACTATCCCAGAGGCTAGTT 57.784 41.667 4.17 0.00 41.36 2.24
4165 4858 7.339177 TGTATACTATCCCAGAGGCTAGTTA 57.661 40.000 4.17 0.00 41.36 2.24
4166 4859 7.762610 TGTATACTATCCCAGAGGCTAGTTAA 58.237 38.462 4.17 0.00 41.36 2.01
4167 4860 8.229605 TGTATACTATCCCAGAGGCTAGTTAAA 58.770 37.037 4.17 0.00 41.36 1.52
4168 4861 5.873146 ACTATCCCAGAGGCTAGTTAAAC 57.127 43.478 0.00 0.00 41.36 2.01
4169 4862 5.530243 ACTATCCCAGAGGCTAGTTAAACT 58.470 41.667 0.00 0.00 41.36 2.66
4170 4863 6.680540 ACTATCCCAGAGGCTAGTTAAACTA 58.319 40.000 0.00 0.00 41.36 2.24
4187 4880 9.528489 AGTTAAACTAGATGCCCATTTAAGAAA 57.472 29.630 0.00 0.00 0.00 2.52
4205 4898 9.743057 TTTAAGAAAATGTGGTACATGAAAGTG 57.257 29.630 0.00 0.00 44.52 3.16
4206 4899 5.772521 AGAAAATGTGGTACATGAAAGTGC 58.227 37.500 0.00 0.00 44.52 4.40
4207 4900 4.519540 AAATGTGGTACATGAAAGTGCC 57.480 40.909 0.00 0.00 44.52 5.01
4208 4901 1.904287 TGTGGTACATGAAAGTGCCC 58.096 50.000 0.00 0.00 44.52 5.36
4209 4902 0.802494 GTGGTACATGAAAGTGCCCG 59.198 55.000 0.00 0.00 44.52 6.13
4210 4903 0.398696 TGGTACATGAAAGTGCCCGT 59.601 50.000 0.00 0.00 42.80 5.28
4211 4904 0.802494 GGTACATGAAAGTGCCCGTG 59.198 55.000 0.00 0.00 38.21 4.94
4212 4905 1.609580 GGTACATGAAAGTGCCCGTGA 60.610 52.381 0.00 0.00 38.21 4.35
4213 4906 2.147958 GTACATGAAAGTGCCCGTGAA 58.852 47.619 0.00 0.00 0.00 3.18
4214 4907 1.686355 ACATGAAAGTGCCCGTGAAA 58.314 45.000 0.00 0.00 0.00 2.69
4215 4908 2.028130 ACATGAAAGTGCCCGTGAAAA 58.972 42.857 0.00 0.00 0.00 2.29
4216 4909 2.627699 ACATGAAAGTGCCCGTGAAAAT 59.372 40.909 0.00 0.00 0.00 1.82
4217 4910 3.244976 CATGAAAGTGCCCGTGAAAATC 58.755 45.455 0.00 0.00 0.00 2.17
4218 4911 2.302260 TGAAAGTGCCCGTGAAAATCA 58.698 42.857 0.00 0.00 0.00 2.57
4219 4912 2.690497 TGAAAGTGCCCGTGAAAATCAA 59.310 40.909 0.00 0.00 0.00 2.57
4220 4913 3.131223 TGAAAGTGCCCGTGAAAATCAAA 59.869 39.130 0.00 0.00 0.00 2.69
4221 4914 3.369546 AAGTGCCCGTGAAAATCAAAG 57.630 42.857 0.00 0.00 0.00 2.77
4222 4915 2.306847 AGTGCCCGTGAAAATCAAAGT 58.693 42.857 0.00 0.00 0.00 2.66
4223 4916 2.693074 AGTGCCCGTGAAAATCAAAGTT 59.307 40.909 0.00 0.00 0.00 2.66
4224 4917 3.049912 GTGCCCGTGAAAATCAAAGTTC 58.950 45.455 0.00 0.00 0.00 3.01
4225 4918 2.955660 TGCCCGTGAAAATCAAAGTTCT 59.044 40.909 0.00 0.00 0.00 3.01
4226 4919 3.383185 TGCCCGTGAAAATCAAAGTTCTT 59.617 39.130 0.00 0.00 0.00 2.52
4227 4920 4.142049 TGCCCGTGAAAATCAAAGTTCTTT 60.142 37.500 0.00 0.00 0.00 2.52
4228 4921 4.808895 GCCCGTGAAAATCAAAGTTCTTTT 59.191 37.500 0.00 0.00 0.00 2.27
4229 4922 5.293324 GCCCGTGAAAATCAAAGTTCTTTTT 59.707 36.000 0.00 0.00 0.00 1.94
4253 4946 7.602517 TTTTGTGTGGTTGATGTTTAAAAGG 57.397 32.000 0.00 0.00 0.00 3.11
4254 4947 6.531503 TTGTGTGGTTGATGTTTAAAAGGA 57.468 33.333 0.00 0.00 0.00 3.36
4255 4948 6.142818 TGTGTGGTTGATGTTTAAAAGGAG 57.857 37.500 0.00 0.00 0.00 3.69
4256 4949 5.654650 TGTGTGGTTGATGTTTAAAAGGAGT 59.345 36.000 0.00 0.00 0.00 3.85
4257 4950 6.829298 TGTGTGGTTGATGTTTAAAAGGAGTA 59.171 34.615 0.00 0.00 0.00 2.59
4258 4951 7.504238 TGTGTGGTTGATGTTTAAAAGGAGTAT 59.496 33.333 0.00 0.00 0.00 2.12
4259 4952 8.357402 GTGTGGTTGATGTTTAAAAGGAGTATT 58.643 33.333 0.00 0.00 0.00 1.89
4260 4953 8.919145 TGTGGTTGATGTTTAAAAGGAGTATTT 58.081 29.630 0.00 0.00 0.00 1.40
4261 4954 9.758651 GTGGTTGATGTTTAAAAGGAGTATTTT 57.241 29.630 0.00 0.00 36.40 1.82
4262 4955 9.757227 TGGTTGATGTTTAAAAGGAGTATTTTG 57.243 29.630 0.00 0.00 34.35 2.44
4263 4956 9.974980 GGTTGATGTTTAAAAGGAGTATTTTGA 57.025 29.630 0.00 0.00 34.35 2.69
4272 4965 9.635520 TTAAAAGGAGTATTTTGACTAGAGACG 57.364 33.333 0.00 0.00 34.35 4.18
4273 4966 6.837471 AAGGAGTATTTTGACTAGAGACGT 57.163 37.500 0.00 0.00 0.00 4.34
4274 4967 6.439675 AGGAGTATTTTGACTAGAGACGTC 57.560 41.667 7.70 7.70 0.00 4.34
4275 4968 6.181908 AGGAGTATTTTGACTAGAGACGTCT 58.818 40.000 20.18 20.18 36.75 4.18
4276 4969 6.660094 AGGAGTATTTTGACTAGAGACGTCTT 59.340 38.462 21.08 12.03 33.84 3.01
4277 4970 7.828223 AGGAGTATTTTGACTAGAGACGTCTTA 59.172 37.037 21.08 12.52 33.84 2.10
4278 4971 8.124199 GGAGTATTTTGACTAGAGACGTCTTAG 58.876 40.741 21.08 21.95 33.84 2.18
4287 4980 9.616156 TGACTAGAGACGTCTTAGATAAAAGAT 57.384 33.333 27.08 12.28 37.78 2.40
4325 5018 7.173907 AGTGATAGATGTTTGTTTTGTGAGGAG 59.826 37.037 0.00 0.00 0.00 3.69
4355 5048 5.480073 AGCTATAGACCCTCTATTTCTGCAG 59.520 44.000 7.63 7.63 40.06 4.41
4356 5049 2.998316 AGACCCTCTATTTCTGCAGC 57.002 50.000 9.47 0.00 0.00 5.25
4391 5084 8.196771 GCTAGATATATCTGGAGTTCTGGATTG 58.803 40.741 25.58 0.00 37.57 2.67
4430 5123 8.717821 TGTTTTGGTATTGATTTTCGAGTAGAG 58.282 33.333 0.00 0.00 0.00 2.43
4478 5171 3.118884 TGTTAGCCTTCGATGGTAAGGAC 60.119 47.826 17.82 10.50 45.41 3.85
4479 5172 1.568504 AGCCTTCGATGGTAAGGACA 58.431 50.000 17.82 0.00 45.41 4.02
4492 5185 5.381757 TGGTAAGGACACACAGCTAATTTT 58.618 37.500 0.00 0.00 0.00 1.82
4570 5263 3.012518 CCCTTTTGATCCTACAGCAGTG 58.987 50.000 0.00 0.00 0.00 3.66
4603 5296 2.888834 TTTTTGCTGGCTGACCTTTC 57.111 45.000 0.00 0.00 36.63 2.62
4689 5399 1.644786 CCATCGTCGAAAAGGGTGGC 61.645 60.000 0.00 0.00 37.23 5.01
4690 5400 0.953471 CATCGTCGAAAAGGGTGGCA 60.953 55.000 0.00 0.00 0.00 4.92
4734 5444 0.466189 AGGTGGCTGTGAACTTGGTG 60.466 55.000 0.00 0.00 0.00 4.17
4743 5453 2.234908 TGTGAACTTGGTGGGTTTTTGG 59.765 45.455 0.00 0.00 0.00 3.28
4747 5457 1.199615 CTTGGTGGGTTTTTGGTGGT 58.800 50.000 0.00 0.00 0.00 4.16
4748 5458 2.292323 ACTTGGTGGGTTTTTGGTGGTA 60.292 45.455 0.00 0.00 0.00 3.25
4749 5459 1.777941 TGGTGGGTTTTTGGTGGTAC 58.222 50.000 0.00 0.00 0.00 3.34
4750 5460 1.288335 TGGTGGGTTTTTGGTGGTACT 59.712 47.619 0.00 0.00 0.00 2.73
4751 5461 1.958579 GGTGGGTTTTTGGTGGTACTC 59.041 52.381 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1812 2503 2.707849 AATCCGTGCGGCTAGACGT 61.708 57.895 21.21 0.00 33.66 4.34
2004 2695 1.098050 GCATACCAAGTGCCAAGAGG 58.902 55.000 0.00 0.00 36.61 3.69
2058 2749 0.324614 ACAGGGCAATCACATCACGA 59.675 50.000 0.00 0.00 0.00 4.35
2287 2978 3.192422 GCCATATCTGCGAGTAGTGAGAT 59.808 47.826 0.00 0.00 0.00 2.75
2419 3110 4.081531 CCCAAGCAAAGCAGGATCAATTAA 60.082 41.667 0.00 0.00 0.00 1.40
2538 3229 0.391793 GGCTAGTCCTTGGCTGTGAC 60.392 60.000 0.00 0.00 0.00 3.67
2726 3417 4.276678 TGATTTGTTCTTCAGCAGGTTGAG 59.723 41.667 0.00 0.00 0.00 3.02
2749 3440 2.734755 TTAGCTGTGCCTGGCATAAT 57.265 45.000 26.22 15.44 41.91 1.28
2886 3577 6.831353 TCTCTCTTAACAAATGGACAAAACCA 59.169 34.615 0.00 0.00 44.41 3.67
2990 3681 6.388394 AGGCCTTAATTCCTGAGAGAATACTT 59.612 38.462 0.00 0.00 35.40 2.24
3309 4000 1.136147 GGCACTTGCATTCTCAGCG 59.864 57.895 3.15 0.00 44.36 5.18
3797 4490 8.373048 TCAACTTGTATTTCGTAATTGTGACT 57.627 30.769 0.00 0.00 0.00 3.41
3800 4493 8.839914 CACATCAACTTGTATTTCGTAATTGTG 58.160 33.333 0.00 0.00 0.00 3.33
3921 4614 4.101119 TGGGCATCTAGTTTAACTAGCCTC 59.899 45.833 23.14 16.36 45.93 4.70
3996 4689 3.753294 AAACACCAACCACACACAAAA 57.247 38.095 0.00 0.00 0.00 2.44
3997 4690 4.866508 TTAAACACCAACCACACACAAA 57.133 36.364 0.00 0.00 0.00 2.83
4043 4736 6.889198 TCCCACTCCACATCTTTTATCTAAG 58.111 40.000 0.00 0.00 0.00 2.18
4044 4737 6.126768 CCTCCCACTCCACATCTTTTATCTAA 60.127 42.308 0.00 0.00 0.00 2.10
4047 4740 4.080299 ACCTCCCACTCCACATCTTTTATC 60.080 45.833 0.00 0.00 0.00 1.75
4048 4741 3.852578 ACCTCCCACTCCACATCTTTTAT 59.147 43.478 0.00 0.00 0.00 1.40
4049 4742 3.009033 CACCTCCCACTCCACATCTTTTA 59.991 47.826 0.00 0.00 0.00 1.52
4050 4743 2.065799 ACCTCCCACTCCACATCTTTT 58.934 47.619 0.00 0.00 0.00 2.27
4051 4744 1.352352 CACCTCCCACTCCACATCTTT 59.648 52.381 0.00 0.00 0.00 2.52
4052 4745 0.987294 CACCTCCCACTCCACATCTT 59.013 55.000 0.00 0.00 0.00 2.40
4053 4746 0.117140 TCACCTCCCACTCCACATCT 59.883 55.000 0.00 0.00 0.00 2.90
4054 4747 1.207791 ATCACCTCCCACTCCACATC 58.792 55.000 0.00 0.00 0.00 3.06
4055 4748 2.023015 TCTATCACCTCCCACTCCACAT 60.023 50.000 0.00 0.00 0.00 3.21
4056 4749 1.361197 TCTATCACCTCCCACTCCACA 59.639 52.381 0.00 0.00 0.00 4.17
4057 4750 2.160721 TCTATCACCTCCCACTCCAC 57.839 55.000 0.00 0.00 0.00 4.02
4058 4751 2.023015 ACATCTATCACCTCCCACTCCA 60.023 50.000 0.00 0.00 0.00 3.86
4059 4752 2.683768 ACATCTATCACCTCCCACTCC 58.316 52.381 0.00 0.00 0.00 3.85
4060 4753 4.080863 ACAAACATCTATCACCTCCCACTC 60.081 45.833 0.00 0.00 0.00 3.51
4061 4754 3.846588 ACAAACATCTATCACCTCCCACT 59.153 43.478 0.00 0.00 0.00 4.00
4062 4755 4.222124 ACAAACATCTATCACCTCCCAC 57.778 45.455 0.00 0.00 0.00 4.61
4063 4756 4.927267 AACAAACATCTATCACCTCCCA 57.073 40.909 0.00 0.00 0.00 4.37
4064 4757 5.476945 ACAAAACAAACATCTATCACCTCCC 59.523 40.000 0.00 0.00 0.00 4.30
4065 4758 6.381801 CACAAAACAAACATCTATCACCTCC 58.618 40.000 0.00 0.00 0.00 4.30
4066 4759 6.016276 ACCACAAAACAAACATCTATCACCTC 60.016 38.462 0.00 0.00 0.00 3.85
4067 4760 5.833131 ACCACAAAACAAACATCTATCACCT 59.167 36.000 0.00 0.00 0.00 4.00
4068 4761 6.084326 ACCACAAAACAAACATCTATCACC 57.916 37.500 0.00 0.00 0.00 4.02
4069 4762 6.420604 CCAACCACAAAACAAACATCTATCAC 59.579 38.462 0.00 0.00 0.00 3.06
4070 4763 6.511416 CCAACCACAAAACAAACATCTATCA 58.489 36.000 0.00 0.00 0.00 2.15
4071 4764 5.405269 GCCAACCACAAAACAAACATCTATC 59.595 40.000 0.00 0.00 0.00 2.08
4072 4765 5.296748 GCCAACCACAAAACAAACATCTAT 58.703 37.500 0.00 0.00 0.00 1.98
4073 4766 4.688021 GCCAACCACAAAACAAACATCTA 58.312 39.130 0.00 0.00 0.00 1.98
4074 4767 3.530535 GCCAACCACAAAACAAACATCT 58.469 40.909 0.00 0.00 0.00 2.90
4075 4768 2.283884 CGCCAACCACAAAACAAACATC 59.716 45.455 0.00 0.00 0.00 3.06
4076 4769 2.275318 CGCCAACCACAAAACAAACAT 58.725 42.857 0.00 0.00 0.00 2.71
4077 4770 1.000955 ACGCCAACCACAAAACAAACA 59.999 42.857 0.00 0.00 0.00 2.83
4078 4771 1.715993 ACGCCAACCACAAAACAAAC 58.284 45.000 0.00 0.00 0.00 2.93
4079 4772 2.230508 TGTACGCCAACCACAAAACAAA 59.769 40.909 0.00 0.00 0.00 2.83
4080 4773 1.816835 TGTACGCCAACCACAAAACAA 59.183 42.857 0.00 0.00 0.00 2.83
4081 4774 1.460504 TGTACGCCAACCACAAAACA 58.539 45.000 0.00 0.00 0.00 2.83
4082 4775 2.389998 CATGTACGCCAACCACAAAAC 58.610 47.619 0.00 0.00 0.00 2.43
4083 4776 1.338337 CCATGTACGCCAACCACAAAA 59.662 47.619 0.00 0.00 0.00 2.44
4084 4777 0.955178 CCATGTACGCCAACCACAAA 59.045 50.000 0.00 0.00 0.00 2.83
4085 4778 0.108774 TCCATGTACGCCAACCACAA 59.891 50.000 0.00 0.00 0.00 3.33
4086 4779 0.326595 ATCCATGTACGCCAACCACA 59.673 50.000 0.00 0.00 0.00 4.17
4087 4780 0.732571 CATCCATGTACGCCAACCAC 59.267 55.000 0.00 0.00 0.00 4.16
4088 4781 0.326595 ACATCCATGTACGCCAACCA 59.673 50.000 0.00 0.00 39.68 3.67
4089 4782 1.459450 AACATCCATGTACGCCAACC 58.541 50.000 0.00 0.00 40.80 3.77
4090 4783 3.181504 GGTTAACATCCATGTACGCCAAC 60.182 47.826 8.10 0.00 40.80 3.77
4091 4784 3.011119 GGTTAACATCCATGTACGCCAA 58.989 45.455 8.10 0.00 40.80 4.52
4092 4785 2.237643 AGGTTAACATCCATGTACGCCA 59.762 45.455 8.10 0.00 40.80 5.69
4093 4786 2.870411 GAGGTTAACATCCATGTACGCC 59.130 50.000 9.10 0.00 40.80 5.68
4094 4787 3.793559 AGAGGTTAACATCCATGTACGC 58.206 45.455 16.21 0.00 40.80 4.42
4095 4788 5.520288 CAGAAGAGGTTAACATCCATGTACG 59.480 44.000 16.21 0.00 40.80 3.67
4096 4789 5.817816 CCAGAAGAGGTTAACATCCATGTAC 59.182 44.000 16.21 3.03 40.80 2.90
4097 4790 5.487488 ACCAGAAGAGGTTAACATCCATGTA 59.513 40.000 16.21 0.00 39.34 2.29
4098 4791 4.289672 ACCAGAAGAGGTTAACATCCATGT 59.710 41.667 16.21 2.40 39.34 3.21
4099 4792 4.848357 ACCAGAAGAGGTTAACATCCATG 58.152 43.478 16.21 12.03 39.34 3.66
4100 4793 6.636454 TTACCAGAAGAGGTTAACATCCAT 57.364 37.500 16.21 6.28 43.08 3.41
4101 4794 6.442541 TTTACCAGAAGAGGTTAACATCCA 57.557 37.500 16.21 0.00 43.08 3.41
4102 4795 7.939784 AATTTACCAGAAGAGGTTAACATCC 57.060 36.000 16.21 2.75 43.08 3.51
4103 4796 9.841880 GAAAATTTACCAGAAGAGGTTAACATC 57.158 33.333 12.25 12.25 43.08 3.06
4104 4797 9.588096 AGAAAATTTACCAGAAGAGGTTAACAT 57.412 29.630 8.10 0.00 43.08 2.71
4105 4798 8.846211 CAGAAAATTTACCAGAAGAGGTTAACA 58.154 33.333 8.10 0.00 43.08 2.41
4106 4799 8.847196 ACAGAAAATTTACCAGAAGAGGTTAAC 58.153 33.333 0.00 0.00 43.08 2.01
4107 4800 8.990163 ACAGAAAATTTACCAGAAGAGGTTAA 57.010 30.769 0.00 0.00 43.08 2.01
4108 4801 8.990163 AACAGAAAATTTACCAGAAGAGGTTA 57.010 30.769 0.00 0.00 43.08 2.85
4109 4802 7.898014 AACAGAAAATTTACCAGAAGAGGTT 57.102 32.000 0.00 0.00 43.08 3.50
4110 4803 7.665974 CCTAACAGAAAATTTACCAGAAGAGGT 59.334 37.037 0.00 0.00 45.72 3.85
4111 4804 7.665974 ACCTAACAGAAAATTTACCAGAAGAGG 59.334 37.037 0.00 0.00 0.00 3.69
4112 4805 8.622948 ACCTAACAGAAAATTTACCAGAAGAG 57.377 34.615 0.00 0.00 0.00 2.85
4113 4806 8.437575 AGACCTAACAGAAAATTTACCAGAAGA 58.562 33.333 0.00 0.00 0.00 2.87
4114 4807 8.622948 AGACCTAACAGAAAATTTACCAGAAG 57.377 34.615 0.00 0.00 0.00 2.85
4115 4808 8.990163 AAGACCTAACAGAAAATTTACCAGAA 57.010 30.769 0.00 0.00 0.00 3.02
4116 4809 8.846211 CAAAGACCTAACAGAAAATTTACCAGA 58.154 33.333 0.00 0.00 0.00 3.86
4117 4810 8.630037 ACAAAGACCTAACAGAAAATTTACCAG 58.370 33.333 0.00 0.00 0.00 4.00
4118 4811 8.528044 ACAAAGACCTAACAGAAAATTTACCA 57.472 30.769 0.00 0.00 0.00 3.25
4127 4820 8.921205 GGGATAGTATACAAAGACCTAACAGAA 58.079 37.037 5.50 0.00 0.00 3.02
4128 4821 8.063153 TGGGATAGTATACAAAGACCTAACAGA 58.937 37.037 5.50 0.00 0.00 3.41
4129 4822 8.246430 TGGGATAGTATACAAAGACCTAACAG 57.754 38.462 5.50 0.00 0.00 3.16
4130 4823 8.063153 TCTGGGATAGTATACAAAGACCTAACA 58.937 37.037 5.50 0.00 0.00 2.41
4131 4824 8.474710 TCTGGGATAGTATACAAAGACCTAAC 57.525 38.462 5.50 0.00 0.00 2.34
4132 4825 7.728981 CCTCTGGGATAGTATACAAAGACCTAA 59.271 40.741 5.50 0.00 33.58 2.69
4133 4826 7.239438 CCTCTGGGATAGTATACAAAGACCTA 58.761 42.308 5.50 0.00 33.58 3.08
4134 4827 6.078664 CCTCTGGGATAGTATACAAAGACCT 58.921 44.000 5.50 0.00 33.58 3.85
4135 4828 5.279556 GCCTCTGGGATAGTATACAAAGACC 60.280 48.000 5.50 1.54 33.58 3.85
4136 4829 5.540719 AGCCTCTGGGATAGTATACAAAGAC 59.459 44.000 5.50 0.00 33.58 3.01
4137 4830 5.716979 AGCCTCTGGGATAGTATACAAAGA 58.283 41.667 5.50 0.00 33.58 2.52
4138 4831 7.164230 CTAGCCTCTGGGATAGTATACAAAG 57.836 44.000 5.50 0.00 44.17 2.77
4148 4841 6.919158 TCTAGTTTAACTAGCCTCTGGGATA 58.081 40.000 23.14 3.59 45.93 2.59
4149 4842 5.778542 TCTAGTTTAACTAGCCTCTGGGAT 58.221 41.667 23.14 0.00 45.93 3.85
4150 4843 5.202746 TCTAGTTTAACTAGCCTCTGGGA 57.797 43.478 23.14 5.10 45.93 4.37
4151 4844 5.740513 GCATCTAGTTTAACTAGCCTCTGGG 60.741 48.000 23.14 10.48 45.93 4.45
4152 4845 5.293560 GCATCTAGTTTAACTAGCCTCTGG 58.706 45.833 23.14 11.56 45.93 3.86
4153 4846 5.293560 GGCATCTAGTTTAACTAGCCTCTG 58.706 45.833 23.14 17.75 45.93 3.35
4154 4847 4.345547 GGGCATCTAGTTTAACTAGCCTCT 59.654 45.833 23.14 8.34 45.93 3.69
4155 4848 4.101119 TGGGCATCTAGTTTAACTAGCCTC 59.899 45.833 23.14 16.36 45.93 4.70
4156 4849 4.037927 TGGGCATCTAGTTTAACTAGCCT 58.962 43.478 23.14 12.49 45.93 4.58
4157 4850 4.417426 TGGGCATCTAGTTTAACTAGCC 57.583 45.455 23.14 21.13 45.93 3.93
4158 4851 6.944234 AAATGGGCATCTAGTTTAACTAGC 57.056 37.500 23.14 14.62 45.93 3.42
4161 4854 9.528489 TTTCTTAAATGGGCATCTAGTTTAACT 57.472 29.630 2.32 2.32 0.00 2.24
4179 4872 9.743057 CACTTTCATGTACCACATTTTCTTAAA 57.257 29.630 0.00 0.00 36.53 1.52
4180 4873 7.865385 GCACTTTCATGTACCACATTTTCTTAA 59.135 33.333 0.00 0.00 36.53 1.85
4181 4874 7.367285 GCACTTTCATGTACCACATTTTCTTA 58.633 34.615 0.00 0.00 36.53 2.10
4182 4875 6.215845 GCACTTTCATGTACCACATTTTCTT 58.784 36.000 0.00 0.00 36.53 2.52
4183 4876 5.278957 GGCACTTTCATGTACCACATTTTCT 60.279 40.000 0.00 0.00 36.53 2.52
4184 4877 4.923281 GGCACTTTCATGTACCACATTTTC 59.077 41.667 0.00 0.00 36.53 2.29
4185 4878 4.262420 GGGCACTTTCATGTACCACATTTT 60.262 41.667 0.00 0.00 36.53 1.82
4186 4879 3.258123 GGGCACTTTCATGTACCACATTT 59.742 43.478 0.00 0.00 36.53 2.32
4187 4880 2.825532 GGGCACTTTCATGTACCACATT 59.174 45.455 0.00 0.00 36.53 2.71
4188 4881 2.446435 GGGCACTTTCATGTACCACAT 58.554 47.619 0.00 0.00 39.91 3.21
4189 4882 1.880221 CGGGCACTTTCATGTACCACA 60.880 52.381 0.00 0.00 0.00 4.17
4190 4883 0.802494 CGGGCACTTTCATGTACCAC 59.198 55.000 0.00 0.00 0.00 4.16
4191 4884 0.398696 ACGGGCACTTTCATGTACCA 59.601 50.000 0.00 0.00 0.00 3.25
4192 4885 0.802494 CACGGGCACTTTCATGTACC 59.198 55.000 0.00 0.00 0.00 3.34
4193 4886 1.803334 TCACGGGCACTTTCATGTAC 58.197 50.000 0.00 0.00 0.00 2.90
4194 4887 2.552599 TTCACGGGCACTTTCATGTA 57.447 45.000 0.00 0.00 0.00 2.29
4195 4888 1.686355 TTTCACGGGCACTTTCATGT 58.314 45.000 0.00 0.00 0.00 3.21
4196 4889 2.791383 TTTTCACGGGCACTTTCATG 57.209 45.000 0.00 0.00 0.00 3.07
4197 4890 2.890311 TGATTTTCACGGGCACTTTCAT 59.110 40.909 0.00 0.00 0.00 2.57
4198 4891 2.302260 TGATTTTCACGGGCACTTTCA 58.698 42.857 0.00 0.00 0.00 2.69
4199 4892 3.363341 TTGATTTTCACGGGCACTTTC 57.637 42.857 0.00 0.00 0.00 2.62
4200 4893 3.132111 ACTTTGATTTTCACGGGCACTTT 59.868 39.130 0.00 0.00 0.00 2.66
4201 4894 2.693074 ACTTTGATTTTCACGGGCACTT 59.307 40.909 0.00 0.00 0.00 3.16
4202 4895 2.306847 ACTTTGATTTTCACGGGCACT 58.693 42.857 0.00 0.00 0.00 4.40
4203 4896 2.793278 ACTTTGATTTTCACGGGCAC 57.207 45.000 0.00 0.00 0.00 5.01
4204 4897 2.955660 AGAACTTTGATTTTCACGGGCA 59.044 40.909 0.00 0.00 0.00 5.36
4205 4898 3.643159 AGAACTTTGATTTTCACGGGC 57.357 42.857 0.00 0.00 0.00 6.13
4206 4899 6.902224 AAAAAGAACTTTGATTTTCACGGG 57.098 33.333 0.45 0.00 32.36 5.28
4228 4921 7.878127 TCCTTTTAAACATCAACCACACAAAAA 59.122 29.630 0.00 0.00 0.00 1.94
4229 4922 7.386851 TCCTTTTAAACATCAACCACACAAAA 58.613 30.769 0.00 0.00 0.00 2.44
4230 4923 6.936279 TCCTTTTAAACATCAACCACACAAA 58.064 32.000 0.00 0.00 0.00 2.83
4231 4924 6.153680 ACTCCTTTTAAACATCAACCACACAA 59.846 34.615 0.00 0.00 0.00 3.33
4232 4925 5.654650 ACTCCTTTTAAACATCAACCACACA 59.345 36.000 0.00 0.00 0.00 3.72
4233 4926 6.144078 ACTCCTTTTAAACATCAACCACAC 57.856 37.500 0.00 0.00 0.00 3.82
4234 4927 8.472007 AATACTCCTTTTAAACATCAACCACA 57.528 30.769 0.00 0.00 0.00 4.17
4235 4928 9.758651 AAAATACTCCTTTTAAACATCAACCAC 57.241 29.630 0.00 0.00 0.00 4.16
4236 4929 9.757227 CAAAATACTCCTTTTAAACATCAACCA 57.243 29.630 0.00 0.00 0.00 3.67
4237 4930 9.974980 TCAAAATACTCCTTTTAAACATCAACC 57.025 29.630 0.00 0.00 0.00 3.77
4246 4939 9.635520 CGTCTCTAGTCAAAATACTCCTTTTAA 57.364 33.333 0.00 0.00 0.00 1.52
4247 4940 8.800332 ACGTCTCTAGTCAAAATACTCCTTTTA 58.200 33.333 0.00 0.00 0.00 1.52
4248 4941 7.668492 ACGTCTCTAGTCAAAATACTCCTTTT 58.332 34.615 0.00 0.00 0.00 2.27
4249 4942 7.177041 AGACGTCTCTAGTCAAAATACTCCTTT 59.823 37.037 13.58 0.00 40.84 3.11
4250 4943 6.660094 AGACGTCTCTAGTCAAAATACTCCTT 59.340 38.462 13.58 0.00 40.84 3.36
4251 4944 6.181908 AGACGTCTCTAGTCAAAATACTCCT 58.818 40.000 13.58 0.00 40.84 3.69
4252 4945 6.439675 AGACGTCTCTAGTCAAAATACTCC 57.560 41.667 13.58 0.00 40.84 3.85
4253 4946 8.881743 TCTAAGACGTCTCTAGTCAAAATACTC 58.118 37.037 20.33 0.00 40.84 2.59
4254 4947 8.789825 TCTAAGACGTCTCTAGTCAAAATACT 57.210 34.615 20.33 0.00 40.84 2.12
4260 4953 9.445878 TCTTTTATCTAAGACGTCTCTAGTCAA 57.554 33.333 20.33 15.31 40.84 3.18
4261 4954 9.616156 ATCTTTTATCTAAGACGTCTCTAGTCA 57.384 33.333 20.33 11.19 40.84 3.41
4262 4955 9.872757 CATCTTTTATCTAAGACGTCTCTAGTC 57.127 37.037 20.33 0.00 37.00 2.59
4263 4956 9.398538 ACATCTTTTATCTAAGACGTCTCTAGT 57.601 33.333 20.33 5.53 37.00 2.57
4264 4957 9.658475 CACATCTTTTATCTAAGACGTCTCTAG 57.342 37.037 20.33 20.10 37.00 2.43
4265 4958 8.622157 CCACATCTTTTATCTAAGACGTCTCTA 58.378 37.037 20.33 12.15 37.00 2.43
4266 4959 7.339721 TCCACATCTTTTATCTAAGACGTCTCT 59.660 37.037 20.33 11.63 37.00 3.10
4267 4960 7.481642 TCCACATCTTTTATCTAAGACGTCTC 58.518 38.462 20.33 0.00 37.00 3.36
4268 4961 7.122948 ACTCCACATCTTTTATCTAAGACGTCT 59.877 37.037 13.58 13.58 37.00 4.18
4269 4962 7.221067 CACTCCACATCTTTTATCTAAGACGTC 59.779 40.741 7.70 7.70 37.00 4.34
4270 4963 7.036220 CACTCCACATCTTTTATCTAAGACGT 58.964 38.462 0.00 0.00 37.00 4.34
4271 4964 6.477033 CCACTCCACATCTTTTATCTAAGACG 59.523 42.308 0.00 0.00 37.00 4.18
4272 4965 6.763610 CCCACTCCACATCTTTTATCTAAGAC 59.236 42.308 0.00 0.00 37.00 3.01
4273 4966 6.672218 TCCCACTCCACATCTTTTATCTAAGA 59.328 38.462 0.00 0.00 38.43 2.10
4274 4967 6.889198 TCCCACTCCACATCTTTTATCTAAG 58.111 40.000 0.00 0.00 0.00 2.18
4275 4968 6.884472 TCCCACTCCACATCTTTTATCTAA 57.116 37.500 0.00 0.00 0.00 2.10
4276 4969 6.443849 ACTTCCCACTCCACATCTTTTATCTA 59.556 38.462 0.00 0.00 0.00 1.98
4277 4970 5.251700 ACTTCCCACTCCACATCTTTTATCT 59.748 40.000 0.00 0.00 0.00 1.98
4278 4971 5.355350 CACTTCCCACTCCACATCTTTTATC 59.645 44.000 0.00 0.00 0.00 1.75
4287 4980 3.184382 TCTATCACTTCCCACTCCACA 57.816 47.619 0.00 0.00 0.00 4.17
4355 5048 7.708051 TCCAGATATATCTAGCAATAGAACGC 58.292 38.462 14.92 0.00 34.85 4.84
4356 5049 8.898761 ACTCCAGATATATCTAGCAATAGAACG 58.101 37.037 14.92 0.00 34.85 3.95
4391 5084 8.132362 TCAATACCAAAACACACATTTCACTAC 58.868 33.333 0.00 0.00 0.00 2.73
4478 5171 4.805192 AGCACAACAAAAATTAGCTGTGTG 59.195 37.500 0.00 8.23 37.18 3.82
4479 5172 4.805192 CAGCACAACAAAAATTAGCTGTGT 59.195 37.500 0.00 0.00 42.08 3.72
4570 5263 5.703876 CCAGCAAAAATCCTGAGAAACTAC 58.296 41.667 0.00 0.00 0.00 2.73
4621 5330 1.323271 TTTTGCCCCTTGTCGTTGCA 61.323 50.000 0.00 0.00 0.00 4.08
4689 5399 5.677091 GCAACATTTGACTTACCATAGGCTG 60.677 44.000 0.00 0.00 0.00 4.85
4690 5400 4.399303 GCAACATTTGACTTACCATAGGCT 59.601 41.667 0.00 0.00 0.00 4.58
4734 5444 3.328637 TCCTAGAGTACCACCAAAAACCC 59.671 47.826 0.00 0.00 0.00 4.11
4743 5453 2.946990 GAGCTCAGTCCTAGAGTACCAC 59.053 54.545 9.40 0.00 35.55 4.16
4747 5457 4.577988 AACAGAGCTCAGTCCTAGAGTA 57.422 45.455 17.77 0.00 35.55 2.59
4748 5458 3.449746 AACAGAGCTCAGTCCTAGAGT 57.550 47.619 17.77 0.00 35.55 3.24
4749 5459 4.493547 CAAAACAGAGCTCAGTCCTAGAG 58.506 47.826 17.77 0.00 36.21 2.43
4750 5460 4.527509 CAAAACAGAGCTCAGTCCTAGA 57.472 45.455 17.77 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.