Multiple sequence alignment - TraesCS3D01G329100

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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 TraesCS3D01G329100 chr3D 100.000 4232 0 0 1 4232 442038453 442042684 0.000000e+00 7816
1 TraesCS3D01G329100 chr3D 97.436 78 2 0 4155 4232 416393976 416394053 2.650000e-27 134
2 TraesCS3D01G329100 chr3D 83.607 122 18 1 1 120 300932496 300932617 3.460000e-21 113
3 TraesCS3D01G329100 chr3B 94.918 3975 150 20 215 4160 579283435 579287386 0.000000e+00 6174
4 TraesCS3D01G329100 chr3B 94.918 3975 150 20 215 4160 579300092 579304043 0.000000e+00 6174
5 TraesCS3D01G329100 chr3B 93.617 94 6 0 117 210 579281825 579281918 1.590000e-29 141
6 TraesCS3D01G329100 chr3B 93.617 94 6 0 117 210 579298482 579298575 1.590000e-29 141
7 TraesCS3D01G329100 chr3A 94.836 3350 116 16 821 4160 582940993 582944295 0.000000e+00 5175
8 TraesCS3D01G329100 chr3A 89.233 613 38 10 237 825 582940303 582940911 0.000000e+00 741
9 TraesCS3D01G329100 chr1D 77.444 1565 325 21 1602 3152 446707584 446706034 0.000000e+00 909
10 TraesCS3D01G329100 chr1D 86.066 122 11 5 3 120 121306099 121306218 4.440000e-25 126
11 TraesCS3D01G329100 chr1B 78.080 1469 296 19 1688 3143 611524019 611525474 0.000000e+00 905
12 TraesCS3D01G329100 chr1B 77.448 1481 304 24 1690 3155 543468256 543466791 0.000000e+00 857
13 TraesCS3D01G329100 chr1A 77.943 1478 300 19 1688 3152 542439496 542438032 0.000000e+00 900
14 TraesCS3D01G329100 chr7D 87.705 122 13 2 1 120 3672281 3672160 1.590000e-29 141
15 TraesCS3D01G329100 chr7D 84.921 126 17 1 1 124 620892066 620891941 4.440000e-25 126
16 TraesCS3D01G329100 chr7D 94.805 77 4 0 4156 4232 32685293 32685217 2.070000e-23 121
17 TraesCS3D01G329100 chr4B 87.200 125 14 1 1 123 638157913 638157789 1.590000e-29 141
18 TraesCS3D01G329100 chr4D 100.000 74 0 0 4159 4232 40952271 40952344 2.050000e-28 137
19 TraesCS3D01G329100 chr5D 86.290 124 11 4 1 120 333399795 333399674 3.430000e-26 130
20 TraesCS3D01G329100 chr5D 91.667 84 7 0 4148 4231 423532518 423532435 2.670000e-22 117
21 TraesCS3D01G329100 chr5D 84.426 122 14 3 6 123 54095415 54095295 9.620000e-22 115
22 TraesCS3D01G329100 chr2B 96.104 77 3 0 4156 4232 209075692 209075768 4.440000e-25 126
23 TraesCS3D01G329100 chr6D 96.053 76 3 0 4157 4232 108860647 108860722 1.600000e-24 124
24 TraesCS3D01G329100 chrUn 94.805 77 4 0 4156 4232 70385235 70385159 2.070000e-23 121
25 TraesCS3D01G329100 chr2D 91.765 85 7 0 4148 4232 572692607 572692691 7.430000e-23 119
26 TraesCS3D01G329100 chr2D 92.683 82 5 1 4151 4232 189521613 189521533 2.670000e-22 117
27 TraesCS3D01G329100 chr6B 85.185 108 11 4 16 120 659191112 659191007 5.790000e-19 106
28 TraesCS3D01G329100 chr4A 83.784 111 16 1 12 120 56182119 56182229 2.080000e-18 104


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 TraesCS3D01G329100 chr3D 442038453 442042684 4231 False 7816.0 7816 100.0000 1 4232 1 chr3D.!!$F3 4231
1 TraesCS3D01G329100 chr3B 579281825 579287386 5561 False 3157.5 6174 94.2675 117 4160 2 chr3B.!!$F1 4043
2 TraesCS3D01G329100 chr3B 579298482 579304043 5561 False 3157.5 6174 94.2675 117 4160 2 chr3B.!!$F2 4043
3 TraesCS3D01G329100 chr3A 582940303 582944295 3992 False 2958.0 5175 92.0345 237 4160 2 chr3A.!!$F1 3923
4 TraesCS3D01G329100 chr1D 446706034 446707584 1550 True 909.0 909 77.4440 1602 3152 1 chr1D.!!$R1 1550
5 TraesCS3D01G329100 chr1B 611524019 611525474 1455 False 905.0 905 78.0800 1688 3143 1 chr1B.!!$F1 1455
6 TraesCS3D01G329100 chr1B 543466791 543468256 1465 True 857.0 857 77.4480 1690 3155 1 chr1B.!!$R1 1465
7 TraesCS3D01G329100 chr1A 542438032 542439496 1464 True 900.0 900 77.9430 1688 3152 1 chr1A.!!$R1 1464

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
38 39 0.037975 GTTTAAGGCGTCCGTCTGGA 60.038 55.0 0.0 0.0 43.88 3.86 F
442 1972 0.112412 ACCATCCTCCCACAAACCAC 59.888 55.0 0.0 0.0 0.00 4.16 F
585 2125 0.670546 CAACCGAGGTGCGAATCTGT 60.671 55.0 0.0 0.0 44.57 3.41 F
675 2221 0.836606 CCCACAAAACCCCAGCTTTT 59.163 50.0 0.0 0.0 0.00 2.27 F
2766 4410 0.392595 GGGGTCTTCGTTCATGGGAC 60.393 60.0 0.0 0.0 0.00 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1507 3151 0.671781 GATGCTGACGTCTGGTTGCT 60.672 55.000 21.94 7.00 32.15 3.91 R
2271 3915 1.876156 AGCAGCTTGTACTTGAAGCAC 59.124 47.619 16.20 9.28 46.93 4.40 R
2434 4078 3.244700 CCTGGTCCTTTCTCACTGTCAAT 60.245 47.826 0.00 0.00 0.00 2.57 R
2870 4523 6.350445 CCATTTTAATGTCTTCTCACAAGGGG 60.350 42.308 2.13 0.00 34.60 4.79 R
4161 5820 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20 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
22 23 2.124860 GGCGTATGAGGCCCGTTT 60.125 61.111 0.00 0.00 42.98 3.60
23 24 1.144496 GGCGTATGAGGCCCGTTTA 59.856 57.895 0.00 0.00 42.98 2.01
24 25 0.462403 GGCGTATGAGGCCCGTTTAA 60.462 55.000 0.00 0.00 42.98 1.52
25 26 0.935196 GCGTATGAGGCCCGTTTAAG 59.065 55.000 0.00 0.00 0.00 1.85
26 27 1.578583 CGTATGAGGCCCGTTTAAGG 58.421 55.000 0.00 0.00 0.00 2.69
32 33 3.493440 GCCCGTTTAAGGCGTCCG 61.493 66.667 0.00 0.00 41.41 4.79
33 34 2.047939 CCCGTTTAAGGCGTCCGT 60.048 61.111 0.00 0.00 0.00 4.69
34 35 2.096442 CCCGTTTAAGGCGTCCGTC 61.096 63.158 0.00 0.00 0.00 4.79
35 36 1.080298 CCGTTTAAGGCGTCCGTCT 60.080 57.895 0.00 0.00 0.00 4.18
36 37 1.349259 CCGTTTAAGGCGTCCGTCTG 61.349 60.000 0.00 0.00 0.00 3.51
37 38 1.349259 CGTTTAAGGCGTCCGTCTGG 61.349 60.000 0.00 0.00 0.00 3.86
38 39 0.037975 GTTTAAGGCGTCCGTCTGGA 60.038 55.000 0.00 0.00 43.88 3.86
59 60 3.464207 AAAAACGTGACCGGTCAGT 57.536 47.368 37.04 29.86 40.75 3.41
60 61 1.011333 AAAAACGTGACCGGTCAGTG 58.989 50.000 37.04 31.28 40.75 3.66
61 62 0.176219 AAAACGTGACCGGTCAGTGA 59.824 50.000 37.04 13.40 40.75 3.41
62 63 0.529119 AAACGTGACCGGTCAGTGAC 60.529 55.000 37.04 23.44 40.75 3.67
86 87 4.830765 GCCTGCCCGCACGTATGA 62.831 66.667 0.00 0.00 0.00 2.15
87 88 2.586079 CCTGCCCGCACGTATGAG 60.586 66.667 0.00 0.00 0.00 2.90
88 89 2.586079 CTGCCCGCACGTATGAGG 60.586 66.667 0.00 0.00 44.99 3.86
89 90 4.830765 TGCCCGCACGTATGAGGC 62.831 66.667 10.26 10.26 44.10 4.70
93 94 4.508128 CGCACGTATGAGGCGGGT 62.508 66.667 9.14 0.00 46.46 5.28
94 95 2.125269 GCACGTATGAGGCGGGTT 60.125 61.111 0.00 0.00 34.87 4.11
95 96 1.743995 GCACGTATGAGGCGGGTTT 60.744 57.895 0.00 0.00 34.87 3.27
96 97 0.460635 GCACGTATGAGGCGGGTTTA 60.461 55.000 0.00 0.00 34.87 2.01
97 98 2.008045 GCACGTATGAGGCGGGTTTAA 61.008 52.381 0.00 0.00 34.87 1.52
98 99 1.931172 CACGTATGAGGCGGGTTTAAG 59.069 52.381 0.00 0.00 0.00 1.85
99 100 1.134610 ACGTATGAGGCGGGTTTAAGG 60.135 52.381 0.00 0.00 0.00 2.69
100 101 1.306148 GTATGAGGCGGGTTTAAGGC 58.694 55.000 0.00 0.00 0.00 4.35
101 102 0.913205 TATGAGGCGGGTTTAAGGCA 59.087 50.000 0.00 0.00 35.18 4.75
102 103 0.679960 ATGAGGCGGGTTTAAGGCAC 60.680 55.000 0.00 0.00 35.18 5.01
103 104 2.035155 AGGCGGGTTTAAGGCACC 59.965 61.111 0.00 0.00 35.18 5.01
107 108 3.066190 GGGTTTAAGGCACCCGGC 61.066 66.667 0.00 0.00 44.83 6.13
115 116 2.203070 GGCACCCGGCTGTAGATG 60.203 66.667 0.00 0.00 44.01 2.90
116 117 2.897350 GCACCCGGCTGTAGATGC 60.897 66.667 0.00 0.00 40.25 3.91
117 118 2.903357 CACCCGGCTGTAGATGCT 59.097 61.111 0.00 0.00 0.00 3.79
118 119 1.227380 CACCCGGCTGTAGATGCTC 60.227 63.158 0.00 0.00 0.00 4.26
141 142 7.010923 GCTCTCAGTACCATATTTGAAGTCAAG 59.989 40.741 0.00 0.00 37.15 3.02
165 166 7.550712 AGAAAATTCTGCCAATTCTTATCACC 58.449 34.615 0.00 0.00 35.89 4.02
169 170 2.689983 CTGCCAATTCTTATCACCACCC 59.310 50.000 0.00 0.00 0.00 4.61
170 171 2.042297 TGCCAATTCTTATCACCACCCA 59.958 45.455 0.00 0.00 0.00 4.51
210 211 5.240121 CCAAGAAGCTAACATGCCAAATTT 58.760 37.500 0.00 0.00 0.00 1.82
211 212 5.121142 CCAAGAAGCTAACATGCCAAATTTG 59.879 40.000 11.40 11.40 0.00 2.32
225 226 4.870363 CCAAATTTGGTCATCACGAAACT 58.130 39.130 26.34 0.00 43.43 2.66
227 228 4.503741 AATTTGGTCATCACGAAACTGG 57.496 40.909 0.00 0.00 33.55 4.00
228 229 1.890876 TTGGTCATCACGAAACTGGG 58.109 50.000 0.00 0.00 0.00 4.45
253 1767 6.204108 GGAGTATTGTACATAAATCCGTTGGG 59.796 42.308 8.23 0.00 0.00 4.12
271 1785 3.420893 TGGGGATGCTCTAAAAACACAG 58.579 45.455 0.00 0.00 0.00 3.66
272 1786 2.755103 GGGGATGCTCTAAAAACACAGG 59.245 50.000 0.00 0.00 0.00 4.00
273 1787 3.561313 GGGGATGCTCTAAAAACACAGGA 60.561 47.826 0.00 0.00 0.00 3.86
348 1862 0.611062 TGGTTCTCTGATCCGACGGT 60.611 55.000 14.79 0.67 0.00 4.83
411 1932 0.460311 CTACTTAGTGGGACAGGCCG 59.540 60.000 0.00 0.00 41.80 6.13
436 1966 0.544357 AGACGAACCATCCTCCCACA 60.544 55.000 0.00 0.00 0.00 4.17
437 1967 0.323629 GACGAACCATCCTCCCACAA 59.676 55.000 0.00 0.00 0.00 3.33
438 1968 0.768622 ACGAACCATCCTCCCACAAA 59.231 50.000 0.00 0.00 0.00 2.83
439 1969 1.165270 CGAACCATCCTCCCACAAAC 58.835 55.000 0.00 0.00 0.00 2.93
440 1970 1.545841 GAACCATCCTCCCACAAACC 58.454 55.000 0.00 0.00 0.00 3.27
441 1971 0.856982 AACCATCCTCCCACAAACCA 59.143 50.000 0.00 0.00 0.00 3.67
442 1972 0.112412 ACCATCCTCCCACAAACCAC 59.888 55.000 0.00 0.00 0.00 4.16
544 2084 1.827969 CCTAGAATCAGCCCCGGATAG 59.172 57.143 0.73 0.00 0.00 2.08
568 2108 1.349026 CCAAGGTGAGCTCTTCTCCAA 59.651 52.381 16.19 0.00 41.08 3.53
569 2109 2.421619 CAAGGTGAGCTCTTCTCCAAC 58.578 52.381 16.19 2.20 41.08 3.77
585 2125 0.670546 CAACCGAGGTGCGAATCTGT 60.671 55.000 0.00 0.00 44.57 3.41
675 2221 0.836606 CCCACAAAACCCCAGCTTTT 59.163 50.000 0.00 0.00 0.00 2.27
677 2223 1.298602 CACAAAACCCCAGCTTTTGC 58.701 50.000 7.56 0.00 40.72 3.68
926 2570 1.463444 ACTTTACATTTCGACGCAGCC 59.537 47.619 0.00 0.00 0.00 4.85
948 2592 1.146358 GCCGACGTGCTTAGGTCATC 61.146 60.000 0.00 0.00 32.74 2.92
989 2633 3.432445 ATGCAGGGATCCAGCTGCC 62.432 63.158 29.33 17.43 41.63 4.85
995 2639 4.521062 GATCCAGCTGCCGCGAGT 62.521 66.667 8.23 0.00 42.32 4.18
1029 2673 3.876914 GGACATCGAATTTCATGCCTACA 59.123 43.478 0.00 0.00 0.00 2.74
1077 2721 1.078848 CCTGAGGACTTTGGCTCCG 60.079 63.158 0.00 0.00 32.45 4.63
1507 3151 5.178061 ACGATGACAATGAGCATTTCACTA 58.822 37.500 0.00 0.00 38.99 2.74
1810 3454 0.958382 TAAGGTTGGTGCCGTGATGC 60.958 55.000 0.00 0.00 0.00 3.91
1838 3482 4.631813 CCATAATCTTAGGGCTAACATCGC 59.368 45.833 0.00 0.00 0.00 4.58
1841 3485 1.337071 TCTTAGGGCTAACATCGCGAG 59.663 52.381 16.66 9.51 0.00 5.03
2269 3913 3.369997 GGAGAGAACAAAGACTGGGATCC 60.370 52.174 1.92 1.92 0.00 3.36
2434 4078 5.482163 TCCAGTGTGTCTTGTCAATGATA 57.518 39.130 0.00 0.00 32.49 2.15
2766 4410 0.392595 GGGGTCTTCGTTCATGGGAC 60.393 60.000 0.00 0.00 0.00 4.46
2870 4523 6.861065 TGATTACCTTTTTCAGACTGTGTC 57.139 37.500 1.59 0.00 0.00 3.67
2875 4528 3.555966 CTTTTTCAGACTGTGTCCCCTT 58.444 45.455 1.59 0.00 32.18 3.95
2942 4595 6.127366 GGGGAGCAAATCACAAATAATTCAGA 60.127 38.462 0.00 0.00 30.31 3.27
3352 5005 5.175856 GCATACATCTAACTACTCCTTTGCG 59.824 44.000 0.00 0.00 0.00 4.85
3397 5050 4.955450 TGCATATTTACAGGCATCTGGTTT 59.045 37.500 0.00 0.00 44.99 3.27
3417 5070 6.127758 TGGTTTGTATTCGATAAGCAAGCAAT 60.128 34.615 0.00 0.00 0.00 3.56
3443 5096 6.941857 TGTGCTGATAAACACTAGTTGGATA 58.058 36.000 0.00 0.00 38.17 2.59
3446 5099 9.542462 GTGCTGATAAACACTAGTTGGATATTA 57.458 33.333 0.00 0.00 38.17 0.98
3510 5163 7.859325 ACAGAAACTGTGTTAAGTGTTACAT 57.141 32.000 3.54 0.00 43.63 2.29
3511 5164 8.951787 ACAGAAACTGTGTTAAGTGTTACATA 57.048 30.769 3.54 0.00 43.63 2.29
3512 5165 9.555727 ACAGAAACTGTGTTAAGTGTTACATAT 57.444 29.630 3.54 0.00 43.63 1.78
3553 5206 8.028938 GCATACAAGAACAATGTTATTCCTGTT 58.971 33.333 2.70 0.00 32.90 3.16
3564 5217 7.907214 ATGTTATTCCTGTTCAGTGTCTTAC 57.093 36.000 0.00 0.00 0.00 2.34
3583 5236 6.034470 GTCTTACGAAATTCTCAGCTTCTCTG 59.966 42.308 0.00 0.00 44.21 3.35
3618 5271 6.407202 ACAATGTAATTCCTGTCTAGTGTCC 58.593 40.000 0.00 0.00 31.22 4.02
3650 5304 6.412362 TTCAGCTTCTCTGTTAAGAACTCT 57.588 37.500 0.00 0.00 43.32 3.24
3665 5319 9.220767 GTTAAGAACTCTAGACATTTCATGGTT 57.779 33.333 0.00 0.00 33.60 3.67
3671 5325 8.553459 ACTCTAGACATTTCATGGTTTAGTTG 57.447 34.615 0.00 0.00 33.60 3.16
3686 5340 8.453238 TGGTTTAGTTGTTCTTGCTACAAATA 57.547 30.769 0.00 0.00 37.26 1.40
3739 5393 7.878036 TGTTGATGTATTTCATATCCTGCATG 58.122 34.615 0.00 0.00 36.83 4.06
3780 5434 8.919145 ACAAATTCTTACACCATAAACTTGGAA 58.081 29.630 0.00 0.00 39.25 3.53
3798 5452 4.013728 TGGAACTGTTGCTTTACTTGTGT 58.986 39.130 13.23 0.00 0.00 3.72
3799 5453 5.186942 TGGAACTGTTGCTTTACTTGTGTA 58.813 37.500 13.23 0.00 0.00 2.90
3800 5454 5.648526 TGGAACTGTTGCTTTACTTGTGTAA 59.351 36.000 13.23 0.00 36.92 2.41
3833 5490 4.980573 TGATGTTTGTAAACTAGCCCACT 58.019 39.130 8.74 0.00 39.59 4.00
3953 5610 3.100671 AGAGGTAGGAGCGTCTCAAATT 58.899 45.455 8.71 0.00 31.08 1.82
4149 5808 0.168788 CCAATATGCCTATTGCGCCG 59.831 55.000 14.33 0.27 45.60 6.46
4153 5812 1.781025 TATGCCTATTGCGCCGTTGC 61.781 55.000 4.18 1.52 45.60 4.17
4160 5819 2.195123 ATTGCGCCGTTGCCAAGTAC 62.195 55.000 4.18 0.00 33.27 2.73
4161 5820 3.047877 GCGCCGTTGCCAAGTACT 61.048 61.111 0.00 0.00 0.00 2.73
4162 5821 3.023591 GCGCCGTTGCCAAGTACTC 62.024 63.158 0.00 0.00 0.00 2.59
4163 5822 2.388232 CGCCGTTGCCAAGTACTCC 61.388 63.158 0.00 0.00 0.00 3.85
4164 5823 2.038837 GCCGTTGCCAAGTACTCCC 61.039 63.158 0.00 0.00 0.00 4.30
4165 5824 1.677552 CCGTTGCCAAGTACTCCCT 59.322 57.895 0.00 0.00 0.00 4.20
4166 5825 0.391263 CCGTTGCCAAGTACTCCCTC 60.391 60.000 0.00 0.00 0.00 4.30
4167 5826 0.391263 CGTTGCCAAGTACTCCCTCC 60.391 60.000 0.00 0.00 0.00 4.30
4168 5827 0.391263 GTTGCCAAGTACTCCCTCCG 60.391 60.000 0.00 0.00 0.00 4.63
4169 5828 0.834687 TTGCCAAGTACTCCCTCCGT 60.835 55.000 0.00 0.00 0.00 4.69
4170 5829 1.255667 TGCCAAGTACTCCCTCCGTC 61.256 60.000 0.00 0.00 0.00 4.79
4171 5830 1.957765 GCCAAGTACTCCCTCCGTCC 61.958 65.000 0.00 0.00 0.00 4.79
4172 5831 1.664321 CCAAGTACTCCCTCCGTCCG 61.664 65.000 0.00 0.00 0.00 4.79
4173 5832 1.379576 AAGTACTCCCTCCGTCCGG 60.380 63.158 0.00 0.00 0.00 5.14
4174 5833 1.856539 AAGTACTCCCTCCGTCCGGA 61.857 60.000 0.00 0.00 42.90 5.14
4175 5834 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
4176 5835 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
4177 5836 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
4178 5837 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
4179 5838 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
4180 5839 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
4181 5840 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
4182 5841 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
4183 5842 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
4184 5843 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
4185 5844 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
4186 5845 1.274596 CGTCCGGAAATACTTGTCGG 58.725 55.000 5.23 0.00 41.80 4.79
4187 5846 1.135315 CGTCCGGAAATACTTGTCGGA 60.135 52.381 5.23 0.00 46.06 4.55
4188 5847 2.953466 TCCGGAAATACTTGTCGGAG 57.047 50.000 0.00 0.00 43.84 4.63
4189 5848 2.449464 TCCGGAAATACTTGTCGGAGA 58.551 47.619 0.00 0.00 43.84 3.71
4190 5849 2.827322 TCCGGAAATACTTGTCGGAGAA 59.173 45.455 0.00 0.00 43.84 2.87
4191 5850 3.258872 TCCGGAAATACTTGTCGGAGAAA 59.741 43.478 0.00 0.00 43.84 2.52
4192 5851 4.081309 TCCGGAAATACTTGTCGGAGAAAT 60.081 41.667 0.00 0.00 43.84 2.17
4193 5852 4.034048 CCGGAAATACTTGTCGGAGAAATG 59.966 45.833 0.00 0.00 42.94 2.32
4194 5853 4.034048 CGGAAATACTTGTCGGAGAAATGG 59.966 45.833 0.00 0.00 39.69 3.16
4195 5854 4.335594 GGAAATACTTGTCGGAGAAATGGG 59.664 45.833 0.00 0.00 39.69 4.00
4196 5855 4.569719 AATACTTGTCGGAGAAATGGGT 57.430 40.909 0.00 0.00 39.69 4.51
4197 5856 2.185004 ACTTGTCGGAGAAATGGGTG 57.815 50.000 0.00 0.00 39.69 4.61
4198 5857 1.420138 ACTTGTCGGAGAAATGGGTGT 59.580 47.619 0.00 0.00 39.69 4.16
4199 5858 2.635915 ACTTGTCGGAGAAATGGGTGTA 59.364 45.455 0.00 0.00 39.69 2.90
4200 5859 3.263425 ACTTGTCGGAGAAATGGGTGTAT 59.737 43.478 0.00 0.00 39.69 2.29
4201 5860 3.536956 TGTCGGAGAAATGGGTGTATC 57.463 47.619 0.00 0.00 39.69 2.24
4202 5861 3.104512 TGTCGGAGAAATGGGTGTATCT 58.895 45.455 0.00 0.00 39.69 1.98
4203 5862 4.283337 TGTCGGAGAAATGGGTGTATCTA 58.717 43.478 0.00 0.00 39.69 1.98
4204 5863 4.341235 TGTCGGAGAAATGGGTGTATCTAG 59.659 45.833 0.00 0.00 39.69 2.43
4205 5864 4.583489 GTCGGAGAAATGGGTGTATCTAGA 59.417 45.833 0.00 0.00 39.69 2.43
4206 5865 4.583489 TCGGAGAAATGGGTGTATCTAGAC 59.417 45.833 0.00 0.00 0.00 2.59
4207 5866 4.556898 CGGAGAAATGGGTGTATCTAGACG 60.557 50.000 0.00 0.00 0.00 4.18
4208 5867 4.341520 GGAGAAATGGGTGTATCTAGACGT 59.658 45.833 0.00 0.00 0.00 4.34
4209 5868 5.533903 GGAGAAATGGGTGTATCTAGACGTA 59.466 44.000 0.00 0.00 0.00 3.57
4210 5869 6.208994 GGAGAAATGGGTGTATCTAGACGTAT 59.791 42.308 0.00 0.00 0.00 3.06
4211 5870 7.255871 GGAGAAATGGGTGTATCTAGACGTATT 60.256 40.741 0.00 0.00 0.00 1.89
4212 5871 8.019656 AGAAATGGGTGTATCTAGACGTATTT 57.980 34.615 0.00 0.00 0.00 1.40
4213 5872 8.483758 AGAAATGGGTGTATCTAGACGTATTTT 58.516 33.333 0.00 0.00 0.00 1.82
4214 5873 9.754382 GAAATGGGTGTATCTAGACGTATTTTA 57.246 33.333 0.00 0.00 0.00 1.52
4215 5874 9.760077 AAATGGGTGTATCTAGACGTATTTTAG 57.240 33.333 0.00 0.00 0.00 1.85
4216 5875 7.886629 TGGGTGTATCTAGACGTATTTTAGT 57.113 36.000 0.00 0.00 0.00 2.24
4217 5876 8.297470 TGGGTGTATCTAGACGTATTTTAGTT 57.703 34.615 0.00 0.00 0.00 2.24
4218 5877 8.408601 TGGGTGTATCTAGACGTATTTTAGTTC 58.591 37.037 0.00 0.00 0.00 3.01
4219 5878 8.628280 GGGTGTATCTAGACGTATTTTAGTTCT 58.372 37.037 0.00 0.00 0.00 3.01
4225 5884 9.733219 ATCTAGACGTATTTTAGTTCTAGTTGC 57.267 33.333 0.00 0.00 0.00 4.17
4226 5885 8.733458 TCTAGACGTATTTTAGTTCTAGTTGCA 58.267 33.333 0.00 0.00 0.00 4.08
4227 5886 9.517609 CTAGACGTATTTTAGTTCTAGTTGCAT 57.482 33.333 0.00 0.00 0.00 3.96
4228 5887 8.408743 AGACGTATTTTAGTTCTAGTTGCATC 57.591 34.615 0.00 0.00 0.00 3.91
4229 5888 7.491696 AGACGTATTTTAGTTCTAGTTGCATCC 59.508 37.037 0.00 0.00 0.00 3.51
4230 5889 7.101054 ACGTATTTTAGTTCTAGTTGCATCCA 58.899 34.615 0.00 0.00 0.00 3.41
4231 5890 7.769044 ACGTATTTTAGTTCTAGTTGCATCCAT 59.231 33.333 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.937431 GGCCTCATACGCCTGGGC 62.937 72.222 0.00 0.82 43.48 5.36
1 2 4.256180 GGGCCTCATACGCCTGGG 62.256 72.222 0.84 0.00 46.24 4.45
4 5 1.332144 TAAACGGGCCTCATACGCCT 61.332 55.000 0.84 0.00 46.24 5.52
5 6 0.462403 TTAAACGGGCCTCATACGCC 60.462 55.000 0.84 0.00 46.29 5.68
6 7 0.935196 CTTAAACGGGCCTCATACGC 59.065 55.000 0.84 0.00 0.00 4.42
7 8 1.578583 CCTTAAACGGGCCTCATACG 58.421 55.000 0.84 0.00 0.00 3.06
8 9 1.306148 GCCTTAAACGGGCCTCATAC 58.694 55.000 0.84 0.00 43.49 2.39
9 10 0.179067 CGCCTTAAACGGGCCTCATA 60.179 55.000 0.84 0.00 46.24 2.15
10 11 1.451387 CGCCTTAAACGGGCCTCAT 60.451 57.895 0.84 0.00 46.24 2.90
11 12 2.046700 CGCCTTAAACGGGCCTCA 60.047 61.111 0.84 0.00 46.24 3.86
12 13 2.046604 ACGCCTTAAACGGGCCTC 60.047 61.111 0.84 0.00 46.24 4.70
13 14 2.046604 GACGCCTTAAACGGGCCT 60.047 61.111 0.84 0.00 46.24 5.19
14 15 3.129502 GGACGCCTTAAACGGGCC 61.130 66.667 0.00 0.00 46.24 5.80
15 16 3.493440 CGGACGCCTTAAACGGGC 61.493 66.667 2.99 0.00 45.57 6.13
16 17 2.047939 ACGGACGCCTTAAACGGG 60.048 61.111 2.99 0.00 34.00 5.28
17 18 1.080298 AGACGGACGCCTTAAACGG 60.080 57.895 2.99 0.00 34.00 4.44
18 19 1.349259 CCAGACGGACGCCTTAAACG 61.349 60.000 0.00 0.00 0.00 3.60
19 20 0.037975 TCCAGACGGACGCCTTAAAC 60.038 55.000 0.00 0.00 35.91 2.01
20 21 0.899720 ATCCAGACGGACGCCTTAAA 59.100 50.000 0.00 0.00 46.79 1.52
21 22 1.766494 TATCCAGACGGACGCCTTAA 58.234 50.000 0.00 0.00 46.79 1.85
22 23 1.766494 TTATCCAGACGGACGCCTTA 58.234 50.000 0.00 0.00 46.79 2.69
23 24 0.899720 TTTATCCAGACGGACGCCTT 59.100 50.000 0.00 0.00 46.79 4.35
24 25 0.899720 TTTTATCCAGACGGACGCCT 59.100 50.000 0.00 0.00 46.79 5.52
25 26 1.729284 TTTTTATCCAGACGGACGCC 58.271 50.000 0.00 0.00 46.79 5.68
41 42 1.011333 CACTGACCGGTCACGTTTTT 58.989 50.000 33.23 10.37 38.78 1.94
42 43 0.176219 TCACTGACCGGTCACGTTTT 59.824 50.000 33.23 12.15 38.78 2.43
43 44 0.529119 GTCACTGACCGGTCACGTTT 60.529 55.000 33.23 14.69 38.78 3.60
44 45 1.066918 GTCACTGACCGGTCACGTT 59.933 57.895 33.23 17.26 38.78 3.99
45 46 2.726274 GTCACTGACCGGTCACGT 59.274 61.111 33.23 28.27 38.78 4.49
46 47 2.049433 GGTCACTGACCGGTCACG 60.049 66.667 33.23 27.66 43.14 4.35
69 70 4.830765 TCATACGTGCGGGCAGGC 62.831 66.667 12.76 0.00 35.48 4.85
70 71 2.586079 CTCATACGTGCGGGCAGG 60.586 66.667 11.42 11.42 37.77 4.85
71 72 2.586079 CCTCATACGTGCGGGCAG 60.586 66.667 0.00 0.00 0.00 4.85
72 73 4.830765 GCCTCATACGTGCGGGCA 62.831 66.667 15.28 0.00 40.85 5.36
77 78 0.460635 TAAACCCGCCTCATACGTGC 60.461 55.000 0.00 0.00 0.00 5.34
78 79 1.931172 CTTAAACCCGCCTCATACGTG 59.069 52.381 0.00 0.00 0.00 4.49
79 80 1.134610 CCTTAAACCCGCCTCATACGT 60.135 52.381 0.00 0.00 0.00 3.57
80 81 1.578583 CCTTAAACCCGCCTCATACG 58.421 55.000 0.00 0.00 0.00 3.06
81 82 1.306148 GCCTTAAACCCGCCTCATAC 58.694 55.000 0.00 0.00 0.00 2.39
82 83 0.913205 TGCCTTAAACCCGCCTCATA 59.087 50.000 0.00 0.00 0.00 2.15
83 84 0.679960 GTGCCTTAAACCCGCCTCAT 60.680 55.000 0.00 0.00 0.00 2.90
84 85 1.302993 GTGCCTTAAACCCGCCTCA 60.303 57.895 0.00 0.00 0.00 3.86
85 86 2.044555 GGTGCCTTAAACCCGCCTC 61.045 63.158 0.00 0.00 0.00 4.70
86 87 2.035155 GGTGCCTTAAACCCGCCT 59.965 61.111 0.00 0.00 0.00 5.52
91 92 2.035155 AGCCGGGTGCCTTAAACC 59.965 61.111 4.72 0.00 42.71 3.27
92 93 0.321830 TACAGCCGGGTGCCTTAAAC 60.322 55.000 32.69 0.00 42.71 2.01
93 94 0.035820 CTACAGCCGGGTGCCTTAAA 60.036 55.000 32.69 10.85 42.71 1.52
94 95 0.905809 TCTACAGCCGGGTGCCTTAA 60.906 55.000 32.69 11.78 42.71 1.85
95 96 0.689745 ATCTACAGCCGGGTGCCTTA 60.690 55.000 32.69 16.94 42.71 2.69
96 97 1.995626 ATCTACAGCCGGGTGCCTT 60.996 57.895 32.69 16.70 42.71 4.35
97 98 2.365635 ATCTACAGCCGGGTGCCT 60.366 61.111 32.69 17.46 42.71 4.75
98 99 2.203070 CATCTACAGCCGGGTGCC 60.203 66.667 32.69 0.08 42.71 5.01
99 100 2.897350 GCATCTACAGCCGGGTGC 60.897 66.667 32.69 14.68 41.71 5.01
100 101 1.227380 GAGCATCTACAGCCGGGTG 60.227 63.158 31.30 31.30 0.00 4.61
101 102 3.221222 GAGCATCTACAGCCGGGT 58.779 61.111 0.00 0.00 0.00 5.28
112 113 6.989169 ACTTCAAATATGGTACTGAGAGCATC 59.011 38.462 0.00 0.00 38.46 3.91
113 114 6.893583 ACTTCAAATATGGTACTGAGAGCAT 58.106 36.000 0.00 0.00 40.53 3.79
114 115 6.070824 TGACTTCAAATATGGTACTGAGAGCA 60.071 38.462 0.00 0.00 0.00 4.26
115 116 6.341316 TGACTTCAAATATGGTACTGAGAGC 58.659 40.000 0.00 0.00 0.00 4.09
116 117 8.253810 TCTTGACTTCAAATATGGTACTGAGAG 58.746 37.037 0.00 0.00 35.15 3.20
117 118 8.134202 TCTTGACTTCAAATATGGTACTGAGA 57.866 34.615 0.00 0.00 35.15 3.27
118 119 8.777865 TTCTTGACTTCAAATATGGTACTGAG 57.222 34.615 0.00 0.00 35.15 3.35
141 142 7.276438 GTGGTGATAAGAATTGGCAGAATTTTC 59.724 37.037 0.00 0.00 0.00 2.29
180 181 4.380550 GCATGTTAGCTTCTTGGGGTAAAC 60.381 45.833 0.00 0.00 0.00 2.01
210 211 0.036164 CCCCAGTTTCGTGATGACCA 59.964 55.000 0.00 0.00 0.00 4.02
211 212 0.323629 TCCCCAGTTTCGTGATGACC 59.676 55.000 0.00 0.00 0.00 4.02
212 213 1.002087 ACTCCCCAGTTTCGTGATGAC 59.998 52.381 0.00 0.00 0.00 3.06
213 214 1.348064 ACTCCCCAGTTTCGTGATGA 58.652 50.000 0.00 0.00 0.00 2.92
214 215 3.543680 ATACTCCCCAGTTTCGTGATG 57.456 47.619 0.00 0.00 33.62 3.07
215 216 3.263425 ACAATACTCCCCAGTTTCGTGAT 59.737 43.478 0.00 0.00 33.62 3.06
216 217 2.635915 ACAATACTCCCCAGTTTCGTGA 59.364 45.455 0.00 0.00 33.62 4.35
217 218 3.053831 ACAATACTCCCCAGTTTCGTG 57.946 47.619 0.00 0.00 33.62 4.35
218 219 3.579586 TGTACAATACTCCCCAGTTTCGT 59.420 43.478 0.00 0.00 33.62 3.85
220 221 8.747538 ATTTATGTACAATACTCCCCAGTTTC 57.252 34.615 0.00 0.00 33.62 2.78
223 224 6.463897 CGGATTTATGTACAATACTCCCCAGT 60.464 42.308 0.00 0.00 36.55 4.00
224 225 5.932303 CGGATTTATGTACAATACTCCCCAG 59.068 44.000 0.00 0.00 0.00 4.45
225 226 5.367352 ACGGATTTATGTACAATACTCCCCA 59.633 40.000 0.00 0.00 0.00 4.96
227 228 6.204108 CCAACGGATTTATGTACAATACTCCC 59.796 42.308 0.00 0.00 0.00 4.30
228 229 6.204108 CCCAACGGATTTATGTACAATACTCC 59.796 42.308 0.00 3.83 0.00 3.85
253 1767 3.125316 CGTCCTGTGTTTTTAGAGCATCC 59.875 47.826 0.00 0.00 33.66 3.51
271 1785 2.499732 CTTGCTTTTCGCGCGTCC 60.500 61.111 30.98 14.42 43.27 4.79
272 1786 3.159460 GCTTGCTTTTCGCGCGTC 61.159 61.111 30.98 14.70 43.27 5.19
273 1787 2.928313 TTTGCTTGCTTTTCGCGCGT 62.928 50.000 30.98 0.00 43.27 6.01
329 1843 0.611062 ACCGTCGGATCAGAGAACCA 60.611 55.000 20.51 0.00 0.00 3.67
348 1862 2.660064 GCCAAGGGCTTCCTCTCGA 61.660 63.158 0.00 0.00 46.69 4.04
392 1906 0.460311 CGGCCTGTCCCACTAAGTAG 59.540 60.000 0.00 0.00 0.00 2.57
411 1932 0.820871 AGGATGGTTCGTCTGCTCTC 59.179 55.000 0.00 0.00 0.00 3.20
544 2084 1.004440 AAGAGCTCACCTTGGCGAC 60.004 57.895 17.77 0.00 0.00 5.19
568 2108 1.067212 GATACAGATTCGCACCTCGGT 59.933 52.381 0.00 0.00 39.05 4.69
569 2109 1.338337 AGATACAGATTCGCACCTCGG 59.662 52.381 0.00 0.00 39.05 4.63
700 2246 3.645268 GAGCAAGCCCCAATCCGGT 62.645 63.158 0.00 0.00 0.00 5.28
820 2375 8.817100 CAGGAGAAAAACCAAAACAAAATAGAC 58.183 33.333 0.00 0.00 0.00 2.59
840 2481 2.257207 AGAATCGAACCAACCAGGAGA 58.743 47.619 0.00 0.00 41.22 3.71
934 2578 1.135373 AGTGTCGATGACCTAAGCACG 60.135 52.381 0.00 0.00 0.00 5.34
940 2584 3.377485 GCAGAGTTAGTGTCGATGACCTA 59.623 47.826 0.00 0.00 0.00 3.08
941 2585 2.164624 GCAGAGTTAGTGTCGATGACCT 59.835 50.000 0.00 0.00 0.00 3.85
942 2586 2.164624 AGCAGAGTTAGTGTCGATGACC 59.835 50.000 0.00 0.00 0.00 4.02
948 2592 2.408050 AGCAAAGCAGAGTTAGTGTCG 58.592 47.619 0.00 0.00 0.00 4.35
995 2639 1.813859 GATGTCCGGTCCATGACGA 59.186 57.895 12.97 0.00 34.18 4.20
1077 2721 4.115199 AGGGGCGCAGGGAACATC 62.115 66.667 10.83 0.00 0.00 3.06
1507 3151 0.671781 GATGCTGACGTCTGGTTGCT 60.672 55.000 21.94 7.00 32.15 3.91
1816 3460 4.327357 CGCGATGTTAGCCCTAAGATTATG 59.673 45.833 0.00 0.00 30.42 1.90
1838 3482 2.622436 GAACAACTCCAATCCTCCTCG 58.378 52.381 0.00 0.00 0.00 4.63
2269 3913 2.350197 GCAGCTTGTACTTGAAGCACTG 60.350 50.000 16.20 9.26 46.93 3.66
2271 3915 1.876156 AGCAGCTTGTACTTGAAGCAC 59.124 47.619 16.20 9.28 46.93 4.40
2434 4078 3.244700 CCTGGTCCTTTCTCACTGTCAAT 60.245 47.826 0.00 0.00 0.00 2.57
2870 4523 6.350445 CCATTTTAATGTCTTCTCACAAGGGG 60.350 42.308 2.13 0.00 34.60 4.79
2942 4595 3.019564 GGCAGTGGCTCAAAAGTATCAT 58.980 45.455 9.90 0.00 40.87 2.45
3352 5005 0.251341 ACAAGCAGGGATGTCCAACC 60.251 55.000 0.86 0.00 38.24 3.77
3397 5050 6.746822 CACAAATTGCTTGCTTATCGAATACA 59.253 34.615 0.00 0.00 38.75 2.29
3417 5070 6.058833 TCCAACTAGTGTTTATCAGCACAAA 58.941 36.000 0.00 0.00 38.02 2.83
3512 5165 9.944376 GTTCTTGTATGCATTCCTATATTCCTA 57.056 33.333 3.54 0.00 0.00 2.94
3513 5166 8.439971 TGTTCTTGTATGCATTCCTATATTCCT 58.560 33.333 3.54 0.00 0.00 3.36
3514 5167 8.621532 TGTTCTTGTATGCATTCCTATATTCC 57.378 34.615 3.54 0.00 0.00 3.01
3519 5172 7.886629 ACATTGTTCTTGTATGCATTCCTAT 57.113 32.000 3.54 0.00 0.00 2.57
3583 5236 8.287503 ACAGGAATTACATTGTTCGTTCTTAAC 58.712 33.333 0.00 0.00 0.00 2.01
3650 5304 8.918202 AGAACAACTAAACCATGAAATGTCTA 57.082 30.769 0.00 0.00 44.81 2.59
3671 5325 7.870445 TGACCCAAAATTATTTGTAGCAAGAAC 59.130 33.333 0.00 0.00 43.59 3.01
3717 5371 5.947566 CCCATGCAGGATATGAAATACATCA 59.052 40.000 0.00 0.00 41.22 3.07
3833 5490 5.272283 AGTTAGGTTCACAGAAAGTCGAA 57.728 39.130 0.00 0.00 0.00 3.71
3953 5610 2.993008 GCAGTCATGAGGGGAGCA 59.007 61.111 0.00 0.00 0.00 4.26
4149 5808 0.391263 CGGAGGGAGTACTTGGCAAC 60.391 60.000 0.00 0.00 0.00 4.17
4153 5812 1.664321 CGGACGGAGGGAGTACTTGG 61.664 65.000 0.00 0.00 0.00 3.61
4160 5819 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
4161 5820 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
4162 5821 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
4163 5822 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
4164 5823 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
4165 5824 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
4166 5825 1.274596 CGACAAGTATTTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
4167 5826 1.135315 TCCGACAAGTATTTCCGGACG 60.135 52.381 1.83 0.00 43.47 4.79
4168 5827 2.165030 TCTCCGACAAGTATTTCCGGAC 59.835 50.000 1.83 0.00 43.47 4.79
4169 5828 2.449464 TCTCCGACAAGTATTTCCGGA 58.551 47.619 0.00 0.00 45.74 5.14
4170 5829 2.953466 TCTCCGACAAGTATTTCCGG 57.047 50.000 0.00 0.00 41.36 5.14
4171 5830 4.034048 CCATTTCTCCGACAAGTATTTCCG 59.966 45.833 0.00 0.00 0.00 4.30
4172 5831 4.335594 CCCATTTCTCCGACAAGTATTTCC 59.664 45.833 0.00 0.00 0.00 3.13
4173 5832 4.941873 ACCCATTTCTCCGACAAGTATTTC 59.058 41.667 0.00 0.00 0.00 2.17
4174 5833 4.700213 CACCCATTTCTCCGACAAGTATTT 59.300 41.667 0.00 0.00 0.00 1.40
4175 5834 4.261801 CACCCATTTCTCCGACAAGTATT 58.738 43.478 0.00 0.00 0.00 1.89
4176 5835 3.263425 ACACCCATTTCTCCGACAAGTAT 59.737 43.478 0.00 0.00 0.00 2.12
4177 5836 2.635915 ACACCCATTTCTCCGACAAGTA 59.364 45.455 0.00 0.00 0.00 2.24
4178 5837 1.420138 ACACCCATTTCTCCGACAAGT 59.580 47.619 0.00 0.00 0.00 3.16
4179 5838 2.185004 ACACCCATTTCTCCGACAAG 57.815 50.000 0.00 0.00 0.00 3.16
4180 5839 3.517901 AGATACACCCATTTCTCCGACAA 59.482 43.478 0.00 0.00 0.00 3.18
4181 5840 3.104512 AGATACACCCATTTCTCCGACA 58.895 45.455 0.00 0.00 0.00 4.35
4182 5841 3.821421 AGATACACCCATTTCTCCGAC 57.179 47.619 0.00 0.00 0.00 4.79
4183 5842 4.583489 GTCTAGATACACCCATTTCTCCGA 59.417 45.833 0.00 0.00 0.00 4.55
4184 5843 4.556898 CGTCTAGATACACCCATTTCTCCG 60.557 50.000 0.00 0.00 0.00 4.63
4185 5844 4.341520 ACGTCTAGATACACCCATTTCTCC 59.658 45.833 0.00 0.00 0.00 3.71
4186 5845 5.517322 ACGTCTAGATACACCCATTTCTC 57.483 43.478 0.00 0.00 0.00 2.87
4187 5846 7.598759 AATACGTCTAGATACACCCATTTCT 57.401 36.000 0.00 0.00 0.00 2.52
4188 5847 8.658499 AAAATACGTCTAGATACACCCATTTC 57.342 34.615 0.00 0.00 0.00 2.17
4189 5848 9.760077 CTAAAATACGTCTAGATACACCCATTT 57.240 33.333 0.00 0.00 0.00 2.32
4190 5849 8.921205 ACTAAAATACGTCTAGATACACCCATT 58.079 33.333 0.00 0.00 0.00 3.16
4191 5850 8.474710 ACTAAAATACGTCTAGATACACCCAT 57.525 34.615 0.00 0.00 0.00 4.00
4192 5851 7.886629 ACTAAAATACGTCTAGATACACCCA 57.113 36.000 0.00 0.00 0.00 4.51
4193 5852 8.628280 AGAACTAAAATACGTCTAGATACACCC 58.372 37.037 0.00 0.00 0.00 4.61
4199 5858 9.733219 GCAACTAGAACTAAAATACGTCTAGAT 57.267 33.333 11.84 0.00 32.51 1.98
4200 5859 8.733458 TGCAACTAGAACTAAAATACGTCTAGA 58.267 33.333 11.84 0.00 32.51 2.43
4201 5860 8.906636 TGCAACTAGAACTAAAATACGTCTAG 57.093 34.615 0.00 4.81 33.85 2.43
4202 5861 9.512435 GATGCAACTAGAACTAAAATACGTCTA 57.488 33.333 0.00 0.00 0.00 2.59
4203 5862 7.491696 GGATGCAACTAGAACTAAAATACGTCT 59.508 37.037 0.00 0.00 0.00 4.18
4204 5863 7.277098 TGGATGCAACTAGAACTAAAATACGTC 59.723 37.037 0.00 0.00 0.00 4.34
4205 5864 7.101054 TGGATGCAACTAGAACTAAAATACGT 58.899 34.615 0.00 0.00 0.00 3.57
4206 5865 7.534085 TGGATGCAACTAGAACTAAAATACG 57.466 36.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.