Multiple sequence alignment - TraesCS5D01G152300

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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 TraesCS5D01G152300 chr5D 100.000 4445 0 0 1 4445 241270571 241275015 0.000000e+00 8209.0
1 TraesCS5D01G152300 chr5D 79.863 2344 448 16 1096 3436 546687842 546690164 0.000000e+00 1692.0
2 TraesCS5D01G152300 chr5D 92.683 164 12 0 4116 4279 461072602 461072765 2.070000e-58 237.0
3 TraesCS5D01G152300 chr5D 88.073 109 8 2 4341 4445 78129413 78129306 1.680000e-24 124.0
4 TraesCS5D01G152300 chr5B 97.780 3783 78 4 1 3782 262358019 262354242 0.000000e+00 6516.0
5 TraesCS5D01G152300 chr5B 79.862 2319 433 23 1110 3420 689997601 689995309 0.000000e+00 1664.0
6 TraesCS5D01G152300 chr5B 87.097 279 24 2 3778 4053 262354208 262353939 5.590000e-79 305.0
7 TraesCS5D01G152300 chr5B 86.264 182 13 1 4276 4445 262353828 262353647 2.110000e-43 187.0
8 TraesCS5D01G152300 chr5B 90.909 66 5 1 4053 4118 262353890 262353826 2.200000e-13 87.9
9 TraesCS5D01G152300 chr5A 95.494 3728 136 11 1 3727 310983518 310987214 0.000000e+00 5925.0
10 TraesCS5D01G152300 chr5A 91.039 279 22 2 3778 4053 310999559 310999837 1.510000e-99 374.0
11 TraesCS5D01G152300 chr5A 86.735 196 24 2 4106 4299 558675669 558675474 2.690000e-52 217.0
12 TraesCS5D01G152300 chr5A 91.852 135 11 0 4276 4410 310999948 311000082 5.870000e-44 189.0
13 TraesCS5D01G152300 chr5A 95.161 62 3 0 3721 3782 310999471 310999532 1.020000e-16 99.0
14 TraesCS5D01G152300 chr5A 90.909 66 5 1 4054 4119 310999887 310999951 2.200000e-13 87.9
15 TraesCS5D01G152300 chr4A 79.485 2330 444 23 1096 3420 622237918 622235618 0.000000e+00 1624.0
16 TraesCS5D01G152300 chr4A 93.939 165 10 0 4113 4277 150653310 150653474 2.650000e-62 250.0
17 TraesCS5D01G152300 chr4A 90.751 173 14 2 4110 4281 37306861 37307032 3.460000e-56 230.0
18 TraesCS5D01G152300 chr4A 81.176 170 21 7 4276 4440 117235718 117235881 4.670000e-25 126.0
19 TraesCS5D01G152300 chr4A 87.156 109 9 2 4341 4445 714342849 714342956 7.810000e-23 119.0
20 TraesCS5D01G152300 chr7D 93.252 163 11 0 4115 4277 537285751 537285589 1.600000e-59 241.0
21 TraesCS5D01G152300 chr7D 81.143 175 23 6 4276 4445 56239426 56239595 1.000000e-26 132.0
22 TraesCS5D01G152300 chr7D 87.156 109 9 2 4341 4445 269700935 269701042 7.810000e-23 119.0
23 TraesCS5D01G152300 chr4D 93.252 163 11 0 4116 4278 75266909 75266747 1.600000e-59 241.0
24 TraesCS5D01G152300 chr2A 92.683 164 11 1 4116 4278 70985746 70985583 7.430000e-58 235.0
25 TraesCS5D01G152300 chr6D 91.716 169 12 2 4116 4282 351233596 351233428 2.670000e-57 233.0
26 TraesCS5D01G152300 chr3B 91.228 171 14 1 4109 4279 68913471 68913640 9.620000e-57 231.0
27 TraesCS5D01G152300 chr7B 86.239 109 10 2 4341 4445 586570232 586570339 3.630000e-21 113.0


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 TraesCS5D01G152300 chr5D 241270571 241275015 4444 False 8209.000 8209 100.0000 1 4445 1 chr5D.!!$F1 4444
1 TraesCS5D01G152300 chr5D 546687842 546690164 2322 False 1692.000 1692 79.8630 1096 3436 1 chr5D.!!$F3 2340
2 TraesCS5D01G152300 chr5B 262353647 262358019 4372 True 1773.975 6516 90.5125 1 4445 4 chr5B.!!$R2 4444
3 TraesCS5D01G152300 chr5B 689995309 689997601 2292 True 1664.000 1664 79.8620 1110 3420 1 chr5B.!!$R1 2310
4 TraesCS5D01G152300 chr5A 310983518 310987214 3696 False 5925.000 5925 95.4940 1 3727 1 chr5A.!!$F1 3726
5 TraesCS5D01G152300 chr4A 622235618 622237918 2300 True 1624.000 1624 79.4850 1096 3420 1 chr4A.!!$R1 2324

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
178 179 1.064654 GCTTCATCAACCGAATGGAGC 59.935 52.381 0.91 0.91 39.43 4.70 F
1024 1026 0.836606 TCCTGCTCTTCCAACACACA 59.163 50.000 0.00 0.00 0.00 3.72 F
1509 1511 0.799534 GCATCATGGCTGCGACAAAC 60.800 55.000 5.59 0.00 0.00 2.93 F
2838 2840 3.560896 CCCTGGCAAACATTTTGTTCAAG 59.439 43.478 0.91 0.00 40.14 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1509 1511 0.106217 ACTGGGTTGTTGGGACCAAG 60.106 55.000 3.57 0.0 42.84 3.61 R
1834 1836 3.758554 GCTACCATTGAAACTGACCACAT 59.241 43.478 0.00 0.0 0.00 3.21 R
3057 3059 0.456221 CTATCGTTCCTCGCACCTGT 59.544 55.000 0.00 0.0 39.67 4.00 R
3998 4041 0.319083 TACCCGTAGCAACACACAGG 59.681 55.000 0.00 0.0 0.00 4.00 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
54 55 9.352191 CAGAAGATTATCATTGGGAAAGAAGAT 57.648 33.333 0.00 0.00 0.00 2.40
74 75 3.107642 TCCAACTTCTTCCTTCGTGTC 57.892 47.619 0.00 0.00 0.00 3.67
167 168 7.065085 GCTTCATTGTACTTCTAGCTTCATCAA 59.935 37.037 0.00 0.00 0.00 2.57
178 179 1.064654 GCTTCATCAACCGAATGGAGC 59.935 52.381 0.91 0.91 39.43 4.70
184 185 1.554617 TCAACCGAATGGAGCATCTGA 59.445 47.619 0.00 0.00 39.21 3.27
187 188 1.556911 ACCGAATGGAGCATCTGAACT 59.443 47.619 0.00 0.00 39.21 3.01
228 229 5.496556 TGATTTGCTTTTATTCTCCTCCGA 58.503 37.500 0.00 0.00 0.00 4.55
459 460 9.471084 AGAAAAGTTGTTTTTACCGAATATTGG 57.529 29.630 0.00 0.00 39.06 3.16
656 657 4.937620 GCAGATAAGTCAAAGTCACCATCA 59.062 41.667 0.00 0.00 0.00 3.07
953 955 6.164176 ACAGAAACTCACCTTAAATAGACGG 58.836 40.000 0.00 0.00 0.00 4.79
1024 1026 0.836606 TCCTGCTCTTCCAACACACA 59.163 50.000 0.00 0.00 0.00 3.72
1184 1186 1.298190 GCTTCTACGGCGTCTACGG 60.298 63.158 19.21 5.67 40.23 4.02
1436 1438 0.957395 ATGAAGAACACCAGCGGCAG 60.957 55.000 1.45 0.00 0.00 4.85
1496 1498 2.671370 CTACCAGCCCAGCGCATCAT 62.671 60.000 11.47 0.00 41.38 2.45
1509 1511 0.799534 GCATCATGGCTGCGACAAAC 60.800 55.000 5.59 0.00 0.00 2.93
2208 2210 5.829924 TCTTCTTTTCAATGGAAAGAGCTGT 59.170 36.000 15.50 0.00 43.47 4.40
2438 2440 5.639757 AGTTGCAATTTTTGTTTTTGAGGC 58.360 33.333 0.59 0.00 0.00 4.70
2838 2840 3.560896 CCCTGGCAAACATTTTGTTCAAG 59.439 43.478 0.91 0.00 40.14 3.02
3057 3059 1.543208 GGAGCCACACAGAACATGTCA 60.543 52.381 0.00 0.00 41.41 3.58
3268 3270 4.037222 TGCTGATAAACTGGGAGGACATA 58.963 43.478 0.00 0.00 0.00 2.29
3343 3345 2.798976 TGTCCAAGCAAGAACAATGC 57.201 45.000 0.00 0.00 44.15 3.56
3461 3463 5.242795 AGTTAGTGCTTGGACTACCATTT 57.757 39.130 1.51 0.00 46.34 2.32
3489 3491 7.629157 TGTGGAATGTATGAATAAGGTGAAGA 58.371 34.615 0.00 0.00 0.00 2.87
3490 3492 8.106462 TGTGGAATGTATGAATAAGGTGAAGAA 58.894 33.333 0.00 0.00 0.00 2.52
3491 3493 8.616076 GTGGAATGTATGAATAAGGTGAAGAAG 58.384 37.037 0.00 0.00 0.00 2.85
3533 3535 6.992715 GTCAAGGATGTATAATAGTTGCCAGT 59.007 38.462 0.00 0.00 0.00 4.00
3552 3554 3.057386 CAGTTGCCACTGTGATGCATTTA 60.057 43.478 9.86 0.00 44.96 1.40
3567 3569 9.754382 GTGATGCATTTAAACATTGGATAGATT 57.246 29.630 0.00 0.00 0.00 2.40
3570 3572 7.499292 TGCATTTAAACATTGGATAGATTGGG 58.501 34.615 0.00 0.00 0.00 4.12
3581 3583 1.672854 TAGATTGGGTCCAGCCGTCG 61.673 60.000 0.00 0.00 38.44 5.12
3591 3593 4.057428 AGCCGTCGAGGTCACAGC 62.057 66.667 4.18 0.00 43.70 4.40
3694 3696 7.121315 GGAACAATGTCCTTGCTAAAAGATACT 59.879 37.037 0.00 0.00 38.50 2.12
3720 3722 8.621532 ACTTGTGATGTTTATGCTTCTTTCTA 57.378 30.769 0.00 0.00 0.00 2.10
3741 3743 9.449719 TTTCTATTTACTCTGTTCCCATCTTTC 57.550 33.333 0.00 0.00 0.00 2.62
3764 3766 4.646040 CCTGGTGATGCCTGATTTTCAATA 59.354 41.667 0.00 0.00 38.33 1.90
3793 3833 9.217223 GTTTAATGTGTACCATATAACTTTGCG 57.783 33.333 0.00 0.00 31.97 4.85
3806 3846 2.804647 ACTTTGCGTTAGTTTTGGTGC 58.195 42.857 0.00 0.00 0.00 5.01
3843 3883 9.667107 TCCACATATTTACTTTCAGTCCTAAAG 57.333 33.333 0.00 0.00 39.38 1.85
3844 3884 8.893727 CCACATATTTACTTTCAGTCCTAAAGG 58.106 37.037 0.00 0.00 38.09 3.11
3852 3892 4.405756 TTCAGTCCTAAAGGAGTCCTCT 57.594 45.455 13.43 0.00 45.75 3.69
3853 3893 4.405756 TCAGTCCTAAAGGAGTCCTCTT 57.594 45.455 13.43 11.43 45.75 2.85
3854 3894 4.753186 TCAGTCCTAAAGGAGTCCTCTTT 58.247 43.478 13.43 6.76 45.75 2.52
3855 3895 5.155905 TCAGTCCTAAAGGAGTCCTCTTTT 58.844 41.667 13.43 5.96 45.75 2.27
3856 3896 6.320518 TCAGTCCTAAAGGAGTCCTCTTTTA 58.679 40.000 13.43 6.89 45.75 1.52
3904 3944 3.554934 ACAAGATGCTGAAGGTTGTCAA 58.445 40.909 0.00 0.00 0.00 3.18
3906 3946 3.213206 AGATGCTGAAGGTTGTCAACA 57.787 42.857 17.29 0.00 0.00 3.33
3908 3948 2.708216 TGCTGAAGGTTGTCAACAGA 57.292 45.000 17.29 0.00 0.00 3.41
3911 3951 4.713553 TGCTGAAGGTTGTCAACAGAATA 58.286 39.130 17.29 0.00 0.00 1.75
3919 3959 5.643777 AGGTTGTCAACAGAATATAGTGTGC 59.356 40.000 17.29 0.00 0.00 4.57
3921 3961 4.180817 TGTCAACAGAATATAGTGTGCGG 58.819 43.478 0.00 0.00 0.00 5.69
3932 3972 2.656560 AGTGTGCGGAGAATACTGAC 57.343 50.000 0.00 0.00 0.00 3.51
3935 3975 3.055819 AGTGTGCGGAGAATACTGACATT 60.056 43.478 0.00 0.00 0.00 2.71
3979 4022 4.278170 TGGAGTTTGCCACAAATACTCTTG 59.722 41.667 10.40 0.00 36.39 3.02
3998 4041 6.316390 ACTCTTGCCATACACTAGCAAAATAC 59.684 38.462 0.00 0.00 45.20 1.89
4000 4043 5.110814 TGCCATACACTAGCAAAATACCT 57.889 39.130 0.00 0.00 32.56 3.08
4009 4052 3.369546 AGCAAAATACCTGTGTGTTGC 57.630 42.857 12.45 12.45 37.88 4.17
4016 4059 1.070786 CCTGTGTGTTGCTACGGGT 59.929 57.895 0.00 0.00 38.31 5.28
4043 4086 4.010349 AGTAAGAAATGCCTAAGTGCACC 58.990 43.478 14.63 0.00 45.48 5.01
4045 4088 1.165270 GAAATGCCTAAGTGCACCGT 58.835 50.000 14.63 4.32 45.48 4.83
4046 4089 0.881118 AAATGCCTAAGTGCACCGTG 59.119 50.000 14.63 3.29 45.48 4.94
4067 4159 3.572255 TGGTTCAGGCACACTAAAATTCC 59.428 43.478 0.00 0.00 0.00 3.01
4070 4162 5.279456 GGTTCAGGCACACTAAAATTCCAAT 60.279 40.000 0.00 0.00 0.00 3.16
4102 4194 5.857822 AGTTTAAGTTACACTTCATCGCC 57.142 39.130 0.00 0.00 39.51 5.54
4104 4196 5.761234 AGTTTAAGTTACACTTCATCGCCAA 59.239 36.000 0.00 0.00 39.51 4.52
4105 4197 6.430000 AGTTTAAGTTACACTTCATCGCCAAT 59.570 34.615 0.00 0.00 39.51 3.16
4106 4198 4.946784 AAGTTACACTTCATCGCCAATC 57.053 40.909 0.00 0.00 31.77 2.67
4110 4202 5.240623 AGTTACACTTCATCGCCAATCAAAA 59.759 36.000 0.00 0.00 0.00 2.44
4112 4204 5.138125 ACACTTCATCGCCAATCAAAATT 57.862 34.783 0.00 0.00 0.00 1.82
4114 4206 6.324819 ACACTTCATCGCCAATCAAAATTAG 58.675 36.000 0.00 0.00 0.00 1.73
4115 4207 6.071952 ACACTTCATCGCCAATCAAAATTAGT 60.072 34.615 0.00 0.00 0.00 2.24
4116 4208 7.120579 ACACTTCATCGCCAATCAAAATTAGTA 59.879 33.333 0.00 0.00 0.00 1.82
4117 4209 7.429340 CACTTCATCGCCAATCAAAATTAGTAC 59.571 37.037 0.00 0.00 0.00 2.73
4118 4210 7.336931 ACTTCATCGCCAATCAAAATTAGTACT 59.663 33.333 0.00 0.00 0.00 2.73
4119 4211 7.246674 TCATCGCCAATCAAAATTAGTACTC 57.753 36.000 0.00 0.00 0.00 2.59
4120 4212 6.260050 TCATCGCCAATCAAAATTAGTACTCC 59.740 38.462 0.00 0.00 0.00 3.85
4121 4213 4.879545 TCGCCAATCAAAATTAGTACTCCC 59.120 41.667 0.00 0.00 0.00 4.30
4122 4214 4.881850 CGCCAATCAAAATTAGTACTCCCT 59.118 41.667 0.00 0.00 0.00 4.20
4123 4215 5.007724 CGCCAATCAAAATTAGTACTCCCTC 59.992 44.000 0.00 0.00 0.00 4.30
4124 4216 5.299531 GCCAATCAAAATTAGTACTCCCTCC 59.700 44.000 0.00 0.00 0.00 4.30
4125 4217 5.527582 CCAATCAAAATTAGTACTCCCTCCG 59.472 44.000 0.00 0.00 0.00 4.63
4126 4218 5.952347 ATCAAAATTAGTACTCCCTCCGT 57.048 39.130 0.00 0.00 0.00 4.69
4127 4219 5.750352 TCAAAATTAGTACTCCCTCCGTT 57.250 39.130 0.00 0.00 0.00 4.44
4128 4220 5.727434 TCAAAATTAGTACTCCCTCCGTTC 58.273 41.667 0.00 0.00 0.00 3.95
4129 4221 4.382345 AAATTAGTACTCCCTCCGTTCG 57.618 45.455 0.00 0.00 0.00 3.95
4130 4222 2.496899 TTAGTACTCCCTCCGTTCGT 57.503 50.000 0.00 0.00 0.00 3.85
4131 4223 3.627395 TTAGTACTCCCTCCGTTCGTA 57.373 47.619 0.00 0.00 0.00 3.43
4132 4224 2.496899 AGTACTCCCTCCGTTCGTAA 57.503 50.000 0.00 0.00 0.00 3.18
4133 4225 2.795329 AGTACTCCCTCCGTTCGTAAA 58.205 47.619 0.00 0.00 0.00 2.01
4134 4226 3.359950 AGTACTCCCTCCGTTCGTAAAT 58.640 45.455 0.00 0.00 0.00 1.40
4135 4227 4.526970 AGTACTCCCTCCGTTCGTAAATA 58.473 43.478 0.00 0.00 0.00 1.40
4136 4228 5.136105 AGTACTCCCTCCGTTCGTAAATAT 58.864 41.667 0.00 0.00 0.00 1.28
4137 4229 5.595952 AGTACTCCCTCCGTTCGTAAATATT 59.404 40.000 0.00 0.00 0.00 1.28
4138 4230 6.772716 AGTACTCCCTCCGTTCGTAAATATTA 59.227 38.462 0.00 0.00 0.00 0.98
4139 4231 6.081872 ACTCCCTCCGTTCGTAAATATTAG 57.918 41.667 0.00 0.00 0.00 1.73
4140 4232 4.874970 TCCCTCCGTTCGTAAATATTAGC 58.125 43.478 0.00 0.00 0.00 3.09
4141 4233 3.992427 CCCTCCGTTCGTAAATATTAGCC 59.008 47.826 0.00 0.00 0.00 3.93
4142 4234 4.262335 CCCTCCGTTCGTAAATATTAGCCT 60.262 45.833 0.00 0.00 0.00 4.58
4143 4235 5.295152 CCTCCGTTCGTAAATATTAGCCTT 58.705 41.667 0.00 0.00 0.00 4.35
4144 4236 5.756833 CCTCCGTTCGTAAATATTAGCCTTT 59.243 40.000 0.00 0.00 0.00 3.11
4145 4237 6.259387 CCTCCGTTCGTAAATATTAGCCTTTT 59.741 38.462 0.00 0.00 0.00 2.27
4146 4238 7.201670 CCTCCGTTCGTAAATATTAGCCTTTTT 60.202 37.037 0.00 0.00 0.00 1.94
4147 4239 8.715191 TCCGTTCGTAAATATTAGCCTTTTTA 57.285 30.769 0.00 0.00 0.00 1.52
4148 4240 8.819974 TCCGTTCGTAAATATTAGCCTTTTTAG 58.180 33.333 0.00 0.00 0.00 1.85
4149 4241 8.819974 CCGTTCGTAAATATTAGCCTTTTTAGA 58.180 33.333 0.00 0.00 0.00 2.10
4150 4242 9.845305 CGTTCGTAAATATTAGCCTTTTTAGAG 57.155 33.333 0.00 0.00 0.00 2.43
4164 4256 9.785982 AGCCTTTTTAGAGATTCCAATATAGAC 57.214 33.333 0.00 0.00 0.00 2.59
4165 4257 9.785982 GCCTTTTTAGAGATTCCAATATAGACT 57.214 33.333 0.00 0.00 0.00 3.24
4173 4265 9.179909 AGAGATTCCAATATAGACTACATACGG 57.820 37.037 0.00 0.00 0.00 4.02
4174 4266 9.175312 GAGATTCCAATATAGACTACATACGGA 57.825 37.037 0.00 0.00 0.00 4.69
4175 4267 9.179909 AGATTCCAATATAGACTACATACGGAG 57.820 37.037 0.00 0.00 0.00 4.63
4176 4268 6.754702 TCCAATATAGACTACATACGGAGC 57.245 41.667 0.00 0.00 0.00 4.70
4177 4269 6.243148 TCCAATATAGACTACATACGGAGCA 58.757 40.000 0.00 0.00 0.00 4.26
4178 4270 6.717997 TCCAATATAGACTACATACGGAGCAA 59.282 38.462 0.00 0.00 0.00 3.91
4179 4271 7.231925 TCCAATATAGACTACATACGGAGCAAA 59.768 37.037 0.00 0.00 0.00 3.68
4180 4272 7.870954 CCAATATAGACTACATACGGAGCAAAA 59.129 37.037 0.00 0.00 0.00 2.44
4181 4273 9.424319 CAATATAGACTACATACGGAGCAAAAT 57.576 33.333 0.00 0.00 0.00 1.82
4182 4274 8.988064 ATATAGACTACATACGGAGCAAAATG 57.012 34.615 0.00 0.00 0.00 2.32
4183 4275 5.339008 AGACTACATACGGAGCAAAATGA 57.661 39.130 0.00 0.00 0.00 2.57
4184 4276 5.352284 AGACTACATACGGAGCAAAATGAG 58.648 41.667 0.00 0.00 0.00 2.90
4185 4277 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
4186 4278 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
4187 4279 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
4188 4280 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
4189 4281 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
4190 4282 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
4191 4283 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
4192 4284 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
4193 4285 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
4194 4286 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
4195 4287 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
4196 4288 5.163713 GGAGCAAAATGAGTGAATCTACACC 60.164 44.000 0.00 0.00 41.12 4.16
4197 4289 4.702131 AGCAAAATGAGTGAATCTACACCC 59.298 41.667 0.00 0.00 41.12 4.61
4198 4290 4.702131 GCAAAATGAGTGAATCTACACCCT 59.298 41.667 0.00 0.00 41.12 4.34
4199 4291 5.880332 GCAAAATGAGTGAATCTACACCCTA 59.120 40.000 0.00 0.00 41.12 3.53
4200 4292 6.374333 GCAAAATGAGTGAATCTACACCCTAA 59.626 38.462 0.00 0.00 41.12 2.69
4201 4293 7.094377 GCAAAATGAGTGAATCTACACCCTAAA 60.094 37.037 0.00 0.00 41.12 1.85
4202 4294 8.792633 CAAAATGAGTGAATCTACACCCTAAAA 58.207 33.333 0.00 0.00 41.12 1.52
4203 4295 9.533831 AAAATGAGTGAATCTACACCCTAAAAT 57.466 29.630 0.00 0.00 41.12 1.82
4206 4298 9.838339 ATGAGTGAATCTACACCCTAAAATAAG 57.162 33.333 0.00 0.00 41.12 1.73
4207 4299 8.822805 TGAGTGAATCTACACCCTAAAATAAGT 58.177 33.333 0.00 0.00 41.12 2.24
4208 4300 9.315525 GAGTGAATCTACACCCTAAAATAAGTC 57.684 37.037 0.00 0.00 41.12 3.01
4209 4301 9.047947 AGTGAATCTACACCCTAAAATAAGTCT 57.952 33.333 0.00 0.00 41.12 3.24
4236 4328 5.484173 ACATCCGTATGTAGTTTGCATTG 57.516 39.130 0.00 0.00 44.66 2.82
4237 4329 5.182487 ACATCCGTATGTAGTTTGCATTGA 58.818 37.500 0.00 0.00 44.66 2.57
4238 4330 5.645929 ACATCCGTATGTAGTTTGCATTGAA 59.354 36.000 0.00 0.00 44.66 2.69
4239 4331 6.150307 ACATCCGTATGTAGTTTGCATTGAAA 59.850 34.615 0.00 0.00 44.66 2.69
4240 4332 6.751514 TCCGTATGTAGTTTGCATTGAAAT 57.248 33.333 0.00 0.00 0.00 2.17
4241 4333 6.781138 TCCGTATGTAGTTTGCATTGAAATC 58.219 36.000 0.00 0.00 0.00 2.17
4242 4334 6.597672 TCCGTATGTAGTTTGCATTGAAATCT 59.402 34.615 0.00 0.00 0.00 2.40
4243 4335 6.907212 CCGTATGTAGTTTGCATTGAAATCTC 59.093 38.462 0.00 0.00 0.00 2.75
4244 4336 7.201644 CCGTATGTAGTTTGCATTGAAATCTCT 60.202 37.037 0.00 0.00 0.00 3.10
4245 4337 8.817100 CGTATGTAGTTTGCATTGAAATCTCTA 58.183 33.333 0.00 0.00 0.00 2.43
4249 4341 9.897744 TGTAGTTTGCATTGAAATCTCTAAAAG 57.102 29.630 0.00 0.00 0.00 2.27
4250 4342 9.346725 GTAGTTTGCATTGAAATCTCTAAAAGG 57.653 33.333 0.00 0.00 0.00 3.11
4251 4343 7.381323 AGTTTGCATTGAAATCTCTAAAAGGG 58.619 34.615 0.00 0.00 0.00 3.95
4252 4344 5.329035 TGCATTGAAATCTCTAAAAGGGC 57.671 39.130 0.00 0.00 0.00 5.19
4253 4345 5.018809 TGCATTGAAATCTCTAAAAGGGCT 58.981 37.500 0.00 0.00 0.00 5.19
4254 4346 5.481473 TGCATTGAAATCTCTAAAAGGGCTT 59.519 36.000 0.00 0.00 0.00 4.35
4255 4347 6.663093 TGCATTGAAATCTCTAAAAGGGCTTA 59.337 34.615 0.00 0.00 0.00 3.09
4256 4348 7.342799 TGCATTGAAATCTCTAAAAGGGCTTAT 59.657 33.333 0.00 0.00 0.00 1.73
4257 4349 8.850156 GCATTGAAATCTCTAAAAGGGCTTATA 58.150 33.333 0.00 0.00 0.00 0.98
4268 4360 9.333724 TCTAAAAGGGCTTATATTTAGAAACGG 57.666 33.333 4.78 0.00 39.89 4.44
4269 4361 9.333724 CTAAAAGGGCTTATATTTAGAAACGGA 57.666 33.333 0.00 0.00 37.48 4.69
4270 4362 7.803279 AAAGGGCTTATATTTAGAAACGGAG 57.197 36.000 0.00 0.00 0.00 4.63
4271 4363 5.866207 AGGGCTTATATTTAGAAACGGAGG 58.134 41.667 0.00 0.00 0.00 4.30
4272 4364 5.001874 GGGCTTATATTTAGAAACGGAGGG 58.998 45.833 0.00 0.00 0.00 4.30
4273 4365 5.221783 GGGCTTATATTTAGAAACGGAGGGA 60.222 44.000 0.00 0.00 0.00 4.20
4274 4366 5.932883 GGCTTATATTTAGAAACGGAGGGAG 59.067 44.000 0.00 0.00 0.00 4.30
4283 4375 4.091549 AGAAACGGAGGGAGTACATTACA 58.908 43.478 0.00 0.00 0.00 2.41
4285 4377 4.402056 AACGGAGGGAGTACATTACATG 57.598 45.455 0.00 0.00 0.00 3.21
4287 4379 3.637229 ACGGAGGGAGTACATTACATGAG 59.363 47.826 0.00 0.00 0.00 2.90
4298 4390 4.040047 ACATTACATGAGGGTCCATCAGA 58.960 43.478 12.50 0.00 0.00 3.27
4314 4406 5.707298 TCCATCAGACAATCTCAAAGGAAAC 59.293 40.000 0.00 0.00 0.00 2.78
4364 4456 6.855836 ACATACAGATAAAGTTGCAACATGG 58.144 36.000 30.11 14.34 0.00 3.66
4373 4465 3.485394 AGTTGCAACATGGTCACACATA 58.515 40.909 30.11 0.00 0.00 2.29
4386 4478 4.036262 GGTCACACATAAGCAACAAGAACA 59.964 41.667 0.00 0.00 0.00 3.18
4441 4545 5.756833 TCACTCCATCAATTCATGAAGATCG 59.243 40.000 14.54 5.29 42.54 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 2.545113 CGACACGAAGGAAGAAGTTGGA 60.545 50.000 0.00 0.00 0.00 3.53
65 66 6.764877 ATTTTATATACTGCGACACGAAGG 57.235 37.500 4.20 0.00 36.73 3.46
69 70 5.631929 TGGCTATTTTATATACTGCGACACG 59.368 40.000 0.00 0.00 0.00 4.49
108 109 7.162761 TCGGAATAAAGTTCATGTTTGACCTA 58.837 34.615 0.00 0.00 0.00 3.08
111 112 7.129109 TCTCGGAATAAAGTTCATGTTTGAC 57.871 36.000 0.00 0.00 0.00 3.18
130 131 0.095935 CAATGAAGCAACGCTCTCGG 59.904 55.000 0.00 0.00 38.25 4.63
167 168 1.556911 AGTTCAGATGCTCCATTCGGT 59.443 47.619 0.00 0.00 0.00 4.69
178 179 9.269453 TCAGCTATGAAATTGATAGTTCAGATG 57.731 33.333 1.73 0.00 41.15 2.90
426 427 5.005682 GGTAAAAACAACTTTTCTGCAGCTG 59.994 40.000 10.11 10.11 38.26 4.24
459 460 2.987232 AGAGGGCTCGATTTGGTTTAC 58.013 47.619 0.00 0.00 34.09 2.01
656 657 1.476891 CAGCTGGCTGATTGATGCTTT 59.523 47.619 16.59 0.00 46.30 3.51
953 955 0.953960 CGGCCTGAACAAGTACCACC 60.954 60.000 0.00 0.00 0.00 4.61
1024 1026 1.280421 GAGAAGGGAGACAGTGGCAAT 59.720 52.381 0.00 0.00 0.00 3.56
1184 1186 0.884704 TGAGAAGGTGAAGGCGTTGC 60.885 55.000 0.00 0.00 0.00 4.17
1436 1438 7.591426 GTGAATCGAAACTTTGCCATATTATCC 59.409 37.037 0.00 0.00 0.00 2.59
1496 1498 1.444119 GACCAAGTTTGTCGCAGCCA 61.444 55.000 0.00 0.00 0.00 4.75
1509 1511 0.106217 ACTGGGTTGTTGGGACCAAG 60.106 55.000 3.57 0.00 42.84 3.61
1590 1592 2.369870 CGAAACCTCGGGAACATCG 58.630 57.895 0.00 0.00 41.57 3.84
1761 1763 3.319220 AGTTAGCCTTCTCCTAATCCCC 58.681 50.000 0.00 0.00 0.00 4.81
1834 1836 3.758554 GCTACCATTGAAACTGACCACAT 59.241 43.478 0.00 0.00 0.00 3.21
2438 2440 5.883661 ACCATGCGAATGTTATGAAAGAAG 58.116 37.500 1.88 0.00 0.00 2.85
3057 3059 0.456221 CTATCGTTCCTCGCACCTGT 59.544 55.000 0.00 0.00 39.67 4.00
3343 3345 1.000938 GCAGGAAACAGCCAACTTGAG 60.001 52.381 0.00 0.00 36.76 3.02
3461 3463 8.642935 TCACCTTATTCATACATTCCACAAAA 57.357 30.769 0.00 0.00 0.00 2.44
3489 3491 3.181434 TGACCTTGCAATCAAGTACCCTT 60.181 43.478 0.00 0.00 46.33 3.95
3490 3492 2.375174 TGACCTTGCAATCAAGTACCCT 59.625 45.455 0.00 0.00 46.33 4.34
3491 3493 2.790433 TGACCTTGCAATCAAGTACCC 58.210 47.619 0.00 0.00 46.33 3.69
3507 3509 6.296026 TGGCAACTATTATACATCCTTGACC 58.704 40.000 0.00 0.00 37.61 4.02
3533 3535 4.202192 TGTTTAAATGCATCACAGTGGCAA 60.202 37.500 8.36 0.00 41.43 4.52
3552 3554 5.203528 CTGGACCCAATCTATCCAATGTTT 58.796 41.667 0.00 0.00 41.95 2.83
3570 3572 3.371063 TGACCTCGACGGCTGGAC 61.371 66.667 4.10 0.00 35.61 4.02
3591 3593 4.742659 ACGAAAAACATGGAAATTTCACCG 59.257 37.500 19.49 9.07 32.64 4.94
3694 3696 8.621532 AGAAAGAAGCATAAACATCACAAGTA 57.378 30.769 0.00 0.00 0.00 2.24
3730 3732 2.621407 GCATCACCAGGAAAGATGGGAA 60.621 50.000 17.29 0.00 42.48 3.97
3741 3743 2.449464 TGAAAATCAGGCATCACCAGG 58.551 47.619 0.00 0.00 43.14 4.45
3781 3821 6.804783 GCACCAAAACTAACGCAAAGTTATAT 59.195 34.615 0.00 0.00 43.64 0.86
3841 3881 6.070481 GGAGTTCATCTAAAAGAGGACTCCTT 60.070 42.308 20.53 0.00 42.76 3.36
3843 3883 5.423931 AGGAGTTCATCTAAAAGAGGACTCC 59.576 44.000 20.39 20.39 44.30 3.85
3844 3884 6.538945 AGGAGTTCATCTAAAAGAGGACTC 57.461 41.667 10.19 10.19 34.47 3.36
3852 3892 9.658799 CAATGACTTCTAGGAGTTCATCTAAAA 57.341 33.333 4.81 0.00 0.00 1.52
3853 3893 9.035890 TCAATGACTTCTAGGAGTTCATCTAAA 57.964 33.333 4.81 0.00 0.00 1.85
3854 3894 8.595362 TCAATGACTTCTAGGAGTTCATCTAA 57.405 34.615 4.81 0.00 0.00 2.10
3855 3895 7.286546 CCTCAATGACTTCTAGGAGTTCATCTA 59.713 40.741 4.81 2.55 0.00 1.98
3856 3896 6.098124 CCTCAATGACTTCTAGGAGTTCATCT 59.902 42.308 4.81 0.46 0.00 2.90
3857 3897 6.127196 ACCTCAATGACTTCTAGGAGTTCATC 60.127 42.308 4.81 0.00 0.00 2.92
3858 3898 5.723887 ACCTCAATGACTTCTAGGAGTTCAT 59.276 40.000 4.81 7.60 0.00 2.57
3859 3899 5.087323 ACCTCAATGACTTCTAGGAGTTCA 58.913 41.667 4.81 5.52 0.00 3.18
3860 3900 5.669164 ACCTCAATGACTTCTAGGAGTTC 57.331 43.478 4.81 0.00 0.00 3.01
3904 3944 5.537300 ATTCTCCGCACACTATATTCTGT 57.463 39.130 0.00 0.00 0.00 3.41
3906 3946 6.490381 TCAGTATTCTCCGCACACTATATTCT 59.510 38.462 0.00 0.00 0.00 2.40
3908 3948 6.040504 TGTCAGTATTCTCCGCACACTATATT 59.959 38.462 0.00 0.00 0.00 1.28
3911 3951 3.699538 TGTCAGTATTCTCCGCACACTAT 59.300 43.478 0.00 0.00 0.00 2.12
3919 3959 4.447054 GCTGATCAATGTCAGTATTCTCCG 59.553 45.833 12.10 0.00 45.80 4.63
3921 3961 6.147492 GGATGCTGATCAATGTCAGTATTCTC 59.853 42.308 13.78 6.33 46.87 2.87
3932 3972 3.756963 CCATACTGGGATGCTGATCAATG 59.243 47.826 0.00 0.00 32.67 2.82
3935 3975 1.072806 GCCATACTGGGATGCTGATCA 59.927 52.381 0.00 0.00 38.19 2.92
3970 4013 5.614324 TGCTAGTGTATGGCAAGAGTATT 57.386 39.130 0.00 0.00 43.23 1.89
3979 4022 4.881850 ACAGGTATTTTGCTAGTGTATGGC 59.118 41.667 0.00 0.00 35.58 4.40
3998 4041 0.319083 TACCCGTAGCAACACACAGG 59.681 55.000 0.00 0.00 0.00 4.00
4000 4043 2.616634 TTTACCCGTAGCAACACACA 57.383 45.000 0.00 0.00 0.00 3.72
4009 4052 6.373495 AGGCATTTCTTACTTTTTACCCGTAG 59.627 38.462 0.00 0.00 0.00 3.51
4016 4059 8.079809 GTGCACTTAGGCATTTCTTACTTTTTA 58.920 33.333 10.32 0.00 46.92 1.52
4043 4086 1.588674 TTTAGTGTGCCTGAACCACG 58.411 50.000 0.00 0.00 36.01 4.94
4045 4088 3.572255 GGAATTTTAGTGTGCCTGAACCA 59.428 43.478 0.00 0.00 0.00 3.67
4046 4089 3.572255 TGGAATTTTAGTGTGCCTGAACC 59.428 43.478 0.00 0.00 0.00 3.62
4100 4192 5.299531 GGAGGGAGTACTAATTTTGATTGGC 59.700 44.000 0.00 0.00 0.00 4.52
4102 4194 6.113411 ACGGAGGGAGTACTAATTTTGATTG 58.887 40.000 0.00 0.00 0.00 2.67
4104 4196 5.952347 ACGGAGGGAGTACTAATTTTGAT 57.048 39.130 0.00 0.00 0.00 2.57
4105 4197 5.622914 CGAACGGAGGGAGTACTAATTTTGA 60.623 44.000 0.00 0.00 0.00 2.69
4106 4198 4.565564 CGAACGGAGGGAGTACTAATTTTG 59.434 45.833 0.00 0.00 0.00 2.44
4110 4202 3.010200 ACGAACGGAGGGAGTACTAAT 57.990 47.619 0.00 0.00 0.00 1.73
4112 4204 3.627395 TTACGAACGGAGGGAGTACTA 57.373 47.619 0.00 0.00 0.00 1.82
4114 4206 3.790152 ATTTACGAACGGAGGGAGTAC 57.210 47.619 0.00 0.00 0.00 2.73
4115 4207 6.294176 GCTAATATTTACGAACGGAGGGAGTA 60.294 42.308 0.00 0.00 0.00 2.59
4116 4208 5.508657 GCTAATATTTACGAACGGAGGGAGT 60.509 44.000 0.00 0.00 0.00 3.85
4117 4209 4.922103 GCTAATATTTACGAACGGAGGGAG 59.078 45.833 0.00 0.00 0.00 4.30
4118 4210 4.262164 GGCTAATATTTACGAACGGAGGGA 60.262 45.833 0.00 0.00 0.00 4.20
4119 4211 3.992427 GGCTAATATTTACGAACGGAGGG 59.008 47.826 0.00 0.00 0.00 4.30
4120 4212 4.879598 AGGCTAATATTTACGAACGGAGG 58.120 43.478 0.00 0.00 0.00 4.30
4121 4213 6.839820 AAAGGCTAATATTTACGAACGGAG 57.160 37.500 0.00 0.00 0.00 4.63
4122 4214 7.614124 AAAAAGGCTAATATTTACGAACGGA 57.386 32.000 0.00 0.00 0.00 4.69
4123 4215 8.819974 TCTAAAAAGGCTAATATTTACGAACGG 58.180 33.333 0.00 0.00 0.00 4.44
4124 4216 9.845305 CTCTAAAAAGGCTAATATTTACGAACG 57.155 33.333 0.00 0.00 0.00 3.95
4138 4230 9.785982 GTCTATATTGGAATCTCTAAAAAGGCT 57.214 33.333 0.00 0.00 0.00 4.58
4139 4231 9.785982 AGTCTATATTGGAATCTCTAAAAAGGC 57.214 33.333 0.00 0.00 0.00 4.35
4147 4239 9.179909 CCGTATGTAGTCTATATTGGAATCTCT 57.820 37.037 0.00 0.00 0.00 3.10
4148 4240 9.175312 TCCGTATGTAGTCTATATTGGAATCTC 57.825 37.037 7.43 0.00 0.00 2.75
4149 4241 9.179909 CTCCGTATGTAGTCTATATTGGAATCT 57.820 37.037 9.87 0.00 0.00 2.40
4150 4242 7.916450 GCTCCGTATGTAGTCTATATTGGAATC 59.084 40.741 9.87 4.29 0.00 2.52
4151 4243 7.396339 TGCTCCGTATGTAGTCTATATTGGAAT 59.604 37.037 9.87 0.00 0.00 3.01
4152 4244 6.717997 TGCTCCGTATGTAGTCTATATTGGAA 59.282 38.462 9.87 0.00 0.00 3.53
4153 4245 6.243148 TGCTCCGTATGTAGTCTATATTGGA 58.757 40.000 8.84 8.84 0.00 3.53
4154 4246 6.510879 TGCTCCGTATGTAGTCTATATTGG 57.489 41.667 0.00 0.00 0.00 3.16
4155 4247 8.812147 TTTTGCTCCGTATGTAGTCTATATTG 57.188 34.615 0.00 0.00 0.00 1.90
4156 4248 9.424319 CATTTTGCTCCGTATGTAGTCTATATT 57.576 33.333 0.00 0.00 0.00 1.28
4157 4249 8.803235 TCATTTTGCTCCGTATGTAGTCTATAT 58.197 33.333 0.00 0.00 0.00 0.86
4158 4250 8.173542 TCATTTTGCTCCGTATGTAGTCTATA 57.826 34.615 0.00 0.00 0.00 1.31
4159 4251 7.050970 TCATTTTGCTCCGTATGTAGTCTAT 57.949 36.000 0.00 0.00 0.00 1.98
4160 4252 6.096423 ACTCATTTTGCTCCGTATGTAGTCTA 59.904 38.462 0.00 0.00 0.00 2.59
4161 4253 5.105310 ACTCATTTTGCTCCGTATGTAGTCT 60.105 40.000 0.00 0.00 0.00 3.24
4162 4254 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
4163 4255 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
4164 4256 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
4165 4257 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
4166 4258 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
4167 4259 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
4168 4260 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
4169 4261 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
4170 4262 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
4171 4263 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
4172 4264 5.163713 GGTGTAGATTCACTCATTTTGCTCC 60.164 44.000 0.00 0.00 38.28 4.70
4173 4265 5.163713 GGGTGTAGATTCACTCATTTTGCTC 60.164 44.000 0.00 0.00 38.54 4.26
4174 4266 4.702131 GGGTGTAGATTCACTCATTTTGCT 59.298 41.667 0.00 0.00 38.54 3.91
4175 4267 4.702131 AGGGTGTAGATTCACTCATTTTGC 59.298 41.667 0.00 0.00 40.86 3.68
4176 4268 7.921786 TTAGGGTGTAGATTCACTCATTTTG 57.078 36.000 0.00 0.00 40.86 2.44
4177 4269 8.934023 TTTTAGGGTGTAGATTCACTCATTTT 57.066 30.769 0.00 0.00 40.86 1.82
4180 4272 9.838339 CTTATTTTAGGGTGTAGATTCACTCAT 57.162 33.333 0.00 0.00 40.86 2.90
4181 4273 8.822805 ACTTATTTTAGGGTGTAGATTCACTCA 58.177 33.333 0.00 0.00 40.86 3.41
4182 4274 9.315525 GACTTATTTTAGGGTGTAGATTCACTC 57.684 37.037 0.00 0.00 38.92 3.51
4183 4275 9.047947 AGACTTATTTTAGGGTGTAGATTCACT 57.952 33.333 0.00 0.00 38.28 3.41
4206 4298 9.286946 GCAAACTACATACGGATGTATATAGAC 57.713 37.037 20.64 6.10 45.42 2.59
4207 4299 9.016438 TGCAAACTACATACGGATGTATATAGA 57.984 33.333 20.64 0.00 45.42 1.98
4208 4300 9.803315 ATGCAAACTACATACGGATGTATATAG 57.197 33.333 20.64 13.28 45.42 1.31
4210 4302 8.935844 CAATGCAAACTACATACGGATGTATAT 58.064 33.333 20.64 9.64 45.42 0.86
4211 4303 8.145122 TCAATGCAAACTACATACGGATGTATA 58.855 33.333 20.64 1.71 45.42 1.47
4212 4304 6.989759 TCAATGCAAACTACATACGGATGTAT 59.010 34.615 20.64 4.46 45.42 2.29
4213 4305 6.342111 TCAATGCAAACTACATACGGATGTA 58.658 36.000 19.32 19.32 44.77 2.29
4215 4307 5.733226 TCAATGCAAACTACATACGGATG 57.267 39.130 5.94 5.94 39.16 3.51
4216 4308 6.751514 TTTCAATGCAAACTACATACGGAT 57.248 33.333 0.00 0.00 0.00 4.18
4217 4309 6.597672 AGATTTCAATGCAAACTACATACGGA 59.402 34.615 0.00 0.00 0.00 4.69
4218 4310 6.785191 AGATTTCAATGCAAACTACATACGG 58.215 36.000 0.00 0.00 0.00 4.02
4219 4311 7.688372 AGAGATTTCAATGCAAACTACATACG 58.312 34.615 0.00 0.00 0.00 3.06
4223 4315 9.897744 CTTTTAGAGATTTCAATGCAAACTACA 57.102 29.630 0.00 0.00 0.00 2.74
4224 4316 9.346725 CCTTTTAGAGATTTCAATGCAAACTAC 57.653 33.333 0.00 0.00 0.00 2.73
4225 4317 8.522830 CCCTTTTAGAGATTTCAATGCAAACTA 58.477 33.333 0.00 0.00 0.00 2.24
4226 4318 7.381323 CCCTTTTAGAGATTTCAATGCAAACT 58.619 34.615 0.00 0.00 0.00 2.66
4227 4319 6.091305 GCCCTTTTAGAGATTTCAATGCAAAC 59.909 38.462 0.00 0.00 0.00 2.93
4228 4320 6.014327 AGCCCTTTTAGAGATTTCAATGCAAA 60.014 34.615 0.00 0.00 0.00 3.68
4229 4321 5.481473 AGCCCTTTTAGAGATTTCAATGCAA 59.519 36.000 0.00 0.00 0.00 4.08
4230 4322 5.018809 AGCCCTTTTAGAGATTTCAATGCA 58.981 37.500 0.00 0.00 0.00 3.96
4231 4323 5.588958 AGCCCTTTTAGAGATTTCAATGC 57.411 39.130 0.00 0.00 0.00 3.56
4242 4334 9.333724 CCGTTTCTAAATATAAGCCCTTTTAGA 57.666 33.333 0.00 0.00 38.33 2.10
4243 4335 9.333724 TCCGTTTCTAAATATAAGCCCTTTTAG 57.666 33.333 0.00 0.00 34.47 1.85
4244 4336 9.333724 CTCCGTTTCTAAATATAAGCCCTTTTA 57.666 33.333 0.00 0.00 0.00 1.52
4245 4337 7.284716 CCTCCGTTTCTAAATATAAGCCCTTTT 59.715 37.037 0.00 0.00 0.00 2.27
4246 4338 6.771267 CCTCCGTTTCTAAATATAAGCCCTTT 59.229 38.462 0.00 0.00 0.00 3.11
4247 4339 6.296803 CCTCCGTTTCTAAATATAAGCCCTT 58.703 40.000 0.00 0.00 0.00 3.95
4248 4340 5.221864 CCCTCCGTTTCTAAATATAAGCCCT 60.222 44.000 0.00 0.00 0.00 5.19
4249 4341 5.001874 CCCTCCGTTTCTAAATATAAGCCC 58.998 45.833 0.00 0.00 0.00 5.19
4250 4342 5.861727 TCCCTCCGTTTCTAAATATAAGCC 58.138 41.667 0.00 0.00 0.00 4.35
4251 4343 6.522946 ACTCCCTCCGTTTCTAAATATAAGC 58.477 40.000 0.00 0.00 0.00 3.09
4252 4344 8.636213 TGTACTCCCTCCGTTTCTAAATATAAG 58.364 37.037 0.00 0.00 0.00 1.73
4253 4345 8.537728 TGTACTCCCTCCGTTTCTAAATATAA 57.462 34.615 0.00 0.00 0.00 0.98
4254 4346 8.716674 ATGTACTCCCTCCGTTTCTAAATATA 57.283 34.615 0.00 0.00 0.00 0.86
4255 4347 7.613551 ATGTACTCCCTCCGTTTCTAAATAT 57.386 36.000 0.00 0.00 0.00 1.28
4256 4348 7.427989 AATGTACTCCCTCCGTTTCTAAATA 57.572 36.000 0.00 0.00 0.00 1.40
4257 4349 5.952347 ATGTACTCCCTCCGTTTCTAAAT 57.048 39.130 0.00 0.00 0.00 1.40
4258 4350 5.750352 AATGTACTCCCTCCGTTTCTAAA 57.250 39.130 0.00 0.00 0.00 1.85
4259 4351 5.716228 TGTAATGTACTCCCTCCGTTTCTAA 59.284 40.000 0.00 0.00 0.00 2.10
4260 4352 5.263599 TGTAATGTACTCCCTCCGTTTCTA 58.736 41.667 0.00 0.00 0.00 2.10
4261 4353 4.091549 TGTAATGTACTCCCTCCGTTTCT 58.908 43.478 0.00 0.00 0.00 2.52
4262 4354 4.460948 TGTAATGTACTCCCTCCGTTTC 57.539 45.455 0.00 0.00 0.00 2.78
4263 4355 4.468510 TCATGTAATGTACTCCCTCCGTTT 59.531 41.667 0.00 0.00 46.80 3.60
4264 4356 4.028131 TCATGTAATGTACTCCCTCCGTT 58.972 43.478 0.00 0.00 46.80 4.44
4265 4357 3.637229 CTCATGTAATGTACTCCCTCCGT 59.363 47.826 0.00 0.00 46.80 4.69
4266 4358 3.005897 CCTCATGTAATGTACTCCCTCCG 59.994 52.174 0.00 0.00 46.80 4.63
4267 4359 3.325135 CCCTCATGTAATGTACTCCCTCC 59.675 52.174 0.00 0.00 46.80 4.30
4268 4360 3.967987 ACCCTCATGTAATGTACTCCCTC 59.032 47.826 0.00 0.00 46.80 4.30
4269 4361 3.967987 GACCCTCATGTAATGTACTCCCT 59.032 47.826 0.00 0.00 46.80 4.20
4270 4362 3.071167 GGACCCTCATGTAATGTACTCCC 59.929 52.174 0.00 0.00 46.80 4.30
4271 4363 3.709653 TGGACCCTCATGTAATGTACTCC 59.290 47.826 0.00 0.00 46.80 3.85
4272 4364 5.070446 TGATGGACCCTCATGTAATGTACTC 59.930 44.000 0.00 0.00 46.80 2.59
4273 4365 4.968719 TGATGGACCCTCATGTAATGTACT 59.031 41.667 0.00 0.00 46.80 2.73
4274 4366 5.070446 TCTGATGGACCCTCATGTAATGTAC 59.930 44.000 0.00 0.00 46.80 2.90
4283 4375 3.390639 GAGATTGTCTGATGGACCCTCAT 59.609 47.826 0.00 0.00 43.89 2.90
4285 4377 2.768527 TGAGATTGTCTGATGGACCCTC 59.231 50.000 0.00 0.00 43.89 4.30
4287 4379 3.634397 TTGAGATTGTCTGATGGACCC 57.366 47.619 0.00 0.00 43.89 4.46
4298 4390 6.149474 CCAGATTACGTTTCCTTTGAGATTGT 59.851 38.462 0.00 0.00 0.00 2.71
4300 4392 5.123979 GCCAGATTACGTTTCCTTTGAGATT 59.876 40.000 0.00 0.00 0.00 2.40
4309 4401 2.418976 GGTTCAGCCAGATTACGTTTCC 59.581 50.000 0.00 0.00 37.17 3.13
4357 4449 4.229096 GTTGCTTATGTGTGACCATGTTG 58.771 43.478 0.00 0.00 0.00 3.33
4364 4456 5.168526 TGTTCTTGTTGCTTATGTGTGAC 57.831 39.130 0.00 0.00 0.00 3.67
4373 4465 5.126067 AGTGTGACTATGTTCTTGTTGCTT 58.874 37.500 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.