Multiple sequence alignment - TraesCS3D01G343900

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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 TraesCS3D01G343900 chr3D 100.000 5533 0 0 1 5533 455874981 455880513 0.000000e+00 10218
1 TraesCS3D01G343900 chr3D 92.473 93 5 2 3985 4077 121985534 121985624 1.250000e-26 132
2 TraesCS3D01G343900 chr3D 91.489 94 6 2 3985 4077 123300251 123300159 1.620000e-25 128
3 TraesCS3D01G343900 chr3B 91.562 3899 172 73 1 3791 602359558 602363407 0.000000e+00 5232
4 TraesCS3D01G343900 chr3B 93.887 1456 43 8 4076 5530 602363528 602364938 0.000000e+00 2154
5 TraesCS3D01G343900 chr3A 91.058 2807 163 32 1 2734 598559032 598561823 0.000000e+00 3712
6 TraesCS3D01G343900 chr3A 94.740 1464 47 12 4078 5533 598563108 598564549 0.000000e+00 2250
7 TraesCS3D01G343900 chr3A 91.938 769 30 3 2736 3502 598561950 598562688 0.000000e+00 1048
8 TraesCS3D01G343900 chr3A 94.118 391 22 1 3542 3931 598562690 598563080 1.330000e-165 593
9 TraesCS3D01G343900 chr7D 92.553 94 5 2 3991 4084 519264631 519264540 3.480000e-27 134
10 TraesCS3D01G343900 chr7D 94.318 88 4 1 3991 4078 520877094 520877008 3.480000e-27 134
11 TraesCS3D01G343900 chr2D 91.000 100 6 3 3986 4085 15682894 15682990 1.250000e-26 132
12 TraesCS3D01G343900 chr1D 92.473 93 5 2 3989 4081 337065276 337065186 1.250000e-26 132
13 TraesCS3D01G343900 chr5A 90.099 101 8 2 3982 4081 390157081 390156982 4.500000e-26 130
14 TraesCS3D01G343900 chr4A 90.196 102 6 4 3991 4092 556768040 556767943 4.500000e-26 130
15 TraesCS3D01G343900 chr4D 90.625 96 8 1 3989 4084 23978643 23978737 5.820000e-25 126


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 TraesCS3D01G343900 chr3D 455874981 455880513 5532 False 10218.00 10218 100.0000 1 5533 1 chr3D.!!$F2 5532
1 TraesCS3D01G343900 chr3B 602359558 602364938 5380 False 3693.00 5232 92.7245 1 5530 2 chr3B.!!$F1 5529
2 TraesCS3D01G343900 chr3A 598559032 598564549 5517 False 1900.75 3712 92.9635 1 5533 4 chr3A.!!$F1 5532

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
954 1013 0.242825 CCGTTAACTCGCCTCACTCA 59.757 55.0 3.71 0.0 0.00 3.41 F
1924 2039 0.249911 ACACGCCAGGTCTTCTGTTC 60.250 55.0 0.00 0.0 41.83 3.18 F
3536 3807 2.018884 ATTTATTGGAGGGGGCGGGG 62.019 60.0 0.00 0.0 0.00 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2403 2531 0.249197 TGCGGATCTCTTGAGCATCG 60.249 55.0 0.0 0.0 38.61 3.84 R
3538 3809 0.391130 TGAGGCAACAGGCGACATAC 60.391 55.0 0.0 0.0 46.16 2.39 R
4640 4926 0.415429 AAAGAGAGGAGCAGGAGGGA 59.585 55.0 0.0 0.0 0.00 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
546 547 4.292178 GATGAGCGGCGGGGAGAG 62.292 72.222 9.78 0.00 0.00 3.20
567 568 1.208844 AGAGGAGGAGGAGACCGTGA 61.209 60.000 0.00 0.00 34.73 4.35
701 721 1.609501 CGAACCAGGTCCAGGGAGA 60.610 63.158 5.14 0.00 0.00 3.71
702 722 1.192146 CGAACCAGGTCCAGGGAGAA 61.192 60.000 5.14 0.00 0.00 2.87
715 735 3.760035 GAGAACCGCGCTGGAGGA 61.760 66.667 22.10 0.00 42.00 3.71
716 736 3.296709 GAGAACCGCGCTGGAGGAA 62.297 63.158 22.10 0.00 42.00 3.36
717 737 2.815647 GAACCGCGCTGGAGGAAG 60.816 66.667 22.10 0.00 42.00 3.46
797 817 0.801251 CTTTTCCTGGAGAAGCGCTG 59.199 55.000 12.58 0.00 35.40 5.18
954 1013 0.242825 CCGTTAACTCGCCTCACTCA 59.757 55.000 3.71 0.00 0.00 3.41
1534 1604 4.156008 GGTCGCTTTTACAGATGTGGAATT 59.844 41.667 0.00 0.00 0.00 2.17
1580 1650 1.590238 GATGATACTGTGTGCGCAGTC 59.410 52.381 19.86 7.68 45.63 3.51
1629 1699 1.877443 CACGTCCGATCTTTTTGGGTT 59.123 47.619 0.00 0.00 0.00 4.11
1638 1708 4.021544 CGATCTTTTTGGGTTTTGGATGGA 60.022 41.667 0.00 0.00 0.00 3.41
1679 1749 1.403323 GCTTTACTCCCATTCAGCAGC 59.597 52.381 0.00 0.00 0.00 5.25
1680 1750 2.943199 GCTTTACTCCCATTCAGCAGCT 60.943 50.000 0.00 0.00 0.00 4.24
1701 1771 3.208594 TGCTGCATGTCAAATAGCCTAG 58.791 45.455 0.00 0.00 33.60 3.02
1702 1772 2.031333 GCTGCATGTCAAATAGCCTAGC 60.031 50.000 0.00 0.00 0.00 3.42
1703 1773 3.474600 CTGCATGTCAAATAGCCTAGCT 58.525 45.455 0.00 0.00 43.41 3.32
1706 1776 4.344968 TGCATGTCAAATAGCCTAGCTCTA 59.655 41.667 0.00 0.00 40.44 2.43
1708 1778 5.350914 GCATGTCAAATAGCCTAGCTCTATG 59.649 44.000 0.00 0.00 40.44 2.23
1710 1780 7.606349 CATGTCAAATAGCCTAGCTCTATGTA 58.394 38.462 0.00 0.00 40.44 2.29
1711 1781 7.220741 TGTCAAATAGCCTAGCTCTATGTAG 57.779 40.000 0.00 0.00 40.44 2.74
1712 1782 6.778069 TGTCAAATAGCCTAGCTCTATGTAGT 59.222 38.462 0.00 0.00 40.44 2.73
1713 1783 7.942894 TGTCAAATAGCCTAGCTCTATGTAGTA 59.057 37.037 0.00 0.00 40.44 1.82
1714 1784 8.455682 GTCAAATAGCCTAGCTCTATGTAGTAG 58.544 40.741 0.00 0.00 40.44 2.57
1715 1785 7.121463 TCAAATAGCCTAGCTCTATGTAGTAGC 59.879 40.741 0.00 0.00 40.44 3.58
1719 1789 1.249407 AGCTCTATGTAGTAGCGGGC 58.751 55.000 0.00 0.00 41.19 6.13
1721 1791 2.040012 AGCTCTATGTAGTAGCGGGCTA 59.960 50.000 0.00 0.00 41.19 3.93
1722 1792 2.420722 GCTCTATGTAGTAGCGGGCTAG 59.579 54.545 0.00 0.00 0.00 3.42
1739 1815 5.581085 CGGGCTAGCTATATGTTAATGGAAC 59.419 44.000 15.72 0.00 38.65 3.62
1749 1825 4.092771 TGTTAATGGAACGAGAGAGACG 57.907 45.455 0.00 0.00 41.35 4.18
1862 1973 4.261447 CCAAAACTCTTTAACACGGGGAAG 60.261 45.833 0.00 0.00 0.00 3.46
1924 2039 0.249911 ACACGCCAGGTCTTCTGTTC 60.250 55.000 0.00 0.00 41.83 3.18
2048 2168 9.678260 AATAGAAGATTCACTCTGCAACTTATT 57.322 29.630 0.00 0.00 30.90 1.40
2049 2169 7.375106 AGAAGATTCACTCTGCAACTTATTG 57.625 36.000 0.00 0.00 34.10 1.90
2101 2221 5.048782 CACTCCTGAGCATCTCTATCACTAC 60.049 48.000 0.00 0.00 34.92 2.73
2103 2223 5.069318 TCCTGAGCATCTCTATCACTACAG 58.931 45.833 0.00 0.00 34.92 2.74
2112 2232 6.031964 TCTCTATCACTACAGGAGGGAATT 57.968 41.667 0.00 0.00 42.36 2.17
2114 2234 5.529289 TCTATCACTACAGGAGGGAATTGT 58.471 41.667 0.00 0.00 42.36 2.71
2121 2241 4.664688 ACAGGAGGGAATTGTTCTTCAT 57.335 40.909 0.00 0.00 0.00 2.57
2170 2290 9.082313 CTTAAGAGGGATTTGGCATATTACATT 57.918 33.333 0.00 0.00 0.00 2.71
2227 2355 6.692681 CCACAGCTTTTACATCCATTTATTCG 59.307 38.462 0.00 0.00 0.00 3.34
2238 2366 4.823157 TCCATTTATTCGGACTCGTTTGA 58.177 39.130 0.00 0.00 37.69 2.69
2268 2396 7.063191 CAGATTGATTGTGAGACAGTTACTGAG 59.937 40.741 20.07 0.00 35.18 3.35
2403 2531 2.847441 ACCTTTCTTCGGGAAGTTCAC 58.153 47.619 5.01 0.00 39.38 3.18
2460 2588 2.432146 TCTGATGCTGTCTGATGTACCC 59.568 50.000 0.00 0.00 30.79 3.69
2504 2636 5.925509 TGTATCTAATTACCCTTCTGGCAC 58.074 41.667 0.00 0.00 37.83 5.01
2549 2682 5.447279 GCACTTTGTTGTCTCCGTATAATGG 60.447 44.000 0.00 0.00 0.00 3.16
2551 2684 6.814644 CACTTTGTTGTCTCCGTATAATGGTA 59.185 38.462 0.00 0.00 0.00 3.25
2613 2746 7.463469 ACTTTTTGTTCGATGAATTTTGGAC 57.537 32.000 0.00 0.00 0.00 4.02
2684 2818 5.373981 TGCATTTTGGGCAAATCATTTTC 57.626 34.783 0.00 0.00 38.54 2.29
2702 2837 8.302965 TCATTTTCTATGTCTCATATGCTTCG 57.697 34.615 0.00 0.00 0.00 3.79
2748 3008 6.652481 TGCACAAACATTTAATACCCATTTGG 59.348 34.615 0.00 0.00 41.37 3.28
2762 3022 3.255642 CCCATTTGGTTATCGCTTATGGG 59.744 47.826 0.00 0.00 43.27 4.00
2798 3058 4.227300 TGTTAAACAGGCATATCAGAGGGT 59.773 41.667 0.00 0.00 0.00 4.34
2957 3217 4.099419 ACCCTGATTGAGGTTTTTGTTGTC 59.901 41.667 0.00 0.00 40.87 3.18
3051 3313 6.837568 AGGCAAATGAGATATTGTCATCCTTT 59.162 34.615 2.82 0.00 33.34 3.11
3136 3398 6.491403 GGTATCTTTAGCCATCATCAACCAAT 59.509 38.462 0.00 0.00 0.00 3.16
3200 3462 6.429692 TCGCCCCATGATATACATAGTTTTTG 59.570 38.462 0.00 0.00 37.46 2.44
3361 3623 4.819630 TGAAGGATGTACAACCTGACAAAC 59.180 41.667 23.94 12.15 36.56 2.93
3462 3724 4.273318 AGTCATTGCCATTTCCTAAGTCC 58.727 43.478 0.00 0.00 0.00 3.85
3532 3803 6.075315 ACATAGTTTATTTATTGGAGGGGGC 58.925 40.000 0.00 0.00 0.00 5.80
3534 3805 2.626266 GTTTATTTATTGGAGGGGGCGG 59.374 50.000 0.00 0.00 0.00 6.13
3536 3807 2.018884 ATTTATTGGAGGGGGCGGGG 62.019 60.000 0.00 0.00 0.00 5.73
3553 3824 2.112815 GGGGTATGTCGCCTGTTGC 61.113 63.158 0.00 0.00 44.48 4.17
3686 3964 3.152341 CTGTGGATTCCTTGAAAGCACT 58.848 45.455 3.95 0.00 0.00 4.40
3820 4098 8.531982 GGCTTATTAATTGTTTCCTCTTTCCTT 58.468 33.333 0.00 0.00 0.00 3.36
3853 4131 6.636454 AGAACTGGGTGGAATAGAAACATA 57.364 37.500 0.00 0.00 0.00 2.29
3931 4209 3.701040 GGTTGTTGGGCATGACATAAGAT 59.299 43.478 0.00 0.00 0.00 2.40
3933 4211 5.337491 GGTTGTTGGGCATGACATAAGATTT 60.337 40.000 0.00 0.00 0.00 2.17
3935 4213 5.722263 TGTTGGGCATGACATAAGATTTTG 58.278 37.500 0.00 0.00 0.00 2.44
3936 4214 4.389890 TGGGCATGACATAAGATTTTGC 57.610 40.909 0.00 0.00 0.00 3.68
3937 4215 3.132646 TGGGCATGACATAAGATTTTGCC 59.867 43.478 0.00 4.21 45.73 4.52
3938 4216 4.389890 GGCATGACATAAGATTTTGCCA 57.610 40.909 7.41 0.00 45.75 4.92
3939 4217 4.952460 GGCATGACATAAGATTTTGCCAT 58.048 39.130 7.41 0.00 45.75 4.40
3940 4218 4.748102 GGCATGACATAAGATTTTGCCATG 59.252 41.667 7.41 7.56 45.75 3.66
3941 4219 5.353938 GCATGACATAAGATTTTGCCATGT 58.646 37.500 11.64 0.00 34.38 3.21
3942 4220 5.233476 GCATGACATAAGATTTTGCCATGTG 59.767 40.000 11.64 0.00 34.38 3.21
3943 4221 5.327616 TGACATAAGATTTTGCCATGTGG 57.672 39.130 0.00 0.00 38.53 4.17
3944 4222 4.160065 TGACATAAGATTTTGCCATGTGGG 59.840 41.667 0.54 0.00 40.85 4.61
3945 4223 4.095946 ACATAAGATTTTGCCATGTGGGT 58.904 39.130 0.54 0.00 39.65 4.51
3946 4224 5.268387 ACATAAGATTTTGCCATGTGGGTA 58.732 37.500 0.54 0.00 39.65 3.69
3947 4225 5.360714 ACATAAGATTTTGCCATGTGGGTAG 59.639 40.000 0.54 0.00 39.65 3.18
3948 4226 3.737559 AGATTTTGCCATGTGGGTAGA 57.262 42.857 0.54 0.00 39.65 2.59
3949 4227 4.255510 AGATTTTGCCATGTGGGTAGAT 57.744 40.909 0.54 0.00 39.65 1.98
3950 4228 4.613437 AGATTTTGCCATGTGGGTAGATT 58.387 39.130 0.54 0.00 39.65 2.40
3951 4229 4.646492 AGATTTTGCCATGTGGGTAGATTC 59.354 41.667 0.54 0.00 39.65 2.52
3952 4230 2.435372 TTGCCATGTGGGTAGATTCC 57.565 50.000 0.54 0.00 39.65 3.01
3953 4231 1.595311 TGCCATGTGGGTAGATTCCT 58.405 50.000 0.54 0.00 39.65 3.36
3954 4232 1.922447 TGCCATGTGGGTAGATTCCTT 59.078 47.619 0.54 0.00 39.65 3.36
3955 4233 2.092429 TGCCATGTGGGTAGATTCCTTC 60.092 50.000 0.54 0.00 39.65 3.46
3956 4234 2.092429 GCCATGTGGGTAGATTCCTTCA 60.092 50.000 0.54 0.00 39.65 3.02
3957 4235 3.624707 GCCATGTGGGTAGATTCCTTCAA 60.625 47.826 0.54 0.00 39.65 2.69
3958 4236 4.202441 CCATGTGGGTAGATTCCTTCAAG 58.798 47.826 0.00 0.00 0.00 3.02
3959 4237 3.350219 TGTGGGTAGATTCCTTCAAGC 57.650 47.619 0.00 0.00 0.00 4.01
3995 4273 6.406093 GCATATCAGTCATGCATTCTACTC 57.594 41.667 0.00 0.00 46.47 2.59
3996 4274 5.350914 GCATATCAGTCATGCATTCTACTCC 59.649 44.000 0.00 0.00 46.47 3.85
3997 4275 3.827008 TCAGTCATGCATTCTACTCCC 57.173 47.619 0.00 0.00 0.00 4.30
3998 4276 2.435805 TCAGTCATGCATTCTACTCCCC 59.564 50.000 0.00 0.00 0.00 4.81
3999 4277 1.771255 AGTCATGCATTCTACTCCCCC 59.229 52.381 0.00 0.00 0.00 5.40
4018 4296 4.755266 CCCCCGTCCCATAATATAAGAG 57.245 50.000 0.00 0.00 0.00 2.85
4019 4297 3.118371 CCCCCGTCCCATAATATAAGAGC 60.118 52.174 0.00 0.00 0.00 4.09
4020 4298 3.430374 CCCCGTCCCATAATATAAGAGCG 60.430 52.174 0.00 0.00 0.00 5.03
4021 4299 3.194968 CCCGTCCCATAATATAAGAGCGT 59.805 47.826 0.00 0.00 0.00 5.07
4022 4300 4.322499 CCCGTCCCATAATATAAGAGCGTT 60.322 45.833 0.00 0.00 0.00 4.84
4023 4301 5.235516 CCGTCCCATAATATAAGAGCGTTT 58.764 41.667 0.00 0.00 0.00 3.60
4024 4302 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
4025 4303 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
4026 4304 7.385752 CCGTCCCATAATATAAGAGCGTTTTTA 59.614 37.037 0.00 0.00 0.00 1.52
4027 4305 8.767085 CGTCCCATAATATAAGAGCGTTTTTAA 58.233 33.333 0.00 0.00 0.00 1.52
4028 4306 9.874215 GTCCCATAATATAAGAGCGTTTTTAAC 57.126 33.333 0.00 0.00 0.00 2.01
4029 4307 9.616156 TCCCATAATATAAGAGCGTTTTTAACA 57.384 29.630 0.00 0.00 0.00 2.41
4030 4308 9.659830 CCCATAATATAAGAGCGTTTTTAACAC 57.340 33.333 0.00 0.00 0.00 3.32
4036 4314 7.958053 ATAAGAGCGTTTTTAACACTACACT 57.042 32.000 0.00 0.00 0.00 3.55
4038 4316 7.404139 AAGAGCGTTTTTAACACTACACTAG 57.596 36.000 0.00 0.00 0.00 2.57
4039 4317 6.510536 AGAGCGTTTTTAACACTACACTAGT 58.489 36.000 0.00 0.00 40.28 2.57
4040 4318 7.651808 AGAGCGTTTTTAACACTACACTAGTA 58.348 34.615 0.00 0.00 37.23 1.82
4041 4319 7.592903 AGAGCGTTTTTAACACTACACTAGTAC 59.407 37.037 0.00 0.00 37.23 2.73
4042 4320 6.642540 AGCGTTTTTAACACTACACTAGTACC 59.357 38.462 0.00 0.00 37.23 3.34
4043 4321 6.420604 GCGTTTTTAACACTACACTAGTACCA 59.579 38.462 0.00 0.00 37.23 3.25
4044 4322 7.042791 GCGTTTTTAACACTACACTAGTACCAA 60.043 37.037 0.00 0.00 37.23 3.67
4045 4323 8.816144 CGTTTTTAACACTACACTAGTACCAAA 58.184 33.333 0.00 0.00 37.23 3.28
4048 4326 7.951530 TTAACACTACACTAGTACCAAAAGC 57.048 36.000 0.00 0.00 37.23 3.51
4049 4327 4.553323 ACACTACACTAGTACCAAAAGCG 58.447 43.478 0.00 0.00 37.23 4.68
4050 4328 3.367025 CACTACACTAGTACCAAAAGCGC 59.633 47.826 0.00 0.00 37.23 5.92
4051 4329 2.833631 ACACTAGTACCAAAAGCGCT 57.166 45.000 2.64 2.64 0.00 5.92
4052 4330 2.685100 ACACTAGTACCAAAAGCGCTC 58.315 47.619 12.06 0.00 0.00 5.03
4053 4331 2.299297 ACACTAGTACCAAAAGCGCTCT 59.701 45.455 12.06 3.67 0.00 4.09
4054 4332 3.244112 ACACTAGTACCAAAAGCGCTCTT 60.244 43.478 12.06 0.00 0.00 2.85
4055 4333 4.021719 ACACTAGTACCAAAAGCGCTCTTA 60.022 41.667 12.06 0.00 31.02 2.10
4056 4334 5.109903 CACTAGTACCAAAAGCGCTCTTAT 58.890 41.667 12.06 0.00 31.02 1.73
4057 4335 6.127535 ACACTAGTACCAAAAGCGCTCTTATA 60.128 38.462 12.06 0.00 31.02 0.98
4058 4336 6.924060 CACTAGTACCAAAAGCGCTCTTATAT 59.076 38.462 12.06 0.00 31.02 0.86
4059 4337 7.438459 CACTAGTACCAAAAGCGCTCTTATATT 59.562 37.037 12.06 0.00 31.02 1.28
4060 4338 8.636213 ACTAGTACCAAAAGCGCTCTTATATTA 58.364 33.333 12.06 0.00 31.02 0.98
4061 4339 9.640963 CTAGTACCAAAAGCGCTCTTATATTAT 57.359 33.333 12.06 0.00 31.02 1.28
4062 4340 8.311650 AGTACCAAAAGCGCTCTTATATTATG 57.688 34.615 12.06 1.83 31.02 1.90
4063 4341 6.560253 ACCAAAAGCGCTCTTATATTATGG 57.440 37.500 12.06 12.52 31.02 2.74
4064 4342 5.473504 ACCAAAAGCGCTCTTATATTATGGG 59.526 40.000 12.06 0.00 31.02 4.00
4065 4343 5.705441 CCAAAAGCGCTCTTATATTATGGGA 59.295 40.000 12.06 0.00 31.02 4.37
4066 4344 6.348540 CCAAAAGCGCTCTTATATTATGGGAC 60.349 42.308 12.06 0.00 31.02 4.46
4067 4345 4.111375 AGCGCTCTTATATTATGGGACG 57.889 45.455 2.64 0.00 0.00 4.79
4068 4346 3.119101 AGCGCTCTTATATTATGGGACGG 60.119 47.826 2.64 0.00 0.00 4.79
4069 4347 3.119245 GCGCTCTTATATTATGGGACGGA 60.119 47.826 0.00 0.00 0.00 4.69
4070 4348 4.673441 CGCTCTTATATTATGGGACGGAG 58.327 47.826 0.00 0.00 0.00 4.63
4071 4349 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
4072 4350 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
4073 4351 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
4074 4352 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
4075 4353 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
4076 4354 4.687262 ATATTATGGGACGGAGGGAGTA 57.313 45.455 0.00 0.00 0.00 2.59
4163 4441 2.485426 CTGCTCAACCGTGTGATGAAAT 59.515 45.455 0.00 0.00 0.00 2.17
4183 4461 3.056328 GGAGGAGGGCACGCAAAC 61.056 66.667 0.00 0.00 0.00 2.93
4270 4548 3.244582 TGGAAGGTACAAAGCTCTGGTA 58.755 45.455 0.00 0.00 31.54 3.25
4541 4819 6.827762 ACATAAGCCGTATCTAGGGTATCTAC 59.172 42.308 0.00 0.00 38.73 2.59
4574 4860 2.497675 TGGGCTCTGAACTGTATGAGTC 59.502 50.000 0.00 0.00 31.73 3.36
4770 5057 6.704493 TGATCTTCAAGTTACTTGGTGTGTAC 59.296 38.462 22.82 10.55 41.33 2.90
4788 5075 8.181487 GTGTGTACACGATTGAATACTTATGT 57.819 34.615 20.61 0.00 37.10 2.29
4821 5108 4.914983 TCTTTGCTCAGGAATGAGTGATT 58.085 39.130 7.07 0.00 38.16 2.57
4952 5239 3.334583 TGCCATAGTCAGGTGTTTCTC 57.665 47.619 0.00 0.00 0.00 2.87
4984 5271 8.592155 GTTACATTTCCAGTTTGTTGTTTTCTC 58.408 33.333 0.00 0.00 0.00 2.87
5055 5342 3.890128 TCTATTTCATCGTCTGCTAGCG 58.110 45.455 10.77 5.22 0.00 4.26
5067 5354 2.551887 TCTGCTAGCGAAAAACATTGCA 59.448 40.909 10.77 0.00 31.76 4.08
5168 5455 5.526506 AAATGAGCATAAAAGATCAGGCC 57.473 39.130 0.00 0.00 37.35 5.19
5290 5577 9.469807 AGAGTTTCTATGAATTATAAGCAGTCG 57.530 33.333 0.00 0.00 0.00 4.18
5292 5579 9.250624 AGTTTCTATGAATTATAAGCAGTCGAC 57.749 33.333 7.70 7.70 0.00 4.20
5421 5708 2.228480 GGTACAACAGGCCCCAGGA 61.228 63.158 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
545 546 1.641552 CGGTCTCCTCCTCCTCTCCT 61.642 65.000 0.00 0.00 0.00 3.69
546 547 1.152839 CGGTCTCCTCCTCCTCTCC 60.153 68.421 0.00 0.00 0.00 3.71
547 548 0.750182 CACGGTCTCCTCCTCCTCTC 60.750 65.000 0.00 0.00 0.00 3.20
548 549 1.208844 TCACGGTCTCCTCCTCCTCT 61.209 60.000 0.00 0.00 0.00 3.69
549 550 0.750182 CTCACGGTCTCCTCCTCCTC 60.750 65.000 0.00 0.00 0.00 3.71
567 568 2.383855 CCCCTCGTTTCTCTCTCATCT 58.616 52.381 0.00 0.00 0.00 2.90
590 592 4.636435 CAACAACGGACGGGGGCT 62.636 66.667 0.00 0.00 0.00 5.19
591 593 4.629523 TCAACAACGGACGGGGGC 62.630 66.667 0.00 0.00 0.00 5.80
592 594 2.667199 GTCAACAACGGACGGGGG 60.667 66.667 0.00 0.00 0.00 5.40
593 595 1.959226 CTGTCAACAACGGACGGGG 60.959 63.158 0.00 0.00 37.87 5.73
594 596 3.637714 CTGTCAACAACGGACGGG 58.362 61.111 0.00 0.00 37.87 5.28
596 598 0.944311 CTCCCTGTCAACAACGGACG 60.944 60.000 0.00 0.00 38.10 4.79
597 599 0.391597 TCTCCCTGTCAACAACGGAC 59.608 55.000 0.00 0.00 36.22 4.79
598 600 0.679505 CTCTCCCTGTCAACAACGGA 59.320 55.000 0.00 0.23 36.22 4.69
599 601 0.320771 CCTCTCCCTGTCAACAACGG 60.321 60.000 0.00 0.00 0.00 4.44
600 602 0.951040 GCCTCTCCCTGTCAACAACG 60.951 60.000 0.00 0.00 0.00 4.10
701 721 3.302347 CTCTTCCTCCAGCGCGGTT 62.302 63.158 8.73 0.00 35.57 4.44
702 722 3.764466 CTCTTCCTCCAGCGCGGT 61.764 66.667 4.23 4.23 35.57 5.68
712 732 1.913762 CCACACGACCCCTCTTCCT 60.914 63.158 0.00 0.00 0.00 3.36
797 817 4.455877 ACGGATGAAAAATCTGTGTTCTCC 59.544 41.667 0.00 0.00 36.38 3.71
846 879 4.489771 GGGCCCATCCTCGGTGTG 62.490 72.222 19.95 0.00 34.39 3.82
1081 1141 3.760035 GGTGGAGAGCGGCGAGAA 61.760 66.667 12.98 0.00 0.00 2.87
1456 1516 2.447429 TCACCAACCAACCCAGGAATAA 59.553 45.455 0.00 0.00 0.00 1.40
1457 1517 2.041081 CTCACCAACCAACCCAGGAATA 59.959 50.000 0.00 0.00 0.00 1.75
1458 1518 0.856982 TCACCAACCAACCCAGGAAT 59.143 50.000 0.00 0.00 0.00 3.01
1534 1604 0.037697 CACGAATCTCGGGGACACAA 60.038 55.000 0.67 0.00 45.59 3.33
1580 1650 2.549754 ACATCAGAAAAGGTCAAGCACG 59.450 45.455 0.00 0.00 0.00 5.34
1629 1699 4.353788 TCCTCTTCCTTTTCTCCATCCAAA 59.646 41.667 0.00 0.00 0.00 3.28
1638 1708 3.604582 CGCAGATTCCTCTTCCTTTTCT 58.395 45.455 0.00 0.00 0.00 2.52
1679 1749 2.022195 AGGCTATTTGACATGCAGCAG 58.978 47.619 0.00 0.00 33.86 4.24
1680 1750 2.133281 AGGCTATTTGACATGCAGCA 57.867 45.000 0.00 0.00 33.86 4.41
1691 1761 6.094325 CGCTACTACATAGAGCTAGGCTATTT 59.906 42.308 0.00 0.00 39.88 1.40
1693 1763 5.120399 CGCTACTACATAGAGCTAGGCTAT 58.880 45.833 0.00 0.00 39.88 2.97
1701 1771 1.249407 AGCCCGCTACTACATAGAGC 58.751 55.000 0.00 0.00 31.83 4.09
1702 1772 2.420722 GCTAGCCCGCTACTACATAGAG 59.579 54.545 2.29 0.00 31.83 2.43
1703 1773 2.040012 AGCTAGCCCGCTACTACATAGA 59.960 50.000 12.13 0.00 38.76 1.98
1706 1776 2.581216 TAGCTAGCCCGCTACTACAT 57.419 50.000 12.13 0.00 41.30 2.29
1708 1778 3.946558 ACATATAGCTAGCCCGCTACTAC 59.053 47.826 12.13 0.00 44.52 2.73
1710 1780 3.088789 ACATATAGCTAGCCCGCTACT 57.911 47.619 12.13 0.00 44.52 2.57
1711 1781 3.870633 AACATATAGCTAGCCCGCTAC 57.129 47.619 12.13 0.00 44.52 3.58
1712 1782 5.163447 CCATTAACATATAGCTAGCCCGCTA 60.163 44.000 12.13 6.98 45.65 4.26
1713 1783 4.383118 CCATTAACATATAGCTAGCCCGCT 60.383 45.833 12.13 2.72 43.83 5.52
1714 1784 3.871594 CCATTAACATATAGCTAGCCCGC 59.128 47.826 12.13 0.00 0.00 6.13
1715 1785 5.339008 TCCATTAACATATAGCTAGCCCG 57.661 43.478 12.13 0.00 0.00 6.13
1719 1789 8.731605 TCTCTCGTTCCATTAACATATAGCTAG 58.268 37.037 0.00 0.00 38.03 3.42
1721 1791 7.448777 TCTCTCTCGTTCCATTAACATATAGCT 59.551 37.037 0.00 0.00 38.03 3.32
1722 1792 7.539366 GTCTCTCTCGTTCCATTAACATATAGC 59.461 40.741 0.00 0.00 38.03 2.97
1724 1794 7.308408 CCGTCTCTCTCGTTCCATTAACATATA 60.308 40.741 0.00 0.00 38.03 0.86
1730 1806 3.349927 TCCGTCTCTCTCGTTCCATTAA 58.650 45.455 0.00 0.00 0.00 1.40
1739 1815 2.981140 GACAACTTTTCCGTCTCTCTCG 59.019 50.000 0.00 0.00 0.00 4.04
1749 1825 1.609072 GGAGCTGGTGACAACTTTTCC 59.391 52.381 0.00 0.00 36.76 3.13
1829 1932 1.290134 AGAGTTTTGGCCTAGGGGAG 58.710 55.000 11.72 0.00 33.58 4.30
1862 1973 0.520847 GCCTTTTCTCTGCAGCTGAC 59.479 55.000 20.43 9.67 0.00 3.51
1924 2039 6.538381 TGTGCATACTGTGTGAATATGTAAGG 59.462 38.462 8.84 0.00 0.00 2.69
1992 2109 4.816925 ACTCCTGAACAAGCAAAGTTACTC 59.183 41.667 0.00 0.00 0.00 2.59
2101 2221 7.651027 AATTATGAAGAACAATTCCCTCCTG 57.349 36.000 0.00 0.00 0.00 3.86
2103 2223 8.531146 TCAAAATTATGAAGAACAATTCCCTCC 58.469 33.333 0.00 0.00 0.00 4.30
2131 2251 6.481434 TCCCTCTTAAGTAAATGTCTAGCC 57.519 41.667 1.63 0.00 0.00 3.93
2179 2299 2.424956 GAGAAATGCTCATGTTGTCCCC 59.575 50.000 0.00 0.00 43.38 4.81
2182 2302 2.424956 GGGGAGAAATGCTCATGTTGTC 59.575 50.000 0.00 0.00 45.81 3.18
2227 2355 5.862924 TCAATCTGAAATCAAACGAGTCC 57.137 39.130 0.00 0.00 0.00 3.85
2238 2366 7.756395 AACTGTCTCACAATCAATCTGAAAT 57.244 32.000 0.00 0.00 0.00 2.17
2268 2396 3.942115 GCTTCAAGGTATCTTTCTCACCC 59.058 47.826 0.00 0.00 32.43 4.61
2403 2531 0.249197 TGCGGATCTCTTGAGCATCG 60.249 55.000 0.00 0.00 38.61 3.84
2460 2588 2.533266 ATTGAGCTGCTACCATACCG 57.467 50.000 0.15 0.00 0.00 4.02
2498 2626 6.932356 AGTAATAATTGATGACTGTGCCAG 57.068 37.500 1.16 1.16 37.52 4.85
2499 2627 7.413988 CGAAAGTAATAATTGATGACTGTGCCA 60.414 37.037 0.00 0.00 28.49 4.92
2500 2628 6.907212 CGAAAGTAATAATTGATGACTGTGCC 59.093 38.462 0.00 0.00 28.49 5.01
2501 2629 6.412072 GCGAAAGTAATAATTGATGACTGTGC 59.588 38.462 0.00 0.00 28.49 4.57
2504 2636 7.688372 AGTGCGAAAGTAATAATTGATGACTG 58.312 34.615 0.00 0.00 28.49 3.51
2509 2641 9.128107 CAACAAAGTGCGAAAGTAATAATTGAT 57.872 29.630 0.00 0.00 0.00 2.57
2576 2709 3.753842 ACAAAAAGTACACGCAACTGTG 58.246 40.909 0.00 0.00 45.41 3.66
2613 2746 9.438228 AAGCATATGAGAGATGACATAGATTTG 57.562 33.333 6.97 0.00 33.46 2.32
2684 2818 6.442112 TGAGAACGAAGCATATGAGACATAG 58.558 40.000 6.97 0.00 0.00 2.23
2702 2837 5.874810 TGCACACAAGGTATATTCTGAGAAC 59.125 40.000 0.00 0.00 0.00 3.01
2748 3008 3.815401 AGCATTGACCCATAAGCGATAAC 59.185 43.478 0.00 0.00 0.00 1.89
2762 3022 6.644592 TGCCTGTTTAACAAAATAGCATTGAC 59.355 34.615 0.00 0.00 0.00 3.18
2798 3058 1.091771 GCAATAGCCTGCGCTTCTCA 61.092 55.000 9.73 0.00 45.55 3.27
2957 3217 6.989169 AGAGTAGGGATCAAATCAGAAAATCG 59.011 38.462 0.00 0.00 0.00 3.34
3136 3398 4.847512 TGAAAATCTACTGGTCCCCAAGTA 59.152 41.667 0.00 0.00 30.80 2.24
3200 3462 5.560966 ATGTACATCATGTTCCCGAAAAC 57.439 39.130 1.41 0.00 35.19 2.43
3361 3623 3.969976 TCCTCTCCATTGTCCAGGATTAG 59.030 47.826 0.00 0.00 32.53 1.73
3462 3724 4.682778 TCAATTATACCTTCCTCCGTGG 57.317 45.455 0.00 0.00 37.10 4.94
3534 3805 1.451387 CAACAGGCGACATACCCCC 60.451 63.158 0.00 0.00 0.00 5.40
3536 3807 2.112815 GGCAACAGGCGACATACCC 61.113 63.158 0.00 0.00 46.16 3.69
3538 3809 0.391130 TGAGGCAACAGGCGACATAC 60.391 55.000 0.00 0.00 46.16 2.39
3540 3811 1.028330 CATGAGGCAACAGGCGACAT 61.028 55.000 0.00 0.00 46.16 3.06
3553 3824 6.595682 ACAATCCTAGGATTTACACATGAGG 58.404 40.000 30.75 18.63 42.30 3.86
3591 3869 1.237285 ACACCGATCCTGCAAACAGC 61.237 55.000 0.00 0.00 43.02 4.40
3686 3964 0.401738 CTGGGAGAACTTCCTTGCCA 59.598 55.000 0.61 0.00 45.98 4.92
3756 4034 8.721478 TGAGATAGTAACTTGACAAAATGCTTC 58.279 33.333 0.00 0.00 0.00 3.86
3791 4069 5.837829 AGAGGAAACAATTAATAAGCCCCA 58.162 37.500 0.00 0.00 0.00 4.96
3802 4080 6.323739 TGCACTTAAGGAAAGAGGAAACAATT 59.676 34.615 7.53 0.00 38.67 2.32
3820 4098 3.585289 TCCACCCAGTTCTATTGCACTTA 59.415 43.478 0.00 0.00 0.00 2.24
3824 4102 3.737559 ATTCCACCCAGTTCTATTGCA 57.262 42.857 0.00 0.00 0.00 4.08
3931 4209 3.096092 GGAATCTACCCACATGGCAAAA 58.904 45.455 0.00 0.00 37.83 2.44
3933 4211 1.922447 AGGAATCTACCCACATGGCAA 59.078 47.619 0.00 0.00 37.83 4.52
3935 4213 2.092429 TGAAGGAATCTACCCACATGGC 60.092 50.000 0.00 0.00 37.83 4.40
3936 4214 3.931907 TGAAGGAATCTACCCACATGG 57.068 47.619 0.00 0.00 41.37 3.66
3937 4215 3.629398 GCTTGAAGGAATCTACCCACATG 59.371 47.826 0.00 0.00 0.00 3.21
3938 4216 3.372025 GGCTTGAAGGAATCTACCCACAT 60.372 47.826 0.00 0.00 0.00 3.21
3939 4217 2.026262 GGCTTGAAGGAATCTACCCACA 60.026 50.000 0.00 0.00 0.00 4.17
3940 4218 2.239907 AGGCTTGAAGGAATCTACCCAC 59.760 50.000 0.00 0.00 0.00 4.61
3941 4219 2.562296 AGGCTTGAAGGAATCTACCCA 58.438 47.619 0.00 0.00 0.00 4.51
3942 4220 3.653835 AAGGCTTGAAGGAATCTACCC 57.346 47.619 0.00 0.00 0.00 3.69
3943 4221 3.129462 GCAAAGGCTTGAAGGAATCTACC 59.871 47.826 0.00 0.00 34.14 3.18
3944 4222 3.181506 CGCAAAGGCTTGAAGGAATCTAC 60.182 47.826 0.00 0.00 38.10 2.59
3945 4223 3.009723 CGCAAAGGCTTGAAGGAATCTA 58.990 45.455 0.00 0.00 38.10 1.98
3946 4224 1.815003 CGCAAAGGCTTGAAGGAATCT 59.185 47.619 0.00 0.00 38.10 2.40
3947 4225 1.812571 TCGCAAAGGCTTGAAGGAATC 59.187 47.619 0.00 0.00 38.10 2.52
3948 4226 1.909700 TCGCAAAGGCTTGAAGGAAT 58.090 45.000 0.00 0.00 38.10 3.01
3949 4227 1.541147 CATCGCAAAGGCTTGAAGGAA 59.459 47.619 0.00 0.00 38.10 3.36
3950 4228 1.167851 CATCGCAAAGGCTTGAAGGA 58.832 50.000 0.00 0.00 38.10 3.36
3951 4229 0.457337 GCATCGCAAAGGCTTGAAGG 60.457 55.000 0.00 0.00 38.10 3.46
3952 4230 0.524862 AGCATCGCAAAGGCTTGAAG 59.475 50.000 0.00 0.00 38.10 3.02
3953 4231 0.241749 CAGCATCGCAAAGGCTTGAA 59.758 50.000 0.00 0.00 35.27 2.69
3954 4232 1.878070 CAGCATCGCAAAGGCTTGA 59.122 52.632 0.00 0.00 35.27 3.02
3955 4233 1.804326 GCAGCATCGCAAAGGCTTG 60.804 57.895 0.00 0.00 35.27 4.01
3956 4234 1.601419 ATGCAGCATCGCAAAGGCTT 61.601 50.000 0.52 0.00 46.87 4.35
3957 4235 0.749091 TATGCAGCATCGCAAAGGCT 60.749 50.000 12.38 0.00 46.87 4.58
3958 4236 0.313043 ATATGCAGCATCGCAAAGGC 59.687 50.000 12.38 0.00 46.87 4.35
3959 4237 1.605232 TGATATGCAGCATCGCAAAGG 59.395 47.619 12.38 0.00 46.87 3.11
3997 4275 3.118371 GCTCTTATATTATGGGACGGGGG 60.118 52.174 0.00 0.00 0.00 5.40
3998 4276 3.430374 CGCTCTTATATTATGGGACGGGG 60.430 52.174 0.00 0.00 0.00 5.73
3999 4277 3.194968 ACGCTCTTATATTATGGGACGGG 59.805 47.826 0.00 0.00 0.00 5.28
4000 4278 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
4001 4279 6.780706 AAAACGCTCTTATATTATGGGACG 57.219 37.500 0.00 0.00 0.00 4.79
4002 4280 9.874215 GTTAAAAACGCTCTTATATTATGGGAC 57.126 33.333 0.00 0.00 0.00 4.46
4003 4281 9.616156 TGTTAAAAACGCTCTTATATTATGGGA 57.384 29.630 0.00 0.00 0.00 4.37
4004 4282 9.659830 GTGTTAAAAACGCTCTTATATTATGGG 57.340 33.333 0.00 0.00 38.81 4.00
4018 4296 6.420604 TGGTACTAGTGTAGTGTTAAAAACGC 59.579 38.462 5.39 0.00 39.81 4.84
4019 4297 7.928908 TGGTACTAGTGTAGTGTTAAAAACG 57.071 36.000 5.39 0.00 39.81 3.60
4022 4300 8.829612 GCTTTTGGTACTAGTGTAGTGTTAAAA 58.170 33.333 5.39 2.03 39.81 1.52
4023 4301 7.169645 CGCTTTTGGTACTAGTGTAGTGTTAAA 59.830 37.037 5.39 0.00 39.81 1.52
4024 4302 6.642131 CGCTTTTGGTACTAGTGTAGTGTTAA 59.358 38.462 5.39 0.00 39.81 2.01
4025 4303 6.151691 CGCTTTTGGTACTAGTGTAGTGTTA 58.848 40.000 5.39 0.00 39.81 2.41
4026 4304 4.986659 CGCTTTTGGTACTAGTGTAGTGTT 59.013 41.667 5.39 0.00 39.81 3.32
4027 4305 4.553323 CGCTTTTGGTACTAGTGTAGTGT 58.447 43.478 5.39 0.00 39.81 3.55
4028 4306 3.367025 GCGCTTTTGGTACTAGTGTAGTG 59.633 47.826 5.39 1.94 39.81 2.74
4029 4307 3.257624 AGCGCTTTTGGTACTAGTGTAGT 59.742 43.478 2.64 0.00 42.68 2.73
4030 4308 3.846360 AGCGCTTTTGGTACTAGTGTAG 58.154 45.455 2.64 0.00 0.00 2.74
4031 4309 3.508793 AGAGCGCTTTTGGTACTAGTGTA 59.491 43.478 13.26 0.00 0.00 2.90
4032 4310 2.299297 AGAGCGCTTTTGGTACTAGTGT 59.701 45.455 13.26 0.00 0.00 3.55
4033 4311 2.960819 AGAGCGCTTTTGGTACTAGTG 58.039 47.619 13.26 0.00 0.00 2.74
4034 4312 3.679824 AAGAGCGCTTTTGGTACTAGT 57.320 42.857 13.26 0.00 0.00 2.57
4035 4313 7.948278 AATATAAGAGCGCTTTTGGTACTAG 57.052 36.000 22.35 0.00 35.56 2.57
4036 4314 9.419297 CATAATATAAGAGCGCTTTTGGTACTA 57.581 33.333 22.35 10.14 35.56 1.82
4037 4315 7.387948 CCATAATATAAGAGCGCTTTTGGTACT 59.612 37.037 22.35 5.03 35.56 2.73
4038 4316 7.360946 CCCATAATATAAGAGCGCTTTTGGTAC 60.361 40.741 22.35 2.46 35.56 3.34
4039 4317 6.653320 CCCATAATATAAGAGCGCTTTTGGTA 59.347 38.462 22.35 14.87 35.56 3.25
4040 4318 5.473504 CCCATAATATAAGAGCGCTTTTGGT 59.526 40.000 22.35 13.28 35.56 3.67
4041 4319 5.705441 TCCCATAATATAAGAGCGCTTTTGG 59.295 40.000 22.35 13.57 35.56 3.28
4042 4320 6.603095 GTCCCATAATATAAGAGCGCTTTTG 58.397 40.000 22.35 5.08 35.56 2.44
4043 4321 5.408604 CGTCCCATAATATAAGAGCGCTTTT 59.591 40.000 17.98 17.98 35.56 2.27
4044 4322 4.929808 CGTCCCATAATATAAGAGCGCTTT 59.070 41.667 13.26 1.42 35.56 3.51
4045 4323 4.495422 CGTCCCATAATATAAGAGCGCTT 58.505 43.478 13.26 8.09 38.15 4.68
4046 4324 3.119101 CCGTCCCATAATATAAGAGCGCT 60.119 47.826 11.27 11.27 0.00 5.92
4047 4325 3.119245 TCCGTCCCATAATATAAGAGCGC 60.119 47.826 0.00 0.00 0.00 5.92
4048 4326 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
4049 4327 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
4050 4328 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
4051 4329 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
4052 4330 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
4053 4331 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
4054 4332 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
4055 4333 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
4056 4334 4.044952 TCATACTCCCTCCGTCCCATAATA 59.955 45.833 0.00 0.00 0.00 0.98
4057 4335 3.173965 CATACTCCCTCCGTCCCATAAT 58.826 50.000 0.00 0.00 0.00 1.28
4058 4336 2.178325 TCATACTCCCTCCGTCCCATAA 59.822 50.000 0.00 0.00 0.00 1.90
4059 4337 1.784593 TCATACTCCCTCCGTCCCATA 59.215 52.381 0.00 0.00 0.00 2.74
4060 4338 0.561184 TCATACTCCCTCCGTCCCAT 59.439 55.000 0.00 0.00 0.00 4.00
4061 4339 0.561184 ATCATACTCCCTCCGTCCCA 59.439 55.000 0.00 0.00 0.00 4.37
4062 4340 1.718280 AATCATACTCCCTCCGTCCC 58.282 55.000 0.00 0.00 0.00 4.46
4063 4341 3.118371 ACAAAATCATACTCCCTCCGTCC 60.118 47.826 0.00 0.00 0.00 4.79
4064 4342 4.138487 ACAAAATCATACTCCCTCCGTC 57.862 45.455 0.00 0.00 0.00 4.79
4065 4343 4.514401 GAACAAAATCATACTCCCTCCGT 58.486 43.478 0.00 0.00 0.00 4.69
4066 4344 3.877508 GGAACAAAATCATACTCCCTCCG 59.122 47.826 0.00 0.00 0.00 4.63
4067 4345 4.207955 GGGAACAAAATCATACTCCCTCC 58.792 47.826 0.00 0.00 39.61 4.30
4068 4346 4.207955 GGGGAACAAAATCATACTCCCTC 58.792 47.826 5.00 0.00 41.97 4.30
4069 4347 3.596046 TGGGGAACAAAATCATACTCCCT 59.404 43.478 5.00 0.00 41.97 4.20
4070 4348 3.699538 GTGGGGAACAAAATCATACTCCC 59.300 47.826 0.00 0.00 41.63 4.30
4071 4349 4.600062 AGTGGGGAACAAAATCATACTCC 58.400 43.478 0.00 0.00 0.00 3.85
4072 4350 5.476945 ACAAGTGGGGAACAAAATCATACTC 59.523 40.000 0.00 0.00 0.00 2.59
4073 4351 5.393866 ACAAGTGGGGAACAAAATCATACT 58.606 37.500 0.00 0.00 0.00 2.12
4074 4352 5.722021 ACAAGTGGGGAACAAAATCATAC 57.278 39.130 0.00 0.00 0.00 2.39
4075 4353 6.548321 AGTACAAGTGGGGAACAAAATCATA 58.452 36.000 0.00 0.00 0.00 2.15
4076 4354 5.393866 AGTACAAGTGGGGAACAAAATCAT 58.606 37.500 0.00 0.00 0.00 2.45
4183 4461 3.998156 TCGACTTCGACCTGGGAG 58.002 61.111 0.00 0.00 44.22 4.30
4270 4548 0.251077 CCTTGCTTTGCCTCAGGTCT 60.251 55.000 0.00 0.00 0.00 3.85
4541 4819 1.962807 CAGAGCCCAGAGATCTACAGG 59.037 57.143 0.00 0.00 0.00 4.00
4574 4860 5.509716 TCGTGGCCTATATATTGTATCGG 57.490 43.478 3.32 0.00 0.00 4.18
4640 4926 0.415429 AAAGAGAGGAGCAGGAGGGA 59.585 55.000 0.00 0.00 0.00 4.20
4788 5075 6.169557 TCCTGAGCAAAGAAACTACAGTTA 57.830 37.500 0.00 0.00 37.25 2.24
4821 5108 6.154021 GTGTATAGTAAGGTTCTTGGAGACCA 59.846 42.308 0.00 0.00 0.00 4.02
4837 5124 6.264832 CCGGACGTTTACAATGTGTATAGTA 58.735 40.000 0.00 0.00 32.20 1.82
4952 5239 7.228706 ACAACAAACTGGAAATGTAACCTCTAG 59.771 37.037 0.00 0.00 0.00 2.43
4984 5271 6.431198 AAAACGTGGTATACTATTGCAAGG 57.569 37.500 4.94 2.82 0.00 3.61
5045 5332 2.911102 GCAATGTTTTTCGCTAGCAGAC 59.089 45.455 16.45 5.83 0.00 3.51
5055 5342 8.949953 CAACTCATCATTTTTGCAATGTTTTTC 58.050 29.630 0.00 0.00 0.00 2.29
5067 5354 3.667360 GGCAAGCCAACTCATCATTTTT 58.333 40.909 6.14 0.00 35.81 1.94
5290 5577 6.487960 CATTCAGAGCAATGAGATTTCTGTC 58.512 40.000 0.00 0.00 36.03 3.51
5292 5579 5.163652 TGCATTCAGAGCAATGAGATTTCTG 60.164 40.000 0.00 0.00 39.39 3.02
5421 5708 6.936968 ACTAGAATGGTTCTGTTTAGTCCT 57.063 37.500 0.00 0.00 40.94 3.85
5459 5746 8.395633 GTGTTGTAGTGTAACAATGTTCTTTCT 58.604 33.333 0.22 0.56 41.18 2.52


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

AutoCloner maintained by Alex Coulton.