Multiple sequence alignment - TraesCS3A01G419700

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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 TraesCS3A01G419700 chr3A 100.000 2321 0 0 1 2321 661654266 661656586 0.000000e+00 4287.0
1 TraesCS3A01G419700 chr3A 87.776 499 51 7 836 1326 661787149 661787645 2.000000e-160 575.0
2 TraesCS3A01G419700 chr3A 87.654 162 20 0 1707 1868 600920855 600921016 3.040000e-44 189.0
3 TraesCS3A01G419700 chr3A 91.525 118 9 1 1490 1606 661787713 661787830 6.640000e-36 161.0
4 TraesCS3A01G419700 chr3A 97.368 76 2 0 1 76 107323175 107323250 1.870000e-26 130.0
5 TraesCS3A01G419700 chr3A 96.154 78 3 0 1 78 496981782 496981859 6.730000e-26 128.0
6 TraesCS3A01G419700 chr3B 88.595 1552 104 32 163 1706 696777314 696778800 0.000000e+00 1818.0
7 TraesCS3A01G419700 chr3B 86.277 736 61 19 877 1609 696788521 696787823 0.000000e+00 763.0
8 TraesCS3A01G419700 chr3B 83.246 382 44 12 1918 2281 696780384 696780763 1.330000e-87 333.0
9 TraesCS3A01G419700 chr3B 95.699 93 4 0 75 167 696774992 696775084 1.440000e-32 150.0
10 TraesCS3A01G419700 chr3D 87.842 1061 64 33 459 1510 527126225 527127229 0.000000e+00 1184.0
11 TraesCS3A01G419700 chr3D 87.324 781 68 13 836 1606 527135789 527136548 0.000000e+00 865.0
12 TraesCS3A01G419700 chr3D 91.573 356 19 8 129 473 527119420 527119775 4.490000e-132 481.0
13 TraesCS3A01G419700 chr3D 92.342 222 12 4 129 345 527118185 527118406 6.230000e-81 311.0
14 TraesCS3A01G419700 chr3D 87.654 162 20 0 1707 1868 593088475 593088636 3.040000e-44 189.0
15 TraesCS3A01G419700 chr3D 94.872 78 4 0 75 152 527118104 527118181 3.130000e-24 122.0
16 TraesCS3A01G419700 chr3D 81.132 106 15 4 2124 2224 75617357 75617462 1.910000e-11 80.5
17 TraesCS3A01G419700 chr7A 88.690 168 18 1 1706 1873 451519810 451519976 1.090000e-48 204.0
18 TraesCS3A01G419700 chr7A 87.952 166 20 0 1703 1868 494786825 494786990 1.820000e-46 196.0
19 TraesCS3A01G419700 chr4B 87.931 174 18 3 1700 1872 574446763 574446592 3.910000e-48 202.0
20 TraesCS3A01G419700 chr4B 96.154 78 3 0 1 78 497235184 497235261 6.730000e-26 128.0
21 TraesCS3A01G419700 chr7B 86.905 168 21 1 1706 1873 401532723 401532557 1.090000e-43 187.0
22 TraesCS3A01G419700 chr7B 96.203 79 2 1 1 78 64029565 64029487 6.730000e-26 128.0
23 TraesCS3A01G419700 chr2D 87.654 162 19 1 1707 1868 296364049 296364209 1.090000e-43 187.0
24 TraesCS3A01G419700 chr2B 87.654 162 19 1 1707 1868 366017679 366017519 1.090000e-43 187.0
25 TraesCS3A01G419700 chr2B 96.154 78 3 0 1 78 110822963 110823040 6.730000e-26 128.0
26 TraesCS3A01G419700 chr6B 85.311 177 22 4 1697 1871 281335312 281335138 1.830000e-41 180.0
27 TraesCS3A01G419700 chr1B 80.603 232 32 12 2057 2285 494597375 494597596 1.430000e-37 167.0
28 TraesCS3A01G419700 chr1B 96.104 77 3 0 2 78 482703001 482702925 2.420000e-25 126.0
29 TraesCS3A01G419700 chr4A 79.452 219 26 15 2075 2281 65657097 65656886 1.120000e-28 137.0
30 TraesCS3A01G419700 chr4A 96.154 78 3 0 1 78 149102704 149102627 6.730000e-26 128.0
31 TraesCS3A01G419700 chr7D 97.436 78 2 0 1 78 204098289 204098212 1.450000e-27 134.0
32 TraesCS3A01G419700 chr1A 96.154 78 3 0 1 78 504728644 504728567 6.730000e-26 128.0
33 TraesCS3A01G419700 chr6D 83.333 120 15 4 2116 2231 269947631 269947749 3.150000e-19 106.0
34 TraesCS3A01G419700 chr4D 78.261 161 25 9 2112 2267 383793981 383793826 6.830000e-16 95.3


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 TraesCS3A01G419700 chr3A 661654266 661656586 2320 False 4287.000000 4287 100.0000 1 2321 1 chr3A.!!$F4 2320
1 TraesCS3A01G419700 chr3A 661787149 661787830 681 False 368.000000 575 89.6505 836 1606 2 chr3A.!!$F5 770
2 TraesCS3A01G419700 chr3B 696774992 696780763 5771 False 767.000000 1818 89.1800 75 2281 3 chr3B.!!$F1 2206
3 TraesCS3A01G419700 chr3B 696787823 696788521 698 True 763.000000 763 86.2770 877 1609 1 chr3B.!!$R1 732
4 TraesCS3A01G419700 chr3D 527126225 527127229 1004 False 1184.000000 1184 87.8420 459 1510 1 chr3D.!!$F2 1051
5 TraesCS3A01G419700 chr3D 527135789 527136548 759 False 865.000000 865 87.3240 836 1606 1 chr3D.!!$F3 770
6 TraesCS3A01G419700 chr3D 527118104 527119775 1671 False 304.666667 481 92.9290 75 473 3 chr3D.!!$F5 398

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
57 58 0.179062 GGTGCCTCACATAGCTCCTG 60.179 60.0 0.0 0.0 39.12 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1905 5441 0.105453 GACTCTCCTCCCATGGCCTA 60.105 60.0 6.09 0.0 0.0 3.93 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
27 28 3.372123 TGGAAGCACCATCGACGA 58.628 55.556 0.00 0.00 44.64 4.20
28 29 1.668867 TGGAAGCACCATCGACGAA 59.331 52.632 0.00 0.00 44.64 3.85
29 30 0.389817 TGGAAGCACCATCGACGAAG 60.390 55.000 0.00 0.00 44.64 3.79
30 31 1.084370 GGAAGCACCATCGACGAAGG 61.084 60.000 17.16 17.16 38.79 3.46
31 32 1.696832 GAAGCACCATCGACGAAGGC 61.697 60.000 18.56 11.40 0.00 4.35
32 33 3.554692 GCACCATCGACGAAGGCG 61.555 66.667 18.56 10.78 44.79 5.52
33 34 2.885644 CACCATCGACGAAGGCGG 60.886 66.667 18.56 11.05 43.17 6.13
34 35 3.066190 ACCATCGACGAAGGCGGA 61.066 61.111 18.56 0.00 43.17 5.54
35 36 2.278857 CCATCGACGAAGGCGGAG 60.279 66.667 6.14 0.00 43.17 4.63
36 37 2.771639 CCATCGACGAAGGCGGAGA 61.772 63.158 6.14 0.00 43.17 3.71
37 38 1.360551 CATCGACGAAGGCGGAGAT 59.639 57.895 0.00 0.00 43.17 2.75
38 39 0.936764 CATCGACGAAGGCGGAGATG 60.937 60.000 0.00 0.00 43.43 2.90
39 40 2.076622 ATCGACGAAGGCGGAGATGG 62.077 60.000 0.00 0.00 43.17 3.51
40 41 2.893398 GACGAAGGCGGAGATGGT 59.107 61.111 0.00 0.00 43.17 3.55
41 42 1.519455 GACGAAGGCGGAGATGGTG 60.519 63.158 0.00 0.00 43.17 4.17
42 43 2.892425 CGAAGGCGGAGATGGTGC 60.892 66.667 0.00 0.00 0.00 5.01
46 47 3.785859 GGCGGAGATGGTGCCTCA 61.786 66.667 0.00 0.00 45.40 3.86
47 48 2.512515 GCGGAGATGGTGCCTCAC 60.513 66.667 0.00 0.00 32.48 3.51
48 49 2.981302 CGGAGATGGTGCCTCACA 59.019 61.111 0.00 0.00 35.86 3.58
49 50 1.524002 CGGAGATGGTGCCTCACAT 59.476 57.895 0.00 0.00 35.86 3.21
50 51 0.752658 CGGAGATGGTGCCTCACATA 59.247 55.000 0.00 0.00 35.86 2.29
51 52 1.269988 CGGAGATGGTGCCTCACATAG 60.270 57.143 0.00 0.00 35.86 2.23
52 53 1.542108 GGAGATGGTGCCTCACATAGC 60.542 57.143 0.00 0.00 35.86 2.97
53 54 1.415659 GAGATGGTGCCTCACATAGCT 59.584 52.381 0.00 0.00 35.86 3.32
54 55 1.415659 AGATGGTGCCTCACATAGCTC 59.584 52.381 0.00 0.00 35.86 4.09
55 56 0.471617 ATGGTGCCTCACATAGCTCC 59.528 55.000 0.00 0.00 41.85 4.70
56 57 0.618680 TGGTGCCTCACATAGCTCCT 60.619 55.000 0.00 0.00 41.98 3.69
57 58 0.179062 GGTGCCTCACATAGCTCCTG 60.179 60.000 0.00 0.00 39.12 3.86
58 59 0.813210 GTGCCTCACATAGCTCCTGC 60.813 60.000 0.00 0.00 35.31 4.85
59 60 1.266867 TGCCTCACATAGCTCCTGCA 61.267 55.000 0.00 0.00 42.74 4.41
60 61 0.532417 GCCTCACATAGCTCCTGCAG 60.532 60.000 6.78 6.78 42.74 4.41
72 73 4.593033 CTGCAGCCCAGGCATAAT 57.407 55.556 12.03 0.00 44.88 1.28
73 74 2.338381 CTGCAGCCCAGGCATAATC 58.662 57.895 12.03 0.00 44.88 1.75
161 2423 9.400638 CTGATAGGTTTATCGAGTGAATACTTC 57.599 37.037 0.00 0.00 38.83 3.01
174 2436 5.894964 AGTGAATACTTCCTCCTCTTCTACC 59.105 44.000 0.00 0.00 31.66 3.18
199 2461 1.920574 CATAGAGGACGTTTGCGACTG 59.079 52.381 0.00 0.00 42.00 3.51
219 2481 2.165998 GAGTCTGGCCAGCAGAAAAAT 58.834 47.619 28.91 8.89 0.00 1.82
220 2482 2.163211 GAGTCTGGCCAGCAGAAAAATC 59.837 50.000 28.91 14.43 0.00 2.17
221 2483 1.888512 GTCTGGCCAGCAGAAAAATCA 59.111 47.619 28.91 3.28 0.00 2.57
222 2484 2.494870 GTCTGGCCAGCAGAAAAATCAT 59.505 45.455 28.91 0.00 0.00 2.45
297 2560 6.789262 AGCAATTTTCTGTCCATAGATTTCG 58.211 36.000 0.00 0.00 0.00 3.46
331 3836 2.542595 GAGGAGTGTGTGTTAACAACCG 59.457 50.000 10.51 0.00 38.27 4.44
345 3850 2.227194 ACAACCGACAACCCAATCTTC 58.773 47.619 0.00 0.00 0.00 2.87
419 3924 4.375272 ACAGTGCTATGCATGACAGATAC 58.625 43.478 10.16 2.45 41.91 2.24
420 3925 4.100653 ACAGTGCTATGCATGACAGATACT 59.899 41.667 10.16 4.68 41.91 2.12
488 3999 1.135689 GCATGGCACTTCGTTTACTGG 60.136 52.381 0.00 0.00 0.00 4.00
514 4026 5.591067 AGACCGTGAGCTATATTATCTAGCC 59.409 44.000 6.07 0.32 42.07 3.93
531 4043 1.076485 CCAGCTAGCCCCAAATGCT 60.076 57.895 12.13 0.00 42.81 3.79
649 4161 3.219645 AAAACGGCGCCCCAACATG 62.220 57.895 23.46 7.36 0.00 3.21
694 4210 2.038557 AGACTCACATGTTACCGGCTTT 59.961 45.455 0.00 0.00 0.00 3.51
728 4244 2.917227 TCGGTCTGCACTGCCAGA 60.917 61.111 0.00 0.00 39.42 3.86
779 4295 3.569304 CGTTCGCGTTGAATGTATCAT 57.431 42.857 5.77 0.00 39.21 2.45
780 4296 3.271752 CGTTCGCGTTGAATGTATCATG 58.728 45.455 5.77 0.00 39.21 3.07
781 4297 3.607439 GTTCGCGTTGAATGTATCATGG 58.393 45.455 5.77 0.00 39.21 3.66
783 4299 1.599071 CGCGTTGAATGTATCATGGCT 59.401 47.619 0.00 0.00 38.03 4.75
785 4301 3.621794 GCGTTGAATGTATCATGGCTTC 58.378 45.455 0.00 0.00 38.03 3.86
957 4479 1.094650 ACACACGCACACATCAAGCA 61.095 50.000 0.00 0.00 0.00 3.91
1109 4634 4.463879 CGGGCTCAGGGTCTGCAG 62.464 72.222 7.63 7.63 0.00 4.41
1118 4643 2.740055 GGTCTGCAGCGTGGACAG 60.740 66.667 9.47 0.00 0.00 3.51
1128 4653 2.048127 GTGGACAGGGACAGCGTC 60.048 66.667 0.79 0.79 0.00 5.19
1235 4760 0.183492 TTCAAGTGCCTCTGCCAGTT 59.817 50.000 0.00 0.00 36.33 3.16
1238 4763 0.250640 AAGTGCCTCTGCCAGTTCAG 60.251 55.000 0.00 0.00 36.33 3.02
1240 4765 1.842920 TGCCTCTGCCAGTTCAGGA 60.843 57.895 2.24 0.00 36.33 3.86
1244 4769 1.294659 CTCTGCCAGTTCAGGAACGC 61.295 60.000 6.52 5.93 45.50 4.84
1252 4777 3.876589 TTCAGGAACGCGCTGTCCC 62.877 63.158 19.37 10.53 0.00 4.46
1343 4870 2.802667 CGTCACGCACTATGCAGCC 61.803 63.158 1.20 0.00 45.36 4.85
1348 4875 1.006220 CGCACTATGCAGCCCGATA 60.006 57.895 1.20 0.00 45.36 2.92
1406 4933 2.182825 GCACCAGTAGATCGTAACGTG 58.817 52.381 0.00 0.00 0.00 4.49
1409 4936 2.163010 ACCAGTAGATCGTAACGTGGTG 59.837 50.000 13.65 0.00 35.49 4.17
1428 4955 3.859386 GGTGTTTTGCTGTCAACTTTCAG 59.141 43.478 0.00 0.00 35.12 3.02
1476 5005 3.567797 GCTGGCTGATCCGAACGC 61.568 66.667 0.00 0.00 37.80 4.84
1521 5050 1.473497 TTGTGTTGGCCATGCATGCT 61.473 50.000 21.69 1.07 0.00 3.79
1522 5051 0.611340 TGTGTTGGCCATGCATGCTA 60.611 50.000 21.69 11.68 0.00 3.49
1523 5052 0.101759 GTGTTGGCCATGCATGCTAG 59.898 55.000 21.69 11.02 0.00 3.42
1556 5091 4.307432 TCCTCTTCTGCTTTTCGTAAGTG 58.693 43.478 0.00 0.00 39.48 3.16
1612 5148 6.947644 AATAAACTTGTTTCCCGTGTTAGT 57.052 33.333 1.72 0.00 0.00 2.24
1615 5151 6.756299 AAACTTGTTTCCCGTGTTAGTTAA 57.244 33.333 0.00 0.00 0.00 2.01
1619 5155 6.375174 ACTTGTTTCCCGTGTTAGTTAACTTT 59.625 34.615 14.49 0.00 37.12 2.66
1625 5161 6.223120 TCCCGTGTTAGTTAACTTTTAGTCC 58.777 40.000 14.49 0.00 37.12 3.85
1647 5183 9.875708 AGTCCTTCTCTATATGTCTGTAGATTT 57.124 33.333 0.00 0.00 0.00 2.17
1730 5266 9.945904 AATACTCCCTCTGTTTCTAAAACTAAG 57.054 33.333 4.40 2.27 0.00 2.18
1731 5267 7.376335 ACTCCCTCTGTTTCTAAAACTAAGT 57.624 36.000 4.40 0.00 0.00 2.24
1732 5268 7.443477 ACTCCCTCTGTTTCTAAAACTAAGTC 58.557 38.462 4.40 0.00 0.00 3.01
1733 5269 7.290481 ACTCCCTCTGTTTCTAAAACTAAGTCT 59.710 37.037 4.40 0.00 0.00 3.24
1734 5270 8.030913 TCCCTCTGTTTCTAAAACTAAGTCTT 57.969 34.615 4.40 0.00 0.00 3.01
1735 5271 8.491958 TCCCTCTGTTTCTAAAACTAAGTCTTT 58.508 33.333 4.40 0.00 0.00 2.52
1736 5272 9.121658 CCCTCTGTTTCTAAAACTAAGTCTTTT 57.878 33.333 4.40 0.00 0.00 2.27
1763 5299 8.370493 AGAGATTTCAATATGGACAACATACG 57.630 34.615 0.00 0.00 44.41 3.06
1764 5300 7.442364 AGAGATTTCAATATGGACAACATACGG 59.558 37.037 0.00 0.00 44.41 4.02
1765 5301 7.279615 AGATTTCAATATGGACAACATACGGA 58.720 34.615 0.00 0.00 44.41 4.69
1766 5302 7.939039 AGATTTCAATATGGACAACATACGGAT 59.061 33.333 0.00 0.00 44.41 4.18
1767 5303 6.859420 TTCAATATGGACAACATACGGATG 57.141 37.500 5.94 5.94 44.41 3.51
1769 5305 7.056844 TCAATATGGACAACATACGGATGTA 57.943 36.000 15.10 0.00 45.93 2.29
1770 5306 7.676004 TCAATATGGACAACATACGGATGTAT 58.324 34.615 15.10 5.31 45.93 2.29
1771 5307 8.808092 TCAATATGGACAACATACGGATGTATA 58.192 33.333 15.10 8.15 45.93 1.47
1772 5308 9.599866 CAATATGGACAACATACGGATGTATAT 57.400 33.333 15.10 10.18 45.93 0.86
1774 5310 7.905604 ATGGACAACATACGGATGTATATTG 57.094 36.000 15.10 11.17 46.26 1.90
1775 5311 7.056844 TGGACAACATACGGATGTATATTGA 57.943 36.000 15.10 0.00 44.55 2.57
1776 5312 6.926826 TGGACAACATACGGATGTATATTGAC 59.073 38.462 15.10 8.77 44.55 3.18
1777 5313 6.089016 GGACAACATACGGATGTATATTGACG 59.911 42.308 15.10 0.00 44.55 4.35
1778 5314 6.509656 ACAACATACGGATGTATATTGACGT 58.490 36.000 15.10 0.00 44.55 4.34
1779 5315 7.650890 ACAACATACGGATGTATATTGACGTA 58.349 34.615 15.10 0.00 44.55 3.57
1780 5316 7.592533 ACAACATACGGATGTATATTGACGTAC 59.407 37.037 15.10 0.00 44.55 3.67
1781 5317 7.444629 ACATACGGATGTATATTGACGTACT 57.555 36.000 12.79 0.00 44.77 2.73
1782 5318 7.879070 ACATACGGATGTATATTGACGTACTT 58.121 34.615 12.79 0.00 44.77 2.24
1783 5319 8.355169 ACATACGGATGTATATTGACGTACTTT 58.645 33.333 12.79 0.00 44.77 2.66
1784 5320 9.830294 CATACGGATGTATATTGACGTACTTTA 57.170 33.333 0.00 0.00 39.28 1.85
1786 5322 8.158169 ACGGATGTATATTGACGTACTTTAGA 57.842 34.615 0.00 0.00 32.30 2.10
1787 5323 8.288208 ACGGATGTATATTGACGTACTTTAGAG 58.712 37.037 0.00 0.00 32.30 2.43
1788 5324 8.288208 CGGATGTATATTGACGTACTTTAGAGT 58.712 37.037 0.00 0.00 39.97 3.24
1789 5325 9.395707 GGATGTATATTGACGTACTTTAGAGTG 57.604 37.037 0.00 0.00 36.60 3.51
1790 5326 9.947669 GATGTATATTGACGTACTTTAGAGTGT 57.052 33.333 0.00 0.00 36.60 3.55
1791 5327 9.947669 ATGTATATTGACGTACTTTAGAGTGTC 57.052 33.333 0.00 0.00 36.60 3.67
1792 5328 8.118607 TGTATATTGACGTACTTTAGAGTGTCG 58.881 37.037 9.85 9.85 39.04 4.35
1793 5329 5.618056 ATTGACGTACTTTAGAGTGTCGA 57.382 39.130 15.57 7.67 37.69 4.20
1794 5330 5.618056 TTGACGTACTTTAGAGTGTCGAT 57.382 39.130 15.57 4.71 37.69 3.59
1795 5331 5.618056 TGACGTACTTTAGAGTGTCGATT 57.382 39.130 15.57 0.17 37.69 3.34
1796 5332 6.005583 TGACGTACTTTAGAGTGTCGATTT 57.994 37.500 15.57 0.00 37.69 2.17
1797 5333 7.132694 TGACGTACTTTAGAGTGTCGATTTA 57.867 36.000 15.57 2.02 37.69 1.40
1798 5334 7.017645 TGACGTACTTTAGAGTGTCGATTTAC 58.982 38.462 15.57 0.00 37.69 2.01
1799 5335 7.095060 TGACGTACTTTAGAGTGTCGATTTACT 60.095 37.037 15.57 0.00 37.69 2.24
1800 5336 7.239972 ACGTACTTTAGAGTGTCGATTTACTC 58.760 38.462 15.47 15.47 42.77 2.59
1801 5337 7.095060 ACGTACTTTAGAGTGTCGATTTACTCA 60.095 37.037 21.59 10.54 44.41 3.41
1802 5338 7.909121 CGTACTTTAGAGTGTCGATTTACTCAT 59.091 37.037 21.59 13.10 44.41 2.90
1803 5339 9.570488 GTACTTTAGAGTGTCGATTTACTCATT 57.430 33.333 21.59 10.34 44.41 2.57
1805 5341 9.490379 ACTTTAGAGTGTCGATTTACTCATTTT 57.510 29.630 21.59 9.59 44.41 1.82
1806 5342 9.746711 CTTTAGAGTGTCGATTTACTCATTTTG 57.253 33.333 21.59 9.65 44.41 2.44
1807 5343 6.170675 AGAGTGTCGATTTACTCATTTTGC 57.829 37.500 21.59 2.74 44.41 3.68
1808 5344 5.934625 AGAGTGTCGATTTACTCATTTTGCT 59.065 36.000 21.59 4.64 44.41 3.91
1809 5345 6.428159 AGAGTGTCGATTTACTCATTTTGCTT 59.572 34.615 21.59 4.12 44.41 3.91
1810 5346 6.603095 AGTGTCGATTTACTCATTTTGCTTC 58.397 36.000 0.00 0.00 0.00 3.86
1811 5347 6.204688 AGTGTCGATTTACTCATTTTGCTTCA 59.795 34.615 0.00 0.00 0.00 3.02
1812 5348 6.303259 GTGTCGATTTACTCATTTTGCTTCAC 59.697 38.462 0.00 0.00 0.00 3.18
1813 5349 6.017523 TGTCGATTTACTCATTTTGCTTCACA 60.018 34.615 0.00 0.00 0.00 3.58
1814 5350 7.023575 GTCGATTTACTCATTTTGCTTCACAT 58.976 34.615 0.00 0.00 0.00 3.21
1815 5351 7.007725 GTCGATTTACTCATTTTGCTTCACATG 59.992 37.037 0.00 0.00 0.00 3.21
1816 5352 6.803320 CGATTTACTCATTTTGCTTCACATGT 59.197 34.615 0.00 0.00 0.00 3.21
1817 5353 7.962373 CGATTTACTCATTTTGCTTCACATGTA 59.038 33.333 0.00 0.00 0.00 2.29
1818 5354 9.282247 GATTTACTCATTTTGCTTCACATGTAG 57.718 33.333 0.00 0.00 0.00 2.74
1819 5355 7.744087 TTACTCATTTTGCTTCACATGTAGT 57.256 32.000 0.00 0.00 0.00 2.73
1820 5356 6.246420 ACTCATTTTGCTTCACATGTAGTC 57.754 37.500 0.00 0.00 0.00 2.59
1821 5357 5.182001 ACTCATTTTGCTTCACATGTAGTCC 59.818 40.000 0.00 0.00 0.00 3.85
1822 5358 4.154015 TCATTTTGCTTCACATGTAGTCCG 59.846 41.667 0.00 0.00 0.00 4.79
1823 5359 2.831685 TTGCTTCACATGTAGTCCGT 57.168 45.000 0.00 0.00 0.00 4.69
1824 5360 3.945981 TTGCTTCACATGTAGTCCGTA 57.054 42.857 0.00 0.00 0.00 4.02
1825 5361 4.465632 TTGCTTCACATGTAGTCCGTAT 57.534 40.909 0.00 0.00 0.00 3.06
1826 5362 4.465632 TGCTTCACATGTAGTCCGTATT 57.534 40.909 0.00 0.00 0.00 1.89
1827 5363 4.180817 TGCTTCACATGTAGTCCGTATTG 58.819 43.478 0.00 0.00 0.00 1.90
1828 5364 4.081917 TGCTTCACATGTAGTCCGTATTGA 60.082 41.667 0.00 0.00 0.00 2.57
1829 5365 4.868171 GCTTCACATGTAGTCCGTATTGAA 59.132 41.667 0.00 0.00 0.00 2.69
1830 5366 5.350365 GCTTCACATGTAGTCCGTATTGAAA 59.650 40.000 0.00 0.00 0.00 2.69
1831 5367 6.037172 GCTTCACATGTAGTCCGTATTGAAAT 59.963 38.462 0.00 0.00 0.00 2.17
1832 5368 7.534085 TTCACATGTAGTCCGTATTGAAATC 57.466 36.000 0.00 0.00 0.00 2.17
1833 5369 6.873997 TCACATGTAGTCCGTATTGAAATCT 58.126 36.000 0.00 0.00 0.00 2.40
1834 5370 6.978659 TCACATGTAGTCCGTATTGAAATCTC 59.021 38.462 0.00 0.00 0.00 2.75
1835 5371 6.980978 CACATGTAGTCCGTATTGAAATCTCT 59.019 38.462 0.00 0.00 0.00 3.10
1836 5372 8.135529 CACATGTAGTCCGTATTGAAATCTCTA 58.864 37.037 0.00 0.00 0.00 2.43
1838 5374 9.529325 CATGTAGTCCGTATTGAAATCTCTAAA 57.471 33.333 0.00 0.00 0.00 1.85
1877 5413 7.419711 AGAACGAAGGGAGTAATAATCTGAA 57.580 36.000 0.00 0.00 0.00 3.02
1878 5414 7.848128 AGAACGAAGGGAGTAATAATCTGAAA 58.152 34.615 0.00 0.00 0.00 2.69
1879 5415 7.764901 AGAACGAAGGGAGTAATAATCTGAAAC 59.235 37.037 0.00 0.00 0.00 2.78
1880 5416 6.942976 ACGAAGGGAGTAATAATCTGAAACA 58.057 36.000 0.00 0.00 0.00 2.83
1884 5420 9.178758 GAAGGGAGTAATAATCTGAAACACATT 57.821 33.333 0.00 0.00 0.00 2.71
1885 5421 8.738645 AGGGAGTAATAATCTGAAACACATTC 57.261 34.615 0.00 0.00 38.60 2.67
1886 5422 7.775561 AGGGAGTAATAATCTGAAACACATTCC 59.224 37.037 0.00 0.00 37.22 3.01
1887 5423 7.775561 GGGAGTAATAATCTGAAACACATTCCT 59.224 37.037 0.00 0.00 37.22 3.36
1888 5424 8.616076 GGAGTAATAATCTGAAACACATTCCTG 58.384 37.037 0.00 0.00 37.22 3.86
1889 5425 7.989826 AGTAATAATCTGAAACACATTCCTGC 58.010 34.615 0.00 0.00 37.22 4.85
1890 5426 6.839124 AATAATCTGAAACACATTCCTGCA 57.161 33.333 0.00 0.00 37.22 4.41
1891 5427 6.839124 ATAATCTGAAACACATTCCTGCAA 57.161 33.333 0.00 0.00 37.22 4.08
1892 5428 5.534207 AATCTGAAACACATTCCTGCAAA 57.466 34.783 0.00 0.00 37.22 3.68
1893 5429 4.998671 TCTGAAACACATTCCTGCAAAA 57.001 36.364 0.00 0.00 37.22 2.44
1894 5430 5.336150 TCTGAAACACATTCCTGCAAAAA 57.664 34.783 0.00 0.00 37.22 1.94
1895 5431 5.916318 TCTGAAACACATTCCTGCAAAAAT 58.084 33.333 0.00 0.00 37.22 1.82
1896 5432 7.048629 TCTGAAACACATTCCTGCAAAAATA 57.951 32.000 0.00 0.00 37.22 1.40
1897 5433 7.147312 TCTGAAACACATTCCTGCAAAAATAG 58.853 34.615 0.00 0.00 37.22 1.73
1898 5434 7.014134 TCTGAAACACATTCCTGCAAAAATAGA 59.986 33.333 0.00 0.00 37.22 1.98
1899 5435 7.495901 TGAAACACATTCCTGCAAAAATAGAA 58.504 30.769 0.00 0.00 37.22 2.10
1900 5436 7.984050 TGAAACACATTCCTGCAAAAATAGAAA 59.016 29.630 0.00 0.00 37.22 2.52
1901 5437 8.729805 AAACACATTCCTGCAAAAATAGAAAA 57.270 26.923 0.00 0.00 0.00 2.29
1902 5438 8.907222 AACACATTCCTGCAAAAATAGAAAAT 57.093 26.923 0.00 0.00 0.00 1.82
1903 5439 8.538409 ACACATTCCTGCAAAAATAGAAAATC 57.462 30.769 0.00 0.00 0.00 2.17
1904 5440 8.149647 ACACATTCCTGCAAAAATAGAAAATCA 58.850 29.630 0.00 0.00 0.00 2.57
1905 5441 9.158233 CACATTCCTGCAAAAATAGAAAATCAT 57.842 29.630 0.00 0.00 0.00 2.45
1909 5445 7.491682 TCCTGCAAAAATAGAAAATCATAGGC 58.508 34.615 0.00 0.00 0.00 3.93
1910 5446 6.703165 CCTGCAAAAATAGAAAATCATAGGCC 59.297 38.462 0.00 0.00 0.00 5.19
1911 5447 7.180322 TGCAAAAATAGAAAATCATAGGCCA 57.820 32.000 5.01 0.00 0.00 5.36
1912 5448 7.794041 TGCAAAAATAGAAAATCATAGGCCAT 58.206 30.769 5.01 0.00 0.00 4.40
1913 5449 7.711772 TGCAAAAATAGAAAATCATAGGCCATG 59.288 33.333 5.01 7.20 35.81 3.66
1914 5450 7.172019 GCAAAAATAGAAAATCATAGGCCATGG 59.828 37.037 7.63 7.63 35.16 3.66
1915 5451 6.923199 AAATAGAAAATCATAGGCCATGGG 57.077 37.500 15.13 0.00 35.16 4.00
1916 5452 5.865977 ATAGAAAATCATAGGCCATGGGA 57.134 39.130 15.13 1.44 35.16 4.37
1917 5453 4.109877 AGAAAATCATAGGCCATGGGAG 57.890 45.455 15.13 0.00 35.16 4.30
1923 5459 0.570218 ATAGGCCATGGGAGGAGAGT 59.430 55.000 15.13 0.00 0.00 3.24
1930 5466 0.397816 ATGGGAGGAGAGTCTTCGGG 60.398 60.000 0.00 0.00 0.00 5.14
1935 5471 2.159028 GGAGGAGAGTCTTCGGGAAATG 60.159 54.545 0.00 0.00 0.00 2.32
1942 5478 5.617252 AGAGTCTTCGGGAAATGTAAACAA 58.383 37.500 0.00 0.00 0.00 2.83
1949 5485 9.685828 TCTTCGGGAAATGTAAACAAATTTTAG 57.314 29.630 0.00 0.00 0.00 1.85
1950 5486 9.471084 CTTCGGGAAATGTAAACAAATTTTAGT 57.529 29.630 0.00 0.00 0.00 2.24
1992 6302 2.994186 TCCGTAAAGGCCTTATCCAC 57.006 50.000 20.84 13.23 40.77 4.02
2003 6313 0.390860 CTTATCCACGAGGGCTCCAG 59.609 60.000 0.00 0.00 36.21 3.86
2010 6320 2.747855 GAGGGCTCCAGTTTGGCG 60.748 66.667 0.00 0.00 37.47 5.69
2016 6326 1.576421 CTCCAGTTTGGCGCTTCAC 59.424 57.895 7.64 0.76 37.47 3.18
2040 6350 1.653094 CGAATTGCGGGCAAGGCTAA 61.653 55.000 12.07 0.00 39.47 3.09
2046 6367 2.045340 GGGCAAGGCTAAGGCGAA 60.045 61.111 7.23 0.00 39.81 4.70
2050 6371 0.596082 GCAAGGCTAAGGCGAAACAA 59.404 50.000 0.00 0.00 39.81 2.83
2054 6375 1.886542 AGGCTAAGGCGAAACAAAAGG 59.113 47.619 0.00 0.00 39.81 3.11
2082 6403 2.677228 GCCAGGTAGCCATGTGGT 59.323 61.111 0.35 0.00 37.57 4.16
2109 6430 4.812626 GTCATGCTGACATCACATACATGA 59.187 41.667 0.00 0.00 46.22 3.07
2113 6434 6.762702 TGCTGACATCACATACATGATTTT 57.237 33.333 0.00 0.00 37.20 1.82
2114 6435 6.788243 TGCTGACATCACATACATGATTTTC 58.212 36.000 0.00 0.00 37.20 2.29
2220 6544 6.529463 AGCACATTTAAAAACTGTTCATGC 57.471 33.333 0.00 0.00 0.00 4.06
2240 6564 7.948137 TCATGCAGTTTATAAAAATTGTTCGC 58.052 30.769 0.00 0.00 35.40 4.70
2248 7326 8.552865 GTTTATAAAAATTGTTCGCCCAACTTT 58.447 29.630 0.00 0.00 35.79 2.66
2251 7329 6.986904 AAAAATTGTTCGCCCAACTTTTAA 57.013 29.167 4.87 0.00 33.48 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.449464 TGGTGCTTCCAAATGAGATGG 58.551 47.619 0.00 0.00 44.12 3.51
11 12 1.084370 CCTTCGTCGATGGTGCTTCC 61.084 60.000 16.96 0.00 0.00 3.46
12 13 1.696832 GCCTTCGTCGATGGTGCTTC 61.697 60.000 23.64 7.32 30.69 3.86
13 14 1.741770 GCCTTCGTCGATGGTGCTT 60.742 57.895 23.64 0.00 30.69 3.91
14 15 2.125512 GCCTTCGTCGATGGTGCT 60.126 61.111 23.64 0.00 30.69 4.40
15 16 3.554692 CGCCTTCGTCGATGGTGC 61.555 66.667 22.94 11.93 32.26 5.01
16 17 2.885644 CCGCCTTCGTCGATGGTG 60.886 66.667 25.96 25.96 37.20 4.17
17 18 3.064987 CTCCGCCTTCGTCGATGGT 62.065 63.158 23.64 0.00 30.69 3.55
18 19 2.076622 ATCTCCGCCTTCGTCGATGG 62.077 60.000 20.04 20.04 0.00 3.51
19 20 0.936764 CATCTCCGCCTTCGTCGATG 60.937 60.000 0.00 0.00 35.63 3.84
20 21 1.360551 CATCTCCGCCTTCGTCGAT 59.639 57.895 0.00 0.00 0.00 3.59
21 22 2.771639 CCATCTCCGCCTTCGTCGA 61.772 63.158 0.00 0.00 0.00 4.20
22 23 2.278857 CCATCTCCGCCTTCGTCG 60.279 66.667 0.00 0.00 0.00 5.12
23 24 1.519455 CACCATCTCCGCCTTCGTC 60.519 63.158 0.00 0.00 0.00 4.20
24 25 2.579201 CACCATCTCCGCCTTCGT 59.421 61.111 0.00 0.00 0.00 3.85
25 26 2.892425 GCACCATCTCCGCCTTCG 60.892 66.667 0.00 0.00 0.00 3.79
26 27 2.514824 GGCACCATCTCCGCCTTC 60.515 66.667 0.00 0.00 42.78 3.46
29 30 3.785859 TGAGGCACCATCTCCGCC 61.786 66.667 0.00 0.00 46.62 6.13
30 31 2.512515 GTGAGGCACCATCTCCGC 60.513 66.667 0.00 0.00 0.00 5.54
31 32 0.752658 TATGTGAGGCACCATCTCCG 59.247 55.000 0.00 0.00 32.73 4.63
32 33 1.542108 GCTATGTGAGGCACCATCTCC 60.542 57.143 0.00 0.00 32.73 3.71
33 34 1.415659 AGCTATGTGAGGCACCATCTC 59.584 52.381 0.00 0.00 32.73 2.75
34 35 1.415659 GAGCTATGTGAGGCACCATCT 59.584 52.381 0.00 0.00 32.73 2.90
35 36 1.542108 GGAGCTATGTGAGGCACCATC 60.542 57.143 0.00 0.00 38.67 3.51
36 37 0.471617 GGAGCTATGTGAGGCACCAT 59.528 55.000 0.00 0.00 38.67 3.55
37 38 0.618680 AGGAGCTATGTGAGGCACCA 60.619 55.000 0.00 0.00 40.69 4.17
38 39 0.179062 CAGGAGCTATGTGAGGCACC 60.179 60.000 0.00 0.00 39.01 5.01
39 40 0.813210 GCAGGAGCTATGTGAGGCAC 60.813 60.000 0.00 0.00 37.91 5.01
40 41 1.266867 TGCAGGAGCTATGTGAGGCA 61.267 55.000 0.00 0.00 42.74 4.75
41 42 0.532417 CTGCAGGAGCTATGTGAGGC 60.532 60.000 5.57 0.00 42.74 4.70
42 43 0.532417 GCTGCAGGAGCTATGTGAGG 60.532 60.000 17.12 0.00 45.21 3.86
43 44 2.989196 GCTGCAGGAGCTATGTGAG 58.011 57.895 17.12 0.00 45.21 3.51
52 53 2.274948 TTATGCCTGGGCTGCAGGAG 62.275 60.000 17.12 0.00 42.92 3.69
53 54 1.648302 ATTATGCCTGGGCTGCAGGA 61.648 55.000 17.12 0.00 42.92 3.86
54 55 1.152610 ATTATGCCTGGGCTGCAGG 60.153 57.895 17.12 5.51 42.92 4.85
55 56 0.178998 AGATTATGCCTGGGCTGCAG 60.179 55.000 10.11 10.11 42.92 4.41
56 57 0.466739 CAGATTATGCCTGGGCTGCA 60.467 55.000 13.05 0.00 43.97 4.41
57 58 2.338381 CAGATTATGCCTGGGCTGC 58.662 57.895 13.05 0.00 42.51 5.25
67 68 4.926860 TGTTTCAGACGTGCAGATTATG 57.073 40.909 0.00 0.00 0.00 1.90
68 69 5.178061 TCATGTTTCAGACGTGCAGATTAT 58.822 37.500 0.00 0.00 43.57 1.28
69 70 4.565022 TCATGTTTCAGACGTGCAGATTA 58.435 39.130 0.00 0.00 43.57 1.75
70 71 3.402110 TCATGTTTCAGACGTGCAGATT 58.598 40.909 0.00 0.00 43.57 2.40
71 72 3.044235 TCATGTTTCAGACGTGCAGAT 57.956 42.857 0.00 0.00 43.57 2.90
72 73 2.524569 TCATGTTTCAGACGTGCAGA 57.475 45.000 0.00 0.00 43.57 4.26
73 74 2.287644 TGTTCATGTTTCAGACGTGCAG 59.712 45.455 0.00 0.00 43.57 4.41
120 121 2.414994 ATCAGGAGAACAGTGGCATG 57.585 50.000 0.00 0.00 0.00 4.06
161 2423 5.947663 TCTATGAAGAGGTAGAAGAGGAGG 58.052 45.833 0.00 0.00 0.00 4.30
174 2436 2.854777 CGCAAACGTCCTCTATGAAGAG 59.145 50.000 0.00 0.00 40.87 2.85
219 2481 4.819630 ACCGTTGTGCTTTCTTTCTTATGA 59.180 37.500 0.00 0.00 0.00 2.15
220 2482 5.108385 ACCGTTGTGCTTTCTTTCTTATG 57.892 39.130 0.00 0.00 0.00 1.90
221 2483 6.147328 GTCTACCGTTGTGCTTTCTTTCTTAT 59.853 38.462 0.00 0.00 0.00 1.73
222 2484 5.464389 GTCTACCGTTGTGCTTTCTTTCTTA 59.536 40.000 0.00 0.00 0.00 2.10
331 3836 3.187842 GTGTTACGGAAGATTGGGTTGTC 59.812 47.826 0.00 0.00 0.00 3.18
345 3850 5.096169 TGTGTGTTGATTTTTGTGTTACGG 58.904 37.500 0.00 0.00 0.00 4.02
419 3924 3.251479 TCGTGATTCAGGAACATGGAG 57.749 47.619 6.59 0.00 0.00 3.86
420 3925 3.912496 ATCGTGATTCAGGAACATGGA 57.088 42.857 12.62 0.00 32.06 3.41
488 3999 5.317733 AGATAATATAGCTCACGGTCTGC 57.682 43.478 0.00 0.00 0.00 4.26
514 4026 2.283145 ATAGCATTTGGGGCTAGCTG 57.717 50.000 15.72 4.77 46.10 4.24
649 4161 0.323725 TCTTGGCTGGAATTGGAGGC 60.324 55.000 0.00 0.00 35.37 4.70
906 4424 1.145156 TTGTCTGGGTGTGTCACGG 59.855 57.895 0.00 0.00 34.83 4.94
957 4479 1.601171 GACTGGTGGATCAGCTGCT 59.399 57.895 9.47 0.00 38.26 4.24
1096 4621 2.433838 CACGCTGCAGACCCTGAG 60.434 66.667 20.43 1.24 32.44 3.35
1099 4624 4.008933 GTCCACGCTGCAGACCCT 62.009 66.667 20.43 0.00 0.00 4.34
1100 4625 4.314440 TGTCCACGCTGCAGACCC 62.314 66.667 20.43 0.00 0.00 4.46
1101 4626 2.740055 CTGTCCACGCTGCAGACC 60.740 66.667 20.43 0.00 32.39 3.85
1118 4643 1.593209 TTGTTGACGACGCTGTCCC 60.593 57.895 0.00 0.00 38.11 4.46
1126 4651 1.003866 GGACTTGCAGTTGTTGACGAC 60.004 52.381 0.00 0.00 0.00 4.34
1128 4653 1.299541 AGGACTTGCAGTTGTTGACG 58.700 50.000 0.00 0.00 0.00 4.35
1235 4760 4.373116 GGGACAGCGCGTTCCTGA 62.373 66.667 24.22 0.00 40.69 3.86
1252 4777 3.186047 GTTGCCGTCGATGTCCGG 61.186 66.667 7.77 7.77 46.90 5.14
1253 4778 3.186047 GGTTGCCGTCGATGTCCG 61.186 66.667 3.52 0.00 40.25 4.79
1390 4917 3.482722 ACACCACGTTACGATCTACTG 57.517 47.619 13.03 0.00 0.00 2.74
1406 4933 3.843999 TGAAAGTTGACAGCAAAACACC 58.156 40.909 0.00 0.00 35.42 4.16
1492 5021 0.793861 GCCAACACAAAGCATGCATG 59.206 50.000 22.70 22.70 0.00 4.06
1493 5022 0.320946 GGCCAACACAAAGCATGCAT 60.321 50.000 21.98 4.57 0.00 3.96
1521 5050 6.195700 AGCAGAAGAGGATACAAAGGTACTA 58.804 40.000 0.00 0.00 36.59 1.82
1522 5051 5.026790 AGCAGAAGAGGATACAAAGGTACT 58.973 41.667 0.00 0.00 40.19 2.73
1523 5052 5.346181 AGCAGAAGAGGATACAAAGGTAC 57.654 43.478 0.00 0.00 41.41 3.34
1556 5091 3.058914 GGTTGTAGACACACAGCAACATC 60.059 47.826 0.00 0.00 40.58 3.06
1615 5151 9.482175 ACAGACATATAGAGAAGGACTAAAAGT 57.518 33.333 0.00 0.00 0.00 2.66
1706 5242 8.488308 ACTTAGTTTTAGAAACAGAGGGAGTA 57.512 34.615 6.35 0.00 0.00 2.59
1707 5243 7.290481 AGACTTAGTTTTAGAAACAGAGGGAGT 59.710 37.037 6.35 1.56 0.00 3.85
1710 5246 8.678593 AAAGACTTAGTTTTAGAAACAGAGGG 57.321 34.615 6.35 0.00 0.00 4.30
1737 5273 9.476202 CGTATGTTGTCCATATTGAAATCTCTA 57.524 33.333 0.00 0.00 38.29 2.43
1738 5274 7.442364 CCGTATGTTGTCCATATTGAAATCTCT 59.558 37.037 0.00 0.00 38.29 3.10
1739 5275 7.441157 TCCGTATGTTGTCCATATTGAAATCTC 59.559 37.037 0.00 0.00 38.29 2.75
1740 5276 7.279615 TCCGTATGTTGTCCATATTGAAATCT 58.720 34.615 0.00 0.00 38.29 2.40
1741 5277 7.490962 TCCGTATGTTGTCCATATTGAAATC 57.509 36.000 0.00 0.00 38.29 2.17
1742 5278 7.502226 ACATCCGTATGTTGTCCATATTGAAAT 59.498 33.333 0.00 0.00 44.07 2.17
1743 5279 6.826231 ACATCCGTATGTTGTCCATATTGAAA 59.174 34.615 0.00 0.00 44.07 2.69
1744 5280 6.353323 ACATCCGTATGTTGTCCATATTGAA 58.647 36.000 0.00 0.00 44.07 2.69
1745 5281 5.924356 ACATCCGTATGTTGTCCATATTGA 58.076 37.500 0.00 0.00 44.07 2.57
1746 5282 7.905604 ATACATCCGTATGTTGTCCATATTG 57.094 36.000 0.00 0.00 44.07 1.90
1748 5284 9.599866 CAATATACATCCGTATGTTGTCCATAT 57.400 33.333 0.00 0.00 45.23 1.78
1749 5285 8.996024 CAATATACATCCGTATGTTGTCCATA 57.004 34.615 0.00 0.00 45.23 2.74
1750 5286 7.905604 CAATATACATCCGTATGTTGTCCAT 57.094 36.000 0.00 0.00 45.23 3.41
1756 5292 7.879070 AGTACGTCAATATACATCCGTATGTT 58.121 34.615 0.00 0.00 44.07 2.71
1758 5294 8.738199 AAAGTACGTCAATATACATCCGTATG 57.262 34.615 0.00 0.00 38.79 2.39
1760 5296 9.271828 TCTAAAGTACGTCAATATACATCCGTA 57.728 33.333 0.00 0.00 0.00 4.02
1761 5297 8.158169 TCTAAAGTACGTCAATATACATCCGT 57.842 34.615 0.00 0.00 0.00 4.69
1762 5298 8.288208 ACTCTAAAGTACGTCAATATACATCCG 58.712 37.037 0.00 0.00 32.59 4.18
1763 5299 9.395707 CACTCTAAAGTACGTCAATATACATCC 57.604 37.037 0.00 0.00 33.25 3.51
1764 5300 9.947669 ACACTCTAAAGTACGTCAATATACATC 57.052 33.333 0.00 0.00 33.25 3.06
1765 5301 9.947669 GACACTCTAAAGTACGTCAATATACAT 57.052 33.333 0.00 0.00 33.25 2.29
1766 5302 8.118607 CGACACTCTAAAGTACGTCAATATACA 58.881 37.037 0.00 0.00 31.19 2.29
1767 5303 8.331022 TCGACACTCTAAAGTACGTCAATATAC 58.669 37.037 0.00 0.00 36.52 1.47
1768 5304 8.424274 TCGACACTCTAAAGTACGTCAATATA 57.576 34.615 0.00 0.00 36.52 0.86
1769 5305 7.312657 TCGACACTCTAAAGTACGTCAATAT 57.687 36.000 0.00 0.00 36.52 1.28
1770 5306 6.726258 TCGACACTCTAAAGTACGTCAATA 57.274 37.500 0.00 0.00 36.52 1.90
1771 5307 5.618056 TCGACACTCTAAAGTACGTCAAT 57.382 39.130 0.00 0.00 36.52 2.57
1772 5308 5.618056 ATCGACACTCTAAAGTACGTCAA 57.382 39.130 0.00 0.00 36.52 3.18
1773 5309 5.618056 AATCGACACTCTAAAGTACGTCA 57.382 39.130 0.00 0.00 36.52 4.35
1774 5310 7.239972 AGTAAATCGACACTCTAAAGTACGTC 58.760 38.462 0.00 0.00 36.52 4.34
1775 5311 7.095060 TGAGTAAATCGACACTCTAAAGTACGT 60.095 37.037 18.94 0.00 41.46 3.57
1776 5312 7.239271 TGAGTAAATCGACACTCTAAAGTACG 58.761 38.462 18.94 0.00 41.46 3.67
1777 5313 9.570488 AATGAGTAAATCGACACTCTAAAGTAC 57.430 33.333 18.94 0.00 41.46 2.73
1779 5315 9.490379 AAAATGAGTAAATCGACACTCTAAAGT 57.510 29.630 18.94 2.52 41.46 2.66
1780 5316 9.746711 CAAAATGAGTAAATCGACACTCTAAAG 57.253 33.333 18.94 7.02 41.46 1.85
1781 5317 8.227791 GCAAAATGAGTAAATCGACACTCTAAA 58.772 33.333 18.94 5.41 41.46 1.85
1782 5318 7.602644 AGCAAAATGAGTAAATCGACACTCTAA 59.397 33.333 18.94 5.95 41.46 2.10
1783 5319 7.097192 AGCAAAATGAGTAAATCGACACTCTA 58.903 34.615 18.94 9.93 41.46 2.43
1784 5320 5.934625 AGCAAAATGAGTAAATCGACACTCT 59.065 36.000 18.94 4.08 41.46 3.24
1785 5321 6.170675 AGCAAAATGAGTAAATCGACACTC 57.829 37.500 13.92 13.92 41.31 3.51
1786 5322 6.204688 TGAAGCAAAATGAGTAAATCGACACT 59.795 34.615 0.00 0.00 0.00 3.55
1787 5323 6.303259 GTGAAGCAAAATGAGTAAATCGACAC 59.697 38.462 0.00 0.00 0.00 3.67
1788 5324 6.017523 TGTGAAGCAAAATGAGTAAATCGACA 60.018 34.615 0.00 0.00 0.00 4.35
1789 5325 6.370593 TGTGAAGCAAAATGAGTAAATCGAC 58.629 36.000 0.00 0.00 0.00 4.20
1790 5326 6.552859 TGTGAAGCAAAATGAGTAAATCGA 57.447 33.333 0.00 0.00 0.00 3.59
1791 5327 6.803320 ACATGTGAAGCAAAATGAGTAAATCG 59.197 34.615 0.00 0.00 0.00 3.34
1792 5328 9.282247 CTACATGTGAAGCAAAATGAGTAAATC 57.718 33.333 9.11 0.00 0.00 2.17
1793 5329 8.796475 ACTACATGTGAAGCAAAATGAGTAAAT 58.204 29.630 9.11 0.00 0.00 1.40
1794 5330 8.165239 ACTACATGTGAAGCAAAATGAGTAAA 57.835 30.769 9.11 0.00 0.00 2.01
1795 5331 7.094805 GGACTACATGTGAAGCAAAATGAGTAA 60.095 37.037 9.11 0.00 0.00 2.24
1796 5332 6.371548 GGACTACATGTGAAGCAAAATGAGTA 59.628 38.462 9.11 0.00 0.00 2.59
1797 5333 5.182001 GGACTACATGTGAAGCAAAATGAGT 59.818 40.000 9.11 0.00 0.00 3.41
1798 5334 5.634896 GGACTACATGTGAAGCAAAATGAG 58.365 41.667 9.11 0.00 0.00 2.90
1799 5335 4.154015 CGGACTACATGTGAAGCAAAATGA 59.846 41.667 9.11 0.00 0.00 2.57
1800 5336 4.083324 ACGGACTACATGTGAAGCAAAATG 60.083 41.667 9.11 0.00 0.00 2.32
1801 5337 4.072131 ACGGACTACATGTGAAGCAAAAT 58.928 39.130 9.11 0.00 0.00 1.82
1802 5338 3.472652 ACGGACTACATGTGAAGCAAAA 58.527 40.909 9.11 0.00 0.00 2.44
1803 5339 3.120321 ACGGACTACATGTGAAGCAAA 57.880 42.857 9.11 0.00 0.00 3.68
1804 5340 2.831685 ACGGACTACATGTGAAGCAA 57.168 45.000 9.11 0.00 0.00 3.91
1805 5341 4.081917 TCAATACGGACTACATGTGAAGCA 60.082 41.667 9.11 0.00 0.00 3.91
1806 5342 4.430007 TCAATACGGACTACATGTGAAGC 58.570 43.478 9.11 0.00 0.00 3.86
1807 5343 6.961359 TTTCAATACGGACTACATGTGAAG 57.039 37.500 9.11 0.62 0.00 3.02
1808 5344 7.327975 AGATTTCAATACGGACTACATGTGAA 58.672 34.615 9.11 0.00 0.00 3.18
1809 5345 6.873997 AGATTTCAATACGGACTACATGTGA 58.126 36.000 9.11 0.00 0.00 3.58
1810 5346 6.980978 AGAGATTTCAATACGGACTACATGTG 59.019 38.462 9.11 0.93 0.00 3.21
1811 5347 7.113658 AGAGATTTCAATACGGACTACATGT 57.886 36.000 2.69 2.69 0.00 3.21
1812 5348 9.529325 TTTAGAGATTTCAATACGGACTACATG 57.471 33.333 0.00 0.00 0.00 3.21
1853 5389 7.419711 TTCAGATTATTACTCCCTTCGTTCT 57.580 36.000 0.00 0.00 0.00 3.01
1858 5394 8.738645 ATGTGTTTCAGATTATTACTCCCTTC 57.261 34.615 0.00 0.00 0.00 3.46
1860 5396 7.775561 GGAATGTGTTTCAGATTATTACTCCCT 59.224 37.037 0.00 0.00 35.94 4.20
1861 5397 7.775561 AGGAATGTGTTTCAGATTATTACTCCC 59.224 37.037 0.00 0.00 35.94 4.30
1862 5398 8.616076 CAGGAATGTGTTTCAGATTATTACTCC 58.384 37.037 0.00 0.00 35.94 3.85
1863 5399 8.125448 GCAGGAATGTGTTTCAGATTATTACTC 58.875 37.037 0.00 0.00 35.94 2.59
1864 5400 7.611467 TGCAGGAATGTGTTTCAGATTATTACT 59.389 33.333 0.00 0.00 35.94 2.24
1865 5401 7.761409 TGCAGGAATGTGTTTCAGATTATTAC 58.239 34.615 0.00 0.00 35.94 1.89
1866 5402 7.936496 TGCAGGAATGTGTTTCAGATTATTA 57.064 32.000 0.00 0.00 35.94 0.98
1867 5403 6.839124 TGCAGGAATGTGTTTCAGATTATT 57.161 33.333 0.00 0.00 35.94 1.40
1868 5404 6.839124 TTGCAGGAATGTGTTTCAGATTAT 57.161 33.333 0.00 0.00 35.94 1.28
1871 5407 5.534207 TTTTGCAGGAATGTGTTTCAGAT 57.466 34.783 0.00 0.00 35.94 2.90
1872 5408 4.998671 TTTTGCAGGAATGTGTTTCAGA 57.001 36.364 0.00 0.00 35.94 3.27
1874 5410 7.048629 TCTATTTTTGCAGGAATGTGTTTCA 57.951 32.000 6.83 0.00 35.94 2.69
1877 5413 8.907222 ATTTTCTATTTTTGCAGGAATGTGTT 57.093 26.923 6.83 0.00 0.00 3.32
1878 5414 8.149647 TGATTTTCTATTTTTGCAGGAATGTGT 58.850 29.630 6.83 0.00 0.00 3.72
1879 5415 8.537049 TGATTTTCTATTTTTGCAGGAATGTG 57.463 30.769 6.83 1.70 0.00 3.21
1884 5420 7.417797 GGCCTATGATTTTCTATTTTTGCAGGA 60.418 37.037 0.00 0.00 0.00 3.86
1885 5421 6.703165 GGCCTATGATTTTCTATTTTTGCAGG 59.297 38.462 0.00 0.00 0.00 4.85
1886 5422 7.267128 TGGCCTATGATTTTCTATTTTTGCAG 58.733 34.615 3.32 0.00 0.00 4.41
1887 5423 7.180322 TGGCCTATGATTTTCTATTTTTGCA 57.820 32.000 3.32 0.00 0.00 4.08
1888 5424 7.172019 CCATGGCCTATGATTTTCTATTTTTGC 59.828 37.037 14.52 0.00 39.21 3.68
1889 5425 7.658575 CCCATGGCCTATGATTTTCTATTTTTG 59.341 37.037 6.09 0.00 39.21 2.44
1890 5426 7.568366 TCCCATGGCCTATGATTTTCTATTTTT 59.432 33.333 6.09 0.00 39.21 1.94
1891 5427 7.075148 TCCCATGGCCTATGATTTTCTATTTT 58.925 34.615 6.09 0.00 39.21 1.82
1892 5428 6.623329 TCCCATGGCCTATGATTTTCTATTT 58.377 36.000 6.09 0.00 39.21 1.40
1893 5429 6.218195 TCCCATGGCCTATGATTTTCTATT 57.782 37.500 6.09 0.00 39.21 1.73
1894 5430 5.281401 CCTCCCATGGCCTATGATTTTCTAT 60.281 44.000 6.09 0.00 39.21 1.98
1895 5431 4.043310 CCTCCCATGGCCTATGATTTTCTA 59.957 45.833 6.09 0.00 39.21 2.10
1896 5432 3.181425 CCTCCCATGGCCTATGATTTTCT 60.181 47.826 6.09 0.00 39.21 2.52
1897 5433 3.160269 CCTCCCATGGCCTATGATTTTC 58.840 50.000 6.09 0.00 39.21 2.29
1898 5434 2.791179 TCCTCCCATGGCCTATGATTTT 59.209 45.455 6.09 0.00 39.21 1.82
1899 5435 2.377869 CTCCTCCCATGGCCTATGATTT 59.622 50.000 6.09 0.00 39.21 2.17
1900 5436 1.991070 CTCCTCCCATGGCCTATGATT 59.009 52.381 6.09 0.00 39.21 2.57
1901 5437 1.152917 TCTCCTCCCATGGCCTATGAT 59.847 52.381 6.09 0.00 39.21 2.45
1902 5438 0.567687 TCTCCTCCCATGGCCTATGA 59.432 55.000 6.09 0.00 39.21 2.15
1903 5439 0.982704 CTCTCCTCCCATGGCCTATG 59.017 60.000 6.09 6.24 36.50 2.23
1904 5440 0.570218 ACTCTCCTCCCATGGCCTAT 59.430 55.000 6.09 0.00 0.00 2.57
1905 5441 0.105453 GACTCTCCTCCCATGGCCTA 60.105 60.000 6.09 0.00 0.00 3.93
1906 5442 1.383803 GACTCTCCTCCCATGGCCT 60.384 63.158 6.09 0.00 0.00 5.19
1907 5443 0.985490 AAGACTCTCCTCCCATGGCC 60.985 60.000 6.09 0.00 0.00 5.36
1908 5444 0.467804 GAAGACTCTCCTCCCATGGC 59.532 60.000 6.09 0.00 0.00 4.40
1909 5445 0.749649 CGAAGACTCTCCTCCCATGG 59.250 60.000 4.14 4.14 0.00 3.66
1910 5446 0.749649 CCGAAGACTCTCCTCCCATG 59.250 60.000 0.00 0.00 0.00 3.66
1911 5447 0.397816 CCCGAAGACTCTCCTCCCAT 60.398 60.000 0.00 0.00 0.00 4.00
1912 5448 1.000486 CCCGAAGACTCTCCTCCCA 60.000 63.158 0.00 0.00 0.00 4.37
1913 5449 0.324460 TTCCCGAAGACTCTCCTCCC 60.324 60.000 0.00 0.00 0.00 4.30
1914 5450 1.558233 TTTCCCGAAGACTCTCCTCC 58.442 55.000 0.00 0.00 0.00 4.30
1915 5451 2.498078 ACATTTCCCGAAGACTCTCCTC 59.502 50.000 0.00 0.00 0.00 3.71
1916 5452 2.541466 ACATTTCCCGAAGACTCTCCT 58.459 47.619 0.00 0.00 0.00 3.69
1917 5453 4.467198 TTACATTTCCCGAAGACTCTCC 57.533 45.455 0.00 0.00 0.00 3.71
1923 5459 9.685828 CTAAAATTTGTTTACATTTCCCGAAGA 57.314 29.630 0.00 0.00 0.00 2.87
1961 6271 7.973048 AGGCCTTTACGGATATTATGATCTA 57.027 36.000 0.00 0.00 33.16 1.98
1964 6274 8.211629 GGATAAGGCCTTTACGGATATTATGAT 58.788 37.037 26.08 5.21 33.16 2.45
1971 6281 3.006110 CGTGGATAAGGCCTTTACGGATA 59.994 47.826 26.08 3.31 33.16 2.59
1992 6302 2.747855 GCCAAACTGGAGCCCTCG 60.748 66.667 0.00 0.00 40.96 4.63
2010 6320 2.574212 CAATTCGGCGCGTGAAGC 60.574 61.111 18.17 0.00 43.95 3.86
2025 6335 2.361104 CCTTAGCCTTGCCCGCAA 60.361 61.111 1.58 1.58 0.00 4.85
2030 6340 1.241315 TGTTTCGCCTTAGCCTTGCC 61.241 55.000 0.00 0.00 34.57 4.52
2034 6344 1.886542 CCTTTTGTTTCGCCTTAGCCT 59.113 47.619 0.00 0.00 34.57 4.58
2040 6350 0.385390 CACTGCCTTTTGTTTCGCCT 59.615 50.000 0.00 0.00 0.00 5.52
2065 6386 0.611896 AAACCACATGGCTACCTGGC 60.612 55.000 0.00 0.00 39.32 4.85
2067 6388 1.086696 CGAAACCACATGGCTACCTG 58.913 55.000 0.00 0.00 39.32 4.00
2077 6398 3.696306 TCAGCATGACGAAACCACA 57.304 47.368 0.00 0.00 42.56 4.17
2189 6513 8.574196 ACAGTTTTTAAATGTGCTATGAACAC 57.426 30.769 0.00 0.00 38.55 3.32
2198 6522 6.284475 TGCATGAACAGTTTTTAAATGTGC 57.716 33.333 0.00 0.00 0.00 4.57
2220 6544 7.383843 AGTTGGGCGAACAATTTTTATAAACTG 59.616 33.333 14.88 0.00 36.98 3.16


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

AutoCloner maintained by Alex Coulton.