Multiple sequence alignment - TraesCS3A01G436500

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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 TraesCS3A01G436500 chr3A 100.000 7300 0 0 967 8266 680359357 680352058 0.000000e+00 13481.0
1 TraesCS3A01G436500 chr3A 100.000 790 0 0 1 790 680360323 680359534 0.000000e+00 1459.0
2 TraesCS3A01G436500 chr3B 96.508 6758 181 28 967 7709 719092091 719085374 0.000000e+00 11121.0
3 TraesCS3A01G436500 chr3B 88.354 790 60 12 1 790 719093245 719092488 0.000000e+00 920.0
4 TraesCS3A01G436500 chr3B 90.909 319 20 3 7951 8266 719085234 719084922 3.570000e-113 420.0
5 TraesCS3A01G436500 chr3D 96.380 5774 134 28 967 6730 543509410 543503702 0.000000e+00 9435.0
6 TraesCS3A01G436500 chr3D 88.339 1535 97 45 6758 8266 543503381 543501903 0.000000e+00 1768.0
7 TraesCS3A01G436500 chr3D 88.848 816 57 12 1 790 543510523 543509716 0.000000e+00 972.0
8 TraesCS3A01G436500 chr7A 90.382 811 35 14 3431 4226 575280817 575280035 0.000000e+00 1026.0
9 TraesCS3A01G436500 chr7A 93.902 82 5 0 4723 4804 575275790 575275709 3.130000e-24 124.0
10 TraesCS3A01G436500 chr7A 94.444 54 3 0 3609 3662 35092043 35092096 5.320000e-12 84.2
11 TraesCS3A01G436500 chr2B 81.269 977 98 37 2817 3778 32099875 32100781 0.000000e+00 712.0
12 TraesCS3A01G436500 chrUn 99.482 386 2 0 4292 4677 480633002 480632617 0.000000e+00 702.0
13 TraesCS3A01G436500 chr6A 89.865 148 5 1 4753 4900 437967361 437967224 1.830000e-41 182.0
14 TraesCS3A01G436500 chr5A 89.865 148 5 1 4753 4900 515747092 515747229 1.830000e-41 182.0


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 TraesCS3A01G436500 chr3A 680352058 680360323 8265 True 7470.000000 13481 100.000000 1 8266 2 chr3A.!!$R1 8265
1 TraesCS3A01G436500 chr3B 719084922 719093245 8323 True 4153.666667 11121 91.923667 1 8266 3 chr3B.!!$R1 8265
2 TraesCS3A01G436500 chr3D 543501903 543510523 8620 True 4058.333333 9435 91.189000 1 8266 3 chr3D.!!$R1 8265
3 TraesCS3A01G436500 chr7A 575280035 575280817 782 True 1026.000000 1026 90.382000 3431 4226 1 chr7A.!!$R2 795
4 TraesCS3A01G436500 chr2B 32099875 32100781 906 False 712.000000 712 81.269000 2817 3778 1 chr2B.!!$F1 961

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
246 247 0.034863 TAGGATTTGCACGGGGGTTC 60.035 55.000 0.00 0.00 0.00 3.62 F
1782 2032 0.110486 AGGGTGTTTACTGGGTGCTG 59.890 55.000 0.00 0.00 0.00 4.41 F
1784 2034 0.179001 GGTGTTTACTGGGTGCTGGT 60.179 55.000 0.00 0.00 0.00 4.00 F
2120 2370 0.394352 ATGATGGCTCCACCCGAAAC 60.394 55.000 0.00 0.00 37.83 2.78 F
3688 3950 0.116143 AGAGGTGACCAGGAAGCTCT 59.884 55.000 17.75 17.75 44.33 4.09 F
4641 4926 1.044790 AGCAACACCAAAGGCAGCTT 61.045 50.000 0.00 0.00 0.00 3.74 F
4903 5188 2.954318 AGGGAGCAACACAATGATATGC 59.046 45.455 0.00 0.00 37.28 3.14 F
5710 5995 3.969250 TTCCCTGATGTTCCGGCGC 62.969 63.158 0.00 0.00 0.00 6.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1895 2145 0.251341 GCTCTTTCTTGGCCCCAGAA 60.251 55.000 9.89 9.89 0.00 3.02 R
3356 3615 1.768684 GACCCTGCACACCTCCTTGA 61.769 60.000 0.00 0.00 0.00 3.02 R
3688 3950 1.941377 ACCAGTACGGGATTGTACCA 58.059 50.000 19.63 0.00 44.60 3.25 R
4053 4338 2.108952 ACCAAGAGGGCTGAGTTCATTT 59.891 45.455 0.00 0.00 42.05 2.32 R
5280 5565 3.366052 TCAGGATTTGGTAAAGGAGCC 57.634 47.619 0.00 0.00 0.00 4.70 R
6215 6504 2.306512 ACTTGGATGGGCATGCAAAAAT 59.693 40.909 21.36 6.69 46.03 1.82 R
6224 6513 3.718434 AGATATCAGAACTTGGATGGGCA 59.282 43.478 5.32 0.00 0.00 5.36 R
7635 8230 0.321671 TAATGCCGGGCTGCTATCTC 59.678 55.000 21.46 0.00 0.00 2.75 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
50 51 8.062065 TGGAGGTCACACCATTTAAAAATATC 57.938 34.615 0.00 0.00 41.95 1.63
161 162 4.620982 ACAAAAATAGTGTCAAGCAAGGC 58.379 39.130 0.00 0.00 0.00 4.35
165 166 2.928801 TAGTGTCAAGCAAGGCAGAA 57.071 45.000 0.00 0.00 0.00 3.02
168 169 2.360165 AGTGTCAAGCAAGGCAGAAAAG 59.640 45.455 0.00 0.00 0.00 2.27
169 170 1.682854 TGTCAAGCAAGGCAGAAAAGG 59.317 47.619 0.00 0.00 0.00 3.11
170 171 1.956477 GTCAAGCAAGGCAGAAAAGGA 59.044 47.619 0.00 0.00 0.00 3.36
173 174 1.625511 AGCAAGGCAGAAAAGGAAGG 58.374 50.000 0.00 0.00 0.00 3.46
231 232 1.868498 CGCAACCGAGTTGTTTTAGGA 59.132 47.619 15.22 0.00 44.40 2.94
240 241 4.226761 GAGTTGTTTTAGGATTTGCACGG 58.773 43.478 0.00 0.00 0.00 4.94
246 247 0.034863 TAGGATTTGCACGGGGGTTC 60.035 55.000 0.00 0.00 0.00 3.62
257 258 4.090588 GGGGTTCCGATGACGCCA 62.091 66.667 11.90 0.00 46.19 5.69
259 260 2.047655 GGTTCCGATGACGCCACA 60.048 61.111 0.00 0.00 38.29 4.17
274 275 1.003355 CACACGAGGGCAATCCACT 60.003 57.895 0.00 0.00 38.24 4.00
275 276 0.249120 CACACGAGGGCAATCCACTA 59.751 55.000 0.00 0.00 38.24 2.74
279 280 0.758734 CGAGGGCAATCCACTATCCA 59.241 55.000 0.00 0.00 38.24 3.41
293 294 4.446371 CACTATCCATTTGGTGAGAGTCC 58.554 47.826 0.00 0.00 36.34 3.85
299 300 2.957402 TTTGGTGAGAGTCCAGCATT 57.043 45.000 12.33 0.00 43.05 3.56
320 321 1.560923 GACGACCGGAGACAATCATG 58.439 55.000 9.46 0.00 0.00 3.07
321 322 0.175760 ACGACCGGAGACAATCATGG 59.824 55.000 9.46 0.00 0.00 3.66
322 323 0.459899 CGACCGGAGACAATCATGGA 59.540 55.000 9.46 0.00 0.00 3.41
323 324 1.536922 CGACCGGAGACAATCATGGAG 60.537 57.143 9.46 0.00 0.00 3.86
338 339 0.686789 TGGAGGGCGACATGGATATG 59.313 55.000 0.00 0.00 40.24 1.78
344 345 1.001293 GGCGACATGGATATGCTCTCA 59.999 52.381 0.00 0.00 37.85 3.27
415 436 2.256158 GCAGCAGCGCAAACATCA 59.744 55.556 11.47 0.00 0.00 3.07
418 439 0.179197 CAGCAGCGCAAACATCAGAG 60.179 55.000 11.47 0.00 0.00 3.35
419 440 1.136147 GCAGCGCAAACATCAGAGG 59.864 57.895 11.47 0.00 0.00 3.69
428 449 0.546747 AACATCAGAGGGACGGGGAA 60.547 55.000 0.00 0.00 0.00 3.97
438 459 2.158370 AGGGACGGGGAAATCACTTTTT 60.158 45.455 0.00 0.00 0.00 1.94
499 520 5.103000 ACAAGATCGACGTTTAGGATCAAG 58.897 41.667 16.71 12.36 39.17 3.02
632 657 1.517257 CATCAGCGTCCCTCGTCAC 60.517 63.158 0.00 0.00 42.13 3.67
1052 1297 2.045926 CGGGAAAGGTGAGCCCTG 60.046 66.667 0.00 0.00 45.47 4.45
1152 1397 0.839946 ATGGGTAGATCTGTGTGGCC 59.160 55.000 5.18 0.00 0.00 5.36
1153 1398 0.252696 TGGGTAGATCTGTGTGGCCT 60.253 55.000 5.18 0.00 0.00 5.19
1198 1443 1.002468 GTGTGCTTGTTTCGCAGATGT 60.002 47.619 0.00 0.00 38.19 3.06
1300 1546 0.323629 TTCTCCCGGAACCACATCAC 59.676 55.000 0.73 0.00 0.00 3.06
1318 1564 0.601311 ACTGCTGCTTCGGTTCTGTC 60.601 55.000 0.00 0.00 0.00 3.51
1324 1570 2.210116 TGCTTCGGTTCTGTCTTGTTC 58.790 47.619 0.00 0.00 0.00 3.18
1330 1576 2.350498 CGGTTCTGTCTTGTTCGTTTGT 59.650 45.455 0.00 0.00 0.00 2.83
1409 1655 6.702282 GCTCTACTGTATGTAGGATTTGGTTC 59.298 42.308 3.44 0.00 46.45 3.62
1478 1724 3.223435 GACCTGTGTGTTCGTGCGC 62.223 63.158 0.00 0.00 0.00 6.09
1495 1741 3.341043 CGCGACTGTGTGCTTGCT 61.341 61.111 0.00 0.00 0.00 3.91
1496 1742 2.885676 CGCGACTGTGTGCTTGCTT 61.886 57.895 0.00 0.00 0.00 3.91
1497 1743 1.369689 GCGACTGTGTGCTTGCTTG 60.370 57.895 0.00 0.00 0.00 4.01
1498 1744 2.016961 CGACTGTGTGCTTGCTTGT 58.983 52.632 0.00 0.00 0.00 3.16
1507 1753 2.009051 GTGCTTGCTTGTTTGCCTTTT 58.991 42.857 0.00 0.00 0.00 2.27
1531 1777 2.947890 GCAGTCTGAGTGCGTGTGC 61.948 63.158 20.54 0.00 34.53 4.57
1558 1804 7.094631 AGCTGTTATTGAGTACGTGTTTGATA 58.905 34.615 0.00 0.00 0.00 2.15
1559 1805 7.063074 AGCTGTTATTGAGTACGTGTTTGATAC 59.937 37.037 0.00 0.00 0.00 2.24
1565 1814 6.203808 TGAGTACGTGTTTGATACATAGCT 57.796 37.500 0.00 0.00 39.39 3.32
1693 1942 2.229792 GATGCCAAGGTTTGTCACTGA 58.770 47.619 0.00 0.00 0.00 3.41
1726 1976 3.599343 TGTATCCATTCAGACTGTGTGC 58.401 45.455 1.59 0.00 0.00 4.57
1732 1982 2.134201 TTCAGACTGTGTGCGTGTAG 57.866 50.000 1.59 0.00 0.00 2.74
1748 1998 6.863126 GTGCGTGTAGTAAGGAGTTTTAAGTA 59.137 38.462 0.00 0.00 0.00 2.24
1771 2021 8.663167 AGTAAGTGTTATTTACCTAGGGTGTTT 58.337 33.333 14.81 0.00 36.19 2.83
1772 2022 9.942850 GTAAGTGTTATTTACCTAGGGTGTTTA 57.057 33.333 14.81 0.00 36.19 2.01
1773 2023 8.853077 AAGTGTTATTTACCTAGGGTGTTTAC 57.147 34.615 14.81 5.13 36.19 2.01
1774 2024 8.211030 AGTGTTATTTACCTAGGGTGTTTACT 57.789 34.615 14.81 5.00 36.19 2.24
1777 2027 4.914177 TTTACCTAGGGTGTTTACTGGG 57.086 45.455 14.81 0.00 40.77 4.45
1778 2028 2.428181 ACCTAGGGTGTTTACTGGGT 57.572 50.000 14.81 0.00 42.84 4.51
1779 2029 1.982958 ACCTAGGGTGTTTACTGGGTG 59.017 52.381 14.81 0.00 45.42 4.61
1780 2030 1.339727 CCTAGGGTGTTTACTGGGTGC 60.340 57.143 0.00 0.00 31.39 5.01
1781 2031 1.628846 CTAGGGTGTTTACTGGGTGCT 59.371 52.381 0.00 0.00 0.00 4.40
1782 2032 0.110486 AGGGTGTTTACTGGGTGCTG 59.890 55.000 0.00 0.00 0.00 4.41
1783 2033 0.893727 GGGTGTTTACTGGGTGCTGG 60.894 60.000 0.00 0.00 0.00 4.85
1784 2034 0.179001 GGTGTTTACTGGGTGCTGGT 60.179 55.000 0.00 0.00 0.00 4.00
1785 2035 1.072648 GGTGTTTACTGGGTGCTGGTA 59.927 52.381 0.00 0.00 0.00 3.25
1786 2036 2.148768 GTGTTTACTGGGTGCTGGTAC 58.851 52.381 0.00 0.00 0.00 3.34
1787 2037 1.769465 TGTTTACTGGGTGCTGGTACA 59.231 47.619 0.00 0.00 0.00 2.90
1788 2038 2.172930 TGTTTACTGGGTGCTGGTACAA 59.827 45.455 0.00 0.00 38.70 2.41
1793 2043 2.335712 GGGTGCTGGTACAAGCTGC 61.336 63.158 22.70 14.82 38.70 5.25
1895 2145 2.575279 AGATGTGAGGATGCTTGAAGGT 59.425 45.455 0.00 0.00 0.00 3.50
2009 2259 0.905337 AGAAGGAAGTGGACCGGGAG 60.905 60.000 6.32 0.00 0.00 4.30
2066 2316 3.030291 TGTTTCTGCAAGGGACAACAAT 58.970 40.909 0.00 0.00 0.00 2.71
2072 2322 2.228582 TGCAAGGGACAACAATGATTCG 59.771 45.455 0.00 0.00 0.00 3.34
2084 2334 4.838152 GATTCGCGGGCAGCTCCA 62.838 66.667 6.13 0.00 45.59 3.86
2120 2370 0.394352 ATGATGGCTCCACCCGAAAC 60.394 55.000 0.00 0.00 37.83 2.78
2736 2986 2.572290 AGTGGCTGTTCACCTGTTAAC 58.428 47.619 0.00 0.00 38.34 2.01
2785 3035 2.300723 TCCGTTTGTGTGCTATACAGGT 59.699 45.455 0.00 0.00 40.69 4.00
2807 3057 8.462016 CAGGTTGTTTTGGAAGATATTAGGAAG 58.538 37.037 0.00 0.00 0.00 3.46
2893 3147 3.929955 TGAAGGTATGCACATCATGGA 57.070 42.857 0.00 0.00 36.63 3.41
2910 3166 7.280876 ACATCATGGAATGCATATATTACCGTC 59.719 37.037 0.00 0.00 46.21 4.79
2913 3169 6.109156 TGGAATGCATATATTACCGTCTGT 57.891 37.500 0.00 0.00 0.00 3.41
2914 3170 6.163476 TGGAATGCATATATTACCGTCTGTC 58.837 40.000 0.00 0.00 0.00 3.51
3065 3321 5.309020 TGCCTTAATATCAGAGAAGGATGCT 59.691 40.000 3.71 0.00 40.88 3.79
3173 3429 2.026449 ACTTTCTGGCATCAGGGAAGAG 60.026 50.000 13.22 0.00 41.23 2.85
3356 3615 6.047359 AGTTGACCCTATACTATCTGGATCCT 59.953 42.308 14.23 0.00 0.00 3.24
3485 3744 0.881796 CTCCTTTTCGCCCACTTTCC 59.118 55.000 0.00 0.00 0.00 3.13
3686 3948 0.689623 CAAGAGGTGACCAGGAAGCT 59.310 55.000 3.63 0.00 0.00 3.74
3688 3950 0.116143 AGAGGTGACCAGGAAGCTCT 59.884 55.000 17.75 17.75 44.33 4.09
3698 3960 2.420687 CCAGGAAGCTCTGGTACAATCC 60.421 54.545 12.37 0.49 46.89 3.01
3861 4131 5.129980 TCACATTCTCTTGCTCTATCCATGT 59.870 40.000 0.00 0.00 0.00 3.21
3862 4132 5.466058 CACATTCTCTTGCTCTATCCATGTC 59.534 44.000 0.00 0.00 0.00 3.06
3863 4133 5.366186 ACATTCTCTTGCTCTATCCATGTCT 59.634 40.000 0.00 0.00 0.00 3.41
3864 4134 4.933505 TCTCTTGCTCTATCCATGTCTG 57.066 45.455 0.00 0.00 0.00 3.51
3865 4135 4.540715 TCTCTTGCTCTATCCATGTCTGA 58.459 43.478 0.00 0.00 0.00 3.27
3866 4136 4.958581 TCTCTTGCTCTATCCATGTCTGAA 59.041 41.667 0.00 0.00 0.00 3.02
3867 4137 5.423290 TCTCTTGCTCTATCCATGTCTGAAA 59.577 40.000 0.00 0.00 0.00 2.69
3868 4138 5.423015 TCTTGCTCTATCCATGTCTGAAAC 58.577 41.667 0.00 0.00 0.00 2.78
3994 4273 5.657474 GTGCAGATTTCCAATTGACATCAT 58.343 37.500 7.12 0.00 33.41 2.45
4161 4446 2.338577 ATGAGCGGAGAAATCCCAAG 57.661 50.000 0.00 0.00 0.00 3.61
4256 4541 2.046892 GCGTGATGAGTGGCCTGT 60.047 61.111 3.32 0.00 0.00 4.00
4464 4749 3.592059 GCAGGTGTTTGATTCATTGCAT 58.408 40.909 0.00 0.00 32.57 3.96
4641 4926 1.044790 AGCAACACCAAAGGCAGCTT 61.045 50.000 0.00 0.00 0.00 3.74
4903 5188 2.954318 AGGGAGCAACACAATGATATGC 59.046 45.455 0.00 0.00 37.28 3.14
5710 5995 3.969250 TTCCCTGATGTTCCGGCGC 62.969 63.158 0.00 0.00 0.00 6.53
6252 6541 6.239829 CCATCCAAGTTCTGATATCTAGGCTT 60.240 42.308 3.98 1.49 0.00 4.35
6263 6552 6.763355 TGATATCTAGGCTTTCCATGTCTTC 58.237 40.000 3.98 0.00 33.74 2.87
6337 6626 9.076596 GCCATGTTCTTTATTTATGTTCACTTC 57.923 33.333 0.00 0.00 0.00 3.01
6399 6688 6.801539 ATTGTCAGTTTACACATAGTGGTG 57.198 37.500 1.93 0.00 44.35 4.17
6665 6954 3.004315 GTGGTTTTCTTCTCATGCGGAAA 59.996 43.478 0.00 0.00 0.00 3.13
6707 6997 4.202020 TGACACTCTTATATCCGCAGTCAC 60.202 45.833 0.00 0.00 0.00 3.67
6737 7027 8.938801 ATGTTAAGTCCAATAATATCCATGCA 57.061 30.769 0.00 0.00 0.00 3.96
6833 7416 5.652014 CAGCCACCTGAACCTTCATTTATAA 59.348 40.000 0.00 0.00 41.77 0.98
6856 7439 2.712057 AGCTTCAAATGTTCCGCTTG 57.288 45.000 0.00 0.00 0.00 4.01
6857 7440 1.063031 GCTTCAAATGTTCCGCTTGC 58.937 50.000 0.00 0.00 0.00 4.01
6858 7441 1.336240 GCTTCAAATGTTCCGCTTGCT 60.336 47.619 0.00 0.00 0.00 3.91
6859 7442 2.322161 CTTCAAATGTTCCGCTTGCTG 58.678 47.619 0.00 0.00 0.00 4.41
6860 7443 1.317613 TCAAATGTTCCGCTTGCTGT 58.682 45.000 0.00 0.00 0.00 4.40
6861 7444 1.680735 TCAAATGTTCCGCTTGCTGTT 59.319 42.857 0.00 0.00 0.00 3.16
6884 7472 7.226720 TGTTCTGACTTGAGGATTCTACAAAAC 59.773 37.037 0.00 0.00 0.00 2.43
7040 7628 3.000819 TCGTTCGGCATCCCACCT 61.001 61.111 0.00 0.00 0.00 4.00
7079 7667 1.613925 TCTGGTCCTTCGTTCAGTGAG 59.386 52.381 0.00 0.00 0.00 3.51
7205 7793 0.741915 AGATCGACCCTTCGCTTCTC 59.258 55.000 0.00 0.00 45.46 2.87
7208 7796 2.184579 GACCCTTCGCTTCTCGGG 59.815 66.667 0.00 0.00 42.53 5.14
7534 8125 5.077134 TGTATGTCAGTGATCTCCTTGTG 57.923 43.478 0.00 0.00 0.00 3.33
7582 8177 1.006400 CTCAGGCCATTTCTTCCCCTT 59.994 52.381 5.01 0.00 0.00 3.95
7595 8190 3.593328 TCTTCCCCTTCCTGATTGAACAT 59.407 43.478 0.00 0.00 0.00 2.71
7602 8197 3.565764 TCCTGATTGAACATGCCTAGG 57.434 47.619 3.67 3.67 0.00 3.02
7615 8210 6.763715 ACATGCCTAGGTTCCTTATAATGA 57.236 37.500 11.31 0.00 0.00 2.57
7616 8211 6.534634 ACATGCCTAGGTTCCTTATAATGAC 58.465 40.000 11.31 0.00 0.00 3.06
7619 8214 6.591935 TGCCTAGGTTCCTTATAATGACTTG 58.408 40.000 11.31 0.00 0.00 3.16
7629 8224 7.613585 TCCTTATAATGACTTGTCGGTTACAA 58.386 34.615 0.00 0.00 45.90 2.41
7635 8230 5.666969 TGACTTGTCGGTTACAATCTTTG 57.333 39.130 0.00 0.00 46.81 2.77
7636 8231 5.361427 TGACTTGTCGGTTACAATCTTTGA 58.639 37.500 0.00 0.00 46.81 2.69
7637 8232 5.465390 TGACTTGTCGGTTACAATCTTTGAG 59.535 40.000 0.00 0.00 46.81 3.02
7639 8234 6.231211 ACTTGTCGGTTACAATCTTTGAGAT 58.769 36.000 0.00 0.00 46.81 2.75
7640 8235 7.383687 ACTTGTCGGTTACAATCTTTGAGATA 58.616 34.615 0.00 0.00 46.81 1.98
7641 8236 7.545965 ACTTGTCGGTTACAATCTTTGAGATAG 59.454 37.037 0.00 0.00 46.81 2.08
7642 8237 5.810587 TGTCGGTTACAATCTTTGAGATAGC 59.189 40.000 0.00 0.00 32.89 2.97
7643 8238 5.810587 GTCGGTTACAATCTTTGAGATAGCA 59.189 40.000 0.00 0.00 32.89 3.49
7644 8239 6.019479 GTCGGTTACAATCTTTGAGATAGCAG 60.019 42.308 0.00 0.00 32.89 4.24
7645 8240 5.277058 CGGTTACAATCTTTGAGATAGCAGC 60.277 44.000 0.00 0.00 32.89 5.25
7662 8265 1.056700 AGCCCGGCATTATCCAGTCT 61.057 55.000 13.15 0.00 0.00 3.24
7663 8266 0.685097 GCCCGGCATTATCCAGTCTA 59.315 55.000 3.91 0.00 0.00 2.59
7664 8267 1.338200 GCCCGGCATTATCCAGTCTAG 60.338 57.143 3.91 0.00 0.00 2.43
7665 8268 2.248248 CCCGGCATTATCCAGTCTAGA 58.752 52.381 0.00 0.00 0.00 2.43
7684 8287 2.093075 AGATTGGCATGTGAGTCTCAGG 60.093 50.000 1.75 2.59 0.00 3.86
7714 8317 3.182967 GTCGAGCTGTAGGACTGATTTG 58.817 50.000 0.00 0.00 0.00 2.32
7729 8332 5.130292 CTGATTTGCAGGATGTCAAAACT 57.870 39.130 0.00 0.00 42.26 2.66
7731 8334 5.531634 TGATTTGCAGGATGTCAAAACTTC 58.468 37.500 0.00 0.00 42.26 3.01
7756 8359 9.665719 TCAACACAGTAATTAGATTAGATTGCA 57.334 29.630 0.00 0.00 0.00 4.08
7772 8375 5.437060 AGATTGCATATGTAAAACCGAGGT 58.563 37.500 10.40 0.00 0.00 3.85
7778 8381 6.038825 TGCATATGTAAAACCGAGGTTTATGG 59.961 38.462 19.25 8.62 46.22 2.74
7781 8384 4.581868 TGTAAAACCGAGGTTTATGGAGG 58.418 43.478 19.25 0.00 46.22 4.30
7806 8410 6.374333 GCAGACATGGAATCCTAAACAACTTA 59.626 38.462 0.00 0.00 0.00 2.24
7818 8422 7.328737 TCCTAAACAACTTAGTCAGATTAGGC 58.671 38.462 19.39 0.00 36.06 3.93
7826 8430 7.241042 ACTTAGTCAGATTAGGCTGTTGTTA 57.759 36.000 0.00 0.00 37.20 2.41
7882 8497 5.511202 GCAAAAGGGGATTTGAGTTGATTGA 60.511 40.000 4.09 0.00 41.73 2.57
7884 8499 5.990120 AAGGGGATTTGAGTTGATTGAAG 57.010 39.130 0.00 0.00 0.00 3.02
7890 8505 7.093596 GGGGATTTGAGTTGATTGAAGAATCTT 60.094 37.037 0.00 0.00 39.10 2.40
7892 8507 9.136952 GGATTTGAGTTGATTGAAGAATCTTTG 57.863 33.333 0.00 0.00 39.10 2.77
7895 8510 9.874205 TTTGAGTTGATTGAAGAATCTTTGTTT 57.126 25.926 0.00 0.00 39.10 2.83
7897 8512 9.304731 TGAGTTGATTGAAGAATCTTTGTTTTG 57.695 29.630 0.00 0.00 39.10 2.44
7925 8540 6.633500 ACTGTGAAACTAAAATGCAAGCTA 57.367 33.333 0.00 0.00 38.04 3.32
7926 8541 7.038154 ACTGTGAAACTAAAATGCAAGCTAA 57.962 32.000 0.00 0.00 38.04 3.09
7927 8542 7.488322 ACTGTGAAACTAAAATGCAAGCTAAA 58.512 30.769 0.00 0.00 38.04 1.85
7928 8543 8.143835 ACTGTGAAACTAAAATGCAAGCTAAAT 58.856 29.630 0.00 0.00 38.04 1.40
7929 8544 8.885494 TGTGAAACTAAAATGCAAGCTAAATT 57.115 26.923 0.00 0.00 38.04 1.82
7930 8545 8.763356 TGTGAAACTAAAATGCAAGCTAAATTG 58.237 29.630 0.00 0.00 38.04 2.32
7931 8546 8.764287 GTGAAACTAAAATGCAAGCTAAATTGT 58.236 29.630 0.00 0.00 32.56 2.71
7932 8547 9.323985 TGAAACTAAAATGCAAGCTAAATTGTT 57.676 25.926 0.00 0.00 32.56 2.83
7935 8550 8.006741 ACTAAAATGCAAGCTAAATTGTTTCG 57.993 30.769 0.00 0.00 32.56 3.46
7936 8551 6.843069 AAAATGCAAGCTAAATTGTTTCGT 57.157 29.167 0.00 0.00 32.56 3.85
7937 8552 6.843069 AAATGCAAGCTAAATTGTTTCGTT 57.157 29.167 0.00 0.00 32.56 3.85
7938 8553 6.843069 AATGCAAGCTAAATTGTTTCGTTT 57.157 29.167 0.00 0.00 32.56 3.60
7939 8554 5.881637 TGCAAGCTAAATTGTTTCGTTTC 57.118 34.783 0.00 0.00 32.56 2.78
7940 8555 5.587289 TGCAAGCTAAATTGTTTCGTTTCT 58.413 33.333 0.00 0.00 32.56 2.52
7941 8556 5.685511 TGCAAGCTAAATTGTTTCGTTTCTC 59.314 36.000 0.00 0.00 32.56 2.87
7942 8557 5.915196 GCAAGCTAAATTGTTTCGTTTCTCT 59.085 36.000 0.00 0.00 32.56 3.10
7943 8558 6.417930 GCAAGCTAAATTGTTTCGTTTCTCTT 59.582 34.615 0.00 0.00 32.56 2.85
7944 8559 7.589954 GCAAGCTAAATTGTTTCGTTTCTCTTA 59.410 33.333 0.00 0.00 32.56 2.10
7945 8560 8.892905 CAAGCTAAATTGTTTCGTTTCTCTTAC 58.107 33.333 0.00 0.00 0.00 2.34
7946 8561 7.288672 AGCTAAATTGTTTCGTTTCTCTTACG 58.711 34.615 0.00 0.00 40.23 3.18
7947 8562 7.042254 AGCTAAATTGTTTCGTTTCTCTTACGT 60.042 33.333 0.00 0.00 39.84 3.57
7948 8563 7.058016 GCTAAATTGTTTCGTTTCTCTTACGTG 59.942 37.037 0.00 0.00 39.84 4.49
7949 8564 3.847037 TGTTTCGTTTCTCTTACGTGC 57.153 42.857 0.00 0.00 39.84 5.34
7965 8580 2.489329 ACGTGCCATTCCTTTGAATCAG 59.511 45.455 0.00 0.00 39.20 2.90
7995 8610 5.712152 GACTGGTGTCATGGAAGAAAAAT 57.288 39.130 0.00 0.00 42.48 1.82
8059 8677 1.897560 AAGAGGCCCTGAAAAACGAG 58.102 50.000 0.00 0.00 0.00 4.18
8060 8678 1.056660 AGAGGCCCTGAAAAACGAGA 58.943 50.000 0.00 0.00 0.00 4.04
8078 8696 2.495669 GAGACAGTTTAGCAGCTCTCCT 59.504 50.000 0.00 0.00 0.00 3.69
8081 8699 2.233431 ACAGTTTAGCAGCTCTCCTCAG 59.767 50.000 0.00 0.00 0.00 3.35
8105 8723 1.538512 CCATCATGGCATCCATCGTTC 59.461 52.381 0.00 0.00 43.15 3.95
8128 8746 0.452987 CCAGGTGATTTGGACGCATG 59.547 55.000 0.00 0.00 37.96 4.06
8153 8771 1.188219 AGCAGGGAGTCGTGTCATGT 61.188 55.000 0.00 0.00 0.00 3.21
8162 8780 3.451526 AGTCGTGTCATGTATGCAGATG 58.548 45.455 0.00 0.00 0.00 2.90
8173 8791 0.395173 ATGCAGATGGAGCACATGCA 60.395 50.000 6.64 10.71 45.95 3.96
8203 8821 0.582005 GACAGAATTGGTATCGCGCC 59.418 55.000 0.00 0.00 0.00 6.53
8250 8868 2.238353 GCAACTCGCTCAGCTGAAA 58.762 52.632 18.85 5.43 37.77 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 9.802039 GAGGGATATTTGTTATTACATGGGTTA 57.198 33.333 0.00 0.00 33.44 2.85
98 99 7.108847 ACCTTGTGATTTTCATCTCTTAGAGG 58.891 38.462 9.58 0.00 0.00 3.69
111 112 4.149598 GGGTCCAAGTACCTTGTGATTTT 58.850 43.478 3.53 0.00 39.58 1.82
127 128 0.186386 ATTTTTGTCCCGTGGGTCCA 59.814 50.000 4.53 0.39 36.47 4.02
134 135 3.252458 GCTTGACACTATTTTTGTCCCGT 59.748 43.478 0.25 0.00 42.40 5.28
161 162 0.960861 GGCCCGTCCTTCCTTTTCTG 60.961 60.000 0.00 0.00 0.00 3.02
165 166 3.246880 ACGGCCCGTCCTTCCTTT 61.247 61.111 1.02 0.00 33.69 3.11
240 241 4.090588 TGGCGTCATCGGAACCCC 62.091 66.667 0.00 0.00 37.56 4.95
246 247 2.880879 CTCGTGTGGCGTCATCGG 60.881 66.667 15.17 5.18 42.13 4.18
257 258 1.139058 GATAGTGGATTGCCCTCGTGT 59.861 52.381 0.00 0.00 35.38 4.49
259 260 0.759346 GGATAGTGGATTGCCCTCGT 59.241 55.000 0.00 0.00 35.38 4.18
262 263 3.569491 CAAATGGATAGTGGATTGCCCT 58.431 45.455 0.00 0.00 35.38 5.19
274 275 3.118261 GCTGGACTCTCACCAAATGGATA 60.118 47.826 6.42 0.00 36.95 2.59
275 276 2.356535 GCTGGACTCTCACCAAATGGAT 60.357 50.000 6.42 0.00 36.95 3.41
279 280 3.087031 CAATGCTGGACTCTCACCAAAT 58.913 45.455 0.00 0.00 36.95 2.32
293 294 1.811266 CTCCGGTCGTCCAATGCTG 60.811 63.158 0.00 0.00 0.00 4.41
299 300 0.896479 TGATTGTCTCCGGTCGTCCA 60.896 55.000 0.00 0.00 0.00 4.02
305 306 0.833287 CCTCCATGATTGTCTCCGGT 59.167 55.000 0.00 0.00 0.00 5.28
320 321 0.674895 GCATATCCATGTCGCCCTCC 60.675 60.000 0.00 0.00 34.40 4.30
321 322 0.322975 AGCATATCCATGTCGCCCTC 59.677 55.000 0.00 0.00 34.40 4.30
322 323 0.322975 GAGCATATCCATGTCGCCCT 59.677 55.000 0.00 0.00 34.40 5.19
323 324 0.322975 AGAGCATATCCATGTCGCCC 59.677 55.000 0.00 0.00 34.40 6.13
338 339 1.599542 AGTGAAAACTTGCGTGAGAGC 59.400 47.619 0.00 0.00 37.71 4.09
344 345 3.840890 TGTTGAAGTGAAAACTTGCGT 57.159 38.095 0.00 0.00 0.00 5.24
361 362 8.138074 GCTTCTTTTCTGGACTCTAAAATTGTT 58.862 33.333 0.00 0.00 0.00 2.83
363 364 7.087007 GGCTTCTTTTCTGGACTCTAAAATTG 58.913 38.462 0.00 0.00 0.00 2.32
413 434 0.252513 TGATTTCCCCGTCCCTCTGA 60.253 55.000 0.00 0.00 0.00 3.27
415 436 0.252742 AGTGATTTCCCCGTCCCTCT 60.253 55.000 0.00 0.00 0.00 3.69
418 439 1.919240 AAAAGTGATTTCCCCGTCCC 58.081 50.000 0.00 0.00 0.00 4.46
438 459 2.961531 TTTGGATCTGGTTTCCCGAA 57.038 45.000 0.00 0.00 31.87 4.30
441 462 1.550524 GGCTTTTGGATCTGGTTTCCC 59.449 52.381 0.00 0.00 31.87 3.97
499 520 1.303282 CAGGGAGGTTGTTAGGGCC 59.697 63.158 0.00 0.00 0.00 5.80
551 572 1.900245 TAGCGAACCCTTTTTCCCAC 58.100 50.000 0.00 0.00 0.00 4.61
552 573 2.660670 TTAGCGAACCCTTTTTCCCA 57.339 45.000 0.00 0.00 0.00 4.37
1198 1443 2.592001 CGATCCCGAGCGAGAGGA 60.592 66.667 0.00 0.00 43.75 3.71
1300 1546 0.320247 AGACAGAACCGAAGCAGCAG 60.320 55.000 0.00 0.00 0.00 4.24
1318 1564 5.980025 ACCAAAACAAAACAAACGAACAAG 58.020 33.333 0.00 0.00 0.00 3.16
1324 1570 7.009723 ACAGCTAATACCAAAACAAAACAAACG 59.990 33.333 0.00 0.00 0.00 3.60
1330 1576 7.206687 CCTCAACAGCTAATACCAAAACAAAA 58.793 34.615 0.00 0.00 0.00 2.44
1409 1655 2.502538 AGCAACCATTCCATTTCCCATG 59.497 45.455 0.00 0.00 0.00 3.66
1478 1724 2.885676 AAGCAAGCACACAGTCGCG 61.886 57.895 0.00 0.00 0.00 5.87
1507 1753 3.150949 CACTCAGACTGCCACCCA 58.849 61.111 0.00 0.00 0.00 4.51
1531 1777 3.499048 ACACGTACTCAATAACAGCTCG 58.501 45.455 0.00 0.00 0.00 5.03
1558 1804 4.929808 CGACTCAGTAAAACCAAGCTATGT 59.070 41.667 0.00 0.00 0.00 2.29
1559 1805 4.929808 ACGACTCAGTAAAACCAAGCTATG 59.070 41.667 0.00 0.00 0.00 2.23
1565 1814 3.872771 GGTCAACGACTCAGTAAAACCAA 59.127 43.478 0.00 0.00 32.47 3.67
1726 1976 8.909671 CACTTACTTAAAACTCCTTACTACACG 58.090 37.037 0.00 0.00 0.00 4.49
1748 1998 8.663167 AGTAAACACCCTAGGTAAATAACACTT 58.337 33.333 8.29 0.00 32.11 3.16
1771 2021 0.323629 GCTTGTACCAGCACCCAGTA 59.676 55.000 13.78 0.00 39.83 2.74
1772 2022 1.073199 GCTTGTACCAGCACCCAGT 59.927 57.895 13.78 0.00 39.83 4.00
1773 2023 0.957395 CAGCTTGTACCAGCACCCAG 60.957 60.000 20.04 2.15 42.84 4.45
1774 2024 1.073025 CAGCTTGTACCAGCACCCA 59.927 57.895 20.04 0.00 42.84 4.51
1777 2027 1.079503 GTAGCAGCTTGTACCAGCAC 58.920 55.000 20.04 11.85 42.84 4.40
1778 2028 0.684535 TGTAGCAGCTTGTACCAGCA 59.315 50.000 20.04 0.00 42.84 4.41
1779 2029 1.734465 CTTGTAGCAGCTTGTACCAGC 59.266 52.381 10.90 10.90 40.44 4.85
1780 2030 1.734465 GCTTGTAGCAGCTTGTACCAG 59.266 52.381 0.00 0.00 41.89 4.00
1781 2031 1.808411 GCTTGTAGCAGCTTGTACCA 58.192 50.000 0.00 0.00 41.89 3.25
1793 2043 6.313658 TCTGCACAGTTAATACATGCTTGTAG 59.686 38.462 16.51 5.91 41.49 2.74
1825 2075 0.524862 AGGCGCTGAAATCTGCAAAG 59.475 50.000 7.64 0.00 40.28 2.77
1895 2145 0.251341 GCTCTTTCTTGGCCCCAGAA 60.251 55.000 9.89 9.89 0.00 3.02
2009 2259 2.482864 TCGTTTTTACGGTTCTCCACC 58.517 47.619 0.00 0.00 43.16 4.61
2066 2316 4.838152 GGAGCTGCCCGCGAATCA 62.838 66.667 8.23 0.55 45.59 2.57
2072 2322 3.512516 GATGTTGGAGCTGCCCGC 61.513 66.667 1.53 0.00 39.57 6.13
2084 2334 2.278245 TCATCCCACCTTCCAGATGTT 58.722 47.619 0.00 0.00 37.84 2.71
2120 2370 1.202580 CGCCTACCTTCATTCCCTGAG 60.203 57.143 0.00 0.00 34.68 3.35
2246 2496 1.002544 AGCAGCCTTACAGGAAGTGTC 59.997 52.381 0.00 0.00 40.94 3.67
2696 2946 6.462347 GCCACTTTAAAAGAAACCATGAAGGA 60.462 38.462 0.00 0.00 41.22 3.36
2785 3035 6.379988 GCCCTTCCTAATATCTTCCAAAACAA 59.620 38.462 0.00 0.00 0.00 2.83
2893 3147 7.386059 TCATGACAGACGGTAATATATGCATT 58.614 34.615 3.54 0.00 0.00 3.56
2910 3166 6.206243 ACAAAGGAACAGAAGAATCATGACAG 59.794 38.462 0.00 0.00 0.00 3.51
2913 3169 6.064060 ACACAAAGGAACAGAAGAATCATGA 58.936 36.000 0.00 0.00 0.00 3.07
2914 3170 6.323203 ACACAAAGGAACAGAAGAATCATG 57.677 37.500 0.00 0.00 0.00 3.07
3065 3321 5.010112 TGCGAACATCCCTTCATTGTAAAAA 59.990 36.000 0.00 0.00 0.00 1.94
3173 3429 5.009610 TGGCTTGACCTCATTAAACTTTGTC 59.990 40.000 0.00 0.00 40.22 3.18
3356 3615 1.768684 GACCCTGCACACCTCCTTGA 61.769 60.000 0.00 0.00 0.00 3.02
3686 3948 2.104967 CCAGTACGGGATTGTACCAGA 58.895 52.381 6.11 0.00 44.60 3.86
3688 3950 1.941377 ACCAGTACGGGATTGTACCA 58.059 50.000 19.63 0.00 44.60 3.25
3861 4131 4.341366 TGTGAGCATTCAGAGTTTCAGA 57.659 40.909 0.00 0.00 32.98 3.27
3862 4132 5.624344 AATGTGAGCATTCAGAGTTTCAG 57.376 39.130 0.00 0.00 41.08 3.02
4053 4338 2.108952 ACCAAGAGGGCTGAGTTCATTT 59.891 45.455 0.00 0.00 42.05 2.32
4161 4446 3.706373 TCCTTGGGAGCTGTCGGC 61.706 66.667 0.00 0.00 42.19 5.54
4256 4541 0.035739 GTCCAGCCGTCCAAGGTTAA 59.964 55.000 0.00 0.00 0.00 2.01
4464 4749 3.836365 TTGATGGACTGTCTGTGTTGA 57.164 42.857 7.85 0.00 0.00 3.18
4903 5188 5.346281 GGTTTGAACGTGAGAGAACATCTAG 59.654 44.000 0.00 0.00 38.84 2.43
5280 5565 3.366052 TCAGGATTTGGTAAAGGAGCC 57.634 47.619 0.00 0.00 0.00 4.70
5710 5995 4.269363 GTCTTTACGTCCAAATGATACCGG 59.731 45.833 0.00 0.00 0.00 5.28
5714 5999 5.687166 AGGGTCTTTACGTCCAAATGATA 57.313 39.130 0.00 0.00 0.00 2.15
6209 6498 5.188555 TGGATGGGCATGCAAAAATAAAGTA 59.811 36.000 21.36 0.00 36.19 2.24
6210 6499 4.019501 TGGATGGGCATGCAAAAATAAAGT 60.020 37.500 21.36 0.00 36.19 2.66
6211 6500 4.515361 TGGATGGGCATGCAAAAATAAAG 58.485 39.130 21.36 0.00 36.19 1.85
6213 6502 4.019501 ACTTGGATGGGCATGCAAAAATAA 60.020 37.500 21.36 6.73 46.03 1.40
6214 6503 3.518705 ACTTGGATGGGCATGCAAAAATA 59.481 39.130 21.36 0.00 46.03 1.40
6215 6504 2.306512 ACTTGGATGGGCATGCAAAAAT 59.693 40.909 21.36 6.69 46.03 1.82
6224 6513 3.718434 AGATATCAGAACTTGGATGGGCA 59.282 43.478 5.32 0.00 0.00 5.36
6225 6514 4.363991 AGATATCAGAACTTGGATGGGC 57.636 45.455 5.32 0.00 0.00 5.36
6337 6626 4.713792 AAATACCTAATGGCCTCTGGAG 57.286 45.455 3.32 0.00 36.63 3.86
6687 6977 4.307443 TGTGACTGCGGATATAAGAGTG 57.693 45.455 0.00 0.00 0.00 3.51
6737 7027 9.905713 TGGTCTTCAGTTAATTCAATTAGCTAT 57.094 29.630 6.22 0.00 35.01 2.97
6767 7350 6.411376 TCCTTTTTACTATCCATCGAAAGCA 58.589 36.000 0.00 0.00 0.00 3.91
6833 7416 5.506317 GCAAGCGGAACATTTGAAGCTATAT 60.506 40.000 0.00 0.00 34.24 0.86
6856 7439 3.936564 AGAATCCTCAAGTCAGAACAGC 58.063 45.455 0.00 0.00 0.00 4.40
6857 7440 6.030548 TGTAGAATCCTCAAGTCAGAACAG 57.969 41.667 0.00 0.00 0.00 3.16
6858 7441 6.419484 TTGTAGAATCCTCAAGTCAGAACA 57.581 37.500 0.00 0.00 0.00 3.18
6859 7442 7.569591 CGTTTTGTAGAATCCTCAAGTCAGAAC 60.570 40.741 0.00 0.00 0.00 3.01
6860 7443 6.423905 CGTTTTGTAGAATCCTCAAGTCAGAA 59.576 38.462 0.00 0.00 0.00 3.02
6861 7444 5.926542 CGTTTTGTAGAATCCTCAAGTCAGA 59.073 40.000 0.00 0.00 0.00 3.27
6915 7503 8.321353 ACAACAAGATTACAATATCAGAGGTCA 58.679 33.333 0.00 0.00 0.00 4.02
7040 7628 1.153369 GGCGTCCTGATTGCTGCTA 60.153 57.895 0.00 0.00 0.00 3.49
7160 7748 6.536582 GCTTTCCTTTCTTTGCTTTCTTCTTT 59.463 34.615 0.00 0.00 0.00 2.52
7205 7793 1.966451 GCTGTGGACCTTGAACCCG 60.966 63.158 0.00 0.00 0.00 5.28
7208 7796 0.668535 GGTTGCTGTGGACCTTGAAC 59.331 55.000 0.00 0.00 33.08 3.18
7256 7844 1.346395 ACCCAAGCATGTTAGTCGTCA 59.654 47.619 0.00 0.00 0.00 4.35
7534 8125 3.539604 AGATGATACTTCCTTGCACTGC 58.460 45.455 0.00 0.00 0.00 4.40
7582 8177 2.846206 ACCTAGGCATGTTCAATCAGGA 59.154 45.455 9.30 0.00 0.00 3.86
7595 8190 6.157994 ACAAGTCATTATAAGGAACCTAGGCA 59.842 38.462 9.30 0.00 0.00 4.75
7602 8197 6.980051 AACCGACAAGTCATTATAAGGAAC 57.020 37.500 0.58 0.00 0.00 3.62
7619 8214 5.810587 TGCTATCTCAAAGATTGTAACCGAC 59.189 40.000 0.00 0.00 36.20 4.79
7629 8224 1.071385 CCGGGCTGCTATCTCAAAGAT 59.929 52.381 0.00 0.00 38.70 2.40
7635 8230 0.321671 TAATGCCGGGCTGCTATCTC 59.678 55.000 21.46 0.00 0.00 2.75
7636 8231 0.987294 ATAATGCCGGGCTGCTATCT 59.013 50.000 21.46 0.00 0.00 1.98
7637 8232 1.373570 GATAATGCCGGGCTGCTATC 58.626 55.000 21.46 17.50 0.00 2.08
7639 8234 1.374947 GGATAATGCCGGGCTGCTA 59.625 57.895 21.46 9.01 0.00 3.49
7640 8235 2.113986 GGATAATGCCGGGCTGCT 59.886 61.111 21.46 6.93 0.00 4.24
7641 8236 2.203337 TGGATAATGCCGGGCTGC 60.203 61.111 21.46 5.51 0.00 5.25
7642 8237 0.886490 GACTGGATAATGCCGGGCTG 60.886 60.000 21.46 2.93 39.40 4.85
7643 8238 1.451936 GACTGGATAATGCCGGGCT 59.548 57.895 21.46 2.87 39.40 5.19
7644 8239 0.685097 TAGACTGGATAATGCCGGGC 59.315 55.000 13.32 13.32 43.13 6.13
7645 8240 2.248248 TCTAGACTGGATAATGCCGGG 58.752 52.381 2.18 0.00 38.69 5.73
7662 8265 3.133542 CCTGAGACTCACATGCCAATCTA 59.866 47.826 0.00 0.00 0.00 1.98
7663 8266 2.093075 CCTGAGACTCACATGCCAATCT 60.093 50.000 0.00 0.00 0.00 2.40
7664 8267 2.093288 TCCTGAGACTCACATGCCAATC 60.093 50.000 0.00 0.00 0.00 2.67
7665 8268 1.911357 TCCTGAGACTCACATGCCAAT 59.089 47.619 0.00 0.00 0.00 3.16
7684 8287 2.329379 CTACAGCTCGACAAACCAGTC 58.671 52.381 0.00 0.00 35.19 3.51
7693 8296 3.182967 CAAATCAGTCCTACAGCTCGAC 58.817 50.000 0.00 0.00 0.00 4.20
7714 8317 4.044426 GTGTTGAAGTTTTGACATCCTGC 58.956 43.478 0.00 0.00 0.00 4.85
7752 8355 5.968528 AAACCTCGGTTTTACATATGCAA 57.031 34.783 8.22 0.00 44.84 4.08
7756 8359 6.996282 CCTCCATAAACCTCGGTTTTACATAT 59.004 38.462 18.23 4.02 44.84 1.78
7757 8360 6.350906 CCTCCATAAACCTCGGTTTTACATA 58.649 40.000 18.23 1.80 44.84 2.29
7758 8361 5.190677 CCTCCATAAACCTCGGTTTTACAT 58.809 41.667 18.23 4.70 44.84 2.29
7759 8362 4.581868 CCTCCATAAACCTCGGTTTTACA 58.418 43.478 18.23 2.50 44.84 2.41
7760 8363 3.376234 GCCTCCATAAACCTCGGTTTTAC 59.624 47.826 18.23 0.00 44.84 2.01
7767 8370 1.207089 TGTCTGCCTCCATAAACCTCG 59.793 52.381 0.00 0.00 0.00 4.63
7772 8375 4.464008 GATTCCATGTCTGCCTCCATAAA 58.536 43.478 0.00 0.00 0.00 1.40
7778 8381 3.845781 TTAGGATTCCATGTCTGCCTC 57.154 47.619 5.29 0.00 0.00 4.70
7781 8384 4.702131 AGTTGTTTAGGATTCCATGTCTGC 59.298 41.667 5.29 0.00 0.00 4.26
7806 8410 5.746990 AGTAACAACAGCCTAATCTGACT 57.253 39.130 0.00 0.00 37.51 3.41
7841 8445 1.297664 TGCACAAACAAGGCAAATGC 58.702 45.000 0.00 0.00 41.14 3.56
7897 8512 8.850452 GCTTGCATTTTAGTTTCACAGTATAAC 58.150 33.333 0.00 0.00 0.00 1.89
7900 8515 7.219484 AGCTTGCATTTTAGTTTCACAGTAT 57.781 32.000 0.00 0.00 0.00 2.12
7902 8517 5.520376 AGCTTGCATTTTAGTTTCACAGT 57.480 34.783 0.00 0.00 0.00 3.55
7905 8520 8.764287 ACAATTTAGCTTGCATTTTAGTTTCAC 58.236 29.630 0.00 0.00 0.00 3.18
7913 8528 6.843069 ACGAAACAATTTAGCTTGCATTTT 57.157 29.167 0.00 0.00 0.00 1.82
7921 8536 7.042254 ACGTAAGAGAAACGAAACAATTTAGCT 60.042 33.333 2.27 0.00 42.90 3.32
7925 8540 5.679792 GCACGTAAGAGAAACGAAACAATTT 59.320 36.000 2.27 0.00 42.90 1.82
7926 8541 5.202640 GCACGTAAGAGAAACGAAACAATT 58.797 37.500 2.27 0.00 42.90 2.32
7927 8542 4.319261 GGCACGTAAGAGAAACGAAACAAT 60.319 41.667 2.27 0.00 42.90 2.71
7928 8543 3.001533 GGCACGTAAGAGAAACGAAACAA 59.998 43.478 2.27 0.00 42.90 2.83
7929 8544 2.540931 GGCACGTAAGAGAAACGAAACA 59.459 45.455 2.27 0.00 42.90 2.83
7930 8545 2.540931 TGGCACGTAAGAGAAACGAAAC 59.459 45.455 2.27 0.00 42.90 2.78
7931 8546 2.823984 TGGCACGTAAGAGAAACGAAA 58.176 42.857 2.27 0.00 42.90 3.46
7932 8547 2.512485 TGGCACGTAAGAGAAACGAA 57.488 45.000 2.27 0.00 42.90 3.85
7933 8548 2.736144 ATGGCACGTAAGAGAAACGA 57.264 45.000 2.27 0.00 42.90 3.85
7934 8549 2.093783 GGAATGGCACGTAAGAGAAACG 59.906 50.000 0.00 0.00 45.64 3.60
7935 8550 3.335579 AGGAATGGCACGTAAGAGAAAC 58.664 45.455 0.00 0.00 43.62 2.78
7936 8551 3.695830 AGGAATGGCACGTAAGAGAAA 57.304 42.857 0.00 0.00 43.62 2.52
7937 8552 3.695830 AAGGAATGGCACGTAAGAGAA 57.304 42.857 0.00 0.00 43.62 2.87
7938 8553 3.007506 TCAAAGGAATGGCACGTAAGAGA 59.992 43.478 0.00 0.00 43.62 3.10
7939 8554 3.334691 TCAAAGGAATGGCACGTAAGAG 58.665 45.455 0.00 0.00 43.62 2.85
7940 8555 3.410631 TCAAAGGAATGGCACGTAAGA 57.589 42.857 0.00 0.00 43.62 2.10
7941 8556 4.155826 TGATTCAAAGGAATGGCACGTAAG 59.844 41.667 0.00 0.00 43.69 2.34
7942 8557 4.075682 TGATTCAAAGGAATGGCACGTAA 58.924 39.130 0.00 0.00 43.69 3.18
7943 8558 3.680490 TGATTCAAAGGAATGGCACGTA 58.320 40.909 0.00 0.00 43.69 3.57
7944 8559 2.489329 CTGATTCAAAGGAATGGCACGT 59.511 45.455 0.00 0.00 43.69 4.49
7945 8560 2.749076 TCTGATTCAAAGGAATGGCACG 59.251 45.455 0.00 0.00 43.69 5.34
7946 8561 4.789012 TTCTGATTCAAAGGAATGGCAC 57.211 40.909 0.00 0.00 43.69 5.01
7947 8562 5.018149 TCATTCTGATTCAAAGGAATGGCA 58.982 37.500 19.16 0.00 43.69 4.92
7948 8563 5.587388 TCATTCTGATTCAAAGGAATGGC 57.413 39.130 19.16 0.00 43.69 4.40
7949 8564 7.705325 GTCATTCATTCTGATTCAAAGGAATGG 59.295 37.037 26.33 17.70 46.09 3.16
8059 8677 2.232452 TGAGGAGAGCTGCTAAACTGTC 59.768 50.000 0.15 0.00 0.00 3.51
8060 8678 2.233431 CTGAGGAGAGCTGCTAAACTGT 59.767 50.000 0.15 0.00 0.00 3.55
8078 8696 0.475475 GATGCCATGATGGGGTCTGA 59.525 55.000 14.26 0.00 38.19 3.27
8081 8699 0.113776 ATGGATGCCATGATGGGGTC 59.886 55.000 14.26 0.00 43.39 4.46
8105 8723 0.392998 CGTCCAAATCACCTGGGGAG 60.393 60.000 4.33 0.00 34.46 4.30
8128 8746 2.125753 CGACTCCCTGCTGAGCAC 60.126 66.667 1.40 0.00 35.72 4.40
8153 8771 1.134037 TGCATGTGCTCCATCTGCATA 60.134 47.619 6.55 0.00 42.69 3.14
8162 8780 1.518572 GCTTGCATGCATGTGCTCC 60.519 57.895 28.20 11.08 45.27 4.70
8173 8791 0.323725 AATTCTGTCCCGGCTTGCAT 60.324 50.000 0.00 0.00 0.00 3.96
8203 8821 2.677836 CAATGTAGGACATGTGGGAACG 59.322 50.000 1.15 0.00 37.97 3.95
8215 8833 5.488341 GAGTTGCTAGTTTCCAATGTAGGA 58.512 41.667 0.00 0.00 35.41 2.94
8244 8862 1.725973 GCCGTTTCTGCGTTTCAGC 60.726 57.895 0.00 0.00 42.56 4.26


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

AutoCloner maintained by Alex Coulton.