Multiple sequence alignment - TraesCS7B01G432600

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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 TraesCS7B01G432600 chr7B 100.000 2120 0 0 1 2120 700439005 700441124 0.000000e+00 3916.0
1 TraesCS7B01G432600 chr7B 77.014 509 54 33 852 1333 700551314 700551786 1.260000e-57 233.0
2 TraesCS7B01G432600 chr7B 82.222 225 11 8 97 294 700548194 700548416 1.300000e-37 167.0
3 TraesCS7B01G432600 chr7B 91.667 96 8 0 1 96 219660532 219660437 1.320000e-27 134.0
4 TraesCS7B01G432600 chr7A 82.993 1029 68 48 379 1379 701360040 701360989 0.000000e+00 832.0
5 TraesCS7B01G432600 chr7A 80.376 372 33 20 862 1206 701391224 701391582 1.620000e-61 246.0
6 TraesCS7B01G432600 chr7A 76.064 376 44 24 475 829 701390876 701391226 1.010000e-33 154.0
7 TraesCS7B01G432600 chr7A 76.636 214 20 9 176 384 701358924 701359112 8.060000e-15 91.6
8 TraesCS7B01G432600 chr7D 83.509 758 65 32 750 1496 611294340 611295048 0.000000e+00 652.0
9 TraesCS7B01G432600 chr7D 90.093 323 13 9 379 698 611294026 611294332 3.280000e-108 401.0
10 TraesCS7B01G432600 chr7D 81.594 527 52 22 1603 2120 611295290 611295780 5.480000e-106 394.0
11 TraesCS7B01G432600 chr7D 87.838 296 19 8 91 384 611293395 611293675 4.360000e-87 331.0
12 TraesCS7B01G432600 chr7D 78.061 392 45 25 455 825 611330798 611331169 2.130000e-50 209.0
13 TraesCS7B01G432600 chr7D 87.730 163 20 0 970 1132 611331803 611331965 7.720000e-45 191.0
14 TraesCS7B01G432600 chr4A 94.505 91 5 0 1 91 655658918 655659008 7.890000e-30 141.0
15 TraesCS7B01G432600 chr2B 94.505 91 5 0 1 91 71584892 71584802 7.890000e-30 141.0
16 TraesCS7B01G432600 chr1B 94.505 91 5 0 1 91 664979851 664979941 7.890000e-30 141.0
17 TraesCS7B01G432600 chr1B 93.407 91 6 0 1 91 679436918 679436828 3.670000e-28 135.0
18 TraesCS7B01G432600 chr1B 84.615 78 8 4 1026 1101 623317837 623317912 8.110000e-10 75.0
19 TraesCS7B01G432600 chr5B 92.784 97 6 1 1 97 121535333 121535428 2.840000e-29 139.0
20 TraesCS7B01G432600 chr2A 91.176 102 9 0 1 102 617822637 617822738 2.840000e-29 139.0
21 TraesCS7B01G432600 chr6B 93.407 91 6 0 1 91 114119625 114119535 3.670000e-28 135.0
22 TraesCS7B01G432600 chr4B 92.473 93 7 0 1 93 645295078 645294986 1.320000e-27 134.0
23 TraesCS7B01G432600 chr1D 84.706 85 7 6 1026 1106 452762545 452762463 1.740000e-11 80.5
24 TraesCS7B01G432600 chr1D 92.727 55 2 2 1054 1106 452858223 452858169 6.270000e-11 78.7
25 TraesCS7B01G432600 chr1A 83.529 85 8 6 1026 1106 547592022 547591940 8.110000e-10 75.0


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 TraesCS7B01G432600 chr7B 700439005 700441124 2119 False 3916.0 3916 100.0000 1 2120 1 chr7B.!!$F1 2119
1 TraesCS7B01G432600 chr7A 701358924 701360989 2065 False 461.8 832 79.8145 176 1379 2 chr7A.!!$F1 1203
2 TraesCS7B01G432600 chr7D 611293395 611295780 2385 False 444.5 652 85.7585 91 2120 4 chr7D.!!$F1 2029

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
55 56 0.035247 TTTATCCCAAACGGACGGGG 60.035 55.0 5.56 1.79 46.09 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1335 2311 0.106708 GACACACTTGCCTGGACTGA 59.893 55.0 0.0 0.0 0.0 3.41 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
29 30 2.358737 CGCTGGGCCGTCTCTTTT 60.359 61.111 0.00 0.00 0.00 2.27
30 31 2.680913 CGCTGGGCCGTCTCTTTTG 61.681 63.158 0.00 0.00 0.00 2.44
31 32 1.600916 GCTGGGCCGTCTCTTTTGT 60.601 57.895 0.00 0.00 0.00 2.83
32 33 1.578206 GCTGGGCCGTCTCTTTTGTC 61.578 60.000 0.00 0.00 0.00 3.18
33 34 0.955919 CTGGGCCGTCTCTTTTGTCC 60.956 60.000 0.00 0.00 0.00 4.02
34 35 1.375326 GGGCCGTCTCTTTTGTCCT 59.625 57.895 0.00 0.00 0.00 3.85
35 36 0.250770 GGGCCGTCTCTTTTGTCCTT 60.251 55.000 0.00 0.00 0.00 3.36
36 37 1.605753 GGCCGTCTCTTTTGTCCTTT 58.394 50.000 0.00 0.00 0.00 3.11
37 38 1.954382 GGCCGTCTCTTTTGTCCTTTT 59.046 47.619 0.00 0.00 0.00 2.27
38 39 2.361119 GGCCGTCTCTTTTGTCCTTTTT 59.639 45.455 0.00 0.00 0.00 1.94
39 40 3.566742 GGCCGTCTCTTTTGTCCTTTTTA 59.433 43.478 0.00 0.00 0.00 1.52
40 41 4.217767 GGCCGTCTCTTTTGTCCTTTTTAT 59.782 41.667 0.00 0.00 0.00 1.40
41 42 5.391449 GCCGTCTCTTTTGTCCTTTTTATC 58.609 41.667 0.00 0.00 0.00 1.75
42 43 5.619309 GCCGTCTCTTTTGTCCTTTTTATCC 60.619 44.000 0.00 0.00 0.00 2.59
43 44 5.106277 CCGTCTCTTTTGTCCTTTTTATCCC 60.106 44.000 0.00 0.00 0.00 3.85
44 45 5.472137 CGTCTCTTTTGTCCTTTTTATCCCA 59.528 40.000 0.00 0.00 0.00 4.37
45 46 6.016610 CGTCTCTTTTGTCCTTTTTATCCCAA 60.017 38.462 0.00 0.00 0.00 4.12
46 47 7.469456 CGTCTCTTTTGTCCTTTTTATCCCAAA 60.469 37.037 0.00 0.00 0.00 3.28
47 48 7.652105 GTCTCTTTTGTCCTTTTTATCCCAAAC 59.348 37.037 0.00 0.00 0.00 2.93
48 49 6.508777 TCTTTTGTCCTTTTTATCCCAAACG 58.491 36.000 0.00 0.00 0.00 3.60
49 50 4.857509 TTGTCCTTTTTATCCCAAACGG 57.142 40.909 0.00 0.00 0.00 4.44
51 52 4.430137 GTCCTTTTTATCCCAAACGGAC 57.570 45.455 6.19 6.19 46.09 4.79
52 53 3.075884 TCCTTTTTATCCCAAACGGACG 58.924 45.455 0.00 0.00 46.09 4.79
53 54 2.162809 CCTTTTTATCCCAAACGGACGG 59.837 50.000 0.00 0.00 46.09 4.79
54 55 1.823797 TTTTATCCCAAACGGACGGG 58.176 50.000 0.00 0.00 46.09 5.28
55 56 0.035247 TTTATCCCAAACGGACGGGG 60.035 55.000 5.56 1.79 46.09 5.73
56 57 1.912826 TTATCCCAAACGGACGGGGG 61.913 60.000 10.78 10.78 46.09 5.40
72 73 3.942439 GGCGGGCAGGATAGGGTC 61.942 72.222 0.00 0.00 0.00 4.46
73 74 3.161450 GCGGGCAGGATAGGGTCA 61.161 66.667 0.00 0.00 0.00 4.02
74 75 2.822399 CGGGCAGGATAGGGTCAC 59.178 66.667 0.00 0.00 0.00 3.67
75 76 2.822399 GGGCAGGATAGGGTCACG 59.178 66.667 0.00 0.00 0.00 4.35
76 77 2.109181 GGCAGGATAGGGTCACGC 59.891 66.667 0.00 0.00 0.00 5.34
77 78 2.279517 GCAGGATAGGGTCACGCG 60.280 66.667 3.53 3.53 0.00 6.01
78 79 2.417516 CAGGATAGGGTCACGCGG 59.582 66.667 12.47 0.00 0.00 6.46
79 80 2.043248 AGGATAGGGTCACGCGGT 60.043 61.111 12.47 0.00 0.00 5.68
80 81 2.106332 GGATAGGGTCACGCGGTG 59.894 66.667 12.47 6.71 34.45 4.94
81 82 2.420568 GGATAGGGTCACGCGGTGA 61.421 63.158 12.47 9.29 40.50 4.02
82 83 1.514087 GATAGGGTCACGCGGTGAA 59.486 57.895 12.47 0.00 44.49 3.18
83 84 0.527817 GATAGGGTCACGCGGTGAAG 60.528 60.000 12.47 0.00 44.49 3.02
84 85 1.255667 ATAGGGTCACGCGGTGAAGT 61.256 55.000 12.47 2.98 44.49 3.01
85 86 1.466025 TAGGGTCACGCGGTGAAGTT 61.466 55.000 12.47 3.66 44.49 2.66
86 87 2.604174 GGGTCACGCGGTGAAGTTG 61.604 63.158 12.47 0.00 44.49 3.16
87 88 2.604174 GGTCACGCGGTGAAGTTGG 61.604 63.158 12.47 0.00 44.49 3.77
88 89 2.970324 TCACGCGGTGAAGTTGGC 60.970 61.111 12.47 0.00 39.78 4.52
89 90 4.025401 CACGCGGTGAAGTTGGCC 62.025 66.667 12.47 0.00 35.23 5.36
96 97 2.671070 GCGGTGAAGTTGGCCTTAAATG 60.671 50.000 3.32 0.00 32.03 2.32
98 99 2.595386 GTGAAGTTGGCCTTAAATGCG 58.405 47.619 3.32 0.00 32.03 4.73
151 152 2.878406 CGGACTGTTGACTGGAATTGTT 59.122 45.455 0.00 0.00 0.00 2.83
153 154 4.554723 CGGACTGTTGACTGGAATTGTTTC 60.555 45.833 0.00 0.00 0.00 2.78
165 166 6.833933 ACTGGAATTGTTTCTAGGAAAACAGT 59.166 34.615 9.06 5.01 46.56 3.55
166 167 7.013369 ACTGGAATTGTTTCTAGGAAAACAGTC 59.987 37.037 9.06 10.15 46.56 3.51
167 168 6.831353 TGGAATTGTTTCTAGGAAAACAGTCA 59.169 34.615 16.37 9.77 46.56 3.41
168 169 7.505585 TGGAATTGTTTCTAGGAAAACAGTCAT 59.494 33.333 16.37 6.24 46.56 3.06
169 170 7.809806 GGAATTGTTTCTAGGAAAACAGTCATG 59.190 37.037 16.37 0.00 46.56 3.07
170 171 6.633500 TTGTTTCTAGGAAAACAGTCATGG 57.367 37.500 9.06 0.00 46.56 3.66
171 172 5.935945 TGTTTCTAGGAAAACAGTCATGGA 58.064 37.500 5.81 0.00 42.58 3.41
172 173 6.361433 TGTTTCTAGGAAAACAGTCATGGAA 58.639 36.000 5.81 0.00 42.58 3.53
173 174 6.486657 TGTTTCTAGGAAAACAGTCATGGAAG 59.513 38.462 5.81 0.00 42.58 3.46
174 175 5.825593 TCTAGGAAAACAGTCATGGAAGT 57.174 39.130 0.00 0.00 0.00 3.01
189 190 2.847441 GGAAGTAATCCCCCAATCGAC 58.153 52.381 0.00 0.00 43.00 4.20
195 196 1.200519 ATCCCCCAATCGACGAAAGA 58.799 50.000 0.00 0.00 0.00 2.52
198 199 1.737793 CCCCCAATCGACGAAAGAAAG 59.262 52.381 0.00 0.00 0.00 2.62
199 200 2.614481 CCCCCAATCGACGAAAGAAAGA 60.614 50.000 0.00 0.00 0.00 2.52
200 201 2.415512 CCCCAATCGACGAAAGAAAGAC 59.584 50.000 0.00 0.00 0.00 3.01
201 202 2.092211 CCCAATCGACGAAAGAAAGACG 59.908 50.000 0.00 0.00 0.00 4.18
203 204 2.984471 CAATCGACGAAAGAAAGACGGA 59.016 45.455 0.00 0.00 0.00 4.69
205 206 1.334556 TCGACGAAAGAAAGACGGACA 59.665 47.619 0.00 0.00 0.00 4.02
209 210 1.714460 CGAAAGAAAGACGGACACTCG 59.286 52.381 0.00 0.00 0.00 4.18
210 211 2.740452 GAAAGAAAGACGGACACTCGT 58.260 47.619 0.00 0.00 46.83 4.18
329 335 7.064134 CGTTAACATCTGCTACCTCAATAAACA 59.936 37.037 6.39 0.00 0.00 2.83
330 336 8.893727 GTTAACATCTGCTACCTCAATAAACAT 58.106 33.333 0.00 0.00 0.00 2.71
344 350 9.352784 CCTCAATAAACATAGAGAGAATCGATC 57.647 37.037 0.00 0.00 42.67 3.69
356 362 2.110226 GAATCGATCGACTGTCCGAAC 58.890 52.381 22.06 5.99 42.22 3.95
443 1387 1.203523 CTGTCCTGTCCTCTACTGCAC 59.796 57.143 0.00 0.00 0.00 4.57
706 1669 7.094890 CCGCATTATCAATTGCTATCTTCTTCT 60.095 37.037 0.00 0.00 0.00 2.85
712 1675 8.674263 ATCAATTGCTATCTTCTTCTACCTTG 57.326 34.615 0.00 0.00 0.00 3.61
713 1676 6.540189 TCAATTGCTATCTTCTTCTACCTTGC 59.460 38.462 0.00 0.00 0.00 4.01
723 1686 2.856760 TCTACCTTGCTCCATCTCCT 57.143 50.000 0.00 0.00 0.00 3.69
733 1696 2.679349 GCTCCATCTCCTTCACCTTCAC 60.679 54.545 0.00 0.00 0.00 3.18
737 1700 0.840722 TCTCCTTCACCTTCACCCCC 60.841 60.000 0.00 0.00 0.00 5.40
738 1701 2.185310 CTCCTTCACCTTCACCCCCG 62.185 65.000 0.00 0.00 0.00 5.73
742 1705 0.912487 TTCACCTTCACCCCCGCTAT 60.912 55.000 0.00 0.00 0.00 2.97
743 1706 1.146263 CACCTTCACCCCCGCTATC 59.854 63.158 0.00 0.00 0.00 2.08
747 1710 2.666596 CTTCACCCCCGCTATCAGCC 62.667 65.000 0.00 0.00 38.18 4.85
748 1711 3.479203 CACCCCCGCTATCAGCCA 61.479 66.667 0.00 0.00 38.18 4.75
756 1719 1.497223 CGCTATCAGCCAGCTCTTGC 61.497 60.000 0.00 0.00 38.18 4.01
765 1728 3.317571 AGCTCTTGCGTGCCCTCT 61.318 61.111 0.00 0.00 45.42 3.69
780 1743 2.178580 CCCTCTGGATCTGGATCTAGC 58.821 57.143 15.92 0.31 43.52 3.42
781 1744 2.225343 CCCTCTGGATCTGGATCTAGCT 60.225 54.545 15.92 0.00 43.52 3.32
782 1745 3.091545 CCTCTGGATCTGGATCTAGCTC 58.908 54.545 15.92 0.95 43.52 4.09
783 1746 2.749076 CTCTGGATCTGGATCTAGCTCG 59.251 54.545 15.92 6.33 43.52 5.03
784 1747 1.202114 CTGGATCTGGATCTAGCTCGC 59.798 57.143 10.21 0.00 39.10 5.03
785 1748 0.530288 GGATCTGGATCTAGCTCGCC 59.470 60.000 0.23 0.00 37.92 5.54
786 1749 0.530288 GATCTGGATCTAGCTCGCCC 59.470 60.000 0.23 0.00 35.04 6.13
787 1750 0.902516 ATCTGGATCTAGCTCGCCCC 60.903 60.000 0.23 0.00 0.00 5.80
821 1784 3.387050 GTCCCTATATATAAGCCCACCCG 59.613 52.174 0.00 0.00 0.00 5.28
822 1785 3.013188 TCCCTATATATAAGCCCACCCGT 59.987 47.826 0.00 0.00 0.00 5.28
823 1786 3.778629 CCCTATATATAAGCCCACCCGTT 59.221 47.826 0.00 0.00 0.00 4.44
824 1787 4.383770 CCCTATATATAAGCCCACCCGTTG 60.384 50.000 0.00 0.00 0.00 4.10
852 1815 3.403624 TGAGCCATCACCACTCCC 58.596 61.111 0.00 0.00 0.00 4.30
853 1816 2.300967 TGAGCCATCACCACTCCCC 61.301 63.158 0.00 0.00 0.00 4.81
854 1817 2.204136 AGCCATCACCACTCCCCA 60.204 61.111 0.00 0.00 0.00 4.96
857 1820 1.300963 CCATCACCACTCCCCACTG 59.699 63.158 0.00 0.00 0.00 3.66
858 1821 1.377725 CATCACCACTCCCCACTGC 60.378 63.158 0.00 0.00 0.00 4.40
859 1822 2.606587 ATCACCACTCCCCACTGCC 61.607 63.158 0.00 0.00 0.00 4.85
862 1825 2.084930 ACCACTCCCCACTGCCTTT 61.085 57.895 0.00 0.00 0.00 3.11
883 1846 3.790091 TGCCGAGAAGAAGAGATCATTG 58.210 45.455 0.00 0.00 0.00 2.82
903 1866 1.153939 CCAGAGCGAGAGTTCACCG 60.154 63.158 0.00 0.00 44.48 4.94
915 1878 1.741145 AGTTCACCGTTCAACAACACC 59.259 47.619 0.00 0.00 32.14 4.16
935 1898 0.593128 CCTTCACCAAACCTTGCTCG 59.407 55.000 0.00 0.00 0.00 5.03
963 1926 2.994387 GATCATCCATCGCCACGCCA 62.994 60.000 0.00 0.00 0.00 5.69
965 1928 4.094646 ATCCATCGCCACGCCACA 62.095 61.111 0.00 0.00 0.00 4.17
977 1940 2.574018 CGCCACACACAGGGAGAGA 61.574 63.158 0.00 0.00 0.00 3.10
984 1947 1.247419 ACACAGGGAGAGAGAGTGCG 61.247 60.000 0.00 0.00 33.69 5.34
985 1948 1.075836 ACAGGGAGAGAGAGTGCGT 59.924 57.895 0.00 0.00 0.00 5.24
1008 1971 4.993584 TGTGTTGAAGAGAAGATGAAGCTC 59.006 41.667 0.00 0.00 0.00 4.09
1009 1972 4.091220 GTGTTGAAGAGAAGATGAAGCTCG 59.909 45.833 0.00 0.00 33.98 5.03
1043 2009 0.977108 AGAGGAGGAGGCTTGAGCAG 60.977 60.000 5.24 0.00 44.36 4.24
1178 2146 6.377327 TTGAAGCGAAGATTTCTTTTCTGT 57.623 33.333 0.00 0.00 34.67 3.41
1179 2147 6.377327 TGAAGCGAAGATTTCTTTTCTGTT 57.623 33.333 0.00 0.00 34.67 3.16
1205 2173 1.398390 GATCTGTGATTCGGTTGTGCC 59.602 52.381 0.00 0.00 0.00 5.01
1249 2217 1.426041 CCGGCGCAGGTTGTACATAC 61.426 60.000 19.30 0.00 0.00 2.39
1254 2222 2.858344 GCGCAGGTTGTACATACTACAG 59.142 50.000 0.30 0.00 34.38 2.74
1261 2229 5.657302 AGGTTGTACATACTACAGAAGAGGG 59.343 44.000 0.00 0.00 34.38 4.30
1275 2243 6.292150 ACAGAAGAGGGCAGTTAATTATAGC 58.708 40.000 0.00 0.00 0.00 2.97
1311 2287 8.830741 AGCAAAGCAATAGGATTAGGATATACT 58.169 33.333 0.00 0.00 0.00 2.12
1312 2288 9.454859 GCAAAGCAATAGGATTAGGATATACTT 57.545 33.333 0.00 0.00 0.00 2.24
1333 2309 3.194005 AGTGTTCGTTGATTCACCACT 57.806 42.857 0.00 0.00 0.00 4.00
1335 2311 3.945285 AGTGTTCGTTGATTCACCACTTT 59.055 39.130 0.00 0.00 0.00 2.66
1342 2318 3.855255 TGATTCACCACTTTCAGTCCA 57.145 42.857 0.00 0.00 0.00 4.02
1343 2319 3.743521 TGATTCACCACTTTCAGTCCAG 58.256 45.455 0.00 0.00 0.00 3.86
1356 2332 1.600916 GTCCAGGCAAGTGTGTCCC 60.601 63.158 0.00 0.00 0.00 4.46
1357 2333 2.075566 TCCAGGCAAGTGTGTCCCA 61.076 57.895 0.00 0.00 0.00 4.37
1358 2334 1.601759 CCAGGCAAGTGTGTCCCAG 60.602 63.158 0.00 0.00 0.00 4.45
1363 2339 0.675633 GCAAGTGTGTCCCAGCATTT 59.324 50.000 0.00 0.00 0.00 2.32
1380 2356 6.097356 CAGCATTTTACTGTTCTTGCATCAT 58.903 36.000 0.00 0.00 32.66 2.45
1383 2359 6.366877 GCATTTTACTGTTCTTGCATCATTGT 59.633 34.615 0.00 0.00 0.00 2.71
1385 2361 9.069078 CATTTTACTGTTCTTGCATCATTGTAG 57.931 33.333 0.00 0.00 0.00 2.74
1387 2363 7.601073 TTACTGTTCTTGCATCATTGTAGAG 57.399 36.000 0.00 0.00 0.00 2.43
1388 2364 4.394300 ACTGTTCTTGCATCATTGTAGAGC 59.606 41.667 0.00 0.00 0.00 4.09
1390 2366 4.154737 TGTTCTTGCATCATTGTAGAGCAC 59.845 41.667 0.00 0.00 34.56 4.40
1391 2367 4.212143 TCTTGCATCATTGTAGAGCACT 57.788 40.909 0.00 0.00 34.56 4.40
1392 2368 3.937079 TCTTGCATCATTGTAGAGCACTG 59.063 43.478 0.00 0.00 34.56 3.66
1393 2369 2.635714 TGCATCATTGTAGAGCACTGG 58.364 47.619 0.00 0.00 0.00 4.00
1394 2370 2.236893 TGCATCATTGTAGAGCACTGGA 59.763 45.455 0.00 0.00 0.00 3.86
1396 2372 3.464907 CATCATTGTAGAGCACTGGAGG 58.535 50.000 0.00 0.00 0.00 4.30
1398 2374 3.173151 TCATTGTAGAGCACTGGAGGAA 58.827 45.455 0.00 0.00 0.00 3.36
1399 2375 3.776969 TCATTGTAGAGCACTGGAGGAAT 59.223 43.478 0.00 0.00 0.00 3.01
1403 2381 1.661463 AGAGCACTGGAGGAATCCAA 58.339 50.000 0.61 0.00 39.61 3.53
1416 2394 4.607239 AGGAATCCAACATCAGCTGAAAT 58.393 39.130 22.50 9.03 0.00 2.17
1417 2395 5.021458 AGGAATCCAACATCAGCTGAAATT 58.979 37.500 22.50 14.96 0.00 1.82
1418 2396 6.189859 AGGAATCCAACATCAGCTGAAATTA 58.810 36.000 22.50 4.92 0.00 1.40
1420 2398 6.976925 GGAATCCAACATCAGCTGAAATTAAG 59.023 38.462 22.50 12.17 0.00 1.85
1421 2399 7.148018 GGAATCCAACATCAGCTGAAATTAAGA 60.148 37.037 22.50 16.48 0.00 2.10
1422 2400 6.748333 TCCAACATCAGCTGAAATTAAGAG 57.252 37.500 22.50 6.03 0.00 2.85
1423 2401 6.475504 TCCAACATCAGCTGAAATTAAGAGA 58.524 36.000 22.50 7.63 0.00 3.10
1425 2403 7.120285 TCCAACATCAGCTGAAATTAAGAGAAG 59.880 37.037 22.50 4.36 0.00 2.85
1426 2404 7.094463 CCAACATCAGCTGAAATTAAGAGAAGT 60.094 37.037 22.50 0.00 0.00 3.01
1441 2419 8.582657 TTAAGAGAAGTGATACTGTTCTAGCT 57.417 34.615 0.00 0.00 30.55 3.32
1442 2420 6.693315 AGAGAAGTGATACTGTTCTAGCTC 57.307 41.667 0.00 0.00 30.55 4.09
1443 2421 5.295787 AGAGAAGTGATACTGTTCTAGCTCG 59.704 44.000 0.00 0.00 30.55 5.03
1444 2422 5.186942 AGAAGTGATACTGTTCTAGCTCGA 58.813 41.667 0.00 0.00 0.00 4.04
1462 2440 1.144969 GATCGGTGTTTCTTGCACGA 58.855 50.000 0.00 0.00 37.70 4.35
1463 2441 1.126846 GATCGGTGTTTCTTGCACGAG 59.873 52.381 0.00 0.00 37.70 4.18
1464 2442 0.179094 TCGGTGTTTCTTGCACGAGT 60.179 50.000 0.00 0.00 37.70 4.18
1465 2443 0.232303 CGGTGTTTCTTGCACGAGTC 59.768 55.000 0.00 0.00 37.70 3.36
1466 2444 0.586802 GGTGTTTCTTGCACGAGTCC 59.413 55.000 0.00 0.00 37.70 3.85
1507 2485 4.386711 AGTTCCAACTGCTGTTACTAACC 58.613 43.478 8.79 0.00 37.98 2.85
1508 2486 4.131596 GTTCCAACTGCTGTTACTAACCA 58.868 43.478 8.79 0.00 34.60 3.67
1509 2487 3.735591 TCCAACTGCTGTTACTAACCAC 58.264 45.455 8.79 0.00 34.60 4.16
1510 2488 2.812011 CCAACTGCTGTTACTAACCACC 59.188 50.000 8.79 0.00 34.60 4.61
1511 2489 3.472652 CAACTGCTGTTACTAACCACCA 58.527 45.455 8.79 0.00 34.60 4.17
1512 2490 3.402628 ACTGCTGTTACTAACCACCAG 57.597 47.619 0.00 3.62 0.00 4.00
1515 2493 2.289444 TGCTGTTACTAACCACCAGAGC 60.289 50.000 0.00 0.00 0.00 4.09
1516 2494 2.935676 GCTGTTACTAACCACCAGAGCC 60.936 54.545 0.00 0.00 0.00 4.70
1519 2497 3.767673 TGTTACTAACCACCAGAGCCTAG 59.232 47.826 0.00 0.00 0.00 3.02
1520 2498 1.196012 ACTAACCACCAGAGCCTAGC 58.804 55.000 0.00 0.00 0.00 3.42
1521 2499 0.466124 CTAACCACCAGAGCCTAGCC 59.534 60.000 0.00 0.00 0.00 3.93
1523 2501 4.537433 CCACCAGAGCCTAGCCGC 62.537 72.222 0.00 0.00 0.00 6.53
1524 2502 4.537433 CACCAGAGCCTAGCCGCC 62.537 72.222 0.00 0.00 0.00 6.13
1526 2504 4.537433 CCAGAGCCTAGCCGCCAC 62.537 72.222 0.00 0.00 0.00 5.01
1541 2519 4.129737 CACCGTCCGACGCTGGAT 62.130 66.667 15.64 0.00 40.91 3.41
1542 2520 3.379445 ACCGTCCGACGCTGGATT 61.379 61.111 15.64 0.00 40.91 3.01
1544 2522 2.949678 CGTCCGACGCTGGATTCG 60.950 66.667 8.21 0.00 40.91 3.34
1545 2523 3.255379 GTCCGACGCTGGATTCGC 61.255 66.667 0.00 0.00 40.91 4.70
1546 2524 4.508128 TCCGACGCTGGATTCGCC 62.508 66.667 0.00 0.00 33.78 5.54
1592 2720 3.009115 CAAGGAGAGGGGGCCGAA 61.009 66.667 0.00 0.00 0.00 4.30
1593 2721 2.689034 AAGGAGAGGGGGCCGAAG 60.689 66.667 0.00 0.00 0.00 3.79
1594 2722 3.254035 AAGGAGAGGGGGCCGAAGA 62.254 63.158 0.00 0.00 0.00 2.87
1595 2723 3.471806 GGAGAGGGGGCCGAAGAC 61.472 72.222 0.00 0.00 0.00 3.01
1596 2724 3.471806 GAGAGGGGGCCGAAGACC 61.472 72.222 0.00 0.00 0.00 3.85
1597 2725 4.332543 AGAGGGGGCCGAAGACCA 62.333 66.667 0.00 0.00 0.00 4.02
1598 2726 3.327404 GAGGGGGCCGAAGACCAA 61.327 66.667 0.00 0.00 0.00 3.67
1599 2727 3.330720 AGGGGGCCGAAGACCAAG 61.331 66.667 0.00 0.00 0.00 3.61
1600 2728 3.647771 GGGGGCCGAAGACCAAGT 61.648 66.667 0.00 0.00 0.00 3.16
1601 2729 2.046217 GGGGCCGAAGACCAAGTC 60.046 66.667 0.00 0.00 0.00 3.01
1602 2730 2.434359 GGGCCGAAGACCAAGTCG 60.434 66.667 0.00 0.00 37.67 4.18
1603 2731 3.119096 GGCCGAAGACCAAGTCGC 61.119 66.667 0.00 0.00 37.67 5.19
1604 2732 3.119096 GCCGAAGACCAAGTCGCC 61.119 66.667 0.00 0.00 37.67 5.54
1605 2733 2.342279 CCGAAGACCAAGTCGCCA 59.658 61.111 0.00 0.00 37.67 5.69
1619 2747 1.216710 CGCCAGAGAGGAGAACCAC 59.783 63.158 0.00 0.00 40.01 4.16
1667 2795 3.073735 CAGCCAGCCTCCTCGACT 61.074 66.667 0.00 0.00 0.00 4.18
1668 2796 2.284258 AGCCAGCCTCCTCGACTT 60.284 61.111 0.00 0.00 0.00 3.01
1669 2797 2.185608 GCCAGCCTCCTCGACTTC 59.814 66.667 0.00 0.00 0.00 3.01
1671 2799 2.492090 CAGCCTCCTCGACTTCGG 59.508 66.667 0.00 0.00 40.29 4.30
1672 2800 2.035940 AGCCTCCTCGACTTCGGT 59.964 61.111 0.00 0.00 40.29 4.69
1673 2801 2.047443 AGCCTCCTCGACTTCGGTC 61.047 63.158 0.00 0.00 41.27 4.79
1683 2811 1.926511 GACTTCGGTCGGCGTCCTAA 61.927 60.000 20.24 14.69 35.10 2.69
1698 2826 0.761187 CCTAATCTAGCAGCCTGGCA 59.239 55.000 22.65 0.00 35.83 4.92
1710 2842 1.344191 GCCTGGCATTCTCCTCTCCT 61.344 60.000 15.17 0.00 0.00 3.69
1712 2844 2.618794 CCTGGCATTCTCCTCTCCTAT 58.381 52.381 0.00 0.00 0.00 2.57
1713 2845 3.784178 CCTGGCATTCTCCTCTCCTATA 58.216 50.000 0.00 0.00 0.00 1.31
1714 2846 4.163427 CCTGGCATTCTCCTCTCCTATAA 58.837 47.826 0.00 0.00 0.00 0.98
1715 2847 4.782156 CCTGGCATTCTCCTCTCCTATAAT 59.218 45.833 0.00 0.00 0.00 1.28
1716 2848 5.104982 CCTGGCATTCTCCTCTCCTATAATC 60.105 48.000 0.00 0.00 0.00 1.75
1717 2849 5.659503 TGGCATTCTCCTCTCCTATAATCT 58.340 41.667 0.00 0.00 0.00 2.40
1718 2850 6.805150 TGGCATTCTCCTCTCCTATAATCTA 58.195 40.000 0.00 0.00 0.00 1.98
1719 2851 6.894654 TGGCATTCTCCTCTCCTATAATCTAG 59.105 42.308 0.00 0.00 0.00 2.43
1720 2852 6.183360 GGCATTCTCCTCTCCTATAATCTAGC 60.183 46.154 0.00 0.00 0.00 3.42
1721 2853 6.459573 GCATTCTCCTCTCCTATAATCTAGCG 60.460 46.154 0.00 0.00 0.00 4.26
1722 2854 5.765576 TCTCCTCTCCTATAATCTAGCGT 57.234 43.478 0.00 0.00 0.00 5.07
1723 2855 5.736813 TCTCCTCTCCTATAATCTAGCGTC 58.263 45.833 0.00 0.00 0.00 5.19
1724 2856 4.846040 TCCTCTCCTATAATCTAGCGTCC 58.154 47.826 0.00 0.00 0.00 4.79
1733 2865 6.600032 CCTATAATCTAGCGTCCTATGTCAGT 59.400 42.308 0.00 0.00 0.00 3.41
1742 2874 1.079197 CTATGTCAGTGGGCGTGCA 60.079 57.895 0.00 0.00 0.00 4.57
1784 2917 1.811266 CCAACGCTGCACGAGCTAT 60.811 57.895 14.18 0.00 46.64 2.97
1785 2918 0.527600 CCAACGCTGCACGAGCTATA 60.528 55.000 14.18 0.00 46.64 1.31
1786 2919 0.848942 CAACGCTGCACGAGCTATAG 59.151 55.000 14.18 0.00 46.64 1.31
1787 2920 0.872021 AACGCTGCACGAGCTATAGC 60.872 55.000 17.33 17.33 46.64 2.97
1789 2922 1.068083 GCTGCACGAGCTATAGCCA 59.932 57.895 21.17 10.42 45.21 4.75
1790 2923 0.320247 GCTGCACGAGCTATAGCCAT 60.320 55.000 21.17 3.37 45.21 4.40
1791 2924 1.707632 CTGCACGAGCTATAGCCATC 58.292 55.000 21.17 12.06 43.38 3.51
1793 2926 1.000171 TGCACGAGCTATAGCCATCAG 60.000 52.381 21.17 10.41 43.38 2.90
1794 2927 1.270826 GCACGAGCTATAGCCATCAGA 59.729 52.381 21.17 0.00 43.38 3.27
1848 2984 7.999450 TGCATTGTCTATTATATGCATTCCA 57.001 32.000 3.54 0.00 45.92 3.53
1849 2985 7.819644 TGCATTGTCTATTATATGCATTCCAC 58.180 34.615 3.54 0.00 45.92 4.02
1857 2993 9.851686 TCTATTATATGCATTCCACTGTCTTTT 57.148 29.630 3.54 0.00 0.00 2.27
1870 3006 8.665643 TCCACTGTCTTTTAAAAGATTTCGTA 57.334 30.769 28.46 13.85 45.83 3.43
1929 3066 7.011763 AGTCCATCGACTCAAAATATGTTCATG 59.988 37.037 0.00 0.00 46.90 3.07
1930 3067 7.011389 GTCCATCGACTCAAAATATGTTCATGA 59.989 37.037 0.00 0.00 35.99 3.07
1933 3070 9.166126 CATCGACTCAAAATATGTTCATGATTG 57.834 33.333 0.00 0.00 0.00 2.67
2022 3160 7.928307 TCAAAACATTGTTTGGGAATTTGAA 57.072 28.000 15.17 0.00 38.72 2.69
2024 3162 8.457261 TCAAAACATTGTTTGGGAATTTGAAAG 58.543 29.630 15.17 0.00 38.72 2.62
2027 3165 8.572855 AACATTGTTTGGGAATTTGAAAGAAA 57.427 26.923 0.00 0.00 0.00 2.52
2033 3171 9.018582 TGTTTGGGAATTTGAAAGAAATGTTTT 57.981 25.926 0.00 0.00 0.00 2.43
2034 3172 9.502145 GTTTGGGAATTTGAAAGAAATGTTTTC 57.498 29.630 0.00 0.00 35.59 2.29
2035 3173 8.798859 TTGGGAATTTGAAAGAAATGTTTTCA 57.201 26.923 3.11 0.00 41.40 2.69
2083 3222 9.340695 TGTTTATAAAAATGTTCGCTGATTCAG 57.659 29.630 9.40 9.40 34.12 3.02
2084 3223 9.554724 GTTTATAAAAATGTTCGCTGATTCAGA 57.445 29.630 17.87 0.00 32.44 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 2.358737 AAAAGAGACGGCCCAGCG 60.359 61.111 0.00 0.00 0.00 5.18
13 14 1.578206 GACAAAAGAGACGGCCCAGC 61.578 60.000 0.00 0.00 0.00 4.85
14 15 0.955919 GGACAAAAGAGACGGCCCAG 60.956 60.000 0.00 0.00 0.00 4.45
15 16 1.072505 GGACAAAAGAGACGGCCCA 59.927 57.895 0.00 0.00 0.00 5.36
16 17 0.250770 AAGGACAAAAGAGACGGCCC 60.251 55.000 0.00 0.00 0.00 5.80
17 18 1.605753 AAAGGACAAAAGAGACGGCC 58.394 50.000 0.00 0.00 0.00 6.13
18 19 3.710326 AAAAAGGACAAAAGAGACGGC 57.290 42.857 0.00 0.00 0.00 5.68
19 20 5.106277 GGGATAAAAAGGACAAAAGAGACGG 60.106 44.000 0.00 0.00 0.00 4.79
20 21 5.472137 TGGGATAAAAAGGACAAAAGAGACG 59.528 40.000 0.00 0.00 0.00 4.18
21 22 6.894339 TGGGATAAAAAGGACAAAAGAGAC 57.106 37.500 0.00 0.00 0.00 3.36
22 23 7.469456 CGTTTGGGATAAAAAGGACAAAAGAGA 60.469 37.037 0.00 0.00 31.95 3.10
23 24 6.640907 CGTTTGGGATAAAAAGGACAAAAGAG 59.359 38.462 0.00 0.00 31.95 2.85
24 25 6.461788 CCGTTTGGGATAAAAAGGACAAAAGA 60.462 38.462 0.00 0.00 40.03 2.52
25 26 5.694458 CCGTTTGGGATAAAAAGGACAAAAG 59.306 40.000 0.00 0.00 40.03 2.27
26 27 5.363005 TCCGTTTGGGATAAAAAGGACAAAA 59.637 36.000 0.99 0.00 41.06 2.44
27 28 4.894114 TCCGTTTGGGATAAAAAGGACAAA 59.106 37.500 0.99 0.00 41.06 2.83
28 29 4.471548 TCCGTTTGGGATAAAAAGGACAA 58.528 39.130 0.99 0.00 41.06 3.18
29 30 4.101645 TCCGTTTGGGATAAAAAGGACA 57.898 40.909 0.99 0.00 41.06 4.02
55 56 3.942439 GACCCTATCCTGCCCGCC 61.942 72.222 0.00 0.00 0.00 6.13
56 57 3.161450 TGACCCTATCCTGCCCGC 61.161 66.667 0.00 0.00 0.00 6.13
57 58 2.822399 GTGACCCTATCCTGCCCG 59.178 66.667 0.00 0.00 0.00 6.13
58 59 2.822399 CGTGACCCTATCCTGCCC 59.178 66.667 0.00 0.00 0.00 5.36
59 60 2.109181 GCGTGACCCTATCCTGCC 59.891 66.667 0.00 0.00 0.00 4.85
60 61 2.279517 CGCGTGACCCTATCCTGC 60.280 66.667 0.00 0.00 0.00 4.85
61 62 2.417516 CCGCGTGACCCTATCCTG 59.582 66.667 4.92 0.00 0.00 3.86
62 63 2.043248 ACCGCGTGACCCTATCCT 60.043 61.111 4.92 0.00 0.00 3.24
63 64 1.952102 TTCACCGCGTGACCCTATCC 61.952 60.000 4.92 0.00 42.60 2.59
64 65 0.527817 CTTCACCGCGTGACCCTATC 60.528 60.000 4.92 0.00 42.60 2.08
65 66 1.255667 ACTTCACCGCGTGACCCTAT 61.256 55.000 4.92 0.00 42.60 2.57
66 67 1.466025 AACTTCACCGCGTGACCCTA 61.466 55.000 4.92 0.00 42.60 3.53
67 68 2.803817 AACTTCACCGCGTGACCCT 61.804 57.895 4.92 0.00 42.60 4.34
68 69 2.280592 AACTTCACCGCGTGACCC 60.281 61.111 4.92 0.00 42.60 4.46
69 70 2.604174 CCAACTTCACCGCGTGACC 61.604 63.158 4.92 0.00 42.60 4.02
70 71 2.935955 CCAACTTCACCGCGTGAC 59.064 61.111 4.92 0.00 42.60 3.67
71 72 2.970324 GCCAACTTCACCGCGTGA 60.970 61.111 4.92 6.31 41.09 4.35
72 73 4.025401 GGCCAACTTCACCGCGTG 62.025 66.667 4.92 3.64 34.45 5.34
73 74 2.386064 TAAGGCCAACTTCACCGCGT 62.386 55.000 5.01 0.00 40.64 6.01
74 75 1.231958 TTAAGGCCAACTTCACCGCG 61.232 55.000 5.01 0.00 40.64 6.46
75 76 0.955905 TTTAAGGCCAACTTCACCGC 59.044 50.000 5.01 0.00 40.64 5.68
76 77 2.671070 GCATTTAAGGCCAACTTCACCG 60.671 50.000 5.01 0.00 40.64 4.94
77 78 2.671070 CGCATTTAAGGCCAACTTCACC 60.671 50.000 5.01 0.00 40.64 4.02
78 79 2.595386 CGCATTTAAGGCCAACTTCAC 58.405 47.619 5.01 0.00 40.64 3.18
79 80 1.543802 CCGCATTTAAGGCCAACTTCA 59.456 47.619 5.01 0.00 40.64 3.02
80 81 2.278026 CCGCATTTAAGGCCAACTTC 57.722 50.000 5.01 0.00 40.64 3.01
88 89 1.264288 GGAGATTCGCCGCATTTAAGG 59.736 52.381 0.00 0.00 0.00 2.69
89 90 1.264288 GGGAGATTCGCCGCATTTAAG 59.736 52.381 0.00 0.00 0.00 1.85
96 97 3.849951 TGGAGGGAGATTCGCCGC 61.850 66.667 0.00 0.00 0.00 6.53
98 99 2.107141 CGTGGAGGGAGATTCGCC 59.893 66.667 0.00 0.00 0.00 5.54
151 152 6.187727 ACTTCCATGACTGTTTTCCTAGAA 57.812 37.500 0.00 0.00 0.00 2.10
153 154 7.281100 GGATTACTTCCATGACTGTTTTCCTAG 59.719 40.741 0.00 0.00 44.74 3.02
169 170 2.805657 CGTCGATTGGGGGATTACTTCC 60.806 54.545 0.00 0.00 44.62 3.46
170 171 2.101917 TCGTCGATTGGGGGATTACTTC 59.898 50.000 0.00 0.00 0.00 3.01
171 172 2.112998 TCGTCGATTGGGGGATTACTT 58.887 47.619 0.00 0.00 0.00 2.24
172 173 1.784358 TCGTCGATTGGGGGATTACT 58.216 50.000 0.00 0.00 0.00 2.24
173 174 2.607631 TTCGTCGATTGGGGGATTAC 57.392 50.000 0.00 0.00 0.00 1.89
174 175 2.767394 TCTTTCGTCGATTGGGGGATTA 59.233 45.455 0.00 0.00 0.00 1.75
180 181 2.092211 CGTCTTTCTTTCGTCGATTGGG 59.908 50.000 0.00 0.00 0.00 4.12
189 190 1.714460 CGAGTGTCCGTCTTTCTTTCG 59.286 52.381 0.00 0.00 0.00 3.46
195 196 3.267900 CACACGAGTGTCCGTCTTT 57.732 52.632 5.83 0.00 42.83 2.52
250 255 4.269523 ACCGTGGGTGCATGTGCT 62.270 61.111 6.55 0.00 42.66 4.40
329 335 4.693566 GGACAGTCGATCGATTCTCTCTAT 59.306 45.833 22.50 0.78 0.00 1.98
330 336 4.059511 GGACAGTCGATCGATTCTCTCTA 58.940 47.826 22.50 0.00 0.00 2.43
356 362 7.114529 ACTCGTAGTCGTTTAGTCATTTTTCTG 59.885 37.037 0.00 0.00 38.33 3.02
359 365 7.330720 GACTCGTAGTCGTTTAGTCATTTTT 57.669 36.000 0.00 0.00 37.92 1.94
443 1387 3.978723 CTCGTGCGCTCCAGGTCAG 62.979 68.421 9.73 0.00 0.00 3.51
481 1430 4.349503 AAGGGTCGCTGCCATGCA 62.350 61.111 0.00 0.00 36.92 3.96
511 1462 0.604243 CCGGTGGAAAATGTGTCGGA 60.604 55.000 0.00 0.00 38.42 4.55
674 1629 1.065401 CAATTGATAATGCGGGCGTGT 59.935 47.619 0.00 0.00 0.00 4.49
706 1669 2.501723 GTGAAGGAGATGGAGCAAGGTA 59.498 50.000 0.00 0.00 0.00 3.08
710 1673 1.661463 AGGTGAAGGAGATGGAGCAA 58.339 50.000 0.00 0.00 0.00 3.91
712 1675 1.556911 TGAAGGTGAAGGAGATGGAGC 59.443 52.381 0.00 0.00 0.00 4.70
713 1676 2.093235 GGTGAAGGTGAAGGAGATGGAG 60.093 54.545 0.00 0.00 0.00 3.86
723 1686 0.912487 ATAGCGGGGGTGAAGGTGAA 60.912 55.000 0.00 0.00 0.00 3.18
733 1696 4.632974 GCTGGCTGATAGCGGGGG 62.633 72.222 0.00 0.00 43.62 5.40
737 1700 1.497223 GCAAGAGCTGGCTGATAGCG 61.497 60.000 0.00 0.00 45.61 4.26
738 1701 1.497223 CGCAAGAGCTGGCTGATAGC 61.497 60.000 0.00 0.00 39.72 2.97
742 1705 2.357881 CACGCAAGAGCTGGCTGA 60.358 61.111 0.00 0.00 43.62 4.26
756 1719 1.406065 ATCCAGATCCAGAGGGCACG 61.406 60.000 0.00 0.00 0.00 5.34
762 1725 2.749076 CGAGCTAGATCCAGATCCAGAG 59.251 54.545 1.64 3.19 38.58 3.35
765 1728 1.252175 GCGAGCTAGATCCAGATCCA 58.748 55.000 1.64 0.00 38.58 3.41
784 1747 4.862823 GACGGAGGAGGGAGGGGG 62.863 77.778 0.00 0.00 0.00 5.40
785 1748 4.862823 GGACGGAGGAGGGAGGGG 62.863 77.778 0.00 0.00 0.00 4.79
786 1749 4.862823 GGGACGGAGGAGGGAGGG 62.863 77.778 0.00 0.00 0.00 4.30
787 1750 1.731324 ATAGGGACGGAGGAGGGAGG 61.731 65.000 0.00 0.00 0.00 4.30
821 1784 2.617274 GCTCACGGCTCCAACCAAC 61.617 63.158 0.00 0.00 38.06 3.77
822 1785 2.281484 GCTCACGGCTCCAACCAA 60.281 61.111 0.00 0.00 38.06 3.67
823 1786 4.329545 GGCTCACGGCTCCAACCA 62.330 66.667 0.00 0.00 41.46 3.67
824 1787 3.628646 ATGGCTCACGGCTCCAACC 62.629 63.158 0.00 0.00 41.46 3.77
845 1808 1.604593 CAAAGGCAGTGGGGAGTGG 60.605 63.158 0.00 0.00 0.00 4.00
849 1812 4.659172 CGGCAAAGGCAGTGGGGA 62.659 66.667 0.00 0.00 43.71 4.81
850 1813 4.659172 TCGGCAAAGGCAGTGGGG 62.659 66.667 0.00 0.00 43.71 4.96
852 1815 1.580845 CTTCTCGGCAAAGGCAGTGG 61.581 60.000 0.00 0.00 43.71 4.00
853 1816 0.603707 TCTTCTCGGCAAAGGCAGTG 60.604 55.000 0.00 0.00 43.71 3.66
854 1817 0.108585 TTCTTCTCGGCAAAGGCAGT 59.891 50.000 0.00 0.00 43.71 4.40
857 1820 1.082690 CTCTTCTTCTCGGCAAAGGC 58.917 55.000 0.00 0.00 40.13 4.35
858 1821 2.751166 TCTCTTCTTCTCGGCAAAGG 57.249 50.000 0.00 0.00 0.00 3.11
859 1822 3.854666 TGATCTCTTCTTCTCGGCAAAG 58.145 45.455 0.00 0.00 0.00 2.77
862 1825 3.431346 CCAATGATCTCTTCTTCTCGGCA 60.431 47.826 0.00 0.00 0.00 5.69
883 1846 1.446966 GTGAACTCTCGCTCTGGCC 60.447 63.158 0.00 0.00 34.44 5.36
903 1866 1.407618 GGTGAAGGGGTGTTGTTGAAC 59.592 52.381 0.00 0.00 0.00 3.18
915 1878 0.961753 GAGCAAGGTTTGGTGAAGGG 59.038 55.000 0.00 0.00 42.23 3.95
963 1926 1.626686 CACTCTCTCTCCCTGTGTGT 58.373 55.000 0.00 0.00 0.00 3.72
965 1928 1.247419 CGCACTCTCTCTCCCTGTGT 61.247 60.000 0.00 0.00 0.00 3.72
971 1934 0.315568 AACACACGCACTCTCTCTCC 59.684 55.000 0.00 0.00 0.00 3.71
977 1940 1.409064 TCTCTTCAACACACGCACTCT 59.591 47.619 0.00 0.00 0.00 3.24
984 1947 4.754114 AGCTTCATCTTCTCTTCAACACAC 59.246 41.667 0.00 0.00 0.00 3.82
985 1948 4.965814 AGCTTCATCTTCTCTTCAACACA 58.034 39.130 0.00 0.00 0.00 3.72
1043 2009 0.322008 CCTGTGCTCCTTCAAGGTCC 60.322 60.000 2.50 0.00 36.53 4.46
1179 2147 4.582656 ACAACCGAATCACAGATCCAAAAA 59.417 37.500 0.00 0.00 0.00 1.94
1249 2217 7.600752 GCTATAATTAACTGCCCTCTTCTGTAG 59.399 40.741 0.00 0.00 0.00 2.74
1254 2222 6.292150 ACTGCTATAATTAACTGCCCTCTTC 58.708 40.000 0.00 0.00 0.00 2.87
1261 2229 8.917655 GCTACTTCTACTGCTATAATTAACTGC 58.082 37.037 0.00 0.00 0.00 4.40
1275 2243 6.341316 TCCTATTGCTTTGCTACTTCTACTG 58.659 40.000 0.00 0.00 0.00 2.74
1310 2286 4.750098 AGTGGTGAATCAACGAACACTAAG 59.250 41.667 0.00 0.00 36.09 2.18
1311 2287 4.699637 AGTGGTGAATCAACGAACACTAA 58.300 39.130 0.00 0.00 36.09 2.24
1312 2288 4.330944 AGTGGTGAATCAACGAACACTA 57.669 40.909 0.00 0.00 36.09 2.74
1313 2289 3.194005 AGTGGTGAATCAACGAACACT 57.806 42.857 0.00 0.00 34.28 3.55
1333 2309 1.064758 ACACACTTGCCTGGACTGAAA 60.065 47.619 0.00 0.00 0.00 2.69
1335 2311 0.106708 GACACACTTGCCTGGACTGA 59.893 55.000 0.00 0.00 0.00 3.41
1342 2318 2.072874 ATGCTGGGACACACTTGCCT 62.073 55.000 0.00 0.00 0.00 4.75
1343 2319 1.181098 AATGCTGGGACACACTTGCC 61.181 55.000 0.00 0.00 0.00 4.52
1356 2332 5.463286 TGATGCAAGAACAGTAAAATGCTG 58.537 37.500 0.00 0.00 39.67 4.41
1357 2333 5.710513 TGATGCAAGAACAGTAAAATGCT 57.289 34.783 0.00 0.00 34.97 3.79
1358 2334 6.366877 ACAATGATGCAAGAACAGTAAAATGC 59.633 34.615 0.00 0.00 0.00 3.56
1363 2339 6.092670 GCTCTACAATGATGCAAGAACAGTAA 59.907 38.462 0.00 0.00 0.00 2.24
1380 2356 2.501723 GGATTCCTCCAGTGCTCTACAA 59.498 50.000 0.00 0.00 41.64 2.41
1383 2359 2.550277 TGGATTCCTCCAGTGCTCTA 57.450 50.000 3.95 0.00 46.95 2.43
1392 2368 2.092753 TCAGCTGATGTTGGATTCCTCC 60.093 50.000 13.74 0.00 42.45 4.30
1393 2369 3.272574 TCAGCTGATGTTGGATTCCTC 57.727 47.619 13.74 0.00 0.00 3.71
1394 2370 3.726557 TTCAGCTGATGTTGGATTCCT 57.273 42.857 19.04 0.00 0.00 3.36
1396 2372 7.765307 TCTTAATTTCAGCTGATGTTGGATTC 58.235 34.615 19.04 0.00 0.00 2.52
1398 2374 7.114754 TCTCTTAATTTCAGCTGATGTTGGAT 58.885 34.615 19.04 2.61 0.00 3.41
1399 2375 6.475504 TCTCTTAATTTCAGCTGATGTTGGA 58.524 36.000 19.04 14.98 0.00 3.53
1403 2381 7.164122 TCACTTCTCTTAATTTCAGCTGATGT 58.836 34.615 19.04 6.38 0.00 3.06
1416 2394 8.582657 AGCTAGAACAGTATCACTTCTCTTAA 57.417 34.615 0.00 0.00 0.00 1.85
1417 2395 7.011576 CGAGCTAGAACAGTATCACTTCTCTTA 59.988 40.741 0.00 0.00 0.00 2.10
1418 2396 6.183360 CGAGCTAGAACAGTATCACTTCTCTT 60.183 42.308 0.00 0.00 0.00 2.85
1420 2398 5.294799 TCGAGCTAGAACAGTATCACTTCTC 59.705 44.000 0.00 0.00 0.00 2.87
1421 2399 5.186942 TCGAGCTAGAACAGTATCACTTCT 58.813 41.667 0.00 0.00 0.00 2.85
1422 2400 5.487153 TCGAGCTAGAACAGTATCACTTC 57.513 43.478 0.00 0.00 0.00 3.01
1423 2401 5.277586 CGATCGAGCTAGAACAGTATCACTT 60.278 44.000 10.26 0.00 0.00 3.16
1425 2403 4.459606 CGATCGAGCTAGAACAGTATCAC 58.540 47.826 10.26 0.00 0.00 3.06
1426 2404 3.498777 CCGATCGAGCTAGAACAGTATCA 59.501 47.826 18.66 0.00 0.00 2.15
1441 2419 1.144969 GTGCAAGAAACACCGATCGA 58.855 50.000 18.66 0.00 31.67 3.59
1442 2420 0.179250 CGTGCAAGAAACACCGATCG 60.179 55.000 8.51 8.51 34.45 3.69
1443 2421 1.126846 CTCGTGCAAGAAACACCGATC 59.873 52.381 3.39 0.00 34.45 3.69
1444 2422 1.148310 CTCGTGCAAGAAACACCGAT 58.852 50.000 3.39 0.00 34.45 4.18
1462 2440 1.032657 CGGACTGGATCGACAGGACT 61.033 60.000 7.82 0.00 42.75 3.85
1463 2441 1.433879 CGGACTGGATCGACAGGAC 59.566 63.158 7.82 2.12 42.75 3.85
1464 2442 1.753078 CCGGACTGGATCGACAGGA 60.753 63.158 0.00 0.00 42.75 3.86
1465 2443 2.808315 CCGGACTGGATCGACAGG 59.192 66.667 0.00 0.00 42.75 4.00
1466 2444 2.105128 GCCGGACTGGATCGACAG 59.895 66.667 5.05 1.70 42.00 3.51
1496 2474 2.567615 AGGCTCTGGTGGTTAGTAACAG 59.432 50.000 14.81 3.92 0.00 3.16
1498 2476 3.430513 GCTAGGCTCTGGTGGTTAGTAAC 60.431 52.174 4.32 4.32 0.00 2.50
1499 2477 2.764572 GCTAGGCTCTGGTGGTTAGTAA 59.235 50.000 0.00 0.00 0.00 2.24
1500 2478 2.385803 GCTAGGCTCTGGTGGTTAGTA 58.614 52.381 0.00 0.00 0.00 1.82
1502 2480 0.466124 GGCTAGGCTCTGGTGGTTAG 59.534 60.000 9.46 0.00 0.00 2.34
1504 2482 2.660064 CGGCTAGGCTCTGGTGGTT 61.660 63.158 15.11 0.00 0.00 3.67
1505 2483 3.077556 CGGCTAGGCTCTGGTGGT 61.078 66.667 15.11 0.00 0.00 4.16
1506 2484 4.537433 GCGGCTAGGCTCTGGTGG 62.537 72.222 15.11 0.00 0.00 4.61
1507 2485 4.537433 GGCGGCTAGGCTCTGGTG 62.537 72.222 15.11 0.00 42.90 4.17
1509 2487 4.537433 GTGGCGGCTAGGCTCTGG 62.537 72.222 15.11 0.00 46.88 3.86
1510 2488 4.537433 GGTGGCGGCTAGGCTCTG 62.537 72.222 15.11 0.00 46.88 3.35
1526 2504 2.582498 GAATCCAGCGTCGGACGG 60.582 66.667 29.30 15.08 42.82 4.79
1528 2506 3.255379 GCGAATCCAGCGTCGGAC 61.255 66.667 0.00 0.00 38.07 4.79
1565 2693 1.994507 CTCTCCTTGCTGCCCCTCT 60.995 63.158 0.00 0.00 0.00 3.69
1591 2719 0.605589 CTCTCTGGCGACTTGGTCTT 59.394 55.000 0.00 0.00 0.00 3.01
1592 2720 1.254284 CCTCTCTGGCGACTTGGTCT 61.254 60.000 0.00 0.00 0.00 3.85
1593 2721 1.216710 CCTCTCTGGCGACTTGGTC 59.783 63.158 0.00 0.00 0.00 4.02
1594 2722 1.228894 TCCTCTCTGGCGACTTGGT 60.229 57.895 0.00 0.00 35.26 3.67
1595 2723 0.967887 TCTCCTCTCTGGCGACTTGG 60.968 60.000 0.00 0.00 35.26 3.61
1596 2724 0.891373 TTCTCCTCTCTGGCGACTTG 59.109 55.000 0.00 0.00 35.26 3.16
1597 2725 0.892063 GTTCTCCTCTCTGGCGACTT 59.108 55.000 0.00 0.00 35.26 3.01
1598 2726 0.968393 GGTTCTCCTCTCTGGCGACT 60.968 60.000 0.00 0.00 35.26 4.18
1599 2727 1.251527 TGGTTCTCCTCTCTGGCGAC 61.252 60.000 0.00 0.00 35.26 5.19
1600 2728 1.076727 TGGTTCTCCTCTCTGGCGA 59.923 57.895 0.00 0.00 35.26 5.54
1601 2729 1.216710 GTGGTTCTCCTCTCTGGCG 59.783 63.158 0.00 0.00 35.26 5.69
1602 2730 1.216710 CGTGGTTCTCCTCTCTGGC 59.783 63.158 0.00 0.00 35.26 4.85
1603 2731 0.900647 ACCGTGGTTCTCCTCTCTGG 60.901 60.000 0.00 0.00 34.23 3.86
1604 2732 0.244994 CACCGTGGTTCTCCTCTCTG 59.755 60.000 0.00 0.00 34.23 3.35
1605 2733 0.900647 CCACCGTGGTTCTCCTCTCT 60.901 60.000 9.64 0.00 31.35 3.10
1664 2792 1.926511 TTAGGACGCCGACCGAAGTC 61.927 60.000 0.00 8.07 41.02 3.01
1665 2793 1.318158 ATTAGGACGCCGACCGAAGT 61.318 55.000 7.23 0.00 41.02 3.01
1667 2795 1.033746 AGATTAGGACGCCGACCGAA 61.034 55.000 3.61 3.61 41.02 4.30
1668 2796 0.179048 TAGATTAGGACGCCGACCGA 60.179 55.000 0.00 0.00 41.02 4.69
1669 2797 0.237761 CTAGATTAGGACGCCGACCG 59.762 60.000 0.00 0.00 44.21 4.79
1671 2799 0.666913 TGCTAGATTAGGACGCCGAC 59.333 55.000 0.00 0.00 0.00 4.79
1672 2800 0.952280 CTGCTAGATTAGGACGCCGA 59.048 55.000 0.00 0.00 0.00 5.54
1673 2801 0.664767 GCTGCTAGATTAGGACGCCG 60.665 60.000 0.00 0.00 0.00 6.46
1674 2802 0.319986 GGCTGCTAGATTAGGACGCC 60.320 60.000 0.00 0.00 35.00 5.68
1675 2803 0.676736 AGGCTGCTAGATTAGGACGC 59.323 55.000 0.00 0.00 0.00 5.19
1676 2804 1.000283 CCAGGCTGCTAGATTAGGACG 60.000 57.143 9.56 0.00 0.00 4.79
1677 2805 1.270571 GCCAGGCTGCTAGATTAGGAC 60.271 57.143 9.56 0.00 0.00 3.85
1678 2806 1.051812 GCCAGGCTGCTAGATTAGGA 58.948 55.000 9.56 0.00 0.00 2.94
1679 2807 0.761187 TGCCAGGCTGCTAGATTAGG 59.239 55.000 14.15 0.00 0.00 2.69
1683 2811 1.072015 GAGAATGCCAGGCTGCTAGAT 59.928 52.381 14.15 0.00 0.00 1.98
1698 2826 6.727394 ACGCTAGATTATAGGAGAGGAGAAT 58.273 40.000 0.00 0.00 0.00 2.40
1710 2842 6.374613 CCACTGACATAGGACGCTAGATTATA 59.625 42.308 0.00 0.00 0.00 0.98
1712 2844 4.519350 CCACTGACATAGGACGCTAGATTA 59.481 45.833 0.00 0.00 0.00 1.75
1713 2845 3.319405 CCACTGACATAGGACGCTAGATT 59.681 47.826 0.00 0.00 0.00 2.40
1714 2846 2.887783 CCACTGACATAGGACGCTAGAT 59.112 50.000 0.00 0.00 0.00 1.98
1715 2847 2.298610 CCACTGACATAGGACGCTAGA 58.701 52.381 0.00 0.00 0.00 2.43
1716 2848 1.338337 CCCACTGACATAGGACGCTAG 59.662 57.143 0.00 0.00 0.00 3.42
1717 2849 1.399714 CCCACTGACATAGGACGCTA 58.600 55.000 0.00 0.00 0.00 4.26
1718 2850 1.961180 GCCCACTGACATAGGACGCT 61.961 60.000 0.00 0.00 0.00 5.07
1719 2851 1.521681 GCCCACTGACATAGGACGC 60.522 63.158 0.00 0.00 0.00 5.19
1720 2852 1.226974 CGCCCACTGACATAGGACG 60.227 63.158 0.00 0.00 0.00 4.79
1721 2853 0.460284 CACGCCCACTGACATAGGAC 60.460 60.000 0.00 0.00 0.00 3.85
1722 2854 1.897423 CACGCCCACTGACATAGGA 59.103 57.895 0.00 0.00 0.00 2.94
1723 2855 1.815421 GCACGCCCACTGACATAGG 60.815 63.158 0.00 0.00 0.00 2.57
1724 2856 1.079197 TGCACGCCCACTGACATAG 60.079 57.895 0.00 0.00 0.00 2.23
1776 2909 2.587522 TGTCTGATGGCTATAGCTCGT 58.412 47.619 23.53 14.80 41.70 4.18
1784 2917 3.165071 TCACTCACTTGTCTGATGGCTA 58.835 45.455 0.00 0.00 0.00 3.93
1785 2918 1.973515 TCACTCACTTGTCTGATGGCT 59.026 47.619 0.00 0.00 0.00 4.75
1786 2919 2.462456 TCACTCACTTGTCTGATGGC 57.538 50.000 0.00 0.00 0.00 4.40
1787 2920 4.468765 AGATCACTCACTTGTCTGATGG 57.531 45.455 0.00 0.00 0.00 3.51
1830 2963 8.839310 AAGACAGTGGAATGCATATAATAGAC 57.161 34.615 0.00 0.00 0.00 2.59
1906 3043 7.250445 TCATGAACATATTTTGAGTCGATGG 57.750 36.000 0.00 0.00 0.00 3.51
1995 3133 9.618890 TCAAATTCCCAAACAATGTTTTGAATA 57.381 25.926 22.73 12.17 38.54 1.75
1996 3134 8.517062 TCAAATTCCCAAACAATGTTTTGAAT 57.483 26.923 19.43 19.43 38.54 2.57
2003 3141 8.623030 CATTTCTTTCAAATTCCCAAACAATGT 58.377 29.630 0.00 0.00 0.00 2.71


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

AutoCloner maintained by Alex Coulton.