Multiple sequence alignment - TraesCS7B01G405300

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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 TraesCS7B01G405300 chr7B 100.000 3384 0 0 1 3384 673678230 673681613 0.000000e+00 6250.0
1 TraesCS7B01G405300 chr7A 88.994 1372 90 26 1237 2557 688946122 688947483 0.000000e+00 1640.0
2 TraesCS7B01G405300 chr7A 94.058 791 33 7 56 841 688942222 688943003 0.000000e+00 1188.0
3 TraesCS7B01G405300 chr7A 90.260 154 8 3 961 1109 688944002 688944153 9.580000e-46 195.0
4 TraesCS7B01G405300 chr7A 96.875 64 1 1 889 952 688943905 688943967 4.620000e-19 106.0
5 TraesCS7B01G405300 chr5A 95.680 787 34 0 2598 3384 84132718 84131932 0.000000e+00 1266.0
6 TraesCS7B01G405300 chr5A 96.844 507 16 0 2878 3384 84131574 84131068 0.000000e+00 848.0
7 TraesCS7B01G405300 chr5A 96.055 507 20 0 2878 3384 84130711 84130205 0.000000e+00 826.0
8 TraesCS7B01G405300 chr2B 95.038 786 37 2 2599 3384 25894581 25893798 0.000000e+00 1234.0
9 TraesCS7B01G405300 chr2B 78.961 385 75 5 2599 2979 143188998 143188616 1.200000e-64 257.0
10 TraesCS7B01G405300 chr3A 91.667 504 21 3 2599 3102 55736948 55737430 0.000000e+00 678.0
11 TraesCS7B01G405300 chr3A 82.353 782 132 5 2598 3376 57265405 57266183 0.000000e+00 675.0
12 TraesCS7B01G405300 chr7D 85.231 325 45 3 1 325 595938966 595939287 7.000000e-87 331.0
13 TraesCS7B01G405300 chr5D 73.248 785 189 20 2601 3375 73794488 73793715 2.000000e-67 267.0
14 TraesCS7B01G405300 chr1B 76.233 446 96 9 2594 3033 654215371 654214930 9.450000e-56 228.0
15 TraesCS7B01G405300 chr4B 78.947 266 53 3 2597 2860 193402465 193402729 9.650000e-41 178.0
16 TraesCS7B01G405300 chr6B 84.239 184 26 3 2610 2791 387154011 387153829 3.470000e-40 176.0
17 TraesCS7B01G405300 chr5B 88.000 50 5 1 2168 2216 658755420 658755469 1.310000e-04 58.4


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 TraesCS7B01G405300 chr7B 673678230 673681613 3383 False 6250.00 6250 100.00000 1 3384 1 chr7B.!!$F1 3383
1 TraesCS7B01G405300 chr7A 688942222 688947483 5261 False 782.25 1640 92.54675 56 2557 4 chr7A.!!$F1 2501
2 TraesCS7B01G405300 chr5A 84130205 84132718 2513 True 980.00 1266 96.19300 2598 3384 3 chr5A.!!$R1 786
3 TraesCS7B01G405300 chr2B 25893798 25894581 783 True 1234.00 1234 95.03800 2599 3384 1 chr2B.!!$R1 785
4 TraesCS7B01G405300 chr3A 57265405 57266183 778 False 675.00 675 82.35300 2598 3376 1 chr3A.!!$F2 778
5 TraesCS7B01G405300 chr5D 73793715 73794488 773 True 267.00 267 73.24800 2601 3375 1 chr5D.!!$R1 774

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
978 1866 0.178301 GTGCTGGCTAACCCTAGGAC 59.822 60.0 11.48 0.0 33.59 3.85 F
2022 4801 0.179029 CCCACCAGAAACAGTCCGTT 60.179 55.0 0.00 0.0 40.50 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2078 4857 0.031111 ATCATCTCTTGGACCCCGGA 60.031 55.000 0.73 0.0 0.0 5.14 R
2997 5778 1.061729 CATCGCCGCGCAATGTAAA 59.938 52.632 8.75 0.0 0.0 2.01 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
21 22 3.295093 ACACCCACATGTTTCATTGTCA 58.705 40.909 0.00 0.00 0.00 3.58
22 23 3.896888 ACACCCACATGTTTCATTGTCAT 59.103 39.130 0.00 0.00 0.00 3.06
23 24 4.022068 ACACCCACATGTTTCATTGTCATC 60.022 41.667 0.00 0.00 0.00 2.92
24 25 3.191162 ACCCACATGTTTCATTGTCATCG 59.809 43.478 0.00 0.00 0.00 3.84
25 26 3.427909 CCCACATGTTTCATTGTCATCGG 60.428 47.826 0.00 0.00 0.00 4.18
26 27 3.439825 CCACATGTTTCATTGTCATCGGA 59.560 43.478 0.00 0.00 0.00 4.55
27 28 4.096833 CCACATGTTTCATTGTCATCGGAT 59.903 41.667 0.00 0.00 0.00 4.18
28 29 5.393352 CCACATGTTTCATTGTCATCGGATT 60.393 40.000 0.00 0.00 0.00 3.01
29 30 5.740569 CACATGTTTCATTGTCATCGGATTC 59.259 40.000 0.00 0.00 0.00 2.52
30 31 4.598406 TGTTTCATTGTCATCGGATTCG 57.402 40.909 0.00 0.00 37.82 3.34
77 78 1.203758 TGGATCTTCTCGCGCTTAACA 59.796 47.619 5.56 0.00 0.00 2.41
78 79 2.268298 GGATCTTCTCGCGCTTAACAA 58.732 47.619 5.56 0.00 0.00 2.83
80 81 3.309954 GGATCTTCTCGCGCTTAACAATT 59.690 43.478 5.56 0.00 0.00 2.32
90 91 3.482786 CGCTTAACAATTGCAGTGTCTC 58.517 45.455 5.05 0.00 0.00 3.36
91 92 3.667960 CGCTTAACAATTGCAGTGTCTCC 60.668 47.826 5.05 0.00 0.00 3.71
118 119 1.960689 CAACAACCACCACCCTAAAGG 59.039 52.381 0.00 0.00 43.78 3.11
150 151 6.066032 AGGTCGGAAATAGAAAACTCCAAAA 58.934 36.000 0.00 0.00 0.00 2.44
158 159 4.251103 AGAAAACTCCAAAACAGACCCT 57.749 40.909 0.00 0.00 0.00 4.34
183 184 1.150536 ACGTCCAACTGGCACCATT 59.849 52.632 0.00 0.00 34.44 3.16
203 204 2.202987 CTCGCCAGCCTCATGACC 60.203 66.667 0.00 0.00 0.00 4.02
204 205 4.147449 TCGCCAGCCTCATGACCG 62.147 66.667 0.00 0.00 0.00 4.79
222 223 2.194271 CCGAGAAGAACGGTAGCATTC 58.806 52.381 0.00 0.00 44.57 2.67
223 224 1.846782 CGAGAAGAACGGTAGCATTCG 59.153 52.381 0.00 0.00 0.00 3.34
269 270 1.078426 ACCATGCCTTGACCGCTAC 60.078 57.895 0.00 0.00 0.00 3.58
270 271 1.221840 CCATGCCTTGACCGCTACT 59.778 57.895 0.00 0.00 0.00 2.57
281 282 2.133195 CCGCTACTTGGGGCTATCA 58.867 57.895 0.00 0.00 41.96 2.15
303 304 3.054361 ACCCAAACTACCACTCCATCATC 60.054 47.826 0.00 0.00 0.00 2.92
334 335 1.300620 CGGCCACGACAAGAGAACA 60.301 57.895 2.24 0.00 44.60 3.18
351 352 1.194781 ACAACGAGAGCCCCATCAGT 61.195 55.000 0.00 0.00 0.00 3.41
417 422 3.368822 GCTTGGTTGCCATGCTCA 58.631 55.556 15.84 0.00 46.74 4.26
479 484 0.322456 CCACCCACATCGTTGTCCAT 60.322 55.000 0.00 0.00 32.34 3.41
501 506 4.282496 TCACAAGGTATTTTGGTTGTGGT 58.718 39.130 12.69 0.00 46.39 4.16
522 527 2.281539 TCCTCCGGCGATAACATAGA 57.718 50.000 9.30 0.00 0.00 1.98
533 538 4.511826 GCGATAACATAGAGGGTTGGAAAG 59.488 45.833 0.00 0.00 0.00 2.62
551 556 1.122019 AGGGTGGATGCGGATAGGAC 61.122 60.000 0.00 0.00 0.00 3.85
568 573 1.341606 GACAGAGACCTTTCGCTTCG 58.658 55.000 0.00 0.00 27.60 3.79
572 577 1.627550 GAGACCTTTCGCTTCGGTGC 61.628 60.000 0.00 0.00 0.00 5.01
607 612 9.672673 TCCTTAGATTACACGTACTAAACTACT 57.327 33.333 0.00 0.00 0.00 2.57
781 787 6.759497 AATACAGCCTTTTATGTTGTCTCC 57.241 37.500 0.00 0.00 0.00 3.71
782 788 4.098914 ACAGCCTTTTATGTTGTCTCCA 57.901 40.909 0.00 0.00 0.00 3.86
783 789 4.666512 ACAGCCTTTTATGTTGTCTCCAT 58.333 39.130 0.00 0.00 0.00 3.41
787 793 7.232534 ACAGCCTTTTATGTTGTCTCCATAAAA 59.767 33.333 14.22 14.22 45.47 1.52
793 799 9.581289 TTTTATGTTGTCTCCATAAAAGGAAGA 57.419 29.630 12.03 0.00 44.05 2.87
794 800 9.581289 TTTATGTTGTCTCCATAAAAGGAAGAA 57.419 29.630 0.00 0.00 40.16 2.52
795 801 9.581289 TTATGTTGTCTCCATAAAAGGAAGAAA 57.419 29.630 0.00 0.00 37.20 2.52
796 802 7.272037 TGTTGTCTCCATAAAAGGAAGAAAC 57.728 36.000 0.00 0.00 37.20 2.78
805 811 7.935210 TCCATAAAAGGAAGAAACTAAACTCGT 59.065 33.333 0.00 0.00 33.93 4.18
830 836 2.158827 AGACAAACATTGCCCAAAACCC 60.159 45.455 0.00 0.00 0.00 4.11
841 847 1.294857 CCAAAACCCGCTTTTGTTGG 58.705 50.000 12.78 1.10 45.15 3.77
844 850 2.772077 AAACCCGCTTTTGTTGGTTT 57.228 40.000 0.00 0.00 44.17 3.27
846 852 1.187087 ACCCGCTTTTGTTGGTTTCA 58.813 45.000 0.00 0.00 0.00 2.69
847 853 1.134936 ACCCGCTTTTGTTGGTTTCAC 60.135 47.619 0.00 0.00 0.00 3.18
848 854 1.136110 CCCGCTTTTGTTGGTTTCACT 59.864 47.619 0.00 0.00 0.00 3.41
849 855 2.192624 CCGCTTTTGTTGGTTTCACTG 58.807 47.619 0.00 0.00 0.00 3.66
851 857 2.851824 CGCTTTTGTTGGTTTCACTGTC 59.148 45.455 0.00 0.00 0.00 3.51
852 858 3.671971 CGCTTTTGTTGGTTTCACTGTCA 60.672 43.478 0.00 0.00 0.00 3.58
853 859 4.432712 GCTTTTGTTGGTTTCACTGTCAT 58.567 39.130 0.00 0.00 0.00 3.06
854 860 4.869861 GCTTTTGTTGGTTTCACTGTCATT 59.130 37.500 0.00 0.00 0.00 2.57
855 861 5.220453 GCTTTTGTTGGTTTCACTGTCATTG 60.220 40.000 0.00 0.00 0.00 2.82
857 863 2.100584 TGTTGGTTTCACTGTCATTGCC 59.899 45.455 0.00 0.00 0.00 4.52
872 1562 2.099141 TTGCCCATGAAAGACTCTCG 57.901 50.000 0.00 0.00 0.00 4.04
873 1563 0.250234 TGCCCATGAAAGACTCTCGG 59.750 55.000 0.00 0.00 0.00 4.63
874 1564 0.537188 GCCCATGAAAGACTCTCGGA 59.463 55.000 0.00 0.00 0.00 4.55
876 1566 1.469940 CCCATGAAAGACTCTCGGACG 60.470 57.143 0.00 0.00 0.00 4.79
878 1568 2.254459 CATGAAAGACTCTCGGACGTG 58.746 52.381 0.00 0.00 0.00 4.49
879 1569 0.596577 TGAAAGACTCTCGGACGTGG 59.403 55.000 0.00 0.00 0.00 4.94
880 1570 0.733223 GAAAGACTCTCGGACGTGGC 60.733 60.000 0.00 0.00 0.00 5.01
882 1572 3.735029 GACTCTCGGACGTGGCGT 61.735 66.667 0.00 0.00 45.10 5.68
883 1573 3.948086 GACTCTCGGACGTGGCGTG 62.948 68.421 0.00 0.00 41.37 5.34
884 1574 4.778415 CTCTCGGACGTGGCGTGG 62.778 72.222 0.00 0.00 41.37 4.94
886 1576 4.778415 CTCGGACGTGGCGTGGAG 62.778 72.222 0.00 2.32 41.37 3.86
910 1770 1.984321 GAGCGACCCGAGTCTGACTC 61.984 65.000 24.50 24.50 41.16 3.36
952 1812 3.338126 CTGGTCGAGGTCGGGTTCG 62.338 68.421 0.00 0.00 40.29 3.95
977 1865 1.327690 CGTGCTGGCTAACCCTAGGA 61.328 60.000 11.48 0.00 33.59 2.94
978 1866 0.178301 GTGCTGGCTAACCCTAGGAC 59.822 60.000 11.48 0.00 33.59 3.85
995 1883 2.111255 AGGACTGGCCGGGTATATTAGA 59.889 50.000 18.00 0.00 43.43 2.10
996 1884 3.105283 GGACTGGCCGGGTATATTAGAT 58.895 50.000 18.00 0.00 0.00 1.98
1024 1912 2.202892 GGGTCGGATCCGCAACTC 60.203 66.667 29.62 19.29 39.59 3.01
1048 1936 4.759205 GGGGCTGGGGCACGATTT 62.759 66.667 0.00 0.00 44.06 2.17
1100 1991 0.317160 TCGTGGTTCGTGCTCTTCAT 59.683 50.000 0.00 0.00 40.80 2.57
1109 2000 3.267860 GCTCTTCATCGCCGGCTG 61.268 66.667 26.68 17.61 0.00 4.85
1110 2001 3.267860 CTCTTCATCGCCGGCTGC 61.268 66.667 26.68 0.00 0.00 5.25
1111 2002 4.838152 TCTTCATCGCCGGCTGCC 62.838 66.667 26.68 9.11 36.24 4.85
1141 2032 2.695646 GCCTCGCGCTACTTTTCG 59.304 61.111 5.56 0.00 0.00 3.46
1143 2034 1.989163 CCTCGCGCTACTTTTCGTC 59.011 57.895 5.56 0.00 0.00 4.20
1144 2035 1.619207 CTCGCGCTACTTTTCGTCG 59.381 57.895 5.56 0.00 0.00 5.12
1145 2036 0.791983 CTCGCGCTACTTTTCGTCGA 60.792 55.000 5.56 0.00 34.86 4.20
1146 2037 1.061799 TCGCGCTACTTTTCGTCGAC 61.062 55.000 5.56 5.18 32.66 4.20
1147 2038 1.336164 GCGCTACTTTTCGTCGACG 59.664 57.895 31.30 31.30 41.45 5.12
1149 2040 1.700595 GCTACTTTTCGTCGACGCC 59.299 57.895 32.19 9.07 39.60 5.68
1152 2043 4.464043 CTTTTCGTCGACGCCGCG 62.464 66.667 32.19 12.14 39.60 6.46
1177 2068 2.760799 CCACCCCGGACGACCATA 60.761 66.667 0.73 0.00 36.56 2.74
1182 3048 2.584143 CCGGACGACCATAACCGC 60.584 66.667 0.00 0.00 43.37 5.68
1227 3093 1.523258 CGGGAGGAATCAGCAGCAG 60.523 63.158 0.00 0.00 0.00 4.24
1228 3094 1.823041 GGGAGGAATCAGCAGCAGC 60.823 63.158 0.00 0.00 42.56 5.25
1229 3095 1.823041 GGAGGAATCAGCAGCAGCC 60.823 63.158 0.00 0.00 43.56 4.85
1231 3097 2.044650 GGAATCAGCAGCAGCCCA 60.045 61.111 0.00 0.00 43.56 5.36
1233 3099 2.749044 AATCAGCAGCAGCCCACG 60.749 61.111 0.00 0.00 43.56 4.94
1234 3100 4.790962 ATCAGCAGCAGCCCACGG 62.791 66.667 0.00 0.00 43.56 4.94
1313 4045 1.859427 AAGATGTGCGGCTTGTGCAG 61.859 55.000 0.00 0.00 44.21 4.41
1340 4072 4.142609 TGAAATACTGGTGCATCTCCTC 57.857 45.455 0.00 0.00 0.00 3.71
1363 4095 1.001760 TCTTCCTTCCTCCCTCCCG 59.998 63.158 0.00 0.00 0.00 5.14
1375 4107 2.270205 CTCCCGCTCCATGTTGCT 59.730 61.111 5.79 0.00 0.00 3.91
1381 4113 1.411394 CGCTCCATGTTGCTTGTTTG 58.589 50.000 5.79 0.00 0.00 2.93
1382 4114 1.787012 GCTCCATGTTGCTTGTTTGG 58.213 50.000 0.00 0.00 0.00 3.28
1384 4116 2.295909 GCTCCATGTTGCTTGTTTGGTA 59.704 45.455 0.00 0.00 0.00 3.25
1390 4127 6.373216 TCCATGTTGCTTGTTTGGTAGTATAC 59.627 38.462 0.00 0.00 42.04 1.47
1394 4131 9.627123 ATGTTGCTTGTTTGGTAGTATACATAT 57.373 29.630 5.50 0.00 45.43 1.78
1425 4162 5.807011 GCTTTTATGCCTGGTTTGATTGTAG 59.193 40.000 0.00 0.00 0.00 2.74
1439 4178 5.103290 TGATTGTAGAAAACTTCCAACGC 57.897 39.130 0.00 0.00 0.00 4.84
1444 4183 0.385598 GAAAACTTCCAACGCGCCTC 60.386 55.000 5.73 0.00 0.00 4.70
1446 4185 1.098712 AAACTTCCAACGCGCCTCAA 61.099 50.000 5.73 0.00 0.00 3.02
1458 4197 3.627577 ACGCGCCTCAATTCATCTTTAAT 59.372 39.130 5.73 0.00 0.00 1.40
1463 4222 5.067674 CGCCTCAATTCATCTTTAATTCCCA 59.932 40.000 0.00 0.00 0.00 4.37
1479 4238 3.899052 TCCCACAGGAAAGTTATACGG 57.101 47.619 0.00 0.00 40.08 4.02
1480 4239 3.175594 TCCCACAGGAAAGTTATACGGT 58.824 45.455 0.00 0.00 40.08 4.83
1518 4277 3.938963 ACGTGCTGTTTGTTATATCCTGG 59.061 43.478 0.00 0.00 0.00 4.45
1526 4285 4.938575 TTGTTATATCCTGGGTGTTGGT 57.061 40.909 0.00 0.00 0.00 3.67
1537 4296 4.525996 CTGGGTGTTGGTCATTATGATGA 58.474 43.478 0.00 0.00 39.92 2.92
1538 4297 4.525996 TGGGTGTTGGTCATTATGATGAG 58.474 43.478 0.00 0.00 42.73 2.90
1573 4332 5.354513 AGACTCATGAACAGCAGATGATTTG 59.645 40.000 0.00 0.00 0.00 2.32
1603 4362 3.907474 TCCCAACTCACATTCTTGGAGTA 59.093 43.478 0.00 0.00 40.80 2.59
1605 4364 4.263068 CCCAACTCACATTCTTGGAGTACT 60.263 45.833 0.00 0.00 40.80 2.73
1606 4365 4.692625 CCAACTCACATTCTTGGAGTACTG 59.307 45.833 0.00 0.00 40.80 2.74
1607 4366 5.300752 CAACTCACATTCTTGGAGTACTGT 58.699 41.667 0.00 0.00 40.80 3.55
1609 4368 5.300752 ACTCACATTCTTGGAGTACTGTTG 58.699 41.667 0.00 0.00 39.95 3.33
1611 4370 5.680619 TCACATTCTTGGAGTACTGTTGTT 58.319 37.500 0.00 0.00 0.00 2.83
1612 4371 5.527214 TCACATTCTTGGAGTACTGTTGTTG 59.473 40.000 0.00 0.00 0.00 3.33
1618 4387 7.925043 TCTTGGAGTACTGTTGTTGTTTAAA 57.075 32.000 0.00 0.00 0.00 1.52
1626 4395 8.565416 AGTACTGTTGTTGTTTAAATAGGCTTC 58.435 33.333 0.00 0.00 0.00 3.86
1631 4400 8.347035 TGTTGTTGTTTAAATAGGCTTCAGTAC 58.653 33.333 0.00 0.00 0.00 2.73
1634 4403 7.934665 TGTTGTTTAAATAGGCTTCAGTACTCA 59.065 33.333 0.00 0.00 0.00 3.41
1637 4406 8.780249 TGTTTAAATAGGCTTCAGTACTCAAAC 58.220 33.333 0.00 0.00 0.00 2.93
1639 4408 9.515226 TTTAAATAGGCTTCAGTACTCAAACAT 57.485 29.630 0.00 0.00 0.00 2.71
1641 4410 4.357918 AGGCTTCAGTACTCAAACATGT 57.642 40.909 0.00 0.00 0.00 3.21
1642 4411 4.067896 AGGCTTCAGTACTCAAACATGTG 58.932 43.478 0.00 0.00 0.00 3.21
1656 4425 1.001487 ACATGTGCACACGATTGTTGG 60.001 47.619 24.37 5.79 31.66 3.77
1658 4427 1.285641 GTGCACACGATTGTTGGGG 59.714 57.895 13.17 0.00 31.66 4.96
1673 4444 3.823873 TGTTGGGGCATGTTTTACACTAG 59.176 43.478 0.00 0.00 0.00 2.57
1674 4445 3.799432 TGGGGCATGTTTTACACTAGT 57.201 42.857 0.00 0.00 0.00 2.57
1692 4465 6.927936 ACACTAGTTCTTATATCATGCTGCTG 59.072 38.462 0.00 0.00 0.00 4.41
1697 4470 7.504403 AGTTCTTATATCATGCTGCTGTACTT 58.496 34.615 0.00 0.00 0.00 2.24
1698 4471 7.655328 AGTTCTTATATCATGCTGCTGTACTTC 59.345 37.037 0.00 0.00 0.00 3.01
1699 4472 7.295322 TCTTATATCATGCTGCTGTACTTCT 57.705 36.000 0.00 0.00 0.00 2.85
1700 4473 7.374272 TCTTATATCATGCTGCTGTACTTCTC 58.626 38.462 0.00 0.00 0.00 2.87
1702 4475 3.900966 TCATGCTGCTGTACTTCTCAT 57.099 42.857 0.00 0.00 0.00 2.90
1703 4476 3.528532 TCATGCTGCTGTACTTCTCATG 58.471 45.455 0.00 2.41 33.24 3.07
1704 4477 2.391616 TGCTGCTGTACTTCTCATGG 57.608 50.000 0.00 0.00 0.00 3.66
1706 4479 1.676916 GCTGCTGTACTTCTCATGGCA 60.677 52.381 0.00 0.00 0.00 4.92
1707 4480 2.915349 CTGCTGTACTTCTCATGGCAT 58.085 47.619 0.00 0.00 0.00 4.40
1711 4484 4.141642 TGCTGTACTTCTCATGGCATATGT 60.142 41.667 0.00 0.00 0.00 2.29
1712 4485 4.450419 GCTGTACTTCTCATGGCATATGTC 59.550 45.833 0.00 0.00 0.00 3.06
1713 4486 5.741383 GCTGTACTTCTCATGGCATATGTCT 60.741 44.000 9.09 0.00 0.00 3.41
1714 4487 6.239217 TGTACTTCTCATGGCATATGTCTT 57.761 37.500 9.09 0.00 0.00 3.01
1715 4488 7.360113 TGTACTTCTCATGGCATATGTCTTA 57.640 36.000 9.09 0.00 0.00 2.10
1716 4489 7.210174 TGTACTTCTCATGGCATATGTCTTAC 58.790 38.462 9.09 0.00 0.00 2.34
1717 4490 5.292765 ACTTCTCATGGCATATGTCTTACG 58.707 41.667 9.09 0.00 0.00 3.18
1723 4502 7.931407 TCTCATGGCATATGTCTTACGTTTATT 59.069 33.333 9.09 0.00 0.00 1.40
1787 4566 2.290367 TCTGACCACAAATTCAAGTGCG 59.710 45.455 0.00 0.00 34.48 5.34
1839 4618 0.690762 TTACCCTGTGGAGTTGAGGC 59.309 55.000 0.00 0.00 34.81 4.70
1842 4621 1.455849 CCTGTGGAGTTGAGGCCAA 59.544 57.895 5.01 0.00 35.63 4.52
1894 4673 3.319122 GGAGCAATGATTGTTATCCACCC 59.681 47.826 16.21 1.76 33.18 4.61
1897 4676 4.160252 AGCAATGATTGTTATCCACCCAAC 59.840 41.667 7.05 0.00 0.00 3.77
1924 4703 7.049133 AGAGGTCAAAGAATTCATCATCTCTG 58.951 38.462 8.44 0.00 0.00 3.35
1926 4705 7.575505 AGGTCAAAGAATTCATCATCTCTGAT 58.424 34.615 8.44 0.00 43.02 2.90
1962 4741 3.703001 AGTCCAAGTCAATGGTACTGG 57.297 47.619 0.00 0.00 41.46 4.00
1964 4743 3.074412 GTCCAAGTCAATGGTACTGGTG 58.926 50.000 0.00 0.00 41.46 4.17
1987 4766 0.544357 AGGATGGTCGAAGTCCCACA 60.544 55.000 8.02 0.00 33.94 4.17
2022 4801 0.179029 CCCACCAGAAACAGTCCGTT 60.179 55.000 0.00 0.00 40.50 4.44
2037 4816 1.544825 CCGTTGGAGAGGAAGGCTGA 61.545 60.000 0.00 0.00 0.00 4.26
2041 4820 1.566211 TGGAGAGGAAGGCTGAGAAG 58.434 55.000 0.00 0.00 0.00 2.85
2049 4828 0.903942 AAGGCTGAGAAGGAGCTGAG 59.096 55.000 0.00 0.00 36.63 3.35
2058 4837 2.571202 AGAAGGAGCTGAGAAAAGGAGG 59.429 50.000 0.00 0.00 0.00 4.30
2066 4845 3.341823 CTGAGAAAAGGAGGACATGGTG 58.658 50.000 0.00 0.00 0.00 4.17
2078 4857 2.297701 GACATGGTGTTGTGTTCCAGT 58.702 47.619 0.00 0.00 34.62 4.00
2082 4861 1.164041 GGTGTTGTGTTCCAGTCCGG 61.164 60.000 0.00 0.00 0.00 5.14
2096 4875 0.976073 GTCCGGGGTCCAAGAGATGA 60.976 60.000 0.00 0.00 0.00 2.92
2101 4880 2.122768 GGGGTCCAAGAGATGATCACT 58.877 52.381 0.00 0.00 0.00 3.41
2150 4929 1.563410 AGCAAGAGAAGGGATCAAGGG 59.437 52.381 0.00 0.00 0.00 3.95
2168 4947 2.308722 GGGATGGAGGTCAAGGCCA 61.309 63.158 5.01 0.00 35.91 5.36
2208 4987 5.240183 TGGCAATTGAAGAAGAGAAGTTGAG 59.760 40.000 10.34 0.00 0.00 3.02
2215 4994 5.600484 TGAAGAAGAGAAGTTGAGAGTCCTT 59.400 40.000 0.00 0.00 0.00 3.36
2280 5059 3.011818 TCATGTTCATGGACATCAGTGC 58.988 45.455 17.16 0.00 38.15 4.40
2284 5063 0.460811 TCATGGACATCAGTGCGCTC 60.461 55.000 9.73 4.74 39.20 5.03
2312 5091 7.220108 GTGAAACACAAAGAAAGTATGTGGAAC 59.780 37.037 9.61 1.85 46.67 3.62
2316 5095 8.691661 ACACAAAGAAAGTATGTGGAACTAAT 57.308 30.769 9.61 0.00 46.67 1.73
2366 5145 1.737816 GCGGGTGCTATTCGGAGTA 59.262 57.895 0.00 0.00 38.39 2.59
2372 5151 4.058817 GGGTGCTATTCGGAGTAGAAATG 58.941 47.826 11.29 0.00 33.43 2.32
2379 5158 3.095912 TCGGAGTAGAAATGGGACTGA 57.904 47.619 0.00 0.00 0.00 3.41
2420 5200 2.564062 CCCTGTTTCATGTTGAAGCCAT 59.436 45.455 0.00 0.00 37.70 4.40
2438 5218 7.282675 TGAAGCCATTGTTTCATGTTTGAATTT 59.717 29.630 0.00 0.00 41.38 1.82
2440 5220 6.766944 AGCCATTGTTTCATGTTTGAATTTGA 59.233 30.769 0.00 0.00 41.38 2.69
2442 5222 8.077386 GCCATTGTTTCATGTTTGAATTTGAAT 58.923 29.630 0.00 0.00 41.38 2.57
2445 5225 8.838452 TTGTTTCATGTTTGAATTTGAATTGC 57.162 26.923 0.00 0.00 41.38 3.56
2446 5226 7.982224 TGTTTCATGTTTGAATTTGAATTGCA 58.018 26.923 0.00 0.00 41.38 4.08
2515 5295 3.935203 AGTGCTCTTGAATTATGGTGACG 59.065 43.478 0.00 0.00 0.00 4.35
2534 5314 6.537301 GGTGACGTGAAAATGAAGTATCCATA 59.463 38.462 0.00 0.00 0.00 2.74
2576 5356 9.927668 AAATCAAGAAATAACAATGTTACTGGG 57.072 29.630 8.12 0.00 0.00 4.45
2577 5357 7.461182 TCAAGAAATAACAATGTTACTGGGG 57.539 36.000 8.12 0.00 0.00 4.96
2578 5358 5.914898 AGAAATAACAATGTTACTGGGGC 57.085 39.130 8.12 0.00 0.00 5.80
2579 5359 5.329399 AGAAATAACAATGTTACTGGGGCA 58.671 37.500 8.12 0.00 0.00 5.36
2580 5360 5.777732 AGAAATAACAATGTTACTGGGGCAA 59.222 36.000 8.12 0.00 0.00 4.52
2581 5361 5.400066 AATAACAATGTTACTGGGGCAAC 57.600 39.130 8.12 0.00 0.00 4.17
2681 5462 2.616842 CGAGCTTACCAACCACAAAGTT 59.383 45.455 0.00 0.00 0.00 2.66
2854 5635 0.468226 GGCTTCATCCCACCATCGTA 59.532 55.000 0.00 0.00 0.00 3.43
2965 5746 1.080230 CTCATAGCCATCGCCTCCG 60.080 63.158 0.00 0.00 34.57 4.63
2983 5764 1.064505 CCGTGGTAATTGCATCAGCTG 59.935 52.381 7.63 7.63 42.74 4.24
2997 5778 0.463295 CAGCTGCCACCGAGATGAAT 60.463 55.000 0.00 0.00 0.00 2.57
3022 5803 2.123988 TTGCGCGGCGATGAAGTTTT 62.124 50.000 28.54 0.00 0.00 2.43
3027 5808 2.010043 GCGGCGATGAAGTTTTCCCTA 61.010 52.381 12.98 0.00 0.00 3.53
3036 5817 6.423302 CGATGAAGTTTTCCCTATCATCTCTG 59.577 42.308 11.07 0.00 42.55 3.35
3051 5832 0.392193 CTCTGAGAATGGCAGCCGTT 60.392 55.000 19.55 19.55 35.16 4.44
3052 5833 0.674581 TCTGAGAATGGCAGCCGTTG 60.675 55.000 24.39 9.29 32.23 4.10
3366 7874 6.861065 TGCTCAAAAATAATAGATCCCGAC 57.139 37.500 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.295093 TGACAATGAAACATGTGGGTGT 58.705 40.909 0.00 0.00 0.00 4.16
1 2 4.487948 GATGACAATGAAACATGTGGGTG 58.512 43.478 0.00 0.00 0.00 4.61
2 3 3.191162 CGATGACAATGAAACATGTGGGT 59.809 43.478 0.00 0.00 0.00 4.51
3 4 3.427909 CCGATGACAATGAAACATGTGGG 60.428 47.826 0.00 0.00 0.00 4.61
4 5 3.439825 TCCGATGACAATGAAACATGTGG 59.560 43.478 0.00 0.00 0.00 4.17
5 6 4.683501 TCCGATGACAATGAAACATGTG 57.316 40.909 0.00 0.00 0.00 3.21
6 7 5.447683 CGAATCCGATGACAATGAAACATGT 60.448 40.000 0.00 0.00 38.22 3.21
7 8 4.965762 CGAATCCGATGACAATGAAACATG 59.034 41.667 0.00 0.00 38.22 3.21
8 9 4.875536 TCGAATCCGATGACAATGAAACAT 59.124 37.500 0.00 0.00 40.30 2.71
9 10 4.249661 TCGAATCCGATGACAATGAAACA 58.750 39.130 0.00 0.00 40.30 2.83
10 11 4.857871 TCGAATCCGATGACAATGAAAC 57.142 40.909 0.00 0.00 40.30 2.78
34 35 5.935448 GACAAAAGCTATGTCTAGTCGAC 57.065 43.478 19.96 7.70 43.03 4.20
42 43 6.112058 AGAAGATCCAGACAAAAGCTATGTC 58.888 40.000 19.74 19.74 45.94 3.06
43 44 6.059787 AGAAGATCCAGACAAAAGCTATGT 57.940 37.500 4.85 4.85 0.00 2.29
44 45 5.233902 CGAGAAGATCCAGACAAAAGCTATG 59.766 44.000 0.00 0.00 0.00 2.23
45 46 5.355596 CGAGAAGATCCAGACAAAAGCTAT 58.644 41.667 0.00 0.00 0.00 2.97
46 47 4.748892 CGAGAAGATCCAGACAAAAGCTA 58.251 43.478 0.00 0.00 0.00 3.32
47 48 3.594134 CGAGAAGATCCAGACAAAAGCT 58.406 45.455 0.00 0.00 0.00 3.74
48 49 2.095053 GCGAGAAGATCCAGACAAAAGC 59.905 50.000 0.00 0.00 0.00 3.51
49 50 2.346847 CGCGAGAAGATCCAGACAAAAG 59.653 50.000 0.00 0.00 0.00 2.27
50 51 2.337583 CGCGAGAAGATCCAGACAAAA 58.662 47.619 0.00 0.00 0.00 2.44
51 52 1.996292 CGCGAGAAGATCCAGACAAA 58.004 50.000 0.00 0.00 0.00 2.83
52 53 0.458543 GCGCGAGAAGATCCAGACAA 60.459 55.000 12.10 0.00 0.00 3.18
53 54 1.139734 GCGCGAGAAGATCCAGACA 59.860 57.895 12.10 0.00 0.00 3.41
54 55 0.179124 AAGCGCGAGAAGATCCAGAC 60.179 55.000 12.10 0.00 0.00 3.51
90 91 2.029110 GGTGGTGGTTGTTGAATGATGG 60.029 50.000 0.00 0.00 0.00 3.51
91 92 2.029110 GGGTGGTGGTTGTTGAATGATG 60.029 50.000 0.00 0.00 0.00 3.07
118 119 2.235402 TCTATTTCCGACCTTGGGTGAC 59.765 50.000 0.00 0.00 35.25 3.67
150 151 2.111043 CGTGTTGGCAGGGTCTGT 59.889 61.111 0.00 0.00 33.43 3.41
158 159 1.821759 CCAGTTGGACGTGTTGGCA 60.822 57.895 0.00 0.00 37.39 4.92
183 184 0.175760 GTCATGAGGCTGGCGAGTTA 59.824 55.000 0.00 0.00 0.00 2.24
203 204 1.846782 CGAATGCTACCGTTCTTCTCG 59.153 52.381 0.00 0.00 35.31 4.04
204 205 1.588861 GCGAATGCTACCGTTCTTCTC 59.411 52.381 0.00 0.00 38.39 2.87
222 223 1.225376 TTTGGTAGGTGTTGCTCGCG 61.225 55.000 0.00 0.00 0.00 5.87
223 224 0.948678 TTTTGGTAGGTGTTGCTCGC 59.051 50.000 0.00 0.00 0.00 5.03
281 282 2.344592 TGATGGAGTGGTAGTTTGGGT 58.655 47.619 0.00 0.00 0.00 4.51
285 286 3.513912 TGACGATGATGGAGTGGTAGTTT 59.486 43.478 0.00 0.00 0.00 2.66
334 335 1.599047 CACTGATGGGGCTCTCGTT 59.401 57.895 0.00 0.00 0.00 3.85
351 352 1.764723 CTAGTCTCATGGTGGATGGCA 59.235 52.381 0.00 0.00 32.26 4.92
417 422 2.949177 TTGTGTTAGTGGCTCATGGT 57.051 45.000 0.00 0.00 0.00 3.55
479 484 4.282496 ACCACAACCAAAATACCTTGTGA 58.718 39.130 10.25 0.00 44.12 3.58
522 527 0.409484 CATCCACCCTTTCCAACCCT 59.591 55.000 0.00 0.00 0.00 4.34
533 538 1.371558 GTCCTATCCGCATCCACCC 59.628 63.158 0.00 0.00 0.00 4.61
551 556 0.038159 ACCGAAGCGAAAGGTCTCTG 60.038 55.000 0.00 0.00 43.76 3.35
568 573 2.679082 TCTAAGGATAGAGGTGGCACC 58.321 52.381 29.32 29.32 38.99 5.01
572 577 5.535406 ACGTGTAATCTAAGGATAGAGGTGG 59.465 44.000 0.00 0.00 41.36 4.61
751 757 8.200792 ACAACATAAAAGGCTGTATTTTGTCAA 58.799 29.630 13.31 0.00 29.00 3.18
752 758 7.721402 ACAACATAAAAGGCTGTATTTTGTCA 58.279 30.769 13.31 0.00 29.00 3.58
753 759 8.082242 AGACAACATAAAAGGCTGTATTTTGTC 58.918 33.333 25.30 25.30 42.44 3.18
781 787 9.382244 CAACGAGTTTAGTTTCTTCCTTTTATG 57.618 33.333 0.00 0.00 0.00 1.90
782 788 8.565416 CCAACGAGTTTAGTTTCTTCCTTTTAT 58.435 33.333 0.00 0.00 0.00 1.40
783 789 7.769970 TCCAACGAGTTTAGTTTCTTCCTTTTA 59.230 33.333 0.00 0.00 0.00 1.52
787 793 5.070047 TCTCCAACGAGTTTAGTTTCTTCCT 59.930 40.000 0.00 0.00 37.40 3.36
789 795 5.751990 TGTCTCCAACGAGTTTAGTTTCTTC 59.248 40.000 0.00 0.00 37.40 2.87
793 799 5.644636 TGTTTGTCTCCAACGAGTTTAGTTT 59.355 36.000 0.00 0.00 37.40 2.66
794 800 5.180271 TGTTTGTCTCCAACGAGTTTAGTT 58.820 37.500 0.00 0.00 37.40 2.24
795 801 4.761975 TGTTTGTCTCCAACGAGTTTAGT 58.238 39.130 0.00 0.00 37.40 2.24
796 802 5.924475 ATGTTTGTCTCCAACGAGTTTAG 57.076 39.130 0.00 0.00 37.40 1.85
805 811 2.079170 TGGGCAATGTTTGTCTCCAA 57.921 45.000 0.00 0.00 35.12 3.53
830 836 2.851824 GACAGTGAAACCAACAAAAGCG 59.148 45.455 0.00 0.00 37.80 4.68
841 847 2.557924 TCATGGGCAATGACAGTGAAAC 59.442 45.455 7.16 0.00 40.50 2.78
844 850 2.583024 TTCATGGGCAATGACAGTGA 57.417 45.000 3.44 0.00 45.17 3.41
846 852 2.821969 GTCTTTCATGGGCAATGACAGT 59.178 45.455 15.79 0.00 45.17 3.55
847 853 3.087031 AGTCTTTCATGGGCAATGACAG 58.913 45.455 11.14 11.14 45.17 3.51
848 854 3.084039 GAGTCTTTCATGGGCAATGACA 58.916 45.455 3.44 0.00 45.17 3.58
849 855 3.350833 AGAGTCTTTCATGGGCAATGAC 58.649 45.455 3.44 0.00 45.17 3.06
851 857 2.353889 CGAGAGTCTTTCATGGGCAATG 59.646 50.000 0.00 0.00 37.66 2.82
852 858 2.636830 CGAGAGTCTTTCATGGGCAAT 58.363 47.619 0.00 0.00 0.00 3.56
853 859 1.339055 CCGAGAGTCTTTCATGGGCAA 60.339 52.381 0.00 0.00 0.00 4.52
854 860 0.250234 CCGAGAGTCTTTCATGGGCA 59.750 55.000 0.00 0.00 0.00 5.36
855 861 0.537188 TCCGAGAGTCTTTCATGGGC 59.463 55.000 0.00 0.00 0.00 5.36
857 863 1.202582 ACGTCCGAGAGTCTTTCATGG 59.797 52.381 0.00 0.00 0.00 3.66
905 1765 0.679002 CCGGACCCGAACTAGAGTCA 60.679 60.000 10.42 0.00 42.83 3.41
910 1770 2.421399 GGTCCCGGACCCGAACTAG 61.421 68.421 24.59 0.00 46.19 2.57
958 1818 1.144057 CCTAGGGTTAGCCAGCACG 59.856 63.158 0.00 0.00 36.17 5.34
962 1822 1.123928 CCAGTCCTAGGGTTAGCCAG 58.876 60.000 9.46 0.00 36.17 4.85
977 1865 5.586877 TCTAATCTAATATACCCGGCCAGT 58.413 41.667 2.24 1.20 0.00 4.00
978 1866 6.516718 CATCTAATCTAATATACCCGGCCAG 58.483 44.000 2.24 0.00 0.00 4.85
995 1883 0.399949 TCCGACCCCTGGCATCTAAT 60.400 55.000 0.00 0.00 0.00 1.73
996 1884 0.399949 ATCCGACCCCTGGCATCTAA 60.400 55.000 0.00 0.00 0.00 2.10
1035 1923 3.177600 CGACAAATCGTGCCCCAG 58.822 61.111 0.00 0.00 43.66 4.45
1125 2016 1.730593 CGACGAAAAGTAGCGCGAGG 61.731 60.000 12.10 0.00 32.04 4.63
1128 2019 1.336164 GTCGACGAAAAGTAGCGCG 59.664 57.895 0.00 0.00 0.00 6.86
1131 2022 1.700595 GGCGTCGACGAAAAGTAGC 59.299 57.895 39.74 19.57 43.02 3.58
1132 2023 1.978697 CGGCGTCGACGAAAAGTAG 59.021 57.895 39.74 17.55 43.02 2.57
1133 2024 2.082366 GCGGCGTCGACGAAAAGTA 61.082 57.895 39.74 0.00 43.02 2.24
1134 2025 3.400590 GCGGCGTCGACGAAAAGT 61.401 61.111 39.74 0.00 43.02 2.66
1160 2051 2.360767 TTATGGTCGTCCGGGGTGG 61.361 63.158 0.00 0.00 40.09 4.61
1161 2052 1.153509 GTTATGGTCGTCCGGGGTG 60.154 63.158 0.00 0.00 36.30 4.61
1162 2053 2.361567 GGTTATGGTCGTCCGGGGT 61.362 63.158 0.00 0.00 36.30 4.95
1163 2054 2.502577 GGTTATGGTCGTCCGGGG 59.497 66.667 0.00 0.00 36.30 5.73
1166 2057 2.584143 GGCGGTTATGGTCGTCCG 60.584 66.667 0.00 0.00 44.86 4.79
1167 2058 1.812507 GTGGCGGTTATGGTCGTCC 60.813 63.158 0.00 0.00 0.00 4.79
1168 2059 1.812507 GGTGGCGGTTATGGTCGTC 60.813 63.158 0.00 0.00 0.00 4.20
1170 2061 2.104253 GTGGTGGCGGTTATGGTCG 61.104 63.158 0.00 0.00 0.00 4.79
1171 2062 2.104253 CGTGGTGGCGGTTATGGTC 61.104 63.158 0.00 0.00 0.00 4.02
1173 2064 3.505184 GCGTGGTGGCGGTTATGG 61.505 66.667 0.00 0.00 0.00 2.74
1204 3070 4.241555 CTGATTCCTCCCGGGCGG 62.242 72.222 24.57 24.57 34.39 6.13
1206 3072 3.764160 CTGCTGATTCCTCCCGGGC 62.764 68.421 18.49 0.00 34.39 6.13
1209 3075 1.523258 CTGCTGCTGATTCCTCCCG 60.523 63.158 0.00 0.00 0.00 5.14
1210 3076 1.823041 GCTGCTGCTGATTCCTCCC 60.823 63.158 10.92 0.00 36.03 4.30
1211 3077 1.823041 GGCTGCTGCTGATTCCTCC 60.823 63.158 15.64 0.00 39.59 4.30
1212 3078 1.823041 GGGCTGCTGCTGATTCCTC 60.823 63.158 15.64 0.00 39.59 3.71
1213 3079 2.274760 GGGCTGCTGCTGATTCCT 59.725 61.111 15.64 0.00 39.59 3.36
1214 3080 2.044650 TGGGCTGCTGCTGATTCC 60.045 61.111 15.64 8.09 39.59 3.01
1216 3082 2.749044 CGTGGGCTGCTGCTGATT 60.749 61.111 15.64 0.00 39.59 2.57
1313 4045 2.285083 TGCACCAGTATTTCATACGCC 58.715 47.619 0.00 0.00 40.64 5.68
1333 4065 2.090775 GGAAGGAAGAGGAGGAGGAGAT 60.091 54.545 0.00 0.00 0.00 2.75
1340 4072 0.341609 AGGGAGGAAGGAAGAGGAGG 59.658 60.000 0.00 0.00 0.00 4.30
1363 4095 1.069049 ACCAAACAAGCAACATGGAGC 59.931 47.619 0.00 0.00 35.16 4.70
1375 4107 6.480651 CACGCCATATGTATACTACCAAACAA 59.519 38.462 4.17 0.00 0.00 2.83
1381 4113 3.194968 AGCCACGCCATATGTATACTACC 59.805 47.826 4.17 0.00 0.00 3.18
1382 4114 4.451629 AGCCACGCCATATGTATACTAC 57.548 45.455 4.17 0.00 0.00 2.73
1384 4116 4.351874 AAAGCCACGCCATATGTATACT 57.648 40.909 4.17 0.00 0.00 2.12
1390 4127 2.664916 GCATAAAAGCCACGCCATATG 58.335 47.619 0.00 0.00 0.00 1.78
1419 4156 3.608474 GCGCGTTGGAAGTTTTCTACAAT 60.608 43.478 8.43 0.00 32.46 2.71
1425 4162 0.385598 GAGGCGCGTTGGAAGTTTTC 60.386 55.000 8.43 0.00 0.00 2.29
1439 4178 5.067674 TGGGAATTAAAGATGAATTGAGGCG 59.932 40.000 0.00 0.00 0.00 5.52
1444 4183 7.408756 TCCTGTGGGAATTAAAGATGAATTG 57.591 36.000 0.00 0.00 38.93 2.32
1475 4234 7.623925 GCACGTTGGAAGATAAATTTTACCGTA 60.624 37.037 0.00 0.00 0.00 4.02
1476 4235 6.604930 CACGTTGGAAGATAAATTTTACCGT 58.395 36.000 0.00 0.00 0.00 4.83
1477 4236 5.510323 GCACGTTGGAAGATAAATTTTACCG 59.490 40.000 0.00 0.00 0.00 4.02
1478 4237 6.526674 CAGCACGTTGGAAGATAAATTTTACC 59.473 38.462 0.00 0.00 0.00 2.85
1479 4238 7.081976 ACAGCACGTTGGAAGATAAATTTTAC 58.918 34.615 0.00 0.00 0.00 2.01
1480 4239 7.209471 ACAGCACGTTGGAAGATAAATTTTA 57.791 32.000 0.00 0.00 0.00 1.52
1518 4277 5.185454 TGACTCATCATAATGACCAACACC 58.815 41.667 0.00 0.00 36.98 4.16
1537 4296 7.065563 GCTGTTCATGAGTCTATTCAATTGACT 59.934 37.037 13.54 13.54 45.62 3.41
1538 4297 7.148356 TGCTGTTCATGAGTCTATTCAATTGAC 60.148 37.037 7.89 3.97 35.66 3.18
1573 4332 1.048601 TGTGAGTTGGGACAGGAGTC 58.951 55.000 0.00 0.00 42.39 3.36
1603 4362 7.068226 ACTGAAGCCTATTTAAACAACAACAGT 59.932 33.333 0.00 0.00 0.00 3.55
1605 4364 7.341445 ACTGAAGCCTATTTAAACAACAACA 57.659 32.000 0.00 0.00 0.00 3.33
1606 4365 8.565416 AGTACTGAAGCCTATTTAAACAACAAC 58.435 33.333 0.00 0.00 0.00 3.32
1607 4366 8.685838 AGTACTGAAGCCTATTTAAACAACAA 57.314 30.769 0.00 0.00 0.00 2.83
1609 4368 8.319143 TGAGTACTGAAGCCTATTTAAACAAC 57.681 34.615 0.00 0.00 0.00 3.32
1611 4370 8.780249 GTTTGAGTACTGAAGCCTATTTAAACA 58.220 33.333 0.00 0.00 0.00 2.83
1612 4371 8.780249 TGTTTGAGTACTGAAGCCTATTTAAAC 58.220 33.333 0.00 0.00 0.00 2.01
1618 4387 5.877012 CACATGTTTGAGTACTGAAGCCTAT 59.123 40.000 0.00 0.00 0.00 2.57
1626 4395 3.604543 CGTGTGCACATGTTTGAGTACTG 60.605 47.826 27.52 3.29 31.99 2.74
1631 4400 2.975193 CAATCGTGTGCACATGTTTGAG 59.025 45.455 37.28 22.70 41.54 3.02
1634 4403 3.114809 CAACAATCGTGTGCACATGTTT 58.885 40.909 32.41 27.81 38.27 2.83
1637 4406 1.666599 CCCAACAATCGTGTGCACATG 60.667 52.381 29.46 29.46 38.27 3.21
1639 4408 1.451337 CCCCAACAATCGTGTGCACA 61.451 55.000 17.42 17.42 38.27 4.57
1641 4410 2.560119 GCCCCAACAATCGTGTGCA 61.560 57.895 0.00 0.00 38.27 4.57
1642 4411 1.876497 ATGCCCCAACAATCGTGTGC 61.876 55.000 0.00 0.00 38.27 4.57
1656 4425 5.959618 AAGAACTAGTGTAAAACATGCCC 57.040 39.130 0.00 0.00 0.00 5.36
1673 4444 7.655328 AGAAGTACAGCAGCATGATATAAGAAC 59.345 37.037 0.00 0.00 39.69 3.01
1674 4445 7.730084 AGAAGTACAGCAGCATGATATAAGAA 58.270 34.615 0.00 0.00 39.69 2.52
1692 4465 6.363626 CGTAAGACATATGCCATGAGAAGTAC 59.636 42.308 1.58 0.00 43.02 2.73
1697 4470 4.937201 ACGTAAGACATATGCCATGAGA 57.063 40.909 1.58 0.00 43.62 3.27
1698 4471 5.991328 AAACGTAAGACATATGCCATGAG 57.009 39.130 1.58 0.00 43.62 2.90
1699 4472 8.445275 AAATAAACGTAAGACATATGCCATGA 57.555 30.769 1.58 0.00 43.62 3.07
1700 4473 9.169468 GAAAATAAACGTAAGACATATGCCATG 57.831 33.333 1.58 0.00 43.62 3.66
1702 4475 8.500753 AGAAAATAAACGTAAGACATATGCCA 57.499 30.769 1.58 0.00 43.62 4.92
1723 4502 7.822334 TGGCATTCTCGAGAACTAAATAAGAAA 59.178 33.333 29.24 3.41 36.80 2.52
1729 4508 5.091261 ACTGGCATTCTCGAGAACTAAAT 57.909 39.130 29.24 11.17 36.80 1.40
1787 4566 6.489361 ACAGGATCCAATAATCTCATTTGCTC 59.511 38.462 15.82 0.00 0.00 4.26
1839 4618 4.994852 TCTTCTCATTGTTCTTACCGTTGG 59.005 41.667 0.00 0.00 0.00 3.77
1842 4621 4.527038 TCCTCTTCTCATTGTTCTTACCGT 59.473 41.667 0.00 0.00 0.00 4.83
1894 4673 6.973843 TGATGAATTCTTTGACCTCTTGTTG 58.026 36.000 7.05 0.00 0.00 3.33
1897 4676 7.553402 AGAGATGATGAATTCTTTGACCTCTTG 59.447 37.037 7.05 0.00 0.00 3.02
1924 4703 3.058639 GGACTTGCTCTGTGTCAAACATC 60.059 47.826 0.00 0.00 38.39 3.06
1926 4705 2.288666 GGACTTGCTCTGTGTCAAACA 58.711 47.619 0.00 0.00 37.22 2.83
1937 4716 2.508526 ACCATTGACTTGGACTTGCTC 58.491 47.619 0.00 0.00 39.25 4.26
1962 4741 2.482142 GGACTTCGACCATCCTCATCAC 60.482 54.545 2.21 0.00 0.00 3.06
1964 4743 1.069358 GGGACTTCGACCATCCTCATC 59.931 57.143 8.32 0.00 32.70 2.92
2001 4780 1.966451 GGACTGTTTCTGGTGGGCG 60.966 63.158 0.00 0.00 0.00 6.13
2022 4801 1.566211 CTTCTCAGCCTTCCTCTCCA 58.434 55.000 0.00 0.00 0.00 3.86
2037 4816 2.571202 CCTCCTTTTCTCAGCTCCTTCT 59.429 50.000 0.00 0.00 0.00 2.85
2041 4820 1.625818 TGTCCTCCTTTTCTCAGCTCC 59.374 52.381 0.00 0.00 0.00 4.70
2049 4828 3.004734 CACAACACCATGTCCTCCTTTTC 59.995 47.826 0.00 0.00 0.00 2.29
2058 4837 2.290641 GACTGGAACACAACACCATGTC 59.709 50.000 0.00 0.00 33.08 3.06
2066 4845 1.599797 CCCCGGACTGGAACACAAC 60.600 63.158 0.73 0.00 42.00 3.32
2078 4857 0.031111 ATCATCTCTTGGACCCCGGA 60.031 55.000 0.73 0.00 0.00 5.14
2082 4861 2.503356 ACAGTGATCATCTCTTGGACCC 59.497 50.000 0.00 0.00 0.00 4.46
2126 4905 4.525874 CCTTGATCCCTTCTCTTGCTTTTT 59.474 41.667 0.00 0.00 0.00 1.94
2150 4929 1.649271 ATGGCCTTGACCTCCATCCC 61.649 60.000 3.32 0.00 35.85 3.85
2168 4947 2.270205 CACCTTGCGCTCCTCCAT 59.730 61.111 9.73 0.00 0.00 3.41
2215 4994 6.440647 TCTTCTTTAGGCACATTTCCTCTCTA 59.559 38.462 0.00 0.00 35.21 2.43
2222 5001 5.449725 GCTCCATCTTCTTTAGGCACATTTC 60.450 44.000 0.00 0.00 0.00 2.17
2280 5059 3.673746 TTCTTTGTGTTTCACTGAGCG 57.326 42.857 1.72 0.00 35.11 5.03
2284 5063 6.692681 CCACATACTTTCTTTGTGTTTCACTG 59.307 38.462 0.00 0.00 39.23 3.66
2290 5069 8.514330 TTAGTTCCACATACTTTCTTTGTGTT 57.486 30.769 0.00 0.00 39.23 3.32
2312 5091 1.083401 GAATCCGCGCACGCATTAG 60.083 57.895 16.04 0.58 42.06 1.73
2316 5095 2.582226 CTAGAATCCGCGCACGCA 60.582 61.111 16.04 0.00 42.06 5.24
2329 5108 1.696336 GCTCCCATCCTTGATGCTAGA 59.304 52.381 0.00 0.00 38.59 2.43
2356 5135 5.205821 TCAGTCCCATTTCTACTCCGAATA 58.794 41.667 0.00 0.00 0.00 1.75
2357 5136 4.030913 TCAGTCCCATTTCTACTCCGAAT 58.969 43.478 0.00 0.00 0.00 3.34
2360 5139 2.761208 ACTCAGTCCCATTTCTACTCCG 59.239 50.000 0.00 0.00 0.00 4.63
2366 5145 2.575279 AGCATCACTCAGTCCCATTTCT 59.425 45.455 0.00 0.00 0.00 2.52
2379 5158 3.430929 GGGATCAAACGTAGAGCATCACT 60.431 47.826 8.20 0.00 37.82 3.41
2420 5200 8.456471 TGCAATTCAAATTCAAACATGAAACAA 58.544 25.926 0.00 0.00 35.62 2.83
2486 5266 7.912250 CACCATAATTCAAGAGCACTATGTTTC 59.088 37.037 0.00 0.00 0.00 2.78
2551 5331 8.531146 CCCCAGTAACATTGTTATTTCTTGATT 58.469 33.333 12.16 0.00 0.00 2.57
2557 5337 5.652994 TGCCCCAGTAACATTGTTATTTC 57.347 39.130 12.16 0.71 0.00 2.17
2558 5338 5.279758 GGTTGCCCCAGTAACATTGTTATTT 60.280 40.000 12.16 2.29 40.08 1.40
2559 5339 4.221924 GGTTGCCCCAGTAACATTGTTATT 59.778 41.667 12.16 5.69 40.08 1.40
2560 5340 3.767131 GGTTGCCCCAGTAACATTGTTAT 59.233 43.478 12.16 0.19 40.08 1.89
2561 5341 3.158676 GGTTGCCCCAGTAACATTGTTA 58.841 45.455 5.14 5.14 40.08 2.41
2562 5342 1.967779 GGTTGCCCCAGTAACATTGTT 59.032 47.619 7.30 7.30 40.08 2.83
2563 5343 1.627864 GGTTGCCCCAGTAACATTGT 58.372 50.000 0.00 0.00 40.08 2.71
2574 5354 5.358840 AACACTATGTTATTGGGTTGCCCC 61.359 45.833 1.23 0.00 44.67 5.80
2575 5355 3.361786 ACACTATGTTATTGGGTTGCCC 58.638 45.455 0.00 0.00 45.71 5.36
2576 5356 5.400066 AAACACTATGTTATTGGGTTGCC 57.600 39.130 0.00 0.00 40.14 4.52
2681 5462 1.547372 GTTGGTTAGACGAGCCACCTA 59.453 52.381 0.00 0.00 31.19 3.08
2854 5635 9.959721 AGTAATCAACTTTTGTACTGGTCATAT 57.040 29.630 0.00 0.00 33.35 1.78
2983 5764 4.601019 CAATGTAAATTCATCTCGGTGGC 58.399 43.478 0.00 0.00 0.00 5.01
2988 5769 2.960266 CGCGCAATGTAAATTCATCTCG 59.040 45.455 8.75 0.00 0.00 4.04
2997 5778 1.061729 CATCGCCGCGCAATGTAAA 59.938 52.632 8.75 0.00 0.00 2.01
3022 5803 3.837146 GCCATTCTCAGAGATGATAGGGA 59.163 47.826 0.00 0.00 0.00 4.20
3027 5808 2.224572 GGCTGCCATTCTCAGAGATGAT 60.225 50.000 15.17 0.00 33.54 2.45
3036 5817 2.486966 GCAACGGCTGCCATTCTC 59.513 61.111 20.29 0.00 46.13 2.87
3366 7874 3.636231 TCCTTGCCGGTGGACAGG 61.636 66.667 1.90 1.56 0.00 4.00


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

AutoCloner maintained by Alex Coulton.