Multiple sequence alignment - TraesCS6D01G330700

Loading Multiple Alignment...

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 TraesCS6D01G330700 chr6D 100.000 7770 0 0 1 7770 433895939 433903708 0.000000e+00 14349.0
1 TraesCS6D01G330700 chr6A 93.882 4070 159 37 1150 5175 580155949 580159972 0.000000e+00 6054.0
2 TraesCS6D01G330700 chr6A 94.715 1192 58 4 5174 6364 580160005 580161192 0.000000e+00 1847.0
3 TraesCS6D01G330700 chr6A 88.751 889 70 15 6652 7522 580161226 580162102 0.000000e+00 1061.0
4 TraesCS6D01G330700 chr6A 92.135 712 48 6 6812 7522 580162791 580163495 0.000000e+00 998.0
5 TraesCS6D01G330700 chr6A 95.853 217 6 3 7556 7770 580163494 580163709 1.600000e-91 348.0
6 TraesCS6D01G330700 chr6A 94.009 217 9 4 7556 7770 580162101 580162315 7.520000e-85 326.0
7 TraesCS6D01G330700 chr4B 89.017 3123 232 55 1782 4836 70567237 70570316 0.000000e+00 3764.0
8 TraesCS6D01G330700 chr4B 94.789 1017 43 2 7 1023 615341218 615340212 0.000000e+00 1576.0
9 TraesCS6D01G330700 chr4B 83.787 771 81 19 5855 6623 70571186 70571914 0.000000e+00 691.0
10 TraesCS6D01G330700 chr4B 84.615 624 46 17 5174 5774 70570592 70571188 6.760000e-160 575.0
11 TraesCS6D01G330700 chr6B 95.652 2300 61 15 1752 4026 656165625 656167910 0.000000e+00 3657.0
12 TraesCS6D01G330700 chr6B 97.588 1161 26 2 4017 5175 656168325 656169485 0.000000e+00 1988.0
13 TraesCS6D01G330700 chr6B 95.699 930 29 6 5174 6097 656169516 656170440 0.000000e+00 1485.0
14 TraesCS6D01G330700 chr6B 95.032 624 30 1 6096 6718 656170557 656171180 0.000000e+00 979.0
15 TraesCS6D01G330700 chr6B 90.000 590 22 7 1037 1621 656164929 656165486 0.000000e+00 728.0
16 TraesCS6D01G330700 chr6B 97.436 39 1 0 1620 1658 656165574 656165612 5.030000e-07 67.6
17 TraesCS6D01G330700 chr4A 87.768 1962 143 41 2919 4836 549806563 549804655 0.000000e+00 2204.0
18 TraesCS6D01G330700 chr4A 85.438 982 92 22 1751 2691 549807567 549806596 0.000000e+00 974.0
19 TraesCS6D01G330700 chr4A 85.733 778 66 13 5858 6626 549803781 549803040 0.000000e+00 780.0
20 TraesCS6D01G330700 chr4A 84.469 631 42 18 5174 5774 549804386 549803782 8.750000e-159 571.0
21 TraesCS6D01G330700 chr4A 90.291 103 4 2 4848 4945 37060207 37060106 6.330000e-26 130.0
22 TraesCS6D01G330700 chr4D 89.415 1606 117 26 3258 4836 47982714 47984293 0.000000e+00 1975.0
23 TraesCS6D01G330700 chr4D 91.064 761 43 10 2529 3268 47981052 47981808 0.000000e+00 1005.0
24 TraesCS6D01G330700 chr4D 88.544 742 59 13 1782 2505 47980326 47981059 0.000000e+00 876.0
25 TraesCS6D01G330700 chr4D 86.623 770 68 6 5855 6623 47985110 47985845 0.000000e+00 819.0
26 TraesCS6D01G330700 chr4D 84.653 606 61 14 5174 5774 47984534 47985112 6.760000e-160 575.0
27 TraesCS6D01G330700 chr4D 90.099 101 4 2 4845 4939 414999662 414999562 8.180000e-25 126.0
28 TraesCS6D01G330700 chr7D 96.875 1024 28 2 1 1023 88372806 88373826 0.000000e+00 1711.0
29 TraesCS6D01G330700 chr7D 79.881 1009 198 3 16 1023 6089383 6088379 0.000000e+00 734.0
30 TraesCS6D01G330700 chr3A 92.000 1025 77 3 1 1024 213240530 213241550 0.000000e+00 1434.0
31 TraesCS6D01G330700 chr3A 84.555 1023 154 4 1 1023 534190549 534191567 0.000000e+00 1011.0
32 TraesCS6D01G330700 chr3A 89.524 105 6 1 4840 4939 470095674 470095778 2.280000e-25 128.0
33 TraesCS6D01G330700 chr2D 89.216 1020 106 2 5 1023 76437134 76438150 0.000000e+00 1271.0
34 TraesCS6D01G330700 chr3B 84.848 1023 152 3 1 1023 382315863 382314844 0.000000e+00 1027.0
35 TraesCS6D01G330700 chr3B 90.909 176 15 1 1550 1724 742162969 742163144 1.300000e-57 235.0
36 TraesCS6D01G330700 chr7B 95.663 415 18 0 1 415 540053389 540052975 0.000000e+00 667.0
37 TraesCS6D01G330700 chr7A 78.416 1010 210 6 16 1023 221964264 221963261 0.000000e+00 651.0
38 TraesCS6D01G330700 chrUn 89.831 177 16 2 1550 1724 36442296 36442120 7.840000e-55 226.0
39 TraesCS6D01G330700 chr5D 91.339 127 9 2 2041 2165 529452470 529452596 1.040000e-38 172.0
40 TraesCS6D01G330700 chr5D 91.919 99 3 1 4848 4941 139441012 139440914 4.890000e-27 134.0
41 TraesCS6D01G330700 chr5D 90.909 99 4 2 4847 4940 481427105 481427203 2.280000e-25 128.0
42 TraesCS6D01G330700 chr5D 91.111 45 4 0 7117 7161 245382253 245382209 2.340000e-05 62.1
43 TraesCS6D01G330700 chr1B 91.753 97 4 2 4845 4939 668187726 668187632 1.760000e-26 132.0
44 TraesCS6D01G330700 chr5B 90.196 102 5 1 4845 4941 166379083 166379184 2.280000e-25 128.0


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 TraesCS6D01G330700 chr6D 433895939 433903708 7769 False 14349.000000 14349 100.000000 1 7770 1 chr6D.!!$F1 7769
1 TraesCS6D01G330700 chr6A 580155949 580163709 7760 False 1772.333333 6054 93.224167 1150 7770 6 chr6A.!!$F1 6620
2 TraesCS6D01G330700 chr4B 70567237 70571914 4677 False 1676.666667 3764 85.806333 1782 6623 3 chr4B.!!$F1 4841
3 TraesCS6D01G330700 chr4B 615340212 615341218 1006 True 1576.000000 1576 94.789000 7 1023 1 chr4B.!!$R1 1016
4 TraesCS6D01G330700 chr6B 656164929 656171180 6251 False 1484.100000 3657 95.234500 1037 6718 6 chr6B.!!$F1 5681
5 TraesCS6D01G330700 chr4A 549803040 549807567 4527 True 1132.250000 2204 85.852000 1751 6626 4 chr4A.!!$R2 4875
6 TraesCS6D01G330700 chr4D 47980326 47985845 5519 False 1050.000000 1975 88.059800 1782 6623 5 chr4D.!!$F1 4841
7 TraesCS6D01G330700 chr7D 88372806 88373826 1020 False 1711.000000 1711 96.875000 1 1023 1 chr7D.!!$F1 1022
8 TraesCS6D01G330700 chr7D 6088379 6089383 1004 True 734.000000 734 79.881000 16 1023 1 chr7D.!!$R1 1007
9 TraesCS6D01G330700 chr3A 213240530 213241550 1020 False 1434.000000 1434 92.000000 1 1024 1 chr3A.!!$F1 1023
10 TraesCS6D01G330700 chr3A 534190549 534191567 1018 False 1011.000000 1011 84.555000 1 1023 1 chr3A.!!$F3 1022
11 TraesCS6D01G330700 chr2D 76437134 76438150 1016 False 1271.000000 1271 89.216000 5 1023 1 chr2D.!!$F1 1018
12 TraesCS6D01G330700 chr3B 382314844 382315863 1019 True 1027.000000 1027 84.848000 1 1023 1 chr3B.!!$R1 1022
13 TraesCS6D01G330700 chr7A 221963261 221964264 1003 True 651.000000 651 78.416000 16 1023 1 chr7A.!!$R1 1007

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
201 202 1.048160 TGAGCGCTCCATCCACCATA 61.048 55.000 33.23 8.85 0.00 2.74 F
1071 1075 0.322456 TGAGAACCCCAGCAAATCCG 60.322 55.000 0.00 0.00 0.00 4.18 F
1777 1884 0.396060 GTTGCAAATTCCCTTGGCCA 59.604 50.000 0.00 0.00 0.00 5.36 F
1825 1936 0.590195 GCAAGTGCCACTCTGAACTG 59.410 55.000 0.00 0.00 34.31 3.16 F
1952 2084 0.960364 CCAATGGTGTCCTTCCACGG 60.960 60.000 0.00 0.00 37.81 4.94 F
2806 2968 2.426522 TCCATCAGTGCTGCAGTAAAC 58.573 47.619 16.64 11.54 0.00 2.01 F
3361 4472 4.223923 AGATCTAACTTGGACCCACAGAAG 59.776 45.833 0.00 0.00 0.00 2.85 F
5025 6623 2.218759 CACACGTTCTACTGTTCACTGC 59.781 50.000 0.00 0.00 0.00 4.40 F
5621 7293 0.322906 CCCTTTCTGCTCCCCAAGAC 60.323 60.000 0.00 0.00 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1827 1938 0.036732 TGCGGTTCAGCAGAGGAAAT 59.963 50.0 0.00 0.0 42.92 2.17 R
2165 2297 0.734889 GTGACGGCGGCTAGTACTAA 59.265 55.0 16.45 0.0 0.00 2.24 R
2817 2979 1.349067 ACCTGCCCTTACTCTCGTTT 58.651 50.0 0.00 0.0 0.00 3.60 R
2852 3014 2.524569 TTGTCATGTGTTCGCTCAGA 57.475 45.0 0.00 0.0 0.00 3.27 R
3651 4765 5.065090 CCTGCAATTGAAAGATGTATCGTGA 59.935 40.0 10.34 0.0 0.00 4.35 R
4379 5970 0.321671 GTGGCAGGTGAGCTGTAGAA 59.678 55.0 13.65 0.0 34.17 2.10 R
5045 6643 2.606725 CGAGTGCACCAGAGAATTGATC 59.393 50.0 14.63 0.0 0.00 2.92 R
6726 8552 0.035343 TCAACCCAAACGGACACACA 60.035 50.0 0.00 0.0 34.64 3.72 R
7548 10768 0.176219 AGACCAACGTTTGTCCGTCA 59.824 50.0 24.31 0.0 40.85 4.35 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
51 52 1.913262 ACGACAGCCCTGATCCACA 60.913 57.895 1.69 0.00 0.00 4.17
201 202 1.048160 TGAGCGCTCCATCCACCATA 61.048 55.000 33.23 8.85 0.00 2.74
315 316 1.606889 GACCACCTCCTCGTCCTGT 60.607 63.158 0.00 0.00 0.00 4.00
652 654 1.135139 CATTCACCACGATCCTCGAGT 59.865 52.381 12.31 0.00 43.74 4.18
888 891 2.304180 AGCAGACTGGTTAATGCTCACT 59.696 45.455 0.07 0.00 45.57 3.41
967 970 2.662866 AGCAATGCACCAAGCTGATAT 58.337 42.857 8.35 0.00 45.94 1.63
968 971 3.028850 AGCAATGCACCAAGCTGATATT 58.971 40.909 8.35 0.00 45.94 1.28
969 972 4.209538 AGCAATGCACCAAGCTGATATTA 58.790 39.130 8.35 0.00 45.94 0.98
986 989 9.717942 GCTGATATTAGGTCTGAAGTCATTAAT 57.282 33.333 0.00 0.00 0.00 1.40
1003 1006 1.102978 AATACAACATGCTTCCGGGC 58.897 50.000 0.00 0.00 0.00 6.13
1024 1027 5.595952 GGGCTTTTTGGAATGAGAGTGATAT 59.404 40.000 0.00 0.00 0.00 1.63
1025 1028 6.772716 GGGCTTTTTGGAATGAGAGTGATATA 59.227 38.462 0.00 0.00 0.00 0.86
1026 1029 7.449704 GGGCTTTTTGGAATGAGAGTGATATAT 59.550 37.037 0.00 0.00 0.00 0.86
1027 1030 8.854117 GGCTTTTTGGAATGAGAGTGATATATT 58.146 33.333 0.00 0.00 0.00 1.28
1054 1057 4.952460 ACTACTCTAAAACTTGCCGTTGA 58.048 39.130 0.00 0.00 35.61 3.18
1055 1058 4.989168 ACTACTCTAAAACTTGCCGTTGAG 59.011 41.667 0.00 0.00 35.61 3.02
1071 1075 0.322456 TGAGAACCCCAGCAAATCCG 60.322 55.000 0.00 0.00 0.00 4.18
1081 1085 2.457778 GCAAATCCGCCGCGAGTTA 61.458 57.895 15.93 0.00 0.00 2.24
1082 1086 1.973137 GCAAATCCGCCGCGAGTTAA 61.973 55.000 15.93 0.00 0.00 2.01
1083 1087 0.444651 CAAATCCGCCGCGAGTTAAA 59.555 50.000 15.93 0.00 0.00 1.52
1119 1124 3.822192 CACGACCCGATCTCGCCA 61.822 66.667 3.00 0.00 38.18 5.69
1139 1144 2.108970 ACCCAAGATCTTCCGGTCTAC 58.891 52.381 15.28 0.00 0.00 2.59
1224 1229 1.583495 CCAGAGGTAGCACGACGTCA 61.583 60.000 17.16 0.00 36.82 4.35
1268 1273 2.830514 CCTTATTCCCCCTCCCCGC 61.831 68.421 0.00 0.00 0.00 6.13
1429 1437 6.594159 TGTACAGAGAGCTTTTTATGGCTAAC 59.406 38.462 0.00 0.00 39.05 2.34
1492 1500 4.744570 TGTACAGAGAGCCTAATTCGTTG 58.255 43.478 0.00 0.00 0.00 4.10
1497 1505 4.811024 CAGAGAGCCTAATTCGTTGCATAA 59.189 41.667 0.00 0.00 0.00 1.90
1598 1616 2.642139 TTAGGTGGTAAGAACGAGCG 57.358 50.000 0.00 0.00 36.98 5.03
1659 1766 8.579006 TGTGCTCAGATCTAATTTTGTTGATTT 58.421 29.630 0.00 0.00 0.00 2.17
1759 1866 2.552315 GTTGACACCAATCCAATCGTGT 59.448 45.455 0.00 0.00 41.97 4.49
1775 1882 1.511850 GTGTTGCAAATTCCCTTGGC 58.488 50.000 0.00 0.00 0.00 4.52
1777 1884 0.396060 GTTGCAAATTCCCTTGGCCA 59.604 50.000 0.00 0.00 0.00 5.36
1824 1935 0.882042 CGCAAGTGCCACTCTGAACT 60.882 55.000 0.00 0.00 37.91 3.01
1825 1936 0.590195 GCAAGTGCCACTCTGAACTG 59.410 55.000 0.00 0.00 34.31 3.16
1826 1937 1.811558 GCAAGTGCCACTCTGAACTGA 60.812 52.381 0.00 0.00 34.31 3.41
1827 1938 2.564771 CAAGTGCCACTCTGAACTGAA 58.435 47.619 0.00 0.00 0.00 3.02
1828 1939 3.144506 CAAGTGCCACTCTGAACTGAAT 58.855 45.455 0.00 0.00 0.00 2.57
1829 1940 3.498774 AGTGCCACTCTGAACTGAATT 57.501 42.857 0.00 0.00 0.00 2.17
1830 1941 3.825328 AGTGCCACTCTGAACTGAATTT 58.175 40.909 0.00 0.00 0.00 1.82
1831 1942 3.817647 AGTGCCACTCTGAACTGAATTTC 59.182 43.478 0.00 0.00 0.00 2.17
1832 1943 3.057946 GTGCCACTCTGAACTGAATTTCC 60.058 47.826 0.00 0.00 0.00 3.13
1833 1944 3.181440 TGCCACTCTGAACTGAATTTCCT 60.181 43.478 0.00 0.00 0.00 3.36
1834 1945 3.438434 GCCACTCTGAACTGAATTTCCTC 59.562 47.826 0.00 0.00 0.00 3.71
1835 1946 4.805609 GCCACTCTGAACTGAATTTCCTCT 60.806 45.833 0.00 0.00 0.00 3.69
1852 1975 2.203195 TGCTGAACCGCAAGCAGT 60.203 55.556 0.00 0.00 36.89 4.40
1952 2084 0.960364 CCAATGGTGTCCTTCCACGG 60.960 60.000 0.00 0.00 37.81 4.94
2134 2266 3.753434 CTCACGCTCTGCCTCGGT 61.753 66.667 0.00 0.00 0.00 4.69
2165 2297 2.959707 CCCTTCAAGCTCTACGAGGTAT 59.040 50.000 0.00 0.00 39.62 2.73
2351 2495 5.493133 TTTGTTACGATGTGCAGAGTTTT 57.507 34.783 0.00 0.00 0.00 2.43
2754 2916 3.066380 GGCAATTCATGTTTCCAACCAC 58.934 45.455 0.00 0.00 0.00 4.16
2806 2968 2.426522 TCCATCAGTGCTGCAGTAAAC 58.573 47.619 16.64 11.54 0.00 2.01
2817 2979 6.975772 AGTGCTGCAGTAAACGAAAAATTAAA 59.024 30.769 16.64 0.00 0.00 1.52
3003 3167 7.927629 TCTTATTTGAGCTTCAGTTTTGCATTT 59.072 29.630 0.00 0.00 0.00 2.32
3361 4472 4.223923 AGATCTAACTTGGACCCACAGAAG 59.776 45.833 0.00 0.00 0.00 2.85
3651 4765 7.346751 TCTCTTTGGAACTGTTTGCTAAATT 57.653 32.000 0.00 0.00 0.00 1.82
4080 5652 9.208022 GACGGTATCATTCATCAATTCAGATTA 57.792 33.333 0.00 0.00 0.00 1.75
4210 5801 4.385825 TGTTTGTAGTTCATCTGTGGGAC 58.614 43.478 0.00 0.00 0.00 4.46
4282 5873 9.926158 TTGCAATGCTTAATGATTTTCTTTCTA 57.074 25.926 6.82 0.00 0.00 2.10
4283 5874 9.926158 TGCAATGCTTAATGATTTTCTTTCTAA 57.074 25.926 6.82 0.00 0.00 2.10
4800 6393 7.350382 TCTAGTTATGGGCAATTGTGGATAAA 58.650 34.615 7.40 0.00 0.00 1.40
4810 6403 7.093945 GGGCAATTGTGGATAAAAACTTCTAGA 60.094 37.037 7.40 0.00 0.00 2.43
4911 6504 5.506708 AGGTTGACCTTAGTTCAAAACTGT 58.493 37.500 0.00 0.00 46.09 3.55
5025 6623 2.218759 CACACGTTCTACTGTTCACTGC 59.781 50.000 0.00 0.00 0.00 4.40
5190 6824 1.750778 CACTTGGTTGCTTGACTTGGT 59.249 47.619 0.00 0.00 0.00 3.67
5249 6888 8.404000 TCTACTCCGTATTTGACTAAGATTCAC 58.596 37.037 0.00 0.00 0.00 3.18
5553 7224 9.846248 AAGCTAAATGTTTCTTTGCTTATACTG 57.154 29.630 0.00 0.00 34.12 2.74
5621 7293 0.322906 CCCTTTCTGCTCCCCAAGAC 60.323 60.000 0.00 0.00 0.00 3.01
5660 7333 3.243367 TGAAATTGACCTTGCAGTTTCCG 60.243 43.478 0.00 0.00 41.20 4.30
5806 7479 8.587608 ACAACTGGTTTCATTGATAATGTCATT 58.412 29.630 3.06 3.06 39.87 2.57
5942 7615 1.464997 GTTCTGAACTCGGTCAATGCC 59.535 52.381 13.13 0.00 0.00 4.40
5964 7640 5.462068 GCCTGCGAAAACATTTACTTTTCTT 59.538 36.000 0.00 0.00 36.06 2.52
5986 7662 5.357742 TGAGCTGGCTATCTTAAACATCA 57.642 39.130 0.00 0.00 0.00 3.07
6118 7913 7.935755 ACCTAGTTGTCAATCTCATAATCCATG 59.064 37.037 0.00 0.00 35.81 3.66
6293 8090 1.189524 TCCCCGAATCAAGACGGTGT 61.190 55.000 0.00 0.00 46.53 4.16
6345 8142 2.854777 CAGAATGAAAGCGTCTAGTCCG 59.145 50.000 0.00 0.00 39.69 4.79
6496 8293 7.194607 TCTTGCTGATTAATGGATCGATTTC 57.805 36.000 8.34 2.12 0.00 2.17
6563 8364 6.749923 AATTTGTAAGTTCAGCCTGATCTC 57.250 37.500 5.79 0.00 0.00 2.75
6585 8386 5.551233 TCAGAAACCATCTTGAGTAAGGTG 58.449 41.667 0.00 0.00 43.29 4.00
6623 8424 4.739793 TGATGTCAACCAGAAAGGGATTT 58.260 39.130 0.00 0.00 43.89 2.17
6726 8552 0.251564 TGGGGCATCATTTGTTCCGT 60.252 50.000 0.00 0.00 0.00 4.69
6735 8561 0.941542 ATTTGTTCCGTGTGTGTCCG 59.058 50.000 0.00 0.00 0.00 4.79
6743 8569 1.370587 CGTGTGTGTCCGTTTGGGTT 61.371 55.000 0.00 0.00 37.00 4.11
6750 8576 2.359531 GTGTCCGTTTGGGTTGAAATGA 59.640 45.455 0.00 0.00 37.00 2.57
6753 8579 3.024547 TCCGTTTGGGTTGAAATGAACA 58.975 40.909 0.00 0.00 37.00 3.18
6756 8582 4.631813 CCGTTTGGGTTGAAATGAACAAAA 59.368 37.500 0.00 0.00 30.73 2.44
6757 8583 5.122396 CCGTTTGGGTTGAAATGAACAAAAA 59.878 36.000 0.00 0.00 30.73 1.94
6758 8584 6.018542 CGTTTGGGTTGAAATGAACAAAAAC 58.981 36.000 0.00 0.00 33.55 2.43
6759 8585 5.786401 TTGGGTTGAAATGAACAAAAACG 57.214 34.783 0.00 0.00 0.00 3.60
6760 8586 5.073311 TGGGTTGAAATGAACAAAAACGA 57.927 34.783 0.00 0.00 0.00 3.85
6761 8587 4.865365 TGGGTTGAAATGAACAAAAACGAC 59.135 37.500 0.00 0.00 0.00 4.34
6762 8588 4.027214 GGGTTGAAATGAACAAAAACGACG 60.027 41.667 0.00 0.00 0.00 5.12
6763 8589 4.794246 GGTTGAAATGAACAAAAACGACGA 59.206 37.500 0.00 0.00 0.00 4.20
6764 8590 5.286558 GGTTGAAATGAACAAAAACGACGAA 59.713 36.000 0.00 0.00 0.00 3.85
6765 8591 6.020201 GGTTGAAATGAACAAAAACGACGAAT 60.020 34.615 0.00 0.00 0.00 3.34
6766 8592 6.726035 TGAAATGAACAAAAACGACGAATC 57.274 33.333 0.00 0.00 0.00 2.52
6767 8593 6.258899 TGAAATGAACAAAAACGACGAATCA 58.741 32.000 0.00 0.00 0.00 2.57
6768 8594 6.915300 TGAAATGAACAAAAACGACGAATCAT 59.085 30.769 0.00 0.00 0.00 2.45
6769 8595 6.674005 AATGAACAAAAACGACGAATCATG 57.326 33.333 0.00 0.00 0.00 3.07
6770 8596 5.163302 TGAACAAAAACGACGAATCATGT 57.837 34.783 0.00 0.00 0.00 3.21
6771 8597 5.201910 TGAACAAAAACGACGAATCATGTC 58.798 37.500 0.00 0.00 0.00 3.06
6772 8598 4.141855 ACAAAAACGACGAATCATGTCC 57.858 40.909 0.00 0.00 32.68 4.02
6773 8599 3.562141 ACAAAAACGACGAATCATGTCCA 59.438 39.130 0.00 0.00 32.68 4.02
6774 8600 3.806316 AAAACGACGAATCATGTCCAC 57.194 42.857 0.00 0.00 32.68 4.02
6775 8601 2.743636 AACGACGAATCATGTCCACT 57.256 45.000 0.00 0.00 32.68 4.00
6776 8602 3.861276 AACGACGAATCATGTCCACTA 57.139 42.857 0.00 0.00 32.68 2.74
6777 8603 3.146618 ACGACGAATCATGTCCACTAC 57.853 47.619 0.00 0.00 32.68 2.73
6778 8604 2.753452 ACGACGAATCATGTCCACTACT 59.247 45.455 0.00 0.00 32.68 2.57
6779 8605 3.192844 ACGACGAATCATGTCCACTACTT 59.807 43.478 0.00 0.00 32.68 2.24
6795 8621 1.663695 ACTTGGTGTTTGTCTGGACG 58.336 50.000 0.00 0.00 0.00 4.79
6803 8629 4.973663 GGTGTTTGTCTGGACGTATTTTTG 59.026 41.667 0.00 0.00 0.00 2.44
6872 10091 2.265904 CGTGTCCTCTCGGTGTCCA 61.266 63.158 0.00 0.00 0.00 4.02
6878 10097 1.599606 CCTCTCGGTGTCCAGGTCTG 61.600 65.000 0.00 0.00 0.00 3.51
6881 10100 1.892819 CTCGGTGTCCAGGTCTGCAT 61.893 60.000 0.00 0.00 0.00 3.96
6887 10106 1.023513 GTCCAGGTCTGCATGTCAGC 61.024 60.000 11.02 7.33 42.56 4.26
6897 10116 1.242076 GCATGTCAGCCACACTTCTT 58.758 50.000 0.00 0.00 38.04 2.52
6954 10173 2.354259 CAGGCCTCATTCACTTCTCAC 58.646 52.381 0.00 0.00 0.00 3.51
6962 10181 5.300286 CCTCATTCACTTCTCACCAAAAGTT 59.700 40.000 0.00 0.00 33.53 2.66
6977 10196 2.969628 AAGTTCACATCTAGAGCGGG 57.030 50.000 0.00 0.00 0.00 6.13
6982 10201 0.179100 CACATCTAGAGCGGGTGGTG 60.179 60.000 0.00 0.00 0.00 4.17
6985 10204 2.238319 ATCTAGAGCGGGTGGTGGGA 62.238 60.000 0.00 0.00 0.00 4.37
7038 10257 1.126488 CATCTAGAGCTTGCTCCCCA 58.874 55.000 17.78 3.62 0.00 4.96
7039 10258 1.487976 CATCTAGAGCTTGCTCCCCAA 59.512 52.381 17.78 3.53 0.00 4.12
7046 10265 2.597217 TTGCTCCCCAAACGCCAG 60.597 61.111 0.00 0.00 0.00 4.85
7067 10286 1.153086 GCGGTCATCATGGGCTTCT 60.153 57.895 0.00 0.00 0.00 2.85
7096 10315 1.443194 CAAGCGTGGCAAGCATGAC 60.443 57.895 26.47 0.00 35.59 3.06
7099 10318 2.562912 CGTGGCAAGCATGACCAC 59.437 61.111 19.19 19.19 43.93 4.16
7100 10319 2.260154 CGTGGCAAGCATGACCACA 61.260 57.895 24.76 4.73 45.84 4.17
7105 10324 1.530013 GCAAGCATGACCACAAGGCT 61.530 55.000 0.00 0.00 40.58 4.58
7114 10333 2.110967 CCACAAGGCTGGCTCATCG 61.111 63.158 3.48 0.00 0.00 3.84
7125 10344 1.335964 TGGCTCATCGCGCTTATCTAC 60.336 52.381 5.56 0.00 40.44 2.59
7129 10348 1.000607 TCATCGCGCTTATCTACACCC 60.001 52.381 5.56 0.00 0.00 4.61
7133 10352 1.419374 GCGCTTATCTACACCCGATG 58.581 55.000 0.00 0.00 0.00 3.84
7135 10354 2.545113 GCGCTTATCTACACCCGATGAA 60.545 50.000 0.00 0.00 0.00 2.57
7230 10449 1.336240 GCAAGGAGCGTGCAGATTTTT 60.336 47.619 0.00 0.00 41.80 1.94
7249 10468 6.674694 TTTTTGTGATGTTTGGACATTTGG 57.325 33.333 0.00 0.00 46.27 3.28
7279 10498 4.023193 CCAGGCGAAAAATACAAACTGAGT 60.023 41.667 0.00 0.00 0.00 3.41
7280 10499 4.911610 CAGGCGAAAAATACAAACTGAGTG 59.088 41.667 0.00 0.00 0.00 3.51
7286 10505 6.849305 CGAAAAATACAAACTGAGTGGTGTAC 59.151 38.462 10.50 0.00 29.71 2.90
7340 10559 4.988744 TTTTTGCCGTGACCTCCA 57.011 50.000 0.00 0.00 0.00 3.86
7349 10568 0.898320 CGTGACCTCCAGGAATGTCT 59.102 55.000 16.28 0.00 38.94 3.41
7400 10619 2.804986 TACAAGCATCTTGGATGCCA 57.195 45.000 23.37 8.57 45.59 4.92
7457 10677 3.458779 TTATTTTACTGTTCACGCGCC 57.541 42.857 5.73 0.00 0.00 6.53
7458 10678 0.165079 ATTTTACTGTTCACGCGCCG 59.835 50.000 5.73 0.00 0.00 6.46
7500 10720 0.820891 AAATGGCTGCCTCCGCTATG 60.821 55.000 21.03 0.00 35.36 2.23
7523 10743 3.827008 TGGCTCATTGTAGGAGTCATC 57.173 47.619 0.00 0.00 41.72 2.92
7524 10744 2.435805 TGGCTCATTGTAGGAGTCATCC 59.564 50.000 0.00 0.00 41.72 3.51
7533 10753 3.386543 GGAGTCATCCCATTCACCG 57.613 57.895 0.00 0.00 40.03 4.94
7534 10754 0.815615 GGAGTCATCCCATTCACCGC 60.816 60.000 0.00 0.00 40.03 5.68
7535 10755 0.179000 GAGTCATCCCATTCACCGCT 59.821 55.000 0.00 0.00 0.00 5.52
7536 10756 0.179000 AGTCATCCCATTCACCGCTC 59.821 55.000 0.00 0.00 0.00 5.03
7537 10757 0.107703 GTCATCCCATTCACCGCTCA 60.108 55.000 0.00 0.00 0.00 4.26
7538 10758 0.107703 TCATCCCATTCACCGCTCAC 60.108 55.000 0.00 0.00 0.00 3.51
7539 10759 0.107508 CATCCCATTCACCGCTCACT 60.108 55.000 0.00 0.00 0.00 3.41
7540 10760 0.107508 ATCCCATTCACCGCTCACTG 60.108 55.000 0.00 0.00 0.00 3.66
7541 10761 2.401766 CCCATTCACCGCTCACTGC 61.402 63.158 0.00 0.00 38.57 4.40
7542 10762 1.672030 CCATTCACCGCTCACTGCA 60.672 57.895 0.00 0.00 43.06 4.41
7543 10763 1.028330 CCATTCACCGCTCACTGCAT 61.028 55.000 0.00 0.00 43.06 3.96
7544 10764 0.376152 CATTCACCGCTCACTGCATC 59.624 55.000 0.00 0.00 43.06 3.91
7545 10765 0.745845 ATTCACCGCTCACTGCATCC 60.746 55.000 0.00 0.00 43.06 3.51
7546 10766 2.046988 CACCGCTCACTGCATCCA 60.047 61.111 0.00 0.00 43.06 3.41
7547 10767 1.450848 CACCGCTCACTGCATCCAT 60.451 57.895 0.00 0.00 43.06 3.41
7548 10768 1.028330 CACCGCTCACTGCATCCATT 61.028 55.000 0.00 0.00 43.06 3.16
7549 10769 1.028330 ACCGCTCACTGCATCCATTG 61.028 55.000 0.00 0.00 43.06 2.82
7550 10770 0.745486 CCGCTCACTGCATCCATTGA 60.745 55.000 0.00 0.00 43.06 2.57
7551 10771 0.376152 CGCTCACTGCATCCATTGAC 59.624 55.000 0.00 0.00 43.06 3.18
7552 10772 0.376152 GCTCACTGCATCCATTGACG 59.624 55.000 0.00 0.00 42.31 4.35
7553 10773 1.012086 CTCACTGCATCCATTGACGG 58.988 55.000 0.00 0.00 0.00 4.79
7554 10774 0.612744 TCACTGCATCCATTGACGGA 59.387 50.000 0.00 0.00 40.07 4.69
7555 10775 0.729116 CACTGCATCCATTGACGGAC 59.271 55.000 0.00 0.00 38.07 4.79
7556 10776 0.324614 ACTGCATCCATTGACGGACA 59.675 50.000 0.00 0.00 38.07 4.02
7571 10791 3.841643 ACGGACAAACGTTGGTCTATAG 58.158 45.455 29.83 21.31 46.25 1.31
7589 10809 8.371699 GGTCTATAGAATTTGGCTATCTTCTGT 58.628 37.037 3.40 2.21 31.43 3.41
7626 10848 6.348621 TGTTTCTTTCATTCTTTTTGCTGC 57.651 33.333 0.00 0.00 0.00 5.25
7629 10851 4.043750 TCTTTCATTCTTTTTGCTGCGTG 58.956 39.130 0.00 0.00 0.00 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.675641 GGCTGGTTCTGATGCCGTT 60.676 57.895 0.00 0.00 35.79 4.44
51 52 0.249073 CGAAGTGGGCGATCGAGAAT 60.249 55.000 21.57 0.00 38.82 2.40
201 202 0.168788 CGCGTTCTGAATGGCAATGT 59.831 50.000 11.32 0.00 0.00 2.71
315 316 0.338467 TTCTGATCCGGGGAGAGGAA 59.662 55.000 0.00 0.00 41.69 3.36
652 654 1.078497 CCATGCTCACTACCGCCAA 60.078 57.895 0.00 0.00 0.00 4.52
721 723 3.532641 ATCTTGGCCCTTTCTCTTTGT 57.467 42.857 0.00 0.00 0.00 2.83
888 891 2.912542 CCGCGGATGGGAGAGCTA 60.913 66.667 24.07 0.00 0.00 3.32
968 971 9.599866 CATGTTGTATTAATGACTTCAGACCTA 57.400 33.333 0.00 0.00 0.00 3.08
969 972 7.066284 GCATGTTGTATTAATGACTTCAGACCT 59.934 37.037 0.00 0.00 0.00 3.85
986 989 0.037590 AAGCCCGGAAGCATGTTGTA 59.962 50.000 0.73 0.00 34.23 2.41
989 992 1.047801 AAAAAGCCCGGAAGCATGTT 58.952 45.000 0.73 0.00 34.23 2.71
1025 1028 9.662947 ACGGCAAGTTTTAGAGTAGTTAATAAT 57.337 29.630 0.00 0.00 0.00 1.28
1026 1029 9.492973 AACGGCAAGTTTTAGAGTAGTTAATAA 57.507 29.630 0.00 0.00 40.88 1.40
1027 1030 8.928733 CAACGGCAAGTTTTAGAGTAGTTAATA 58.071 33.333 0.00 0.00 42.02 0.98
1028 1031 7.658575 TCAACGGCAAGTTTTAGAGTAGTTAAT 59.341 33.333 0.00 0.00 42.02 1.40
1029 1032 6.985645 TCAACGGCAAGTTTTAGAGTAGTTAA 59.014 34.615 0.00 0.00 42.02 2.01
1030 1033 6.514947 TCAACGGCAAGTTTTAGAGTAGTTA 58.485 36.000 0.00 0.00 42.02 2.24
1031 1034 5.362263 TCAACGGCAAGTTTTAGAGTAGTT 58.638 37.500 0.00 0.00 42.02 2.24
1032 1035 4.952460 TCAACGGCAAGTTTTAGAGTAGT 58.048 39.130 0.00 0.00 42.02 2.73
1033 1036 5.227908 TCTCAACGGCAAGTTTTAGAGTAG 58.772 41.667 8.74 0.00 42.02 2.57
1034 1037 5.204409 TCTCAACGGCAAGTTTTAGAGTA 57.796 39.130 8.74 0.00 42.02 2.59
1035 1038 4.067972 TCTCAACGGCAAGTTTTAGAGT 57.932 40.909 8.74 0.00 42.02 3.24
1054 1057 1.678970 GCGGATTTGCTGGGGTTCT 60.679 57.895 0.00 0.00 0.00 3.01
1055 1058 2.710902 GGCGGATTTGCTGGGGTTC 61.711 63.158 0.00 0.00 34.52 3.62
1119 1124 2.108970 GTAGACCGGAAGATCTTGGGT 58.891 52.381 21.89 21.89 34.26 4.51
1224 1229 2.047560 GCTACCTTTCACGGCGGT 60.048 61.111 13.24 0.00 34.86 5.68
1268 1273 3.237741 GGGATGAGGAGGGCGGAG 61.238 72.222 0.00 0.00 0.00 4.63
1598 1616 8.430801 ACATATGAAAGAGAAACATCTACTGC 57.569 34.615 10.38 0.00 0.00 4.40
1759 1866 0.686224 CTGGCCAAGGGAATTTGCAA 59.314 50.000 7.01 0.00 0.00 4.08
1775 1882 4.135153 CCTCGACTGACGCCCTGG 62.135 72.222 0.00 0.00 42.26 4.45
1824 1935 2.426522 CGGTTCAGCAGAGGAAATTCA 58.573 47.619 0.00 0.00 0.00 2.57
1825 1936 1.131315 GCGGTTCAGCAGAGGAAATTC 59.869 52.381 0.00 0.00 37.05 2.17
1826 1937 1.168714 GCGGTTCAGCAGAGGAAATT 58.831 50.000 0.00 0.00 37.05 1.82
1827 1938 0.036732 TGCGGTTCAGCAGAGGAAAT 59.963 50.000 0.00 0.00 42.92 2.17
1828 1939 1.449782 TGCGGTTCAGCAGAGGAAA 59.550 52.632 0.00 0.00 42.92 3.13
1829 1940 3.147132 TGCGGTTCAGCAGAGGAA 58.853 55.556 0.00 0.00 42.92 3.36
1835 1946 2.203195 ACTGCTTGCGGTTCAGCA 60.203 55.556 0.63 0.00 46.54 4.41
1952 2084 2.364780 CCGGTTAGGTGGGGAGACC 61.365 68.421 0.00 0.00 42.77 3.85
2134 2266 1.663739 CTTGAAGGGGACGACGACA 59.336 57.895 0.00 0.00 0.00 4.35
2165 2297 0.734889 GTGACGGCGGCTAGTACTAA 59.265 55.000 16.45 0.00 0.00 2.24
2335 2475 2.066262 CCGTAAAACTCTGCACATCGT 58.934 47.619 0.00 0.00 0.00 3.73
2351 2495 4.163458 AGAACCAAATATTCCAGCTCCGTA 59.837 41.667 0.00 0.00 0.00 4.02
2685 2847 8.260114 TGCTAGTAGATTCTCAACATCAAATGA 58.740 33.333 0.00 0.00 0.00 2.57
2691 2853 8.341173 CCAAAATGCTAGTAGATTCTCAACATC 58.659 37.037 0.00 0.00 0.00 3.06
2754 2916 1.584380 GGCCAGAGAAACTGCTGCTG 61.584 60.000 0.00 4.89 44.52 4.41
2806 2968 7.060289 GCCCTTACTCTCGTTTTTAATTTTTCG 59.940 37.037 0.00 0.00 0.00 3.46
2817 2979 1.349067 ACCTGCCCTTACTCTCGTTT 58.651 50.000 0.00 0.00 0.00 3.60
2852 3014 2.524569 TTGTCATGTGTTCGCTCAGA 57.475 45.000 0.00 0.00 0.00 3.27
3003 3167 7.601705 AGACAAATCAAAAGGGAAAAGATGA 57.398 32.000 0.00 0.00 0.00 2.92
3086 3250 6.684686 TGACACCAGTATACAAGAGTAACAC 58.315 40.000 5.50 0.00 33.13 3.32
3651 4765 5.065090 CCTGCAATTGAAAGATGTATCGTGA 59.935 40.000 10.34 0.00 0.00 4.35
4098 5671 8.233868 AGCAACCAAACAAAGTTTTAAATTGAC 58.766 29.630 6.96 0.00 0.00 3.18
4100 5673 9.484326 GTAGCAACCAAACAAAGTTTTAAATTG 57.516 29.630 0.00 0.00 0.00 2.32
4379 5970 0.321671 GTGGCAGGTGAGCTGTAGAA 59.678 55.000 13.65 0.00 34.17 2.10
4911 6504 4.141711 CCCTCCGATCCAAAATAAGTCTCA 60.142 45.833 0.00 0.00 0.00 3.27
5045 6643 2.606725 CGAGTGCACCAGAGAATTGATC 59.393 50.000 14.63 0.00 0.00 2.92
5249 6888 9.968743 GTTAAATTCGTGAGACATAAAGGTAAG 57.031 33.333 0.00 0.00 41.84 2.34
5257 6896 5.165676 ACAGCGTTAAATTCGTGAGACATA 58.834 37.500 0.00 0.00 41.84 2.29
5473 7133 7.577998 ACAACATCAATTGCATGTACATCACAT 60.578 33.333 17.95 0.00 39.48 3.21
5486 7153 7.462731 TGAAAAGTGAAAACAACATCAATTGC 58.537 30.769 0.00 0.00 34.47 3.56
5553 7224 3.434984 GGATGCAGAAGCGGAAATATCTC 59.565 47.826 0.00 0.00 46.23 2.75
5558 7229 2.134789 AAGGATGCAGAAGCGGAAAT 57.865 45.000 0.00 0.00 46.23 2.17
5730 7403 3.616956 TGAGAACATCGGAAAGCTGAT 57.383 42.857 0.00 0.00 40.79 2.90
5942 7615 7.565789 GCTCAAGAAAAGTAAATGTTTTCGCAG 60.566 37.037 3.37 2.82 44.95 5.18
5964 7640 5.104776 AGTGATGTTTAAGATAGCCAGCTCA 60.105 40.000 0.00 0.00 0.00 4.26
6017 7693 9.382244 CGAAAGTAAGTTGTTGGAATTAAGAAG 57.618 33.333 0.00 0.00 0.00 2.85
6022 7698 6.483974 TGAGCGAAAGTAAGTTGTTGGAATTA 59.516 34.615 0.00 0.00 0.00 1.40
6118 7913 5.931441 ATAAGAGTTGCACAGAGTTGAAC 57.069 39.130 0.00 0.00 0.00 3.18
6215 8012 5.588240 TCAAGTATTATCGTGACGAGCATT 58.412 37.500 14.71 0.00 39.91 3.56
6345 8142 2.939103 CAGAAGAATCCACATCGTTCCC 59.061 50.000 0.00 0.00 0.00 3.97
6401 8198 4.450419 CAGTCTTGATTCTTGAAGAACGCT 59.550 41.667 10.18 0.00 37.00 5.07
6403 8200 5.914085 ACAGTCTTGATTCTTGAAGAACG 57.086 39.130 10.18 0.00 37.00 3.95
6496 8293 4.801891 AGCAAATACAACATGCAGACAAG 58.198 39.130 0.00 0.00 42.45 3.16
6563 8364 4.697352 CCACCTTACTCAAGATGGTTTCTG 59.303 45.833 0.00 0.00 40.29 3.02
6585 8386 4.400251 TGACATCAAATCTTCATTGCCTCC 59.600 41.667 0.00 0.00 0.00 4.30
6630 8431 6.816140 TCCATTTTCTGGTTTTCTCAACAAAC 59.184 34.615 0.00 0.00 46.08 2.93
6633 8434 6.550854 AGATCCATTTTCTGGTTTTCTCAACA 59.449 34.615 0.00 0.00 46.08 3.33
6634 8435 6.986250 AGATCCATTTTCTGGTTTTCTCAAC 58.014 36.000 0.00 0.00 46.08 3.18
6655 8456 1.374252 GACCGTGGTGCGTCAAGAT 60.374 57.895 0.00 0.00 39.32 2.40
6726 8552 0.035343 TCAACCCAAACGGACACACA 60.035 50.000 0.00 0.00 34.64 3.72
6735 8561 6.018542 CGTTTTTGTTCATTTCAACCCAAAC 58.981 36.000 0.00 0.00 30.65 2.93
6743 8569 6.258899 TGATTCGTCGTTTTTGTTCATTTCA 58.741 32.000 0.00 0.00 0.00 2.69
6750 8576 4.035792 TGGACATGATTCGTCGTTTTTGTT 59.964 37.500 0.00 0.00 34.04 2.83
6753 8579 3.813166 AGTGGACATGATTCGTCGTTTTT 59.187 39.130 0.00 0.00 34.04 1.94
6756 8582 2.743636 AGTGGACATGATTCGTCGTT 57.256 45.000 0.00 0.00 34.04 3.85
6757 8583 2.753452 AGTAGTGGACATGATTCGTCGT 59.247 45.455 0.00 0.00 34.04 4.34
6758 8584 3.422417 AGTAGTGGACATGATTCGTCG 57.578 47.619 0.00 0.00 34.04 5.12
6772 8598 3.560068 GTCCAGACAAACACCAAGTAGTG 59.440 47.826 0.00 0.00 43.65 2.74
6773 8599 3.740141 CGTCCAGACAAACACCAAGTAGT 60.740 47.826 0.00 0.00 0.00 2.73
6774 8600 2.800544 CGTCCAGACAAACACCAAGTAG 59.199 50.000 0.00 0.00 0.00 2.57
6775 8601 2.168936 ACGTCCAGACAAACACCAAGTA 59.831 45.455 0.00 0.00 0.00 2.24
6776 8602 1.065709 ACGTCCAGACAAACACCAAGT 60.066 47.619 0.00 0.00 0.00 3.16
6777 8603 1.663695 ACGTCCAGACAAACACCAAG 58.336 50.000 0.00 0.00 0.00 3.61
6778 8604 2.983907 TACGTCCAGACAAACACCAA 57.016 45.000 0.00 0.00 0.00 3.67
6779 8605 3.478857 AATACGTCCAGACAAACACCA 57.521 42.857 0.00 0.00 0.00 4.17
6816 8642 2.177580 CGTGTGGACGCAAACCTGT 61.178 57.895 0.00 0.00 39.10 4.00
6864 10083 1.742880 CATGCAGACCTGGACACCG 60.743 63.158 0.00 0.00 32.58 4.94
6865 10084 0.674895 GACATGCAGACCTGGACACC 60.675 60.000 0.00 0.00 32.58 4.16
6878 10097 1.068748 CAAGAAGTGTGGCTGACATGC 60.069 52.381 0.00 0.00 36.78 4.06
6881 10100 1.486310 ACTCAAGAAGTGTGGCTGACA 59.514 47.619 0.00 0.00 36.65 3.58
6897 10116 2.548057 GTCATTCAAAAGGACGCACTCA 59.452 45.455 0.00 0.00 0.00 3.41
6935 10154 1.280421 GGTGAGAAGTGAATGAGGCCT 59.720 52.381 3.86 3.86 0.00 5.19
6954 10173 3.372206 CCGCTCTAGATGTGAACTTTTGG 59.628 47.826 0.00 0.00 0.00 3.28
6962 10181 0.324368 ACCACCCGCTCTAGATGTGA 60.324 55.000 11.33 0.00 0.00 3.58
7056 10275 2.272146 GGCCGAAGAAGCCCATGA 59.728 61.111 0.00 0.00 45.16 3.07
7067 10286 4.927782 ACGCTTGCTGTGGCCGAA 62.928 61.111 0.00 0.00 37.74 4.30
7096 10315 2.110967 CGATGAGCCAGCCTTGTGG 61.111 63.158 0.00 0.00 41.01 4.17
7099 10318 3.570638 CGCGATGAGCCAGCCTTG 61.571 66.667 0.00 0.00 44.76 3.61
7105 10324 0.958822 TAGATAAGCGCGATGAGCCA 59.041 50.000 12.10 0.00 44.76 4.75
7114 10333 1.000607 TCATCGGGTGTAGATAAGCGC 60.001 52.381 0.00 0.00 0.00 5.92
7125 10344 5.818136 ATGAATTAACTGTTCATCGGGTG 57.182 39.130 0.00 0.00 41.19 4.61
7175 10394 7.493320 TCATCTTTGATGCCAATAAAAATCAGC 59.507 33.333 2.93 0.00 31.11 4.26
7183 10402 7.485810 CACTCAATCATCTTTGATGCCAATAA 58.514 34.615 2.93 0.00 41.83 1.40
7230 10449 2.632028 CCCCAAATGTCCAAACATCACA 59.368 45.455 0.00 0.00 45.48 3.58
7249 10468 0.681243 ATTTTTCGCCTGGAGCTCCC 60.681 55.000 29.95 13.72 40.39 4.30
7279 10498 8.361139 TGAAAGAAACTTTGAAAAAGTACACCA 58.639 29.630 5.85 0.00 0.00 4.17
7280 10499 8.751302 TGAAAGAAACTTTGAAAAAGTACACC 57.249 30.769 5.85 0.00 0.00 4.16
7286 10505 8.647143 TGGCTATGAAAGAAACTTTGAAAAAG 57.353 30.769 1.41 0.00 0.00 2.27
7323 10542 0.821711 CCTGGAGGTCACGGCAAAAA 60.822 55.000 0.00 0.00 0.00 1.94
7331 10550 1.902508 TCAGACATTCCTGGAGGTCAC 59.097 52.381 23.84 7.08 34.99 3.67
7332 10551 2.325661 TCAGACATTCCTGGAGGTCA 57.674 50.000 23.84 8.95 34.99 4.02
7340 10559 7.668886 AGAAATTCTTGACATTCAGACATTCCT 59.331 33.333 0.00 0.00 0.00 3.36
7349 10568 5.827267 TGTGTCCAGAAATTCTTGACATTCA 59.173 36.000 25.83 19.11 46.41 2.57
7500 10720 4.672587 TGACTCCTACAATGAGCCATAC 57.327 45.455 0.00 0.00 32.98 2.39
7522 10742 1.296392 CAGTGAGCGGTGAATGGGA 59.704 57.895 0.00 0.00 0.00 4.37
7523 10743 2.401766 GCAGTGAGCGGTGAATGGG 61.402 63.158 3.38 0.00 0.00 4.00
7524 10744 3.181367 GCAGTGAGCGGTGAATGG 58.819 61.111 3.38 0.00 0.00 3.16
7533 10753 0.376152 CGTCAATGGATGCAGTGAGC 59.624 55.000 17.95 11.46 45.96 4.26
7534 10754 1.012086 CCGTCAATGGATGCAGTGAG 58.988 55.000 17.95 11.45 29.41 3.51
7535 10755 0.612744 TCCGTCAATGGATGCAGTGA 59.387 50.000 13.60 13.60 31.53 3.41
7536 10756 0.729116 GTCCGTCAATGGATGCAGTG 59.271 55.000 8.50 8.50 40.91 3.66
7537 10757 0.324614 TGTCCGTCAATGGATGCAGT 59.675 50.000 0.00 0.00 40.91 4.40
7538 10758 1.452110 TTGTCCGTCAATGGATGCAG 58.548 50.000 0.00 0.00 40.91 4.41
7539 10759 1.539388 GTTTGTCCGTCAATGGATGCA 59.461 47.619 0.00 0.00 40.91 3.96
7540 10760 1.465689 CGTTTGTCCGTCAATGGATGC 60.466 52.381 0.00 0.00 40.91 3.91
7541 10761 1.804151 ACGTTTGTCCGTCAATGGATG 59.196 47.619 0.00 0.00 40.91 3.51
7542 10762 2.178912 ACGTTTGTCCGTCAATGGAT 57.821 45.000 0.00 0.00 40.91 3.41
7543 10763 1.600013 CAACGTTTGTCCGTCAATGGA 59.400 47.619 0.00 0.00 40.85 3.41
7544 10764 1.334599 CCAACGTTTGTCCGTCAATGG 60.335 52.381 0.00 0.00 40.85 3.16
7545 10765 1.332375 ACCAACGTTTGTCCGTCAATG 59.668 47.619 0.00 0.00 40.85 2.82
7546 10766 1.600485 GACCAACGTTTGTCCGTCAAT 59.400 47.619 19.07 0.00 40.85 2.57
7547 10767 1.008329 GACCAACGTTTGTCCGTCAA 58.992 50.000 19.07 0.00 40.85 3.18
7548 10768 0.176219 AGACCAACGTTTGTCCGTCA 59.824 50.000 24.31 0.00 40.85 4.35
7549 10769 2.138596 TAGACCAACGTTTGTCCGTC 57.861 50.000 24.31 12.99 40.85 4.79
7550 10770 2.825861 ATAGACCAACGTTTGTCCGT 57.174 45.000 24.31 13.32 44.23 4.69
7551 10771 4.100707 TCTATAGACCAACGTTTGTCCG 57.899 45.455 24.31 13.19 0.00 4.79
7552 10772 6.980051 AATTCTATAGACCAACGTTTGTCC 57.020 37.500 24.31 10.32 0.00 4.02
7553 10773 7.241376 CCAAATTCTATAGACCAACGTTTGTC 58.759 38.462 21.48 21.48 0.00 3.18
7554 10774 6.349033 GCCAAATTCTATAGACCAACGTTTGT 60.349 38.462 4.45 4.45 0.00 2.83
7555 10775 6.027749 GCCAAATTCTATAGACCAACGTTTG 58.972 40.000 0.67 0.00 0.00 2.93
7556 10776 5.944007 AGCCAAATTCTATAGACCAACGTTT 59.056 36.000 0.67 0.00 0.00 3.60
7622 10843 0.745845 AATGATCACCTCCACGCAGC 60.746 55.000 0.00 0.00 0.00 5.25
7626 10848 2.679837 CCAAGAAATGATCACCTCCACG 59.320 50.000 0.00 0.00 0.00 4.94
7629 10851 5.982890 TTTTCCAAGAAATGATCACCTCC 57.017 39.130 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.