Multiple sequence alignment - TraesCS4A01G462800

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 TraesCS4A01G462800 chr4A 100.000 4090 0 0 1 4090 726716983 726721072 0.000000e+00 7553.0
1 TraesCS4A01G462800 chr4A 90.111 900 71 6 2654 3545 726671631 726672520 0.000000e+00 1153.0
2 TraesCS4A01G462800 chr4A 90.270 555 46 6 3541 4089 726672610 726673162 0.000000e+00 719.0
3 TraesCS4A01G462800 chr4A 79.365 567 89 16 1462 2019 726844845 726845392 1.520000e-99 374.0
4 TraesCS4A01G462800 chr4A 100.000 40 0 0 4428 4467 726721410 726721449 1.720000e-09 75.0
5 TraesCS4A01G462800 chr7A 91.091 1201 80 12 2348 3545 10634779 10633603 0.000000e+00 1600.0
6 TraesCS4A01G462800 chr7A 91.091 1201 80 12 2348 3545 10641977 10640801 0.000000e+00 1600.0
7 TraesCS4A01G462800 chr7A 91.091 1201 80 12 2348 3545 10647848 10646672 0.000000e+00 1600.0
8 TraesCS4A01G462800 chr7A 90.700 1043 96 1 1311 2353 10665111 10664070 0.000000e+00 1387.0
9 TraesCS4A01G462800 chr7A 90.686 977 82 8 4 974 10724765 10723792 0.000000e+00 1291.0
10 TraesCS4A01G462800 chr7A 82.386 1073 162 17 1052 2103 10621971 10620905 0.000000e+00 909.0
11 TraesCS4A01G462800 chr7A 83.369 932 131 18 2625 3547 10620470 10619554 0.000000e+00 841.0
12 TraesCS4A01G462800 chr7A 81.846 986 153 11 7 979 10859302 10858330 0.000000e+00 806.0
13 TraesCS4A01G462800 chr7A 91.336 554 40 3 3541 4090 10633512 10632963 0.000000e+00 750.0
14 TraesCS4A01G462800 chr7A 91.336 554 40 3 3541 4090 10640710 10640161 0.000000e+00 750.0
15 TraesCS4A01G462800 chr7A 91.336 554 40 3 3541 4090 10646581 10646032 0.000000e+00 750.0
16 TraesCS4A01G462800 chr7A 79.351 1109 193 16 1036 2117 10858311 10857212 0.000000e+00 747.0
17 TraesCS4A01G462800 chr7A 79.378 965 166 21 7 953 10622965 10622016 0.000000e+00 649.0
18 TraesCS4A01G462800 chr7A 80.662 786 135 13 2767 3546 10802904 10802130 1.070000e-165 593.0
19 TraesCS4A01G462800 chr7A 89.844 256 21 3 1012 1267 10723805 10723555 1.550000e-84 324.0
20 TraesCS4A01G462800 chr7A 80.892 314 40 7 3541 3850 10855820 10855523 3.480000e-56 230.0
21 TraesCS4A01G462800 chr7A 97.500 40 1 0 4428 4467 10632932 10632893 8.020000e-08 69.4
22 TraesCS4A01G462800 chr7A 97.500 40 1 0 4428 4467 10640130 10640091 8.020000e-08 69.4
23 TraesCS4A01G462800 chr7A 97.500 40 1 0 4428 4467 10646001 10645962 8.020000e-08 69.4
24 TraesCS4A01G462800 chr7D 82.326 1075 165 15 1049 2103 11322509 11321440 0.000000e+00 909.0
25 TraesCS4A01G462800 chr7D 81.877 1087 164 20 1035 2097 11256674 11255597 0.000000e+00 885.0
26 TraesCS4A01G462800 chr7D 83.333 936 124 22 2625 3546 11321005 11320088 0.000000e+00 835.0
27 TraesCS4A01G462800 chr7D 79.855 963 164 18 7 953 11323499 11322551 0.000000e+00 676.0
28 TraesCS4A01G462800 chr7D 78.475 446 79 9 2638 3079 11255164 11254732 4.400000e-70 276.0
29 TraesCS4A01G462800 chr2B 78.077 520 94 15 118 630 27584067 27583561 1.210000e-80 311.0
30 TraesCS4A01G462800 chr7B 92.157 51 4 0 836 886 632652905 632652955 6.200000e-09 73.1
31 TraesCS4A01G462800 chr2A 90.741 54 4 1 831 884 514172 514224 2.230000e-08 71.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G462800 chr4A 726716983 726721449 4466 False 3814.000000 7553 100.000000 1 4467 2 chr4A.!!$F3 4466
1 TraesCS4A01G462800 chr4A 726671631 726673162 1531 False 936.000000 1153 90.190500 2654 4089 2 chr4A.!!$F2 1435
2 TraesCS4A01G462800 chr4A 726844845 726845392 547 False 374.000000 374 79.365000 1462 2019 1 chr4A.!!$F1 557
3 TraesCS4A01G462800 chr7A 10664070 10665111 1041 True 1387.000000 1387 90.700000 1311 2353 1 chr7A.!!$R1 1042
4 TraesCS4A01G462800 chr7A 10723555 10724765 1210 True 807.500000 1291 90.265000 4 1267 2 chr7A.!!$R6 1263
5 TraesCS4A01G462800 chr7A 10632893 10634779 1886 True 806.466667 1600 93.309000 2348 4467 3 chr7A.!!$R4 2119
6 TraesCS4A01G462800 chr7A 10640091 10647848 7757 True 806.466667 1600 93.309000 2348 4467 6 chr7A.!!$R5 2119
7 TraesCS4A01G462800 chr7A 10619554 10622965 3411 True 799.666667 909 81.711000 7 3547 3 chr7A.!!$R3 3540
8 TraesCS4A01G462800 chr7A 10855523 10859302 3779 True 594.333333 806 80.696333 7 3850 3 chr7A.!!$R7 3843
9 TraesCS4A01G462800 chr7A 10802130 10802904 774 True 593.000000 593 80.662000 2767 3546 1 chr7A.!!$R2 779
10 TraesCS4A01G462800 chr7D 11320088 11323499 3411 True 806.666667 909 81.838000 7 3546 3 chr7D.!!$R2 3539
11 TraesCS4A01G462800 chr7D 11254732 11256674 1942 True 580.500000 885 80.176000 1035 3079 2 chr7D.!!$R1 2044
12 TraesCS4A01G462800 chr2B 27583561 27584067 506 True 311.000000 311 78.077000 118 630 1 chr2B.!!$R1 512

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
844 862 0.175073 AGCCGTATCGACTGGGAAAC 59.825 55.0 0.00 0.0 0.00 2.78 F
1634 1676 0.107831 TGGAACAAGTTGTCCCCGAG 59.892 55.0 9.02 0.0 31.92 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2393 8317 0.037605 ACCAGCCCGTTAACTCTTCG 60.038 55.000 3.71 0.0 0.0 3.79 R
3568 9635 1.270571 TGGAAGATGTAACAGCACGCA 60.271 47.619 0.00 0.0 0.0 5.24 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
138 150 1.931841 CACTGCAGGACATCAAGATCG 59.068 52.381 19.93 0.00 0.00 3.69
140 152 2.234661 ACTGCAGGACATCAAGATCGAA 59.765 45.455 19.93 0.00 0.00 3.71
167 179 0.534427 CCATCGATGATGCAGCAGGT 60.534 55.000 26.86 0.00 38.59 4.00
347 359 1.153066 TTGCTCGTTGTGGCAAGGA 60.153 52.632 0.00 4.56 42.45 3.36
379 391 2.837498 GCAAAAGGCAATTGTTGAGGT 58.163 42.857 7.40 0.00 43.97 3.85
410 422 1.695114 CCCAGTCGGTGATGGCCATA 61.695 60.000 20.84 4.38 35.10 2.74
434 446 1.326213 ACCAGCACGATGAGGAGGAG 61.326 60.000 0.00 0.00 0.00 3.69
507 519 5.111293 CAGAGGAGATCTTCAGAAAGCTTC 58.889 45.833 3.21 0.00 35.47 3.86
524 536 8.903820 AGAAAGCTTCTTAACAGTACATTTGTT 58.096 29.630 0.00 4.60 36.36 2.83
567 579 3.064820 CGGCCACTACATTGATTTGTACC 59.935 47.826 2.24 0.00 0.00 3.34
639 651 3.071206 GCAGGAGGCTCCGACTCA 61.071 66.667 27.11 0.00 39.95 3.41
640 652 2.430610 GCAGGAGGCTCCGACTCAT 61.431 63.158 27.11 6.39 39.95 2.90
666 678 5.426504 ACAGATCTGATGTTGATGAAGTCC 58.573 41.667 29.27 0.00 0.00 3.85
668 680 6.056236 CAGATCTGATGTTGATGAAGTCCAT 58.944 40.000 18.34 0.00 38.43 3.41
679 697 5.175859 TGATGAAGTCCATAAAACTCCGAC 58.824 41.667 0.00 0.00 35.17 4.79
695 713 2.101415 TCCGACTGAGGCTGATATTGTG 59.899 50.000 0.00 0.00 0.00 3.33
699 717 2.840038 ACTGAGGCTGATATTGTGGTGA 59.160 45.455 0.00 0.00 0.00 4.02
723 741 9.447279 TGAGAGGTCTAGAATTTATGGGAAATA 57.553 33.333 0.00 0.00 0.00 1.40
781 799 3.616956 TGGTATTCTTGAGCCTGACAG 57.383 47.619 0.00 0.00 0.00 3.51
795 813 3.265791 CCTGACAGAATAGTTGAGTGCC 58.734 50.000 3.32 0.00 0.00 5.01
844 862 0.175073 AGCCGTATCGACTGGGAAAC 59.825 55.000 0.00 0.00 0.00 2.78
892 910 6.126796 TGTGATGGGATTATACAAGAGCAAGA 60.127 38.462 0.00 0.00 0.00 3.02
897 915 6.543465 TGGGATTATACAAGAGCAAGACAATG 59.457 38.462 0.00 0.00 0.00 2.82
904 922 4.940046 ACAAGAGCAAGACAATGTATCTGG 59.060 41.667 0.00 0.00 0.00 3.86
909 927 4.164796 AGCAAGACAATGTATCTGGATGGA 59.835 41.667 0.00 0.00 0.00 3.41
915 933 6.386927 AGACAATGTATCTGGATGGAAGGTTA 59.613 38.462 0.00 0.00 0.00 2.85
933 951 2.662006 TAGTGATGCTCTGCACAGAC 57.338 50.000 0.00 0.00 43.04 3.51
934 952 0.975135 AGTGATGCTCTGCACAGACT 59.025 50.000 0.00 0.00 43.04 3.24
955 973 6.065976 ACTCATACACTTGGATTGGATGAA 57.934 37.500 0.00 0.00 42.58 2.57
961 979 2.922283 ACTTGGATTGGATGAAGGAGGT 59.078 45.455 0.00 0.00 0.00 3.85
974 992 6.381707 GGATGAAGGAGGTAGATAATCCCTAC 59.618 46.154 0.00 0.00 36.62 3.18
975 993 6.547396 TGAAGGAGGTAGATAATCCCTACT 57.453 41.667 0.00 0.00 41.50 2.57
976 994 6.315714 TGAAGGAGGTAGATAATCCCTACTG 58.684 44.000 0.00 0.00 38.66 2.74
978 996 6.547396 AGGAGGTAGATAATCCCTACTGAA 57.453 41.667 0.00 0.00 38.16 3.02
980 998 7.013834 AGGAGGTAGATAATCCCTACTGAAAG 58.986 42.308 0.00 0.00 38.16 2.62
982 1000 6.694611 AGGTAGATAATCCCTACTGAAAGGT 58.305 40.000 0.00 0.00 39.30 3.50
983 1001 6.783482 AGGTAGATAATCCCTACTGAAAGGTC 59.217 42.308 0.00 0.00 39.30 3.85
984 1002 6.783482 GGTAGATAATCCCTACTGAAAGGTCT 59.217 42.308 0.00 0.00 39.30 3.85
985 1003 6.739331 AGATAATCCCTACTGAAAGGTCTG 57.261 41.667 0.00 0.00 39.30 3.51
986 1004 5.604650 AGATAATCCCTACTGAAAGGTCTGG 59.395 44.000 0.00 0.00 39.30 3.86
987 1005 1.952621 TCCCTACTGAAAGGTCTGGG 58.047 55.000 0.00 0.00 39.30 4.45
988 1006 0.912486 CCCTACTGAAAGGTCTGGGG 59.088 60.000 0.00 0.00 39.30 4.96
989 1007 1.657804 CCTACTGAAAGGTCTGGGGT 58.342 55.000 0.00 0.00 39.30 4.95
990 1008 1.555533 CCTACTGAAAGGTCTGGGGTC 59.444 57.143 0.00 0.00 39.30 4.46
991 1009 2.541466 CTACTGAAAGGTCTGGGGTCT 58.459 52.381 0.00 0.00 39.30 3.85
992 1010 1.821088 ACTGAAAGGTCTGGGGTCTT 58.179 50.000 0.00 0.00 39.30 3.01
993 1011 1.700186 ACTGAAAGGTCTGGGGTCTTC 59.300 52.381 0.00 0.00 39.30 2.87
994 1012 0.685097 TGAAAGGTCTGGGGTCTTCG 59.315 55.000 0.00 0.00 0.00 3.79
995 1013 0.974383 GAAAGGTCTGGGGTCTTCGA 59.026 55.000 0.00 0.00 0.00 3.71
996 1014 1.346722 GAAAGGTCTGGGGTCTTCGAA 59.653 52.381 0.00 0.00 0.00 3.71
997 1015 0.685660 AAGGTCTGGGGTCTTCGAAC 59.314 55.000 0.00 0.00 0.00 3.95
998 1016 0.178929 AGGTCTGGGGTCTTCGAACT 60.179 55.000 0.00 0.00 0.00 3.01
999 1017 0.685660 GGTCTGGGGTCTTCGAACTT 59.314 55.000 0.00 0.00 0.00 2.66
1000 1018 1.897802 GGTCTGGGGTCTTCGAACTTA 59.102 52.381 0.00 0.00 0.00 2.24
1001 1019 2.500504 GGTCTGGGGTCTTCGAACTTAT 59.499 50.000 0.00 0.00 0.00 1.73
1002 1020 3.522553 GTCTGGGGTCTTCGAACTTATG 58.477 50.000 0.00 0.00 0.00 1.90
1003 1021 3.194968 GTCTGGGGTCTTCGAACTTATGA 59.805 47.826 0.00 0.00 0.00 2.15
1004 1022 3.835978 TCTGGGGTCTTCGAACTTATGAA 59.164 43.478 0.00 0.00 0.00 2.57
1005 1023 4.285003 TCTGGGGTCTTCGAACTTATGAAA 59.715 41.667 0.00 0.00 0.00 2.69
1006 1024 4.975631 TGGGGTCTTCGAACTTATGAAAA 58.024 39.130 0.00 0.00 0.00 2.29
1007 1025 5.378332 TGGGGTCTTCGAACTTATGAAAAA 58.622 37.500 0.00 0.00 0.00 1.94
1041 1059 7.383156 AATCCCTATGCAAATTGGATTGATT 57.617 32.000 17.34 8.96 42.63 2.57
1112 1133 4.763793 GCCCTGCTACATGATATTGATGTT 59.236 41.667 0.00 0.00 35.62 2.71
1144 1165 0.537188 GCGACATCCTTCTTCCTCCA 59.463 55.000 0.00 0.00 0.00 3.86
1178 1217 3.139025 AGGTGATATTACCAGCTGGCATT 59.861 43.478 33.06 18.57 43.37 3.56
1184 1223 0.704076 TACCAGCTGGCATTTTCCCT 59.296 50.000 33.06 12.32 39.32 4.20
1240 1279 3.957497 TGGTGCACCTTCAGTTTTACATT 59.043 39.130 34.75 0.00 36.82 2.71
1241 1280 4.202101 TGGTGCACCTTCAGTTTTACATTG 60.202 41.667 34.75 0.00 36.82 2.82
1278 1317 1.488393 GCAGCCACCTAAGATTCCTCT 59.512 52.381 0.00 0.00 0.00 3.69
1281 1320 3.054802 CAGCCACCTAAGATTCCTCTTGT 60.055 47.826 0.00 0.00 41.83 3.16
1287 1326 4.597507 ACCTAAGATTCCTCTTGTTGGACA 59.402 41.667 0.00 0.00 41.83 4.02
1301 1343 4.140536 TGTTGGACAATTGCACAGATGTA 58.859 39.130 5.05 0.00 0.00 2.29
1321 1363 5.819991 TGTAAAAGAGGAGGAGCATCAAAT 58.180 37.500 0.00 0.00 36.25 2.32
1339 1381 7.550196 GCATCAAATCAGTAACCAAAATGGATT 59.450 33.333 2.85 0.00 40.96 3.01
1352 1394 9.585369 AACCAAAATGGATTATGTTTCCAAAAT 57.415 25.926 2.85 0.00 45.99 1.82
1387 1429 2.834549 ACCTGAGGAATACAGACTGGTG 59.165 50.000 4.99 0.00 37.54 4.17
1402 1444 2.358898 ACTGGTGCTCAAACACAATGAC 59.641 45.455 0.00 0.00 42.55 3.06
1439 1481 1.489649 CTCAGGGAGCTGAATGTGGAT 59.510 52.381 0.00 0.00 32.43 3.41
1485 1527 5.078411 AGTTGAACTATGTGGCAGTAGAG 57.922 43.478 12.36 3.35 0.00 2.43
1486 1528 4.772624 AGTTGAACTATGTGGCAGTAGAGA 59.227 41.667 12.36 0.00 0.00 3.10
1516 1558 3.123620 GCTCCGAGTTGCAGCTGG 61.124 66.667 17.12 6.71 0.00 4.85
1517 1559 2.659016 CTCCGAGTTGCAGCTGGA 59.341 61.111 17.12 10.66 0.00 3.86
1525 1567 1.911269 TTGCAGCTGGACCGGACTA 60.911 57.895 17.12 0.00 0.00 2.59
1528 1570 1.961180 GCAGCTGGACCGGACTATGT 61.961 60.000 17.12 0.00 0.00 2.29
1556 1598 0.256752 TAATCATGCACCAGCCAGCT 59.743 50.000 0.00 0.00 41.13 4.24
1634 1676 0.107831 TGGAACAAGTTGTCCCCGAG 59.892 55.000 9.02 0.00 31.92 4.63
1677 1719 9.942850 TTGAGTCATTTAGTTTCATCATCACTA 57.057 29.630 0.00 0.00 0.00 2.74
1720 1766 4.241555 CATCTCCTTCCGGGGCCG 62.242 72.222 0.00 0.00 39.44 6.13
1737 1783 1.876416 GCCGTGCCAAACTGAAGAGTA 60.876 52.381 0.00 0.00 0.00 2.59
1794 1841 1.035932 GGACCTCTCGGGAACATCGA 61.036 60.000 0.00 0.00 38.76 3.59
1796 1843 1.409427 GACCTCTCGGGAACATCGATT 59.591 52.381 0.00 0.00 38.76 3.34
1813 1860 3.835978 TCGATTAAGACCCTTGACCTCAA 59.164 43.478 0.00 0.00 0.00 3.02
1890 1937 1.185315 AGCAATACAATGGCCACCAC 58.815 50.000 8.16 0.00 35.80 4.16
1893 1940 2.178580 CAATACAATGGCCACCACCTT 58.821 47.619 8.16 0.00 35.80 3.50
1894 1941 2.566724 CAATACAATGGCCACCACCTTT 59.433 45.455 8.16 0.00 35.80 3.11
1919 1969 6.834969 TCAAAATGGCAATCTTGGAGATGATA 59.165 34.615 0.00 0.00 34.65 2.15
1942 1992 5.118990 ACACATTGAAACCATCCGATCTAG 58.881 41.667 0.00 0.00 0.00 2.43
1943 1993 5.104941 ACACATTGAAACCATCCGATCTAGA 60.105 40.000 0.00 0.00 0.00 2.43
1944 1994 5.994054 CACATTGAAACCATCCGATCTAGAT 59.006 40.000 4.47 4.47 0.00 1.98
1947 1997 5.459536 TGAAACCATCCGATCTAGATCAG 57.540 43.478 27.97 19.34 37.69 2.90
2009 2062 0.807667 GTGCTGCTACAGGGTCATCG 60.808 60.000 0.00 0.00 31.21 3.84
2107 2160 2.499685 GTCGCTAAGGCCCGTCAT 59.500 61.111 0.00 0.00 34.44 3.06
2110 2163 0.754217 TCGCTAAGGCCCGTCATAGT 60.754 55.000 0.00 0.00 34.44 2.12
2113 2166 2.671351 CGCTAAGGCCCGTCATAGTATG 60.671 54.545 0.00 3.55 34.44 2.39
2143 2196 2.644676 TCGTAGAGGAGTGACAGGATG 58.355 52.381 0.00 0.00 46.00 3.51
2163 2216 8.420222 CAGGATGTTTTGACTCACTAGATATCT 58.580 37.037 10.73 10.73 0.00 1.98
2164 2217 9.647918 AGGATGTTTTGACTCACTAGATATCTA 57.352 33.333 11.94 11.94 0.00 1.98
2198 2251 9.739276 ACAATGTTTGAAGGATATTCTGACTTA 57.261 29.630 0.00 0.00 0.00 2.24
2223 2276 8.532186 AGGTGGACATATAGAGATAGCTTATG 57.468 38.462 0.00 0.00 0.00 1.90
2233 2286 5.994250 AGAGATAGCTTATGTTCCTGCAAA 58.006 37.500 0.00 0.00 0.00 3.68
2255 2308 6.455360 AATAGCATTGTTGTTGGTGATAGG 57.545 37.500 0.00 0.00 0.00 2.57
2263 2316 1.563879 TGTTGGTGATAGGGGATGTGG 59.436 52.381 0.00 0.00 0.00 4.17
2330 2383 1.238439 CGTTTCAAGACCACCTGCAT 58.762 50.000 0.00 0.00 0.00 3.96
2367 2420 1.436336 GGTGCAATCTGCTGGATGC 59.564 57.895 12.34 12.34 45.31 3.91
2393 8317 4.347453 CCGCCTGCTGTTGTTGCC 62.347 66.667 0.00 0.00 0.00 4.52
2419 8343 2.298163 AGTTAACGGGCTGGTATATCCG 59.702 50.000 0.00 0.00 46.95 4.18
2449 8376 3.746792 TGAAGAGGAGATGAGGAGTGA 57.253 47.619 0.00 0.00 0.00 3.41
2466 8393 4.563580 GGAGTGAATTACTGCAGAACCAGA 60.564 45.833 23.35 0.00 46.05 3.86
2513 8449 9.686683 GCTTTAATCCCTGGTTATATATGTGAT 57.313 33.333 0.00 0.00 0.00 3.06
2579 8518 5.126545 CAGCATCCCATTCCCATATGTTATG 59.873 44.000 1.24 2.50 0.00 1.90
2581 8520 5.582953 CATCCCATTCCCATATGTTATGGT 58.417 41.667 18.88 6.38 37.48 3.55
2584 8523 6.448202 TCCCATTCCCATATGTTATGGTTTT 58.552 36.000 18.88 0.00 37.48 2.43
2585 8524 6.553100 TCCCATTCCCATATGTTATGGTTTTC 59.447 38.462 18.88 0.00 37.48 2.29
2587 8526 6.239572 CCATTCCCATATGTTATGGTTTTCCC 60.240 42.308 15.00 0.00 39.73 3.97
2608 8547 7.864108 TCCCATATCATTTTATAGATTGGCG 57.136 36.000 0.00 0.00 0.00 5.69
2609 8548 6.318648 TCCCATATCATTTTATAGATTGGCGC 59.681 38.462 0.00 0.00 0.00 6.53
2610 8549 6.319658 CCCATATCATTTTATAGATTGGCGCT 59.680 38.462 7.64 0.00 0.00 5.92
2611 8550 7.412853 CCATATCATTTTATAGATTGGCGCTC 58.587 38.462 7.64 0.00 0.00 5.03
2612 8551 7.281774 CCATATCATTTTATAGATTGGCGCTCT 59.718 37.037 7.64 4.91 0.00 4.09
2613 8552 9.317936 CATATCATTTTATAGATTGGCGCTCTA 57.682 33.333 7.64 7.41 0.00 2.43
2615 8554 8.798859 ATCATTTTATAGATTGGCGCTCTATT 57.201 30.769 19.16 7.36 37.22 1.73
2616 8555 8.032952 TCATTTTATAGATTGGCGCTCTATTG 57.967 34.615 19.16 12.91 37.22 1.90
2867 8806 4.532521 ACCTTCTTGCACCTAGACTATTGT 59.467 41.667 0.00 0.00 0.00 2.71
3017 8959 9.965824 AAGAAGCAAACAATTATATATTTCCCG 57.034 29.630 0.00 0.00 0.00 5.14
3056 8998 1.275856 CTGCATGATCTCCCTAGGCTC 59.724 57.143 2.05 0.00 0.00 4.70
3144 9092 1.900016 CTCAAGCACTTGCCTGCCA 60.900 57.895 5.49 0.00 43.38 4.92
3178 9126 2.487428 CGAGGTGGACTGCGAGAG 59.513 66.667 0.00 0.00 0.00 3.20
3314 9266 7.734865 ACCATACTCAGGTGAGATATATTTGGA 59.265 37.037 13.99 0.00 44.74 3.53
3375 9339 7.727181 TCTAGTCAGCTTAGTTTCTTGTTTCT 58.273 34.615 0.00 0.00 0.00 2.52
3404 9368 3.010920 TCCCAGTACTAGTCTACTGCCAA 59.989 47.826 17.11 5.12 41.62 4.52
3568 9635 6.051717 GCACCTGTATCAATCTACATTGTCT 58.948 40.000 0.00 0.00 40.47 3.41
3579 9646 1.877637 ACATTGTCTGCGTGCTGTTA 58.122 45.000 0.00 0.00 0.00 2.41
3668 9737 6.114767 TGCATCAAAGCAAGTATCTGTCATA 58.885 36.000 0.00 0.00 42.46 2.15
3724 9793 8.543774 AGCAAGAGAGAAATAAATAAGAGTGGA 58.456 33.333 0.00 0.00 0.00 4.02
3768 9837 0.321475 TGGCGTGCTCATGTTGATGA 60.321 50.000 0.00 0.00 37.07 2.92
3770 9839 1.268386 GGCGTGCTCATGTTGATGATG 60.268 52.381 0.00 0.00 37.97 3.07
3784 9857 1.129998 GATGATGTGCTCTGTGTGTGC 59.870 52.381 0.00 0.00 35.88 4.57
3785 9858 1.223417 TGATGTGCTCTGTGTGTGCG 61.223 55.000 0.00 0.00 37.94 5.34
3805 9878 1.748493 GTGTGGTGTGTGGTTTGTCAT 59.252 47.619 0.00 0.00 0.00 3.06
3816 9889 3.941483 GTGGTTTGTCATCTATGGACTGG 59.059 47.826 0.00 0.00 36.26 4.00
3868 9941 6.256104 CGATTTTGCAGGAATTATTGATTGCA 59.744 34.615 4.28 4.28 38.44 4.08
3914 9987 6.516718 TCATATCTGGCAAGCTTCTAGTTAC 58.483 40.000 0.00 0.00 0.00 2.50
3933 10006 7.726033 AGTTACTACTTCTGAACCATCTCAT 57.274 36.000 0.00 0.00 0.00 2.90
3948 10022 6.892485 ACCATCTCATGACTGAATGTGATAA 58.108 36.000 0.00 0.00 38.22 1.75
3956 10030 6.801539 TGACTGAATGTGATAACACCTTTC 57.198 37.500 0.14 5.11 45.40 2.62
3959 10033 7.284261 TGACTGAATGTGATAACACCTTTCAAA 59.716 33.333 14.97 6.11 45.40 2.69
4023 10097 7.936496 TGGAAGTACATGCAAGATTATTTGA 57.064 32.000 0.00 0.00 0.00 2.69
4033 10107 9.752961 CATGCAAGATTATTTGATGTTCCATTA 57.247 29.630 0.00 0.00 0.00 1.90
4046 10120 8.690203 TGATGTTCCATTAGGTATTAATGTGG 57.310 34.615 0.00 0.00 44.71 4.17
4047 10121 8.498575 TGATGTTCCATTAGGTATTAATGTGGA 58.501 33.333 0.00 0.20 44.71 4.02
4048 10122 8.924511 ATGTTCCATTAGGTATTAATGTGGAG 57.075 34.615 0.00 0.00 44.71 3.86
4049 10123 8.096621 TGTTCCATTAGGTATTAATGTGGAGA 57.903 34.615 0.00 0.00 44.71 3.71
4065 10143 1.555075 GGAGATGTTACTGCACCTCCA 59.445 52.381 1.79 0.00 39.81 3.86
4071 10149 2.706723 TGTTACTGCACCTCCACCTTTA 59.293 45.455 0.00 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
72 75 9.406828 GGTTCATCACTTTACCTTTGTTTATTC 57.593 33.333 0.00 0.00 0.00 1.75
105 117 7.786178 TGTCCTGCAGTGTATAATAATCAAC 57.214 36.000 13.81 0.00 0.00 3.18
138 150 4.023792 TGCATCATCGATGGTATTTGCTTC 60.024 41.667 24.61 4.20 40.10 3.86
140 152 3.479489 TGCATCATCGATGGTATTTGCT 58.521 40.909 24.61 0.00 40.10 3.91
347 359 1.553706 CCTTTTGCAGGGCTCTCATT 58.446 50.000 0.00 0.00 39.39 2.57
410 422 0.179100 CCTCATCGTGCTGGTCGAAT 60.179 55.000 0.00 0.00 40.61 3.34
434 446 4.319177 CTTGGTCTATCCCATCGAAATCC 58.681 47.826 0.00 0.00 33.60 3.01
567 579 1.140052 TGTTACAGGGACACCACACTG 59.860 52.381 0.00 0.00 45.62 3.66
639 651 7.110810 ACTTCATCAACATCAGATCTGTCAAT 58.889 34.615 21.92 6.10 0.00 2.57
640 652 6.470278 ACTTCATCAACATCAGATCTGTCAA 58.530 36.000 21.92 3.73 0.00 3.18
666 678 2.932614 CAGCCTCAGTCGGAGTTTTATG 59.067 50.000 0.00 0.00 42.40 1.90
668 680 2.244695 TCAGCCTCAGTCGGAGTTTTA 58.755 47.619 0.00 0.00 42.40 1.52
679 697 3.133542 TCTCACCACAATATCAGCCTCAG 59.866 47.826 0.00 0.00 0.00 3.35
695 713 5.602978 TCCCATAAATTCTAGACCTCTCACC 59.397 44.000 0.00 0.00 0.00 4.02
723 741 1.242076 GCGGCCTCTTCATGCAATAT 58.758 50.000 0.00 0.00 0.00 1.28
844 862 2.164219 ACCCAATAGTTTGAAGCATGCG 59.836 45.455 13.01 0.00 34.60 4.73
892 910 5.456921 AACCTTCCATCCAGATACATTGT 57.543 39.130 0.00 0.00 0.00 2.71
897 915 5.871396 TCACTAACCTTCCATCCAGATAC 57.129 43.478 0.00 0.00 0.00 2.24
904 922 4.125703 CAGAGCATCACTAACCTTCCATC 58.874 47.826 0.00 0.00 37.82 3.51
909 927 2.038952 TGTGCAGAGCATCACTAACCTT 59.961 45.455 0.00 0.00 41.91 3.50
915 933 0.975135 AGTCTGTGCAGAGCATCACT 59.025 50.000 5.87 1.32 41.91 3.41
933 951 5.530171 CCTTCATCCAATCCAAGTGTATGAG 59.470 44.000 0.00 0.00 0.00 2.90
934 952 5.191522 TCCTTCATCCAATCCAAGTGTATGA 59.808 40.000 0.00 0.00 0.00 2.15
955 973 6.547396 TTCAGTAGGGATTATCTACCTCCT 57.453 41.667 0.00 0.00 38.20 3.69
961 979 6.782988 CCAGACCTTTCAGTAGGGATTATCTA 59.217 42.308 0.00 0.00 39.76 1.98
974 992 1.338200 CGAAGACCCCAGACCTTTCAG 60.338 57.143 0.00 0.00 0.00 3.02
975 993 0.685097 CGAAGACCCCAGACCTTTCA 59.315 55.000 0.00 0.00 0.00 2.69
976 994 0.974383 TCGAAGACCCCAGACCTTTC 59.026 55.000 0.00 0.00 0.00 2.62
978 996 0.685660 GTTCGAAGACCCCAGACCTT 59.314 55.000 0.00 0.00 34.32 3.50
980 998 0.685660 AAGTTCGAAGACCCCAGACC 59.314 55.000 0.00 0.00 34.32 3.85
982 1000 3.437213 TCATAAGTTCGAAGACCCCAGA 58.563 45.455 0.00 0.00 34.32 3.86
983 1001 3.887621 TCATAAGTTCGAAGACCCCAG 57.112 47.619 0.00 0.00 34.32 4.45
984 1002 4.627284 TTTCATAAGTTCGAAGACCCCA 57.373 40.909 0.00 0.00 34.32 4.96
985 1003 5.952526 TTTTTCATAAGTTCGAAGACCCC 57.047 39.130 0.00 0.00 34.32 4.95
1008 1026 8.645110 CCAATTTGCATAGGGATTATCTTCTTT 58.355 33.333 0.00 0.00 0.00 2.52
1009 1027 8.006564 TCCAATTTGCATAGGGATTATCTTCTT 58.993 33.333 0.00 0.00 0.00 2.52
1010 1028 7.529555 TCCAATTTGCATAGGGATTATCTTCT 58.470 34.615 0.00 0.00 0.00 2.85
1011 1029 7.765695 TCCAATTTGCATAGGGATTATCTTC 57.234 36.000 0.00 0.00 0.00 2.87
1012 1030 8.591072 CAATCCAATTTGCATAGGGATTATCTT 58.409 33.333 18.79 3.10 44.33 2.40
1013 1031 7.951806 TCAATCCAATTTGCATAGGGATTATCT 59.048 33.333 18.79 2.76 44.33 1.98
1014 1032 8.125978 TCAATCCAATTTGCATAGGGATTATC 57.874 34.615 18.79 0.00 44.33 1.75
1015 1033 8.674925 ATCAATCCAATTTGCATAGGGATTAT 57.325 30.769 18.79 12.79 44.33 1.28
1016 1034 8.495160 AATCAATCCAATTTGCATAGGGATTA 57.505 30.769 18.79 11.67 44.33 1.75
1017 1035 7.291651 AGAATCAATCCAATTTGCATAGGGATT 59.708 33.333 15.54 15.54 46.42 3.01
1018 1036 6.785963 AGAATCAATCCAATTTGCATAGGGAT 59.214 34.615 7.15 7.15 39.97 3.85
1019 1037 6.138263 AGAATCAATCCAATTTGCATAGGGA 58.862 36.000 3.43 3.43 0.00 4.20
1020 1038 6.415206 AGAATCAATCCAATTTGCATAGGG 57.585 37.500 0.00 0.00 0.00 3.53
1021 1039 6.927381 GGAAGAATCAATCCAATTTGCATAGG 59.073 38.462 0.00 0.00 35.71 2.57
1027 1045 6.820152 GGAAAGGGAAGAATCAATCCAATTTG 59.180 38.462 7.29 0.00 37.46 2.32
1041 1059 5.280521 GGTCATTAGAACTGGAAAGGGAAGA 60.281 44.000 0.00 0.00 0.00 2.87
1112 1133 0.324738 ATGTCGCCTGAGGAGGAAGA 60.325 55.000 0.65 0.00 42.93 2.87
1144 1165 0.698238 TATCACCTTGCCACCAGCTT 59.302 50.000 0.00 0.00 44.23 3.74
1154 1187 2.880890 GCCAGCTGGTAATATCACCTTG 59.119 50.000 32.81 3.52 39.50 3.61
1178 1217 3.420893 CAGCCTATTGTTGTCAGGGAAA 58.579 45.455 0.00 0.00 0.00 3.13
1184 1223 1.155889 CACGCAGCCTATTGTTGTCA 58.844 50.000 0.00 0.00 0.00 3.58
1240 1279 2.069776 CAACAGAGGAAGGGAGGCA 58.930 57.895 0.00 0.00 0.00 4.75
1241 1280 1.377856 GCAACAGAGGAAGGGAGGC 60.378 63.158 0.00 0.00 0.00 4.70
1278 1317 3.384146 ACATCTGTGCAATTGTCCAACAA 59.616 39.130 7.40 0.00 42.95 2.83
1281 1320 5.781210 TTTACATCTGTGCAATTGTCCAA 57.219 34.783 7.40 0.00 0.00 3.53
1287 1326 5.416952 CCTCCTCTTTTACATCTGTGCAATT 59.583 40.000 0.00 0.00 0.00 2.32
1301 1343 4.927049 TGATTTGATGCTCCTCCTCTTTT 58.073 39.130 0.00 0.00 0.00 2.27
1321 1363 8.527810 GGAAACATAATCCATTTTGGTTACTGA 58.472 33.333 0.00 0.00 39.03 3.41
1339 1381 7.093552 CCAACACCCATAGATTTTGGAAACATA 60.094 37.037 0.00 0.00 42.32 2.29
1402 1444 4.094887 CCCTGAGTTCATCCATTAAACACG 59.905 45.833 0.00 0.00 0.00 4.49
1439 1481 2.092753 GCTCATCCAATCCTTGACTCCA 60.093 50.000 0.00 0.00 0.00 3.86
1485 1527 3.129638 ACTCGGAGCTTGACAAGTCTATC 59.870 47.826 16.39 9.45 0.00 2.08
1486 1528 3.093057 ACTCGGAGCTTGACAAGTCTAT 58.907 45.455 16.39 1.08 0.00 1.98
1516 1558 7.924412 TGATTATTTCTGTTACATAGTCCGGTC 59.076 37.037 0.00 0.00 0.00 4.79
1517 1559 7.788026 TGATTATTTCTGTTACATAGTCCGGT 58.212 34.615 0.00 0.00 0.00 5.28
1525 1567 7.643569 TGGTGCATGATTATTTCTGTTACAT 57.356 32.000 0.00 0.00 0.00 2.29
1528 1570 5.067674 GGCTGGTGCATGATTATTTCTGTTA 59.932 40.000 0.00 0.00 41.91 2.41
1556 1598 3.498481 GGCTGGCATTGGATATGTTAGGA 60.498 47.826 0.00 0.00 0.00 2.94
1634 1676 1.610379 AAGCAATGGGGGCAGAACC 60.610 57.895 0.00 0.00 37.93 3.62
1677 1719 9.883142 GCTAGATATCTTAGGAATAGCAACATT 57.117 33.333 11.25 0.00 35.41 2.71
1681 1723 9.486123 AGATGCTAGATATCTTAGGAATAGCAA 57.514 33.333 21.75 10.33 44.98 3.91
1720 1766 3.077359 AGCATACTCTTCAGTTTGGCAC 58.923 45.455 0.00 0.00 33.42 5.01
1728 1774 4.619973 CCTCTTAGCAGCATACTCTTCAG 58.380 47.826 0.00 0.00 0.00 3.02
1737 1783 0.467384 ATCACGCCTCTTAGCAGCAT 59.533 50.000 0.00 0.00 0.00 3.79
1794 1841 5.843019 TCTTTGAGGTCAAGGGTCTTAAT 57.157 39.130 2.36 0.00 37.15 1.40
1796 1843 4.658901 ACTTCTTTGAGGTCAAGGGTCTTA 59.341 41.667 2.36 0.00 37.15 2.10
1813 1860 4.141711 TGAGGTTCAGTGCTACAACTTCTT 60.142 41.667 6.24 0.00 29.79 2.52
1890 1937 4.897140 TCCAAGATTGCCATTTTGAAAGG 58.103 39.130 2.89 0.00 27.72 3.11
1893 1940 5.481122 TCATCTCCAAGATTGCCATTTTGAA 59.519 36.000 2.89 0.00 31.32 2.69
1894 1941 5.018149 TCATCTCCAAGATTGCCATTTTGA 58.982 37.500 2.89 0.00 31.32 2.69
1919 1969 3.955471 AGATCGGATGGTTTCAATGTGT 58.045 40.909 0.00 0.00 0.00 3.72
1942 1992 1.957562 GCATGGCCAGATGCTGATC 59.042 57.895 21.65 0.00 44.57 2.92
1943 1993 4.175988 GCATGGCCAGATGCTGAT 57.824 55.556 21.65 0.00 44.57 2.90
2107 2160 7.108194 TCCTCTACGAGAGTTGAAACATACTA 58.892 38.462 9.90 0.00 46.40 1.82
2110 2163 5.944599 ACTCCTCTACGAGAGTTGAAACATA 59.055 40.000 9.90 0.00 46.40 2.29
2113 2166 4.215827 TCACTCCTCTACGAGAGTTGAAAC 59.784 45.833 9.90 0.00 46.40 2.78
2131 2184 4.212214 GTGAGTCAAAACATCCTGTCACTC 59.788 45.833 0.00 0.00 0.00 3.51
2137 2190 8.420222 AGATATCTAGTGAGTCAAAACATCCTG 58.580 37.037 2.53 0.00 0.00 3.86
2160 2213 8.816894 TCCTTCAAACATTGTAGAGAAGTAGAT 58.183 33.333 17.33 0.00 32.68 1.98
2164 2217 9.965902 AATATCCTTCAAACATTGTAGAGAAGT 57.034 29.630 17.33 8.39 32.68 3.01
2176 2229 7.824289 CACCTAAGTCAGAATATCCTTCAAACA 59.176 37.037 0.00 0.00 0.00 2.83
2177 2230 7.281100 CCACCTAAGTCAGAATATCCTTCAAAC 59.719 40.741 0.00 0.00 0.00 2.93
2178 2231 7.182026 TCCACCTAAGTCAGAATATCCTTCAAA 59.818 37.037 0.00 0.00 0.00 2.69
2180 2233 6.098409 GTCCACCTAAGTCAGAATATCCTTCA 59.902 42.308 0.00 0.00 0.00 3.02
2181 2234 6.098409 TGTCCACCTAAGTCAGAATATCCTTC 59.902 42.308 0.00 0.00 0.00 3.46
2198 2251 8.119246 ACATAAGCTATCTCTATATGTCCACCT 58.881 37.037 0.15 0.00 33.18 4.00
2233 2286 4.889409 CCCTATCACCAACAACAATGCTAT 59.111 41.667 0.00 0.00 0.00 2.97
2238 2291 4.264352 ACATCCCCTATCACCAACAACAAT 60.264 41.667 0.00 0.00 0.00 2.71
2255 2308 4.200092 GTCTAATTCCTTGACCACATCCC 58.800 47.826 0.00 0.00 0.00 3.85
2263 2316 5.877012 TGATCAAGCTGTCTAATTCCTTGAC 59.123 40.000 0.00 0.00 43.00 3.18
2299 2352 6.369065 GTGGTCTTGAAACGTGATATCTCTTT 59.631 38.462 3.98 0.00 0.00 2.52
2311 2364 1.069022 CATGCAGGTGGTCTTGAAACG 60.069 52.381 0.00 0.00 0.00 3.60
2312 2365 1.336240 GCATGCAGGTGGTCTTGAAAC 60.336 52.381 14.21 0.00 0.00 2.78
2330 2383 1.456296 CCTCATTAGCAGCAACAGCA 58.544 50.000 0.00 0.00 0.00 4.41
2393 8317 0.037605 ACCAGCCCGTTAACTCTTCG 60.038 55.000 3.71 0.00 0.00 3.79
2419 8343 5.851720 TCATCTCCTCTTCATCTTGTATGC 58.148 41.667 0.00 0.00 0.00 3.14
2449 8376 3.341823 CTGCTCTGGTTCTGCAGTAATT 58.658 45.455 14.67 0.00 46.23 1.40
2462 8389 1.492133 TTCCTTGGGTCCTGCTCTGG 61.492 60.000 0.00 0.00 0.00 3.86
2466 8393 1.280457 CTAGTTCCTTGGGTCCTGCT 58.720 55.000 0.00 0.00 0.00 4.24
2471 8398 2.861147 AAGCACTAGTTCCTTGGGTC 57.139 50.000 0.00 0.00 0.00 4.46
2513 8449 2.480037 CACATGCAACTTCTTAGCACGA 59.520 45.455 0.00 0.00 41.60 4.35
2584 8523 6.318648 GCGCCAATCTATAAAATGATATGGGA 59.681 38.462 0.00 0.00 0.00 4.37
2585 8524 6.319658 AGCGCCAATCTATAAAATGATATGGG 59.680 38.462 2.29 0.00 0.00 4.00
2587 8526 8.206325 AGAGCGCCAATCTATAAAATGATATG 57.794 34.615 2.29 0.00 0.00 1.78
2589 8528 9.890629 AATAGAGCGCCAATCTATAAAATGATA 57.109 29.630 15.60 0.00 38.70 2.15
2592 8531 7.810658 ACAATAGAGCGCCAATCTATAAAATG 58.189 34.615 15.60 12.83 38.70 2.32
2593 8532 7.986085 ACAATAGAGCGCCAATCTATAAAAT 57.014 32.000 15.60 1.00 38.70 1.82
2594 8533 7.801716 AACAATAGAGCGCCAATCTATAAAA 57.198 32.000 15.60 0.00 38.70 1.52
2595 8534 8.364894 TCTAACAATAGAGCGCCAATCTATAAA 58.635 33.333 15.60 4.29 38.70 1.40
2596 8535 7.813148 GTCTAACAATAGAGCGCCAATCTATAA 59.187 37.037 15.60 4.55 38.70 0.98
2597 8536 7.313646 GTCTAACAATAGAGCGCCAATCTATA 58.686 38.462 15.60 2.76 38.70 1.31
2598 8537 6.159988 GTCTAACAATAGAGCGCCAATCTAT 58.840 40.000 2.29 7.89 40.84 1.98
2599 8538 5.509163 GGTCTAACAATAGAGCGCCAATCTA 60.509 44.000 2.29 5.41 44.22 1.98
2600 8539 4.372656 GTCTAACAATAGAGCGCCAATCT 58.627 43.478 2.29 2.72 38.82 2.40
2601 8540 3.495001 GGTCTAACAATAGAGCGCCAATC 59.505 47.826 2.29 0.00 44.22 2.67
2602 8541 3.467803 GGTCTAACAATAGAGCGCCAAT 58.532 45.455 2.29 0.00 44.22 3.16
2603 8542 2.901249 GGTCTAACAATAGAGCGCCAA 58.099 47.619 2.29 0.00 44.22 4.52
2604 8543 2.596904 GGTCTAACAATAGAGCGCCA 57.403 50.000 2.29 0.00 44.22 5.69
2867 8806 2.362397 GAGAACATGTATGAGCCTCGGA 59.638 50.000 0.00 0.00 0.00 4.55
3017 8959 1.427020 GTGGATGCGCTTCAGCTTC 59.573 57.895 22.93 7.45 39.62 3.86
3056 8998 3.134623 TCTTACTCCCACATATGCACTGG 59.865 47.826 1.58 3.16 0.00 4.00
3178 9126 1.613437 CCAAGTTGTCCCACCAATCAC 59.387 52.381 1.45 0.00 0.00 3.06
3375 9339 4.232188 AGACTAGTACTGGGACGATGAA 57.768 45.455 11.30 0.00 0.00 2.57
3439 9405 8.469309 ACCTACAATGCAGAATATAAATTGCT 57.531 30.769 0.00 0.00 37.45 3.91
3451 9419 4.150897 GGTGGATTACCTACAATGCAGA 57.849 45.455 0.00 0.00 46.51 4.26
3568 9635 1.270571 TGGAAGATGTAACAGCACGCA 60.271 47.619 0.00 0.00 0.00 5.24
3579 9646 3.312736 ACCAACCAAACTGGAAGATGT 57.687 42.857 0.00 0.00 40.96 3.06
3668 9737 3.462954 TGTACCATCATCCATCCAACCAT 59.537 43.478 0.00 0.00 0.00 3.55
3768 9837 1.227645 ACGCACACACAGAGCACAT 60.228 52.632 0.00 0.00 32.95 3.21
3770 9839 2.173669 ACACGCACACACAGAGCAC 61.174 57.895 0.00 0.00 32.95 4.40
3784 9857 0.098025 GACAAACCACACACCACACG 59.902 55.000 0.00 0.00 0.00 4.49
3785 9858 1.169577 TGACAAACCACACACCACAC 58.830 50.000 0.00 0.00 0.00 3.82
3805 9878 6.553953 TTATTACAGCAACCAGTCCATAGA 57.446 37.500 0.00 0.00 0.00 1.98
3816 9889 6.307800 ACGCACAATCAAATTATTACAGCAAC 59.692 34.615 0.00 0.00 0.00 4.17
3880 9953 8.474710 AGCTTGCCAGATATGAAATCTTTAAT 57.525 30.769 0.00 0.00 0.00 1.40
3914 9987 6.041511 CAGTCATGAGATGGTTCAGAAGTAG 58.958 44.000 0.00 0.00 0.00 2.57
3933 10006 6.295249 TGAAAGGTGTTATCACATTCAGTCA 58.705 36.000 15.12 9.01 45.73 3.41
3948 10022 6.937436 ACTCGTTTAGAATTTGAAAGGTGT 57.063 33.333 7.21 7.21 0.00 4.16
3956 10030 7.639945 AGACTTCCAAACTCGTTTAGAATTTG 58.360 34.615 4.36 0.00 43.43 2.32
3959 10033 5.932883 GGAGACTTCCAAACTCGTTTAGAAT 59.067 40.000 4.36 0.00 43.45 2.40
4033 10107 6.992715 GCAGTAACATCTCCACATTAATACCT 59.007 38.462 0.00 0.00 0.00 3.08
4040 10114 3.009473 AGGTGCAGTAACATCTCCACATT 59.991 43.478 0.00 0.00 28.62 2.71
4041 10115 2.573462 AGGTGCAGTAACATCTCCACAT 59.427 45.455 0.00 0.00 28.62 3.21
4043 10117 2.622436 GAGGTGCAGTAACATCTCCAC 58.378 52.381 0.00 0.00 41.17 4.02
4046 10120 2.622436 GTGGAGGTGCAGTAACATCTC 58.378 52.381 0.00 0.00 45.40 2.75
4047 10121 1.279271 GGTGGAGGTGCAGTAACATCT 59.721 52.381 0.00 0.00 32.29 2.90
4048 10122 1.279271 AGGTGGAGGTGCAGTAACATC 59.721 52.381 0.00 0.00 0.00 3.06
4049 10123 1.362224 AGGTGGAGGTGCAGTAACAT 58.638 50.000 0.00 0.00 0.00 2.71
4065 10143 6.602278 GGCAAAATAGACTCCCTATAAAGGT 58.398 40.000 0.00 0.00 41.89 3.50
4438 10516 1.648467 GCAACGGCTGGGATCAAGAC 61.648 60.000 0.00 0.00 36.96 3.01


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

AutoCloner maintained by Alex Coulton.