Multiple sequence alignment - TraesCS2A01G564500

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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 TraesCS2A01G564500 chr2A 100.000 3248 0 0 328 3575 764726070 764722823 0.000000e+00 5999.0
1 TraesCS2A01G564500 chr2A 100.000 86 0 0 1 86 764726397 764726312 3.690000e-35 159.0
2 TraesCS2A01G564500 chr2B 95.361 3061 117 17 328 3381 798157065 798154023 0.000000e+00 4843.0
3 TraesCS2A01G564500 chr2B 84.281 2233 281 35 520 2742 798331021 798328849 0.000000e+00 2115.0
4 TraesCS2A01G564500 chr2B 83.475 2239 292 40 519 2742 798193076 798190901 0.000000e+00 2013.0
5 TraesCS2A01G564500 chr2B 83.287 2154 281 49 519 2656 798226513 798224423 0.000000e+00 1910.0
6 TraesCS2A01G564500 chr2B 88.587 368 34 5 3018 3381 798184071 798183708 1.180000e-119 440.0
7 TraesCS2A01G564500 chr2B 87.025 316 33 7 3062 3370 798357654 798357340 2.040000e-92 350.0
8 TraesCS2A01G564500 chr2B 87.838 222 22 4 3018 3234 798328651 798328430 4.580000e-64 255.0
9 TraesCS2A01G564500 chr2B 91.729 133 7 4 3366 3496 200902073 200902203 7.880000e-42 182.0
10 TraesCS2A01G564500 chr2D 81.749 2893 383 83 519 3381 638864166 638861389 0.000000e+00 2283.0
11 TraesCS2A01G564500 chr2D 90.621 1578 119 7 328 1901 639090285 639088733 0.000000e+00 2067.0
12 TraesCS2A01G564500 chr2D 82.270 2397 339 55 519 2885 639362125 639359785 0.000000e+00 1993.0
13 TraesCS2A01G564500 chr2D 81.636 2396 346 54 519 2891 639137010 639134686 0.000000e+00 1901.0
14 TraesCS2A01G564500 chr2D 82.627 1393 197 22 519 1901 639278610 639277253 0.000000e+00 1190.0
15 TraesCS2A01G564500 chr2D 82.189 1398 182 41 1948 3334 639277101 639275760 0.000000e+00 1140.0
16 TraesCS2A01G564500 chr2D 79.410 1457 206 53 1956 3380 639088573 639087179 0.000000e+00 942.0
17 TraesCS2A01G564500 chr2D 83.452 562 60 19 2824 3380 639134691 639134158 3.210000e-135 492.0
18 TraesCS2A01G564500 chr2D 91.176 340 24 3 3046 3382 639151606 639151270 1.170000e-124 457.0
19 TraesCS2A01G564500 chr2D 88.451 355 34 4 3036 3386 639359555 639359204 4.270000e-114 422.0
20 TraesCS2A01G564500 chr2D 95.833 120 5 0 3376 3495 632423750 632423631 1.010000e-45 195.0
21 TraesCS2A01G564500 chr2D 94.355 124 7 0 3372 3495 632686045 632685922 1.310000e-44 191.0
22 TraesCS2A01G564500 chr2D 77.778 216 31 6 2832 3047 639359776 639359578 2.260000e-22 117.0
23 TraesCS2A01G564500 chr2D 87.209 86 9 1 3 86 639090379 639090294 2.940000e-16 97.1
24 TraesCS2A01G564500 chr3D 93.939 132 6 2 3365 3495 443365238 443365368 7.830000e-47 198.0
25 TraesCS2A01G564500 chr7B 93.182 132 6 2 3366 3495 185623073 185622943 1.310000e-44 191.0
26 TraesCS2A01G564500 chr3B 95.000 120 6 0 3376 3495 775481734 775481615 4.710000e-44 189.0
27 TraesCS2A01G564500 chr3B 94.309 123 6 1 3373 3495 362481281 362481160 1.690000e-43 187.0
28 TraesCS2A01G564500 chr3A 93.651 126 6 2 3370 3495 602023052 602023175 1.690000e-43 187.0
29 TraesCS2A01G564500 chr5B 93.023 129 6 3 3370 3496 276913572 276913699 6.090000e-43 185.0
30 TraesCS2A01G564500 chrUn 100.000 81 0 0 3495 3575 171004957 171004877 2.220000e-32 150.0
31 TraesCS2A01G564500 chrUn 100.000 81 0 0 3495 3575 338557720 338557640 2.220000e-32 150.0
32 TraesCS2A01G564500 chr4D 100.000 81 0 0 3495 3575 123398200 123398120 2.220000e-32 150.0
33 TraesCS2A01G564500 chr4D 100.000 81 0 0 3495 3575 241112490 241112410 2.220000e-32 150.0
34 TraesCS2A01G564500 chr4B 100.000 81 0 0 3495 3575 623344034 623343954 2.220000e-32 150.0
35 TraesCS2A01G564500 chr1D 100.000 81 0 0 3495 3575 212448897 212448977 2.220000e-32 150.0
36 TraesCS2A01G564500 chr1D 100.000 81 0 0 3495 3575 275789898 275789978 2.220000e-32 150.0
37 TraesCS2A01G564500 chr1D 78.261 184 36 4 1575 1756 12535056 12535237 8.110000e-22 115.0
38 TraesCS2A01G564500 chr1A 100.000 81 0 0 3495 3575 94576891 94576811 2.220000e-32 150.0
39 TraesCS2A01G564500 chr1A 100.000 81 0 0 3495 3575 94577573 94577493 2.220000e-32 150.0


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 TraesCS2A01G564500 chr2A 764722823 764726397 3574 True 3079.000000 5999 100.000000 1 3575 2 chr2A.!!$R1 3574
1 TraesCS2A01G564500 chr2B 798154023 798157065 3042 True 4843.000000 4843 95.361000 328 3381 1 chr2B.!!$R1 3053
2 TraesCS2A01G564500 chr2B 798190901 798193076 2175 True 2013.000000 2013 83.475000 519 2742 1 chr2B.!!$R3 2223
3 TraesCS2A01G564500 chr2B 798224423 798226513 2090 True 1910.000000 1910 83.287000 519 2656 1 chr2B.!!$R4 2137
4 TraesCS2A01G564500 chr2B 798328430 798331021 2591 True 1185.000000 2115 86.059500 520 3234 2 chr2B.!!$R6 2714
5 TraesCS2A01G564500 chr2D 638861389 638864166 2777 True 2283.000000 2283 81.749000 519 3381 1 chr2D.!!$R3 2862
6 TraesCS2A01G564500 chr2D 639134158 639137010 2852 True 1196.500000 1901 82.544000 519 3380 2 chr2D.!!$R6 2861
7 TraesCS2A01G564500 chr2D 639275760 639278610 2850 True 1165.000000 1190 82.408000 519 3334 2 chr2D.!!$R7 2815
8 TraesCS2A01G564500 chr2D 639087179 639090379 3200 True 1035.366667 2067 85.746667 3 3380 3 chr2D.!!$R5 3377
9 TraesCS2A01G564500 chr2D 639359204 639362125 2921 True 844.000000 1993 82.833000 519 3386 3 chr2D.!!$R8 2867

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
80 83 0.456995 GGTGTGCTCACTCTAGTCGC 60.457 60.0 17.68 0.0 43.41 5.19 F
1166 1181 0.261696 AAAGGTCAAACCAGCCCACT 59.738 50.0 0.00 0.0 41.95 4.00 F
1936 1985 0.178767 TGGCGAGGGAGTTGATGATG 59.821 55.0 0.00 0.0 0.00 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1611 1660 1.133884 GTGCCCCTTAACCCCAGATAC 60.134 57.143 0.00 0.00 0.00 2.24 R
2223 2386 0.466007 TGCCTTTGCTGAGCACAGAA 60.466 50.000 21.22 6.03 46.03 3.02 R
3515 3812 1.075601 AGGGATGCTCAAACCAAGGA 58.924 50.000 0.00 0.00 0.00 3.36 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
18 19 1.383799 TTGCCCTAGTGCATTGGCT 59.616 52.632 16.38 0.68 44.32 4.75
71 74 1.002366 GATCGACATGGTGTGCTCAC 58.998 55.000 10.44 10.44 43.19 3.51
80 83 0.456995 GGTGTGCTCACTCTAGTCGC 60.457 60.000 17.68 0.00 43.41 5.19
82 85 1.870016 GTGCTCACTCTAGTCGCGC 60.870 63.158 0.00 0.00 0.00 6.86
354 357 0.606096 ATGTGGTAGCGTGCACACTA 59.394 50.000 18.64 14.42 35.02 2.74
420 423 1.388547 TTCAAAGTGTGGGCTGTGAC 58.611 50.000 0.00 0.00 32.86 3.67
499 506 4.387026 TCCAAGAATCAAACAGACCCAT 57.613 40.909 0.00 0.00 0.00 4.00
652 666 7.816640 TGGAAAGAAATCAGTTATGCACTTAC 58.183 34.615 0.00 0.00 30.92 2.34
848 862 6.151817 GGTTTGAGCAAGTATCCAAAGAGATT 59.848 38.462 0.00 0.00 0.00 2.40
855 869 7.667219 AGCAAGTATCCAAAGAGATTCTTGAAA 59.333 33.333 19.00 0.00 46.44 2.69
880 894 1.227853 GCAGGGGTACCATTAGCCG 60.228 63.158 15.35 3.33 44.85 5.52
889 903 4.056050 GGTACCATTAGCCGTCATTAGTG 58.944 47.826 7.15 0.00 0.00 2.74
965 979 2.128771 TTGCTCACTTCTATTGGCCC 57.871 50.000 0.00 0.00 0.00 5.80
1112 1127 2.674796 ATTAGCAGAGACCGGTTGAC 57.325 50.000 9.42 3.25 0.00 3.18
1159 1174 7.899648 TTTATCCAAGTAAAAGGTCAAACCA 57.100 32.000 0.00 0.00 41.95 3.67
1160 1175 7.519032 TTATCCAAGTAAAAGGTCAAACCAG 57.481 36.000 0.00 0.00 41.95 4.00
1161 1176 3.634910 TCCAAGTAAAAGGTCAAACCAGC 59.365 43.478 0.00 0.00 41.95 4.85
1162 1177 3.243737 CCAAGTAAAAGGTCAAACCAGCC 60.244 47.826 0.00 0.00 41.95 4.85
1163 1178 2.594131 AGTAAAAGGTCAAACCAGCCC 58.406 47.619 0.00 0.00 41.95 5.19
1164 1179 2.091555 AGTAAAAGGTCAAACCAGCCCA 60.092 45.455 0.00 0.00 41.95 5.36
1165 1180 1.119684 AAAAGGTCAAACCAGCCCAC 58.880 50.000 0.00 0.00 41.95 4.61
1166 1181 0.261696 AAAGGTCAAACCAGCCCACT 59.738 50.000 0.00 0.00 41.95 4.00
1167 1182 0.261696 AAGGTCAAACCAGCCCACTT 59.738 50.000 0.00 0.00 41.95 3.16
1168 1183 0.468029 AGGTCAAACCAGCCCACTTG 60.468 55.000 0.00 0.00 41.95 3.16
1169 1184 1.363807 GTCAAACCAGCCCACTTGC 59.636 57.895 0.00 0.00 0.00 4.01
1170 1185 1.076412 TCAAACCAGCCCACTTGCA 60.076 52.632 0.00 0.00 0.00 4.08
1171 1186 1.108727 TCAAACCAGCCCACTTGCAG 61.109 55.000 0.00 0.00 0.00 4.41
1172 1187 1.108727 CAAACCAGCCCACTTGCAGA 61.109 55.000 0.00 0.00 0.00 4.26
1173 1188 0.396974 AAACCAGCCCACTTGCAGAA 60.397 50.000 0.00 0.00 0.00 3.02
1174 1189 0.396974 AACCAGCCCACTTGCAGAAA 60.397 50.000 0.00 0.00 0.00 2.52
1175 1190 0.396974 ACCAGCCCACTTGCAGAAAA 60.397 50.000 0.00 0.00 0.00 2.29
1176 1191 0.971386 CCAGCCCACTTGCAGAAAAT 59.029 50.000 0.00 0.00 0.00 1.82
1177 1192 1.067354 CCAGCCCACTTGCAGAAAATC 60.067 52.381 0.00 0.00 0.00 2.17
1178 1193 1.614903 CAGCCCACTTGCAGAAAATCA 59.385 47.619 0.00 0.00 0.00 2.57
1179 1194 2.036217 CAGCCCACTTGCAGAAAATCAA 59.964 45.455 0.00 0.00 0.00 2.57
1180 1195 2.036346 AGCCCACTTGCAGAAAATCAAC 59.964 45.455 0.00 0.00 0.00 3.18
1181 1196 2.867647 GCCCACTTGCAGAAAATCAACC 60.868 50.000 0.00 0.00 0.00 3.77
1182 1197 2.629617 CCCACTTGCAGAAAATCAACCT 59.370 45.455 0.00 0.00 0.00 3.50
1197 1236 4.317530 TCAACCTAGTCTCCTTGAGCTA 57.682 45.455 0.00 0.00 0.00 3.32
1271 1313 5.367945 AACATACATAGTGGTAGGGTTGG 57.632 43.478 0.00 0.00 29.75 3.77
1507 1555 5.450453 CCTCTGTCAGTAAGATTCCCTCTA 58.550 45.833 0.00 0.00 32.41 2.43
1545 1593 2.602257 TGCGTGTATTGGATCTGGAG 57.398 50.000 0.00 0.00 0.00 3.86
1611 1660 5.991606 TGTTGAGAAGTTGTTACATCTGAGG 59.008 40.000 0.00 0.00 32.77 3.86
1692 1741 4.748102 CGGTTTTTGCAGACACTAGACTTA 59.252 41.667 0.00 0.00 0.00 2.24
1933 1982 2.620251 TATTGGCGAGGGAGTTGATG 57.380 50.000 0.00 0.00 0.00 3.07
1934 1983 0.911769 ATTGGCGAGGGAGTTGATGA 59.088 50.000 0.00 0.00 0.00 2.92
1935 1984 0.911769 TTGGCGAGGGAGTTGATGAT 59.088 50.000 0.00 0.00 0.00 2.45
1936 1985 0.178767 TGGCGAGGGAGTTGATGATG 59.821 55.000 0.00 0.00 0.00 3.07
1937 1986 0.465705 GGCGAGGGAGTTGATGATGA 59.534 55.000 0.00 0.00 0.00 2.92
1943 2097 4.202192 CGAGGGAGTTGATGATGATGAAGA 60.202 45.833 0.00 0.00 0.00 2.87
1946 2100 6.767456 AGGGAGTTGATGATGATGAAGATAC 58.233 40.000 0.00 0.00 0.00 2.24
1953 2107 9.049523 GTTGATGATGATGAAGATACTAAAGCA 57.950 33.333 0.00 0.00 0.00 3.91
2157 2317 5.624159 TCCTACCTTGATCTAAATGCCATG 58.376 41.667 0.00 0.00 0.00 3.66
2223 2386 4.440802 GCTCTCCGTTATGTCACTCTCATT 60.441 45.833 0.00 0.00 0.00 2.57
2226 2389 5.419155 TCTCCGTTATGTCACTCTCATTTCT 59.581 40.000 0.00 0.00 0.00 2.52
2228 2391 5.047306 TCCGTTATGTCACTCTCATTTCTGT 60.047 40.000 0.00 0.00 0.00 3.41
2229 2392 5.062683 CCGTTATGTCACTCTCATTTCTGTG 59.937 44.000 0.00 0.00 0.00 3.66
2233 2396 3.070015 TGTCACTCTCATTTCTGTGCTCA 59.930 43.478 0.00 0.00 0.00 4.26
2243 2406 0.887836 TCTGTGCTCAGCAAAGGCAG 60.888 55.000 17.33 12.50 43.51 4.85
2272 2435 3.136626 AGTGGAGAAGTTGGTGCTTAGTT 59.863 43.478 0.00 0.00 0.00 2.24
2289 2452 0.759060 GTTTTGGTGCCTTCCCCAGT 60.759 55.000 0.00 0.00 31.04 4.00
2294 2457 3.565214 TGCCTTCCCCAGTGCGAA 61.565 61.111 0.00 0.00 0.00 4.70
2426 2589 3.689161 CCCGACTTCAATTTGAGCATACA 59.311 43.478 0.00 0.00 0.00 2.29
2483 2646 7.606073 TGACCTTCTCGATTATGAAATCAAACA 59.394 33.333 0.00 0.00 41.44 2.83
2587 2756 6.710597 AATTCATTTGATGATGGAGAGGTG 57.289 37.500 0.00 0.00 39.39 4.00
2630 2812 4.081406 TCAATGATTCAGTCCCCTGTTTG 58.919 43.478 0.00 0.00 39.82 2.93
2679 2862 1.135575 CAATTTCAGGCCGAGTCAAGC 60.136 52.381 0.00 0.00 0.00 4.01
2758 2947 4.403015 TTTCTACATCACGCATGTGTTG 57.597 40.909 9.73 9.35 45.98 3.33
2771 2960 3.621715 GCATGTGTTGGGTAGTAACTAGC 59.378 47.826 0.00 0.00 34.17 3.42
2782 2971 5.213675 GGTAGTAACTAGCACTCGCATTAG 58.786 45.833 1.03 0.00 42.27 1.73
2790 2979 2.169352 AGCACTCGCATTAGTCCTTCAT 59.831 45.455 0.00 0.00 42.27 2.57
2812 3001 3.837146 TCATCTTCTTCAGCTCTCCACTT 59.163 43.478 0.00 0.00 0.00 3.16
2915 3166 1.523711 GATTTCCTCGGCGGCATCA 60.524 57.895 10.53 0.00 0.00 3.07
2950 3205 3.154473 TCCATCTTCCGAGCCCCG 61.154 66.667 0.00 0.00 38.18 5.73
3007 3262 1.811359 GTACCCTCCGTATCATCGAGG 59.189 57.143 0.00 0.00 0.00 4.63
3093 3383 7.038870 TCAGTGTGTAATAAGGCTAGTTTGGTA 60.039 37.037 0.00 0.00 0.00 3.25
3095 3385 6.537660 GTGTGTAATAAGGCTAGTTTGGTAGG 59.462 42.308 0.00 0.00 0.00 3.18
3166 3456 0.458260 GGTTTTCCTGGTGTGCGTTT 59.542 50.000 0.00 0.00 36.94 3.60
3381 3678 8.486210 TCCAAATAAGTAGCTCATGATGTACTT 58.514 33.333 23.33 23.33 38.81 2.24
3386 3683 4.586841 AGTAGCTCATGATGTACTTCCTCC 59.413 45.833 10.11 0.00 0.00 4.30
3387 3684 2.363680 AGCTCATGATGTACTTCCTCCG 59.636 50.000 0.00 0.00 0.00 4.63
3388 3685 2.101582 GCTCATGATGTACTTCCTCCGT 59.898 50.000 0.00 0.00 0.00 4.69
3389 3686 3.430929 GCTCATGATGTACTTCCTCCGTT 60.431 47.826 0.00 0.00 0.00 4.44
3390 3687 4.115516 CTCATGATGTACTTCCTCCGTTG 58.884 47.826 0.00 0.00 0.00 4.10
3391 3688 2.380084 TGATGTACTTCCTCCGTTGC 57.620 50.000 6.32 0.00 0.00 4.17
3392 3689 1.899814 TGATGTACTTCCTCCGTTGCT 59.100 47.619 6.32 0.00 0.00 3.91
3393 3690 3.093814 TGATGTACTTCCTCCGTTGCTA 58.906 45.455 6.32 0.00 0.00 3.49
3394 3691 3.512329 TGATGTACTTCCTCCGTTGCTAA 59.488 43.478 6.32 0.00 0.00 3.09
3395 3692 4.020928 TGATGTACTTCCTCCGTTGCTAAA 60.021 41.667 6.32 0.00 0.00 1.85
3396 3693 4.546829 TGTACTTCCTCCGTTGCTAAAT 57.453 40.909 0.00 0.00 0.00 1.40
3397 3694 5.664294 TGTACTTCCTCCGTTGCTAAATA 57.336 39.130 0.00 0.00 0.00 1.40
3398 3695 6.229936 TGTACTTCCTCCGTTGCTAAATAT 57.770 37.500 0.00 0.00 0.00 1.28
3399 3696 6.646267 TGTACTTCCTCCGTTGCTAAATATT 58.354 36.000 0.00 0.00 0.00 1.28
3400 3697 7.107542 TGTACTTCCTCCGTTGCTAAATATTT 58.892 34.615 5.89 5.89 0.00 1.40
3401 3698 6.436843 ACTTCCTCCGTTGCTAAATATTTG 57.563 37.500 11.05 2.59 0.00 2.32
3402 3699 5.944007 ACTTCCTCCGTTGCTAAATATTTGT 59.056 36.000 11.05 0.00 0.00 2.83
3403 3700 6.093633 ACTTCCTCCGTTGCTAAATATTTGTC 59.906 38.462 11.05 3.17 0.00 3.18
3404 3701 5.741011 TCCTCCGTTGCTAAATATTTGTCT 58.259 37.500 11.05 0.00 0.00 3.41
3405 3702 6.177610 TCCTCCGTTGCTAAATATTTGTCTT 58.822 36.000 11.05 0.00 0.00 3.01
3406 3703 6.657541 TCCTCCGTTGCTAAATATTTGTCTTT 59.342 34.615 11.05 0.00 0.00 2.52
3407 3704 6.967199 CCTCCGTTGCTAAATATTTGTCTTTC 59.033 38.462 11.05 0.00 0.00 2.62
3408 3705 7.148239 CCTCCGTTGCTAAATATTTGTCTTTCT 60.148 37.037 11.05 0.00 0.00 2.52
3409 3706 8.780846 TCCGTTGCTAAATATTTGTCTTTCTA 57.219 30.769 11.05 0.00 0.00 2.10
3410 3707 9.221933 TCCGTTGCTAAATATTTGTCTTTCTAA 57.778 29.630 11.05 0.00 0.00 2.10
3411 3708 9.834628 CCGTTGCTAAATATTTGTCTTTCTAAA 57.165 29.630 11.05 0.00 0.00 1.85
3437 3734 9.261180 ACATTTCAAATAGACTATCACATACGG 57.739 33.333 0.00 0.00 0.00 4.02
3438 3735 9.476202 CATTTCAAATAGACTATCACATACGGA 57.524 33.333 0.00 0.00 0.00 4.69
3450 3747 9.901172 ACTATCACATACGGATATATGTAGACA 57.099 33.333 0.00 0.00 42.63 3.41
3482 3779 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
3483 3780 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
3484 3781 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
3485 3782 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
3486 3783 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
3487 3784 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
3488 3785 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
3489 3786 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
3490 3787 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
3491 3788 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
3492 3789 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
3493 3790 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
3494 3791 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
3495 3792 5.670485 TCATTTTGCTCCGTATGTAGTCAT 58.330 37.500 0.00 0.00 38.00 3.06
3496 3793 5.523552 TCATTTTGCTCCGTATGTAGTCATG 59.476 40.000 0.00 0.00 35.70 3.07
3497 3794 2.509052 TGCTCCGTATGTAGTCATGC 57.491 50.000 0.00 0.00 35.70 4.06
3498 3795 1.754226 TGCTCCGTATGTAGTCATGCA 59.246 47.619 0.00 0.00 36.67 3.96
3499 3796 2.128035 GCTCCGTATGTAGTCATGCAC 58.872 52.381 0.00 0.00 36.67 4.57
3500 3797 2.223829 GCTCCGTATGTAGTCATGCACT 60.224 50.000 0.00 0.00 36.67 4.40
3501 3798 3.004419 GCTCCGTATGTAGTCATGCACTA 59.996 47.826 0.00 0.00 36.67 2.74
3502 3799 4.499188 GCTCCGTATGTAGTCATGCACTAA 60.499 45.833 0.00 0.87 39.44 2.24
3503 3800 5.773575 CTCCGTATGTAGTCATGCACTAAT 58.226 41.667 0.00 6.18 39.44 1.73
3504 3801 6.569801 GCTCCGTATGTAGTCATGCACTAATA 60.570 42.308 0.00 5.53 39.44 0.98
3505 3802 7.279750 TCCGTATGTAGTCATGCACTAATAA 57.720 36.000 0.00 0.00 39.44 1.40
3506 3803 7.368059 TCCGTATGTAGTCATGCACTAATAAG 58.632 38.462 0.00 8.54 39.44 1.73
3507 3804 7.229907 TCCGTATGTAGTCATGCACTAATAAGA 59.770 37.037 0.00 6.00 39.44 2.10
3508 3805 7.326305 CCGTATGTAGTCATGCACTAATAAGAC 59.674 40.741 0.00 0.00 39.44 3.01
3509 3806 8.076781 CGTATGTAGTCATGCACTAATAAGACT 58.923 37.037 0.00 0.00 39.44 3.24
3510 3807 9.400638 GTATGTAGTCATGCACTAATAAGACTC 57.599 37.037 0.00 0.00 39.44 3.36
3511 3808 6.806751 TGTAGTCATGCACTAATAAGACTCC 58.193 40.000 0.00 0.00 39.44 3.85
3512 3809 5.939764 AGTCATGCACTAATAAGACTCCA 57.060 39.130 0.00 0.00 31.19 3.86
3513 3810 6.299805 AGTCATGCACTAATAAGACTCCAA 57.700 37.500 0.00 0.00 31.19 3.53
3514 3811 6.711277 AGTCATGCACTAATAAGACTCCAAA 58.289 36.000 0.00 0.00 31.19 3.28
3515 3812 7.341805 AGTCATGCACTAATAAGACTCCAAAT 58.658 34.615 0.00 0.00 31.19 2.32
3516 3813 7.497249 AGTCATGCACTAATAAGACTCCAAATC 59.503 37.037 0.00 0.00 31.19 2.17
3517 3814 6.767902 TCATGCACTAATAAGACTCCAAATCC 59.232 38.462 0.00 0.00 0.00 3.01
3518 3815 6.313519 TGCACTAATAAGACTCCAAATCCT 57.686 37.500 0.00 0.00 0.00 3.24
3519 3816 6.721318 TGCACTAATAAGACTCCAAATCCTT 58.279 36.000 0.00 0.00 0.00 3.36
3520 3817 6.599244 TGCACTAATAAGACTCCAAATCCTTG 59.401 38.462 0.00 0.00 0.00 3.61
3530 3827 3.967332 CCAAATCCTTGGTTTGAGCAT 57.033 42.857 1.50 0.00 46.25 3.79
3531 3828 3.853475 CCAAATCCTTGGTTTGAGCATC 58.147 45.455 1.50 0.00 46.25 3.91
3532 3829 3.368739 CCAAATCCTTGGTTTGAGCATCC 60.369 47.826 1.50 0.00 46.25 3.51
3533 3830 2.149973 ATCCTTGGTTTGAGCATCCC 57.850 50.000 0.00 0.00 0.00 3.85
3534 3831 1.075601 TCCTTGGTTTGAGCATCCCT 58.924 50.000 0.00 0.00 0.00 4.20
3535 3832 1.428912 TCCTTGGTTTGAGCATCCCTT 59.571 47.619 0.00 0.00 0.00 3.95
3536 3833 2.158325 TCCTTGGTTTGAGCATCCCTTT 60.158 45.455 0.00 0.00 0.00 3.11
3537 3834 2.232208 CCTTGGTTTGAGCATCCCTTTC 59.768 50.000 0.00 0.00 0.00 2.62
3538 3835 2.978156 TGGTTTGAGCATCCCTTTCT 57.022 45.000 0.00 0.00 0.00 2.52
3539 3836 3.243359 TGGTTTGAGCATCCCTTTCTT 57.757 42.857 0.00 0.00 0.00 2.52
3540 3837 3.575805 TGGTTTGAGCATCCCTTTCTTT 58.424 40.909 0.00 0.00 0.00 2.52
3541 3838 3.966665 TGGTTTGAGCATCCCTTTCTTTT 59.033 39.130 0.00 0.00 0.00 2.27
3542 3839 4.202243 TGGTTTGAGCATCCCTTTCTTTTG 60.202 41.667 0.00 0.00 0.00 2.44
3543 3840 4.202253 GGTTTGAGCATCCCTTTCTTTTGT 60.202 41.667 0.00 0.00 0.00 2.83
3544 3841 5.010617 GGTTTGAGCATCCCTTTCTTTTGTA 59.989 40.000 0.00 0.00 0.00 2.41
3545 3842 6.462347 GGTTTGAGCATCCCTTTCTTTTGTAA 60.462 38.462 0.00 0.00 0.00 2.41
3546 3843 5.705609 TGAGCATCCCTTTCTTTTGTAAC 57.294 39.130 0.00 0.00 0.00 2.50
3547 3844 4.522789 TGAGCATCCCTTTCTTTTGTAACC 59.477 41.667 0.00 0.00 0.00 2.85
3548 3845 4.740902 AGCATCCCTTTCTTTTGTAACCT 58.259 39.130 0.00 0.00 0.00 3.50
3549 3846 4.767409 AGCATCCCTTTCTTTTGTAACCTC 59.233 41.667 0.00 0.00 0.00 3.85
3550 3847 4.767409 GCATCCCTTTCTTTTGTAACCTCT 59.233 41.667 0.00 0.00 0.00 3.69
3551 3848 5.106118 GCATCCCTTTCTTTTGTAACCTCTC 60.106 44.000 0.00 0.00 0.00 3.20
3552 3849 5.906772 TCCCTTTCTTTTGTAACCTCTCT 57.093 39.130 0.00 0.00 0.00 3.10
3553 3850 6.262056 TCCCTTTCTTTTGTAACCTCTCTT 57.738 37.500 0.00 0.00 0.00 2.85
3554 3851 7.383156 TCCCTTTCTTTTGTAACCTCTCTTA 57.617 36.000 0.00 0.00 0.00 2.10
3555 3852 7.450903 TCCCTTTCTTTTGTAACCTCTCTTAG 58.549 38.462 0.00 0.00 0.00 2.18
3569 3866 5.135508 CTCTCTTAGGAACTTCAAACGGA 57.864 43.478 0.00 0.00 41.75 4.69
3570 3867 5.539048 CTCTCTTAGGAACTTCAAACGGAA 58.461 41.667 0.00 0.00 41.75 4.30
3571 3868 5.295152 TCTCTTAGGAACTTCAAACGGAAC 58.705 41.667 0.00 0.00 41.75 3.62
3572 3869 5.026038 TCTTAGGAACTTCAAACGGAACA 57.974 39.130 0.00 0.00 41.75 3.18
3573 3870 5.430007 TCTTAGGAACTTCAAACGGAACAA 58.570 37.500 0.00 0.00 41.75 2.83
3574 3871 5.526111 TCTTAGGAACTTCAAACGGAACAAG 59.474 40.000 0.00 0.00 41.75 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.515330 AAGCAATTAGAGCCAATGCAC 57.485 42.857 0.00 0.00 41.13 4.57
42 45 6.147656 GCACACCATGTCGATCATATGAATTA 59.852 38.462 9.99 0.00 34.67 1.40
354 357 1.281925 AAATCGAGGCCCCATGGAGT 61.282 55.000 15.22 0.00 0.00 3.85
420 423 0.903454 AAGGGGGTCGGTACTGACTG 60.903 60.000 29.21 0.00 38.91 3.51
499 506 5.069914 TGAAAGAGTAGTACCACTCAAGCAA 59.930 40.000 21.21 2.79 46.15 3.91
652 666 2.649331 ACTTCCACACTTATCGTCGG 57.351 50.000 0.00 0.00 0.00 4.79
855 869 2.621556 ATGGTACCCCTGCACATTTT 57.378 45.000 10.07 0.00 0.00 1.82
880 894 6.458342 GCCAAATAACTAGCCACACTAATGAC 60.458 42.308 0.00 0.00 0.00 3.06
889 903 5.890424 TTGTTAGCCAAATAACTAGCCAC 57.110 39.130 0.00 0.00 36.73 5.01
965 979 7.395190 TGATCATCACCATTTTTAAGTCCAG 57.605 36.000 0.00 0.00 0.00 3.86
1112 1127 4.338879 ACCTTCACAAATCCATCTCCTTG 58.661 43.478 0.00 0.00 0.00 3.61
1159 1174 1.999648 TGATTTTCTGCAAGTGGGCT 58.000 45.000 0.00 0.00 33.76 5.19
1160 1175 2.407090 GTTGATTTTCTGCAAGTGGGC 58.593 47.619 0.00 0.00 33.76 5.36
1161 1176 2.629617 AGGTTGATTTTCTGCAAGTGGG 59.370 45.455 0.00 0.00 33.76 4.61
1162 1177 4.520492 ACTAGGTTGATTTTCTGCAAGTGG 59.480 41.667 0.00 0.00 33.76 4.00
1163 1178 5.471456 AGACTAGGTTGATTTTCTGCAAGTG 59.529 40.000 0.00 0.00 33.76 3.16
1164 1179 5.625150 AGACTAGGTTGATTTTCTGCAAGT 58.375 37.500 0.00 0.00 33.76 3.16
1165 1180 5.123027 GGAGACTAGGTTGATTTTCTGCAAG 59.877 44.000 0.00 0.00 0.00 4.01
1166 1181 5.003804 GGAGACTAGGTTGATTTTCTGCAA 58.996 41.667 0.00 0.00 0.00 4.08
1167 1182 4.287067 AGGAGACTAGGTTGATTTTCTGCA 59.713 41.667 0.00 0.00 40.61 4.41
1168 1183 4.837972 AGGAGACTAGGTTGATTTTCTGC 58.162 43.478 0.00 0.00 40.61 4.26
1169 1184 6.467677 TCAAGGAGACTAGGTTGATTTTCTG 58.532 40.000 0.00 0.00 42.68 3.02
1170 1185 6.688073 TCAAGGAGACTAGGTTGATTTTCT 57.312 37.500 0.00 0.00 42.68 2.52
1171 1186 5.352846 GCTCAAGGAGACTAGGTTGATTTTC 59.647 44.000 0.00 0.00 42.68 2.29
1172 1187 5.013599 AGCTCAAGGAGACTAGGTTGATTTT 59.986 40.000 0.00 0.00 42.68 1.82
1173 1188 4.534103 AGCTCAAGGAGACTAGGTTGATTT 59.466 41.667 0.00 0.00 42.68 2.17
1174 1189 4.100373 AGCTCAAGGAGACTAGGTTGATT 58.900 43.478 0.00 0.00 42.68 2.57
1175 1190 3.718723 AGCTCAAGGAGACTAGGTTGAT 58.281 45.455 0.00 0.00 42.68 2.57
1176 1191 3.176924 AGCTCAAGGAGACTAGGTTGA 57.823 47.619 0.00 0.00 42.68 3.18
1177 1192 3.383185 CCTAGCTCAAGGAGACTAGGTTG 59.617 52.174 22.20 8.72 43.36 3.77
1178 1193 3.269906 TCCTAGCTCAAGGAGACTAGGTT 59.730 47.826 25.59 0.00 45.53 3.50
1179 1194 2.853707 TCCTAGCTCAAGGAGACTAGGT 59.146 50.000 25.59 5.11 45.53 3.08
1180 1195 3.586470 TCCTAGCTCAAGGAGACTAGG 57.414 52.381 23.35 23.35 46.03 3.02
1271 1313 7.800380 GCATTATATCATGTACACAACAAGCTC 59.200 37.037 0.00 0.00 42.70 4.09
1507 1555 7.425606 ACACGCAAAACTTGAAATCTAGAAAT 58.574 30.769 0.00 0.00 0.00 2.17
1611 1660 1.133884 GTGCCCCTTAACCCCAGATAC 60.134 57.143 0.00 0.00 0.00 2.24
1933 1982 8.830201 ATCAGTGCTTTAGTATCTTCATCATC 57.170 34.615 0.00 0.00 0.00 2.92
1934 1983 9.053840 CAATCAGTGCTTTAGTATCTTCATCAT 57.946 33.333 0.00 0.00 0.00 2.45
1935 1984 7.496920 CCAATCAGTGCTTTAGTATCTTCATCA 59.503 37.037 0.00 0.00 0.00 3.07
1936 1985 7.712639 TCCAATCAGTGCTTTAGTATCTTCATC 59.287 37.037 0.00 0.00 0.00 2.92
1937 1986 7.568349 TCCAATCAGTGCTTTAGTATCTTCAT 58.432 34.615 0.00 0.00 0.00 2.57
1943 2097 5.370880 AGGGATCCAATCAGTGCTTTAGTAT 59.629 40.000 15.23 0.00 0.00 2.12
1946 2100 4.162040 AGGGATCCAATCAGTGCTTTAG 57.838 45.455 15.23 0.00 0.00 1.85
1953 2107 2.196742 TGGCTAGGGATCCAATCAGT 57.803 50.000 15.23 0.00 0.00 3.41
2157 2317 4.241681 GGATATCTCTGAATCGCACTTCC 58.758 47.826 2.05 0.00 0.00 3.46
2223 2386 0.466007 TGCCTTTGCTGAGCACAGAA 60.466 50.000 21.22 6.03 46.03 3.02
2226 2389 0.466007 TTCTGCCTTTGCTGAGCACA 60.466 50.000 6.64 0.00 44.79 4.57
2228 2391 0.670162 GTTTCTGCCTTTGCTGAGCA 59.330 50.000 1.40 1.40 44.79 4.26
2229 2392 0.957362 AGTTTCTGCCTTTGCTGAGC 59.043 50.000 0.00 0.00 44.79 4.26
2233 2396 2.887152 CCACTAAGTTTCTGCCTTTGCT 59.113 45.455 0.00 0.00 38.71 3.91
2243 2406 4.023963 GCACCAACTTCTCCACTAAGTTTC 60.024 45.833 0.00 0.00 42.97 2.78
2294 2457 2.831526 AGTTTGTGGAAAAGGCACACTT 59.168 40.909 0.00 0.00 42.52 3.16
2426 2589 1.066787 GCTGTAGCGAAGGAAGGTTCT 60.067 52.381 0.00 0.00 0.00 3.01
2483 2646 5.074102 TCCATGGCTTGAGAATAATCCTCAT 59.926 40.000 6.96 0.00 40.02 2.90
2630 2812 6.918892 AACAATGGTTAAAGAAGCCAAAAC 57.081 33.333 0.00 0.00 34.87 2.43
2679 2862 1.298157 TTGTTCATCGCTCGGCTTGG 61.298 55.000 0.00 0.00 0.00 3.61
2758 2947 1.747355 TGCGAGTGCTAGTTACTACCC 59.253 52.381 2.37 0.00 43.34 3.69
2771 2960 3.785486 TGATGAAGGACTAATGCGAGTG 58.215 45.455 0.00 0.00 0.00 3.51
2782 2971 4.768583 AGCTGAAGAAGATGATGAAGGAC 58.231 43.478 0.00 0.00 0.00 3.85
2790 2979 3.439154 AGTGGAGAGCTGAAGAAGATGA 58.561 45.455 0.00 0.00 0.00 2.92
2812 3001 9.793259 ATAAAGAAGATGGTGAAGTAAACAGAA 57.207 29.630 0.00 0.00 0.00 3.02
2915 3166 6.839454 AGATGGAGATTTGCATGATAGAGTT 58.161 36.000 0.00 0.00 35.28 3.01
2950 3205 2.414691 GGAAGATCGAAAGCTTGCAACC 60.415 50.000 5.01 0.00 33.35 3.77
2957 3212 1.137872 AGATGCGGAAGATCGAAAGCT 59.862 47.619 0.00 0.00 0.00 3.74
3007 3262 6.972328 TCAAAAGCACACAGAATTAAGTTCAC 59.028 34.615 0.00 0.00 39.39 3.18
3166 3456 4.811969 TGGAAATAGGTTCGCTGAGTTA 57.188 40.909 0.00 0.00 37.08 2.24
3381 3678 5.741011 AGACAAATATTTAGCAACGGAGGA 58.259 37.500 0.00 0.00 0.00 3.71
3411 3708 9.261180 CCGTATGTGATAGTCTATTTGAAATGT 57.739 33.333 0.00 0.00 0.00 2.71
3412 3709 9.476202 TCCGTATGTGATAGTCTATTTGAAATG 57.524 33.333 0.00 0.00 0.00 2.32
3424 3721 9.901172 TGTCTACATATATCCGTATGTGATAGT 57.099 33.333 9.21 0.00 43.27 2.12
3460 3757 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
3461 3758 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
3462 3759 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
3463 3760 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
3464 3761 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
3465 3762 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
3466 3763 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
3467 3764 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
3468 3765 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
3469 3766 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
3470 3767 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
3471 3768 5.109210 TGACTACATACGGAGCAAAATGAG 58.891 41.667 0.00 0.00 0.00 2.90
3472 3769 5.079689 TGACTACATACGGAGCAAAATGA 57.920 39.130 0.00 0.00 0.00 2.57
3473 3770 5.741425 CATGACTACATACGGAGCAAAATG 58.259 41.667 0.00 0.00 35.09 2.32
3474 3771 4.273480 GCATGACTACATACGGAGCAAAAT 59.727 41.667 0.00 0.00 35.09 1.82
3475 3772 3.621268 GCATGACTACATACGGAGCAAAA 59.379 43.478 0.00 0.00 35.09 2.44
3476 3773 3.194861 GCATGACTACATACGGAGCAAA 58.805 45.455 0.00 0.00 35.09 3.68
3477 3774 2.167487 TGCATGACTACATACGGAGCAA 59.833 45.455 0.00 0.00 35.09 3.91
3478 3775 1.754226 TGCATGACTACATACGGAGCA 59.246 47.619 0.00 0.00 35.09 4.26
3479 3776 2.128035 GTGCATGACTACATACGGAGC 58.872 52.381 0.00 0.00 35.09 4.70
3480 3777 3.717400 AGTGCATGACTACATACGGAG 57.283 47.619 0.00 0.00 35.09 4.63
3481 3778 5.784578 ATTAGTGCATGACTACATACGGA 57.215 39.130 0.00 0.00 36.86 4.69
3482 3779 7.326305 GTCTTATTAGTGCATGACTACATACGG 59.674 40.741 0.00 1.25 36.86 4.02
3483 3780 8.076781 AGTCTTATTAGTGCATGACTACATACG 58.923 37.037 0.00 2.39 36.86 3.06
3484 3781 9.400638 GAGTCTTATTAGTGCATGACTACATAC 57.599 37.037 0.00 0.00 36.86 2.39
3485 3782 8.577296 GGAGTCTTATTAGTGCATGACTACATA 58.423 37.037 0.00 1.45 36.86 2.29
3486 3783 7.069950 TGGAGTCTTATTAGTGCATGACTACAT 59.930 37.037 0.00 2.24 39.55 2.29
3487 3784 6.379988 TGGAGTCTTATTAGTGCATGACTACA 59.620 38.462 0.00 0.00 41.39 2.74
3488 3785 6.806751 TGGAGTCTTATTAGTGCATGACTAC 58.193 40.000 0.00 0.00 36.86 2.73
3489 3786 7.418337 TTGGAGTCTTATTAGTGCATGACTA 57.582 36.000 0.00 0.00 35.29 2.59
3490 3787 5.939764 TGGAGTCTTATTAGTGCATGACT 57.060 39.130 0.00 0.00 37.46 3.41
3491 3788 6.985188 TTTGGAGTCTTATTAGTGCATGAC 57.015 37.500 0.00 0.00 0.00 3.06
3492 3789 6.767902 GGATTTGGAGTCTTATTAGTGCATGA 59.232 38.462 0.00 0.00 0.00 3.07
3493 3790 6.769822 AGGATTTGGAGTCTTATTAGTGCATG 59.230 38.462 0.00 0.00 0.00 4.06
3494 3791 6.904626 AGGATTTGGAGTCTTATTAGTGCAT 58.095 36.000 0.00 0.00 0.00 3.96
3495 3792 6.313519 AGGATTTGGAGTCTTATTAGTGCA 57.686 37.500 0.00 0.00 0.00 4.57
3496 3793 7.020914 CAAGGATTTGGAGTCTTATTAGTGC 57.979 40.000 0.00 0.00 0.00 4.40
3511 3808 3.368739 GGGATGCTCAAACCAAGGATTTG 60.369 47.826 0.00 0.89 38.21 2.32
3512 3809 2.833943 GGGATGCTCAAACCAAGGATTT 59.166 45.455 0.00 0.00 0.00 2.17
3513 3810 2.043526 AGGGATGCTCAAACCAAGGATT 59.956 45.455 0.00 0.00 0.00 3.01
3514 3811 1.642762 AGGGATGCTCAAACCAAGGAT 59.357 47.619 0.00 0.00 0.00 3.24
3515 3812 1.075601 AGGGATGCTCAAACCAAGGA 58.924 50.000 0.00 0.00 0.00 3.36
3516 3813 1.928868 AAGGGATGCTCAAACCAAGG 58.071 50.000 0.00 0.00 0.00 3.61
3517 3814 3.160269 AGAAAGGGATGCTCAAACCAAG 58.840 45.455 0.00 0.00 0.00 3.61
3518 3815 3.243359 AGAAAGGGATGCTCAAACCAA 57.757 42.857 0.00 0.00 0.00 3.67
3519 3816 2.978156 AGAAAGGGATGCTCAAACCA 57.022 45.000 0.00 0.00 0.00 3.67
3520 3817 4.202253 ACAAAAGAAAGGGATGCTCAAACC 60.202 41.667 0.00 0.00 0.00 3.27
3521 3818 4.948847 ACAAAAGAAAGGGATGCTCAAAC 58.051 39.130 0.00 0.00 0.00 2.93
3522 3819 6.462347 GGTTACAAAAGAAAGGGATGCTCAAA 60.462 38.462 0.00 0.00 0.00 2.69
3523 3820 5.010617 GGTTACAAAAGAAAGGGATGCTCAA 59.989 40.000 0.00 0.00 0.00 3.02
3524 3821 4.522789 GGTTACAAAAGAAAGGGATGCTCA 59.477 41.667 0.00 0.00 0.00 4.26
3525 3822 4.767409 AGGTTACAAAAGAAAGGGATGCTC 59.233 41.667 0.00 0.00 0.00 4.26
3526 3823 4.740902 AGGTTACAAAAGAAAGGGATGCT 58.259 39.130 0.00 0.00 0.00 3.79
3527 3824 4.767409 AGAGGTTACAAAAGAAAGGGATGC 59.233 41.667 0.00 0.00 0.00 3.91
3528 3825 6.241645 AGAGAGGTTACAAAAGAAAGGGATG 58.758 40.000 0.00 0.00 0.00 3.51
3529 3826 6.455690 AGAGAGGTTACAAAAGAAAGGGAT 57.544 37.500 0.00 0.00 0.00 3.85
3530 3827 5.906772 AGAGAGGTTACAAAAGAAAGGGA 57.093 39.130 0.00 0.00 0.00 4.20
3531 3828 6.655425 CCTAAGAGAGGTTACAAAAGAAAGGG 59.345 42.308 0.00 0.00 40.98 3.95
3532 3829 7.450903 TCCTAAGAGAGGTTACAAAAGAAAGG 58.549 38.462 0.00 0.00 46.76 3.11
3533 3830 8.775527 GTTCCTAAGAGAGGTTACAAAAGAAAG 58.224 37.037 0.00 0.00 46.76 2.62
3534 3831 8.491958 AGTTCCTAAGAGAGGTTACAAAAGAAA 58.508 33.333 0.00 0.00 46.76 2.52
3535 3832 8.030913 AGTTCCTAAGAGAGGTTACAAAAGAA 57.969 34.615 0.00 0.00 46.76 2.52
3536 3833 7.613551 AGTTCCTAAGAGAGGTTACAAAAGA 57.386 36.000 0.00 0.00 46.76 2.52
3537 3834 7.931948 TGAAGTTCCTAAGAGAGGTTACAAAAG 59.068 37.037 0.00 0.00 46.76 2.27
3538 3835 7.798071 TGAAGTTCCTAAGAGAGGTTACAAAA 58.202 34.615 0.00 0.00 46.76 2.44
3539 3836 7.369551 TGAAGTTCCTAAGAGAGGTTACAAA 57.630 36.000 0.00 0.00 46.76 2.83
3540 3837 6.989155 TGAAGTTCCTAAGAGAGGTTACAA 57.011 37.500 0.00 0.00 46.76 2.41
3541 3838 6.989155 TTGAAGTTCCTAAGAGAGGTTACA 57.011 37.500 0.00 0.00 46.76 2.41
3542 3839 6.365518 CGTTTGAAGTTCCTAAGAGAGGTTAC 59.634 42.308 0.00 0.00 46.76 2.50
3543 3840 6.453092 CGTTTGAAGTTCCTAAGAGAGGTTA 58.547 40.000 0.00 0.00 46.76 2.85
3544 3841 5.298347 CGTTTGAAGTTCCTAAGAGAGGTT 58.702 41.667 0.00 0.00 46.76 3.50
3545 3842 4.262506 CCGTTTGAAGTTCCTAAGAGAGGT 60.263 45.833 0.00 0.00 46.76 3.85
3546 3843 7.504146 GTTCCGTTTGAAGTTCCTAAGAGAGG 61.504 46.154 0.00 0.00 39.25 3.69
3547 3844 5.135508 TCCGTTTGAAGTTCCTAAGAGAG 57.864 43.478 0.00 0.00 0.00 3.20
3548 3845 5.163385 TGTTCCGTTTGAAGTTCCTAAGAGA 60.163 40.000 0.00 0.00 32.37 3.10
3549 3846 5.054477 TGTTCCGTTTGAAGTTCCTAAGAG 58.946 41.667 0.00 0.00 32.37 2.85
3550 3847 5.026038 TGTTCCGTTTGAAGTTCCTAAGA 57.974 39.130 0.00 0.00 32.37 2.10
3551 3848 5.744666 TTGTTCCGTTTGAAGTTCCTAAG 57.255 39.130 0.00 0.00 32.37 2.18
3552 3849 5.744666 CTTGTTCCGTTTGAAGTTCCTAA 57.255 39.130 0.00 0.00 32.37 2.69


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

AutoCloner maintained by Alex Coulton.