Multiple sequence alignment - TraesCS6B01G356300

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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 TraesCS6B01G356300 chr6B 100.000 3113 0 0 1 3113 624784949 624788061 0.000000e+00 5749.0
1 TraesCS6B01G356300 chr6B 92.708 96 7 0 2789 2884 705793543 705793448 4.190000e-29 139.0
2 TraesCS6B01G356300 chr6B 91.489 94 7 1 2788 2881 555212755 555212663 9.060000e-26 128.0
3 TraesCS6B01G356300 chr6B 90.588 85 8 0 2903 2987 227650223 227650139 2.540000e-21 113.0
4 TraesCS6B01G356300 chr6B 93.478 46 3 0 2750 2795 624787586 624787631 5.570000e-08 69.4
5 TraesCS6B01G356300 chr6B 93.478 46 3 0 2638 2683 624787698 624787743 5.570000e-08 69.4
6 TraesCS6B01G356300 chr6A 85.491 3129 221 97 119 3113 559402431 559405460 0.000000e+00 3048.0
7 TraesCS6B01G356300 chr6A 95.745 47 2 0 1 47 559402367 559402413 3.330000e-10 76.8
8 TraesCS6B01G356300 chr6A 92.453 53 1 3 2642 2693 559405113 559405163 4.310000e-09 73.1
9 TraesCS6B01G356300 chr6A 93.478 46 3 0 2750 2795 559404997 559405042 5.570000e-08 69.4
10 TraesCS6B01G356300 chr6D 89.672 2072 110 40 119 2133 414466341 414468365 0.000000e+00 2545.0
11 TraesCS6B01G356300 chr6D 79.819 441 39 28 2187 2590 414468388 414468815 3.060000e-70 276.0
12 TraesCS6B01G356300 chr6D 92.308 104 4 1 1 104 414466258 414466357 9.000000e-31 145.0
13 TraesCS6B01G356300 chr6D 87.324 71 7 2 2903 2972 78352774 78352705 2.570000e-11 80.5
14 TraesCS6B01G356300 chr5D 82.000 700 92 13 1429 2120 15229340 15228667 5.830000e-157 564.0
15 TraesCS6B01G356300 chr1D 93.258 89 6 0 2902 2990 130610118 130610030 7.000000e-27 132.0
16 TraesCS6B01G356300 chr1B 93.258 89 6 0 2902 2990 207268296 207268208 7.000000e-27 132.0
17 TraesCS6B01G356300 chr1A 93.258 89 6 0 2902 2990 189961035 189960947 7.000000e-27 132.0
18 TraesCS6B01G356300 chr7A 91.489 94 6 1 2789 2882 106436942 106437033 9.060000e-26 128.0
19 TraesCS6B01G356300 chr2B 90.816 98 6 1 2788 2882 146666638 146666541 9.060000e-26 128.0
20 TraesCS6B01G356300 chr2B 89.899 99 4 1 2786 2884 582299606 582299514 4.220000e-24 122.0
21 TraesCS6B01G356300 chr2B 87.952 83 9 1 2903 2984 621778828 621778910 2.560000e-16 97.1
22 TraesCS6B01G356300 chr7B 91.398 93 7 1 2790 2881 743376987 743376895 3.260000e-25 126.0
23 TraesCS6B01G356300 chr7B 90.323 93 8 1 2790 2881 743376143 743376051 1.520000e-23 121.0
24 TraesCS6B01G356300 chr7B 90.323 93 8 1 2790 2881 743382464 743382372 1.520000e-23 121.0
25 TraesCS6B01G356300 chr4B 89.109 101 4 2 2790 2889 105628398 105628492 5.450000e-23 119.0
26 TraesCS6B01G356300 chr5B 90.476 84 8 0 2904 2987 384599344 384599427 9.130000e-21 111.0
27 TraesCS6B01G356300 chr5A 90.000 70 5 2 2904 2972 706470878 706470810 4.280000e-14 89.8
28 TraesCS6B01G356300 chr4D 85.185 81 8 4 2904 2981 127555247 127555326 2.570000e-11 80.5


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 TraesCS6B01G356300 chr6B 624784949 624788061 3112 False 1962.600000 5749 95.652000 1 3113 3 chr6B.!!$F1 3112
1 TraesCS6B01G356300 chr6A 559402367 559405460 3093 False 816.825000 3048 91.791750 1 3113 4 chr6A.!!$F1 3112
2 TraesCS6B01G356300 chr6D 414466258 414468815 2557 False 988.666667 2545 87.266333 1 2590 3 chr6D.!!$F1 2589
3 TraesCS6B01G356300 chr5D 15228667 15229340 673 True 564.000000 564 82.000000 1429 2120 1 chr5D.!!$R1 691

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
48 49 0.037326 TGCAAGAGAGGCAAGGTACG 60.037 55.0 0.0 0.0 38.54 3.67 F
693 721 0.319728 TCTCCTGCTTGTGAGTGAGC 59.680 55.0 0.0 0.0 39.33 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1361 1453 0.250727 TTGTTTCTTCAGGGCGGAGG 60.251 55.0 0.0 0.0 0.0 4.30 R
2172 2282 0.168788 CGCATTTCATCGCACCAACT 59.831 50.0 0.0 0.0 0.0 3.16 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
45 46 0.250640 CACTGCAAGAGAGGCAAGGT 60.251 55.000 0.00 0.00 41.39 3.50
46 47 1.002430 CACTGCAAGAGAGGCAAGGTA 59.998 52.381 0.00 0.00 41.39 3.08
47 48 1.002544 ACTGCAAGAGAGGCAAGGTAC 59.997 52.381 0.00 0.00 41.39 3.34
48 49 0.037326 TGCAAGAGAGGCAAGGTACG 60.037 55.000 0.00 0.00 38.54 3.67
71 72 2.041350 AGGCCTCCATTGATCATCCATC 59.959 50.000 0.00 0.00 0.00 3.51
72 73 2.444421 GCCTCCATTGATCATCCATCC 58.556 52.381 0.00 0.00 0.00 3.51
89 90 0.618458 TCCATTCTGCACCCTACACC 59.382 55.000 0.00 0.00 0.00 4.16
90 91 0.620556 CCATTCTGCACCCTACACCT 59.379 55.000 0.00 0.00 0.00 4.00
91 92 1.407437 CCATTCTGCACCCTACACCTC 60.407 57.143 0.00 0.00 0.00 3.85
92 93 1.278985 CATTCTGCACCCTACACCTCA 59.721 52.381 0.00 0.00 0.00 3.86
93 94 1.656587 TTCTGCACCCTACACCTCAT 58.343 50.000 0.00 0.00 0.00 2.90
94 95 2.543037 TCTGCACCCTACACCTCATA 57.457 50.000 0.00 0.00 0.00 2.15
95 96 2.108168 TCTGCACCCTACACCTCATAC 58.892 52.381 0.00 0.00 0.00 2.39
96 97 1.831106 CTGCACCCTACACCTCATACA 59.169 52.381 0.00 0.00 0.00 2.29
97 98 2.236146 CTGCACCCTACACCTCATACAA 59.764 50.000 0.00 0.00 0.00 2.41
98 99 2.027561 TGCACCCTACACCTCATACAAC 60.028 50.000 0.00 0.00 0.00 3.32
99 100 2.027561 GCACCCTACACCTCATACAACA 60.028 50.000 0.00 0.00 0.00 3.33
100 101 3.596214 CACCCTACACCTCATACAACAC 58.404 50.000 0.00 0.00 0.00 3.32
101 102 3.260884 CACCCTACACCTCATACAACACT 59.739 47.826 0.00 0.00 0.00 3.55
102 103 3.908103 ACCCTACACCTCATACAACACTT 59.092 43.478 0.00 0.00 0.00 3.16
103 104 4.349930 ACCCTACACCTCATACAACACTTT 59.650 41.667 0.00 0.00 0.00 2.66
104 105 5.163131 ACCCTACACCTCATACAACACTTTT 60.163 40.000 0.00 0.00 0.00 2.27
105 106 5.768164 CCCTACACCTCATACAACACTTTTT 59.232 40.000 0.00 0.00 0.00 1.94
135 136 3.749088 CGGCAACCTCATACAACACTTTA 59.251 43.478 0.00 0.00 0.00 1.85
136 137 4.214545 CGGCAACCTCATACAACACTTTAA 59.785 41.667 0.00 0.00 0.00 1.52
139 140 6.419710 GGCAACCTCATACAACACTTTAAAAC 59.580 38.462 0.00 0.00 0.00 2.43
233 234 2.125912 CGCCTGTCCTCCGTCTTG 60.126 66.667 0.00 0.00 0.00 3.02
429 431 3.431725 CCTGTCTTTTCCCGCGGC 61.432 66.667 22.85 4.36 0.00 6.53
458 477 4.262617 CAGAGAATCATGGGCCATATCTG 58.737 47.826 24.90 22.62 37.82 2.90
472 494 5.477510 GCCATATCTGTGAGAGATACAAGG 58.522 45.833 1.02 5.97 44.84 3.61
473 495 5.568423 GCCATATCTGTGAGAGATACAAGGG 60.568 48.000 1.02 3.43 44.84 3.95
474 496 5.046735 CCATATCTGTGAGAGATACAAGGGG 60.047 48.000 1.02 0.00 44.84 4.79
502 524 5.016051 TGAGAGATGTACTCCTTGAATGC 57.984 43.478 0.00 0.00 45.96 3.56
512 534 8.402798 TGTACTCCTTGAATGCTCAAAAATAA 57.597 30.769 0.00 0.00 41.05 1.40
513 535 8.296713 TGTACTCCTTGAATGCTCAAAAATAAC 58.703 33.333 0.00 0.00 41.05 1.89
612 640 9.627123 TGATAGGATTTTCCGAGATGTTATTTT 57.373 29.630 0.00 0.00 42.75 1.82
624 652 6.808212 CGAGATGTTATTTTGAAAATGCTGGT 59.192 34.615 13.08 0.00 0.00 4.00
625 653 7.967854 CGAGATGTTATTTTGAAAATGCTGGTA 59.032 33.333 13.08 0.00 0.00 3.25
640 668 5.172687 TGCTGGTATGGACTGAATGTTTA 57.827 39.130 0.00 0.00 0.00 2.01
641 669 4.941263 TGCTGGTATGGACTGAATGTTTAC 59.059 41.667 0.00 0.00 0.00 2.01
642 670 5.186198 GCTGGTATGGACTGAATGTTTACT 58.814 41.667 0.00 0.00 0.00 2.24
643 671 5.065218 GCTGGTATGGACTGAATGTTTACTG 59.935 44.000 0.00 0.00 0.00 2.74
644 672 6.121776 TGGTATGGACTGAATGTTTACTGT 57.878 37.500 0.00 0.00 0.00 3.55
645 673 6.539173 TGGTATGGACTGAATGTTTACTGTT 58.461 36.000 0.00 0.00 0.00 3.16
646 674 7.001674 TGGTATGGACTGAATGTTTACTGTTT 58.998 34.615 0.00 0.00 0.00 2.83
679 707 7.162082 CCATTTGACAACTAACTACTTCTCCT 58.838 38.462 0.00 0.00 0.00 3.69
693 721 0.319728 TCTCCTGCTTGTGAGTGAGC 59.680 55.000 0.00 0.00 39.33 4.26
699 727 2.493675 CTGCTTGTGAGTGAGCCTAGTA 59.506 50.000 0.00 0.00 38.11 1.82
774 806 6.322491 GTTTTTGTTTTAGAGCTGTGAGTGT 58.678 36.000 0.00 0.00 0.00 3.55
787 819 2.899900 TGTGAGTGTGTCTAGCCAGAAT 59.100 45.455 0.00 0.00 30.85 2.40
850 919 2.606519 TGGTAAGCCCGAGTGCCT 60.607 61.111 0.00 0.00 35.15 4.75
851 920 2.187163 GGTAAGCCCGAGTGCCTC 59.813 66.667 0.00 0.00 0.00 4.70
925 995 4.297935 TCCCCTAATAAACCCCCAAATTGA 59.702 41.667 0.00 0.00 0.00 2.57
988 1058 3.870559 TCTTCTTCTCCCAAACCCTAGT 58.129 45.455 0.00 0.00 0.00 2.57
989 1059 3.838903 TCTTCTTCTCCCAAACCCTAGTC 59.161 47.826 0.00 0.00 0.00 2.59
990 1060 3.562108 TCTTCTCCCAAACCCTAGTCT 57.438 47.619 0.00 0.00 0.00 3.24
991 1061 3.442076 TCTTCTCCCAAACCCTAGTCTC 58.558 50.000 0.00 0.00 0.00 3.36
992 1062 2.249309 TCTCCCAAACCCTAGTCTCC 57.751 55.000 0.00 0.00 0.00 3.71
993 1063 0.824759 CTCCCAAACCCTAGTCTCCG 59.175 60.000 0.00 0.00 0.00 4.63
994 1064 0.616679 TCCCAAACCCTAGTCTCCGG 60.617 60.000 0.00 0.00 0.00 5.14
1322 1399 3.878160 AGGTGACTCCGATTCTTCTTC 57.122 47.619 0.00 0.00 41.99 2.87
1326 1403 2.163815 TGACTCCGATTCTTCTTCCGAC 59.836 50.000 0.00 0.00 0.00 4.79
1608 1703 2.499827 GCGTATCCTCGAGGCCCTT 61.500 63.158 27.39 13.18 34.44 3.95
1611 1706 1.075226 TATCCTCGAGGCCCTTGCT 60.075 57.895 27.39 7.17 37.74 3.91
1723 1818 1.306568 GAGCTCCAGGGGAAGGTCT 60.307 63.158 0.87 0.00 30.58 3.85
1769 1864 3.130160 CAGCAAGAAGGGCGAGCC 61.130 66.667 5.37 5.37 36.08 4.70
1835 1930 2.358737 CTGGGAAGGCGGTGACAC 60.359 66.667 0.00 0.00 0.00 3.67
1989 2099 0.460311 AGTTCGGGATGATGGACGAC 59.540 55.000 0.00 0.00 34.82 4.34
1992 2102 1.299165 CGGGATGATGGACGACGAC 60.299 63.158 0.00 0.00 0.00 4.34
2091 2201 3.322466 AGGGAGGTGACCAAGGCG 61.322 66.667 3.63 0.00 0.00 5.52
2126 2236 0.596083 GACTGATCGGAGCGTCATGG 60.596 60.000 9.00 0.00 0.00 3.66
2133 2243 1.220749 GGAGCGTCATGGGCTTACA 59.779 57.895 12.46 0.00 41.72 2.41
2134 2244 0.392461 GGAGCGTCATGGGCTTACAA 60.392 55.000 12.46 0.00 41.72 2.41
2135 2245 1.009829 GAGCGTCATGGGCTTACAAG 58.990 55.000 12.46 0.00 41.72 3.16
2136 2246 0.324943 AGCGTCATGGGCTTACAAGT 59.675 50.000 6.39 0.00 37.50 3.16
2137 2247 1.165270 GCGTCATGGGCTTACAAGTT 58.835 50.000 0.00 0.00 0.00 2.66
2138 2248 2.027561 AGCGTCATGGGCTTACAAGTTA 60.028 45.455 6.39 0.00 37.50 2.24
2139 2249 2.351726 GCGTCATGGGCTTACAAGTTAG 59.648 50.000 0.00 0.00 0.00 2.34
2140 2250 3.596214 CGTCATGGGCTTACAAGTTAGT 58.404 45.455 0.00 0.00 0.00 2.24
2141 2251 4.751060 CGTCATGGGCTTACAAGTTAGTA 58.249 43.478 0.00 0.00 0.00 1.82
2142 2252 4.565564 CGTCATGGGCTTACAAGTTAGTAC 59.434 45.833 0.00 0.00 0.00 2.73
2143 2253 5.484715 GTCATGGGCTTACAAGTTAGTACA 58.515 41.667 0.00 0.00 0.00 2.90
2144 2254 5.935789 GTCATGGGCTTACAAGTTAGTACAA 59.064 40.000 0.00 0.00 0.00 2.41
2145 2255 6.428771 GTCATGGGCTTACAAGTTAGTACAAA 59.571 38.462 0.00 0.00 0.00 2.83
2157 2267 9.609346 ACAAGTTAGTACAAACTGAAACTGTAT 57.391 29.630 0.00 0.00 39.62 2.29
2168 2278 5.482908 ACTGAAACTGTATCTGTGATCACC 58.517 41.667 22.85 7.69 0.00 4.02
2169 2279 5.247110 ACTGAAACTGTATCTGTGATCACCT 59.753 40.000 22.85 10.22 0.00 4.00
2170 2280 5.482006 TGAAACTGTATCTGTGATCACCTG 58.518 41.667 22.85 15.24 0.00 4.00
2171 2281 5.245977 TGAAACTGTATCTGTGATCACCTGA 59.754 40.000 22.85 19.65 0.00 3.86
2172 2282 5.745312 AACTGTATCTGTGATCACCTGAA 57.255 39.130 22.85 3.37 0.00 3.02
2173 2283 5.336150 ACTGTATCTGTGATCACCTGAAG 57.664 43.478 22.85 13.32 0.00 3.02
2174 2284 4.774726 ACTGTATCTGTGATCACCTGAAGT 59.225 41.667 22.85 16.33 0.00 3.01
2175 2285 5.247110 ACTGTATCTGTGATCACCTGAAGTT 59.753 40.000 22.85 10.76 0.00 2.66
2176 2286 5.482006 TGTATCTGTGATCACCTGAAGTTG 58.518 41.667 22.85 3.69 0.00 3.16
2177 2287 3.407424 TCTGTGATCACCTGAAGTTGG 57.593 47.619 22.85 2.76 0.00 3.77
2178 2288 2.705658 TCTGTGATCACCTGAAGTTGGT 59.294 45.455 22.85 0.00 38.53 3.67
2182 2292 4.454948 CACCTGAAGTTGGTGCGA 57.545 55.556 0.00 0.00 46.73 5.10
2183 2293 2.932663 CACCTGAAGTTGGTGCGAT 58.067 52.632 0.00 0.00 46.73 4.58
2184 2294 0.518636 CACCTGAAGTTGGTGCGATG 59.481 55.000 0.00 0.00 46.73 3.84
2185 2295 0.396435 ACCTGAAGTTGGTGCGATGA 59.604 50.000 0.00 0.00 36.30 2.92
2190 2300 2.253603 GAAGTTGGTGCGATGAAATGC 58.746 47.619 0.00 0.00 0.00 3.56
2195 2305 3.124270 TGCGATGAAATGCGGCGT 61.124 55.556 9.37 0.00 0.00 5.68
2212 2322 1.000274 GCGTTTTGGTGGAGCAAGAAT 60.000 47.619 0.00 0.00 0.00 2.40
2223 2333 4.978580 GTGGAGCAAGAATGTTTCTGAAAC 59.021 41.667 22.94 22.94 40.59 2.78
2229 2339 8.345724 AGCAAGAATGTTTCTGAAACTATGAT 57.654 30.769 27.75 17.03 40.59 2.45
2242 2352 7.013178 TCTGAAACTATGATCTAGAGTCTGCAG 59.987 40.741 7.63 7.63 28.74 4.41
2246 2356 7.218228 ACTATGATCTAGAGTCTGCAGATTG 57.782 40.000 21.47 5.27 0.00 2.67
2247 2357 4.933505 TGATCTAGAGTCTGCAGATTGG 57.066 45.455 21.47 10.87 0.00 3.16
2249 2359 1.759445 TCTAGAGTCTGCAGATTGGGC 59.241 52.381 21.47 6.41 0.00 5.36
2252 2362 0.747283 GAGTCTGCAGATTGGGCTGG 60.747 60.000 21.47 0.00 36.41 4.85
2257 2367 2.586245 CAGATTGGGCTGGCTCGA 59.414 61.111 0.00 0.00 32.26 4.04
2258 2368 1.147824 CAGATTGGGCTGGCTCGAT 59.852 57.895 0.00 0.00 32.26 3.59
2263 2382 2.976903 GGGCTGGCTCGATGCATC 60.977 66.667 17.10 17.10 45.15 3.91
2268 2387 0.179092 CTGGCTCGATGCATCAGACA 60.179 55.000 25.70 24.85 45.15 3.41
2270 2389 0.866427 GGCTCGATGCATCAGACATG 59.134 55.000 25.70 8.93 45.15 3.21
2273 2392 1.865340 CTCGATGCATCAGACATGTGG 59.135 52.381 25.70 6.79 0.00 4.17
2303 2422 2.749621 CAAATTGTGCCTCCTGTAGTCC 59.250 50.000 0.00 0.00 0.00 3.85
2304 2423 1.958288 ATTGTGCCTCCTGTAGTCCT 58.042 50.000 0.00 0.00 0.00 3.85
2305 2424 0.976641 TTGTGCCTCCTGTAGTCCTG 59.023 55.000 0.00 0.00 0.00 3.86
2323 2442 6.739112 AGTCCTGTTTGTAAGAATGCTTTTC 58.261 36.000 0.00 0.00 35.56 2.29
2331 2451 3.904136 AAGAATGCTTTTCTCGTGTGG 57.096 42.857 3.44 0.00 0.00 4.17
2339 2459 2.038814 TTTCTCGTGTGGCCAGAGCA 62.039 55.000 5.11 0.00 42.56 4.26
2340 2460 2.031012 CTCGTGTGGCCAGAGCAA 59.969 61.111 5.11 0.00 42.56 3.91
2374 2496 9.930158 AAATAGCAAATTAGGGGTGTCTTTATA 57.070 29.630 0.00 0.00 0.00 0.98
2432 2560 7.546358 CAAATTGTGCTGGTGGATTAAGAATA 58.454 34.615 0.00 0.00 0.00 1.75
2439 2567 6.039270 TGCTGGTGGATTAAGAATATTTTCCG 59.961 38.462 0.00 0.00 31.84 4.30
2440 2568 6.262273 GCTGGTGGATTAAGAATATTTTCCGA 59.738 38.462 0.00 0.00 31.84 4.55
2441 2569 7.201785 GCTGGTGGATTAAGAATATTTTCCGAA 60.202 37.037 0.00 0.00 31.84 4.30
2486 2640 1.710249 CTGTTGTTGCGCGAATCTTTG 59.290 47.619 12.10 0.00 0.00 2.77
2511 2665 1.131126 CACTGGTTCCATCGATTGTGC 59.869 52.381 0.00 0.00 0.00 4.57
2555 2712 4.613622 CGCTGAATTTGTAGTTGGTTCAGG 60.614 45.833 13.36 2.87 43.57 3.86
2561 2719 3.569194 TGTAGTTGGTTCAGGAAAGCA 57.431 42.857 0.00 0.00 43.38 3.91
2586 2744 6.509418 TTCTGTTGTTAGTTTTGACAGCTT 57.491 33.333 0.00 0.00 38.04 3.74
2622 2798 0.758685 TTTCAGGGTTTGGGTGCAGG 60.759 55.000 0.00 0.00 0.00 4.85
2644 2820 3.249091 CTGGAGTCGTGAGTCTGAATTG 58.751 50.000 4.80 0.00 0.00 2.32
2652 2828 4.872124 TCGTGAGTCTGAATTGGATGAATG 59.128 41.667 0.00 0.00 0.00 2.67
2713 2889 6.398234 TTCTGCTGTTTAATTTAACCAGCA 57.602 33.333 28.53 28.53 38.55 4.41
2737 2913 6.606234 TTTTATACTTGCGTGACTGTTTCA 57.394 33.333 0.00 0.00 0.00 2.69
2745 2921 2.213499 CGTGACTGTTTCAGGCTTTCT 58.787 47.619 4.24 0.00 40.76 2.52
2746 2922 2.032549 CGTGACTGTTTCAGGCTTTCTG 60.033 50.000 4.24 0.00 40.76 3.02
2750 2926 1.952296 CTGTTTCAGGCTTTCTGTGCT 59.048 47.619 0.00 0.00 43.76 4.40
2757 2933 3.054139 TCAGGCTTTCTGTGCTGGATTAT 60.054 43.478 0.00 0.00 43.76 1.28
2798 2974 0.680061 CGCTGGGTTATACTCCCTCC 59.320 60.000 11.93 4.21 44.84 4.30
2802 2978 2.364647 CTGGGTTATACTCCCTCCGTTC 59.635 54.545 11.93 0.00 44.84 3.95
2806 2982 3.390311 GGTTATACTCCCTCCGTTCCAAT 59.610 47.826 0.00 0.00 0.00 3.16
2808 2989 5.434408 GTTATACTCCCTCCGTTCCAATTT 58.566 41.667 0.00 0.00 0.00 1.82
2813 2994 2.093869 TCCCTCCGTTCCAATTTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
2814 2995 2.354403 CCCTCCGTTCCAATTTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
2816 2997 2.597305 CTCCGTTCCAATTTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
2818 2999 2.091588 CCGTTCCAATTTACTCGTCGTG 59.908 50.000 0.00 0.00 0.00 4.35
2821 3002 3.389925 TCCAATTTACTCGTCGTGGTT 57.610 42.857 0.00 0.00 0.00 3.67
2822 3003 3.731089 TCCAATTTACTCGTCGTGGTTT 58.269 40.909 0.00 0.00 0.00 3.27
2825 3006 5.406175 TCCAATTTACTCGTCGTGGTTTTAG 59.594 40.000 0.00 0.00 0.00 1.85
2828 3009 5.888412 TTTACTCGTCGTGGTTTTAGTTC 57.112 39.130 0.00 0.00 0.00 3.01
2829 3010 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
2833 3014 5.295045 ACTCGTCGTGGTTTTAGTTCAAATT 59.705 36.000 0.00 0.00 0.00 1.82
2838 3019 7.166804 CGTCGTGGTTTTAGTTCAAATTCAAAT 59.833 33.333 0.00 0.00 0.00 2.32
2857 3038 7.895582 TCAAATTTAAACTAAAACCACGACG 57.104 32.000 0.00 0.00 0.00 5.12
2858 3039 7.692088 TCAAATTTAAACTAAAACCACGACGA 58.308 30.769 0.00 0.00 0.00 4.20
2859 3040 7.851963 TCAAATTTAAACTAAAACCACGACGAG 59.148 33.333 0.00 0.00 0.00 4.18
2862 3043 7.763172 TTTAAACTAAAACCACGACGAGTAA 57.237 32.000 0.00 0.00 0.00 2.24
2863 3044 7.763172 TTAAACTAAAACCACGACGAGTAAA 57.237 32.000 0.00 0.00 0.00 2.01
2865 3046 6.457851 AACTAAAACCACGACGAGTAAATC 57.542 37.500 0.00 0.00 0.00 2.17
2887 3068 5.021458 TCGAAATGGAGGGAGTACTACTTT 58.979 41.667 4.77 0.00 0.00 2.66
2891 3072 5.941555 ATGGAGGGAGTACTACTTTTCTG 57.058 43.478 4.77 0.00 0.00 3.02
2907 3088 7.506328 ACTTTTCTGTTGTTGGGTTATACTC 57.494 36.000 0.00 0.00 0.00 2.59
2951 3132 9.986833 AAGATGTTTTTGCAGTTTAATTCAAAC 57.013 25.926 0.00 0.00 45.85 2.93
2967 3148 4.281525 TCAAACTGCAAAAACGTCCTAC 57.718 40.909 0.00 0.00 0.00 3.18
2977 3158 6.472808 TGCAAAAACGTCCTACATTTGTTTAC 59.527 34.615 0.00 0.00 34.37 2.01
2978 3159 6.472808 GCAAAAACGTCCTACATTTGTTTACA 59.527 34.615 0.00 0.00 34.37 2.41
2994 3175 4.347000 TGTTTACAGAGGGAGTGCTACTTT 59.653 41.667 0.00 0.00 0.00 2.66
3004 3185 3.565902 GGAGTGCTACTTTTCTGCTGTTT 59.434 43.478 0.00 0.00 0.00 2.83
3010 3191 7.649306 AGTGCTACTTTTCTGCTGTTTAATTTG 59.351 33.333 0.00 0.00 0.00 2.32
3013 3194 7.327032 GCTACTTTTCTGCTGTTTAATTTGGAG 59.673 37.037 0.00 0.00 0.00 3.86
3018 3199 7.775053 TTCTGCTGTTTAATTTGGAGGTAAT 57.225 32.000 0.00 0.00 0.00 1.89
3020 3201 7.601856 TCTGCTGTTTAATTTGGAGGTAATTG 58.398 34.615 0.00 0.00 0.00 2.32
3022 3203 6.162777 GCTGTTTAATTTGGAGGTAATTGCA 58.837 36.000 0.00 0.00 0.00 4.08
3024 3205 6.459923 TGTTTAATTTGGAGGTAATTGCACC 58.540 36.000 0.00 0.00 39.02 5.01
3025 3206 3.866883 AATTTGGAGGTAATTGCACCG 57.133 42.857 0.00 0.00 43.84 4.94
3026 3207 0.885196 TTTGGAGGTAATTGCACCGC 59.115 50.000 0.00 0.00 43.84 5.68
3039 3220 3.691342 ACCGCGGTGCTTGAGCTA 61.691 61.111 33.75 0.00 42.66 3.32
3042 3223 2.447887 CGCGGTGCTTGAGCTAGTG 61.448 63.158 0.00 0.00 42.66 2.74
3043 3224 1.079819 GCGGTGCTTGAGCTAGTGA 60.080 57.895 4.44 0.00 42.66 3.41
3060 3242 6.989169 AGCTAGTGATGGATGTTCATTTAGTC 59.011 38.462 0.00 0.00 0.00 2.59
3064 3246 6.600822 AGTGATGGATGTTCATTTAGTCCTTG 59.399 38.462 0.00 0.00 0.00 3.61
3065 3247 6.375455 GTGATGGATGTTCATTTAGTCCTTGT 59.625 38.462 0.00 0.00 0.00 3.16
3074 3256 6.801539 TCATTTAGTCCTTGTAGTTGCAAG 57.198 37.500 0.00 3.34 43.88 4.01
3089 3271 5.304778 AGTTGCAAGTGGTTTCAAAACTTT 58.695 33.333 5.84 0.00 38.89 2.66
3090 3272 5.179182 AGTTGCAAGTGGTTTCAAAACTTTG 59.821 36.000 5.84 8.75 38.89 2.77
3097 3279 4.033932 GTGGTTTCAAAACTTTGACATGCC 59.966 41.667 4.38 5.74 45.99 4.40
3099 3281 4.441792 GTTTCAAAACTTTGACATGCCCT 58.558 39.130 4.38 0.00 45.99 5.19
3104 3286 4.871933 AAACTTTGACATGCCCTTAAGG 57.128 40.909 15.14 15.14 39.47 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 2.981302 CAGTGGATGAGCACCGGA 59.019 61.111 9.46 0.00 0.00 5.14
45 46 2.673258 TGATCAATGGAGGCCTACGTA 58.327 47.619 11.09 0.00 0.00 3.57
46 47 1.496060 TGATCAATGGAGGCCTACGT 58.504 50.000 11.35 7.35 0.00 3.57
47 48 2.613977 GGATGATCAATGGAGGCCTACG 60.614 54.545 11.35 0.00 0.00 3.51
48 49 2.373169 TGGATGATCAATGGAGGCCTAC 59.627 50.000 8.55 8.55 0.00 3.18
71 72 0.620556 AGGTGTAGGGTGCAGAATGG 59.379 55.000 0.00 0.00 35.86 3.16
72 73 1.278985 TGAGGTGTAGGGTGCAGAATG 59.721 52.381 0.00 0.00 40.87 2.67
106 107 3.215151 TGTATGAGGTTGCCGTCAAAAA 58.785 40.909 0.00 0.00 38.81 1.94
107 108 2.852449 TGTATGAGGTTGCCGTCAAAA 58.148 42.857 0.00 0.00 38.81 2.44
108 109 2.550606 GTTGTATGAGGTTGCCGTCAAA 59.449 45.455 0.00 0.00 38.81 2.69
109 110 2.147958 GTTGTATGAGGTTGCCGTCAA 58.852 47.619 0.00 0.00 38.81 3.18
110 111 1.070914 TGTTGTATGAGGTTGCCGTCA 59.929 47.619 0.00 0.00 39.59 4.35
111 112 1.463444 GTGTTGTATGAGGTTGCCGTC 59.537 52.381 0.00 0.00 0.00 4.79
112 113 1.071699 AGTGTTGTATGAGGTTGCCGT 59.928 47.619 0.00 0.00 0.00 5.68
113 114 1.808411 AGTGTTGTATGAGGTTGCCG 58.192 50.000 0.00 0.00 0.00 5.69
114 115 5.699097 TTAAAGTGTTGTATGAGGTTGCC 57.301 39.130 0.00 0.00 0.00 4.52
115 116 6.141685 CGTTTTAAAGTGTTGTATGAGGTTGC 59.858 38.462 0.00 0.00 0.00 4.17
116 117 7.411274 TCGTTTTAAAGTGTTGTATGAGGTTG 58.589 34.615 0.00 0.00 0.00 3.77
117 118 7.556733 TCGTTTTAAAGTGTTGTATGAGGTT 57.443 32.000 0.00 0.00 0.00 3.50
135 136 9.301153 GAAGCATATGGTTATGATTTTCGTTTT 57.699 29.630 19.59 0.00 42.81 2.43
136 137 8.686334 AGAAGCATATGGTTATGATTTTCGTTT 58.314 29.630 19.59 0.00 42.81 3.60
139 140 9.173939 GAAAGAAGCATATGGTTATGATTTTCG 57.826 33.333 19.59 0.00 42.81 3.46
233 234 0.456312 CGAAGTGCAGGTACTCGTCC 60.456 60.000 0.00 0.00 34.60 4.79
266 267 0.396811 ACCTCTGGTCGGTTTTCCTG 59.603 55.000 0.00 0.00 37.95 3.86
417 418 0.247934 GTAAATCGCCGCGGGAAAAG 60.248 55.000 29.38 0.00 0.00 2.27
429 431 3.499918 GGCCCATGATTCTCTGTAAATCG 59.500 47.826 0.00 0.00 36.18 3.34
458 477 2.467880 TGGTCCCCTTGTATCTCTCAC 58.532 52.381 0.00 0.00 0.00 3.51
472 494 3.070302 GGAGTACATCTCTCATTGGTCCC 59.930 52.174 0.00 0.00 42.40 4.46
473 495 3.964031 AGGAGTACATCTCTCATTGGTCC 59.036 47.826 0.00 0.00 42.40 4.46
474 496 5.127845 TCAAGGAGTACATCTCTCATTGGTC 59.872 44.000 16.28 0.00 46.62 4.02
529 556 3.138304 TGCGGGAATAATGATACTGTGC 58.862 45.455 0.00 0.00 0.00 4.57
575 603 7.339466 TCGGAAAATCCTATCAGATCGATCATA 59.661 37.037 26.47 15.08 35.39 2.15
597 625 7.028962 CAGCATTTTCAAAATAACATCTCGGA 58.971 34.615 0.00 0.00 0.00 4.55
612 640 4.299586 TCAGTCCATACCAGCATTTTCA 57.700 40.909 0.00 0.00 0.00 2.69
624 652 9.214957 CAGTAAACAGTAAACATTCAGTCCATA 57.785 33.333 0.00 0.00 0.00 2.74
625 653 7.936847 TCAGTAAACAGTAAACATTCAGTCCAT 59.063 33.333 0.00 0.00 0.00 3.41
640 668 4.826733 TGTCAAATGGCATCAGTAAACAGT 59.173 37.500 0.00 0.00 0.00 3.55
641 669 5.375417 TGTCAAATGGCATCAGTAAACAG 57.625 39.130 0.00 0.00 0.00 3.16
642 670 5.301551 AGTTGTCAAATGGCATCAGTAAACA 59.698 36.000 0.00 0.00 0.00 2.83
643 671 5.772521 AGTTGTCAAATGGCATCAGTAAAC 58.227 37.500 0.00 3.96 0.00 2.01
644 672 7.230510 AGTTAGTTGTCAAATGGCATCAGTAAA 59.769 33.333 0.00 0.00 0.00 2.01
645 673 6.714810 AGTTAGTTGTCAAATGGCATCAGTAA 59.285 34.615 0.00 0.00 0.00 2.24
646 674 6.237901 AGTTAGTTGTCAAATGGCATCAGTA 58.762 36.000 0.00 0.00 0.00 2.74
679 707 1.342074 ACTAGGCTCACTCACAAGCA 58.658 50.000 0.00 0.00 40.36 3.91
741 773 7.698970 CAGCTCTAAAACAAAAACCGTTTCTAA 59.301 33.333 0.00 0.00 35.57 2.10
742 774 7.148205 ACAGCTCTAAAACAAAAACCGTTTCTA 60.148 33.333 0.00 0.00 35.57 2.10
743 775 6.033966 CAGCTCTAAAACAAAAACCGTTTCT 58.966 36.000 0.00 0.00 35.57 2.52
744 776 5.803461 ACAGCTCTAAAACAAAAACCGTTTC 59.197 36.000 0.00 0.00 35.57 2.78
745 777 5.575218 CACAGCTCTAAAACAAAAACCGTTT 59.425 36.000 0.00 0.00 38.19 3.60
746 778 5.099575 CACAGCTCTAAAACAAAAACCGTT 58.900 37.500 0.00 0.00 0.00 4.44
747 779 4.396790 TCACAGCTCTAAAACAAAAACCGT 59.603 37.500 0.00 0.00 0.00 4.83
748 780 4.915704 TCACAGCTCTAAAACAAAAACCG 58.084 39.130 0.00 0.00 0.00 4.44
749 781 5.743872 CACTCACAGCTCTAAAACAAAAACC 59.256 40.000 0.00 0.00 0.00 3.27
750 782 6.251376 CACACTCACAGCTCTAAAACAAAAAC 59.749 38.462 0.00 0.00 0.00 2.43
751 783 6.072175 ACACACTCACAGCTCTAAAACAAAAA 60.072 34.615 0.00 0.00 0.00 1.94
752 784 5.414454 ACACACTCACAGCTCTAAAACAAAA 59.586 36.000 0.00 0.00 0.00 2.44
753 785 4.941263 ACACACTCACAGCTCTAAAACAAA 59.059 37.500 0.00 0.00 0.00 2.83
756 788 4.372656 AGACACACTCACAGCTCTAAAAC 58.627 43.478 0.00 0.00 0.00 2.43
761 793 1.543802 GCTAGACACACTCACAGCTCT 59.456 52.381 0.00 0.00 0.00 4.09
774 806 2.171237 CCATGTCCATTCTGGCTAGACA 59.829 50.000 0.00 0.00 41.35 3.41
787 819 3.010027 TGGCTTTATTCAGTCCATGTCCA 59.990 43.478 0.00 0.00 0.00 4.02
789 821 5.179045 CATGGCTTTATTCAGTCCATGTC 57.821 43.478 10.48 0.00 45.46 3.06
820 889 0.552848 CTTACCAGGCCCATGTCCAT 59.447 55.000 0.00 0.00 0.00 3.41
845 914 4.819761 TCCTGCGATGCGAGGCAC 62.820 66.667 0.00 0.00 43.04 5.01
850 919 0.179127 CTTTCTCTCCTGCGATGCGA 60.179 55.000 0.00 0.00 0.00 5.10
851 920 1.150567 CCTTTCTCTCCTGCGATGCG 61.151 60.000 0.00 0.00 0.00 4.73
852 921 0.813210 CCCTTTCTCTCCTGCGATGC 60.813 60.000 0.00 0.00 0.00 3.91
853 922 0.539051 ACCCTTTCTCTCCTGCGATG 59.461 55.000 0.00 0.00 0.00 3.84
854 923 1.280457 AACCCTTTCTCTCCTGCGAT 58.720 50.000 0.00 0.00 0.00 4.58
925 995 0.318762 GACTCGGTGGTTTGCTCTCT 59.681 55.000 0.00 0.00 0.00 3.10
1068 1139 3.526430 CGGGATTCGCTCTCCTCA 58.474 61.111 0.00 0.00 33.05 3.86
1320 1397 1.077644 CTCCTCCTCCTCGTCGGAA 60.078 63.158 0.00 0.00 42.53 4.30
1321 1398 2.590645 CTCCTCCTCCTCGTCGGA 59.409 66.667 0.00 0.00 40.30 4.55
1322 1399 2.517402 CCTCCTCCTCCTCGTCGG 60.517 72.222 0.00 0.00 0.00 4.79
1326 1403 2.520741 GGCTCCTCCTCCTCCTCG 60.521 72.222 0.00 0.00 0.00 4.63
1361 1453 0.250727 TTGTTTCTTCAGGGCGGAGG 60.251 55.000 0.00 0.00 0.00 4.30
1536 1631 2.436824 GCCGGCTTCTTGGTCTCC 60.437 66.667 22.15 0.00 0.00 3.71
1562 1657 4.082523 CGGTGGACCAGATGCGGT 62.083 66.667 0.00 0.00 43.91 5.68
1608 1703 4.256462 TGCTTTTGGTGAGCAGCA 57.744 50.000 0.00 0.00 44.63 4.41
1769 1864 2.515523 CATGCTCCTTGCTCGGGG 60.516 66.667 0.00 0.00 43.37 5.73
1849 1950 3.443045 ATTTGCCGCCTTCGCAGG 61.443 61.111 0.00 0.00 44.28 4.85
1959 2069 0.321671 TCCCGAACTGCCTCTTGAAG 59.678 55.000 0.00 0.00 0.00 3.02
2072 2182 3.081554 CCTTGGTCACCTCCCTGG 58.918 66.667 0.00 0.00 42.93 4.45
2114 2224 1.883084 GTAAGCCCATGACGCTCCG 60.883 63.158 7.60 0.00 34.84 4.63
2126 2236 7.486802 TTCAGTTTGTACTAACTTGTAAGCC 57.513 36.000 18.30 0.00 36.24 4.35
2134 2244 9.477484 CAGATACAGTTTCAGTTTGTACTAACT 57.523 33.333 15.68 15.68 38.87 2.24
2135 2245 9.257651 ACAGATACAGTTTCAGTTTGTACTAAC 57.742 33.333 11.62 11.62 31.96 2.34
2136 2246 9.256477 CACAGATACAGTTTCAGTTTGTACTAA 57.744 33.333 0.00 0.00 31.96 2.24
2137 2247 8.635328 TCACAGATACAGTTTCAGTTTGTACTA 58.365 33.333 0.00 0.00 31.96 1.82
2138 2248 7.497595 TCACAGATACAGTTTCAGTTTGTACT 58.502 34.615 0.00 0.00 30.82 2.73
2139 2249 7.709269 TCACAGATACAGTTTCAGTTTGTAC 57.291 36.000 0.00 0.00 30.82 2.90
2140 2250 8.147704 TGATCACAGATACAGTTTCAGTTTGTA 58.852 33.333 0.00 0.00 0.00 2.41
2141 2251 6.992123 TGATCACAGATACAGTTTCAGTTTGT 59.008 34.615 0.00 0.00 0.00 2.83
2142 2252 7.293745 GTGATCACAGATACAGTTTCAGTTTG 58.706 38.462 21.07 0.00 0.00 2.93
2143 2253 6.428159 GGTGATCACAGATACAGTTTCAGTTT 59.572 38.462 26.47 0.00 0.00 2.66
2144 2254 5.934625 GGTGATCACAGATACAGTTTCAGTT 59.065 40.000 26.47 0.00 0.00 3.16
2145 2255 5.247110 AGGTGATCACAGATACAGTTTCAGT 59.753 40.000 26.47 0.00 0.00 3.41
2157 2267 2.705658 ACCAACTTCAGGTGATCACAGA 59.294 45.455 26.47 19.85 38.13 3.41
2168 2278 3.495193 CATTTCATCGCACCAACTTCAG 58.505 45.455 0.00 0.00 0.00 3.02
2169 2279 2.351641 GCATTTCATCGCACCAACTTCA 60.352 45.455 0.00 0.00 0.00 3.02
2170 2280 2.253603 GCATTTCATCGCACCAACTTC 58.746 47.619 0.00 0.00 0.00 3.01
2171 2281 1.401409 CGCATTTCATCGCACCAACTT 60.401 47.619 0.00 0.00 0.00 2.66
2172 2282 0.168788 CGCATTTCATCGCACCAACT 59.831 50.000 0.00 0.00 0.00 3.16
2173 2283 0.798009 CCGCATTTCATCGCACCAAC 60.798 55.000 0.00 0.00 0.00 3.77
2174 2284 1.505807 CCGCATTTCATCGCACCAA 59.494 52.632 0.00 0.00 0.00 3.67
2175 2285 3.050166 GCCGCATTTCATCGCACCA 62.050 57.895 0.00 0.00 0.00 4.17
2176 2286 2.278142 GCCGCATTTCATCGCACC 60.278 61.111 0.00 0.00 0.00 5.01
2177 2287 2.648724 CGCCGCATTTCATCGCAC 60.649 61.111 0.00 0.00 0.00 5.34
2178 2288 2.193865 AAACGCCGCATTTCATCGCA 62.194 50.000 0.00 0.00 0.00 5.10
2179 2289 1.070471 AAAACGCCGCATTTCATCGC 61.070 50.000 0.00 0.00 0.00 4.58
2180 2290 0.634731 CAAAACGCCGCATTTCATCG 59.365 50.000 0.00 0.00 0.00 3.84
2181 2291 0.991344 CCAAAACGCCGCATTTCATC 59.009 50.000 0.00 0.00 0.00 2.92
2182 2292 0.316841 ACCAAAACGCCGCATTTCAT 59.683 45.000 0.00 0.00 0.00 2.57
2183 2293 0.596083 CACCAAAACGCCGCATTTCA 60.596 50.000 0.00 0.00 0.00 2.69
2184 2294 1.281566 CCACCAAAACGCCGCATTTC 61.282 55.000 0.00 0.00 0.00 2.17
2185 2295 1.300542 CCACCAAAACGCCGCATTT 60.301 52.632 0.00 0.00 0.00 2.32
2190 2300 2.731587 CTTGCTCCACCAAAACGCCG 62.732 60.000 0.00 0.00 0.00 6.46
2195 2305 4.405358 AGAAACATTCTTGCTCCACCAAAA 59.595 37.500 0.00 0.00 36.36 2.44
2212 2322 9.249053 AGACTCTAGATCATAGTTTCAGAAACA 57.751 33.333 24.85 13.04 43.79 2.83
2223 2333 6.350361 CCCAATCTGCAGACTCTAGATCATAG 60.350 46.154 20.97 0.00 31.16 2.23
2229 2339 1.759445 GCCCAATCTGCAGACTCTAGA 59.241 52.381 20.97 0.00 0.00 2.43
2233 2343 0.747283 CCAGCCCAATCTGCAGACTC 60.747 60.000 20.97 6.49 32.87 3.36
2235 2345 2.413142 GCCAGCCCAATCTGCAGAC 61.413 63.158 20.97 5.79 32.87 3.51
2242 2352 2.550101 GCATCGAGCCAGCCCAATC 61.550 63.158 0.00 0.00 37.23 2.67
2246 2356 2.976903 GATGCATCGAGCCAGCCC 60.977 66.667 11.68 0.00 44.83 5.19
2247 2357 2.203112 TGATGCATCGAGCCAGCC 60.203 61.111 21.34 0.00 44.83 4.85
2249 2359 0.179092 TGTCTGATGCATCGAGCCAG 60.179 55.000 21.34 13.33 44.83 4.85
2252 2362 1.260825 CACATGTCTGATGCATCGAGC 59.739 52.381 21.34 13.47 45.96 5.03
2257 2367 1.282738 TCCACCACATGTCTGATGCAT 59.717 47.619 0.00 0.00 0.00 3.96
2258 2368 0.691904 TCCACCACATGTCTGATGCA 59.308 50.000 0.00 0.00 0.00 3.96
2263 2382 0.877071 GCAGTTCCACCACATGTCTG 59.123 55.000 0.00 0.00 0.00 3.51
2268 2387 2.699846 ACAATTTGCAGTTCCACCACAT 59.300 40.909 0.00 0.00 0.00 3.21
2270 2389 2.472816 CACAATTTGCAGTTCCACCAC 58.527 47.619 0.00 0.00 0.00 4.16
2294 2413 5.122396 GCATTCTTACAAACAGGACTACAGG 59.878 44.000 0.00 0.00 0.00 4.00
2295 2414 5.934625 AGCATTCTTACAAACAGGACTACAG 59.065 40.000 0.00 0.00 0.00 2.74
2298 2417 7.719633 AGAAAAGCATTCTTACAAACAGGACTA 59.280 33.333 0.00 0.00 31.02 2.59
2299 2418 6.547510 AGAAAAGCATTCTTACAAACAGGACT 59.452 34.615 0.00 0.00 31.02 3.85
2300 2419 6.739112 AGAAAAGCATTCTTACAAACAGGAC 58.261 36.000 0.00 0.00 31.02 3.85
2301 2420 6.293407 CGAGAAAAGCATTCTTACAAACAGGA 60.293 38.462 6.28 0.00 31.02 3.86
2302 2421 5.853282 CGAGAAAAGCATTCTTACAAACAGG 59.147 40.000 6.28 0.00 31.02 4.00
2303 2422 6.358030 CACGAGAAAAGCATTCTTACAAACAG 59.642 38.462 6.28 0.00 31.02 3.16
2304 2423 6.183360 ACACGAGAAAAGCATTCTTACAAACA 60.183 34.615 6.28 0.00 31.02 2.83
2305 2424 6.140737 CACACGAGAAAAGCATTCTTACAAAC 59.859 38.462 6.28 0.00 31.02 2.93
2323 2442 0.957395 ATTTGCTCTGGCCACACGAG 60.957 55.000 14.65 14.65 37.74 4.18
2374 2496 4.874396 CACATGTCTCATCATGCTTACACT 59.126 41.667 0.00 0.00 46.15 3.55
2432 2560 2.380084 TCTAGCGCACTTCGGAAAAT 57.620 45.000 11.47 0.00 38.94 1.82
2439 2567 0.670546 TGCCAGTTCTAGCGCACTTC 60.671 55.000 11.47 0.00 0.00 3.01
2440 2568 0.250295 TTGCCAGTTCTAGCGCACTT 60.250 50.000 11.47 0.00 0.00 3.16
2441 2569 0.250295 TTTGCCAGTTCTAGCGCACT 60.250 50.000 11.47 0.00 0.00 4.40
2486 2640 0.605319 TCGATGGAACCAGTGGCAAC 60.605 55.000 9.78 0.00 0.00 4.17
2511 2665 3.484649 CGACCGTTTCATACATAACCTCG 59.515 47.826 0.00 0.00 0.00 4.63
2555 2712 8.321005 GTCAAAACTAACAACAGAAATGCTTTC 58.679 33.333 1.72 1.72 39.96 2.62
2561 2719 7.100458 AGCTGTCAAAACTAACAACAGAAAT 57.900 32.000 5.07 0.00 39.72 2.17
2586 2744 2.028658 TGAAACAGCCAAAACAGCAACA 60.029 40.909 0.00 0.00 0.00 3.33
2622 2798 0.598562 TTCAGACTCACGACTCCAGC 59.401 55.000 0.00 0.00 0.00 4.85
2737 2913 3.659183 ATAATCCAGCACAGAAAGCCT 57.341 42.857 0.00 0.00 0.00 4.58
2745 2921 7.286313 TGGTAACATTCATATAATCCAGCACA 58.714 34.615 0.00 0.00 46.17 4.57
2746 2922 7.744087 TGGTAACATTCATATAATCCAGCAC 57.256 36.000 0.00 0.00 46.17 4.40
2798 2974 2.091588 CCACGACGAGTAAATTGGAACG 59.908 50.000 0.00 0.00 0.00 3.95
2802 2978 4.477302 AAAACCACGACGAGTAAATTGG 57.523 40.909 0.00 0.00 0.00 3.16
2806 2982 5.347342 TGAACTAAAACCACGACGAGTAAA 58.653 37.500 0.00 0.00 0.00 2.01
2808 2989 4.566545 TGAACTAAAACCACGACGAGTA 57.433 40.909 0.00 0.00 0.00 2.59
2813 2994 7.743520 TTTGAATTTGAACTAAAACCACGAC 57.256 32.000 0.00 0.00 0.00 4.34
2814 2995 8.934507 AATTTGAATTTGAACTAAAACCACGA 57.065 26.923 0.00 0.00 0.00 4.35
2833 3014 7.692088 TCGTCGTGGTTTTAGTTTAAATTTGA 58.308 30.769 0.00 0.00 0.00 2.69
2838 3019 7.763172 TTACTCGTCGTGGTTTTAGTTTAAA 57.237 32.000 0.00 0.00 0.00 1.52
2842 3023 5.117592 CGATTTACTCGTCGTGGTTTTAGTT 59.882 40.000 0.00 0.00 42.56 2.24
2843 3024 4.618489 CGATTTACTCGTCGTGGTTTTAGT 59.382 41.667 0.00 0.00 42.56 2.24
2844 3025 5.109815 CGATTTACTCGTCGTGGTTTTAG 57.890 43.478 0.00 0.00 42.56 1.85
2857 3038 5.024785 ACTCCCTCCATTTCGATTTACTC 57.975 43.478 0.00 0.00 0.00 2.59
2858 3039 5.661759 AGTACTCCCTCCATTTCGATTTACT 59.338 40.000 0.00 0.00 0.00 2.24
2859 3040 5.915175 AGTACTCCCTCCATTTCGATTTAC 58.085 41.667 0.00 0.00 0.00 2.01
2862 3043 5.209659 AGTAGTACTCCCTCCATTTCGATT 58.790 41.667 0.00 0.00 0.00 3.34
2863 3044 4.805744 AGTAGTACTCCCTCCATTTCGAT 58.194 43.478 0.00 0.00 0.00 3.59
2865 3046 5.340439 AAAGTAGTACTCCCTCCATTTCG 57.660 43.478 2.58 0.00 0.00 3.46
2870 3051 4.748701 ACAGAAAAGTAGTACTCCCTCCA 58.251 43.478 2.58 0.00 0.00 3.86
2887 3068 4.913784 GGGAGTATAACCCAACAACAGAA 58.086 43.478 10.37 0.00 46.05 3.02
2943 3124 4.754322 AGGACGTTTTTGCAGTTTGAATT 58.246 34.783 0.00 0.00 0.00 2.17
2947 3128 4.022464 TGTAGGACGTTTTTGCAGTTTG 57.978 40.909 0.00 0.00 0.00 2.93
2948 3129 4.911514 ATGTAGGACGTTTTTGCAGTTT 57.088 36.364 0.00 0.00 0.00 2.66
2949 3130 4.911514 AATGTAGGACGTTTTTGCAGTT 57.088 36.364 0.00 0.00 0.00 3.16
2950 3131 4.097286 ACAAATGTAGGACGTTTTTGCAGT 59.903 37.500 0.00 0.00 35.31 4.40
2951 3132 4.606961 ACAAATGTAGGACGTTTTTGCAG 58.393 39.130 0.00 0.00 35.31 4.41
2952 3133 4.640789 ACAAATGTAGGACGTTTTTGCA 57.359 36.364 0.00 0.00 35.31 4.08
2953 3134 5.959652 AAACAAATGTAGGACGTTTTTGC 57.040 34.783 0.00 0.00 35.31 3.68
2954 3135 7.911205 TCTGTAAACAAATGTAGGACGTTTTTG 59.089 33.333 0.00 0.00 35.31 2.44
2955 3136 7.987649 TCTGTAAACAAATGTAGGACGTTTTT 58.012 30.769 0.00 0.00 35.31 1.94
2956 3137 7.255001 CCTCTGTAAACAAATGTAGGACGTTTT 60.255 37.037 0.00 0.00 35.31 2.43
2957 3138 6.204108 CCTCTGTAAACAAATGTAGGACGTTT 59.796 38.462 0.00 0.00 37.78 3.60
2967 3148 4.074970 AGCACTCCCTCTGTAAACAAATG 58.925 43.478 0.00 0.00 0.00 2.32
2977 3158 3.594134 CAGAAAAGTAGCACTCCCTCTG 58.406 50.000 0.00 0.00 0.00 3.35
2978 3159 2.027653 GCAGAAAAGTAGCACTCCCTCT 60.028 50.000 0.00 0.00 0.00 3.69
2994 3175 7.775053 ATTACCTCCAAATTAAACAGCAGAA 57.225 32.000 0.00 0.00 0.00 3.02
3004 3185 3.129638 GCGGTGCAATTACCTCCAAATTA 59.870 43.478 0.00 0.00 38.62 1.40
3010 3191 2.469516 CCGCGGTGCAATTACCTCC 61.470 63.158 19.50 0.00 38.62 4.30
3013 3194 2.483288 CACCGCGGTGCAATTACC 59.517 61.111 42.21 0.00 39.39 2.85
3022 3203 3.649277 CTAGCTCAAGCACCGCGGT 62.649 63.158 28.70 28.70 45.16 5.68
3024 3205 2.125912 ACTAGCTCAAGCACCGCG 60.126 61.111 0.00 0.00 45.16 6.46
3025 3206 0.460987 ATCACTAGCTCAAGCACCGC 60.461 55.000 4.59 0.00 45.16 5.68
3026 3207 1.284657 CATCACTAGCTCAAGCACCG 58.715 55.000 4.59 0.00 45.16 4.94
3036 3217 6.203723 GGACTAAATGAACATCCATCACTAGC 59.796 42.308 0.00 0.00 0.00 3.42
3039 3220 6.319048 AGGACTAAATGAACATCCATCACT 57.681 37.500 0.00 0.00 31.41 3.41
3042 3223 7.770897 ACTACAAGGACTAAATGAACATCCATC 59.229 37.037 0.00 0.00 31.41 3.51
3043 3224 7.633789 ACTACAAGGACTAAATGAACATCCAT 58.366 34.615 0.00 0.00 31.41 3.41
3060 3242 8.992243 GTTTTGAAACCACTTGCAACTACAAGG 61.992 40.741 8.93 0.00 40.78 3.61
3064 3246 5.407502 AGTTTTGAAACCACTTGCAACTAC 58.592 37.500 0.00 0.00 39.71 2.73
3065 3247 5.652994 AGTTTTGAAACCACTTGCAACTA 57.347 34.783 0.00 0.00 39.71 2.24


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

AutoCloner maintained by Alex Coulton.