Multiple sequence alignment - TraesCS4A01G364000

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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 TraesCS4A01G364000 chr4A 100.000 4694 0 0 1 4694 636977671 636982364 0.000000e+00 8669.0
1 TraesCS4A01G364000 chr4A 92.982 57 4 0 1522 1578 577369494 577369438 3.010000e-12 84.2
2 TraesCS4A01G364000 chr5D 94.881 2598 89 15 1154 3737 534612694 534610127 0.000000e+00 4021.0
3 TraesCS4A01G364000 chr5D 90.099 909 60 17 83 985 534613890 534613006 0.000000e+00 1153.0
4 TraesCS4A01G364000 chr5D 85.658 1011 65 41 3736 4694 534610100 534609118 0.000000e+00 990.0
5 TraesCS4A01G364000 chr5B 93.811 2569 106 19 1186 3737 674661247 674658715 0.000000e+00 3814.0
6 TraesCS4A01G364000 chr5B 95.133 1993 74 10 1707 3694 676013415 676015389 0.000000e+00 3121.0
7 TraesCS4A01G364000 chr5B 89.548 708 51 5 308 1014 674662272 674661587 0.000000e+00 876.0
8 TraesCS4A01G364000 chr5B 82.472 890 41 33 3895 4694 674658441 674657577 0.000000e+00 673.0
9 TraesCS4A01G364000 chr5B 89.333 300 10 7 4405 4694 676011365 676011652 1.610000e-94 357.0
10 TraesCS4A01G364000 chr5B 89.073 302 9 7 4405 4694 676092583 676092872 2.080000e-93 353.0
11 TraesCS4A01G364000 chr5B 78.849 591 59 22 3736 4292 676015622 676016180 5.820000e-89 339.0
12 TraesCS4A01G364000 chr5B 89.199 287 9 6 4418 4694 676016249 676016523 5.820000e-89 339.0
13 TraesCS4A01G364000 chr5B 84.142 309 40 8 1 305 674755305 674755002 1.650000e-74 291.0
14 TraesCS4A01G364000 chr5B 91.018 167 8 4 3736 3896 674658688 674658523 7.910000e-53 219.0
15 TraesCS4A01G364000 chr5B 85.246 183 4 7 4159 4320 676010935 676011115 2.910000e-37 167.0
16 TraesCS4A01G364000 chr5B 83.226 155 3 7 4159 4292 676092358 676092510 2.290000e-23 121.0
17 TraesCS4A01G364000 chr6B 95.913 783 29 2 2416 3196 114363456 114362675 0.000000e+00 1266.0
18 TraesCS4A01G364000 chr6B 83.779 1048 50 33 3733 4694 114337095 114336082 0.000000e+00 883.0
19 TraesCS4A01G364000 chr6B 96.791 374 12 0 3364 3737 114337493 114337120 3.990000e-175 625.0
20 TraesCS4A01G364000 chr6B 96.094 128 5 0 3232 3359 114357343 114357216 4.760000e-50 209.0
21 TraesCS4A01G364000 chr6B 97.368 38 1 0 3192 3229 114357366 114357329 1.090000e-06 65.8
22 TraesCS4A01G364000 chr7A 78.967 271 47 8 2744 3012 220117217 220116955 4.830000e-40 176.0
23 TraesCS4A01G364000 chr7A 77.122 271 52 8 2744 3012 13148092 13147830 1.050000e-31 148.0
24 TraesCS4A01G364000 chr1A 78.229 271 49 8 2744 3012 292582234 292581972 1.040000e-36 165.0
25 TraesCS4A01G364000 chr1A 78.676 136 25 2 2741 2876 512448976 512449107 2.330000e-13 87.9
26 TraesCS4A01G364000 chr5A 77.491 271 51 8 2744 3012 184237762 184237500 2.260000e-33 154.0
27 TraesCS4A01G364000 chr2B 91.489 94 8 0 2571 2664 765071027 765070934 3.810000e-26 130.0
28 TraesCS4A01G364000 chr2A 89.899 99 10 0 2566 2664 754359764 754359666 1.370000e-25 128.0
29 TraesCS4A01G364000 chr2D 90.526 95 9 0 2570 2664 622924717 622924623 4.930000e-25 126.0


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 TraesCS4A01G364000 chr4A 636977671 636982364 4693 False 8669.000000 8669 100.000000 1 4694 1 chr4A.!!$F1 4693
1 TraesCS4A01G364000 chr5D 534609118 534613890 4772 True 2054.666667 4021 90.212667 83 4694 3 chr5D.!!$R1 4611
2 TraesCS4A01G364000 chr5B 674657577 674662272 4695 True 1395.500000 3814 89.212250 308 4694 4 chr5B.!!$R2 4386
3 TraesCS4A01G364000 chr5B 676010935 676016523 5588 False 864.600000 3121 87.552000 1707 4694 5 chr5B.!!$F1 2987
4 TraesCS4A01G364000 chr5B 676092358 676092872 514 False 237.000000 353 86.149500 4159 4694 2 chr5B.!!$F2 535
5 TraesCS4A01G364000 chr6B 114362675 114363456 781 True 1266.000000 1266 95.913000 2416 3196 1 chr6B.!!$R1 780
6 TraesCS4A01G364000 chr6B 114336082 114337493 1411 True 754.000000 883 90.285000 3364 4694 2 chr6B.!!$R2 1330

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
709 714 0.179081 GTACCATTCCTCGTCCTGGC 60.179 60.000 0.00 0.00 31.72 4.85 F
1086 1093 0.174617 GCGAGGTCTTCTTCCAGGAG 59.825 60.000 0.00 0.00 0.00 3.69 F
1123 1130 0.250510 GCCCTTCGGATCCAGATTCC 60.251 60.000 13.41 0.00 0.00 3.01 F
1670 1883 0.316841 GGTGCCGATCATCTCCTCTC 59.683 60.000 0.00 0.00 0.00 3.20 F
2488 3275 1.135915 TGCAACGAAGGTGCACATTTT 59.864 42.857 18.94 6.77 33.24 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2397 3184 0.036858 GAGTCAGACAGGAAGCCACC 60.037 60.000 2.66 0.00 0.00 4.61 R
2815 3609 0.821711 TGTACAACAGTGGGCAAGCC 60.822 55.000 1.52 1.52 0.00 4.35 R
2987 3782 1.133945 TGAAGCACTAACCTGCCACAA 60.134 47.619 0.00 0.00 37.96 3.33 R
3596 4391 1.066573 CCTTGTTCTCCTCATCGCTGT 60.067 52.381 0.00 0.00 0.00 4.40 R
4032 5135 1.079127 CTCGGGCCGTTGATGAGTT 60.079 57.895 27.32 0.00 0.00 3.01 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 7.739995 CCTGGAGAATCTACCCATATGAATA 57.260 40.000 3.65 0.00 33.73 1.75
25 26 7.560368 CCTGGAGAATCTACCCATATGAATAC 58.440 42.308 3.65 0.00 33.73 1.89
26 27 7.401493 CCTGGAGAATCTACCCATATGAATACT 59.599 40.741 3.65 0.00 33.73 2.12
27 28 8.367660 TGGAGAATCTACCCATATGAATACTC 57.632 38.462 3.65 2.52 33.73 2.59
28 29 7.122799 TGGAGAATCTACCCATATGAATACTCG 59.877 40.741 3.65 0.00 33.73 4.18
29 30 6.868622 AGAATCTACCCATATGAATACTCGC 58.131 40.000 3.65 0.00 0.00 5.03
30 31 5.599999 ATCTACCCATATGAATACTCGCC 57.400 43.478 3.65 0.00 0.00 5.54
33 34 2.567615 ACCCATATGAATACTCGCCTCC 59.432 50.000 3.65 0.00 0.00 4.30
34 35 2.567169 CCCATATGAATACTCGCCTCCA 59.433 50.000 3.65 0.00 0.00 3.86
35 36 3.198635 CCCATATGAATACTCGCCTCCAT 59.801 47.826 3.65 0.00 0.00 3.41
36 37 4.186926 CCATATGAATACTCGCCTCCATG 58.813 47.826 3.65 0.00 0.00 3.66
37 38 2.847327 ATGAATACTCGCCTCCATGG 57.153 50.000 4.97 4.97 39.35 3.66
38 39 1.788229 TGAATACTCGCCTCCATGGA 58.212 50.000 15.27 15.27 38.35 3.41
39 40 1.412710 TGAATACTCGCCTCCATGGAC 59.587 52.381 11.44 0.50 38.35 4.02
41 42 1.496060 ATACTCGCCTCCATGGACAA 58.504 50.000 11.44 0.00 38.35 3.18
42 43 0.824109 TACTCGCCTCCATGGACAAG 59.176 55.000 11.44 8.25 38.35 3.16
43 44 0.904865 ACTCGCCTCCATGGACAAGA 60.905 55.000 11.44 9.09 38.35 3.02
44 45 0.460987 CTCGCCTCCATGGACAAGAC 60.461 60.000 11.44 0.00 38.35 3.01
45 46 1.191489 TCGCCTCCATGGACAAGACA 61.191 55.000 11.44 0.00 38.35 3.41
46 47 0.321564 CGCCTCCATGGACAAGACAA 60.322 55.000 11.44 0.00 38.35 3.18
47 48 1.881925 CGCCTCCATGGACAAGACAAA 60.882 52.381 11.44 0.00 38.35 2.83
49 50 2.815589 GCCTCCATGGACAAGACAAACT 60.816 50.000 11.44 0.00 38.35 2.66
50 51 3.077359 CCTCCATGGACAAGACAAACTC 58.923 50.000 11.44 0.00 38.35 3.01
51 52 2.738846 CTCCATGGACAAGACAAACTCG 59.261 50.000 11.44 0.00 0.00 4.18
52 53 1.197721 CCATGGACAAGACAAACTCGC 59.802 52.381 5.56 0.00 0.00 5.03
53 54 1.872952 CATGGACAAGACAAACTCGCA 59.127 47.619 0.00 0.00 0.00 5.10
54 55 1.581934 TGGACAAGACAAACTCGCAG 58.418 50.000 0.00 0.00 0.00 5.18
55 56 1.134521 TGGACAAGACAAACTCGCAGT 60.135 47.619 0.00 0.00 0.00 4.40
56 57 1.940613 GGACAAGACAAACTCGCAGTT 59.059 47.619 0.00 0.00 40.80 3.16
57 58 2.286418 GGACAAGACAAACTCGCAGTTG 60.286 50.000 2.88 0.00 38.66 3.16
58 59 2.351726 GACAAGACAAACTCGCAGTTGT 59.648 45.455 2.88 0.00 38.66 3.32
59 60 2.095853 ACAAGACAAACTCGCAGTTGTG 59.904 45.455 2.72 6.19 38.66 3.33
74 75 4.520078 CAGTTGTGCAAATCATTTTGTGC 58.480 39.130 0.00 0.00 43.43 4.57
80 81 4.386711 TGCAAATCATTTTGTGCATTCCA 58.613 34.783 0.00 0.00 43.43 3.53
81 82 4.213694 TGCAAATCATTTTGTGCATTCCAC 59.786 37.500 0.00 0.00 43.43 4.02
91 92 2.993471 GCATTCCACCCCTTGCACG 61.993 63.158 0.00 0.00 35.22 5.34
111 112 1.898938 CATTGCAGCCACATACAACG 58.101 50.000 0.00 0.00 0.00 4.10
155 156 2.826428 TGCCGAAGCACAATAGATCTC 58.174 47.619 0.00 0.00 46.52 2.75
156 157 2.139118 GCCGAAGCACAATAGATCTCC 58.861 52.381 0.00 0.00 39.53 3.71
157 158 2.483714 GCCGAAGCACAATAGATCTCCA 60.484 50.000 0.00 0.00 39.53 3.86
158 159 3.805108 GCCGAAGCACAATAGATCTCCAT 60.805 47.826 0.00 0.00 39.53 3.41
161 162 3.851458 AGCACAATAGATCTCCATGCA 57.149 42.857 18.13 0.00 34.03 3.96
162 163 3.741249 AGCACAATAGATCTCCATGCAG 58.259 45.455 18.13 7.19 34.03 4.41
163 164 2.225963 GCACAATAGATCTCCATGCAGC 59.774 50.000 0.00 1.96 0.00 5.25
164 165 3.741249 CACAATAGATCTCCATGCAGCT 58.259 45.455 0.00 0.00 0.00 4.24
166 167 3.244491 ACAATAGATCTCCATGCAGCTCC 60.244 47.826 0.00 0.00 0.00 4.70
167 168 2.092598 TAGATCTCCATGCAGCTCCA 57.907 50.000 0.00 0.00 0.00 3.86
169 170 2.617658 AGATCTCCATGCAGCTCCATA 58.382 47.619 0.00 0.00 0.00 2.74
170 171 2.568062 AGATCTCCATGCAGCTCCATAG 59.432 50.000 0.00 0.00 0.00 2.23
171 172 2.092598 TCTCCATGCAGCTCCATAGA 57.907 50.000 0.00 0.00 0.00 1.98
172 173 1.969208 TCTCCATGCAGCTCCATAGAG 59.031 52.381 6.73 6.73 43.57 2.43
190 191 8.853126 TCCATAGAGCATCCTTAAATGATTTTG 58.147 33.333 0.00 0.00 33.66 2.44
238 239 3.322211 CACACCATGCATTTGACCAAT 57.678 42.857 11.31 0.00 0.00 3.16
254 256 2.945668 ACCAATGCTTTAAGATCCTCGC 59.054 45.455 0.00 0.00 0.00 5.03
257 259 0.179084 TGCTTTAAGATCCTCGCCGG 60.179 55.000 0.00 0.00 0.00 6.13
258 260 1.499688 GCTTTAAGATCCTCGCCGGC 61.500 60.000 19.07 19.07 0.00 6.13
260 262 0.461339 TTTAAGATCCTCGCCGGCAC 60.461 55.000 28.98 9.77 0.00 5.01
282 284 0.827507 ACCTTCATTGGTGGCCACAC 60.828 55.000 35.78 24.77 46.97 3.82
303 305 2.126424 GAGTCGCACGACCACCTC 60.126 66.667 18.81 6.95 45.59 3.85
318 320 3.062466 CTCTGGTGGCGACGAGGA 61.062 66.667 10.79 0.00 0.00 3.71
363 365 1.153249 TGGCATGCTAGGGTTACGC 60.153 57.895 18.92 0.00 0.00 4.42
409 414 3.901797 GAGGGGGCCGAGTGTGTTG 62.902 68.421 0.00 0.00 0.00 3.33
422 427 4.501915 CGAGTGTGTTGACCCTTACCTTTA 60.502 45.833 0.00 0.00 0.00 1.85
441 446 0.392193 AGACTGCTCGCTTTCCATGG 60.392 55.000 4.97 4.97 0.00 3.66
453 458 2.029892 TTCCATGGTGCCCCTGGTTT 62.030 55.000 12.58 0.00 33.31 3.27
513 518 8.702819 TCAATGAATGCATGAATAAAATGGGTA 58.297 29.630 0.00 0.00 34.26 3.69
521 526 7.441760 TGCATGAATAAAATGGGTATTGAATGC 59.558 33.333 0.00 11.16 37.69 3.56
699 704 1.153229 GGCCTCCACGTACCATTCC 60.153 63.158 0.00 0.00 0.00 3.01
706 711 0.815734 CACGTACCATTCCTCGTCCT 59.184 55.000 0.00 0.00 34.30 3.85
709 714 0.179081 GTACCATTCCTCGTCCTGGC 60.179 60.000 0.00 0.00 31.72 4.85
935 941 2.178912 TCAGGAGGTTTTAGGTTGCG 57.821 50.000 0.00 0.00 0.00 4.85
981 988 1.137282 CGGAAGGGTCTAGAAGCTTCC 59.863 57.143 22.81 7.73 37.55 3.46
985 992 1.826096 AGGGTCTAGAAGCTTCCGTTC 59.174 52.381 22.81 11.09 0.00 3.95
986 993 1.134759 GGGTCTAGAAGCTTCCGTTCC 60.135 57.143 22.81 18.42 0.00 3.62
987 994 1.469423 GGTCTAGAAGCTTCCGTTCCG 60.469 57.143 22.81 5.52 0.00 4.30
989 996 1.891150 TCTAGAAGCTTCCGTTCCGTT 59.109 47.619 22.81 4.35 0.00 4.44
990 997 1.993370 CTAGAAGCTTCCGTTCCGTTG 59.007 52.381 22.81 0.00 0.00 4.10
991 998 0.602905 AGAAGCTTCCGTTCCGTTGG 60.603 55.000 22.81 0.00 0.00 3.77
992 999 0.883370 GAAGCTTCCGTTCCGTTGGT 60.883 55.000 15.97 0.00 0.00 3.67
1080 1087 2.509561 GCCGGCGAGGTCTTCTTC 60.510 66.667 12.58 0.00 43.70 2.87
1086 1093 0.174617 GCGAGGTCTTCTTCCAGGAG 59.825 60.000 0.00 0.00 0.00 3.69
1087 1094 1.840737 CGAGGTCTTCTTCCAGGAGA 58.159 55.000 0.00 0.00 0.00 3.71
1096 1103 1.983972 CTTCCAGGAGAAGTTCGACG 58.016 55.000 0.00 0.00 45.99 5.12
1097 1104 0.601558 TTCCAGGAGAAGTTCGACGG 59.398 55.000 0.00 0.00 0.00 4.79
1098 1105 0.538977 TCCAGGAGAAGTTCGACGGT 60.539 55.000 0.00 0.00 0.00 4.83
1099 1106 0.388649 CCAGGAGAAGTTCGACGGTG 60.389 60.000 0.00 0.00 0.00 4.94
1100 1107 0.596577 CAGGAGAAGTTCGACGGTGA 59.403 55.000 0.00 0.00 0.00 4.02
1101 1108 0.882474 AGGAGAAGTTCGACGGTGAG 59.118 55.000 0.00 0.00 0.00 3.51
1102 1109 0.733223 GGAGAAGTTCGACGGTGAGC 60.733 60.000 0.00 0.00 0.00 4.26
1103 1110 0.733223 GAGAAGTTCGACGGTGAGCC 60.733 60.000 0.00 0.00 0.00 4.70
1120 1127 3.142393 CGCCCTTCGGATCCAGAT 58.858 61.111 13.41 0.00 33.78 2.90
1121 1128 1.447643 CGCCCTTCGGATCCAGATT 59.552 57.895 13.41 0.00 33.78 2.40
1122 1129 0.601311 CGCCCTTCGGATCCAGATTC 60.601 60.000 13.41 0.00 33.78 2.52
1123 1130 0.250510 GCCCTTCGGATCCAGATTCC 60.251 60.000 13.41 0.00 0.00 3.01
1124 1131 1.131638 CCCTTCGGATCCAGATTCCA 58.868 55.000 13.41 0.00 0.00 3.53
1125 1132 1.490490 CCCTTCGGATCCAGATTCCAA 59.510 52.381 13.41 0.00 0.00 3.53
1127 1134 2.945668 CCTTCGGATCCAGATTCCAAAC 59.054 50.000 13.41 0.00 0.00 2.93
1129 1136 1.211949 TCGGATCCAGATTCCAAACCC 59.788 52.381 13.41 0.00 0.00 4.11
1130 1137 1.750682 CGGATCCAGATTCCAAACCCC 60.751 57.143 13.41 0.00 0.00 4.95
1147 1355 1.894756 CCCCTCCTCTCTCGTAGCG 60.895 68.421 0.00 0.00 0.00 4.26
1151 1359 3.955101 CCTCTCTCGTAGCGGGCG 61.955 72.222 0.00 0.00 0.00 6.13
1374 1587 0.940991 ACGCCGACGACAAAGGTAAC 60.941 55.000 0.00 0.00 43.93 2.50
1400 1613 2.096318 GTCGCCGGATTTCGTTTTGTTA 60.096 45.455 5.05 0.00 37.11 2.41
1415 1628 8.199176 TCGTTTTGTTATGTTCTGTTCTGTTA 57.801 30.769 0.00 0.00 0.00 2.41
1443 1656 0.395724 GGCGAATGGGGGACTGAATT 60.396 55.000 0.00 0.00 0.00 2.17
1445 1658 1.955208 GCGAATGGGGGACTGAATTGT 60.955 52.381 0.00 0.00 0.00 2.71
1478 1691 1.739338 GCATCCAGACGTCGGAGGAT 61.739 60.000 30.87 27.99 41.40 3.24
1484 1697 2.014857 CAGACGTCGGAGGATTACAGA 58.985 52.381 10.41 0.00 0.00 3.41
1670 1883 0.316841 GGTGCCGATCATCTCCTCTC 59.683 60.000 0.00 0.00 0.00 3.20
1674 1887 2.702478 TGCCGATCATCTCCTCTCAATT 59.298 45.455 0.00 0.00 0.00 2.32
1916 2691 1.743772 GCCACGTACAGCATCCTCATT 60.744 52.381 0.00 0.00 0.00 2.57
1922 2697 3.873361 CGTACAGCATCCTCATTGACAAT 59.127 43.478 0.00 0.00 0.00 2.71
1950 2725 2.675423 AGTCCGGCAGCGTCTACA 60.675 61.111 0.00 0.00 0.00 2.74
1993 2768 3.181459 GCCAAGAAGAAGAGGGATCCTAC 60.181 52.174 12.58 6.17 31.76 3.18
2099 2876 8.546083 AAAGCCATTAATATAACATTGGGTGA 57.454 30.769 0.00 0.00 35.33 4.02
2209 2991 5.303333 TGCTGCACAATTTGGATGATGATAT 59.697 36.000 0.00 0.00 0.00 1.63
2248 3033 8.818860 AGTATTGATTTGCCAATGCCATAATAT 58.181 29.630 0.00 0.00 39.10 1.28
2260 3045 4.335416 TGCCATAATATTGAGCTAAGCCC 58.665 43.478 0.00 0.00 0.00 5.19
2265 3050 7.168219 CCATAATATTGAGCTAAGCCCAACTA 58.832 38.462 0.00 0.00 0.00 2.24
2320 3105 3.620488 ACCGATGCAAAGTGTCCATTAT 58.380 40.909 0.00 0.00 0.00 1.28
2355 3140 4.141981 TGCACAACATGAGTTTCCACATTT 60.142 37.500 0.00 0.00 35.28 2.32
2397 3184 4.707030 TGTATTTGATGCTTTGCCTCTG 57.293 40.909 0.00 0.00 0.00 3.35
2422 3209 3.449018 GGCTTCCTGTCTGACTCAGATTA 59.551 47.826 11.98 4.28 42.73 1.75
2488 3275 1.135915 TGCAACGAAGGTGCACATTTT 59.864 42.857 18.94 6.77 33.24 1.82
2531 3318 1.597742 TTGTGCTCTGTTGCCTCTTC 58.402 50.000 0.00 0.00 0.00 2.87
2538 3325 3.196463 CTCTGTTGCCTCTTCTATGCAG 58.804 50.000 0.00 0.00 36.21 4.41
2690 3479 7.841956 ACTATGACAGCATGACTAGTTACTTT 58.158 34.615 0.00 0.00 39.69 2.66
2692 3481 9.239002 CTATGACAGCATGACTAGTTACTTTAC 57.761 37.037 0.00 0.00 39.69 2.01
2839 3633 3.153369 TGCCCACTGTTGTACATTCAT 57.847 42.857 0.00 0.00 0.00 2.57
2924 3719 7.979444 ATGATCTTCTTTTCCTTTGTTCGTA 57.021 32.000 0.00 0.00 0.00 3.43
2987 3782 4.012374 CCTGAAGCACATTGGTATTGAGT 58.988 43.478 0.00 0.00 0.00 3.41
3082 3877 6.830838 GGACCACTGATATTGATTTCTCCTTT 59.169 38.462 0.00 0.00 0.00 3.11
3115 3910 7.661847 CACTAGGTTAAATCAGGAACTCTGTTT 59.338 37.037 0.00 0.00 43.76 2.83
3162 3957 1.665161 CGAGTACGCCAAGAAGTTCGT 60.665 52.381 0.00 0.00 38.75 3.85
3366 4161 9.326489 AGGAGGTATATATGCAAACATCTTCTA 57.674 33.333 3.10 0.00 37.74 2.10
3526 4321 8.181487 TCAACGTTTCTAACTGCTTATATGAC 57.819 34.615 0.00 0.00 0.00 3.06
3699 4657 4.333690 AGAAGGACGAGCTTTAGAGTGTA 58.666 43.478 0.00 0.00 0.00 2.90
3705 4663 2.423892 CGAGCTTTAGAGTGTAGCAGGA 59.576 50.000 0.00 0.00 37.37 3.86
3721 4679 3.386402 AGCAGGAAGGCTCTGTATCTAAC 59.614 47.826 5.26 0.00 41.05 2.34
3750 4736 7.502120 TTCCTCTTGAGAAGAACATTTTCTG 57.498 36.000 0.00 0.00 41.56 3.02
3825 4818 9.616156 TTTTTGTCGGTAATAGGAAATATAGCA 57.384 29.630 0.00 0.00 0.00 3.49
4032 5135 2.290832 TGCAGCACAATAGGTTCATCCA 60.291 45.455 0.00 0.00 39.02 3.41
4050 5153 1.079127 AACTCATCAACGGCCCGAG 60.079 57.895 11.71 1.22 0.00 4.63
4062 5165 1.657751 GGCCCGAGTTTGATGGAAGC 61.658 60.000 0.00 0.00 0.00 3.86
4084 5187 3.686916 AGAGTCTCAAACAAGCCCTAC 57.313 47.619 1.94 0.00 0.00 3.18
4085 5188 3.243724 AGAGTCTCAAACAAGCCCTACT 58.756 45.455 1.94 0.00 0.00 2.57
4086 5189 3.259625 AGAGTCTCAAACAAGCCCTACTC 59.740 47.826 1.94 0.00 33.86 2.59
4087 5190 2.972713 AGTCTCAAACAAGCCCTACTCA 59.027 45.455 0.00 0.00 0.00 3.41
4088 5191 3.584848 AGTCTCAAACAAGCCCTACTCAT 59.415 43.478 0.00 0.00 0.00 2.90
4089 5192 3.935828 GTCTCAAACAAGCCCTACTCATC 59.064 47.826 0.00 0.00 0.00 2.92
4108 5213 5.355596 TCATCAATGTTTTTGCCTCGTTTT 58.644 33.333 0.00 0.00 0.00 2.43
4168 5295 3.141272 ACCCAGACCCAATTCCAAACTAA 59.859 43.478 0.00 0.00 0.00 2.24
4172 5299 3.141272 AGACCCAATTCCAAACTAACCCA 59.859 43.478 0.00 0.00 0.00 4.51
4193 5323 5.520288 CCCATGTATGTCGTAGTTTTCTGAG 59.480 44.000 0.00 0.00 0.00 3.35
4379 5577 9.436957 GAGTAGGAAAAACAGATTCATACAGAA 57.563 33.333 11.95 0.00 43.09 3.02
4383 5581 7.944554 AGGAAAAACAGATTCATACAGAAAGGA 59.055 33.333 0.00 0.00 40.22 3.36
4384 5582 8.576442 GGAAAAACAGATTCATACAGAAAGGAA 58.424 33.333 0.00 0.00 40.22 3.36
4502 5710 3.545703 AGAACAACAAACAGACCCTGAG 58.454 45.455 0.45 0.00 35.18 3.35
4624 5835 5.120674 TCAACATCATTCGCTACTTCACTTG 59.879 40.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.633325 ATTCATATGGGTAGATTCTCCAGG 57.367 41.667 2.13 0.00 33.68 4.45
1 2 8.372877 AGTATTCATATGGGTAGATTCTCCAG 57.627 38.462 2.13 0.00 33.68 3.86
2 3 7.122799 CGAGTATTCATATGGGTAGATTCTCCA 59.877 40.741 2.13 0.00 34.79 3.86
3 4 7.484975 CGAGTATTCATATGGGTAGATTCTCC 58.515 42.308 2.13 0.00 0.00 3.71
4 5 6.975772 GCGAGTATTCATATGGGTAGATTCTC 59.024 42.308 2.13 2.83 0.00 2.87
6 7 6.043411 GGCGAGTATTCATATGGGTAGATTC 58.957 44.000 2.13 0.00 0.00 2.52
7 8 5.721960 AGGCGAGTATTCATATGGGTAGATT 59.278 40.000 2.13 0.00 0.00 2.40
8 9 5.273208 AGGCGAGTATTCATATGGGTAGAT 58.727 41.667 2.13 0.00 0.00 1.98
9 10 4.673968 AGGCGAGTATTCATATGGGTAGA 58.326 43.478 2.13 0.00 0.00 2.59
11 12 3.767673 GGAGGCGAGTATTCATATGGGTA 59.232 47.826 2.13 0.00 0.00 3.69
12 13 2.567615 GGAGGCGAGTATTCATATGGGT 59.432 50.000 2.13 0.00 0.00 4.51
13 14 2.567169 TGGAGGCGAGTATTCATATGGG 59.433 50.000 2.13 0.00 0.00 4.00
14 15 3.961480 TGGAGGCGAGTATTCATATGG 57.039 47.619 2.13 0.00 0.00 2.74
15 16 4.081476 TCCATGGAGGCGAGTATTCATATG 60.081 45.833 11.44 0.00 37.29 1.78
18 19 2.037772 GTCCATGGAGGCGAGTATTCAT 59.962 50.000 16.81 0.00 37.29 2.57
20 21 1.412710 TGTCCATGGAGGCGAGTATTC 59.587 52.381 16.81 0.00 37.29 1.75
21 22 1.496060 TGTCCATGGAGGCGAGTATT 58.504 50.000 16.81 0.00 37.29 1.89
22 23 1.414181 CTTGTCCATGGAGGCGAGTAT 59.586 52.381 16.81 0.00 37.29 2.12
24 25 0.904865 TCTTGTCCATGGAGGCGAGT 60.905 55.000 16.81 0.00 37.29 4.18
25 26 0.460987 GTCTTGTCCATGGAGGCGAG 60.461 60.000 16.81 13.71 37.29 5.03
26 27 1.191489 TGTCTTGTCCATGGAGGCGA 61.191 55.000 16.81 8.70 37.29 5.54
27 28 0.321564 TTGTCTTGTCCATGGAGGCG 60.322 55.000 16.81 6.21 37.29 5.52
28 29 1.541588 GTTTGTCTTGTCCATGGAGGC 59.458 52.381 16.81 5.83 37.29 4.70
29 30 3.077359 GAGTTTGTCTTGTCCATGGAGG 58.923 50.000 16.81 8.81 39.47 4.30
30 31 2.738846 CGAGTTTGTCTTGTCCATGGAG 59.261 50.000 16.81 3.53 0.00 3.86
33 34 1.872952 TGCGAGTTTGTCTTGTCCATG 59.127 47.619 0.00 0.00 0.00 3.66
34 35 2.146342 CTGCGAGTTTGTCTTGTCCAT 58.854 47.619 0.00 0.00 0.00 3.41
35 36 1.134521 ACTGCGAGTTTGTCTTGTCCA 60.135 47.619 0.00 0.00 0.00 4.02
36 37 1.583054 ACTGCGAGTTTGTCTTGTCC 58.417 50.000 0.00 0.00 0.00 4.02
37 38 2.351726 ACAACTGCGAGTTTGTCTTGTC 59.648 45.455 0.00 0.00 36.03 3.18
38 39 2.095853 CACAACTGCGAGTTTGTCTTGT 59.904 45.455 0.00 0.00 36.03 3.16
39 40 2.708514 CACAACTGCGAGTTTGTCTTG 58.291 47.619 0.00 0.00 36.03 3.02
41 42 0.657840 GCACAACTGCGAGTTTGTCT 59.342 50.000 0.00 0.00 36.03 3.41
42 43 3.148823 GCACAACTGCGAGTTTGTC 57.851 52.632 0.00 0.00 36.03 3.18
61 62 4.325972 GGGTGGAATGCACAAAATGATTT 58.674 39.130 7.29 0.00 0.00 2.17
62 63 3.307621 GGGGTGGAATGCACAAAATGATT 60.308 43.478 7.29 0.00 0.00 2.57
63 64 2.236893 GGGGTGGAATGCACAAAATGAT 59.763 45.455 7.29 0.00 0.00 2.45
64 65 1.622811 GGGGTGGAATGCACAAAATGA 59.377 47.619 7.29 0.00 0.00 2.57
65 66 1.624813 AGGGGTGGAATGCACAAAATG 59.375 47.619 7.29 0.00 0.00 2.32
66 67 2.028561 AGGGGTGGAATGCACAAAAT 57.971 45.000 7.29 0.00 0.00 1.82
67 68 1.415659 CAAGGGGTGGAATGCACAAAA 59.584 47.619 7.29 0.00 0.00 2.44
68 69 1.047002 CAAGGGGTGGAATGCACAAA 58.953 50.000 7.29 0.00 0.00 2.83
69 70 1.470996 GCAAGGGGTGGAATGCACAA 61.471 55.000 7.29 0.00 0.00 3.33
70 71 1.907807 GCAAGGGGTGGAATGCACA 60.908 57.895 7.29 0.00 0.00 4.57
71 72 1.907807 TGCAAGGGGTGGAATGCAC 60.908 57.895 0.00 0.00 0.00 4.57
73 74 2.973082 GTGCAAGGGGTGGAATGC 59.027 61.111 0.00 0.00 0.00 3.56
74 75 2.993471 GCGTGCAAGGGGTGGAATG 61.993 63.158 0.79 0.00 0.00 2.67
78 79 2.990967 AATGCGTGCAAGGGGTGG 60.991 61.111 0.79 0.00 0.00 4.61
79 80 2.259204 CAATGCGTGCAAGGGGTG 59.741 61.111 0.79 0.00 0.00 4.61
91 92 1.632422 GTTGTATGTGGCTGCAATGC 58.368 50.000 0.00 0.00 0.00 3.56
163 164 8.632906 AAATCATTTAAGGATGCTCTATGGAG 57.367 34.615 0.86 0.86 42.18 3.86
164 165 8.853126 CAAAATCATTTAAGGATGCTCTATGGA 58.147 33.333 0.00 0.00 0.00 3.41
166 167 9.674824 GTCAAAATCATTTAAGGATGCTCTATG 57.325 33.333 0.00 0.00 0.00 2.23
167 168 9.638176 AGTCAAAATCATTTAAGGATGCTCTAT 57.362 29.630 0.00 0.00 0.00 1.98
169 170 7.613022 TCAGTCAAAATCATTTAAGGATGCTCT 59.387 33.333 0.00 0.00 0.00 4.09
170 171 7.765307 TCAGTCAAAATCATTTAAGGATGCTC 58.235 34.615 0.00 0.00 0.00 4.26
171 172 7.707624 TCAGTCAAAATCATTTAAGGATGCT 57.292 32.000 0.00 0.00 0.00 3.79
172 173 8.761575 TTTCAGTCAAAATCATTTAAGGATGC 57.238 30.769 0.00 0.00 0.00 3.91
176 177 8.938906 CCCAATTTCAGTCAAAATCATTTAAGG 58.061 33.333 0.00 0.00 0.00 2.69
177 178 8.938906 CCCCAATTTCAGTCAAAATCATTTAAG 58.061 33.333 0.00 0.00 0.00 1.85
178 179 8.654997 TCCCCAATTTCAGTCAAAATCATTTAA 58.345 29.630 0.00 0.00 0.00 1.52
190 191 4.646492 AGCATACAATCCCCAATTTCAGTC 59.354 41.667 0.00 0.00 0.00 3.51
238 239 0.179084 CCGGCGAGGATCTTAAAGCA 60.179 55.000 9.30 0.00 45.00 3.91
254 256 1.366111 CCAATGAAGGTACGTGCCGG 61.366 60.000 17.44 7.33 0.00 6.13
257 259 0.802494 CCACCAATGAAGGTACGTGC 59.198 55.000 0.00 0.00 40.77 5.34
258 260 0.802494 GCCACCAATGAAGGTACGTG 59.198 55.000 0.00 0.00 40.77 4.49
260 262 0.322098 TGGCCACCAATGAAGGTACG 60.322 55.000 0.00 0.00 40.77 3.67
261 263 1.173913 GTGGCCACCAATGAAGGTAC 58.826 55.000 26.31 0.00 40.77 3.34
272 274 4.626081 ACTCGCAGTGTGGCCACC 62.626 66.667 32.62 22.81 42.88 4.61
303 305 2.125912 CTTCCTCGTCGCCACCAG 60.126 66.667 0.00 0.00 0.00 4.00
318 320 0.196118 TCCCTCCACTTTCCCCTCTT 59.804 55.000 0.00 0.00 0.00 2.85
349 351 1.408453 GGGAGGCGTAACCCTAGCAT 61.408 60.000 0.00 0.00 42.56 3.79
350 352 2.062177 GGGAGGCGTAACCCTAGCA 61.062 63.158 0.00 0.00 42.56 3.49
363 365 3.077556 CAGGGGTGACTCGGGAGG 61.078 72.222 0.00 0.00 34.16 4.30
388 390 2.610859 ACACTCGGCCCCCTCATT 60.611 61.111 0.00 0.00 0.00 2.57
392 394 3.953775 CAACACACTCGGCCCCCT 61.954 66.667 0.00 0.00 0.00 4.79
409 414 3.429135 CGAGCAGTCTAAAGGTAAGGGTC 60.429 52.174 0.00 0.00 0.00 4.46
422 427 0.392193 CCATGGAAAGCGAGCAGTCT 60.392 55.000 5.56 0.00 0.00 3.24
441 446 0.329596 AGAGATGAAACCAGGGGCAC 59.670 55.000 0.00 0.00 0.00 5.01
453 458 9.106070 CATCAGTGACAATCAAATAAGAGATGA 57.894 33.333 0.00 0.00 30.98 2.92
684 689 0.815734 ACGAGGAATGGTACGTGGAG 59.184 55.000 0.00 0.00 37.58 3.86
706 711 4.595538 ACGTGTTTCCGAGCGCCA 62.596 61.111 2.29 0.00 0.00 5.69
709 714 4.117372 GCGACGTGTTTCCGAGCG 62.117 66.667 0.00 0.00 34.32 5.03
834 840 2.255554 GTCTCACTGACAGCGCGA 59.744 61.111 12.10 0.00 44.73 5.87
935 941 2.165234 GTGTACCTAACTCCGAACCTCC 59.835 54.545 0.00 0.00 0.00 4.30
985 992 2.032634 CCATCGTCACCACCAACGG 61.033 63.158 0.00 0.00 39.31 4.44
986 993 2.677003 GCCATCGTCACCACCAACG 61.677 63.158 0.00 0.00 40.17 4.10
987 994 2.677003 CGCCATCGTCACCACCAAC 61.677 63.158 0.00 0.00 0.00 3.77
989 996 4.386951 CCGCCATCGTCACCACCA 62.387 66.667 0.00 0.00 0.00 4.17
1062 1069 4.436998 AAGAAGACCTCGCCGGCG 62.437 66.667 42.13 42.13 41.35 6.46
1064 1071 2.184579 GGAAGAAGACCTCGCCGG 59.815 66.667 0.00 0.00 39.35 6.13
1066 1073 1.219393 CCTGGAAGAAGACCTCGCC 59.781 63.158 0.00 0.00 34.07 5.54
1068 1075 1.840737 TCTCCTGGAAGAAGACCTCG 58.159 55.000 0.00 0.00 34.07 4.63
1078 1085 0.601558 CCGTCGAACTTCTCCTGGAA 59.398 55.000 0.00 0.00 0.00 3.53
1080 1087 0.388649 CACCGTCGAACTTCTCCTGG 60.389 60.000 0.00 0.00 0.00 4.45
1086 1093 3.857909 GGCTCACCGTCGAACTTC 58.142 61.111 0.00 0.00 0.00 3.01
1107 1114 2.945668 GGTTTGGAATCTGGATCCGAAG 59.054 50.000 7.39 0.00 40.27 3.79
1108 1115 2.356741 GGGTTTGGAATCTGGATCCGAA 60.357 50.000 7.39 0.00 39.98 4.30
1109 1116 1.211949 GGGTTTGGAATCTGGATCCGA 59.788 52.381 7.39 7.99 39.98 4.55
1110 1117 1.680338 GGGTTTGGAATCTGGATCCG 58.320 55.000 7.39 2.06 39.98 4.18
1111 1118 1.411644 GGGGGTTTGGAATCTGGATCC 60.412 57.143 4.20 4.20 37.48 3.36
1129 1136 1.894756 CGCTACGAGAGAGGAGGGG 60.895 68.421 0.00 0.00 0.00 4.79
1130 1137 3.739167 CGCTACGAGAGAGGAGGG 58.261 66.667 0.00 0.00 0.00 4.30
1134 1141 3.955101 CGCCCGCTACGAGAGAGG 61.955 72.222 0.00 0.00 44.49 3.69
1135 1142 3.203412 ACGCCCGCTACGAGAGAG 61.203 66.667 0.00 0.00 0.00 3.20
1136 1143 3.506096 CACGCCCGCTACGAGAGA 61.506 66.667 0.00 0.00 0.00 3.10
1139 1347 1.985447 TAGAACACGCCCGCTACGAG 61.985 60.000 0.00 0.00 0.00 4.18
1147 1355 0.824759 ACTGGATCTAGAACACGCCC 59.175 55.000 13.73 0.00 0.00 6.13
1400 1613 4.572389 GCCGATCATAACAGAACAGAACAT 59.428 41.667 0.00 0.00 0.00 2.71
1415 1628 2.666190 CCATTCGCCGCCGATCAT 60.666 61.111 0.00 0.00 43.97 2.45
1443 1656 0.537143 ATGCCTGCGGAAACAGAACA 60.537 50.000 0.00 0.00 40.25 3.18
1445 1658 0.960364 GGATGCCTGCGGAAACAGAA 60.960 55.000 0.00 0.00 40.25 3.02
1478 1691 3.004419 CCGAGATGGCGTAGAATCTGTAA 59.996 47.826 0.00 0.00 33.56 2.41
1670 1883 2.989422 GGAGACGGGTTGAACAATTG 57.011 50.000 3.24 3.24 0.00 2.32
1916 2691 2.610479 GGACTGCTTCTCGACATTGTCA 60.610 50.000 16.61 3.66 32.09 3.58
1922 2697 2.962569 CCGGACTGCTTCTCGACA 59.037 61.111 0.00 0.00 0.00 4.35
1950 2725 2.240667 CAGGAAGGATGTCCCAGTCATT 59.759 50.000 0.00 0.00 38.59 2.57
1993 2768 1.202806 TGAACCTCACCTTCTTGGCAG 60.203 52.381 0.00 0.00 40.22 4.85
2073 2850 9.647918 TCACCCAATGTTATATTAATGGCTTTA 57.352 29.630 0.00 0.00 0.00 1.85
2074 2851 8.546083 TCACCCAATGTTATATTAATGGCTTT 57.454 30.769 0.00 0.00 0.00 3.51
2075 2852 8.587608 CATCACCCAATGTTATATTAATGGCTT 58.412 33.333 0.00 0.00 0.00 4.35
2095 2872 0.889994 TGGCTGCAACAATCATCACC 59.110 50.000 0.50 0.00 0.00 4.02
2099 2876 1.005097 TCCTCTGGCTGCAACAATCAT 59.995 47.619 0.50 0.00 0.00 2.45
2104 2881 1.071987 CAGTCCTCTGGCTGCAACA 59.928 57.895 0.50 0.00 37.97 3.33
2209 2991 7.028962 GCAAATCAATACTCATGCTACAACAA 58.971 34.615 0.00 0.00 0.00 2.83
2260 3045 9.712359 CACAACACAGAATATGATGAATAGTTG 57.288 33.333 0.00 0.00 0.00 3.16
2265 3050 7.825761 TGAGACACAACACAGAATATGATGAAT 59.174 33.333 0.00 0.00 0.00 2.57
2295 3080 2.000447 GGACACTTTGCATCGGTAGAC 59.000 52.381 0.00 0.00 0.00 2.59
2301 3086 5.733226 TGTATAATGGACACTTTGCATCG 57.267 39.130 0.00 0.00 34.61 3.84
2320 3105 5.555966 TCATGTTGTGCAGTTAGGATTGTA 58.444 37.500 0.00 0.00 0.00 2.41
2379 3166 2.232941 CACCAGAGGCAAAGCATCAAAT 59.767 45.455 6.43 0.00 42.11 2.32
2397 3184 0.036858 GAGTCAGACAGGAAGCCACC 60.037 60.000 2.66 0.00 0.00 4.61
2402 3189 6.036953 GCAAATAATCTGAGTCAGACAGGAAG 59.963 42.308 24.93 14.38 43.63 3.46
2422 3209 3.668141 TGTCATCATACCCCTGCAAAT 57.332 42.857 0.00 0.00 0.00 2.32
2531 3318 4.696877 TGACCAATGTGAGAAACTGCATAG 59.303 41.667 0.00 0.00 0.00 2.23
2690 3479 6.210784 ACATTGCTACCTGTCTAGAACAAGTA 59.789 38.462 0.00 0.00 37.45 2.24
2692 3481 5.349817 CACATTGCTACCTGTCTAGAACAAG 59.650 44.000 0.00 0.00 37.45 3.16
2815 3609 0.821711 TGTACAACAGTGGGCAAGCC 60.822 55.000 1.52 1.52 0.00 4.35
2987 3782 1.133945 TGAAGCACTAACCTGCCACAA 60.134 47.619 0.00 0.00 37.96 3.33
3082 3877 2.568062 TGATTTAACCTAGTGCCGGTCA 59.432 45.455 1.90 0.00 32.46 4.02
3115 3910 4.223477 TCATCAGTGATCAGGATGTTGTCA 59.777 41.667 25.34 11.71 39.47 3.58
3162 3957 3.498961 TTGCCCCAGGTCTCCTCCA 62.499 63.158 0.00 0.00 0.00 3.86
3324 4119 2.571202 CCTCCTCAAGCCTCTTCTTCTT 59.429 50.000 0.00 0.00 0.00 2.52
3366 4161 5.671493 AGCGTAGAAGGCAGTATAACAAAT 58.329 37.500 0.00 0.00 0.00 2.32
3526 4321 6.287107 AGTTTTGTGTTAAGATGAGACACG 57.713 37.500 0.00 0.00 44.95 4.49
3596 4391 1.066573 CCTTGTTCTCCTCATCGCTGT 60.067 52.381 0.00 0.00 0.00 4.40
3699 4657 2.173126 AGATACAGAGCCTTCCTGCT 57.827 50.000 0.00 0.00 46.37 4.24
3705 4663 6.012421 AGGAAAAAGGTTAGATACAGAGCCTT 60.012 38.462 0.00 0.00 37.88 4.35
3721 4679 6.890979 ATGTTCTTCTCAAGAGGAAAAAGG 57.109 37.500 6.19 0.00 40.95 3.11
3750 4736 6.974932 TGCATTACTTCTCTCATCTTTCAC 57.025 37.500 0.00 0.00 0.00 3.18
3825 4818 4.022416 GCACCGAGAGAGATTCATGACTAT 60.022 45.833 0.00 0.00 0.00 2.12
3839 4836 2.279120 GCGATGAGGCACCGAGAG 60.279 66.667 0.00 0.00 0.00 3.20
3866 4863 2.429930 CTCCAACCGGTTGCTCCA 59.570 61.111 36.83 20.50 39.16 3.86
3962 5042 8.265055 TCCTGTTTCTCTCAAAAAGTTCTTCTA 58.735 33.333 0.00 0.00 0.00 2.10
3964 5044 7.190191 GTCCTGTTTCTCTCAAAAAGTTCTTC 58.810 38.462 0.00 0.00 0.00 2.87
3965 5045 6.095580 GGTCCTGTTTCTCTCAAAAAGTTCTT 59.904 38.462 0.00 0.00 0.00 2.52
3967 5047 5.221067 GGGTCCTGTTTCTCTCAAAAAGTTC 60.221 44.000 0.00 0.00 0.00 3.01
3973 5075 2.131854 TGGGGTCCTGTTTCTCTCAAA 58.868 47.619 0.00 0.00 0.00 2.69
4008 5111 2.862541 TGAACCTATTGTGCTGCAAGT 58.137 42.857 2.77 0.00 40.86 3.16
4032 5135 1.079127 CTCGGGCCGTTGATGAGTT 60.079 57.895 27.32 0.00 0.00 3.01
4050 5153 4.067896 TGAGACTCTTGCTTCCATCAAAC 58.932 43.478 3.68 0.00 0.00 2.93
4062 5165 2.856222 AGGGCTTGTTTGAGACTCTTG 58.144 47.619 3.68 0.00 0.00 3.02
4084 5187 4.164822 ACGAGGCAAAAACATTGATGAG 57.835 40.909 0.00 0.00 0.00 2.90
4085 5188 4.582701 AACGAGGCAAAAACATTGATGA 57.417 36.364 0.00 0.00 0.00 2.92
4086 5189 5.655893 AAAACGAGGCAAAAACATTGATG 57.344 34.783 0.00 0.00 0.00 3.07
4087 5190 6.744112 TCTAAAACGAGGCAAAAACATTGAT 58.256 32.000 0.00 0.00 0.00 2.57
4088 5191 6.137794 TCTAAAACGAGGCAAAAACATTGA 57.862 33.333 0.00 0.00 0.00 2.57
4089 5192 6.820470 TTCTAAAACGAGGCAAAAACATTG 57.180 33.333 0.00 0.00 0.00 2.82
4168 5295 5.046878 TCAGAAAACTACGACATACATGGGT 60.047 40.000 0.00 0.00 0.00 4.51
4172 5299 5.109903 GGCTCAGAAAACTACGACATACAT 58.890 41.667 0.00 0.00 0.00 2.29
4193 5323 1.575576 CTGAGCTGCAGTGTCTTGGC 61.576 60.000 16.64 0.00 39.85 4.52
4241 5394 9.944376 ATCAACATTTCTACTGTAGTTGTACAT 57.056 29.630 14.11 9.15 38.51 2.29
4270 5441 7.540474 TCAAGACAGGTAGTGTTTATCTTCT 57.460 36.000 0.00 0.00 40.56 2.85
4292 5463 1.485124 TCGAAGAGGCTGGCTATTCA 58.515 50.000 29.73 18.15 0.00 2.57
4393 5591 5.734855 TCAGTTGCAAGAAAACAGTACTC 57.265 39.130 0.00 0.00 0.00 2.59
4502 5710 2.399356 GCCTTAGCACTGGAACGGC 61.399 63.158 0.00 0.00 39.14 5.68
4624 5835 4.742438 TGACAAGAATTAAGGCACGAAC 57.258 40.909 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.