Multiple sequence alignment - TraesCS2D01G446100

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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 TraesCS2D01G446100 chr2D 100.000 3083 0 0 1 3083 556364493 556367575 0.000000e+00 5694.0
1 TraesCS2D01G446100 chr2D 89.969 2552 158 52 589 3083 556618721 556621231 0.000000e+00 3205.0
2 TraesCS2D01G446100 chr2D 88.246 2127 135 50 176 2248 556407228 556409293 0.000000e+00 2436.0
3 TraesCS2D01G446100 chr2D 94.797 1134 48 5 1952 3083 556333871 556334995 0.000000e+00 1757.0
4 TraesCS2D01G446100 chr2D 81.024 1602 173 60 736 2236 556266961 556268532 0.000000e+00 1153.0
5 TraesCS2D01G446100 chr2D 94.236 746 36 2 2245 2989 556411563 556412302 0.000000e+00 1133.0
6 TraesCS2D01G446100 chr2D 91.593 797 48 10 999 1779 556642397 556643190 0.000000e+00 1083.0
7 TraesCS2D01G446100 chr2D 80.503 995 94 53 526 1501 556317994 556318907 0.000000e+00 671.0
8 TraesCS2D01G446100 chr2D 88.632 475 32 10 1496 1948 556333284 556333758 2.690000e-155 558.0
9 TraesCS2D01G446100 chr2D 78.423 964 105 53 1369 2236 556339276 556340232 1.630000e-147 532.0
10 TraesCS2D01G446100 chr2D 93.814 97 6 0 2987 3083 556421605 556421701 2.480000e-31 147.0
11 TraesCS2D01G446100 chr2D 74.942 431 45 25 186 576 556349817 556350224 4.150000e-29 139.0
12 TraesCS2D01G446100 chr2D 80.337 178 26 7 429 603 556265743 556265914 3.230000e-25 126.0
13 TraesCS2D01G446100 chr2A 94.195 2136 85 21 968 3083 696219181 696221297 0.000000e+00 3221.0
14 TraesCS2D01G446100 chr2A 89.077 1300 105 16 1540 2818 696307659 696308942 0.000000e+00 1580.0
15 TraesCS2D01G446100 chr2A 83.519 1705 163 51 634 2236 695998749 696000437 0.000000e+00 1483.0
16 TraesCS2D01G446100 chr2A 82.062 1678 159 82 671 2268 696040132 696041747 0.000000e+00 1301.0
17 TraesCS2D01G446100 chr2A 95.352 753 31 3 176 928 696218436 696219184 0.000000e+00 1194.0
18 TraesCS2D01G446100 chr2A 88.972 798 67 12 999 1783 696315608 696316397 0.000000e+00 966.0
19 TraesCS2D01G446100 chr2A 88.315 813 65 20 988 1779 696825229 696826032 0.000000e+00 948.0
20 TraesCS2D01G446100 chr2A 85.366 779 76 29 837 1589 696306870 696307636 0.000000e+00 773.0
21 TraesCS2D01G446100 chr2A 85.417 672 52 16 176 831 696286925 696287566 0.000000e+00 656.0
22 TraesCS2D01G446100 chr2A 85.311 177 25 1 2 178 635135143 635135318 6.790000e-42 182.0
23 TraesCS2D01G446100 chr2A 84.444 180 23 5 2 178 663638225 663638048 4.090000e-39 172.0
24 TraesCS2D01G446100 chr2A 81.481 108 9 8 2137 2234 696826522 696826628 9.170000e-11 78.7
25 TraesCS2D01G446100 chr2B 87.861 1697 147 37 703 2367 663885723 663887392 0.000000e+00 1938.0
26 TraesCS2D01G446100 chr2B 81.314 1750 167 71 634 2268 663828605 663830309 0.000000e+00 1273.0
27 TraesCS2D01G446100 chr2B 90.416 793 59 12 999 1779 663898756 663899543 0.000000e+00 1027.0
28 TraesCS2D01G446100 chr2B 89.977 429 13 10 176 604 663885284 663885682 7.570000e-146 527.0
29 TraesCS2D01G446100 chr2B 85.484 434 43 8 2439 2870 663887609 663888024 4.720000e-118 435.0
30 TraesCS2D01G446100 chr2B 90.698 86 8 0 2998 3083 663892710 663892795 6.990000e-22 115.0
31 TraesCS2D01G446100 chr2B 75.486 257 46 14 184 430 663835107 663835356 3.250000e-20 110.0
32 TraesCS2D01G446100 chr2B 86.364 88 6 5 520 607 663837568 663837649 1.180000e-14 91.6
33 TraesCS2D01G446100 chr2B 94.915 59 1 1 2386 2442 663887439 663887497 1.180000e-14 91.6
34 TraesCS2D01G446100 chr2B 79.856 139 14 7 2137 2262 663900032 663900169 4.230000e-14 89.8
35 TraesCS2D01G446100 chr5A 90.449 178 17 0 1 178 546570299 546570122 5.140000e-58 235.0
36 TraesCS2D01G446100 chr7D 87.079 178 21 2 2 178 5632865 5632689 1.870000e-47 200.0
37 TraesCS2D01G446100 chr1A 84.831 178 23 4 4 178 510675397 510675573 3.160000e-40 176.0
38 TraesCS2D01G446100 chr5D 83.333 180 24 5 2 177 414227296 414227473 8.850000e-36 161.0
39 TraesCS2D01G446100 chr4B 80.220 182 29 7 2 178 428438020 428438199 2.490000e-26 130.0
40 TraesCS2D01G446100 chr1D 92.424 66 5 0 113 178 10160771 10160706 9.100000e-16 95.3


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G446100 chr2D 556364493 556367575 3082 False 5694.00 5694 100.00000 1 3083 1 chr2D.!!$F4 3082
1 TraesCS2D01G446100 chr2D 556618721 556621231 2510 False 3205.00 3205 89.96900 589 3083 1 chr2D.!!$F6 2494
2 TraesCS2D01G446100 chr2D 556407228 556412302 5074 False 1784.50 2436 91.24100 176 2989 2 chr2D.!!$F10 2813
3 TraesCS2D01G446100 chr2D 556333284 556334995 1711 False 1157.50 1757 91.71450 1496 3083 2 chr2D.!!$F9 1587
4 TraesCS2D01G446100 chr2D 556642397 556643190 793 False 1083.00 1083 91.59300 999 1779 1 chr2D.!!$F7 780
5 TraesCS2D01G446100 chr2D 556317994 556318907 913 False 671.00 671 80.50300 526 1501 1 chr2D.!!$F1 975
6 TraesCS2D01G446100 chr2D 556265743 556268532 2789 False 639.50 1153 80.68050 429 2236 2 chr2D.!!$F8 1807
7 TraesCS2D01G446100 chr2D 556339276 556340232 956 False 532.00 532 78.42300 1369 2236 1 chr2D.!!$F2 867
8 TraesCS2D01G446100 chr2A 696218436 696221297 2861 False 2207.50 3221 94.77350 176 3083 2 chr2A.!!$F6 2907
9 TraesCS2D01G446100 chr2A 695998749 696000437 1688 False 1483.00 1483 83.51900 634 2236 1 chr2A.!!$F2 1602
10 TraesCS2D01G446100 chr2A 696040132 696041747 1615 False 1301.00 1301 82.06200 671 2268 1 chr2A.!!$F3 1597
11 TraesCS2D01G446100 chr2A 696306870 696308942 2072 False 1176.50 1580 87.22150 837 2818 2 chr2A.!!$F7 1981
12 TraesCS2D01G446100 chr2A 696315608 696316397 789 False 966.00 966 88.97200 999 1783 1 chr2A.!!$F5 784
13 TraesCS2D01G446100 chr2A 696286925 696287566 641 False 656.00 656 85.41700 176 831 1 chr2A.!!$F4 655
14 TraesCS2D01G446100 chr2A 696825229 696826628 1399 False 513.35 948 84.89800 988 2234 2 chr2A.!!$F8 1246
15 TraesCS2D01G446100 chr2B 663828605 663830309 1704 False 1273.00 1273 81.31400 634 2268 1 chr2B.!!$F1 1634
16 TraesCS2D01G446100 chr2B 663885284 663888024 2740 False 747.90 1938 89.55925 176 2870 4 chr2B.!!$F4 2694
17 TraesCS2D01G446100 chr2B 663898756 663900169 1413 False 558.40 1027 85.13600 999 2262 2 chr2B.!!$F5 1263

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
73 74 0.030235 AACGAGAAAAACAAGGGCGC 59.970 50.0 0.0 0.0 0.0 6.53 F
834 1819 0.036952 CGTGCCCTGTCAATCTGTCT 60.037 55.0 0.0 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1388 2515 0.441533 GCATGTCAGTGTCGCTTCAG 59.558 55.0 0.00 0.0 0.00 3.02 R
2272 6084 0.459585 TAGATGGTCCTCGCGTTTGC 60.460 55.0 5.77 0.0 37.91 3.68 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 7.426929 AAGTGATTGTTACACAAGTGATCTC 57.573 36.000 7.28 0.88 41.94 2.75
25 26 5.635280 AGTGATTGTTACACAAGTGATCTCG 59.365 40.000 7.28 0.00 41.94 4.04
26 27 5.405571 GTGATTGTTACACAAGTGATCTCGT 59.594 40.000 7.28 0.00 41.94 4.18
27 28 6.584942 GTGATTGTTACACAAGTGATCTCGTA 59.415 38.462 7.28 0.00 41.94 3.43
28 29 7.115805 GTGATTGTTACACAAGTGATCTCGTAA 59.884 37.037 7.28 0.00 41.94 3.18
29 30 7.328493 TGATTGTTACACAAGTGATCTCGTAAG 59.672 37.037 7.28 0.00 41.94 2.34
30 31 4.921515 TGTTACACAAGTGATCTCGTAAGC 59.078 41.667 7.28 0.00 37.18 3.09
31 32 3.660501 ACACAAGTGATCTCGTAAGCA 57.339 42.857 7.28 0.00 37.18 3.91
32 33 3.318017 ACACAAGTGATCTCGTAAGCAC 58.682 45.455 7.28 0.93 37.18 4.40
33 34 3.243737 ACACAAGTGATCTCGTAAGCACA 60.244 43.478 7.28 0.00 33.85 4.57
34 35 3.928992 CACAAGTGATCTCGTAAGCACAT 59.071 43.478 9.98 0.00 33.85 3.21
35 36 3.928992 ACAAGTGATCTCGTAAGCACATG 59.071 43.478 9.98 10.13 36.40 3.21
36 37 2.544685 AGTGATCTCGTAAGCACATGC 58.455 47.619 9.98 0.00 42.49 4.06
37 38 2.094026 AGTGATCTCGTAAGCACATGCA 60.094 45.455 6.64 0.00 45.16 3.96
38 39 2.029728 GTGATCTCGTAAGCACATGCAC 59.970 50.000 6.64 0.00 45.16 4.57
39 40 2.270923 GATCTCGTAAGCACATGCACA 58.729 47.619 6.64 0.00 45.16 4.57
40 41 2.162319 TCTCGTAAGCACATGCACAA 57.838 45.000 6.64 0.00 45.16 3.33
41 42 2.488952 TCTCGTAAGCACATGCACAAA 58.511 42.857 6.64 0.00 45.16 2.83
42 43 2.875317 TCTCGTAAGCACATGCACAAAA 59.125 40.909 6.64 0.00 45.16 2.44
43 44 3.058983 TCTCGTAAGCACATGCACAAAAG 60.059 43.478 6.64 0.00 45.16 2.27
44 45 2.875317 TCGTAAGCACATGCACAAAAGA 59.125 40.909 6.64 0.00 45.16 2.52
45 46 3.058983 TCGTAAGCACATGCACAAAAGAG 60.059 43.478 6.64 0.00 45.16 2.85
46 47 3.058983 CGTAAGCACATGCACAAAAGAGA 60.059 43.478 6.64 0.00 45.16 3.10
47 48 4.378770 CGTAAGCACATGCACAAAAGAGAT 60.379 41.667 6.64 0.00 45.16 2.75
48 49 3.570926 AGCACATGCACAAAAGAGATG 57.429 42.857 6.64 0.00 45.16 2.90
49 50 2.230508 AGCACATGCACAAAAGAGATGG 59.769 45.455 6.64 0.00 45.16 3.51
50 51 2.029649 GCACATGCACAAAAGAGATGGT 60.030 45.455 0.00 0.00 41.59 3.55
51 52 3.571571 CACATGCACAAAAGAGATGGTG 58.428 45.455 0.00 0.00 0.00 4.17
52 53 3.005050 CACATGCACAAAAGAGATGGTGT 59.995 43.478 0.00 0.00 33.88 4.16
53 54 4.216042 CACATGCACAAAAGAGATGGTGTA 59.784 41.667 0.00 0.00 33.88 2.90
54 55 4.826733 ACATGCACAAAAGAGATGGTGTAA 59.173 37.500 0.00 0.00 33.88 2.41
55 56 5.301551 ACATGCACAAAAGAGATGGTGTAAA 59.698 36.000 0.00 0.00 33.88 2.01
56 57 5.181690 TGCACAAAAGAGATGGTGTAAAC 57.818 39.130 0.00 0.00 33.88 2.01
57 58 4.219033 GCACAAAAGAGATGGTGTAAACG 58.781 43.478 0.00 0.00 33.88 3.60
58 59 4.024387 GCACAAAAGAGATGGTGTAAACGA 60.024 41.667 0.00 0.00 33.88 3.85
59 60 5.679906 CACAAAAGAGATGGTGTAAACGAG 58.320 41.667 0.00 0.00 0.00 4.18
60 61 5.465390 CACAAAAGAGATGGTGTAAACGAGA 59.535 40.000 0.00 0.00 0.00 4.04
61 62 6.018262 CACAAAAGAGATGGTGTAAACGAGAA 60.018 38.462 0.00 0.00 0.00 2.87
62 63 6.540914 ACAAAAGAGATGGTGTAAACGAGAAA 59.459 34.615 0.00 0.00 0.00 2.52
63 64 7.066525 ACAAAAGAGATGGTGTAAACGAGAAAA 59.933 33.333 0.00 0.00 0.00 2.29
64 65 7.562454 AAAGAGATGGTGTAAACGAGAAAAA 57.438 32.000 0.00 0.00 0.00 1.94
65 66 6.541111 AGAGATGGTGTAAACGAGAAAAAC 57.459 37.500 0.00 0.00 0.00 2.43
66 67 6.053005 AGAGATGGTGTAAACGAGAAAAACA 58.947 36.000 0.00 0.00 0.00 2.83
67 68 6.540914 AGAGATGGTGTAAACGAGAAAAACAA 59.459 34.615 0.00 0.00 0.00 2.83
68 69 6.725246 AGATGGTGTAAACGAGAAAAACAAG 58.275 36.000 0.00 0.00 0.00 3.16
69 70 5.238006 TGGTGTAAACGAGAAAAACAAGG 57.762 39.130 0.00 0.00 0.00 3.61
70 71 4.096682 TGGTGTAAACGAGAAAAACAAGGG 59.903 41.667 0.00 0.00 0.00 3.95
71 72 4.039703 GTGTAAACGAGAAAAACAAGGGC 58.960 43.478 0.00 0.00 0.00 5.19
72 73 2.485266 AAACGAGAAAAACAAGGGCG 57.515 45.000 0.00 0.00 0.00 6.13
73 74 0.030235 AACGAGAAAAACAAGGGCGC 59.970 50.000 0.00 0.00 0.00 6.53
74 75 1.098712 ACGAGAAAAACAAGGGCGCA 61.099 50.000 10.83 0.00 0.00 6.09
75 76 0.385974 CGAGAAAAACAAGGGCGCAG 60.386 55.000 10.83 0.00 0.00 5.18
103 104 2.126618 CGCGCGACCTGAACAGTA 60.127 61.111 28.94 0.00 0.00 2.74
104 105 2.434134 CGCGCGACCTGAACAGTAC 61.434 63.158 28.94 0.00 0.00 2.73
105 106 1.372499 GCGCGACCTGAACAGTACA 60.372 57.895 12.10 0.00 0.00 2.90
106 107 1.615107 GCGCGACCTGAACAGTACAC 61.615 60.000 12.10 0.00 0.00 2.90
107 108 0.318360 CGCGACCTGAACAGTACACA 60.318 55.000 0.00 0.00 0.00 3.72
108 109 1.137513 GCGACCTGAACAGTACACAC 58.862 55.000 0.00 0.00 0.00 3.82
109 110 1.269621 GCGACCTGAACAGTACACACT 60.270 52.381 0.00 0.00 34.42 3.55
110 111 2.030540 GCGACCTGAACAGTACACACTA 60.031 50.000 0.00 0.00 32.21 2.74
111 112 3.562505 CGACCTGAACAGTACACACTAC 58.437 50.000 0.00 0.00 32.21 2.73
112 113 3.562505 GACCTGAACAGTACACACTACG 58.437 50.000 0.00 0.00 32.21 3.51
113 114 2.954318 ACCTGAACAGTACACACTACGT 59.046 45.455 0.00 0.00 32.21 3.57
114 115 3.004106 ACCTGAACAGTACACACTACGTC 59.996 47.826 0.00 0.00 32.21 4.34
115 116 3.252701 CCTGAACAGTACACACTACGTCT 59.747 47.826 0.00 0.00 32.21 4.18
116 117 4.465016 CTGAACAGTACACACTACGTCTC 58.535 47.826 0.00 0.00 32.21 3.36
117 118 3.059393 TGAACAGTACACACTACGTCTCG 60.059 47.826 0.00 0.00 32.21 4.04
118 119 2.487934 ACAGTACACACTACGTCTCGT 58.512 47.619 0.00 0.00 44.35 4.18
119 120 2.478134 ACAGTACACACTACGTCTCGTC 59.522 50.000 0.00 0.00 41.54 4.20
120 121 1.723542 AGTACACACTACGTCTCGTCG 59.276 52.381 0.00 0.00 41.54 5.12
121 122 1.721389 GTACACACTACGTCTCGTCGA 59.279 52.381 0.00 0.00 41.54 4.20
122 123 1.436600 ACACACTACGTCTCGTCGAT 58.563 50.000 0.00 0.00 41.54 3.59
123 124 1.392853 ACACACTACGTCTCGTCGATC 59.607 52.381 0.00 0.00 41.54 3.69
124 125 0.644331 ACACTACGTCTCGTCGATCG 59.356 55.000 9.36 9.36 41.54 3.69
125 126 0.043224 CACTACGTCTCGTCGATCGG 60.043 60.000 16.41 0.00 41.54 4.18
126 127 1.150567 ACTACGTCTCGTCGATCGGG 61.151 60.000 16.41 8.02 41.54 5.14
127 128 1.150567 CTACGTCTCGTCGATCGGGT 61.151 60.000 16.41 5.00 41.54 5.28
128 129 1.423721 TACGTCTCGTCGATCGGGTG 61.424 60.000 16.41 8.82 41.54 4.61
129 130 2.408022 GTCTCGTCGATCGGGTGG 59.592 66.667 16.41 4.13 41.36 4.61
130 131 3.515286 TCTCGTCGATCGGGTGGC 61.515 66.667 16.41 0.23 41.36 5.01
131 132 4.570663 CTCGTCGATCGGGTGGCC 62.571 72.222 16.41 0.00 40.32 5.36
133 134 4.444838 CGTCGATCGGGTGGCCAA 62.445 66.667 16.41 0.00 35.71 4.52
134 135 2.511600 GTCGATCGGGTGGCCAAG 60.512 66.667 16.41 1.57 0.00 3.61
135 136 4.467084 TCGATCGGGTGGCCAAGC 62.467 66.667 16.41 0.55 0.00 4.01
206 207 5.808540 CGGTTTTCCACGAGTATTCTAATCA 59.191 40.000 0.00 0.00 40.70 2.57
208 209 6.258068 GGTTTTCCACGAGTATTCTAATCAGG 59.742 42.308 0.00 0.00 40.31 3.86
242 250 4.320546 TTCATGACCCAAATCATCTGGT 57.679 40.909 0.00 0.00 37.20 4.00
249 257 8.687487 ATGACCCAAATCATCTGGTGAAACCT 62.687 42.308 0.00 0.00 46.97 3.50
377 390 5.512788 CGTCATTTGGAACATTATTCAGCAC 59.487 40.000 0.00 0.00 39.30 4.40
455 469 5.591472 GCTACGTACCCCAAAATTAAGGATT 59.409 40.000 0.00 0.00 0.00 3.01
488 510 2.351726 CCAGCGTGCTTAACCAGATAAC 59.648 50.000 0.00 0.00 0.00 1.89
595 622 0.603065 CCTTGTTACCTTGCCTTGCC 59.397 55.000 0.00 0.00 0.00 4.52
675 703 2.567615 AGTCTTACGTGGCCAAATCTCT 59.432 45.455 7.24 0.00 0.00 3.10
727 755 4.448363 ACGCACGACTTTTTCTAAAGAC 57.552 40.909 0.00 0.00 42.78 3.01
834 1819 0.036952 CGTGCCCTGTCAATCTGTCT 60.037 55.000 0.00 0.00 0.00 3.41
924 1927 2.001076 TGAGCTCTGACTTCTGTCCA 57.999 50.000 16.19 0.00 42.28 4.02
925 1928 1.615883 TGAGCTCTGACTTCTGTCCAC 59.384 52.381 16.19 0.00 42.28 4.02
926 1929 1.892474 GAGCTCTGACTTCTGTCCACT 59.108 52.381 6.43 0.00 42.28 4.00
927 1930 3.085533 GAGCTCTGACTTCTGTCCACTA 58.914 50.000 6.43 0.00 42.28 2.74
928 1931 2.823154 AGCTCTGACTTCTGTCCACTAC 59.177 50.000 0.00 0.00 42.28 2.73
929 1932 2.558795 GCTCTGACTTCTGTCCACTACA 59.441 50.000 0.00 0.00 42.28 2.74
938 1941 1.253100 TGTCCACTACAGCGATCACA 58.747 50.000 0.00 0.00 33.01 3.58
939 1942 1.202348 TGTCCACTACAGCGATCACAG 59.798 52.381 0.00 0.00 33.01 3.66
940 1943 0.173481 TCCACTACAGCGATCACAGC 59.827 55.000 0.00 0.00 0.00 4.40
941 1944 0.807667 CCACTACAGCGATCACAGCC 60.808 60.000 0.00 0.00 34.64 4.85
942 1945 0.108662 CACTACAGCGATCACAGCCA 60.109 55.000 0.00 0.00 34.64 4.75
943 1946 0.108615 ACTACAGCGATCACAGCCAC 60.109 55.000 0.00 0.00 34.64 5.01
944 1947 0.807667 CTACAGCGATCACAGCCACC 60.808 60.000 0.00 0.00 34.64 4.61
945 1948 1.540435 TACAGCGATCACAGCCACCA 61.540 55.000 0.00 0.00 34.64 4.17
946 1949 2.104859 CAGCGATCACAGCCACCAG 61.105 63.158 0.00 0.00 34.64 4.00
947 1950 2.046892 GCGATCACAGCCACCAGT 60.047 61.111 0.00 0.00 0.00 4.00
948 1951 1.218047 GCGATCACAGCCACCAGTA 59.782 57.895 0.00 0.00 0.00 2.74
949 1952 0.807667 GCGATCACAGCCACCAGTAG 60.808 60.000 0.00 0.00 0.00 2.57
950 1953 0.532573 CGATCACAGCCACCAGTAGT 59.467 55.000 0.00 0.00 0.00 2.73
951 1954 1.469940 CGATCACAGCCACCAGTAGTC 60.470 57.143 0.00 0.00 0.00 2.59
952 1955 0.532573 ATCACAGCCACCAGTAGTCG 59.467 55.000 0.00 0.00 0.00 4.18
953 1956 0.538746 TCACAGCCACCAGTAGTCGA 60.539 55.000 0.00 0.00 0.00 4.20
954 1957 0.532573 CACAGCCACCAGTAGTCGAT 59.467 55.000 0.00 0.00 0.00 3.59
955 1958 0.818296 ACAGCCACCAGTAGTCGATC 59.182 55.000 0.00 0.00 0.00 3.69
956 1959 0.103208 CAGCCACCAGTAGTCGATCC 59.897 60.000 0.00 0.00 0.00 3.36
957 1960 0.324368 AGCCACCAGTAGTCGATCCA 60.324 55.000 0.00 0.00 0.00 3.41
958 1961 0.753262 GCCACCAGTAGTCGATCCAT 59.247 55.000 0.00 0.00 0.00 3.41
959 1962 1.269831 GCCACCAGTAGTCGATCCATC 60.270 57.143 0.00 0.00 0.00 3.51
960 1963 1.341531 CCACCAGTAGTCGATCCATCC 59.658 57.143 0.00 0.00 0.00 3.51
961 1964 2.311463 CACCAGTAGTCGATCCATCCT 58.689 52.381 0.00 0.00 0.00 3.24
962 1965 3.487372 CACCAGTAGTCGATCCATCCTA 58.513 50.000 0.00 0.00 0.00 2.94
963 1966 3.889538 CACCAGTAGTCGATCCATCCTAA 59.110 47.826 0.00 0.00 0.00 2.69
964 1967 4.022762 CACCAGTAGTCGATCCATCCTAAG 60.023 50.000 0.00 0.00 0.00 2.18
965 1968 4.145807 CCAGTAGTCGATCCATCCTAAGT 58.854 47.826 0.00 0.00 0.00 2.24
966 1969 4.022762 CCAGTAGTCGATCCATCCTAAGTG 60.023 50.000 0.00 0.00 0.00 3.16
1388 2515 7.303261 GTTGGCTTTTGTATAGTTGTTAGTCC 58.697 38.462 0.00 0.00 0.00 3.85
1459 2606 4.829518 CGATCGCGACGCACCTGA 62.830 66.667 21.35 9.18 40.82 3.86
1813 3092 0.824109 CCTGCAGACGGGTTATCTCA 59.176 55.000 17.39 0.00 37.57 3.27
2016 3427 2.593725 CCCATGATGGAGCTGCCG 60.594 66.667 14.26 0.00 40.96 5.69
2087 3546 6.466885 AGACAGCTACCGTTTATAGATGTT 57.533 37.500 4.59 0.00 46.46 2.71
2272 6084 1.424403 TAACATGTTGCCACTCGACG 58.576 50.000 21.42 0.00 31.43 5.12
2308 6120 7.171678 GGACCATCTAAGTAAAATGAGATTCCG 59.828 40.741 0.00 0.00 0.00 4.30
2344 6156 2.384309 CGTCGCAATAACGGTGGCA 61.384 57.895 0.00 0.00 36.51 4.92
2450 6409 9.807649 AACGAACCTAAGATGTACGTATTAAAT 57.192 29.630 0.00 0.00 32.45 1.40
2696 6663 7.713073 CCTTGAAAATAGCAAAACCACCTTTTA 59.287 33.333 0.00 0.00 30.39 1.52
2724 6692 5.451798 CCGGATTAAAATTGGTTCAGGATGG 60.452 44.000 0.00 0.00 36.16 3.51
2725 6693 5.127031 CGGATTAAAATTGGTTCAGGATGGT 59.873 40.000 0.00 0.00 36.16 3.55
2726 6694 6.350949 CGGATTAAAATTGGTTCAGGATGGTT 60.351 38.462 0.00 0.00 36.16 3.67
2727 6695 7.147983 CGGATTAAAATTGGTTCAGGATGGTTA 60.148 37.037 0.00 0.00 36.16 2.85
2728 6696 8.536175 GGATTAAAATTGGTTCAGGATGGTTAA 58.464 33.333 0.00 0.00 36.16 2.01
2729 6697 9.366216 GATTAAAATTGGTTCAGGATGGTTAAC 57.634 33.333 0.00 0.00 36.16 2.01
2821 6790 5.532557 GCAACTTTGAAGCCAGATTTAGTT 58.467 37.500 0.00 0.00 0.00 2.24
2830 6799 5.904362 AGCCAGATTTAGTTCAAACCATC 57.096 39.130 0.00 0.00 0.00 3.51
2845 6814 2.494059 ACCATCTTGAACAGAACCACG 58.506 47.619 0.00 0.00 34.16 4.94
2962 6931 3.821033 AGCCTGTTTTTGTAGGACACATC 59.179 43.478 0.00 0.00 36.90 3.06
3011 6980 0.899720 AAATCGTCTAACCCTCGCCA 59.100 50.000 0.00 0.00 0.00 5.69
3032 7001 5.337491 GCCATTCTGGTTGGTTCATTGTATT 60.337 40.000 0.00 0.00 40.46 1.89
3034 7003 6.591062 CCATTCTGGTTGGTTCATTGTATTTG 59.409 38.462 0.00 0.00 31.35 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 4.921515 TGCTTACGAGATCACTTGTGTAAC 59.078 41.667 0.00 0.00 40.55 2.50
9 10 4.921515 GTGCTTACGAGATCACTTGTGTAA 59.078 41.667 0.00 0.00 40.55 2.41
10 11 4.022676 TGTGCTTACGAGATCACTTGTGTA 60.023 41.667 0.00 0.00 40.55 2.90
11 12 3.243737 TGTGCTTACGAGATCACTTGTGT 60.244 43.478 0.00 0.00 40.55 3.72
12 13 3.317150 TGTGCTTACGAGATCACTTGTG 58.683 45.455 0.00 0.00 40.55 3.33
13 14 3.660501 TGTGCTTACGAGATCACTTGT 57.339 42.857 0.00 0.00 42.66 3.16
14 15 3.242220 GCATGTGCTTACGAGATCACTTG 60.242 47.826 0.00 2.13 37.53 3.16
15 16 2.932614 GCATGTGCTTACGAGATCACTT 59.067 45.455 0.00 0.00 38.21 3.16
16 17 2.094026 TGCATGTGCTTACGAGATCACT 60.094 45.455 6.55 0.00 42.66 3.41
17 18 2.029728 GTGCATGTGCTTACGAGATCAC 59.970 50.000 6.55 0.00 42.66 3.06
18 19 2.270923 GTGCATGTGCTTACGAGATCA 58.729 47.619 6.55 0.00 42.66 2.92
19 20 2.270923 TGTGCATGTGCTTACGAGATC 58.729 47.619 6.55 0.00 42.66 2.75
20 21 2.385013 TGTGCATGTGCTTACGAGAT 57.615 45.000 6.55 0.00 42.66 2.75
21 22 2.162319 TTGTGCATGTGCTTACGAGA 57.838 45.000 6.55 0.00 42.66 4.04
22 23 2.967459 TTTGTGCATGTGCTTACGAG 57.033 45.000 6.55 0.00 42.66 4.18
23 24 2.875317 TCTTTTGTGCATGTGCTTACGA 59.125 40.909 6.55 0.00 42.66 3.43
24 25 3.058983 TCTCTTTTGTGCATGTGCTTACG 60.059 43.478 6.55 0.00 42.66 3.18
25 26 4.488126 TCTCTTTTGTGCATGTGCTTAC 57.512 40.909 6.55 0.00 42.66 2.34
26 27 4.082625 CCATCTCTTTTGTGCATGTGCTTA 60.083 41.667 6.55 0.00 42.66 3.09
27 28 3.305813 CCATCTCTTTTGTGCATGTGCTT 60.306 43.478 6.55 0.00 42.66 3.91
28 29 2.230508 CCATCTCTTTTGTGCATGTGCT 59.769 45.455 6.55 0.00 42.66 4.40
29 30 2.029649 ACCATCTCTTTTGTGCATGTGC 60.030 45.455 0.00 0.00 42.50 4.57
30 31 3.005050 ACACCATCTCTTTTGTGCATGTG 59.995 43.478 0.00 0.00 31.98 3.21
31 32 3.225104 ACACCATCTCTTTTGTGCATGT 58.775 40.909 0.00 0.00 31.98 3.21
32 33 3.928727 ACACCATCTCTTTTGTGCATG 57.071 42.857 0.00 0.00 31.98 4.06
33 34 5.562696 CGTTTACACCATCTCTTTTGTGCAT 60.563 40.000 0.00 0.00 31.98 3.96
34 35 4.260990 CGTTTACACCATCTCTTTTGTGCA 60.261 41.667 0.00 0.00 31.98 4.57
35 36 4.024387 TCGTTTACACCATCTCTTTTGTGC 60.024 41.667 0.00 0.00 31.98 4.57
36 37 5.465390 TCTCGTTTACACCATCTCTTTTGTG 59.535 40.000 0.00 0.00 34.92 3.33
37 38 5.607477 TCTCGTTTACACCATCTCTTTTGT 58.393 37.500 0.00 0.00 0.00 2.83
38 39 6.539649 TTCTCGTTTACACCATCTCTTTTG 57.460 37.500 0.00 0.00 0.00 2.44
39 40 7.562454 TTTTCTCGTTTACACCATCTCTTTT 57.438 32.000 0.00 0.00 0.00 2.27
40 41 7.066525 TGTTTTTCTCGTTTACACCATCTCTTT 59.933 33.333 0.00 0.00 0.00 2.52
41 42 6.540914 TGTTTTTCTCGTTTACACCATCTCTT 59.459 34.615 0.00 0.00 0.00 2.85
42 43 6.053005 TGTTTTTCTCGTTTACACCATCTCT 58.947 36.000 0.00 0.00 0.00 3.10
43 44 6.295039 TGTTTTTCTCGTTTACACCATCTC 57.705 37.500 0.00 0.00 0.00 2.75
44 45 6.238648 CCTTGTTTTTCTCGTTTACACCATCT 60.239 38.462 0.00 0.00 0.00 2.90
45 46 5.912955 CCTTGTTTTTCTCGTTTACACCATC 59.087 40.000 0.00 0.00 0.00 3.51
46 47 5.221165 CCCTTGTTTTTCTCGTTTACACCAT 60.221 40.000 0.00 0.00 0.00 3.55
47 48 4.096682 CCCTTGTTTTTCTCGTTTACACCA 59.903 41.667 0.00 0.00 0.00 4.17
48 49 4.603985 CCCTTGTTTTTCTCGTTTACACC 58.396 43.478 0.00 0.00 0.00 4.16
49 50 4.039703 GCCCTTGTTTTTCTCGTTTACAC 58.960 43.478 0.00 0.00 0.00 2.90
50 51 3.242804 CGCCCTTGTTTTTCTCGTTTACA 60.243 43.478 0.00 0.00 0.00 2.41
51 52 3.294102 CGCCCTTGTTTTTCTCGTTTAC 58.706 45.455 0.00 0.00 0.00 2.01
52 53 2.287129 GCGCCCTTGTTTTTCTCGTTTA 60.287 45.455 0.00 0.00 0.00 2.01
53 54 1.535226 GCGCCCTTGTTTTTCTCGTTT 60.535 47.619 0.00 0.00 0.00 3.60
54 55 0.030235 GCGCCCTTGTTTTTCTCGTT 59.970 50.000 0.00 0.00 0.00 3.85
55 56 1.098712 TGCGCCCTTGTTTTTCTCGT 61.099 50.000 4.18 0.00 0.00 4.18
56 57 0.385974 CTGCGCCCTTGTTTTTCTCG 60.386 55.000 4.18 0.00 0.00 4.04
57 58 0.664466 GCTGCGCCCTTGTTTTTCTC 60.664 55.000 4.18 0.00 0.00 2.87
58 59 1.109323 AGCTGCGCCCTTGTTTTTCT 61.109 50.000 4.18 0.00 0.00 2.52
59 60 0.596082 TAGCTGCGCCCTTGTTTTTC 59.404 50.000 4.18 0.00 0.00 2.29
60 61 1.000274 CTTAGCTGCGCCCTTGTTTTT 60.000 47.619 4.18 0.00 0.00 1.94
61 62 0.598065 CTTAGCTGCGCCCTTGTTTT 59.402 50.000 4.18 0.00 0.00 2.43
62 63 1.244019 CCTTAGCTGCGCCCTTGTTT 61.244 55.000 4.18 0.00 0.00 2.83
63 64 1.675641 CCTTAGCTGCGCCCTTGTT 60.676 57.895 4.18 0.00 0.00 2.83
64 65 2.045926 CCTTAGCTGCGCCCTTGT 60.046 61.111 4.18 0.00 0.00 3.16
65 66 2.825836 CCCTTAGCTGCGCCCTTG 60.826 66.667 4.18 0.00 0.00 3.61
66 67 4.115199 CCCCTTAGCTGCGCCCTT 62.115 66.667 4.18 0.00 0.00 3.95
85 86 3.620300 TACTGTTCAGGTCGCGCGG 62.620 63.158 31.69 14.23 0.00 6.46
86 87 2.126618 TACTGTTCAGGTCGCGCG 60.127 61.111 26.76 26.76 0.00 6.86
87 88 1.372499 TGTACTGTTCAGGTCGCGC 60.372 57.895 0.00 0.00 0.00 6.86
88 89 0.318360 TGTGTACTGTTCAGGTCGCG 60.318 55.000 0.00 0.00 0.00 5.87
89 90 1.137513 GTGTGTACTGTTCAGGTCGC 58.862 55.000 4.82 4.50 0.00 5.19
90 91 2.795175 AGTGTGTACTGTTCAGGTCG 57.205 50.000 4.82 0.00 35.34 4.79
91 92 3.004106 ACGTAGTGTGTACTGTTCAGGTC 59.996 47.826 4.82 0.00 42.51 3.85
92 93 2.954318 ACGTAGTGTGTACTGTTCAGGT 59.046 45.455 4.82 0.00 42.51 4.00
93 94 3.637998 ACGTAGTGTGTACTGTTCAGG 57.362 47.619 4.82 0.00 42.51 3.86
101 102 6.769424 CGATCGACGAGACGTAGTGTGTAC 62.769 54.167 10.26 0.00 43.92 2.90
102 103 4.805788 CGATCGACGAGACGTAGTGTGTA 61.806 52.174 10.26 0.00 43.92 2.90
103 104 4.101810 CGATCGACGAGACGTAGTGTGT 62.102 54.545 10.26 0.00 43.92 3.72
104 105 1.589258 CGATCGACGAGACGTAGTGTG 60.589 57.143 10.26 0.00 43.92 3.82
105 106 0.644331 CGATCGACGAGACGTAGTGT 59.356 55.000 10.26 0.00 43.92 3.55
106 107 0.043224 CCGATCGACGAGACGTAGTG 60.043 60.000 18.66 6.64 43.92 2.74
107 108 1.150567 CCCGATCGACGAGACGTAGT 61.151 60.000 18.66 0.00 46.16 2.73
108 109 1.150567 ACCCGATCGACGAGACGTAG 61.151 60.000 18.66 15.01 45.77 3.51
109 110 1.153568 ACCCGATCGACGAGACGTA 60.154 57.895 18.66 0.00 45.77 3.57
110 111 2.435586 ACCCGATCGACGAGACGT 60.436 61.111 18.66 0.00 45.77 4.34
111 112 2.022902 CACCCGATCGACGAGACG 59.977 66.667 18.66 16.51 45.77 4.18
112 113 2.408022 CCACCCGATCGACGAGAC 59.592 66.667 18.66 0.00 45.77 3.36
113 114 3.515286 GCCACCCGATCGACGAGA 61.515 66.667 18.66 0.00 45.77 4.04
114 115 4.570663 GGCCACCCGATCGACGAG 62.571 72.222 18.66 4.68 45.77 4.18
116 117 4.444838 TTGGCCACCCGATCGACG 62.445 66.667 18.66 8.71 42.18 5.12
117 118 2.511600 CTTGGCCACCCGATCGAC 60.512 66.667 18.66 0.00 0.00 4.20
118 119 4.467084 GCTTGGCCACCCGATCGA 62.467 66.667 18.66 0.00 0.00 3.59
163 164 4.697756 TGCCAAGGAAGACGCCCG 62.698 66.667 0.00 0.00 0.00 6.13
164 165 3.056328 GTGCCAAGGAAGACGCCC 61.056 66.667 0.00 0.00 0.00 6.13
165 166 3.056328 GGTGCCAAGGAAGACGCC 61.056 66.667 0.00 0.00 0.00 5.68
166 167 3.423154 CGGTGCCAAGGAAGACGC 61.423 66.667 0.00 0.00 0.00 5.19
167 168 2.742372 CCGGTGCCAAGGAAGACG 60.742 66.667 0.00 0.00 0.00 4.18
168 169 0.822121 AAACCGGTGCCAAGGAAGAC 60.822 55.000 8.52 0.00 0.00 3.01
169 170 0.106419 AAAACCGGTGCCAAGGAAGA 60.106 50.000 8.52 0.00 0.00 2.87
170 171 0.313987 GAAAACCGGTGCCAAGGAAG 59.686 55.000 8.52 0.00 0.00 3.46
171 172 1.110518 GGAAAACCGGTGCCAAGGAA 61.111 55.000 8.52 0.00 0.00 3.36
172 173 1.529713 GGAAAACCGGTGCCAAGGA 60.530 57.895 8.52 0.00 0.00 3.36
173 174 1.830408 TGGAAAACCGGTGCCAAGG 60.830 57.895 18.60 0.00 0.00 3.61
174 175 1.362355 GTGGAAAACCGGTGCCAAG 59.638 57.895 21.50 0.00 31.18 3.61
208 209 3.127030 GGGTCATGAATTCGGTGAAGAAC 59.873 47.826 13.09 4.16 32.39 3.01
225 233 3.805066 TTCACCAGATGATTTGGGTCA 57.195 42.857 6.96 0.00 40.11 4.02
242 250 1.600636 CGGCTTGGCTGAGGTTTCA 60.601 57.895 0.00 0.00 37.02 2.69
297 305 6.963083 ATAGCCTACGATTATCATCCTACC 57.037 41.667 0.00 0.00 0.00 3.18
327 335 2.489329 CGTTTTGGTCTCTCCATGCAAT 59.511 45.455 0.00 0.00 46.60 3.56
356 364 4.799949 CGGTGCTGAATAATGTTCCAAATG 59.200 41.667 0.00 0.00 0.00 2.32
377 390 1.401905 TGATCGACACAGTGATCTCGG 59.598 52.381 7.81 0.00 41.24 4.63
455 469 1.611261 ACGCTGGGTGCCTAGGTAA 60.611 57.895 11.31 0.00 38.78 2.85
468 482 3.262420 AGTTATCTGGTTAAGCACGCTG 58.738 45.455 2.54 0.00 0.00 5.18
488 510 2.159421 CCGTGTAGTGTAGCACCTGTAG 60.159 54.545 0.00 0.00 34.49 2.74
595 622 1.132453 CTTCCTCTGTGCATGCATGTG 59.868 52.381 25.64 18.71 0.00 3.21
641 669 5.239744 CCACGTAAGACTAGATACATGCTCT 59.760 44.000 0.00 0.00 43.62 4.09
645 673 4.037565 TGGCCACGTAAGACTAGATACATG 59.962 45.833 0.00 0.00 43.62 3.21
648 676 4.644103 TTGGCCACGTAAGACTAGATAC 57.356 45.455 3.88 0.00 43.62 2.24
675 703 2.829384 AAAGAGGGCGGTTGCTCCA 61.829 57.895 0.00 0.00 45.33 3.86
727 755 7.704899 TGAACAGTTTGTGTATGTCGGATATAG 59.295 37.037 0.00 0.00 39.03 1.31
834 1819 2.019249 CATTCGGTGGTCGTAGTCCTA 58.981 52.381 0.00 0.00 40.32 2.94
924 1927 0.108615 GTGGCTGTGATCGCTGTAGT 60.109 55.000 13.78 0.00 0.00 2.73
925 1928 0.807667 GGTGGCTGTGATCGCTGTAG 60.808 60.000 13.78 1.80 0.00 2.74
926 1929 1.218047 GGTGGCTGTGATCGCTGTA 59.782 57.895 13.78 2.39 0.00 2.74
927 1930 2.046892 GGTGGCTGTGATCGCTGT 60.047 61.111 13.78 0.00 0.00 4.40
928 1931 2.046988 TGGTGGCTGTGATCGCTG 60.047 61.111 7.94 8.33 0.00 5.18
929 1932 1.257750 TACTGGTGGCTGTGATCGCT 61.258 55.000 7.94 0.00 0.00 4.93
930 1933 0.807667 CTACTGGTGGCTGTGATCGC 60.808 60.000 0.00 0.00 0.00 4.58
931 1934 0.532573 ACTACTGGTGGCTGTGATCG 59.467 55.000 0.00 0.00 0.00 3.69
932 1935 1.469940 CGACTACTGGTGGCTGTGATC 60.470 57.143 0.00 0.00 0.00 2.92
933 1936 0.532573 CGACTACTGGTGGCTGTGAT 59.467 55.000 0.00 0.00 0.00 3.06
934 1937 0.538746 TCGACTACTGGTGGCTGTGA 60.539 55.000 0.00 0.00 0.00 3.58
935 1938 0.532573 ATCGACTACTGGTGGCTGTG 59.467 55.000 0.00 0.00 0.00 3.66
936 1939 0.818296 GATCGACTACTGGTGGCTGT 59.182 55.000 0.00 0.00 0.00 4.40
937 1940 0.103208 GGATCGACTACTGGTGGCTG 59.897 60.000 0.00 0.00 0.00 4.85
938 1941 0.324368 TGGATCGACTACTGGTGGCT 60.324 55.000 0.00 0.00 0.00 4.75
939 1942 0.753262 ATGGATCGACTACTGGTGGC 59.247 55.000 0.00 0.00 0.00 5.01
940 1943 1.341531 GGATGGATCGACTACTGGTGG 59.658 57.143 0.00 0.00 0.00 4.61
941 1944 2.311463 AGGATGGATCGACTACTGGTG 58.689 52.381 0.00 0.00 0.00 4.17
942 1945 2.757894 AGGATGGATCGACTACTGGT 57.242 50.000 0.00 0.00 0.00 4.00
943 1946 4.022762 CACTTAGGATGGATCGACTACTGG 60.023 50.000 0.00 0.00 0.00 4.00
944 1947 4.822350 TCACTTAGGATGGATCGACTACTG 59.178 45.833 0.00 0.00 0.00 2.74
945 1948 4.822896 GTCACTTAGGATGGATCGACTACT 59.177 45.833 0.00 0.00 0.00 2.57
946 1949 4.822896 AGTCACTTAGGATGGATCGACTAC 59.177 45.833 0.00 0.00 31.01 2.73
947 1950 5.050126 AGTCACTTAGGATGGATCGACTA 57.950 43.478 0.00 0.00 31.01 2.59
948 1951 3.904717 AGTCACTTAGGATGGATCGACT 58.095 45.455 0.00 0.00 0.00 4.18
949 1952 4.320641 GCTAGTCACTTAGGATGGATCGAC 60.321 50.000 0.00 0.00 0.00 4.20
950 1953 3.821600 GCTAGTCACTTAGGATGGATCGA 59.178 47.826 0.00 0.00 0.00 3.59
951 1954 3.823873 AGCTAGTCACTTAGGATGGATCG 59.176 47.826 0.00 0.00 0.00 3.69
952 1955 5.105917 GCTAGCTAGTCACTTAGGATGGATC 60.106 48.000 21.62 0.00 0.00 3.36
953 1956 4.770010 GCTAGCTAGTCACTTAGGATGGAT 59.230 45.833 21.62 0.00 0.00 3.41
954 1957 4.145807 GCTAGCTAGTCACTTAGGATGGA 58.854 47.826 21.62 0.00 0.00 3.41
955 1958 3.891977 TGCTAGCTAGTCACTTAGGATGG 59.108 47.826 21.62 0.00 0.00 3.51
956 1959 4.824537 TCTGCTAGCTAGTCACTTAGGATG 59.175 45.833 21.62 6.55 0.00 3.51
957 1960 5.055265 TCTGCTAGCTAGTCACTTAGGAT 57.945 43.478 21.62 0.00 0.00 3.24
958 1961 4.456535 CTCTGCTAGCTAGTCACTTAGGA 58.543 47.826 21.62 11.52 0.00 2.94
959 1962 4.829064 CTCTGCTAGCTAGTCACTTAGG 57.171 50.000 21.62 8.34 0.00 2.69
1173 2229 1.079336 GAGGTAGTTGGTCCACCGC 60.079 63.158 0.00 0.00 39.43 5.68
1388 2515 0.441533 GCATGTCAGTGTCGCTTCAG 59.558 55.000 0.00 0.00 0.00 3.02
1459 2606 4.324991 GTTGTCCGTCCGGCCCTT 62.325 66.667 0.00 0.00 34.68 3.95
1779 3007 3.005554 CTGCAGGTAGTTCATCTGGTTG 58.994 50.000 5.57 0.00 0.00 3.77
1813 3092 3.132646 TCTGCAAAATTGGAGTTGTTGCT 59.867 39.130 13.33 0.00 45.50 3.91
2016 3427 3.071206 TCGAGAGAGCACAGCCCC 61.071 66.667 0.00 0.00 34.84 5.80
2087 3546 7.551262 ACTCTGTACAAAACTGTCATACACAAA 59.449 33.333 0.00 0.00 33.31 2.83
2272 6084 0.459585 TAGATGGTCCTCGCGTTTGC 60.460 55.000 5.77 0.00 37.91 3.68
2696 6663 6.439058 TCCTGAACCAATTTTAATCCGGAAAT 59.561 34.615 9.01 0.00 0.00 2.17
2724 6692 3.823716 ACGTCAGACGAAAACGTTAAC 57.176 42.857 29.53 0.00 46.56 2.01
2725 6693 4.597079 ACTACGTCAGACGAAAACGTTAA 58.403 39.130 29.53 2.50 46.56 2.01
2726 6694 4.209452 ACTACGTCAGACGAAAACGTTA 57.791 40.909 29.53 8.36 46.56 3.18
2727 6695 3.070429 ACTACGTCAGACGAAAACGTT 57.930 42.857 29.53 7.58 46.56 3.99
2728 6696 2.763249 ACTACGTCAGACGAAAACGT 57.237 45.000 29.53 14.12 46.05 3.99
2729 6697 3.121563 GGAAACTACGTCAGACGAAAACG 60.122 47.826 29.53 13.54 46.05 3.60
2821 6790 4.338118 GTGGTTCTGTTCAAGATGGTTTGA 59.662 41.667 0.00 0.00 33.93 2.69
2830 6799 3.311322 TGTTAAGCGTGGTTCTGTTCAAG 59.689 43.478 0.00 0.00 0.00 3.02
2836 6805 3.252215 TCCAATTGTTAAGCGTGGTTCTG 59.748 43.478 4.43 0.00 0.00 3.02
2845 6814 6.039616 TGTGAAAACTGTCCAATTGTTAAGC 58.960 36.000 4.43 0.00 0.00 3.09
2962 6931 2.203280 TCAAACCAGCCACACCGG 60.203 61.111 0.00 0.00 38.11 5.28
3011 6980 7.301868 ACAAATACAATGAACCAACCAGAAT 57.698 32.000 0.00 0.00 0.00 2.40
3032 7001 9.856488 GAACAACATCTAAGAGTGATACTACAA 57.144 33.333 0.00 0.00 0.00 2.41
3034 7003 8.467598 TGGAACAACATCTAAGAGTGATACTAC 58.532 37.037 0.00 0.00 31.92 2.73


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

AutoCloner maintained by Alex Coulton.