Multiple sequence alignment - TraesCS6A01G012200

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6A01G012200 chr6A 100.000 3689 0 0 1 3689 5608336 5604648 0.000000e+00 6813.0
1 TraesCS6A01G012200 chr6A 96.674 1774 25 4 240 1979 5793715 5791942 0.000000e+00 2918.0
2 TraesCS6A01G012200 chr6A 98.920 648 7 0 1332 1979 5690289 5689642 0.000000e+00 1158.0
3 TraesCS6A01G012200 chr6A 98.285 583 10 0 2563 3145 5785892 5785310 0.000000e+00 1022.0
4 TraesCS6A01G012200 chr6A 97.804 592 10 2 1978 2568 5689401 5688812 0.000000e+00 1018.0
5 TraesCS6A01G012200 chr6A 97.770 583 12 1 2563 3145 5683263 5682682 0.000000e+00 1003.0
6 TraesCS6A01G012200 chr6A 99.097 554 5 0 783 1336 5696028 5695475 0.000000e+00 996.0
7 TraesCS6A01G012200 chr6A 96.422 559 17 2 240 795 5699144 5698586 0.000000e+00 918.0
8 TraesCS6A01G012200 chr6A 95.767 567 6 7 3141 3689 5673912 5673346 0.000000e+00 898.0
9 TraesCS6A01G012200 chr6A 95.414 567 8 7 3141 3689 5776540 5775974 0.000000e+00 887.0
10 TraesCS6A01G012200 chr6A 98.596 285 4 0 2284 2568 5791562 5791278 4.250000e-139 505.0
11 TraesCS6A01G012200 chr6A 98.340 241 4 0 1 241 479743174 479743414 1.220000e-114 424.0
12 TraesCS6A01G012200 chr6A 97.934 242 4 1 1 241 436658587 436658828 5.700000e-113 418.0
13 TraesCS6A01G012200 chr6A 97.925 241 5 0 1 241 453823156 453823396 5.700000e-113 418.0
14 TraesCS6A01G012200 chr6A 95.775 142 3 2 1978 2118 5791701 5791562 3.710000e-55 226.0
15 TraesCS6A01G012200 chr6A 78.102 137 27 3 1062 1198 6416620 6416753 2.360000e-12 84.2
16 TraesCS6A01G012200 chr6B 89.631 1736 136 25 1978 3689 11540864 11539149 0.000000e+00 2169.0
17 TraesCS6A01G012200 chr6B 90.977 942 62 8 1041 1979 11542022 11541101 0.000000e+00 1247.0
18 TraesCS6A01G012200 chr6B 89.130 46 4 1 3234 3279 213237358 213237314 5.150000e-04 56.5
19 TraesCS6A01G012200 chr6D 88.561 1661 109 32 2079 3689 6277305 6275676 0.000000e+00 1940.0
20 TraesCS6A01G012200 chr6D 96.448 563 17 1 929 1488 6306604 6306042 0.000000e+00 926.0
21 TraesCS6A01G012200 chr6D 95.015 341 14 3 1642 1979 6306056 6305716 1.950000e-147 532.0
22 TraesCS6A01G012200 chr6D 84.962 133 16 3 1035 1165 6864139 6864269 8.310000e-27 132.0
23 TraesCS6A01G012200 chr6D 89.130 46 4 1 3234 3279 121167828 121167784 5.150000e-04 56.5
24 TraesCS6A01G012200 chr7B 85.236 508 59 8 300 795 745595145 745595648 3.290000e-140 508.0
25 TraesCS6A01G012200 chr4A 87.342 395 45 4 240 629 127973915 127974309 7.270000e-122 448.0
26 TraesCS6A01G012200 chr4A 98.347 242 4 0 1 242 603179916 603179675 3.410000e-115 425.0
27 TraesCS6A01G012200 chr4A 97.200 250 3 3 1 246 593567654 593567903 1.580000e-113 420.0
28 TraesCS6A01G012200 chr4A 84.962 399 32 8 300 696 494012117 494011745 2.690000e-101 379.0
29 TraesCS6A01G012200 chr1A 98.340 241 4 0 1 241 60823386 60823146 1.220000e-114 424.0
30 TraesCS6A01G012200 chr1A 97.541 244 6 0 1 244 60816410 60816167 5.700000e-113 418.0
31 TraesCS6A01G012200 chr1A 97.934 242 4 1 1 241 132907221 132906980 5.700000e-113 418.0
32 TraesCS6A01G012200 chr5A 97.925 241 5 0 1 241 343904114 343903874 5.700000e-113 418.0
33 TraesCS6A01G012200 chr3B 83.500 200 28 4 589 787 796839780 796839585 8.140000e-42 182.0
34 TraesCS6A01G012200 chr3B 84.337 83 13 0 1081 1163 811082124 811082206 8.490000e-12 82.4
35 TraesCS6A01G012200 chr3A 90.411 73 5 2 1094 1165 733483085 733483156 1.090000e-15 95.3
36 TraesCS6A01G012200 chr1B 94.231 52 3 0 1111 1162 635475321 635475372 3.050000e-11 80.5
37 TraesCS6A01G012200 chr2A 93.478 46 3 0 1118 1163 3361457 3361502 6.610000e-08 69.4
38 TraesCS6A01G012200 chr7A 87.755 49 4 2 3234 3281 644844578 644844625 5.150000e-04 56.5


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 TraesCS6A01G012200 chr6A 5604648 5608336 3688 True 6813.000000 6813 100.0000 1 3689 1 chr6A.!!$R1 3688
1 TraesCS6A01G012200 chr6A 5791278 5793715 2437 True 1216.333333 2918 97.0150 240 2568 3 chr6A.!!$R8 2328
2 TraesCS6A01G012200 chr6A 5688812 5690289 1477 True 1088.000000 1158 98.3620 1332 2568 2 chr6A.!!$R6 1236
3 TraesCS6A01G012200 chr6A 5785310 5785892 582 True 1022.000000 1022 98.2850 2563 3145 1 chr6A.!!$R5 582
4 TraesCS6A01G012200 chr6A 5682682 5683263 581 True 1003.000000 1003 97.7700 2563 3145 1 chr6A.!!$R3 582
5 TraesCS6A01G012200 chr6A 5695475 5699144 3669 True 957.000000 996 97.7595 240 1336 2 chr6A.!!$R7 1096
6 TraesCS6A01G012200 chr6A 5673346 5673912 566 True 898.000000 898 95.7670 3141 3689 1 chr6A.!!$R2 548
7 TraesCS6A01G012200 chr6A 5775974 5776540 566 True 887.000000 887 95.4140 3141 3689 1 chr6A.!!$R4 548
8 TraesCS6A01G012200 chr6B 11539149 11542022 2873 True 1708.000000 2169 90.3040 1041 3689 2 chr6B.!!$R2 2648
9 TraesCS6A01G012200 chr6D 6275676 6277305 1629 True 1940.000000 1940 88.5610 2079 3689 1 chr6D.!!$R1 1610
10 TraesCS6A01G012200 chr6D 6305716 6306604 888 True 729.000000 926 95.7315 929 1979 2 chr6D.!!$R3 1050
11 TraesCS6A01G012200 chr7B 745595145 745595648 503 False 508.000000 508 85.2360 300 795 1 chr7B.!!$F1 495

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
184 185 0.106708 TCCCCTCGTTGCTATGCATC 59.893 55.0 0.19 0.0 38.76 3.91 F
185 186 0.179048 CCCCTCGTTGCTATGCATCA 60.179 55.0 0.19 0.0 38.76 3.07 F
203 204 0.179181 CACCATGATCTTGCGTGTGC 60.179 55.0 15.81 0.0 43.20 4.57 F
578 590 0.607217 TGGTGTCGTCGCTCCTTCTA 60.607 55.0 8.50 0.0 0.00 2.10 F
1980 4773 0.746659 GCCCAATAGCTTCGCCATTT 59.253 50.0 0.00 0.0 0.00 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1587 4206 2.792674 TGACGTCATCAAAAGTCGTGTC 59.207 45.455 15.76 0.00 36.49 3.67 R
2024 5060 8.924303 AGGTACAGCTGTATTAACTTGATATGA 58.076 33.333 28.37 0.00 32.54 2.15 R
2271 5315 1.224592 GGGAGCCATTCACCGTGAT 59.775 57.895 1.09 0.00 0.00 3.06 R
2604 5648 5.597806 CAACCAATTATGCATGCAGAGATT 58.402 37.500 26.69 20.34 0.00 2.40 R
3008 6070 3.071023 ACATCGAGACAAGGAAGTTTGGA 59.929 43.478 0.00 0.00 32.32 3.53 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 2.081526 CGACACTTTGCTGGATCGG 58.918 57.895 0.00 0.00 0.00 4.18
19 20 0.389817 CGACACTTTGCTGGATCGGA 60.390 55.000 0.00 0.00 0.00 4.55
20 21 1.363744 GACACTTTGCTGGATCGGAG 58.636 55.000 0.00 0.00 0.00 4.63
21 22 0.687354 ACACTTTGCTGGATCGGAGT 59.313 50.000 0.00 0.00 0.00 3.85
22 23 1.338200 ACACTTTGCTGGATCGGAGTC 60.338 52.381 0.00 0.00 0.00 3.36
23 24 0.250513 ACTTTGCTGGATCGGAGTCC 59.749 55.000 0.00 0.00 38.81 3.85
33 34 3.593794 CGGAGTCCGGGGATCGTC 61.594 72.222 24.39 0.00 44.15 4.20
34 35 2.441532 GGAGTCCGGGGATCGTCA 60.442 66.667 0.00 0.00 37.11 4.35
35 36 1.833049 GGAGTCCGGGGATCGTCAT 60.833 63.158 0.00 0.00 37.11 3.06
36 37 1.660917 GAGTCCGGGGATCGTCATC 59.339 63.158 0.00 0.00 37.11 2.92
37 38 2.131294 GAGTCCGGGGATCGTCATCG 62.131 65.000 0.00 0.00 37.11 3.84
46 47 4.765611 TCGTCATCGAGCTGAACG 57.234 55.556 0.00 0.00 41.35 3.95
47 48 1.873863 TCGTCATCGAGCTGAACGT 59.126 52.632 0.00 0.00 41.35 3.99
48 49 0.454452 TCGTCATCGAGCTGAACGTG 60.454 55.000 0.00 0.00 41.35 4.49
49 50 0.729478 CGTCATCGAGCTGAACGTGT 60.729 55.000 0.00 0.00 39.71 4.49
50 51 0.710567 GTCATCGAGCTGAACGTGTG 59.289 55.000 0.00 0.00 0.00 3.82
51 52 1.008875 TCATCGAGCTGAACGTGTGC 61.009 55.000 0.00 0.00 0.00 4.57
52 53 1.010935 CATCGAGCTGAACGTGTGCT 61.011 55.000 9.46 9.46 40.02 4.40
53 54 0.526211 ATCGAGCTGAACGTGTGCTA 59.474 50.000 9.63 0.00 37.16 3.49
54 55 0.109735 TCGAGCTGAACGTGTGCTAG 60.110 55.000 9.63 9.87 37.16 3.42
55 56 0.109735 CGAGCTGAACGTGTGCTAGA 60.110 55.000 9.63 0.00 37.16 2.43
56 57 1.666023 CGAGCTGAACGTGTGCTAGAA 60.666 52.381 9.63 0.00 37.16 2.10
57 58 1.721926 GAGCTGAACGTGTGCTAGAAC 59.278 52.381 9.63 0.00 37.16 3.01
58 59 1.341531 AGCTGAACGTGTGCTAGAACT 59.658 47.619 1.64 0.00 35.05 3.01
59 60 1.721926 GCTGAACGTGTGCTAGAACTC 59.278 52.381 1.64 0.00 0.00 3.01
60 61 1.979469 CTGAACGTGTGCTAGAACTCG 59.021 52.381 21.00 21.00 41.49 4.18
61 62 1.335597 TGAACGTGTGCTAGAACTCGG 60.336 52.381 24.99 10.58 40.39 4.63
62 63 0.956633 AACGTGTGCTAGAACTCGGA 59.043 50.000 24.99 0.00 40.39 4.55
63 64 0.522180 ACGTGTGCTAGAACTCGGAG 59.478 55.000 24.99 2.83 40.39 4.63
64 65 0.179161 CGTGTGCTAGAACTCGGAGG 60.179 60.000 16.08 0.00 34.36 4.30
65 66 0.889306 GTGTGCTAGAACTCGGAGGT 59.111 55.000 10.23 1.51 0.00 3.85
66 67 0.888619 TGTGCTAGAACTCGGAGGTG 59.111 55.000 10.23 0.00 0.00 4.00
67 68 0.458716 GTGCTAGAACTCGGAGGTGC 60.459 60.000 10.23 3.39 0.00 5.01
68 69 1.142097 GCTAGAACTCGGAGGTGCC 59.858 63.158 10.23 0.00 0.00 5.01
77 78 4.611961 GGAGGTGCCGTAGTTTCC 57.388 61.111 0.00 0.00 0.00 3.13
78 79 1.675219 GGAGGTGCCGTAGTTTCCA 59.325 57.895 0.00 0.00 0.00 3.53
79 80 0.252197 GGAGGTGCCGTAGTTTCCAT 59.748 55.000 0.00 0.00 0.00 3.41
80 81 1.369625 GAGGTGCCGTAGTTTCCATG 58.630 55.000 0.00 0.00 0.00 3.66
81 82 0.676782 AGGTGCCGTAGTTTCCATGC 60.677 55.000 0.00 0.00 0.00 4.06
82 83 0.676782 GGTGCCGTAGTTTCCATGCT 60.677 55.000 0.00 0.00 0.00 3.79
83 84 1.165270 GTGCCGTAGTTTCCATGCTT 58.835 50.000 0.00 0.00 0.00 3.91
84 85 1.135689 GTGCCGTAGTTTCCATGCTTG 60.136 52.381 0.00 0.00 0.00 4.01
85 86 1.271108 TGCCGTAGTTTCCATGCTTGA 60.271 47.619 0.22 0.00 0.00 3.02
86 87 2.017049 GCCGTAGTTTCCATGCTTGAT 58.983 47.619 0.22 0.00 0.00 2.57
87 88 2.032178 GCCGTAGTTTCCATGCTTGATC 59.968 50.000 0.22 0.00 0.00 2.92
88 89 2.285220 CCGTAGTTTCCATGCTTGATCG 59.715 50.000 0.22 0.00 0.00 3.69
89 90 2.285220 CGTAGTTTCCATGCTTGATCGG 59.715 50.000 0.22 0.00 0.00 4.18
90 91 2.496899 AGTTTCCATGCTTGATCGGT 57.503 45.000 0.22 0.00 0.00 4.69
91 92 2.359900 AGTTTCCATGCTTGATCGGTC 58.640 47.619 0.22 0.00 0.00 4.79
92 93 1.062587 GTTTCCATGCTTGATCGGTCG 59.937 52.381 0.22 0.00 0.00 4.79
93 94 0.461870 TTCCATGCTTGATCGGTCGG 60.462 55.000 0.22 0.00 0.00 4.79
94 95 1.889105 CCATGCTTGATCGGTCGGG 60.889 63.158 0.22 0.00 0.00 5.14
95 96 2.203070 ATGCTTGATCGGTCGGGC 60.203 61.111 5.85 5.85 0.00 6.13
96 97 3.757248 ATGCTTGATCGGTCGGGCC 62.757 63.158 9.60 0.00 0.00 5.80
106 107 4.353437 GTCGGGCCGTGAAGACGT 62.353 66.667 27.32 0.00 44.54 4.34
107 108 2.672651 TCGGGCCGTGAAGACGTA 60.673 61.111 27.32 0.00 44.54 3.57
108 109 2.505557 CGGGCCGTGAAGACGTAC 60.506 66.667 19.97 0.00 44.54 3.67
109 110 2.505557 GGGCCGTGAAGACGTACG 60.506 66.667 15.01 15.01 44.54 3.67
110 111 2.562912 GGCCGTGAAGACGTACGA 59.437 61.111 24.41 0.00 44.54 3.43
111 112 1.799121 GGCCGTGAAGACGTACGAC 60.799 63.158 24.41 16.77 44.54 4.34
112 113 1.208614 GCCGTGAAGACGTACGACT 59.791 57.895 24.41 19.11 44.54 4.18
113 114 0.443869 GCCGTGAAGACGTACGACTA 59.556 55.000 24.41 3.99 44.54 2.59
114 115 1.788344 GCCGTGAAGACGTACGACTAC 60.788 57.143 24.41 15.53 44.54 2.73
115 116 1.460743 CCGTGAAGACGTACGACTACA 59.539 52.381 24.41 13.28 44.54 2.74
116 117 2.094894 CCGTGAAGACGTACGACTACAT 59.905 50.000 24.41 6.17 44.54 2.29
117 118 3.340552 CGTGAAGACGTACGACTACATC 58.659 50.000 24.41 15.62 42.54 3.06
118 119 3.181527 CGTGAAGACGTACGACTACATCA 60.182 47.826 24.41 18.00 42.54 3.07
119 120 4.667415 CGTGAAGACGTACGACTACATCAA 60.667 45.833 24.41 4.49 42.54 2.57
120 121 4.552660 GTGAAGACGTACGACTACATCAAC 59.447 45.833 24.41 11.90 0.00 3.18
121 122 3.754188 AGACGTACGACTACATCAACC 57.246 47.619 24.41 0.00 0.00 3.77
122 123 3.076621 AGACGTACGACTACATCAACCA 58.923 45.455 24.41 0.00 0.00 3.67
123 124 3.503363 AGACGTACGACTACATCAACCAA 59.497 43.478 24.41 0.00 0.00 3.67
124 125 4.022935 AGACGTACGACTACATCAACCAAA 60.023 41.667 24.41 0.00 0.00 3.28
125 126 3.983344 ACGTACGACTACATCAACCAAAC 59.017 43.478 24.41 0.00 0.00 2.93
126 127 3.058520 CGTACGACTACATCAACCAAACG 59.941 47.826 10.44 0.00 0.00 3.60
127 128 1.796459 ACGACTACATCAACCAAACGC 59.204 47.619 0.00 0.00 0.00 4.84
128 129 2.066262 CGACTACATCAACCAAACGCT 58.934 47.619 0.00 0.00 0.00 5.07
129 130 2.478894 CGACTACATCAACCAAACGCTT 59.521 45.455 0.00 0.00 0.00 4.68
130 131 3.423123 CGACTACATCAACCAAACGCTTC 60.423 47.826 0.00 0.00 0.00 3.86
131 132 2.812011 ACTACATCAACCAAACGCTTCC 59.188 45.455 0.00 0.00 0.00 3.46
132 133 0.591170 ACATCAACCAAACGCTTCCG 59.409 50.000 0.00 0.00 41.14 4.30
142 143 4.478195 CGCTTCCGTTGTCGATCT 57.522 55.556 0.00 0.00 39.71 2.75
143 144 3.616935 CGCTTCCGTTGTCGATCTA 57.383 52.632 0.00 0.00 39.71 1.98
144 145 1.189403 CGCTTCCGTTGTCGATCTAC 58.811 55.000 0.00 0.00 39.71 2.59
145 146 1.466866 CGCTTCCGTTGTCGATCTACA 60.467 52.381 0.00 0.00 39.71 2.74
146 147 2.602878 GCTTCCGTTGTCGATCTACAA 58.397 47.619 8.63 8.63 39.71 2.41
147 148 2.599082 GCTTCCGTTGTCGATCTACAAG 59.401 50.000 12.70 7.56 39.92 3.16
148 149 2.933495 TCCGTTGTCGATCTACAAGG 57.067 50.000 20.13 20.13 39.92 3.61
149 150 2.165167 TCCGTTGTCGATCTACAAGGT 58.835 47.619 23.22 0.00 41.42 3.50
150 151 3.346315 TCCGTTGTCGATCTACAAGGTA 58.654 45.455 23.22 11.40 41.42 3.08
151 152 3.949754 TCCGTTGTCGATCTACAAGGTAT 59.050 43.478 23.22 0.00 41.42 2.73
152 153 4.042398 CCGTTGTCGATCTACAAGGTATG 58.958 47.826 23.22 10.69 41.42 2.39
153 154 4.439700 CCGTTGTCGATCTACAAGGTATGT 60.440 45.833 23.22 0.00 41.42 2.29
154 155 5.220912 CCGTTGTCGATCTACAAGGTATGTA 60.221 44.000 23.22 0.00 41.42 2.29
166 167 6.458232 ACAAGGTATGTAGATCACACTCTC 57.542 41.667 0.00 0.00 41.63 3.20
167 168 5.361285 ACAAGGTATGTAGATCACACTCTCC 59.639 44.000 0.00 0.12 41.63 3.71
168 169 4.475345 AGGTATGTAGATCACACTCTCCC 58.525 47.826 0.00 0.00 40.86 4.30
169 170 3.574826 GGTATGTAGATCACACTCTCCCC 59.425 52.174 0.00 0.00 40.86 4.81
170 171 3.697190 ATGTAGATCACACTCTCCCCT 57.303 47.619 0.00 0.00 40.86 4.79
171 172 3.019799 TGTAGATCACACTCTCCCCTC 57.980 52.381 0.00 0.00 30.04 4.30
172 173 1.950909 GTAGATCACACTCTCCCCTCG 59.049 57.143 0.00 0.00 0.00 4.63
173 174 0.333312 AGATCACACTCTCCCCTCGT 59.667 55.000 0.00 0.00 0.00 4.18
174 175 1.187087 GATCACACTCTCCCCTCGTT 58.813 55.000 0.00 0.00 0.00 3.85
175 176 0.898320 ATCACACTCTCCCCTCGTTG 59.102 55.000 0.00 0.00 0.00 4.10
176 177 1.374758 CACACTCTCCCCTCGTTGC 60.375 63.158 0.00 0.00 0.00 4.17
177 178 1.534235 ACACTCTCCCCTCGTTGCT 60.534 57.895 0.00 0.00 0.00 3.91
178 179 0.251653 ACACTCTCCCCTCGTTGCTA 60.252 55.000 0.00 0.00 0.00 3.49
179 180 1.115467 CACTCTCCCCTCGTTGCTAT 58.885 55.000 0.00 0.00 0.00 2.97
180 181 1.115467 ACTCTCCCCTCGTTGCTATG 58.885 55.000 0.00 0.00 0.00 2.23
181 182 0.249657 CTCTCCCCTCGTTGCTATGC 60.250 60.000 0.00 0.00 0.00 3.14
182 183 0.975556 TCTCCCCTCGTTGCTATGCA 60.976 55.000 0.00 0.00 36.47 3.96
183 184 0.107456 CTCCCCTCGTTGCTATGCAT 59.893 55.000 3.79 3.79 38.76 3.96
184 185 0.106708 TCCCCTCGTTGCTATGCATC 59.893 55.000 0.19 0.00 38.76 3.91
185 186 0.179048 CCCCTCGTTGCTATGCATCA 60.179 55.000 0.19 0.00 38.76 3.07
186 187 0.940126 CCCTCGTTGCTATGCATCAC 59.060 55.000 0.19 0.00 38.76 3.06
187 188 0.940126 CCTCGTTGCTATGCATCACC 59.060 55.000 0.19 0.00 38.76 4.02
188 189 1.655484 CTCGTTGCTATGCATCACCA 58.345 50.000 0.19 0.00 38.76 4.17
189 190 2.216046 CTCGTTGCTATGCATCACCAT 58.784 47.619 0.19 0.00 38.76 3.55
190 191 1.941975 TCGTTGCTATGCATCACCATG 59.058 47.619 0.19 0.00 38.76 3.66
191 192 1.941975 CGTTGCTATGCATCACCATGA 59.058 47.619 0.19 0.00 38.76 3.07
192 193 2.551032 CGTTGCTATGCATCACCATGAT 59.449 45.455 0.19 0.00 38.76 2.45
193 194 3.364664 CGTTGCTATGCATCACCATGATC 60.365 47.826 0.19 0.00 38.76 2.92
194 195 3.782656 TGCTATGCATCACCATGATCT 57.217 42.857 0.19 0.00 34.28 2.75
195 196 4.094830 TGCTATGCATCACCATGATCTT 57.905 40.909 0.19 0.00 34.28 2.40
196 197 3.818773 TGCTATGCATCACCATGATCTTG 59.181 43.478 0.19 1.60 34.28 3.02
197 198 3.366070 GCTATGCATCACCATGATCTTGC 60.366 47.826 0.19 0.00 34.28 4.01
198 199 1.018910 TGCATCACCATGATCTTGCG 58.981 50.000 3.07 0.30 34.28 4.85
199 200 1.019673 GCATCACCATGATCTTGCGT 58.980 50.000 3.07 0.87 34.28 5.24
200 201 1.268386 GCATCACCATGATCTTGCGTG 60.268 52.381 17.02 17.02 34.28 5.34
201 202 2.011947 CATCACCATGATCTTGCGTGT 58.988 47.619 19.89 6.63 34.28 4.49
202 203 1.441738 TCACCATGATCTTGCGTGTG 58.558 50.000 19.89 14.96 0.00 3.82
203 204 0.179181 CACCATGATCTTGCGTGTGC 60.179 55.000 15.81 0.00 43.20 4.57
215 216 2.325509 GCGTGTGCGTAGGAAATTTT 57.674 45.000 0.00 0.00 40.81 1.82
216 217 2.657184 GCGTGTGCGTAGGAAATTTTT 58.343 42.857 0.00 0.00 40.81 1.94
236 237 6.956202 TTTTTGAAATTACTACGTTCCCCA 57.044 33.333 0.00 0.00 0.00 4.96
237 238 6.956202 TTTTGAAATTACTACGTTCCCCAA 57.044 33.333 0.00 0.00 0.00 4.12
238 239 5.945466 TTGAAATTACTACGTTCCCCAAC 57.055 39.130 0.00 0.00 0.00 3.77
248 249 2.009774 CGTTCCCCAACAGCTAAGATG 58.990 52.381 0.00 0.00 32.14 2.90
275 276 3.285215 CGGCCATGGCAGATGCTC 61.285 66.667 36.56 17.19 44.11 4.26
319 320 1.525535 GCTCCATTGCAGCTCCGAT 60.526 57.895 0.00 0.00 33.75 4.18
564 576 1.349542 TGCAGTAGGGTGGTTGGTGT 61.350 55.000 0.00 0.00 0.00 4.16
578 590 0.607217 TGGTGTCGTCGCTCCTTCTA 60.607 55.000 8.50 0.00 0.00 2.10
759 774 6.183360 CGCACGGTTTATCTTTCTCTGTTATT 60.183 38.462 0.00 0.00 0.00 1.40
1477 4096 2.831685 ATTATCTACGGCGATGGCAA 57.168 45.000 16.62 1.84 42.47 4.52
1509 4128 1.228337 AGCAGCAGCATCACCAACA 60.228 52.632 3.17 0.00 45.49 3.33
1541 4160 1.684983 CATTCCATCAGGGCCATGTTC 59.315 52.381 18.43 0.00 36.21 3.18
1552 4171 2.434884 CATGTTCACGGCGGCTCT 60.435 61.111 13.24 0.00 0.00 4.09
1587 4206 3.506810 GACTCAAAGTGGACTCTCATCG 58.493 50.000 0.00 0.00 0.00 3.84
1591 4210 2.989840 CAAAGTGGACTCTCATCGACAC 59.010 50.000 0.00 0.00 30.28 3.67
1690 4477 4.262207 CGGTAGTATCTTGCAGGTCATCAT 60.262 45.833 0.00 0.00 0.00 2.45
1979 4772 1.447317 CGCCCAATAGCTTCGCCATT 61.447 55.000 0.00 0.00 0.00 3.16
1980 4773 0.746659 GCCCAATAGCTTCGCCATTT 59.253 50.000 0.00 0.00 0.00 2.32
1982 4775 2.558359 GCCCAATAGCTTCGCCATTTAT 59.442 45.455 0.00 0.00 0.00 1.40
1983 4776 3.756434 GCCCAATAGCTTCGCCATTTATA 59.244 43.478 0.00 0.00 0.00 0.98
2220 5264 4.510167 AGCCTACCAAGCATTATTCACT 57.490 40.909 0.00 0.00 0.00 3.41
2271 5315 2.680841 GTGATGGTGCGTAATTTGCCTA 59.319 45.455 0.54 0.00 0.00 3.93
2513 5557 1.356527 GGTACCACCAACGACATCGC 61.357 60.000 7.15 0.00 39.74 4.58
2576 5620 8.579850 TTCTTGCTTGTATTTGTATCCAAGAT 57.420 30.769 0.00 0.00 37.75 2.40
2586 5630 9.046296 GTATTTGTATCCAAGATGATTCGTCTT 57.954 33.333 14.16 14.16 39.93 3.01
2634 5678 3.696281 TGCATAATTGGTTGCATCTCG 57.304 42.857 8.05 0.00 43.54 4.04
2641 5686 1.368641 TGGTTGCATCTCGAAATCGG 58.631 50.000 2.63 0.00 40.29 4.18
3181 6244 5.586243 ACCATGTGTAGCTGCATAAGTTAAG 59.414 40.000 8.05 0.00 0.00 1.85
3182 6245 5.504665 CCATGTGTAGCTGCATAAGTTAAGC 60.505 44.000 8.05 3.15 35.86 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.389817 TCCGATCCAGCAAAGTGTCG 60.390 55.000 0.00 0.00 0.00 4.35
1 2 1.338200 ACTCCGATCCAGCAAAGTGTC 60.338 52.381 0.00 0.00 0.00 3.67
2 3 0.687354 ACTCCGATCCAGCAAAGTGT 59.313 50.000 0.00 0.00 0.00 3.55
4 5 0.250513 GGACTCCGATCCAGCAAAGT 59.749 55.000 0.00 0.00 38.77 2.66
5 6 3.071580 GGACTCCGATCCAGCAAAG 57.928 57.895 0.00 0.00 38.77 2.77
17 18 1.807495 GATGACGATCCCCGGACTCC 61.807 65.000 0.73 0.00 43.93 3.85
18 19 1.660917 GATGACGATCCCCGGACTC 59.339 63.158 0.73 0.00 43.93 3.36
19 20 2.194212 CGATGACGATCCCCGGACT 61.194 63.158 0.73 0.00 43.93 3.85
20 21 2.191513 TCGATGACGATCCCCGGAC 61.192 63.158 0.73 0.00 43.81 4.79
21 22 2.193786 TCGATGACGATCCCCGGA 59.806 61.111 0.73 0.00 43.81 5.14
29 30 0.454452 CACGTTCAGCTCGATGACGA 60.454 55.000 13.59 0.00 46.56 4.20
30 31 0.729478 ACACGTTCAGCTCGATGACG 60.729 55.000 0.00 4.93 41.26 4.35
31 32 0.710567 CACACGTTCAGCTCGATGAC 59.289 55.000 0.00 0.00 0.00 3.06
32 33 1.008875 GCACACGTTCAGCTCGATGA 61.009 55.000 0.00 0.00 0.00 2.92
33 34 1.010935 AGCACACGTTCAGCTCGATG 61.011 55.000 0.00 0.07 32.05 3.84
34 35 0.526211 TAGCACACGTTCAGCTCGAT 59.474 50.000 9.17 0.00 39.68 3.59
35 36 0.109735 CTAGCACACGTTCAGCTCGA 60.110 55.000 9.17 0.00 39.68 4.04
36 37 0.109735 TCTAGCACACGTTCAGCTCG 60.110 55.000 9.17 4.49 39.68 5.03
37 38 1.721926 GTTCTAGCACACGTTCAGCTC 59.278 52.381 9.17 0.00 39.68 4.09
38 39 1.341531 AGTTCTAGCACACGTTCAGCT 59.658 47.619 10.52 10.52 42.14 4.24
39 40 1.721926 GAGTTCTAGCACACGTTCAGC 59.278 52.381 0.00 0.00 0.00 4.26
40 41 1.979469 CGAGTTCTAGCACACGTTCAG 59.021 52.381 4.36 0.00 0.00 3.02
41 42 1.335597 CCGAGTTCTAGCACACGTTCA 60.336 52.381 10.84 0.00 0.00 3.18
42 43 1.068748 TCCGAGTTCTAGCACACGTTC 60.069 52.381 10.84 0.00 0.00 3.95
43 44 0.956633 TCCGAGTTCTAGCACACGTT 59.043 50.000 10.84 0.00 0.00 3.99
44 45 0.522180 CTCCGAGTTCTAGCACACGT 59.478 55.000 10.84 0.00 0.00 4.49
45 46 0.179161 CCTCCGAGTTCTAGCACACG 60.179 60.000 5.46 5.46 0.00 4.49
46 47 0.889306 ACCTCCGAGTTCTAGCACAC 59.111 55.000 0.00 0.00 0.00 3.82
47 48 0.888619 CACCTCCGAGTTCTAGCACA 59.111 55.000 0.00 0.00 0.00 4.57
48 49 0.458716 GCACCTCCGAGTTCTAGCAC 60.459 60.000 0.00 0.00 0.00 4.40
49 50 1.605058 GGCACCTCCGAGTTCTAGCA 61.605 60.000 0.00 0.00 0.00 3.49
50 51 1.142097 GGCACCTCCGAGTTCTAGC 59.858 63.158 0.00 0.00 0.00 3.42
60 61 0.252197 ATGGAAACTACGGCACCTCC 59.748 55.000 0.00 0.00 0.00 4.30
61 62 1.369625 CATGGAAACTACGGCACCTC 58.630 55.000 0.00 0.00 0.00 3.85
62 63 0.676782 GCATGGAAACTACGGCACCT 60.677 55.000 0.00 0.00 0.00 4.00
63 64 0.676782 AGCATGGAAACTACGGCACC 60.677 55.000 0.00 0.00 0.00 5.01
64 65 1.135689 CAAGCATGGAAACTACGGCAC 60.136 52.381 0.00 0.00 0.00 5.01
65 66 1.164411 CAAGCATGGAAACTACGGCA 58.836 50.000 0.00 0.00 0.00 5.69
66 67 1.448985 TCAAGCATGGAAACTACGGC 58.551 50.000 0.00 0.00 0.00 5.68
67 68 2.285220 CGATCAAGCATGGAAACTACGG 59.715 50.000 0.00 0.00 0.00 4.02
68 69 2.285220 CCGATCAAGCATGGAAACTACG 59.715 50.000 0.00 0.00 0.00 3.51
69 70 3.270877 ACCGATCAAGCATGGAAACTAC 58.729 45.455 0.00 0.00 0.00 2.73
70 71 3.531538 GACCGATCAAGCATGGAAACTA 58.468 45.455 0.00 0.00 0.00 2.24
71 72 2.359900 GACCGATCAAGCATGGAAACT 58.640 47.619 0.00 0.00 0.00 2.66
72 73 1.062587 CGACCGATCAAGCATGGAAAC 59.937 52.381 0.00 0.00 0.00 2.78
73 74 1.368641 CGACCGATCAAGCATGGAAA 58.631 50.000 0.00 0.00 0.00 3.13
74 75 0.461870 CCGACCGATCAAGCATGGAA 60.462 55.000 0.00 0.00 0.00 3.53
75 76 1.143838 CCGACCGATCAAGCATGGA 59.856 57.895 0.00 0.00 0.00 3.41
76 77 1.889105 CCCGACCGATCAAGCATGG 60.889 63.158 0.00 0.00 0.00 3.66
77 78 2.537560 GCCCGACCGATCAAGCATG 61.538 63.158 0.00 0.00 0.00 4.06
78 79 2.203070 GCCCGACCGATCAAGCAT 60.203 61.111 0.00 0.00 0.00 3.79
79 80 4.467084 GGCCCGACCGATCAAGCA 62.467 66.667 0.00 0.00 0.00 3.91
97 98 4.332186 TGATGTAGTCGTACGTCTTCAC 57.668 45.455 19.61 13.19 43.23 3.18
98 99 4.378770 GGTTGATGTAGTCGTACGTCTTCA 60.379 45.833 19.61 19.79 43.23 3.02
99 100 4.094212 GGTTGATGTAGTCGTACGTCTTC 58.906 47.826 19.61 15.02 43.23 2.87
100 101 3.503363 TGGTTGATGTAGTCGTACGTCTT 59.497 43.478 19.61 2.66 43.23 3.01
101 102 3.076621 TGGTTGATGTAGTCGTACGTCT 58.923 45.455 18.54 18.54 43.23 4.18
102 103 3.476295 TGGTTGATGTAGTCGTACGTC 57.524 47.619 16.05 10.06 43.16 4.34
103 104 3.921119 TTGGTTGATGTAGTCGTACGT 57.079 42.857 16.05 0.00 30.95 3.57
104 105 3.058520 CGTTTGGTTGATGTAGTCGTACG 59.941 47.826 9.53 9.53 30.95 3.67
105 106 3.181537 GCGTTTGGTTGATGTAGTCGTAC 60.182 47.826 0.00 0.00 0.00 3.67
106 107 2.988493 GCGTTTGGTTGATGTAGTCGTA 59.012 45.455 0.00 0.00 0.00 3.43
107 108 1.796459 GCGTTTGGTTGATGTAGTCGT 59.204 47.619 0.00 0.00 0.00 4.34
108 109 2.066262 AGCGTTTGGTTGATGTAGTCG 58.934 47.619 0.00 0.00 0.00 4.18
109 110 3.120304 GGAAGCGTTTGGTTGATGTAGTC 60.120 47.826 0.00 0.00 35.57 2.59
110 111 2.812011 GGAAGCGTTTGGTTGATGTAGT 59.188 45.455 0.00 0.00 35.57 2.73
111 112 2.159707 CGGAAGCGTTTGGTTGATGTAG 60.160 50.000 0.00 0.00 35.57 2.74
112 113 1.801771 CGGAAGCGTTTGGTTGATGTA 59.198 47.619 0.00 0.00 35.57 2.29
113 114 0.591170 CGGAAGCGTTTGGTTGATGT 59.409 50.000 0.00 0.00 35.57 3.06
114 115 0.591170 ACGGAAGCGTTTGGTTGATG 59.409 50.000 0.00 0.00 35.57 3.07
115 116 1.001815 CAACGGAAGCGTTTGGTTGAT 60.002 47.619 15.84 0.00 40.16 2.57
116 117 0.378962 CAACGGAAGCGTTTGGTTGA 59.621 50.000 15.84 0.00 40.16 3.18
117 118 0.099791 ACAACGGAAGCGTTTGGTTG 59.900 50.000 17.97 17.97 42.63 3.77
118 119 0.379316 GACAACGGAAGCGTTTGGTT 59.621 50.000 0.00 0.00 38.83 3.67
119 120 1.768112 CGACAACGGAAGCGTTTGGT 61.768 55.000 0.00 0.00 35.72 3.67
120 121 1.083015 CGACAACGGAAGCGTTTGG 60.083 57.895 0.00 0.00 35.72 3.28
121 122 0.511221 ATCGACAACGGAAGCGTTTG 59.489 50.000 0.00 0.00 40.21 2.93
122 123 0.788391 GATCGACAACGGAAGCGTTT 59.212 50.000 0.00 0.00 40.21 3.60
123 124 0.038526 AGATCGACAACGGAAGCGTT 60.039 50.000 0.00 0.00 40.21 4.84
124 125 0.806868 TAGATCGACAACGGAAGCGT 59.193 50.000 0.00 0.00 40.21 5.07
125 126 1.189403 GTAGATCGACAACGGAAGCG 58.811 55.000 0.53 0.00 40.21 4.68
126 127 2.273370 TGTAGATCGACAACGGAAGC 57.727 50.000 6.15 0.00 40.21 3.86
127 128 3.179830 CCTTGTAGATCGACAACGGAAG 58.820 50.000 21.52 12.05 40.21 3.46
128 129 2.559668 ACCTTGTAGATCGACAACGGAA 59.440 45.455 27.44 9.50 40.21 4.30
129 130 2.165167 ACCTTGTAGATCGACAACGGA 58.835 47.619 27.44 9.78 40.21 4.69
130 131 2.649331 ACCTTGTAGATCGACAACGG 57.351 50.000 23.00 23.00 40.21 4.44
131 132 4.669318 ACATACCTTGTAGATCGACAACG 58.331 43.478 16.32 14.67 36.57 4.10
142 143 6.546403 GGAGAGTGTGATCTACATACCTTGTA 59.454 42.308 0.00 0.00 42.24 2.41
143 144 5.361285 GGAGAGTGTGATCTACATACCTTGT 59.639 44.000 0.00 0.00 42.24 3.16
144 145 5.221342 GGGAGAGTGTGATCTACATACCTTG 60.221 48.000 0.00 0.00 42.24 3.61
145 146 4.896482 GGGAGAGTGTGATCTACATACCTT 59.104 45.833 0.00 0.00 42.24 3.50
146 147 4.475345 GGGAGAGTGTGATCTACATACCT 58.525 47.826 0.00 0.00 42.24 3.08
147 148 3.574826 GGGGAGAGTGTGATCTACATACC 59.425 52.174 0.00 0.00 42.24 2.73
148 149 4.475345 AGGGGAGAGTGTGATCTACATAC 58.525 47.826 0.00 0.00 42.24 2.39
149 150 4.730966 GAGGGGAGAGTGTGATCTACATA 58.269 47.826 0.00 0.00 42.24 2.29
150 151 3.571590 GAGGGGAGAGTGTGATCTACAT 58.428 50.000 0.00 0.00 42.24 2.29
151 152 2.684038 CGAGGGGAGAGTGTGATCTACA 60.684 54.545 0.00 0.00 36.82 2.74
152 153 1.950909 CGAGGGGAGAGTGTGATCTAC 59.049 57.143 0.00 0.00 0.00 2.59
153 154 1.564818 ACGAGGGGAGAGTGTGATCTA 59.435 52.381 0.00 0.00 0.00 1.98
154 155 0.333312 ACGAGGGGAGAGTGTGATCT 59.667 55.000 0.00 0.00 0.00 2.75
155 156 1.134965 CAACGAGGGGAGAGTGTGATC 60.135 57.143 0.00 0.00 0.00 2.92
156 157 0.898320 CAACGAGGGGAGAGTGTGAT 59.102 55.000 0.00 0.00 0.00 3.06
157 158 1.816863 GCAACGAGGGGAGAGTGTGA 61.817 60.000 0.00 0.00 0.00 3.58
158 159 1.374758 GCAACGAGGGGAGAGTGTG 60.375 63.158 0.00 0.00 0.00 3.82
159 160 0.251653 TAGCAACGAGGGGAGAGTGT 60.252 55.000 0.00 0.00 0.00 3.55
160 161 1.115467 ATAGCAACGAGGGGAGAGTG 58.885 55.000 0.00 0.00 0.00 3.51
161 162 1.115467 CATAGCAACGAGGGGAGAGT 58.885 55.000 0.00 0.00 0.00 3.24
162 163 0.249657 GCATAGCAACGAGGGGAGAG 60.250 60.000 0.00 0.00 0.00 3.20
163 164 0.975556 TGCATAGCAACGAGGGGAGA 60.976 55.000 0.00 0.00 34.76 3.71
164 165 0.107456 ATGCATAGCAACGAGGGGAG 59.893 55.000 0.00 0.00 43.62 4.30
165 166 0.106708 GATGCATAGCAACGAGGGGA 59.893 55.000 0.00 0.00 43.62 4.81
166 167 0.179048 TGATGCATAGCAACGAGGGG 60.179 55.000 0.00 0.00 43.62 4.79
167 168 0.940126 GTGATGCATAGCAACGAGGG 59.060 55.000 0.00 0.00 43.62 4.30
168 169 0.940126 GGTGATGCATAGCAACGAGG 59.060 55.000 0.00 0.00 43.62 4.63
169 170 1.655484 TGGTGATGCATAGCAACGAG 58.345 50.000 0.00 0.00 43.62 4.18
170 171 1.941975 CATGGTGATGCATAGCAACGA 59.058 47.619 0.00 0.00 43.62 3.85
171 172 1.941975 TCATGGTGATGCATAGCAACG 59.058 47.619 0.00 1.35 43.62 4.10
172 173 3.819337 AGATCATGGTGATGCATAGCAAC 59.181 43.478 0.00 0.00 43.62 4.17
173 174 4.094830 AGATCATGGTGATGCATAGCAA 57.905 40.909 0.00 0.00 43.62 3.91
174 175 3.782656 AGATCATGGTGATGCATAGCA 57.217 42.857 0.00 4.86 44.86 3.49
175 176 3.366070 GCAAGATCATGGTGATGCATAGC 60.366 47.826 0.00 0.00 37.20 2.97
176 177 3.120304 CGCAAGATCATGGTGATGCATAG 60.120 47.826 0.00 0.00 37.20 2.23
177 178 2.809696 CGCAAGATCATGGTGATGCATA 59.190 45.455 0.00 0.00 37.20 3.14
178 179 1.607148 CGCAAGATCATGGTGATGCAT 59.393 47.619 0.00 0.00 37.20 3.96
179 180 1.018910 CGCAAGATCATGGTGATGCA 58.981 50.000 11.83 0.00 37.20 3.96
180 181 1.019673 ACGCAAGATCATGGTGATGC 58.980 50.000 0.00 3.06 37.20 3.91
181 182 2.011947 ACACGCAAGATCATGGTGATG 58.988 47.619 19.56 8.58 37.20 3.07
182 183 2.011947 CACACGCAAGATCATGGTGAT 58.988 47.619 19.56 0.00 40.34 3.06
183 184 1.441738 CACACGCAAGATCATGGTGA 58.558 50.000 19.56 0.00 43.62 4.02
184 185 0.179181 GCACACGCAAGATCATGGTG 60.179 55.000 14.17 14.17 43.62 4.17
185 186 1.638388 CGCACACGCAAGATCATGGT 61.638 55.000 0.00 0.00 43.62 3.55
186 187 1.061411 CGCACACGCAAGATCATGG 59.939 57.895 0.00 0.00 43.62 3.66
187 188 0.998669 TACGCACACGCAAGATCATG 59.001 50.000 0.00 0.00 45.53 3.07
188 189 1.280982 CTACGCACACGCAAGATCAT 58.719 50.000 0.00 0.00 45.53 2.45
189 190 0.735978 CCTACGCACACGCAAGATCA 60.736 55.000 0.00 0.00 45.53 2.92
190 191 0.457853 TCCTACGCACACGCAAGATC 60.458 55.000 0.00 0.00 45.53 2.75
191 192 0.037697 TTCCTACGCACACGCAAGAT 60.038 50.000 0.00 0.00 45.53 2.40
192 193 0.249531 TTTCCTACGCACACGCAAGA 60.250 50.000 0.00 0.00 45.53 3.02
193 194 0.796312 ATTTCCTACGCACACGCAAG 59.204 50.000 0.00 0.00 45.53 4.01
194 195 1.231221 AATTTCCTACGCACACGCAA 58.769 45.000 0.00 0.00 45.53 4.85
195 196 1.231221 AAATTTCCTACGCACACGCA 58.769 45.000 0.00 0.00 45.53 5.24
196 197 2.325509 AAAATTTCCTACGCACACGC 57.674 45.000 0.00 0.00 45.53 5.34
213 214 6.956202 TGGGGAACGTAGTAATTTCAAAAA 57.044 33.333 0.00 0.00 45.00 1.94
214 215 6.320672 TGTTGGGGAACGTAGTAATTTCAAAA 59.679 34.615 0.00 0.00 45.00 2.44
215 216 5.826737 TGTTGGGGAACGTAGTAATTTCAAA 59.173 36.000 0.00 0.00 45.00 2.69
216 217 5.374921 TGTTGGGGAACGTAGTAATTTCAA 58.625 37.500 0.00 0.00 45.00 2.69
217 218 4.970711 TGTTGGGGAACGTAGTAATTTCA 58.029 39.130 0.00 0.00 45.00 2.69
218 219 4.142752 GCTGTTGGGGAACGTAGTAATTTC 60.143 45.833 0.00 0.00 45.00 2.17
219 220 3.754850 GCTGTTGGGGAACGTAGTAATTT 59.245 43.478 0.00 0.00 45.00 1.82
220 221 3.008704 AGCTGTTGGGGAACGTAGTAATT 59.991 43.478 0.00 0.00 45.00 1.40
221 222 2.570302 AGCTGTTGGGGAACGTAGTAAT 59.430 45.455 0.00 0.00 45.00 1.89
222 223 1.972795 AGCTGTTGGGGAACGTAGTAA 59.027 47.619 0.00 0.00 45.00 2.24
223 224 1.636148 AGCTGTTGGGGAACGTAGTA 58.364 50.000 0.00 0.00 45.00 1.82
225 226 2.232941 TCTTAGCTGTTGGGGAACGTAG 59.767 50.000 0.00 0.00 0.00 3.51
226 227 2.250031 TCTTAGCTGTTGGGGAACGTA 58.750 47.619 0.00 0.00 0.00 3.57
227 228 1.053424 TCTTAGCTGTTGGGGAACGT 58.947 50.000 0.00 0.00 0.00 3.99
228 229 2.009774 CATCTTAGCTGTTGGGGAACG 58.990 52.381 0.00 0.00 0.00 3.95
229 230 1.745653 GCATCTTAGCTGTTGGGGAAC 59.254 52.381 0.00 0.00 0.00 3.62
230 231 1.354031 TGCATCTTAGCTGTTGGGGAA 59.646 47.619 0.00 0.00 34.99 3.97
231 232 0.991146 TGCATCTTAGCTGTTGGGGA 59.009 50.000 0.00 0.00 34.99 4.81
232 233 1.386533 CTGCATCTTAGCTGTTGGGG 58.613 55.000 0.00 0.00 34.99 4.96
233 234 0.737219 GCTGCATCTTAGCTGTTGGG 59.263 55.000 0.00 0.00 38.14 4.12
234 235 0.376152 CGCTGCATCTTAGCTGTTGG 59.624 55.000 0.00 0.00 39.00 3.77
235 236 0.247974 GCGCTGCATCTTAGCTGTTG 60.248 55.000 0.00 0.00 39.00 3.33
236 237 1.372087 GGCGCTGCATCTTAGCTGTT 61.372 55.000 7.64 0.00 39.00 3.16
237 238 1.817099 GGCGCTGCATCTTAGCTGT 60.817 57.895 7.64 0.00 39.00 4.40
238 239 1.523258 AGGCGCTGCATCTTAGCTG 60.523 57.895 7.64 0.00 39.00 4.24
319 320 1.301401 GTGCTACAAGTCACCGGCA 60.301 57.895 0.00 0.00 0.00 5.69
375 376 0.654683 GACGCAGCAACTCATCCATC 59.345 55.000 0.00 0.00 0.00 3.51
524 536 1.774254 TCCCGTGGCATAATGAAGGAT 59.226 47.619 0.00 0.00 0.00 3.24
564 576 0.725686 CGAACTAGAAGGAGCGACGA 59.274 55.000 0.00 0.00 0.00 4.20
578 590 1.072331 ACAAGTCCATGGAAGCGAACT 59.928 47.619 18.20 5.78 0.00 3.01
759 774 8.383175 AGGAAAACATTTAGAATCCACTAGACA 58.617 33.333 0.00 0.00 0.00 3.41
1509 4128 5.339282 CCCTGATGGAATGATCATAGCTGAT 60.339 44.000 9.04 0.00 39.85 2.90
1552 4171 4.270153 AGTCCCCAGGGTGCAGGA 62.270 66.667 4.22 0.00 36.47 3.86
1587 4206 2.792674 TGACGTCATCAAAAGTCGTGTC 59.207 45.455 15.76 0.00 36.49 3.67
2024 5060 8.924303 AGGTACAGCTGTATTAACTTGATATGA 58.076 33.333 28.37 0.00 32.54 2.15
2271 5315 1.224592 GGGAGCCATTCACCGTGAT 59.775 57.895 1.09 0.00 0.00 3.06
2513 5557 6.878923 TGTAGTTGTGATGTTAAGATGGAAGG 59.121 38.462 0.00 0.00 0.00 3.46
2576 5620 6.285224 TCAACTTGGAGTAAAAGACGAATCA 58.715 36.000 0.00 0.00 0.00 2.57
2586 5630 9.547753 GCAGAGATTATATCAACTTGGAGTAAA 57.452 33.333 0.00 0.00 0.00 2.01
2604 5648 5.597806 CAACCAATTATGCATGCAGAGATT 58.402 37.500 26.69 20.34 0.00 2.40
2634 5678 6.823678 ACGACATTCTACATAACCGATTTC 57.176 37.500 0.00 0.00 0.00 2.17
2641 5686 7.650504 TGCTTATGGTACGACATTCTACATAAC 59.349 37.037 0.00 0.00 32.39 1.89
2686 5747 6.316140 TCATTGTAGCGCATGAGAGTAAATTT 59.684 34.615 11.47 0.00 0.00 1.82
3008 6070 3.071023 ACATCGAGACAAGGAAGTTTGGA 59.929 43.478 0.00 0.00 32.32 3.53
3181 6244 3.858247 AGGGAATAACTAACTGTGACGC 58.142 45.455 0.00 0.00 0.00 5.19
3182 6245 5.326200 AGAGGGAATAACTAACTGTGACG 57.674 43.478 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.