Multiple sequence alignment - TraesCS2B01G614700

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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 TraesCS2B01G614700 chr2B 100.000 2417 0 0 1 2417 793280593 793278177 0.000000e+00 4464.0
1 TraesCS2B01G614700 chr2B 83.524 613 74 16 783 1390 793262915 793262325 4.540000e-152 547.0
2 TraesCS2B01G614700 chr2B 78.302 212 26 11 299 494 699213545 699213338 4.220000e-23 119.0
3 TraesCS2B01G614700 chr2B 77.561 205 28 10 299 489 676862443 676862643 9.140000e-20 108.0
4 TraesCS2B01G614700 chr2B 82.727 110 16 3 299 406 655785152 655785044 7.110000e-16 95.3
5 TraesCS2B01G614700 chr2D 95.972 1018 35 4 1398 2414 643826191 643827203 0.000000e+00 1648.0
6 TraesCS2B01G614700 chr2D 94.776 670 27 3 736 1397 643825481 643826150 0.000000e+00 1037.0
7 TraesCS2B01G614700 chr2D 83.624 745 91 16 652 1390 643841177 643841896 0.000000e+00 671.0
8 TraesCS2B01G614700 chr2D 84.787 447 33 11 325 755 643825041 643825468 1.340000e-112 416.0
9 TraesCS2B01G614700 chr2D 75.348 718 141 30 941 1629 584306877 584306167 1.800000e-81 313.0
10 TraesCS2B01G614700 chr2D 80.798 401 62 12 1000 1390 584295851 584295456 1.400000e-77 300.0
11 TraesCS2B01G614700 chr2D 79.812 213 28 5 300 499 556955696 556955906 9.010000e-30 141.0
12 TraesCS2B01G614700 chr2D 84.762 105 13 3 299 401 548739652 548739549 4.250000e-18 102.0
13 TraesCS2B01G614700 chr2A 95.163 1013 40 5 1398 2409 768691678 768692682 0.000000e+00 1591.0
14 TraesCS2B01G614700 chr2A 93.768 706 38 3 696 1397 768690934 768691637 0.000000e+00 1055.0
15 TraesCS2B01G614700 chr2A 80.849 1013 166 15 1409 2409 768720146 768721142 0.000000e+00 771.0
16 TraesCS2B01G614700 chr2A 83.712 749 91 17 652 1390 768719366 768720093 0.000000e+00 678.0
17 TraesCS2B01G614700 chr2A 81.658 398 62 8 1000 1390 718470255 718469862 1.080000e-83 320.0
18 TraesCS2B01G614700 chr2A 89.320 103 6 3 591 688 768683952 768684054 9.070000e-25 124.0
19 TraesCS2B01G614700 chr2A 88.158 76 8 1 120 194 768680119 768680194 3.310000e-14 89.8
20 TraesCS2B01G614700 chr7D 94.340 106 6 0 197 302 445953937 445954042 1.920000e-36 163.0
21 TraesCS2B01G614700 chr7D 89.189 74 6 2 299 371 1765690 1765762 9.200000e-15 91.6
22 TraesCS2B01G614700 chr5D 94.340 106 6 0 197 302 472804842 472804947 1.920000e-36 163.0
23 TraesCS2B01G614700 chr1A 95.192 104 4 1 197 300 113873982 113874084 1.920000e-36 163.0
24 TraesCS2B01G614700 chr4D 94.286 105 6 0 197 301 498756762 498756866 6.920000e-36 161.0
25 TraesCS2B01G614700 chr4D 93.396 106 7 0 197 302 63811766 63811871 8.950000e-35 158.0
26 TraesCS2B01G614700 chr4D 92.105 76 5 1 300 374 437033869 437033944 3.290000e-19 106.0
27 TraesCS2B01G614700 chr1B 92.793 111 8 0 192 302 542428465 542428355 6.920000e-36 161.0
28 TraesCS2B01G614700 chr1B 92.958 71 4 1 300 369 29397167 29397097 4.250000e-18 102.0
29 TraesCS2B01G614700 chr7B 93.396 106 7 0 197 302 340976028 340975923 8.950000e-35 158.0
30 TraesCS2B01G614700 chr6B 93.396 106 7 0 197 302 118047236 118047131 8.950000e-35 158.0
31 TraesCS2B01G614700 chr6B 93.396 106 7 0 197 302 309685831 309685726 8.950000e-35 158.0
32 TraesCS2B01G614700 chr6B 95.312 64 3 0 408 471 195123641 195123704 4.250000e-18 102.0
33 TraesCS2B01G614700 chr5B 93.396 106 7 0 197 302 320385797 320385692 8.950000e-35 158.0
34 TraesCS2B01G614700 chr5B 93.396 106 7 0 197 302 326580540 326580645 8.950000e-35 158.0
35 TraesCS2B01G614700 chr7A 79.710 207 27 4 302 495 169402562 169402766 4.190000e-28 135.0
36 TraesCS2B01G614700 chr7A 87.500 88 10 1 408 494 539407865 539407952 1.530000e-17 100.0
37 TraesCS2B01G614700 chr6D 79.412 204 27 7 299 489 107767480 107767681 1.950000e-26 130.0
38 TraesCS2B01G614700 chr6D 90.909 77 6 1 299 374 448504804 448504728 4.250000e-18 102.0
39 TraesCS2B01G614700 chr3A 79.602 201 26 7 301 488 712689589 712689787 1.950000e-26 130.0
40 TraesCS2B01G614700 chr3B 78.713 202 28 7 300 488 769476767 769476966 1.170000e-23 121.0
41 TraesCS2B01G614700 chr1D 90.909 77 6 1 299 374 11702183 11702107 4.250000e-18 102.0
42 TraesCS2B01G614700 chr5A 89.333 75 7 1 299 372 604946696 604946622 2.560000e-15 93.5


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 TraesCS2B01G614700 chr2B 793278177 793280593 2416 True 4464.000000 4464 100.0000 1 2417 1 chr2B.!!$R4 2416
1 TraesCS2B01G614700 chr2B 793262325 793262915 590 True 547.000000 547 83.5240 783 1390 1 chr2B.!!$R3 607
2 TraesCS2B01G614700 chr2D 643825041 643827203 2162 False 1033.666667 1648 91.8450 325 2414 3 chr2D.!!$F3 2089
3 TraesCS2B01G614700 chr2D 643841177 643841896 719 False 671.000000 671 83.6240 652 1390 1 chr2D.!!$F2 738
4 TraesCS2B01G614700 chr2D 584306167 584306877 710 True 313.000000 313 75.3480 941 1629 1 chr2D.!!$R3 688
5 TraesCS2B01G614700 chr2A 768690934 768692682 1748 False 1323.000000 1591 94.4655 696 2409 2 chr2A.!!$F2 1713
6 TraesCS2B01G614700 chr2A 768719366 768721142 1776 False 724.500000 771 82.2805 652 2409 2 chr2A.!!$F3 1757

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
168 169 0.034059 CGTTGGAGTGAGGTTCTGCT 59.966 55.0 0.0 0.0 0.00 4.24 F
187 188 0.108615 TGCTCCAGCGAAAGTCTAGC 60.109 55.0 0.0 0.0 45.83 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1270 1342 1.067495 GTGGTCGTCCAGAAGAGGAAG 60.067 57.143 0.19 0.0 45.24 3.46 R
1487 1608 1.070134 ACCATGATCATAACGACCCCG 59.930 52.381 8.15 0.0 42.50 5.73 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
23 24 3.344215 GCATCGATGGCAGCGAGG 61.344 66.667 31.93 31.93 41.49 4.63
24 25 2.107750 CATCGATGGCAGCGAGGT 59.892 61.111 31.67 14.81 41.49 3.85
25 26 2.107750 ATCGATGGCAGCGAGGTG 59.892 61.111 31.67 0.60 41.49 4.00
26 27 3.451556 ATCGATGGCAGCGAGGTGG 62.452 63.158 31.67 0.00 41.49 4.61
27 28 4.457496 CGATGGCAGCGAGGTGGT 62.457 66.667 22.19 0.00 0.00 4.16
28 29 2.512515 GATGGCAGCGAGGTGGTC 60.513 66.667 4.40 0.00 0.00 4.02
29 30 4.101448 ATGGCAGCGAGGTGGTCC 62.101 66.667 4.40 0.00 0.00 4.46
32 33 4.767255 GCAGCGAGGTGGTCCCTG 62.767 72.222 4.40 0.00 46.51 4.45
33 34 3.314331 CAGCGAGGTGGTCCCTGT 61.314 66.667 0.00 0.00 46.51 4.00
34 35 1.982395 CAGCGAGGTGGTCCCTGTA 60.982 63.158 0.00 0.00 46.51 2.74
35 36 1.982938 AGCGAGGTGGTCCCTGTAC 60.983 63.158 0.00 0.00 46.51 2.90
36 37 2.280552 GCGAGGTGGTCCCTGTACA 61.281 63.158 0.00 0.00 46.51 2.90
37 38 1.890894 CGAGGTGGTCCCTGTACAG 59.109 63.158 16.34 16.34 46.51 2.74
38 39 1.597461 GAGGTGGTCCCTGTACAGC 59.403 63.158 17.86 4.33 46.51 4.40
39 40 1.152118 AGGTGGTCCCTGTACAGCA 60.152 57.895 17.86 7.08 44.08 4.41
40 41 0.766674 AGGTGGTCCCTGTACAGCAA 60.767 55.000 17.86 4.34 44.08 3.91
41 42 0.328258 GGTGGTCCCTGTACAGCAAT 59.672 55.000 17.86 0.00 33.18 3.56
42 43 1.453155 GTGGTCCCTGTACAGCAATG 58.547 55.000 17.86 3.62 0.00 2.82
43 44 0.327924 TGGTCCCTGTACAGCAATGG 59.672 55.000 17.86 12.94 0.00 3.16
44 45 0.328258 GGTCCCTGTACAGCAATGGT 59.672 55.000 17.86 0.00 0.00 3.55
45 46 1.453155 GTCCCTGTACAGCAATGGTG 58.547 55.000 17.86 11.23 37.06 4.17
54 55 2.431260 GCAATGGTGCGGTTGCTG 60.431 61.111 3.07 0.00 45.41 4.41
55 56 3.041701 CAATGGTGCGGTTGCTGT 58.958 55.556 0.00 0.00 43.34 4.40
56 57 1.372004 CAATGGTGCGGTTGCTGTG 60.372 57.895 0.00 0.00 43.34 3.66
57 58 1.827789 AATGGTGCGGTTGCTGTGT 60.828 52.632 0.00 0.00 43.34 3.72
58 59 0.536233 AATGGTGCGGTTGCTGTGTA 60.536 50.000 0.00 0.00 43.34 2.90
59 60 0.955428 ATGGTGCGGTTGCTGTGTAG 60.955 55.000 0.00 0.00 43.34 2.74
60 61 2.325082 GGTGCGGTTGCTGTGTAGG 61.325 63.158 0.00 0.00 43.34 3.18
61 62 2.031919 TGCGGTTGCTGTGTAGGG 59.968 61.111 0.00 0.00 43.34 3.53
62 63 2.746277 GCGGTTGCTGTGTAGGGG 60.746 66.667 0.00 0.00 38.39 4.79
63 64 3.065306 CGGTTGCTGTGTAGGGGA 58.935 61.111 0.00 0.00 0.00 4.81
64 65 1.602237 CGGTTGCTGTGTAGGGGAT 59.398 57.895 0.00 0.00 0.00 3.85
65 66 0.744414 CGGTTGCTGTGTAGGGGATG 60.744 60.000 0.00 0.00 0.00 3.51
66 67 0.328258 GGTTGCTGTGTAGGGGATGT 59.672 55.000 0.00 0.00 0.00 3.06
67 68 1.557832 GGTTGCTGTGTAGGGGATGTA 59.442 52.381 0.00 0.00 0.00 2.29
68 69 2.629051 GTTGCTGTGTAGGGGATGTAC 58.371 52.381 0.00 0.00 0.00 2.90
69 70 0.821517 TGCTGTGTAGGGGATGTACG 59.178 55.000 0.00 0.00 0.00 3.67
70 71 0.104304 GCTGTGTAGGGGATGTACGG 59.896 60.000 0.00 0.00 0.00 4.02
71 72 0.750850 CTGTGTAGGGGATGTACGGG 59.249 60.000 0.00 0.00 0.00 5.28
72 73 0.041535 TGTGTAGGGGATGTACGGGT 59.958 55.000 0.00 0.00 0.00 5.28
73 74 1.197812 GTGTAGGGGATGTACGGGTT 58.802 55.000 0.00 0.00 0.00 4.11
74 75 2.292126 TGTGTAGGGGATGTACGGGTTA 60.292 50.000 0.00 0.00 0.00 2.85
75 76 2.363359 GTGTAGGGGATGTACGGGTTAG 59.637 54.545 0.00 0.00 0.00 2.34
76 77 2.024080 TGTAGGGGATGTACGGGTTAGT 60.024 50.000 0.00 0.00 0.00 2.24
77 78 1.492764 AGGGGATGTACGGGTTAGTG 58.507 55.000 0.00 0.00 0.00 2.74
78 79 0.466963 GGGGATGTACGGGTTAGTGG 59.533 60.000 0.00 0.00 0.00 4.00
79 80 1.488390 GGGATGTACGGGTTAGTGGA 58.512 55.000 0.00 0.00 0.00 4.02
80 81 1.411612 GGGATGTACGGGTTAGTGGAG 59.588 57.143 0.00 0.00 0.00 3.86
81 82 1.411612 GGATGTACGGGTTAGTGGAGG 59.588 57.143 0.00 0.00 0.00 4.30
82 83 2.105766 GATGTACGGGTTAGTGGAGGT 58.894 52.381 0.00 0.00 0.00 3.85
83 84 2.014010 TGTACGGGTTAGTGGAGGTT 57.986 50.000 0.00 0.00 0.00 3.50
84 85 1.895131 TGTACGGGTTAGTGGAGGTTC 59.105 52.381 0.00 0.00 0.00 3.62
85 86 1.135286 GTACGGGTTAGTGGAGGTTCG 60.135 57.143 0.00 0.00 0.00 3.95
86 87 0.540365 ACGGGTTAGTGGAGGTTCGA 60.540 55.000 0.00 0.00 0.00 3.71
87 88 0.172803 CGGGTTAGTGGAGGTTCGAG 59.827 60.000 0.00 0.00 0.00 4.04
88 89 0.108281 GGGTTAGTGGAGGTTCGAGC 60.108 60.000 0.00 0.00 0.00 5.03
89 90 0.458025 GGTTAGTGGAGGTTCGAGCG 60.458 60.000 0.00 0.00 0.00 5.03
90 91 0.243095 GTTAGTGGAGGTTCGAGCGT 59.757 55.000 0.00 0.00 0.00 5.07
91 92 0.963962 TTAGTGGAGGTTCGAGCGTT 59.036 50.000 0.00 0.00 0.00 4.84
92 93 0.242825 TAGTGGAGGTTCGAGCGTTG 59.757 55.000 0.00 0.00 0.00 4.10
93 94 2.027625 GTGGAGGTTCGAGCGTTGG 61.028 63.158 0.00 0.00 0.00 3.77
94 95 2.204461 TGGAGGTTCGAGCGTTGGA 61.204 57.895 0.00 0.00 0.00 3.53
95 96 1.446272 GGAGGTTCGAGCGTTGGAG 60.446 63.158 0.00 0.00 0.00 3.86
96 97 1.446272 GAGGTTCGAGCGTTGGAGG 60.446 63.158 0.00 0.00 0.00 4.30
97 98 2.156051 GAGGTTCGAGCGTTGGAGGT 62.156 60.000 0.00 0.00 0.00 3.85
98 99 2.027625 GGTTCGAGCGTTGGAGGTG 61.028 63.158 0.00 0.00 0.00 4.00
99 100 2.027625 GTTCGAGCGTTGGAGGTGG 61.028 63.158 0.00 0.00 0.00 4.61
100 101 2.504274 TTCGAGCGTTGGAGGTGGT 61.504 57.895 0.00 0.00 0.00 4.16
101 102 2.709125 TTCGAGCGTTGGAGGTGGTG 62.709 60.000 0.00 0.00 0.00 4.17
102 103 2.358737 GAGCGTTGGAGGTGGTGG 60.359 66.667 0.00 0.00 0.00 4.61
103 104 3.168528 AGCGTTGGAGGTGGTGGT 61.169 61.111 0.00 0.00 0.00 4.16
104 105 2.203294 GCGTTGGAGGTGGTGGTT 60.203 61.111 0.00 0.00 0.00 3.67
105 106 1.826487 GCGTTGGAGGTGGTGGTTT 60.826 57.895 0.00 0.00 0.00 3.27
106 107 1.388837 GCGTTGGAGGTGGTGGTTTT 61.389 55.000 0.00 0.00 0.00 2.43
107 108 1.107945 CGTTGGAGGTGGTGGTTTTT 58.892 50.000 0.00 0.00 0.00 1.94
126 127 1.327303 TTTTTGCGCTGATTGGAGGT 58.673 45.000 9.73 0.00 0.00 3.85
127 128 0.597568 TTTTGCGCTGATTGGAGGTG 59.402 50.000 9.73 0.00 0.00 4.00
128 129 1.243342 TTTGCGCTGATTGGAGGTGG 61.243 55.000 9.73 0.00 0.00 4.61
129 130 2.045926 GCGCTGATTGGAGGTGGT 60.046 61.111 0.00 0.00 0.00 4.16
130 131 2.401766 GCGCTGATTGGAGGTGGTG 61.402 63.158 0.00 0.00 0.00 4.17
131 132 1.746615 CGCTGATTGGAGGTGGTGG 60.747 63.158 0.00 0.00 0.00 4.61
132 133 1.380302 GCTGATTGGAGGTGGTGGT 59.620 57.895 0.00 0.00 0.00 4.16
133 134 0.251341 GCTGATTGGAGGTGGTGGTT 60.251 55.000 0.00 0.00 0.00 3.67
134 135 1.538047 CTGATTGGAGGTGGTGGTTG 58.462 55.000 0.00 0.00 0.00 3.77
135 136 0.112218 TGATTGGAGGTGGTGGTTGG 59.888 55.000 0.00 0.00 0.00 3.77
136 137 1.228862 ATTGGAGGTGGTGGTTGGC 60.229 57.895 0.00 0.00 0.00 4.52
137 138 3.783362 TTGGAGGTGGTGGTTGGCG 62.783 63.158 0.00 0.00 0.00 5.69
138 139 4.265056 GGAGGTGGTGGTTGGCGT 62.265 66.667 0.00 0.00 0.00 5.68
139 140 2.203294 GAGGTGGTGGTTGGCGTT 60.203 61.111 0.00 0.00 0.00 4.84
140 141 2.518349 AGGTGGTGGTTGGCGTTG 60.518 61.111 0.00 0.00 0.00 4.10
141 142 3.601685 GGTGGTGGTTGGCGTTGG 61.602 66.667 0.00 0.00 0.00 3.77
142 143 4.279043 GTGGTGGTTGGCGTTGGC 62.279 66.667 0.00 0.00 38.90 4.52
143 144 4.822628 TGGTGGTTGGCGTTGGCA 62.823 61.111 0.00 0.00 42.47 4.92
144 145 3.532155 GGTGGTTGGCGTTGGCAA 61.532 61.111 0.00 0.00 45.54 4.52
149 150 2.105930 TTGGCGTTGGCAAAGTGC 59.894 55.556 14.46 12.49 44.79 4.40
150 151 3.764810 TTGGCGTTGGCAAAGTGCG 62.765 57.895 14.46 9.10 46.21 5.34
151 152 4.264638 GGCGTTGGCAAAGTGCGT 62.265 61.111 14.46 0.00 46.21 5.24
152 153 2.278531 GCGTTGGCAAAGTGCGTT 60.279 55.556 14.46 0.00 46.21 4.84
153 154 2.576002 GCGTTGGCAAAGTGCGTTG 61.576 57.895 14.46 0.00 46.21 4.10
154 155 1.943693 CGTTGGCAAAGTGCGTTGG 60.944 57.895 0.00 0.00 46.21 3.77
155 156 1.435515 GTTGGCAAAGTGCGTTGGA 59.564 52.632 0.00 0.00 46.21 3.53
156 157 0.594796 GTTGGCAAAGTGCGTTGGAG 60.595 55.000 0.00 0.00 46.21 3.86
157 158 1.034838 TTGGCAAAGTGCGTTGGAGT 61.035 50.000 0.00 0.00 46.21 3.85
158 159 1.008538 GGCAAAGTGCGTTGGAGTG 60.009 57.895 0.63 0.00 46.21 3.51
159 160 1.444119 GGCAAAGTGCGTTGGAGTGA 61.444 55.000 0.63 0.00 46.21 3.41
160 161 0.040958 GCAAAGTGCGTTGGAGTGAG 60.041 55.000 0.63 0.00 31.71 3.51
161 162 0.588252 CAAAGTGCGTTGGAGTGAGG 59.412 55.000 0.00 0.00 0.00 3.86
162 163 0.180406 AAAGTGCGTTGGAGTGAGGT 59.820 50.000 0.00 0.00 0.00 3.85
163 164 0.180406 AAGTGCGTTGGAGTGAGGTT 59.820 50.000 0.00 0.00 0.00 3.50
164 165 0.249911 AGTGCGTTGGAGTGAGGTTC 60.250 55.000 0.00 0.00 0.00 3.62
165 166 0.249911 GTGCGTTGGAGTGAGGTTCT 60.250 55.000 0.00 0.00 0.00 3.01
166 167 0.249868 TGCGTTGGAGTGAGGTTCTG 60.250 55.000 0.00 0.00 0.00 3.02
167 168 1.569479 GCGTTGGAGTGAGGTTCTGC 61.569 60.000 0.00 0.00 0.00 4.26
168 169 0.034059 CGTTGGAGTGAGGTTCTGCT 59.966 55.000 0.00 0.00 0.00 4.24
169 170 1.517242 GTTGGAGTGAGGTTCTGCTG 58.483 55.000 0.00 0.00 0.00 4.41
170 171 0.250467 TTGGAGTGAGGTTCTGCTGC 60.250 55.000 0.00 0.00 0.00 5.25
171 172 1.123861 TGGAGTGAGGTTCTGCTGCT 61.124 55.000 0.00 0.00 0.00 4.24
172 173 0.390998 GGAGTGAGGTTCTGCTGCTC 60.391 60.000 0.00 0.00 0.00 4.26
173 174 0.390998 GAGTGAGGTTCTGCTGCTCC 60.391 60.000 0.00 0.00 0.00 4.70
174 175 1.123861 AGTGAGGTTCTGCTGCTCCA 61.124 55.000 0.00 0.00 0.00 3.86
175 176 0.673022 GTGAGGTTCTGCTGCTCCAG 60.673 60.000 0.00 0.00 34.12 3.86
186 187 1.919918 CTGCTCCAGCGAAAGTCTAG 58.080 55.000 0.00 0.00 45.83 2.43
187 188 0.108615 TGCTCCAGCGAAAGTCTAGC 60.109 55.000 0.00 0.00 45.83 3.42
188 189 0.808060 GCTCCAGCGAAAGTCTAGCC 60.808 60.000 0.00 0.00 0.00 3.93
189 190 0.526524 CTCCAGCGAAAGTCTAGCCG 60.527 60.000 0.00 0.00 0.00 5.52
190 191 1.519455 CCAGCGAAAGTCTAGCCGG 60.519 63.158 0.00 0.00 0.00 6.13
191 192 1.215647 CAGCGAAAGTCTAGCCGGT 59.784 57.895 1.90 0.00 0.00 5.28
192 193 1.078759 CAGCGAAAGTCTAGCCGGTG 61.079 60.000 1.90 0.00 42.56 4.94
193 194 2.453638 GCGAAAGTCTAGCCGGTGC 61.454 63.158 1.90 0.00 37.95 5.01
207 208 4.016113 GCCGGTGCTTTCAAATTAGTAG 57.984 45.455 1.90 0.00 33.53 2.57
208 209 3.730963 GCCGGTGCTTTCAAATTAGTAGC 60.731 47.826 1.90 0.00 33.53 3.58
209 210 3.438781 CCGGTGCTTTCAAATTAGTAGCA 59.561 43.478 0.00 0.00 39.35 3.49
210 211 4.096382 CCGGTGCTTTCAAATTAGTAGCAT 59.904 41.667 0.00 0.00 43.01 3.79
211 212 5.393027 CCGGTGCTTTCAAATTAGTAGCATT 60.393 40.000 0.00 0.00 43.01 3.56
212 213 6.183360 CCGGTGCTTTCAAATTAGTAGCATTA 60.183 38.462 0.00 0.00 43.01 1.90
213 214 6.907212 CGGTGCTTTCAAATTAGTAGCATTAG 59.093 38.462 0.00 0.00 43.01 1.73
214 215 7.201609 CGGTGCTTTCAAATTAGTAGCATTAGA 60.202 37.037 0.00 0.00 43.01 2.10
215 216 8.624776 GGTGCTTTCAAATTAGTAGCATTAGAT 58.375 33.333 0.00 0.00 43.01 1.98
256 257 8.761575 TTTTCATCATGCTCTTATTTGGTTTC 57.238 30.769 0.00 0.00 0.00 2.78
257 258 7.465353 TTCATCATGCTCTTATTTGGTTTCA 57.535 32.000 0.00 0.00 0.00 2.69
258 259 7.649533 TCATCATGCTCTTATTTGGTTTCAT 57.350 32.000 0.00 0.00 0.00 2.57
259 260 8.750515 TCATCATGCTCTTATTTGGTTTCATA 57.249 30.769 0.00 0.00 0.00 2.15
260 261 9.187996 TCATCATGCTCTTATTTGGTTTCATAA 57.812 29.630 0.00 0.00 0.00 1.90
261 262 9.806203 CATCATGCTCTTATTTGGTTTCATAAA 57.194 29.630 0.00 0.00 0.00 1.40
290 291 9.944663 TTGATATATTTTTGCATAAACTCGGTC 57.055 29.630 4.36 1.88 0.00 4.79
291 292 9.114952 TGATATATTTTTGCATAAACTCGGTCA 57.885 29.630 4.36 4.12 0.00 4.02
292 293 9.944663 GATATATTTTTGCATAAACTCGGTCAA 57.055 29.630 4.36 0.00 0.00 3.18
294 295 6.763303 ATTTTTGCATAAACTCGGTCAAAC 57.237 33.333 4.36 0.00 0.00 2.93
295 296 5.508200 TTTTGCATAAACTCGGTCAAACT 57.492 34.783 0.00 0.00 0.00 2.66
296 297 5.508200 TTTGCATAAACTCGGTCAAACTT 57.492 34.783 0.00 0.00 0.00 2.66
297 298 5.508200 TTGCATAAACTCGGTCAAACTTT 57.492 34.783 0.00 0.00 0.00 2.66
298 299 4.854399 TGCATAAACTCGGTCAAACTTTG 58.146 39.130 0.00 0.00 0.00 2.77
299 300 4.576873 TGCATAAACTCGGTCAAACTTTGA 59.423 37.500 0.00 0.00 37.33 2.69
300 301 5.147162 GCATAAACTCGGTCAAACTTTGAG 58.853 41.667 4.36 0.00 41.01 3.02
301 302 5.049680 GCATAAACTCGGTCAAACTTTGAGA 60.050 40.000 4.36 0.00 41.01 3.27
302 303 6.512741 GCATAAACTCGGTCAAACTTTGAGAA 60.513 38.462 4.36 0.00 41.01 2.87
303 304 4.877323 AACTCGGTCAAACTTTGAGAAC 57.123 40.909 4.36 0.00 41.01 3.01
304 305 3.203716 ACTCGGTCAAACTTTGAGAACC 58.796 45.455 4.36 3.08 41.01 3.62
305 306 3.118371 ACTCGGTCAAACTTTGAGAACCT 60.118 43.478 4.36 0.00 41.01 3.50
306 307 3.877508 CTCGGTCAAACTTTGAGAACCTT 59.122 43.478 4.36 0.00 41.01 3.50
307 308 5.026038 TCGGTCAAACTTTGAGAACCTTA 57.974 39.130 4.36 0.00 41.01 2.69
308 309 5.617252 TCGGTCAAACTTTGAGAACCTTAT 58.383 37.500 4.36 0.00 41.01 1.73
309 310 6.059484 TCGGTCAAACTTTGAGAACCTTATT 58.941 36.000 4.36 0.00 41.01 1.40
310 311 6.204108 TCGGTCAAACTTTGAGAACCTTATTC 59.796 38.462 4.36 0.00 41.01 1.75
311 312 6.567891 CGGTCAAACTTTGAGAACCTTATTCC 60.568 42.308 4.36 0.00 41.01 3.01
312 313 6.264518 GGTCAAACTTTGAGAACCTTATTCCA 59.735 38.462 4.36 0.00 41.01 3.53
313 314 7.039714 GGTCAAACTTTGAGAACCTTATTCCAT 60.040 37.037 4.36 0.00 41.01 3.41
314 315 8.023706 GTCAAACTTTGAGAACCTTATTCCATC 58.976 37.037 4.36 0.00 41.01 3.51
315 316 7.944554 TCAAACTTTGAGAACCTTATTCCATCT 59.055 33.333 0.00 0.00 34.08 2.90
316 317 8.579863 CAAACTTTGAGAACCTTATTCCATCTT 58.420 33.333 0.00 0.00 0.00 2.40
317 318 7.929941 ACTTTGAGAACCTTATTCCATCTTC 57.070 36.000 0.00 0.00 0.00 2.87
318 319 7.461749 ACTTTGAGAACCTTATTCCATCTTCA 58.538 34.615 0.00 0.00 0.00 3.02
319 320 7.609532 ACTTTGAGAACCTTATTCCATCTTCAG 59.390 37.037 0.00 0.00 0.00 3.02
320 321 6.874278 TGAGAACCTTATTCCATCTTCAGA 57.126 37.500 0.00 0.00 0.00 3.27
321 322 7.257790 TGAGAACCTTATTCCATCTTCAGAA 57.742 36.000 0.00 0.00 0.00 3.02
322 323 7.689299 TGAGAACCTTATTCCATCTTCAGAAA 58.311 34.615 0.00 0.00 0.00 2.52
323 324 7.826252 TGAGAACCTTATTCCATCTTCAGAAAG 59.174 37.037 0.00 0.00 0.00 2.62
326 327 5.195940 CCTTATTCCATCTTCAGAAAGCCA 58.804 41.667 0.00 0.00 32.18 4.75
350 352 2.036414 TCTCGCCTCCTGAGCAGT 59.964 61.111 0.00 0.00 33.41 4.40
374 376 4.885325 ACACAAACCCTAACAAAACTCGAT 59.115 37.500 0.00 0.00 0.00 3.59
375 377 5.358725 ACACAAACCCTAACAAAACTCGATT 59.641 36.000 0.00 0.00 0.00 3.34
376 378 6.127563 ACACAAACCCTAACAAAACTCGATTT 60.128 34.615 0.00 0.00 0.00 2.17
377 379 6.754675 CACAAACCCTAACAAAACTCGATTTT 59.245 34.615 0.00 0.00 41.38 1.82
378 380 7.276878 CACAAACCCTAACAAAACTCGATTTTT 59.723 33.333 7.60 7.60 38.50 1.94
401 403 1.791103 TTGCAAAAACGGAGCCCTCG 61.791 55.000 0.00 0.00 0.00 4.63
416 429 1.142748 CTCGCACCAGATCCACTCC 59.857 63.158 0.00 0.00 0.00 3.85
432 445 3.488569 CCGCTCCCATGGCCCTAA 61.489 66.667 6.09 0.00 0.00 2.69
492 506 3.559384 CGAAAGGAAGGAAACCCTAGCTT 60.559 47.826 0.00 0.00 32.65 3.74
493 507 4.408276 GAAAGGAAGGAAACCCTAGCTTT 58.592 43.478 0.00 0.00 32.65 3.51
564 581 3.694926 TGGGAAACACATGTGCATATGA 58.305 40.909 27.77 3.46 0.00 2.15
626 643 0.179043 TCAGTTTGTTAGCCCGTGCA 60.179 50.000 0.00 0.00 41.13 4.57
634 651 0.616371 TTAGCCCGTGCACAGGTATT 59.384 50.000 20.15 9.14 41.13 1.89
638 655 0.806102 CCCGTGCACAGGTATTCGAG 60.806 60.000 18.64 1.18 0.00 4.04
677 694 1.661178 GCAATCACACGCTCACACAAG 60.661 52.381 0.00 0.00 0.00 3.16
680 697 2.238942 TCACACGCTCACACAAGAAT 57.761 45.000 0.00 0.00 0.00 2.40
691 708 5.880332 GCTCACACAAGAATACCAAATAGGA 59.120 40.000 0.00 0.00 41.22 2.94
693 710 7.715249 GCTCACACAAGAATACCAAATAGGATA 59.285 37.037 0.00 0.00 41.22 2.59
795 856 3.706600 ACGATAACTTAGGCCCAACAA 57.293 42.857 0.00 0.00 0.00 2.83
803 864 2.656947 TAGGCCCAACAATAGCATCC 57.343 50.000 0.00 0.00 0.00 3.51
804 865 0.929244 AGGCCCAACAATAGCATCCT 59.071 50.000 0.00 0.00 0.00 3.24
823 884 2.609737 CCTAACGTCCATCCCGAATAGC 60.610 54.545 0.00 0.00 0.00 2.97
1176 1248 4.559386 CGCTTTCATCCGCGTCGC 62.559 66.667 7.29 7.29 44.01 5.19
1270 1342 1.918609 GAGTATTTGTGCGTCCTCGAC 59.081 52.381 0.00 0.00 39.71 4.20
1294 1366 0.827925 TCTTCTGGACGACCACTGCT 60.828 55.000 1.37 0.00 41.77 4.24
1430 1551 3.057315 CCCGCTTGAATTCTCACAACAAT 60.057 43.478 7.05 0.00 0.00 2.71
1434 1555 5.159209 GCTTGAATTCTCACAACAATGGAG 58.841 41.667 7.05 0.00 0.00 3.86
1487 1608 0.788391 CCTTGACCGTTAACGCTGAC 59.212 55.000 22.43 10.59 38.18 3.51
1559 1680 1.455383 CCACCACCAAGGACAAGCAC 61.455 60.000 0.00 0.00 41.22 4.40
1576 1697 1.606737 GCACTGGAGATTATCGGCCTC 60.607 57.143 0.00 0.00 0.00 4.70
1644 1765 3.675644 TGGTACAACCCAAGCCCA 58.324 55.556 0.00 0.00 37.50 5.36
1645 1766 1.151908 TGGTACAACCCAAGCCCAC 59.848 57.895 0.00 0.00 37.50 4.61
1646 1767 1.605451 GGTACAACCCAAGCCCACC 60.605 63.158 0.00 0.00 30.04 4.61
1727 1848 2.260481 GGATCCAGTTCGTCTTCGTTC 58.740 52.381 6.95 0.00 38.33 3.95
1730 1851 0.032952 CCAGTTCGTCTTCGTTCCCA 59.967 55.000 0.00 0.00 38.33 4.37
1958 2079 1.192428 GGAGTGGGAGTGTTATCGGT 58.808 55.000 0.00 0.00 0.00 4.69
1985 2106 2.435805 TCTGAGTGTGAGTTTGAAGGCT 59.564 45.455 0.00 0.00 0.00 4.58
2038 2159 4.743124 TGCCATGATCCCATACATGAAAT 58.257 39.130 0.00 0.00 44.28 2.17
2092 2213 4.979197 CACTTGGTCGCTAAGAGATATGAC 59.021 45.833 9.27 0.00 0.00 3.06
2215 2352 7.649973 TCACTCCTAATTTACTTAGAGCGATC 58.350 38.462 0.00 0.00 39.43 3.69
2228 2366 6.586844 ACTTAGAGCGATCAACTGTTAACTTC 59.413 38.462 2.38 0.00 0.00 3.01
2305 2443 7.973944 ACTTGTTTTGCGTAGATTTTCTTTCTT 59.026 29.630 0.00 0.00 0.00 2.52
2364 2502 4.377021 TGACAATTGTGCGTCTAGTCTTT 58.623 39.130 17.58 0.00 33.18 2.52
2414 2553 6.989155 ATGTACCGATCTTTATTACTCCCA 57.011 37.500 0.00 0.00 0.00 4.37
2415 2554 6.989155 TGTACCGATCTTTATTACTCCCAT 57.011 37.500 0.00 0.00 0.00 4.00
2416 2555 7.369551 TGTACCGATCTTTATTACTCCCATT 57.630 36.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.344215 CTCGCTGCCATCGATGCC 61.344 66.667 20.25 9.97 35.25 4.40
6 7 3.344215 CCTCGCTGCCATCGATGC 61.344 66.667 20.25 15.19 35.25 3.91
7 8 2.107750 ACCTCGCTGCCATCGATG 59.892 61.111 18.76 18.76 35.25 3.84
8 9 2.107750 CACCTCGCTGCCATCGAT 59.892 61.111 0.00 0.00 35.25 3.59
9 10 4.147449 CCACCTCGCTGCCATCGA 62.147 66.667 0.00 0.00 34.52 3.59
10 11 4.457496 ACCACCTCGCTGCCATCG 62.457 66.667 0.00 0.00 0.00 3.84
11 12 2.512515 GACCACCTCGCTGCCATC 60.513 66.667 0.00 0.00 0.00 3.51
12 13 4.101448 GGACCACCTCGCTGCCAT 62.101 66.667 0.00 0.00 0.00 4.40
22 23 0.328258 ATTGCTGTACAGGGACCACC 59.672 55.000 23.95 6.25 40.67 4.61
23 24 1.453155 CATTGCTGTACAGGGACCAC 58.547 55.000 23.95 6.97 0.00 4.16
24 25 0.327924 CCATTGCTGTACAGGGACCA 59.672 55.000 23.95 10.63 0.00 4.02
25 26 0.328258 ACCATTGCTGTACAGGGACC 59.672 55.000 23.95 8.05 0.00 4.46
26 27 1.453155 CACCATTGCTGTACAGGGAC 58.547 55.000 23.95 8.41 0.00 4.46
27 28 0.322456 GCACCATTGCTGTACAGGGA 60.322 55.000 23.95 3.81 46.17 4.20
28 29 2.183409 GCACCATTGCTGTACAGGG 58.817 57.895 23.95 17.87 46.17 4.45
30 31 2.481427 AACCGCACCATTGCTGTACAG 61.481 52.381 18.93 18.93 44.61 2.74
31 32 0.536233 AACCGCACCATTGCTGTACA 60.536 50.000 0.00 0.00 44.61 2.90
32 33 0.109781 CAACCGCACCATTGCTGTAC 60.110 55.000 0.00 0.00 44.61 2.90
33 34 1.861542 GCAACCGCACCATTGCTGTA 61.862 55.000 1.80 0.00 44.61 2.74
38 39 1.372004 CACAGCAACCGCACCATTG 60.372 57.895 0.00 0.00 42.27 2.82
39 40 0.536233 TACACAGCAACCGCACCATT 60.536 50.000 0.00 0.00 42.27 3.16
40 41 0.955428 CTACACAGCAACCGCACCAT 60.955 55.000 0.00 0.00 42.27 3.55
41 42 1.596752 CTACACAGCAACCGCACCA 60.597 57.895 0.00 0.00 42.27 4.17
42 43 2.325082 CCTACACAGCAACCGCACC 61.325 63.158 0.00 0.00 42.27 5.01
43 44 2.325082 CCCTACACAGCAACCGCAC 61.325 63.158 0.00 0.00 42.27 5.34
44 45 2.031919 CCCTACACAGCAACCGCA 59.968 61.111 0.00 0.00 42.27 5.69
45 46 2.536997 ATCCCCTACACAGCAACCGC 62.537 60.000 0.00 0.00 38.99 5.68
46 47 0.744414 CATCCCCTACACAGCAACCG 60.744 60.000 0.00 0.00 0.00 4.44
47 48 0.328258 ACATCCCCTACACAGCAACC 59.672 55.000 0.00 0.00 0.00 3.77
48 49 2.629051 GTACATCCCCTACACAGCAAC 58.371 52.381 0.00 0.00 0.00 4.17
49 50 1.206132 CGTACATCCCCTACACAGCAA 59.794 52.381 0.00 0.00 0.00 3.91
50 51 0.821517 CGTACATCCCCTACACAGCA 59.178 55.000 0.00 0.00 0.00 4.41
51 52 0.104304 CCGTACATCCCCTACACAGC 59.896 60.000 0.00 0.00 0.00 4.40
52 53 0.750850 CCCGTACATCCCCTACACAG 59.249 60.000 0.00 0.00 0.00 3.66
53 54 0.041535 ACCCGTACATCCCCTACACA 59.958 55.000 0.00 0.00 0.00 3.72
54 55 1.197812 AACCCGTACATCCCCTACAC 58.802 55.000 0.00 0.00 0.00 2.90
55 56 2.024080 ACTAACCCGTACATCCCCTACA 60.024 50.000 0.00 0.00 0.00 2.74
56 57 2.363359 CACTAACCCGTACATCCCCTAC 59.637 54.545 0.00 0.00 0.00 3.18
57 58 2.669781 CACTAACCCGTACATCCCCTA 58.330 52.381 0.00 0.00 0.00 3.53
58 59 1.492764 CACTAACCCGTACATCCCCT 58.507 55.000 0.00 0.00 0.00 4.79
59 60 0.466963 CCACTAACCCGTACATCCCC 59.533 60.000 0.00 0.00 0.00 4.81
60 61 1.411612 CTCCACTAACCCGTACATCCC 59.588 57.143 0.00 0.00 0.00 3.85
61 62 1.411612 CCTCCACTAACCCGTACATCC 59.588 57.143 0.00 0.00 0.00 3.51
62 63 2.105766 ACCTCCACTAACCCGTACATC 58.894 52.381 0.00 0.00 0.00 3.06
63 64 2.242882 ACCTCCACTAACCCGTACAT 57.757 50.000 0.00 0.00 0.00 2.29
64 65 1.895131 GAACCTCCACTAACCCGTACA 59.105 52.381 0.00 0.00 0.00 2.90
65 66 1.135286 CGAACCTCCACTAACCCGTAC 60.135 57.143 0.00 0.00 0.00 3.67
66 67 1.176527 CGAACCTCCACTAACCCGTA 58.823 55.000 0.00 0.00 0.00 4.02
67 68 0.540365 TCGAACCTCCACTAACCCGT 60.540 55.000 0.00 0.00 0.00 5.28
68 69 0.172803 CTCGAACCTCCACTAACCCG 59.827 60.000 0.00 0.00 0.00 5.28
69 70 0.108281 GCTCGAACCTCCACTAACCC 60.108 60.000 0.00 0.00 0.00 4.11
70 71 0.458025 CGCTCGAACCTCCACTAACC 60.458 60.000 0.00 0.00 0.00 2.85
71 72 0.243095 ACGCTCGAACCTCCACTAAC 59.757 55.000 0.00 0.00 0.00 2.34
72 73 0.963962 AACGCTCGAACCTCCACTAA 59.036 50.000 0.00 0.00 0.00 2.24
73 74 0.242825 CAACGCTCGAACCTCCACTA 59.757 55.000 0.00 0.00 0.00 2.74
74 75 1.006102 CAACGCTCGAACCTCCACT 60.006 57.895 0.00 0.00 0.00 4.00
75 76 2.027625 CCAACGCTCGAACCTCCAC 61.028 63.158 0.00 0.00 0.00 4.02
76 77 2.154798 CTCCAACGCTCGAACCTCCA 62.155 60.000 0.00 0.00 0.00 3.86
77 78 1.446272 CTCCAACGCTCGAACCTCC 60.446 63.158 0.00 0.00 0.00 4.30
78 79 1.446272 CCTCCAACGCTCGAACCTC 60.446 63.158 0.00 0.00 0.00 3.85
79 80 2.207924 ACCTCCAACGCTCGAACCT 61.208 57.895 0.00 0.00 0.00 3.50
80 81 2.027625 CACCTCCAACGCTCGAACC 61.028 63.158 0.00 0.00 0.00 3.62
81 82 2.027625 CCACCTCCAACGCTCGAAC 61.028 63.158 0.00 0.00 0.00 3.95
82 83 2.342279 CCACCTCCAACGCTCGAA 59.658 61.111 0.00 0.00 0.00 3.71
83 84 2.915659 ACCACCTCCAACGCTCGA 60.916 61.111 0.00 0.00 0.00 4.04
84 85 2.738521 CACCACCTCCAACGCTCG 60.739 66.667 0.00 0.00 0.00 5.03
85 86 2.358737 CCACCACCTCCAACGCTC 60.359 66.667 0.00 0.00 0.00 5.03
86 87 2.279037 AAACCACCACCTCCAACGCT 62.279 55.000 0.00 0.00 0.00 5.07
87 88 1.388837 AAAACCACCACCTCCAACGC 61.389 55.000 0.00 0.00 0.00 4.84
88 89 1.107945 AAAAACCACCACCTCCAACG 58.892 50.000 0.00 0.00 0.00 4.10
107 108 1.000385 CACCTCCAATCAGCGCAAAAA 60.000 47.619 11.47 0.00 0.00 1.94
108 109 0.597568 CACCTCCAATCAGCGCAAAA 59.402 50.000 11.47 0.00 0.00 2.44
109 110 1.243342 CCACCTCCAATCAGCGCAAA 61.243 55.000 11.47 0.00 0.00 3.68
110 111 1.675310 CCACCTCCAATCAGCGCAA 60.675 57.895 11.47 0.00 0.00 4.85
111 112 2.046023 CCACCTCCAATCAGCGCA 60.046 61.111 11.47 0.00 0.00 6.09
112 113 2.045926 ACCACCTCCAATCAGCGC 60.046 61.111 0.00 0.00 0.00 5.92
113 114 1.746615 CCACCACCTCCAATCAGCG 60.747 63.158 0.00 0.00 0.00 5.18
114 115 0.251341 AACCACCACCTCCAATCAGC 60.251 55.000 0.00 0.00 0.00 4.26
115 116 1.538047 CAACCACCACCTCCAATCAG 58.462 55.000 0.00 0.00 0.00 2.90
116 117 0.112218 CCAACCACCACCTCCAATCA 59.888 55.000 0.00 0.00 0.00 2.57
117 118 1.250840 GCCAACCACCACCTCCAATC 61.251 60.000 0.00 0.00 0.00 2.67
118 119 1.228862 GCCAACCACCACCTCCAAT 60.229 57.895 0.00 0.00 0.00 3.16
119 120 2.197324 GCCAACCACCACCTCCAA 59.803 61.111 0.00 0.00 0.00 3.53
120 121 4.263572 CGCCAACCACCACCTCCA 62.264 66.667 0.00 0.00 0.00 3.86
121 122 3.785122 AACGCCAACCACCACCTCC 62.785 63.158 0.00 0.00 0.00 4.30
122 123 2.203294 AACGCCAACCACCACCTC 60.203 61.111 0.00 0.00 0.00 3.85
123 124 2.518349 CAACGCCAACCACCACCT 60.518 61.111 0.00 0.00 0.00 4.00
124 125 3.601685 CCAACGCCAACCACCACC 61.602 66.667 0.00 0.00 0.00 4.61
125 126 4.279043 GCCAACGCCAACCACCAC 62.279 66.667 0.00 0.00 0.00 4.16
126 127 4.822628 TGCCAACGCCAACCACCA 62.823 61.111 0.00 0.00 0.00 4.17
127 128 2.969677 CTTTGCCAACGCCAACCACC 62.970 60.000 0.00 0.00 0.00 4.61
128 129 1.591327 CTTTGCCAACGCCAACCAC 60.591 57.895 0.00 0.00 0.00 4.16
129 130 2.055042 ACTTTGCCAACGCCAACCA 61.055 52.632 0.00 0.00 0.00 3.67
130 131 1.591327 CACTTTGCCAACGCCAACC 60.591 57.895 0.00 0.00 0.00 3.77
131 132 2.237066 GCACTTTGCCAACGCCAAC 61.237 57.895 0.00 0.00 37.42 3.77
132 133 2.105930 GCACTTTGCCAACGCCAA 59.894 55.556 0.00 0.00 37.42 4.52
133 134 4.263209 CGCACTTTGCCAACGCCA 62.263 61.111 0.00 0.00 41.12 5.69
134 135 3.766496 AACGCACTTTGCCAACGCC 62.766 57.895 0.00 0.00 41.12 5.68
135 136 2.278531 AACGCACTTTGCCAACGC 60.279 55.556 0.00 0.00 41.12 4.84
136 137 1.943693 CCAACGCACTTTGCCAACG 60.944 57.895 0.00 0.00 41.12 4.10
137 138 0.594796 CTCCAACGCACTTTGCCAAC 60.595 55.000 0.00 0.00 41.12 3.77
138 139 1.034838 ACTCCAACGCACTTTGCCAA 61.035 50.000 0.00 0.00 41.12 4.52
139 140 1.453015 ACTCCAACGCACTTTGCCA 60.453 52.632 0.00 0.00 41.12 4.92
140 141 1.008538 CACTCCAACGCACTTTGCC 60.009 57.895 0.00 0.00 41.12 4.52
141 142 0.040958 CTCACTCCAACGCACTTTGC 60.041 55.000 0.00 0.00 40.69 3.68
142 143 0.588252 CCTCACTCCAACGCACTTTG 59.412 55.000 0.00 0.00 0.00 2.77
143 144 0.180406 ACCTCACTCCAACGCACTTT 59.820 50.000 0.00 0.00 0.00 2.66
144 145 0.180406 AACCTCACTCCAACGCACTT 59.820 50.000 0.00 0.00 0.00 3.16
145 146 0.249911 GAACCTCACTCCAACGCACT 60.250 55.000 0.00 0.00 0.00 4.40
146 147 0.249911 AGAACCTCACTCCAACGCAC 60.250 55.000 0.00 0.00 0.00 5.34
147 148 0.249868 CAGAACCTCACTCCAACGCA 60.250 55.000 0.00 0.00 0.00 5.24
148 149 1.569479 GCAGAACCTCACTCCAACGC 61.569 60.000 0.00 0.00 0.00 4.84
149 150 0.034059 AGCAGAACCTCACTCCAACG 59.966 55.000 0.00 0.00 0.00 4.10
150 151 1.517242 CAGCAGAACCTCACTCCAAC 58.483 55.000 0.00 0.00 0.00 3.77
151 152 0.250467 GCAGCAGAACCTCACTCCAA 60.250 55.000 0.00 0.00 0.00 3.53
152 153 1.123861 AGCAGCAGAACCTCACTCCA 61.124 55.000 0.00 0.00 0.00 3.86
153 154 0.390998 GAGCAGCAGAACCTCACTCC 60.391 60.000 0.00 0.00 0.00 3.85
154 155 0.390998 GGAGCAGCAGAACCTCACTC 60.391 60.000 0.00 0.00 0.00 3.51
155 156 1.123861 TGGAGCAGCAGAACCTCACT 61.124 55.000 0.00 0.00 0.00 3.41
156 157 0.673022 CTGGAGCAGCAGAACCTCAC 60.673 60.000 0.00 0.00 0.00 3.51
157 158 1.675801 CTGGAGCAGCAGAACCTCA 59.324 57.895 0.00 0.00 0.00 3.86
158 159 4.613929 CTGGAGCAGCAGAACCTC 57.386 61.111 0.00 0.00 0.00 3.85
167 168 1.919918 CTAGACTTTCGCTGGAGCAG 58.080 55.000 0.00 0.00 42.21 4.24
168 169 0.108615 GCTAGACTTTCGCTGGAGCA 60.109 55.000 0.00 0.00 42.21 4.26
169 170 0.808060 GGCTAGACTTTCGCTGGAGC 60.808 60.000 0.00 0.00 37.78 4.70
170 171 0.526524 CGGCTAGACTTTCGCTGGAG 60.527 60.000 0.00 0.00 0.00 3.86
171 172 1.511305 CGGCTAGACTTTCGCTGGA 59.489 57.895 0.00 0.00 0.00 3.86
172 173 1.519455 CCGGCTAGACTTTCGCTGG 60.519 63.158 0.00 0.00 43.11 4.85
173 174 1.078759 CACCGGCTAGACTTTCGCTG 61.079 60.000 0.00 0.00 0.00 5.18
174 175 1.215647 CACCGGCTAGACTTTCGCT 59.784 57.895 0.00 0.00 0.00 4.93
175 176 2.453638 GCACCGGCTAGACTTTCGC 61.454 63.158 0.00 0.00 36.96 4.70
176 177 3.782042 GCACCGGCTAGACTTTCG 58.218 61.111 0.00 0.00 36.96 3.46
186 187 3.730963 GCTACTAATTTGAAAGCACCGGC 60.731 47.826 0.00 0.00 41.61 6.13
187 188 3.438781 TGCTACTAATTTGAAAGCACCGG 59.561 43.478 0.00 0.00 38.22 5.28
188 189 4.678509 TGCTACTAATTTGAAAGCACCG 57.321 40.909 13.97 0.00 38.22 4.94
189 190 7.985476 TCTAATGCTACTAATTTGAAAGCACC 58.015 34.615 17.90 0.00 45.18 5.01
230 231 9.374838 GAAACCAAATAAGAGCATGATGAAAAT 57.625 29.630 0.00 0.00 0.00 1.82
231 232 8.366401 TGAAACCAAATAAGAGCATGATGAAAA 58.634 29.630 0.00 0.00 0.00 2.29
232 233 7.894708 TGAAACCAAATAAGAGCATGATGAAA 58.105 30.769 0.00 0.00 0.00 2.69
233 234 7.465353 TGAAACCAAATAAGAGCATGATGAA 57.535 32.000 0.00 0.00 0.00 2.57
234 235 7.649533 ATGAAACCAAATAAGAGCATGATGA 57.350 32.000 0.00 0.00 0.00 2.92
235 236 9.806203 TTTATGAAACCAAATAAGAGCATGATG 57.194 29.630 0.00 0.00 0.00 3.07
264 265 9.944663 GACCGAGTTTATGCAAAAATATATCAA 57.055 29.630 0.00 0.00 0.00 2.57
265 266 9.114952 TGACCGAGTTTATGCAAAAATATATCA 57.885 29.630 0.00 0.00 0.00 2.15
266 267 9.944663 TTGACCGAGTTTATGCAAAAATATATC 57.055 29.630 0.00 0.00 0.00 1.63
268 269 9.562583 GTTTGACCGAGTTTATGCAAAAATATA 57.437 29.630 0.00 0.00 0.00 0.86
269 270 8.303876 AGTTTGACCGAGTTTATGCAAAAATAT 58.696 29.630 0.00 0.00 0.00 1.28
270 271 7.653647 AGTTTGACCGAGTTTATGCAAAAATA 58.346 30.769 0.00 0.00 0.00 1.40
271 272 6.512297 AGTTTGACCGAGTTTATGCAAAAAT 58.488 32.000 0.00 0.00 0.00 1.82
272 273 5.897050 AGTTTGACCGAGTTTATGCAAAAA 58.103 33.333 0.00 0.00 0.00 1.94
273 274 5.508200 AGTTTGACCGAGTTTATGCAAAA 57.492 34.783 0.00 0.00 0.00 2.44
274 275 5.508200 AAGTTTGACCGAGTTTATGCAAA 57.492 34.783 0.00 0.00 0.00 3.68
275 276 5.066634 TCAAAGTTTGACCGAGTTTATGCAA 59.933 36.000 14.35 0.00 34.08 4.08
276 277 4.576873 TCAAAGTTTGACCGAGTTTATGCA 59.423 37.500 14.35 0.00 34.08 3.96
277 278 5.049680 TCTCAAAGTTTGACCGAGTTTATGC 60.050 40.000 14.35 0.00 35.46 3.14
278 279 6.539649 TCTCAAAGTTTGACCGAGTTTATG 57.460 37.500 14.35 1.47 35.46 1.90
279 280 6.017357 GGTTCTCAAAGTTTGACCGAGTTTAT 60.017 38.462 14.35 0.00 35.46 1.40
280 281 5.295045 GGTTCTCAAAGTTTGACCGAGTTTA 59.705 40.000 14.35 0.00 35.46 2.01
281 282 4.095932 GGTTCTCAAAGTTTGACCGAGTTT 59.904 41.667 14.35 0.00 35.46 2.66
282 283 3.626217 GGTTCTCAAAGTTTGACCGAGTT 59.374 43.478 14.35 0.00 35.46 3.01
283 284 3.118371 AGGTTCTCAAAGTTTGACCGAGT 60.118 43.478 14.35 0.00 35.46 4.18
284 285 3.467803 AGGTTCTCAAAGTTTGACCGAG 58.532 45.455 14.35 5.32 35.46 4.63
285 286 3.553828 AGGTTCTCAAAGTTTGACCGA 57.446 42.857 14.35 8.64 35.46 4.69
286 287 5.941948 ATAAGGTTCTCAAAGTTTGACCG 57.058 39.130 14.35 6.38 35.46 4.79
287 288 6.264518 TGGAATAAGGTTCTCAAAGTTTGACC 59.735 38.462 14.35 14.32 35.46 4.02
288 289 7.272037 TGGAATAAGGTTCTCAAAGTTTGAC 57.728 36.000 14.35 5.85 35.46 3.18
289 290 7.944554 AGATGGAATAAGGTTCTCAAAGTTTGA 59.055 33.333 17.16 17.16 38.17 2.69
290 291 8.115490 AGATGGAATAAGGTTCTCAAAGTTTG 57.885 34.615 9.44 9.44 0.00 2.93
291 292 8.712228 AAGATGGAATAAGGTTCTCAAAGTTT 57.288 30.769 0.00 0.00 0.00 2.66
292 293 7.944554 TGAAGATGGAATAAGGTTCTCAAAGTT 59.055 33.333 0.00 0.00 0.00 2.66
293 294 7.461749 TGAAGATGGAATAAGGTTCTCAAAGT 58.538 34.615 0.00 0.00 0.00 2.66
294 295 7.826252 TCTGAAGATGGAATAAGGTTCTCAAAG 59.174 37.037 0.00 0.00 0.00 2.77
295 296 7.689299 TCTGAAGATGGAATAAGGTTCTCAAA 58.311 34.615 0.00 0.00 0.00 2.69
296 297 7.257790 TCTGAAGATGGAATAAGGTTCTCAA 57.742 36.000 0.00 0.00 0.00 3.02
297 298 6.874278 TCTGAAGATGGAATAAGGTTCTCA 57.126 37.500 0.00 0.00 0.00 3.27
298 299 7.201688 GCTTTCTGAAGATGGAATAAGGTTCTC 60.202 40.741 0.00 0.00 34.71 2.87
299 300 6.601217 GCTTTCTGAAGATGGAATAAGGTTCT 59.399 38.462 0.00 0.00 34.71 3.01
300 301 6.183360 GGCTTTCTGAAGATGGAATAAGGTTC 60.183 42.308 0.00 0.00 34.71 3.62
301 302 5.654209 GGCTTTCTGAAGATGGAATAAGGTT 59.346 40.000 0.00 0.00 34.71 3.50
302 303 5.196695 GGCTTTCTGAAGATGGAATAAGGT 58.803 41.667 0.00 0.00 34.71 3.50
303 304 5.067023 GTGGCTTTCTGAAGATGGAATAAGG 59.933 44.000 0.00 0.00 34.71 2.69
304 305 5.067023 GGTGGCTTTCTGAAGATGGAATAAG 59.933 44.000 0.00 0.00 34.71 1.73
305 306 4.949856 GGTGGCTTTCTGAAGATGGAATAA 59.050 41.667 0.00 0.00 34.71 1.40
306 307 4.526970 GGTGGCTTTCTGAAGATGGAATA 58.473 43.478 0.00 0.00 34.71 1.75
307 308 3.359950 GGTGGCTTTCTGAAGATGGAAT 58.640 45.455 0.00 0.00 34.71 3.01
308 309 2.795329 GGTGGCTTTCTGAAGATGGAA 58.205 47.619 0.00 0.00 34.71 3.53
309 310 1.339055 CGGTGGCTTTCTGAAGATGGA 60.339 52.381 0.00 0.00 34.71 3.41
310 311 1.089920 CGGTGGCTTTCTGAAGATGG 58.910 55.000 0.00 0.00 34.71 3.51
311 312 0.449388 GCGGTGGCTTTCTGAAGATG 59.551 55.000 0.00 0.00 34.71 2.90
312 313 0.678048 GGCGGTGGCTTTCTGAAGAT 60.678 55.000 0.00 0.00 39.81 2.40
313 314 1.302511 GGCGGTGGCTTTCTGAAGA 60.303 57.895 0.00 0.00 39.81 2.87
314 315 2.680913 CGGCGGTGGCTTTCTGAAG 61.681 63.158 0.00 0.00 39.81 3.02
315 316 2.668212 CGGCGGTGGCTTTCTGAA 60.668 61.111 0.00 0.00 39.81 3.02
316 317 3.876589 GACGGCGGTGGCTTTCTGA 62.877 63.158 13.24 0.00 39.81 3.27
317 318 3.423154 GACGGCGGTGGCTTTCTG 61.423 66.667 13.24 0.00 39.81 3.02
318 319 3.591254 GAGACGGCGGTGGCTTTCT 62.591 63.158 13.24 2.12 39.81 2.52
319 320 3.119096 GAGACGGCGGTGGCTTTC 61.119 66.667 13.24 0.00 39.81 2.62
350 352 5.426504 TCGAGTTTTGTTAGGGTTTGTGTA 58.573 37.500 0.00 0.00 0.00 2.90
379 381 1.208293 AGGGCTCCGTTTTTGCAAAAA 59.792 42.857 28.85 28.85 35.67 1.94
380 382 0.827368 AGGGCTCCGTTTTTGCAAAA 59.173 45.000 20.46 20.46 0.00 2.44
381 383 0.387565 GAGGGCTCCGTTTTTGCAAA 59.612 50.000 8.05 8.05 0.00 3.68
382 384 1.791103 CGAGGGCTCCGTTTTTGCAA 61.791 55.000 0.00 0.00 0.00 4.08
401 403 2.512515 GCGGAGTGGATCTGGTGC 60.513 66.667 0.00 0.00 34.56 5.01
416 429 2.111878 CTTAGGGCCATGGGAGCG 59.888 66.667 15.13 0.00 0.00 5.03
467 480 0.538746 GGGTTTCCTTCCTTTCGCCA 60.539 55.000 0.00 0.00 0.00 5.69
473 486 5.798239 ATAAAGCTAGGGTTTCCTTCCTT 57.202 39.130 0.00 0.00 41.56 3.36
474 487 5.369993 CCTATAAAGCTAGGGTTTCCTTCCT 59.630 44.000 0.00 0.00 41.56 3.36
477 490 5.729718 TCACCTATAAAGCTAGGGTTTCCTT 59.270 40.000 5.27 0.00 41.56 3.36
492 506 9.787435 ACACAACAGAGTTTTTATCACCTATAA 57.213 29.630 0.00 0.00 0.00 0.98
493 507 9.787435 AACACAACAGAGTTTTTATCACCTATA 57.213 29.630 0.00 0.00 0.00 1.31
533 550 5.182950 CACATGTGTTTCCCATAGCAAGTAA 59.817 40.000 18.03 0.00 0.00 2.24
534 551 4.699735 CACATGTGTTTCCCATAGCAAGTA 59.300 41.667 18.03 0.00 0.00 2.24
535 552 3.507233 CACATGTGTTTCCCATAGCAAGT 59.493 43.478 18.03 0.00 0.00 3.16
536 553 3.674138 GCACATGTGTTTCCCATAGCAAG 60.674 47.826 26.01 0.00 0.00 4.01
537 554 2.230992 GCACATGTGTTTCCCATAGCAA 59.769 45.455 26.01 0.00 0.00 3.91
538 555 1.818060 GCACATGTGTTTCCCATAGCA 59.182 47.619 26.01 0.00 0.00 3.49
539 556 1.818060 TGCACATGTGTTTCCCATAGC 59.182 47.619 26.01 8.95 0.00 2.97
540 557 5.532032 TCATATGCACATGTGTTTCCCATAG 59.468 40.000 26.01 15.98 32.61 2.23
541 558 5.444176 TCATATGCACATGTGTTTCCCATA 58.556 37.500 26.01 21.96 32.61 2.74
542 559 4.279982 TCATATGCACATGTGTTTCCCAT 58.720 39.130 26.01 20.69 32.61 4.00
543 560 3.694926 TCATATGCACATGTGTTTCCCA 58.305 40.909 26.01 15.54 32.61 4.37
608 625 0.040425 GTGCACGGGCTAACAAACTG 60.040 55.000 12.74 0.00 41.91 3.16
612 629 1.599518 CCTGTGCACGGGCTAACAA 60.600 57.895 31.17 0.00 41.91 2.83
613 630 1.473497 TACCTGTGCACGGGCTAACA 61.473 55.000 39.11 19.45 46.43 2.41
626 643 3.751698 GGCTGTTTTTCTCGAATACCTGT 59.248 43.478 0.00 0.00 0.00 4.00
634 651 0.951558 GCAAGGGCTGTTTTTCTCGA 59.048 50.000 0.00 0.00 36.96 4.04
638 655 1.856802 CTGTGCAAGGGCTGTTTTTC 58.143 50.000 0.00 0.00 41.91 2.29
715 735 3.015934 TGTAGTACGTGCGTGTGATTT 57.984 42.857 7.55 0.00 0.00 2.17
795 856 2.567615 GGGATGGACGTTAGGATGCTAT 59.432 50.000 0.00 0.00 0.00 2.97
803 864 2.296471 AGCTATTCGGGATGGACGTTAG 59.704 50.000 0.00 0.00 0.00 2.34
804 865 2.295349 GAGCTATTCGGGATGGACGTTA 59.705 50.000 0.00 0.00 0.00 3.18
1029 1101 1.667724 CAGCCGATTAGCTCAACCAAG 59.332 52.381 0.00 0.00 42.61 3.61
1176 1248 1.890979 GTCCGGCAGCATCATCCAG 60.891 63.158 0.00 0.00 0.00 3.86
1206 1278 1.118965 TCCTGCCGTCTTCAAGGTGA 61.119 55.000 0.00 0.00 0.00 4.02
1270 1342 1.067495 GTGGTCGTCCAGAAGAGGAAG 60.067 57.143 0.19 0.00 45.24 3.46
1294 1366 1.595993 CCTTCGACCGAGCAGAGGAA 61.596 60.000 2.61 0.00 0.00 3.36
1430 1551 1.238439 GCAACAAGTAAGCAGCTCCA 58.762 50.000 0.00 0.00 0.00 3.86
1487 1608 1.070134 ACCATGATCATAACGACCCCG 59.930 52.381 8.15 0.00 42.50 5.73
1559 1680 1.248486 TCGAGGCCGATAATCTCCAG 58.752 55.000 0.00 0.00 40.30 3.86
1576 1697 2.540145 CCGTTTGGGGAGAAGTTCG 58.460 57.895 0.00 0.00 0.00 3.95
1958 2079 6.419484 TTCAAACTCACACTCAGATTCCTA 57.581 37.500 0.00 0.00 0.00 2.94
1995 2116 4.732647 GCATACAATCATGTCACCTGCAAG 60.733 45.833 0.00 0.00 41.05 4.01
2092 2213 6.592994 CCCAGAAGCACTATATATGTCACATG 59.407 42.308 0.00 0.00 0.00 3.21
2228 2366 7.768240 TGCATACGGATACATAGGTAGTAATG 58.232 38.462 0.00 0.00 31.88 1.90
2364 2502 6.553953 TTCCTACACCTTTGCATGTATAGA 57.446 37.500 2.91 0.00 31.10 1.98


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

AutoCloner maintained by Alex Coulton.