Multiple sequence alignment - TraesCS7A01G444100

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 TraesCS7A01G444100 chr7A 100.000 2288 0 0 1 2288 638576536 638574249 0.000000e+00 4226
1 TraesCS7A01G444100 chr7A 92.814 1489 94 3 237 1713 167799818 167798331 0.000000e+00 2145
2 TraesCS7A01G444100 chr7A 92.705 891 51 6 236 1113 514853181 514854070 0.000000e+00 1273
3 TraesCS7A01G444100 chr7A 88.435 147 16 1 1 146 413155008 413154862 2.340000e-40 176
4 TraesCS7A01G444100 chr1D 94.553 1487 68 3 237 1712 369900772 369902256 0.000000e+00 2285
5 TraesCS7A01G444100 chr1D 99.153 118 0 1 119 236 45119617 45119733 6.400000e-51 211
6 TraesCS7A01G444100 chr4D 94.078 1486 68 8 237 1710 504270551 504272028 0.000000e+00 2239
7 TraesCS7A01G444100 chr4D 91.214 1491 103 14 237 1710 380246416 380247895 0.000000e+00 2002
8 TraesCS7A01G444100 chr4D 92.324 1407 89 12 320 1710 39369469 39368066 0.000000e+00 1982
9 TraesCS7A01G444100 chr6D 93.687 1489 78 5 237 1710 446604416 446602929 0.000000e+00 2215
10 TraesCS7A01G444100 chr7D 93.611 1487 74 9 237 1711 98406079 98404602 0.000000e+00 2200
11 TraesCS7A01G444100 chr7D 92.256 1485 86 15 237 1710 235534787 235533321 0.000000e+00 2078
12 TraesCS7A01G444100 chr7D 93.027 1262 83 4 454 1711 505347752 505349012 0.000000e+00 1838
13 TraesCS7A01G444100 chr7D 98.413 126 0 2 119 244 373499510 373499633 1.060000e-53 220
14 TraesCS7A01G444100 chr7D 95.902 122 5 0 1 122 222399705 222399826 4.990000e-47 198
15 TraesCS7A01G444100 chr2A 92.694 1492 85 7 237 1715 68890131 68888651 0.000000e+00 2130
16 TraesCS7A01G444100 chr2A 88.321 274 21 1 237 499 694977830 694978103 3.670000e-83 318
17 TraesCS7A01G444100 chr7B 92.133 1500 85 15 237 1709 389093555 389095048 0.000000e+00 2085
18 TraesCS7A01G444100 chr3D 92.083 1503 84 13 237 1712 5431255 5429761 0.000000e+00 2084
19 TraesCS7A01G444100 chr3D 90.789 456 29 7 1844 2288 184490333 184490786 4.210000e-167 597
20 TraesCS7A01G444100 chr3D 90.678 354 21 5 1946 2288 184584154 184583802 5.760000e-126 460
21 TraesCS7A01G444100 chr2D 91.019 1492 117 9 237 1712 646883658 646882168 0.000000e+00 1997
22 TraesCS7A01G444100 chr2D 90.952 1492 118 9 237 1712 646961256 646959766 0.000000e+00 1991
23 TraesCS7A01G444100 chr2D 90.885 1492 118 12 237 1712 646799881 646798392 0.000000e+00 1986
24 TraesCS7A01G444100 chr2D 90.771 1452 117 10 277 1712 646928760 646927310 0.000000e+00 1923
25 TraesCS7A01G444100 chr5A 91.385 592 34 7 1711 2288 479753986 479754574 0.000000e+00 795
26 TraesCS7A01G444100 chr4B 89.358 592 48 7 1711 2288 239434771 239434181 0.000000e+00 730
27 TraesCS7A01G444100 chr4B 97.479 119 3 0 1 119 272101144 272101262 1.070000e-48 204
28 TraesCS7A01G444100 chr3A 90.132 456 32 7 1844 2288 235453184 235453637 4.240000e-162 580
29 TraesCS7A01G444100 chr3A 87.778 270 22 1 236 494 624168016 624168285 2.860000e-79 305
30 TraesCS7A01G444100 chr3A 92.670 191 14 0 1844 2034 235817589 235817399 2.240000e-70 276
31 TraesCS7A01G444100 chr3A 95.238 126 5 1 1 126 566863001 566862877 4.990000e-47 198
32 TraesCS7A01G444100 chr6A 91.968 249 16 3 1 247 375351243 375350997 1.680000e-91 346
33 TraesCS7A01G444100 chr6A 91.983 237 15 3 1 235 532128964 532129198 1.690000e-86 329
34 TraesCS7A01G444100 chr6A 96.241 133 3 2 105 236 384704314 384704445 1.380000e-52 217
35 TraesCS7A01G444100 chr4A 97.744 133 1 2 105 236 273907413 273907544 6.360000e-56 228
36 TraesCS7A01G444100 chr4A 84.305 223 25 7 1 216 295074644 295074425 2.300000e-50 209
37 TraesCS7A01G444100 chr4A 94.574 129 6 1 1 128 306807981 306807853 4.990000e-47 198
38 TraesCS7A01G444100 chr6B 95.652 138 0 5 119 256 228806057 228806188 1.380000e-52 217
39 TraesCS7A01G444100 chr5D 92.000 150 7 5 119 268 30386640 30386496 2.980000e-49 206
40 TraesCS7A01G444100 chr1B 95.935 123 4 1 1 123 226099569 226099690 4.990000e-47 198


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 TraesCS7A01G444100 chr7A 638574249 638576536 2287 True 4226 4226 100.000 1 2288 1 chr7A.!!$R3 2287
1 TraesCS7A01G444100 chr7A 167798331 167799818 1487 True 2145 2145 92.814 237 1713 1 chr7A.!!$R1 1476
2 TraesCS7A01G444100 chr7A 514853181 514854070 889 False 1273 1273 92.705 236 1113 1 chr7A.!!$F1 877
3 TraesCS7A01G444100 chr1D 369900772 369902256 1484 False 2285 2285 94.553 237 1712 1 chr1D.!!$F2 1475
4 TraesCS7A01G444100 chr4D 504270551 504272028 1477 False 2239 2239 94.078 237 1710 1 chr4D.!!$F2 1473
5 TraesCS7A01G444100 chr4D 380246416 380247895 1479 False 2002 2002 91.214 237 1710 1 chr4D.!!$F1 1473
6 TraesCS7A01G444100 chr4D 39368066 39369469 1403 True 1982 1982 92.324 320 1710 1 chr4D.!!$R1 1390
7 TraesCS7A01G444100 chr6D 446602929 446604416 1487 True 2215 2215 93.687 237 1710 1 chr6D.!!$R1 1473
8 TraesCS7A01G444100 chr7D 98404602 98406079 1477 True 2200 2200 93.611 237 1711 1 chr7D.!!$R1 1474
9 TraesCS7A01G444100 chr7D 235533321 235534787 1466 True 2078 2078 92.256 237 1710 1 chr7D.!!$R2 1473
10 TraesCS7A01G444100 chr7D 505347752 505349012 1260 False 1838 1838 93.027 454 1711 1 chr7D.!!$F3 1257
11 TraesCS7A01G444100 chr2A 68888651 68890131 1480 True 2130 2130 92.694 237 1715 1 chr2A.!!$R1 1478
12 TraesCS7A01G444100 chr7B 389093555 389095048 1493 False 2085 2085 92.133 237 1709 1 chr7B.!!$F1 1472
13 TraesCS7A01G444100 chr3D 5429761 5431255 1494 True 2084 2084 92.083 237 1712 1 chr3D.!!$R1 1475
14 TraesCS7A01G444100 chr2D 646882168 646883658 1490 True 1997 1997 91.019 237 1712 1 chr2D.!!$R2 1475
15 TraesCS7A01G444100 chr2D 646959766 646961256 1490 True 1991 1991 90.952 237 1712 1 chr2D.!!$R4 1475
16 TraesCS7A01G444100 chr2D 646798392 646799881 1489 True 1986 1986 90.885 237 1712 1 chr2D.!!$R1 1475
17 TraesCS7A01G444100 chr2D 646927310 646928760 1450 True 1923 1923 90.771 277 1712 1 chr2D.!!$R3 1435
18 TraesCS7A01G444100 chr5A 479753986 479754574 588 False 795 795 91.385 1711 2288 1 chr5A.!!$F1 577
19 TraesCS7A01G444100 chr4B 239434181 239434771 590 True 730 730 89.358 1711 2288 1 chr4B.!!$R1 577

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
198 199 0.034670 GCTGCATCACCCTTTCCTCT 60.035 55.000 0.0 0.0 0.00 3.69 F
308 309 0.172803 CTCTGTTTAGGGTCGTCGGG 59.827 60.000 0.0 0.0 0.00 5.14 F
898 926 1.072852 GATGAGGGCATGGAGGAGC 59.927 63.158 0.0 0.0 34.11 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1139 1173 0.179111 CTTGATCGGCTGAACGGCTA 60.179 55.0 0.0 0.0 35.72 3.93 R
1172 1207 0.318762 AGTGAGGAGCTTGAACGTCC 59.681 55.0 0.0 0.0 0.00 4.79 R
2191 2242 0.667487 CGCGAACAAGAGGAGAAGCA 60.667 55.0 0.0 0.0 0.00 3.91 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
26 27 4.600576 TGCGCACGAGCAAGGACA 62.601 61.111 5.66 0.00 45.06 4.02
27 28 3.345808 GCGCACGAGCAAGGACAA 61.346 61.111 0.30 0.00 42.27 3.18
28 29 2.892334 GCGCACGAGCAAGGACAAA 61.892 57.895 0.30 0.00 42.27 2.83
29 30 1.205064 CGCACGAGCAAGGACAAAG 59.795 57.895 5.50 0.00 42.27 2.77
30 31 1.498865 CGCACGAGCAAGGACAAAGT 61.499 55.000 5.50 0.00 42.27 2.66
31 32 0.040958 GCACGAGCAAGGACAAAGTG 60.041 55.000 0.00 0.00 41.58 3.16
32 33 0.040958 CACGAGCAAGGACAAAGTGC 60.041 55.000 0.00 0.00 38.59 4.40
33 34 0.463654 ACGAGCAAGGACAAAGTGCA 60.464 50.000 0.00 0.00 40.83 4.57
34 35 0.040958 CGAGCAAGGACAAAGTGCAC 60.041 55.000 9.40 9.40 40.83 4.57
35 36 1.024271 GAGCAAGGACAAAGTGCACA 58.976 50.000 21.04 0.00 40.83 4.57
36 37 1.002033 GAGCAAGGACAAAGTGCACAG 60.002 52.381 21.04 10.96 40.83 3.66
37 38 1.024271 GCAAGGACAAAGTGCACAGA 58.976 50.000 21.04 0.00 38.19 3.41
38 39 1.405105 GCAAGGACAAAGTGCACAGAA 59.595 47.619 21.04 0.00 38.19 3.02
39 40 2.159254 GCAAGGACAAAGTGCACAGAAA 60.159 45.455 21.04 0.00 38.19 2.52
40 41 3.675775 GCAAGGACAAAGTGCACAGAAAA 60.676 43.478 21.04 0.00 38.19 2.29
41 42 4.107622 CAAGGACAAAGTGCACAGAAAAG 58.892 43.478 21.04 4.96 0.00 2.27
42 43 3.620488 AGGACAAAGTGCACAGAAAAGA 58.380 40.909 21.04 0.00 0.00 2.52
43 44 3.378427 AGGACAAAGTGCACAGAAAAGAC 59.622 43.478 21.04 2.02 0.00 3.01
44 45 3.378427 GGACAAAGTGCACAGAAAAGACT 59.622 43.478 21.04 0.00 0.00 3.24
45 46 4.574828 GGACAAAGTGCACAGAAAAGACTA 59.425 41.667 21.04 0.00 0.00 2.59
46 47 5.277538 GGACAAAGTGCACAGAAAAGACTAG 60.278 44.000 21.04 0.00 0.00 2.57
47 48 5.186198 ACAAAGTGCACAGAAAAGACTAGT 58.814 37.500 21.04 0.00 0.00 2.57
48 49 6.346096 ACAAAGTGCACAGAAAAGACTAGTA 58.654 36.000 21.04 0.00 0.00 1.82
49 50 6.992715 ACAAAGTGCACAGAAAAGACTAGTAT 59.007 34.615 21.04 0.00 0.00 2.12
50 51 7.499232 ACAAAGTGCACAGAAAAGACTAGTATT 59.501 33.333 21.04 0.00 0.00 1.89
51 52 7.426929 AAGTGCACAGAAAAGACTAGTATTG 57.573 36.000 21.04 0.00 0.00 1.90
52 53 6.759272 AGTGCACAGAAAAGACTAGTATTGA 58.241 36.000 21.04 0.00 0.00 2.57
53 54 7.390027 AGTGCACAGAAAAGACTAGTATTGAT 58.610 34.615 21.04 0.00 0.00 2.57
54 55 7.547370 AGTGCACAGAAAAGACTAGTATTGATC 59.453 37.037 21.04 5.93 0.00 2.92
55 56 7.547370 GTGCACAGAAAAGACTAGTATTGATCT 59.453 37.037 13.17 8.07 0.00 2.75
56 57 7.547019 TGCACAGAAAAGACTAGTATTGATCTG 59.453 37.037 27.82 27.82 35.99 2.90
57 58 7.547370 GCACAGAAAAGACTAGTATTGATCTGT 59.453 37.037 28.67 28.67 39.84 3.41
58 59 8.867935 CACAGAAAAGACTAGTATTGATCTGTG 58.132 37.037 35.15 35.15 43.98 3.66
59 60 8.037758 ACAGAAAAGACTAGTATTGATCTGTGG 58.962 37.037 31.06 17.76 38.83 4.17
60 61 7.493971 CAGAAAAGACTAGTATTGATCTGTGGG 59.506 40.741 24.47 10.26 30.53 4.61
61 62 5.878406 AAGACTAGTATTGATCTGTGGGG 57.122 43.478 1.03 0.00 0.00 4.96
62 63 3.643792 AGACTAGTATTGATCTGTGGGGC 59.356 47.826 0.00 0.00 0.00 5.80
63 64 2.706190 ACTAGTATTGATCTGTGGGGCC 59.294 50.000 0.00 0.00 0.00 5.80
64 65 1.595311 AGTATTGATCTGTGGGGCCA 58.405 50.000 4.39 0.00 0.00 5.36
65 66 1.492176 AGTATTGATCTGTGGGGCCAG 59.508 52.381 4.39 0.00 0.00 4.85
66 67 1.212935 GTATTGATCTGTGGGGCCAGT 59.787 52.381 4.39 0.00 34.02 4.00
67 68 0.706433 ATTGATCTGTGGGGCCAGTT 59.294 50.000 4.39 0.00 34.02 3.16
68 69 0.482446 TTGATCTGTGGGGCCAGTTT 59.518 50.000 4.39 0.00 34.02 2.66
69 70 1.367346 TGATCTGTGGGGCCAGTTTA 58.633 50.000 4.39 0.00 34.02 2.01
70 71 1.281867 TGATCTGTGGGGCCAGTTTAG 59.718 52.381 4.39 0.00 34.02 1.85
71 72 1.559682 GATCTGTGGGGCCAGTTTAGA 59.440 52.381 4.39 1.35 34.02 2.10
72 73 1.668826 TCTGTGGGGCCAGTTTAGAT 58.331 50.000 4.39 0.00 34.02 1.98
73 74 1.559682 TCTGTGGGGCCAGTTTAGATC 59.440 52.381 4.39 0.00 34.02 2.75
74 75 0.623723 TGTGGGGCCAGTTTAGATCC 59.376 55.000 4.39 0.00 0.00 3.36
75 76 0.106669 GTGGGGCCAGTTTAGATCCC 60.107 60.000 4.39 0.00 36.25 3.85
76 77 1.148498 GGGGCCAGTTTAGATCCCG 59.852 63.158 4.39 0.00 37.85 5.14
77 78 1.526225 GGGCCAGTTTAGATCCCGC 60.526 63.158 4.39 0.00 0.00 6.13
78 79 1.526225 GGCCAGTTTAGATCCCGCC 60.526 63.158 0.00 0.00 0.00 6.13
79 80 1.223487 GCCAGTTTAGATCCCGCCA 59.777 57.895 0.00 0.00 0.00 5.69
80 81 0.815615 GCCAGTTTAGATCCCGCCAG 60.816 60.000 0.00 0.00 0.00 4.85
81 82 0.179045 CCAGTTTAGATCCCGCCAGG 60.179 60.000 0.00 0.00 37.24 4.45
89 90 2.036098 TCCCGCCAGGAGTAACGA 59.964 61.111 0.00 0.00 40.93 3.85
90 91 2.183555 CCCGCCAGGAGTAACGAC 59.816 66.667 0.00 0.00 41.02 4.34
91 92 2.183555 CCGCCAGGAGTAACGACC 59.816 66.667 0.00 0.00 41.02 4.79
92 93 2.642254 CCGCCAGGAGTAACGACCA 61.642 63.158 0.00 0.00 41.02 4.02
93 94 1.445582 CGCCAGGAGTAACGACCAC 60.446 63.158 0.00 0.00 0.00 4.16
94 95 1.079336 GCCAGGAGTAACGACCACC 60.079 63.158 0.00 0.00 0.00 4.61
95 96 1.214589 CCAGGAGTAACGACCACCG 59.785 63.158 0.00 0.00 45.44 4.94
96 97 1.214589 CAGGAGTAACGACCACCGG 59.785 63.158 0.00 0.00 43.93 5.28
97 98 1.228675 AGGAGTAACGACCACCGGT 60.229 57.895 0.00 0.00 43.93 5.28
98 99 1.080298 GGAGTAACGACCACCGGTG 60.080 63.158 28.26 28.26 43.93 4.94
116 117 4.006357 GGTGTGTCCGGGGCGTTA 62.006 66.667 0.00 0.00 0.00 3.18
117 118 2.739671 GTGTGTCCGGGGCGTTAC 60.740 66.667 0.00 0.00 0.00 2.50
118 119 3.232483 TGTGTCCGGGGCGTTACA 61.232 61.111 0.00 0.00 0.00 2.41
119 120 2.433664 GTGTCCGGGGCGTTACAG 60.434 66.667 0.00 0.00 0.00 2.74
120 121 4.382320 TGTCCGGGGCGTTACAGC 62.382 66.667 0.00 0.00 0.00 4.40
129 130 3.347411 GCGTTACAGCCTCCTACTG 57.653 57.895 0.00 0.00 41.08 2.74
130 131 0.179108 GCGTTACAGCCTCCTACTGG 60.179 60.000 0.00 0.00 39.55 4.00
131 132 1.471119 CGTTACAGCCTCCTACTGGA 58.529 55.000 0.00 0.00 39.55 3.86
132 133 2.032620 CGTTACAGCCTCCTACTGGAT 58.967 52.381 0.00 0.00 42.29 3.41
133 134 2.431057 CGTTACAGCCTCCTACTGGATT 59.569 50.000 0.00 0.00 42.29 3.01
134 135 3.738281 CGTTACAGCCTCCTACTGGATTG 60.738 52.174 0.00 0.00 42.29 2.67
135 136 2.254152 ACAGCCTCCTACTGGATTGA 57.746 50.000 0.00 0.00 42.29 2.57
136 137 2.769209 ACAGCCTCCTACTGGATTGAT 58.231 47.619 0.00 0.00 42.29 2.57
137 138 3.928754 ACAGCCTCCTACTGGATTGATA 58.071 45.455 0.00 0.00 42.29 2.15
138 139 3.643792 ACAGCCTCCTACTGGATTGATAC 59.356 47.826 0.00 0.00 42.29 2.24
139 140 3.007398 CAGCCTCCTACTGGATTGATACC 59.993 52.174 0.00 0.00 42.29 2.73
140 141 3.116551 AGCCTCCTACTGGATTGATACCT 60.117 47.826 0.00 0.00 42.29 3.08
141 142 3.648545 GCCTCCTACTGGATTGATACCTT 59.351 47.826 0.00 0.00 42.29 3.50
142 143 4.503991 GCCTCCTACTGGATTGATACCTTG 60.504 50.000 0.00 0.00 42.29 3.61
143 144 4.040952 CCTCCTACTGGATTGATACCTTGG 59.959 50.000 0.00 0.00 42.29 3.61
144 145 4.631234 TCCTACTGGATTGATACCTTGGT 58.369 43.478 0.00 0.00 37.46 3.67
145 146 5.036916 TCCTACTGGATTGATACCTTGGTT 58.963 41.667 0.00 0.00 37.46 3.67
146 147 5.130477 TCCTACTGGATTGATACCTTGGTTC 59.870 44.000 0.00 0.00 37.46 3.62
147 148 5.131142 CCTACTGGATTGATACCTTGGTTCT 59.869 44.000 0.00 0.00 34.57 3.01
148 149 5.104259 ACTGGATTGATACCTTGGTTCTC 57.896 43.478 0.00 0.00 0.00 2.87
149 150 4.536090 ACTGGATTGATACCTTGGTTCTCA 59.464 41.667 0.00 0.00 0.00 3.27
150 151 5.014123 ACTGGATTGATACCTTGGTTCTCAA 59.986 40.000 15.14 15.14 0.00 3.02
151 152 5.886609 TGGATTGATACCTTGGTTCTCAAA 58.113 37.500 16.13 3.96 34.56 2.69
152 153 6.310941 TGGATTGATACCTTGGTTCTCAAAA 58.689 36.000 16.13 7.35 34.56 2.44
153 154 6.780031 TGGATTGATACCTTGGTTCTCAAAAA 59.220 34.615 16.13 7.12 34.56 1.94
154 155 7.090808 GGATTGATACCTTGGTTCTCAAAAAC 58.909 38.462 16.13 12.11 34.56 2.43
155 156 7.039714 GGATTGATACCTTGGTTCTCAAAAACT 60.040 37.037 16.13 5.53 34.56 2.66
156 157 6.633500 TGATACCTTGGTTCTCAAAAACTG 57.367 37.500 0.00 0.00 34.56 3.16
157 158 6.361433 TGATACCTTGGTTCTCAAAAACTGA 58.639 36.000 0.00 0.00 34.56 3.41
171 172 7.429636 TCAAAAACTGAGGGAAATACTTACG 57.570 36.000 0.00 0.00 0.00 3.18
172 173 5.874895 AAAACTGAGGGAAATACTTACGC 57.125 39.130 0.00 0.00 0.00 4.42
173 174 4.820894 AACTGAGGGAAATACTTACGCT 57.179 40.909 0.00 0.00 0.00 5.07
174 175 5.927281 AACTGAGGGAAATACTTACGCTA 57.073 39.130 0.00 0.00 0.00 4.26
175 176 5.259832 ACTGAGGGAAATACTTACGCTAC 57.740 43.478 0.00 0.00 0.00 3.58
176 177 4.954826 ACTGAGGGAAATACTTACGCTACT 59.045 41.667 0.00 0.00 0.00 2.57
177 178 5.421374 ACTGAGGGAAATACTTACGCTACTT 59.579 40.000 0.00 0.00 0.00 2.24
178 179 6.070938 ACTGAGGGAAATACTTACGCTACTTT 60.071 38.462 0.00 0.00 0.00 2.66
179 180 6.103997 TGAGGGAAATACTTACGCTACTTTG 58.896 40.000 0.00 0.00 0.00 2.77
180 181 4.874396 AGGGAAATACTTACGCTACTTTGC 59.126 41.667 0.00 0.00 0.00 3.68
181 182 4.874396 GGGAAATACTTACGCTACTTTGCT 59.126 41.667 0.00 0.00 0.00 3.91
182 183 5.220605 GGGAAATACTTACGCTACTTTGCTG 60.221 44.000 0.00 0.00 0.00 4.41
183 184 4.859629 AATACTTACGCTACTTTGCTGC 57.140 40.909 0.00 0.00 0.00 5.25
184 185 2.163818 ACTTACGCTACTTTGCTGCA 57.836 45.000 0.00 0.00 0.00 4.41
185 186 2.699954 ACTTACGCTACTTTGCTGCAT 58.300 42.857 1.84 0.00 0.00 3.96
186 187 2.673368 ACTTACGCTACTTTGCTGCATC 59.327 45.455 1.84 0.00 0.00 3.91
187 188 2.378445 TACGCTACTTTGCTGCATCA 57.622 45.000 1.84 0.00 0.00 3.07
188 189 0.798776 ACGCTACTTTGCTGCATCAC 59.201 50.000 1.84 0.00 0.00 3.06
189 190 0.097674 CGCTACTTTGCTGCATCACC 59.902 55.000 1.84 0.00 0.00 4.02
190 191 0.453390 GCTACTTTGCTGCATCACCC 59.547 55.000 1.84 0.00 0.00 4.61
191 192 1.952367 GCTACTTTGCTGCATCACCCT 60.952 52.381 1.84 0.00 0.00 4.34
192 193 2.440409 CTACTTTGCTGCATCACCCTT 58.560 47.619 1.84 0.00 0.00 3.95
193 194 1.708341 ACTTTGCTGCATCACCCTTT 58.292 45.000 1.84 0.00 0.00 3.11
194 195 1.615392 ACTTTGCTGCATCACCCTTTC 59.385 47.619 1.84 0.00 0.00 2.62
195 196 0.968405 TTTGCTGCATCACCCTTTCC 59.032 50.000 1.84 0.00 0.00 3.13
196 197 0.112995 TTGCTGCATCACCCTTTCCT 59.887 50.000 1.84 0.00 0.00 3.36
197 198 0.322816 TGCTGCATCACCCTTTCCTC 60.323 55.000 0.00 0.00 0.00 3.71
198 199 0.034670 GCTGCATCACCCTTTCCTCT 60.035 55.000 0.00 0.00 0.00 3.69
199 200 1.615384 GCTGCATCACCCTTTCCTCTT 60.615 52.381 0.00 0.00 0.00 2.85
200 201 2.363683 CTGCATCACCCTTTCCTCTTC 58.636 52.381 0.00 0.00 0.00 2.87
201 202 1.704628 TGCATCACCCTTTCCTCTTCA 59.295 47.619 0.00 0.00 0.00 3.02
202 203 2.108075 TGCATCACCCTTTCCTCTTCAA 59.892 45.455 0.00 0.00 0.00 2.69
203 204 2.751806 GCATCACCCTTTCCTCTTCAAG 59.248 50.000 0.00 0.00 0.00 3.02
210 211 4.855715 CCTTTCCTCTTCAAGGGAAAAC 57.144 45.455 16.45 0.00 42.49 2.43
211 212 3.574396 CCTTTCCTCTTCAAGGGAAAACC 59.426 47.826 16.45 0.00 42.49 3.27
212 213 3.963476 TTCCTCTTCAAGGGAAAACCA 57.037 42.857 5.19 0.00 46.23 3.67
213 214 3.963476 TCCTCTTCAAGGGAAAACCAA 57.037 42.857 0.00 0.00 46.23 3.67
214 215 3.562182 TCCTCTTCAAGGGAAAACCAAC 58.438 45.455 0.00 0.00 46.23 3.77
215 216 2.293399 CCTCTTCAAGGGAAAACCAACG 59.707 50.000 0.00 0.00 42.03 4.10
216 217 1.679153 TCTTCAAGGGAAAACCAACGC 59.321 47.619 0.00 0.00 43.89 4.84
217 218 1.407258 CTTCAAGGGAAAACCAACGCA 59.593 47.619 0.00 0.00 43.89 5.24
218 219 1.475403 TCAAGGGAAAACCAACGCAA 58.525 45.000 0.00 0.00 43.89 4.85
219 220 1.407258 TCAAGGGAAAACCAACGCAAG 59.593 47.619 0.00 0.00 43.89 4.01
231 232 4.368391 CGCAAGTGCTCAAGAGGT 57.632 55.556 1.21 0.00 39.32 3.85
232 233 3.514777 CGCAAGTGCTCAAGAGGTA 57.485 52.632 1.21 0.00 39.32 3.08
233 234 1.354040 CGCAAGTGCTCAAGAGGTAG 58.646 55.000 1.21 0.00 39.32 3.18
234 235 1.082690 GCAAGTGCTCAAGAGGTAGC 58.917 55.000 0.00 0.00 39.25 3.58
282 283 5.163301 CCAGTAGGTCTTATACTTGCACCAT 60.163 44.000 0.00 0.00 31.05 3.55
308 309 0.172803 CTCTGTTTAGGGTCGTCGGG 59.827 60.000 0.00 0.00 0.00 5.14
517 529 1.553690 CGAGGAAGAAGGCCCTCCAA 61.554 60.000 0.00 0.00 44.66 3.53
549 562 1.989508 GGAAGGGGTTGGCATTGGG 60.990 63.158 0.00 0.00 0.00 4.12
551 564 2.746947 GAAGGGGTTGGCATTGGGGT 62.747 60.000 0.00 0.00 0.00 4.95
642 655 1.299976 GGTGGGCAGGGTGAGTAAG 59.700 63.158 0.00 0.00 0.00 2.34
722 735 6.051717 GCTCTTGAATTAGCCATGAACTCTA 58.948 40.000 0.00 0.00 32.40 2.43
730 743 4.160642 AGCCATGAACTCTATGCAATGA 57.839 40.909 0.00 0.00 0.00 2.57
882 910 3.461773 CCTGAGGGTGGCGACGAT 61.462 66.667 0.00 0.00 0.00 3.73
898 926 1.072852 GATGAGGGCATGGAGGAGC 59.927 63.158 0.00 0.00 34.11 4.70
1021 1055 2.069165 GCCCCTGGACTTCACCAAGT 62.069 60.000 0.00 0.00 46.21 3.16
1030 1064 3.243636 GGACTTCACCAAGTACTTCGTCA 60.244 47.826 4.77 0.00 43.37 4.35
1139 1173 3.643554 GGGTTGGGCCACCTACGT 61.644 66.667 19.97 0.00 42.49 3.57
1172 1207 2.693069 GATCAAGATCGGCTACATGGG 58.307 52.381 0.00 0.00 0.00 4.00
1193 1228 1.271102 GACGTTCAAGCTCCTCACTCT 59.729 52.381 0.00 0.00 0.00 3.24
1273 1308 0.667792 GAAGCACGACGAAGCCTTCT 60.668 55.000 0.00 0.00 0.00 2.85
1315 1350 1.618861 CACCTCTTTCGAGCGTACTG 58.381 55.000 0.00 0.00 35.90 2.74
1494 1531 2.902608 AGAGGTTACCACACATCAGGA 58.097 47.619 3.51 0.00 29.53 3.86
1541 1578 4.340950 CCTTGGTTTTGTGGACTAACATGT 59.659 41.667 0.00 0.00 0.00 3.21
1576 1613 2.203337 GCAGTGTGGTTCAGCCCA 60.203 61.111 0.00 0.00 36.04 5.36
1682 1719 2.638480 AGTGTATGCAATGCGGGTAT 57.362 45.000 0.00 0.00 0.00 2.73
1705 1742 2.353376 CGCACGGCAACCAAACAG 60.353 61.111 0.00 0.00 0.00 3.16
1731 1768 1.973515 AGAGCACTGTCTCAACATCCA 59.026 47.619 9.03 0.00 35.59 3.41
1803 1843 1.195442 TCCACGGACATGGCCTACAA 61.195 55.000 17.64 0.00 39.85 2.41
1806 1846 0.036388 ACGGACATGGCCTACAACAG 60.036 55.000 17.64 0.00 0.00 3.16
1812 1852 0.907704 ATGGCCTACAACAGACCGGA 60.908 55.000 9.46 0.00 0.00 5.14
1831 1871 9.470399 AGACCGGAACCTTGTTTATATAATTTT 57.530 29.630 9.46 0.00 0.00 1.82
1853 1893 5.411831 TCTCTGTATGTTCTTCTGCACAT 57.588 39.130 0.00 0.00 37.40 3.21
1861 1901 7.875554 TGTATGTTCTTCTGCACATGTACTAAA 59.124 33.333 0.00 0.00 35.24 1.85
1863 1903 7.132694 TGTTCTTCTGCACATGTACTAAATG 57.867 36.000 0.00 0.00 0.00 2.32
1865 1905 6.968131 TCTTCTGCACATGTACTAAATGAC 57.032 37.500 0.00 0.00 0.00 3.06
1886 1926 6.394809 TGACATGATTTTCTACTCGCAACTA 58.605 36.000 0.00 0.00 0.00 2.24
1889 1929 6.649141 ACATGATTTTCTACTCGCAACTACAA 59.351 34.615 0.00 0.00 0.00 2.41
1914 1954 4.142038 TGCAGAGTAATAGCACGGATCTA 58.858 43.478 0.00 0.00 32.55 1.98
1961 2002 9.593565 AATAAGAAGAAATAGATGGGGATTTCC 57.406 33.333 4.21 0.00 41.15 3.13
1980 2021 2.308570 TCCACAAGCATGTCCACCTTAT 59.691 45.455 0.00 0.00 37.82 1.73
2019 2060 6.150332 TCTAAATCACAGGATAGGGGAATCA 58.850 40.000 0.00 0.00 32.09 2.57
2034 2075 4.400567 GGGGAATCAATCTTGTTCTTGGAG 59.599 45.833 0.00 0.00 0.00 3.86
2058 2099 5.337009 GCAAATCACCAGAATCCATCAAACT 60.337 40.000 0.00 0.00 0.00 2.66
2094 2135 8.634335 TTACTGAACCAATCTGAATCAAATCA 57.366 30.769 0.00 0.00 0.00 2.57
2104 2145 4.400251 TCTGAATCAAATCAATCTGGCCAC 59.600 41.667 0.00 0.00 0.00 5.01
2158 2199 0.461961 ATACCTTGCACGGAGAGCTC 59.538 55.000 17.43 5.27 46.38 4.09
2175 2225 4.260355 CGAATCGACGGCGGGCTA 62.260 66.667 12.58 0.00 38.28 3.93
2185 2236 4.222847 GCGGGCTAAGGACGAGGG 62.223 72.222 0.00 0.00 0.00 4.30
2186 2237 2.758737 CGGGCTAAGGACGAGGGT 60.759 66.667 0.00 0.00 0.00 4.34
2187 2238 2.901042 GGGCTAAGGACGAGGGTG 59.099 66.667 0.00 0.00 0.00 4.61
2188 2239 2.187163 GGCTAAGGACGAGGGTGC 59.813 66.667 0.00 0.00 34.21 5.01
2189 2240 2.202756 GCTAAGGACGAGGGTGCG 60.203 66.667 0.00 0.00 39.82 5.34
2191 2242 2.678934 TAAGGACGAGGGTGCGCT 60.679 61.111 9.73 0.00 39.82 5.92
2192 2243 2.890847 CTAAGGACGAGGGTGCGCTG 62.891 65.000 9.73 0.00 39.82 5.18
2212 2263 1.355066 CTTCTCCTCTTGTTCGCGCC 61.355 60.000 0.00 0.00 0.00 6.53
2213 2264 1.816863 TTCTCCTCTTGTTCGCGCCT 61.817 55.000 0.00 0.00 0.00 5.52
2249 2300 3.799755 GTTCGCGCGCTTCCCATT 61.800 61.111 30.48 0.00 0.00 3.16
2250 2301 3.496131 TTCGCGCGCTTCCCATTC 61.496 61.111 30.48 0.00 0.00 2.67
2276 2327 2.488355 CGCGCTTCCCTTCTCGTA 59.512 61.111 5.56 0.00 0.00 3.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 4.077188 GTCCTTGCTCGTGCGCAC 62.077 66.667 30.42 30.42 43.34 5.34
9 10 4.600576 TGTCCTTGCTCGTGCGCA 62.601 61.111 5.66 5.66 43.34 6.09
10 11 2.770587 CTTTGTCCTTGCTCGTGCGC 62.771 60.000 0.00 0.00 43.34 6.09
11 12 1.205064 CTTTGTCCTTGCTCGTGCG 59.795 57.895 4.84 0.00 43.34 5.34
12 13 0.040958 CACTTTGTCCTTGCTCGTGC 60.041 55.000 1.71 1.71 40.20 5.34
13 14 0.040958 GCACTTTGTCCTTGCTCGTG 60.041 55.000 0.00 0.00 33.26 4.35
14 15 0.463654 TGCACTTTGTCCTTGCTCGT 60.464 50.000 0.00 0.00 37.16 4.18
15 16 0.040958 GTGCACTTTGTCCTTGCTCG 60.041 55.000 10.32 0.00 37.16 5.03
16 17 1.002033 CTGTGCACTTTGTCCTTGCTC 60.002 52.381 19.41 0.00 37.16 4.26
17 18 1.027357 CTGTGCACTTTGTCCTTGCT 58.973 50.000 19.41 0.00 37.16 3.91
18 19 1.024271 TCTGTGCACTTTGTCCTTGC 58.976 50.000 19.41 0.00 36.76 4.01
19 20 3.781079 TTTCTGTGCACTTTGTCCTTG 57.219 42.857 19.41 0.00 0.00 3.61
20 21 4.016444 TCTTTTCTGTGCACTTTGTCCTT 58.984 39.130 19.41 0.00 0.00 3.36
21 22 3.378427 GTCTTTTCTGTGCACTTTGTCCT 59.622 43.478 19.41 0.00 0.00 3.85
22 23 3.378427 AGTCTTTTCTGTGCACTTTGTCC 59.622 43.478 19.41 0.00 0.00 4.02
23 24 4.622701 AGTCTTTTCTGTGCACTTTGTC 57.377 40.909 19.41 1.51 0.00 3.18
24 25 5.186198 ACTAGTCTTTTCTGTGCACTTTGT 58.814 37.500 19.41 0.00 0.00 2.83
25 26 5.741388 ACTAGTCTTTTCTGTGCACTTTG 57.259 39.130 19.41 8.48 0.00 2.77
26 27 7.715249 TCAATACTAGTCTTTTCTGTGCACTTT 59.285 33.333 19.41 0.00 0.00 2.66
27 28 7.217200 TCAATACTAGTCTTTTCTGTGCACTT 58.783 34.615 19.41 0.00 0.00 3.16
28 29 6.759272 TCAATACTAGTCTTTTCTGTGCACT 58.241 36.000 19.41 0.00 0.00 4.40
29 30 7.547370 AGATCAATACTAGTCTTTTCTGTGCAC 59.453 37.037 10.75 10.75 0.00 4.57
30 31 7.547019 CAGATCAATACTAGTCTTTTCTGTGCA 59.453 37.037 15.73 0.00 0.00 4.57
31 32 7.547370 ACAGATCAATACTAGTCTTTTCTGTGC 59.453 37.037 22.65 1.28 39.65 4.57
32 33 8.867935 CACAGATCAATACTAGTCTTTTCTGTG 58.132 37.037 27.71 27.71 46.72 3.66
33 34 8.037758 CCACAGATCAATACTAGTCTTTTCTGT 58.962 37.037 20.09 20.09 41.26 3.41
34 35 7.493971 CCCACAGATCAATACTAGTCTTTTCTG 59.506 40.741 19.27 19.27 35.40 3.02
35 36 7.365117 CCCCACAGATCAATACTAGTCTTTTCT 60.365 40.741 0.00 0.00 0.00 2.52
36 37 6.763610 CCCCACAGATCAATACTAGTCTTTTC 59.236 42.308 0.00 0.00 0.00 2.29
37 38 6.653989 CCCCACAGATCAATACTAGTCTTTT 58.346 40.000 0.00 0.00 0.00 2.27
38 39 5.396884 GCCCCACAGATCAATACTAGTCTTT 60.397 44.000 0.00 0.00 0.00 2.52
39 40 4.101741 GCCCCACAGATCAATACTAGTCTT 59.898 45.833 0.00 0.00 0.00 3.01
40 41 3.643792 GCCCCACAGATCAATACTAGTCT 59.356 47.826 0.00 0.00 0.00 3.24
41 42 3.244249 GGCCCCACAGATCAATACTAGTC 60.244 52.174 0.00 0.00 0.00 2.59
42 43 2.706190 GGCCCCACAGATCAATACTAGT 59.294 50.000 0.00 0.00 0.00 2.57
43 44 2.705658 TGGCCCCACAGATCAATACTAG 59.294 50.000 0.00 0.00 0.00 2.57
44 45 2.705658 CTGGCCCCACAGATCAATACTA 59.294 50.000 0.00 0.00 40.97 1.82
45 46 1.492176 CTGGCCCCACAGATCAATACT 59.508 52.381 0.00 0.00 40.97 2.12
46 47 1.212935 ACTGGCCCCACAGATCAATAC 59.787 52.381 0.00 0.00 40.97 1.89
47 48 1.595311 ACTGGCCCCACAGATCAATA 58.405 50.000 0.00 0.00 40.97 1.90
48 49 0.706433 AACTGGCCCCACAGATCAAT 59.294 50.000 0.00 0.00 40.97 2.57
49 50 0.482446 AAACTGGCCCCACAGATCAA 59.518 50.000 0.00 0.00 40.97 2.57
50 51 1.281867 CTAAACTGGCCCCACAGATCA 59.718 52.381 0.00 0.00 40.97 2.92
51 52 1.559682 TCTAAACTGGCCCCACAGATC 59.440 52.381 0.00 0.00 40.97 2.75
52 53 1.668826 TCTAAACTGGCCCCACAGAT 58.331 50.000 0.00 0.00 40.97 2.90
53 54 1.559682 GATCTAAACTGGCCCCACAGA 59.440 52.381 0.00 0.00 40.97 3.41
54 55 1.408822 GGATCTAAACTGGCCCCACAG 60.409 57.143 0.00 0.00 44.03 3.66
55 56 0.623723 GGATCTAAACTGGCCCCACA 59.376 55.000 0.00 0.00 0.00 4.17
56 57 0.106669 GGGATCTAAACTGGCCCCAC 60.107 60.000 0.00 0.00 34.10 4.61
57 58 1.632018 CGGGATCTAAACTGGCCCCA 61.632 60.000 0.00 0.00 35.30 4.96
58 59 1.148498 CGGGATCTAAACTGGCCCC 59.852 63.158 0.00 0.00 35.30 5.80
59 60 1.526225 GCGGGATCTAAACTGGCCC 60.526 63.158 0.00 0.00 35.40 5.80
60 61 1.526225 GGCGGGATCTAAACTGGCC 60.526 63.158 0.00 0.00 32.86 5.36
61 62 0.815615 CTGGCGGGATCTAAACTGGC 60.816 60.000 0.00 0.00 38.85 4.85
62 63 0.179045 CCTGGCGGGATCTAAACTGG 60.179 60.000 6.48 0.00 37.23 4.00
63 64 0.830648 TCCTGGCGGGATCTAAACTG 59.169 55.000 12.08 0.00 39.58 3.16
64 65 1.123928 CTCCTGGCGGGATCTAAACT 58.876 55.000 17.09 0.00 44.15 2.66
65 66 0.831307 ACTCCTGGCGGGATCTAAAC 59.169 55.000 17.09 0.00 44.15 2.01
66 67 2.433239 GTTACTCCTGGCGGGATCTAAA 59.567 50.000 17.09 5.18 44.15 1.85
67 68 2.037144 GTTACTCCTGGCGGGATCTAA 58.963 52.381 17.09 11.57 44.15 2.10
68 69 1.700955 GTTACTCCTGGCGGGATCTA 58.299 55.000 17.09 5.66 44.15 1.98
69 70 1.392710 CGTTACTCCTGGCGGGATCT 61.393 60.000 17.09 6.72 44.15 2.75
70 71 1.067582 CGTTACTCCTGGCGGGATC 59.932 63.158 17.09 6.25 44.15 3.36
71 72 1.380785 TCGTTACTCCTGGCGGGAT 60.381 57.895 17.09 8.91 44.15 3.85
72 73 2.036098 TCGTTACTCCTGGCGGGA 59.964 61.111 15.74 15.74 42.77 5.14
73 74 2.183555 GTCGTTACTCCTGGCGGG 59.816 66.667 5.83 5.83 0.00 6.13
74 75 2.183555 GGTCGTTACTCCTGGCGG 59.816 66.667 0.00 0.00 0.00 6.13
75 76 1.445582 GTGGTCGTTACTCCTGGCG 60.446 63.158 0.00 0.00 0.00 5.69
76 77 1.079336 GGTGGTCGTTACTCCTGGC 60.079 63.158 0.00 0.00 0.00 4.85
77 78 1.214589 CGGTGGTCGTTACTCCTGG 59.785 63.158 0.00 0.00 0.00 4.45
78 79 1.214589 CCGGTGGTCGTTACTCCTG 59.785 63.158 0.00 0.00 37.11 3.86
79 80 1.228675 ACCGGTGGTCGTTACTCCT 60.229 57.895 6.12 0.00 37.11 3.69
80 81 1.080298 CACCGGTGGTCGTTACTCC 60.080 63.158 27.57 0.00 37.11 3.85
81 82 1.080298 CCACCGGTGGTCGTTACTC 60.080 63.158 40.44 0.00 45.53 2.59
82 83 3.053828 CCACCGGTGGTCGTTACT 58.946 61.111 40.44 0.00 45.53 2.24
99 100 4.006357 TAACGCCCCGGACACACC 62.006 66.667 0.73 0.00 0.00 4.16
100 101 2.739671 GTAACGCCCCGGACACAC 60.740 66.667 0.73 0.00 0.00 3.82
101 102 3.229156 CTGTAACGCCCCGGACACA 62.229 63.158 0.73 0.00 0.00 3.72
102 103 2.433664 CTGTAACGCCCCGGACAC 60.434 66.667 0.73 0.00 0.00 3.67
103 104 4.382320 GCTGTAACGCCCCGGACA 62.382 66.667 0.73 0.00 0.00 4.02
111 112 0.179108 CCAGTAGGAGGCTGTAACGC 60.179 60.000 0.00 0.00 36.89 4.84
112 113 1.471119 TCCAGTAGGAGGCTGTAACG 58.529 55.000 0.00 0.00 39.61 3.18
123 124 5.131142 AGAACCAAGGTATCAATCCAGTAGG 59.869 44.000 0.00 0.00 0.00 3.18
124 125 6.127054 TGAGAACCAAGGTATCAATCCAGTAG 60.127 42.308 4.99 0.00 0.00 2.57
125 126 5.724370 TGAGAACCAAGGTATCAATCCAGTA 59.276 40.000 4.99 0.00 0.00 2.74
126 127 4.536090 TGAGAACCAAGGTATCAATCCAGT 59.464 41.667 4.99 0.00 0.00 4.00
127 128 5.102953 TGAGAACCAAGGTATCAATCCAG 57.897 43.478 4.99 0.00 0.00 3.86
128 129 5.512942 TTGAGAACCAAGGTATCAATCCA 57.487 39.130 13.02 0.00 32.60 3.41
129 130 6.834168 TTTTGAGAACCAAGGTATCAATCC 57.166 37.500 16.11 0.00 35.41 3.01
130 131 7.809806 CAGTTTTTGAGAACCAAGGTATCAATC 59.190 37.037 16.11 11.55 35.41 2.67
131 132 7.505585 TCAGTTTTTGAGAACCAAGGTATCAAT 59.494 33.333 16.11 4.02 35.41 2.57
132 133 6.831353 TCAGTTTTTGAGAACCAAGGTATCAA 59.169 34.615 13.02 13.02 35.94 2.57
133 134 6.361433 TCAGTTTTTGAGAACCAAGGTATCA 58.639 36.000 0.00 0.00 35.94 2.15
134 135 6.877611 TCAGTTTTTGAGAACCAAGGTATC 57.122 37.500 0.00 0.00 35.94 2.24
146 147 7.834316 GCGTAAGTATTTCCCTCAGTTTTTGAG 60.834 40.741 0.00 0.00 46.36 3.02
147 148 6.072893 GCGTAAGTATTTCCCTCAGTTTTTGA 60.073 38.462 0.00 0.00 41.68 2.69
148 149 6.072673 AGCGTAAGTATTTCCCTCAGTTTTTG 60.073 38.462 0.00 0.00 41.68 2.44
149 150 6.002082 AGCGTAAGTATTTCCCTCAGTTTTT 58.998 36.000 0.00 0.00 41.68 1.94
150 151 5.557866 AGCGTAAGTATTTCCCTCAGTTTT 58.442 37.500 0.00 0.00 41.68 2.43
151 152 5.161943 AGCGTAAGTATTTCCCTCAGTTT 57.838 39.130 0.00 0.00 41.68 2.66
152 153 4.820894 AGCGTAAGTATTTCCCTCAGTT 57.179 40.909 0.00 0.00 41.68 3.16
153 154 4.954826 AGTAGCGTAAGTATTTCCCTCAGT 59.045 41.667 0.00 0.00 41.68 3.41
154 155 5.517322 AGTAGCGTAAGTATTTCCCTCAG 57.483 43.478 0.00 0.00 41.68 3.35
155 156 5.927281 AAGTAGCGTAAGTATTTCCCTCA 57.073 39.130 0.00 0.00 41.68 3.86
156 157 5.006455 GCAAAGTAGCGTAAGTATTTCCCTC 59.994 44.000 0.00 0.00 41.68 4.30
157 158 4.874396 GCAAAGTAGCGTAAGTATTTCCCT 59.126 41.667 0.00 0.00 41.68 4.20
158 159 4.874396 AGCAAAGTAGCGTAAGTATTTCCC 59.126 41.667 0.00 0.00 40.15 3.97
159 160 5.726963 GCAGCAAAGTAGCGTAAGTATTTCC 60.727 44.000 0.00 0.00 40.15 3.13
160 161 5.163893 TGCAGCAAAGTAGCGTAAGTATTTC 60.164 40.000 0.00 0.00 40.15 2.17
161 162 4.693566 TGCAGCAAAGTAGCGTAAGTATTT 59.306 37.500 0.00 0.00 40.15 1.40
162 163 4.250464 TGCAGCAAAGTAGCGTAAGTATT 58.750 39.130 0.00 0.00 40.15 1.89
163 164 3.857052 TGCAGCAAAGTAGCGTAAGTAT 58.143 40.909 0.00 0.00 40.15 2.12
164 165 3.306917 TGCAGCAAAGTAGCGTAAGTA 57.693 42.857 0.00 0.00 40.15 2.24
165 166 2.163818 TGCAGCAAAGTAGCGTAAGT 57.836 45.000 0.00 0.00 40.15 2.24
166 167 2.672874 TGATGCAGCAAAGTAGCGTAAG 59.327 45.455 0.00 0.00 40.15 2.34
167 168 2.415168 GTGATGCAGCAAAGTAGCGTAA 59.585 45.455 6.05 0.00 40.15 3.18
168 169 1.999735 GTGATGCAGCAAAGTAGCGTA 59.000 47.619 6.05 0.00 40.15 4.42
169 170 0.798776 GTGATGCAGCAAAGTAGCGT 59.201 50.000 6.05 0.00 40.15 5.07
170 171 0.097674 GGTGATGCAGCAAAGTAGCG 59.902 55.000 6.05 0.00 40.15 4.26
171 172 0.453390 GGGTGATGCAGCAAAGTAGC 59.547 55.000 6.05 0.00 33.07 3.58
172 173 2.119801 AGGGTGATGCAGCAAAGTAG 57.880 50.000 6.05 0.00 33.07 2.57
173 174 2.584835 AAGGGTGATGCAGCAAAGTA 57.415 45.000 6.05 0.00 33.07 2.24
174 175 1.615392 GAAAGGGTGATGCAGCAAAGT 59.385 47.619 6.05 0.00 33.07 2.66
175 176 1.067354 GGAAAGGGTGATGCAGCAAAG 60.067 52.381 6.05 0.00 33.07 2.77
176 177 0.968405 GGAAAGGGTGATGCAGCAAA 59.032 50.000 6.05 0.00 33.07 3.68
177 178 0.112995 AGGAAAGGGTGATGCAGCAA 59.887 50.000 6.05 0.00 33.07 3.91
178 179 0.322816 GAGGAAAGGGTGATGCAGCA 60.323 55.000 0.00 0.00 33.07 4.41
179 180 0.034670 AGAGGAAAGGGTGATGCAGC 60.035 55.000 0.00 0.00 0.00 5.25
180 181 2.290514 TGAAGAGGAAAGGGTGATGCAG 60.291 50.000 0.00 0.00 0.00 4.41
181 182 1.704628 TGAAGAGGAAAGGGTGATGCA 59.295 47.619 0.00 0.00 0.00 3.96
182 183 2.496899 TGAAGAGGAAAGGGTGATGC 57.503 50.000 0.00 0.00 0.00 3.91
194 195 2.293399 CGTTGGTTTTCCCTTGAAGAGG 59.707 50.000 0.00 0.00 45.86 3.69
195 196 2.287608 GCGTTGGTTTTCCCTTGAAGAG 60.288 50.000 0.00 0.00 39.73 2.85
196 197 1.679153 GCGTTGGTTTTCCCTTGAAGA 59.321 47.619 0.00 0.00 39.73 2.87
197 198 1.407258 TGCGTTGGTTTTCCCTTGAAG 59.593 47.619 0.00 0.00 39.73 3.02
198 199 1.475403 TGCGTTGGTTTTCCCTTGAA 58.525 45.000 0.00 0.00 39.73 2.69
199 200 1.407258 CTTGCGTTGGTTTTCCCTTGA 59.593 47.619 0.00 0.00 39.73 3.02
200 201 1.136110 ACTTGCGTTGGTTTTCCCTTG 59.864 47.619 0.00 0.00 39.73 3.61
201 202 1.136110 CACTTGCGTTGGTTTTCCCTT 59.864 47.619 0.00 0.00 39.73 3.95
202 203 0.744281 CACTTGCGTTGGTTTTCCCT 59.256 50.000 0.00 0.00 39.73 4.20
203 204 0.874175 GCACTTGCGTTGGTTTTCCC 60.874 55.000 0.00 0.00 39.73 3.97
204 205 2.588731 GCACTTGCGTTGGTTTTCC 58.411 52.632 0.00 0.00 41.14 3.13
215 216 1.082690 GCTACCTCTTGAGCACTTGC 58.917 55.000 0.00 0.00 38.62 4.01
216 217 2.462456 TGCTACCTCTTGAGCACTTG 57.538 50.000 0.00 0.00 43.64 3.16
220 221 1.591703 CCGTGCTACCTCTTGAGCA 59.408 57.895 0.00 0.00 46.24 4.26
221 222 1.811679 GCCGTGCTACCTCTTGAGC 60.812 63.158 0.00 0.00 39.25 4.26
222 223 0.737715 GTGCCGTGCTACCTCTTGAG 60.738 60.000 0.00 0.00 0.00 3.02
223 224 1.292223 GTGCCGTGCTACCTCTTGA 59.708 57.895 0.00 0.00 0.00 3.02
224 225 2.094659 CGTGCCGTGCTACCTCTTG 61.095 63.158 0.00 0.00 0.00 3.02
225 226 2.261671 CGTGCCGTGCTACCTCTT 59.738 61.111 0.00 0.00 0.00 2.85
226 227 3.760035 CCGTGCCGTGCTACCTCT 61.760 66.667 0.00 0.00 0.00 3.69
231 232 4.865761 GATCGCCGTGCCGTGCTA 62.866 66.667 0.00 0.00 0.00 3.49
234 235 1.821241 CTAATGATCGCCGTGCCGTG 61.821 60.000 0.00 0.00 0.00 4.94
246 247 3.243724 GACCTACTGGGCTCCTAATGAT 58.756 50.000 0.00 0.00 38.69 2.45
282 283 3.644738 ACGACCCTAAACAGAGGAAGAAA 59.355 43.478 0.00 0.00 39.15 2.52
308 309 2.348665 GCCATGAATCAGGCCATCC 58.651 57.895 5.01 0.00 45.18 3.51
327 328 1.358877 CAGTTGACATCATTCGCCGA 58.641 50.000 0.00 0.00 0.00 5.54
329 330 0.099436 GGCAGTTGACATCATTCGCC 59.901 55.000 0.00 0.00 0.00 5.54
517 529 1.007607 CCTTCCCTTGGGGTATTGGT 58.992 55.000 5.78 0.00 44.74 3.67
722 735 3.054582 AGTCATGGAGTCAGTCATTGCAT 60.055 43.478 0.00 0.00 0.00 3.96
730 743 2.808202 GCACACAAGTCATGGAGTCAGT 60.808 50.000 0.00 0.00 0.00 3.41
795 823 2.118294 GGGTGAAGGGGCTGCTTT 59.882 61.111 0.00 0.00 0.00 3.51
882 910 3.092511 GGCTCCTCCATGCCCTCA 61.093 66.667 0.00 0.00 43.11 3.86
979 1013 0.391661 GGGATGCACTCAAGCTTCGA 60.392 55.000 0.00 0.00 38.98 3.71
1030 1064 4.353437 GAACTCCGTCGGCACCGT 62.353 66.667 6.34 0.00 40.74 4.83
1139 1173 0.179111 CTTGATCGGCTGAACGGCTA 60.179 55.000 0.00 0.00 35.72 3.93
1151 1186 2.332104 CCATGTAGCCGATCTTGATCG 58.668 52.381 21.77 21.77 43.15 3.69
1172 1207 0.318762 AGTGAGGAGCTTGAACGTCC 59.681 55.000 0.00 0.00 0.00 4.79
1273 1308 1.684734 GACCCTACTCCTTGGCGGA 60.685 63.158 0.00 0.00 40.30 5.54
1315 1350 4.410492 ACATGTTCAAAGCAGATTCGAC 57.590 40.909 0.00 0.00 0.00 4.20
1412 1449 4.453478 ACACATCATAAGCACAACAGAGTG 59.547 41.667 0.00 0.00 42.37 3.51
1494 1531 3.027412 TGGTGTTTGGTTGTATGCAAGT 58.973 40.909 0.00 0.00 34.94 3.16
1524 1561 4.720046 TGCCTACATGTTAGTCCACAAAA 58.280 39.130 2.30 0.00 0.00 2.44
1541 1578 0.825840 GCCTGGTGTTTGGTTGCCTA 60.826 55.000 0.00 0.00 0.00 3.93
1576 1613 2.025863 GCATGCCCTCTTACCTGCATT 61.026 52.381 6.36 0.00 42.22 3.56
1635 1672 1.826720 CCAACCTGGCTATGCAAATGT 59.173 47.619 0.00 0.00 0.00 2.71
1682 1719 3.350612 GGTTGCCGTGCGCTACAA 61.351 61.111 9.73 4.86 44.01 2.41
1705 1742 3.322318 GAGACAGTGCTCTGGGGCC 62.322 68.421 19.27 0.00 45.14 5.80
1731 1768 8.746052 TGGCATATAAAAGTACTACAAAGCAT 57.254 30.769 0.00 0.00 0.00 3.79
1780 1817 1.077787 GGCCATGTCCGTGGATTGA 60.078 57.895 9.74 0.00 42.02 2.57
1803 1843 3.782656 ATAAACAAGGTTCCGGTCTGT 57.217 42.857 0.00 0.00 0.00 3.41
1806 1846 9.726232 GAAAATTATATAAACAAGGTTCCGGTC 57.274 33.333 0.00 0.00 0.00 4.79
1831 1871 4.871933 TGTGCAGAAGAACATACAGAGA 57.128 40.909 0.00 0.00 0.00 3.10
1861 1901 5.877012 AGTTGCGAGTAGAAAATCATGTCAT 59.123 36.000 0.00 0.00 0.00 3.06
1863 1903 5.786401 AGTTGCGAGTAGAAAATCATGTC 57.214 39.130 0.00 0.00 0.00 3.06
1865 1905 6.647212 TGTAGTTGCGAGTAGAAAATCATG 57.353 37.500 0.00 0.00 0.00 3.07
1878 1918 2.135139 CTCTGCACTTTGTAGTTGCGA 58.865 47.619 0.00 0.00 33.73 5.10
1914 1954 3.771577 AATCCCTGAGAGAAACGTGTT 57.228 42.857 0.00 0.00 0.00 3.32
1961 2002 2.684881 GGATAAGGTGGACATGCTTGTG 59.315 50.000 10.37 0.00 35.79 3.33
2019 2060 5.279156 GGTGATTTGCTCCAAGAACAAGATT 60.279 40.000 0.00 0.00 0.00 2.40
2034 2075 4.724074 TTGATGGATTCTGGTGATTTGC 57.276 40.909 0.00 0.00 0.00 3.68
2058 2099 7.987458 CAGATTGGTTCAGTAAATTAGGCTAGA 59.013 37.037 0.00 0.00 0.00 2.43
2104 2145 1.376942 CTGCCTCCTCTTGTGCTGG 60.377 63.158 0.00 0.00 0.00 4.85
2158 2199 3.761445 TTAGCCCGCCGTCGATTCG 62.761 63.158 0.00 0.00 38.10 3.34
2175 2225 4.379243 CAGCGCACCCTCGTCCTT 62.379 66.667 11.47 0.00 0.00 3.36
2185 2236 1.375268 AAGAGGAGAAGCAGCGCAC 60.375 57.895 11.47 0.00 0.00 5.34
2186 2237 1.375140 CAAGAGGAGAAGCAGCGCA 60.375 57.895 11.47 0.00 0.00 6.09
2187 2238 0.952984 AACAAGAGGAGAAGCAGCGC 60.953 55.000 0.00 0.00 0.00 5.92
2188 2239 1.074752 GAACAAGAGGAGAAGCAGCG 58.925 55.000 0.00 0.00 0.00 5.18
2189 2240 1.074752 CGAACAAGAGGAGAAGCAGC 58.925 55.000 0.00 0.00 0.00 5.25
2191 2242 0.667487 CGCGAACAAGAGGAGAAGCA 60.667 55.000 0.00 0.00 0.00 3.91
2192 2243 1.960994 GCGCGAACAAGAGGAGAAGC 61.961 60.000 12.10 0.00 0.00 3.86
2212 2263 2.055042 AGGGCAGTAGAGGCACGAG 61.055 63.158 0.00 0.00 40.38 4.18
2213 2264 2.037367 AGGGCAGTAGAGGCACGA 59.963 61.111 0.00 0.00 40.38 4.35


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

AutoCloner maintained by Alex Coulton.