Multiple sequence alignment - TraesCS4D01G206800

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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 TraesCS4D01G206800 chr4D 100.000 2237 0 0 1 2237 354586256 354588492 0.000000e+00 4132.0
1 TraesCS4D01G206800 chr4D 93.794 854 42 5 1390 2234 354594791 354595642 0.000000e+00 1273.0
2 TraesCS4D01G206800 chr4D 89.929 844 79 4 171 1009 305535369 305534527 0.000000e+00 1083.0
3 TraesCS4D01G206800 chr4D 94.302 351 17 3 1391 1739 196758241 196758590 3.270000e-148 534.0
4 TraesCS4D01G206800 chr4D 93.447 351 20 3 1390 1739 196767248 196767596 3.290000e-143 518.0
5 TraesCS4D01G206800 chr4D 91.185 363 19 5 1390 1751 483610423 483610073 4.320000e-132 481.0
6 TraesCS4D01G206800 chr4D 89.883 257 23 3 1390 1644 322460610 322460865 5.960000e-86 327.0
7 TraesCS4D01G206800 chr4D 89.494 257 24 3 1390 1644 322469773 322470028 2.770000e-84 322.0
8 TraesCS4D01G206800 chr4D 87.209 258 28 5 1390 1644 470284906 470284651 2.810000e-74 289.0
9 TraesCS4D01G206800 chr4D 90.338 207 17 3 1391 1595 470311834 470311629 3.660000e-68 268.0
10 TraesCS4D01G206800 chr4D 85.887 248 31 4 1390 1634 315244965 315245211 6.130000e-66 261.0
11 TraesCS4D01G206800 chr4D 97.273 110 3 0 1281 1390 336388273 336388382 1.050000e-43 187.0
12 TraesCS4D01G206800 chr4D 96.429 112 4 0 1279 1390 87012837 87012948 3.790000e-43 185.0
13 TraesCS4D01G206800 chr4D 96.429 112 4 0 1279 1390 425692858 425692747 3.790000e-43 185.0
14 TraesCS4D01G206800 chr4D 95.536 112 5 0 1279 1390 17951136 17951247 1.770000e-41 180.0
15 TraesCS4D01G206800 chr4D 96.296 81 1 2 1 80 196776571 196776650 5.010000e-27 132.0
16 TraesCS4D01G206800 chr4D 96.296 81 2 1 1 80 337871836 337871756 5.010000e-27 132.0
17 TraesCS4D01G206800 chr4D 96.296 81 2 1 1 80 441377372 441377452 5.010000e-27 132.0
18 TraesCS4D01G206800 chr4D 96.296 81 2 1 1 80 452190984 452190904 5.010000e-27 132.0
19 TraesCS4D01G206800 chr7D 90.555 847 75 3 168 1009 146456432 146455586 0.000000e+00 1116.0
20 TraesCS4D01G206800 chr7D 90.544 846 73 5 171 1009 318805189 318804344 0.000000e+00 1112.0
21 TraesCS4D01G206800 chr7D 90.212 848 75 7 169 1009 197350812 197351658 0.000000e+00 1099.0
22 TraesCS4D01G206800 chr7D 99.632 272 1 0 1009 1280 231582824 231582553 4.290000e-137 497.0
23 TraesCS4D01G206800 chr7D 99.632 272 1 0 1009 1280 231584903 231584632 4.290000e-137 497.0
24 TraesCS4D01G206800 chr7D 95.472 265 11 1 1390 1654 258210173 258209910 2.660000e-114 422.0
25 TraesCS4D01G206800 chr7D 88.608 237 25 2 2002 2237 399294322 399294087 1.010000e-73 287.0
26 TraesCS4D01G206800 chr7D 86.364 220 26 4 1945 2162 376743536 376743319 1.030000e-58 237.0
27 TraesCS4D01G206800 chr7D 96.429 112 4 0 1279 1390 139946848 139946959 3.790000e-43 185.0
28 TraesCS4D01G206800 chr7D 96.429 112 4 0 1279 1390 227020153 227020042 3.790000e-43 185.0
29 TraesCS4D01G206800 chr7D 96.429 112 4 0 1279 1390 332382581 332382692 3.790000e-43 185.0
30 TraesCS4D01G206800 chr7D 91.603 131 4 1 1837 1960 258209470 258209340 8.210000e-40 174.0
31 TraesCS4D01G206800 chr7D 91.089 101 8 1 72 172 382314455 382314554 3.880000e-28 135.0
32 TraesCS4D01G206800 chr6A 89.917 843 77 6 174 1009 472593945 472593104 0.000000e+00 1079.0
33 TraesCS4D01G206800 chr4B 89.692 844 82 2 171 1009 502400398 502399555 0.000000e+00 1072.0
34 TraesCS4D01G206800 chr4B 99.632 272 1 0 1009 1280 151525959 151526230 4.290000e-137 497.0
35 TraesCS4D01G206800 chr4B 99.632 272 1 0 1009 1280 151526873 151527144 4.290000e-137 497.0
36 TraesCS4D01G206800 chr7B 89.610 847 80 5 169 1009 161664875 161665719 0.000000e+00 1070.0
37 TraesCS4D01G206800 chr7B 89.455 844 79 5 171 1009 418218535 418219373 0.000000e+00 1057.0
38 TraesCS4D01G206800 chr7B 99.632 272 1 0 1009 1280 622430944 622430673 4.290000e-137 497.0
39 TraesCS4D01G206800 chr7B 99.632 272 1 0 1009 1280 662733938 662734209 4.290000e-137 497.0
40 TraesCS4D01G206800 chr4A 89.536 841 83 2 174 1009 176753565 176752725 0.000000e+00 1061.0
41 TraesCS4D01G206800 chr2D 95.467 353 14 2 1388 1739 494304982 494304631 1.500000e-156 562.0
42 TraesCS4D01G206800 chr2D 87.415 294 34 3 1946 2237 289822980 289822688 3.560000e-88 335.0
43 TraesCS4D01G206800 chr2D 97.297 111 3 0 1279 1389 455421304 455421194 2.930000e-44 189.0
44 TraesCS4D01G206800 chr2D 91.453 117 3 5 1728 1837 318288510 318288394 1.070000e-33 154.0
45 TraesCS4D01G206800 chr2D 88.119 101 11 1 72 172 518044695 518044794 3.900000e-23 119.0
46 TraesCS4D01G206800 chr3D 94.302 351 18 2 1390 1739 415078680 415078331 9.090000e-149 536.0
47 TraesCS4D01G206800 chr3D 93.714 350 19 3 1391 1739 415087939 415087592 2.550000e-144 521.0
48 TraesCS4D01G206800 chr3D 93.143 350 19 4 1393 1739 160023849 160023502 1.980000e-140 508.0
49 TraesCS4D01G206800 chr3D 99.632 272 1 0 1009 1280 589253144 589252873 4.290000e-137 497.0
50 TraesCS4D01G206800 chr3D 98.077 52 1 0 1723 1774 86367580 86367631 8.510000e-15 91.6
51 TraesCS4D01G206800 chrUn 99.632 272 1 0 1009 1280 354743788 354743517 4.290000e-137 497.0
52 TraesCS4D01G206800 chrUn 95.536 112 5 0 1279 1390 130998972 130998861 1.770000e-41 180.0
53 TraesCS4D01G206800 chrUn 95.455 110 5 0 1281 1390 17598071 17597962 2.280000e-40 176.0
54 TraesCS4D01G206800 chrUn 94.643 112 6 0 1279 1390 119175418 119175307 8.210000e-40 174.0
55 TraesCS4D01G206800 chrUn 94.643 112 6 0 1279 1390 137258831 137258720 8.210000e-40 174.0
56 TraesCS4D01G206800 chrUn 94.545 110 6 0 1281 1390 58692222 58692113 1.060000e-38 171.0
57 TraesCS4D01G206800 chrUn 93.750 112 7 0 1279 1390 95864115 95864004 3.820000e-38 169.0
58 TraesCS4D01G206800 chrUn 93.750 112 7 0 1279 1390 106740769 106740880 3.820000e-38 169.0
59 TraesCS4D01G206800 chrUn 93.750 112 7 0 1279 1390 111800079 111799968 3.820000e-38 169.0
60 TraesCS4D01G206800 chrUn 93.750 112 7 0 1279 1390 222484839 222484950 3.820000e-38 169.0
61 TraesCS4D01G206800 chrUn 96.296 81 2 1 1 80 111424633 111424713 5.010000e-27 132.0
62 TraesCS4D01G206800 chrUn 84.615 78 8 4 1390 1465 39952971 39952896 8.570000e-10 75.0
63 TraesCS4D01G206800 chrUn 84.416 77 8 4 1391 1465 39962671 39962597 3.080000e-09 73.1
64 TraesCS4D01G206800 chr5D 99.265 272 2 0 1009 1280 503257751 503257480 2.000000e-135 492.0
65 TraesCS4D01G206800 chr5D 96.429 112 4 0 1279 1390 103155115 103155004 3.790000e-43 185.0
66 TraesCS4D01G206800 chr5D 91.089 101 8 1 72 172 90911099 90911198 3.880000e-28 135.0
67 TraesCS4D01G206800 chr5D 94.000 50 1 2 1723 1771 400660846 400660894 8.570000e-10 75.0
68 TraesCS4D01G206800 chr1D 87.063 286 34 3 1391 1675 233548369 233548086 9.970000e-84 320.0
69 TraesCS4D01G206800 chr1D 82.578 287 39 10 1395 1675 150060687 150060968 2.220000e-60 243.0
70 TraesCS4D01G206800 chr1D 96.429 112 4 0 1279 1390 204338625 204338514 3.790000e-43 185.0
71 TraesCS4D01G206800 chr1D 95.575 113 5 0 1278 1390 181394028 181394140 4.910000e-42 182.0
72 TraesCS4D01G206800 chr1D 95.536 112 5 0 1279 1390 221204751 221204640 1.770000e-41 180.0
73 TraesCS4D01G206800 chr1D 95.536 112 5 0 1279 1390 370837817 370837706 1.770000e-41 180.0
74 TraesCS4D01G206800 chr1D 94.643 112 6 0 1279 1390 34025682 34025793 8.210000e-40 174.0
75 TraesCS4D01G206800 chr1D 100.000 74 0 0 1 74 402160469 402160542 1.080000e-28 137.0
76 TraesCS4D01G206800 chr1D 96.341 82 2 1 1 81 245838883 245838964 1.390000e-27 134.0
77 TraesCS4D01G206800 chr1D 96.296 81 2 1 1 80 219054319 219054239 5.010000e-27 132.0
78 TraesCS4D01G206800 chr1D 81.325 166 26 5 1390 1553 249670135 249669973 1.800000e-26 130.0
79 TraesCS4D01G206800 chr1D 76.096 251 48 11 1391 1635 286782837 286782593 1.090000e-23 121.0
80 TraesCS4D01G206800 chr1D 75.794 252 49 11 1390 1635 286773970 286773725 1.400000e-22 117.0
81 TraesCS4D01G206800 chr1D 91.358 81 4 3 1387 1466 438944669 438944747 8.450000e-20 108.0
82 TraesCS4D01G206800 chr1D 83.486 109 14 4 1391 1498 261120547 261120442 5.080000e-17 99.0
83 TraesCS4D01G206800 chr1D 89.744 78 6 2 1390 1466 438963360 438963436 5.080000e-17 99.0
84 TraesCS4D01G206800 chr1D 87.838 74 9 0 1390 1463 200433560 200433633 1.100000e-13 87.9
85 TraesCS4D01G206800 chr1D 83.696 92 11 4 1391 1480 347483079 347482990 1.420000e-12 84.2
86 TraesCS4D01G206800 chr1D 73.191 235 47 16 1411 1639 128331183 128331407 1.110000e-08 71.3
87 TraesCS4D01G206800 chr6D 90.041 241 20 3 1995 2232 272671437 272671676 2.160000e-80 309.0
88 TraesCS4D01G206800 chr6D 97.531 81 1 1 1 80 192455845 192455765 1.080000e-28 137.0
89 TraesCS4D01G206800 chr6D 88.119 101 11 1 72 172 234765961 234766060 3.900000e-23 119.0
90 TraesCS4D01G206800 chr5A 88.889 243 18 3 1726 1960 232492364 232492123 7.820000e-75 291.0
91 TraesCS4D01G206800 chr5A 88.066 243 20 3 1726 1960 232546239 232545998 1.690000e-71 279.0
92 TraesCS4D01G206800 chr5A 96.429 112 4 0 1279 1390 384220305 384220416 3.790000e-43 185.0
93 TraesCS4D01G206800 chr5B 97.273 110 3 0 1281 1390 245446516 245446407 1.050000e-43 187.0
94 TraesCS4D01G206800 chr2B 91.089 101 8 1 72 172 94745312 94745213 3.880000e-28 135.0
95 TraesCS4D01G206800 chr3B 90.099 101 8 2 72 172 148829726 148829628 1.800000e-26 130.0
96 TraesCS4D01G206800 chr3B 90.099 101 9 1 72 172 434379513 434379612 1.800000e-26 130.0
97 TraesCS4D01G206800 chr3B 89.109 101 10 1 72 172 519457619 519457718 8.390000e-25 124.0
98 TraesCS4D01G206800 chr1A 89.109 101 9 2 72 172 374815894 374815992 8.390000e-25 124.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G206800 chr4D 354586256 354588492 2236 False 4132 4132 100.0000 1 2237 1 chr4D.!!$F10 2236
1 TraesCS4D01G206800 chr4D 354594791 354595642 851 False 1273 1273 93.7940 1390 2234 1 chr4D.!!$F11 844
2 TraesCS4D01G206800 chr4D 305534527 305535369 842 True 1083 1083 89.9290 171 1009 1 chr4D.!!$R1 838
3 TraesCS4D01G206800 chr7D 146455586 146456432 846 True 1116 1116 90.5550 168 1009 1 chr7D.!!$R1 841
4 TraesCS4D01G206800 chr7D 318804344 318805189 845 True 1112 1112 90.5440 171 1009 1 chr7D.!!$R3 838
5 TraesCS4D01G206800 chr7D 197350812 197351658 846 False 1099 1099 90.2120 169 1009 1 chr7D.!!$F2 840
6 TraesCS4D01G206800 chr7D 231582553 231584903 2350 True 497 497 99.6320 1009 1280 2 chr7D.!!$R6 271
7 TraesCS4D01G206800 chr7D 258209340 258210173 833 True 298 422 93.5375 1390 1960 2 chr7D.!!$R7 570
8 TraesCS4D01G206800 chr6A 472593104 472593945 841 True 1079 1079 89.9170 174 1009 1 chr6A.!!$R1 835
9 TraesCS4D01G206800 chr4B 502399555 502400398 843 True 1072 1072 89.6920 171 1009 1 chr4B.!!$R1 838
10 TraesCS4D01G206800 chr4B 151525959 151527144 1185 False 497 497 99.6320 1009 1280 2 chr4B.!!$F1 271
11 TraesCS4D01G206800 chr7B 161664875 161665719 844 False 1070 1070 89.6100 169 1009 1 chr7B.!!$F1 840
12 TraesCS4D01G206800 chr7B 418218535 418219373 838 False 1057 1057 89.4550 171 1009 1 chr7B.!!$F2 838
13 TraesCS4D01G206800 chr4A 176752725 176753565 840 True 1061 1061 89.5360 174 1009 1 chr4A.!!$R1 835

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
76 77 0.107081 TCGTTTCCCACCGACATGTT 59.893 50.0 0.0 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1381 1393 0.236449 CGGGCGTTACAACCTTGTTC 59.764 55.0 0.0 0.0 42.35 3.18 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
31 32 4.060038 CGCCCCGACAACCGTAGT 62.060 66.667 0.00 0.00 36.31 2.73
32 33 2.699768 CGCCCCGACAACCGTAGTA 61.700 63.158 0.00 0.00 36.31 1.82
33 34 1.140375 GCCCCGACAACCGTAGTAG 59.860 63.158 0.00 0.00 36.31 2.57
34 35 1.811860 CCCCGACAACCGTAGTAGG 59.188 63.158 0.00 0.00 36.31 3.18
35 36 1.811860 CCCGACAACCGTAGTAGGG 59.188 63.158 7.36 7.36 43.88 3.53
36 37 2.872408 CCGACAACCGTAGTAGGGA 58.128 57.895 15.76 0.00 36.31 4.20
37 38 1.396653 CCGACAACCGTAGTAGGGAT 58.603 55.000 15.76 0.46 36.31 3.85
38 39 1.753073 CCGACAACCGTAGTAGGGATT 59.247 52.381 15.76 3.80 36.31 3.01
39 40 2.223665 CCGACAACCGTAGTAGGGATTC 60.224 54.545 15.76 7.32 36.31 2.52
40 41 2.686915 CGACAACCGTAGTAGGGATTCT 59.313 50.000 15.76 0.00 35.02 2.40
41 42 3.129988 CGACAACCGTAGTAGGGATTCTT 59.870 47.826 15.76 0.00 35.02 2.52
42 43 4.430908 GACAACCGTAGTAGGGATTCTTG 58.569 47.826 15.76 11.19 35.02 3.02
43 44 3.836562 ACAACCGTAGTAGGGATTCTTGT 59.163 43.478 15.76 11.77 35.02 3.16
44 45 4.181578 CAACCGTAGTAGGGATTCTTGTG 58.818 47.826 15.76 0.00 35.02 3.33
45 46 3.705051 ACCGTAGTAGGGATTCTTGTGA 58.295 45.455 15.76 0.00 35.02 3.58
46 47 4.287552 ACCGTAGTAGGGATTCTTGTGAT 58.712 43.478 15.76 0.00 35.02 3.06
47 48 4.341520 ACCGTAGTAGGGATTCTTGTGATC 59.658 45.833 15.76 0.00 35.02 2.92
48 49 4.262079 CCGTAGTAGGGATTCTTGTGATCC 60.262 50.000 2.51 0.00 0.00 3.36
55 56 4.713792 GGATTCTTGTGATCCCATAGGT 57.286 45.455 0.00 0.00 0.00 3.08
56 57 4.392940 GGATTCTTGTGATCCCATAGGTG 58.607 47.826 0.00 0.00 0.00 4.00
57 58 4.141390 GGATTCTTGTGATCCCATAGGTGT 60.141 45.833 0.00 0.00 0.00 4.16
58 59 4.487714 TTCTTGTGATCCCATAGGTGTC 57.512 45.455 0.00 0.00 0.00 3.67
59 60 2.430694 TCTTGTGATCCCATAGGTGTCG 59.569 50.000 0.00 0.00 0.00 4.35
60 61 1.860641 TGTGATCCCATAGGTGTCGT 58.139 50.000 0.00 0.00 0.00 4.34
61 62 2.184533 TGTGATCCCATAGGTGTCGTT 58.815 47.619 0.00 0.00 0.00 3.85
62 63 2.569853 TGTGATCCCATAGGTGTCGTTT 59.430 45.455 0.00 0.00 0.00 3.60
63 64 3.195661 GTGATCCCATAGGTGTCGTTTC 58.804 50.000 0.00 0.00 0.00 2.78
64 65 2.169769 TGATCCCATAGGTGTCGTTTCC 59.830 50.000 0.00 0.00 0.00 3.13
65 66 0.906775 TCCCATAGGTGTCGTTTCCC 59.093 55.000 0.00 0.00 0.00 3.97
66 67 0.616371 CCCATAGGTGTCGTTTCCCA 59.384 55.000 0.00 0.00 0.00 4.37
67 68 1.677820 CCCATAGGTGTCGTTTCCCAC 60.678 57.143 0.00 0.00 0.00 4.61
70 71 2.422591 GGTGTCGTTTCCCACCGA 59.577 61.111 0.00 0.00 41.55 4.69
74 75 4.685447 TCGTTTCCCACCGACATG 57.315 55.556 0.00 0.00 0.00 3.21
75 76 1.749665 TCGTTTCCCACCGACATGT 59.250 52.632 0.00 0.00 0.00 3.21
76 77 0.107081 TCGTTTCCCACCGACATGTT 59.893 50.000 0.00 0.00 0.00 2.71
77 78 0.237235 CGTTTCCCACCGACATGTTG 59.763 55.000 6.06 6.06 0.00 3.33
78 79 0.596082 GTTTCCCACCGACATGTTGG 59.404 55.000 27.84 27.84 40.09 3.77
79 80 1.175983 TTTCCCACCGACATGTTGGC 61.176 55.000 29.12 2.33 37.67 4.52
80 81 2.282110 CCCACCGACATGTTGGCA 60.282 61.111 29.12 0.00 37.67 4.92
81 82 1.678635 CCCACCGACATGTTGGCAT 60.679 57.895 29.12 10.57 37.67 4.40
82 83 1.656818 CCCACCGACATGTTGGCATC 61.657 60.000 29.12 0.77 37.67 3.91
83 84 0.677731 CCACCGACATGTTGGCATCT 60.678 55.000 29.12 9.46 37.67 2.90
84 85 1.167851 CACCGACATGTTGGCATCTT 58.832 50.000 29.12 9.08 37.67 2.40
85 86 1.135603 CACCGACATGTTGGCATCTTG 60.136 52.381 29.12 16.87 37.67 3.02
86 87 0.452987 CCGACATGTTGGCATCTTGG 59.547 55.000 19.38 0.00 31.99 3.61
87 88 0.179156 CGACATGTTGGCATCTTGGC 60.179 55.000 5.04 10.69 44.03 4.52
102 103 3.431922 CTTGGCCACAAGCATATCAAG 57.568 47.619 3.88 0.00 46.67 3.02
103 104 1.105457 TGGCCACAAGCATATCAAGC 58.895 50.000 0.00 0.00 46.50 4.01
104 105 1.105457 GGCCACAAGCATATCAAGCA 58.895 50.000 0.00 0.00 46.50 3.91
105 106 1.684983 GGCCACAAGCATATCAAGCAT 59.315 47.619 0.00 0.00 46.50 3.79
106 107 2.288030 GGCCACAAGCATATCAAGCATC 60.288 50.000 0.00 0.00 46.50 3.91
107 108 2.359848 GCCACAAGCATATCAAGCATCA 59.640 45.455 0.00 0.00 42.97 3.07
108 109 3.005472 GCCACAAGCATATCAAGCATCAT 59.995 43.478 0.00 0.00 42.97 2.45
109 110 4.500887 GCCACAAGCATATCAAGCATCATT 60.501 41.667 0.00 0.00 42.97 2.57
110 111 5.597806 CCACAAGCATATCAAGCATCATTT 58.402 37.500 0.00 0.00 0.00 2.32
111 112 6.046593 CCACAAGCATATCAAGCATCATTTT 58.953 36.000 0.00 0.00 0.00 1.82
112 113 6.200286 CCACAAGCATATCAAGCATCATTTTC 59.800 38.462 0.00 0.00 0.00 2.29
113 114 6.754675 CACAAGCATATCAAGCATCATTTTCA 59.245 34.615 0.00 0.00 0.00 2.69
114 115 7.438160 CACAAGCATATCAAGCATCATTTTCAT 59.562 33.333 0.00 0.00 0.00 2.57
115 116 7.652105 ACAAGCATATCAAGCATCATTTTCATC 59.348 33.333 0.00 0.00 0.00 2.92
116 117 7.284919 AGCATATCAAGCATCATTTTCATCA 57.715 32.000 0.00 0.00 0.00 3.07
117 118 7.722363 AGCATATCAAGCATCATTTTCATCAA 58.278 30.769 0.00 0.00 0.00 2.57
118 119 8.201464 AGCATATCAAGCATCATTTTCATCAAA 58.799 29.630 0.00 0.00 0.00 2.69
119 120 8.822855 GCATATCAAGCATCATTTTCATCAAAA 58.177 29.630 0.00 0.00 35.92 2.44
122 123 7.661127 TCAAGCATCATTTTCATCAAAAAGG 57.339 32.000 0.00 0.00 40.09 3.11
123 124 6.651643 TCAAGCATCATTTTCATCAAAAAGGG 59.348 34.615 0.00 0.00 40.09 3.95
124 125 6.363167 AGCATCATTTTCATCAAAAAGGGA 57.637 33.333 0.00 0.00 40.09 4.20
125 126 6.954232 AGCATCATTTTCATCAAAAAGGGAT 58.046 32.000 0.00 0.00 40.09 3.85
126 127 8.081517 AGCATCATTTTCATCAAAAAGGGATA 57.918 30.769 0.00 0.00 40.09 2.59
127 128 8.542080 AGCATCATTTTCATCAAAAAGGGATAA 58.458 29.630 0.00 0.00 40.09 1.75
128 129 9.333724 GCATCATTTTCATCAAAAAGGGATAAT 57.666 29.630 0.00 0.00 40.09 1.28
144 145 9.816354 AAAGGGATAATTTCAAATTAATCACCG 57.184 29.630 6.67 0.00 0.00 4.94
145 146 7.951591 AGGGATAATTTCAAATTAATCACCGG 58.048 34.615 6.67 0.00 0.00 5.28
146 147 7.015195 AGGGATAATTTCAAATTAATCACCGGG 59.985 37.037 6.32 0.00 0.00 5.73
147 148 7.014808 GGGATAATTTCAAATTAATCACCGGGA 59.985 37.037 6.32 0.00 0.00 5.14
148 149 8.585018 GGATAATTTCAAATTAATCACCGGGAT 58.415 33.333 6.32 2.55 38.05 3.85
149 150 9.626045 GATAATTTCAAATTAATCACCGGGATC 57.374 33.333 6.32 0.00 34.28 3.36
150 151 5.845391 TTTCAAATTAATCACCGGGATCC 57.155 39.130 6.32 1.92 34.28 3.36
151 152 4.788925 TCAAATTAATCACCGGGATCCT 57.211 40.909 12.58 0.00 34.28 3.24
152 153 5.897851 TCAAATTAATCACCGGGATCCTA 57.102 39.130 12.58 0.00 34.28 2.94
153 154 5.865085 TCAAATTAATCACCGGGATCCTAG 58.135 41.667 12.58 5.84 34.28 3.02
154 155 3.983044 ATTAATCACCGGGATCCTAGC 57.017 47.619 12.58 0.00 34.28 3.42
155 156 2.391926 TAATCACCGGGATCCTAGCA 57.608 50.000 12.58 0.00 34.28 3.49
156 157 1.507140 AATCACCGGGATCCTAGCAA 58.493 50.000 12.58 0.00 34.28 3.91
157 158 1.734655 ATCACCGGGATCCTAGCAAT 58.265 50.000 12.58 0.00 0.00 3.56
158 159 1.507140 TCACCGGGATCCTAGCAATT 58.493 50.000 12.58 0.00 0.00 2.32
159 160 2.684943 TCACCGGGATCCTAGCAATTA 58.315 47.619 12.58 0.00 0.00 1.40
160 161 3.248024 TCACCGGGATCCTAGCAATTAT 58.752 45.455 12.58 0.00 0.00 1.28
161 162 3.260884 TCACCGGGATCCTAGCAATTATC 59.739 47.826 12.58 0.00 0.00 1.75
162 163 3.261897 CACCGGGATCCTAGCAATTATCT 59.738 47.826 12.58 0.00 0.00 1.98
163 164 3.910627 ACCGGGATCCTAGCAATTATCTT 59.089 43.478 12.58 0.00 0.00 2.40
164 165 5.046591 CACCGGGATCCTAGCAATTATCTTA 60.047 44.000 12.58 0.00 0.00 2.10
165 166 5.187967 ACCGGGATCCTAGCAATTATCTTAG 59.812 44.000 12.58 0.00 0.00 2.18
166 167 5.112686 CGGGATCCTAGCAATTATCTTAGC 58.887 45.833 12.58 0.00 0.00 3.09
218 219 1.687660 GGTTTTTAACCCCTTTCCGCA 59.312 47.619 0.00 0.00 46.12 5.69
253 256 3.716006 CGCCAAGTGAGTGTGCGG 61.716 66.667 0.00 0.00 41.42 5.69
278 282 2.214920 GGTCCTTCCCACACGACCT 61.215 63.158 0.00 0.00 41.36 3.85
300 305 1.690352 GAAATCGTCGGGGATAGGGAA 59.310 52.381 0.00 0.00 0.00 3.97
320 325 4.218417 GGAACCTTGATGCATACAGTTGTT 59.782 41.667 0.00 0.00 0.00 2.83
368 373 0.693622 TACCCCAAACGCTTCATCCA 59.306 50.000 0.00 0.00 0.00 3.41
386 391 1.269206 CCATGCAACTCGTTTGTGCTT 60.269 47.619 0.00 0.00 37.54 3.91
392 397 2.405892 ACTCGTTTGTGCTTGCATTC 57.594 45.000 0.00 0.00 0.00 2.67
396 401 1.501169 GTTTGTGCTTGCATTCCCAC 58.499 50.000 0.00 0.00 0.00 4.61
456 464 3.120199 CCCATCACAAACAGTTCACGATC 60.120 47.826 0.00 0.00 0.00 3.69
665 673 2.546368 TGCGTACCACATCAGAAACAAC 59.454 45.455 0.00 0.00 0.00 3.32
815 826 1.200252 CTCTCTGTGAACCGTGTCGAT 59.800 52.381 0.00 0.00 0.00 3.59
873 885 3.177249 GTGCGCCGTAACGACCTC 61.177 66.667 4.18 0.00 34.06 3.85
893 905 3.941483 CTCCAGAGCGTAATTTCACCATT 59.059 43.478 0.00 0.00 0.00 3.16
944 956 5.536916 ACCGGGTTTGAATTTGAAAGTATGA 59.463 36.000 6.32 0.00 0.00 2.15
984 996 5.389520 TCCATCAGGTTCAAACAACCAATA 58.610 37.500 6.30 0.00 42.69 1.90
1036 1048 7.123383 AGAAAAAGAAGAAAACAGGGGTTCTA 58.877 34.615 0.00 0.00 35.82 2.10
1298 1310 8.850454 TTTTAGTTCAAGAATTACACAAGCAC 57.150 30.769 0.00 0.00 0.00 4.40
1299 1311 5.438761 AGTTCAAGAATTACACAAGCACC 57.561 39.130 0.00 0.00 0.00 5.01
1300 1312 4.887071 AGTTCAAGAATTACACAAGCACCA 59.113 37.500 0.00 0.00 0.00 4.17
1301 1313 5.359576 AGTTCAAGAATTACACAAGCACCAA 59.640 36.000 0.00 0.00 0.00 3.67
1302 1314 5.843673 TCAAGAATTACACAAGCACCAAA 57.156 34.783 0.00 0.00 0.00 3.28
1304 1316 7.517614 TCAAGAATTACACAAGCACCAAATA 57.482 32.000 0.00 0.00 0.00 1.40
1305 1317 7.946207 TCAAGAATTACACAAGCACCAAATAA 58.054 30.769 0.00 0.00 0.00 1.40
1307 1319 8.702438 CAAGAATTACACAAGCACCAAATAAAG 58.298 33.333 0.00 0.00 0.00 1.85
1308 1320 8.177119 AGAATTACACAAGCACCAAATAAAGA 57.823 30.769 0.00 0.00 0.00 2.52
1309 1321 8.637986 AGAATTACACAAGCACCAAATAAAGAA 58.362 29.630 0.00 0.00 0.00 2.52
1316 1328 7.599621 CACAAGCACCAAATAAAGAATGATGAA 59.400 33.333 0.00 0.00 0.00 2.57
1319 1331 6.211184 AGCACCAAATAAAGAATGATGAACCA 59.789 34.615 0.00 0.00 0.00 3.67
1321 1333 7.377398 CACCAAATAAAGAATGATGAACCACA 58.623 34.615 0.00 0.00 0.00 4.17
1322 1334 7.543172 CACCAAATAAAGAATGATGAACCACAG 59.457 37.037 0.00 0.00 0.00 3.66
1325 1337 8.918658 CAAATAAAGAATGATGAACCACAGTTG 58.081 33.333 0.00 0.00 35.94 3.16
1326 1338 7.765695 ATAAAGAATGATGAACCACAGTTGT 57.234 32.000 0.00 0.00 35.94 3.32
1328 1340 7.765695 AAAGAATGATGAACCACAGTTGTAT 57.234 32.000 0.00 0.00 35.94 2.29
1329 1341 8.862325 AAAGAATGATGAACCACAGTTGTATA 57.138 30.769 0.00 0.00 35.94 1.47
1330 1342 7.849804 AGAATGATGAACCACAGTTGTATAC 57.150 36.000 0.00 0.00 35.94 1.47
1331 1343 7.624549 AGAATGATGAACCACAGTTGTATACT 58.375 34.615 4.17 0.00 35.94 2.12
1333 1345 7.615582 ATGATGAACCACAGTTGTATACTTG 57.384 36.000 4.17 3.13 35.94 3.16
1334 1346 6.530120 TGATGAACCACAGTTGTATACTTGT 58.470 36.000 4.17 3.73 35.94 3.16
1336 1348 7.601130 TGATGAACCACAGTTGTATACTTGTAC 59.399 37.037 4.17 0.00 35.94 2.90
1337 1349 7.058023 TGAACCACAGTTGTATACTTGTACT 57.942 36.000 4.17 0.26 35.94 2.73
1338 1350 8.180706 TGAACCACAGTTGTATACTTGTACTA 57.819 34.615 4.17 0.00 35.94 1.82
1339 1351 8.809066 TGAACCACAGTTGTATACTTGTACTAT 58.191 33.333 4.17 0.00 35.94 2.12
1340 1352 9.649167 GAACCACAGTTGTATACTTGTACTATT 57.351 33.333 4.17 0.51 35.94 1.73
1381 1393 5.375417 TGTGAAATACATTCTGGTTGCTG 57.625 39.130 0.00 0.00 38.92 4.41
1383 1395 5.534278 TGTGAAATACATTCTGGTTGCTGAA 59.466 36.000 0.00 0.00 38.92 3.02
1384 1396 5.858581 GTGAAATACATTCTGGTTGCTGAAC 59.141 40.000 0.00 0.00 38.92 3.18
1386 1398 6.040278 TGAAATACATTCTGGTTGCTGAACAA 59.960 34.615 0.00 0.00 38.92 2.83
1387 1399 3.996150 ACATTCTGGTTGCTGAACAAG 57.004 42.857 0.00 0.00 39.50 3.16
1388 1400 2.624838 ACATTCTGGTTGCTGAACAAGG 59.375 45.455 0.00 0.00 39.50 3.61
1435 1601 6.992715 GCTACAGTAATCTCATGGTAATGGTT 59.007 38.462 0.00 0.00 34.30 3.67
1700 2675 1.274703 ACTACCCCTGTGCCCATCTG 61.275 60.000 0.00 0.00 0.00 2.90
2003 3738 4.471726 GGACATCGTCGCCGTCGT 62.472 66.667 3.41 0.00 36.96 4.34
2025 3760 4.189188 CGTCACCCCGCTACTCCG 62.189 72.222 0.00 0.00 0.00 4.63
2026 3761 2.753043 GTCACCCCGCTACTCCGA 60.753 66.667 0.00 0.00 0.00 4.55
2082 3817 1.689582 GGTGATCCCCCTTCGTCCT 60.690 63.158 0.00 0.00 0.00 3.85
2086 3821 1.854939 TGATCCCCCTTCGTCCTACTA 59.145 52.381 0.00 0.00 0.00 1.82
2094 3829 2.574450 CTTCGTCCTACTACCCTCCTC 58.426 57.143 0.00 0.00 0.00 3.71
2142 3877 4.406173 CACGTCCTCGCGCTCACT 62.406 66.667 5.56 0.00 41.18 3.41
2153 3888 3.112709 GCTCACTGCGGTCGTTCC 61.113 66.667 0.00 0.00 0.00 3.62
2213 3949 3.399181 CACCCTTGCCTCGCCCTA 61.399 66.667 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 2.603135 CTACTACGGTTGTCGGGGCG 62.603 65.000 0.00 0.00 44.45 6.13
15 16 1.140375 CTACTACGGTTGTCGGGGC 59.860 63.158 0.00 0.00 44.45 5.80
16 17 1.669999 CCCTACTACGGTTGTCGGGG 61.670 65.000 19.83 17.26 44.45 5.73
17 18 0.680921 TCCCTACTACGGTTGTCGGG 60.681 60.000 21.01 21.01 44.45 5.14
18 19 1.396653 ATCCCTACTACGGTTGTCGG 58.603 55.000 6.35 6.35 44.45 4.79
19 20 2.686915 AGAATCCCTACTACGGTTGTCG 59.313 50.000 0.00 0.00 45.88 4.35
20 21 4.081807 ACAAGAATCCCTACTACGGTTGTC 60.082 45.833 0.00 0.00 0.00 3.18
21 22 3.836562 ACAAGAATCCCTACTACGGTTGT 59.163 43.478 0.23 0.23 0.00 3.32
22 23 4.081862 TCACAAGAATCCCTACTACGGTTG 60.082 45.833 0.00 0.00 0.00 3.77
23 24 4.091549 TCACAAGAATCCCTACTACGGTT 58.908 43.478 0.00 0.00 0.00 4.44
24 25 3.705051 TCACAAGAATCCCTACTACGGT 58.295 45.455 0.00 0.00 0.00 4.83
25 26 4.262079 GGATCACAAGAATCCCTACTACGG 60.262 50.000 0.00 0.00 0.00 4.02
26 27 4.872664 GGATCACAAGAATCCCTACTACG 58.127 47.826 0.00 0.00 0.00 3.51
34 35 4.141390 ACACCTATGGGATCACAAGAATCC 60.141 45.833 0.00 0.00 36.25 3.01
35 36 5.041191 ACACCTATGGGATCACAAGAATC 57.959 43.478 0.00 0.00 36.25 2.52
36 37 4.443457 CGACACCTATGGGATCACAAGAAT 60.443 45.833 0.00 0.00 36.25 2.40
37 38 3.118775 CGACACCTATGGGATCACAAGAA 60.119 47.826 0.00 0.00 36.25 2.52
38 39 2.430694 CGACACCTATGGGATCACAAGA 59.569 50.000 0.00 0.00 36.25 3.02
39 40 2.168521 ACGACACCTATGGGATCACAAG 59.831 50.000 0.00 0.73 36.25 3.16
40 41 2.184533 ACGACACCTATGGGATCACAA 58.815 47.619 0.00 0.00 36.25 3.33
41 42 1.860641 ACGACACCTATGGGATCACA 58.139 50.000 0.00 0.00 36.25 3.58
42 43 2.981859 AACGACACCTATGGGATCAC 57.018 50.000 0.25 0.00 36.25 3.06
43 44 2.169769 GGAAACGACACCTATGGGATCA 59.830 50.000 0.25 0.00 36.25 2.92
44 45 2.484947 GGGAAACGACACCTATGGGATC 60.485 54.545 0.25 0.00 36.25 3.36
45 46 1.489230 GGGAAACGACACCTATGGGAT 59.511 52.381 0.25 0.00 36.25 3.85
46 47 0.906775 GGGAAACGACACCTATGGGA 59.093 55.000 0.25 0.00 36.25 4.37
47 48 0.616371 TGGGAAACGACACCTATGGG 59.384 55.000 0.00 0.00 38.88 4.00
48 49 1.734163 GTGGGAAACGACACCTATGG 58.266 55.000 0.00 0.00 39.14 2.74
57 58 0.107081 AACATGTCGGTGGGAAACGA 59.893 50.000 0.00 0.00 36.68 3.85
58 59 0.237235 CAACATGTCGGTGGGAAACG 59.763 55.000 0.00 0.00 0.00 3.60
59 60 0.596082 CCAACATGTCGGTGGGAAAC 59.404 55.000 7.10 0.00 33.31 2.78
60 61 1.175983 GCCAACATGTCGGTGGGAAA 61.176 55.000 15.28 0.00 33.31 3.13
61 62 1.602323 GCCAACATGTCGGTGGGAA 60.602 57.895 15.28 0.00 33.31 3.97
62 63 2.033448 GCCAACATGTCGGTGGGA 59.967 61.111 15.28 0.00 33.31 4.37
63 64 1.656818 GATGCCAACATGTCGGTGGG 61.657 60.000 15.28 6.63 36.35 4.61
64 65 0.677731 AGATGCCAACATGTCGGTGG 60.678 55.000 4.39 7.69 36.35 4.61
65 66 1.135603 CAAGATGCCAACATGTCGGTG 60.136 52.381 4.39 0.00 36.35 4.94
66 67 1.167851 CAAGATGCCAACATGTCGGT 58.832 50.000 4.39 0.00 36.35 4.69
67 68 0.452987 CCAAGATGCCAACATGTCGG 59.547 55.000 0.00 0.00 36.35 4.79
68 69 0.179156 GCCAAGATGCCAACATGTCG 60.179 55.000 0.00 0.00 36.35 4.35
69 70 3.727419 GCCAAGATGCCAACATGTC 57.273 52.632 0.00 0.00 36.35 3.06
83 84 1.477700 GCTTGATATGCTTGTGGCCAA 59.522 47.619 7.24 0.00 40.92 4.52
84 85 1.105457 GCTTGATATGCTTGTGGCCA 58.895 50.000 0.00 0.00 40.92 5.36
85 86 1.105457 TGCTTGATATGCTTGTGGCC 58.895 50.000 0.00 0.00 40.92 5.36
86 87 2.359848 TGATGCTTGATATGCTTGTGGC 59.640 45.455 0.00 0.00 42.22 5.01
87 88 4.848562 ATGATGCTTGATATGCTTGTGG 57.151 40.909 0.00 0.00 0.00 4.17
88 89 6.754675 TGAAAATGATGCTTGATATGCTTGTG 59.245 34.615 0.00 0.00 0.00 3.33
89 90 6.869695 TGAAAATGATGCTTGATATGCTTGT 58.130 32.000 0.00 0.00 0.00 3.16
90 91 7.651704 TGATGAAAATGATGCTTGATATGCTTG 59.348 33.333 0.00 0.00 0.00 4.01
91 92 7.722363 TGATGAAAATGATGCTTGATATGCTT 58.278 30.769 0.00 0.00 0.00 3.91
92 93 7.284919 TGATGAAAATGATGCTTGATATGCT 57.715 32.000 0.00 0.00 0.00 3.79
93 94 7.940178 TTGATGAAAATGATGCTTGATATGC 57.060 32.000 0.00 0.00 0.00 3.14
96 97 9.373603 CCTTTTTGATGAAAATGATGCTTGATA 57.626 29.630 5.09 0.00 36.68 2.15
97 98 7.335924 CCCTTTTTGATGAAAATGATGCTTGAT 59.664 33.333 5.09 0.00 36.68 2.57
98 99 6.651643 CCCTTTTTGATGAAAATGATGCTTGA 59.348 34.615 5.09 0.00 36.68 3.02
99 100 6.651643 TCCCTTTTTGATGAAAATGATGCTTG 59.348 34.615 5.09 0.00 36.68 4.01
100 101 6.771573 TCCCTTTTTGATGAAAATGATGCTT 58.228 32.000 5.09 0.00 36.68 3.91
101 102 6.363167 TCCCTTTTTGATGAAAATGATGCT 57.637 33.333 5.09 0.00 36.68 3.79
102 103 8.721019 TTATCCCTTTTTGATGAAAATGATGC 57.279 30.769 5.09 0.00 36.68 3.91
118 119 9.816354 CGGTGATTAATTTGAAATTATCCCTTT 57.184 29.630 10.81 0.00 0.00 3.11
119 120 8.421002 CCGGTGATTAATTTGAAATTATCCCTT 58.579 33.333 10.81 0.00 0.00 3.95
120 121 7.015195 CCCGGTGATTAATTTGAAATTATCCCT 59.985 37.037 10.81 0.00 0.00 4.20
121 122 7.014808 TCCCGGTGATTAATTTGAAATTATCCC 59.985 37.037 10.81 11.42 0.00 3.85
122 123 7.947282 TCCCGGTGATTAATTTGAAATTATCC 58.053 34.615 10.81 10.00 0.00 2.59
123 124 9.626045 GATCCCGGTGATTAATTTGAAATTATC 57.374 33.333 10.81 10.60 32.41 1.75
124 125 8.585018 GGATCCCGGTGATTAATTTGAAATTAT 58.415 33.333 10.81 2.61 32.41 1.28
125 126 7.782644 AGGATCCCGGTGATTAATTTGAAATTA 59.217 33.333 8.55 6.28 32.41 1.40
126 127 6.611236 AGGATCCCGGTGATTAATTTGAAATT 59.389 34.615 8.55 8.35 32.41 1.82
127 128 6.136155 AGGATCCCGGTGATTAATTTGAAAT 58.864 36.000 8.55 0.00 32.41 2.17
128 129 5.515106 AGGATCCCGGTGATTAATTTGAAA 58.485 37.500 8.55 0.00 32.41 2.69
129 130 5.124036 AGGATCCCGGTGATTAATTTGAA 57.876 39.130 8.55 0.00 32.41 2.69
130 131 4.788925 AGGATCCCGGTGATTAATTTGA 57.211 40.909 8.55 0.00 32.41 2.69
131 132 4.455877 GCTAGGATCCCGGTGATTAATTTG 59.544 45.833 8.55 0.00 32.41 2.32
132 133 4.104102 TGCTAGGATCCCGGTGATTAATTT 59.896 41.667 8.55 0.00 32.41 1.82
133 134 3.650942 TGCTAGGATCCCGGTGATTAATT 59.349 43.478 8.55 0.00 32.41 1.40
134 135 3.248024 TGCTAGGATCCCGGTGATTAAT 58.752 45.455 8.55 0.00 32.41 1.40
135 136 2.684943 TGCTAGGATCCCGGTGATTAA 58.315 47.619 8.55 0.00 32.41 1.40
136 137 2.391926 TGCTAGGATCCCGGTGATTA 57.608 50.000 8.55 0.00 32.41 1.75
137 138 1.507140 TTGCTAGGATCCCGGTGATT 58.493 50.000 8.55 0.00 32.41 2.57
138 139 1.734655 ATTGCTAGGATCCCGGTGAT 58.265 50.000 8.55 2.44 36.01 3.06
139 140 1.507140 AATTGCTAGGATCCCGGTGA 58.493 50.000 8.55 0.00 0.00 4.02
140 141 3.261897 AGATAATTGCTAGGATCCCGGTG 59.738 47.826 8.55 0.00 0.00 4.94
141 142 3.521727 AGATAATTGCTAGGATCCCGGT 58.478 45.455 8.55 0.00 0.00 5.28
142 143 4.559862 AAGATAATTGCTAGGATCCCGG 57.440 45.455 8.55 2.34 0.00 5.73
143 144 5.112686 GCTAAGATAATTGCTAGGATCCCG 58.887 45.833 8.55 0.53 0.00 5.14
144 145 6.054860 TGCTAAGATAATTGCTAGGATCCC 57.945 41.667 8.55 0.00 0.00 3.85
145 146 7.826252 TGAATGCTAAGATAATTGCTAGGATCC 59.174 37.037 2.48 2.48 0.00 3.36
146 147 8.663911 GTGAATGCTAAGATAATTGCTAGGATC 58.336 37.037 0.00 0.00 0.00 3.36
147 148 8.381636 AGTGAATGCTAAGATAATTGCTAGGAT 58.618 33.333 0.00 0.00 0.00 3.24
148 149 7.658982 CAGTGAATGCTAAGATAATTGCTAGGA 59.341 37.037 0.00 0.00 0.00 2.94
149 150 7.094890 CCAGTGAATGCTAAGATAATTGCTAGG 60.095 40.741 0.00 0.00 0.00 3.02
150 151 7.443575 ACCAGTGAATGCTAAGATAATTGCTAG 59.556 37.037 0.00 0.00 0.00 3.42
151 152 7.282585 ACCAGTGAATGCTAAGATAATTGCTA 58.717 34.615 0.00 0.00 0.00 3.49
152 153 6.125029 ACCAGTGAATGCTAAGATAATTGCT 58.875 36.000 0.00 0.00 0.00 3.91
153 154 6.382869 ACCAGTGAATGCTAAGATAATTGC 57.617 37.500 0.00 0.00 0.00 3.56
154 155 8.437360 TGTACCAGTGAATGCTAAGATAATTG 57.563 34.615 0.00 0.00 0.00 2.32
155 156 8.893727 GTTGTACCAGTGAATGCTAAGATAATT 58.106 33.333 0.00 0.00 0.00 1.40
156 157 7.224753 CGTTGTACCAGTGAATGCTAAGATAAT 59.775 37.037 0.00 0.00 0.00 1.28
157 158 6.533723 CGTTGTACCAGTGAATGCTAAGATAA 59.466 38.462 0.00 0.00 0.00 1.75
158 159 6.040247 CGTTGTACCAGTGAATGCTAAGATA 58.960 40.000 0.00 0.00 0.00 1.98
159 160 4.870426 CGTTGTACCAGTGAATGCTAAGAT 59.130 41.667 0.00 0.00 0.00 2.40
160 161 4.021807 TCGTTGTACCAGTGAATGCTAAGA 60.022 41.667 0.00 0.00 0.00 2.10
161 162 4.242475 TCGTTGTACCAGTGAATGCTAAG 58.758 43.478 0.00 0.00 0.00 2.18
162 163 4.242475 CTCGTTGTACCAGTGAATGCTAA 58.758 43.478 0.00 0.00 0.00 3.09
163 164 3.368013 CCTCGTTGTACCAGTGAATGCTA 60.368 47.826 0.00 0.00 0.00 3.49
164 165 2.612972 CCTCGTTGTACCAGTGAATGCT 60.613 50.000 0.00 0.00 0.00 3.79
165 166 1.732259 CCTCGTTGTACCAGTGAATGC 59.268 52.381 0.00 0.00 0.00 3.56
166 167 2.736721 CACCTCGTTGTACCAGTGAATG 59.263 50.000 0.00 0.00 0.00 2.67
278 282 2.108776 TCCCTATCCCCGACGATTTCTA 59.891 50.000 0.00 0.00 0.00 2.10
300 305 3.758554 GGAACAACTGTATGCATCAAGGT 59.241 43.478 0.19 0.00 0.00 3.50
320 325 9.967346 CGAGATATCAGAAACAGTTTTATAGGA 57.033 33.333 5.32 0.00 0.00 2.94
351 356 0.457035 CATGGATGAAGCGTTTGGGG 59.543 55.000 0.00 0.00 0.00 4.96
368 373 1.865248 GCAAGCACAAACGAGTTGCAT 60.865 47.619 0.00 0.00 42.48 3.96
386 391 2.405805 CGATTGCGGTGGGAATGCA 61.406 57.895 0.00 0.00 34.00 3.96
456 464 6.918022 TGTCTGCTTATCATACACGTTCTATG 59.082 38.462 4.27 4.27 28.34 2.23
665 673 2.995466 ACACGATTTGCAACCATGAG 57.005 45.000 0.00 0.00 0.00 2.90
707 715 2.378038 ACGGTGCCGGTAAACTAGATA 58.622 47.619 15.44 0.00 44.69 1.98
710 718 1.461897 CAAACGGTGCCGGTAAACTAG 59.538 52.381 15.44 1.46 44.69 2.57
731 739 3.115554 TGTGCGATGTCAGACAATATCG 58.884 45.455 17.23 17.23 43.70 2.92
873 885 6.377327 AATAATGGTGAAATTACGCTCTGG 57.623 37.500 0.00 0.00 0.00 3.86
959 971 4.222336 TGGTTGTTTGAACCTGATGGATT 58.778 39.130 5.25 0.00 40.88 3.01
984 996 9.981114 TCTATGTACATGTGAATCGAATAATGT 57.019 29.630 18.81 0.00 33.18 2.71
1036 1048 9.696917 GGTGAAACTGAATACTTGAAATTCAAT 57.303 29.630 9.02 2.91 41.50 2.57
1280 1292 5.843673 TTTGGTGCTTGTGTAATTCTTGA 57.156 34.783 0.00 0.00 0.00 3.02
1281 1293 8.586570 TTTATTTGGTGCTTGTGTAATTCTTG 57.413 30.769 0.00 0.00 0.00 3.02
1282 1294 8.637986 TCTTTATTTGGTGCTTGTGTAATTCTT 58.362 29.630 0.00 0.00 0.00 2.52
1283 1295 8.177119 TCTTTATTTGGTGCTTGTGTAATTCT 57.823 30.769 0.00 0.00 0.00 2.40
1284 1296 8.810652 TTCTTTATTTGGTGCTTGTGTAATTC 57.189 30.769 0.00 0.00 0.00 2.17
1285 1297 9.206870 CATTCTTTATTTGGTGCTTGTGTAATT 57.793 29.630 0.00 0.00 0.00 1.40
1288 1300 7.517614 TCATTCTTTATTTGGTGCTTGTGTA 57.482 32.000 0.00 0.00 0.00 2.90
1289 1301 6.403866 TCATTCTTTATTTGGTGCTTGTGT 57.596 33.333 0.00 0.00 0.00 3.72
1290 1302 7.092079 TCATCATTCTTTATTTGGTGCTTGTG 58.908 34.615 0.00 0.00 0.00 3.33
1292 1304 7.063780 GGTTCATCATTCTTTATTTGGTGCTTG 59.936 37.037 0.00 0.00 0.00 4.01
1293 1305 7.099120 GGTTCATCATTCTTTATTTGGTGCTT 58.901 34.615 0.00 0.00 0.00 3.91
1294 1306 6.211184 TGGTTCATCATTCTTTATTTGGTGCT 59.789 34.615 0.00 0.00 0.00 4.40
1295 1307 6.311200 GTGGTTCATCATTCTTTATTTGGTGC 59.689 38.462 0.00 0.00 0.00 5.01
1296 1308 7.377398 TGTGGTTCATCATTCTTTATTTGGTG 58.623 34.615 0.00 0.00 0.00 4.17
1298 1310 7.605449 ACTGTGGTTCATCATTCTTTATTTGG 58.395 34.615 0.00 0.00 0.00 3.28
1299 1311 8.918658 CAACTGTGGTTCATCATTCTTTATTTG 58.081 33.333 0.00 0.00 32.73 2.32
1300 1312 8.641541 ACAACTGTGGTTCATCATTCTTTATTT 58.358 29.630 0.00 0.00 32.73 1.40
1301 1313 8.181904 ACAACTGTGGTTCATCATTCTTTATT 57.818 30.769 0.00 0.00 32.73 1.40
1302 1314 7.765695 ACAACTGTGGTTCATCATTCTTTAT 57.234 32.000 0.00 0.00 32.73 1.40
1304 1316 7.765695 ATACAACTGTGGTTCATCATTCTTT 57.234 32.000 0.00 0.00 32.73 2.52
1305 1317 8.103305 AGTATACAACTGTGGTTCATCATTCTT 58.897 33.333 5.50 0.00 36.93 2.52
1307 1319 7.849804 AGTATACAACTGTGGTTCATCATTC 57.150 36.000 5.50 0.00 36.93 2.67
1308 1320 7.665559 ACAAGTATACAACTGTGGTTCATCATT 59.334 33.333 5.50 0.00 38.88 2.57
1309 1321 7.168219 ACAAGTATACAACTGTGGTTCATCAT 58.832 34.615 5.50 0.00 38.88 2.45
1360 1372 5.627499 TCAGCAACCAGAATGTATTTCAC 57.373 39.130 0.00 0.00 36.75 3.18
1361 1373 5.534278 TGTTCAGCAACCAGAATGTATTTCA 59.466 36.000 0.00 0.00 36.75 2.69
1362 1374 6.012658 TGTTCAGCAACCAGAATGTATTTC 57.987 37.500 0.00 0.00 34.31 2.17
1363 1375 6.403866 TTGTTCAGCAACCAGAATGTATTT 57.596 33.333 0.00 0.00 31.07 1.40
1367 1379 2.624838 CCTTGTTCAGCAACCAGAATGT 59.375 45.455 0.00 0.00 32.90 2.71
1368 1380 2.624838 ACCTTGTTCAGCAACCAGAATG 59.375 45.455 0.00 0.00 32.90 2.67
1370 1382 2.426738 CAACCTTGTTCAGCAACCAGAA 59.573 45.455 0.00 0.00 32.90 3.02
1371 1383 2.023673 CAACCTTGTTCAGCAACCAGA 58.976 47.619 0.00 0.00 32.90 3.86
1372 1384 1.750778 ACAACCTTGTTCAGCAACCAG 59.249 47.619 0.00 0.00 38.47 4.00
1373 1385 1.846007 ACAACCTTGTTCAGCAACCA 58.154 45.000 0.00 0.00 38.47 3.67
1375 1387 3.359654 CGTTACAACCTTGTTCAGCAAC 58.640 45.455 0.00 0.00 42.35 4.17
1376 1388 2.223386 GCGTTACAACCTTGTTCAGCAA 60.223 45.455 0.00 0.00 42.35 3.91
1377 1389 1.332375 GCGTTACAACCTTGTTCAGCA 59.668 47.619 0.00 0.00 42.35 4.41
1379 1391 1.265905 GGGCGTTACAACCTTGTTCAG 59.734 52.381 0.00 0.00 42.35 3.02
1380 1392 1.310904 GGGCGTTACAACCTTGTTCA 58.689 50.000 0.00 0.00 42.35 3.18
1381 1393 0.236449 CGGGCGTTACAACCTTGTTC 59.764 55.000 0.00 0.00 42.35 3.18
1383 1395 1.598685 CCGGGCGTTACAACCTTGT 60.599 57.895 0.00 0.00 44.86 3.16
1384 1396 0.675522 ATCCGGGCGTTACAACCTTG 60.676 55.000 0.00 0.00 0.00 3.61
1386 1398 0.903942 TTATCCGGGCGTTACAACCT 59.096 50.000 0.00 0.00 0.00 3.50
1387 1399 1.957668 ATTATCCGGGCGTTACAACC 58.042 50.000 0.00 0.00 0.00 3.77
1388 1400 4.612033 GCATAATTATCCGGGCGTTACAAC 60.612 45.833 0.00 0.00 0.00 3.32
1427 1593 2.172851 TGGTGACGTGGAACCATTAC 57.827 50.000 9.67 0.00 41.56 1.89
1435 1601 1.067974 CAGTAACAGTGGTGACGTGGA 59.932 52.381 0.00 0.00 33.20 4.02
1508 1816 8.667463 AGGTTTGACAAAATTTGAATTTGACTG 58.333 29.630 13.19 1.33 39.56 3.51
1821 2796 2.366972 AAGGGGATCGGGGGAGTG 60.367 66.667 0.00 0.00 0.00 3.51
2069 3804 0.259938 GGTAGTAGGACGAAGGGGGA 59.740 60.000 0.00 0.00 0.00 4.81
2082 3817 1.726352 AGGGGTTTGAGGAGGGTAGTA 59.274 52.381 0.00 0.00 0.00 1.82
2086 3821 0.701310 AACAGGGGTTTGAGGAGGGT 60.701 55.000 0.00 0.00 31.83 4.34
2094 3829 3.591835 ACGCGCAACAGGGGTTTG 61.592 61.111 5.73 0.00 34.21 2.93
2209 3945 3.946201 CATGGGAGGGCGCTAGGG 61.946 72.222 7.64 1.65 0.00 3.53


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

AutoCloner maintained by Alex Coulton.