Multiple sequence alignment - TraesCS6D01G137000

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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 TraesCS6D01G137000 chr6D 100.000 7858 0 0 1 7858 105581293 105573436 0.000000e+00 14512.0
1 TraesCS6D01G137000 chr6D 86.383 1623 186 17 3327 4916 314506661 314505041 0.000000e+00 1740.0
2 TraesCS6D01G137000 chr6D 86.134 851 95 12 4089 4916 124240925 124240075 0.000000e+00 896.0
3 TraesCS6D01G137000 chr6D 86.090 266 33 3 158 421 202940196 202940459 4.640000e-72 283.0
4 TraesCS6D01G137000 chr6D 84.644 267 38 3 157 421 353095996 353095731 6.050000e-66 263.0
5 TraesCS6D01G137000 chr6D 84.191 272 39 4 157 425 405969257 405968987 2.170000e-65 261.0
6 TraesCS6D01G137000 chr6D 84.133 271 40 3 157 425 320730433 320730702 7.820000e-65 259.0
7 TraesCS6D01G137000 chr6D 83.636 275 37 3 2262 2529 115323583 115323856 1.310000e-62 252.0
8 TraesCS6D01G137000 chr6D 85.281 231 32 2 2262 2491 126868585 126868356 3.670000e-58 237.0
9 TraesCS6D01G137000 chr6D 85.463 227 27 2 2263 2488 210769525 210769746 1.710000e-56 231.0
10 TraesCS6D01G137000 chr6D 83.700 227 33 4 2264 2488 249449493 249449717 2.220000e-50 211.0
11 TraesCS6D01G137000 chr6D 82.258 248 37 4 2292 2532 450693187 450692940 2.870000e-49 207.0
12 TraesCS6D01G137000 chr6D 77.778 279 40 14 2262 2529 277039079 277039346 1.370000e-32 152.0
13 TraesCS6D01G137000 chr6D 85.816 141 16 3 12 152 291166688 291166552 6.350000e-31 147.0
14 TraesCS6D01G137000 chr6D 83.206 131 19 2 18 148 168981173 168981300 4.980000e-22 117.0
15 TraesCS6D01G137000 chr6A 96.470 3201 73 11 4689 7858 127883009 127879818 0.000000e+00 5249.0
16 TraesCS6D01G137000 chr6A 94.427 2530 101 15 3 2523 127886807 127884309 0.000000e+00 3855.0
17 TraesCS6D01G137000 chr6A 87.115 1622 176 12 3327 4916 364083347 364081727 0.000000e+00 1807.0
18 TraesCS6D01G137000 chr6A 97.577 908 12 2 3703 4607 127884311 127883411 0.000000e+00 1546.0
19 TraesCS6D01G137000 chr6A 87.085 271 30 4 154 421 290285503 290285235 1.280000e-77 302.0
20 TraesCS6D01G137000 chr6A 87.970 133 12 3 21 153 432495421 432495549 3.800000e-33 154.0
21 TraesCS6D01G137000 chr6B 93.460 2110 82 24 5784 7858 191995644 191997732 0.000000e+00 3081.0
22 TraesCS6D01G137000 chr6B 93.090 1751 77 17 780 2511 191990662 191992387 0.000000e+00 2523.0
23 TraesCS6D01G137000 chr6B 89.510 1897 124 28 3326 5208 191992778 191994613 0.000000e+00 2331.0
24 TraesCS6D01G137000 chr6B 84.119 1612 221 21 3326 4914 664261820 664260221 0.000000e+00 1526.0
25 TraesCS6D01G137000 chr6B 93.900 541 26 5 5201 5739 191994777 191995312 0.000000e+00 809.0
26 TraesCS6D01G137000 chr6B 86.296 270 35 2 154 421 448001484 448001215 7.710000e-75 292.0
27 TraesCS6D01G137000 chr6B 91.241 137 11 1 2533 2668 532354335 532354199 1.350000e-42 185.0
28 TraesCS6D01G137000 chr2A 86.927 1614 184 12 3327 4916 520939097 520937487 0.000000e+00 1786.0
29 TraesCS6D01G137000 chr2A 91.304 138 11 1 2529 2665 180211794 180211931 3.740000e-43 187.0
30 TraesCS6D01G137000 chr7D 87.013 1617 166 19 3327 4916 466053299 466054898 0.000000e+00 1783.0
31 TraesCS6D01G137000 chr7D 88.390 267 28 3 157 422 613912853 613912589 1.270000e-82 318.0
32 TraesCS6D01G137000 chr7D 86.517 267 33 3 157 421 230382544 230382279 2.770000e-74 291.0
33 TraesCS6D01G137000 chr7D 86.973 261 30 4 162 421 363548485 363548742 2.770000e-74 291.0
34 TraesCS6D01G137000 chr7D 86.131 274 31 2 2266 2532 401841612 401841339 9.980000e-74 289.0
35 TraesCS6D01G137000 chr7D 81.250 144 23 2 16 159 472473710 472473571 6.440000e-21 113.0
36 TraesCS6D01G137000 chr4A 85.714 1617 195 21 3327 4916 571836099 571837706 0.000000e+00 1674.0
37 TraesCS6D01G137000 chr4A 88.327 257 28 2 166 421 103065747 103066002 2.750000e-79 307.0
38 TraesCS6D01G137000 chr4A 86.885 122 15 1 17 137 421525513 421525392 1.380000e-27 135.0
39 TraesCS6D01G137000 chr4A 82.432 148 23 1 1 148 466316990 466317134 8.280000e-25 126.0
40 TraesCS6D01G137000 chr5B 84.337 1628 214 19 3327 4916 389454650 389456274 0.000000e+00 1555.0
41 TraesCS6D01G137000 chr5B 85.971 278 32 3 2262 2532 400094359 400094636 2.770000e-74 291.0
42 TraesCS6D01G137000 chr5B 83.643 269 36 3 2268 2529 138775296 138775563 6.090000e-61 246.0
43 TraesCS6D01G137000 chr5B 83.553 152 22 2 1 152 242365224 242365372 1.060000e-28 139.0
44 TraesCS6D01G137000 chr5B 92.982 57 4 0 5 61 237404786 237404730 5.050000e-12 84.2
45 TraesCS6D01G137000 chr7A 94.251 574 31 2 2754 3325 94533861 94533288 0.000000e+00 876.0
46 TraesCS6D01G137000 chr7A 98.701 231 3 0 2533 2763 94534126 94533896 2.040000e-110 411.0
47 TraesCS6D01G137000 chr7A 91.241 137 11 1 2533 2668 31811123 31810987 1.350000e-42 185.0
48 TraesCS6D01G137000 chr7A 100.000 29 0 0 7281 7309 630673028 630673000 4.000000e-03 54.7
49 TraesCS6D01G137000 chr5A 94.386 570 29 3 2762 3329 522699040 522698472 0.000000e+00 872.0
50 TraesCS6D01G137000 chr5A 98.268 231 4 0 2533 2763 522699309 522699079 9.490000e-109 405.0
51 TraesCS6D01G137000 chr5A 87.454 271 29 4 154 421 353866253 353865985 2.750000e-79 307.0
52 TraesCS6D01G137000 chr5A 91.791 134 10 1 2533 2665 22977113 22977246 1.350000e-42 185.0
53 TraesCS6D01G137000 chr5A 84.091 132 18 1 17 148 112365823 112365695 2.980000e-24 124.0
54 TraesCS6D01G137000 chr5A 93.220 59 3 1 7273 7330 478892217 478892159 1.400000e-12 86.1
55 TraesCS6D01G137000 chr1B 93.470 536 21 5 2533 3054 512630449 512629914 0.000000e+00 784.0
56 TraesCS6D01G137000 chr1B 98.261 115 2 0 3048 3162 512624382 512624268 1.340000e-47 202.0
57 TraesCS6D01G137000 chr1B 91.791 134 10 1 2533 2665 150370346 150370479 1.350000e-42 185.0
58 TraesCS6D01G137000 chr1B 91.241 137 11 1 2533 2668 150373042 150372906 1.350000e-42 185.0
59 TraesCS6D01G137000 chr1B 92.742 124 9 0 3204 3327 512624268 512624145 6.260000e-41 180.0
60 TraesCS6D01G137000 chr1B 78.832 274 38 12 2267 2532 213326663 213326924 4.880000e-37 167.0
61 TraesCS6D01G137000 chr1B 93.617 47 3 0 2533 2579 235844342 235844296 3.930000e-08 71.3
62 TraesCS6D01G137000 chr1B 93.617 47 3 0 2533 2579 243293092 243293046 3.930000e-08 71.3
63 TraesCS6D01G137000 chr2D 91.826 367 27 3 2541 2906 501305785 501306149 7.030000e-140 508.0
64 TraesCS6D01G137000 chr2D 88.136 413 39 7 2918 3328 501306416 501306820 4.260000e-132 483.0
65 TraesCS6D01G137000 chr2D 88.930 271 26 4 154 422 373915976 373915708 1.630000e-86 331.0
66 TraesCS6D01G137000 chr2D 85.455 275 31 6 2262 2529 388833663 388833935 2.160000e-70 278.0
67 TraesCS6D01G137000 chr2D 87.838 222 26 1 2264 2484 256675287 256675066 7.820000e-65 259.0
68 TraesCS6D01G137000 chr2D 81.786 280 42 4 2266 2538 514967402 514967125 7.930000e-55 226.0
69 TraesCS6D01G137000 chr2D 83.784 148 21 1 1 148 118604969 118605113 3.820000e-28 137.0
70 TraesCS6D01G137000 chr2D 83.444 151 20 5 1 149 178034501 178034648 1.380000e-27 135.0
71 TraesCS6D01G137000 chr2D 90.000 50 5 0 2953 3002 501306417 501306466 1.830000e-06 65.8
72 TraesCS6D01G137000 chr3D 87.407 270 31 3 154 421 414780431 414780699 2.750000e-79 307.0
73 TraesCS6D01G137000 chr3D 86.496 274 31 4 154 425 311594821 311594552 5.960000e-76 296.0
74 TraesCS6D01G137000 chr3D 86.296 270 34 3 154 421 272489990 272490258 2.770000e-74 291.0
75 TraesCS6D01G137000 chr3D 85.821 268 36 2 157 423 275910577 275910843 4.640000e-72 283.0
76 TraesCS6D01G137000 chr3D 85.660 265 31 2 2262 2519 175542270 175542006 1.000000e-68 272.0
77 TraesCS6D01G137000 chr3D 87.387 222 23 5 2266 2484 45759759 45759540 4.710000e-62 250.0
78 TraesCS6D01G137000 chr4D 85.870 276 35 4 154 427 131806137 131806410 2.770000e-74 291.0
79 TraesCS6D01G137000 chr4D 85.185 270 37 3 157 425 63901790 63901523 2.790000e-69 274.0
80 TraesCS6D01G137000 chr4D 83.451 284 41 6 145 425 367091906 367092186 7.820000e-65 259.0
81 TraesCS6D01G137000 chr4D 87.838 222 23 4 2271 2491 294454570 294454352 2.810000e-64 257.0
82 TraesCS6D01G137000 chr4D 84.074 270 39 4 160 427 341984193 341983926 2.810000e-64 257.0
83 TraesCS6D01G137000 chr4D 84.470 264 38 3 157 418 504124638 504124900 2.810000e-64 257.0
84 TraesCS6D01G137000 chr4D 84.411 263 37 3 157 417 449743989 449743729 1.010000e-63 255.0
85 TraesCS6D01G137000 chr4D 83.696 276 40 5 154 426 489504609 489504882 1.010000e-63 255.0
86 TraesCS6D01G137000 chr4D 83.636 275 40 4 154 425 87919636 87919908 3.640000e-63 254.0
87 TraesCS6D01G137000 chr4D 83.764 271 40 3 157 425 449809036 449808768 3.640000e-63 254.0
88 TraesCS6D01G137000 chr4D 86.207 232 29 2 2262 2491 248930110 248930340 1.690000e-61 248.0
89 TraesCS6D01G137000 chr4D 82.000 300 46 7 144 437 331670203 331669906 1.690000e-61 248.0
90 TraesCS6D01G137000 chr4D 83.516 273 36 8 2267 2532 190482462 190482732 6.090000e-61 246.0
91 TraesCS6D01G137000 chr4D 82.772 267 38 4 2266 2525 163760148 163759883 1.710000e-56 231.0
92 TraesCS6D01G137000 chr4D 83.051 236 31 4 2297 2525 360950614 360950381 1.030000e-48 206.0
93 TraesCS6D01G137000 chr4D 85.567 194 27 1 2271 2463 473136147 473135954 1.340000e-47 202.0
94 TraesCS6D01G137000 chr4D 81.707 246 36 5 2294 2532 70229672 70229429 6.220000e-46 196.0
95 TraesCS6D01G137000 chr4D 83.111 225 25 6 2321 2532 179876915 179876691 8.050000e-45 193.0
96 TraesCS6D01G137000 chr4D 88.732 142 15 1 2263 2403 287550966 287550825 1.050000e-38 172.0
97 TraesCS6D01G137000 chr4D 82.126 207 29 5 2333 2532 303077861 303078066 3.770000e-38 171.0
98 TraesCS6D01G137000 chr3B 85.766 274 31 5 2266 2532 71401860 71401588 4.640000e-72 283.0
99 TraesCS6D01G137000 chr3B 85.560 277 31 3 2262 2532 250805482 250805209 1.670000e-71 281.0
100 TraesCS6D01G137000 chrUn 85.609 271 35 4 154 422 13890545 13890277 1.670000e-71 281.0
101 TraesCS6D01G137000 chrUn 83.955 268 38 5 154 418 375984362 375984627 1.310000e-62 252.0
102 TraesCS6D01G137000 chrUn 83.955 268 38 5 157 421 376020378 376020113 1.310000e-62 252.0
103 TraesCS6D01G137000 chrUn 83.955 268 38 5 157 421 396408009 396407744 1.310000e-62 252.0
104 TraesCS6D01G137000 chrUn 83.333 276 41 5 154 425 425467942 425468216 4.710000e-62 250.0
105 TraesCS6D01G137000 chrUn 83.516 273 40 5 157 425 459828639 459828368 4.710000e-62 250.0
106 TraesCS6D01G137000 chrUn 82.042 284 47 4 144 425 9188663 9188382 1.020000e-58 239.0
107 TraesCS6D01G137000 chrUn 82.784 273 42 5 154 423 466357770 466358040 1.020000e-58 239.0
108 TraesCS6D01G137000 chrUn 82.671 277 38 9 154 425 392115917 392116188 3.670000e-58 237.0
109 TraesCS6D01G137000 chr5D 84.946 279 33 6 2262 2532 360541857 360542134 2.790000e-69 274.0
110 TraesCS6D01G137000 chr3A 87.931 232 24 3 2262 2492 215955087 215954859 3.610000e-68 270.0
111 TraesCS6D01G137000 chr3A 82.310 277 40 3 2262 2532 235375980 235375707 1.710000e-56 231.0
112 TraesCS6D01G137000 chr7B 84.286 280 32 6 2262 2532 284953352 284953628 6.050000e-66 263.0
113 TraesCS6D01G137000 chr7B 88.636 44 3 2 7267 7309 591055656 591055698 1.400000e-02 52.8
114 TraesCS6D01G137000 chr4B 84.058 276 40 4 154 427 166621933 166621660 6.050000e-66 263.0
115 TraesCS6D01G137000 chr4B 83.688 282 40 6 147 425 414885444 414885722 2.170000e-65 261.0
116 TraesCS6D01G137000 chr4B 84.191 272 39 4 157 426 469296655 469296386 2.170000e-65 261.0
117 TraesCS6D01G137000 chr4B 83.746 283 39 6 155 432 581371306 581371586 2.170000e-65 261.0
118 TraesCS6D01G137000 chr4B 83.453 278 36 5 2262 2532 305486875 305487149 4.710000e-62 250.0
119 TraesCS6D01G137000 chr4B 86.726 226 26 4 2268 2491 363314899 363314676 1.690000e-61 248.0
120 TraesCS6D01G137000 chr4B 83.154 279 38 5 2262 2532 315725407 315725130 6.090000e-61 246.0
121 TraesCS6D01G137000 chr4B 86.607 224 25 5 2262 2483 206800056 206799836 7.880000e-60 243.0
122 TraesCS6D01G137000 chr4B 89.552 134 13 1 2533 2665 215011416 215011549 1.360000e-37 169.0
123 TraesCS6D01G137000 chr4B 89.552 134 13 1 2533 2665 215059410 215059543 1.360000e-37 169.0
124 TraesCS6D01G137000 chr4B 80.342 234 31 9 2313 2532 322280761 322280993 6.310000e-36 163.0
125 TraesCS6D01G137000 chr4B 81.250 96 11 3 2434 2523 237152671 237152765 3.930000e-08 71.3
126 TraesCS6D01G137000 chr4B 94.595 37 2 0 2496 2532 111790478 111790442 3.060000e-04 58.4
127 TraesCS6D01G137000 chr1A 84.411 263 35 2 2278 2534 520581206 520580944 3.640000e-63 254.0
128 TraesCS6D01G137000 chr1A 82.353 272 38 6 2270 2532 154011623 154011353 2.210000e-55 228.0
129 TraesCS6D01G137000 chr1D 82.955 264 38 3 2278 2534 424738099 424737836 1.710000e-56 231.0
130 TraesCS6D01G137000 chr1D 81.919 271 41 5 2270 2532 138274429 138274159 1.030000e-53 222.0
131 TraesCS6D01G137000 chr1D 79.730 148 27 1 1 148 210039574 210039718 3.880000e-18 104.0
132 TraesCS6D01G137000 chr2B 83.784 148 21 2 1 148 599805073 599805217 3.820000e-28 137.0


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 TraesCS6D01G137000 chr6D 105573436 105581293 7857 True 14512.000000 14512 100.000000 1 7858 1 chr6D.!!$R1 7857
1 TraesCS6D01G137000 chr6D 314505041 314506661 1620 True 1740.000000 1740 86.383000 3327 4916 1 chr6D.!!$R5 1589
2 TraesCS6D01G137000 chr6D 124240075 124240925 850 True 896.000000 896 86.134000 4089 4916 1 chr6D.!!$R2 827
3 TraesCS6D01G137000 chr6A 127879818 127886807 6989 True 3550.000000 5249 96.158000 3 7858 3 chr6A.!!$R3 7855
4 TraesCS6D01G137000 chr6A 364081727 364083347 1620 True 1807.000000 1807 87.115000 3327 4916 1 chr6A.!!$R2 1589
5 TraesCS6D01G137000 chr6B 191990662 191997732 7070 False 2186.000000 3081 92.490000 780 7858 4 chr6B.!!$F1 7078
6 TraesCS6D01G137000 chr6B 664260221 664261820 1599 True 1526.000000 1526 84.119000 3326 4914 1 chr6B.!!$R3 1588
7 TraesCS6D01G137000 chr2A 520937487 520939097 1610 True 1786.000000 1786 86.927000 3327 4916 1 chr2A.!!$R1 1589
8 TraesCS6D01G137000 chr7D 466053299 466054898 1599 False 1783.000000 1783 87.013000 3327 4916 1 chr7D.!!$F2 1589
9 TraesCS6D01G137000 chr4A 571836099 571837706 1607 False 1674.000000 1674 85.714000 3327 4916 1 chr4A.!!$F3 1589
10 TraesCS6D01G137000 chr5B 389454650 389456274 1624 False 1555.000000 1555 84.337000 3327 4916 1 chr5B.!!$F3 1589
11 TraesCS6D01G137000 chr7A 94533288 94534126 838 True 643.500000 876 96.476000 2533 3325 2 chr7A.!!$R3 792
12 TraesCS6D01G137000 chr5A 522698472 522699309 837 True 638.500000 872 96.327000 2533 3329 2 chr5A.!!$R4 796
13 TraesCS6D01G137000 chr1B 512629914 512630449 535 True 784.000000 784 93.470000 2533 3054 1 chr1B.!!$R4 521
14 TraesCS6D01G137000 chr2D 501305785 501306820 1035 False 352.266667 508 89.987333 2541 3328 3 chr2D.!!$F4 787

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
821 824 0.232303 CTGACAAACGTTCGCCAGTC 59.768 55.0 0.0 6.1 0.00 3.51 F
939 942 0.677098 GGTTTTCCCCTTCTCTCGCC 60.677 60.0 0.0 0.0 0.00 5.54 F
2268 2289 0.888736 CGTGGAGATGGGCAACAACA 60.889 55.0 0.0 0.0 39.74 3.33 F
2822 2935 0.867753 GTCATGAGACTGCTACGGCG 60.868 60.0 4.8 4.8 41.64 6.46 F
3559 3942 0.031721 CCGTCGTATAGAACCTGCCC 59.968 60.0 0.0 0.0 0.00 5.36 F
4757 5546 0.992695 TCCCTCGTCTTCCTCTCTCA 59.007 55.0 0.0 0.0 0.00 3.27 F
5569 6536 0.764271 TGCATGTGTGACTTCCTCCA 59.236 50.0 0.0 0.0 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2287 2308 0.250597 GCCTACCCAACTTGTTCGGT 60.251 55.000 7.82 7.82 0.0 4.69 R
2525 2555 0.323360 TCCAAACAGCCCCATACAGC 60.323 55.000 0.00 0.00 0.0 4.40 R
3360 3743 1.347707 TGGCACCGATTGAAGAGAAGT 59.652 47.619 0.00 0.00 0.0 3.01 R
4670 5459 3.056465 GGTGAAGGACGAAGAGATCAAGT 60.056 47.826 0.00 0.00 0.0 3.16 R
4993 5788 1.215647 GGCCACCACTGTCTCTACG 59.784 63.158 0.00 0.00 0.0 3.51 R
5859 7129 5.009631 TGTAAAGATACCACAAGCTGCAAT 58.990 37.500 1.02 0.00 0.0 3.56 R
7431 8732 0.108662 TATGACGTGCCTGCAGACTG 60.109 55.000 17.39 3.03 0.0 3.51 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
43 44 1.956170 GCCGAGTATGTGGCGATGG 60.956 63.158 0.00 0.00 42.22 3.51
63 64 3.424105 GCCATGGAGCCCCTTCCT 61.424 66.667 18.40 0.00 38.12 3.36
159 160 6.998673 ACTAGTCTTTGTTTAGAGCATTGGTT 59.001 34.615 0.00 0.00 0.00 3.67
183 184 6.505048 TGTCCATCACATCATTCTCCTAAT 57.495 37.500 0.00 0.00 0.00 1.73
270 271 1.357907 CGAGTTCGTCTAGTCGAGGT 58.642 55.000 11.73 4.07 42.19 3.85
274 275 3.345414 AGTTCGTCTAGTCGAGGTTCAT 58.655 45.455 11.73 0.00 40.86 2.57
279 280 3.875727 CGTCTAGTCGAGGTTCATTAGGA 59.124 47.826 3.09 0.00 0.00 2.94
298 299 7.633193 TTAGGAACACAGTGTTTGTTTATGT 57.367 32.000 20.07 0.00 41.28 2.29
325 326 9.745018 ATCCACATATATATTTGAGTTTCAGGG 57.255 33.333 9.95 0.00 0.00 4.45
447 449 0.793861 TGTGATTTGTAAGTCGGCGC 59.206 50.000 0.00 0.00 0.00 6.53
487 489 3.068873 GGTAGGGTGATGATGAGAGTCAC 59.931 52.174 0.00 0.00 41.07 3.67
493 495 5.049167 GGTGATGATGAGAGTCACAGATTC 58.951 45.833 7.00 0.00 43.01 2.52
515 517 2.044946 GGGGCGCAACCTCAAGAT 60.045 61.111 10.83 0.00 39.64 2.40
516 518 2.409870 GGGGCGCAACCTCAAGATG 61.410 63.158 10.83 0.00 39.64 2.90
525 527 3.424703 CAACCTCAAGATGGGTTCATGT 58.575 45.455 0.00 0.00 43.09 3.21
526 528 3.077484 ACCTCAAGATGGGTTCATGTG 57.923 47.619 0.00 0.00 32.98 3.21
555 557 4.201910 CGCTTATGTCGATTTTGGACCAAT 60.202 41.667 7.99 0.00 33.46 3.16
560 562 8.527567 TTATGTCGATTTTGGACCAATTTTTC 57.472 30.769 7.99 2.37 33.46 2.29
592 594 3.082548 GCCAACTCTCTTTTAACTCCCC 58.917 50.000 0.00 0.00 0.00 4.81
594 596 2.742589 CAACTCTCTTTTAACTCCCCGC 59.257 50.000 0.00 0.00 0.00 6.13
599 601 2.488153 CTCTTTTAACTCCCCGCAAAGG 59.512 50.000 0.00 0.00 40.63 3.11
609 611 3.764658 CCGCAAAGGGACGGTAATA 57.235 52.632 0.00 0.00 44.46 0.98
630 632 1.368641 TACCGAGCTAACGTTCGCTA 58.631 50.000 25.19 8.92 41.72 4.26
637 639 2.097791 AGCTAACGTTCGCTAGGAGAAG 59.902 50.000 24.12 4.36 34.11 2.85
646 648 1.268283 GCTAGGAGAAGGGTGGCAGT 61.268 60.000 0.00 0.00 0.00 4.40
653 655 2.710724 GAAGGGTGGCAGTCGAACGT 62.711 60.000 0.00 0.00 0.00 3.99
676 678 5.870978 GTCATTTGATGGCAATTTTAGCTGT 59.129 36.000 0.00 0.00 34.33 4.40
703 705 6.179756 AGAAAAATCAAACAAGGGCAGTTTT 58.820 32.000 0.00 0.00 37.10 2.43
711 713 6.370166 TCAAACAAGGGCAGTTTTAAAACAAG 59.630 34.615 28.03 21.25 41.30 3.16
717 720 6.883744 AGGGCAGTTTTAAAACAAGAAATGA 58.116 32.000 28.03 0.00 41.30 2.57
807 810 1.131638 GTATGCCATCCTCCCTGACA 58.868 55.000 0.00 0.00 0.00 3.58
821 824 0.232303 CTGACAAACGTTCGCCAGTC 59.768 55.000 0.00 6.10 0.00 3.51
939 942 0.677098 GGTTTTCCCCTTCTCTCGCC 60.677 60.000 0.00 0.00 0.00 5.54
1213 1218 1.663445 CGATCGTAGACATCTTCGCCC 60.663 57.143 7.03 0.00 42.51 6.13
1376 1386 3.926058 ATGGTTAAGCCGAGTGGTATT 57.074 42.857 1.51 0.00 41.21 1.89
1377 1387 3.706600 TGGTTAAGCCGAGTGGTATTT 57.293 42.857 1.51 0.00 41.21 1.40
1516 1527 2.246719 ATTTCCATCTAGCGGAGTGC 57.753 50.000 1.56 0.00 46.98 4.40
1577 1590 7.283127 GGGTGATTTCATTGCTTTCTATCTGTA 59.717 37.037 0.00 0.00 0.00 2.74
1607 1620 4.093743 ACCCTTCCACAGTTCAACTTTTT 58.906 39.130 0.00 0.00 0.00 1.94
1860 1876 6.147821 ACATACAGAGTGCAATGTGTACTTTC 59.852 38.462 23.96 0.00 43.31 2.62
1864 1880 6.881065 ACAGAGTGCAATGTGTACTTTCATAT 59.119 34.615 15.86 0.00 43.31 1.78
2045 2061 4.677182 AGGCACCATCAAAGGTAAGAAAT 58.323 39.130 0.00 0.00 40.77 2.17
2053 2069 9.088987 ACCATCAAAGGTAAGAAATTTACATGT 57.911 29.630 2.69 2.69 40.98 3.21
2110 2127 7.711339 GCAGTGGTCCCAATAGCTATATAATAC 59.289 40.741 6.68 2.54 0.00 1.89
2196 2213 0.931662 GCAAAGCTGTGCACTGTTCG 60.932 55.000 24.36 13.62 44.29 3.95
2268 2289 0.888736 CGTGGAGATGGGCAACAACA 60.889 55.000 0.00 0.00 39.74 3.33
2269 2290 1.327303 GTGGAGATGGGCAACAACAA 58.673 50.000 0.00 0.00 39.74 2.83
2270 2291 1.000274 GTGGAGATGGGCAACAACAAC 60.000 52.381 0.00 0.00 39.74 3.32
2287 2308 5.047660 ACAACAACAACAAAGCCTTTCAGTA 60.048 36.000 0.00 0.00 0.00 2.74
2370 2400 1.571919 GCACGTGGATAGCTAACCTG 58.428 55.000 19.69 14.45 0.00 4.00
2403 2433 4.415596 TGTCCATGGCTAAATCTTTGGTT 58.584 39.130 6.96 0.00 0.00 3.67
2520 2550 4.400961 ACTGGCGCTTCTGGAGGC 62.401 66.667 7.64 0.00 40.45 4.70
2527 2557 4.093291 CTTCTGGAGGCCTGCGCT 62.093 66.667 20.39 0.00 34.44 5.92
2528 2558 4.399395 TTCTGGAGGCCTGCGCTG 62.399 66.667 20.39 12.20 34.44 5.18
2530 2560 3.774528 CTGGAGGCCTGCGCTGTA 61.775 66.667 20.39 0.00 34.44 2.74
2531 2561 3.083349 TGGAGGCCTGCGCTGTAT 61.083 61.111 20.39 0.00 34.44 2.29
2818 2931 6.536582 ACAACATAATGTCATGAGACTGCTAC 59.463 38.462 0.00 0.00 45.20 3.58
2822 2935 0.867753 GTCATGAGACTGCTACGGCG 60.868 60.000 4.80 4.80 41.64 6.46
2879 2993 5.446031 GCTGCATGCATTTACTTTTCTTC 57.554 39.130 22.97 0.00 42.31 2.87
2916 3044 2.995258 CAAGCCGCATGCATTTACTTTT 59.005 40.909 19.57 0.00 44.83 2.27
2951 3332 1.278985 ACAAGCTGCATGTACTAGCCA 59.721 47.619 8.98 0.00 38.18 4.75
3201 3584 2.684881 CCAGCGAGTTGGCAAGATTTAT 59.315 45.455 0.00 0.00 34.64 1.40
3207 3590 4.821805 CGAGTTGGCAAGATTTATATGGGT 59.178 41.667 0.00 0.00 0.00 4.51
3276 3659 1.406751 GGTTGCCAAATTGTATGGGCC 60.407 52.381 0.00 0.00 45.83 5.80
3278 3661 1.876849 TGCCAAATTGTATGGGCCAT 58.123 45.000 24.69 24.69 45.83 4.40
3360 3743 3.744238 TCTCAGACGATGTTGGACAAA 57.256 42.857 0.00 0.00 0.00 2.83
3402 3785 5.713389 CCACCCCAACTCTATCACGTATATA 59.287 44.000 0.00 0.00 0.00 0.86
3437 3820 3.828451 CCAATCCTTTCTTGTGTGGTCAT 59.172 43.478 0.00 0.00 0.00 3.06
3468 3851 1.871676 CAACATGCGCATCTCTGCTAT 59.128 47.619 22.51 0.00 46.65 2.97
3545 3928 1.413767 CGCAGGTCAAATCTCCGTCG 61.414 60.000 0.00 0.00 0.00 5.12
3559 3942 0.031721 CCGTCGTATAGAACCTGCCC 59.968 60.000 0.00 0.00 0.00 5.36
3613 3996 4.819783 CCAGTAGCTTGGTGCCAA 57.180 55.556 3.43 3.43 44.23 4.52
3643 4026 4.937201 TCTAGCTTTGATTCGATGGCTA 57.063 40.909 0.00 8.10 0.00 3.93
4022 4415 8.918202 TTAATTGGAAAGTCATTAGTGTCACT 57.082 30.769 10.99 10.99 0.00 3.41
4053 4446 7.716768 TGTTCGAACACTTGTCACAATATTA 57.283 32.000 26.53 0.00 33.17 0.98
4054 4447 8.317891 TGTTCGAACACTTGTCACAATATTAT 57.682 30.769 26.53 0.00 33.17 1.28
4055 4448 8.440059 TGTTCGAACACTTGTCACAATATTATC 58.560 33.333 26.53 0.00 33.17 1.75
4056 4449 8.656849 GTTCGAACACTTGTCACAATATTATCT 58.343 33.333 23.12 0.00 0.00 1.98
4057 4450 8.771920 TCGAACACTTGTCACAATATTATCTT 57.228 30.769 0.00 0.00 0.00 2.40
4058 4451 9.863845 TCGAACACTTGTCACAATATTATCTTA 57.136 29.630 0.00 0.00 0.00 2.10
4059 4452 9.901724 CGAACACTTGTCACAATATTATCTTAC 57.098 33.333 0.00 0.00 0.00 2.34
4579 5019 2.796031 TCTTGTCGTCGCATAAAACGTT 59.204 40.909 0.00 0.00 39.78 3.99
4670 5459 9.438228 CTTATCGAAGTACTCTCACCATCTATA 57.562 37.037 0.00 0.00 0.00 1.31
4757 5546 0.992695 TCCCTCGTCTTCCTCTCTCA 59.007 55.000 0.00 0.00 0.00 3.27
4993 5788 3.064931 CCGTTGAGACCTTAAACTCCAC 58.935 50.000 0.00 0.00 32.84 4.02
5569 6536 0.764271 TGCATGTGTGACTTCCTCCA 59.236 50.000 0.00 0.00 0.00 3.86
5735 6703 3.063997 GTCGACCTGTGCCAAATGATTAG 59.936 47.826 3.51 0.00 0.00 1.73
6009 7281 5.147330 TCCACATGACCACAACTAGTTAG 57.853 43.478 8.04 5.71 0.00 2.34
6075 7347 1.531365 CTGTGGGCAGGAAGGCAAA 60.531 57.895 0.00 0.00 46.44 3.68
6496 7784 0.178953 AAGCTGCAATGGAGTTGGGT 60.179 50.000 3.24 0.00 38.29 4.51
6751 8046 6.742718 CACCAAAATGTGAATCGTTCTCATAC 59.257 38.462 12.41 0.00 41.50 2.39
6931 8226 6.092122 TCAATTTTGTATTCTAGCTGTGTCGG 59.908 38.462 0.00 0.00 0.00 4.79
6950 8245 1.341679 GGGTCATGGTTAAACCCCTCC 60.342 57.143 8.13 0.00 45.87 4.30
7163 8458 6.519679 TGCGAATAGAGTACTCTTTGGTTA 57.480 37.500 29.57 11.80 40.93 2.85
7182 8477 4.935808 GGTTATGGATATCGACATTGTCCC 59.064 45.833 11.12 6.65 0.00 4.46
7199 8494 4.400120 TGTCCCTAAAACACGGCTTAAAT 58.600 39.130 0.00 0.00 0.00 1.40
7267 8562 4.044426 GCAAAGTACTTTTTGAGGCAGTG 58.956 43.478 18.25 5.28 39.79 3.66
7310 8606 4.115199 GACCCCGGCCTCTGCATT 62.115 66.667 0.00 0.00 40.13 3.56
7408 8709 5.120208 CCTCACACGGTAGAATACAAAAGTG 59.880 44.000 0.00 0.00 45.43 3.16
7431 8732 2.370647 GACCCTAGCGTGATCAGCCC 62.371 65.000 11.89 0.00 34.64 5.19
7470 8776 9.750882 CGTCATATTGTGAATGCTATTTCATAG 57.249 33.333 1.63 0.00 38.90 2.23
7498 8804 3.031013 ACCATACGTCTCCATGTGATGA 58.969 45.455 10.82 0.00 0.00 2.92
7585 8891 0.824109 TAAGGCGTGAGACCCATCAG 59.176 55.000 0.00 0.00 43.69 2.90
7626 8955 0.453782 GGTGTTTGCGCCGTATGAAC 60.454 55.000 4.18 1.00 35.34 3.18
7711 9040 5.518812 TGAACAAAATGTCAAGAACGATGG 58.481 37.500 0.00 0.00 0.00 3.51
7738 9071 6.825213 TGAATGGAATCAAAGTACATCTCTGG 59.175 38.462 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.050714 TCGACGTTCGTGTCTGCC 60.051 61.111 1.74 0.00 41.35 4.85
1 2 2.081212 CCTCGACGTTCGTGTCTGC 61.081 63.158 1.74 0.00 41.35 4.26
9 10 2.668280 GGCAAGCACCTCGACGTTC 61.668 63.158 0.00 0.00 0.00 3.95
16 17 0.108138 ACATACTCGGCAAGCACCTC 60.108 55.000 0.00 0.00 0.00 3.85
43 44 1.530183 GAAGGGGCTCCATGGCATC 60.530 63.158 4.79 0.00 43.83 3.91
159 160 4.849813 AGGAGAATGATGTGATGGACAA 57.150 40.909 0.00 0.00 38.36 3.18
183 184 8.940768 TGTCATTTAATAACGAGATCACATCA 57.059 30.769 0.00 0.00 0.00 3.07
270 271 6.767524 AACAAACACTGTGTTCCTAATGAA 57.232 33.333 24.86 0.00 40.14 2.57
274 275 7.633193 ACATAAACAAACACTGTGTTCCTAA 57.367 32.000 24.86 11.31 40.14 2.69
279 280 7.575414 TGGATACATAAACAAACACTGTGTT 57.425 32.000 19.85 19.85 46.17 3.32
400 402 7.118496 AGACTGTTGGAAATATGGTCTAGAG 57.882 40.000 0.00 0.00 31.93 2.43
402 404 7.331026 TGAAGACTGTTGGAAATATGGTCTAG 58.669 38.462 0.00 0.00 33.12 2.43
407 409 6.375174 TCACATGAAGACTGTTGGAAATATGG 59.625 38.462 0.00 0.00 0.00 2.74
415 417 5.443185 ACAAATCACATGAAGACTGTTGG 57.557 39.130 0.00 0.00 0.00 3.77
460 462 4.814967 TCTCATCATCACCCTACCATACA 58.185 43.478 0.00 0.00 0.00 2.29
487 489 2.897350 GCGCCCCGGAAGAATCTG 60.897 66.667 0.73 0.00 0.00 2.90
515 517 1.302431 CGAGGCACACATGAACCCA 60.302 57.895 0.00 0.00 0.00 4.51
516 518 2.690778 GCGAGGCACACATGAACCC 61.691 63.158 0.00 0.00 0.00 4.11
525 527 0.459899 ATCGACATAAGCGAGGCACA 59.540 50.000 0.00 0.00 41.49 4.57
526 528 1.571919 AATCGACATAAGCGAGGCAC 58.428 50.000 0.00 0.00 41.49 5.01
555 557 5.771165 AGAGTTGGCCGGTTAATAAGAAAAA 59.229 36.000 1.90 0.00 0.00 1.94
560 562 4.138487 AGAGAGTTGGCCGGTTAATAAG 57.862 45.455 1.90 0.00 0.00 1.73
592 594 3.495753 GGTAATATTACCGTCCCTTTGCG 59.504 47.826 25.21 0.00 43.30 4.85
604 606 5.164244 GCGAACGTTAGCTCGGTAATATTAC 60.164 44.000 23.81 15.98 36.56 1.89
605 607 4.911610 GCGAACGTTAGCTCGGTAATATTA 59.088 41.667 23.81 0.00 36.56 0.98
609 611 1.133790 AGCGAACGTTAGCTCGGTAAT 59.866 47.619 27.32 6.65 43.58 1.89
615 617 1.669779 TCTCCTAGCGAACGTTAGCTC 59.330 52.381 34.28 7.05 43.44 4.09
630 632 2.286523 CGACTGCCACCCTTCTCCT 61.287 63.158 0.00 0.00 0.00 3.69
637 639 2.737376 GACGTTCGACTGCCACCC 60.737 66.667 0.00 0.00 0.00 4.61
646 648 1.802069 TGCCATCAAATGACGTTCGA 58.198 45.000 0.00 0.00 0.00 3.71
653 655 5.870433 CACAGCTAAAATTGCCATCAAATGA 59.130 36.000 0.00 0.00 35.56 2.57
676 678 5.104982 ACTGCCCTTGTTTGATTTTTCTTCA 60.105 36.000 0.00 0.00 0.00 3.02
741 744 5.850557 TGGTTGTGATGAAATGACAGTTT 57.149 34.783 0.00 0.00 42.60 2.66
742 745 5.850557 TTGGTTGTGATGAAATGACAGTT 57.149 34.783 0.00 0.00 42.60 3.16
768 771 0.519961 GCGAACGTTTTAGGTGGCAT 59.480 50.000 0.46 0.00 0.00 4.40
807 810 1.148310 CTCATGACTGGCGAACGTTT 58.852 50.000 0.46 0.00 0.00 3.60
821 824 5.756195 TGTTTTTCTTCTGGACACTCATG 57.244 39.130 0.00 0.00 0.00 3.07
939 942 1.296715 CGGTGGAGAAGAAGGGGTG 59.703 63.158 0.00 0.00 0.00 4.61
1097 1102 0.318784 GCCAACGCCGTAGATAGAGG 60.319 60.000 0.00 0.00 0.00 3.69
1098 1103 0.384309 TGCCAACGCCGTAGATAGAG 59.616 55.000 0.00 0.00 0.00 2.43
1099 1104 0.101759 GTGCCAACGCCGTAGATAGA 59.898 55.000 0.00 0.00 0.00 1.98
1100 1105 0.874607 GGTGCCAACGCCGTAGATAG 60.875 60.000 0.00 0.00 36.54 2.08
1101 1106 1.142314 GGTGCCAACGCCGTAGATA 59.858 57.895 0.00 0.00 36.54 1.98
1102 1107 2.125269 GGTGCCAACGCCGTAGAT 60.125 61.111 0.00 0.00 36.54 1.98
1142 1147 0.749454 ATAGTACGCGTCGGAAGGGT 60.749 55.000 18.63 16.69 38.36 4.34
1145 1150 1.598924 GGGAATAGTACGCGTCGGAAG 60.599 57.143 18.63 0.00 0.00 3.46
1427 1438 3.122948 CAGACGTGTGCAGTACCATAAAC 59.877 47.826 0.00 0.00 0.00 2.01
1516 1527 7.988737 TCTGCATTTTTACCTCATACAATCTG 58.011 34.615 0.00 0.00 0.00 2.90
1577 1590 5.701224 TGAACTGTGGAAGGGTCTTAATTT 58.299 37.500 0.00 0.00 0.00 1.82
1704 1720 0.958091 TGAAACAAATCTGCACCCGG 59.042 50.000 0.00 0.00 0.00 5.73
2053 2069 9.515020 CAACAATTGTAAGCAAAAGAGTAAAGA 57.485 29.630 12.39 0.00 38.21 2.52
2110 2127 4.524316 TTTGAACAGGCATGATTGAAGG 57.476 40.909 4.84 0.00 0.00 3.46
2193 2210 8.378172 ACTCACTTAGTCAAAATCAAATCGAA 57.622 30.769 0.00 0.00 30.33 3.71
2268 2289 3.066203 CGGTACTGAAAGGCTTTGTTGTT 59.934 43.478 18.79 0.00 39.30 2.83
2269 2290 2.616842 CGGTACTGAAAGGCTTTGTTGT 59.383 45.455 18.79 14.41 39.30 3.32
2270 2291 2.875933 TCGGTACTGAAAGGCTTTGTTG 59.124 45.455 18.79 9.31 39.30 3.33
2287 2308 0.250597 GCCTACCCAACTTGTTCGGT 60.251 55.000 7.82 7.82 0.00 4.69
2370 2400 2.042639 ATGGACAAGGGGGCATGC 60.043 61.111 9.90 9.90 0.00 4.06
2520 2550 4.181010 AGCCCCATACAGCGCAGG 62.181 66.667 11.47 3.29 0.00 4.85
2521 2551 2.898840 CAGCCCCATACAGCGCAG 60.899 66.667 11.47 3.33 0.00 5.18
2522 2552 2.762969 AAACAGCCCCATACAGCGCA 62.763 55.000 11.47 0.00 0.00 6.09
2523 2553 2.046285 AAACAGCCCCATACAGCGC 61.046 57.895 0.00 0.00 0.00 5.92
2524 2554 1.656818 CCAAACAGCCCCATACAGCG 61.657 60.000 0.00 0.00 0.00 5.18
2525 2555 0.323360 TCCAAACAGCCCCATACAGC 60.323 55.000 0.00 0.00 0.00 4.40
2526 2556 2.428171 CAATCCAAACAGCCCCATACAG 59.572 50.000 0.00 0.00 0.00 2.74
2527 2557 2.042297 TCAATCCAAACAGCCCCATACA 59.958 45.455 0.00 0.00 0.00 2.29
2528 2558 2.689983 CTCAATCCAAACAGCCCCATAC 59.310 50.000 0.00 0.00 0.00 2.39
2529 2559 2.949963 GCTCAATCCAAACAGCCCCATA 60.950 50.000 0.00 0.00 0.00 2.74
2530 2560 1.856629 CTCAATCCAAACAGCCCCAT 58.143 50.000 0.00 0.00 0.00 4.00
2531 2561 0.899717 GCTCAATCCAAACAGCCCCA 60.900 55.000 0.00 0.00 0.00 4.96
2818 2931 0.742990 TGATTAGCAACTTCCCGCCG 60.743 55.000 0.00 0.00 0.00 6.46
2822 2935 0.733150 GGCGTGATTAGCAACTTCCC 59.267 55.000 0.00 0.00 36.08 3.97
2951 3332 4.298332 CAGCTTGTTGTTAGCGGAAAAAT 58.702 39.130 0.00 0.00 43.37 1.82
3060 3442 2.030958 CAGTGCATGCAGACGCTCA 61.031 57.895 23.41 0.00 39.64 4.26
3258 3641 1.649321 TGGCCCATACAATTTGGCAA 58.351 45.000 0.00 0.00 45.83 4.52
3360 3743 1.347707 TGGCACCGATTGAAGAGAAGT 59.652 47.619 0.00 0.00 0.00 3.01
3402 3785 4.614967 AAGGATTGGGTCTGGAATGATT 57.385 40.909 0.00 0.00 0.00 2.57
3411 3794 3.490348 CACACAAGAAAGGATTGGGTCT 58.510 45.455 0.00 0.00 42.29 3.85
3437 3820 4.270245 TGCGCATGTTGAGATGGATATA 57.730 40.909 5.66 0.00 0.00 0.86
3468 3851 2.165641 CGACATGTCCAACAGCTAGGTA 59.834 50.000 20.03 0.00 0.00 3.08
3545 3928 4.691326 AGCTAAAGGGCAGGTTCTATAC 57.309 45.455 0.00 0.00 34.17 1.47
3559 3942 6.037610 ACAAGAGAGTGACACAAAAGCTAAAG 59.962 38.462 8.59 0.00 0.00 1.85
3613 3996 6.528321 TCGAATCAAAGCTAGATGGATGAAT 58.472 36.000 0.00 0.00 0.00 2.57
3643 4026 4.753516 TGGTGATACCGATGAAGATGTT 57.246 40.909 0.00 0.00 42.58 2.71
4022 4415 3.857052 ACAAGTGTTCGAACAAGTGAGA 58.143 40.909 32.89 12.37 41.21 3.27
4053 4446 6.319048 ACCCTCATCAAGAACATGTAAGAT 57.681 37.500 0.00 0.00 0.00 2.40
4054 4447 5.762179 ACCCTCATCAAGAACATGTAAGA 57.238 39.130 0.00 0.00 0.00 2.10
4055 4448 7.554118 ACATTACCCTCATCAAGAACATGTAAG 59.446 37.037 0.00 0.00 0.00 2.34
4056 4449 7.402054 ACATTACCCTCATCAAGAACATGTAA 58.598 34.615 0.00 0.00 0.00 2.41
4057 4450 6.957631 ACATTACCCTCATCAAGAACATGTA 58.042 36.000 0.00 0.00 0.00 2.29
4058 4451 5.819991 ACATTACCCTCATCAAGAACATGT 58.180 37.500 0.00 0.00 0.00 3.21
4059 4452 7.050377 AGTACATTACCCTCATCAAGAACATG 58.950 38.462 0.00 0.00 0.00 3.21
4579 5019 4.862574 CGACTCCTTTCATGATACGAACAA 59.137 41.667 0.00 0.00 0.00 2.83
4670 5459 3.056465 GGTGAAGGACGAAGAGATCAAGT 60.056 47.826 0.00 0.00 0.00 3.16
4993 5788 1.215647 GGCCACCACTGTCTCTACG 59.784 63.158 0.00 0.00 0.00 3.51
5308 6274 7.227116 ACATTGGGCATATGCATCAAATTAAAC 59.773 33.333 27.57 10.44 44.36 2.01
5569 6536 5.068723 TCTCAGTCCTAAAAGAAACAGACGT 59.931 40.000 0.00 0.00 0.00 4.34
5735 6703 5.460419 CAGACTTTCAGTAATGCGAGGATAC 59.540 44.000 0.00 0.00 0.00 2.24
5859 7129 5.009631 TGTAAAGATACCACAAGCTGCAAT 58.990 37.500 1.02 0.00 0.00 3.56
5965 7237 6.945435 TGGAAGATTGCATGGTCTTTTACTAA 59.055 34.615 9.88 0.00 34.97 2.24
6009 7281 8.474006 AGATAACCAAAACAACAAAAGTGTTC 57.526 30.769 0.00 0.00 45.00 3.18
6075 7347 7.504238 TGACCATGGTAACTGTTGAATTTACTT 59.496 33.333 19.80 0.00 37.61 2.24
6496 7784 8.204160 ACTAAGTACATAATGCATACTTCAGCA 58.796 33.333 13.68 0.00 45.92 4.41
6751 8046 8.184192 GGTCATTAGATTGGAATTGTGTTAGTG 58.816 37.037 0.00 0.00 0.00 2.74
6931 8226 1.680860 CGGAGGGGTTTAACCATGACC 60.681 57.143 16.58 7.70 41.02 4.02
7163 8458 6.433847 TTTAGGGACAATGTCGATATCCAT 57.566 37.500 7.35 0.00 32.65 3.41
7182 8477 7.148306 ACACCATAGATTTAAGCCGTGTTTTAG 60.148 37.037 0.00 0.00 29.28 1.85
7298 8594 2.174363 TCATGATAATGCAGAGGCCG 57.826 50.000 0.00 0.00 40.13 6.13
7328 8624 6.695429 ACATATATGTACACTGCCTCTGATG 58.305 40.000 16.85 0.00 39.68 3.07
7389 8690 6.308282 GTCTCTCACTTTTGTATTCTACCGTG 59.692 42.308 0.00 0.00 0.00 4.94
7390 8691 6.388278 GTCTCTCACTTTTGTATTCTACCGT 58.612 40.000 0.00 0.00 0.00 4.83
7408 8709 1.606668 CTGATCACGCTAGGGTCTCTC 59.393 57.143 9.89 7.58 0.00 3.20
7431 8732 0.108662 TATGACGTGCCTGCAGACTG 60.109 55.000 17.39 3.03 0.00 3.51
7444 8745 9.750882 CTATGAAATAGCATTCACAATATGACG 57.249 33.333 2.27 0.00 40.54 4.35
7470 8776 1.134521 TGGAGACGTATGGTTGGCATC 60.135 52.381 0.00 0.00 0.00 3.91
7585 8891 5.036737 CCATTTCTTCCATGAAATACACGC 58.963 41.667 0.00 0.00 42.63 5.34
7626 8955 4.035558 CCGACTGAGAGAGAGATCAAAGAG 59.964 50.000 0.00 0.00 0.00 2.85
7711 9040 8.557864 CAGAGATGTACTTTGATTCCATTCATC 58.442 37.037 0.00 0.00 33.26 2.92


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

AutoCloner maintained by Alex Coulton.