Multiple sequence alignment - TraesCS7B01G264000

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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 TraesCS7B01G264000 chr7B 100.000 3450 0 0 1 3450 484589622 484593071 0.000000e+00 6372.0
1 TraesCS7B01G264000 chr7B 100.000 84 0 0 2547 2630 484592086 484592169 4.610000e-34 156.0
2 TraesCS7B01G264000 chr7B 100.000 84 0 0 2465 2548 484592168 484592251 4.610000e-34 156.0
3 TraesCS7B01G264000 chr7B 95.946 74 2 1 2221 2293 741645574 741645501 6.050000e-23 119.0
4 TraesCS7B01G264000 chr7D 96.802 2189 49 4 361 2548 461773480 461775648 0.000000e+00 3635.0
5 TraesCS7B01G264000 chr7D 90.044 914 34 19 2547 3450 461775565 461776431 0.000000e+00 1131.0
6 TraesCS7B01G264000 chr7D 90.029 341 20 3 2221 2548 421325153 421324814 2.460000e-116 429.0
7 TraesCS7B01G264000 chr7D 97.095 241 6 1 4 243 461773255 461773495 4.150000e-109 405.0
8 TraesCS7B01G264000 chr7D 85.849 212 11 6 2545 2737 421324899 421324688 1.250000e-49 207.0
9 TraesCS7B01G264000 chr7D 91.935 124 9 1 241 364 634071082 634071204 4.580000e-39 172.0
10 TraesCS7B01G264000 chr7A 93.111 2192 105 20 361 2547 538364383 538362233 0.000000e+00 3169.0
11 TraesCS7B01G264000 chr7A 85.126 437 38 19 3023 3450 538361683 538361265 4.120000e-114 422.0
12 TraesCS7B01G264000 chr7A 84.000 450 43 15 2550 2989 538362312 538361882 4.150000e-109 405.0
13 TraesCS7B01G264000 chr7A 90.816 98 7 2 150 246 538364461 538364365 2.790000e-26 130.0
14 TraesCS7B01G264000 chr7A 90.361 83 8 0 5 87 538364650 538364568 3.640000e-20 110.0
15 TraesCS7B01G264000 chr4B 91.617 334 22 3 2221 2548 670351396 670351063 1.130000e-124 457.0
16 TraesCS7B01G264000 chr4B 86.872 358 17 3 2221 2548 251469299 251468942 1.170000e-99 374.0
17 TraesCS7B01G264000 chr4B 98.361 122 2 0 241 362 180560123 180560002 7.500000e-52 215.0
18 TraesCS7B01G264000 chr4B 85.437 206 6 10 2550 2736 670351143 670350943 3.510000e-45 193.0
19 TraesCS7B01G264000 chr4B 97.500 40 1 0 101 140 68887543 68887582 6.180000e-08 69.4
20 TraesCS7B01G264000 chr5A 91.592 333 23 2 2221 2548 53374299 53374631 4.060000e-124 455.0
21 TraesCS7B01G264000 chr5A 91.592 333 23 2 2221 2548 53455351 53455683 4.060000e-124 455.0
22 TraesCS7B01G264000 chr5A 86.603 209 9 6 2547 2736 53374548 53374756 2.700000e-51 213.0
23 TraesCS7B01G264000 chr5A 85.646 209 11 6 2547 2736 53455600 53455808 5.840000e-48 202.0
24 TraesCS7B01G264000 chr5A 91.111 90 8 0 274 363 445253151 445253240 4.680000e-24 122.0
25 TraesCS7B01G264000 chr2D 93.814 194 10 2 2547 2738 445700078 445700271 1.210000e-74 291.0
26 TraesCS7B01G264000 chr2D 88.112 143 10 4 2596 2732 445629535 445629676 2.760000e-36 163.0
27 TraesCS7B01G264000 chr2D 96.591 88 3 0 2461 2548 445700074 445700161 2.770000e-31 147.0
28 TraesCS7B01G264000 chr2D 97.500 40 1 0 101 140 5322692 5322731 6.180000e-08 69.4
29 TraesCS7B01G264000 chr2D 97.500 40 1 0 101 140 14766734 14766773 6.180000e-08 69.4
30 TraesCS7B01G264000 chr6D 91.892 185 11 1 2368 2548 318448433 318448617 4.420000e-64 255.0
31 TraesCS7B01G264000 chr6D 86.829 205 8 6 2551 2736 318448538 318448742 9.700000e-51 211.0
32 TraesCS7B01G264000 chr6D 97.674 43 1 0 101 143 438897007 438896965 1.330000e-09 75.0
33 TraesCS7B01G264000 chr5B 94.872 117 6 0 247 363 680998719 680998603 2.110000e-42 183.0
34 TraesCS7B01G264000 chr2B 93.548 124 6 2 241 363 745041779 745041657 2.110000e-42 183.0
35 TraesCS7B01G264000 chr2B 95.455 44 1 1 101 143 28471916 28471959 6.180000e-08 69.4
36 TraesCS7B01G264000 chr6B 91.870 123 10 0 241 363 476732858 476732980 4.580000e-39 172.0
37 TraesCS7B01G264000 chr1B 90.244 123 11 1 241 363 565973307 565973186 3.560000e-35 159.0
38 TraesCS7B01G264000 chr3B 93.478 92 6 0 273 364 14462512 14462421 1.670000e-28 137.0
39 TraesCS7B01G264000 chr3B 97.674 43 1 0 101 143 20026586 20026628 1.330000e-09 75.0
40 TraesCS7B01G264000 chr1A 83.871 124 18 2 241 363 498160563 498160441 2.180000e-22 117.0
41 TraesCS7B01G264000 chr1A 95.349 43 2 0 101 143 480430412 480430370 6.180000e-08 69.4
42 TraesCS7B01G264000 chr5D 100.000 40 0 0 101 140 384475777 384475738 1.330000e-09 75.0


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 TraesCS7B01G264000 chr7B 484589622 484593071 3449 False 2228.000000 6372 100.0000 1 3450 3 chr7B.!!$F1 3449
1 TraesCS7B01G264000 chr7D 461773255 461776431 3176 False 1723.666667 3635 94.6470 4 3450 3 chr7D.!!$F2 3446
2 TraesCS7B01G264000 chr7A 538361265 538364650 3385 True 847.200000 3169 88.6828 5 3450 5 chr7A.!!$R1 3445

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
322 384 0.034767 ATCAGGCCCACATGTCAGTG 60.035 55.0 0.0 0.0 39.21 3.66 F
1533 1595 0.250901 AAACCGCAGTTCAGATGCCT 60.251 50.0 0.0 0.0 40.67 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2193 2256 1.270732 CCACTTGTCTTGCTCAGAGCT 60.271 52.381 23.15 0.0 42.97 4.09 R
2540 2605 0.104120 TTAGCGCAGTCGGCATACAT 59.896 50.000 11.47 0.0 45.17 2.29 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
114 176 6.059484 AGAAATGAAGGAACTAAAACCACGA 58.941 36.000 0.00 0.00 38.49 4.35
129 191 9.498307 CTAAAACCACGACAATAATTATGGAAC 57.502 33.333 6.86 0.34 0.00 3.62
176 238 5.509498 AGGCAGAATTCAGCTAACCATTAA 58.491 37.500 20.52 0.00 0.00 1.40
231 293 5.540337 CCAGAGGTGGCTCAATAGTAATCTA 59.460 44.000 0.00 0.00 36.89 1.98
232 294 6.451393 CAGAGGTGGCTCAATAGTAATCTAC 58.549 44.000 0.00 0.00 0.00 2.59
233 295 6.040955 CAGAGGTGGCTCAATAGTAATCTACA 59.959 42.308 0.00 0.00 0.00 2.74
234 296 6.266558 AGAGGTGGCTCAATAGTAATCTACAG 59.733 42.308 0.00 0.00 0.00 2.74
235 297 6.136857 AGGTGGCTCAATAGTAATCTACAGA 58.863 40.000 0.00 0.00 0.00 3.41
236 298 6.611642 AGGTGGCTCAATAGTAATCTACAGAA 59.388 38.462 0.00 0.00 0.00 3.02
237 299 7.125811 AGGTGGCTCAATAGTAATCTACAGAAA 59.874 37.037 0.00 0.00 0.00 2.52
238 300 7.769044 GGTGGCTCAATAGTAATCTACAGAAAA 59.231 37.037 0.00 0.00 0.00 2.29
239 301 8.604890 GTGGCTCAATAGTAATCTACAGAAAAC 58.395 37.037 0.00 0.00 0.00 2.43
240 302 7.491372 TGGCTCAATAGTAATCTACAGAAAACG 59.509 37.037 0.00 0.00 0.00 3.60
241 303 7.705325 GGCTCAATAGTAATCTACAGAAAACGA 59.295 37.037 0.00 0.00 0.00 3.85
242 304 8.533153 GCTCAATAGTAATCTACAGAAAACGAC 58.467 37.037 0.00 0.00 0.00 4.34
243 305 8.610855 TCAATAGTAATCTACAGAAAACGACG 57.389 34.615 0.00 0.00 0.00 5.12
244 306 8.453320 TCAATAGTAATCTACAGAAAACGACGA 58.547 33.333 0.00 0.00 0.00 4.20
245 307 8.734933 CAATAGTAATCTACAGAAAACGACGAG 58.265 37.037 0.00 0.00 0.00 4.18
246 308 5.638783 AGTAATCTACAGAAAACGACGAGG 58.361 41.667 0.00 0.00 0.00 4.63
247 309 4.778534 AATCTACAGAAAACGACGAGGA 57.221 40.909 0.00 0.00 0.00 3.71
248 310 4.985538 ATCTACAGAAAACGACGAGGAT 57.014 40.909 0.00 0.00 0.00 3.24
249 311 4.778534 TCTACAGAAAACGACGAGGATT 57.221 40.909 0.00 0.00 0.00 3.01
250 312 4.730657 TCTACAGAAAACGACGAGGATTC 58.269 43.478 0.00 0.36 0.00 2.52
251 313 3.662247 ACAGAAAACGACGAGGATTCT 57.338 42.857 0.00 2.78 31.75 2.40
252 314 3.576648 ACAGAAAACGACGAGGATTCTC 58.423 45.455 0.00 0.00 36.69 2.87
253 315 3.256136 ACAGAAAACGACGAGGATTCTCT 59.744 43.478 0.00 0.00 37.86 3.10
254 316 3.610242 CAGAAAACGACGAGGATTCTCTG 59.390 47.826 0.00 0.00 37.86 3.35
255 317 1.997669 AAACGACGAGGATTCTCTGC 58.002 50.000 0.00 0.00 37.86 4.26
256 318 0.173708 AACGACGAGGATTCTCTGCC 59.826 55.000 0.00 0.00 37.86 4.85
257 319 1.298713 CGACGAGGATTCTCTGCCG 60.299 63.158 0.00 0.00 37.86 5.69
258 320 1.810532 GACGAGGATTCTCTGCCGT 59.189 57.895 0.00 0.00 37.86 5.68
259 321 0.526524 GACGAGGATTCTCTGCCGTG 60.527 60.000 0.00 0.00 37.86 4.94
260 322 1.880340 CGAGGATTCTCTGCCGTGC 60.880 63.158 0.00 0.00 37.86 5.34
261 323 1.880340 GAGGATTCTCTGCCGTGCG 60.880 63.158 0.00 0.00 37.07 5.34
262 324 2.892425 GGATTCTCTGCCGTGCGG 60.892 66.667 6.22 6.22 36.06 5.69
282 344 3.698820 GGGTACCGTTCGGCCACT 61.699 66.667 11.32 0.00 40.86 4.00
283 345 2.433664 GGTACCGTTCGGCCACTG 60.434 66.667 11.32 0.00 0.00 3.66
284 346 2.652530 GTACCGTTCGGCCACTGA 59.347 61.111 11.32 0.00 0.00 3.41
285 347 1.217244 GTACCGTTCGGCCACTGAT 59.783 57.895 11.32 0.00 0.00 2.90
286 348 0.457035 GTACCGTTCGGCCACTGATA 59.543 55.000 11.32 0.00 0.00 2.15
287 349 0.742505 TACCGTTCGGCCACTGATAG 59.257 55.000 11.32 0.00 0.00 2.08
288 350 1.227263 CCGTTCGGCCACTGATAGG 60.227 63.158 2.24 0.00 0.00 2.57
289 351 1.515954 CGTTCGGCCACTGATAGGT 59.484 57.895 2.24 0.00 0.00 3.08
290 352 0.806102 CGTTCGGCCACTGATAGGTG 60.806 60.000 2.24 0.00 37.00 4.00
296 358 3.739922 CACTGATAGGTGGGCCCA 58.260 61.111 24.45 24.45 34.66 5.36
297 359 2.234586 CACTGATAGGTGGGCCCAT 58.765 57.895 31.45 16.64 34.66 4.00
298 360 0.109342 CACTGATAGGTGGGCCCATC 59.891 60.000 31.45 30.25 34.66 3.51
299 361 0.327480 ACTGATAGGTGGGCCCATCA 60.327 55.000 36.54 28.52 34.66 3.07
300 362 0.399454 CTGATAGGTGGGCCCATCAG 59.601 60.000 36.54 32.73 39.89 2.90
301 363 1.061905 TGATAGGTGGGCCCATCAGG 61.062 60.000 36.54 0.00 39.47 3.86
318 380 4.567318 GGATCAGGCCCACATGTC 57.433 61.111 0.00 0.00 0.00 3.06
319 381 1.609239 GGATCAGGCCCACATGTCA 59.391 57.895 0.00 0.00 0.00 3.58
320 382 0.465097 GGATCAGGCCCACATGTCAG 60.465 60.000 0.00 0.00 0.00 3.51
321 383 0.254178 GATCAGGCCCACATGTCAGT 59.746 55.000 0.00 0.00 0.00 3.41
322 384 0.034767 ATCAGGCCCACATGTCAGTG 60.035 55.000 0.00 0.00 39.21 3.66
323 385 2.034687 AGGCCCACATGTCAGTGC 59.965 61.111 0.00 0.00 38.18 4.40
324 386 3.064324 GGCCCACATGTCAGTGCC 61.064 66.667 0.00 1.75 38.18 5.01
325 387 3.064324 GCCCACATGTCAGTGCCC 61.064 66.667 0.00 0.00 38.18 5.36
326 388 2.361610 CCCACATGTCAGTGCCCC 60.362 66.667 0.00 0.00 38.18 5.80
327 389 2.361610 CCACATGTCAGTGCCCCC 60.362 66.667 0.00 0.00 38.18 5.40
328 390 2.435663 CACATGTCAGTGCCCCCA 59.564 61.111 0.00 0.00 32.04 4.96
329 391 1.228521 CACATGTCAGTGCCCCCAA 60.229 57.895 0.00 0.00 32.04 4.12
330 392 1.228552 ACATGTCAGTGCCCCCAAC 60.229 57.895 0.00 0.00 0.00 3.77
331 393 2.034066 ATGTCAGTGCCCCCAACG 59.966 61.111 0.00 0.00 0.00 4.10
332 394 3.567579 ATGTCAGTGCCCCCAACGG 62.568 63.158 0.00 0.00 0.00 4.44
349 411 3.081133 GCATGTGCCGTACGTCAG 58.919 61.111 15.21 0.00 34.31 3.51
350 412 2.452813 GCATGTGCCGTACGTCAGG 61.453 63.158 15.21 12.54 34.31 3.86
351 413 1.809619 CATGTGCCGTACGTCAGGG 60.810 63.158 15.21 0.00 35.13 4.45
352 414 3.014085 ATGTGCCGTACGTCAGGGG 62.014 63.158 15.21 0.00 32.45 4.79
353 415 3.376078 GTGCCGTACGTCAGGGGA 61.376 66.667 15.21 0.00 32.45 4.81
354 416 3.066190 TGCCGTACGTCAGGGGAG 61.066 66.667 15.21 0.00 32.45 4.30
355 417 4.509737 GCCGTACGTCAGGGGAGC 62.510 72.222 15.21 3.74 32.45 4.70
356 418 2.754658 CCGTACGTCAGGGGAGCT 60.755 66.667 15.21 0.00 0.00 4.09
357 419 2.490217 CGTACGTCAGGGGAGCTG 59.510 66.667 7.22 0.00 0.00 4.24
358 420 2.184579 GTACGTCAGGGGAGCTGC 59.815 66.667 0.00 0.00 0.00 5.25
359 421 2.037367 TACGTCAGGGGAGCTGCT 59.963 61.111 0.00 0.00 0.00 4.24
360 422 1.609501 TACGTCAGGGGAGCTGCTT 60.610 57.895 2.53 0.00 0.00 3.91
361 423 1.605058 TACGTCAGGGGAGCTGCTTC 61.605 60.000 2.53 0.00 0.00 3.86
362 424 2.270527 GTCAGGGGAGCTGCTTCC 59.729 66.667 19.20 19.20 36.46 3.46
442 504 4.054671 GAGAAAATCTAGGCTCACATCGG 58.945 47.826 0.00 0.00 0.00 4.18
468 530 3.249799 ACGAAACTGCAACGAATTGATCA 59.750 39.130 0.00 0.00 38.15 2.92
800 862 6.577103 TCTGAAGGATGCTAGACAAGTTATG 58.423 40.000 0.00 0.00 0.00 1.90
829 891 2.304092 CTGGCTACATCACATGGCAAT 58.696 47.619 0.00 0.00 34.68 3.56
830 892 2.691526 CTGGCTACATCACATGGCAATT 59.308 45.455 0.00 0.00 34.68 2.32
831 893 3.098377 TGGCTACATCACATGGCAATTT 58.902 40.909 0.00 0.00 32.14 1.82
832 894 3.130869 TGGCTACATCACATGGCAATTTC 59.869 43.478 0.00 0.00 32.14 2.17
833 895 3.365832 GCTACATCACATGGCAATTTCG 58.634 45.455 0.00 0.00 33.60 3.46
834 896 3.065233 GCTACATCACATGGCAATTTCGA 59.935 43.478 0.00 0.00 33.60 3.71
835 897 4.438608 GCTACATCACATGGCAATTTCGAA 60.439 41.667 0.00 0.00 33.60 3.71
836 898 3.836949 ACATCACATGGCAATTTCGAAC 58.163 40.909 0.00 0.00 33.60 3.95
837 899 3.181397 CATCACATGGCAATTTCGAACC 58.819 45.455 0.00 0.00 0.00 3.62
838 900 2.234143 TCACATGGCAATTTCGAACCA 58.766 42.857 7.59 7.59 36.43 3.67
839 901 2.030363 TCACATGGCAATTTCGAACCAC 60.030 45.455 7.32 0.00 34.36 4.16
840 902 1.959985 ACATGGCAATTTCGAACCACA 59.040 42.857 7.32 0.00 34.36 4.17
841 903 2.562298 ACATGGCAATTTCGAACCACAT 59.438 40.909 7.32 1.60 34.36 3.21
842 904 3.181397 CATGGCAATTTCGAACCACATC 58.819 45.455 7.32 0.00 34.36 3.06
843 905 2.234143 TGGCAATTTCGAACCACATCA 58.766 42.857 0.00 0.00 0.00 3.07
844 906 2.824936 TGGCAATTTCGAACCACATCAT 59.175 40.909 0.00 0.00 0.00 2.45
845 907 3.181397 GGCAATTTCGAACCACATCATG 58.819 45.455 0.00 0.00 0.00 3.07
936 998 4.665451 ACCACATCATGTTCTGAAATCCA 58.335 39.130 0.00 0.00 37.44 3.41
1025 1087 4.633565 CAGATCAACTTGAGAAGGTTAGCC 59.366 45.833 0.00 0.00 0.00 3.93
1038 1100 4.316025 AGGTTAGCCCATTTTGCTAGAA 57.684 40.909 0.00 0.00 41.94 2.10
1239 1301 6.119536 ACCTTCTCACTGTTGTCATTTGTTA 58.880 36.000 0.00 0.00 0.00 2.41
1375 1437 3.063180 CAGCTCTGAGATAGCAAAAACCG 59.937 47.826 9.28 0.00 42.62 4.44
1449 1511 8.014070 TGTATCATCATCAGCCAAAATCAAAT 57.986 30.769 0.00 0.00 0.00 2.32
1527 1589 2.422597 TCACCATAAACCGCAGTTCAG 58.577 47.619 0.00 0.00 34.19 3.02
1533 1595 0.250901 AAACCGCAGTTCAGATGCCT 60.251 50.000 0.00 0.00 40.67 4.75
1695 1758 0.623723 TGGGCTGGACAAGGATTACC 59.376 55.000 0.00 0.00 0.00 2.85
1760 1823 3.994931 AAATACCCCAGGTGTAGTCAC 57.005 47.619 0.00 0.00 43.19 3.67
2193 2256 7.446769 TGAGTCAAAAGCTACTTTATGTACCA 58.553 34.615 0.00 0.00 31.99 3.25
2342 2407 9.443283 GTGTTAAATGATAGCTGCTAAAGAATG 57.557 33.333 14.13 0.00 0.00 2.67
2519 2584 5.722021 TGACTCAGAATAGTTGTGTAGCA 57.278 39.130 0.00 0.00 0.00 3.49
2520 2585 6.096673 TGACTCAGAATAGTTGTGTAGCAA 57.903 37.500 0.00 0.00 34.16 3.91
2529 2594 3.668596 GTTGTGTAGCAACGAAACAGT 57.331 42.857 0.00 0.00 46.52 3.55
2530 2595 4.782252 GTTGTGTAGCAACGAAACAGTA 57.218 40.909 0.00 0.00 46.52 2.74
2531 2596 5.146482 GTTGTGTAGCAACGAAACAGTAA 57.854 39.130 0.00 0.00 46.52 2.24
2532 2597 4.782252 TGTGTAGCAACGAAACAGTAAC 57.218 40.909 0.00 0.00 0.00 2.50
2533 2598 4.182339 TGTGTAGCAACGAAACAGTAACA 58.818 39.130 0.00 0.00 0.00 2.41
2534 2599 4.269123 TGTGTAGCAACGAAACAGTAACAG 59.731 41.667 0.00 0.00 0.00 3.16
2535 2600 3.805422 TGTAGCAACGAAACAGTAACAGG 59.195 43.478 0.00 0.00 0.00 4.00
2536 2601 3.188159 AGCAACGAAACAGTAACAGGA 57.812 42.857 0.00 0.00 0.00 3.86
2537 2602 3.537580 AGCAACGAAACAGTAACAGGAA 58.462 40.909 0.00 0.00 0.00 3.36
2538 2603 3.942748 AGCAACGAAACAGTAACAGGAAA 59.057 39.130 0.00 0.00 0.00 3.13
2539 2604 4.033019 GCAACGAAACAGTAACAGGAAAC 58.967 43.478 0.00 0.00 0.00 2.78
2540 2605 4.437659 GCAACGAAACAGTAACAGGAAACA 60.438 41.667 0.00 0.00 0.00 2.83
2541 2606 5.732247 GCAACGAAACAGTAACAGGAAACAT 60.732 40.000 0.00 0.00 0.00 2.71
2542 2607 5.418310 ACGAAACAGTAACAGGAAACATG 57.582 39.130 0.00 0.00 0.00 3.21
2543 2608 4.879545 ACGAAACAGTAACAGGAAACATGT 59.120 37.500 0.00 0.00 0.00 3.21
2544 2609 6.050432 ACGAAACAGTAACAGGAAACATGTA 58.950 36.000 0.00 0.00 0.00 2.29
2545 2610 6.708949 ACGAAACAGTAACAGGAAACATGTAT 59.291 34.615 0.00 0.00 0.00 2.29
2546 2611 7.015289 CGAAACAGTAACAGGAAACATGTATG 58.985 38.462 0.00 0.00 0.00 2.39
2547 2612 5.880054 ACAGTAACAGGAAACATGTATGC 57.120 39.130 0.00 0.00 0.00 3.14
2548 2613 4.700213 ACAGTAACAGGAAACATGTATGCC 59.300 41.667 0.00 0.65 0.00 4.40
2549 2614 3.938963 AGTAACAGGAAACATGTATGCCG 59.061 43.478 0.00 1.01 0.00 5.69
2550 2615 2.779755 ACAGGAAACATGTATGCCGA 57.220 45.000 0.00 0.00 0.00 5.54
2551 2616 2.356135 ACAGGAAACATGTATGCCGAC 58.644 47.619 0.00 0.00 0.00 4.79
2552 2617 2.027192 ACAGGAAACATGTATGCCGACT 60.027 45.455 0.00 0.00 0.00 4.18
2553 2618 2.352651 CAGGAAACATGTATGCCGACTG 59.647 50.000 0.00 0.00 0.00 3.51
2554 2619 1.064060 GGAAACATGTATGCCGACTGC 59.936 52.381 0.00 0.00 41.77 4.40
2555 2620 0.726827 AAACATGTATGCCGACTGCG 59.273 50.000 0.00 0.00 45.60 5.18
2556 2621 1.705337 AACATGTATGCCGACTGCGC 61.705 55.000 0.00 0.00 45.60 6.09
2557 2622 1.884464 CATGTATGCCGACTGCGCT 60.884 57.895 9.73 0.00 45.60 5.92
2558 2623 0.597377 CATGTATGCCGACTGCGCTA 60.597 55.000 9.73 0.00 45.60 4.26
2559 2624 0.104120 ATGTATGCCGACTGCGCTAA 59.896 50.000 9.73 0.00 45.60 3.09
2560 2625 0.104120 TGTATGCCGACTGCGCTAAT 59.896 50.000 9.73 0.00 45.60 1.73
2561 2626 0.508641 GTATGCCGACTGCGCTAATG 59.491 55.000 9.73 0.00 45.60 1.90
2562 2627 0.387565 TATGCCGACTGCGCTAATGA 59.612 50.000 9.73 0.00 45.60 2.57
2563 2628 0.250038 ATGCCGACTGCGCTAATGAT 60.250 50.000 9.73 0.00 45.60 2.45
2564 2629 0.387565 TGCCGACTGCGCTAATGATA 59.612 50.000 9.73 0.00 45.60 2.15
2565 2630 0.784778 GCCGACTGCGCTAATGATAC 59.215 55.000 9.73 0.00 35.83 2.24
2566 2631 1.053048 CCGACTGCGCTAATGATACG 58.947 55.000 9.73 3.33 35.83 3.06
2571 2636 3.955429 GCGCTAATGATACGCCATG 57.045 52.632 0.00 0.00 46.63 3.66
2572 2637 1.148310 GCGCTAATGATACGCCATGT 58.852 50.000 0.00 0.00 46.63 3.21
2573 2638 1.136252 GCGCTAATGATACGCCATGTG 60.136 52.381 0.00 0.00 46.63 3.21
2574 2639 2.403259 CGCTAATGATACGCCATGTGA 58.597 47.619 0.00 0.00 0.00 3.58
2575 2640 2.799978 CGCTAATGATACGCCATGTGAA 59.200 45.455 0.00 0.00 0.00 3.18
2576 2641 3.247411 CGCTAATGATACGCCATGTGAAA 59.753 43.478 0.00 0.00 0.00 2.69
2577 2642 4.083855 CGCTAATGATACGCCATGTGAAAT 60.084 41.667 0.00 0.00 0.00 2.17
2578 2643 5.120053 CGCTAATGATACGCCATGTGAAATA 59.880 40.000 0.00 0.00 0.00 1.40
2579 2644 6.183360 CGCTAATGATACGCCATGTGAAATAT 60.183 38.462 0.00 0.00 0.00 1.28
2580 2645 6.963242 GCTAATGATACGCCATGTGAAATATG 59.037 38.462 0.00 0.00 34.92 1.78
2581 2646 7.148423 GCTAATGATACGCCATGTGAAATATGA 60.148 37.037 0.00 0.00 37.69 2.15
2582 2647 5.922739 TGATACGCCATGTGAAATATGAC 57.077 39.130 0.00 0.00 37.69 3.06
2583 2648 5.610398 TGATACGCCATGTGAAATATGACT 58.390 37.500 0.00 0.00 37.69 3.41
2584 2649 5.696270 TGATACGCCATGTGAAATATGACTC 59.304 40.000 0.00 0.00 37.69 3.36
2585 2650 3.872696 ACGCCATGTGAAATATGACTCA 58.127 40.909 0.00 0.00 37.69 3.41
2586 2651 3.873361 ACGCCATGTGAAATATGACTCAG 59.127 43.478 0.00 0.00 37.69 3.35
2587 2652 4.122046 CGCCATGTGAAATATGACTCAGA 58.878 43.478 0.00 0.00 37.69 3.27
2588 2653 4.571984 CGCCATGTGAAATATGACTCAGAA 59.428 41.667 0.00 0.00 37.69 3.02
2589 2654 5.237996 CGCCATGTGAAATATGACTCAGAAT 59.762 40.000 0.00 0.00 37.69 2.40
2590 2655 6.424812 CGCCATGTGAAATATGACTCAGAATA 59.575 38.462 0.00 0.00 37.69 1.75
2591 2656 7.359849 CGCCATGTGAAATATGACTCAGAATAG 60.360 40.741 0.00 0.00 37.69 1.73
2592 2657 7.443575 GCCATGTGAAATATGACTCAGAATAGT 59.556 37.037 0.00 0.00 37.69 2.12
2593 2658 9.334947 CCATGTGAAATATGACTCAGAATAGTT 57.665 33.333 0.00 0.00 37.69 2.24
2595 2660 9.896645 ATGTGAAATATGACTCAGAATAGTTGT 57.103 29.630 0.00 0.00 0.00 3.32
2596 2661 9.154847 TGTGAAATATGACTCAGAATAGTTGTG 57.845 33.333 0.00 0.00 0.00 3.33
2597 2662 9.155975 GTGAAATATGACTCAGAATAGTTGTGT 57.844 33.333 0.00 0.00 0.00 3.72
2600 2665 8.879342 AATATGACTCAGAATAGTTGTGTAGC 57.121 34.615 0.00 0.00 0.00 3.58
2642 2707 8.028938 GGAAACATGTATGCACTAGAAAACATT 58.971 33.333 0.00 0.00 0.00 2.71
2645 2710 8.109705 ACATGTATGCACTAGAAAACATTTCA 57.890 30.769 0.00 0.00 0.00 2.69
2661 2734 5.248640 ACATTTCACATCCTCGACTCATTT 58.751 37.500 0.00 0.00 0.00 2.32
2688 2761 2.891580 AGAGCAGAAACTACTCGGTTCA 59.108 45.455 0.00 0.00 35.56 3.18
2692 2765 3.554337 GCAGAAACTACTCGGTTCAAGGA 60.554 47.826 0.00 0.00 0.00 3.36
2880 2954 3.440173 ACAAACTAACATGAAGGCATCGG 59.560 43.478 0.00 0.00 30.68 4.18
2898 2972 6.673154 CATCGGATGCATACATATCACATT 57.327 37.500 10.18 0.00 36.35 2.71
2914 2988 6.764308 ATCACATTGAAACCTATGGTCTTG 57.236 37.500 0.00 0.00 33.12 3.02
2915 2989 5.009631 TCACATTGAAACCTATGGTCTTGG 58.990 41.667 0.00 0.00 33.12 3.61
2916 2990 3.763897 ACATTGAAACCTATGGTCTTGGC 59.236 43.478 0.00 0.00 33.12 4.52
2917 2991 2.507407 TGAAACCTATGGTCTTGGCC 57.493 50.000 0.00 0.00 33.12 5.36
2918 2992 1.992557 TGAAACCTATGGTCTTGGCCT 59.007 47.619 3.32 0.00 33.12 5.19
2919 2993 2.026262 TGAAACCTATGGTCTTGGCCTC 60.026 50.000 3.32 0.00 33.12 4.70
2920 2994 1.972588 AACCTATGGTCTTGGCCTCT 58.027 50.000 3.32 0.00 33.12 3.69
2921 2995 1.972588 ACCTATGGTCTTGGCCTCTT 58.027 50.000 3.32 0.00 0.00 2.85
2922 2996 1.561542 ACCTATGGTCTTGGCCTCTTG 59.438 52.381 3.32 0.00 0.00 3.02
2923 2997 1.133976 CCTATGGTCTTGGCCTCTTGG 60.134 57.143 3.32 0.00 0.00 3.61
2924 2998 0.918983 TATGGTCTTGGCCTCTTGGG 59.081 55.000 3.32 0.00 38.36 4.12
2925 2999 1.142688 ATGGTCTTGGCCTCTTGGGT 61.143 55.000 3.32 0.00 37.43 4.51
2926 3000 0.474854 TGGTCTTGGCCTCTTGGGTA 60.475 55.000 3.32 0.00 37.43 3.69
2950 3024 5.072600 AGGGTAGGTACAACTGAAATTGACA 59.927 40.000 0.00 0.00 33.57 3.58
2969 3043 9.912634 AATTGACAACTGGATAATTGTTAAGTG 57.087 29.630 0.00 0.00 39.13 3.16
2971 3045 8.458573 TGACAACTGGATAATTGTTAAGTGTT 57.541 30.769 0.00 0.00 39.13 3.32
2995 3242 6.683312 AACTACAGTTAAGACTAAAGGCCT 57.317 37.500 0.00 0.00 36.32 5.19
2997 3244 6.465084 ACTACAGTTAAGACTAAAGGCCTTG 58.535 40.000 21.33 10.33 33.90 3.61
2998 3245 5.306114 ACAGTTAAGACTAAAGGCCTTGT 57.694 39.130 21.33 14.08 33.90 3.16
3000 3247 5.531287 ACAGTTAAGACTAAAGGCCTTGTTG 59.469 40.000 21.33 14.45 33.90 3.33
3002 3249 6.039382 CAGTTAAGACTAAAGGCCTTGTTGTT 59.961 38.462 21.33 13.14 33.90 2.83
3003 3250 4.918810 AAGACTAAAGGCCTTGTTGTTG 57.081 40.909 21.33 6.79 0.00 3.33
3006 3253 4.097892 AGACTAAAGGCCTTGTTGTTGTTG 59.902 41.667 21.33 4.83 0.00 3.33
3007 3254 3.767131 ACTAAAGGCCTTGTTGTTGTTGT 59.233 39.130 21.33 5.53 0.00 3.32
3009 3256 2.671130 AGGCCTTGTTGTTGTTGTTG 57.329 45.000 0.00 0.00 0.00 3.33
3010 3257 1.899142 AGGCCTTGTTGTTGTTGTTGT 59.101 42.857 0.00 0.00 0.00 3.32
3012 3259 2.414825 GGCCTTGTTGTTGTTGTTGTTG 59.585 45.455 0.00 0.00 0.00 3.33
3013 3260 3.063485 GCCTTGTTGTTGTTGTTGTTGT 58.937 40.909 0.00 0.00 0.00 3.32
3014 3261 3.496507 GCCTTGTTGTTGTTGTTGTTGTT 59.503 39.130 0.00 0.00 0.00 2.83
3015 3262 4.610231 GCCTTGTTGTTGTTGTTGTTGTTG 60.610 41.667 0.00 0.00 0.00 3.33
3016 3263 4.509600 CCTTGTTGTTGTTGTTGTTGTTGT 59.490 37.500 0.00 0.00 0.00 3.32
3017 3264 5.007136 CCTTGTTGTTGTTGTTGTTGTTGTT 59.993 36.000 0.00 0.00 0.00 2.83
3018 3265 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
3019 3266 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
3020 3267 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
3021 3268 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
3144 3391 6.838198 TTACTTGCTACTTTGCGTATATGG 57.162 37.500 0.00 0.00 35.36 2.74
3145 3392 3.560068 ACTTGCTACTTTGCGTATATGGC 59.440 43.478 0.00 0.00 35.36 4.40
3147 3394 4.594123 TGCTACTTTGCGTATATGGCTA 57.406 40.909 0.00 0.00 35.36 3.93
3148 3395 5.147330 TGCTACTTTGCGTATATGGCTAT 57.853 39.130 0.00 0.00 35.36 2.97
3149 3396 6.275494 TGCTACTTTGCGTATATGGCTATA 57.725 37.500 0.00 0.00 35.36 1.31
3196 3443 4.760204 GGTACTACACAAGCTGTCCATTTT 59.240 41.667 0.00 0.00 33.91 1.82
3227 3474 6.872020 TCAAAGACAACCCTTACTAGAAATCG 59.128 38.462 0.00 0.00 0.00 3.34
3230 3477 7.472334 AGACAACCCTTACTAGAAATCGTAA 57.528 36.000 0.00 0.00 0.00 3.18
3357 3606 5.842907 TGATTGCTACGCTGTATATGAAGT 58.157 37.500 0.00 0.00 0.00 3.01
3416 3673 8.538409 AAACAAAATAATCCTTCAATGCAGTC 57.462 30.769 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
96 158 5.684550 ATTGTCGTGGTTTTAGTTCCTTC 57.315 39.130 0.00 0.00 0.00 3.46
114 176 5.132144 ACTCCCTCCGTTCCATAATTATTGT 59.868 40.000 0.00 0.00 0.00 2.71
129 191 1.614413 GCCTCACTAATACTCCCTCCG 59.386 57.143 0.00 0.00 0.00 4.63
176 238 1.929494 TGATGTTTAATCCCCAGCCCT 59.071 47.619 0.00 0.00 0.00 5.19
231 293 3.256136 AGAGAATCCTCGTCGTTTTCTGT 59.744 43.478 0.00 0.00 44.08 3.41
232 294 3.610242 CAGAGAATCCTCGTCGTTTTCTG 59.390 47.826 0.00 0.00 44.08 3.02
233 295 3.839293 CAGAGAATCCTCGTCGTTTTCT 58.161 45.455 0.00 0.00 44.08 2.52
234 296 2.345942 GCAGAGAATCCTCGTCGTTTTC 59.654 50.000 0.00 0.00 44.08 2.29
235 297 2.338500 GCAGAGAATCCTCGTCGTTTT 58.662 47.619 0.00 0.00 44.08 2.43
236 298 1.404315 GGCAGAGAATCCTCGTCGTTT 60.404 52.381 0.00 0.00 44.08 3.60
237 299 0.173708 GGCAGAGAATCCTCGTCGTT 59.826 55.000 0.00 0.00 44.08 3.85
238 300 1.810532 GGCAGAGAATCCTCGTCGT 59.189 57.895 0.00 0.00 44.08 4.34
239 301 1.298713 CGGCAGAGAATCCTCGTCG 60.299 63.158 0.00 0.00 44.08 5.12
240 302 0.526524 CACGGCAGAGAATCCTCGTC 60.527 60.000 0.00 0.00 44.08 4.20
241 303 1.513158 CACGGCAGAGAATCCTCGT 59.487 57.895 0.00 0.00 44.08 4.18
242 304 1.880340 GCACGGCAGAGAATCCTCG 60.880 63.158 0.00 0.00 44.08 4.63
243 305 1.880340 CGCACGGCAGAGAATCCTC 60.880 63.158 0.00 0.00 39.72 3.71
244 306 2.185350 CGCACGGCAGAGAATCCT 59.815 61.111 0.00 0.00 33.66 3.24
245 307 2.892425 CCGCACGGCAGAGAATCC 60.892 66.667 0.00 0.00 33.66 3.01
263 325 3.697747 TGGCCGAACGGTACCCTG 61.698 66.667 14.63 0.00 37.65 4.45
264 326 3.698820 GTGGCCGAACGGTACCCT 61.699 66.667 14.63 0.00 37.65 4.34
265 327 3.698820 AGTGGCCGAACGGTACCC 61.699 66.667 14.63 8.08 37.65 3.69
266 328 2.234913 ATCAGTGGCCGAACGGTACC 62.235 60.000 14.63 0.16 37.65 3.34
267 329 0.457035 TATCAGTGGCCGAACGGTAC 59.543 55.000 14.63 13.24 37.65 3.34
268 330 0.742505 CTATCAGTGGCCGAACGGTA 59.257 55.000 14.63 2.04 37.65 4.02
269 331 1.515954 CTATCAGTGGCCGAACGGT 59.484 57.895 14.63 0.00 37.65 4.83
270 332 1.227263 CCTATCAGTGGCCGAACGG 60.227 63.158 9.00 9.00 38.57 4.44
271 333 0.806102 CACCTATCAGTGGCCGAACG 60.806 60.000 0.00 0.00 33.95 3.95
272 334 3.065575 CACCTATCAGTGGCCGAAC 57.934 57.895 0.00 0.00 33.95 3.95
279 341 2.234586 ATGGGCCCACCTATCAGTG 58.765 57.895 31.51 0.00 41.11 3.66
280 342 4.860835 ATGGGCCCACCTATCAGT 57.139 55.556 31.51 5.23 41.11 3.41
284 346 4.008453 CCTGATGGGCCCACCTAT 57.992 61.111 31.51 12.18 40.46 2.57
294 356 2.080536 TGGGCCTGATCCCTGATGG 61.081 63.158 4.53 0.00 46.67 3.51
295 357 1.150081 GTGGGCCTGATCCCTGATG 59.850 63.158 4.53 0.00 46.67 3.07
296 358 0.700269 ATGTGGGCCTGATCCCTGAT 60.700 55.000 4.53 0.00 46.67 2.90
297 359 1.308128 ATGTGGGCCTGATCCCTGA 60.308 57.895 4.53 0.00 46.67 3.86
298 360 1.152819 CATGTGGGCCTGATCCCTG 60.153 63.158 4.53 0.00 46.67 4.45
299 361 1.620589 ACATGTGGGCCTGATCCCT 60.621 57.895 4.53 0.00 46.67 4.20
300 362 1.152881 GACATGTGGGCCTGATCCC 60.153 63.158 1.15 0.00 46.73 3.85
301 363 0.465097 CTGACATGTGGGCCTGATCC 60.465 60.000 1.15 0.00 0.00 3.36
302 364 0.254178 ACTGACATGTGGGCCTGATC 59.746 55.000 1.15 0.00 0.00 2.92
303 365 0.034767 CACTGACATGTGGGCCTGAT 60.035 55.000 1.15 0.00 34.56 2.90
304 366 1.376086 CACTGACATGTGGGCCTGA 59.624 57.895 1.15 0.00 34.56 3.86
305 367 2.338015 GCACTGACATGTGGGCCTG 61.338 63.158 1.15 0.00 38.31 4.85
306 368 2.034687 GCACTGACATGTGGGCCT 59.965 61.111 1.15 0.00 38.31 5.19
307 369 3.064324 GGCACTGACATGTGGGCC 61.064 66.667 13.22 13.22 38.31 5.80
308 370 3.064324 GGGCACTGACATGTGGGC 61.064 66.667 1.15 1.55 38.31 5.36
309 371 2.361610 GGGGCACTGACATGTGGG 60.362 66.667 1.15 0.00 38.31 4.61
310 372 2.361610 GGGGGCACTGACATGTGG 60.362 66.667 1.15 0.00 38.31 4.17
311 373 1.228521 TTGGGGGCACTGACATGTG 60.229 57.895 1.15 0.00 40.62 3.21
312 374 1.228552 GTTGGGGGCACTGACATGT 60.229 57.895 0.00 0.00 0.00 3.21
313 375 2.334946 CGTTGGGGGCACTGACATG 61.335 63.158 0.00 0.00 0.00 3.21
314 376 2.034066 CGTTGGGGGCACTGACAT 59.966 61.111 0.00 0.00 0.00 3.06
315 377 4.263572 CCGTTGGGGGCACTGACA 62.264 66.667 0.00 0.00 0.00 3.58
332 394 2.452813 CCTGACGTACGGCACATGC 61.453 63.158 22.42 0.00 41.14 4.06
333 395 1.809619 CCCTGACGTACGGCACATG 60.810 63.158 22.42 11.12 0.00 3.21
334 396 2.577059 CCCTGACGTACGGCACAT 59.423 61.111 22.42 0.00 0.00 3.21
335 397 3.687102 CCCCTGACGTACGGCACA 61.687 66.667 22.42 15.01 0.00 4.57
336 398 3.352338 CTCCCCTGACGTACGGCAC 62.352 68.421 22.42 10.95 0.00 5.01
337 399 3.066190 CTCCCCTGACGTACGGCA 61.066 66.667 24.75 24.75 0.00 5.69
338 400 4.509737 GCTCCCCTGACGTACGGC 62.510 72.222 21.06 18.72 0.00 5.68
339 401 2.754658 AGCTCCCCTGACGTACGG 60.755 66.667 21.06 1.19 0.00 4.02
340 402 2.490217 CAGCTCCCCTGACGTACG 59.510 66.667 15.01 15.01 44.64 3.67
341 403 1.889530 AAGCAGCTCCCCTGACGTAC 61.890 60.000 0.00 0.00 44.64 3.67
342 404 1.605058 GAAGCAGCTCCCCTGACGTA 61.605 60.000 0.00 0.00 44.64 3.57
343 405 2.925170 AAGCAGCTCCCCTGACGT 60.925 61.111 0.00 0.00 44.64 4.34
344 406 2.125350 GAAGCAGCTCCCCTGACG 60.125 66.667 0.00 0.00 44.64 4.35
345 407 2.270527 GGAAGCAGCTCCCCTGAC 59.729 66.667 0.00 0.00 44.64 3.51
346 408 2.203983 TGGAAGCAGCTCCCCTGA 60.204 61.111 13.30 0.00 44.64 3.86
347 409 2.045536 GTGGAAGCAGCTCCCCTG 60.046 66.667 13.30 0.00 44.67 4.45
348 410 2.530151 TGTGGAAGCAGCTCCCCT 60.530 61.111 13.30 0.00 34.22 4.79
349 411 2.045536 CTGTGGAAGCAGCTCCCC 60.046 66.667 0.00 0.62 34.22 4.81
350 412 0.250901 TTTCTGTGGAAGCAGCTCCC 60.251 55.000 0.00 0.00 36.49 4.30
351 413 1.268079 GTTTTCTGTGGAAGCAGCTCC 59.732 52.381 0.00 0.00 36.49 4.70
352 414 2.031333 CAGTTTTCTGTGGAAGCAGCTC 60.031 50.000 0.00 0.00 42.48 4.09
353 415 1.952296 CAGTTTTCTGTGGAAGCAGCT 59.048 47.619 0.00 0.00 42.48 4.24
354 416 1.949525 TCAGTTTTCTGTGGAAGCAGC 59.050 47.619 0.00 0.00 46.98 5.25
355 417 2.945008 TGTCAGTTTTCTGTGGAAGCAG 59.055 45.455 0.00 0.00 46.98 4.24
356 418 2.997980 TGTCAGTTTTCTGTGGAAGCA 58.002 42.857 0.00 0.00 46.98 3.91
357 419 3.378427 ACTTGTCAGTTTTCTGTGGAAGC 59.622 43.478 0.00 0.00 46.98 3.86
358 420 4.731773 GCACTTGTCAGTTTTCTGTGGAAG 60.732 45.833 0.00 0.00 46.98 3.46
359 421 3.128589 GCACTTGTCAGTTTTCTGTGGAA 59.871 43.478 0.00 0.00 46.98 3.53
360 422 2.682856 GCACTTGTCAGTTTTCTGTGGA 59.317 45.455 0.00 0.00 46.98 4.02
361 423 2.423185 TGCACTTGTCAGTTTTCTGTGG 59.577 45.455 0.00 0.00 46.98 4.17
362 424 3.127548 ACTGCACTTGTCAGTTTTCTGTG 59.872 43.478 0.00 0.00 46.98 3.66
387 449 6.148645 TGCTAGATCGTGTTTGCAATTTTCTA 59.851 34.615 0.00 1.53 0.00 2.10
442 504 0.230260 TTCGTTGCAGTTTCGTACGC 59.770 50.000 11.24 0.00 32.65 4.42
468 530 9.533831 ACCACAGAATAACTTAAATTCATCCTT 57.466 29.630 2.15 0.00 36.09 3.36
800 862 4.693283 TGTGATGTAGCCAGTATAACTGC 58.307 43.478 1.43 0.00 44.63 4.40
829 891 4.888917 TCACTACATGATGTGGTTCGAAA 58.111 39.130 12.08 0.00 39.06 3.46
830 892 4.529109 TCACTACATGATGTGGTTCGAA 57.471 40.909 12.08 0.00 39.06 3.71
831 893 4.529109 TTCACTACATGATGTGGTTCGA 57.471 40.909 12.08 5.02 39.06 3.71
832 894 5.122239 ACATTTCACTACATGATGTGGTTCG 59.878 40.000 12.08 2.61 39.06 3.95
833 895 6.500684 ACATTTCACTACATGATGTGGTTC 57.499 37.500 12.08 0.00 39.06 3.62
834 896 6.374333 GGTACATTTCACTACATGATGTGGTT 59.626 38.462 12.08 0.00 39.06 3.67
835 897 5.880332 GGTACATTTCACTACATGATGTGGT 59.120 40.000 8.88 8.88 43.03 4.16
836 898 6.037500 CAGGTACATTTCACTACATGATGTGG 59.962 42.308 8.61 7.99 37.11 4.17
837 899 6.037500 CCAGGTACATTTCACTACATGATGTG 59.962 42.308 8.61 8.09 37.11 3.21
838 900 6.070251 TCCAGGTACATTTCACTACATGATGT 60.070 38.462 2.65 2.65 37.11 3.06
839 901 6.258727 GTCCAGGTACATTTCACTACATGATG 59.741 42.308 0.00 0.00 37.11 3.07
840 902 6.070251 TGTCCAGGTACATTTCACTACATGAT 60.070 38.462 0.00 0.00 37.11 2.45
841 903 5.247337 TGTCCAGGTACATTTCACTACATGA 59.753 40.000 0.00 0.00 34.65 3.07
842 904 5.487433 TGTCCAGGTACATTTCACTACATG 58.513 41.667 0.00 0.00 0.00 3.21
843 905 5.755409 TGTCCAGGTACATTTCACTACAT 57.245 39.130 0.00 0.00 0.00 2.29
844 906 5.247337 TCATGTCCAGGTACATTTCACTACA 59.753 40.000 0.00 0.00 38.01 2.74
845 907 5.730550 TCATGTCCAGGTACATTTCACTAC 58.269 41.667 0.00 0.00 38.01 2.73
892 954 6.878389 TGGTTTGAAAATGAAAGAAAGCTTGT 59.122 30.769 0.00 0.00 33.79 3.16
936 998 5.105756 CGAATGCTGGGAAATACTTTTTCCT 60.106 40.000 14.80 0.00 45.49 3.36
1025 1087 7.284034 ACTGAGTATGGATTTCTAGCAAAATGG 59.716 37.037 0.00 0.00 0.00 3.16
1038 1100 5.762179 TCCTGAAACACTGAGTATGGATT 57.238 39.130 0.00 0.00 0.00 3.01
1239 1301 3.068590 GCTGGCATAAAGTTATGGTGCAT 59.931 43.478 11.92 0.00 40.61 3.96
1356 1418 4.142816 CCAACGGTTTTTGCTATCTCAGAG 60.143 45.833 0.00 0.00 0.00 3.35
1375 1437 1.947456 GGTGACTTTGTCAGGACCAAC 59.053 52.381 0.20 0.00 43.57 3.77
1449 1511 3.732212 CAGCTCCGGAATGTCATGAATA 58.268 45.455 5.23 0.00 0.00 1.75
1506 1568 3.009723 CTGAACTGCGGTTTATGGTGAT 58.990 45.455 13.23 0.00 35.58 3.06
1519 1581 5.118990 TGATTTACTAGGCATCTGAACTGC 58.881 41.667 0.00 0.00 38.93 4.40
1527 1589 9.213799 CTCTAATTTCCTGATTTACTAGGCATC 57.786 37.037 0.00 0.00 34.00 3.91
1533 1595 9.667107 CACAACCTCTAATTTCCTGATTTACTA 57.333 33.333 0.00 0.00 0.00 1.82
2180 2243 4.709886 TGCTCAGAGCTGGTACATAAAGTA 59.290 41.667 23.15 0.00 42.97 2.24
2193 2256 1.270732 CCACTTGTCTTGCTCAGAGCT 60.271 52.381 23.15 0.00 42.97 4.09
2342 2407 4.363138 GAACATTTTTATAGCCTGCAGCC 58.637 43.478 8.66 0.00 45.47 4.85
2377 2442 9.515226 TGCCTAAAGTGACTTTGTTATATTTCT 57.485 29.630 20.06 0.00 35.21 2.52
2401 2466 6.456795 AGTAAGCTCTGGGATAAATTTTGC 57.543 37.500 0.00 0.00 0.00 3.68
2519 2584 5.355910 ACATGTTTCCTGTTACTGTTTCGTT 59.644 36.000 0.00 0.00 0.00 3.85
2520 2585 4.879545 ACATGTTTCCTGTTACTGTTTCGT 59.120 37.500 0.00 0.00 0.00 3.85
2521 2586 5.418310 ACATGTTTCCTGTTACTGTTTCG 57.582 39.130 0.00 0.00 0.00 3.46
2522 2587 6.801862 GCATACATGTTTCCTGTTACTGTTTC 59.198 38.462 2.30 0.00 0.00 2.78
2523 2588 6.294508 GGCATACATGTTTCCTGTTACTGTTT 60.295 38.462 2.30 0.00 0.00 2.83
2524 2589 5.183140 GGCATACATGTTTCCTGTTACTGTT 59.817 40.000 2.30 0.00 0.00 3.16
2525 2590 4.700213 GGCATACATGTTTCCTGTTACTGT 59.300 41.667 2.30 0.00 0.00 3.55
2526 2591 4.201812 CGGCATACATGTTTCCTGTTACTG 60.202 45.833 2.30 0.00 0.00 2.74
2527 2592 3.938963 CGGCATACATGTTTCCTGTTACT 59.061 43.478 2.30 0.00 0.00 2.24
2528 2593 3.936453 TCGGCATACATGTTTCCTGTTAC 59.064 43.478 2.30 0.00 0.00 2.50
2529 2594 3.936453 GTCGGCATACATGTTTCCTGTTA 59.064 43.478 2.30 0.00 0.00 2.41
2530 2595 2.747446 GTCGGCATACATGTTTCCTGTT 59.253 45.455 2.30 0.00 0.00 3.16
2531 2596 2.027192 AGTCGGCATACATGTTTCCTGT 60.027 45.455 2.30 0.00 0.00 4.00
2532 2597 2.352651 CAGTCGGCATACATGTTTCCTG 59.647 50.000 2.30 0.00 0.00 3.86
2533 2598 2.632377 CAGTCGGCATACATGTTTCCT 58.368 47.619 2.30 0.00 0.00 3.36
2534 2599 1.064060 GCAGTCGGCATACATGTTTCC 59.936 52.381 2.30 2.00 43.97 3.13
2535 2600 1.267532 CGCAGTCGGCATACATGTTTC 60.268 52.381 2.30 0.00 45.17 2.78
2536 2601 0.726827 CGCAGTCGGCATACATGTTT 59.273 50.000 2.30 0.00 45.17 2.83
2537 2602 1.705337 GCGCAGTCGGCATACATGTT 61.705 55.000 2.30 0.00 45.17 2.71
2538 2603 2.173669 GCGCAGTCGGCATACATGT 61.174 57.895 0.30 2.69 45.17 3.21
2539 2604 0.597377 TAGCGCAGTCGGCATACATG 60.597 55.000 11.47 0.00 45.17 3.21
2540 2605 0.104120 TTAGCGCAGTCGGCATACAT 59.896 50.000 11.47 0.00 45.17 2.29
2541 2606 0.104120 ATTAGCGCAGTCGGCATACA 59.896 50.000 11.47 0.00 45.17 2.29
2542 2607 0.508641 CATTAGCGCAGTCGGCATAC 59.491 55.000 11.47 0.00 45.17 2.39
2543 2608 0.387565 TCATTAGCGCAGTCGGCATA 59.612 50.000 11.47 0.00 45.17 3.14
2544 2609 0.250038 ATCATTAGCGCAGTCGGCAT 60.250 50.000 11.47 0.00 45.17 4.40
2545 2610 0.387565 TATCATTAGCGCAGTCGGCA 59.612 50.000 11.47 0.00 45.17 5.69
2546 2611 0.784778 GTATCATTAGCGCAGTCGGC 59.215 55.000 11.47 0.00 39.90 5.54
2547 2612 1.053048 CGTATCATTAGCGCAGTCGG 58.947 55.000 11.47 0.00 35.95 4.79
2554 2619 2.403259 TCACATGGCGTATCATTAGCG 58.597 47.619 0.00 0.00 0.00 4.26
2555 2620 4.811555 TTTCACATGGCGTATCATTAGC 57.188 40.909 0.00 0.00 0.00 3.09
2556 2621 8.171196 GTCATATTTCACATGGCGTATCATTAG 58.829 37.037 0.00 0.00 0.00 1.73
2557 2622 7.877612 AGTCATATTTCACATGGCGTATCATTA 59.122 33.333 0.00 0.00 33.18 1.90
2558 2623 6.712095 AGTCATATTTCACATGGCGTATCATT 59.288 34.615 0.00 0.00 33.18 2.57
2559 2624 6.233434 AGTCATATTTCACATGGCGTATCAT 58.767 36.000 0.00 0.00 33.18 2.45
2560 2625 5.610398 AGTCATATTTCACATGGCGTATCA 58.390 37.500 0.00 0.00 33.18 2.15
2561 2626 5.696270 TGAGTCATATTTCACATGGCGTATC 59.304 40.000 0.00 0.00 33.18 2.24
2562 2627 5.610398 TGAGTCATATTTCACATGGCGTAT 58.390 37.500 0.00 0.00 33.18 3.06
2563 2628 5.017294 TGAGTCATATTTCACATGGCGTA 57.983 39.130 0.00 0.00 33.18 4.42
2564 2629 3.872696 TGAGTCATATTTCACATGGCGT 58.127 40.909 0.00 0.00 33.18 5.68
2565 2630 4.122046 TCTGAGTCATATTTCACATGGCG 58.878 43.478 0.00 0.00 33.18 5.69
2566 2631 6.630444 ATTCTGAGTCATATTTCACATGGC 57.370 37.500 0.00 0.00 0.00 4.40
2567 2632 8.899427 ACTATTCTGAGTCATATTTCACATGG 57.101 34.615 0.00 0.00 0.00 3.66
2569 2634 9.896645 ACAACTATTCTGAGTCATATTTCACAT 57.103 29.630 0.00 0.00 0.00 3.21
2570 2635 9.154847 CACAACTATTCTGAGTCATATTTCACA 57.845 33.333 0.00 0.00 0.00 3.58
2571 2636 9.155975 ACACAACTATTCTGAGTCATATTTCAC 57.844 33.333 0.00 0.00 0.00 3.18
2574 2639 9.319143 GCTACACAACTATTCTGAGTCATATTT 57.681 33.333 0.00 0.00 0.00 1.40
2575 2640 8.478066 TGCTACACAACTATTCTGAGTCATATT 58.522 33.333 0.00 0.00 0.00 1.28
2576 2641 8.011844 TGCTACACAACTATTCTGAGTCATAT 57.988 34.615 0.00 0.00 0.00 1.78
2577 2642 7.404671 TGCTACACAACTATTCTGAGTCATA 57.595 36.000 0.00 0.00 0.00 2.15
2578 2643 6.286240 TGCTACACAACTATTCTGAGTCAT 57.714 37.500 0.00 0.00 0.00 3.06
2579 2644 5.722021 TGCTACACAACTATTCTGAGTCA 57.278 39.130 0.00 0.00 0.00 3.41
2592 2657 4.630505 TGTTACTGTTTCGTTGCTACACAA 59.369 37.500 0.00 0.00 35.33 3.33
2593 2658 4.182339 TGTTACTGTTTCGTTGCTACACA 58.818 39.130 0.00 0.00 0.00 3.72
2594 2659 4.318546 CCTGTTACTGTTTCGTTGCTACAC 60.319 45.833 0.00 0.00 0.00 2.90
2595 2660 3.805422 CCTGTTACTGTTTCGTTGCTACA 59.195 43.478 0.00 0.00 0.00 2.74
2596 2661 4.053295 TCCTGTTACTGTTTCGTTGCTAC 58.947 43.478 0.00 0.00 0.00 3.58
2597 2662 4.325028 TCCTGTTACTGTTTCGTTGCTA 57.675 40.909 0.00 0.00 0.00 3.49
2598 2663 3.188159 TCCTGTTACTGTTTCGTTGCT 57.812 42.857 0.00 0.00 0.00 3.91
2599 2664 3.955771 TTCCTGTTACTGTTTCGTTGC 57.044 42.857 0.00 0.00 0.00 4.17
2600 2665 5.224562 TGTTTCCTGTTACTGTTTCGTTG 57.775 39.130 0.00 0.00 0.00 4.10
2642 2707 4.271696 ACAAATGAGTCGAGGATGTGAA 57.728 40.909 0.00 0.00 0.00 3.18
2645 2710 4.271696 TGAACAAATGAGTCGAGGATGT 57.728 40.909 0.00 0.00 0.00 3.06
2661 2734 4.299155 CGAGTAGTTTCTGCTCTTGAACA 58.701 43.478 11.63 0.00 40.25 3.18
2880 2954 7.879070 AGGTTTCAATGTGATATGTATGCATC 58.121 34.615 0.19 0.00 36.58 3.91
2898 2972 1.992557 AGGCCAAGACCATAGGTTTCA 59.007 47.619 5.01 0.00 35.25 2.69
2914 2988 1.054978 CCTACCCTACCCAAGAGGCC 61.055 65.000 0.00 0.00 40.58 5.19
2915 2989 0.326332 ACCTACCCTACCCAAGAGGC 60.326 60.000 0.00 0.00 40.58 4.70
2916 2990 2.023695 TGTACCTACCCTACCCAAGAGG 60.024 54.545 0.00 0.00 43.78 3.69
2917 2991 3.393426 TGTACCTACCCTACCCAAGAG 57.607 52.381 0.00 0.00 0.00 2.85
2918 2992 3.078000 AGTTGTACCTACCCTACCCAAGA 59.922 47.826 0.00 0.00 0.00 3.02
2919 2993 3.197116 CAGTTGTACCTACCCTACCCAAG 59.803 52.174 0.00 0.00 0.00 3.61
2920 2994 3.175594 CAGTTGTACCTACCCTACCCAA 58.824 50.000 0.00 0.00 0.00 4.12
2921 2995 2.382993 TCAGTTGTACCTACCCTACCCA 59.617 50.000 0.00 0.00 0.00 4.51
2922 2996 3.105959 TCAGTTGTACCTACCCTACCC 57.894 52.381 0.00 0.00 0.00 3.69
2923 2997 5.688814 ATTTCAGTTGTACCTACCCTACC 57.311 43.478 0.00 0.00 0.00 3.18
2924 2998 6.592994 GTCAATTTCAGTTGTACCTACCCTAC 59.407 42.308 0.00 0.00 0.00 3.18
2925 2999 6.270463 TGTCAATTTCAGTTGTACCTACCCTA 59.730 38.462 0.00 0.00 0.00 3.53
2926 3000 5.072600 TGTCAATTTCAGTTGTACCTACCCT 59.927 40.000 0.00 0.00 0.00 4.34
2967 3041 8.706936 GCCTTTAGTCTTAACTGTAGTTAACAC 58.293 37.037 11.98 12.13 43.28 3.32
2968 3042 7.874528 GGCCTTTAGTCTTAACTGTAGTTAACA 59.125 37.037 11.98 1.58 43.28 2.41
2969 3043 8.093307 AGGCCTTTAGTCTTAACTGTAGTTAAC 58.907 37.037 0.00 0.00 43.28 2.01
2971 3045 7.787623 AGGCCTTTAGTCTTAACTGTAGTTA 57.212 36.000 0.00 0.50 39.31 2.24
2986 3233 4.385358 ACAACAACAACAAGGCCTTTAG 57.615 40.909 17.61 8.46 0.00 1.85
2991 3238 2.378445 ACAACAACAACAACAAGGCC 57.622 45.000 0.00 0.00 0.00 5.19
2992 3239 3.063485 ACAACAACAACAACAACAAGGC 58.937 40.909 0.00 0.00 0.00 4.35
2993 3240 4.509600 ACAACAACAACAACAACAACAAGG 59.490 37.500 0.00 0.00 0.00 3.61
2994 3241 5.649602 ACAACAACAACAACAACAACAAG 57.350 34.783 0.00 0.00 0.00 3.16
2995 3242 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
2997 3244 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
2998 3245 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
3000 3247 5.193936 CACAACAACAACAACAACAACAAC 58.806 37.500 0.00 0.00 0.00 3.32
3002 3249 3.804325 CCACAACAACAACAACAACAACA 59.196 39.130 0.00 0.00 0.00 3.33
3003 3250 4.051922 TCCACAACAACAACAACAACAAC 58.948 39.130 0.00 0.00 0.00 3.32
3006 3253 3.643763 TGTCCACAACAACAACAACAAC 58.356 40.909 0.00 0.00 34.03 3.32
3007 3254 4.489810 GATGTCCACAACAACAACAACAA 58.510 39.130 0.00 0.00 42.37 2.83
3009 3256 3.130340 AGGATGTCCACAACAACAACAAC 59.870 43.478 1.30 0.00 42.37 3.32
3010 3257 3.130164 CAGGATGTCCACAACAACAACAA 59.870 43.478 1.30 0.00 42.37 2.83
3012 3259 2.034558 CCAGGATGTCCACAACAACAAC 59.965 50.000 1.30 0.00 42.37 3.32
3013 3260 2.092158 TCCAGGATGTCCACAACAACAA 60.092 45.455 1.30 0.00 42.37 2.83
3014 3261 1.492599 TCCAGGATGTCCACAACAACA 59.507 47.619 1.30 0.00 42.37 3.33
3015 3262 2.270352 TCCAGGATGTCCACAACAAC 57.730 50.000 1.30 0.00 42.37 3.32
3016 3263 3.524095 AATCCAGGATGTCCACAACAA 57.476 42.857 1.44 0.00 42.37 2.83
3017 3264 3.181435 TGAAATCCAGGATGTCCACAACA 60.181 43.478 16.22 0.00 43.51 3.33
3018 3265 3.191371 GTGAAATCCAGGATGTCCACAAC 59.809 47.826 16.22 4.83 38.89 3.32
3019 3266 3.420893 GTGAAATCCAGGATGTCCACAA 58.579 45.455 16.22 0.00 38.89 3.33
3020 3267 2.615240 CGTGAAATCCAGGATGTCCACA 60.615 50.000 16.22 4.16 38.89 4.17
3021 3268 2.009774 CGTGAAATCCAGGATGTCCAC 58.990 52.381 16.22 15.30 38.89 4.02
3144 3391 6.201517 ACAATTGAACAACGATGCATATAGC 58.798 36.000 13.59 0.00 45.96 2.97
3145 3392 8.619146 AAACAATTGAACAACGATGCATATAG 57.381 30.769 13.59 0.00 0.00 1.31
3147 3394 7.274033 CAGAAACAATTGAACAACGATGCATAT 59.726 33.333 13.59 0.00 0.00 1.78
3148 3395 6.581919 CAGAAACAATTGAACAACGATGCATA 59.418 34.615 13.59 0.00 0.00 3.14
3149 3396 5.403166 CAGAAACAATTGAACAACGATGCAT 59.597 36.000 13.59 0.00 0.00 3.96
3196 3443 8.707449 TCTAGTAAGGGTTGTCTTTGACTTTTA 58.293 33.333 0.00 0.00 33.15 1.52
3357 3606 6.708949 AGCTTTTGTAGTTCGAGAAACCATTA 59.291 34.615 0.00 0.00 38.76 1.90
3410 3667 5.643348 CAGATTAACCAAGTATGTGACTGCA 59.357 40.000 0.00 0.00 38.87 4.41
3416 3673 6.095300 TGCCATTCAGATTAACCAAGTATGTG 59.905 38.462 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.