Multiple sequence alignment - TraesCS7A01G319400

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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 TraesCS7A01G319400 chr7A 100.000 3908 0 0 1 3908 459629368 459625461 0.000000e+00 7217.0
1 TraesCS7A01G319400 chr7D 97.032 1954 40 13 1964 3908 401837900 401835956 0.000000e+00 3271.0
2 TraesCS7A01G319400 chr7D 93.145 1313 50 25 420 1703 401839340 401838039 0.000000e+00 1890.0
3 TraesCS7A01G319400 chr7D 94.286 315 12 4 1 311 401839676 401839364 9.820000e-131 477.0
4 TraesCS7A01G319400 chr7D 95.000 140 7 0 1717 1856 401838051 401837912 1.830000e-53 220.0
5 TraesCS7A01G319400 chr7B 96.210 1161 37 3 2065 3223 411494451 411493296 0.000000e+00 1893.0
6 TraesCS7A01G319400 chr7B 91.536 1276 78 19 454 1703 411496255 411494984 0.000000e+00 1731.0
7 TraesCS7A01G319400 chr7B 97.081 651 15 3 3260 3908 411493296 411492648 0.000000e+00 1094.0
8 TraesCS7A01G319400 chr7B 95.873 315 8 2 1 311 411496644 411496331 4.510000e-139 505.0
9 TraesCS7A01G319400 chr4B 92.045 88 7 0 315 402 369047716 369047629 1.470000e-24 124.0
10 TraesCS7A01G319400 chr1D 80.952 126 22 2 1001 1125 140519698 140519822 8.940000e-17 99.0
11 TraesCS7A01G319400 chr1D 90.909 44 4 0 1891 1934 247861249 247861206 4.220000e-05 60.2
12 TraesCS7A01G319400 chr3D 82.828 99 17 0 1027 1125 100853602 100853700 5.380000e-14 89.8
13 TraesCS7A01G319400 chr3B 82.828 99 17 0 1027 1125 151444567 151444665 5.380000e-14 89.8
14 TraesCS7A01G319400 chr3A 78.169 142 29 2 1027 1167 555042244 555042104 5.380000e-14 89.8
15 TraesCS7A01G319400 chr1B 77.397 146 33 0 1001 1146 198153437 198153292 1.930000e-13 87.9
16 TraesCS7A01G319400 chr1A 77.397 146 33 0 1001 1146 150456400 150456255 1.930000e-13 87.9
17 TraesCS7A01G319400 chr4D 87.500 72 9 0 325 396 346380704 346380775 2.500000e-12 84.2
18 TraesCS7A01G319400 chr6A 86.486 74 7 3 327 399 228536987 228537058 1.160000e-10 78.7
19 TraesCS7A01G319400 chr6B 92.000 50 2 2 354 402 1204487 1204439 7.010000e-08 69.4


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 TraesCS7A01G319400 chr7A 459625461 459629368 3907 True 7217.00 7217 100.00000 1 3908 1 chr7A.!!$R1 3907
1 TraesCS7A01G319400 chr7D 401835956 401839676 3720 True 1464.50 3271 94.86575 1 3908 4 chr7D.!!$R1 3907
2 TraesCS7A01G319400 chr7B 411492648 411496644 3996 True 1305.75 1893 95.17500 1 3908 4 chr7B.!!$R1 3907

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
354 359 0.396556 AGCCGTTTTGAACTGGGGTT 60.397 50.0 0.00 0.00 38.52 4.11 F
475 484 0.459489 TTGTTGTTCTTGTGCCCAGC 59.541 50.0 0.00 0.00 0.00 4.85 F
539 571 0.806241 TTGACGGTCACGATCGATGA 59.194 50.0 24.34 18.01 44.60 2.92 F
1776 1839 1.011968 CAACGCGATTTGAGACGGGA 61.012 55.0 15.93 0.00 43.19 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1728 1790 0.036732 CACTACCAGGGCAGCTTTGA 59.963 55.0 0.0 0.0 0.0 2.69 R
1910 1973 0.042131 TGTACTCCCTCCGTCCCAAT 59.958 55.0 0.0 0.0 0.0 3.16 R
1911 1974 0.178926 TTGTACTCCCTCCGTCCCAA 60.179 55.0 0.0 0.0 0.0 4.12 R
3418 3779 1.209621 TAGGCACATTCACCTACCCC 58.790 55.0 0.0 0.0 37.5 4.95 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
262 267 8.017373 TGATCTCTTTACAATGCTTTTTCTTCG 58.983 33.333 0.00 0.00 0.00 3.79
277 282 8.504815 GCTTTTTCTTCGTCTATTTCCTTAGTT 58.495 33.333 0.00 0.00 0.00 2.24
293 298 6.827727 TCCTTAGTTCATCATACTTAAGCCC 58.172 40.000 1.29 0.00 0.00 5.19
299 304 5.023533 TCATCATACTTAAGCCCACAGAC 57.976 43.478 1.29 0.00 0.00 3.51
311 316 4.332828 AGCCCACAGACCAAATTTACTAC 58.667 43.478 0.00 0.00 0.00 2.73
312 317 4.042934 AGCCCACAGACCAAATTTACTACT 59.957 41.667 0.00 0.00 0.00 2.57
313 318 4.765339 GCCCACAGACCAAATTTACTACTT 59.235 41.667 0.00 0.00 0.00 2.24
314 319 5.106277 GCCCACAGACCAAATTTACTACTTC 60.106 44.000 0.00 0.00 0.00 3.01
315 320 5.414765 CCCACAGACCAAATTTACTACTTCC 59.585 44.000 0.00 0.00 0.00 3.46
316 321 6.238648 CCACAGACCAAATTTACTACTTCCT 58.761 40.000 0.00 0.00 0.00 3.36
317 322 6.371825 CCACAGACCAAATTTACTACTTCCTC 59.628 42.308 0.00 0.00 0.00 3.71
318 323 6.371825 CACAGACCAAATTTACTACTTCCTCC 59.628 42.308 0.00 0.00 0.00 4.30
319 324 5.581085 CAGACCAAATTTACTACTTCCTCCG 59.419 44.000 0.00 0.00 0.00 4.63
320 325 5.482878 AGACCAAATTTACTACTTCCTCCGA 59.517 40.000 0.00 0.00 0.00 4.55
321 326 6.156429 AGACCAAATTTACTACTTCCTCCGAT 59.844 38.462 0.00 0.00 0.00 4.18
322 327 6.346896 ACCAAATTTACTACTTCCTCCGATC 58.653 40.000 0.00 0.00 0.00 3.69
323 328 5.758784 CCAAATTTACTACTTCCTCCGATCC 59.241 44.000 0.00 0.00 0.00 3.36
324 329 6.346096 CAAATTTACTACTTCCTCCGATCCA 58.654 40.000 0.00 0.00 0.00 3.41
325 330 6.555463 AATTTACTACTTCCTCCGATCCAA 57.445 37.500 0.00 0.00 0.00 3.53
326 331 6.555463 ATTTACTACTTCCTCCGATCCAAA 57.445 37.500 0.00 0.00 0.00 3.28
327 332 6.363167 TTTACTACTTCCTCCGATCCAAAA 57.637 37.500 0.00 0.00 0.00 2.44
328 333 6.555463 TTACTACTTCCTCCGATCCAAAAT 57.445 37.500 0.00 0.00 0.00 1.82
329 334 7.664552 TTACTACTTCCTCCGATCCAAAATA 57.335 36.000 0.00 0.00 0.00 1.40
330 335 6.555463 ACTACTTCCTCCGATCCAAAATAA 57.445 37.500 0.00 0.00 0.00 1.40
331 336 6.583562 ACTACTTCCTCCGATCCAAAATAAG 58.416 40.000 0.00 0.00 0.00 1.73
332 337 5.437191 ACTTCCTCCGATCCAAAATAAGT 57.563 39.130 0.00 0.00 0.00 2.24
333 338 5.186198 ACTTCCTCCGATCCAAAATAAGTG 58.814 41.667 0.00 0.00 0.00 3.16
334 339 4.837093 TCCTCCGATCCAAAATAAGTGT 57.163 40.909 0.00 0.00 0.00 3.55
335 340 5.943349 TCCTCCGATCCAAAATAAGTGTA 57.057 39.130 0.00 0.00 0.00 2.90
336 341 5.914033 TCCTCCGATCCAAAATAAGTGTAG 58.086 41.667 0.00 0.00 0.00 2.74
337 342 4.511826 CCTCCGATCCAAAATAAGTGTAGC 59.488 45.833 0.00 0.00 0.00 3.58
338 343 4.448210 TCCGATCCAAAATAAGTGTAGCC 58.552 43.478 0.00 0.00 0.00 3.93
339 344 3.247648 CCGATCCAAAATAAGTGTAGCCG 59.752 47.826 0.00 0.00 0.00 5.52
340 345 3.869246 CGATCCAAAATAAGTGTAGCCGT 59.131 43.478 0.00 0.00 0.00 5.68
341 346 4.331717 CGATCCAAAATAAGTGTAGCCGTT 59.668 41.667 0.00 0.00 0.00 4.44
342 347 5.163794 CGATCCAAAATAAGTGTAGCCGTTT 60.164 40.000 0.00 0.00 0.00 3.60
343 348 6.584185 ATCCAAAATAAGTGTAGCCGTTTT 57.416 33.333 0.00 0.00 0.00 2.43
344 349 5.764131 TCCAAAATAAGTGTAGCCGTTTTG 58.236 37.500 0.00 0.00 36.70 2.44
345 350 5.531659 TCCAAAATAAGTGTAGCCGTTTTGA 59.468 36.000 9.26 0.00 38.26 2.69
346 351 6.039493 TCCAAAATAAGTGTAGCCGTTTTGAA 59.961 34.615 9.26 0.00 38.26 2.69
347 352 6.143278 CCAAAATAAGTGTAGCCGTTTTGAAC 59.857 38.462 9.26 0.00 38.26 3.18
348 353 6.628919 AAATAAGTGTAGCCGTTTTGAACT 57.371 33.333 0.00 0.00 0.00 3.01
349 354 3.963383 AAGTGTAGCCGTTTTGAACTG 57.037 42.857 0.00 0.00 0.00 3.16
350 355 2.218603 AGTGTAGCCGTTTTGAACTGG 58.781 47.619 0.00 0.00 0.00 4.00
351 356 1.265905 GTGTAGCCGTTTTGAACTGGG 59.734 52.381 0.00 0.00 0.00 4.45
352 357 0.879090 GTAGCCGTTTTGAACTGGGG 59.121 55.000 0.00 0.00 0.00 4.96
353 358 0.475044 TAGCCGTTTTGAACTGGGGT 59.525 50.000 0.00 0.00 0.00 4.95
354 359 0.396556 AGCCGTTTTGAACTGGGGTT 60.397 50.000 0.00 0.00 38.52 4.11
355 360 1.133730 AGCCGTTTTGAACTGGGGTTA 60.134 47.619 0.00 0.00 35.58 2.85
356 361 1.268625 GCCGTTTTGAACTGGGGTTAG 59.731 52.381 0.00 0.00 35.58 2.34
357 362 2.578786 CCGTTTTGAACTGGGGTTAGT 58.421 47.619 0.00 0.00 35.58 2.24
358 363 2.953648 CCGTTTTGAACTGGGGTTAGTT 59.046 45.455 0.00 0.00 43.24 2.24
368 373 4.383173 ACTGGGGTTAGTTCAAAACTACG 58.617 43.478 0.00 0.00 43.30 3.51
369 374 4.101430 ACTGGGGTTAGTTCAAAACTACGA 59.899 41.667 0.00 0.00 43.30 3.43
370 375 4.379652 TGGGGTTAGTTCAAAACTACGAC 58.620 43.478 0.00 0.00 43.30 4.34
371 376 4.141756 TGGGGTTAGTTCAAAACTACGACA 60.142 41.667 0.00 0.00 43.30 4.35
372 377 4.212004 GGGGTTAGTTCAAAACTACGACAC 59.788 45.833 0.00 0.00 43.30 3.67
373 378 5.052481 GGGTTAGTTCAAAACTACGACACT 58.948 41.667 0.00 0.00 43.30 3.55
374 379 5.525012 GGGTTAGTTCAAAACTACGACACTT 59.475 40.000 0.00 0.00 43.30 3.16
375 380 6.701400 GGGTTAGTTCAAAACTACGACACTTA 59.299 38.462 0.00 0.00 43.30 2.24
376 381 7.386025 GGGTTAGTTCAAAACTACGACACTTAT 59.614 37.037 0.00 0.00 43.30 1.73
377 382 8.768019 GGTTAGTTCAAAACTACGACACTTATT 58.232 33.333 0.00 0.00 43.30 1.40
378 383 9.577003 GTTAGTTCAAAACTACGACACTTATTG 57.423 33.333 0.00 0.00 43.30 1.90
379 384 7.781548 AGTTCAAAACTACGACACTTATTGT 57.218 32.000 0.00 0.00 40.69 2.71
380 385 7.627340 AGTTCAAAACTACGACACTTATTGTG 58.373 34.615 0.00 0.00 45.36 3.33
381 386 7.254658 AGTTCAAAACTACGACACTTATTGTGG 60.255 37.037 0.00 0.00 44.71 4.17
390 395 3.543680 CACTTATTGTGGATCGGAGGT 57.456 47.619 0.00 0.00 42.68 3.85
391 396 4.665833 CACTTATTGTGGATCGGAGGTA 57.334 45.455 0.00 0.00 42.68 3.08
395 400 5.301298 ACTTATTGTGGATCGGAGGTAGTAC 59.699 44.000 0.00 0.00 0.00 2.73
397 402 4.508551 TTGTGGATCGGAGGTAGTACTA 57.491 45.455 0.00 0.00 0.00 1.82
398 403 4.719026 TGTGGATCGGAGGTAGTACTAT 57.281 45.455 5.75 0.00 0.00 2.12
406 411 6.699575 TCGGAGGTAGTACTATTTAACACC 57.300 41.667 5.75 3.16 0.00 4.16
409 414 6.096001 CGGAGGTAGTACTATTTAACACCTGT 59.904 42.308 14.56 0.00 35.11 4.00
411 416 8.316946 GGAGGTAGTACTATTTAACACCTGTTT 58.683 37.037 14.56 0.00 39.31 2.83
441 446 8.694394 GTTGTTTTGATCTGAAATTTCACTAGC 58.306 33.333 16.91 11.16 32.90 3.42
443 448 8.077991 TGTTTTGATCTGAAATTTCACTAGCTG 58.922 33.333 16.91 6.65 32.90 4.24
449 454 2.887151 AATTTCACTAGCTGGTGCCT 57.113 45.000 24.24 8.98 40.80 4.75
450 455 4.261801 GAAATTTCACTAGCTGGTGCCTA 58.738 43.478 24.24 12.33 40.80 3.93
464 473 4.688021 TGGTGCCTATTTTGTTGTTGTTC 58.312 39.130 0.00 0.00 0.00 3.18
469 478 5.809562 TGCCTATTTTGTTGTTGTTCTTGTG 59.190 36.000 0.00 0.00 0.00 3.33
470 479 5.276820 GCCTATTTTGTTGTTGTTCTTGTGC 60.277 40.000 0.00 0.00 0.00 4.57
471 480 5.234116 CCTATTTTGTTGTTGTTCTTGTGCC 59.766 40.000 0.00 0.00 0.00 5.01
472 481 2.663826 TTGTTGTTGTTCTTGTGCCC 57.336 45.000 0.00 0.00 0.00 5.36
473 482 1.550327 TGTTGTTGTTCTTGTGCCCA 58.450 45.000 0.00 0.00 0.00 5.36
474 483 1.476085 TGTTGTTGTTCTTGTGCCCAG 59.524 47.619 0.00 0.00 0.00 4.45
475 484 0.459489 TTGTTGTTCTTGTGCCCAGC 59.541 50.000 0.00 0.00 0.00 4.85
476 485 1.363807 GTTGTTCTTGTGCCCAGCC 59.636 57.895 0.00 0.00 0.00 4.85
503 527 5.745312 TGACTTCAGAAAGCTCATCCTAA 57.255 39.130 0.00 0.00 35.81 2.69
539 571 0.806241 TTGACGGTCACGATCGATGA 59.194 50.000 24.34 18.01 44.60 2.92
572 604 1.405933 CCGCCACATGTCTCATCTTCA 60.406 52.381 0.00 0.00 0.00 3.02
573 605 2.349590 CGCCACATGTCTCATCTTCAA 58.650 47.619 0.00 0.00 0.00 2.69
598 647 7.398024 AGAACTCAATAGAAGCCAAGTGTAAT 58.602 34.615 0.00 0.00 0.00 1.89
599 648 8.540388 AGAACTCAATAGAAGCCAAGTGTAATA 58.460 33.333 0.00 0.00 0.00 0.98
600 649 9.162764 GAACTCAATAGAAGCCAAGTGTAATAA 57.837 33.333 0.00 0.00 0.00 1.40
601 650 9.515226 AACTCAATAGAAGCCAAGTGTAATAAA 57.485 29.630 0.00 0.00 0.00 1.40
602 651 9.167311 ACTCAATAGAAGCCAAGTGTAATAAAG 57.833 33.333 0.00 0.00 0.00 1.85
603 652 8.506168 TCAATAGAAGCCAAGTGTAATAAAGG 57.494 34.615 0.00 0.00 0.00 3.11
604 653 7.556275 TCAATAGAAGCCAAGTGTAATAAAGGG 59.444 37.037 0.00 0.00 0.00 3.95
605 654 5.256806 AGAAGCCAAGTGTAATAAAGGGT 57.743 39.130 0.00 0.00 0.00 4.34
608 657 3.332485 AGCCAAGTGTAATAAAGGGTGGA 59.668 43.478 0.00 0.00 0.00 4.02
703 753 1.937546 GACCGCCCAAATGCCTCAAG 61.938 60.000 0.00 0.00 0.00 3.02
820 870 8.246430 TCCCACTATAAAAACGACATCTCTAT 57.754 34.615 0.00 0.00 0.00 1.98
838 888 5.422331 TCTCTATCCTCACCTGTGGTTTAAG 59.578 44.000 0.00 0.00 31.02 1.85
937 987 4.847198 AGGTTGTGTGCAATCTATCATCA 58.153 39.130 0.00 0.00 43.69 3.07
949 999 6.308524 GCAATCTATCATCATCTTCGTCTCTG 59.691 42.308 0.00 0.00 0.00 3.35
950 1000 7.369607 CAATCTATCATCATCTTCGTCTCTGT 58.630 38.462 0.00 0.00 0.00 3.41
951 1001 6.552859 TCTATCATCATCTTCGTCTCTGTC 57.447 41.667 0.00 0.00 0.00 3.51
953 1003 4.629251 TCATCATCTTCGTCTCTGTCTG 57.371 45.455 0.00 0.00 0.00 3.51
955 1005 4.095632 TCATCATCTTCGTCTCTGTCTGTC 59.904 45.833 0.00 0.00 0.00 3.51
956 1006 3.680490 TCATCTTCGTCTCTGTCTGTCT 58.320 45.455 0.00 0.00 0.00 3.41
957 1007 3.438434 TCATCTTCGTCTCTGTCTGTCTG 59.562 47.826 0.00 0.00 0.00 3.51
958 1008 2.852449 TCTTCGTCTCTGTCTGTCTGT 58.148 47.619 0.00 0.00 0.00 3.41
959 1009 4.004196 TCTTCGTCTCTGTCTGTCTGTA 57.996 45.455 0.00 0.00 0.00 2.74
961 1011 4.632251 TCTTCGTCTCTGTCTGTCTGTATC 59.368 45.833 0.00 0.00 0.00 2.24
962 1012 3.271729 TCGTCTCTGTCTGTCTGTATCC 58.728 50.000 0.00 0.00 0.00 2.59
963 1013 2.356382 CGTCTCTGTCTGTCTGTATCCC 59.644 54.545 0.00 0.00 0.00 3.85
964 1014 3.626930 GTCTCTGTCTGTCTGTATCCCT 58.373 50.000 0.00 0.00 0.00 4.20
965 1015 4.020543 GTCTCTGTCTGTCTGTATCCCTT 58.979 47.826 0.00 0.00 0.00 3.95
967 1017 5.066764 GTCTCTGTCTGTCTGTATCCCTTAC 59.933 48.000 0.00 0.00 0.00 2.34
969 1019 4.023980 CTGTCTGTCTGTATCCCTTACCA 58.976 47.826 0.00 0.00 0.00 3.25
975 1025 4.975147 TGTCTGTATCCCTTACCAATCCAT 59.025 41.667 0.00 0.00 0.00 3.41
983 1033 3.490348 CCTTACCAATCCATCCATCCAC 58.510 50.000 0.00 0.00 0.00 4.02
1041 1094 4.514577 CGGCGCATCGAGAACCCT 62.515 66.667 10.83 0.00 0.00 4.34
1107 1160 1.992277 GAAGGCCAGGGAGCTCTCA 60.992 63.158 17.82 0.00 0.00 3.27
1146 1199 5.106357 CGACATCGGTATCATCATCTTCTCT 60.106 44.000 0.00 0.00 35.37 3.10
1215 1268 2.467826 GCATGCACTTCCTCTCGGC 61.468 63.158 14.21 0.00 0.00 5.54
1376 1438 7.099764 CAGAGAGTGGTAATTAAGCTTCTTCA 58.900 38.462 0.00 0.00 0.00 3.02
1533 1595 6.239036 GGTGCTGAAACAAGAAATAGACCTTT 60.239 38.462 0.00 0.00 0.00 3.11
1686 1748 8.397906 GCATGTCTAGTTTATTTCATAAGCACA 58.602 33.333 0.00 0.00 0.00 4.57
1708 1770 9.620660 GCACAAATATAGTTTATTATTTCCCCG 57.379 33.333 0.00 0.00 0.00 5.73
1709 1771 9.620660 CACAAATATAGTTTATTATTTCCCCGC 57.379 33.333 0.00 0.00 0.00 6.13
1710 1772 9.357161 ACAAATATAGTTTATTATTTCCCCGCA 57.643 29.630 0.00 0.00 0.00 5.69
1743 1805 2.834638 ATATTCAAAGCTGCCCTGGT 57.165 45.000 0.00 0.00 0.00 4.00
1772 1835 1.798813 ACCTTCAACGCGATTTGAGAC 59.201 47.619 15.93 0.00 36.84 3.36
1776 1839 1.011968 CAACGCGATTTGAGACGGGA 61.012 55.000 15.93 0.00 43.19 5.14
1823 1886 6.403878 TGAAAGGGCTAATCTAGTGTGTTAC 58.596 40.000 0.00 0.00 0.00 2.50
1879 1942 9.880157 TTACTCCCAAAATAACTGACTATGTAC 57.120 33.333 0.00 0.00 0.00 2.90
1880 1943 8.147244 ACTCCCAAAATAACTGACTATGTACT 57.853 34.615 0.00 0.00 0.00 2.73
1881 1944 9.263446 ACTCCCAAAATAACTGACTATGTACTA 57.737 33.333 0.00 0.00 0.00 1.82
1883 1946 9.880157 TCCCAAAATAACTGACTATGTACTAAC 57.120 33.333 0.00 0.00 0.00 2.34
1884 1947 9.886132 CCCAAAATAACTGACTATGTACTAACT 57.114 33.333 0.00 0.00 0.00 2.24
1904 1967 9.347240 ACTAACTAGTACTACAAAGTTGAGTCA 57.653 33.333 15.87 0.00 37.15 3.41
1916 1979 8.877864 ACAAAGTTGAGTCATTTATATTGGGA 57.122 30.769 0.00 0.00 0.00 4.37
1917 1980 8.739972 ACAAAGTTGAGTCATTTATATTGGGAC 58.260 33.333 0.00 0.00 0.00 4.46
1918 1981 7.553881 AAGTTGAGTCATTTATATTGGGACG 57.446 36.000 0.00 0.00 33.84 4.79
1919 1982 6.055588 AGTTGAGTCATTTATATTGGGACGG 58.944 40.000 0.00 0.00 33.84 4.79
1920 1983 5.880164 TGAGTCATTTATATTGGGACGGA 57.120 39.130 0.00 0.00 33.84 4.69
1921 1984 5.853936 TGAGTCATTTATATTGGGACGGAG 58.146 41.667 0.00 0.00 33.84 4.63
1922 1985 5.221641 TGAGTCATTTATATTGGGACGGAGG 60.222 44.000 0.00 0.00 33.84 4.30
1923 1986 4.041691 AGTCATTTATATTGGGACGGAGGG 59.958 45.833 0.00 0.00 33.84 4.30
1924 1987 4.041198 GTCATTTATATTGGGACGGAGGGA 59.959 45.833 0.00 0.00 0.00 4.20
1925 1988 4.286032 TCATTTATATTGGGACGGAGGGAG 59.714 45.833 0.00 0.00 0.00 4.30
1926 1989 3.339713 TTATATTGGGACGGAGGGAGT 57.660 47.619 0.00 0.00 0.00 3.85
1927 1990 4.474303 TTATATTGGGACGGAGGGAGTA 57.526 45.455 0.00 0.00 0.00 2.59
1928 1991 2.077687 TATTGGGACGGAGGGAGTAC 57.922 55.000 0.00 0.00 0.00 2.73
1929 1992 0.042131 ATTGGGACGGAGGGAGTACA 59.958 55.000 0.00 0.00 0.00 2.90
1930 1993 0.178926 TTGGGACGGAGGGAGTACAA 60.179 55.000 0.00 0.00 0.00 2.41
1931 1994 0.178926 TGGGACGGAGGGAGTACAAA 60.179 55.000 0.00 0.00 0.00 2.83
1932 1995 0.978907 GGGACGGAGGGAGTACAAAA 59.021 55.000 0.00 0.00 0.00 2.44
1933 1996 1.558294 GGGACGGAGGGAGTACAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
1934 1997 2.026542 GGGACGGAGGGAGTACAAAATT 60.027 50.000 0.00 0.00 0.00 1.82
1935 1998 3.198417 GGGACGGAGGGAGTACAAAATTA 59.802 47.826 0.00 0.00 0.00 1.40
1936 1999 4.439968 GGACGGAGGGAGTACAAAATTAG 58.560 47.826 0.00 0.00 0.00 1.73
1937 2000 4.081254 GGACGGAGGGAGTACAAAATTAGT 60.081 45.833 0.00 0.00 0.00 2.24
1938 2001 5.127682 GGACGGAGGGAGTACAAAATTAGTA 59.872 44.000 0.00 0.00 0.00 1.82
1939 2002 6.183360 GGACGGAGGGAGTACAAAATTAGTAT 60.183 42.308 0.00 0.00 0.00 2.12
1940 2003 7.014615 GGACGGAGGGAGTACAAAATTAGTATA 59.985 40.741 0.00 0.00 0.00 1.47
1941 2004 7.949434 ACGGAGGGAGTACAAAATTAGTATAG 58.051 38.462 0.00 0.00 0.00 1.31
1942 2005 7.781693 ACGGAGGGAGTACAAAATTAGTATAGA 59.218 37.037 0.00 0.00 0.00 1.98
1943 2006 8.298140 CGGAGGGAGTACAAAATTAGTATAGAG 58.702 40.741 0.00 0.00 0.00 2.43
1944 2007 9.145442 GGAGGGAGTACAAAATTAGTATAGAGT 57.855 37.037 0.00 0.00 0.00 3.24
1991 2054 9.519191 AGAAATAAATTTGATTCTTTTTGGGGG 57.481 29.630 12.13 0.00 0.00 5.40
1992 2055 9.295825 GAAATAAATTTGATTCTTTTTGGGGGT 57.704 29.630 0.00 0.00 0.00 4.95
1996 2059 1.275666 GATTCTTTTTGGGGGTGGGG 58.724 55.000 0.00 0.00 0.00 4.96
2080 2437 9.039870 CCTGAAATATTTTGTTTACTTGCACAA 57.960 29.630 1.43 0.00 0.00 3.33
2108 2465 5.132897 TCTCAAAGCAACACAAACTTGTT 57.867 34.783 0.00 0.00 39.91 2.83
2211 2570 1.946768 TGAAAGGAAAAGGCTGTGACG 59.053 47.619 0.00 0.00 0.00 4.35
2250 2609 7.934665 TCTTCTAGCTATACTTCGATGAACTCT 59.065 37.037 5.16 0.00 0.00 3.24
2292 2651 3.088532 TGAAAACCATGGCAGGTACATC 58.911 45.455 13.04 0.00 42.25 3.06
2361 2720 2.697751 CCTGGAGAGGTACTTGGAGATG 59.302 54.545 0.00 0.00 41.55 2.90
2642 3001 5.321927 GAAATTCTCCAGGAAAAGGTACCA 58.678 41.667 15.94 0.00 37.49 3.25
2680 3039 4.460263 ACACATGGAACTGCAAACTAGAA 58.540 39.130 0.00 0.00 0.00 2.10
3013 3372 8.534954 TGCTCTGGTACTACTCTGTAATATTT 57.465 34.615 0.00 0.00 0.00 1.40
3014 3373 9.636789 TGCTCTGGTACTACTCTGTAATATTTA 57.363 33.333 0.00 0.00 0.00 1.40
3068 3427 6.070938 CCTTAAGGCCTTAAGTAGTGTACTGT 60.071 42.308 42.43 14.55 46.42 3.55
3257 3616 6.964807 TGCATGATATTAGCTTGGTTCATT 57.035 33.333 0.00 0.00 0.00 2.57
3278 3637 6.874664 TCATTAAGCAAATGTGACATGCAAAT 59.125 30.769 13.00 9.15 44.58 2.32
3544 3906 8.707449 ACATAGCATCAAAATAATGACCCAAAT 58.293 29.630 0.00 0.00 30.82 2.32
3644 4007 0.191064 AGACCAGTCTCTGAACCCCA 59.809 55.000 0.00 0.00 34.17 4.96
3645 4008 0.610687 GACCAGTCTCTGAACCCCAG 59.389 60.000 0.00 0.00 44.27 4.45
3766 4129 9.491675 TTTTTACGGTCATTGAATACTTACAGA 57.508 29.630 0.00 0.00 0.00 3.41
3814 4177 5.959618 AGTACTGGCATTTAGTTTTCCAC 57.040 39.130 0.00 0.00 0.00 4.02
3845 4208 7.148639 GCAAACATGAACATCGTAGAGAAACTA 60.149 37.037 0.00 0.00 43.63 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
211 212 9.486497 CAGATAAGTGCTAGATGTATTGTCATT 57.514 33.333 0.00 0.00 0.00 2.57
277 282 4.141711 GGTCTGTGGGCTTAAGTATGATGA 60.142 45.833 4.02 0.00 0.00 2.92
288 293 3.844640 AGTAAATTTGGTCTGTGGGCTT 58.155 40.909 0.00 0.00 0.00 4.35
289 294 3.525800 AGTAAATTTGGTCTGTGGGCT 57.474 42.857 0.00 0.00 0.00 5.19
293 298 6.371825 GGAGGAAGTAGTAAATTTGGTCTGTG 59.628 42.308 0.00 0.00 0.00 3.66
299 304 5.758784 GGATCGGAGGAAGTAGTAAATTTGG 59.241 44.000 0.00 0.00 0.00 3.28
311 316 5.186198 ACACTTATTTTGGATCGGAGGAAG 58.814 41.667 0.00 0.00 0.00 3.46
312 317 5.174037 ACACTTATTTTGGATCGGAGGAA 57.826 39.130 0.00 0.00 0.00 3.36
313 318 4.837093 ACACTTATTTTGGATCGGAGGA 57.163 40.909 0.00 0.00 0.00 3.71
314 319 4.511826 GCTACACTTATTTTGGATCGGAGG 59.488 45.833 0.00 0.00 0.00 4.30
315 320 4.511826 GGCTACACTTATTTTGGATCGGAG 59.488 45.833 0.00 0.00 0.00 4.63
316 321 4.448210 GGCTACACTTATTTTGGATCGGA 58.552 43.478 0.00 0.00 0.00 4.55
317 322 3.247648 CGGCTACACTTATTTTGGATCGG 59.752 47.826 0.00 0.00 0.00 4.18
318 323 3.869246 ACGGCTACACTTATTTTGGATCG 59.131 43.478 0.00 0.00 0.00 3.69
319 324 5.813080 AACGGCTACACTTATTTTGGATC 57.187 39.130 0.00 0.00 0.00 3.36
320 325 6.207810 TCAAAACGGCTACACTTATTTTGGAT 59.792 34.615 7.24 0.00 37.53 3.41
321 326 5.531659 TCAAAACGGCTACACTTATTTTGGA 59.468 36.000 7.24 0.00 37.53 3.53
322 327 5.764131 TCAAAACGGCTACACTTATTTTGG 58.236 37.500 7.24 0.00 37.53 3.28
323 328 6.915843 AGTTCAAAACGGCTACACTTATTTTG 59.084 34.615 0.00 0.00 38.03 2.44
324 329 6.915843 CAGTTCAAAACGGCTACACTTATTTT 59.084 34.615 0.00 0.00 36.23 1.82
325 330 6.435428 CAGTTCAAAACGGCTACACTTATTT 58.565 36.000 0.00 0.00 36.23 1.40
326 331 5.048991 CCAGTTCAAAACGGCTACACTTATT 60.049 40.000 0.00 0.00 36.23 1.40
327 332 4.454504 CCAGTTCAAAACGGCTACACTTAT 59.545 41.667 0.00 0.00 36.23 1.73
328 333 3.810941 CCAGTTCAAAACGGCTACACTTA 59.189 43.478 0.00 0.00 36.23 2.24
329 334 2.616842 CCAGTTCAAAACGGCTACACTT 59.383 45.455 0.00 0.00 36.23 3.16
330 335 2.218603 CCAGTTCAAAACGGCTACACT 58.781 47.619 0.00 0.00 36.23 3.55
331 336 1.265905 CCCAGTTCAAAACGGCTACAC 59.734 52.381 0.00 0.00 36.23 2.90
332 337 1.600023 CCCAGTTCAAAACGGCTACA 58.400 50.000 0.00 0.00 36.23 2.74
333 338 0.879090 CCCCAGTTCAAAACGGCTAC 59.121 55.000 0.00 0.00 36.23 3.58
334 339 0.475044 ACCCCAGTTCAAAACGGCTA 59.525 50.000 0.00 0.00 36.23 3.93
335 340 0.396556 AACCCCAGTTCAAAACGGCT 60.397 50.000 0.00 0.00 36.23 5.52
336 341 1.268625 CTAACCCCAGTTCAAAACGGC 59.731 52.381 0.00 0.00 37.42 5.68
337 342 2.578786 ACTAACCCCAGTTCAAAACGG 58.421 47.619 0.00 0.00 37.42 4.44
345 350 4.818005 CGTAGTTTTGAACTAACCCCAGTT 59.182 41.667 2.37 0.00 44.95 3.16
346 351 4.101430 TCGTAGTTTTGAACTAACCCCAGT 59.899 41.667 2.37 0.00 44.95 4.00
347 352 4.450080 GTCGTAGTTTTGAACTAACCCCAG 59.550 45.833 2.37 0.00 44.95 4.45
348 353 4.141756 TGTCGTAGTTTTGAACTAACCCCA 60.142 41.667 2.37 0.00 44.95 4.96
349 354 4.212004 GTGTCGTAGTTTTGAACTAACCCC 59.788 45.833 2.37 0.00 44.95 4.95
350 355 5.052481 AGTGTCGTAGTTTTGAACTAACCC 58.948 41.667 2.37 0.00 44.95 4.11
351 356 6.594284 AAGTGTCGTAGTTTTGAACTAACC 57.406 37.500 2.37 0.00 44.95 2.85
352 357 9.577003 CAATAAGTGTCGTAGTTTTGAACTAAC 57.423 33.333 2.37 0.26 44.95 2.34
353 358 9.316730 ACAATAAGTGTCGTAGTTTTGAACTAA 57.683 29.630 2.37 0.00 40.04 2.24
354 359 8.757789 CACAATAAGTGTCGTAGTTTTGAACTA 58.242 33.333 0.00 0.00 43.40 2.24
355 360 7.627340 CACAATAAGTGTCGTAGTTTTGAACT 58.373 34.615 0.00 0.00 43.40 3.01
356 361 7.816490 CACAATAAGTGTCGTAGTTTTGAAC 57.184 36.000 0.00 0.00 43.40 3.18
371 376 4.287552 ACTACCTCCGATCCACAATAAGT 58.712 43.478 0.00 0.00 0.00 2.24
372 377 4.939052 ACTACCTCCGATCCACAATAAG 57.061 45.455 0.00 0.00 0.00 1.73
373 378 5.452255 AGTACTACCTCCGATCCACAATAA 58.548 41.667 0.00 0.00 0.00 1.40
374 379 5.057843 AGTACTACCTCCGATCCACAATA 57.942 43.478 0.00 0.00 0.00 1.90
375 380 3.912248 AGTACTACCTCCGATCCACAAT 58.088 45.455 0.00 0.00 0.00 2.71
376 381 3.377253 AGTACTACCTCCGATCCACAA 57.623 47.619 0.00 0.00 0.00 3.33
377 382 4.719026 ATAGTACTACCTCCGATCCACA 57.281 45.455 4.31 0.00 0.00 4.17
378 383 7.013655 TGTTAAATAGTACTACCTCCGATCCAC 59.986 40.741 4.31 0.00 0.00 4.02
379 384 7.013655 GTGTTAAATAGTACTACCTCCGATCCA 59.986 40.741 4.31 0.00 0.00 3.41
380 385 7.366513 GTGTTAAATAGTACTACCTCCGATCC 58.633 42.308 4.31 0.00 0.00 3.36
381 386 7.230309 AGGTGTTAAATAGTACTACCTCCGATC 59.770 40.741 4.31 0.00 31.83 3.69
382 387 7.014038 CAGGTGTTAAATAGTACTACCTCCGAT 59.986 40.741 4.31 0.00 35.02 4.18
383 388 6.319658 CAGGTGTTAAATAGTACTACCTCCGA 59.680 42.308 4.31 0.00 35.02 4.55
384 389 6.096001 ACAGGTGTTAAATAGTACTACCTCCG 59.904 42.308 4.31 0.19 35.02 4.63
385 390 7.415592 ACAGGTGTTAAATAGTACTACCTCC 57.584 40.000 4.31 1.02 35.02 4.30
386 391 9.716531 AAAACAGGTGTTAAATAGTACTACCTC 57.283 33.333 4.31 0.00 37.25 3.85
414 419 9.734620 CTAGTGAAATTTCAGATCAAAACAACA 57.265 29.630 21.05 0.00 37.98 3.33
415 420 8.694394 GCTAGTGAAATTTCAGATCAAAACAAC 58.306 33.333 21.05 5.16 37.98 3.32
416 421 8.632679 AGCTAGTGAAATTTCAGATCAAAACAA 58.367 29.630 21.05 0.00 37.98 2.83
417 422 8.077991 CAGCTAGTGAAATTTCAGATCAAAACA 58.922 33.333 21.05 0.00 37.98 2.83
418 423 7.540055 CCAGCTAGTGAAATTTCAGATCAAAAC 59.460 37.037 21.05 7.05 37.98 2.43
423 428 5.448360 GCACCAGCTAGTGAAATTTCAGATC 60.448 44.000 21.05 9.87 40.34 2.75
424 429 4.397417 GCACCAGCTAGTGAAATTTCAGAT 59.603 41.667 21.05 14.75 40.34 2.90
426 431 3.119708 GGCACCAGCTAGTGAAATTTCAG 60.120 47.826 21.05 10.91 40.34 3.02
441 446 4.320608 ACAACAACAAAATAGGCACCAG 57.679 40.909 0.00 0.00 0.00 4.00
443 448 4.944048 AGAACAACAACAAAATAGGCACC 58.056 39.130 0.00 0.00 0.00 5.01
449 454 5.112686 GGGCACAAGAACAACAACAAAATA 58.887 37.500 0.00 0.00 0.00 1.40
450 455 3.938334 GGGCACAAGAACAACAACAAAAT 59.062 39.130 0.00 0.00 0.00 1.82
464 473 2.203538 AACCTGGCTGGGCACAAG 60.204 61.111 15.36 0.00 41.11 3.16
469 478 1.973812 GAAGTCAACCTGGCTGGGC 60.974 63.158 15.36 2.37 41.11 5.36
470 479 0.607489 CTGAAGTCAACCTGGCTGGG 60.607 60.000 15.36 5.47 41.11 4.45
471 480 0.397941 TCTGAAGTCAACCTGGCTGG 59.602 55.000 9.11 9.11 42.93 4.85
472 481 2.260844 TTCTGAAGTCAACCTGGCTG 57.739 50.000 0.00 0.00 29.54 4.85
473 482 2.856222 CTTTCTGAAGTCAACCTGGCT 58.144 47.619 0.00 0.00 30.81 4.75
474 483 1.268079 GCTTTCTGAAGTCAACCTGGC 59.732 52.381 0.00 0.00 35.25 4.85
475 484 2.810852 GAGCTTTCTGAAGTCAACCTGG 59.189 50.000 0.00 0.00 35.25 4.45
476 485 3.470709 TGAGCTTTCTGAAGTCAACCTG 58.529 45.455 0.00 0.00 35.25 4.00
503 527 0.740868 CAATCGACATGACTGCCGGT 60.741 55.000 1.90 0.00 0.00 5.28
518 542 1.781429 CATCGATCGTGACCGTCAATC 59.219 52.381 15.94 3.10 35.01 2.67
539 571 2.359478 GGCGGTTCATGGAACGGT 60.359 61.111 14.57 0.00 42.78 4.83
572 604 5.625150 ACACTTGGCTTCTATTGAGTTCTT 58.375 37.500 0.00 0.00 0.00 2.52
573 605 5.234466 ACACTTGGCTTCTATTGAGTTCT 57.766 39.130 0.00 0.00 0.00 3.01
598 647 4.103469 ACACATGTTGTACTCCACCCTTTA 59.897 41.667 0.00 0.00 36.32 1.85
599 648 3.117663 ACACATGTTGTACTCCACCCTTT 60.118 43.478 0.00 0.00 36.32 3.11
600 649 2.441750 ACACATGTTGTACTCCACCCTT 59.558 45.455 0.00 0.00 36.32 3.95
601 650 2.054799 ACACATGTTGTACTCCACCCT 58.945 47.619 0.00 0.00 36.32 4.34
602 651 2.151202 CACACATGTTGTACTCCACCC 58.849 52.381 0.00 0.00 35.67 4.61
603 652 1.535462 GCACACATGTTGTACTCCACC 59.465 52.381 0.00 0.00 35.67 4.61
604 653 2.217750 TGCACACATGTTGTACTCCAC 58.782 47.619 0.00 0.00 35.67 4.02
605 654 2.629336 TGCACACATGTTGTACTCCA 57.371 45.000 0.00 0.00 35.67 3.86
608 657 1.464608 GCGATGCACACATGTTGTACT 59.535 47.619 0.00 0.00 35.67 2.73
703 753 0.462047 CGTCCCCTACCAATCAGTGC 60.462 60.000 0.00 0.00 0.00 4.40
791 841 4.250464 TGTCGTTTTTATAGTGGGAGCAG 58.750 43.478 0.00 0.00 0.00 4.24
820 870 1.771854 TGCTTAAACCACAGGTGAGGA 59.228 47.619 0.00 0.00 35.34 3.71
838 888 3.948473 TCTATGTGAGACTACTGTCCTGC 59.052 47.826 0.00 0.00 43.91 4.85
930 980 5.825151 ACAGACAGAGACGAAGATGATGATA 59.175 40.000 0.00 0.00 0.00 2.15
937 987 3.417101 ACAGACAGACAGAGACGAAGAT 58.583 45.455 0.00 0.00 0.00 2.40
949 999 5.453480 GGATTGGTAAGGGATACAGACAGAC 60.453 48.000 0.00 0.00 36.14 3.51
950 1000 4.654262 GGATTGGTAAGGGATACAGACAGA 59.346 45.833 0.00 0.00 36.14 3.41
951 1001 4.408921 TGGATTGGTAAGGGATACAGACAG 59.591 45.833 0.00 0.00 36.14 3.51
953 1003 5.513267 GGATGGATTGGTAAGGGATACAGAC 60.513 48.000 0.00 0.00 36.14 3.51
955 1005 4.350816 TGGATGGATTGGTAAGGGATACAG 59.649 45.833 0.00 0.00 36.14 2.74
956 1006 4.311613 TGGATGGATTGGTAAGGGATACA 58.688 43.478 0.00 0.00 36.14 2.29
957 1007 4.993705 TGGATGGATTGGTAAGGGATAC 57.006 45.455 0.00 0.00 0.00 2.24
958 1008 4.540099 GGATGGATGGATTGGTAAGGGATA 59.460 45.833 0.00 0.00 0.00 2.59
959 1009 3.334881 GGATGGATGGATTGGTAAGGGAT 59.665 47.826 0.00 0.00 0.00 3.85
961 1011 2.446666 TGGATGGATGGATTGGTAAGGG 59.553 50.000 0.00 0.00 0.00 3.95
962 1012 3.490348 GTGGATGGATGGATTGGTAAGG 58.510 50.000 0.00 0.00 0.00 2.69
963 1013 3.490348 GGTGGATGGATGGATTGGTAAG 58.510 50.000 0.00 0.00 0.00 2.34
964 1014 2.176798 GGGTGGATGGATGGATTGGTAA 59.823 50.000 0.00 0.00 0.00 2.85
965 1015 1.780309 GGGTGGATGGATGGATTGGTA 59.220 52.381 0.00 0.00 0.00 3.25
967 1017 0.557238 TGGGTGGATGGATGGATTGG 59.443 55.000 0.00 0.00 0.00 3.16
969 1019 1.430464 GGATGGGTGGATGGATGGATT 59.570 52.381 0.00 0.00 0.00 3.01
975 1025 1.706866 GATGATGGATGGGTGGATGGA 59.293 52.381 0.00 0.00 0.00 3.41
983 1033 2.735151 CCATGGATGATGATGGATGGG 58.265 52.381 5.56 0.00 41.63 4.00
1041 1094 3.936203 GTGACCTGCCGGTGGACA 61.936 66.667 19.94 16.90 45.73 4.02
1131 1184 3.646946 GTGCGCAGAGAAGATGATGATA 58.353 45.455 12.22 0.00 0.00 2.15
1215 1268 4.155644 GGTTGAAGGAGCAAATCAAGAGAG 59.844 45.833 0.00 0.00 34.02 3.20
1376 1438 3.448934 ACATGAAGAGGAGAGGACATGT 58.551 45.455 0.00 0.00 41.82 3.21
1533 1595 1.623811 GTACCTCAGTCCCTTCTGCAA 59.376 52.381 0.00 0.00 35.63 4.08
1618 1680 6.888105 TCATCTCCATTTGTGAGCTAATGTA 58.112 36.000 6.27 0.00 36.54 2.29
1713 1775 9.599866 GGGCAGCTTTGAATATTAAACTATTTT 57.400 29.630 0.00 0.00 0.00 1.82
1714 1776 8.981659 AGGGCAGCTTTGAATATTAAACTATTT 58.018 29.630 0.00 0.00 0.00 1.40
1715 1777 8.416329 CAGGGCAGCTTTGAATATTAAACTATT 58.584 33.333 0.00 0.00 0.00 1.73
1716 1778 7.014615 CCAGGGCAGCTTTGAATATTAAACTAT 59.985 37.037 0.00 0.00 0.00 2.12
1717 1779 6.321181 CCAGGGCAGCTTTGAATATTAAACTA 59.679 38.462 0.00 0.00 0.00 2.24
1718 1780 5.127682 CCAGGGCAGCTTTGAATATTAAACT 59.872 40.000 0.00 0.00 0.00 2.66
1719 1781 5.105351 ACCAGGGCAGCTTTGAATATTAAAC 60.105 40.000 0.00 0.00 0.00 2.01
1720 1782 5.022787 ACCAGGGCAGCTTTGAATATTAAA 58.977 37.500 0.00 0.00 0.00 1.52
1721 1783 4.609301 ACCAGGGCAGCTTTGAATATTAA 58.391 39.130 0.00 0.00 0.00 1.40
1722 1784 4.249638 ACCAGGGCAGCTTTGAATATTA 57.750 40.909 0.00 0.00 0.00 0.98
1723 1785 3.105959 ACCAGGGCAGCTTTGAATATT 57.894 42.857 0.00 0.00 0.00 1.28
1724 1786 2.834638 ACCAGGGCAGCTTTGAATAT 57.165 45.000 0.00 0.00 0.00 1.28
1725 1787 2.576191 ACTACCAGGGCAGCTTTGAATA 59.424 45.455 0.00 0.00 0.00 1.75
1726 1788 1.355720 ACTACCAGGGCAGCTTTGAAT 59.644 47.619 0.00 0.00 0.00 2.57
1727 1789 0.771127 ACTACCAGGGCAGCTTTGAA 59.229 50.000 0.00 0.00 0.00 2.69
1728 1790 0.036732 CACTACCAGGGCAGCTTTGA 59.963 55.000 0.00 0.00 0.00 2.69
1743 1805 1.290955 CGTTGAAGGTCCGCCACTA 59.709 57.895 0.00 0.00 37.19 2.74
1792 1855 7.345914 ACACTAGATTAGCCCTTTCAACTCTAT 59.654 37.037 0.00 0.00 0.00 1.98
1857 1920 9.880157 GTTAGTACATAGTCAGTTATTTTGGGA 57.120 33.333 0.00 0.00 0.00 4.37
1858 1921 9.886132 AGTTAGTACATAGTCAGTTATTTTGGG 57.114 33.333 0.00 0.00 0.00 4.12
1878 1941 9.347240 TGACTCAACTTTGTAGTACTAGTTAGT 57.653 33.333 16.08 17.05 40.24 2.24
1890 1953 9.967451 TCCCAATATAAATGACTCAACTTTGTA 57.033 29.630 0.00 0.00 0.00 2.41
1891 1954 8.739972 GTCCCAATATAAATGACTCAACTTTGT 58.260 33.333 0.00 0.00 0.00 2.83
1892 1955 7.910162 CGTCCCAATATAAATGACTCAACTTTG 59.090 37.037 0.00 0.00 0.00 2.77
1893 1956 7.067008 CCGTCCCAATATAAATGACTCAACTTT 59.933 37.037 0.00 0.00 0.00 2.66
1894 1957 6.542370 CCGTCCCAATATAAATGACTCAACTT 59.458 38.462 0.00 0.00 0.00 2.66
1895 1958 6.055588 CCGTCCCAATATAAATGACTCAACT 58.944 40.000 0.00 0.00 0.00 3.16
1896 1959 6.053005 TCCGTCCCAATATAAATGACTCAAC 58.947 40.000 0.00 0.00 0.00 3.18
1897 1960 6.241882 TCCGTCCCAATATAAATGACTCAA 57.758 37.500 0.00 0.00 0.00 3.02
1898 1961 5.221641 CCTCCGTCCCAATATAAATGACTCA 60.222 44.000 0.00 0.00 0.00 3.41
1899 1962 5.238583 CCTCCGTCCCAATATAAATGACTC 58.761 45.833 0.00 0.00 0.00 3.36
1900 1963 4.041691 CCCTCCGTCCCAATATAAATGACT 59.958 45.833 0.00 0.00 0.00 3.41
1901 1964 4.041198 TCCCTCCGTCCCAATATAAATGAC 59.959 45.833 0.00 0.00 0.00 3.06
1902 1965 4.236195 TCCCTCCGTCCCAATATAAATGA 58.764 43.478 0.00 0.00 0.00 2.57
1903 1966 4.041691 ACTCCCTCCGTCCCAATATAAATG 59.958 45.833 0.00 0.00 0.00 2.32
1904 1967 4.240323 ACTCCCTCCGTCCCAATATAAAT 58.760 43.478 0.00 0.00 0.00 1.40
1905 1968 3.660959 ACTCCCTCCGTCCCAATATAAA 58.339 45.455 0.00 0.00 0.00 1.40
1906 1969 3.339713 ACTCCCTCCGTCCCAATATAA 57.660 47.619 0.00 0.00 0.00 0.98
1907 1970 3.140707 TGTACTCCCTCCGTCCCAATATA 59.859 47.826 0.00 0.00 0.00 0.86
1908 1971 2.090943 TGTACTCCCTCCGTCCCAATAT 60.091 50.000 0.00 0.00 0.00 1.28
1909 1972 1.288633 TGTACTCCCTCCGTCCCAATA 59.711 52.381 0.00 0.00 0.00 1.90
1910 1973 0.042131 TGTACTCCCTCCGTCCCAAT 59.958 55.000 0.00 0.00 0.00 3.16
1911 1974 0.178926 TTGTACTCCCTCCGTCCCAA 60.179 55.000 0.00 0.00 0.00 4.12
1912 1975 0.178926 TTTGTACTCCCTCCGTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
1913 1976 0.978907 TTTTGTACTCCCTCCGTCCC 59.021 55.000 0.00 0.00 0.00 4.46
1914 1977 3.345508 AATTTTGTACTCCCTCCGTCC 57.654 47.619 0.00 0.00 0.00 4.79
1915 1978 5.082251 ACTAATTTTGTACTCCCTCCGTC 57.918 43.478 0.00 0.00 0.00 4.79
1916 1979 6.803366 ATACTAATTTTGTACTCCCTCCGT 57.197 37.500 0.00 0.00 0.00 4.69
1917 1980 8.174733 TCTATACTAATTTTGTACTCCCTCCG 57.825 38.462 0.00 0.00 0.00 4.63
1918 1981 9.145442 ACTCTATACTAATTTTGTACTCCCTCC 57.855 37.037 0.00 0.00 0.00 4.30
1940 2003 8.974060 TTTCCAAACATAAGTGACTTAACTCT 57.026 30.769 9.35 0.00 29.35 3.24
1941 2004 9.052759 TCTTTCCAAACATAAGTGACTTAACTC 57.947 33.333 9.35 0.00 29.35 3.01
1942 2005 8.974060 TCTTTCCAAACATAAGTGACTTAACT 57.026 30.769 9.35 0.00 29.35 2.24
2080 2437 6.165577 AGTTTGTGTTGCTTTGAGATGTTTT 58.834 32.000 0.00 0.00 0.00 2.43
2083 2440 4.989279 AGTTTGTGTTGCTTTGAGATGT 57.011 36.364 0.00 0.00 0.00 3.06
2108 2465 7.771826 AGGTTTCTAAGTTTGTGCTACTTACAA 59.228 33.333 0.00 0.00 37.12 2.41
2211 2570 9.026074 GTATAGCTAGAAGACTTTGATGTTCAC 57.974 37.037 0.00 0.00 0.00 3.18
2250 2609 7.523293 TTCATTTTGCCAAGATTAAGTCTCA 57.477 32.000 0.00 0.00 35.67 3.27
2292 2651 3.181483 GCTCATTTGCCCTGTTTCCATAG 60.181 47.826 0.00 0.00 0.00 2.23
2642 3001 8.609176 GTTCCATGTGTCAATATACGTACAATT 58.391 33.333 0.00 0.00 0.00 2.32
2680 3039 1.533731 CGGCGGTCTACAACACAAAAT 59.466 47.619 0.00 0.00 0.00 1.82
2962 3321 6.758254 ACCATACATAAAGCAAGCTTTGTTT 58.242 32.000 25.64 16.52 44.84 2.83
3013 3372 8.080658 TCCTGAGGGAATATGGCCTATATATA 57.919 38.462 3.32 0.00 38.93 0.86
3014 3373 6.949997 TCCTGAGGGAATATGGCCTATATAT 58.050 40.000 3.32 0.00 38.93 0.86
3060 3419 6.780706 ATGTAAAAGCACAGTACAGTACAC 57.219 37.500 13.37 0.00 31.61 2.90
3068 3427 9.781633 TTCTTTAGGTAATGTAAAAGCACAGTA 57.218 29.630 0.00 0.00 0.00 2.74
3144 3503 2.032799 TCAACATTCGAAGCAACACACC 59.967 45.455 3.35 0.00 0.00 4.16
3244 3603 6.208402 TCACATTTGCTTAATGAACCAAGCTA 59.792 34.615 15.87 0.00 45.35 3.32
3257 3616 8.599055 TTTTATTTGCATGTCACATTTGCTTA 57.401 26.923 5.02 0.00 37.28 3.09
3278 3637 7.609918 TCTCATGCCTAATGCTAACAGTTTTTA 59.390 33.333 0.00 0.00 42.00 1.52
3418 3779 1.209621 TAGGCACATTCACCTACCCC 58.790 55.000 0.00 0.00 37.50 4.95
3544 3906 4.688879 CCTGACTTGATAACTGCGTGTTTA 59.311 41.667 0.32 0.00 39.89 2.01
3644 4007 4.237843 TGAGGCCTGGAATTATGATCTCT 58.762 43.478 12.00 0.00 0.00 3.10
3645 4008 4.630644 TGAGGCCTGGAATTATGATCTC 57.369 45.455 12.00 0.00 0.00 2.75
3766 4129 4.098501 TCAGTCTATCAGTTCGCACATGAT 59.901 41.667 0.00 5.74 37.44 2.45
3814 4177 2.030893 ACGATGTTCATGTTTGCACCTG 60.031 45.455 0.00 0.00 0.00 4.00
3845 4208 6.374417 TTTCTCTACTATGGGTTTGCTCTT 57.626 37.500 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.