Multiple sequence alignment - TraesCS2B01G327500

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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 TraesCS2B01G327500 chr2B 100.000 6074 0 0 1 6074 469188093 469194166 0.000000e+00 11217.0
1 TraesCS2B01G327500 chr2A 96.168 4723 140 16 857 5563 533941832 533946529 0.000000e+00 7681.0
2 TraesCS2B01G327500 chr2A 89.709 515 26 8 5566 6074 533946671 533947164 3.090000e-177 632.0
3 TraesCS2B01G327500 chr2A 88.722 266 20 2 1 256 533940592 533940857 3.530000e-82 316.0
4 TraesCS2B01G327500 chr2A 96.923 130 4 0 3096 3225 502329237 502329366 1.030000e-52 219.0
5 TraesCS2B01G327500 chr2A 88.889 180 15 3 653 830 533941200 533941376 3.690000e-52 217.0
6 TraesCS2B01G327500 chr2A 91.558 154 8 5 3074 3225 527459261 527459411 2.220000e-49 207.0
7 TraesCS2B01G327500 chr2A 91.398 93 7 1 496 587 533941124 533941216 6.390000e-25 126.0
8 TraesCS2B01G327500 chr2A 92.593 54 1 3 780 830 533941475 533941528 2.350000e-09 75.0
9 TraesCS2B01G327500 chr2D 95.908 2737 90 8 389 3105 395634969 395637703 0.000000e+00 4414.0
10 TraesCS2B01G327500 chr2D 94.897 2567 86 19 3171 5712 395637700 395640246 0.000000e+00 3973.0
11 TraesCS2B01G327500 chr2D 91.117 349 21 2 1 339 395634624 395634972 1.190000e-126 464.0
12 TraesCS2B01G327500 chr2D 95.833 48 2 0 5733 5780 395640451 395640498 1.820000e-10 78.7
13 TraesCS2B01G327500 chr2D 89.231 65 4 2 333 397 568887873 568887934 1.820000e-10 78.7
14 TraesCS2B01G327500 chr5D 95.588 136 5 1 3090 3225 132145305 132145171 3.690000e-52 217.0
15 TraesCS2B01G327500 chr7B 94.245 139 6 2 3087 3225 73531599 73531463 1.720000e-50 211.0
16 TraesCS2B01G327500 chr7B 93.056 144 7 3 3084 3225 156709322 156709464 2.220000e-49 207.0
17 TraesCS2B01G327500 chr7B 92.593 54 2 1 351 402 747593552 747593499 6.530000e-10 76.8
18 TraesCS2B01G327500 chr6A 93.007 143 10 0 3083 3225 485307992 485308134 6.170000e-50 209.0
19 TraesCS2B01G327500 chr6A 97.561 41 1 0 351 391 9347304 9347264 3.040000e-08 71.3
20 TraesCS2B01G327500 chr5B 92.517 147 10 1 3079 3225 659818964 659819109 6.170000e-50 209.0
21 TraesCS2B01G327500 chr5B 93.103 58 1 1 338 392 450539927 450539870 1.400000e-11 82.4
22 TraesCS2B01G327500 chr5B 92.453 53 4 0 344 396 485809920 485809972 6.530000e-10 76.8
23 TraesCS2B01G327500 chr3B 93.617 141 7 2 3086 3225 685828345 685828484 6.170000e-50 209.0
24 TraesCS2B01G327500 chr6B 89.231 65 2 1 336 395 14339507 14339443 6.530000e-10 76.8
25 TraesCS2B01G327500 chr4A 89.474 57 5 1 351 407 585398102 585398157 3.040000e-08 71.3
26 TraesCS2B01G327500 chr4A 95.238 42 2 0 351 392 360425898 360425939 3.930000e-07 67.6
27 TraesCS2B01G327500 chr3A 90.566 53 3 2 351 403 480108978 480109028 1.090000e-07 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 TraesCS2B01G327500 chr2B 469188093 469194166 6073 False 11217.000000 11217 100.00000 1 6074 1 chr2B.!!$F1 6073
1 TraesCS2B01G327500 chr2A 533940592 533947164 6572 False 1507.833333 7681 91.24650 1 6074 6 chr2A.!!$F3 6073
2 TraesCS2B01G327500 chr2D 395634624 395640498 5874 False 2232.425000 4414 94.43875 1 5780 4 chr2D.!!$F2 5779

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
425 437 0.034186 GACATGGGATCACCTTGCCA 60.034 55.000 12.92 3.07 45.78 4.92 F
937 1443 0.100146 GTTCGCCGTACCTTCGAGAT 59.900 55.000 0.00 0.00 33.56 2.75 F
1447 1961 0.606604 TCTGGGTAAGTTCAGACGCC 59.393 55.000 0.00 0.00 35.37 5.68 F
1461 1975 1.066430 AGACGCCACGGTTACAATGAT 60.066 47.619 0.00 0.00 0.00 2.45 F
1505 2019 1.135333 TGCATACGAATACGCAGACCA 59.865 47.619 0.00 0.00 43.96 4.02 F
3216 3743 0.400213 CAAGCTTCCACACACCCCTA 59.600 55.000 0.00 0.00 0.00 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1461 1975 0.606130 ATGCTGCATTGTCACCGTGA 60.606 50.000 9.81 0.0 0.00 4.35 R
2264 2788 0.979665 CTGGTGGCGGATCTCCATAT 59.020 55.000 9.80 0.0 35.81 1.78 R
2335 2859 1.277842 TCAGATAAAGGAGGCACGCAA 59.722 47.619 0.00 0.0 0.00 4.85 R
3208 3735 1.481056 GCGGCTATGGATAGGGGTGT 61.481 60.000 0.00 0.0 0.00 4.16 R
3486 4013 5.181009 CCACATTGAGCTTCAAGATACAGA 58.819 41.667 0.00 0.0 40.05 3.41 R
5135 5675 0.251209 AGGCATCGATACGAGCCCTA 60.251 55.000 18.14 0.0 44.67 3.53 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
32 33 3.199677 CAACAACGGTGAGTAGACCAAA 58.800 45.455 7.88 0.00 35.50 3.28
37 38 6.056884 ACAACGGTGAGTAGACCAAAATAAA 58.943 36.000 7.88 0.00 35.50 1.40
64 65 2.052782 AAAAGCTTCCACCTGAACGT 57.947 45.000 0.00 0.00 0.00 3.99
65 66 2.052782 AAAGCTTCCACCTGAACGTT 57.947 45.000 0.00 0.00 0.00 3.99
99 100 6.683974 TTTAGATTATGCCTGAGAAGTTGC 57.316 37.500 0.00 0.00 0.00 4.17
173 184 3.870559 TCTCCATAAACCCCTAGGATCC 58.129 50.000 11.48 2.48 36.73 3.36
195 206 6.662755 TCCCATTGAGTATAATTGCACTCTT 58.337 36.000 17.28 6.96 41.46 2.85
198 209 7.412853 CCATTGAGTATAATTGCACTCTTCAC 58.587 38.462 17.28 0.00 41.46 3.18
227 239 7.550551 TCACCTTCATGAAAATGAGACTATCAC 59.449 37.037 9.88 0.00 41.91 3.06
240 252 4.489810 AGACTATCACGAGTGAAAAGCAG 58.510 43.478 10.15 5.58 43.58 4.24
290 302 6.644592 GCTTGCTCTAATACCTCTATCAACAG 59.355 42.308 0.00 0.00 0.00 3.16
293 305 8.306313 TGCTCTAATACCTCTATCAACAGAAA 57.694 34.615 0.00 0.00 0.00 2.52
337 349 3.751518 AGAAAAACCTTCGGCACATAGT 58.248 40.909 0.00 0.00 0.00 2.12
338 350 4.901868 AGAAAAACCTTCGGCACATAGTA 58.098 39.130 0.00 0.00 0.00 1.82
339 351 4.694037 AGAAAAACCTTCGGCACATAGTAC 59.306 41.667 0.00 0.00 0.00 2.73
340 352 3.975168 AAACCTTCGGCACATAGTACT 57.025 42.857 0.00 0.00 0.00 2.73
341 353 3.521947 AACCTTCGGCACATAGTACTC 57.478 47.619 0.00 0.00 0.00 2.59
342 354 1.755380 ACCTTCGGCACATAGTACTCC 59.245 52.381 0.00 0.00 0.00 3.85
343 355 1.068741 CCTTCGGCACATAGTACTCCC 59.931 57.143 0.00 0.00 0.00 4.30
344 356 2.032620 CTTCGGCACATAGTACTCCCT 58.967 52.381 0.00 0.00 0.00 4.20
345 357 1.688772 TCGGCACATAGTACTCCCTC 58.311 55.000 0.00 0.00 0.00 4.30
346 358 0.674534 CGGCACATAGTACTCCCTCC 59.325 60.000 0.00 0.00 0.00 4.30
347 359 0.674534 GGCACATAGTACTCCCTCCG 59.325 60.000 0.00 0.00 0.00 4.63
348 360 1.400737 GCACATAGTACTCCCTCCGT 58.599 55.000 0.00 0.00 0.00 4.69
349 361 1.337387 GCACATAGTACTCCCTCCGTC 59.663 57.143 0.00 0.00 0.00 4.79
350 362 2.933573 CACATAGTACTCCCTCCGTCT 58.066 52.381 0.00 0.00 0.00 4.18
351 363 3.288964 CACATAGTACTCCCTCCGTCTT 58.711 50.000 0.00 0.00 0.00 3.01
352 364 4.458397 CACATAGTACTCCCTCCGTCTTA 58.542 47.826 0.00 0.00 0.00 2.10
353 365 4.515944 CACATAGTACTCCCTCCGTCTTAG 59.484 50.000 0.00 0.00 0.00 2.18
354 366 4.165758 ACATAGTACTCCCTCCGTCTTAGT 59.834 45.833 0.00 0.00 0.00 2.24
355 367 5.367937 ACATAGTACTCCCTCCGTCTTAGTA 59.632 44.000 0.00 0.00 0.00 1.82
356 368 4.149511 AGTACTCCCTCCGTCTTAGTAC 57.850 50.000 0.00 0.00 41.71 2.73
357 369 3.521126 AGTACTCCCTCCGTCTTAGTACA 59.479 47.826 12.07 0.00 43.11 2.90
358 370 3.446442 ACTCCCTCCGTCTTAGTACAA 57.554 47.619 0.00 0.00 0.00 2.41
359 371 3.771216 ACTCCCTCCGTCTTAGTACAAA 58.229 45.455 0.00 0.00 0.00 2.83
360 372 3.762823 ACTCCCTCCGTCTTAGTACAAAG 59.237 47.826 0.00 0.00 0.00 2.77
361 373 3.762823 CTCCCTCCGTCTTAGTACAAAGT 59.237 47.826 0.00 0.00 0.00 2.66
362 374 4.154942 TCCCTCCGTCTTAGTACAAAGTT 58.845 43.478 0.00 0.00 0.00 2.66
363 375 4.021719 TCCCTCCGTCTTAGTACAAAGTTG 60.022 45.833 0.00 0.00 0.00 3.16
364 376 4.021719 CCCTCCGTCTTAGTACAAAGTTGA 60.022 45.833 0.00 0.00 0.00 3.18
365 377 5.162075 CCTCCGTCTTAGTACAAAGTTGAG 58.838 45.833 0.00 0.00 0.00 3.02
366 378 5.278858 CCTCCGTCTTAGTACAAAGTTGAGT 60.279 44.000 0.00 0.00 0.00 3.41
367 379 5.766222 TCCGTCTTAGTACAAAGTTGAGTC 58.234 41.667 0.00 0.00 0.00 3.36
368 380 5.300034 TCCGTCTTAGTACAAAGTTGAGTCA 59.700 40.000 0.00 0.00 0.00 3.41
369 381 5.401674 CCGTCTTAGTACAAAGTTGAGTCAC 59.598 44.000 0.00 0.00 0.00 3.67
370 382 6.207213 CGTCTTAGTACAAAGTTGAGTCACT 58.793 40.000 0.00 0.00 0.00 3.41
371 383 6.696148 CGTCTTAGTACAAAGTTGAGTCACTT 59.304 38.462 0.00 0.00 38.74 3.16
372 384 7.859377 CGTCTTAGTACAAAGTTGAGTCACTTA 59.141 37.037 0.00 0.00 35.87 2.24
373 385 9.694137 GTCTTAGTACAAAGTTGAGTCACTTAT 57.306 33.333 0.00 0.00 35.87 1.73
378 390 9.391006 AGTACAAAGTTGAGTCACTTATTTTGA 57.609 29.630 14.62 1.37 35.87 2.69
379 391 9.651718 GTACAAAGTTGAGTCACTTATTTTGAG 57.348 33.333 14.62 0.00 35.87 3.02
380 392 8.506168 ACAAAGTTGAGTCACTTATTTTGAGA 57.494 30.769 14.62 0.00 35.87 3.27
381 393 8.398665 ACAAAGTTGAGTCACTTATTTTGAGAC 58.601 33.333 14.62 0.00 35.87 3.36
382 394 8.397906 CAAAGTTGAGTCACTTATTTTGAGACA 58.602 33.333 5.72 0.00 35.87 3.41
383 395 7.721286 AGTTGAGTCACTTATTTTGAGACAG 57.279 36.000 0.00 0.00 0.00 3.51
384 396 7.500992 AGTTGAGTCACTTATTTTGAGACAGA 58.499 34.615 0.00 0.00 0.00 3.41
385 397 7.655328 AGTTGAGTCACTTATTTTGAGACAGAG 59.345 37.037 0.00 0.00 0.00 3.35
386 398 6.459066 TGAGTCACTTATTTTGAGACAGAGG 58.541 40.000 0.00 0.00 0.00 3.69
387 399 5.799213 AGTCACTTATTTTGAGACAGAGGG 58.201 41.667 0.00 0.00 0.00 4.30
388 400 5.544176 AGTCACTTATTTTGAGACAGAGGGA 59.456 40.000 0.00 0.00 0.00 4.20
389 401 5.872070 GTCACTTATTTTGAGACAGAGGGAG 59.128 44.000 0.00 0.00 0.00 4.30
414 426 6.078456 AGAAAAAGGTATGATGACATGGGA 57.922 37.500 0.00 0.00 37.87 4.37
425 437 0.034186 GACATGGGATCACCTTGCCA 60.034 55.000 12.92 3.07 45.78 4.92
440 452 1.386550 GCCAAGGGCCCCTTAAAGA 59.613 57.895 21.43 0.00 42.67 2.52
541 553 5.584251 CACCAAATTTACACAAAAGCCAAGT 59.416 36.000 0.00 0.00 0.00 3.16
651 666 5.090757 CACAACACAAGCATAGTAGCAATG 58.909 41.667 0.00 0.00 36.85 2.82
697 761 9.955208 TTTCAGAATATACAATCATGTTCATGC 57.045 29.630 7.80 0.00 41.05 4.06
739 803 4.434067 CCGTTGCGGCAGAAATAAAAATTG 60.434 41.667 1.67 0.00 41.17 2.32
764 828 5.192522 TGCCCAAAAATCTTCTCTCTCCTAT 59.807 40.000 0.00 0.00 0.00 2.57
836 1341 5.641209 GTGTTGAAGATGCTCTGATAGTGTT 59.359 40.000 0.00 0.00 0.00 3.32
883 1388 1.716581 CGTCTTTCTTCACGCTCTGTC 59.283 52.381 0.00 0.00 0.00 3.51
937 1443 0.100146 GTTCGCCGTACCTTCGAGAT 59.900 55.000 0.00 0.00 33.56 2.75
951 1457 1.489649 TCGAGATAGACCCTTCTCCGT 59.510 52.381 0.00 0.00 35.93 4.69
984 1490 2.324541 CTCCATCGATTCTTCCTCCCT 58.675 52.381 0.00 0.00 0.00 4.20
1133 1639 4.029809 CAACCCCACCCGTCTCCC 62.030 72.222 0.00 0.00 0.00 4.30
1138 1644 2.928396 CCACCCGTCTCCCCACTT 60.928 66.667 0.00 0.00 0.00 3.16
1205 1711 4.789075 TCCAGAAGTACGCGCCGC 62.789 66.667 5.73 0.00 0.00 6.53
1293 1799 3.431766 GCGTTAGAGAGCAGGGGAATTTA 60.432 47.826 0.00 0.00 0.00 1.40
1447 1961 0.606604 TCTGGGTAAGTTCAGACGCC 59.393 55.000 0.00 0.00 35.37 5.68
1461 1975 1.066430 AGACGCCACGGTTACAATGAT 60.066 47.619 0.00 0.00 0.00 2.45
1504 2018 1.847818 TGCATACGAATACGCAGACC 58.152 50.000 0.00 0.00 43.96 3.85
1505 2019 1.135333 TGCATACGAATACGCAGACCA 59.865 47.619 0.00 0.00 43.96 4.02
1565 2079 2.829720 ACTAACTAGTGATGAACGGCCA 59.170 45.455 2.24 0.00 34.72 5.36
2127 2651 6.385649 TGTTCTTTCACTGTTTCCATAACC 57.614 37.500 0.00 0.00 0.00 2.85
2132 2656 6.934645 TCTTTCACTGTTTCCATAACCTACTG 59.065 38.462 0.00 0.00 0.00 2.74
2308 2832 7.499232 AGCAATTATACTTGTTGGTCATAGGTC 59.501 37.037 4.91 0.00 0.00 3.85
2335 2859 8.416329 AGTCAGCATTGTGTATTTCTTCTTTTT 58.584 29.630 0.00 0.00 0.00 1.94
2534 3058 8.285394 TCACGATACTAATCACTAATACGTTCC 58.715 37.037 0.00 0.00 31.93 3.62
2576 3100 5.221762 TGTTACTTGGCTGGTTGTACTATGT 60.222 40.000 0.00 0.00 0.00 2.29
2715 3239 1.542915 GGCTGCAAGAAGAGCAATTCA 59.457 47.619 0.50 0.00 42.17 2.57
2805 3329 8.363390 TCTTAAATTATGGTTGCACATGAAACA 58.637 29.630 0.00 0.00 35.23 2.83
2974 3498 2.165641 CTGTGTGCTCATGCCATTTCAT 59.834 45.455 0.00 0.00 38.71 2.57
3087 3611 8.416329 GGATTTGATGTTGTAAAGATTATGGCT 58.584 33.333 0.00 0.00 25.38 4.75
3104 3628 2.933769 GGCTGCAAGACATACAACAAC 58.066 47.619 0.50 0.00 46.27 3.32
3108 3635 4.290155 CTGCAAGACATACAACAACAACC 58.710 43.478 0.00 0.00 34.07 3.77
3153 3680 2.468915 GGGTAGGCTAGAGGTGAAACT 58.531 52.381 0.00 0.00 36.74 2.66
3164 3691 7.145323 GCTAGAGGTGAAACTCATAAGATCTC 58.855 42.308 0.00 0.00 39.97 2.75
3208 3735 2.025981 ACATGGATAGCAAGCTTCCACA 60.026 45.455 20.41 8.68 42.09 4.17
3216 3743 0.400213 CAAGCTTCCACACACCCCTA 59.600 55.000 0.00 0.00 0.00 3.53
3222 3749 2.879208 TCCACACACCCCTATCCATA 57.121 50.000 0.00 0.00 0.00 2.74
3248 3775 8.507249 AGCCGCAAGATATAAATGAAGAAATAC 58.493 33.333 0.00 0.00 43.02 1.89
3321 3848 5.916883 GCCAAGTGTAGCATGCTAAAATATG 59.083 40.000 28.44 20.11 0.00 1.78
3323 3850 7.483307 CCAAGTGTAGCATGCTAAAATATGTT 58.517 34.615 28.44 12.22 0.00 2.71
3328 3855 7.584123 GTGTAGCATGCTAAAATATGTTCTTCG 59.416 37.037 28.44 0.00 0.00 3.79
3418 3945 1.409412 ACATCGATTCTGCGCGTATC 58.591 50.000 8.43 4.49 0.00 2.24
3486 4013 7.496529 AAGCAATATCTTACGTAATGCATGT 57.503 32.000 24.80 12.16 34.89 3.21
3513 4040 6.939730 TGTATCTTGAAGCTCAATGTGGTTAA 59.060 34.615 0.00 0.00 35.59 2.01
3515 4042 6.899393 TCTTGAAGCTCAATGTGGTTAAAT 57.101 33.333 0.00 0.00 35.59 1.40
3899 4427 2.552315 GGAATGCTCTCGTTGGTTTTGA 59.448 45.455 0.00 0.00 0.00 2.69
4131 4660 3.123050 GTTGGCTTGTGCTAAAACCTTG 58.877 45.455 0.00 0.00 41.22 3.61
4213 4742 3.264947 CAGCATGTAGTGTGCACTATGT 58.735 45.455 19.41 2.25 44.73 2.29
4239 4768 5.772825 TCTAAGGGCATGCAATATGTTTC 57.227 39.130 21.36 0.00 0.00 2.78
4248 4777 6.914757 GGCATGCAATATGTTTCTAAGAGTTC 59.085 38.462 21.36 0.00 0.00 3.01
4293 4823 5.784177 ACTCACACTAACAACCAGACTATG 58.216 41.667 0.00 0.00 0.00 2.23
4684 5215 5.018809 AGATGCTTGAGGGCTAATTTGAAA 58.981 37.500 0.00 0.00 0.00 2.69
4800 5340 7.878477 ATAGTTGACGAACGTATTTCTTCAA 57.122 32.000 4.15 4.15 45.47 2.69
5020 5560 2.359900 CTTCGCTTCCCAACTAATGCT 58.640 47.619 0.00 0.00 0.00 3.79
5021 5561 1.737838 TCGCTTCCCAACTAATGCTG 58.262 50.000 0.00 0.00 0.00 4.41
5046 5586 8.877195 TGGGTACTTATATTTTCTCAGATACCC 58.123 37.037 7.24 7.24 45.55 3.69
5047 5587 8.877195 GGGTACTTATATTTTCTCAGATACCCA 58.123 37.037 8.84 0.00 44.96 4.51
5097 5637 1.078567 CTGTGGAAGGAGGAGCAGC 60.079 63.158 0.00 0.00 0.00 5.25
5126 5666 4.842574 TGCCAACATCAGCACTATTTAGA 58.157 39.130 0.00 0.00 33.08 2.10
5135 5675 6.054860 TCAGCACTATTTAGAGGAAAAGCT 57.945 37.500 0.00 0.00 0.00 3.74
5172 5712 3.066621 TGCCTGTTCATTGTGTTTCTCAC 59.933 43.478 0.00 0.00 46.31 3.51
5251 5791 1.001746 CAGTCGCCTATCATCCATGCT 59.998 52.381 0.00 0.00 0.00 3.79
5340 5881 7.159437 CATGAACTAGATTCGTGCTTTCTAG 57.841 40.000 0.00 4.99 45.15 2.43
5341 5882 5.651530 TGAACTAGATTCGTGCTTTCTAGG 58.348 41.667 0.00 0.00 42.04 3.02
5342 5883 5.185249 TGAACTAGATTCGTGCTTTCTAGGT 59.815 40.000 0.00 4.18 41.53 3.08
5343 5884 5.000012 ACTAGATTCGTGCTTTCTAGGTG 58.000 43.478 0.00 0.00 42.04 4.00
5344 5885 3.963428 AGATTCGTGCTTTCTAGGTGT 57.037 42.857 0.00 0.00 0.00 4.16
5345 5886 5.651139 ACTAGATTCGTGCTTTCTAGGTGTA 59.349 40.000 0.00 0.00 42.04 2.90
5346 5887 5.599999 AGATTCGTGCTTTCTAGGTGTAT 57.400 39.130 0.00 0.00 0.00 2.29
5347 5888 5.978814 AGATTCGTGCTTTCTAGGTGTATT 58.021 37.500 0.00 0.00 0.00 1.89
5348 5889 5.812642 AGATTCGTGCTTTCTAGGTGTATTG 59.187 40.000 0.00 0.00 0.00 1.90
5349 5890 4.794278 TCGTGCTTTCTAGGTGTATTGA 57.206 40.909 0.00 0.00 0.00 2.57
5350 5891 5.339008 TCGTGCTTTCTAGGTGTATTGAT 57.661 39.130 0.00 0.00 0.00 2.57
5351 5892 6.459670 TCGTGCTTTCTAGGTGTATTGATA 57.540 37.500 0.00 0.00 0.00 2.15
5352 5893 6.270815 TCGTGCTTTCTAGGTGTATTGATAC 58.729 40.000 0.00 0.00 0.00 2.24
5353 5894 6.040247 CGTGCTTTCTAGGTGTATTGATACA 58.960 40.000 0.00 0.00 40.69 2.29
5356 5897 8.893727 GTGCTTTCTAGGTGTATTGATACATTT 58.106 33.333 7.07 2.45 44.25 2.32
5362 5903 9.109393 TCTAGGTGTATTGATACATTTTCAAGC 57.891 33.333 7.07 0.00 44.25 4.01
5364 5926 6.663093 AGGTGTATTGATACATTTTCAAGCCA 59.337 34.615 7.07 0.00 44.25 4.75
5435 5997 1.130054 TTGCTGCCCCAGTTCTCTCT 61.130 55.000 0.00 0.00 33.43 3.10
5466 6028 4.472833 AGATTGTACTTGAGCCTTGGAGAT 59.527 41.667 0.00 0.00 0.00 2.75
5480 6042 6.680197 AGCCTTGGAGATCATATTATACCCAT 59.320 38.462 0.00 0.00 0.00 4.00
5490 6052 7.609760 TCATATTATACCCATTCGAATGCAC 57.390 36.000 28.90 0.00 35.08 4.57
5536 6108 7.599630 TTACGGGTGTACATACAAGATTTTC 57.400 36.000 0.00 0.00 38.04 2.29
5630 6339 0.250945 TCCCAGCACAAAACGGCATA 60.251 50.000 0.00 0.00 0.00 3.14
5640 6349 6.754675 AGCACAAAACGGCATAATATTTTACC 59.245 34.615 0.00 0.00 0.00 2.85
5658 6367 0.458025 CCGGTTTCCGTGAGTAGCTC 60.458 60.000 7.40 0.00 46.80 4.09
5667 6376 2.546795 CCGTGAGTAGCTCCATTCCATC 60.547 54.545 0.00 0.00 0.00 3.51
5668 6377 2.546795 CGTGAGTAGCTCCATTCCATCC 60.547 54.545 0.00 0.00 0.00 3.51
5669 6378 2.050144 TGAGTAGCTCCATTCCATCCC 58.950 52.381 0.00 0.00 0.00 3.85
5670 6379 2.050144 GAGTAGCTCCATTCCATCCCA 58.950 52.381 0.00 0.00 0.00 4.37
5671 6380 1.771255 AGTAGCTCCATTCCATCCCAC 59.229 52.381 0.00 0.00 0.00 4.61
5688 6397 1.086696 CACCCCTCGCTGTGTTTATG 58.913 55.000 0.00 0.00 0.00 1.90
5712 6421 4.350368 TGTGCAATTTACACAGGAGAGA 57.650 40.909 6.91 0.00 42.88 3.10
5713 6422 4.318332 TGTGCAATTTACACAGGAGAGAG 58.682 43.478 6.91 0.00 42.88 3.20
5714 6423 4.040339 TGTGCAATTTACACAGGAGAGAGA 59.960 41.667 6.91 0.00 42.88 3.10
5715 6424 4.629200 GTGCAATTTACACAGGAGAGAGAG 59.371 45.833 0.00 0.00 37.96 3.20
5725 6434 7.102518 ACACAGGAGAGAGAGAGGATATAAT 57.897 40.000 0.00 0.00 0.00 1.28
5794 6691 8.844244 AGTAGTATATACGACTGGTTGGTAAAG 58.156 37.037 23.03 0.00 40.01 1.85
5795 6692 7.651027 AGTATATACGACTGGTTGGTAAAGT 57.349 36.000 7.23 0.00 0.00 2.66
5796 6693 7.486647 AGTATATACGACTGGTTGGTAAAGTG 58.513 38.462 7.23 0.00 0.00 3.16
5797 6694 2.249844 ACGACTGGTTGGTAAAGTGG 57.750 50.000 0.00 0.00 0.00 4.00
5798 6695 1.487558 ACGACTGGTTGGTAAAGTGGT 59.512 47.619 0.00 0.00 0.00 4.16
5799 6696 2.699846 ACGACTGGTTGGTAAAGTGGTA 59.300 45.455 0.00 0.00 32.06 3.25
5800 6697 3.134442 ACGACTGGTTGGTAAAGTGGTAA 59.866 43.478 0.00 0.00 32.06 2.85
5817 6714 4.035208 GTGGTAATCTGGCCATCTAAAACG 59.965 45.833 5.51 0.00 37.09 3.60
5842 6739 7.535599 CGTAGAGATAGTTGTACATACAGCATG 59.464 40.741 8.36 0.00 39.49 4.06
5898 6799 8.280497 GGTAATCAACAATAAATAGGCAGTACG 58.720 37.037 0.00 0.00 0.00 3.67
5909 6810 3.160777 AGGCAGTACGTACAACATAGC 57.839 47.619 26.55 18.03 0.00 2.97
5965 6866 5.316167 TCCATACTCAACAAAGCTTGTGAT 58.684 37.500 0.00 0.00 44.59 3.06
5977 6878 7.643579 ACAAAGCTTGTGATTAAGAAAGAGAC 58.356 34.615 0.00 0.00 43.48 3.36
5981 6882 6.939163 AGCTTGTGATTAAGAAAGAGACACAT 59.061 34.615 0.00 0.00 36.82 3.21
5982 6883 7.118971 AGCTTGTGATTAAGAAAGAGACACATC 59.881 37.037 0.00 0.00 36.82 3.06
5983 6884 7.095060 GCTTGTGATTAAGAAAGAGACACATCA 60.095 37.037 0.00 0.00 36.82 3.07
5984 6885 7.895975 TGTGATTAAGAAAGAGACACATCAG 57.104 36.000 0.00 0.00 33.04 2.90
5986 6887 7.816513 TGTGATTAAGAAAGAGACACATCAGAG 59.183 37.037 0.00 0.00 33.04 3.35
5989 6890 2.235898 AGAAAGAGACACATCAGAGGGC 59.764 50.000 0.00 0.00 0.00 5.19
5990 6891 0.908198 AAGAGACACATCAGAGGGCC 59.092 55.000 0.00 0.00 0.00 5.80
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 7.069950 AGGTGGAAGCTTTTTCAGAACTTTATT 59.930 33.333 0.00 0.00 46.63 1.40
37 38 3.633986 CAGGTGGAAGCTTTTTCAGAACT 59.366 43.478 0.00 0.00 46.63 3.01
64 65 9.060347 CAGGCATAATCTAAAATAGCTTCTCAA 57.940 33.333 0.00 0.00 0.00 3.02
65 66 8.432013 TCAGGCATAATCTAAAATAGCTTCTCA 58.568 33.333 0.00 0.00 0.00 3.27
99 100 2.690653 TTTCAGCCCCAACTCACCCG 62.691 60.000 0.00 0.00 0.00 5.28
173 184 7.066163 TGTGAAGAGTGCAATTATACTCAATGG 59.934 37.037 18.22 0.00 44.41 3.16
195 206 5.375773 TCATTTTCATGAAGGTGACTGTGA 58.624 37.500 16.41 8.15 42.68 3.58
198 209 5.704515 AGTCTCATTTTCATGAAGGTGACTG 59.295 40.000 24.75 15.92 38.70 3.51
227 239 1.264288 GAACCACCTGCTTTTCACTCG 59.736 52.381 0.00 0.00 0.00 4.18
337 349 4.574674 TTGTACTAAGACGGAGGGAGTA 57.425 45.455 0.00 0.00 0.00 2.59
338 350 3.446442 TTGTACTAAGACGGAGGGAGT 57.554 47.619 0.00 0.00 0.00 3.85
339 351 3.762823 ACTTTGTACTAAGACGGAGGGAG 59.237 47.826 21.48 0.00 0.00 4.30
340 352 3.771216 ACTTTGTACTAAGACGGAGGGA 58.229 45.455 21.48 0.00 0.00 4.20
341 353 4.021719 TCAACTTTGTACTAAGACGGAGGG 60.022 45.833 21.48 5.07 0.00 4.30
342 354 5.130292 TCAACTTTGTACTAAGACGGAGG 57.870 43.478 21.48 6.20 0.00 4.30
343 355 5.770417 ACTCAACTTTGTACTAAGACGGAG 58.230 41.667 21.48 21.74 0.00 4.63
344 356 5.300034 TGACTCAACTTTGTACTAAGACGGA 59.700 40.000 21.48 13.99 0.00 4.69
345 357 5.401674 GTGACTCAACTTTGTACTAAGACGG 59.598 44.000 21.48 11.08 0.00 4.79
346 358 6.207213 AGTGACTCAACTTTGTACTAAGACG 58.793 40.000 21.48 12.36 0.00 4.18
347 359 9.694137 ATAAGTGACTCAACTTTGTACTAAGAC 57.306 33.333 21.48 8.83 40.77 3.01
352 364 9.391006 TCAAAATAAGTGACTCAACTTTGTACT 57.609 29.630 0.00 0.00 40.77 2.73
353 365 9.651718 CTCAAAATAAGTGACTCAACTTTGTAC 57.348 33.333 0.00 0.00 40.77 2.90
354 366 9.607988 TCTCAAAATAAGTGACTCAACTTTGTA 57.392 29.630 0.00 0.00 40.77 2.41
355 367 8.398665 GTCTCAAAATAAGTGACTCAACTTTGT 58.601 33.333 0.00 0.00 40.77 2.83
356 368 8.397906 TGTCTCAAAATAAGTGACTCAACTTTG 58.602 33.333 0.00 0.00 40.77 2.77
357 369 8.506168 TGTCTCAAAATAAGTGACTCAACTTT 57.494 30.769 0.00 0.00 40.77 2.66
358 370 7.987458 TCTGTCTCAAAATAAGTGACTCAACTT 59.013 33.333 0.00 0.00 42.89 2.66
359 371 7.500992 TCTGTCTCAAAATAAGTGACTCAACT 58.499 34.615 0.00 0.00 32.38 3.16
360 372 7.095439 CCTCTGTCTCAAAATAAGTGACTCAAC 60.095 40.741 0.00 0.00 32.38 3.18
361 373 6.931281 CCTCTGTCTCAAAATAAGTGACTCAA 59.069 38.462 0.00 0.00 32.38 3.02
362 374 6.459066 CCTCTGTCTCAAAATAAGTGACTCA 58.541 40.000 0.00 0.00 32.38 3.41
363 375 5.872070 CCCTCTGTCTCAAAATAAGTGACTC 59.128 44.000 0.00 0.00 32.38 3.36
364 376 5.544176 TCCCTCTGTCTCAAAATAAGTGACT 59.456 40.000 0.00 0.00 32.38 3.41
365 377 5.794894 TCCCTCTGTCTCAAAATAAGTGAC 58.205 41.667 0.00 0.00 0.00 3.67
366 378 5.544176 ACTCCCTCTGTCTCAAAATAAGTGA 59.456 40.000 0.00 0.00 0.00 3.41
367 379 5.799213 ACTCCCTCTGTCTCAAAATAAGTG 58.201 41.667 0.00 0.00 0.00 3.16
368 380 6.954684 TCTACTCCCTCTGTCTCAAAATAAGT 59.045 38.462 0.00 0.00 0.00 2.24
369 381 7.411486 TCTACTCCCTCTGTCTCAAAATAAG 57.589 40.000 0.00 0.00 0.00 1.73
370 382 7.792364 TTCTACTCCCTCTGTCTCAAAATAA 57.208 36.000 0.00 0.00 0.00 1.40
371 383 7.792364 TTTCTACTCCCTCTGTCTCAAAATA 57.208 36.000 0.00 0.00 0.00 1.40
372 384 6.688073 TTTCTACTCCCTCTGTCTCAAAAT 57.312 37.500 0.00 0.00 0.00 1.82
373 385 6.494666 TTTTCTACTCCCTCTGTCTCAAAA 57.505 37.500 0.00 0.00 0.00 2.44
374 386 6.464465 CCTTTTTCTACTCCCTCTGTCTCAAA 60.464 42.308 0.00 0.00 0.00 2.69
375 387 5.012148 CCTTTTTCTACTCCCTCTGTCTCAA 59.988 44.000 0.00 0.00 0.00 3.02
376 388 4.528596 CCTTTTTCTACTCCCTCTGTCTCA 59.471 45.833 0.00 0.00 0.00 3.27
377 389 4.528987 ACCTTTTTCTACTCCCTCTGTCTC 59.471 45.833 0.00 0.00 0.00 3.36
378 390 4.494591 ACCTTTTTCTACTCCCTCTGTCT 58.505 43.478 0.00 0.00 0.00 3.41
379 391 4.893829 ACCTTTTTCTACTCCCTCTGTC 57.106 45.455 0.00 0.00 0.00 3.51
380 392 6.023603 TCATACCTTTTTCTACTCCCTCTGT 58.976 40.000 0.00 0.00 0.00 3.41
381 393 6.546428 TCATACCTTTTTCTACTCCCTCTG 57.454 41.667 0.00 0.00 0.00 3.35
382 394 6.903534 TCATCATACCTTTTTCTACTCCCTCT 59.096 38.462 0.00 0.00 0.00 3.69
383 395 6.987404 GTCATCATACCTTTTTCTACTCCCTC 59.013 42.308 0.00 0.00 0.00 4.30
384 396 6.443849 TGTCATCATACCTTTTTCTACTCCCT 59.556 38.462 0.00 0.00 0.00 4.20
385 397 6.650120 TGTCATCATACCTTTTTCTACTCCC 58.350 40.000 0.00 0.00 0.00 4.30
386 398 7.227512 CCATGTCATCATACCTTTTTCTACTCC 59.772 40.741 0.00 0.00 32.47 3.85
387 399 7.227512 CCCATGTCATCATACCTTTTTCTACTC 59.772 40.741 0.00 0.00 32.47 2.59
388 400 7.056635 CCCATGTCATCATACCTTTTTCTACT 58.943 38.462 0.00 0.00 32.47 2.57
389 401 7.054124 TCCCATGTCATCATACCTTTTTCTAC 58.946 38.462 0.00 0.00 32.47 2.59
425 437 2.070573 TCACTTCTTTAAGGGGCCCTT 58.929 47.619 38.28 38.28 46.63 3.95
440 452 8.635765 TGAAGAATTGCTACCTTATTTCACTT 57.364 30.769 0.00 0.00 0.00 3.16
515 527 5.923204 TGGCTTTTGTGTAAATTTGGTGAT 58.077 33.333 0.00 0.00 0.00 3.06
605 618 9.344772 TGTGGTCGGTGCTTTATAATATAAAAT 57.655 29.630 6.87 0.00 0.00 1.82
606 619 8.734218 TGTGGTCGGTGCTTTATAATATAAAA 57.266 30.769 6.87 0.00 0.00 1.52
651 666 9.567848 TCTGAAACTTCAAACTCAAATACAAAC 57.432 29.630 0.00 0.00 36.64 2.93
690 754 4.686091 GCCCTAAAACTTTCAAGCATGAAC 59.314 41.667 3.39 0.00 45.01 3.18
697 761 3.506067 ACGGATGCCCTAAAACTTTCAAG 59.494 43.478 0.00 0.00 0.00 3.02
739 803 3.441922 GGAGAGAGAAGATTTTTGGGCAC 59.558 47.826 0.00 0.00 0.00 5.01
883 1388 2.680339 GGAAATGGAGAAAGAGAAGCGG 59.320 50.000 0.00 0.00 0.00 5.52
937 1443 1.341778 GGGAGAACGGAGAAGGGTCTA 60.342 57.143 0.00 0.00 32.80 2.59
951 1457 1.229951 ATGGAGTGCCTGGGGAGAA 60.230 57.895 0.00 0.00 34.31 2.87
1133 1639 0.809385 TCTCGCGGTAGAGAAAGTGG 59.191 55.000 6.13 0.00 43.56 4.00
1192 1698 4.789075 TCCAGCGGCGCGTACTTC 62.789 66.667 27.59 0.00 0.00 3.01
1205 1711 1.258445 AAGTAGGCCGACCAGTCCAG 61.258 60.000 12.93 0.00 39.06 3.86
1293 1799 1.489481 TCACAGAGGAGCAATCCGAT 58.511 50.000 0.00 0.00 34.28 4.18
1447 1961 2.093625 CACCGTGATCATTGTAACCGTG 59.906 50.000 0.00 0.00 0.00 4.94
1461 1975 0.606130 ATGCTGCATTGTCACCGTGA 60.606 50.000 9.81 0.00 0.00 4.35
1504 2018 6.304356 TGAAAATCACAGAAACTAGCAGTG 57.696 37.500 0.00 0.00 0.00 3.66
1505 2019 6.942532 TTGAAAATCACAGAAACTAGCAGT 57.057 33.333 0.00 0.00 0.00 4.40
1565 2079 0.613012 GCTTTCCAGGGTTCCAGCAT 60.613 55.000 0.00 0.00 0.00 3.79
1611 2125 9.626045 GTGCTTTAGAAATTTAGCTAAACACAT 57.374 29.630 20.85 10.34 37.81 3.21
1807 2321 5.668558 AAAAACTGTTCAGTACGCCTAAG 57.331 39.130 5.87 0.00 0.00 2.18
2264 2788 0.979665 CTGGTGGCGGATCTCCATAT 59.020 55.000 9.80 0.00 35.81 1.78
2308 2832 6.492007 AGAAGAAATACACAATGCTGACTG 57.508 37.500 0.00 0.00 0.00 3.51
2335 2859 1.277842 TCAGATAAAGGAGGCACGCAA 59.722 47.619 0.00 0.00 0.00 4.85
2511 3035 7.536622 GGTGGAACGTATTAGTGATTAGTATCG 59.463 40.741 0.00 0.00 38.12 2.92
2534 3058 6.289064 AGTAACAGGAGAGTAACAAAAGGTG 58.711 40.000 0.00 0.00 0.00 4.00
2576 3100 4.277515 AGCTTGCTGAGTCAAGAATACA 57.722 40.909 16.89 0.00 44.61 2.29
2715 3239 7.765695 ACAACAACAAGACCATGAAGATTAT 57.234 32.000 0.00 0.00 0.00 1.28
2784 3308 7.332430 CAGATTGTTTCATGTGCAACCATAATT 59.668 33.333 0.00 0.00 34.36 1.40
2974 3498 6.530120 TGTGGACAGCAAAGATACTTAAAGA 58.470 36.000 0.00 0.00 0.00 2.52
3087 3611 3.696548 TGGTTGTTGTTGTATGTCTTGCA 59.303 39.130 0.00 0.00 0.00 4.08
3101 3625 2.296190 GGGACTAAAGGCTTGGTTGTTG 59.704 50.000 0.00 0.00 0.00 3.33
3102 3626 2.091555 TGGGACTAAAGGCTTGGTTGTT 60.092 45.455 0.00 0.00 0.00 2.83
3104 3628 2.286365 TGGGACTAAAGGCTTGGTTG 57.714 50.000 0.00 0.00 0.00 3.77
3108 3635 3.636764 ACTTGTTTGGGACTAAAGGCTTG 59.363 43.478 0.00 0.00 0.00 4.01
3153 3680 2.688446 AGTTGGTCGCGAGATCTTATGA 59.312 45.455 10.24 0.00 43.23 2.15
3208 3735 1.481056 GCGGCTATGGATAGGGGTGT 61.481 60.000 0.00 0.00 0.00 4.16
3216 3743 6.653020 TCATTTATATCTTGCGGCTATGGAT 58.347 36.000 0.00 2.60 0.00 3.41
3222 3749 6.942532 TTTCTTCATTTATATCTTGCGGCT 57.057 33.333 0.00 0.00 0.00 5.52
3248 3775 6.166279 TGAGTGGCTTCTACTTGTTCTATTG 58.834 40.000 0.00 0.00 0.00 1.90
3321 3848 7.810759 TGATTAAACAAAAATAGGGCGAAGAAC 59.189 33.333 0.00 0.00 0.00 3.01
3323 3850 7.455641 TGATTAAACAAAAATAGGGCGAAGA 57.544 32.000 0.00 0.00 0.00 2.87
3418 3945 9.083422 TCATACTTCAAGGTAGATGGAATAGAG 57.917 37.037 0.00 0.00 0.00 2.43
3486 4013 5.181009 CCACATTGAGCTTCAAGATACAGA 58.819 41.667 0.00 0.00 40.05 3.41
3882 4410 4.647424 ATTTTCAAAACCAACGAGAGCA 57.353 36.364 0.00 0.00 0.00 4.26
4131 4660 8.430801 AATGAATAGCACAGAGTTAACTGATC 57.569 34.615 14.14 0.00 40.63 2.92
4213 4742 6.543430 ACATATTGCATGCCCTTAGAAAAA 57.457 33.333 16.68 0.00 0.00 1.94
4309 4839 4.155826 TCAGCGTAATATGCTTTGCACTTT 59.844 37.500 3.91 0.00 43.04 2.66
4366 4896 4.844998 TGAGAATGCATGTTCGGAAAAA 57.155 36.364 0.00 0.00 33.36 1.94
4684 5215 5.801947 GCATGTCAGCAAATTCTACGAAAAT 59.198 36.000 0.00 0.00 0.00 1.82
5020 5560 8.877195 GGGTATCTGAGAAAATATAAGTACCCA 58.123 37.037 14.24 0.00 44.33 4.51
5021 5561 8.877195 TGGGTATCTGAGAAAATATAAGTACCC 58.123 37.037 12.86 12.86 44.87 3.69
5097 5637 1.089920 GCTGATGTTGGCAGTAGGTG 58.910 55.000 0.00 0.00 35.81 4.00
5135 5675 0.251209 AGGCATCGATACGAGCCCTA 60.251 55.000 18.14 0.00 44.67 3.53
5172 5712 1.946768 TGGCACAAACTTTCTCTTCCG 59.053 47.619 0.00 0.00 31.92 4.30
5251 5791 3.380004 AGTTGCTCGAAAAACCATTCACA 59.620 39.130 6.32 0.00 0.00 3.58
5299 5839 2.439880 TCATGGGTCAACACTTGGTGTA 59.560 45.455 3.69 0.00 46.79 2.90
5336 5877 9.109393 GCTTGAAAATGTATCAATACACCTAGA 57.891 33.333 5.03 0.00 45.11 2.43
5337 5878 8.345565 GGCTTGAAAATGTATCAATACACCTAG 58.654 37.037 5.03 3.96 45.11 3.02
5338 5879 7.831690 TGGCTTGAAAATGTATCAATACACCTA 59.168 33.333 5.03 0.00 45.11 3.08
5339 5880 6.663093 TGGCTTGAAAATGTATCAATACACCT 59.337 34.615 5.03 0.00 45.11 4.00
5340 5881 6.862209 TGGCTTGAAAATGTATCAATACACC 58.138 36.000 5.03 1.22 45.11 4.16
5341 5882 7.008266 CGTTGGCTTGAAAATGTATCAATACAC 59.992 37.037 5.03 0.00 45.11 2.90
5342 5883 7.026562 CGTTGGCTTGAAAATGTATCAATACA 58.973 34.615 5.37 5.37 46.21 2.29
5343 5884 6.020678 GCGTTGGCTTGAAAATGTATCAATAC 60.021 38.462 0.00 0.00 36.30 1.89
5344 5885 6.033341 GCGTTGGCTTGAAAATGTATCAATA 58.967 36.000 0.00 0.00 36.30 1.90
5345 5886 4.864247 GCGTTGGCTTGAAAATGTATCAAT 59.136 37.500 0.00 0.00 36.30 2.57
5346 5887 4.233789 GCGTTGGCTTGAAAATGTATCAA 58.766 39.130 0.00 0.00 35.60 2.57
5347 5888 3.832276 GCGTTGGCTTGAAAATGTATCA 58.168 40.909 0.00 0.00 35.83 2.15
5362 5903 2.287368 GGGACAACAAACTAAGCGTTGG 60.287 50.000 0.00 0.00 43.38 3.77
5364 5926 2.645802 TGGGACAACAAACTAAGCGTT 58.354 42.857 0.00 0.00 33.24 4.84
5435 5997 8.946085 CAAGGCTCAAGTACAATCTTATGTTAA 58.054 33.333 0.00 0.00 34.75 2.01
5466 6028 7.164803 TGTGCATTCGAATGGGTATAATATGA 58.835 34.615 33.05 0.00 36.90 2.15
5480 6042 4.561105 TGTATGTACACTGTGCATTCGAA 58.439 39.130 16.71 0.00 39.40 3.71
5540 6112 9.926751 CACATATTATTCTTGTAGCTTCAACAG 57.073 33.333 1.07 0.00 0.00 3.16
5561 6133 8.613034 TCCACCCCTACTTAAAAATAACACATA 58.387 33.333 0.00 0.00 0.00 2.29
5562 6134 7.471890 TCCACCCCTACTTAAAAATAACACAT 58.528 34.615 0.00 0.00 0.00 3.21
5563 6135 6.850234 TCCACCCCTACTTAAAAATAACACA 58.150 36.000 0.00 0.00 0.00 3.72
5564 6136 7.170277 TCTCCACCCCTACTTAAAAATAACAC 58.830 38.462 0.00 0.00 0.00 3.32
5607 6316 1.501741 CGTTTTGTGCTGGGATCCG 59.498 57.895 5.45 0.00 0.00 4.18
5658 6367 1.538666 GAGGGGTGGGATGGAATGG 59.461 63.158 0.00 0.00 0.00 3.16
5668 6377 0.035439 ATAAACACAGCGAGGGGTGG 60.035 55.000 0.00 0.00 45.82 4.61
5669 6378 1.086696 CATAAACACAGCGAGGGGTG 58.913 55.000 0.00 0.00 46.91 4.61
5670 6379 0.690762 ACATAAACACAGCGAGGGGT 59.309 50.000 0.00 0.00 0.00 4.95
5671 6380 1.821216 AACATAAACACAGCGAGGGG 58.179 50.000 0.00 0.00 0.00 4.79
5688 6397 5.008613 TCTCTCCTGTGTAAATTGCACAAAC 59.991 40.000 16.95 0.00 44.86 2.93
5712 6421 6.558775 TGTTACCAGGCAATTATATCCTCTCT 59.441 38.462 0.00 0.00 0.00 3.10
5713 6422 6.769512 TGTTACCAGGCAATTATATCCTCTC 58.230 40.000 0.00 0.00 0.00 3.20
5714 6423 6.763715 TGTTACCAGGCAATTATATCCTCT 57.236 37.500 0.00 0.00 0.00 3.69
5715 6424 9.515226 TTATTGTTACCAGGCAATTATATCCTC 57.485 33.333 0.00 0.00 36.75 3.71
5725 6434 4.159506 GCCAGATTTATTGTTACCAGGCAA 59.840 41.667 0.00 0.00 38.27 4.52
5780 6677 5.411669 CAGATTACCACTTTACCAACCAGTC 59.588 44.000 0.00 0.00 0.00 3.51
5785 6682 3.442625 GGCCAGATTACCACTTTACCAAC 59.557 47.826 0.00 0.00 0.00 3.77
5786 6683 3.074687 TGGCCAGATTACCACTTTACCAA 59.925 43.478 0.00 0.00 0.00 3.67
5794 6691 4.035208 CGTTTTAGATGGCCAGATTACCAC 59.965 45.833 13.05 1.43 39.19 4.16
5795 6692 4.196193 CGTTTTAGATGGCCAGATTACCA 58.804 43.478 13.05 0.00 41.06 3.25
5796 6693 4.196971 ACGTTTTAGATGGCCAGATTACC 58.803 43.478 13.05 0.00 0.00 2.85
5797 6694 6.278363 TCTACGTTTTAGATGGCCAGATTAC 58.722 40.000 13.05 3.52 0.00 1.89
5798 6695 6.322969 TCTCTACGTTTTAGATGGCCAGATTA 59.677 38.462 13.05 0.00 0.00 1.75
5799 6696 5.128827 TCTCTACGTTTTAGATGGCCAGATT 59.871 40.000 13.05 1.03 0.00 2.40
5800 6697 4.649674 TCTCTACGTTTTAGATGGCCAGAT 59.350 41.667 13.05 4.36 0.00 2.90
5817 6714 8.735303 CATGCTGTATGTACAACTATCTCTAC 57.265 38.462 0.00 0.00 35.50 2.59
5842 6739 4.862574 TCAGAATCGTGTAACATGCTGTAC 59.137 41.667 0.00 0.00 34.57 2.90
5843 6740 5.066968 TCAGAATCGTGTAACATGCTGTA 57.933 39.130 0.00 0.00 34.57 2.74
5848 6745 6.963242 CCAGATTTTCAGAATCGTGTAACATG 59.037 38.462 0.00 0.00 35.74 3.21
5898 6799 3.197116 ACCACCTACTGGCTATGTTGTAC 59.803 47.826 0.00 0.00 45.32 2.90
5953 6854 7.589221 GTGTCTCTTTCTTAATCACAAGCTTTG 59.411 37.037 0.00 0.00 0.00 2.77
5965 6866 5.569630 GCCCTCTGATGTGTCTCTTTCTTAA 60.570 44.000 0.00 0.00 0.00 1.85
5977 6878 1.004044 ACTTCAAGGCCCTCTGATGTG 59.996 52.381 14.33 6.04 0.00 3.21
5981 6882 2.902608 TCTAACTTCAAGGCCCTCTGA 58.097 47.619 0.00 0.00 0.00 3.27
5982 6883 3.922171 ATCTAACTTCAAGGCCCTCTG 57.078 47.619 0.00 0.00 0.00 3.35
5983 6884 4.936685 AAATCTAACTTCAAGGCCCTCT 57.063 40.909 0.00 0.00 0.00 3.69
5984 6885 6.415573 TCTAAAATCTAACTTCAAGGCCCTC 58.584 40.000 0.00 0.00 0.00 4.30
5986 6887 6.460261 GCATCTAAAATCTAACTTCAAGGCCC 60.460 42.308 0.00 0.00 0.00 5.80


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

AutoCloner maintained by Alex Coulton.