Multiple sequence alignment - TraesCS2B01G320700

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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 TraesCS2B01G320700 chr2B 100.000 3461 0 0 1 3461 457338243 457334783 0.000000e+00 6392
1 TraesCS2B01G320700 chr2B 93.989 183 8 3 3220 3400 237980481 237980300 1.220000e-69 274
2 TraesCS2B01G320700 chr2A 92.559 3306 133 39 1 3237 522490369 522487108 0.000000e+00 4638
3 TraesCS2B01G320700 chr2A 95.402 174 8 0 3227 3400 726979529 726979356 9.460000e-71 278
4 TraesCS2B01G320700 chr2D 92.090 2718 115 38 592 3237 386482029 386479340 0.000000e+00 3736
5 TraesCS2B01G320700 chr2D 93.710 620 18 6 1 604 386483874 386483260 0.000000e+00 909
6 TraesCS2B01G320700 chr1B 97.619 168 4 0 3236 3403 534238701 534238534 4.370000e-74 289
7 TraesCS2B01G320700 chr6B 97.024 168 5 0 3235 3402 238152651 238152484 2.030000e-72 283
8 TraesCS2B01G320700 chr6B 95.402 174 7 1 3229 3402 559700505 559700333 3.400000e-70 276
9 TraesCS2B01G320700 chr1D 95.977 174 7 0 3227 3400 403374983 403375156 2.030000e-72 283
10 TraesCS2B01G320700 chr3B 95.954 173 7 0 3229 3401 246303843 246304015 7.310000e-72 281
11 TraesCS2B01G320700 chr3B 94.944 178 7 2 3225 3401 13620565 13620741 9.460000e-71 278
12 TraesCS2B01G320700 chr7D 93.923 181 10 1 3221 3400 346802283 346802103 4.400000e-69 272


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 TraesCS2B01G320700 chr2B 457334783 457338243 3460 True 6392.0 6392 100.000 1 3461 1 chr2B.!!$R2 3460
1 TraesCS2B01G320700 chr2A 522487108 522490369 3261 True 4638.0 4638 92.559 1 3237 1 chr2A.!!$R1 3236
2 TraesCS2B01G320700 chr2D 386479340 386483874 4534 True 2322.5 3736 92.900 1 3237 2 chr2D.!!$R1 3236

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
987 2270 1.213926 GGCTGGAGAGATCAATTGGGT 59.786 52.381 5.42 0.0 0.0 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2504 3795 0.391597 AGAACCGGATGAACACACGT 59.608 50.0 9.46 0.0 0.0 4.49 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
28 29 1.622811 CACTCCTGACTGCTCTTCCTT 59.377 52.381 0.00 0.00 0.00 3.36
42 43 4.321718 CTCTTCCTTGCATCTTCTTCACA 58.678 43.478 0.00 0.00 0.00 3.58
122 124 8.773645 CCCTTTCCACAATTTTTACATTTTCTC 58.226 33.333 0.00 0.00 0.00 2.87
140 142 6.985653 TTTCTCGAGGGAATGAGATTCTAT 57.014 37.500 13.56 0.00 40.68 1.98
257 265 2.751436 CCCCACATGCACCTTCCG 60.751 66.667 0.00 0.00 0.00 4.30
334 342 4.069304 TCAATCTTTGTTCCACCTAACCG 58.931 43.478 0.00 0.00 0.00 4.44
342 350 7.718753 TCTTTGTTCCACCTAACCGTATTAAAA 59.281 33.333 0.00 0.00 0.00 1.52
350 358 4.024641 CCTAACCGTATTAAAATGGCGTCC 60.025 45.833 0.00 0.00 0.00 4.79
354 362 3.813166 CCGTATTAAAATGGCGTCCATCT 59.187 43.478 11.08 5.58 44.40 2.90
379 387 4.761235 CTTGTCATAGCCAAGCCATATG 57.239 45.455 0.00 0.00 33.55 1.78
380 388 2.507484 TGTCATAGCCAAGCCATATGC 58.493 47.619 0.00 0.00 41.71 3.14
397 405 8.001881 GCCATATGCTACTATAGTACATCTGT 57.998 38.462 21.24 12.24 36.87 3.41
398 406 9.121658 GCCATATGCTACTATAGTACATCTGTA 57.878 37.037 21.24 9.18 36.87 2.74
428 436 1.272425 CCCACCTCCATTTGGTTAGCA 60.272 52.381 0.00 0.00 35.28 3.49
429 437 1.818674 CCACCTCCATTTGGTTAGCAC 59.181 52.381 0.00 0.00 35.28 4.40
430 438 2.513753 CACCTCCATTTGGTTAGCACA 58.486 47.619 0.00 0.00 35.28 4.57
640 1910 2.561419 GCAGCCGGTAGATGATAGGTTA 59.439 50.000 1.90 0.00 0.00 2.85
679 1949 1.272212 CTTGCGCATAAAACAAGGGGT 59.728 47.619 12.75 0.00 37.68 4.95
830 2100 3.070302 AGCGGAACATCTAGATTCCCTTC 59.930 47.826 16.25 9.10 41.26 3.46
932 2205 2.338500 GCCGATCTCCATTAATCGTCC 58.662 52.381 4.33 0.00 42.41 4.79
933 2206 2.931320 GCCGATCTCCATTAATCGTCCC 60.931 54.545 4.33 0.00 42.41 4.46
934 2207 2.353803 CCGATCTCCATTAATCGTCCCC 60.354 54.545 4.33 0.00 42.41 4.81
987 2270 1.213926 GGCTGGAGAGATCAATTGGGT 59.786 52.381 5.42 0.00 0.00 4.51
1035 2318 0.249398 GTCTAGGCGTCAATGGTGGT 59.751 55.000 0.00 0.00 0.00 4.16
1073 2356 3.499737 CAAGGTGATGGACGGCGC 61.500 66.667 6.90 0.00 0.00 6.53
1074 2357 4.015406 AAGGTGATGGACGGCGCA 62.015 61.111 10.83 0.00 0.00 6.09
1116 2399 4.124351 GGTGACGGCGGTGATCGA 62.124 66.667 13.24 0.00 42.43 3.59
1117 2400 2.104331 GTGACGGCGGTGATCGAT 59.896 61.111 13.24 0.00 42.43 3.59
1129 2412 1.863454 GTGATCGATCCACTGTCATGC 59.137 52.381 22.31 0.00 0.00 4.06
1158 2441 1.596477 GGCCAGAGATCGCATGGTC 60.596 63.158 0.00 8.70 36.43 4.02
1197 2480 0.970937 ACGACGGGGATGTGAGTGAT 60.971 55.000 0.00 0.00 0.00 3.06
1302 2585 3.082579 GCAGGAGGTCTACCGGCAG 62.083 68.421 0.00 0.00 45.21 4.85
1407 2693 2.470286 GCGAAGGCGAAGACAACG 59.530 61.111 0.00 0.00 39.87 4.10
1408 2694 2.019951 GCGAAGGCGAAGACAACGA 61.020 57.895 0.00 0.00 39.87 3.85
1409 2695 1.773496 CGAAGGCGAAGACAACGAC 59.227 57.895 0.00 0.00 39.87 4.34
1410 2696 1.773496 GAAGGCGAAGACAACGACG 59.227 57.895 0.00 0.00 39.87 5.12
1411 2697 0.662374 GAAGGCGAAGACAACGACGA 60.662 55.000 0.00 0.00 39.87 4.20
1412 2698 0.938168 AAGGCGAAGACAACGACGAC 60.938 55.000 0.00 0.00 39.87 4.34
1413 2699 2.704193 GGCGAAGACAACGACGACG 61.704 63.158 5.58 5.58 40.21 5.12
1414 2700 1.723542 GCGAAGACAACGACGACGA 60.724 57.895 15.32 0.00 42.66 4.20
1415 2701 1.917151 GCGAAGACAACGACGACGAC 61.917 60.000 15.32 0.00 42.66 4.34
1416 2702 1.641604 CGAAGACAACGACGACGACG 61.642 60.000 17.60 17.60 42.66 5.12
1417 2703 0.383491 GAAGACAACGACGACGACGA 60.383 55.000 25.15 0.00 42.66 4.20
1418 2704 0.655626 AAGACAACGACGACGACGAC 60.656 55.000 25.15 7.02 42.66 4.34
1506 2792 3.737172 GCGCACTTCACGGCCAAT 61.737 61.111 0.30 0.00 0.00 3.16
1638 2924 4.416738 GCCACCACCAGCTCCTCC 62.417 72.222 0.00 0.00 0.00 4.30
1639 2925 4.087892 CCACCACCAGCTCCTCCG 62.088 72.222 0.00 0.00 0.00 4.63
1641 2927 2.681778 ACCACCAGCTCCTCCGAG 60.682 66.667 0.00 0.00 39.33 4.63
1841 3127 2.100846 GCCATGAGCGCATCAAGAA 58.899 52.632 11.47 0.00 42.53 2.52
1842 3128 0.666913 GCCATGAGCGCATCAAGAAT 59.333 50.000 11.47 0.00 42.53 2.40
1915 3201 1.152247 AGGCCGAGCTCATGGGATA 60.152 57.895 15.40 0.00 0.00 2.59
1978 3264 2.525368 TGGTCTTCCTGATCGACAAGA 58.475 47.619 0.00 0.00 34.23 3.02
1995 3281 3.701604 GATCGACGAAGGCAGCGGT 62.702 63.158 0.00 0.00 0.00 5.68
2157 3446 2.418910 CCTCGGCGTGGAGATCAGT 61.419 63.158 22.66 0.00 36.08 3.41
2175 3464 0.175760 GTGACGCAATGGCCTCTCTA 59.824 55.000 3.32 0.00 36.38 2.43
2217 3506 4.933064 CTCGCGGCGGACCAGATC 62.933 72.222 23.46 0.00 34.57 2.75
2283 3572 2.757917 AGGCTGAGCTCGAGGACC 60.758 66.667 15.58 5.75 0.00 4.46
2461 3750 1.743252 GGCAAGAACGAGCCCTGAG 60.743 63.158 0.00 0.00 45.18 3.35
2504 3795 7.389607 TCATTCGGTACATAGATCGTGATAGAA 59.610 37.037 7.95 7.79 0.00 2.10
2511 3802 5.066117 ACATAGATCGTGATAGAACGTGTGT 59.934 40.000 7.95 0.00 43.96 3.72
2534 3825 2.265589 TCCGGTTCTTCTTGGTTTCC 57.734 50.000 0.00 0.00 0.00 3.13
2551 3845 6.795590 TGGTTTCCTCATTGGTTCCTTATTA 58.204 36.000 0.00 0.00 37.07 0.98
2577 3877 7.038373 AGGAGAGAGAGCTTGATTCTTAGTTTT 60.038 37.037 0.00 0.00 0.00 2.43
2578 3878 7.606073 GGAGAGAGAGCTTGATTCTTAGTTTTT 59.394 37.037 0.00 0.00 0.00 1.94
2704 4015 9.832445 ATCATTTTATCCTCAAATACGTACTGT 57.168 29.630 0.00 0.00 0.00 3.55
2764 4102 1.100510 CATGGTTGGCAGTGATGAGG 58.899 55.000 0.00 0.00 0.00 3.86
2781 4119 8.109634 AGTGATGAGGTTTAATATGGTGAGTTT 58.890 33.333 0.00 0.00 0.00 2.66
2867 4216 1.495584 TTGCTTCGACTCCAACACGC 61.496 55.000 0.00 0.00 0.00 5.34
2893 4243 4.632327 AAGCATATCCTTCCTTCCTAGC 57.368 45.455 0.00 0.00 0.00 3.42
2894 4244 3.591789 AGCATATCCTTCCTTCCTAGCA 58.408 45.455 0.00 0.00 0.00 3.49
2895 4245 3.582208 AGCATATCCTTCCTTCCTAGCAG 59.418 47.826 0.00 0.00 0.00 4.24
2896 4246 3.326297 GCATATCCTTCCTTCCTAGCAGT 59.674 47.826 0.00 0.00 0.00 4.40
2897 4247 4.528596 GCATATCCTTCCTTCCTAGCAGTA 59.471 45.833 0.00 0.00 0.00 2.74
2900 4250 7.631811 GCATATCCTTCCTTCCTAGCAGTATAC 60.632 44.444 0.00 0.00 0.00 1.47
2910 4260 9.915629 CCTTCCTAGCAGTATACTATAAAACAG 57.084 37.037 4.74 0.00 0.00 3.16
2925 4275 2.957402 AACAGTGAAGGGATCTGCAA 57.043 45.000 0.00 0.00 28.52 4.08
2934 4284 0.749049 GGGATCTGCAATGGAAAGGC 59.251 55.000 0.00 0.00 0.00 4.35
3138 4488 8.899427 ATAATTGTCATCTACAGTGAAGATGG 57.101 34.615 11.82 0.00 46.81 3.51
3139 4489 6.550938 ATTGTCATCTACAGTGAAGATGGA 57.449 37.500 11.82 2.21 46.81 3.41
3140 4490 6.550938 TTGTCATCTACAGTGAAGATGGAT 57.449 37.500 11.82 0.00 46.81 3.41
3141 4491 6.154203 TGTCATCTACAGTGAAGATGGATC 57.846 41.667 11.82 5.74 46.81 3.36
3159 4509 3.192422 GGATCGGATCGACAGAGATCATT 59.808 47.826 11.62 0.00 46.55 2.57
3160 4510 4.396478 GGATCGGATCGACAGAGATCATTA 59.604 45.833 11.62 0.00 46.55 1.90
3237 4587 5.009310 TCCAATCATCTTTCATGCATGCTAC 59.991 40.000 22.25 0.00 0.00 3.58
3238 4588 5.009710 CCAATCATCTTTCATGCATGCTACT 59.990 40.000 22.25 0.25 0.00 2.57
3239 4589 5.943706 ATCATCTTTCATGCATGCTACTC 57.056 39.130 22.25 0.00 0.00 2.59
3240 4590 4.132336 TCATCTTTCATGCATGCTACTCC 58.868 43.478 22.25 0.00 0.00 3.85
3241 4591 2.923121 TCTTTCATGCATGCTACTCCC 58.077 47.619 22.25 0.00 0.00 4.30
3242 4592 2.507058 TCTTTCATGCATGCTACTCCCT 59.493 45.455 22.25 0.00 0.00 4.20
3243 4593 2.627515 TTCATGCATGCTACTCCCTC 57.372 50.000 22.25 0.00 0.00 4.30
3244 4594 0.761187 TCATGCATGCTACTCCCTCC 59.239 55.000 22.25 0.00 0.00 4.30
3245 4595 0.602106 CATGCATGCTACTCCCTCCG 60.602 60.000 20.33 0.00 0.00 4.63
3246 4596 1.050988 ATGCATGCTACTCCCTCCGT 61.051 55.000 20.33 0.00 0.00 4.69
3247 4597 1.264749 TGCATGCTACTCCCTCCGTT 61.265 55.000 20.33 0.00 0.00 4.44
3248 4598 0.530870 GCATGCTACTCCCTCCGTTC 60.531 60.000 11.37 0.00 0.00 3.95
3249 4599 0.105039 CATGCTACTCCCTCCGTTCC 59.895 60.000 0.00 0.00 0.00 3.62
3250 4600 1.049289 ATGCTACTCCCTCCGTTCCC 61.049 60.000 0.00 0.00 0.00 3.97
3251 4601 1.684734 GCTACTCCCTCCGTTCCCA 60.685 63.158 0.00 0.00 0.00 4.37
3252 4602 1.262640 GCTACTCCCTCCGTTCCCAA 61.263 60.000 0.00 0.00 0.00 4.12
3253 4603 1.272807 CTACTCCCTCCGTTCCCAAA 58.727 55.000 0.00 0.00 0.00 3.28
3254 4604 1.838077 CTACTCCCTCCGTTCCCAAAT 59.162 52.381 0.00 0.00 0.00 2.32
3255 4605 1.961133 ACTCCCTCCGTTCCCAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3256 4606 2.271777 ACTCCCTCCGTTCCCAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
3257 4607 2.850568 ACTCCCTCCGTTCCCAAATAAT 59.149 45.455 0.00 0.00 0.00 1.28
3258 4608 3.268595 ACTCCCTCCGTTCCCAAATAATT 59.731 43.478 0.00 0.00 0.00 1.40
3259 4609 3.626930 TCCCTCCGTTCCCAAATAATTG 58.373 45.455 0.00 0.00 36.25 2.32
3260 4610 3.010808 TCCCTCCGTTCCCAAATAATTGT 59.989 43.478 0.00 0.00 34.60 2.71
3261 4611 3.380320 CCCTCCGTTCCCAAATAATTGTC 59.620 47.826 0.00 0.00 34.60 3.18
3262 4612 4.270008 CCTCCGTTCCCAAATAATTGTCT 58.730 43.478 0.00 0.00 34.60 3.41
3263 4613 4.705023 CCTCCGTTCCCAAATAATTGTCTT 59.295 41.667 0.00 0.00 34.60 3.01
3264 4614 5.185056 CCTCCGTTCCCAAATAATTGTCTTT 59.815 40.000 0.00 0.00 34.60 2.52
3265 4615 6.262193 TCCGTTCCCAAATAATTGTCTTTC 57.738 37.500 0.00 0.00 34.60 2.62
3266 4616 6.007703 TCCGTTCCCAAATAATTGTCTTTCT 58.992 36.000 0.00 0.00 34.60 2.52
3267 4617 7.169591 TCCGTTCCCAAATAATTGTCTTTCTA 58.830 34.615 0.00 0.00 34.60 2.10
3268 4618 7.666388 TCCGTTCCCAAATAATTGTCTTTCTAA 59.334 33.333 0.00 0.00 34.60 2.10
3269 4619 7.753580 CCGTTCCCAAATAATTGTCTTTCTAAC 59.246 37.037 0.00 0.00 34.60 2.34
3270 4620 7.753580 CGTTCCCAAATAATTGTCTTTCTAACC 59.246 37.037 0.00 0.00 34.60 2.85
3271 4621 8.581578 GTTCCCAAATAATTGTCTTTCTAACCA 58.418 33.333 0.00 0.00 34.60 3.67
3272 4622 8.893563 TCCCAAATAATTGTCTTTCTAACCAT 57.106 30.769 0.00 0.00 34.60 3.55
3273 4623 8.966868 TCCCAAATAATTGTCTTTCTAACCATC 58.033 33.333 0.00 0.00 34.60 3.51
3274 4624 8.971073 CCCAAATAATTGTCTTTCTAACCATCT 58.029 33.333 0.00 0.00 34.60 2.90
3282 4632 9.753674 ATTGTCTTTCTAACCATCTTAAATGGA 57.246 29.630 18.02 0.00 41.64 3.41
3283 4633 8.561738 TGTCTTTCTAACCATCTTAAATGGAC 57.438 34.615 18.02 7.98 41.64 4.02
3284 4634 8.383175 TGTCTTTCTAACCATCTTAAATGGACT 58.617 33.333 18.02 10.21 41.64 3.85
3285 4635 9.886132 GTCTTTCTAACCATCTTAAATGGACTA 57.114 33.333 18.02 10.61 41.64 2.59
3286 4636 9.886132 TCTTTCTAACCATCTTAAATGGACTAC 57.114 33.333 18.02 0.00 41.64 2.73
3287 4637 9.667107 CTTTCTAACCATCTTAAATGGACTACA 57.333 33.333 18.02 0.00 41.64 2.74
3289 4639 9.444600 TTCTAACCATCTTAAATGGACTACAAC 57.555 33.333 18.02 0.00 41.64 3.32
3290 4640 8.598916 TCTAACCATCTTAAATGGACTACAACA 58.401 33.333 18.02 0.00 41.64 3.33
3291 4641 9.396022 CTAACCATCTTAAATGGACTACAACAT 57.604 33.333 18.02 0.00 41.64 2.71
3293 4643 8.732746 ACCATCTTAAATGGACTACAACATAC 57.267 34.615 18.02 0.00 41.64 2.39
3294 4644 7.494625 ACCATCTTAAATGGACTACAACATACG 59.505 37.037 18.02 0.00 41.64 3.06
3295 4645 7.042051 CCATCTTAAATGGACTACAACATACGG 60.042 40.741 9.73 0.00 41.64 4.02
3296 4646 7.172868 TCTTAAATGGACTACAACATACGGA 57.827 36.000 0.00 0.00 0.00 4.69
3297 4647 7.788026 TCTTAAATGGACTACAACATACGGAT 58.212 34.615 0.00 0.00 0.00 4.18
3298 4648 7.709182 TCTTAAATGGACTACAACATACGGATG 59.291 37.037 5.94 5.94 39.16 3.51
3300 4650 6.474140 AATGGACTACAACATACGGATGTA 57.526 37.500 15.10 0.00 45.93 2.29
3301 4651 6.665992 ATGGACTACAACATACGGATGTAT 57.334 37.500 15.10 8.21 45.93 2.29
3316 4666 7.766219 ACGGATGTATGTAGACATGTTTTAC 57.234 36.000 0.00 7.13 40.18 2.01
3317 4667 7.324935 ACGGATGTATGTAGACATGTTTTACA 58.675 34.615 19.91 19.91 40.18 2.41
3318 4668 7.491372 ACGGATGTATGTAGACATGTTTTACAG 59.509 37.037 21.28 12.71 40.18 2.74
3319 4669 7.491372 CGGATGTATGTAGACATGTTTTACAGT 59.509 37.037 21.28 14.79 40.18 3.55
3320 4670 8.604035 GGATGTATGTAGACATGTTTTACAGTG 58.396 37.037 21.28 0.00 40.18 3.66
3321 4671 9.151471 GATGTATGTAGACATGTTTTACAGTGT 57.849 33.333 21.28 0.00 40.18 3.55
3323 4673 9.634163 TGTATGTAGACATGTTTTACAGTGTAG 57.366 33.333 21.28 0.00 37.15 2.74
3324 4674 9.850628 GTATGTAGACATGTTTTACAGTGTAGA 57.149 33.333 21.28 0.00 37.15 2.59
3326 4676 9.944376 ATGTAGACATGTTTTACAGTGTAGATT 57.056 29.630 21.28 7.00 34.83 2.40
3327 4677 9.419297 TGTAGACATGTTTTACAGTGTAGATTC 57.581 33.333 15.95 0.00 0.00 2.52
3328 4678 9.419297 GTAGACATGTTTTACAGTGTAGATTCA 57.581 33.333 0.00 2.97 0.00 2.57
3329 4679 8.311650 AGACATGTTTTACAGTGTAGATTCAC 57.688 34.615 0.00 0.00 38.46 3.18
3331 4681 8.311650 ACATGTTTTACAGTGTAGATTCACTC 57.688 34.615 2.68 0.00 45.37 3.51
3332 4682 7.931407 ACATGTTTTACAGTGTAGATTCACTCA 59.069 33.333 2.68 0.00 45.37 3.41
3333 4683 8.939929 CATGTTTTACAGTGTAGATTCACTCAT 58.060 33.333 2.68 0.12 45.37 2.90
3334 4684 8.902540 TGTTTTACAGTGTAGATTCACTCATT 57.097 30.769 2.68 0.00 45.37 2.57
3335 4685 9.337396 TGTTTTACAGTGTAGATTCACTCATTT 57.663 29.630 2.68 0.00 45.37 2.32
3338 4688 6.246420 ACAGTGTAGATTCACTCATTTTGC 57.754 37.500 0.00 0.00 45.37 3.68
3339 4689 6.000219 ACAGTGTAGATTCACTCATTTTGCT 59.000 36.000 0.00 0.00 45.37 3.91
3340 4690 6.488006 ACAGTGTAGATTCACTCATTTTGCTT 59.512 34.615 0.00 0.00 45.37 3.91
3341 4691 7.020010 CAGTGTAGATTCACTCATTTTGCTTC 58.980 38.462 0.00 0.00 45.37 3.86
3342 4692 6.017933 GTGTAGATTCACTCATTTTGCTTCG 58.982 40.000 0.00 0.00 35.68 3.79
3343 4693 5.700832 TGTAGATTCACTCATTTTGCTTCGT 59.299 36.000 0.00 0.00 0.00 3.85
3344 4694 6.871492 TGTAGATTCACTCATTTTGCTTCGTA 59.129 34.615 0.00 0.00 0.00 3.43
3345 4695 6.992063 AGATTCACTCATTTTGCTTCGTAT 57.008 33.333 0.00 0.00 0.00 3.06
3346 4696 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
3347 4697 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
3348 4698 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
3349 4699 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
3350 4700 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
3351 4701 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
3352 4702 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
3353 4703 6.090898 ACTCATTTTGCTTCGTATGTAGTCAC 59.909 38.462 0.00 0.00 0.00 3.67
3354 4704 6.163476 TCATTTTGCTTCGTATGTAGTCACT 58.837 36.000 0.00 0.00 0.00 3.41
3355 4705 6.649141 TCATTTTGCTTCGTATGTAGTCACTT 59.351 34.615 0.00 0.00 0.00 3.16
3356 4706 5.839262 TTTGCTTCGTATGTAGTCACTTG 57.161 39.130 0.00 0.00 0.00 3.16
3357 4707 4.514781 TGCTTCGTATGTAGTCACTTGT 57.485 40.909 0.00 0.00 0.00 3.16
3358 4708 4.878439 TGCTTCGTATGTAGTCACTTGTT 58.122 39.130 0.00 0.00 0.00 2.83
3359 4709 4.684242 TGCTTCGTATGTAGTCACTTGTTG 59.316 41.667 0.00 0.00 0.00 3.33
3360 4710 4.921515 GCTTCGTATGTAGTCACTTGTTGA 59.078 41.667 0.00 0.00 0.00 3.18
3361 4711 5.404366 GCTTCGTATGTAGTCACTTGTTGAA 59.596 40.000 0.00 0.00 35.39 2.69
3362 4712 6.073980 GCTTCGTATGTAGTCACTTGTTGAAA 60.074 38.462 0.00 0.00 35.39 2.69
3363 4713 7.360101 GCTTCGTATGTAGTCACTTGTTGAAAT 60.360 37.037 0.00 0.00 35.39 2.17
3364 4714 7.576750 TCGTATGTAGTCACTTGTTGAAATC 57.423 36.000 0.00 0.00 35.39 2.17
3365 4715 7.375834 TCGTATGTAGTCACTTGTTGAAATCT 58.624 34.615 0.00 0.00 35.39 2.40
3366 4716 7.870954 TCGTATGTAGTCACTTGTTGAAATCTT 59.129 33.333 0.00 0.00 35.39 2.40
3367 4717 8.495949 CGTATGTAGTCACTTGTTGAAATCTTT 58.504 33.333 0.00 0.00 35.39 2.52
3370 4720 9.778741 ATGTAGTCACTTGTTGAAATCTTTAGA 57.221 29.630 0.00 0.00 35.39 2.10
3371 4721 9.607988 TGTAGTCACTTGTTGAAATCTTTAGAA 57.392 29.630 0.00 0.00 35.39 2.10
3374 4724 9.396022 AGTCACTTGTTGAAATCTTTAGAAAGA 57.604 29.630 7.15 7.15 41.72 2.52
3375 4725 9.439537 GTCACTTGTTGAAATCTTTAGAAAGAC 57.560 33.333 6.85 0.00 40.95 3.01
3376 4726 9.173021 TCACTTGTTGAAATCTTTAGAAAGACA 57.827 29.630 6.85 0.00 46.80 3.41
3377 4727 9.787532 CACTTGTTGAAATCTTTAGAAAGACAA 57.212 29.630 6.85 4.98 46.80 3.18
3392 4742 9.947433 TTAGAAAGACAATTATTTAGGAACGGA 57.053 29.630 0.00 0.00 0.00 4.69
3393 4743 8.494016 AGAAAGACAATTATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
3394 4744 7.553044 AGAAAGACAATTATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
3395 4745 5.681639 AGACAATTATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
3396 4746 5.427481 AGACAATTATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
3397 4747 5.681639 ACAATTATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
3398 4748 5.191124 ACAATTATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
3399 4749 6.384886 ACAATTATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
3400 4750 6.667558 ATTATTTAGGAACGGAGGGAGTAG 57.332 41.667 0.00 0.00 0.00 2.57
3401 4751 3.463048 TTTAGGAACGGAGGGAGTAGT 57.537 47.619 0.00 0.00 0.00 2.73
3402 4752 4.591321 TTTAGGAACGGAGGGAGTAGTA 57.409 45.455 0.00 0.00 0.00 1.82
3403 4753 2.732844 AGGAACGGAGGGAGTAGTAG 57.267 55.000 0.00 0.00 0.00 2.57
3404 4754 1.031235 GGAACGGAGGGAGTAGTAGC 58.969 60.000 0.00 0.00 0.00 3.58
3405 4755 1.031235 GAACGGAGGGAGTAGTAGCC 58.969 60.000 0.00 0.00 0.00 3.93
3406 4756 0.333993 AACGGAGGGAGTAGTAGCCA 59.666 55.000 0.00 0.00 0.00 4.75
3407 4757 0.556747 ACGGAGGGAGTAGTAGCCAT 59.443 55.000 0.00 0.00 0.00 4.40
3408 4758 1.063114 ACGGAGGGAGTAGTAGCCATT 60.063 52.381 0.00 0.00 0.00 3.16
3409 4759 2.040178 CGGAGGGAGTAGTAGCCATTT 58.960 52.381 0.00 0.00 0.00 2.32
3410 4760 2.224066 CGGAGGGAGTAGTAGCCATTTG 60.224 54.545 0.00 0.00 0.00 2.32
3411 4761 3.039011 GGAGGGAGTAGTAGCCATTTGA 58.961 50.000 0.00 0.00 0.00 2.69
3412 4762 3.648545 GGAGGGAGTAGTAGCCATTTGAT 59.351 47.826 0.00 0.00 0.00 2.57
3413 4763 4.262678 GGAGGGAGTAGTAGCCATTTGATC 60.263 50.000 0.00 0.00 0.00 2.92
3414 4764 3.648545 AGGGAGTAGTAGCCATTTGATCC 59.351 47.826 0.00 0.00 0.00 3.36
3415 4765 3.648545 GGGAGTAGTAGCCATTTGATCCT 59.351 47.826 0.00 0.00 0.00 3.24
3416 4766 4.503991 GGGAGTAGTAGCCATTTGATCCTG 60.504 50.000 0.00 0.00 0.00 3.86
3417 4767 4.101741 GGAGTAGTAGCCATTTGATCCTGT 59.898 45.833 0.00 0.00 0.00 4.00
3418 4768 5.028549 AGTAGTAGCCATTTGATCCTGTG 57.971 43.478 0.00 0.00 0.00 3.66
3419 4769 3.287867 AGTAGCCATTTGATCCTGTGG 57.712 47.619 3.65 3.65 34.84 4.17
3420 4770 2.578021 AGTAGCCATTTGATCCTGTGGT 59.422 45.455 8.56 0.90 34.23 4.16
3421 4771 2.134789 AGCCATTTGATCCTGTGGTC 57.865 50.000 8.56 2.98 34.23 4.02
3422 4772 0.734889 GCCATTTGATCCTGTGGTCG 59.265 55.000 8.56 0.00 34.23 4.79
3423 4773 1.950484 GCCATTTGATCCTGTGGTCGT 60.950 52.381 8.56 0.00 34.23 4.34
3424 4774 1.739466 CCATTTGATCCTGTGGTCGTG 59.261 52.381 0.00 0.00 0.00 4.35
3425 4775 2.615240 CCATTTGATCCTGTGGTCGTGA 60.615 50.000 0.00 0.00 0.00 4.35
3426 4776 2.455674 TTTGATCCTGTGGTCGTGAG 57.544 50.000 0.00 0.00 0.00 3.51
3427 4777 1.627864 TTGATCCTGTGGTCGTGAGA 58.372 50.000 0.00 0.00 38.16 3.27
3428 4778 1.177401 TGATCCTGTGGTCGTGAGAG 58.823 55.000 0.00 0.00 43.49 3.20
3429 4779 0.457851 GATCCTGTGGTCGTGAGAGG 59.542 60.000 0.00 0.00 43.49 3.69
3430 4780 0.251832 ATCCTGTGGTCGTGAGAGGT 60.252 55.000 0.00 0.00 43.49 3.85
3431 4781 0.402887 TCCTGTGGTCGTGAGAGGTA 59.597 55.000 0.00 0.00 43.49 3.08
3432 4782 0.526662 CCTGTGGTCGTGAGAGGTAC 59.473 60.000 0.00 0.00 43.49 3.34
3451 4801 6.124340 AGGTACTCCTACTTCTTCTTAGAGC 58.876 44.000 0.00 0.00 43.12 4.09
3452 4802 5.887035 GGTACTCCTACTTCTTCTTAGAGCA 59.113 44.000 0.00 0.00 0.00 4.26
3453 4803 5.907866 ACTCCTACTTCTTCTTAGAGCAC 57.092 43.478 0.00 0.00 0.00 4.40
3454 4804 4.707934 ACTCCTACTTCTTCTTAGAGCACC 59.292 45.833 0.00 0.00 0.00 5.01
3455 4805 3.695060 TCCTACTTCTTCTTAGAGCACCG 59.305 47.826 0.00 0.00 0.00 4.94
3456 4806 3.181485 CCTACTTCTTCTTAGAGCACCGG 60.181 52.174 0.00 0.00 0.00 5.28
3457 4807 1.550976 ACTTCTTCTTAGAGCACCGGG 59.449 52.381 6.32 0.00 0.00 5.73
3458 4808 1.550976 CTTCTTCTTAGAGCACCGGGT 59.449 52.381 6.32 0.00 0.00 5.28
3459 4809 1.640917 TCTTCTTAGAGCACCGGGTT 58.359 50.000 6.32 0.00 0.00 4.11
3460 4810 1.975680 TCTTCTTAGAGCACCGGGTTT 59.024 47.619 6.32 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 3.777106 AGGAGTTGTGAAGAAGATGCA 57.223 42.857 0.00 0.00 0.00 3.96
42 43 3.981375 AGGTGAAAAAGGGACTAGGAGTT 59.019 43.478 0.00 0.00 38.49 3.01
122 124 5.720371 AGTCATAGAATCTCATTCCCTCG 57.280 43.478 0.00 0.00 40.13 4.63
140 142 5.875224 TGGACATGGAATCAGTAAAAGTCA 58.125 37.500 0.00 0.00 0.00 3.41
257 265 4.143514 CGTGTTCAAACTCGTGATTCTCTC 60.144 45.833 8.69 0.00 40.02 3.20
334 342 5.106673 GCCTAGATGGACGCCATTTTAATAC 60.107 44.000 11.82 0.00 45.26 1.89
428 436 5.086104 AGATCCGCTTTTACACTGTATGT 57.914 39.130 0.00 0.00 46.06 2.29
429 437 5.727791 GCAAGATCCGCTTTTACACTGTATG 60.728 44.000 0.00 0.00 33.60 2.39
430 438 4.332819 GCAAGATCCGCTTTTACACTGTAT 59.667 41.667 0.00 0.00 33.60 2.29
640 1910 2.406559 AGGATCTATCTGCCAAGTGCT 58.593 47.619 0.00 0.00 42.00 4.40
679 1949 2.049185 GGAGTGCTCGCCTCTCAGA 61.049 63.158 0.85 0.00 0.00 3.27
830 2100 3.317430 GGAGGGGTATATATAAGCGACCG 59.683 52.174 0.00 0.00 0.00 4.79
887 2157 2.350537 GAGACGTACGTAGCGGCG 60.351 66.667 22.87 0.51 43.06 6.46
915 2188 3.336138 GGGGGACGATTAATGGAGATC 57.664 52.381 4.29 0.00 0.00 2.75
932 2205 3.781770 CTCAGAAGCTAGCGCGGGG 62.782 68.421 8.83 2.57 42.32 5.73
933 2206 2.279120 CTCAGAAGCTAGCGCGGG 60.279 66.667 8.83 0.00 42.32 6.13
934 2207 2.959071 GCTCAGAAGCTAGCGCGG 60.959 66.667 8.83 6.75 45.55 6.46
951 2224 2.430332 CCAGCCTCTCCTGTCTAAGAAG 59.570 54.545 0.00 0.00 0.00 2.85
987 2270 3.117851 TCAGGTTCATGTACACCCAAACA 60.118 43.478 0.00 0.00 32.92 2.83
1116 2399 1.153289 GAGCCGCATGACAGTGGAT 60.153 57.895 0.00 2.64 41.75 3.41
1117 2400 2.265739 GAGCCGCATGACAGTGGA 59.734 61.111 0.00 0.00 41.75 4.02
1158 2441 2.158449 GTCGTGATCAAGCTCAACCTTG 59.842 50.000 3.49 0.00 42.73 3.61
1407 2693 2.566765 GTCGTCGTCGTCGTCGTC 60.567 66.667 18.44 11.28 45.27 4.20
1408 2694 4.400776 CGTCGTCGTCGTCGTCGT 62.401 66.667 18.87 0.00 45.27 4.34
1409 2695 4.108437 TCGTCGTCGTCGTCGTCG 62.108 66.667 20.39 20.39 45.27 5.12
1410 2696 2.566765 GTCGTCGTCGTCGTCGTC 60.567 66.667 18.44 11.28 45.27 4.20
1411 2697 2.993144 GAGTCGTCGTCGTCGTCGT 61.993 63.158 18.44 3.54 45.27 4.34
1412 2698 2.275081 GAGTCGTCGTCGTCGTCG 60.275 66.667 14.18 14.18 46.06 5.12
1413 2699 2.275081 CGAGTCGTCGTCGTCGTC 60.275 66.667 11.41 6.41 41.57 4.20
1503 2789 0.816825 CCTCCACGATGGCCTGATTG 60.817 60.000 3.32 0.00 37.47 2.67
1506 2792 3.785859 GCCTCCACGATGGCCTGA 61.786 66.667 3.32 0.00 43.11 3.86
1978 3264 3.760035 ACCGCTGCCTTCGTCGAT 61.760 61.111 0.00 0.00 0.00 3.59
2004 3293 2.125147 CTTCCGCATCTTCCGGCA 60.125 61.111 0.00 0.00 45.19 5.69
2039 3328 4.699522 GGAGGTTGGCCGCGAACT 62.700 66.667 16.55 0.00 40.50 3.01
2217 3506 1.738099 CTCCTTCCAACCGCGACTG 60.738 63.158 8.23 3.67 0.00 3.51
2283 3572 4.749310 AGCTTCGCCTGGCTCACG 62.749 66.667 17.92 0.47 32.98 4.35
2461 3750 1.062525 GAATGAATGGGCGCGTGTC 59.937 57.895 8.43 0.00 0.00 3.67
2504 3795 0.391597 AGAACCGGATGAACACACGT 59.608 50.000 9.46 0.00 0.00 4.49
2511 3802 3.502123 AACCAAGAAGAACCGGATGAA 57.498 42.857 9.46 0.00 0.00 2.57
2519 3810 4.584743 ACCAATGAGGAAACCAAGAAGAAC 59.415 41.667 0.00 0.00 41.22 3.01
2551 3845 5.518865 ACTAAGAATCAAGCTCTCTCTCCT 58.481 41.667 0.00 0.00 0.00 3.69
2649 3954 7.351981 TGTGTATATCAACGTACGTATGGTAC 58.648 38.462 23.12 19.09 46.54 3.34
2652 3957 7.079475 TCATGTGTATATCAACGTACGTATGG 58.921 38.462 23.12 14.30 0.00 2.74
2694 4005 9.132521 GCGGTTAATTATTCATACAGTACGTAT 57.867 33.333 0.00 5.04 41.74 3.06
2697 4008 7.397512 TGCGGTTAATTATTCATACAGTACG 57.602 36.000 0.00 0.00 0.00 3.67
2699 4010 8.984764 GTGATGCGGTTAATTATTCATACAGTA 58.015 33.333 0.00 0.00 0.00 2.74
2701 4012 7.009440 CGTGATGCGGTTAATTATTCATACAG 58.991 38.462 0.00 0.00 36.85 2.74
2702 4013 6.702282 TCGTGATGCGGTTAATTATTCATACA 59.298 34.615 0.00 0.00 41.72 2.29
2703 4014 7.112528 TCGTGATGCGGTTAATTATTCATAC 57.887 36.000 0.00 0.00 41.72 2.39
2704 4015 6.128661 GCTCGTGATGCGGTTAATTATTCATA 60.129 38.462 0.00 0.00 41.72 2.15
2705 4016 5.334105 GCTCGTGATGCGGTTAATTATTCAT 60.334 40.000 0.00 0.00 41.72 2.57
2706 4017 4.025229 GCTCGTGATGCGGTTAATTATTCA 60.025 41.667 0.00 0.00 41.72 2.57
2707 4018 4.455124 GCTCGTGATGCGGTTAATTATTC 58.545 43.478 0.00 0.00 41.72 1.75
2730 4041 1.668751 ACCATGGTTAATTAGCGCACG 59.331 47.619 13.00 0.00 0.00 5.34
2731 4042 3.434637 CAACCATGGTTAATTAGCGCAC 58.565 45.455 29.36 0.00 36.46 5.34
2754 4092 7.050377 ACTCACCATATTAAACCTCATCACTG 58.950 38.462 0.00 0.00 0.00 3.66
2781 4119 8.178964 GCACGATTTTGTTATGGTTGATTAGTA 58.821 33.333 0.00 0.00 0.00 1.82
2897 4247 7.934120 GCAGATCCCTTCACTGTTTTATAGTAT 59.066 37.037 0.00 0.00 34.60 2.12
2900 4250 6.115446 TGCAGATCCCTTCACTGTTTTATAG 58.885 40.000 0.00 0.00 34.60 1.31
2910 4260 2.425143 TCCATTGCAGATCCCTTCAC 57.575 50.000 0.00 0.00 0.00 3.18
2911 4261 3.359033 CTTTCCATTGCAGATCCCTTCA 58.641 45.455 0.00 0.00 0.00 3.02
2915 4265 0.749049 GCCTTTCCATTGCAGATCCC 59.251 55.000 0.00 0.00 0.00 3.85
2925 4275 3.873801 GCATACATATCCGGCCTTTCCAT 60.874 47.826 0.00 0.00 34.01 3.41
2934 4284 2.037121 TGTCCTGTGCATACATATCCGG 59.963 50.000 0.00 0.00 35.97 5.14
3137 4487 2.155279 TGATCTCTGTCGATCCGATCC 58.845 52.381 2.69 0.00 39.20 3.36
3138 4488 4.433186 AATGATCTCTGTCGATCCGATC 57.567 45.455 0.00 0.00 39.20 3.69
3139 4489 4.156922 GGTAATGATCTCTGTCGATCCGAT 59.843 45.833 0.00 0.00 39.20 4.18
3140 4490 3.502595 GGTAATGATCTCTGTCGATCCGA 59.497 47.826 0.00 0.00 39.20 4.55
3141 4491 3.668226 CGGTAATGATCTCTGTCGATCCG 60.668 52.174 0.00 0.00 39.20 4.18
3159 4509 3.074687 AGCCTCTCCATCTTATCTCGGTA 59.925 47.826 0.00 0.00 0.00 4.02
3160 4510 2.158385 AGCCTCTCCATCTTATCTCGGT 60.158 50.000 0.00 0.00 0.00 4.69
3237 4587 3.577805 ATTATTTGGGAACGGAGGGAG 57.422 47.619 0.00 0.00 0.00 4.30
3238 4588 3.010808 ACAATTATTTGGGAACGGAGGGA 59.989 43.478 2.66 0.00 37.15 4.20
3239 4589 3.361786 ACAATTATTTGGGAACGGAGGG 58.638 45.455 2.66 0.00 37.15 4.30
3240 4590 4.270008 AGACAATTATTTGGGAACGGAGG 58.730 43.478 2.66 0.00 37.15 4.30
3241 4591 5.897377 AAGACAATTATTTGGGAACGGAG 57.103 39.130 2.66 0.00 37.15 4.63
3242 4592 6.007703 AGAAAGACAATTATTTGGGAACGGA 58.992 36.000 2.66 0.00 37.15 4.69
3243 4593 6.267496 AGAAAGACAATTATTTGGGAACGG 57.733 37.500 2.66 0.00 37.15 4.44
3244 4594 7.753580 GGTTAGAAAGACAATTATTTGGGAACG 59.246 37.037 2.66 0.00 37.15 3.95
3245 4595 8.581578 TGGTTAGAAAGACAATTATTTGGGAAC 58.418 33.333 2.66 0.00 37.15 3.62
3246 4596 8.713708 TGGTTAGAAAGACAATTATTTGGGAA 57.286 30.769 2.66 0.00 37.15 3.97
3247 4597 8.893563 ATGGTTAGAAAGACAATTATTTGGGA 57.106 30.769 2.66 0.00 37.15 4.37
3248 4598 8.971073 AGATGGTTAGAAAGACAATTATTTGGG 58.029 33.333 2.66 0.00 37.15 4.12
3256 4606 9.753674 TCCATTTAAGATGGTTAGAAAGACAAT 57.246 29.630 13.15 0.00 40.06 2.71
3257 4607 9.010029 GTCCATTTAAGATGGTTAGAAAGACAA 57.990 33.333 13.15 0.00 40.06 3.18
3258 4608 8.383175 AGTCCATTTAAGATGGTTAGAAAGACA 58.617 33.333 13.15 0.00 40.06 3.41
3259 4609 8.794335 AGTCCATTTAAGATGGTTAGAAAGAC 57.206 34.615 13.15 0.00 40.06 3.01
3260 4610 9.886132 GTAGTCCATTTAAGATGGTTAGAAAGA 57.114 33.333 13.15 0.00 40.06 2.52
3261 4611 9.667107 TGTAGTCCATTTAAGATGGTTAGAAAG 57.333 33.333 13.15 0.00 40.06 2.62
3263 4613 9.444600 GTTGTAGTCCATTTAAGATGGTTAGAA 57.555 33.333 13.15 10.19 40.06 2.10
3264 4614 8.598916 TGTTGTAGTCCATTTAAGATGGTTAGA 58.401 33.333 13.15 6.62 40.06 2.10
3265 4615 8.786826 TGTTGTAGTCCATTTAAGATGGTTAG 57.213 34.615 13.15 0.00 40.06 2.34
3267 4617 9.174166 GTATGTTGTAGTCCATTTAAGATGGTT 57.826 33.333 13.15 8.13 40.06 3.67
3268 4618 7.494625 CGTATGTTGTAGTCCATTTAAGATGGT 59.505 37.037 13.15 2.70 40.06 3.55
3269 4619 7.042051 CCGTATGTTGTAGTCCATTTAAGATGG 60.042 40.741 9.25 9.25 40.48 3.51
3270 4620 7.709182 TCCGTATGTTGTAGTCCATTTAAGATG 59.291 37.037 0.00 0.00 0.00 2.90
3271 4621 7.788026 TCCGTATGTTGTAGTCCATTTAAGAT 58.212 34.615 0.00 0.00 0.00 2.40
3272 4622 7.172868 TCCGTATGTTGTAGTCCATTTAAGA 57.827 36.000 0.00 0.00 0.00 2.10
3273 4623 7.494625 ACATCCGTATGTTGTAGTCCATTTAAG 59.505 37.037 0.00 0.00 44.07 1.85
3274 4624 7.332557 ACATCCGTATGTTGTAGTCCATTTAA 58.667 34.615 0.00 0.00 44.07 1.52
3275 4625 6.880484 ACATCCGTATGTTGTAGTCCATTTA 58.120 36.000 0.00 0.00 44.07 1.40
3276 4626 5.741011 ACATCCGTATGTTGTAGTCCATTT 58.259 37.500 0.00 0.00 44.07 2.32
3277 4627 5.353394 ACATCCGTATGTTGTAGTCCATT 57.647 39.130 0.00 0.00 44.07 3.16
3278 4628 6.455647 CATACATCCGTATGTTGTAGTCCAT 58.544 40.000 0.00 0.00 46.70 3.41
3279 4629 5.838529 CATACATCCGTATGTTGTAGTCCA 58.161 41.667 0.00 0.00 46.70 4.02
3290 4640 9.472361 GTAAAACATGTCTACATACATCCGTAT 57.528 33.333 0.00 0.00 38.01 3.06
3291 4641 8.468399 TGTAAAACATGTCTACATACATCCGTA 58.532 33.333 13.91 0.00 38.01 4.02
3292 4642 7.324935 TGTAAAACATGTCTACATACATCCGT 58.675 34.615 13.91 0.00 38.01 4.69
3293 4643 7.491372 ACTGTAAAACATGTCTACATACATCCG 59.509 37.037 16.83 9.11 38.01 4.18
3294 4644 8.604035 CACTGTAAAACATGTCTACATACATCC 58.396 37.037 16.83 0.00 38.01 3.51
3295 4645 9.151471 ACACTGTAAAACATGTCTACATACATC 57.849 33.333 16.83 0.00 38.01 3.06
3297 4647 9.634163 CTACACTGTAAAACATGTCTACATACA 57.366 33.333 16.83 12.26 34.26 2.29
3298 4648 9.850628 TCTACACTGTAAAACATGTCTACATAC 57.149 33.333 16.83 9.22 34.26 2.39
3300 4650 9.944376 AATCTACACTGTAAAACATGTCTACAT 57.056 29.630 16.83 8.60 36.96 2.29
3301 4651 9.419297 GAATCTACACTGTAAAACATGTCTACA 57.581 33.333 16.01 16.01 0.00 2.74
3302 4652 9.419297 TGAATCTACACTGTAAAACATGTCTAC 57.581 33.333 0.00 4.97 0.00 2.59
3303 4653 9.419297 GTGAATCTACACTGTAAAACATGTCTA 57.581 33.333 0.00 0.00 37.73 2.59
3304 4654 8.311650 GTGAATCTACACTGTAAAACATGTCT 57.688 34.615 0.00 0.00 37.73 3.41
3318 4668 6.017933 CGAAGCAAAATGAGTGAATCTACAC 58.982 40.000 0.00 0.00 40.60 2.90
3319 4669 5.700832 ACGAAGCAAAATGAGTGAATCTACA 59.299 36.000 0.00 0.00 0.00 2.74
3320 4670 6.170675 ACGAAGCAAAATGAGTGAATCTAC 57.829 37.500 0.00 0.00 0.00 2.59
3321 4671 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
3322 4672 6.372659 ACATACGAAGCAAAATGAGTGAATCT 59.627 34.615 0.00 0.00 0.00 2.40
3323 4673 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
3324 4674 6.500684 ACATACGAAGCAAAATGAGTGAAT 57.499 33.333 0.00 0.00 0.00 2.57
3325 4675 5.940192 ACATACGAAGCAAAATGAGTGAA 57.060 34.783 0.00 0.00 0.00 3.18
3326 4676 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
3327 4677 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
3328 4678 6.090898 GTGACTACATACGAAGCAAAATGAGT 59.909 38.462 0.00 0.00 0.00 3.41
3329 4679 6.311445 AGTGACTACATACGAAGCAAAATGAG 59.689 38.462 0.00 0.00 0.00 2.90
3330 4680 6.163476 AGTGACTACATACGAAGCAAAATGA 58.837 36.000 0.00 0.00 0.00 2.57
3331 4681 6.408858 AGTGACTACATACGAAGCAAAATG 57.591 37.500 0.00 0.00 0.00 2.32
3332 4682 6.426937 ACAAGTGACTACATACGAAGCAAAAT 59.573 34.615 0.00 0.00 0.00 1.82
3333 4683 5.756347 ACAAGTGACTACATACGAAGCAAAA 59.244 36.000 0.00 0.00 0.00 2.44
3334 4684 5.294356 ACAAGTGACTACATACGAAGCAAA 58.706 37.500 0.00 0.00 0.00 3.68
3335 4685 4.878439 ACAAGTGACTACATACGAAGCAA 58.122 39.130 0.00 0.00 0.00 3.91
3336 4686 4.514781 ACAAGTGACTACATACGAAGCA 57.485 40.909 0.00 0.00 0.00 3.91
3337 4687 4.921515 TCAACAAGTGACTACATACGAAGC 59.078 41.667 0.00 0.00 0.00 3.86
3338 4688 7.402811 TTTCAACAAGTGACTACATACGAAG 57.597 36.000 0.00 0.00 35.39 3.79
3339 4689 7.870954 AGATTTCAACAAGTGACTACATACGAA 59.129 33.333 0.00 0.00 35.39 3.85
3340 4690 7.375834 AGATTTCAACAAGTGACTACATACGA 58.624 34.615 0.00 0.00 35.39 3.43
3341 4691 7.582435 AGATTTCAACAAGTGACTACATACG 57.418 36.000 0.00 0.00 35.39 3.06
3344 4694 9.778741 TCTAAAGATTTCAACAAGTGACTACAT 57.221 29.630 0.00 0.00 35.39 2.29
3345 4695 9.607988 TTCTAAAGATTTCAACAAGTGACTACA 57.392 29.630 0.00 0.00 35.39 2.74
3348 4698 9.396022 TCTTTCTAAAGATTTCAACAAGTGACT 57.604 29.630 1.00 0.00 39.95 3.41
3349 4699 9.439537 GTCTTTCTAAAGATTTCAACAAGTGAC 57.560 33.333 8.31 0.00 45.83 3.67
3350 4700 9.173021 TGTCTTTCTAAAGATTTCAACAAGTGA 57.827 29.630 8.31 0.00 45.83 3.41
3351 4701 9.787532 TTGTCTTTCTAAAGATTTCAACAAGTG 57.212 29.630 8.31 0.00 45.83 3.16
3366 4716 9.947433 TCCGTTCCTAAATAATTGTCTTTCTAA 57.053 29.630 0.00 0.00 0.00 2.10
3367 4717 9.595823 CTCCGTTCCTAAATAATTGTCTTTCTA 57.404 33.333 0.00 0.00 0.00 2.10
3368 4718 7.553044 CCTCCGTTCCTAAATAATTGTCTTTCT 59.447 37.037 0.00 0.00 0.00 2.52
3369 4719 7.201705 CCCTCCGTTCCTAAATAATTGTCTTTC 60.202 40.741 0.00 0.00 0.00 2.62
3370 4720 6.602009 CCCTCCGTTCCTAAATAATTGTCTTT 59.398 38.462 0.00 0.00 0.00 2.52
3371 4721 6.069847 TCCCTCCGTTCCTAAATAATTGTCTT 60.070 38.462 0.00 0.00 0.00 3.01
3372 4722 5.427481 TCCCTCCGTTCCTAAATAATTGTCT 59.573 40.000 0.00 0.00 0.00 3.41
3373 4723 5.677567 TCCCTCCGTTCCTAAATAATTGTC 58.322 41.667 0.00 0.00 0.00 3.18
3374 4724 5.191124 ACTCCCTCCGTTCCTAAATAATTGT 59.809 40.000 0.00 0.00 0.00 2.71
3375 4725 5.681639 ACTCCCTCCGTTCCTAAATAATTG 58.318 41.667 0.00 0.00 0.00 2.32
3376 4726 5.970501 ACTCCCTCCGTTCCTAAATAATT 57.029 39.130 0.00 0.00 0.00 1.40
3377 4727 6.141790 ACTACTCCCTCCGTTCCTAAATAAT 58.858 40.000 0.00 0.00 0.00 1.28
3378 4728 5.522641 ACTACTCCCTCCGTTCCTAAATAA 58.477 41.667 0.00 0.00 0.00 1.40
3379 4729 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
3380 4730 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
3381 4731 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
3382 4732 3.686691 GCTACTACTCCCTCCGTTCCTAA 60.687 52.174 0.00 0.00 0.00 2.69
3383 4733 2.158696 GCTACTACTCCCTCCGTTCCTA 60.159 54.545 0.00 0.00 0.00 2.94
3384 4734 1.409942 GCTACTACTCCCTCCGTTCCT 60.410 57.143 0.00 0.00 0.00 3.36
3385 4735 1.031235 GCTACTACTCCCTCCGTTCC 58.969 60.000 0.00 0.00 0.00 3.62
3386 4736 1.031235 GGCTACTACTCCCTCCGTTC 58.969 60.000 0.00 0.00 0.00 3.95
3387 4737 0.333993 TGGCTACTACTCCCTCCGTT 59.666 55.000 0.00 0.00 0.00 4.44
3388 4738 0.556747 ATGGCTACTACTCCCTCCGT 59.443 55.000 0.00 0.00 0.00 4.69
3389 4739 1.705873 AATGGCTACTACTCCCTCCG 58.294 55.000 0.00 0.00 0.00 4.63
3390 4740 3.039011 TCAAATGGCTACTACTCCCTCC 58.961 50.000 0.00 0.00 0.00 4.30
3391 4741 4.262678 GGATCAAATGGCTACTACTCCCTC 60.263 50.000 0.00 0.00 0.00 4.30
3392 4742 3.648545 GGATCAAATGGCTACTACTCCCT 59.351 47.826 0.00 0.00 0.00 4.20
3393 4743 3.648545 AGGATCAAATGGCTACTACTCCC 59.351 47.826 0.00 0.00 0.00 4.30
3394 4744 4.101741 ACAGGATCAAATGGCTACTACTCC 59.898 45.833 0.00 0.00 0.00 3.85
3395 4745 5.053145 CACAGGATCAAATGGCTACTACTC 58.947 45.833 0.00 0.00 0.00 2.59
3396 4746 4.141620 CCACAGGATCAAATGGCTACTACT 60.142 45.833 0.00 0.00 0.00 2.57
3397 4747 4.130118 CCACAGGATCAAATGGCTACTAC 58.870 47.826 0.00 0.00 0.00 2.73
3398 4748 3.780294 ACCACAGGATCAAATGGCTACTA 59.220 43.478 7.98 0.00 35.49 1.82
3399 4749 2.578021 ACCACAGGATCAAATGGCTACT 59.422 45.455 7.98 0.00 35.49 2.57
3400 4750 2.945668 GACCACAGGATCAAATGGCTAC 59.054 50.000 7.98 0.00 35.49 3.58
3401 4751 2.419990 CGACCACAGGATCAAATGGCTA 60.420 50.000 7.98 0.00 35.49 3.93
3402 4752 1.679944 CGACCACAGGATCAAATGGCT 60.680 52.381 7.98 0.00 35.49 4.75
3403 4753 0.734889 CGACCACAGGATCAAATGGC 59.265 55.000 7.98 2.10 35.49 4.40
3404 4754 1.739466 CACGACCACAGGATCAAATGG 59.261 52.381 6.78 6.78 38.26 3.16
3405 4755 2.674852 CTCACGACCACAGGATCAAATG 59.325 50.000 0.00 0.00 0.00 2.32
3406 4756 2.567169 TCTCACGACCACAGGATCAAAT 59.433 45.455 0.00 0.00 0.00 2.32
3407 4757 1.967779 TCTCACGACCACAGGATCAAA 59.032 47.619 0.00 0.00 0.00 2.69
3408 4758 1.546029 CTCTCACGACCACAGGATCAA 59.454 52.381 0.00 0.00 0.00 2.57
3409 4759 1.177401 CTCTCACGACCACAGGATCA 58.823 55.000 0.00 0.00 0.00 2.92
3410 4760 0.457851 CCTCTCACGACCACAGGATC 59.542 60.000 0.00 0.00 0.00 3.36
3411 4761 0.251832 ACCTCTCACGACCACAGGAT 60.252 55.000 0.00 0.00 0.00 3.24
3412 4762 0.402887 TACCTCTCACGACCACAGGA 59.597 55.000 0.00 0.00 0.00 3.86
3413 4763 0.526662 GTACCTCTCACGACCACAGG 59.473 60.000 0.00 0.00 0.00 4.00
3414 4764 1.469308 GAGTACCTCTCACGACCACAG 59.531 57.143 0.00 0.00 42.34 3.66
3415 4765 1.531423 GAGTACCTCTCACGACCACA 58.469 55.000 0.00 0.00 42.34 4.17
3416 4766 0.810016 GGAGTACCTCTCACGACCAC 59.190 60.000 0.00 0.00 44.40 4.16
3417 4767 0.697079 AGGAGTACCTCTCACGACCA 59.303 55.000 0.00 0.00 44.13 4.02
3418 4768 2.093021 AGTAGGAGTACCTCTCACGACC 60.093 54.545 0.00 0.00 46.43 4.79
3419 4769 3.264998 AGTAGGAGTACCTCTCACGAC 57.735 52.381 0.00 0.00 46.43 4.34
3420 4770 3.518705 AGAAGTAGGAGTACCTCTCACGA 59.481 47.826 0.00 0.00 46.43 4.35
3421 4771 3.876341 AGAAGTAGGAGTACCTCTCACG 58.124 50.000 0.00 0.00 46.43 4.35
3422 4772 5.503002 AGAAGAAGTAGGAGTACCTCTCAC 58.497 45.833 0.00 0.00 46.43 3.51
3423 4773 5.782677 AGAAGAAGTAGGAGTACCTCTCA 57.217 43.478 0.00 0.00 46.43 3.27
3424 4774 7.567458 TCTAAGAAGAAGTAGGAGTACCTCTC 58.433 42.308 0.00 0.00 46.43 3.20
3425 4775 7.513560 TCTAAGAAGAAGTAGGAGTACCTCT 57.486 40.000 0.00 0.00 46.43 3.69
3426 4776 6.261603 GCTCTAAGAAGAAGTAGGAGTACCTC 59.738 46.154 0.00 0.00 46.43 3.85
3428 4778 5.887035 TGCTCTAAGAAGAAGTAGGAGTACC 59.113 44.000 0.00 0.00 0.00 3.34
3429 4779 6.183360 GGTGCTCTAAGAAGAAGTAGGAGTAC 60.183 46.154 0.00 0.00 0.00 2.73
3430 4780 5.887035 GGTGCTCTAAGAAGAAGTAGGAGTA 59.113 44.000 0.00 0.00 0.00 2.59
3431 4781 4.707934 GGTGCTCTAAGAAGAAGTAGGAGT 59.292 45.833 0.00 0.00 0.00 3.85
3432 4782 4.201970 CGGTGCTCTAAGAAGAAGTAGGAG 60.202 50.000 0.00 0.00 0.00 3.69
3433 4783 3.695060 CGGTGCTCTAAGAAGAAGTAGGA 59.305 47.826 0.00 0.00 0.00 2.94
3434 4784 3.181485 CCGGTGCTCTAAGAAGAAGTAGG 60.181 52.174 0.00 0.00 0.00 3.18
3435 4785 3.181485 CCCGGTGCTCTAAGAAGAAGTAG 60.181 52.174 0.00 0.00 0.00 2.57
3436 4786 2.758979 CCCGGTGCTCTAAGAAGAAGTA 59.241 50.000 0.00 0.00 0.00 2.24
3437 4787 1.550976 CCCGGTGCTCTAAGAAGAAGT 59.449 52.381 0.00 0.00 0.00 3.01
3438 4788 1.550976 ACCCGGTGCTCTAAGAAGAAG 59.449 52.381 0.00 0.00 0.00 2.85
3439 4789 1.640917 ACCCGGTGCTCTAAGAAGAA 58.359 50.000 0.00 0.00 0.00 2.52
3440 4790 1.640917 AACCCGGTGCTCTAAGAAGA 58.359 50.000 0.00 0.00 0.00 2.87
3441 4791 2.474410 AAACCCGGTGCTCTAAGAAG 57.526 50.000 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.