Multiple sequence alignment - TraesCS3A01G072500

Loading Multiple Alignment...

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 TraesCS3A01G072500 chr3A 100.000 4520 0 0 1 4520 44638508 44643027 0.000000e+00 8347
1 TraesCS3A01G072500 chr3A 85.454 3836 430 66 500 4276 44709345 44713111 0.000000e+00 3875
2 TraesCS3A01G072500 chr3B 95.840 3606 136 9 1 3596 54793303 54796904 0.000000e+00 5816
3 TraesCS3A01G072500 chr3B 86.826 1761 213 12 463 2213 54784286 54786037 0.000000e+00 1949
4 TraesCS3A01G072500 chr3B 89.104 1294 136 3 2307 3596 54786056 54787348 0.000000e+00 1604
5 TraesCS3A01G072500 chr3B 81.165 738 99 23 3574 4288 54796918 54797638 1.420000e-154 556
6 TraesCS3A01G072500 chr3B 80.894 738 100 22 3574 4288 54787362 54788081 1.110000e-150 544
7 TraesCS3A01G072500 chr3B 85.053 475 41 12 1 456 54783633 54784096 1.480000e-124 457
8 TraesCS3A01G072500 chr3D 87.320 3825 427 30 487 4290 32278386 32282173 0.000000e+00 4324
9 TraesCS3A01G072500 chr3D 85.743 3016 378 28 612 3596 32299197 32302191 0.000000e+00 3140
10 TraesCS3A01G072500 chr5D 81.159 2951 461 43 626 3552 104257915 104255036 0.000000e+00 2281
11 TraesCS3A01G072500 chr5D 86.503 1304 156 7 975 2268 425838914 425840207 0.000000e+00 1415
12 TraesCS3A01G072500 chr5D 86.147 231 27 5 4293 4520 11229177 11228949 1.260000e-60 244
13 TraesCS3A01G072500 chr5D 85.408 233 29 5 4291 4520 11224144 11223914 2.100000e-58 237
14 TraesCS3A01G072500 chr4D 80.752 2951 490 51 617 3549 1994969 1997859 0.000000e+00 2231
15 TraesCS3A01G072500 chr5B 86.850 1384 153 11 901 2268 515184011 515185381 0.000000e+00 1520
16 TraesCS3A01G072500 chr5B 82.907 1328 179 23 2230 3552 113676933 113675649 0.000000e+00 1151
17 TraesCS3A01G072500 chr5B 82.122 1376 203 20 2170 3543 14705911 14707245 0.000000e+00 1138
18 TraesCS3A01G072500 chr5B 90.948 232 16 5 4291 4520 633489167 633488939 1.580000e-79 307
19 TraesCS3A01G072500 chr5B 90.948 232 16 5 4291 4520 633494187 633493959 1.580000e-79 307
20 TraesCS3A01G072500 chr5A 85.776 1385 166 15 901 2268 540051895 540053265 0.000000e+00 1437
21 TraesCS3A01G072500 chrUn 79.055 1757 304 41 724 2444 47549307 47547579 0.000000e+00 1147
22 TraesCS3A01G072500 chrUn 84.615 1066 144 9 2492 3552 47547558 47546508 0.000000e+00 1042
23 TraesCS3A01G072500 chr4A 90.086 232 19 4 4291 4520 353878414 353878643 9.510000e-77 298
24 TraesCS3A01G072500 chr7B 87.281 228 23 6 4289 4514 639537558 639537781 5.800000e-64 255
25 TraesCS3A01G072500 chr7B 86.784 227 22 8 4291 4514 639542576 639542797 3.490000e-61 246
26 TraesCS3A01G072500 chr2D 86.758 219 24 5 4291 4507 77147885 77147670 5.840000e-59 239
27 TraesCS3A01G072500 chr1D 89.944 179 12 6 4291 4467 432210565 432210739 4.550000e-55 226


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 TraesCS3A01G072500 chr3A 44638508 44643027 4519 False 8347.0 8347 100.00000 1 4520 1 chr3A.!!$F1 4519
1 TraesCS3A01G072500 chr3A 44709345 44713111 3766 False 3875.0 3875 85.45400 500 4276 1 chr3A.!!$F2 3776
2 TraesCS3A01G072500 chr3B 54793303 54797638 4335 False 3186.0 5816 88.50250 1 4288 2 chr3B.!!$F2 4287
3 TraesCS3A01G072500 chr3B 54783633 54788081 4448 False 1138.5 1949 85.46925 1 4288 4 chr3B.!!$F1 4287
4 TraesCS3A01G072500 chr3D 32278386 32282173 3787 False 4324.0 4324 87.32000 487 4290 1 chr3D.!!$F1 3803
5 TraesCS3A01G072500 chr3D 32299197 32302191 2994 False 3140.0 3140 85.74300 612 3596 1 chr3D.!!$F2 2984
6 TraesCS3A01G072500 chr5D 104255036 104257915 2879 True 2281.0 2281 81.15900 626 3552 1 chr5D.!!$R3 2926
7 TraesCS3A01G072500 chr5D 425838914 425840207 1293 False 1415.0 1415 86.50300 975 2268 1 chr5D.!!$F1 1293
8 TraesCS3A01G072500 chr4D 1994969 1997859 2890 False 2231.0 2231 80.75200 617 3549 1 chr4D.!!$F1 2932
9 TraesCS3A01G072500 chr5B 515184011 515185381 1370 False 1520.0 1520 86.85000 901 2268 1 chr5B.!!$F2 1367
10 TraesCS3A01G072500 chr5B 113675649 113676933 1284 True 1151.0 1151 82.90700 2230 3552 1 chr5B.!!$R1 1322
11 TraesCS3A01G072500 chr5B 14705911 14707245 1334 False 1138.0 1138 82.12200 2170 3543 1 chr5B.!!$F1 1373
12 TraesCS3A01G072500 chr5A 540051895 540053265 1370 False 1437.0 1437 85.77600 901 2268 1 chr5A.!!$F1 1367
13 TraesCS3A01G072500 chrUn 47546508 47549307 2799 True 1094.5 1147 81.83500 724 3552 2 chrUn.!!$R1 2828

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
733 944 2.421424 GACACATGGATGTTCTGCCTTC 59.579 50.000 0.00 0.0 39.39 3.46 F
1153 1413 1.207089 ACGATGATGATGGTGGTCGTT 59.793 47.619 0.00 0.0 38.98 3.85 F
1202 1462 1.382522 GCGCCATCAATGAAAGGAGA 58.617 50.000 11.67 0.0 0.00 3.71 F
3018 3320 0.892358 CCCACATGAGCACTGCTGTT 60.892 55.000 8.69 0.0 39.88 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2308 2592 1.256812 GCTTGTATGCCACCTTTGGT 58.743 50.000 0.00 0.00 45.98 3.67 R
2788 3090 1.564818 TGGGTTCCTGGTGTTGTACAA 59.435 47.619 3.59 3.59 0.00 2.41 R
3044 3346 1.888436 CTGCTGCCGGAAGTACTCCA 61.888 60.000 12.24 0.00 45.74 3.86 R
4357 4731 0.106918 CTCGACTACTCCTCCTGGCT 60.107 60.000 0.00 0.00 0.00 4.75 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
53 55 3.636153 CCCCCTTCTCTTCTTTTCGAT 57.364 47.619 0.00 0.00 0.00 3.59
294 307 4.931027 ACCTAGTGAGAAGAGTAGACCA 57.069 45.455 0.00 0.00 0.00 4.02
296 309 4.290196 ACCTAGTGAGAAGAGTAGACCACT 59.710 45.833 0.00 0.00 41.47 4.00
435 455 5.043248 GTGTTTCCTCTTGGTGTGAATTTG 58.957 41.667 0.00 0.00 34.23 2.32
562 769 5.120830 TGAGCTAAATTCTCGCACTCTTTTC 59.879 40.000 0.00 0.00 33.41 2.29
620 830 3.838244 ATTGAGCCGGCTTTGTCTATA 57.162 42.857 33.34 10.12 0.00 1.31
733 944 2.421424 GACACATGGATGTTCTGCCTTC 59.579 50.000 0.00 0.00 39.39 3.46
839 1060 3.445008 TCTCTAGGTGTGCCTTCTTCAT 58.555 45.455 0.00 0.00 44.18 2.57
880 1101 2.906354 AGATCCTCAATTTTCCCGACG 58.094 47.619 0.00 0.00 0.00 5.12
1153 1413 1.207089 ACGATGATGATGGTGGTCGTT 59.793 47.619 0.00 0.00 38.98 3.85
1202 1462 1.382522 GCGCCATCAATGAAAGGAGA 58.617 50.000 11.67 0.00 0.00 3.71
1336 1602 5.401674 CGAATGTTCTTACGCCTATACTTCC 59.598 44.000 0.00 0.00 0.00 3.46
1413 1679 4.454504 GCACGGAATCTTGTCCTCTTAAAA 59.545 41.667 0.00 0.00 35.31 1.52
1766 2047 2.091885 CCCCATACATACTTGGTGGCTT 60.092 50.000 0.00 0.00 33.66 4.35
2308 2592 5.796350 GCTATCTAGCGGTGAAAGAAAAA 57.204 39.130 0.00 0.00 39.82 1.94
3018 3320 0.892358 CCCACATGAGCACTGCTGTT 60.892 55.000 8.69 0.00 39.88 3.16
3044 3346 4.723309 GGCACCTTTGGATATCTTGATCT 58.277 43.478 2.05 0.00 0.00 2.75
3141 3443 1.451207 TGCGCGCCCTGTGATAAAT 60.451 52.632 30.77 0.00 0.00 1.40
3182 3484 2.031163 GAGCTTGCGTGACTGGGT 59.969 61.111 0.00 0.00 0.00 4.51
3184 3486 3.357079 GCTTGCGTGACTGGGTGG 61.357 66.667 0.00 0.00 0.00 4.61
3363 3665 1.758440 TTGAGGTCGCACTCCAGCTT 61.758 55.000 4.14 0.00 36.66 3.74
3386 3691 3.372206 CAGGATAGTGCAAGCTACAACAC 59.628 47.826 0.00 0.00 0.00 3.32
3529 3837 3.572255 AGAAGGCCGATAAAAGCAAAACA 59.428 39.130 0.00 0.00 0.00 2.83
3657 4002 7.510685 TCATATTAGATTTCTCTACTGGCCACT 59.489 37.037 0.00 0.00 33.66 4.00
3658 4003 3.902881 AGATTTCTCTACTGGCCACTG 57.097 47.619 0.00 0.00 0.00 3.66
3659 4004 3.445008 AGATTTCTCTACTGGCCACTGA 58.555 45.455 0.00 0.00 0.00 3.41
3660 4005 3.196685 AGATTTCTCTACTGGCCACTGAC 59.803 47.826 0.00 0.00 0.00 3.51
3661 4006 2.009681 TTCTCTACTGGCCACTGACA 57.990 50.000 0.00 0.00 0.00 3.58
3662 4007 2.238084 TCTCTACTGGCCACTGACAT 57.762 50.000 0.00 0.00 0.00 3.06
3663 4008 3.382083 TCTCTACTGGCCACTGACATA 57.618 47.619 0.00 0.00 0.00 2.29
3664 4009 3.291584 TCTCTACTGGCCACTGACATAG 58.708 50.000 0.00 0.00 0.00 2.23
3883 4246 8.840321 CAGTGTAATCAATCTAATTGGGGTTAG 58.160 37.037 0.19 0.00 40.61 2.34
3958 4321 1.964373 GGTTTTTCAGAGGCCGCGA 60.964 57.895 8.23 0.00 0.00 5.87
3973 4336 1.438562 CGCGATTGTGATGGCATGGA 61.439 55.000 3.81 0.00 36.88 3.41
3994 4357 1.154016 AGAAGTCGATGACGCCACG 60.154 57.895 0.00 0.00 37.67 4.94
4026 4389 1.143838 CCTCATCGATGCAACGGGA 59.856 57.895 20.81 12.95 0.00 5.14
4076 4439 6.203723 GCCATAATTACAGAGTGAAAGCTAGG 59.796 42.308 0.00 0.00 0.00 3.02
4231 4605 4.270178 CAACTTCTGCAATCCTCGATTC 57.730 45.455 0.00 0.00 28.87 2.52
4248 4622 4.083855 TCGATTCTGCACTTTCATGTTCAC 60.084 41.667 0.00 0.00 0.00 3.18
4270 4644 5.860182 CACGTGTTCTTCTTTATCGTTAGGA 59.140 40.000 7.58 0.00 0.00 2.94
4290 4664 3.951680 GGATTTTATTCATGTGACCCGGT 59.048 43.478 0.00 0.00 0.00 5.28
4291 4665 4.202010 GGATTTTATTCATGTGACCCGGTG 60.202 45.833 0.00 0.00 0.00 4.94
4292 4666 3.426787 TTTATTCATGTGACCCGGTGT 57.573 42.857 0.00 0.00 0.00 4.16
4293 4667 4.554960 TTTATTCATGTGACCCGGTGTA 57.445 40.909 0.00 0.00 0.00 2.90
4294 4668 4.554960 TTATTCATGTGACCCGGTGTAA 57.445 40.909 0.00 0.00 0.00 2.41
4295 4669 2.172851 TTCATGTGACCCGGTGTAAC 57.827 50.000 0.00 1.89 0.00 2.50
4296 4670 0.038067 TCATGTGACCCGGTGTAACG 60.038 55.000 0.00 0.00 38.12 3.18
4304 4678 2.047939 CGGTGTAACGGTGGGGTC 60.048 66.667 0.00 0.00 38.12 4.46
4305 4679 2.348620 GGTGTAACGGTGGGGTCC 59.651 66.667 0.00 0.00 38.12 4.46
4306 4680 2.518709 GGTGTAACGGTGGGGTCCA 61.519 63.158 0.00 0.00 38.12 4.02
4307 4681 1.681076 GTGTAACGGTGGGGTCCAT 59.319 57.895 0.00 0.00 35.28 3.41
4308 4682 0.675522 GTGTAACGGTGGGGTCCATG 60.676 60.000 0.00 0.00 35.28 3.66
4309 4683 1.078001 GTAACGGTGGGGTCCATGG 60.078 63.158 4.97 4.97 35.28 3.66
4310 4684 1.539372 TAACGGTGGGGTCCATGGT 60.539 57.895 12.58 0.00 35.28 3.55
4311 4685 1.555477 TAACGGTGGGGTCCATGGTC 61.555 60.000 12.58 5.95 35.28 4.02
4312 4686 3.326578 CGGTGGGGTCCATGGTCA 61.327 66.667 12.58 3.80 35.28 4.02
4313 4687 2.677228 GGTGGGGTCCATGGTCAG 59.323 66.667 12.58 0.00 35.28 3.51
4314 4688 2.044946 GTGGGGTCCATGGTCAGC 60.045 66.667 12.58 2.49 35.28 4.26
4315 4689 3.716195 TGGGGTCCATGGTCAGCG 61.716 66.667 12.58 0.00 0.00 5.18
4316 4690 3.399181 GGGGTCCATGGTCAGCGA 61.399 66.667 12.58 0.00 0.00 4.93
4317 4691 2.125106 GGGTCCATGGTCAGCGAC 60.125 66.667 12.58 0.47 0.00 5.19
4326 4700 2.262915 GTCAGCGACCCAGACCAG 59.737 66.667 0.00 0.00 0.00 4.00
4327 4701 2.117423 TCAGCGACCCAGACCAGA 59.883 61.111 0.00 0.00 0.00 3.86
4328 4702 2.262915 CAGCGACCCAGACCAGAC 59.737 66.667 0.00 0.00 0.00 3.51
4329 4703 2.203640 AGCGACCCAGACCAGACA 60.204 61.111 0.00 0.00 0.00 3.41
4330 4704 2.262915 GCGACCCAGACCAGACAG 59.737 66.667 0.00 0.00 0.00 3.51
4331 4705 2.973899 CGACCCAGACCAGACAGG 59.026 66.667 0.00 0.00 45.67 4.00
4332 4706 1.606601 CGACCCAGACCAGACAGGA 60.607 63.158 0.00 0.00 41.22 3.86
4333 4707 1.599606 CGACCCAGACCAGACAGGAG 61.600 65.000 0.00 0.00 41.22 3.69
4334 4708 0.543174 GACCCAGACCAGACAGGAGT 60.543 60.000 0.00 0.00 41.22 3.85
4335 4709 0.543174 ACCCAGACCAGACAGGAGTC 60.543 60.000 0.00 0.00 45.31 3.36
4343 4717 4.580835 GACAGGAGTCGAACCAGC 57.419 61.111 11.59 0.00 34.60 4.85
4344 4718 1.079750 GACAGGAGTCGAACCAGCC 60.080 63.158 11.59 0.00 34.60 4.85
4345 4719 2.125912 CAGGAGTCGAACCAGCCG 60.126 66.667 11.59 0.00 0.00 5.52
4346 4720 2.282958 AGGAGTCGAACCAGCCGA 60.283 61.111 11.59 0.00 0.00 5.54
4347 4721 2.182030 GGAGTCGAACCAGCCGAG 59.818 66.667 5.21 0.00 36.66 4.63
4348 4722 2.182030 GAGTCGAACCAGCCGAGG 59.818 66.667 0.00 0.00 36.66 4.63
4349 4723 3.991536 GAGTCGAACCAGCCGAGGC 62.992 68.421 5.89 5.89 36.66 4.70
4367 4741 4.779733 GGGACCGAGCCAGGAGGA 62.780 72.222 1.68 0.00 36.89 3.71
4368 4742 3.151022 GGACCGAGCCAGGAGGAG 61.151 72.222 1.68 0.00 36.89 3.69
4369 4743 2.363147 GACCGAGCCAGGAGGAGT 60.363 66.667 1.68 0.00 36.89 3.85
4370 4744 1.076923 GACCGAGCCAGGAGGAGTA 60.077 63.158 1.68 0.00 36.89 2.59
4371 4745 1.076632 ACCGAGCCAGGAGGAGTAG 60.077 63.158 1.68 0.00 36.89 2.57
4372 4746 1.076632 CCGAGCCAGGAGGAGTAGT 60.077 63.158 0.00 0.00 36.89 2.73
4373 4747 1.104577 CCGAGCCAGGAGGAGTAGTC 61.105 65.000 0.00 0.00 36.89 2.59
4374 4748 1.440938 CGAGCCAGGAGGAGTAGTCG 61.441 65.000 0.00 0.00 36.89 4.18
4375 4749 0.107116 GAGCCAGGAGGAGTAGTCGA 60.107 60.000 0.00 0.00 36.89 4.20
4376 4750 0.106918 AGCCAGGAGGAGTAGTCGAG 60.107 60.000 0.00 0.00 36.89 4.04
4377 4751 0.394625 GCCAGGAGGAGTAGTCGAGT 60.395 60.000 0.00 0.00 36.89 4.18
4378 4752 1.670791 CCAGGAGGAGTAGTCGAGTC 58.329 60.000 0.00 0.00 36.89 3.36
4379 4753 1.292061 CAGGAGGAGTAGTCGAGTCG 58.708 60.000 6.09 6.09 0.00 4.18
4380 4754 0.903942 AGGAGGAGTAGTCGAGTCGT 59.096 55.000 13.12 0.00 0.00 4.34
4381 4755 1.008329 GGAGGAGTAGTCGAGTCGTG 58.992 60.000 13.12 0.00 0.00 4.35
4382 4756 1.675415 GGAGGAGTAGTCGAGTCGTGT 60.675 57.143 13.12 3.52 0.00 4.49
4383 4757 1.394227 GAGGAGTAGTCGAGTCGTGTG 59.606 57.143 13.12 0.00 0.00 3.82
4384 4758 0.447011 GGAGTAGTCGAGTCGTGTGG 59.553 60.000 13.12 0.00 0.00 4.17
4385 4759 0.447011 GAGTAGTCGAGTCGTGTGGG 59.553 60.000 13.12 0.00 0.00 4.61
4386 4760 0.250640 AGTAGTCGAGTCGTGTGGGT 60.251 55.000 13.12 0.00 0.00 4.51
4387 4761 0.109873 GTAGTCGAGTCGTGTGGGTG 60.110 60.000 13.12 0.00 0.00 4.61
4388 4762 0.535780 TAGTCGAGTCGTGTGGGTGT 60.536 55.000 13.12 0.00 0.00 4.16
4389 4763 0.535780 AGTCGAGTCGTGTGGGTGTA 60.536 55.000 13.12 0.00 0.00 2.90
4390 4764 0.386478 GTCGAGTCGTGTGGGTGTAC 60.386 60.000 13.12 0.00 0.00 2.90
4391 4765 0.535780 TCGAGTCGTGTGGGTGTACT 60.536 55.000 13.12 0.00 0.00 2.73
4392 4766 0.313043 CGAGTCGTGTGGGTGTACTT 59.687 55.000 3.82 0.00 0.00 2.24
4393 4767 1.536766 CGAGTCGTGTGGGTGTACTTA 59.463 52.381 3.82 0.00 0.00 2.24
4394 4768 2.030893 CGAGTCGTGTGGGTGTACTTAA 60.031 50.000 3.82 0.00 0.00 1.85
4395 4769 3.572584 GAGTCGTGTGGGTGTACTTAAG 58.427 50.000 0.00 0.00 0.00 1.85
4396 4770 2.298163 AGTCGTGTGGGTGTACTTAAGG 59.702 50.000 7.53 0.00 0.00 2.69
4397 4771 1.619827 TCGTGTGGGTGTACTTAAGGG 59.380 52.381 7.53 0.00 0.00 3.95
4398 4772 1.817357 GTGTGGGTGTACTTAAGGGC 58.183 55.000 7.53 0.00 0.00 5.19
4399 4773 0.694196 TGTGGGTGTACTTAAGGGCC 59.306 55.000 7.53 0.00 0.00 5.80
4400 4774 0.694196 GTGGGTGTACTTAAGGGCCA 59.306 55.000 6.18 0.00 0.00 5.36
4401 4775 1.074244 GTGGGTGTACTTAAGGGCCAA 59.926 52.381 6.18 0.00 0.00 4.52
4402 4776 1.353022 TGGGTGTACTTAAGGGCCAAG 59.647 52.381 6.18 3.84 0.00 3.61
4403 4777 1.353358 GGGTGTACTTAAGGGCCAAGT 59.647 52.381 13.19 13.19 39.50 3.16
4404 4778 2.433436 GGTGTACTTAAGGGCCAAGTG 58.567 52.381 17.11 2.74 36.88 3.16
4405 4779 2.224695 GGTGTACTTAAGGGCCAAGTGT 60.225 50.000 17.11 8.19 36.88 3.55
4406 4780 2.812011 GTGTACTTAAGGGCCAAGTGTG 59.188 50.000 17.11 0.40 36.88 3.82
4415 4789 4.258206 CCAAGTGTGGCCAGTTGT 57.742 55.556 5.11 0.00 46.28 3.32
4416 4790 3.412722 CCAAGTGTGGCCAGTTGTA 57.587 52.632 5.11 0.00 46.28 2.41
4417 4791 1.686355 CCAAGTGTGGCCAGTTGTAA 58.314 50.000 5.11 0.00 46.28 2.41
4418 4792 1.608590 CCAAGTGTGGCCAGTTGTAAG 59.391 52.381 5.11 0.00 46.28 2.34
4419 4793 1.608590 CAAGTGTGGCCAGTTGTAAGG 59.391 52.381 5.11 0.00 43.87 2.69
4430 4804 5.936686 CCAGTTGTAAGGCATGATATGAG 57.063 43.478 0.00 0.00 0.00 2.90
4431 4805 5.371526 CCAGTTGTAAGGCATGATATGAGT 58.628 41.667 0.00 0.00 0.00 3.41
4432 4806 5.824624 CCAGTTGTAAGGCATGATATGAGTT 59.175 40.000 0.00 0.00 0.00 3.01
4433 4807 6.992123 CCAGTTGTAAGGCATGATATGAGTTA 59.008 38.462 0.00 0.00 0.00 2.24
4434 4808 7.498900 CCAGTTGTAAGGCATGATATGAGTTAA 59.501 37.037 0.00 0.00 0.00 2.01
4435 4809 9.060347 CAGTTGTAAGGCATGATATGAGTTAAT 57.940 33.333 0.00 0.00 0.00 1.40
4436 4810 9.277783 AGTTGTAAGGCATGATATGAGTTAATC 57.722 33.333 0.00 0.00 0.00 1.75
4437 4811 7.889589 TGTAAGGCATGATATGAGTTAATCG 57.110 36.000 0.00 0.00 0.00 3.34
4438 4812 7.666623 TGTAAGGCATGATATGAGTTAATCGA 58.333 34.615 0.00 0.00 0.00 3.59
4439 4813 8.147704 TGTAAGGCATGATATGAGTTAATCGAA 58.852 33.333 0.00 0.00 0.00 3.71
4440 4814 9.155975 GTAAGGCATGATATGAGTTAATCGAAT 57.844 33.333 0.00 0.00 0.00 3.34
4441 4815 8.627208 AAGGCATGATATGAGTTAATCGAATT 57.373 30.769 0.00 0.00 0.00 2.17
4442 4816 8.037382 AGGCATGATATGAGTTAATCGAATTG 57.963 34.615 0.00 0.00 0.00 2.32
4443 4817 7.879677 AGGCATGATATGAGTTAATCGAATTGA 59.120 33.333 0.00 0.00 0.00 2.57
4444 4818 8.506437 GGCATGATATGAGTTAATCGAATTGAA 58.494 33.333 0.00 0.00 0.00 2.69
4445 4819 9.322776 GCATGATATGAGTTAATCGAATTGAAC 57.677 33.333 0.00 0.00 0.00 3.18
4446 4820 9.521179 CATGATATGAGTTAATCGAATTGAACG 57.479 33.333 0.00 0.00 0.00 3.95
4447 4821 8.072238 TGATATGAGTTAATCGAATTGAACGG 57.928 34.615 0.00 0.00 0.00 4.44
4448 4822 7.923878 TGATATGAGTTAATCGAATTGAACGGA 59.076 33.333 0.00 0.00 0.00 4.69
4449 4823 6.589830 ATGAGTTAATCGAATTGAACGGAG 57.410 37.500 0.00 0.00 0.00 4.63
4450 4824 5.716094 TGAGTTAATCGAATTGAACGGAGA 58.284 37.500 0.00 0.00 0.00 3.71
4451 4825 5.805486 TGAGTTAATCGAATTGAACGGAGAG 59.195 40.000 0.00 0.00 0.00 3.20
4452 4826 5.962433 AGTTAATCGAATTGAACGGAGAGA 58.038 37.500 0.00 0.00 0.00 3.10
4453 4827 6.395629 AGTTAATCGAATTGAACGGAGAGAA 58.604 36.000 0.00 0.00 0.00 2.87
4454 4828 6.531948 AGTTAATCGAATTGAACGGAGAGAAG 59.468 38.462 0.00 0.00 0.00 2.85
4455 4829 2.607187 TCGAATTGAACGGAGAGAAGC 58.393 47.619 0.00 0.00 0.00 3.86
4456 4830 2.231478 TCGAATTGAACGGAGAGAAGCT 59.769 45.455 0.00 0.00 0.00 3.74
4457 4831 2.346847 CGAATTGAACGGAGAGAAGCTG 59.653 50.000 0.00 0.00 0.00 4.24
4458 4832 3.589988 GAATTGAACGGAGAGAAGCTGA 58.410 45.455 0.00 0.00 0.00 4.26
4459 4833 3.902881 ATTGAACGGAGAGAAGCTGAT 57.097 42.857 0.00 0.00 0.00 2.90
4460 4834 2.949451 TGAACGGAGAGAAGCTGATC 57.051 50.000 0.00 0.00 0.00 2.92
4461 4835 2.451490 TGAACGGAGAGAAGCTGATCT 58.549 47.619 0.67 0.67 0.00 2.75
4462 4836 2.828520 TGAACGGAGAGAAGCTGATCTT 59.171 45.455 2.68 0.00 37.83 2.40
4470 4844 2.908688 GAAGCTGATCTTCCTCCTCC 57.091 55.000 0.00 0.00 44.22 4.30
4471 4845 2.397597 GAAGCTGATCTTCCTCCTCCT 58.602 52.381 0.00 0.00 44.22 3.69
4472 4846 2.566708 AGCTGATCTTCCTCCTCCTT 57.433 50.000 0.00 0.00 0.00 3.36
4473 4847 3.697190 AGCTGATCTTCCTCCTCCTTA 57.303 47.619 0.00 0.00 0.00 2.69
4474 4848 4.212070 AGCTGATCTTCCTCCTCCTTAT 57.788 45.455 0.00 0.00 0.00 1.73
4475 4849 4.159557 AGCTGATCTTCCTCCTCCTTATC 58.840 47.826 0.00 0.00 0.00 1.75
4476 4850 3.260632 GCTGATCTTCCTCCTCCTTATCC 59.739 52.174 0.00 0.00 0.00 2.59
4477 4851 3.837731 CTGATCTTCCTCCTCCTTATCCC 59.162 52.174 0.00 0.00 0.00 3.85
4478 4852 2.797285 TCTTCCTCCTCCTTATCCCC 57.203 55.000 0.00 0.00 0.00 4.81
4479 4853 2.236851 TCTTCCTCCTCCTTATCCCCT 58.763 52.381 0.00 0.00 0.00 4.79
4480 4854 2.597304 TCTTCCTCCTCCTTATCCCCTT 59.403 50.000 0.00 0.00 0.00 3.95
4481 4855 2.797285 TCCTCCTCCTTATCCCCTTC 57.203 55.000 0.00 0.00 0.00 3.46
4482 4856 1.223337 TCCTCCTCCTTATCCCCTTCC 59.777 57.143 0.00 0.00 0.00 3.46
4483 4857 1.224381 CCTCCTCCTTATCCCCTTCCT 59.776 57.143 0.00 0.00 0.00 3.36
4484 4858 2.615391 CTCCTCCTTATCCCCTTCCTC 58.385 57.143 0.00 0.00 0.00 3.71
4485 4859 2.181196 CTCCTCCTTATCCCCTTCCTCT 59.819 54.545 0.00 0.00 0.00 3.69
4486 4860 2.597304 TCCTCCTTATCCCCTTCCTCTT 59.403 50.000 0.00 0.00 0.00 2.85
4487 4861 2.976185 CCTCCTTATCCCCTTCCTCTTC 59.024 54.545 0.00 0.00 0.00 2.87
4488 4862 2.976185 CTCCTTATCCCCTTCCTCTTCC 59.024 54.545 0.00 0.00 0.00 3.46
4489 4863 2.597304 TCCTTATCCCCTTCCTCTTCCT 59.403 50.000 0.00 0.00 0.00 3.36
4490 4864 2.976185 CCTTATCCCCTTCCTCTTCCTC 59.024 54.545 0.00 0.00 0.00 3.71
4491 4865 2.383442 TATCCCCTTCCTCTTCCTCG 57.617 55.000 0.00 0.00 0.00 4.63
4492 4866 0.340208 ATCCCCTTCCTCTTCCTCGT 59.660 55.000 0.00 0.00 0.00 4.18
4493 4867 0.324460 TCCCCTTCCTCTTCCTCGTC 60.324 60.000 0.00 0.00 0.00 4.20
4494 4868 0.324830 CCCCTTCCTCTTCCTCGTCT 60.325 60.000 0.00 0.00 0.00 4.18
4495 4869 1.107945 CCCTTCCTCTTCCTCGTCTC 58.892 60.000 0.00 0.00 0.00 3.36
4496 4870 1.617263 CCCTTCCTCTTCCTCGTCTCA 60.617 57.143 0.00 0.00 0.00 3.27
4497 4871 2.383855 CCTTCCTCTTCCTCGTCTCAT 58.616 52.381 0.00 0.00 0.00 2.90
4498 4872 2.360801 CCTTCCTCTTCCTCGTCTCATC 59.639 54.545 0.00 0.00 0.00 2.92
4499 4873 3.287222 CTTCCTCTTCCTCGTCTCATCT 58.713 50.000 0.00 0.00 0.00 2.90
4500 4874 4.456535 CTTCCTCTTCCTCGTCTCATCTA 58.543 47.826 0.00 0.00 0.00 1.98
4501 4875 3.811083 TCCTCTTCCTCGTCTCATCTAC 58.189 50.000 0.00 0.00 0.00 2.59
4502 4876 2.882137 CCTCTTCCTCGTCTCATCTACC 59.118 54.545 0.00 0.00 0.00 3.18
4503 4877 3.434453 CCTCTTCCTCGTCTCATCTACCT 60.434 52.174 0.00 0.00 0.00 3.08
4504 4878 3.811083 TCTTCCTCGTCTCATCTACCTC 58.189 50.000 0.00 0.00 0.00 3.85
4505 4879 2.642154 TCCTCGTCTCATCTACCTCC 57.358 55.000 0.00 0.00 0.00 4.30
4506 4880 1.143277 TCCTCGTCTCATCTACCTCCC 59.857 57.143 0.00 0.00 0.00 4.30
4507 4881 1.611519 CTCGTCTCATCTACCTCCCC 58.388 60.000 0.00 0.00 0.00 4.81
4508 4882 1.144093 CTCGTCTCATCTACCTCCCCT 59.856 57.143 0.00 0.00 0.00 4.79
4509 4883 1.133761 TCGTCTCATCTACCTCCCCTG 60.134 57.143 0.00 0.00 0.00 4.45
4510 4884 1.044611 GTCTCATCTACCTCCCCTGC 58.955 60.000 0.00 0.00 0.00 4.85
4511 4885 0.937441 TCTCATCTACCTCCCCTGCT 59.063 55.000 0.00 0.00 0.00 4.24
4512 4886 1.133325 TCTCATCTACCTCCCCTGCTC 60.133 57.143 0.00 0.00 0.00 4.26
4513 4887 0.468214 TCATCTACCTCCCCTGCTCG 60.468 60.000 0.00 0.00 0.00 5.03
4514 4888 1.834822 ATCTACCTCCCCTGCTCGC 60.835 63.158 0.00 0.00 0.00 5.03
4515 4889 2.305314 ATCTACCTCCCCTGCTCGCT 62.305 60.000 0.00 0.00 0.00 4.93
4516 4890 2.442272 TACCTCCCCTGCTCGCTC 60.442 66.667 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 8.940768 ATAAAGGAGATCGAAAAGAAGAGAAG 57.059 34.615 0.00 0.00 0.00 2.85
53 55 7.265673 CAACCGAATCAACTAGATAAAGGAGA 58.734 38.462 0.00 0.00 35.39 3.71
280 293 6.399743 CCCTAAAAAGTGGTCTACTCTTCTC 58.600 44.000 0.00 0.00 39.18 2.87
435 455 9.840427 AAACATTAGTATACATTTGTGCTTGAC 57.160 29.630 5.50 0.00 0.00 3.18
495 698 3.261897 TCTCACAAGGGAAGATCCAGAAC 59.738 47.826 0.00 0.00 38.64 3.01
536 742 4.764172 AGAGTGCGAGAATTTAGCTCAAT 58.236 39.130 0.00 0.00 32.67 2.57
607 817 5.689514 CAGAAGACAGATATAGACAAAGCCG 59.310 44.000 0.00 0.00 0.00 5.52
620 830 5.080337 TGAGAACAGTACCAGAAGACAGAT 58.920 41.667 0.00 0.00 0.00 2.90
690 901 6.151004 GTCTGAGTAAGAGAACACCACTAAC 58.849 44.000 0.00 0.00 34.84 2.34
696 907 4.585955 TGTGTCTGAGTAAGAGAACACC 57.414 45.455 0.00 0.00 34.84 4.16
733 944 8.166706 GCAATTTGAACAAAAGCTCATTGATAG 58.833 33.333 16.58 0.00 34.61 2.08
804 1021 2.303022 CCTAGAGAGCCACAAAACCTGA 59.697 50.000 0.00 0.00 0.00 3.86
839 1060 7.656137 GGATCTTAGGATCGTGCTATTGTTTAA 59.344 37.037 8.59 0.00 46.77 1.52
880 1101 3.232720 TGGACTTTGGGGTAAGGAAAC 57.767 47.619 0.00 0.00 0.00 2.78
1125 1379 3.038280 ACCATCATCATCGTCTTGGGTA 58.962 45.455 0.00 0.00 0.00 3.69
1153 1413 2.297895 CGGTGTCCCCATCCCAAGA 61.298 63.158 0.00 0.00 0.00 3.02
1178 1438 2.290367 CCTTTCATTGATGGCGCGAATA 59.710 45.455 12.10 0.00 0.00 1.75
1225 1491 3.339093 GGGGGTGAGTGAAGGGGG 61.339 72.222 0.00 0.00 0.00 5.40
1336 1602 7.010552 AGCATAGTATTCGTAAGCAGTTGAAAG 59.989 37.037 0.00 0.00 37.18 2.62
1413 1679 4.365723 CTGTTTGCAAAGCATTGAAGTCT 58.634 39.130 13.26 0.00 36.14 3.24
1766 2047 4.910458 TTTTTCCAAAAGGTCAACCCAA 57.090 36.364 0.00 0.00 36.42 4.12
1866 2147 2.601067 TGTGCAGTTGGCCCCATG 60.601 61.111 0.00 0.00 43.89 3.66
2308 2592 1.256812 GCTTGTATGCCACCTTTGGT 58.743 50.000 0.00 0.00 45.98 3.67
2344 2646 3.727726 ACAATAAAGCAAAACCACCAGC 58.272 40.909 0.00 0.00 0.00 4.85
2788 3090 1.564818 TGGGTTCCTGGTGTTGTACAA 59.435 47.619 3.59 3.59 0.00 2.41
2968 3270 4.967084 TGTCTGGACTAGCCTTAAACAA 57.033 40.909 2.38 0.00 37.63 2.83
3018 3320 4.476846 TCAAGATATCCAAAGGTGCCCTTA 59.523 41.667 6.88 0.00 43.92 2.69
3044 3346 1.888436 CTGCTGCCGGAAGTACTCCA 61.888 60.000 12.24 0.00 45.74 3.86
3059 3361 3.094386 TTTTTGGTGAGACGCTGCT 57.906 47.368 0.00 0.00 0.00 4.24
3182 3484 3.244770 ACCTTTCTTTCGGCAAGATACCA 60.245 43.478 0.00 0.00 41.42 3.25
3184 3486 3.751698 ACACCTTTCTTTCGGCAAGATAC 59.248 43.478 0.00 0.00 41.42 2.24
3363 3665 3.260632 TGTTGTAGCTTGCACTATCCTGA 59.739 43.478 0.00 0.00 0.00 3.86
3396 3701 2.169978 CTGAAGAGATGATGCACCCTCA 59.830 50.000 0.00 0.00 0.00 3.86
3437 3745 3.123050 GTTGAGTTGGTTGATGGTTTGC 58.877 45.455 0.00 0.00 0.00 3.68
3644 3989 3.027412 ACTATGTCAGTGGCCAGTAGAG 58.973 50.000 14.17 7.36 35.62 2.43
3657 4002 7.320399 ACGTATTTTGAGATGTCACTATGTCA 58.680 34.615 0.00 0.00 30.10 3.58
3658 4003 7.043325 GGACGTATTTTGAGATGTCACTATGTC 60.043 40.741 14.34 14.34 33.95 3.06
3659 4004 6.757010 GGACGTATTTTGAGATGTCACTATGT 59.243 38.462 0.00 0.00 33.95 2.29
3660 4005 6.201044 GGGACGTATTTTGAGATGTCACTATG 59.799 42.308 0.00 0.00 33.09 2.23
3661 4006 6.127168 TGGGACGTATTTTGAGATGTCACTAT 60.127 38.462 0.00 0.00 36.21 2.12
3662 4007 5.186215 TGGGACGTATTTTGAGATGTCACTA 59.814 40.000 0.00 0.00 36.21 2.74
3663 4008 4.020573 TGGGACGTATTTTGAGATGTCACT 60.021 41.667 0.00 0.00 36.21 3.41
3664 4009 4.250464 TGGGACGTATTTTGAGATGTCAC 58.750 43.478 0.00 0.00 35.85 3.67
3671 4016 2.161609 GCAACCTGGGACGTATTTTGAG 59.838 50.000 0.00 0.00 0.00 3.02
3719 4064 1.109323 AAGCACCAGACAACCTTGGC 61.109 55.000 0.00 0.00 36.08 4.52
3816 4179 1.909302 TCGGAGAAGGGAGAATGCTTT 59.091 47.619 0.00 0.00 0.00 3.51
3915 4278 6.582636 TGGATAAGACGCTAAGAATCACAAT 58.417 36.000 0.00 0.00 0.00 2.71
3958 4321 1.285667 TCTGGTCCATGCCATCACAAT 59.714 47.619 0.00 0.00 37.96 2.71
3973 4336 1.215647 GGCGTCATCGACTTCTGGT 59.784 57.895 0.00 0.00 42.52 4.00
4026 4389 3.445450 CACTAGCTCCATATATCTGGCGT 59.555 47.826 2.21 0.00 36.16 5.68
4134 4500 1.555075 TCTGAGTGTAGGTGGGCATTC 59.445 52.381 0.00 0.00 0.00 2.67
4212 4586 3.529533 CAGAATCGAGGATTGCAGAAGT 58.470 45.455 0.00 0.00 31.89 3.01
4213 4587 2.287373 GCAGAATCGAGGATTGCAGAAG 59.713 50.000 8.52 0.00 31.89 2.85
4231 4605 2.032054 ACACGTGAACATGAAAGTGCAG 59.968 45.455 25.01 0.00 33.36 4.41
4248 4622 7.521509 AATCCTAACGATAAAGAAGAACACG 57.478 36.000 0.00 0.00 0.00 4.49
4270 4644 4.340617 ACACCGGGTCACATGAATAAAAT 58.659 39.130 6.32 0.00 0.00 1.82
4290 4664 1.680487 CATGGACCCCACCGTTACA 59.320 57.895 0.00 0.00 35.80 2.41
4291 4665 1.078001 CCATGGACCCCACCGTTAC 60.078 63.158 5.56 0.00 35.80 2.50
4292 4666 1.539372 ACCATGGACCCCACCGTTA 60.539 57.895 21.47 0.00 35.80 3.18
4293 4667 2.856988 ACCATGGACCCCACCGTT 60.857 61.111 21.47 0.00 35.80 4.44
4294 4668 3.327404 GACCATGGACCCCACCGT 61.327 66.667 21.47 0.00 35.80 4.83
4295 4669 3.326578 TGACCATGGACCCCACCG 61.327 66.667 21.47 0.00 35.80 4.94
4296 4670 2.677228 CTGACCATGGACCCCACC 59.323 66.667 21.47 0.00 35.80 4.61
4297 4671 2.044946 GCTGACCATGGACCCCAC 60.045 66.667 21.47 3.03 35.80 4.61
4298 4672 3.716195 CGCTGACCATGGACCCCA 61.716 66.667 21.47 9.51 38.19 4.96
4299 4673 3.399181 TCGCTGACCATGGACCCC 61.399 66.667 21.47 4.93 0.00 4.95
4300 4674 2.125106 GTCGCTGACCATGGACCC 60.125 66.667 21.47 7.67 0.00 4.46
4309 4683 2.262915 CTGGTCTGGGTCGCTGAC 59.737 66.667 15.84 15.84 0.00 3.51
4310 4684 2.117423 TCTGGTCTGGGTCGCTGA 59.883 61.111 0.00 0.00 0.00 4.26
4311 4685 2.262915 GTCTGGTCTGGGTCGCTG 59.737 66.667 0.00 0.00 0.00 5.18
4312 4686 2.203640 TGTCTGGTCTGGGTCGCT 60.204 61.111 0.00 0.00 0.00 4.93
4313 4687 2.262915 CTGTCTGGTCTGGGTCGC 59.737 66.667 0.00 0.00 0.00 5.19
4314 4688 1.599606 CTCCTGTCTGGTCTGGGTCG 61.600 65.000 0.00 0.00 37.07 4.79
4315 4689 0.543174 ACTCCTGTCTGGTCTGGGTC 60.543 60.000 0.00 0.00 37.07 4.46
4316 4690 0.543174 GACTCCTGTCTGGTCTGGGT 60.543 60.000 0.00 0.00 39.94 4.51
4317 4691 1.599606 CGACTCCTGTCTGGTCTGGG 61.600 65.000 0.00 0.00 40.86 4.45
4318 4692 0.609406 TCGACTCCTGTCTGGTCTGG 60.609 60.000 0.00 0.00 40.86 3.86
4319 4693 1.068194 GTTCGACTCCTGTCTGGTCTG 60.068 57.143 0.00 0.00 40.86 3.51
4320 4694 1.249407 GTTCGACTCCTGTCTGGTCT 58.751 55.000 0.00 0.00 40.86 3.85
4321 4695 0.244178 GGTTCGACTCCTGTCTGGTC 59.756 60.000 0.00 0.00 40.86 4.02
4322 4696 0.469331 TGGTTCGACTCCTGTCTGGT 60.469 55.000 7.25 0.00 40.86 4.00
4323 4697 0.244994 CTGGTTCGACTCCTGTCTGG 59.755 60.000 7.25 0.00 40.86 3.86
4324 4698 0.389166 GCTGGTTCGACTCCTGTCTG 60.389 60.000 12.06 0.00 40.86 3.51
4325 4699 1.536943 GGCTGGTTCGACTCCTGTCT 61.537 60.000 12.06 0.00 40.86 3.41
4326 4700 1.079750 GGCTGGTTCGACTCCTGTC 60.080 63.158 12.06 7.68 39.70 3.51
4327 4701 2.932234 CGGCTGGTTCGACTCCTGT 61.932 63.158 12.06 0.00 0.00 4.00
4328 4702 2.125912 CGGCTGGTTCGACTCCTG 60.126 66.667 7.25 7.59 0.00 3.86
4329 4703 2.282958 TCGGCTGGTTCGACTCCT 60.283 61.111 7.25 0.00 0.00 3.69
4330 4704 2.182030 CTCGGCTGGTTCGACTCC 59.818 66.667 0.00 0.00 32.86 3.85
4331 4705 2.182030 CCTCGGCTGGTTCGACTC 59.818 66.667 0.00 0.00 32.86 3.36
4332 4706 4.070552 GCCTCGGCTGGTTCGACT 62.071 66.667 0.00 0.00 38.26 4.18
4350 4724 4.779733 TCCTCCTGGCTCGGTCCC 62.780 72.222 0.00 0.00 0.00 4.46
4351 4725 2.569218 TACTCCTCCTGGCTCGGTCC 62.569 65.000 0.00 0.00 0.00 4.46
4352 4726 1.076923 TACTCCTCCTGGCTCGGTC 60.077 63.158 0.00 0.00 0.00 4.79
4353 4727 1.076632 CTACTCCTCCTGGCTCGGT 60.077 63.158 0.00 0.00 0.00 4.69
4354 4728 1.076632 ACTACTCCTCCTGGCTCGG 60.077 63.158 0.00 0.00 0.00 4.63
4355 4729 1.440938 CGACTACTCCTCCTGGCTCG 61.441 65.000 0.00 0.00 0.00 5.03
4356 4730 0.107116 TCGACTACTCCTCCTGGCTC 60.107 60.000 0.00 0.00 0.00 4.70
4357 4731 0.106918 CTCGACTACTCCTCCTGGCT 60.107 60.000 0.00 0.00 0.00 4.75
4358 4732 0.394625 ACTCGACTACTCCTCCTGGC 60.395 60.000 0.00 0.00 0.00 4.85
4359 4733 1.670791 GACTCGACTACTCCTCCTGG 58.329 60.000 0.00 0.00 0.00 4.45
4360 4734 1.292061 CGACTCGACTACTCCTCCTG 58.708 60.000 0.00 0.00 0.00 3.86
4361 4735 0.903942 ACGACTCGACTACTCCTCCT 59.096 55.000 5.20 0.00 0.00 3.69
4362 4736 1.008329 CACGACTCGACTACTCCTCC 58.992 60.000 5.20 0.00 0.00 4.30
4363 4737 1.394227 CACACGACTCGACTACTCCTC 59.606 57.143 5.20 0.00 0.00 3.71
4364 4738 1.440708 CACACGACTCGACTACTCCT 58.559 55.000 5.20 0.00 0.00 3.69
4365 4739 0.447011 CCACACGACTCGACTACTCC 59.553 60.000 5.20 0.00 0.00 3.85
4366 4740 0.447011 CCCACACGACTCGACTACTC 59.553 60.000 5.20 0.00 0.00 2.59
4367 4741 0.250640 ACCCACACGACTCGACTACT 60.251 55.000 5.20 0.00 0.00 2.57
4368 4742 0.109873 CACCCACACGACTCGACTAC 60.110 60.000 5.20 0.00 0.00 2.73
4369 4743 0.535780 ACACCCACACGACTCGACTA 60.536 55.000 5.20 0.00 0.00 2.59
4370 4744 0.535780 TACACCCACACGACTCGACT 60.536 55.000 5.20 0.00 0.00 4.18
4371 4745 0.386478 GTACACCCACACGACTCGAC 60.386 60.000 5.20 0.00 0.00 4.20
4372 4746 0.535780 AGTACACCCACACGACTCGA 60.536 55.000 5.20 0.00 0.00 4.04
4373 4747 0.313043 AAGTACACCCACACGACTCG 59.687 55.000 0.00 0.00 0.00 4.18
4374 4748 3.572584 CTTAAGTACACCCACACGACTC 58.427 50.000 0.00 0.00 0.00 3.36
4375 4749 2.298163 CCTTAAGTACACCCACACGACT 59.702 50.000 0.97 0.00 0.00 4.18
4376 4750 2.611224 CCCTTAAGTACACCCACACGAC 60.611 54.545 0.97 0.00 0.00 4.34
4377 4751 1.619827 CCCTTAAGTACACCCACACGA 59.380 52.381 0.97 0.00 0.00 4.35
4378 4752 1.942586 GCCCTTAAGTACACCCACACG 60.943 57.143 0.97 0.00 0.00 4.49
4379 4753 1.612462 GGCCCTTAAGTACACCCACAC 60.612 57.143 0.97 0.00 0.00 3.82
4380 4754 0.694196 GGCCCTTAAGTACACCCACA 59.306 55.000 0.97 0.00 0.00 4.17
4381 4755 0.694196 TGGCCCTTAAGTACACCCAC 59.306 55.000 0.00 0.00 0.00 4.61
4382 4756 1.353022 CTTGGCCCTTAAGTACACCCA 59.647 52.381 0.00 0.00 0.00 4.51
4383 4757 1.353358 ACTTGGCCCTTAAGTACACCC 59.647 52.381 5.18 0.00 36.66 4.61
4384 4758 2.224695 ACACTTGGCCCTTAAGTACACC 60.225 50.000 6.63 0.00 36.29 4.16
4385 4759 2.812011 CACACTTGGCCCTTAAGTACAC 59.188 50.000 6.63 0.00 36.29 2.90
4386 4760 2.224670 CCACACTTGGCCCTTAAGTACA 60.225 50.000 6.63 0.00 36.29 2.90
4387 4761 2.433436 CCACACTTGGCCCTTAAGTAC 58.567 52.381 6.63 0.00 36.29 2.73
4388 4762 2.871096 CCACACTTGGCCCTTAAGTA 57.129 50.000 6.63 0.00 36.29 2.24
4389 4763 3.745723 CCACACTTGGCCCTTAAGT 57.254 52.632 0.00 0.00 38.84 2.24
4399 4773 1.608590 CCTTACAACTGGCCACACTTG 59.391 52.381 0.00 6.42 0.00 3.16
4400 4774 1.981256 CCTTACAACTGGCCACACTT 58.019 50.000 0.00 0.00 0.00 3.16
4401 4775 0.537371 GCCTTACAACTGGCCACACT 60.537 55.000 0.00 0.00 43.11 3.55
4402 4776 1.956802 GCCTTACAACTGGCCACAC 59.043 57.895 0.00 0.00 43.11 3.82
4403 4777 4.492604 GCCTTACAACTGGCCACA 57.507 55.556 0.00 0.00 43.11 4.17
4408 4782 5.371526 ACTCATATCATGCCTTACAACTGG 58.628 41.667 0.00 0.00 0.00 4.00
4409 4783 6.932356 AACTCATATCATGCCTTACAACTG 57.068 37.500 0.00 0.00 0.00 3.16
4410 4784 9.277783 GATTAACTCATATCATGCCTTACAACT 57.722 33.333 0.00 0.00 0.00 3.16
4411 4785 8.223769 CGATTAACTCATATCATGCCTTACAAC 58.776 37.037 0.00 0.00 0.00 3.32
4412 4786 8.147704 TCGATTAACTCATATCATGCCTTACAA 58.852 33.333 0.00 0.00 0.00 2.41
4413 4787 7.666623 TCGATTAACTCATATCATGCCTTACA 58.333 34.615 0.00 0.00 0.00 2.41
4414 4788 8.534333 TTCGATTAACTCATATCATGCCTTAC 57.466 34.615 0.00 0.00 0.00 2.34
4415 4789 9.725019 AATTCGATTAACTCATATCATGCCTTA 57.275 29.630 0.00 0.00 0.00 2.69
4416 4790 8.509690 CAATTCGATTAACTCATATCATGCCTT 58.490 33.333 0.00 0.00 0.00 4.35
4417 4791 7.879677 TCAATTCGATTAACTCATATCATGCCT 59.120 33.333 0.00 0.00 0.00 4.75
4418 4792 8.032952 TCAATTCGATTAACTCATATCATGCC 57.967 34.615 0.00 0.00 0.00 4.40
4419 4793 9.322776 GTTCAATTCGATTAACTCATATCATGC 57.677 33.333 0.00 0.00 0.00 4.06
4420 4794 9.521179 CGTTCAATTCGATTAACTCATATCATG 57.479 33.333 0.00 0.00 0.00 3.07
4421 4795 8.712363 CCGTTCAATTCGATTAACTCATATCAT 58.288 33.333 0.00 0.00 0.00 2.45
4422 4796 7.923878 TCCGTTCAATTCGATTAACTCATATCA 59.076 33.333 0.00 0.00 0.00 2.15
4423 4797 8.294341 TCCGTTCAATTCGATTAACTCATATC 57.706 34.615 0.00 0.00 0.00 1.63
4424 4798 8.141909 TCTCCGTTCAATTCGATTAACTCATAT 58.858 33.333 0.00 0.00 0.00 1.78
4425 4799 7.485810 TCTCCGTTCAATTCGATTAACTCATA 58.514 34.615 0.00 0.00 0.00 2.15
4426 4800 6.338146 TCTCCGTTCAATTCGATTAACTCAT 58.662 36.000 0.00 0.00 0.00 2.90
4427 4801 5.716094 TCTCCGTTCAATTCGATTAACTCA 58.284 37.500 0.00 0.00 0.00 3.41
4428 4802 6.034591 TCTCTCCGTTCAATTCGATTAACTC 58.965 40.000 0.00 0.00 0.00 3.01
4429 4803 5.962433 TCTCTCCGTTCAATTCGATTAACT 58.038 37.500 0.00 0.00 0.00 2.24
4430 4804 6.642683 TTCTCTCCGTTCAATTCGATTAAC 57.357 37.500 0.00 0.00 0.00 2.01
4431 4805 5.291128 GCTTCTCTCCGTTCAATTCGATTAA 59.709 40.000 0.00 0.00 0.00 1.40
4432 4806 4.804139 GCTTCTCTCCGTTCAATTCGATTA 59.196 41.667 0.00 0.00 0.00 1.75
4433 4807 3.619038 GCTTCTCTCCGTTCAATTCGATT 59.381 43.478 0.00 0.00 0.00 3.34
4434 4808 3.118956 AGCTTCTCTCCGTTCAATTCGAT 60.119 43.478 0.00 0.00 0.00 3.59
4435 4809 2.231478 AGCTTCTCTCCGTTCAATTCGA 59.769 45.455 0.00 0.00 0.00 3.71
4436 4810 2.346847 CAGCTTCTCTCCGTTCAATTCG 59.653 50.000 0.00 0.00 0.00 3.34
4437 4811 3.589988 TCAGCTTCTCTCCGTTCAATTC 58.410 45.455 0.00 0.00 0.00 2.17
4438 4812 3.685139 TCAGCTTCTCTCCGTTCAATT 57.315 42.857 0.00 0.00 0.00 2.32
4439 4813 3.450457 AGATCAGCTTCTCTCCGTTCAAT 59.550 43.478 0.00 0.00 0.00 2.57
4440 4814 2.828520 AGATCAGCTTCTCTCCGTTCAA 59.171 45.455 0.00 0.00 0.00 2.69
4441 4815 2.451490 AGATCAGCTTCTCTCCGTTCA 58.549 47.619 0.00 0.00 0.00 3.18
4442 4816 3.518634 AAGATCAGCTTCTCTCCGTTC 57.481 47.619 0.00 0.00 28.17 3.95
4452 4826 2.566708 AGGAGGAGGAAGATCAGCTT 57.433 50.000 0.00 0.00 40.25 3.74
4453 4827 2.566708 AAGGAGGAGGAAGATCAGCT 57.433 50.000 0.00 0.00 0.00 4.24
4454 4828 3.260632 GGATAAGGAGGAGGAAGATCAGC 59.739 52.174 0.00 0.00 0.00 4.26
4455 4829 3.837731 GGGATAAGGAGGAGGAAGATCAG 59.162 52.174 0.00 0.00 0.00 2.90
4456 4830 3.440154 GGGGATAAGGAGGAGGAAGATCA 60.440 52.174 0.00 0.00 0.00 2.92
4457 4831 3.178046 GGGGATAAGGAGGAGGAAGATC 58.822 54.545 0.00 0.00 0.00 2.75
4458 4832 2.806890 AGGGGATAAGGAGGAGGAAGAT 59.193 50.000 0.00 0.00 0.00 2.40
4459 4833 2.236851 AGGGGATAAGGAGGAGGAAGA 58.763 52.381 0.00 0.00 0.00 2.87
4460 4834 2.805290 AGGGGATAAGGAGGAGGAAG 57.195 55.000 0.00 0.00 0.00 3.46
4461 4835 2.361504 GGAAGGGGATAAGGAGGAGGAA 60.362 54.545 0.00 0.00 0.00 3.36
4462 4836 1.223337 GGAAGGGGATAAGGAGGAGGA 59.777 57.143 0.00 0.00 0.00 3.71
4463 4837 1.224381 AGGAAGGGGATAAGGAGGAGG 59.776 57.143 0.00 0.00 0.00 4.30
4464 4838 2.181196 AGAGGAAGGGGATAAGGAGGAG 59.819 54.545 0.00 0.00 0.00 3.69
4465 4839 2.236851 AGAGGAAGGGGATAAGGAGGA 58.763 52.381 0.00 0.00 0.00 3.71
4466 4840 2.805290 AGAGGAAGGGGATAAGGAGG 57.195 55.000 0.00 0.00 0.00 4.30
4467 4841 2.976185 GGAAGAGGAAGGGGATAAGGAG 59.024 54.545 0.00 0.00 0.00 3.69
4468 4842 2.597304 AGGAAGAGGAAGGGGATAAGGA 59.403 50.000 0.00 0.00 0.00 3.36
4469 4843 2.976185 GAGGAAGAGGAAGGGGATAAGG 59.024 54.545 0.00 0.00 0.00 2.69
4470 4844 2.630580 CGAGGAAGAGGAAGGGGATAAG 59.369 54.545 0.00 0.00 0.00 1.73
4471 4845 2.023307 ACGAGGAAGAGGAAGGGGATAA 60.023 50.000 0.00 0.00 0.00 1.75
4472 4846 1.574339 ACGAGGAAGAGGAAGGGGATA 59.426 52.381 0.00 0.00 0.00 2.59
4473 4847 0.340208 ACGAGGAAGAGGAAGGGGAT 59.660 55.000 0.00 0.00 0.00 3.85
4474 4848 0.324460 GACGAGGAAGAGGAAGGGGA 60.324 60.000 0.00 0.00 0.00 4.81
4475 4849 0.324830 AGACGAGGAAGAGGAAGGGG 60.325 60.000 0.00 0.00 0.00 4.79
4476 4850 1.107945 GAGACGAGGAAGAGGAAGGG 58.892 60.000 0.00 0.00 0.00 3.95
4477 4851 1.840737 TGAGACGAGGAAGAGGAAGG 58.159 55.000 0.00 0.00 0.00 3.46
4478 4852 3.287222 AGATGAGACGAGGAAGAGGAAG 58.713 50.000 0.00 0.00 0.00 3.46
4479 4853 3.374042 AGATGAGACGAGGAAGAGGAA 57.626 47.619 0.00 0.00 0.00 3.36
4480 4854 3.433882 GGTAGATGAGACGAGGAAGAGGA 60.434 52.174 0.00 0.00 0.00 3.71
4481 4855 2.882137 GGTAGATGAGACGAGGAAGAGG 59.118 54.545 0.00 0.00 0.00 3.69
4482 4856 3.813166 GAGGTAGATGAGACGAGGAAGAG 59.187 52.174 0.00 0.00 0.00 2.85
4483 4857 3.433882 GGAGGTAGATGAGACGAGGAAGA 60.434 52.174 0.00 0.00 0.00 2.87
4484 4858 2.882137 GGAGGTAGATGAGACGAGGAAG 59.118 54.545 0.00 0.00 0.00 3.46
4485 4859 2.423088 GGGAGGTAGATGAGACGAGGAA 60.423 54.545 0.00 0.00 0.00 3.36
4486 4860 1.143277 GGGAGGTAGATGAGACGAGGA 59.857 57.143 0.00 0.00 0.00 3.71
4487 4861 1.611519 GGGAGGTAGATGAGACGAGG 58.388 60.000 0.00 0.00 0.00 4.63
4488 4862 1.144093 AGGGGAGGTAGATGAGACGAG 59.856 57.143 0.00 0.00 0.00 4.18
4489 4863 1.133761 CAGGGGAGGTAGATGAGACGA 60.134 57.143 0.00 0.00 0.00 4.20
4490 4864 1.323412 CAGGGGAGGTAGATGAGACG 58.677 60.000 0.00 0.00 0.00 4.18
4491 4865 1.044611 GCAGGGGAGGTAGATGAGAC 58.955 60.000 0.00 0.00 0.00 3.36
4492 4866 0.937441 AGCAGGGGAGGTAGATGAGA 59.063 55.000 0.00 0.00 0.00 3.27
4493 4867 1.337118 GAGCAGGGGAGGTAGATGAG 58.663 60.000 0.00 0.00 0.00 2.90
4494 4868 0.468214 CGAGCAGGGGAGGTAGATGA 60.468 60.000 0.00 0.00 0.00 2.92
4495 4869 2.045280 CGAGCAGGGGAGGTAGATG 58.955 63.158 0.00 0.00 0.00 2.90
4496 4870 1.834822 GCGAGCAGGGGAGGTAGAT 60.835 63.158 0.00 0.00 0.00 1.98
4497 4871 2.442272 GCGAGCAGGGGAGGTAGA 60.442 66.667 0.00 0.00 0.00 2.59
4498 4872 2.443016 AGCGAGCAGGGGAGGTAG 60.443 66.667 0.00 0.00 0.00 3.18
4499 4873 2.442272 GAGCGAGCAGGGGAGGTA 60.442 66.667 0.00 0.00 0.00 3.08


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

AutoCloner maintained by Alex Coulton.