Multiple sequence alignment - TraesCS1A01G050200

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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 TraesCS1A01G050200 chr1A 100.000 3536 0 0 1 3536 32110146 32113681 0.000000e+00 6530.0
1 TraesCS1A01G050200 chr1D 92.136 2683 160 23 560 3199 33595285 33597959 0.000000e+00 3738.0
2 TraesCS1A01G050200 chr1D 91.608 572 37 6 1 568 33594696 33595260 0.000000e+00 780.0
3 TraesCS1A01G050200 chr1B 93.608 2331 117 9 619 2936 50950180 50952491 0.000000e+00 3450.0
4 TraesCS1A01G050200 chr1B 92.745 2412 127 16 554 2936 50900199 50902591 0.000000e+00 3441.0
5 TraesCS1A01G050200 chr1B 92.797 472 29 2 1 470 50949364 50949832 0.000000e+00 678.0
6 TraesCS1A01G050200 chr1B 89.324 281 18 7 2928 3199 50923744 50924021 3.380000e-90 342.0
7 TraesCS1A01G050200 chr1B 89.963 269 16 4 2940 3199 50952547 50952813 1.570000e-88 337.0
8 TraesCS1A01G050200 chr1B 89.474 152 16 0 192 343 50899200 50899351 3.600000e-45 193.0
9 TraesCS1A01G050200 chr1B 96.774 62 2 0 1 62 50898882 50898943 1.740000e-18 104.0
10 TraesCS1A01G050200 chr7D 86.547 2059 233 23 743 2772 497320997 497318954 0.000000e+00 2228.0
11 TraesCS1A01G050200 chr7A 87.389 1911 212 16 888 2777 563246930 563245028 0.000000e+00 2167.0
12 TraesCS1A01G050200 chr7A 86.961 1879 221 21 933 2794 563293436 563291565 0.000000e+00 2091.0
13 TraesCS1A01G050200 chr7A 87.381 1783 213 8 991 2769 29009261 29007487 0.000000e+00 2036.0
14 TraesCS1A01G050200 chr4A 87.222 1800 218 9 991 2788 702327814 702326025 0.000000e+00 2039.0
15 TraesCS1A01G050200 chr7B 86.942 1815 218 13 991 2792 525598503 525596695 0.000000e+00 2021.0
16 TraesCS1A01G050200 chr3A 94.100 339 20 0 3198 3536 33416270 33415932 1.880000e-142 516.0
17 TraesCS1A01G050200 chr5D 94.083 338 20 0 3199 3536 224364503 224364840 6.770000e-142 514.0
18 TraesCS1A01G050200 chr5D 93.805 339 21 0 3198 3536 57872173 57871835 8.760000e-141 510.0
19 TraesCS1A01G050200 chr2D 94.083 338 20 0 3199 3536 22363888 22364225 6.770000e-142 514.0
20 TraesCS1A01G050200 chr6D 93.824 340 20 1 3198 3536 32464355 32464016 8.760000e-141 510.0
21 TraesCS1A01G050200 chr6D 93.787 338 21 0 3199 3536 58610489 58610152 3.150000e-140 508.0
22 TraesCS1A01G050200 chr6D 93.510 339 22 0 3198 3536 56053953 56054291 4.070000e-139 505.0
23 TraesCS1A01G050200 chr3D 93.787 338 21 0 3196 3533 153611624 153611287 3.150000e-140 508.0
24 TraesCS1A01G050200 chr3D 93.314 344 22 1 3193 3536 159443166 159443508 1.130000e-139 507.0
25 TraesCS1A01G050200 chr5B 80.723 83 16 0 2946 3028 305544997 305544915 8.190000e-07 65.8


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 TraesCS1A01G050200 chr1A 32110146 32113681 3535 False 6530.000000 6530 100.000000 1 3536 1 chr1A.!!$F1 3535
1 TraesCS1A01G050200 chr1D 33594696 33597959 3263 False 2259.000000 3738 91.872000 1 3199 2 chr1D.!!$F1 3198
2 TraesCS1A01G050200 chr1B 50949364 50952813 3449 False 1488.333333 3450 92.122667 1 3199 3 chr1B.!!$F3 3198
3 TraesCS1A01G050200 chr1B 50898882 50902591 3709 False 1246.000000 3441 92.997667 1 2936 3 chr1B.!!$F2 2935
4 TraesCS1A01G050200 chr7D 497318954 497320997 2043 True 2228.000000 2228 86.547000 743 2772 1 chr7D.!!$R1 2029
5 TraesCS1A01G050200 chr7A 563245028 563246930 1902 True 2167.000000 2167 87.389000 888 2777 1 chr7A.!!$R2 1889
6 TraesCS1A01G050200 chr7A 563291565 563293436 1871 True 2091.000000 2091 86.961000 933 2794 1 chr7A.!!$R3 1861
7 TraesCS1A01G050200 chr7A 29007487 29009261 1774 True 2036.000000 2036 87.381000 991 2769 1 chr7A.!!$R1 1778
8 TraesCS1A01G050200 chr4A 702326025 702327814 1789 True 2039.000000 2039 87.222000 991 2788 1 chr4A.!!$R1 1797
9 TraesCS1A01G050200 chr7B 525596695 525598503 1808 True 2021.000000 2021 86.942000 991 2792 1 chr7B.!!$R1 1801

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
922 2130 3.538634 AATTACTACAACCTCTCCGCC 57.461 47.619 0.0 0.0 0.00 6.13 F
1266 2483 0.328592 AGCTCAGGACCTCTGTCGTA 59.671 55.000 0.0 0.0 42.73 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1752 2969 1.153597 CGGCGTCAGCTTGCATGATA 61.154 55.0 3.33 0.0 44.37 2.15 R
3265 4561 0.969894 CACACTCTCCCCTCTCGTTT 59.030 55.0 0.00 0.0 0.00 3.60 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
101 268 4.989168 CCTATAGCTGATTTTCACGGTACC 59.011 45.833 0.16 0.16 0.00 3.34
250 417 6.551601 ACCTGATAGTACAATTCTACTGGAGG 59.448 42.308 3.84 7.91 0.00 4.30
258 425 8.552296 AGTACAATTCTACTGGAGGATTTTCAT 58.448 33.333 0.00 0.00 30.01 2.57
312 481 5.564768 TGATTACAAACAATATCGTTGGCG 58.435 37.500 0.00 0.00 39.92 5.69
367 1253 9.199184 CATAAGTTCTCGTTGTATTTTGAATCG 57.801 33.333 0.00 0.00 0.00 3.34
539 1469 7.668052 ACACAAAATAGCAGGGACTAATAAACA 59.332 33.333 0.00 0.00 36.02 2.83
555 1485 9.396022 ACTAATAAACAGTGACAAAGGGATATG 57.604 33.333 0.00 0.00 0.00 1.78
563 1528 4.516698 GTGACAAAGGGATATGCTACATGG 59.483 45.833 0.00 0.00 0.00 3.66
922 2130 3.538634 AATTACTACAACCTCTCCGCC 57.461 47.619 0.00 0.00 0.00 6.13
1056 2273 1.228124 CTTCCCCAACGACAAGGCA 60.228 57.895 0.00 0.00 0.00 4.75
1083 2300 2.504519 GAGCCGCTAAACCCCGAT 59.495 61.111 0.00 0.00 0.00 4.18
1098 2315 0.737367 CCGATGATGTCCGCGCATAT 60.737 55.000 8.75 0.00 0.00 1.78
1182 2399 1.343465 CCTAACGTGAAGCCGGGATAT 59.657 52.381 2.18 0.00 0.00 1.63
1260 2477 0.411452 TGAAGGAGCTCAGGACCTCT 59.589 55.000 17.19 0.00 33.16 3.69
1266 2483 0.328592 AGCTCAGGACCTCTGTCGTA 59.671 55.000 0.00 0.00 42.73 3.43
1326 2543 0.401395 TCTTCCCCTCCACCAACAGT 60.401 55.000 0.00 0.00 0.00 3.55
1389 2606 2.589442 GTCGGGTTCACGTGGCAA 60.589 61.111 17.00 0.00 34.94 4.52
1644 2861 2.997897 GCCGACCAGACCCACTCT 60.998 66.667 0.00 0.00 0.00 3.24
1647 2864 0.611062 CCGACCAGACCCACTCTACA 60.611 60.000 0.00 0.00 0.00 2.74
1702 2919 1.153086 GCCAACATCCGCTCCATCT 60.153 57.895 0.00 0.00 0.00 2.90
1752 2969 1.222936 CCCAGCCAAGCTTCTCGAT 59.777 57.895 0.00 0.00 36.40 3.59
1833 3050 0.655733 CAACGTCTTCCAACGCTGTT 59.344 50.000 0.00 0.00 46.40 3.16
2334 3551 1.519719 GATCAAGGCGACTGGAGCT 59.480 57.895 2.85 0.00 45.74 4.09
2383 3600 3.521995 CGTGTGCTCATGGAGAACT 57.478 52.632 5.97 0.00 38.92 3.01
2418 3635 2.566833 AGGCTTATCTTGCACACACA 57.433 45.000 0.00 0.00 0.00 3.72
2715 3944 5.386060 CGAGGATATATGTATAGGAGGCCA 58.614 45.833 5.01 0.00 0.00 5.36
2732 3966 5.221641 GGAGGCCAGTACCAAAGAAATTTTT 60.222 40.000 5.01 0.00 0.00 1.94
2944 4231 4.686191 TTAGACAAACTCACCGGGTTAA 57.314 40.909 6.32 0.00 0.00 2.01
2965 4252 0.446222 CTAACCAAACATGGCGTCGG 59.554 55.000 0.00 0.00 0.00 4.79
3074 4362 6.652205 AAAAACCACCTCCCTAATGATAGA 57.348 37.500 0.00 0.00 0.00 1.98
3095 4383 3.738830 ACCGTAACTTGCAACACTCTA 57.261 42.857 0.00 0.00 0.00 2.43
3107 4395 4.994852 TGCAACACTCTACTGGTTTATGTC 59.005 41.667 0.00 0.00 0.00 3.06
3174 4470 4.334203 GTGTATAGATCATCGGCGAGAGAT 59.666 45.833 22.39 22.39 0.00 2.75
3178 4474 3.149981 AGATCATCGGCGAGAGATAACA 58.850 45.455 22.29 1.26 0.00 2.41
3199 4495 1.200020 CTTTCCTTACCGCCAAAGCTG 59.800 52.381 0.00 0.00 36.60 4.24
3200 4496 0.109723 TTCCTTACCGCCAAAGCTGT 59.890 50.000 0.00 0.00 39.94 4.40
3201 4497 0.109723 TCCTTACCGCCAAAGCTGTT 59.890 50.000 0.00 0.00 37.62 3.16
3202 4498 0.240945 CCTTACCGCCAAAGCTGTTG 59.759 55.000 0.00 0.00 37.62 3.33
3203 4499 0.240945 CTTACCGCCAAAGCTGTTGG 59.759 55.000 18.09 18.09 42.37 3.77
3204 4500 1.175983 TTACCGCCAAAGCTGTTGGG 61.176 55.000 21.58 14.47 39.90 4.12
3207 4503 3.869481 GCCAAAGCTGTTGGGGAA 58.131 55.556 21.58 0.00 39.90 3.97
3208 4504 1.367471 GCCAAAGCTGTTGGGGAAC 59.633 57.895 21.58 7.90 39.90 3.62
3209 4505 1.659794 CCAAAGCTGTTGGGGAACG 59.340 57.895 15.81 0.00 35.96 3.95
3210 4506 1.106944 CCAAAGCTGTTGGGGAACGT 61.107 55.000 15.81 0.00 35.96 3.99
3211 4507 1.600023 CAAAGCTGTTGGGGAACGTA 58.400 50.000 0.00 0.00 0.00 3.57
3212 4508 1.535462 CAAAGCTGTTGGGGAACGTAG 59.465 52.381 0.00 0.00 0.00 3.51
3214 4510 1.636148 AGCTGTTGGGGAACGTAGTA 58.364 50.000 0.00 0.00 45.00 1.82
3215 4511 2.185387 AGCTGTTGGGGAACGTAGTAT 58.815 47.619 0.00 0.00 45.00 2.12
3216 4512 2.570302 AGCTGTTGGGGAACGTAGTATT 59.430 45.455 0.00 0.00 45.00 1.89
3217 4513 3.008704 AGCTGTTGGGGAACGTAGTATTT 59.991 43.478 0.00 0.00 45.00 1.40
3218 4514 3.754850 GCTGTTGGGGAACGTAGTATTTT 59.245 43.478 0.00 0.00 45.00 1.82
3219 4515 4.937015 GCTGTTGGGGAACGTAGTATTTTA 59.063 41.667 0.00 0.00 45.00 1.52
3220 4516 5.412286 GCTGTTGGGGAACGTAGTATTTTAA 59.588 40.000 0.00 0.00 45.00 1.52
3221 4517 6.072563 GCTGTTGGGGAACGTAGTATTTTAAA 60.073 38.462 0.00 0.00 45.00 1.52
3222 4518 7.521910 GCTGTTGGGGAACGTAGTATTTTAAAA 60.522 37.037 2.51 2.51 45.00 1.52
3223 4519 8.230472 TGTTGGGGAACGTAGTATTTTAAAAA 57.770 30.769 4.44 0.00 45.00 1.94
3244 4540 5.412526 AAAATTCTTACGAACACGCAAGA 57.587 34.783 0.00 0.00 37.55 3.02
3245 4541 5.607119 AAATTCTTACGAACACGCAAGAT 57.393 34.783 6.21 0.00 38.58 2.40
3246 4542 4.842139 ATTCTTACGAACACGCAAGATC 57.158 40.909 6.21 0.00 38.58 2.75
3247 4543 3.570926 TCTTACGAACACGCAAGATCT 57.429 42.857 0.00 0.00 35.43 2.75
3248 4544 4.690184 TCTTACGAACACGCAAGATCTA 57.310 40.909 0.00 0.00 35.43 1.98
3249 4545 5.050644 TCTTACGAACACGCAAGATCTAA 57.949 39.130 0.00 0.00 35.43 2.10
3250 4546 4.855388 TCTTACGAACACGCAAGATCTAAC 59.145 41.667 0.00 0.00 35.43 2.34
3251 4547 3.299340 ACGAACACGCAAGATCTAACT 57.701 42.857 0.00 0.00 43.62 2.24
3252 4548 4.430137 ACGAACACGCAAGATCTAACTA 57.570 40.909 0.00 0.00 43.62 2.24
3253 4549 4.413087 ACGAACACGCAAGATCTAACTAG 58.587 43.478 0.00 0.00 43.62 2.57
3254 4550 3.791887 CGAACACGCAAGATCTAACTAGG 59.208 47.826 0.00 0.00 43.62 3.02
3255 4551 4.438336 CGAACACGCAAGATCTAACTAGGA 60.438 45.833 0.00 0.00 43.62 2.94
3256 4552 4.640789 ACACGCAAGATCTAACTAGGAG 57.359 45.455 0.00 0.00 43.62 3.69
3257 4553 4.270834 ACACGCAAGATCTAACTAGGAGA 58.729 43.478 0.00 0.00 43.62 3.71
3258 4554 4.890581 ACACGCAAGATCTAACTAGGAGAT 59.109 41.667 8.70 8.70 43.62 2.75
3259 4555 5.218885 CACGCAAGATCTAACTAGGAGATG 58.781 45.833 12.72 3.74 43.62 2.90
3260 4556 4.233789 CGCAAGATCTAACTAGGAGATGC 58.766 47.826 12.72 10.86 43.02 3.91
3261 4557 4.261783 CGCAAGATCTAACTAGGAGATGCA 60.262 45.833 12.72 0.00 43.02 3.96
3262 4558 5.566429 CGCAAGATCTAACTAGGAGATGCAT 60.566 44.000 12.72 0.00 43.02 3.96
3263 4559 6.349694 CGCAAGATCTAACTAGGAGATGCATA 60.350 42.308 12.72 0.00 43.02 3.14
3264 4560 7.035004 GCAAGATCTAACTAGGAGATGCATAG 58.965 42.308 12.72 0.00 36.94 2.23
3265 4561 7.093988 GCAAGATCTAACTAGGAGATGCATAGA 60.094 40.741 12.72 0.00 34.59 1.98
3266 4562 8.801299 CAAGATCTAACTAGGAGATGCATAGAA 58.199 37.037 12.72 0.00 34.59 2.10
3267 4563 8.948401 AGATCTAACTAGGAGATGCATAGAAA 57.052 34.615 12.72 0.00 34.59 2.52
3268 4564 8.802267 AGATCTAACTAGGAGATGCATAGAAAC 58.198 37.037 12.72 0.00 34.59 2.78
3269 4565 6.971602 TCTAACTAGGAGATGCATAGAAACG 58.028 40.000 0.00 0.00 34.59 3.60
3270 4566 5.854010 AACTAGGAGATGCATAGAAACGA 57.146 39.130 0.00 0.00 34.59 3.85
3271 4567 5.446143 ACTAGGAGATGCATAGAAACGAG 57.554 43.478 0.00 0.00 34.59 4.18
3272 4568 5.133941 ACTAGGAGATGCATAGAAACGAGA 58.866 41.667 0.00 0.00 34.59 4.04
3273 4569 4.582701 AGGAGATGCATAGAAACGAGAG 57.417 45.455 0.00 0.00 0.00 3.20
3274 4570 3.320541 AGGAGATGCATAGAAACGAGAGG 59.679 47.826 0.00 0.00 0.00 3.69
3275 4571 3.553922 GGAGATGCATAGAAACGAGAGGG 60.554 52.174 0.00 0.00 0.00 4.30
3276 4572 2.366916 AGATGCATAGAAACGAGAGGGG 59.633 50.000 0.00 0.00 0.00 4.79
3277 4573 1.860641 TGCATAGAAACGAGAGGGGA 58.139 50.000 0.00 0.00 0.00 4.81
3278 4574 1.757118 TGCATAGAAACGAGAGGGGAG 59.243 52.381 0.00 0.00 0.00 4.30
3279 4575 2.032620 GCATAGAAACGAGAGGGGAGA 58.967 52.381 0.00 0.00 0.00 3.71
3280 4576 2.035321 GCATAGAAACGAGAGGGGAGAG 59.965 54.545 0.00 0.00 0.00 3.20
3281 4577 3.292460 CATAGAAACGAGAGGGGAGAGT 58.708 50.000 0.00 0.00 0.00 3.24
3282 4578 1.551452 AGAAACGAGAGGGGAGAGTG 58.449 55.000 0.00 0.00 0.00 3.51
3283 4579 1.203075 AGAAACGAGAGGGGAGAGTGT 60.203 52.381 0.00 0.00 0.00 3.55
3284 4580 0.969894 AAACGAGAGGGGAGAGTGTG 59.030 55.000 0.00 0.00 0.00 3.82
3285 4581 0.178958 AACGAGAGGGGAGAGTGTGT 60.179 55.000 0.00 0.00 0.00 3.72
3286 4582 0.609681 ACGAGAGGGGAGAGTGTGTC 60.610 60.000 0.00 0.00 0.00 3.67
3287 4583 1.316706 CGAGAGGGGAGAGTGTGTCC 61.317 65.000 0.00 0.00 0.00 4.02
3288 4584 0.251832 GAGAGGGGAGAGTGTGTCCA 60.252 60.000 0.00 0.00 35.57 4.02
3289 4585 0.543174 AGAGGGGAGAGTGTGTCCAC 60.543 60.000 0.00 0.00 42.17 4.02
3290 4586 1.878656 GAGGGGAGAGTGTGTCCACG 61.879 65.000 0.00 0.00 46.56 4.94
3291 4587 2.207924 GGGGAGAGTGTGTCCACGT 61.208 63.158 0.00 0.00 46.56 4.49
3292 4588 0.896940 GGGGAGAGTGTGTCCACGTA 60.897 60.000 0.00 0.00 46.56 3.57
3293 4589 1.183549 GGGAGAGTGTGTCCACGTAT 58.816 55.000 0.00 0.00 46.56 3.06
3294 4590 1.134560 GGGAGAGTGTGTCCACGTATC 59.865 57.143 0.00 0.00 46.56 2.24
3295 4591 1.134560 GGAGAGTGTGTCCACGTATCC 59.865 57.143 0.00 0.00 46.56 2.59
3296 4592 2.093106 GAGAGTGTGTCCACGTATCCT 58.907 52.381 0.00 0.00 46.56 3.24
3297 4593 2.492484 GAGAGTGTGTCCACGTATCCTT 59.508 50.000 0.00 0.00 46.56 3.36
3298 4594 2.231478 AGAGTGTGTCCACGTATCCTTG 59.769 50.000 0.00 0.00 46.56 3.61
3299 4595 1.968493 AGTGTGTCCACGTATCCTTGT 59.032 47.619 0.00 0.00 46.56 3.16
3300 4596 3.159472 AGTGTGTCCACGTATCCTTGTA 58.841 45.455 0.00 0.00 46.56 2.41
3301 4597 3.192844 AGTGTGTCCACGTATCCTTGTAG 59.807 47.826 0.00 0.00 46.56 2.74
3302 4598 3.192001 GTGTGTCCACGTATCCTTGTAGA 59.808 47.826 0.00 0.00 0.00 2.59
3303 4599 3.192001 TGTGTCCACGTATCCTTGTAGAC 59.808 47.826 0.00 0.00 0.00 2.59
3304 4600 2.756760 TGTCCACGTATCCTTGTAGACC 59.243 50.000 0.00 0.00 0.00 3.85
3305 4601 2.019249 TCCACGTATCCTTGTAGACCG 58.981 52.381 0.00 0.00 0.00 4.79
3306 4602 2.019249 CCACGTATCCTTGTAGACCGA 58.981 52.381 0.00 0.00 0.00 4.69
3307 4603 2.424601 CCACGTATCCTTGTAGACCGAA 59.575 50.000 0.00 0.00 0.00 4.30
3308 4604 3.119388 CCACGTATCCTTGTAGACCGAAA 60.119 47.826 0.00 0.00 0.00 3.46
3309 4605 4.103357 CACGTATCCTTGTAGACCGAAAG 58.897 47.826 0.00 0.00 0.00 2.62
3310 4606 3.114065 CGTATCCTTGTAGACCGAAAGC 58.886 50.000 0.00 0.00 0.00 3.51
3311 4607 2.295253 ATCCTTGTAGACCGAAAGCG 57.705 50.000 0.00 0.00 37.24 4.68
3340 4636 6.632171 GTTTAGTAACGCGGTTAATGTAGT 57.368 37.500 12.47 0.00 29.28 2.73
3341 4637 6.686711 GTTTAGTAACGCGGTTAATGTAGTC 58.313 40.000 12.47 0.00 29.28 2.59
3342 4638 3.429085 AGTAACGCGGTTAATGTAGTCG 58.571 45.455 12.47 0.00 29.42 4.18
3343 4639 2.634982 AACGCGGTTAATGTAGTCGA 57.365 45.000 12.47 0.00 0.00 4.20
3344 4640 2.634982 ACGCGGTTAATGTAGTCGAA 57.365 45.000 12.47 0.00 0.00 3.71
3345 4641 2.253603 ACGCGGTTAATGTAGTCGAAC 58.746 47.619 12.47 0.00 0.00 3.95
3346 4642 1.251002 CGCGGTTAATGTAGTCGAACG 59.749 52.381 0.00 0.00 0.00 3.95
3347 4643 2.253603 GCGGTTAATGTAGTCGAACGT 58.746 47.619 0.00 0.00 0.00 3.99
3348 4644 2.277316 GCGGTTAATGTAGTCGAACGTC 59.723 50.000 0.00 0.00 0.00 4.34
3349 4645 3.751621 CGGTTAATGTAGTCGAACGTCT 58.248 45.455 0.00 0.00 0.00 4.18
3350 4646 4.161333 CGGTTAATGTAGTCGAACGTCTT 58.839 43.478 0.00 0.00 0.00 3.01
3351 4647 4.261581 CGGTTAATGTAGTCGAACGTCTTC 59.738 45.833 0.00 0.00 0.00 2.87
3352 4648 5.156355 GGTTAATGTAGTCGAACGTCTTCA 58.844 41.667 0.00 1.94 0.00 3.02
3353 4649 5.060200 GGTTAATGTAGTCGAACGTCTTCAC 59.940 44.000 0.00 0.00 0.00 3.18
3364 4660 3.806591 GTCTTCACGATCCAACCGA 57.193 52.632 0.00 0.00 0.00 4.69
3365 4661 2.295253 GTCTTCACGATCCAACCGAT 57.705 50.000 0.00 0.00 0.00 4.18
3366 4662 2.194271 GTCTTCACGATCCAACCGATC 58.806 52.381 0.00 0.00 43.58 3.69
3367 4663 1.136305 TCTTCACGATCCAACCGATCC 59.864 52.381 0.00 0.00 44.07 3.36
3368 4664 0.899019 TTCACGATCCAACCGATCCA 59.101 50.000 0.00 0.00 44.07 3.41
3369 4665 0.899019 TCACGATCCAACCGATCCAA 59.101 50.000 0.00 0.00 44.07 3.53
3370 4666 1.134818 TCACGATCCAACCGATCCAAG 60.135 52.381 0.00 0.00 44.07 3.61
3371 4667 0.902531 ACGATCCAACCGATCCAAGT 59.097 50.000 0.00 0.00 44.07 3.16
3372 4668 2.104967 ACGATCCAACCGATCCAAGTA 58.895 47.619 0.00 0.00 44.07 2.24
3373 4669 2.159142 ACGATCCAACCGATCCAAGTAC 60.159 50.000 0.00 0.00 44.07 2.73
3374 4670 2.802057 CGATCCAACCGATCCAAGTACC 60.802 54.545 0.00 0.00 44.07 3.34
3375 4671 0.533491 TCCAACCGATCCAAGTACCG 59.467 55.000 0.00 0.00 0.00 4.02
3376 4672 0.533491 CCAACCGATCCAAGTACCGA 59.467 55.000 0.00 0.00 0.00 4.69
3377 4673 1.066716 CCAACCGATCCAAGTACCGAA 60.067 52.381 0.00 0.00 0.00 4.30
3378 4674 1.997606 CAACCGATCCAAGTACCGAAC 59.002 52.381 0.00 0.00 0.00 3.95
3379 4675 0.171903 ACCGATCCAAGTACCGAACG 59.828 55.000 0.00 0.00 0.00 3.95
3380 4676 0.171903 CCGATCCAAGTACCGAACGT 59.828 55.000 0.00 0.00 0.00 3.99
3381 4677 1.401552 CCGATCCAAGTACCGAACGTA 59.598 52.381 0.00 0.00 0.00 3.57
3382 4678 2.444351 CGATCCAAGTACCGAACGTAC 58.556 52.381 0.00 0.00 46.69 3.67
3390 4686 2.505557 CCGAACGTACGGCACCTC 60.506 66.667 21.06 6.84 46.20 3.85
3391 4687 2.505557 CGAACGTACGGCACCTCC 60.506 66.667 21.06 0.00 0.00 4.30
3400 4696 4.126524 GGCACCTCCGTATTCAGC 57.873 61.111 0.00 0.00 0.00 4.26
3401 4697 1.220749 GGCACCTCCGTATTCAGCA 59.779 57.895 0.00 0.00 0.00 4.41
3402 4698 1.090052 GGCACCTCCGTATTCAGCAC 61.090 60.000 0.00 0.00 0.00 4.40
3403 4699 0.391130 GCACCTCCGTATTCAGCACA 60.391 55.000 0.00 0.00 0.00 4.57
3404 4700 1.359848 CACCTCCGTATTCAGCACAC 58.640 55.000 0.00 0.00 0.00 3.82
3405 4701 0.108804 ACCTCCGTATTCAGCACACG 60.109 55.000 0.00 0.00 35.50 4.49
3406 4702 0.108804 CCTCCGTATTCAGCACACGT 60.109 55.000 0.00 0.00 33.93 4.49
3407 4703 1.671850 CCTCCGTATTCAGCACACGTT 60.672 52.381 0.00 0.00 33.93 3.99
3408 4704 1.654105 CTCCGTATTCAGCACACGTTC 59.346 52.381 0.00 0.00 33.93 3.95
3409 4705 1.000052 TCCGTATTCAGCACACGTTCA 60.000 47.619 0.00 0.00 33.93 3.18
3410 4706 1.390123 CCGTATTCAGCACACGTTCAG 59.610 52.381 0.00 0.00 33.93 3.02
3411 4707 1.201812 CGTATTCAGCACACGTTCAGC 60.202 52.381 0.00 0.00 0.00 4.26
3412 4708 1.798223 GTATTCAGCACACGTTCAGCA 59.202 47.619 6.43 0.00 0.00 4.41
3413 4709 0.588252 ATTCAGCACACGTTCAGCAC 59.412 50.000 6.43 0.00 0.00 4.40
3432 4728 2.953640 CGATGACGTACCTAGAGCTC 57.046 55.000 5.27 5.27 34.56 4.09
3433 4729 2.485903 CGATGACGTACCTAGAGCTCT 58.514 52.381 22.17 22.17 34.56 4.09
3434 4730 2.873472 CGATGACGTACCTAGAGCTCTT 59.127 50.000 23.84 6.60 34.56 2.85
3435 4731 3.303461 CGATGACGTACCTAGAGCTCTTG 60.303 52.174 23.84 20.07 34.56 3.02
3436 4732 3.345508 TGACGTACCTAGAGCTCTTGA 57.654 47.619 23.84 3.35 0.00 3.02
3437 4733 3.887352 TGACGTACCTAGAGCTCTTGAT 58.113 45.455 23.84 9.84 0.00 2.57
3438 4734 3.878103 TGACGTACCTAGAGCTCTTGATC 59.122 47.826 23.84 12.55 0.00 2.92
3439 4735 3.215975 ACGTACCTAGAGCTCTTGATCC 58.784 50.000 23.84 9.33 0.00 3.36
3440 4736 3.215151 CGTACCTAGAGCTCTTGATCCA 58.785 50.000 23.84 0.77 0.00 3.41
3441 4737 3.252215 CGTACCTAGAGCTCTTGATCCAG 59.748 52.174 23.84 11.79 0.00 3.86
3442 4738 3.396685 ACCTAGAGCTCTTGATCCAGT 57.603 47.619 23.84 9.73 0.00 4.00
3443 4739 3.718723 ACCTAGAGCTCTTGATCCAGTT 58.281 45.455 23.84 0.00 0.00 3.16
3444 4740 3.450457 ACCTAGAGCTCTTGATCCAGTTG 59.550 47.826 23.84 6.89 0.00 3.16
3445 4741 3.703556 CCTAGAGCTCTTGATCCAGTTGA 59.296 47.826 23.84 0.00 0.00 3.18
3446 4742 3.891422 AGAGCTCTTGATCCAGTTGAG 57.109 47.619 11.45 0.00 0.00 3.02
3447 4743 2.500910 AGAGCTCTTGATCCAGTTGAGG 59.499 50.000 11.45 0.00 0.00 3.86
3448 4744 2.499289 GAGCTCTTGATCCAGTTGAGGA 59.501 50.000 6.43 0.00 43.01 3.71
3449 4745 2.235898 AGCTCTTGATCCAGTTGAGGAC 59.764 50.000 0.00 0.00 41.30 3.85
3450 4746 2.886081 CTCTTGATCCAGTTGAGGACG 58.114 52.381 0.00 0.00 41.30 4.79
3451 4747 2.493675 CTCTTGATCCAGTTGAGGACGA 59.506 50.000 0.00 0.00 41.30 4.20
3452 4748 2.493675 TCTTGATCCAGTTGAGGACGAG 59.506 50.000 0.00 0.00 41.30 4.18
3453 4749 1.186200 TGATCCAGTTGAGGACGAGG 58.814 55.000 0.00 0.00 41.30 4.63
3454 4750 0.461961 GATCCAGTTGAGGACGAGGG 59.538 60.000 0.00 0.00 41.30 4.30
3455 4751 0.041238 ATCCAGTTGAGGACGAGGGA 59.959 55.000 0.00 0.00 41.30 4.20
3456 4752 0.612174 TCCAGTTGAGGACGAGGGAG 60.612 60.000 0.00 0.00 31.23 4.30
3457 4753 0.612174 CCAGTTGAGGACGAGGGAGA 60.612 60.000 0.00 0.00 0.00 3.71
3458 4754 0.814457 CAGTTGAGGACGAGGGAGAG 59.186 60.000 0.00 0.00 0.00 3.20
3459 4755 0.406361 AGTTGAGGACGAGGGAGAGT 59.594 55.000 0.00 0.00 0.00 3.24
3460 4756 1.203075 AGTTGAGGACGAGGGAGAGTT 60.203 52.381 0.00 0.00 0.00 3.01
3461 4757 1.202817 GTTGAGGACGAGGGAGAGTTC 59.797 57.143 0.00 0.00 0.00 3.01
3462 4758 0.323542 TGAGGACGAGGGAGAGTTCC 60.324 60.000 0.00 0.00 43.23 3.62
3463 4759 1.378124 GAGGACGAGGGAGAGTTCCG 61.378 65.000 0.00 0.00 45.04 4.30
3464 4760 1.678300 GGACGAGGGAGAGTTCCGT 60.678 63.158 0.00 0.00 45.04 4.69
3468 4764 3.701454 AGGGAGAGTTCCGTCAGC 58.299 61.111 0.00 0.00 45.04 4.26
3469 4765 1.228894 AGGGAGAGTTCCGTCAGCA 60.229 57.895 0.00 0.00 45.04 4.41
3470 4766 0.616111 AGGGAGAGTTCCGTCAGCAT 60.616 55.000 0.00 0.00 45.04 3.79
3471 4767 0.460987 GGGAGAGTTCCGTCAGCATG 60.461 60.000 0.00 0.00 45.04 4.06
3472 4768 0.532573 GGAGAGTTCCGTCAGCATGA 59.467 55.000 0.00 0.00 36.78 3.07
3485 4781 3.928769 CATGACGGCGTGGCGATG 61.929 66.667 21.19 10.33 0.00 3.84
3491 4787 4.101790 GGCGTGGCGATGGTGTTG 62.102 66.667 0.00 0.00 0.00 3.33
3492 4788 3.047280 GCGTGGCGATGGTGTTGA 61.047 61.111 0.00 0.00 0.00 3.18
3493 4789 2.398554 GCGTGGCGATGGTGTTGAT 61.399 57.895 0.00 0.00 0.00 2.57
3494 4790 1.425031 CGTGGCGATGGTGTTGATG 59.575 57.895 0.00 0.00 0.00 3.07
3495 4791 1.018752 CGTGGCGATGGTGTTGATGA 61.019 55.000 0.00 0.00 0.00 2.92
3496 4792 1.164411 GTGGCGATGGTGTTGATGAA 58.836 50.000 0.00 0.00 0.00 2.57
3497 4793 1.131126 GTGGCGATGGTGTTGATGAAG 59.869 52.381 0.00 0.00 0.00 3.02
3498 4794 1.271325 TGGCGATGGTGTTGATGAAGT 60.271 47.619 0.00 0.00 0.00 3.01
3499 4795 1.812571 GGCGATGGTGTTGATGAAGTT 59.187 47.619 0.00 0.00 0.00 2.66
3500 4796 3.006940 GGCGATGGTGTTGATGAAGTTA 58.993 45.455 0.00 0.00 0.00 2.24
3501 4797 3.181510 GGCGATGGTGTTGATGAAGTTAC 60.182 47.826 0.00 0.00 0.00 2.50
3502 4798 3.181510 GCGATGGTGTTGATGAAGTTACC 60.182 47.826 0.00 0.00 0.00 2.85
3503 4799 3.062099 CGATGGTGTTGATGAAGTTACCG 59.938 47.826 0.00 0.00 0.00 4.02
3504 4800 2.773487 TGGTGTTGATGAAGTTACCGG 58.227 47.619 0.00 0.00 0.00 5.28
3505 4801 1.467342 GGTGTTGATGAAGTTACCGGC 59.533 52.381 0.00 0.00 0.00 6.13
3506 4802 1.127951 GTGTTGATGAAGTTACCGGCG 59.872 52.381 0.00 0.00 0.00 6.46
3507 4803 0.096454 GTTGATGAAGTTACCGGCGC 59.904 55.000 0.00 0.00 0.00 6.53
3508 4804 0.320858 TTGATGAAGTTACCGGCGCA 60.321 50.000 10.83 0.00 0.00 6.09
3509 4805 0.739462 TGATGAAGTTACCGGCGCAG 60.739 55.000 10.83 4.65 0.00 5.18
3510 4806 1.429148 GATGAAGTTACCGGCGCAGG 61.429 60.000 25.72 25.72 37.30 4.85
3511 4807 2.818274 GAAGTTACCGGCGCAGGG 60.818 66.667 30.14 22.20 35.02 4.45
3515 4811 4.770874 TTACCGGCGCAGGGCTTC 62.771 66.667 30.14 0.00 42.94 3.86
3531 4827 1.546834 CTTCGCCTAAGCACTACGAC 58.453 55.000 0.00 0.00 39.83 4.34
3532 4828 0.179181 TTCGCCTAAGCACTACGACG 60.179 55.000 0.00 0.00 39.83 5.12
3533 4829 1.020861 TCGCCTAAGCACTACGACGA 61.021 55.000 0.00 0.00 39.83 4.20
3534 4830 0.029035 CGCCTAAGCACTACGACGAT 59.971 55.000 0.00 0.00 39.83 3.73
3535 4831 1.262417 CGCCTAAGCACTACGACGATA 59.738 52.381 0.00 0.00 39.83 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 0.454957 CAGAAATTGAACAGCCGGCG 60.455 55.000 23.20 18.60 0.00 6.46
72 239 5.348986 GTGAAAATCAGCTATAGGTCGACA 58.651 41.667 18.91 0.00 0.00 4.35
202 369 0.877743 GCCAGTCTGAAGGTCTTTGC 59.122 55.000 0.00 0.00 0.00 3.68
226 393 6.778069 TCCTCCAGTAGAATTGTACTATCAGG 59.222 42.308 14.39 17.09 31.73 3.86
348 1234 5.475719 AGACCGATTCAAAATACAACGAGA 58.524 37.500 0.00 0.00 0.00 4.04
495 1425 5.553290 TGTGTCAAACTTTGATCGTGAAA 57.447 34.783 7.47 0.00 42.47 2.69
498 1428 6.810888 ATTTTGTGTCAAACTTTGATCGTG 57.189 33.333 7.47 0.00 42.47 4.35
539 1469 5.371526 CATGTAGCATATCCCTTTGTCACT 58.628 41.667 0.00 0.00 0.00 3.41
555 1485 6.759827 TCTTTCCGTTATTAACTCCATGTAGC 59.240 38.462 5.11 0.00 0.00 3.58
563 1528 8.543862 TCCTTTCTTCTTTCCGTTATTAACTC 57.456 34.615 5.11 0.00 0.00 3.01
922 2130 1.518133 CGGAGAGCAGGAAGAAGCG 60.518 63.158 0.00 0.00 35.48 4.68
945 2153 3.583086 TGAAGTGGAGGTAGCTAGCTTTT 59.417 43.478 24.88 16.80 33.58 2.27
1083 2300 1.068434 TGAAGATATGCGCGGACATCA 59.932 47.619 21.08 9.70 0.00 3.07
1098 2315 1.006571 GTCGACGGCCTTGTGAAGA 60.007 57.895 0.00 0.00 0.00 2.87
1182 2399 2.999485 GCTGAGCTCGTCCTGCAGA 61.999 63.158 17.39 0.00 0.00 4.26
1260 2477 2.276853 TGTCATGCCGGGTACGACA 61.277 57.895 9.97 9.97 44.60 4.35
1266 2483 2.032528 CAGTGTGTCATGCCGGGT 59.967 61.111 2.18 0.00 0.00 5.28
1603 2820 4.263209 CACAACCAAGCGCGGCAA 62.263 61.111 8.83 0.00 0.00 4.52
1644 2861 3.270027 CCGACATGCCTTGAAGAATGTA 58.730 45.455 11.69 0.00 33.51 2.29
1647 2864 1.098050 GCCGACATGCCTTGAAGAAT 58.902 50.000 0.00 0.00 0.00 2.40
1737 2954 3.661944 CATGATATCGAGAAGCTTGGCT 58.338 45.455 2.10 0.00 42.56 4.75
1752 2969 1.153597 CGGCGTCAGCTTGCATGATA 61.154 55.000 3.33 0.00 44.37 2.15
2145 3362 1.597027 CTTGAGCCCACGAAACCGT 60.597 57.895 0.00 0.00 41.53 4.83
2334 3551 1.179174 CGGCATCCTCCTCCGTCATA 61.179 60.000 0.00 0.00 38.47 2.15
2382 3599 1.804748 GCCTTACCGGTCTTGTTCAAG 59.195 52.381 12.40 7.28 34.25 3.02
2383 3600 1.418637 AGCCTTACCGGTCTTGTTCAA 59.581 47.619 12.40 0.00 34.25 2.69
2418 3635 1.975680 ACGAACCTATCACCAACCACT 59.024 47.619 0.00 0.00 0.00 4.00
2944 4231 1.530323 GACGCCATGTTTGGTTAGGT 58.470 50.000 0.00 0.00 45.57 3.08
2965 4252 3.118223 AGCATGCTCTTACTTTAGGGACC 60.118 47.826 16.30 0.00 0.00 4.46
2998 4285 2.322355 CCTCAAATGTCGAGGCTCAT 57.678 50.000 15.95 0.00 43.50 2.90
3060 4348 6.651975 AGTTACGGTTCTATCATTAGGGAG 57.348 41.667 0.00 0.00 0.00 4.30
3074 4362 2.914059 AGAGTGTTGCAAGTTACGGTT 58.086 42.857 0.00 0.00 0.00 4.44
3095 4383 5.410439 GTGGTCGTAAATGACATAAACCAGT 59.590 40.000 4.80 0.00 40.72 4.00
3107 4395 4.090930 CGACTTGTAAGGTGGTCGTAAATG 59.909 45.833 0.00 0.00 44.05 2.32
3174 4470 3.488778 TTGGCGGTAAGGAAAGTGTTA 57.511 42.857 0.00 0.00 0.00 2.41
3178 4474 1.202891 AGCTTTGGCGGTAAGGAAAGT 60.203 47.619 0.00 0.00 44.37 2.66
3229 4525 4.801891 AGTTAGATCTTGCGTGTTCGTAA 58.198 39.130 0.00 0.00 39.10 3.18
3230 4526 4.430137 AGTTAGATCTTGCGTGTTCGTA 57.570 40.909 0.00 0.00 39.49 3.43
3231 4527 3.299340 AGTTAGATCTTGCGTGTTCGT 57.701 42.857 0.00 0.00 39.49 3.85
3232 4528 3.791887 CCTAGTTAGATCTTGCGTGTTCG 59.208 47.826 0.00 0.00 40.37 3.95
3233 4529 4.995124 TCCTAGTTAGATCTTGCGTGTTC 58.005 43.478 0.00 0.00 0.00 3.18
3234 4530 4.705507 TCTCCTAGTTAGATCTTGCGTGTT 59.294 41.667 0.00 0.00 0.00 3.32
3235 4531 4.270834 TCTCCTAGTTAGATCTTGCGTGT 58.729 43.478 0.00 0.00 0.00 4.49
3236 4532 4.902443 TCTCCTAGTTAGATCTTGCGTG 57.098 45.455 0.00 0.00 0.00 5.34
3237 4533 4.261825 GCATCTCCTAGTTAGATCTTGCGT 60.262 45.833 0.00 0.00 31.22 5.24
3238 4534 4.233789 GCATCTCCTAGTTAGATCTTGCG 58.766 47.826 0.00 0.00 31.22 4.85
3239 4535 5.207110 TGCATCTCCTAGTTAGATCTTGC 57.793 43.478 0.00 0.69 31.22 4.01
3240 4536 8.347004 TCTATGCATCTCCTAGTTAGATCTTG 57.653 38.462 0.19 0.00 31.22 3.02
3241 4537 8.948401 TTCTATGCATCTCCTAGTTAGATCTT 57.052 34.615 0.19 0.00 31.22 2.40
3242 4538 8.802267 GTTTCTATGCATCTCCTAGTTAGATCT 58.198 37.037 0.19 0.00 31.22 2.75
3243 4539 7.753132 CGTTTCTATGCATCTCCTAGTTAGATC 59.247 40.741 0.19 0.00 31.22 2.75
3244 4540 7.448777 TCGTTTCTATGCATCTCCTAGTTAGAT 59.551 37.037 0.19 0.13 33.94 1.98
3245 4541 6.771267 TCGTTTCTATGCATCTCCTAGTTAGA 59.229 38.462 0.19 0.00 0.00 2.10
3246 4542 6.971602 TCGTTTCTATGCATCTCCTAGTTAG 58.028 40.000 0.19 0.00 0.00 2.34
3247 4543 6.771267 TCTCGTTTCTATGCATCTCCTAGTTA 59.229 38.462 0.19 0.00 0.00 2.24
3248 4544 5.594725 TCTCGTTTCTATGCATCTCCTAGTT 59.405 40.000 0.19 0.00 0.00 2.24
3249 4545 5.133941 TCTCGTTTCTATGCATCTCCTAGT 58.866 41.667 0.19 0.00 0.00 2.57
3250 4546 5.335583 CCTCTCGTTTCTATGCATCTCCTAG 60.336 48.000 0.19 0.00 0.00 3.02
3251 4547 4.520874 CCTCTCGTTTCTATGCATCTCCTA 59.479 45.833 0.19 0.00 0.00 2.94
3252 4548 3.320541 CCTCTCGTTTCTATGCATCTCCT 59.679 47.826 0.19 0.00 0.00 3.69
3253 4549 3.553922 CCCTCTCGTTTCTATGCATCTCC 60.554 52.174 0.19 0.00 0.00 3.71
3254 4550 3.553922 CCCCTCTCGTTTCTATGCATCTC 60.554 52.174 0.19 0.00 0.00 2.75
3255 4551 2.366916 CCCCTCTCGTTTCTATGCATCT 59.633 50.000 0.19 0.00 0.00 2.90
3256 4552 2.365617 TCCCCTCTCGTTTCTATGCATC 59.634 50.000 0.19 0.00 0.00 3.91
3257 4553 2.366916 CTCCCCTCTCGTTTCTATGCAT 59.633 50.000 3.79 3.79 0.00 3.96
3258 4554 1.757118 CTCCCCTCTCGTTTCTATGCA 59.243 52.381 0.00 0.00 0.00 3.96
3259 4555 2.032620 TCTCCCCTCTCGTTTCTATGC 58.967 52.381 0.00 0.00 0.00 3.14
3260 4556 3.067461 CACTCTCCCCTCTCGTTTCTATG 59.933 52.174 0.00 0.00 0.00 2.23
3261 4557 3.292460 CACTCTCCCCTCTCGTTTCTAT 58.708 50.000 0.00 0.00 0.00 1.98
3262 4558 2.041350 ACACTCTCCCCTCTCGTTTCTA 59.959 50.000 0.00 0.00 0.00 2.10
3263 4559 1.203075 ACACTCTCCCCTCTCGTTTCT 60.203 52.381 0.00 0.00 0.00 2.52
3264 4560 1.067495 CACACTCTCCCCTCTCGTTTC 60.067 57.143 0.00 0.00 0.00 2.78
3265 4561 0.969894 CACACTCTCCCCTCTCGTTT 59.030 55.000 0.00 0.00 0.00 3.60
3266 4562 0.178958 ACACACTCTCCCCTCTCGTT 60.179 55.000 0.00 0.00 0.00 3.85
3267 4563 0.609681 GACACACTCTCCCCTCTCGT 60.610 60.000 0.00 0.00 0.00 4.18
3268 4564 1.316706 GGACACACTCTCCCCTCTCG 61.317 65.000 0.00 0.00 0.00 4.04
3269 4565 0.251832 TGGACACACTCTCCCCTCTC 60.252 60.000 0.00 0.00 0.00 3.20
3270 4566 0.543174 GTGGACACACTCTCCCCTCT 60.543 60.000 0.00 0.00 44.29 3.69
3271 4567 1.878656 CGTGGACACACTCTCCCCTC 61.879 65.000 3.12 0.00 45.50 4.30
3272 4568 1.908793 CGTGGACACACTCTCCCCT 60.909 63.158 3.12 0.00 45.50 4.79
3273 4569 0.896940 TACGTGGACACACTCTCCCC 60.897 60.000 0.00 0.00 45.50 4.81
3274 4570 1.134560 GATACGTGGACACACTCTCCC 59.865 57.143 0.00 0.00 45.50 4.30
3275 4571 1.134560 GGATACGTGGACACACTCTCC 59.865 57.143 0.00 0.00 45.50 3.71
3276 4572 2.093106 AGGATACGTGGACACACTCTC 58.907 52.381 0.00 0.00 45.50 3.20
3277 4573 2.217510 AGGATACGTGGACACACTCT 57.782 50.000 0.00 0.00 45.50 3.24
3278 4574 2.607187 CAAGGATACGTGGACACACTC 58.393 52.381 0.00 0.00 45.50 3.51
3279 4575 2.743636 CAAGGATACGTGGACACACT 57.256 50.000 0.00 0.00 45.50 3.55
3288 4584 3.428589 GCTTTCGGTCTACAAGGATACGT 60.429 47.826 0.00 0.00 46.39 3.57
3289 4585 3.114065 GCTTTCGGTCTACAAGGATACG 58.886 50.000 0.00 0.00 46.39 3.06
3290 4586 3.114065 CGCTTTCGGTCTACAAGGATAC 58.886 50.000 0.00 0.00 0.00 2.24
3291 4587 3.431922 CGCTTTCGGTCTACAAGGATA 57.568 47.619 0.00 0.00 0.00 2.59
3292 4588 2.295253 CGCTTTCGGTCTACAAGGAT 57.705 50.000 0.00 0.00 0.00 3.24
3293 4589 3.806591 CGCTTTCGGTCTACAAGGA 57.193 52.632 0.00 0.00 0.00 3.36
3304 4600 0.788391 ACTAAACGCTTCCGCTTTCG 59.212 50.000 0.00 0.00 38.22 3.46
3305 4601 3.729684 GTTACTAAACGCTTCCGCTTTC 58.270 45.455 0.00 0.00 38.22 2.62
3306 4602 3.800929 GTTACTAAACGCTTCCGCTTT 57.199 42.857 0.00 0.00 38.22 3.51
3317 4613 6.504799 CGACTACATTAACCGCGTTACTAAAC 60.505 42.308 4.92 0.00 0.00 2.01
3318 4614 5.511377 CGACTACATTAACCGCGTTACTAAA 59.489 40.000 4.92 0.00 0.00 1.85
3319 4615 5.027737 CGACTACATTAACCGCGTTACTAA 58.972 41.667 4.92 0.00 0.00 2.24
3320 4616 4.331443 TCGACTACATTAACCGCGTTACTA 59.669 41.667 4.92 0.00 0.00 1.82
3321 4617 3.126858 TCGACTACATTAACCGCGTTACT 59.873 43.478 4.92 0.00 0.00 2.24
3322 4618 3.425404 TCGACTACATTAACCGCGTTAC 58.575 45.455 4.92 0.00 0.00 2.50
3323 4619 3.755965 TCGACTACATTAACCGCGTTA 57.244 42.857 4.92 0.87 0.00 3.18
3324 4620 2.634982 TCGACTACATTAACCGCGTT 57.365 45.000 4.92 1.95 0.00 4.84
3325 4621 2.253603 GTTCGACTACATTAACCGCGT 58.746 47.619 4.92 0.00 0.00 6.01
3326 4622 1.251002 CGTTCGACTACATTAACCGCG 59.749 52.381 0.00 0.00 0.00 6.46
3327 4623 2.253603 ACGTTCGACTACATTAACCGC 58.746 47.619 0.00 0.00 0.00 5.68
3328 4624 3.751621 AGACGTTCGACTACATTAACCG 58.248 45.455 0.00 0.00 0.00 4.44
3329 4625 5.060200 GTGAAGACGTTCGACTACATTAACC 59.940 44.000 0.00 0.00 35.17 2.85
3330 4626 5.219731 CGTGAAGACGTTCGACTACATTAAC 60.220 44.000 0.00 0.00 40.91 2.01
3331 4627 4.847757 CGTGAAGACGTTCGACTACATTAA 59.152 41.667 0.00 0.00 40.91 1.40
3332 4628 4.152223 TCGTGAAGACGTTCGACTACATTA 59.848 41.667 0.00 0.00 46.20 1.90
3333 4629 3.058708 TCGTGAAGACGTTCGACTACATT 60.059 43.478 0.00 0.00 46.20 2.71
3334 4630 2.481568 TCGTGAAGACGTTCGACTACAT 59.518 45.455 0.00 0.00 46.20 2.29
3335 4631 1.866601 TCGTGAAGACGTTCGACTACA 59.133 47.619 0.00 0.00 46.20 2.74
3336 4632 2.584166 TCGTGAAGACGTTCGACTAC 57.416 50.000 0.00 0.00 46.20 2.73
3337 4633 2.094894 GGATCGTGAAGACGTTCGACTA 59.905 50.000 0.00 0.00 46.20 2.59
3338 4634 1.135746 GGATCGTGAAGACGTTCGACT 60.136 52.381 0.00 0.00 46.20 4.18
3339 4635 1.257539 GGATCGTGAAGACGTTCGAC 58.742 55.000 0.00 0.00 46.20 4.20
3340 4636 0.876399 TGGATCGTGAAGACGTTCGA 59.124 50.000 0.00 0.00 46.20 3.71
3341 4637 1.385743 GTTGGATCGTGAAGACGTTCG 59.614 52.381 0.00 0.00 46.20 3.95
3342 4638 1.725164 GGTTGGATCGTGAAGACGTTC 59.275 52.381 0.00 0.00 46.20 3.95
3343 4639 1.792006 GGTTGGATCGTGAAGACGTT 58.208 50.000 0.00 0.00 46.20 3.99
3344 4640 0.388134 CGGTTGGATCGTGAAGACGT 60.388 55.000 0.00 0.00 46.20 4.34
3346 4642 2.194271 GATCGGTTGGATCGTGAAGAC 58.806 52.381 0.00 0.00 42.02 3.01
3347 4643 2.579207 GATCGGTTGGATCGTGAAGA 57.421 50.000 0.00 0.00 42.02 2.87
3355 4651 1.138266 CGGTACTTGGATCGGTTGGAT 59.862 52.381 0.00 0.00 38.35 3.41
3356 4652 0.533491 CGGTACTTGGATCGGTTGGA 59.467 55.000 0.00 0.00 0.00 3.53
3357 4653 0.533491 TCGGTACTTGGATCGGTTGG 59.467 55.000 0.00 0.00 0.00 3.77
3358 4654 1.997606 GTTCGGTACTTGGATCGGTTG 59.002 52.381 0.00 0.00 0.00 3.77
3359 4655 1.403249 CGTTCGGTACTTGGATCGGTT 60.403 52.381 0.00 0.00 0.00 4.44
3360 4656 0.171903 CGTTCGGTACTTGGATCGGT 59.828 55.000 0.00 0.00 0.00 4.69
3361 4657 0.171903 ACGTTCGGTACTTGGATCGG 59.828 55.000 13.18 0.00 31.53 4.18
3362 4658 2.444351 GTACGTTCGGTACTTGGATCG 58.556 52.381 0.00 2.46 46.50 3.69
3374 4670 2.505557 GGAGGTGCCGTACGTTCG 60.506 66.667 15.21 7.68 0.00 3.95
3383 4679 1.090052 GTGCTGAATACGGAGGTGCC 61.090 60.000 0.00 0.00 0.00 5.01
3384 4680 0.391130 TGTGCTGAATACGGAGGTGC 60.391 55.000 0.00 0.00 0.00 5.01
3385 4681 1.359848 GTGTGCTGAATACGGAGGTG 58.640 55.000 0.00 0.00 0.00 4.00
3386 4682 0.108804 CGTGTGCTGAATACGGAGGT 60.109 55.000 0.00 0.00 39.50 3.85
3387 4683 0.108804 ACGTGTGCTGAATACGGAGG 60.109 55.000 9.79 0.00 46.63 4.30
3388 4684 1.654105 GAACGTGTGCTGAATACGGAG 59.346 52.381 9.79 0.00 46.63 4.63
3389 4685 1.000052 TGAACGTGTGCTGAATACGGA 60.000 47.619 9.79 0.00 46.63 4.69
3390 4686 1.390123 CTGAACGTGTGCTGAATACGG 59.610 52.381 9.79 0.00 46.63 4.02
3392 4688 1.798223 TGCTGAACGTGTGCTGAATAC 59.202 47.619 8.69 0.00 0.00 1.89
3393 4689 1.798223 GTGCTGAACGTGTGCTGAATA 59.202 47.619 8.69 0.00 0.00 1.75
3394 4690 0.588252 GTGCTGAACGTGTGCTGAAT 59.412 50.000 8.69 0.00 0.00 2.57
3395 4691 2.013807 GTGCTGAACGTGTGCTGAA 58.986 52.632 8.69 0.00 0.00 3.02
3396 4692 3.717899 GTGCTGAACGTGTGCTGA 58.282 55.556 8.69 0.00 0.00 4.26
3413 4709 2.485903 AGAGCTCTAGGTACGTCATCG 58.514 52.381 16.50 0.00 43.34 3.84
3414 4710 3.878103 TCAAGAGCTCTAGGTACGTCATC 59.122 47.826 18.59 0.00 0.00 2.92
3415 4711 3.887352 TCAAGAGCTCTAGGTACGTCAT 58.113 45.455 18.59 0.00 0.00 3.06
3416 4712 3.345508 TCAAGAGCTCTAGGTACGTCA 57.654 47.619 18.59 0.00 0.00 4.35
3417 4713 3.251487 GGATCAAGAGCTCTAGGTACGTC 59.749 52.174 18.59 8.40 0.00 4.34
3418 4714 3.215975 GGATCAAGAGCTCTAGGTACGT 58.784 50.000 18.59 0.00 0.00 3.57
3419 4715 3.215151 TGGATCAAGAGCTCTAGGTACG 58.785 50.000 18.59 1.88 0.00 3.67
3420 4716 4.211920 ACTGGATCAAGAGCTCTAGGTAC 58.788 47.826 18.59 7.04 0.00 3.34
3421 4717 4.528076 ACTGGATCAAGAGCTCTAGGTA 57.472 45.455 18.59 3.07 0.00 3.08
3422 4718 3.396685 ACTGGATCAAGAGCTCTAGGT 57.603 47.619 18.59 5.46 0.00 3.08
3423 4719 3.703556 TCAACTGGATCAAGAGCTCTAGG 59.296 47.826 18.59 12.79 0.00 3.02
3424 4720 4.202141 CCTCAACTGGATCAAGAGCTCTAG 60.202 50.000 18.59 12.04 0.00 2.43
3425 4721 3.703556 CCTCAACTGGATCAAGAGCTCTA 59.296 47.826 18.59 1.85 0.00 2.43
3426 4722 2.500910 CCTCAACTGGATCAAGAGCTCT 59.499 50.000 11.45 11.45 0.00 4.09
3427 4723 2.499289 TCCTCAACTGGATCAAGAGCTC 59.501 50.000 5.27 5.27 0.00 4.09
3428 4724 2.235898 GTCCTCAACTGGATCAAGAGCT 59.764 50.000 3.42 0.00 38.52 4.09
3429 4725 2.626840 GTCCTCAACTGGATCAAGAGC 58.373 52.381 3.42 0.00 38.52 4.09
3430 4726 2.493675 TCGTCCTCAACTGGATCAAGAG 59.506 50.000 3.42 0.00 38.52 2.85
3431 4727 2.493675 CTCGTCCTCAACTGGATCAAGA 59.506 50.000 3.42 0.00 38.52 3.02
3432 4728 2.417924 CCTCGTCCTCAACTGGATCAAG 60.418 54.545 0.00 0.00 38.52 3.02
3433 4729 1.550524 CCTCGTCCTCAACTGGATCAA 59.449 52.381 0.00 0.00 38.52 2.57
3434 4730 1.186200 CCTCGTCCTCAACTGGATCA 58.814 55.000 0.00 0.00 38.52 2.92
3435 4731 0.461961 CCCTCGTCCTCAACTGGATC 59.538 60.000 0.00 0.00 38.52 3.36
3436 4732 0.041238 TCCCTCGTCCTCAACTGGAT 59.959 55.000 0.00 0.00 38.52 3.41
3437 4733 0.612174 CTCCCTCGTCCTCAACTGGA 60.612 60.000 0.00 0.00 0.00 3.86
3438 4734 0.612174 TCTCCCTCGTCCTCAACTGG 60.612 60.000 0.00 0.00 0.00 4.00
3439 4735 0.814457 CTCTCCCTCGTCCTCAACTG 59.186 60.000 0.00 0.00 0.00 3.16
3440 4736 0.406361 ACTCTCCCTCGTCCTCAACT 59.594 55.000 0.00 0.00 0.00 3.16
3441 4737 1.202817 GAACTCTCCCTCGTCCTCAAC 59.797 57.143 0.00 0.00 0.00 3.18
3442 4738 1.546961 GAACTCTCCCTCGTCCTCAA 58.453 55.000 0.00 0.00 0.00 3.02
3443 4739 0.323542 GGAACTCTCCCTCGTCCTCA 60.324 60.000 0.00 0.00 35.42 3.86
3444 4740 1.378124 CGGAACTCTCCCTCGTCCTC 61.378 65.000 0.00 0.00 38.71 3.71
3445 4741 1.378778 CGGAACTCTCCCTCGTCCT 60.379 63.158 0.00 0.00 38.71 3.85
3446 4742 1.655885 GACGGAACTCTCCCTCGTCC 61.656 65.000 0.00 0.00 42.72 4.79
3447 4743 0.959372 TGACGGAACTCTCCCTCGTC 60.959 60.000 7.15 7.15 46.86 4.20
3448 4744 0.961358 CTGACGGAACTCTCCCTCGT 60.961 60.000 0.00 0.00 38.71 4.18
3449 4745 1.803943 CTGACGGAACTCTCCCTCG 59.196 63.158 0.00 0.00 38.71 4.63
3450 4746 1.251527 TGCTGACGGAACTCTCCCTC 61.252 60.000 0.00 0.00 38.71 4.30
3451 4747 0.616111 ATGCTGACGGAACTCTCCCT 60.616 55.000 0.00 0.00 38.71 4.20
3452 4748 0.460987 CATGCTGACGGAACTCTCCC 60.461 60.000 0.00 0.00 38.71 4.30
3453 4749 0.532573 TCATGCTGACGGAACTCTCC 59.467 55.000 0.00 0.00 38.52 3.71
3454 4750 1.634702 GTCATGCTGACGGAACTCTC 58.365 55.000 1.40 0.00 37.67 3.20
3455 4751 3.822607 GTCATGCTGACGGAACTCT 57.177 52.632 1.40 0.00 37.67 3.24
3463 4759 3.490759 CCACGCCGTCATGCTGAC 61.491 66.667 0.00 6.31 43.65 3.51
3468 4764 3.928769 CATCGCCACGCCGTCATG 61.929 66.667 0.00 0.00 0.00 3.07
3474 4770 4.101790 CAACACCATCGCCACGCC 62.102 66.667 0.00 0.00 0.00 5.68
3475 4771 2.398554 ATCAACACCATCGCCACGC 61.399 57.895 0.00 0.00 0.00 5.34
3476 4772 1.018752 TCATCAACACCATCGCCACG 61.019 55.000 0.00 0.00 0.00 4.94
3477 4773 1.131126 CTTCATCAACACCATCGCCAC 59.869 52.381 0.00 0.00 0.00 5.01
3478 4774 1.271325 ACTTCATCAACACCATCGCCA 60.271 47.619 0.00 0.00 0.00 5.69
3479 4775 1.453155 ACTTCATCAACACCATCGCC 58.547 50.000 0.00 0.00 0.00 5.54
3480 4776 3.181510 GGTAACTTCATCAACACCATCGC 60.182 47.826 0.00 0.00 0.00 4.58
3481 4777 3.062099 CGGTAACTTCATCAACACCATCG 59.938 47.826 0.00 0.00 0.00 3.84
3482 4778 3.374058 CCGGTAACTTCATCAACACCATC 59.626 47.826 0.00 0.00 0.00 3.51
3483 4779 3.343617 CCGGTAACTTCATCAACACCAT 58.656 45.455 0.00 0.00 0.00 3.55
3484 4780 2.773487 CCGGTAACTTCATCAACACCA 58.227 47.619 0.00 0.00 0.00 4.17
3485 4781 1.467342 GCCGGTAACTTCATCAACACC 59.533 52.381 1.90 0.00 0.00 4.16
3486 4782 1.127951 CGCCGGTAACTTCATCAACAC 59.872 52.381 1.90 0.00 0.00 3.32
3487 4783 1.434555 CGCCGGTAACTTCATCAACA 58.565 50.000 1.90 0.00 0.00 3.33
3488 4784 0.096454 GCGCCGGTAACTTCATCAAC 59.904 55.000 1.90 0.00 0.00 3.18
3489 4785 0.320858 TGCGCCGGTAACTTCATCAA 60.321 50.000 4.18 0.00 0.00 2.57
3490 4786 0.739462 CTGCGCCGGTAACTTCATCA 60.739 55.000 4.18 0.00 0.00 3.07
3491 4787 1.429148 CCTGCGCCGGTAACTTCATC 61.429 60.000 10.08 0.00 0.00 2.92
3492 4788 1.449601 CCTGCGCCGGTAACTTCAT 60.450 57.895 10.08 0.00 0.00 2.57
3493 4789 2.047655 CCTGCGCCGGTAACTTCA 60.048 61.111 10.08 0.00 0.00 3.02
3494 4790 2.818274 CCCTGCGCCGGTAACTTC 60.818 66.667 17.16 0.00 0.00 3.01
3498 4794 4.770874 GAAGCCCTGCGCCGGTAA 62.771 66.667 17.16 0.00 38.78 2.85
3512 4808 1.546834 GTCGTAGTGCTTAGGCGAAG 58.453 55.000 2.68 2.68 42.25 3.79
3513 4809 0.179181 CGTCGTAGTGCTTAGGCGAA 60.179 55.000 0.00 0.00 42.25 4.70
3514 4810 1.020861 TCGTCGTAGTGCTTAGGCGA 61.021 55.000 0.00 0.70 42.25 5.54
3515 4811 0.029035 ATCGTCGTAGTGCTTAGGCG 59.971 55.000 0.00 0.00 42.25 5.52
3516 4812 3.940723 ATCGTCGTAGTGCTTAGGC 57.059 52.632 0.00 0.00 39.26 3.93


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

AutoCloner maintained by Alex Coulton.