Multiple sequence alignment - TraesCS6A01G184800

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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 TraesCS6A01G184800 chr6A 100.000 2623 0 0 859 3481 215596831 215599453 0.000000e+00 4844
1 TraesCS6A01G184800 chr6A 100.000 621 0 0 1 621 215595973 215596593 0.000000e+00 1147
2 TraesCS6A01G184800 chr3B 98.058 2369 32 2 859 3213 101917011 101914643 0.000000e+00 4108
3 TraesCS6A01G184800 chr3B 97.256 2369 51 2 859 3213 201532859 201530491 0.000000e+00 4002
4 TraesCS6A01G184800 chr3B 98.551 621 9 0 1 621 101917680 101917060 0.000000e+00 1098
5 TraesCS6A01G184800 chr5D 97.678 2369 40 3 859 3213 503224050 503221683 0.000000e+00 4056
6 TraesCS6A01G184800 chr5D 98.390 621 10 0 1 621 503224719 503224099 0.000000e+00 1092
7 TraesCS6A01G184800 chr5D 98.229 621 11 0 1 621 503271826 503272446 0.000000e+00 1086
8 TraesCS6A01G184800 chr5D 96.283 269 10 0 3213 3481 190437429 190437697 3.190000e-120 442
9 TraesCS6A01G184800 chr5D 96.283 269 10 0 3213 3481 480959866 480960134 3.190000e-120 442
10 TraesCS6A01G184800 chr5D 96.283 269 10 0 3213 3481 504917371 504917639 3.190000e-120 442
11 TraesCS6A01G184800 chrUn 97.636 2369 40 3 859 3213 216512774 216515140 0.000000e+00 4050
12 TraesCS6A01G184800 chrUn 97.636 2369 40 3 859 3213 286270609 286268243 0.000000e+00 4050
13 TraesCS6A01G184800 chrUn 98.276 348 6 0 2866 3213 441244639 441244292 8.260000e-171 610
14 TraesCS6A01G184800 chr3A 97.636 2369 41 3 859 3213 164858231 164860598 0.000000e+00 4050
15 TraesCS6A01G184800 chr3A 97.594 2369 43 2 859 3213 66011790 66014158 0.000000e+00 4047
16 TraesCS6A01G184800 chr3A 97.790 2081 38 6 859 2932 495095330 495093251 0.000000e+00 3581
17 TraesCS6A01G184800 chr3A 98.390 621 10 0 1 621 66011121 66011741 0.000000e+00 1092
18 TraesCS6A01G184800 chr3A 98.390 621 10 0 1 621 164854318 164854938 0.000000e+00 1092
19 TraesCS6A01G184800 chr3D 97.594 2369 42 3 859 3213 589271125 589273492 0.000000e+00 4045
20 TraesCS6A01G184800 chr3D 98.390 621 10 0 1 621 589270456 589271076 0.000000e+00 1092
21 TraesCS6A01G184800 chr3D 98.229 621 11 0 1 621 24164614 24165234 0.000000e+00 1086
22 TraesCS6A01G184800 chr3D 97.398 269 7 0 3213 3481 269326074 269325806 3.170000e-125 459
23 TraesCS6A01G184800 chr3D 96.283 269 10 0 3213 3481 355047214 355047482 3.190000e-120 442
24 TraesCS6A01G184800 chr6D 97.383 2369 39 3 859 3213 168263492 168261133 0.000000e+00 4010
25 TraesCS6A01G184800 chr6D 96.654 269 9 0 3213 3481 13232422 13232690 6.850000e-122 448
26 TraesCS6A01G184800 chr6D 96.283 269 10 0 3213 3481 111505931 111505663 3.190000e-120 442
27 TraesCS6A01G184800 chr1D 97.214 2369 45 5 865 3213 254392282 254394649 0.000000e+00 3989
28 TraesCS6A01G184800 chr1D 96.283 269 10 0 3213 3481 350863174 350862906 3.190000e-120 442
29 TraesCS6A01G184800 chr4A 95.846 2359 94 3 859 3213 310744403 310742045 0.000000e+00 3810
30 TraesCS6A01G184800 chr2B 97.838 2081 36 7 859 2932 449212118 449210040 0.000000e+00 3585
31 TraesCS6A01G184800 chr2B 98.229 621 11 0 1 621 449212787 449212167 0.000000e+00 1086
32 TraesCS6A01G184800 chr2B 98.229 621 11 0 1 621 474914943 474914323 0.000000e+00 1086
33 TraesCS6A01G184800 chr1A 97.937 1309 14 1 1918 3213 554517023 554515715 0.000000e+00 2255
34 TraesCS6A01G184800 chr7D 98.276 348 6 0 2866 3213 231576017 231575670 8.260000e-171 610
35 TraesCS6A01G184800 chr7D 96.654 269 9 0 3213 3481 123529885 123529617 6.850000e-122 448


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 TraesCS6A01G184800 chr6A 215595973 215599453 3480 False 2995.5 4844 100.0000 1 3481 2 chr6A.!!$F1 3480
1 TraesCS6A01G184800 chr3B 201530491 201532859 2368 True 4002.0 4002 97.2560 859 3213 1 chr3B.!!$R1 2354
2 TraesCS6A01G184800 chr3B 101914643 101917680 3037 True 2603.0 4108 98.3045 1 3213 2 chr3B.!!$R2 3212
3 TraesCS6A01G184800 chr5D 503221683 503224719 3036 True 2574.0 4056 98.0340 1 3213 2 chr5D.!!$R1 3212
4 TraesCS6A01G184800 chr5D 503271826 503272446 620 False 1086.0 1086 98.2290 1 621 1 chr5D.!!$F3 620
5 TraesCS6A01G184800 chrUn 216512774 216515140 2366 False 4050.0 4050 97.6360 859 3213 1 chrUn.!!$F1 2354
6 TraesCS6A01G184800 chrUn 286268243 286270609 2366 True 4050.0 4050 97.6360 859 3213 1 chrUn.!!$R1 2354
7 TraesCS6A01G184800 chr3A 495093251 495095330 2079 True 3581.0 3581 97.7900 859 2932 1 chr3A.!!$R1 2073
8 TraesCS6A01G184800 chr3A 164854318 164860598 6280 False 2571.0 4050 98.0130 1 3213 2 chr3A.!!$F2 3212
9 TraesCS6A01G184800 chr3A 66011121 66014158 3037 False 2569.5 4047 97.9920 1 3213 2 chr3A.!!$F1 3212
10 TraesCS6A01G184800 chr3D 589270456 589273492 3036 False 2568.5 4045 97.9920 1 3213 2 chr3D.!!$F3 3212
11 TraesCS6A01G184800 chr3D 24164614 24165234 620 False 1086.0 1086 98.2290 1 621 1 chr3D.!!$F1 620
12 TraesCS6A01G184800 chr6D 168261133 168263492 2359 True 4010.0 4010 97.3830 859 3213 1 chr6D.!!$R2 2354
13 TraesCS6A01G184800 chr1D 254392282 254394649 2367 False 3989.0 3989 97.2140 865 3213 1 chr1D.!!$F1 2348
14 TraesCS6A01G184800 chr4A 310742045 310744403 2358 True 3810.0 3810 95.8460 859 3213 1 chr4A.!!$R1 2354
15 TraesCS6A01G184800 chr2B 449210040 449212787 2747 True 2335.5 3585 98.0335 1 2932 2 chr2B.!!$R2 2931
16 TraesCS6A01G184800 chr2B 474914323 474914943 620 True 1086.0 1086 98.2290 1 621 1 chr2B.!!$R1 620
17 TraesCS6A01G184800 chr1A 554515715 554517023 1308 True 2255.0 2255 97.9370 1918 3213 1 chr1A.!!$R1 1295

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
975 976 2.777459 TGGGTTTAAGCTTTCCCCAA 57.223 45.0 21.64 10.21 42.3 4.12 F
1130 1131 2.500098 CCCACTCCGACCAAGATAGAAA 59.500 50.0 0.00 0.00 0.0 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1783 5037 0.384309 ATCGAGAATTCGCGTGGCTA 59.616 50.0 27.00 11.28 46.28 3.93 R
3058 6329 1.487482 TTTTGAGTCTCGCGTGTCTG 58.513 50.0 12.39 0.00 0.00 3.51 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
161 162 7.675619 AGTTTCATTTTCCCAGAATGTATCCTT 59.324 33.333 0.00 0.00 36.23 3.36
343 344 5.286558 TCCAAACGAACAATTTCAACGAAAC 59.713 36.000 0.00 0.00 34.23 2.78
488 489 6.351796 GGGGAATGTTTTTATGTGGTGCTAAT 60.352 38.462 0.00 0.00 0.00 1.73
524 525 7.885399 ACTATCTTTGTAGCTCCAGAATGTTTT 59.115 33.333 0.00 0.00 0.00 2.43
919 920 5.514500 ACACAAATGTATAACTCCCCAGT 57.486 39.130 0.00 0.00 37.26 4.00
975 976 2.777459 TGGGTTTAAGCTTTCCCCAA 57.223 45.000 21.64 10.21 42.30 4.12
1001 1002 5.198965 CCTTTTCATCAATGGACTCCTGAT 58.801 41.667 0.00 0.00 32.27 2.90
1016 1017 5.867903 CTCCTGATGTCTATGAAGGAGTT 57.132 43.478 8.56 0.00 45.98 3.01
1096 1097 5.634896 CAAAACTCCATAGACATGCAGAAC 58.365 41.667 0.00 0.00 0.00 3.01
1130 1131 2.500098 CCCACTCCGACCAAGATAGAAA 59.500 50.000 0.00 0.00 0.00 2.52
1278 4523 6.153851 TCCTACAAAGAATCGGACTAATGACA 59.846 38.462 0.00 0.00 0.00 3.58
1338 4583 3.261897 GTGGGTTCTCATCCTTCAGAGAA 59.738 47.826 0.00 0.00 45.71 2.87
1621 4869 8.610369 AGGAAGGTAATCAAAAAGAGAGAAGAT 58.390 33.333 0.00 0.00 0.00 2.40
1762 5010 6.745907 GTCGTTGCTTTTCTTTCTGTTACTTT 59.254 34.615 0.00 0.00 0.00 2.66
1911 5166 7.829725 TGCTATTACTCAAACAAGCATGAAAT 58.170 30.769 0.00 0.00 35.54 2.17
2113 5368 9.322773 CATTCGAGATTATGCAGGATTATACAT 57.677 33.333 0.00 0.00 0.00 2.29
2192 5447 2.979678 TCCTCCACTAGCAGGTTTCTTT 59.020 45.455 2.09 0.00 0.00 2.52
2505 5760 7.070571 AGCTGCTAGGTCTATTTCTTAGTTCAT 59.929 37.037 0.00 0.00 0.00 2.57
2834 6092 5.195940 CCTCTTTGGGCTTCTATTGAATCA 58.804 41.667 0.00 0.00 0.00 2.57
2946 6217 3.092301 CTCAGGCCTATATGACCGATCA 58.908 50.000 3.98 0.00 39.83 2.92
2949 6220 5.269189 TCAGGCCTATATGACCGATCAATA 58.731 41.667 3.98 0.00 38.69 1.90
3058 6329 0.896923 TGCCTTGATGGTGAAATGGC 59.103 50.000 0.00 0.00 38.35 4.40
3214 6485 5.701224 CCTCTATCTTCTGAGGTCCTTACT 58.299 45.833 0.00 0.00 43.49 2.24
3215 6486 6.843752 CCTCTATCTTCTGAGGTCCTTACTA 58.156 44.000 0.00 0.00 43.49 1.82
3216 6487 6.940298 CCTCTATCTTCTGAGGTCCTTACTAG 59.060 46.154 0.00 0.00 43.49 2.57
3217 6488 6.843752 TCTATCTTCTGAGGTCCTTACTAGG 58.156 44.000 0.00 0.00 43.46 3.02
3218 6489 4.949966 TCTTCTGAGGTCCTTACTAGGT 57.050 45.455 0.00 0.00 42.60 3.08
3219 6490 4.857679 TCTTCTGAGGTCCTTACTAGGTC 58.142 47.826 0.00 0.00 42.60 3.85
3220 6491 3.666345 TCTGAGGTCCTTACTAGGTCC 57.334 52.381 0.00 0.00 46.59 4.46
3224 6495 2.134789 GGTCCTTACTAGGTCCGTGA 57.865 55.000 0.00 0.00 39.47 4.35
3225 6496 2.664015 GGTCCTTACTAGGTCCGTGAT 58.336 52.381 0.00 0.00 39.47 3.06
3226 6497 2.622470 GGTCCTTACTAGGTCCGTGATC 59.378 54.545 0.00 0.00 39.47 2.92
3227 6498 3.553904 GTCCTTACTAGGTCCGTGATCT 58.446 50.000 0.00 0.00 42.60 2.75
3228 6499 3.315749 GTCCTTACTAGGTCCGTGATCTG 59.684 52.174 0.00 0.00 42.60 2.90
3229 6500 3.201487 TCCTTACTAGGTCCGTGATCTGA 59.799 47.826 0.00 0.00 42.60 3.27
3230 6501 3.566322 CCTTACTAGGTCCGTGATCTGAG 59.434 52.174 0.00 0.00 36.74 3.35
3231 6502 2.060050 ACTAGGTCCGTGATCTGAGG 57.940 55.000 0.00 0.00 0.00 3.86
3232 6503 1.564818 ACTAGGTCCGTGATCTGAGGA 59.435 52.381 0.00 0.00 0.00 3.71
3233 6504 2.175931 ACTAGGTCCGTGATCTGAGGAT 59.824 50.000 7.45 0.00 36.34 3.24
3234 6505 2.166907 AGGTCCGTGATCTGAGGATT 57.833 50.000 7.45 0.00 36.34 3.01
3235 6506 3.314307 AGGTCCGTGATCTGAGGATTA 57.686 47.619 7.45 0.00 36.34 1.75
3236 6507 3.850752 AGGTCCGTGATCTGAGGATTAT 58.149 45.455 7.45 0.00 36.34 1.28
3237 6508 3.829601 AGGTCCGTGATCTGAGGATTATC 59.170 47.826 7.45 0.00 36.34 1.75
3238 6509 3.056465 GGTCCGTGATCTGAGGATTATCC 60.056 52.174 2.40 2.40 36.34 2.59
3249 6520 3.870538 AGGATTATCCTCATTGCTGCA 57.129 42.857 8.15 0.00 45.66 4.41
3250 6521 3.484407 AGGATTATCCTCATTGCTGCAC 58.516 45.455 8.15 0.00 45.66 4.57
3251 6522 3.117776 AGGATTATCCTCATTGCTGCACA 60.118 43.478 8.15 0.00 45.66 4.57
3252 6523 3.252701 GGATTATCCTCATTGCTGCACAG 59.747 47.826 0.00 0.00 32.53 3.66
3253 6524 3.632643 TTATCCTCATTGCTGCACAGA 57.367 42.857 0.00 2.12 0.00 3.41
3254 6525 2.502142 ATCCTCATTGCTGCACAGAA 57.498 45.000 0.00 0.00 0.00 3.02
3255 6526 1.817357 TCCTCATTGCTGCACAGAAG 58.183 50.000 0.00 0.00 0.00 2.85
3256 6527 1.348696 TCCTCATTGCTGCACAGAAGA 59.651 47.619 0.00 0.00 0.00 2.87
3257 6528 2.156917 CCTCATTGCTGCACAGAAGAA 58.843 47.619 0.00 0.00 0.00 2.52
3258 6529 2.753452 CCTCATTGCTGCACAGAAGAAT 59.247 45.455 0.00 0.00 0.00 2.40
3259 6530 3.192844 CCTCATTGCTGCACAGAAGAATT 59.807 43.478 0.00 0.00 0.00 2.17
3260 6531 4.397103 CCTCATTGCTGCACAGAAGAATTA 59.603 41.667 0.00 0.00 0.00 1.40
3261 6532 5.067413 CCTCATTGCTGCACAGAAGAATTAT 59.933 40.000 0.00 0.00 0.00 1.28
3262 6533 5.886992 TCATTGCTGCACAGAAGAATTATG 58.113 37.500 0.00 0.00 44.26 1.90
3273 6544 6.688637 CAGAAGAATTATGTCCTTGATGCA 57.311 37.500 0.00 0.00 31.50 3.96
3274 6545 6.493116 CAGAAGAATTATGTCCTTGATGCAC 58.507 40.000 0.00 0.00 31.50 4.57
3275 6546 5.591877 AGAAGAATTATGTCCTTGATGCACC 59.408 40.000 0.00 0.00 0.00 5.01
3276 6547 3.879295 AGAATTATGTCCTTGATGCACCG 59.121 43.478 0.00 0.00 0.00 4.94
3277 6548 1.378531 TTATGTCCTTGATGCACCGC 58.621 50.000 0.00 0.00 0.00 5.68
3278 6549 0.541392 TATGTCCTTGATGCACCGCT 59.459 50.000 0.00 0.00 0.00 5.52
3279 6550 0.541392 ATGTCCTTGATGCACCGCTA 59.459 50.000 0.00 0.00 0.00 4.26
3280 6551 0.108186 TGTCCTTGATGCACCGCTAG 60.108 55.000 0.00 0.00 0.00 3.42
3281 6552 0.175760 GTCCTTGATGCACCGCTAGA 59.824 55.000 0.00 0.00 0.00 2.43
3282 6553 1.123077 TCCTTGATGCACCGCTAGAT 58.877 50.000 0.00 0.00 0.00 1.98
3283 6554 1.202568 TCCTTGATGCACCGCTAGATG 60.203 52.381 0.00 0.00 0.00 2.90
3284 6555 1.202568 CCTTGATGCACCGCTAGATGA 60.203 52.381 0.00 0.00 0.00 2.92
3285 6556 2.549563 CCTTGATGCACCGCTAGATGAT 60.550 50.000 0.00 0.00 0.00 2.45
3286 6557 2.159327 TGATGCACCGCTAGATGATG 57.841 50.000 0.00 0.00 0.00 3.07
3287 6558 1.688197 TGATGCACCGCTAGATGATGA 59.312 47.619 0.00 0.00 0.00 2.92
3288 6559 2.102925 TGATGCACCGCTAGATGATGAA 59.897 45.455 0.00 0.00 0.00 2.57
3289 6560 1.939974 TGCACCGCTAGATGATGAAC 58.060 50.000 0.00 0.00 0.00 3.18
3290 6561 1.221414 GCACCGCTAGATGATGAACC 58.779 55.000 0.00 0.00 0.00 3.62
3291 6562 1.202580 GCACCGCTAGATGATGAACCT 60.203 52.381 0.00 0.00 0.00 3.50
3292 6563 2.035961 GCACCGCTAGATGATGAACCTA 59.964 50.000 0.00 0.00 0.00 3.08
3293 6564 3.306364 GCACCGCTAGATGATGAACCTAT 60.306 47.826 0.00 0.00 0.00 2.57
3294 6565 4.800914 GCACCGCTAGATGATGAACCTATT 60.801 45.833 0.00 0.00 0.00 1.73
3295 6566 4.687948 CACCGCTAGATGATGAACCTATTG 59.312 45.833 0.00 0.00 0.00 1.90
3296 6567 3.681897 CCGCTAGATGATGAACCTATTGC 59.318 47.826 0.00 0.00 0.00 3.56
3297 6568 4.309933 CGCTAGATGATGAACCTATTGCA 58.690 43.478 0.00 0.00 0.00 4.08
3298 6569 4.388165 CGCTAGATGATGAACCTATTGCAG 59.612 45.833 0.00 0.00 0.00 4.41
3312 6583 3.810812 GCAGGAGCAGATGCAGAC 58.189 61.111 7.68 0.00 45.16 3.51
3313 6584 2.172372 GCAGGAGCAGATGCAGACG 61.172 63.158 7.68 0.00 45.16 4.18
3314 6585 1.217511 CAGGAGCAGATGCAGACGT 59.782 57.895 7.68 0.00 45.16 4.34
3315 6586 0.390866 CAGGAGCAGATGCAGACGTT 60.391 55.000 7.68 0.00 45.16 3.99
3316 6587 1.134995 CAGGAGCAGATGCAGACGTTA 60.135 52.381 7.68 0.00 45.16 3.18
3317 6588 1.759445 AGGAGCAGATGCAGACGTTAT 59.241 47.619 7.68 0.00 45.16 1.89
3318 6589 1.863454 GGAGCAGATGCAGACGTTATG 59.137 52.381 7.68 0.00 45.16 1.90
3319 6590 2.481969 GGAGCAGATGCAGACGTTATGA 60.482 50.000 7.68 0.00 45.16 2.15
3320 6591 3.190079 GAGCAGATGCAGACGTTATGAA 58.810 45.455 7.68 0.00 45.16 2.57
3321 6592 2.932614 AGCAGATGCAGACGTTATGAAC 59.067 45.455 7.68 0.00 45.16 3.18
3333 6604 3.282831 GTTATGAACGTTTGGCAAGCT 57.717 42.857 12.31 0.00 0.00 3.74
3334 6605 3.234386 GTTATGAACGTTTGGCAAGCTC 58.766 45.455 12.31 4.62 0.00 4.09
3335 6606 0.238289 ATGAACGTTTGGCAAGCTCG 59.762 50.000 12.31 14.34 0.00 5.03
3336 6607 1.082104 GAACGTTTGGCAAGCTCGG 60.082 57.895 12.31 0.00 0.00 4.63
3337 6608 1.782028 GAACGTTTGGCAAGCTCGGT 61.782 55.000 12.31 11.42 0.00 4.69
3338 6609 0.533308 AACGTTTGGCAAGCTCGGTA 60.533 50.000 12.31 0.00 0.00 4.02
3339 6610 0.321298 ACGTTTGGCAAGCTCGGTAT 60.321 50.000 12.31 0.00 0.00 2.73
3340 6611 0.096976 CGTTTGGCAAGCTCGGTATG 59.903 55.000 12.31 0.00 0.00 2.39
3341 6612 1.448985 GTTTGGCAAGCTCGGTATGA 58.551 50.000 6.84 0.00 0.00 2.15
3342 6613 2.017049 GTTTGGCAAGCTCGGTATGAT 58.983 47.619 6.84 0.00 0.00 2.45
3343 6614 3.202906 GTTTGGCAAGCTCGGTATGATA 58.797 45.455 6.84 0.00 0.00 2.15
3344 6615 3.552132 TTGGCAAGCTCGGTATGATAA 57.448 42.857 0.00 0.00 0.00 1.75
3345 6616 2.833794 TGGCAAGCTCGGTATGATAAC 58.166 47.619 0.00 0.00 0.00 1.89
3346 6617 2.434336 TGGCAAGCTCGGTATGATAACT 59.566 45.455 0.00 0.00 0.00 2.24
3347 6618 3.639561 TGGCAAGCTCGGTATGATAACTA 59.360 43.478 0.00 0.00 0.00 2.24
3348 6619 3.988517 GGCAAGCTCGGTATGATAACTAC 59.011 47.826 0.00 0.00 0.00 2.73
3349 6620 4.262079 GGCAAGCTCGGTATGATAACTACT 60.262 45.833 0.00 0.00 0.00 2.57
3350 6621 5.290386 GCAAGCTCGGTATGATAACTACTT 58.710 41.667 0.00 0.00 0.00 2.24
3351 6622 6.444633 GCAAGCTCGGTATGATAACTACTTA 58.555 40.000 0.00 0.00 0.00 2.24
3352 6623 6.921857 GCAAGCTCGGTATGATAACTACTTAA 59.078 38.462 0.00 0.00 0.00 1.85
3353 6624 7.599245 GCAAGCTCGGTATGATAACTACTTAAT 59.401 37.037 0.00 0.00 0.00 1.40
3356 6627 9.517868 AGCTCGGTATGATAACTACTTAATAGT 57.482 33.333 0.00 0.00 46.75 2.12
3370 6641 6.927294 ACTTAATAGTTTAGTGCTCCATGC 57.073 37.500 0.00 0.00 43.25 4.06
3371 6642 6.653989 ACTTAATAGTTTAGTGCTCCATGCT 58.346 36.000 0.00 0.00 43.37 3.79
3372 6643 7.112779 ACTTAATAGTTTAGTGCTCCATGCTT 58.887 34.615 0.00 0.00 43.37 3.91
3373 6644 7.611855 ACTTAATAGTTTAGTGCTCCATGCTTT 59.388 33.333 0.00 0.00 43.37 3.51
3374 6645 9.109393 CTTAATAGTTTAGTGCTCCATGCTTTA 57.891 33.333 0.00 0.00 43.37 1.85
3375 6646 6.927294 ATAGTTTAGTGCTCCATGCTTTAC 57.073 37.500 0.00 0.00 43.37 2.01
3376 6647 3.684788 AGTTTAGTGCTCCATGCTTTACG 59.315 43.478 0.00 0.00 43.37 3.18
3377 6648 2.309528 TAGTGCTCCATGCTTTACGG 57.690 50.000 0.00 0.00 43.37 4.02
3378 6649 1.026718 AGTGCTCCATGCTTTACGGC 61.027 55.000 0.00 0.00 43.37 5.68
3379 6650 1.026718 GTGCTCCATGCTTTACGGCT 61.027 55.000 0.00 0.00 43.37 5.52
3380 6651 0.322456 TGCTCCATGCTTTACGGCTT 60.322 50.000 0.00 0.00 43.37 4.35
3381 6652 1.065782 TGCTCCATGCTTTACGGCTTA 60.066 47.619 0.00 0.00 43.37 3.09
3382 6653 1.599542 GCTCCATGCTTTACGGCTTAG 59.400 52.381 0.00 0.00 38.95 2.18
3383 6654 2.741878 GCTCCATGCTTTACGGCTTAGA 60.742 50.000 0.00 0.00 38.95 2.10
3384 6655 3.531538 CTCCATGCTTTACGGCTTAGAA 58.468 45.455 0.00 0.00 0.00 2.10
3385 6656 3.267483 TCCATGCTTTACGGCTTAGAAC 58.733 45.455 0.00 0.00 0.00 3.01
3386 6657 2.354821 CCATGCTTTACGGCTTAGAACC 59.645 50.000 0.00 0.00 0.00 3.62
3394 6665 3.455328 GGCTTAGAACCGGGACTTC 57.545 57.895 6.32 0.00 0.00 3.01
3395 6666 0.611714 GGCTTAGAACCGGGACTTCA 59.388 55.000 6.32 0.00 0.00 3.02
3396 6667 1.002773 GGCTTAGAACCGGGACTTCAA 59.997 52.381 6.32 0.00 0.00 2.69
3397 6668 2.551504 GGCTTAGAACCGGGACTTCAAA 60.552 50.000 6.32 0.00 0.00 2.69
3398 6669 3.143728 GCTTAGAACCGGGACTTCAAAA 58.856 45.455 6.32 0.00 0.00 2.44
3399 6670 3.566742 GCTTAGAACCGGGACTTCAAAAA 59.433 43.478 6.32 0.00 0.00 1.94
3400 6671 4.556104 GCTTAGAACCGGGACTTCAAAAAC 60.556 45.833 6.32 0.00 0.00 2.43
3401 6672 1.944709 AGAACCGGGACTTCAAAAACG 59.055 47.619 6.32 0.00 0.00 3.60
3402 6673 1.672363 GAACCGGGACTTCAAAAACGT 59.328 47.619 6.32 0.00 0.00 3.99
3403 6674 1.753930 ACCGGGACTTCAAAAACGTT 58.246 45.000 6.32 0.00 0.00 3.99
3404 6675 2.093890 ACCGGGACTTCAAAAACGTTT 58.906 42.857 7.96 7.96 0.00 3.60
3405 6676 2.492881 ACCGGGACTTCAAAAACGTTTT 59.507 40.909 20.26 20.26 0.00 2.43
3406 6677 2.855370 CCGGGACTTCAAAAACGTTTTG 59.145 45.455 25.83 18.72 0.00 2.44
3407 6678 3.427773 CCGGGACTTCAAAAACGTTTTGA 60.428 43.478 25.83 20.43 36.71 2.69
3408 6679 4.167268 CGGGACTTCAAAAACGTTTTGAA 58.833 39.130 25.83 24.76 43.62 2.69
3409 6680 4.030865 CGGGACTTCAAAAACGTTTTGAAC 59.969 41.667 25.83 17.40 41.74 3.18
3419 6690 3.179433 GTTTTGAACGCCAGGAAGC 57.821 52.632 0.00 0.00 0.00 3.86
3420 6691 0.383949 GTTTTGAACGCCAGGAAGCA 59.616 50.000 0.00 0.00 0.00 3.91
3421 6692 1.000274 GTTTTGAACGCCAGGAAGCAT 60.000 47.619 0.00 0.00 0.00 3.79
3422 6693 2.192664 TTTGAACGCCAGGAAGCATA 57.807 45.000 0.00 0.00 0.00 3.14
3423 6694 2.418368 TTGAACGCCAGGAAGCATAT 57.582 45.000 0.00 0.00 0.00 1.78
3424 6695 3.552132 TTGAACGCCAGGAAGCATATA 57.448 42.857 0.00 0.00 0.00 0.86
3425 6696 3.552132 TGAACGCCAGGAAGCATATAA 57.448 42.857 0.00 0.00 0.00 0.98
3426 6697 3.466836 TGAACGCCAGGAAGCATATAAG 58.533 45.455 0.00 0.00 0.00 1.73
3427 6698 3.133901 TGAACGCCAGGAAGCATATAAGA 59.866 43.478 0.00 0.00 0.00 2.10
3428 6699 4.202357 TGAACGCCAGGAAGCATATAAGAT 60.202 41.667 0.00 0.00 0.00 2.40
3429 6700 3.668447 ACGCCAGGAAGCATATAAGATG 58.332 45.455 0.00 0.00 0.00 2.90
3430 6701 3.071602 ACGCCAGGAAGCATATAAGATGT 59.928 43.478 0.00 0.00 0.00 3.06
3431 6702 4.067896 CGCCAGGAAGCATATAAGATGTT 58.932 43.478 0.00 0.00 0.00 2.71
3432 6703 4.153117 CGCCAGGAAGCATATAAGATGTTC 59.847 45.833 0.00 0.00 0.00 3.18
3433 6704 4.457257 GCCAGGAAGCATATAAGATGTTCC 59.543 45.833 0.00 8.84 33.46 3.62
3434 6705 5.624159 CCAGGAAGCATATAAGATGTTCCA 58.376 41.667 14.83 0.00 34.57 3.53
3435 6706 6.064060 CCAGGAAGCATATAAGATGTTCCAA 58.936 40.000 14.83 0.00 34.57 3.53
3436 6707 6.206243 CCAGGAAGCATATAAGATGTTCCAAG 59.794 42.308 14.83 9.79 34.57 3.61
3437 6708 6.994496 CAGGAAGCATATAAGATGTTCCAAGA 59.006 38.462 14.83 0.00 34.57 3.02
3438 6709 7.172875 CAGGAAGCATATAAGATGTTCCAAGAG 59.827 40.741 14.83 4.85 34.57 2.85
3439 6710 6.072783 GGAAGCATATAAGATGTTCCAAGAGC 60.073 42.308 10.70 0.00 33.48 4.09
3440 6711 6.185114 AGCATATAAGATGTTCCAAGAGCT 57.815 37.500 0.00 0.00 0.00 4.09
3441 6712 5.996513 AGCATATAAGATGTTCCAAGAGCTG 59.003 40.000 0.00 0.00 0.00 4.24
3442 6713 5.994054 GCATATAAGATGTTCCAAGAGCTGA 59.006 40.000 0.00 0.00 0.00 4.26
3443 6714 6.484643 GCATATAAGATGTTCCAAGAGCTGAA 59.515 38.462 0.00 0.00 0.00 3.02
3444 6715 7.012704 GCATATAAGATGTTCCAAGAGCTGAAA 59.987 37.037 0.00 0.00 0.00 2.69
3445 6716 9.064706 CATATAAGATGTTCCAAGAGCTGAAAT 57.935 33.333 0.00 0.00 0.00 2.17
3446 6717 7.951347 ATAAGATGTTCCAAGAGCTGAAATT 57.049 32.000 0.00 0.00 0.00 1.82
3447 6718 5.640189 AGATGTTCCAAGAGCTGAAATTG 57.360 39.130 0.00 0.00 0.00 2.32
3448 6719 4.461781 AGATGTTCCAAGAGCTGAAATTGG 59.538 41.667 0.00 0.00 44.00 3.16
3449 6720 3.565307 TGTTCCAAGAGCTGAAATTGGT 58.435 40.909 13.43 0.00 43.28 3.67
3450 6721 4.724399 TGTTCCAAGAGCTGAAATTGGTA 58.276 39.130 13.43 4.81 43.28 3.25
3451 6722 5.324409 TGTTCCAAGAGCTGAAATTGGTAT 58.676 37.500 13.43 0.00 43.28 2.73
3452 6723 5.774690 TGTTCCAAGAGCTGAAATTGGTATT 59.225 36.000 13.43 0.00 43.28 1.89
3453 6724 6.267471 TGTTCCAAGAGCTGAAATTGGTATTT 59.733 34.615 13.43 0.00 43.28 1.40
3454 6725 6.515272 TCCAAGAGCTGAAATTGGTATTTC 57.485 37.500 13.43 0.00 46.42 2.17
3465 6736 5.841957 AATTGGTATTTCAGACTCATGCC 57.158 39.130 0.00 0.00 0.00 4.40
3466 6737 3.281727 TGGTATTTCAGACTCATGCCC 57.718 47.619 0.00 0.00 0.00 5.36
3467 6738 2.213499 GGTATTTCAGACTCATGCCCG 58.787 52.381 0.00 0.00 0.00 6.13
3468 6739 2.158957 GGTATTTCAGACTCATGCCCGA 60.159 50.000 0.00 0.00 0.00 5.14
3469 6740 2.322355 ATTTCAGACTCATGCCCGAG 57.678 50.000 0.00 0.00 39.05 4.63
3474 6745 3.201494 ACTCATGCCCGAGTCGAG 58.799 61.111 15.64 0.45 42.70 4.04
3475 6746 1.378646 ACTCATGCCCGAGTCGAGA 60.379 57.895 15.64 3.00 42.70 4.04
3476 6747 1.358402 CTCATGCCCGAGTCGAGAG 59.642 63.158 15.64 9.00 0.00 3.20
3477 6748 2.069465 CTCATGCCCGAGTCGAGAGG 62.069 65.000 15.64 8.10 0.00 3.69
3478 6749 2.043852 ATGCCCGAGTCGAGAGGT 60.044 61.111 15.64 0.00 0.00 3.85
3479 6750 1.101635 CATGCCCGAGTCGAGAGGTA 61.102 60.000 15.64 6.84 0.00 3.08
3480 6751 0.178987 ATGCCCGAGTCGAGAGGTAT 60.179 55.000 15.64 9.05 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
161 162 8.877864 TCAGAAGAAGAATTAGGCCAAAAATA 57.122 30.769 5.01 0.00 0.00 1.40
206 207 9.588096 AAATAGAACCAAGGTCTATCTTTTTGT 57.412 29.630 2.75 0.00 0.00 2.83
384 385 7.522399 ACATTCAATGTACTCTACGGATAGAGC 60.522 40.741 0.00 0.00 45.54 4.09
524 525 8.701895 CCAGACAATAGGTAGGAACATAAACTA 58.298 37.037 0.00 0.00 0.00 2.24
570 571 7.618019 ATTTCATAGTAGCCTCATTAGACCA 57.382 36.000 0.00 0.00 0.00 4.02
863 864 4.261155 CCGTTCACAATTTCTTGAAGCTCA 60.261 41.667 0.00 0.00 36.20 4.26
919 920 8.791675 TGATGGATATAAGCGCAATTGAAATTA 58.208 29.630 11.47 4.51 0.00 1.40
975 976 3.564352 GGAGTCCATTGATGAAAAGGGGT 60.564 47.826 3.60 0.00 31.82 4.95
1001 1002 4.039973 ACGAACCAAACTCCTTCATAGACA 59.960 41.667 0.00 0.00 0.00 3.41
1016 1017 3.207778 AGGAATTTGTCGAACGAACCAA 58.792 40.909 0.00 0.00 0.00 3.67
1096 1097 2.808202 CGGAGTGGGGATAGCATTTCTG 60.808 54.545 0.00 0.00 0.00 3.02
1338 4583 4.156190 CGGATGCTCCTATTACACTCGTAT 59.844 45.833 1.51 0.00 33.30 3.06
1372 4617 7.395617 CATGAGATGATCATCTTAGGGTGATT 58.604 38.462 33.30 14.01 46.01 2.57
1688 4936 2.169561 AGGATTCCTCGCTTCTTTCTCC 59.830 50.000 0.00 0.00 0.00 3.71
1716 4964 0.545548 GGAGTGGGGGAGTCAGAGTT 60.546 60.000 0.00 0.00 0.00 3.01
1783 5037 0.384309 ATCGAGAATTCGCGTGGCTA 59.616 50.000 27.00 11.28 46.28 3.93
1911 5166 3.802866 TGGACGAATATGCAAGCATACA 58.197 40.909 16.24 6.77 41.09 2.29
2013 5268 7.732140 TCCTAGATTCATGGAGATACAGAACAT 59.268 37.037 0.00 0.00 0.00 2.71
2020 5275 9.050601 CAAAAGTTCCTAGATTCATGGAGATAC 57.949 37.037 0.00 0.00 0.00 2.24
2192 5447 7.331026 CACACCAGAATAGATAGAGTTTTCCA 58.669 38.462 0.00 0.00 0.00 3.53
2505 5760 8.618240 TTTATTCCAGTTAGTAAGAGGGATCA 57.382 34.615 0.00 0.00 0.00 2.92
2946 6217 6.674419 AGGTGGAGTCTTGGAGTATTTCTATT 59.326 38.462 0.00 0.00 0.00 1.73
2949 6220 4.430441 AGGTGGAGTCTTGGAGTATTTCT 58.570 43.478 0.00 0.00 0.00 2.52
3058 6329 1.487482 TTTTGAGTCTCGCGTGTCTG 58.513 50.000 12.39 0.00 0.00 3.51
3169 6440 2.273449 CGCCAGGCCCAGATTTCT 59.727 61.111 5.63 0.00 0.00 2.52
3213 6484 2.350057 TCCTCAGATCACGGACCTAG 57.650 55.000 0.00 0.00 0.00 3.02
3214 6485 3.314307 AATCCTCAGATCACGGACCTA 57.686 47.619 0.00 0.00 0.00 3.08
3215 6486 2.166907 AATCCTCAGATCACGGACCT 57.833 50.000 0.00 0.00 0.00 3.85
3216 6487 3.056465 GGATAATCCTCAGATCACGGACC 60.056 52.174 0.00 0.00 32.53 4.46
3217 6488 3.829601 AGGATAATCCTCAGATCACGGAC 59.170 47.826 0.00 0.00 45.66 4.79
3218 6489 4.119556 AGGATAATCCTCAGATCACGGA 57.880 45.455 0.00 0.00 45.66 4.69
3230 6501 3.216800 TGTGCAGCAATGAGGATAATCC 58.783 45.455 0.00 0.00 36.58 3.01
3231 6502 4.132336 TCTGTGCAGCAATGAGGATAATC 58.868 43.478 0.00 0.00 0.00 1.75
3232 6503 4.160642 TCTGTGCAGCAATGAGGATAAT 57.839 40.909 0.00 0.00 0.00 1.28
3233 6504 3.632643 TCTGTGCAGCAATGAGGATAA 57.367 42.857 0.00 0.00 0.00 1.75
3234 6505 3.198417 TCTTCTGTGCAGCAATGAGGATA 59.802 43.478 0.00 0.00 0.00 2.59
3235 6506 2.026542 TCTTCTGTGCAGCAATGAGGAT 60.027 45.455 0.00 0.00 0.00 3.24
3236 6507 1.348696 TCTTCTGTGCAGCAATGAGGA 59.651 47.619 0.00 1.41 0.00 3.71
3237 6508 1.817357 TCTTCTGTGCAGCAATGAGG 58.183 50.000 0.00 0.00 0.00 3.86
3238 6509 4.436242 AATTCTTCTGTGCAGCAATGAG 57.564 40.909 0.00 0.00 0.00 2.90
3239 6510 5.416639 ACATAATTCTTCTGTGCAGCAATGA 59.583 36.000 0.00 0.00 0.00 2.57
3240 6511 5.647589 ACATAATTCTTCTGTGCAGCAATG 58.352 37.500 0.00 0.00 0.00 2.82
3241 6512 5.163581 GGACATAATTCTTCTGTGCAGCAAT 60.164 40.000 0.00 0.00 32.24 3.56
3242 6513 4.156556 GGACATAATTCTTCTGTGCAGCAA 59.843 41.667 0.00 0.00 32.24 3.91
3243 6514 3.691118 GGACATAATTCTTCTGTGCAGCA 59.309 43.478 0.00 0.00 32.24 4.41
3244 6515 3.944015 AGGACATAATTCTTCTGTGCAGC 59.056 43.478 0.00 0.00 34.13 5.25
3245 6516 5.645067 TCAAGGACATAATTCTTCTGTGCAG 59.355 40.000 0.00 0.00 34.13 4.41
3246 6517 5.559770 TCAAGGACATAATTCTTCTGTGCA 58.440 37.500 0.00 0.00 34.13 4.57
3247 6518 6.493116 CATCAAGGACATAATTCTTCTGTGC 58.507 40.000 0.00 0.00 0.00 4.57
3248 6519 6.094464 TGCATCAAGGACATAATTCTTCTGTG 59.906 38.462 0.00 0.00 0.00 3.66
3249 6520 6.094603 GTGCATCAAGGACATAATTCTTCTGT 59.905 38.462 0.00 0.00 38.62 3.41
3250 6521 6.459298 GGTGCATCAAGGACATAATTCTTCTG 60.459 42.308 0.00 0.00 40.89 3.02
3251 6522 5.591877 GGTGCATCAAGGACATAATTCTTCT 59.408 40.000 0.00 0.00 40.89 2.85
3252 6523 5.504665 CGGTGCATCAAGGACATAATTCTTC 60.505 44.000 0.00 0.00 40.89 2.87
3253 6524 4.336433 CGGTGCATCAAGGACATAATTCTT 59.664 41.667 0.00 0.00 40.89 2.52
3254 6525 3.879295 CGGTGCATCAAGGACATAATTCT 59.121 43.478 0.00 0.00 40.89 2.40
3255 6526 3.548818 GCGGTGCATCAAGGACATAATTC 60.549 47.826 0.00 0.00 40.89 2.17
3256 6527 2.358898 GCGGTGCATCAAGGACATAATT 59.641 45.455 0.00 0.00 40.89 1.40
3257 6528 1.949525 GCGGTGCATCAAGGACATAAT 59.050 47.619 0.00 0.00 40.89 1.28
3258 6529 1.065491 AGCGGTGCATCAAGGACATAA 60.065 47.619 0.00 0.00 40.89 1.90
3259 6530 0.541392 AGCGGTGCATCAAGGACATA 59.459 50.000 0.00 0.00 40.89 2.29
3260 6531 0.541392 TAGCGGTGCATCAAGGACAT 59.459 50.000 0.00 0.00 40.89 3.06
3261 6532 0.108186 CTAGCGGTGCATCAAGGACA 60.108 55.000 0.00 0.00 40.89 4.02
3262 6533 0.175760 TCTAGCGGTGCATCAAGGAC 59.824 55.000 0.00 0.00 37.94 3.85
3263 6534 1.123077 ATCTAGCGGTGCATCAAGGA 58.877 50.000 0.00 0.00 0.00 3.36
3264 6535 1.202568 TCATCTAGCGGTGCATCAAGG 60.203 52.381 0.00 0.00 0.00 3.61
3265 6536 2.229675 TCATCTAGCGGTGCATCAAG 57.770 50.000 0.00 0.00 0.00 3.02
3266 6537 2.102925 TCATCATCTAGCGGTGCATCAA 59.897 45.455 0.00 0.00 0.00 2.57
3267 6538 1.688197 TCATCATCTAGCGGTGCATCA 59.312 47.619 0.00 0.00 0.00 3.07
3268 6539 2.445565 TCATCATCTAGCGGTGCATC 57.554 50.000 0.00 0.00 0.00 3.91
3269 6540 2.487934 GTTCATCATCTAGCGGTGCAT 58.512 47.619 0.00 0.00 0.00 3.96
3270 6541 1.473257 GGTTCATCATCTAGCGGTGCA 60.473 52.381 0.00 0.00 0.00 4.57
3271 6542 1.202580 AGGTTCATCATCTAGCGGTGC 60.203 52.381 0.00 0.00 0.00 5.01
3272 6543 2.898729 AGGTTCATCATCTAGCGGTG 57.101 50.000 0.00 0.00 0.00 4.94
3273 6544 4.800914 GCAATAGGTTCATCATCTAGCGGT 60.801 45.833 0.00 0.00 0.00 5.68
3274 6545 3.681897 GCAATAGGTTCATCATCTAGCGG 59.318 47.826 0.00 0.00 0.00 5.52
3275 6546 4.309933 TGCAATAGGTTCATCATCTAGCG 58.690 43.478 0.00 0.00 0.00 4.26
3276 6547 4.694509 CCTGCAATAGGTTCATCATCTAGC 59.305 45.833 0.00 0.00 42.00 3.42
3295 6566 2.172372 CGTCTGCATCTGCTCCTGC 61.172 63.158 3.53 0.00 42.66 4.85
3296 6567 0.390866 AACGTCTGCATCTGCTCCTG 60.391 55.000 3.53 0.00 42.66 3.86
3297 6568 1.186200 TAACGTCTGCATCTGCTCCT 58.814 50.000 3.53 0.00 42.66 3.69
3298 6569 1.863454 CATAACGTCTGCATCTGCTCC 59.137 52.381 3.53 0.00 42.66 4.70
3299 6570 2.814269 TCATAACGTCTGCATCTGCTC 58.186 47.619 3.53 0.00 42.66 4.26
3300 6571 2.932614 GTTCATAACGTCTGCATCTGCT 59.067 45.455 3.53 0.00 42.66 4.24
3301 6572 3.310303 GTTCATAACGTCTGCATCTGC 57.690 47.619 0.00 0.00 42.50 4.26
3313 6584 3.234386 GAGCTTGCCAAACGTTCATAAC 58.766 45.455 0.00 0.00 0.00 1.89
3314 6585 2.095969 CGAGCTTGCCAAACGTTCATAA 60.096 45.455 0.00 0.00 0.00 1.90
3315 6586 1.463056 CGAGCTTGCCAAACGTTCATA 59.537 47.619 0.00 0.00 0.00 2.15
3316 6587 0.238289 CGAGCTTGCCAAACGTTCAT 59.762 50.000 0.00 0.00 0.00 2.57
3317 6588 1.646540 CGAGCTTGCCAAACGTTCA 59.353 52.632 0.00 0.00 0.00 3.18
3318 6589 1.082104 CCGAGCTTGCCAAACGTTC 60.082 57.895 0.00 0.00 0.00 3.95
3319 6590 0.533308 TACCGAGCTTGCCAAACGTT 60.533 50.000 0.00 0.00 0.00 3.99
3320 6591 0.321298 ATACCGAGCTTGCCAAACGT 60.321 50.000 0.00 0.00 0.00 3.99
3321 6592 0.096976 CATACCGAGCTTGCCAAACG 59.903 55.000 0.00 0.00 0.00 3.60
3322 6593 1.448985 TCATACCGAGCTTGCCAAAC 58.551 50.000 0.00 0.00 0.00 2.93
3323 6594 2.418368 ATCATACCGAGCTTGCCAAA 57.582 45.000 0.00 0.00 0.00 3.28
3324 6595 3.118408 AGTTATCATACCGAGCTTGCCAA 60.118 43.478 0.00 0.00 0.00 4.52
3325 6596 2.434336 AGTTATCATACCGAGCTTGCCA 59.566 45.455 0.00 0.00 0.00 4.92
3326 6597 3.113260 AGTTATCATACCGAGCTTGCC 57.887 47.619 0.00 0.00 0.00 4.52
3327 6598 4.872664 AGTAGTTATCATACCGAGCTTGC 58.127 43.478 0.00 0.00 0.00 4.01
3330 6601 9.517868 ACTATTAAGTAGTTATCATACCGAGCT 57.482 33.333 0.00 0.00 40.80 4.09
3344 6615 7.711339 GCATGGAGCACTAAACTATTAAGTAGT 59.289 37.037 0.00 0.00 43.71 2.73
3345 6616 8.077836 GCATGGAGCACTAAACTATTAAGTAG 57.922 38.462 0.00 0.00 44.79 2.57
3347 6618 6.927294 GCATGGAGCACTAAACTATTAAGT 57.073 37.500 0.00 0.00 44.79 2.24
3362 6633 1.599542 CTAAGCCGTAAAGCATGGAGC 59.400 52.381 0.00 0.00 46.19 4.70
3363 6634 3.179443 TCTAAGCCGTAAAGCATGGAG 57.821 47.619 0.00 0.00 34.93 3.86
3364 6635 3.267483 GTTCTAAGCCGTAAAGCATGGA 58.733 45.455 0.00 0.00 34.93 3.41
3365 6636 2.354821 GGTTCTAAGCCGTAAAGCATGG 59.645 50.000 0.00 0.00 36.25 3.66
3366 6637 2.030457 CGGTTCTAAGCCGTAAAGCATG 59.970 50.000 0.00 0.00 43.84 4.06
3367 6638 2.277084 CGGTTCTAAGCCGTAAAGCAT 58.723 47.619 0.00 0.00 43.84 3.79
3368 6639 1.717194 CGGTTCTAAGCCGTAAAGCA 58.283 50.000 0.00 0.00 43.84 3.91
3376 6647 0.611714 TGAAGTCCCGGTTCTAAGCC 59.388 55.000 0.00 0.00 0.00 4.35
3377 6648 2.467566 TTGAAGTCCCGGTTCTAAGC 57.532 50.000 0.00 0.00 0.00 3.09
3378 6649 4.319261 CGTTTTTGAAGTCCCGGTTCTAAG 60.319 45.833 0.00 0.00 0.00 2.18
3379 6650 3.560896 CGTTTTTGAAGTCCCGGTTCTAA 59.439 43.478 0.00 0.00 0.00 2.10
3380 6651 3.132925 CGTTTTTGAAGTCCCGGTTCTA 58.867 45.455 0.00 0.00 0.00 2.10
3381 6652 1.944709 CGTTTTTGAAGTCCCGGTTCT 59.055 47.619 0.00 0.00 0.00 3.01
3382 6653 1.672363 ACGTTTTTGAAGTCCCGGTTC 59.328 47.619 0.00 0.00 0.00 3.62
3383 6654 1.753930 ACGTTTTTGAAGTCCCGGTT 58.246 45.000 0.00 0.00 0.00 4.44
3384 6655 1.753930 AACGTTTTTGAAGTCCCGGT 58.246 45.000 0.00 0.00 0.00 5.28
3385 6656 2.855370 CAAAACGTTTTTGAAGTCCCGG 59.145 45.455 23.14 4.91 0.00 5.73
3386 6657 3.760537 TCAAAACGTTTTTGAAGTCCCG 58.239 40.909 23.14 9.25 35.69 5.14
3387 6658 5.444586 GTTCAAAACGTTTTTGAAGTCCC 57.555 39.130 23.14 13.28 45.58 4.46
3401 6672 0.383949 TGCTTCCTGGCGTTCAAAAC 59.616 50.000 0.00 0.00 34.52 2.43
3402 6673 1.327303 ATGCTTCCTGGCGTTCAAAA 58.673 45.000 0.00 0.00 34.52 2.44
3403 6674 2.192664 TATGCTTCCTGGCGTTCAAA 57.807 45.000 0.00 0.00 33.19 2.69
3404 6675 2.418368 ATATGCTTCCTGGCGTTCAA 57.582 45.000 0.00 0.00 33.19 2.69
3405 6676 3.133901 TCTTATATGCTTCCTGGCGTTCA 59.866 43.478 0.00 0.00 33.19 3.18
3406 6677 3.728845 TCTTATATGCTTCCTGGCGTTC 58.271 45.455 0.00 0.00 33.19 3.95
3407 6678 3.838244 TCTTATATGCTTCCTGGCGTT 57.162 42.857 0.00 0.00 33.19 4.84
3408 6679 3.071602 ACATCTTATATGCTTCCTGGCGT 59.928 43.478 0.00 0.00 35.47 5.68
3409 6680 3.668447 ACATCTTATATGCTTCCTGGCG 58.332 45.455 0.00 0.00 34.52 5.69
3410 6681 4.457257 GGAACATCTTATATGCTTCCTGGC 59.543 45.833 0.00 0.00 32.05 4.85
3411 6682 5.624159 TGGAACATCTTATATGCTTCCTGG 58.376 41.667 14.61 0.00 33.94 4.45
3412 6683 6.994496 TCTTGGAACATCTTATATGCTTCCTG 59.006 38.462 14.61 10.35 39.30 3.86
3413 6684 7.141758 TCTTGGAACATCTTATATGCTTCCT 57.858 36.000 14.61 0.00 39.30 3.36
3414 6685 6.072783 GCTCTTGGAACATCTTATATGCTTCC 60.073 42.308 0.00 0.00 39.30 3.46
3415 6686 6.709846 AGCTCTTGGAACATCTTATATGCTTC 59.290 38.462 0.00 0.00 39.30 3.86
3416 6687 6.485984 CAGCTCTTGGAACATCTTATATGCTT 59.514 38.462 0.00 0.00 39.30 3.91
3417 6688 5.996513 CAGCTCTTGGAACATCTTATATGCT 59.003 40.000 0.00 0.00 39.30 3.79
3418 6689 5.994054 TCAGCTCTTGGAACATCTTATATGC 59.006 40.000 0.00 0.00 39.30 3.14
3419 6690 8.442632 TTTCAGCTCTTGGAACATCTTATATG 57.557 34.615 0.00 0.00 39.30 1.78
3420 6691 9.638176 AATTTCAGCTCTTGGAACATCTTATAT 57.362 29.630 0.00 0.00 39.30 0.86
3421 6692 8.896744 CAATTTCAGCTCTTGGAACATCTTATA 58.103 33.333 0.00 0.00 39.30 0.98
3422 6693 7.147949 CCAATTTCAGCTCTTGGAACATCTTAT 60.148 37.037 7.73 0.00 41.61 1.73
3423 6694 6.151648 CCAATTTCAGCTCTTGGAACATCTTA 59.848 38.462 7.73 0.00 41.61 2.10
3424 6695 5.047519 CCAATTTCAGCTCTTGGAACATCTT 60.048 40.000 7.73 0.00 41.61 2.40
3425 6696 4.461781 CCAATTTCAGCTCTTGGAACATCT 59.538 41.667 7.73 0.00 41.61 2.90
3426 6697 4.219288 ACCAATTTCAGCTCTTGGAACATC 59.781 41.667 16.70 0.00 41.61 3.06
3427 6698 4.154942 ACCAATTTCAGCTCTTGGAACAT 58.845 39.130 16.70 0.00 41.61 2.71
3428 6699 3.565307 ACCAATTTCAGCTCTTGGAACA 58.435 40.909 16.70 0.00 41.61 3.18
3429 6700 5.904362 ATACCAATTTCAGCTCTTGGAAC 57.096 39.130 16.70 0.00 41.61 3.62
3430 6701 6.916360 AAATACCAATTTCAGCTCTTGGAA 57.084 33.333 16.70 1.17 41.61 3.53
3431 6702 6.515272 GAAATACCAATTTCAGCTCTTGGA 57.485 37.500 16.70 0.00 46.87 3.53
3442 6713 5.127682 GGGCATGAGTCTGAAATACCAATTT 59.872 40.000 0.00 0.00 38.03 1.82
3443 6714 4.646492 GGGCATGAGTCTGAAATACCAATT 59.354 41.667 0.00 0.00 0.00 2.32
3444 6715 4.210331 GGGCATGAGTCTGAAATACCAAT 58.790 43.478 0.00 0.00 0.00 3.16
3445 6716 3.620488 GGGCATGAGTCTGAAATACCAA 58.380 45.455 0.00 0.00 0.00 3.67
3446 6717 2.419990 CGGGCATGAGTCTGAAATACCA 60.420 50.000 0.00 0.00 0.00 3.25
3447 6718 2.158957 TCGGGCATGAGTCTGAAATACC 60.159 50.000 0.00 0.00 30.19 2.73
3448 6719 3.126831 CTCGGGCATGAGTCTGAAATAC 58.873 50.000 0.00 0.00 33.58 1.89
3449 6720 2.766263 ACTCGGGCATGAGTCTGAAATA 59.234 45.455 0.00 0.00 45.97 1.40
3450 6721 1.556911 ACTCGGGCATGAGTCTGAAAT 59.443 47.619 0.00 0.00 45.97 2.17
3451 6722 0.976641 ACTCGGGCATGAGTCTGAAA 59.023 50.000 0.00 0.00 45.97 2.69
3452 6723 2.671145 ACTCGGGCATGAGTCTGAA 58.329 52.632 0.00 0.00 45.97 3.02
3453 6724 4.442038 ACTCGGGCATGAGTCTGA 57.558 55.556 0.00 0.00 45.97 3.27
3458 6729 1.358402 CTCTCGACTCGGGCATGAG 59.642 63.158 0.00 4.63 41.86 2.90
3459 6730 2.121538 CCTCTCGACTCGGGCATGA 61.122 63.158 0.00 0.00 0.00 3.07
3460 6731 1.101635 TACCTCTCGACTCGGGCATG 61.102 60.000 0.00 0.00 0.00 4.06
3461 6732 0.178987 ATACCTCTCGACTCGGGCAT 60.179 55.000 0.00 0.00 0.00 4.40
3462 6733 1.226542 ATACCTCTCGACTCGGGCA 59.773 57.895 0.00 0.00 0.00 5.36
3463 6734 4.160928 ATACCTCTCGACTCGGGC 57.839 61.111 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.