Multiple sequence alignment - TraesCS3B01G448700

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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 TraesCS3B01G448700 chr3B 100.000 3440 0 0 784 4223 689420762 689417323 0.000000e+00 6353.0
1 TraesCS3B01G448700 chr3B 100.000 509 0 0 1 509 689421545 689421037 0.000000e+00 941.0
2 TraesCS3B01G448700 chr3D 95.422 2621 70 21 815 3404 522950786 522948185 0.000000e+00 4130.0
3 TraesCS3B01G448700 chr3D 93.811 614 33 3 3610 4223 42304893 42305501 0.000000e+00 918.0
4 TraesCS3B01G448700 chr3D 96.464 509 18 0 1 509 446856923 446856415 0.000000e+00 841.0
5 TraesCS3B01G448700 chr3D 88.395 517 34 10 1 509 38604275 38603777 2.170000e-167 599.0
6 TraesCS3B01G448700 chr3D 100.000 28 0 0 787 814 38603745 38603718 8.000000e-03 52.8
7 TraesCS3B01G448700 chr3A 95.083 2603 84 20 814 3404 657615915 657613345 0.000000e+00 4058.0
8 TraesCS3B01G448700 chr5D 86.048 2014 268 12 1087 3094 310696728 310694722 0.000000e+00 2150.0
9 TraesCS3B01G448700 chr5D 91.176 510 42 3 1 509 57216998 57216491 0.000000e+00 689.0
10 TraesCS3B01G448700 chr5D 92.027 439 30 4 18 456 510166872 510166439 2.790000e-171 612.0
11 TraesCS3B01G448700 chr5D 100.000 30 0 0 784 813 510166374 510166345 5.900000e-04 56.5
12 TraesCS3B01G448700 chr5B 85.964 2002 262 15 1098 3094 356718745 356716758 0.000000e+00 2122.0
13 TraesCS3B01G448700 chr5B 93.679 617 36 3 3607 4223 210732851 210733464 0.000000e+00 920.0
14 TraesCS3B01G448700 chr5A 85.296 2013 276 15 1087 3094 404230369 404228372 0.000000e+00 2060.0
15 TraesCS3B01G448700 chr5A 91.935 620 43 5 3605 4223 698320828 698320215 0.000000e+00 861.0
16 TraesCS3B01G448700 chr5A 87.805 82 10 0 2950 3031 136618384 136618465 3.480000e-16 97.1
17 TraesCS3B01G448700 chr4D 93.791 612 35 3 3606 4216 501053729 501053120 0.000000e+00 917.0
18 TraesCS3B01G448700 chr4D 92.182 614 42 4 3610 4223 413043769 413043162 0.000000e+00 863.0
19 TraesCS3B01G448700 chr4D 91.545 615 46 3 3609 4223 384303569 384302961 0.000000e+00 843.0
20 TraesCS3B01G448700 chr2D 92.763 608 34 6 3609 4216 187042884 187043481 0.000000e+00 870.0
21 TraesCS3B01G448700 chr2D 92.345 614 42 3 3610 4223 631283072 631282464 0.000000e+00 869.0
22 TraesCS3B01G448700 chr2A 92.257 607 42 3 3610 4216 31906259 31906860 0.000000e+00 856.0
23 TraesCS3B01G448700 chr7B 79.225 1290 214 31 1846 3090 3087848 3086568 0.000000e+00 848.0
24 TraesCS3B01G448700 chr7B 95.624 457 19 1 50 505 639810274 639810730 0.000000e+00 732.0
25 TraesCS3B01G448700 chr7D 95.686 510 21 1 1 509 49862525 49862016 0.000000e+00 819.0
26 TraesCS3B01G448700 chr7D 90.784 510 42 5 1 509 517992558 517993063 0.000000e+00 676.0
27 TraesCS3B01G448700 chr7D 88.953 516 46 6 1 509 630680023 630679512 9.970000e-176 627.0
28 TraesCS3B01G448700 chr1D 90.980 510 41 5 1 509 482102523 482102018 0.000000e+00 682.0
29 TraesCS3B01G448700 chr1D 90.517 348 26 6 11 356 349257344 349257002 1.790000e-123 453.0
30 TraesCS3B01G448700 chr1A 91.133 203 16 2 307 507 472282052 472282254 1.500000e-69 274.0


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 TraesCS3B01G448700 chr3B 689417323 689421545 4222 True 3647.00 6353 100.0000 1 4223 2 chr3B.!!$R1 4222
1 TraesCS3B01G448700 chr3D 522948185 522950786 2601 True 4130.00 4130 95.4220 815 3404 1 chr3D.!!$R2 2589
2 TraesCS3B01G448700 chr3D 42304893 42305501 608 False 918.00 918 93.8110 3610 4223 1 chr3D.!!$F1 613
3 TraesCS3B01G448700 chr3D 446856415 446856923 508 True 841.00 841 96.4640 1 509 1 chr3D.!!$R1 508
4 TraesCS3B01G448700 chr3D 38603718 38604275 557 True 325.90 599 94.1975 1 814 2 chr3D.!!$R3 813
5 TraesCS3B01G448700 chr3A 657613345 657615915 2570 True 4058.00 4058 95.0830 814 3404 1 chr3A.!!$R1 2590
6 TraesCS3B01G448700 chr5D 310694722 310696728 2006 True 2150.00 2150 86.0480 1087 3094 1 chr5D.!!$R2 2007
7 TraesCS3B01G448700 chr5D 57216491 57216998 507 True 689.00 689 91.1760 1 509 1 chr5D.!!$R1 508
8 TraesCS3B01G448700 chr5D 510166345 510166872 527 True 334.25 612 96.0135 18 813 2 chr5D.!!$R3 795
9 TraesCS3B01G448700 chr5B 356716758 356718745 1987 True 2122.00 2122 85.9640 1098 3094 1 chr5B.!!$R1 1996
10 TraesCS3B01G448700 chr5B 210732851 210733464 613 False 920.00 920 93.6790 3607 4223 1 chr5B.!!$F1 616
11 TraesCS3B01G448700 chr5A 404228372 404230369 1997 True 2060.00 2060 85.2960 1087 3094 1 chr5A.!!$R1 2007
12 TraesCS3B01G448700 chr5A 698320215 698320828 613 True 861.00 861 91.9350 3605 4223 1 chr5A.!!$R2 618
13 TraesCS3B01G448700 chr4D 501053120 501053729 609 True 917.00 917 93.7910 3606 4216 1 chr4D.!!$R3 610
14 TraesCS3B01G448700 chr4D 413043162 413043769 607 True 863.00 863 92.1820 3610 4223 1 chr4D.!!$R2 613
15 TraesCS3B01G448700 chr4D 384302961 384303569 608 True 843.00 843 91.5450 3609 4223 1 chr4D.!!$R1 614
16 TraesCS3B01G448700 chr2D 187042884 187043481 597 False 870.00 870 92.7630 3609 4216 1 chr2D.!!$F1 607
17 TraesCS3B01G448700 chr2D 631282464 631283072 608 True 869.00 869 92.3450 3610 4223 1 chr2D.!!$R1 613
18 TraesCS3B01G448700 chr2A 31906259 31906860 601 False 856.00 856 92.2570 3610 4216 1 chr2A.!!$F1 606
19 TraesCS3B01G448700 chr7B 3086568 3087848 1280 True 848.00 848 79.2250 1846 3090 1 chr7B.!!$R1 1244
20 TraesCS3B01G448700 chr7D 49862016 49862525 509 True 819.00 819 95.6860 1 509 1 chr7D.!!$R1 508
21 TraesCS3B01G448700 chr7D 517992558 517993063 505 False 676.00 676 90.7840 1 509 1 chr7D.!!$F1 508
22 TraesCS3B01G448700 chr7D 630679512 630680023 511 True 627.00 627 88.9530 1 509 1 chr7D.!!$R2 508
23 TraesCS3B01G448700 chr1D 482102018 482102523 505 True 682.00 682 90.9800 1 509 1 chr1D.!!$R2 508

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
888 905 0.111253 AGAATCCCCATTCCATCCGC 59.889 55.0 0.0 0.0 39.58 5.54 F
1517 1568 0.034896 GTCACCGTCTCCACCATGTT 59.965 55.0 0.0 0.0 0.00 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2304 2367 1.224592 GCCGGTGTCCATCATTCCT 59.775 57.895 1.90 0.00 0.00 3.36 R
3497 3594 0.323178 AATCTTGGCCTCCAGCTGTG 60.323 55.000 13.81 4.33 43.05 3.66 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
83 85 5.048224 AGGTAATACCGATGTCACTAATCCG 60.048 44.000 3.47 0.00 44.90 4.18
348 350 7.168972 GCAATTTTTGTGTAAGTTGTCTGCATA 59.831 33.333 0.00 0.00 0.00 3.14
397 407 1.065551 GCTTATCAACGGGCCATTGTC 59.934 52.381 12.63 0.00 0.00 3.18
431 448 3.007290 ACATGAAGTCTTGTGAGCTGCTA 59.993 43.478 0.15 0.00 33.67 3.49
887 904 1.901591 CAGAATCCCCATTCCATCCG 58.098 55.000 0.00 0.00 39.58 4.18
888 905 0.111253 AGAATCCCCATTCCATCCGC 59.889 55.000 0.00 0.00 39.58 5.54
889 906 0.111253 GAATCCCCATTCCATCCGCT 59.889 55.000 0.00 0.00 33.38 5.52
962 988 1.885850 CGCCTATAAAAGCCGCGGT 60.886 57.895 28.70 11.01 39.20 5.68
1443 1494 1.134901 CTTCGACGACCTCTCCGTG 59.865 63.158 0.00 0.00 40.67 4.94
1517 1568 0.034896 GTCACCGTCTCCACCATGTT 59.965 55.000 0.00 0.00 0.00 2.71
1675 1726 2.352422 GCCTGTCCATGTCCAGCA 59.648 61.111 3.86 0.00 0.00 4.41
2307 2370 3.691342 CTCGTCACCCGGCAAGGA 61.691 66.667 0.00 0.00 45.00 3.36
2312 2375 0.394352 GTCACCCGGCAAGGAATGAT 60.394 55.000 0.00 0.00 45.00 2.45
2646 2716 1.153549 GCTCAGCTACGGGGACAAG 60.154 63.158 0.00 0.00 0.00 3.16
2648 2718 2.125106 CAGCTACGGGGACAAGCC 60.125 66.667 0.00 0.00 39.24 4.35
2649 2719 2.606519 AGCTACGGGGACAAGCCA 60.607 61.111 0.00 0.00 39.24 4.75
2659 2729 1.666011 GACAAGCCACTCGTCTCCA 59.334 57.895 0.00 0.00 0.00 3.86
3127 3218 2.046604 CTGCTGCTGCTGCTGGTA 60.047 61.111 27.67 10.41 40.48 3.25
3211 3302 1.153549 GCGGCGGAAGAATCTCTGT 60.154 57.895 9.78 0.00 0.00 3.41
3242 3338 5.619086 CGTGAGAGTTTTTGGTTTGTTGAGT 60.619 40.000 0.00 0.00 0.00 3.41
3243 3339 5.800438 GTGAGAGTTTTTGGTTTGTTGAGTC 59.200 40.000 0.00 0.00 0.00 3.36
3244 3340 5.710099 TGAGAGTTTTTGGTTTGTTGAGTCT 59.290 36.000 0.00 0.00 0.00 3.24
3245 3341 6.208599 TGAGAGTTTTTGGTTTGTTGAGTCTT 59.791 34.615 0.00 0.00 0.00 3.01
3246 3342 6.389906 AGAGTTTTTGGTTTGTTGAGTCTTG 58.610 36.000 0.00 0.00 0.00 3.02
3247 3343 6.208599 AGAGTTTTTGGTTTGTTGAGTCTTGA 59.791 34.615 0.00 0.00 0.00 3.02
3248 3344 6.156519 AGTTTTTGGTTTGTTGAGTCTTGAC 58.843 36.000 0.00 0.00 0.00 3.18
3250 3346 5.560966 TTTGGTTTGTTGAGTCTTGACTC 57.439 39.130 20.32 20.32 37.27 3.36
3251 3347 4.487714 TGGTTTGTTGAGTCTTGACTCT 57.512 40.909 25.21 0.00 37.62 3.24
3252 3348 4.843728 TGGTTTGTTGAGTCTTGACTCTT 58.156 39.130 25.21 0.00 37.62 2.85
3253 3349 4.635765 TGGTTTGTTGAGTCTTGACTCTTG 59.364 41.667 25.21 0.00 37.62 3.02
3254 3350 4.876107 GGTTTGTTGAGTCTTGACTCTTGA 59.124 41.667 25.21 12.69 37.62 3.02
3255 3351 5.007136 GGTTTGTTGAGTCTTGACTCTTGAG 59.993 44.000 25.21 0.00 37.62 3.02
3256 3352 5.598416 TTGTTGAGTCTTGACTCTTGAGA 57.402 39.130 25.21 11.58 37.62 3.27
3258 3354 4.038522 TGTTGAGTCTTGACTCTTGAGAGG 59.961 45.833 25.21 0.00 46.13 3.69
3259 3355 4.105754 TGAGTCTTGACTCTTGAGAGGA 57.894 45.455 25.21 5.89 46.13 3.71
3260 3356 4.671831 TGAGTCTTGACTCTTGAGAGGAT 58.328 43.478 25.21 0.00 46.13 3.24
3261 3357 4.462132 TGAGTCTTGACTCTTGAGAGGATG 59.538 45.833 25.21 2.11 46.13 3.51
3262 3358 4.671831 AGTCTTGACTCTTGAGAGGATGA 58.328 43.478 12.32 4.10 46.13 2.92
3263 3359 4.706476 AGTCTTGACTCTTGAGAGGATGAG 59.294 45.833 12.32 5.20 46.13 2.90
3264 3360 4.704540 GTCTTGACTCTTGAGAGGATGAGA 59.295 45.833 12.32 7.11 46.13 3.27
3265 3361 5.184864 GTCTTGACTCTTGAGAGGATGAGAA 59.815 44.000 12.32 0.00 46.13 2.87
3266 3362 5.418524 TCTTGACTCTTGAGAGGATGAGAAG 59.581 44.000 12.32 5.28 46.13 2.85
3267 3363 4.928263 TGACTCTTGAGAGGATGAGAAGA 58.072 43.478 12.32 0.00 46.13 2.87
3268 3364 5.517924 TGACTCTTGAGAGGATGAGAAGAT 58.482 41.667 12.32 0.00 46.13 2.40
3269 3365 6.667661 TGACTCTTGAGAGGATGAGAAGATA 58.332 40.000 12.32 0.00 46.13 1.98
3270 3366 6.772233 TGACTCTTGAGAGGATGAGAAGATAG 59.228 42.308 12.32 0.00 46.13 2.08
3271 3367 6.672593 ACTCTTGAGAGGATGAGAAGATAGT 58.327 40.000 12.32 0.00 46.13 2.12
3272 3368 6.772716 ACTCTTGAGAGGATGAGAAGATAGTC 59.227 42.308 12.32 0.00 46.13 2.59
3273 3369 6.068010 TCTTGAGAGGATGAGAAGATAGTCC 58.932 44.000 0.00 0.00 0.00 3.85
3274 3370 4.393834 TGAGAGGATGAGAAGATAGTCCG 58.606 47.826 0.00 0.00 34.19 4.79
3275 3371 4.103311 TGAGAGGATGAGAAGATAGTCCGA 59.897 45.833 0.00 0.00 34.19 4.55
3276 3372 5.222027 TGAGAGGATGAGAAGATAGTCCGAT 60.222 44.000 0.00 0.00 34.19 4.18
3277 3373 5.640147 AGAGGATGAGAAGATAGTCCGATT 58.360 41.667 0.00 0.00 34.19 3.34
3278 3374 6.785076 AGAGGATGAGAAGATAGTCCGATTA 58.215 40.000 0.00 0.00 34.19 1.75
3279 3375 6.884295 AGAGGATGAGAAGATAGTCCGATTAG 59.116 42.308 0.00 0.00 34.19 1.73
3280 3376 6.548321 AGGATGAGAAGATAGTCCGATTAGT 58.452 40.000 0.00 0.00 34.19 2.24
3281 3377 7.007723 AGGATGAGAAGATAGTCCGATTAGTT 58.992 38.462 0.00 0.00 34.19 2.24
3296 3392 2.851263 TAGTTCGTGGTGCTTTGGAT 57.149 45.000 0.00 0.00 0.00 3.41
3309 3405 4.024556 GTGCTTTGGATATCACGATCTTGG 60.025 45.833 4.83 0.00 0.00 3.61
3315 3411 4.756642 TGGATATCACGATCTTGGCATTTC 59.243 41.667 4.83 0.00 0.00 2.17
3319 3415 2.927477 TCACGATCTTGGCATTTCGTAC 59.073 45.455 16.12 0.00 42.42 3.67
3323 3419 2.472695 TCTTGGCATTTCGTACTGCT 57.527 45.000 4.48 0.00 38.45 4.24
3350 3446 9.906660 TTTTTGCAAGAGTAAATCGTCAAATAT 57.093 25.926 0.00 0.00 30.89 1.28
3370 3467 9.760660 CAAATATTTGTTGCTAGTTAGTCTGTC 57.239 33.333 18.32 0.00 33.59 3.51
3404 3501 8.688747 AGATTGAAGTTGAAATGAACTCTTCT 57.311 30.769 0.00 0.00 35.01 2.85
3405 3502 8.782144 AGATTGAAGTTGAAATGAACTCTTCTC 58.218 33.333 0.00 0.00 35.01 2.87
3406 3503 6.867662 TGAAGTTGAAATGAACTCTTCTCC 57.132 37.500 0.00 0.00 35.01 3.71
3407 3504 5.466728 TGAAGTTGAAATGAACTCTTCTCCG 59.533 40.000 0.00 0.00 35.01 4.63
3408 3505 4.962155 AGTTGAAATGAACTCTTCTCCGT 58.038 39.130 0.00 0.00 29.85 4.69
3409 3506 4.752101 AGTTGAAATGAACTCTTCTCCGTG 59.248 41.667 0.00 0.00 29.85 4.94
3410 3507 4.336889 TGAAATGAACTCTTCTCCGTGT 57.663 40.909 0.00 0.00 0.00 4.49
3411 3508 4.703897 TGAAATGAACTCTTCTCCGTGTT 58.296 39.130 0.00 0.00 0.00 3.32
3412 3509 5.849510 TGAAATGAACTCTTCTCCGTGTTA 58.150 37.500 0.00 0.00 0.00 2.41
3413 3510 6.285224 TGAAATGAACTCTTCTCCGTGTTAA 58.715 36.000 0.00 0.00 0.00 2.01
3414 3511 6.423905 TGAAATGAACTCTTCTCCGTGTTAAG 59.576 38.462 0.00 0.00 0.00 1.85
3415 3512 4.252971 TGAACTCTTCTCCGTGTTAAGG 57.747 45.455 0.00 0.00 0.00 2.69
3416 3513 3.893200 TGAACTCTTCTCCGTGTTAAGGA 59.107 43.478 0.00 0.00 36.20 3.36
3417 3514 4.527038 TGAACTCTTCTCCGTGTTAAGGAT 59.473 41.667 0.00 0.00 37.13 3.24
3418 3515 4.722361 ACTCTTCTCCGTGTTAAGGATC 57.278 45.455 0.00 0.00 37.13 3.36
3419 3516 4.087182 ACTCTTCTCCGTGTTAAGGATCA 58.913 43.478 0.00 0.00 37.13 2.92
3420 3517 4.527038 ACTCTTCTCCGTGTTAAGGATCAA 59.473 41.667 0.00 0.00 37.13 2.57
3421 3518 5.011738 ACTCTTCTCCGTGTTAAGGATCAAA 59.988 40.000 0.00 0.00 37.13 2.69
3422 3519 5.235516 TCTTCTCCGTGTTAAGGATCAAAC 58.764 41.667 0.00 0.00 37.13 2.93
3423 3520 4.610605 TCTCCGTGTTAAGGATCAAACA 57.389 40.909 0.00 0.00 37.13 2.83
3424 3521 5.160607 TCTCCGTGTTAAGGATCAAACAT 57.839 39.130 9.77 0.00 37.87 2.71
3425 3522 4.935205 TCTCCGTGTTAAGGATCAAACATG 59.065 41.667 15.10 15.10 40.64 3.21
3426 3523 4.647611 TCCGTGTTAAGGATCAAACATGT 58.352 39.130 18.22 0.00 39.77 3.21
3427 3524 4.454161 TCCGTGTTAAGGATCAAACATGTG 59.546 41.667 18.22 12.88 39.77 3.21
3428 3525 4.158384 CGTGTTAAGGATCAAACATGTGC 58.842 43.478 0.00 2.89 37.87 4.57
3429 3526 4.083324 CGTGTTAAGGATCAAACATGTGCT 60.083 41.667 0.00 0.00 37.87 4.40
3430 3527 5.121611 CGTGTTAAGGATCAAACATGTGCTA 59.878 40.000 0.00 0.00 37.87 3.49
3431 3528 6.348132 CGTGTTAAGGATCAAACATGTGCTAA 60.348 38.462 0.00 0.00 37.87 3.09
3432 3529 7.538575 GTGTTAAGGATCAAACATGTGCTAAT 58.461 34.615 0.00 0.00 37.87 1.73
3433 3530 7.485913 GTGTTAAGGATCAAACATGTGCTAATG 59.514 37.037 0.00 0.00 37.87 1.90
3434 3531 7.392953 TGTTAAGGATCAAACATGTGCTAATGA 59.607 33.333 0.00 0.00 30.88 2.57
3435 3532 5.824904 AGGATCAAACATGTGCTAATGAC 57.175 39.130 0.00 0.00 0.00 3.06
3436 3533 4.641989 AGGATCAAACATGTGCTAATGACC 59.358 41.667 0.00 4.74 0.00 4.02
3437 3534 4.496341 GGATCAAACATGTGCTAATGACCG 60.496 45.833 0.00 0.00 0.00 4.79
3438 3535 3.669536 TCAAACATGTGCTAATGACCGA 58.330 40.909 0.00 0.00 0.00 4.69
3439 3536 4.068599 TCAAACATGTGCTAATGACCGAA 58.931 39.130 0.00 0.00 0.00 4.30
3440 3537 4.154015 TCAAACATGTGCTAATGACCGAAG 59.846 41.667 0.00 0.00 0.00 3.79
3441 3538 3.334583 ACATGTGCTAATGACCGAAGT 57.665 42.857 0.00 0.00 0.00 3.01
3442 3539 3.262420 ACATGTGCTAATGACCGAAGTC 58.738 45.455 0.00 0.00 43.83 3.01
3454 3551 4.813296 GACCGAAGTCACAAACTCAAAT 57.187 40.909 0.00 0.00 42.99 2.32
3455 3552 5.917541 GACCGAAGTCACAAACTCAAATA 57.082 39.130 0.00 0.00 42.99 1.40
3456 3553 6.295039 GACCGAAGTCACAAACTCAAATAA 57.705 37.500 0.00 0.00 42.99 1.40
3457 3554 6.687081 ACCGAAGTCACAAACTCAAATAAA 57.313 33.333 0.00 0.00 37.17 1.40
3458 3555 7.090953 ACCGAAGTCACAAACTCAAATAAAA 57.909 32.000 0.00 0.00 37.17 1.52
3459 3556 7.712797 ACCGAAGTCACAAACTCAAATAAAAT 58.287 30.769 0.00 0.00 37.17 1.82
3460 3557 8.842280 ACCGAAGTCACAAACTCAAATAAAATA 58.158 29.630 0.00 0.00 37.17 1.40
3461 3558 9.329913 CCGAAGTCACAAACTCAAATAAAATAG 57.670 33.333 0.00 0.00 37.17 1.73
3462 3559 9.878599 CGAAGTCACAAACTCAAATAAAATAGT 57.121 29.630 0.00 0.00 37.17 2.12
3481 3578 9.730420 AAAATAGTTATGCGAATAACATGTTCC 57.270 29.630 24.93 4.99 38.97 3.62
3482 3579 8.445275 AATAGTTATGCGAATAACATGTTCCA 57.555 30.769 24.93 6.34 38.97 3.53
3483 3580 6.942532 AGTTATGCGAATAACATGTTCCAT 57.057 33.333 24.93 12.64 38.97 3.41
3484 3581 9.719355 ATAGTTATGCGAATAACATGTTCCATA 57.281 29.630 24.93 11.76 38.97 2.74
3485 3582 8.445275 AGTTATGCGAATAACATGTTCCATAA 57.555 30.769 24.93 16.12 38.97 1.90
3486 3583 8.342634 AGTTATGCGAATAACATGTTCCATAAC 58.657 33.333 24.93 26.81 41.88 1.89
3487 3584 5.493133 TGCGAATAACATGTTCCATAACC 57.507 39.130 15.85 0.00 34.49 2.85
3488 3585 4.336993 TGCGAATAACATGTTCCATAACCC 59.663 41.667 15.85 0.00 34.49 4.11
3489 3586 4.261447 GCGAATAACATGTTCCATAACCCC 60.261 45.833 15.85 0.00 34.49 4.95
3490 3587 5.130350 CGAATAACATGTTCCATAACCCCT 58.870 41.667 15.85 0.00 34.49 4.79
3491 3588 5.592688 CGAATAACATGTTCCATAACCCCTT 59.407 40.000 15.85 0.00 34.49 3.95
3492 3589 6.459573 CGAATAACATGTTCCATAACCCCTTG 60.460 42.308 15.85 0.00 34.49 3.61
3493 3590 4.396357 AACATGTTCCATAACCCCTTGA 57.604 40.909 4.92 0.00 34.49 3.02
3494 3591 3.968265 ACATGTTCCATAACCCCTTGAG 58.032 45.455 0.00 0.00 34.49 3.02
3495 3592 2.507407 TGTTCCATAACCCCTTGAGC 57.493 50.000 0.00 0.00 34.49 4.26
3496 3593 1.005450 TGTTCCATAACCCCTTGAGCC 59.995 52.381 0.00 0.00 34.49 4.70
3497 3594 0.629058 TTCCATAACCCCTTGAGCCC 59.371 55.000 0.00 0.00 0.00 5.19
3498 3595 0.551377 TCCATAACCCCTTGAGCCCA 60.551 55.000 0.00 0.00 0.00 5.36
3499 3596 0.395724 CCATAACCCCTTGAGCCCAC 60.396 60.000 0.00 0.00 0.00 4.61
3500 3597 0.331278 CATAACCCCTTGAGCCCACA 59.669 55.000 0.00 0.00 0.00 4.17
3501 3598 0.625849 ATAACCCCTTGAGCCCACAG 59.374 55.000 0.00 0.00 0.00 3.66
3502 3599 2.137177 TAACCCCTTGAGCCCACAGC 62.137 60.000 0.00 0.00 44.25 4.40
3512 3609 3.970410 CCCACAGCTGGAGGCCAA 61.970 66.667 19.93 0.00 40.55 4.52
3513 3610 2.360852 CCACAGCTGGAGGCCAAG 60.361 66.667 19.93 0.00 40.55 3.61
3514 3611 2.752358 CACAGCTGGAGGCCAAGA 59.248 61.111 19.93 0.00 43.05 3.02
3515 3612 1.302285 CACAGCTGGAGGCCAAGAT 59.698 57.895 19.93 0.00 43.05 2.40
3516 3613 0.323178 CACAGCTGGAGGCCAAGATT 60.323 55.000 19.93 0.00 43.05 2.40
3517 3614 0.407139 ACAGCTGGAGGCCAAGATTT 59.593 50.000 19.93 0.00 43.05 2.17
3518 3615 1.203100 ACAGCTGGAGGCCAAGATTTT 60.203 47.619 19.93 0.00 43.05 1.82
3519 3616 1.203994 CAGCTGGAGGCCAAGATTTTG 59.796 52.381 5.01 0.00 43.05 2.44
3520 3617 1.203100 AGCTGGAGGCCAAGATTTTGT 60.203 47.619 5.01 0.00 43.05 2.83
3521 3618 1.620323 GCTGGAGGCCAAGATTTTGTT 59.380 47.619 5.01 0.00 30.80 2.83
3522 3619 2.037641 GCTGGAGGCCAAGATTTTGTTT 59.962 45.455 5.01 0.00 30.80 2.83
3523 3620 3.494924 GCTGGAGGCCAAGATTTTGTTTT 60.495 43.478 5.01 0.00 30.80 2.43
3524 3621 4.262420 GCTGGAGGCCAAGATTTTGTTTTA 60.262 41.667 5.01 0.00 30.80 1.52
3525 3622 5.569428 GCTGGAGGCCAAGATTTTGTTTTAT 60.569 40.000 5.01 0.00 30.80 1.40
3526 3623 6.432403 TGGAGGCCAAGATTTTGTTTTATT 57.568 33.333 5.01 0.00 32.21 1.40
3527 3624 6.229733 TGGAGGCCAAGATTTTGTTTTATTG 58.770 36.000 5.01 0.00 32.21 1.90
3528 3625 6.183361 TGGAGGCCAAGATTTTGTTTTATTGT 60.183 34.615 5.01 0.00 32.21 2.71
3529 3626 7.015682 TGGAGGCCAAGATTTTGTTTTATTGTA 59.984 33.333 5.01 0.00 32.21 2.41
3530 3627 8.040727 GGAGGCCAAGATTTTGTTTTATTGTAT 58.959 33.333 5.01 0.00 32.21 2.29
3531 3628 8.776376 AGGCCAAGATTTTGTTTTATTGTATG 57.224 30.769 5.01 0.00 32.21 2.39
3532 3629 8.592809 AGGCCAAGATTTTGTTTTATTGTATGA 58.407 29.630 5.01 0.00 32.21 2.15
3533 3630 9.213799 GGCCAAGATTTTGTTTTATTGTATGAA 57.786 29.630 0.00 0.00 32.21 2.57
3540 3637 8.649973 TTTTGTTTTATTGTATGAACACCACC 57.350 30.769 0.00 0.00 34.61 4.61
3541 3638 6.003234 TGTTTTATTGTATGAACACCACCG 57.997 37.500 0.00 0.00 34.61 4.94
3542 3639 5.048643 TGTTTTATTGTATGAACACCACCGG 60.049 40.000 0.00 0.00 34.61 5.28
3543 3640 2.871096 ATTGTATGAACACCACCGGT 57.129 45.000 0.00 0.00 34.61 5.28
3544 3641 2.642154 TTGTATGAACACCACCGGTT 57.358 45.000 2.97 0.00 34.61 4.44
3545 3642 3.766068 TTGTATGAACACCACCGGTTA 57.234 42.857 2.97 0.00 34.61 2.85
3546 3643 3.042871 TGTATGAACACCACCGGTTAC 57.957 47.619 2.97 2.67 31.02 2.50
3547 3644 2.289569 TGTATGAACACCACCGGTTACC 60.290 50.000 2.97 0.00 31.02 2.85
3548 3645 8.996998 TATTGTATGAACACCACCGGTTACCG 62.997 46.154 17.88 17.88 40.30 4.02
3557 3654 4.287580 CGGTTACCGGCATGTTCA 57.712 55.556 17.00 0.00 44.15 3.18
3558 3655 1.791662 CGGTTACCGGCATGTTCAC 59.208 57.895 17.00 0.00 44.15 3.18
3559 3656 1.791662 GGTTACCGGCATGTTCACG 59.208 57.895 0.00 0.00 0.00 4.35
3565 3662 4.759096 GGCATGTTCACGGCGCAC 62.759 66.667 10.83 1.53 0.00 5.34
3566 3663 4.024143 GCATGTTCACGGCGCACA 62.024 61.111 10.83 8.36 0.00 4.57
3567 3664 2.869646 CATGTTCACGGCGCACAT 59.130 55.556 10.83 10.57 0.00 3.21
3568 3665 1.512522 CATGTTCACGGCGCACATG 60.513 57.895 24.11 24.11 41.31 3.21
3569 3666 1.965930 ATGTTCACGGCGCACATGT 60.966 52.632 10.83 0.00 29.74 3.21
3570 3667 1.911293 ATGTTCACGGCGCACATGTC 61.911 55.000 10.83 3.20 29.74 3.06
3571 3668 3.047280 TTCACGGCGCACATGTCC 61.047 61.111 10.83 0.00 0.00 4.02
3572 3669 3.529341 TTCACGGCGCACATGTCCT 62.529 57.895 10.83 0.00 0.00 3.85
3573 3670 3.490759 CACGGCGCACATGTCCTC 61.491 66.667 10.83 0.00 0.00 3.71
3574 3671 4.760047 ACGGCGCACATGTCCTCC 62.760 66.667 10.83 0.00 0.00 4.30
3575 3672 4.457496 CGGCGCACATGTCCTCCT 62.457 66.667 10.83 0.00 0.00 3.69
3576 3673 2.821366 GGCGCACATGTCCTCCTG 60.821 66.667 10.83 0.00 0.00 3.86
3577 3674 2.821366 GCGCACATGTCCTCCTGG 60.821 66.667 0.30 0.00 0.00 4.45
3578 3675 2.124983 CGCACATGTCCTCCTGGG 60.125 66.667 0.00 0.00 0.00 4.45
3579 3676 2.959484 CGCACATGTCCTCCTGGGT 61.959 63.158 0.00 0.00 36.25 4.51
3580 3677 1.078143 GCACATGTCCTCCTGGGTC 60.078 63.158 0.00 0.00 36.25 4.46
3581 3678 1.604378 CACATGTCCTCCTGGGTCC 59.396 63.158 0.00 0.00 36.25 4.46
3582 3679 0.911525 CACATGTCCTCCTGGGTCCT 60.912 60.000 0.00 0.00 36.25 3.85
3583 3680 0.911525 ACATGTCCTCCTGGGTCCTG 60.912 60.000 0.00 0.00 36.25 3.86
3584 3681 1.307343 ATGTCCTCCTGGGTCCTGG 60.307 63.158 6.59 6.59 36.25 4.45
3585 3682 3.403558 GTCCTCCTGGGTCCTGGC 61.404 72.222 7.92 0.00 35.38 4.85
3586 3683 4.741239 TCCTCCTGGGTCCTGGCC 62.741 72.222 0.00 0.00 35.38 5.36
3588 3685 3.406200 CTCCTGGGTCCTGGCCAG 61.406 72.222 26.87 26.87 35.38 4.85
3591 3688 3.970410 CTGGGTCCTGGCCAGCAA 61.970 66.667 28.39 14.69 0.00 3.91
3592 3689 4.284550 TGGGTCCTGGCCAGCAAC 62.285 66.667 28.39 24.67 0.00 4.17
3593 3690 3.971702 GGGTCCTGGCCAGCAACT 61.972 66.667 28.39 0.00 0.00 3.16
3594 3691 2.602676 GGGTCCTGGCCAGCAACTA 61.603 63.158 28.39 6.56 0.00 2.24
3595 3692 1.377333 GGTCCTGGCCAGCAACTAC 60.377 63.158 28.39 17.50 0.00 2.73
3596 3693 1.741770 GTCCTGGCCAGCAACTACG 60.742 63.158 28.39 11.95 0.00 3.51
3597 3694 3.127533 CCTGGCCAGCAACTACGC 61.128 66.667 28.39 0.00 0.00 4.42
3598 3695 3.127533 CTGGCCAGCAACTACGCC 61.128 66.667 22.33 0.00 41.99 5.68
3600 3697 2.438434 GGCCAGCAACTACGCCAT 60.438 61.111 0.00 0.00 41.25 4.40
3601 3698 2.046285 GGCCAGCAACTACGCCATT 61.046 57.895 0.00 0.00 41.25 3.16
3602 3699 1.137404 GCCAGCAACTACGCCATTG 59.863 57.895 0.00 0.00 0.00 2.82
3845 3943 2.257676 GCCGTTCGTCCTCGTTCT 59.742 61.111 0.00 0.00 38.33 3.01
3918 4016 1.441682 GGTGGTCTTCGTCGACGTC 60.442 63.158 34.40 22.27 40.80 4.34
4068 4166 3.156293 CCCAGTCAATCAACACCATTGA 58.844 45.455 0.00 0.00 37.82 2.57
4218 4318 1.616872 CGCGCAAAATGCTTCAACCC 61.617 55.000 8.75 0.00 42.25 4.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
309 311 6.119502 CACAAAAATTGCACATTTGTACGAC 58.880 36.000 18.10 0.00 43.36 4.34
372 381 1.543802 TGGCCCGTTGATAAGCAAAAG 59.456 47.619 0.00 0.00 38.44 2.27
821 838 1.710816 CAGCCTTTTGGTAAACCCCA 58.289 50.000 0.00 0.00 42.99 4.96
1443 1494 2.416432 CCGGGAGAAGTCGAGGGTC 61.416 68.421 0.00 0.00 0.00 4.46
1586 1637 4.767255 GCCACCTGGTGAGCGAGG 62.767 72.222 27.94 11.24 44.90 4.63
1798 1849 4.097361 GGAGAAGGGGCGGTCCAC 62.097 72.222 0.00 0.00 37.22 4.02
2304 2367 1.224592 GCCGGTGTCCATCATTCCT 59.775 57.895 1.90 0.00 0.00 3.36
2307 2370 2.824041 GCGCCGGTGTCCATCATT 60.824 61.111 17.91 0.00 0.00 2.57
2648 2718 4.778415 CCGCGGTGGAGACGAGTG 62.778 72.222 19.50 0.00 42.00 3.51
2679 2749 4.212913 GCCGCCAGCATCTCGAGA 62.213 66.667 19.19 19.19 42.97 4.04
3118 3209 4.530857 ACCGGCGATACCAGCAGC 62.531 66.667 9.30 0.00 39.03 5.25
3119 3210 2.586079 CACCGGCGATACCAGCAG 60.586 66.667 9.30 0.00 39.03 4.24
3120 3211 4.830765 GCACCGGCGATACCAGCA 62.831 66.667 9.30 0.00 39.03 4.41
3211 3302 2.872245 CCAAAAACTCTCACGCTGAAGA 59.128 45.455 0.00 0.00 0.00 2.87
3242 3338 4.928263 TCTCATCCTCTCAAGAGTCAAGA 58.072 43.478 6.30 1.66 40.48 3.02
3243 3339 5.418524 TCTTCTCATCCTCTCAAGAGTCAAG 59.581 44.000 6.30 0.00 40.48 3.02
3244 3340 5.328565 TCTTCTCATCCTCTCAAGAGTCAA 58.671 41.667 6.30 0.00 40.48 3.18
3245 3341 4.928263 TCTTCTCATCCTCTCAAGAGTCA 58.072 43.478 6.30 0.00 40.48 3.41
3246 3342 6.772716 ACTATCTTCTCATCCTCTCAAGAGTC 59.227 42.308 6.30 0.00 40.48 3.36
3247 3343 6.672593 ACTATCTTCTCATCCTCTCAAGAGT 58.327 40.000 6.30 0.00 40.48 3.24
3248 3344 6.207417 GGACTATCTTCTCATCCTCTCAAGAG 59.793 46.154 0.00 0.00 41.71 2.85
3250 3346 5.048782 CGGACTATCTTCTCATCCTCTCAAG 60.049 48.000 0.00 0.00 0.00 3.02
3251 3347 4.824537 CGGACTATCTTCTCATCCTCTCAA 59.175 45.833 0.00 0.00 0.00 3.02
3252 3348 4.103311 TCGGACTATCTTCTCATCCTCTCA 59.897 45.833 0.00 0.00 0.00 3.27
3253 3349 4.647611 TCGGACTATCTTCTCATCCTCTC 58.352 47.826 0.00 0.00 0.00 3.20
3254 3350 4.715534 TCGGACTATCTTCTCATCCTCT 57.284 45.455 0.00 0.00 0.00 3.69
3255 3351 5.975693 AATCGGACTATCTTCTCATCCTC 57.024 43.478 0.00 0.00 0.00 3.71
3256 3352 6.548321 ACTAATCGGACTATCTTCTCATCCT 58.452 40.000 0.00 0.00 0.00 3.24
3274 3370 3.071479 TCCAAAGCACCACGAACTAATC 58.929 45.455 0.00 0.00 0.00 1.75
3275 3371 3.134574 TCCAAAGCACCACGAACTAAT 57.865 42.857 0.00 0.00 0.00 1.73
3276 3372 2.623878 TCCAAAGCACCACGAACTAA 57.376 45.000 0.00 0.00 0.00 2.24
3277 3373 2.851263 ATCCAAAGCACCACGAACTA 57.149 45.000 0.00 0.00 0.00 2.24
3278 3374 2.851263 TATCCAAAGCACCACGAACT 57.149 45.000 0.00 0.00 0.00 3.01
3279 3375 3.006940 TGATATCCAAAGCACCACGAAC 58.993 45.455 0.00 0.00 0.00 3.95
3280 3376 3.006940 GTGATATCCAAAGCACCACGAA 58.993 45.455 0.00 0.00 0.00 3.85
3281 3377 2.627945 GTGATATCCAAAGCACCACGA 58.372 47.619 0.00 0.00 0.00 4.35
3296 3392 3.792401 ACGAAATGCCAAGATCGTGATA 58.208 40.909 10.47 0.00 45.77 2.15
3331 3427 9.341899 GCAACAAATATTTGACGATTTACTCTT 57.658 29.630 30.18 10.04 40.55 2.85
3332 3428 8.730680 AGCAACAAATATTTGACGATTTACTCT 58.269 29.630 30.18 11.19 40.55 3.24
3338 3434 9.988350 CTAACTAGCAACAAATATTTGACGATT 57.012 29.630 30.18 14.02 40.55 3.34
3350 3446 5.236478 GCAAGACAGACTAACTAGCAACAAA 59.764 40.000 0.00 0.00 0.00 2.83
3370 3467 5.443185 TTCAACTTCAATCTTGAGGCAAG 57.557 39.130 2.30 0.84 42.25 4.01
3404 3501 4.454161 CACATGTTTGATCCTTAACACGGA 59.546 41.667 0.00 0.00 37.11 4.69
3405 3502 4.722194 CACATGTTTGATCCTTAACACGG 58.278 43.478 0.00 6.10 37.11 4.94
3406 3503 4.083324 AGCACATGTTTGATCCTTAACACG 60.083 41.667 0.00 3.16 37.11 4.49
3407 3504 5.376854 AGCACATGTTTGATCCTTAACAC 57.623 39.130 0.00 0.00 37.11 3.32
3408 3505 7.392953 TCATTAGCACATGTTTGATCCTTAACA 59.607 33.333 0.00 7.37 38.50 2.41
3409 3506 7.698130 GTCATTAGCACATGTTTGATCCTTAAC 59.302 37.037 0.00 0.00 0.00 2.01
3410 3507 7.148086 GGTCATTAGCACATGTTTGATCCTTAA 60.148 37.037 0.00 0.00 0.00 1.85
3411 3508 6.318648 GGTCATTAGCACATGTTTGATCCTTA 59.681 38.462 0.00 0.00 0.00 2.69
3412 3509 5.126061 GGTCATTAGCACATGTTTGATCCTT 59.874 40.000 0.00 0.00 0.00 3.36
3413 3510 4.641989 GGTCATTAGCACATGTTTGATCCT 59.358 41.667 0.00 0.00 0.00 3.24
3414 3511 4.496341 CGGTCATTAGCACATGTTTGATCC 60.496 45.833 0.00 0.00 0.00 3.36
3415 3512 4.332543 TCGGTCATTAGCACATGTTTGATC 59.667 41.667 0.00 0.00 0.00 2.92
3416 3513 4.260985 TCGGTCATTAGCACATGTTTGAT 58.739 39.130 0.00 0.00 0.00 2.57
3417 3514 3.669536 TCGGTCATTAGCACATGTTTGA 58.330 40.909 0.00 0.00 0.00 2.69
3418 3515 4.083324 ACTTCGGTCATTAGCACATGTTTG 60.083 41.667 0.00 0.00 0.00 2.93
3419 3516 4.072131 ACTTCGGTCATTAGCACATGTTT 58.928 39.130 0.00 0.00 0.00 2.83
3420 3517 3.674997 ACTTCGGTCATTAGCACATGTT 58.325 40.909 0.00 0.00 0.00 2.71
3421 3518 3.262420 GACTTCGGTCATTAGCACATGT 58.738 45.455 0.00 0.00 43.91 3.21
3422 3519 3.933155 GACTTCGGTCATTAGCACATG 57.067 47.619 0.00 0.00 43.91 3.21
3433 3530 4.813296 ATTTGAGTTTGTGACTTCGGTC 57.187 40.909 0.00 0.00 44.66 4.79
3434 3531 6.687081 TTTATTTGAGTTTGTGACTTCGGT 57.313 33.333 0.00 0.00 39.19 4.69
3435 3532 9.329913 CTATTTTATTTGAGTTTGTGACTTCGG 57.670 33.333 0.00 0.00 39.19 4.30
3436 3533 9.878599 ACTATTTTATTTGAGTTTGTGACTTCG 57.121 29.630 0.00 0.00 39.19 3.79
3455 3552 9.730420 GGAACATGTTATTCGCATAACTATTTT 57.270 29.630 11.95 9.30 43.73 1.82
3456 3553 8.898761 TGGAACATGTTATTCGCATAACTATTT 58.101 29.630 11.95 8.28 43.73 1.40
3457 3554 8.445275 TGGAACATGTTATTCGCATAACTATT 57.555 30.769 11.95 9.54 43.73 1.73
3477 3574 1.685180 GGGCTCAAGGGGTTATGGAAC 60.685 57.143 0.00 0.00 34.56 3.62
3478 3575 0.629058 GGGCTCAAGGGGTTATGGAA 59.371 55.000 0.00 0.00 0.00 3.53
3479 3576 0.551377 TGGGCTCAAGGGGTTATGGA 60.551 55.000 0.00 0.00 0.00 3.41
3480 3577 0.395724 GTGGGCTCAAGGGGTTATGG 60.396 60.000 0.00 0.00 0.00 2.74
3481 3578 0.331278 TGTGGGCTCAAGGGGTTATG 59.669 55.000 0.00 0.00 0.00 1.90
3482 3579 0.625849 CTGTGGGCTCAAGGGGTTAT 59.374 55.000 0.00 0.00 0.00 1.89
3483 3580 2.074967 CTGTGGGCTCAAGGGGTTA 58.925 57.895 0.00 0.00 0.00 2.85
3484 3581 2.846532 CTGTGGGCTCAAGGGGTT 59.153 61.111 0.00 0.00 0.00 4.11
3485 3582 3.971702 GCTGTGGGCTCAAGGGGT 61.972 66.667 0.00 0.00 38.06 4.95
3495 3592 3.933048 CTTGGCCTCCAGCTGTGGG 62.933 68.421 20.19 17.84 45.11 4.61
3496 3593 2.207501 ATCTTGGCCTCCAGCTGTGG 62.208 60.000 13.81 15.15 46.63 4.17
3497 3594 0.323178 AATCTTGGCCTCCAGCTGTG 60.323 55.000 13.81 4.33 43.05 3.66
3498 3595 0.407139 AAATCTTGGCCTCCAGCTGT 59.593 50.000 13.81 0.00 43.05 4.40
3499 3596 1.203994 CAAAATCTTGGCCTCCAGCTG 59.796 52.381 6.78 6.78 43.05 4.24
3500 3597 1.203100 ACAAAATCTTGGCCTCCAGCT 60.203 47.619 3.32 0.00 43.05 4.24
3501 3598 1.260544 ACAAAATCTTGGCCTCCAGC 58.739 50.000 3.32 0.00 42.60 4.85
3502 3599 4.341366 AAAACAAAATCTTGGCCTCCAG 57.659 40.909 3.32 0.00 36.82 3.86
3503 3600 6.183361 ACAATAAAACAAAATCTTGGCCTCCA 60.183 34.615 3.32 0.00 36.82 3.86
3504 3601 6.230472 ACAATAAAACAAAATCTTGGCCTCC 58.770 36.000 3.32 0.00 36.82 4.30
3505 3602 8.872845 CATACAATAAAACAAAATCTTGGCCTC 58.127 33.333 3.32 0.00 36.82 4.70
3506 3603 8.592809 TCATACAATAAAACAAAATCTTGGCCT 58.407 29.630 3.32 0.00 36.82 5.19
3507 3604 8.770438 TCATACAATAAAACAAAATCTTGGCC 57.230 30.769 0.00 0.00 36.82 5.36
3514 3611 9.267084 GGTGGTGTTCATACAATAAAACAAAAT 57.733 29.630 0.00 0.00 35.69 1.82
3515 3612 7.435488 CGGTGGTGTTCATACAATAAAACAAAA 59.565 33.333 0.00 0.00 35.69 2.44
3516 3613 6.918569 CGGTGGTGTTCATACAATAAAACAAA 59.081 34.615 0.00 0.00 35.69 2.83
3517 3614 6.439599 CGGTGGTGTTCATACAATAAAACAA 58.560 36.000 0.00 0.00 35.69 2.83
3518 3615 5.048643 CCGGTGGTGTTCATACAATAAAACA 60.049 40.000 0.00 0.00 35.69 2.83
3519 3616 5.048573 ACCGGTGGTGTTCATACAATAAAAC 60.049 40.000 6.12 0.00 35.69 2.43
3520 3617 5.071370 ACCGGTGGTGTTCATACAATAAAA 58.929 37.500 6.12 0.00 35.69 1.52
3521 3618 4.653868 ACCGGTGGTGTTCATACAATAAA 58.346 39.130 6.12 0.00 35.69 1.40
3522 3619 4.289238 ACCGGTGGTGTTCATACAATAA 57.711 40.909 6.12 0.00 35.69 1.40
3523 3620 3.985019 ACCGGTGGTGTTCATACAATA 57.015 42.857 6.12 0.00 35.69 1.90
3524 3621 2.871096 ACCGGTGGTGTTCATACAAT 57.129 45.000 6.12 0.00 35.69 2.71
3525 3622 2.642154 AACCGGTGGTGTTCATACAA 57.358 45.000 8.52 0.00 35.34 2.41
3526 3623 2.289569 GGTAACCGGTGGTGTTCATACA 60.290 50.000 8.52 0.00 35.34 2.29
3527 3624 2.349590 GGTAACCGGTGGTGTTCATAC 58.650 52.381 8.52 3.76 35.34 2.39
3528 3625 1.067000 CGGTAACCGGTGGTGTTCATA 60.067 52.381 8.52 0.00 44.15 2.15
3529 3626 0.320946 CGGTAACCGGTGGTGTTCAT 60.321 55.000 8.52 0.00 44.15 2.57
3530 3627 1.069427 CGGTAACCGGTGGTGTTCA 59.931 57.895 8.52 0.00 44.15 3.18
3531 3628 3.955775 CGGTAACCGGTGGTGTTC 58.044 61.111 8.52 0.00 44.15 3.18
3541 3638 1.641123 CCGTGAACATGCCGGTAACC 61.641 60.000 1.90 0.00 37.00 2.85
3542 3639 1.791662 CCGTGAACATGCCGGTAAC 59.208 57.895 1.90 0.00 37.00 2.50
3543 3640 2.036006 GCCGTGAACATGCCGGTAA 61.036 57.895 1.90 0.00 43.56 2.85
3544 3641 2.435234 GCCGTGAACATGCCGGTA 60.435 61.111 1.90 0.00 43.56 4.02
3548 3645 4.759096 GTGCGCCGTGAACATGCC 62.759 66.667 4.18 0.00 0.00 4.40
3549 3646 3.326889 ATGTGCGCCGTGAACATGC 62.327 57.895 4.18 0.00 33.37 4.06
3550 3647 1.512522 CATGTGCGCCGTGAACATG 60.513 57.895 19.38 19.38 43.60 3.21
3551 3648 1.911293 GACATGTGCGCCGTGAACAT 61.911 55.000 20.38 13.42 34.92 2.71
3552 3649 2.590291 ACATGTGCGCCGTGAACA 60.590 55.556 20.38 11.79 34.01 3.18
3553 3650 2.173382 GACATGTGCGCCGTGAAC 59.827 61.111 20.38 6.49 34.01 3.18
3554 3651 3.047280 GGACATGTGCGCCGTGAA 61.047 61.111 20.38 0.00 34.01 3.18
3555 3652 3.932580 GAGGACATGTGCGCCGTGA 62.933 63.158 20.38 0.00 34.01 4.35
3556 3653 3.490759 GAGGACATGTGCGCCGTG 61.491 66.667 12.02 10.75 36.08 4.94
3557 3654 4.760047 GGAGGACATGTGCGCCGT 62.760 66.667 23.22 0.00 30.77 5.68
3558 3655 4.457496 AGGAGGACATGTGCGCCG 62.457 66.667 29.05 0.00 44.91 6.46
3559 3656 2.821366 CAGGAGGACATGTGCGCC 60.821 66.667 28.63 28.63 40.93 6.53
3560 3657 2.821366 CCAGGAGGACATGTGCGC 60.821 66.667 12.62 12.62 36.89 6.09
3561 3658 2.124983 CCCAGGAGGACATGTGCG 60.125 66.667 12.02 0.00 38.24 5.34
3562 3659 1.078143 GACCCAGGAGGACATGTGC 60.078 63.158 9.70 9.70 39.89 4.57
3563 3660 0.911525 AGGACCCAGGAGGACATGTG 60.912 60.000 1.15 0.00 39.89 3.21
3564 3661 0.911525 CAGGACCCAGGAGGACATGT 60.912 60.000 0.00 0.00 37.33 3.21
3565 3662 1.630126 CCAGGACCCAGGAGGACATG 61.630 65.000 0.00 0.00 41.02 3.21
3566 3663 1.307343 CCAGGACCCAGGAGGACAT 60.307 63.158 0.00 0.00 39.89 3.06
3567 3664 2.122729 CCAGGACCCAGGAGGACA 59.877 66.667 0.00 0.00 39.89 4.02
3568 3665 3.403558 GCCAGGACCCAGGAGGAC 61.404 72.222 4.77 0.00 39.89 3.85
3569 3666 4.741239 GGCCAGGACCCAGGAGGA 62.741 72.222 0.00 0.00 39.89 3.71
3571 3668 3.406200 CTGGCCAGGACCCAGGAG 61.406 72.222 26.14 0.00 44.87 3.69
3575 3672 4.284550 GTTGCTGGCCAGGACCCA 62.285 66.667 33.46 19.96 0.00 4.51
3576 3673 2.602676 TAGTTGCTGGCCAGGACCC 61.603 63.158 33.46 22.78 0.00 4.46
3577 3674 1.377333 GTAGTTGCTGGCCAGGACC 60.377 63.158 33.46 24.51 0.00 4.46
3578 3675 1.741770 CGTAGTTGCTGGCCAGGAC 60.742 63.158 33.46 23.51 0.00 3.85
3579 3676 2.662596 CGTAGTTGCTGGCCAGGA 59.337 61.111 33.46 29.53 0.00 3.86
3580 3677 3.127533 GCGTAGTTGCTGGCCAGG 61.128 66.667 33.46 16.16 0.00 4.45
3581 3678 3.127533 GGCGTAGTTGCTGGCCAG 61.128 66.667 29.34 29.34 44.91 4.85
3583 3680 2.046285 AATGGCGTAGTTGCTGGCC 61.046 57.895 0.00 0.00 45.76 5.36
3584 3681 1.137404 CAATGGCGTAGTTGCTGGC 59.863 57.895 0.00 0.00 34.52 4.85
3585 3682 1.137404 GCAATGGCGTAGTTGCTGG 59.863 57.895 11.67 0.00 45.41 4.85
3586 3683 4.771684 GCAATGGCGTAGTTGCTG 57.228 55.556 11.67 0.00 45.41 4.41
3589 3686 2.730928 CCTTTTTGCAATGGCGTAGTTG 59.269 45.455 0.00 0.00 45.35 3.16
3590 3687 2.288763 CCCTTTTTGCAATGGCGTAGTT 60.289 45.455 0.00 0.00 45.35 2.24
3591 3688 1.272212 CCCTTTTTGCAATGGCGTAGT 59.728 47.619 0.00 0.00 45.35 2.73
3592 3689 1.994916 CCCTTTTTGCAATGGCGTAG 58.005 50.000 0.00 0.00 45.35 3.51
3593 3690 0.037790 GCCCTTTTTGCAATGGCGTA 60.038 50.000 0.00 0.00 45.35 4.42
3594 3691 1.301637 GCCCTTTTTGCAATGGCGT 60.302 52.632 0.00 0.00 45.35 5.68
3595 3692 3.565050 GCCCTTTTTGCAATGGCG 58.435 55.556 0.00 0.00 45.35 5.69
3596 3693 0.391528 ATCGCCCTTTTTGCAATGGC 60.392 50.000 15.82 15.82 41.68 4.40
3597 3694 1.361793 CATCGCCCTTTTTGCAATGG 58.638 50.000 0.00 3.23 0.00 3.16
3598 3695 0.722848 GCATCGCCCTTTTTGCAATG 59.277 50.000 0.00 0.00 35.22 2.82
3599 3696 0.609662 AGCATCGCCCTTTTTGCAAT 59.390 45.000 0.00 0.00 37.56 3.56
3600 3697 1.202114 CTAGCATCGCCCTTTTTGCAA 59.798 47.619 0.00 0.00 37.56 4.08
3601 3698 0.810648 CTAGCATCGCCCTTTTTGCA 59.189 50.000 0.00 0.00 37.56 4.08
3602 3699 0.101219 CCTAGCATCGCCCTTTTTGC 59.899 55.000 0.00 0.00 35.34 3.68
3603 3700 0.101219 GCCTAGCATCGCCCTTTTTG 59.899 55.000 0.00 0.00 0.00 2.44
3604 3701 1.376609 CGCCTAGCATCGCCCTTTTT 61.377 55.000 0.00 0.00 0.00 1.94
3637 3734 1.302271 GGACCGGCCGAAACTTTCT 60.302 57.895 30.73 0.00 0.00 2.52
3722 3820 1.437986 CCGAGGTAGAAGAAGCCCG 59.562 63.158 0.00 0.00 0.00 6.13
3845 3943 1.152525 GGCGAGGATGGGGACTAGA 60.153 63.158 0.00 0.00 0.00 2.43
3903 4001 2.856032 TCGACGTCGACGAAGACC 59.144 61.111 41.52 22.36 44.22 3.85
3918 4016 1.135286 GCCAATCTGGGAAAAGCTTCG 60.135 52.381 0.00 0.00 38.19 3.79
4034 4132 4.742201 CTGGGTGGCTGTCGACGG 62.742 72.222 20.35 20.35 0.00 4.79
4037 4135 1.480212 ATTGACTGGGTGGCTGTCGA 61.480 55.000 0.00 0.00 33.81 4.20
4042 4140 0.478072 TGTTGATTGACTGGGTGGCT 59.522 50.000 0.00 0.00 0.00 4.75
4124 4224 3.573967 GAGGTTGAAGCTTTTCCATCCAA 59.426 43.478 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.