Multiple sequence alignment - TraesCS3B01G171400

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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 TraesCS3B01G171400 chr3B 100.000 4184 0 0 1 4184 172169610 172173793 0.000000e+00 7727.0
1 TraesCS3B01G171400 chr3B 98.973 3407 20 7 793 4184 172052028 172055434 0.000000e+00 6083.0
2 TraesCS3B01G171400 chr3B 94.928 2563 123 2 840 3395 173007895 173005333 0.000000e+00 4006.0
3 TraesCS3B01G171400 chr3B 91.968 2764 184 21 858 3595 146982498 146979747 0.000000e+00 3840.0
4 TraesCS3B01G171400 chr3B 91.420 2809 179 29 945 3704 172211849 172214644 0.000000e+00 3795.0
5 TraesCS3B01G171400 chr3B 82.768 383 32 17 3707 4080 173005394 173005037 1.130000e-80 311.0
6 TraesCS3B01G171400 chr3B 82.759 319 44 9 145 455 304315684 304315999 1.480000e-69 274.0
7 TraesCS3B01G171400 chr3B 84.249 273 23 9 3447 3704 172094933 172095200 8.980000e-62 248.0
8 TraesCS3B01G171400 chr3B 87.963 108 9 3 3704 3807 172172940 172173047 1.580000e-24 124.0
9 TraesCS3B01G171400 chr3B 87.850 107 9 3 3705 3807 172054582 172054688 5.680000e-24 122.0
10 TraesCS3B01G171400 chr3D 93.070 3391 200 18 120 3490 120141700 120145075 0.000000e+00 4927.0
11 TraesCS3B01G171400 chr3D 93.331 2609 152 15 840 3439 121342036 121339441 0.000000e+00 3834.0
12 TraesCS3B01G171400 chr3D 89.369 301 17 6 3425 3710 120134138 120134438 8.550000e-97 364.0
13 TraesCS3B01G171400 chr3D 84.790 309 37 10 149 455 554759028 554758728 6.800000e-78 302.0
14 TraesCS3B01G171400 chr3D 82.222 360 30 17 3704 4054 121339544 121339210 3.190000e-71 279.0
15 TraesCS3B01G171400 chr3D 89.773 88 8 1 3475 3561 120145087 120145174 1.230000e-20 111.0
16 TraesCS3B01G171400 chr1D 93.882 2599 142 10 840 3427 465903205 465900613 0.000000e+00 3903.0
17 TraesCS3B01G171400 chr1D 87.850 107 10 2 3704 3810 341027538 341027435 5.680000e-24 122.0
18 TraesCS3B01G171400 chr1B 93.697 2602 147 10 840 3430 642701544 642698949 0.000000e+00 3880.0
19 TraesCS3B01G171400 chr1B 87.143 280 32 4 1 277 567467432 567467154 8.730000e-82 315.0
20 TraesCS3B01G171400 chr1B 87.151 179 20 2 185 361 535692561 535692738 2.550000e-47 200.0
21 TraesCS3B01G171400 chr1B 83.019 212 17 10 3764 3971 456711583 456711387 1.550000e-39 174.0
22 TraesCS3B01G171400 chr6D 92.213 2748 173 24 715 3435 452128204 452125471 0.000000e+00 3851.0
23 TraesCS3B01G171400 chr6D 90.390 718 52 11 1 714 452131812 452131108 0.000000e+00 928.0
24 TraesCS3B01G171400 chr3A 93.244 2605 160 12 840 3438 127858988 127856394 0.000000e+00 3821.0
25 TraesCS3B01G171400 chr3A 95.851 482 13 4 3705 4184 127856496 127856020 0.000000e+00 773.0
26 TraesCS3B01G171400 chr3A 79.070 215 27 9 3704 3915 127073450 127073649 9.440000e-27 132.0
27 TraesCS3B01G171400 chr5B 91.676 2643 165 26 799 3429 507803125 507800526 0.000000e+00 3611.0
28 TraesCS3B01G171400 chr5B 88.776 98 7 4 3428 3522 507800496 507800400 2.640000e-22 117.0
29 TraesCS3B01G171400 chr7B 84.874 357 46 8 10 361 658118531 658118178 1.850000e-93 353.0
30 TraesCS3B01G171400 chr7B 86.581 313 29 10 149 455 88660588 88660283 2.410000e-87 333.0
31 TraesCS3B01G171400 chr4B 85.537 242 30 4 10 247 496218635 496218395 8.980000e-62 248.0
32 TraesCS3B01G171400 chr2B 82.353 272 32 12 145 401 61269026 61268756 5.440000e-54 222.0
33 TraesCS3B01G171400 chr2B 72.441 254 50 13 1 239 545828847 545828599 3.490000e-06 63.9
34 TraesCS3B01G171400 chr2B 92.683 41 3 0 1 41 545828800 545828760 4.520000e-05 60.2
35 TraesCS3B01G171400 chr1A 87.963 108 10 2 3703 3810 440712339 440712235 1.580000e-24 124.0
36 TraesCS3B01G171400 chr6A 77.600 125 22 5 2 123 598161065 598161186 2.090000e-08 71.3
37 TraesCS3B01G171400 chrUn 92.683 41 3 0 1 41 349160033 349159993 4.520000e-05 60.2
38 TraesCS3B01G171400 chr4A 92.683 41 3 0 1 41 674448645 674448605 4.520000e-05 60.2


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 TraesCS3B01G171400 chr3B 172169610 172173793 4183 False 3925.5 7727 93.9815 1 4184 2 chr3B.!!$F5 4183
1 TraesCS3B01G171400 chr3B 146979747 146982498 2751 True 3840.0 3840 91.9680 858 3595 1 chr3B.!!$R1 2737
2 TraesCS3B01G171400 chr3B 172211849 172214644 2795 False 3795.0 3795 91.4200 945 3704 1 chr3B.!!$F2 2759
3 TraesCS3B01G171400 chr3B 172052028 172055434 3406 False 3102.5 6083 93.4115 793 4184 2 chr3B.!!$F4 3391
4 TraesCS3B01G171400 chr3B 173005037 173007895 2858 True 2158.5 4006 88.8480 840 4080 2 chr3B.!!$R2 3240
5 TraesCS3B01G171400 chr3D 120141700 120145174 3474 False 2519.0 4927 91.4215 120 3561 2 chr3D.!!$F2 3441
6 TraesCS3B01G171400 chr3D 121339210 121342036 2826 True 2056.5 3834 87.7765 840 4054 2 chr3D.!!$R2 3214
7 TraesCS3B01G171400 chr1D 465900613 465903205 2592 True 3903.0 3903 93.8820 840 3427 1 chr1D.!!$R2 2587
8 TraesCS3B01G171400 chr1B 642698949 642701544 2595 True 3880.0 3880 93.6970 840 3430 1 chr1B.!!$R3 2590
9 TraesCS3B01G171400 chr6D 452125471 452131812 6341 True 2389.5 3851 91.3015 1 3435 2 chr6D.!!$R1 3434
10 TraesCS3B01G171400 chr3A 127856020 127858988 2968 True 2297.0 3821 94.5475 840 4184 2 chr3A.!!$R1 3344
11 TraesCS3B01G171400 chr5B 507800400 507803125 2725 True 1864.0 3611 90.2260 799 3522 2 chr5B.!!$R1 2723

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
46 47 2.851263 AACACATTAGACTCCCGCAA 57.149 45.000 0.00 0.0 0.0 4.85 F
68 69 7.438160 CGCAATTGAAGTACTATATTCCACTCA 59.562 37.037 10.34 0.0 0.0 3.41 F
1148 4127 0.390340 GACATCGTGCTGCTCAAGGA 60.390 55.000 0.00 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1148 4127 3.134792 TGTTGTGGCGGCGTTTGT 61.135 55.556 9.37 0.0 0.0 2.83 R
2035 5014 4.521062 CCTCCCGAAGCGCCTCAG 62.521 72.222 2.29 0.0 0.0 3.35 R
3467 6524 9.249457 CATCAACTGTATTTCTATGACGTATGT 57.751 33.333 0.00 0.0 0.0 2.29 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
43 44 4.566004 TCAGAAAACACATTAGACTCCCG 58.434 43.478 0.00 0.00 0.00 5.14
46 47 2.851263 AACACATTAGACTCCCGCAA 57.149 45.000 0.00 0.00 0.00 4.85
68 69 7.438160 CGCAATTGAAGTACTATATTCCACTCA 59.562 37.037 10.34 0.00 0.00 3.41
234 237 7.572759 GTGATTTCACTCGTTACAAAAGATCA 58.427 34.615 3.45 0.00 43.25 2.92
235 238 8.067784 GTGATTTCACTCGTTACAAAAGATCAA 58.932 33.333 3.45 0.00 43.25 2.57
236 239 8.783093 TGATTTCACTCGTTACAAAAGATCAAT 58.217 29.630 0.00 0.00 0.00 2.57
237 240 9.612620 GATTTCACTCGTTACAAAAGATCAATT 57.387 29.630 0.00 0.00 0.00 2.32
238 241 9.965824 ATTTCACTCGTTACAAAAGATCAATTT 57.034 25.926 0.00 0.00 0.00 1.82
239 242 9.445786 TTTCACTCGTTACAAAAGATCAATTTC 57.554 29.630 0.00 0.00 0.00 2.17
240 243 8.148807 TCACTCGTTACAAAAGATCAATTTCA 57.851 30.769 0.00 0.00 0.00 2.69
241 244 8.067784 TCACTCGTTACAAAAGATCAATTTCAC 58.932 33.333 0.00 0.00 0.00 3.18
242 245 8.070171 CACTCGTTACAAAAGATCAATTTCACT 58.930 33.333 0.00 0.00 0.00 3.41
243 246 8.283291 ACTCGTTACAAAAGATCAATTTCACTC 58.717 33.333 0.00 0.00 0.00 3.51
483 505 9.454859 AGGACCTAATTTCACTCATTTAAAGAG 57.545 33.333 0.00 11.03 39.04 2.85
516 538 9.601971 TTGTTTAAATAAGCTCGTATGTTTGAC 57.398 29.630 0.00 0.00 0.00 3.18
530 552 9.909043 TCGTATGTTTGACATATAAATGAAACG 57.091 29.630 4.29 3.33 42.39 3.60
1148 4127 0.390340 GACATCGTGCTGCTCAAGGA 60.390 55.000 0.00 0.00 0.00 3.36
1671 4650 2.545742 GCTTTTCAAGTCCATTGGCGTT 60.546 45.455 0.00 0.00 39.54 4.84
2035 5014 3.628646 AACAGCATCGACCCTGCCC 62.629 63.158 12.61 0.00 40.56 5.36
3493 6550 9.249457 ACATACGTCATAGAAATACAGTTGATG 57.751 33.333 0.00 0.00 0.00 3.07
3494 6551 9.463443 CATACGTCATAGAAATACAGTTGATGA 57.537 33.333 0.00 0.00 0.00 2.92
3496 6553 8.771920 ACGTCATAGAAATACAGTTGATGAAA 57.228 30.769 0.00 0.00 0.00 2.69
3497 6554 9.383519 ACGTCATAGAAATACAGTTGATGAAAT 57.616 29.630 0.00 0.00 0.00 2.17
3510 6567 8.462016 ACAGTTGATGAAATAATAACTCCTTGC 58.538 33.333 0.00 0.00 29.78 4.01
3511 6568 8.680903 CAGTTGATGAAATAATAACTCCTTGCT 58.319 33.333 0.00 0.00 29.78 3.91
3512 6569 8.680903 AGTTGATGAAATAATAACTCCTTGCTG 58.319 33.333 0.00 0.00 0.00 4.41
3513 6570 8.462016 GTTGATGAAATAATAACTCCTTGCTGT 58.538 33.333 0.00 0.00 0.00 4.40
3514 6571 7.988737 TGATGAAATAATAACTCCTTGCTGTG 58.011 34.615 0.00 0.00 0.00 3.66
3515 6572 6.194796 TGAAATAATAACTCCTTGCTGTGC 57.805 37.500 0.00 0.00 0.00 4.57
3516 6573 5.945784 TGAAATAATAACTCCTTGCTGTGCT 59.054 36.000 0.00 0.00 0.00 4.40
3517 6574 6.434028 TGAAATAATAACTCCTTGCTGTGCTT 59.566 34.615 0.00 0.00 0.00 3.91
3518 6575 6.840780 AATAATAACTCCTTGCTGTGCTTT 57.159 33.333 0.00 0.00 0.00 3.51
3519 6576 4.773323 AATAACTCCTTGCTGTGCTTTC 57.227 40.909 0.00 0.00 0.00 2.62
3520 6577 1.322442 AACTCCTTGCTGTGCTTTCC 58.678 50.000 0.00 0.00 0.00 3.13
3521 6578 0.475906 ACTCCTTGCTGTGCTTTCCT 59.524 50.000 0.00 0.00 0.00 3.36
3522 6579 1.163554 CTCCTTGCTGTGCTTTCCTC 58.836 55.000 0.00 0.00 0.00 3.71
3523 6580 0.767375 TCCTTGCTGTGCTTTCCTCT 59.233 50.000 0.00 0.00 0.00 3.69
3524 6581 1.143684 TCCTTGCTGTGCTTTCCTCTT 59.856 47.619 0.00 0.00 0.00 2.85
3525 6582 2.371841 TCCTTGCTGTGCTTTCCTCTTA 59.628 45.455 0.00 0.00 0.00 2.10
3526 6583 3.009473 TCCTTGCTGTGCTTTCCTCTTAT 59.991 43.478 0.00 0.00 0.00 1.73
3527 6584 3.760684 CCTTGCTGTGCTTTCCTCTTATT 59.239 43.478 0.00 0.00 0.00 1.40
3528 6585 4.219288 CCTTGCTGTGCTTTCCTCTTATTT 59.781 41.667 0.00 0.00 0.00 1.40
3529 6586 4.771590 TGCTGTGCTTTCCTCTTATTTG 57.228 40.909 0.00 0.00 0.00 2.32
3530 6587 4.144297 TGCTGTGCTTTCCTCTTATTTGT 58.856 39.130 0.00 0.00 0.00 2.83
3531 6588 5.312895 TGCTGTGCTTTCCTCTTATTTGTA 58.687 37.500 0.00 0.00 0.00 2.41
3532 6589 5.412594 TGCTGTGCTTTCCTCTTATTTGTAG 59.587 40.000 0.00 0.00 0.00 2.74
3533 6590 5.163713 GCTGTGCTTTCCTCTTATTTGTAGG 60.164 44.000 0.00 0.00 0.00 3.18
3534 6591 4.700213 TGTGCTTTCCTCTTATTTGTAGGC 59.300 41.667 0.00 0.00 0.00 3.93
3535 6592 4.700213 GTGCTTTCCTCTTATTTGTAGGCA 59.300 41.667 0.00 0.00 0.00 4.75
3536 6593 4.943705 TGCTTTCCTCTTATTTGTAGGCAG 59.056 41.667 0.00 0.00 0.00 4.85
3537 6594 4.944317 GCTTTCCTCTTATTTGTAGGCAGT 59.056 41.667 0.00 0.00 0.00 4.40
3538 6595 5.163713 GCTTTCCTCTTATTTGTAGGCAGTG 60.164 44.000 0.00 0.00 0.00 3.66
3539 6596 5.755409 TTCCTCTTATTTGTAGGCAGTGA 57.245 39.130 0.00 0.00 0.00 3.41
3540 6597 5.957771 TCCTCTTATTTGTAGGCAGTGAT 57.042 39.130 0.00 0.00 0.00 3.06
3541 6598 5.674525 TCCTCTTATTTGTAGGCAGTGATG 58.325 41.667 0.00 0.00 0.00 3.07
3542 6599 5.425217 TCCTCTTATTTGTAGGCAGTGATGA 59.575 40.000 0.00 0.00 0.00 2.92
3543 6600 5.757320 CCTCTTATTTGTAGGCAGTGATGAG 59.243 44.000 0.00 0.00 0.00 2.90
3544 6601 6.407412 CCTCTTATTTGTAGGCAGTGATGAGA 60.407 42.308 0.00 0.00 0.00 3.27
3545 6602 7.129457 TCTTATTTGTAGGCAGTGATGAGAT 57.871 36.000 0.00 0.00 0.00 2.75
3546 6603 7.568349 TCTTATTTGTAGGCAGTGATGAGATT 58.432 34.615 0.00 0.00 0.00 2.40
3547 6604 7.712639 TCTTATTTGTAGGCAGTGATGAGATTC 59.287 37.037 0.00 0.00 0.00 2.52
3548 6605 5.426689 TTTGTAGGCAGTGATGAGATTCT 57.573 39.130 0.00 0.00 0.00 2.40
3549 6606 4.397481 TGTAGGCAGTGATGAGATTCTG 57.603 45.455 0.00 0.00 0.00 3.02
3550 6607 4.026052 TGTAGGCAGTGATGAGATTCTGA 58.974 43.478 0.00 0.00 0.00 3.27
3551 6608 4.467438 TGTAGGCAGTGATGAGATTCTGAA 59.533 41.667 0.00 0.00 0.00 3.02
3552 6609 4.564782 AGGCAGTGATGAGATTCTGAAA 57.435 40.909 0.00 0.00 0.00 2.69
3553 6610 4.914983 AGGCAGTGATGAGATTCTGAAAA 58.085 39.130 0.00 0.00 0.00 2.29
3554 6611 4.699257 AGGCAGTGATGAGATTCTGAAAAC 59.301 41.667 0.00 0.00 0.00 2.43
3555 6612 4.699257 GGCAGTGATGAGATTCTGAAAACT 59.301 41.667 0.00 0.00 0.00 2.66
3556 6613 5.877012 GGCAGTGATGAGATTCTGAAAACTA 59.123 40.000 0.00 0.00 0.00 2.24
3557 6614 6.036953 GGCAGTGATGAGATTCTGAAAACTAG 59.963 42.308 0.00 0.00 0.00 2.57
3558 6615 6.456718 GCAGTGATGAGATTCTGAAAACTAGC 60.457 42.308 0.00 0.00 0.00 3.42
3559 6616 6.036953 CAGTGATGAGATTCTGAAAACTAGCC 59.963 42.308 0.00 0.00 0.00 3.93
3560 6617 6.070309 AGTGATGAGATTCTGAAAACTAGCCT 60.070 38.462 0.00 0.00 0.00 4.58
3561 6618 7.124901 AGTGATGAGATTCTGAAAACTAGCCTA 59.875 37.037 0.00 0.00 0.00 3.93
3562 6619 7.766278 GTGATGAGATTCTGAAAACTAGCCTAA 59.234 37.037 0.00 0.00 0.00 2.69
3563 6620 7.766278 TGATGAGATTCTGAAAACTAGCCTAAC 59.234 37.037 0.00 0.00 0.00 2.34
3564 6621 6.407202 TGAGATTCTGAAAACTAGCCTAACC 58.593 40.000 0.00 0.00 0.00 2.85
3565 6622 5.420409 AGATTCTGAAAACTAGCCTAACCG 58.580 41.667 0.00 0.00 0.00 4.44
3566 6623 4.612264 TTCTGAAAACTAGCCTAACCGT 57.388 40.909 0.00 0.00 0.00 4.83
3567 6624 4.612264 TCTGAAAACTAGCCTAACCGTT 57.388 40.909 0.00 0.00 0.00 4.44
3568 6625 5.726980 TCTGAAAACTAGCCTAACCGTTA 57.273 39.130 0.00 0.00 0.00 3.18
3569 6626 6.100404 TCTGAAAACTAGCCTAACCGTTAA 57.900 37.500 0.00 0.00 0.00 2.01
3570 6627 5.928264 TCTGAAAACTAGCCTAACCGTTAAC 59.072 40.000 0.00 0.00 0.00 2.01
3571 6628 5.857268 TGAAAACTAGCCTAACCGTTAACT 58.143 37.500 3.71 0.00 0.00 2.24
3572 6629 5.697633 TGAAAACTAGCCTAACCGTTAACTG 59.302 40.000 3.71 0.00 0.00 3.16
3573 6630 5.473066 AAACTAGCCTAACCGTTAACTGA 57.527 39.130 3.84 0.00 0.00 3.41
3574 6631 5.473066 AACTAGCCTAACCGTTAACTGAA 57.527 39.130 3.84 0.00 0.00 3.02
3575 6632 4.814147 ACTAGCCTAACCGTTAACTGAAC 58.186 43.478 3.84 0.00 34.41 3.18
3576 6633 3.049708 AGCCTAACCGTTAACTGAACC 57.950 47.619 3.84 0.00 34.21 3.62
3577 6634 2.079158 GCCTAACCGTTAACTGAACCC 58.921 52.381 3.84 0.00 34.21 4.11
3578 6635 2.289882 GCCTAACCGTTAACTGAACCCT 60.290 50.000 3.84 0.00 34.21 4.34
3579 6636 3.593096 CCTAACCGTTAACTGAACCCTC 58.407 50.000 3.84 0.00 34.21 4.30
3580 6637 3.007182 CCTAACCGTTAACTGAACCCTCA 59.993 47.826 3.84 0.00 34.21 3.86
3581 6638 3.564053 AACCGTTAACTGAACCCTCAA 57.436 42.857 3.84 0.00 34.21 3.02
3582 6639 3.782656 ACCGTTAACTGAACCCTCAAT 57.217 42.857 3.84 0.00 34.21 2.57
3583 6640 4.094830 ACCGTTAACTGAACCCTCAATT 57.905 40.909 3.84 0.00 34.21 2.32
3584 6641 5.231702 ACCGTTAACTGAACCCTCAATTA 57.768 39.130 3.84 0.00 34.21 1.40
3585 6642 4.999311 ACCGTTAACTGAACCCTCAATTAC 59.001 41.667 3.84 0.00 34.21 1.89
3586 6643 4.998672 CCGTTAACTGAACCCTCAATTACA 59.001 41.667 3.71 0.00 34.21 2.41
3587 6644 5.106830 CCGTTAACTGAACCCTCAATTACAC 60.107 44.000 3.71 0.00 34.21 2.90
3588 6645 5.389098 CGTTAACTGAACCCTCAATTACACG 60.389 44.000 3.71 0.00 34.21 4.49
3589 6646 4.345859 AACTGAACCCTCAATTACACGA 57.654 40.909 0.00 0.00 0.00 4.35
3590 6647 4.345859 ACTGAACCCTCAATTACACGAA 57.654 40.909 0.00 0.00 0.00 3.85
3591 6648 4.710324 ACTGAACCCTCAATTACACGAAA 58.290 39.130 0.00 0.00 0.00 3.46
3592 6649 4.514066 ACTGAACCCTCAATTACACGAAAC 59.486 41.667 0.00 0.00 0.00 2.78
3593 6650 4.710324 TGAACCCTCAATTACACGAAACT 58.290 39.130 0.00 0.00 0.00 2.66
3594 6651 5.856156 TGAACCCTCAATTACACGAAACTA 58.144 37.500 0.00 0.00 0.00 2.24
3595 6652 5.697633 TGAACCCTCAATTACACGAAACTAC 59.302 40.000 0.00 0.00 0.00 2.73
3596 6653 4.572909 ACCCTCAATTACACGAAACTACC 58.427 43.478 0.00 0.00 0.00 3.18
3597 6654 4.040706 ACCCTCAATTACACGAAACTACCA 59.959 41.667 0.00 0.00 0.00 3.25
3598 6655 5.183228 CCCTCAATTACACGAAACTACCAT 58.817 41.667 0.00 0.00 0.00 3.55
3599 6656 5.293569 CCCTCAATTACACGAAACTACCATC 59.706 44.000 0.00 0.00 0.00 3.51
3600 6657 5.005394 CCTCAATTACACGAAACTACCATCG 59.995 44.000 0.00 0.00 44.33 3.84
3608 6665 4.358494 CGAAACTACCATCGTTCTCTCT 57.642 45.455 0.00 0.00 34.48 3.10
3609 6666 4.099120 CGAAACTACCATCGTTCTCTCTG 58.901 47.826 0.00 0.00 34.48 3.35
3610 6667 3.512033 AACTACCATCGTTCTCTCTGC 57.488 47.619 0.00 0.00 0.00 4.26
3611 6668 2.729194 ACTACCATCGTTCTCTCTGCT 58.271 47.619 0.00 0.00 0.00 4.24
3612 6669 2.685897 ACTACCATCGTTCTCTCTGCTC 59.314 50.000 0.00 0.00 0.00 4.26
3613 6670 0.820871 ACCATCGTTCTCTCTGCTCC 59.179 55.000 0.00 0.00 0.00 4.70
3614 6671 1.110442 CCATCGTTCTCTCTGCTCCT 58.890 55.000 0.00 0.00 0.00 3.69
3615 6672 1.202394 CCATCGTTCTCTCTGCTCCTG 60.202 57.143 0.00 0.00 0.00 3.86
3616 6673 0.459489 ATCGTTCTCTCTGCTCCTGC 59.541 55.000 0.00 0.00 40.20 4.85
3618 6675 0.735632 CGTTCTCTCTGCTCCTGCAC 60.736 60.000 0.00 0.00 45.31 4.57
3619 6676 0.319728 GTTCTCTCTGCTCCTGCACA 59.680 55.000 0.00 0.00 45.31 4.57
3620 6677 1.051008 TTCTCTCTGCTCCTGCACAA 58.949 50.000 0.00 0.00 45.31 3.33
3621 6678 0.607112 TCTCTCTGCTCCTGCACAAG 59.393 55.000 0.00 0.00 45.31 3.16
3623 6680 2.033141 TCTGCTCCTGCACAAGGC 59.967 61.111 0.00 0.00 46.92 4.35
3624 6681 3.060615 CTGCTCCTGCACAAGGCC 61.061 66.667 0.00 0.00 46.92 5.19
3625 6682 3.855503 CTGCTCCTGCACAAGGCCA 62.856 63.158 5.01 0.00 46.92 5.36
3626 6683 3.368571 GCTCCTGCACAAGGCCAC 61.369 66.667 5.01 0.00 46.92 5.01
3627 6684 2.113774 CTCCTGCACAAGGCCACA 59.886 61.111 5.01 0.00 46.92 4.17
3628 6685 1.970114 CTCCTGCACAAGGCCACAG 60.970 63.158 5.01 4.06 46.92 3.66
3629 6686 2.113774 CCTGCACAAGGCCACAGA 59.886 61.111 5.01 0.00 43.89 3.41
3630 6687 1.529010 CCTGCACAAGGCCACAGAA 60.529 57.895 5.01 0.00 43.89 3.02
3631 6688 1.108727 CCTGCACAAGGCCACAGAAA 61.109 55.000 5.01 0.00 43.89 2.52
3632 6689 0.746063 CTGCACAAGGCCACAGAAAA 59.254 50.000 5.01 0.00 43.89 2.29
3633 6690 1.136695 CTGCACAAGGCCACAGAAAAA 59.863 47.619 5.01 0.00 43.89 1.94
3658 6715 9.806448 AAATTAAAAATGGGAAAATAGTTGCCT 57.194 25.926 0.00 0.00 32.08 4.75
3659 6716 8.791327 ATTAAAAATGGGAAAATAGTTGCCTG 57.209 30.769 0.00 0.00 32.08 4.85
3660 6717 6.432403 AAAAATGGGAAAATAGTTGCCTGA 57.568 33.333 0.00 0.00 32.08 3.86
3661 6718 6.625532 AAAATGGGAAAATAGTTGCCTGAT 57.374 33.333 0.00 0.00 32.08 2.90
3662 6719 6.625532 AAATGGGAAAATAGTTGCCTGATT 57.374 33.333 0.00 0.00 32.08 2.57
3663 6720 7.732222 AAATGGGAAAATAGTTGCCTGATTA 57.268 32.000 0.00 0.00 32.08 1.75
3664 6721 7.732222 AATGGGAAAATAGTTGCCTGATTAA 57.268 32.000 0.00 0.00 32.08 1.40
3665 6722 7.919385 ATGGGAAAATAGTTGCCTGATTAAT 57.081 32.000 0.00 0.00 32.08 1.40
3666 6723 7.111247 TGGGAAAATAGTTGCCTGATTAATG 57.889 36.000 0.00 0.00 32.08 1.90
3667 6724 6.667414 TGGGAAAATAGTTGCCTGATTAATGT 59.333 34.615 0.00 0.00 32.08 2.71
3668 6725 7.147915 TGGGAAAATAGTTGCCTGATTAATGTC 60.148 37.037 0.00 0.00 32.08 3.06
3669 6726 7.203218 GGAAAATAGTTGCCTGATTAATGTCC 58.797 38.462 0.00 0.00 28.12 4.02
3670 6727 6.377327 AAATAGTTGCCTGATTAATGTCCG 57.623 37.500 0.00 0.00 0.00 4.79
3671 6728 3.627395 AGTTGCCTGATTAATGTCCGA 57.373 42.857 0.00 0.00 0.00 4.55
3672 6729 4.156455 AGTTGCCTGATTAATGTCCGAT 57.844 40.909 0.00 0.00 0.00 4.18
3673 6730 4.526970 AGTTGCCTGATTAATGTCCGATT 58.473 39.130 0.00 0.00 0.00 3.34
3674 6731 5.680619 AGTTGCCTGATTAATGTCCGATTA 58.319 37.500 0.00 0.00 0.00 1.75
3675 6732 6.119536 AGTTGCCTGATTAATGTCCGATTAA 58.880 36.000 0.00 0.00 0.00 1.40
3676 6733 6.772716 AGTTGCCTGATTAATGTCCGATTAAT 59.227 34.615 0.00 0.00 37.03 1.40
3677 6734 7.285401 AGTTGCCTGATTAATGTCCGATTAATT 59.715 33.333 0.00 0.00 35.16 1.40
3678 6735 7.581213 TGCCTGATTAATGTCCGATTAATTT 57.419 32.000 0.00 0.00 35.16 1.82
3679 6736 8.006298 TGCCTGATTAATGTCCGATTAATTTT 57.994 30.769 0.00 0.00 35.16 1.82
3680 6737 7.920151 TGCCTGATTAATGTCCGATTAATTTTG 59.080 33.333 0.00 0.00 35.16 2.44
3681 6738 8.134895 GCCTGATTAATGTCCGATTAATTTTGA 58.865 33.333 0.00 0.00 35.16 2.69
3689 6746 9.927668 AATGTCCGATTAATTTTGAATTGAACT 57.072 25.926 0.00 0.00 0.00 3.01
3690 6747 9.927668 ATGTCCGATTAATTTTGAATTGAACTT 57.072 25.926 0.00 0.00 0.00 2.66
3691 6748 9.190858 TGTCCGATTAATTTTGAATTGAACTTG 57.809 29.630 0.00 0.00 0.00 3.16
3692 6749 9.191995 GTCCGATTAATTTTGAATTGAACTTGT 57.808 29.630 0.00 0.00 0.00 3.16
3710 6767 3.751479 TGTAAGAACAAGAGCAGCTGA 57.249 42.857 20.43 0.00 30.91 4.26
3711 6768 4.277515 TGTAAGAACAAGAGCAGCTGAT 57.722 40.909 20.43 12.64 30.91 2.90
3712 6769 3.999001 TGTAAGAACAAGAGCAGCTGATG 59.001 43.478 20.43 12.43 30.91 3.07
3713 6770 3.413846 AAGAACAAGAGCAGCTGATGA 57.586 42.857 20.43 0.00 0.00 2.92
3714 6771 2.975266 AGAACAAGAGCAGCTGATGAG 58.025 47.619 20.43 5.57 0.00 2.90
3715 6772 2.008329 GAACAAGAGCAGCTGATGAGG 58.992 52.381 20.43 4.75 0.00 3.86
3716 6773 1.273759 ACAAGAGCAGCTGATGAGGA 58.726 50.000 20.43 0.00 0.00 3.71
3717 6774 1.838715 ACAAGAGCAGCTGATGAGGAT 59.161 47.619 20.43 0.00 0.00 3.24
3718 6775 2.214347 CAAGAGCAGCTGATGAGGATG 58.786 52.381 20.43 1.17 0.00 3.51
3719 6776 1.790818 AGAGCAGCTGATGAGGATGA 58.209 50.000 20.43 0.00 0.00 2.92
3720 6777 2.117051 AGAGCAGCTGATGAGGATGAA 58.883 47.619 20.43 0.00 0.00 2.57
3721 6778 2.103432 AGAGCAGCTGATGAGGATGAAG 59.897 50.000 20.43 0.00 0.00 3.02
3722 6779 2.102757 GAGCAGCTGATGAGGATGAAGA 59.897 50.000 20.43 0.00 0.00 2.87
3723 6780 2.158928 AGCAGCTGATGAGGATGAAGAC 60.159 50.000 20.43 0.00 0.00 3.01
3724 6781 2.471818 CAGCTGATGAGGATGAAGACG 58.528 52.381 8.42 0.00 0.00 4.18
3725 6782 2.100418 CAGCTGATGAGGATGAAGACGA 59.900 50.000 8.42 0.00 0.00 4.20
3726 6783 2.964464 AGCTGATGAGGATGAAGACGAT 59.036 45.455 0.00 0.00 0.00 3.73
3727 6784 3.005684 AGCTGATGAGGATGAAGACGATC 59.994 47.826 0.00 0.00 0.00 3.69
3728 6785 3.005684 GCTGATGAGGATGAAGACGATCT 59.994 47.826 0.00 0.00 0.00 2.75
3729 6786 4.548494 CTGATGAGGATGAAGACGATCTG 58.452 47.826 0.00 0.00 0.00 2.90
3730 6787 3.956848 TGATGAGGATGAAGACGATCTGT 59.043 43.478 0.00 0.00 0.00 3.41
3731 6788 5.133221 TGATGAGGATGAAGACGATCTGTA 58.867 41.667 0.00 0.00 0.00 2.74
3732 6789 4.902443 TGAGGATGAAGACGATCTGTAC 57.098 45.455 0.00 0.00 0.00 2.90
3733 6790 4.270008 TGAGGATGAAGACGATCTGTACA 58.730 43.478 0.00 0.00 0.00 2.90
3734 6791 4.705023 TGAGGATGAAGACGATCTGTACAA 59.295 41.667 0.00 0.00 0.00 2.41
3735 6792 5.163612 TGAGGATGAAGACGATCTGTACAAG 60.164 44.000 0.00 0.00 0.00 3.16
3736 6793 4.707448 AGGATGAAGACGATCTGTACAAGT 59.293 41.667 0.00 0.00 0.00 3.16
3737 6794 4.800993 GGATGAAGACGATCTGTACAAGTG 59.199 45.833 0.00 0.00 0.00 3.16
3738 6795 5.393135 GGATGAAGACGATCTGTACAAGTGA 60.393 44.000 0.00 0.00 0.00 3.41
3739 6796 5.644977 TGAAGACGATCTGTACAAGTGAT 57.355 39.130 0.00 0.00 0.00 3.06
3740 6797 5.641709 TGAAGACGATCTGTACAAGTGATC 58.358 41.667 11.68 11.68 34.81 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 9.467258 TGTTTTCTGAAATGAGTGAAATCATTC 57.533 29.630 6.46 0.00 46.64 2.67
43 44 8.662781 TGAGTGGAATATAGTACTTCAATTGC 57.337 34.615 0.00 5.03 0.00 3.56
257 278 8.962884 ATATTGTGAGTGCAATGTGTATTCTA 57.037 30.769 0.00 0.00 39.20 2.10
262 283 6.876257 TGTGTATATTGTGAGTGCAATGTGTA 59.124 34.615 0.00 0.00 39.20 2.90
382 403 8.647143 TTTCAAATGAGTGAAATCAGTTTTCC 57.353 30.769 2.15 0.00 41.45 3.13
420 442 7.375106 AGCATGTCTTCTCAAATGAAACTAG 57.625 36.000 0.00 0.00 0.00 2.57
505 527 9.153952 CCGTTTCATTTATATGTCAAACATACG 57.846 33.333 2.08 1.68 43.13 3.06
516 538 8.854979 TCAAGCATTTCCGTTTCATTTATATG 57.145 30.769 0.00 0.00 0.00 1.78
530 552 6.421377 AGTTGTTTTTGTTCAAGCATTTCC 57.579 33.333 0.00 0.00 0.00 3.13
532 554 7.041508 TGTGAAGTTGTTTTTGTTCAAGCATTT 60.042 29.630 0.00 0.00 30.94 2.32
719 3647 4.063967 CGGCCACTGCGTCCTACA 62.064 66.667 2.24 0.00 38.85 2.74
958 3921 0.322975 ATGGACTTGCTGCGTCTCTT 59.677 50.000 7.45 0.00 0.00 2.85
1148 4127 3.134792 TGTTGTGGCGGCGTTTGT 61.135 55.556 9.37 0.00 0.00 2.83
2035 5014 4.521062 CCTCCCGAAGCGCCTCAG 62.521 72.222 2.29 0.00 0.00 3.35
3467 6524 9.249457 CATCAACTGTATTTCTATGACGTATGT 57.751 33.333 0.00 0.00 0.00 2.29
3468 6525 9.463443 TCATCAACTGTATTTCTATGACGTATG 57.537 33.333 0.00 0.00 0.00 2.39
3470 6527 9.863845 TTTCATCAACTGTATTTCTATGACGTA 57.136 29.630 0.00 0.00 0.00 3.57
3471 6528 8.771920 TTTCATCAACTGTATTTCTATGACGT 57.228 30.769 0.00 0.00 0.00 4.34
3484 6541 8.462016 GCAAGGAGTTATTATTTCATCAACTGT 58.538 33.333 0.00 0.00 29.89 3.55
3485 6542 8.680903 AGCAAGGAGTTATTATTTCATCAACTG 58.319 33.333 0.00 0.00 29.89 3.16
3486 6543 8.680903 CAGCAAGGAGTTATTATTTCATCAACT 58.319 33.333 0.00 0.00 32.33 3.16
3487 6544 8.462016 ACAGCAAGGAGTTATTATTTCATCAAC 58.538 33.333 0.00 0.00 0.00 3.18
3488 6545 8.461222 CACAGCAAGGAGTTATTATTTCATCAA 58.539 33.333 0.00 0.00 0.00 2.57
3489 6546 7.415541 GCACAGCAAGGAGTTATTATTTCATCA 60.416 37.037 0.00 0.00 0.00 3.07
3490 6547 6.914757 GCACAGCAAGGAGTTATTATTTCATC 59.085 38.462 0.00 0.00 0.00 2.92
3491 6548 6.604795 AGCACAGCAAGGAGTTATTATTTCAT 59.395 34.615 0.00 0.00 0.00 2.57
3492 6549 5.945784 AGCACAGCAAGGAGTTATTATTTCA 59.054 36.000 0.00 0.00 0.00 2.69
3493 6550 6.442513 AGCACAGCAAGGAGTTATTATTTC 57.557 37.500 0.00 0.00 0.00 2.17
3494 6551 6.840780 AAGCACAGCAAGGAGTTATTATTT 57.159 33.333 0.00 0.00 0.00 1.40
3495 6552 6.127619 GGAAAGCACAGCAAGGAGTTATTATT 60.128 38.462 0.00 0.00 0.00 1.40
3496 6553 5.358160 GGAAAGCACAGCAAGGAGTTATTAT 59.642 40.000 0.00 0.00 0.00 1.28
3497 6554 4.700213 GGAAAGCACAGCAAGGAGTTATTA 59.300 41.667 0.00 0.00 0.00 0.98
3498 6555 3.507622 GGAAAGCACAGCAAGGAGTTATT 59.492 43.478 0.00 0.00 0.00 1.40
3499 6556 3.084786 GGAAAGCACAGCAAGGAGTTAT 58.915 45.455 0.00 0.00 0.00 1.89
3500 6557 2.106511 AGGAAAGCACAGCAAGGAGTTA 59.893 45.455 0.00 0.00 0.00 2.24
3501 6558 1.133668 AGGAAAGCACAGCAAGGAGTT 60.134 47.619 0.00 0.00 0.00 3.01
3502 6559 0.475906 AGGAAAGCACAGCAAGGAGT 59.524 50.000 0.00 0.00 0.00 3.85
3503 6560 1.163554 GAGGAAAGCACAGCAAGGAG 58.836 55.000 0.00 0.00 0.00 3.69
3504 6561 0.767375 AGAGGAAAGCACAGCAAGGA 59.233 50.000 0.00 0.00 0.00 3.36
3505 6562 1.613836 AAGAGGAAAGCACAGCAAGG 58.386 50.000 0.00 0.00 0.00 3.61
3506 6563 5.159209 CAAATAAGAGGAAAGCACAGCAAG 58.841 41.667 0.00 0.00 0.00 4.01
3507 6564 4.584325 ACAAATAAGAGGAAAGCACAGCAA 59.416 37.500 0.00 0.00 0.00 3.91
3508 6565 4.144297 ACAAATAAGAGGAAAGCACAGCA 58.856 39.130 0.00 0.00 0.00 4.41
3509 6566 4.773323 ACAAATAAGAGGAAAGCACAGC 57.227 40.909 0.00 0.00 0.00 4.40
3510 6567 5.163713 GCCTACAAATAAGAGGAAAGCACAG 60.164 44.000 0.00 0.00 31.45 3.66
3511 6568 4.700213 GCCTACAAATAAGAGGAAAGCACA 59.300 41.667 0.00 0.00 31.45 4.57
3512 6569 4.700213 TGCCTACAAATAAGAGGAAAGCAC 59.300 41.667 0.00 0.00 31.45 4.40
3513 6570 4.917385 TGCCTACAAATAAGAGGAAAGCA 58.083 39.130 0.00 0.00 31.45 3.91
3514 6571 4.944317 ACTGCCTACAAATAAGAGGAAAGC 59.056 41.667 0.00 0.00 31.45 3.51
3515 6572 6.173339 TCACTGCCTACAAATAAGAGGAAAG 58.827 40.000 0.00 0.00 31.45 2.62
3516 6573 6.121776 TCACTGCCTACAAATAAGAGGAAA 57.878 37.500 0.00 0.00 31.45 3.13
3517 6574 5.755409 TCACTGCCTACAAATAAGAGGAA 57.245 39.130 0.00 0.00 31.45 3.36
3518 6575 5.425217 TCATCACTGCCTACAAATAAGAGGA 59.575 40.000 0.00 0.00 31.45 3.71
3519 6576 5.674525 TCATCACTGCCTACAAATAAGAGG 58.325 41.667 0.00 0.00 0.00 3.69
3520 6577 6.577103 TCTCATCACTGCCTACAAATAAGAG 58.423 40.000 0.00 0.00 0.00 2.85
3521 6578 6.544928 TCTCATCACTGCCTACAAATAAGA 57.455 37.500 0.00 0.00 0.00 2.10
3522 6579 7.714377 AGAATCTCATCACTGCCTACAAATAAG 59.286 37.037 0.00 0.00 0.00 1.73
3523 6580 7.496920 CAGAATCTCATCACTGCCTACAAATAA 59.503 37.037 0.00 0.00 0.00 1.40
3524 6581 6.988580 CAGAATCTCATCACTGCCTACAAATA 59.011 38.462 0.00 0.00 0.00 1.40
3525 6582 5.821470 CAGAATCTCATCACTGCCTACAAAT 59.179 40.000 0.00 0.00 0.00 2.32
3526 6583 5.046376 TCAGAATCTCATCACTGCCTACAAA 60.046 40.000 0.00 0.00 0.00 2.83
3527 6584 4.467438 TCAGAATCTCATCACTGCCTACAA 59.533 41.667 0.00 0.00 0.00 2.41
3528 6585 4.026052 TCAGAATCTCATCACTGCCTACA 58.974 43.478 0.00 0.00 0.00 2.74
3529 6586 4.662468 TCAGAATCTCATCACTGCCTAC 57.338 45.455 0.00 0.00 0.00 3.18
3530 6587 5.682234 TTTCAGAATCTCATCACTGCCTA 57.318 39.130 0.00 0.00 0.00 3.93
3531 6588 4.564782 TTTCAGAATCTCATCACTGCCT 57.435 40.909 0.00 0.00 0.00 4.75
3532 6589 4.699257 AGTTTTCAGAATCTCATCACTGCC 59.301 41.667 0.00 0.00 0.00 4.85
3533 6590 5.876612 AGTTTTCAGAATCTCATCACTGC 57.123 39.130 0.00 0.00 0.00 4.40
3534 6591 6.036953 GGCTAGTTTTCAGAATCTCATCACTG 59.963 42.308 0.00 0.00 0.00 3.66
3535 6592 6.070309 AGGCTAGTTTTCAGAATCTCATCACT 60.070 38.462 0.00 0.00 0.00 3.41
3536 6593 6.112058 AGGCTAGTTTTCAGAATCTCATCAC 58.888 40.000 0.00 0.00 0.00 3.06
3537 6594 6.305272 AGGCTAGTTTTCAGAATCTCATCA 57.695 37.500 0.00 0.00 0.00 3.07
3538 6595 7.225734 GGTTAGGCTAGTTTTCAGAATCTCATC 59.774 40.741 0.00 0.00 0.00 2.92
3539 6596 7.051000 GGTTAGGCTAGTTTTCAGAATCTCAT 58.949 38.462 0.00 0.00 0.00 2.90
3540 6597 6.407202 GGTTAGGCTAGTTTTCAGAATCTCA 58.593 40.000 0.00 0.00 0.00 3.27
3541 6598 5.520649 CGGTTAGGCTAGTTTTCAGAATCTC 59.479 44.000 0.00 0.00 0.00 2.75
3542 6599 5.046520 ACGGTTAGGCTAGTTTTCAGAATCT 60.047 40.000 0.00 0.00 0.00 2.40
3543 6600 5.176592 ACGGTTAGGCTAGTTTTCAGAATC 58.823 41.667 0.00 0.00 0.00 2.52
3544 6601 5.161943 ACGGTTAGGCTAGTTTTCAGAAT 57.838 39.130 0.00 0.00 0.00 2.40
3545 6602 4.612264 ACGGTTAGGCTAGTTTTCAGAA 57.388 40.909 0.00 0.00 0.00 3.02
3546 6603 4.612264 AACGGTTAGGCTAGTTTTCAGA 57.388 40.909 0.00 0.00 0.00 3.27
3547 6604 5.930569 AGTTAACGGTTAGGCTAGTTTTCAG 59.069 40.000 0.00 0.00 0.00 3.02
3548 6605 5.697633 CAGTTAACGGTTAGGCTAGTTTTCA 59.302 40.000 0.00 0.00 0.00 2.69
3549 6606 5.928264 TCAGTTAACGGTTAGGCTAGTTTTC 59.072 40.000 5.64 0.00 0.00 2.29
3550 6607 5.857268 TCAGTTAACGGTTAGGCTAGTTTT 58.143 37.500 5.64 0.00 0.00 2.43
3551 6608 5.473066 TCAGTTAACGGTTAGGCTAGTTT 57.527 39.130 5.64 0.00 0.00 2.66
3552 6609 5.233225 GTTCAGTTAACGGTTAGGCTAGTT 58.767 41.667 5.64 0.00 0.00 2.24
3553 6610 4.322273 GGTTCAGTTAACGGTTAGGCTAGT 60.322 45.833 5.64 0.00 39.13 2.57
3554 6611 4.179298 GGTTCAGTTAACGGTTAGGCTAG 58.821 47.826 5.64 0.00 39.13 3.42
3555 6612 3.055891 GGGTTCAGTTAACGGTTAGGCTA 60.056 47.826 5.64 0.00 39.13 3.93
3556 6613 2.289882 GGGTTCAGTTAACGGTTAGGCT 60.290 50.000 5.64 0.00 39.13 4.58
3557 6614 2.079158 GGGTTCAGTTAACGGTTAGGC 58.921 52.381 5.64 0.00 39.13 3.93
3558 6615 3.007182 TGAGGGTTCAGTTAACGGTTAGG 59.993 47.826 5.64 0.00 39.13 2.69
3559 6616 4.261578 TGAGGGTTCAGTTAACGGTTAG 57.738 45.455 5.64 0.00 39.13 2.34
3560 6617 4.686191 TTGAGGGTTCAGTTAACGGTTA 57.314 40.909 5.64 0.00 39.13 2.85
3561 6618 3.564053 TTGAGGGTTCAGTTAACGGTT 57.436 42.857 5.64 0.00 39.13 4.44
3562 6619 3.782656 ATTGAGGGTTCAGTTAACGGT 57.217 42.857 5.64 0.00 39.13 4.83
3563 6620 4.998672 TGTAATTGAGGGTTCAGTTAACGG 59.001 41.667 0.00 0.00 37.29 4.44
3564 6621 5.389098 CGTGTAATTGAGGGTTCAGTTAACG 60.389 44.000 0.00 0.00 37.29 3.18
3565 6622 5.697633 TCGTGTAATTGAGGGTTCAGTTAAC 59.302 40.000 0.00 0.00 37.29 2.01
3566 6623 5.856156 TCGTGTAATTGAGGGTTCAGTTAA 58.144 37.500 0.00 0.00 37.29 2.01
3567 6624 5.471556 TCGTGTAATTGAGGGTTCAGTTA 57.528 39.130 0.00 0.00 35.26 2.24
3568 6625 4.345859 TCGTGTAATTGAGGGTTCAGTT 57.654 40.909 0.00 0.00 37.13 3.16
3569 6626 4.345859 TTCGTGTAATTGAGGGTTCAGT 57.654 40.909 0.00 0.00 34.15 3.41
3570 6627 4.755123 AGTTTCGTGTAATTGAGGGTTCAG 59.245 41.667 0.00 0.00 34.15 3.02
3571 6628 4.710324 AGTTTCGTGTAATTGAGGGTTCA 58.290 39.130 0.00 0.00 0.00 3.18
3572 6629 5.121298 GGTAGTTTCGTGTAATTGAGGGTTC 59.879 44.000 0.00 0.00 0.00 3.62
3573 6630 4.999311 GGTAGTTTCGTGTAATTGAGGGTT 59.001 41.667 0.00 0.00 0.00 4.11
3574 6631 4.040706 TGGTAGTTTCGTGTAATTGAGGGT 59.959 41.667 0.00 0.00 0.00 4.34
3575 6632 4.571919 TGGTAGTTTCGTGTAATTGAGGG 58.428 43.478 0.00 0.00 0.00 4.30
3576 6633 5.005394 CGATGGTAGTTTCGTGTAATTGAGG 59.995 44.000 0.00 0.00 0.00 3.86
3577 6634 5.575606 ACGATGGTAGTTTCGTGTAATTGAG 59.424 40.000 0.00 0.00 46.03 3.02
3578 6635 5.472148 ACGATGGTAGTTTCGTGTAATTGA 58.528 37.500 0.00 0.00 46.03 2.57
3579 6636 5.773239 ACGATGGTAGTTTCGTGTAATTG 57.227 39.130 0.00 0.00 46.03 2.32
3587 6644 4.099120 CAGAGAGAACGATGGTAGTTTCG 58.901 47.826 0.00 0.00 41.04 3.46
3588 6645 3.860536 GCAGAGAGAACGATGGTAGTTTC 59.139 47.826 0.00 0.00 31.14 2.78
3589 6646 3.511934 AGCAGAGAGAACGATGGTAGTTT 59.488 43.478 0.00 0.00 31.14 2.66
3590 6647 3.093057 AGCAGAGAGAACGATGGTAGTT 58.907 45.455 0.00 0.00 34.07 2.24
3591 6648 2.685897 GAGCAGAGAGAACGATGGTAGT 59.314 50.000 0.00 0.00 0.00 2.73
3592 6649 2.034053 GGAGCAGAGAGAACGATGGTAG 59.966 54.545 0.00 0.00 0.00 3.18
3593 6650 2.025155 GGAGCAGAGAGAACGATGGTA 58.975 52.381 0.00 0.00 0.00 3.25
3594 6651 0.820871 GGAGCAGAGAGAACGATGGT 59.179 55.000 0.00 0.00 0.00 3.55
3595 6652 1.110442 AGGAGCAGAGAGAACGATGG 58.890 55.000 0.00 0.00 0.00 3.51
3596 6653 1.802136 GCAGGAGCAGAGAGAACGATG 60.802 57.143 0.00 0.00 41.58 3.84
3597 6654 0.459489 GCAGGAGCAGAGAGAACGAT 59.541 55.000 0.00 0.00 41.58 3.73
3598 6655 1.886585 GCAGGAGCAGAGAGAACGA 59.113 57.895 0.00 0.00 41.58 3.85
3599 6656 4.492955 GCAGGAGCAGAGAGAACG 57.507 61.111 0.00 0.00 41.58 3.95
3613 6670 0.746063 TTTTCTGTGGCCTTGTGCAG 59.254 50.000 3.32 4.96 43.89 4.41
3614 6671 1.189752 TTTTTCTGTGGCCTTGTGCA 58.810 45.000 3.32 0.00 43.89 4.57
3650 6707 7.936847 ATTAATCGGACATTAATCAGGCAACTA 59.063 33.333 0.00 0.00 35.84 2.24
3651 6708 6.772716 ATTAATCGGACATTAATCAGGCAACT 59.227 34.615 0.00 0.00 35.62 3.16
3652 6709 4.900635 AATCGGACATTAATCAGGCAAC 57.099 40.909 0.00 0.00 0.00 4.17
3653 6710 7.581213 AATTAATCGGACATTAATCAGGCAA 57.419 32.000 2.18 0.00 34.25 4.52
3654 6711 7.581213 AAATTAATCGGACATTAATCAGGCA 57.419 32.000 2.18 0.00 34.25 4.75
3655 6712 8.134895 TCAAAATTAATCGGACATTAATCAGGC 58.865 33.333 2.18 0.00 34.25 4.85
3663 6720 9.927668 AGTTCAATTCAAAATTAATCGGACATT 57.072 25.926 0.00 0.00 0.00 2.71
3664 6721 9.927668 AAGTTCAATTCAAAATTAATCGGACAT 57.072 25.926 0.00 0.00 0.00 3.06
3665 6722 9.190858 CAAGTTCAATTCAAAATTAATCGGACA 57.809 29.630 0.00 0.00 0.00 4.02
3666 6723 9.191995 ACAAGTTCAATTCAAAATTAATCGGAC 57.808 29.630 0.00 0.00 0.00 4.79
3689 6746 4.071961 TCAGCTGCTCTTGTTCTTACAA 57.928 40.909 9.47 0.00 41.82 2.41
3690 6747 3.751479 TCAGCTGCTCTTGTTCTTACA 57.249 42.857 9.47 0.00 0.00 2.41
3691 6748 4.248859 TCATCAGCTGCTCTTGTTCTTAC 58.751 43.478 9.47 0.00 0.00 2.34
3692 6749 4.502016 CTCATCAGCTGCTCTTGTTCTTA 58.498 43.478 9.47 0.00 0.00 2.10
3693 6750 3.336468 CTCATCAGCTGCTCTTGTTCTT 58.664 45.455 9.47 0.00 0.00 2.52
3694 6751 2.354906 CCTCATCAGCTGCTCTTGTTCT 60.355 50.000 9.47 0.00 0.00 3.01
3695 6752 2.008329 CCTCATCAGCTGCTCTTGTTC 58.992 52.381 9.47 0.00 0.00 3.18
3696 6753 1.627329 TCCTCATCAGCTGCTCTTGTT 59.373 47.619 9.47 0.00 0.00 2.83
3697 6754 1.273759 TCCTCATCAGCTGCTCTTGT 58.726 50.000 9.47 0.00 0.00 3.16
3698 6755 2.158943 TCATCCTCATCAGCTGCTCTTG 60.159 50.000 9.47 4.20 0.00 3.02
3699 6756 2.117051 TCATCCTCATCAGCTGCTCTT 58.883 47.619 9.47 0.00 0.00 2.85
3700 6757 1.790818 TCATCCTCATCAGCTGCTCT 58.209 50.000 9.47 0.00 0.00 4.09
3701 6758 2.102757 TCTTCATCCTCATCAGCTGCTC 59.897 50.000 9.47 0.00 0.00 4.26
3702 6759 2.117051 TCTTCATCCTCATCAGCTGCT 58.883 47.619 9.47 0.00 0.00 4.24
3703 6760 2.211806 GTCTTCATCCTCATCAGCTGC 58.788 52.381 9.47 0.00 0.00 5.25
3704 6761 2.100418 TCGTCTTCATCCTCATCAGCTG 59.900 50.000 7.63 7.63 0.00 4.24
3705 6762 2.382882 TCGTCTTCATCCTCATCAGCT 58.617 47.619 0.00 0.00 0.00 4.24
3706 6763 2.879002 TCGTCTTCATCCTCATCAGC 57.121 50.000 0.00 0.00 0.00 4.26
3707 6764 4.037803 ACAGATCGTCTTCATCCTCATCAG 59.962 45.833 0.00 0.00 0.00 2.90
3708 6765 3.956848 ACAGATCGTCTTCATCCTCATCA 59.043 43.478 0.00 0.00 0.00 3.07
3709 6766 4.582701 ACAGATCGTCTTCATCCTCATC 57.417 45.455 0.00 0.00 0.00 2.92
3710 6767 4.889995 TGTACAGATCGTCTTCATCCTCAT 59.110 41.667 0.00 0.00 0.00 2.90
3711 6768 4.270008 TGTACAGATCGTCTTCATCCTCA 58.730 43.478 0.00 0.00 0.00 3.86
3712 6769 4.902443 TGTACAGATCGTCTTCATCCTC 57.098 45.455 0.00 0.00 0.00 3.71
3713 6770 4.707448 ACTTGTACAGATCGTCTTCATCCT 59.293 41.667 0.00 0.00 0.00 3.24
3714 6771 4.800993 CACTTGTACAGATCGTCTTCATCC 59.199 45.833 0.00 0.00 0.00 3.51
3715 6772 5.641709 TCACTTGTACAGATCGTCTTCATC 58.358 41.667 0.00 0.00 0.00 2.92
3716 6773 5.644977 TCACTTGTACAGATCGTCTTCAT 57.355 39.130 0.00 0.00 0.00 2.57
3717 6774 5.641709 GATCACTTGTACAGATCGTCTTCA 58.358 41.667 7.58 0.00 0.00 3.02
3724 6781 5.972382 GGTTACTCGATCACTTGTACAGATC 59.028 44.000 11.68 11.68 35.86 2.75
3725 6782 5.417894 TGGTTACTCGATCACTTGTACAGAT 59.582 40.000 0.00 0.00 0.00 2.90
3726 6783 4.763279 TGGTTACTCGATCACTTGTACAGA 59.237 41.667 0.00 0.00 0.00 3.41
3727 6784 5.055642 TGGTTACTCGATCACTTGTACAG 57.944 43.478 0.00 0.00 0.00 2.74
3728 6785 5.654603 ATGGTTACTCGATCACTTGTACA 57.345 39.130 0.00 0.00 0.00 2.90
3729 6786 5.867716 ACAATGGTTACTCGATCACTTGTAC 59.132 40.000 0.00 0.00 0.00 2.90
3730 6787 6.032956 ACAATGGTTACTCGATCACTTGTA 57.967 37.500 0.00 0.00 0.00 2.41
3731 6788 4.894784 ACAATGGTTACTCGATCACTTGT 58.105 39.130 0.00 0.00 0.00 3.16
3732 6789 5.862924 AACAATGGTTACTCGATCACTTG 57.137 39.130 0.00 0.00 34.87 3.16
3733 6790 6.931838 TCTAACAATGGTTACTCGATCACTT 58.068 36.000 0.00 0.00 38.45 3.16
3734 6791 6.525578 TCTAACAATGGTTACTCGATCACT 57.474 37.500 0.00 0.00 38.45 3.41
3735 6792 7.591006 TTTCTAACAATGGTTACTCGATCAC 57.409 36.000 0.00 0.00 38.45 3.06
3736 6793 8.664798 CATTTTCTAACAATGGTTACTCGATCA 58.335 33.333 0.00 0.00 38.45 2.92
3737 6794 8.879759 TCATTTTCTAACAATGGTTACTCGATC 58.120 33.333 0.00 0.00 38.45 3.69
3738 6795 8.786826 TCATTTTCTAACAATGGTTACTCGAT 57.213 30.769 0.00 0.00 38.45 3.59
3739 6796 8.610248 TTCATTTTCTAACAATGGTTACTCGA 57.390 30.769 0.00 0.00 38.45 4.04
3740 6797 8.504005 ACTTCATTTTCTAACAATGGTTACTCG 58.496 33.333 0.00 0.00 38.45 4.18
3777 6834 9.502091 AGCATAACAAAAACAGAGTCTACAATA 57.498 29.630 0.00 0.00 0.00 1.90
3778 6835 8.396272 AGCATAACAAAAACAGAGTCTACAAT 57.604 30.769 0.00 0.00 0.00 2.71
3779 6836 7.801716 AGCATAACAAAAACAGAGTCTACAA 57.198 32.000 0.00 0.00 0.00 2.41
3781 6838 8.560374 AGAAAGCATAACAAAAACAGAGTCTAC 58.440 33.333 0.00 0.00 0.00 2.59
3782 6839 8.677148 AGAAAGCATAACAAAAACAGAGTCTA 57.323 30.769 0.00 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.