Multiple sequence alignment - TraesCS3B01G419400

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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 TraesCS3B01G419400 chr3B 100.000 5222 0 0 1 5222 655862202 655856981 0.000000e+00 9644
1 TraesCS3B01G419400 chr3B 86.905 252 26 5 4976 5222 720265231 720264982 5.150000e-70 276
2 TraesCS3B01G419400 chr3B 95.714 140 5 1 3489 3628 378689294 378689156 1.890000e-54 224
3 TraesCS3B01G419400 chr3A 95.418 3514 124 14 1 3493 638059518 638063015 0.000000e+00 5563
4 TraesCS3B01G419400 chr3A 92.410 1133 68 9 3617 4737 638063014 638064140 0.000000e+00 1600
5 TraesCS3B01G419400 chr3A 85.246 366 23 10 4882 5219 638064284 638064646 1.080000e-91 348
6 TraesCS3B01G419400 chr3A 98.450 129 2 0 3491 3619 348834445 348834573 1.460000e-55 228
7 TraesCS3B01G419400 chr3A 95.105 143 3 4 3491 3632 256533189 256533050 6.810000e-54 222
8 TraesCS3B01G419400 chr3D 92.641 3139 164 30 1 3106 496747683 496744579 0.000000e+00 4455
9 TraesCS3B01G419400 chr3D 90.267 1048 67 24 3729 4756 496744337 496743305 0.000000e+00 1338
10 TraesCS3B01G419400 chr3D 87.603 363 22 8 4882 5222 496743171 496742810 2.930000e-107 399
11 TraesCS3B01G419400 chr3D 86.056 251 29 5 4976 5222 544444277 544444029 1.120000e-66 265
12 TraesCS3B01G419400 chr3D 87.446 231 25 4 4994 5222 536668904 536668676 4.010000e-66 263
13 TraesCS3B01G419400 chr3D 90.722 194 16 1 3184 3375 496744529 496744336 1.870000e-64 257
14 TraesCS3B01G419400 chr3D 87.069 232 24 6 4994 5222 536441804 536441576 1.870000e-64 257
15 TraesCS3B01G419400 chr3D 87.069 232 24 6 4994 5222 536881041 536880813 1.870000e-64 257
16 TraesCS3B01G419400 chr3D 98.462 130 2 0 3489 3618 283321254 283321125 4.070000e-56 230
17 TraesCS3B01G419400 chr3D 98.462 130 2 0 3492 3621 351086625 351086754 4.070000e-56 230
18 TraesCS3B01G419400 chr3D 97.015 134 4 0 3492 3625 210622423 210622556 5.260000e-55 226
19 TraesCS3B01G419400 chrUn 87.336 229 23 6 4994 5219 404926739 404926964 1.870000e-64 257
20 TraesCS3B01G419400 chrUn 87.069 232 24 6 4994 5222 466164471 466164243 1.870000e-64 257
21 TraesCS3B01G419400 chr1D 97.778 135 3 0 3491 3625 255827883 255827749 3.140000e-57 233
22 TraesCS3B01G419400 chr7D 97.727 132 3 0 3491 3622 266214253 266214384 1.460000e-55 228
23 TraesCS3B01G419400 chr5B 96.403 139 4 1 3491 3629 148500196 148500059 1.460000e-55 228


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 TraesCS3B01G419400 chr3B 655856981 655862202 5221 True 9644.000000 9644 100.000000 1 5222 1 chr3B.!!$R2 5221
1 TraesCS3B01G419400 chr3A 638059518 638064646 5128 False 2503.666667 5563 91.024667 1 5219 3 chr3A.!!$F2 5218
2 TraesCS3B01G419400 chr3D 496742810 496747683 4873 True 1612.250000 4455 90.308250 1 5222 4 chr3D.!!$R6 5221

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
283 284 3.069729 AGTTGTGAGTTAGTGGACACTCC 59.930 47.826 8.44 1.34 42.54 3.85 F
1557 1594 0.252742 ACCTCGGTCTCCCTTCCATT 60.253 55.000 0.00 0.00 0.00 3.16 F
3002 3045 0.682532 TGAAGTGCCAGCAAACCACA 60.683 50.000 0.00 0.00 32.09 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1657 1694 1.514678 GACGCACAAGCCATCCACAA 61.515 55.0 0.00 0.0 37.52 3.33 R
3488 3542 0.042131 TTGGGACGGAGGGAGTATGT 59.958 55.0 0.00 0.0 0.00 2.29 R
4987 5139 0.167689 ACTAAACGAGTCGCGAGGAC 59.832 55.0 10.24 0.0 46.45 3.85 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
283 284 3.069729 AGTTGTGAGTTAGTGGACACTCC 59.930 47.826 8.44 1.34 42.54 3.85
479 480 6.352016 TCTCAGAACTGTAAGAGCTTGATT 57.648 37.500 1.73 0.00 37.43 2.57
646 649 4.761739 TGATGAGTTGATGACCCTTGTTTC 59.238 41.667 0.00 0.00 0.00 2.78
820 827 7.966204 GCTTTTAGTATTTTATTGCCGTTCTGA 59.034 33.333 0.00 0.00 0.00 3.27
886 908 9.326413 GTATTGTATAGCAACTGTCCTTATGTT 57.674 33.333 0.00 0.00 40.28 2.71
989 1013 5.008217 TGTTACAGTTCTGTTTTAAGCGCAT 59.992 36.000 11.47 0.00 0.00 4.73
996 1020 5.984233 TCTGTTTTAAGCGCATATCGAAT 57.016 34.783 11.47 0.00 41.67 3.34
1193 1217 1.393539 TGCGTAATCAAAGAGCGCTTC 59.606 47.619 13.26 4.88 46.94 3.86
1256 1280 6.017440 TGACTCTAAAACGCTTAAATGCTGTT 60.017 34.615 0.00 0.00 33.66 3.16
1420 1454 6.183360 GCAGCAAAGAGTTTCATATGCTTTTC 60.183 38.462 0.00 0.00 41.82 2.29
1557 1594 0.252742 ACCTCGGTCTCCCTTCCATT 60.253 55.000 0.00 0.00 0.00 3.16
1580 1617 2.522836 AGGAAGCTAGATGCATGACG 57.477 50.000 2.46 0.00 45.94 4.35
1643 1680 1.191535 TGGACCCTCTTCCACATACG 58.808 55.000 0.00 0.00 41.00 3.06
1657 1694 5.613329 TCCACATACGTTAACCTTTGAGTT 58.387 37.500 0.00 0.00 0.00 3.01
1741 1778 4.943705 AGAACGTCTTAATGACATTGCCAT 59.056 37.500 11.05 0.00 45.60 4.40
1852 1889 3.836949 CCAATCAACTGGTATGCACAAC 58.163 45.455 0.00 0.00 0.00 3.32
1865 1902 6.820656 TGGTATGCACAACATTCTTTGTTTTT 59.179 30.769 0.00 0.00 46.51 1.94
1876 1914 8.716646 ACATTCTTTGTTTTTCCCTGTTTTAG 57.283 30.769 0.00 0.00 33.74 1.85
1993 2032 7.044798 GTCTGAGCTTTACATCAACTATTCCT 58.955 38.462 0.00 0.00 0.00 3.36
2140 2180 4.021016 ACTCCAAGTCATGACTCTTACCAC 60.021 45.833 28.01 0.00 41.58 4.16
2211 2252 3.330998 GGAGCAAAAGGTATATAGGGGCT 59.669 47.826 0.00 0.00 0.00 5.19
2227 2268 2.760650 GGGGCTATTTTTGCAAGTAGCT 59.239 45.455 25.99 0.00 44.11 3.32
2244 2285 7.011857 GCAAGTAGCTCCTCCATATATAATTGC 59.988 40.741 0.00 0.00 41.15 3.56
2270 2311 1.036707 TTTTGCACAAGGTGTAGCCC 58.963 50.000 0.00 0.00 38.26 5.19
2404 2447 8.772250 ACAAATCATTATTCACTCCCTCTCTTA 58.228 33.333 0.00 0.00 0.00 2.10
2444 2487 1.745320 ATTAGCCGATCGCCGAACCT 61.745 55.000 10.32 1.13 41.76 3.50
2495 2538 2.305343 AGCAACTCTTTCAGCTCCTGAT 59.695 45.455 0.00 0.00 40.39 2.90
2684 2727 4.387343 CATGGCAGGCACCCCCTT 62.387 66.667 0.00 0.00 43.06 3.95
2806 2849 2.125106 GGTCGCCATCTTTCCGCT 60.125 61.111 0.00 0.00 0.00 5.52
2845 2888 2.307098 CCTCTCCTTGTTTCCATGGACT 59.693 50.000 15.91 0.00 39.34 3.85
2974 3017 1.592400 CCTGCACCATTGTGGCTCTG 61.592 60.000 0.00 0.00 42.67 3.35
2988 3031 1.899142 GGCTCTGTCCTCTTCTGAAGT 59.101 52.381 16.43 0.00 0.00 3.01
3002 3045 0.682532 TGAAGTGCCAGCAAACCACA 60.683 50.000 0.00 0.00 32.09 4.17
3106 3149 3.817084 TGAATTTCCAGAACAGTGCTGAG 59.183 43.478 10.57 0.41 35.39 3.35
3124 3167 4.860022 CTGAGGACATTCCCAAAACCTAT 58.140 43.478 0.00 0.00 37.19 2.57
3129 3181 4.643334 GGACATTCCCAAAACCTATGGTAC 59.357 45.833 0.00 0.00 33.12 3.34
3151 3203 2.012051 GCGTTTCCTCCCTACCACATG 61.012 57.143 0.00 0.00 0.00 3.21
3161 3213 1.200716 CCTACCACATGCAGCACAAAG 59.799 52.381 0.00 0.00 0.00 2.77
3178 3230 3.758554 ACAAAGCACACCCATCTTGATAC 59.241 43.478 0.00 0.00 0.00 2.24
3194 3246 2.688446 TGATACGTCGATGAAGGAGCTT 59.312 45.455 12.58 0.00 0.00 3.74
3216 3268 1.005340 CTCCAACAGCGAGCTCATTC 58.995 55.000 15.40 1.86 0.00 2.67
3301 3353 1.592400 CTCCTTGTGGTCGGCGACTA 61.592 60.000 35.42 29.53 32.47 2.59
3500 3554 5.923733 ATAATGATCGACATACTCCCTCC 57.076 43.478 0.00 0.00 38.38 4.30
3501 3555 1.605753 TGATCGACATACTCCCTCCG 58.394 55.000 0.00 0.00 0.00 4.63
3502 3556 1.133884 TGATCGACATACTCCCTCCGT 60.134 52.381 0.00 0.00 0.00 4.69
3503 3557 1.536331 GATCGACATACTCCCTCCGTC 59.464 57.143 0.00 0.00 0.00 4.79
3504 3558 0.465097 TCGACATACTCCCTCCGTCC 60.465 60.000 0.00 0.00 0.00 4.79
3505 3559 1.453762 CGACATACTCCCTCCGTCCC 61.454 65.000 0.00 0.00 0.00 4.46
3506 3560 0.396695 GACATACTCCCTCCGTCCCA 60.397 60.000 0.00 0.00 0.00 4.37
3507 3561 0.042131 ACATACTCCCTCCGTCCCAA 59.958 55.000 0.00 0.00 0.00 4.12
3508 3562 1.200519 CATACTCCCTCCGTCCCAAA 58.799 55.000 0.00 0.00 0.00 3.28
3509 3563 1.557832 CATACTCCCTCCGTCCCAAAA 59.442 52.381 0.00 0.00 0.00 2.44
3510 3564 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
3511 3565 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
3512 3566 2.271777 ACTCCCTCCGTCCCAAAATTA 58.728 47.619 0.00 0.00 0.00 1.40
3513 3567 2.850568 ACTCCCTCCGTCCCAAAATTAT 59.149 45.455 0.00 0.00 0.00 1.28
3514 3568 3.268595 ACTCCCTCCGTCCCAAAATTATT 59.731 43.478 0.00 0.00 0.00 1.40
3515 3569 3.626930 TCCCTCCGTCCCAAAATTATTG 58.373 45.455 0.00 0.00 0.00 1.90
3516 3570 3.010808 TCCCTCCGTCCCAAAATTATTGT 59.989 43.478 0.00 0.00 0.00 2.71
3517 3571 3.380320 CCCTCCGTCCCAAAATTATTGTC 59.620 47.826 0.00 0.00 0.00 3.18
3518 3572 4.270008 CCTCCGTCCCAAAATTATTGTCT 58.730 43.478 0.00 0.00 0.00 3.41
3519 3573 4.705023 CCTCCGTCCCAAAATTATTGTCTT 59.295 41.667 0.00 0.00 0.00 3.01
3520 3574 5.883673 CCTCCGTCCCAAAATTATTGTCTTA 59.116 40.000 0.00 0.00 0.00 2.10
3521 3575 6.038271 CCTCCGTCCCAAAATTATTGTCTTAG 59.962 42.308 0.00 0.00 0.00 2.18
3522 3576 6.713276 TCCGTCCCAAAATTATTGTCTTAGA 58.287 36.000 0.00 0.00 0.00 2.10
3523 3577 7.343357 TCCGTCCCAAAATTATTGTCTTAGAT 58.657 34.615 0.00 0.00 0.00 1.98
3524 3578 7.832187 TCCGTCCCAAAATTATTGTCTTAGATT 59.168 33.333 0.00 0.00 0.00 2.40
3525 3579 8.466798 CCGTCCCAAAATTATTGTCTTAGATTT 58.533 33.333 0.00 0.00 0.00 2.17
3526 3580 9.289303 CGTCCCAAAATTATTGTCTTAGATTTG 57.711 33.333 0.00 0.00 0.00 2.32
3538 3592 8.515695 TTGTCTTAGATTTGTCTAGATACGGA 57.484 34.615 0.00 0.00 0.00 4.69
3539 3593 8.693120 TGTCTTAGATTTGTCTAGATACGGAT 57.307 34.615 0.00 0.00 0.00 4.18
3540 3594 8.568794 TGTCTTAGATTTGTCTAGATACGGATG 58.431 37.037 0.00 0.00 0.00 3.51
3541 3595 8.569641 GTCTTAGATTTGTCTAGATACGGATGT 58.430 37.037 0.00 0.00 0.00 3.06
3542 3596 9.788889 TCTTAGATTTGTCTAGATACGGATGTA 57.211 33.333 0.00 0.00 34.45 2.29
3559 3613 8.792831 ACGGATGTATCTAATACTAAAACGTG 57.207 34.615 0.00 0.00 36.70 4.49
3560 3614 8.623903 ACGGATGTATCTAATACTAAAACGTGA 58.376 33.333 0.00 0.00 36.70 4.35
3561 3615 8.899776 CGGATGTATCTAATACTAAAACGTGAC 58.100 37.037 0.00 0.00 36.70 3.67
3562 3616 9.962783 GGATGTATCTAATACTAAAACGTGACT 57.037 33.333 0.00 0.00 36.70 3.41
3572 3626 6.963049 ACTAAAACGTGACTTGATACATCC 57.037 37.500 0.00 0.00 0.00 3.51
3573 3627 4.921470 AAAACGTGACTTGATACATCCG 57.079 40.909 0.00 0.00 0.00 4.18
3574 3628 3.587797 AACGTGACTTGATACATCCGT 57.412 42.857 0.00 0.00 0.00 4.69
3575 3629 4.707030 AACGTGACTTGATACATCCGTA 57.293 40.909 0.00 0.00 0.00 4.02
3576 3630 4.913335 ACGTGACTTGATACATCCGTAT 57.087 40.909 0.00 0.00 41.16 3.06
3577 3631 5.258456 ACGTGACTTGATACATCCGTATT 57.742 39.130 0.00 0.00 38.48 1.89
3578 3632 5.657474 ACGTGACTTGATACATCCGTATTT 58.343 37.500 0.00 0.00 38.48 1.40
3579 3633 6.798482 ACGTGACTTGATACATCCGTATTTA 58.202 36.000 0.00 0.00 38.48 1.40
3580 3634 6.916387 ACGTGACTTGATACATCCGTATTTAG 59.084 38.462 0.00 0.00 38.48 1.85
3581 3635 7.136772 CGTGACTTGATACATCCGTATTTAGA 58.863 38.462 0.00 0.00 38.48 2.10
3582 3636 7.113124 CGTGACTTGATACATCCGTATTTAGAC 59.887 40.741 0.00 0.00 38.48 2.59
3583 3637 7.919091 GTGACTTGATACATCCGTATTTAGACA 59.081 37.037 0.00 0.00 38.48 3.41
3584 3638 8.471609 TGACTTGATACATCCGTATTTAGACAA 58.528 33.333 0.00 0.00 38.48 3.18
3585 3639 9.309516 GACTTGATACATCCGTATTTAGACAAA 57.690 33.333 0.00 0.00 38.48 2.83
3586 3640 9.832445 ACTTGATACATCCGTATTTAGACAAAT 57.168 29.630 0.00 0.00 38.48 2.32
3605 3659 9.546428 AGACAAATTTAAGACAAGAATTTTGGG 57.454 29.630 0.00 0.00 33.39 4.12
3606 3660 9.541143 GACAAATTTAAGACAAGAATTTTGGGA 57.459 29.630 0.00 0.00 33.39 4.37
3607 3661 9.325198 ACAAATTTAAGACAAGAATTTTGGGAC 57.675 29.630 0.00 0.00 33.39 4.46
3608 3662 8.487176 CAAATTTAAGACAAGAATTTTGGGACG 58.513 33.333 0.00 0.00 32.35 4.79
3609 3663 5.699097 TTAAGACAAGAATTTTGGGACGG 57.301 39.130 0.00 0.00 0.00 4.79
3610 3664 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
3611 3665 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
3612 3666 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
3613 3667 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
3614 3668 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
3615 3669 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
3616 3670 1.004394 GAATTTTGGGACGGAGGGAGT 59.996 52.381 0.00 0.00 0.00 3.85
3617 3671 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
3624 3678 2.249139 GGACGGAGGGAGTATTAGCAT 58.751 52.381 0.00 0.00 0.00 3.79
3643 3697 3.496884 GCATTACTTTCAGTCGGTCAACA 59.503 43.478 0.00 0.00 0.00 3.33
3681 3735 3.981071 ACTAGTATGCAAGTTGCCTCA 57.019 42.857 24.59 7.12 44.23 3.86
3690 3744 2.503331 CAAGTTGCCTCATGTACACCA 58.497 47.619 0.00 0.00 0.00 4.17
3713 3767 4.640364 TGCAGTGTCTGAAATGACATACA 58.360 39.130 0.66 0.00 46.77 2.29
3717 3771 7.553760 TGCAGTGTCTGAAATGACATACATATT 59.446 33.333 0.66 0.00 46.77 1.28
3779 3833 5.940192 TTCTGCAATTGTTAGTACACCTG 57.060 39.130 7.40 0.00 32.98 4.00
3793 3847 6.808321 AGTACACCTGCTCCATTTATCTTA 57.192 37.500 0.00 0.00 0.00 2.10
3894 3954 2.621526 ACGGGGTTTGACAAATCAGAAC 59.378 45.455 13.07 0.00 35.83 3.01
3991 4062 3.515562 TGGATAACAGCCACCCATTTTT 58.484 40.909 0.00 0.00 0.00 1.94
4080 4151 2.924290 CGAACAAGCTAGCTCAAGGTAC 59.076 50.000 19.65 5.53 0.00 3.34
4143 4216 6.952773 TTTGCTGTCTTGTGTTAACCTAAT 57.047 33.333 2.48 0.00 0.00 1.73
4144 4217 6.554334 TTGCTGTCTTGTGTTAACCTAATC 57.446 37.500 2.48 0.00 0.00 1.75
4148 4221 6.195600 TGTCTTGTGTTAACCTAATCCCTT 57.804 37.500 2.48 0.00 0.00 3.95
4154 4227 4.081862 GTGTTAACCTAATCCCTTTTGGCC 60.082 45.833 2.48 0.00 38.58 5.36
4236 4309 1.348696 GGGTAAAACTTGACCCGGAGA 59.651 52.381 0.73 0.00 45.86 3.71
4278 4351 3.290710 ACCTGCATTACCATCCATTGTC 58.709 45.455 0.00 0.00 0.00 3.18
4287 4369 7.416664 GCATTACCATCCATTGTCTGTGTTATT 60.417 37.037 0.00 0.00 0.00 1.40
4288 4370 9.119418 CATTACCATCCATTGTCTGTGTTATTA 57.881 33.333 0.00 0.00 0.00 0.98
4289 4371 8.731275 TTACCATCCATTGTCTGTGTTATTAG 57.269 34.615 0.00 0.00 0.00 1.73
4290 4372 6.721318 ACCATCCATTGTCTGTGTTATTAGT 58.279 36.000 0.00 0.00 0.00 2.24
4291 4373 7.175104 ACCATCCATTGTCTGTGTTATTAGTT 58.825 34.615 0.00 0.00 0.00 2.24
4292 4374 7.669722 ACCATCCATTGTCTGTGTTATTAGTTT 59.330 33.333 0.00 0.00 0.00 2.66
4293 4375 7.970061 CCATCCATTGTCTGTGTTATTAGTTTG 59.030 37.037 0.00 0.00 0.00 2.93
4294 4376 6.908825 TCCATTGTCTGTGTTATTAGTTTGC 58.091 36.000 0.00 0.00 0.00 3.68
4295 4377 6.488344 TCCATTGTCTGTGTTATTAGTTTGCA 59.512 34.615 0.00 0.00 0.00 4.08
4296 4378 6.582295 CCATTGTCTGTGTTATTAGTTTGCAC 59.418 38.462 0.00 0.00 0.00 4.57
4297 4379 5.337219 TGTCTGTGTTATTAGTTTGCACG 57.663 39.130 0.00 0.00 33.23 5.34
4298 4380 4.812091 TGTCTGTGTTATTAGTTTGCACGT 59.188 37.500 0.00 0.00 33.23 4.49
4299 4381 5.984323 TGTCTGTGTTATTAGTTTGCACGTA 59.016 36.000 0.00 0.00 33.23 3.57
4300 4382 6.144886 TGTCTGTGTTATTAGTTTGCACGTAG 59.855 38.462 0.00 0.00 33.23 3.51
4331 4413 3.367703 CGGAATTGGCTCTTGCAGAATTT 60.368 43.478 0.00 0.00 41.91 1.82
4339 4429 5.105063 GGCTCTTGCAGAATTTAAATGGAC 58.895 41.667 0.39 0.00 41.91 4.02
4453 4544 5.004440 CGTTGTGTATCTTAGTGAACCGATG 59.996 44.000 0.00 0.00 0.00 3.84
4478 4569 0.593128 ACTTTGTTGCGGTGCATCTC 59.407 50.000 0.00 0.00 38.76 2.75
4533 4625 1.390123 CAACTATGTGTGTTCTCCGCG 59.610 52.381 0.00 0.00 0.00 6.46
4539 4631 1.373748 TGTGTTCTCCGCGTTAGCC 60.374 57.895 4.92 0.00 41.18 3.93
4540 4632 1.373748 GTGTTCTCCGCGTTAGCCA 60.374 57.895 4.92 0.00 41.18 4.75
4731 4824 7.461182 TTTTTAACGGACAGGAAATCATCAT 57.539 32.000 0.00 0.00 0.00 2.45
4733 4826 7.461182 TTTAACGGACAGGAAATCATCATTT 57.539 32.000 0.00 0.00 34.70 2.32
4734 4827 5.982890 AACGGACAGGAAATCATCATTTT 57.017 34.783 0.00 0.00 31.94 1.82
4735 4828 5.982890 ACGGACAGGAAATCATCATTTTT 57.017 34.783 0.00 0.00 31.94 1.94
4756 4849 7.491254 TTTTTCTCAAATACGCAAATCATCG 57.509 32.000 0.00 0.00 0.00 3.84
4757 4850 5.794687 TTCTCAAATACGCAAATCATCGT 57.205 34.783 0.00 0.00 42.09 3.73
4758 4851 5.389642 TCTCAAATACGCAAATCATCGTC 57.610 39.130 0.00 0.00 39.79 4.20
4759 4852 4.867608 TCTCAAATACGCAAATCATCGTCA 59.132 37.500 0.00 0.00 39.79 4.35
4760 4853 4.892655 TCAAATACGCAAATCATCGTCAC 58.107 39.130 0.00 0.00 39.79 3.67
4796 4889 6.684686 ACACAGGAAATCATCACTTGAATTG 58.315 36.000 0.00 0.00 38.03 2.32
4797 4890 6.266103 ACACAGGAAATCATCACTTGAATTGT 59.734 34.615 0.00 0.00 38.03 2.71
4828 4921 5.443261 GCAAACTTTGAATTGCTAAAAGCC 58.557 37.500 5.65 0.00 46.42 4.35
4829 4922 5.237127 GCAAACTTTGAATTGCTAAAAGCCT 59.763 36.000 5.65 0.00 46.42 4.58
4830 4923 6.423604 GCAAACTTTGAATTGCTAAAAGCCTA 59.576 34.615 5.65 0.00 46.42 3.93
4831 4924 7.042119 GCAAACTTTGAATTGCTAAAAGCCTAA 60.042 33.333 5.65 0.00 46.42 2.69
4832 4925 8.490355 CAAACTTTGAATTGCTAAAAGCCTAAG 58.510 33.333 0.00 0.00 41.51 2.18
4834 4927 7.726216 ACTTTGAATTGCTAAAAGCCTAAGTT 58.274 30.769 0.00 0.00 41.51 2.66
4836 4929 9.129209 CTTTGAATTGCTAAAAGCCTAAGTTAC 57.871 33.333 0.00 0.00 41.51 2.50
4837 4930 7.996098 TGAATTGCTAAAAGCCTAAGTTACT 57.004 32.000 0.00 0.00 41.51 2.24
4838 4931 8.040716 TGAATTGCTAAAAGCCTAAGTTACTC 57.959 34.615 0.00 0.00 41.51 2.59
4839 4932 7.120726 TGAATTGCTAAAAGCCTAAGTTACTCC 59.879 37.037 0.00 0.00 41.51 3.85
4841 4934 5.871834 TGCTAAAAGCCTAAGTTACTCCAA 58.128 37.500 0.00 0.00 41.51 3.53
4842 4935 5.704053 TGCTAAAAGCCTAAGTTACTCCAAC 59.296 40.000 0.00 0.00 41.51 3.77
4843 4936 5.123502 GCTAAAAGCCTAAGTTACTCCAACC 59.876 44.000 0.00 0.00 34.73 3.77
4844 4937 4.995624 AAAGCCTAAGTTACTCCAACCT 57.004 40.909 0.00 0.00 37.93 3.50
4845 4938 3.983044 AGCCTAAGTTACTCCAACCTG 57.017 47.619 0.00 0.00 37.93 4.00
4846 4939 3.517612 AGCCTAAGTTACTCCAACCTGA 58.482 45.455 0.00 0.00 37.93 3.86
4847 4940 4.104831 AGCCTAAGTTACTCCAACCTGAT 58.895 43.478 0.00 0.00 37.93 2.90
4877 4981 2.035449 GGGCCCACAACTACTGTTTTTC 59.965 50.000 19.95 0.00 35.47 2.29
4887 4991 8.336080 CACAACTACTGTTTTTCCTTTCTAGAC 58.664 37.037 0.00 0.00 35.47 2.59
4903 5043 3.358076 GACGAGAAGAGGTGCCCGG 62.358 68.421 0.00 0.00 0.00 5.73
4941 5093 2.967887 GGCCCAATTCAGCAGGATATTT 59.032 45.455 0.00 0.00 0.00 1.40
4945 5097 3.243975 CCAATTCAGCAGGATATTTGCCC 60.244 47.826 8.92 0.00 42.48 5.36
5014 5185 2.597305 GCGACTCGTTTAGTACCACATG 59.403 50.000 0.00 0.00 39.07 3.21
5168 5339 4.440145 GGGTCATGTGCCCACAAT 57.560 55.556 18.74 0.00 45.41 2.71
5172 5343 1.135527 GGTCATGTGCCCACAATGATG 59.864 52.381 5.08 0.00 45.41 3.07
5209 5381 4.494515 GGAAGGGTCCACCACAAC 57.505 61.111 0.00 0.00 44.26 3.32
5219 5391 2.203480 ACCACAACGGCTTGCCAT 60.203 55.556 12.45 0.00 39.03 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
453 454 2.495669 AGCTCTTACAGTTCTGAGAGGC 59.504 50.000 15.44 12.29 36.88 4.70
479 480 3.192844 CAGCAGTACCCTTCTTAGTTCGA 59.807 47.826 0.00 0.00 0.00 3.71
600 602 5.055265 TCACATAGTTCCAAACCAAAGGA 57.945 39.130 0.00 0.00 0.00 3.36
820 827 9.855021 GTCATTTTTGCAAACTACTATAATGGT 57.145 29.630 21.49 0.00 0.00 3.55
989 1013 9.875691 CCTGAGATATGTCCATAAAATTCGATA 57.124 33.333 0.00 0.00 0.00 2.92
996 1020 6.499106 TGCTCCTGAGATATGTCCATAAAA 57.501 37.500 0.00 0.00 0.00 1.52
1093 1117 6.503560 TGAAAACAGGTAAGGGAGAAACTA 57.496 37.500 0.00 0.00 0.00 2.24
1193 1217 4.188247 TGGGTGTCGATACTTCTTTGAG 57.812 45.455 12.29 0.00 0.00 3.02
1256 1280 6.869206 AAAGCACATAGGTTAAGGAGACTA 57.131 37.500 0.00 0.00 36.82 2.59
1557 1594 4.697514 GTCATGCATCTAGCTTCCTACAA 58.302 43.478 0.00 0.00 45.94 2.41
1643 1680 5.528870 CCATCCACAAACTCAAAGGTTAAC 58.471 41.667 0.00 0.00 0.00 2.01
1657 1694 1.514678 GACGCACAAGCCATCCACAA 61.515 55.000 0.00 0.00 37.52 3.33
1741 1778 3.433598 GCCAACTGCATTCCCTATCTGTA 60.434 47.826 0.00 0.00 40.77 2.74
1844 1881 5.296531 GGGAAAAACAAAGAATGTTGTGCAT 59.703 36.000 0.00 0.00 45.86 3.96
1845 1882 4.633565 GGGAAAAACAAAGAATGTTGTGCA 59.366 37.500 0.00 0.00 45.86 4.57
1852 1889 8.716646 ACTAAAACAGGGAAAAACAAAGAATG 57.283 30.769 0.00 0.00 0.00 2.67
1865 1902 9.667107 CAGTAAATAGATGAACTAAAACAGGGA 57.333 33.333 0.00 0.00 34.56 4.20
1993 2032 1.754745 GTCCACTGCCTTGTCCTCA 59.245 57.895 0.00 0.00 0.00 3.86
2140 2180 6.319405 TGGACACATTTAGGACATCATTGATG 59.681 38.462 22.22 22.22 44.71 3.07
2211 2252 4.917385 TGGAGGAGCTACTTGCAAAAATA 58.083 39.130 0.00 0.00 45.94 1.40
2244 2285 6.697019 GGCTACACCTTGTGCAAAAATATATG 59.303 38.462 0.00 0.00 36.98 1.78
2277 2318 1.812571 AGCACGAATGGTGATTTCCAC 59.187 47.619 0.00 0.00 44.30 4.02
2293 2336 8.150945 TCCCTGAACTCTATGAATAAATAGCAC 58.849 37.037 0.00 0.00 31.33 4.40
2323 2366 3.402628 TCTGGGTACTGTTTTCTGCTC 57.597 47.619 0.00 0.00 0.00 4.26
2404 2447 4.286297 TGGTACTTGCTCATGCTTTAGT 57.714 40.909 0.00 0.00 40.48 2.24
2444 2487 6.032956 TCGAATGGACTTCAAAGTTAGCTA 57.967 37.500 0.00 0.00 39.88 3.32
2487 2530 0.396139 TGGGCCAATCAATCAGGAGC 60.396 55.000 2.13 0.00 0.00 4.70
2623 2666 0.946221 AGGTTGCTGAACTTCTCGCG 60.946 55.000 0.00 0.00 32.15 5.87
2684 2727 1.692148 GATCACGACGGCGCATTCAA 61.692 55.000 12.58 0.00 42.48 2.69
2974 3017 1.943507 GCTGGCACTTCAGAAGAGGAC 60.944 57.143 17.56 10.85 36.93 3.85
2988 3031 1.747145 CCATTGTGGTTTGCTGGCA 59.253 52.632 0.00 0.00 31.35 4.92
3002 3045 3.558746 GCACTATCTAGATGGCTGCCATT 60.559 47.826 32.94 23.57 45.26 3.16
3106 3149 3.708451 ACCATAGGTTTTGGGAATGTCC 58.292 45.455 0.00 0.00 38.64 4.02
3124 3167 0.834687 AGGGAGGAAACGCTGTACCA 60.835 55.000 0.00 0.00 0.00 3.25
3129 3181 0.391263 GTGGTAGGGAGGAAACGCTG 60.391 60.000 0.00 0.00 34.93 5.18
3151 3203 2.028043 GGGTGTGCTTTGTGCTGC 59.972 61.111 0.00 0.00 43.37 5.25
3161 3213 1.933853 GACGTATCAAGATGGGTGTGC 59.066 52.381 0.00 0.00 0.00 4.57
3178 3230 1.424493 GCCAAGCTCCTTCATCGACG 61.424 60.000 0.00 0.00 0.00 5.12
3211 3263 0.176910 TGGCGACTAATGCGGAATGA 59.823 50.000 0.00 0.00 0.00 2.57
3216 3268 1.526887 CATACTTGGCGACTAATGCGG 59.473 52.381 0.00 0.00 0.00 5.69
3301 3353 1.776662 TGACCGGAATCTTCCTCGAT 58.223 50.000 9.46 0.00 45.33 3.59
3320 3372 1.971357 AGAACCGTGTGAAGACTGGAT 59.029 47.619 0.00 0.00 0.00 3.41
3488 3542 0.042131 TTGGGACGGAGGGAGTATGT 59.958 55.000 0.00 0.00 0.00 2.29
3493 3547 3.577805 ATAATTTTGGGACGGAGGGAG 57.422 47.619 0.00 0.00 0.00 4.30
3494 3548 3.010808 ACAATAATTTTGGGACGGAGGGA 59.989 43.478 0.00 0.00 0.00 4.20
3495 3549 3.361786 ACAATAATTTTGGGACGGAGGG 58.638 45.455 0.00 0.00 0.00 4.30
3496 3550 4.270008 AGACAATAATTTTGGGACGGAGG 58.730 43.478 0.00 0.00 0.00 4.30
3497 3551 5.897377 AAGACAATAATTTTGGGACGGAG 57.103 39.130 0.00 0.00 0.00 4.63
3498 3552 6.713276 TCTAAGACAATAATTTTGGGACGGA 58.287 36.000 0.00 0.00 0.00 4.69
3499 3553 6.995511 TCTAAGACAATAATTTTGGGACGG 57.004 37.500 0.00 0.00 0.00 4.79
3500 3554 9.289303 CAAATCTAAGACAATAATTTTGGGACG 57.711 33.333 0.00 0.00 0.00 4.79
3512 3566 9.132923 TCCGTATCTAGACAAATCTAAGACAAT 57.867 33.333 0.00 0.00 36.98 2.71
3513 3567 8.515695 TCCGTATCTAGACAAATCTAAGACAA 57.484 34.615 0.00 0.00 36.98 3.18
3514 3568 8.568794 CATCCGTATCTAGACAAATCTAAGACA 58.431 37.037 0.00 0.00 36.98 3.41
3515 3569 8.569641 ACATCCGTATCTAGACAAATCTAAGAC 58.430 37.037 0.00 0.00 36.98 3.01
3516 3570 8.693120 ACATCCGTATCTAGACAAATCTAAGA 57.307 34.615 0.00 0.00 36.98 2.10
3533 3587 9.882996 CACGTTTTAGTATTAGATACATCCGTA 57.117 33.333 0.00 0.00 38.21 4.02
3534 3588 8.623903 TCACGTTTTAGTATTAGATACATCCGT 58.376 33.333 0.00 0.00 38.21 4.69
3535 3589 8.899776 GTCACGTTTTAGTATTAGATACATCCG 58.100 37.037 0.00 0.00 38.21 4.18
3536 3590 9.962783 AGTCACGTTTTAGTATTAGATACATCC 57.037 33.333 0.00 0.00 38.21 3.51
3546 3600 9.095065 GGATGTATCAAGTCACGTTTTAGTATT 57.905 33.333 0.00 0.00 0.00 1.89
3547 3601 7.434307 CGGATGTATCAAGTCACGTTTTAGTAT 59.566 37.037 0.00 0.00 0.00 2.12
3548 3602 6.748658 CGGATGTATCAAGTCACGTTTTAGTA 59.251 38.462 0.00 0.00 0.00 1.82
3549 3603 5.575606 CGGATGTATCAAGTCACGTTTTAGT 59.424 40.000 0.00 0.00 0.00 2.24
3550 3604 5.575606 ACGGATGTATCAAGTCACGTTTTAG 59.424 40.000 0.00 0.00 0.00 1.85
3551 3605 5.472148 ACGGATGTATCAAGTCACGTTTTA 58.528 37.500 0.00 0.00 0.00 1.52
3552 3606 4.312443 ACGGATGTATCAAGTCACGTTTT 58.688 39.130 0.00 0.00 0.00 2.43
3553 3607 3.921677 ACGGATGTATCAAGTCACGTTT 58.078 40.909 0.00 0.00 0.00 3.60
3554 3608 3.587797 ACGGATGTATCAAGTCACGTT 57.412 42.857 0.00 0.00 0.00 3.99
3555 3609 4.913335 ATACGGATGTATCAAGTCACGT 57.087 40.909 0.00 0.00 36.56 4.49
3556 3610 7.113124 GTCTAAATACGGATGTATCAAGTCACG 59.887 40.741 0.00 0.00 40.42 4.35
3557 3611 7.919091 TGTCTAAATACGGATGTATCAAGTCAC 59.081 37.037 0.00 0.00 40.42 3.67
3558 3612 8.002984 TGTCTAAATACGGATGTATCAAGTCA 57.997 34.615 0.00 0.00 40.42 3.41
3559 3613 8.867112 TTGTCTAAATACGGATGTATCAAGTC 57.133 34.615 0.00 0.00 40.42 3.01
3560 3614 9.832445 ATTTGTCTAAATACGGATGTATCAAGT 57.168 29.630 0.00 0.00 40.42 3.16
3579 3633 9.546428 CCCAAAATTCTTGTCTTAAATTTGTCT 57.454 29.630 0.00 0.00 33.95 3.41
3580 3634 9.541143 TCCCAAAATTCTTGTCTTAAATTTGTC 57.459 29.630 0.00 0.00 33.95 3.18
3581 3635 9.325198 GTCCCAAAATTCTTGTCTTAAATTTGT 57.675 29.630 0.00 0.00 33.95 2.83
3582 3636 8.487176 CGTCCCAAAATTCTTGTCTTAAATTTG 58.513 33.333 0.00 0.00 33.95 2.32
3583 3637 7.655732 CCGTCCCAAAATTCTTGTCTTAAATTT 59.344 33.333 0.00 0.00 34.86 1.82
3584 3638 7.014808 TCCGTCCCAAAATTCTTGTCTTAAATT 59.985 33.333 0.00 0.00 0.00 1.82
3585 3639 6.492087 TCCGTCCCAAAATTCTTGTCTTAAAT 59.508 34.615 0.00 0.00 0.00 1.40
3586 3640 5.828859 TCCGTCCCAAAATTCTTGTCTTAAA 59.171 36.000 0.00 0.00 0.00 1.52
3587 3641 5.378332 TCCGTCCCAAAATTCTTGTCTTAA 58.622 37.500 0.00 0.00 0.00 1.85
3588 3642 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
3589 3643 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
3590 3644 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
3591 3645 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
3592 3646 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
3593 3647 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
3594 3648 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
3595 3649 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
3596 3650 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
3597 3651 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
3598 3652 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
3599 3653 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
3600 3654 1.961133 AATACTCCCTCCGTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
3601 3655 2.674420 CTAATACTCCCTCCGTCCCAA 58.326 52.381 0.00 0.00 0.00 4.12
3602 3656 1.756690 GCTAATACTCCCTCCGTCCCA 60.757 57.143 0.00 0.00 0.00 4.37
3603 3657 0.967662 GCTAATACTCCCTCCGTCCC 59.032 60.000 0.00 0.00 0.00 4.46
3604 3658 1.700955 TGCTAATACTCCCTCCGTCC 58.299 55.000 0.00 0.00 0.00 4.79
3605 3659 4.523558 AGTAATGCTAATACTCCCTCCGTC 59.476 45.833 0.00 0.00 0.00 4.79
3606 3660 4.481072 AGTAATGCTAATACTCCCTCCGT 58.519 43.478 0.00 0.00 0.00 4.69
3607 3661 5.470047 AAGTAATGCTAATACTCCCTCCG 57.530 43.478 0.00 0.00 32.54 4.63
3608 3662 6.827727 TGAAAGTAATGCTAATACTCCCTCC 58.172 40.000 0.00 0.00 32.54 4.30
3609 3663 7.954788 CTGAAAGTAATGCTAATACTCCCTC 57.045 40.000 0.00 0.00 32.54 4.30
3700 3754 8.485392 TGGTCTCTGAATATGTATGTCATTTCA 58.515 33.333 0.00 0.00 37.91 2.69
3763 3817 4.634012 TGGAGCAGGTGTACTAACAATT 57.366 40.909 0.00 0.00 37.36 2.32
3793 3847 7.448161 TCACACACAAGACATGAATATTTCCTT 59.552 33.333 0.00 0.00 0.00 3.36
3874 3934 2.621055 TGTTCTGATTTGTCAAACCCCG 59.379 45.455 0.00 0.00 0.00 5.73
3894 3954 4.627467 GGCATCGGACTAACTGCTAATATG 59.373 45.833 1.10 0.00 35.03 1.78
3958 4028 4.220602 GGCTGTTATCCACAAAACTGGAAT 59.779 41.667 0.00 0.00 43.79 3.01
3991 4062 6.769822 GGATCTTCTCCATCTAATTCAAAGCA 59.230 38.462 0.00 0.00 44.26 3.91
4051 4122 1.269166 CTAGCTTGTTCGTAGTGGCG 58.731 55.000 0.00 0.00 0.00 5.69
4080 4151 0.397941 AGGGCCATGACCATGTATCG 59.602 55.000 6.18 0.00 37.11 2.92
4143 4216 1.063266 ACAGAAACAGGCCAAAAGGGA 60.063 47.619 5.01 0.00 40.01 4.20
4144 4217 1.413118 ACAGAAACAGGCCAAAAGGG 58.587 50.000 5.01 0.00 40.85 3.95
4148 4221 2.357637 CGAAGAACAGAAACAGGCCAAA 59.642 45.455 5.01 0.00 0.00 3.28
4154 4227 2.807967 TCCATGCGAAGAACAGAAACAG 59.192 45.455 0.00 0.00 0.00 3.16
4247 4320 3.823873 TGGTAATGCAGGTTCAATTCGTT 59.176 39.130 0.00 0.00 0.00 3.85
4278 4351 6.296605 CACTACGTGCAAACTAATAACACAG 58.703 40.000 0.00 0.00 0.00 3.66
4287 4369 3.386486 CTGAACCACTACGTGCAAACTA 58.614 45.455 0.00 0.00 31.34 2.24
4288 4370 2.210116 CTGAACCACTACGTGCAAACT 58.790 47.619 0.00 0.00 31.34 2.66
4289 4371 1.333791 GCTGAACCACTACGTGCAAAC 60.334 52.381 0.00 0.00 31.34 2.93
4290 4372 0.941542 GCTGAACCACTACGTGCAAA 59.058 50.000 0.00 0.00 31.34 3.68
4291 4373 1.218875 CGCTGAACCACTACGTGCAA 61.219 55.000 0.00 0.00 31.34 4.08
4292 4374 1.663388 CGCTGAACCACTACGTGCA 60.663 57.895 0.00 0.00 31.34 4.57
4293 4375 2.380410 CCGCTGAACCACTACGTGC 61.380 63.158 0.00 0.00 31.34 5.34
4294 4376 0.319211 TTCCGCTGAACCACTACGTG 60.319 55.000 0.00 0.00 0.00 4.49
4295 4377 0.606604 ATTCCGCTGAACCACTACGT 59.393 50.000 0.00 0.00 32.13 3.57
4296 4378 1.393539 CAATTCCGCTGAACCACTACG 59.606 52.381 0.00 0.00 32.13 3.51
4297 4379 1.737793 CCAATTCCGCTGAACCACTAC 59.262 52.381 0.00 0.00 32.13 2.73
4298 4380 1.948611 GCCAATTCCGCTGAACCACTA 60.949 52.381 0.00 0.00 32.13 2.74
4299 4381 1.244019 GCCAATTCCGCTGAACCACT 61.244 55.000 0.00 0.00 32.13 4.00
4300 4382 1.212751 GCCAATTCCGCTGAACCAC 59.787 57.895 0.00 0.00 32.13 4.16
4301 4383 0.960364 GAGCCAATTCCGCTGAACCA 60.960 55.000 1.27 0.00 36.48 3.67
4331 4413 7.040755 ACAAATGATTCACTTGACGTCCATTTA 60.041 33.333 14.27 0.00 0.00 1.40
4339 4429 6.574832 CAGTGTTACAAATGATTCACTTGACG 59.425 38.462 14.27 0.00 34.57 4.35
4453 4544 1.117234 CACCGCAACAAAGTAAACGC 58.883 50.000 0.00 0.00 0.00 4.84
4510 4602 3.612860 GCGGAGAACACACATAGTTGTAG 59.387 47.826 0.00 0.00 33.76 2.74
4517 4609 2.871133 CTAACGCGGAGAACACACATA 58.129 47.619 12.47 0.00 0.00 2.29
4539 4631 5.821204 AGATTGACTTTCGTCCAAACTTTG 58.179 37.500 0.00 0.00 39.47 2.77
4540 4632 5.823045 AGAGATTGACTTTCGTCCAAACTTT 59.177 36.000 0.00 0.00 39.47 2.66
4548 4640 1.656095 CGGCAGAGATTGACTTTCGTC 59.344 52.381 0.00 0.00 40.64 4.20
4555 4647 1.364626 CTGGTGCGGCAGAGATTGAC 61.365 60.000 1.18 0.00 0.00 3.18
4560 4652 1.468506 TAACACTGGTGCGGCAGAGA 61.469 55.000 1.18 0.00 0.00 3.10
4712 4805 5.982890 AAAATGATGATTTCCTGTCCGTT 57.017 34.783 0.00 0.00 30.02 4.44
4733 4826 6.607689 ACGATGATTTGCGTATTTGAGAAAA 58.392 32.000 0.00 0.00 39.21 2.29
4734 4827 6.128418 TGACGATGATTTGCGTATTTGAGAAA 60.128 34.615 0.00 0.00 41.34 2.52
4735 4828 5.350091 TGACGATGATTTGCGTATTTGAGAA 59.650 36.000 0.00 0.00 41.34 2.87
4736 4829 4.867608 TGACGATGATTTGCGTATTTGAGA 59.132 37.500 0.00 0.00 41.34 3.27
4737 4830 4.957967 GTGACGATGATTTGCGTATTTGAG 59.042 41.667 0.00 0.00 41.34 3.02
4738 4831 4.629634 AGTGACGATGATTTGCGTATTTGA 59.370 37.500 0.00 0.00 41.34 2.69
4739 4832 4.897224 AGTGACGATGATTTGCGTATTTG 58.103 39.130 0.00 0.00 41.34 2.32
4740 4833 5.545658 AAGTGACGATGATTTGCGTATTT 57.454 34.783 0.00 0.00 41.34 1.40
4741 4834 5.545658 AAAGTGACGATGATTTGCGTATT 57.454 34.783 0.00 0.00 41.34 1.89
4742 4835 5.545658 AAAAGTGACGATGATTTGCGTAT 57.454 34.783 0.00 0.00 41.34 3.06
4743 4836 5.351233 AAAAAGTGACGATGATTTGCGTA 57.649 34.783 0.00 0.00 41.34 4.42
4744 4837 3.896648 AAAAGTGACGATGATTTGCGT 57.103 38.095 0.00 0.00 44.33 5.24
4768 4861 4.213564 AGTGATGATTTCCTGTGTCTCC 57.786 45.455 0.00 0.00 0.00 3.71
4812 4905 8.404107 AGTAACTTAGGCTTTTAGCAATTCAA 57.596 30.769 0.00 0.00 44.75 2.69
4820 4913 6.371825 CAGGTTGGAGTAACTTAGGCTTTTAG 59.628 42.308 0.00 0.00 39.31 1.85
4823 4916 4.349930 TCAGGTTGGAGTAACTTAGGCTTT 59.650 41.667 0.00 0.00 39.31 3.51
4826 4919 3.975168 TCAGGTTGGAGTAACTTAGGC 57.025 47.619 0.00 0.00 39.31 3.93
4827 4920 4.636206 GCAATCAGGTTGGAGTAACTTAGG 59.364 45.833 0.00 0.00 39.31 2.69
4828 4921 4.636206 GGCAATCAGGTTGGAGTAACTTAG 59.364 45.833 0.00 0.00 39.31 2.18
4829 4922 4.042311 TGGCAATCAGGTTGGAGTAACTTA 59.958 41.667 0.00 0.00 39.31 2.24
4830 4923 3.181434 TGGCAATCAGGTTGGAGTAACTT 60.181 43.478 0.00 0.00 39.31 2.66
4831 4924 2.375174 TGGCAATCAGGTTGGAGTAACT 59.625 45.455 0.00 0.00 39.31 2.24
4832 4925 2.488153 GTGGCAATCAGGTTGGAGTAAC 59.512 50.000 0.00 0.00 38.29 2.50
4834 4927 1.004277 GGTGGCAATCAGGTTGGAGTA 59.996 52.381 0.00 0.00 38.29 2.59
4836 4929 1.308069 CGGTGGCAATCAGGTTGGAG 61.308 60.000 0.00 0.00 38.29 3.86
4837 4930 1.303236 CGGTGGCAATCAGGTTGGA 60.303 57.895 0.00 0.00 38.29 3.53
4838 4931 2.342650 CCGGTGGCAATCAGGTTGG 61.343 63.158 0.00 0.00 38.29 3.77
4839 4932 2.342650 CCCGGTGGCAATCAGGTTG 61.343 63.158 0.00 0.00 40.90 3.77
4841 4934 4.047125 CCCCGGTGGCAATCAGGT 62.047 66.667 0.00 0.00 0.00 4.00
4862 4966 7.224167 CGTCTAGAAAGGAAAAACAGTAGTTGT 59.776 37.037 0.00 0.00 43.45 3.32
4877 4981 3.428316 GCACCTCTTCTCGTCTAGAAAGG 60.428 52.174 0.00 10.89 43.66 3.11
4945 5097 4.047125 ACATGGGCCTCCGGGTTG 62.047 66.667 4.53 0.00 35.24 3.77
4965 5117 1.080705 GAACTGGCTACGCGTGACT 60.081 57.895 24.59 0.00 0.00 3.41
4974 5126 1.592400 CGAGGACGGTGAACTGGCTA 61.592 60.000 0.00 0.00 35.72 3.93
4987 5139 0.167689 ACTAAACGAGTCGCGAGGAC 59.832 55.000 10.24 0.00 46.45 3.85
5014 5185 3.133946 CTTCCTCCTCGCTAGGCC 58.866 66.667 0.00 0.00 43.31 5.19
5040 5211 1.342819 CCAGCTCTTTATAGCCTCGCT 59.657 52.381 0.00 0.00 43.86 4.93
5071 5242 4.142227 GCCGAGAAAGGTATGAGTTGTAGA 60.142 45.833 0.00 0.00 0.00 2.59
5072 5243 4.113354 GCCGAGAAAGGTATGAGTTGTAG 58.887 47.826 0.00 0.00 0.00 2.74
5074 5245 2.354805 GGCCGAGAAAGGTATGAGTTGT 60.355 50.000 0.00 0.00 0.00 3.32
5154 5325 2.219080 ACATCATTGTGGGCACATGA 57.781 45.000 0.00 0.00 41.52 3.07
5195 5367 4.265056 GCCGTTGTGGTGGACCCT 62.265 66.667 0.00 0.00 41.21 4.34
5199 5371 2.904866 GCAAGCCGTTGTGGTGGA 60.905 61.111 0.00 0.00 41.21 4.02


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

AutoCloner maintained by Alex Coulton.