Multiple sequence alignment - TraesCS6B01G322200

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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 TraesCS6B01G322200 chr6B 100.000 4016 0 0 1 4016 570956772 570952757 0.000000e+00 7417.0
1 TraesCS6B01G322200 chr6B 92.308 39 3 0 76 114 514667165 514667127 5.610000e-04 56.5
2 TraesCS6B01G322200 chr6B 94.286 35 2 0 70 104 690997789 690997755 2.000000e-03 54.7
3 TraesCS6B01G322200 chr6D 93.253 3335 164 28 53 3340 381985829 381982509 0.000000e+00 4855.0
4 TraesCS6B01G322200 chr6D 94.118 272 13 2 3748 4016 401670279 401670008 1.040000e-110 411.0
5 TraesCS6B01G322200 chr6D 85.897 78 9 1 49 124 163142804 163142727 9.250000e-12 82.4
6 TraesCS6B01G322200 chr6D 97.368 38 1 0 1 38 381988648 381988611 9.320000e-07 65.8
7 TraesCS6B01G322200 chr6A 91.094 2796 178 29 585 3338 523937677 523934911 0.000000e+00 3718.0
8 TraesCS6B01G322200 chr7D 93.917 411 22 2 3342 3750 68946653 68947062 5.700000e-173 617.0
9 TraesCS6B01G322200 chr7D 94.161 274 14 1 3745 4016 324446649 324446922 2.230000e-112 416.0
10 TraesCS6B01G322200 chr7B 93.674 411 24 1 3342 3750 144580783 144580373 7.380000e-172 614.0
11 TraesCS6B01G322200 chr3D 93.674 411 24 1 3342 3750 357436860 357437270 7.380000e-172 614.0
12 TraesCS6B01G322200 chr3D 93.447 412 23 3 3342 3750 558782323 558781913 3.430000e-170 608.0
13 TraesCS6B01G322200 chr3D 93.253 415 24 3 3338 3750 590810264 590809852 3.430000e-170 608.0
14 TraesCS6B01G322200 chr3D 94.545 275 11 3 3745 4016 161729549 161729822 4.800000e-114 422.0
15 TraesCS6B01G322200 chr3D 94.872 273 9 4 3748 4016 558782072 558781801 4.800000e-114 422.0
16 TraesCS6B01G322200 chr3D 94.485 272 12 2 3748 4016 558754340 558754069 2.230000e-112 416.0
17 TraesCS6B01G322200 chr1D 94.103 407 19 3 3339 3741 307271030 307270625 7.380000e-172 614.0
18 TraesCS6B01G322200 chr1D 93.187 411 26 1 3342 3750 277383500 277383090 1.600000e-168 603.0
19 TraesCS6B01G322200 chr1D 93.187 411 24 3 3342 3750 215716259 215715851 5.740000e-168 601.0
20 TraesCS6B01G322200 chr1D 90.566 53 3 1 70 120 387891089 387891037 7.200000e-08 69.4
21 TraesCS6B01G322200 chr2D 93.187 411 25 2 3343 3750 47787808 47787398 5.740000e-168 601.0
22 TraesCS6B01G322200 chr2D 93.841 276 11 5 3744 4015 553887214 553886941 1.040000e-110 411.0
23 TraesCS6B01G322200 chr5B 94.526 274 11 3 3745 4016 255236828 255237099 1.730000e-113 420.0
24 TraesCS6B01G322200 chr4B 94.815 270 11 2 3748 4015 103671011 103670743 6.210000e-113 418.0
25 TraesCS6B01G322200 chr3B 94.444 270 14 1 3748 4016 675170796 675170527 8.030000e-112 414.0
26 TraesCS6B01G322200 chr3B 77.516 467 101 4 1066 1530 413865946 413865482 1.100000e-70 278.0
27 TraesCS6B01G322200 chr1A 87.500 64 7 1 43 105 12761712 12761775 5.570000e-09 73.1
28 TraesCS6B01G322200 chr1A 100.000 30 0 0 75 104 299234191 299234162 5.610000e-04 56.5
29 TraesCS6B01G322200 chr1A 94.118 34 2 0 72 105 402932626 402932593 7.000000e-03 52.8
30 TraesCS6B01G322200 chr4A 93.617 47 3 0 66 112 535818267 535818313 2.000000e-08 71.3
31 TraesCS6B01G322200 chr1B 97.500 40 1 0 76 115 660533694 660533655 7.200000e-08 69.4
32 TraesCS6B01G322200 chr1B 92.683 41 3 0 75 115 598846399 598846439 4.330000e-05 60.2
33 TraesCS6B01G322200 chr7A 91.667 48 4 0 57 104 637823005 637823052 2.590000e-07 67.6
34 TraesCS6B01G322200 chr7A 94.737 38 1 1 15 51 108831845 108831882 1.560000e-04 58.4
35 TraesCS6B01G322200 chr5A 87.719 57 5 1 66 120 603223488 603223432 9.320000e-07 65.8
36 TraesCS6B01G322200 chrUn 92.683 41 3 0 66 106 24671993 24672033 4.330000e-05 60.2
37 TraesCS6B01G322200 chr3A 97.143 35 1 0 70 104 168828570 168828536 4.330000e-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 TraesCS6B01G322200 chr6B 570952757 570956772 4015 True 7417.0 7417 100.0000 1 4016 1 chr6B.!!$R2 4015
1 TraesCS6B01G322200 chr6D 381982509 381988648 6139 True 2460.4 4855 95.3105 1 3340 2 chr6D.!!$R3 3339
2 TraesCS6B01G322200 chr6A 523934911 523937677 2766 True 3718.0 3718 91.0940 585 3338 1 chr6A.!!$R1 2753
3 TraesCS6B01G322200 chr3D 558781801 558782323 522 True 515.0 608 94.1595 3342 4016 2 chr3D.!!$R3 674

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
450 3219 0.040692 GCAGATATGTCCGCGTACGA 60.041 55.0 21.65 0.0 43.93 3.43 F
1535 4309 0.244994 GAGAAGCTCAAGGTCAGCGA 59.755 55.0 0.00 0.0 42.14 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2121 4904 0.178967 TTGGTGGGCAAGAATCTGCA 60.179 50.0 6.92 0.0 44.52 4.41 R
3425 6242 0.535335 TACGAGGGTACGTAGACGGT 59.465 55.0 7.04 0.0 44.72 4.83 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
40 41 7.826260 AAAAAGTTGTTGAAATATATGCGGG 57.174 32.000 0.00 0.00 0.00 6.13
41 42 4.568152 AGTTGTTGAAATATATGCGGGC 57.432 40.909 0.00 0.00 0.00 6.13
43 44 4.036734 AGTTGTTGAAATATATGCGGGCAG 59.963 41.667 0.00 0.00 0.00 4.85
58 2826 3.085119 GCAGCATTGATGGCCACCC 62.085 63.158 8.16 3.21 0.00 4.61
108 2876 0.325602 AGGAAATTTACGGGTCGGCA 59.674 50.000 0.00 0.00 0.00 5.69
224 2992 3.711704 AGACATCAATCACCCCGTTAGAT 59.288 43.478 0.00 0.00 0.00 1.98
225 2993 4.058817 GACATCAATCACCCCGTTAGATC 58.941 47.826 0.00 0.00 0.00 2.75
277 3045 3.401033 AAACTTGGCAGGCCATTTTAC 57.599 42.857 14.71 0.00 46.64 2.01
299 3067 4.141528 ACAATTTTTGCAATTGGAGGGTCA 60.142 37.500 14.11 0.00 40.84 4.02
302 3070 3.959535 TTTGCAATTGGAGGGTCATTC 57.040 42.857 7.72 0.00 0.00 2.67
317 3085 1.027357 CATTCGAGGGCCTTTCATGG 58.973 55.000 7.89 0.00 0.00 3.66
351 3120 4.376225 AAAGTGAGGGGGTTTCGATAAA 57.624 40.909 0.00 0.00 0.00 1.40
385 3154 3.234630 CTCGTTCCCAGCGGTTCCA 62.235 63.158 0.00 0.00 0.00 3.53
406 3175 1.144057 GTCCGACAGTGGGCCATAG 59.856 63.158 10.70 8.22 0.00 2.23
445 3214 2.313172 GGCAGCAGATATGTCCGCG 61.313 63.158 0.00 0.00 0.00 6.46
450 3219 0.040692 GCAGATATGTCCGCGTACGA 60.041 55.000 21.65 0.00 43.93 3.43
461 3230 1.517276 CCGCGTACGAGAAATGTGATC 59.483 52.381 21.65 0.00 43.93 2.92
476 3245 8.511321 AGAAATGTGATCGTATTTAAAAGCACA 58.489 29.630 10.20 10.20 39.06 4.57
542 3311 5.029650 TGCATCAAATTAACTGTCACGTC 57.970 39.130 0.00 0.00 0.00 4.34
553 3322 9.924650 AATTAACTGTCACGTCTAAGTTCTATT 57.075 29.630 8.99 8.11 34.76 1.73
558 3327 8.574737 ACTGTCACGTCTAAGTTCTATTACTTT 58.425 33.333 0.00 0.00 39.08 2.66
562 3331 7.754027 TCACGTCTAAGTTCTATTACTTTCAGC 59.246 37.037 0.00 0.00 39.08 4.26
563 3332 6.746364 ACGTCTAAGTTCTATTACTTTCAGCG 59.254 38.462 0.00 0.00 39.08 5.18
648 3419 4.199310 ACAAAGCAGAGTAGCAACAAGAA 58.801 39.130 0.00 0.00 36.85 2.52
693 3464 2.224450 ACCGTTTGACCGATCTTTTCCT 60.224 45.455 0.00 0.00 0.00 3.36
850 3621 5.552178 ACCAGTCTTACACTCCAAGAAATC 58.448 41.667 0.00 0.00 33.95 2.17
885 3656 6.000219 TGCAAAGAAGAGACTAATCAAGCTT 59.000 36.000 0.00 0.00 0.00 3.74
894 3665 9.950496 AAGAGACTAATCAAGCTTCTAATCAAA 57.050 29.630 0.00 0.00 0.00 2.69
908 3679 2.661176 ATCAAACTCCTACCCAGGGA 57.339 50.000 14.54 0.00 42.87 4.20
909 3680 1.652947 TCAAACTCCTACCCAGGGAC 58.347 55.000 14.54 0.00 42.87 4.46
960 3731 0.514255 CACCAGTCAATGCACACTCG 59.486 55.000 0.00 0.00 0.00 4.18
1020 3794 1.372128 GGCTTTTGACCTTGCAGCG 60.372 57.895 0.00 0.00 0.00 5.18
1228 4002 3.649277 CTCAACGACGAGGCCTGGG 62.649 68.421 19.90 9.32 0.00 4.45
1405 4179 1.202521 CCAACAAGTTTGGCCACTTCC 60.203 52.381 3.88 0.00 34.60 3.46
1535 4309 0.244994 GAGAAGCTCAAGGTCAGCGA 59.755 55.000 0.00 0.00 42.14 4.93
1570 4344 7.823799 ACACACAATTCAGACAAATTTCCTTTT 59.176 29.630 0.00 0.00 0.00 2.27
1571 4345 8.667463 CACACAATTCAGACAAATTTCCTTTTT 58.333 29.630 0.00 0.00 0.00 1.94
1636 4410 8.519492 TCTTCAAATTTCGGTTCAATTTCATC 57.481 30.769 0.00 0.00 32.57 2.92
1637 4411 8.140628 TCTTCAAATTTCGGTTCAATTTCATCA 58.859 29.630 0.00 0.00 32.57 3.07
1674 4448 8.839310 ATATTGTACGTACGTCCTAGAATAGT 57.161 34.615 26.53 9.16 36.82 2.12
1675 4449 6.985188 TTGTACGTACGTCCTAGAATAGTT 57.015 37.500 26.53 0.00 36.82 2.24
1676 4450 6.349973 TGTACGTACGTCCTAGAATAGTTG 57.650 41.667 26.53 0.00 36.82 3.16
1677 4451 4.284378 ACGTACGTCCTAGAATAGTTGC 57.716 45.455 16.72 0.00 36.82 4.17
1679 4453 3.065786 CGTACGTCCTAGAATAGTTGCCA 59.934 47.826 7.22 0.00 36.82 4.92
1684 4465 4.620803 CGTCCTAGAATAGTTGCCACAAGT 60.621 45.833 0.00 0.00 36.82 3.16
1685 4466 4.631813 GTCCTAGAATAGTTGCCACAAGTG 59.368 45.833 0.00 0.00 36.82 3.16
1701 4482 8.014862 GCCACAAGTGTGATTAGTTATGGCTT 62.015 42.308 13.02 0.00 45.64 4.35
1707 4488 8.438676 AGTGTGATTAGTTATGGCTTATTGTC 57.561 34.615 0.00 0.00 0.00 3.18
1752 4533 0.536233 TGCTACCGGCTTTTTCTGCA 60.536 50.000 0.00 0.00 42.39 4.41
1792 4573 2.042162 ACCAGATGGAAGGAGTTGCATT 59.958 45.455 5.72 0.00 44.16 3.56
1860 4641 1.210478 CTCACCGGGGATGTCATTTCT 59.790 52.381 6.99 0.00 0.00 2.52
1875 4656 1.841663 TTTCTCGCACAGCTTTCGGC 61.842 55.000 0.00 0.00 42.19 5.54
1944 4725 1.400242 GCTAAGCTCTTTGTTGGTGCG 60.400 52.381 0.00 0.00 0.00 5.34
2035 4817 9.677567 TTTGCTAATTTCTGAGTGTGTTAAATC 57.322 29.630 0.00 0.00 0.00 2.17
2047 4829 8.567948 TGAGTGTGTTAAATCTCTTGAAAATCC 58.432 33.333 0.00 0.00 0.00 3.01
2066 4849 9.125026 GAAAATCCCAATCAGTATTAGTCATGT 57.875 33.333 0.00 0.00 0.00 3.21
2068 4851 9.561069 AAATCCCAATCAGTATTAGTCATGTAC 57.439 33.333 0.00 0.00 0.00 2.90
2121 4904 0.252696 TGGGACCTGCCTGATGTACT 60.253 55.000 0.00 0.00 36.66 2.73
2153 4936 3.198635 TGCCCACCAAGAACAATTTGAAA 59.801 39.130 2.79 0.00 0.00 2.69
2184 4967 7.116805 GCAAAAACAATAAGGAGGTTGAATCAG 59.883 37.037 0.00 0.00 0.00 2.90
2240 5023 5.355350 AGCTATGGAAGAAGGTGAAAAATCG 59.645 40.000 0.00 0.00 0.00 3.34
2252 5035 6.624423 AGGTGAAAAATCGGAAAATGATCTG 58.376 36.000 0.00 0.00 0.00 2.90
2286 5069 6.544928 TGCTAGAGTCAAATATGAAGGACA 57.455 37.500 0.00 0.00 37.30 4.02
2561 5359 9.651913 ATTTTGTTTGTAACATGACTTTGAAGT 57.348 25.926 0.00 0.00 41.79 3.01
2679 5486 4.033709 ACAAGGATATGGATATCGGAGGG 58.966 47.826 0.00 0.00 39.98 4.30
2724 5531 3.197766 TCATCGAGGTGCCAGTTCTATTT 59.802 43.478 0.00 0.00 0.00 1.40
2808 5615 1.063417 CAGGGGATTTCCAAGGCATCT 60.063 52.381 0.00 0.00 37.91 2.90
2979 5786 0.880441 CCGTGATGACATTGCAACCA 59.120 50.000 0.00 0.23 0.00 3.67
3095 5902 6.017109 TGTTGGCTTTTGTAAGATGAACTCTC 60.017 38.462 0.00 0.00 31.03 3.20
3290 6106 9.959749 GAAAAATAACTTTTGACTATGGTGTCA 57.040 29.630 0.00 0.00 44.17 3.58
3321 6137 4.982295 CGTGGTCAAGAATAATATGAGCGA 59.018 41.667 0.00 0.00 42.80 4.93
3331 6147 1.656652 ATATGAGCGAAGGTGTGCAC 58.343 50.000 10.75 10.75 39.88 4.57
3340 6156 2.971428 AAGGTGTGCACGTCGTCCTG 62.971 60.000 13.13 0.00 0.00 3.86
3350 6166 1.302271 GTCGTCCTGGTTGGGGAAC 60.302 63.158 0.00 0.00 34.35 3.62
3394 6211 5.304357 TCCTAGGATCACGCAAAATCTATCA 59.696 40.000 7.62 0.00 0.00 2.15
3412 6229 3.070476 TCAAGGTGATGCATAGCAACA 57.930 42.857 0.00 0.00 43.62 3.33
3425 6242 2.327325 AGCAACAAGAGGGGAGAGTA 57.673 50.000 0.00 0.00 0.00 2.59
3426 6243 1.903183 AGCAACAAGAGGGGAGAGTAC 59.097 52.381 0.00 0.00 0.00 2.73
3427 6244 1.066071 GCAACAAGAGGGGAGAGTACC 60.066 57.143 0.00 0.00 0.00 3.34
3431 6248 2.712640 AGAGGGGAGAGTACCGTCT 58.287 57.895 0.00 0.00 45.55 4.18
3473 6290 1.065358 CGGAAGCGTTATGACAACGT 58.935 50.000 10.77 0.00 44.69 3.99
3490 6307 4.171005 CAACGTGGTTGATGTAGTCGTAT 58.829 43.478 2.40 0.00 45.28 3.06
3498 6315 5.515626 GGTTGATGTAGTCGTATGTCTTCAC 59.484 44.000 0.00 0.00 0.00 3.18
3518 6335 0.241481 GATCCGACCGATCCTAGCAC 59.759 60.000 0.00 0.00 41.51 4.40
3564 6381 0.667487 CACACGTTCAGCTCGGTGAT 60.667 55.000 9.25 0.00 34.24 3.06
3571 6388 0.977627 TCAGCTCGGTGATGTCCCAT 60.978 55.000 0.00 0.00 33.14 4.00
3572 6389 0.812811 CAGCTCGGTGATGTCCCATG 60.813 60.000 0.00 0.00 0.00 3.66
3590 6407 3.387374 CCATGAACTCTAGATCCAGCTGT 59.613 47.826 13.81 0.00 0.00 4.40
3646 6463 5.755375 GTGATGACGGTGATGATGAAGTTAT 59.245 40.000 0.00 0.00 0.00 1.89
3650 6467 5.201713 ACGGTGATGATGAAGTTATCGAT 57.798 39.130 2.16 2.16 0.00 3.59
3653 6470 4.751600 GGTGATGATGAAGTTATCGATGCA 59.248 41.667 8.54 0.00 0.00 3.96
3654 6471 5.107182 GGTGATGATGAAGTTATCGATGCAG 60.107 44.000 8.54 0.00 0.00 4.41
3655 6472 4.992951 TGATGATGAAGTTATCGATGCAGG 59.007 41.667 8.54 0.00 0.00 4.85
3656 6473 3.732212 TGATGAAGTTATCGATGCAGGG 58.268 45.455 8.54 0.00 0.00 4.45
3657 6474 1.953559 TGAAGTTATCGATGCAGGGC 58.046 50.000 8.54 0.00 0.00 5.19
3658 6475 1.486310 TGAAGTTATCGATGCAGGGCT 59.514 47.619 8.54 0.00 0.00 5.19
3659 6476 2.092968 TGAAGTTATCGATGCAGGGCTT 60.093 45.455 8.54 3.25 0.00 4.35
3660 6477 2.246719 AGTTATCGATGCAGGGCTTC 57.753 50.000 8.54 0.00 0.00 3.86
3677 6494 1.654105 CTTCGCCTAAGCACTACAACG 59.346 52.381 0.00 0.00 39.83 4.10
3678 6495 0.883153 TCGCCTAAGCACTACAACGA 59.117 50.000 0.00 0.00 39.83 3.85
3679 6496 1.475280 TCGCCTAAGCACTACAACGAT 59.525 47.619 0.00 0.00 39.83 3.73
3680 6497 2.684374 TCGCCTAAGCACTACAACGATA 59.316 45.455 0.00 0.00 39.83 2.92
3681 6498 2.787680 CGCCTAAGCACTACAACGATAC 59.212 50.000 0.00 0.00 39.83 2.24
3682 6499 2.787680 GCCTAAGCACTACAACGATACG 59.212 50.000 0.00 0.00 39.53 3.06
3683 6500 3.488047 GCCTAAGCACTACAACGATACGA 60.488 47.826 0.00 0.00 39.53 3.43
3684 6501 4.033684 CCTAAGCACTACAACGATACGAC 58.966 47.826 0.00 0.00 0.00 4.34
3685 6502 2.556534 AGCACTACAACGATACGACC 57.443 50.000 0.00 0.00 0.00 4.79
3686 6503 1.186030 GCACTACAACGATACGACCG 58.814 55.000 0.00 0.00 0.00 4.79
3687 6504 1.202065 GCACTACAACGATACGACCGA 60.202 52.381 0.00 0.00 0.00 4.69
3688 6505 2.701807 CACTACAACGATACGACCGAG 58.298 52.381 0.00 0.00 0.00 4.63
3689 6506 1.667724 ACTACAACGATACGACCGAGG 59.332 52.381 0.00 0.00 0.00 4.63
3690 6507 1.667724 CTACAACGATACGACCGAGGT 59.332 52.381 0.00 0.00 0.00 3.85
3691 6508 0.169672 ACAACGATACGACCGAGGTG 59.830 55.000 0.00 0.00 0.00 4.00
3692 6509 0.524816 CAACGATACGACCGAGGTGG 60.525 60.000 0.00 0.14 46.41 4.61
3693 6510 0.677731 AACGATACGACCGAGGTGGA 60.678 55.000 11.22 0.00 42.00 4.02
3694 6511 0.677731 ACGATACGACCGAGGTGGAA 60.678 55.000 11.22 0.00 42.00 3.53
3695 6512 0.452987 CGATACGACCGAGGTGGAAA 59.547 55.000 11.22 0.00 42.00 3.13
3696 6513 1.066605 CGATACGACCGAGGTGGAAAT 59.933 52.381 11.22 4.31 42.00 2.17
3697 6514 2.740452 GATACGACCGAGGTGGAAATC 58.260 52.381 11.22 9.22 42.00 2.17
3698 6515 1.843368 TACGACCGAGGTGGAAATCT 58.157 50.000 11.22 0.00 42.00 2.40
3699 6516 0.246635 ACGACCGAGGTGGAAATCTG 59.753 55.000 11.22 0.00 42.00 2.90
3700 6517 0.246635 CGACCGAGGTGGAAATCTGT 59.753 55.000 0.00 0.00 42.00 3.41
3701 6518 1.726853 GACCGAGGTGGAAATCTGTG 58.273 55.000 0.00 0.00 42.00 3.66
3702 6519 0.324943 ACCGAGGTGGAAATCTGTGG 59.675 55.000 0.00 0.00 42.00 4.17
3703 6520 0.613260 CCGAGGTGGAAATCTGTGGA 59.387 55.000 0.00 0.00 42.00 4.02
3704 6521 1.406069 CCGAGGTGGAAATCTGTGGAG 60.406 57.143 0.00 0.00 42.00 3.86
3705 6522 1.550524 CGAGGTGGAAATCTGTGGAGA 59.449 52.381 0.00 0.00 0.00 3.71
3706 6523 2.417924 CGAGGTGGAAATCTGTGGAGAG 60.418 54.545 0.00 0.00 0.00 3.20
3707 6524 1.912043 AGGTGGAAATCTGTGGAGAGG 59.088 52.381 0.00 0.00 0.00 3.69
3708 6525 1.065126 GGTGGAAATCTGTGGAGAGGG 60.065 57.143 0.00 0.00 0.00 4.30
3709 6526 1.065126 GTGGAAATCTGTGGAGAGGGG 60.065 57.143 0.00 0.00 0.00 4.79
3710 6527 0.106967 GGAAATCTGTGGAGAGGGGC 60.107 60.000 0.00 0.00 0.00 5.80
3711 6528 0.620556 GAAATCTGTGGAGAGGGGCA 59.379 55.000 0.00 0.00 0.00 5.36
3712 6529 0.329596 AAATCTGTGGAGAGGGGCAC 59.670 55.000 0.00 0.00 0.00 5.01
3731 6548 3.290098 CGCACACGGCTAAACAATC 57.710 52.632 0.00 0.00 41.67 2.67
3732 6549 0.515127 CGCACACGGCTAAACAATCA 59.485 50.000 0.00 0.00 41.67 2.57
3733 6550 1.069568 CGCACACGGCTAAACAATCAA 60.070 47.619 0.00 0.00 41.67 2.57
3734 6551 2.315901 GCACACGGCTAAACAATCAAC 58.684 47.619 0.00 0.00 40.25 3.18
3735 6552 2.031157 GCACACGGCTAAACAATCAACT 60.031 45.455 0.00 0.00 40.25 3.16
3736 6553 3.550030 GCACACGGCTAAACAATCAACTT 60.550 43.478 0.00 0.00 40.25 2.66
3737 6554 3.974401 CACACGGCTAAACAATCAACTTG 59.026 43.478 0.00 0.00 40.90 3.16
3738 6555 7.936359 GCACACGGCTAAACAATCAACTTGT 62.936 44.000 0.00 0.00 44.30 3.16
3748 6565 4.335416 ACAATCAACTTGTGTCTATGGGG 58.665 43.478 0.00 0.00 46.37 4.96
3749 6566 4.202567 ACAATCAACTTGTGTCTATGGGGT 60.203 41.667 0.00 0.00 46.37 4.95
3750 6567 3.695830 TCAACTTGTGTCTATGGGGTC 57.304 47.619 0.00 0.00 0.00 4.46
3751 6568 2.028476 TCAACTTGTGTCTATGGGGTCG 60.028 50.000 0.00 0.00 0.00 4.79
3752 6569 1.933021 ACTTGTGTCTATGGGGTCGA 58.067 50.000 0.00 0.00 0.00 4.20
3753 6570 1.825474 ACTTGTGTCTATGGGGTCGAG 59.175 52.381 0.00 0.00 0.00 4.04
3754 6571 1.137086 CTTGTGTCTATGGGGTCGAGG 59.863 57.143 0.00 0.00 0.00 4.63
3755 6572 0.686441 TGTGTCTATGGGGTCGAGGG 60.686 60.000 0.00 0.00 0.00 4.30
3756 6573 0.396695 GTGTCTATGGGGTCGAGGGA 60.397 60.000 0.00 0.00 0.00 4.20
3757 6574 0.106167 TGTCTATGGGGTCGAGGGAG 60.106 60.000 0.00 0.00 0.00 4.30
3758 6575 0.185416 GTCTATGGGGTCGAGGGAGA 59.815 60.000 0.00 0.00 0.00 3.71
3759 6576 0.478942 TCTATGGGGTCGAGGGAGAG 59.521 60.000 0.00 0.00 0.00 3.20
3760 6577 0.186386 CTATGGGGTCGAGGGAGAGT 59.814 60.000 0.00 0.00 0.00 3.24
3761 6578 0.635009 TATGGGGTCGAGGGAGAGTT 59.365 55.000 0.00 0.00 0.00 3.01
3762 6579 0.252742 ATGGGGTCGAGGGAGAGTTT 60.253 55.000 0.00 0.00 0.00 2.66
3763 6580 0.903454 TGGGGTCGAGGGAGAGTTTC 60.903 60.000 0.00 0.00 0.00 2.78
3764 6581 1.511768 GGGTCGAGGGAGAGTTTCG 59.488 63.158 0.00 0.00 35.76 3.46
3765 6582 1.249469 GGGTCGAGGGAGAGTTTCGT 61.249 60.000 0.00 0.00 35.90 3.85
3766 6583 0.170784 GGTCGAGGGAGAGTTTCGTC 59.829 60.000 0.00 0.00 35.90 4.20
3767 6584 0.879765 GTCGAGGGAGAGTTTCGTCA 59.120 55.000 0.00 0.00 35.90 4.35
3768 6585 1.135632 GTCGAGGGAGAGTTTCGTCAG 60.136 57.143 0.00 0.00 35.90 3.51
3769 6586 0.456995 CGAGGGAGAGTTTCGTCAGC 60.457 60.000 0.00 0.00 0.00 4.26
3770 6587 0.603569 GAGGGAGAGTTTCGTCAGCA 59.396 55.000 0.00 0.00 0.00 4.41
3771 6588 0.318762 AGGGAGAGTTTCGTCAGCAC 59.681 55.000 0.00 0.00 0.00 4.40
3796 6613 1.843992 CGTGATGACGCTGATGATGA 58.156 50.000 0.00 0.00 39.10 2.92
3797 6614 2.195922 CGTGATGACGCTGATGATGAA 58.804 47.619 0.00 0.00 39.10 2.57
3798 6615 2.218075 CGTGATGACGCTGATGATGAAG 59.782 50.000 0.00 0.00 39.10 3.02
3799 6616 3.193263 GTGATGACGCTGATGATGAAGT 58.807 45.455 0.00 0.00 0.00 3.01
3800 6617 3.620374 GTGATGACGCTGATGATGAAGTT 59.380 43.478 0.00 0.00 0.00 2.66
3801 6618 4.805719 GTGATGACGCTGATGATGAAGTTA 59.194 41.667 0.00 0.00 0.00 2.24
3802 6619 5.464722 GTGATGACGCTGATGATGAAGTTAT 59.535 40.000 0.00 0.00 0.00 1.89
3803 6620 5.693555 TGATGACGCTGATGATGAAGTTATC 59.306 40.000 0.00 0.00 0.00 1.75
3804 6621 4.044426 TGACGCTGATGATGAAGTTATCG 58.956 43.478 0.00 0.00 0.00 2.92
3805 6622 3.384668 ACGCTGATGATGAAGTTATCGG 58.615 45.455 0.00 0.00 33.48 4.18
3806 6623 2.156504 CGCTGATGATGAAGTTATCGGC 59.843 50.000 6.99 6.99 46.41 5.54
3807 6624 2.156504 GCTGATGATGAAGTTATCGGCG 59.843 50.000 0.00 0.00 42.90 6.46
3808 6625 3.384668 CTGATGATGAAGTTATCGGCGT 58.615 45.455 6.85 0.00 0.00 5.68
3842 6659 3.079960 AGCACTACAACGATATGACCG 57.920 47.619 0.00 0.00 0.00 4.79
3843 6660 2.686405 AGCACTACAACGATATGACCGA 59.314 45.455 0.00 0.00 0.00 4.69
3845 6662 3.629058 CACTACAACGATATGACCGAGG 58.371 50.000 0.00 0.00 0.00 4.63
3846 6663 3.066342 CACTACAACGATATGACCGAGGT 59.934 47.826 0.00 0.00 0.00 3.85
3848 6665 2.097036 ACAACGATATGACCGAGGTGA 58.903 47.619 0.00 0.00 0.00 4.02
3891 6708 2.920647 GCACACGGCTAAACAATCAACC 60.921 50.000 0.00 0.00 40.25 3.77
3900 6719 5.648092 GGCTAAACAATCAACCTGTGTCTAT 59.352 40.000 0.00 0.00 0.00 1.98
4007 6828 2.292984 CCCAGTAGGAGTAGGTTTCCCT 60.293 54.545 0.00 0.00 41.09 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 2.760799 TGGCCATCAATGCTGCCC 60.761 61.111 0.00 0.00 43.35 5.36
39 40 2.497770 GTGGCCATCAATGCTGCC 59.502 61.111 9.72 3.99 44.27 4.85
40 41 2.497770 GGTGGCCATCAATGCTGC 59.502 61.111 12.38 0.00 0.00 5.25
41 42 2.428925 GGGGTGGCCATCAATGCTG 61.429 63.158 20.00 0.00 0.00 4.41
43 44 3.156556 GGGGGTGGCCATCAATGC 61.157 66.667 20.00 0.00 0.00 3.56
120 2888 7.981789 TGATAGTTTTGTCATCTATGTGAGGTC 59.018 37.037 0.00 0.00 0.00 3.85
208 2976 3.543680 ACTGATCTAACGGGGTGATTG 57.456 47.619 0.00 0.00 0.00 2.67
224 2992 5.931412 CAGCAAGCATTGATAGCCAACTGA 61.931 45.833 0.00 0.00 46.84 3.41
225 2993 3.733988 CAGCAAGCATTGATAGCCAACTG 60.734 47.826 0.00 0.00 46.84 3.16
277 3045 4.387598 TGACCCTCCAATTGCAAAAATTG 58.612 39.130 1.71 3.50 37.38 2.32
299 3067 0.106519 CCCATGAAAGGCCCTCGAAT 60.107 55.000 0.00 0.00 0.00 3.34
302 3070 0.254747 TTACCCATGAAAGGCCCTCG 59.745 55.000 0.00 0.00 0.00 4.63
332 3101 4.376225 TTTTTATCGAAACCCCCTCACT 57.624 40.909 0.00 0.00 0.00 3.41
356 3125 1.340211 TGGGAACGAGGTGTTTGTGTT 60.340 47.619 0.00 0.00 42.09 3.32
360 3129 1.841663 CGCTGGGAACGAGGTGTTTG 61.842 60.000 0.00 0.00 42.09 2.93
361 3130 1.597027 CGCTGGGAACGAGGTGTTT 60.597 57.895 0.00 0.00 42.09 2.83
362 3131 2.030562 CGCTGGGAACGAGGTGTT 59.969 61.111 0.00 0.00 45.61 3.32
385 3154 3.626924 GGCCCACTGTCGGACACT 61.627 66.667 6.76 0.00 0.00 3.55
411 3180 2.890474 CCTATGTGGCACGTCGGC 60.890 66.667 17.00 4.92 41.67 5.54
450 3219 8.511321 TGTGCTTTTAAATACGATCACATTTCT 58.489 29.630 5.11 0.00 0.00 2.52
461 3230 9.820229 TCTAACTTGATTGTGCTTTTAAATACG 57.180 29.630 0.00 0.00 0.00 3.06
611 3382 6.466812 TCTGCTTTGTCACTGATCTCATTTA 58.533 36.000 0.00 0.00 0.00 1.40
669 3440 0.953960 AAGATCGGTCAAACGGTGGC 60.954 55.000 0.00 0.00 0.00 5.01
693 3464 3.832490 TGGAGGAGAAGAAAGTTCGATCA 59.168 43.478 0.00 0.00 0.00 2.92
850 3621 8.862550 AGTCTCTTCTTTGCATTTGTTTTAAG 57.137 30.769 0.00 0.00 0.00 1.85
908 3679 5.047943 GGCATCGTCTTATATAGAGGTGTGT 60.048 44.000 0.00 0.00 39.30 3.72
909 3680 5.048013 TGGCATCGTCTTATATAGAGGTGTG 60.048 44.000 0.00 0.00 39.30 3.82
960 3731 2.762535 TGTTGGGCTACTAGCTGAAC 57.237 50.000 7.99 10.66 41.99 3.18
1405 4179 2.045926 CGGGAACTGGGGCTTCTG 60.046 66.667 0.00 0.00 0.00 3.02
1543 4317 6.275335 AGGAAATTTGTCTGAATTGTGTGTG 58.725 36.000 0.00 0.00 30.06 3.82
1544 4318 6.469782 AGGAAATTTGTCTGAATTGTGTGT 57.530 33.333 0.00 0.00 30.06 3.72
1572 4346 6.112994 GGAAATTTGTCTTTTCCGCAAAAA 57.887 33.333 0.00 0.00 41.86 1.94
1606 4380 9.757227 AAATTGAACCGAAATTTGAAGATAACA 57.243 25.926 0.00 0.00 36.21 2.41
1654 4428 5.201181 GCAACTATTCTAGGACGTACGTAC 58.799 45.833 23.27 23.27 0.00 3.67
1658 4432 4.142315 TGTGGCAACTATTCTAGGACGTAC 60.142 45.833 0.00 0.00 37.61 3.67
1664 4438 4.393062 CACACTTGTGGCAACTATTCTAGG 59.607 45.833 5.72 0.00 42.10 3.02
1665 4439 5.237815 TCACACTTGTGGCAACTATTCTAG 58.762 41.667 9.46 0.00 45.65 2.43
1666 4440 5.222079 TCACACTTGTGGCAACTATTCTA 57.778 39.130 9.46 0.00 45.65 2.10
1668 4442 5.376854 AATCACACTTGTGGCAACTATTC 57.623 39.130 9.46 0.00 45.65 1.75
1669 4443 6.003950 ACTAATCACACTTGTGGCAACTATT 58.996 36.000 9.46 3.78 45.65 1.73
1674 4448 5.182950 CCATAACTAATCACACTTGTGGCAA 59.817 40.000 9.46 0.00 45.65 4.52
1675 4449 4.699735 CCATAACTAATCACACTTGTGGCA 59.300 41.667 9.46 0.00 45.65 4.92
1676 4450 4.438744 GCCATAACTAATCACACTTGTGGC 60.439 45.833 9.46 1.88 45.65 5.01
1677 4451 4.943705 AGCCATAACTAATCACACTTGTGG 59.056 41.667 9.46 0.00 45.65 4.17
1679 4453 8.677300 CAATAAGCCATAACTAATCACACTTGT 58.323 33.333 0.00 0.00 0.00 3.16
1684 4465 8.046708 ACTGACAATAAGCCATAACTAATCACA 58.953 33.333 0.00 0.00 0.00 3.58
1685 4466 8.438676 ACTGACAATAAGCCATAACTAATCAC 57.561 34.615 0.00 0.00 0.00 3.06
1707 4488 7.307694 TGAGCTGCAAATTAAGTCATAAACTG 58.692 34.615 1.02 0.00 38.58 3.16
1792 4573 2.434185 GCACGATCCGCCAGAACA 60.434 61.111 0.00 0.00 0.00 3.18
1860 4641 3.043713 CTGCCGAAAGCTGTGCGA 61.044 61.111 4.89 0.00 44.23 5.10
1875 4656 3.452474 CCTTCCTTCGAGATAACTGCTG 58.548 50.000 0.00 0.00 0.00 4.41
1944 4725 4.323562 CCCGGAATAATAATCCTCTGGACC 60.324 50.000 0.73 0.00 36.58 4.46
2005 4787 5.067674 ACACACTCAGAAATTAGCAAAAGCA 59.932 36.000 0.00 0.00 0.00 3.91
2020 4802 9.604626 GATTTTCAAGAGATTTAACACACTCAG 57.395 33.333 0.00 0.00 32.59 3.35
2024 4806 7.657336 TGGGATTTTCAAGAGATTTAACACAC 58.343 34.615 0.00 0.00 0.00 3.82
2027 4809 9.087871 TGATTGGGATTTTCAAGAGATTTAACA 57.912 29.630 0.00 0.00 0.00 2.41
2028 4810 9.578439 CTGATTGGGATTTTCAAGAGATTTAAC 57.422 33.333 0.00 0.00 0.00 2.01
2035 4817 9.401058 ACTAATACTGATTGGGATTTTCAAGAG 57.599 33.333 0.00 0.00 0.00 2.85
2091 4874 1.883926 GCAGGTCCCACAACGTAAAAT 59.116 47.619 0.00 0.00 0.00 1.82
2121 4904 0.178967 TTGGTGGGCAAGAATCTGCA 60.179 50.000 6.92 0.00 44.52 4.41
2153 4936 4.244862 CCTCCTTATTGTTTTTGCGCATT 58.755 39.130 12.75 0.00 0.00 3.56
2240 5023 2.883386 CAGGCCTAGCAGATCATTTTCC 59.117 50.000 3.98 0.00 0.00 3.13
2252 5035 0.827368 ACTCTAGCAACAGGCCTAGC 59.173 55.000 3.98 10.77 46.50 3.42
2286 5069 0.394352 GGTTGGCCATTCTCGTCCAT 60.394 55.000 6.09 0.00 34.09 3.41
2504 5287 3.537580 TCAGCAAGTACTCACCGTTTTT 58.462 40.909 0.00 0.00 0.00 1.94
2566 5364 8.023128 CACCTACAATTAGTGGAAAGACAAATG 58.977 37.037 0.00 0.00 0.00 2.32
2571 5378 5.642491 GGTCACCTACAATTAGTGGAAAGAC 59.358 44.000 0.00 0.00 0.00 3.01
2658 5465 3.389329 CCCCTCCGATATCCATATCCTTG 59.611 52.174 0.00 0.00 36.62 3.61
2724 5531 7.366191 CCCCATATGTCTGGATCATGATTGATA 60.366 40.741 10.14 7.74 42.73 2.15
2808 5615 3.750373 GAAGGCGCCCGGATGCTTA 62.750 63.158 26.15 0.00 0.00 3.09
2895 5702 3.920231 TGCTGAAGGATCATGCTTAGT 57.080 42.857 0.00 0.00 34.37 2.24
2979 5786 2.669300 TAATTTGCGCACCATGCATT 57.331 40.000 11.12 4.52 45.36 3.56
3053 5860 4.854839 GCCAACATTGTTTACACCGATAAC 59.145 41.667 0.00 0.00 0.00 1.89
3125 5932 9.577110 CAAATGCATAGTTCATCTTACACAAAT 57.423 29.630 0.00 0.00 0.00 2.32
3321 6137 2.279918 GGACGACGTGCACACCTT 60.280 61.111 18.64 0.54 0.00 3.50
3331 6147 2.874664 TTCCCCAACCAGGACGACG 61.875 63.158 0.00 0.00 41.22 5.12
3340 6156 1.541379 AATTACTGCGTTCCCCAACC 58.459 50.000 0.00 0.00 0.00 3.77
3375 6192 4.576463 ACCTTGATAGATTTTGCGTGATCC 59.424 41.667 0.00 0.00 0.00 3.36
3386 6203 5.872963 TGCTATGCATCACCTTGATAGATT 58.127 37.500 0.19 0.00 34.28 2.40
3394 6211 3.689347 TCTTGTTGCTATGCATCACCTT 58.311 40.909 0.19 0.00 37.87 3.50
3412 6229 1.001282 AGACGGTACTCTCCCCTCTT 58.999 55.000 0.00 0.00 0.00 2.85
3425 6242 0.535335 TACGAGGGTACGTAGACGGT 59.465 55.000 7.04 0.00 44.72 4.83
3426 6243 3.362581 TACGAGGGTACGTAGACGG 57.637 57.895 7.04 0.00 44.72 4.79
3473 6290 5.184287 TGAAGACATACGACTACATCAACCA 59.816 40.000 0.00 0.00 0.00 3.67
3490 6307 0.956902 TCGGTCGGATCGTGAAGACA 60.957 55.000 10.85 0.00 35.49 3.41
3529 6346 3.068064 TGCAGATCGCGGAGGTGA 61.068 61.111 6.13 0.00 46.97 4.02
3571 6388 2.762887 CCACAGCTGGATCTAGAGTTCA 59.237 50.000 19.93 0.00 40.55 3.18
3572 6389 2.763448 ACCACAGCTGGATCTAGAGTTC 59.237 50.000 19.93 0.00 40.55 3.01
3590 6407 0.538977 ACGAAACTCTCCCTCGACCA 60.539 55.000 0.00 0.00 36.45 4.02
3619 6436 0.461548 ATCATCACCGTCATCACGCT 59.538 50.000 0.00 0.00 45.29 5.07
3657 6474 1.654105 CGTTGTAGTGCTTAGGCGAAG 59.346 52.381 2.68 2.68 42.25 3.79
3658 6475 1.270274 TCGTTGTAGTGCTTAGGCGAA 59.730 47.619 0.00 0.00 42.25 4.70
3659 6476 0.883153 TCGTTGTAGTGCTTAGGCGA 59.117 50.000 0.00 0.00 42.25 5.54
3660 6477 1.922570 ATCGTTGTAGTGCTTAGGCG 58.077 50.000 0.00 0.00 42.25 5.52
3661 6478 2.787680 CGTATCGTTGTAGTGCTTAGGC 59.212 50.000 0.00 0.00 39.26 3.93
3662 6479 4.033684 GTCGTATCGTTGTAGTGCTTAGG 58.966 47.826 0.00 0.00 0.00 2.69
3663 6480 4.033684 GGTCGTATCGTTGTAGTGCTTAG 58.966 47.826 0.00 0.00 0.00 2.18
3664 6481 3.485711 CGGTCGTATCGTTGTAGTGCTTA 60.486 47.826 0.00 0.00 0.00 3.09
3665 6482 2.730090 CGGTCGTATCGTTGTAGTGCTT 60.730 50.000 0.00 0.00 0.00 3.91
3666 6483 1.202110 CGGTCGTATCGTTGTAGTGCT 60.202 52.381 0.00 0.00 0.00 4.40
3667 6484 1.186030 CGGTCGTATCGTTGTAGTGC 58.814 55.000 0.00 0.00 0.00 4.40
3668 6485 2.538333 CCTCGGTCGTATCGTTGTAGTG 60.538 54.545 0.00 0.00 0.00 2.74
3669 6486 1.667724 CCTCGGTCGTATCGTTGTAGT 59.332 52.381 0.00 0.00 0.00 2.73
3670 6487 1.667724 ACCTCGGTCGTATCGTTGTAG 59.332 52.381 0.00 0.00 0.00 2.74
3671 6488 1.398041 CACCTCGGTCGTATCGTTGTA 59.602 52.381 0.00 0.00 0.00 2.41
3672 6489 0.169672 CACCTCGGTCGTATCGTTGT 59.830 55.000 0.00 0.00 0.00 3.32
3673 6490 0.524816 CCACCTCGGTCGTATCGTTG 60.525 60.000 0.00 0.00 0.00 4.10
3674 6491 0.677731 TCCACCTCGGTCGTATCGTT 60.678 55.000 0.00 0.00 35.57 3.85
3675 6492 0.677731 TTCCACCTCGGTCGTATCGT 60.678 55.000 0.00 0.00 35.57 3.73
3676 6493 0.452987 TTTCCACCTCGGTCGTATCG 59.547 55.000 0.00 0.00 35.57 2.92
3677 6494 2.361438 AGATTTCCACCTCGGTCGTATC 59.639 50.000 0.00 0.00 35.57 2.24
3678 6495 2.100916 CAGATTTCCACCTCGGTCGTAT 59.899 50.000 0.00 0.00 35.57 3.06
3679 6496 1.475280 CAGATTTCCACCTCGGTCGTA 59.525 52.381 0.00 0.00 35.57 3.43
3680 6497 0.246635 CAGATTTCCACCTCGGTCGT 59.753 55.000 0.00 0.00 35.57 4.34
3681 6498 0.246635 ACAGATTTCCACCTCGGTCG 59.753 55.000 0.00 0.00 35.57 4.79
3682 6499 1.676014 CCACAGATTTCCACCTCGGTC 60.676 57.143 0.00 0.00 35.57 4.79
3683 6500 0.324943 CCACAGATTTCCACCTCGGT 59.675 55.000 0.00 0.00 35.57 4.69
3684 6501 0.613260 TCCACAGATTTCCACCTCGG 59.387 55.000 0.00 0.00 0.00 4.63
3685 6502 1.550524 TCTCCACAGATTTCCACCTCG 59.449 52.381 0.00 0.00 0.00 4.63
3686 6503 2.093235 CCTCTCCACAGATTTCCACCTC 60.093 54.545 0.00 0.00 0.00 3.85
3687 6504 1.912043 CCTCTCCACAGATTTCCACCT 59.088 52.381 0.00 0.00 0.00 4.00
3688 6505 1.065126 CCCTCTCCACAGATTTCCACC 60.065 57.143 0.00 0.00 0.00 4.61
3689 6506 1.065126 CCCCTCTCCACAGATTTCCAC 60.065 57.143 0.00 0.00 0.00 4.02
3690 6507 1.289160 CCCCTCTCCACAGATTTCCA 58.711 55.000 0.00 0.00 0.00 3.53
3691 6508 0.106967 GCCCCTCTCCACAGATTTCC 60.107 60.000 0.00 0.00 0.00 3.13
3692 6509 0.620556 TGCCCCTCTCCACAGATTTC 59.379 55.000 0.00 0.00 0.00 2.17
3693 6510 0.329596 GTGCCCCTCTCCACAGATTT 59.670 55.000 0.00 0.00 32.37 2.17
3694 6511 1.566298 GGTGCCCCTCTCCACAGATT 61.566 60.000 0.00 0.00 33.72 2.40
3695 6512 1.997874 GGTGCCCCTCTCCACAGAT 60.998 63.158 0.00 0.00 33.72 2.90
3696 6513 2.607750 GGTGCCCCTCTCCACAGA 60.608 66.667 0.00 0.00 33.72 3.41
3697 6514 4.087892 CGGTGCCCCTCTCCACAG 62.088 72.222 0.00 0.00 33.72 3.66
3714 6531 2.031157 AGTTGATTGTTTAGCCGTGTGC 60.031 45.455 0.00 0.00 41.71 4.57
3715 6532 3.896648 AGTTGATTGTTTAGCCGTGTG 57.103 42.857 0.00 0.00 0.00 3.82
3716 6533 4.223320 CAAGTTGATTGTTTAGCCGTGT 57.777 40.909 0.00 0.00 33.95 4.49
3727 6544 4.335416 ACCCCATAGACACAAGTTGATTG 58.665 43.478 10.54 0.44 45.01 2.67
3728 6545 4.589908 GACCCCATAGACACAAGTTGATT 58.410 43.478 10.54 0.00 0.00 2.57
3729 6546 3.369471 CGACCCCATAGACACAAGTTGAT 60.369 47.826 10.54 0.00 0.00 2.57
3730 6547 2.028476 CGACCCCATAGACACAAGTTGA 60.028 50.000 10.54 0.00 0.00 3.18
3731 6548 2.028476 TCGACCCCATAGACACAAGTTG 60.028 50.000 0.00 0.00 0.00 3.16
3732 6549 2.233922 CTCGACCCCATAGACACAAGTT 59.766 50.000 0.00 0.00 0.00 2.66
3733 6550 1.825474 CTCGACCCCATAGACACAAGT 59.175 52.381 0.00 0.00 0.00 3.16
3734 6551 1.137086 CCTCGACCCCATAGACACAAG 59.863 57.143 0.00 0.00 0.00 3.16
3735 6552 1.191535 CCTCGACCCCATAGACACAA 58.808 55.000 0.00 0.00 0.00 3.33
3736 6553 0.686441 CCCTCGACCCCATAGACACA 60.686 60.000 0.00 0.00 0.00 3.72
3737 6554 0.396695 TCCCTCGACCCCATAGACAC 60.397 60.000 0.00 0.00 0.00 3.67
3738 6555 0.106167 CTCCCTCGACCCCATAGACA 60.106 60.000 0.00 0.00 0.00 3.41
3739 6556 0.185416 TCTCCCTCGACCCCATAGAC 59.815 60.000 0.00 0.00 0.00 2.59
3740 6557 0.478942 CTCTCCCTCGACCCCATAGA 59.521 60.000 0.00 0.00 0.00 1.98
3741 6558 0.186386 ACTCTCCCTCGACCCCATAG 59.814 60.000 0.00 0.00 0.00 2.23
3742 6559 0.635009 AACTCTCCCTCGACCCCATA 59.365 55.000 0.00 0.00 0.00 2.74
3743 6560 0.252742 AAACTCTCCCTCGACCCCAT 60.253 55.000 0.00 0.00 0.00 4.00
3744 6561 0.903454 GAAACTCTCCCTCGACCCCA 60.903 60.000 0.00 0.00 0.00 4.96
3745 6562 1.898885 GAAACTCTCCCTCGACCCC 59.101 63.158 0.00 0.00 0.00 4.95
3746 6563 1.249469 ACGAAACTCTCCCTCGACCC 61.249 60.000 0.00 0.00 36.45 4.46
3747 6564 0.170784 GACGAAACTCTCCCTCGACC 59.829 60.000 0.00 0.00 36.45 4.79
3748 6565 0.879765 TGACGAAACTCTCCCTCGAC 59.120 55.000 0.00 0.00 36.45 4.20
3749 6566 1.166129 CTGACGAAACTCTCCCTCGA 58.834 55.000 0.00 0.00 36.45 4.04
3750 6567 0.456995 GCTGACGAAACTCTCCCTCG 60.457 60.000 0.00 0.00 38.53 4.63
3751 6568 0.603569 TGCTGACGAAACTCTCCCTC 59.396 55.000 0.00 0.00 0.00 4.30
3752 6569 0.318762 GTGCTGACGAAACTCTCCCT 59.681 55.000 0.00 0.00 0.00 4.20
3753 6570 2.828933 GTGCTGACGAAACTCTCCC 58.171 57.895 0.00 0.00 0.00 4.30
3778 6595 3.193263 ACTTCATCATCAGCGTCATCAC 58.807 45.455 0.00 0.00 0.00 3.06
3779 6596 3.531934 ACTTCATCATCAGCGTCATCA 57.468 42.857 0.00 0.00 0.00 3.07
3780 6597 5.164109 CGATAACTTCATCATCAGCGTCATC 60.164 44.000 0.00 0.00 0.00 2.92
3781 6598 4.683320 CGATAACTTCATCATCAGCGTCAT 59.317 41.667 0.00 0.00 0.00 3.06
3782 6599 4.044426 CGATAACTTCATCATCAGCGTCA 58.956 43.478 0.00 0.00 0.00 4.35
3783 6600 3.426859 CCGATAACTTCATCATCAGCGTC 59.573 47.826 0.00 0.00 0.00 5.19
3784 6601 3.384668 CCGATAACTTCATCATCAGCGT 58.615 45.455 0.00 0.00 0.00 5.07
3785 6602 2.156504 GCCGATAACTTCATCATCAGCG 59.843 50.000 0.00 0.00 0.00 5.18
3786 6603 2.156504 CGCCGATAACTTCATCATCAGC 59.843 50.000 0.00 0.00 0.00 4.26
3787 6604 3.384668 ACGCCGATAACTTCATCATCAG 58.615 45.455 0.00 0.00 0.00 2.90
3788 6605 3.452755 ACGCCGATAACTTCATCATCA 57.547 42.857 0.00 0.00 0.00 3.07
3789 6606 3.921021 CCTACGCCGATAACTTCATCATC 59.079 47.826 0.00 0.00 0.00 2.92
3790 6607 3.306088 CCCTACGCCGATAACTTCATCAT 60.306 47.826 0.00 0.00 0.00 2.45
3791 6608 2.035449 CCCTACGCCGATAACTTCATCA 59.965 50.000 0.00 0.00 0.00 3.07
3792 6609 2.673833 CCCTACGCCGATAACTTCATC 58.326 52.381 0.00 0.00 0.00 2.92
3793 6610 1.270147 GCCCTACGCCGATAACTTCAT 60.270 52.381 0.00 0.00 0.00 2.57
3794 6611 0.103572 GCCCTACGCCGATAACTTCA 59.896 55.000 0.00 0.00 0.00 3.02
3795 6612 0.388294 AGCCCTACGCCGATAACTTC 59.612 55.000 0.00 0.00 38.78 3.01
3796 6613 0.828677 AAGCCCTACGCCGATAACTT 59.171 50.000 0.00 0.00 38.78 2.66
3797 6614 0.388294 GAAGCCCTACGCCGATAACT 59.612 55.000 0.00 0.00 38.78 2.24
3798 6615 0.938168 CGAAGCCCTACGCCGATAAC 60.938 60.000 0.00 0.00 38.78 1.89
3799 6616 1.361271 CGAAGCCCTACGCCGATAA 59.639 57.895 0.00 0.00 38.78 1.75
3800 6617 3.036577 CGAAGCCCTACGCCGATA 58.963 61.111 0.00 0.00 38.78 2.92
3842 6659 3.604582 CCTCTCCACAGATTTTCACCTC 58.395 50.000 0.00 0.00 0.00 3.85
3843 6660 2.307098 CCCTCTCCACAGATTTTCACCT 59.693 50.000 0.00 0.00 0.00 4.00
3845 6662 2.716217 CCCCTCTCCACAGATTTTCAC 58.284 52.381 0.00 0.00 0.00 3.18
3846 6663 1.004745 GCCCCTCTCCACAGATTTTCA 59.995 52.381 0.00 0.00 0.00 2.69
3848 6665 1.075601 TGCCCCTCTCCACAGATTTT 58.924 50.000 0.00 0.00 0.00 1.82
3891 6708 4.963878 GGCACCCCATAGACACAG 57.036 61.111 0.00 0.00 0.00 3.66
3915 6735 5.322754 CTCCTCCACTCCTTTATATACGGA 58.677 45.833 0.00 1.19 0.00 4.69


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

AutoCloner maintained by Alex Coulton.