Multiple sequence alignment - TraesCS6A01G300600

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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 TraesCS6A01G300600 chr6A 100.000 7751 0 0 1 7751 533405904 533413654 0.000000e+00 14314.0
1 TraesCS6A01G300600 chr6D 95.505 4538 111 16 30 4491 388125762 388130282 0.000000e+00 7164.0
2 TraesCS6A01G300600 chr6D 96.883 1636 43 7 4495 6127 388130369 388131999 0.000000e+00 2732.0
3 TraesCS6A01G300600 chr6D 92.154 1300 56 11 6151 7423 388132056 388133336 0.000000e+00 1794.0
4 TraesCS6A01G300600 chr6D 93.165 278 13 4 7474 7750 388133335 388133607 3.370000e-108 403.0
5 TraesCS6A01G300600 chr6B 88.525 2658 257 35 948 3582 579539022 579541654 0.000000e+00 3175.0
6 TraesCS6A01G300600 chr6B 93.534 1593 79 10 4519 6107 579542424 579543996 0.000000e+00 2350.0
7 TraesCS6A01G300600 chr6B 93.353 1023 50 4 6154 7176 579543997 579545001 0.000000e+00 1496.0
8 TraesCS6A01G300600 chr6B 94.286 665 28 7 3859 4518 579541657 579542316 0.000000e+00 1009.0
9 TraesCS6A01G300600 chr6B 93.525 278 10 5 7474 7748 579545198 579545470 2.600000e-109 407.0
10 TraesCS6A01G300600 chr6B 92.965 199 11 2 7228 7423 579545001 579545199 3.540000e-73 287.0
11 TraesCS6A01G300600 chr6B 86.957 69 2 7 658 722 131727602 131727667 3.880000e-08 71.3
12 TraesCS6A01G300600 chr6B 82.278 79 8 6 658 733 678536424 678536499 6.490000e-06 63.9
13 TraesCS6A01G300600 chr3D 77.712 673 102 31 851 1491 1209114 1209770 1.230000e-97 368.0
14 TraesCS6A01G300600 chr3D 79.205 327 34 10 860 1169 1195067 1195376 6.140000e-46 196.0
15 TraesCS6A01G300600 chr3D 98.039 51 1 0 6103 6153 361165352 361165302 1.070000e-13 89.8
16 TraesCS6A01G300600 chrUn 83.912 317 35 10 860 1163 34463470 34463783 9.840000e-74 289.0
17 TraesCS6A01G300600 chrUn 84.752 282 31 7 896 1166 34011517 34011237 9.910000e-69 272.0
18 TraesCS6A01G300600 chr1D 88.462 104 10 2 616 717 223699203 223699306 2.940000e-24 124.0
19 TraesCS6A01G300600 chr1B 88.462 104 10 2 616 717 323239976 323240079 2.940000e-24 124.0
20 TraesCS6A01G300600 chr1B 84.762 105 9 7 616 717 31148803 31148903 1.780000e-16 99.0
21 TraesCS6A01G300600 chr1B 84.615 65 6 4 661 722 278923254 278923191 2.340000e-05 62.1
22 TraesCS6A01G300600 chr5A 87.000 100 7 5 623 722 503516663 503516756 2.960000e-19 108.0
23 TraesCS6A01G300600 chr5A 93.103 58 2 1 6100 6157 524052586 524052531 4.980000e-12 84.2
24 TraesCS6A01G300600 chr7A 100.000 51 0 0 6103 6153 44444269 44444219 2.300000e-15 95.3
25 TraesCS6A01G300600 chr4B 98.039 51 1 0 6103 6153 577032982 577032932 1.070000e-13 89.8
26 TraesCS6A01G300600 chr1A 92.188 64 3 2 6090 6153 384825394 384825333 1.070000e-13 89.8
27 TraesCS6A01G300600 chr4D 96.226 53 2 0 6101 6153 473813975 473814027 3.850000e-13 87.9
28 TraesCS6A01G300600 chr2A 98.000 50 1 0 6104 6153 28788858 28788809 3.850000e-13 87.9
29 TraesCS6A01G300600 chr2D 94.643 56 2 1 6098 6153 206682652 206682706 1.390000e-12 86.1


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 TraesCS6A01G300600 chr6A 533405904 533413654 7750 False 14314.00 14314 100.00000 1 7751 1 chr6A.!!$F1 7750
1 TraesCS6A01G300600 chr6D 388125762 388133607 7845 False 3023.25 7164 94.42675 30 7750 4 chr6D.!!$F1 7720
2 TraesCS6A01G300600 chr6B 579539022 579545470 6448 False 1454.00 3175 92.69800 948 7748 6 chr6B.!!$F3 6800
3 TraesCS6A01G300600 chr3D 1209114 1209770 656 False 368.00 368 77.71200 851 1491 1 chr3D.!!$F2 640

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
456 477 1.130561 GGAAATCCGGCAAGAACGAAG 59.869 52.381 0.0 0.0 0.0 3.79 F
1709 1760 0.179097 CTTGCTAGTTCGGAGGGAGC 60.179 60.000 0.0 0.0 0.0 4.70 F
2349 2406 0.671472 TTGCACATCTCAGCTCACCG 60.671 55.000 0.0 0.0 0.0 4.94 F
3349 3410 2.424956 GCCATAACTTGCCCTCTTTCAG 59.575 50.000 0.0 0.0 0.0 3.02 F
4114 4235 2.668550 GCCCACAACCCTCGTCAC 60.669 66.667 0.0 0.0 0.0 3.67 F
5611 5930 1.171308 CTCCCTGTCATTGTGCAAGG 58.829 55.000 0.0 0.0 0.0 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1787 1839 0.968405 GTCACACTACCCCGGTTACA 59.032 55.0 0.0 0.0 0.00 2.41 R
2933 2992 0.399454 AGCATCACACACCAAGCTCT 59.601 50.0 0.0 0.0 0.00 4.09 R
4082 4203 1.133181 TGGGCCATCCAGAGTTGTCA 61.133 55.0 0.0 0.0 41.46 3.58 R
4738 5054 0.390603 CCATGAGCGACGGGTAACAA 60.391 55.0 0.0 0.0 39.74 2.83 R
6070 6389 0.613777 ACTTCCAAAGTAGCCCCTCG 59.386 55.0 0.0 0.0 40.69 4.63 R
7423 7806 0.034670 GGAGCTGACCTGGCATTTCT 60.035 55.0 0.0 0.0 0.00 2.52 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
48 49 9.646336 ATTCTCGTACATTTAATAATTCGTTGC 57.354 29.630 0.00 0.00 0.00 4.17
70 71 3.439129 CGTGGGTATCTCTGCGTATATCA 59.561 47.826 0.00 0.00 0.00 2.15
200 201 3.057548 CAATGACCGGCTGCAGCA 61.058 61.111 37.63 19.39 44.36 4.41
232 234 1.780503 AATGGGTATTTCTGCCAGCC 58.219 50.000 0.00 0.00 0.00 4.85
269 271 4.087182 TCGAGTCTTCCTACCATCTGTTT 58.913 43.478 0.00 0.00 0.00 2.83
279 281 1.133513 ACCATCTGTTTTGGGAGTGCA 60.134 47.619 0.00 0.00 38.64 4.57
282 284 2.363306 TCTGTTTTGGGAGTGCACAT 57.637 45.000 21.04 3.82 0.00 3.21
444 465 4.150897 TCCTAATCACTTGGGAAATCCG 57.849 45.455 0.00 0.00 38.92 4.18
451 472 1.203001 ACTTGGGAAATCCGGCAAGAA 60.203 47.619 19.93 0.00 37.43 2.52
456 477 1.130561 GGAAATCCGGCAAGAACGAAG 59.869 52.381 0.00 0.00 0.00 3.79
488 509 2.240918 AGGGGAAAGATGGCCTGCA 61.241 57.895 3.32 0.00 0.00 4.41
490 511 2.409870 GGGAAAGATGGCCTGCACG 61.410 63.158 3.32 0.00 0.00 5.34
555 576 1.977293 CTGGCAGGGACTAAGAGCCC 61.977 65.000 6.61 0.00 42.34 5.19
569 590 3.329093 GCCCAGAGCATCCCTTCT 58.671 61.111 0.00 0.00 42.97 2.85
585 606 2.492567 CCTTCTGGGACCAAATTGGGAA 60.493 50.000 17.27 8.50 43.37 3.97
622 643 6.202188 CGTTTCTTAGTGGTGTTGTTGTATCT 59.798 38.462 0.00 0.00 0.00 1.98
716 737 3.861276 CAGCATGCTGGATCTTTCAAA 57.139 42.857 35.39 0.00 40.17 2.69
717 738 3.770666 CAGCATGCTGGATCTTTCAAAG 58.229 45.455 35.39 9.02 40.17 2.77
718 739 3.442625 CAGCATGCTGGATCTTTCAAAGA 59.557 43.478 35.39 1.30 39.94 2.52
719 740 4.082408 CAGCATGCTGGATCTTTCAAAGAA 60.082 41.667 35.39 0.00 39.49 2.52
720 741 4.525487 AGCATGCTGGATCTTTCAAAGAAA 59.475 37.500 21.98 0.00 41.63 2.52
721 742 5.011329 AGCATGCTGGATCTTTCAAAGAAAA 59.989 36.000 21.98 0.00 41.63 2.29
722 743 5.119743 GCATGCTGGATCTTTCAAAGAAAAC 59.880 40.000 11.37 0.00 41.63 2.43
723 744 5.850557 TGCTGGATCTTTCAAAGAAAACA 57.149 34.783 3.35 3.06 41.63 2.83
785 806 4.794169 TCCTAAATTTGAAAAGACGCAGC 58.206 39.130 0.00 0.00 0.00 5.25
841 862 1.168714 CCTTGTCTGGCCAAACTAGC 58.831 55.000 14.43 0.00 0.00 3.42
1152 1184 7.799081 ACCCTGGTTATATAACAGGTAAACTC 58.201 38.462 25.88 11.63 37.92 3.01
1277 1324 6.667007 CTTTGAGCAAAAGTGACCAAAATT 57.333 33.333 4.23 0.00 40.46 1.82
1354 1404 9.298250 GTAGTTACTAGTCAGGAATGGATCATA 57.702 37.037 0.00 0.00 0.00 2.15
1660 1711 4.042311 TGTCCAACTAAAGCCCATGTAGAA 59.958 41.667 0.00 0.00 0.00 2.10
1661 1712 5.193679 GTCCAACTAAAGCCCATGTAGAAT 58.806 41.667 0.00 0.00 0.00 2.40
1709 1760 0.179097 CTTGCTAGTTCGGAGGGAGC 60.179 60.000 0.00 0.00 0.00 4.70
1787 1839 6.461509 CCTTTTGCACAAGTGAGGAATAAAGT 60.462 38.462 11.49 0.00 0.00 2.66
1833 1885 1.488705 TTCATCCGAAGTGGGCAGGT 61.489 55.000 0.00 0.00 38.76 4.00
1857 1909 4.861102 AAGCATATTTAGGCTGGAATGC 57.139 40.909 14.33 14.33 43.21 3.56
1862 1914 5.335191 GCATATTTAGGCTGGAATGCTACAC 60.335 44.000 14.69 0.00 37.37 2.90
1863 1915 3.712016 TTTAGGCTGGAATGCTACACA 57.288 42.857 0.00 0.00 0.00 3.72
1864 1916 3.931907 TTAGGCTGGAATGCTACACAT 57.068 42.857 0.00 0.00 42.30 3.21
1879 1933 8.281212 ATGCTACACATTTTTCCTAAGTTAGG 57.719 34.615 21.27 21.27 41.07 2.69
1975 2032 9.878599 GTATATTATCAAACCGTCCATTCTTTG 57.121 33.333 0.00 0.00 0.00 2.77
2228 2285 9.618890 ACTTAACTCATGTTGTCATATAGCAAT 57.381 29.630 0.00 0.00 37.59 3.56
2298 2355 1.627329 ACACATGGCTGACAGACTGAT 59.373 47.619 10.32 0.00 0.00 2.90
2349 2406 0.671472 TTGCACATCTCAGCTCACCG 60.671 55.000 0.00 0.00 0.00 4.94
2438 2495 4.510711 CCATAAGTGCTGAGCATACTTCTG 59.489 45.833 11.58 12.51 41.91 3.02
2547 2604 7.615582 TTAGATTGTCAGCTGAAAATGGTAG 57.384 36.000 32.26 0.00 32.38 3.18
2660 2718 2.764010 AGACTGCATGTTGGATACCGTA 59.236 45.455 0.00 0.00 0.00 4.02
2662 2720 2.500098 ACTGCATGTTGGATACCGTACT 59.500 45.455 0.00 0.00 0.00 2.73
2745 2803 6.998968 AGAATAATGCAATGCTAGCTATCC 57.001 37.500 17.23 2.80 0.00 2.59
2929 2988 7.735326 AGAAGGGTACTCACTGTTATATGTT 57.265 36.000 0.00 0.00 0.00 2.71
2933 2992 6.895756 AGGGTACTCACTGTTATATGTTGAGA 59.104 38.462 0.00 0.00 0.00 3.27
3079 3138 6.478673 GGTACTTTTTGGAATGGTTGAAACTG 59.521 38.462 0.00 0.00 0.00 3.16
3344 3405 2.834638 ATTGCCATAACTTGCCCTCT 57.165 45.000 0.00 0.00 0.00 3.69
3349 3410 2.424956 GCCATAACTTGCCCTCTTTCAG 59.575 50.000 0.00 0.00 0.00 3.02
3351 3412 4.082125 CCATAACTTGCCCTCTTTCAGTT 58.918 43.478 0.00 0.00 0.00 3.16
3388 3449 8.520351 GCTGTTATATGTTTTGGGTTTCTACTT 58.480 33.333 0.00 0.00 0.00 2.24
3587 3655 5.200483 TGGTCAAACTTCAACTTTGGAGAT 58.800 37.500 4.17 0.00 37.24 2.75
3688 3783 9.912634 CTATCTTTTGATTTGTAGGCTTCAAAA 57.087 29.630 20.73 19.27 42.58 2.44
3714 3809 3.244249 GGTCCTAGATATTCACTGGTGGC 60.244 52.174 0.00 0.00 0.00 5.01
3802 3922 2.975489 AGTCCAGTTGTGTCCAGAATCT 59.025 45.455 0.00 0.00 0.00 2.40
4082 4203 5.073428 TGCGATGAGATGGAGTATAGTTCT 58.927 41.667 0.00 0.00 0.00 3.01
4114 4235 2.668550 GCCCACAACCCTCGTCAC 60.669 66.667 0.00 0.00 0.00 3.67
4145 4266 5.279156 GGTTCCTACAGTTCGAGGTTCTTTA 60.279 44.000 0.00 0.00 34.20 1.85
4422 4543 7.280356 TCAGCTGGAGAAGTAAGTTTTAGTTT 58.720 34.615 15.13 0.00 0.00 2.66
4429 4550 9.285770 GGAGAAGTAAGTTTTAGTTTTGTGTTG 57.714 33.333 0.00 0.00 0.00 3.33
4443 4564 3.401033 TGTGTTGTGCAGTGCTACTAT 57.599 42.857 17.60 0.00 0.00 2.12
4445 4566 4.242475 TGTGTTGTGCAGTGCTACTATAC 58.758 43.478 17.60 16.26 0.00 1.47
4852 5168 8.394971 ACTGATGTGATTTATGAGTTTGAACA 57.605 30.769 0.00 0.00 0.00 3.18
4940 5256 6.212589 TCAAGTACCAGATGTCTATGTTTCCA 59.787 38.462 0.00 0.00 0.00 3.53
4948 5264 6.596888 CAGATGTCTATGTTTCCACATGTCTT 59.403 38.462 0.00 0.00 43.92 3.01
4953 5269 7.084486 GTCTATGTTTCCACATGTCTTTTTCC 58.916 38.462 0.00 0.00 43.92 3.13
5210 5527 8.786898 GGAGATAGAATTTGCATGCAATAGTTA 58.213 33.333 32.27 21.43 35.70 2.24
5243 5560 3.662247 ACTGGTAGTTTTCAGAGGTCG 57.338 47.619 0.00 0.00 35.20 4.79
5244 5561 3.228453 ACTGGTAGTTTTCAGAGGTCGA 58.772 45.455 0.00 0.00 35.20 4.20
5329 5647 9.559732 AGCTTTTCATGCCTTTTATTTTTAACT 57.440 25.926 0.00 0.00 0.00 2.24
5330 5648 9.811655 GCTTTTCATGCCTTTTATTTTTAACTC 57.188 29.630 0.00 0.00 0.00 3.01
5398 5716 7.482654 TGGTCTTCAGAAATATTTATCTGCG 57.517 36.000 10.97 6.26 42.21 5.18
5603 5922 4.409247 GGTATCCTACAACTCCCTGTCATT 59.591 45.833 0.00 0.00 0.00 2.57
5611 5930 1.171308 CTCCCTGTCATTGTGCAAGG 58.829 55.000 0.00 0.00 0.00 3.61
5769 6088 9.599866 TGTGACTATTTTCTTGTGGTATATCAG 57.400 33.333 0.00 0.00 0.00 2.90
5897 6216 4.708177 AGGATCTATTTCCCAACATGACG 58.292 43.478 0.00 0.00 36.35 4.35
6070 6389 5.814188 GGTACCTACTACCATGTTTTGCTAC 59.186 44.000 4.06 0.00 44.32 3.58
6108 6427 6.371548 TGGAAGTTTTATGCTGTCACATACTC 59.628 38.462 0.00 0.00 32.32 2.59
6114 6433 1.195115 GCTGTCACATACTCCCTCCA 58.805 55.000 0.00 0.00 0.00 3.86
6120 6439 2.126882 CACATACTCCCTCCATCCCAA 58.873 52.381 0.00 0.00 0.00 4.12
6125 6444 5.435041 ACATACTCCCTCCATCCCAAAATAA 59.565 40.000 0.00 0.00 0.00 1.40
6126 6445 4.526438 ACTCCCTCCATCCCAAAATAAG 57.474 45.455 0.00 0.00 0.00 1.73
6127 6446 3.858638 ACTCCCTCCATCCCAAAATAAGT 59.141 43.478 0.00 0.00 0.00 2.24
6130 6449 3.954258 CCCTCCATCCCAAAATAAGTGAC 59.046 47.826 0.00 0.00 0.00 3.67
6131 6450 4.325344 CCCTCCATCCCAAAATAAGTGACT 60.325 45.833 0.00 0.00 0.00 3.41
6132 6451 4.884164 CCTCCATCCCAAAATAAGTGACTC 59.116 45.833 0.00 0.00 0.00 3.36
6133 6452 5.500234 CTCCATCCCAAAATAAGTGACTCA 58.500 41.667 0.00 0.00 0.00 3.41
6134 6453 5.886609 TCCATCCCAAAATAAGTGACTCAA 58.113 37.500 0.00 0.00 0.00 3.02
6135 6454 5.710099 TCCATCCCAAAATAAGTGACTCAAC 59.290 40.000 0.00 0.00 0.00 3.18
6138 6457 7.255942 CCATCCCAAAATAAGTGACTCAACTTT 60.256 37.037 0.00 0.00 40.77 2.66
6139 6458 7.038154 TCCCAAAATAAGTGACTCAACTTTG 57.962 36.000 0.00 0.00 40.77 2.77
6140 6459 5.691754 CCCAAAATAAGTGACTCAACTTTGC 59.308 40.000 0.00 0.00 40.77 3.68
6141 6460 6.272318 CCAAAATAAGTGACTCAACTTTGCA 58.728 36.000 0.00 0.00 40.77 4.08
6142 6461 6.198966 CCAAAATAAGTGACTCAACTTTGCAC 59.801 38.462 0.00 0.00 40.77 4.57
6143 6462 6.699575 AAATAAGTGACTCAACTTTGCACT 57.300 33.333 0.00 0.00 40.77 4.40
6145 6464 7.801716 AATAAGTGACTCAACTTTGCACTAA 57.198 32.000 0.00 0.00 40.77 2.24
6146 6465 5.485662 AAGTGACTCAACTTTGCACTAAC 57.514 39.130 0.00 0.00 37.05 2.34
6148 6467 5.186198 AGTGACTCAACTTTGCACTAACTT 58.814 37.500 0.00 0.00 37.98 2.66
6149 6468 5.648092 AGTGACTCAACTTTGCACTAACTTT 59.352 36.000 0.00 0.00 37.98 2.66
6152 6471 6.596106 TGACTCAACTTTGCACTAACTTTGTA 59.404 34.615 0.00 0.00 0.00 2.41
6359 6714 2.489938 TTGTTAGGATGCCAGTGGTC 57.510 50.000 11.74 0.55 0.00 4.02
6451 6806 4.098501 AGGTTTGCTTCTTTTGTCTCTTGG 59.901 41.667 0.00 0.00 0.00 3.61
6501 6856 7.168637 TCAGTACTTAACAGAAGTTAAACAGCG 59.831 37.037 0.00 0.00 46.40 5.18
6540 6895 0.321653 ACGAAGATTGCCACTGGGAC 60.322 55.000 0.00 0.00 35.59 4.46
6620 6975 3.708563 TTCTTTGCTTGCCAGTTACAC 57.291 42.857 0.00 0.00 0.00 2.90
6621 6976 2.930950 TCTTTGCTTGCCAGTTACACT 58.069 42.857 0.00 0.00 0.00 3.55
6630 6985 4.829064 TGCCAGTTACACTGTTTTCATC 57.171 40.909 3.30 0.00 44.50 2.92
6639 6994 5.668558 ACACTGTTTTCATCTTCGGTAAC 57.331 39.130 0.00 0.00 0.00 2.50
6644 6999 6.007936 TGTTTTCATCTTCGGTAACAATGG 57.992 37.500 0.00 0.00 0.00 3.16
6645 7000 5.765677 TGTTTTCATCTTCGGTAACAATGGA 59.234 36.000 0.00 0.00 0.00 3.41
6728 7083 6.774170 TGCAGGCTGAAATATTCATCAACTAT 59.226 34.615 20.86 0.00 39.30 2.12
6815 7170 1.881973 TGAAAACTGCTCCTGACATGC 59.118 47.619 0.00 0.00 0.00 4.06
6822 7177 3.244700 ACTGCTCCTGACATGCTTTACTT 60.245 43.478 0.00 0.00 0.00 2.24
6849 7204 1.068895 TGCAGACCATTGCTTGTTTGG 59.931 47.619 0.00 0.00 44.38 3.28
6880 7235 6.152154 TGAGTAACTCTTGATTATCACGTCCA 59.848 38.462 0.00 0.00 0.00 4.02
6992 7371 3.211045 GTTGTCTTGTGGCTACTTTGGA 58.789 45.455 0.64 0.00 0.00 3.53
6993 7372 3.126001 TGTCTTGTGGCTACTTTGGAG 57.874 47.619 0.64 0.00 0.00 3.86
6994 7373 2.438021 TGTCTTGTGGCTACTTTGGAGT 59.562 45.455 0.64 0.00 39.97 3.85
6995 7374 3.644265 TGTCTTGTGGCTACTTTGGAGTA 59.356 43.478 0.64 0.00 37.33 2.59
6996 7375 4.286032 TGTCTTGTGGCTACTTTGGAGTAT 59.714 41.667 0.64 0.00 37.71 2.12
6997 7376 5.221843 TGTCTTGTGGCTACTTTGGAGTATT 60.222 40.000 0.64 0.00 37.71 1.89
6998 7377 5.705905 GTCTTGTGGCTACTTTGGAGTATTT 59.294 40.000 0.64 0.00 37.71 1.40
6999 7378 6.206829 GTCTTGTGGCTACTTTGGAGTATTTT 59.793 38.462 0.64 0.00 37.71 1.82
7000 7379 6.775629 TCTTGTGGCTACTTTGGAGTATTTTT 59.224 34.615 0.64 0.00 37.71 1.94
7055 7434 1.593006 CGTATTCTGATTGACGTGCCC 59.407 52.381 0.00 0.00 0.00 5.36
7085 7464 9.926158 TTTCGTAACTAATTTATGTCTGTGGTA 57.074 29.630 0.00 0.00 0.00 3.25
7133 7512 4.379339 TGCTTGTAACACCAAAACCTTC 57.621 40.909 0.00 0.00 0.00 3.46
7144 7523 1.106944 AAAACCTTCAGCCACGTGGG 61.107 55.000 34.58 19.84 40.85 4.61
7192 7571 2.425312 TCGTGTTGAAGTTTTGCCATGT 59.575 40.909 0.00 0.00 0.00 3.21
7307 7689 8.282982 TCCATAGTACTCCCTCTATGAATATCC 58.717 40.741 0.00 0.00 43.33 2.59
7342 7725 6.633500 TGATTGGTTAAGACAAGGTTTGAG 57.367 37.500 0.00 0.00 0.00 3.02
7384 7767 8.269424 CAGTATGTTATCTATCTGACGCAAAAC 58.731 37.037 0.00 0.00 0.00 2.43
7395 7778 2.031245 TGACGCAAAACTAGTGCCATTG 60.031 45.455 0.00 1.51 38.86 2.82
7410 7793 6.165577 AGTGCCATTGGACATGTAAATTTTC 58.834 36.000 6.95 0.00 0.00 2.29
7411 7794 5.931146 GTGCCATTGGACATGTAAATTTTCA 59.069 36.000 6.95 0.00 0.00 2.69
7421 7804 9.034544 GGACATGTAAATTTTCATTAGCCAATC 57.965 33.333 7.50 0.00 0.00 2.67
7422 7805 8.633075 ACATGTAAATTTTCATTAGCCAATCG 57.367 30.769 7.50 0.00 0.00 3.34
7423 7806 8.465999 ACATGTAAATTTTCATTAGCCAATCGA 58.534 29.630 7.50 0.00 0.00 3.59
7424 7807 8.961092 CATGTAAATTTTCATTAGCCAATCGAG 58.039 33.333 7.50 0.00 0.00 4.04
7425 7808 8.275015 TGTAAATTTTCATTAGCCAATCGAGA 57.725 30.769 0.00 0.00 0.00 4.04
7426 7809 8.735315 TGTAAATTTTCATTAGCCAATCGAGAA 58.265 29.630 0.00 0.00 0.00 2.87
7427 7810 9.567848 GTAAATTTTCATTAGCCAATCGAGAAA 57.432 29.630 0.00 0.00 0.00 2.52
7429 7812 8.638685 AATTTTCATTAGCCAATCGAGAAATG 57.361 30.769 0.00 0.00 0.00 2.32
7430 7813 4.818534 TCATTAGCCAATCGAGAAATGC 57.181 40.909 0.00 0.00 0.00 3.56
7431 7814 3.565482 TCATTAGCCAATCGAGAAATGCC 59.435 43.478 0.00 0.00 0.00 4.40
7432 7815 2.708216 TAGCCAATCGAGAAATGCCA 57.292 45.000 0.00 0.00 0.00 4.92
7433 7816 1.386533 AGCCAATCGAGAAATGCCAG 58.613 50.000 0.00 0.00 0.00 4.85
7434 7817 0.383231 GCCAATCGAGAAATGCCAGG 59.617 55.000 0.00 0.00 0.00 4.45
7435 7818 1.755179 CCAATCGAGAAATGCCAGGT 58.245 50.000 0.00 0.00 0.00 4.00
7436 7819 1.672881 CCAATCGAGAAATGCCAGGTC 59.327 52.381 0.00 0.00 0.00 3.85
7437 7820 2.358957 CAATCGAGAAATGCCAGGTCA 58.641 47.619 0.00 0.00 0.00 4.02
7438 7821 2.322355 ATCGAGAAATGCCAGGTCAG 57.678 50.000 0.00 0.00 0.00 3.51
7439 7822 0.391661 TCGAGAAATGCCAGGTCAGC 60.392 55.000 0.00 0.00 0.00 4.26
7440 7823 0.392193 CGAGAAATGCCAGGTCAGCT 60.392 55.000 0.00 0.00 0.00 4.24
7441 7824 1.377536 GAGAAATGCCAGGTCAGCTC 58.622 55.000 0.00 0.00 0.00 4.09
7442 7825 0.034670 AGAAATGCCAGGTCAGCTCC 60.035 55.000 0.00 0.00 0.00 4.70
7443 7826 1.372087 GAAATGCCAGGTCAGCTCCG 61.372 60.000 0.00 0.00 0.00 4.63
7444 7827 1.841302 AAATGCCAGGTCAGCTCCGA 61.841 55.000 0.00 0.00 0.00 4.55
7445 7828 1.630126 AATGCCAGGTCAGCTCCGAT 61.630 55.000 0.00 0.00 0.00 4.18
7446 7829 1.630126 ATGCCAGGTCAGCTCCGATT 61.630 55.000 0.00 0.00 0.00 3.34
7447 7830 1.078143 GCCAGGTCAGCTCCGATTT 60.078 57.895 0.00 0.00 0.00 2.17
7448 7831 1.372087 GCCAGGTCAGCTCCGATTTG 61.372 60.000 0.00 0.00 0.00 2.32
7449 7832 1.372087 CCAGGTCAGCTCCGATTTGC 61.372 60.000 0.00 0.00 0.00 3.68
7450 7833 1.078143 AGGTCAGCTCCGATTTGCC 60.078 57.895 0.00 0.00 0.00 4.52
7451 7834 2.115291 GGTCAGCTCCGATTTGCCC 61.115 63.158 0.00 0.00 0.00 5.36
7452 7835 2.115291 GTCAGCTCCGATTTGCCCC 61.115 63.158 0.00 0.00 0.00 5.80
7453 7836 2.830370 CAGCTCCGATTTGCCCCC 60.830 66.667 0.00 0.00 0.00 5.40
7469 7852 0.695347 CCCCCTGGAGATCTTATGGC 59.305 60.000 0.00 0.00 0.00 4.40
7470 7853 1.739750 CCCCTGGAGATCTTATGGCT 58.260 55.000 0.00 0.00 0.00 4.75
7471 7854 2.495383 CCCCCTGGAGATCTTATGGCTA 60.495 54.545 0.00 0.00 0.00 3.93
7472 7855 2.569404 CCCCTGGAGATCTTATGGCTAC 59.431 54.545 0.00 0.00 0.00 3.58
7483 7866 4.377021 TCTTATGGCTACCGCTAAACATG 58.623 43.478 0.00 0.00 36.09 3.21
7507 7890 4.846779 TTGGCTGTTGAATTGGTAAGAC 57.153 40.909 0.00 0.00 0.00 3.01
7508 7891 2.811431 TGGCTGTTGAATTGGTAAGACG 59.189 45.455 0.00 0.00 0.00 4.18
7509 7892 2.414161 GGCTGTTGAATTGGTAAGACGC 60.414 50.000 0.00 0.00 0.00 5.19
7510 7893 2.225491 GCTGTTGAATTGGTAAGACGCA 59.775 45.455 0.00 0.00 0.00 5.24
7511 7894 3.119849 GCTGTTGAATTGGTAAGACGCAT 60.120 43.478 0.00 0.00 0.00 4.73
7514 7897 2.710377 TGAATTGGTAAGACGCATGCT 58.290 42.857 17.13 2.38 0.00 3.79
7680 8065 2.571212 TCTCGTGCCTTTGTTGTCAAT 58.429 42.857 0.00 0.00 33.32 2.57
7692 8077 6.975772 CCTTTGTTGTCAATAAAGAAAACCGA 59.024 34.615 27.22 0.00 40.70 4.69
7750 8136 2.614057 GCAGCGGCTTCAATATTGTACT 59.386 45.455 14.97 2.86 36.96 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 9.646336 GCAACGAATTATTAAATGTACGAGAAT 57.354 29.630 0.00 0.00 0.00 2.40
23 24 7.842239 CGCAACGAATTATTAAATGTACGAGAA 59.158 33.333 0.00 0.00 0.00 2.87
24 25 7.009448 ACGCAACGAATTATTAAATGTACGAGA 59.991 33.333 0.00 0.00 0.00 4.04
25 26 7.108309 CACGCAACGAATTATTAAATGTACGAG 59.892 37.037 0.00 0.00 0.00 4.18
26 27 6.895564 CACGCAACGAATTATTAAATGTACGA 59.104 34.615 0.00 0.00 0.00 3.43
27 28 6.137926 CCACGCAACGAATTATTAAATGTACG 59.862 38.462 0.00 0.00 0.00 3.67
28 29 6.412653 CCCACGCAACGAATTATTAAATGTAC 59.587 38.462 0.00 0.00 0.00 2.90
36 37 4.448210 AGATACCCACGCAACGAATTATT 58.552 39.130 0.00 0.00 0.00 1.40
48 49 3.439129 TGATATACGCAGAGATACCCACG 59.561 47.826 0.00 0.00 0.00 4.94
70 71 1.002315 GTTTGCTGGTGGGAATTGCAT 59.998 47.619 0.00 0.00 33.50 3.96
200 201 1.454479 CCCATTTCCCAGCTGCGAT 60.454 57.895 8.66 0.00 0.00 4.58
203 204 1.780503 AATACCCATTTCCCAGCTGC 58.219 50.000 8.66 0.00 0.00 5.25
232 234 3.258622 AGACTCGAGGTTCCTTAAACAGG 59.741 47.826 18.41 0.00 45.64 4.00
269 271 0.478072 AGGACAATGTGCACTCCCAA 59.522 50.000 19.41 0.00 0.00 4.12
279 281 3.030291 TCCAAACTTGCAAGGACAATGT 58.970 40.909 29.18 5.39 0.00 2.71
444 465 0.169009 GCATCCACTTCGTTCTTGCC 59.831 55.000 0.00 0.00 0.00 4.52
456 477 0.038166 TCCCCTGAAAGTGCATCCAC 59.962 55.000 0.00 0.00 42.39 4.02
488 509 0.107456 CTGCCAAGGATATCAGCCGT 59.893 55.000 4.83 0.00 0.00 5.68
490 511 2.645838 TTCTGCCAAGGATATCAGCC 57.354 50.000 4.83 0.00 0.00 4.85
545 566 1.127343 GGATGCTCTGGGCTCTTAGT 58.873 55.000 0.00 0.00 42.39 2.24
569 590 4.571792 CCTCTATTTCCCAATTTGGTCCCA 60.572 45.833 14.26 0.00 35.17 4.37
585 606 5.411781 CACTAAGAAACGACTGCCTCTATT 58.588 41.667 0.00 0.00 0.00 1.73
622 643 8.742777 CAAGTGATCATATGGAGGAAAGAAAAA 58.257 33.333 0.00 0.00 0.00 1.94
720 741 9.068008 CGAGCGGTAAACAAATTATTAAATGTT 57.932 29.630 0.00 5.57 37.59 2.71
721 742 7.698970 CCGAGCGGTAAACAAATTATTAAATGT 59.301 33.333 0.00 0.00 0.00 2.71
722 743 7.166804 CCCGAGCGGTAAACAAATTATTAAATG 59.833 37.037 8.25 0.00 0.00 2.32
723 744 7.067251 TCCCGAGCGGTAAACAAATTATTAAAT 59.933 33.333 8.25 0.00 0.00 1.40
734 755 1.002201 TGAAATCCCGAGCGGTAAACA 59.998 47.619 8.25 0.00 0.00 2.83
735 756 1.729284 TGAAATCCCGAGCGGTAAAC 58.271 50.000 8.25 0.00 0.00 2.01
766 787 5.181690 AGTGCTGCGTCTTTTCAAATTTA 57.818 34.783 0.00 0.00 0.00 1.40
785 806 5.868454 TCATGGGAATGGTCACATATAGTG 58.132 41.667 0.00 0.00 46.66 2.74
841 862 4.759782 AGACATCATTGTAAGACCGAAGG 58.240 43.478 0.00 0.00 46.72 3.46
1178 1210 9.056005 TGATCAAGTGCTACATAATATGAAACC 57.944 33.333 7.33 0.00 0.00 3.27
1277 1324 2.632512 TCGGATGCCATAGCTGTTCATA 59.367 45.455 0.00 0.00 40.80 2.15
1660 1711 9.281371 GAACTAAACCCAACTGTTTACTCTTAT 57.719 33.333 0.00 0.00 39.15 1.73
1661 1712 7.716560 GGAACTAAACCCAACTGTTTACTCTTA 59.283 37.037 0.00 0.00 39.15 2.10
1740 1791 7.012661 AGGGTTAATCCAGGGTTAATATACG 57.987 40.000 8.23 0.00 38.11 3.06
1787 1839 0.968405 GTCACACTACCCCGGTTACA 59.032 55.000 0.00 0.00 0.00 2.41
1833 1885 5.707298 GCATTCCAGCCTAAATATGCTTAGA 59.293 40.000 0.00 0.00 35.12 2.10
1879 1933 8.977412 TCTTTTTAGGAATAACATGGGGAATTC 58.023 33.333 0.00 0.00 0.00 2.17
1975 2032 7.383102 TGCTCTTTCTATCTTTTCCATGAAC 57.617 36.000 0.00 0.00 0.00 3.18
2228 2285 6.602410 ATGAACTGAGAGTGAGAGAATTGA 57.398 37.500 0.00 0.00 0.00 2.57
2276 2333 1.802960 CAGTCTGTCAGCCATGTGTTC 59.197 52.381 0.00 0.00 0.00 3.18
2329 2386 1.085091 GGTGAGCTGAGATGTGCAAG 58.915 55.000 0.00 0.00 0.00 4.01
2349 2406 7.027778 AGAAGTGTTCTTGTCAATGTTTACC 57.972 36.000 0.00 0.00 36.36 2.85
2384 2441 7.896383 TGCCAATTAAGTAAGCATCCTAAAT 57.104 32.000 0.00 0.00 0.00 1.40
2481 2538 5.637006 ACACAGTTTGTCAGCAAGTTTTA 57.363 34.783 0.00 0.00 35.82 1.52
2642 2700 2.866156 CAGTACGGTATCCAACATGCAG 59.134 50.000 0.00 0.00 0.00 4.41
2660 2718 8.805175 TGAATTTATGACATTTTGGACATCAGT 58.195 29.630 0.00 0.00 0.00 3.41
2662 2720 9.589111 CATGAATTTATGACATTTTGGACATCA 57.411 29.630 4.21 0.00 0.00 3.07
2745 2803 6.644347 TCACTTAGGAATGGAAGCTTCTAAG 58.356 40.000 25.05 22.49 0.00 2.18
2929 2988 1.413118 TCACACACCAAGCTCTCTCA 58.587 50.000 0.00 0.00 0.00 3.27
2933 2992 0.399454 AGCATCACACACCAAGCTCT 59.601 50.000 0.00 0.00 0.00 4.09
3079 3138 0.686789 AGTGCTTTGGGGCAATTTCC 59.313 50.000 0.00 0.00 44.18 3.13
3172 3231 5.625311 CGTGAAGAAAAGAAACAGTTATGGC 59.375 40.000 0.00 0.00 0.00 4.40
3344 3405 1.134037 AGCAACCACCGGTAACTGAAA 60.134 47.619 6.87 0.00 33.12 2.69
3349 3410 1.881591 TAACAGCAACCACCGGTAAC 58.118 50.000 6.87 0.00 33.12 2.50
3351 3412 3.198200 ACATATAACAGCAACCACCGGTA 59.802 43.478 6.87 0.00 33.12 4.02
3388 3449 5.022122 TGCCTTTGTAAATCCAATGGATGA 58.978 37.500 16.52 4.22 42.27 2.92
3587 3655 2.677836 GCACTGTTTGACTTGACTGTGA 59.322 45.455 14.80 0.00 43.89 3.58
3688 3783 6.441924 CCACCAGTGAATATCTAGGACCATAT 59.558 42.308 0.00 0.00 0.00 1.78
3714 3809 6.317140 ACAAAATCACAGCACATACTATCAGG 59.683 38.462 0.00 0.00 0.00 3.86
3802 3922 8.882736 CAATAGTTCACAATGCTGACAAGTATA 58.117 33.333 0.00 0.00 0.00 1.47
4082 4203 1.133181 TGGGCCATCCAGAGTTGTCA 61.133 55.000 0.00 0.00 41.46 3.58
4114 4235 3.875727 TCGAACTGTAGGAACCTCGATAG 59.124 47.826 0.00 0.00 30.12 2.08
4145 4266 5.822519 TCTGCAACAACAGAAGTGACTTTAT 59.177 36.000 0.00 0.00 43.59 1.40
4422 4543 2.036958 AGTAGCACTGCACAACACAA 57.963 45.000 3.30 0.00 0.00 3.33
4429 4550 2.865343 ACGGTATAGTAGCACTGCAC 57.135 50.000 3.30 0.00 0.00 4.57
4443 4564 6.829229 TCTTGAAGAGACTGAATTACGGTA 57.171 37.500 0.00 0.00 38.34 4.02
4445 4566 7.421530 TTTTCTTGAAGAGACTGAATTACGG 57.578 36.000 0.00 0.00 33.02 4.02
4738 5054 0.390603 CCATGAGCGACGGGTAACAA 60.391 55.000 0.00 0.00 39.74 2.83
4745 5061 0.953471 TGAAAACCCATGAGCGACGG 60.953 55.000 0.00 0.00 0.00 4.79
4758 5074 6.116126 AGTATCCTACCTGCTTGATGAAAAC 58.884 40.000 0.00 0.00 0.00 2.43
4852 5168 1.270907 CTGCCTTGACAGTAGGGACT 58.729 55.000 0.00 0.00 46.37 3.85
4940 5256 4.340950 ACCAATTCACGGAAAAAGACATGT 59.659 37.500 0.00 0.00 0.00 3.21
4948 5264 5.828859 TCTAGGAAAACCAATTCACGGAAAA 59.171 36.000 0.00 0.00 0.00 2.29
4953 5269 5.643777 ACTCATCTAGGAAAACCAATTCACG 59.356 40.000 0.00 0.00 0.00 4.35
5026 5343 2.508526 ACAGCTAAAACTGCAGAAGGG 58.491 47.619 23.35 7.36 41.60 3.95
5033 5350 4.552166 TGTCAGAAACAGCTAAAACTGC 57.448 40.909 0.00 0.00 41.60 4.40
5328 5646 7.715265 TGTAACAGCTAAGAAACTCAAAGAG 57.285 36.000 0.00 0.00 35.52 2.85
5329 5647 8.395633 GTTTGTAACAGCTAAGAAACTCAAAGA 58.604 33.333 7.84 0.00 0.00 2.52
5330 5648 8.181573 TGTTTGTAACAGCTAAGAAACTCAAAG 58.818 33.333 13.35 0.00 36.25 2.77
5331 5649 8.046294 TGTTTGTAACAGCTAAGAAACTCAAA 57.954 30.769 13.35 0.00 36.25 2.69
5397 5715 9.581099 AAGGAAAAATAATATTACAAAGTGGCG 57.419 29.630 0.00 0.00 0.00 5.69
5480 5799 8.823220 AGGAAAAGCATTTGGTAATACATACT 57.177 30.769 0.00 0.00 39.02 2.12
5603 5922 1.186917 CCCAAGCCATTCCTTGCACA 61.187 55.000 0.00 0.00 40.62 4.57
5769 6088 9.163899 CTTACTAGGAAGGGAAAATTAACACTC 57.836 37.037 6.84 0.00 0.00 3.51
5897 6216 2.789409 ACTTTACATGTGGAGCCCTC 57.211 50.000 9.11 0.00 0.00 4.30
5936 6255 3.523157 TCCATCCTGGAATACTTTCAGCA 59.477 43.478 0.00 0.00 45.00 4.41
6022 6341 7.624077 ACCAGGAGAAGTACTATAACCAAATCT 59.376 37.037 0.00 0.00 0.00 2.40
6070 6389 0.613777 ACTTCCAAAGTAGCCCCTCG 59.386 55.000 0.00 0.00 40.69 4.63
6108 6427 3.954258 GTCACTTATTTTGGGATGGAGGG 59.046 47.826 0.00 0.00 0.00 4.30
6114 6433 7.661040 CAAAGTTGAGTCACTTATTTTGGGAT 58.339 34.615 0.00 0.00 35.87 3.85
6120 6439 6.699575 AGTGCAAAGTTGAGTCACTTATTT 57.300 33.333 0.00 0.00 35.87 1.40
6125 6444 4.770795 AGTTAGTGCAAAGTTGAGTCACT 58.229 39.130 0.00 7.60 40.60 3.41
6126 6445 5.485662 AAGTTAGTGCAAAGTTGAGTCAC 57.514 39.130 0.00 0.00 0.00 3.67
6127 6446 5.414454 ACAAAGTTAGTGCAAAGTTGAGTCA 59.586 36.000 0.00 0.00 0.00 3.41
6130 6449 7.915397 ACATTACAAAGTTAGTGCAAAGTTGAG 59.085 33.333 0.00 0.00 0.00 3.02
6131 6450 7.767261 ACATTACAAAGTTAGTGCAAAGTTGA 58.233 30.769 0.00 0.00 0.00 3.18
6132 6451 7.985634 ACATTACAAAGTTAGTGCAAAGTTG 57.014 32.000 0.00 0.00 0.00 3.16
6133 6452 8.996024 AAACATTACAAAGTTAGTGCAAAGTT 57.004 26.923 0.00 0.00 0.00 2.66
6134 6453 9.511144 GTAAACATTACAAAGTTAGTGCAAAGT 57.489 29.630 0.00 0.00 0.00 2.66
6135 6454 9.509855 TGTAAACATTACAAAGTTAGTGCAAAG 57.490 29.630 0.66 0.00 0.00 2.77
6138 6457 8.215926 AGTGTAAACATTACAAAGTTAGTGCA 57.784 30.769 4.64 0.00 0.00 4.57
6139 6458 9.511144 AAAGTGTAAACATTACAAAGTTAGTGC 57.489 29.630 4.64 0.00 0.00 4.40
6145 6464 8.952278 TGACTCAAAGTGTAAACATTACAAAGT 58.048 29.630 4.64 4.59 0.00 2.66
6146 6465 9.438291 CTGACTCAAAGTGTAAACATTACAAAG 57.562 33.333 4.64 2.06 0.00 2.77
6148 6467 7.771361 TCCTGACTCAAAGTGTAAACATTACAA 59.229 33.333 4.64 0.00 0.00 2.41
6149 6468 7.276658 TCCTGACTCAAAGTGTAAACATTACA 58.723 34.615 0.00 0.00 0.00 2.41
6152 6471 6.357367 ACTCCTGACTCAAAGTGTAAACATT 58.643 36.000 0.00 0.00 0.00 2.71
6359 6714 2.009051 TCAAGCCATAACTCACGCATG 58.991 47.619 0.00 0.00 0.00 4.06
6469 6824 9.880157 TTAACTTCTGTTAAGTACTGACAAGTT 57.120 29.630 21.31 21.31 41.91 2.66
6474 6829 8.274248 GCTGTTTAACTTCTGTTAAGTACTGAC 58.726 37.037 0.00 0.00 45.71 3.51
6501 6856 1.275291 TGTCTCAATGGACCTCGGAAC 59.725 52.381 0.00 0.00 35.54 3.62
6620 6975 6.072728 TCCATTGTTACCGAAGATGAAAACAG 60.073 38.462 0.00 0.00 0.00 3.16
6621 6976 5.765677 TCCATTGTTACCGAAGATGAAAACA 59.234 36.000 0.00 0.00 0.00 2.83
6644 6999 7.444487 ACCTAAGTTACAGTGACAGGAAAATTC 59.556 37.037 8.43 0.00 0.00 2.17
6645 7000 7.287810 ACCTAAGTTACAGTGACAGGAAAATT 58.712 34.615 8.43 0.00 0.00 1.82
6849 7204 8.865001 GTGATAATCAAGAGTTACTCAGTCAAC 58.135 37.037 15.23 0.34 32.06 3.18
6880 7235 0.539986 AACGCCCGGTATGATTCACT 59.460 50.000 0.00 0.00 0.00 3.41
7051 7430 5.986501 AAATTAGTTACGAAAATGGGGCA 57.013 34.783 0.00 0.00 0.00 5.36
7082 7461 7.382218 CCGCAAAATCCTGAAAATATCATTACC 59.618 37.037 0.00 0.00 37.44 2.85
7085 7464 6.757947 CACCGCAAAATCCTGAAAATATCATT 59.242 34.615 0.00 0.00 37.44 2.57
7144 7523 1.929836 CAATTCTGCTACGAGTGGCTC 59.070 52.381 12.54 0.00 37.97 4.70
7212 7591 2.094762 ACAGCCAAACCATCGTCTAC 57.905 50.000 0.00 0.00 0.00 2.59
7253 7633 4.142425 CGGAGTACCTTCTTGGACTCTTAC 60.142 50.000 3.61 0.00 40.09 2.34
7298 7680 8.591072 CAATCAAAATAAGCCCTGGATATTCAT 58.409 33.333 0.00 0.00 0.00 2.57
7307 7689 7.035612 GTCTTAACCAATCAAAATAAGCCCTG 58.964 38.462 0.00 0.00 0.00 4.45
7342 7725 0.614812 ACTGATGGGGCCATTTTTGC 59.385 50.000 4.39 0.00 36.70 3.68
7384 7767 6.455360 AATTTACATGTCCAATGGCACTAG 57.545 37.500 0.00 0.00 0.00 2.57
7395 7778 8.947055 ATTGGCTAATGAAAATTTACATGTCC 57.053 30.769 0.00 0.00 0.00 4.02
7410 7793 3.316029 TGGCATTTCTCGATTGGCTAATG 59.684 43.478 0.00 0.00 35.78 1.90
7411 7794 3.554934 TGGCATTTCTCGATTGGCTAAT 58.445 40.909 0.00 0.00 35.78 1.73
7421 7804 0.392193 AGCTGACCTGGCATTTCTCG 60.392 55.000 0.00 0.00 0.00 4.04
7422 7805 1.377536 GAGCTGACCTGGCATTTCTC 58.622 55.000 0.00 0.00 0.00 2.87
7423 7806 0.034670 GGAGCTGACCTGGCATTTCT 60.035 55.000 0.00 0.00 0.00 2.52
7424 7807 1.372087 CGGAGCTGACCTGGCATTTC 61.372 60.000 0.00 0.00 0.00 2.17
7425 7808 1.377725 CGGAGCTGACCTGGCATTT 60.378 57.895 0.00 0.00 0.00 2.32
7426 7809 1.630126 ATCGGAGCTGACCTGGCATT 61.630 55.000 0.00 0.00 0.00 3.56
7427 7810 1.630126 AATCGGAGCTGACCTGGCAT 61.630 55.000 0.00 0.00 0.00 4.40
7428 7811 1.841302 AAATCGGAGCTGACCTGGCA 61.841 55.000 0.00 0.00 0.00 4.92
7429 7812 1.078143 AAATCGGAGCTGACCTGGC 60.078 57.895 0.00 0.00 0.00 4.85
7430 7813 1.372087 GCAAATCGGAGCTGACCTGG 61.372 60.000 0.00 0.00 0.00 4.45
7431 7814 1.372087 GGCAAATCGGAGCTGACCTG 61.372 60.000 0.00 0.00 0.00 4.00
7432 7815 1.078143 GGCAAATCGGAGCTGACCT 60.078 57.895 0.00 0.00 0.00 3.85
7433 7816 2.115291 GGGCAAATCGGAGCTGACC 61.115 63.158 0.00 0.00 0.00 4.02
7434 7817 2.115291 GGGGCAAATCGGAGCTGAC 61.115 63.158 0.00 0.00 0.00 3.51
7435 7818 2.272146 GGGGCAAATCGGAGCTGA 59.728 61.111 0.00 0.00 0.00 4.26
7436 7819 2.830370 GGGGGCAAATCGGAGCTG 60.830 66.667 0.00 0.00 0.00 4.24
7450 7833 0.695347 GCCATAAGATCTCCAGGGGG 59.305 60.000 9.33 2.00 0.00 5.40
7451 7834 1.739750 AGCCATAAGATCTCCAGGGG 58.260 55.000 9.33 3.19 0.00 4.79
7452 7835 2.569404 GGTAGCCATAAGATCTCCAGGG 59.431 54.545 0.00 0.00 0.00 4.45
7453 7836 2.232452 CGGTAGCCATAAGATCTCCAGG 59.768 54.545 0.00 0.00 0.00 4.45
7454 7837 2.353208 GCGGTAGCCATAAGATCTCCAG 60.353 54.545 0.00 0.00 37.42 3.86
7455 7838 1.618837 GCGGTAGCCATAAGATCTCCA 59.381 52.381 0.00 0.00 37.42 3.86
7456 7839 1.896465 AGCGGTAGCCATAAGATCTCC 59.104 52.381 0.00 0.00 46.67 3.71
7457 7840 4.785511 TTAGCGGTAGCCATAAGATCTC 57.214 45.455 0.00 0.00 46.67 2.75
7458 7841 4.344102 TGTTTAGCGGTAGCCATAAGATCT 59.656 41.667 0.00 0.00 46.67 2.75
7459 7842 4.628074 TGTTTAGCGGTAGCCATAAGATC 58.372 43.478 0.00 0.00 46.67 2.75
7460 7843 4.682778 TGTTTAGCGGTAGCCATAAGAT 57.317 40.909 0.00 0.00 46.67 2.40
7461 7844 4.141801 ACATGTTTAGCGGTAGCCATAAGA 60.142 41.667 0.00 0.00 46.67 2.10
7462 7845 4.127171 ACATGTTTAGCGGTAGCCATAAG 58.873 43.478 0.00 1.61 46.67 1.73
7463 7846 4.145365 ACATGTTTAGCGGTAGCCATAA 57.855 40.909 0.00 0.00 46.67 1.90
7464 7847 3.830744 ACATGTTTAGCGGTAGCCATA 57.169 42.857 0.00 0.00 46.67 2.74
7465 7848 2.710096 ACATGTTTAGCGGTAGCCAT 57.290 45.000 0.00 0.00 46.67 4.40
7466 7849 3.830744 ATACATGTTTAGCGGTAGCCA 57.169 42.857 2.30 0.00 46.67 4.75
7467 7850 3.250040 CCAATACATGTTTAGCGGTAGCC 59.750 47.826 2.30 0.00 46.67 3.93
7468 7851 3.303791 GCCAATACATGTTTAGCGGTAGC 60.304 47.826 2.30 0.00 45.58 3.58
7469 7852 4.024893 CAGCCAATACATGTTTAGCGGTAG 60.025 45.833 2.30 0.00 0.00 3.18
7470 7853 3.874543 CAGCCAATACATGTTTAGCGGTA 59.125 43.478 2.30 0.00 0.00 4.02
7471 7854 2.682856 CAGCCAATACATGTTTAGCGGT 59.317 45.455 2.30 0.00 0.00 5.68
7472 7855 2.682856 ACAGCCAATACATGTTTAGCGG 59.317 45.455 2.30 6.74 0.00 5.52
7483 7866 6.322491 GTCTTACCAATTCAACAGCCAATAC 58.678 40.000 0.00 0.00 0.00 1.89
7514 7897 2.356278 GCTCCATGGAAGCACCCA 59.644 61.111 23.33 0.00 41.05 4.51
7536 7919 8.786826 AATCGACTCATAAGAAATAAACCACA 57.213 30.769 0.00 0.00 0.00 4.17
7692 8077 1.003812 TGGTTTCCCCGACGATGAAAT 59.996 47.619 12.66 0.00 35.15 2.17


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

AutoCloner maintained by Alex Coulton.