Multiple sequence alignment - TraesCS6A01G109700

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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 TraesCS6A01G109700 chr6A 100.000 3828 0 0 1 3828 79086136 79089963 0.000000e+00 7070.0
1 TraesCS6A01G109700 chr6D 94.753 3221 145 14 157 3368 61790821 61794026 0.000000e+00 4990.0
2 TraesCS6A01G109700 chr6D 93.985 133 7 1 3452 3584 61794225 61794356 2.330000e-47 200.0
3 TraesCS6A01G109700 chr6D 92.079 101 6 2 2 102 61790708 61790806 1.430000e-29 141.0
4 TraesCS6A01G109700 chr6B 91.777 3016 164 43 147 3115 135707190 135710168 0.000000e+00 4119.0
5 TraesCS6A01G109700 chr6B 91.413 361 27 4 3227 3584 135710466 135710825 3.440000e-135 492.0
6 TraesCS6A01G109700 chr6B 98.824 255 3 0 3574 3828 664545430 664545684 4.510000e-124 455.0
7 TraesCS6A01G109700 chr6B 93.116 276 19 0 3106 3381 135710193 135710468 4.600000e-109 405.0
8 TraesCS6A01G109700 chr6B 94.118 102 3 2 3 102 135707088 135707188 6.620000e-33 152.0
9 TraesCS6A01G109700 chr1B 98.837 258 2 1 3571 3828 46708810 46709066 3.480000e-125 459.0
10 TraesCS6A01G109700 chr1B 84.932 73 6 5 3483 3550 15240692 15240764 6.860000e-08 69.4
11 TraesCS6A01G109700 chr7A 98.450 258 3 1 3571 3828 137266384 137266640 1.620000e-123 453.0
12 TraesCS6A01G109700 chr7A 86.567 134 16 2 2761 2894 507173692 507173823 3.080000e-31 147.0
13 TraesCS6A01G109700 chr7A 90.164 61 2 3 3496 3552 734997941 734997881 4.100000e-10 76.8
14 TraesCS6A01G109700 chr7B 98.077 260 4 1 3569 3828 726934095 726933837 5.830000e-123 451.0
15 TraesCS6A01G109700 chr7B 85.915 142 15 3 2770 2908 443343625 443343486 3.080000e-31 147.0
16 TraesCS6A01G109700 chr7B 83.750 80 10 3 3475 3551 469795119 469795198 5.300000e-09 73.1
17 TraesCS6A01G109700 chr7B 85.714 63 7 2 1 62 286833031 286832970 8.880000e-07 65.8
18 TraesCS6A01G109700 chr3A 98.077 260 4 1 3569 3828 110179401 110179659 5.830000e-123 451.0
19 TraesCS6A01G109700 chr3B 99.592 245 1 0 3584 3828 581701353 581701109 7.540000e-122 448.0
20 TraesCS6A01G109700 chr3B 90.411 73 5 1 3480 3550 717297683 717297611 1.130000e-15 95.3
21 TraesCS6A01G109700 chrUn 97.338 263 5 2 3566 3828 402388964 402389224 2.710000e-121 446.0
22 TraesCS6A01G109700 chr1A 97.338 263 5 2 3566 3828 33259801 33260061 2.710000e-121 446.0
23 TraesCS6A01G109700 chr1A 97.338 263 5 2 3566 3828 427537855 427537595 2.710000e-121 446.0
24 TraesCS6A01G109700 chr7D 85.211 142 16 3 2770 2908 426152568 426152429 1.430000e-29 141.0
25 TraesCS6A01G109700 chr7D 87.692 65 6 2 3488 3550 60485171 60485107 1.470000e-09 75.0
26 TraesCS6A01G109700 chr2D 79.894 189 10 5 3392 3552 551437787 551437975 3.130000e-21 113.0
27 TraesCS6A01G109700 chr4A 91.304 69 5 1 3399 3466 601018669 601018601 4.070000e-15 93.5
28 TraesCS6A01G109700 chr1D 91.176 68 6 0 3403 3470 203755801 203755868 4.070000e-15 93.5
29 TraesCS6A01G109700 chr2A 85.714 91 8 5 3465 3550 162726185 162726095 1.460000e-14 91.6
30 TraesCS6A01G109700 chr2B 86.076 79 6 4 3483 3556 93400709 93400631 3.170000e-11 80.5


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 TraesCS6A01G109700 chr6A 79086136 79089963 3827 False 7070 7070 100.000000 1 3828 1 chr6A.!!$F1 3827
1 TraesCS6A01G109700 chr6D 61790708 61794356 3648 False 1777 4990 93.605667 2 3584 3 chr6D.!!$F1 3582
2 TraesCS6A01G109700 chr6B 135707088 135710825 3737 False 1292 4119 92.606000 3 3584 4 chr6B.!!$F2 3581

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
905 912 0.833949 CCCTTTCCTACTCCTGCCTC 59.166 60.0 0.0 0.0 0.0 4.70 F
1992 2037 0.464452 ACACCAATAGCCGCCTCTAC 59.536 55.0 0.0 0.0 0.0 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2581 2627 0.107703 TTGCCGTGGCTGGAGATAAG 60.108 55.0 12.84 0.0 42.51 1.73 R
3086 3136 0.032540 CCCAAAAGAACTGGCACTGC 59.967 55.0 0.00 0.0 32.10 4.40 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
93 96 9.878667 TCTGTTCCTATAATTTTACAATCGTGA 57.121 29.630 0.00 0.00 0.00 4.35
110 113 5.333299 TCGTGAGAATTAAAGGAATCCGA 57.667 39.130 0.00 0.00 37.03 4.55
111 114 5.726397 TCGTGAGAATTAAAGGAATCCGAA 58.274 37.500 0.00 0.00 37.03 4.30
112 115 6.346096 TCGTGAGAATTAAAGGAATCCGAAT 58.654 36.000 0.00 0.00 37.03 3.34
113 116 6.821665 TCGTGAGAATTAAAGGAATCCGAATT 59.178 34.615 8.80 8.80 37.03 2.17
114 117 7.982919 TCGTGAGAATTAAAGGAATCCGAATTA 59.017 33.333 8.96 1.80 37.03 1.40
115 118 8.609176 CGTGAGAATTAAAGGAATCCGAATTAA 58.391 33.333 8.96 9.12 0.00 1.40
122 125 9.883142 ATTAAAGGAATCCGAATTAAAAATGCA 57.117 25.926 10.39 0.00 0.00 3.96
123 126 9.712305 TTAAAGGAATCCGAATTAAAAATGCAA 57.288 25.926 0.00 0.00 0.00 4.08
124 127 8.791327 AAAGGAATCCGAATTAAAAATGCAAT 57.209 26.923 0.00 0.00 0.00 3.56
125 128 9.883142 AAAGGAATCCGAATTAAAAATGCAATA 57.117 25.926 0.00 0.00 0.00 1.90
126 129 8.871686 AGGAATCCGAATTAAAAATGCAATAC 57.128 30.769 0.00 0.00 0.00 1.89
127 130 8.474025 AGGAATCCGAATTAAAAATGCAATACA 58.526 29.630 0.00 0.00 0.00 2.29
128 131 8.755018 GGAATCCGAATTAAAAATGCAATACAG 58.245 33.333 0.00 0.00 0.00 2.74
129 132 8.647143 AATCCGAATTAAAAATGCAATACAGG 57.353 30.769 0.00 0.00 0.00 4.00
130 133 7.164230 TCCGAATTAAAAATGCAATACAGGT 57.836 32.000 0.00 0.00 0.00 4.00
131 134 7.607250 TCCGAATTAAAAATGCAATACAGGTT 58.393 30.769 0.00 0.00 0.00 3.50
132 135 8.091449 TCCGAATTAAAAATGCAATACAGGTTT 58.909 29.630 0.00 0.00 0.00 3.27
133 136 8.716909 CCGAATTAAAAATGCAATACAGGTTTT 58.283 29.630 0.00 0.00 35.06 2.43
178 184 6.661805 ACAGGTTTGGGGTGTAATAAATACAG 59.338 38.462 0.00 0.00 45.00 2.74
260 266 7.180322 TCATTAATCAAATAGCCAGCCAAAA 57.820 32.000 0.00 0.00 0.00 2.44
430 436 1.271840 GGGTCACATGAGCTACCCCA 61.272 60.000 8.74 0.00 44.99 4.96
431 437 0.839946 GGTCACATGAGCTACCCCAT 59.160 55.000 0.00 0.00 39.31 4.00
509 515 2.031616 TCACTGGCTCACTGCTGC 59.968 61.111 0.00 0.00 42.39 5.25
514 520 1.004560 TGGCTCACTGCTGCTGTAC 60.005 57.895 11.92 5.14 42.39 2.90
529 535 3.203716 GCTGTACCTGGGTAAAGTATGC 58.796 50.000 15.88 2.08 38.02 3.14
533 539 3.366052 ACCTGGGTAAAGTATGCTTGG 57.634 47.619 0.00 0.00 34.71 3.61
578 584 3.569701 CCAAAAGCTTCTGTCTTTGCCTA 59.430 43.478 0.00 0.00 34.34 3.93
580 586 2.481289 AGCTTCTGTCTTTGCCTACC 57.519 50.000 0.00 0.00 0.00 3.18
583 589 2.079925 CTTCTGTCTTTGCCTACCAGC 58.920 52.381 0.00 0.00 0.00 4.85
612 618 4.041198 AGCTTTTGTGGCTGTACCTACTTA 59.959 41.667 0.00 0.00 38.73 2.24
613 619 4.153655 GCTTTTGTGGCTGTACCTACTTAC 59.846 45.833 0.00 0.00 40.22 2.34
614 620 5.548406 CTTTTGTGGCTGTACCTACTTACT 58.452 41.667 0.00 0.00 40.22 2.24
615 621 4.796038 TTGTGGCTGTACCTACTTACTC 57.204 45.455 0.00 0.00 40.22 2.59
616 622 4.043608 TGTGGCTGTACCTACTTACTCT 57.956 45.455 0.00 0.00 40.22 3.24
617 623 3.762288 TGTGGCTGTACCTACTTACTCTG 59.238 47.826 0.00 0.00 40.22 3.35
619 625 3.245514 TGGCTGTACCTACTTACTCTGGT 60.246 47.826 0.00 0.00 40.22 4.00
620 626 4.018141 TGGCTGTACCTACTTACTCTGGTA 60.018 45.833 0.00 0.00 40.22 3.25
905 912 0.833949 CCCTTTCCTACTCCTGCCTC 59.166 60.000 0.00 0.00 0.00 4.70
1101 1110 0.831288 AGAGATCCATGAGCGGGAGG 60.831 60.000 0.00 0.00 37.96 4.30
1411 1430 9.425577 AGAGTAAGTACTAGAACTTTTTCATGC 57.574 33.333 0.00 0.00 40.20 4.06
1412 1431 9.204570 GAGTAAGTACTAGAACTTTTTCATGCA 57.795 33.333 0.00 0.00 40.20 3.96
1413 1432 9.555727 AGTAAGTACTAGAACTTTTTCATGCAA 57.444 29.630 0.00 0.00 40.20 4.08
1463 1488 5.010415 TGCTCGTGAGATTCTATGATCATGT 59.990 40.000 18.72 1.64 40.84 3.21
1466 1491 7.359097 GCTCGTGAGATTCTATGATCATGTTTC 60.359 40.741 18.72 9.51 40.84 2.78
1524 1555 8.085296 CGATTTCTTGTTCATATAGGAGCTACT 58.915 37.037 2.64 2.64 0.00 2.57
1701 1743 1.443802 GCAAGAAGCTAGACCACCAC 58.556 55.000 0.00 0.00 41.15 4.16
1947 1992 2.357034 GGCGGCTTCTTCGTGTCA 60.357 61.111 0.00 0.00 0.00 3.58
1953 1998 0.507358 GCTTCTTCGTGTCACGGAAC 59.493 55.000 24.33 11.57 42.81 3.62
1992 2037 0.464452 ACACCAATAGCCGCCTCTAC 59.536 55.000 0.00 0.00 0.00 2.59
2077 2122 9.871238 GTTTCAGGTAAATTCTATCACTAGACA 57.129 33.333 0.00 0.00 33.66 3.41
2133 2179 8.833231 GATAGATCGAAACCCTAATTCATGAA 57.167 34.615 11.26 11.26 0.00 2.57
2155 2201 4.260170 AGAACATCTGCAGGAATCAAGAC 58.740 43.478 15.13 0.00 0.00 3.01
2216 2262 4.680537 AGGCCTCCTCGACCACGT 62.681 66.667 0.00 0.00 40.69 4.49
2352 2398 2.832201 GCTCTCAAGGGCCATGGC 60.832 66.667 29.47 29.47 41.06 4.40
2353 2399 2.679092 CTCTCAAGGGCCATGGCA 59.321 61.111 36.56 16.18 44.11 4.92
2354 2400 1.453379 CTCTCAAGGGCCATGGCAG 60.453 63.158 36.56 24.63 44.11 4.85
2385 2431 3.371063 GTCGGTCGTGCCAGGAGA 61.371 66.667 0.00 0.00 36.97 3.71
2419 2465 4.609995 CCGTTTAGATGGCACGGT 57.390 55.556 4.00 0.00 46.90 4.83
2509 2555 2.678836 CCAGAAGCAGAAGCATCTTGAG 59.321 50.000 0.00 0.00 45.80 3.02
2512 2558 2.195741 AGCAGAAGCATCTTGAGCAA 57.804 45.000 3.08 0.00 45.49 3.91
2545 2591 1.116536 TGACACCAGCCGACAAGGTA 61.117 55.000 0.00 0.00 43.70 3.08
2581 2627 2.125350 CCGGAGTTGGAGCTCAGC 60.125 66.667 17.19 4.66 37.24 4.26
2584 2630 0.532573 CGGAGTTGGAGCTCAGCTTA 59.467 55.000 17.19 0.00 39.88 3.09
2659 2705 2.811066 GAGCACTGCTGCATCGAGC 61.811 63.158 8.69 2.79 46.97 5.03
2932 2978 6.070938 ACCTTTTGTCCTCTACCAGTACATAC 60.071 42.308 0.00 0.00 0.00 2.39
2989 3036 1.044611 GGAGTATGGACAGCCTCTCC 58.955 60.000 0.00 0.00 38.73 3.71
3014 3061 0.107897 GTACGTGGCCACATGATCCA 60.108 55.000 34.16 1.20 37.07 3.41
3041 3088 6.621596 GCCTTGTTCTCTTGTGTGACAATATC 60.622 42.308 0.00 0.00 37.48 1.63
3044 3091 7.658179 TGTTCTCTTGTGTGACAATATCTTC 57.342 36.000 0.00 0.00 37.48 2.87
3049 3096 4.545208 TGTGTGACAATATCTTCGGGAA 57.455 40.909 0.00 0.00 0.00 3.97
3086 3136 4.940046 AGAGACAAGTATCCATTGCAGTTG 59.060 41.667 0.00 0.00 0.00 3.16
3107 3157 0.261696 AGTGCCAGTTCTTTTGGGGT 59.738 50.000 0.00 0.00 36.19 4.95
3119 3203 5.055265 TCTTTTGGGGTTTATGAGTGTCA 57.945 39.130 0.00 0.00 0.00 3.58
3140 3224 6.663093 TGTCAGTCAAAATAAGTTGCCCATAT 59.337 34.615 0.00 0.00 0.00 1.78
3161 3245 1.678728 CCAGTTTATTCTGGCAGCCGA 60.679 52.381 10.34 4.29 46.53 5.54
3183 3267 7.411696 GCCGAAGCTAAAACTTTAGTCTAGAAC 60.412 40.741 10.19 0.00 41.63 3.01
3205 3289 8.833734 AGAACCTTATTAGTTAACCCTTAAGCT 58.166 33.333 0.88 0.00 0.00 3.74
3383 3622 4.688879 TGTTTACATCTTCAAGTGGCTACG 59.311 41.667 0.00 0.00 0.00 3.51
3388 3627 1.202592 TCTTCAAGTGGCTACGCACAA 60.203 47.619 0.00 0.00 0.00 3.33
3389 3628 1.806542 CTTCAAGTGGCTACGCACAAT 59.193 47.619 0.00 0.00 0.00 2.71
3390 3629 2.753055 TCAAGTGGCTACGCACAATA 57.247 45.000 0.00 0.00 0.00 1.90
3414 3653 4.201910 GCGGATCCAGAAAAATCGAATGAA 60.202 41.667 13.41 0.00 0.00 2.57
3415 3654 5.505286 CGGATCCAGAAAAATCGAATGAAG 58.495 41.667 13.41 0.00 0.00 3.02
3542 3781 2.284995 GCTGGTCCCCCTGTCTCT 60.285 66.667 0.00 0.00 32.49 3.10
3573 3812 1.081833 ACAGAGGCCAGACTCCCAT 59.918 57.895 5.01 0.00 38.26 4.00
3584 3823 4.767478 CCAGACTCCCATGCATCTATATG 58.233 47.826 0.00 0.00 36.09 1.78
3585 3824 4.224594 CCAGACTCCCATGCATCTATATGT 59.775 45.833 0.00 0.00 35.38 2.29
3586 3825 5.280368 CCAGACTCCCATGCATCTATATGTT 60.280 44.000 0.00 0.00 35.38 2.71
3587 3826 5.642491 CAGACTCCCATGCATCTATATGTTG 59.358 44.000 0.00 0.00 35.38 3.33
3588 3827 4.914983 ACTCCCATGCATCTATATGTTGG 58.085 43.478 0.00 0.00 37.83 3.77
3589 3828 4.598807 ACTCCCATGCATCTATATGTTGGA 59.401 41.667 0.00 0.00 39.21 3.53
3590 3829 5.073554 ACTCCCATGCATCTATATGTTGGAA 59.926 40.000 0.00 0.00 39.21 3.53
3591 3830 5.951204 TCCCATGCATCTATATGTTGGAAA 58.049 37.500 0.00 1.34 39.21 3.13
3592 3831 6.554784 TCCCATGCATCTATATGTTGGAAAT 58.445 36.000 0.00 0.00 39.21 2.17
3593 3832 7.697946 TCCCATGCATCTATATGTTGGAAATA 58.302 34.615 0.00 0.00 39.21 1.40
3594 3833 8.338493 TCCCATGCATCTATATGTTGGAAATAT 58.662 33.333 0.00 0.00 39.21 1.28
3595 3834 8.410912 CCCATGCATCTATATGTTGGAAATATG 58.589 37.037 0.00 0.00 39.21 1.78
3596 3835 7.919091 CCATGCATCTATATGTTGGAAATATGC 59.081 37.037 0.00 0.00 39.21 3.14
3597 3836 7.395190 TGCATCTATATGTTGGAAATATGCC 57.605 36.000 0.00 0.00 37.09 4.40
3598 3837 6.377996 TGCATCTATATGTTGGAAATATGCCC 59.622 38.462 0.00 0.00 37.09 5.36
3599 3838 6.604795 GCATCTATATGTTGGAAATATGCCCT 59.395 38.462 0.00 0.00 35.38 5.19
3600 3839 7.775093 GCATCTATATGTTGGAAATATGCCCTA 59.225 37.037 0.00 0.00 35.38 3.53
3601 3840 9.334947 CATCTATATGTTGGAAATATGCCCTAG 57.665 37.037 0.00 0.00 0.00 3.02
3602 3841 8.679344 TCTATATGTTGGAAATATGCCCTAGA 57.321 34.615 0.00 0.00 0.00 2.43
3603 3842 8.762645 TCTATATGTTGGAAATATGCCCTAGAG 58.237 37.037 0.00 0.00 0.00 2.43
3604 3843 4.437682 TGTTGGAAATATGCCCTAGAGG 57.562 45.455 0.00 0.00 39.47 3.69
3620 3859 7.881775 CCCTAGAGGCAATAATAAAAGTGTT 57.118 36.000 0.00 0.00 0.00 3.32
3621 3860 8.974060 CCCTAGAGGCAATAATAAAAGTGTTA 57.026 34.615 0.00 0.00 0.00 2.41
3622 3861 9.574516 CCCTAGAGGCAATAATAAAAGTGTTAT 57.425 33.333 0.00 0.00 0.00 1.89
3682 3921 8.948631 ATTCATGCTATAACTGTATTATCCGG 57.051 34.615 0.00 0.00 0.00 5.14
3683 3922 7.712204 TCATGCTATAACTGTATTATCCGGA 57.288 36.000 6.61 6.61 0.00 5.14
3684 3923 8.129496 TCATGCTATAACTGTATTATCCGGAA 57.871 34.615 9.01 0.00 0.00 4.30
3685 3924 8.590204 TCATGCTATAACTGTATTATCCGGAAA 58.410 33.333 9.01 4.74 0.00 3.13
3686 3925 9.383519 CATGCTATAACTGTATTATCCGGAAAT 57.616 33.333 9.01 12.31 0.00 2.17
3687 3926 8.997621 TGCTATAACTGTATTATCCGGAAATC 57.002 34.615 9.01 5.33 0.00 2.17
3688 3927 7.758076 TGCTATAACTGTATTATCCGGAAATCG 59.242 37.037 9.01 5.25 38.88 3.34
3689 3928 7.758528 GCTATAACTGTATTATCCGGAAATCGT 59.241 37.037 9.01 5.81 37.11 3.73
3694 3933 8.976986 ACTGTATTATCCGGAAATCGTAATAC 57.023 34.615 25.06 25.06 40.20 1.89
3695 3934 8.579006 ACTGTATTATCCGGAAATCGTAATACA 58.421 33.333 28.89 28.89 43.27 2.29
3696 3935 8.746922 TGTATTATCCGGAAATCGTAATACAC 57.253 34.615 28.04 16.29 42.13 2.90
3712 3951 7.979037 CGTAATACACGTGTGAATACATAGAC 58.021 38.462 30.83 14.41 45.82 2.59
3713 3952 7.112565 CGTAATACACGTGTGAATACATAGACC 59.887 40.741 30.83 6.57 45.82 3.85
3714 3953 4.794278 ACACGTGTGAATACATAGACCA 57.206 40.909 22.71 0.00 39.39 4.02
3715 3954 4.491676 ACACGTGTGAATACATAGACCAC 58.508 43.478 22.71 0.00 39.39 4.16
3716 3955 4.021807 ACACGTGTGAATACATAGACCACA 60.022 41.667 22.71 0.00 39.39 4.17
3717 3956 4.926832 CACGTGTGAATACATAGACCACAA 59.073 41.667 7.58 0.00 39.13 3.33
3718 3957 5.580691 CACGTGTGAATACATAGACCACAAT 59.419 40.000 7.58 0.00 39.13 2.71
3719 3958 6.754675 CACGTGTGAATACATAGACCACAATA 59.245 38.462 7.58 0.00 39.13 1.90
3720 3959 7.438160 CACGTGTGAATACATAGACCACAATAT 59.562 37.037 7.58 0.00 39.13 1.28
3721 3960 7.438160 ACGTGTGAATACATAGACCACAATATG 59.562 37.037 0.00 0.00 39.13 1.78
3722 3961 7.438160 CGTGTGAATACATAGACCACAATATGT 59.562 37.037 0.00 3.60 43.31 2.29
3723 3962 8.765219 GTGTGAATACATAGACCACAATATGTC 58.235 37.037 0.00 0.00 40.78 3.06
3724 3963 7.931407 TGTGAATACATAGACCACAATATGTCC 59.069 37.037 1.37 0.00 40.78 4.02
3725 3964 7.387948 GTGAATACATAGACCACAATATGTCCC 59.612 40.741 1.37 0.00 40.78 4.46
3726 3965 7.292356 TGAATACATAGACCACAATATGTCCCT 59.708 37.037 1.37 0.00 40.78 4.20
3727 3966 8.736097 AATACATAGACCACAATATGTCCCTA 57.264 34.615 1.37 0.00 40.78 3.53
3728 3967 6.672266 ACATAGACCACAATATGTCCCTAG 57.328 41.667 0.00 0.00 37.98 3.02
3729 3968 6.143915 ACATAGACCACAATATGTCCCTAGT 58.856 40.000 0.00 0.00 37.98 2.57
3730 3969 6.042093 ACATAGACCACAATATGTCCCTAGTG 59.958 42.308 0.00 0.00 37.98 2.74
3731 3970 4.620723 AGACCACAATATGTCCCTAGTGA 58.379 43.478 0.00 0.00 31.76 3.41
3732 3971 4.651503 AGACCACAATATGTCCCTAGTGAG 59.348 45.833 0.00 0.00 31.76 3.51
3733 3972 3.134804 ACCACAATATGTCCCTAGTGAGC 59.865 47.826 0.00 0.00 0.00 4.26
3734 3973 3.495100 CCACAATATGTCCCTAGTGAGCC 60.495 52.174 0.00 0.00 0.00 4.70
3735 3974 3.389329 CACAATATGTCCCTAGTGAGCCT 59.611 47.826 0.00 0.00 0.00 4.58
3736 3975 3.643792 ACAATATGTCCCTAGTGAGCCTC 59.356 47.826 0.00 0.00 0.00 4.70
3737 3976 3.900601 CAATATGTCCCTAGTGAGCCTCT 59.099 47.826 0.00 0.00 0.00 3.69
3738 3977 5.080337 CAATATGTCCCTAGTGAGCCTCTA 58.920 45.833 0.00 0.00 0.00 2.43
3739 3978 2.738587 TGTCCCTAGTGAGCCTCTAG 57.261 55.000 0.00 0.00 35.86 2.43
3740 3979 1.923850 TGTCCCTAGTGAGCCTCTAGT 59.076 52.381 0.00 0.00 34.72 2.57
3741 3980 2.312140 TGTCCCTAGTGAGCCTCTAGTT 59.688 50.000 0.00 0.00 34.72 2.24
3742 3981 2.691011 GTCCCTAGTGAGCCTCTAGTTG 59.309 54.545 0.00 3.20 34.72 3.16
3743 3982 2.581246 TCCCTAGTGAGCCTCTAGTTGA 59.419 50.000 0.00 4.76 34.72 3.18
3744 3983 2.691011 CCCTAGTGAGCCTCTAGTTGAC 59.309 54.545 0.00 0.00 34.72 3.18
3745 3984 3.626222 CCCTAGTGAGCCTCTAGTTGACT 60.626 52.174 0.00 0.00 34.72 3.41
3746 3985 4.385421 CCCTAGTGAGCCTCTAGTTGACTA 60.385 50.000 0.00 0.00 34.72 2.59
3747 3986 4.819630 CCTAGTGAGCCTCTAGTTGACTAG 59.180 50.000 11.14 11.14 45.57 2.57
3748 3987 3.020984 AGTGAGCCTCTAGTTGACTAGC 58.979 50.000 12.30 3.61 44.24 3.42
3749 3988 3.020984 GTGAGCCTCTAGTTGACTAGCT 58.979 50.000 12.30 7.92 44.24 3.32
3750 3989 3.066203 GTGAGCCTCTAGTTGACTAGCTC 59.934 52.174 17.34 17.34 44.24 4.09
3751 3990 2.289547 GAGCCTCTAGTTGACTAGCTCG 59.710 54.545 12.30 0.00 44.24 5.03
3752 3991 2.018515 GCCTCTAGTTGACTAGCTCGT 58.981 52.381 12.30 0.00 44.24 4.18
3753 3992 2.424246 GCCTCTAGTTGACTAGCTCGTT 59.576 50.000 12.30 0.00 44.24 3.85
3754 3993 3.732471 GCCTCTAGTTGACTAGCTCGTTG 60.732 52.174 12.30 0.75 44.24 4.10
3755 3994 3.440872 CCTCTAGTTGACTAGCTCGTTGT 59.559 47.826 12.30 0.00 44.24 3.32
3756 3995 4.407818 CTCTAGTTGACTAGCTCGTTGTG 58.592 47.826 12.30 0.00 44.24 3.33
3757 3996 4.070009 TCTAGTTGACTAGCTCGTTGTGA 58.930 43.478 12.30 0.00 44.24 3.58
3758 3997 3.944055 AGTTGACTAGCTCGTTGTGAT 57.056 42.857 0.00 0.00 0.00 3.06
3759 3998 3.839293 AGTTGACTAGCTCGTTGTGATC 58.161 45.455 0.00 0.00 0.00 2.92
3760 3999 3.255888 AGTTGACTAGCTCGTTGTGATCA 59.744 43.478 0.00 0.00 0.00 2.92
3761 4000 3.934457 TGACTAGCTCGTTGTGATCAA 57.066 42.857 0.00 0.00 0.00 2.57
3762 4001 8.771523 CTAGTTGACTAGCTCGTTGTGATCAAC 61.772 44.444 0.00 9.17 42.66 3.18
3775 4014 5.682234 TGTGATCAACAGATAGTCATGGT 57.318 39.130 0.00 0.00 33.78 3.55
3776 4015 6.053632 TGTGATCAACAGATAGTCATGGTT 57.946 37.500 0.00 0.00 33.78 3.67
3777 4016 6.475504 TGTGATCAACAGATAGTCATGGTTT 58.524 36.000 0.00 0.00 33.78 3.27
3778 4017 6.595326 TGTGATCAACAGATAGTCATGGTTTC 59.405 38.462 0.00 0.00 33.78 2.78
3779 4018 6.037610 GTGATCAACAGATAGTCATGGTTTCC 59.962 42.308 0.00 0.00 0.00 3.13
3780 4019 5.762179 TCAACAGATAGTCATGGTTTCCT 57.238 39.130 0.00 0.00 0.00 3.36
3781 4020 5.491070 TCAACAGATAGTCATGGTTTCCTG 58.509 41.667 0.00 0.00 0.00 3.86
3782 4021 4.494091 ACAGATAGTCATGGTTTCCTGG 57.506 45.455 0.00 0.00 0.00 4.45
3783 4022 3.209410 CAGATAGTCATGGTTTCCTGGC 58.791 50.000 0.00 0.00 0.00 4.85
3784 4023 3.118112 CAGATAGTCATGGTTTCCTGGCT 60.118 47.826 0.00 0.00 0.00 4.75
3785 4024 4.101585 CAGATAGTCATGGTTTCCTGGCTA 59.898 45.833 0.00 0.00 34.35 3.93
3786 4025 4.910304 AGATAGTCATGGTTTCCTGGCTAT 59.090 41.667 10.00 10.00 41.67 2.97
3787 4026 3.287867 AGTCATGGTTTCCTGGCTATG 57.712 47.619 0.00 0.00 0.00 2.23
3788 4027 2.092212 AGTCATGGTTTCCTGGCTATGG 60.092 50.000 0.00 0.00 0.00 2.74
3789 4028 2.092429 GTCATGGTTTCCTGGCTATGGA 60.092 50.000 0.00 0.00 0.00 3.41
3790 4029 2.092429 TCATGGTTTCCTGGCTATGGAC 60.092 50.000 0.00 0.00 32.65 4.02
3791 4030 1.367346 TGGTTTCCTGGCTATGGACA 58.633 50.000 0.00 0.00 32.65 4.02
3792 4031 1.922447 TGGTTTCCTGGCTATGGACAT 59.078 47.619 0.00 0.00 32.65 3.06
3793 4032 2.311542 TGGTTTCCTGGCTATGGACATT 59.688 45.455 0.00 0.00 32.65 2.71
3794 4033 2.689983 GGTTTCCTGGCTATGGACATTG 59.310 50.000 0.00 0.00 32.65 2.82
3795 4034 2.689983 GTTTCCTGGCTATGGACATTGG 59.310 50.000 0.00 0.00 32.65 3.16
3796 4035 1.891933 TCCTGGCTATGGACATTGGA 58.108 50.000 0.00 0.00 0.00 3.53
3797 4036 2.421725 TCCTGGCTATGGACATTGGAT 58.578 47.619 0.00 0.00 0.00 3.41
3798 4037 2.107031 TCCTGGCTATGGACATTGGATG 59.893 50.000 0.00 0.00 0.00 3.51
3825 4064 7.121974 GTTGATAACGGGATCACATCATTAG 57.878 40.000 0.00 0.00 35.56 1.73
3826 4065 5.793817 TGATAACGGGATCACATCATTAGG 58.206 41.667 0.00 0.00 30.75 2.69
3827 4066 5.542251 TGATAACGGGATCACATCATTAGGA 59.458 40.000 0.00 0.00 30.75 2.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 101 9.883142 ATTGCATTTTTAATTCGGATTCCTTTA 57.117 25.926 0.00 0.00 0.00 1.85
102 105 8.641499 TGTATTGCATTTTTAATTCGGATTCC 57.359 30.769 0.00 0.00 0.00 3.01
103 106 8.755018 CCTGTATTGCATTTTTAATTCGGATTC 58.245 33.333 0.00 0.00 0.00 2.52
104 107 8.257306 ACCTGTATTGCATTTTTAATTCGGATT 58.743 29.630 0.00 0.00 0.00 3.01
105 108 7.781056 ACCTGTATTGCATTTTTAATTCGGAT 58.219 30.769 0.00 0.00 0.00 4.18
106 109 7.164230 ACCTGTATTGCATTTTTAATTCGGA 57.836 32.000 0.00 0.00 0.00 4.55
107 110 7.826260 AACCTGTATTGCATTTTTAATTCGG 57.174 32.000 0.00 0.00 0.00 4.30
135 138 6.909550 ACCTGTATTGCATAACCTCAAAAA 57.090 33.333 0.00 0.00 0.00 1.94
136 139 6.909550 AACCTGTATTGCATAACCTCAAAA 57.090 33.333 0.00 0.00 0.00 2.44
137 140 6.295011 CCAAACCTGTATTGCATAACCTCAAA 60.295 38.462 0.00 0.00 0.00 2.69
138 141 5.184864 CCAAACCTGTATTGCATAACCTCAA 59.815 40.000 0.00 0.00 0.00 3.02
139 142 4.704540 CCAAACCTGTATTGCATAACCTCA 59.295 41.667 0.00 0.00 0.00 3.86
140 143 4.097892 CCCAAACCTGTATTGCATAACCTC 59.902 45.833 0.00 0.00 0.00 3.85
141 144 4.023291 CCCAAACCTGTATTGCATAACCT 58.977 43.478 0.00 0.00 0.00 3.50
142 145 3.132111 CCCCAAACCTGTATTGCATAACC 59.868 47.826 0.00 0.00 0.00 2.85
143 146 3.767131 ACCCCAAACCTGTATTGCATAAC 59.233 43.478 0.00 0.00 0.00 1.89
144 147 3.766591 CACCCCAAACCTGTATTGCATAA 59.233 43.478 0.00 0.00 0.00 1.90
145 148 3.245443 ACACCCCAAACCTGTATTGCATA 60.245 43.478 0.00 0.00 0.00 3.14
430 436 4.471908 TGCATGCACGAGCGGGAT 62.472 61.111 18.46 0.00 46.23 3.85
509 515 4.755266 AGCATACTTTACCCAGGTACAG 57.245 45.455 8.21 8.21 35.28 2.74
514 520 3.644966 TCCAAGCATACTTTACCCAGG 57.355 47.619 0.00 0.00 32.29 4.45
529 535 6.506500 AGTTCATGAGCTAAATGTTCCAAG 57.493 37.500 10.73 0.00 0.00 3.61
533 539 7.816640 TGGTTAAGTTCATGAGCTAAATGTTC 58.183 34.615 12.88 0.87 0.00 3.18
583 589 3.715628 ACAGCCACAAAAGCTACAAAG 57.284 42.857 0.00 0.00 38.95 2.77
612 618 3.639094 GGCATGAGTCATACTACCAGAGT 59.361 47.826 5.03 0.00 42.69 3.24
613 619 3.894427 AGGCATGAGTCATACTACCAGAG 59.106 47.826 5.03 0.00 0.00 3.35
614 620 3.916035 AGGCATGAGTCATACTACCAGA 58.084 45.455 5.03 0.00 0.00 3.86
615 621 4.584743 TGTAGGCATGAGTCATACTACCAG 59.415 45.833 27.50 10.68 35.02 4.00
616 622 4.542697 TGTAGGCATGAGTCATACTACCA 58.457 43.478 27.50 19.17 35.02 3.25
617 623 5.730296 ATGTAGGCATGAGTCATACTACC 57.270 43.478 27.50 18.32 35.02 3.18
620 626 8.855110 GCTATATATGTAGGCATGAGTCATACT 58.145 37.037 5.03 9.72 36.58 2.12
905 912 1.482182 TGGACTGGATCAGAATCGTGG 59.518 52.381 1.59 0.00 35.18 4.94
1101 1110 1.363744 CTTCATTGAGGTCCAGCGTC 58.636 55.000 0.00 0.00 0.00 5.19
1405 1417 9.955208 GATCATCACAAGTAATTATTGCATGAA 57.045 29.630 5.38 0.00 35.52 2.57
1410 1429 6.959361 ACCGATCATCACAAGTAATTATTGC 58.041 36.000 0.00 0.00 0.00 3.56
1411 1430 8.397906 ACAACCGATCATCACAAGTAATTATTG 58.602 33.333 0.00 0.00 0.00 1.90
1412 1431 8.506168 ACAACCGATCATCACAAGTAATTATT 57.494 30.769 0.00 0.00 0.00 1.40
1413 1432 8.506168 AACAACCGATCATCACAAGTAATTAT 57.494 30.769 0.00 0.00 0.00 1.28
1415 1434 6.817765 AACAACCGATCATCACAAGTAATT 57.182 33.333 0.00 0.00 0.00 1.40
1419 1438 3.304659 GCAAACAACCGATCATCACAAGT 60.305 43.478 0.00 0.00 0.00 3.16
1424 1443 1.731709 CGAGCAAACAACCGATCATCA 59.268 47.619 0.00 0.00 0.00 3.07
1466 1491 9.831737 AGAAAATTAATCAGATTCAGTGAAACG 57.168 29.630 10.14 4.39 45.86 3.60
1490 1519 9.967346 CTATATGAACAAGAAATCGAAGGTAGA 57.033 33.333 0.00 0.00 0.00 2.59
1701 1743 2.186903 CCCCTGATCCGTTGACCG 59.813 66.667 0.00 0.00 0.00 4.79
1823 1868 2.472695 AGGTGAAAATACTGCGCTCA 57.527 45.000 9.73 0.00 0.00 4.26
2133 2179 4.019501 AGTCTTGATTCCTGCAGATGTTCT 60.020 41.667 17.39 0.00 0.00 3.01
2289 2335 0.107945 ACCAAAGCTCTCATCTCGCC 60.108 55.000 0.00 0.00 0.00 5.54
2436 2482 2.698274 TCTGACGATATGGCCTTAGCAA 59.302 45.455 13.67 0.00 42.56 3.91
2437 2483 2.316108 TCTGACGATATGGCCTTAGCA 58.684 47.619 13.67 4.51 42.56 3.49
2448 2494 2.858745 TCATCACGGGATCTGACGATA 58.141 47.619 0.00 1.11 0.00 2.92
2527 2573 0.669625 GTACCTTGTCGGCTGGTGTC 60.670 60.000 13.95 5.24 35.48 3.67
2545 2591 2.404995 CGTCTCTACCGGAAGCCGT 61.405 63.158 9.46 0.00 46.80 5.68
2556 2602 1.001764 TCCAACTCCGGCGTCTCTA 60.002 57.895 6.01 0.00 0.00 2.43
2581 2627 0.107703 TTGCCGTGGCTGGAGATAAG 60.108 55.000 12.84 0.00 42.51 1.73
2584 2630 1.153086 GATTGCCGTGGCTGGAGAT 60.153 57.895 12.84 0.00 42.51 2.75
2775 2821 1.351017 CCAAAGTACTCTGCCCCAGAA 59.649 52.381 0.00 0.00 40.18 3.02
2914 2960 3.813443 TCCGTATGTACTGGTAGAGGAC 58.187 50.000 0.00 0.00 35.80 3.85
2915 2961 3.713248 TCTCCGTATGTACTGGTAGAGGA 59.287 47.826 0.00 0.00 0.00 3.71
2932 2978 6.483307 ACCAACAAACATGACATATATCTCCG 59.517 38.462 0.00 0.00 0.00 4.63
2989 3036 2.581409 GTGGCCACGTACCGATCG 60.581 66.667 22.49 8.51 0.00 3.69
3014 3061 2.880890 GTCACACAAGAGAACAAGGCAT 59.119 45.455 0.00 0.00 0.00 4.40
3041 3088 3.134081 TGGATAGGTTTAGCTTCCCGAAG 59.866 47.826 0.00 0.00 41.24 3.79
3044 3091 2.698797 TCTGGATAGGTTTAGCTTCCCG 59.301 50.000 0.00 0.00 0.00 5.14
3049 3096 5.026790 ACTTGTCTCTGGATAGGTTTAGCT 58.973 41.667 0.00 0.00 0.00 3.32
3086 3136 0.032540 CCCAAAAGAACTGGCACTGC 59.967 55.000 0.00 0.00 32.10 4.40
3090 3140 1.872773 AAACCCCAAAAGAACTGGCA 58.127 45.000 0.00 0.00 32.10 4.92
3119 3203 6.194235 TGGATATGGGCAACTTATTTTGACT 58.806 36.000 0.00 0.00 34.59 3.41
3183 3267 7.571025 TGGAGCTTAAGGGTTAACTAATAAGG 58.429 38.462 18.00 4.07 0.00 2.69
3205 3289 3.408634 CTTAAGGGCGAGTTCTTTTGGA 58.591 45.455 0.00 0.00 0.00 3.53
3383 3622 1.953559 TTCTGGATCCGCTATTGTGC 58.046 50.000 7.39 0.00 0.00 4.57
3388 3627 4.336889 TCGATTTTTCTGGATCCGCTAT 57.663 40.909 7.39 0.00 0.00 2.97
3389 3628 3.812156 TCGATTTTTCTGGATCCGCTA 57.188 42.857 7.39 0.00 0.00 4.26
3390 3629 2.691409 TCGATTTTTCTGGATCCGCT 57.309 45.000 7.39 0.00 0.00 5.52
3396 3635 4.016444 CCCCTTCATTCGATTTTTCTGGA 58.984 43.478 0.00 0.00 0.00 3.86
3414 3653 1.725169 TTAGCAACACTTGGCCCCCT 61.725 55.000 0.00 0.00 0.00 4.79
3415 3654 1.228737 TTAGCAACACTTGGCCCCC 60.229 57.895 0.00 0.00 0.00 5.40
3493 3732 4.725490 CCCCCTAACATCACCGATTTAAT 58.275 43.478 0.00 0.00 0.00 1.40
3573 3812 6.377996 GGGCATATTTCCAACATATAGATGCA 59.622 38.462 0.00 0.00 39.08 3.96
3596 3835 7.881775 AACACTTTTATTATTGCCTCTAGGG 57.118 36.000 0.00 0.00 35.18 3.53
3657 3896 8.758829 TCCGGATAATACAGTTATAGCATGAAT 58.241 33.333 0.00 0.00 0.00 2.57
3658 3897 8.129496 TCCGGATAATACAGTTATAGCATGAA 57.871 34.615 0.00 0.00 0.00 2.57
3659 3898 7.712204 TCCGGATAATACAGTTATAGCATGA 57.288 36.000 0.00 0.00 0.00 3.07
3660 3899 8.771920 TTTCCGGATAATACAGTTATAGCATG 57.228 34.615 4.15 0.00 0.00 4.06
3661 3900 9.601217 GATTTCCGGATAATACAGTTATAGCAT 57.399 33.333 4.15 0.00 0.00 3.79
3662 3901 7.758076 CGATTTCCGGATAATACAGTTATAGCA 59.242 37.037 4.15 0.00 33.91 3.49
3663 3902 7.758528 ACGATTTCCGGATAATACAGTTATAGC 59.241 37.037 4.15 0.00 43.93 2.97
3668 3907 9.415544 GTATTACGATTTCCGGATAATACAGTT 57.584 33.333 26.02 11.20 39.68 3.16
3669 3908 8.579006 TGTATTACGATTTCCGGATAATACAGT 58.421 33.333 28.04 20.31 41.92 3.55
3670 3909 8.857216 GTGTATTACGATTTCCGGATAATACAG 58.143 37.037 30.32 18.57 44.29 2.74
3671 3910 8.746922 GTGTATTACGATTTCCGGATAATACA 57.253 34.615 28.04 28.04 43.07 2.29
3688 3927 7.916977 TGGTCTATGTATTCACACGTGTATTAC 59.083 37.037 22.90 20.91 37.54 1.89
3689 3928 7.916977 GTGGTCTATGTATTCACACGTGTATTA 59.083 37.037 22.90 9.93 37.54 0.98
3690 3929 6.755141 GTGGTCTATGTATTCACACGTGTATT 59.245 38.462 22.90 11.42 37.54 1.89
3691 3930 6.127563 TGTGGTCTATGTATTCACACGTGTAT 60.128 38.462 22.90 14.96 37.54 2.29
3692 3931 5.183522 TGTGGTCTATGTATTCACACGTGTA 59.816 40.000 22.90 7.35 37.54 2.90
3693 3932 4.021807 TGTGGTCTATGTATTCACACGTGT 60.022 41.667 17.22 17.22 37.54 4.49
3694 3933 4.490743 TGTGGTCTATGTATTCACACGTG 58.509 43.478 15.48 15.48 37.54 4.49
3695 3934 4.794278 TGTGGTCTATGTATTCACACGT 57.206 40.909 0.00 0.00 37.54 4.49
3696 3935 7.438160 ACATATTGTGGTCTATGTATTCACACG 59.562 37.037 0.00 0.00 36.93 4.49
3697 3936 8.662781 ACATATTGTGGTCTATGTATTCACAC 57.337 34.615 0.00 0.00 36.93 3.82
3698 3937 7.931407 GGACATATTGTGGTCTATGTATTCACA 59.069 37.037 0.00 0.00 38.38 3.58
3699 3938 7.387948 GGGACATATTGTGGTCTATGTATTCAC 59.612 40.741 0.00 0.00 38.38 3.18
3700 3939 7.292356 AGGGACATATTGTGGTCTATGTATTCA 59.708 37.037 0.00 0.00 38.38 2.57
3701 3940 7.680730 AGGGACATATTGTGGTCTATGTATTC 58.319 38.462 0.00 0.00 38.38 1.75
3702 3941 7.633018 AGGGACATATTGTGGTCTATGTATT 57.367 36.000 0.00 0.00 38.38 1.89
3703 3942 7.956315 ACTAGGGACATATTGTGGTCTATGTAT 59.044 37.037 0.00 0.00 38.38 2.29
3704 3943 7.232737 CACTAGGGACATATTGTGGTCTATGTA 59.767 40.741 0.00 0.00 38.38 2.29
3705 3944 6.042093 CACTAGGGACATATTGTGGTCTATGT 59.958 42.308 0.00 0.00 40.38 2.29
3706 3945 6.267699 TCACTAGGGACATATTGTGGTCTATG 59.732 42.308 0.00 0.00 34.49 2.23
3707 3946 6.382087 TCACTAGGGACATATTGTGGTCTAT 58.618 40.000 0.00 0.00 34.49 1.98
3708 3947 5.773091 TCACTAGGGACATATTGTGGTCTA 58.227 41.667 0.00 0.00 34.49 2.59
3709 3948 4.620723 TCACTAGGGACATATTGTGGTCT 58.379 43.478 0.00 0.00 34.49 3.85
3710 3949 4.740934 GCTCACTAGGGACATATTGTGGTC 60.741 50.000 0.00 0.00 0.00 4.02
3711 3950 3.134804 GCTCACTAGGGACATATTGTGGT 59.865 47.826 0.00 0.00 0.00 4.16
3712 3951 3.495100 GGCTCACTAGGGACATATTGTGG 60.495 52.174 0.00 0.00 0.00 4.17
3713 3952 3.389329 AGGCTCACTAGGGACATATTGTG 59.611 47.826 0.00 0.00 0.00 3.33
3714 3953 3.643792 GAGGCTCACTAGGGACATATTGT 59.356 47.826 10.25 0.00 0.00 2.71
3715 3954 3.900601 AGAGGCTCACTAGGGACATATTG 59.099 47.826 18.26 0.00 0.00 1.90
3716 3955 4.206244 AGAGGCTCACTAGGGACATATT 57.794 45.455 18.26 0.00 0.00 1.28
3717 3956 3.913370 AGAGGCTCACTAGGGACATAT 57.087 47.619 18.26 0.00 0.00 1.78
3718 3957 3.722627 ACTAGAGGCTCACTAGGGACATA 59.277 47.826 18.26 0.00 40.86 2.29
3719 3958 2.516277 ACTAGAGGCTCACTAGGGACAT 59.484 50.000 18.26 0.00 40.86 3.06
3720 3959 1.923850 ACTAGAGGCTCACTAGGGACA 59.076 52.381 18.26 0.00 40.86 4.02
3721 3960 2.691011 CAACTAGAGGCTCACTAGGGAC 59.309 54.545 18.26 0.00 40.86 4.46
3722 3961 2.581246 TCAACTAGAGGCTCACTAGGGA 59.419 50.000 18.26 9.66 40.86 4.20
3723 3962 2.691011 GTCAACTAGAGGCTCACTAGGG 59.309 54.545 18.26 7.64 40.86 3.53
3724 3963 3.626930 AGTCAACTAGAGGCTCACTAGG 58.373 50.000 18.26 3.24 40.86 3.02
3725 3964 4.274950 GCTAGTCAACTAGAGGCTCACTAG 59.725 50.000 23.14 23.14 46.80 2.57
3726 3965 4.080243 AGCTAGTCAACTAGAGGCTCACTA 60.080 45.833 18.26 12.80 46.80 2.74
3727 3966 3.020984 GCTAGTCAACTAGAGGCTCACT 58.979 50.000 18.26 12.32 46.80 3.41
3728 3967 3.020984 AGCTAGTCAACTAGAGGCTCAC 58.979 50.000 18.26 4.72 46.80 3.51
3729 3968 3.283751 GAGCTAGTCAACTAGAGGCTCA 58.716 50.000 18.26 1.80 46.80 4.26
3730 3969 2.289547 CGAGCTAGTCAACTAGAGGCTC 59.710 54.545 19.03 16.73 46.80 4.70
3731 3970 2.294074 CGAGCTAGTCAACTAGAGGCT 58.706 52.381 19.03 10.84 46.80 4.58
3732 3971 2.018515 ACGAGCTAGTCAACTAGAGGC 58.981 52.381 19.03 6.58 46.80 4.70
3733 3972 3.440872 ACAACGAGCTAGTCAACTAGAGG 59.559 47.826 19.03 10.05 46.80 3.69
3734 3973 4.154375 TCACAACGAGCTAGTCAACTAGAG 59.846 45.833 19.03 11.89 46.80 2.43
3735 3974 4.070009 TCACAACGAGCTAGTCAACTAGA 58.930 43.478 19.03 0.00 46.80 2.43
3736 3975 4.421033 TCACAACGAGCTAGTCAACTAG 57.579 45.455 11.99 11.99 46.63 2.57
3737 3976 4.457949 TGATCACAACGAGCTAGTCAACTA 59.542 41.667 0.00 0.00 0.00 2.24
3738 3977 3.255888 TGATCACAACGAGCTAGTCAACT 59.744 43.478 0.00 0.00 0.00 3.16
3739 3978 3.575630 TGATCACAACGAGCTAGTCAAC 58.424 45.455 0.00 0.00 0.00 3.18
3740 3979 3.934457 TGATCACAACGAGCTAGTCAA 57.066 42.857 0.00 0.00 0.00 3.18
3741 3980 3.575630 GTTGATCACAACGAGCTAGTCA 58.424 45.455 0.00 0.00 45.06 3.41
3752 3991 6.053632 ACCATGACTATCTGTTGATCACAA 57.946 37.500 0.00 0.00 33.87 3.33
3753 3992 5.682234 ACCATGACTATCTGTTGATCACA 57.318 39.130 0.00 0.00 34.32 3.58
3754 3993 6.037610 GGAAACCATGACTATCTGTTGATCAC 59.962 42.308 0.00 0.00 34.32 3.06
3755 3994 6.070021 AGGAAACCATGACTATCTGTTGATCA 60.070 38.462 0.00 0.00 34.32 2.92
3756 3995 6.259608 CAGGAAACCATGACTATCTGTTGATC 59.740 42.308 0.00 0.00 34.32 2.92
3757 3996 6.118170 CAGGAAACCATGACTATCTGTTGAT 58.882 40.000 0.00 0.00 36.74 2.57
3758 3997 5.491070 CAGGAAACCATGACTATCTGTTGA 58.509 41.667 0.00 0.00 0.00 3.18
3759 3998 4.637534 CCAGGAAACCATGACTATCTGTTG 59.362 45.833 0.00 0.00 0.00 3.33
3760 3999 4.848357 CCAGGAAACCATGACTATCTGTT 58.152 43.478 0.00 0.00 0.00 3.16
3761 4000 3.370953 GCCAGGAAACCATGACTATCTGT 60.371 47.826 0.00 0.00 0.00 3.41
3762 4001 3.118112 AGCCAGGAAACCATGACTATCTG 60.118 47.826 0.00 0.00 0.00 2.90
3763 4002 3.118531 AGCCAGGAAACCATGACTATCT 58.881 45.455 0.00 0.00 0.00 1.98
3764 4003 3.567478 AGCCAGGAAACCATGACTATC 57.433 47.619 0.00 0.00 0.00 2.08
3765 4004 4.202503 CCATAGCCAGGAAACCATGACTAT 60.203 45.833 0.00 0.00 0.00 2.12
3766 4005 3.136443 CCATAGCCAGGAAACCATGACTA 59.864 47.826 0.00 0.00 0.00 2.59
3767 4006 2.092212 CCATAGCCAGGAAACCATGACT 60.092 50.000 0.00 0.00 0.00 3.41
3768 4007 2.092429 TCCATAGCCAGGAAACCATGAC 60.092 50.000 0.00 0.00 30.71 3.06
3769 4008 2.092429 GTCCATAGCCAGGAAACCATGA 60.092 50.000 0.00 0.00 36.80 3.07
3770 4009 2.301346 GTCCATAGCCAGGAAACCATG 58.699 52.381 0.00 0.00 36.80 3.66
3771 4010 1.922447 TGTCCATAGCCAGGAAACCAT 59.078 47.619 0.00 0.00 36.80 3.55
3772 4011 1.367346 TGTCCATAGCCAGGAAACCA 58.633 50.000 0.00 0.00 36.80 3.67
3773 4012 2.689983 CAATGTCCATAGCCAGGAAACC 59.310 50.000 0.00 0.00 36.80 3.27
3774 4013 2.689983 CCAATGTCCATAGCCAGGAAAC 59.310 50.000 0.00 0.00 36.80 2.78
3775 4014 2.580322 TCCAATGTCCATAGCCAGGAAA 59.420 45.455 0.00 0.00 36.80 3.13
3776 4015 2.204463 TCCAATGTCCATAGCCAGGAA 58.796 47.619 0.00 0.00 36.80 3.36
3777 4016 1.891933 TCCAATGTCCATAGCCAGGA 58.108 50.000 0.00 0.00 0.00 3.86
3778 4017 2.158564 ACATCCAATGTCCATAGCCAGG 60.159 50.000 0.00 0.00 39.92 4.45
3779 4018 3.219176 ACATCCAATGTCCATAGCCAG 57.781 47.619 0.00 0.00 39.92 4.85
3801 4040 6.147821 CCTAATGATGTGATCCCGTTATCAAC 59.852 42.308 0.00 0.00 37.61 3.18
3802 4041 6.042666 TCCTAATGATGTGATCCCGTTATCAA 59.957 38.462 0.00 0.00 37.61 2.57
3803 4042 5.542251 TCCTAATGATGTGATCCCGTTATCA 59.458 40.000 0.00 0.00 33.48 2.15
3804 4043 6.037786 TCCTAATGATGTGATCCCGTTATC 57.962 41.667 0.00 0.00 0.00 1.75


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

AutoCloner maintained by Alex Coulton.