Multiple sequence alignment - TraesCS1D01G155900

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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 TraesCS1D01G155900 chr1D 100.000 3640 0 0 1 3640 219483569 219487208 0.000000e+00 6722
1 TraesCS1D01G155900 chr1D 95.536 224 10 0 3417 3640 105263304 105263081 3.460000e-95 359
2 TraesCS1D01G155900 chr1D 95.089 224 11 0 3417 3640 133443854 133443631 1.610000e-93 353
3 TraesCS1D01G155900 chr1D 91.818 110 9 0 3029 3138 350973496 350973387 1.750000e-33 154
4 TraesCS1D01G155900 chr1B 92.732 2339 97 33 215 2540 314569896 314572174 0.000000e+00 3310
5 TraesCS1D01G155900 chr1B 90.375 613 34 13 2824 3419 314572468 314573072 0.000000e+00 782
6 TraesCS1D01G155900 chr1B 95.197 229 10 1 2584 2812 314572187 314572414 9.610000e-96 361
7 TraesCS1D01G155900 chr1B 91.818 110 9 0 3029 3138 583544869 583544760 1.750000e-33 154
8 TraesCS1D01G155900 chr1A 93.996 2082 88 16 1 2067 282552046 282554105 0.000000e+00 3118
9 TraesCS1D01G155900 chr1A 93.844 666 21 8 2081 2743 282554168 282554816 0.000000e+00 985
10 TraesCS1D01G155900 chr1A 87.363 364 43 2 2845 3208 282688853 282689213 7.270000e-112 414
11 TraesCS1D01G155900 chr1A 89.803 304 28 1 2824 3127 282690604 282690904 1.590000e-103 387
12 TraesCS1D01G155900 chr1A 95.089 224 11 0 3417 3640 456418708 456418485 1.610000e-93 353
13 TraesCS1D01G155900 chr1A 87.963 216 21 1 3209 3419 282691018 282691233 2.170000e-62 250
14 TraesCS1D01G155900 chr1A 94.068 118 7 0 3302 3419 498684189 498684072 2.890000e-41 180
15 TraesCS1D01G155900 chr1A 93.333 120 8 0 3300 3419 22569331 22569212 1.040000e-40 178
16 TraesCS1D01G155900 chr3D 95.982 224 9 0 3417 3640 154854136 154854359 7.430000e-97 364
17 TraesCS1D01G155900 chr6D 95.089 224 11 0 3417 3640 265919981 265919758 1.610000e-93 353
18 TraesCS1D01G155900 chr6D 95.089 224 11 0 3417 3640 319930827 319930604 1.610000e-93 353
19 TraesCS1D01G155900 chr6D 95.089 224 11 0 3417 3640 331636244 331636021 1.610000e-93 353
20 TraesCS1D01G155900 chr6D 91.818 110 9 0 3026 3135 370011640 370011749 1.750000e-33 154
21 TraesCS1D01G155900 chr6A 95.089 224 11 0 3417 3640 309767963 309767740 1.610000e-93 353
22 TraesCS1D01G155900 chr6A 91.818 110 9 0 3029 3138 597223260 597223151 1.750000e-33 154
23 TraesCS1D01G155900 chr2B 94.323 229 13 0 3412 3640 199492480 199492708 5.780000e-93 351
24 TraesCS1D01G155900 chr3B 94.167 120 7 0 3300 3419 797572118 797571999 2.230000e-42 183
25 TraesCS1D01G155900 chr7B 93.333 120 8 0 3300 3419 716902658 716902539 1.040000e-40 178
26 TraesCS1D01G155900 chr7B 93.333 120 8 0 3300 3419 742996485 742996604 1.040000e-40 178
27 TraesCS1D01G155900 chr7A 93.333 120 8 0 3300 3419 60286335 60286454 1.040000e-40 178
28 TraesCS1D01G155900 chr3A 93.333 120 8 0 3300 3419 719015141 719015022 1.040000e-40 178
29 TraesCS1D01G155900 chr6B 91.818 110 9 0 3026 3135 128895424 128895533 1.750000e-33 154
30 TraesCS1D01G155900 chr6B 91.818 110 9 0 3029 3138 681546620 681546511 1.750000e-33 154


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 TraesCS1D01G155900 chr1D 219483569 219487208 3639 False 6722.000000 6722 100.000000 1 3640 1 chr1D.!!$F1 3639
1 TraesCS1D01G155900 chr1B 314569896 314573072 3176 False 1484.333333 3310 92.768000 215 3419 3 chr1B.!!$F1 3204
2 TraesCS1D01G155900 chr1A 282552046 282554816 2770 False 2051.500000 3118 93.920000 1 2743 2 chr1A.!!$F1 2742
3 TraesCS1D01G155900 chr1A 282688853 282691233 2380 False 350.333333 414 88.376333 2824 3419 3 chr1A.!!$F2 595

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
987 995 1.13596 ATAGCTTTCTCCCTCTGGCC 58.864 55.0 0.0 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2821 2897 0.11714 TGACCACACCCTCCAGAGAT 59.883 55.0 0.0 0.0 0.0 2.75 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
31 32 2.837591 TGCTAGGCTTCTGTTGATGGTA 59.162 45.455 0.00 0.00 0.00 3.25
67 68 3.285484 AGCATCCAATGGTCACTCAATC 58.715 45.455 0.00 0.00 35.90 2.67
70 71 4.883585 GCATCCAATGGTCACTCAATCTTA 59.116 41.667 0.00 0.00 0.00 2.10
173 177 3.430098 GCTGAGGATAGACTGTGGACTTG 60.430 52.174 0.00 0.00 0.00 3.16
177 181 5.485353 TGAGGATAGACTGTGGACTTGAAAT 59.515 40.000 0.00 0.00 0.00 2.17
185 189 4.697352 ACTGTGGACTTGAAATGCAGATAC 59.303 41.667 0.00 0.00 0.00 2.24
208 213 3.344535 TGGATTGCCCCTCTGATACTA 57.655 47.619 0.00 0.00 0.00 1.82
415 421 2.277084 CCTGCAGTGGAATTACGGTAC 58.723 52.381 13.81 0.00 0.00 3.34
450 456 4.885838 CGTCGAATACGTCTGTACTGTAA 58.114 43.478 0.00 0.00 46.72 2.41
530 536 8.925700 CCAAATTGACCTCTATTTTAAACTTGC 58.074 33.333 0.00 0.00 30.94 4.01
611 618 5.408604 ACTTCAACAGGATACACGTCAATTC 59.591 40.000 0.00 0.00 41.41 2.17
629 636 2.254546 TCGCAAGCTTTTGGAGAGAA 57.745 45.000 0.00 0.00 37.18 2.87
712 719 6.223120 AGCCACAAATAAACATTTCAACTCC 58.777 36.000 0.00 0.00 0.00 3.85
737 744 1.535896 GAAACCTGAAAAGTCCTCGCC 59.464 52.381 0.00 0.00 0.00 5.54
793 800 5.582665 GCAACTTGGTAGAAGGATACAGAAG 59.417 44.000 0.00 0.00 41.41 2.85
914 921 2.598394 TTGGTGCAAGGAGCTGGC 60.598 61.111 0.00 0.00 45.94 4.85
916 923 3.060615 GGTGCAAGGAGCTGGCTG 61.061 66.667 0.00 0.00 45.94 4.85
917 924 3.060615 GTGCAAGGAGCTGGCTGG 61.061 66.667 0.00 0.00 45.94 4.85
987 995 1.135960 ATAGCTTTCTCCCTCTGGCC 58.864 55.000 0.00 0.00 0.00 5.36
1050 1058 0.804989 GCAATCGGGTTCAGGTTCAG 59.195 55.000 0.00 0.00 0.00 3.02
1054 1062 0.395312 TCGGGTTCAGGTTCAGGTTC 59.605 55.000 0.00 0.00 0.00 3.62
1304 1318 2.028385 GTGTTCTCATCCCCGTAACTGT 60.028 50.000 0.00 0.00 0.00 3.55
1490 1510 1.938657 GCTGCTAGTCTCTGACGGCA 61.939 60.000 15.60 15.60 40.95 5.69
1786 1806 2.333417 CCAGAAGCAGCACCAGCAG 61.333 63.158 0.00 0.00 45.49 4.24
1972 1993 6.202762 CACACTACAAACACTCACATACATGT 59.797 38.462 2.69 2.69 42.84 3.21
2083 2109 3.427098 CGTCACATAGGCTTCGTAGTTGA 60.427 47.826 0.00 0.00 0.00 3.18
2103 2179 0.456653 CGGTGCACAGCCTAATTTGC 60.457 55.000 20.43 0.00 35.45 3.68
2106 2182 1.257055 TGCACAGCCTAATTTGCCCC 61.257 55.000 0.00 0.00 33.86 5.80
2117 2193 0.469144 ATTTGCCCCGTTCCAACACT 60.469 50.000 0.00 0.00 0.00 3.55
2137 2213 4.017126 ACTGGATTTTTCTTCCCGGATTC 58.983 43.478 0.73 0.00 31.87 2.52
2139 2215 3.014623 GGATTTTTCTTCCCGGATTCGT 58.985 45.455 0.73 0.00 33.95 3.85
2260 2336 2.260822 AGAGAAGCCTGGCTGAAGTAA 58.739 47.619 24.16 0.00 39.62 2.24
2261 2337 2.843113 AGAGAAGCCTGGCTGAAGTAAT 59.157 45.455 24.16 3.82 39.62 1.89
2262 2338 4.033709 AGAGAAGCCTGGCTGAAGTAATA 58.966 43.478 24.16 0.00 39.62 0.98
2263 2339 4.123506 GAGAAGCCTGGCTGAAGTAATAC 58.876 47.826 24.16 5.62 39.62 1.89
2264 2340 3.519510 AGAAGCCTGGCTGAAGTAATACA 59.480 43.478 24.16 0.00 39.62 2.29
2265 2341 4.164988 AGAAGCCTGGCTGAAGTAATACAT 59.835 41.667 24.16 0.55 39.62 2.29
2266 2342 5.366768 AGAAGCCTGGCTGAAGTAATACATA 59.633 40.000 24.16 0.00 39.62 2.29
2268 2344 5.555017 AGCCTGGCTGAAGTAATACATATG 58.445 41.667 22.71 0.00 37.57 1.78
2269 2345 4.154918 GCCTGGCTGAAGTAATACATATGC 59.845 45.833 12.43 0.00 0.00 3.14
2277 2353 8.226448 GCTGAAGTAATACATATGCTGTTGATC 58.774 37.037 1.58 0.00 39.39 2.92
2281 2357 8.824159 AGTAATACATATGCTGTTGATCTGTC 57.176 34.615 1.58 0.00 39.39 3.51
2344 2420 0.034186 TGAACCAGGCCATGTCATCC 60.034 55.000 5.01 0.00 0.00 3.51
2516 2592 5.359756 TCATGTTATAGCAAATCGACAGCT 58.640 37.500 12.01 12.01 42.14 4.24
2528 2604 6.090358 GCAAATCGACAGCTTTGTTAGTAGTA 59.910 38.462 10.10 0.00 36.26 1.82
2529 2605 7.667283 CAAATCGACAGCTTTGTTAGTAGTAG 58.333 38.462 0.00 0.00 31.08 2.57
2530 2606 5.954296 TCGACAGCTTTGTTAGTAGTAGT 57.046 39.130 0.00 0.00 0.00 2.73
2544 2620 7.886970 TGTTAGTAGTAGTTGTCATGTACTCCT 59.113 37.037 0.00 0.00 0.00 3.69
2548 2624 3.505464 AGTTGTCATGTACTCCTACGC 57.495 47.619 0.00 0.00 0.00 4.42
2569 2645 2.902705 TAACATAGATCACGCCACCC 57.097 50.000 0.00 0.00 0.00 4.61
2572 2648 2.431454 ATAGATCACGCCACCCGCA 61.431 57.895 0.00 0.00 41.76 5.69
2573 2649 1.966901 ATAGATCACGCCACCCGCAA 61.967 55.000 0.00 0.00 41.76 4.85
2574 2650 2.173758 TAGATCACGCCACCCGCAAA 62.174 55.000 0.00 0.00 41.76 3.68
2575 2651 2.596046 ATCACGCCACCCGCAAAA 60.596 55.556 0.00 0.00 41.76 2.44
2576 2652 2.136196 GATCACGCCACCCGCAAAAA 62.136 55.000 0.00 0.00 41.76 1.94
2747 2823 6.978674 AAGTTCATAGATAAGGGATGACGA 57.021 37.500 0.00 0.00 29.44 4.20
2752 2828 5.185828 TCATAGATAAGGGATGACGACCATG 59.814 44.000 0.00 0.00 35.17 3.66
2769 2845 1.333308 CATGTCGTTGTGCTGGAACAA 59.667 47.619 0.00 0.00 38.70 2.83
2796 2872 8.129211 GCTCTGTTTTTCTAACACAGTACAATT 58.871 33.333 0.00 0.00 39.24 2.32
2812 2888 9.698309 ACAGTACAATTATAGATGCTCACATAC 57.302 33.333 0.00 0.00 36.35 2.39
2815 2891 7.969536 ACAATTATAGATGCTCACATACACC 57.030 36.000 0.00 0.00 36.35 4.16
2816 2892 7.739825 ACAATTATAGATGCTCACATACACCT 58.260 34.615 0.00 0.00 36.35 4.00
2817 2893 8.870116 ACAATTATAGATGCTCACATACACCTA 58.130 33.333 0.00 0.00 36.35 3.08
2818 2894 9.881649 CAATTATAGATGCTCACATACACCTAT 57.118 33.333 0.00 0.00 36.35 2.57
2827 2945 7.436933 TGCTCACATACACCTATAAATCTCTG 58.563 38.462 0.00 0.00 0.00 3.35
2893 3011 5.579718 CCATCTTGAATTGCTCACTCAATC 58.420 41.667 0.00 0.00 35.77 2.67
2900 3018 6.675026 TGAATTGCTCACTCAATCTTTTCTG 58.325 36.000 0.00 0.00 35.77 3.02
3114 3232 5.335269 CGATATGAAAGACGACCAGCTCTAT 60.335 44.000 0.00 0.00 0.00 1.98
3137 3255 7.716799 ATAACTTTTGGTGCCATATCTTTCA 57.283 32.000 0.00 0.00 0.00 2.69
3138 3256 5.649782 ACTTTTGGTGCCATATCTTTCAG 57.350 39.130 0.00 0.00 0.00 3.02
3140 3258 6.245408 ACTTTTGGTGCCATATCTTTCAGTA 58.755 36.000 0.00 0.00 0.00 2.74
3141 3259 6.375455 ACTTTTGGTGCCATATCTTTCAGTAG 59.625 38.462 0.00 0.00 0.00 2.57
3142 3260 5.692115 TTGGTGCCATATCTTTCAGTAGA 57.308 39.130 0.00 0.00 0.00 2.59
3143 3261 5.282055 TGGTGCCATATCTTTCAGTAGAG 57.718 43.478 0.00 0.00 0.00 2.43
3252 3430 4.797743 AGTTCTTCCCTCTTTCTGCTTTT 58.202 39.130 0.00 0.00 0.00 2.27
3253 3431 4.582240 AGTTCTTCCCTCTTTCTGCTTTTG 59.418 41.667 0.00 0.00 0.00 2.44
3322 3500 1.136113 GCAGCTCTTTGAAAGACGAGC 60.136 52.381 3.02 6.54 46.89 5.03
3327 3505 4.429108 GCTCTTTGAAAGACGAGCTCTAT 58.571 43.478 12.85 0.00 44.04 1.98
3368 3546 4.804261 GCAAGTTGAGTACTCAGATTGGGT 60.804 45.833 32.04 15.05 41.13 4.51
3382 3560 2.284754 TTGGGTGCTTGCTTGACATA 57.715 45.000 0.00 0.00 0.00 2.29
3419 3597 8.408043 TTGAAACCTGACATGACTATTGATTT 57.592 30.769 0.00 0.00 0.00 2.17
3420 3598 8.044060 TGAAACCTGACATGACTATTGATTTC 57.956 34.615 0.00 0.23 0.00 2.17
3421 3599 7.665145 TGAAACCTGACATGACTATTGATTTCA 59.335 33.333 0.00 2.79 0.00 2.69
3422 3600 8.585471 AAACCTGACATGACTATTGATTTCAT 57.415 30.769 0.00 0.00 0.00 2.57
3423 3601 9.685276 AAACCTGACATGACTATTGATTTCATA 57.315 29.630 0.00 0.00 0.00 2.15
3424 3602 9.857656 AACCTGACATGACTATTGATTTCATAT 57.142 29.630 0.00 0.00 0.00 1.78
3425 3603 9.857656 ACCTGACATGACTATTGATTTCATATT 57.142 29.630 0.00 0.00 0.00 1.28
3454 3632 9.729281 TTTTTAACAATAGGTAGAGGTAGTTGG 57.271 33.333 0.00 0.00 0.00 3.77
3455 3633 8.669055 TTTAACAATAGGTAGAGGTAGTTGGA 57.331 34.615 0.00 0.00 0.00 3.53
3456 3634 8.669055 TTAACAATAGGTAGAGGTAGTTGGAA 57.331 34.615 0.00 0.00 0.00 3.53
3457 3635 7.563724 AACAATAGGTAGAGGTAGTTGGAAA 57.436 36.000 0.00 0.00 0.00 3.13
3476 3654 6.002062 GGAAACTTCCAATAGTGACTGTTG 57.998 41.667 14.21 14.21 46.76 3.33
3477 3655 5.763204 GGAAACTTCCAATAGTGACTGTTGA 59.237 40.000 21.42 6.84 46.76 3.18
3478 3656 6.262273 GGAAACTTCCAATAGTGACTGTTGAA 59.738 38.462 21.42 12.96 46.76 2.69
3479 3657 6.867662 AACTTCCAATAGTGACTGTTGAAG 57.132 37.500 21.42 21.06 35.14 3.02
3480 3658 6.174720 ACTTCCAATAGTGACTGTTGAAGA 57.825 37.500 25.16 14.67 35.14 2.87
3481 3659 6.773638 ACTTCCAATAGTGACTGTTGAAGAT 58.226 36.000 25.16 14.91 35.14 2.40
3482 3660 7.227156 ACTTCCAATAGTGACTGTTGAAGATT 58.773 34.615 25.16 12.17 35.14 2.40
3483 3661 7.721399 ACTTCCAATAGTGACTGTTGAAGATTT 59.279 33.333 25.16 11.73 35.14 2.17
3484 3662 8.463930 TTCCAATAGTGACTGTTGAAGATTTT 57.536 30.769 21.42 0.00 35.14 1.82
3485 3663 8.463930 TCCAATAGTGACTGTTGAAGATTTTT 57.536 30.769 21.42 0.00 35.14 1.94
3486 3664 8.567948 TCCAATAGTGACTGTTGAAGATTTTTC 58.432 33.333 21.42 0.00 35.14 2.29
3487 3665 8.352201 CCAATAGTGACTGTTGAAGATTTTTCA 58.648 33.333 21.42 0.00 35.14 2.69
3488 3666 9.734620 CAATAGTGACTGTTGAAGATTTTTCAA 57.265 29.630 15.83 0.00 35.14 2.69
3492 3670 9.736023 AGTGACTGTTGAAGATTTTTCAATAAC 57.264 29.630 5.74 0.36 40.12 1.89
3493 3671 9.515020 GTGACTGTTGAAGATTTTTCAATAACA 57.485 29.630 5.74 4.54 40.12 2.41
3516 3694 9.874205 AACATTAATACCATTCACTTGGAATTG 57.126 29.630 0.00 0.00 43.76 2.32
3517 3695 9.034800 ACATTAATACCATTCACTTGGAATTGT 57.965 29.630 0.00 0.00 43.76 2.71
3518 3696 9.874205 CATTAATACCATTCACTTGGAATTGTT 57.126 29.630 0.00 0.00 43.76 2.83
3520 3698 9.921637 TTAATACCATTCACTTGGAATTGTTTC 57.078 29.630 0.00 0.00 43.76 2.78
3521 3699 7.781324 ATACCATTCACTTGGAATTGTTTCT 57.219 32.000 0.00 0.00 43.76 2.52
3522 3700 6.484364 ACCATTCACTTGGAATTGTTTCTT 57.516 33.333 0.00 0.00 43.76 2.52
3523 3701 6.515832 ACCATTCACTTGGAATTGTTTCTTC 58.484 36.000 0.00 0.00 43.76 2.87
3524 3702 5.630680 CCATTCACTTGGAATTGTTTCTTCG 59.369 40.000 0.00 0.00 43.76 3.79
3525 3703 4.829064 TCACTTGGAATTGTTTCTTCGG 57.171 40.909 0.00 0.00 32.16 4.30
3526 3704 4.456535 TCACTTGGAATTGTTTCTTCGGA 58.543 39.130 0.00 0.00 32.16 4.55
3527 3705 4.884744 TCACTTGGAATTGTTTCTTCGGAA 59.115 37.500 0.00 0.00 32.16 4.30
3528 3706 5.358442 TCACTTGGAATTGTTTCTTCGGAAA 59.642 36.000 0.00 0.00 41.10 3.13
3529 3707 5.687285 CACTTGGAATTGTTTCTTCGGAAAG 59.313 40.000 0.00 0.00 43.56 2.62
3530 3708 5.359860 ACTTGGAATTGTTTCTTCGGAAAGT 59.640 36.000 0.00 0.00 43.56 2.66
3531 3709 5.181690 TGGAATTGTTTCTTCGGAAAGTG 57.818 39.130 0.00 0.00 43.56 3.16
3532 3710 3.981416 GGAATTGTTTCTTCGGAAAGTGC 59.019 43.478 0.00 0.00 43.56 4.40
3533 3711 4.499019 GGAATTGTTTCTTCGGAAAGTGCA 60.499 41.667 0.00 0.00 43.56 4.57
3534 3712 3.414549 TTGTTTCTTCGGAAAGTGCAC 57.585 42.857 9.40 9.40 43.56 4.57
3535 3713 1.673920 TGTTTCTTCGGAAAGTGCACC 59.326 47.619 14.63 0.00 43.56 5.01
3553 3731 4.472691 CACCGTATGCTCATTACCATTG 57.527 45.455 0.00 0.00 0.00 2.82
3554 3732 4.126437 CACCGTATGCTCATTACCATTGA 58.874 43.478 0.00 0.00 0.00 2.57
3555 3733 4.756642 CACCGTATGCTCATTACCATTGAT 59.243 41.667 0.00 0.00 0.00 2.57
3556 3734 5.931724 CACCGTATGCTCATTACCATTGATA 59.068 40.000 0.00 0.00 0.00 2.15
3557 3735 6.595326 CACCGTATGCTCATTACCATTGATAT 59.405 38.462 0.00 0.00 0.00 1.63
3558 3736 6.595326 ACCGTATGCTCATTACCATTGATATG 59.405 38.462 0.00 0.00 0.00 1.78
3559 3737 6.818142 CCGTATGCTCATTACCATTGATATGA 59.182 38.462 0.00 0.00 33.37 2.15
3560 3738 7.334171 CCGTATGCTCATTACCATTGATATGAA 59.666 37.037 0.00 0.00 33.37 2.57
3561 3739 8.720562 CGTATGCTCATTACCATTGATATGAAA 58.279 33.333 0.00 0.00 33.37 2.69
3564 3742 8.523915 TGCTCATTACCATTGATATGAAAAGT 57.476 30.769 0.00 0.00 33.37 2.66
3565 3743 8.407832 TGCTCATTACCATTGATATGAAAAGTG 58.592 33.333 0.00 0.00 33.37 3.16
3566 3744 8.623903 GCTCATTACCATTGATATGAAAAGTGA 58.376 33.333 0.00 0.00 33.37 3.41
3567 3745 9.941664 CTCATTACCATTGATATGAAAAGTGAC 57.058 33.333 0.00 0.00 33.37 3.67
3568 3746 9.685276 TCATTACCATTGATATGAAAAGTGACT 57.315 29.630 0.00 0.00 33.37 3.41
3572 3750 7.092716 ACCATTGATATGAAAAGTGACTTTGC 58.907 34.615 11.83 10.43 33.64 3.68
3573 3751 7.039504 ACCATTGATATGAAAAGTGACTTTGCT 60.040 33.333 16.50 0.00 33.64 3.91
3574 3752 7.816031 CCATTGATATGAAAAGTGACTTTGCTT 59.184 33.333 16.50 12.67 33.64 3.91
3575 3753 9.199982 CATTGATATGAAAAGTGACTTTGCTTT 57.800 29.630 16.50 7.32 33.64 3.51
3576 3754 9.768662 ATTGATATGAAAAGTGACTTTGCTTTT 57.231 25.926 16.50 6.16 44.55 2.27
3581 3759 7.232945 TGAAAAGTGACTTTGCTTTTATTGC 57.767 32.000 16.50 0.00 42.71 3.56
3582 3760 6.815641 TGAAAAGTGACTTTGCTTTTATTGCA 59.184 30.769 16.50 0.00 42.71 4.08
3583 3761 7.332926 TGAAAAGTGACTTTGCTTTTATTGCAA 59.667 29.630 16.50 0.00 46.90 4.08
3595 3773 8.195617 TGCTTTTATTGCAATTAATAACAGCC 57.804 30.769 18.75 6.26 46.08 4.85
3596 3774 7.279758 TGCTTTTATTGCAATTAATAACAGCCC 59.720 33.333 18.75 0.00 46.08 5.19
3597 3775 7.254761 GCTTTTATTGCAATTAATAACAGCCCC 60.255 37.037 18.75 0.00 43.62 5.80
3598 3776 7.430760 TTTATTGCAATTAATAACAGCCCCT 57.569 32.000 18.75 0.00 33.53 4.79
3599 3777 4.734398 TTGCAATTAATAACAGCCCCTG 57.266 40.909 0.00 0.00 37.52 4.45
3601 3779 4.861196 TGCAATTAATAACAGCCCCTGTA 58.139 39.130 0.00 0.00 44.62 2.74
3602 3780 4.887071 TGCAATTAATAACAGCCCCTGTAG 59.113 41.667 0.00 0.00 44.62 2.74
3603 3781 4.887655 GCAATTAATAACAGCCCCTGTAGT 59.112 41.667 0.00 0.00 44.62 2.73
3604 3782 6.059484 GCAATTAATAACAGCCCCTGTAGTA 58.941 40.000 0.00 0.00 44.62 1.82
3605 3783 6.715264 GCAATTAATAACAGCCCCTGTAGTAT 59.285 38.462 0.00 0.00 44.62 2.12
3606 3784 7.230712 GCAATTAATAACAGCCCCTGTAGTATT 59.769 37.037 0.00 3.59 44.62 1.89
3607 3785 8.784043 CAATTAATAACAGCCCCTGTAGTATTC 58.216 37.037 0.00 0.00 44.62 1.75
3608 3786 5.968676 AATAACAGCCCCTGTAGTATTCA 57.031 39.130 0.00 0.00 44.62 2.57
3609 3787 5.968676 ATAACAGCCCCTGTAGTATTCAA 57.031 39.130 0.00 0.00 44.62 2.69
3610 3788 3.914426 ACAGCCCCTGTAGTATTCAAG 57.086 47.619 0.00 0.00 43.46 3.02
3611 3789 3.450904 ACAGCCCCTGTAGTATTCAAGA 58.549 45.455 0.00 0.00 43.46 3.02
3612 3790 3.844211 ACAGCCCCTGTAGTATTCAAGAA 59.156 43.478 0.00 0.00 43.46 2.52
3613 3791 4.080863 ACAGCCCCTGTAGTATTCAAGAAG 60.081 45.833 0.00 0.00 43.46 2.85
3614 3792 4.080863 CAGCCCCTGTAGTATTCAAGAAGT 60.081 45.833 0.00 0.00 0.00 3.01
3615 3793 4.080863 AGCCCCTGTAGTATTCAAGAAGTG 60.081 45.833 0.00 0.00 0.00 3.16
3616 3794 4.323562 GCCCCTGTAGTATTCAAGAAGTGT 60.324 45.833 0.00 0.00 0.00 3.55
3617 3795 5.420409 CCCCTGTAGTATTCAAGAAGTGTC 58.580 45.833 0.00 0.00 0.00 3.67
3618 3796 5.187967 CCCCTGTAGTATTCAAGAAGTGTCT 59.812 44.000 0.00 0.00 34.72 3.41
3619 3797 6.380274 CCCCTGTAGTATTCAAGAAGTGTCTA 59.620 42.308 0.00 0.00 32.16 2.59
3620 3798 7.259161 CCCTGTAGTATTCAAGAAGTGTCTAC 58.741 42.308 0.00 0.00 32.16 2.59
3621 3799 7.259161 CCTGTAGTATTCAAGAAGTGTCTACC 58.741 42.308 0.00 0.00 32.16 3.18
3622 3800 7.093902 CCTGTAGTATTCAAGAAGTGTCTACCA 60.094 40.741 0.00 0.00 32.16 3.25
3623 3801 8.185506 TGTAGTATTCAAGAAGTGTCTACCAA 57.814 34.615 0.00 0.00 32.16 3.67
3624 3802 8.304596 TGTAGTATTCAAGAAGTGTCTACCAAG 58.695 37.037 0.00 0.00 32.16 3.61
3625 3803 7.540474 AGTATTCAAGAAGTGTCTACCAAGA 57.460 36.000 0.00 0.00 32.16 3.02
3626 3804 7.963532 AGTATTCAAGAAGTGTCTACCAAGAA 58.036 34.615 0.00 0.00 32.16 2.52
3627 3805 8.598041 AGTATTCAAGAAGTGTCTACCAAGAAT 58.402 33.333 0.00 0.00 32.16 2.40
3628 3806 9.871238 GTATTCAAGAAGTGTCTACCAAGAATA 57.129 33.333 0.00 0.00 32.16 1.75
3630 3808 9.965902 ATTCAAGAAGTGTCTACCAAGAATAAT 57.034 29.630 0.00 0.00 32.16 1.28
3631 3809 9.436957 TTCAAGAAGTGTCTACCAAGAATAATC 57.563 33.333 0.00 0.00 32.16 1.75
3632 3810 7.759886 TCAAGAAGTGTCTACCAAGAATAATCG 59.240 37.037 0.00 0.00 32.16 3.34
3633 3811 7.406031 AGAAGTGTCTACCAAGAATAATCGA 57.594 36.000 0.00 0.00 32.16 3.59
3634 3812 7.259161 AGAAGTGTCTACCAAGAATAATCGAC 58.741 38.462 0.00 0.00 32.16 4.20
3635 3813 6.525578 AGTGTCTACCAAGAATAATCGACA 57.474 37.500 0.00 0.00 32.16 4.35
3636 3814 7.113658 AGTGTCTACCAAGAATAATCGACAT 57.886 36.000 0.00 0.00 33.42 3.06
3637 3815 6.980978 AGTGTCTACCAAGAATAATCGACATG 59.019 38.462 0.00 0.00 33.42 3.21
3638 3816 6.757010 GTGTCTACCAAGAATAATCGACATGT 59.243 38.462 0.00 0.00 33.42 3.21
3639 3817 7.277981 GTGTCTACCAAGAATAATCGACATGTT 59.722 37.037 0.00 0.00 33.42 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 7.559590 AACAGATTATACCATCAACAGAAGC 57.440 36.000 0.00 0.00 0.00 3.86
53 54 5.812642 GTCGTGATAAGATTGAGTGACCATT 59.187 40.000 0.00 0.00 0.00 3.16
67 68 1.585668 CAGCAGCTTCGTCGTGATAAG 59.414 52.381 0.00 0.00 0.00 1.73
70 71 0.734253 GTCAGCAGCTTCGTCGTGAT 60.734 55.000 0.00 0.00 0.00 3.06
173 177 4.986659 GGCAATCCATTGTATCTGCATTTC 59.013 41.667 1.37 0.00 39.88 2.17
177 181 2.309613 GGGCAATCCATTGTATCTGCA 58.690 47.619 1.37 0.00 39.88 4.41
185 189 2.376695 ATCAGAGGGGCAATCCATTG 57.623 50.000 0.00 0.00 40.66 2.82
208 213 4.225267 ACGGGAGATATCAAAACTTGTCCT 59.775 41.667 5.32 0.00 0.00 3.85
415 421 0.111134 TTCGACGTGACGACACTACG 60.111 55.000 13.70 18.11 43.99 3.51
450 456 7.056635 AGCTTGCAGGTTAGATTACATTACAT 58.943 34.615 0.00 0.00 0.00 2.29
527 533 2.800544 GCGTTCAACAGAACTAGAGCAA 59.199 45.455 0.00 0.00 39.54 3.91
530 536 2.338500 GGGCGTTCAACAGAACTAGAG 58.662 52.381 0.00 0.00 39.54 2.43
611 618 1.400759 GCTTCTCTCCAAAAGCTTGCG 60.401 52.381 0.00 0.00 43.57 4.85
665 672 5.131784 TCCTGTAAAACCCGTGTAAACATT 58.868 37.500 0.00 0.00 0.00 2.71
712 719 1.266989 GGACTTTTCAGGTTTCTGCCG 59.733 52.381 0.00 0.00 40.69 5.69
737 744 5.801350 TTCACGATAGAAATGCTTGGAAG 57.199 39.130 0.00 0.00 41.38 3.46
793 800 3.157949 CGGGAAGGAGGAGAGGGC 61.158 72.222 0.00 0.00 0.00 5.19
914 921 1.088340 CATCAGCGTCAAGGAGCCAG 61.088 60.000 0.00 0.00 0.00 4.85
916 923 1.078848 ACATCAGCGTCAAGGAGCC 60.079 57.895 0.00 0.00 0.00 4.70
917 924 1.975363 GCACATCAGCGTCAAGGAGC 61.975 60.000 0.00 0.00 0.00 4.70
987 995 3.589542 TTGGCAGGGGGACAAGGG 61.590 66.667 0.00 0.00 40.44 3.95
1050 1058 2.609916 GCAAAAGCTAGAGGATCGAACC 59.390 50.000 2.97 2.97 42.67 3.62
1054 1062 1.212616 CCGCAAAAGCTAGAGGATCG 58.787 55.000 0.00 0.00 42.67 3.69
1222 1235 2.124695 GGCCCTTCCTTACTGGCG 60.125 66.667 0.00 0.00 44.96 5.69
1267 1281 0.878961 ACACGAGTGGAAACCGAAGC 60.879 55.000 8.19 0.00 34.19 3.86
1490 1510 3.700198 GGAACTTGTCCTGTCCGTT 57.300 52.632 0.00 0.00 43.98 4.44
1501 1521 1.230635 CGCCACAGGTCTGGAACTTG 61.231 60.000 2.87 0.00 40.66 3.16
1786 1806 1.716826 GGATCTTCTGCTGCTGCTGC 61.717 60.000 22.51 22.51 40.48 5.25
1972 1993 2.894879 GGTGAGTGTGTGTGCGCA 60.895 61.111 5.66 5.66 0.00 6.09
1973 1994 3.649986 GGGTGAGTGTGTGTGCGC 61.650 66.667 0.00 0.00 0.00 6.09
1974 1995 3.337889 CGGGTGAGTGTGTGTGCG 61.338 66.667 0.00 0.00 0.00 5.34
1975 1996 3.649986 GCGGGTGAGTGTGTGTGC 61.650 66.667 0.00 0.00 0.00 4.57
2063 2089 4.106029 GTCAACTACGAAGCCTATGTGA 57.894 45.455 0.00 0.00 0.00 3.58
2083 2109 0.881118 CAAATTAGGCTGTGCACCGT 59.119 50.000 15.69 3.89 0.00 4.83
2117 2193 3.013921 CGAATCCGGGAAGAAAAATCCA 58.986 45.455 0.00 0.00 38.80 3.41
2160 2236 0.537143 TTGCACAAGAAGCGGATGGT 60.537 50.000 0.00 0.00 33.85 3.55
2223 2299 7.286316 AGGCTTCTCTTGGACAAATAATAATGG 59.714 37.037 0.00 0.00 0.00 3.16
2260 2336 6.089249 TCGACAGATCAACAGCATATGTAT 57.911 37.500 4.29 0.00 43.00 2.29
2261 2337 5.514274 TCGACAGATCAACAGCATATGTA 57.486 39.130 4.29 0.00 43.00 2.29
2262 2338 4.391405 TCGACAGATCAACAGCATATGT 57.609 40.909 4.29 0.00 46.97 2.29
2263 2339 4.748600 ACATCGACAGATCAACAGCATATG 59.251 41.667 0.00 0.00 34.23 1.78
2264 2340 4.748600 CACATCGACAGATCAACAGCATAT 59.251 41.667 0.00 0.00 34.23 1.78
2265 2341 4.114794 CACATCGACAGATCAACAGCATA 58.885 43.478 0.00 0.00 34.23 3.14
2266 2342 2.934553 CACATCGACAGATCAACAGCAT 59.065 45.455 0.00 0.00 34.23 3.79
2268 2344 1.061711 GCACATCGACAGATCAACAGC 59.938 52.381 0.00 0.00 34.23 4.40
2269 2345 2.340337 TGCACATCGACAGATCAACAG 58.660 47.619 0.00 0.00 34.23 3.16
2277 2353 3.256558 TGAATTCTCTGCACATCGACAG 58.743 45.455 7.05 0.00 35.15 3.51
2281 2357 2.733820 GCTGAATTCTCTGCACATCG 57.266 50.000 7.05 0.00 43.88 3.84
2368 2444 1.217882 CGAACGATATGTTGGCCCTC 58.782 55.000 0.00 0.00 42.09 4.30
2516 2592 9.903682 GAGTACATGACAACTACTACTAACAAA 57.096 33.333 0.00 0.00 0.00 2.83
2528 2604 2.823747 TGCGTAGGAGTACATGACAACT 59.176 45.455 0.00 0.00 0.00 3.16
2529 2605 3.226346 TGCGTAGGAGTACATGACAAC 57.774 47.619 0.00 0.00 0.00 3.32
2530 2606 5.105675 TGTTATGCGTAGGAGTACATGACAA 60.106 40.000 0.00 0.00 36.47 3.18
2544 2620 3.004944 TGGCGTGATCTATGTTATGCGTA 59.995 43.478 0.00 0.00 0.00 4.42
2548 2624 3.067106 GGGTGGCGTGATCTATGTTATG 58.933 50.000 0.00 0.00 0.00 1.90
2595 2671 8.766000 TTATGTACAAACACGTGATCTATGTT 57.234 30.769 25.01 0.19 38.78 2.71
2746 2822 0.602638 TCCAGCACAACGACATGGTC 60.603 55.000 0.00 0.00 32.68 4.02
2747 2823 0.179032 TTCCAGCACAACGACATGGT 60.179 50.000 0.00 0.00 32.68 3.55
2752 2828 0.317020 GCTTGTTCCAGCACAACGAC 60.317 55.000 0.00 0.00 39.83 4.34
2769 2845 6.346096 TGTACTGTGTTAGAAAAACAGAGCT 58.654 36.000 15.21 0.00 43.02 4.09
2801 2877 8.093307 CAGAGATTTATAGGTGTATGTGAGCAT 58.907 37.037 0.00 0.00 39.03 3.79
2812 2888 4.656112 ACACCCTCCAGAGATTTATAGGTG 59.344 45.833 12.60 12.60 46.06 4.00
2815 2891 4.656112 ACCACACCCTCCAGAGATTTATAG 59.344 45.833 0.00 0.00 0.00 1.31
2816 2892 4.631234 ACCACACCCTCCAGAGATTTATA 58.369 43.478 0.00 0.00 0.00 0.98
2817 2893 3.456277 GACCACACCCTCCAGAGATTTAT 59.544 47.826 0.00 0.00 0.00 1.40
2818 2894 2.838202 GACCACACCCTCCAGAGATTTA 59.162 50.000 0.00 0.00 0.00 1.40
2819 2895 1.630878 GACCACACCCTCCAGAGATTT 59.369 52.381 0.00 0.00 0.00 2.17
2821 2897 0.117140 TGACCACACCCTCCAGAGAT 59.883 55.000 0.00 0.00 0.00 2.75
2822 2898 0.542938 CTGACCACACCCTCCAGAGA 60.543 60.000 0.00 0.00 0.00 3.10
2827 2945 1.536662 AGGTCTGACCACACCCTCC 60.537 63.158 27.48 0.00 41.95 4.30
2893 3011 7.992180 AGTACATTGCTTTTGTTCAGAAAAG 57.008 32.000 5.08 5.08 43.16 2.27
2900 3018 5.915196 GGTCAGAAGTACATTGCTTTTGTTC 59.085 40.000 0.00 0.00 32.17 3.18
3114 3232 6.719370 ACTGAAAGATATGGCACCAAAAGTTA 59.281 34.615 0.00 0.00 37.43 2.24
3137 3255 7.775053 ACTTCTTCTTGATTCTCACTCTACT 57.225 36.000 0.00 0.00 0.00 2.57
3138 3256 7.700656 GCTACTTCTTCTTGATTCTCACTCTAC 59.299 40.741 0.00 0.00 0.00 2.59
3140 3258 6.350949 GGCTACTTCTTCTTGATTCTCACTCT 60.351 42.308 0.00 0.00 0.00 3.24
3141 3259 5.810074 GGCTACTTCTTCTTGATTCTCACTC 59.190 44.000 0.00 0.00 0.00 3.51
3142 3260 5.247110 TGGCTACTTCTTCTTGATTCTCACT 59.753 40.000 0.00 0.00 0.00 3.41
3143 3261 5.482908 TGGCTACTTCTTCTTGATTCTCAC 58.517 41.667 0.00 0.00 0.00 3.51
3312 3490 5.000012 TCTTCCAATAGAGCTCGTCTTTC 58.000 43.478 8.37 0.00 36.64 2.62
3322 3500 1.069358 GACCCGCCTCTTCCAATAGAG 59.931 57.143 0.00 0.00 41.10 2.43
3327 3505 3.702048 CCGACCCGCCTCTTCCAA 61.702 66.667 0.00 0.00 0.00 3.53
3368 3546 5.247862 TCAAAGAGATATGTCAAGCAAGCA 58.752 37.500 2.30 0.00 0.00 3.91
3382 3560 7.587037 TGTCAGGTTTCAAATTCAAAGAGAT 57.413 32.000 0.00 0.00 0.00 2.75
3428 3606 9.729281 CCAACTACCTCTACCTATTGTTAAAAA 57.271 33.333 0.00 0.00 0.00 1.94
3429 3607 9.103582 TCCAACTACCTCTACCTATTGTTAAAA 57.896 33.333 0.00 0.00 0.00 1.52
3430 3608 8.669055 TCCAACTACCTCTACCTATTGTTAAA 57.331 34.615 0.00 0.00 0.00 1.52
3431 3609 8.669055 TTCCAACTACCTCTACCTATTGTTAA 57.331 34.615 0.00 0.00 0.00 2.01
3432 3610 8.534496 GTTTCCAACTACCTCTACCTATTGTTA 58.466 37.037 0.00 0.00 0.00 2.41
3433 3611 7.237055 AGTTTCCAACTACCTCTACCTATTGTT 59.763 37.037 0.00 0.00 40.69 2.83
3434 3612 6.729569 AGTTTCCAACTACCTCTACCTATTGT 59.270 38.462 0.00 0.00 40.69 2.71
3435 3613 7.184067 AGTTTCCAACTACCTCTACCTATTG 57.816 40.000 0.00 0.00 40.69 1.90
3436 3614 7.092979 GGAAGTTTCCAACTACCTCTACCTATT 60.093 40.741 6.03 0.00 46.76 1.73
3437 3615 6.383436 GGAAGTTTCCAACTACCTCTACCTAT 59.617 42.308 6.03 0.00 46.76 2.57
3438 3616 5.718607 GGAAGTTTCCAACTACCTCTACCTA 59.281 44.000 6.03 0.00 46.76 3.08
3439 3617 4.531339 GGAAGTTTCCAACTACCTCTACCT 59.469 45.833 6.03 0.00 46.76 3.08
3440 3618 4.829968 GGAAGTTTCCAACTACCTCTACC 58.170 47.826 6.03 0.00 46.76 3.18
3454 3632 6.861065 TCAACAGTCACTATTGGAAGTTTC 57.139 37.500 0.00 0.00 0.00 2.78
3455 3633 7.054124 TCTTCAACAGTCACTATTGGAAGTTT 58.946 34.615 0.00 0.00 0.00 2.66
3456 3634 6.591935 TCTTCAACAGTCACTATTGGAAGTT 58.408 36.000 0.00 0.00 0.00 2.66
3457 3635 6.174720 TCTTCAACAGTCACTATTGGAAGT 57.825 37.500 0.00 0.00 0.00 3.01
3458 3636 7.678947 AATCTTCAACAGTCACTATTGGAAG 57.321 36.000 0.00 0.00 0.00 3.46
3459 3637 8.463930 AAAATCTTCAACAGTCACTATTGGAA 57.536 30.769 0.00 0.00 0.00 3.53
3460 3638 8.463930 AAAAATCTTCAACAGTCACTATTGGA 57.536 30.769 0.00 0.00 0.00 3.53
3461 3639 8.352201 TGAAAAATCTTCAACAGTCACTATTGG 58.648 33.333 0.00 0.00 0.00 3.16
3462 3640 9.734620 TTGAAAAATCTTCAACAGTCACTATTG 57.265 29.630 0.00 0.00 33.90 1.90
3466 3644 9.736023 GTTATTGAAAAATCTTCAACAGTCACT 57.264 29.630 2.21 0.00 40.70 3.41
3467 3645 9.515020 TGTTATTGAAAAATCTTCAACAGTCAC 57.485 29.630 2.21 0.00 40.70 3.67
3490 3668 9.874205 CAATTCCAAGTGAATGGTATTAATGTT 57.126 29.630 0.00 0.00 42.97 2.71
3491 3669 9.034800 ACAATTCCAAGTGAATGGTATTAATGT 57.965 29.630 0.00 0.00 44.30 2.71
3492 3670 9.874205 AACAATTCCAAGTGAATGGTATTAATG 57.126 29.630 0.00 0.00 45.19 1.90
3494 3672 9.921637 GAAACAATTCCAAGTGAATGGTATTAA 57.078 29.630 0.00 0.00 45.19 1.40
3495 3673 9.308000 AGAAACAATTCCAAGTGAATGGTATTA 57.692 29.630 0.00 0.00 45.19 0.98
3496 3674 8.193953 AGAAACAATTCCAAGTGAATGGTATT 57.806 30.769 0.00 0.00 45.19 1.89
3497 3675 7.781324 AGAAACAATTCCAAGTGAATGGTAT 57.219 32.000 0.00 0.00 45.19 2.73
3498 3676 7.521423 CGAAGAAACAATTCCAAGTGAATGGTA 60.521 37.037 0.00 0.00 45.19 3.25
3500 3678 5.630680 CGAAGAAACAATTCCAAGTGAATGG 59.369 40.000 0.00 0.00 42.97 3.16
3501 3679 5.630680 CCGAAGAAACAATTCCAAGTGAATG 59.369 40.000 0.00 0.00 42.97 2.67
3502 3680 5.534654 TCCGAAGAAACAATTCCAAGTGAAT 59.465 36.000 0.00 0.00 45.75 2.57
3503 3681 4.884744 TCCGAAGAAACAATTCCAAGTGAA 59.115 37.500 0.00 0.00 36.12 3.18
3504 3682 4.456535 TCCGAAGAAACAATTCCAAGTGA 58.543 39.130 0.00 0.00 36.12 3.41
3505 3683 4.829064 TCCGAAGAAACAATTCCAAGTG 57.171 40.909 0.00 0.00 36.12 3.16
3506 3684 5.359860 ACTTTCCGAAGAAACAATTCCAAGT 59.640 36.000 0.00 0.00 37.07 3.16
3507 3685 5.687285 CACTTTCCGAAGAAACAATTCCAAG 59.313 40.000 0.00 0.00 37.07 3.61
3508 3686 5.587289 CACTTTCCGAAGAAACAATTCCAA 58.413 37.500 0.00 0.00 37.07 3.53
3509 3687 4.499019 GCACTTTCCGAAGAAACAATTCCA 60.499 41.667 0.00 0.00 37.07 3.53
3510 3688 3.981416 GCACTTTCCGAAGAAACAATTCC 59.019 43.478 0.00 0.00 37.07 3.01
3511 3689 4.441087 GTGCACTTTCCGAAGAAACAATTC 59.559 41.667 10.32 0.00 37.07 2.17
3512 3690 4.359706 GTGCACTTTCCGAAGAAACAATT 58.640 39.130 10.32 0.00 37.07 2.32
3513 3691 3.243401 GGTGCACTTTCCGAAGAAACAAT 60.243 43.478 17.98 0.00 37.07 2.71
3514 3692 2.098443 GGTGCACTTTCCGAAGAAACAA 59.902 45.455 17.98 0.00 37.07 2.83
3515 3693 1.673920 GGTGCACTTTCCGAAGAAACA 59.326 47.619 17.98 0.00 37.07 2.83
3516 3694 2.401017 GGTGCACTTTCCGAAGAAAC 57.599 50.000 17.98 0.00 37.07 2.78
3532 3710 4.126437 TCAATGGTAATGAGCATACGGTG 58.874 43.478 0.00 0.00 43.01 4.94
3533 3711 4.415881 TCAATGGTAATGAGCATACGGT 57.584 40.909 0.00 0.00 43.01 4.83
3534 3712 6.818142 TCATATCAATGGTAATGAGCATACGG 59.182 38.462 0.00 0.00 43.01 4.02
3535 3713 7.832503 TCATATCAATGGTAATGAGCATACG 57.167 36.000 0.00 0.00 43.01 3.06
3538 3716 9.139734 ACTTTTCATATCAATGGTAATGAGCAT 57.860 29.630 0.00 0.00 45.76 3.79
3539 3717 8.407832 CACTTTTCATATCAATGGTAATGAGCA 58.592 33.333 0.00 0.00 37.51 4.26
3540 3718 8.623903 TCACTTTTCATATCAATGGTAATGAGC 58.376 33.333 0.00 0.00 33.61 4.26
3541 3719 9.941664 GTCACTTTTCATATCAATGGTAATGAG 57.058 33.333 0.00 0.00 33.61 2.90
3542 3720 9.685276 AGTCACTTTTCATATCAATGGTAATGA 57.315 29.630 0.00 0.00 33.61 2.57
3546 3724 8.243426 GCAAAGTCACTTTTCATATCAATGGTA 58.757 33.333 0.00 0.00 30.60 3.25
3547 3725 7.039504 AGCAAAGTCACTTTTCATATCAATGGT 60.040 33.333 0.00 0.00 30.60 3.55
3548 3726 7.318141 AGCAAAGTCACTTTTCATATCAATGG 58.682 34.615 0.00 0.00 30.60 3.16
3549 3727 8.752766 AAGCAAAGTCACTTTTCATATCAATG 57.247 30.769 0.00 0.00 30.60 2.82
3550 3728 9.768662 AAAAGCAAAGTCACTTTTCATATCAAT 57.231 25.926 0.00 0.00 41.09 2.57
3555 3733 8.977505 GCAATAAAAGCAAAGTCACTTTTCATA 58.022 29.630 0.00 0.00 43.24 2.15
3556 3734 7.495279 TGCAATAAAAGCAAAGTCACTTTTCAT 59.505 29.630 0.00 0.00 43.24 2.57
3557 3735 6.815641 TGCAATAAAAGCAAAGTCACTTTTCA 59.184 30.769 0.00 0.00 43.24 2.69
3558 3736 7.232945 TGCAATAAAAGCAAAGTCACTTTTC 57.767 32.000 0.00 0.00 43.24 2.29
3572 3750 7.986889 AGGGGCTGTTATTAATTGCAATAAAAG 59.013 33.333 13.39 8.78 38.18 2.27
3573 3751 7.768120 CAGGGGCTGTTATTAATTGCAATAAAA 59.232 33.333 13.39 10.75 33.36 1.52
3574 3752 7.093112 ACAGGGGCTGTTATTAATTGCAATAAA 60.093 33.333 13.39 0.91 42.59 1.40
3575 3753 6.382570 ACAGGGGCTGTTATTAATTGCAATAA 59.617 34.615 13.39 7.94 42.59 1.40
3576 3754 5.896678 ACAGGGGCTGTTATTAATTGCAATA 59.103 36.000 13.39 0.00 42.59 1.90
3577 3755 4.716287 ACAGGGGCTGTTATTAATTGCAAT 59.284 37.500 5.99 5.99 42.59 3.56
3578 3756 4.093011 ACAGGGGCTGTTATTAATTGCAA 58.907 39.130 0.00 0.00 42.59 4.08
3579 3757 3.707316 ACAGGGGCTGTTATTAATTGCA 58.293 40.909 0.00 0.00 42.59 4.08
3580 3758 4.887655 ACTACAGGGGCTGTTATTAATTGC 59.112 41.667 0.00 0.00 42.59 3.56
3581 3759 8.691661 AATACTACAGGGGCTGTTATTAATTG 57.308 34.615 0.00 0.00 42.59 2.32
3582 3760 8.499406 TGAATACTACAGGGGCTGTTATTAATT 58.501 33.333 0.00 0.00 42.59 1.40
3583 3761 8.041143 TGAATACTACAGGGGCTGTTATTAAT 57.959 34.615 0.00 0.00 42.59 1.40
3584 3762 7.440505 TGAATACTACAGGGGCTGTTATTAA 57.559 36.000 0.00 0.00 42.59 1.40
3585 3763 7.346175 TCTTGAATACTACAGGGGCTGTTATTA 59.654 37.037 0.00 0.00 42.59 0.98
3586 3764 5.968676 TGAATACTACAGGGGCTGTTATT 57.031 39.130 0.00 0.00 42.59 1.40
3587 3765 5.665812 TCTTGAATACTACAGGGGCTGTTAT 59.334 40.000 0.00 0.00 42.59 1.89
3588 3766 5.027460 TCTTGAATACTACAGGGGCTGTTA 58.973 41.667 0.00 0.00 42.59 2.41
3589 3767 3.844211 TCTTGAATACTACAGGGGCTGTT 59.156 43.478 0.00 0.00 42.59 3.16
3591 3769 4.080863 ACTTCTTGAATACTACAGGGGCTG 60.081 45.833 0.00 0.00 37.52 4.85
3592 3770 4.080863 CACTTCTTGAATACTACAGGGGCT 60.081 45.833 0.00 0.00 0.00 5.19
3593 3771 4.192317 CACTTCTTGAATACTACAGGGGC 58.808 47.826 0.00 0.00 0.00 5.80
3594 3772 5.187967 AGACACTTCTTGAATACTACAGGGG 59.812 44.000 0.00 0.00 0.00 4.79
3595 3773 6.287589 AGACACTTCTTGAATACTACAGGG 57.712 41.667 0.00 0.00 0.00 4.45
3596 3774 7.093902 TGGTAGACACTTCTTGAATACTACAGG 60.094 40.741 0.00 0.00 32.75 4.00
3597 3775 7.827701 TGGTAGACACTTCTTGAATACTACAG 58.172 38.462 0.00 0.00 32.75 2.74
3598 3776 7.770366 TGGTAGACACTTCTTGAATACTACA 57.230 36.000 0.00 0.00 32.75 2.74
3599 3777 8.521176 TCTTGGTAGACACTTCTTGAATACTAC 58.479 37.037 0.00 0.00 32.75 2.73
3600 3778 8.645814 TCTTGGTAGACACTTCTTGAATACTA 57.354 34.615 0.00 0.00 32.75 1.82
3601 3779 7.540474 TCTTGGTAGACACTTCTTGAATACT 57.460 36.000 0.00 0.00 32.75 2.12
3602 3780 8.779354 ATTCTTGGTAGACACTTCTTGAATAC 57.221 34.615 0.00 0.00 32.75 1.89
3604 3782 9.965902 ATTATTCTTGGTAGACACTTCTTGAAT 57.034 29.630 0.00 0.00 32.75 2.57
3605 3783 9.436957 GATTATTCTTGGTAGACACTTCTTGAA 57.563 33.333 0.00 0.00 32.75 2.69
3606 3784 7.759886 CGATTATTCTTGGTAGACACTTCTTGA 59.240 37.037 0.00 0.00 32.75 3.02
3607 3785 7.759886 TCGATTATTCTTGGTAGACACTTCTTG 59.240 37.037 0.00 0.00 32.75 3.02
3608 3786 7.760340 GTCGATTATTCTTGGTAGACACTTCTT 59.240 37.037 0.00 0.00 32.75 2.52
3609 3787 7.093902 TGTCGATTATTCTTGGTAGACACTTCT 60.094 37.037 0.00 0.00 33.20 2.85
3610 3788 7.033791 TGTCGATTATTCTTGGTAGACACTTC 58.966 38.462 0.00 0.00 33.20 3.01
3611 3789 6.931838 TGTCGATTATTCTTGGTAGACACTT 58.068 36.000 0.00 0.00 33.20 3.16
3612 3790 6.525578 TGTCGATTATTCTTGGTAGACACT 57.474 37.500 0.00 0.00 33.20 3.55
3613 3791 6.757010 ACATGTCGATTATTCTTGGTAGACAC 59.243 38.462 0.00 0.00 39.68 3.67
3614 3792 6.873997 ACATGTCGATTATTCTTGGTAGACA 58.126 36.000 0.00 0.00 40.86 3.41
3615 3793 7.772332 AACATGTCGATTATTCTTGGTAGAC 57.228 36.000 0.00 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.