Multiple sequence alignment - TraesCS3D01G503000

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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 TraesCS3D01G503000 chr3D 100.000 3299 0 0 1 3299 591123172 591126470 0.000000e+00 6093.0
1 TraesCS3D01G503000 chr3D 86.375 1233 132 25 987 2198 591176915 591178132 0.000000e+00 1314.0
2 TraesCS3D01G503000 chrUn 91.798 2219 137 21 866 3062 155025385 155023190 0.000000e+00 3048.0
3 TraesCS3D01G503000 chrUn 82.819 2107 256 64 987 3017 154993289 154991213 0.000000e+00 1788.0
4 TraesCS3D01G503000 chrUn 82.724 2107 258 65 987 3017 155075463 155073387 0.000000e+00 1777.0
5 TraesCS3D01G503000 chrUn 92.857 770 43 4 860 1629 419646963 419647720 0.000000e+00 1107.0
6 TraesCS3D01G503000 chrUn 94.109 679 31 5 1 676 155026096 155025424 0.000000e+00 1024.0
7 TraesCS3D01G503000 chrUn 94.692 471 17 4 208 676 419646466 419646930 0.000000e+00 725.0
8 TraesCS3D01G503000 chrUn 93.542 480 28 2 1 479 403241507 403241984 0.000000e+00 712.0
9 TraesCS3D01G503000 chrUn 87.454 271 23 6 2798 3062 155105503 155105238 5.350000e-78 302.0
10 TraesCS3D01G503000 chrUn 89.744 78 7 1 1 78 50414275 50414351 7.530000e-17 99.0
11 TraesCS3D01G503000 chr3B 91.719 2222 139 21 860 3059 792355553 792357751 0.000000e+00 3042.0
12 TraesCS3D01G503000 chr3B 90.529 2154 136 27 931 3062 793383982 793381875 0.000000e+00 2785.0
13 TraesCS3D01G503000 chr3B 94.657 1385 70 3 1035 2416 792266828 792268211 0.000000e+00 2145.0
14 TraesCS3D01G503000 chr3B 91.321 1590 98 21 1495 3062 793475046 793473475 0.000000e+00 2135.0
15 TraesCS3D01G503000 chr3B 93.195 1249 69 6 860 2107 792442301 792443534 0.000000e+00 1821.0
16 TraesCS3D01G503000 chr3B 94.109 679 31 5 1 676 792354848 792355520 0.000000e+00 1024.0
17 TraesCS3D01G503000 chr3B 94.109 679 30 5 1 676 792441597 792442268 0.000000e+00 1024.0
18 TraesCS3D01G503000 chr3B 93.814 679 33 5 1 676 793388615 793387943 0.000000e+00 1013.0
19 TraesCS3D01G503000 chr3B 80.823 1288 205 24 1058 2317 798155202 798156475 0.000000e+00 972.0
20 TraesCS3D01G503000 chr3B 89.386 603 33 10 2477 3059 792268205 792268796 0.000000e+00 730.0
21 TraesCS3D01G503000 chr3B 93.542 480 28 2 1 479 792351275 792351752 0.000000e+00 712.0
22 TraesCS3D01G503000 chr3B 84.184 196 9 10 663 836 792265593 792265788 1.570000e-38 171.0
23 TraesCS3D01G503000 chr3A 90.815 2232 99 27 667 2824 721508640 721510839 0.000000e+00 2889.0
24 TraesCS3D01G503000 chr3A 86.490 1473 165 23 1028 2477 721565509 721566970 0.000000e+00 1587.0
25 TraesCS3D01G503000 chr3A 95.335 343 13 1 1 343 721508310 721508649 2.900000e-150 542.0
26 TraesCS3D01G503000 chr2B 95.918 49 1 1 425 473 81763837 81763884 9.810000e-11 78.7
27 TraesCS3D01G503000 chr6D 87.500 48 6 0 426 473 7456977 7456930 4.600000e-04 56.5
28 TraesCS3D01G503000 chr6B 88.000 50 3 3 79 126 32723333 32723381 4.600000e-04 56.5
29 TraesCS3D01G503000 chr4D 100.000 30 0 0 79 108 75053165 75053194 4.600000e-04 56.5


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 TraesCS3D01G503000 chr3D 591123172 591126470 3298 False 6093.000000 6093 100.000000 1 3299 1 chr3D.!!$F1 3298
1 TraesCS3D01G503000 chr3D 591176915 591178132 1217 False 1314.000000 1314 86.375000 987 2198 1 chr3D.!!$F2 1211
2 TraesCS3D01G503000 chrUn 155023190 155026096 2906 True 2036.000000 3048 92.953500 1 3062 2 chrUn.!!$R4 3061
3 TraesCS3D01G503000 chrUn 154991213 154993289 2076 True 1788.000000 1788 82.819000 987 3017 1 chrUn.!!$R1 2030
4 TraesCS3D01G503000 chrUn 155073387 155075463 2076 True 1777.000000 1777 82.724000 987 3017 1 chrUn.!!$R2 2030
5 TraesCS3D01G503000 chrUn 419646466 419647720 1254 False 916.000000 1107 93.774500 208 1629 2 chrUn.!!$F3 1421
6 TraesCS3D01G503000 chr3B 793473475 793475046 1571 True 2135.000000 2135 91.321000 1495 3062 1 chr3B.!!$R1 1567
7 TraesCS3D01G503000 chr3B 793381875 793388615 6740 True 1899.000000 2785 92.171500 1 3062 2 chr3B.!!$R2 3061
8 TraesCS3D01G503000 chr3B 792351275 792357751 6476 False 1592.666667 3042 93.123333 1 3059 3 chr3B.!!$F3 3058
9 TraesCS3D01G503000 chr3B 792441597 792443534 1937 False 1422.500000 1821 93.652000 1 2107 2 chr3B.!!$F4 2106
10 TraesCS3D01G503000 chr3B 792265593 792268796 3203 False 1015.333333 2145 89.409000 663 3059 3 chr3B.!!$F2 2396
11 TraesCS3D01G503000 chr3B 798155202 798156475 1273 False 972.000000 972 80.823000 1058 2317 1 chr3B.!!$F1 1259
12 TraesCS3D01G503000 chr3A 721508310 721510839 2529 False 1715.500000 2889 93.075000 1 2824 2 chr3A.!!$F2 2823
13 TraesCS3D01G503000 chr3A 721565509 721566970 1461 False 1587.000000 1587 86.490000 1028 2477 1 chr3A.!!$F1 1449

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
141 142 0.588252 CCGACACAAGCTGGAAAGTG 59.412 55.0 0.0 0.0 37.95 3.16 F
1143 9537 0.473694 TCCTGCCCAAGTTCCTCTCA 60.474 55.0 0.0 0.0 0.00 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2073 10536 0.322098 CGGTTAGTGGCACCCAATCA 60.322 55.0 15.27 0.0 34.18 2.57 R
3077 11689 0.106217 CTCCGGGCCCCATTGTTATT 60.106 55.0 18.66 0.0 0.00 1.40 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
108 109 2.046700 CGGAGCCGGGCAAAACTA 60.047 61.111 23.09 0.00 35.56 2.24
114 115 1.099689 GCCGGGCAAAACTATTGCTA 58.900 50.000 15.62 0.00 44.36 3.49
141 142 0.588252 CCGACACAAGCTGGAAAGTG 59.412 55.000 0.00 0.00 37.95 3.16
290 292 2.041976 CTCATCGACGGGGTGCTAT 58.958 57.895 0.00 0.00 0.00 2.97
332 334 2.106074 GTTGCGGCCATCGTCATCA 61.106 57.895 2.24 0.00 41.72 3.07
352 354 1.574702 GAGCTGCAACCGTTACCACC 61.575 60.000 1.02 0.00 0.00 4.61
355 357 1.228003 TGCAACCGTTACCACCAGG 60.228 57.895 0.00 0.00 42.21 4.45
356 358 1.071814 GCAACCGTTACCACCAGGA 59.928 57.895 0.00 0.00 38.69 3.86
376 3951 1.160137 GAGCTGCTTCAAACGGATGT 58.840 50.000 2.53 0.00 0.00 3.06
377 3952 0.877071 AGCTGCTTCAAACGGATGTG 59.123 50.000 0.00 0.00 0.00 3.21
414 3989 7.924412 TCAGGTATTCAAACCGATGTATACTTC 59.076 37.037 4.17 6.56 44.77 3.01
452 4027 5.823570 TCCCTTCGTTTCAAAATAAGTGTCA 59.176 36.000 0.00 0.00 0.00 3.58
498 4073 2.943033 AGTGTTTTGTTAACTCGCAGCT 59.057 40.909 7.22 0.00 0.00 4.24
536 4112 8.329502 ACCTTGTGAGATAGTTATAGGCTTTTT 58.670 33.333 0.00 0.00 0.00 1.94
651 4229 5.414789 ACCTTTTCAAAATTAATCCCGGG 57.585 39.130 16.85 16.85 0.00 5.73
818 4419 4.935808 TCCAAGAAGAAGCGGATAGAAAAC 59.064 41.667 0.00 0.00 0.00 2.43
842 4443 3.420943 CCGCCAGGCCGAATAAAG 58.579 61.111 5.63 0.00 0.00 1.85
843 4444 1.451387 CCGCCAGGCCGAATAAAGT 60.451 57.895 5.63 0.00 0.00 2.66
844 4445 1.029947 CCGCCAGGCCGAATAAAGTT 61.030 55.000 5.63 0.00 0.00 2.66
845 4446 0.808755 CGCCAGGCCGAATAAAGTTT 59.191 50.000 5.63 0.00 0.00 2.66
846 4447 1.201414 CGCCAGGCCGAATAAAGTTTT 59.799 47.619 5.63 0.00 0.00 2.43
847 4448 2.420722 CGCCAGGCCGAATAAAGTTTTA 59.579 45.455 5.63 0.00 0.00 1.52
848 4449 3.119779 CGCCAGGCCGAATAAAGTTTTAA 60.120 43.478 5.63 0.00 0.00 1.52
849 4450 4.439563 CGCCAGGCCGAATAAAGTTTTAAT 60.440 41.667 5.63 0.00 0.00 1.40
850 4451 4.803613 GCCAGGCCGAATAAAGTTTTAATG 59.196 41.667 0.00 0.00 0.00 1.90
851 4452 4.803613 CCAGGCCGAATAAAGTTTTAATGC 59.196 41.667 0.00 0.00 0.00 3.56
852 4453 5.394115 CCAGGCCGAATAAAGTTTTAATGCT 60.394 40.000 0.00 0.00 0.00 3.79
853 4454 6.183360 CCAGGCCGAATAAAGTTTTAATGCTA 60.183 38.462 0.00 0.00 0.00 3.49
854 4455 7.254852 CAGGCCGAATAAAGTTTTAATGCTAA 58.745 34.615 0.00 0.00 0.00 3.09
855 4456 7.757624 CAGGCCGAATAAAGTTTTAATGCTAAA 59.242 33.333 0.00 0.00 0.00 1.85
856 4457 8.308207 AGGCCGAATAAAGTTTTAATGCTAAAA 58.692 29.630 0.00 0.00 35.16 1.52
857 4458 8.927721 GGCCGAATAAAGTTTTAATGCTAAAAA 58.072 29.630 0.00 0.00 38.43 1.94
1098 9492 3.251484 CTTCTCCAATATGGGCCTCCTA 58.749 50.000 4.53 0.00 38.32 2.94
1104 9498 1.867363 ATATGGGCCTCCTATCGTCC 58.133 55.000 4.53 0.00 0.00 4.79
1143 9537 0.473694 TCCTGCCCAAGTTCCTCTCA 60.474 55.000 0.00 0.00 0.00 3.27
1211 9614 2.261671 CGTCCACCGTCCAAGGAG 59.738 66.667 0.00 0.00 34.73 3.69
1335 9738 1.236616 CCAAGAACGCCATGACTGCA 61.237 55.000 0.00 0.00 0.00 4.41
1455 9863 5.574970 ATCCTTTCTCAAACAGGTCTCTT 57.425 39.130 0.00 0.00 0.00 2.85
1608 10016 2.125766 GAGGGAAGGGTGTGTGGTCC 62.126 65.000 0.00 0.00 0.00 4.46
1661 10076 3.063485 TCATTGACATCGCGTTTCTTGA 58.937 40.909 5.77 6.30 0.00 3.02
1826 10241 4.579340 CACTTTTGATGAGGAGGATGATGG 59.421 45.833 0.00 0.00 0.00 3.51
1885 10345 6.714356 GGAAGAGGGAGAAGATAATGATTTGG 59.286 42.308 0.00 0.00 0.00 3.28
1895 10358 7.609532 AGAAGATAATGATTTGGCCTGCTATAC 59.390 37.037 3.32 0.00 0.00 1.47
2073 10536 2.076863 GAAGCGGACTTTAGCACACAT 58.923 47.619 0.00 0.00 35.82 3.21
2133 10596 3.341823 AGCACTCTTTGTTAGCATGGAG 58.658 45.455 0.00 7.43 33.20 3.86
2157 10620 1.374758 CAAGTCTGTCTCGGCACCC 60.375 63.158 0.00 0.00 0.00 4.61
2201 10664 7.915397 AGATGCAATTTATTTTATGGACACGAC 59.085 33.333 0.00 0.00 0.00 4.34
2225 10688 1.601903 TGTGTTCAACATGAAGTCCGC 59.398 47.619 0.00 0.00 37.00 5.54
2362 10863 5.974158 AGATGTCGTAAATCAGATGTTCTCG 59.026 40.000 0.00 0.00 0.00 4.04
2558 11101 7.587757 GCTTTAATCTTGATTTATGTACCTGCG 59.412 37.037 0.95 0.00 0.00 5.18
2572 11115 2.858745 ACCTGCGTTATGTCTTGGTTT 58.141 42.857 0.00 0.00 0.00 3.27
2733 11289 3.245087 TGGTGTTGTGCCATACATACCTT 60.245 43.478 12.24 0.00 42.68 3.50
2734 11314 3.128589 GGTGTTGTGCCATACATACCTTG 59.871 47.826 0.00 0.00 40.75 3.61
2847 11437 8.299570 CAATGCAAATTAGGGTATTATGGAGTC 58.700 37.037 0.00 0.00 0.00 3.36
2895 11485 1.269831 CGTGGATTAGTAGCTCTGGGC 60.270 57.143 0.00 0.00 42.19 5.36
2905 11495 1.986413 GCTCTGGGCTCTCTTTGGA 59.014 57.895 0.00 0.00 38.06 3.53
2931 11532 3.069778 GGACAGCTTCCCCGTTCT 58.930 61.111 4.16 0.00 38.70 3.01
2940 11546 0.848053 TTCCCCGTTCTGGAAAAGGT 59.152 50.000 0.00 0.00 42.00 3.50
2952 11558 3.786516 GGAAAAGGTCCTCTCGTCTAG 57.213 52.381 0.00 0.00 43.98 2.43
2971 11577 6.054295 GTCTAGAGACAAAGATTGATGGCAT 58.946 40.000 0.00 0.00 44.18 4.40
2974 11586 4.639310 AGAGACAAAGATTGATGGCATGAC 59.361 41.667 3.81 0.00 0.00 3.06
3032 11644 2.463589 GAACCCGCTCACATCACCCA 62.464 60.000 0.00 0.00 0.00 4.51
3051 11663 2.422597 CATCGGACAAGGCTACAACAA 58.577 47.619 0.00 0.00 0.00 2.83
3053 11665 1.139256 TCGGACAAGGCTACAACAACA 59.861 47.619 0.00 0.00 0.00 3.33
3059 11671 3.880490 ACAAGGCTACAACAACAATCGAA 59.120 39.130 0.00 0.00 0.00 3.71
3062 11674 3.746492 AGGCTACAACAACAATCGAAGTC 59.254 43.478 0.00 0.00 0.00 3.01
3063 11675 3.496884 GGCTACAACAACAATCGAAGTCA 59.503 43.478 0.00 0.00 0.00 3.41
3064 11676 4.377431 GGCTACAACAACAATCGAAGTCAG 60.377 45.833 0.00 0.00 0.00 3.51
3065 11677 3.609103 ACAACAACAATCGAAGTCAGC 57.391 42.857 0.00 0.00 0.00 4.26
3066 11678 2.942376 ACAACAACAATCGAAGTCAGCA 59.058 40.909 0.00 0.00 0.00 4.41
3067 11679 3.565482 ACAACAACAATCGAAGTCAGCAT 59.435 39.130 0.00 0.00 0.00 3.79
3068 11680 4.754618 ACAACAACAATCGAAGTCAGCATA 59.245 37.500 0.00 0.00 0.00 3.14
3069 11681 4.928661 ACAACAATCGAAGTCAGCATAC 57.071 40.909 0.00 0.00 0.00 2.39
3070 11682 4.569943 ACAACAATCGAAGTCAGCATACT 58.430 39.130 0.00 0.00 0.00 2.12
3071 11683 5.720202 ACAACAATCGAAGTCAGCATACTA 58.280 37.500 0.00 0.00 0.00 1.82
3072 11684 5.807520 ACAACAATCGAAGTCAGCATACTAG 59.192 40.000 0.00 0.00 0.00 2.57
3073 11685 4.363999 ACAATCGAAGTCAGCATACTAGC 58.636 43.478 0.00 0.00 0.00 3.42
3075 11687 5.299531 ACAATCGAAGTCAGCATACTAGCTA 59.700 40.000 0.00 0.00 44.54 3.32
3076 11688 4.815040 TCGAAGTCAGCATACTAGCTAC 57.185 45.455 0.00 0.00 44.54 3.58
3077 11689 4.196971 TCGAAGTCAGCATACTAGCTACA 58.803 43.478 0.00 0.00 44.54 2.74
3078 11690 4.638865 TCGAAGTCAGCATACTAGCTACAA 59.361 41.667 0.00 0.00 44.54 2.41
3079 11691 5.299531 TCGAAGTCAGCATACTAGCTACAAT 59.700 40.000 0.00 0.00 44.54 2.71
3080 11692 6.485648 TCGAAGTCAGCATACTAGCTACAATA 59.514 38.462 0.00 0.00 44.54 1.90
3081 11693 7.012989 TCGAAGTCAGCATACTAGCTACAATAA 59.987 37.037 0.00 0.00 44.54 1.40
3082 11694 7.113684 CGAAGTCAGCATACTAGCTACAATAAC 59.886 40.741 0.00 0.00 44.54 1.89
3083 11695 7.348080 AGTCAGCATACTAGCTACAATAACA 57.652 36.000 0.00 0.00 44.54 2.41
3084 11696 7.782049 AGTCAGCATACTAGCTACAATAACAA 58.218 34.615 0.00 0.00 44.54 2.83
3085 11697 8.424918 AGTCAGCATACTAGCTACAATAACAAT 58.575 33.333 0.00 0.00 44.54 2.71
3086 11698 8.491152 GTCAGCATACTAGCTACAATAACAATG 58.509 37.037 0.00 0.00 44.54 2.82
3087 11699 7.657354 TCAGCATACTAGCTACAATAACAATGG 59.343 37.037 0.00 0.00 44.54 3.16
3088 11700 6.936900 AGCATACTAGCTACAATAACAATGGG 59.063 38.462 0.00 0.00 44.50 4.00
3089 11701 6.149474 GCATACTAGCTACAATAACAATGGGG 59.851 42.308 0.00 0.00 0.00 4.96
3090 11702 4.461198 ACTAGCTACAATAACAATGGGGC 58.539 43.478 0.00 0.00 0.00 5.80
3091 11703 2.666317 AGCTACAATAACAATGGGGCC 58.334 47.619 0.00 0.00 0.00 5.80
3092 11704 1.686587 GCTACAATAACAATGGGGCCC 59.313 52.381 18.17 18.17 0.00 5.80
3093 11705 1.953686 CTACAATAACAATGGGGCCCG 59.046 52.381 19.83 6.19 0.00 6.13
3094 11706 0.686112 ACAATAACAATGGGGCCCGG 60.686 55.000 19.83 12.76 0.00 5.73
3095 11707 0.396417 CAATAACAATGGGGCCCGGA 60.396 55.000 19.83 4.84 0.00 5.14
3096 11708 0.106217 AATAACAATGGGGCCCGGAG 60.106 55.000 19.83 12.34 0.00 4.63
3097 11709 1.286305 ATAACAATGGGGCCCGGAGT 61.286 55.000 19.83 13.06 0.00 3.85
3098 11710 1.917336 TAACAATGGGGCCCGGAGTC 61.917 60.000 19.83 0.88 0.00 3.36
3099 11711 3.727258 CAATGGGGCCCGGAGTCA 61.727 66.667 19.83 8.11 0.00 3.41
3100 11712 2.696125 AATGGGGCCCGGAGTCAT 60.696 61.111 19.83 10.44 0.00 3.06
3101 11713 3.060614 AATGGGGCCCGGAGTCATG 62.061 63.158 19.83 0.00 0.00 3.07
3102 11714 4.731853 TGGGGCCCGGAGTCATGA 62.732 66.667 19.83 0.00 0.00 3.07
3103 11715 4.176752 GGGGCCCGGAGTCATGAC 62.177 72.222 17.79 18.47 0.00 3.06
3104 11716 3.083997 GGGCCCGGAGTCATGACT 61.084 66.667 28.23 28.23 45.84 3.41
3113 11725 2.601664 AGTCATGACTCCTGCCTCC 58.398 57.895 22.89 0.00 36.92 4.30
3114 11726 0.980231 AGTCATGACTCCTGCCTCCC 60.980 60.000 22.89 0.00 36.92 4.30
3115 11727 1.080907 TCATGACTCCTGCCTCCCA 59.919 57.895 0.00 0.00 0.00 4.37
3116 11728 0.326904 TCATGACTCCTGCCTCCCAT 60.327 55.000 0.00 0.00 0.00 4.00
3117 11729 0.179026 CATGACTCCTGCCTCCCATG 60.179 60.000 0.00 0.00 0.00 3.66
3118 11730 0.622738 ATGACTCCTGCCTCCCATGT 60.623 55.000 0.00 0.00 0.00 3.21
3119 11731 0.842030 TGACTCCTGCCTCCCATGTT 60.842 55.000 0.00 0.00 0.00 2.71
3120 11732 0.107459 GACTCCTGCCTCCCATGTTC 60.107 60.000 0.00 0.00 0.00 3.18
3121 11733 0.842030 ACTCCTGCCTCCCATGTTCA 60.842 55.000 0.00 0.00 0.00 3.18
3122 11734 0.107312 CTCCTGCCTCCCATGTTCAG 60.107 60.000 0.00 0.00 0.00 3.02
3123 11735 0.547471 TCCTGCCTCCCATGTTCAGA 60.547 55.000 0.00 0.00 0.00 3.27
3124 11736 0.549950 CCTGCCTCCCATGTTCAGAT 59.450 55.000 0.00 0.00 0.00 2.90
3125 11737 1.770658 CCTGCCTCCCATGTTCAGATA 59.229 52.381 0.00 0.00 0.00 1.98
3126 11738 2.374504 CCTGCCTCCCATGTTCAGATAT 59.625 50.000 0.00 0.00 0.00 1.63
3127 11739 3.409570 CTGCCTCCCATGTTCAGATATG 58.590 50.000 0.00 0.00 0.00 1.78
3128 11740 2.157738 GCCTCCCATGTTCAGATATGC 58.842 52.381 0.00 0.00 0.00 3.14
3129 11741 2.224719 GCCTCCCATGTTCAGATATGCT 60.225 50.000 0.00 0.00 0.00 3.79
3130 11742 3.409570 CCTCCCATGTTCAGATATGCTG 58.590 50.000 0.00 0.00 46.31 4.41
3131 11743 2.812591 CTCCCATGTTCAGATATGCTGC 59.187 50.000 0.00 0.00 44.52 5.25
3132 11744 1.884579 CCCATGTTCAGATATGCTGCC 59.115 52.381 0.00 0.00 44.52 4.85
3133 11745 2.578786 CCATGTTCAGATATGCTGCCA 58.421 47.619 0.00 0.00 44.52 4.92
3134 11746 3.154710 CCATGTTCAGATATGCTGCCAT 58.845 45.455 0.00 0.00 44.52 4.40
3135 11747 3.057526 CCATGTTCAGATATGCTGCCATG 60.058 47.826 16.66 16.66 44.52 3.66
3136 11748 2.578786 TGTTCAGATATGCTGCCATGG 58.421 47.619 7.63 7.63 44.52 3.66
3137 11749 2.173143 TGTTCAGATATGCTGCCATGGA 59.827 45.455 18.40 0.00 44.52 3.41
3138 11750 2.812591 GTTCAGATATGCTGCCATGGAG 59.187 50.000 18.40 11.30 44.52 3.86
3139 11751 2.052468 TCAGATATGCTGCCATGGAGT 58.948 47.619 18.40 0.00 44.52 3.85
3140 11752 2.152016 CAGATATGCTGCCATGGAGTG 58.848 52.381 18.40 5.25 37.90 3.51
3141 11753 1.773052 AGATATGCTGCCATGGAGTGT 59.227 47.619 18.40 5.93 32.85 3.55
3142 11754 2.174210 AGATATGCTGCCATGGAGTGTT 59.826 45.455 18.40 0.00 32.85 3.32
3143 11755 1.753930 TATGCTGCCATGGAGTGTTG 58.246 50.000 18.40 0.00 32.85 3.33
3144 11756 0.251474 ATGCTGCCATGGAGTGTTGT 60.251 50.000 18.40 0.00 0.00 3.32
3145 11757 0.467844 TGCTGCCATGGAGTGTTGTT 60.468 50.000 18.40 0.00 0.00 2.83
3146 11758 1.202867 TGCTGCCATGGAGTGTTGTTA 60.203 47.619 18.40 0.00 0.00 2.41
3147 11759 1.200020 GCTGCCATGGAGTGTTGTTAC 59.800 52.381 18.40 0.00 0.00 2.50
3148 11760 1.812571 CTGCCATGGAGTGTTGTTACC 59.187 52.381 18.40 0.00 0.00 2.85
3149 11761 0.802494 GCCATGGAGTGTTGTTACCG 59.198 55.000 18.40 0.00 0.00 4.02
3150 11762 0.802494 CCATGGAGTGTTGTTACCGC 59.198 55.000 5.56 0.00 0.00 5.68
3151 11763 1.610624 CCATGGAGTGTTGTTACCGCT 60.611 52.381 5.56 0.00 0.00 5.52
3152 11764 2.151202 CATGGAGTGTTGTTACCGCTT 58.849 47.619 0.00 0.00 0.00 4.68
3153 11765 1.873698 TGGAGTGTTGTTACCGCTTC 58.126 50.000 0.00 0.00 0.00 3.86
3154 11766 1.139256 TGGAGTGTTGTTACCGCTTCA 59.861 47.619 0.00 0.00 0.00 3.02
3155 11767 2.224426 TGGAGTGTTGTTACCGCTTCAT 60.224 45.455 0.00 0.00 0.00 2.57
3156 11768 2.415512 GGAGTGTTGTTACCGCTTCATC 59.584 50.000 0.00 0.00 0.00 2.92
3157 11769 2.415512 GAGTGTTGTTACCGCTTCATCC 59.584 50.000 0.00 0.00 0.00 3.51
3158 11770 2.147958 GTGTTGTTACCGCTTCATCCA 58.852 47.619 0.00 0.00 0.00 3.41
3159 11771 2.095919 GTGTTGTTACCGCTTCATCCAC 60.096 50.000 0.00 0.00 0.00 4.02
3160 11772 1.127951 GTTGTTACCGCTTCATCCACG 59.872 52.381 0.00 0.00 0.00 4.94
3161 11773 0.604073 TGTTACCGCTTCATCCACGA 59.396 50.000 0.00 0.00 0.00 4.35
3162 11774 0.997196 GTTACCGCTTCATCCACGAC 59.003 55.000 0.00 0.00 0.00 4.34
3163 11775 0.457166 TTACCGCTTCATCCACGACG 60.457 55.000 0.00 0.00 0.00 5.12
3164 11776 1.307355 TACCGCTTCATCCACGACGA 61.307 55.000 0.00 0.00 0.00 4.20
3165 11777 1.226974 CCGCTTCATCCACGACGAT 60.227 57.895 0.00 0.00 0.00 3.73
3166 11778 0.806102 CCGCTTCATCCACGACGATT 60.806 55.000 0.00 0.00 0.00 3.34
3167 11779 1.535226 CCGCTTCATCCACGACGATTA 60.535 52.381 0.00 0.00 0.00 1.75
3168 11780 1.517276 CGCTTCATCCACGACGATTAC 59.483 52.381 0.00 0.00 0.00 1.89
3169 11781 1.859080 GCTTCATCCACGACGATTACC 59.141 52.381 0.00 0.00 0.00 2.85
3170 11782 2.481449 GCTTCATCCACGACGATTACCT 60.481 50.000 0.00 0.00 0.00 3.08
3171 11783 3.243301 GCTTCATCCACGACGATTACCTA 60.243 47.826 0.00 0.00 0.00 3.08
3172 11784 3.976793 TCATCCACGACGATTACCTAC 57.023 47.619 0.00 0.00 0.00 3.18
3173 11785 2.620115 TCATCCACGACGATTACCTACC 59.380 50.000 0.00 0.00 0.00 3.18
3174 11786 2.425143 TCCACGACGATTACCTACCT 57.575 50.000 0.00 0.00 0.00 3.08
3175 11787 2.292267 TCCACGACGATTACCTACCTC 58.708 52.381 0.00 0.00 0.00 3.85
3176 11788 1.336125 CCACGACGATTACCTACCTCC 59.664 57.143 0.00 0.00 0.00 4.30
3177 11789 1.003116 CACGACGATTACCTACCTCCG 60.003 57.143 0.00 0.00 0.00 4.63
3178 11790 0.590195 CGACGATTACCTACCTCCGG 59.410 60.000 0.00 0.00 0.00 5.14
3179 11791 0.957362 GACGATTACCTACCTCCGGG 59.043 60.000 0.00 0.00 38.88 5.73
3181 11793 0.957362 CGATTACCTACCTCCGGGTC 59.043 60.000 0.00 0.00 45.98 4.46
3182 11794 1.336131 GATTACCTACCTCCGGGTCC 58.664 60.000 0.00 0.00 45.98 4.46
3183 11795 0.468771 ATTACCTACCTCCGGGTCCG 60.469 60.000 0.00 1.86 45.98 4.79
3184 11796 3.721370 TACCTACCTCCGGGTCCGC 62.721 68.421 0.00 0.00 45.98 5.54
3187 11799 4.700448 TACCTCCGGGTCCGCCAA 62.700 66.667 0.00 0.00 45.98 4.52
3194 11806 4.717313 GGGTCCGCCAACACCTCC 62.717 72.222 0.00 0.00 36.17 4.30
3195 11807 3.637273 GGTCCGCCAACACCTCCT 61.637 66.667 0.00 0.00 34.09 3.69
3196 11808 2.047179 GTCCGCCAACACCTCCTC 60.047 66.667 0.00 0.00 0.00 3.71
3197 11809 3.319198 TCCGCCAACACCTCCTCC 61.319 66.667 0.00 0.00 0.00 4.30
3198 11810 3.636231 CCGCCAACACCTCCTCCA 61.636 66.667 0.00 0.00 0.00 3.86
3199 11811 2.671070 CGCCAACACCTCCTCCAT 59.329 61.111 0.00 0.00 0.00 3.41
3200 11812 1.622607 CCGCCAACACCTCCTCCATA 61.623 60.000 0.00 0.00 0.00 2.74
3201 11813 0.251916 CGCCAACACCTCCTCCATAA 59.748 55.000 0.00 0.00 0.00 1.90
3202 11814 1.743772 CGCCAACACCTCCTCCATAAG 60.744 57.143 0.00 0.00 0.00 1.73
3203 11815 2.019156 GCCAACACCTCCTCCATAAGC 61.019 57.143 0.00 0.00 0.00 3.09
3204 11816 1.561542 CCAACACCTCCTCCATAAGCT 59.438 52.381 0.00 0.00 0.00 3.74
3205 11817 2.636830 CAACACCTCCTCCATAAGCTG 58.363 52.381 0.00 0.00 0.00 4.24
3206 11818 2.237143 CAACACCTCCTCCATAAGCTGA 59.763 50.000 0.00 0.00 0.00 4.26
3207 11819 2.551270 ACACCTCCTCCATAAGCTGAA 58.449 47.619 0.00 0.00 0.00 3.02
3208 11820 2.912956 ACACCTCCTCCATAAGCTGAAA 59.087 45.455 0.00 0.00 0.00 2.69
3209 11821 3.330701 ACACCTCCTCCATAAGCTGAAAA 59.669 43.478 0.00 0.00 0.00 2.29
3210 11822 4.018050 ACACCTCCTCCATAAGCTGAAAAT 60.018 41.667 0.00 0.00 0.00 1.82
3211 11823 4.578105 CACCTCCTCCATAAGCTGAAAATC 59.422 45.833 0.00 0.00 0.00 2.17
3212 11824 4.228210 ACCTCCTCCATAAGCTGAAAATCA 59.772 41.667 0.00 0.00 0.00 2.57
3213 11825 5.103771 ACCTCCTCCATAAGCTGAAAATCAT 60.104 40.000 0.00 0.00 0.00 2.45
3214 11826 6.101734 ACCTCCTCCATAAGCTGAAAATCATA 59.898 38.462 0.00 0.00 0.00 2.15
3215 11827 7.000472 CCTCCTCCATAAGCTGAAAATCATAA 59.000 38.462 0.00 0.00 0.00 1.90
3216 11828 7.040823 CCTCCTCCATAAGCTGAAAATCATAAC 60.041 40.741 0.00 0.00 0.00 1.89
3217 11829 7.577303 TCCTCCATAAGCTGAAAATCATAACT 58.423 34.615 0.00 0.00 0.00 2.24
3218 11830 8.713971 TCCTCCATAAGCTGAAAATCATAACTA 58.286 33.333 0.00 0.00 0.00 2.24
3219 11831 9.512588 CCTCCATAAGCTGAAAATCATAACTAT 57.487 33.333 0.00 0.00 0.00 2.12
3226 11838 8.798859 AGCTGAAAATCATAACTATCTTGTGT 57.201 30.769 0.00 0.00 0.00 3.72
3227 11839 9.890629 AGCTGAAAATCATAACTATCTTGTGTA 57.109 29.630 0.00 0.00 0.00 2.90
3228 11840 9.922305 GCTGAAAATCATAACTATCTTGTGTAC 57.078 33.333 0.00 0.00 0.00 2.90
3231 11843 9.901724 GAAAATCATAACTATCTTGTGTACACG 57.098 33.333 20.61 7.97 0.00 4.49
3232 11844 7.464830 AATCATAACTATCTTGTGTACACGC 57.535 36.000 20.61 0.00 0.00 5.34
3233 11845 5.345702 TCATAACTATCTTGTGTACACGCC 58.654 41.667 20.61 0.00 0.00 5.68
3234 11846 3.671008 AACTATCTTGTGTACACGCCA 57.329 42.857 20.61 7.23 0.00 5.69
3235 11847 3.887621 ACTATCTTGTGTACACGCCAT 57.112 42.857 20.61 13.58 0.00 4.40
3236 11848 4.202245 ACTATCTTGTGTACACGCCATT 57.798 40.909 20.61 7.39 0.00 3.16
3237 11849 4.575885 ACTATCTTGTGTACACGCCATTT 58.424 39.130 20.61 6.40 0.00 2.32
3238 11850 4.630069 ACTATCTTGTGTACACGCCATTTC 59.370 41.667 20.61 0.00 0.00 2.17
3239 11851 2.839975 TCTTGTGTACACGCCATTTCA 58.160 42.857 20.61 0.00 0.00 2.69
3240 11852 2.546368 TCTTGTGTACACGCCATTTCAC 59.454 45.455 20.61 0.00 0.00 3.18
3241 11853 1.954927 TGTGTACACGCCATTTCACA 58.045 45.000 20.61 0.00 34.23 3.58
3242 11854 1.600013 TGTGTACACGCCATTTCACAC 59.400 47.619 20.61 0.00 37.41 3.82
3243 11855 1.871039 GTGTACACGCCATTTCACACT 59.129 47.619 10.84 0.00 34.78 3.55
3244 11856 3.061322 GTGTACACGCCATTTCACACTA 58.939 45.455 10.84 0.00 34.78 2.74
3245 11857 3.682858 GTGTACACGCCATTTCACACTAT 59.317 43.478 10.84 0.00 34.78 2.12
3246 11858 4.153475 GTGTACACGCCATTTCACACTATT 59.847 41.667 10.84 0.00 34.78 1.73
3247 11859 4.757657 TGTACACGCCATTTCACACTATTT 59.242 37.500 0.00 0.00 0.00 1.40
3248 11860 4.846779 ACACGCCATTTCACACTATTTT 57.153 36.364 0.00 0.00 0.00 1.82
3249 11861 4.545610 ACACGCCATTTCACACTATTTTG 58.454 39.130 0.00 0.00 0.00 2.44
3250 11862 4.037446 ACACGCCATTTCACACTATTTTGT 59.963 37.500 0.00 0.00 0.00 2.83
3252 11864 3.364621 CGCCATTTCACACTATTTTGTGC 59.635 43.478 0.00 0.00 45.58 4.57
3253 11865 4.305769 GCCATTTCACACTATTTTGTGCA 58.694 39.130 0.00 0.00 45.58 4.57
3254 11866 4.150451 GCCATTTCACACTATTTTGTGCAC 59.850 41.667 10.75 10.75 45.58 4.57
3255 11867 4.382457 CCATTTCACACTATTTTGTGCACG 59.618 41.667 13.13 0.00 45.58 5.34
3256 11868 3.617540 TTCACACTATTTTGTGCACGG 57.382 42.857 13.13 0.61 45.58 4.94
3257 11869 1.265635 TCACACTATTTTGTGCACGGC 59.734 47.619 13.13 0.00 45.58 5.68
3258 11870 0.596082 ACACTATTTTGTGCACGGCC 59.404 50.000 13.13 0.00 41.30 6.13
3259 11871 0.595588 CACTATTTTGTGCACGGCCA 59.404 50.000 13.13 0.00 0.00 5.36
3260 11872 1.202114 CACTATTTTGTGCACGGCCAT 59.798 47.619 13.13 4.20 0.00 4.40
3261 11873 1.472480 ACTATTTTGTGCACGGCCATC 59.528 47.619 13.13 0.00 0.00 3.51
3262 11874 1.745087 CTATTTTGTGCACGGCCATCT 59.255 47.619 13.13 0.00 0.00 2.90
3263 11875 0.244450 ATTTTGTGCACGGCCATCTG 59.756 50.000 13.13 0.00 0.00 2.90
3264 11876 2.419057 TTTTGTGCACGGCCATCTGC 62.419 55.000 13.13 6.84 40.16 4.26
3265 11877 3.848301 TTGTGCACGGCCATCTGCT 62.848 57.895 13.13 0.00 40.92 4.24
3266 11878 2.125147 GTGCACGGCCATCTGCTA 60.125 61.111 15.93 2.91 40.92 3.49
3267 11879 1.745115 GTGCACGGCCATCTGCTAA 60.745 57.895 15.93 0.00 40.92 3.09
3268 11880 1.745115 TGCACGGCCATCTGCTAAC 60.745 57.895 15.93 0.00 40.92 2.34
3269 11881 1.745115 GCACGGCCATCTGCTAACA 60.745 57.895 2.24 0.00 40.92 2.41
3270 11882 1.982073 GCACGGCCATCTGCTAACAC 61.982 60.000 2.24 0.00 40.92 3.32
3271 11883 1.078426 ACGGCCATCTGCTAACACC 60.078 57.895 2.24 0.00 40.92 4.16
3272 11884 1.221840 CGGCCATCTGCTAACACCT 59.778 57.895 2.24 0.00 40.92 4.00
3273 11885 0.392998 CGGCCATCTGCTAACACCTT 60.393 55.000 2.24 0.00 40.92 3.50
3274 11886 1.383523 GGCCATCTGCTAACACCTTC 58.616 55.000 0.00 0.00 40.92 3.46
3275 11887 1.340017 GGCCATCTGCTAACACCTTCA 60.340 52.381 0.00 0.00 40.92 3.02
3276 11888 1.740025 GCCATCTGCTAACACCTTCAC 59.260 52.381 0.00 0.00 36.87 3.18
3277 11889 2.359900 CCATCTGCTAACACCTTCACC 58.640 52.381 0.00 0.00 0.00 4.02
3278 11890 2.359900 CATCTGCTAACACCTTCACCC 58.640 52.381 0.00 0.00 0.00 4.61
3279 11891 1.429930 TCTGCTAACACCTTCACCCA 58.570 50.000 0.00 0.00 0.00 4.51
3280 11892 1.071699 TCTGCTAACACCTTCACCCAC 59.928 52.381 0.00 0.00 0.00 4.61
3281 11893 0.250124 TGCTAACACCTTCACCCACG 60.250 55.000 0.00 0.00 0.00 4.94
3282 11894 0.034337 GCTAACACCTTCACCCACGA 59.966 55.000 0.00 0.00 0.00 4.35
3283 11895 1.792006 CTAACACCTTCACCCACGAC 58.208 55.000 0.00 0.00 0.00 4.34
3284 11896 1.343465 CTAACACCTTCACCCACGACT 59.657 52.381 0.00 0.00 0.00 4.18
3285 11897 1.416243 AACACCTTCACCCACGACTA 58.584 50.000 0.00 0.00 0.00 2.59
3286 11898 0.677842 ACACCTTCACCCACGACTAC 59.322 55.000 0.00 0.00 0.00 2.73
3287 11899 0.388134 CACCTTCACCCACGACTACG 60.388 60.000 0.00 0.00 45.75 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 115 0.179045 AGCTTGTGTCGGTTGCTTCT 60.179 50.000 0.00 0.00 0.00 2.85
323 325 1.649664 GTTGCAGCTCTGATGACGAT 58.350 50.000 0.29 0.00 0.00 3.73
332 334 0.602905 GTGGTAACGGTTGCAGCTCT 60.603 55.000 11.05 0.00 42.51 4.09
352 354 0.795085 CGTTTGAAGCAGCTCTCCTG 59.205 55.000 0.00 0.00 44.67 3.86
355 357 1.396301 CATCCGTTTGAAGCAGCTCTC 59.604 52.381 0.00 0.00 0.00 3.20
356 358 1.271054 ACATCCGTTTGAAGCAGCTCT 60.271 47.619 0.00 0.00 0.00 4.09
376 3951 7.335924 GGTTTGAATACCTGAATAGTGTAAGCA 59.664 37.037 0.00 0.00 35.23 3.91
377 3952 7.465513 CGGTTTGAATACCTGAATAGTGTAAGC 60.466 40.741 0.00 0.00 35.97 3.09
414 3989 5.880054 ACGAAGGGAGTAATGTTCAAATG 57.120 39.130 0.00 0.00 0.00 2.32
433 4008 6.912203 TCAGTGACACTTATTTTGAAACGA 57.088 33.333 5.04 0.00 0.00 3.85
452 4027 9.367444 CTCCGAACAACTTTATACTAAATCAGT 57.633 33.333 0.00 0.00 41.62 3.41
469 4044 5.446206 CGAGTTAACAAAACACTCCGAACAA 60.446 40.000 8.61 0.00 34.55 2.83
474 4049 2.285756 TGCGAGTTAACAAAACACTCCG 59.714 45.455 8.61 0.00 34.55 4.63
498 4073 2.594303 CAAGGTTGCACGCAGGGA 60.594 61.111 0.00 0.00 0.00 4.20
681 4261 0.947244 CGTGAGAAGCAAAACTGGCT 59.053 50.000 0.00 0.00 45.15 4.75
861 4462 7.739498 TTGAAGAAGCCGAGTACTAATTTTT 57.261 32.000 0.00 0.00 0.00 1.94
864 4465 7.657761 CCATATTGAAGAAGCCGAGTACTAATT 59.342 37.037 0.00 0.00 0.00 1.40
923 5026 5.173774 GTATCCGTGTACGATTACCTCAA 57.826 43.478 5.91 0.00 43.02 3.02
924 5027 4.818534 GTATCCGTGTACGATTACCTCA 57.181 45.455 5.91 0.00 43.02 3.86
1335 9738 2.743718 CAGTCGTTGGTGGAGCCT 59.256 61.111 0.00 0.00 38.35 4.58
1492 9900 0.879090 AATTTGCGGACGAAAGACCC 59.121 50.000 0.00 0.00 43.17 4.46
1661 10076 5.532406 GTGGTGATGGCATACAGTTTATCAT 59.468 40.000 0.00 0.00 0.00 2.45
1826 10241 3.938334 GTCTTCCTCTTCTTCATTCTGGC 59.062 47.826 0.00 0.00 0.00 4.85
1885 10345 2.551459 CTGAGCAATTGGTATAGCAGGC 59.449 50.000 10.70 13.95 0.00 4.85
1895 10358 4.500127 TGCAAATTCATCTGAGCAATTGG 58.500 39.130 7.72 0.00 0.00 3.16
2073 10536 0.322098 CGGTTAGTGGCACCCAATCA 60.322 55.000 15.27 0.00 34.18 2.57
2157 10620 0.901124 CTTCCTCCACCTCTCCACAG 59.099 60.000 0.00 0.00 0.00 3.66
2201 10664 4.377738 CGGACTTCATGTTGAACACATCTG 60.378 45.833 0.00 0.00 43.17 2.90
2225 10688 3.870633 ACTTTGACGGGCTAGAAGTAG 57.129 47.619 0.00 0.00 0.00 2.57
2553 11096 3.004315 ACAAAACCAAGACATAACGCAGG 59.996 43.478 0.00 0.00 0.00 4.85
2733 11289 6.904654 AGGGTTAGTTTCCATATACAGGTACA 59.095 38.462 0.00 0.00 0.00 2.90
2734 11314 7.370905 AGGGTTAGTTTCCATATACAGGTAC 57.629 40.000 0.00 0.00 0.00 3.34
2824 11414 5.995282 CGACTCCATAATACCCTAATTTGCA 59.005 40.000 0.00 0.00 0.00 4.08
2825 11415 5.106673 GCGACTCCATAATACCCTAATTTGC 60.107 44.000 0.00 0.00 0.00 3.68
2847 11437 2.744202 AGGATCTGTGCTTAAAAGTGCG 59.256 45.455 0.00 0.00 0.00 5.34
2895 11485 3.386402 GTCCTCCAGGTATCCAAAGAGAG 59.614 52.174 0.00 0.00 36.34 3.20
2896 11486 3.245984 TGTCCTCCAGGTATCCAAAGAGA 60.246 47.826 0.00 0.00 36.34 3.10
2952 11558 4.639310 AGTCATGCCATCAATCTTTGTCTC 59.361 41.667 0.00 0.00 0.00 3.36
2954 11560 4.157289 ACAGTCATGCCATCAATCTTTGTC 59.843 41.667 0.00 0.00 0.00 3.18
2963 11569 0.251253 TTGCCACAGTCATGCCATCA 60.251 50.000 0.00 0.00 0.00 3.07
2971 11577 1.225855 GTTCATCGTTGCCACAGTCA 58.774 50.000 0.00 0.00 0.00 3.41
2974 11586 1.875963 GGGTTCATCGTTGCCACAG 59.124 57.895 0.00 0.00 0.00 3.66
3025 11637 1.224592 GCCTTGTCCGATGGGTGAT 59.775 57.895 0.00 0.00 33.83 3.06
3032 11644 2.224426 TGTTGTTGTAGCCTTGTCCGAT 60.224 45.455 0.00 0.00 0.00 4.18
3051 11663 4.098654 AGCTAGTATGCTGACTTCGATTGT 59.901 41.667 0.00 0.00 42.33 2.71
3053 11665 4.927978 AGCTAGTATGCTGACTTCGATT 57.072 40.909 0.00 0.00 42.33 3.34
3059 11671 7.348080 TGTTATTGTAGCTAGTATGCTGACT 57.652 36.000 0.00 0.00 43.87 3.41
3062 11674 7.095060 CCCATTGTTATTGTAGCTAGTATGCTG 60.095 40.741 0.00 0.00 43.87 4.41
3063 11675 6.936900 CCCATTGTTATTGTAGCTAGTATGCT 59.063 38.462 0.00 0.00 46.11 3.79
3064 11676 6.149474 CCCCATTGTTATTGTAGCTAGTATGC 59.851 42.308 0.00 0.00 0.00 3.14
3065 11677 6.149474 GCCCCATTGTTATTGTAGCTAGTATG 59.851 42.308 0.00 0.00 0.00 2.39
3066 11678 6.238648 GCCCCATTGTTATTGTAGCTAGTAT 58.761 40.000 0.00 0.00 0.00 2.12
3067 11679 5.455612 GGCCCCATTGTTATTGTAGCTAGTA 60.456 44.000 0.00 0.00 0.00 1.82
3068 11680 4.461198 GCCCCATTGTTATTGTAGCTAGT 58.539 43.478 0.00 0.00 0.00 2.57
3069 11681 3.821033 GGCCCCATTGTTATTGTAGCTAG 59.179 47.826 0.00 0.00 0.00 3.42
3070 11682 3.435890 GGGCCCCATTGTTATTGTAGCTA 60.436 47.826 12.23 0.00 0.00 3.32
3071 11683 2.666317 GGCCCCATTGTTATTGTAGCT 58.334 47.619 0.00 0.00 0.00 3.32
3072 11684 1.686587 GGGCCCCATTGTTATTGTAGC 59.313 52.381 12.23 0.00 0.00 3.58
3073 11685 1.953686 CGGGCCCCATTGTTATTGTAG 59.046 52.381 18.66 0.00 0.00 2.74
3074 11686 1.410365 CCGGGCCCCATTGTTATTGTA 60.410 52.381 18.66 0.00 0.00 2.41
3075 11687 0.686112 CCGGGCCCCATTGTTATTGT 60.686 55.000 18.66 0.00 0.00 2.71
3076 11688 0.396417 TCCGGGCCCCATTGTTATTG 60.396 55.000 18.66 0.00 0.00 1.90
3077 11689 0.106217 CTCCGGGCCCCATTGTTATT 60.106 55.000 18.66 0.00 0.00 1.40
3078 11690 1.286305 ACTCCGGGCCCCATTGTTAT 61.286 55.000 18.66 0.00 0.00 1.89
3079 11691 1.917336 GACTCCGGGCCCCATTGTTA 61.917 60.000 18.66 0.00 0.00 2.41
3080 11692 3.264845 ACTCCGGGCCCCATTGTT 61.265 61.111 18.66 0.00 0.00 2.83
3081 11693 3.728373 GACTCCGGGCCCCATTGT 61.728 66.667 18.66 10.32 0.00 2.71
3082 11694 3.060614 ATGACTCCGGGCCCCATTG 62.061 63.158 18.66 6.69 0.00 2.82
3083 11695 2.696125 ATGACTCCGGGCCCCATT 60.696 61.111 18.66 0.00 0.00 3.16
3084 11696 3.492353 CATGACTCCGGGCCCCAT 61.492 66.667 18.66 10.75 0.00 4.00
3085 11697 4.731853 TCATGACTCCGGGCCCCA 62.732 66.667 18.66 8.41 0.00 4.96
3086 11698 4.176752 GTCATGACTCCGGGCCCC 62.177 72.222 18.66 1.13 0.00 5.80
3087 11699 3.083997 AGTCATGACTCCGGGCCC 61.084 66.667 22.89 13.57 36.92 5.80
3095 11707 0.980231 GGGAGGCAGGAGTCATGACT 60.980 60.000 28.23 28.23 45.84 3.41
3096 11708 1.267574 TGGGAGGCAGGAGTCATGAC 61.268 60.000 18.47 18.47 0.00 3.06
3097 11709 0.326904 ATGGGAGGCAGGAGTCATGA 60.327 55.000 9.40 0.00 0.00 3.07
3098 11710 0.179026 CATGGGAGGCAGGAGTCATG 60.179 60.000 0.00 0.00 0.00 3.07
3099 11711 0.622738 ACATGGGAGGCAGGAGTCAT 60.623 55.000 0.00 0.00 0.00 3.06
3100 11712 0.842030 AACATGGGAGGCAGGAGTCA 60.842 55.000 0.00 0.00 0.00 3.41
3101 11713 0.107459 GAACATGGGAGGCAGGAGTC 60.107 60.000 0.00 0.00 0.00 3.36
3102 11714 0.842030 TGAACATGGGAGGCAGGAGT 60.842 55.000 0.00 0.00 0.00 3.85
3103 11715 0.107312 CTGAACATGGGAGGCAGGAG 60.107 60.000 0.00 0.00 0.00 3.69
3104 11716 0.547471 TCTGAACATGGGAGGCAGGA 60.547 55.000 0.00 0.00 0.00 3.86
3105 11717 0.549950 ATCTGAACATGGGAGGCAGG 59.450 55.000 0.00 0.00 0.00 4.85
3106 11718 3.409570 CATATCTGAACATGGGAGGCAG 58.590 50.000 0.00 0.00 0.00 4.85
3107 11719 2.487805 GCATATCTGAACATGGGAGGCA 60.488 50.000 0.00 0.00 0.00 4.75
3108 11720 2.157738 GCATATCTGAACATGGGAGGC 58.842 52.381 0.00 0.00 0.00 4.70
3109 11721 3.409570 CAGCATATCTGAACATGGGAGG 58.590 50.000 0.00 0.00 45.72 4.30
3110 11722 2.812591 GCAGCATATCTGAACATGGGAG 59.187 50.000 0.00 0.00 45.72 4.30
3111 11723 2.487805 GGCAGCATATCTGAACATGGGA 60.488 50.000 0.00 0.00 45.72 4.37
3112 11724 1.884579 GGCAGCATATCTGAACATGGG 59.115 52.381 0.00 0.00 45.72 4.00
3113 11725 2.578786 TGGCAGCATATCTGAACATGG 58.421 47.619 0.00 0.00 45.72 3.66
3114 11726 4.160736 CATGGCAGCATATCTGAACATG 57.839 45.455 16.25 16.25 45.72 3.21
3115 11727 3.154710 CCATGGCAGCATATCTGAACAT 58.845 45.455 0.00 6.64 45.72 2.71
3116 11728 2.173143 TCCATGGCAGCATATCTGAACA 59.827 45.455 6.96 5.09 45.72 3.18
3117 11729 2.812591 CTCCATGGCAGCATATCTGAAC 59.187 50.000 6.96 0.77 45.72 3.18
3118 11730 2.440627 ACTCCATGGCAGCATATCTGAA 59.559 45.455 6.96 0.00 45.72 3.02
3119 11731 2.052468 ACTCCATGGCAGCATATCTGA 58.948 47.619 6.96 0.00 45.72 3.27
3120 11732 2.152016 CACTCCATGGCAGCATATCTG 58.848 52.381 6.96 0.00 45.62 2.90
3121 11733 1.773052 ACACTCCATGGCAGCATATCT 59.227 47.619 6.96 0.00 0.00 1.98
3122 11734 2.267174 ACACTCCATGGCAGCATATC 57.733 50.000 6.96 0.00 0.00 1.63
3123 11735 2.304092 CAACACTCCATGGCAGCATAT 58.696 47.619 6.96 0.00 0.00 1.78
3124 11736 1.004628 ACAACACTCCATGGCAGCATA 59.995 47.619 6.96 0.00 0.00 3.14
3125 11737 0.251474 ACAACACTCCATGGCAGCAT 60.251 50.000 6.96 0.00 0.00 3.79
3126 11738 0.467844 AACAACACTCCATGGCAGCA 60.468 50.000 6.96 0.00 0.00 4.41
3127 11739 1.200020 GTAACAACACTCCATGGCAGC 59.800 52.381 6.96 0.00 0.00 5.25
3128 11740 1.812571 GGTAACAACACTCCATGGCAG 59.187 52.381 6.96 8.24 0.00 4.85
3129 11741 1.880221 CGGTAACAACACTCCATGGCA 60.880 52.381 6.96 0.00 0.00 4.92
3130 11742 0.802494 CGGTAACAACACTCCATGGC 59.198 55.000 6.96 0.00 0.00 4.40
3131 11743 0.802494 GCGGTAACAACACTCCATGG 59.198 55.000 4.97 4.97 0.00 3.66
3132 11744 1.808411 AGCGGTAACAACACTCCATG 58.192 50.000 0.00 0.00 0.00 3.66
3133 11745 2.224426 TGAAGCGGTAACAACACTCCAT 60.224 45.455 0.00 0.00 0.00 3.41
3134 11746 1.139256 TGAAGCGGTAACAACACTCCA 59.861 47.619 0.00 0.00 0.00 3.86
3135 11747 1.873698 TGAAGCGGTAACAACACTCC 58.126 50.000 0.00 0.00 0.00 3.85
3136 11748 2.415512 GGATGAAGCGGTAACAACACTC 59.584 50.000 0.00 0.00 0.00 3.51
3137 11749 2.224426 TGGATGAAGCGGTAACAACACT 60.224 45.455 0.00 0.00 0.00 3.55
3138 11750 2.095919 GTGGATGAAGCGGTAACAACAC 60.096 50.000 12.76 12.76 0.00 3.32
3139 11751 2.147958 GTGGATGAAGCGGTAACAACA 58.852 47.619 0.00 0.00 0.00 3.33
3140 11752 1.127951 CGTGGATGAAGCGGTAACAAC 59.872 52.381 0.00 0.00 0.00 3.32
3141 11753 1.001068 TCGTGGATGAAGCGGTAACAA 59.999 47.619 0.00 0.00 0.00 2.83
3142 11754 0.604073 TCGTGGATGAAGCGGTAACA 59.396 50.000 0.00 0.00 0.00 2.41
3143 11755 0.997196 GTCGTGGATGAAGCGGTAAC 59.003 55.000 0.00 0.00 0.00 2.50
3144 11756 0.457166 CGTCGTGGATGAAGCGGTAA 60.457 55.000 0.00 0.00 0.00 2.85
3145 11757 1.138036 CGTCGTGGATGAAGCGGTA 59.862 57.895 0.00 0.00 0.00 4.02
3146 11758 1.945354 ATCGTCGTGGATGAAGCGGT 61.945 55.000 0.00 0.00 31.01 5.68
3147 11759 0.806102 AATCGTCGTGGATGAAGCGG 60.806 55.000 0.00 0.00 31.01 5.52
3148 11760 1.517276 GTAATCGTCGTGGATGAAGCG 59.483 52.381 0.00 0.00 31.01 4.68
3149 11761 1.859080 GGTAATCGTCGTGGATGAAGC 59.141 52.381 0.00 0.00 31.01 3.86
3150 11762 3.438297 AGGTAATCGTCGTGGATGAAG 57.562 47.619 0.00 0.00 31.01 3.02
3151 11763 3.067180 GGTAGGTAATCGTCGTGGATGAA 59.933 47.826 0.00 0.00 31.01 2.57
3152 11764 2.620115 GGTAGGTAATCGTCGTGGATGA 59.380 50.000 0.00 0.00 31.82 2.92
3153 11765 2.621998 AGGTAGGTAATCGTCGTGGATG 59.378 50.000 0.00 0.00 0.00 3.51
3154 11766 2.883386 GAGGTAGGTAATCGTCGTGGAT 59.117 50.000 0.00 0.00 0.00 3.41
3155 11767 2.292267 GAGGTAGGTAATCGTCGTGGA 58.708 52.381 0.00 0.00 0.00 4.02
3156 11768 1.336125 GGAGGTAGGTAATCGTCGTGG 59.664 57.143 0.00 0.00 0.00 4.94
3157 11769 1.003116 CGGAGGTAGGTAATCGTCGTG 60.003 57.143 0.00 0.00 0.00 4.35
3158 11770 1.303309 CGGAGGTAGGTAATCGTCGT 58.697 55.000 0.00 0.00 0.00 4.34
3177 11789 4.717313 GGAGGTGTTGGCGGACCC 62.717 72.222 0.00 0.00 32.03 4.46
3178 11790 3.607370 GAGGAGGTGTTGGCGGACC 62.607 68.421 0.00 0.00 0.00 4.46
3179 11791 2.047179 GAGGAGGTGTTGGCGGAC 60.047 66.667 0.00 0.00 0.00 4.79
3180 11792 3.319198 GGAGGAGGTGTTGGCGGA 61.319 66.667 0.00 0.00 0.00 5.54
3181 11793 1.622607 TATGGAGGAGGTGTTGGCGG 61.623 60.000 0.00 0.00 0.00 6.13
3182 11794 0.251916 TTATGGAGGAGGTGTTGGCG 59.748 55.000 0.00 0.00 0.00 5.69
3183 11795 2.019156 GCTTATGGAGGAGGTGTTGGC 61.019 57.143 0.00 0.00 0.00 4.52
3184 11796 1.561542 AGCTTATGGAGGAGGTGTTGG 59.438 52.381 0.00 0.00 0.00 3.77
3185 11797 2.237143 TCAGCTTATGGAGGAGGTGTTG 59.763 50.000 0.00 0.00 41.03 3.33
3186 11798 2.551270 TCAGCTTATGGAGGAGGTGTT 58.449 47.619 0.00 0.00 41.03 3.32
3187 11799 2.254152 TCAGCTTATGGAGGAGGTGT 57.746 50.000 0.00 0.00 41.03 4.16
3188 11800 3.634397 TTTCAGCTTATGGAGGAGGTG 57.366 47.619 0.00 0.00 41.46 4.00
3189 11801 4.228210 TGATTTTCAGCTTATGGAGGAGGT 59.772 41.667 0.00 0.00 0.00 3.85
3190 11802 4.785301 TGATTTTCAGCTTATGGAGGAGG 58.215 43.478 0.00 0.00 0.00 4.30
3191 11803 7.718753 AGTTATGATTTTCAGCTTATGGAGGAG 59.281 37.037 0.00 0.00 0.00 3.69
3192 11804 7.577303 AGTTATGATTTTCAGCTTATGGAGGA 58.423 34.615 0.00 0.00 0.00 3.71
3193 11805 7.814264 AGTTATGATTTTCAGCTTATGGAGG 57.186 36.000 0.00 0.00 0.00 4.30
3200 11812 9.236006 ACACAAGATAGTTATGATTTTCAGCTT 57.764 29.630 0.00 0.00 0.00 3.74
3201 11813 8.798859 ACACAAGATAGTTATGATTTTCAGCT 57.201 30.769 0.00 0.00 0.00 4.24
3202 11814 9.922305 GTACACAAGATAGTTATGATTTTCAGC 57.078 33.333 0.00 0.00 0.00 4.26
3205 11817 9.901724 CGTGTACACAAGATAGTTATGATTTTC 57.098 33.333 24.98 0.00 0.00 2.29
3206 11818 8.388103 GCGTGTACACAAGATAGTTATGATTTT 58.612 33.333 24.98 0.00 0.00 1.82
3207 11819 7.011109 GGCGTGTACACAAGATAGTTATGATTT 59.989 37.037 24.98 0.00 0.00 2.17
3208 11820 6.479001 GGCGTGTACACAAGATAGTTATGATT 59.521 38.462 24.98 0.00 0.00 2.57
3209 11821 5.983720 GGCGTGTACACAAGATAGTTATGAT 59.016 40.000 24.98 0.00 0.00 2.45
3210 11822 5.105675 TGGCGTGTACACAAGATAGTTATGA 60.106 40.000 24.98 0.00 0.00 2.15
3211 11823 5.106442 TGGCGTGTACACAAGATAGTTATG 58.894 41.667 24.98 5.86 0.00 1.90
3212 11824 5.333299 TGGCGTGTACACAAGATAGTTAT 57.667 39.130 24.98 0.00 0.00 1.89
3213 11825 4.787260 TGGCGTGTACACAAGATAGTTA 57.213 40.909 24.98 0.00 0.00 2.24
3214 11826 3.671008 TGGCGTGTACACAAGATAGTT 57.329 42.857 24.98 0.00 0.00 2.24
3215 11827 3.887621 ATGGCGTGTACACAAGATAGT 57.112 42.857 24.98 2.05 0.00 2.12
3216 11828 4.629634 TGAAATGGCGTGTACACAAGATAG 59.370 41.667 24.98 9.16 0.00 2.08
3217 11829 4.390603 GTGAAATGGCGTGTACACAAGATA 59.609 41.667 24.98 7.26 0.00 1.98
3218 11830 3.188460 GTGAAATGGCGTGTACACAAGAT 59.812 43.478 24.98 10.30 0.00 2.40
3219 11831 2.546368 GTGAAATGGCGTGTACACAAGA 59.454 45.455 24.98 8.41 0.00 3.02
3220 11832 2.289274 TGTGAAATGGCGTGTACACAAG 59.711 45.455 24.98 11.29 35.77 3.16
3221 11833 2.032302 GTGTGAAATGGCGTGTACACAA 59.968 45.455 24.98 10.77 39.36 3.33
3222 11834 1.600013 GTGTGAAATGGCGTGTACACA 59.400 47.619 24.98 6.96 38.53 3.72
3223 11835 1.871039 AGTGTGAAATGGCGTGTACAC 59.129 47.619 16.32 16.32 38.84 2.90
3224 11836 2.248280 AGTGTGAAATGGCGTGTACA 57.752 45.000 0.00 0.00 0.00 2.90
3225 11837 4.939509 AATAGTGTGAAATGGCGTGTAC 57.060 40.909 0.00 0.00 0.00 2.90
3226 11838 5.239744 ACAAAATAGTGTGAAATGGCGTGTA 59.760 36.000 0.00 0.00 0.00 2.90
3227 11839 4.037446 ACAAAATAGTGTGAAATGGCGTGT 59.963 37.500 0.00 0.00 0.00 4.49
3228 11840 4.545610 ACAAAATAGTGTGAAATGGCGTG 58.454 39.130 0.00 0.00 0.00 5.34
3229 11841 4.846779 ACAAAATAGTGTGAAATGGCGT 57.153 36.364 0.00 0.00 0.00 5.68
3239 11851 0.596082 GGCCGTGCACAAAATAGTGT 59.404 50.000 18.64 0.00 41.52 3.55
3240 11852 0.595588 TGGCCGTGCACAAAATAGTG 59.404 50.000 18.64 0.00 42.37 2.74
3241 11853 1.472480 GATGGCCGTGCACAAAATAGT 59.528 47.619 18.64 0.00 0.00 2.12
3242 11854 1.745087 AGATGGCCGTGCACAAAATAG 59.255 47.619 18.64 0.00 0.00 1.73
3243 11855 1.472082 CAGATGGCCGTGCACAAAATA 59.528 47.619 18.64 0.00 0.00 1.40
3244 11856 0.244450 CAGATGGCCGTGCACAAAAT 59.756 50.000 18.64 4.29 0.00 1.82
3245 11857 1.659233 CAGATGGCCGTGCACAAAA 59.341 52.632 18.64 0.00 0.00 2.44
3246 11858 2.918345 GCAGATGGCCGTGCACAAA 61.918 57.895 18.64 0.00 39.62 2.83
3247 11859 2.462125 TAGCAGATGGCCGTGCACAA 62.462 55.000 22.45 8.25 46.50 3.33
3248 11860 2.462125 TTAGCAGATGGCCGTGCACA 62.462 55.000 22.45 10.06 46.50 4.57
3249 11861 1.745115 TTAGCAGATGGCCGTGCAC 60.745 57.895 22.45 6.82 46.50 4.57
3250 11862 1.745115 GTTAGCAGATGGCCGTGCA 60.745 57.895 22.45 9.14 46.50 4.57
3251 11863 1.745115 TGTTAGCAGATGGCCGTGC 60.745 57.895 15.03 15.03 46.50 5.34
3252 11864 1.369091 GGTGTTAGCAGATGGCCGTG 61.369 60.000 0.00 0.00 46.50 4.94
3253 11865 1.078426 GGTGTTAGCAGATGGCCGT 60.078 57.895 0.00 0.00 46.50 5.68
3254 11866 0.392998 AAGGTGTTAGCAGATGGCCG 60.393 55.000 0.00 0.00 46.50 6.13
3255 11867 1.340017 TGAAGGTGTTAGCAGATGGCC 60.340 52.381 0.00 0.00 46.50 5.36
3256 11868 1.740025 GTGAAGGTGTTAGCAGATGGC 59.260 52.381 0.00 0.00 45.30 4.40
3257 11869 2.359900 GGTGAAGGTGTTAGCAGATGG 58.640 52.381 0.00 0.00 0.00 3.51
3258 11870 2.290260 TGGGTGAAGGTGTTAGCAGATG 60.290 50.000 0.00 0.00 0.00 2.90
3259 11871 1.985159 TGGGTGAAGGTGTTAGCAGAT 59.015 47.619 0.00 0.00 0.00 2.90
3260 11872 1.071699 GTGGGTGAAGGTGTTAGCAGA 59.928 52.381 0.00 0.00 0.00 4.26
3261 11873 1.523758 GTGGGTGAAGGTGTTAGCAG 58.476 55.000 0.00 0.00 0.00 4.24
3262 11874 0.250124 CGTGGGTGAAGGTGTTAGCA 60.250 55.000 0.00 0.00 0.00 3.49
3263 11875 0.034337 TCGTGGGTGAAGGTGTTAGC 59.966 55.000 0.00 0.00 0.00 3.09
3264 11876 1.343465 AGTCGTGGGTGAAGGTGTTAG 59.657 52.381 0.00 0.00 0.00 2.34
3265 11877 1.416243 AGTCGTGGGTGAAGGTGTTA 58.584 50.000 0.00 0.00 0.00 2.41
3266 11878 1.069668 GTAGTCGTGGGTGAAGGTGTT 59.930 52.381 0.00 0.00 0.00 3.32
3267 11879 0.677842 GTAGTCGTGGGTGAAGGTGT 59.322 55.000 0.00 0.00 0.00 4.16
3268 11880 0.388134 CGTAGTCGTGGGTGAAGGTG 60.388 60.000 0.00 0.00 0.00 4.00
3269 11881 1.962144 CGTAGTCGTGGGTGAAGGT 59.038 57.895 0.00 0.00 0.00 3.50
3270 11882 4.883026 CGTAGTCGTGGGTGAAGG 57.117 61.111 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.