Multiple sequence alignment - TraesCS2D01G584400

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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 TraesCS2D01G584400 chr2D 100.000 3734 0 0 1 3734 643858617 643854884 0.000000e+00 6896.0
1 TraesCS2D01G584400 chr2D 99.105 2459 15 3 131 2587 359629753 359632206 0.000000e+00 4412.0
2 TraesCS2D01G584400 chr2D 98.702 1926 15 5 1 1923 628291240 628293158 0.000000e+00 3410.0
3 TraesCS2D01G584400 chr2D 91.282 195 16 1 1 195 400049729 400049922 7.950000e-67 265.0
4 TraesCS2D01G584400 chr2D 81.301 123 23 0 2920 3042 643855603 643855481 2.370000e-17 100.0
5 TraesCS2D01G584400 chr2D 81.301 123 23 0 3015 3137 643855698 643855576 2.370000e-17 100.0
6 TraesCS2D01G584400 chr2D 100.000 49 0 0 1 49 394438425 394438473 1.430000e-14 91.6
7 TraesCS2D01G584400 chr5D 99.432 2819 14 2 1 2817 483802500 483805318 0.000000e+00 5116.0
8 TraesCS2D01G584400 chr5D 98.640 1471 19 1 1348 2817 6232320 6233790 0.000000e+00 2604.0
9 TraesCS2D01G584400 chr1D 98.795 2822 25 7 1 2817 254482253 254479436 0.000000e+00 5014.0
10 TraesCS2D01G584400 chr1D 97.445 1174 30 0 1644 2817 180352115 180353288 0.000000e+00 2002.0
11 TraesCS2D01G584400 chr3B 97.977 2818 49 3 1 2817 201498271 201495461 0.000000e+00 4881.0
12 TraesCS2D01G584400 chr3B 89.320 412 43 1 2820 3230 13410743 13410332 1.990000e-142 516.0
13 TraesCS2D01G584400 chr3B 91.304 207 12 4 3279 3484 13410340 13410139 1.020000e-70 278.0
14 TraesCS2D01G584400 chr3B 84.252 127 20 0 2916 3042 13410551 13410425 1.410000e-24 124.0
15 TraesCS2D01G584400 chr2B 97.877 2732 41 5 88 2817 474940033 474937317 0.000000e+00 4708.0
16 TraesCS2D01G584400 chr2B 92.617 149 7 3 3588 3734 793229147 793229293 1.050000e-50 211.0
17 TraesCS2D01G584400 chr2B 94.286 105 6 0 3484 3588 793184326 793184430 1.070000e-35 161.0
18 TraesCS2D01G584400 chr2B 87.395 119 11 4 3366 3484 761974092 761974206 2.340000e-27 134.0
19 TraesCS2D01G584400 chr7A 94.401 2197 107 12 621 2813 352292166 352294350 0.000000e+00 3362.0
20 TraesCS2D01G584400 chr4A 96.484 1991 56 9 157 2141 309270913 309272895 0.000000e+00 3277.0
21 TraesCS2D01G584400 chr3D 96.534 1904 40 7 319 2221 451862319 451864197 0.000000e+00 3127.0
22 TraesCS2D01G584400 chr1A 97.990 1144 14 4 1 1142 554473322 554474458 0.000000e+00 1977.0
23 TraesCS2D01G584400 chr2A 96.787 249 7 1 3487 3734 768983961 768983713 7.460000e-112 414.0
24 TraesCS2D01G584400 chr7B 88.991 218 18 4 3279 3495 346666459 346666247 7.950000e-67 265.0
25 TraesCS2D01G584400 chr7B 80.738 244 37 8 3256 3493 559136506 559136267 8.240000e-42 182.0


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 TraesCS2D01G584400 chr2D 643854884 643858617 3733 True 2365.333333 6896 87.534 1 3734 3 chr2D.!!$R1 3733
1 TraesCS2D01G584400 chr2D 359629753 359632206 2453 False 4412.000000 4412 99.105 131 2587 1 chr2D.!!$F1 2456
2 TraesCS2D01G584400 chr2D 628291240 628293158 1918 False 3410.000000 3410 98.702 1 1923 1 chr2D.!!$F4 1922
3 TraesCS2D01G584400 chr5D 483802500 483805318 2818 False 5116.000000 5116 99.432 1 2817 1 chr5D.!!$F2 2816
4 TraesCS2D01G584400 chr5D 6232320 6233790 1470 False 2604.000000 2604 98.640 1348 2817 1 chr5D.!!$F1 1469
5 TraesCS2D01G584400 chr1D 254479436 254482253 2817 True 5014.000000 5014 98.795 1 2817 1 chr1D.!!$R1 2816
6 TraesCS2D01G584400 chr1D 180352115 180353288 1173 False 2002.000000 2002 97.445 1644 2817 1 chr1D.!!$F1 1173
7 TraesCS2D01G584400 chr3B 201495461 201498271 2810 True 4881.000000 4881 97.977 1 2817 1 chr3B.!!$R1 2816
8 TraesCS2D01G584400 chr3B 13410139 13410743 604 True 306.000000 516 88.292 2820 3484 3 chr3B.!!$R2 664
9 TraesCS2D01G584400 chr2B 474937317 474940033 2716 True 4708.000000 4708 97.877 88 2817 1 chr2B.!!$R1 2729
10 TraesCS2D01G584400 chr7A 352292166 352294350 2184 False 3362.000000 3362 94.401 621 2813 1 chr7A.!!$F1 2192
11 TraesCS2D01G584400 chr4A 309270913 309272895 1982 False 3277.000000 3277 96.484 157 2141 1 chr4A.!!$F1 1984
12 TraesCS2D01G584400 chr3D 451862319 451864197 1878 False 3127.000000 3127 96.534 319 2221 1 chr3D.!!$F1 1902
13 TraesCS2D01G584400 chr1A 554473322 554474458 1136 False 1977.000000 1977 97.990 1 1142 1 chr1A.!!$F1 1141

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
576 577 6.941857 TGATAGATATAGCGCAACCCAAATA 58.058 36.000 11.47 0.0 0.0 1.40 F
1987 2003 6.874134 ACTTCGATTCAAGCAGTTTATGTACT 59.126 34.615 0.00 0.0 0.0 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1987 2003 1.144969 GTCGGTCAAATCGTCTGCAA 58.855 50.0 0.0 0.0 0.0 4.08 R
3503 3522 0.039618 ACGCCCCTCCAACAAATGAT 59.960 50.0 0.0 0.0 0.0 2.45 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
576 577 6.941857 TGATAGATATAGCGCAACCCAAATA 58.058 36.000 11.47 0.00 0.00 1.40
1987 2003 6.874134 ACTTCGATTCAAGCAGTTTATGTACT 59.126 34.615 0.00 0.00 0.00 2.73
2817 2835 4.528596 AGCTAACTTGAGTAAAGCTGAGGA 59.471 41.667 15.93 0.00 42.37 3.71
2818 2836 4.627900 GCTAACTTGAGTAAAGCTGAGGAC 59.372 45.833 9.81 0.00 39.76 3.85
2819 2837 4.965200 AACTTGAGTAAAGCTGAGGACT 57.035 40.909 0.00 0.00 39.76 3.85
2820 2838 4.965200 ACTTGAGTAAAGCTGAGGACTT 57.035 40.909 0.00 0.00 39.76 3.01
2821 2839 4.636249 ACTTGAGTAAAGCTGAGGACTTG 58.364 43.478 0.00 0.00 39.76 3.16
2822 2840 3.685139 TGAGTAAAGCTGAGGACTTGG 57.315 47.619 0.00 0.00 0.00 3.61
2823 2841 2.972713 TGAGTAAAGCTGAGGACTTGGT 59.027 45.455 0.00 0.00 0.00 3.67
2852 2870 1.003233 GAGGCTGTTGTGGAGGGTC 60.003 63.158 0.00 0.00 0.00 4.46
2862 2880 1.685765 TGGAGGGTCCATCAGGTCG 60.686 63.158 5.78 0.00 42.67 4.79
2867 2886 2.202756 GTCCATCAGGTCGACGCC 60.203 66.667 9.92 0.00 35.89 5.68
2881 2900 3.790437 CGCCTGCCAGAGGGATGT 61.790 66.667 0.00 0.00 43.07 3.06
2910 2929 2.583593 GCACACTCGCGGATCTCC 60.584 66.667 6.13 0.00 0.00 3.71
2943 2962 3.120060 GGAGCTACAATGCAACACAAGAG 60.120 47.826 0.00 0.00 34.99 2.85
2999 3018 0.808125 TGTAATGCAACGGACATGGC 59.192 50.000 0.00 0.00 0.00 4.40
3000 3019 0.248054 GTAATGCAACGGACATGGCG 60.248 55.000 0.00 0.00 0.00 5.69
3001 3020 1.987704 TAATGCAACGGACATGGCGC 61.988 55.000 0.00 0.00 0.00 6.53
3032 3051 3.271014 CGGAGCTGCAATGCAACT 58.729 55.556 11.26 11.26 37.70 3.16
3033 3052 2.470156 CGGAGCTGCAATGCAACTA 58.530 52.632 11.42 0.00 34.98 2.24
3034 3053 0.804364 CGGAGCTGCAATGCAACTAA 59.196 50.000 11.42 0.00 34.98 2.24
3037 3056 1.815003 GAGCTGCAATGCAACTAAGGT 59.185 47.619 11.42 3.35 34.98 3.50
3042 3061 1.885887 GCAATGCAACTAAGGTGGTGA 59.114 47.619 0.00 0.00 0.00 4.02
3043 3062 2.351738 GCAATGCAACTAAGGTGGTGAC 60.352 50.000 0.00 0.00 0.00 3.67
3093 3112 1.424403 CTGTAATGCAACGGACGTGA 58.576 50.000 0.00 0.00 0.00 4.35
3095 3114 2.415168 CTGTAATGCAACGGACGTGATT 59.585 45.455 0.00 0.72 0.00 2.57
3132 3151 2.576832 GCTGCAATGCAACTGGGGT 61.577 57.895 9.92 0.00 38.41 4.95
3137 3156 2.209315 AATGCAACTGGGGTGGTGC 61.209 57.895 0.00 0.00 0.00 5.01
3142 3161 1.152756 AACTGGGGTGGTGCTGAAC 60.153 57.895 0.00 0.00 0.00 3.18
3175 3194 1.520787 GGAGCTGCAATGCAATGCC 60.521 57.895 23.47 9.47 45.83 4.40
3182 3201 1.976898 CAATGCAATGCCTGGGTGT 59.023 52.632 1.53 0.00 0.00 4.16
3184 3203 1.597797 AATGCAATGCCTGGGTGTCG 61.598 55.000 1.53 0.00 0.00 4.35
3191 3210 2.657237 CCTGGGTGTCGTGACCTC 59.343 66.667 5.73 0.00 36.14 3.85
3226 3245 4.937781 CAGAAGCTGCAGTGCAAC 57.062 55.556 20.22 15.35 38.41 4.17
3227 3246 1.082300 CAGAAGCTGCAGTGCAACG 60.082 57.895 20.22 9.72 45.86 4.10
3228 3247 1.227645 AGAAGCTGCAGTGCAACGA 60.228 52.632 20.22 0.00 45.86 3.85
3229 3248 1.206072 GAAGCTGCAGTGCAACGAG 59.794 57.895 20.22 8.54 45.86 4.18
3230 3249 2.180131 GAAGCTGCAGTGCAACGAGG 62.180 60.000 20.22 8.13 45.86 4.63
3231 3250 3.730761 GCTGCAGTGCAACGAGGG 61.731 66.667 20.22 7.36 45.86 4.30
3232 3251 3.730761 CTGCAGTGCAACGAGGGC 61.731 66.667 20.22 0.00 45.86 5.19
3233 3252 4.254709 TGCAGTGCAACGAGGGCT 62.255 61.111 17.26 0.00 45.86 5.19
3234 3253 3.730761 GCAGTGCAACGAGGGCTG 61.731 66.667 11.09 0.00 45.86 4.85
3235 3254 2.281070 CAGTGCAACGAGGGCTGT 60.281 61.111 0.00 0.00 45.86 4.40
3236 3255 1.893808 CAGTGCAACGAGGGCTGTT 60.894 57.895 0.00 0.00 45.86 3.16
3237 3256 1.152963 AGTGCAACGAGGGCTGTTT 60.153 52.632 0.00 0.00 45.86 2.83
3238 3257 1.008538 GTGCAACGAGGGCTGTTTG 60.009 57.895 0.00 0.00 0.00 2.93
3239 3258 2.050077 GCAACGAGGGCTGTTTGC 60.050 61.111 0.00 0.00 41.94 3.68
3240 3259 2.555547 GCAACGAGGGCTGTTTGCT 61.556 57.895 0.00 0.00 42.39 3.91
3241 3260 1.234615 GCAACGAGGGCTGTTTGCTA 61.235 55.000 0.00 0.00 42.39 3.49
3242 3261 1.453155 CAACGAGGGCTGTTTGCTAT 58.547 50.000 0.00 0.00 42.39 2.97
3243 3262 1.131126 CAACGAGGGCTGTTTGCTATG 59.869 52.381 0.00 0.00 42.39 2.23
3244 3263 0.392998 ACGAGGGCTGTTTGCTATGG 60.393 55.000 0.00 0.00 42.39 2.74
3245 3264 1.097547 CGAGGGCTGTTTGCTATGGG 61.098 60.000 0.00 0.00 42.39 4.00
3246 3265 0.753111 GAGGGCTGTTTGCTATGGGG 60.753 60.000 0.00 0.00 42.39 4.96
3247 3266 1.758122 GGGCTGTTTGCTATGGGGG 60.758 63.158 0.00 0.00 42.39 5.40
3248 3267 1.306296 GGCTGTTTGCTATGGGGGA 59.694 57.895 0.00 0.00 42.39 4.81
3249 3268 0.753111 GGCTGTTTGCTATGGGGGAG 60.753 60.000 0.00 0.00 42.39 4.30
3250 3269 0.255890 GCTGTTTGCTATGGGGGAGA 59.744 55.000 0.00 0.00 38.95 3.71
3251 3270 1.133668 GCTGTTTGCTATGGGGGAGAT 60.134 52.381 0.00 0.00 38.95 2.75
3252 3271 2.579873 CTGTTTGCTATGGGGGAGATG 58.420 52.381 0.00 0.00 0.00 2.90
3253 3272 2.173356 CTGTTTGCTATGGGGGAGATGA 59.827 50.000 0.00 0.00 0.00 2.92
3254 3273 2.173356 TGTTTGCTATGGGGGAGATGAG 59.827 50.000 0.00 0.00 0.00 2.90
3255 3274 2.173569 GTTTGCTATGGGGGAGATGAGT 59.826 50.000 0.00 0.00 0.00 3.41
3256 3275 1.427809 TGCTATGGGGGAGATGAGTG 58.572 55.000 0.00 0.00 0.00 3.51
3257 3276 0.689623 GCTATGGGGGAGATGAGTGG 59.310 60.000 0.00 0.00 0.00 4.00
3258 3277 2.042301 GCTATGGGGGAGATGAGTGGT 61.042 57.143 0.00 0.00 0.00 4.16
3259 3278 2.412591 CTATGGGGGAGATGAGTGGTT 58.587 52.381 0.00 0.00 0.00 3.67
3260 3279 1.686236 ATGGGGGAGATGAGTGGTTT 58.314 50.000 0.00 0.00 0.00 3.27
3261 3280 0.698238 TGGGGGAGATGAGTGGTTTG 59.302 55.000 0.00 0.00 0.00 2.93
3262 3281 0.698818 GGGGGAGATGAGTGGTTTGT 59.301 55.000 0.00 0.00 0.00 2.83
3263 3282 1.075536 GGGGGAGATGAGTGGTTTGTT 59.924 52.381 0.00 0.00 0.00 2.83
3264 3283 2.162681 GGGGAGATGAGTGGTTTGTTG 58.837 52.381 0.00 0.00 0.00 3.33
3265 3284 2.489073 GGGGAGATGAGTGGTTTGTTGT 60.489 50.000 0.00 0.00 0.00 3.32
3266 3285 2.554032 GGGAGATGAGTGGTTTGTTGTG 59.446 50.000 0.00 0.00 0.00 3.33
3267 3286 2.554032 GGAGATGAGTGGTTTGTTGTGG 59.446 50.000 0.00 0.00 0.00 4.17
3268 3287 1.956477 AGATGAGTGGTTTGTTGTGGC 59.044 47.619 0.00 0.00 0.00 5.01
3269 3288 1.000274 GATGAGTGGTTTGTTGTGGCC 60.000 52.381 0.00 0.00 0.00 5.36
3270 3289 1.358759 GAGTGGTTTGTTGTGGCCG 59.641 57.895 0.00 0.00 0.00 6.13
3271 3290 2.070654 GAGTGGTTTGTTGTGGCCGG 62.071 60.000 0.00 0.00 0.00 6.13
3272 3291 2.043852 TGGTTTGTTGTGGCCGGT 60.044 55.556 1.90 0.00 0.00 5.28
3273 3292 2.415426 GGTTTGTTGTGGCCGGTG 59.585 61.111 1.90 0.00 0.00 4.94
3274 3293 2.279186 GTTTGTTGTGGCCGGTGC 60.279 61.111 1.90 0.00 0.00 5.01
3275 3294 3.893763 TTTGTTGTGGCCGGTGCG 61.894 61.111 1.90 0.00 38.85 5.34
3381 3400 0.387367 CGTCTGTTCCTCTCCACGTG 60.387 60.000 9.08 9.08 0.00 4.49
3382 3401 0.959553 GTCTGTTCCTCTCCACGTGA 59.040 55.000 19.30 2.03 0.00 4.35
3383 3402 1.546476 GTCTGTTCCTCTCCACGTGAT 59.454 52.381 19.30 0.00 0.00 3.06
3385 3404 0.895530 TGTTCCTCTCCACGTGATCC 59.104 55.000 19.30 0.00 0.00 3.36
3386 3405 1.187087 GTTCCTCTCCACGTGATCCT 58.813 55.000 19.30 0.00 0.00 3.24
3387 3406 2.291346 TGTTCCTCTCCACGTGATCCTA 60.291 50.000 19.30 0.00 0.00 2.94
3388 3407 2.054232 TCCTCTCCACGTGATCCTAC 57.946 55.000 19.30 0.00 0.00 3.18
3389 3408 1.564818 TCCTCTCCACGTGATCCTACT 59.435 52.381 19.30 0.00 0.00 2.57
3404 3423 1.017387 CTACTTGGAGCAAATCGGGC 58.983 55.000 0.00 0.00 0.00 6.13
3405 3424 0.326595 TACTTGGAGCAAATCGGGCA 59.673 50.000 0.00 0.00 0.00 5.36
3408 3427 3.521796 GGAGCAAATCGGGCAGCC 61.522 66.667 1.26 1.26 0.00 4.85
3434 3453 2.892640 CCTCATCCAACGGCTCGA 59.107 61.111 1.50 0.00 0.00 4.04
3448 3467 1.068127 GGCTCGAGAGGCGGTTTATAA 59.932 52.381 18.75 0.00 44.15 0.98
3462 3481 3.303132 GGTTTATAATTGCCTCGCGTCAG 60.303 47.826 5.77 0.00 0.00 3.51
3497 3516 7.940178 CGTAGCAGTGGTCATATTTTATACA 57.060 36.000 0.00 0.00 0.00 2.29
3498 3517 8.534333 CGTAGCAGTGGTCATATTTTATACAT 57.466 34.615 0.00 0.00 0.00 2.29
3499 3518 8.648097 CGTAGCAGTGGTCATATTTTATACATC 58.352 37.037 0.00 0.00 0.00 3.06
3500 3519 9.712305 GTAGCAGTGGTCATATTTTATACATCT 57.288 33.333 0.00 0.00 0.00 2.90
3502 3521 9.712305 AGCAGTGGTCATATTTTATACATCTAC 57.288 33.333 0.00 0.00 0.00 2.59
3503 3522 9.489084 GCAGTGGTCATATTTTATACATCTACA 57.511 33.333 0.00 0.00 0.00 2.74
3517 3536 9.559732 TTATACATCTACATCATTTGTTGGAGG 57.440 33.333 1.92 0.00 39.87 4.30
3518 3537 5.195940 ACATCTACATCATTTGTTGGAGGG 58.804 41.667 1.92 0.00 39.87 4.30
3519 3538 4.235079 TCTACATCATTTGTTGGAGGGG 57.765 45.455 1.92 0.00 39.87 4.79
3520 3539 1.560505 ACATCATTTGTTGGAGGGGC 58.439 50.000 0.00 0.00 33.74 5.80
3521 3540 0.457035 CATCATTTGTTGGAGGGGCG 59.543 55.000 0.00 0.00 0.00 6.13
3522 3541 0.039618 ATCATTTGTTGGAGGGGCGT 59.960 50.000 0.00 0.00 0.00 5.68
3523 3542 0.178975 TCATTTGTTGGAGGGGCGTT 60.179 50.000 0.00 0.00 0.00 4.84
3524 3543 0.678950 CATTTGTTGGAGGGGCGTTT 59.321 50.000 0.00 0.00 0.00 3.60
3525 3544 1.069978 CATTTGTTGGAGGGGCGTTTT 59.930 47.619 0.00 0.00 0.00 2.43
3526 3545 1.196012 TTTGTTGGAGGGGCGTTTTT 58.804 45.000 0.00 0.00 0.00 1.94
3578 3597 9.923143 AATTTATACATCTGCATCATCAATTGG 57.077 29.630 5.42 0.00 0.00 3.16
3579 3598 8.694581 TTTATACATCTGCATCATCAATTGGA 57.305 30.769 5.42 0.00 0.00 3.53
3580 3599 6.819397 ATACATCTGCATCATCAATTGGAG 57.181 37.500 5.42 0.00 33.09 3.86
3581 3600 4.788679 ACATCTGCATCATCAATTGGAGA 58.211 39.130 5.42 4.44 43.19 3.71
3583 3602 5.966742 ATCTGCATCATCAATTGGAGATG 57.033 39.130 24.54 24.54 45.64 2.90
3588 3607 5.515797 CATCATCAATTGGAGATGCTGTT 57.484 39.130 20.40 0.00 41.98 3.16
3589 3608 6.628919 CATCATCAATTGGAGATGCTGTTA 57.371 37.500 20.40 0.00 41.98 2.41
3590 3609 7.215719 CATCATCAATTGGAGATGCTGTTAT 57.784 36.000 20.40 1.51 41.98 1.89
3591 3610 7.658261 CATCATCAATTGGAGATGCTGTTATT 58.342 34.615 20.40 0.00 41.98 1.40
3592 3611 7.268199 TCATCAATTGGAGATGCTGTTATTC 57.732 36.000 5.42 0.00 41.98 1.75
3593 3612 6.829811 TCATCAATTGGAGATGCTGTTATTCA 59.170 34.615 5.42 0.00 41.98 2.57
3594 3613 7.339976 TCATCAATTGGAGATGCTGTTATTCAA 59.660 33.333 5.42 0.00 41.98 2.69
3595 3614 7.649533 TCAATTGGAGATGCTGTTATTCAAT 57.350 32.000 5.42 0.00 0.00 2.57
3596 3615 8.070034 TCAATTGGAGATGCTGTTATTCAATT 57.930 30.769 5.42 0.00 34.99 2.32
3597 3616 7.977293 TCAATTGGAGATGCTGTTATTCAATTG 59.023 33.333 15.18 15.18 45.23 2.32
3598 3617 6.839124 TTGGAGATGCTGTTATTCAATTGT 57.161 33.333 5.13 0.00 0.00 2.71
3599 3618 6.198650 TGGAGATGCTGTTATTCAATTGTG 57.801 37.500 5.13 0.00 0.00 3.33
3600 3619 5.125900 TGGAGATGCTGTTATTCAATTGTGG 59.874 40.000 5.13 0.00 0.00 4.17
3601 3620 5.357878 GGAGATGCTGTTATTCAATTGTGGA 59.642 40.000 5.13 0.00 0.00 4.02
3602 3621 6.127647 GGAGATGCTGTTATTCAATTGTGGAA 60.128 38.462 5.13 0.00 0.00 3.53
3603 3622 6.624423 AGATGCTGTTATTCAATTGTGGAAC 58.376 36.000 5.13 8.41 37.35 3.62
3604 3623 4.793071 TGCTGTTATTCAATTGTGGAACG 58.207 39.130 5.13 6.13 42.39 3.95
3605 3624 3.608073 GCTGTTATTCAATTGTGGAACGC 59.392 43.478 5.13 10.98 42.39 4.84
3606 3625 4.615912 GCTGTTATTCAATTGTGGAACGCT 60.616 41.667 5.13 0.00 42.39 5.07
3607 3626 4.793071 TGTTATTCAATTGTGGAACGCTG 58.207 39.130 5.13 0.00 42.39 5.18
3608 3627 4.165779 GTTATTCAATTGTGGAACGCTGG 58.834 43.478 5.13 0.00 42.39 4.85
3609 3628 0.313672 TTCAATTGTGGAACGCTGGC 59.686 50.000 5.13 0.00 42.39 4.85
3610 3629 1.080569 CAATTGTGGAACGCTGGCC 60.081 57.895 0.00 0.00 42.39 5.36
3611 3630 2.275380 AATTGTGGAACGCTGGCCC 61.275 57.895 0.00 0.00 42.39 5.80
3612 3631 2.992817 AATTGTGGAACGCTGGCCCA 62.993 55.000 0.00 0.00 42.39 5.36
3623 3642 4.726334 TGGCCCACCATCGTAAAC 57.274 55.556 0.00 0.00 42.67 2.01
3624 3643 1.761822 TGGCCCACCATCGTAAACA 59.238 52.632 0.00 0.00 42.67 2.83
3625 3644 0.329931 TGGCCCACCATCGTAAACAT 59.670 50.000 0.00 0.00 42.67 2.71
3626 3645 1.560146 TGGCCCACCATCGTAAACATA 59.440 47.619 0.00 0.00 42.67 2.29
3627 3646 2.173782 TGGCCCACCATCGTAAACATAT 59.826 45.455 0.00 0.00 42.67 1.78
3628 3647 3.391626 TGGCCCACCATCGTAAACATATA 59.608 43.478 0.00 0.00 42.67 0.86
3629 3648 4.000988 GGCCCACCATCGTAAACATATAG 58.999 47.826 0.00 0.00 35.26 1.31
3630 3649 4.262721 GGCCCACCATCGTAAACATATAGA 60.263 45.833 0.00 0.00 35.26 1.98
3631 3650 4.689345 GCCCACCATCGTAAACATATAGAC 59.311 45.833 0.00 0.00 0.00 2.59
3632 3651 5.740803 GCCCACCATCGTAAACATATAGACA 60.741 44.000 0.00 0.00 0.00 3.41
3633 3652 5.926542 CCCACCATCGTAAACATATAGACAG 59.073 44.000 0.00 0.00 0.00 3.51
3634 3653 5.405571 CCACCATCGTAAACATATAGACAGC 59.594 44.000 0.00 0.00 0.00 4.40
3635 3654 5.983118 CACCATCGTAAACATATAGACAGCA 59.017 40.000 0.00 0.00 0.00 4.41
3636 3655 6.646653 CACCATCGTAAACATATAGACAGCAT 59.353 38.462 0.00 0.00 0.00 3.79
3637 3656 7.812669 CACCATCGTAAACATATAGACAGCATA 59.187 37.037 0.00 0.00 0.00 3.14
3638 3657 8.364894 ACCATCGTAAACATATAGACAGCATAA 58.635 33.333 0.00 0.00 0.00 1.90
3639 3658 9.203421 CCATCGTAAACATATAGACAGCATAAA 57.797 33.333 0.00 0.00 0.00 1.40
3646 3665 8.807948 AACATATAGACAGCATAAAAACAGGT 57.192 30.769 0.00 0.00 0.00 4.00
3647 3666 8.213518 ACATATAGACAGCATAAAAACAGGTG 57.786 34.615 0.00 0.00 36.86 4.00
3648 3667 7.283127 ACATATAGACAGCATAAAAACAGGTGG 59.717 37.037 0.00 0.00 35.24 4.61
3649 3668 2.558359 AGACAGCATAAAAACAGGTGGC 59.442 45.455 0.00 0.00 39.00 5.01
3650 3669 2.558359 GACAGCATAAAAACAGGTGGCT 59.442 45.455 0.00 0.00 35.95 4.75
3651 3670 2.965147 ACAGCATAAAAACAGGTGGCTT 59.035 40.909 0.00 0.00 35.24 4.35
3652 3671 3.387699 ACAGCATAAAAACAGGTGGCTTT 59.612 39.130 0.00 0.00 35.24 3.51
3653 3672 4.141733 ACAGCATAAAAACAGGTGGCTTTT 60.142 37.500 0.00 0.00 35.24 2.27
3654 3673 4.448732 CAGCATAAAAACAGGTGGCTTTTC 59.551 41.667 0.00 0.00 0.00 2.29
3655 3674 4.344968 AGCATAAAAACAGGTGGCTTTTCT 59.655 37.500 0.00 0.00 0.00 2.52
3656 3675 5.056480 GCATAAAAACAGGTGGCTTTTCTT 58.944 37.500 0.00 0.00 0.00 2.52
3657 3676 5.527214 GCATAAAAACAGGTGGCTTTTCTTT 59.473 36.000 0.00 0.00 0.00 2.52
3658 3677 6.292865 GCATAAAAACAGGTGGCTTTTCTTTC 60.293 38.462 0.00 0.00 0.00 2.62
3659 3678 5.420725 AAAAACAGGTGGCTTTTCTTTCT 57.579 34.783 0.00 0.00 0.00 2.52
3660 3679 5.420725 AAAACAGGTGGCTTTTCTTTCTT 57.579 34.783 0.00 0.00 0.00 2.52
3661 3680 6.538945 AAAACAGGTGGCTTTTCTTTCTTA 57.461 33.333 0.00 0.00 0.00 2.10
3662 3681 6.538945 AAACAGGTGGCTTTTCTTTCTTAA 57.461 33.333 0.00 0.00 0.00 1.85
3663 3682 5.774498 ACAGGTGGCTTTTCTTTCTTAAG 57.226 39.130 0.00 0.00 0.00 1.85
3664 3683 5.201243 ACAGGTGGCTTTTCTTTCTTAAGT 58.799 37.500 1.63 0.00 32.98 2.24
3665 3684 5.656859 ACAGGTGGCTTTTCTTTCTTAAGTT 59.343 36.000 1.63 0.00 32.98 2.66
3666 3685 6.154534 ACAGGTGGCTTTTCTTTCTTAAGTTT 59.845 34.615 1.63 0.00 32.98 2.66
3667 3686 6.476706 CAGGTGGCTTTTCTTTCTTAAGTTTG 59.523 38.462 1.63 0.00 32.98 2.93
3668 3687 6.154534 AGGTGGCTTTTCTTTCTTAAGTTTGT 59.845 34.615 1.63 0.00 32.98 2.83
3669 3688 6.816640 GGTGGCTTTTCTTTCTTAAGTTTGTT 59.183 34.615 1.63 0.00 32.98 2.83
3670 3689 7.333423 GGTGGCTTTTCTTTCTTAAGTTTGTTT 59.667 33.333 1.63 0.00 32.98 2.83
3671 3690 9.361315 GTGGCTTTTCTTTCTTAAGTTTGTTTA 57.639 29.630 1.63 0.00 32.98 2.01
3711 3730 8.947055 ATGGTATAACAAGATCAAATTTTGGC 57.053 30.769 9.18 2.67 0.00 4.52
3712 3731 8.133024 TGGTATAACAAGATCAAATTTTGGCT 57.867 30.769 9.18 4.78 0.00 4.75
3713 3732 8.034215 TGGTATAACAAGATCAAATTTTGGCTG 58.966 33.333 9.18 4.73 0.00 4.85
3714 3733 7.492344 GGTATAACAAGATCAAATTTTGGCTGG 59.508 37.037 9.18 7.34 0.00 4.85
3715 3734 5.549742 AACAAGATCAAATTTTGGCTGGA 57.450 34.783 9.18 0.00 0.00 3.86
3716 3735 5.549742 ACAAGATCAAATTTTGGCTGGAA 57.450 34.783 9.18 0.00 0.00 3.53
3717 3736 5.544650 ACAAGATCAAATTTTGGCTGGAAG 58.455 37.500 9.18 2.90 0.00 3.46
3718 3737 5.305128 ACAAGATCAAATTTTGGCTGGAAGA 59.695 36.000 9.18 0.00 34.07 2.87
3719 3738 5.656213 AGATCAAATTTTGGCTGGAAGAG 57.344 39.130 9.18 0.00 34.07 2.85
3720 3739 4.465305 AGATCAAATTTTGGCTGGAAGAGG 59.535 41.667 9.18 0.00 34.07 3.69
3721 3740 3.843422 TCAAATTTTGGCTGGAAGAGGA 58.157 40.909 9.18 0.00 34.07 3.71
3722 3741 3.828451 TCAAATTTTGGCTGGAAGAGGAG 59.172 43.478 9.18 0.00 34.07 3.69
3723 3742 3.532641 AATTTTGGCTGGAAGAGGAGT 57.467 42.857 0.00 0.00 34.07 3.85
3724 3743 4.657814 AATTTTGGCTGGAAGAGGAGTA 57.342 40.909 0.00 0.00 34.07 2.59
3725 3744 3.703001 TTTTGGCTGGAAGAGGAGTAG 57.297 47.619 0.00 0.00 34.07 2.57
3726 3745 2.623418 TTGGCTGGAAGAGGAGTAGA 57.377 50.000 0.00 0.00 34.07 2.59
3727 3746 1.853963 TGGCTGGAAGAGGAGTAGAC 58.146 55.000 0.00 0.00 34.07 2.59
3728 3747 1.077169 TGGCTGGAAGAGGAGTAGACA 59.923 52.381 0.00 0.00 34.07 3.41
3729 3748 2.292521 TGGCTGGAAGAGGAGTAGACAT 60.293 50.000 0.00 0.00 34.07 3.06
3730 3749 2.102252 GGCTGGAAGAGGAGTAGACATG 59.898 54.545 0.00 0.00 34.07 3.21
3731 3750 2.102252 GCTGGAAGAGGAGTAGACATGG 59.898 54.545 0.00 0.00 34.07 3.66
3732 3751 2.102252 CTGGAAGAGGAGTAGACATGGC 59.898 54.545 0.00 0.00 34.07 4.40
3733 3752 1.414550 GGAAGAGGAGTAGACATGGCC 59.585 57.143 0.00 0.00 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1987 2003 1.144969 GTCGGTCAAATCGTCTGCAA 58.855 50.000 0.00 0.00 0.00 4.08
2158 2174 3.630312 AGTTTCCTTAACTCTTTGCGCAA 59.370 39.130 21.02 21.02 43.67 4.85
2817 2835 1.270839 CCTCCGATGACAACACCAAGT 60.271 52.381 0.00 0.00 0.00 3.16
2818 2836 1.442769 CCTCCGATGACAACACCAAG 58.557 55.000 0.00 0.00 0.00 3.61
2819 2837 0.605319 GCCTCCGATGACAACACCAA 60.605 55.000 0.00 0.00 0.00 3.67
2820 2838 1.003839 GCCTCCGATGACAACACCA 60.004 57.895 0.00 0.00 0.00 4.17
2821 2839 1.021390 CAGCCTCCGATGACAACACC 61.021 60.000 0.00 0.00 0.00 4.16
2822 2840 0.320771 ACAGCCTCCGATGACAACAC 60.321 55.000 0.00 0.00 0.00 3.32
2823 2841 0.396435 AACAGCCTCCGATGACAACA 59.604 50.000 0.00 0.00 0.00 3.33
2862 2880 3.474570 ATCCCTCTGGCAGGCGTC 61.475 66.667 15.73 0.00 41.80 5.19
2867 2886 0.609957 TTGCAACATCCCTCTGGCAG 60.610 55.000 8.58 8.58 32.31 4.85
2872 2891 2.885135 TGACATTGCAACATCCCTCT 57.115 45.000 0.00 0.00 0.00 3.69
2895 2914 3.148279 GGGGAGATCCGCGAGTGT 61.148 66.667 8.23 0.00 39.23 3.55
2917 2936 2.106074 TTGCATTGTAGCTCCGCCG 61.106 57.895 0.00 0.00 34.99 6.46
2919 2938 0.179189 GTGTTGCATTGTAGCTCCGC 60.179 55.000 0.00 0.00 34.99 5.54
2927 2946 5.346383 CAGCACCTCTTGTGTTGCATTGT 62.346 47.826 0.00 0.00 46.92 2.71
2968 2987 1.723870 CATTACAGCTTCTGCCGCC 59.276 57.895 0.00 0.00 40.80 6.13
2972 2991 1.466360 CCGTTGCATTACAGCTTCTGC 60.466 52.381 0.00 0.00 34.37 4.26
3013 3032 2.674033 TTGCATTGCAGCTCCGCT 60.674 55.556 11.76 0.00 40.61 5.52
3032 3051 1.808531 CGTGTCCCGTCACCACCTTA 61.809 60.000 0.00 0.00 35.18 2.69
3033 3052 2.826702 GTGTCCCGTCACCACCTT 59.173 61.111 0.00 0.00 32.81 3.50
3034 3053 3.612681 CGTGTCCCGTCACCACCT 61.613 66.667 0.00 0.00 35.18 4.00
3093 3112 1.282570 CGCCACAAACGTGCAGAAT 59.717 52.632 0.00 0.00 32.73 2.40
3095 3114 3.276091 CCGCCACAAACGTGCAGA 61.276 61.111 0.00 0.00 32.73 4.26
3104 3123 2.282391 ATTGCAGCTCCGCCACAA 60.282 55.556 0.00 0.00 0.00 3.33
3105 3124 3.057548 CATTGCAGCTCCGCCACA 61.058 61.111 0.00 0.00 0.00 4.17
3117 3136 2.209315 ACCACCCCAGTTGCATTGC 61.209 57.895 0.46 0.46 0.00 3.56
3152 3171 2.362120 GCATTGCAGCTCCACCCT 60.362 61.111 3.15 0.00 0.00 4.34
3175 3194 1.908793 AGGAGGTCACGACACCCAG 60.909 63.158 0.00 0.00 37.09 4.45
3182 3201 1.674651 CGAGGTCAGGAGGTCACGA 60.675 63.158 0.00 0.00 0.00 4.35
3184 3203 2.276116 TGCGAGGTCAGGAGGTCAC 61.276 63.158 0.00 0.00 0.00 3.67
3231 3250 0.255890 TCTCCCCCATAGCAAACAGC 59.744 55.000 0.00 0.00 46.19 4.40
3232 3251 2.173356 TCATCTCCCCCATAGCAAACAG 59.827 50.000 0.00 0.00 0.00 3.16
3233 3252 2.173356 CTCATCTCCCCCATAGCAAACA 59.827 50.000 0.00 0.00 0.00 2.83
3234 3253 2.173569 ACTCATCTCCCCCATAGCAAAC 59.826 50.000 0.00 0.00 0.00 2.93
3235 3254 2.173356 CACTCATCTCCCCCATAGCAAA 59.827 50.000 0.00 0.00 0.00 3.68
3236 3255 1.770658 CACTCATCTCCCCCATAGCAA 59.229 52.381 0.00 0.00 0.00 3.91
3237 3256 1.427809 CACTCATCTCCCCCATAGCA 58.572 55.000 0.00 0.00 0.00 3.49
3238 3257 0.689623 CCACTCATCTCCCCCATAGC 59.310 60.000 0.00 0.00 0.00 2.97
3239 3258 2.109229 ACCACTCATCTCCCCCATAG 57.891 55.000 0.00 0.00 0.00 2.23
3240 3259 2.509548 CAAACCACTCATCTCCCCCATA 59.490 50.000 0.00 0.00 0.00 2.74
3241 3260 1.285962 CAAACCACTCATCTCCCCCAT 59.714 52.381 0.00 0.00 0.00 4.00
3242 3261 0.698238 CAAACCACTCATCTCCCCCA 59.302 55.000 0.00 0.00 0.00 4.96
3243 3262 0.698818 ACAAACCACTCATCTCCCCC 59.301 55.000 0.00 0.00 0.00 5.40
3244 3263 2.162681 CAACAAACCACTCATCTCCCC 58.837 52.381 0.00 0.00 0.00 4.81
3245 3264 2.554032 CACAACAAACCACTCATCTCCC 59.446 50.000 0.00 0.00 0.00 4.30
3246 3265 2.554032 CCACAACAAACCACTCATCTCC 59.446 50.000 0.00 0.00 0.00 3.71
3247 3266 2.030805 GCCACAACAAACCACTCATCTC 60.031 50.000 0.00 0.00 0.00 2.75
3248 3267 1.956477 GCCACAACAAACCACTCATCT 59.044 47.619 0.00 0.00 0.00 2.90
3249 3268 1.000274 GGCCACAACAAACCACTCATC 60.000 52.381 0.00 0.00 0.00 2.92
3250 3269 1.039856 GGCCACAACAAACCACTCAT 58.960 50.000 0.00 0.00 0.00 2.90
3251 3270 1.380403 CGGCCACAACAAACCACTCA 61.380 55.000 2.24 0.00 0.00 3.41
3252 3271 1.358759 CGGCCACAACAAACCACTC 59.641 57.895 2.24 0.00 0.00 3.51
3253 3272 2.124693 CCGGCCACAACAAACCACT 61.125 57.895 2.24 0.00 0.00 4.00
3254 3273 2.415426 CCGGCCACAACAAACCAC 59.585 61.111 2.24 0.00 0.00 4.16
3255 3274 2.043852 ACCGGCCACAACAAACCA 60.044 55.556 0.00 0.00 0.00 3.67
3256 3275 2.415426 CACCGGCCACAACAAACC 59.585 61.111 0.00 0.00 0.00 3.27
3257 3276 2.279186 GCACCGGCCACAACAAAC 60.279 61.111 0.00 0.00 0.00 2.93
3258 3277 3.893763 CGCACCGGCCACAACAAA 61.894 61.111 0.00 0.00 36.38 2.83
3273 3292 3.626680 TACTGTCTCGTGCAGCCGC 62.627 63.158 0.00 0.00 37.47 6.53
3274 3293 1.515088 CTACTGTCTCGTGCAGCCG 60.515 63.158 0.00 0.00 37.47 5.52
3275 3294 1.153745 CCTACTGTCTCGTGCAGCC 60.154 63.158 0.00 0.00 37.47 4.85
3276 3295 0.456995 GTCCTACTGTCTCGTGCAGC 60.457 60.000 0.00 0.00 37.47 5.25
3277 3296 0.179187 CGTCCTACTGTCTCGTGCAG 60.179 60.000 0.00 7.17 39.67 4.41
3278 3297 1.583495 CCGTCCTACTGTCTCGTGCA 61.583 60.000 0.00 0.00 0.00 4.57
3279 3298 1.136984 CCGTCCTACTGTCTCGTGC 59.863 63.158 0.00 0.00 0.00 5.34
3280 3299 1.136984 GCCGTCCTACTGTCTCGTG 59.863 63.158 0.00 0.00 0.00 4.35
3288 3307 4.078516 GCCAACGGCCGTCCTACT 62.079 66.667 34.29 13.45 44.06 2.57
3332 3351 1.428869 AACTGAACCCTGTCTCTGCT 58.571 50.000 0.00 0.00 0.00 4.24
3340 3359 1.538849 GGCTGCAAAAACTGAACCCTG 60.539 52.381 0.50 0.00 0.00 4.45
3342 3361 0.597377 CGGCTGCAAAAACTGAACCC 60.597 55.000 0.50 0.00 0.00 4.11
3383 3402 1.209504 CCCGATTTGCTCCAAGTAGGA 59.790 52.381 2.15 0.00 46.75 2.94
3385 3404 1.017387 GCCCGATTTGCTCCAAGTAG 58.983 55.000 0.00 0.00 0.00 2.57
3386 3405 0.326595 TGCCCGATTTGCTCCAAGTA 59.673 50.000 0.00 0.00 0.00 2.24
3387 3406 0.962356 CTGCCCGATTTGCTCCAAGT 60.962 55.000 0.00 0.00 0.00 3.16
3388 3407 1.805254 CTGCCCGATTTGCTCCAAG 59.195 57.895 0.00 0.00 0.00 3.61
3389 3408 2.342650 GCTGCCCGATTTGCTCCAA 61.343 57.895 0.00 0.00 0.00 3.53
3408 3427 2.324330 TTGGATGAGGCGTTGCACG 61.324 57.895 4.61 4.61 45.88 5.34
3462 3481 4.865761 TGCTACGCGTCATCCGGC 62.866 66.667 18.63 12.29 36.94 6.13
3491 3510 9.559732 CCTCCAACAAATGATGTAGATGTATAA 57.440 33.333 0.00 0.00 42.99 0.98
3492 3511 8.156820 CCCTCCAACAAATGATGTAGATGTATA 58.843 37.037 0.00 0.00 42.99 1.47
3493 3512 7.000472 CCCTCCAACAAATGATGTAGATGTAT 59.000 38.462 0.00 0.00 42.99 2.29
3494 3513 6.356556 CCCTCCAACAAATGATGTAGATGTA 58.643 40.000 0.00 0.00 42.99 2.29
3495 3514 5.195940 CCCTCCAACAAATGATGTAGATGT 58.804 41.667 0.00 0.00 42.99 3.06
3496 3515 4.581824 CCCCTCCAACAAATGATGTAGATG 59.418 45.833 0.00 0.00 42.99 2.90
3497 3516 4.796606 CCCCTCCAACAAATGATGTAGAT 58.203 43.478 0.00 0.00 42.99 1.98
3498 3517 3.624707 GCCCCTCCAACAAATGATGTAGA 60.625 47.826 0.00 0.00 42.99 2.59
3499 3518 2.689983 GCCCCTCCAACAAATGATGTAG 59.310 50.000 0.00 0.00 42.99 2.74
3500 3519 2.733956 GCCCCTCCAACAAATGATGTA 58.266 47.619 0.00 0.00 42.99 2.29
3501 3520 1.560505 GCCCCTCCAACAAATGATGT 58.439 50.000 0.00 0.00 46.82 3.06
3502 3521 0.457035 CGCCCCTCCAACAAATGATG 59.543 55.000 0.00 0.00 0.00 3.07
3503 3522 0.039618 ACGCCCCTCCAACAAATGAT 59.960 50.000 0.00 0.00 0.00 2.45
3504 3523 0.178975 AACGCCCCTCCAACAAATGA 60.179 50.000 0.00 0.00 0.00 2.57
3505 3524 0.678950 AAACGCCCCTCCAACAAATG 59.321 50.000 0.00 0.00 0.00 2.32
3506 3525 1.419381 AAAACGCCCCTCCAACAAAT 58.581 45.000 0.00 0.00 0.00 2.32
3507 3526 1.196012 AAAAACGCCCCTCCAACAAA 58.804 45.000 0.00 0.00 0.00 2.83
3508 3527 2.903404 AAAAACGCCCCTCCAACAA 58.097 47.368 0.00 0.00 0.00 2.83
3509 3528 4.688770 AAAAACGCCCCTCCAACA 57.311 50.000 0.00 0.00 0.00 3.33
3552 3571 9.923143 CCAATTGATGATGCAGATGTATAAATT 57.077 29.630 7.12 0.00 0.00 1.82
3553 3572 9.304335 TCCAATTGATGATGCAGATGTATAAAT 57.696 29.630 7.12 0.00 0.00 1.40
3554 3573 8.694581 TCCAATTGATGATGCAGATGTATAAA 57.305 30.769 7.12 0.00 0.00 1.40
3555 3574 8.158789 TCTCCAATTGATGATGCAGATGTATAA 58.841 33.333 7.12 0.00 0.00 0.98
3556 3575 7.682628 TCTCCAATTGATGATGCAGATGTATA 58.317 34.615 7.12 0.00 0.00 1.47
3557 3576 6.540083 TCTCCAATTGATGATGCAGATGTAT 58.460 36.000 7.12 0.00 0.00 2.29
3558 3577 5.932455 TCTCCAATTGATGATGCAGATGTA 58.068 37.500 7.12 0.00 0.00 2.29
3559 3578 4.788679 TCTCCAATTGATGATGCAGATGT 58.211 39.130 7.12 0.00 0.00 3.06
3560 3579 5.703876 CATCTCCAATTGATGATGCAGATG 58.296 41.667 19.84 13.76 42.68 2.90
3561 3580 5.966742 CATCTCCAATTGATGATGCAGAT 57.033 39.130 19.84 8.19 42.68 2.90
3567 3586 7.504574 TGAATAACAGCATCTCCAATTGATGAT 59.495 33.333 7.12 7.13 42.68 2.45
3568 3587 6.829811 TGAATAACAGCATCTCCAATTGATGA 59.170 34.615 7.12 4.93 42.68 2.92
3569 3588 7.034685 TGAATAACAGCATCTCCAATTGATG 57.965 36.000 7.12 4.11 42.86 3.07
3570 3589 7.649533 TTGAATAACAGCATCTCCAATTGAT 57.350 32.000 7.12 0.00 0.00 2.57
3571 3590 7.649533 ATTGAATAACAGCATCTCCAATTGA 57.350 32.000 7.12 0.00 0.00 2.57
3572 3591 8.126871 CAATTGAATAACAGCATCTCCAATTG 57.873 34.615 0.00 0.00 41.31 2.32
3573 3592 7.762615 CACAATTGAATAACAGCATCTCCAATT 59.237 33.333 13.59 0.00 34.51 2.32
3574 3593 7.262772 CACAATTGAATAACAGCATCTCCAAT 58.737 34.615 13.59 0.00 0.00 3.16
3575 3594 6.350361 CCACAATTGAATAACAGCATCTCCAA 60.350 38.462 13.59 0.00 0.00 3.53
3576 3595 5.125900 CCACAATTGAATAACAGCATCTCCA 59.874 40.000 13.59 0.00 0.00 3.86
3577 3596 5.357878 TCCACAATTGAATAACAGCATCTCC 59.642 40.000 13.59 0.00 0.00 3.71
3578 3597 6.441093 TCCACAATTGAATAACAGCATCTC 57.559 37.500 13.59 0.00 0.00 2.75
3579 3598 6.623549 CGTTCCACAATTGAATAACAGCATCT 60.624 38.462 13.59 0.00 0.00 2.90
3580 3599 5.512788 CGTTCCACAATTGAATAACAGCATC 59.487 40.000 13.59 0.00 0.00 3.91
3581 3600 5.401550 CGTTCCACAATTGAATAACAGCAT 58.598 37.500 13.59 0.00 0.00 3.79
3582 3601 4.793071 CGTTCCACAATTGAATAACAGCA 58.207 39.130 13.59 0.00 0.00 4.41
3583 3602 3.608073 GCGTTCCACAATTGAATAACAGC 59.392 43.478 13.59 14.38 0.00 4.40
3584 3603 4.853196 CAGCGTTCCACAATTGAATAACAG 59.147 41.667 13.59 9.65 0.00 3.16
3585 3604 4.320861 CCAGCGTTCCACAATTGAATAACA 60.321 41.667 13.59 0.00 0.00 2.41
3586 3605 4.165779 CCAGCGTTCCACAATTGAATAAC 58.834 43.478 13.59 11.16 0.00 1.89
3587 3606 3.366883 GCCAGCGTTCCACAATTGAATAA 60.367 43.478 13.59 0.00 0.00 1.40
3588 3607 2.163412 GCCAGCGTTCCACAATTGAATA 59.837 45.455 13.59 0.00 0.00 1.75
3589 3608 1.067635 GCCAGCGTTCCACAATTGAAT 60.068 47.619 13.59 0.00 0.00 2.57
3590 3609 0.313672 GCCAGCGTTCCACAATTGAA 59.686 50.000 13.59 0.00 0.00 2.69
3591 3610 1.523154 GGCCAGCGTTCCACAATTGA 61.523 55.000 13.59 0.00 0.00 2.57
3592 3611 1.080569 GGCCAGCGTTCCACAATTG 60.081 57.895 3.24 3.24 0.00 2.32
3593 3612 2.275380 GGGCCAGCGTTCCACAATT 61.275 57.895 4.39 0.00 0.00 2.32
3594 3613 2.676471 GGGCCAGCGTTCCACAAT 60.676 61.111 4.39 0.00 0.00 2.71
3595 3614 4.196778 TGGGCCAGCGTTCCACAA 62.197 61.111 0.00 0.00 0.00 3.33
3607 3626 2.335316 TATGTTTACGATGGTGGGCC 57.665 50.000 0.00 0.00 0.00 5.80
3608 3627 4.689345 GTCTATATGTTTACGATGGTGGGC 59.311 45.833 0.00 0.00 0.00 5.36
3609 3628 5.849510 TGTCTATATGTTTACGATGGTGGG 58.150 41.667 0.00 0.00 0.00 4.61
3610 3629 5.405571 GCTGTCTATATGTTTACGATGGTGG 59.594 44.000 0.00 0.00 0.00 4.61
3611 3630 5.983118 TGCTGTCTATATGTTTACGATGGTG 59.017 40.000 0.00 0.00 0.00 4.17
3612 3631 6.156748 TGCTGTCTATATGTTTACGATGGT 57.843 37.500 0.00 0.00 0.00 3.55
3613 3632 8.757164 TTATGCTGTCTATATGTTTACGATGG 57.243 34.615 0.00 0.00 0.00 3.51
3620 3639 9.243105 ACCTGTTTTTATGCTGTCTATATGTTT 57.757 29.630 0.00 0.00 0.00 2.83
3621 3640 8.677300 CACCTGTTTTTATGCTGTCTATATGTT 58.323 33.333 0.00 0.00 0.00 2.71
3622 3641 7.283127 CCACCTGTTTTTATGCTGTCTATATGT 59.717 37.037 0.00 0.00 0.00 2.29
3623 3642 7.642669 CCACCTGTTTTTATGCTGTCTATATG 58.357 38.462 0.00 0.00 0.00 1.78
3624 3643 6.263168 GCCACCTGTTTTTATGCTGTCTATAT 59.737 38.462 0.00 0.00 0.00 0.86
3625 3644 5.588648 GCCACCTGTTTTTATGCTGTCTATA 59.411 40.000 0.00 0.00 0.00 1.31
3626 3645 4.399303 GCCACCTGTTTTTATGCTGTCTAT 59.601 41.667 0.00 0.00 0.00 1.98
3627 3646 3.756434 GCCACCTGTTTTTATGCTGTCTA 59.244 43.478 0.00 0.00 0.00 2.59
3628 3647 2.558359 GCCACCTGTTTTTATGCTGTCT 59.442 45.455 0.00 0.00 0.00 3.41
3629 3648 2.558359 AGCCACCTGTTTTTATGCTGTC 59.442 45.455 0.00 0.00 0.00 3.51
3630 3649 2.597455 AGCCACCTGTTTTTATGCTGT 58.403 42.857 0.00 0.00 0.00 4.40
3631 3650 3.665745 AAGCCACCTGTTTTTATGCTG 57.334 42.857 0.00 0.00 0.00 4.41
3632 3651 4.344968 AGAAAAGCCACCTGTTTTTATGCT 59.655 37.500 0.00 0.00 0.00 3.79
3633 3652 4.631131 AGAAAAGCCACCTGTTTTTATGC 58.369 39.130 0.00 0.00 0.00 3.14
3634 3653 6.986231 AGAAAGAAAAGCCACCTGTTTTTATG 59.014 34.615 0.00 0.00 0.00 1.90
3635 3654 7.124573 AGAAAGAAAAGCCACCTGTTTTTAT 57.875 32.000 0.00 0.00 0.00 1.40
3636 3655 6.538945 AGAAAGAAAAGCCACCTGTTTTTA 57.461 33.333 0.00 0.00 0.00 1.52
3637 3656 5.420725 AGAAAGAAAAGCCACCTGTTTTT 57.579 34.783 0.00 0.00 0.00 1.94
3638 3657 5.420725 AAGAAAGAAAAGCCACCTGTTTT 57.579 34.783 0.00 0.00 0.00 2.43
3639 3658 6.154534 ACTTAAGAAAGAAAAGCCACCTGTTT 59.845 34.615 10.09 0.00 36.50 2.83
3640 3659 5.656859 ACTTAAGAAAGAAAAGCCACCTGTT 59.343 36.000 10.09 0.00 36.50 3.16
3641 3660 5.201243 ACTTAAGAAAGAAAAGCCACCTGT 58.799 37.500 10.09 0.00 36.50 4.00
3642 3661 5.774498 ACTTAAGAAAGAAAAGCCACCTG 57.226 39.130 10.09 0.00 36.50 4.00
3643 3662 6.154534 ACAAACTTAAGAAAGAAAAGCCACCT 59.845 34.615 10.09 0.00 36.50 4.00
3644 3663 6.338146 ACAAACTTAAGAAAGAAAAGCCACC 58.662 36.000 10.09 0.00 36.50 4.61
3645 3664 7.827819 AACAAACTTAAGAAAGAAAAGCCAC 57.172 32.000 10.09 0.00 36.50 5.01
3685 3704 9.034544 GCCAAAATTTGATCTTGTTATACCATC 57.965 33.333 7.37 0.00 0.00 3.51
3686 3705 8.761689 AGCCAAAATTTGATCTTGTTATACCAT 58.238 29.630 7.37 0.00 0.00 3.55
3687 3706 8.034215 CAGCCAAAATTTGATCTTGTTATACCA 58.966 33.333 7.37 0.00 0.00 3.25
3688 3707 7.492344 CCAGCCAAAATTTGATCTTGTTATACC 59.508 37.037 7.37 0.00 0.00 2.73
3689 3708 8.250332 TCCAGCCAAAATTTGATCTTGTTATAC 58.750 33.333 7.37 0.00 0.00 1.47
3690 3709 8.359875 TCCAGCCAAAATTTGATCTTGTTATA 57.640 30.769 7.37 0.00 0.00 0.98
3691 3710 7.243604 TCCAGCCAAAATTTGATCTTGTTAT 57.756 32.000 7.37 0.00 0.00 1.89
3692 3711 6.662865 TCCAGCCAAAATTTGATCTTGTTA 57.337 33.333 7.37 0.00 0.00 2.41
3693 3712 5.549742 TCCAGCCAAAATTTGATCTTGTT 57.450 34.783 7.37 0.00 0.00 2.83
3694 3713 5.305128 TCTTCCAGCCAAAATTTGATCTTGT 59.695 36.000 7.37 0.00 0.00 3.16
3695 3714 5.786311 TCTTCCAGCCAAAATTTGATCTTG 58.214 37.500 7.37 0.83 0.00 3.02
3696 3715 5.046807 CCTCTTCCAGCCAAAATTTGATCTT 60.047 40.000 7.37 0.00 0.00 2.40
3697 3716 4.465305 CCTCTTCCAGCCAAAATTTGATCT 59.535 41.667 7.37 1.23 0.00 2.75
3698 3717 4.463891 TCCTCTTCCAGCCAAAATTTGATC 59.536 41.667 7.37 0.00 0.00 2.92
3699 3718 4.419282 TCCTCTTCCAGCCAAAATTTGAT 58.581 39.130 7.37 0.00 0.00 2.57
3700 3719 3.828451 CTCCTCTTCCAGCCAAAATTTGA 59.172 43.478 7.37 0.00 0.00 2.69
3701 3720 3.575687 ACTCCTCTTCCAGCCAAAATTTG 59.424 43.478 0.00 0.00 0.00 2.32
3702 3721 3.849527 ACTCCTCTTCCAGCCAAAATTT 58.150 40.909 0.00 0.00 0.00 1.82
3703 3722 3.532641 ACTCCTCTTCCAGCCAAAATT 57.467 42.857 0.00 0.00 0.00 1.82
3704 3723 3.846588 TCTACTCCTCTTCCAGCCAAAAT 59.153 43.478 0.00 0.00 0.00 1.82
3705 3724 3.008049 GTCTACTCCTCTTCCAGCCAAAA 59.992 47.826 0.00 0.00 0.00 2.44
3706 3725 2.567615 GTCTACTCCTCTTCCAGCCAAA 59.432 50.000 0.00 0.00 0.00 3.28
3707 3726 2.180276 GTCTACTCCTCTTCCAGCCAA 58.820 52.381 0.00 0.00 0.00 4.52
3708 3727 1.077169 TGTCTACTCCTCTTCCAGCCA 59.923 52.381 0.00 0.00 0.00 4.75
3709 3728 1.853963 TGTCTACTCCTCTTCCAGCC 58.146 55.000 0.00 0.00 0.00 4.85
3710 3729 2.102252 CCATGTCTACTCCTCTTCCAGC 59.898 54.545 0.00 0.00 0.00 4.85
3711 3730 2.102252 GCCATGTCTACTCCTCTTCCAG 59.898 54.545 0.00 0.00 0.00 3.86
3712 3731 2.111384 GCCATGTCTACTCCTCTTCCA 58.889 52.381 0.00 0.00 0.00 3.53
3713 3732 1.414550 GGCCATGTCTACTCCTCTTCC 59.585 57.143 0.00 0.00 0.00 3.46
3714 3733 2.900716 GGCCATGTCTACTCCTCTTC 57.099 55.000 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.