Multiple sequence alignment - TraesCS2A01G359300

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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 TraesCS2A01G359300 chr2A 100.000 3587 0 0 1 3587 603373838 603377424 0.000000e+00 6625
1 TraesCS2A01G359300 chr2A 82.840 1183 157 30 1426 2585 603546128 603547287 0.000000e+00 1018
2 TraesCS2A01G359300 chr2D 94.113 2701 97 24 58 2746 460363822 460366472 0.000000e+00 4050
3 TraesCS2A01G359300 chr2D 83.545 1179 150 26 1426 2585 460709511 460710664 0.000000e+00 1062
4 TraesCS2A01G359300 chr2D 85.164 701 77 11 2899 3587 460567945 460568630 0.000000e+00 693
5 TraesCS2A01G359300 chr2D 72.777 731 150 38 1634 2347 621947952 621947254 6.070000e-48 202
6 TraesCS2A01G359300 chr2B 92.528 2369 100 41 446 2793 541631334 541633646 0.000000e+00 3323
7 TraesCS2A01G359300 chr2B 84.139 1179 143 27 1426 2585 541907061 541908214 0.000000e+00 1101
8 TraesCS2A01G359300 chr2B 86.453 406 16 13 10 409 541630793 541631165 3.330000e-110 409
9 TraesCS2A01G359300 chr2B 78.628 379 48 11 2886 3248 541635040 541635401 1.680000e-53 220


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 TraesCS2A01G359300 chr2A 603373838 603377424 3586 False 6625.000000 6625 100.000000 1 3587 1 chr2A.!!$F1 3586
1 TraesCS2A01G359300 chr2A 603546128 603547287 1159 False 1018.000000 1018 82.840000 1426 2585 1 chr2A.!!$F2 1159
2 TraesCS2A01G359300 chr2D 460363822 460366472 2650 False 4050.000000 4050 94.113000 58 2746 1 chr2D.!!$F1 2688
3 TraesCS2A01G359300 chr2D 460709511 460710664 1153 False 1062.000000 1062 83.545000 1426 2585 1 chr2D.!!$F3 1159
4 TraesCS2A01G359300 chr2D 460567945 460568630 685 False 693.000000 693 85.164000 2899 3587 1 chr2D.!!$F2 688
5 TraesCS2A01G359300 chr2D 621947254 621947952 698 True 202.000000 202 72.777000 1634 2347 1 chr2D.!!$R1 713
6 TraesCS2A01G359300 chr2B 541630793 541635401 4608 False 1317.333333 3323 85.869667 10 3248 3 chr2B.!!$F2 3238
7 TraesCS2A01G359300 chr2B 541907061 541908214 1153 False 1101.000000 1101 84.139000 1426 2585 1 chr2B.!!$F1 1159

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
501 652 0.032678 AAGGAGACACAGACACGCAG 59.967 55.0 0.0 0.0 0.00 5.18 F
503 654 0.249489 GGAGACACAGACACGCAGTT 60.249 55.0 0.0 0.0 41.61 3.16 F
505 656 0.530650 AGACACAGACACGCAGTTGG 60.531 55.0 0.0 0.0 41.61 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1573 1753 0.475828 AAGCCCAGGTAGGAGGTGTT 60.476 55.000 0.0 0.0 41.22 3.32 R
2460 2643 1.255667 TGACGGGGCAGTAGGTCTTC 61.256 60.000 0.0 0.0 0.00 2.87 R
2649 2847 3.443045 CGCACAGCACATTCCCCC 61.443 66.667 0.0 0.0 0.00 5.40 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
52 53 1.396996 CGTCGGTTTTGGCCAGATTAG 59.603 52.381 5.11 0.00 0.00 1.73
54 55 2.418976 GTCGGTTTTGGCCAGATTAGAC 59.581 50.000 5.11 11.04 0.00 2.59
56 57 2.706890 GGTTTTGGCCAGATTAGACGA 58.293 47.619 5.11 0.00 0.00 4.20
75 76 1.278699 GAGGAGGAGGATGCATGGATC 59.721 57.143 18.22 18.22 0.00 3.36
111 112 5.151389 TGTACGTGAATATAGTAGCATGCG 58.849 41.667 13.01 0.00 0.00 4.73
192 193 4.012895 GCACTCGCAACCACCGTG 62.013 66.667 0.00 0.00 38.36 4.94
193 194 3.345808 CACTCGCAACCACCGTGG 61.346 66.667 16.47 16.47 45.02 4.94
214 216 1.064979 CATGTAACCACCACCCTACCC 60.065 57.143 0.00 0.00 0.00 3.69
239 241 2.864343 GCATGTACGCTACCAAAGTAGG 59.136 50.000 0.00 0.00 45.29 3.18
240 242 3.429822 GCATGTACGCTACCAAAGTAGGA 60.430 47.826 0.00 0.00 45.29 2.94
241 243 4.360563 CATGTACGCTACCAAAGTAGGAG 58.639 47.826 2.67 0.00 45.29 3.69
242 244 3.424703 TGTACGCTACCAAAGTAGGAGT 58.575 45.455 2.67 0.00 45.29 3.85
243 245 4.588899 TGTACGCTACCAAAGTAGGAGTA 58.411 43.478 2.67 0.00 45.29 2.59
244 246 5.195940 TGTACGCTACCAAAGTAGGAGTAT 58.804 41.667 2.67 0.00 45.29 2.12
245 247 6.356556 TGTACGCTACCAAAGTAGGAGTATA 58.643 40.000 2.67 0.00 45.29 1.47
246 248 5.764487 ACGCTACCAAAGTAGGAGTATAC 57.236 43.478 0.00 0.00 45.29 1.47
247 249 5.444176 ACGCTACCAAAGTAGGAGTATACT 58.556 41.667 4.68 4.68 45.29 2.12
248 250 6.595682 ACGCTACCAAAGTAGGAGTATACTA 58.404 40.000 5.09 0.00 45.29 1.82
249 251 7.230027 ACGCTACCAAAGTAGGAGTATACTAT 58.770 38.462 5.09 0.17 45.29 2.12
250 252 8.378565 ACGCTACCAAAGTAGGAGTATACTATA 58.621 37.037 5.09 0.00 45.29 1.31
252 254 9.737844 GCTACCAAAGTAGGAGTATACTATACT 57.262 37.037 18.26 18.26 45.29 2.12
332 338 2.126071 GTGCTAGCCGACTTCGCA 60.126 61.111 13.29 0.00 38.18 5.10
350 356 2.281276 GGTGGAAGTTTCGCCGGT 60.281 61.111 1.90 0.00 0.00 5.28
351 357 1.895231 GGTGGAAGTTTCGCCGGTT 60.895 57.895 1.90 0.00 0.00 4.44
352 358 0.603439 GGTGGAAGTTTCGCCGGTTA 60.603 55.000 1.90 0.00 0.00 2.85
353 359 0.794473 GTGGAAGTTTCGCCGGTTAG 59.206 55.000 1.90 0.00 0.00 2.34
354 360 0.393820 TGGAAGTTTCGCCGGTTAGT 59.606 50.000 1.90 0.00 0.00 2.24
355 361 1.617850 TGGAAGTTTCGCCGGTTAGTA 59.382 47.619 1.90 0.00 0.00 1.82
356 362 2.265683 GGAAGTTTCGCCGGTTAGTAG 58.734 52.381 1.90 0.00 0.00 2.57
357 363 2.353109 GGAAGTTTCGCCGGTTAGTAGT 60.353 50.000 1.90 0.00 0.00 2.73
358 364 3.119495 GGAAGTTTCGCCGGTTAGTAGTA 60.119 47.826 1.90 0.00 0.00 1.82
359 365 3.494045 AGTTTCGCCGGTTAGTAGTAC 57.506 47.619 1.90 0.00 0.00 2.73
379 385 9.448294 GTAGTACTTAGTAATGAAATCGACCAG 57.552 37.037 0.00 0.00 0.00 4.00
418 565 1.352156 GGTGCGTCGGAGTTGATGAC 61.352 60.000 0.00 0.00 0.00 3.06
422 569 1.810030 GTCGGAGTTGATGACGCCC 60.810 63.158 0.00 0.00 44.57 6.13
423 570 2.264480 CGGAGTTGATGACGCCCA 59.736 61.111 0.00 0.00 44.57 5.36
492 643 6.630071 CCTTTTCTTTTTGAAAGGAGACACA 58.370 36.000 8.77 0.00 44.40 3.72
493 644 6.753744 CCTTTTCTTTTTGAAAGGAGACACAG 59.246 38.462 8.77 0.00 44.40 3.66
495 646 6.436843 TTCTTTTTGAAAGGAGACACAGAC 57.563 37.500 1.04 0.00 0.00 3.51
496 647 5.496556 TCTTTTTGAAAGGAGACACAGACA 58.503 37.500 1.04 0.00 0.00 3.41
497 648 5.354234 TCTTTTTGAAAGGAGACACAGACAC 59.646 40.000 1.04 0.00 0.00 3.67
498 649 2.509052 TGAAAGGAGACACAGACACG 57.491 50.000 0.00 0.00 0.00 4.49
499 650 1.140816 GAAAGGAGACACAGACACGC 58.859 55.000 0.00 0.00 0.00 5.34
500 651 0.464036 AAAGGAGACACAGACACGCA 59.536 50.000 0.00 0.00 0.00 5.24
501 652 0.032678 AAGGAGACACAGACACGCAG 59.967 55.000 0.00 0.00 0.00 5.18
503 654 0.249489 GGAGACACAGACACGCAGTT 60.249 55.000 0.00 0.00 41.61 3.16
504 655 0.855349 GAGACACAGACACGCAGTTG 59.145 55.000 0.00 0.00 41.61 3.16
505 656 0.530650 AGACACAGACACGCAGTTGG 60.531 55.000 0.00 0.00 41.61 3.77
506 657 0.810031 GACACAGACACGCAGTTGGT 60.810 55.000 0.00 0.00 41.61 3.67
538 689 0.744874 TTCGAGAATGGAGTAGCCCG 59.255 55.000 0.00 0.00 34.97 6.13
668 825 1.957562 CGTGGACTCAAGAGGTCGT 59.042 57.895 1.73 0.00 34.82 4.34
687 844 5.117287 GGTCGTAGATTCTGCATTATCGTTC 59.883 44.000 2.63 0.00 40.67 3.95
712 869 4.598257 CGGAAGGTGCGATGTCTT 57.402 55.556 0.00 0.00 30.86 3.01
732 889 2.212652 TGATCGATCAAGAAATGGCCG 58.787 47.619 25.44 0.00 33.08 6.13
776 933 1.002033 GCGACCAAATCTGGATGCATC 60.002 52.381 18.81 18.81 46.92 3.91
777 934 2.569059 CGACCAAATCTGGATGCATCT 58.431 47.619 25.28 3.34 46.92 2.90
778 935 3.732212 CGACCAAATCTGGATGCATCTA 58.268 45.455 25.28 19.20 46.92 1.98
779 936 4.321718 CGACCAAATCTGGATGCATCTAT 58.678 43.478 25.28 13.90 46.92 1.98
811 968 1.275471 CGCACGTGAGCTCTTCGAAA 61.275 55.000 28.14 2.30 0.00 3.46
848 1005 2.337583 CCACGGAATAGCACGGATATG 58.662 52.381 0.00 0.00 0.00 1.78
876 1033 1.134753 CCAACAAGCAACAAGACAGCA 59.865 47.619 0.00 0.00 0.00 4.41
941 1098 4.141688 CCCCAAGAGTAAATCCTCAGGTAC 60.142 50.000 0.00 0.00 33.75 3.34
973 1136 1.027357 ACAGGTTTCAGCAGCAACAG 58.973 50.000 0.00 0.00 0.00 3.16
976 1139 2.618241 CAGGTTTCAGCAGCAACAGTAA 59.382 45.455 0.00 0.00 0.00 2.24
978 1141 2.602217 GGTTTCAGCAGCAACAGTAACG 60.602 50.000 0.00 0.00 0.00 3.18
983 1146 0.794473 GCAGCAACAGTAACGGTACC 59.206 55.000 7.09 0.16 0.00 3.34
984 1147 1.874739 GCAGCAACAGTAACGGTACCA 60.875 52.381 13.54 0.00 0.00 3.25
985 1148 2.485903 CAGCAACAGTAACGGTACCAA 58.514 47.619 13.54 0.00 0.00 3.67
986 1149 2.222445 CAGCAACAGTAACGGTACCAAC 59.778 50.000 13.54 6.82 0.00 3.77
987 1150 1.192980 GCAACAGTAACGGTACCAACG 59.807 52.381 13.54 0.00 37.36 4.10
988 1151 1.794116 CAACAGTAACGGTACCAACGG 59.206 52.381 13.54 9.82 35.23 4.44
989 1152 1.039856 ACAGTAACGGTACCAACGGT 58.960 50.000 13.54 10.45 40.56 4.83
990 1153 1.269726 ACAGTAACGGTACCAACGGTG 60.270 52.381 13.54 5.89 38.96 4.94
1068 1231 2.131972 CAGCGCAGGCGTTTATATACA 58.868 47.619 11.47 0.00 46.35 2.29
1069 1232 2.736721 CAGCGCAGGCGTTTATATACAT 59.263 45.455 11.47 0.00 46.35 2.29
1070 1233 3.924073 CAGCGCAGGCGTTTATATACATA 59.076 43.478 11.47 0.00 46.35 2.29
1071 1234 3.924686 AGCGCAGGCGTTTATATACATAC 59.075 43.478 11.47 0.00 46.35 2.39
1227 1401 2.363683 GTGAGAGAGAAAATGGCAGGG 58.636 52.381 0.00 0.00 0.00 4.45
1230 1404 0.678048 GAGAGAAAATGGCAGGGCGT 60.678 55.000 0.00 0.00 0.00 5.68
1234 1408 3.281359 AAAATGGCAGGGCGTTCGC 62.281 57.895 8.75 8.75 0.00 4.70
1285 1459 3.776849 CGTCGTGCATTGCGCTCA 61.777 61.111 19.14 3.84 43.06 4.26
1376 1550 1.672356 GCATCGGGATTGGGATCGG 60.672 63.158 0.00 0.00 32.84 4.18
1377 1551 1.672356 CATCGGGATTGGGATCGGC 60.672 63.158 0.00 0.00 32.84 5.54
1378 1552 3.240134 ATCGGGATTGGGATCGGCG 62.240 63.158 0.00 0.00 32.84 6.46
1379 1553 4.988598 CGGGATTGGGATCGGCGG 62.989 72.222 7.21 0.00 32.84 6.13
1585 1765 0.674895 CTGCAGCAACACCTCCTACC 60.675 60.000 0.00 0.00 0.00 3.18
1603 1783 1.449246 CTGGGCTTCTTCTGCGAGG 60.449 63.158 0.00 0.00 0.00 4.63
1604 1784 2.821810 GGGCTTCTTCTGCGAGGC 60.822 66.667 0.00 0.00 35.50 4.70
1971 2154 1.749258 GTTCTCCGGCAACATCCCC 60.749 63.158 10.38 0.00 0.00 4.81
2347 2530 2.558554 CTACTTCACGTCGCTGGGGG 62.559 65.000 0.00 0.00 0.00 5.40
2403 2586 2.817834 GTCGCCCGCAACTGCATA 60.818 61.111 2.12 0.00 42.21 3.14
2649 2847 1.792949 GTACACGTGCTGGAAGACAAG 59.207 52.381 17.22 0.00 34.07 3.16
2673 2871 1.560004 AATGTGCTGTGCGTCTCGTG 61.560 55.000 0.00 0.00 0.00 4.35
2695 2893 4.389576 CTGCTTGGGTCGTTGCGC 62.390 66.667 0.00 0.00 0.00 6.09
2725 2923 5.107375 GGTTTGTGCTGATATTGTTTGCAAG 60.107 40.000 0.00 0.00 38.10 4.01
2783 2981 1.137086 CTACTACCAGCAAGGCGTGAT 59.863 52.381 4.11 0.00 43.14 3.06
2793 2991 5.277345 CCAGCAAGGCGTGATTAATAAGTAC 60.277 44.000 4.11 0.00 0.00 2.73
2794 2992 5.523916 CAGCAAGGCGTGATTAATAAGTACT 59.476 40.000 4.11 0.00 0.00 2.73
2795 2993 5.753921 AGCAAGGCGTGATTAATAAGTACTC 59.246 40.000 4.11 0.00 0.00 2.59
2796 2994 5.753921 GCAAGGCGTGATTAATAAGTACTCT 59.246 40.000 4.11 0.00 0.00 3.24
2797 2995 6.074249 GCAAGGCGTGATTAATAAGTACTCTC 60.074 42.308 4.11 0.00 0.00 3.20
2798 2996 6.963083 AGGCGTGATTAATAAGTACTCTCT 57.037 37.500 0.00 0.00 0.00 3.10
2799 2997 6.972722 AGGCGTGATTAATAAGTACTCTCTC 58.027 40.000 0.00 0.00 0.00 3.20
2800 2998 6.016108 AGGCGTGATTAATAAGTACTCTCTCC 60.016 42.308 0.00 0.00 0.00 3.71
2801 2999 5.852229 GCGTGATTAATAAGTACTCTCTCCG 59.148 44.000 0.00 0.00 0.00 4.63
2802 3000 6.513066 GCGTGATTAATAAGTACTCTCTCCGT 60.513 42.308 0.00 0.00 0.00 4.69
2803 3001 7.416022 CGTGATTAATAAGTACTCTCTCCGTT 58.584 38.462 0.00 0.00 0.00 4.44
2804 3002 7.587028 CGTGATTAATAAGTACTCTCTCCGTTC 59.413 40.741 0.00 0.00 0.00 3.95
2805 3003 7.861872 GTGATTAATAAGTACTCTCTCCGTTCC 59.138 40.741 0.00 0.00 0.00 3.62
2806 3004 4.897025 AATAAGTACTCTCTCCGTTCCG 57.103 45.455 0.00 0.00 0.00 4.30
2807 3005 2.486472 AAGTACTCTCTCCGTTCCGA 57.514 50.000 0.00 0.00 0.00 4.55
2808 3006 2.713863 AGTACTCTCTCCGTTCCGAT 57.286 50.000 0.00 0.00 0.00 4.18
2809 3007 3.002038 AGTACTCTCTCCGTTCCGATT 57.998 47.619 0.00 0.00 0.00 3.34
2810 3008 3.354467 AGTACTCTCTCCGTTCCGATTT 58.646 45.455 0.00 0.00 0.00 2.17
2811 3009 4.521146 AGTACTCTCTCCGTTCCGATTTA 58.479 43.478 0.00 0.00 0.00 1.40
2812 3010 3.779271 ACTCTCTCCGTTCCGATTTAC 57.221 47.619 0.00 0.00 0.00 2.01
2813 3011 3.354467 ACTCTCTCCGTTCCGATTTACT 58.646 45.455 0.00 0.00 0.00 2.24
2814 3012 3.762823 ACTCTCTCCGTTCCGATTTACTT 59.237 43.478 0.00 0.00 0.00 2.24
2815 3013 4.106029 TCTCTCCGTTCCGATTTACTTG 57.894 45.455 0.00 0.00 0.00 3.16
2816 3014 3.508793 TCTCTCCGTTCCGATTTACTTGT 59.491 43.478 0.00 0.00 0.00 3.16
2817 3015 3.841643 TCTCCGTTCCGATTTACTTGTC 58.158 45.455 0.00 0.00 0.00 3.18
2818 3016 3.508793 TCTCCGTTCCGATTTACTTGTCT 59.491 43.478 0.00 0.00 0.00 3.41
2819 3017 4.021719 TCTCCGTTCCGATTTACTTGTCTT 60.022 41.667 0.00 0.00 0.00 3.01
2820 3018 3.991773 TCCGTTCCGATTTACTTGTCTTG 59.008 43.478 0.00 0.00 0.00 3.02
2821 3019 3.991773 CCGTTCCGATTTACTTGTCTTGA 59.008 43.478 0.00 0.00 0.00 3.02
2822 3020 4.449743 CCGTTCCGATTTACTTGTCTTGAA 59.550 41.667 0.00 0.00 0.00 2.69
2823 3021 5.121768 CCGTTCCGATTTACTTGTCTTGAAT 59.878 40.000 0.00 0.00 0.00 2.57
2824 3022 6.348213 CCGTTCCGATTTACTTGTCTTGAATT 60.348 38.462 0.00 0.00 0.00 2.17
2825 3023 7.075741 CGTTCCGATTTACTTGTCTTGAATTT 58.924 34.615 0.00 0.00 0.00 1.82
2826 3024 8.225107 CGTTCCGATTTACTTGTCTTGAATTTA 58.775 33.333 0.00 0.00 0.00 1.40
2852 3050 9.780186 ATTTAGATAAGTAATTCGGAAAGGAGG 57.220 33.333 0.00 0.00 0.00 4.30
2853 3051 6.176014 AGATAAGTAATTCGGAAAGGAGGG 57.824 41.667 0.00 0.00 0.00 4.30
2854 3052 5.903589 AGATAAGTAATTCGGAAAGGAGGGA 59.096 40.000 0.00 0.00 0.00 4.20
2855 3053 4.489306 AAGTAATTCGGAAAGGAGGGAG 57.511 45.455 0.00 0.00 0.00 4.30
2856 3054 3.451890 AGTAATTCGGAAAGGAGGGAGT 58.548 45.455 0.00 0.00 0.00 3.85
2857 3055 4.617593 AGTAATTCGGAAAGGAGGGAGTA 58.382 43.478 0.00 0.00 0.00 2.59
2858 3056 4.650131 AGTAATTCGGAAAGGAGGGAGTAG 59.350 45.833 0.00 0.00 0.00 2.57
2859 3057 1.861982 TTCGGAAAGGAGGGAGTAGG 58.138 55.000 0.00 0.00 0.00 3.18
2860 3058 1.005228 TCGGAAAGGAGGGAGTAGGA 58.995 55.000 0.00 0.00 0.00 2.94
2861 3059 1.063867 TCGGAAAGGAGGGAGTAGGAG 60.064 57.143 0.00 0.00 0.00 3.69
2862 3060 1.796017 GGAAAGGAGGGAGTAGGAGG 58.204 60.000 0.00 0.00 0.00 4.30
2863 3061 1.008571 GGAAAGGAGGGAGTAGGAGGT 59.991 57.143 0.00 0.00 0.00 3.85
2864 3062 2.246849 GGAAAGGAGGGAGTAGGAGGTA 59.753 54.545 0.00 0.00 0.00 3.08
2865 3063 3.116668 GGAAAGGAGGGAGTAGGAGGTAT 60.117 52.174 0.00 0.00 0.00 2.73
2866 3064 3.621682 AAGGAGGGAGTAGGAGGTATG 57.378 52.381 0.00 0.00 0.00 2.39
2867 3065 2.803215 AGGAGGGAGTAGGAGGTATGA 58.197 52.381 0.00 0.00 0.00 2.15
2868 3066 3.350747 AGGAGGGAGTAGGAGGTATGAT 58.649 50.000 0.00 0.00 0.00 2.45
2890 3088 3.721868 GGGCAGTGGGCACTAGTA 58.278 61.111 0.00 0.00 44.81 1.82
2892 3090 0.976073 GGGCAGTGGGCACTAGTAGA 60.976 60.000 3.59 0.00 44.81 2.59
2893 3091 2.514493 GGGCAGTGGGCACTAGTAGAA 61.514 57.143 3.59 0.00 44.81 2.10
2894 3092 2.301577 GCAGTGGGCACTAGTAGAAG 57.698 55.000 3.59 0.00 43.97 2.85
3001 4579 3.234353 CAAGCTCTTTTCCCTCCCTTTT 58.766 45.455 0.00 0.00 0.00 2.27
3015 4593 1.599419 CCCTTTTGTTGCGCACAGTAC 60.599 52.381 11.12 6.23 36.48 2.73
3016 4594 1.064803 CCTTTTGTTGCGCACAGTACA 59.935 47.619 11.12 9.54 36.48 2.90
3017 4595 2.478709 CCTTTTGTTGCGCACAGTACAA 60.479 45.455 18.73 18.73 36.48 2.41
3019 4597 3.428746 TTTGTTGCGCACAGTACAAAT 57.571 38.095 26.13 0.00 36.05 2.32
3020 4598 3.428746 TTGTTGCGCACAGTACAAATT 57.571 38.095 19.97 0.00 36.48 1.82
3022 4600 2.098280 TGTTGCGCACAGTACAAATTGT 59.902 40.909 11.12 3.43 0.00 2.71
3023 4601 3.312697 TGTTGCGCACAGTACAAATTGTA 59.687 39.130 11.12 1.08 0.00 2.41
3024 4602 4.201920 TGTTGCGCACAGTACAAATTGTAA 60.202 37.500 11.12 0.00 34.21 2.41
3031 4609 6.795114 CGCACAGTACAAATTGTAAGTAAAGG 59.205 38.462 7.48 0.40 34.21 3.11
3050 4628 1.956170 CAACTCCAACGCGCTGACT 60.956 57.895 11.83 0.00 0.00 3.41
3055 4633 0.602638 TCCAACGCGCTGACTCAAAT 60.603 50.000 11.83 0.00 0.00 2.32
3061 4639 1.089920 GCGCTGACTCAAATGGACAT 58.910 50.000 0.00 0.00 0.00 3.06
3103 4691 2.671914 CGGTTAAAGATCGGTCGTCCAA 60.672 50.000 0.00 0.00 0.00 3.53
3126 4714 3.118775 CCGTGTCTATCCAAATCTGACCA 60.119 47.826 0.00 0.00 0.00 4.02
3174 4762 3.766051 GGTCCATCCAGCTGAATTCTTTT 59.234 43.478 17.39 0.00 35.97 2.27
3178 4766 5.047802 TCCATCCAGCTGAATTCTTTTGAAC 60.048 40.000 17.39 0.00 41.77 3.18
3220 4808 1.571773 AAGGTAATTCAGGGCCCGCT 61.572 55.000 18.44 0.00 0.00 5.52
3235 4823 1.811266 CGCTGCCGTAGTTCATGCT 60.811 57.895 0.00 0.00 0.00 3.79
3238 4826 1.725641 CTGCCGTAGTTCATGCTGAA 58.274 50.000 0.00 0.00 33.32 3.02
3248 4836 0.250252 TCATGCTGAAAGACGTGCCA 60.250 50.000 0.00 0.00 34.07 4.92
3249 4837 0.592637 CATGCTGAAAGACGTGCCAA 59.407 50.000 0.00 0.00 34.07 4.52
3250 4838 1.200716 CATGCTGAAAGACGTGCCAAT 59.799 47.619 0.00 0.00 34.07 3.16
3251 4839 0.592637 TGCTGAAAGACGTGCCAATG 59.407 50.000 0.00 0.00 34.07 2.82
3252 4840 0.109597 GCTGAAAGACGTGCCAATGG 60.110 55.000 0.00 0.00 34.07 3.16
3253 4841 0.109597 CTGAAAGACGTGCCAATGGC 60.110 55.000 18.95 18.95 43.77 4.40
3254 4842 2.484580 CTGAAAGACGTGCCAATGGCT 61.485 52.381 25.93 4.77 43.83 4.75
3255 4843 4.575812 CTGAAAGACGTGCCAATGGCTG 62.576 54.545 25.93 19.34 43.83 4.85
3266 4854 1.338973 CCAATGGCTGGCATACATGTC 59.661 52.381 17.59 0.00 38.76 3.06
3298 4886 2.346766 AATGCCATAGTTCATGCCGA 57.653 45.000 0.00 0.00 32.84 5.54
3307 4895 0.944386 GTTCATGCCGACACACTTGT 59.056 50.000 0.00 0.00 39.32 3.16
3314 4902 4.848685 GACACACTTGTCCGTGGT 57.151 55.556 0.00 0.00 45.77 4.16
3315 4903 3.074594 GACACACTTGTCCGTGGTT 57.925 52.632 0.00 0.00 45.77 3.67
3363 4953 2.759191 TCATACTTCATGCATCTCGGC 58.241 47.619 0.00 0.00 34.35 5.54
3368 4958 0.249447 TTCATGCATCTCGGCCGTAG 60.249 55.000 27.15 20.47 0.00 3.51
3390 4980 0.599060 CATGCAGGCACACATGTCAA 59.401 50.000 0.00 0.00 39.35 3.18
3401 4991 5.695816 GGCACACATGTCAACATACAAAAAT 59.304 36.000 0.00 0.00 34.26 1.82
3416 5006 8.976353 ACATACAAAAATAATGTCTTGGCCATA 58.024 29.630 6.09 0.00 32.27 2.74
3433 5023 3.262915 GCCATAGGTCATCCATCTAGCTT 59.737 47.826 0.00 0.00 35.89 3.74
3471 5061 4.152580 GTCTCTTCTCGAACCAAACCATTC 59.847 45.833 0.00 0.00 0.00 2.67
3479 5069 3.496331 GAACCAAACCATTCTCCTTGGA 58.504 45.455 6.69 0.00 40.72 3.53
3496 5086 1.490490 TGGAGACACCTTGCTCAAGTT 59.510 47.619 8.60 0.00 39.86 2.66
3502 5092 1.135859 CACCTTGCTCAAGTTGATCGC 60.136 52.381 5.91 8.06 33.32 4.58
3521 5111 2.570135 GCCATGATCTCCACTTCCTTC 58.430 52.381 0.00 0.00 0.00 3.46
3528 5118 2.184533 TCTCCACTTCCTTCGCCATTA 58.815 47.619 0.00 0.00 0.00 1.90
3531 5121 2.093658 TCCACTTCCTTCGCCATTAGAC 60.094 50.000 0.00 0.00 0.00 2.59
3545 5135 4.177026 CCATTAGACTGAACTTCACCTCG 58.823 47.826 0.00 0.00 0.00 4.63
3568 5158 6.915843 TCGTTTGCTTTTATCTTTCCAAAGTC 59.084 34.615 0.00 0.00 37.31 3.01
3574 5164 2.115343 ATCTTTCCAAAGTCCGCCTC 57.885 50.000 0.00 0.00 37.31 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 4.700365 GCCAAAACCGACGCAGCC 62.700 66.667 0.00 0.00 0.00 4.85
35 36 1.396996 CGTCTAATCTGGCCAAAACCG 59.603 52.381 7.01 0.00 0.00 4.44
52 53 0.033228 CATGCATCCTCCTCCTCGTC 59.967 60.000 0.00 0.00 0.00 4.20
54 55 1.117749 TCCATGCATCCTCCTCCTCG 61.118 60.000 0.00 0.00 0.00 4.63
56 57 1.360185 GATCCATGCATCCTCCTCCT 58.640 55.000 0.00 0.00 0.00 3.69
128 129 1.067250 TTCGCTTTGGTGCTTTGCC 59.933 52.632 0.00 0.00 0.00 4.52
192 193 0.621609 TAGGGTGGTGGTTACATGCC 59.378 55.000 0.00 0.00 0.00 4.40
193 194 1.680860 GGTAGGGTGGTGGTTACATGC 60.681 57.143 0.00 0.00 0.00 4.06
194 195 1.064979 GGGTAGGGTGGTGGTTACATG 60.065 57.143 0.00 0.00 0.00 3.21
214 216 0.179121 TTGGTAGCGTACATGCGGAG 60.179 55.000 0.00 0.00 40.67 4.63
238 240 7.061688 CCCTCCCACATAGTATAGTATACTCC 58.938 46.154 23.19 0.00 0.00 3.85
239 241 7.061688 CCCCTCCCACATAGTATAGTATACTC 58.938 46.154 23.19 0.00 0.00 2.59
240 242 6.068379 CCCCCTCCCACATAGTATAGTATACT 60.068 46.154 23.09 23.09 0.00 2.12
241 243 6.134754 CCCCCTCCCACATAGTATAGTATAC 58.865 48.000 11.73 11.73 0.00 1.47
242 244 5.804930 ACCCCCTCCCACATAGTATAGTATA 59.195 44.000 0.00 0.00 0.00 1.47
243 245 4.615654 ACCCCCTCCCACATAGTATAGTAT 59.384 45.833 0.00 0.00 0.00 2.12
244 246 3.999251 ACCCCCTCCCACATAGTATAGTA 59.001 47.826 0.00 0.00 0.00 1.82
245 247 2.802002 ACCCCCTCCCACATAGTATAGT 59.198 50.000 0.00 0.00 0.00 2.12
246 248 3.442076 GACCCCCTCCCACATAGTATAG 58.558 54.545 0.00 0.00 0.00 1.31
247 249 2.225192 CGACCCCCTCCCACATAGTATA 60.225 54.545 0.00 0.00 0.00 1.47
248 250 1.482553 CGACCCCCTCCCACATAGTAT 60.483 57.143 0.00 0.00 0.00 2.12
249 251 0.105862 CGACCCCCTCCCACATAGTA 60.106 60.000 0.00 0.00 0.00 1.82
250 252 1.382695 CGACCCCCTCCCACATAGT 60.383 63.158 0.00 0.00 0.00 2.12
252 254 0.471211 GATCGACCCCCTCCCACATA 60.471 60.000 0.00 0.00 0.00 2.29
253 255 1.766461 GATCGACCCCCTCCCACAT 60.766 63.158 0.00 0.00 0.00 3.21
254 256 2.365105 GATCGACCCCCTCCCACA 60.365 66.667 0.00 0.00 0.00 4.17
255 257 3.537874 CGATCGACCCCCTCCCAC 61.538 72.222 10.26 0.00 0.00 4.61
256 258 3.082795 ATCGATCGACCCCCTCCCA 62.083 63.158 22.06 0.00 0.00 4.37
257 259 2.203655 ATCGATCGACCCCCTCCC 60.204 66.667 22.06 0.00 0.00 4.30
258 260 3.052081 CATCGATCGACCCCCTCC 58.948 66.667 22.06 0.00 0.00 4.30
259 261 2.340443 GCATCGATCGACCCCCTC 59.660 66.667 22.06 2.30 0.00 4.30
332 338 2.032071 CCGGCGAAACTTCCACCT 59.968 61.111 9.30 0.00 0.00 4.00
352 358 9.182214 TGGTCGATTTCATTACTAAGTACTACT 57.818 33.333 0.00 0.00 0.00 2.57
353 359 9.448294 CTGGTCGATTTCATTACTAAGTACTAC 57.552 37.037 0.00 0.00 0.00 2.73
354 360 8.133627 GCTGGTCGATTTCATTACTAAGTACTA 58.866 37.037 0.00 0.00 0.00 1.82
355 361 6.979238 GCTGGTCGATTTCATTACTAAGTACT 59.021 38.462 0.00 0.00 0.00 2.73
356 362 6.979238 AGCTGGTCGATTTCATTACTAAGTAC 59.021 38.462 0.00 0.00 0.00 2.73
357 363 7.108841 AGCTGGTCGATTTCATTACTAAGTA 57.891 36.000 0.00 0.00 0.00 2.24
358 364 5.978814 AGCTGGTCGATTTCATTACTAAGT 58.021 37.500 0.00 0.00 0.00 2.24
359 365 6.517914 GAGCTGGTCGATTTCATTACTAAG 57.482 41.667 0.00 0.00 0.00 2.18
379 385 1.019673 ATGTGATGTTCATGGCGAGC 58.980 50.000 0.00 0.00 0.00 5.03
422 569 1.227764 CCCATCATCTGACGGCCTG 60.228 63.158 0.00 0.00 0.00 4.85
423 570 0.765903 ATCCCATCATCTGACGGCCT 60.766 55.000 0.00 0.00 0.00 5.19
474 621 5.573146 GTGTCTGTGTCTCCTTTCAAAAAG 58.427 41.667 0.00 0.00 0.00 2.27
476 623 3.621268 CGTGTCTGTGTCTCCTTTCAAAA 59.379 43.478 0.00 0.00 0.00 2.44
480 631 1.140816 GCGTGTCTGTGTCTCCTTTC 58.859 55.000 0.00 0.00 0.00 2.62
492 643 0.393808 ACCAAACCAACTGCGTGTCT 60.394 50.000 0.00 0.00 0.00 3.41
493 644 0.454196 AACCAAACCAACTGCGTGTC 59.546 50.000 0.00 0.00 0.00 3.67
495 646 1.135257 TCAAACCAAACCAACTGCGTG 60.135 47.619 0.00 0.00 0.00 5.34
496 647 1.135228 GTCAAACCAAACCAACTGCGT 60.135 47.619 0.00 0.00 0.00 5.24
497 648 1.135257 TGTCAAACCAAACCAACTGCG 60.135 47.619 0.00 0.00 0.00 5.18
498 649 2.094234 ACTGTCAAACCAAACCAACTGC 60.094 45.455 0.00 0.00 0.00 4.40
499 650 3.866883 ACTGTCAAACCAAACCAACTG 57.133 42.857 0.00 0.00 0.00 3.16
500 651 3.119637 CGAACTGTCAAACCAAACCAACT 60.120 43.478 0.00 0.00 0.00 3.16
501 652 3.119779 TCGAACTGTCAAACCAAACCAAC 60.120 43.478 0.00 0.00 0.00 3.77
502 653 3.082548 TCGAACTGTCAAACCAAACCAA 58.917 40.909 0.00 0.00 0.00 3.67
503 654 2.680841 CTCGAACTGTCAAACCAAACCA 59.319 45.455 0.00 0.00 0.00 3.67
504 655 2.940410 TCTCGAACTGTCAAACCAAACC 59.060 45.455 0.00 0.00 0.00 3.27
505 656 4.609691 TTCTCGAACTGTCAAACCAAAC 57.390 40.909 0.00 0.00 0.00 2.93
506 657 4.036262 CCATTCTCGAACTGTCAAACCAAA 59.964 41.667 0.00 0.00 0.00 3.28
538 689 0.249615 TAGTGATCGCATGGAGCTGC 60.250 55.000 9.33 0.00 42.61 5.25
687 844 1.515081 TCGCACCTTCCGGTTAAAAG 58.485 50.000 0.00 0.00 42.13 2.27
712 869 2.212652 CGGCCATTTCTTGATCGATCA 58.787 47.619 23.99 23.99 34.44 2.92
728 885 2.063541 GATGGCATAACTGTGCGGCC 62.064 60.000 0.00 9.21 45.97 6.13
732 889 3.194861 TCGTAAGATGGCATAACTGTGC 58.805 45.455 0.00 0.00 45.01 4.57
776 933 1.028130 TGCGAGAGGAGCACAGATAG 58.972 55.000 0.00 0.00 40.01 2.08
777 934 3.191182 TGCGAGAGGAGCACAGATA 57.809 52.632 0.00 0.00 40.01 1.98
778 935 4.024717 TGCGAGAGGAGCACAGAT 57.975 55.556 0.00 0.00 40.01 2.90
811 968 1.304630 GGCCCCGGGTTACAAATGT 60.305 57.895 21.85 0.00 0.00 2.71
848 1005 0.668401 GTTGCTTGTTGGATGCCAGC 60.668 55.000 0.00 0.00 33.81 4.85
876 1033 4.630644 TCATCAGAGAAGCTGGAACTTT 57.369 40.909 0.00 0.00 44.98 2.66
941 1098 5.209818 TGAAACCTGTACTCCTACAGTTG 57.790 43.478 7.03 0.00 46.07 3.16
973 1136 0.599728 TGCACCGTTGGTACCGTTAC 60.600 55.000 7.57 4.54 32.11 2.50
976 1139 1.669760 CATGCACCGTTGGTACCGT 60.670 57.895 7.57 0.00 32.11 4.83
978 1141 1.312371 ATGCATGCACCGTTGGTACC 61.312 55.000 25.37 4.43 32.11 3.34
1085 1248 4.142780 GCCCTGGCCTTCGATTAC 57.857 61.111 3.32 0.00 34.56 1.89
1215 1389 1.154035 CGAACGCCCTGCCATTTTC 60.154 57.895 0.00 0.00 0.00 2.29
1315 1489 2.595878 CGATGCTGATGCCGAGCTG 61.596 63.158 0.00 0.00 37.35 4.24
1573 1753 0.475828 AAGCCCAGGTAGGAGGTGTT 60.476 55.000 0.00 0.00 41.22 3.32
1585 1765 1.449246 CCTCGCAGAAGAAGCCCAG 60.449 63.158 0.00 0.00 34.09 4.45
1971 2154 2.811317 GAGTCGCCGAGGTTGCTG 60.811 66.667 0.00 0.00 0.00 4.41
2060 2243 3.730761 CCTCCAGCAGCGTGTTGC 61.731 66.667 0.00 0.00 44.41 4.17
2403 2586 1.691219 CTGGTTGGGTGCATAGGGT 59.309 57.895 0.00 0.00 0.00 4.34
2460 2643 1.255667 TGACGGGGCAGTAGGTCTTC 61.256 60.000 0.00 0.00 0.00 2.87
2649 2847 3.443045 CGCACAGCACATTCCCCC 61.443 66.667 0.00 0.00 0.00 5.40
2695 2893 1.825090 TATCAGCACAAACCAGCCAG 58.175 50.000 0.00 0.00 0.00 4.85
2709 2907 4.847757 CACACGACTTGCAAACAATATCAG 59.152 41.667 0.00 0.00 34.61 2.90
2725 2923 9.737025 GAACATAAATAGAAAAGTACACACGAC 57.263 33.333 0.00 0.00 0.00 4.34
2826 3024 9.780186 CCTCCTTTCCGAATTACTTATCTAAAT 57.220 33.333 0.00 0.00 0.00 1.40
2827 3025 8.208903 CCCTCCTTTCCGAATTACTTATCTAAA 58.791 37.037 0.00 0.00 0.00 1.85
2828 3026 7.566138 TCCCTCCTTTCCGAATTACTTATCTAA 59.434 37.037 0.00 0.00 0.00 2.10
2829 3027 7.071273 TCCCTCCTTTCCGAATTACTTATCTA 58.929 38.462 0.00 0.00 0.00 1.98
2830 3028 5.903589 TCCCTCCTTTCCGAATTACTTATCT 59.096 40.000 0.00 0.00 0.00 1.98
2831 3029 6.170846 TCCCTCCTTTCCGAATTACTTATC 57.829 41.667 0.00 0.00 0.00 1.75
2832 3030 5.666265 ACTCCCTCCTTTCCGAATTACTTAT 59.334 40.000 0.00 0.00 0.00 1.73
2833 3031 5.028131 ACTCCCTCCTTTCCGAATTACTTA 58.972 41.667 0.00 0.00 0.00 2.24
2834 3032 3.844804 ACTCCCTCCTTTCCGAATTACTT 59.155 43.478 0.00 0.00 0.00 2.24
2835 3033 3.451890 ACTCCCTCCTTTCCGAATTACT 58.548 45.455 0.00 0.00 0.00 2.24
2836 3034 3.908643 ACTCCCTCCTTTCCGAATTAC 57.091 47.619 0.00 0.00 0.00 1.89
2837 3035 3.965347 CCTACTCCCTCCTTTCCGAATTA 59.035 47.826 0.00 0.00 0.00 1.40
2838 3036 2.772515 CCTACTCCCTCCTTTCCGAATT 59.227 50.000 0.00 0.00 0.00 2.17
2839 3037 2.023307 TCCTACTCCCTCCTTTCCGAAT 60.023 50.000 0.00 0.00 0.00 3.34
2840 3038 1.360162 TCCTACTCCCTCCTTTCCGAA 59.640 52.381 0.00 0.00 0.00 4.30
2841 3039 1.005228 TCCTACTCCCTCCTTTCCGA 58.995 55.000 0.00 0.00 0.00 4.55
2842 3040 1.404843 CTCCTACTCCCTCCTTTCCG 58.595 60.000 0.00 0.00 0.00 4.30
2843 3041 1.008571 ACCTCCTACTCCCTCCTTTCC 59.991 57.143 0.00 0.00 0.00 3.13
2844 3042 2.553911 ACCTCCTACTCCCTCCTTTC 57.446 55.000 0.00 0.00 0.00 2.62
2845 3043 3.536434 TCATACCTCCTACTCCCTCCTTT 59.464 47.826 0.00 0.00 0.00 3.11
2846 3044 3.140143 TCATACCTCCTACTCCCTCCTT 58.860 50.000 0.00 0.00 0.00 3.36
2847 3045 2.803215 TCATACCTCCTACTCCCTCCT 58.197 52.381 0.00 0.00 0.00 3.69
2848 3046 3.436243 CATCATACCTCCTACTCCCTCC 58.564 54.545 0.00 0.00 0.00 4.30
2849 3047 3.436243 CCATCATACCTCCTACTCCCTC 58.564 54.545 0.00 0.00 0.00 4.30
2850 3048 2.493687 GCCATCATACCTCCTACTCCCT 60.494 54.545 0.00 0.00 0.00 4.20
2851 3049 1.903183 GCCATCATACCTCCTACTCCC 59.097 57.143 0.00 0.00 0.00 4.30
2852 3050 2.564947 CAGCCATCATACCTCCTACTCC 59.435 54.545 0.00 0.00 0.00 3.85
2853 3051 2.564947 CCAGCCATCATACCTCCTACTC 59.435 54.545 0.00 0.00 0.00 2.59
2854 3052 2.614259 CCAGCCATCATACCTCCTACT 58.386 52.381 0.00 0.00 0.00 2.57
2855 3053 1.625818 CCCAGCCATCATACCTCCTAC 59.374 57.143 0.00 0.00 0.00 3.18
2856 3054 2.030027 CCCAGCCATCATACCTCCTA 57.970 55.000 0.00 0.00 0.00 2.94
2857 3055 1.422161 GCCCAGCCATCATACCTCCT 61.422 60.000 0.00 0.00 0.00 3.69
2858 3056 1.073897 GCCCAGCCATCATACCTCC 59.926 63.158 0.00 0.00 0.00 4.30
2859 3057 0.250640 CTGCCCAGCCATCATACCTC 60.251 60.000 0.00 0.00 0.00 3.85
2860 3058 0.990282 ACTGCCCAGCCATCATACCT 60.990 55.000 0.00 0.00 0.00 3.08
2861 3059 0.820891 CACTGCCCAGCCATCATACC 60.821 60.000 0.00 0.00 0.00 2.73
2862 3060 0.820891 CCACTGCCCAGCCATCATAC 60.821 60.000 0.00 0.00 0.00 2.39
2863 3061 1.533219 CCACTGCCCAGCCATCATA 59.467 57.895 0.00 0.00 0.00 2.15
2864 3062 2.277737 CCACTGCCCAGCCATCAT 59.722 61.111 0.00 0.00 0.00 2.45
2865 3063 4.051167 CCCACTGCCCAGCCATCA 62.051 66.667 0.00 0.00 0.00 3.07
2889 3087 2.168313 TCGCCATGTGCTCAATCTTCTA 59.832 45.455 0.00 0.00 38.05 2.10
2890 3088 1.065926 TCGCCATGTGCTCAATCTTCT 60.066 47.619 0.00 0.00 38.05 2.85
2892 3090 1.089920 GTCGCCATGTGCTCAATCTT 58.910 50.000 0.00 0.00 38.05 2.40
2893 3091 0.251354 AGTCGCCATGTGCTCAATCT 59.749 50.000 0.00 0.00 38.05 2.40
2894 3092 1.089920 AAGTCGCCATGTGCTCAATC 58.910 50.000 0.00 0.00 38.05 2.67
2995 4567 0.665835 TACTGTGCGCAACAAAAGGG 59.334 50.000 14.00 3.27 38.67 3.95
3001 4579 2.098280 ACAATTTGTACTGTGCGCAACA 59.902 40.909 14.00 10.72 37.22 3.33
3015 4593 6.744112 TGGAGTTGCCTTTACTTACAATTTG 58.256 36.000 0.00 0.00 37.63 2.32
3016 4594 6.969993 TGGAGTTGCCTTTACTTACAATTT 57.030 33.333 0.00 0.00 37.63 1.82
3017 4595 6.514376 CGTTGGAGTTGCCTTTACTTACAATT 60.514 38.462 0.00 0.00 37.63 2.32
3019 4597 4.273969 CGTTGGAGTTGCCTTTACTTACAA 59.726 41.667 0.00 0.00 37.63 2.41
3020 4598 3.810941 CGTTGGAGTTGCCTTTACTTACA 59.189 43.478 0.00 0.00 37.63 2.41
3022 4600 2.809696 GCGTTGGAGTTGCCTTTACTTA 59.190 45.455 0.00 0.00 37.63 2.24
3023 4601 1.607148 GCGTTGGAGTTGCCTTTACTT 59.393 47.619 0.00 0.00 37.63 2.24
3024 4602 1.235724 GCGTTGGAGTTGCCTTTACT 58.764 50.000 0.00 0.00 37.63 2.24
3031 4609 3.345808 TCAGCGCGTTGGAGTTGC 61.346 61.111 22.99 0.00 0.00 4.17
3087 4665 3.527434 GGTTGGACGACCGATCTTT 57.473 52.632 0.00 0.00 39.42 2.52
3103 4691 3.118738 GGTCAGATTTGGATAGACACGGT 60.119 47.826 0.00 0.00 0.00 4.83
3126 4714 4.612279 TGGCCGGTTGGGTGCATT 62.612 61.111 1.90 0.00 38.44 3.56
3157 4745 6.409524 TTGTTCAAAAGAATTCAGCTGGAT 57.590 33.333 15.13 8.07 0.00 3.41
3191 4779 5.580691 GCCCTGAATTACCTTTATTTTGCAC 59.419 40.000 0.00 0.00 0.00 4.57
3195 4783 4.404394 CGGGCCCTGAATTACCTTTATTTT 59.596 41.667 22.43 0.00 0.00 1.82
3248 4836 2.304092 CTGACATGTATGCCAGCCATT 58.696 47.619 0.00 0.00 31.72 3.16
3249 4837 1.977056 CTGACATGTATGCCAGCCAT 58.023 50.000 0.00 0.00 31.72 4.40
3250 4838 3.482147 CTGACATGTATGCCAGCCA 57.518 52.632 0.00 0.00 31.72 4.75
3255 4843 2.620251 TGTAGGCTGACATGTATGCC 57.380 50.000 25.55 25.55 45.21 4.40
3298 4886 0.746563 CCAACCACGGACAAGTGTGT 60.747 55.000 0.00 0.00 42.10 3.72
3307 4895 3.167189 CATGTATGCCAACCACGGA 57.833 52.632 0.00 0.00 0.00 4.69
3342 4932 3.332919 GCCGAGATGCATGAAGTATGAT 58.667 45.455 2.46 0.00 39.21 2.45
3343 4933 2.548707 GGCCGAGATGCATGAAGTATGA 60.549 50.000 2.46 0.00 39.21 2.15
3348 4938 0.249447 TACGGCCGAGATGCATGAAG 60.249 55.000 35.90 0.00 0.00 3.02
3354 4944 0.249489 ATGAACTACGGCCGAGATGC 60.249 55.000 35.90 18.03 0.00 3.91
3358 4948 1.148157 CTGCATGAACTACGGCCGAG 61.148 60.000 35.90 25.72 0.00 4.63
3363 4953 0.673333 TGTGCCTGCATGAACTACGG 60.673 55.000 0.00 0.00 0.00 4.02
3368 4958 0.599558 ACATGTGTGCCTGCATGAAC 59.400 50.000 15.30 0.00 43.60 3.18
3390 4980 7.238486 TGGCCAAGACATTATTTTTGTATGT 57.762 32.000 0.61 0.00 35.33 2.29
3401 4991 4.202461 GGATGACCTATGGCCAAGACATTA 60.202 45.833 10.96 0.00 31.56 1.90
3409 4999 2.123018 AGATGGATGACCTATGGCCA 57.877 50.000 8.56 8.56 37.04 5.36
3410 5000 2.093235 GCTAGATGGATGACCTATGGCC 60.093 54.545 0.00 0.00 37.04 5.36
3416 5006 2.368221 GCTCAAGCTAGATGGATGACCT 59.632 50.000 0.00 0.00 38.21 3.85
3433 5023 1.895798 AGAGACAAACGGAGATGCTCA 59.104 47.619 0.00 0.00 31.08 4.26
3471 5061 0.689623 AGCAAGGTGTCTCCAAGGAG 59.310 55.000 9.90 9.90 43.21 3.69
3502 5092 2.831333 CGAAGGAAGTGGAGATCATGG 58.169 52.381 0.00 0.00 0.00 3.66
3521 5111 2.673368 GGTGAAGTTCAGTCTAATGGCG 59.327 50.000 5.62 0.00 0.00 5.69
3528 5118 3.458189 CAAACGAGGTGAAGTTCAGTCT 58.542 45.455 5.62 7.08 0.00 3.24
3531 5121 2.213499 AGCAAACGAGGTGAAGTTCAG 58.787 47.619 5.62 0.00 0.00 3.02
3545 5135 6.143919 CGGACTTTGGAAAGATAAAAGCAAAC 59.856 38.462 6.13 0.00 39.31 2.93
3568 5158 1.142748 AAGCTTGAGATCGAGGCGG 59.857 57.895 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.