Multiple sequence alignment - TraesCS2B01G062900

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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 TraesCS2B01G062900 chr2B 100.000 2483 0 0 1 2483 30146701 30144219 0.000000e+00 4586
1 TraesCS2B01G062900 chr2B 95.122 164 7 1 545 707 666641781 666641618 8.810000e-65 257
2 TraesCS2B01G062900 chr2B 96.667 150 4 1 560 708 5667252 5667103 5.300000e-62 248
3 TraesCS2B01G062900 chr2B 82.390 159 23 5 368 522 602996296 602996453 1.550000e-27 134
4 TraesCS2B01G062900 chr2B 80.723 166 28 4 363 525 779861408 779861572 2.590000e-25 126
5 TraesCS2B01G062900 chr2D 91.945 1465 59 18 1037 2483 18210949 18209526 0.000000e+00 1997
6 TraesCS2B01G062900 chr2D 83.251 1009 105 36 1477 2480 18208531 18207582 0.000000e+00 869
7 TraesCS2B01G062900 chr2D 89.397 547 51 6 4 546 18212365 18211822 0.000000e+00 682
8 TraesCS2B01G062900 chr2D 81.646 158 25 4 368 522 512769188 512769344 7.210000e-26 128
9 TraesCS2B01G062900 chrUn 91.407 1443 64 24 1060 2483 12585046 12583645 0.000000e+00 1923
10 TraesCS2B01G062900 chrUn 87.568 555 48 9 1 546 12586159 12585617 7.540000e-175 623
11 TraesCS2B01G062900 chrUn 79.452 365 62 8 1 355 12586631 12586270 1.910000e-61 246
12 TraesCS2B01G062900 chr3A 96.951 164 4 1 545 707 320525768 320525931 8.750000e-70 274
13 TraesCS2B01G062900 chr6B 95.758 165 6 1 545 708 155772969 155773133 5.270000e-67 265
14 TraesCS2B01G062900 chr6B 91.429 175 14 1 543 716 699611076 699610902 3.190000e-59 239
15 TraesCS2B01G062900 chr6B 83.721 172 28 0 1159 1330 715448894 715449065 1.980000e-36 163
16 TraesCS2B01G062900 chr3B 94.118 170 9 1 544 712 428704038 428703869 8.810000e-65 257
17 TraesCS2B01G062900 chr5B 94.545 165 8 1 545 708 109101110 109100946 1.140000e-63 254
18 TraesCS2B01G062900 chr5B 82.237 152 23 4 375 523 285037833 285037983 7.210000e-26 128
19 TraesCS2B01G062900 chr5B 81.250 160 26 4 377 534 405716080 405715923 2.590000e-25 126
20 TraesCS2B01G062900 chr5B 78.453 181 39 0 1159 1339 206102403 206102223 4.340000e-23 119
21 TraesCS2B01G062900 chr5A 92.486 173 9 4 539 708 44602743 44602572 6.860000e-61 244
22 TraesCS2B01G062900 chr5A 79.651 172 35 0 1159 1330 264421497 264421668 9.320000e-25 124
23 TraesCS2B01G062900 chr3D 91.573 178 10 5 542 716 232559803 232559978 8.870000e-60 241
24 TraesCS2B01G062900 chr3D 76.966 356 58 19 376 713 67481116 67480767 5.460000e-42 182
25 TraesCS2B01G062900 chr6D 83.978 181 29 0 1159 1339 469205362 469205542 9.130000e-40 174
26 TraesCS2B01G062900 chr6A 82.873 181 31 0 1159 1339 614381581 614381761 1.980000e-36 163
27 TraesCS2B01G062900 chr7A 87.903 124 15 0 1216 1339 165448294 165448171 1.990000e-31 147
28 TraesCS2B01G062900 chr2A 82.803 157 22 4 375 528 101698419 101698265 4.310000e-28 135
29 TraesCS2B01G062900 chr5D 80.233 172 34 0 1159 1330 205995777 205995948 2.000000e-26 130


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 TraesCS2B01G062900 chr2B 30144219 30146701 2482 True 4586.000000 4586 100.000000 1 2483 1 chr2B.!!$R2 2482
1 TraesCS2B01G062900 chr2D 18207582 18212365 4783 True 1182.666667 1997 88.197667 4 2483 3 chr2D.!!$R1 2479
2 TraesCS2B01G062900 chrUn 12583645 12586631 2986 True 930.666667 1923 86.142333 1 2483 3 chrUn.!!$R1 2482

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
603 1097 0.589223 CAAATGGGCACAACGTACGT 59.411 50.0 16.72 16.72 0.0 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2426 5454 0.033796 CAGGGGCACAATGAGTCCAT 60.034 55.0 3.38 0.0 33.66 3.41 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
49 522 3.817709 TCCATCACATGCGAGTCATTA 57.182 42.857 0.00 0.00 31.79 1.90
100 573 6.827762 TCATATGAAATCTTACATGCACACCA 59.172 34.615 1.98 0.00 0.00 4.17
111 596 2.268762 TGCACACCACAAGAGCAATA 57.731 45.000 0.00 0.00 31.42 1.90
112 597 2.794103 TGCACACCACAAGAGCAATAT 58.206 42.857 0.00 0.00 31.42 1.28
113 598 3.949132 TGCACACCACAAGAGCAATATA 58.051 40.909 0.00 0.00 31.42 0.86
114 599 4.525996 TGCACACCACAAGAGCAATATAT 58.474 39.130 0.00 0.00 31.42 0.86
115 600 4.336153 TGCACACCACAAGAGCAATATATG 59.664 41.667 0.00 0.00 31.42 1.78
116 601 4.576053 GCACACCACAAGAGCAATATATGA 59.424 41.667 0.00 0.00 0.00 2.15
117 602 5.277683 GCACACCACAAGAGCAATATATGAG 60.278 44.000 0.00 0.00 0.00 2.90
118 603 4.818546 ACACCACAAGAGCAATATATGAGC 59.181 41.667 2.93 2.93 0.00 4.26
119 604 4.818005 CACCACAAGAGCAATATATGAGCA 59.182 41.667 11.63 0.00 0.00 4.26
120 605 5.297527 CACCACAAGAGCAATATATGAGCAA 59.702 40.000 11.63 0.00 0.00 3.91
121 606 6.016527 CACCACAAGAGCAATATATGAGCAAT 60.017 38.462 11.63 0.00 0.00 3.56
125 610 7.594015 CACAAGAGCAATATATGAGCAATTTCC 59.406 37.037 11.63 0.00 0.00 3.13
126 611 7.504911 ACAAGAGCAATATATGAGCAATTTCCT 59.495 33.333 11.63 0.00 0.00 3.36
139 624 6.265196 TGAGCAATTTCCTTTAGCAAGAGAAA 59.735 34.615 0.00 0.00 35.46 2.52
215 700 2.618053 AGAGGCCATAAATATACGCGC 58.382 47.619 5.73 0.00 0.00 6.86
315 801 6.152638 AGGAAAGACCATCCCAATCTTAAA 57.847 37.500 0.00 0.00 42.04 1.52
393 885 4.689612 TGCTCCCTCCATTCACTATTAC 57.310 45.455 0.00 0.00 0.00 1.89
403 895 6.513180 TCCATTCACTATTACGAGATGTTCC 58.487 40.000 0.00 0.00 0.00 3.62
408 900 8.420374 TTCACTATTACGAGATGTTCCAAATC 57.580 34.615 0.00 0.00 0.00 2.17
444 936 8.504815 TCAGATGTATATAGACGAGTTTAGTGC 58.495 37.037 0.00 0.00 0.00 4.40
467 959 4.280677 CCTTTGTTCACTTATTTCAGCCCA 59.719 41.667 0.00 0.00 0.00 5.36
516 1008 9.708222 CCAAAACATCTTATAATTCAGAACGAG 57.292 33.333 0.00 0.00 0.00 4.18
523 1017 8.515695 TCTTATAATTCAGAACGAGGAGTACA 57.484 34.615 0.00 0.00 0.00 2.90
524 1018 9.132923 TCTTATAATTCAGAACGAGGAGTACAT 57.867 33.333 0.00 0.00 0.00 2.29
531 1025 5.708697 TCAGAACGAGGAGTACATACAAAGA 59.291 40.000 0.00 0.00 0.00 2.52
535 1029 5.467705 ACGAGGAGTACATACAAAGACAAC 58.532 41.667 0.00 0.00 0.00 3.32
537 1031 5.924254 CGAGGAGTACATACAAAGACAACAA 59.076 40.000 0.00 0.00 0.00 2.83
540 1034 8.514330 AGGAGTACATACAAAGACAACAAAAA 57.486 30.769 0.00 0.00 0.00 1.94
541 1035 9.131791 AGGAGTACATACAAAGACAACAAAAAT 57.868 29.630 0.00 0.00 0.00 1.82
550 1044 7.937649 ACAAAGACAACAAAAATAGTACTCCC 58.062 34.615 0.00 0.00 0.00 4.30
551 1045 7.778382 ACAAAGACAACAAAAATAGTACTCCCT 59.222 33.333 0.00 0.00 0.00 4.20
552 1046 7.981102 AAGACAACAAAAATAGTACTCCCTC 57.019 36.000 0.00 0.00 0.00 4.30
553 1047 6.473758 AGACAACAAAAATAGTACTCCCTCC 58.526 40.000 0.00 0.00 0.00 4.30
554 1048 5.243207 ACAACAAAAATAGTACTCCCTCCG 58.757 41.667 0.00 0.00 0.00 4.63
555 1049 5.221783 ACAACAAAAATAGTACTCCCTCCGT 60.222 40.000 0.00 0.00 0.00 4.69
556 1050 5.494390 ACAAAAATAGTACTCCCTCCGTT 57.506 39.130 0.00 0.00 0.00 4.44
557 1051 5.485620 ACAAAAATAGTACTCCCTCCGTTC 58.514 41.667 0.00 0.00 0.00 3.95
558 1052 5.247792 ACAAAAATAGTACTCCCTCCGTTCT 59.752 40.000 0.00 0.00 0.00 3.01
559 1053 5.340439 AAAATAGTACTCCCTCCGTTCTG 57.660 43.478 0.00 0.00 0.00 3.02
560 1054 3.947612 ATAGTACTCCCTCCGTTCTGA 57.052 47.619 0.00 0.00 0.00 3.27
561 1055 2.599408 AGTACTCCCTCCGTTCTGAA 57.401 50.000 0.00 0.00 0.00 3.02
562 1056 2.885616 AGTACTCCCTCCGTTCTGAAA 58.114 47.619 0.00 0.00 0.00 2.69
563 1057 3.442076 AGTACTCCCTCCGTTCTGAAAT 58.558 45.455 0.00 0.00 0.00 2.17
564 1058 4.607239 AGTACTCCCTCCGTTCTGAAATA 58.393 43.478 0.00 0.00 0.00 1.40
565 1059 5.209659 AGTACTCCCTCCGTTCTGAAATAT 58.790 41.667 0.00 0.00 0.00 1.28
566 1060 5.661759 AGTACTCCCTCCGTTCTGAAATATT 59.338 40.000 0.00 0.00 0.00 1.28
567 1061 5.437191 ACTCCCTCCGTTCTGAAATATTT 57.563 39.130 0.00 0.00 0.00 1.40
568 1062 5.186198 ACTCCCTCCGTTCTGAAATATTTG 58.814 41.667 5.17 0.00 0.00 2.32
569 1063 5.174037 TCCCTCCGTTCTGAAATATTTGT 57.826 39.130 5.17 0.00 0.00 2.83
570 1064 5.183228 TCCCTCCGTTCTGAAATATTTGTC 58.817 41.667 5.17 0.00 0.00 3.18
571 1065 5.045869 TCCCTCCGTTCTGAAATATTTGTCT 60.046 40.000 5.17 0.00 0.00 3.41
572 1066 5.648092 CCCTCCGTTCTGAAATATTTGTCTT 59.352 40.000 5.17 0.00 0.00 3.01
573 1067 6.151144 CCCTCCGTTCTGAAATATTTGTCTTT 59.849 38.462 5.17 0.00 0.00 2.52
574 1068 7.244192 CCTCCGTTCTGAAATATTTGTCTTTC 58.756 38.462 5.17 0.00 33.06 2.62
575 1069 7.119846 CCTCCGTTCTGAAATATTTGTCTTTCT 59.880 37.037 5.17 0.00 33.50 2.52
576 1070 9.151471 CTCCGTTCTGAAATATTTGTCTTTCTA 57.849 33.333 5.17 0.00 33.50 2.10
577 1071 9.151471 TCCGTTCTGAAATATTTGTCTTTCTAG 57.849 33.333 5.17 0.00 33.50 2.43
578 1072 8.391106 CCGTTCTGAAATATTTGTCTTTCTAGG 58.609 37.037 5.17 0.00 33.50 3.02
579 1073 7.905493 CGTTCTGAAATATTTGTCTTTCTAGGC 59.095 37.037 5.17 0.00 33.50 3.93
580 1074 8.730680 GTTCTGAAATATTTGTCTTTCTAGGCA 58.269 33.333 5.17 0.00 33.22 4.75
581 1075 9.466497 TTCTGAAATATTTGTCTTTCTAGGCAT 57.534 29.630 5.17 0.00 35.56 4.40
582 1076 9.466497 TCTGAAATATTTGTCTTTCTAGGCATT 57.534 29.630 5.17 0.00 35.56 3.56
589 1083 8.767478 ATTTGTCTTTCTAGGCATTTCAAATG 57.233 30.769 5.68 5.68 35.56 2.32
590 1084 6.271488 TGTCTTTCTAGGCATTTCAAATGG 57.729 37.500 12.14 0.00 29.10 3.16
591 1085 5.185635 TGTCTTTCTAGGCATTTCAAATGGG 59.814 40.000 12.14 0.00 29.10 4.00
592 1086 4.160252 TCTTTCTAGGCATTTCAAATGGGC 59.840 41.667 12.14 5.32 0.00 5.36
593 1087 3.098774 TCTAGGCATTTCAAATGGGCA 57.901 42.857 12.14 0.00 0.00 5.36
594 1088 2.760092 TCTAGGCATTTCAAATGGGCAC 59.240 45.455 12.14 0.00 0.00 5.01
595 1089 1.350071 AGGCATTTCAAATGGGCACA 58.650 45.000 12.14 0.00 0.00 4.57
596 1090 1.698532 AGGCATTTCAAATGGGCACAA 59.301 42.857 12.14 0.00 0.00 3.33
597 1091 1.805943 GGCATTTCAAATGGGCACAAC 59.194 47.619 12.14 0.00 0.00 3.32
598 1092 1.460359 GCATTTCAAATGGGCACAACG 59.540 47.619 12.14 0.00 0.00 4.10
599 1093 2.753296 CATTTCAAATGGGCACAACGT 58.247 42.857 1.73 0.00 0.00 3.99
600 1094 3.858877 GCATTTCAAATGGGCACAACGTA 60.859 43.478 12.14 0.00 0.00 3.57
601 1095 3.357166 TTTCAAATGGGCACAACGTAC 57.643 42.857 0.00 0.00 0.00 3.67
602 1096 0.869068 TCAAATGGGCACAACGTACG 59.131 50.000 15.01 15.01 0.00 3.67
603 1097 0.589223 CAAATGGGCACAACGTACGT 59.411 50.000 16.72 16.72 0.00 3.57
604 1098 1.799403 CAAATGGGCACAACGTACGTA 59.201 47.619 23.12 4.01 0.00 3.57
605 1099 2.389962 AATGGGCACAACGTACGTAT 57.610 45.000 23.12 10.46 0.00 3.06
606 1100 2.389962 ATGGGCACAACGTACGTATT 57.610 45.000 23.12 8.70 0.00 1.89
607 1101 3.523606 ATGGGCACAACGTACGTATTA 57.476 42.857 23.12 4.71 0.00 0.98
608 1102 3.523606 TGGGCACAACGTACGTATTAT 57.476 42.857 23.12 2.29 0.00 1.28
609 1103 3.188492 TGGGCACAACGTACGTATTATG 58.812 45.455 23.12 18.17 0.00 1.90
610 1104 3.189285 GGGCACAACGTACGTATTATGT 58.811 45.455 23.12 18.87 0.00 2.29
611 1105 4.142293 TGGGCACAACGTACGTATTATGTA 60.142 41.667 23.12 4.28 29.03 2.29
612 1106 4.442073 GGGCACAACGTACGTATTATGTAG 59.558 45.833 23.12 15.95 29.03 2.74
613 1107 5.273170 GGCACAACGTACGTATTATGTAGA 58.727 41.667 23.12 0.00 29.03 2.59
614 1108 5.172053 GGCACAACGTACGTATTATGTAGAC 59.828 44.000 23.12 14.19 29.03 2.59
615 1109 5.967674 GCACAACGTACGTATTATGTAGACT 59.032 40.000 23.12 0.00 29.03 3.24
616 1110 6.470235 GCACAACGTACGTATTATGTAGACTT 59.530 38.462 23.12 0.00 29.03 3.01
617 1111 7.639850 GCACAACGTACGTATTATGTAGACTTA 59.360 37.037 23.12 0.00 29.03 2.24
618 1112 9.655769 CACAACGTACGTATTATGTAGACTTAT 57.344 33.333 23.12 0.00 29.03 1.73
649 1143 8.864069 AGTATAGATTCACTCATTTTGTCTCG 57.136 34.615 0.00 0.00 0.00 4.04
650 1144 8.470805 AGTATAGATTCACTCATTTTGTCTCGT 58.529 33.333 0.00 0.00 0.00 4.18
651 1145 9.731819 GTATAGATTCACTCATTTTGTCTCGTA 57.268 33.333 0.00 0.00 0.00 3.43
653 1147 7.531280 AGATTCACTCATTTTGTCTCGTATG 57.469 36.000 0.00 0.00 0.00 2.39
654 1148 7.099764 AGATTCACTCATTTTGTCTCGTATGT 58.900 34.615 0.00 0.00 0.00 2.29
655 1149 8.251026 AGATTCACTCATTTTGTCTCGTATGTA 58.749 33.333 0.00 0.00 0.00 2.29
656 1150 7.812309 TTCACTCATTTTGTCTCGTATGTAG 57.188 36.000 0.00 0.00 0.00 2.74
657 1151 6.920817 TCACTCATTTTGTCTCGTATGTAGT 58.079 36.000 0.00 0.00 0.00 2.73
658 1152 7.027760 TCACTCATTTTGTCTCGTATGTAGTC 58.972 38.462 0.00 0.00 0.00 2.59
659 1153 6.806739 CACTCATTTTGTCTCGTATGTAGTCA 59.193 38.462 0.00 0.00 0.00 3.41
660 1154 6.807230 ACTCATTTTGTCTCGTATGTAGTCAC 59.193 38.462 0.00 0.00 0.00 3.67
661 1155 6.920817 TCATTTTGTCTCGTATGTAGTCACT 58.079 36.000 0.00 0.00 0.00 3.41
662 1156 7.375834 TCATTTTGTCTCGTATGTAGTCACTT 58.624 34.615 0.00 0.00 0.00 3.16
663 1157 7.328493 TCATTTTGTCTCGTATGTAGTCACTTG 59.672 37.037 0.00 0.00 0.00 3.16
664 1158 5.700722 TTGTCTCGTATGTAGTCACTTGT 57.299 39.130 0.00 0.00 0.00 3.16
665 1159 5.700722 TGTCTCGTATGTAGTCACTTGTT 57.299 39.130 0.00 0.00 0.00 2.83
666 1160 6.806388 TGTCTCGTATGTAGTCACTTGTTA 57.194 37.500 0.00 0.00 0.00 2.41
667 1161 7.205737 TGTCTCGTATGTAGTCACTTGTTAA 57.794 36.000 0.00 0.00 0.00 2.01
668 1162 7.650890 TGTCTCGTATGTAGTCACTTGTTAAA 58.349 34.615 0.00 0.00 0.00 1.52
669 1163 8.136800 TGTCTCGTATGTAGTCACTTGTTAAAA 58.863 33.333 0.00 0.00 0.00 1.52
670 1164 9.136952 GTCTCGTATGTAGTCACTTGTTAAAAT 57.863 33.333 0.00 0.00 0.00 1.82
671 1165 9.350357 TCTCGTATGTAGTCACTTGTTAAAATC 57.650 33.333 0.00 0.00 0.00 2.17
672 1166 9.355215 CTCGTATGTAGTCACTTGTTAAAATCT 57.645 33.333 0.00 0.00 0.00 2.40
673 1167 9.350357 TCGTATGTAGTCACTTGTTAAAATCTC 57.650 33.333 0.00 0.00 0.00 2.75
674 1168 8.592998 CGTATGTAGTCACTTGTTAAAATCTCC 58.407 37.037 0.00 0.00 0.00 3.71
675 1169 9.431887 GTATGTAGTCACTTGTTAAAATCTCCA 57.568 33.333 0.00 0.00 0.00 3.86
676 1170 7.962964 TGTAGTCACTTGTTAAAATCTCCAG 57.037 36.000 0.00 0.00 0.00 3.86
677 1171 7.732025 TGTAGTCACTTGTTAAAATCTCCAGA 58.268 34.615 0.00 0.00 0.00 3.86
678 1172 8.208224 TGTAGTCACTTGTTAAAATCTCCAGAA 58.792 33.333 0.00 0.00 0.00 3.02
679 1173 9.052759 GTAGTCACTTGTTAAAATCTCCAGAAA 57.947 33.333 0.00 0.00 0.00 2.52
680 1174 8.159344 AGTCACTTGTTAAAATCTCCAGAAAG 57.841 34.615 0.00 0.00 0.00 2.62
681 1175 7.993183 AGTCACTTGTTAAAATCTCCAGAAAGA 59.007 33.333 0.00 0.00 0.00 2.52
682 1176 8.070769 GTCACTTGTTAAAATCTCCAGAAAGAC 58.929 37.037 0.00 0.00 0.00 3.01
683 1177 7.773224 TCACTTGTTAAAATCTCCAGAAAGACA 59.227 33.333 0.00 0.00 0.00 3.41
684 1178 8.405531 CACTTGTTAAAATCTCCAGAAAGACAA 58.594 33.333 0.00 0.00 0.00 3.18
685 1179 8.966868 ACTTGTTAAAATCTCCAGAAAGACAAA 58.033 29.630 0.00 0.00 0.00 2.83
686 1180 9.971922 CTTGTTAAAATCTCCAGAAAGACAAAT 57.028 29.630 0.00 0.00 0.00 2.32
696 1190 9.449719 TCTCCAGAAAGACAAATATTTAGGAAC 57.550 33.333 0.00 0.00 28.49 3.62
697 1191 8.263940 TCCAGAAAGACAAATATTTAGGAACG 57.736 34.615 0.00 0.00 0.00 3.95
698 1192 7.335924 TCCAGAAAGACAAATATTTAGGAACGG 59.664 37.037 0.00 0.00 0.00 4.44
699 1193 7.335924 CCAGAAAGACAAATATTTAGGAACGGA 59.664 37.037 0.00 0.00 0.00 4.69
700 1194 8.391106 CAGAAAGACAAATATTTAGGAACGGAG 58.609 37.037 0.00 0.00 0.00 4.63
701 1195 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
702 1196 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
705 1199 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
964 1482 1.465188 ACCATCCAGAACCCACCCA 60.465 57.895 0.00 0.00 0.00 4.51
965 1483 1.000896 CCATCCAGAACCCACCCAC 60.001 63.158 0.00 0.00 0.00 4.61
1017 1535 3.682292 GATGTCCACCGCACCCTCC 62.682 68.421 0.00 0.00 0.00 4.30
1029 1547 1.228800 ACCCTCCGAACTCGTCCTT 60.229 57.895 0.00 0.00 37.74 3.36
1042 1560 1.955778 TCGTCCTTTACAACCTCGTCA 59.044 47.619 0.00 0.00 0.00 4.35
1533 2625 6.166982 GGCTTGTTAGTCTTAGAGTGTTGAT 58.833 40.000 0.00 0.00 0.00 2.57
1534 2626 6.091441 GGCTTGTTAGTCTTAGAGTGTTGATG 59.909 42.308 0.00 0.00 0.00 3.07
1535 2627 6.868864 GCTTGTTAGTCTTAGAGTGTTGATGA 59.131 38.462 0.00 0.00 0.00 2.92
1536 2628 7.547370 GCTTGTTAGTCTTAGAGTGTTGATGAT 59.453 37.037 0.00 0.00 0.00 2.45
1566 2658 3.982516 TGGGCTCTGTAGTATCAGTCTT 58.017 45.455 0.00 0.00 36.85 3.01
1574 2666 2.480642 AGTATCAGTCTTCCCCTCCC 57.519 55.000 0.00 0.00 0.00 4.30
1649 2741 1.075970 CGAGTGATCAGGGGAGGGA 60.076 63.158 0.00 0.00 0.00 4.20
1650 2742 1.112315 CGAGTGATCAGGGGAGGGAG 61.112 65.000 0.00 0.00 0.00 4.30
1651 2743 0.762461 GAGTGATCAGGGGAGGGAGG 60.762 65.000 0.00 0.00 0.00 4.30
1652 2744 1.768077 GTGATCAGGGGAGGGAGGG 60.768 68.421 0.00 0.00 0.00 4.30
1685 2780 9.141400 GGATCGTAGAATTATTAGTGGCTTAAG 57.859 37.037 0.00 0.00 43.58 1.85
1718 2813 3.118629 TCTCTGTCAGTGTTTGTTGAGCT 60.119 43.478 0.00 0.00 0.00 4.09
1765 2860 4.338118 TGTCCAAGTTCTTGTGAATGGTTC 59.662 41.667 10.93 0.00 35.15 3.62
1776 2871 3.006940 GTGAATGGTTCGGTGCTCATTA 58.993 45.455 0.00 0.00 30.97 1.90
1778 2873 3.876914 TGAATGGTTCGGTGCTCATTATC 59.123 43.478 0.00 0.00 30.97 1.75
1821 2917 8.463930 CCTTTATGGCAATGTCCTATTTTCTA 57.536 34.615 0.00 0.00 0.00 2.10
1826 2922 5.593909 TGGCAATGTCCTATTTTCTACATGG 59.406 40.000 0.00 0.00 33.04 3.66
1831 2927 9.927668 CAATGTCCTATTTTCTACATGGTTTTT 57.072 29.630 0.00 0.00 33.04 1.94
1833 2929 8.472007 TGTCCTATTTTCTACATGGTTTTTGT 57.528 30.769 0.00 0.00 0.00 2.83
1834 2930 8.919145 TGTCCTATTTTCTACATGGTTTTTGTT 58.081 29.630 0.00 0.00 0.00 2.83
1836 2932 8.364142 TCCTATTTTCTACATGGTTTTTGTTGG 58.636 33.333 0.00 0.00 0.00 3.77
1852 2948 3.838565 TGTTGGTATTTGGCCTTCTGAA 58.161 40.909 3.32 0.00 0.00 3.02
1853 2949 3.572255 TGTTGGTATTTGGCCTTCTGAAC 59.428 43.478 3.32 0.00 0.00 3.18
1880 2978 1.008329 GATCTGACTGCAGCAGAAGC 58.992 55.000 30.91 24.35 44.71 3.86
1919 3017 9.803507 TTCCTTCATGCTTATTATCAGATCAAT 57.196 29.630 0.00 0.00 0.00 2.57
1957 3055 3.176411 TGGAGATCAACCTGTGACAGAT 58.824 45.455 15.33 0.00 39.72 2.90
2067 3165 1.733912 TCTTCACACGAATCTGCATGC 59.266 47.619 11.82 11.82 0.00 4.06
2068 3166 1.736126 CTTCACACGAATCTGCATGCT 59.264 47.619 20.33 0.00 0.00 3.79
2145 3244 4.323562 GGCCAGGACAGTATGAATATACCC 60.324 50.000 0.00 0.00 40.03 3.69
2169 3268 3.752747 GCATGCTTTGCCTATTTTTGGTT 59.247 39.130 11.37 0.00 46.15 3.67
2188 3287 2.749621 GTTGCATGGAAGTCAGGTAAGG 59.250 50.000 0.00 0.00 32.87 2.69
2194 3293 3.686016 TGGAAGTCAGGTAAGGCATTTC 58.314 45.455 0.00 0.00 0.00 2.17
2250 3349 9.727859 TGTAATACACTTTATGGTTAGCTCAAA 57.272 29.630 0.00 0.00 0.00 2.69
2372 5400 9.897744 GTTTTGTCATGATGAGAACTCAAAATA 57.102 29.630 17.88 1.87 43.58 1.40
2399 5427 8.648557 TGGTCATATTTATTTCTCTCTGAACG 57.351 34.615 0.00 0.00 33.88 3.95
2426 5454 5.164620 TCTGATCAACAGCAATGTAGGAA 57.835 39.130 0.00 0.00 45.38 3.36
2429 5457 4.641541 TGATCAACAGCAATGTAGGAATGG 59.358 41.667 0.00 0.00 0.00 3.16
2435 5463 4.080129 ACAGCAATGTAGGAATGGACTCAT 60.080 41.667 0.00 0.00 34.56 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 494 6.591448 TGACTCGCATGTGATGGATTATAATC 59.409 38.462 15.88 15.88 34.66 1.75
49 522 9.896645 ATGTTTCATACTGACATAGAATCTTGT 57.103 29.630 0.00 0.00 32.58 3.16
77 550 6.602803 TGTGGTGTGCATGTAAGATTTCATAT 59.397 34.615 0.00 0.00 0.00 1.78
100 573 7.504911 AGGAAATTGCTCATATATTGCTCTTGT 59.495 33.333 8.41 0.00 0.00 3.16
111 596 7.776969 TCTCTTGCTAAAGGAAATTGCTCATAT 59.223 33.333 0.00 0.00 33.90 1.78
112 597 7.112122 TCTCTTGCTAAAGGAAATTGCTCATA 58.888 34.615 0.00 0.00 33.90 2.15
113 598 5.948162 TCTCTTGCTAAAGGAAATTGCTCAT 59.052 36.000 0.00 0.00 33.90 2.90
114 599 5.316167 TCTCTTGCTAAAGGAAATTGCTCA 58.684 37.500 0.00 0.00 33.90 4.26
115 600 5.886960 TCTCTTGCTAAAGGAAATTGCTC 57.113 39.130 0.00 0.00 33.90 4.26
116 601 6.655078 TTTCTCTTGCTAAAGGAAATTGCT 57.345 33.333 0.00 0.00 32.40 3.91
281 767 5.657302 GGATGGTCTTTCCTTAGTAGTCTGA 59.343 44.000 0.00 0.00 37.07 3.27
298 784 6.544928 AAATGGTTTAAGATTGGGATGGTC 57.455 37.500 0.00 0.00 0.00 4.02
428 920 5.148651 ACAAAGGCACTAAACTCGTCTAT 57.851 39.130 0.00 0.00 38.49 1.98
435 927 7.582667 AATAAGTGAACAAAGGCACTAAACT 57.417 32.000 0.00 0.00 44.06 2.66
444 936 4.280677 TGGGCTGAAATAAGTGAACAAAGG 59.719 41.667 0.00 0.00 0.00 3.11
467 959 7.464273 TGGATATTTCAATCTGGACTGCATAT 58.536 34.615 0.00 0.00 0.00 1.78
509 1001 5.475909 TGTCTTTGTATGTACTCCTCGTTCT 59.524 40.000 0.00 0.00 0.00 3.01
513 1005 5.466819 TGTTGTCTTTGTATGTACTCCTCG 58.533 41.667 0.00 0.00 0.00 4.63
524 1018 9.059260 GGGAGTACTATTTTTGTTGTCTTTGTA 57.941 33.333 0.00 0.00 0.00 2.41
531 1025 5.221783 ACGGAGGGAGTACTATTTTTGTTGT 60.222 40.000 0.00 0.00 0.00 3.32
535 1029 5.581085 CAGAACGGAGGGAGTACTATTTTTG 59.419 44.000 0.00 0.00 0.00 2.44
537 1031 5.021458 TCAGAACGGAGGGAGTACTATTTT 58.979 41.667 0.00 0.00 0.00 1.82
540 1034 3.947612 TCAGAACGGAGGGAGTACTAT 57.052 47.619 0.00 0.00 0.00 2.12
541 1035 3.726557 TTCAGAACGGAGGGAGTACTA 57.273 47.619 0.00 0.00 0.00 1.82
542 1036 2.599408 TTCAGAACGGAGGGAGTACT 57.401 50.000 0.00 0.00 0.00 2.73
543 1037 3.889520 ATTTCAGAACGGAGGGAGTAC 57.110 47.619 0.00 0.00 0.00 2.73
544 1038 6.070424 ACAAATATTTCAGAACGGAGGGAGTA 60.070 38.462 0.00 0.00 0.00 2.59
545 1039 5.186198 CAAATATTTCAGAACGGAGGGAGT 58.814 41.667 0.00 0.00 0.00 3.85
546 1040 5.186198 ACAAATATTTCAGAACGGAGGGAG 58.814 41.667 0.00 0.00 0.00 4.30
547 1041 5.045869 AGACAAATATTTCAGAACGGAGGGA 60.046 40.000 0.00 0.00 0.00 4.20
548 1042 5.186198 AGACAAATATTTCAGAACGGAGGG 58.814 41.667 0.00 0.00 0.00 4.30
549 1043 6.743575 AAGACAAATATTTCAGAACGGAGG 57.256 37.500 0.00 0.00 0.00 4.30
550 1044 8.034058 AGAAAGACAAATATTTCAGAACGGAG 57.966 34.615 0.00 0.00 38.31 4.63
551 1045 7.979444 AGAAAGACAAATATTTCAGAACGGA 57.021 32.000 0.00 0.00 38.31 4.69
552 1046 8.391106 CCTAGAAAGACAAATATTTCAGAACGG 58.609 37.037 0.00 0.00 38.31 4.44
553 1047 7.905493 GCCTAGAAAGACAAATATTTCAGAACG 59.095 37.037 0.00 0.00 38.31 3.95
554 1048 8.730680 TGCCTAGAAAGACAAATATTTCAGAAC 58.269 33.333 0.00 0.00 38.31 3.01
555 1049 8.862325 TGCCTAGAAAGACAAATATTTCAGAA 57.138 30.769 0.00 0.00 38.31 3.02
556 1050 9.466497 AATGCCTAGAAAGACAAATATTTCAGA 57.534 29.630 0.00 0.00 38.31 3.27
563 1057 9.859427 CATTTGAAATGCCTAGAAAGACAAATA 57.141 29.630 4.82 0.00 34.96 1.40
564 1058 7.820872 CCATTTGAAATGCCTAGAAAGACAAAT 59.179 33.333 12.26 0.00 36.38 2.32
565 1059 7.153985 CCATTTGAAATGCCTAGAAAGACAAA 58.846 34.615 12.26 0.00 0.00 2.83
566 1060 6.295236 CCCATTTGAAATGCCTAGAAAGACAA 60.295 38.462 12.26 0.00 0.00 3.18
567 1061 5.185635 CCCATTTGAAATGCCTAGAAAGACA 59.814 40.000 12.26 0.00 0.00 3.41
568 1062 5.654497 CCCATTTGAAATGCCTAGAAAGAC 58.346 41.667 12.26 0.00 0.00 3.01
569 1063 4.160252 GCCCATTTGAAATGCCTAGAAAGA 59.840 41.667 12.26 0.00 0.00 2.52
570 1064 4.081531 TGCCCATTTGAAATGCCTAGAAAG 60.082 41.667 12.26 0.00 0.00 2.62
571 1065 3.837146 TGCCCATTTGAAATGCCTAGAAA 59.163 39.130 12.26 0.00 0.00 2.52
572 1066 3.195396 GTGCCCATTTGAAATGCCTAGAA 59.805 43.478 12.26 0.00 0.00 2.10
573 1067 2.760092 GTGCCCATTTGAAATGCCTAGA 59.240 45.455 12.26 0.00 0.00 2.43
574 1068 2.496871 TGTGCCCATTTGAAATGCCTAG 59.503 45.455 12.26 2.44 0.00 3.02
575 1069 2.533916 TGTGCCCATTTGAAATGCCTA 58.466 42.857 12.26 0.00 0.00 3.93
576 1070 1.350071 TGTGCCCATTTGAAATGCCT 58.650 45.000 12.26 0.00 0.00 4.75
577 1071 1.805943 GTTGTGCCCATTTGAAATGCC 59.194 47.619 12.26 6.19 0.00 4.40
578 1072 1.460359 CGTTGTGCCCATTTGAAATGC 59.540 47.619 12.26 3.00 0.00 3.56
579 1073 2.753296 ACGTTGTGCCCATTTGAAATG 58.247 42.857 10.84 10.84 0.00 2.32
580 1074 3.610585 CGTACGTTGTGCCCATTTGAAAT 60.611 43.478 7.22 0.00 0.00 2.17
581 1075 2.287069 CGTACGTTGTGCCCATTTGAAA 60.287 45.455 7.22 0.00 0.00 2.69
582 1076 1.264557 CGTACGTTGTGCCCATTTGAA 59.735 47.619 7.22 0.00 0.00 2.69
583 1077 0.869068 CGTACGTTGTGCCCATTTGA 59.131 50.000 7.22 0.00 0.00 2.69
584 1078 0.589223 ACGTACGTTGTGCCCATTTG 59.411 50.000 16.72 0.00 0.00 2.32
585 1079 2.166821 TACGTACGTTGTGCCCATTT 57.833 45.000 27.92 0.00 0.00 2.32
586 1080 2.389962 ATACGTACGTTGTGCCCATT 57.610 45.000 27.92 0.00 0.00 3.16
587 1081 2.389962 AATACGTACGTTGTGCCCAT 57.610 45.000 27.92 9.08 0.00 4.00
588 1082 3.188492 CATAATACGTACGTTGTGCCCA 58.812 45.455 27.92 6.75 0.00 5.36
589 1083 3.189285 ACATAATACGTACGTTGTGCCC 58.811 45.455 27.92 0.00 0.00 5.36
590 1084 5.172053 GTCTACATAATACGTACGTTGTGCC 59.828 44.000 27.92 12.12 0.00 5.01
591 1085 5.967674 AGTCTACATAATACGTACGTTGTGC 59.032 40.000 27.92 16.88 0.00 4.57
592 1086 7.959718 AAGTCTACATAATACGTACGTTGTG 57.040 36.000 27.92 19.36 0.00 3.33
623 1117 8.963130 CGAGACAAAATGAGTGAATCTATACTC 58.037 37.037 0.00 0.00 42.77 2.59
624 1118 8.470805 ACGAGACAAAATGAGTGAATCTATACT 58.529 33.333 0.00 0.00 0.00 2.12
625 1119 8.635877 ACGAGACAAAATGAGTGAATCTATAC 57.364 34.615 0.00 0.00 0.00 1.47
627 1121 9.254133 CATACGAGACAAAATGAGTGAATCTAT 57.746 33.333 0.00 0.00 0.00 1.98
628 1122 8.251026 ACATACGAGACAAAATGAGTGAATCTA 58.749 33.333 0.00 0.00 0.00 1.98
629 1123 7.099764 ACATACGAGACAAAATGAGTGAATCT 58.900 34.615 0.00 0.00 0.00 2.40
630 1124 7.295952 ACATACGAGACAAAATGAGTGAATC 57.704 36.000 0.00 0.00 0.00 2.52
631 1125 8.035394 ACTACATACGAGACAAAATGAGTGAAT 58.965 33.333 0.00 0.00 0.00 2.57
632 1126 7.375834 ACTACATACGAGACAAAATGAGTGAA 58.624 34.615 0.00 0.00 0.00 3.18
633 1127 6.920817 ACTACATACGAGACAAAATGAGTGA 58.079 36.000 0.00 0.00 0.00 3.41
634 1128 6.806739 TGACTACATACGAGACAAAATGAGTG 59.193 38.462 0.00 0.00 0.00 3.51
635 1129 6.807230 GTGACTACATACGAGACAAAATGAGT 59.193 38.462 0.00 0.00 0.00 3.41
636 1130 7.030165 AGTGACTACATACGAGACAAAATGAG 58.970 38.462 0.00 0.00 0.00 2.90
637 1131 6.920817 AGTGACTACATACGAGACAAAATGA 58.079 36.000 0.00 0.00 0.00 2.57
638 1132 7.116376 ACAAGTGACTACATACGAGACAAAATG 59.884 37.037 0.00 0.00 0.00 2.32
639 1133 7.152645 ACAAGTGACTACATACGAGACAAAAT 58.847 34.615 0.00 0.00 0.00 1.82
640 1134 6.509656 ACAAGTGACTACATACGAGACAAAA 58.490 36.000 0.00 0.00 0.00 2.44
641 1135 6.080648 ACAAGTGACTACATACGAGACAAA 57.919 37.500 0.00 0.00 0.00 2.83
642 1136 5.700722 ACAAGTGACTACATACGAGACAA 57.299 39.130 0.00 0.00 0.00 3.18
643 1137 5.700722 AACAAGTGACTACATACGAGACA 57.299 39.130 0.00 0.00 0.00 3.41
644 1138 8.511465 TTTTAACAAGTGACTACATACGAGAC 57.489 34.615 0.00 0.00 0.00 3.36
645 1139 9.350357 GATTTTAACAAGTGACTACATACGAGA 57.650 33.333 0.00 0.00 0.00 4.04
646 1140 9.355215 AGATTTTAACAAGTGACTACATACGAG 57.645 33.333 0.00 0.00 0.00 4.18
647 1141 9.350357 GAGATTTTAACAAGTGACTACATACGA 57.650 33.333 0.00 0.00 0.00 3.43
648 1142 8.592998 GGAGATTTTAACAAGTGACTACATACG 58.407 37.037 0.00 0.00 0.00 3.06
649 1143 9.431887 TGGAGATTTTAACAAGTGACTACATAC 57.568 33.333 0.00 0.00 0.00 2.39
650 1144 9.653287 CTGGAGATTTTAACAAGTGACTACATA 57.347 33.333 0.00 0.00 0.00 2.29
651 1145 8.375506 TCTGGAGATTTTAACAAGTGACTACAT 58.624 33.333 0.00 0.00 0.00 2.29
652 1146 7.732025 TCTGGAGATTTTAACAAGTGACTACA 58.268 34.615 0.00 0.00 0.00 2.74
653 1147 8.603242 TTCTGGAGATTTTAACAAGTGACTAC 57.397 34.615 0.00 0.00 0.00 2.73
654 1148 9.273016 CTTTCTGGAGATTTTAACAAGTGACTA 57.727 33.333 0.00 0.00 0.00 2.59
655 1149 7.993183 TCTTTCTGGAGATTTTAACAAGTGACT 59.007 33.333 0.00 0.00 0.00 3.41
656 1150 8.070769 GTCTTTCTGGAGATTTTAACAAGTGAC 58.929 37.037 0.00 0.00 0.00 3.67
657 1151 7.773224 TGTCTTTCTGGAGATTTTAACAAGTGA 59.227 33.333 0.00 0.00 0.00 3.41
658 1152 7.930217 TGTCTTTCTGGAGATTTTAACAAGTG 58.070 34.615 0.00 0.00 0.00 3.16
659 1153 8.519799 TTGTCTTTCTGGAGATTTTAACAAGT 57.480 30.769 0.00 0.00 0.00 3.16
660 1154 9.971922 ATTTGTCTTTCTGGAGATTTTAACAAG 57.028 29.630 0.00 0.00 0.00 3.16
670 1164 9.449719 GTTCCTAAATATTTGTCTTTCTGGAGA 57.550 33.333 11.05 0.00 0.00 3.71
671 1165 8.391106 CGTTCCTAAATATTTGTCTTTCTGGAG 58.609 37.037 11.05 0.00 0.00 3.86
672 1166 7.335924 CCGTTCCTAAATATTTGTCTTTCTGGA 59.664 37.037 11.05 3.34 0.00 3.86
673 1167 7.335924 TCCGTTCCTAAATATTTGTCTTTCTGG 59.664 37.037 11.05 3.95 0.00 3.86
674 1168 8.263940 TCCGTTCCTAAATATTTGTCTTTCTG 57.736 34.615 11.05 0.00 0.00 3.02
675 1169 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
676 1170 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
677 1171 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
678 1172 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
679 1173 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
680 1174 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
681 1175 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
682 1176 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
683 1177 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
684 1178 6.785963 TGATACTCCCTCCGTTCCTAAATATT 59.214 38.462 0.00 0.00 0.00 1.28
685 1179 6.320518 TGATACTCCCTCCGTTCCTAAATAT 58.679 40.000 0.00 0.00 0.00 1.28
686 1180 5.708544 TGATACTCCCTCCGTTCCTAAATA 58.291 41.667 0.00 0.00 0.00 1.40
687 1181 4.553678 TGATACTCCCTCCGTTCCTAAAT 58.446 43.478 0.00 0.00 0.00 1.40
688 1182 3.985127 TGATACTCCCTCCGTTCCTAAA 58.015 45.455 0.00 0.00 0.00 1.85
689 1183 3.675348 TGATACTCCCTCCGTTCCTAA 57.325 47.619 0.00 0.00 0.00 2.69
690 1184 3.897657 ATGATACTCCCTCCGTTCCTA 57.102 47.619 0.00 0.00 0.00 2.94
691 1185 2.777459 ATGATACTCCCTCCGTTCCT 57.223 50.000 0.00 0.00 0.00 3.36
692 1186 3.840124 AAATGATACTCCCTCCGTTCC 57.160 47.619 0.00 0.00 0.00 3.62
798 1294 9.937876 TCTCAAACTAAATCTCTTCCCTAGATA 57.062 33.333 0.00 0.00 33.32 1.98
817 1320 9.927668 TTTCCATTTCTATTTTCCATCTCAAAC 57.072 29.630 0.00 0.00 0.00 2.93
833 1336 4.261614 GCCGTTTCACTTCTTTCCATTTCT 60.262 41.667 0.00 0.00 0.00 2.52
844 1347 1.658114 GGTTGGGCCGTTTCACTTC 59.342 57.895 0.00 0.00 0.00 3.01
879 1397 3.746432 CGGGGTGGTTTTATAGGATGGAC 60.746 52.174 0.00 0.00 0.00 4.02
1017 1535 2.985139 GAGGTTGTAAAGGACGAGTTCG 59.015 50.000 0.00 0.00 46.33 3.95
1042 1560 1.228644 GGTTTAGGGTTTGGGCGGT 60.229 57.895 0.00 0.00 0.00 5.68
1221 2310 3.482783 GTGAGCTGGAAGACGCGC 61.483 66.667 5.73 0.00 34.07 6.86
1566 2658 3.980698 AGATTCAATTATTCGGGAGGGGA 59.019 43.478 0.00 0.00 0.00 4.81
1574 2666 6.578545 CCGTGGCAATAAGATTCAATTATTCG 59.421 38.462 0.00 0.00 31.94 3.34
1649 2741 0.481567 TCTACGATCCGAATCCCCCT 59.518 55.000 0.00 0.00 0.00 4.79
1650 2742 1.335145 TTCTACGATCCGAATCCCCC 58.665 55.000 0.00 0.00 0.00 5.40
1651 2743 3.679824 AATTCTACGATCCGAATCCCC 57.320 47.619 0.00 0.00 0.00 4.81
1652 2744 7.488471 CACTAATAATTCTACGATCCGAATCCC 59.512 40.741 0.00 0.00 0.00 3.85
1697 2792 3.201290 AGCTCAACAAACACTGACAGAG 58.799 45.455 10.08 3.49 0.00 3.35
1718 2813 4.713553 TGTTTCCAACATCAAGAGCACTA 58.286 39.130 0.00 0.00 36.25 2.74
1765 2860 6.638063 CACCATTTAAATGATAATGAGCACCG 59.362 38.462 26.32 9.52 38.70 4.94
1776 2871 6.796785 AAGGCTAAGCACCATTTAAATGAT 57.203 33.333 26.32 9.63 38.70 2.45
1778 2873 7.439056 CCATAAAGGCTAAGCACCATTTAAATG 59.561 37.037 19.40 19.40 36.17 2.32
1821 2917 4.819088 GCCAAATACCAACAAAAACCATGT 59.181 37.500 0.00 0.00 0.00 3.21
1826 2922 5.236263 CAGAAGGCCAAATACCAACAAAAAC 59.764 40.000 5.01 0.00 0.00 2.43
1831 2927 3.517296 TCAGAAGGCCAAATACCAACA 57.483 42.857 5.01 0.00 0.00 3.33
1833 2929 3.838565 TGTTCAGAAGGCCAAATACCAA 58.161 40.909 5.01 0.00 0.00 3.67
1834 2930 3.517296 TGTTCAGAAGGCCAAATACCA 57.483 42.857 5.01 0.00 0.00 3.25
1836 2932 5.652452 AGGTATTGTTCAGAAGGCCAAATAC 59.348 40.000 5.01 5.90 0.00 1.89
1852 2948 3.681034 GCTGCAGTCAGATCAGGTATTGT 60.681 47.826 16.64 0.00 42.95 2.71
1853 2949 2.871022 GCTGCAGTCAGATCAGGTATTG 59.129 50.000 16.64 0.00 42.95 1.90
1880 2978 5.533903 AGCATGAAGGAAGTATTATGCCAAG 59.466 40.000 0.00 0.00 41.20 3.61
1919 3017 5.914898 TCTCCAATTTCGACTATCACAGA 57.085 39.130 0.00 0.00 0.00 3.41
1957 3055 2.655090 TCCAACCAACAGCAATCTCA 57.345 45.000 0.00 0.00 0.00 3.27
2067 3165 5.734720 ACATATGACCTGACTACAAACCAG 58.265 41.667 10.38 0.00 0.00 4.00
2068 3166 5.755409 ACATATGACCTGACTACAAACCA 57.245 39.130 10.38 0.00 0.00 3.67
2169 3268 1.340017 GCCTTACCTGACTTCCATGCA 60.340 52.381 0.00 0.00 0.00 3.96
2352 3455 8.812513 ACCATTATTTTGAGTTCTCATCATGA 57.187 30.769 0.00 0.00 0.00 3.07
2426 5454 0.033796 CAGGGGCACAATGAGTCCAT 60.034 55.000 3.38 0.00 33.66 3.41
2429 5457 1.457346 CTTCAGGGGCACAATGAGTC 58.543 55.000 0.00 0.00 0.00 3.36
2435 5463 3.506743 TGGGCTTCAGGGGCACAA 61.507 61.111 0.00 0.00 40.37 3.33


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

AutoCloner maintained by Alex Coulton.