Multiple sequence alignment - TraesCS7B01G365000

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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 TraesCS7B01G365000 chr7B 100.000 4741 0 0 1 4741 628450682 628455422 0.000000e+00 8756.0
1 TraesCS7B01G365000 chr7B 89.053 2430 176 35 1531 3891 627446101 627443693 0.000000e+00 2931.0
2 TraesCS7B01G365000 chr7B 87.595 395 36 10 937 1323 627446521 627446132 3.370000e-121 446.0
3 TraesCS7B01G365000 chr7D 92.379 3569 179 34 811 4341 571861746 571865259 0.000000e+00 4998.0
4 TraesCS7B01G365000 chr7D 88.536 2015 156 38 940 2895 571274643 571272645 0.000000e+00 2372.0
5 TraesCS7B01G365000 chr7D 89.234 901 64 8 3008 3891 571272547 571271663 0.000000e+00 1096.0
6 TraesCS7B01G365000 chr7D 88.812 581 56 7 1 576 571860749 571861325 0.000000e+00 704.0
7 TraesCS7B01G365000 chr7D 87.258 361 28 5 4399 4741 571865904 571866264 3.440000e-106 396.0
8 TraesCS7B01G365000 chr7D 88.112 143 17 0 588 730 571861615 571861757 2.270000e-38 171.0
9 TraesCS7B01G365000 chr7A 88.001 3042 235 61 937 3891 660466945 660463947 0.000000e+00 3476.0
10 TraesCS7B01G365000 chr7A 89.673 1588 120 19 2165 3722 661158130 661159703 0.000000e+00 1984.0
11 TraesCS7B01G365000 chr7A 91.939 856 49 5 1153 2007 661157253 661158089 0.000000e+00 1181.0
12 TraesCS7B01G365000 chr7A 90.244 328 16 7 811 1122 661156928 661157255 9.490000e-112 414.0
13 TraesCS7B01G365000 chr3D 88.086 512 41 8 3389 3892 17702297 17701798 1.470000e-164 590.0
14 TraesCS7B01G365000 chr2B 77.258 299 36 17 560 835 160399255 160399544 3.820000e-31 147.0
15 TraesCS7B01G365000 chr1B 77.632 228 39 7 563 781 167468545 167468321 1.380000e-25 128.0
16 TraesCS7B01G365000 chr3A 82.540 126 18 4 679 801 72478284 72478408 1.800000e-19 108.0
17 TraesCS7B01G365000 chr1A 78.125 160 24 6 679 827 554878567 554878408 1.820000e-14 91.6
18 TraesCS7B01G365000 chr1A 78.571 112 19 2 690 801 67687488 67687594 8.510000e-08 69.4
19 TraesCS7B01G365000 chr1A 100.000 29 0 0 808 836 291655765 291655737 2.000000e-03 54.7
20 TraesCS7B01G365000 chr6B 75.510 196 40 3 614 801 672859091 672859286 6.530000e-14 89.8
21 TraesCS7B01G365000 chr6B 100.000 29 0 0 807 835 28066954 28066926 2.000000e-03 54.7
22 TraesCS7B01G365000 chr2A 75.723 173 28 11 675 834 456172952 456172781 1.830000e-09 75.0
23 TraesCS7B01G365000 chr2A 100.000 29 0 0 809 837 17859081 17859109 2.000000e-03 54.7
24 TraesCS7B01G365000 chr4A 85.333 75 5 5 335 407 539588339 539588269 6.580000e-09 73.1
25 TraesCS7B01G365000 chr4A 94.286 35 1 1 802 835 68972448 68972482 9.000000e-03 52.8
26 TraesCS7B01G365000 chr5A 87.500 48 4 2 802 847 276637401 276637448 2.000000e-03 54.7
27 TraesCS7B01G365000 chr4D 94.286 35 1 1 802 835 35207531 35207497 9.000000e-03 52.8
28 TraesCS7B01G365000 chr3B 94.286 35 1 1 802 835 629353739 629353773 9.000000e-03 52.8


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 TraesCS7B01G365000 chr7B 628450682 628455422 4740 False 8756.00 8756 100.000000 1 4741 1 chr7B.!!$F1 4740
1 TraesCS7B01G365000 chr7B 627443693 627446521 2828 True 1688.50 2931 88.324000 937 3891 2 chr7B.!!$R1 2954
2 TraesCS7B01G365000 chr7D 571271663 571274643 2980 True 1734.00 2372 88.885000 940 3891 2 chr7D.!!$R1 2951
3 TraesCS7B01G365000 chr7D 571860749 571866264 5515 False 1567.25 4998 89.140250 1 4741 4 chr7D.!!$F1 4740
4 TraesCS7B01G365000 chr7A 660463947 660466945 2998 True 3476.00 3476 88.001000 937 3891 1 chr7A.!!$R1 2954
5 TraesCS7B01G365000 chr7A 661156928 661159703 2775 False 1193.00 1984 90.618667 811 3722 3 chr7A.!!$F1 2911

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
304 308 0.032017 ACCGAAGTATGAGCCCTCCT 60.032 55.0 0.00 0.0 0.00 3.69 F
915 1201 0.036306 AGGCATTTCGGTTCGGAAGT 59.964 50.0 0.00 0.0 0.00 3.01 F
1862 2220 0.818938 CTGTGCCATGCCAATGCTTA 59.181 50.0 0.00 0.0 38.71 3.09 F
2821 3215 1.098050 ACTCGCTTGATTGCATTCCC 58.902 50.0 6.16 0.0 0.00 3.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1732 2075 2.126307 CACGACTGTCAGCTCCCG 60.126 66.667 8.73 1.64 0.00 5.14 R
2638 3032 0.405585 AACAGGTGGTCCCAAGATGG 59.594 55.000 0.00 0.00 37.25 3.51 R
3692 4179 1.004044 CATGACAGCCTCCTCTGGTTT 59.996 52.381 0.00 0.00 38.36 3.27 R
4430 5511 0.032540 GTACCGTGGGTTCAAGACGT 59.967 55.000 0.00 0.00 37.09 4.34 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
19 20 0.380378 CACCAGAACAACAACCACCG 59.620 55.000 0.00 0.00 0.00 4.94
22 23 0.667993 CAGAACAACAACCACCGCAT 59.332 50.000 0.00 0.00 0.00 4.73
39 40 4.202161 ACCGCATATGAAGAGAAGTGTAGG 60.202 45.833 6.97 0.00 0.00 3.18
46 47 3.506455 TGAAGAGAAGTGTAGGTCGGAAG 59.494 47.826 0.00 0.00 0.00 3.46
80 81 1.126846 GACAAGAATGCAGACGAACGG 59.873 52.381 0.00 0.00 0.00 4.44
105 106 1.658717 GATCCACGCAGATCCGACG 60.659 63.158 4.32 0.00 37.31 5.12
112 113 0.456142 CGCAGATCCGACGAAGACAA 60.456 55.000 0.00 0.00 0.00 3.18
121 122 0.318784 GACGAAGACAAGCACCGACT 60.319 55.000 0.00 0.00 0.00 4.18
128 129 2.007608 GACAAGCACCGACTAAATCCC 58.992 52.381 0.00 0.00 0.00 3.85
154 155 2.526888 TCCGTTGGAGACATACCTCT 57.473 50.000 0.00 0.00 42.32 3.69
156 157 3.285484 TCCGTTGGAGACATACCTCTAC 58.715 50.000 0.00 0.00 42.32 2.59
157 158 3.021695 CCGTTGGAGACATACCTCTACA 58.978 50.000 0.00 0.00 42.32 2.74
158 159 3.446161 CCGTTGGAGACATACCTCTACAA 59.554 47.826 0.00 0.00 38.57 2.41
159 160 4.440250 CCGTTGGAGACATACCTCTACAAG 60.440 50.000 0.00 0.00 41.05 3.16
162 163 2.365941 GGAGACATACCTCTACAAGCCC 59.634 54.545 0.00 0.00 33.79 5.19
176 177 0.036010 AAGCCCTCCAATGACACGAG 60.036 55.000 0.00 0.00 0.00 4.18
178 179 0.741221 GCCCTCCAATGACACGAGAC 60.741 60.000 0.00 0.00 0.00 3.36
184 185 1.733041 AATGACACGAGACGCACCG 60.733 57.895 0.00 0.00 0.00 4.94
185 186 2.416244 AATGACACGAGACGCACCGT 62.416 55.000 0.00 0.00 45.10 4.83
209 210 0.912487 ACGAGGGGCAACATAGGGAA 60.912 55.000 0.00 0.00 39.74 3.97
230 233 0.753111 ATTCCATTCAAGGAGCCGCC 60.753 55.000 0.00 0.00 39.25 6.13
248 252 2.646175 CCCGCCTCGACTTCCTGAA 61.646 63.158 0.00 0.00 0.00 3.02
252 256 1.149148 GCCTCGACTTCCTGAACAAC 58.851 55.000 0.00 0.00 0.00 3.32
260 264 4.201910 CGACTTCCTGAACAACACACAAAT 60.202 41.667 0.00 0.00 0.00 2.32
261 265 5.650543 GACTTCCTGAACAACACACAAATT 58.349 37.500 0.00 0.00 0.00 1.82
269 273 7.220683 CCTGAACAACACACAAATTCTAAACAG 59.779 37.037 0.00 0.00 0.00 3.16
298 302 6.663944 AAACATCTAAACCGAAGTATGAGC 57.336 37.500 0.00 0.00 0.00 4.26
304 308 0.032017 ACCGAAGTATGAGCCCTCCT 60.032 55.000 0.00 0.00 0.00 3.69
327 331 2.275089 CAATGGCCGGGATCCACA 59.725 61.111 15.23 7.10 36.26 4.17
328 332 1.152694 CAATGGCCGGGATCCACAT 60.153 57.895 15.23 9.19 36.26 3.21
341 345 2.558286 CCACATCGCATCCATGGCC 61.558 63.158 6.96 0.00 0.00 5.36
364 368 0.687757 AGGCCATAAGAGACGAGGCA 60.688 55.000 5.01 0.00 46.96 4.75
368 372 2.224161 GCCATAAGAGACGAGGCAGATT 60.224 50.000 0.00 0.00 44.59 2.40
378 382 1.134530 GAGGCAGATTGACGACGACG 61.135 60.000 5.58 5.58 45.75 5.12
410 414 2.893637 CATGGAAACCCTAGACGACTG 58.106 52.381 0.00 0.00 0.00 3.51
415 419 1.465794 AACCCTAGACGACTGAGAGC 58.534 55.000 0.00 0.00 0.00 4.09
449 453 1.631388 TCGGGAGTGTCTCTTCTCTCT 59.369 52.381 0.00 0.00 0.00 3.10
462 466 1.216710 CTCTCTTGTCCTCCCGTGC 59.783 63.158 0.00 0.00 0.00 5.34
471 475 2.743718 CTCCCGTGCACTCTGGTT 59.256 61.111 16.19 0.00 0.00 3.67
485 489 6.818644 TGCACTCTGGTTTACTTGAATCTATC 59.181 38.462 0.00 0.00 0.00 2.08
486 490 6.019479 GCACTCTGGTTTACTTGAATCTATCG 60.019 42.308 0.00 0.00 0.00 2.92
553 557 2.765502 AGGTAGAGATTCACTTCCCCC 58.234 52.381 3.69 0.00 0.00 5.40
555 559 2.385803 GTAGAGATTCACTTCCCCCGA 58.614 52.381 0.00 0.00 0.00 5.14
559 563 2.370189 GAGATTCACTTCCCCCGATGAT 59.630 50.000 0.00 0.00 0.00 2.45
560 564 2.370189 AGATTCACTTCCCCCGATGATC 59.630 50.000 0.00 0.00 0.00 2.92
566 570 4.067896 CACTTCCCCCGATGATCATTAAG 58.932 47.826 10.14 9.28 0.00 1.85
582 586 9.453572 TGATCATTAAGAGCAAGTAAATTGAGT 57.546 29.630 0.00 0.00 40.22 3.41
583 587 9.713740 GATCATTAAGAGCAAGTAAATTGAGTG 57.286 33.333 0.00 0.00 41.83 3.51
584 588 8.846943 TCATTAAGAGCAAGTAAATTGAGTGA 57.153 30.769 0.00 0.00 41.83 3.41
585 589 8.721478 TCATTAAGAGCAAGTAAATTGAGTGAC 58.279 33.333 0.00 0.00 41.83 3.67
607 889 4.780021 ACATAGGTGGGCTATAAGAGATGG 59.220 45.833 0.00 0.00 0.00 3.51
629 911 4.955925 CACATTAGATTTGTGCCGGTTA 57.044 40.909 1.90 0.00 38.18 2.85
630 912 4.908736 CACATTAGATTTGTGCCGGTTAG 58.091 43.478 1.90 0.00 38.18 2.34
643 925 1.491332 CCGGTTAGAGGAGAGAGGAGA 59.509 57.143 0.00 0.00 0.00 3.71
648 930 4.104102 GGTTAGAGGAGAGAGGAGATGAGA 59.896 50.000 0.00 0.00 0.00 3.27
659 941 5.688807 AGAGGAGATGAGAGAGAAGAGAAG 58.311 45.833 0.00 0.00 0.00 2.85
661 943 3.003689 GGAGATGAGAGAGAAGAGAAGCG 59.996 52.174 0.00 0.00 0.00 4.68
695 977 1.078426 GTAGCACGAGCCCCAACAT 60.078 57.895 0.00 0.00 43.56 2.71
696 978 1.090052 GTAGCACGAGCCCCAACATC 61.090 60.000 0.00 0.00 43.56 3.06
702 984 0.609131 CGAGCCCCAACATCCTTTGT 60.609 55.000 0.00 0.00 41.53 2.83
706 988 1.547675 GCCCCAACATCCTTTGTGAGA 60.548 52.381 0.00 0.00 38.99 3.27
711 993 4.217118 CCCAACATCCTTTGTGAGAGAAAG 59.783 45.833 0.00 0.00 38.99 2.62
719 1001 4.261825 CCTTTGTGAGAGAAAGAGACGAGT 60.262 45.833 0.00 0.00 33.01 4.18
724 1006 5.883115 TGTGAGAGAAAGAGACGAGTCATAT 59.117 40.000 5.99 0.00 0.00 1.78
725 1007 7.048512 TGTGAGAGAAAGAGACGAGTCATATA 58.951 38.462 5.99 0.00 0.00 0.86
726 1008 7.717436 TGTGAGAGAAAGAGACGAGTCATATAT 59.283 37.037 5.99 0.00 0.00 0.86
727 1009 8.564574 GTGAGAGAAAGAGACGAGTCATATATT 58.435 37.037 5.99 0.00 0.00 1.28
728 1010 9.780186 TGAGAGAAAGAGACGAGTCATATATTA 57.220 33.333 5.99 0.00 0.00 0.98
802 1084 8.856490 GGTTGATTATAAATGACATGACAACC 57.144 34.615 0.00 0.00 43.68 3.77
803 1085 7.643764 GGTTGATTATAAATGACATGACAACCG 59.356 37.037 0.00 0.00 42.05 4.44
804 1086 7.258022 TGATTATAAATGACATGACAACCGG 57.742 36.000 0.00 0.00 0.00 5.28
805 1087 5.493133 TTATAAATGACATGACAACCGGC 57.507 39.130 0.00 0.00 0.00 6.13
806 1088 1.909700 AAATGACATGACAACCGGCT 58.090 45.000 0.00 0.00 0.00 5.52
807 1089 1.909700 AATGACATGACAACCGGCTT 58.090 45.000 0.00 0.00 0.00 4.35
808 1090 1.909700 ATGACATGACAACCGGCTTT 58.090 45.000 0.00 0.00 0.00 3.51
809 1091 0.950836 TGACATGACAACCGGCTTTG 59.049 50.000 0.00 1.39 0.00 2.77
810 1092 0.240945 GACATGACAACCGGCTTTGG 59.759 55.000 0.00 0.00 0.00 3.28
811 1093 1.080569 CATGACAACCGGCTTTGGC 60.081 57.895 0.00 1.54 34.77 4.52
812 1094 1.228552 ATGACAACCGGCTTTGGCT 60.229 52.632 11.61 0.00 35.30 4.75
813 1095 0.037590 ATGACAACCGGCTTTGGCTA 59.962 50.000 11.61 0.00 35.30 3.93
814 1096 0.037590 TGACAACCGGCTTTGGCTAT 59.962 50.000 11.61 0.00 35.30 2.97
815 1097 1.279558 TGACAACCGGCTTTGGCTATA 59.720 47.619 11.61 0.00 35.30 1.31
816 1098 1.669265 GACAACCGGCTTTGGCTATAC 59.331 52.381 0.00 0.00 38.73 1.47
868 1154 3.366781 CGATGAAGACTGAAGAGCACAGA 60.367 47.826 0.00 0.00 38.55 3.41
910 1196 0.878416 TTTGGAGGCATTTCGGTTCG 59.122 50.000 0.00 0.00 0.00 3.95
914 1200 0.727398 GAGGCATTTCGGTTCGGAAG 59.273 55.000 0.00 0.00 0.00 3.46
915 1201 0.036306 AGGCATTTCGGTTCGGAAGT 59.964 50.000 0.00 0.00 0.00 3.01
916 1202 1.276989 AGGCATTTCGGTTCGGAAGTA 59.723 47.619 0.00 0.00 0.00 2.24
917 1203 1.395954 GGCATTTCGGTTCGGAAGTAC 59.604 52.381 0.00 0.00 0.00 2.73
927 1224 2.978489 GTTCGGAAGTACACTCGACTTG 59.022 50.000 0.00 0.00 37.27 3.16
933 1230 1.063806 GTACACTCGACTTGCAGCAG 58.936 55.000 0.00 0.00 0.00 4.24
982 1283 4.609018 ACGCGCAACAGCTCACCT 62.609 61.111 5.73 0.00 34.40 4.00
1123 1429 2.747855 CCCCTTGGCTGCGTCTTC 60.748 66.667 0.00 0.00 0.00 2.87
1185 1496 1.002624 TCTCTTCCGCCGCCATTTT 60.003 52.632 0.00 0.00 0.00 1.82
1187 1498 1.586154 CTCTTCCGCCGCCATTTTGT 61.586 55.000 0.00 0.00 0.00 2.83
1206 1517 3.460995 AGATCCGAATCTCCCGGC 58.539 61.111 0.00 0.00 46.10 6.13
1217 1528 2.437716 TCCCGGCCGAATTCTTGC 60.438 61.111 30.73 6.11 0.00 4.01
1285 1602 4.519213 CGGGGATTGTGAAATGTAGGTTA 58.481 43.478 0.00 0.00 0.00 2.85
1412 1733 2.636893 CTGAGAGGAACATCTATGGGGG 59.363 54.545 0.00 0.00 0.00 5.40
1449 1770 9.715121 CTTAAGTTTGGTGACTATAACCTGTAA 57.285 33.333 0.00 0.00 38.60 2.41
1608 1945 8.267183 ACTAATAGTGATGGTGATGAAATGACA 58.733 33.333 0.00 0.00 29.31 3.58
1620 1957 9.132521 GGTGATGAAATGACAGTTCTTTTTATG 57.867 33.333 15.91 0.00 29.31 1.90
1732 2075 3.709653 TGATGACCTGGTGAGGGTATTAC 59.290 47.826 2.82 0.00 44.84 1.89
1743 2086 1.117150 GGGTATTACGGGAGCTGACA 58.883 55.000 0.00 0.00 0.00 3.58
1862 2220 0.818938 CTGTGCCATGCCAATGCTTA 59.181 50.000 0.00 0.00 38.71 3.09
1863 2221 1.411246 CTGTGCCATGCCAATGCTTAT 59.589 47.619 0.00 0.00 38.71 1.73
1864 2222 1.137282 TGTGCCATGCCAATGCTTATG 59.863 47.619 0.00 0.00 38.71 1.90
1865 2223 1.409790 GTGCCATGCCAATGCTTATGA 59.590 47.619 0.00 0.00 38.71 2.15
1866 2224 2.108970 TGCCATGCCAATGCTTATGAA 58.891 42.857 0.00 0.00 38.71 2.57
1867 2225 2.101750 TGCCATGCCAATGCTTATGAAG 59.898 45.455 0.00 0.00 38.71 3.02
1868 2226 2.101917 GCCATGCCAATGCTTATGAAGT 59.898 45.455 0.00 0.00 38.71 3.01
1869 2227 3.431207 GCCATGCCAATGCTTATGAAGTT 60.431 43.478 0.00 0.00 38.71 2.66
1870 2228 4.761975 CCATGCCAATGCTTATGAAGTTT 58.238 39.130 0.00 0.00 38.71 2.66
1871 2229 5.180271 CCATGCCAATGCTTATGAAGTTTT 58.820 37.500 0.00 0.00 38.71 2.43
1872 2230 5.292589 CCATGCCAATGCTTATGAAGTTTTC 59.707 40.000 0.00 0.00 38.71 2.29
1873 2231 5.465532 TGCCAATGCTTATGAAGTTTTCA 57.534 34.783 0.00 0.00 40.49 2.69
1874 2232 6.040209 TGCCAATGCTTATGAAGTTTTCAT 57.960 33.333 9.07 9.07 44.74 2.57
1875 2233 6.465948 TGCCAATGCTTATGAAGTTTTCATT 58.534 32.000 9.34 0.00 42.18 2.57
1876 2234 6.591062 TGCCAATGCTTATGAAGTTTTCATTC 59.409 34.615 9.34 1.94 42.18 2.67
1946 2304 8.784043 ACTTTAGATCAACGCTTTTGTATTTCT 58.216 29.630 0.00 0.00 0.00 2.52
1967 2325 4.640201 TCTTCACTTTGCTTTGCTGTAGTT 59.360 37.500 0.00 0.00 0.00 2.24
1970 2328 5.816919 TCACTTTGCTTTGCTGTAGTTAAC 58.183 37.500 0.00 0.00 0.00 2.01
2092 2458 8.480501 AGCATTTTGGAGATACATTTGCTTATT 58.519 29.630 0.00 0.00 34.47 1.40
2284 2676 7.114953 GTCTAAATGTGCAAGGTTAAAGCTTTC 59.885 37.037 16.57 1.70 32.99 2.62
2449 2842 6.424812 GGCTTTTGATTTGTGCAGTTATCTTT 59.575 34.615 0.00 0.00 0.00 2.52
2788 3182 2.331451 GACCGCATTATTGCCCGC 59.669 61.111 4.10 0.00 46.57 6.13
2821 3215 1.098050 ACTCGCTTGATTGCATTCCC 58.902 50.000 6.16 0.00 0.00 3.97
3027 3469 5.940470 ACCTGCTTAGGTGATTTCTTTACAG 59.060 40.000 0.00 0.00 41.33 2.74
3334 3816 7.008440 ACAAATGATTCATCGTGTCAGTATG 57.992 36.000 0.00 0.00 37.54 2.39
3530 4017 5.941555 TGAGGGAATCCTTTTCTACTCTC 57.058 43.478 0.00 0.00 45.05 3.20
3629 4116 1.551099 CCTCAGTGGAGAGAGGGTTCA 60.551 57.143 0.00 0.00 46.11 3.18
3632 4119 4.026744 CTCAGTGGAGAGAGGGTTCAATA 58.973 47.826 0.00 0.00 44.26 1.90
3676 4163 1.796459 CGACGTAAACCCTGAAAGTGG 59.204 52.381 0.00 0.00 0.00 4.00
3692 4179 0.956633 GTGGTGGACTCGACAGTGTA 59.043 55.000 0.00 0.00 30.63 2.90
3769 4256 0.525761 CACCAAGCAAATACCCACCG 59.474 55.000 0.00 0.00 0.00 4.94
3795 4285 9.066892 GGTTTGCATTCTGTATAAATAGGATCA 57.933 33.333 0.00 0.00 0.00 2.92
3819 4310 4.338118 CCGAGGCTTGCCTTGATTTTATTA 59.662 41.667 25.97 0.00 0.00 0.98
3838 4329 9.892130 TTTTATTATGTGTGGTTTCTTTTGGTT 57.108 25.926 0.00 0.00 0.00 3.67
3909 4400 9.914834 AATAGGCTAATATCCAAGTTTGTTGTA 57.085 29.630 0.00 0.00 0.00 2.41
3969 4460 7.284489 TCCTCCAAAACAATATAATAGTGGTGC 59.716 37.037 0.00 0.00 0.00 5.01
4006 4497 6.479660 ACAAGACCATTATGTTTTTGTGCAAG 59.520 34.615 0.00 0.00 30.28 4.01
4007 4498 6.403866 AGACCATTATGTTTTTGTGCAAGA 57.596 33.333 0.00 0.00 0.00 3.02
4008 4499 6.215845 AGACCATTATGTTTTTGTGCAAGAC 58.784 36.000 0.00 0.00 0.00 3.01
4009 4500 5.911752 ACCATTATGTTTTTGTGCAAGACA 58.088 33.333 0.00 5.94 0.00 3.41
4010 4501 5.984926 ACCATTATGTTTTTGTGCAAGACAG 59.015 36.000 0.00 0.00 35.44 3.51
4020 4512 5.581126 TTGTGCAAGACAGTCTTTTGATT 57.419 34.783 13.53 0.00 33.78 2.57
4042 4534 8.795513 TGATTGAGACAAAATTATCTTGAAGCA 58.204 29.630 0.00 0.00 0.00 3.91
4044 4536 8.801715 TTGAGACAAAATTATCTTGAAGCAAC 57.198 30.769 0.00 0.00 0.00 4.17
4045 4537 7.370383 TGAGACAAAATTATCTTGAAGCAACC 58.630 34.615 0.00 0.00 0.00 3.77
4051 4543 6.610075 AATTATCTTGAAGCAACCACCAAT 57.390 33.333 0.00 0.00 0.00 3.16
4055 4547 5.643379 TCTTGAAGCAACCACCAATATTC 57.357 39.130 0.00 0.00 0.00 1.75
4137 4629 4.889427 CGACAGATCGTTGAGGCA 57.111 55.556 0.00 0.00 43.66 4.75
4154 4646 1.855360 GGCAACTAGCTTCGATCTTCG 59.145 52.381 0.00 0.00 44.79 3.79
4156 4648 3.797184 GGCAACTAGCTTCGATCTTCGAT 60.797 47.826 0.00 0.00 44.08 3.59
4170 4662 5.955790 CGATCTTCGATCGTTGAGGTAACTT 60.956 44.000 15.94 0.00 46.94 2.66
4171 4663 7.904900 CGATCTTCGATCGTTGAGGTAACTTG 61.905 46.154 15.94 0.00 46.94 3.16
4172 4664 9.928600 CGATCTTCGATCGTTGAGGTAACTTGA 62.929 44.444 15.94 0.00 46.94 3.02
4208 4700 2.163010 CCTTGGATCACATGAACTGCAC 59.837 50.000 0.00 0.00 0.00 4.57
4213 4705 2.865119 TCACATGAACTGCACCATCT 57.135 45.000 0.00 0.00 0.00 2.90
4230 4722 5.814705 CACCATCTTTCAGAAGGATGTAGAC 59.185 44.000 25.76 0.00 35.17 2.59
4237 4729 6.378710 TTCAGAAGGATGTAGACGTAGATG 57.621 41.667 0.00 0.00 0.00 2.90
4239 4731 4.580995 CAGAAGGATGTAGACGTAGATGGT 59.419 45.833 0.00 0.00 0.00 3.55
4246 4738 2.509166 AGACGTAGATGGTCCAGTGA 57.491 50.000 0.00 0.00 34.97 3.41
4247 4739 3.019799 AGACGTAGATGGTCCAGTGAT 57.980 47.619 0.00 0.00 34.97 3.06
4248 4740 2.690497 AGACGTAGATGGTCCAGTGATG 59.310 50.000 0.00 0.00 34.97 3.07
4250 4742 1.858091 GTAGATGGTCCAGTGATGCG 58.142 55.000 0.00 0.00 0.00 4.73
4254 4746 2.138320 GATGGTCCAGTGATGCGTATG 58.862 52.381 0.00 0.00 0.00 2.39
4255 4747 0.461870 TGGTCCAGTGATGCGTATGC 60.462 55.000 0.00 0.00 43.20 3.14
4269 4761 1.262417 CGTATGCACCATCATCTGCAC 59.738 52.381 0.00 0.00 45.91 4.57
4283 4776 0.323178 CTGCACCCTGGAAGCATTCT 60.323 55.000 12.31 0.00 46.56 2.40
4296 4789 3.930634 AGCATTCTTTCAGGAAAGCAC 57.069 42.857 15.26 6.13 45.48 4.40
4302 4795 5.596836 TTCTTTCAGGAAAGCACATTGTT 57.403 34.783 15.26 0.00 45.48 2.83
4303 4796 5.186996 TCTTTCAGGAAAGCACATTGTTC 57.813 39.130 15.26 0.00 45.48 3.18
4307 4800 2.991190 CAGGAAAGCACATTGTTCATGC 59.009 45.455 0.00 0.00 36.14 4.06
4326 4819 3.002791 TGCTTTTACATTCTCTCAGCCG 58.997 45.455 0.00 0.00 0.00 5.52
4341 4834 2.831770 CCGGGTATCCAGCTGCAT 59.168 61.111 8.66 0.25 0.00 3.96
4344 4837 0.179048 CGGGTATCCAGCTGCATTGA 60.179 55.000 8.66 0.00 0.00 2.57
4353 4893 0.175302 AGCTGCATTGAGGACTCTCG 59.825 55.000 1.02 0.00 42.79 4.04
4373 4913 3.893200 TCGGTCTACTCCAAACTTCTTCA 59.107 43.478 0.00 0.00 0.00 3.02
4375 4915 4.570930 GGTCTACTCCAAACTTCTTCAGG 58.429 47.826 0.00 0.00 0.00 3.86
4379 4919 4.078639 ACTCCAAACTTCTTCAGGTCTG 57.921 45.455 0.00 0.00 0.00 3.51
4387 4927 0.034476 TCTTCAGGTCTGCAGTGCTG 59.966 55.000 17.60 16.40 0.00 4.41
4403 5483 0.175760 GCTGCTATCTGGTTCCACGA 59.824 55.000 0.00 0.00 0.00 4.35
4415 5495 5.011738 TCTGGTTCCACGACTTCTTTTCTAT 59.988 40.000 0.00 0.00 0.00 1.98
4426 5507 6.426937 CGACTTCTTTTCTATGGGAAAACAGA 59.573 38.462 12.27 5.79 45.54 3.41
4428 5509 8.712228 ACTTCTTTTCTATGGGAAAACAGAAT 57.288 30.769 12.27 0.00 45.54 2.40
4441 5522 6.140786 GGAAAACAGAATAACGTCTTGAACC 58.859 40.000 0.00 0.00 0.00 3.62
4445 5526 3.122948 CAGAATAACGTCTTGAACCCACG 59.877 47.826 0.00 0.00 39.48 4.94
4515 5601 0.740737 AGCCTGCAGAAAACACACAC 59.259 50.000 17.39 0.00 0.00 3.82
4525 5611 1.473258 AAACACACACAGGCACACAT 58.527 45.000 0.00 0.00 0.00 3.21
4526 5612 0.740149 AACACACACAGGCACACATG 59.260 50.000 0.00 0.00 0.00 3.21
4534 5622 2.819019 CACAGGCACACATGTTCCATTA 59.181 45.455 0.00 0.00 33.63 1.90
4537 5625 3.255395 CAGGCACACATGTTCCATTACAA 59.745 43.478 0.00 0.00 33.63 2.41
4553 5641 5.507817 CCATTACAATCCCACATTTCCATCG 60.508 44.000 0.00 0.00 0.00 3.84
4569 5657 2.225491 CCATCGTGTACCACAAAACAGG 59.775 50.000 0.00 0.00 33.40 4.00
4574 5662 3.127203 CGTGTACCACAAAACAGGAAACA 59.873 43.478 0.00 0.00 34.28 2.83
4579 5667 4.944048 ACCACAAAACAGGAAACATAAGC 58.056 39.130 0.00 0.00 0.00 3.09
4581 5669 5.128663 ACCACAAAACAGGAAACATAAGCTT 59.871 36.000 3.48 3.48 0.00 3.74
4608 5706 6.959639 ACTCCAAACTACACATCAACAAAT 57.040 33.333 0.00 0.00 0.00 2.32
4611 5709 5.529430 TCCAAACTACACATCAACAAATCGT 59.471 36.000 0.00 0.00 0.00 3.73
4613 5711 4.404507 ACTACACATCAACAAATCGTGC 57.595 40.909 0.00 0.00 0.00 5.34
4614 5712 3.812609 ACTACACATCAACAAATCGTGCA 59.187 39.130 0.00 0.00 0.00 4.57
4617 5715 4.043750 ACACATCAACAAATCGTGCAAAG 58.956 39.130 0.00 0.00 0.00 2.77
4625 5723 4.043750 ACAAATCGTGCAAAGACATGTTG 58.956 39.130 0.00 0.00 0.00 3.33
4632 5730 2.495409 CAAAGACATGTTGCAGTGCA 57.505 45.000 15.37 15.37 36.47 4.57
4639 5737 0.251474 ATGTTGCAGTGCACCCTGAT 60.251 50.000 19.58 0.00 38.71 2.90
4644 5742 2.045926 AGTGCACCCTGATTCGGC 60.046 61.111 14.63 0.00 0.00 5.54
4656 5754 1.206849 TGATTCGGCATAGCAGACACA 59.793 47.619 0.00 0.00 31.79 3.72
4687 5785 1.267806 CGTGCAAGAGACAAAATGCCT 59.732 47.619 0.00 0.00 38.00 4.75
4697 5795 6.974965 AGAGACAAAATGCCTCACTAAAAAG 58.025 36.000 0.00 0.00 28.59 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 4.938080 ACCTACACTTCTCTTCATATGCG 58.062 43.478 0.00 0.00 0.00 4.73
19 20 4.979197 CGACCTACACTTCTCTTCATATGC 59.021 45.833 0.00 0.00 0.00 3.14
22 23 4.851843 TCCGACCTACACTTCTCTTCATA 58.148 43.478 0.00 0.00 0.00 2.15
80 81 0.749649 ATCTGCGTGGATCCAGTCTC 59.250 55.000 16.81 1.77 0.00 3.36
102 103 0.318784 AGTCGGTGCTTGTCTTCGTC 60.319 55.000 0.00 0.00 0.00 4.20
103 104 0.956633 TAGTCGGTGCTTGTCTTCGT 59.043 50.000 0.00 0.00 0.00 3.85
105 106 3.371285 GGATTTAGTCGGTGCTTGTCTTC 59.629 47.826 0.00 0.00 0.00 2.87
112 113 1.153429 GCGGGATTTAGTCGGTGCT 60.153 57.895 0.00 0.00 0.00 4.40
121 122 0.748450 AACGGATCTCGCGGGATTTA 59.252 50.000 24.71 0.00 43.89 1.40
128 129 1.586564 GTCTCCAACGGATCTCGCG 60.587 63.158 0.00 0.00 43.89 5.87
154 155 1.338674 CGTGTCATTGGAGGGCTTGTA 60.339 52.381 0.00 0.00 0.00 2.41
156 157 0.321564 TCGTGTCATTGGAGGGCTTG 60.322 55.000 0.00 0.00 0.00 4.01
157 158 0.036010 CTCGTGTCATTGGAGGGCTT 60.036 55.000 0.00 0.00 0.00 4.35
158 159 0.904865 TCTCGTGTCATTGGAGGGCT 60.905 55.000 0.00 0.00 0.00 5.19
159 160 0.741221 GTCTCGTGTCATTGGAGGGC 60.741 60.000 0.00 0.00 0.00 5.19
162 163 0.388520 TGCGTCTCGTGTCATTGGAG 60.389 55.000 0.00 0.00 0.00 3.86
184 185 4.754667 GTTGCCCCTCGTCCCGAC 62.755 72.222 0.00 0.00 0.00 4.79
190 191 0.912487 TTCCCTATGTTGCCCCTCGT 60.912 55.000 0.00 0.00 0.00 4.18
209 210 2.508526 GCGGCTCCTTGAATGGAATAT 58.491 47.619 0.00 0.00 35.43 1.28
230 233 2.646175 TTCAGGAAGTCGAGGCGGG 61.646 63.158 0.00 0.00 0.00 6.13
245 249 7.753132 GTCTGTTTAGAATTTGTGTGTTGTTCA 59.247 33.333 0.00 0.00 34.01 3.18
248 252 7.391148 AGTCTGTTTAGAATTTGTGTGTTGT 57.609 32.000 0.00 0.00 34.01 3.32
269 273 9.968743 CATACTTCGGTTTAGATGTTTTTAGTC 57.031 33.333 0.00 0.00 32.03 2.59
277 281 4.443034 GGGCTCATACTTCGGTTTAGATGT 60.443 45.833 0.00 0.00 33.81 3.06
278 282 4.058817 GGGCTCATACTTCGGTTTAGATG 58.941 47.826 0.00 0.00 0.00 2.90
279 283 3.967987 AGGGCTCATACTTCGGTTTAGAT 59.032 43.478 0.00 0.00 0.00 1.98
280 284 3.371965 AGGGCTCATACTTCGGTTTAGA 58.628 45.455 0.00 0.00 0.00 2.10
281 285 3.492829 GGAGGGCTCATACTTCGGTTTAG 60.493 52.174 0.00 0.00 0.00 1.85
282 286 2.433239 GGAGGGCTCATACTTCGGTTTA 59.567 50.000 0.00 0.00 0.00 2.01
286 290 0.390860 CAGGAGGGCTCATACTTCGG 59.609 60.000 0.00 0.00 0.00 4.30
311 315 1.151450 GATGTGGATCCCGGCCATT 59.849 57.895 9.90 0.00 37.81 3.16
313 317 3.860605 CGATGTGGATCCCGGCCA 61.861 66.667 9.90 0.00 0.00 5.36
317 321 3.957260 GATGCGATGTGGATCCCG 58.043 61.111 9.90 6.52 39.36 5.14
327 331 0.037303 CTTAGGGCCATGGATGCGAT 59.963 55.000 18.40 0.00 0.00 4.58
328 332 1.451504 CTTAGGGCCATGGATGCGA 59.548 57.895 18.40 0.00 0.00 5.10
341 345 2.297597 CCTCGTCTCTTATGGCCTTAGG 59.702 54.545 3.32 2.30 0.00 2.69
378 382 3.936772 TTCCATGCCTCCCGCCAAC 62.937 63.158 0.00 0.00 36.24 3.77
410 414 3.187432 CCGAGAAACAAAGAAAGGCTCTC 59.813 47.826 0.00 0.00 31.02 3.20
415 419 3.251004 CACTCCCGAGAAACAAAGAAAGG 59.749 47.826 0.00 0.00 0.00 3.11
449 453 1.837051 AGAGTGCACGGGAGGACAA 60.837 57.895 12.01 0.00 31.60 3.18
462 466 7.009631 CACGATAGATTCAAGTAAACCAGAGTG 59.990 40.741 0.00 0.00 41.38 3.51
471 475 8.234136 ACTCCATACACGATAGATTCAAGTAA 57.766 34.615 0.00 0.00 41.38 2.24
485 489 1.710013 ACTTTGCGACTCCATACACG 58.290 50.000 0.00 0.00 0.00 4.49
486 490 3.746492 AGAAACTTTGCGACTCCATACAC 59.254 43.478 0.00 0.00 0.00 2.90
532 536 3.690438 CGGGGGAAGTGAATCTCTACCTA 60.690 52.174 6.13 0.00 0.00 3.08
553 557 9.378597 CAATTTACTTGCTCTTAATGATCATCG 57.621 33.333 9.06 1.07 0.00 3.84
559 563 8.721478 GTCACTCAATTTACTTGCTCTTAATGA 58.279 33.333 0.00 0.00 34.66 2.57
560 564 8.506437 TGTCACTCAATTTACTTGCTCTTAATG 58.494 33.333 0.00 0.00 34.66 1.90
566 570 6.595716 ACCTATGTCACTCAATTTACTTGCTC 59.404 38.462 0.00 0.00 34.66 4.26
576 580 2.200081 AGCCCACCTATGTCACTCAAT 58.800 47.619 0.00 0.00 0.00 2.57
577 581 1.656587 AGCCCACCTATGTCACTCAA 58.343 50.000 0.00 0.00 0.00 3.02
578 582 2.543037 TAGCCCACCTATGTCACTCA 57.457 50.000 0.00 0.00 0.00 3.41
579 583 4.833380 TCTTATAGCCCACCTATGTCACTC 59.167 45.833 0.00 0.00 37.34 3.51
581 585 4.833380 TCTCTTATAGCCCACCTATGTCAC 59.167 45.833 0.00 0.00 37.34 3.67
582 586 5.074746 TCTCTTATAGCCCACCTATGTCA 57.925 43.478 0.00 0.00 37.34 3.58
583 587 5.105146 CCATCTCTTATAGCCCACCTATGTC 60.105 48.000 0.00 0.00 37.34 3.06
584 588 4.780021 CCATCTCTTATAGCCCACCTATGT 59.220 45.833 0.00 0.00 37.34 2.29
585 589 4.383552 GCCATCTCTTATAGCCCACCTATG 60.384 50.000 0.00 0.00 37.34 2.23
613 895 3.101437 TCCTCTAACCGGCACAAATCTA 58.899 45.455 0.00 0.00 0.00 1.98
616 898 1.906574 TCTCCTCTAACCGGCACAAAT 59.093 47.619 0.00 0.00 0.00 2.32
620 902 0.741915 CTCTCTCCTCTAACCGGCAC 59.258 60.000 0.00 0.00 0.00 5.01
625 907 4.104102 TCTCATCTCCTCTCTCCTCTAACC 59.896 50.000 0.00 0.00 0.00 2.85
629 911 3.649981 CTCTCTCATCTCCTCTCTCCTCT 59.350 52.174 0.00 0.00 0.00 3.69
630 912 3.648067 TCTCTCTCATCTCCTCTCTCCTC 59.352 52.174 0.00 0.00 0.00 3.71
643 925 2.687935 GTCCGCTTCTCTTCTCTCTCAT 59.312 50.000 0.00 0.00 0.00 2.90
648 930 5.068067 GGTTTATAGTCCGCTTCTCTTCTCT 59.932 44.000 0.00 0.00 0.00 3.10
659 941 3.554731 GCTACAACTGGTTTATAGTCCGC 59.445 47.826 0.00 0.00 0.00 5.54
661 943 4.565564 CGTGCTACAACTGGTTTATAGTCC 59.434 45.833 0.00 0.00 0.00 3.85
695 977 3.889538 TCGTCTCTTTCTCTCACAAAGGA 59.110 43.478 0.00 0.00 32.55 3.36
696 978 4.233789 CTCGTCTCTTTCTCTCACAAAGG 58.766 47.826 0.00 0.00 32.55 3.11
702 984 8.684386 AATATATGACTCGTCTCTTTCTCTCA 57.316 34.615 0.00 0.00 0.00 3.27
776 1058 8.686334 GGTTGTCATGTCATTTATAATCAACCT 58.314 33.333 0.00 0.00 44.02 3.50
777 1059 7.643764 CGGTTGTCATGTCATTTATAATCAACC 59.356 37.037 0.00 0.00 43.98 3.77
778 1060 7.643764 CCGGTTGTCATGTCATTTATAATCAAC 59.356 37.037 0.00 0.00 0.00 3.18
779 1061 7.680827 GCCGGTTGTCATGTCATTTATAATCAA 60.681 37.037 1.90 0.00 0.00 2.57
780 1062 6.238621 GCCGGTTGTCATGTCATTTATAATCA 60.239 38.462 1.90 0.00 0.00 2.57
781 1063 6.017109 AGCCGGTTGTCATGTCATTTATAATC 60.017 38.462 1.90 0.00 0.00 1.75
782 1064 5.827797 AGCCGGTTGTCATGTCATTTATAAT 59.172 36.000 1.90 0.00 0.00 1.28
783 1065 5.189928 AGCCGGTTGTCATGTCATTTATAA 58.810 37.500 1.90 0.00 0.00 0.98
784 1066 4.776349 AGCCGGTTGTCATGTCATTTATA 58.224 39.130 1.90 0.00 0.00 0.98
785 1067 3.620488 AGCCGGTTGTCATGTCATTTAT 58.380 40.909 1.90 0.00 0.00 1.40
786 1068 3.066291 AGCCGGTTGTCATGTCATTTA 57.934 42.857 1.90 0.00 0.00 1.40
787 1069 1.909700 AGCCGGTTGTCATGTCATTT 58.090 45.000 1.90 0.00 0.00 2.32
788 1070 1.909700 AAGCCGGTTGTCATGTCATT 58.090 45.000 1.90 0.00 0.00 2.57
789 1071 1.541147 CAAAGCCGGTTGTCATGTCAT 59.459 47.619 1.90 0.00 0.00 3.06
790 1072 0.950836 CAAAGCCGGTTGTCATGTCA 59.049 50.000 1.90 0.00 0.00 3.58
791 1073 0.240945 CCAAAGCCGGTTGTCATGTC 59.759 55.000 1.90 0.00 0.00 3.06
792 1074 1.805428 GCCAAAGCCGGTTGTCATGT 61.805 55.000 1.90 0.00 0.00 3.21
793 1075 1.080569 GCCAAAGCCGGTTGTCATG 60.081 57.895 1.90 0.00 0.00 3.07
794 1076 0.037590 TAGCCAAAGCCGGTTGTCAT 59.962 50.000 1.90 0.00 41.25 3.06
795 1077 0.037590 ATAGCCAAAGCCGGTTGTCA 59.962 50.000 1.90 0.00 41.25 3.58
796 1078 1.669265 GTATAGCCAAAGCCGGTTGTC 59.331 52.381 1.90 0.00 41.25 3.18
797 1079 1.280998 AGTATAGCCAAAGCCGGTTGT 59.719 47.619 1.90 0.00 41.25 3.32
798 1080 2.038387 AGTATAGCCAAAGCCGGTTG 57.962 50.000 1.90 0.00 41.25 3.77
799 1081 4.432980 AATAGTATAGCCAAAGCCGGTT 57.567 40.909 1.90 0.00 41.25 4.44
800 1082 5.303165 GTTAATAGTATAGCCAAAGCCGGT 58.697 41.667 1.90 0.00 41.25 5.28
801 1083 4.694037 GGTTAATAGTATAGCCAAAGCCGG 59.306 45.833 0.00 0.00 41.25 6.13
802 1084 5.302360 TGGTTAATAGTATAGCCAAAGCCG 58.698 41.667 0.00 0.00 41.25 5.52
803 1085 6.349363 GCATGGTTAATAGTATAGCCAAAGCC 60.349 42.308 0.00 0.00 39.25 4.35
804 1086 6.431234 AGCATGGTTAATAGTATAGCCAAAGC 59.569 38.462 0.00 13.92 39.25 3.51
805 1087 7.880195 AGAGCATGGTTAATAGTATAGCCAAAG 59.120 37.037 0.00 3.33 39.25 2.77
806 1088 7.745717 AGAGCATGGTTAATAGTATAGCCAAA 58.254 34.615 0.00 0.00 39.25 3.28
807 1089 7.316393 AGAGCATGGTTAATAGTATAGCCAA 57.684 36.000 0.00 0.00 39.25 4.52
808 1090 6.935240 AGAGCATGGTTAATAGTATAGCCA 57.065 37.500 0.00 3.65 39.96 4.75
809 1091 9.892130 AATTAGAGCATGGTTAATAGTATAGCC 57.108 33.333 0.00 0.00 0.00 3.93
838 1120 6.922957 GCTCTTCAGTCTTCATCGAGATAAAT 59.077 38.462 0.00 0.00 0.00 1.40
844 1126 3.178267 GTGCTCTTCAGTCTTCATCGAG 58.822 50.000 0.00 0.00 0.00 4.04
845 1127 2.558359 TGTGCTCTTCAGTCTTCATCGA 59.442 45.455 0.00 0.00 0.00 3.59
868 1154 1.906990 ACAAATGCTGCTGAGCTTCT 58.093 45.000 5.83 0.00 46.39 2.85
887 1173 3.080300 ACCGAAATGCCTCCAAATGTA 57.920 42.857 0.00 0.00 0.00 2.29
910 1196 2.329379 CTGCAAGTCGAGTGTACTTCC 58.671 52.381 0.00 0.00 34.99 3.46
914 1200 1.063806 CTGCTGCAAGTCGAGTGTAC 58.936 55.000 3.02 0.00 35.30 2.90
915 1201 0.958822 TCTGCTGCAAGTCGAGTGTA 59.041 50.000 3.02 0.00 35.30 2.90
916 1202 0.598680 GTCTGCTGCAAGTCGAGTGT 60.599 55.000 3.02 0.00 35.30 3.55
917 1203 1.612469 CGTCTGCTGCAAGTCGAGTG 61.612 60.000 3.02 0.00 35.30 3.51
972 1273 0.034896 CCGGTTGTTAGGTGAGCTGT 59.965 55.000 0.00 0.00 0.00 4.40
982 1283 1.546589 ATGGCCTCGACCGGTTGTTA 61.547 55.000 21.46 2.19 0.00 2.41
1119 1425 4.159879 GGGGACAGAAGTAAATCGAGAAGA 59.840 45.833 0.00 0.00 0.00 2.87
1123 1429 3.180891 GGGGGACAGAAGTAAATCGAG 57.819 52.381 0.00 0.00 0.00 4.04
1206 1517 3.754188 CTGAAAGGAGCAAGAATTCGG 57.246 47.619 0.00 0.00 0.00 4.30
1412 1733 6.542735 GTCACCAAACTTAAGAGGGGATAATC 59.457 42.308 17.04 5.43 35.72 1.75
1474 1798 4.288626 AGATGGGTTAAAACTAGCTCCACA 59.711 41.667 0.00 0.00 0.00 4.17
1608 1945 7.336931 ACCATATTCTGCGACATAAAAAGAACT 59.663 33.333 0.00 0.00 30.17 3.01
1620 1957 3.001634 CACACATGACCATATTCTGCGAC 59.998 47.826 0.00 0.00 0.00 5.19
1732 2075 2.126307 CACGACTGTCAGCTCCCG 60.126 66.667 8.73 1.64 0.00 5.14
1862 2220 6.264518 AGGTAACCAACGAATGAAAACTTCAT 59.735 34.615 0.00 0.00 46.01 2.57
1863 2221 5.591067 AGGTAACCAACGAATGAAAACTTCA 59.409 36.000 0.00 0.00 40.63 3.02
1864 2222 6.068473 AGGTAACCAACGAATGAAAACTTC 57.932 37.500 0.00 0.00 37.17 3.01
1865 2223 6.459670 AAGGTAACCAACGAATGAAAACTT 57.540 33.333 0.00 0.00 37.17 2.66
1866 2224 6.459670 AAAGGTAACCAACGAATGAAAACT 57.540 33.333 0.00 0.00 37.17 2.66
1867 2225 6.752815 TGAAAAGGTAACCAACGAATGAAAAC 59.247 34.615 0.00 0.00 37.17 2.43
1868 2226 6.864342 TGAAAAGGTAACCAACGAATGAAAA 58.136 32.000 0.00 0.00 37.17 2.29
1869 2227 6.452494 TGAAAAGGTAACCAACGAATGAAA 57.548 33.333 0.00 0.00 37.17 2.69
1870 2228 5.009210 CCTGAAAAGGTAACCAACGAATGAA 59.991 40.000 0.00 0.00 37.17 2.57
1871 2229 4.517453 CCTGAAAAGGTAACCAACGAATGA 59.483 41.667 0.00 0.00 37.17 2.57
1872 2230 4.277423 ACCTGAAAAGGTAACCAACGAATG 59.723 41.667 0.00 0.00 41.04 2.67
1873 2231 4.466827 ACCTGAAAAGGTAACCAACGAAT 58.533 39.130 0.00 0.00 41.04 3.34
1874 2232 3.878699 GACCTGAAAAGGTAACCAACGAA 59.121 43.478 0.00 0.00 43.24 3.85
1875 2233 3.469739 GACCTGAAAAGGTAACCAACGA 58.530 45.455 0.00 0.00 43.24 3.85
1876 2234 2.551032 GGACCTGAAAAGGTAACCAACG 59.449 50.000 0.00 0.00 43.24 4.10
1894 2252 8.408601 TCAAAGTAATATCGTGTAGTAAGGGAC 58.591 37.037 0.00 0.00 0.00 4.46
1946 2304 4.981806 AACTACAGCAAAGCAAAGTGAA 57.018 36.364 0.00 0.00 0.00 3.18
1967 2325 8.783093 CACTGTAACAGAATGAAAAGGATGTTA 58.217 33.333 0.00 0.00 39.69 2.41
1970 2328 6.207417 ACCACTGTAACAGAATGAAAAGGATG 59.793 38.462 0.00 0.00 39.69 3.51
2092 2458 9.093970 CGTAATAGTCAAAGTGGACATATTGAA 57.906 33.333 0.00 0.00 40.29 2.69
2171 2560 9.199645 ACCCATCAGATTGATAGACAGATATAG 57.800 37.037 0.00 0.00 34.28 1.31
2185 2574 3.837213 GTGTGAACACCCATCAGATTG 57.163 47.619 1.99 0.00 40.85 2.67
2462 2855 5.913137 TCCTGCGGTAATCAAAATTCATT 57.087 34.783 0.00 0.00 0.00 2.57
2637 3031 0.475632 ACAGGTGGTCCCAAGATGGA 60.476 55.000 0.00 0.00 40.96 3.41
2638 3032 0.405585 AACAGGTGGTCCCAAGATGG 59.594 55.000 0.00 0.00 37.25 3.51
2639 3033 2.305927 AGTAACAGGTGGTCCCAAGATG 59.694 50.000 0.00 0.00 34.66 2.90
2640 3034 2.572104 GAGTAACAGGTGGTCCCAAGAT 59.428 50.000 0.00 0.00 34.66 2.40
2788 3182 1.639298 GCGAGTAAGGTTGCTGCAGG 61.639 60.000 17.12 0.00 0.00 4.85
2821 3215 2.673368 GACCTGGTATTCAGCTTCAACG 59.327 50.000 0.00 0.00 42.05 4.10
2918 3323 6.183360 GGTTGTAGGTTGCTTTTTCTTACACT 60.183 38.462 0.00 0.00 0.00 3.55
2924 3329 4.532834 TCTGGTTGTAGGTTGCTTTTTCT 58.467 39.130 0.00 0.00 0.00 2.52
2925 3330 4.911514 TCTGGTTGTAGGTTGCTTTTTC 57.088 40.909 0.00 0.00 0.00 2.29
2928 3333 5.010012 CAGAAATCTGGTTGTAGGTTGCTTT 59.990 40.000 2.38 0.00 40.20 3.51
2929 3334 4.520492 CAGAAATCTGGTTGTAGGTTGCTT 59.480 41.667 2.38 0.00 40.20 3.91
3027 3469 3.057946 GCTCAAGAAACCACACATTCCTC 60.058 47.826 0.00 0.00 0.00 3.71
3334 3816 6.456449 GCAATCAGAATGCACAAAATCATTCC 60.456 38.462 5.52 0.00 45.82 3.01
3362 3844 1.795286 GACAAGAGCTTCCACAAGACG 59.205 52.381 0.00 0.00 0.00 4.18
3626 4113 5.744171 TGCTTCCAGCTATTGAGTATTGAA 58.256 37.500 0.00 0.00 42.97 2.69
3629 4116 5.587844 CACTTGCTTCCAGCTATTGAGTATT 59.412 40.000 0.00 0.00 42.97 1.89
3632 4119 3.341823 CACTTGCTTCCAGCTATTGAGT 58.658 45.455 0.00 0.00 42.97 3.41
3676 4163 2.223876 TGGTTTACACTGTCGAGTCCAC 60.224 50.000 0.00 0.00 0.00 4.02
3692 4179 1.004044 CATGACAGCCTCCTCTGGTTT 59.996 52.381 0.00 0.00 38.36 3.27
3769 4256 9.066892 TGATCCTATTTATACAGAATGCAAACC 57.933 33.333 0.00 0.00 42.53 3.27
3819 4310 3.197549 AGCAACCAAAAGAAACCACACAT 59.802 39.130 0.00 0.00 0.00 3.21
3833 4324 4.852962 GCTTTTGCCAGCAACCAA 57.147 50.000 4.18 0.00 39.83 3.67
3963 4454 0.386731 GTTACCATGCAACGCACCAC 60.387 55.000 0.00 0.00 43.04 4.16
3965 4456 0.312416 TTGTTACCATGCAACGCACC 59.688 50.000 0.00 0.00 43.04 5.01
3969 4460 1.876799 TGGTCTTGTTACCATGCAACG 59.123 47.619 0.00 0.00 44.68 4.10
3984 4475 6.183360 TGTCTTGCACAAAAACATAATGGTCT 60.183 34.615 0.00 0.00 29.30 3.85
3987 4478 5.984926 ACTGTCTTGCACAAAAACATAATGG 59.015 36.000 0.00 0.00 33.31 3.16
4000 4491 5.008019 TCTCAATCAAAAGACTGTCTTGCAC 59.992 40.000 22.67 0.00 36.71 4.57
4006 4497 8.862550 AATTTTGTCTCAATCAAAAGACTGTC 57.137 30.769 0.00 0.00 44.27 3.51
4020 4512 7.014134 TGGTTGCTTCAAGATAATTTTGTCTCA 59.986 33.333 0.00 0.00 0.00 3.27
4042 4534 4.879545 ACTTATTCGCGAATATTGGTGGTT 59.120 37.500 34.82 14.75 33.71 3.67
4044 4536 5.007234 TGAACTTATTCGCGAATATTGGTGG 59.993 40.000 34.82 22.92 37.69 4.61
4045 4537 6.043327 TGAACTTATTCGCGAATATTGGTG 57.957 37.500 34.82 24.34 37.69 4.17
4051 4543 8.365399 AGATCATTTGAACTTATTCGCGAATA 57.635 30.769 32.03 32.03 37.69 1.75
4055 4547 8.993852 ATAAAGATCATTTGAACTTATTCGCG 57.006 30.769 0.00 0.00 36.36 5.87
4131 4623 2.103373 AGATCGAAGCTAGTTGCCTCA 58.897 47.619 0.00 0.00 44.23 3.86
4132 4624 2.880963 AGATCGAAGCTAGTTGCCTC 57.119 50.000 0.00 0.00 44.23 4.70
4135 4627 2.798680 TCGAAGATCGAAGCTAGTTGC 58.201 47.619 0.00 0.00 46.90 4.17
4143 4635 9.725613 AGTTACCTCAACGATCGAAGATCGAAG 62.726 44.444 30.89 23.39 46.19 3.79
4147 4639 4.922719 AGTTACCTCAACGATCGAAGATC 58.077 43.478 24.34 0.21 41.54 2.75
4153 4645 4.092771 TCTCAAGTTACCTCAACGATCG 57.907 45.455 14.88 14.88 42.35 3.69
4154 4646 4.425520 CCTCTCAAGTTACCTCAACGATC 58.574 47.826 0.00 0.00 42.35 3.69
4156 4648 2.029290 GCCTCTCAAGTTACCTCAACGA 60.029 50.000 0.00 0.00 42.35 3.85
4158 4650 2.288886 ACGCCTCTCAAGTTACCTCAAC 60.289 50.000 0.00 0.00 37.41 3.18
4159 4651 1.968493 ACGCCTCTCAAGTTACCTCAA 59.032 47.619 0.00 0.00 0.00 3.02
4160 4652 1.544691 GACGCCTCTCAAGTTACCTCA 59.455 52.381 0.00 0.00 0.00 3.86
4161 4653 1.135053 GGACGCCTCTCAAGTTACCTC 60.135 57.143 0.00 0.00 0.00 3.85
4162 4654 0.896226 GGACGCCTCTCAAGTTACCT 59.104 55.000 0.00 0.00 0.00 3.08
4163 4655 0.108281 GGGACGCCTCTCAAGTTACC 60.108 60.000 0.00 0.00 0.00 2.85
4170 4662 3.071206 GCAGAGGGACGCCTCTCA 61.071 66.667 8.50 0.00 44.36 3.27
4171 4663 3.844090 GGCAGAGGGACGCCTCTC 61.844 72.222 8.50 0.00 44.36 3.20
4176 4668 2.932130 GATCCAAGGCAGAGGGACGC 62.932 65.000 0.00 0.00 32.60 5.19
4184 4676 2.422479 CAGTTCATGTGATCCAAGGCAG 59.578 50.000 0.00 0.00 0.00 4.85
4185 4677 2.439409 CAGTTCATGTGATCCAAGGCA 58.561 47.619 0.00 0.00 0.00 4.75
4190 4682 1.073603 TGGTGCAGTTCATGTGATCCA 59.926 47.619 0.00 0.00 0.00 3.41
4213 4705 6.183360 CCATCTACGTCTACATCCTTCTGAAA 60.183 42.308 0.00 0.00 0.00 2.69
4230 4722 1.858091 GCATCACTGGACCATCTACG 58.142 55.000 0.00 0.00 0.00 3.51
4237 4729 0.461870 TGCATACGCATCACTGGACC 60.462 55.000 0.00 0.00 45.36 4.46
4248 4740 0.236711 GCAGATGATGGTGCATACGC 59.763 55.000 0.00 0.00 39.62 4.42
4254 4746 1.077212 AGGGTGCAGATGATGGTGC 60.077 57.895 0.00 0.00 40.29 5.01
4255 4747 0.750546 CCAGGGTGCAGATGATGGTG 60.751 60.000 0.00 0.00 0.00 4.17
4261 4753 0.395311 ATGCTTCCAGGGTGCAGATG 60.395 55.000 11.86 0.00 40.18 2.90
4269 4761 2.097825 CCTGAAAGAATGCTTCCAGGG 58.902 52.381 10.99 0.00 34.75 4.45
4283 4776 4.998671 TGAACAATGTGCTTTCCTGAAA 57.001 36.364 0.00 0.00 0.00 2.69
4296 4789 8.024865 TGAGAGAATGTAAAAGCATGAACAATG 58.975 33.333 0.00 0.00 39.49 2.82
4302 4795 4.637534 GGCTGAGAGAATGTAAAAGCATGA 59.362 41.667 0.00 0.00 0.00 3.07
4303 4796 4.495349 CGGCTGAGAGAATGTAAAAGCATG 60.495 45.833 0.00 0.00 0.00 4.06
4307 4800 2.939103 CCCGGCTGAGAGAATGTAAAAG 59.061 50.000 0.00 0.00 0.00 2.27
4326 4819 1.602311 CTCAATGCAGCTGGATACCC 58.398 55.000 21.95 0.00 0.00 3.69
4337 4830 0.532573 GACCGAGAGTCCTCAATGCA 59.467 55.000 0.00 0.00 39.84 3.96
4353 4893 4.040584 ACCTGAAGAAGTTTGGAGTAGACC 59.959 45.833 0.00 0.00 0.00 3.85
4387 4927 2.166664 AGAAGTCGTGGAACCAGATAGC 59.833 50.000 0.00 0.00 0.00 2.97
4391 4931 3.134081 AGAAAAGAAGTCGTGGAACCAGA 59.866 43.478 0.00 0.00 0.00 3.86
4392 4932 3.467803 AGAAAAGAAGTCGTGGAACCAG 58.532 45.455 0.00 0.00 0.00 4.00
4393 4933 3.553828 AGAAAAGAAGTCGTGGAACCA 57.446 42.857 0.00 0.00 0.00 3.67
4394 4934 4.392138 CCATAGAAAAGAAGTCGTGGAACC 59.608 45.833 0.00 0.00 31.28 3.62
4396 4936 4.285003 TCCCATAGAAAAGAAGTCGTGGAA 59.715 41.667 0.00 0.00 31.28 3.53
4415 5495 5.369833 TCAAGACGTTATTCTGTTTTCCCA 58.630 37.500 0.00 0.00 0.00 4.37
4426 5507 2.224354 ACCGTGGGTTCAAGACGTTATT 60.224 45.455 0.00 0.00 27.29 1.40
4428 5509 0.752054 ACCGTGGGTTCAAGACGTTA 59.248 50.000 0.00 0.00 27.29 3.18
4430 5511 0.032540 GTACCGTGGGTTCAAGACGT 59.967 55.000 0.00 0.00 37.09 4.34
4441 5522 4.458295 TCTTCTTCAAGTAGAGTACCGTGG 59.542 45.833 0.00 0.00 0.00 4.94
4445 5526 5.069383 GGGGATCTTCTTCAAGTAGAGTACC 59.931 48.000 0.00 3.76 0.00 3.34
4526 5612 5.186797 TGGAAATGTGGGATTGTAATGGAAC 59.813 40.000 0.00 0.00 0.00 3.62
4534 5622 2.754552 CACGATGGAAATGTGGGATTGT 59.245 45.455 0.00 0.00 0.00 2.71
4537 5625 2.806945 ACACGATGGAAATGTGGGAT 57.193 45.000 0.00 0.00 37.92 3.85
4579 5667 9.214957 TGTTGATGTGTAGTTTGGAGTAATAAG 57.785 33.333 0.00 0.00 0.00 1.73
4581 5669 9.562408 TTTGTTGATGTGTAGTTTGGAGTAATA 57.438 29.630 0.00 0.00 0.00 0.98
4613 5711 2.121786 GTGCACTGCAACATGTCTTTG 58.878 47.619 10.32 0.00 41.47 2.77
4614 5712 1.067516 GGTGCACTGCAACATGTCTTT 59.932 47.619 17.98 0.00 46.68 2.52
4617 5715 4.950744 GGTGCACTGCAACATGTC 57.049 55.556 17.98 0.00 46.68 3.06
4625 5723 2.401766 CCGAATCAGGGTGCACTGC 61.402 63.158 17.98 0.00 38.36 4.40
4632 5730 0.107456 CTGCTATGCCGAATCAGGGT 59.893 55.000 0.00 0.00 0.00 4.34
4639 5737 2.177394 TTTGTGTCTGCTATGCCGAA 57.823 45.000 0.00 0.00 0.00 4.30
4644 5742 5.509272 CGTGCTTTAATTTGTGTCTGCTATG 59.491 40.000 0.00 0.00 0.00 2.23
4656 5754 4.036262 TGTCTCTTGCACGTGCTTTAATTT 59.964 37.500 37.59 0.00 42.66 1.82
4687 5785 5.003804 GGGCATTCTGTCTCTTTTTAGTGA 58.996 41.667 0.00 0.00 0.00 3.41
4697 5795 0.250513 AGGTTCGGGCATTCTGTCTC 59.749 55.000 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.