Multiple sequence alignment - TraesCS1B01G446400

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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 TraesCS1B01G446400 chr1B 100.000 2822 0 0 1 2822 666333825 666331004 0.000000e+00 5212.0
1 TraesCS1B01G446400 chr1B 96.038 732 29 0 2091 2822 654307743 654307012 0.000000e+00 1192.0
2 TraesCS1B01G446400 chr4B 96.594 734 24 1 2089 2822 47642076 47641344 0.000000e+00 1216.0
3 TraesCS1B01G446400 chr4B 95.811 740 30 1 2084 2822 122870828 122871567 0.000000e+00 1194.0
4 TraesCS1B01G446400 chr5B 96.448 732 26 0 2091 2822 43946405 43945674 0.000000e+00 1208.0
5 TraesCS1B01G446400 chr5B 96.180 733 28 0 2090 2822 540304087 540304819 0.000000e+00 1199.0
6 TraesCS1B01G446400 chr1D 90.144 974 30 29 715 1645 478371007 478370057 0.000000e+00 1206.0
7 TraesCS1B01G446400 chr1D 87.500 184 17 5 1686 1866 478370058 478369878 1.020000e-49 207.0
8 TraesCS1B01G446400 chr1D 80.711 197 21 12 1908 2089 478369882 478369688 1.360000e-28 137.0
9 TraesCS1B01G446400 chr1D 79.365 126 16 8 509 627 478371467 478371345 2.330000e-11 80.5
10 TraesCS1B01G446400 chr2B 96.180 733 27 1 2090 2822 757895055 757894324 0.000000e+00 1197.0
11 TraesCS1B01G446400 chr6B 96.038 732 29 0 2091 2822 13444823 13445554 0.000000e+00 1192.0
12 TraesCS1B01G446400 chrUn 95.782 735 31 0 2088 2822 65548026 65548760 0.000000e+00 1186.0
13 TraesCS1B01G446400 chr7B 95.902 732 30 0 2091 2822 685414298 685415029 0.000000e+00 1186.0
14 TraesCS1B01G446400 chr1A 90.154 843 38 24 815 1643 574658909 574658098 0.000000e+00 1055.0
15 TraesCS1B01G446400 chr1A 88.393 224 16 4 3 222 574659722 574659505 7.750000e-66 261.0
16 TraesCS1B01G446400 chr1A 94.118 170 7 2 509 678 574659203 574659037 3.610000e-64 255.0
17 TraesCS1B01G446400 chr1A 88.770 187 12 7 1687 1866 574658096 574657912 1.320000e-53 220.0
18 TraesCS1B01G446400 chr3B 77.974 454 81 17 1153 1592 391109612 391109164 1.670000e-67 267.0
19 TraesCS1B01G446400 chr3D 77.149 477 88 17 1131 1592 296421091 296420621 1.000000e-64 257.0
20 TraesCS1B01G446400 chr3A 77.313 454 82 17 1153 1591 394184940 394184493 6.040000e-62 248.0
21 TraesCS1B01G446400 chr6A 97.500 40 1 0 1567 1606 508846369 508846330 5.040000e-08 69.4


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 TraesCS1B01G446400 chr1B 666331004 666333825 2821 True 5212.000 5212 100.00000 1 2822 1 chr1B.!!$R2 2821
1 TraesCS1B01G446400 chr1B 654307012 654307743 731 True 1192.000 1192 96.03800 2091 2822 1 chr1B.!!$R1 731
2 TraesCS1B01G446400 chr4B 47641344 47642076 732 True 1216.000 1216 96.59400 2089 2822 1 chr4B.!!$R1 733
3 TraesCS1B01G446400 chr4B 122870828 122871567 739 False 1194.000 1194 95.81100 2084 2822 1 chr4B.!!$F1 738
4 TraesCS1B01G446400 chr5B 43945674 43946405 731 True 1208.000 1208 96.44800 2091 2822 1 chr5B.!!$R1 731
5 TraesCS1B01G446400 chr5B 540304087 540304819 732 False 1199.000 1199 96.18000 2090 2822 1 chr5B.!!$F1 732
6 TraesCS1B01G446400 chr1D 478369688 478371467 1779 True 407.625 1206 84.43000 509 2089 4 chr1D.!!$R1 1580
7 TraesCS1B01G446400 chr2B 757894324 757895055 731 True 1197.000 1197 96.18000 2090 2822 1 chr2B.!!$R1 732
8 TraesCS1B01G446400 chr6B 13444823 13445554 731 False 1192.000 1192 96.03800 2091 2822 1 chr6B.!!$F1 731
9 TraesCS1B01G446400 chrUn 65548026 65548760 734 False 1186.000 1186 95.78200 2088 2822 1 chrUn.!!$F1 734
10 TraesCS1B01G446400 chr7B 685414298 685415029 731 False 1186.000 1186 95.90200 2091 2822 1 chr7B.!!$F1 731
11 TraesCS1B01G446400 chr1A 574657912 574659722 1810 True 447.750 1055 90.35875 3 1866 4 chr1A.!!$R1 1863

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
285 339 0.025513 GTCGAAGTGATGCGTCATGC 59.974 55.0 12.67 0.0 46.7 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1841 2232 0.108329 ACGGCAGAAATACCTCCACG 60.108 55.0 0.0 0.0 0.0 4.94 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
23 24 5.167121 CGATCTATGATGGAGATGTGGTTC 58.833 45.833 0.00 0.00 33.71 3.62
24 25 5.047448 CGATCTATGATGGAGATGTGGTTCT 60.047 44.000 0.00 0.00 33.71 3.01
44 46 7.508977 TGGTTCTTCCATTCTGAAATTTTAGGT 59.491 33.333 9.84 0.00 41.93 3.08
61 63 1.291272 GTAGGCCTTCGTTGTCCGT 59.709 57.895 12.58 0.00 37.94 4.69
82 84 1.439679 GCTTCAACCCTTACGACAGG 58.560 55.000 0.00 0.00 0.00 4.00
94 96 2.960170 GACAGGTAGTGGCGACGT 59.040 61.111 0.00 0.00 0.00 4.34
105 107 3.852286 AGTGGCGACGTCATACAATAAA 58.148 40.909 17.16 0.00 0.00 1.40
124 126 1.204146 ATTAGTCCTCGGTGGTGCAT 58.796 50.000 0.00 0.00 37.07 3.96
125 127 0.981183 TTAGTCCTCGGTGGTGCATT 59.019 50.000 0.00 0.00 37.07 3.56
127 129 2.359850 TCCTCGGTGGTGCATTGC 60.360 61.111 0.46 0.46 37.07 3.56
128 130 2.672651 CCTCGGTGGTGCATTGCA 60.673 61.111 7.38 7.38 35.60 4.08
144 146 3.535280 TTGCAGATAGTGATGGCGTTA 57.465 42.857 0.00 0.00 0.00 3.18
145 147 3.751479 TGCAGATAGTGATGGCGTTAT 57.249 42.857 0.00 0.00 0.00 1.89
146 148 4.071961 TGCAGATAGTGATGGCGTTATT 57.928 40.909 0.00 0.00 0.00 1.40
147 149 4.450976 TGCAGATAGTGATGGCGTTATTT 58.549 39.130 0.00 0.00 0.00 1.40
148 150 4.881273 TGCAGATAGTGATGGCGTTATTTT 59.119 37.500 0.00 0.00 0.00 1.82
149 151 5.207768 GCAGATAGTGATGGCGTTATTTTG 58.792 41.667 0.00 0.00 0.00 2.44
153 155 3.331150 AGTGATGGCGTTATTTTGTCGA 58.669 40.909 0.00 0.00 0.00 4.20
164 166 7.642194 GGCGTTATTTTGTCGATGATTAATTCA 59.358 33.333 0.00 0.00 39.12 2.57
187 189 5.484173 TCCATCTCGATGTTTTTGTATGC 57.516 39.130 6.20 0.00 37.11 3.14
188 190 4.033932 TCCATCTCGATGTTTTTGTATGCG 59.966 41.667 6.20 0.00 37.11 4.73
190 192 3.331150 TCTCGATGTTTTTGTATGCGGT 58.669 40.909 0.00 0.00 0.00 5.68
191 193 3.124466 TCTCGATGTTTTTGTATGCGGTG 59.876 43.478 0.00 0.00 0.00 4.94
192 194 2.160615 TCGATGTTTTTGTATGCGGTGG 59.839 45.455 0.00 0.00 0.00 4.61
193 195 2.258755 GATGTTTTTGTATGCGGTGGC 58.741 47.619 0.00 0.00 40.52 5.01
222 225 2.183478 TCGCAGGCAAAGATTCTCAA 57.817 45.000 0.00 0.00 0.00 3.02
227 281 4.320057 CGCAGGCAAAGATTCTCAATATCC 60.320 45.833 0.00 0.00 0.00 2.59
239 293 4.380531 TCTCAATATCCTTTGCGGTCATC 58.619 43.478 0.00 0.00 0.00 2.92
240 294 4.101585 TCTCAATATCCTTTGCGGTCATCT 59.898 41.667 0.00 0.00 0.00 2.90
248 302 0.396435 TTGCGGTCATCTTGGTCACT 59.604 50.000 0.00 0.00 0.00 3.41
261 315 1.168714 GGTCACTTTGGTGCATCCTC 58.831 55.000 0.00 0.00 42.72 3.71
271 325 0.037326 GTGCATCCTCAGGTGTCGAA 60.037 55.000 0.00 0.00 0.00 3.71
280 334 0.667487 CAGGTGTCGAAGTGATGCGT 60.667 55.000 0.00 0.00 0.00 5.24
281 335 0.388649 AGGTGTCGAAGTGATGCGTC 60.389 55.000 0.00 0.00 0.00 5.19
282 336 0.666274 GGTGTCGAAGTGATGCGTCA 60.666 55.000 3.97 3.97 0.00 4.35
283 337 1.350193 GTGTCGAAGTGATGCGTCAT 58.650 50.000 12.67 0.00 36.60 3.06
284 338 1.059692 GTGTCGAAGTGATGCGTCATG 59.940 52.381 12.67 3.18 36.60 3.07
285 339 0.025513 GTCGAAGTGATGCGTCATGC 59.974 55.000 12.67 0.00 46.70 4.06
306 360 2.163613 CGTGAGGGTTTTATTGGAAGCC 59.836 50.000 0.00 0.00 43.30 4.35
307 361 3.161866 GTGAGGGTTTTATTGGAAGCCA 58.838 45.455 7.69 0.00 44.92 4.75
326 380 1.002468 CAAGCTTTCCTGGTTGTGACG 60.002 52.381 0.00 0.00 39.66 4.35
327 381 0.468226 AGCTTTCCTGGTTGTGACGA 59.532 50.000 0.00 0.00 0.00 4.20
328 382 1.072331 AGCTTTCCTGGTTGTGACGAT 59.928 47.619 0.00 0.00 0.00 3.73
329 383 1.880027 GCTTTCCTGGTTGTGACGATT 59.120 47.619 0.00 0.00 0.00 3.34
330 384 2.293399 GCTTTCCTGGTTGTGACGATTT 59.707 45.455 0.00 0.00 0.00 2.17
331 385 3.609409 GCTTTCCTGGTTGTGACGATTTC 60.609 47.826 0.00 0.00 0.00 2.17
332 386 3.485463 TTCCTGGTTGTGACGATTTCT 57.515 42.857 0.00 0.00 0.00 2.52
333 387 3.485463 TCCTGGTTGTGACGATTTCTT 57.515 42.857 0.00 0.00 0.00 2.52
334 388 3.399330 TCCTGGTTGTGACGATTTCTTC 58.601 45.455 0.00 0.00 0.00 2.87
343 397 8.126700 GGTTGTGACGATTTCTTCTTTTCTTTA 58.873 33.333 0.00 0.00 0.00 1.85
344 398 9.159470 GTTGTGACGATTTCTTCTTTTCTTTAG 57.841 33.333 0.00 0.00 0.00 1.85
345 399 7.861630 TGTGACGATTTCTTCTTTTCTTTAGG 58.138 34.615 0.00 0.00 0.00 2.69
346 400 7.041372 TGTGACGATTTCTTCTTTTCTTTAGGG 60.041 37.037 0.00 0.00 0.00 3.53
354 408 1.810755 CTTTTCTTTAGGGCGGTGGTC 59.189 52.381 0.00 0.00 0.00 4.02
355 409 1.061546 TTTCTTTAGGGCGGTGGTCT 58.938 50.000 0.00 0.00 0.00 3.85
383 437 5.880054 AACCTTGGTCATGATAACTTTCG 57.120 39.130 0.00 0.00 0.00 3.46
389 443 2.284417 GTCATGATAACTTTCGGTCCGC 59.716 50.000 6.34 0.00 0.00 5.54
392 446 1.197910 GATAACTTTCGGTCCGCGAG 58.802 55.000 8.23 9.20 0.00 5.03
401 455 1.151777 CGGTCCGCGAGCAATGTTAT 61.152 55.000 8.23 0.00 0.00 1.89
417 471 5.864418 ATGTTATGATGGCTTGAGCATTT 57.136 34.783 5.24 0.00 44.36 2.32
424 478 1.515736 GCTTGAGCATTTGAGCGGC 60.516 57.895 0.00 0.00 41.59 6.53
448 513 0.393077 CATCGGCTTATTCGGACCCT 59.607 55.000 0.00 0.00 0.00 4.34
463 528 2.368548 GGACCCTGGCACAATTTCTTTT 59.631 45.455 0.00 0.00 38.70 2.27
470 535 6.048509 CCTGGCACAATTTCTTTTTACAGTT 58.951 36.000 0.00 0.00 38.70 3.16
472 537 7.169140 CCTGGCACAATTTCTTTTTACAGTTAC 59.831 37.037 0.00 0.00 38.70 2.50
473 538 7.777095 TGGCACAATTTCTTTTTACAGTTACT 58.223 30.769 0.00 0.00 31.92 2.24
475 540 9.738832 GGCACAATTTCTTTTTACAGTTACTTA 57.261 29.630 0.00 0.00 0.00 2.24
600 670 6.293626 CCAAGTTCTTTTGTACTCCATGTCTG 60.294 42.308 0.00 0.00 0.00 3.51
620 690 1.799994 GATTTTGCATGCCACACAACC 59.200 47.619 16.68 0.00 0.00 3.77
645 942 3.557903 AACCTCACGCCAGCAGCAT 62.558 57.895 0.00 0.00 44.04 3.79
695 992 0.178964 AGGTTTGCAAGCTGGCCTAA 60.179 50.000 11.50 1.75 37.93 2.69
702 999 5.419239 TTGCAAGCTGGCCTAAAAATATT 57.581 34.783 11.50 0.00 0.00 1.28
704 1001 6.537453 TGCAAGCTGGCCTAAAAATATTAA 57.463 33.333 11.50 0.00 0.00 1.40
705 1002 7.123355 TGCAAGCTGGCCTAAAAATATTAAT 57.877 32.000 11.50 0.00 0.00 1.40
706 1003 6.985645 TGCAAGCTGGCCTAAAAATATTAATG 59.014 34.615 11.50 0.00 0.00 1.90
732 1029 8.581253 AGAGGTTAATTATAGCTTGCAAGTTT 57.419 30.769 26.55 17.56 0.00 2.66
733 1030 9.025041 AGAGGTTAATTATAGCTTGCAAGTTTT 57.975 29.630 26.55 18.32 0.00 2.43
783 1113 5.397553 AAGGGGAGGTAAAAACAAGAAGA 57.602 39.130 0.00 0.00 0.00 2.87
794 1133 7.170320 GGTAAAAACAAGAAGATACGACACTGA 59.830 37.037 0.00 0.00 0.00 3.41
811 1150 0.248296 TGAAGTTTTTGACGCGCACC 60.248 50.000 5.73 0.00 0.00 5.01
812 1151 0.933047 GAAGTTTTTGACGCGCACCC 60.933 55.000 5.73 0.00 0.00 4.61
813 1152 1.658686 AAGTTTTTGACGCGCACCCA 61.659 50.000 5.73 0.00 0.00 4.51
814 1153 1.942223 GTTTTTGACGCGCACCCAC 60.942 57.895 5.73 0.00 0.00 4.61
815 1154 3.127352 TTTTTGACGCGCACCCACC 62.127 57.895 5.73 0.00 0.00 4.61
816 1155 4.555709 TTTGACGCGCACCCACCT 62.556 61.111 5.73 0.00 0.00 4.00
846 1211 3.803082 CTTCCGTGCATGCACCCG 61.803 66.667 37.92 29.10 43.49 5.28
912 1277 2.107141 CCCGTCCGGCAATCTCTC 59.893 66.667 0.00 0.00 0.00 3.20
913 1278 2.107141 CCGTCCGGCAATCTCTCC 59.893 66.667 0.00 0.00 0.00 3.71
914 1279 2.107141 CGTCCGGCAATCTCTCCC 59.893 66.667 0.00 0.00 0.00 4.30
915 1280 2.506472 GTCCGGCAATCTCTCCCC 59.494 66.667 0.00 0.00 0.00 4.81
916 1281 2.768344 TCCGGCAATCTCTCCCCC 60.768 66.667 0.00 0.00 0.00 5.40
1010 1379 4.815973 CCCACCTCCCCCGATCCA 62.816 72.222 0.00 0.00 0.00 3.41
1031 1400 2.858974 CACCCCCACCCTCACCTT 60.859 66.667 0.00 0.00 0.00 3.50
1032 1401 2.858974 ACCCCCACCCTCACCTTG 60.859 66.667 0.00 0.00 0.00 3.61
1033 1402 4.366684 CCCCCACCCTCACCTTGC 62.367 72.222 0.00 0.00 0.00 4.01
1043 1412 1.691196 CTCACCTTGCCCAAGTCAAA 58.309 50.000 7.21 0.00 36.72 2.69
1044 1413 1.610522 CTCACCTTGCCCAAGTCAAAG 59.389 52.381 7.21 0.00 36.72 2.77
1045 1414 0.032540 CACCTTGCCCAAGTCAAAGC 59.967 55.000 7.21 0.00 36.72 3.51
1050 1419 2.877097 TGCCCAAGTCAAAGCAGATA 57.123 45.000 0.00 0.00 0.00 1.98
1056 1425 4.074970 CCAAGTCAAAGCAGATACAACCT 58.925 43.478 0.00 0.00 0.00 3.50
1095 1471 3.721370 AAGCCATCGCCATCCCCAC 62.721 63.158 0.00 0.00 34.57 4.61
1457 1833 3.207669 CGCTCCATGGCCAAGCTC 61.208 66.667 22.36 5.94 33.83 4.09
1490 1866 4.116328 TTCGAGGAGCTGCGGACG 62.116 66.667 13.71 13.71 0.00 4.79
1606 1989 2.664185 CGCCGCCTGAGATGATGG 60.664 66.667 0.00 0.00 0.00 3.51
1609 1992 2.281345 CGCCTGAGATGATGGCCC 60.281 66.667 0.00 0.00 43.42 5.80
1653 2036 3.355626 TCGGATCGACTGATTGATGTC 57.644 47.619 0.00 0.00 34.09 3.06
1654 2037 2.034685 TCGGATCGACTGATTGATGTCC 59.965 50.000 0.00 0.00 34.09 4.02
1655 2038 2.760374 GGATCGACTGATTGATGTCCC 58.240 52.381 0.00 0.00 34.09 4.46
1656 2039 2.398498 GATCGACTGATTGATGTCCCG 58.602 52.381 0.00 0.00 34.09 5.14
1657 2040 1.182667 TCGACTGATTGATGTCCCGT 58.817 50.000 0.00 0.00 0.00 5.28
1658 2041 1.134367 TCGACTGATTGATGTCCCGTC 59.866 52.381 0.00 0.00 0.00 4.79
1659 2042 1.135112 CGACTGATTGATGTCCCGTCA 60.135 52.381 0.00 0.00 0.00 4.35
1660 2043 2.481969 CGACTGATTGATGTCCCGTCAT 60.482 50.000 0.00 0.00 0.00 3.06
1661 2044 2.868583 GACTGATTGATGTCCCGTCATG 59.131 50.000 0.00 0.00 0.00 3.07
1662 2045 2.216046 CTGATTGATGTCCCGTCATGG 58.784 52.381 0.00 0.00 37.55 3.66
1663 2046 1.559219 TGATTGATGTCCCGTCATGGT 59.441 47.619 0.00 0.00 35.15 3.55
1664 2047 2.026356 TGATTGATGTCCCGTCATGGTT 60.026 45.455 0.00 0.00 35.15 3.67
1665 2048 2.107950 TTGATGTCCCGTCATGGTTC 57.892 50.000 0.00 0.00 35.15 3.62
1666 2049 1.275666 TGATGTCCCGTCATGGTTCT 58.724 50.000 0.00 0.00 35.15 3.01
1667 2050 1.207089 TGATGTCCCGTCATGGTTCTC 59.793 52.381 0.00 0.00 35.15 2.87
1668 2051 1.482593 GATGTCCCGTCATGGTTCTCT 59.517 52.381 0.00 0.00 35.15 3.10
1669 2052 0.608130 TGTCCCGTCATGGTTCTCTG 59.392 55.000 0.00 0.00 35.15 3.35
1670 2053 0.895530 GTCCCGTCATGGTTCTCTGA 59.104 55.000 0.00 0.00 35.15 3.27
1671 2054 1.482593 GTCCCGTCATGGTTCTCTGAT 59.517 52.381 0.00 0.00 35.15 2.90
1672 2055 2.093447 GTCCCGTCATGGTTCTCTGATT 60.093 50.000 0.00 0.00 35.15 2.57
1673 2056 3.132289 GTCCCGTCATGGTTCTCTGATTA 59.868 47.826 0.00 0.00 35.15 1.75
1674 2057 3.772572 TCCCGTCATGGTTCTCTGATTAA 59.227 43.478 0.00 0.00 35.15 1.40
1675 2058 4.408921 TCCCGTCATGGTTCTCTGATTAAT 59.591 41.667 0.00 0.00 35.15 1.40
1676 2059 5.104527 TCCCGTCATGGTTCTCTGATTAATT 60.105 40.000 0.00 0.00 35.15 1.40
1677 2060 6.099125 TCCCGTCATGGTTCTCTGATTAATTA 59.901 38.462 0.00 0.00 35.15 1.40
1678 2061 6.425114 CCCGTCATGGTTCTCTGATTAATTAG 59.575 42.308 0.81 0.81 35.15 1.73
1679 2062 6.425114 CCGTCATGGTTCTCTGATTAATTAGG 59.575 42.308 7.34 0.00 0.00 2.69
1680 2063 7.210174 CGTCATGGTTCTCTGATTAATTAGGA 58.790 38.462 7.34 1.80 0.00 2.94
1681 2064 7.875041 CGTCATGGTTCTCTGATTAATTAGGAT 59.125 37.037 7.34 0.00 0.00 3.24
1682 2065 9.213799 GTCATGGTTCTCTGATTAATTAGGATC 57.786 37.037 7.34 3.81 0.00 3.36
1683 2066 8.090831 TCATGGTTCTCTGATTAATTAGGATCG 58.909 37.037 7.34 0.00 0.00 3.69
1684 2067 6.759272 TGGTTCTCTGATTAATTAGGATCGG 58.241 40.000 7.34 1.04 0.00 4.18
1695 2078 7.844493 TTAATTAGGATCGGTGGTAGTATGT 57.156 36.000 0.00 0.00 0.00 2.29
1699 2082 3.067742 AGGATCGGTGGTAGTATGTTTCG 59.932 47.826 0.00 0.00 0.00 3.46
1708 2091 6.090493 GGTGGTAGTATGTTTCGTTCTTCTTC 59.910 42.308 0.00 0.00 0.00 2.87
1709 2092 6.643770 GTGGTAGTATGTTTCGTTCTTCTTCA 59.356 38.462 0.00 0.00 0.00 3.02
1710 2093 7.331193 GTGGTAGTATGTTTCGTTCTTCTTCAT 59.669 37.037 0.00 0.00 0.00 2.57
1711 2094 7.330946 TGGTAGTATGTTTCGTTCTTCTTCATG 59.669 37.037 0.00 0.00 0.00 3.07
1712 2095 6.170675 AGTATGTTTCGTTCTTCTTCATGC 57.829 37.500 0.00 0.00 0.00 4.06
1718 2105 6.650807 TGTTTCGTTCTTCTTCATGCTAGAAT 59.349 34.615 9.60 0.00 31.66 2.40
1739 2126 5.786264 ATTAGTGGTAGTAGGATGGTTCG 57.214 43.478 0.00 0.00 0.00 3.95
1743 2130 1.962100 GGTAGTAGGATGGTTCGAGGG 59.038 57.143 0.00 0.00 0.00 4.30
1750 2137 2.717139 GATGGTTCGAGGGCCGGATC 62.717 65.000 5.05 0.00 39.14 3.36
1771 2158 2.592897 CGGATGAACTGTAACGAACTCG 59.407 50.000 0.00 0.00 46.33 4.18
1796 2184 2.034053 GGAATTGCAACGTTGACCTGAA 59.966 45.455 31.62 14.49 0.00 3.02
1840 2231 1.878069 TCAATCGATGCGTCCGCTG 60.878 57.895 13.31 1.78 42.51 5.18
1841 2232 3.264897 AATCGATGCGTCCGCTGC 61.265 61.111 13.31 3.98 42.51 5.25
1866 2257 3.181458 GGAGGTATTTCTGCCGTATGGAA 60.181 47.826 4.73 0.00 37.49 3.53
1867 2258 3.805207 AGGTATTTCTGCCGTATGGAAC 58.195 45.455 4.73 0.00 37.49 3.62
1868 2259 3.199071 AGGTATTTCTGCCGTATGGAACA 59.801 43.478 4.73 0.00 37.49 3.18
1869 2260 4.683400 AGGTATTTCTGCCGTATGGAACAG 60.683 45.833 4.73 3.64 34.77 3.16
1870 2261 7.657350 AGGTATTTCTGCCGTATGGAACAGG 62.657 48.000 4.73 0.00 34.77 4.00
1880 2271 3.631453 TGGAACAGGAGATGTGCAC 57.369 52.632 10.75 10.75 43.00 4.57
1881 2272 0.764271 TGGAACAGGAGATGTGCACA 59.236 50.000 24.08 24.08 43.00 4.57
1882 2273 1.160137 GGAACAGGAGATGTGCACAC 58.840 55.000 24.37 15.97 43.00 3.82
1883 2274 1.543208 GGAACAGGAGATGTGCACACA 60.543 52.381 24.37 5.85 43.00 3.72
1884 2275 1.532868 GAACAGGAGATGTGCACACAC 59.467 52.381 24.37 18.91 45.05 3.82
1896 2287 3.050703 CACACACGGTGCTATCCTC 57.949 57.895 8.30 0.00 41.36 3.71
1897 2288 0.460284 CACACACGGTGCTATCCTCC 60.460 60.000 8.30 0.00 41.36 4.30
1898 2289 0.902984 ACACACGGTGCTATCCTCCA 60.903 55.000 8.30 0.00 36.98 3.86
1899 2290 0.249120 CACACGGTGCTATCCTCCAA 59.751 55.000 8.30 0.00 0.00 3.53
1900 2291 0.537188 ACACGGTGCTATCCTCCAAG 59.463 55.000 8.30 0.00 0.00 3.61
1901 2292 0.179073 CACGGTGCTATCCTCCAAGG 60.179 60.000 0.00 0.00 36.46 3.61
1902 2293 1.227674 CGGTGCTATCCTCCAAGGC 60.228 63.158 0.00 0.00 34.61 4.35
1903 2294 1.149401 GGTGCTATCCTCCAAGGCC 59.851 63.158 0.00 0.00 34.61 5.19
1904 2295 1.227674 GTGCTATCCTCCAAGGCCG 60.228 63.158 0.00 0.00 34.61 6.13
1905 2296 2.281139 GCTATCCTCCAAGGCCGC 60.281 66.667 0.00 0.00 34.61 6.53
1906 2297 2.029666 CTATCCTCCAAGGCCGCG 59.970 66.667 0.00 0.00 34.61 6.46
1907 2298 2.443203 TATCCTCCAAGGCCGCGA 60.443 61.111 8.23 0.00 34.61 5.87
1908 2299 1.821061 CTATCCTCCAAGGCCGCGAT 61.821 60.000 8.23 0.00 34.61 4.58
1909 2300 2.099652 TATCCTCCAAGGCCGCGATG 62.100 60.000 8.23 0.32 34.61 3.84
1911 2302 4.161295 CTCCAAGGCCGCGATGGA 62.161 66.667 8.23 17.82 42.00 3.41
1940 2331 3.243367 CGTCTCCTGTCCATTTTTGCAAA 60.243 43.478 8.05 8.05 0.00 3.68
1950 2341 6.436847 TGTCCATTTTTGCAAATAGAGATGGA 59.563 34.615 23.37 23.37 39.42 3.41
1973 2393 5.547465 ACATTGACTCATTCGGTTTACTGA 58.453 37.500 0.00 0.00 0.00 3.41
1978 2398 3.576982 ACTCATTCGGTTTACTGAGTCCA 59.423 43.478 0.00 0.00 43.60 4.02
1982 2402 4.451629 TTCGGTTTACTGAGTCCAGATC 57.548 45.455 0.00 0.00 43.02 2.75
1983 2403 2.422479 TCGGTTTACTGAGTCCAGATCG 59.578 50.000 0.00 0.00 43.02 3.69
2007 2427 8.105742 TCGTGATCTTTGTTCGAATTATTTACG 58.894 33.333 0.00 6.77 0.00 3.18
2008 2428 7.896274 CGTGATCTTTGTTCGAATTATTTACGT 59.104 33.333 0.00 0.00 0.00 3.57
2060 2480 8.950210 TCTTTCAACTATTTGGAATCATCACTC 58.050 33.333 0.00 0.00 29.28 3.51
2291 2713 2.384653 GACCAATAGGCCTCGCTCCC 62.385 65.000 9.68 0.00 39.06 4.30
2422 2844 0.803768 CGCGTAAGAGCAGAGCACAT 60.804 55.000 0.00 0.00 43.02 3.21
2488 2910 1.539388 CTCTAGCTCACCTCCTATGCG 59.461 57.143 0.00 0.00 0.00 4.73
2619 3041 2.183555 GCCCTGTACCCGTCTTCG 59.816 66.667 0.00 0.00 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.357579 AGAACCACATCTCCATCATAGATC 57.642 41.667 0.00 0.00 31.22 2.75
23 24 7.416777 GGCCTACCTAAAATTTCAGAATGGAAG 60.417 40.741 0.00 0.00 36.74 3.46
24 25 6.379988 GGCCTACCTAAAATTTCAGAATGGAA 59.620 38.462 0.00 0.00 38.46 3.53
61 63 0.675083 TGTCGTAAGGGTTGAAGCGA 59.325 50.000 0.00 0.00 38.47 4.93
82 84 2.267188 TTGTATGACGTCGCCACTAC 57.733 50.000 11.62 7.86 0.00 2.73
94 96 7.147620 ACCACCGAGGACTAATTTATTGTATGA 60.148 37.037 0.00 0.00 41.22 2.15
105 107 1.204146 ATGCACCACCGAGGACTAAT 58.796 50.000 0.00 0.00 41.22 1.73
124 126 2.401583 AACGCCATCACTATCTGCAA 57.598 45.000 0.00 0.00 0.00 4.08
125 127 3.751479 ATAACGCCATCACTATCTGCA 57.249 42.857 0.00 0.00 0.00 4.41
127 129 6.363577 ACAAAATAACGCCATCACTATCTG 57.636 37.500 0.00 0.00 0.00 2.90
128 130 5.234329 CGACAAAATAACGCCATCACTATCT 59.766 40.000 0.00 0.00 0.00 1.98
153 155 8.859236 AACATCGAGATGGATGAATTAATCAT 57.141 30.769 16.37 0.00 45.27 2.45
164 166 5.277490 CGCATACAAAAACATCGAGATGGAT 60.277 40.000 16.37 3.42 42.91 3.41
187 189 1.876714 CGAACCATAGACGCCACCG 60.877 63.158 0.00 0.00 41.14 4.94
188 190 2.171725 GCGAACCATAGACGCCACC 61.172 63.158 0.00 0.00 45.35 4.61
193 195 0.739462 TTGCCTGCGAACCATAGACG 60.739 55.000 0.00 0.00 0.00 4.18
222 225 3.117888 ACCAAGATGACCGCAAAGGATAT 60.118 43.478 0.00 0.00 45.00 1.63
227 281 1.197721 GTGACCAAGATGACCGCAAAG 59.802 52.381 0.00 0.00 0.00 2.77
248 302 0.478072 ACACCTGAGGATGCACCAAA 59.522 50.000 4.99 0.00 42.04 3.28
261 315 0.667487 ACGCATCACTTCGACACCTG 60.667 55.000 0.00 0.00 0.00 4.00
280 334 2.752354 CCAATAAAACCCTCACGCATGA 59.248 45.455 0.00 0.00 0.00 3.07
281 335 2.752354 TCCAATAAAACCCTCACGCATG 59.248 45.455 0.00 0.00 0.00 4.06
282 336 3.080300 TCCAATAAAACCCTCACGCAT 57.920 42.857 0.00 0.00 0.00 4.73
283 337 2.570415 TCCAATAAAACCCTCACGCA 57.430 45.000 0.00 0.00 0.00 5.24
284 338 2.415491 GCTTCCAATAAAACCCTCACGC 60.415 50.000 0.00 0.00 0.00 5.34
285 339 2.163613 GGCTTCCAATAAAACCCTCACG 59.836 50.000 0.00 0.00 0.00 4.35
286 340 3.161866 TGGCTTCCAATAAAACCCTCAC 58.838 45.455 0.00 0.00 0.00 3.51
287 341 3.534357 TGGCTTCCAATAAAACCCTCA 57.466 42.857 0.00 0.00 0.00 3.86
288 342 3.368427 GCTTGGCTTCCAATAAAACCCTC 60.368 47.826 0.00 0.00 43.07 4.30
289 343 2.567169 GCTTGGCTTCCAATAAAACCCT 59.433 45.455 0.00 0.00 43.07 4.34
290 344 2.567169 AGCTTGGCTTCCAATAAAACCC 59.433 45.455 0.00 0.00 43.07 4.11
291 345 3.961480 AGCTTGGCTTCCAATAAAACC 57.039 42.857 0.00 0.00 43.07 3.27
306 360 1.002468 CGTCACAACCAGGAAAGCTTG 60.002 52.381 0.00 0.00 0.00 4.01
307 361 1.134220 TCGTCACAACCAGGAAAGCTT 60.134 47.619 0.00 0.00 0.00 3.74
314 368 3.403038 AGAAGAAATCGTCACAACCAGG 58.597 45.455 0.00 0.00 0.00 4.45
326 380 5.183331 ACCGCCCTAAAGAAAAGAAGAAATC 59.817 40.000 0.00 0.00 0.00 2.17
327 381 5.048013 CACCGCCCTAAAGAAAAGAAGAAAT 60.048 40.000 0.00 0.00 0.00 2.17
328 382 4.277423 CACCGCCCTAAAGAAAAGAAGAAA 59.723 41.667 0.00 0.00 0.00 2.52
329 383 3.818773 CACCGCCCTAAAGAAAAGAAGAA 59.181 43.478 0.00 0.00 0.00 2.52
330 384 3.408634 CACCGCCCTAAAGAAAAGAAGA 58.591 45.455 0.00 0.00 0.00 2.87
331 385 2.488153 CCACCGCCCTAAAGAAAAGAAG 59.512 50.000 0.00 0.00 0.00 2.85
332 386 2.158579 ACCACCGCCCTAAAGAAAAGAA 60.159 45.455 0.00 0.00 0.00 2.52
333 387 1.422402 ACCACCGCCCTAAAGAAAAGA 59.578 47.619 0.00 0.00 0.00 2.52
334 388 1.810755 GACCACCGCCCTAAAGAAAAG 59.189 52.381 0.00 0.00 0.00 2.27
343 397 2.920076 TTTTGCAAGACCACCGCCCT 62.920 55.000 0.00 0.00 0.00 5.19
344 398 2.494530 TTTTGCAAGACCACCGCCC 61.495 57.895 0.00 0.00 0.00 6.13
345 399 1.299850 GTTTTGCAAGACCACCGCC 60.300 57.895 8.90 0.00 0.00 6.13
346 400 1.299850 GGTTTTGCAAGACCACCGC 60.300 57.895 29.14 5.99 35.95 5.68
354 408 3.731652 TCATGACCAAGGTTTTGCAAG 57.268 42.857 0.00 0.00 32.79 4.01
355 409 5.304101 AGTTATCATGACCAAGGTTTTGCAA 59.696 36.000 0.00 0.00 32.79 4.08
383 437 0.304705 CATAACATTGCTCGCGGACC 59.695 55.000 6.13 0.00 0.00 4.46
389 443 3.313249 TCAAGCCATCATAACATTGCTCG 59.687 43.478 0.00 0.00 0.00 5.03
392 446 3.181484 TGCTCAAGCCATCATAACATTGC 60.181 43.478 0.00 0.00 41.18 3.56
401 455 1.475280 GCTCAAATGCTCAAGCCATCA 59.525 47.619 0.00 0.00 41.18 3.07
436 490 0.693622 TTGTGCCAGGGTCCGAATAA 59.306 50.000 0.00 0.00 0.00 1.40
448 513 7.777095 AGTAACTGTAAAAAGAAATTGTGCCA 58.223 30.769 0.00 0.00 0.00 4.92
519 584 8.648693 ACACTTGAGTCTATTAACCAAACTAGT 58.351 33.333 0.00 0.00 0.00 2.57
560 625 5.891451 AGAACTTGGTGTTTGTAGCTTTTC 58.109 37.500 0.00 0.00 39.30 2.29
566 631 7.758495 AGTACAAAAGAACTTGGTGTTTGTAG 58.242 34.615 7.37 0.00 42.31 2.74
600 670 1.799994 GGTTGTGTGGCATGCAAAATC 59.200 47.619 21.36 1.47 0.00 2.17
620 690 1.069227 GCTGGCGTGAGGTTTTACTTG 60.069 52.381 0.00 0.00 0.00 3.16
645 942 1.685224 GGGATGGTCAGTGGCTCAA 59.315 57.895 0.00 0.00 0.00 3.02
702 999 9.845740 TTGCAAGCTATAATTAACCTCTCATTA 57.154 29.630 0.00 0.00 0.00 1.90
704 1001 7.995488 ACTTGCAAGCTATAATTAACCTCTCAT 59.005 33.333 26.27 0.00 0.00 2.90
705 1002 7.338710 ACTTGCAAGCTATAATTAACCTCTCA 58.661 34.615 26.27 0.00 0.00 3.27
706 1003 7.793927 ACTTGCAAGCTATAATTAACCTCTC 57.206 36.000 26.27 0.00 0.00 3.20
783 1113 4.318546 GCGTCAAAAACTTCAGTGTCGTAT 60.319 41.667 0.00 0.00 0.00 3.06
794 1133 1.065109 GGGTGCGCGTCAAAAACTT 59.935 52.632 8.43 0.00 0.00 2.66
811 1150 3.151022 GAGCGGAGGAGGAGGTGG 61.151 72.222 0.00 0.00 0.00 4.61
812 1151 3.151022 GGAGCGGAGGAGGAGGTG 61.151 72.222 0.00 0.00 0.00 4.00
813 1152 2.864770 GAAGGAGCGGAGGAGGAGGT 62.865 65.000 0.00 0.00 0.00 3.85
814 1153 2.042435 AAGGAGCGGAGGAGGAGG 60.042 66.667 0.00 0.00 0.00 4.30
815 1154 2.131067 GGAAGGAGCGGAGGAGGAG 61.131 68.421 0.00 0.00 0.00 3.69
816 1155 2.042843 GGAAGGAGCGGAGGAGGA 60.043 66.667 0.00 0.00 0.00 3.71
818 1157 2.756283 ACGGAAGGAGCGGAGGAG 60.756 66.667 0.00 0.00 0.00 3.69
819 1158 3.068691 CACGGAAGGAGCGGAGGA 61.069 66.667 0.00 0.00 0.00 3.71
820 1159 4.821589 GCACGGAAGGAGCGGAGG 62.822 72.222 0.00 0.00 0.00 4.30
899 1264 2.768344 GGGGGAGAGATTGCCGGA 60.768 66.667 5.05 0.00 38.39 5.14
913 1278 1.545931 ATTTATGGAGGGGAAGGGGG 58.454 55.000 0.00 0.00 0.00 5.40
914 1279 6.102762 GGTATATATTTATGGAGGGGAAGGGG 59.897 46.154 0.00 0.00 0.00 4.79
915 1280 6.681093 TGGTATATATTTATGGAGGGGAAGGG 59.319 42.308 0.00 0.00 0.00 3.95
916 1281 7.765149 TGGTATATATTTATGGAGGGGAAGG 57.235 40.000 0.00 0.00 0.00 3.46
917 1282 9.686683 CTTTGGTATATATTTATGGAGGGGAAG 57.313 37.037 0.00 0.00 0.00 3.46
918 1283 9.189750 ACTTTGGTATATATTTATGGAGGGGAA 57.810 33.333 0.00 0.00 0.00 3.97
919 1284 8.766492 ACTTTGGTATATATTTATGGAGGGGA 57.234 34.615 0.00 0.00 0.00 4.81
920 1285 7.769044 CGACTTTGGTATATATTTATGGAGGGG 59.231 40.741 0.00 0.00 0.00 4.79
921 1286 8.319146 ACGACTTTGGTATATATTTATGGAGGG 58.681 37.037 0.00 0.00 0.00 4.30
922 1287 9.367444 GACGACTTTGGTATATATTTATGGAGG 57.633 37.037 0.00 0.00 0.00 4.30
1002 1371 2.515901 GGGGTGGATTGGATCGGG 59.484 66.667 0.00 0.00 0.00 5.14
1010 1379 2.212761 TGAGGGTGGGGGTGGATT 59.787 61.111 0.00 0.00 0.00 3.01
1030 1399 1.999648 ATCTGCTTTGACTTGGGCAA 58.000 45.000 0.00 0.00 34.21 4.52
1031 1400 2.224744 TGTATCTGCTTTGACTTGGGCA 60.225 45.455 0.00 0.00 0.00 5.36
1032 1401 2.436417 TGTATCTGCTTTGACTTGGGC 58.564 47.619 0.00 0.00 0.00 5.36
1033 1402 3.191371 GGTTGTATCTGCTTTGACTTGGG 59.809 47.826 0.00 0.00 0.00 4.12
1043 1412 3.327757 TGGAGTGAAAGGTTGTATCTGCT 59.672 43.478 0.00 0.00 0.00 4.24
1044 1413 3.437049 GTGGAGTGAAAGGTTGTATCTGC 59.563 47.826 0.00 0.00 0.00 4.26
1045 1414 4.003648 GGTGGAGTGAAAGGTTGTATCTG 58.996 47.826 0.00 0.00 0.00 2.90
1050 1419 1.409661 GGTGGTGGAGTGAAAGGTTGT 60.410 52.381 0.00 0.00 0.00 3.32
1056 1425 1.542328 CGTCATGGTGGTGGAGTGAAA 60.542 52.381 0.00 0.00 0.00 2.69
1505 1881 4.969196 CCGTCCCCATCCGCATCG 62.969 72.222 0.00 0.00 0.00 3.84
1643 2026 1.559219 ACCATGACGGGACATCAATCA 59.441 47.619 0.00 0.00 30.94 2.57
1644 2027 2.332063 ACCATGACGGGACATCAATC 57.668 50.000 0.00 0.00 30.94 2.67
1645 2028 2.239654 AGAACCATGACGGGACATCAAT 59.760 45.455 0.00 0.00 30.94 2.57
1646 2029 1.628340 AGAACCATGACGGGACATCAA 59.372 47.619 0.00 0.00 30.94 2.57
1647 2030 1.207089 GAGAACCATGACGGGACATCA 59.793 52.381 0.00 0.00 40.22 3.07
1648 2031 1.482593 AGAGAACCATGACGGGACATC 59.517 52.381 0.00 0.00 40.22 3.06
1649 2032 1.208052 CAGAGAACCATGACGGGACAT 59.792 52.381 0.00 0.00 40.22 3.06
1650 2033 0.608130 CAGAGAACCATGACGGGACA 59.392 55.000 0.00 0.00 40.22 4.02
1651 2034 0.895530 TCAGAGAACCATGACGGGAC 59.104 55.000 0.00 0.00 40.22 4.46
1652 2035 1.866015 ATCAGAGAACCATGACGGGA 58.134 50.000 0.00 0.00 40.22 5.14
1653 2036 2.698855 AATCAGAGAACCATGACGGG 57.301 50.000 0.00 0.00 40.22 5.28
1654 2037 6.425114 CCTAATTAATCAGAGAACCATGACGG 59.575 42.308 0.00 0.00 42.50 4.79
1655 2038 7.210174 TCCTAATTAATCAGAGAACCATGACG 58.790 38.462 0.00 0.00 0.00 4.35
1656 2039 9.213799 GATCCTAATTAATCAGAGAACCATGAC 57.786 37.037 0.00 0.00 0.00 3.06
1657 2040 8.090831 CGATCCTAATTAATCAGAGAACCATGA 58.909 37.037 0.00 0.00 0.00 3.07
1658 2041 7.332926 CCGATCCTAATTAATCAGAGAACCATG 59.667 40.741 0.00 0.00 0.00 3.66
1659 2042 7.016661 ACCGATCCTAATTAATCAGAGAACCAT 59.983 37.037 0.00 0.00 0.00 3.55
1660 2043 6.326583 ACCGATCCTAATTAATCAGAGAACCA 59.673 38.462 0.00 0.00 0.00 3.67
1661 2044 6.647067 CACCGATCCTAATTAATCAGAGAACC 59.353 42.308 0.00 0.00 0.00 3.62
1662 2045 6.647067 CCACCGATCCTAATTAATCAGAGAAC 59.353 42.308 0.00 0.00 0.00 3.01
1663 2046 6.326583 ACCACCGATCCTAATTAATCAGAGAA 59.673 38.462 0.00 0.00 0.00 2.87
1664 2047 5.839063 ACCACCGATCCTAATTAATCAGAGA 59.161 40.000 0.00 0.00 0.00 3.10
1665 2048 6.102897 ACCACCGATCCTAATTAATCAGAG 57.897 41.667 0.00 0.00 0.00 3.35
1666 2049 6.781014 ACTACCACCGATCCTAATTAATCAGA 59.219 38.462 0.00 0.00 0.00 3.27
1667 2050 6.994221 ACTACCACCGATCCTAATTAATCAG 58.006 40.000 0.00 0.00 0.00 2.90
1668 2051 6.989155 ACTACCACCGATCCTAATTAATCA 57.011 37.500 0.00 0.00 0.00 2.57
1669 2052 8.529476 ACATACTACCACCGATCCTAATTAATC 58.471 37.037 0.00 0.00 0.00 1.75
1670 2053 8.431910 ACATACTACCACCGATCCTAATTAAT 57.568 34.615 0.00 0.00 0.00 1.40
1671 2054 7.844493 ACATACTACCACCGATCCTAATTAA 57.156 36.000 0.00 0.00 0.00 1.40
1672 2055 7.844493 AACATACTACCACCGATCCTAATTA 57.156 36.000 0.00 0.00 0.00 1.40
1673 2056 6.742559 AACATACTACCACCGATCCTAATT 57.257 37.500 0.00 0.00 0.00 1.40
1674 2057 6.516194 CGAAACATACTACCACCGATCCTAAT 60.516 42.308 0.00 0.00 0.00 1.73
1675 2058 5.221106 CGAAACATACTACCACCGATCCTAA 60.221 44.000 0.00 0.00 0.00 2.69
1676 2059 4.276678 CGAAACATACTACCACCGATCCTA 59.723 45.833 0.00 0.00 0.00 2.94
1677 2060 3.067742 CGAAACATACTACCACCGATCCT 59.932 47.826 0.00 0.00 0.00 3.24
1678 2061 3.181483 ACGAAACATACTACCACCGATCC 60.181 47.826 0.00 0.00 0.00 3.36
1679 2062 4.037858 ACGAAACATACTACCACCGATC 57.962 45.455 0.00 0.00 0.00 3.69
1680 2063 4.159135 AGAACGAAACATACTACCACCGAT 59.841 41.667 0.00 0.00 0.00 4.18
1681 2064 3.507233 AGAACGAAACATACTACCACCGA 59.493 43.478 0.00 0.00 0.00 4.69
1682 2065 3.841643 AGAACGAAACATACTACCACCG 58.158 45.455 0.00 0.00 0.00 4.94
1683 2066 5.476614 AGAAGAACGAAACATACTACCACC 58.523 41.667 0.00 0.00 0.00 4.61
1684 2067 6.643770 TGAAGAAGAACGAAACATACTACCAC 59.356 38.462 0.00 0.00 0.00 4.16
1695 2078 7.672983 AATTCTAGCATGAAGAAGAACGAAA 57.327 32.000 14.09 0.00 36.46 3.46
1699 2082 7.550906 ACCACTAATTCTAGCATGAAGAAGAAC 59.449 37.037 14.09 0.00 36.46 3.01
1708 2091 7.526142 TCCTACTACCACTAATTCTAGCATG 57.474 40.000 0.00 0.00 0.00 4.06
1709 2092 7.179338 CCATCCTACTACCACTAATTCTAGCAT 59.821 40.741 0.00 0.00 0.00 3.79
1710 2093 6.493802 CCATCCTACTACCACTAATTCTAGCA 59.506 42.308 0.00 0.00 0.00 3.49
1711 2094 6.494146 ACCATCCTACTACCACTAATTCTAGC 59.506 42.308 0.00 0.00 0.00 3.42
1712 2095 8.480133 AACCATCCTACTACCACTAATTCTAG 57.520 38.462 0.00 0.00 0.00 2.43
1718 2105 4.858850 TCGAACCATCCTACTACCACTAA 58.141 43.478 0.00 0.00 0.00 2.24
1750 2137 2.592897 CGAGTTCGTTACAGTTCATCCG 59.407 50.000 0.00 0.00 34.11 4.18
1755 2142 1.121967 CGTGCGAGTTCGTTACAGTTC 59.878 52.381 3.27 0.00 42.22 3.01
1771 2158 0.317436 TCAACGTTGCAATTCCGTGC 60.317 50.000 23.47 0.00 45.15 5.34
1840 2231 1.429148 CGGCAGAAATACCTCCACGC 61.429 60.000 0.00 0.00 0.00 5.34
1841 2232 0.108329 ACGGCAGAAATACCTCCACG 60.108 55.000 0.00 0.00 0.00 4.94
1842 2233 2.973694 TACGGCAGAAATACCTCCAC 57.026 50.000 0.00 0.00 0.00 4.02
1846 2237 3.199071 TGTTCCATACGGCAGAAATACCT 59.801 43.478 0.00 0.00 0.00 3.08
1848 2239 3.560068 CCTGTTCCATACGGCAGAAATAC 59.440 47.826 0.00 0.00 0.00 1.89
1866 2257 0.601046 CGTGTGTGCACATCTCCTGT 60.601 55.000 24.69 0.00 45.50 4.00
1867 2258 1.293963 CCGTGTGTGCACATCTCCTG 61.294 60.000 24.69 9.83 45.50 3.86
1868 2259 1.004560 CCGTGTGTGCACATCTCCT 60.005 57.895 24.69 0.00 45.50 3.69
1869 2260 1.301716 ACCGTGTGTGCACATCTCC 60.302 57.895 24.69 10.68 45.50 3.71
1870 2261 1.862123 CACCGTGTGTGCACATCTC 59.138 57.895 24.69 11.08 45.50 2.75
1871 2262 4.047834 CACCGTGTGTGCACATCT 57.952 55.556 24.69 0.70 45.50 2.90
1879 2270 0.902984 TGGAGGATAGCACCGTGTGT 60.903 55.000 0.00 0.00 35.75 3.72
1880 2271 0.249120 TTGGAGGATAGCACCGTGTG 59.751 55.000 0.00 0.25 36.51 3.82
1881 2272 0.537188 CTTGGAGGATAGCACCGTGT 59.463 55.000 0.00 0.00 34.73 4.49
1882 2273 0.179073 CCTTGGAGGATAGCACCGTG 60.179 60.000 0.00 0.00 37.67 4.94
1883 2274 1.972660 GCCTTGGAGGATAGCACCGT 61.973 60.000 0.00 0.00 37.67 4.83
1884 2275 1.227674 GCCTTGGAGGATAGCACCG 60.228 63.158 0.00 0.00 37.67 4.94
1885 2276 1.149401 GGCCTTGGAGGATAGCACC 59.851 63.158 0.00 0.00 37.67 5.01
1886 2277 1.227674 CGGCCTTGGAGGATAGCAC 60.228 63.158 0.00 0.00 37.67 4.40
1887 2278 3.106986 GCGGCCTTGGAGGATAGCA 62.107 63.158 0.00 0.00 37.67 3.49
1888 2279 2.281139 GCGGCCTTGGAGGATAGC 60.281 66.667 0.00 0.00 37.67 2.97
1889 2280 1.821061 ATCGCGGCCTTGGAGGATAG 61.821 60.000 6.13 0.00 37.67 2.08
1890 2281 1.837051 ATCGCGGCCTTGGAGGATA 60.837 57.895 6.13 0.00 37.67 2.59
1891 2282 3.164269 ATCGCGGCCTTGGAGGAT 61.164 61.111 6.13 0.00 37.67 3.24
1892 2283 4.161295 CATCGCGGCCTTGGAGGA 62.161 66.667 6.13 0.00 37.67 3.71
1894 2285 3.466791 ATCCATCGCGGCCTTGGAG 62.467 63.158 19.46 0.00 42.53 3.86
1895 2286 3.460672 GATCCATCGCGGCCTTGGA 62.461 63.158 17.71 17.71 43.37 3.53
1896 2287 2.974698 GATCCATCGCGGCCTTGG 60.975 66.667 6.13 9.09 33.14 3.61
1897 2288 2.974698 GGATCCATCGCGGCCTTG 60.975 66.667 6.95 0.00 33.14 3.61
1898 2289 4.609018 CGGATCCATCGCGGCCTT 62.609 66.667 13.41 0.00 33.14 4.35
1903 2294 4.266070 ACGGACGGATCCATCGCG 62.266 66.667 13.41 14.04 46.67 5.87
1904 2295 2.354773 GACGGACGGATCCATCGC 60.355 66.667 13.41 0.00 46.67 4.58
1905 2296 1.283181 GAGACGGACGGATCCATCG 59.717 63.158 13.41 13.96 46.67 3.84
1906 2297 0.824182 AGGAGACGGACGGATCCATC 60.824 60.000 13.41 5.77 46.67 3.51
1907 2298 1.109920 CAGGAGACGGACGGATCCAT 61.110 60.000 13.41 0.00 46.67 3.41
1908 2299 1.753078 CAGGAGACGGACGGATCCA 60.753 63.158 13.41 0.00 46.67 3.41
1909 2300 1.726533 GACAGGAGACGGACGGATCC 61.727 65.000 0.00 0.00 42.28 3.36
1910 2301 1.726533 GGACAGGAGACGGACGGATC 61.727 65.000 0.00 0.00 0.00 3.36
1911 2302 1.753463 GGACAGGAGACGGACGGAT 60.753 63.158 0.00 0.00 0.00 4.18
1922 2313 6.009589 TCTCTATTTGCAAAAATGGACAGGA 58.990 36.000 17.19 0.00 0.00 3.86
1923 2314 6.271488 TCTCTATTTGCAAAAATGGACAGG 57.729 37.500 17.19 0.00 0.00 4.00
1940 2331 6.453943 CGAATGAGTCAATGTCCATCTCTAT 58.546 40.000 0.00 0.00 0.00 1.98
1950 2341 5.547465 TCAGTAAACCGAATGAGTCAATGT 58.453 37.500 0.00 0.00 0.00 2.71
1973 2393 4.499183 GAACAAAGATCACGATCTGGACT 58.501 43.478 10.25 0.00 46.75 3.85
1982 2402 7.896274 ACGTAAATAATTCGAACAAAGATCACG 59.104 33.333 0.00 6.72 0.00 4.35
2043 2463 4.771114 ACCGGAGTGATGATTCCAAATA 57.229 40.909 9.46 0.00 32.87 1.40
2044 2464 3.652057 ACCGGAGTGATGATTCCAAAT 57.348 42.857 9.46 0.00 32.87 2.32
2060 2480 2.738521 CAACGACAGCTCCACCGG 60.739 66.667 0.00 0.00 0.00 5.28
2224 2646 2.356780 GGTCCAGACGAACCGGGAT 61.357 63.158 6.32 0.00 0.00 3.85
2458 2880 1.055849 TGAGCTAGAGCACCACCAAA 58.944 50.000 4.01 0.00 45.16 3.28
2488 2910 1.234821 TTCCATCGAACACCTTGTGC 58.765 50.000 0.00 0.00 36.98 4.57
2675 3097 9.853177 TTTCCTTTCAGAAAGAAGATAAGAACT 57.147 29.630 22.55 0.00 41.02 3.01


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

AutoCloner maintained by Alex Coulton.