Multiple sequence alignment - TraesCS4B01G212600

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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 TraesCS4B01G212600 chr4B 100.000 3499 0 0 1 3499 450916893 450913395 0.000000e+00 6462.0
1 TraesCS4B01G212600 chr4B 98.361 61 1 0 2960 3020 16092454 16092514 1.330000e-19 108.0
2 TraesCS4B01G212600 chr4D 88.459 1525 69 47 522 2004 366324604 366323145 0.000000e+00 1742.0
3 TraesCS4B01G212600 chr4D 96.429 756 22 3 2138 2889 366323013 366322259 0.000000e+00 1242.0
4 TraesCS4B01G212600 chr4D 91.200 500 19 6 3015 3498 366322228 366321738 0.000000e+00 656.0
5 TraesCS4B01G212600 chr4D 86.447 546 33 15 1 538 366325137 366324625 8.480000e-156 560.0
6 TraesCS4B01G212600 chr4D 93.151 73 5 0 2956 3028 390735329 390735401 1.330000e-19 108.0
7 TraesCS4B01G212600 chr4A 86.871 1371 83 38 715 2018 98598612 98599952 0.000000e+00 1445.0
8 TraesCS4B01G212600 chr4A 95.509 757 25 5 2138 2888 98600202 98600955 0.000000e+00 1201.0
9 TraesCS4B01G212600 chr4A 92.016 501 22 7 3015 3499 98600984 98601482 0.000000e+00 688.0
10 TraesCS4B01G212600 chr4A 85.714 259 19 3 3252 3494 56482117 56482373 1.250000e-64 257.0
11 TraesCS4B01G212600 chr4A 88.235 102 5 5 1 101 98598188 98598283 7.940000e-22 115.0
12 TraesCS4B01G212600 chr4A 92.857 70 4 1 2956 3025 213025482 213025414 2.220000e-17 100.0
13 TraesCS4B01G212600 chr3D 88.417 259 12 3 3252 3494 443673035 443673291 2.640000e-76 296.0
14 TraesCS4B01G212600 chr2A 85.305 279 23 8 3232 3494 578017344 578017620 4.450000e-69 272.0
15 TraesCS4B01G212600 chr6B 90.964 166 12 3 3252 3416 101435522 101435359 1.630000e-53 220.0
16 TraesCS4B01G212600 chr6B 94.286 70 3 1 2956 3024 82007454 82007385 4.780000e-19 106.0
17 TraesCS4B01G212600 chr6B 100.000 32 0 0 3411 3442 101435348 101435317 3.770000e-05 60.2
18 TraesCS4B01G212600 chrUn 95.652 69 3 0 2956 3024 134235050 134234982 1.030000e-20 111.0
19 TraesCS4B01G212600 chr5D 94.203 69 4 0 2956 3024 37210051 37210119 4.780000e-19 106.0
20 TraesCS4B01G212600 chr5D 95.385 65 3 0 2956 3020 264370844 264370780 1.720000e-18 104.0
21 TraesCS4B01G212600 chr5D 95.385 65 3 0 2956 3020 281224193 281224129 1.720000e-18 104.0
22 TraesCS4B01G212600 chr3B 96.825 63 2 0 2956 3018 805684880 805684942 4.780000e-19 106.0
23 TraesCS4B01G212600 chr3B 89.831 59 6 0 2884 2942 257782113 257782055 3.750000e-10 76.8
24 TraesCS4B01G212600 chr3A 89.831 59 6 0 2884 2942 223533267 223533209 3.750000e-10 76.8
25 TraesCS4B01G212600 chr3A 76.296 135 23 6 220 351 669598994 669598866 2.920000e-06 63.9
26 TraesCS4B01G212600 chr7A 94.872 39 2 0 2884 2922 374005731 374005769 1.050000e-05 62.1


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 TraesCS4B01G212600 chr4B 450913395 450916893 3498 True 6462.00 6462 100.00000 1 3499 1 chr4B.!!$R1 3498
1 TraesCS4B01G212600 chr4D 366321738 366325137 3399 True 1050.00 1742 90.63375 1 3498 4 chr4D.!!$R1 3497
2 TraesCS4B01G212600 chr4A 98598188 98601482 3294 False 862.25 1445 90.65775 1 3499 4 chr4A.!!$F2 3498

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
805 873 0.045778 CCTTTCCTTCCCCTCCCCTA 59.954 60.0 0.0 0.0 0.0 3.53 F
1696 1844 0.108138 GAGCTGGTCTGTGCCGTATT 60.108 55.0 0.0 0.0 0.0 1.89 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2136 2289 0.112995 TGATGGAAGTTGGCTGCCTT 59.887 50.0 21.03 5.72 41.30 4.35 R
3318 3668 0.320247 CTCGAGCTGACTTGTGGCTT 60.320 55.0 0.00 0.00 36.37 4.35 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
213 227 2.171448 ACATGCTCCCTCCATTCACTAC 59.829 50.000 0.00 0.00 0.00 2.73
214 228 0.824109 TGCTCCCTCCATTCACTACG 59.176 55.000 0.00 0.00 0.00 3.51
215 229 1.112113 GCTCCCTCCATTCACTACGA 58.888 55.000 0.00 0.00 0.00 3.43
223 237 6.208797 TCCCTCCATTCACTACGACATTATAG 59.791 42.308 0.00 0.00 0.00 1.31
226 240 7.093727 CCTCCATTCACTACGACATTATAGGAT 60.094 40.741 0.00 0.00 0.00 3.24
227 241 7.602753 TCCATTCACTACGACATTATAGGATG 58.397 38.462 0.00 0.00 0.00 3.51
228 242 7.232737 TCCATTCACTACGACATTATAGGATGT 59.767 37.037 0.00 0.00 42.68 3.06
293 307 9.052759 AGTAGGTTTGTACACTCATTTTAGTTG 57.947 33.333 0.00 0.00 0.00 3.16
300 314 8.317891 TGTACACTCATTTTAGTTGGTATGTG 57.682 34.615 0.00 0.00 0.00 3.21
303 317 6.149474 ACACTCATTTTAGTTGGTATGTGCTC 59.851 38.462 0.00 0.00 0.00 4.26
351 365 2.496899 ACAATGAACGGAAGGAGCAT 57.503 45.000 0.00 0.00 0.00 3.79
371 385 4.806247 GCATATGCGAGTATGATAACCCTC 59.194 45.833 12.82 0.00 34.67 4.30
372 386 5.394663 GCATATGCGAGTATGATAACCCTCT 60.395 44.000 12.82 0.00 34.67 3.69
373 387 6.634805 CATATGCGAGTATGATAACCCTCTT 58.365 40.000 0.00 0.00 34.67 2.85
374 388 5.552870 ATGCGAGTATGATAACCCTCTTT 57.447 39.130 0.00 0.00 0.00 2.52
375 389 5.353394 TGCGAGTATGATAACCCTCTTTT 57.647 39.130 0.00 0.00 0.00 2.27
376 390 5.741011 TGCGAGTATGATAACCCTCTTTTT 58.259 37.500 0.00 0.00 0.00 1.94
377 391 6.880484 TGCGAGTATGATAACCCTCTTTTTA 58.120 36.000 0.00 0.00 0.00 1.52
378 392 6.984474 TGCGAGTATGATAACCCTCTTTTTAG 59.016 38.462 0.00 0.00 0.00 1.85
379 393 6.424207 GCGAGTATGATAACCCTCTTTTTAGG 59.576 42.308 0.00 0.00 36.30 2.69
410 424 3.871594 CCCCTTTCTTAGTGTAAGATGCG 59.128 47.826 0.00 0.00 43.72 4.73
413 427 5.411781 CCTTTCTTAGTGTAAGATGCGAGT 58.588 41.667 0.00 0.00 43.72 4.18
414 428 6.405508 CCCTTTCTTAGTGTAAGATGCGAGTA 60.406 42.308 0.00 0.00 43.72 2.59
415 429 7.203910 CCTTTCTTAGTGTAAGATGCGAGTAT 58.796 38.462 0.00 0.00 43.72 2.12
416 430 7.707035 CCTTTCTTAGTGTAAGATGCGAGTATT 59.293 37.037 0.00 0.00 43.72 1.89
417 431 9.731819 CTTTCTTAGTGTAAGATGCGAGTATTA 57.268 33.333 0.00 0.00 43.72 0.98
450 464 4.136051 ACCAATGAAAACAAATTGCCCAG 58.864 39.130 0.00 0.00 33.34 4.45
545 598 0.385223 GTTGCTTCTGCTGCACTTCG 60.385 55.000 0.00 0.00 40.40 3.79
565 618 4.767255 CGCCAGTCAGACCCAGGC 62.767 72.222 15.91 15.91 41.86 4.85
566 619 4.416738 GCCAGTCAGACCCAGGCC 62.417 72.222 15.27 0.00 39.42 5.19
567 620 4.087892 CCAGTCAGACCCAGGCCG 62.088 72.222 0.00 0.00 0.00 6.13
568 621 2.997315 CAGTCAGACCCAGGCCGA 60.997 66.667 0.00 0.00 0.00 5.54
569 622 2.681778 AGTCAGACCCAGGCCGAG 60.682 66.667 0.00 0.00 0.00 4.63
570 623 2.680352 GTCAGACCCAGGCCGAGA 60.680 66.667 0.00 0.00 0.00 4.04
571 624 2.363018 TCAGACCCAGGCCGAGAG 60.363 66.667 0.00 0.00 0.00 3.20
572 625 4.154347 CAGACCCAGGCCGAGAGC 62.154 72.222 0.00 0.00 42.60 4.09
602 655 1.296056 CCCGCTTCCTACCAAACACG 61.296 60.000 0.00 0.00 0.00 4.49
617 670 3.071206 ACGCTCCCGCTGACATCT 61.071 61.111 0.00 0.00 38.22 2.90
693 751 2.734723 CGGAGCACACACCACTCG 60.735 66.667 0.00 0.00 0.00 4.18
694 752 2.421739 GGAGCACACACCACTCGT 59.578 61.111 0.00 0.00 0.00 4.18
695 753 1.663739 GGAGCACACACCACTCGTA 59.336 57.895 0.00 0.00 0.00 3.43
696 754 0.666577 GGAGCACACACCACTCGTAC 60.667 60.000 0.00 0.00 0.00 3.67
697 755 1.002250 GAGCACACACCACTCGTACG 61.002 60.000 9.53 9.53 0.00 3.67
700 758 1.299620 ACACACCACTCGTACGCAC 60.300 57.895 11.24 0.00 0.00 5.34
711 769 1.067425 TCGTACGCACAAGGCTGTAAT 60.067 47.619 11.24 0.00 41.67 1.89
712 770 2.164017 TCGTACGCACAAGGCTGTAATA 59.836 45.455 11.24 0.00 41.67 0.98
713 771 2.280708 CGTACGCACAAGGCTGTAATAC 59.719 50.000 0.52 0.00 41.67 1.89
714 772 2.762535 ACGCACAAGGCTGTAATACT 57.237 45.000 0.00 0.00 41.67 2.12
715 773 3.880047 ACGCACAAGGCTGTAATACTA 57.120 42.857 0.00 0.00 41.67 1.82
716 774 3.518590 ACGCACAAGGCTGTAATACTAC 58.481 45.455 0.00 0.00 41.67 2.73
774 832 3.493303 GGCCCCTCACCCTCATCC 61.493 72.222 0.00 0.00 0.00 3.51
799 867 1.084866 CCCTTTCCTTTCCTTCCCCT 58.915 55.000 0.00 0.00 0.00 4.79
801 869 1.006043 CCTTTCCTTTCCTTCCCCTCC 59.994 57.143 0.00 0.00 0.00 4.30
803 871 0.849540 TTCCTTTCCTTCCCCTCCCC 60.850 60.000 0.00 0.00 0.00 4.81
804 872 1.230314 CCTTTCCTTCCCCTCCCCT 60.230 63.158 0.00 0.00 0.00 4.79
805 873 0.045778 CCTTTCCTTCCCCTCCCCTA 59.954 60.000 0.00 0.00 0.00 3.53
806 874 1.214217 CTTTCCTTCCCCTCCCCTAC 58.786 60.000 0.00 0.00 0.00 3.18
807 875 0.619543 TTTCCTTCCCCTCCCCTACG 60.620 60.000 0.00 0.00 0.00 3.51
808 876 1.818669 TTCCTTCCCCTCCCCTACGT 61.819 60.000 0.00 0.00 0.00 3.57
810 878 1.623542 CCTTCCCCTCCCCTACGTTG 61.624 65.000 0.00 0.00 0.00 4.10
811 879 1.614226 TTCCCCTCCCCTACGTTGG 60.614 63.158 9.26 9.26 0.00 3.77
812 880 2.285144 CCCCTCCCCTACGTTGGT 60.285 66.667 14.99 0.00 0.00 3.67
814 882 1.600638 CCCTCCCCTACGTTGGTTC 59.399 63.158 14.99 0.00 0.00 3.62
816 884 1.600638 CTCCCCTACGTTGGTTCCC 59.399 63.158 14.99 0.00 0.00 3.97
819 887 0.402887 CCCCTACGTTGGTTCCCTTT 59.597 55.000 14.99 0.00 0.00 3.11
820 888 1.202964 CCCCTACGTTGGTTCCCTTTT 60.203 52.381 14.99 0.00 0.00 2.27
1139 1248 0.396695 TCCACCCTCTCCGTATGTCC 60.397 60.000 0.00 0.00 0.00 4.02
1140 1249 1.400530 CCACCCTCTCCGTATGTCCC 61.401 65.000 0.00 0.00 0.00 4.46
1147 1256 2.041301 CCGTATGTCCCCTCCCCA 60.041 66.667 0.00 0.00 0.00 4.96
1148 1257 1.461461 CCGTATGTCCCCTCCCCAT 60.461 63.158 0.00 0.00 0.00 4.00
1149 1258 1.481056 CCGTATGTCCCCTCCCCATC 61.481 65.000 0.00 0.00 0.00 3.51
1150 1259 0.762842 CGTATGTCCCCTCCCCATCA 60.763 60.000 0.00 0.00 0.00 3.07
1151 1260 0.765510 GTATGTCCCCTCCCCATCAC 59.234 60.000 0.00 0.00 0.00 3.06
1152 1261 0.401395 TATGTCCCCTCCCCATCACC 60.401 60.000 0.00 0.00 0.00 4.02
1153 1262 2.042930 GTCCCCTCCCCATCACCT 59.957 66.667 0.00 0.00 0.00 4.00
1154 1263 2.073101 GTCCCCTCCCCATCACCTC 61.073 68.421 0.00 0.00 0.00 3.85
1155 1264 2.774351 CCCCTCCCCATCACCTCC 60.774 72.222 0.00 0.00 0.00 4.30
1156 1265 2.774351 CCCTCCCCATCACCTCCC 60.774 72.222 0.00 0.00 0.00 4.30
1157 1266 2.374342 CCTCCCCATCACCTCCCT 59.626 66.667 0.00 0.00 0.00 4.20
1158 1267 1.768077 CCTCCCCATCACCTCCCTC 60.768 68.421 0.00 0.00 0.00 4.30
1159 1268 1.316266 CTCCCCATCACCTCCCTCT 59.684 63.158 0.00 0.00 0.00 3.69
1160 1269 0.762461 CTCCCCATCACCTCCCTCTC 60.762 65.000 0.00 0.00 0.00 3.20
1161 1270 2.136878 CCCCATCACCTCCCTCTCG 61.137 68.421 0.00 0.00 0.00 4.04
1162 1271 2.801631 CCCATCACCTCCCTCTCGC 61.802 68.421 0.00 0.00 0.00 5.03
1163 1272 2.415010 CATCACCTCCCTCTCGCG 59.585 66.667 0.00 0.00 0.00 5.87
1164 1273 3.532155 ATCACCTCCCTCTCGCGC 61.532 66.667 0.00 0.00 0.00 6.86
1184 1293 3.638484 GCTCTCGCTCTCTTTTATCTCC 58.362 50.000 0.00 0.00 0.00 3.71
1186 1295 3.888930 CTCTCGCTCTCTTTTATCTCCCT 59.111 47.826 0.00 0.00 0.00 4.20
1187 1296 5.050126 TCTCGCTCTCTTTTATCTCCCTA 57.950 43.478 0.00 0.00 0.00 3.53
1193 1302 5.777732 GCTCTCTTTTATCTCCCTATCTCCA 59.222 44.000 0.00 0.00 0.00 3.86
1195 1304 6.683537 TCTCTTTTATCTCCCTATCTCCACA 58.316 40.000 0.00 0.00 0.00 4.17
1196 1305 7.132805 TCTCTTTTATCTCCCTATCTCCACAA 58.867 38.462 0.00 0.00 0.00 3.33
1199 1315 6.485830 TTTATCTCCCTATCTCCACAACTG 57.514 41.667 0.00 0.00 0.00 3.16
1203 1319 3.515502 CTCCCTATCTCCACAACTGTTCA 59.484 47.826 0.00 0.00 0.00 3.18
1217 1333 4.569719 ACTGTTCATTTAGTTCCGGGAT 57.430 40.909 0.00 0.00 0.00 3.85
1246 1362 5.514274 AGAGAAGAAGAAGATCGATGGAC 57.486 43.478 0.54 0.00 0.00 4.02
1299 1415 0.386838 ATGCGATGTCAGATCTGCGA 59.613 50.000 18.36 6.90 0.00 5.10
1335 1451 1.382522 GATCTGGCGCTTGAATTCCA 58.617 50.000 7.64 0.00 0.00 3.53
1338 1454 0.526954 CTGGCGCTTGAATTCCATGC 60.527 55.000 7.64 3.86 41.11 4.06
1403 1527 2.887783 TCGCATTTTCTGGCTTGGTAAA 59.112 40.909 0.00 0.00 0.00 2.01
1436 1560 5.886960 AGACAAATAACAATCTGTCTGGC 57.113 39.130 2.91 0.00 45.18 4.85
1689 1834 0.246086 GACTCCTGAGCTGGTCTGTG 59.754 60.000 8.47 5.64 0.00 3.66
1692 1840 2.433838 CTGAGCTGGTCTGTGCCG 60.434 66.667 8.47 0.00 0.00 5.69
1696 1844 0.108138 GAGCTGGTCTGTGCCGTATT 60.108 55.000 0.00 0.00 0.00 1.89
1717 1865 4.077300 TGGCTGCCTCTTTCTATATGTG 57.923 45.455 21.03 0.00 0.00 3.21
1718 1866 3.455910 TGGCTGCCTCTTTCTATATGTGT 59.544 43.478 21.03 0.00 0.00 3.72
1885 2033 7.215719 TGAGAAGGTAATATCACCGAGTATG 57.784 40.000 0.00 0.00 43.84 2.39
1886 2034 6.776116 TGAGAAGGTAATATCACCGAGTATGT 59.224 38.462 0.00 0.00 43.84 2.29
1891 2039 8.824756 AGGTAATATCACCGAGTATGTCATAT 57.175 34.615 0.00 0.00 43.84 1.78
1892 2040 9.256228 AGGTAATATCACCGAGTATGTCATATT 57.744 33.333 0.00 0.00 43.84 1.28
1893 2041 9.871238 GGTAATATCACCGAGTATGTCATATTT 57.129 33.333 0.00 0.00 0.00 1.40
1935 2088 3.686320 GCGTCAGCATAGCTCGCG 61.686 66.667 0.00 0.00 40.72 5.87
1953 2106 5.611412 GCTCGCGAAGATGTATCAGAATTTC 60.611 44.000 11.33 0.00 0.00 2.17
1954 2107 5.592054 TCGCGAAGATGTATCAGAATTTCT 58.408 37.500 6.20 0.00 0.00 2.52
1955 2108 5.687730 TCGCGAAGATGTATCAGAATTTCTC 59.312 40.000 6.20 0.00 0.00 2.87
1963 2116 9.863650 AGATGTATCAGAATTTCTCCATTTCAT 57.136 29.630 0.00 1.92 0.00 2.57
2021 2174 4.150451 GGATTGACCGTTTTGCAATTGAAG 59.850 41.667 10.34 0.00 32.80 3.02
2022 2175 3.090952 TGACCGTTTTGCAATTGAAGG 57.909 42.857 10.34 4.26 0.00 3.46
2023 2176 2.690497 TGACCGTTTTGCAATTGAAGGA 59.310 40.909 10.34 0.00 0.00 3.36
2024 2177 3.049912 GACCGTTTTGCAATTGAAGGAC 58.950 45.455 10.34 0.33 0.00 3.85
2025 2178 2.428890 ACCGTTTTGCAATTGAAGGACA 59.571 40.909 10.34 0.00 0.00 4.02
2026 2179 3.118956 ACCGTTTTGCAATTGAAGGACAA 60.119 39.130 10.34 0.15 42.95 3.18
2027 2180 3.868077 CCGTTTTGCAATTGAAGGACAAA 59.132 39.130 10.34 6.84 42.03 2.83
2028 2181 4.260172 CCGTTTTGCAATTGAAGGACAAAC 60.260 41.667 10.34 5.55 42.03 2.93
2029 2182 4.328440 CGTTTTGCAATTGAAGGACAAACA 59.672 37.500 10.34 0.00 42.03 2.83
2030 2183 5.163913 CGTTTTGCAATTGAAGGACAAACAA 60.164 36.000 10.34 0.00 42.03 2.83
2031 2184 6.456718 CGTTTTGCAATTGAAGGACAAACAAT 60.457 34.615 10.34 0.00 42.03 2.71
2032 2185 6.998968 TTTGCAATTGAAGGACAAACAATT 57.001 29.167 10.34 0.00 42.42 2.32
2041 2194 8.741101 TTGAAGGACAAACAATTGATATTTCG 57.259 30.769 13.59 1.17 38.94 3.46
2042 2195 7.312154 TGAAGGACAAACAATTGATATTTCGG 58.688 34.615 13.59 0.00 38.94 4.30
2043 2196 7.175816 TGAAGGACAAACAATTGATATTTCGGA 59.824 33.333 13.59 0.00 38.94 4.55
2044 2197 7.461182 AGGACAAACAATTGATATTTCGGAA 57.539 32.000 13.59 0.00 38.94 4.30
2045 2198 8.066612 AGGACAAACAATTGATATTTCGGAAT 57.933 30.769 13.59 0.00 38.94 3.01
2046 2199 7.975616 AGGACAAACAATTGATATTTCGGAATG 59.024 33.333 13.59 0.00 38.94 2.67
2047 2200 7.759433 GGACAAACAATTGATATTTCGGAATGT 59.241 33.333 13.59 0.00 38.94 2.71
2048 2201 8.464770 ACAAACAATTGATATTTCGGAATGTG 57.535 30.769 13.59 0.00 38.94 3.21
2049 2202 8.303156 ACAAACAATTGATATTTCGGAATGTGA 58.697 29.630 13.59 0.00 38.94 3.58
2050 2203 9.138062 CAAACAATTGATATTTCGGAATGTGAA 57.862 29.630 13.59 0.00 38.94 3.18
2051 2204 9.703892 AAACAATTGATATTTCGGAATGTGAAA 57.296 25.926 13.59 0.00 39.45 2.69
2052 2205 9.703892 AACAATTGATATTTCGGAATGTGAAAA 57.296 25.926 13.59 0.00 38.68 2.29
2053 2206 9.139174 ACAATTGATATTTCGGAATGTGAAAAC 57.861 29.630 13.59 0.00 38.68 2.43
2054 2207 9.357652 CAATTGATATTTCGGAATGTGAAAACT 57.642 29.630 0.00 0.00 38.68 2.66
2055 2208 8.915871 ATTGATATTTCGGAATGTGAAAACTG 57.084 30.769 0.00 0.00 38.68 3.16
2056 2209 7.447374 TGATATTTCGGAATGTGAAAACTGT 57.553 32.000 0.00 0.00 38.68 3.55
2057 2210 7.881142 TGATATTTCGGAATGTGAAAACTGTT 58.119 30.769 0.00 0.00 38.68 3.16
2058 2211 7.807433 TGATATTTCGGAATGTGAAAACTGTTG 59.193 33.333 0.00 0.00 38.68 3.33
2059 2212 5.568685 TTTCGGAATGTGAAAACTGTTGA 57.431 34.783 0.00 0.00 32.70 3.18
2060 2213 4.545823 TCGGAATGTGAAAACTGTTGAC 57.454 40.909 0.00 0.00 0.00 3.18
2061 2214 4.196193 TCGGAATGTGAAAACTGTTGACT 58.804 39.130 0.00 0.00 0.00 3.41
2062 2215 4.035091 TCGGAATGTGAAAACTGTTGACTG 59.965 41.667 0.00 0.00 0.00 3.51
2063 2216 4.035091 CGGAATGTGAAAACTGTTGACTGA 59.965 41.667 0.00 0.00 0.00 3.41
2064 2217 5.277974 CGGAATGTGAAAACTGTTGACTGAT 60.278 40.000 0.00 0.00 0.00 2.90
2065 2218 6.145535 GGAATGTGAAAACTGTTGACTGATC 58.854 40.000 0.00 0.00 0.00 2.92
2066 2219 4.794248 TGTGAAAACTGTTGACTGATCG 57.206 40.909 0.00 0.00 0.00 3.69
2067 2220 4.188462 TGTGAAAACTGTTGACTGATCGT 58.812 39.130 0.00 0.00 0.00 3.73
2068 2221 4.634004 TGTGAAAACTGTTGACTGATCGTT 59.366 37.500 0.00 0.00 0.00 3.85
2069 2222 5.123186 TGTGAAAACTGTTGACTGATCGTTT 59.877 36.000 0.00 0.00 0.00 3.60
2070 2223 6.027749 GTGAAAACTGTTGACTGATCGTTTT 58.972 36.000 0.00 0.00 37.30 2.43
2071 2224 6.021468 GTGAAAACTGTTGACTGATCGTTTTG 60.021 38.462 8.07 0.00 35.47 2.44
2072 2225 3.609103 ACTGTTGACTGATCGTTTTGC 57.391 42.857 0.00 0.00 0.00 3.68
2073 2226 2.032894 ACTGTTGACTGATCGTTTTGCG 60.033 45.455 0.00 0.00 43.01 4.85
2087 2240 6.256912 TCGTTTTGCGATTTAAGGGTTTAT 57.743 33.333 0.00 0.00 45.68 1.40
2093 2246 8.760103 TTTGCGATTTAAGGGTTTATTTTACC 57.240 30.769 0.00 0.00 34.82 2.85
2096 2249 7.177041 TGCGATTTAAGGGTTTATTTTACCTGT 59.823 33.333 0.00 0.00 35.92 4.00
2124 2277 3.187700 GGACATAGTTGTGTAGCCTTCG 58.812 50.000 0.00 0.00 35.79 3.79
2134 2287 3.760151 TGTGTAGCCTTCGCTTTACTCTA 59.240 43.478 0.00 0.00 45.55 2.43
2135 2288 4.219070 TGTGTAGCCTTCGCTTTACTCTAA 59.781 41.667 0.00 0.00 45.55 2.10
2136 2289 5.166398 GTGTAGCCTTCGCTTTACTCTAAA 58.834 41.667 0.00 0.00 45.55 1.85
2204 2546 7.633018 TTCAGTTATATCCTAAAGCCTCCAT 57.367 36.000 0.00 0.00 0.00 3.41
2237 2579 7.281774 CAGATGACTCATGCCTAGTTGTTAAAT 59.718 37.037 0.00 0.00 0.00 1.40
2255 2597 6.265196 TGTTAAATCAAATCTTGCAGGTGACT 59.735 34.615 0.00 0.00 46.44 3.41
2628 2970 1.489230 GGACCATATTTCGTGTCCCCT 59.511 52.381 0.00 0.00 41.14 4.79
2668 3011 2.287547 CGTTGTTGAACCATGGAGTTGG 60.288 50.000 21.47 0.00 42.82 3.77
2712 3055 2.146342 GTGCATCAAGTACTGTGTGCT 58.854 47.619 20.45 0.00 38.06 4.40
2746 3089 6.903883 TCGTTGATATAAGGAGTTCTTTGC 57.096 37.500 0.00 0.00 36.93 3.68
2762 3105 2.666190 GCGTGCCTCAGTGCTTCA 60.666 61.111 0.00 0.00 0.00 3.02
2774 3117 4.582869 TCAGTGCTTCAATACTTCAGCAT 58.417 39.130 0.00 0.00 43.91 3.79
2847 3192 8.870116 TCTACCATATTAATAAGCTGAGCTCAA 58.130 33.333 18.85 2.60 38.25 3.02
2889 3234 7.336396 AGAACAAACACTTTGGACTAACTACT 58.664 34.615 0.12 0.00 44.81 2.57
2890 3235 7.494952 AGAACAAACACTTTGGACTAACTACTC 59.505 37.037 0.12 0.00 44.81 2.59
2891 3236 6.053650 ACAAACACTTTGGACTAACTACTCC 58.946 40.000 0.12 0.00 44.81 3.85
2892 3237 4.886496 ACACTTTGGACTAACTACTCCC 57.114 45.455 0.00 0.00 0.00 4.30
2893 3238 4.490706 ACACTTTGGACTAACTACTCCCT 58.509 43.478 0.00 0.00 0.00 4.20
2894 3239 4.527427 ACACTTTGGACTAACTACTCCCTC 59.473 45.833 0.00 0.00 0.00 4.30
2895 3240 4.773149 CACTTTGGACTAACTACTCCCTCT 59.227 45.833 0.00 0.00 0.00 3.69
2896 3241 4.773149 ACTTTGGACTAACTACTCCCTCTG 59.227 45.833 0.00 0.00 0.00 3.35
2897 3242 2.736347 TGGACTAACTACTCCCTCTGC 58.264 52.381 0.00 0.00 0.00 4.26
2898 3243 2.312140 TGGACTAACTACTCCCTCTGCT 59.688 50.000 0.00 0.00 0.00 4.24
2899 3244 2.953648 GGACTAACTACTCCCTCTGCTC 59.046 54.545 0.00 0.00 0.00 4.26
2903 3248 3.759815 AACTACTCCCTCTGCTCCTAA 57.240 47.619 0.00 0.00 0.00 2.69
2904 3249 3.759815 ACTACTCCCTCTGCTCCTAAA 57.240 47.619 0.00 0.00 0.00 1.85
2906 3251 5.405063 ACTACTCCCTCTGCTCCTAAATA 57.595 43.478 0.00 0.00 0.00 1.40
2907 3252 5.971493 ACTACTCCCTCTGCTCCTAAATAT 58.029 41.667 0.00 0.00 0.00 1.28
2910 3255 6.926630 ACTCCCTCTGCTCCTAAATATAAG 57.073 41.667 0.00 0.00 0.00 1.73
2911 3256 6.625267 ACTCCCTCTGCTCCTAAATATAAGA 58.375 40.000 0.00 0.00 0.00 2.10
2913 3258 5.780793 TCCCTCTGCTCCTAAATATAAGACC 59.219 44.000 0.00 0.00 0.00 3.85
2914 3259 5.782845 CCCTCTGCTCCTAAATATAAGACCT 59.217 44.000 0.00 0.00 0.00 3.85
2915 3260 6.271159 CCCTCTGCTCCTAAATATAAGACCTT 59.729 42.308 0.00 0.00 0.00 3.50
2916 3261 7.202139 CCCTCTGCTCCTAAATATAAGACCTTT 60.202 40.741 0.00 0.00 0.00 3.11
2917 3262 8.214364 CCTCTGCTCCTAAATATAAGACCTTTT 58.786 37.037 0.00 0.00 0.00 2.27
2938 3283 9.346725 CCTTTTAGAGTTTTCAATATGAACTGC 57.653 33.333 0.00 0.00 35.89 4.40
2939 3284 9.897744 CTTTTAGAGTTTTCAATATGAACTGCA 57.102 29.630 0.00 0.00 35.89 4.41
2944 3289 9.399797 AGAGTTTTCAATATGAACTGCATATGA 57.600 29.630 6.97 0.00 46.84 2.15
2946 3291 9.793252 AGTTTTCAATATGAACTGCATATGAAC 57.207 29.630 6.97 0.00 46.84 3.18
2947 3292 9.571810 GTTTTCAATATGAACTGCATATGAACA 57.428 29.630 6.97 0.00 46.84 3.18
2954 3299 9.961265 ATATGAACTGCATATGAACAAAATGAG 57.039 29.630 6.97 0.00 46.01 2.90
2955 3300 7.451501 TGAACTGCATATGAACAAAATGAGA 57.548 32.000 6.97 0.00 0.00 3.27
2956 3301 8.058667 TGAACTGCATATGAACAAAATGAGAT 57.941 30.769 6.97 0.00 0.00 2.75
2957 3302 9.176460 TGAACTGCATATGAACAAAATGAGATA 57.824 29.630 6.97 0.00 0.00 1.98
2958 3303 9.443283 GAACTGCATATGAACAAAATGAGATAC 57.557 33.333 6.97 0.00 0.00 2.24
2959 3304 8.510243 ACTGCATATGAACAAAATGAGATACA 57.490 30.769 6.97 0.00 0.00 2.29
2960 3305 9.128404 ACTGCATATGAACAAAATGAGATACAT 57.872 29.630 6.97 0.00 41.45 2.29
2961 3306 9.608617 CTGCATATGAACAAAATGAGATACATC 57.391 33.333 6.97 0.00 38.38 3.06
2962 3307 8.570488 TGCATATGAACAAAATGAGATACATCC 58.430 33.333 6.97 0.00 38.38 3.51
2963 3308 7.747799 GCATATGAACAAAATGAGATACATCCG 59.252 37.037 6.97 0.00 38.38 4.18
2964 3309 8.777413 CATATGAACAAAATGAGATACATCCGT 58.223 33.333 0.00 0.00 38.38 4.69
2965 3310 9.996554 ATATGAACAAAATGAGATACATCCGTA 57.003 29.630 0.00 0.00 38.38 4.02
2966 3311 8.908786 ATGAACAAAATGAGATACATCCGTAT 57.091 30.769 0.00 0.00 41.16 3.06
2967 3312 8.141835 TGAACAAAATGAGATACATCCGTATG 57.858 34.615 0.00 0.00 38.48 2.39
2980 3325 6.954487 ACATCCGTATGTAGTCTGTATTGA 57.046 37.500 0.00 0.00 44.66 2.57
2981 3326 7.342769 ACATCCGTATGTAGTCTGTATTGAA 57.657 36.000 0.00 0.00 44.66 2.69
2982 3327 7.778083 ACATCCGTATGTAGTCTGTATTGAAA 58.222 34.615 0.00 0.00 44.66 2.69
2983 3328 8.421784 ACATCCGTATGTAGTCTGTATTGAAAT 58.578 33.333 0.00 0.00 44.66 2.17
2984 3329 9.908152 CATCCGTATGTAGTCTGTATTGAAATA 57.092 33.333 0.00 0.00 0.00 1.40
2995 3340 9.343539 AGTCTGTATTGAAATATCTAAAAGGGC 57.656 33.333 0.00 0.00 0.00 5.19
2996 3341 9.343539 GTCTGTATTGAAATATCTAAAAGGGCT 57.656 33.333 0.00 0.00 0.00 5.19
2997 3342 9.920946 TCTGTATTGAAATATCTAAAAGGGCTT 57.079 29.630 0.00 0.00 0.00 4.35
3020 3365 9.708092 GCTTATATTTAGAAACGAAGGGAGTAT 57.292 33.333 0.00 0.00 0.00 2.12
3111 3456 3.490439 TGTGCACGATCCATTCCATAT 57.510 42.857 13.13 0.00 0.00 1.78
3169 3514 7.172361 GCTCAACATCTCTCAAAAGTAAAGTCT 59.828 37.037 0.00 0.00 0.00 3.24
3196 3541 5.607477 CAGTTCAACCACTACACCTAAGAA 58.393 41.667 0.00 0.00 0.00 2.52
3197 3542 6.053005 CAGTTCAACCACTACACCTAAGAAA 58.947 40.000 0.00 0.00 0.00 2.52
3198 3543 6.018180 CAGTTCAACCACTACACCTAAGAAAC 60.018 42.308 0.00 0.00 0.00 2.78
3199 3544 4.964593 TCAACCACTACACCTAAGAAACC 58.035 43.478 0.00 0.00 0.00 3.27
3307 3657 4.856801 CCCCCGGACCGCATCAAG 62.857 72.222 8.86 0.00 0.00 3.02
3318 3668 1.140852 CCGCATCAAGGGAATCCAGTA 59.859 52.381 0.09 0.00 34.83 2.74
3325 3675 1.668826 AGGGAATCCAGTAAGCCACA 58.331 50.000 0.09 0.00 34.83 4.17
3336 3686 0.966179 TAAGCCACAAGTCAGCTCGA 59.034 50.000 0.00 0.00 35.30 4.04
3355 3705 5.477607 TCGAGGTAGTTCTCCAATTTTCA 57.522 39.130 0.00 0.00 0.00 2.69
3481 3846 9.477484 CATATGGTACTATGACTTTAGACCAAC 57.523 37.037 1.31 0.00 35.24 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 42 3.777925 CCACTCGGCTTGTTCGCG 61.778 66.667 0.00 0.00 0.00 5.87
179 193 6.418057 AGGGAGCATGTGTTATTTTGAAAA 57.582 33.333 0.00 0.00 0.00 2.29
180 194 5.047377 GGAGGGAGCATGTGTTATTTTGAAA 60.047 40.000 0.00 0.00 0.00 2.69
181 195 4.462483 GGAGGGAGCATGTGTTATTTTGAA 59.538 41.667 0.00 0.00 0.00 2.69
191 205 1.064906 AGTGAATGGAGGGAGCATGTG 60.065 52.381 0.00 0.00 0.00 3.21
194 208 1.414181 CGTAGTGAATGGAGGGAGCAT 59.586 52.381 0.00 0.00 0.00 3.79
196 210 1.112113 TCGTAGTGAATGGAGGGAGC 58.888 55.000 0.00 0.00 0.00 4.70
198 212 2.225382 TGTCGTAGTGAATGGAGGGA 57.775 50.000 0.00 0.00 0.00 4.20
292 306 8.372459 AGATATTTTAATACGGAGCACATACCA 58.628 33.333 0.00 0.00 0.00 3.25
293 307 8.773404 AGATATTTTAATACGGAGCACATACC 57.227 34.615 0.00 0.00 0.00 2.73
325 339 5.815740 GCTCCTTCCGTTCATTGTTATAAGA 59.184 40.000 0.00 0.00 0.00 2.10
351 365 6.665992 AAAGAGGGTTATCATACTCGCATA 57.334 37.500 0.00 0.00 35.22 3.14
378 392 6.907961 ACACTAAGAAAGGGGTTATTATCCC 58.092 40.000 0.00 0.00 43.90 3.85
379 393 9.557061 CTTACACTAAGAAAGGGGTTATTATCC 57.443 37.037 0.00 0.00 38.02 2.59
383 397 7.556635 GCATCTTACACTAAGAAAGGGGTTATT 59.443 37.037 0.00 0.00 46.81 1.40
384 398 7.054751 GCATCTTACACTAAGAAAGGGGTTAT 58.945 38.462 0.00 0.00 46.81 1.89
385 399 6.412214 GCATCTTACACTAAGAAAGGGGTTA 58.588 40.000 0.00 0.00 46.81 2.85
386 400 5.254115 GCATCTTACACTAAGAAAGGGGTT 58.746 41.667 0.00 0.00 46.81 4.11
387 401 4.623171 CGCATCTTACACTAAGAAAGGGGT 60.623 45.833 0.00 0.00 46.81 4.95
388 402 3.871594 CGCATCTTACACTAAGAAAGGGG 59.128 47.826 0.00 0.00 46.81 4.79
389 403 4.755411 TCGCATCTTACACTAAGAAAGGG 58.245 43.478 0.00 2.11 46.81 3.95
390 404 5.411781 ACTCGCATCTTACACTAAGAAAGG 58.588 41.667 0.00 0.00 46.81 3.11
425 439 5.762218 TGGGCAATTTGTTTTCATTGGTTAG 59.238 36.000 0.00 0.00 0.00 2.34
434 448 4.335400 TTCTCCTGGGCAATTTGTTTTC 57.665 40.909 0.00 0.00 0.00 2.29
581 634 0.323629 TGTTTGGTAGGAAGCGGGAG 59.676 55.000 0.00 0.00 0.00 4.30
582 635 0.035739 GTGTTTGGTAGGAAGCGGGA 59.964 55.000 0.00 0.00 0.00 5.14
583 636 1.296056 CGTGTTTGGTAGGAAGCGGG 61.296 60.000 0.00 0.00 0.00 6.13
588 641 0.035739 GGGAGCGTGTTTGGTAGGAA 59.964 55.000 0.00 0.00 0.00 3.36
590 643 1.740296 CGGGAGCGTGTTTGGTAGG 60.740 63.158 0.00 0.00 0.00 3.18
602 655 2.914777 GACCAGATGTCAGCGGGAGC 62.915 65.000 14.49 2.05 46.60 4.70
686 744 1.006571 CCTTGTGCGTACGAGTGGT 60.007 57.895 21.65 0.00 36.71 4.16
687 745 2.380410 GCCTTGTGCGTACGAGTGG 61.380 63.158 21.65 13.35 36.71 4.00
697 755 7.787725 AATTAGTAGTATTACAGCCTTGTGC 57.212 36.000 0.00 0.00 38.23 4.57
774 832 3.625853 GAAGGAAAGGAAAGGGAGATGG 58.374 50.000 0.00 0.00 0.00 3.51
811 879 0.601558 GGCGGAAAGGAAAAGGGAAC 59.398 55.000 0.00 0.00 0.00 3.62
812 880 0.891904 CGGCGGAAAGGAAAAGGGAA 60.892 55.000 0.00 0.00 0.00 3.97
814 882 2.989881 GCGGCGGAAAGGAAAAGGG 61.990 63.158 9.78 0.00 0.00 3.95
816 884 2.175811 CGCGGCGGAAAGGAAAAG 59.824 61.111 15.84 0.00 0.00 2.27
861 945 3.141488 CGGTCTCTCGAGGTGGGG 61.141 72.222 13.56 0.00 0.00 4.96
913 997 1.665679 CCAATGGCCGCGCTTATATAG 59.334 52.381 5.56 0.00 0.00 1.31
948 1032 2.027073 GCGCCTGATGTGACGAACA 61.027 57.895 0.00 0.00 44.79 3.18
949 1033 2.778679 GCGCCTGATGTGACGAAC 59.221 61.111 0.00 0.00 0.00 3.95
1139 1248 2.774351 GGGAGGTGATGGGGAGGG 60.774 72.222 0.00 0.00 0.00 4.30
1140 1249 1.768077 GAGGGAGGTGATGGGGAGG 60.768 68.421 0.00 0.00 0.00 4.30
1164 1273 3.888930 AGGGAGATAAAAGAGAGCGAGAG 59.111 47.826 0.00 0.00 0.00 3.20
1177 1286 5.529289 ACAGTTGTGGAGATAGGGAGATAA 58.471 41.667 0.00 0.00 0.00 1.75
1179 1288 4.000928 ACAGTTGTGGAGATAGGGAGAT 57.999 45.455 0.00 0.00 0.00 2.75
1184 1293 7.106239 ACTAAATGAACAGTTGTGGAGATAGG 58.894 38.462 0.00 0.00 0.00 2.57
1186 1295 7.606456 GGAACTAAATGAACAGTTGTGGAGATA 59.394 37.037 0.00 0.00 35.17 1.98
1187 1296 6.431234 GGAACTAAATGAACAGTTGTGGAGAT 59.569 38.462 0.00 0.00 35.17 2.75
1193 1302 3.818773 CCCGGAACTAAATGAACAGTTGT 59.181 43.478 0.73 0.00 35.17 3.32
1195 1304 4.360951 TCCCGGAACTAAATGAACAGTT 57.639 40.909 0.73 0.00 37.69 3.16
1196 1305 4.569719 ATCCCGGAACTAAATGAACAGT 57.430 40.909 0.73 0.00 0.00 3.55
1199 1315 5.220529 CGTTGTATCCCGGAACTAAATGAAC 60.221 44.000 0.73 0.00 0.00 3.18
1203 1319 4.403432 TCTCGTTGTATCCCGGAACTAAAT 59.597 41.667 0.73 0.00 0.00 1.40
1217 1333 5.642491 TCGATCTTCTTCTTCTCTCGTTGTA 59.358 40.000 0.00 0.00 0.00 2.41
1246 1362 1.089481 CCATGGACCGTTGACATCCG 61.089 60.000 5.56 0.00 35.06 4.18
1335 1451 0.541392 TAGGCACACGATTCTGGCAT 59.459 50.000 0.00 0.00 35.43 4.40
1338 1454 0.824109 TCCTAGGCACACGATTCTGG 59.176 55.000 2.96 0.00 0.00 3.86
1366 1482 4.789012 ATGCGAATTGGACAAAGTCAAT 57.211 36.364 0.00 0.00 32.29 2.57
1367 1483 4.582701 AATGCGAATTGGACAAAGTCAA 57.417 36.364 0.00 0.00 32.29 3.18
1403 1527 8.695456 AGATTGTTATTTGTCTTGGTCTTGTTT 58.305 29.630 0.00 0.00 0.00 2.83
1417 1541 7.798596 AGATAGCCAGACAGATTGTTATTTG 57.201 36.000 0.00 0.00 0.00 2.32
1436 1560 4.619973 TGCCAAACAGCAAAACAAGATAG 58.380 39.130 0.00 0.00 40.56 2.08
1692 1840 6.148480 CACATATAGAAAGAGGCAGCCAATAC 59.852 42.308 15.80 1.87 0.00 1.89
1696 1844 3.455910 ACACATATAGAAAGAGGCAGCCA 59.544 43.478 15.80 0.00 0.00 4.75
1717 1865 1.265365 GGCAGCAAAGAGACAAGACAC 59.735 52.381 0.00 0.00 0.00 3.67
1718 1866 1.597742 GGCAGCAAAGAGACAAGACA 58.402 50.000 0.00 0.00 0.00 3.41
1885 2033 9.193602 CACGAAACAAAACAAAACAAATATGAC 57.806 29.630 0.00 0.00 0.00 3.06
1886 2034 9.140286 TCACGAAACAAAACAAAACAAATATGA 57.860 25.926 0.00 0.00 0.00 2.15
1891 2039 5.753921 AGGTCACGAAACAAAACAAAACAAA 59.246 32.000 0.00 0.00 0.00 2.83
1892 2040 5.290386 AGGTCACGAAACAAAACAAAACAA 58.710 33.333 0.00 0.00 0.00 2.83
1893 2041 4.872664 AGGTCACGAAACAAAACAAAACA 58.127 34.783 0.00 0.00 0.00 2.83
1894 2042 5.513849 CCTAGGTCACGAAACAAAACAAAAC 59.486 40.000 0.00 0.00 0.00 2.43
1895 2043 5.642686 CCTAGGTCACGAAACAAAACAAAA 58.357 37.500 0.00 0.00 0.00 2.44
1908 2056 2.202623 GCTGACGCCTAGGTCACG 60.203 66.667 11.31 8.22 41.76 4.35
1953 2106 8.542497 AACATCAATTGTTTCATGAAATGGAG 57.458 30.769 23.05 14.40 46.51 3.86
2018 2171 7.535139 TCCGAAATATCAATTGTTTGTCCTTC 58.465 34.615 5.13 0.92 34.32 3.46
2021 2174 7.759433 ACATTCCGAAATATCAATTGTTTGTCC 59.241 33.333 5.13 0.00 34.32 4.02
2022 2175 8.586273 CACATTCCGAAATATCAATTGTTTGTC 58.414 33.333 5.13 0.00 34.32 3.18
2023 2176 8.303156 TCACATTCCGAAATATCAATTGTTTGT 58.697 29.630 5.13 0.00 34.32 2.83
2024 2177 8.686397 TCACATTCCGAAATATCAATTGTTTG 57.314 30.769 5.13 0.00 0.00 2.93
2025 2178 9.703892 TTTCACATTCCGAAATATCAATTGTTT 57.296 25.926 5.13 0.00 0.00 2.83
2026 2179 9.703892 TTTTCACATTCCGAAATATCAATTGTT 57.296 25.926 5.13 0.00 32.66 2.83
2027 2180 9.139174 GTTTTCACATTCCGAAATATCAATTGT 57.861 29.630 5.13 0.00 32.66 2.71
2028 2181 9.357652 AGTTTTCACATTCCGAAATATCAATTG 57.642 29.630 0.00 0.00 32.66 2.32
2029 2182 9.357652 CAGTTTTCACATTCCGAAATATCAATT 57.642 29.630 0.00 0.00 32.66 2.32
2030 2183 8.522830 ACAGTTTTCACATTCCGAAATATCAAT 58.477 29.630 0.00 0.00 32.66 2.57
2031 2184 7.881142 ACAGTTTTCACATTCCGAAATATCAA 58.119 30.769 0.00 0.00 32.66 2.57
2032 2185 7.447374 ACAGTTTTCACATTCCGAAATATCA 57.553 32.000 0.00 0.00 32.66 2.15
2033 2186 8.020819 TCAACAGTTTTCACATTCCGAAATATC 58.979 33.333 0.00 0.00 32.66 1.63
2034 2187 7.807907 GTCAACAGTTTTCACATTCCGAAATAT 59.192 33.333 0.00 0.00 32.66 1.28
2035 2188 7.012894 AGTCAACAGTTTTCACATTCCGAAATA 59.987 33.333 0.00 0.00 32.66 1.40
2036 2189 5.977129 GTCAACAGTTTTCACATTCCGAAAT 59.023 36.000 0.00 0.00 32.66 2.17
2037 2190 5.124776 AGTCAACAGTTTTCACATTCCGAAA 59.875 36.000 0.00 0.00 0.00 3.46
2038 2191 4.638421 AGTCAACAGTTTTCACATTCCGAA 59.362 37.500 0.00 0.00 0.00 4.30
2039 2192 4.035091 CAGTCAACAGTTTTCACATTCCGA 59.965 41.667 0.00 0.00 0.00 4.55
2040 2193 4.035091 TCAGTCAACAGTTTTCACATTCCG 59.965 41.667 0.00 0.00 0.00 4.30
2041 2194 5.499139 TCAGTCAACAGTTTTCACATTCC 57.501 39.130 0.00 0.00 0.00 3.01
2042 2195 5.848036 CGATCAGTCAACAGTTTTCACATTC 59.152 40.000 0.00 0.00 0.00 2.67
2043 2196 5.296780 ACGATCAGTCAACAGTTTTCACATT 59.703 36.000 0.00 0.00 0.00 2.71
2044 2197 4.816385 ACGATCAGTCAACAGTTTTCACAT 59.184 37.500 0.00 0.00 0.00 3.21
2045 2198 4.188462 ACGATCAGTCAACAGTTTTCACA 58.812 39.130 0.00 0.00 0.00 3.58
2046 2199 4.795970 ACGATCAGTCAACAGTTTTCAC 57.204 40.909 0.00 0.00 0.00 3.18
2047 2200 5.811399 AAACGATCAGTCAACAGTTTTCA 57.189 34.783 0.00 0.00 0.00 2.69
2048 2201 5.052370 GCAAAACGATCAGTCAACAGTTTTC 60.052 40.000 0.00 0.00 39.01 2.29
2049 2202 4.798387 GCAAAACGATCAGTCAACAGTTTT 59.202 37.500 0.00 0.00 40.86 2.43
2050 2203 4.351192 GCAAAACGATCAGTCAACAGTTT 58.649 39.130 0.00 0.00 33.86 2.66
2051 2204 3.952535 GCAAAACGATCAGTCAACAGTT 58.047 40.909 0.00 0.00 0.00 3.16
2052 2205 3.609103 GCAAAACGATCAGTCAACAGT 57.391 42.857 0.00 0.00 0.00 3.55
2065 2218 6.937886 AATAAACCCTTAAATCGCAAAACG 57.062 33.333 0.00 0.00 45.62 3.60
2067 2220 9.205719 GGTAAAATAAACCCTTAAATCGCAAAA 57.794 29.630 0.00 0.00 0.00 2.44
2068 2221 8.586744 AGGTAAAATAAACCCTTAAATCGCAAA 58.413 29.630 0.00 0.00 37.77 3.68
2069 2222 8.030106 CAGGTAAAATAAACCCTTAAATCGCAA 58.970 33.333 0.00 0.00 37.77 4.85
2070 2223 7.177041 ACAGGTAAAATAAACCCTTAAATCGCA 59.823 33.333 0.00 0.00 37.77 5.10
2071 2224 7.541162 ACAGGTAAAATAAACCCTTAAATCGC 58.459 34.615 0.00 0.00 37.77 4.58
2072 2225 9.992910 GTACAGGTAAAATAAACCCTTAAATCG 57.007 33.333 0.00 0.00 37.77 3.34
2075 2228 9.880254 AAGGTACAGGTAAAATAAACCCTTAAA 57.120 29.630 0.00 0.00 37.77 1.52
2076 2229 9.880254 AAAGGTACAGGTAAAATAAACCCTTAA 57.120 29.630 0.00 0.00 37.77 1.85
2077 2230 9.299465 CAAAGGTACAGGTAAAATAAACCCTTA 57.701 33.333 0.00 0.00 37.77 2.69
2083 2236 8.943594 ATGTCCAAAGGTACAGGTAAAATAAA 57.056 30.769 0.00 0.00 0.00 1.40
2087 2240 7.081857 ACTATGTCCAAAGGTACAGGTAAAA 57.918 36.000 0.00 0.00 0.00 1.52
2093 2246 5.305585 ACACAACTATGTCCAAAGGTACAG 58.694 41.667 0.00 0.00 37.82 2.74
2096 2249 5.484715 GCTACACAACTATGTCCAAAGGTA 58.515 41.667 0.00 0.00 37.82 3.08
2124 2277 3.081804 TGGCTGCCTTTTAGAGTAAAGC 58.918 45.455 21.03 0.00 34.51 3.51
2134 2287 1.620323 GATGGAAGTTGGCTGCCTTTT 59.380 47.619 21.03 11.11 41.30 2.27
2135 2288 1.260544 GATGGAAGTTGGCTGCCTTT 58.739 50.000 21.03 11.48 41.30 3.11
2136 2289 0.112995 TGATGGAAGTTGGCTGCCTT 59.887 50.000 21.03 5.72 41.30 4.35
2204 2546 3.118149 AGGCATGAGTCATCTGCATGTTA 60.118 43.478 18.04 0.00 41.01 2.41
2237 2579 3.213206 ACAGTCACCTGCAAGATTTGA 57.787 42.857 0.00 0.00 42.81 2.69
2255 2597 3.964688 TGTGGTAGGACTTCTCTTCAACA 59.035 43.478 0.00 0.00 0.00 3.33
2483 2825 3.651904 AGCATAATCAGGAGGATTCAGCT 59.348 43.478 9.12 9.12 42.62 4.24
2628 2970 2.357952 ACGTGATCGAGCTAGCACATAA 59.642 45.455 18.83 0.00 35.51 1.90
2668 3011 6.863126 ACAACAATTTCTTCCGAAATGACATC 59.137 34.615 1.50 0.00 46.36 3.06
2746 3089 1.394917 GTATTGAAGCACTGAGGCACG 59.605 52.381 0.00 0.00 35.83 5.34
2774 3117 4.211125 TCAAACCAGACAGCAAAATGGTA 58.789 39.130 4.38 0.00 45.21 3.25
2889 3234 5.780793 GGTCTTATATTTAGGAGCAGAGGGA 59.219 44.000 0.70 0.00 33.47 4.20
2890 3235 5.782845 AGGTCTTATATTTAGGAGCAGAGGG 59.217 44.000 7.13 0.00 35.14 4.30
2891 3236 6.926630 AGGTCTTATATTTAGGAGCAGAGG 57.073 41.667 7.13 0.00 35.14 3.69
2913 3258 9.897744 TGCAGTTCATATTGAAAACTCTAAAAG 57.102 29.630 0.00 0.00 38.22 2.27
2918 3263 9.399797 TCATATGCAGTTCATATTGAAAACTCT 57.600 29.630 0.00 0.00 43.91 3.24
2920 3265 9.793252 GTTCATATGCAGTTCATATTGAAAACT 57.207 29.630 0.00 0.00 43.91 2.66
2921 3266 9.571810 TGTTCATATGCAGTTCATATTGAAAAC 57.428 29.630 0.00 0.00 43.91 2.43
2928 3273 9.961265 CTCATTTTGTTCATATGCAGTTCATAT 57.039 29.630 0.00 0.00 46.49 1.78
2929 3274 9.176460 TCTCATTTTGTTCATATGCAGTTCATA 57.824 29.630 0.00 0.00 41.52 2.15
2930 3275 8.058667 TCTCATTTTGTTCATATGCAGTTCAT 57.941 30.769 0.00 0.00 39.17 2.57
2931 3276 7.451501 TCTCATTTTGTTCATATGCAGTTCA 57.548 32.000 0.00 0.00 0.00 3.18
2932 3277 9.443283 GTATCTCATTTTGTTCATATGCAGTTC 57.557 33.333 0.00 0.00 0.00 3.01
2933 3278 8.959548 TGTATCTCATTTTGTTCATATGCAGTT 58.040 29.630 0.00 0.00 0.00 3.16
2934 3279 8.510243 TGTATCTCATTTTGTTCATATGCAGT 57.490 30.769 0.00 0.00 0.00 4.40
2935 3280 9.608617 GATGTATCTCATTTTGTTCATATGCAG 57.391 33.333 0.00 0.00 36.83 4.41
2936 3281 8.570488 GGATGTATCTCATTTTGTTCATATGCA 58.430 33.333 0.00 0.00 36.83 3.96
2937 3282 7.747799 CGGATGTATCTCATTTTGTTCATATGC 59.252 37.037 0.00 0.00 36.83 3.14
2938 3283 8.777413 ACGGATGTATCTCATTTTGTTCATATG 58.223 33.333 0.00 0.00 36.83 1.78
2939 3284 8.908786 ACGGATGTATCTCATTTTGTTCATAT 57.091 30.769 0.00 0.00 36.83 1.78
2940 3285 9.996554 ATACGGATGTATCTCATTTTGTTCATA 57.003 29.630 0.00 0.00 36.56 2.15
2941 3286 8.777413 CATACGGATGTATCTCATTTTGTTCAT 58.223 33.333 0.00 0.00 39.28 2.57
2942 3287 7.768582 ACATACGGATGTATCTCATTTTGTTCA 59.231 33.333 12.79 0.00 44.77 3.18
2943 3288 8.142994 ACATACGGATGTATCTCATTTTGTTC 57.857 34.615 12.79 0.00 44.77 3.18
2944 3289 9.261180 CTACATACGGATGTATCTCATTTTGTT 57.739 33.333 20.64 0.00 45.42 2.83
2945 3290 8.421784 ACTACATACGGATGTATCTCATTTTGT 58.578 33.333 20.64 9.03 45.42 2.83
2946 3291 8.818141 ACTACATACGGATGTATCTCATTTTG 57.182 34.615 20.64 8.41 45.42 2.44
2947 3292 8.861086 AGACTACATACGGATGTATCTCATTTT 58.139 33.333 20.64 1.13 45.42 1.82
2948 3293 8.300286 CAGACTACATACGGATGTATCTCATTT 58.700 37.037 20.64 1.45 45.42 2.32
2949 3294 7.448777 ACAGACTACATACGGATGTATCTCATT 59.551 37.037 20.64 9.26 45.42 2.57
2950 3295 6.943146 ACAGACTACATACGGATGTATCTCAT 59.057 38.462 20.64 12.12 45.42 2.90
2951 3296 6.296803 ACAGACTACATACGGATGTATCTCA 58.703 40.000 20.64 0.12 45.42 3.27
2952 3297 6.804770 ACAGACTACATACGGATGTATCTC 57.195 41.667 20.64 16.76 45.42 2.75
2953 3298 8.731605 CAATACAGACTACATACGGATGTATCT 58.268 37.037 20.64 19.66 45.42 1.98
2954 3299 8.727910 TCAATACAGACTACATACGGATGTATC 58.272 37.037 20.64 18.02 45.42 2.24
2955 3300 8.631480 TCAATACAGACTACATACGGATGTAT 57.369 34.615 20.64 11.04 45.42 2.29
2956 3301 8.454570 TTCAATACAGACTACATACGGATGTA 57.545 34.615 19.32 19.32 44.77 2.29
2958 3303 8.818141 ATTTCAATACAGACTACATACGGATG 57.182 34.615 5.94 5.94 39.16 3.51
2969 3314 9.343539 GCCCTTTTAGATATTTCAATACAGACT 57.656 33.333 0.00 0.00 0.00 3.24
2970 3315 9.343539 AGCCCTTTTAGATATTTCAATACAGAC 57.656 33.333 0.00 0.00 0.00 3.51
2971 3316 9.920946 AAGCCCTTTTAGATATTTCAATACAGA 57.079 29.630 0.00 0.00 0.00 3.41
2988 3333 8.683615 CCTTCGTTTCTAAATATAAGCCCTTTT 58.316 33.333 0.00 0.00 0.00 2.27
2989 3334 7.284716 CCCTTCGTTTCTAAATATAAGCCCTTT 59.715 37.037 0.00 0.00 0.00 3.11
2990 3335 6.771267 CCCTTCGTTTCTAAATATAAGCCCTT 59.229 38.462 0.00 0.00 0.00 3.95
2991 3336 6.100714 TCCCTTCGTTTCTAAATATAAGCCCT 59.899 38.462 0.00 0.00 0.00 5.19
2992 3337 6.293698 TCCCTTCGTTTCTAAATATAAGCCC 58.706 40.000 0.00 0.00 0.00 5.19
2993 3338 6.990939 ACTCCCTTCGTTTCTAAATATAAGCC 59.009 38.462 0.00 0.00 0.00 4.35
2994 3339 9.708092 ATACTCCCTTCGTTTCTAAATATAAGC 57.292 33.333 0.00 0.00 0.00 3.09
2999 3344 9.991906 CCAATATACTCCCTTCGTTTCTAAATA 57.008 33.333 0.00 0.00 0.00 1.40
3000 3345 8.711170 TCCAATATACTCCCTTCGTTTCTAAAT 58.289 33.333 0.00 0.00 0.00 1.40
3001 3346 8.081517 TCCAATATACTCCCTTCGTTTCTAAA 57.918 34.615 0.00 0.00 0.00 1.85
3002 3347 7.664552 TCCAATATACTCCCTTCGTTTCTAA 57.335 36.000 0.00 0.00 0.00 2.10
3003 3348 7.343833 AGTTCCAATATACTCCCTTCGTTTCTA 59.656 37.037 0.00 0.00 0.00 2.10
3004 3349 6.156429 AGTTCCAATATACTCCCTTCGTTTCT 59.844 38.462 0.00 0.00 0.00 2.52
3005 3350 6.258068 CAGTTCCAATATACTCCCTTCGTTTC 59.742 42.308 0.00 0.00 0.00 2.78
3006 3351 6.113411 CAGTTCCAATATACTCCCTTCGTTT 58.887 40.000 0.00 0.00 0.00 3.60
3007 3352 5.189145 ACAGTTCCAATATACTCCCTTCGTT 59.811 40.000 0.00 0.00 0.00 3.85
3008 3353 4.715297 ACAGTTCCAATATACTCCCTTCGT 59.285 41.667 0.00 0.00 0.00 3.85
3009 3354 5.050490 CACAGTTCCAATATACTCCCTTCG 58.950 45.833 0.00 0.00 0.00 3.79
3010 3355 5.990668 ACACAGTTCCAATATACTCCCTTC 58.009 41.667 0.00 0.00 0.00 3.46
3011 3356 7.691993 ATACACAGTTCCAATATACTCCCTT 57.308 36.000 0.00 0.00 0.00 3.95
3012 3357 8.974292 ATATACACAGTTCCAATATACTCCCT 57.026 34.615 0.00 0.00 0.00 4.20
3013 3358 9.436957 CAATATACACAGTTCCAATATACTCCC 57.563 37.037 0.00 0.00 0.00 4.30
3169 3514 2.484770 GGTGTAGTGGTTGAACTGCTGA 60.485 50.000 0.00 0.00 34.26 4.26
3196 3541 2.387757 ACTTTCAGGCACACATTGGTT 58.612 42.857 0.00 0.00 0.00 3.67
3197 3542 2.071778 ACTTTCAGGCACACATTGGT 57.928 45.000 0.00 0.00 0.00 3.67
3198 3543 3.383761 GAAACTTTCAGGCACACATTGG 58.616 45.455 0.00 0.00 0.00 3.16
3199 3544 3.383761 GGAAACTTTCAGGCACACATTG 58.616 45.455 3.93 0.00 0.00 2.82
3293 3643 2.608970 ATTCCCTTGATGCGGTCCGG 62.609 60.000 14.38 0.00 0.00 5.14
3294 3644 1.153168 ATTCCCTTGATGCGGTCCG 60.153 57.895 6.99 6.99 0.00 4.79
3307 3657 2.290960 ACTTGTGGCTTACTGGATTCCC 60.291 50.000 0.00 0.00 0.00 3.97
3318 3668 0.320247 CTCGAGCTGACTTGTGGCTT 60.320 55.000 0.00 0.00 36.37 4.35
3325 3675 2.750712 GAGAACTACCTCGAGCTGACTT 59.249 50.000 6.99 0.00 0.00 3.01
3336 3686 5.316987 CTGGTGAAAATTGGAGAACTACCT 58.683 41.667 0.00 0.00 0.00 3.08
3355 3705 1.004200 CGAAGGGGTTTACGCTGGT 60.004 57.895 0.00 0.00 42.22 4.00


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

AutoCloner maintained by Alex Coulton.