Multiple sequence alignment - TraesCS6A01G191700

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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 TraesCS6A01G191700 chr6A 100.000 5975 0 0 1 5975 259772772 259766798 0.000000e+00 11034.0
1 TraesCS6A01G191700 chr6A 92.308 975 67 7 1 974 234704946 234703979 0.000000e+00 1378.0
2 TraesCS6A01G191700 chr6A 97.496 559 14 0 5200 5758 259755050 259754492 0.000000e+00 955.0
3 TraesCS6A01G191700 chr6A 98.165 218 3 1 5758 5975 259762215 259761999 4.370000e-101 379.0
4 TraesCS6A01G191700 chr6D 97.549 4244 83 10 969 5197 187500730 187496493 0.000000e+00 7241.0
5 TraesCS6A01G191700 chr6B 96.758 1974 39 7 2418 4383 389241180 389239224 0.000000e+00 3267.0
6 TraesCS6A01G191700 chr6B 97.792 1223 23 4 968 2186 389243114 389241892 0.000000e+00 2106.0
7 TraesCS6A01G191700 chr6B 94.375 640 36 0 4383 5022 389236981 389236342 0.000000e+00 983.0
8 TraesCS6A01G191700 chr6B 95.935 246 5 2 2184 2426 389241539 389241296 1.560000e-105 394.0
9 TraesCS6A01G191700 chr6B 95.556 180 8 0 5018 5197 389235655 389235476 7.580000e-74 289.0
10 TraesCS6A01G191700 chr2A 93.634 974 60 2 1 973 333757361 333758333 0.000000e+00 1454.0
11 TraesCS6A01G191700 chr2A 92.593 54 4 0 2135 2188 707748350 707748297 1.790000e-10 78.7
12 TraesCS6A01G191700 chr3A 92.770 982 66 5 1 980 32191429 32192407 0.000000e+00 1415.0
13 TraesCS6A01G191700 chr3A 91.658 983 75 7 1 981 724489693 724488716 0.000000e+00 1354.0
14 TraesCS6A01G191700 chr3A 87.431 541 52 12 5197 5729 232512661 232513193 5.120000e-170 608.0
15 TraesCS6A01G191700 chr5D 92.916 974 65 4 1 973 8403950 8404920 0.000000e+00 1413.0
16 TraesCS6A01G191700 chr5D 92.127 978 74 3 1 976 503075902 503076878 0.000000e+00 1376.0
17 TraesCS6A01G191700 chr5D 91.922 978 73 5 1 977 69415474 69416446 0.000000e+00 1363.0
18 TraesCS6A01G191700 chr5D 87.770 556 56 11 5197 5745 46541785 46542335 1.820000e-179 640.0
19 TraesCS6A01G191700 chr5D 86.949 567 63 11 5197 5758 46557700 46558260 1.410000e-175 627.0
20 TraesCS6A01G191700 chr7A 92.323 977 73 2 1 976 108834329 108833354 0.000000e+00 1387.0
21 TraesCS6A01G191700 chr7A 94.931 217 9 2 5759 5975 97272601 97272815 7.420000e-89 339.0
22 TraesCS6A01G191700 chr1A 91.718 978 77 4 1 977 65811150 65810176 0.000000e+00 1354.0
23 TraesCS6A01G191700 chr5B 87.324 568 59 13 5197 5758 265055456 265056016 6.530000e-179 638.0
24 TraesCS6A01G191700 chr5B 86.170 564 67 11 5197 5755 265065700 265066257 3.080000e-167 599.0
25 TraesCS6A01G191700 chr4D 86.972 545 60 11 5217 5758 382923852 382924388 2.380000e-168 603.0
26 TraesCS6A01G191700 chr7B 85.366 574 62 13 5197 5758 324236980 324236417 5.190000e-160 575.0
27 TraesCS6A01G191700 chr7B 94.000 50 3 0 2135 2184 463050409 463050360 6.420000e-10 76.8
28 TraesCS6A01G191700 chr1D 84.615 546 75 9 5217 5758 258180157 258179617 8.810000e-148 534.0
29 TraesCS6A01G191700 chr7D 90.000 60 4 2 2137 2194 59413194 59413135 6.420000e-10 76.8
30 TraesCS6A01G191700 chr3D 91.228 57 4 1 2135 2191 96684562 96684507 6.420000e-10 76.8
31 TraesCS6A01G191700 chr2B 94.000 50 3 0 2135 2184 734295966 734296015 6.420000e-10 76.8
32 TraesCS6A01G191700 chr1B 94.000 50 3 0 2135 2184 562928489 562928440 6.420000e-10 76.8
33 TraesCS6A01G191700 chr1B 94.000 50 3 0 2135 2184 572442109 572442060 6.420000e-10 76.8


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 TraesCS6A01G191700 chr6A 259766798 259772772 5974 True 11034.0 11034 100.0000 1 5975 1 chr6A.!!$R4 5974
1 TraesCS6A01G191700 chr6A 234703979 234704946 967 True 1378.0 1378 92.3080 1 974 1 chr6A.!!$R1 973
2 TraesCS6A01G191700 chr6A 259754492 259755050 558 True 955.0 955 97.4960 5200 5758 1 chr6A.!!$R2 558
3 TraesCS6A01G191700 chr6D 187496493 187500730 4237 True 7241.0 7241 97.5490 969 5197 1 chr6D.!!$R1 4228
4 TraesCS6A01G191700 chr6B 389235476 389243114 7638 True 1407.8 3267 96.0832 968 5197 5 chr6B.!!$R1 4229
5 TraesCS6A01G191700 chr2A 333757361 333758333 972 False 1454.0 1454 93.6340 1 973 1 chr2A.!!$F1 972
6 TraesCS6A01G191700 chr3A 32191429 32192407 978 False 1415.0 1415 92.7700 1 980 1 chr3A.!!$F1 979
7 TraesCS6A01G191700 chr3A 724488716 724489693 977 True 1354.0 1354 91.6580 1 981 1 chr3A.!!$R1 980
8 TraesCS6A01G191700 chr3A 232512661 232513193 532 False 608.0 608 87.4310 5197 5729 1 chr3A.!!$F2 532
9 TraesCS6A01G191700 chr5D 8403950 8404920 970 False 1413.0 1413 92.9160 1 973 1 chr5D.!!$F1 972
10 TraesCS6A01G191700 chr5D 503075902 503076878 976 False 1376.0 1376 92.1270 1 976 1 chr5D.!!$F5 975
11 TraesCS6A01G191700 chr5D 69415474 69416446 972 False 1363.0 1363 91.9220 1 977 1 chr5D.!!$F4 976
12 TraesCS6A01G191700 chr5D 46541785 46542335 550 False 640.0 640 87.7700 5197 5745 1 chr5D.!!$F2 548
13 TraesCS6A01G191700 chr5D 46557700 46558260 560 False 627.0 627 86.9490 5197 5758 1 chr5D.!!$F3 561
14 TraesCS6A01G191700 chr7A 108833354 108834329 975 True 1387.0 1387 92.3230 1 976 1 chr7A.!!$R1 975
15 TraesCS6A01G191700 chr1A 65810176 65811150 974 True 1354.0 1354 91.7180 1 977 1 chr1A.!!$R1 976
16 TraesCS6A01G191700 chr5B 265055456 265056016 560 False 638.0 638 87.3240 5197 5758 1 chr5B.!!$F1 561
17 TraesCS6A01G191700 chr5B 265065700 265066257 557 False 599.0 599 86.1700 5197 5755 1 chr5B.!!$F2 558
18 TraesCS6A01G191700 chr4D 382923852 382924388 536 False 603.0 603 86.9720 5217 5758 1 chr4D.!!$F1 541
19 TraesCS6A01G191700 chr7B 324236417 324236980 563 True 575.0 575 85.3660 5197 5758 1 chr7B.!!$R1 561
20 TraesCS6A01G191700 chr1D 258179617 258180157 540 True 534.0 534 84.6150 5217 5758 1 chr1D.!!$R1 541

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
151 153 0.329596 ATGGAGGTGAACCCAAGAGC 59.670 55.000 0.00 0.0 35.85 4.09 F
981 989 0.617820 GGAGGTGCTCTTAGACCCCA 60.618 60.000 0.00 0.0 32.03 4.96 F
2230 2597 1.133792 ACCTCGCTGGAATAATTGGGG 60.134 52.381 1.32 0.0 39.71 4.96 F
3454 3969 0.040958 GCAACAGAAGGACAACTGCG 60.041 55.000 0.00 0.0 37.61 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1631 1643 2.033602 CGAACCCCTTGGACACCC 59.966 66.667 0.00 0.0 34.81 4.61 R
2357 2733 1.331756 GGGACATGACATCATTGCGAC 59.668 52.381 0.00 0.0 33.61 5.19 R
3740 4255 2.708325 AGAGACCTGTTTGAGCTTTCCT 59.292 45.455 0.00 0.0 0.00 3.36 R
5214 8663 1.528586 GGCATGCGATTACTGTAGCAG 59.471 52.381 12.44 0.0 43.20 4.24 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
143 144 2.704572 CACTTCTGGATGGAGGTGAAC 58.295 52.381 1.39 0.00 43.15 3.18
147 149 0.698238 CTGGATGGAGGTGAACCCAA 59.302 55.000 0.00 0.00 35.85 4.12
149 151 0.991920 GGATGGAGGTGAACCCAAGA 59.008 55.000 0.00 0.00 35.85 3.02
150 152 1.065126 GGATGGAGGTGAACCCAAGAG 60.065 57.143 0.00 0.00 35.85 2.85
151 153 0.329596 ATGGAGGTGAACCCAAGAGC 59.670 55.000 0.00 0.00 35.85 4.09
152 154 1.059584 TGGAGGTGAACCCAAGAGCA 61.060 55.000 0.00 0.00 36.42 4.26
193 197 4.270325 GCACTTGAAGTAGTTGTCGAACTT 59.730 41.667 0.00 0.00 39.56 2.66
306 311 3.284793 AGTAGTCGGAGTAGAGCATGT 57.715 47.619 0.00 0.00 0.00 3.21
551 557 3.528853 CCGGTAGGCGTGTATCCA 58.471 61.111 0.00 0.00 0.00 3.41
651 657 3.506096 GCTACTTTTCCGGCGGGC 61.506 66.667 27.98 15.92 0.00 6.13
661 667 2.906897 CGGCGGGCAATGGCTATT 60.907 61.111 6.78 0.00 40.87 1.73
760 766 4.649674 GGGGAAGAAAACCTTGACTTTTCT 59.350 41.667 1.18 1.18 45.68 2.52
790 796 2.985847 GGCCAGCCGTGCTTTTCT 60.986 61.111 0.00 0.00 36.40 2.52
816 822 2.118294 GGAGCCCCCAACTGCTTT 59.882 61.111 0.00 0.00 38.11 3.51
881 888 1.288752 CGAGCCGGCAATTTTTGGT 59.711 52.632 31.54 3.33 0.00 3.67
888 895 1.339610 CGGCAATTTTTGGTGTCCTGA 59.660 47.619 0.00 0.00 0.00 3.86
901 908 1.074951 TCCTGAGAGCGTGACTGGA 59.925 57.895 0.00 0.00 0.00 3.86
952 960 1.151899 TCTGGGTAGGCCTGTTGGT 60.152 57.895 17.99 0.00 35.27 3.67
954 962 1.462432 TGGGTAGGCCTGTTGGTGA 60.462 57.895 17.99 0.00 35.27 4.02
981 989 0.617820 GGAGGTGCTCTTAGACCCCA 60.618 60.000 0.00 0.00 32.03 4.96
986 995 1.810030 GCTCTTAGACCCCAACGCG 60.810 63.158 3.53 3.53 0.00 6.01
987 996 1.810030 CTCTTAGACCCCAACGCGC 60.810 63.158 5.73 0.00 0.00 6.86
988 997 2.047655 CTTAGACCCCAACGCGCA 60.048 61.111 5.73 0.00 0.00 6.09
1026 1038 4.021925 GAAGCCCCACCAGACGCT 62.022 66.667 0.00 0.00 0.00 5.07
1129 1141 3.231736 CCGTATCCCCGACCCCTG 61.232 72.222 0.00 0.00 0.00 4.45
1497 1509 1.749258 GGCCGGAAACATCTCCACC 60.749 63.158 5.05 0.00 34.91 4.61
1631 1643 3.491208 CTCATTTGAGGAGCAGGGG 57.509 57.895 0.00 0.00 38.48 4.79
1892 1904 6.601217 GGATTTAAGAATGAGAAGGCTTGAGT 59.399 38.462 3.46 0.00 0.00 3.41
1984 1996 6.033513 GCGGTTAGTAAAGATGATTTTGCAAC 59.966 38.462 0.00 0.00 0.00 4.17
2038 2050 3.618594 TGCTATTTGATCAAGACGTCAGC 59.381 43.478 19.50 13.68 0.00 4.26
2229 2596 2.348411 ACCTCGCTGGAATAATTGGG 57.652 50.000 1.32 0.00 39.71 4.12
2230 2597 1.133792 ACCTCGCTGGAATAATTGGGG 60.134 52.381 1.32 0.00 39.71 4.96
2237 2604 3.646534 CTGGAATAATTGGGGCCTCTTT 58.353 45.455 3.07 0.00 0.00 2.52
2357 2733 6.251589 GTCATCAATACTAGAACAGTGTGTCG 59.748 42.308 0.00 0.00 38.24 4.35
2382 2758 3.635373 GCAATGATGTCATGTCCCTGATT 59.365 43.478 0.00 0.00 36.56 2.57
2383 2759 4.823442 GCAATGATGTCATGTCCCTGATTA 59.177 41.667 0.00 0.00 36.56 1.75
2464 2965 7.657354 CCTTTTGCAGTAGCTTCCTTTATTTTT 59.343 33.333 0.00 0.00 42.74 1.94
2488 2989 5.762179 TCAATTCACTAACTCACCTGGAT 57.238 39.130 0.00 0.00 0.00 3.41
2523 3024 9.689976 TTGAACTGTGATGTGGTTATTTTATTG 57.310 29.630 0.00 0.00 0.00 1.90
2542 3043 8.506168 TTTATTGCTGCTGTAGTAAATTAGCT 57.494 30.769 0.00 0.00 34.59 3.32
2730 3236 0.935898 GTCTGAGATTGCCAGATGCG 59.064 55.000 0.00 0.00 45.60 4.73
2748 3254 1.940613 GCGATAAATCTTTGGCCTCGT 59.059 47.619 3.32 0.00 0.00 4.18
2869 3383 3.084786 GCACTGGTATTTCAGCTTTCCT 58.915 45.455 0.00 0.00 38.26 3.36
2876 3390 7.141758 TGGTATTTCAGCTTTCCTATGATCT 57.858 36.000 0.00 0.00 0.00 2.75
2978 3493 8.770438 ATGTAAACATGAAGTTGTGTTGTTTT 57.230 26.923 0.00 0.00 41.19 2.43
2983 3498 5.799936 ACATGAAGTTGTGTTGTTTTTCTCG 59.200 36.000 0.00 0.00 0.00 4.04
3043 3558 2.677199 CATCCCATCGTCCGTAGATTG 58.323 52.381 0.00 0.00 0.00 2.67
3082 3597 8.687292 ATAACACATCTTGATATGCACATCTT 57.313 30.769 6.52 0.00 0.00 2.40
3410 3925 0.179129 GCCAGCCCAATCAATTCACG 60.179 55.000 0.00 0.00 0.00 4.35
3454 3969 0.040958 GCAACAGAAGGACAACTGCG 60.041 55.000 0.00 0.00 37.61 5.18
3740 4255 5.450818 ACAATATGGTCTTTTCAGCCCTA 57.549 39.130 0.00 0.00 0.00 3.53
4380 4895 3.495100 CCTGGTTCTTCAGCTTGTGTACT 60.495 47.826 0.00 0.00 33.64 2.73
4389 7147 1.001406 AGCTTGTGTACTGGAGTCTGC 59.999 52.381 0.00 0.00 0.00 4.26
4448 7206 7.549134 TGATATCAAACTATGTGTTCAGTCACC 59.451 37.037 1.98 0.00 38.03 4.02
4617 7375 7.011857 CAGTTCAAGAAGCAAGTATCCCTATTC 59.988 40.741 0.00 0.00 0.00 1.75
4679 7437 2.771943 ACAGGGTATCCAACACGATGAT 59.228 45.455 0.00 0.00 36.23 2.45
4725 7483 5.422012 TCCTATGTTATGCAACTGAGACAGA 59.578 40.000 5.76 0.00 35.56 3.41
4850 7608 4.881850 ACACTCCAAAACAGGTAAGAGTTG 59.118 41.667 0.00 0.00 32.45 3.16
5143 8592 3.791973 TTGTTTTTGTGGAAGTCGCAT 57.208 38.095 0.00 0.00 35.59 4.73
5208 8657 1.388547 CATGGAATGTAACACCCCCG 58.611 55.000 0.00 0.00 40.20 5.73
5214 8663 1.134228 ATGTAACACCCCCGGTATCC 58.866 55.000 0.00 0.00 32.11 2.59
5285 8735 5.947228 TGCTAATCCTCACTTTGTTTCAG 57.053 39.130 0.00 0.00 0.00 3.02
5447 8897 8.499288 TTATCCCCAGGAAATTAAAACAGTTT 57.501 30.769 0.00 0.00 34.34 2.66
5508 8967 9.631257 AAAAATCCAAATCAATTCAAACTCCTT 57.369 25.926 0.00 0.00 0.00 3.36
5579 9040 6.568869 CCAAGTTCCACATTTTACAAAGACA 58.431 36.000 0.00 0.00 0.00 3.41
5758 9228 0.616111 AAGCAGAGAGGGGATCGTGT 60.616 55.000 0.00 0.00 0.00 4.49
5759 9229 1.142748 GCAGAGAGGGGATCGTGTG 59.857 63.158 0.00 0.00 0.00 3.82
5760 9230 1.608717 GCAGAGAGGGGATCGTGTGT 61.609 60.000 0.00 0.00 0.00 3.72
5761 9231 0.898320 CAGAGAGGGGATCGTGTGTT 59.102 55.000 0.00 0.00 0.00 3.32
5762 9232 2.100197 CAGAGAGGGGATCGTGTGTTA 58.900 52.381 0.00 0.00 0.00 2.41
5763 9233 2.496070 CAGAGAGGGGATCGTGTGTTAA 59.504 50.000 0.00 0.00 0.00 2.01
5764 9234 2.496470 AGAGAGGGGATCGTGTGTTAAC 59.504 50.000 0.00 0.00 0.00 2.01
5765 9235 2.232941 GAGAGGGGATCGTGTGTTAACA 59.767 50.000 3.59 3.59 0.00 2.41
5766 9236 2.838202 AGAGGGGATCGTGTGTTAACAT 59.162 45.455 12.26 0.00 38.92 2.71
5767 9237 4.028131 AGAGGGGATCGTGTGTTAACATA 58.972 43.478 12.26 6.22 38.92 2.29
5768 9238 4.117685 GAGGGGATCGTGTGTTAACATAC 58.882 47.826 21.72 21.72 38.92 2.39
5769 9239 3.773119 AGGGGATCGTGTGTTAACATACT 59.227 43.478 26.52 13.68 38.92 2.12
5770 9240 4.224370 AGGGGATCGTGTGTTAACATACTT 59.776 41.667 26.52 17.00 38.92 2.24
5771 9241 4.331717 GGGGATCGTGTGTTAACATACTTG 59.668 45.833 26.52 15.80 38.92 3.16
5772 9242 4.933400 GGGATCGTGTGTTAACATACTTGT 59.067 41.667 26.52 15.49 38.92 3.16
5773 9243 6.101332 GGGATCGTGTGTTAACATACTTGTA 58.899 40.000 26.52 13.69 38.92 2.41
5774 9244 6.759827 GGGATCGTGTGTTAACATACTTGTAT 59.240 38.462 26.52 16.81 38.92 2.29
5775 9245 7.279313 GGGATCGTGTGTTAACATACTTGTATT 59.721 37.037 26.52 9.88 38.92 1.89
5776 9246 8.662141 GGATCGTGTGTTAACATACTTGTATTT 58.338 33.333 26.52 8.77 38.92 1.40
5777 9247 9.472995 GATCGTGTGTTAACATACTTGTATTTG 57.527 33.333 26.52 12.90 38.92 2.32
5778 9248 8.367943 TCGTGTGTTAACATACTTGTATTTGT 57.632 30.769 26.52 0.00 38.92 2.83
5779 9249 9.473640 TCGTGTGTTAACATACTTGTATTTGTA 57.526 29.630 26.52 3.65 38.92 2.41
5780 9250 9.519905 CGTGTGTTAACATACTTGTATTTGTAC 57.480 33.333 26.52 4.74 38.92 2.90
5810 9280 9.726438 AATTCTGTTATACTTTGACTAGCTGTT 57.274 29.630 0.00 0.00 0.00 3.16
5811 9281 8.534333 TTCTGTTATACTTTGACTAGCTGTTG 57.466 34.615 0.00 0.00 0.00 3.33
5812 9282 7.667557 TCTGTTATACTTTGACTAGCTGTTGT 58.332 34.615 0.00 0.00 0.00 3.32
5813 9283 8.799367 TCTGTTATACTTTGACTAGCTGTTGTA 58.201 33.333 0.00 0.00 0.00 2.41
5814 9284 9.419297 CTGTTATACTTTGACTAGCTGTTGTAA 57.581 33.333 0.00 0.00 0.00 2.41
5815 9285 9.938280 TGTTATACTTTGACTAGCTGTTGTAAT 57.062 29.630 0.00 0.00 0.00 1.89
5818 9288 6.969828 ACTTTGACTAGCTGTTGTAATAGC 57.030 37.500 0.00 5.35 42.66 2.97
5828 9298 6.049263 GCTGTTGTAATAGCTGTTGTATCC 57.951 41.667 5.89 0.00 39.68 2.59
5829 9299 5.817816 GCTGTTGTAATAGCTGTTGTATCCT 59.182 40.000 5.89 0.00 39.68 3.24
5830 9300 6.018669 GCTGTTGTAATAGCTGTTGTATCCTC 60.019 42.308 5.89 0.00 39.68 3.71
5831 9301 7.182817 TGTTGTAATAGCTGTTGTATCCTCT 57.817 36.000 5.89 0.00 0.00 3.69
5832 9302 7.265673 TGTTGTAATAGCTGTTGTATCCTCTC 58.734 38.462 5.89 0.00 0.00 3.20
5833 9303 6.406692 TGTAATAGCTGTTGTATCCTCTCC 57.593 41.667 5.89 0.00 0.00 3.71
5834 9304 6.136857 TGTAATAGCTGTTGTATCCTCTCCT 58.863 40.000 5.89 0.00 0.00 3.69
5835 9305 7.295340 TGTAATAGCTGTTGTATCCTCTCCTA 58.705 38.462 5.89 0.00 0.00 2.94
5836 9306 6.658188 AATAGCTGTTGTATCCTCTCCTAC 57.342 41.667 0.00 0.00 0.00 3.18
5837 9307 4.258457 AGCTGTTGTATCCTCTCCTACT 57.742 45.455 0.00 0.00 0.00 2.57
5838 9308 4.615513 AGCTGTTGTATCCTCTCCTACTT 58.384 43.478 0.00 0.00 0.00 2.24
5839 9309 5.026790 AGCTGTTGTATCCTCTCCTACTTT 58.973 41.667 0.00 0.00 0.00 2.66
5840 9310 5.128008 AGCTGTTGTATCCTCTCCTACTTTC 59.872 44.000 0.00 0.00 0.00 2.62
5841 9311 5.128008 GCTGTTGTATCCTCTCCTACTTTCT 59.872 44.000 0.00 0.00 0.00 2.52
5842 9312 6.321690 GCTGTTGTATCCTCTCCTACTTTCTA 59.678 42.308 0.00 0.00 0.00 2.10
5843 9313 7.469456 GCTGTTGTATCCTCTCCTACTTTCTAG 60.469 44.444 0.00 0.00 0.00 2.43
5844 9314 6.834451 TGTTGTATCCTCTCCTACTTTCTAGG 59.166 42.308 0.00 0.00 36.06 3.02
5845 9315 6.843473 TGTATCCTCTCCTACTTTCTAGGA 57.157 41.667 0.00 0.00 41.14 2.94
5846 9316 7.409408 TGTATCCTCTCCTACTTTCTAGGAT 57.591 40.000 6.87 6.87 44.16 3.24
5847 9317 7.463431 TGTATCCTCTCCTACTTTCTAGGATC 58.537 42.308 5.00 0.00 41.72 3.36
5848 9318 4.975631 TCCTCTCCTACTTTCTAGGATCG 58.024 47.826 0.00 0.00 42.34 3.69
5849 9319 3.504520 CCTCTCCTACTTTCTAGGATCGC 59.495 52.174 0.00 0.00 42.34 4.58
5850 9320 4.394729 CTCTCCTACTTTCTAGGATCGCT 58.605 47.826 0.00 0.00 42.34 4.93
5851 9321 5.513441 CCTCTCCTACTTTCTAGGATCGCTA 60.513 48.000 0.00 0.00 42.34 4.26
5852 9322 5.938279 TCTCCTACTTTCTAGGATCGCTAA 58.062 41.667 0.00 0.00 42.34 3.09
5853 9323 5.764192 TCTCCTACTTTCTAGGATCGCTAAC 59.236 44.000 0.00 0.00 42.34 2.34
5854 9324 4.826183 TCCTACTTTCTAGGATCGCTAACC 59.174 45.833 0.00 0.00 38.71 2.85
5855 9325 4.583489 CCTACTTTCTAGGATCGCTAACCA 59.417 45.833 0.00 0.00 36.85 3.67
5856 9326 4.388378 ACTTTCTAGGATCGCTAACCAC 57.612 45.455 0.00 0.00 0.00 4.16
5857 9327 4.024670 ACTTTCTAGGATCGCTAACCACT 58.975 43.478 0.00 0.00 0.00 4.00
5858 9328 4.098196 ACTTTCTAGGATCGCTAACCACTC 59.902 45.833 0.00 0.00 0.00 3.51
5859 9329 3.579534 TCTAGGATCGCTAACCACTCT 57.420 47.619 0.00 0.00 0.00 3.24
5860 9330 3.478509 TCTAGGATCGCTAACCACTCTC 58.521 50.000 0.00 0.00 0.00 3.20
5861 9331 1.404843 AGGATCGCTAACCACTCTCC 58.595 55.000 0.00 0.00 0.00 3.71
5862 9332 0.389757 GGATCGCTAACCACTCTCCC 59.610 60.000 0.00 0.00 0.00 4.30
5863 9333 0.030908 GATCGCTAACCACTCTCCCG 59.969 60.000 0.00 0.00 0.00 5.14
5864 9334 0.683504 ATCGCTAACCACTCTCCCGT 60.684 55.000 0.00 0.00 0.00 5.28
5865 9335 1.139095 CGCTAACCACTCTCCCGTC 59.861 63.158 0.00 0.00 0.00 4.79
5866 9336 1.592400 CGCTAACCACTCTCCCGTCA 61.592 60.000 0.00 0.00 0.00 4.35
5867 9337 0.824759 GCTAACCACTCTCCCGTCAT 59.175 55.000 0.00 0.00 0.00 3.06
5868 9338 1.471676 GCTAACCACTCTCCCGTCATG 60.472 57.143 0.00 0.00 0.00 3.07
5869 9339 1.137086 CTAACCACTCTCCCGTCATGG 59.863 57.143 0.00 0.00 36.46 3.66
5870 9340 2.185310 AACCACTCTCCCGTCATGGC 62.185 60.000 0.00 0.00 35.87 4.40
5871 9341 2.187946 CACTCTCCCGTCATGGCC 59.812 66.667 0.00 0.00 35.87 5.36
5872 9342 2.039624 ACTCTCCCGTCATGGCCT 59.960 61.111 3.32 0.00 35.87 5.19
5873 9343 2.362369 ACTCTCCCGTCATGGCCTG 61.362 63.158 3.32 0.00 35.87 4.85
5874 9344 3.746949 CTCTCCCGTCATGGCCTGC 62.747 68.421 3.32 0.00 35.87 4.85
5886 9356 3.133464 GCCTGCGTGCCTTGCATA 61.133 61.111 0.00 0.00 41.91 3.14
5887 9357 2.699768 GCCTGCGTGCCTTGCATAA 61.700 57.895 0.00 0.00 41.91 1.90
5888 9358 1.137404 CCTGCGTGCCTTGCATAAC 59.863 57.895 0.00 0.00 41.91 1.89
5889 9359 1.226101 CTGCGTGCCTTGCATAACG 60.226 57.895 6.61 6.61 41.91 3.18
5890 9360 2.100216 GCGTGCCTTGCATAACGG 59.900 61.111 11.35 1.42 41.91 4.44
5891 9361 2.791256 CGTGCCTTGCATAACGGG 59.209 61.111 0.00 0.00 41.91 5.28
5892 9362 1.743623 CGTGCCTTGCATAACGGGA 60.744 57.895 0.00 0.00 41.91 5.14
5893 9363 1.705337 CGTGCCTTGCATAACGGGAG 61.705 60.000 0.00 0.00 41.91 4.30
5894 9364 0.392461 GTGCCTTGCATAACGGGAGA 60.392 55.000 0.00 0.00 41.91 3.71
5895 9365 0.392461 TGCCTTGCATAACGGGAGAC 60.392 55.000 0.00 0.00 31.71 3.36
5896 9366 0.107654 GCCTTGCATAACGGGAGACT 60.108 55.000 0.00 0.00 0.00 3.24
5897 9367 1.679032 GCCTTGCATAACGGGAGACTT 60.679 52.381 0.00 0.00 0.00 3.01
5898 9368 2.009774 CCTTGCATAACGGGAGACTTG 58.990 52.381 0.00 0.00 0.00 3.16
5899 9369 2.009774 CTTGCATAACGGGAGACTTGG 58.990 52.381 0.00 0.00 0.00 3.61
5900 9370 0.251916 TGCATAACGGGAGACTTGGG 59.748 55.000 0.00 0.00 0.00 4.12
5901 9371 0.252197 GCATAACGGGAGACTTGGGT 59.748 55.000 0.00 0.00 0.00 4.51
5902 9372 1.339727 GCATAACGGGAGACTTGGGTT 60.340 52.381 0.00 0.00 0.00 4.11
5903 9373 2.629051 CATAACGGGAGACTTGGGTTC 58.371 52.381 0.00 0.00 0.00 3.62
5904 9374 2.019807 TAACGGGAGACTTGGGTTCT 57.980 50.000 0.00 0.00 0.00 3.01
5905 9375 0.685660 AACGGGAGACTTGGGTTCTC 59.314 55.000 0.00 0.00 0.00 2.87
5906 9376 0.178929 ACGGGAGACTTGGGTTCTCT 60.179 55.000 0.00 0.00 0.00 3.10
5907 9377 0.247736 CGGGAGACTTGGGTTCTCTG 59.752 60.000 0.00 0.00 0.00 3.35
5908 9378 1.645710 GGGAGACTTGGGTTCTCTGA 58.354 55.000 0.00 0.00 0.00 3.27
5909 9379 2.192263 GGGAGACTTGGGTTCTCTGAT 58.808 52.381 0.00 0.00 0.00 2.90
5910 9380 3.375699 GGGAGACTTGGGTTCTCTGATA 58.624 50.000 0.00 0.00 0.00 2.15
5911 9381 3.970640 GGGAGACTTGGGTTCTCTGATAT 59.029 47.826 0.00 0.00 0.00 1.63
5912 9382 5.148502 GGGAGACTTGGGTTCTCTGATATA 58.851 45.833 0.00 0.00 0.00 0.86
5913 9383 5.782845 GGGAGACTTGGGTTCTCTGATATAT 59.217 44.000 0.00 0.00 0.00 0.86
5914 9384 6.954684 GGGAGACTTGGGTTCTCTGATATATA 59.045 42.308 0.00 0.00 0.00 0.86
5915 9385 7.621683 GGGAGACTTGGGTTCTCTGATATATAT 59.378 40.741 0.00 0.00 0.00 0.86
5916 9386 8.474025 GGAGACTTGGGTTCTCTGATATATATG 58.526 40.741 0.00 0.00 0.00 1.78
5917 9387 8.964533 AGACTTGGGTTCTCTGATATATATGT 57.035 34.615 0.00 0.00 0.00 2.29
5921 9391 9.877178 CTTGGGTTCTCTGATATATATGTAACC 57.123 37.037 0.00 6.40 34.46 2.85
5922 9392 9.615660 TTGGGTTCTCTGATATATATGTAACCT 57.384 33.333 0.00 0.00 35.35 3.50
5923 9393 9.035890 TGGGTTCTCTGATATATATGTAACCTG 57.964 37.037 0.00 0.00 35.35 4.00
5924 9394 9.036980 GGGTTCTCTGATATATATGTAACCTGT 57.963 37.037 0.00 0.00 35.35 4.00
5931 9401 9.587772 CTGATATATATGTAACCTGTAACCTGC 57.412 37.037 0.00 0.00 0.00 4.85
5932 9402 9.321532 TGATATATATGTAACCTGTAACCTGCT 57.678 33.333 0.00 0.00 0.00 4.24
5933 9403 9.804758 GATATATATGTAACCTGTAACCTGCTC 57.195 37.037 0.00 0.00 0.00 4.26
5934 9404 3.629142 ATGTAACCTGTAACCTGCTCC 57.371 47.619 0.00 0.00 0.00 4.70
5935 9405 2.331166 TGTAACCTGTAACCTGCTCCA 58.669 47.619 0.00 0.00 0.00 3.86
5936 9406 2.910319 TGTAACCTGTAACCTGCTCCAT 59.090 45.455 0.00 0.00 0.00 3.41
5937 9407 4.098155 TGTAACCTGTAACCTGCTCCATA 58.902 43.478 0.00 0.00 0.00 2.74
5938 9408 4.719773 TGTAACCTGTAACCTGCTCCATAT 59.280 41.667 0.00 0.00 0.00 1.78
5939 9409 4.862641 AACCTGTAACCTGCTCCATATT 57.137 40.909 0.00 0.00 0.00 1.28
5940 9410 4.423625 ACCTGTAACCTGCTCCATATTC 57.576 45.455 0.00 0.00 0.00 1.75
5941 9411 3.780294 ACCTGTAACCTGCTCCATATTCA 59.220 43.478 0.00 0.00 0.00 2.57
5942 9412 4.141620 ACCTGTAACCTGCTCCATATTCAG 60.142 45.833 0.00 0.00 0.00 3.02
5943 9413 4.141620 CCTGTAACCTGCTCCATATTCAGT 60.142 45.833 0.00 0.00 0.00 3.41
5944 9414 4.769688 TGTAACCTGCTCCATATTCAGTG 58.230 43.478 0.00 0.00 0.00 3.66
5945 9415 4.469586 TGTAACCTGCTCCATATTCAGTGA 59.530 41.667 0.00 0.00 0.00 3.41
5946 9416 4.574674 AACCTGCTCCATATTCAGTGAA 57.425 40.909 8.27 8.27 0.00 3.18
5947 9417 4.785346 ACCTGCTCCATATTCAGTGAAT 57.215 40.909 21.57 21.57 36.20 2.57
5948 9418 5.894298 ACCTGCTCCATATTCAGTGAATA 57.106 39.130 24.22 24.22 38.61 1.75
5949 9419 5.615289 ACCTGCTCCATATTCAGTGAATAC 58.385 41.667 24.43 13.67 37.34 1.89
5950 9420 5.130975 ACCTGCTCCATATTCAGTGAATACA 59.869 40.000 24.43 16.85 37.34 2.29
5951 9421 6.057533 CCTGCTCCATATTCAGTGAATACAA 58.942 40.000 24.43 13.38 37.34 2.41
5952 9422 6.017605 CCTGCTCCATATTCAGTGAATACAAC 60.018 42.308 24.43 14.14 37.34 3.32
5953 9423 6.413892 TGCTCCATATTCAGTGAATACAACA 58.586 36.000 24.43 16.07 37.34 3.33
5954 9424 6.539826 TGCTCCATATTCAGTGAATACAACAG 59.460 38.462 24.43 18.10 37.34 3.16
5955 9425 6.512415 GCTCCATATTCAGTGAATACAACAGC 60.512 42.308 24.43 22.31 37.34 4.40
5956 9426 6.413892 TCCATATTCAGTGAATACAACAGCA 58.586 36.000 24.43 5.55 37.34 4.41
5957 9427 6.316140 TCCATATTCAGTGAATACAACAGCAC 59.684 38.462 24.43 0.00 37.34 4.40
5958 9428 6.093909 CCATATTCAGTGAATACAACAGCACA 59.906 38.462 24.43 4.18 37.34 4.57
5959 9429 5.618056 ATTCAGTGAATACAACAGCACAG 57.382 39.130 16.85 0.00 33.85 3.66
5960 9430 4.071961 TCAGTGAATACAACAGCACAGT 57.928 40.909 0.00 0.00 33.85 3.55
5961 9431 3.809279 TCAGTGAATACAACAGCACAGTG 59.191 43.478 0.00 0.00 33.85 3.66
5962 9432 3.809279 CAGTGAATACAACAGCACAGTGA 59.191 43.478 4.15 0.00 33.85 3.41
5963 9433 4.060900 AGTGAATACAACAGCACAGTGAG 58.939 43.478 4.15 0.00 33.85 3.51
5964 9434 4.058124 GTGAATACAACAGCACAGTGAGA 58.942 43.478 4.15 0.00 0.00 3.27
5965 9435 4.511454 GTGAATACAACAGCACAGTGAGAA 59.489 41.667 4.15 0.00 0.00 2.87
5966 9436 4.511454 TGAATACAACAGCACAGTGAGAAC 59.489 41.667 4.15 0.00 0.00 3.01
5967 9437 1.668419 ACAACAGCACAGTGAGAACC 58.332 50.000 4.15 0.00 0.00 3.62
5968 9438 1.065491 ACAACAGCACAGTGAGAACCA 60.065 47.619 4.15 0.00 0.00 3.67
5969 9439 2.224606 CAACAGCACAGTGAGAACCAT 58.775 47.619 4.15 0.00 0.00 3.55
5970 9440 2.175878 ACAGCACAGTGAGAACCATC 57.824 50.000 4.15 0.00 0.00 3.51
5971 9441 1.696336 ACAGCACAGTGAGAACCATCT 59.304 47.619 4.15 0.00 39.10 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
151 153 0.452987 CAAGATGGATTGCACCGGTG 59.547 55.000 30.66 30.66 0.00 4.94
152 154 2.872408 CAAGATGGATTGCACCGGT 58.128 52.632 0.00 0.00 0.00 5.28
193 197 4.227982 TCAGGATTGTGAATTCCATCCAGA 59.772 41.667 21.75 18.17 0.00 3.86
244 249 1.120147 CGAGAAAACATTTCGGCGCG 61.120 55.000 0.00 0.00 0.00 6.86
306 311 1.602851 GCATCGTCTCGAAGGCTACTA 59.397 52.381 10.30 0.00 39.99 1.82
548 554 1.001633 GAGGAGCAGTTTAACGGTGGA 59.998 52.381 0.00 0.00 0.00 4.02
551 557 0.037605 CGGAGGAGCAGTTTAACGGT 60.038 55.000 0.00 0.00 0.00 4.83
598 604 2.437897 CCCCTCCAACAGCAGCTT 59.562 61.111 0.00 0.00 0.00 3.74
638 644 2.181525 CATTGCCCGCCGGAAAAG 59.818 61.111 5.05 0.00 26.98 2.27
651 657 3.003689 CCTTCACCGCTAAATAGCCATTG 59.996 47.826 6.84 2.37 46.34 2.82
661 667 4.770874 GCCGCCCTTCACCGCTAA 62.771 66.667 0.00 0.00 0.00 3.09
685 691 1.203137 ACCACTAGCTATATCCCGGCA 60.203 52.381 0.00 0.00 0.00 5.69
872 879 2.554032 CGCTCTCAGGACACCAAAAATT 59.446 45.455 0.00 0.00 0.00 1.82
878 885 1.530655 TCACGCTCTCAGGACACCA 60.531 57.895 0.00 0.00 0.00 4.17
881 888 1.527433 CCAGTCACGCTCTCAGGACA 61.527 60.000 0.00 0.00 32.79 4.02
888 895 1.745320 AAACGGTCCAGTCACGCTCT 61.745 55.000 0.00 0.00 0.00 4.09
934 941 1.151899 ACCAACAGGCCTACCCAGA 60.152 57.895 3.98 0.00 36.11 3.86
940 947 2.345991 GCGTCACCAACAGGCCTA 59.654 61.111 3.98 0.00 0.00 3.93
960 968 0.537653 GGGTCTAAGAGCACCTCCAC 59.462 60.000 0.00 0.00 32.69 4.02
966 974 1.019805 GCGTTGGGGTCTAAGAGCAC 61.020 60.000 0.00 0.00 33.65 4.40
981 989 3.335534 GTTCCGAGTGTGCGCGTT 61.336 61.111 8.43 0.00 36.18 4.84
986 995 2.027625 CTTCCGGTTCCGAGTGTGC 61.028 63.158 13.08 0.00 0.00 4.57
987 996 1.374252 CCTTCCGGTTCCGAGTGTG 60.374 63.158 13.08 0.00 0.00 3.82
988 997 3.057337 CCTTCCGGTTCCGAGTGT 58.943 61.111 13.08 0.00 0.00 3.55
1094 1106 2.687200 TGACGGTGATGGAGGGGG 60.687 66.667 0.00 0.00 0.00 5.40
1485 1497 3.305335 GCAAATTCACGGTGGAGATGTTT 60.305 43.478 8.50 0.00 0.00 2.83
1497 1509 2.791383 TTCCAACCAGCAAATTCACG 57.209 45.000 0.00 0.00 0.00 4.35
1631 1643 2.033602 CGAACCCCTTGGACACCC 59.966 66.667 0.00 0.00 34.81 4.61
1892 1904 5.105392 AGCACTTTGTCAAATGAAAACTCCA 60.105 36.000 0.00 0.00 0.00 3.86
1984 1996 3.191371 GCACTAACAAAATCCCTCTGGTG 59.809 47.826 0.00 0.00 0.00 4.17
2237 2604 2.889512 TGAGAACTACAGGCTCTCCAA 58.110 47.619 7.67 0.00 35.70 3.53
2357 2733 1.331756 GGGACATGACATCATTGCGAC 59.668 52.381 0.00 0.00 33.61 5.19
2464 2965 5.935945 TCCAGGTGAGTTAGTGAATTGAAA 58.064 37.500 0.00 0.00 0.00 2.69
2465 2966 5.560722 TCCAGGTGAGTTAGTGAATTGAA 57.439 39.130 0.00 0.00 0.00 2.69
2542 3043 4.079980 TGTGCTTTTGCCTACTTCTGTA 57.920 40.909 0.00 0.00 46.87 2.74
2730 3236 9.612620 CATATTAAACGAGGCCAAAGATTTATC 57.387 33.333 5.01 0.00 0.00 1.75
2748 3254 7.408756 AAGCCATTCTCAACAGCATATTAAA 57.591 32.000 0.00 0.00 0.00 1.52
2810 3324 4.657814 ATTGTATCCAACTCAGGGTGTT 57.342 40.909 0.00 0.00 32.26 3.32
2978 3493 3.071479 GGTGAGCATTAAACACCGAGAA 58.929 45.455 0.00 0.00 43.21 2.87
3410 3925 9.573133 GCCAAAATATCCAATGTAATGCTATAC 57.427 33.333 0.00 0.00 0.00 1.47
3454 3969 4.207891 TCCAGAACCTCATTTAGTCTGC 57.792 45.455 0.00 0.00 0.00 4.26
3740 4255 2.708325 AGAGACCTGTTTGAGCTTTCCT 59.292 45.455 0.00 0.00 0.00 3.36
4380 4895 2.637382 TCAACATTGTAGGCAGACTCCA 59.363 45.455 0.00 0.00 0.00 3.86
4448 7206 7.958053 AGAAGAAAGCCAGAAATTTTCAATG 57.042 32.000 11.53 2.23 0.00 2.82
4617 7375 2.947652 CCACATATCTGCAGGAACTTGG 59.052 50.000 15.13 11.59 34.60 3.61
4679 7437 6.719370 AGGATAACCAAATTACAGACTTGCAA 59.281 34.615 0.00 0.00 38.94 4.08
4725 7483 9.730705 TCTTTTTGATGTCATGACTCTTCTAAT 57.269 29.630 25.55 9.64 0.00 1.73
5178 8627 3.763557 ACATTCCATGTCCCCTTGAAT 57.236 42.857 0.00 0.00 39.92 2.57
5208 8657 3.005472 TGCGATTACTGTAGCAGGATACC 59.995 47.826 1.08 0.00 35.51 2.73
5214 8663 1.528586 GGCATGCGATTACTGTAGCAG 59.471 52.381 12.44 0.00 43.20 4.24
5579 9040 5.609423 TGCAATACTTTGAGTTGCCAATTT 58.391 33.333 6.83 0.00 45.66 1.82
5784 9254 9.726438 AACAGCTAGTCAAAGTATAACAGAATT 57.274 29.630 0.00 0.00 0.00 2.17
5785 9255 9.155975 CAACAGCTAGTCAAAGTATAACAGAAT 57.844 33.333 0.00 0.00 0.00 2.40
5786 9256 8.148351 ACAACAGCTAGTCAAAGTATAACAGAA 58.852 33.333 0.00 0.00 0.00 3.02
5787 9257 7.667557 ACAACAGCTAGTCAAAGTATAACAGA 58.332 34.615 0.00 0.00 0.00 3.41
5788 9258 7.891183 ACAACAGCTAGTCAAAGTATAACAG 57.109 36.000 0.00 0.00 0.00 3.16
5789 9259 9.938280 ATTACAACAGCTAGTCAAAGTATAACA 57.062 29.630 0.00 0.00 0.00 2.41
5792 9262 9.745880 GCTATTACAACAGCTAGTCAAAGTATA 57.254 33.333 0.00 0.00 34.86 1.47
5793 9263 8.478877 AGCTATTACAACAGCTAGTCAAAGTAT 58.521 33.333 0.00 0.00 46.14 2.12
5794 9264 7.759886 CAGCTATTACAACAGCTAGTCAAAGTA 59.240 37.037 0.00 0.00 46.26 2.24
5795 9265 6.591834 CAGCTATTACAACAGCTAGTCAAAGT 59.408 38.462 0.00 0.00 46.26 2.66
5796 9266 6.591834 ACAGCTATTACAACAGCTAGTCAAAG 59.408 38.462 0.00 0.00 46.26 2.77
5797 9267 6.464222 ACAGCTATTACAACAGCTAGTCAAA 58.536 36.000 0.00 0.00 46.26 2.69
5798 9268 6.037786 ACAGCTATTACAACAGCTAGTCAA 57.962 37.500 0.00 0.00 46.26 3.18
5799 9269 5.661056 ACAGCTATTACAACAGCTAGTCA 57.339 39.130 0.00 0.00 46.26 3.41
5800 9270 5.869888 ACAACAGCTATTACAACAGCTAGTC 59.130 40.000 0.00 0.00 46.26 2.59
5801 9271 5.794894 ACAACAGCTATTACAACAGCTAGT 58.205 37.500 0.00 0.00 46.26 2.57
5802 9272 7.169982 GGATACAACAGCTATTACAACAGCTAG 59.830 40.741 0.00 0.00 46.26 3.42
5803 9273 6.984474 GGATACAACAGCTATTACAACAGCTA 59.016 38.462 0.00 0.00 46.26 3.32
5804 9274 6.352222 AGGATACAACAGCTATTACAACAGCT 60.352 38.462 0.00 0.00 44.80 4.24
5805 9275 5.817816 AGGATACAACAGCTATTACAACAGC 59.182 40.000 0.00 0.00 41.41 4.40
5806 9276 7.268586 AGAGGATACAACAGCTATTACAACAG 58.731 38.462 0.00 0.00 41.41 3.16
5807 9277 7.182817 AGAGGATACAACAGCTATTACAACA 57.817 36.000 0.00 0.00 41.41 3.33
5808 9278 6.702282 GGAGAGGATACAACAGCTATTACAAC 59.298 42.308 0.00 0.00 41.41 3.32
5809 9279 6.611642 AGGAGAGGATACAACAGCTATTACAA 59.388 38.462 0.00 0.00 41.41 2.41
5810 9280 6.136857 AGGAGAGGATACAACAGCTATTACA 58.863 40.000 0.00 0.00 41.41 2.41
5811 9281 6.658188 AGGAGAGGATACAACAGCTATTAC 57.342 41.667 0.00 0.00 41.41 1.89
5812 9282 7.527796 AGTAGGAGAGGATACAACAGCTATTA 58.472 38.462 0.00 0.00 41.41 0.98
5813 9283 6.377912 AGTAGGAGAGGATACAACAGCTATT 58.622 40.000 0.00 0.00 41.41 1.73
5814 9284 5.959512 AGTAGGAGAGGATACAACAGCTAT 58.040 41.667 0.00 0.00 41.41 2.97
5815 9285 5.390087 AGTAGGAGAGGATACAACAGCTA 57.610 43.478 0.00 0.00 41.41 3.32
5816 9286 4.258457 AGTAGGAGAGGATACAACAGCT 57.742 45.455 0.00 0.00 41.41 4.24
5817 9287 5.128008 AGAAAGTAGGAGAGGATACAACAGC 59.872 44.000 0.00 0.00 41.41 4.40
5818 9288 6.783708 AGAAAGTAGGAGAGGATACAACAG 57.216 41.667 0.00 0.00 41.41 3.16
5819 9289 6.834451 CCTAGAAAGTAGGAGAGGATACAACA 59.166 42.308 0.00 0.00 36.85 3.33
5820 9290 7.061688 TCCTAGAAAGTAGGAGAGGATACAAC 58.938 42.308 0.00 0.00 38.71 3.32
5821 9291 7.222180 TCCTAGAAAGTAGGAGAGGATACAA 57.778 40.000 0.00 0.00 38.71 2.41
5822 9292 6.843473 TCCTAGAAAGTAGGAGAGGATACA 57.157 41.667 0.00 0.00 38.71 2.29
5823 9293 6.596497 CGATCCTAGAAAGTAGGAGAGGATAC 59.404 46.154 6.90 0.00 45.89 2.24
5824 9294 6.713276 CGATCCTAGAAAGTAGGAGAGGATA 58.287 44.000 6.90 0.00 45.89 2.59
5825 9295 5.566469 CGATCCTAGAAAGTAGGAGAGGAT 58.434 45.833 6.90 0.88 45.89 3.24
5826 9296 4.747316 GCGATCCTAGAAAGTAGGAGAGGA 60.747 50.000 6.90 0.00 45.89 3.71
5827 9297 3.504520 GCGATCCTAGAAAGTAGGAGAGG 59.495 52.174 6.90 0.66 45.89 3.69
5828 9298 4.394729 AGCGATCCTAGAAAGTAGGAGAG 58.605 47.826 6.90 4.60 45.89 3.20
5829 9299 4.440826 AGCGATCCTAGAAAGTAGGAGA 57.559 45.455 6.90 0.00 45.89 3.71
5830 9300 5.048573 GGTTAGCGATCCTAGAAAGTAGGAG 60.049 48.000 6.90 0.00 45.89 3.69
5831 9301 4.826183 GGTTAGCGATCCTAGAAAGTAGGA 59.174 45.833 3.27 3.27 46.65 2.94
5832 9302 4.583489 TGGTTAGCGATCCTAGAAAGTAGG 59.417 45.833 0.00 0.00 36.06 3.18
5833 9303 5.299782 AGTGGTTAGCGATCCTAGAAAGTAG 59.700 44.000 0.00 0.00 0.00 2.57
5834 9304 5.198965 AGTGGTTAGCGATCCTAGAAAGTA 58.801 41.667 0.00 0.00 0.00 2.24
5835 9305 4.024670 AGTGGTTAGCGATCCTAGAAAGT 58.975 43.478 0.00 0.00 0.00 2.66
5836 9306 4.339814 AGAGTGGTTAGCGATCCTAGAAAG 59.660 45.833 0.00 0.00 0.00 2.62
5837 9307 4.279145 AGAGTGGTTAGCGATCCTAGAAA 58.721 43.478 0.00 0.00 0.00 2.52
5838 9308 3.884091 GAGAGTGGTTAGCGATCCTAGAA 59.116 47.826 0.00 0.00 0.00 2.10
5839 9309 3.478509 GAGAGTGGTTAGCGATCCTAGA 58.521 50.000 0.00 0.00 0.00 2.43
5840 9310 2.554893 GGAGAGTGGTTAGCGATCCTAG 59.445 54.545 0.00 0.00 0.00 3.02
5841 9311 2.584236 GGAGAGTGGTTAGCGATCCTA 58.416 52.381 0.00 0.00 0.00 2.94
5842 9312 1.404843 GGAGAGTGGTTAGCGATCCT 58.595 55.000 0.00 0.00 0.00 3.24
5843 9313 0.389757 GGGAGAGTGGTTAGCGATCC 59.610 60.000 0.00 0.00 0.00 3.36
5844 9314 0.030908 CGGGAGAGTGGTTAGCGATC 59.969 60.000 0.00 0.00 0.00 3.69
5845 9315 0.683504 ACGGGAGAGTGGTTAGCGAT 60.684 55.000 0.00 0.00 0.00 4.58
5846 9316 1.303888 ACGGGAGAGTGGTTAGCGA 60.304 57.895 0.00 0.00 0.00 4.93
5847 9317 1.139095 GACGGGAGAGTGGTTAGCG 59.861 63.158 0.00 0.00 0.00 4.26
5848 9318 0.824759 ATGACGGGAGAGTGGTTAGC 59.175 55.000 0.00 0.00 0.00 3.09
5849 9319 1.137086 CCATGACGGGAGAGTGGTTAG 59.863 57.143 0.00 0.00 0.00 2.34
5850 9320 1.191535 CCATGACGGGAGAGTGGTTA 58.808 55.000 0.00 0.00 0.00 2.85
5851 9321 1.983224 CCATGACGGGAGAGTGGTT 59.017 57.895 0.00 0.00 0.00 3.67
5852 9322 2.660064 GCCATGACGGGAGAGTGGT 61.660 63.158 0.00 0.00 33.83 4.16
5853 9323 2.187946 GCCATGACGGGAGAGTGG 59.812 66.667 0.00 0.00 34.06 4.00
5854 9324 2.187946 GGCCATGACGGGAGAGTG 59.812 66.667 0.00 0.00 34.06 3.51
5855 9325 2.039624 AGGCCATGACGGGAGAGT 59.960 61.111 5.01 0.00 34.06 3.24
5856 9326 2.503061 CAGGCCATGACGGGAGAG 59.497 66.667 5.01 0.00 34.06 3.20
5857 9327 3.785859 GCAGGCCATGACGGGAGA 61.786 66.667 5.01 0.00 34.06 3.71
5869 9339 2.699768 TTATGCAAGGCACGCAGGC 61.700 57.895 6.97 0.00 43.04 4.85
5870 9340 1.137404 GTTATGCAAGGCACGCAGG 59.863 57.895 6.97 0.00 43.04 4.85
5871 9341 1.226101 CGTTATGCAAGGCACGCAG 60.226 57.895 6.97 0.00 43.04 5.18
5872 9342 2.685829 CCGTTATGCAAGGCACGCA 61.686 57.895 3.23 3.23 43.04 5.24
5873 9343 2.100216 CCGTTATGCAAGGCACGC 59.900 61.111 0.00 0.00 43.04 5.34
5874 9344 1.705337 CTCCCGTTATGCAAGGCACG 61.705 60.000 0.00 0.00 43.04 5.34
5875 9345 0.392461 TCTCCCGTTATGCAAGGCAC 60.392 55.000 0.00 0.00 43.04 5.01
5876 9346 0.392461 GTCTCCCGTTATGCAAGGCA 60.392 55.000 0.00 0.00 44.86 4.75
5877 9347 0.107654 AGTCTCCCGTTATGCAAGGC 60.108 55.000 0.00 0.00 0.00 4.35
5878 9348 2.009774 CAAGTCTCCCGTTATGCAAGG 58.990 52.381 0.00 0.00 0.00 3.61
5879 9349 2.009774 CCAAGTCTCCCGTTATGCAAG 58.990 52.381 0.00 0.00 0.00 4.01
5880 9350 1.339631 CCCAAGTCTCCCGTTATGCAA 60.340 52.381 0.00 0.00 0.00 4.08
5881 9351 0.251916 CCCAAGTCTCCCGTTATGCA 59.748 55.000 0.00 0.00 0.00 3.96
5882 9352 0.252197 ACCCAAGTCTCCCGTTATGC 59.748 55.000 0.00 0.00 0.00 3.14
5883 9353 2.236395 AGAACCCAAGTCTCCCGTTATG 59.764 50.000 0.00 0.00 0.00 1.90
5884 9354 2.500504 GAGAACCCAAGTCTCCCGTTAT 59.499 50.000 0.00 0.00 0.00 1.89
5885 9355 1.897802 GAGAACCCAAGTCTCCCGTTA 59.102 52.381 0.00 0.00 0.00 3.18
5886 9356 0.685660 GAGAACCCAAGTCTCCCGTT 59.314 55.000 0.00 0.00 0.00 4.44
5887 9357 0.178929 AGAGAACCCAAGTCTCCCGT 60.179 55.000 0.00 0.00 0.00 5.28
5888 9358 0.247736 CAGAGAACCCAAGTCTCCCG 59.752 60.000 0.00 0.00 0.00 5.14
5889 9359 1.645710 TCAGAGAACCCAAGTCTCCC 58.354 55.000 0.00 0.00 0.00 4.30
5890 9360 6.926630 ATATATCAGAGAACCCAAGTCTCC 57.073 41.667 0.00 0.00 0.00 3.71
5891 9361 9.030452 ACATATATATCAGAGAACCCAAGTCTC 57.970 37.037 0.00 0.00 0.00 3.36
5892 9362 8.964533 ACATATATATCAGAGAACCCAAGTCT 57.035 34.615 0.00 0.00 0.00 3.24
5895 9365 9.877178 GGTTACATATATATCAGAGAACCCAAG 57.123 37.037 0.00 0.00 0.00 3.61
5896 9366 9.615660 AGGTTACATATATATCAGAGAACCCAA 57.384 33.333 12.70 0.00 35.47 4.12
5897 9367 9.035890 CAGGTTACATATATATCAGAGAACCCA 57.964 37.037 12.70 0.00 35.47 4.51
5898 9368 9.036980 ACAGGTTACATATATATCAGAGAACCC 57.963 37.037 12.70 0.00 35.47 4.11
5905 9375 9.587772 GCAGGTTACAGGTTACATATATATCAG 57.412 37.037 0.00 0.00 0.00 2.90
5906 9376 9.321532 AGCAGGTTACAGGTTACATATATATCA 57.678 33.333 0.00 0.00 0.00 2.15
5907 9377 9.804758 GAGCAGGTTACAGGTTACATATATATC 57.195 37.037 0.00 0.00 0.00 1.63
5908 9378 8.759782 GGAGCAGGTTACAGGTTACATATATAT 58.240 37.037 0.00 0.00 0.00 0.86
5909 9379 7.731235 TGGAGCAGGTTACAGGTTACATATATA 59.269 37.037 0.00 0.00 0.00 0.86
5910 9380 6.557253 TGGAGCAGGTTACAGGTTACATATAT 59.443 38.462 0.00 0.00 0.00 0.86
5911 9381 5.900699 TGGAGCAGGTTACAGGTTACATATA 59.099 40.000 0.00 0.00 0.00 0.86
5912 9382 4.719773 TGGAGCAGGTTACAGGTTACATAT 59.280 41.667 0.00 0.00 0.00 1.78
5913 9383 4.098155 TGGAGCAGGTTACAGGTTACATA 58.902 43.478 0.00 0.00 0.00 2.29
5914 9384 2.910319 TGGAGCAGGTTACAGGTTACAT 59.090 45.455 0.00 0.00 0.00 2.29
5915 9385 2.331166 TGGAGCAGGTTACAGGTTACA 58.669 47.619 0.00 0.00 0.00 2.41
5916 9386 3.629142 ATGGAGCAGGTTACAGGTTAC 57.371 47.619 0.00 0.00 0.00 2.50
5917 9387 5.427157 TGAATATGGAGCAGGTTACAGGTTA 59.573 40.000 0.00 0.00 0.00 2.85
5918 9388 4.227300 TGAATATGGAGCAGGTTACAGGTT 59.773 41.667 0.00 0.00 0.00 3.50
5919 9389 3.780294 TGAATATGGAGCAGGTTACAGGT 59.220 43.478 0.00 0.00 0.00 4.00
5920 9390 4.141620 ACTGAATATGGAGCAGGTTACAGG 60.142 45.833 0.00 0.00 34.05 4.00
5921 9391 4.813161 CACTGAATATGGAGCAGGTTACAG 59.187 45.833 0.00 0.00 34.05 2.74
5922 9392 4.469586 TCACTGAATATGGAGCAGGTTACA 59.530 41.667 0.00 0.00 34.05 2.41
5923 9393 5.023533 TCACTGAATATGGAGCAGGTTAC 57.976 43.478 0.00 0.00 34.05 2.50
5924 9394 5.692115 TTCACTGAATATGGAGCAGGTTA 57.308 39.130 0.00 0.00 34.05 2.85
5925 9395 4.574674 TTCACTGAATATGGAGCAGGTT 57.425 40.909 0.00 0.00 34.05 3.50
5926 9396 4.785346 ATTCACTGAATATGGAGCAGGT 57.215 40.909 2.17 0.00 34.05 4.00
5927 9397 5.614308 TGTATTCACTGAATATGGAGCAGG 58.386 41.667 13.47 0.00 36.96 4.85
5928 9398 6.539826 TGTTGTATTCACTGAATATGGAGCAG 59.460 38.462 13.47 0.00 36.96 4.24
5929 9399 6.413892 TGTTGTATTCACTGAATATGGAGCA 58.586 36.000 13.47 5.22 36.96 4.26
5930 9400 6.512415 GCTGTTGTATTCACTGAATATGGAGC 60.512 42.308 13.47 13.57 36.96 4.70
5931 9401 6.539826 TGCTGTTGTATTCACTGAATATGGAG 59.460 38.462 13.47 9.11 36.96 3.86
5932 9402 6.316140 GTGCTGTTGTATTCACTGAATATGGA 59.684 38.462 13.47 2.41 36.96 3.41
5933 9403 6.093909 TGTGCTGTTGTATTCACTGAATATGG 59.906 38.462 13.47 5.42 36.96 2.74
5934 9404 7.075674 TGTGCTGTTGTATTCACTGAATATG 57.924 36.000 13.47 5.17 36.96 1.78
5935 9405 6.881065 ACTGTGCTGTTGTATTCACTGAATAT 59.119 34.615 13.47 0.00 36.96 1.28
5936 9406 6.147656 CACTGTGCTGTTGTATTCACTGAATA 59.852 38.462 7.31 7.31 33.95 1.75
5937 9407 5.049198 CACTGTGCTGTTGTATTCACTGAAT 60.049 40.000 9.26 9.26 36.20 2.57
5938 9408 4.273235 CACTGTGCTGTTGTATTCACTGAA 59.727 41.667 0.00 0.00 34.12 3.02
5939 9409 3.809279 CACTGTGCTGTTGTATTCACTGA 59.191 43.478 0.00 0.00 34.12 3.41
5940 9410 3.809279 TCACTGTGCTGTTGTATTCACTG 59.191 43.478 2.12 0.00 35.45 3.66
5941 9411 4.060900 CTCACTGTGCTGTTGTATTCACT 58.939 43.478 2.12 0.00 0.00 3.41
5942 9412 4.058124 TCTCACTGTGCTGTTGTATTCAC 58.942 43.478 2.12 0.00 0.00 3.18
5943 9413 4.335400 TCTCACTGTGCTGTTGTATTCA 57.665 40.909 2.12 0.00 0.00 2.57
5944 9414 4.083802 GGTTCTCACTGTGCTGTTGTATTC 60.084 45.833 2.12 0.00 0.00 1.75
5945 9415 3.815401 GGTTCTCACTGTGCTGTTGTATT 59.185 43.478 2.12 0.00 0.00 1.89
5946 9416 3.181455 TGGTTCTCACTGTGCTGTTGTAT 60.181 43.478 2.12 0.00 0.00 2.29
5947 9417 2.169561 TGGTTCTCACTGTGCTGTTGTA 59.830 45.455 2.12 0.00 0.00 2.41
5948 9418 1.065491 TGGTTCTCACTGTGCTGTTGT 60.065 47.619 2.12 0.00 0.00 3.32
5949 9419 1.667236 TGGTTCTCACTGTGCTGTTG 58.333 50.000 2.12 0.00 0.00 3.33
5950 9420 2.105477 AGATGGTTCTCACTGTGCTGTT 59.895 45.455 2.12 0.00 0.00 3.16
5951 9421 1.696336 AGATGGTTCTCACTGTGCTGT 59.304 47.619 2.12 0.00 0.00 4.40
5952 9422 2.344950 GAGATGGTTCTCACTGTGCTG 58.655 52.381 2.12 0.00 46.49 4.41
5953 9423 2.758736 GAGATGGTTCTCACTGTGCT 57.241 50.000 2.12 0.00 46.49 4.40


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

AutoCloner maintained by Alex Coulton.