Multiple sequence alignment - TraesCS2D01G174300

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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 TraesCS2D01G174300 chr2D 100.000 4803 0 0 1 4803 117836599 117831797 0.000000e+00 8870.0
1 TraesCS2D01G174300 chr2A 92.906 2495 130 22 1142 3624 119083712 119081253 0.000000e+00 3583.0
2 TraesCS2D01G174300 chr2A 89.938 805 40 15 3974 4755 119080790 119080004 0.000000e+00 1000.0
3 TraesCS2D01G174300 chr2A 90.343 466 23 3 2 445 119085287 119084822 4.140000e-165 592.0
4 TraesCS2D01G174300 chr2A 92.031 389 22 4 3562 3948 119081166 119080785 5.470000e-149 538.0
5 TraesCS2D01G174300 chr2A 83.910 491 37 26 626 1090 119084822 119084348 9.550000e-117 431.0
6 TraesCS2D01G174300 chr2A 88.889 63 2 1 3562 3624 119081214 119081157 6.670000e-09 73.1
7 TraesCS2D01G174300 chr2A 88.889 63 2 1 3562 3624 119081262 119081205 6.670000e-09 73.1
8 TraesCS2D01G174300 chr2B 87.023 2042 147 47 1 1966 168618424 168616425 0.000000e+00 2194.0
9 TraesCS2D01G174300 chr2B 95.097 877 27 9 1965 2831 168616341 168615471 0.000000e+00 1367.0
10 TraesCS2D01G174300 chr2B 93.174 923 40 11 2896 3813 168615327 168614423 0.000000e+00 1334.0
11 TraesCS2D01G174300 chr2B 86.607 560 36 18 4242 4789 168612741 168612209 2.490000e-162 582.0
12 TraesCS2D01G174300 chr2B 95.349 172 7 1 4016 4186 168614117 168613946 6.130000e-69 272.0
13 TraesCS2D01G174300 chr2B 96.000 100 2 2 3850 3948 168614238 168614140 1.380000e-35 161.0
14 TraesCS2D01G174300 chr2B 100.000 34 0 0 3970 4003 168614149 168614116 4.010000e-06 63.9


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 TraesCS2D01G174300 chr2D 117831797 117836599 4802 True 8870.000000 8870 100.000000 1 4803 1 chr2D.!!$R1 4802
1 TraesCS2D01G174300 chr2A 119080004 119085287 5283 True 898.600000 3583 89.558000 2 4755 7 chr2A.!!$R1 4753
2 TraesCS2D01G174300 chr2B 168612209 168618424 6215 True 853.414286 2194 93.321429 1 4789 7 chr2B.!!$R1 4788

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
783 844 0.172352 CAGAGGAGAACACGAGAGGC 59.828 60.000 0.0 0.0 0.00 4.70 F
873 940 0.466372 TCTCGCATCTGGGATCGAGT 60.466 55.000 18.6 0.0 45.89 4.18 F
1721 2389 0.601841 CGCCTGTAAAGGTTGACGGT 60.602 55.000 0.0 0.0 0.00 4.83 F
1722 2390 0.872388 GCCTGTAAAGGTTGACGGTG 59.128 55.000 0.0 0.0 0.00 4.94 F
1912 2580 1.576421 CAGCAACTCAAGGTTCGGC 59.424 57.895 0.0 0.0 35.74 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2675 3443 0.038021 ATGCATGGGTGTGCTGTGTA 59.962 50.000 0.00 0.00 45.27 2.90 R
2676 3444 1.228644 ATGCATGGGTGTGCTGTGT 60.229 52.632 0.00 0.00 45.27 3.72 R
2863 3631 2.798976 ATCATGTTTGCGTGCAAAGT 57.201 40.000 19.45 9.37 45.16 2.66 R
3071 3920 2.823196 TGCGTTGAATATTTGCTCCG 57.177 45.000 0.00 0.00 0.00 4.63 R
3837 4826 1.125633 GGCACGTCTAAATAGGGGGA 58.874 55.000 0.00 0.00 0.00 4.81 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
174 175 3.018856 GCAAGTGTGGGATGATCATTGA 58.981 45.455 10.14 0.00 0.00 2.57
183 184 6.774170 TGTGGGATGATCATTGATAAAGGAAG 59.226 38.462 10.14 0.00 0.00 3.46
205 206 3.599343 CCCAATCAGTGATTCAAGTCGA 58.401 45.455 15.60 0.00 28.87 4.20
257 272 8.918202 TGTTCCCTGTCAAATGATTATATACC 57.082 34.615 0.00 0.00 0.00 2.73
262 277 6.942005 CCTGTCAAATGATTATATACCTGCCA 59.058 38.462 0.00 0.00 0.00 4.92
312 327 3.509575 TCTGTGCCATGTGTATTTTTCCC 59.490 43.478 0.00 0.00 0.00 3.97
349 365 2.546373 GGTGCAATGACACAATGTGCTT 60.546 45.455 14.01 2.02 42.55 3.91
362 378 5.462729 CACAATGTGCTTGATTTGCTAACAA 59.537 36.000 0.00 0.00 38.29 2.83
396 425 9.973661 TTTCCTTCCATCATCTAAATAGTTGAA 57.026 29.630 5.55 0.00 36.11 2.69
401 430 8.681486 TCCATCATCTAAATAGTTGAATGTGG 57.319 34.615 10.63 10.63 36.11 4.17
428 457 8.579682 AAAGTCAGAAGGAAATTTGAAAATCG 57.420 30.769 0.00 0.00 0.00 3.34
447 476 4.066646 TCGTCAACCAAAGTTCTCATGA 57.933 40.909 0.00 0.00 32.45 3.07
456 485 6.176183 ACCAAAGTTCTCATGATTCCTACTG 58.824 40.000 0.00 0.00 0.00 2.74
457 486 6.176183 CCAAAGTTCTCATGATTCCTACTGT 58.824 40.000 0.00 0.00 0.00 3.55
458 487 7.038302 ACCAAAGTTCTCATGATTCCTACTGTA 60.038 37.037 0.00 0.00 0.00 2.74
459 488 7.989741 CCAAAGTTCTCATGATTCCTACTGTAT 59.010 37.037 0.00 0.00 0.00 2.29
460 489 9.388506 CAAAGTTCTCATGATTCCTACTGTATT 57.611 33.333 0.00 0.00 0.00 1.89
461 490 9.965902 AAAGTTCTCATGATTCCTACTGTATTT 57.034 29.630 0.00 0.00 0.00 1.40
490 519 5.277538 CGACTTTGGAAGCTGCTAATAATCC 60.278 44.000 0.90 6.47 0.00 3.01
491 520 4.889995 ACTTTGGAAGCTGCTAATAATCCC 59.110 41.667 13.28 3.53 0.00 3.85
492 521 4.796110 TTGGAAGCTGCTAATAATCCCT 57.204 40.909 13.28 0.00 0.00 4.20
498 527 3.326297 AGCTGCTAATAATCCCTGACTCC 59.674 47.826 0.00 0.00 0.00 3.85
513 542 1.615883 GACTCCTGAAGCTCTCACACA 59.384 52.381 0.00 0.00 0.00 3.72
514 543 2.036475 GACTCCTGAAGCTCTCACACAA 59.964 50.000 0.00 0.00 0.00 3.33
515 544 2.224161 ACTCCTGAAGCTCTCACACAAC 60.224 50.000 0.00 0.00 0.00 3.32
516 545 1.762370 TCCTGAAGCTCTCACACAACA 59.238 47.619 0.00 0.00 0.00 3.33
542 571 5.369833 TCGACTGATTGGTTTGTTCCTAAA 58.630 37.500 0.00 0.00 0.00 1.85
543 572 6.001460 TCGACTGATTGGTTTGTTCCTAAAT 58.999 36.000 0.00 0.00 0.00 1.40
544 573 7.162761 TCGACTGATTGGTTTGTTCCTAAATA 58.837 34.615 0.00 0.00 0.00 1.40
545 574 7.662258 TCGACTGATTGGTTTGTTCCTAAATAA 59.338 33.333 0.00 0.00 0.00 1.40
546 575 8.293867 CGACTGATTGGTTTGTTCCTAAATAAA 58.706 33.333 0.00 0.00 0.00 1.40
547 576 9.626045 GACTGATTGGTTTGTTCCTAAATAAAG 57.374 33.333 0.00 0.00 0.00 1.85
548 577 9.362151 ACTGATTGGTTTGTTCCTAAATAAAGA 57.638 29.630 0.00 0.00 0.00 2.52
553 582 7.657336 TGGTTTGTTCCTAAATAAAGAAGCTG 58.343 34.615 0.00 0.00 0.00 4.24
607 636 4.047822 GACAGTCTTGATATCTTCTGCCG 58.952 47.826 3.98 0.00 0.00 5.69
617 646 1.581934 TCTTCTGCCGTTGACAACTG 58.418 50.000 16.02 10.77 0.00 3.16
618 647 0.588252 CTTCTGCCGTTGACAACTGG 59.412 55.000 16.02 17.66 0.00 4.00
734 795 3.928727 TCGTCGGTTGACTAATGACTT 57.071 42.857 0.00 0.00 43.21 3.01
757 818 1.153667 CTCTGGAGCAACTCGGAGC 60.154 63.158 4.58 0.00 29.87 4.70
758 819 1.881903 CTCTGGAGCAACTCGGAGCA 61.882 60.000 4.58 0.00 29.87 4.26
759 820 1.004560 CTGGAGCAACTCGGAGCAA 60.005 57.895 4.58 0.00 0.00 3.91
783 844 0.172352 CAGAGGAGAACACGAGAGGC 59.828 60.000 0.00 0.00 0.00 4.70
785 846 2.182030 GGAGAACACGAGAGGCGG 59.818 66.667 0.00 0.00 46.49 6.13
822 883 3.911698 CCATCGATCGACGGCCCA 61.912 66.667 22.06 0.00 42.82 5.36
836 897 3.989787 CCCAAAACCGCCCAGCAC 61.990 66.667 0.00 0.00 0.00 4.40
837 898 2.912025 CCAAAACCGCCCAGCACT 60.912 61.111 0.00 0.00 0.00 4.40
838 899 2.644992 CAAAACCGCCCAGCACTC 59.355 61.111 0.00 0.00 0.00 3.51
846 907 4.410400 CCCAGCACTCCGTTCCCC 62.410 72.222 0.00 0.00 0.00 4.81
847 908 4.410400 CCAGCACTCCGTTCCCCC 62.410 72.222 0.00 0.00 0.00 5.40
848 909 3.322466 CAGCACTCCGTTCCCCCT 61.322 66.667 0.00 0.00 0.00 4.79
849 910 2.529389 AGCACTCCGTTCCCCCTT 60.529 61.111 0.00 0.00 0.00 3.95
850 911 2.154074 AGCACTCCGTTCCCCCTTT 61.154 57.895 0.00 0.00 0.00 3.11
852 913 1.375523 CACTCCGTTCCCCCTTTCG 60.376 63.158 0.00 0.00 0.00 3.46
854 915 1.373812 CTCCGTTCCCCCTTTCGTT 59.626 57.895 0.00 0.00 0.00 3.85
856 917 1.123246 TCCGTTCCCCCTTTCGTTCT 61.123 55.000 0.00 0.00 0.00 3.01
873 940 0.466372 TCTCGCATCTGGGATCGAGT 60.466 55.000 18.60 0.00 45.89 4.18
885 952 5.181433 TCTGGGATCGAGTAGACAATAATCG 59.819 44.000 0.00 0.00 36.52 3.34
923 991 1.301623 CAATTACCACCTCGCCCCA 59.698 57.895 0.00 0.00 0.00 4.96
968 1052 1.735973 CCAGATCGTCGGAGCATCA 59.264 57.895 0.00 0.00 36.25 3.07
1050 1134 4.700365 CACTGCGACGTCTGCCGA 62.700 66.667 23.01 9.87 40.70 5.54
1090 1174 4.570663 GCCGCGTACGCATCCTCT 62.571 66.667 36.44 0.00 42.06 3.69
1092 1176 2.722548 CGCGTACGCATCCTCTCG 60.723 66.667 36.44 16.22 42.06 4.04
1093 1177 2.353607 GCGTACGCATCCTCTCGG 60.354 66.667 33.90 0.00 41.49 4.63
1094 1178 2.353607 CGTACGCATCCTCTCGGC 60.354 66.667 0.52 0.00 0.00 5.54
1096 1180 2.123854 TACGCATCCTCTCGGCCT 60.124 61.111 0.00 0.00 0.00 5.19
1097 1181 2.194212 TACGCATCCTCTCGGCCTC 61.194 63.158 0.00 0.00 0.00 4.70
1098 1182 2.626255 TACGCATCCTCTCGGCCTCT 62.626 60.000 0.00 0.00 0.00 3.69
1099 1183 2.733945 GCATCCTCTCGGCCTCTC 59.266 66.667 0.00 0.00 0.00 3.20
1100 1184 2.866726 GCATCCTCTCGGCCTCTCC 61.867 68.421 0.00 0.00 0.00 3.71
1101 1185 2.200092 ATCCTCTCGGCCTCTCCC 59.800 66.667 0.00 0.00 0.00 4.30
1102 1186 2.399607 ATCCTCTCGGCCTCTCCCT 61.400 63.158 0.00 0.00 0.00 4.20
1105 1189 4.144727 TCTCGGCCTCTCCCTCCC 62.145 72.222 0.00 0.00 0.00 4.30
1111 1195 2.040359 CCTCTCCCTCCCCCTTCC 60.040 72.222 0.00 0.00 0.00 3.46
1113 1197 4.089757 TCTCCCTCCCCCTTCCCG 62.090 72.222 0.00 0.00 0.00 5.14
1117 1201 4.416601 CCTCCCCCTTCCCGTCCT 62.417 72.222 0.00 0.00 0.00 3.85
1130 1791 3.709587 TCCCGTCCTTGTAGAGATTCTT 58.290 45.455 0.00 0.00 0.00 2.52
1133 1794 5.718130 TCCCGTCCTTGTAGAGATTCTTTTA 59.282 40.000 0.00 0.00 0.00 1.52
1138 1799 8.989980 CGTCCTTGTAGAGATTCTTTTAGTTTT 58.010 33.333 0.00 0.00 0.00 2.43
1140 1801 9.284968 TCCTTGTAGAGATTCTTTTAGTTTTGG 57.715 33.333 0.00 0.00 0.00 3.28
1466 2134 7.865706 AACACTGATTATATTTGGTCTGGAC 57.134 36.000 0.00 0.00 0.00 4.02
1492 2160 9.859427 CATAAACTGAATTTTTGGCTATCTTCA 57.141 29.630 0.00 0.00 0.00 3.02
1720 2388 1.908066 GCGCCTGTAAAGGTTGACGG 61.908 60.000 0.00 0.00 0.00 4.79
1721 2389 0.601841 CGCCTGTAAAGGTTGACGGT 60.602 55.000 0.00 0.00 0.00 4.83
1722 2390 0.872388 GCCTGTAAAGGTTGACGGTG 59.128 55.000 0.00 0.00 0.00 4.94
1869 2537 3.310227 CAGCAGTCATCTGAATCAAGCTC 59.690 47.826 0.00 0.00 43.76 4.09
1912 2580 1.576421 CAGCAACTCAAGGTTCGGC 59.424 57.895 0.00 0.00 35.74 5.54
2267 3026 4.709397 AGCTTAGAGACAGCTCAATAGTGT 59.291 41.667 0.00 0.00 44.77 3.55
2269 3028 5.872070 GCTTAGAGACAGCTCAATAGTGTTT 59.128 40.000 0.00 0.00 43.81 2.83
2622 3389 6.944234 TCATTGTACCATTTTGTGTACACA 57.056 33.333 24.62 24.62 45.01 3.72
2651 3418 7.122055 TGCTTATAAATGTTTGGTCCTACAAGG 59.878 37.037 2.17 0.00 36.46 3.61
2665 3433 5.176792 TCCTACAAGGGCAACAACATTTGT 61.177 41.667 0.00 0.00 40.05 2.83
2675 3443 5.752955 GGCAACAACATTTGTGATGTAAAGT 59.247 36.000 0.00 0.00 44.59 2.66
2676 3444 6.920758 GGCAACAACATTTGTGATGTAAAGTA 59.079 34.615 0.00 0.00 44.59 2.24
2799 3567 6.267699 TGACCAGATTACTTTGTCTTCTCTGA 59.732 38.462 0.00 0.00 32.36 3.27
2821 3589 1.800586 ACTGTTGCTTCTGTATGTGCG 59.199 47.619 0.00 0.00 0.00 5.34
2844 3612 8.906636 GCGAAATGCAGATGATGATATATTTT 57.093 30.769 0.00 0.00 45.45 1.82
2845 3613 9.350357 GCGAAATGCAGATGATGATATATTTTT 57.650 29.630 0.00 0.00 45.45 1.94
2874 3642 1.669604 TAAGAACCACTTTGCACGCA 58.330 45.000 0.00 0.00 39.72 5.24
2888 3656 4.235939 TGCACGCAAACATGATTACTTT 57.764 36.364 0.00 0.00 0.00 2.66
3015 3864 5.604231 ACTGAACATCTATCTGCCTATGGAA 59.396 40.000 0.00 0.00 0.00 3.53
3071 3920 7.104939 AGATTGCTCTTATTCTCATGGATAGC 58.895 38.462 0.00 0.00 0.00 2.97
3123 3972 7.207383 GCAAGGTTGGTTGTTTTTACTATCTT 58.793 34.615 0.00 0.00 0.00 2.40
3124 3973 8.354426 GCAAGGTTGGTTGTTTTTACTATCTTA 58.646 33.333 0.00 0.00 0.00 2.10
3188 4037 9.778993 CAAATACTTTACATCATTGAGTTCCTG 57.221 33.333 0.00 0.00 0.00 3.86
3287 4136 8.771920 TCAGTTAATGTTGATACTGTCGAATT 57.228 30.769 0.00 0.00 39.16 2.17
3294 4143 8.955061 ATGTTGATACTGTCGAATTTTCTTTG 57.045 30.769 0.00 0.00 0.00 2.77
3333 4182 6.077838 CAGTTCAAACCAAAATACGAGCTAC 58.922 40.000 0.00 0.00 0.00 3.58
3387 4236 1.707427 AGGCTCCTTGGTGACTTTGAT 59.293 47.619 0.00 0.00 0.00 2.57
3388 4237 1.815003 GGCTCCTTGGTGACTTTGATG 59.185 52.381 0.00 0.00 0.00 3.07
3389 4238 2.508526 GCTCCTTGGTGACTTTGATGT 58.491 47.619 0.00 0.00 0.00 3.06
3422 4271 9.944376 TTATGCTTTTGTATTCTCTCAACTAGT 57.056 29.630 0.00 0.00 0.00 2.57
3424 4273 8.758633 TGCTTTTGTATTCTCTCAACTAGTAC 57.241 34.615 0.00 0.00 0.00 2.73
3425 4274 8.585881 TGCTTTTGTATTCTCTCAACTAGTACT 58.414 33.333 0.00 0.00 0.00 2.73
3458 4307 7.187824 TGTGACAGAATAAAAGCCTATCTCT 57.812 36.000 0.00 0.00 0.00 3.10
3461 4310 8.417884 GTGACAGAATAAAAGCCTATCTCTACT 58.582 37.037 0.00 0.00 0.00 2.57
3600 4449 8.893219 ACATCCACACTTGATATACAATACTG 57.107 34.615 0.00 0.00 37.88 2.74
3664 4652 7.121759 ACTTTTAATCATCAATAGTGCTGTGCT 59.878 33.333 0.00 0.00 0.00 4.40
3669 4657 6.816134 TCATCAATAGTGCTGTGCTAAAAA 57.184 33.333 0.00 0.00 0.00 1.94
3819 4808 2.151502 TGAGGGAGATGGTCTCTGTC 57.848 55.000 6.89 5.02 42.95 3.51
3842 4831 2.044551 CTTTCTGCTGGCTCCCCC 60.045 66.667 0.00 0.00 0.00 5.40
3844 4833 1.229820 TTTCTGCTGGCTCCCCCTA 60.230 57.895 0.00 0.00 0.00 3.53
3848 4837 1.140312 CTGCTGGCTCCCCCTATTTA 58.860 55.000 0.00 0.00 0.00 1.40
3927 5065 3.685756 GGTTCGGTGATTCATTTCGGTAA 59.314 43.478 0.00 0.00 0.00 2.85
3928 5066 4.334481 GGTTCGGTGATTCATTTCGGTAAT 59.666 41.667 0.00 0.00 0.00 1.89
3929 5067 5.499047 GTTCGGTGATTCATTTCGGTAATC 58.501 41.667 0.00 0.00 0.00 1.75
3930 5068 4.760878 TCGGTGATTCATTTCGGTAATCA 58.239 39.130 0.00 0.00 37.30 2.57
3935 5073 6.809630 TGATTCATTTCGGTAATCACAACA 57.190 33.333 0.00 0.00 35.32 3.33
3936 5074 7.389803 TGATTCATTTCGGTAATCACAACAT 57.610 32.000 0.00 0.00 35.32 2.71
3937 5075 7.471721 TGATTCATTTCGGTAATCACAACATC 58.528 34.615 0.00 0.00 35.32 3.06
3938 5076 6.809630 TTCATTTCGGTAATCACAACATCA 57.190 33.333 0.00 0.00 0.00 3.07
3939 5077 7.389803 TTCATTTCGGTAATCACAACATCAT 57.610 32.000 0.00 0.00 0.00 2.45
3940 5078 7.015226 TCATTTCGGTAATCACAACATCATC 57.985 36.000 0.00 0.00 0.00 2.92
3941 5079 6.597280 TCATTTCGGTAATCACAACATCATCA 59.403 34.615 0.00 0.00 0.00 3.07
3942 5080 7.282901 TCATTTCGGTAATCACAACATCATCAT 59.717 33.333 0.00 0.00 0.00 2.45
3943 5081 5.989551 TCGGTAATCACAACATCATCATG 57.010 39.130 0.00 0.00 35.92 3.07
3944 5082 5.427378 TCGGTAATCACAACATCATCATGT 58.573 37.500 0.00 0.00 45.89 3.21
3945 5083 6.578023 TCGGTAATCACAACATCATCATGTA 58.422 36.000 0.00 0.00 42.89 2.29
3946 5084 7.216494 TCGGTAATCACAACATCATCATGTAT 58.784 34.615 0.00 0.00 42.89 2.29
3947 5085 7.714813 TCGGTAATCACAACATCATCATGTATT 59.285 33.333 0.00 0.00 42.89 1.89
3948 5086 8.011673 CGGTAATCACAACATCATCATGTATTC 58.988 37.037 0.00 0.00 42.89 1.75
3949 5087 8.292448 GGTAATCACAACATCATCATGTATTCC 58.708 37.037 0.00 0.00 42.89 3.01
3950 5088 6.889301 ATCACAACATCATCATGTATTCCC 57.111 37.500 0.00 0.00 42.89 3.97
3951 5089 5.132502 TCACAACATCATCATGTATTCCCC 58.867 41.667 0.00 0.00 42.89 4.81
3952 5090 4.023792 CACAACATCATCATGTATTCCCCG 60.024 45.833 0.00 0.00 42.89 5.73
3953 5091 2.783135 ACATCATCATGTATTCCCCGC 58.217 47.619 0.00 0.00 41.81 6.13
3954 5092 2.106338 ACATCATCATGTATTCCCCGCA 59.894 45.455 0.00 0.00 41.81 5.69
3955 5093 3.148412 CATCATCATGTATTCCCCGCAA 58.852 45.455 0.00 0.00 0.00 4.85
3956 5094 3.289407 TCATCATGTATTCCCCGCAAA 57.711 42.857 0.00 0.00 0.00 3.68
3957 5095 3.625853 TCATCATGTATTCCCCGCAAAA 58.374 40.909 0.00 0.00 0.00 2.44
3958 5096 4.019858 TCATCATGTATTCCCCGCAAAAA 58.980 39.130 0.00 0.00 0.00 1.94
4011 5149 0.827507 CACAGGGGGTGGTCTTTTGG 60.828 60.000 0.00 0.00 44.04 3.28
4070 5208 9.755064 ATTTCTTCTTGTATTTATGTTTCGACG 57.245 29.630 0.00 0.00 0.00 5.12
4098 5244 4.111577 ACTTCTTCCCCAGATCCATTGTA 58.888 43.478 0.00 0.00 0.00 2.41
4201 5378 9.845740 ACAAAGTTTTAGCCAATATTTCCTTTT 57.154 25.926 0.00 0.00 0.00 2.27
4218 5395 3.492313 CTTTTGCGAGATGGTACTTTGC 58.508 45.455 0.00 0.00 0.00 3.68
4250 6549 4.498323 GCGAGGAAGCGTATAATATTACGG 59.502 45.833 11.62 0.28 43.92 4.02
4280 6579 9.754382 AATTTGTATTGCTATATGAAAAGCTGG 57.246 29.630 0.00 0.00 39.53 4.85
4314 6619 7.446769 TGGTAGTAGTACATTGTTTCACATGT 58.553 34.615 9.89 0.00 0.00 3.21
4333 6638 7.249186 ACATGTGTGATTGAAATGGTTTTTG 57.751 32.000 0.00 0.00 0.00 2.44
4345 6650 1.960689 TGGTTTTTGCTTAGAGGTGGC 59.039 47.619 0.00 0.00 0.00 5.01
4387 6698 7.315890 TGCATTATACTACTACTAGCTGCATG 58.684 38.462 1.02 0.00 31.57 4.06
4393 6704 6.582677 ACTACTACTAGCTGCATGGATTAG 57.417 41.667 1.02 0.00 0.00 1.73
4397 6708 4.348863 ACTAGCTGCATGGATTAGAAGG 57.651 45.455 1.02 0.00 0.00 3.46
4408 6719 7.665559 TGCATGGATTAGAAGGGTGTATTATTC 59.334 37.037 0.00 0.00 0.00 1.75
4458 6769 4.742201 CTGGTCGAGCCACCCACG 62.742 72.222 12.85 0.00 43.61 4.94
4591 6902 1.495878 CATCTTCCTCGCCGATCTTG 58.504 55.000 0.00 0.00 0.00 3.02
4608 6919 2.142357 TTGTCTCTGACCGGACGCAG 62.142 60.000 9.46 12.94 35.45 5.18
4609 6920 3.749064 TCTCTGACCGGACGCAGC 61.749 66.667 9.46 0.00 32.27 5.25
4610 6921 3.753434 CTCTGACCGGACGCAGCT 61.753 66.667 9.46 0.00 32.27 4.24
4611 6922 3.691744 CTCTGACCGGACGCAGCTC 62.692 68.421 9.46 0.00 32.27 4.09
4612 6923 4.803426 CTGACCGGACGCAGCTCC 62.803 72.222 9.46 0.00 0.00 4.70
4682 6993 1.133025 CAGCCGAAACCCATGATGAAC 59.867 52.381 0.00 0.00 0.00 3.18
4703 7014 4.234550 ACCATGGATAGAACTGGATAGCA 58.765 43.478 21.47 0.00 32.92 3.49
4711 7022 3.561143 AGAACTGGATAGCAGTCGATCT 58.439 45.455 0.00 0.00 31.67 2.75
4712 7023 3.957497 AGAACTGGATAGCAGTCGATCTT 59.043 43.478 0.00 0.00 31.67 2.40
4713 7024 4.037446 AGAACTGGATAGCAGTCGATCTTC 59.963 45.833 0.00 0.00 31.67 2.87
4715 7026 2.625314 CTGGATAGCAGTCGATCTTCCA 59.375 50.000 0.00 0.00 0.00 3.53
4716 7027 2.625314 TGGATAGCAGTCGATCTTCCAG 59.375 50.000 0.00 0.00 0.00 3.86
4717 7028 2.625790 GGATAGCAGTCGATCTTCCAGT 59.374 50.000 0.00 0.00 0.00 4.00
4719 7030 1.846007 AGCAGTCGATCTTCCAGTCT 58.154 50.000 0.00 0.00 0.00 3.24
4748 7059 5.432885 AATAGTCACCGAAACAAAACCAG 57.567 39.130 0.00 0.00 0.00 4.00
4750 7061 2.943033 AGTCACCGAAACAAAACCAGAG 59.057 45.455 0.00 0.00 0.00 3.35
4761 7072 4.521062 ACCAGAGCAGGCGATCGC 62.521 66.667 31.52 31.52 41.06 4.58
4762 7073 4.519437 CCAGAGCAGGCGATCGCA 62.519 66.667 38.00 0.00 44.11 5.10
4763 7074 2.960659 CAGAGCAGGCGATCGCAG 60.961 66.667 38.00 29.80 44.11 5.18
4771 7082 3.422303 GCGATCGCAGGCACACAA 61.422 61.111 33.89 0.00 41.49 3.33
4774 7085 0.453282 CGATCGCAGGCACACAAAAG 60.453 55.000 0.26 0.00 0.00 2.27
4775 7086 0.730494 GATCGCAGGCACACAAAAGC 60.730 55.000 0.00 0.00 0.00 3.51
4792 7107 1.501169 AGCGTTGCTTTCCAAAATGC 58.499 45.000 0.00 0.00 33.89 3.56
4793 7108 1.202510 AGCGTTGCTTTCCAAAATGCA 60.203 42.857 0.00 0.00 42.03 3.96
4794 7109 1.070643 GCGTTGCTTTCCAAAATGCAC 60.071 47.619 0.00 0.00 43.04 4.57
4795 7110 1.526464 CGTTGCTTTCCAAAATGCACC 59.474 47.619 0.00 0.00 43.04 5.01
4796 7111 2.559440 GTTGCTTTCCAAAATGCACCA 58.441 42.857 0.00 0.00 43.04 4.17
4797 7112 2.529780 TGCTTTCCAAAATGCACCAG 57.470 45.000 0.00 0.00 39.74 4.00
4798 7113 1.150827 GCTTTCCAAAATGCACCAGC 58.849 50.000 0.00 0.00 42.57 4.85
4799 7114 1.421382 CTTTCCAAAATGCACCAGCG 58.579 50.000 0.00 0.00 46.23 5.18
4800 7115 0.749649 TTTCCAAAATGCACCAGCGT 59.250 45.000 0.00 0.00 46.23 5.07
4801 7116 1.610363 TTCCAAAATGCACCAGCGTA 58.390 45.000 0.00 0.00 46.23 4.42
4802 7117 0.878416 TCCAAAATGCACCAGCGTAC 59.122 50.000 0.00 0.00 46.23 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
174 175 4.591321 TCACTGATTGGGCTTCCTTTAT 57.409 40.909 0.00 0.00 0.00 1.40
183 184 2.096496 CGACTTGAATCACTGATTGGGC 59.904 50.000 9.08 1.28 31.89 5.36
205 206 5.859495 AGAGAAGACAATTCCTCGAAAACT 58.141 37.500 0.00 0.00 0.00 2.66
216 217 6.214412 ACAGGGAACATCTAGAGAAGACAATT 59.786 38.462 0.00 0.00 36.93 2.32
217 218 5.723887 ACAGGGAACATCTAGAGAAGACAAT 59.276 40.000 0.00 0.00 36.93 2.71
256 271 3.054802 AGAATAAGAGTCCTTGTGGCAGG 60.055 47.826 0.00 0.00 33.94 4.85
257 272 4.213564 AGAATAAGAGTCCTTGTGGCAG 57.786 45.455 0.00 0.00 33.94 4.85
262 277 5.513267 GGGTGTCAAGAATAAGAGTCCTTGT 60.513 44.000 0.00 0.00 37.74 3.16
312 327 3.411446 TGCACCTTATGAACAACTCCAG 58.589 45.455 0.00 0.00 0.00 3.86
362 378 5.082425 AGATGATGGAAGGAAAACAAAGCT 58.918 37.500 0.00 0.00 0.00 3.74
396 425 6.983906 AATTTCCTTCTGACTTTTCCACAT 57.016 33.333 0.00 0.00 0.00 3.21
397 426 6.379703 TCAAATTTCCTTCTGACTTTTCCACA 59.620 34.615 0.00 0.00 0.00 4.17
428 457 5.474876 AGGAATCATGAGAACTTTGGTTGAC 59.525 40.000 0.09 0.00 35.58 3.18
461 490 2.687935 AGCAGCTTCCAAAGTCGAAAAA 59.312 40.909 0.00 0.00 0.00 1.94
490 519 1.204467 GTGAGAGCTTCAGGAGTCAGG 59.796 57.143 0.00 0.00 36.21 3.86
491 520 1.891811 TGTGAGAGCTTCAGGAGTCAG 59.108 52.381 0.00 0.00 36.21 3.51
492 521 1.615883 GTGTGAGAGCTTCAGGAGTCA 59.384 52.381 0.00 0.00 36.21 3.41
498 527 2.831333 ACTGTTGTGTGAGAGCTTCAG 58.169 47.619 0.00 0.00 36.21 3.02
513 542 3.945285 ACAAACCAATCAGTCGAACTGTT 59.055 39.130 12.62 0.00 46.03 3.16
514 543 3.541632 ACAAACCAATCAGTCGAACTGT 58.458 40.909 12.62 1.59 46.03 3.55
516 545 3.564225 GGAACAAACCAATCAGTCGAACT 59.436 43.478 0.00 0.00 0.00 3.01
542 571 4.517285 TCGAATTCCAGCAGCTTCTTTAT 58.483 39.130 0.00 0.00 0.00 1.40
543 572 3.935203 CTCGAATTCCAGCAGCTTCTTTA 59.065 43.478 0.00 0.00 0.00 1.85
544 573 2.746362 CTCGAATTCCAGCAGCTTCTTT 59.254 45.455 0.00 0.00 0.00 2.52
545 574 2.027745 TCTCGAATTCCAGCAGCTTCTT 60.028 45.455 0.00 0.00 0.00 2.52
546 575 1.552337 TCTCGAATTCCAGCAGCTTCT 59.448 47.619 0.00 0.00 0.00 2.85
547 576 2.015736 TCTCGAATTCCAGCAGCTTC 57.984 50.000 0.00 0.00 0.00 3.86
548 577 2.479566 TTCTCGAATTCCAGCAGCTT 57.520 45.000 0.00 0.00 0.00 3.74
553 582 3.006247 AGAAGCTTTCTCGAATTCCAGC 58.994 45.455 0.00 0.50 34.07 4.85
584 613 4.440663 CGGCAGAAGATATCAAGACTGTCA 60.441 45.833 10.88 0.00 31.57 3.58
592 621 4.200838 TGTCAACGGCAGAAGATATCAA 57.799 40.909 5.32 0.00 0.00 2.57
607 636 4.379339 TTTTACAAGGCCAGTTGTCAAC 57.621 40.909 13.27 7.68 41.06 3.18
617 646 5.959618 ACAGATAGTGTTTTTACAAGGCC 57.040 39.130 0.00 0.00 34.94 5.19
618 647 7.429636 TGTACAGATAGTGTTTTTACAAGGC 57.570 36.000 0.00 0.00 40.94 4.35
750 811 0.455410 CCTCTGACTCTTGCTCCGAG 59.545 60.000 0.00 0.00 34.70 4.63
751 812 0.038310 TCCTCTGACTCTTGCTCCGA 59.962 55.000 0.00 0.00 0.00 4.55
752 813 0.455410 CTCCTCTGACTCTTGCTCCG 59.545 60.000 0.00 0.00 0.00 4.63
753 814 1.846007 TCTCCTCTGACTCTTGCTCC 58.154 55.000 0.00 0.00 0.00 4.70
754 815 2.560542 TGTTCTCCTCTGACTCTTGCTC 59.439 50.000 0.00 0.00 0.00 4.26
755 816 2.298729 GTGTTCTCCTCTGACTCTTGCT 59.701 50.000 0.00 0.00 0.00 3.91
756 817 2.682836 GTGTTCTCCTCTGACTCTTGC 58.317 52.381 0.00 0.00 0.00 4.01
757 818 2.554462 TCGTGTTCTCCTCTGACTCTTG 59.446 50.000 0.00 0.00 0.00 3.02
758 819 2.817258 CTCGTGTTCTCCTCTGACTCTT 59.183 50.000 0.00 0.00 0.00 2.85
759 820 2.039216 TCTCGTGTTCTCCTCTGACTCT 59.961 50.000 0.00 0.00 0.00 3.24
785 846 3.635373 TGGTCTATGTACGGTCAAGATCC 59.365 47.826 0.00 0.00 0.00 3.36
822 883 2.597510 GGAGTGCTGGGCGGTTTT 60.598 61.111 0.00 0.00 0.00 2.43
836 897 0.672711 GAACGAAAGGGGGAACGGAG 60.673 60.000 0.00 0.00 0.00 4.63
837 898 1.123246 AGAACGAAAGGGGGAACGGA 61.123 55.000 0.00 0.00 0.00 4.69
838 899 0.672711 GAGAACGAAAGGGGGAACGG 60.673 60.000 0.00 0.00 0.00 4.44
840 901 1.296755 GCGAGAACGAAAGGGGGAAC 61.297 60.000 0.00 0.00 42.66 3.62
841 902 1.004200 GCGAGAACGAAAGGGGGAA 60.004 57.895 0.00 0.00 42.66 3.97
842 903 1.550130 ATGCGAGAACGAAAGGGGGA 61.550 55.000 0.00 0.00 42.66 4.81
843 904 1.078426 ATGCGAGAACGAAAGGGGG 60.078 57.895 0.00 0.00 42.66 5.40
845 906 1.002366 CAGATGCGAGAACGAAAGGG 58.998 55.000 0.00 0.00 42.66 3.95
846 907 1.002366 CCAGATGCGAGAACGAAAGG 58.998 55.000 0.00 0.00 42.66 3.11
847 908 1.002366 CCCAGATGCGAGAACGAAAG 58.998 55.000 0.00 0.00 42.66 2.62
848 909 0.606096 TCCCAGATGCGAGAACGAAA 59.394 50.000 0.00 0.00 42.66 3.46
849 910 0.824109 ATCCCAGATGCGAGAACGAA 59.176 50.000 0.00 0.00 42.66 3.85
850 911 0.385751 GATCCCAGATGCGAGAACGA 59.614 55.000 0.00 0.00 42.66 3.85
852 913 0.385751 TCGATCCCAGATGCGAGAAC 59.614 55.000 0.00 0.00 0.00 3.01
854 915 4.579127 TCGATCCCAGATGCGAGA 57.421 55.556 0.00 0.00 0.00 4.04
856 917 1.202770 TCTACTCGATCCCAGATGCGA 60.203 52.381 0.00 0.00 0.00 5.10
873 940 2.615447 ACGGCGAGACGATTATTGTCTA 59.385 45.455 16.62 0.00 46.29 2.59
923 991 3.179830 CGATCTGAACCGAAGACGATTT 58.820 45.455 0.00 0.00 42.66 2.17
987 1071 0.033504 TCTCCATAATCTTCGCCGCC 59.966 55.000 0.00 0.00 0.00 6.13
988 1072 1.140816 GTCTCCATAATCTTCGCCGC 58.859 55.000 0.00 0.00 0.00 6.53
989 1073 1.409412 CGTCTCCATAATCTTCGCCG 58.591 55.000 0.00 0.00 0.00 6.46
1050 1134 1.611673 CGGAAAGTGGAGAAGGTGCAT 60.612 52.381 0.00 0.00 0.00 3.96
1092 1176 4.439901 AAGGGGGAGGGAGAGGCC 62.440 72.222 0.00 0.00 0.00 5.19
1093 1177 2.770475 GAAGGGGGAGGGAGAGGC 60.770 72.222 0.00 0.00 0.00 4.70
1094 1178 2.040359 GGAAGGGGGAGGGAGAGG 60.040 72.222 0.00 0.00 0.00 3.69
1096 1180 4.089757 CGGGAAGGGGGAGGGAGA 62.090 72.222 0.00 0.00 0.00 3.71
1097 1181 4.416601 ACGGGAAGGGGGAGGGAG 62.417 72.222 0.00 0.00 0.00 4.30
1098 1182 4.410033 GACGGGAAGGGGGAGGGA 62.410 72.222 0.00 0.00 0.00 4.20
1100 1184 3.945064 AAGGACGGGAAGGGGGAGG 62.945 68.421 0.00 0.00 0.00 4.30
1101 1185 2.285442 AAGGACGGGAAGGGGGAG 60.285 66.667 0.00 0.00 0.00 4.30
1102 1186 2.109494 TACAAGGACGGGAAGGGGGA 62.109 60.000 0.00 0.00 0.00 4.81
1105 1189 0.824759 CTCTACAAGGACGGGAAGGG 59.175 60.000 0.00 0.00 0.00 3.95
1108 1192 3.709587 AGAATCTCTACAAGGACGGGAA 58.290 45.455 0.00 0.00 0.00 3.97
1111 1195 6.631962 ACTAAAAGAATCTCTACAAGGACGG 58.368 40.000 0.00 0.00 0.00 4.79
1117 1201 8.567948 CAGCCAAAACTAAAAGAATCTCTACAA 58.432 33.333 0.00 0.00 0.00 2.41
1130 1791 5.702670 CAGTCAGAGATCAGCCAAAACTAAA 59.297 40.000 0.00 0.00 0.00 1.85
1133 1794 3.326006 TCAGTCAGAGATCAGCCAAAACT 59.674 43.478 0.00 0.00 0.00 2.66
1138 1799 3.516700 TCAAATCAGTCAGAGATCAGCCA 59.483 43.478 0.00 0.00 0.00 4.75
1140 1801 3.551082 CGTCAAATCAGTCAGAGATCAGC 59.449 47.826 0.00 0.00 0.00 4.26
1256 1924 1.202582 CCTTGACTCCCTACACTCACG 59.797 57.143 0.00 0.00 0.00 4.35
1438 2106 7.362834 CCAGACCAAATATAATCAGTGTTTGCA 60.363 37.037 0.00 0.00 0.00 4.08
1450 2118 9.967451 TTCAGTTTATGTCCAGACCAAATATAA 57.033 29.630 0.00 0.00 0.00 0.98
1454 2122 7.781324 AATTCAGTTTATGTCCAGACCAAAT 57.219 32.000 0.00 0.00 0.00 2.32
1466 2134 9.859427 TGAAGATAGCCAAAAATTCAGTTTATG 57.141 29.630 0.00 0.00 0.00 1.90
1492 2160 1.789751 CGTCTGCAACATCGCACAT 59.210 52.632 0.00 0.00 36.86 3.21
1493 2161 2.953605 GCGTCTGCAACATCGCACA 61.954 57.895 15.72 0.00 46.40 4.57
1559 2227 3.434940 TTTAGCCCTGAAAAGGAGTCC 57.565 47.619 0.00 0.00 0.00 3.85
1622 2290 1.676384 GGCAGCTGGACTCTGAACT 59.324 57.895 17.12 0.00 33.54 3.01
1720 2388 7.651808 ACAATCAATTAAATGGATCGGATCAC 58.348 34.615 18.99 9.39 0.00 3.06
1721 2389 7.822161 ACAATCAATTAAATGGATCGGATCA 57.178 32.000 18.99 6.47 0.00 2.92
1722 2390 8.137437 ACAACAATCAATTAAATGGATCGGATC 58.863 33.333 9.54 9.54 0.00 3.36
1785 2453 0.179137 TGACGAAGCGGCACTGATAG 60.179 55.000 1.45 0.00 41.22 2.08
1845 2513 2.034104 TGATTCAGATGACTGCTGGC 57.966 50.000 0.00 0.00 43.17 4.85
1912 2580 2.497138 TGCCAGAACATGACAAGTCTG 58.503 47.619 0.00 4.14 0.00 3.51
2103 2859 3.707316 ACAGGCCAAATGTTTATGCCTA 58.293 40.909 5.01 0.00 42.35 3.93
2267 3026 8.585018 GGGTTGAATGGAGAAATAGAAAAGAAA 58.415 33.333 0.00 0.00 0.00 2.52
2269 3028 7.237982 TGGGTTGAATGGAGAAATAGAAAAGA 58.762 34.615 0.00 0.00 0.00 2.52
2483 3249 4.568072 ACTCCCTGCACAATGTAATGTA 57.432 40.909 0.00 0.00 30.84 2.29
2570 3337 5.687166 AATATAAGTTGACCACGAGGGAA 57.313 39.130 3.29 0.00 41.15 3.97
2622 3389 9.030452 TGTAGGACCAAACATTTATAAGCAAAT 57.970 29.630 0.00 0.00 0.00 2.32
2651 3418 5.752955 ACTTTACATCACAAATGTTGTTGCC 59.247 36.000 0.00 0.00 43.23 4.52
2665 3433 4.062293 GGTGTGCTGTGTACTTTACATCA 58.938 43.478 0.00 0.00 41.34 3.07
2675 3443 0.038021 ATGCATGGGTGTGCTGTGTA 59.962 50.000 0.00 0.00 45.27 2.90
2676 3444 1.228644 ATGCATGGGTGTGCTGTGT 60.229 52.632 0.00 0.00 45.27 3.72
2799 3567 3.303990 CGCACATACAGAAGCAACAGTTT 60.304 43.478 0.00 0.00 0.00 2.66
2842 3610 9.810545 CAAAGTGGTTCTTAATTGTAGGAAAAA 57.189 29.630 0.00 0.00 35.02 1.94
2843 3611 7.923878 GCAAAGTGGTTCTTAATTGTAGGAAAA 59.076 33.333 0.00 0.00 35.02 2.29
2844 3612 7.068839 TGCAAAGTGGTTCTTAATTGTAGGAAA 59.931 33.333 0.00 0.00 35.02 3.13
2845 3613 6.547880 TGCAAAGTGGTTCTTAATTGTAGGAA 59.452 34.615 0.00 0.00 35.02 3.36
2846 3614 6.016610 GTGCAAAGTGGTTCTTAATTGTAGGA 60.017 38.462 0.00 0.00 35.02 2.94
2847 3615 6.149633 GTGCAAAGTGGTTCTTAATTGTAGG 58.850 40.000 0.00 0.00 35.02 3.18
2848 3616 5.851177 CGTGCAAAGTGGTTCTTAATTGTAG 59.149 40.000 0.00 0.00 35.02 2.74
2849 3617 5.753744 CGTGCAAAGTGGTTCTTAATTGTA 58.246 37.500 0.00 0.00 35.02 2.41
2863 3631 2.798976 ATCATGTTTGCGTGCAAAGT 57.201 40.000 19.45 9.37 45.16 2.66
2910 3757 4.970662 ATAAAGCATGTGCACCACTAAG 57.029 40.909 15.69 0.00 45.16 2.18
2974 3823 4.824479 TCAGTAGATGGTGATTTGCTCA 57.176 40.909 0.00 0.00 0.00 4.26
3071 3920 2.823196 TGCGTTGAATATTTGCTCCG 57.177 45.000 0.00 0.00 0.00 4.63
3124 3973 8.472413 CCATCCATTCAATGATAAAACTGTCTT 58.528 33.333 0.00 0.00 0.00 3.01
3170 4019 7.223584 TCAACTTCAGGAACTCAATGATGTAA 58.776 34.615 0.00 0.00 34.60 2.41
3333 4182 4.687901 AACCTTTTCCTTTTGTCCATGG 57.312 40.909 4.97 4.97 0.00 3.66
3426 4275 9.686683 AGGCTTTTATTCTGTCACAACTTATAT 57.313 29.630 0.00 0.00 0.00 0.86
3598 4447 9.979578 AAGTAATCTAGAGCAATCATTCTACAG 57.020 33.333 0.00 0.00 0.00 2.74
3599 4448 9.973450 GAAGTAATCTAGAGCAATCATTCTACA 57.027 33.333 0.00 0.00 0.00 2.74
3600 4449 9.123709 CGAAGTAATCTAGAGCAATCATTCTAC 57.876 37.037 0.00 0.00 0.00 2.59
3669 4657 6.953520 TCAAGGTTTATCAATCCCATCACTTT 59.046 34.615 0.00 0.00 0.00 2.66
3670 4658 6.493166 TCAAGGTTTATCAATCCCATCACTT 58.507 36.000 0.00 0.00 0.00 3.16
3672 4660 6.547141 TCATCAAGGTTTATCAATCCCATCAC 59.453 38.462 0.00 0.00 0.00 3.06
3673 4661 6.671605 TCATCAAGGTTTATCAATCCCATCA 58.328 36.000 0.00 0.00 0.00 3.07
3675 4663 7.128077 AGTTCATCAAGGTTTATCAATCCCAT 58.872 34.615 0.00 0.00 0.00 4.00
3676 4664 6.493166 AGTTCATCAAGGTTTATCAATCCCA 58.507 36.000 0.00 0.00 0.00 4.37
3677 4665 7.410120 AAGTTCATCAAGGTTTATCAATCCC 57.590 36.000 0.00 0.00 0.00 3.85
3678 4666 9.710900 AAAAAGTTCATCAAGGTTTATCAATCC 57.289 29.630 0.00 0.00 0.00 3.01
3681 4669 9.748708 CTCAAAAAGTTCATCAAGGTTTATCAA 57.251 29.630 0.00 0.00 0.00 2.57
3682 4670 7.867403 GCTCAAAAAGTTCATCAAGGTTTATCA 59.133 33.333 0.00 0.00 0.00 2.15
3683 4671 7.867403 TGCTCAAAAAGTTCATCAAGGTTTATC 59.133 33.333 0.00 0.00 0.00 1.75
3684 4672 7.725251 TGCTCAAAAAGTTCATCAAGGTTTAT 58.275 30.769 0.00 0.00 0.00 1.40
3685 4673 7.106439 TGCTCAAAAAGTTCATCAAGGTTTA 57.894 32.000 0.00 0.00 0.00 2.01
3690 4679 4.553323 CCCTGCTCAAAAAGTTCATCAAG 58.447 43.478 0.00 0.00 0.00 3.02
3819 4808 3.066814 GCCAGCAGAAAGGCCCAG 61.067 66.667 0.00 0.00 45.18 4.45
3837 4826 1.125633 GGCACGTCTAAATAGGGGGA 58.874 55.000 0.00 0.00 0.00 4.81
3838 4827 3.700198 GGCACGTCTAAATAGGGGG 57.300 57.895 0.00 0.00 0.00 5.40
3927 5065 5.771666 GGGGAATACATGATGATGTTGTGAT 59.228 40.000 2.27 0.00 40.05 3.06
3928 5066 5.132502 GGGGAATACATGATGATGTTGTGA 58.867 41.667 2.27 0.00 40.05 3.58
3929 5067 4.023792 CGGGGAATACATGATGATGTTGTG 60.024 45.833 2.27 0.00 40.05 3.33
3930 5068 4.136796 CGGGGAATACATGATGATGTTGT 58.863 43.478 2.27 0.00 40.05 3.32
3931 5069 3.058016 GCGGGGAATACATGATGATGTTG 60.058 47.826 2.27 0.00 40.05 3.33
3932 5070 3.149196 GCGGGGAATACATGATGATGTT 58.851 45.455 2.27 0.00 40.05 2.71
3933 5071 2.106338 TGCGGGGAATACATGATGATGT 59.894 45.455 2.61 2.61 45.24 3.06
3934 5072 2.781923 TGCGGGGAATACATGATGATG 58.218 47.619 0.00 0.00 35.49 3.07
3935 5073 3.507162 TTGCGGGGAATACATGATGAT 57.493 42.857 0.00 0.00 0.00 2.45
3936 5074 3.289407 TTTGCGGGGAATACATGATGA 57.711 42.857 0.00 0.00 0.00 2.92
3937 5075 4.383850 TTTTTGCGGGGAATACATGATG 57.616 40.909 0.00 0.00 0.00 3.07
3967 5105 9.358406 TGAGATTCCAGCATTAATACATGATTT 57.642 29.630 0.00 0.00 0.00 2.17
3968 5106 8.790718 GTGAGATTCCAGCATTAATACATGATT 58.209 33.333 0.00 0.00 0.00 2.57
4011 5149 5.437060 TGGGCAGAATAACTTATTCAGGAC 58.563 41.667 19.35 14.05 45.41 3.85
4070 5208 3.432890 GGATCTGGGGAAGAAGTCATGAC 60.433 52.174 18.47 18.47 38.79 3.06
4098 5244 8.328014 GGCACTAGGGAGTAGTATTAGTAGTAT 58.672 40.741 0.00 0.00 40.27 2.12
4119 5265 5.304101 TCATTTACTTTTCAACATGGGCACT 59.696 36.000 0.00 0.00 0.00 4.40
4201 5378 2.076100 CAAGCAAAGTACCATCTCGCA 58.924 47.619 0.00 0.00 0.00 5.10
4218 5395 1.493311 GCTTCCTCGCGTTCACAAG 59.507 57.895 5.77 3.95 0.00 3.16
4250 6549 9.696917 CTTTTCATATAGCAATACAAATTCCCC 57.303 33.333 0.00 0.00 0.00 4.81
4314 6619 7.495901 TCTAAGCAAAAACCATTTCAATCACA 58.504 30.769 0.00 0.00 0.00 3.58
4333 6638 0.179124 CGACTCAGCCACCTCTAAGC 60.179 60.000 0.00 0.00 0.00 3.09
4345 6650 9.210426 GTATAATGCAAAACAAATACGACTCAG 57.790 33.333 0.00 0.00 0.00 3.35
4377 6688 3.072184 ACCCTTCTAATCCATGCAGCTAG 59.928 47.826 0.00 0.00 0.00 3.42
4378 6689 3.048600 ACCCTTCTAATCCATGCAGCTA 58.951 45.455 0.00 0.00 0.00 3.32
4379 6690 1.849039 ACCCTTCTAATCCATGCAGCT 59.151 47.619 0.00 0.00 0.00 4.24
4387 6698 9.847224 TGAAAGAATAATACACCCTTCTAATCC 57.153 33.333 0.00 0.00 0.00 3.01
4393 6704 5.501897 CGCGTGAAAGAATAATACACCCTTC 60.502 44.000 0.00 0.00 0.00 3.46
4397 6708 3.308866 AGCGCGTGAAAGAATAATACACC 59.691 43.478 8.43 0.00 0.00 4.16
4408 6719 1.133253 CATGGACAGCGCGTGAAAG 59.867 57.895 8.43 0.00 0.00 2.62
4472 6783 1.474478 TGACGAGCTCTGACTTCATCC 59.526 52.381 12.85 0.00 0.00 3.51
4523 6834 2.456119 CGGCGCGCTGAAAAGATCT 61.456 57.895 35.90 0.00 0.00 2.75
4591 6902 2.179517 CTGCGTCCGGTCAGAGAC 59.820 66.667 13.29 0.00 32.26 3.36
4619 6930 1.751351 TGGTCGCTATCCTCAACAGAG 59.249 52.381 0.00 0.00 0.00 3.35
4682 6993 4.829968 CTGCTATCCAGTTCTATCCATGG 58.170 47.826 4.97 4.97 36.79 3.66
4703 7014 7.463961 TTTTTACTAGACTGGAAGATCGACT 57.536 36.000 0.00 0.00 37.43 4.18
4711 7022 7.177216 TCGGTGACTATTTTTACTAGACTGGAA 59.823 37.037 0.00 0.00 0.00 3.53
4712 7023 6.660521 TCGGTGACTATTTTTACTAGACTGGA 59.339 38.462 0.00 0.00 0.00 3.86
4713 7024 6.860080 TCGGTGACTATTTTTACTAGACTGG 58.140 40.000 0.00 0.00 0.00 4.00
4715 7026 8.362639 TGTTTCGGTGACTATTTTTACTAGACT 58.637 33.333 0.00 0.00 0.00 3.24
4716 7027 8.524870 TGTTTCGGTGACTATTTTTACTAGAC 57.475 34.615 0.00 0.00 0.00 2.59
4717 7028 9.545105 TTTGTTTCGGTGACTATTTTTACTAGA 57.455 29.630 0.00 0.00 0.00 2.43
4719 7030 9.934190 GTTTTGTTTCGGTGACTATTTTTACTA 57.066 29.630 0.00 0.00 0.00 1.82
4761 7072 1.481819 GCAACGCTTTTGTGTGCCTG 61.482 55.000 0.00 0.00 43.14 4.85
4762 7073 1.226945 GCAACGCTTTTGTGTGCCT 60.227 52.632 0.00 0.00 43.14 4.75
4763 7074 1.226945 AGCAACGCTTTTGTGTGCC 60.227 52.632 0.00 0.00 43.14 5.01
4774 7085 1.070643 GTGCATTTTGGAAAGCAACGC 60.071 47.619 0.00 0.00 40.68 4.84
4775 7086 1.526464 GGTGCATTTTGGAAAGCAACG 59.474 47.619 0.00 0.00 40.68 4.10


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

AutoCloner maintained by Alex Coulton.