Multiple sequence alignment - TraesCS6B01G356500

Loading Multiple Alignment...

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 TraesCS6B01G356500 chr6B 100.000 2715 0 0 1 2715 624804565 624801851 0.000000e+00 5014
1 TraesCS6B01G356500 chr6B 86.408 515 58 8 1 510 624833997 624833490 1.100000e-153 553
2 TraesCS6B01G356500 chr6B 86.408 515 58 8 1 510 624868246 624867739 1.100000e-153 553
3 TraesCS6B01G356500 chr6B 88.283 367 25 6 170 520 624844425 624844061 8.990000e-115 424
4 TraesCS6B01G356500 chr6B 83.239 352 53 2 1313 1658 624883125 624882774 4.360000e-83 318
5 TraesCS6B01G356500 chr6B 82.833 233 14 12 689 911 624883610 624883394 4.620000e-43 185
6 TraesCS6B01G356500 chr6D 92.908 1269 54 11 1046 2283 414482511 414481248 0.000000e+00 1812
7 TraesCS6B01G356500 chr6D 89.564 527 23 12 488 1014 414483131 414482637 8.200000e-180 640
8 TraesCS6B01G356500 chr6D 85.608 403 30 16 508 894 414541494 414541104 5.450000e-107 398
9 TraesCS6B01G356500 chr6D 80.825 485 58 12 1121 1586 414541007 414540539 5.560000e-92 348
10 TraesCS6B01G356500 chr6D 89.630 135 5 5 2582 2715 414481056 414480930 2.160000e-36 163
11 TraesCS6B01G356500 chr6A 90.877 1140 51 17 1059 2175 559429166 559428057 0.000000e+00 1480
12 TraesCS6B01G356500 chr6A 80.616 552 73 14 1124 1656 559463008 559462472 1.960000e-106 396
13 TraesCS6B01G356500 chr6A 87.079 356 20 11 679 1021 559433440 559433098 1.970000e-101 379
14 TraesCS6B01G356500 chr6A 79.545 572 81 17 1105 1656 559447999 559447444 2.550000e-100 375
15 TraesCS6B01G356500 chr6A 78.990 614 77 17 1062 1640 559432992 559432396 3.300000e-99 372
16 TraesCS6B01G356500 chr6A 84.673 398 29 10 514 894 559448462 559448080 4.270000e-98 368
17 TraesCS6B01G356500 chr6A 80.894 492 72 9 1105 1586 559478256 559477777 4.270000e-98 368
18 TraesCS6B01G356500 chr6A 84.069 408 32 11 504 894 559463499 559463108 1.990000e-96 363
19 TraesCS6B01G356500 chr6A 84.069 408 32 11 504 894 559478728 559478337 1.990000e-96 363
20 TraesCS6B01G356500 chr6A 79.554 538 80 14 1105 1628 559493591 559493070 9.240000e-95 357
21 TraesCS6B01G356500 chr6A 88.732 213 21 1 1 213 559429963 559429754 9.650000e-65 257
22 TraesCS6B01G356500 chr6A 82.520 246 26 7 643 887 559451358 559451129 1.650000e-47 200
23 TraesCS6B01G356500 chr6A 92.593 135 4 3 2582 2715 559427651 559427522 3.570000e-44 189
24 TraesCS6B01G356500 chr6A 83.178 214 24 3 643 856 559482063 559481862 4.620000e-43 185
25 TraesCS6B01G356500 chr6A 91.803 122 8 2 1051 1170 559481546 559481425 4.650000e-38 169
26 TraesCS6B01G356500 chr6A 87.313 134 8 3 1051 1175 559450841 559450708 7.830000e-31 145
27 TraesCS6B01G356500 chr6A 85.821 134 10 3 1051 1175 559466325 559466192 1.700000e-27 134
28 TraesCS6B01G356500 chr7B 96.970 165 5 0 2344 2508 675384644 675384808 7.400000e-71 278
29 TraesCS6B01G356500 chr2A 96.429 168 5 1 2345 2511 158458644 158458811 2.660000e-70 276
30 TraesCS6B01G356500 chr4B 95.349 172 7 1 2342 2512 551080082 551079911 3.440000e-69 272
31 TraesCS6B01G356500 chr2D 93.443 183 9 3 2341 2520 348190634 348190816 4.460000e-68 268
32 TraesCS6B01G356500 chr2D 91.282 195 14 3 2317 2508 309971389 309971583 2.070000e-66 263
33 TraesCS6B01G356500 chr2B 92.188 192 10 4 2323 2509 338767041 338766850 1.600000e-67 267
34 TraesCS6B01G356500 chr7D 92.896 183 11 2 2328 2509 192936004 192936185 5.760000e-67 265
35 TraesCS6B01G356500 chr4A 91.667 192 15 1 2337 2527 550084400 550084591 5.760000e-67 265
36 TraesCS6B01G356500 chr1D 93.642 173 10 1 2340 2511 121437332 121437160 9.650000e-65 257


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 TraesCS6B01G356500 chr6B 624801851 624804565 2714 True 5014.000000 5014 100.000000 1 2715 1 chr6B.!!$R1 2714
1 TraesCS6B01G356500 chr6B 624833490 624833997 507 True 553.000000 553 86.408000 1 510 1 chr6B.!!$R2 509
2 TraesCS6B01G356500 chr6B 624867739 624868246 507 True 553.000000 553 86.408000 1 510 1 chr6B.!!$R4 509
3 TraesCS6B01G356500 chr6B 624882774 624883610 836 True 251.500000 318 83.036000 689 1658 2 chr6B.!!$R5 969
4 TraesCS6B01G356500 chr6D 414480930 414483131 2201 True 871.666667 1812 90.700667 488 2715 3 chr6D.!!$R1 2227
5 TraesCS6B01G356500 chr6D 414540539 414541494 955 True 373.000000 398 83.216500 508 1586 2 chr6D.!!$R2 1078
6 TraesCS6B01G356500 chr6A 559427522 559433440 5918 True 535.400000 1480 87.654200 1 2715 5 chr6A.!!$R2 2714
7 TraesCS6B01G356500 chr6A 559493070 559493591 521 True 357.000000 357 79.554000 1105 1628 1 chr6A.!!$R1 523
8 TraesCS6B01G356500 chr6A 559462472 559466325 3853 True 297.666667 396 83.502000 504 1656 3 chr6A.!!$R4 1152
9 TraesCS6B01G356500 chr6A 559447444 559451358 3914 True 272.000000 375 83.512750 514 1656 4 chr6A.!!$R3 1142
10 TraesCS6B01G356500 chr6A 559477777 559482063 4286 True 271.250000 368 84.986000 504 1586 4 chr6A.!!$R5 1082

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
218 220 0.036294 AGTAACTCAAAGCCGAGGCC 60.036 55.0 10.95 0.00 43.17 5.19 F
594 3454 0.040157 GTGCATGCATTCACGTGTGT 60.040 50.0 25.64 2.29 0.00 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1071 4085 0.174389 GAGCTGCGAGGAGATCAACA 59.826 55.0 5.03 0.0 0.0 3.33 R
2538 9707 0.105039 TTGCGCCCCAAAACGAAATT 59.895 45.0 4.18 0.0 0.0 1.82 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
27 28 2.092914 ACCAGGCAAGTAGATTACAGGC 60.093 50.000 0.00 0.00 33.73 4.85
86 87 6.151663 GTTCTCTAGTCAGAACCTAATCCC 57.848 45.833 11.53 0.00 44.56 3.85
90 91 5.838955 TCTAGTCAGAACCTAATCCCTGAA 58.161 41.667 0.00 0.00 37.40 3.02
124 126 2.621998 ACACGATAATGTACTCCCTCCG 59.378 50.000 0.00 0.00 0.00 4.63
126 128 2.621998 ACGATAATGTACTCCCTCCGTG 59.378 50.000 0.00 0.00 0.00 4.94
140 142 2.028203 CCTCCGTGGGAAAATGCAAAAT 60.028 45.455 0.00 0.00 0.00 1.82
142 144 4.141959 CCTCCGTGGGAAAATGCAAAATAT 60.142 41.667 0.00 0.00 0.00 1.28
143 145 5.413309 TCCGTGGGAAAATGCAAAATATT 57.587 34.783 0.00 0.00 0.00 1.28
144 146 5.799213 TCCGTGGGAAAATGCAAAATATTT 58.201 33.333 0.00 0.00 0.00 1.40
151 153 9.579932 TGGGAAAATGCAAAATATTTTAGGTTT 57.420 25.926 12.98 10.67 37.73 3.27
218 220 0.036294 AGTAACTCAAAGCCGAGGCC 60.036 55.000 10.95 0.00 43.17 5.19
224 226 2.125106 AAAGCCGAGGCCGCTAAG 60.125 61.111 10.95 0.00 43.17 2.18
234 236 3.275999 GAGGCCGCTAAGGTGAAATAAA 58.724 45.455 0.00 0.00 43.70 1.40
250 252 7.115553 GTGAAATAAATAACCGTCTCGCTAAC 58.884 38.462 0.00 0.00 0.00 2.34
256 258 1.352404 CCGTCTCGCTAACTCTCGG 59.648 63.158 0.00 0.00 0.00 4.63
268 270 5.294799 CGCTAACTCTCGGTATGCTATATCT 59.705 44.000 0.00 0.00 0.00 1.98
276 278 4.273724 TCGGTATGCTATATCTGCGAGATC 59.726 45.833 2.47 0.00 36.20 2.75
363 368 9.097257 CCTGACTGAGAATTTCTTAAATCTCTC 57.903 37.037 0.00 12.56 36.57 3.20
366 371 8.925161 ACTGAGAATTTCTTAAATCTCTCTCG 57.075 34.615 0.00 12.77 36.07 4.04
368 373 9.748708 CTGAGAATTTCTTAAATCTCTCTCGAT 57.251 33.333 0.00 0.00 36.07 3.59
409 414 3.837213 ACCGAATTGATGCAAGTCAAG 57.163 42.857 8.59 0.00 41.05 3.02
440 445 0.881796 GCTACCTGCCTGACCAAAAC 59.118 55.000 0.00 0.00 35.15 2.43
442 447 0.887387 TACCTGCCTGACCAAAACGC 60.887 55.000 0.00 0.00 0.00 4.84
444 449 1.283793 CTGCCTGACCAAAACGCTG 59.716 57.895 0.00 0.00 0.00 5.18
513 518 1.111277 GAGTTTGGGGTGTGTGCTTT 58.889 50.000 0.00 0.00 0.00 3.51
515 520 2.890945 GAGTTTGGGGTGTGTGCTTTAT 59.109 45.455 0.00 0.00 0.00 1.40
517 522 3.709141 AGTTTGGGGTGTGTGCTTTATTT 59.291 39.130 0.00 0.00 0.00 1.40
530 3385 7.173218 TGTGTGCTTTATTTTTGTTTGTGGAAA 59.827 29.630 0.00 0.00 0.00 3.13
594 3454 0.040157 GTGCATGCATTCACGTGTGT 60.040 50.000 25.64 2.29 0.00 3.72
596 3456 1.339235 GCATGCATTCACGTGTGTGC 61.339 55.000 28.36 28.36 46.01 4.57
597 3457 0.730155 CATGCATTCACGTGTGTGCC 60.730 55.000 30.27 19.42 46.01 5.01
650 3522 4.065088 TGTCTGTACATCCAGTTGAAAGC 58.935 43.478 0.00 0.00 34.02 3.51
675 3547 3.058160 GTGCACGCAGCTTCCCAT 61.058 61.111 0.00 0.00 45.94 4.00
676 3548 3.057548 TGCACGCAGCTTCCCATG 61.058 61.111 2.02 0.00 45.94 3.66
677 3549 3.818787 GCACGCAGCTTCCCATGG 61.819 66.667 4.14 4.14 41.15 3.66
718 3597 1.658717 GATCGTCTCATCACCGGCG 60.659 63.158 0.00 0.00 0.00 6.46
719 3598 3.774959 ATCGTCTCATCACCGGCGC 62.775 63.158 0.00 0.00 0.00 6.53
818 3715 2.166664 CTCGCTCTACTTAAACAGCCCT 59.833 50.000 0.00 0.00 0.00 5.19
822 3719 3.197116 GCTCTACTTAAACAGCCCTACCA 59.803 47.826 0.00 0.00 0.00 3.25
823 3720 4.756502 CTCTACTTAAACAGCCCTACCAC 58.243 47.826 0.00 0.00 0.00 4.16
824 3721 2.873094 ACTTAAACAGCCCTACCACC 57.127 50.000 0.00 0.00 0.00 4.61
835 3740 2.203728 TACCACCCACCGTGAGCT 60.204 61.111 0.00 0.00 46.20 4.09
903 3812 1.929836 CAAGACCAAGCTATCTGACGC 59.070 52.381 0.00 0.00 0.00 5.19
909 3818 1.064803 CAAGCTATCTGACGCTCGTCT 59.935 52.381 20.92 6.03 44.80 4.18
910 3819 0.941542 AGCTATCTGACGCTCGTCTC 59.058 55.000 20.92 0.00 44.80 3.36
912 3821 0.589223 CTATCTGACGCTCGTCTCCC 59.411 60.000 20.92 0.00 44.80 4.30
913 3822 0.818445 TATCTGACGCTCGTCTCCCC 60.818 60.000 20.92 0.00 44.80 4.81
914 3823 3.827898 CTGACGCTCGTCTCCCCC 61.828 72.222 20.92 0.00 44.80 5.40
915 3824 4.671590 TGACGCTCGTCTCCCCCA 62.672 66.667 20.92 0.11 44.80 4.96
916 3825 3.379445 GACGCTCGTCTCCCCCAA 61.379 66.667 14.42 0.00 41.57 4.12
917 3826 3.358076 GACGCTCGTCTCCCCCAAG 62.358 68.421 14.42 0.00 41.57 3.61
918 3827 4.148825 CGCTCGTCTCCCCCAAGG 62.149 72.222 0.00 0.00 0.00 3.61
963 3872 0.900647 AAGGTGAGTCTCCTCCCACG 60.901 60.000 14.04 0.00 36.86 4.94
1016 3925 3.741344 CAGTCAATCGTTTCTTTCTCCGT 59.259 43.478 0.00 0.00 0.00 4.69
1021 3930 1.000506 TCGTTTCTTTCTCCGTCCCTG 59.999 52.381 0.00 0.00 0.00 4.45
1023 3932 0.320421 TTTCTTTCTCCGTCCCTGCG 60.320 55.000 0.00 0.00 0.00 5.18
1025 3934 1.004918 CTTTCTCCGTCCCTGCGTT 60.005 57.895 0.00 0.00 0.00 4.84
1026 3935 1.291877 CTTTCTCCGTCCCTGCGTTG 61.292 60.000 0.00 0.00 0.00 4.10
1044 4058 3.362986 CGTTGTTGTTGTTGATCTCCTCG 60.363 47.826 0.00 0.00 0.00 4.63
1045 4059 2.143122 TGTTGTTGTTGATCTCCTCGC 58.857 47.619 0.00 0.00 0.00 5.03
1046 4060 2.143122 GTTGTTGTTGATCTCCTCGCA 58.857 47.619 0.00 0.00 0.00 5.10
1047 4061 2.084610 TGTTGTTGATCTCCTCGCAG 57.915 50.000 0.00 0.00 0.00 5.18
1048 4062 1.338105 TGTTGTTGATCTCCTCGCAGG 60.338 52.381 0.00 0.00 36.46 4.85
1049 4063 0.391661 TTGTTGATCTCCTCGCAGGC 60.392 55.000 0.00 0.00 34.61 4.85
1061 4075 1.852942 TCGCAGGCGAATCATCTAAC 58.147 50.000 14.68 0.00 46.01 2.34
1063 4077 1.539065 CGCAGGCGAATCATCTAACCT 60.539 52.381 8.15 0.00 42.83 3.50
1064 4078 1.869767 GCAGGCGAATCATCTAACCTG 59.130 52.381 0.00 0.00 45.98 4.00
1065 4079 1.869767 CAGGCGAATCATCTAACCTGC 59.130 52.381 0.00 0.00 38.38 4.85
1066 4080 0.861837 GGCGAATCATCTAACCTGCG 59.138 55.000 0.00 0.00 0.00 5.18
1067 4081 1.571919 GCGAATCATCTAACCTGCGT 58.428 50.000 0.00 0.00 0.00 5.24
1068 4082 1.933853 GCGAATCATCTAACCTGCGTT 59.066 47.619 0.00 0.00 35.90 4.84
1069 4083 2.285834 GCGAATCATCTAACCTGCGTTG 60.286 50.000 0.00 0.00 33.17 4.10
1070 4084 2.930040 CGAATCATCTAACCTGCGTTGT 59.070 45.455 0.00 0.00 33.17 3.32
1071 4085 3.370978 CGAATCATCTAACCTGCGTTGTT 59.629 43.478 0.00 0.00 33.17 2.83
1072 4086 4.651994 GAATCATCTAACCTGCGTTGTTG 58.348 43.478 0.00 0.00 33.17 3.33
1073 4087 3.120321 TCATCTAACCTGCGTTGTTGT 57.880 42.857 0.00 0.00 33.17 3.32
1074 4088 3.472652 TCATCTAACCTGCGTTGTTGTT 58.527 40.909 0.00 0.00 33.17 2.83
1075 4089 3.249799 TCATCTAACCTGCGTTGTTGTTG 59.750 43.478 0.00 0.00 33.17 3.33
1076 4090 2.907634 TCTAACCTGCGTTGTTGTTGA 58.092 42.857 0.00 0.00 33.17 3.18
1077 4091 3.472652 TCTAACCTGCGTTGTTGTTGAT 58.527 40.909 0.00 0.00 33.17 2.57
1078 4092 2.774439 AACCTGCGTTGTTGTTGATC 57.226 45.000 0.00 0.00 0.00 2.92
1079 4093 1.967319 ACCTGCGTTGTTGTTGATCT 58.033 45.000 0.00 0.00 0.00 2.75
1080 4094 1.873591 ACCTGCGTTGTTGTTGATCTC 59.126 47.619 0.00 0.00 0.00 2.75
1081 4095 1.197721 CCTGCGTTGTTGTTGATCTCC 59.802 52.381 0.00 0.00 0.00 3.71
1082 4096 2.146342 CTGCGTTGTTGTTGATCTCCT 58.854 47.619 0.00 0.00 0.00 3.69
1083 4097 2.143122 TGCGTTGTTGTTGATCTCCTC 58.857 47.619 0.00 0.00 0.00 3.71
1084 4098 1.126846 GCGTTGTTGTTGATCTCCTCG 59.873 52.381 0.00 0.00 0.00 4.63
1085 4099 1.126846 CGTTGTTGTTGATCTCCTCGC 59.873 52.381 0.00 0.00 0.00 5.03
1093 4107 1.067250 GATCTCCTCGCAGCTCCAC 59.933 63.158 0.00 0.00 0.00 4.02
1103 4117 1.077930 CAGCTCCACCCACCATGAG 60.078 63.158 0.00 0.00 0.00 2.90
1105 4119 2.300967 GCTCCACCCACCATGAGGA 61.301 63.158 5.80 0.00 38.69 3.71
1106 4120 1.604378 CTCCACCCACCATGAGGAC 59.396 63.158 5.80 0.00 38.69 3.85
1107 4121 0.911525 CTCCACCCACCATGAGGACT 60.912 60.000 5.80 0.00 38.69 3.85
1108 4122 1.200760 TCCACCCACCATGAGGACTG 61.201 60.000 5.80 1.67 38.69 3.51
1360 8224 4.363990 CGCTGCGTCAGGGTGACT 62.364 66.667 14.93 0.00 44.85 3.41
1589 8456 2.582498 GGATCTGCGTCGGGTTCG 60.582 66.667 0.00 0.00 37.82 3.95
1736 8618 7.114388 GTGTGAATCGATTTCGTAGTATGCATA 59.886 37.037 12.81 1.16 40.80 3.14
1737 8619 7.812669 TGTGAATCGATTTCGTAGTATGCATAT 59.187 33.333 12.81 2.05 40.80 1.78
1738 8620 8.104530 GTGAATCGATTTCGTAGTATGCATATG 58.895 37.037 12.81 0.00 40.80 1.78
1850 8732 9.561069 AGTTACTCTATTTGGGCTGTATAATTG 57.439 33.333 0.00 0.00 0.00 2.32
1883 8765 5.512060 CCTGGTCAGTATTGGATGTATGAGG 60.512 48.000 0.00 0.00 0.00 3.86
1925 8807 5.643664 TGCATGTTGTTTATGAAGAGATGC 58.356 37.500 0.00 0.00 35.37 3.91
1926 8808 5.416639 TGCATGTTGTTTATGAAGAGATGCT 59.583 36.000 13.16 0.00 35.73 3.79
1927 8809 6.071784 TGCATGTTGTTTATGAAGAGATGCTT 60.072 34.615 13.16 0.00 40.25 3.91
1941 8823 7.883391 AAGAGATGCTTCAGATTGATCAATT 57.117 32.000 21.57 9.39 28.17 2.32
1942 8824 8.975663 AAGAGATGCTTCAGATTGATCAATTA 57.024 30.769 21.57 8.43 28.17 1.40
2074 8984 0.737715 CCACGTCTAAGCTGGAGCAC 60.738 60.000 0.65 0.00 45.16 4.40
2084 8994 0.941463 GCTGGAGCACATACGATCGG 60.941 60.000 20.98 4.02 41.59 4.18
2123 9033 1.599171 GCAAGTGCAACGCAATACACA 60.599 47.619 0.00 0.00 45.86 3.72
2162 9072 3.305471 GGCAGATAGAAACGGCTAGTAGG 60.305 52.174 0.00 0.00 0.00 3.18
2184 9137 1.267533 TGCAATGCAAGCACACTACAG 59.732 47.619 5.01 0.00 37.02 2.74
2210 9326 0.036010 CATCTGTTCAACCCGGCTCT 60.036 55.000 0.00 0.00 0.00 4.09
2234 9350 0.677731 TTTGAGAGGCGCATGGAAGG 60.678 55.000 10.83 0.00 0.00 3.46
2235 9351 2.203126 GAGAGGCGCATGGAAGGG 60.203 66.667 10.83 0.00 0.00 3.95
2237 9353 4.883354 GAGGCGCATGGAAGGGGG 62.883 72.222 10.83 0.00 0.00 5.40
2239 9355 4.440829 GGCGCATGGAAGGGGGAA 62.441 66.667 10.83 0.00 0.00 3.97
2246 9373 0.786435 ATGGAAGGGGGAAAACAGCT 59.214 50.000 0.00 0.00 0.00 4.24
2287 9414 4.641989 ACACCAGTGATTTTGATCCATAGC 59.358 41.667 4.48 0.00 0.00 2.97
2288 9415 4.641541 CACCAGTGATTTTGATCCATAGCA 59.358 41.667 0.00 0.00 0.00 3.49
2290 9417 4.885907 CCAGTGATTTTGATCCATAGCACT 59.114 41.667 2.92 2.92 35.92 4.40
2291 9418 5.220989 CCAGTGATTTTGATCCATAGCACTG 60.221 44.000 21.08 21.08 46.85 3.66
2292 9419 5.748402 AGTGATTTTGATCCATAGCACTGA 58.252 37.500 7.23 0.00 34.42 3.41
2293 9420 5.587844 AGTGATTTTGATCCATAGCACTGAC 59.412 40.000 7.23 0.00 34.42 3.51
2294 9421 4.883585 TGATTTTGATCCATAGCACTGACC 59.116 41.667 0.00 0.00 0.00 4.02
2310 9474 4.518590 CACTGACCATGTGACAAACCAATA 59.481 41.667 0.00 0.00 37.60 1.90
2311 9475 5.009510 CACTGACCATGTGACAAACCAATAA 59.990 40.000 0.00 0.00 37.60 1.40
2322 9486 7.436673 TGTGACAAACCAATAAAATGCAAGTAC 59.563 33.333 0.00 0.00 0.00 2.73
2324 9488 7.981789 TGACAAACCAATAAAATGCAAGTACAA 59.018 29.630 0.00 0.00 0.00 2.41
2353 9522 7.657023 TTCTTAATTCAGTACTACTCCCTCC 57.343 40.000 0.00 0.00 0.00 4.30
2354 9523 5.826737 TCTTAATTCAGTACTACTCCCTCCG 59.173 44.000 0.00 0.00 0.00 4.63
2355 9524 3.666345 ATTCAGTACTACTCCCTCCGT 57.334 47.619 0.00 0.00 0.00 4.69
2356 9525 3.446442 TTCAGTACTACTCCCTCCGTT 57.554 47.619 0.00 0.00 0.00 4.44
2357 9526 2.996631 TCAGTACTACTCCCTCCGTTC 58.003 52.381 0.00 0.00 0.00 3.95
2358 9527 2.022934 CAGTACTACTCCCTCCGTTCC 58.977 57.143 0.00 0.00 0.00 3.62
2359 9528 1.921748 AGTACTACTCCCTCCGTTCCT 59.078 52.381 0.00 0.00 0.00 3.36
2360 9529 3.118112 CAGTACTACTCCCTCCGTTCCTA 60.118 52.174 0.00 0.00 0.00 2.94
2361 9530 3.525199 AGTACTACTCCCTCCGTTCCTAA 59.475 47.826 0.00 0.00 0.00 2.69
2362 9531 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
2363 9532 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
2364 9533 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
2365 9534 5.713807 ACTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
2366 9535 6.141790 ACTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
2367 9536 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
2368 9537 7.786464 ACTACTCCCTCCGTTCCTAAATATTTA 59.214 37.037 7.66 7.66 0.00 1.40
2369 9538 7.628501 ACTCCCTCCGTTCCTAAATATTTAT 57.371 36.000 8.34 0.00 0.00 1.40
2370 9539 7.677892 ACTCCCTCCGTTCCTAAATATTTATC 58.322 38.462 8.34 0.61 0.00 1.75
2371 9540 7.513091 ACTCCCTCCGTTCCTAAATATTTATCT 59.487 37.037 8.34 0.00 0.00 1.98
2372 9541 8.271398 TCCCTCCGTTCCTAAATATTTATCTT 57.729 34.615 8.34 0.00 0.00 2.40
2373 9542 8.720537 TCCCTCCGTTCCTAAATATTTATCTTT 58.279 33.333 8.34 0.00 0.00 2.52
2374 9543 9.350951 CCCTCCGTTCCTAAATATTTATCTTTT 57.649 33.333 8.34 0.00 0.00 2.27
2395 9564 8.531146 TCTTTTCAGGGATTTCAAATGATTACC 58.469 33.333 0.00 0.00 0.00 2.85
2396 9565 7.789202 TTTCAGGGATTTCAAATGATTACCA 57.211 32.000 0.00 0.00 0.00 3.25
2397 9566 6.773976 TCAGGGATTTCAAATGATTACCAC 57.226 37.500 0.00 0.00 0.00 4.16
2398 9567 5.656416 TCAGGGATTTCAAATGATTACCACC 59.344 40.000 0.00 0.00 0.00 4.61
2399 9568 5.658190 CAGGGATTTCAAATGATTACCACCT 59.342 40.000 0.00 0.00 0.00 4.00
2400 9569 6.833416 CAGGGATTTCAAATGATTACCACCTA 59.167 38.462 0.00 0.00 0.00 3.08
2401 9570 6.833933 AGGGATTTCAAATGATTACCACCTAC 59.166 38.462 0.00 0.00 0.00 3.18
2402 9571 6.238648 GGGATTTCAAATGATTACCACCTACG 60.239 42.308 0.00 0.00 0.00 3.51
2403 9572 6.238648 GGATTTCAAATGATTACCACCTACGG 60.239 42.308 0.00 0.00 0.00 4.02
2404 9573 5.423704 TTCAAATGATTACCACCTACGGA 57.576 39.130 0.00 0.00 0.00 4.69
2405 9574 5.623956 TCAAATGATTACCACCTACGGAT 57.376 39.130 0.00 0.00 0.00 4.18
2406 9575 5.364778 TCAAATGATTACCACCTACGGATG 58.635 41.667 0.00 0.00 0.00 3.51
2407 9576 5.104693 TCAAATGATTACCACCTACGGATGT 60.105 40.000 0.00 0.00 0.00 3.06
2408 9577 6.098552 TCAAATGATTACCACCTACGGATGTA 59.901 38.462 0.00 0.00 0.00 2.29
2409 9578 6.681729 AATGATTACCACCTACGGATGTAT 57.318 37.500 0.00 0.00 0.00 2.29
2410 9579 7.786046 AATGATTACCACCTACGGATGTATA 57.214 36.000 0.00 0.00 0.00 1.47
2411 9580 7.973048 ATGATTACCACCTACGGATGTATAT 57.027 36.000 0.00 0.00 0.00 0.86
2412 9581 9.483489 AATGATTACCACCTACGGATGTATATA 57.517 33.333 0.00 0.00 0.00 0.86
2413 9582 8.515695 TGATTACCACCTACGGATGTATATAG 57.484 38.462 0.00 0.00 0.00 1.31
2414 9583 8.330993 TGATTACCACCTACGGATGTATATAGA 58.669 37.037 0.00 0.00 0.00 1.98
2415 9584 9.352191 GATTACCACCTACGGATGTATATAGAT 57.648 37.037 0.00 0.00 0.00 1.98
2448 9617 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
2449 9618 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
2450 9619 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
2451 9620 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
2452 9621 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
2453 9622 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
2454 9623 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
2455 9624 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
2456 9625 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
2457 9626 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
2458 9627 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
2459 9628 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
2460 9629 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
2461 9630 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
2462 9631 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
2463 9632 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
2464 9633 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
2465 9634 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
2466 9635 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
2467 9636 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
2468 9637 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
2469 9638 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
2470 9639 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
2471 9640 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
2472 9641 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
2473 9642 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
2474 9643 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
2475 9644 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
2476 9645 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
2477 9646 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
2478 9647 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
2479 9648 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
2480 9649 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
2481 9650 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
2482 9651 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
2483 9652 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
2484 9653 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
2485 9654 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
2486 9655 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
2499 9668 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
2500 9669 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
2501 9670 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
2502 9671 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
2503 9672 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
2504 9673 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
2505 9674 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
2506 9675 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
2507 9676 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
2508 9677 6.667558 AATATTTAGGAACGGAGGGAGTAG 57.332 41.667 0.00 0.00 0.00 2.57
2509 9678 3.463048 TTTAGGAACGGAGGGAGTAGT 57.537 47.619 0.00 0.00 0.00 2.73
2510 9679 4.591321 TTTAGGAACGGAGGGAGTAGTA 57.409 45.455 0.00 0.00 0.00 1.82
2511 9680 2.732844 AGGAACGGAGGGAGTAGTAG 57.267 55.000 0.00 0.00 0.00 2.57
2512 9681 1.921748 AGGAACGGAGGGAGTAGTAGT 59.078 52.381 0.00 0.00 0.00 2.73
2513 9682 3.118531 AGGAACGGAGGGAGTAGTAGTA 58.881 50.000 0.00 0.00 0.00 1.82
2514 9683 3.525199 AGGAACGGAGGGAGTAGTAGTAA 59.475 47.826 0.00 0.00 0.00 2.24
2515 9684 4.018050 AGGAACGGAGGGAGTAGTAGTAAA 60.018 45.833 0.00 0.00 0.00 2.01
2518 9687 3.698539 ACGGAGGGAGTAGTAGTAAAAGC 59.301 47.826 0.00 0.00 0.00 3.51
2523 9692 6.070938 GGAGGGAGTAGTAGTAAAAGCTGAAA 60.071 42.308 0.00 0.00 0.00 2.69
2644 9832 9.694520 CAAGATTTATTTCTCACGTTACAGATG 57.305 33.333 0.00 0.00 0.00 2.90
2645 9833 9.436957 AAGATTTATTTCTCACGTTACAGATGT 57.563 29.630 0.00 0.00 0.00 3.06
2687 9875 2.838736 CCGACTGCTTTGCACCTATAT 58.161 47.619 0.00 0.00 33.79 0.86
2688 9876 3.802329 GCCGACTGCTTTGCACCTATATA 60.802 47.826 0.00 0.00 36.87 0.86
2702 9890 3.971971 ACCTATATACAACAGGGTCACCC 59.028 47.826 3.85 3.85 45.90 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 8.370493 ACCATTCATCGACTTATTACTTGATG 57.630 34.615 0.00 0.00 35.66 3.07
78 79 4.073293 ACGTTGCTATTCAGGGATTAGG 57.927 45.455 0.00 0.00 0.00 2.69
107 109 3.662247 CCACGGAGGGAGTACATTATC 57.338 52.381 0.00 0.00 0.00 1.75
124 126 8.560355 ACCTAAAATATTTTGCATTTTCCCAC 57.440 30.769 21.19 0.00 36.99 4.61
176 178 7.046033 ACTCCCCAGTAAACAAATATAAGACG 58.954 38.462 0.00 0.00 0.00 4.18
218 220 6.257193 AGACGGTTATTTATTTCACCTTAGCG 59.743 38.462 0.00 0.00 0.00 4.26
224 226 4.569564 AGCGAGACGGTTATTTATTTCACC 59.430 41.667 0.00 0.00 32.22 4.02
227 229 7.434602 AGAGTTAGCGAGACGGTTATTTATTTC 59.565 37.037 0.63 0.00 38.83 2.17
234 236 2.287373 CGAGAGTTAGCGAGACGGTTAT 59.713 50.000 0.63 0.00 38.83 1.89
250 252 3.623510 TCGCAGATATAGCATACCGAGAG 59.376 47.826 0.00 0.00 0.00 3.20
256 258 7.698628 TGTAAGATCTCGCAGATATAGCATAC 58.301 38.462 0.00 0.00 34.53 2.39
319 324 7.717436 TCAGTCAGGTTACATAACATGTGAAAA 59.283 33.333 14.18 0.00 45.22 2.29
335 340 9.225436 GAGATTTAAGAAATTCTCAGTCAGGTT 57.775 33.333 0.00 0.00 39.93 3.50
337 342 9.097257 GAGAGATTTAAGAAATTCTCAGTCAGG 57.903 37.037 0.00 0.00 41.46 3.86
338 343 9.874205 AGAGAGATTTAAGAAATTCTCAGTCAG 57.126 33.333 17.04 0.00 41.46 3.51
442 447 1.892819 ATGACCGGTGCTCTGTCCAG 61.893 60.000 14.63 0.00 0.00 3.86
444 449 1.153549 GATGACCGGTGCTCTGTCC 60.154 63.158 14.63 0.00 0.00 4.02
477 482 0.900182 CTCCAAAGGCTTCCCCCAAC 60.900 60.000 0.00 0.00 0.00 3.77
483 488 0.969149 CCCAAACTCCAAAGGCTTCC 59.031 55.000 0.00 0.00 0.00 3.46
513 518 7.530863 GGTTTTGCTTTCCACAAACAAAAATA 58.469 30.769 0.00 0.00 36.77 1.40
515 520 5.560953 CGGTTTTGCTTTCCACAAACAAAAA 60.561 36.000 0.00 0.00 36.77 1.94
517 522 3.433615 CGGTTTTGCTTTCCACAAACAAA 59.566 39.130 0.00 0.00 36.77 2.83
530 3385 1.972795 TCCCTACTACACGGTTTTGCT 59.027 47.619 0.00 0.00 0.00 3.91
594 3454 4.648626 GCTCCACACAGGCAGGCA 62.649 66.667 0.00 0.00 37.29 4.75
595 3455 2.959484 TAGCTCCACACAGGCAGGC 61.959 63.158 0.00 0.00 37.29 4.85
596 3456 1.078848 GTAGCTCCACACAGGCAGG 60.079 63.158 0.00 0.00 37.29 4.85
597 3457 0.671781 GTGTAGCTCCACACAGGCAG 60.672 60.000 13.72 0.00 46.55 4.85
720 3599 3.941657 GAGCAGGACAGTGGACCGC 62.942 68.421 0.00 0.00 33.80 5.68
721 3600 2.262915 GAGCAGGACAGTGGACCG 59.737 66.667 0.00 0.00 33.80 4.79
722 3601 2.262915 CGAGCAGGACAGTGGACC 59.737 66.667 0.00 0.00 0.00 4.46
818 3715 0.324923 ATAGCTCACGGTGGGTGGTA 60.325 55.000 10.16 9.79 46.96 3.25
822 3719 1.078426 GCAATAGCTCACGGTGGGT 60.078 57.895 10.16 8.04 37.91 4.51
823 3720 1.819632 GGCAATAGCTCACGGTGGG 60.820 63.158 8.50 5.85 41.70 4.61
824 3721 1.819632 GGGCAATAGCTCACGGTGG 60.820 63.158 8.50 0.26 42.33 4.61
835 3740 1.214305 AGGCAAGGTGGAGGGCAATA 61.214 55.000 0.00 0.00 0.00 1.90
912 3821 2.669240 GGTCGGTCTTCCCTTGGG 59.331 66.667 0.00 0.00 0.00 4.12
913 3822 2.264794 CGGTCGGTCTTCCCTTGG 59.735 66.667 0.00 0.00 0.00 3.61
914 3823 1.080025 GTCGGTCGGTCTTCCCTTG 60.080 63.158 0.00 0.00 0.00 3.61
915 3824 2.281295 GGTCGGTCGGTCTTCCCTT 61.281 63.158 0.00 0.00 0.00 3.95
916 3825 2.679287 GGTCGGTCGGTCTTCCCT 60.679 66.667 0.00 0.00 0.00 4.20
917 3826 2.993264 TGGTCGGTCGGTCTTCCC 60.993 66.667 0.00 0.00 0.00 3.97
918 3827 2.260743 GTGGTCGGTCGGTCTTCC 59.739 66.667 0.00 0.00 0.00 3.46
919 3828 2.126580 CGTGGTCGGTCGGTCTTC 60.127 66.667 0.00 0.00 0.00 2.87
920 3829 2.595463 TCGTGGTCGGTCGGTCTT 60.595 61.111 0.00 0.00 37.69 3.01
921 3830 3.360340 GTCGTGGTCGGTCGGTCT 61.360 66.667 0.00 0.00 37.69 3.85
922 3831 4.410743 GGTCGTGGTCGGTCGGTC 62.411 72.222 0.00 0.00 37.69 4.79
1016 3925 0.453793 CAACAACAACAACGCAGGGA 59.546 50.000 0.00 0.00 0.00 4.20
1021 3930 2.290641 AGGAGATCAACAACAACAACGC 59.709 45.455 0.00 0.00 0.00 4.84
1023 3932 3.607078 GCGAGGAGATCAACAACAACAAC 60.607 47.826 0.00 0.00 0.00 3.32
1025 3934 2.143122 GCGAGGAGATCAACAACAACA 58.857 47.619 0.00 0.00 0.00 3.33
1026 3935 2.143122 TGCGAGGAGATCAACAACAAC 58.857 47.619 0.00 0.00 0.00 3.32
1044 4058 1.869767 CAGGTTAGATGATTCGCCTGC 59.130 52.381 0.00 0.00 35.77 4.85
1045 4059 1.869767 GCAGGTTAGATGATTCGCCTG 59.130 52.381 0.00 0.00 40.68 4.85
1046 4060 1.539065 CGCAGGTTAGATGATTCGCCT 60.539 52.381 0.00 0.00 0.00 5.52
1047 4061 0.861837 CGCAGGTTAGATGATTCGCC 59.138 55.000 0.00 0.00 0.00 5.54
1048 4062 1.571919 ACGCAGGTTAGATGATTCGC 58.428 50.000 0.00 0.00 0.00 4.70
1049 4063 2.930040 ACAACGCAGGTTAGATGATTCG 59.070 45.455 0.00 0.00 33.72 3.34
1052 4066 3.674997 ACAACAACGCAGGTTAGATGAT 58.325 40.909 0.00 0.00 33.72 2.45
1053 4067 3.120321 ACAACAACGCAGGTTAGATGA 57.880 42.857 0.00 0.00 33.72 2.92
1054 4068 3.249799 TCAACAACAACGCAGGTTAGATG 59.750 43.478 0.00 0.00 33.72 2.90
1055 4069 3.472652 TCAACAACAACGCAGGTTAGAT 58.527 40.909 0.00 0.00 33.72 1.98
1056 4070 2.907634 TCAACAACAACGCAGGTTAGA 58.092 42.857 0.00 0.00 33.72 2.10
1057 4071 3.498397 AGATCAACAACAACGCAGGTTAG 59.502 43.478 0.00 0.00 33.72 2.34
1058 4072 3.472652 AGATCAACAACAACGCAGGTTA 58.527 40.909 0.00 0.00 33.72 2.85
1059 4073 2.290641 GAGATCAACAACAACGCAGGTT 59.709 45.455 0.00 0.00 36.63 3.50
1060 4074 1.873591 GAGATCAACAACAACGCAGGT 59.126 47.619 0.00 0.00 0.00 4.00
1061 4075 1.197721 GGAGATCAACAACAACGCAGG 59.802 52.381 0.00 0.00 0.00 4.85
1063 4077 2.143122 GAGGAGATCAACAACAACGCA 58.857 47.619 0.00 0.00 0.00 5.24
1064 4078 1.126846 CGAGGAGATCAACAACAACGC 59.873 52.381 0.00 0.00 0.00 4.84
1065 4079 1.126846 GCGAGGAGATCAACAACAACG 59.873 52.381 0.00 0.00 0.00 4.10
1066 4080 2.143122 TGCGAGGAGATCAACAACAAC 58.857 47.619 0.00 0.00 0.00 3.32
1067 4081 2.416747 CTGCGAGGAGATCAACAACAA 58.583 47.619 0.00 0.00 0.00 2.83
1068 4082 1.941209 GCTGCGAGGAGATCAACAACA 60.941 52.381 0.00 0.00 0.00 3.33
1069 4083 0.723981 GCTGCGAGGAGATCAACAAC 59.276 55.000 0.00 0.00 0.00 3.32
1070 4084 0.610174 AGCTGCGAGGAGATCAACAA 59.390 50.000 0.00 0.00 0.00 2.83
1071 4085 0.174389 GAGCTGCGAGGAGATCAACA 59.826 55.000 5.03 0.00 0.00 3.33
1072 4086 0.529555 GGAGCTGCGAGGAGATCAAC 60.530 60.000 11.64 0.00 29.48 3.18
1073 4087 0.972471 TGGAGCTGCGAGGAGATCAA 60.972 55.000 11.64 0.00 29.48 2.57
1074 4088 1.380380 TGGAGCTGCGAGGAGATCA 60.380 57.895 11.64 0.00 29.48 2.92
1075 4089 1.067250 GTGGAGCTGCGAGGAGATC 59.933 63.158 0.00 1.18 0.00 2.75
1076 4090 2.430610 GGTGGAGCTGCGAGGAGAT 61.431 63.158 0.00 0.00 0.00 2.75
1077 4091 3.071206 GGTGGAGCTGCGAGGAGA 61.071 66.667 0.00 0.00 0.00 3.71
1078 4092 4.154347 GGGTGGAGCTGCGAGGAG 62.154 72.222 0.00 0.00 0.00 3.69
1080 4094 4.767255 GTGGGTGGAGCTGCGAGG 62.767 72.222 0.00 0.00 0.00 4.63
1081 4095 4.767255 GGTGGGTGGAGCTGCGAG 62.767 72.222 0.00 0.00 0.00 5.03
1083 4097 4.415150 ATGGTGGGTGGAGCTGCG 62.415 66.667 0.00 0.00 0.00 5.18
1084 4098 2.753043 CATGGTGGGTGGAGCTGC 60.753 66.667 0.00 0.00 0.00 5.25
1085 4099 1.077930 CTCATGGTGGGTGGAGCTG 60.078 63.158 0.00 0.00 0.00 4.24
1093 4107 2.273449 GGCAGTCCTCATGGTGGG 59.727 66.667 0.00 0.00 34.23 4.61
1204 8064 2.359602 CTGGCTGCAGAGGTGGTG 60.360 66.667 20.43 0.00 0.00 4.17
1374 8238 3.999285 AGAGGGCCCTCCACTCGT 61.999 66.667 42.54 24.33 43.70 4.18
1580 8447 3.119096 GCAGAAGGCGAACCCGAC 61.119 66.667 0.00 0.00 46.21 4.79
1705 8585 5.977725 ACTACGAAATCGATTCACACATAGG 59.022 40.000 11.83 0.00 43.02 2.57
1706 8586 8.630840 CATACTACGAAATCGATTCACACATAG 58.369 37.037 11.83 9.88 43.02 2.23
1736 8618 4.251268 CACATATGGCACTCGATCATCAT 58.749 43.478 7.80 0.00 0.00 2.45
1737 8619 3.070015 ACACATATGGCACTCGATCATCA 59.930 43.478 7.80 0.00 0.00 3.07
1738 8620 3.431233 CACACATATGGCACTCGATCATC 59.569 47.826 7.80 0.00 0.00 2.92
1850 8732 0.691078 TACTGACCAGGATCCAGGCC 60.691 60.000 22.59 12.98 32.52 5.19
1883 8765 5.823209 TGCATGGCATATATAACTGATGC 57.177 39.130 0.00 0.00 44.24 3.91
1978 8885 7.744733 TGGAATGCATATAACTGGTCAATCTA 58.255 34.615 0.00 0.00 0.00 1.98
1986 8893 6.684686 CAAGGAATGGAATGCATATAACTGG 58.315 40.000 0.00 0.00 0.00 4.00
2074 8984 1.821241 CTTGCACGGCCGATCGTATG 61.821 60.000 35.90 19.98 41.86 2.39
2108 9018 1.598882 TCCTTGTGTATTGCGTTGCA 58.401 45.000 0.00 0.00 36.47 4.08
2118 9028 4.188462 CGTAGCATTCCATTCCTTGTGTA 58.812 43.478 0.00 0.00 0.00 2.90
2123 9033 1.064758 TGCCGTAGCATTCCATTCCTT 60.065 47.619 0.00 0.00 46.52 3.36
2162 9072 2.095110 TGTAGTGTGCTTGCATTGCATC 60.095 45.455 12.95 8.20 42.69 3.91
2184 9137 2.369394 GGGTTGAACAGATGATGACCC 58.631 52.381 0.00 0.00 38.55 4.46
2210 9326 1.159285 CATGCGCCTCTCAAACTTGA 58.841 50.000 4.18 0.00 35.57 3.02
2234 9350 0.536460 TTCGGACAGCTGTTTTCCCC 60.536 55.000 22.65 15.87 0.00 4.81
2235 9351 0.591659 GTTCGGACAGCTGTTTTCCC 59.408 55.000 22.65 16.26 0.00 3.97
2237 9353 1.531578 GAGGTTCGGACAGCTGTTTTC 59.468 52.381 22.65 12.71 0.00 2.29
2239 9355 0.600255 CGAGGTTCGGACAGCTGTTT 60.600 55.000 22.65 0.00 36.00 2.83
2246 9373 0.524862 GTAGCTTCGAGGTTCGGACA 59.475 55.000 0.00 0.00 40.88 4.02
2287 9414 2.296792 TGGTTTGTCACATGGTCAGTG 58.703 47.619 0.00 0.00 38.32 3.66
2288 9415 2.727123 TGGTTTGTCACATGGTCAGT 57.273 45.000 0.00 0.00 0.00 3.41
2290 9417 6.471233 TTTTATTGGTTTGTCACATGGTCA 57.529 33.333 0.00 0.00 0.00 4.02
2291 9418 6.128580 GCATTTTATTGGTTTGTCACATGGTC 60.129 38.462 0.00 0.00 0.00 4.02
2292 9419 5.700373 GCATTTTATTGGTTTGTCACATGGT 59.300 36.000 0.00 0.00 0.00 3.55
2293 9420 5.699915 TGCATTTTATTGGTTTGTCACATGG 59.300 36.000 0.00 0.00 0.00 3.66
2294 9421 6.782298 TGCATTTTATTGGTTTGTCACATG 57.218 33.333 0.00 0.00 0.00 3.21
2327 9491 8.537858 GGAGGGAGTAGTACTGAATTAAGAAAA 58.462 37.037 7.76 0.00 0.00 2.29
2332 9496 5.513233 ACGGAGGGAGTAGTACTGAATTAA 58.487 41.667 7.76 0.00 0.00 1.40
2333 9497 5.121380 ACGGAGGGAGTAGTACTGAATTA 57.879 43.478 7.76 0.00 0.00 1.40
2348 9517 8.919777 AAAGATAAATATTTAGGAACGGAGGG 57.080 34.615 13.15 0.00 0.00 4.30
2369 9538 8.531146 GGTAATCATTTGAAATCCCTGAAAAGA 58.469 33.333 0.00 0.00 0.00 2.52
2370 9539 8.313292 TGGTAATCATTTGAAATCCCTGAAAAG 58.687 33.333 0.00 0.00 0.00 2.27
2371 9540 8.093927 GTGGTAATCATTTGAAATCCCTGAAAA 58.906 33.333 0.00 0.00 0.00 2.29
2372 9541 7.310361 GGTGGTAATCATTTGAAATCCCTGAAA 60.310 37.037 0.00 0.00 0.00 2.69
2373 9542 6.154363 GGTGGTAATCATTTGAAATCCCTGAA 59.846 38.462 0.00 0.00 0.00 3.02
2374 9543 5.656416 GGTGGTAATCATTTGAAATCCCTGA 59.344 40.000 0.00 0.00 0.00 3.86
2375 9544 5.658190 AGGTGGTAATCATTTGAAATCCCTG 59.342 40.000 0.00 0.00 0.00 4.45
2376 9545 5.842339 AGGTGGTAATCATTTGAAATCCCT 58.158 37.500 0.00 0.00 0.00 4.20
2377 9546 6.238648 CGTAGGTGGTAATCATTTGAAATCCC 60.239 42.308 0.00 0.00 0.00 3.85
2378 9547 6.725246 CGTAGGTGGTAATCATTTGAAATCC 58.275 40.000 0.00 0.00 0.00 3.01
2426 9595 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
2427 9596 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
2428 9597 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
2429 9598 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
2430 9599 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
2431 9600 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
2432 9601 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
2433 9602 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
2434 9603 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
2435 9604 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
2436 9605 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
2437 9606 5.005779 GTGACTACATACGGAGCAAAATGAG 59.994 44.000 0.00 0.00 0.00 2.90
2438 9607 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
2439 9608 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
2440 9609 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
2441 9610 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
2442 9611 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
2443 9612 3.257375 ACAAGTGACTACATACGGAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
2444 9613 2.823747 ACAAGTGACTACATACGGAGCA 59.176 45.455 0.00 0.00 0.00 4.26
2445 9614 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
2446 9615 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
2447 9616 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
2448 9617 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
2449 9618 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
2450 9619 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
2452 9621 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
2453 9622 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
2454 9623 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
2455 9624 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
2456 9625 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
2457 9626 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
2458 9627 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
2459 9628 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
2460 9629 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
2473 9642 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
2474 9643 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
2475 9644 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
2476 9645 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
2477 9646 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
2478 9647 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
2479 9648 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2480 9649 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2481 9650 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
2482 9651 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
2483 9652 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
2484 9653 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
2485 9654 6.141790 ACTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
2486 9655 5.713807 ACTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
2487 9656 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
2488 9657 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
2489 9658 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
2490 9659 3.525199 ACTACTACTCCCTCCGTTCCTAA 59.475 47.826 0.00 0.00 0.00 2.69
2491 9660 3.118531 ACTACTACTCCCTCCGTTCCTA 58.881 50.000 0.00 0.00 0.00 2.94
2492 9661 1.921748 ACTACTACTCCCTCCGTTCCT 59.078 52.381 0.00 0.00 0.00 3.36
2493 9662 2.433662 ACTACTACTCCCTCCGTTCC 57.566 55.000 0.00 0.00 0.00 3.62
2494 9663 5.678361 GCTTTTACTACTACTCCCTCCGTTC 60.678 48.000 0.00 0.00 0.00 3.95
2495 9664 4.159321 GCTTTTACTACTACTCCCTCCGTT 59.841 45.833 0.00 0.00 0.00 4.44
2496 9665 3.698539 GCTTTTACTACTACTCCCTCCGT 59.301 47.826 0.00 0.00 0.00 4.69
2497 9666 3.952967 AGCTTTTACTACTACTCCCTCCG 59.047 47.826 0.00 0.00 0.00 4.63
2498 9667 4.954826 TCAGCTTTTACTACTACTCCCTCC 59.045 45.833 0.00 0.00 0.00 4.30
2499 9668 6.527057 TTCAGCTTTTACTACTACTCCCTC 57.473 41.667 0.00 0.00 0.00 4.30
2500 9669 6.930068 TTTCAGCTTTTACTACTACTCCCT 57.070 37.500 0.00 0.00 0.00 4.20
2501 9670 6.539103 CCATTTCAGCTTTTACTACTACTCCC 59.461 42.308 0.00 0.00 0.00 4.30
2502 9671 6.037281 GCCATTTCAGCTTTTACTACTACTCC 59.963 42.308 0.00 0.00 0.00 3.85
2503 9672 6.594159 TGCCATTTCAGCTTTTACTACTACTC 59.406 38.462 0.00 0.00 0.00 2.59
2504 9673 6.472887 TGCCATTTCAGCTTTTACTACTACT 58.527 36.000 0.00 0.00 0.00 2.57
2505 9674 6.737254 TGCCATTTCAGCTTTTACTACTAC 57.263 37.500 0.00 0.00 0.00 2.73
2506 9675 6.128391 CGTTGCCATTTCAGCTTTTACTACTA 60.128 38.462 0.00 0.00 0.00 1.82
2507 9676 5.334879 CGTTGCCATTTCAGCTTTTACTACT 60.335 40.000 0.00 0.00 0.00 2.57
2508 9677 4.851558 CGTTGCCATTTCAGCTTTTACTAC 59.148 41.667 0.00 0.00 0.00 2.73
2509 9678 4.517453 ACGTTGCCATTTCAGCTTTTACTA 59.483 37.500 0.00 0.00 0.00 1.82
2510 9679 3.317993 ACGTTGCCATTTCAGCTTTTACT 59.682 39.130 0.00 0.00 0.00 2.24
2511 9680 3.638484 ACGTTGCCATTTCAGCTTTTAC 58.362 40.909 0.00 0.00 0.00 2.01
2512 9681 4.314740 AACGTTGCCATTTCAGCTTTTA 57.685 36.364 0.00 0.00 0.00 1.52
2513 9682 2.888834 ACGTTGCCATTTCAGCTTTT 57.111 40.000 0.00 0.00 0.00 2.27
2514 9683 2.888834 AACGTTGCCATTTCAGCTTT 57.111 40.000 0.00 0.00 0.00 3.51
2515 9684 2.888834 AAACGTTGCCATTTCAGCTT 57.111 40.000 0.00 0.00 0.00 3.74
2518 9687 5.655893 ATTTGAAAACGTTGCCATTTCAG 57.344 34.783 0.00 0.00 42.20 3.02
2523 9692 4.116238 ACGAAATTTGAAAACGTTGCCAT 58.884 34.783 0.00 0.00 33.48 4.40
2538 9707 0.105039 TTGCGCCCCAAAACGAAATT 59.895 45.000 4.18 0.00 0.00 1.82
2543 9712 1.006805 TGAATTGCGCCCCAAAACG 60.007 52.632 4.18 0.00 36.92 3.60
2572 9741 3.062763 GAGTGACTGACTGAACACATGG 58.937 50.000 0.00 0.00 33.83 3.66
2644 9832 9.429359 TCGGCTTGTCTATTATAGTACTACTAC 57.571 37.037 4.31 0.00 32.84 2.73
2645 9833 9.429359 GTCGGCTTGTCTATTATAGTACTACTA 57.571 37.037 4.31 0.00 34.82 1.82
2646 9834 8.156165 AGTCGGCTTGTCTATTATAGTACTACT 58.844 37.037 4.31 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.