Multiple sequence alignment - TraesCS1B01G176200

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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 TraesCS1B01G176200 chr1B 100.000 3281 0 0 1 3281 317582151 317585431 0 6059
1 TraesCS1B01G176200 chr1A 97.167 2118 49 4 1173 3281 287690563 287688448 0 3568
2 TraesCS1B01G176200 chr1A 85.598 861 90 21 1 857 287691770 287690940 0 872
3 TraesCS1B01G176200 chr1D 96.854 2066 48 6 1225 3281 222019746 222017689 0 3439
4 TraesCS1B01G176200 chr1D 85.939 1081 79 26 1 1070 222021170 222020152 0 1086


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 TraesCS1B01G176200 chr1B 317582151 317585431 3280 False 6059.0 6059 100.0000 1 3281 1 chr1B.!!$F1 3280
1 TraesCS1B01G176200 chr1A 287688448 287691770 3322 True 2220.0 3568 91.3825 1 3281 2 chr1A.!!$R1 3280
2 TraesCS1B01G176200 chr1D 222017689 222021170 3481 True 2262.5 3439 91.3965 1 3281 2 chr1D.!!$R1 3280

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
682 704 0.518636 CACTTCACCAATCGCTGTGG 59.481 55.0 0.0 0.0 42.28 4.17 F
1147 1174 0.108898 CGCCTCCATCATCGATCTCC 60.109 60.0 0.0 0.0 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1971 2249 0.252467 CTCCCAAGTCACTCCTCCCT 60.252 60.0 0.0 0.0 0.00 4.20 R
3022 3309 1.095807 GGAATGCTAGTTCGGGGCAC 61.096 60.0 0.0 0.0 38.83 5.01 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
35 36 5.807344 GTGTAACAAAGTGGTCTTGAGTTC 58.193 41.667 0.00 0.00 35.69 3.01
101 102 3.099141 CCTTCCTGGTGCCATTTTATGT 58.901 45.455 0.00 0.00 0.00 2.29
102 103 4.277476 CCTTCCTGGTGCCATTTTATGTA 58.723 43.478 0.00 0.00 0.00 2.29
141 142 3.815809 GCTGTTGCCATATGGTTACCTA 58.184 45.455 22.79 6.05 37.57 3.08
145 146 4.471747 TGTTGCCATATGGTTACCTACAGA 59.528 41.667 22.79 2.44 37.57 3.41
244 246 3.724508 AATGTGCCATTTCGTTTCACA 57.275 38.095 0.00 0.00 41.18 3.58
254 256 5.406175 CCATTTCGTTTCACATGAAGCAAAT 59.594 36.000 0.00 9.69 35.38 2.32
281 283 2.873288 GCTCTTGCAAAGGAGCCG 59.127 61.111 23.46 1.75 46.24 5.52
285 287 1.003355 CTTGCAAAGGAGCCGGAGA 60.003 57.895 5.05 0.00 41.27 3.71
305 307 3.006323 AGACAGCAGACTTCACCTGTAAG 59.994 47.826 0.00 0.00 38.55 2.34
337 344 0.810648 CGCACCTGCACCATACAAAT 59.189 50.000 0.00 0.00 42.21 2.32
347 354 4.949238 TGCACCATACAAATGAAGCATAGT 59.051 37.500 0.00 0.00 37.59 2.12
351 358 5.066893 ACCATACAAATGAAGCATAGTGCAG 59.933 40.000 4.61 0.00 39.71 4.41
399 407 3.938778 ACGACGAGGAAACTGTTTTTC 57.061 42.857 7.28 7.73 44.43 2.29
430 438 7.173390 TCACACGTGAATTCATAAAACCACATA 59.827 33.333 25.01 0.00 36.53 2.29
468 477 6.189677 TGCATGAACTAAAGAAAATACCCG 57.810 37.500 0.00 0.00 0.00 5.28
564 576 4.448537 TTAAATAAGCGCACAATTGGCT 57.551 36.364 11.47 6.13 39.01 4.75
576 588 5.060816 CGCACAATTGGCTACTAAACAAATG 59.939 40.000 10.83 0.00 32.72 2.32
579 591 7.009540 GCACAATTGGCTACTAAACAAATGATC 59.990 37.037 10.83 0.00 31.37 2.92
615 637 6.702716 ACAAACTATTCCTTCGTTCCAAAA 57.297 33.333 0.00 0.00 0.00 2.44
616 638 7.284919 ACAAACTATTCCTTCGTTCCAAAAT 57.715 32.000 0.00 0.00 0.00 1.82
617 639 7.368059 ACAAACTATTCCTTCGTTCCAAAATC 58.632 34.615 0.00 0.00 0.00 2.17
618 640 7.013846 ACAAACTATTCCTTCGTTCCAAAATCA 59.986 33.333 0.00 0.00 0.00 2.57
619 641 7.703058 AACTATTCCTTCGTTCCAAAATCAT 57.297 32.000 0.00 0.00 0.00 2.45
620 642 7.703058 ACTATTCCTTCGTTCCAAAATCATT 57.297 32.000 0.00 0.00 0.00 2.57
621 643 8.122472 ACTATTCCTTCGTTCCAAAATCATTT 57.878 30.769 0.00 0.00 0.00 2.32
622 644 8.585018 ACTATTCCTTCGTTCCAAAATCATTTT 58.415 29.630 0.00 0.00 0.00 1.82
623 645 9.423061 CTATTCCTTCGTTCCAAAATCATTTTT 57.577 29.630 0.00 0.00 35.41 1.94
676 698 5.804979 ACAAAAGAAAACACTTCACCAATCG 59.195 36.000 0.00 0.00 0.00 3.34
682 704 0.518636 CACTTCACCAATCGCTGTGG 59.481 55.000 0.00 0.00 42.28 4.17
691 713 2.094803 CCAATCGCTGTGGTTTATGCAA 60.095 45.455 0.00 0.00 0.00 4.08
693 715 1.890876 TCGCTGTGGTTTATGCAAGT 58.109 45.000 0.00 0.00 0.00 3.16
701 723 6.813152 GCTGTGGTTTATGCAAGTAATGAAAT 59.187 34.615 0.00 0.00 0.00 2.17
704 726 6.534793 GTGGTTTATGCAAGTAATGAAATGGG 59.465 38.462 0.00 0.00 0.00 4.00
721 743 0.953960 GGGTCGTCGGCTGTCAAAAT 60.954 55.000 0.00 0.00 0.00 1.82
733 755 5.678483 CGGCTGTCAAAATATCTGAAATTCG 59.322 40.000 0.00 0.00 0.00 3.34
764 786 4.671766 GCTGCTCGGATTTAAAACAACGAT 60.672 41.667 0.00 0.00 0.00 3.73
840 862 7.130681 ACAATTTCAGGTTAACCAAAATGGA 57.869 32.000 29.10 14.64 40.96 3.41
841 863 7.216494 ACAATTTCAGGTTAACCAAAATGGAG 58.784 34.615 29.10 23.50 40.96 3.86
842 864 7.070571 ACAATTTCAGGTTAACCAAAATGGAGA 59.929 33.333 29.10 14.64 40.96 3.71
843 865 6.648879 TTTCAGGTTAACCAAAATGGAGAG 57.351 37.500 26.26 3.47 40.96 3.20
848 870 6.595716 CAGGTTAACCAAAATGGAGAGAGTAG 59.404 42.308 26.26 0.00 40.96 2.57
862 884 3.161866 GAGAGTAGGAGGCCTTCATAGG 58.838 54.545 15.31 0.00 45.02 2.57
863 885 2.792370 AGAGTAGGAGGCCTTCATAGGA 59.208 50.000 15.31 0.00 45.05 2.94
868 893 4.888626 AGGAGGCCTTCATAGGATTTTT 57.111 40.909 15.31 0.00 45.05 1.94
871 896 3.033909 AGGCCTTCATAGGATTTTTGGC 58.966 45.455 0.00 0.00 45.05 4.52
888 913 1.828595 TGGCGAAATGGACTAGTGCTA 59.171 47.619 15.92 2.61 0.00 3.49
893 918 3.738281 CGAAATGGACTAGTGCTACAGGG 60.738 52.174 15.92 0.00 0.00 4.45
894 919 2.848678 ATGGACTAGTGCTACAGGGA 57.151 50.000 15.92 0.00 0.00 4.20
895 920 2.615986 TGGACTAGTGCTACAGGGAA 57.384 50.000 15.92 0.00 0.00 3.97
896 921 2.457598 TGGACTAGTGCTACAGGGAAG 58.542 52.381 15.92 0.00 0.00 3.46
937 964 1.003355 CTTCCGCAGCAGAAAGGGA 60.003 57.895 0.00 0.00 0.00 4.20
954 981 2.358322 GGAAAGTCCCCTCAAACACA 57.642 50.000 0.00 0.00 0.00 3.72
1070 1097 4.214327 CCTCCTCCGCCGCTTCTC 62.214 72.222 0.00 0.00 0.00 2.87
1071 1098 4.214327 CTCCTCCGCCGCTTCTCC 62.214 72.222 0.00 0.00 0.00 3.71
1090 1117 4.609247 CGCTCCCGGACGTCGATC 62.609 72.222 9.92 0.00 42.43 3.69
1091 1118 4.267503 GCTCCCGGACGTCGATCC 62.268 72.222 9.92 1.32 42.43 3.36
1092 1119 2.516460 CTCCCGGACGTCGATCCT 60.516 66.667 9.92 0.00 42.43 3.24
1093 1120 2.044650 TCCCGGACGTCGATCCTT 60.045 61.111 9.92 0.00 42.43 3.36
1094 1121 2.061182 CTCCCGGACGTCGATCCTTC 62.061 65.000 9.92 0.00 42.43 3.46
1095 1122 2.024305 CCGGACGTCGATCCTTCG 59.976 66.667 9.92 5.31 46.87 3.79
1096 1123 2.651232 CGGACGTCGATCCTTCGC 60.651 66.667 9.92 0.00 45.10 4.70
1097 1124 2.278661 GGACGTCGATCCTTCGCC 60.279 66.667 9.92 0.00 45.10 5.54
1098 1125 2.488355 GACGTCGATCCTTCGCCA 59.512 61.111 0.00 0.00 45.10 5.69
1099 1126 1.586564 GACGTCGATCCTTCGCCAG 60.587 63.158 0.00 0.00 45.10 4.85
1100 1127 2.956964 CGTCGATCCTTCGCCAGC 60.957 66.667 0.00 0.00 45.10 4.85
1101 1128 2.586357 GTCGATCCTTCGCCAGCC 60.586 66.667 0.00 0.00 45.10 4.85
1102 1129 2.759973 TCGATCCTTCGCCAGCCT 60.760 61.111 0.00 0.00 45.10 4.58
1103 1130 2.187946 CGATCCTTCGCCAGCCTT 59.812 61.111 0.00 0.00 38.75 4.35
1104 1131 1.884926 CGATCCTTCGCCAGCCTTC 60.885 63.158 0.00 0.00 38.75 3.46
1105 1132 1.884926 GATCCTTCGCCAGCCTTCG 60.885 63.158 0.00 0.00 0.00 3.79
1106 1133 3.391665 ATCCTTCGCCAGCCTTCGG 62.392 63.158 0.00 0.00 0.00 4.30
1142 1169 4.284860 CCGCGCCTCCATCATCGA 62.285 66.667 0.00 0.00 0.00 3.59
1143 1170 2.048784 CGCGCCTCCATCATCGAT 60.049 61.111 0.00 0.00 0.00 3.59
1144 1171 2.091112 CGCGCCTCCATCATCGATC 61.091 63.158 0.00 0.00 0.00 3.69
1145 1172 1.291588 GCGCCTCCATCATCGATCT 59.708 57.895 0.00 0.00 0.00 2.75
1146 1173 0.735632 GCGCCTCCATCATCGATCTC 60.736 60.000 0.00 0.00 0.00 2.75
1147 1174 0.108898 CGCCTCCATCATCGATCTCC 60.109 60.000 0.00 0.00 0.00 3.71
1148 1175 0.972134 GCCTCCATCATCGATCTCCA 59.028 55.000 0.00 0.00 0.00 3.86
1149 1176 1.067000 GCCTCCATCATCGATCTCCAG 60.067 57.143 0.00 0.00 0.00 3.86
1150 1177 1.067000 CCTCCATCATCGATCTCCAGC 60.067 57.143 0.00 0.00 0.00 4.85
1151 1178 1.894466 CTCCATCATCGATCTCCAGCT 59.106 52.381 0.00 0.00 0.00 4.24
1152 1179 1.891811 TCCATCATCGATCTCCAGCTC 59.108 52.381 0.00 0.00 0.00 4.09
1153 1180 1.402588 CCATCATCGATCTCCAGCTCG 60.403 57.143 0.00 0.00 35.27 5.03
1154 1181 0.243365 ATCATCGATCTCCAGCTCGC 59.757 55.000 0.00 0.00 34.12 5.03
1155 1182 1.372748 CATCGATCTCCAGCTCGCC 60.373 63.158 0.00 0.00 34.12 5.54
1156 1183 2.913765 ATCGATCTCCAGCTCGCCG 61.914 63.158 0.00 0.00 34.12 6.46
1157 1184 3.893763 CGATCTCCAGCTCGCCGT 61.894 66.667 0.00 0.00 0.00 5.68
1158 1185 2.026879 GATCTCCAGCTCGCCGTC 59.973 66.667 0.00 0.00 0.00 4.79
1159 1186 3.492311 GATCTCCAGCTCGCCGTCC 62.492 68.421 0.00 0.00 0.00 4.79
1230 1508 4.691359 AGCCCCGACTACCACCGT 62.691 66.667 0.00 0.00 0.00 4.83
1524 1802 0.970937 TCAAATCCGCCGAGTCCTCT 60.971 55.000 0.00 0.00 0.00 3.69
1654 1932 4.868116 TTAAGCATCGCCCGCCCC 62.868 66.667 0.00 0.00 0.00 5.80
1791 2069 1.701545 CGTACAATTGCCGGATGCGT 61.702 55.000 5.05 0.00 45.60 5.24
1971 2249 0.909610 AGGTGATGAAGAGGCGGGAA 60.910 55.000 0.00 0.00 0.00 3.97
2241 2519 1.280133 TGGGAGAAGATTGCTGGTGAG 59.720 52.381 0.00 0.00 0.00 3.51
2349 2627 4.857037 GGCCTTTGAATAACGTTGATGAAC 59.143 41.667 11.99 0.00 0.00 3.18
2571 2858 8.452868 AGGGGATCATGATACTATCTACTATCC 58.547 40.741 17.56 6.26 0.00 2.59
2590 2877 3.592059 TCCTATCACTGTAACCGTTTGC 58.408 45.455 0.00 0.00 0.00 3.68
2717 3004 4.943093 TGCTCATGCACTTGTACATTGTAT 59.057 37.500 0.00 0.00 45.31 2.29
2732 3019 8.261522 TGTACATTGTATAACCAGCACAGATTA 58.738 33.333 0.00 0.00 0.00 1.75
2791 3078 5.668558 ACTTGAGTAACCGACATTGTTTC 57.331 39.130 0.00 0.00 0.00 2.78
2880 3167 9.579768 AAGACGCTATGCTTATGATATTCTTAG 57.420 33.333 0.00 0.00 0.00 2.18
3011 3298 4.645588 AGTAACCTACTTGGATCTCCTTCG 59.354 45.833 0.00 0.00 39.71 3.79
3022 3309 5.907207 TGGATCTCCTTCGATTTCAGTTAG 58.093 41.667 0.00 0.00 36.82 2.34
3202 3489 6.314152 GGCCTTTCTACTGATCTTGAGTTTAC 59.686 42.308 0.00 0.00 0.00 2.01
3255 3542 3.088532 GTTCAATATTGCTGGTCCACCA 58.911 45.455 10.76 0.00 45.30 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 3.244215 TGGTGATGAGAACTCAAGACCAC 60.244 47.826 22.87 18.74 43.84 4.16
26 27 4.963318 AACTGGTGATGAGAACTCAAGA 57.037 40.909 8.59 0.00 43.58 3.02
35 36 5.645067 TCTTGCTATCAAAACTGGTGATGAG 59.355 40.000 0.00 0.00 36.41 2.90
72 73 2.780924 ACCAGGAAGGGGGTTGCA 60.781 61.111 0.00 0.00 43.89 4.08
244 246 2.872842 GCAGGCCAACAATTTGCTTCAT 60.873 45.455 5.01 0.00 0.00 2.57
254 256 3.447040 GCAAGAGCAGGCCAACAA 58.553 55.556 5.01 0.00 41.58 2.83
272 274 2.177594 CTGCTGTCTCCGGCTCCTTT 62.178 60.000 0.00 0.00 43.76 3.11
281 283 0.972883 AGGTGAAGTCTGCTGTCTCC 59.027 55.000 0.00 0.00 0.00 3.71
285 287 2.037772 CCTTACAGGTGAAGTCTGCTGT 59.962 50.000 0.00 0.00 35.78 4.40
305 307 2.485122 GTGCGCATGGTTACAGCC 59.515 61.111 15.91 0.00 0.00 4.85
306 308 2.040544 AGGTGCGCATGGTTACAGC 61.041 57.895 15.91 0.00 0.00 4.40
307 309 1.796151 CAGGTGCGCATGGTTACAG 59.204 57.895 15.91 0.00 0.00 2.74
309 311 2.331893 TGCAGGTGCGCATGGTTAC 61.332 57.895 15.91 0.00 45.83 2.50
310 312 2.033294 TGCAGGTGCGCATGGTTA 59.967 55.556 15.91 0.00 45.83 2.85
318 320 0.810648 ATTTGTATGGTGCAGGTGCG 59.189 50.000 0.00 0.00 45.83 5.34
337 344 0.614812 TGCTCCTGCACTATGCTTCA 59.385 50.000 2.02 0.00 45.31 3.02
351 358 0.320771 TTGAAACTCCTCGCTGCTCC 60.321 55.000 0.00 0.00 0.00 4.70
449 458 5.005094 CCCACGGGTATTTTCTTTAGTTCA 58.995 41.667 0.00 0.00 0.00 3.18
450 459 4.397103 CCCCACGGGTATTTTCTTTAGTTC 59.603 45.833 0.41 0.00 38.25 3.01
455 464 1.203075 TGCCCCACGGGTATTTTCTTT 60.203 47.619 0.41 0.00 46.51 2.52
456 465 0.406361 TGCCCCACGGGTATTTTCTT 59.594 50.000 0.41 0.00 46.51 2.52
468 477 0.820891 AGAATGCGATCATGCCCCAC 60.821 55.000 0.00 0.00 32.23 4.61
481 493 6.441093 TGAGGAATACAAACATGAGAATGC 57.559 37.500 0.00 0.00 0.00 3.56
561 573 9.860898 AATTTCTTGATCATTTGTTTAGTAGCC 57.139 29.630 0.00 0.00 0.00 3.93
590 602 5.934935 TGGAACGAAGGAATAGTTTGTTC 57.065 39.130 7.22 7.22 43.41 3.18
655 677 4.097892 AGCGATTGGTGAAGTGTTTTCTTT 59.902 37.500 0.00 0.00 0.00 2.52
658 680 3.243068 ACAGCGATTGGTGAAGTGTTTTC 60.243 43.478 19.00 0.00 46.53 2.29
661 683 1.603802 CACAGCGATTGGTGAAGTGTT 59.396 47.619 19.00 0.00 46.53 3.32
676 698 5.309323 TCATTACTTGCATAAACCACAGC 57.691 39.130 0.00 0.00 0.00 4.40
682 704 6.472163 CGACCCATTTCATTACTTGCATAAAC 59.528 38.462 0.00 0.00 0.00 2.01
691 713 2.901249 CCGACGACCCATTTCATTACT 58.099 47.619 0.00 0.00 0.00 2.24
693 715 1.208535 AGCCGACGACCCATTTCATTA 59.791 47.619 0.00 0.00 0.00 1.90
701 723 2.313051 TTTTGACAGCCGACGACCCA 62.313 55.000 0.00 0.00 0.00 4.51
704 726 3.000322 CAGATATTTTGACAGCCGACGAC 60.000 47.826 0.00 0.00 0.00 4.34
721 743 5.116180 CAGCAGGGTTACGAATTTCAGATA 58.884 41.667 0.00 0.00 0.00 1.98
733 755 0.107654 AATCCGAGCAGCAGGGTTAC 60.108 55.000 3.80 0.00 0.00 2.50
814 836 7.713073 TCCATTTTGGTTAACCTGAAATTGTTC 59.287 33.333 24.78 0.00 39.03 3.18
840 862 3.181423 CCTATGAAGGCCTCCTACTCTCT 60.181 52.174 5.23 0.00 35.64 3.10
841 863 3.161866 CCTATGAAGGCCTCCTACTCTC 58.838 54.545 5.23 0.00 35.64 3.20
842 864 2.792370 TCCTATGAAGGCCTCCTACTCT 59.208 50.000 5.23 0.00 43.31 3.24
843 865 3.246416 TCCTATGAAGGCCTCCTACTC 57.754 52.381 5.23 0.00 43.31 2.59
848 870 3.638627 CCAAAAATCCTATGAAGGCCTCC 59.361 47.826 5.23 0.00 43.31 4.30
862 884 5.095490 CACTAGTCCATTTCGCCAAAAATC 58.905 41.667 0.00 0.00 0.00 2.17
863 885 4.618227 GCACTAGTCCATTTCGCCAAAAAT 60.618 41.667 0.00 0.00 0.00 1.82
868 893 0.613260 AGCACTAGTCCATTTCGCCA 59.387 50.000 0.00 0.00 0.00 5.69
871 896 3.448686 CCTGTAGCACTAGTCCATTTCG 58.551 50.000 0.00 0.00 0.00 3.46
888 913 0.610687 GCTACAGTCTGCTTCCCTGT 59.389 55.000 0.00 0.00 41.93 4.00
893 918 2.478134 CACAACTGCTACAGTCTGCTTC 59.522 50.000 0.00 0.00 44.62 3.86
894 919 2.487934 CACAACTGCTACAGTCTGCTT 58.512 47.619 0.00 0.00 44.62 3.91
895 920 1.875576 GCACAACTGCTACAGTCTGCT 60.876 52.381 17.05 0.00 44.62 4.24
896 921 0.514691 GCACAACTGCTACAGTCTGC 59.485 55.000 12.11 12.11 44.62 4.26
918 945 1.302832 CCCTTTCTGCTGCGGAAGT 60.303 57.895 21.83 0.00 29.97 3.01
937 964 2.818751 TGTGTGTTTGAGGGGACTTT 57.181 45.000 0.00 0.00 44.43 2.66
952 979 1.152546 GAGGGTTTGGGCCTTGTGT 60.153 57.895 4.53 0.00 0.00 3.72
953 980 2.268076 CGAGGGTTTGGGCCTTGTG 61.268 63.158 4.53 0.00 0.00 3.33
954 981 2.115266 CGAGGGTTTGGGCCTTGT 59.885 61.111 4.53 0.00 0.00 3.16
1073 1100 4.609247 GATCGACGTCCGGGAGCG 62.609 72.222 10.58 14.58 39.14 5.03
1074 1101 4.267503 GGATCGACGTCCGGGAGC 62.268 72.222 10.58 4.24 39.14 4.70
1075 1102 2.061182 GAAGGATCGACGTCCGGGAG 62.061 65.000 10.58 0.00 43.27 4.30
1076 1103 2.044650 AAGGATCGACGTCCGGGA 60.045 61.111 10.58 1.59 43.27 5.14
1077 1104 2.412112 GAAGGATCGACGTCCGGG 59.588 66.667 10.58 0.00 43.27 5.73
1087 1114 1.884926 CGAAGGCTGGCGAAGGATC 60.885 63.158 4.21 0.00 0.00 3.36
1088 1115 2.187946 CGAAGGCTGGCGAAGGAT 59.812 61.111 4.21 0.00 0.00 3.24
1089 1116 4.082523 CCGAAGGCTGGCGAAGGA 62.083 66.667 11.07 0.00 46.14 3.36
1125 1152 3.580100 ATCGATGATGGAGGCGCGG 62.580 63.158 8.83 0.00 0.00 6.46
1126 1153 2.048784 ATCGATGATGGAGGCGCG 60.049 61.111 0.00 0.00 0.00 6.86
1127 1154 0.735632 GAGATCGATGATGGAGGCGC 60.736 60.000 0.54 0.00 0.00 6.53
1128 1155 0.108898 GGAGATCGATGATGGAGGCG 60.109 60.000 0.54 0.00 0.00 5.52
1129 1156 0.972134 TGGAGATCGATGATGGAGGC 59.028 55.000 0.54 0.00 0.00 4.70
1130 1157 1.067000 GCTGGAGATCGATGATGGAGG 60.067 57.143 0.54 0.00 0.00 4.30
1131 1158 1.894466 AGCTGGAGATCGATGATGGAG 59.106 52.381 0.54 0.00 0.00 3.86
1132 1159 1.891811 GAGCTGGAGATCGATGATGGA 59.108 52.381 0.54 0.00 0.00 3.41
1133 1160 2.367030 GAGCTGGAGATCGATGATGG 57.633 55.000 0.54 0.00 0.00 3.51
1141 1168 2.026879 GACGGCGAGCTGGAGATC 59.973 66.667 16.62 0.00 0.00 2.75
1142 1169 3.532155 GGACGGCGAGCTGGAGAT 61.532 66.667 16.62 0.00 0.00 2.75
1359 1637 3.310860 GAAAAGGGAGAGGGCGCGA 62.311 63.158 12.10 0.00 0.00 5.87
1401 1679 4.214327 GCGGAGGAGGAGAAGGCG 62.214 72.222 0.00 0.00 0.00 5.52
1479 1757 2.506217 TTGAGGTCGTCGATGCGC 60.506 61.111 0.00 0.00 0.00 6.09
1654 1932 6.378564 AGAGTATTGTAGGATATGATGTCCGG 59.621 42.308 2.40 0.00 40.76 5.14
1791 2069 0.762461 CCCCCTTCCTTGCAAACCAA 60.762 55.000 0.00 0.00 0.00 3.67
1899 2177 1.561542 ACATTCCCCTCCTTGCAGTAG 59.438 52.381 0.00 0.00 0.00 2.57
1971 2249 0.252467 CTCCCAAGTCACTCCTCCCT 60.252 60.000 0.00 0.00 0.00 4.20
2004 2282 2.996249 ACAGCAGGACATATGTCTGG 57.004 50.000 29.87 23.14 44.20 3.86
2241 2519 4.438148 GTGCTCCCTCTTCAAGAGATAAC 58.562 47.826 16.64 3.51 45.07 1.89
2349 2627 1.479323 CCCATGTGAATGCCCTTCTTG 59.521 52.381 0.00 0.00 34.75 3.02
2463 2749 7.106890 AGAAGCTCTTACAGAAAAGGGATTAC 58.893 38.462 0.00 0.00 35.76 1.89
2571 2858 5.867716 ACTAAGCAAACGGTTACAGTGATAG 59.132 40.000 0.00 0.00 0.00 2.08
2772 3059 7.915293 ATTATGAAACAATGTCGGTTACTCA 57.085 32.000 0.00 0.00 0.00 3.41
2880 3167 8.945930 GCACTTCGCGACTATAATTATATACTC 58.054 37.037 9.15 1.51 0.00 2.59
3011 3298 2.396590 TCGGGGCACTAACTGAAATC 57.603 50.000 0.00 0.00 0.00 2.17
3022 3309 1.095807 GGAATGCTAGTTCGGGGCAC 61.096 60.000 0.00 0.00 38.83 5.01
3202 3489 2.260844 TGTCTTGAACTTGAGCCAGG 57.739 50.000 0.00 0.00 0.00 4.45
3255 3542 2.102578 GTATTTTGGGCTGTGCATCCT 58.897 47.619 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.