Multiple sequence alignment - TraesCS7A01G463600

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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 TraesCS7A01G463600 chr7A 100.000 2342 0 0 1 2342 660407324 660409665 0.000000e+00 4325.0
1 TraesCS7A01G463600 chr7A 90.244 123 12 0 634 756 636957009 636957131 6.700000e-36 161.0
2 TraesCS7A01G463600 chr7A 76.821 302 59 10 188 483 85029585 85029289 2.410000e-35 159.0
3 TraesCS7A01G463600 chr7D 94.079 912 32 12 754 1656 571195990 571196888 0.000000e+00 1365.0
4 TraesCS7A01G463600 chr7D 98.261 575 10 0 1768 2342 571197042 571197616 0.000000e+00 1007.0
5 TraesCS7A01G463600 chr7D 88.542 576 52 13 25 589 571194862 571195434 0.000000e+00 686.0
6 TraesCS7A01G463600 chr7D 77.186 263 48 9 225 479 99422493 99422751 2.430000e-30 143.0
7 TraesCS7A01G463600 chr7D 79.279 111 17 5 412 517 431077315 431077424 3.230000e-09 73.1
8 TraesCS7A01G463600 chr7B 93.573 918 37 15 754 1667 627054597 627055496 0.000000e+00 1349.0
9 TraesCS7A01G463600 chr7B 96.741 583 17 2 1762 2342 627055775 627056357 0.000000e+00 970.0
10 TraesCS7A01G463600 chr7B 84.652 632 64 19 25 650 627053994 627054598 1.200000e-167 599.0
11 TraesCS7A01G463600 chr6B 90.445 607 46 7 1741 2342 699028963 699029562 0.000000e+00 789.0
12 TraesCS7A01G463600 chr6B 88.889 387 40 1 985 1371 699027568 699027951 7.570000e-130 473.0
13 TraesCS7A01G463600 chr5D 93.220 118 8 0 646 763 29168201 29168318 8.600000e-40 174.0
14 TraesCS7A01G463600 chr5D 79.866 149 15 9 252 397 547462189 547462325 6.890000e-16 95.3
15 TraesCS7A01G463600 chr1A 94.545 110 6 0 646 755 321291334 321291443 1.110000e-38 171.0
16 TraesCS7A01G463600 chr2A 92.982 114 8 0 649 762 718934934 718935047 1.440000e-37 167.0
17 TraesCS7A01G463600 chr4A 91.129 124 8 3 645 767 381221324 381221445 5.180000e-37 165.0
18 TraesCS7A01G463600 chr4A 91.057 123 9 2 648 769 625546313 625546192 5.180000e-37 165.0
19 TraesCS7A01G463600 chr4A 88.148 135 13 3 649 780 514346199 514346333 8.660000e-35 158.0
20 TraesCS7A01G463600 chr3A 91.597 119 10 0 648 766 264939938 264939820 5.180000e-37 165.0
21 TraesCS7A01G463600 chr3B 90.400 125 11 1 631 755 134998164 134998287 1.860000e-36 163.0
22 TraesCS7A01G463600 chr3B 75.349 215 44 7 226 438 411880394 411880187 6.890000e-16 95.3
23 TraesCS7A01G463600 chr3B 82.105 95 11 4 292 386 586158254 586158342 2.500000e-10 76.8
24 TraesCS7A01G463600 chr3B 73.543 223 47 10 245 464 38792412 38792625 8.980000e-10 75.0
25 TraesCS7A01G463600 chr1B 82.036 167 20 6 303 468 344843054 344842897 1.460000e-27 134.0
26 TraesCS7A01G463600 chr1D 79.581 191 24 9 281 468 267984660 267984838 3.160000e-24 122.0
27 TraesCS7A01G463600 chr4D 76.818 220 41 8 211 425 6525902 6526116 5.290000e-22 115.0


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 TraesCS7A01G463600 chr7A 660407324 660409665 2341 False 4325.000000 4325 100.000000 1 2342 1 chr7A.!!$F2 2341
1 TraesCS7A01G463600 chr7D 571194862 571197616 2754 False 1019.333333 1365 93.627333 25 2342 3 chr7D.!!$F3 2317
2 TraesCS7A01G463600 chr7B 627053994 627056357 2363 False 972.666667 1349 91.655333 25 2342 3 chr7B.!!$F1 2317
3 TraesCS7A01G463600 chr6B 699027568 699029562 1994 False 631.000000 789 89.667000 985 2342 2 chr6B.!!$F1 1357

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
69 70 0.107831 TATCTACACAATGGGCCGGC 59.892 55.0 21.18 21.18 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1721 2908 0.106819 GCTTGCCTGATCTCCATGGT 60.107 55.0 12.58 0.0 0.0 3.55 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
47 48 2.371658 ACGGATGGGGTAGTACCTAC 57.628 55.000 18.85 12.50 38.64 3.18
61 62 7.229506 GGGTAGTACCTACGTTATCTACACAAT 59.770 40.741 18.85 0.00 37.79 2.71
62 63 8.072567 GGTAGTACCTACGTTATCTACACAATG 58.927 40.741 12.41 0.00 37.79 2.82
65 66 4.056050 CCTACGTTATCTACACAATGGGC 58.944 47.826 0.00 0.00 0.00 5.36
67 68 1.864711 CGTTATCTACACAATGGGCCG 59.135 52.381 0.00 0.00 0.00 6.13
69 70 0.107831 TATCTACACAATGGGCCGGC 59.892 55.000 21.18 21.18 0.00 6.13
71 72 3.636929 CTACACAATGGGCCGGCCA 62.637 63.158 44.46 30.82 37.98 5.36
72 73 2.909457 CTACACAATGGGCCGGCCAT 62.909 60.000 44.46 31.55 37.98 4.40
73 74 2.506884 TACACAATGGGCCGGCCATT 62.507 55.000 44.46 34.64 38.26 3.16
88 91 4.704833 ATTGCACCGCTCGGCTGT 62.705 61.111 8.41 0.00 39.32 4.40
130 133 0.611896 AGTTTGGGGGAAGAATGGCG 60.612 55.000 0.00 0.00 0.00 5.69
133 136 4.440829 GGGGGAAGAATGGCGGCA 62.441 66.667 16.34 16.34 0.00 5.69
154 157 5.008613 GGCAGCGATTGAAAATGGAATACTA 59.991 40.000 0.00 0.00 0.00 1.82
175 178 2.811431 ACGAGTCGAAATGGAAAATGCA 59.189 40.909 21.50 0.00 0.00 3.96
204 208 3.215587 AAGCTCCTGGGGCTTGGTG 62.216 63.158 32.11 0.00 46.53 4.17
211 215 1.341080 CTGGGGCTTGGTGTTTGAAT 58.659 50.000 0.00 0.00 0.00 2.57
279 289 9.874205 AAAATCCATGGAAACTTATACATGTTG 57.126 29.630 20.67 0.00 39.14 3.33
368 378 1.395262 CGGCCCAACAACAAAAACAAC 59.605 47.619 0.00 0.00 0.00 3.32
386 396 7.481275 AAACAACCAGCACATTTTAGAAATG 57.519 32.000 10.86 10.86 0.00 2.32
622 1134 2.504175 CCTTTGGGGGAGAATCGTTCTA 59.496 50.000 1.08 0.00 40.87 2.10
629 1141 3.181485 GGGGAGAATCGTTCTACTGTGAG 60.181 52.174 9.04 0.00 40.62 3.51
653 1165 3.077359 ACATGAGCTTGGTTTCTACTGC 58.923 45.455 0.00 0.00 0.00 4.40
654 1166 2.185004 TGAGCTTGGTTTCTACTGCC 57.815 50.000 0.00 0.00 0.00 4.85
655 1167 1.699634 TGAGCTTGGTTTCTACTGCCT 59.300 47.619 0.00 0.00 0.00 4.75
656 1168 2.289694 TGAGCTTGGTTTCTACTGCCTC 60.290 50.000 0.00 0.00 0.00 4.70
657 1169 1.003696 AGCTTGGTTTCTACTGCCTCC 59.996 52.381 0.00 0.00 0.00 4.30
658 1170 1.726853 CTTGGTTTCTACTGCCTCCG 58.273 55.000 0.00 0.00 0.00 4.63
659 1171 1.002087 CTTGGTTTCTACTGCCTCCGT 59.998 52.381 0.00 0.00 0.00 4.69
660 1172 1.053424 TGGTTTCTACTGCCTCCGTT 58.947 50.000 0.00 0.00 0.00 4.44
661 1173 1.001633 TGGTTTCTACTGCCTCCGTTC 59.998 52.381 0.00 0.00 0.00 3.95
662 1174 1.275573 GGTTTCTACTGCCTCCGTTCT 59.724 52.381 0.00 0.00 0.00 3.01
663 1175 2.338500 GTTTCTACTGCCTCCGTTCTG 58.662 52.381 0.00 0.00 0.00 3.02
664 1176 1.919240 TTCTACTGCCTCCGTTCTGA 58.081 50.000 0.00 0.00 0.00 3.27
665 1177 1.919240 TCTACTGCCTCCGTTCTGAA 58.081 50.000 0.00 0.00 0.00 3.02
666 1178 2.457598 TCTACTGCCTCCGTTCTGAAT 58.542 47.619 0.00 0.00 0.00 2.57
667 1179 2.832129 TCTACTGCCTCCGTTCTGAATT 59.168 45.455 0.00 0.00 0.00 2.17
668 1180 4.021229 TCTACTGCCTCCGTTCTGAATTA 58.979 43.478 0.00 0.00 0.00 1.40
669 1181 3.914426 ACTGCCTCCGTTCTGAATTAT 57.086 42.857 0.00 0.00 0.00 1.28
670 1182 4.222124 ACTGCCTCCGTTCTGAATTATT 57.778 40.909 0.00 0.00 0.00 1.40
671 1183 4.589908 ACTGCCTCCGTTCTGAATTATTT 58.410 39.130 0.00 0.00 0.00 1.40
672 1184 5.741011 ACTGCCTCCGTTCTGAATTATTTA 58.259 37.500 0.00 0.00 0.00 1.40
673 1185 6.357367 ACTGCCTCCGTTCTGAATTATTTAT 58.643 36.000 0.00 0.00 0.00 1.40
674 1186 6.483640 ACTGCCTCCGTTCTGAATTATTTATC 59.516 38.462 0.00 0.00 0.00 1.75
675 1187 5.465390 TGCCTCCGTTCTGAATTATTTATCG 59.535 40.000 0.00 0.00 0.00 2.92
676 1188 5.614887 GCCTCCGTTCTGAATTATTTATCGC 60.615 44.000 0.00 0.00 0.00 4.58
677 1189 5.465390 CCTCCGTTCTGAATTATTTATCGCA 59.535 40.000 0.00 0.00 0.00 5.10
678 1190 6.346919 CCTCCGTTCTGAATTATTTATCGCAG 60.347 42.308 0.00 0.00 0.00 5.18
679 1191 5.465390 TCCGTTCTGAATTATTTATCGCAGG 59.535 40.000 0.00 0.00 0.00 4.85
680 1192 5.236478 CCGTTCTGAATTATTTATCGCAGGT 59.764 40.000 0.00 0.00 0.00 4.00
681 1193 6.422701 CCGTTCTGAATTATTTATCGCAGGTA 59.577 38.462 0.00 0.00 0.00 3.08
682 1194 7.117812 CCGTTCTGAATTATTTATCGCAGGTAT 59.882 37.037 0.00 0.00 0.00 2.73
683 1195 7.952101 CGTTCTGAATTATTTATCGCAGGTATG 59.048 37.037 0.00 0.00 0.00 2.39
684 1196 7.905604 TCTGAATTATTTATCGCAGGTATGG 57.094 36.000 0.00 0.00 0.00 2.74
685 1197 7.676004 TCTGAATTATTTATCGCAGGTATGGA 58.324 34.615 0.00 0.00 0.00 3.41
686 1198 8.321353 TCTGAATTATTTATCGCAGGTATGGAT 58.679 33.333 0.00 0.00 0.00 3.41
687 1199 8.267620 TGAATTATTTATCGCAGGTATGGATG 57.732 34.615 0.00 0.00 0.00 3.51
688 1200 7.882791 TGAATTATTTATCGCAGGTATGGATGT 59.117 33.333 0.00 0.00 0.00 3.06
689 1201 9.378551 GAATTATTTATCGCAGGTATGGATGTA 57.621 33.333 0.00 0.00 0.00 2.29
690 1202 9.905713 AATTATTTATCGCAGGTATGGATGTAT 57.094 29.630 0.00 0.00 0.00 2.29
691 1203 8.942338 TTATTTATCGCAGGTATGGATGTATC 57.058 34.615 0.00 0.00 0.00 2.24
692 1204 6.605471 TTTATCGCAGGTATGGATGTATCT 57.395 37.500 0.00 0.00 0.00 1.98
693 1205 7.712204 TTTATCGCAGGTATGGATGTATCTA 57.288 36.000 0.00 0.00 0.00 1.98
694 1206 5.843673 ATCGCAGGTATGGATGTATCTAG 57.156 43.478 0.00 0.00 0.00 2.43
695 1207 4.918588 TCGCAGGTATGGATGTATCTAGA 58.081 43.478 0.00 0.00 0.00 2.43
696 1208 5.510430 TCGCAGGTATGGATGTATCTAGAT 58.490 41.667 10.73 10.73 0.00 1.98
697 1209 5.358160 TCGCAGGTATGGATGTATCTAGATG 59.642 44.000 15.79 0.00 0.00 2.90
698 1210 5.126222 CGCAGGTATGGATGTATCTAGATGT 59.874 44.000 15.79 1.25 0.00 3.06
699 1211 6.318900 CGCAGGTATGGATGTATCTAGATGTA 59.681 42.308 15.79 4.44 0.00 2.29
700 1212 7.013750 CGCAGGTATGGATGTATCTAGATGTAT 59.986 40.741 15.79 9.11 0.00 2.29
701 1213 8.700051 GCAGGTATGGATGTATCTAGATGTATT 58.300 37.037 15.79 0.00 0.00 1.89
730 1242 9.167311 AGTTCTAGATACATCCATTTTTGTGAC 57.833 33.333 0.00 0.00 0.00 3.67
731 1243 7.770801 TCTAGATACATCCATTTTTGTGACG 57.229 36.000 0.00 0.00 0.00 4.35
732 1244 7.552459 TCTAGATACATCCATTTTTGTGACGA 58.448 34.615 0.00 0.00 0.00 4.20
733 1245 6.668541 AGATACATCCATTTTTGTGACGAG 57.331 37.500 0.00 0.00 0.00 4.18
734 1246 6.173339 AGATACATCCATTTTTGTGACGAGT 58.827 36.000 0.00 0.00 0.00 4.18
735 1247 7.327975 AGATACATCCATTTTTGTGACGAGTA 58.672 34.615 0.00 0.00 0.00 2.59
736 1248 7.822334 AGATACATCCATTTTTGTGACGAGTAA 59.178 33.333 0.00 0.00 0.00 2.24
737 1249 6.817765 ACATCCATTTTTGTGACGAGTAAT 57.182 33.333 0.00 0.00 0.00 1.89
738 1250 7.214467 ACATCCATTTTTGTGACGAGTAATT 57.786 32.000 0.00 0.00 0.00 1.40
739 1251 7.657336 ACATCCATTTTTGTGACGAGTAATTT 58.343 30.769 0.00 0.00 0.00 1.82
740 1252 7.594758 ACATCCATTTTTGTGACGAGTAATTTG 59.405 33.333 0.00 0.00 0.00 2.32
741 1253 6.442952 TCCATTTTTGTGACGAGTAATTTGG 58.557 36.000 0.00 0.00 0.00 3.28
742 1254 6.263392 TCCATTTTTGTGACGAGTAATTTGGA 59.737 34.615 0.00 0.00 0.00 3.53
743 1255 6.920758 CCATTTTTGTGACGAGTAATTTGGAA 59.079 34.615 0.00 0.00 0.00 3.53
744 1256 7.096230 CCATTTTTGTGACGAGTAATTTGGAAC 60.096 37.037 0.00 0.00 0.00 3.62
745 1257 4.718858 TTGTGACGAGTAATTTGGAACG 57.281 40.909 0.00 0.00 0.00 3.95
746 1258 3.061322 TGTGACGAGTAATTTGGAACGG 58.939 45.455 0.00 0.00 0.00 4.44
747 1259 3.243805 TGTGACGAGTAATTTGGAACGGA 60.244 43.478 0.00 0.00 0.00 4.69
748 1260 3.930848 GTGACGAGTAATTTGGAACGGAT 59.069 43.478 0.00 0.00 0.00 4.18
749 1261 3.930229 TGACGAGTAATTTGGAACGGATG 59.070 43.478 0.00 0.00 0.00 3.51
750 1262 3.267483 ACGAGTAATTTGGAACGGATGG 58.733 45.455 0.00 0.00 0.00 3.51
751 1263 3.055675 ACGAGTAATTTGGAACGGATGGA 60.056 43.478 0.00 0.00 0.00 3.41
752 1264 3.555956 CGAGTAATTTGGAACGGATGGAG 59.444 47.826 0.00 0.00 0.00 3.86
753 1265 4.514401 GAGTAATTTGGAACGGATGGAGT 58.486 43.478 0.00 0.00 0.00 3.85
754 1266 5.667466 GAGTAATTTGGAACGGATGGAGTA 58.333 41.667 0.00 0.00 0.00 2.59
755 1267 6.248569 AGTAATTTGGAACGGATGGAGTAT 57.751 37.500 0.00 0.00 0.00 2.12
756 1268 6.659824 AGTAATTTGGAACGGATGGAGTATT 58.340 36.000 0.00 0.00 0.00 1.89
757 1269 5.835113 AATTTGGAACGGATGGAGTATTG 57.165 39.130 0.00 0.00 0.00 1.90
758 1270 4.561500 TTTGGAACGGATGGAGTATTGA 57.438 40.909 0.00 0.00 0.00 2.57
759 1271 4.771114 TTGGAACGGATGGAGTATTGAT 57.229 40.909 0.00 0.00 0.00 2.57
760 1272 4.771114 TGGAACGGATGGAGTATTGATT 57.229 40.909 0.00 0.00 0.00 2.57
761 1273 5.880164 TGGAACGGATGGAGTATTGATTA 57.120 39.130 0.00 0.00 0.00 1.75
818 1333 4.660938 AAGTGAAGTGCCCCGCCC 62.661 66.667 0.00 0.00 0.00 6.13
862 1377 6.652481 AGTGAATGAAAGTATGAAGACCACTG 59.348 38.462 0.00 0.00 0.00 3.66
886 1402 1.460743 CACACAGACCATACAAGCACG 59.539 52.381 0.00 0.00 0.00 5.34
1278 1794 3.241530 AGGAACCTGCACGCCTCA 61.242 61.111 0.00 0.00 0.00 3.86
1301 1817 3.998672 GTCCAGGTCGTCGCCCAA 61.999 66.667 0.00 0.00 0.00 4.12
1434 2139 2.851263 ACAGGCCTACGATGAACAAA 57.149 45.000 3.98 0.00 0.00 2.83
1572 2538 1.065418 ACATCTGATTTCCGGGTCACC 60.065 52.381 0.00 0.00 0.00 4.02
1593 2559 0.663568 GTCCTCGGATGGCGTATTCG 60.664 60.000 0.00 0.00 39.22 3.34
1712 2899 8.253113 ACTTTTCCCAATCTTAATGTGCTTATG 58.747 33.333 0.00 0.00 0.00 1.90
1713 2900 5.772825 TCCCAATCTTAATGTGCTTATGC 57.227 39.130 0.00 0.00 40.20 3.14
1724 2911 3.494850 GCTTATGCAGCCCTAACCA 57.505 52.632 0.00 0.00 43.65 3.67
1725 2912 1.986882 GCTTATGCAGCCCTAACCAT 58.013 50.000 0.00 0.00 43.65 3.55
1726 2913 1.610522 GCTTATGCAGCCCTAACCATG 59.389 52.381 0.00 0.00 43.65 3.66
1727 2914 2.233271 CTTATGCAGCCCTAACCATGG 58.767 52.381 11.19 11.19 0.00 3.66
1728 2915 1.517238 TATGCAGCCCTAACCATGGA 58.483 50.000 21.47 0.00 0.00 3.41
1735 3025 1.072965 GCCCTAACCATGGAGATCAGG 59.927 57.143 21.47 15.42 0.00 3.86
1739 3029 2.431954 AACCATGGAGATCAGGCAAG 57.568 50.000 21.47 0.00 0.00 4.01
1804 3141 4.712763 CAAAGCAGACAGGTTCGATTAAC 58.287 43.478 0.00 0.00 36.83 2.01
2113 3450 5.355350 ACGGCATCTGAAATTTTTCTAGGAG 59.645 40.000 4.80 0.00 38.02 3.69
2139 3477 6.749923 AAAGAATACAGAGGTTCAGCAATC 57.250 37.500 0.00 0.00 0.00 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 4.836175 ACTACCCCATCCGTTTTGATTTTT 59.164 37.500 0.00 0.00 0.00 1.94
19 20 4.412843 ACTACCCCATCCGTTTTGATTTT 58.587 39.130 0.00 0.00 0.00 1.82
20 21 4.042271 ACTACCCCATCCGTTTTGATTT 57.958 40.909 0.00 0.00 0.00 2.17
21 22 3.732048 ACTACCCCATCCGTTTTGATT 57.268 42.857 0.00 0.00 0.00 2.57
22 23 3.118149 GGTACTACCCCATCCGTTTTGAT 60.118 47.826 0.00 0.00 30.04 2.57
23 24 2.236893 GGTACTACCCCATCCGTTTTGA 59.763 50.000 0.00 0.00 30.04 2.69
24 25 2.237893 AGGTACTACCCCATCCGTTTTG 59.762 50.000 1.19 0.00 39.75 2.44
25 26 2.554563 AGGTACTACCCCATCCGTTTT 58.445 47.619 1.19 0.00 39.75 2.43
26 27 2.259014 AGGTACTACCCCATCCGTTT 57.741 50.000 1.19 0.00 39.75 3.60
47 48 1.864711 CGGCCCATTGTGTAGATAACG 59.135 52.381 0.00 0.00 0.00 3.18
71 72 4.704833 ACAGCCGAGCGGTGCAAT 62.705 61.111 10.94 0.00 44.15 3.56
72 73 4.927782 AACAGCCGAGCGGTGCAA 62.928 61.111 10.94 0.00 44.15 4.08
94 97 4.365505 TGCCGACGATTCGCACCA 62.366 61.111 5.86 0.00 44.43 4.17
95 98 3.554692 CTGCCGACGATTCGCACC 61.555 66.667 5.86 0.00 44.43 5.01
103 106 4.323477 CCCCCAAACTGCCGACGA 62.323 66.667 0.00 0.00 0.00 4.20
130 133 2.652941 TTCCATTTTCAATCGCTGCC 57.347 45.000 0.00 0.00 0.00 4.85
133 136 6.046593 TCGTAGTATTCCATTTTCAATCGCT 58.953 36.000 0.00 0.00 0.00 4.93
139 142 6.198650 TCGACTCGTAGTATTCCATTTTCA 57.801 37.500 0.00 0.00 0.00 2.69
140 143 7.515957 TTTCGACTCGTAGTATTCCATTTTC 57.484 36.000 0.00 0.00 0.00 2.29
154 157 2.811431 TGCATTTTCCATTTCGACTCGT 59.189 40.909 0.00 0.00 0.00 4.18
175 178 2.557452 CCCAGGAGCTTGGTTACCATTT 60.557 50.000 4.38 0.00 36.45 2.32
257 262 7.667635 TGTTCAACATGTATAAGTTTCCATGGA 59.332 33.333 11.44 11.44 39.14 3.41
258 263 7.825681 TGTTCAACATGTATAAGTTTCCATGG 58.174 34.615 4.97 4.97 39.14 3.66
332 342 4.974399 TGGGCCGGAATTTTGTTTATTTT 58.026 34.783 5.05 0.00 0.00 1.82
650 1162 6.346919 CGATAAATAATTCAGAACGGAGGCAG 60.347 42.308 0.00 0.00 0.00 4.85
653 1165 5.465390 TGCGATAAATAATTCAGAACGGAGG 59.535 40.000 0.00 0.00 0.00 4.30
654 1166 6.346919 CCTGCGATAAATAATTCAGAACGGAG 60.347 42.308 0.00 0.00 36.71 4.63
655 1167 5.465390 CCTGCGATAAATAATTCAGAACGGA 59.535 40.000 0.00 0.00 0.00 4.69
656 1168 5.236478 ACCTGCGATAAATAATTCAGAACGG 59.764 40.000 0.00 0.00 0.00 4.44
657 1169 6.287107 ACCTGCGATAAATAATTCAGAACG 57.713 37.500 0.00 0.00 0.00 3.95
658 1170 8.230486 CCATACCTGCGATAAATAATTCAGAAC 58.770 37.037 0.00 0.00 0.00 3.01
659 1171 8.154203 TCCATACCTGCGATAAATAATTCAGAA 58.846 33.333 0.00 0.00 0.00 3.02
660 1172 7.676004 TCCATACCTGCGATAAATAATTCAGA 58.324 34.615 0.00 0.00 0.00 3.27
661 1173 7.905604 TCCATACCTGCGATAAATAATTCAG 57.094 36.000 0.00 0.00 0.00 3.02
662 1174 7.882791 ACATCCATACCTGCGATAAATAATTCA 59.117 33.333 0.00 0.00 0.00 2.57
663 1175 8.268850 ACATCCATACCTGCGATAAATAATTC 57.731 34.615 0.00 0.00 0.00 2.17
664 1176 9.905713 ATACATCCATACCTGCGATAAATAATT 57.094 29.630 0.00 0.00 0.00 1.40
665 1177 9.547753 GATACATCCATACCTGCGATAAATAAT 57.452 33.333 0.00 0.00 0.00 1.28
666 1178 8.758829 AGATACATCCATACCTGCGATAAATAA 58.241 33.333 0.00 0.00 0.00 1.40
667 1179 8.306313 AGATACATCCATACCTGCGATAAATA 57.694 34.615 0.00 0.00 0.00 1.40
668 1180 7.187824 AGATACATCCATACCTGCGATAAAT 57.812 36.000 0.00 0.00 0.00 1.40
669 1181 6.605471 AGATACATCCATACCTGCGATAAA 57.395 37.500 0.00 0.00 0.00 1.40
670 1182 7.116736 TCTAGATACATCCATACCTGCGATAA 58.883 38.462 0.00 0.00 0.00 1.75
671 1183 6.659824 TCTAGATACATCCATACCTGCGATA 58.340 40.000 0.00 0.00 0.00 2.92
672 1184 5.510430 TCTAGATACATCCATACCTGCGAT 58.490 41.667 0.00 0.00 0.00 4.58
673 1185 4.918588 TCTAGATACATCCATACCTGCGA 58.081 43.478 0.00 0.00 0.00 5.10
674 1186 5.126222 ACATCTAGATACATCCATACCTGCG 59.874 44.000 4.54 0.00 0.00 5.18
675 1187 6.537453 ACATCTAGATACATCCATACCTGC 57.463 41.667 4.54 0.00 0.00 4.85
704 1216 9.167311 GTCACAAAAATGGATGTATCTAGAACT 57.833 33.333 0.00 0.00 0.00 3.01
705 1217 8.116753 CGTCACAAAAATGGATGTATCTAGAAC 58.883 37.037 0.00 0.00 0.00 3.01
706 1218 8.038351 TCGTCACAAAAATGGATGTATCTAGAA 58.962 33.333 0.00 0.00 0.00 2.10
707 1219 7.552459 TCGTCACAAAAATGGATGTATCTAGA 58.448 34.615 0.00 0.00 0.00 2.43
708 1220 7.492669 ACTCGTCACAAAAATGGATGTATCTAG 59.507 37.037 0.00 0.00 0.00 2.43
709 1221 7.327975 ACTCGTCACAAAAATGGATGTATCTA 58.672 34.615 0.00 0.00 0.00 1.98
710 1222 6.173339 ACTCGTCACAAAAATGGATGTATCT 58.827 36.000 0.00 0.00 0.00 1.98
711 1223 6.422776 ACTCGTCACAAAAATGGATGTATC 57.577 37.500 0.00 0.00 0.00 2.24
712 1224 7.915293 TTACTCGTCACAAAAATGGATGTAT 57.085 32.000 0.00 0.00 0.00 2.29
713 1225 7.915293 ATTACTCGTCACAAAAATGGATGTA 57.085 32.000 0.00 0.00 0.00 2.29
714 1226 6.817765 ATTACTCGTCACAAAAATGGATGT 57.182 33.333 0.00 0.00 0.00 3.06
715 1227 7.062138 CCAAATTACTCGTCACAAAAATGGATG 59.938 37.037 0.00 0.00 0.00 3.51
716 1228 7.040062 TCCAAATTACTCGTCACAAAAATGGAT 60.040 33.333 0.00 0.00 0.00 3.41
717 1229 6.263392 TCCAAATTACTCGTCACAAAAATGGA 59.737 34.615 0.00 0.00 0.00 3.41
718 1230 6.442952 TCCAAATTACTCGTCACAAAAATGG 58.557 36.000 0.00 0.00 0.00 3.16
719 1231 7.357206 CGTTCCAAATTACTCGTCACAAAAATG 60.357 37.037 0.00 0.00 0.00 2.32
720 1232 6.635239 CGTTCCAAATTACTCGTCACAAAAAT 59.365 34.615 0.00 0.00 0.00 1.82
721 1233 5.966503 CGTTCCAAATTACTCGTCACAAAAA 59.033 36.000 0.00 0.00 0.00 1.94
722 1234 5.503498 CGTTCCAAATTACTCGTCACAAAA 58.497 37.500 0.00 0.00 0.00 2.44
723 1235 4.024725 CCGTTCCAAATTACTCGTCACAAA 60.025 41.667 0.00 0.00 0.00 2.83
724 1236 3.495377 CCGTTCCAAATTACTCGTCACAA 59.505 43.478 0.00 0.00 0.00 3.33
725 1237 3.061322 CCGTTCCAAATTACTCGTCACA 58.939 45.455 0.00 0.00 0.00 3.58
726 1238 3.319755 TCCGTTCCAAATTACTCGTCAC 58.680 45.455 0.00 0.00 0.00 3.67
727 1239 3.663995 TCCGTTCCAAATTACTCGTCA 57.336 42.857 0.00 0.00 0.00 4.35
728 1240 3.308866 CCATCCGTTCCAAATTACTCGTC 59.691 47.826 0.00 0.00 0.00 4.20
729 1241 3.055675 TCCATCCGTTCCAAATTACTCGT 60.056 43.478 0.00 0.00 0.00 4.18
730 1242 3.527533 TCCATCCGTTCCAAATTACTCG 58.472 45.455 0.00 0.00 0.00 4.18
731 1243 4.514401 ACTCCATCCGTTCCAAATTACTC 58.486 43.478 0.00 0.00 0.00 2.59
732 1244 4.569719 ACTCCATCCGTTCCAAATTACT 57.430 40.909 0.00 0.00 0.00 2.24
733 1245 6.540914 TCAATACTCCATCCGTTCCAAATTAC 59.459 38.462 0.00 0.00 0.00 1.89
734 1246 6.654959 TCAATACTCCATCCGTTCCAAATTA 58.345 36.000 0.00 0.00 0.00 1.40
735 1247 5.505780 TCAATACTCCATCCGTTCCAAATT 58.494 37.500 0.00 0.00 0.00 1.82
736 1248 5.110814 TCAATACTCCATCCGTTCCAAAT 57.889 39.130 0.00 0.00 0.00 2.32
737 1249 4.561500 TCAATACTCCATCCGTTCCAAA 57.438 40.909 0.00 0.00 0.00 3.28
738 1250 4.771114 ATCAATACTCCATCCGTTCCAA 57.229 40.909 0.00 0.00 0.00 3.53
739 1251 4.771114 AATCAATACTCCATCCGTTCCA 57.229 40.909 0.00 0.00 0.00 3.53
740 1252 7.562454 TTTTAATCAATACTCCATCCGTTCC 57.438 36.000 0.00 0.00 0.00 3.62
770 1282 9.038803 GTTTCTCTGTATAAAAGGGTTATACCG 57.961 37.037 11.72 7.29 39.83 4.02
826 1341 9.868277 CATACTTTCATTCACTTTACTCTCTCT 57.132 33.333 0.00 0.00 0.00 3.10
827 1342 9.862371 TCATACTTTCATTCACTTTACTCTCTC 57.138 33.333 0.00 0.00 0.00 3.20
862 1377 3.000727 GCTTGTATGGTCTGTGTGGTAC 58.999 50.000 0.00 0.00 0.00 3.34
1048 1564 4.099170 CTCCTCGCCGTCGTCGTT 62.099 66.667 0.71 0.00 36.96 3.85
1278 1794 2.697761 CGACGACCTGGACGTGGAT 61.698 63.158 27.34 3.98 43.97 3.41
1411 1934 4.481368 TGTTCATCGTAGGCCTGTTTAT 57.519 40.909 17.99 0.14 0.00 1.40
1572 2538 0.389391 AATACGCCATCCGAGGACAG 59.611 55.000 0.00 0.00 41.02 3.51
1593 2559 0.393132 GCAGAGGTTACTTGGCTCCC 60.393 60.000 0.00 0.00 0.00 4.30
1686 2873 6.670695 AAGCACATTAAGATTGGGAAAAGT 57.329 33.333 0.00 0.00 0.00 2.66
1712 2899 0.475906 ATCTCCATGGTTAGGGCTGC 59.524 55.000 12.58 0.00 0.00 5.25
1713 2900 1.770658 TGATCTCCATGGTTAGGGCTG 59.229 52.381 12.58 0.00 0.00 4.85
1715 2902 1.072965 CCTGATCTCCATGGTTAGGGC 59.927 57.143 12.58 0.00 0.00 5.19
1716 2903 1.072965 GCCTGATCTCCATGGTTAGGG 59.927 57.143 12.58 8.94 0.00 3.53
1717 2904 1.770658 TGCCTGATCTCCATGGTTAGG 59.229 52.381 12.58 9.39 0.00 2.69
1718 2905 3.474600 CTTGCCTGATCTCCATGGTTAG 58.525 50.000 12.58 2.42 0.00 2.34
1721 2908 0.106819 GCTTGCCTGATCTCCATGGT 60.107 55.000 12.58 0.00 0.00 3.55
1723 2910 2.768698 CTAGCTTGCCTGATCTCCATG 58.231 52.381 0.00 0.00 0.00 3.66
1724 2911 1.072015 GCTAGCTTGCCTGATCTCCAT 59.928 52.381 9.15 0.00 0.00 3.41
1725 2912 0.467384 GCTAGCTTGCCTGATCTCCA 59.533 55.000 9.15 0.00 0.00 3.86
1726 2913 0.467384 TGCTAGCTTGCCTGATCTCC 59.533 55.000 17.57 0.00 0.00 3.71
1727 2914 2.547299 ATGCTAGCTTGCCTGATCTC 57.453 50.000 17.57 0.00 0.00 2.75
1728 2915 3.294038 AAATGCTAGCTTGCCTGATCT 57.706 42.857 17.57 0.00 0.00 2.75
1735 3025 8.993121 TCTCATTATACTAAAATGCTAGCTTGC 58.007 33.333 17.23 13.56 34.89 4.01
2113 3450 4.216257 TGCTGAACCTCTGTATTCTTTTGC 59.784 41.667 0.00 0.00 0.00 3.68
2139 3477 6.483640 GCACAAACCCTTCTAGGTAGATTATG 59.516 42.308 0.00 0.00 40.05 1.90


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

AutoCloner maintained by Alex Coulton.