Multiple sequence alignment - TraesCS3A01G508000

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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 TraesCS3A01G508000 chr3A 100.000 3401 0 0 714 4114 729311182 729314582 0.000000e+00 6281.0
1 TraesCS3A01G508000 chr3A 94.702 1944 82 12 1871 3808 729407499 729405571 0.000000e+00 3000.0
2 TraesCS3A01G508000 chr3A 100.000 402 0 0 1 402 729310469 729310870 0.000000e+00 743.0
3 TraesCS3A01G508000 chr3A 85.399 363 21 13 1437 1786 729408022 729407679 8.460000e-92 348.0
4 TraesCS3A01G508000 chr3A 85.507 345 32 12 67 400 729421919 729421582 1.090000e-90 344.0
5 TraesCS3A01G508000 chr3A 89.098 266 23 5 3851 4114 729394065 729393804 3.970000e-85 326.0
6 TraesCS3A01G508000 chr3A 82.552 384 24 17 811 1188 729421482 729421136 8.650000e-77 298.0
7 TraesCS3A01G508000 chr3A 88.776 196 20 2 1428 1622 654399440 654399634 5.310000e-59 239.0
8 TraesCS3A01G508000 chr3A 98.361 61 1 0 1383 1443 729408300 729408240 1.560000e-19 108.0
9 TraesCS3A01G508000 chr3D 95.903 2880 64 16 1284 4114 599263882 599266756 0.000000e+00 4615.0
10 TraesCS3A01G508000 chr3D 91.722 1945 136 16 1871 3808 599197160 599195234 0.000000e+00 2676.0
11 TraesCS3A01G508000 chr3D 93.062 418 3 5 839 1245 599263476 599263878 4.580000e-164 588.0
12 TraesCS3A01G508000 chr3D 92.950 383 19 6 1 380 599262899 599263276 6.010000e-153 551.0
13 TraesCS3A01G508000 chr3D 80.469 640 48 37 823 1443 599198464 599197883 6.360000e-113 418.0
14 TraesCS3A01G508000 chr3D 85.531 311 21 7 1482 1786 599197608 599197316 1.860000e-78 303.0
15 TraesCS3A01G508000 chr3D 87.547 265 23 5 3851 4114 599179164 599178909 8.650000e-77 298.0
16 TraesCS3A01G508000 chr3D 92.593 108 1 1 714 821 599263315 599263415 9.210000e-32 148.0
17 TraesCS3A01G508000 chr3D 96.000 75 3 0 323 397 599198933 599198859 5.580000e-24 122.0
18 TraesCS3A01G508000 chr3B 97.527 647 15 1 2012 2657 807175766 807176412 0.000000e+00 1105.0
19 TraesCS3A01G508000 chr3B 85.646 209 23 6 1428 1631 684104947 684105153 3.220000e-51 213.0
20 TraesCS3A01G508000 chr3B 86.577 149 20 0 1466 1614 683784054 683784202 9.150000e-37 165.0
21 TraesCS3A01G508000 chr7B 89.127 653 20 8 1284 1905 38467357 38466725 0.000000e+00 765.0
22 TraesCS3A01G508000 chr7B 94.340 53 3 0 1194 1246 38467412 38467360 9.480000e-12 82.4
23 TraesCS3A01G508000 chr6B 88.950 181 20 0 1437 1617 232864520 232864700 1.490000e-54 224.0
24 TraesCS3A01G508000 chr6B 85.165 182 24 2 1442 1620 693932929 693933110 2.530000e-42 183.0
25 TraesCS3A01G508000 chr6D 87.179 195 23 2 1428 1621 456422332 456422525 1.930000e-53 220.0
26 TraesCS3A01G508000 chr5B 88.333 180 21 0 1437 1616 380670489 380670310 2.490000e-52 217.0


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 TraesCS3A01G508000 chr3A 729310469 729314582 4113 False 3512.00 6281 100.000000 1 4114 2 chr3A.!!$F2 4113
1 TraesCS3A01G508000 chr3A 729405571 729408300 2729 True 1152.00 3000 92.820667 1383 3808 3 chr3A.!!$R2 2425
2 TraesCS3A01G508000 chr3A 729421136 729421919 783 True 321.00 344 84.029500 67 1188 2 chr3A.!!$R3 1121
3 TraesCS3A01G508000 chr3D 599262899 599266756 3857 False 1475.50 4615 93.627000 1 4114 4 chr3D.!!$F1 4113
4 TraesCS3A01G508000 chr3D 599195234 599198933 3699 True 879.75 2676 88.430500 323 3808 4 chr3D.!!$R2 3485
5 TraesCS3A01G508000 chr3B 807175766 807176412 646 False 1105.00 1105 97.527000 2012 2657 1 chr3B.!!$F3 645
6 TraesCS3A01G508000 chr7B 38466725 38467412 687 True 423.70 765 91.733500 1194 1905 2 chr7B.!!$R1 711

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
981 1250 0.035915 GAGGAACCCCTTGTCTCTGC 60.036 60.0 0.0 0.00 44.53 4.26 F
1031 1300 0.105607 AATCGGAGGGGTAGGAGGAC 60.106 60.0 0.0 0.00 0.00 3.85 F
1628 2216 0.741927 GTTTGGCCATGGCTGCATTC 60.742 55.0 34.7 18.26 41.60 2.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2351 3097 0.104120 TGTCCATTCATACGCCTCCG 59.896 55.000 0.0 0.0 41.14 4.63 R
2669 3415 1.227823 CAGAACCACCACAGCGGAA 60.228 57.895 0.0 0.0 38.63 4.30 R
3402 4148 3.381045 GTGAAACTTGCAACTTTAGGGC 58.619 45.455 0.0 0.0 0.00 5.19 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
31 32 1.745489 GGTCAGGATTGCCCACGAC 60.745 63.158 0.00 0.00 38.30 4.34
94 95 4.378774 CAGCATCATTTACCTCTCCTGAG 58.621 47.826 0.00 0.00 39.92 3.35
101 102 5.548056 TCATTTACCTCTCCTGAGTTTTCCT 59.452 40.000 0.00 0.00 38.61 3.36
102 103 5.485209 TTTACCTCTCCTGAGTTTTCCTC 57.515 43.478 0.00 0.00 38.61 3.71
103 104 3.268034 ACCTCTCCTGAGTTTTCCTCT 57.732 47.619 0.00 0.00 41.11 3.69
111 112 6.043243 TCTCCTGAGTTTTCCTCTAACACAAT 59.957 38.462 0.00 0.00 41.11 2.71
177 178 1.134965 CGAGAACGCCCAATCTCTCTT 60.135 52.381 0.00 0.00 39.92 2.85
226 227 2.449464 CCACTCTCATTGGCAATGGAA 58.551 47.619 33.20 22.32 39.38 3.53
288 294 3.515330 ATCATAAACTGGCAGCAAAGC 57.485 42.857 15.89 0.00 0.00 3.51
289 295 2.237643 TCATAAACTGGCAGCAAAGCA 58.762 42.857 15.89 0.00 35.83 3.91
290 296 2.229543 TCATAAACTGGCAGCAAAGCAG 59.770 45.455 15.89 0.00 35.83 4.24
386 397 1.451449 CTCCTAGCTCTCCCTCCCTA 58.549 60.000 0.00 0.00 0.00 3.53
388 399 0.250989 CCTAGCTCTCCCTCCCTACG 60.251 65.000 0.00 0.00 0.00 3.51
740 751 1.824230 TCTCTCTCTCTTGCCAAGCTC 59.176 52.381 0.00 0.00 0.00 4.09
741 752 1.826720 CTCTCTCTCTTGCCAAGCTCT 59.173 52.381 0.00 0.00 0.00 4.09
742 753 1.824230 TCTCTCTCTTGCCAAGCTCTC 59.176 52.381 0.00 0.00 0.00 3.20
743 754 1.826720 CTCTCTCTTGCCAAGCTCTCT 59.173 52.381 0.00 0.00 0.00 3.10
744 755 1.824230 TCTCTCTTGCCAAGCTCTCTC 59.176 52.381 0.00 0.00 0.00 3.20
745 756 0.901124 TCTCTTGCCAAGCTCTCTCC 59.099 55.000 0.00 0.00 0.00 3.71
746 757 0.903942 CTCTTGCCAAGCTCTCTCCT 59.096 55.000 0.00 0.00 0.00 3.69
894 1163 2.268920 GCGGCCACTCCATCTCAA 59.731 61.111 2.24 0.00 34.01 3.02
895 1164 1.153086 GCGGCCACTCCATCTCAAT 60.153 57.895 2.24 0.00 34.01 2.57
896 1165 1.162800 GCGGCCACTCCATCTCAATC 61.163 60.000 2.24 0.00 34.01 2.67
897 1166 0.533755 CGGCCACTCCATCTCAATCC 60.534 60.000 2.24 0.00 34.01 3.01
898 1167 0.179006 GGCCACTCCATCTCAATCCC 60.179 60.000 0.00 0.00 34.01 3.85
899 1168 0.533755 GCCACTCCATCTCAATCCCG 60.534 60.000 0.00 0.00 0.00 5.14
900 1169 0.107456 CCACTCCATCTCAATCCCGG 59.893 60.000 0.00 0.00 0.00 5.73
903 1172 1.123077 CTCCATCTCAATCCCGGTCA 58.877 55.000 0.00 0.00 0.00 4.02
967 1236 4.722526 TTCATCCACCAAGAAAGAGGAA 57.277 40.909 0.00 0.00 31.17 3.36
979 1248 2.424684 AAGAGGAACCCCTTGTCTCT 57.575 50.000 0.00 0.00 44.53 3.10
980 1249 1.650528 AGAGGAACCCCTTGTCTCTG 58.349 55.000 0.00 0.00 44.53 3.35
981 1250 0.035915 GAGGAACCCCTTGTCTCTGC 60.036 60.000 0.00 0.00 44.53 4.26
982 1251 0.474660 AGGAACCCCTTGTCTCTGCT 60.475 55.000 0.00 0.00 40.78 4.24
983 1252 0.322008 GGAACCCCTTGTCTCTGCTG 60.322 60.000 0.00 0.00 0.00 4.41
1027 1296 1.152610 CGGAATCGGAGGGGTAGGA 60.153 63.158 0.00 0.00 0.00 2.94
1031 1300 0.105607 AATCGGAGGGGTAGGAGGAC 60.106 60.000 0.00 0.00 0.00 3.85
1246 1548 3.356639 CTGCTAAGCTCGGCGGTGA 62.357 63.158 7.21 0.00 0.00 4.02
1247 1549 2.886124 GCTAAGCTCGGCGGTGAC 60.886 66.667 7.21 0.00 0.00 3.67
1248 1550 2.202756 CTAAGCTCGGCGGTGACC 60.203 66.667 7.21 0.00 0.00 4.02
1249 1551 2.992689 TAAGCTCGGCGGTGACCA 60.993 61.111 7.21 0.00 0.00 4.02
1250 1552 3.291101 TAAGCTCGGCGGTGACCAC 62.291 63.158 7.21 0.00 0.00 4.16
1269 1571 2.941891 CGCAGCTCGTGTTCTAAAAA 57.058 45.000 0.00 0.00 0.00 1.94
1270 1572 3.455619 CGCAGCTCGTGTTCTAAAAAT 57.544 42.857 0.00 0.00 0.00 1.82
1271 1573 3.408150 CGCAGCTCGTGTTCTAAAAATC 58.592 45.455 0.00 0.00 0.00 2.17
1272 1574 3.725010 CGCAGCTCGTGTTCTAAAAATCC 60.725 47.826 0.00 0.00 0.00 3.01
1273 1575 3.188460 GCAGCTCGTGTTCTAAAAATCCA 59.812 43.478 0.00 0.00 0.00 3.41
1274 1576 4.712763 CAGCTCGTGTTCTAAAAATCCAC 58.287 43.478 0.00 0.00 0.00 4.02
1276 1578 3.185797 GCTCGTGTTCTAAAAATCCACGT 59.814 43.478 9.85 0.00 46.45 4.49
1277 1579 4.665897 GCTCGTGTTCTAAAAATCCACGTC 60.666 45.833 9.85 1.40 46.45 4.34
1278 1580 3.742369 TCGTGTTCTAAAAATCCACGTCC 59.258 43.478 9.85 0.00 46.45 4.79
1279 1581 3.744426 CGTGTTCTAAAAATCCACGTCCT 59.256 43.478 0.00 0.00 42.72 3.85
1280 1582 4.143179 CGTGTTCTAAAAATCCACGTCCTC 60.143 45.833 0.00 0.00 42.72 3.71
1281 1583 4.753107 GTGTTCTAAAAATCCACGTCCTCA 59.247 41.667 0.00 0.00 0.00 3.86
1282 1584 4.753107 TGTTCTAAAAATCCACGTCCTCAC 59.247 41.667 0.00 0.00 0.00 3.51
1323 1625 4.754322 TCTTGGGAAAGTTTGTTTGCTTC 58.246 39.130 0.00 0.00 0.00 3.86
1447 1999 3.722295 CGTGCGTGATTTGCGGGT 61.722 61.111 0.00 0.00 34.24 5.28
1448 2000 2.384309 CGTGCGTGATTTGCGGGTA 61.384 57.895 0.00 0.00 34.24 3.69
1449 2001 1.133869 GTGCGTGATTTGCGGGTAC 59.866 57.895 0.00 0.00 34.24 3.34
1512 2076 2.062361 CTGCACTTGCGCTGGTTCAA 62.062 55.000 9.73 0.00 45.83 2.69
1579 2159 1.939934 TGGTTCAGCTTCGACAGTTTG 59.060 47.619 0.00 0.00 0.00 2.93
1622 2210 3.683937 GCACGTTTGGCCATGGCT 61.684 61.111 34.70 12.67 41.60 4.75
1623 2211 2.259204 CACGTTTGGCCATGGCTG 59.741 61.111 34.70 20.70 41.60 4.85
1624 2212 3.683937 ACGTTTGGCCATGGCTGC 61.684 61.111 34.70 20.50 41.60 5.25
1625 2213 3.682885 CGTTTGGCCATGGCTGCA 61.683 61.111 34.70 22.94 41.60 4.41
1626 2214 2.983791 GTTTGGCCATGGCTGCAT 59.016 55.556 34.70 0.00 41.60 3.96
1627 2215 1.297364 GTTTGGCCATGGCTGCATT 59.703 52.632 34.70 0.00 41.60 3.56
1628 2216 0.741927 GTTTGGCCATGGCTGCATTC 60.742 55.000 34.70 18.26 41.60 2.67
1629 2217 0.905809 TTTGGCCATGGCTGCATTCT 60.906 50.000 34.70 0.00 41.60 2.40
1630 2218 1.324740 TTGGCCATGGCTGCATTCTC 61.325 55.000 34.70 16.78 41.60 2.87
1631 2219 2.719979 GCCATGGCTGCATTCTCG 59.280 61.111 29.98 0.00 38.26 4.04
1632 2220 2.719979 CCATGGCTGCATTCTCGC 59.280 61.111 0.00 0.00 0.00 5.03
1633 2221 2.326897 CATGGCTGCATTCTCGCG 59.673 61.111 0.00 0.00 33.35 5.87
1678 2297 9.299963 CGCATCAATTTCTTGGAATAATGTTTA 57.700 29.630 0.00 0.00 32.95 2.01
1732 2352 1.068588 GGTTGCTCCTTTCAAACACCC 59.931 52.381 0.00 0.00 31.75 4.61
1822 2478 8.343168 TCAAAATTTTCATAGACGGGTAATGT 57.657 30.769 0.00 0.00 0.00 2.71
1842 2498 3.785887 TGTAGTTTTCCTGGCCATATCCT 59.214 43.478 5.51 0.05 0.00 3.24
1940 2681 5.990996 ACATCATTGTTTGGACCATGAAAAC 59.009 36.000 0.00 0.00 40.18 2.43
1995 2740 5.089970 TGGCAGTATATATTAGCAGCCAG 57.910 43.478 13.02 0.00 45.10 4.85
2194 2940 2.528564 ACACCCATCCAAAATCCACAG 58.471 47.619 0.00 0.00 0.00 3.66
2295 3041 2.417107 GCAAATGTCCGCATCCATTTCA 60.417 45.455 0.00 0.00 38.79 2.69
2351 3097 5.435686 TGATGGTTATATGCTGGGGTATC 57.564 43.478 0.00 0.00 0.00 2.24
2514 3260 7.046652 ACATTGTCCTTATCTCATCAGTTCAG 58.953 38.462 0.00 0.00 0.00 3.02
2591 3337 1.293924 CTCTTATTGGTGGAGCTGCG 58.706 55.000 0.00 0.00 0.00 5.18
2669 3415 5.112686 CAAGAGCTATTAGAGGCGTTTCTT 58.887 41.667 0.00 0.00 0.00 2.52
2944 3690 3.751518 AGACGTTTGGGCAACTTATCTT 58.248 40.909 0.00 0.00 32.53 2.40
3402 4148 6.390987 AATTTCGTCTTAGTTAGCGTTGAG 57.609 37.500 0.00 0.00 0.00 3.02
3618 4369 3.630312 GTGTTGTGTTGTGTATGTCCCTT 59.370 43.478 0.00 0.00 0.00 3.95
3655 4406 0.395586 TACCATGGGATTGGCACAGC 60.396 55.000 18.09 0.00 42.39 4.40
3695 4447 1.811679 GTCTGCTAGCCGAACCAGC 60.812 63.158 13.29 0.00 35.82 4.85
3766 4518 1.884235 AGCCCTGTGAAGTTTCTTCG 58.116 50.000 5.28 0.00 0.00 3.79
3893 4645 0.524816 CAATCATGAGTGCCAAGCGC 60.525 55.000 10.61 0.00 39.59 5.92
3916 4668 4.260375 CGAGTAATGTAATGCCACAAGAGC 60.260 45.833 0.00 0.00 30.84 4.09
3956 4708 5.048294 CACCTTGTGGGGTTATGTCTAAAAC 60.048 44.000 0.00 0.00 37.52 2.43
3958 4710 5.414765 CCTTGTGGGGTTATGTCTAAAACTC 59.585 44.000 0.00 0.00 0.00 3.01
4023 4775 8.865420 AAAAAGTCTAAAATCCCCTAAGTCTC 57.135 34.615 0.00 0.00 0.00 3.36
4054 4806 1.295357 TGCCATGGTTAGCACGAACG 61.295 55.000 14.67 0.00 33.08 3.95
4092 4845 7.067494 GGTAAAGGTACTACACGGAAGATCTAA 59.933 40.741 0.00 0.00 38.49 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.124921 CGTGGTCGTGGGCAATCC 61.125 66.667 0.00 0.00 0.00 3.01
45 46 2.252260 CCGGCTGAAGTTTGCGTG 59.748 61.111 0.00 0.00 0.00 5.34
46 47 2.203153 ACCGGCTGAAGTTTGCGT 60.203 55.556 0.00 0.00 0.00 5.24
75 76 6.317391 GGAAAACTCAGGAGAGGTAAATGATG 59.683 42.308 2.79 0.00 42.21 3.07
111 112 8.325282 CGTGCGTGACATAAAAGAAGATAATTA 58.675 33.333 0.00 0.00 0.00 1.40
177 178 4.055360 GAGATCGACGATGAGAGAGAGAA 58.945 47.826 16.49 0.00 0.00 2.87
226 227 2.458620 GGTACTCTCCCACTACTGCTT 58.541 52.381 0.00 0.00 0.00 3.91
289 295 7.108241 GAAAAGATTCTTAGCTGCTGCTGCT 62.108 44.000 31.60 31.60 40.08 4.24
290 296 4.964556 GAAAAGATTCTTAGCTGCTGCTGC 60.965 45.833 26.48 21.92 40.08 5.25
894 1163 1.345715 GGAGTGGGATTGACCGGGAT 61.346 60.000 6.32 0.00 40.11 3.85
895 1164 1.993391 GGAGTGGGATTGACCGGGA 60.993 63.158 6.32 0.00 40.11 5.14
896 1165 2.590092 GGAGTGGGATTGACCGGG 59.410 66.667 6.32 0.00 40.11 5.73
897 1166 2.297895 TGGGAGTGGGATTGACCGG 61.298 63.158 0.00 0.00 40.11 5.28
898 1167 1.078426 GTGGGAGTGGGATTGACCG 60.078 63.158 0.00 0.00 40.11 4.79
899 1168 1.208165 AGGTGGGAGTGGGATTGACC 61.208 60.000 0.00 0.00 38.08 4.02
900 1169 0.253327 GAGGTGGGAGTGGGATTGAC 59.747 60.000 0.00 0.00 0.00 3.18
903 1172 1.229529 ACGAGGTGGGAGTGGGATT 60.230 57.895 0.00 0.00 0.00 3.01
967 1236 1.757306 CACAGCAGAGACAAGGGGT 59.243 57.895 0.00 0.00 0.00 4.95
979 1248 2.592574 GGTCAGCACAGCACAGCA 60.593 61.111 0.00 0.00 0.00 4.41
980 1249 3.720193 CGGTCAGCACAGCACAGC 61.720 66.667 0.00 0.00 0.00 4.40
981 1250 2.025969 CTCGGTCAGCACAGCACAG 61.026 63.158 0.00 0.00 0.00 3.66
982 1251 1.820010 ATCTCGGTCAGCACAGCACA 61.820 55.000 0.00 0.00 0.00 4.57
983 1252 1.079543 ATCTCGGTCAGCACAGCAC 60.080 57.895 0.00 0.00 0.00 4.40
1027 1296 2.367378 CCTACCCCTTCCCGTCCT 59.633 66.667 0.00 0.00 0.00 3.85
1031 1300 2.041596 TTCCCCTACCCCTTCCCG 59.958 66.667 0.00 0.00 0.00 5.14
1251 1553 3.188460 TGGATTTTTAGAACACGAGCTGC 59.812 43.478 0.00 0.00 0.00 5.25
1252 1554 4.712763 GTGGATTTTTAGAACACGAGCTG 58.287 43.478 0.00 0.00 0.00 4.24
1258 1560 4.753107 TGAGGACGTGGATTTTTAGAACAC 59.247 41.667 0.00 0.00 0.00 3.32
1259 1561 4.753107 GTGAGGACGTGGATTTTTAGAACA 59.247 41.667 0.00 0.00 0.00 3.18
1260 1562 4.153655 GGTGAGGACGTGGATTTTTAGAAC 59.846 45.833 0.00 0.00 0.00 3.01
1261 1563 4.041198 AGGTGAGGACGTGGATTTTTAGAA 59.959 41.667 0.00 0.00 0.00 2.10
1262 1564 3.581332 AGGTGAGGACGTGGATTTTTAGA 59.419 43.478 0.00 0.00 0.00 2.10
1263 1565 3.933332 GAGGTGAGGACGTGGATTTTTAG 59.067 47.826 0.00 0.00 0.00 1.85
1264 1566 3.325425 TGAGGTGAGGACGTGGATTTTTA 59.675 43.478 0.00 0.00 0.00 1.52
1265 1567 2.105821 TGAGGTGAGGACGTGGATTTTT 59.894 45.455 0.00 0.00 0.00 1.94
1266 1568 1.697432 TGAGGTGAGGACGTGGATTTT 59.303 47.619 0.00 0.00 0.00 1.82
1267 1569 1.002087 GTGAGGTGAGGACGTGGATTT 59.998 52.381 0.00 0.00 0.00 2.17
1268 1570 0.608640 GTGAGGTGAGGACGTGGATT 59.391 55.000 0.00 0.00 0.00 3.01
1269 1571 1.258445 GGTGAGGTGAGGACGTGGAT 61.258 60.000 0.00 0.00 0.00 3.41
1270 1572 1.906824 GGTGAGGTGAGGACGTGGA 60.907 63.158 0.00 0.00 0.00 4.02
1271 1573 1.472662 AAGGTGAGGTGAGGACGTGG 61.473 60.000 0.00 0.00 0.00 4.94
1272 1574 0.393077 AAAGGTGAGGTGAGGACGTG 59.607 55.000 0.00 0.00 0.00 4.49
1273 1575 1.129058 AAAAGGTGAGGTGAGGACGT 58.871 50.000 0.00 0.00 0.00 4.34
1274 1576 2.143925 GAAAAAGGTGAGGTGAGGACG 58.856 52.381 0.00 0.00 0.00 4.79
1275 1577 3.493767 AGAAAAAGGTGAGGTGAGGAC 57.506 47.619 0.00 0.00 0.00 3.85
1276 1578 3.202151 ACAAGAAAAAGGTGAGGTGAGGA 59.798 43.478 0.00 0.00 0.00 3.71
1277 1579 3.555966 ACAAGAAAAAGGTGAGGTGAGG 58.444 45.455 0.00 0.00 0.00 3.86
1278 1580 4.455606 AGACAAGAAAAAGGTGAGGTGAG 58.544 43.478 0.00 0.00 0.00 3.51
1279 1581 4.503714 AGACAAGAAAAAGGTGAGGTGA 57.496 40.909 0.00 0.00 0.00 4.02
1280 1582 4.884164 AGAAGACAAGAAAAAGGTGAGGTG 59.116 41.667 0.00 0.00 0.00 4.00
1281 1583 5.117406 AGAAGACAAGAAAAAGGTGAGGT 57.883 39.130 0.00 0.00 0.00 3.85
1282 1584 5.221126 CCAAGAAGACAAGAAAAAGGTGAGG 60.221 44.000 0.00 0.00 0.00 3.86
1323 1625 4.543692 CTGCTCATGGTTCTTGAACAAAG 58.456 43.478 14.38 1.84 37.22 2.77
1446 1998 2.536997 ATTGAGCTGGCCGGTGGTAC 62.537 60.000 14.55 0.00 0.00 3.34
1447 1999 0.978667 TATTGAGCTGGCCGGTGGTA 60.979 55.000 14.55 0.00 0.00 3.25
1448 2000 1.847798 TTATTGAGCTGGCCGGTGGT 61.848 55.000 14.55 3.79 0.00 4.16
1449 2001 0.466189 ATTATTGAGCTGGCCGGTGG 60.466 55.000 14.55 0.00 0.00 4.61
1450 2002 0.664761 CATTATTGAGCTGGCCGGTG 59.335 55.000 14.55 0.00 0.00 4.94
1451 2003 0.466189 CCATTATTGAGCTGGCCGGT 60.466 55.000 14.55 6.18 0.00 5.28
1452 2004 2.334307 CCATTATTGAGCTGGCCGG 58.666 57.895 7.41 7.41 0.00 6.13
1512 2076 8.324306 TCAGACTGAAGATCCTAATGTCAAAAT 58.676 33.333 1.64 0.00 0.00 1.82
1622 2210 0.878086 TTGTGTCACGCGAGAATGCA 60.878 50.000 15.93 7.49 34.15 3.96
1623 2211 0.234625 TTTGTGTCACGCGAGAATGC 59.765 50.000 15.93 4.66 0.00 3.56
1624 2212 1.260297 TGTTTGTGTCACGCGAGAATG 59.740 47.619 15.93 0.00 0.00 2.67
1625 2213 1.577468 TGTTTGTGTCACGCGAGAAT 58.423 45.000 15.93 0.00 0.00 2.40
1626 2214 1.061421 GTTGTTTGTGTCACGCGAGAA 59.939 47.619 15.93 0.00 0.00 2.87
1627 2215 0.648441 GTTGTTTGTGTCACGCGAGA 59.352 50.000 15.93 7.99 0.00 4.04
1628 2216 0.315869 GGTTGTTTGTGTCACGCGAG 60.316 55.000 15.93 4.59 0.00 5.03
1629 2217 0.741574 AGGTTGTTTGTGTCACGCGA 60.742 50.000 15.93 0.00 0.00 5.87
1630 2218 0.588730 CAGGTTGTTTGTGTCACGCG 60.589 55.000 3.53 3.53 0.00 6.01
1631 2219 0.450184 ACAGGTTGTTTGTGTCACGC 59.550 50.000 0.00 0.00 0.00 5.34
1632 2220 1.063469 GGACAGGTTGTTTGTGTCACG 59.937 52.381 0.00 0.00 42.04 4.35
1633 2221 1.063469 CGGACAGGTTGTTTGTGTCAC 59.937 52.381 0.00 0.00 42.04 3.67
1682 2301 7.663905 TGAGGTAAATGTAAGCTAGCAGAAAAA 59.336 33.333 18.83 0.00 0.00 1.94
1683 2302 7.119262 GTGAGGTAAATGTAAGCTAGCAGAAAA 59.881 37.037 18.83 0.00 0.00 2.29
1732 2352 5.655488 AGCAACTGATACTTAGTAGCACTG 58.345 41.667 6.21 8.14 31.05 3.66
1822 2478 7.461043 ACATATAGGATATGGCCAGGAAAACTA 59.539 37.037 13.05 9.22 0.00 2.24
1842 2498 9.474313 AAATGGAACTGCTAAAGGAAACATATA 57.526 29.630 0.00 0.00 0.00 0.86
2194 2940 4.844884 AGTTATAGGGCTTTGGACAGTTC 58.155 43.478 0.00 0.00 0.00 3.01
2351 3097 0.104120 TGTCCATTCATACGCCTCCG 59.896 55.000 0.00 0.00 41.14 4.63
2482 3228 8.733458 TGATGAGATAAGGACAATGTTGAAAAG 58.267 33.333 0.00 0.00 0.00 2.27
2514 3260 5.457473 AGTTAAGCACATAAAAACGCACAAC 59.543 36.000 0.00 0.00 0.00 3.32
2669 3415 1.227823 CAGAACCACCACAGCGGAA 60.228 57.895 0.00 0.00 38.63 4.30
2944 3690 5.485353 AGGTGTCCAGATTCTTCATCTTGTA 59.515 40.000 0.00 0.00 40.67 2.41
3402 4148 3.381045 GTGAAACTTGCAACTTTAGGGC 58.619 45.455 0.00 0.00 0.00 5.19
3618 4369 6.295236 CCATGGTAAGGCTGAATTCTTTTCAA 60.295 38.462 2.57 0.00 0.00 2.69
3655 4406 7.067494 CAGACCAAAAATAAGTAGGATGGAAGG 59.933 40.741 0.00 0.00 0.00 3.46
3695 4447 4.758688 TCAGTTGCTATCACAGTACCATG 58.241 43.478 0.00 0.00 0.00 3.66
3766 4518 6.705825 ACATTAAAAGCAGGAAAACATGTTCC 59.294 34.615 12.39 10.12 46.48 3.62
3893 4645 4.260375 GCTCTTGTGGCATTACATTACTCG 60.260 45.833 0.00 0.00 0.00 4.18
3916 4668 6.215845 CACAAGGTGGGTAAAAAGAAGATTG 58.784 40.000 0.00 0.00 0.00 2.67
3956 4708 6.115450 TGCGATTTTCATTGATCAAGAGAG 57.885 37.500 14.54 4.20 0.00 3.20
3958 4710 7.701078 AGATTTGCGATTTTCATTGATCAAGAG 59.299 33.333 14.54 9.12 0.00 2.85
4012 4764 2.630580 GCTGATGTAGGAGACTTAGGGG 59.369 54.545 0.00 0.00 43.67 4.79
4019 4771 1.208052 TGGCAAGCTGATGTAGGAGAC 59.792 52.381 0.00 0.00 0.00 3.36
4023 4775 1.315690 CCATGGCAAGCTGATGTAGG 58.684 55.000 0.00 0.00 0.00 3.18
4054 4806 2.572290 ACCTTTACCGCCATATTCAGC 58.428 47.619 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.