Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A18 F60 I1 R1	14	41.7	1431096	98.6%	1411060	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,892,347	G→C	A245P (GCG→CCG)	mdtL →	efflux pump MdtL

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,892,347	0	G	C	100.0%	105.9 / NA	30	A245P (GCG→CCG)	mdtL	efflux pump MdtL
Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (18/12); total (18/12)

TGCTTAACCGTTTTTTCCTCAGCCGTGTTGTTATCACCACCCTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTCAC  >  NC_000913/3892210‑3892479

tgctTAACCGTTTTTTCCTCAGCCGTGTTGTTATCACCACCCTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGccg                                                                                                                                    >  1:629726/1‑140 (MQ=255)

                           ttgttATCACCACCCTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGtt                                                                                                         <  2:10898/140‑1 (MQ=255)

                                aTCACCACCCTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCAtt                                                                                                    >  1:109731/1‑140 (MQ=255)

                                   accaccCTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGACACCATTAAGCCACTGACCGCTGGCATCAGCATGACCGTTTCATtctc                                                                                                 >  2:302194/1‑140 (MQ=255)

                                     caccCTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCa                                                                                               >  1:402448/1‑140 (MQ=255)

                                        ccTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGTGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGc                                                                                            >  2:518003/1‑140 (MQ=255)

                                        ccTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTGAGGATGACCGTTTCATTCTCCACGc                                                                                            >  1:212153/1‑140 (MQ=255)

                                        ccTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGc                                                                                            >  2:579123/1‑140 (MQ=255)

                                                tttCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGTGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTgcg                                                                                    <  1:518003/140‑1 (MQ=255)

                                                  tCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCGGACCGCTGACGTGAGCATGACCGTTCCATTCTCCACGCCATTTGCGCt                                                                                  >  2:245330/1‑140 (MQ=255)

                                                        aTCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAAt                                                                            >  1:1760/1‑140 (MQ=255)

                                                               cTTTCGTCAACACGTTACCGGTCTTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAg                                                                     <  1:310152/140‑1 (MQ=255)

                                                                 ttCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGcc                                                                   <  2:109731/140‑1 (MQ=255)

                                                                   cGTCAACACGTCACCTGTATTGCTGCTGGCAATCATGCGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCac                                                                 <  1:221615/140‑1 (MQ=255)

                                                                   cGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCac                                                                 <  1:579123/140‑1 (MQ=255)

                                                                   cGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCac                                                                 <  1:464572/140‑1 (MQ=255)

                                                                    gTCAACACGTCACCGGTCTTGCCGATGGAAACCATCGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCacg                                                                <  2:212153/140‑1 (MQ=255)

                                                                    gTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCacg                                                                >  1:35707/1‑140 (MQ=255)

                                                                                    tATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCGACGCCATTTGCGCTGGAAATTTTTAAGCCAAGTACGTTGATGATCAcc                                                >  2:245027/1‑140 (MQ=255)

                                                                                        gCTGATGGAAATCATTGGGTTTTAGCGCGGTGAATATTCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGc                                            <  1:225848/140‑1 (MQ=255)

                                                                                        gCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGc                                            <  2:35707/140‑1 (MQ=255)

                                                                                             tGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGgtg                                       >  1:403009/1‑140 (MQ=255)

                                                                                             tGGAAATCATGGGGTATGAGCGCGGTGAAGACGCCACAATTATGCCGCTGACCGCTGGCGTCAGCATGGCCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGgtg                                       <  1:245027/140‑1 (MQ=255)

                                                                                              ggAAATCATGGGGTTTGAGCGCGGTGAATATGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGACTTTGTAAGCCACGTACCTTGAGGATCACCTCGCAGgtgt                                      >  2:225848/1‑140 (MQ=255)

                                                                                              ggAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGc                                            <  1:395185/134‑1 (MQ=255)

                                                                                              ggAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGc                                            >  2:395185/1‑134 (MQ=255)

                                                                                                             tGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGcggcgg                       >  1:558651/1‑140 (MQ=255)

                                                                                                             tGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGcggcgg                       >  2:450118/1‑140 (MQ=255)

                                                                                                             tGAGCGCGGTGAATACGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGcggcgg                       >  2:589140/1‑140 (MQ=255)

                                                                                                                            cGCCACCATTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCg        <  2:402448/140‑1 (MQ=255)

                                                                                                                                accaTTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTc    >  1:125192/1‑140 (MQ=255)

                                                                                                                                  caTTATGCCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTCAc  >  2:90931/1‑140 (MQ=255)

TGCTTAACCGTTTTTTCCTCAGCCGTGTTGTTATCACCACCCTCAGCGTTTCGGTGATCCTCACTTTCGTCAACACGTCACCGGTATTGCTGATGGAAATCATGGGGTTTGAGCGCGGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTCAC  >  NC_000913/3892210‑3892479

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A