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
A42 F60 I1 R1	15	25.4	857350	99.2%	850491	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,451,238	G→A	A61T (GCC→ACC)	ytfR →	galactofuranose ABC transporter putative ATP binding subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,451,238	0	G	A	100.0%	88.1 / NA	27	A61T (GCC→ACC)	ytfR	galactofuranose ABC transporter putative ATP binding subunit
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (10/17); total (10/17)

AAGTAAATTTTTCCCCGGCGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATGTCGGTCGCTGATAATC  >  NC_000913/4451102‑4451370

aaGTAAATTTTTCCCCGGCGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCg                                                                                                                                   >  1:333401/1‑140 (MQ=255)

   tAAATTTTTCCCCGGCGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATc                                                                                                                                <  1:125977/140‑1 (MQ=255)

      aTTTTTCCCCGGCGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATcgcg                                                                                                                             >  1:106876/1‑140 (MQ=255)

               cGGCGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATct                                                                                                                    >  2:201846/1‑140 (MQ=255)

                  cGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATctg                                                                                                                   <  2:45307/138‑1 (MQ=255)

                  cGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATctg                                                                                                                   >  1:45307/1‑138 (MQ=255)

                     cAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATctggctgg                                                                                                              <  1:322909/140‑1 (MQ=255)

                      aaaGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGa                                                                                                             <  2:139432/140‑1 (MQ=255)

                          cGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGc                                                                                                         <  1:201846/140‑1 (MQ=255)

                              aGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAgg                                                                                                     >  2:261270/1‑140 (MQ=255)

                                         aTTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCg                                                                                          >  1:193070/1‑140 (MQ=255)

                                                       cGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCa                                                                            <  1:165014/140‑1 (MQ=255)

                                                            cGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACgcgc                                                                       <  1:261270/140‑1 (MQ=255)

                                                                  cATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCaacaac                                                                 <  2:333401/140‑1 (MQ=255)

                                                                            ctCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTgg                                                       <  2:227010/140‑1 (MQ=255)

                                                                               ggTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCAc                                                    <  2:106876/140‑1 (MQ=255)

                                                                                    aaaCGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCt                                               >  2:63617/1‑140 (MQ=255)

                                                                                            cGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGaa                                       <  2:193070/140‑1 (MQ=255)

                                                                                                          cTAATCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTAcc                         <  1:65577/140‑1 (MQ=255)

                                                                                                              tCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAat                     <  1:63617/140‑1 (MQ=255)

                                                                                                              tCAAAGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAat                     >  2:36184/1‑140 (MQ=255)

                                                                                                                  aGCATTAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATgt                 >  2:275080/1‑140 (MQ=255)

                                                                                                                      ttAACTGGTGTATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATgtcggt             <  1:107417/140‑1 (MQ=255)

                                                                                                                             gtgtATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATGTCGGTCGCTGAt      <  1:356996/140‑1 (MQ=255)

                                                                                                                             gtgtATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATGTCGGTCGCTGAt      <  1:270059/140‑1 (MQ=255)

                                                                                                                              tgtATACCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATGTCGGTCGCTGATa     >  1:39459/1‑140 (MQ=255)

                                                                                                                                 ataCCACACCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATGTCGGTCGCTGATAATc  <  1:275080/140‑1 (MQ=255)

AAGTAAATTTTTCCCCGGCGTCAAAGCGTTAGACAACGTTGATTTCAGCCTGCGCCGTGGCGAAATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATACCGCCCACGCGCAACAACTCGGCATTGGCACCGTCTATCAGGAAGTCAACCTGCTACCCAATATGTCGGTCGCTGATAATC  >  NC_000913/4451102‑4451370

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A