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
A5 F28 I1 R1	139	58.0	1973578	98.9%	1951868	138.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,908,002	T→C	intergenic (‑61/+27)	eno ← / ← pyrG	enolase/CTP synthetase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,908,002	0	T	C	100.0%	116.0 / NA	33	intergenic (‑61/+27)	eno/pyrG	enolase/CTP synthetase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/19); total (14/19)

TACTTCGGCTTCAACAGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGTACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACTCCGGATGGAA  >  NC_000913/2907867‑2908127

tACTTCGGCTTCAACAGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCAcgc                                                                                                                           >  1:379758/1‑140 (MQ=255)

  cTTCGGCTTCAACAGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGt                                                                                                                         >  2:180690/1‑140 (MQ=255)

    tCGGCTTCAACAGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTg                                                                                                                       <  2:724512/140‑1 (MQ=255)

        cTTCAACAGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGc                                                                                                                   >  2:38828/1‑140 (MQ=255)

        cTTCAACAGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGc                                                                                                                   >  1:579115/1‑140 (MQ=255)

               aGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACt                                                                                                            <  2:95253/140‑1 (MQ=255)

                 tCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACttt                                                                                                          <  2:379758/140‑1 (MQ=255)

                 tCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACttt                                                                                                          <  1:603751/140‑1 (MQ=255)

                     gTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTtta                                                                                                      >  1:28398/1‑140 (MQ=255)

                                  tCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTtacttact                                                                                                >  2:293020/1‑133 (MQ=255)

                                  tCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTtacttact                                                                                                <  1:293020/133‑1 (MQ=255)

                                    gatgatTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGa                                                                                        <  1:67713/139‑1 (MQ=255)

                                    gatgatTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGa                                                                                        >  2:67713/1‑139 (MQ=255)

                                            cACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTgg                                                                               >  2:796352/1‑140 (MQ=255)

                                                     tgatTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTg                                                                      <  1:796352/140‑1 (MQ=255)

                                                       atTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTggc                                                                    <  2:343928/140‑1 (MQ=255)

                                                           ttACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCt                                                                <  1:605680/140‑1 (MQ=255)

                                                                aTTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAAC‑‑TTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACaa                                                         <  2:419796/140‑1 (MQ=255)

                                                                  tttGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACaa                                                         <  1:643905/140‑1 (MQ=255)

                                                                  tttGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACaa                                                         <  1:38828/140‑1 (MQ=255)

                                                                                   ccTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCggg                                        >  2:983270/1‑140 (MQ=255)

                                                                                            aCTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCa                               >  1:688880/1‑140 (MQ=255)

                                                                                             cTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCAc                              <  2:695819/140‑1 (MQ=255)

                                                                                              tAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACg                             <  2:579115/140‑1 (MQ=255)

                                                                                                gTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTg                           <  1:180690/140‑1 (MQ=255)

                                                                                                               cAGACAAACAACGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACt            >  1:47338/1‑140 (MQ=255)

                                                                                                                    aaacaaCGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACTCCGGa       <  2:28398/140‑1 (MQ=255)

                                                                                                                       caacGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACTCCGGATgg    >  2:417263/1‑140 (MQ=255)

                                                                                                                         acGCGTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACTCCGGATGGaa  <  2:47338/140‑1 (MQ=255)

                                                                                                                          cgcgTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACt            <  2:294409/129‑1 (MQ=255)

                                                                                                                          cgcgTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACt            >  1:294409/1‑129 (MQ=255)

                                                                                                                            cgTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACTCCGGATGGaa  <  2:453513/137‑1 (MQ=255)

                                                                                                                            cgTACCCAGGGCACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACTCCGGATGGaa  >  1:453513/1‑137 (MQ=255)

TACTTCGGCTTCAACAGTCGGGTTACCACGGGAGTCGATGATTTCACGACCGATGATTTTTACGATTTTGGACATTAGGTTTTCCTCAAGTCACTAGTTAAACTGAAACTCCAGACAAACAACGCGTACCCAGGGTACGCGTTGCCGCTCTAACTTTTTTACTTACTTCGCCTGACGTTTCTGGAACTCGCTGGCGGCTTTCACAAAGCCTGCAAACAGCGGGTGACCATCACGTGGAGTAGAAGTAAACTCCGGATGGAA  >  NC_000913/2907867‑2908127

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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