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
A2 F30 I1 R1	24	19.5	654686	99.2%	649448	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,291,502	C→A	intergenic (+70/‑10)	nrfD → / → nrfE	putative menaquinol‑cytochrome c reductase subunit NrfD/putative cytochrome c‑type biogenesis protein NrfE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,291,502	0	C	A	100.0%	45.4 / NA	14	intergenic (+70/‑10)	nrfD/nrfE	putative menaquinol‑cytochrome c reductase subunit NrfD/putative cytochrome c‑type biogenesis protein NrfE
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (5/9); total (5/9)

AGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCG  >  NC_000913/4291367‑4291626

aGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAgggg                                                                                                                          <  1:327068/140‑1 (MQ=255)

aGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAgggg                                                                                                                          <  1:81983/140‑1 (MQ=255)

              gtTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGAcc                                                                                                            <  1:127080/140‑1 (MQ=255)

               ttGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGAccc                                                                                                           <  2:34467/140‑1 (MQ=255)

                     ctgcGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGa                                                                                                     <  2:89858/140‑1 (MQ=255)

                                    ctctACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAg                                                                                      <  2:295253/140‑1 (MQ=255)

                                                 aGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTgcg                                                                            <  1:163006/137‑1 (MQ=255)

                                                 aGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTgcg                                                                            >  2:163006/1‑137 (MQ=255)

                                                             cGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCatgat                                                             >  2:24812/1‑140 (MQ=255)

                                                                            agGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCAt                                              >  2:259288/1‑140 (MQ=255)

                                                                                                ccttcctGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTcg                          <  1:24812/140‑1 (MQ=255)

                                                                                                   tcctGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCgcgc                       >  1:119375/1‑140 (MQ=255)

                                                                                                             ggTTTTCTGGCGTTGTTGTTAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTgctgct             >  2:62613/1‑140 (MQ=255)

                                                                                                                        gttgttgttAAGTCTAGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCg  <  2:119375/140‑1 (MQ=255)

AGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCG  >  NC_000913/4291367‑4291626

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A