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
A10 F1 I1 R1	77	35.1	1569012	96.6%	1515665	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,460,048	C→T	A332V (GCG→GTG)	paaH →	3‑hydroxyadipyl‑CoA dehydrogenase, NAD+‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,460,048	0	C	T	100.0%	113.9 / NA	33	A332V (GCG→GTG)	paaH	3‑hydroxyadipyl‑CoA dehydrogenase, NAD+‑dependent
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (14/19); total (14/19)

TTGTTGGCCTGGAAGCGGTAAGCGACAGTTTTAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGCGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAGGCCATTTATTACCTGCAACAGCAGGG  >  NC_000913/1459928‑1460180

ttgttgGCCTGGAAGCGGTAAGCGACAGTTTTAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGc                                                                                                                    >  2:405624/1‑139 (MQ=255)

    tgGCCTGGAAGCGGTAAGCGACAGTTTTAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGc                                                                                                                <  1:405624/139‑1 (MQ=255)

     ggCCTGGAAGCGGTAAGCGACAGTTTTAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               <  2:766619/139‑1 (MQ=255)

     ggCCTGGAAGCGGTAAGCGACAGTTTTAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               <  2:665703/139‑1 (MQ=255)

             aGCGGTAAGCGACAGTTTTAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTa                                                                                                       <  2:34867/139‑1 (MQ=255)

                              ttAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGc                                                                                      <  2:145671/139‑1 (MQ=255)

                                 gCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCggg                                                                                   <  2:656648/139‑1 (MQ=255)

                                   ccAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCa                                                                                 <  2:211262/139‑1 (MQ=255)

                                      aTGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAgg                                                                              >  1:4611/1‑139 (MQ=255)

                                               gaaaagaaaaGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCa                                                                                 <  1:453910/127‑1 (MQ=255)

                                               gaaaagaaaaGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGAAACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCa                                                                                 >  2:453910/1‑127 (MQ=255)

                                                               gtgtCACGGAAATTGACG‑‑GTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGa                                                   >  2:192066/1‑139 (MQ=255)

                                                                 gtCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               >  2:259355/1‑79 (MQ=255)

                                                                 gtCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               <  1:259355/79‑1 (MQ=255)

                                                                          aTTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCt                                                                                                                                   <  1:730978/50‑1 (MQ=255)

                                                                          aTTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCt                                                                                                                                   >  2:730978/1‑50 (MQ=255)

                                                                          aTTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               >  2:115832/1‑70 (MQ=255)

                                                                          aTTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               <  1:701140/70‑1 (MQ=255)

                                                                          aTTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               <  1:115832/70‑1 (MQ=255)

                                                                          aTTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGcc                                                                                                               >  2:701140/1‑70 (MQ=255)

                                                                                      ttATTGATTGAGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCa                              <  2:55250/139‑1 (MQ=255)

                                                                                         ttgattgaGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAgg                           <  2:496367/139‑1 (MQ=255)

                                                                                            attgaGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGAcc                                                                      <  2:245970/93‑1 (MQ=255)

                                                                                            attgaGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGAcc                                                                      >  1:245970/1‑93 (MQ=255)

                                                                                              tgaGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCg                                                                                                             >  1:137236/1‑52 (MQ=255)

                                                                                              tgaGACACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCg                                                                                                             <  2:137236/52‑1 (MQ=255)

                                                                                                agaCACAAGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAGGCCATtta                    >  1:665582/1‑139 (MQ=255)

                                                                                                      aaGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCAt                                                                    <  2:594622/85‑1 (MQ=255)

                                                                                                      aaGGCGAGACGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCAt                                                                    >  1:594622/1‑85 (MQ=255)

                                                                                                             gaCGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAGGc                          <  2:588852/120‑1 (MQ=255)

                                                                                                             gaCGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAGGc                          >  1:588852/1‑120 (MQ=255)

                                                                                                             gaCGGCACAGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAGGCCATTTATTACCTGCAAcag       <  2:665582/139‑1 (MQ=255)

                                                                                                                  cacaGGTGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAGGCCATTTATTACCTGCAACAGCAggg  >  1:476814/1‑139 (MQ=255)

TTGTTGGCCTGGAAGCGGTAAGCGACAGTTTTAGCCCAATGAAAGTAGAAAAGAAAAGTGACGGTGTCACGGAAATTGACGATGTTTTATTGATTGAGACACAAGGCGAGACGGCACAGGCGCTGGCAATACGACTGGCACGCCCGGTGGTAGTGATCGATAAAATGGCGGGCAAGGTGGTGACCATTGCTGCTGCAGCGGTGAACCCGGACTCAGCGACCCGCAAGGCCATTTATTACCTGCAACAGCAGGG  >  NC_000913/1459928‑1460180

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A