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
A1 F1 I2 R1	765	46.1	2269152	93.8%	2128464	105.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,531,605	T→C	T279A (ACA→GCA)	yhgE ←	DUF4153 family putative inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,531,605	0	T	C	100.0%	119.5 / NA	34	T279A (ACA→GCA)	yhgE	DUF4153 family putative inner membrane protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/18); total (16/18)

AGCACGCCCTGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGTCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAGGG  >  NC_000913/3531475‑3531736

aGCACGCCCTGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGaa                                                                                                                             >  2:9893/1‑139 (MQ=255)

                ggTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCgg                                                                                                             >  2:1069372/1‑139 (MQ=255)

                 gTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAggg                                                                                                                               <  2:185169/120‑1 (MQ=255)

                 gTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAggg                                                                                                                               >  1:185169/1‑120 (MQ=255)

                 gTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGa                                                                                                            >  1:1090090/1‑139 (MQ=255)

                     aCAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcgc                                                                                                        <  1:659009/139‑1 (MQ=255)

                      cAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcgcg                                                                                                       <  2:1121793/139‑1 (MQ=255)

                        gTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGa                                                                                                     >  2:1134488/1‑139 (MQ=255)

                              ccGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAg                                                                                               <  1:258555/139‑1 (MQ=255)

                              ccGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAg                                                                                               <  1:364095/139‑1 (MQ=255)

                                 tACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCa                                                                                            <  1:520962/139‑1 (MQ=255)

                                                         gCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCa                                                                    <  1:320356/139‑1 (MQ=255)

                                                            cAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACaa                                                                                                  <  2:751039/106‑1 (MQ=255)

                                                            cAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCGTTTTGCGGATCGCGGACaa                                                                                                  >  1:751039/1‑106 (MQ=255)

                                                                                   cGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCa                                                                                            <  1:64403/89‑1 (MQ=255)

                                                                                   cGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCa                                                                                            >  2:64403/1‑89 (MQ=255)

                                                                                     gAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcgcg                                                                                                       >  1:1022128/1‑76 (MQ=255)

                                                                                     gAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcgcg                                                                                                       <  2:1022128/76‑1 (MQ=255)

                                                                                     gAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGAt                                        >  2:1041527/1‑139 (MQ=255)

                                                                                      aGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATa                                                                                                >  1:701088/1‑82 (MQ=255)

                                                                                      aGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATa                                                                                                <  2:701088/82‑1 (MQ=255)

                                                                                       gCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTGTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGAtgt                                      >  2:732148/1‑139 (MQ=255)

                                                                                        cAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcgcg                                                                                                       <  2:44685/73‑1 (MQ=255)

                                                                                        cAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcgcg                                                                                                       >  1:44685/1‑73 (MQ=255)

                                                                                                       ttttAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATCAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCt                      >  1:858494/1‑139 (MQ=255)

                                                                                                              cAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATa                                                                                                <  2:534346/58‑1 (MQ=255)

                                                                                                              cAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATa                                                                                                >  1:534346/1‑58 (MQ=255)

                                                                                                                 gcaacgcaacGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTa            >  1:875733/1‑139 (MQ=255)

                                                                                                                          cgGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAgg   >  1:266482/1‑139 (MQ=255)

                                                                                                                           ggCTCTGCCCAGGGAAGTGACGCTTCTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAggg  <  1:732148/139‑1 (MQ=255)

                                                                                                                           ggCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAggg  <  2:266482/139‑1 (MQ=255)

                                                                                                                           ggCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAggg  <  1:1134488/139‑1 (MQ=255)

                                                                                                                           ggCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAggg  <  2:875733/139‑1 (MQ=255)

                                                                                                                           ggCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAggg  <  1:1069372/139‑1 (MQ=255)

AGCACGCCCTGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGTCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGCAGGG  >  NC_000913/3531475‑3531736

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A