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 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,846,222	T→C	T84A (ACT→GCT)	hycE ←	hydrogenase 3, large subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,846,222	0	T	C	100.0%	103.3 / NA	30	T84A (ACT→GCT)	hycE	hydrogenase 3, large subunit
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (13/17); total (13/17)

GAATCAAACCGTACATATCGCGCACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGTGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTAAAGAAACTCCACCACTTCCGGCAGGTAGTTCAC  >  NC_000913/2846096‑2846357

gAATCAAACCGTACATATCGCGCACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCAt                                                                                                                             <  1:893716/139‑1 (MQ=255)

       aCCGTACATATCGCGCACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGc                                                                                                                      <  1:477038/139‑1 (MQ=255)

                 tCGCGCACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTaaa                                                                                                            <  2:343363/139‑1 (MQ=255)

                   gcgcACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACg                                                                                                          <  2:568370/139‑1 (MQ=255)

                     gcACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGGCGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGc                                                                                                        >  1:949044/1‑139 (MQ=255)

                     gcACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTaa                                                                                                             <  2:881876/134‑1 (MQ=255)

                     gcACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTaa                                                                                                             >  1:881876/1‑134 (MQ=255)

                     gcACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACCTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGc                                                                                                        >  1:645078/1‑139 (MQ=255)

                                   ccccACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCa                                                                                          >  1:226793/1‑139 (MQ=255)

                                   ccccACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCa                                                                                          >  2:757761/1‑139 (MQ=255)

                                   ccccACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCa                                                                                          >  1:990925/1‑139 (MQ=255)

                                                        cgcgGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCTCTCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCaa                                                                     <  1:677281/139‑1 (MQ=255)

                                                                cACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCAcc                                                             >  1:13498/1‑139 (MQ=255)

                                                                       ggaTATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGc                                                                                                                      <  1:802639/75‑1 (MQ=255)

                                                                       ggaTATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGc                                                                                                                      >  2:802639/1‑75 (MQ=255)

                                                                         atatTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGAcagccag                                                    >  1:459463/1‑139 (MQ=255)

                                                                              ccGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCAcc                                               <  1:908080/139‑1 (MQ=255)

                                                                              ccGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCAcc                                               <  1:757761/139‑1 (MQ=255)

                                                                              ccGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCAcc                                               <  2:226793/139‑1 (MQ=255)

                                                                              ccGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCAcc                                               <  2:459463/139‑1 (MQ=255)

                                                                                            tCAACTTCGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTaaa                                 <  1:371468/139‑1 (MQ=255)

                                                                                                   cGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTtc                                                                                >  1:670757/1‑85 (MQ=255)

                                                                                                   cGACGCGAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTtc                                                                                <  2:670757/85‑1 (MQ=255)

                                                                                                      cgcgAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCg                                                                                   >  1:165345/1‑79 (MQ=255)

                                                                                                      cgcgAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCg                                                                                   <  2:165345/79‑1 (MQ=255)

                                                                                                         gAACCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTAAAGAAACTCcaccac                    <  2:13498/139‑1 (MQ=255)

                                                                                                           aCCGTAATCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTAAAGAAACTCCACCACtt                  >  2:987273/1‑139 (MQ=255)

                                                                                                                aaTCCAACACTTAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTAAAGAAACTCCACCACTTCCGGc             >  1:907892/1‑139 (MQ=255)

                                                                                                                           tAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTAAAGAAACTCCACCACTTCCGGCAGGTAGTTCAc  <  2:645078/139‑1 (MQ=255)

                                                                                                                           tAGCGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTAAAGAAACTCCACCACTTCCGGCAGGTAGTTCAc  <  2:990925/139‑1 (MQ=255)

GAATCAAACCGTACATATCGCGCACTTCACGCTCGCCCCACACCGCCGCCGGAACGCGCGGCGTCACGGACGGATATTCCGGTTTGTTGGCGTCAACTTCGACGCGAACCGTAATCCAACACTTAGTGCCCTTCTCCATCGACAGCACGTAGTAAACGGCGTAATGACCATTCAGTTTGCGTTCGTCGTTACCAAACAGCACCGACAGCCAGCCACCCTGTTTGTAGTAAAGAAACTCCACCACTTCCGGCAGGTAGTTCAC  >  NC_000913/2846096‑2846357

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 25 ≤` `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