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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,073,732	C→T	A94T (GCG→ACG)	rutA ←	pyrimidine oxygenase, FMN‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,073,732	0	C	T	100.0%	160.0 / NA	50	A94T (GCG→ACG)	rutA	pyrimidine oxygenase, FMN‑dependent
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (24/26); total (24/26)

GCCAGTCACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGCCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTA  >  NC_000913/1073598‑1073865

gccagTCACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGc                                                                                                                                   <  2:346469/139‑1 (MQ=255)

                 cGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:383807/139‑1 (MQ=255)

                       aaCGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGcccc                                                                                                                                <  2:1355763/119‑1 (MQ=255)

                       aaCGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGcccc                                                                                                                                >  1:1355763/1‑119 (MQ=255)

                        aCGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCa                                                                                                           <  1:689383/139‑1 (MQ=255)

                               ccAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  1:1178227/139‑1 (MQ=255)

                               ccAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  1:1249856/139‑1 (MQ=255)

                                 agagATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAACCCCGCCATCAAGGTGAACGACTCAAGGTTGTGa                                                                                                  <  1:27495/139‑1 (MQ=255)

                                     aTGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATccc                                                                                              >  2:142020/1‑139 (MQ=255)

                                             gATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  2:353424/1‑111 (MQ=255)

                                             gATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  1:353424/111‑1 (MQ=255)

                                                   tGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTg                                                                                >  2:862343/1‑139 (MQ=255)

                                                    gCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTgc                                                                               >  2:816830/1‑139 (MQ=255)

                                                    gCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTgc                                                                               >  2:194694/1‑139 (MQ=255)

                                                           tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    >  2:737939/1‑111 (MQ=255)

                                                           tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  1:737939/111‑1 (MQ=255)

                                                           tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCaaa                                                                        >  1:476055/1‑139 (MQ=255)

                                                           tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCaaa                                                                        >  1:33273/1‑139 (MQ=255)

                                                           tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCaaa                                                                        >  1:176989/1‑139 (MQ=255)

                                                            aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCa                                                                                                                         >  2:1375544/1‑89 (MQ=255)

                                                            aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCa                                                                                                                         <  1:1375544/89‑1 (MQ=255)

                                                            aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  1:1196513/1‑96 (MQ=255)

                                                            aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:1196513/96‑1 (MQ=255)

                                                               ggCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                    <  1:862343/139‑1 (MQ=255)

                                                                gCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  2:850413/106‑1 (MQ=255)

                                                                gCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    >  1:850413/1‑106 (MQ=255)

                                                                    cgaTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCg                                                                                                                               >  1:54204/1‑75 (MQ=255)

                                                                    cgaTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCg                                                                                                                               <  2:54204/75‑1 (MQ=255)

                                                                      aTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGtt                                                             <  2:476055/139‑1 (MQ=255)

                                                                      aTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGtt                                                             <  2:176989/139‑1 (MQ=255)

                                                                                gTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  1:1066893/1‑76 (MQ=255)

                                                                                gTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:1066893/76‑1 (MQ=255)

                                                                                          ggTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaa                                         >  1:36797/1‑139 (MQ=255)

                                                                                              gcagcaGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaatcga                                     <  1:142020/139‑1 (MQ=255)

                                                                                               cagcagTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaatcgaa                                    >  1:141438/1‑139 (MQ=255)

                                                                                                agcagTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaatcgaaa                                   <  1:33938/139‑1 (MQ=255)

                                                                                                     tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGcc                                                                                                                             <  2:890047/44‑1 (MQ=255)

                                                                                                     tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGcc                                                                                                                             >  1:890047/1‑44 (MQ=255)

                                                                                                        cGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  1:707292/1‑52 (MQ=255)

                                                                                                        cGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:707292/52‑1 (MQ=255)

                                                                                                                  aaTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGCCTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                    <  1:1334162/88‑1 (MQ=255)

                                                                                                                  aaTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                    >  2:1334162/1‑88 (MQ=255)

                                                                                                                   aTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGc                                                                 >  2:1389623/1‑90 (MQ=255)

                                                                                                                   aTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGc                                                                 <  1:1389623/90‑1 (MQ=255)

                                                                                                                        cgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCttt                  >  2:153429/1‑132 (MQ=255)

                                                                                                                        cgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCttt                  <  1:153429/132‑1 (MQ=255)

                                                                                                                        cgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGcaca           >  1:1167819/1‑139 (MQ=255)

                                                                                                                          aGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAAt         <  1:602695/139‑1 (MQ=255)

                                                                                                                            gTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATgg       >  2:209418/1‑139 (MQ=255)

                                                                                                                                 ggCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTa  <  1:194694/139‑1 (MQ=255)

GCCAGTCACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGCCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTA  >  NC_000913/1073598‑1073865

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A