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
A14 F56 I20 R2	1958	92.1	3575798	91.1%	3257551	126.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	2,198,081	T→C	E19E (GAA→GAG)	U712_11010 ←	Chorismate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	2,198,081	0	T	C	100.0%	93.7 / NA	30	E19E (GAA→GAG)	U712_11010	Chorismate synthase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (8/22); total (8/22)

CCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGCACACCTTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAAACTACTATAACATATTTTTCAGCAAAAAGT  >  CP006881/2197956‑2198207

ccGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTg                                                                                                                   <  3:35275/139‑1 (MQ=255)

 cGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGt                                                                                                                  <  1:207619/139‑1 (MQ=255)

 cGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGt                                                                                                                  <  7:301247/139‑1 (MQ=255)

 cGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGt                                                                                                                  <  5:387914/139‑1 (MQ=255)

         aTTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTgg                                                                                                           <  7:239831/138‑1 (MQ=255)

            ttGGCCTGGTCTTTTTCGATCTGCCTGCGGCGGCCGCGGCCGTGGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCATCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTggggg                                                                                                        <  2:147105/138‑1 (MQ=255)

                            cGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        <  1:127216/138‑1 (MQ=255)

                            cGATCTGCATGCGGCAGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        <  5:121913/138‑1 (MQ=255)

                                           ggccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCAt                                                                        <  6:419096/139‑1 (MQ=255)

                                             ccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGa                                                                      <  1:49567/139‑1 (MQ=255)

                                             ccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGa                                                                      <  3:223792/139‑1 (MQ=255)

                                             ccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGa                                                                      <  4:278188/139‑1 (MQ=255)

                                                   ccgTGTCCTTTTCGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTTTGTAAAGCGCGGCTGGTACACCCTCAATAATGGATGTCAGTAGGGGGCCGTGTTATTCTCCGGCTGTTTAATCTCTCATGActtctt                                                                <  7:206304/139‑1 (MQ=255)

                                                                  cGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATTACTTCTTCTCCCTTCATCGCa                                                  >  8:439534/1‑138 (MQ=255)

                                                                          aaGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCtt                                         <  5:378589/139‑1 (MQ=255)

                                                                                aaaaTTGATATCTTACTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGt                                   <  3:118760/139‑1 (MQ=255)

                                                                                  aaTTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTaa                                 <  2:302659/139‑1 (MQ=255)

                                                                                    ttGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTaaga                               <  5:219354/139‑3 (MQ=255)

                                                                                    ttGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTaaga                               <  7:439534/139‑3 (MQ=255)

                                                                                      gATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGTCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGac                              <  5:174228/138‑1 (MQ=255)

                                                                                               ctccGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        >  2:223514/1‑71 (MQ=255)

                                                                                               ctccGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        <  1:223514/71‑1 (MQ=255)

                                                                                                       tGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCGTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATAttttt             >  3:379362/1‑138 (MQ=255)

                                                                                                         tAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGt                                   <  5:312593/114‑1 (MQ=255)

                                                                                                         tAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGt                                   >  6:312593/1‑114 (MQ=255)

                                                                                                              cccGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTaaa                                                                                <  5:225973/64‑1 (MQ=255)

                                                                                                              cccGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTaaa                                                                                >  6:225973/1‑64 (MQ=255)

                                                                                                              cccGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATATCATGACTTGTTCTCCCTTCATACCAATAACGCTTTTAATTAAGACTACTATAACATATTTTTCAGCaaa      >  7:357518/1‑138 (MQ=255)

                                                                                                                 ggcaggtaCACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTTAATTTCTCATGACTTATTGTACCTTGATAGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAagt  >  4:168790/1‑139 (MQ=255)

                                                                                                                 ggcaggtaCACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAagt  >  8:243000/1‑139 (MQ=255)

CCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGCACACCTTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAAACTACTATAACATATTTTTCAGCAAAAAGT  >  CP006881/2197956‑2198207

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A