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 F42 I1 R1	60	69.9	3000528	98.3%	2949519	146.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947_CJ‑RC	4,741,385	C→T	intergenic (+515/+238)	gltA → / ← yeiW	citrate synthase/putative oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947_CJ‑RC	4,741,385	0	C	T	100.0%	133.6 / NA	40	intergenic (+515/+238)	gltA/yeiW	citrate synthase/putative oxidoreductase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (26/14); total (26/14)

TCGTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑AACCTCCGCCAACTGCAATTCGTGAACCAAGCAAAAGGCCCCGAAAAGGCCCTC‑C‑GCAGCCCCCCCAACCTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGTTTTC  >  NC_002947_CJ‑RC/4741245‑4741520

tCGTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGtcctc‑ctgc                                                                                                                                  <  3:8442/149‑4 (MQ=255)

tCGTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGtcctc‑ctg                                                                                                                                   >  1:288458/1‑146 (MQ=255)

  gTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGtcctc‑ctgca                                                                                                                                 <  5:178146/148‑5 (MQ=255)

    aaTGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGtcctc‑c                                                                                                                                     >  6:177612/1‑142 (MQ=255)

    aaTGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGcg                                                                                                                              >  2:357949/1‑148 (MQ=255)

            gcaCGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGATACGTCCTC‑CTGCAGcgcctcgacc                                                                                                                      >  3:252012/1‑143 (MQ=255)

                        gcggcgTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGtcctc‑ctgca                                                                                                                                 >  4:109286/1‑122 (MQ=255)

                        gcggcgTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGtcctc‑ctgca                                                                                                                                 <  3:109286/126‑5 (MQ=255)

                        gcggcgTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAgcggc                                                                                                          >  1:280520/1‑149 (MQ=255)

                        gcggcgTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAgcggc                                                                                                          <  1:318576/149‑1 (MQ=255)

                              tCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCtt                                                                                                     >  1:93311/1‑148 (MQ=255)

                                aCCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGa                                                                                                   >  4:88593/1‑148 (MQ=255)

                                      cATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACgg                                                                                             <  8:48703/148‑1 (MQ=255)

                                          gCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTCAT‑GCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTcaca                                                                                        >  6:104473/1‑149 (MQ=255)

                                              aTTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACcgc                                                                                    >  1:303048/1‑149 (MQ=255)

                                                  aaCTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGa                                                                                  >  5:21347/1‑147 (MQ=255)

                                                    cTGGGTATAGGTCAAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTCAT‑GCAGCGCCTCGACCTTGGCCAGCGCAGCCTTGATCACGGACACACCGCGATAgg                                                                              >  4:64301/1‑149 (MQ=255)

                                                        gTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCtt                                                                          <  2:52736/149‑1 (MQ=255)

                                                        gTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCtt                                                                          <  3:219397/149‑1 (MQ=255)

                                                        gTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCtt                                                                          >  1:224841/1‑149 (MQ=255)

                                                           taGGTCCAGCTCTGTTCACCTTCGTGCTTGAGCAGCTTATGCGAATTGC‑ATTCGTGAATCCAGGCACAGGCACAGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCAAGGTCACACCGAGATAGTCCttt                                                                         >  8:19352/1‑146 (MQ=255)

                                                           taGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGt                                                                        >  8:154305/1‑148 (MQ=255)

                                                              gTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACtt                                                                    >  5:137579/1‑149 (MQ=255)

                                                              gTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACt                                                                     >  8:56821/1‑148 (MQ=255)

                                                               tCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACtt                                                                    <  7:270904/148‑1 (MQ=255)

                                                               tCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTg                                                                   <  1:357949/149‑1 (MQ=255)

                                                                ccAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTg                                                                   >  1:273699/1‑148 (MQ=255)

                                                                  aGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGAc                                                                >  3:256318/1‑149 (MQ=255)

                                                                   gCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGAc                                                                <  8:371486/148‑1 (MQ=255)

                                                                     tctGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCg                                                             >  2:123339/1‑149 (MQ=255)

                                                                         gTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCa                                                         >  3:77225/1‑149 (MQ=255)

                                                                          tCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCgg                                                            <  7:31678/145‑1 (MQ=255)

                                                                            aCCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCt                                                      >  2:177729/1‑149 (MQ=255)

                                                                              cTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCa                                                    >  2:112907/1‑149 (MQ=255)

                                                                                                      gacttgcaTTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtc                             <  3:88593/142‑1 (MQ=255)

                                                                                                        cttgcaTTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtcct                           >  5:18579/6‑149 (MQ=255)

                                                                                                         ttgcaTTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtcctc                          >  2:222962/5‑149 (MQ=255)

                                                                                                           gcaTTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtcctcg                         <  2:288458/146‑1 (MQ=255)

                                                                                                           gcaTTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtcctc                          <  2:303048/145‑1 (MQ=255)

                                                                                                                         aggcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACtt            <  7:154305/141‑1 (MQ=255)

                                                                                                                         aggcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGc          >  4:167179/7‑149 (MQ=255)

                                                                                                                           gcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATc                                  <  5:95617/119‑1 (MQ=255)

                                                                                                                           gcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATc                                  >  6:95617/5‑123 (MQ=255)

                                                                                                                               aGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGttt    >  3:282493/1‑149 (MQ=255)

                                                                                                                                 gCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGtttt   >  2:284400/1‑148 (MQ=255)

                                                                                                                                 gCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGTTTTc  <  5:104473/149‑1 (MQ=255)

TCGTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑AACCTCCGCCAACTGCAATTCGTGAACCAAGCAAAAGGCCCCGAAAAGGCCCTC‑C‑GCAGCCCCCCCAACCTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGTTTTC  >  NC_002947_CJ‑RC/4741245‑4741520

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A