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 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	667,202	T→C	31.9%	L180L (CTT→CTC)	uup →	fused predicted transporter subunits and ATP‑binding components of ABC superfamily

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	667,202	0	T	C	31.9%	66.7 / 35.2	72	L180L (CTT→CTC)	uup	fused predicted transporter subunits and ATP‑binding components of ABC superfamily
Reads supporting (aligned to +/- strand): ref base T (13/36); new base C (14/9); total (27/45)
Fisher's exact test for biased strand distribution p-value = 8.45e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGAA  >  minE/667151‑667261

tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca                                            <  1:2140134/69‑1 (MQ=255)

tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca                                            <  1:213087/69‑1 (MQ=255)

tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca                                            <  1:2383042/69‑1 (MQ=255)

tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca                                            <  1:148241/69‑1 (MQ=255)

tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca                                            <  1:754027/69‑1 (MQ=255)

tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca                                            <  1:93299/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:2278230/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:2085175/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:2082279/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:2078241/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:2218883/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:2910455/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:1901771/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:3066584/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:539736/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:1612659/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:1587939/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:1454586/69‑1 (MQ=255)

      ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa                                      <  1:432259/69‑1 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:278094/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:2055440/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:2177903/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:2422555/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:2468840/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:2727131/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:1337583/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:3176883/1‑69 (MQ=255)

            aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa                                >  1:479633/1‑69 (MQ=255)

                cgcgcgCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAAcc                            >  1:3154142/1‑69 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:1987580/69‑1 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:298459/69‑1 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:1853036/69‑1 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:700485/69‑1 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:961651/69‑1 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:696481/69‑1 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:2728768/69‑1 (MQ=255)

                   gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc                         <  1:2499306/69‑1 (MQ=255)

                     gcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGa                       <  1:1053652/69‑1 (MQ=255)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:636333/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:2399708/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:2659817/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:563901/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:2220447/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:2935919/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:10772/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:556943/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:420757/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:1814099/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:1697239/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:1207253/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:3232348/1‑69 (MQ=18)

                     gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa                       >  1:3380215/1‑69 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:1065511/69‑1 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:923040/69‑1 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:825662/69‑1 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:734046/69‑1 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:3170519/69‑1 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:3018352/69‑1 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:2655021/69‑1 (MQ=18)

                       tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:1912247/69‑1 (MQ=18)

                          tGAGCAATCCGCGCGTTTTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct                     <  1:2833382/66‑1 (MQ=18)

                                   cgcgcgTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGt         >  1:2012608/1‑69 (MQ=255)

                                   cgcgcgTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGt         >  1:1469273/1‑69 (MQ=255)

                                   cgcgcgTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGt         >  1:965127/1‑69 (MQ=255)

                                          gCTGTTGCTTGATGAACCGACAAACCACCTTGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGaa  <  1:477533/69‑1 (MQ=255)

                                          gCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGaa  <  1:2397067/69‑1 (MQ=255)

                                          gCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGaa  <  1:2258060/69‑1 (MQ=255)

                                          gCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGaa  <  1:1858905/69‑1 (MQ=255)

                                          gCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGaa  <  1:1609516/69‑1 (MQ=255)

                                          gCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCAACGACTGGCTGGAAGGGTTTTTGaa  <  1:2330886/69‑1 (MQ=255)

                                          gCTGTCGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGaa  <  1:872517/69‑1 (MQ=255)

                                           cTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGaa  <  1:97191/68‑1 (MQ=255)

TAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACTGGCTGGAAGGGTTTTTGAA  >  minE/667151‑667261

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A