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	391,739	C→T	289 (TAG→TAA)	insF1 ←	IS3 transposase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	391,739	0	C	T	100.0%	113.6 / NA	37	289 (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/21); total (16/21)

CTTCGCTGAACATTGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCC  >  NC_000913/391605‑391845

cttcGCTGAACATTGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAg                                                                                                        <  1:470097/139‑1 (MQ=255)

             tGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGtt                                                                                           >  2:998715/1‑139 (MQ=255)

                   aGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     <  1:998715/139‑1 (MQ=255)

                     aTGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAAtt                                                                                   <  2:622151/139‑1 (MQ=255)

                               tGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCg                                                                                                      <  1:241257/110‑1 (MQ=255)

                               tGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCg                                                                                                      >  2:241257/1‑110 (MQ=255)

                               tGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACt                                                                         >  1:578637/1‑139 (MQ=255)

                                       atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 >  2:800296/1‑139 (MQ=255)

                                           tcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCcaca                                                             >  2:726578/1‑139 (MQ=255)

                                                  aTTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccg                                                                  <  1:942974/127‑1 (MQ=255)

                                                  aTTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccg                                                                  >  2:942974/1‑127 (MQ=255)

                                                   ttAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACtgt                                                     >  2:670883/1‑139 (MQ=255)

                                                   ttAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACtgt                                                     >  1:409633/1‑139 (MQ=255)

                                                       cTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccg                                                 <  1:800296/139‑1 (MQ=255)

                                                              aGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCAc                                          <  2:666580/139‑1 (MQ=255)

                                                                  cTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     >  2:206718/1‑92 (MQ=255)

                                                                  cTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     <  1:206718/92‑1 (MQ=255)

                                                                   tGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGAtt                                     <  2:291327/139‑1 (MQ=255)

                                                                    gTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTg                                    <  2:451030/139‑1 (MQ=255)

                                                                       gCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTaa                                 >  2:839340/1‑139 (MQ=255)

                                                                        cGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     <  2:1002284/86‑1 (MQ=255)

                                                                        cGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     >  1:1002284/1‑86 (MQ=255)

                                                                          ttGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGTGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATca                              >  2:414109/1‑139 (MQ=255)

                                                                          ttGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATca                              >  2:450498/1‑139 (MQ=255)

                                                                             aCCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACAcc                                                           <  2:430179/107‑1 (MQ=255)

                                                                             aCCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACAcc                                                           >  1:430179/1‑107 (MQ=255)

                                                                              ccGAATCTATTTGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACAtt                          <  2:646485/139‑1 (MQ=255)

                                                                              ccGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACAtt                          <  2:409633/139‑1 (MQ=255)

                                                                                 aaTCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                       <  2:578637/139‑1 (MQ=255)

                                                                                   tCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGata                     <  2:187221/139‑1 (MQ=255)

                                                                                       cTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTc                                                                               <  2:992904/77‑1 (MQ=255)

                                                                                       cTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTc                                                                               >  1:992904/1‑77 (MQ=255)

                                                                                               ggggCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTg                                                                                             >  1:108182/1‑55 (MQ=255)

                                                                                               ggggCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTg                                                                                             <  2:108182/55‑1 (MQ=255)

                                                                                                    tgattgatCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGc    <  2:2859/139‑1 (MQ=17)

                                                                                                     gattgatCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGcc   <  1:570519/139‑1 (MQ=14)

                                                                                                      attgatCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGccc  <  2:890384/139‑1 (MQ=11)

CTTCGCTGAACATTGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCC  >  NC_000913/391605‑391845

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A