Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	564,310	A→C	S298A (TCA→GCA)	intD ←	predicted integrase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	564,310	0	A	C	81.0%	184.6 / 30.6	84	S298A (TCA→GCA)	intD	predicted integrase
Reads supporting (aligned to +/- strand):  ref base A (16/0);  new base C (68/0);  total (84/0)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.69e-01

TCATGGAAACGGAAATCTTCAATTCCTGCACGACGACAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGTTGATGTTCCATCTGCT  >  W3110S.gb/564258‑564365                                                     |                                                        tCATGGAAACGGAAATCTTCAATTCCTGCACGACGACAAGCTGATAGCCATGATGTCTTGCt                                                >  1:616357/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:1063887/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:477313/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:482108/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:601686/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:716458/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:140661/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:1333649/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:1326586/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:828519/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:841440/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:843141/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:1095792/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:1137955/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:990641/1‑62 (MQ=255)                                gacgacAAGCTGATAGCCATGATGTCTTGCTCTCGATGCGCATCTTCCTGACCGCAGGCGtt                 >  1:72575/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGcat                  >  1:243459/1‑44 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGa               >  1:691719/1‑49 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATc      >  1:1143622/1‑58 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:764372/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:191114/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:305558/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:1419826/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:141332/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:988605/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:393767/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:409046/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:1295547/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGc   >  1:643484/1‑61 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:576529/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:61140/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:997751/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:580971/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:998744/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:554424/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:488430/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1017919/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:902591/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:649362/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:673055/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:724442/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:733686/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:733867/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:745278/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:785739/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:821105/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:93290/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:832086/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:836594/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:912178/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1195604/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1415009/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1394136/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:136847/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1341918/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1273026/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1264280/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1252921/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1215766/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:141906/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1194276/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:118272/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:113870/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1122408/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:111357/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1103531/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:108788/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:27252/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:461707/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:455226/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:432605/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:391169/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:382525/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:317865/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:283130/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:277558/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:467271/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:251928/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:232243/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:221330/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:196575/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:185836/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1468212/1‑62 (MQ=255)                                               gCCATGCTGTCTTGCTGTCAATGCGCATCTTCCTGAGCGCAGGCATTGATGTTCCATCTGCt  >  1:1432105/1‑62 (MQ=255)                                                     |                                                        TCATGGAAACGGAAATCTTCAATTCCTGCACGACGACAAGCTGATAGCCATGATGTCTTGCTGTCGATGCGCATCTTCCTGACCGCAGGCGTTGATGTTCCATCTGCT  >  W3110S.gb/564258‑564365

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