Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	NC_000913	3,822,651	(CAGGAT)1→2	coding (252/2109 nt)	spoT →	bifunctional (p)ppGpp synthase/hydrolase SpoT

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3822646 =	1 (0.050)	9 (0.470)	9/278	0.6	94.7%	coding (247/2109 nt)	spoT	bifunctional (p)ppGpp synthase/hydrolase SpoT
	?	NC_000913	= 3822651	0 (0.000)					coding (252/2109 nt)	spoT	bifunctional (p)ppGpp synthase/hydrolase SpoT

CCCTTGTATCTGTTTGAAAGCCTGAATCAACTGATTCAAACCTACCTGCCGGAAGACCAAATCAAGCGTCTGCGGCAGGCGTATCTCGTTGCACGTGATGCTCACGAGGGGCAAACACGTTCAAGCGGTGAACCCTATATCACGCACCCGGTAGCGGTTGCCTGCATTCTGGCCGAGATGAAACTCGACTATGAAACGCTGATGGCGGCGCTGCTGCATGACGTGATTGAAGATACTCCCGCCACCTACCAGGATATGGAACAGCTTTTTGGTAAAAGCGTCGCCGAGCTGGTAGAGGGGGTGTCGAAACTTGATAAACTCAAGTTCCGCGATAAGAAAGAGGCGCAGGCCGAAAACTTTCGCAAGATGATTATGGCGATGGTGCAGGATATCCGCGTCATCCTCATCAAACTTGCCGACCGTACCCACAACATGCGCACGCTGGGCTCACTTCGCCCGGACAAACGTCGCCGCATCGCCCGTGAAACTCTCGAAAT  >  NC_000913/3822397‑3822893                                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                        cccTTGTATCTGTTTGAAAGCCTGAATCAACTGATTCAAACCTACCTGCCGGAAGACCAAATCAAGCGTCTGCGGCAGGCGTATCTCGTTGCACGTGATGCTCACGAGGGGCAAACACGTTCAAGCGGTGAACCCTATATCACGCACCCGGTAGCGGTTGCCTGCATTCTGGCCGAGATGAAACTCGACTATGAAACGCTGATGGCGGCGCTGCTGCATGACGTGATTGAAGATACTCCCGCCACCTAcc                                                                                                                                                                                                                                                         >  1:400101/1‑250 (MQ=255)                               caaacctacctgccggaagaccaaatcaagcgtctgcggcaggcgtatctcgttgcacgtgatgctcacgaggggcaaacacgttcaagcggtgaaccctatatcacgcacccggtagcggttgcctgcattctggccgagatgaaactcgactatgaaacgctgatggcggcgctgctgcatgacgtgattgaagatactcccgccacctaccaggatCAGGATATGGAACAGCTTTTTGGTAAAAGCGt                                                                                                                                                                                                                          <  1:174458‑M1/32‑1 (MQ=255)                                     cAAACCTACCTGCCGGAAGACCAAATCAAGCGTCTGCGGCAGGCGTATCTCGTTGCACGTGATGCTCACGAGGGGCAAACACGTTCAAGCGGTGAACCCTATATCACGCACCCGGTAGCGGTTGCCTGCATTCTGGCCGAGATGAAACTCGACTATGAAACGCTGATGGCGGCGCTGCTGCATGACGTGATTGAAGATACTCCCGCCACCTACCAGGATcaggatatggaacagctttttggtaaaagcgt                                                                                                                                                                                                                    <  1:174458‑M2/251‑33 (MQ=255)                                                         caagcgtctgctgcaggcgtatctcgttgcacgtgatgctcacgaggggcaaacacgttcaagcggtgaaccctatatcacgcacccggtagcggttgcctgcattctggccgagatgaaactcgactatgaaacgctgatggcggcgctgctgcatgacgtgattgaagatactcccgccacctaccaggatCAGGATATGGAACAGCTTTTTGGTAAAAGCGTCGCCGAGCTGGTAGAGGGAGTGTCg                                                                                                                                                                                                 >  1:11008‑M1/194‑250 (MQ=255)                                                               cAAGCGTCTGCTGCAGGCGTATCTCGTTGCACGTGATGCTCACGAGGGGCAAACACGTTCAAGCGGTGAACCCTATATCACGCACCCGGTAGCGGTTGCCTGCATTCTGGCCGAGATGAAACTCGACTATGAAACGCTGATGGCGGCGCTGCTGCATGACGTGATTGAAGATACTCCCGCCACCTACCAGGATcaggatatggaacagctttttggtaaaagcgtcgccgagctggtagagggagtgtcg                                                                                                                                                                                           >  1:11008‑M2/1‑193 (MQ=255)                                                                                    tgcacgtgatgctcacgaggggcaaacacgttcaagcggtcaaccctatatcacgcccccggtagaggttgcctgcattctggccgagctgaaactagactatgaaacgctgatggcggcgctgctgcatgccgtgattgaagatacttccgccacctaccaggatCAGGATATGGAACAGCTTTTTGGTAAAAGCGTCGCCGCGATGGTAGAgggg                                                                                                                                                                                                       <  1:502370‑M1/51‑1 (MQ=255)                                                                                          tGCACGTGATGCTCACGAGGGGCAAACACGTTCAAGCGGTCAACCCTATATCACGCCCCCGGTAGAGGTTGCCTGCATTCTGGCCGAGCTGAAACTAGACTATGAAACGCTGATGGCGGCGCTGCTGCATGCCGTGATTGAAGATACTTCCGCCACCTACCAGGATcaggatatggaacagctttttggtaaaagcgtcgccgcgatggtagagggg                                                                                                                                                                                                 <  1:502370‑M2/217‑52 (MQ=255)                                                                                                                                             cccggtagcggttgcctgcattctggccgagatgaaactcgactatgacacgctgatggcggcgctgctgcctgacgtgattgaagctactcccgccacctaccaggatCAGGATATGGAACAGCTTTTTGGTAAAAGCGTCGCCGAGCTGGTAGAGGGGGTGTCGAAACTTGATAAACTCAAGTTCCGCGATAAGAAagag                                                                                                                                                             <  1:84505‑M1/93‑1 (MQ=255)                                                                                                                                                   cccGGTAGCGGTTGCCTGCATTCTGGCCGAGATGAAACTCGACTATGACACGCTGATGGCGGCGCTGCTGCCTGACGTGATTGAAGCTACTCCCGCCACCTACCAGGATcaggatatggaacagctttttggtaaaagcgtcgccgagctggtagagggggtgtcgaaacttgataaactcaagttccgcgataagaaagag                                                                                                                                                       <  1:84505‑M2/202‑94 (MQ=255)                                                                                                                                                    gcggttgcctgcattctggcagagatgaaactagactatgcaacgctgctagcggcgctgctgcatgacgtgattgaagatactcccgccacctaccaggatCAGGATATGGAACAGCTTTTTGGTAAAAGCGTCGCCGAGCTGGTAGAGGGGGTGTCGAAACTTGATAAACTCAAGTTCCGCGATAAGAAAGAGGCGCAgg                                                                                                                                                      <  1:173713‑M1/100‑1 (MQ=255)                                                                                                                                                          gCGGTTGCCTGCATTCTGGCAGAGATGAAACTAGACTATGCAACGCTGCTAGCGGCGCTGCTGCATGACGTGATTGAAGATACTCCCGCCACCTACCAGGATcaggatatggaacagctttttggtaaaagcgtcgccgagctggtagagggggtgtcgaaacttgataaactcaagttccgcgataagaaagaggcgcagg                                                                                                                                                <  1:173713‑M2/202‑101 (MQ=255)                                                                                                                                                                      gccgagatgaaactcgactatgaaacgctgatggcggcgctgctgcatgacgtgattgaagatactaccgccacctaccaggatCAGGATATGGAACAGCTTTTTGGTAAAAGCGTCGCCGAGCTGGTAGCGGGGGTGTCGCAACTTGATAAACTCAAGTTCCGCGATAAGAAAGAGGCGCa                                                                                                                                                        <  1:230333‑M1/98‑1 (MQ=255)                                                                                                                                                                       gcgagatgaaactcgactatgaaacgctgatggcggcgctgctgcatgacgtgagtgaagatactcccgccacctaccaggatCAGGATATGGAACAGCTTGTGGGTAAAAGCGTCGCCGAGCTGGTAGAGGGGTTGTCGAAACTTGATAAACGCAAGGTCCGCGATAAGAAAGAGGCGCAGGCCGAAAACTTTCGCAAGATGATGATGGCGATGGTGCAGGATATCCGCGGCATCCTCATCAAACTTGcc                                                                                  >  1:160578‑M1/84‑251 (MQ=255)                                                                                                                                                                            gCCGAGATGAAACTCGACTATGAAACGCTGATGGCGGCGCTGCTGCATGACGTGATTGAAGATACTACCGCCACCTACCAGGATcaggatatggaacagctttttggtaaaagcgtcgccgagctggtagcgggggtgtcgcaacttgataaactcaagttccgcgataagaaagaggcgca                                                                                                                                                  <  1:230333‑M2/182‑99 (MQ=255)                                                                                                                                                                             gcgAGATGAAACTCGACTATGAAACGCTGATGGCGGCGCTGCTGCATGACGTGAGTGAAGATACTCCCGCCACCTACCAGGATcaggatatggaacagcttgtgggtaaaagcgtcgccgagctggtagaggggttgtcgaaacttgataaacgcaaggtccgcgataagaaagaggcgcaggccgaaaactttcgcaagatgatgatggcgatggtgcaggatatccgcggcatcctcatcaaacttgcc                                                                            >  1:160578‑M2/2‑83 (MQ=255)                                                                                                                                                                                                                ctgcatgacgtgattgaagatcctaccgccacctaccaggatCAGGATATGGAACAGCTTTTTGGTAAAAGAGTCGACGAGCTGGTAGAggggg                                                                                                                                                                                                      <  1:409070‑M1/52‑1 (MQ=255)                                                                                                                                                                                                                      ctgcATGACGTGATTGAAGATCCTACCGCCACCTACCAGGATcaggatatggaacagctttttggtaaaagagtcgacgagctggtagaggggg                                                                                                                                                                                                <  1:409070‑M2/94‑53 (MQ=255)                                                                                                                                                                                                                                                       gatCAGGATATGGAACAGCTTTTTGGTAATAGCGTCGCCGAGCTGGTAGAGGGGGTGTCGCAACTTGATAAACTCACGTTCCGCGATAAGAACGAGGCGCAGGCCGAAAACTTTCGCAAGATGATTATGGCGATGGTGCAGGATATCCGCGTCATCCTCATCAACCTTGCCGACCGTACCCACAACATGCGCACGATGGGCTCACTTCGCCCGGACAAACGTCGCCGCATCGCCCGTGAAACTATcgaact  <  1:411768‑M1/248‑3 (MQ=255)                                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                        CCCTTGTATCTGTTTGAAAGCCTGAATCAACTGATTCAAACCTACCTGCCGGAAGACCAAATCAAGCGTCTGCGGCAGGCGTATCTCGTTGCACGTGATGCTCACGAGGGGCAAACACGTTCAAGCGGTGAACCCTATATCACGCACCCGGTAGCGGTTGCCTGCATTCTGGCCGAGATGAAACTCGACTATGAAACGCTGATGGCGGCGCTGCTGCATGACGTGATTGAAGATACTCCCGCCACCTACCAGGATATGGAACAGCTTTTTGGTAAAAGCGTCGCCGAGCTGGTAGAGGGGGTGTCGAAACTTGATAAACTCAAGTTCCGCGATAAGAAAGAGGCGCAGGCCGAAAACTTTCGCAAGATGATTATGGCGATGGTGCAGGATATCCGCGTCATCCTCATCAAACTTGCCGACCGTACCCACAACATGCGCACGCTGGGCTCACTTCGCCCGGACAAACGTCGCCGCATCGCCCGTGAAACTCTCGAAAT  >  NC_000913/3822397‑3822893

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.