Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	2,867,796	IS1 (+) +9 bp	coding (950‑958/1140 nt)	nlpD ←	activator of AmiC murein hydrolase activity, lipoprotein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2867796 =	0 (0.000)	27 (0.720)	25/240	0.6	100%	coding (958/1140 nt)	nlpD	activator of AmiC murein hydrolase activity, lipoprotein
	?	NC_000913	= 3584195	NA (NA)					noncoding (768/768 nt)	IS1	repeat region
*	?	NC_000913	= 2867804	0 (0.000)	43 (1.150)	38/240	0.1	100%	coding (950/1140 nt)	nlpD	activator of AmiC murein hydrolase activity, lipoprotein
	?	NC_000913	3583428 =	NA (NA)					noncoding (1/768 nt)	IS1	repeat region

TAACGAATTTCAAAATGCAAGCGTGTTGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2867660‑2867804 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCG  >  NC_000913/3583428‑3583568                                                                                                                                                                                                                                                                                                TAACGAATTTCAAAATGCAAGCGTGTTGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGT                                                                                                                                            <  4:90847/148‑1     GAATTTCAAAATGCAAGCGTGTTGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTT‑TTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCT                                                                                                                                      >  7:47633/1‑149                       GTGTTGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCTCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTA                                                                                                                     <  6:161063/149‑1                          TTGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTT‑TTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGT                                                                                                                 <  8:47633/149‑1                           TGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACT                                                                                                                               <  4:6801/135‑1                           TGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACT                                                                                                                               >  3:6801/1‑135                                             ACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAG                                                                                                                    >  1:148706/1‑128                                             ACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAG                                                                                                                    <  2:148706/128‑1                                                 ATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCT                                                                                           >  7:8949/1‑149                                                       GCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTG                                                                                     <  8:8949/149‑1                                                        CTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGT                                                                                      >  3:15413/1‑147                                                        CTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGT                                                                                      <  4:15413/147‑1                                                                  CCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTC                                                                          >  7:26764/1‑149                                                                  CCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATG                                                                                                           <  1:214627/116‑1                                                                  CCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATG                                                                                                           >  2:214627/1‑116                                                                    CCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTA                                                                        >  4:7147/1‑149                                                                       CCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTC                                                                                >  1:42154/1‑138                                                                       CCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTC                                                                                <  2:42154/138‑1                                                                           AACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGC                                                                   <  3:7147/147‑1                                                                               TCTTGTTGTTCCCGGGCCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCC                                                             >  5:192870/1‑149                                                                               TCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCTACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCC                                                             >  1:50927/1‑149                                                                                         CCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTG                                                                                             >  8:58046/1‑107                                                                                         CCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTG                                                                                             <  7:58046/107‑1                                                                                          CCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTAC                                                                                                                            <  5:102229/75‑1                                                                                          CCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTAC                                                                                                                            >  6:102229/1‑75                                                                                           CGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCT                                                 <  3:6728/149‑1                                                                                                    ATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGG                                        <  8:26764/149‑1                                                                                                     TTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCT                                                                         >  2:157384/1‑115                                                                                                         GTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGT                                   <  6:192870/149‑1                                                                                                          TCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGTGTGGT                                   <  2:50927/148‑1                                                                                                          TCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAG                                                                                                <  8:151537/87‑1                                                                                                          TCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAG                                                                                                >  7:151537/1‑87                                                                                                                         GCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGG                                                                                                          >  2:76109/1‑62                                                                                                                         GCACTCAGGTAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGG                                                                                                          <  1:76109/62‑1                                                                                                                                  TAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTA                                                >  3:35824/1‑111                                                                                                                                  TAATCATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTA                                                <  4:35824/111‑1                                                                                                                                       ATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAG                                                                                                >  6:143139/1‑58                                                                                                                                       ATCATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAG                                                                                                <  5:143139/58‑1                                                                                                                                         CATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATC                                                                      <  7:83038/82‑1                                                                                                                                         CATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATC                                                                      >  8:83038/1‑82                                                                                                                                          tcattacTGGTGATGCTGGCACCTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCAGGCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGC   <  3:12388/141‑1                                                                                                                                          ATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCG  >  2:41025/1‑149                                                                                                                                          ATTATGTTGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGT                                   >  4:115576/1‑116                                                                                                                                                                                                                                                                                                TAACGAATTTCAAAATGCAAGCGTGTTGAACTGGTTCCGGTGCTACCCATGGTCGCTATTTTTTGCCCCGCCTTAACTTCTTGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2867660‑2867804 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCG  >  NC_000913/3583428‑3583568

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.