genome.fa.s172.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold172
Parameters: 2 7 7 80 10 50 1000
Length:  1975206

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  4  of  11  ( 1205 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470238--470312	28	2.7	28	89	0	87	24	20	29	26	1.99
470647--470848	52	3.9	51	77	3	181	35	16	23	25	1.95
470944--471064	32	3.8	31	84	6	145	17	19	30	33	1.94
471302--471509	61	3.4	62	78	8	192	37	13	24	24	1.91
471474--471627	52	2.9	53	80	7	179	36	13	24	25	1.92
471762--471914	32	4.8	32	84	8	179	22	15	29	32	1.95
471762--471914	64	2.4	65	85	5	204	22	15	29	32	1.95
474057--474095	13	3.0	13	92	0	69	35	17	15	30	1.91
474168--474217	21	2.3	22	96	3	93	36	10	26	28	1.88
474205--474236	10	3.2	10	90	0	55	40	6	28	25	1.79
474259--474395	53	2.6	53	94	1	238	27	17	17	37	1.92
474365--474435	20	3.5	20	81	11	83	29	12	18	39	1.88
474475--474515	21	2.0	21	85	9	57	39	9	12	39	1.76
481426--481458	17	2.0	17	88	5	50	36	0	24	39	1.56
488242--488446	42	4.9	42	78	8	175	39	18	27	15	1.90
488254--488446	84	2.3	84	85	5	248	38	17	27	16	1.91
488296--488774	42	11.4	42	73	12	228	39	18	27	15	1.90
489463--489661	89	2.2	90	89	0	292	32	16	23	28	1.96
492621--492646	13	2.0	13	100	0	52	38	15	15	30	1.88
494594--494619	13	2.0	13	100	0	52	30	15	15	38	1.88
494679--494751	20	3.6	20	81	3	101	32	17	13	35	1.89
494658--494734	21	3.8	20	77	8	84	29	16	11	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494658--494751	41	2.3	40	92	7	154	30	18	12	38	1.88
497203--497241	13	3.0	13	96	0	69	35	15	17	30	1.91
499320--499350	15	2.1	15	93	0	53	12	22	16	48	1.80
503411--503436	13	2.0	13	100	0	52	30	15	15	38	1.88
503500--503568	20	3.4	20	80	4	93	33	18	13	34	1.90
503475--503568	41	2.3	40	90	7	145	30	19	12	37	1.89
505049--505075	13	2.1	13	100	0	54	48	7	0	44	1.31
505151--505190	19	2.0	21	85	9	57	32	27	7	32	1.85
508268--508293	13	2.0	13	100	0	52	23	7	23	46	1.78
511836--511954	52	2.3	51	91	4	186	31	16	17	33	1.93
511963--511987	13	1.9	13	100	0	50	36	16	16	32	1.90
512647--513032	49	7.9	49	80	6	408	31	16	25	25	1.97
513032--513237	33	6.2	34	89	6	309	19	17	34	28	1.94
513032--513237	67	3.1	66	90	4	328	19	17	34	28	1.94
513239--513607	34	11.4	34	79	13	350	33	13	33	19	1.91
513239--513562	171	2.0	159	85	9	434	33	12	34	19	1.90
513478--513595	27	4.1	26	73	21	94	27	14	34	22	1.93
513314--513607	67	4.6	60	80	11	286	31	13	34	20	1.91
513602--513712	31	3.7	31	89	8	167	26	18	27	27	1.98
514675--514726	16	3.3	17	81	7	58	1	11	7	78	1.02
521905--522023	52	2.3	51	91	4	186	31	16	17	33	1.93
522032--522056	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528047--528095	22	2.2	21	79	10	53	30	0	2	67	1.02
529197--530049	65	13.2	65	77	5	555	20	23	12	43	1.86
529204--530030	195	4.3	190	76	7	650	19	23	12	44	1.86
529197--530049	259	3.3	258	80	5	690	20	23	12	43	1.86
530011--530107	42	2.3	42	96	0	176	19	26	11	42	1.85
531042--531168	50	2.5	50	85	2	157	29	15	13	40	1.86
533540--534066	237	2.2	236	81	5	573	28	24	13	33	1.93
533539--534088	157	3.5	157	81	4	554	28	24	13	34	1.93
533521--534086	79	7.2	78	79	5	480	28	24	12	34	1.92
538290--538365	20	3.8	20	83	0	107	31	14	11	42	1.82
539283--539325	21	2.0	22	86	8	63	20	20	9	48	1.77
542221--542246	13	2.0	13	100	0	52	30	15	15	38	1.88
544410--544465	19	2.9	19	89	2	85	35	12	19	32	1.89
550730--550760	13	2.4	13	94	0	53	41	12	12	32	1.81
550805--550858	19	2.8	20	85	2	74	38	12	16	31	1.87
550826--550877	19	2.7	19	84	3	59	42	15	15	26	1.87
551426--551472	13	3.7	12	83	11	58	85	14	0	0	0.61
552425--552492	30	2.2	30	82	7	84	20	29	13	36	1.91
552523--553326	62	12.9	62	82	7	786	24	24	19	31	1.98
552534--553346	373	2.2	376	83	5	1026	24	24	19	31	1.98
553508--553617	40	2.7	39	79	10	96	20	23	14	41	1.89
553549--553636	40	2.2	38	77	13	88	17	30	12	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554225--554408	50	3.7	50	88	1	262	26	17	14	41	1.88
556748--557622	79	11.1	79	78	7	717	29	22	12	35	1.91
556748--557622	238	3.7	235	79	7	851	29	22	12	35	1.91
556748--557630	158	5.6	156	79	4	837	29	22	12	35	1.91
558355--558444	47	1.9	47	97	0	171	27	23	23	25	2.00
559056--559093	4	9.5	4	83	11	51	21	5	0	73	1.02
559056--559093	12	3.2	12	88	0	58	21	5	0	73	1.02
562537--562563	13	2.1	13	100	0	54	22	0	0	77	0.76
563617--563643	13	2.1	13	100	0	54	29	22	14	33	1.94
563724--564573	65	13.1	64	74	6	539	20	23	12	43	1.86
564532--564631	42	2.4	42	91	0	155	20	30	9	41	1.83
564623--564687	34	1.9	34	84	3	87	21	18	15	44	1.86
566818--566909	38	2.4	38	92	0	157	17	8	18	55	1.67
567720--567811	33	2.8	32	77	9	87	50	1	34	14	1.50
573237--573354	20	5.8	20	68	16	80	30	16	17	35	1.92
575898--575937	20	2.0	21	95	5	73	30	17	12	40	1.86
581782--581809	11	2.5	11	100	0	56	0	7	0	92	0.37
581782--581826	23	2.0	21	83	8	54	2	15	0	82	0.77
582859--582990	48	2.8	48	87	2	185	35	18	26	19	1.95
583101--583150	25	2.0	25	96	0	91	18	24	26	32	1.97
583126--584567	58	24.6	56	82	7	1174	23	17	29	29	1.97
583126--584567	28	49.2	28	81	7	1174	23	17	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583506--584362	32	28.5	31	84	5	512	21	17	30	30	1.96
583138--584540	418	3.4	421	81	7	592	23	16	29	30	1.96
584375--584831	55	8.2	57	80	7	266	29	14	31	24	1.94
584472--584889	27	15.2	27	79	8	380	31	14	29	24	1.94
584429--584889	109	4.2	109	80	4	431	31	14	29	24	1.94
584472--584852	137	2.8	136	83	2	460	31	14	30	23	1.94
586257--586649	131	3.0	131	94	0	687	33	11	20	33	1.90
606445--606630	79	2.4	79	80	5	207	34	13	24	27	1.93
606563--606681	51	2.3	51	88	0	166	28	12	30	28	1.93
606664--606737	28	2.6	28	89	4	114	24	22	31	21	1.99
606563--606867	158	1.9	158	82	1	378	30	13	27	28	1.94
606720--606835	51	2.3	51	83	3	153	31	10	26	31	1.90
606713--607029	130	2.4	130	82	1	402	35	11	24	28	1.90
609429--609458	13	2.3	13	94	0	51	40	10	16	33	1.82
610225--610323	46	2.2	42	85	8	126	46	12	24	17	1.81
610363--610597	61	3.9	61	83	4	296	27	21	26	24	1.99
610363--610596	122	1.9	122	85	3	328	27	21	26	24	1.99
610554--610677	55	2.3	55	87	4	178	24	22	25	28	2.00
610695--610922	55	4.1	55	81	4	248	22	23	25	28	1.99
610534--610820	149	1.9	149	85	2	389	25	20	27	26	1.99
610694--610922	110	2.1	110	82	4	275	22	23	25	28	1.99
611378--611432	20	2.8	20	82	0	74	45	10	12	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611989--612115	41	3.0	42	73	7	116	43	12	25	18	1.85
612308--612638	61	5.6	61	77	10	266	29	20	25	24	1.99
612500--612634	55	2.5	55	82	0	189	25	21	24	28	1.99
612561--612732	94	1.8	95	87	3	258	27	20	25	25	1.99
612653--612892	55	4.4	55	82	2	250	23	21	26	27	1.99
612493--612786	149	2.0	149	87	1	428	28	20	26	25	1.99
612441--612843	204	1.9	207	82	5	503	27	20	25	25	1.99
614025--614178	42	3.6	43	74	12	109	42	11	27	18	1.84
614057--614203	45	3.5	43	79	12	139	36	14	26	23	1.93
614168--614549	61	6.4	59	81	8	382	28	20	26	25	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11