genome.fa.s9595.2.7.7.80.10.50.1000.4.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: VEPZ01009595.1 Hibiscus syriacus cultivar Beakdansim tig00116974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1046665

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 570 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)
602983--603019	18	2.1	18	89	0	56	32	5	10	51	1.60
602975--603027	24	2.2	24	86	0	70	35	3	13	47	1.61
603614--603670	19	2.9	20	86	5	89	17	14	22	45	1.84
603729--603869	66	2.2	64	83	13	168	51	15	1	31	1.53
605250--605332	42	2.0	42	85	4	114	20	18	36	25	1.95
605472--605517	4	11.5	4	80	0	56	67	2	2	28	1.14
607522--607564	20	2.2	20	87	4	61	11	16	25	46	1.80
607834--607884	22	2.3	22	96	0	93	21	13	43	21	1.87
608014--608084	20	3.5	20	68	21	58	18	19	22	39	1.92
608081--608137	21	2.8	21	89	2	80	38	19	19	22	1.93
616814--616881	34	2.0	34	94	0	118	25	8	19	47	1.78
622342--622368	2	13.5	2	100	0	54	48	51	0	0	1.00
626879--626980	44	2.2	45	88	8	145	26	10	21	41	1.86
629442--629487	21	2.1	23	84	15	62	36	10	0	52	1.37
636638--636748	16	6.7	15	72	20	55	72	0	21	5	1.11
636638--636744	25	4.2	25	70	19	71	71	0	21	5	1.11
636688--636748	9	7.1	9	73	17	58	73	0	21	4	1.01
636638--636748	17	6.6	16	75	18	77	72	0	21	5	1.11
636638--636733	50	1.9	49	81	12	115	72	1	20	5	1.09
637882--638449	51	10.9	51	92	3	735	29	14	26	29	1.95
640071--640099	15	1.9	15	100	0	58	24	0	6	68	1.13
644042--644083	16	2.5	17	81	14	52	50	0	4	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654069--654113	22	2.0	22	82	0	54	20	8	24	46	1.78
657792--657894	53	1.9	53	100	0	206	19	13	16	50	1.78
658460--658505	23	2.0	24	83	12	60	30	8	4	56	1.49
658460--658508	24	2.0	25	81	18	59	30	8	6	55	1.54
659125--659161	2	18.5	2	94	0	65	51	0	45	2	1.15
660070--660302	120	1.9	121	91	0	378	37	16	16	29	1.91
660368--660393	3	8.7	3	100	0	52	69	0	30	0	0.89
666406--666452	19	2.3	22	79	17	57	51	4	0	44	1.21
668420--668454	17	2.0	18	94	5	63	51	5	20	22	1.68
668419--668459	17	2.5	15	82	17	55	48	4	19	26	1.69
669251--669341	39	2.3	39	94	0	155	26	20	20	31	1.98
673647--673705	23	2.6	23	91	0	91	25	27	27	20	1.99
675642--675708	22	3.0	22	93	2	107	26	28	25	19	1.99
677403--677447	21	2.1	21	87	0	63	15	24	28	31	1.96
680582--680648	22	3.0	22	95	2	116	25	28	26	19	1.99
682349--682393	21	2.1	21	87	0	63	15	24	28	31	1.96
686486--686517	16	2.0	16	93	0	55	28	18	28	25	1.98
688666--688735	31	2.3	31	97	0	131	45	17	12	24	1.83
703282--703324	21	1.9	22	86	13	61	51	0	0	48	1.00
705257--705328	36	2.0	36	100	0	144	25	25	5	44	1.75
708226--708335	50	2.2	51	96	1	204	55	4	10	29	1.54
708347--708419	2	36.5	2	97	0	137	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
708900--709000	36	2.8	37	86	6	134	30	15	14	38	1.88
709468--710091	109	5.9	107	81	6	547	22	20	25	32	1.98
710699--711175	36	13.9	36	67	17	264	37	12	20	28	1.90
710687--710824	67	2.1	67	90	0	213	36	13	20	30	1.90
710867--711175	37	8.9	37	69	17	232	37	13	21	27	1.90
710699--711157	102	4.5	102	91	0	668	37	12	20	29	1.90
712677--712726	24	2.1	24	89	10	77	0	16	6	78	0.95
716002--716066	2	33.5	2	90	6	107	53	0	0	46	1.00
716055--716105	21	2.5	20	83	6	66	68	0	1	29	1.00
716085--716122	16	2.4	16	82	4	51	63	0	5	31	1.17
716244--716352	50	2.2	51	93	3	186	55	3	11	30	1.52
716364--716434	2	35.5	2	100	0	142	49	0	0	50	1.00
716916--717016	36	2.8	37	86	6	134	30	15	14	38	1.88
720367--720413	12	3.9	12	88	0	58	42	34	21	2	1.65
720382--720422	3	13.7	3	89	0	64	36	31	31	0	1.58
720364--720425	21	3.0	21	90	0	88	41	32	24	1	1.64
723329--723362	13	2.5	13	95	4	59	50	8	0	41	1.34
732699--732749	19	2.7	19	82	8	61	23	37	15	23	1.93
732648--732856	65	3.2	63	82	7	206	29	26	17	26	1.97
736699--736822	31	4.0	31	77	7	117	29	18	20	31	1.97
736699--736818	63	1.9	63	83	8	156	29	18	20	31	1.96
741619--741663	3	15.7	3	78	17	51	60	2	0	37	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
741619--741663	21	2.1	21	91	4	72	60	2	0	37	1.09
741847--742089	55	4.5	53	77	9	161	27	22	17	32	1.97
741935--742101	55	3.0	56	88	5	232	30	23	14	31	1.95
741898--742269	107	3.4	109	70	16	265	25	24	16	33	1.96
742115--742656	51	10.4	51	82	8	617	22	25	18	33	1.97
741841--742633	105	7.5	105	79	8	766	24	24	18	32	1.97
756579--756884	151	2.0	155	97	2	584	33	14	16	34	1.90
760164--760224	23	3.0	20	83	9	61	26	31	26	16	1.96
760188--760230	19	2.3	19	84	8	52	20	32	32	13	1.92
765976--766015	20	2.0	20	90	4	64	55	7	0	37	1.29
766230--766316	31	2.9	30	82	3	111	21	16	25	36	1.94
769407--769750	57	6.1	56	86	6	478	32	19	13	34	1.90
770070--770140	22	3.5	20	75	16	65	30	21	11	36	1.88
775816--775876	31	2.0	31	87	6	88	32	9	11	45	1.73
779442--779478	18	2.1	18	94	0	65	54	16	5	24	1.63
785330--785424	44	2.2	44	86	0	127	35	5	17	41	1.73
798757--798791	17	2.1	17	89	10	54	37	2	14	45	1.59
808787--808825	18	2.2	18	86	9	53	23	15	25	35	1.94
810062--810092	16	2.0	16	93	6	55	41	6	25	25	1.79
810225--810299	37	2.0	37	82	10	91	46	4	0	49	1.20
818244--818291	23	2.1	23	88	0	69	35	6	10	47	1.63
826310--826365	2	28.0	2	100	0	112	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
828400--828424	12	2.1	12	100	0	50	28	24	24	24	2.00
833995--834052	29	2.1	29	84	9	77	39	13	3	43	1.61
836058--836113	8	6.9	9	79	20	54	55	0	0	44	0.99
836049--836089	14	3.0	13	86	10	55	60	0	0	39	0.96
836082--836112	2	15.5	2	100	0	62	51	0	0	48	1.00
836534--837412	110	8.0	110	91	1	1370	24	17	22	34	1.96
836534--837412	437	2.0	438	90	1	1386	24	17	22	34	1.96
841069--841111	21	2.0	21	81	0	50	30	30	25	13	1.94
841091--841240	66	2.3	67	95	1	266	28	28	26	16	1.96
841204--841241	20	1.9	20	88	0	58	23	34	31	10	1.89
841243--841271	13	2.1	14	93	6	51	79	0	20	0	0.74
841695--841753	22	2.6	23	94	2	102	18	27	30	23	1.98
844742--845014	136	2.0	136	100	0	546	23	21	21	33	1.97
847968--848010	21	2.0	21	81	0	50	30	30	25	13	1.94
847965--848136	63	2.7	63	83	9	195	29	27	26	16	1.97
847990--848136	63	2.3	66	89	4	219	29	27	26	16	1.97
848751--848810	23	2.6	23	97	0	111	18	26	31	23	1.97
850673--850720	25	2.0	25	88	12	73	72	0	0	27	0.84
864213--864244	7	4.6	7	100	0	64	84	0	0	15	0.63
865007--865043	12	3.1	12	92	0	56	62	13	0	24	1.31
865013--865043	6	5.2	6	92	0	53	64	16	0	19	1.29
866361--866408	24	2.0	24	87	0	69	54	2	0	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
867120--867158	2	19.5	2	89	0	60	0	53	0	46	1.00
867426--867550	60	2.1	59	80	1	133	33	18	12	35	1.89
868450--868482	15	2.2	15	94	0	57	42	15	0	42	1.46
869614--869760	10	15.6	9	69	19	70	74	0	8	16	1.08
869614--869741	36	3.6	36	78	16	133	75	0	7	17	1.07
869626--869734	36	2.9	39	81	11	138	75	0	7	16	1.08
869622--869684	5	12.4	5	79	17	60	79	0	4	15	0.90
869614--869760	31	5.0	28	73	17	95	74	0	8	16	1.08
870017--870066	24	2.1	24	85	14	68	72	0	12	16	1.13
870054--870145	40	2.2	42	83	11	111	70	1	7	20	1.18

Tables:   1   2   3   4   5