genome.fa.s8259.2.7.7.80.10.50.1000.4.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: VEPZ01008259.1 Hibiscus syriacus cultivar Beakdansim tig00110912_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373650

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

This is table  4  of  11  ( 1275 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)
771818--771848	15	2.1	15	94	5	55	64	3	0	32	1.09
772189--772229	21	2.0	21	85	0	55	39	24	14	21	1.91
785554--785582	3	9.7	3	100	0	58	31	0	0	68	0.89
786775--786833	2	29.5	2	100	0	118	50	49	0	0	1.00
808119--808175	6	9.3	6	81	11	71	82	0	17	0	0.67
808116--808154	9	4.2	9	93	3	60	79	0	20	0	0.73
808119--808175	15	4.0	14	89	10	89	82	0	17	0	0.67
808116--808176	9	6.3	9	81	11	59	80	0	19	0	0.72
808119--808176	24	2.4	25	82	11	84	81	0	18	0	0.70
809198--809788	140	4.2	140	83	2	690	35	15	21	27	1.94
809909--809966	14	3.8	15	80	13	64	44	1	0	53	1.10
809924--809963	14	2.8	14	96	3	71	45	0	0	55	0.99
810001--810051	23	2.2	23	82	0	66	41	45	7	5	1.57
810321--810351	2	15.5	2	100	0	62	48	0	0	51	1.00
810374--810468	35	2.7	35	73	20	90	41	7	9	42	1.65
818910--819265	131	2.7	130	81	0	390	34	11	15	39	1.83
828051--828079	15	2.0	15	93	6	51	27	17	6	48	1.72
834242--834284	20	2.2	20	83	8	52	37	4	2	55	1.33
839547--839606	7	7.9	7	77	18	50	78	0	16	5	0.92
839532--839608	32	2.6	29	84	10	93	75	0	18	6	1.01
839555--839625	24	3.0	23	76	15	72	76	0	16	7	1.00
840859--841292	133	3.3	130	82	3	485	32	22	15	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
841482--841511	3	10.0	3	100	0	60	33	0	0	66	0.92
841725--841880	81	1.9	81	85	2	215	35	30	16	17	1.92
842967--843103	62	2.2	61	75	19	140	21	10	11	56	1.63
843467--843830	131	2.8	130	83	3	430	33	12	16	37	1.86
844432--844568	60	2.3	61	80	8	147	29	17	19	32	1.95
848141--848174	18	1.9	17	88	5	50	32	11	29	26	1.92
850878--850927	26	1.9	26	88	8	75	40	16	22	22	1.91
856342--856414	3	24.3	3	83	5	76	30	4	4	61	1.33
872443--872476	14	2.4	14	90	0	50	70	0	2	26	1.01
872522--872620	38	2.6	38	82	3	110	50	0	12	37	1.40
873154--873203	26	1.9	26	87	0	73	38	10	10	42	1.72
874640--874669	7	4.1	7	95	4	51	26	0	0	73	0.84
886659--886685	6	4.5	6	100	0	54	14	0	0	85	0.61
893473--893515	22	2.0	22	86	9	61	11	16	4	67	1.38
895201--895326	31	4.1	33	72	19	94	26	0	10	63	1.26
895299--895347	21	2.3	22	85	3	64	16	2	10	71	1.22
895348--895388	10	4.0	10	87	6	55	43	2	2	51	1.28
897759--897825	27	2.5	27	85	0	89	43	16	4	35	1.68
901786--902070	45	6.4	45	87	1	376	21	19	16	42	1.89
901788--902071	134	2.1	133	87	1	345	21	19	15	43	1.88
908265--908316	22	2.4	22	84	15	72	25	9	36	28	1.87
908356--908457	40	2.5	41	85	6	145	33	20	24	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
908370--908482	40	2.8	40	85	8	113	32	22	23	21	1.98
909856--909934	29	2.7	28	72	16	70	46	2	1	49	1.23
910203--910250	23	2.1	23	88	7	71	45	0	2	52	1.12
909577--911037	367	4.0	366	93	3	2445	37	8	8	45	1.65
910938--910985	23	2.1	23	92	0	78	47	0	2	50	1.12
920754--920793	18	2.2	18	86	0	53	10	2	10	77	1.08
935154--935187	11	3.0	11	86	4	50	76	0	2	20	0.92
935154--935206	25	2.2	24	83	6	63	73	1	7	16	1.15
939868--939991	21	5.7	21	83	11	169	41	25	9	22	1.84
939865--939995	44	3.0	44	90	5	221	40	25	9	24	1.85
941512--941556	22	2.1	22	84	12	58	26	11	4	57	1.52
956277--956314	15	2.5	15	82	0	58	60	7	10	21	1.54
960782--960884	21	4.8	20	86	10	134	39	27	9	23	1.86
960804--960887	44	1.9	44	97	0	159	38	28	9	23	1.86
960961--960997	17	2.2	17	95	0	65	48	18	10	21	1.78
969266--969314	12	3.9	13	75	20	50	69	4	6	20	1.27
969267--969314	25	2.0	24	88	8	71	70	4	6	18	1.25
972177--972212	15	2.4	15	95	0	63	55	11	11	22	1.66
975958--976020	23	2.7	23	90	0	99	22	34	25	17	1.95
975979--976061	21	3.9	21	85	6	87	25	34	25	14	1.94
981851--981877	2	13.5	2	100	0	54	51	0	0	48	1.00
984523--984559	4	9.8	4	85	11	51	51	18	0	29	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
984539--984622	2	42.5	2	90	2	134	51	3	0	45	1.18
992771--992799	14	2.1	14	100	0	58	27	20	24	27	1.99
993298--993354	28	2.0	28	89	0	87	35	5	14	45	1.67
993298--993380	15	5.7	15	75	11	82	33	6	16	43	1.73
996956--996990	15	2.3	15	90	0	52	31	8	22	37	1.85
997135--997192	24	2.4	24	82	0	71	22	27	24	25	2.00
997303--997329	13	2.1	13	100	0	54	25	7	14	51	1.68
998260--998312	22	2.5	22	93	3	90	41	0	9	49	1.35
1000981--1001033	19	2.8	19	78	13	56	58	3	0	37	1.16
1007607--1007682	30	2.5	30	78	20	77	77	7	13	1	1.04
1007626--1007668	21	1.9	24	86	13	65	79	6	13	0	0.93
1007603--1007670	29	2.4	28	73	20	70	76	8	14	0	1.01
1007716--1008061	175	2.0	169	91	6	552	36	19	17	25	1.94
1009543--1009848	106	2.9	106	91	2	490	35	26	17	20	1.95
1009657--1010007	169	2.1	169	91	2	562	33	25	17	23	1.96
1009763--1009903	63	2.2	63	91	0	219	32	26	16	24	1.96
1009551--1010080	275	1.9	275	91	1	857	33	25	18	21	1.97
1009826--1010235	106	3.9	106	84	5	523	33	24	19	22	1.97
1010965--1011069	37	2.8	37	86	0	147	40	15	14	30	1.87
1011565--1011626	21	3.0	20	73	17	54	29	3	1	66	1.17
1011540--1011634	19	4.8	19	72	14	68	32	4	1	62	1.22
1011595--1011646	19	2.6	19	72	6	50	34	1	0	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011830--1011865	18	1.9	19	88	5	56	30	5	0	63	1.17
1011931--1011971	15	2.6	16	81	14	50	14	7	0	78	0.96
1011922--1011990	25	2.8	24	73	20	61	15	10	0	73	1.08
1012887--1012930	19	2.3	19	92	4	70	18	29	34	18	1.94
1026980--1027074	36	2.6	36	76	0	100	36	20	24	18	1.95
1030396--1030455	21	2.9	21	82	5	68	48	6	16	28	1.71
1031093--1031138	17	2.5	20	82	13	62	36	4	17	41	1.69
1038754--1038802	25	2.0	24	84	11	64	44	2	0	53	1.12
1040068--1040129	31	2.0	31	90	6	99	40	19	6	33	1.77
1043091--1043146	21	2.6	21	82	2	67	26	23	17	32	1.97
1045240--1045273	8	4.2	8	88	0	50	14	20	0	64	1.28
1046949--1047017	21	3.3	21	85	0	102	26	20	20	33	1.97
1047864--1047923	22	2.8	21	79	2	66	25	25	18	31	1.97
1047867--1047923	21	2.6	22	77	2	62	24	26	19	29	1.98
1056063--1056087	13	1.9	13	100	0	50	52	8	8	32	1.60
1056499--1056580	23	3.6	22	78	8	85	25	24	25	24	2.00
1058884--1058954	21	3.3	20	78	9	70	71	1	7	19	1.16
1059559--1059621	19	3.2	19	75	4	54	55	12	0	31	1.37
1059524--1059721	64	2.8	68	80	14	208	57	12	2	28	1.46
1059579--1059743	76	2.2	76	87	3	244	55	10	3	30	1.49
1067090--1067137	21	2.3	20	89	3	69	77	0	4	18	0.93
1067630--1067688	21	2.9	21	78	9	61	52	15	1	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1067690--1067752	19	3.2	19	75	4	54	55	12	0	31	1.37
1067710--1067874	76	2.2	76	86	3	235	57	10	1	30	1.41
1072503--1072553	19	2.6	20	81	3	59	41	3	17	37	1.68
1079884--1079979	31	3.1	31	73	13	97	31	4	21	42	1.72
1080237--1080603	20	18.5	20	83	6	424	34	25	18	20	1.96
1081024--1081075	26	2.0	27	84	3	70	44	5	3	46	1.45
1082083--1082939	136	6.3	137	78	9	790	44	13	13	28	1.82
1082411--1082444	17	1.9	18	88	5	52	55	5	14	23	1.61
1085146--1085385	117	2.1	115	81	6	281	24	18	15	42	1.88
1085944--1085992	23	2.1	23	100	0	98	18	0	38	42	1.50

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