genome.fa.s4117.2.7.7.80.10.50.1000.4.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: VEPZ01004117.1 Hibiscus syriacus cultivar Beakdansim tig00009009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2456583

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1080 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)
887631--888689	216	4.9	216	99	0	2088	30	26	14	27	1.95
889313--889394	30	2.8	30	84	10	109	47	14	3	34	1.62
892044--892113	16	4.4	16	85	3	88	20	24	12	42	1.86
892633--892727	49	2.0	49	87	2	138	34	6	7	51	1.55
892721--892769	24	2.1	23	96	3	89	42	8	2	46	1.45
892728--892782	24	2.5	21	82	11	58	38	10	5	45	1.63
892785--892824	21	1.9	21	90	10	64	52	0	0	47	1.00
893272--893336	2	32.0	2	83	9	78	44	1	4	49	1.32
893249--893336	21	4.7	20	76	17	82	42	1	4	52	1.29
894173--894227	14	3.9	14	82	0	65	27	0	21	50	1.49
894172--894233	14	4.4	14	74	8	54	27	0	22	50	1.50
894773--896470	4	427.2	4	97	1	3085	48	25	1	25	1.59
896656--896722	20	3.5	19	80	17	84	29	25	0	44	1.54
896693--896752	29	2.1	29	87	6	86	33	26	0	40	1.57
896826--896860	2	17.0	2	94	5	61	48	2	0	48	1.16
896903--897008	28	3.7	28	75	12	83	43	4	5	46	1.48
896915--896953	13	2.8	13	88	7	51	38	5	7	48	1.54
896833--897023	15	12.4	15	71	12	97	42	4	5	47	1.45
896940--897041	46	2.2	46	77	16	113	46	3	2	47	1.36
897725--897895	64	2.7	64	98	0	324	31	26	18	23	1.97
898439--898515	31	2.5	31	85	2	102	35	2	11	50	1.53
899458--899526	34	2.0	34	97	0	129	30	24	5	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
915115--915168	22	2.5	22	82	11	67	35	1	0	62	1.06
916988--917042	27	2.0	28	82	7	67	45	3	1	49	1.30
917785--919052	140	9.2	139	83	5	1518	36	16	21	26	1.94
917785--919052	418	3.1	416	86	4	1722	36	16	21	26	1.94
924596--924636	21	2.0	21	95	0	73	17	21	24	36	1.94
924787--924825	7	5.7	7	84	6	53	35	0	0	64	0.94
924724--924823	41	2.5	40	81	14	116	42	1	2	55	1.18
925635--925667	17	1.9	17	93	0	57	39	6	6	48	1.53
927659--927734	40	1.9	40	91	0	125	47	0	0	52	1.00
927654--927739	40	2.2	40	85	4	120	47	0	0	52	1.00
929384--929413	2	15.0	2	100	0	60	50	0	0	50	1.00
935430--935509	5	14.8	5	77	14	79	8	21	51	18	1.73
935423--935509	22	4.0	22	98	0	165	10	21	49	18	1.77
935506--935604	9	10.3	9	77	10	81	29	27	27	16	1.97
935531--935605	29	2.5	31	89	8	120	29	26	26	17	1.97
935506--935604	19	5.2	19	76	17	80	29	27	27	16	1.97
942775--942854	5	14.8	5	77	14	79	8	21	51	18	1.73
942768--942854	22	4.0	22	98	0	165	10	21	49	18	1.77
942851--942949	9	10.3	9	77	10	81	29	27	27	16	1.97
942876--942950	29	2.5	31	89	8	120	29	26	26	17	1.97
942851--942949	19	5.2	19	76	17	80	29	27	27	16	1.97
945253--945291	20	2.0	20	89	0	60	56	2	7	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948957--949046	44	2.0	44	97	0	171	30	14	22	33	1.93
950480--950612	42	3.1	41	79	6	149	30	20	15	33	1.94
950487--950608	44	2.9	41	78	9	136	29	19	14	36	1.92
952602--952632	2	15.5	2	100	0	62	51	0	0	48	1.00
953372--953423	21	2.4	22	74	3	52	19	5	3	71	1.22
953664--953730	29	2.2	31	84	10	86	49	2	7	40	1.46
956393--956425	17	1.9	17	88	11	50	33	0	6	60	1.21
963063--963118	12	4.7	12	80	8	60	44	17	16	21	1.86
963073--963119	6	7.8	6	85	0	58	44	17	17	21	1.86
963073--963118	18	2.6	18	85	0	65	43	17	17	21	1.88
971346--971379	18	1.9	17	94	5	59	26	11	20	41	1.87
972247--972359	60	1.9	60	87	3	165	33	18	16	30	1.94
972527--972590	24	2.7	24	95	0	110	6	17	25	51	1.68
976511--976540	15	2.0	15	100	0	60	40	0	6	53	1.27
976626--976658	2	17.0	2	93	6	59	51	0	0	48	1.00
978890--978920	16	1.9	16	93	0	53	32	9	19	38	1.84
979779--979845	34	1.9	34	82	14	84	20	13	19	46	1.83
982641--982683	17	2.4	18	81	14	54	72	2	2	23	1.08
982754--982780	6	4.5	6	100	0	54	44	37	0	18	1.50
982820--982856	17	2.1	19	85	10	51	64	10	0	24	1.25
983629--983673	7	6.4	7	94	0	81	84	0	13	2	0.72
984543--984597	27	2.0	27	82	0	65	34	1	1	61	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
987542--987627	33	2.7	32	81	3	91	26	20	16	36	1.94
992963--993037	39	1.9	39	81	10	91	0	25	13	61	1.32
993450--993534	3	28.0	3	89	2	125	62	1	0	36	1.03
993690--994452	76	10.0	76	97	0	1375	34	22	21	21	1.97
997772--997989	115	1.9	113	83	4	276	31	22	14	32	1.93
1000260--1000306	13	3.7	13	85	2	60	0	14	0	85	0.61
1000261--1000306	19	2.4	20	85	10	69	0	15	0	84	0.62
1004981--1005017	13	2.6	15	87	8	51	64	2	5	27	1.28
1005016--1005082	28	2.2	29	82	10	73	59	0	7	32	1.25
1005031--1005074	19	2.3	19	84	7	54	61	0	6	31	1.22
1007342--1007426	3	28.0	3	87	2	116	61	1	0	37	1.04
1016237--1016354	53	2.2	53	100	0	236	20	29	26	23	1.99
1021346--1021775	165	2.6	162	82	7	483	28	22	17	31	1.97
1021324--1021775	55	8.2	57	77	9	397	28	22	17	30	1.97
1021767--1021999	54	4.3	54	98	0	441	18	27	18	35	1.94
1022299--1022412	37	3.1	37	87	2	158	24	17	23	34	1.96
1023564--1023795	125	1.9	125	86	3	333	24	25	16	33	1.96
1027106--1027256	72	2.1	72	91	0	239	24	24	12	38	1.90
1027935--1028102	55	3.1	55	90	5	268	22	23	12	41	1.88
1027952--1028104	55	2.8	55	96	0	288	23	22	12	41	1.87
1034631--1034668	19	2.0	19	89	0	58	21	36	26	15	1.93
1037349--1037469	54	2.2	54	98	0	233	19	31	24	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053479--1053530	25	2.1	24	85	3	68	28	17	5	48	1.70
1060863--1061092	15	15.3	15	94	0	397	46	11	20	21	1.81
1063401--1063440	21	1.9	22	90	10	66	15	5	37	42	1.68
1063654--1063704	20	2.5	22	75	15	63	25	17	29	27	1.98
1063782--1063849	32	2.1	32	94	0	118	45	13	5	35	1.67
1067407--1067513	24	4.5	24	75	0	106	47	16	14	20	1.82
1067407--1067515	48	2.3	48	78	0	128	47	16	15	20	1.82
1069998--1070040	13	3.3	13	93	0	77	16	20	46	16	1.84
1072781--1072890	16	7.0	15	71	13	62	19	4	0	75	1.03
1072782--1072860	16	5.0	15	75	15	70	15	3	1	79	0.93
1072781--1072860	31	2.5	30	81	15	90	16	3	1	78	0.95
1072814--1072868	11	5.1	11	76	24	55	20	0	0	80	0.72
1072776--1072873	32	2.9	33	80	14	96	19	5	1	74	1.06
1072815--1072868	16	3.4	16	94	2	92	20	0	0	79	0.73
1074403--1074487	35	2.4	36	94	2	145	37	7	36	18	1.78
1076562--1076633	35	2.1	34	92	2	117	38	4	8	48	1.53
1081635--1081695	2	30.5	2	100	0	122	49	0	0	50	1.00
1083390--1083434	5	9.0	5	100	0	90	60	0	0	40	0.97
1083816--1083848	16	2.0	17	88	5	50	75	0	0	24	0.80
1083790--1083848	22	2.6	23	78	10	68	69	0	0	30	0.89
1096092--1096181	15	6.0	15	94	0	153	46	10	20	23	1.80
1096092--1096181	45	2.0	45	97	0	171	46	10	20	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099230--1099723	258	1.9	257	87	4	735	33	21	18	27	1.96
1100074--1100108	15	2.3	15	90	0	52	45	8	25	20	1.79
1103815--1103894	5	16.2	5	94	2	144	57	0	0	42	0.98
1104309--1104341	13	2.5	13	100	0	66	54	0	0	45	0.99
1105395--1105513	42	2.8	42	91	5	204	16	19	18	45	1.86
1105702--1105759	21	2.8	22	80	12	61	48	0	0	51	1.00
1105714--1105869	28	5.9	26	71	22	89	46	0	1	51	1.13
1105797--1105869	29	2.6	28	85	12	89	42	0	1	56	1.08
1105708--1105870	51	3.1	53	74	20	146	47	0	1	50	1.13
1106226--1106278	14	3.7	14	78	9	54	32	16	3	47	1.65

Tables:   1   2   3   4   5   6   7   8   9