genome.fa.s8041.2.7.7.80.10.50.1000.4.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  4  of  21  ( 2430 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)
841161--841223	29	2.1	31	88	8	96	44	11	12	31	1.78
844075--844156	26	3.2	26	87	1	121	21	13	30	34	1.92
852895--852958	26	2.4	26	92	2	101	48	6	28	17	1.71
854294--854362	31	2.3	30	85	9	88	36	2	23	37	1.70
856193--856236	18	2.4	18	84	0	52	40	11	9	38	1.73
864528--864587	21	2.9	21	82	0	84	6	26	41	25	1.80
866733--866795	31	2.0	31	90	0	99	41	11	14	33	1.81
869200--869261	27	2.4	27	82	15	71	27	17	24	30	1.97
869496--869536	20	2.0	20	85	0	55	39	21	9	29	1.86
875774--876211	219	2.0	219	100	0	876	27	23	18	30	1.98
878408--878458	27	1.9	27	96	4	95	25	23	19	31	1.98
878691--878732	20	2.1	20	86	0	57	38	23	9	28	1.86
887868--887940	29	2.4	30	84	4	94	34	19	5	41	1.74
889261--889299	2	19.5	2	100	0	78	48	0	0	51	1.00
889392--889932	269	2.0	268	86	3	750	38	11	13	36	1.81
893803--894026	54	4.1	54	94	0	385	25	13	29	31	1.94
894770--896012	192	6.5	192	83	3	1311	32	13	18	35	1.90
894770--896031	387	3.3	383	82	3	1396	32	13	18	35	1.89
894770--896012	579	2.2	576	81	3	1453	32	13	18	35	1.90
915815--915883	20	3.4	21	76	11	65	13	17	14	55	1.70
915836--915883	7	7.1	7	79	6	55	14	18	12	54	1.71
915836--915883	14	3.6	14	88	5	73	14	18	12	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
922284--922503	64	3.5	63	82	6	232	33	20	18	28	1.96
923222--923439	103	2.1	103	95	0	391	26	13	23	36	1.92
923449--923523	23	3.3	23	85	3	91	24	18	24	33	1.97
928186--928404	63	3.5	62	82	8	228	33	20	18	26	1.96
929122--929438	103	3.1	102	94	3	550	27	12	23	36	1.91
929454--929522	23	3.0	23	80	4	77	23	17	24	34	1.96
933143--933205	3	21.7	3	90	6	103	68	0	0	31	0.90
935972--936018	2	23.5	2	79	16	53	46	6	0	46	1.28
943011--943372	53	6.9	53	83	4	371	23	26	19	30	1.98
943011--943372	105	3.5	104	84	4	401	23	26	19	30	1.98
943812--944061	42	6.0	42	80	3	229	35	20	17	26	1.94
943944--944011	22	3.2	21	70	16	59	29	25	19	26	1.98
943860--944194	84	3.9	84	75	9	314	32	20	17	28	1.96
944113--944197	42	2.0	42	90	0	134	29	24	21	24	1.99
943978--944321	135	2.6	135	85	0	456	30	21	18	29	1.97
944438--944538	42	2.4	41	81	3	130	29	23	21	24	1.99
952798--952993	98	2.0	98	95	0	356	39	10	15	34	1.82
955156--955236	10	8.1	10	73	20	71	61	18	8	11	1.54
955166--955236	23	2.9	23	83	8	79	61	18	8	11	1.53
955501--955557	14	4.1	14	93	0	96	57	15	14	12	1.65
957565--957603	19	2.1	19	95	0	69	28	5	23	43	1.75
963309--963398	3	30.0	3	79	4	101	37	0	1	61	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974489--974517	12	2.3	13	94	5	51	75	0	10	13	1.04
974486--974524	17	2.3	17	91	8	62	76	0	10	12	1.01
974889--974926	18	2.1	18	95	0	67	31	7	5	55	1.51
976334--976541	113	1.9	111	87	4	310	37	12	18	31	1.88
976098--976648	236	2.3	235	89	0	845	38	14	19	27	1.90
976995--977072	3	26.0	3	76	5	68	39	0	3	56	1.18
978438--978475	18	2.2	18	90	4	60	31	5	2	60	1.33
979580--979662	27	3.1	27	96	0	148	21	30	20	27	1.98
981022--981053	16	1.9	17	93	6	57	81	0	3	15	0.82
983358--983869	85	6.0	85	85	1	616	27	17	18	35	1.94
983360--983864	169	3.0	170	84	1	629	28	18	18	34	1.95
988870--989154	64	4.5	64	84	4	335	34	20	16	27	1.95
989850--989895	15	3.1	15	96	0	83	13	21	34	30	1.91
993390--993610	64	3.5	64	83	6	245	33	20	18	27	1.96
994305--994337	15	2.2	15	94	0	57	15	15	33	36	1.88
996711--996888	86	2.1	84	83	7	234	66	4	7	20	1.35
999476--999510	17	2.1	17	100	0	70	31	11	17	40	1.85
1003715--1003769	19	2.9	19	79	12	60	23	12	3	60	1.49
1004088--1004143	23	2.4	23	96	0	103	62	14	19	3	1.46
1008256--1008320	25	2.6	25	83	7	71	69	7	13	9	1.36
1008255--1008320	26	2.6	24	81	9	69	69	7	13	9	1.35
1008283--1008356	30	2.4	30	76	17	73	72	4	10	12	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010002--1010050	19	2.6	19	83	3	64	26	10	4	59	1.48
1023541--1023576	15	2.4	15	90	0	54	27	44	11	16	1.82
1024761--1024814	24	2.2	24	100	0	108	14	7	20	57	1.61
1024984--1025022	9	4.2	9	81	18	53	43	0	23	33	1.54
1029058--1029326	138	1.9	138	90	0	421	32	19	17	30	1.95
1033862--1033973	34	3.3	34	85	0	134	38	23	13	25	1.91
1041518--1042032	206	2.5	207	84	6	650	23	11	19	45	1.82
1044706--1044734	2	14.5	2	100	0	58	51	0	0	48	1.00
1044762--1044924	85	1.9	85	82	5	204	30	16	20	31	1.95
1044896--1044963	13	5.2	13	94	0	109	33	17	22	26	1.96
1049849--1049915	33	2.0	33	88	0	98	46	22	10	20	1.81
1058006--1058070	28	2.3	28	94	0	112	21	38	16	23	1.93
1063546--1063579	15	2.2	16	89	5	52	8	0	11	79	0.94
1063582--1063621	21	1.9	21	100	0	80	30	0	10	60	1.30
1063604--1063719	42	2.7	43	79	10	139	49	2	11	37	1.52
1063605--1063656	21	2.6	20	76	17	54	48	1	13	36	1.54
1063693--1063742	22	2.3	23	79	10	59	60	0	4	36	1.16
1064856--1064945	19	4.7	19	95	0	162	61	5	22	11	1.50
1070566--1070661	24	3.9	24	70	22	65	77	1	20	1	0.90
1070566--1070658	14	6.3	15	75	14	77	77	1	20	1	0.89
1070572--1070665	20	4.4	21	74	19	70	77	1	20	1	0.89
1070566--1070665	30	3.5	28	79	15	107	78	1	20	1	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070560--1070665	43	2.5	40	76	20	108	76	0	20	1	0.94
1070585--1070664	7	11.3	7	75	18	53	76	1	21	1	0.93
1070572--1070663	16	5.8	15	73	14	69	77	1	20	1	0.90
1072423--1073317	258	3.5	255	85	4	1161	34	14	15	34	1.89
1072423--1073317	257	3.5	257	84	4	1144	34	14	15	34	1.89
1073671--1074025	38	9.2	38	83	3	415	24	16	16	41	1.89
1073671--1074025	114	3.1	114	87	1	458	24	16	16	41	1.89
1073945--1074065	42	2.8	42	84	2	143	23	19	19	37	1.94
1074825--1075256	182	2.4	182	87	2	584	32	19	18	30	1.95
1075450--1075483	15	2.2	16	89	5	52	11	0	11	76	1.02
1075487--1075701	53	4.2	51	77	14	180	47	0	8	42	1.40
1075623--1075659	2	18.5	2	100	0	74	51	0	0	48	1.00
1076371--1076413	17	2.5	17	96	0	77	62	13	4	18	1.48
1081402--1081434	15	2.1	16	88	5	50	33	12	6	48	1.65
1081550--1081592	9	5.2	8	81	13	52	79	4	2	13	1.00
1081550--1081592	16	2.6	16	79	17	52	79	4	2	13	1.00
1083838--1083892	27	2.0	28	92	3	94	45	21	12	20	1.84
1097367--1097469	23	4.7	23	73	11	83	23	26	20	30	1.99
1099311--1099353	21	2.0	21	100	0	86	41	9	18	30	1.82
1100111--1100237	65	2.0	64	85	1	173	32	25	14	27	1.95
1100111--1100260	64	2.3	64	79	5	167	32	24	16	26	1.96
1106850--1106909	18	3.3	18	95	0	111	16	1	43	38	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109603--1109710	32	3.4	31	75	12	101	44	25	13	15	1.84
1110435--1110538	32	3.3	31	73	6	84	39	25	12	22	1.89
1118830--1118986	61	2.5	62	84	6	192	27	17	27	28	1.97
1120441--1120639	95	2.1	95	88	1	292	22	14	22	40	1.90
1123504--1123559	2	28.0	2	100	0	112	50	0	0	50	1.00
1127863--1128444	59	9.9	59	88	1	792	30	19	13	36	1.90
1128957--1129004	20	2.3	21	89	3	71	33	22	12	31	1.91
1134946--1135172	58	4.0	59	88	6	335	29	20	11	38	1.87
1134946--1135515	118	4.8	114	77	13	443	30	20	11	36	1.89
1135172--1135527	59	6.1	59	90	1	547	31	21	12	35	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21