genome.fa.s7962.2.7.7.80.10.50.1000.5.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: VEPZ01007962.1 Hibiscus syriacus cultivar Beakdansim tig00110391_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1774241

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 951 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)
922817--922987	85	2.0	84	86	5	238	30	8	19	42	1.80
923909--924358	42	10.7	42	91	0	677	18	22	24	34	1.96
923909--924358	167	2.7	167	91	1	702	18	22	24	34	1.96
925501--925594	21	4.5	21	86	0	134	26	13	26	32	1.94
928640--928742	54	1.9	54	85	0	143	28	7	28	35	1.85
932035--932381	85	4.1	85	82	2	430	26	20	19	34	1.96
932388--932777	85	4.6	85	81	4	473	25	18	20	34	1.96
932245--932525	144	2.0	144	84	4	370	24	20	18	36	1.95
932173--932603	229	1.9	226	85	3	605	25	18	20	35	1.95
932388--932777	168	2.3	170	83	5	518	25	18	20	34	1.96
932764--932804	20	2.0	20	100	0	82	24	26	19	29	1.98
932937--933028	32	2.8	31	75	6	85	20	15	28	35	1.93
934839--935018	99	1.8	99	85	4	256	32	18	16	32	1.93
943044--943080	19	2.0	19	89	5	58	27	0	5	67	1.12
943434--943737	41	7.5	40	77	9	179	18	21	24	36	1.95
943459--943531	20	3.6	20	75	3	83	10	21	27	39	1.87
943438--943543	20	5.2	21	68	7	67	17	19	26	35	1.95
943601--943734	20	6.6	20	79	3	151	14	20	24	40	1.90
943405--943673	142	1.9	142	93	1	468	19	22	23	34	1.96
943601--943734	61	2.2	61	95	0	241	14	20	24	40	1.90
943661--943779	41	2.9	40	85	10	136	15	19	23	41	1.90
943620--943756	61	2.2	60	89	5	168	16	20	24	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943853--943877	6	4.2	6	100	0	50	36	32	0	32	1.58
943874--943922	6	8.5	6	97	2	84	30	53	16	0	1.43
944420--944479	6	10.5	6	98	1	99	0	16	53	30	1.44
944572--944820	41	6.0	41	90	3	358	38	23	20	17	1.93
944572--944820	82	3.0	82	91	2	394	38	23	20	17	1.93
949467--949512	20	2.3	19	82	10	56	50	0	2	47	1.13
949784--949812	2	14.5	2	100	0	58	51	0	0	48	1.00
962473--962542	21	3.3	21	78	7	70	77	8	12	1	1.06
962459--962528	15	4.7	15	76	18	51	77	8	14	0	0.99
962450--962519	31	2.2	32	80	12	83	77	10	12	0	1.00
962484--962550	22	3.2	21	79	12	75	74	8	14	1	1.13
962485--962550	21	3.2	20	76	19	64	74	9	15	1	1.14
963170--963213	22	2.0	22	91	8	72	38	22	11	27	1.88
964179--964299	36	3.3	36	90	2	197	25	19	13	41	1.88
964221--964409	102	1.9	102	88	2	290	28	17	13	40	1.88
964123--964501	138	2.8	138	83	4	455	29	19	12	38	1.89
964410--964467	29	2.0	29	86	6	82	34	20	8	36	1.84
964434--964569	68	2.0	68	88	1	202	32	20	8	38	1.84
965174--965833	105	6.3	105	92	3	1003	33	26	18	22	1.97
972071--972111	22	1.9	21	90	5	64	24	0	4	70	1.06
972548--973220	238	2.7	245	83	11	858	40	18	11	28	1.86
973334--973384	23	2.3	23	93	3	86	37	23	13	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973770--973960	92	2.1	92	98	2	366	38	11	7	42	1.69
974087--974112	13	2.0	13	100	0	52	23	15	7	53	1.67
974302--974336	17	2.1	16	94	5	61	68	5	25	0	1.11
978859--978899	21	2.0	21	85	0	55	19	2	4	73	1.13
982836--982879	16	2.7	16	85	3	52	34	2	0	63	1.07
990490--990524	18	1.9	18	88	0	52	28	17	0	54	1.43
991819--991845	12	2.2	12	100	0	54	14	25	44	14	1.84
991826--991901	18	4.6	18	79	17	101	11	21	50	17	1.77
991820--991896	31	2.5	31	95	2	138	14	20	48	16	1.81
991843--991879	13	2.8	13	91	0	65	13	21	48	16	1.80
995680--995714	18	1.9	18	88	0	52	28	17	0	54	1.43
997011--997037	12	2.2	12	100	0	54	14	25	44	14	1.84
997018--997093	18	4.6	18	79	17	101	11	21	50	17	1.77
997012--997088	31	2.5	31	95	2	138	14	20	48	16	1.81
997035--997071	13	2.8	13	91	0	65	13	21	48	16	1.80
1002452--1002505	19	2.7	19	85	5	63	20	16	27	35	1.94
1003342--1003376	17	2.1	17	88	0	52	22	25	14	37	1.92
1011174--1011239	23	3.0	23	84	10	84	28	18	25	27	1.98
1011175--1011240	21	3.0	22	80	12	75	28	16	25	28	1.97
1014144--1014417	46	6.0	46	92	0	442	23	21	9	44	1.82
1020299--1020344	20	2.3	20	96	0	83	21	28	8	41	1.83
1020359--1020455	20	4.6	20	78	14	104	20	26	10	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1020286--1020516	112	2.1	112	88	1	338	23	23	9	42	1.84
1020359--1020504	66	2.2	66	90	0	220	22	26	10	41	1.85
1020313--1020438	46	2.7	46	88	0	180	20	25	10	43	1.83
1020425--1020516	46	2.0	46	89	4	141	26	22	9	41	1.85
1023405--1023524	53	2.2	54	86	4	163	25	21	24	28	1.99
1025522--1025556	15	2.4	15	90	4	54	45	2	0	51	1.16
1025683--1025953	148	1.8	148	79	10	277	47	6	5	39	1.53
1025777--1025816	17	2.4	17	83	4	55	72	0	0	27	0.85
1025835--1025859	2	12.5	2	100	0	50	52	0	0	48	1.00
1025788--1025845	23	2.6	22	74	15	57	62	0	0	37	0.96
1025683--1025953	149	1.8	147	82	8	352	47	6	5	39	1.53
1025992--1026094	13	7.2	13	72	20	64	63	3	1	31	1.24
1026017--1026071	24	2.3	23	79	11	67	67	5	0	27	1.12
1027291--1027345	3	19.3	3	89	10	89	65	0	0	34	0.93
1027292--1027342	8	6.1	8	97	2	84	64	0	0	35	0.94
1027713--1028391	236	2.8	238	80	11	770	26	19	14	39	1.90
1029815--1029981	75	2.2	75	81	2	183	30	21	16	31	1.95
1032392--1032601	65	3.3	63	79	11	212	30	23	18	27	1.97
1038327--1038444	23	5.4	21	87	7	96	26	25	22	26	2.00
1038346--1038448	23	4.6	23	89	6	158	24	25	24	26	2.00
1038327--1038448	46	2.8	44	87	7	160	26	26	22	25	2.00
1041175--1041278	45	2.3	45	83	5	120	30	21	19	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042060--1042220	63	2.5	63	82	5	189	23	24	18	32	1.97
1048654--1048692	2	20.0	2	94	5	71	48	0	0	51	1.00
1048657--1048690	17	2.0	17	100	0	68	47	0	0	52	1.00
1048655--1048693	19	2.1	19	100	0	78	46	0	0	53	1.00
1053200--1053573	145	2.6	145	79	8	377	46	8	6	39	1.60
1053411--1053463	18	2.7	19	77	11	54	64	1	0	33	1.05
1053611--1053718	14	8.2	13	68	21	64	62	4	3	29	1.33
1055110--1055146	20	1.9	19	89	10	58	45	10	24	18	1.81
1055297--1055369	36	2.0	36	84	10	96	49	4	0	46	1.21
1057744--1057817	32	2.3	32	100	0	148	37	9	17	35	1.82
1058012--1058046	18	1.9	18	100	0	70	45	17	2	34	1.63
1059909--1059945	19	1.9	19	88	0	56	35	29	13	21	1.92
1059978--1060070	20	4.6	20	82	7	125	26	26	19	26	1.99
1060883--1060936	24	2.2	24	93	0	90	20	18	20	40	1.91
1062548--1062601	24	2.2	24	93	0	90	40	20	18	20	1.91
1063419--1063529	41	2.7	41	84	0	150	26	16	23	34	1.95
1063434--1063508	21	3.6	21	72	16	75	24	14	22	38	1.92
1063496--1063567	20	3.6	20	71	14	58	27	19	23	29	1.98
1068416--1068513	30	3.3	31	75	16	82	42	4	1	52	1.27
1068466--1068514	13	3.3	15	77	13	57	36	8	0	55	1.30
1069401--1069504	51	2.0	51	100	0	208	35	7	30	25	1.84
1069923--1070040	2	59.0	2	77	6	96	40	3	6	49	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1071001--1071341	2	171.0	2	64	20	74	49	2	4	42	1.39
1070009--1071029	543	1.9	540	90	4	1633	48	5	11	34	1.63
1071152--1071206	17	3.2	17	71	19	51	50	0	5	43	1.25
1071138--1071206	34	2.0	35	88	2	104	50	1	7	40	1.39
1071102--1071224	56	2.2	56	82	11	144	52	0	8	39	1.37
1071091--1071255	86	1.9	84	81	7	199	50	1	6	41	1.39
1071217--1071289	31	2.2	34	83	9	98	42	5	0	52	1.24
1071275--1071381	52	2.1	52	90	0	169	49	0	8	41	1.39
1072261--1072389	59	2.2	59	90	0	195	29	25	17	27	1.97
1074164--1074623	8	62.1	8	68	24	118	53	2	7	36	1.43

Tables:   1   2   3   4   5   6   7   8