genome.fa.s4693.2.7.7.80.10.50.1000.5.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: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2620943

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1372 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)
937220--937277	19	3.0	19	69	11	55	39	8	0	51	1.33
946909--946950	14	3.0	14	85	0	57	14	30	33	21	1.93
949379--949417	20	2.0	20	89	0	60	35	23	15	25	1.94
950771--950901	42	3.1	42	96	0	244	32	28	25	13	1.94
963725--963857	29	4.7	29	76	10	105	33	6	2	58	1.35
963725--963871	30	5.1	29	75	8	113	35	5	2	57	1.33
963881--963919	15	2.7	15	92	4	62	48	0	0	51	1.00
963904--964009	31	3.2	32	72	18	83	58	0	5	34	1.28
964173--964224	20	2.6	20	96	0	95	38	26	13	21	1.90
964280--964473	20	9.6	20	75	6	74	35	26	19	19	1.95
964276--964472	40	4.9	40	80	4	121	34	26	19	19	1.96
964280--964472	60	3.2	60	81	0	233	34	26	19	19	1.96
964854--964924	33	2.2	33	92	0	115	11	22	18	47	1.80
965045--965099	14	3.6	14	73	21	56	41	23	25	9	1.83
965045--965115	33	2.2	33	94	0	124	43	25	22	8	1.81
965111--965208	19	5.7	19	70	22	81	10	24	22	42	1.84
965133--965222	14	5.7	14	74	23	81	8	25	23	42	1.83
965116--965230	33	3.5	33	95	0	212	9	24	20	45	1.81
966927--967399	185	2.5	186	98	0	921	21	12	18	46	1.83
966927--967399	93	5.1	93	98	0	921	21	12	18	46	1.83
967443--967557	19	6.3	19	79	10	132	46	27	16	8	1.76
967553--967652	19	5.8	18	72	21	90	9	20	24	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
967575--967631	14	3.7	14	72	20	51	7	19	28	45	1.76
967558--967650	33	2.8	33	91	0	159	8	19	24	47	1.77
967553--967668	19	6.6	19	71	19	72	10	18	25	45	1.81
969591--969626	14	2.6	14	95	0	63	33	0	22	44	1.53
969733--969815	19	4.6	19	80	17	113	43	18	24	14	1.87
969844--970150	19	17.4	19	80	16	376	14	20	18	46	1.83
969844--970083	71	3.4	71	86	11	373	14	20	17	47	1.83
969806--970150	142	2.5	137	90	5	507	14	20	18	46	1.84
969844--970122	52	5.2	52	93	4	388	14	21	17	46	1.83
972433--972457	12	2.1	12	100	0	50	0	28	0	72	0.86
972632--972678	24	2.0	24	87	8	69	38	21	14	25	1.92
973361--973729	20	18.5	20	86	4	458	20	18	26	34	1.96
974407--974457	25	2.0	25	81	7	59	33	3	3	58	1.35
975390--975441	2	26.5	2	90	3	70	53	3	0	42	1.19
983974--984069	21	4.7	21	72	21	69	23	0	29	46	1.52
983947--984019	35	2.1	35	92	5	121	30	0	26	43	1.55
983955--984047	42	2.2	42	88	3	134	26	0	29	44	1.55
983960--984061	35	2.9	35	81	8	102	24	0	29	46	1.53
984340--984376	17	2.2	17	95	0	65	24	16	29	29	1.96
984361--984425	11	5.6	11	72	22	53	26	26	23	24	2.00
984355--984426	23	3.1	23	83	2	99	25	26	23	25	2.00
985790--985822	13	2.5	13	90	0	57	27	15	18	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
989457--989582	60	2.1	60	82	7	148	35	9	13	41	1.77
991813--991838	2	13.0	2	100	0	52	50	0	0	50	1.00
993629--993686	20	2.9	20	94	0	98	34	15	22	27	1.94
1001798--1001833	18	2.1	18	94	5	65	47	5	0	47	1.25
1010878--1010910	16	2.1	16	94	0	57	60	21	12	6	1.53
1010976--1011053	10	8.1	10	76	13	83	58	19	11	10	1.60
1010986--1011056	37	1.9	36	88	2	106	59	19	11	9	1.59
1011462--1011579	57	2.1	58	93	1	202	22	26	21	29	1.99
1013423--1013514	47	2.0	44	83	10	114	72	3	5	18	1.17
1015239--1016375	106	10.8	106	92	1	1798	23	18	24	34	1.96
1015239--1017637	212	11.5	212	89	4	3645	23	18	24	34	1.96
1015230--1017625	318	7.7	317	89	4	3605	23	18	24	34	1.96
1016293--1016462	87	2.0	87	95	0	304	21	21	22	34	1.97
1016321--1016461	43	3.3	42	66	16	108	21	18	24	35	1.96
1016374--1017637	106	12.0	106	90	3	1957	23	18	24	34	1.96
1020733--1020776	17	2.6	17	96	3	81	25	34	11	29	1.91
1021828--1021874	17	2.8	17	83	6	51	74	0	6	19	1.03
1021912--1021967	19	2.9	18	77	15	60	71	0	5	23	1.06
1030213--1030347	54	2.5	54	86	4	175	20	4	22	51	1.65
1030876--1031452	304	1.9	304	80	8	688	33	18	15	32	1.92
1034050--1034115	34	1.9	34	87	0	96	15	7	16	60	1.56
1041543--1041722	92	2.0	92	94	0	315	39	13	11	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041820--1041844	13	1.9	13	100	0	50	68	8	0	24	1.16
1042405--1042458	26	2.2	25	90	9	85	33	35	22	9	1.86
1042742--1042854	60	1.9	60	84	0	154	36	15	13	34	1.87
1045911--1045990	39	2.1	39	100	0	160	38	17	5	38	1.72
1045977--1046017	2	20.5	2	100	0	82	48	0	0	51	1.00
1048888--1049390	250	2.0	250	98	0	961	28	18	19	34	1.95
1053288--1053326	13	2.9	14	80	7	53	23	0	0	76	0.78
1054271--1054303	16	2.1	16	94	0	57	60	12	0	27	1.32
1054511--1054560	17	3.1	17	88	8	77	48	26	20	6	1.72
1057688--1057731	22	2.0	22	90	0	70	50	0	0	50	1.00
1059022--1059100	2	40.0	2	94	2	142	48	0	1	50	1.08
1062040--1062065	13	2.0	13	100	0	52	23	7	23	46	1.78
1062996--1063063	35	1.9	35	84	3	91	42	7	7	42	1.60
1063434--1063467	16	2.1	17	88	5	52	35	0	0	64	0.94
1065751--1065778	5	5.6	5	100	0	56	17	0	0	82	0.68
1068391--1068432	21	2.0	21	95	0	75	26	28	21	23	1.99
1068546--1068601	15	3.5	15	76	21	60	19	25	35	19	1.95
1068544--1068628	33	2.5	34	92	5	145	20	27	32	20	1.97
1068594--1068652	21	2.9	21	85	7	77	16	30	32	20	1.95
1073266--1073335	36	1.9	36	82	0	86	28	35	8	27	1.86
1090568--1090618	10	4.7	10	74	25	50	23	39	27	9	1.86
1090571--1090637	14	4.4	14	77	20	71	23	38	29	7	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090567--1090632	34	1.9	34	100	0	132	22	39	28	9	1.85
1090585--1090618	10	3.4	10	84	15	52	23	38	29	8	1.85
1090620--1090671	23	2.3	23	86	0	68	25	25	38	11	1.89
1090627--1090679	23	2.3	24	83	9	74	28	22	35	13	1.92
1092085--1092666	69	8.4	69	85	5	775	32	16	18	32	1.93
1092072--1092666	139	4.3	140	86	5	802	32	16	17	32	1.93
1093925--1094025	51	2.0	51	88	0	148	9	29	31	28	1.89
1109649--1109694	23	2.0	22	83	4	56	30	17	15	36	1.91
1112610--1112674	32	2.1	29	83	8	76	49	0	0	50	1.00
1112755--1112831	35	2.2	36	88	4	113	16	40	14	28	1.88
1117148--1117218	19	3.7	20	79	9	60	39	5	1	53	1.33
1118293--1118326	17	1.9	18	94	5	61	32	8	0	58	1.29
1118375--1118409	2	18.0	2	88	5	54	48	2	0	48	1.16
1129142--1129195	8	6.6	8	85	10	74	85	12	1	0	0.69
1129127--1129194	12	5.9	11	80	16	68	85	13	1	0	0.67
1129142--1129195	17	3.3	16	87	10	74	85	12	1	0	0.69
1129128--1129195	23	2.9	24	84	6	86	85	13	1	0	0.67
1129152--1129197	15	2.9	15	84	12	65	84	10	4	0	0.75
1130029--1131044	105	9.7	105	94	1	1695	32	26	18	22	1.97
1130029--1131044	419	2.4	420	94	1	1767	32	26	18	22	1.97
1131314--1131384	19	3.7	20	79	9	60	39	5	1	53	1.33
1132439--1132472	17	1.9	18	94	5	61	32	8	0	58	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132524--1132567	2	22.0	2	90	0	70	47	2	0	50	1.13
1138861--1138965	54	1.9	54	92	0	174	22	28	19	29	1.98
1140950--1141375	225	1.9	229	82	4	540	30	20	22	26	1.98
1142174--1142705	264	2.0	264	82	3	642	30	18	23	27	1.98
1146595--1146633	18	2.2	18	95	0	69	38	0	20	41	1.53
1148604--1148657	19	3.1	18	74	10	58	53	0	1	44	1.11
1149743--1149814	29	2.5	29	97	0	135	41	9	1	47	1.45
1152798--1152861	32	2.0	32	90	0	101	31	17	21	29	1.96
1153196--1153229	16	2.1	16	94	0	59	20	5	23	50	1.70
1154785--1154841	2	28.5	2	100	0	114	50	0	0	49	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12