genome.fa.s9266.2.7.7.80.10.50.1000.5.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: VEPZ01009266.1 Hibiscus syriacus cultivar Beakdansim tig00112921_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1543912

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 756 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)
914351--914411	23	2.7	23	82	12	74	18	24	34	22	1.96
914351--914412	21	2.9	21	85	9	72	17	25	33	22	1.96
930456--930508	21	2.5	21	81	6	63	22	26	18	32	1.97
930494--930533	20	2.0	20	85	0	53	35	20	20	25	1.96
931385--931438	24	2.2	24	90	0	81	20	16	20	42	1.89
933867--933955	20	4.4	20	87	2	126	35	24	21	17	1.95
933927--934022	33	2.8	33	84	3	111	42	18	21	16	1.89
934032--934118	20	4.7	19	72	16	76	13	22	20	42	1.88
934071--934119	19	2.5	19	83	3	62	16	22	22	38	1.92
934260--934331	33	2.1	34	92	2	119	12	22	19	45	1.83
934002--934443	217	2.0	220	94	2	782	33	19	13	33	1.91
935829--935936	42	2.6	42	76	14	98	22	17	37	22	1.94
936420--936488	20	3.5	20	95	0	120	39	23	20	17	1.92
936419--936505	40	2.4	37	81	14	108	40	21	21	16	1.91
936533--936656	20	6.5	20	83	10	161	20	18	20	40	1.92
938526--938580	20	2.8	20	91	0	83	49	23	16	10	1.77
938528--938597	20	3.5	20	88	0	77	41	24	17	17	1.89
938641--938687	20	2.3	20	85	0	58	23	19	21	36	1.95
939277--939391	20	5.8	20	94	0	194	24	20	18	37	1.94
949154--949187	17	1.9	18	88	5	52	29	38	5	26	1.80
952394--952437	22	2.0	23	95	4	81	40	4	45	9	1.56
952399--952445	22	2.1	22	88	0	67	44	2	48	4	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
964162--964524	55	6.7	55	76	11	222	28	24	18	28	1.98
964211--964742	51	10.1	50	81	9	492	28	25	16	28	1.97
964211--964743	102	5.1	103	83	4	556	28	25	16	28	1.97
966053--966095	16	2.8	16	92	3	70	6	18	0	74	1.04
966126--966170	18	2.3	18	85	11	54	6	17	2	73	1.15
966125--966191	30	2.2	29	82	7	80	7	16	1	74	1.11
966074--966169	38	2.6	37	72	8	88	6	20	1	71	1.13
966155--966208	12	4.7	12	79	6	58	7	14	0	77	0.97
966165--966209	23	2.0	23	95	0	81	6	13	0	80	0.91
989172--989206	18	1.9	18	88	0	52	11	40	25	22	1.88
998234--998312	38	2.1	38	100	0	158	31	20	16	31	1.95
1012918--1013008	20	4.9	20	68	20	72	34	5	15	45	1.69
1012917--1013066	53	2.9	52	96	3	275	32	6	13	48	1.67
1013023--1013062	20	2.0	20	95	0	71	37	5	12	45	1.64
1017603--1017641	20	2.0	20	94	0	69	35	5	17	41	1.72
1024590--1024645	17	3.2	17	89	2	76	46	1	5	46	1.36
1029467--1029629	65	2.5	64	85	3	220	27	14	26	30	1.95
1029577--1029615	19	2.1	19	95	0	69	25	15	38	20	1.92
1029471--1029678	65	3.2	64	80	11	185	27	16	25	30	1.97
1037017--1037180	65	2.5	64	86	3	231	27	15	26	30	1.96
1037127--1037177	19	2.7	19	85	8	70	25	15	35	23	1.94
1037021--1037228	65	3.2	63	81	12	226	27	16	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039838--1039924	35	2.5	34	80	12	97	55	10	8	26	1.61
1040138--1040176	18	2.2	18	85	0	51	15	35	17	30	1.91
1042001--1042333	111	3.0	111	96	0	603	44	11	7	36	1.70
1042758--1042836	29	2.7	29	92	0	122	37	10	21	30	1.86
1048894--1048923	14	2.2	13	94	5	51	26	0	0	73	0.84
1049566--1049597	16	2.0	16	100	0	64	50	6	43	0	1.27
1069214--1069270	24	2.3	26	77	20	68	56	0	0	43	0.99
1069232--1069271	19	2.1	19	85	0	53	55	0	0	45	0.99
1069270--1069323	12	4.6	12	79	4	65	24	46	16	12	1.82
1073805--1073883	38	2.1	37	81	6	97	44	0	0	55	0.99
1074251--1074308	30	1.9	30	89	6	91	41	17	12	29	1.85
1078346--1078480	60	2.2	60	81	1	144	34	20	5	39	1.77
1081981--1082119	63	2.2	63	81	5	154	35	10	14	40	1.79
1083897--1083945	25	2.0	23	84	7	62	48	14	8	28	1.72
1085647--1085689	22	2.0	22	86	4	61	53	13	4	27	1.60
1085766--1086035	30	8.9	30	80	6	242	62	11	9	17	1.54
1085766--1085988	123	1.8	123	83	7	301	61	11	10	16	1.55
1085996--1086055	30	2.1	27	81	9	66	56	6	11	25	1.59
1087448--1087486	3	13.3	3	94	5	71	64	0	0	35	0.94
1087760--1088135	132	2.8	133	80	3	398	25	18	31	25	1.97
1088444--1088513	34	2.1	33	84	7	88	22	24	17	35	1.95
1089562--1089628	16	4.1	17	78	14	70	0	17	5	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089558--1089622	25	2.7	24	81	11	78	0	15	7	76	0.99
1092923--1093056	30	4.4	30	76	0	97	59	11	11	17	1.60
1095366--1095425	3	20.0	3	92	0	102	63	0	0	36	0.95
1095506--1095815	128	2.4	127	80	4	329	28	17	28	25	1.98
1101193--1101233	13	3.1	13	86	6	55	56	9	0	34	1.32
1102787--1102821	18	1.9	18	100	0	70	54	0	0	45	0.99
1102794--1102824	15	2.1	15	100	0	62	51	0	0	48	1.00
1107711--1107847	59	2.3	59	82	7	179	28	17	24	29	1.97
1107947--1108072	47	2.8	45	88	5	182	37	7	23	30	1.84
1109952--1109995	2	21.5	2	82	13	54	50	2	2	45	1.27
1110947--1110983	3	12.3	3	88	0	56	59	0	0	40	0.97
1110950--1110986	18	2.1	18	100	0	74	54	0	0	45	1.00
1115708--1115755	2	24.0	2	100	0	96	50	0	0	50	1.00
1117351--1117448	29	3.3	29	69	10	90	36	29	3	30	1.73
1117256--1117490	60	3.9	59	84	7	276	32	25	5	36	1.78
1122270--1122366	2	51.0	2	79	10	96	47	1	2	49	1.20
1122314--1122390	16	4.6	17	82	10	72	51	0	2	45	1.14
1122611--1122643	15	2.2	15	100	0	66	27	48	0	24	1.51
1123794--1123834	20	2.1	19	86	4	55	48	19	24	7	1.74
1127234--1127497	131	2.0	130	98	0	510	29	11	18	40	1.86
1129823--1129936	57	2.0	57	100	0	228	24	22	22	29	1.99
1141997--1142085	45	1.9	47	90	4	146	37	22	11	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152448--1152891	99	4.3	99	78	12	443	30	17	16	36	1.92
1152646--1152699	20	2.7	20	82	0	63	29	16	22	31	1.96
1152547--1152798	119	2.1	119	91	0	405	29	17	17	34	1.93
1152722--1152891	93	1.8	93	94	0	304	28	18	15	37	1.91
1152858--1152911	20	2.7	20	85	0	72	29	18	22	29	1.97
1152418--1152996	212	2.7	214	90	2	876	30	17	16	35	1.92
1152969--1153676	249	2.8	249	92	2	1154	34	17	16	31	1.93
1153510--1153591	42	2.0	42	92	0	137	34	21	21	21	1.97
1156399--1156469	1	71.0	1	71	0	52	0	9	4	85	0.71
1156397--1156471	8	9.4	8	79	13	66	0	12	4	84	0.76
1156397--1156467	7	10.1	7	82	10	74	0	11	4	84	0.75
1156377--1156471	13	7.4	13	73	11	70	1	13	4	81	0.90
1156397--1156469	20	3.5	19	78	14	74	0	10	4	84	0.74
1158878--1158928	26	2.0	26	84	0	66	43	13	23	19	1.87
1167737--1167779	7	6.0	7	80	2	50	6	44	23	25	1.78
1175536--1176724	402	3.0	399	92	4	1942	35	13	19	31	1.91
1177783--1177823	8	5.0	9	88	11	54	68	0	0	31	0.90
1177783--1177820	12	3.0	13	85	14	53	68	0	0	31	0.90
1177786--1177826	20	2.0	20	90	9	66	68	0	0	31	0.90
1177844--1178104	34	7.1	36	77	16	236	43	10	3	42	1.56
1177844--1178107	74	3.6	71	79	12	261	43	10	3	42	1.56
1177987--1178107	39	3.2	37	71	15	97	39	12	4	43	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177854--1178107	113	2.3	107	81	13	282	42	11	3	42	1.57
1186984--1187033	3	16.7	3	100	0	100	32	0	0	68	0.90
1187822--1187901	3	27.3	3	83	14	105	36	0	0	63	0.94
1187822--1187900	29	2.7	29	98	0	149	35	0	0	64	0.94
1188274--1188321	13	3.7	13	91	5	71	54	22	14	8	1.67
1188274--1188330	26	2.2	26	81	12	64	56	22	14	7	1.62
1189557--1189592	17	2.1	18	89	5	56	55	0	0	44	0.99
1190012--1190046	10	3.2	11	88	12	54	31	2	0	65	1.07
1192162--1192216	26	2.1	26	100	0	110	49	10	14	25	1.76
1192162--1192223	26	2.4	26	94	0	97	50	12	14	22	1.77

Tables:   1   2   3   4   5   6   7