genome.fa.s9343.2.7.7.80.10.50.1000.6.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: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2141224

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

This is table  6  of  11  ( 1269 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)
1008181--1008219	11	3.1	13	79	20	55	46	15	15	23	1.83
1009491--1009535	22	2.0	22	100	0	90	24	22	26	26	2.00
1010508--1010547	21	1.9	21	94	0	71	30	15	7	47	1.72
1010542--1010638	33	3.0	33	91	4	146	30	7	15	46	1.73
1010624--1010678	13	4.2	13	75	13	58	34	3	12	49	1.59
1011069--1011124	15	3.6	15	74	9	58	32	10	12	44	1.77
1011215--1011246	16	2.0	17	88	11	50	43	21	21	12	1.86
1015535--1015561	3	9.0	3	100	0	54	66	0	0	33	0.92
1015466--1015557	44	2.1	44	80	11	100	57	3	3	35	1.31
1015902--1015937	14	2.6	14	91	8	56	63	0	30	5	1.17
1018234--1018262	15	1.9	15	100	0	58	51	13	0	34	1.42
1019579--1019629	21	2.4	21	78	18	52	25	27	13	33	1.94
1022889--1022917	15	1.9	15	100	0	58	51	13	0	34	1.42
1024232--1024282	21	2.4	21	78	18	52	25	27	13	33	1.94
1027755--1027786	17	1.9	17	93	6	57	43	6	25	25	1.77
1028297--1028323	2	13.5	2	100	0	54	51	0	0	48	1.00
1034653--1034691	21	1.9	20	89	5	60	35	23	15	25	1.94
1048023--1048109	5	17.8	5	76	19	78	77	1	18	3	0.98
1049363--1049804	134	3.3	134	88	1	645	33	22	15	28	1.94
1049973--1050025	3	18.3	3	84	7	74	33	0	1	64	1.05
1051759--1051785	2	13.5	2	100	0	54	48	0	0	51	1.00
1060147--1060180	15	2.3	15	94	0	59	32	11	17	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061906--1062024	23	5.3	23	79	2	134	27	22	25	24	2.00
1061914--1062024	46	2.4	46	96	0	204	25	23	27	24	2.00
1062036--1062253	103	2.1	103	100	0	436	36	23	13	26	1.92
1063691--1063734	21	2.1	21	86	0	61	15	27	27	29	1.96
1067468--1067586	23	5.3	23	81	2	143	27	23	25	23	2.00
1067476--1067586	46	2.4	46	98	0	213	25	24	27	23	2.00
1067598--1067815	103	2.1	103	100	0	436	36	23	13	26	1.92
1069255--1069298	21	2.1	21	86	0	61	15	27	27	29	1.96
1071835--1071929	42	2.3	42	80	8	106	8	20	6	65	1.42
1079275--1079361	35	2.5	34	78	12	88	56	10	6	26	1.58
1079962--1080000	18	2.2	18	90	0	60	25	17	30	25	1.97
1081665--1081705	18	2.3	18	87	4	57	60	2	7	29	1.36
1082026--1082104	29	2.7	29	92	0	122	32	8	26	31	1.87
1083100--1083133	16	2.2	16	89	5	52	35	11	20	32	1.89
1083107--1083139	16	2.1	16	94	0	57	33	12	21	33	1.90
1087285--1087351	34	1.9	34	82	14	84	20	13	19	46	1.83
1087519--1087559	22	2.0	20	85	9	55	56	14	0	29	1.39
1087978--1088023	25	2.0	24	87	12	69	52	2	0	45	1.13
1089353--1089413	28	2.2	28	100	0	122	22	19	16	40	1.90
1089928--1089997	30	2.3	31	83	9	92	30	24	21	24	1.99
1092703--1092810	49	2.2	49	79	9	114	41	8	10	39	1.69
1105678--1105731	2	27.0	2	100	0	108	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107402--1107642	122	2.0	122	84	8	321	26	19	16	38	1.92
1107538--1107723	83	2.2	84	89	2	277	27	17	18	37	1.93
1107621--1108028	123	3.3	123	91	2	676	24	19	16	39	1.91
1107417--1107845	206	2.1	205	92	2	718	26	18	16	37	1.92
1111512--1111583	30	2.4	30	92	0	117	23	41	19	15	1.89
1111947--1112006	30	2.1	30	84	6	79	45	5	1	48	1.34
1112306--1112358	24	2.2	24	93	0	88	16	24	5	52	1.65
1112290--1112362	24	3.2	23	82	5	78	16	23	6	53	1.67
1112873--1112922	23	2.2	22	82	10	57	54	0	4	42	1.19
1114558--1114636	40	2.0	39	82	7	97	17	12	12	56	1.66
1115139--1115190	20	2.5	21	87	3	70	40	17	21	21	1.91
1115093--1115338	103	2.4	102	81	7	259	29	21	17	31	1.96
1115128--1115336	41	5.1	40	69	11	104	31	20	17	31	1.95
1115097--1115272	21	8.5	21	70	9	85	27	21	18	32	1.97
1115282--1115333	20	2.6	20	100	0	104	30	25	17	26	1.97
1115855--1115921	19	3.5	19	81	2	71	49	23	16	10	1.77
1115917--1115989	19	4.1	19	76	16	84	10	21	19	47	1.79
1118134--1118200	21	3.2	21	66	6	55	23	35	20	19	1.95
1118082--1118200	42	2.8	42	81	5	107	22	36	18	22	1.95
1119549--1119583	14	2.6	14	90	4	54	28	0	25	45	1.54
1119690--1119748	25	2.8	19	71	26	55	47	20	18	13	1.82
1119757--1119883	33	3.9	32	84	8	175	14	22	18	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119750--1119882	66	2.0	66	97	0	248	15	21	18	43	1.87
1119825--1119883	19	3.4	19	66	22	56	13	20	18	47	1.82
1122257--1122310	24	2.2	24	90	0	81	40	20	16	22	1.91
1123082--1123131	21	2.4	21	86	3	66	40	16	24	20	1.91
1123120--1123196	20	3.9	20	78	8	68	35	23	18	23	1.96
1123116--1123205	20	4.6	20	72	6	67	38	22	17	21	1.93
1123502--1123569	19	3.8	19	83	12	92	14	22	16	47	1.82
1125604--1125657	20	2.7	20	85	0	81	37	22	24	16	1.94
1125697--1125793	19	5.6	19	71	22	97	14	19	19	46	1.84
1125721--1125777	14	3.7	14	75	20	60	10	15	22	50	1.74
1125702--1125793	33	2.8	33	98	0	175	14	18	19	47	1.82
1125778--1125832	20	2.8	19	83	8	65	16	23	23	36	1.94
1126314--1126358	18	2.5	18	88	0	72	13	15	44	26	1.83
1127672--1127725	20	2.8	20	80	2	65	48	22	16	12	1.80
1127959--1128002	22	2.0	22	90	0	70	18	15	43	22	1.88
1128170--1128304	20	6.7	20	80	7	121	24	17	24	33	1.96
1128170--1128307	61	2.3	61	85	0	195	23	17	23	34	1.96
1128170--1128325	61	2.6	61	82	2	161	23	19	23	33	1.97
1128375--1128415	21	2.0	21	85	0	55	34	24	17	24	1.96
1128746--1128790	12	3.6	12	77	11	54	51	0	6	42	1.28
1128742--1128796	26	2.1	26	100	0	110	50	0	7	41	1.30
1134112--1134141	14	2.1	14	100	0	60	23	20	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139867--1139962	40	2.4	39	92	0	120	35	16	17	30	1.93
1139893--1139962	20	3.5	20	69	21	56	37	17	15	30	1.91
1142954--1142988	18	1.9	18	100	0	70	17	22	34	25	1.96
1146567--1146625	29	2.0	29	100	0	118	23	13	13	49	1.78
1151251--1151309	29	2.0	29	100	0	118	23	13	13	49	1.78
1152553--1152592	2	20.0	2	94	0	62	45	0	5	50	1.23
1157876--1157914	20	2.0	20	90	10	62	23	5	17	53	1.63
1157877--1157920	20	2.2	20	84	8	54	22	9	13	54	1.67
1161335--1161506	57	3.0	57	93	0	290	24	29	19	27	1.98
1165943--1165994	23	2.3	23	86	6	70	50	3	0	46	1.20
1167591--1167665	34	2.2	34	100	0	150	44	13	5	37	1.66
1172952--1172984	16	2.0	17	94	5	59	36	24	6	33	1.80
1177533--1177951	204	2.1	203	98	0	811	29	26	13	30	1.94
1184530--1184712	67	2.7	67	84	3	253	26	15	13	44	1.83
1191566--1191708	64	2.2	64	82	6	173	32	16	23	27	1.95
1191717--1191754	20	1.9	20	100	0	76	31	21	23	23	1.98
1192139--1193026	439	2.0	439	99	0	1760	41	7	20	31	1.79
1193081--1193145	31	2.1	31	88	0	94	24	18	24	32	1.97
1194195--1194285	31	3.0	31	85	1	121	21	19	24	34	1.97
1195448--1195500	21	2.6	21	78	3	72	39	26	3	30	1.74
1195951--1195982	2	16.0	2	100	0	64	50	0	0	50	1.00
1201825--1202072	130	1.9	130	93	0	424	35	14	13	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201839--1202103	130	2.0	129	81	4	309	38	12	13	34	1.83
1202396--1202458	28	2.3	27	78	8	63	46	1	3	49	1.27
1202538--1202571	16	2.0	18	88	11	54	64	5	2	26	1.30
1202694--1202736	21	2.0	21	100	0	86	39	0	13	46	1.44
1202705--1202790	35	2.5	35	86	0	109	38	1	19	40	1.60
1202920--1202958	17	2.4	17	91	4	62	28	7	35	28	1.85
1213092--1213147	19	2.8	20	91	2	96	26	23	12	37	1.90
1220351--1220397	22	2.1	22	100	0	94	21	31	38	8	1.83
1220453--1220494	21	2.1	20	91	8	68	45	7	0	47	1.30
1221901--1221941	14	3.1	14	76	16	52	48	4	0	46	1.23

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