genome.fa.s7956.2.7.7.80.10.50.1000.6.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: VEPZ01007956.1 Hibiscus syriacus cultivar Beakdansim tig00110383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3102597

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  6  of  14  ( 1676 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)
1190269--1190302	18	1.9	17	94	5	59	47	0	0	52	1.00
1190258--1190312	25	2.2	25	84	9	69	45	0	1	52	1.11
1190520--1190604	2	43.0	2	97	2	163	49	0	0	50	1.00
1194476--1194678	21	9.8	20	75	13	128	21	18	22	37	1.94
1194495--1194675	42	4.3	42	88	5	258	20	18	22	38	1.93
1194476--1194678	63	3.2	62	79	9	232	21	18	22	37	1.94
1195545--1195809	21	12.6	20	74	13	171	35	24	19	20	1.95
1195548--1195735	42	4.4	42	95	2	340	35	26	19	19	1.95
1195548--1195730	86	2.2	86	95	2	334	35	26	19	18	1.95
1195548--1195782	128	1.8	127	88	5	357	35	25	20	19	1.95
1195548--1195753	86	2.5	84	91	4	292	35	26	19	18	1.95
1195805--1195857	21	2.5	21	87	0	70	18	22	30	28	1.98
1208211--1208240	12	2.5	12	94	0	51	60	10	23	6	1.52
1212720--1212766	22	2.1	22	96	0	85	46	10	4	38	1.58
1213194--1213258	32	2.0	32	88	5	96	24	24	27	23	2.00
1217020--1217175	2	79.5	2	81	11	135	52	1	4	41	1.33
1217183--1217228	17	2.6	17	83	13	58	63	2	2	32	1.19
1218950--1219205	106	2.5	104	90	3	399	24	19	24	31	1.98
1220307--1220362	17	3.4	16	82	9	60	0	14	3	82	0.81
1220308--1220350	22	2.0	22	86	9	61	0	11	4	83	0.78
1220307--1220351	11	4.1	11	82	0	54	0	11	4	84	0.76
1220346--1220477	68	2.0	66	83	5	167	12	21	13	51	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226165--1226217	15	3.5	15	73	0	52	13	62	13	11	1.55
1234868--1234911	17	2.6	16	85	10	52	63	2	0	34	1.07
1235068--1235433	134	2.8	130	76	10	350	29	16	25	28	1.97
1235672--1235841	91	1.9	91	92	2	288	23	19	15	41	1.90
1235758--1236322	117	4.9	116	87	5	703	23	20	16	39	1.92
1236004--1236062	19	3.0	21	69	23	63	20	20	11	47	1.81
1236233--1236289	16	3.4	16	73	21	62	21	21	8	49	1.76
1239199--1239237	14	2.9	14	92	3	62	7	10	0	82	0.86
1239214--1239256	9	4.6	9	78	21	52	2	13	0	83	0.74
1239716--1239745	9	3.3	9	100	0	60	0	10	0	90	0.47
1246227--1246282	20	2.8	21	84	13	73	62	1	3	32	1.23
1257303--1257367	11	6.0	11	77	10	62	46	1	1	50	1.20
1257303--1257367	23	3.0	23	76	13	66	46	1	1	50	1.20
1261946--1262044	16	6.2	16	93	0	171	20	28	13	38	1.90
1261946--1262044	48	2.1	48	98	0	189	20	28	13	38	1.90
1262317--1262363	14	3.7	14	71	26	50	44	0	4	51	1.21
1262316--1262365	23	2.1	24	96	3	93	48	0	4	48	1.20
1262528--1262558	14	2.2	14	94	0	53	16	0	29	54	1.42
1262661--1262713	20	2.5	20	72	6	52	37	9	5	47	1.60
1263058--1263118	21	3.0	20	76	7	59	21	0	26	52	1.47
1263193--1263240	20	2.5	20	86	3	62	41	6	6	45	1.54
1262450--1263915	537	2.8	537	91	4	2261	36	8	11	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263611--1263662	14	3.7	14	76	0	50	21	0	25	53	1.45
1263591--1263642	21	2.5	21	87	0	77	23	0	25	51	1.48
1263655--1263753	48	2.0	49	86	1	137	34	5	9	51	1.55
1263645--1263753	49	2.2	49	83	3	139	33	4	9	53	1.53
1263737--1263770	15	2.3	15	100	0	68	41	0	5	52	1.25
1263737--1263781	17	2.8	17	86	6	58	37	2	8	51	1.46
1263743--1263789	15	2.9	16	75	12	51	38	6	8	46	1.60
1263792--1263818	13	2.1	13	100	0	54	55	0	0	44	0.99
1263792--1263834	13	3.1	14	86	6	52	55	0	2	41	1.12
1264149--1264227	23	3.3	23	68	23	65	44	15	5	35	1.68
1270505--1270529	2	12.5	2	100	0	50	0	52	0	48	1.00
1270909--1270947	18	2.2	18	86	9	53	51	0	2	46	1.14
1271944--1272011	33	2.2	32	81	7	77	42	0	1	55	1.08
1271972--1272035	30	2.2	28	83	5	74	40	0	0	59	0.97
1273818--1273887	21	3.3	20	81	15	79	20	30	24	25	1.99
1274661--1274785	63	2.0	63	87	3	180	38	19	0	41	1.57
1274738--1274782	23	2.0	22	87	12	65	37	11	0	51	1.38
1274918--1275267	138	2.5	138	95	0	619	32	22	21	23	1.98
1278415--1278455	21	2.0	21	85	0	55	34	0	2	63	1.08
1278469--1278510	21	2.0	21	85	0	57	50	0	0	50	1.00
1281533--1281646	59	1.9	59	89	0	174	35	21	17	26	1.95
1282821--1282872	26	2.0	26	92	0	86	34	25	7	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1285313--1285348	18	2.0	18	88	0	54	61	0	2	36	1.11
1286091--1286331	83	2.8	84	84	5	297	25	18	20	35	1.95
1286586--1286758	60	2.7	63	85	8	219	28	13	21	36	1.92
1286772--1286892	64	1.9	64	89	0	188	33	11	19	34	1.88
1288636--1288706	19	3.9	18	76	7	63	2	14	5	77	1.06
1291696--1291724	12	2.3	13	94	5	51	68	0	0	31	0.89
1293876--1293950	21	3.6	21	75	10	73	25	24	18	32	1.97
1293940--1293987	21	2.3	21	89	3	71	41	16	18	22	1.90
1293989--1294053	20	3.2	20	91	0	94	29	27	18	24	1.98
1294240--1294283	22	2.0	22	95	0	79	20	45	15	18	1.85
1294546--1294594	20	2.5	20	82	0	53	18	18	24	38	1.93
1294562--1294604	20	2.2	20	91	0	68	9	18	20	51	1.74
1295923--1295971	18	2.7	18	93	0	89	28	44	12	14	1.81
1296505--1296550	20	2.3	20	85	7	58	39	26	19	15	1.91
1296516--1296560	20	2.3	20	84	3	65	40	20	22	17	1.92
1296544--1296640	19	5.6	19	71	22	97	46	20	19	13	1.83
1296544--1296637	33	2.8	33	95	0	170	46	20	19	13	1.83
1296560--1296618	14	3.9	14	74	20	55	49	22	16	11	1.78
1296652--1296710	14	3.9	14	74	20	55	11	16	22	49	1.78
1296647--1296726	33	2.4	33	95	0	142	12	18	21	47	1.81
1296668--1296726	19	3.4	19	73	22	74	15	18	18	47	1.83
1296711--1296765	20	2.8	19	86	8	83	18	27	21	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296753--1296791	20	2.0	20	89	0	60	28	12	25	33	1.93
1298567--1298605	14	2.8	14	84	0	51	35	0	17	46	1.49
1298745--1298828	19	4.7	19	88	11	133	46	17	21	14	1.84
1298732--1298828	38	2.8	33	84	14	140	45	18	22	13	1.84
1298838--1298890	20	2.7	20	78	0	61	24	22	24	28	2.00
1298844--1298931	20	4.3	20	71	8	70	22	18	25	34	1.96
1298865--1298994	41	3.1	41	84	5	138	23	20	20	36	1.95
1298922--1299013	21	4.4	21	94	1	150	22	22	16	38	1.93
1298922--1299028	42	2.6	42	86	1	108	25	21	17	35	1.95
1299003--1299055	21	2.5	22	81	6	74	33	18	26	20	1.96
1299245--1299285	3	14.3	3	90	10	68	63	0	0	36	0.95
1299424--1299452	3	9.7	3	100	0	58	31	0	0	68	0.89
1303186--1303263	33	2.3	32	84	6	102	43	15	8	32	1.78
1303320--1303380	32	1.9	32	96	3	115	13	19	26	40	1.88
1307716--1307740	13	1.9	13	100	0	50	0	52	0	48	1.00
1308139--1308163	8	3.1	8	100	0	50	76	0	0	24	0.80
1317173--1317198	2	13.0	2	100	0	52	50	0	0	50	1.00
1317637--1317673	14	2.6	14	91	0	56	48	2	5	43	1.40
1317641--1317680	14	2.9	14	88	3	55	47	2	5	45	1.38
1319483--1319539	30	1.9	30	85	7	80	40	8	19	31	1.82
1319483--1319549	30	2.2	30	82	10	75	40	10	20	28	1.86
1320757--1320819	9	7.0	9	75	7	56	25	6	22	46	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320759--1320809	18	2.8	18	81	0	66	27	7	21	43	1.80
1320761--1320819	27	2.2	27	81	6	75	25	6	20	47	1.74
1321734--1321883	38	3.9	38	84	3	176	26	23	26	24	2.00
1321761--1321824	21	3.2	21	65	24	57	25	25	26	23	2.00
1321734--1321883	76	2.0	76	85	2	203	26	23	26	24	2.00
1321959--1322059	12	8.6	12	76	4	107	36	13	21	27	1.92
1321959--1322033	35	2.1	35	100	0	150	37	14	21	26	1.92
1321959--1322059	35	2.9	35	90	1	139	36	13	21	27	1.92
1328402--1328883	234	2.0	232	90	5	738	27	13	19	39	1.89
1331738--1331791	28	1.9	28	85	7	74	55	3	5	35	1.41

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14