genome.fa.s7822.2.7.7.80.10.50.1000.7.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: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1828853

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

This is table  7  of  10  ( 1099 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)
1273917--1274006	21	4.3	21	88	5	119	20	30	27	22	1.98
1274526--1274620	28	3.2	28	88	8	118	52	4	4	38	1.40
1274555--1274627	34	2.1	34	89	0	110	54	4	4	36	1.38
1275023--1275629	128	4.7	128	96	0	1124	32	21	25	21	1.98
1275710--1275750	8	5.2	8	82	5	57	36	29	0	34	1.58
1280211--1280314	29	3.6	29	84	7	149	56	7	4	30	1.48
1281883--1281911	2	14.5	2	100	0	58	51	0	0	48	1.00
1286062--1286095	14	2.4	14	90	0	50	41	20	17	20	1.91
1286726--1286838	31	3.7	30	87	5	163	38	21	18	22	1.94
1287406--1287477	37	2.0	37	91	5	121	20	30	30	18	1.96
1291065--1291220	31	5.0	31	91	1	233	38	22	17	21	1.93
1295219--1295280	25	2.5	25	82	10	65	37	12	8	41	1.73
1295322--1295384	31	2.1	28	91	8	99	39	4	22	33	1.75
1295466--1295509	23	1.9	23	95	0	79	15	25	27	31	1.96
1295573--1295624	22	2.3	22	80	9	52	28	9	17	44	1.80
1295636--1295707	24	3.0	24	73	13	60	23	25	20	30	1.99
1296264--1296305	21	2.0	21	95	0	75	23	21	28	26	1.99
1299612--1299773	49	3.3	49	76	6	173	19	14	24	41	1.88
1299661--1299814	51	3.1	51	71	7	143	22	14	20	42	1.88
1299611--1299814	100	2.0	100	89	1	311	22	14	22	41	1.89
1299803--1299848	19	2.4	19	92	0	74	32	23	0	43	1.54
1304536--1304573	18	2.1	18	100	0	76	26	44	5	23	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314430--1314535	39	2.7	39	76	13	119	34	15	0	49	1.51
1314526--1314559	13	2.5	14	85	9	52	38	0	0	61	0.96
1315332--1315402	23	3.0	23	76	17	67	49	0	1	49	1.09
1315365--1315417	2	29.0	2	75	24	55	50	0	1	47	1.12
1315332--1315415	28	3.0	27	86	5	98	48	0	1	50	1.08
1315342--1315425	28	3.1	27	78	17	86	47	0	2	50	1.14
1318608--1318638	2	15.5	2	100	0	62	51	0	0	48	1.00
1320250--1320298	20	2.5	20	86	0	71	24	18	20	36	1.94
1323202--1323247	21	2.2	21	84	0	56	36	4	39	19	1.72
1323540--1323601	21	3.0	21	80	4	63	25	9	35	29	1.88
1323639--1323790	21	7.2	21	82	0	169	21	7	50	21	1.74
1323600--1323730	63	2.1	63	80	0	145	22	12	45	20	1.84
1323639--1323790	42	3.6	42	87	0	196	21	7	50	21	1.74
1323630--1323781	63	2.4	63	86	0	196	21	7	49	21	1.73
1323756--1323832	21	3.7	21	82	6	75	23	7	42	25	1.81
1323765--1323898	42	3.2	42	84	4	128	21	8	45	23	1.80
1323780--1323901	21	5.8	21	91	3	140	21	9	45	23	1.82
1323825--1323910	21	4.1	21	93	0	136	17	10	50	22	1.76
1323986--1324077	21	4.4	21	80	0	112	17	16	44	21	1.86
1323990--1324077	42	2.1	42	91	0	140	17	17	44	21	1.87
1330888--1330931	18	2.4	18	78	14	54	36	0	0	63	0.95
1331196--1331327	40	3.2	41	80	16	175	34	21	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331216--1331348	42	3.2	41	78	17	166	33	21	19	25	1.97
1331363--1331490	41	3.0	43	82	6	147	34	14	18	32	1.91
1332723--1332820	43	2.3	44	82	5	119	26	17	22	33	1.96
1332879--1333138	41	6.3	41	79	7	196	28	20	18	33	1.96
1332879--1333179	42	7.2	42	79	5	283	27	20	18	33	1.96
1332897--1333162	83	3.2	83	82	4	288	27	19	18	34	1.95
1336541--1336825	128	2.2	129	86	3	396	23	25	18	31	1.97
1336541--1336825	43	6.7	43	89	1	394	23	25	18	31	1.97
1337537--1337623	3	29.0	3	100	0	174	0	33	0	66	0.92
1339518--1339561	19	2.2	20	84	4	54	45	2	38	13	1.56
1339530--1339561	7	4.9	7	88	11	50	40	0	43	15	1.47
1339530--1339560	13	2.4	13	100	0	62	38	0	45	16	1.47
1341699--1341821	3	41.0	3	83	0	138	41	1	0	56	1.09
1341699--1341828	27	4.7	28	86	9	178	42	1	0	56	1.09
1341932--1341972	16	2.6	16	96	0	73	9	56	17	17	1.67
1354493--1354573	7	11.4	7	87	12	121	86	0	13	0	0.57
1354496--1354572	1	77.0	1	76	0	73	88	0	11	0	0.52
1354496--1354572	8	10.6	8	81	16	89	88	0	11	0	0.52
1354496--1354571	20	3.7	19	86	11	98	88	0	11	0	0.52
1354493--1354572	27	2.9	28	92	5	135	87	0	12	0	0.54
1354493--1354573	35	2.3	36	93	6	139	86	0	13	0	0.57
1355705--1355970	83	3.2	83	96	0	478	27	13	21	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356791--1357283	113	4.4	112	87	3	695	37	14	18	29	1.91
1356764--1357283	225	2.3	226	85	4	708	37	14	17	29	1.90
1357627--1357740	3	38.0	3	80	0	129	41	1	0	57	1.09
1357627--1357746	27	4.6	27	87	7	167	42	1	0	55	1.09
1357853--1357885	16	2.1	16	94	0	57	12	54	15	18	1.71
1357858--1357893	16	2.2	16	95	0	63	8	58	13	19	1.61
1359102--1359141	12	3.1	13	82	10	55	40	0	0	60	0.97
1362216--1362257	19	2.2	19	100	0	84	45	16	7	30	1.74
1364916--1364960	15	2.9	16	83	9	58	0	40	2	57	1.11
1366278--1366317	20	1.9	22	90	10	66	45	0	0	55	0.99
1371376--1371435	24	2.5	24	94	0	102	26	20	15	38	1.91
1378080--1378127	22	2.2	22	88	0	69	33	20	16	29	1.95
1378093--1378141	22	2.2	22	89	7	73	34	20	20	24	1.96
1381112--1381187	30	2.5	31	93	2	127	32	22	18	26	1.97
1381112--1381200	30	2.9	30	88	6	126	34	20	19	25	1.96
1381291--1381338	25	2.0	25	83	4	62	33	18	2	45	1.61
1382703--1382758	21	2.7	21	100	0	112	32	16	8	42	1.79
1384353--1384394	16	2.7	16	85	10	52	64	0	0	35	0.94
1386746--1386789	22	1.9	23	90	9	72	36	9	9	45	1.68
1387241--1387285	22	2.0	22	91	4	72	44	4	6	44	1.50
1392807--1392862	23	2.4	23	100	0	112	46	21	16	16	1.84
1393402--1393455	20	2.8	20	75	8	58	40	0	5	53	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397209--1397246	18	2.1	18	90	0	58	42	15	0	42	1.47
1398026--1398073	23	2.1	23	84	7	62	43	2	0	54	1.12
1398122--1398214	27	3.5	26	74	11	66	52	2	1	44	1.20
1398781--1398838	26	2.3	27	82	8	68	46	1	1	50	1.22
1398848--1398909	30	2.1	30	84	0	79	50	1	1	46	1.20
1399903--1399978	36	2.1	36	85	7	100	47	1	3	47	1.29
1400124--1400161	20	1.9	20	88	0	58	21	26	10	42	1.85
1401582--1401630	21	2.4	21	89	3	82	24	18	16	40	1.90
1401555--1401636	21	4.0	21	74	3	67	26	20	18	34	1.96
1401560--1401652	21	4.5	21	77	4	64	31	19	18	31	1.96
1401617--1401730	19	5.7	20	75	15	103	39	20	12	28	1.88
1404693--1404767	20	3.7	20	82	3	87	25	17	16	41	1.89
1406276--1406351	21	3.6	21	87	3	100	23	17	34	25	1.96
1406495--1406540	4	11.5	4	80	0	56	67	4	2	26	1.21
1408509--1408673	20	8.2	20	95	0	258	50	22	17	9	1.75
1408508--1408672	60	2.8	60	97	0	303	49	22	18	9	1.76
1408692--1408735	20	2.2	20	83	0	52	15	13	20	50	1.78
1409232--1409288	20	2.8	20	94	0	96	19	12	24	43	1.85
1409232--1409313	40	2.0	40	81	9	96	19	13	23	43	1.86
1411360--1411398	2	20.0	2	89	5	62	53	0	0	46	1.00
1411704--1411762	7	8.6	7	83	9	68	45	33	0	20	1.51
1411704--1411762	14	4.3	14	84	2	84	45	33	0	20	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411704--1411762	21	2.9	21	87	12	95	45	33	0	20	1.51
1422404--1422446	24	1.9	23	86	13	63	30	34	11	23	1.90
1425699--1425764	23	2.8	23	84	13	82	28	10	19	40	1.85
1425870--1425902	13	2.4	14	90	5	50	63	3	0	33	1.10
1425879--1425925	10	5.1	10	72	27	50	65	0	0	34	0.93
1425881--1425921	7	6.1	7	77	11	50	65	0	0	34	0.93
1428428--1429353	311	3.0	311	87	5	1323	36	11	14	37	1.83
1434804--1434835	15	2.1	15	94	0	55	40	15	0	43	1.47
1443522--1443561	21	1.9	21	89	0	62	25	40	25	10	1.86
1447197--1447241	21	2.1	21	83	0	54	42	6	2	48	1.41

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