genome.fa.s8194.2.7.7.80.10.50.1000.7.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: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2426039

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

This is table  7  of  13  ( 1464 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)
1283228--1283266	15	2.7	15	88	4	53	12	0	33	53	1.39
1283251--1283292	20	2.1	20	90	0	66	19	0	38	42	1.51
1283258--1283331	28	2.7	27	73	22	82	20	0	37	41	1.52
1289141--1289167	14	1.9	14	100	0	54	29	3	29	37	1.75
1295056--1295333	20	13.6	20	74	8	157	39	19	21	19	1.92
1295180--1295320	43	3.3	43	82	5	189	36	17	24	21	1.94
1295420--1295451	6	5.5	6	96	3	57	31	53	15	0	1.43
1296140--1296205	6	11.5	6	98	1	111	0	16	53	30	1.44
1296302--1296485	83	2.2	83	96	0	332	22	25	16	36	1.94
1296305--1296464	40	3.9	40	86	4	230	23	25	16	35	1.94
1296292--1296570	20	13.6	20	75	8	148	19	23	18	38	1.93
1298773--1298806	2	17.0	2	100	0	68	50	0	0	50	1.00
1302835--1302861	13	2.1	13	100	0	54	22	29	14	33	1.94
1305631--1305660	7	4.1	7	91	8	51	83	0	0	16	0.65
1305632--1305660	15	1.9	15	100	0	58	86	0	0	13	0.58
1305917--1305994	37	2.1	37	83	9	97	48	3	1	46	1.28
1306387--1306513	60	2.1	60	89	4	202	32	23	4	39	1.76
1306387--1306542	60	2.6	60	85	6	174	30	24	4	40	1.75
1306691--1306839	60	2.5	57	76	13	140	40	7	20	31	1.80
1307238--1307652	209	2.0	209	98	0	794	29	20	23	26	1.99
1308311--1308590	108	2.5	112	80	10	279	39	14	15	31	1.87
1308697--1309127	199	2.2	200	84	3	562	35	13	12	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309156--1309199	20	2.1	22	83	8	56	38	9	18	34	1.82
1309124--1309284	75	2.2	74	84	5	209	32	11	12	43	1.78
1310351--1310411	32	2.0	30	90	6	95	44	0	0	55	0.99
1310351--1310414	20	3.6	19	74	21	68	43	0	0	56	0.99
1312162--1312213	20	2.6	21	76	11	56	26	7	0	65	1.20
1319387--1319532	76	1.9	76	83	2	186	34	17	20	28	1.95
1320897--1320951	22	2.5	22	91	8	94	34	9	14	41	1.77
1321628--1322577	76	12.5	76	93	2	1530	23	19	21	35	1.96
1322711--1322766	3	18.0	3	81	7	58	41	0	0	58	0.98
1327380--1327420	18	2.3	18	87	8	57	19	21	24	34	1.97
1327380--1327451	25	2.8	26	75	6	76	19	20	23	36	1.95
1328229--1328397	39	4.3	39	86	0	212	17	26	23	32	1.97
1328229--1328397	78	2.2	78	86	0	239	17	26	23	32	1.97
1329363--1329437	33	2.3	33	88	0	105	17	6	34	41	1.76
1329582--1329622	6	6.8	6	97	0	64	51	4	9	34	1.56
1329704--1329909	74	2.8	75	85	1	279	31	13	14	40	1.84
1330030--1330083	20	2.7	20	79	0	63	24	14	12	48	1.79
1330421--1330447	12	2.2	12	100	0	54	22	22	14	40	1.90
1334478--1334543	16	3.9	17	72	9	55	56	0	0	43	0.99
1334478--1334533	16	3.4	16	77	2	58	57	0	0	42	0.99
1334474--1334566	32	2.8	32	75	10	89	55	0	0	44	0.99
1334487--1334567	31	2.4	34	80	17	89	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336349--1336418	20	3.5	20	82	9	81	30	30	22	17	1.97
1336349--1336435	40	2.2	40	82	12	99	31	28	22	17	1.97
1345866--1345923	19	3.3	19	77	15	63	63	0	0	36	0.94
1345890--1345932	19	2.3	19	87	0	59	60	0	2	37	1.10
1349593--1349650	27	2.2	27	84	3	73	25	10	34	29	1.89
1356133--1356194	15	4.1	15	100	0	124	33	32	19	14	1.92
1356339--1356385	12	3.9	12	94	0	76	38	23	2	36	1.67
1356694--1356870	64	2.8	64	85	1	221	25	20	22	32	1.98
1356694--1356918	64	3.5	64	80	10	205	27	20	20	31	1.98
1363121--1363167	15	3.1	15	100	0	94	34	31	19	14	1.92
1363312--1363358	12	3.9	12	94	0	76	38	23	2	36	1.67
1363667--1363843	64	2.8	64	84	5	207	24	19	22	32	1.97
1371026--1371118	11	8.7	10	75	16	55	39	0	0	60	0.97
1371020--1371130	34	3.3	34	89	2	172	42	0	0	57	0.98
1373756--1373856	33	3.1	33	95	1	177	41	9	16	31	1.81
1377933--1378005	33	2.2	34	95	2	130	46	5	24	23	1.73
1379147--1379171	12	2.1	12	100	0	50	40	0	36	24	1.55
1379473--1379618	8	18.4	8	69	17	65	67	1	1	29	1.07
1379474--1379527	24	2.2	24	90	3	81	68	0	0	31	0.90
1379473--1379529	25	2.3	24	84	6	78	68	0	0	31	0.90
1379473--1379536	25	2.6	23	78	11	74	67	0	0	32	0.91
1379516--1379629	21	5.4	22	71	14	60	67	1	1	28	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379517--1379624	41	2.5	42	80	16	150	68	1	1	27	1.10
1379531--1379613	41	2.0	41	97	2	159	68	2	2	26	1.14
1386641--1386696	18	3.1	18	78	14	69	51	10	19	17	1.74
1386637--1386692	19	3.0	19	77	15	71	46	10	19	23	1.81
1386675--1386701	14	1.9	14	100	0	54	51	11	22	14	1.73
1388617--1388688	36	2.0	36	94	0	126	22	20	26	30	1.98
1390755--1390806	18	2.8	18	77	13	61	48	11	23	17	1.79
1393308--1393374	33	2.0	33	100	0	134	32	5	32	28	1.81
1393855--1393888	2	17.0	2	87	0	50	44	0	2	52	1.16
1397766--1397987	111	2.0	111	93	0	381	29	22	22	24	1.99
1398771--1398874	33	3.2	33	95	1	183	44	17	7	30	1.77
1398869--1398910	21	2.0	21	95	0	75	47	7	14	30	1.71
1401345--1401399	27	2.0	27	82	10	67	30	12	14	41	1.83
1405949--1406010	27	2.3	27	97	0	115	30	27	9	32	1.89
1410752--1410792	22	1.9	21	90	5	64	70	4	0	24	1.06
1410984--1411011	14	2.0	14	100	0	56	50	7	0	42	1.30
1412342--1412401	22	2.7	22	86	0	84	28	25	20	26	1.99
1414111--1414274	42	3.9	41	81	3	193	23	12	15	48	1.79
1414107--1414274	84	2.0	84	86	4	232	23	13	14	48	1.79
1415884--1415974	31	3.0	31	95	3	159	34	6	16	42	1.74
1418338--1418375	13	3.0	13	84	3	51	86	5	7	0	0.69
1418335--1418379	19	2.3	20	84	3	65	84	8	6	0	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1419409--1419483	33	2.3	32	83	2	87	28	14	24	33	1.94
1422804--1422967	42	3.9	41	79	4	159	23	15	14	46	1.83
1422800--1422967	84	2.0	84	83	4	214	23	15	14	46	1.82
1423959--1424016	20	2.6	22	76	15	66	24	24	20	31	1.98
1424002--1424159	64	2.5	64	81	4	174	26	20	20	32	1.97
1430284--1430342	22	2.7	22	84	10	84	30	28	22	18	1.97
1430956--1430992	19	2.1	18	85	14	51	27	24	16	32	1.96
1430891--1431051	64	2.5	64	82	4	182	27	21	18	33	1.96
1433993--1434105	35	3.2	34	87	5	154	42	22	0	34	1.60
1435157--1435268	35	3.2	34	88	2	161	35	0	21	41	1.59
1436154--1436192	2	19.5	2	100	0	78	48	0	0	51	1.00
1436841--1436886	23	2.0	23	87	8	67	76	0	2	21	0.90
1436918--1436954	17	2.2	17	90	4	58	67	2	2	27	1.17
1438588--1438636	2	24.5	2	100	0	98	48	0	0	51	1.00
1438722--1438759	2	19.0	2	100	0	76	50	0	0	50	1.00
1438599--1438862	123	2.1	123	95	0	474	46	9	3	40	1.53
1440967--1442301	121	10.9	120	77	10	1081	25	16	24	33	1.96
1440971--1442300	124	10.8	124	76	11	1008	25	16	24	33	1.96
1441467--1442296	245	3.4	243	83	6	921	25	16	24	33	1.96
1441467--1442301	366	2.3	369	85	2	1137	25	16	24	33	1.96
1446913--1446979	30	2.2	30	83	0	80	56	5	10	26	1.56
1447262--1447286	5	5.0	5	100	0	50	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454769--1454836	32	2.2	32	86	2	93	16	30	29	23	1.96
1459866--1459933	32	2.2	32	86	2	93	16	30	29	23	1.96
1468752--1468807	20	2.7	21	86	2	69	30	25	19	25	1.98
1468807--1468883	40	2.0	39	85	7	104	29	5	29	35	1.79
1468809--1468895	19	4.4	20	72	18	92	34	4	28	32	1.78
1469856--1469895	21	1.9	21	90	10	64	62	0	0	37	0.95
1474404--1474434	16	1.9	16	93	0	53	35	0	12	51	1.40
1475178--1475216	20	2.0	20	89	0	60	23	25	15	35	1.94
1477670--1477743	23	3.2	23	86	0	103	16	25	24	33	1.95
1478610--1478669	26	2.3	26	88	0	93	20	16	41	21	1.90

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