genome.fa.s250.2.7.7.80.10.50.1000.6.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: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2850692

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

This is table  6  of  12  ( 1407 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)
1254678--1254714	19	1.9	19	88	0	56	13	27	35	24	1.93
1254696--1254738	23	2.0	22	90	9	70	20	23	32	23	1.98
1258564--1258603	21	1.9	21	85	10	55	35	10	2	52	1.48
1264532--1264588	26	2.2	25	75	12	62	36	8	0	54	1.32
1267577--1267639	29	2.1	30	85	2	83	39	15	4	39	1.69
1267757--1268222	232	2.0	232	96	0	851	34	10	17	37	1.85
1268756--1268808	18	2.7	20	75	19	58	47	0	0	52	1.00
1269484--1269509	10	2.6	10	100	0	52	84	0	15	0	0.62
1270567--1270606	21	1.9	21	89	0	62	22	35	27	15	1.94
1274504--1274546	9	5.0	9	77	11	54	83	11	4	0	0.78
1274507--1274566	15	3.9	15	84	6	59	85	8	6	0	0.76
1274505--1274564	13	4.6	13	75	8	59	85	8	6	0	0.76
1274524--1274563	14	2.8	14	96	3	71	82	7	10	0	0.84
1274504--1274567	17	3.9	17	78	14	64	82	9	7	0	0.83
1279538--1279585	22	2.2	22	92	0	78	25	12	14	47	1.79
1282144--1282204	21	2.9	21	82	9	79	24	29	26	19	1.99
1283737--1283783	18	2.6	18	83	10	60	53	25	19	2	1.56
1284732--1284776	22	2.0	22	91	0	72	26	33	22	17	1.96
1289800--1289830	8	3.9	8	91	0	53	12	25	12	48	1.77
1292892--1292932	17	2.4	17	95	0	73	17	17	39	26	1.91
1293984--1294024	8	5.1	8	93	0	64	12	26	17	43	1.84
1297027--1297072	21	2.2	21	88	0	65	32	13	17	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297069--1297122	20	2.6	21	79	5	65	38	14	9	37	1.79
1302230--1302254	2	12.5	2	100	0	50	48	0	0	52	1.00
1302401--1302472	32	2.3	32	97	2	137	33	2	5	58	1.36
1306520--1306575	24	2.3	24	90	6	87	32	5	21	41	1.76
1308329--1308613	147	1.9	148	84	2	376	40	14	9	35	1.79
1309487--1309554	33	2.1	31	84	13	84	58	11	14	14	1.63
1309444--1309712	117	2.3	117	98	0	520	55	15	11	16	1.68
1311385--1311432	20	2.4	20	82	6	62	37	12	29	20	1.90
1311460--1311510	19	2.5	21	90	9	79	37	15	17	29	1.91
1311891--1312241	55	6.4	55	89	2	526	32	11	20	35	1.88
1312966--1313009	23	1.9	23	85	0	61	25	25	25	25	2.00
1315623--1315665	17	2.6	16	78	7	50	39	25	0	34	1.56
1317990--1318050	23	2.7	23	92	0	104	22	27	29	19	1.98
1319726--1319770	21	2.1	21	87	0	63	15	24	28	31	1.96
1320480--1320634	55	2.8	55	87	3	206	34	10	18	35	1.86
1328452--1328519	35	1.9	35	100	0	136	35	14	23	26	1.94
1330617--1330651	18	1.9	18	88	0	52	57	2	0	40	1.14
1340936--1341146	81	2.6	81	83	7	268	27	27	8	36	1.86
1341106--1341497	68	5.8	68	90	0	579	28	24	15	31	1.95
1344380--1344421	20	2.0	20	90	4	66	38	7	0	54	1.28
1344899--1344936	2	19.0	2	100	0	76	50	0	0	50	1.00
1351599--1351635	20	1.9	19	89	10	58	45	10	24	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355909--1356045	68	2.0	67	84	6	179	32	17	13	37	1.88
1357366--1357478	51	2.2	50	85	1	154	18	27	33	20	1.96
1357753--1357792	20	2.0	20	86	13	57	65	2	32	0	1.06
1357769--1357802	14	2.5	13	86	9	50	64	0	35	0	0.94
1358985--1359043	17	3.4	17	80	17	75	44	0	6	49	1.29
1358985--1359034	20	2.7	19	88	11	70	46	0	8	46	1.32
1362207--1362274	21	3.0	22	73	18	61	47	4	7	41	1.51
1362267--1362308	23	1.9	23	90	9	70	35	7	9	47	1.64
1374623--1374901	139	2.0	139	98	0	540	34	25	12	27	1.92
1379155--1379206	20	2.6	20	93	0	95	23	28	17	30	1.97
1379724--1379771	25	1.9	25	100	0	96	25	25	12	37	1.91
1379902--1379938	17	2.1	19	85	10	51	27	5	13	54	1.61
1385018--1385105	24	3.7	24	83	3	106	21	12	17	48	1.79
1385046--1385110	12	5.4	12	76	7	69	13	13	18	53	1.72
1385004--1385112	48	2.3	48	85	6	141	20	14	16	48	1.81
1387957--1388012	21	2.6	22	80	5	69	62	5	21	10	1.47
1391740--1391797	27	2.1	27	100	0	116	13	39	10	36	1.79
1395696--1395759	20	3.2	20	90	0	92	15	21	35	26	1.94
1395752--1395887	65	2.1	64	81	11	154	30	16	21	31	1.96
1395775--1395911	64	2.1	63	82	12	156	29	13	21	34	1.93
1396260--1396293	13	2.7	13	86	4	52	44	0	8	47	1.34
1398052--1398084	13	2.8	12	90	9	50	48	0	9	42	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398524--1398587	24	2.9	21	76	17	67	28	18	21	31	1.97
1404362--1404566	65	3.2	64	81	10	188	30	17	22	29	1.96
1406378--1406454	38	2.0	38	100	0	154	31	18	23	27	1.97
1406929--1406968	13	2.9	14	81	7	55	60	0	2	37	1.11
1406427--1411045	978	4.7	970	85	5	6102	36	9	14	38	1.80
1409074--1409114	2	21.0	2	95	5	75	48	0	0	51	1.00
1410847--1410884	13	2.8	14	84	8	51	60	0	2	36	1.11
1410926--1411170	122	2.0	122	91	1	402	41	4	11	43	1.60
1411934--1411971	13	2.8	14	84	8	51	60	0	2	36	1.11
1412394--1412424	13	2.4	13	94	0	53	35	19	12	32	1.90
1412467--1412505	15	2.6	15	83	0	51	30	10	12	46	1.75
1412605--1412639	2	17.5	2	87	0	52	42	0	0	57	0.99
1414541--1414601	16	3.8	16	95	0	113	55	22	13	8	1.64
1415347--1415407	14	4.4	14	95	0	104	55	26	9	8	1.60
1418121--1418472	192	1.8	192	83	0	470	38	11	11	38	1.77
1418121--1418525	192	2.1	192	81	1	461	37	12	11	38	1.79
1419922--1419955	15	2.3	15	94	0	59	38	23	5	32	1.79
1420603--1420687	39	2.2	40	91	4	145	1	40	7	51	1.37
1420642--1420737	51	1.9	50	91	2	156	2	37	6	54	1.38
1420640--1420731	26	3.6	26	69	14	82	2	39	6	52	1.40
1424509--1424550	15	2.7	15	88	3	57	9	19	11	59	1.59
1430096--1430273	60	3.0	60	81	4	182	45	5	16	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430319--1430362	22	2.0	22	86	4	63	54	13	0	31	1.39
1430887--1430923	2	18.5	2	100	0	74	48	0	0	51	1.00
1430996--1431065	30	2.3	31	80	12	81	37	14	14	34	1.86
1431084--1431209	64	2.0	64	81	6	148	37	32	14	15	1.88
1432419--1432445	11	2.5	11	100	0	54	25	0	7	66	1.17
1434177--1434213	19	1.9	20	88	5	58	35	0	8	56	1.29
1436691--1436774	29	3.2	25	68	17	62	42	1	3	52	1.26
1437170--1437203	2	17.0	2	100	0	68	50	0	0	50	1.00
1439440--1439688	117	2.1	117	89	0	390	32	19	32	15	1.93
1439440--1439751	117	2.7	116	84	4	351	32	19	32	15	1.93
1443832--1443879	17	2.9	17	84	3	62	41	8	14	35	1.76
1448577--1448608	16	2.0	16	93	0	55	65	25	3	6	1.31
1449782--1449874	2	46.5	2	100	0	186	49	0	0	50	1.00
1450273--1450315	20	2.2	20	83	8	52	72	6	4	16	1.24
1450503--1450536	11	3.2	11	91	4	52	14	17	44	23	1.86
1450988--1453901	123	23.7	123	87	1	3865	27	18	15	39	1.91
1456891--1456938	20	2.5	19	86	6	69	2	20	0	77	0.88
1456890--1456938	9	5.0	10	75	22	50	2	20	0	77	0.87
1462825--1462878	6	8.7	6	76	15	56	74	1	5	18	1.11
1463467--1463496	5	6.2	5	96	3	53	0	20	0	80	0.72
1464722--1464764	17	2.5	17	84	0	59	41	6	16	34	1.75
1467653--1467687	18	2.1	16	89	10	52	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467873--1467952	31	2.6	31	87	0	106	27	12	12	47	1.77
1473218--1473262	20	2.2	20	80	7	56	64	8	2	24	1.34
1474361--1474411	3	17.0	3	91	0	75	60	0	0	39	0.97
1474361--1474411	15	3.4	15	91	0	84	60	0	0	39	0.97
1474641--1475284	113	5.6	111	87	6	539	30	17	13	38	1.89
1474774--1475324	113	4.8	113	91	2	822	31	18	13	37	1.89
1476013--1476731	92	7.8	92	95	0	1240	35	21	14	28	1.93
1477749--1477803	16	3.2	17	85	12	69	52	5	7	34	1.52
1478123--1478171	16	3.1	15	80	8	53	0	16	2	81	0.78
1478124--1478169	14	3.5	12	81	18	56	0	13	2	84	0.71

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