genome.fa.s417.2.7.7.80.10.50.1000.7.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1058 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)
1332808--1332857	2	25.0	2	100	0	100	50	0	0	50	1.00
1334015--1334069	25	2.3	25	93	6	96	40	0	0	60	0.97
1334027--1334061	18	1.9	18	94	0	61	40	0	0	60	0.97
1335231--1335307	31	2.5	31	80	0	82	44	6	5	44	1.52
1343984--1344026	21	2.0	21	86	0	59	60	9	0	30	1.28
1344034--1344073	2	20.0	2	100	0	80	50	0	0	50	1.00
1345733--1345878	59	2.5	58	83	9	172	36	11	14	37	1.82
1346011--1346099	45	1.9	48	84	11	123	33	17	3	44	1.66
1346322--1346346	9	2.8	9	100	0	50	60	0	12	28	1.32
1346489--1346514	12	2.2	12	100	0	52	38	0	30	30	1.58
1347378--1347454	31	2.5	31	91	0	118	25	24	12	36	1.92
1366532--1366716	93	2.0	92	93	3	320	44	18	12	23	1.85
1367572--1367625	24	2.3	24	77	3	65	51	16	9	22	1.72
1368797--1368879	28	2.8	29	75	12	71	39	9	9	40	1.71
1376487--1376530	19	2.5	18	79	13	56	43	18	4	34	1.70
1387302--1387477	73	2.3	76	86	4	232	40	2	12	43	1.57
1387418--1387531	58	2.0	58	98	0	219	44	0	8	46	1.34
1387417--1387504	21	4.5	21	63	29	59	45	0	9	45	1.35
1391296--1391332	16	2.2	18	90	9	60	43	24	0	32	1.55
1391296--1391339	18	2.4	19	79	20	58	43	25	0	31	1.55
1391602--1391633	16	1.9	17	93	6	57	40	6	25	28	1.79
1391662--1391753	23	4.0	23	84	0	121	28	25	26	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391769--1391983	103	2.1	103	94	0	376	37	23	13	26	1.92
1393334--1393409	20	3.7	20	94	3	125	19	26	25	28	1.99
1398212--1398245	7	4.9	7	100	0	68	29	0	70	0	0.87
1399308--1399344	20	1.9	19	89	10	58	45	10	24	18	1.81
1402566--1402610	23	2.0	23	90	0	72	17	15	13	53	1.73
1402569--1402621	23	2.3	23	83	6	63	15	18	13	52	1.74
1403428--1403462	6	6.2	6	93	6	56	17	0	0	82	0.66
1403431--1403461	16	1.9	16	100	0	62	16	0	0	83	0.64
1403428--1403471	22	2.0	22	81	0	52	18	2	4	75	1.09
1403564--1403589	13	2.0	13	100	0	52	23	15	23	38	1.92
1404041--1406477	344	7.1	345	98	0	4663	33	16	20	30	1.94
1404041--1406477	687	3.5	689	98	0	4675	33	16	20	30	1.94
1407014--1407045	11	2.9	11	95	0	55	43	12	9	34	1.75
1406715--1407327	339	1.8	332	81	6	761	33	16	17	32	1.92
1407313--1407415	55	1.9	54	82	5	129	37	20	19	22	1.94
1407635--1407734	52	1.9	52	83	0	128	35	23	22	20	1.96
1408155--1408239	42	2.1	40	89	8	127	27	8	9	55	1.60
1408545--1408573	2	14.5	2	100	0	58	51	0	0	48	1.00
1409305--1409374	11	6.7	11	73	20	53	48	0	0	51	1.00
1420346--1420478	3	43.7	3	89	3	203	33	0	2	63	1.12
1424139--1424191	14	3.7	14	84	2	61	24	15	7	52	1.68
1427323--1427368	6	7.3	6	82	7	56	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1429621--1429885	83	3.2	83	95	1	460	27	13	21	36	1.92
1432031--1432142	54	2.1	54	93	0	188	37	16	24	21	1.94
1432502--1432578	22	3.5	22	89	0	118	33	14	12	38	1.84
1432981--1433652	113	5.9	113	91	0	997	37	15	19	27	1.92
1433949--1434070	3	40.7	3	90	3	192	33	0	2	63	1.14
1433960--1434083	24	5.2	24	78	13	73	37	0	2	59	1.16
1446194--1446228	6	5.8	6	100	0	70	17	14	68	0	1.21
1446351--1446407	26	2.1	28	83	6	73	42	0	5	52	1.24
1455501--1455562	28	2.2	28	91	2	108	43	33	9	12	1.76
1455760--1455831	37	1.9	37	88	5	110	41	30	11	16	1.83
1456581--1456658	37	2.3	35	86	10	108	14	12	35	37	1.84
1456634--1456766	73	1.9	70	92	7	225	25	14	30	30	1.95
1460098--1460133	15	2.4	15	85	0	54	27	8	38	25	1.84
1460253--1460296	13	3.4	13	80	0	52	15	2	13	68	1.31
1465050--1465076	2	13.5	2	100	0	54	48	0	0	51	1.00
1467602--1467717	3	38.7	3	92	0	196	34	2	0	62	1.09
1478159--1478525	185	2.0	182	96	2	682	34	17	19	29	1.95
1480526--1480599	1	74.0	1	72	0	58	86	0	13	0	0.57
1480526--1480599	11	7.2	10	81	18	82	86	0	13	0	0.57
1480526--1480600	17	4.4	17	85	11	100	85	0	14	0	0.60
1480523--1480598	23	3.4	22	87	10	109	85	0	14	0	0.60
1480526--1480600	35	2.2	34	88	7	107	85	0	14	0	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481640--1482012	83	4.6	83	97	2	695	28	13	22	35	1.92
1482853--1483714	114	7.6	113	95	0	1336	37	14	19	28	1.91
1483851--1483942	3	30.7	3	91	0	148	34	3	0	61	1.12
1490416--1490465	22	2.3	22	82	6	57	42	28	12	18	1.85
1494796--1495009	20	10.6	20	77	6	198	38	24	17	19	1.92
1494796--1495007	41	5.2	41	87	1	302	39	24	16	19	1.92
1495561--1495671	20	5.8	20	75	18	85	48	20	18	11	1.79
1495584--1495639	21	2.7	21	91	8	89	44	21	21	12	1.85
1495707--1495762	20	2.8	20	78	10	78	17	23	19	39	1.92
1497465--1497844	94	4.1	93	92	2	618	21	12	19	47	1.82
1497932--1498061	33	4.0	33	83	5	149	46	24	18	10	1.79
1497995--1498071	19	4.3	19	79	15	92	46	28	14	10	1.77
1498104--1498172	20	3.5	20	87	0	93	23	17	20	39	1.92
1498679--1498759	21	3.9	21	75	0	72	22	33	19	24	1.97
1498653--1498763	42	2.6	42	77	5	118	21	36	17	25	1.95
1500117--1500152	14	2.6	14	90	0	54	30	0	22	47	1.52
1500254--1500349	33	2.8	33	90	3	138	41	20	23	13	1.88
1500287--1500354	19	3.8	19	72	21	74	45	19	22	13	1.84
1500358--1500479	19	6.8	19	73	20	120	15	22	17	45	1.85
1500366--1500460	34	2.8	34	96	1	174	13	22	18	45	1.85
1500398--1500512	52	2.2	54	87	3	162	14	23	18	43	1.87
1500489--1500558	20	3.5	20	86	0	95	21	20	21	37	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1500484--1500568	20	4.2	20	80	5	84	18	20	22	38	1.93
1500752--1500794	17	2.5	17	100	0	86	44	23	6	25	1.78
1501343--1501378	14	2.6	14	90	0	54	30	0	22	47	1.52
1501480--1501575	33	2.8	33	88	3	129	41	19	23	14	1.89
1501584--1501784	20	10.8	19	75	14	125	17	21	19	40	1.91
1501590--1501723	33	3.8	33	79	11	142	15	23	17	43	1.87
1501695--1501788	20	4.7	20	88	2	136	20	21	24	34	1.97
1503901--1503949	20	2.5	20	93	0	80	16	16	24	42	1.87
1503981--1504035	21	2.6	21	97	0	101	20	20	18	41	1.90
1505372--1505426	23	2.3	25	76	20	64	45	1	1	50	1.22
1509551--1509627	39	2.0	39	94	0	136	51	18	12	16	1.75
1511695--1512242	276	2.0	275	85	4	755	30	20	20	27	1.98
1513084--1513133	24	2.1	24	85	10	68	22	0	22	56	1.43
1517838--1517878	17	2.4	17	91	0	64	34	39	9	17	1.82
1522855--1522889	15	2.4	15	95	4	63	88	0	11	0	0.51
1523504--1523546	20	2.2	20	91	0	68	32	11	20	34	1.89
1526089--1526352	79	3.3	78	85	3	341	23	18	25	32	1.97
1529739--1529773	13	2.7	13	91	8	54	31	5	22	40	1.78
1529911--1530299	185	2.1	184	93	2	658	46	8	3	42	1.49
1532457--1532554	2	55.0	2	72	22	58	58	0	0	41	0.98
1532448--1532557	45	2.5	43	89	8	161	57	0	0	42	0.98
1536041--1536071	6	5.2	6	92	0	53	0	19	45	35	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536189--1536257	21	3.3	21	89	0	111	28	28	20	21	1.98
1536164--1536263	42	2.4	43	86	6	134	31	25	21	23	1.98
1536298--1536437	21	6.7	21	86	4	194	22	20	26	30	1.98
1536301--1536417	62	1.9	62	94	0	207	22	20	24	32	1.98
1541589--1541619	2	16.0	2	93	6	55	51	0	0	48	1.00
1542156--1542208	21	2.5	21	84	6	63	58	0	0	41	0.98
1547254--1547456	30	6.8	30	83	1	203	28	24	30	16	1.97
1547287--1547473	90	2.1	90	83	4	234	28	25	30	14	1.95
1550099--1550126	2	14.0	2	100	0	56	50	0	0	50	1.00
1555779--1555855	27	2.9	27	94	0	127	31	22	27	19	1.98

Tables:   1   2   3   4   5   6   7   8   9