genome.fa.s2660.2.7.7.80.10.50.1000.6.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: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2211860

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1072 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)
1258415--1258466	27	1.9	27	84	0	68	44	9	19	26	1.81
1275406--1275452	14	3.6	14	73	26	57	34	29	17	19	1.94
1275410--1275463	25	2.2	25	100	0	108	37	29	14	18	1.91
1280666--1280697	13	2.6	12	90	9	55	62	0	0	37	0.95
1280668--1280695	13	2.2	13	100	0	56	64	0	0	35	0.94
1282740--1282828	27	3.2	26	70	17	72	46	3	1	49	1.26
1283933--1283979	22	2.1	23	88	4	69	44	2	0	53	1.12
1284067--1284132	27	2.5	26	82	4	80	46	1	0	51	1.10
1284096--1284134	17	2.3	17	86	0	51	41	0	0	58	0.98
1284113--1284174	22	2.7	24	80	12	67	51	1	0	46	1.10
1284300--1284351	25	2.2	25	83	10	65	48	1	1	48	1.24
1284311--1284365	25	2.2	26	83	9	78	45	0	3	50	1.19
1293734--1293793	31	1.9	31	89	0	93	35	6	16	41	1.75
1298088--1298123	18	2.0	18	100	0	72	27	5	16	50	1.68
1299077--1299106	15	1.9	16	93	6	53	36	0	0	63	0.95
1300233--1300335	47	2.2	47	94	1	179	38	29	17	14	1.89
1300794--1300922	67	1.9	67	98	0	249	35	13	4	45	1.65
1304232--1304269	12	3.2	12	92	0	67	7	15	50	26	1.72
1304232--1304286	24	2.3	24	90	0	83	12	14	47	25	1.80
1316992--1317025	16	2.1	17	88	5	52	64	0	0	35	0.94
1325577--1325610	16	2.1	16	94	0	59	32	20	8	38	1.84
1327441--1327497	14	4.1	14	93	0	96	14	14	15	56	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327870--1327902	16	2.1	16	100	0	66	12	12	18	57	1.64
1330861--1330906	2	23.0	2	100	0	92	50	0	0	50	1.00
1332265--1332309	2	22.5	2	100	0	90	51	0	0	48	1.00
1332495--1332590	26	3.6	27	78	16	85	40	2	3	54	1.28
1332517--1332739	30	7.7	29	69	23	107	36	5	2	55	1.37
1343540--1343834	157	1.9	157	100	0	590	39	13	11	35	1.81
1354812--1355071	131	2.0	131	98	0	502	33	14	15	36	1.88
1358872--1358906	18	1.9	18	88	0	52	60	0	0	40	0.97
1358870--1358982	50	2.2	52	81	7	126	49	9	6	34	1.61
1361524--1361554	2	15.5	2	93	0	53	48	0	0	51	1.00
1362765--1362845	37	2.2	37	78	17	87	53	2	1	43	1.22
1364138--1364202	26	2.4	29	75	17	68	49	4	21	24	1.68
1366572--1366600	7	4.3	7	91	8	51	72	0	27	0	0.85
1366572--1366600	13	2.1	14	93	6	51	72	0	27	0	0.85
1368276--1368329	21	2.6	21	90	0	81	18	24	29	27	1.98
1368347--1368546	42	4.8	41	92	0	292	23	19	21	37	1.95
1368321--1368536	21	10.3	21	71	15	160	22	18	20	38	1.94
1368300--1368536	63	3.8	63	73	14	236	21	18	21	37	1.94
1368281--1368546	84	3.2	82	86	4	329	22	19	21	36	1.95
1368256--1368546	126	2.3	124	80	8	324	23	19	20	36	1.95
1368481--1368547	19	3.3	19	67	15	53	28	20	17	32	1.96
1369191--1369285	42	2.3	42	98	0	181	35	23	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369188--1369312	21	6.0	21	75	12	105	34	22	20	23	1.97
1369191--1369312	42	2.9	41	89	4	138	35	22	19	22	1.96
1369369--1369443	21	3.6	21	92	0	123	28	28	21	22	1.99
1369452--1369525	21	3.5	21	92	0	121	21	22	25	29	1.99
1370699--1370723	2	12.5	2	100	0	50	52	0	0	48	1.00
1371131--1371194	24	2.7	24	97	0	119	37	35	7	18	1.80
1380724--1380783	25	2.4	25	80	8	68	51	0	1	46	1.10
1381329--1381355	3	9.0	3	100	0	54	66	0	0	33	0.92
1387270--1387350	21	4.0	21	75	10	87	22	17	20	39	1.92
1387546--1387661	22	5.4	22	70	10	96	37	24	18	19	1.93
1387546--1387682	44	3.2	43	83	7	172	36	24	17	21	1.94
1396364--1396403	16	2.5	15	80	11	53	22	27	15	35	1.94
1398066--1398227	15	9.8	15	72	22	103	53	11	34	0	1.42
1398072--1398271	18	11.6	18	79	12	170	51	12	35	1	1.46
1398087--1398261	51	3.4	51	79	7	190	51	12	35	1	1.46
1405911--1405943	2	16.5	2	100	0	66	51	0	0	48	1.00
1408210--1408291	15	5.5	15	88	2	121	37	7	19	35	1.80
1408210--1408291	30	2.8	30	94	1	139	37	7	19	35	1.80
1408205--1408291	45	2.0	44	93	2	147	40	6	19	33	1.78
1408274--1408323	20	2.5	20	100	0	100	40	10	16	34	1.81
1408483--1408559	28	2.7	28	80	13	86	55	1	1	41	1.16
1408486--1408579	28	3.4	28	77	15	81	53	2	1	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408524--1408577	24	2.3	24	75	9	58	55	1	0	42	1.10
1408486--1408580	26	3.5	26	76	12	68	53	2	1	43	1.19
1408821--1408940	42	2.9	42	98	0	231	44	19	20	15	1.87
1409466--1409496	2	15.5	2	100	0	62	0	51	0	48	1.00
1417410--1417470	18	3.4	18	77	6	70	13	34	9	42	1.77
1419416--1419491	35	2.1	37	87	7	111	32	5	14	47	1.67
1419416--1419491	18	4.2	18	88	5	109	32	5	14	47	1.67
1419418--1419493	17	4.3	17	78	15	75	32	5	15	46	1.69
1420408--1420632	37	6.1	36	78	9	197	44	3	7	44	1.49
1420480--1420527	25	1.9	25	91	8	80	45	2	8	43	1.45
1420392--1420632	111	2.2	110	80	9	256	44	3	7	44	1.48
1420650--1420725	3	25.3	3	77	15	77	31	1	1	65	1.09
1420655--1420732	37	2.1	37	83	9	97	29	2	1	66	1.13
1420650--1420741	7	13.1	7	74	21	70	30	2	1	66	1.11
1422171--1422196	3	8.7	3	100	0	52	30	0	0	69	0.89
1422411--1422440	13	2.3	13	100	0	60	33	0	0	66	0.92
1426219--1427340	84	13.7	82	77	10	924	29	25	21	23	1.99
1426219--1427340	165	6.9	165	82	7	1182	29	25	21	23	1.99
1426725--1427321	249	2.4	249	92	1	962	29	26	21	23	1.99
1427984--1428202	37	6.1	36	76	12	184	44	3	7	43	1.50
1428209--1428252	2	24.0	2	82	17	60	45	0	0	54	0.99
1428234--1428309	3	25.3	3	77	15	77	31	1	1	65	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428239--1428316	37	2.2	34	82	11	86	29	2	1	66	1.13
1428234--1428325	7	13.1	7	72	23	70	30	2	1	66	1.11
1429842--1429871	4	7.5	4	100	0	60	23	0	0	76	0.78
1429999--1430041	6	6.6	7	87	12	65	34	0	0	65	0.93
1429999--1430041	13	3.3	13	100	0	86	34	0	0	65	0.93
1431407--1431683	139	2.0	138	97	0	527	26	18	21	33	1.97
1437175--1437222	3	16.0	3	95	0	87	2	31	0	66	1.03
1445833--1446021	103	1.8	103	86	2	272	21	17	30	31	1.96
1446034--1447137	558	2.0	557	90	2	1734	37	14	8	40	1.76
1447079--1447122	19	2.5	17	80	16	54	20	18	13	47	1.82
1447092--1447129	19	2.0	19	89	0	58	18	23	15	42	1.89
1449862--1449928	33	2.1	33	81	13	77	47	0	1	50	1.10
1453644--1453689	22	2.0	23	84	12	60	36	0	2	60	1.09
1456555--1456583	12	2.3	13	94	5	51	82	6	10	0	0.83
1461629--1462072	223	2.0	221	97	2	838	28	15	16	39	1.89
1470099--1470136	19	2.0	20	89	5	60	52	5	2	39	1.38
1470560--1470589	14	2.2	14	94	5	53	43	0	0	56	0.99
1476405--1476436	2	17.0	2	87	12	50	46	0	0	53	1.00
1476404--1476436	13	2.5	13	100	0	66	45	0	0	54	0.99
1476405--1476436	9	3.4	10	87	12	50	46	0	0	53	1.00
1476917--1476949	2	17.0	2	93	6	59	48	0	0	51	1.00
1476270--1477299	517	2.0	509	93	6	1767	39	10	10	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478782--1478863	29	2.8	29	83	8	112	45	7	7	40	1.60
1486078--1486117	20	2.0	20	95	0	71	27	25	20	27	1.99
1488121--1488150	12	2.5	12	94	0	51	36	30	23	10	1.87
1489780--1490062	30	9.4	30	99	0	557	32	23	19	23	1.97
1490048--1490140	31	3.0	31	79	3	98	34	21	17	26	1.95
1490313--1490337	4	6.2	4	100	0	50	48	24	0	28	1.52
1490497--1490534	2	19.0	2	100	0	76	50	0	0	50	1.00
1491013--1491055	22	2.0	22	85	0	59	9	39	30	20	1.84
1494402--1494709	30	10.2	30	97	0	553	33	23	19	23	1.97
1494936--1494960	4	6.2	4	100	0	50	48	24	0	28	1.52

Tables:   1   2   3   4   5   6   7   8   9