genome.fa.s1174.2.7.7.80.10.50.1000.7.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: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2182627

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

This is table  7  of  11  ( 1247 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)
1350492--1350781	150	1.9	151	84	6	394	51	14	13	21	1.76
1350646--1350950	122	2.4	123	85	4	387	49	13	14	22	1.77
1350918--1350978	29	2.1	29	79	14	72	50	1	13	34	1.51
1351915--1352701	395	2.0	398	90	2	1242	30	19	20	30	1.97
1351987--1352691	44	16.0	44	65	13	261	30	18	20	30	1.96
1351926--1352701	132	5.8	132	89	2	1126	30	19	20	30	1.97
1353429--1353469	22	2.0	21	85	9	57	24	24	24	26	2.00
1355047--1355113	11	5.7	11	73	18	55	5	11	1	80	0.95
1355103--1355160	23	2.5	23	78	18	66	3	24	0	72	1.00
1355066--1355131	34	1.9	34	82	11	82	6	16	0	77	0.96
1355066--1355141	11	7.0	11	83	7	75	6	15	0	77	0.96
1358718--1358750	14	2.4	14	90	10	50	63	9	15	12	1.51
1360974--1361018	4	11.2	4	95	0	81	73	0	2	24	0.95
1360846--1361149	158	1.9	155	85	5	414	50	12	13	23	1.76
1361002--1361318	130	2.4	130	91	2	512	48	11	15	24	1.78
1360846--1361149	159	1.9	159	85	5	418	50	12	13	23	1.76
1361286--1361357	29	2.5	29	86	4	92	54	2	13	29	1.54
1364285--1364417	68	2.0	67	82	7	162	58	6	12	22	1.57
1370882--1371304	207	2.0	209	95	4	764	32	16	25	24	1.96
1372606--1372658	21	2.5	21	96	0	97	32	33	11	22	1.90
1386998--1387327	168	2.0	168	93	0	570	43	14	14	26	1.85
1389088--1389124	3	12.3	3	100	0	74	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390763--1390861	28	3.5	28	69	12	76	38	4	12	45	1.60
1390824--1390923	29	3.5	28	71	15	80	36	2	13	49	1.53
1390969--1391003	15	2.4	15	90	4	54	34	0	0	65	0.93
1394804--1394920	60	2.0	60	91	0	189	29	15	21	33	1.94
1395135--1395270	59	2.3	59	85	3	166	32	18	18	30	1.95
1395754--1395894	8	16.4	9	65	19	61	49	2	1	46	1.22
1395753--1395808	17	3.4	17	80	9	80	48	3	0	48	1.19
1395737--1395815	32	2.5	32	97	0	149	49	2	0	48	1.14
1395734--1395853	26	4.7	25	70	19	88	52	2	0	44	1.20
1395820--1395881	23	2.9	22	81	11	67	56	0	3	40	1.15
1395736--1395893	21	7.1	22	74	14	105	50	1	1	46	1.20
1397686--1397718	3	11.3	3	93	6	59	33	0	0	66	0.92
1398296--1398357	33	1.9	33	90	6	101	43	17	11	27	1.83
1398945--1399003	26	2.4	24	78	13	66	28	5	5	61	1.39
1398939--1399003	25	2.6	25	86	11	89	29	4	4	61	1.36
1401612--1401685	10	7.7	9	76	16	53	64	1	2	31	1.15
1401625--1401704	22	3.6	22	76	23	80	61	3	2	32	1.27
1401613--1401712	19	5.2	18	72	23	71	62	4	2	32	1.25
1401611--1401704	9	10.1	9	77	14	59	63	3	2	30	1.21
1401700--1401757	27	2.1	28	87	9	84	46	8	0	44	1.34
1401743--1401782	20	2.0	21	90	5	64	45	7	2	45	1.45
1401832--1401876	17	2.6	18	92	3	74	46	8	0	44	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401832--1401884	17	2.9	18	81	13	65	45	11	0	43	1.40
1402158--1402311	78	1.9	77	85	7	211	25	16	21	37	1.93
1413380--1413469	20	4.3	20	70	9	56	25	22	24	27	2.00
1417280--1417319	21	1.9	21	89	0	62	30	7	7	55	1.56
1419465--1419496	12	2.7	12	100	0	64	9	12	25	53	1.68
1421034--1421063	8	3.8	8	100	0	60	90	0	10	0	0.47
1422238--1422306	17	4.1	16	71	15	50	66	1	2	28	1.14
1422241--1422368	50	2.6	49	77	16	113	60	3	1	35	1.22
1422262--1422367	12	10.0	11	74	20	68	58	3	0	36	1.23
1424002--1424059	28	2.0	30	83	16	77	32	1	10	55	1.44
1425206--1425479	137	2.0	137	100	0	548	29	6	17	45	1.73
1430918--1430964	23	2.0	24	95	4	87	21	25	23	29	1.99
1430929--1431000	37	2.0	35	86	10	101	20	23	20	34	1.96
1434431--1434455	13	1.9	13	100	0	50	24	8	8	60	1.52
1434767--1434793	3	9.0	3	100	0	54	66	0	0	33	0.92
1435184--1435310	45	2.8	45	81	8	168	40	21	18	20	1.92
1435273--1436050	38	19.9	38	80	5	752	39	17	18	24	1.92
1435182--1436050	38	21.8	42	78	8	509	39	18	18	24	1.92
1435273--1436050	80	9.9	78	77	7	731	39	17	18	24	1.92
1435276--1436050	118	6.6	116	80	7	667	39	17	18	24	1.92
1437837--1437915	31	2.6	30	80	9	83	7	20	0	72	1.09
1437824--1438101	14	19.3	15	73	16	161	4	21	0	74	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437824--1438078	20	13.5	19	68	18	99	4	21	0	73	1.00
1437864--1438064	74	2.5	79	80	9	225	3	23	0	72	1.01
1437824--1438114	21	13.8	20	72	19	122	4	21	0	73	1.01
1438019--1438123	35	3.1	34	71	23	89	4	21	0	73	1.02
1437891--1438101	36	5.3	41	75	19	123	3	22	0	73	0.97
1445682--1445720	8	4.8	8	82	17	53	74	0	0	25	0.82
1446507--1446588	31	2.6	31	77	7	94	17	26	28	28	1.97
1447654--1447691	17	2.2	17	95	0	67	44	2	0	52	1.14
1447856--1448001	60	2.4	59	80	7	161	33	21	14	30	1.93
1448793--1448840	23	2.1	23	88	0	69	35	12	18	33	1.89
1449216--1449291	21	3.5	22	78	10	75	39	21	5	34	1.76
1449698--1449820	39	3.2	39	97	0	228	17	13	20	48	1.80
1450362--1450412	25	2.0	25	92	0	84	39	19	7	33	1.81
1450679--1450730	23	2.3	22	90	6	77	44	19	1	34	1.62
1450689--1450751	23	2.7	23	90	0	90	38	17	7	36	1.79
1451109--1451160	23	2.3	22	90	6	77	44	19	1	34	1.62
1451119--1451181	23	2.7	23	90	0	90	38	17	7	36	1.79
1450444--1452986	430	5.9	431	97	1	4826	39	13	8	39	1.74
1451539--1451590	23	2.3	22	90	6	77	44	19	1	34	1.62
1451549--1451611	23	2.7	23	90	0	90	38	17	7	36	1.79
1451965--1452036	23	3.2	22	86	5	90	40	19	5	34	1.75
1451975--1452036	22	2.7	23	90	2	90	38	17	6	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450444--1452986	855	3.0	861	97	1	4824	39	13	8	39	1.74
1452182--1452247	29	2.2	29	81	7	71	42	0	4	53	1.21
1452394--1452445	23	2.3	22	90	6	77	44	19	1	34	1.62
1452404--1452466	23	2.7	23	90	0	90	38	17	7	36	1.79
1452814--1452860	20	2.3	20	85	10	60	42	23	2	31	1.66
1452819--1452888	23	3.2	22	82	10	72	40	20	7	32	1.79
1455980--1456800	181	4.6	179	88	7	1238	33	16	15	34	1.90
1455979--1456800	358	2.3	357	91	4	1293	33	16	15	35	1.90
1457987--1458053	3	22.7	3	75	3	55	23	34	7	34	1.83
1457987--1458030	18	2.5	18	92	3	72	25	34	4	36	1.76
1459593--1459768	89	2.0	87	97	2	334	30	18	15	35	1.92
1459682--1460488	191	4.2	195	89	8	1272	30	15	17	36	1.91
1459679--1460488	377	2.1	381	90	7	1295	30	15	17	36	1.91
1460605--1460650	18	2.5	17	86	13	65	58	10	2	28	1.43
1460605--1460652	19	2.6	19	93	3	80	58	10	2	29	1.43
1464711--1464751	18	2.3	18	84	15	59	19	17	12	51	1.76
1464715--1464760	19	2.4	18	80	20	58	21	17	10	50	1.77
1465732--1465840	38	2.8	37	81	5	101	42	5	14	37	1.69
1466706--1466746	3	13.7	3	100	0	82	31	0	0	68	0.90
1467669--1467702	2	17.0	2	100	0	68	50	0	0	50	1.00
1477380--1477527	74	2.0	74	100	0	296	37	16	14	31	1.89
1482524--1482564	2	20.5	2	100	0	82	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)
1483787--1483825	2	19.5	2	100	0	78	51	0	0	48	1.00
1488713--1488773	25	2.4	25	86	0	86	36	16	16	31	1.91
1489457--1489503	19	2.4	21	75	17	55	44	19	10	25	1.82
1503185--1503426	130	1.9	127	87	5	360	35	16	23	25	1.95
1504834--1504896	29	2.2	29	100	0	126	25	39	14	20	1.90
1508967--1509084	45	2.6	45	83	0	137	37	8	19	34	1.82
1509021--1509116	45	2.1	45	82	3	113	30	9	20	39	1.84
1509075--1509133	31	1.9	31	82	0	73	28	10	20	40	1.85
1509229--1509283	23	2.4	23	81	6	67	18	23	25	32	1.97
1509264--1509339	24	3.2	24	83	7	100	18	21	21	39	1.93

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