genome.fa.s7950.2.7.7.80.10.50.1000.7.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: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1941792

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

This is table  7  of  10  ( 1138 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)
1260261--1260310	8	6.2	8	81	9	57	38	32	2	28	1.68
1260266--1260310	16	2.8	17	86	10	67	42	28	2	26	1.67
1266274--1266320	23	2.0	24	87	4	69	29	4	2	63	1.25
1266148--1266411	131	2.0	132	97	0	503	39	2	3	54	1.31
1271939--1272037	43	2.3	44	85	7	139	42	10	20	27	1.84
1280618--1280665	19	2.5	20	82	3	62	52	6	12	29	1.63
1281940--1281983	20	2.2	20	83	0	52	34	0	63	2	1.07
1290878--1290918	20	2.0	20	95	0	73	39	0	2	58	1.11
1291468--1291504	20	1.9	19	89	10	58	45	10	24	18	1.81
1291653--1291685	15	2.2	15	94	0	57	54	0	0	45	0.99
1291660--1291690	15	2.1	15	93	0	53	58	0	0	41	0.98
1297521--1297588	31	2.3	30	84	5	84	48	27	7	16	1.72
1299219--1299262	18	2.5	18	88	3	63	38	18	2	40	1.63
1299946--1299993	23	2.1	21	81	11	51	20	4	2	72	1.11
1299957--1300002	23	2.0	24	82	4	58	21	2	4	71	1.14
1300379--1300429	25	2.0	25	96	3	75	60	7	0	31	1.25
1300299--1300550	139	1.8	137	91	3	416	48	8	7	36	1.61
1301364--1301395	15	2.1	15	94	0	55	43	9	6	40	1.62
1302654--1302701	17	2.8	16	78	12	51	79	0	6	14	0.92
1302758--1302802	24	1.9	23	86	13	65	75	0	4	20	0.97
1302888--1302913	3	8.7	3	100	0	52	69	0	0	30	0.89
1303116--1303141	9	2.9	9	100	0	52	80	7	0	11	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303191--1303283	19	5.4	19	80	17	107	60	4	7	27	1.43
1303207--1303305	47	2.1	47	87	7	139	64	3	8	24	1.35
1303298--1303341	16	2.7	17	86	10	65	72	4	2	20	1.13
1306441--1306566	20	6.3	20	83	3	137	30	23	19	26	1.98
1307160--1307273	20	5.8	19	75	9	59	17	15	21	45	1.85
1307216--1307263	20	2.4	20	89	0	69	12	12	25	50	1.75
1307228--1307266	20	2.0	20	100	0	78	10	10	20	58	1.59
1307230--1307273	20	2.2	20	91	0	70	11	11	20	56	1.64
1308828--1308876	21	2.3	21	92	0	80	22	20	32	24	1.98
1308836--1308878	21	2.0	21	100	0	86	23	20	27	27	1.99
1308961--1309010	18	2.8	18	100	0	100	32	20	6	42	1.76
1309158--1309205	20	2.4	20	85	0	60	31	25	20	22	1.98
1309250--1309303	20	2.7	20	91	0	81	20	20	24	35	1.96
1309268--1309314	20	2.5	19	86	6	60	17	19	25	38	1.92
1309801--1309905	21	5.0	21	74	3	95	20	37	19	22	1.95
1309798--1309908	42	2.6	42	78	5	118	20	37	18	22	1.94
1311301--1311362	14	4.3	14	77	6	61	38	0	14	46	1.45
1311461--1311514	20	2.7	20	85	5	74	42	27	18	11	1.84
1311557--1311821	20	13.9	20	77	10	250	26	17	22	33	1.96
1311508--1311821	94	3.4	94	86	3	400	26	18	21	33	1.96
1311597--1311699	54	1.9	54	86	4	145	26	19	21	33	1.97
1311671--1311813	74	1.9	74	91	2	234	25	15	25	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311792--1312052	129	2.0	129	94	0	459	41	14	13	29	1.85
1314395--1314448	24	2.2	24	93	0	90	40	20	18	20	1.91
1315262--1315369	20	5.4	20	92	0	162	25	20	25	27	1.99
1315263--1315388	40	3.2	40	87	2	164	26	20	23	29	1.99
1315263--1315429	60	2.8	59	81	4	165	27	20	24	26	1.99
1315604--1315751	40	3.7	40	77	5	147	37	2	26	34	1.68
1318578--1318610	17	2.1	17	88	11	52	24	27	15	33	1.95
1320228--1320362	71	1.9	70	84	6	182	38	8	8	44	1.66
1328395--1328438	3	15.0	3	81	13	56	31	0	0	68	0.90
1333540--1333564	11	2.3	11	100	0	50	32	8	24	36	1.84
1333651--1334123	181	2.6	182	89	0	705	42	13	16	27	1.86
1334044--1334090	20	2.4	19	79	10	58	53	8	17	21	1.70
1336297--1336361	21	3.1	21	93	0	103	41	10	30	16	1.83
1336395--1336460	33	2.0	33	90	0	105	28	0	48	22	1.51
1338252--1338300	19	2.6	19	96	0	89	32	2	10	55	1.45
1338534--1339494	200	4.8	200	95	1	1671	36	14	18	30	1.91
1338534--1339494	399	2.4	399	95	0	1712	36	14	18	30	1.91
1340985--1341042	12	4.8	12	89	0	62	37	5	32	24	1.77
1341002--1341043	3	14.0	3	89	0	66	35	2	33	28	1.70
1342251--1342821	183	3.1	183	94	1	984	35	14	16	33	1.89
1346173--1346331	87	1.8	87	94	0	282	32	16	10	40	1.82
1351212--1351298	35	2.5	34	80	12	97	54	10	8	27	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353512--1353552	18	2.3	18	91	4	66	63	2	4	29	1.28
1353594--1353624	10	3.1	10	95	0	53	35	0	32	32	1.58
1353769--1353867	51	2.0	51	84	6	130	27	25	31	16	1.96
1354306--1354954	182	3.6	181	81	4	718	42	12	16	27	1.85
1357517--1357555	18	2.2	18	100	0	78	56	0	38	5	1.22
1358984--1359033	19	2.6	19	93	0	82	30	2	10	58	1.42
1360973--1361047	29	2.6	29	77	8	80	34	20	6	38	1.78
1361043--1361110	17	3.9	17	88	1	91	13	26	44	16	1.84
1368390--1368465	29	2.6	29	79	8	91	34	23	6	35	1.81
1369248--1369813	198	2.9	198	94	1	989	37	15	16	30	1.90
1369248--1369996	394	1.9	395	83	7	995	38	14	15	31	1.88
1370290--1370340	15	3.4	15	89	10	86	19	45	0	35	1.51
1371475--1371508	6	5.7	6	89	0	50	44	2	32	20	1.67
1373006--1373831	198	4.1	201	80	5	936	38	15	14	31	1.88
1386851--1386895	23	2.0	23	90	0	72	40	20	6	33	1.78
1388542--1388583	23	1.9	22	90	9	68	76	0	9	14	1.02
1388543--1388598	21	2.6	22	81	15	64	76	1	5	16	1.05
1388536--1388635	30	3.5	29	75	15	75	74	1	6	19	1.09
1388604--1388665	3	20.7	3	76	12	56	69	1	1	27	1.07
1388604--1388665	23	2.8	23	83	7	76	69	1	1	27	1.07
1389690--1389738	20	2.5	20	96	0	89	20	63	0	16	1.31
1390587--1390636	17	3.1	16	80	8	57	76	0	2	22	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390633--1390960	37	8.9	35	78	9	221	46	5	2	45	1.41
1397523--1397578	25	2.2	25	90	0	94	17	33	7	41	1.77
1400173--1400353	60	3.1	59	78	7	181	42	6	18	33	1.75
1400595--1400659	24	2.5	27	73	19	66	52	4	0	43	1.22
1400604--1400641	11	3.3	11	89	10	58	44	2	0	52	1.14
1403937--1403970	12	2.7	13	86	4	52	41	5	8	44	1.60
1405700--1405741	14	3.1	14	83	10	52	50	2	7	40	1.43
1406210--1406319	44	2.5	44	81	7	134	30	20	22	27	1.98
1409210--1409316	46	2.3	46	84	6	137	30	20	17	30	1.96
1414713--1414779	33	2.1	32	85	2	89	26	23	17	31	1.97
1417388--1417494	46	2.3	46	85	6	146	30	21	17	29	1.96
1428726--1428759	16	2.1	16	94	0	59	47	0	5	47	1.26
1441000--1441031	15	2.2	14	94	5	55	84	3	6	6	0.86
1441080--1441120	20	2.0	20	90	0	64	53	12	12	21	1.70
1443286--1443333	24	2.0	24	95	0	87	47	20	10	20	1.79
1443316--1443392	36	2.1	36	97	0	145	32	20	11	35	1.89
1448392--1448450	21	2.8	21	89	0	91	22	10	32	35	1.87
1450242--1450403	87	1.9	87	100	0	324	37	15	15	32	1.89
1456820--1456897	21	3.5	22	72	20	63	42	0	1	56	1.07
1456832--1456871	20	2.0	21	85	14	57	42	0	0	57	0.98
1456847--1456897	16	3.2	15	76	17	50	37	0	1	60	1.08
1456881--1456940	23	2.7	22	74	25	63	36	0	5	58	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1456886--1456937	21	2.5	20	77	20	54	36	0	5	57	1.23
1457567--1458063	230	2.2	229	96	0	904	45	7	7	39	1.61
1458342--1458388	20	2.4	19	89	10	76	55	10	17	17	1.69
1458130--1458602	181	2.6	182	89	1	680	42	13	17	26	1.86
1458523--1458569	20	2.4	19	82	10	67	53	10	17	19	1.72
1458532--1458574	20	2.3	19	88	11	63	51	11	16	20	1.75
1460794--1460858	21	3.1	21	86	0	85	43	10	30	15	1.81
1460886--1460918	15	2.2	15	100	0	66	36	0	45	18	1.49
1460907--1460972	33	2.0	33	90	0	105	28	0	48	22	1.51
1462761--1462809	19	2.6	19	96	0	89	32	2	10	55	1.45

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