genome.fa.s9000.2.7.7.80.10.50.1000.7.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: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1003 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)
1248997--1249036	16	2.5	15	84	8	53	55	0	0	45	0.99
1251719--1251763	21	2.1	21	87	0	63	28	15	6	48	1.70
1253881--1253926	18	2.4	20	75	7	51	60	4	0	34	1.16
1254029--1254074	19	2.4	19	96	0	83	58	8	6	26	1.52
1255941--1255974	2	17.0	2	100	0	68	50	0	0	50	1.00
1268129--1268283	4	38.8	4	92	0	229	50	5	24	20	1.68
1268128--1268311	12	15.0	12	88	4	197	49	8	25	17	1.74
1270104--1270136	16	2.1	16	94	0	57	54	3	6	36	1.41
1270287--1270400	60	1.9	60	87	3	167	35	19	8	36	1.83
1273426--1273462	2	19.0	2	94	5	67	51	0	0	48	1.00
1273495--1273560	24	2.8	24	93	2	107	33	3	13	50	1.57
1273551--1273615	20	3.3	20	78	6	62	30	1	18	49	1.57
1274485--1274516	16	2.0	16	93	0	55	46	6	15	31	1.71
1274568--1274601	16	2.1	16	88	0	50	38	14	20	26	1.91
1287130--1287160	12	2.5	13	89	10	55	48	6	9	35	1.62
1299440--1299507	23	3.0	23	80	0	73	17	20	26	35	1.95
1300501--1300540	20	2.0	21	85	5	55	25	17	10	47	1.78
1312051--1312130	22	3.7	21	73	18	67	23	30	26	20	1.98
1312062--1312110	23	2.2	22	85	10	64	20	34	24	20	1.96
1314406--1314436	15	2.1	15	100	0	62	38	0	38	22	1.54
1316772--1316818	23	2.0	24	91	4	78	38	8	4	48	1.53
1317146--1317245	50	2.0	50	100	0	200	20	22	12	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322560--1322789	116	1.9	120	86	6	326	37	15	15	30	1.89
1327965--1327996	2	16.0	2	100	0	64	0	50	0	50	1.00
1328874--1329230	179	2.0	178	95	1	644	31	22	3	42	1.72
1329207--1329258	9	6.1	9	76	13	56	32	1	1	63	1.16
1329206--1329255	17	3.0	17	91	2	75	34	2	4	60	1.27
1329215--1329260	16	2.9	16	87	6	58	30	2	2	65	1.16
1334928--1335048	55	2.2	55	89	0	179	44	12	21	21	1.85
1335401--1335437	6	6.2	6	87	12	58	18	16	16	48	1.81
1335401--1335437	13	3.1	12	88	11	58	18	16	16	48	1.81
1338683--1338944	125	2.1	125	87	2	366	32	17	25	24	1.97
1340596--1340702	55	2.0	54	88	1	160	34	18	22	24	1.96
1340589--1340708	54	2.2	53	85	4	168	34	17	24	24	1.96
1340697--1341340	55	11.8	55	87	1	893	31	14	24	29	1.95
1341304--1341531	54	4.2	54	88	1	332	35	17	23	23	1.95
1341740--1341768	14	2.1	14	100	0	58	37	0	0	62	0.96
1345415--1345440	3	8.7	3	100	0	52	34	30	34	0	1.58
1350203--1350250	23	2.1	23	88	0	69	35	12	18	33	1.89
1350725--1350797	23	3.2	23	88	0	101	39	19	5	35	1.75
1351161--1351233	23	3.2	23	90	0	110	39	20	4	35	1.72
1350624--1351493	436	2.0	435	96	0	1598	39	10	7	42	1.68
1354023--1354966	183	5.2	183	96	0	1726	33	16	14	35	1.89
1355982--1356086	3	35.0	3	78	0	102	22	33	6	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355982--1356090	12	9.1	12	88	0	119	22	33	7	36	1.82
1355986--1356103	6	19.7	6	82	0	101	21	33	7	38	1.82
1357597--1358361	200	3.8	200	94	0	1298	30	18	14	36	1.91
1358474--1358521	19	2.6	19	93	3	80	54	10	2	33	1.46
1360388--1360452	21	3.1	21	88	0	94	18	29	10	41	1.84
1362800--1362842	19	2.3	18	81	14	52	16	11	13	58	1.64
1362594--1363054	175	2.6	177	84	5	567	27	16	14	42	1.86
1363205--1363229	11	2.3	11	100	0	50	32	24	12	32	1.91
1371776--1371808	11	3.0	11	100	0	66	27	0	0	72	0.85
1371961--1372005	23	2.0	23	100	0	90	53	17	8	20	1.70
1372085--1372134	22	2.4	21	83	6	66	50	8	20	22	1.74
1374010--1374089	32	2.5	32	95	0	133	32	22	10	35	1.87
1375244--1375288	10	4.1	10	79	20	54	55	17	15	11	1.68
1375541--1375606	24	2.7	24	83	4	87	53	15	15	16	1.74
1375541--1375570	14	2.1	14	100	0	60	53	16	16	13	1.73
1376896--1376926	5	6.2	5	92	0	53	3	19	54	22	1.58
1376916--1377503	270	2.3	254	85	6	754	26	12	19	40	1.88
1377791--1377911	44	2.8	44	88	0	188	41	19	8	31	1.80
1381584--1381645	26	2.3	27	81	10	65	48	1	11	38	1.49
1381788--1381823	16	2.2	17	90	5	56	50	2	0	47	1.15
1381945--1381986	13	3.2	13	100	0	84	33	14	7	45	1.72
1385725--1385774	20	2.5	20	87	6	66	28	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385812--1385890	19	4.1	19	79	6	86	35	15	21	27	1.93
1390930--1390978	19	2.5	20	76	3	55	26	16	22	34	1.95
1390998--1391056	21	3.0	20	83	14	77	38	15	15	30	1.88
1394974--1395045	32	2.2	32	90	0	117	30	12	20	36	1.90
1396592--1397005	81	5.1	81	90	2	629	29	22	11	36	1.89
1396592--1397005	160	2.6	162	91	2	638	29	22	11	36	1.89
1397434--1397616	95	1.9	95	88	0	276	27	22	13	37	1.91
1398305--1398464	64	2.5	64	91	4	252	30	23	18	27	1.97
1398436--1398484	19	2.6	19	87	9	66	24	28	18	28	1.98
1398305--1398484	64	2.8	63	86	8	240	29	23	18	28	1.98
1406213--1406255	21	2.0	22	86	4	61	11	0	25	62	1.29
1406545--1406575	15	2.1	15	100	0	62	32	0	41	25	1.56
1406908--1406956	19	2.5	19	90	9	73	30	32	16	20	1.94
1406923--1407064	63	2.2	64	86	3	198	29	24	18	27	1.98
1411799--1411846	23	2.1	23	96	0	87	39	14	8	37	1.76
1412025--1412107	41	2.1	39	84	6	105	36	4	6	53	1.47
1413673--1413723	20	2.5	20	100	0	102	35	21	15	27	1.94
1413758--1413821	21	3.0	21	84	10	78	31	26	7	34	1.85
1413789--1413989	98	2.1	98	87	1	287	41	19	13	25	1.88
1415092--1415675	198	3.0	192	80	8	620	34	10	10	45	1.72
1419262--1419366	17	6.2	17	71	4	68	38	7	15	39	1.76
1419306--1419380	34	2.2	35	80	7	91	44	10	14	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422799--1422886	17	5.2	17	71	0	68	36	6	18	38	1.77
1422833--1422899	34	2.0	34	90	0	107	43	5	16	34	1.72
1422843--1422924	34	2.4	34	85	0	101	41	12	15	30	1.84
1422877--1422951	17	4.4	17	75	9	73	40	16	14	29	1.88
1422877--1422960	17	4.9	18	75	5	61	38	16	14	30	1.89
1439475--1439527	22	2.5	20	84	6	61	35	15	18	30	1.92
1439328--1439527	94	2.1	95	78	14	218	37	12	22	28	1.90
1439856--1440142	54	5.4	54	86	2	391	33	21	16	28	1.95
1439856--1440189	107	3.1	107	85	1	411	33	20	16	29	1.95
1446827--1447091	54	4.9	54	83	2	291	31	20	17	30	1.96
1448433--1448531	30	3.2	30	81	2	108	48	11	3	37	1.54
1449873--1450205	37	9.1	37	79	9	260	44	4	7	44	1.51
1449953--1449982	2	15.5	2	93	6	53	53	0	0	46	1.00
1449967--1450205	38	6.9	35	78	19	252	44	4	7	43	1.54
1449996--1450052	26	2.3	24	88	11	89	43	3	8	43	1.52
1453031--1453071	16	2.6	16	84	0	55	34	26	21	17	1.95
1454524--1454594	36	2.0	36	91	0	115	16	12	11	59	1.61
1455093--1455291	99	2.0	98	89	2	301	34	15	19	31	1.93
1457162--1457379	43	5.1	43	92	0	303	26	22	20	30	1.98
1457194--1457412	43	5.1	43	88	2	192	26	21	20	31	1.98
1457162--1457412	86	2.9	86	83	4	260	27	21	20	31	1.98
1457158--1457429	129	2.1	129	78	4	291	29	21	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1457576--1457634	21	2.8	21	84	0	73	55	20	5	18	1.61
1461719--1462003	81	3.5	82	75	11	235	32	17	19	31	1.95
1461751--1462111	41	8.9	41	75	9	258	32	19	18	29	1.96
1462342--1463000	85	7.8	85	87	1	881	35	18	18	27	1.95
1463698--1463960	37	7.4	33	73	21	169	46	5	7	40	1.55
1463803--1463885	38	2.2	37	82	8	96	45	8	7	38	1.62
1463881--1463982	35	3.0	34	85	4	125	48	3	3	44	1.40
1463875--1463960	35	2.4	36	90	5	140	48	4	4	41	1.44
1464013--1464083	13	5.3	13	79	11	63	19	4	0	76	0.96
1464024--1464082	17	3.5	17	79	13	68	18	5	0	76	0.97

Tables:   1   2   3   4   5   6   7   8   9