genome.fa.s6607.2.7.7.80.10.50.1000.6.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: VEPZ01006607.1 Hibiscus syriacus cultivar Beakdansim tig00016212_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1995858

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 925 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)
1242745--1242829	29	2.9	29	82	0	89	9	30	11	48	1.71
1245536--1245570	2	17.5	2	100	0	70	48	0	0	51	1.00
1245666--1245727	31	2.0	31	100	0	124	19	35	6	38	1.77
1253771--1253832	31	2.0	31	100	0	124	32	9	6	51	1.60
1258646--1258683	14	2.8	13	88	7	58	42	23	0	34	1.55
1261073--1261122	15	3.5	14	81	10	57	14	26	0	60	1.34
1261084--1261123	9	4.3	9	82	17	55	12	22	0	65	1.26
1261084--1261125	13	3.0	14	86	13	68	14	21	0	64	1.29
1262474--1262631	21	7.5	21	74	16	148	20	18	22	37	1.94
1262467--1262629	42	3.9	42	91	0	281	20	19	23	36	1.95
1263236--1263267	6	5.5	6	96	3	57	0	15	53	31	1.43
1263421--1263474	21	2.6	21	87	0	81	22	22	25	29	1.99
1268861--1268899	19	2.1	19	85	0	51	10	2	5	82	0.93
1279342--1279374	13	2.4	14	95	5	59	78	0	0	21	0.75
1280767--1281313	131	4.1	131	80	7	563	30	18	19	31	1.96
1281153--1281395	135	1.8	134	81	8	307	32	20	16	30	1.95
1281638--1281692	3	17.3	3	78	17	58	34	0	3	61	1.13
1288326--1288373	17	2.8	17	83	3	69	31	16	18	33	1.94
1288477--1288518	21	2.0	21	95	0	75	33	0	21	45	1.52
1288760--1288808	2	24.5	2	100	0	98	51	0	0	48	1.00
1289339--1289367	2	15.0	2	92	7	51	51	0	0	48	1.00
1290530--1290578	23	2.2	23	88	3	73	8	10	16	65	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293348--1293507	29	5.4	29	65	19	80	31	24	8	35	1.85
1293349--1293530	60	3.1	59	79	7	199	31	24	6	37	1.81
1293668--1293826	60	2.7	59	72	10	144	47	5	13	33	1.65
1298074--1298125	19	2.7	19	85	8	61	51	0	0	48	1.00
1298086--1298169	44	1.9	44	87	0	123	51	1	1	46	1.16
1301454--1301886	212	2.0	212	91	0	704	35	20	15	28	1.93
1306098--1306132	15	2.4	15	90	4	54	54	2	0	42	1.15
1307856--1308502	108	5.7	117	71	9	496	37	14	16	30	1.89
1307967--1308683	226	3.1	226	88	3	965	36	14	16	31	1.89
1308840--1308864	2	12.5	2	100	0	50	0	0	48	52	1.00
1312619--1312664	18	2.6	18	89	6	67	32	2	39	26	1.68
1313004--1313056	12	4.8	12	77	17	69	47	1	0	50	1.12
1312991--1313056	32	2.0	34	94	5	118	43	3	0	53	1.16
1315054--1315773	194	3.7	194	89	1	1061	30	15	12	42	1.83
1317402--1317434	14	2.3	15	89	5	50	72	9	3	15	1.21
1318751--1318775	2	12.5	2	100	0	50	52	0	0	48	1.00
1318773--1318851	3	26.3	3	86	0	113	60	1	2	35	1.18
1319025--1319208	84	2.2	82	83	3	217	27	16	17	38	1.91
1319191--1319279	36	2.5	36	94	0	151	19	20	11	49	1.78
1319333--1319435	38	2.6	39	86	7	127	24	21	9	44	1.82
1319174--1319548	154	2.5	147	86	7	517	28	18	12	41	1.86
1319378--1319790	222	1.9	223	86	4	591	27	18	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319378--1319790	113	3.7	112	89	3	593	27	18	14	39	1.90
1320491--1320921	115	3.8	115	96	0	738	31	20	14	33	1.92
1320876--1321177	83	3.6	83	94	0	514	38	22	12	26	1.90
1322551--1322619	14	4.7	15	79	12	72	1	17	0	81	0.77
1322537--1322621	44	2.0	43	90	2	134	1	17	0	81	0.76
1329947--1329979	16	2.1	16	94	5	59	42	6	18	33	1.75
1335408--1335476	3	23.0	3	84	0	93	59	1	2	36	1.21
1336556--1336646	2	45.5	2	100	0	182	49	0	0	50	1.00
1341272--1341310	17	2.3	17	95	0	69	20	0	58	20	1.39
1345238--1345290	22	2.4	22	100	0	106	54	0	16	28	1.43
1349162--1349222	23	2.7	23	89	0	86	26	32	22	18	1.97
1361499--1361587	38	2.4	37	87	9	135	35	39	11	13	1.80
1361445--1362237	263	3.0	262	89	4	1170	36	28	11	23	1.90
1361766--1361853	38	2.3	38	84	9	126	35	37	12	14	1.84
1362021--1362107	38	2.3	38	88	7	142	40	39	10	10	1.74
1362057--1362363	167	1.9	156	86	8	427	40	29	11	18	1.85
1363079--1363229	82	1.9	81	85	1	212	31	16	15	37	1.90
1364537--1364611	24	3.1	24	84	3	89	13	9	20	57	1.63
1364536--1364591	14	4.3	14	73	17	57	10	10	23	55	1.65
1365330--1365404	10	7.7	10	69	21	61	9	12	21	57	1.62
1365336--1365400	16	4.1	16	95	0	121	7	12	23	56	1.61
1365470--1365502	16	2.1	16	100	0	66	6	12	24	57	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366217--1366252	18	2.0	18	94	0	63	41	16	8	33	1.78
1367012--1368043	515	2.0	514	89	2	1601	34	17	12	35	1.88
1372787--1372811	10	2.5	10	100	0	50	0	8	12	80	0.92
1384993--1385045	23	2.3	23	100	0	106	32	0	41	26	1.56
1390183--1390226	14	3.2	14	80	3	54	4	13	0	81	0.83
1402114--1402258	61	2.3	62	82	8	168	28	15	29	26	1.96
1404110--1406021	961	2.0	954	95	3	3497	39	15	14	31	1.87
1405059--1407982	797	3.7	796	97	1	5547	39	15	14	30	1.88
1408827--1408926	46	2.2	46	83	3	121	13	7	31	49	1.68
1408815--1408903	23	3.8	24	76	7	94	14	4	30	50	1.63
1409079--1409794	139	5.2	139	84	4	917	25	21	16	35	1.95
1409079--1409807	274	2.6	277	84	4	949	25	21	16	35	1.94
1411547--1411785	54	4.4	54	87	0	343	35	19	16	28	1.94
1412485--1412538	20	2.6	21	88	5	83	14	24	42	18	1.88
1414610--1414648	20	2.0	20	84	0	51	23	7	23	46	1.78
1414826--1414883	23	2.8	21	84	12	75	18	25	34	20	1.96
1420934--1421684	54	13.9	54	89	1	1036	34	21	16	27	1.95
1421114--1421200	27	3.2	27	66	23	74	33	18	18	29	1.95
1421494--1421579	27	3.2	27	65	23	72	32	19	18	29	1.96
1422414--1422451	18	2.1	18	90	0	58	23	18	21	36	1.95
1424577--1424646	28	2.5	28	88	2	104	24	2	30	42	1.69
1424559--1424644	28	3.0	28	81	3	100	26	2	30	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425304--1425380	21	3.8	20	81	8	93	3	22	2	71	1.15
1425304--1425389	21	4.3	19	78	8	84	3	22	2	72	1.12
1430250--1430319	35	2.0	35	94	0	122	40	10	27	22	1.86
1431194--1431236	22	2.0	22	85	0	59	4	13	34	46	1.65
1431222--1431311	12	7.6	12	69	10	60	11	3	36	48	1.55
1431228--1431287	24	2.5	24	78	13	70	11	1	35	51	1.48
1435306--1435351	22	2.1	22	87	0	65	36	4	10	47	1.58
1437654--1437744	42	2.2	42	91	0	155	23	10	13	52	1.71
1446032--1446079	20	2.4	20	96	0	87	20	20	35	22	1.96
1448505--1448532	13	2.2	13	100	0	56	35	28	7	28	1.84
1450023--1450072	20	2.5	20	81	15	59	38	12	28	22	1.89
1450544--1450650	45	2.4	44	85	1	133	32	23	6	37	1.81
1452401--1452444	23	1.9	23	85	0	61	29	20	6	43	1.78
1456278--1456357	13	5.8	15	66	20	50	51	0	0	48	1.00
1462079--1462234	20	7.8	20	75	13	142	39	21	16	22	1.92
1462046--1462234	40	4.7	40	76	13	133	38	22	15	23	1.92
1461983--1462253	100	2.7	98	78	7	287	36	22	14	25	1.93
1462079--1462234	60	2.6	60	83	9	185	39	21	16	22	1.92
1462201--1462292	19	4.7	19	78	8	78	34	20	13	31	1.91
1462449--1462486	16	2.5	15	84	12	51	28	5	0	65	1.14
1463422--1463455	3	11.3	3	100	0	68	64	0	35	0	0.94
1465074--1465236	81	2.0	81	100	0	326	30	14	24	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465600--1465635	18	2.0	18	94	0	63	55	25	2	16	1.55
1466050--1466187	63	2.2	62	86	10	192	53	16	1	28	1.52
1466085--1466142	28	2.1	28	84	12	77	56	13	0	29	1.38
1466053--1466219	63	2.6	62	81	15	182	55	15	1	26	1.50
1466196--1466306	56	2.0	54	96	3	204	47	18	9	24	1.78
1467619--1467721	21	4.9	21	72	14	79	23	18	33	24	1.96
1467619--1467717	42	2.4	42	77	6	110	23	19	33	24	1.97
1470228--1470278	22	2.3	22	86	0	75	21	13	43	21	1.87
1470388--1470590	20	10.1	20	76	7	169	19	16	21	43	1.88
1470394--1470510	61	1.9	61	87	0	171	18	15	21	44	1.86

Tables:   1   2   3   4   5   6   7   8