genome.fa.s402.2.7.7.80.10.50.1000.6.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: VEPZ01000402.1 Hibiscus syriacus cultivar Beakdansim tig00000738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1701760

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 816 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)
1233921--1234085	36	4.6	34	71	21	99	73	1	16	7	1.12
1235371--1235442	37	2.0	36	94	2	126	36	20	22	20	1.96
1235457--1235765	55	5.7	55	82	10	348	27	16	25	30	1.97
1235457--1235765	111	2.8	110	84	6	398	27	16	25	30	1.97
1235468--1235790	106	3.0	106	79	8	332	27	15	24	32	1.95
1245529--1245587	3	19.7	3	86	6	84	64	0	0	35	0.94
1245529--1245596	24	2.8	24	88	4	91	64	1	0	33	1.02
1245529--1245594	21	3.0	22	84	10	82	63	1	0	34	1.04
1246335--1246362	14	2.0	14	100	0	56	21	21	14	42	1.88
1248684--1248783	35	2.9	34	91	4	155	21	28	21	30	1.98
1248783--1248843	20	3.0	20	88	4	88	13	29	0	57	1.36
1250222--1250248	14	1.9	14	100	0	54	33	22	22	22	1.97
1251471--1251535	34	1.9	34	100	0	130	24	7	9	58	1.55
1253530--1253594	23	2.8	23	85	0	94	18	26	24	30	1.98
1255384--1255449	23	2.9	22	75	20	64	51	1	4	42	1.31
1255586--1255648	23	2.8	23	85	4	76	49	3	4	42	1.39
1255634--1255682	19	2.5	21	83	12	68	53	0	2	44	1.12
1274393--1274436	21	2.1	21	87	8	63	31	34	11	22	1.90
1289377--1289732	170	2.1	173	82	6	429	39	17	12	30	1.87
1289721--1289769	21	2.3	21	96	3	89	32	28	18	20	1.96
1297504--1297602	21	4.8	21	75	6	85	37	22	18	22	1.94
1297569--1297818	20	12.5	20	84	3	261	37	24	18	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297901--1297970	22	3.3	22	86	4	99	20	40	15	24	1.91
1298523--1298569	24	2.0	24	87	8	69	25	14	21	38	1.92
1298744--1298768	12	2.1	12	100	0	50	72	0	28	0	0.86
1301105--1301221	19	6.4	19	87	10	181	14	22	17	46	1.84
1301124--1301221	33	2.8	35	86	11	146	15	21	17	45	1.84
1301088--1301203	53	2.2	53	98	1	225	13	23	18	44	1.85
1303288--1303353	19	3.4	20	87	6	91	45	27	16	10	1.80
1303325--1303417	33	2.8	33	91	0	159	47	20	20	11	1.81
1303358--1303422	19	3.7	19	76	19	68	46	18	21	13	1.84
1303344--1303400	14	3.7	14	72	20	51	45	21	21	12	1.83
1303418--1303546	19	7.3	19	73	17	116	9	17	27	45	1.78
1303418--1303509	33	2.8	33	90	3	141	8	18	27	45	1.78
1303590--1304062	93	5.1	93	98	0	912	45	18	12	22	1.83
1303590--1304062	185	2.5	186	98	0	912	45	18	12	22	1.83
1305766--1305855	14	5.7	14	74	23	81	41	24	25	8	1.84
1305758--1305872	33	3.5	33	95	0	203	44	21	24	9	1.82
1305765--1305877	19	6.8	18	72	23	88	42	23	24	9	1.84
1305889--1305945	14	3.7	14	75	20	60	8	24	22	43	1.81
1305873--1305953	33	2.5	33	93	0	135	8	22	23	45	1.79
1305930--1306005	21	3.7	21	85	3	109	11	25	18	44	1.83
1305929--1306006	41	1.9	41	94	0	138	12	25	17	43	1.85
1306085--1306155	33	2.2	33	89	0	106	47	16	23	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306337--1306391	22	2.5	22	81	0	74	20	16	40	23	1.91
1306514--1306595	40	2.1	40	81	6	96	23	15	23	37	1.93
1306537--1306729	20	9.6	20	83	3	219	19	20	25	35	1.96
1306716--1306798	21	4.0	21	73	6	78	25	16	24	33	1.96
1306696--1306794	42	2.4	43	77	11	100	21	18	23	37	1.94
1309009--1309089	19	4.2	20	69	15	64	59	1	1	38	1.13
1310312--1310396	30	2.9	29	79	11	84	67	5	0	27	1.14
1312455--1312567	59	1.9	60	81	5	140	37	19	17	25	1.94
1312841--1312869	4	7.2	4	100	0	58	24	0	0	75	0.80
1314462--1314639	89	2.0	89	82	6	218	46	7	12	33	1.69
1321967--1322004	19	2.0	20	84	5	51	42	0	5	52	1.24
1328081--1328126	14	3.1	14	76	11	56	15	13	21	50	1.78
1340157--1340246	4	22.5	4	83	0	72	40	22	10	27	1.86
1348156--1348181	13	2.0	13	100	0	52	46	0	0	53	1.00
1349280--1349322	21	2.0	21	82	8	52	48	4	9	37	1.56
1349471--1349525	3	19.3	3	78	10	62	29	0	3	67	1.08
1349472--1349530	28	2.1	28	100	0	118	28	0	3	67	1.06
1362648--1362692	19	2.4	18	75	10	54	42	20	8	28	1.82
1365583--1365629	23	2.1	21	84	7	58	27	2	8	61	1.36
1368543--1368599	23	2.5	23	85	0	69	61	10	12	15	1.57
1368768--1368874	14	7.6	14	80	0	124	56	14	14	14	1.69
1368768--1368874	28	3.8	28	87	0	160	56	14	14	14	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1368764--1368874	42	2.6	42	84	0	141	56	14	13	15	1.67
1371987--1372011	10	2.5	10	100	0	50	16	12	28	44	1.83
1382603--1382653	25	2.0	25	100	0	102	41	19	19	19	1.91
1398422--1398490	36	1.9	36	82	5	86	37	2	1	57	1.22
1399778--1399822	19	2.2	21	88	7	67	26	2	0	71	0.98
1404638--1404698	19	3.1	19	63	9	50	47	1	3	47	1.28
1404628--1404690	21	3.1	21	65	17	60	47	1	4	46	1.33
1404628--1404709	40	2.0	40	92	0	137	50	2	3	43	1.33
1404768--1404795	2	14.0	2	100	0	56	50	0	0	50	1.00
1407272--1407303	2	16.0	2	93	0	55	53	0	0	46	1.00
1408312--1408372	19	3.1	19	63	9	50	47	1	3	47	1.28
1408302--1408364	21	3.1	21	65	17	60	47	1	4	46	1.33
1408302--1408383	40	2.0	40	92	0	137	50	2	3	43	1.33
1421814--1421859	18	2.6	18	85	0	65	39	10	26	23	1.88
1424639--1424676	2	19.0	2	94	0	67	52	0	0	47	1.00
1425686--1425746	19	3.1	19	63	9	50	47	1	3	47	1.28
1425676--1425738	21	3.1	21	65	17	60	47	1	4	46	1.33
1425676--1425757	40	2.0	40	92	0	137	50	2	3	43	1.33
1427779--1427804	3	8.7	3	100	0	52	0	0	30	69	0.89
1428696--1428732	2	19.0	2	94	5	67	48	0	0	51	1.00
1439943--1439988	18	2.6	18	85	0	65	39	10	26	23	1.88
1441969--1441994	9	2.9	9	100	0	52	53	11	11	23	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443573--1443616	2	22.0	2	95	0	79	52	0	0	47	1.00
1444583--1444634	21	2.6	21	87	6	72	28	3	0	67	1.08
1448838--1448882	24	1.9	24	86	4	65	33	2	8	55	1.43
1454956--1455129	87	2.0	86	93	1	294	39	12	20	27	1.89
1458660--1458724	3	20.7	3	87	9	94	66	0	1	32	1.01
1459005--1459251	40	5.8	40	74	20	173	20	18	35	25	1.95
1458998--1459262	134	2.0	134	93	1	451	20	18	35	26	1.95
1459270--1459366	28	3.4	28	81	12	99	44	13	17	24	1.85
1459368--1459549	66	2.8	64	76	8	179	37	17	20	24	1.93
1459891--1459975	31	2.7	31	82	7	93	38	15	17	28	1.90
1459825--1460030	98	2.1	96	78	9	204	40	13	17	28	1.87
1460421--1460483	29	2.1	30	91	2	101	41	14	7	36	1.75
1460471--1460575	52	2.0	53	96	1	194	37	18	13	31	1.89
1460569--1460681	27	4.0	29	80	9	92	44	14	9	31	1.77
1460596--1460690	27	3.4	27	85	7	129	44	16	10	28	1.81
1460934--1461053	37	3.4	34	73	11	98	36	12	20	30	1.89
1461099--1461398	156	1.9	156	84	7	403	40	10	17	32	1.84
1462963--1462998	12	2.9	12	87	4	54	5	11	11	72	1.28
1462960--1463020	25	2.5	24	76	10	61	3	19	8	68	1.29
1469798--1469865	6	10.3	7	83	10	58	64	0	2	32	1.08
1469795--1469835	3	13.7	3	100	0	82	68	0	0	31	0.90
1474345--1474369	3	8.3	3	100	0	50	68	32	0	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479848--1479894	24	2.0	24	86	0	67	31	4	14	48	1.63
1484421--1484451	2	15.0	2	93	6	53	48	3	0	48	1.17
1498784--1498813	16	1.9	15	93	6	51	40	20	20	20	1.92
1500062--1500092	15	2.1	15	93	0	53	35	32	19	12	1.90
1502628--1502694	29	2.4	28	82	10	82	23	8	20	46	1.79
1504688--1504724	15	2.5	15	95	0	65	8	70	16	5	1.30
1507628--1507669	21	2.0	21	100	0	84	33	14	23	28	1.94
1507673--1507718	6	8.0	6	92	4	69	19	63	17	0	1.32
1508220--1508267	6	8.5	6	97	2	75	0	16	54	29	1.43
1508340--1508395	21	2.9	19	71	7	51	35	19	17	26	1.94

Tables:   1   2   3   4   5   6   7