genome.fa.s686.2.7.7.80.10.50.1000.6.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: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1443669

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 696 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)
1256944--1257361	81	5.2	81	86	4	547	30	25	11	32	1.91
1256944--1257361	162	2.6	162	87	3	606	30	25	11	32	1.91
1257230--1257491	139	1.9	139	91	1	436	29	25	12	32	1.92
1257362--1257711	81	4.3	81	87	3	481	32	22	11	33	1.90
1257142--1257579	220	2.0	220	88	2	648	31	24	11	31	1.91
1257070--1257645	301	1.9	301	89	0	902	31	24	11	32	1.90
1256980--1257711	382	1.9	382	88	1	1101	31	24	11	32	1.91
1258370--1258417	19	2.5	19	77	16	53	22	31	14	31	1.94
1258407--1258445	15	2.6	15	87	0	60	30	23	15	30	1.95
1267176--1267222	21	2.1	22	84	7	60	40	10	21	27	1.86
1267234--1267274	20	2.0	20	95	0	73	31	17	29	21	1.96
1270570--1270609	20	2.0	20	85	0	53	35	7	0	57	1.27
1282964--1283035	11	6.2	12	72	23	64	30	2	34	31	1.72
1282965--1283054	36	2.5	38	89	10	122	30	4	34	31	1.77
1286648--1286691	20	2.3	20	80	7	56	0	15	6	77	0.97
1286647--1286696	27	2.0	24	88	11	73	0	14	8	78	0.97
1287061--1287165	36	2.9	36	92	1	176	30	4	34	30	1.78
1287078--1287143	13	5.5	11	72	22	53	30	3	33	33	1.73
1290973--1291004	12	2.7	12	95	0	55	9	0	40	50	1.35
1297378--1297412	2	17.5	2	100	0	70	51	0	0	48	1.00
1300289--1300344	29	1.9	29	92	0	94	64	10	5	19	1.44
1301578--1301615	19	2.0	19	100	0	76	42	21	10	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301774--1301853	32	2.5	32	81	2	81	32	15	42	10	1.79
1302012--1302036	2	12.5	2	100	0	50	52	0	0	48	1.00
1302499--1302527	2	15.0	2	92	7	51	51	0	0	48	1.00
1306559--1306809	123	2.0	123	98	0	484	27	17	14	40	1.88
1311404--1311446	2	21.5	2	90	0	68	44	0	4	51	1.22
1312698--1312870	82	2.1	82	93	2	294	43	4	2	49	1.36
1317932--1317993	21	3.0	21	79	6	72	33	11	25	29	1.91
1326846--1327491	237	2.7	237	87	3	931	33	13	17	35	1.89
1327453--1327571	42	2.9	42	86	5	145	25	18	20	36	1.95
1327563--1327671	37	2.9	37	87	0	173	41	17	19	22	1.90
1331076--1331119	18	2.6	16	76	16	52	15	22	2	59	1.48
1333097--1333135	18	2.2	17	90	4	60	23	25	0	51	1.49
1333449--1333573	31	4.0	31	88	0	169	36	20	20	22	1.95
1342664--1342741	39	2.0	39	89	0	120	46	10	26	16	1.79
1342988--1343033	23	2.0	22	83	8	56	32	15	23	28	1.95
1346168--1346219	23	2.3	22	83	3	59	57	7	1	32	1.38
1347277--1347324	22	2.1	22	88	7	69	43	2	8	45	1.45
1347302--1347464	90	1.8	89	88	4	247	42	3	9	44	1.54
1347409--1347435	14	1.9	14	100	0	54	44	7	7	40	1.60
1347422--1347529	38	2.9	37	78	13	123	43	2	10	43	1.52
1347502--1347585	24	3.4	24	75	11	89	48	4	5	40	1.48
1347514--1347593	25	3.2	25	75	10	92	45	3	7	43	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347496--1347593	50	2.0	49	90	9	155	44	4	8	42	1.53
1347588--1347612	2	12.5	2	100	0	50	48	0	0	52	1.00
1347599--1347668	19	3.4	21	82	11	83	45	2	7	44	1.46
1347599--1347673	21	3.7	21	80	10	75	45	2	6	45	1.43
1347687--1347733	3	15.7	3	86	8	69	27	0	0	72	0.85
1368882--1368914	15	2.2	15	100	0	66	54	6	6	33	1.50
1371755--1371834	23	3.7	22	82	8	85	25	32	25	17	1.97
1371755--1371816	23	2.7	23	90	2	90	24	32	24	19	1.98
1373820--1373887	21	3.2	21	87	0	91	19	19	22	39	1.92
1375054--1375111	20	3.0	20	71	14	59	68	0	3	27	1.05
1376034--1376095	25	2.5	24	79	7	61	25	0	12	61	1.32
1376024--1376207	85	2.2	82	89	4	271	29	0	13	56	1.41
1377017--1377116	39	2.7	37	80	10	107	25	8	0	67	1.18
1381614--1381862	81	3.1	81	87	2	340	30	22	10	36	1.88
1382252--1382308	22	2.6	22	94	0	96	24	17	17	40	1.91
1382350--1382401	20	2.6	20	93	0	86	23	23	11	42	1.86
1382466--1382692	80	2.8	81	85	0	276	32	22	9	36	1.86
1383096--1383277	94	1.9	95	85	1	249	24	21	11	42	1.86
1384246--1384292	24	2.0	24	100	0	94	40	8	12	38	1.74
1391665--1391721	25	2.3	24	80	14	64	47	1	1	49	1.22
1392514--1392568	2	29.0	2	79	17	64	43	0	3	52	1.18
1393075--1393147	35	2.0	37	82	10	89	50	4	1	43	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397445--1397523	32	2.5	32	93	0	140	27	10	18	43	1.83
1402060--1402098	19	2.0	20	85	14	55	53	10	0	35	1.35
1403020--1403241	111	2.0	111	94	0	390	45	10	7	36	1.68
1403303--1403337	17	2.0	18	94	5	63	57	2	5	34	1.37
1403385--1403424	10	4.0	10	84	12	55	40	0	27	32	1.57
1403386--1403426	20	2.1	19	90	4	64	41	0	26	31	1.56
1403545--1403670	50	2.5	49	76	10	128	25	26	31	16	1.96
1403682--1403760	29	2.7	29	94	0	140	39	11	20	29	1.87
1408087--1408151	34	1.9	34	87	0	94	46	4	7	41	1.53
1408167--1408213	16	2.9	16	78	9	51	63	0	0	36	0.94
1408152--1408195	21	2.0	22	86	8	63	61	0	6	31	1.22
1408167--1408217	17	3.1	17	81	15	63	64	0	0	35	0.94
1409337--1409383	24	1.9	25	86	4	69	38	0	4	57	1.18
1409439--1409475	18	2.1	18	89	0	56	64	0	0	35	0.94
1412117--1412186	22	3.5	19	81	9	77	31	15	24	28	1.96
1412517--1412683	55	3.0	55	95	0	298	33	14	19	32	1.92
1412950--1413272	68	4.8	68	91	1	517	31	14	24	29	1.95
1413234--1413621	81	4.8	81	84	2	456	36	12	23	27	1.91
1415368--1415453	3	29.0	3	77	11	79	34	2	0	62	1.08
1415368--1415434	20	3.5	20	84	8	86	29	2	0	67	1.06
1416849--1416901	23	2.3	22	81	18	63	28	0	5	66	1.15
1416970--1417235	146	1.8	144	81	13	334	40	6	6	46	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1417035--1417303	146	1.9	145	83	10	363	38	6	6	48	1.55
1425352--1425524	75	2.3	75	82	2	213	33	15	20	30	1.94
1426400--1426546	54	2.8	53	77	6	154	37	14	21	26	1.92
1428162--1428221	17	3.4	17	70	17	59	51	8	21	18	1.72
1428464--1428554	3	30.7	3	78	10	98	32	2	1	63	1.13
1428464--1428538	17	4.3	17	83	9	98	29	2	1	66	1.13
1428492--1428539	14	3.4	14	91	2	78	33	0	0	66	0.92
1441197--1441261	23	2.8	23	92	0	103	29	18	29	23	1.98

Tables:   1   2   3   4   5   6

The End!