genome.fa.s8312.2.7.7.80.10.50.1000.6.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: VEPZ01008312.1 Hibiscus syriacus cultivar Beakdansim tig00111005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1258310

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 670 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)
1145256--1145281	3	8.7	3	100	0	52	69	0	30	0	0.89
1147213--1147282	20	3.5	20	90	0	113	18	41	25	14	1.88
1152179--1152246	30	2.3	30	89	5	102	19	38	16	26	1.92
1154158--1154198	20	2.0	20	100	0	82	39	29	26	4	1.77
1157451--1157554	25	3.9	26	71	20	72	73	4	6	15	1.22
1157458--1157535	22	3.6	22	70	16	65	73	5	6	15	1.22
1157439--1157541	42	2.5	39	77	21	104	74	3	4	16	1.14
1157454--1157541	22	3.9	21	69	11	59	75	4	5	14	1.16
1158631--1158680	19	2.6	19	75	12	57	66	0	4	30	1.10
1158666--1158704	14	2.6	16	88	8	55	56	0	0	43	0.99
1158712--1158769	31	1.9	30	82	6	64	48	5	1	44	1.35
1158748--1158955	110	1.9	109	81	13	257	43	4	4	47	1.44
1158691--1158911	32	6.4	34	73	19	129	44	5	4	45	1.45
1158727--1158952	73	3.2	70	78	13	228	43	4	4	46	1.45
1158830--1158952	37	3.4	38	74	16	104	44	3	4	47	1.38
1159470--1160661	84	14.5	82	78	7	1069	25	19	24	30	1.98
1159470--1160661	165	7.2	162	81	6	1075	25	19	24	30	1.98
1159505--1160661	249	4.7	249	84	4	1149	25	19	24	29	1.99
1165739--1165867	42	3.4	37	74	20	106	71	4	7	16	1.27
1165766--1165826	26	2.4	26	81	15	74	75	3	4	16	1.11
1165773--1165850	22	3.6	22	72	24	60	73	5	6	15	1.22
1165769--1165856	22	3.9	21	70	19	54	75	4	5	14	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166982--1167020	14	2.6	16	88	8	55	56	0	0	43	0.99
1167005--1167228	32	6.4	34	74	18	151	45	5	4	45	1.45
1167007--1167268	36	7.4	35	75	16	195	44	4	4	45	1.45
1167254--1167281	2	14.0	2	100	0	56	50	0	0	50	1.00
1167007--1167266	70	3.7	71	74	16	227	44	5	4	45	1.46
1167799--1168996	84	14.5	82	79	5	1184	24	20	25	29	1.99
1167799--1168996	165	7.2	162	83	5	1181	24	20	25	29	1.99
1167799--1168996	414	2.9	413	90	1	1873	24	20	25	29	1.99
1174071--1174132	32	2.0	30	90	6	97	72	3	8	16	1.21
1174095--1174152	24	2.4	24	80	11	66	74	3	5	17	1.15
1174086--1174193	39	2.9	37	76	22	109	72	4	6	16	1.23
1174139--1174182	22	2.0	23	81	4	54	75	4	4	15	1.14
1175307--1175345	14	2.6	16	88	8	55	56	0	0	43	0.99
1175438--1175592	38	4.2	38	75	15	121	41	4	5	49	1.45
1175474--1175553	32	2.5	34	82	8	96	43	3	2	50	1.33
1175332--1175577	71	3.5	71	76	13	238	42	4	5	47	1.47
1175414--1175555	33	4.0	36	73	17	95	42	4	4	47	1.46
1177739--1177850	37	3.2	36	82	8	124	41	19	5	33	1.74
1180060--1180140	33	2.5	33	83	0	117	53	0	0	46	1.00
1180158--1180192	12	2.9	12	86	0	52	28	48	11	11	1.74
1182909--1182969	21	3.2	21	65	29	64	42	21	4	31	1.74
1182858--1183004	35	4.2	36	85	7	178	42	19	5	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182861--1183004	72	2.1	68	83	7	173	43	18	5	32	1.74
1186415--1186460	20	2.3	19	82	10	56	54	4	10	30	1.55
1186421--1186460	20	2.0	21	90	5	64	55	5	10	30	1.54
1190935--1191013	29	2.8	29	88	1	115	13	35	25	25	1.93
1191083--1191135	23	2.3	23	86	0	79	26	24	37	11	1.89
1191156--1191238	28	2.9	29	87	5	116	21	31	33	13	1.92
1191626--1191707	29	2.8	29	90	0	128	14	34	26	24	1.94
1191777--1191829	23	2.3	23	86	0	79	26	24	37	11	1.89
1191851--1191935	29	2.9	29	89	0	125	23	30	32	12	1.92
1193697--1193749	6	9.2	6	91	8	92	0	15	49	35	1.45
1194035--1194088	22	2.5	22	75	3	56	29	9	22	38	1.85
1198052--1198083	14	2.3	14	100	0	64	21	50	12	15	1.77
1213146--1213249	48	2.1	48	84	10	131	61	1	3	32	1.25
1215036--1215098	27	2.4	27	81	7	67	25	6	23	44	1.77
1217686--1217899	106	2.0	105	88	0	320	36	7	12	42	1.71
1221614--1221661	21	2.3	21	92	0	78	45	14	14	25	1.83
1226681--1226715	14	2.6	14	95	4	63	42	0	22	34	1.54
1227101--1227142	21	2.0	21	90	0	66	23	38	28	9	1.86
1231373--1231446	31	2.4	31	81	0	85	47	8	9	35	1.66
1236752--1236804	2	27.0	2	96	3	99	49	0	0	50	1.00
1244959--1244996	20	2.0	20	89	5	60	47	10	7	34	1.67
1247442--1247510	23	3.0	23	85	4	86	30	26	23	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248082--1248238	64	2.4	66	83	10	189	26	17	20	35	1.95
1254710--1254754	21	2.1	21	87	0	63	31	28	24	15	1.96
1255600--1255752	31	5.0	31	91	3	238	22	19	20	37	1.95
1255600--1255752	61	2.5	62	91	3	238	22	19	20	37	1.95

Tables:   1   2   3   4   5   6

The End!