genome.fa.s9459.2.7.7.80.10.50.1000.4.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: VEPZ01009459.1 Hibiscus syriacus cultivar Beakdansim tig00113721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1147073

Tables:   1   2   3   4   

This is table  4  of  4  ( 466 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)
945660--945705	22	2.1	22	100	0	92	28	0	23	47	1.52
946029--946373	121	2.9	121	88	1	505	23	20	25	30	1.98
946447--946556	34	3.3	34	68	10	109	21	19	28	30	1.97
946424--946558	66	2.0	66	97	0	252	22	21	27	28	1.99
946473--946932	124	3.7	124	94	0	769	24	18	25	31	1.98
946278--946682	190	2.1	190	88	0	596	25	19	25	29	1.99
948605--948657	19	2.8	19	82	2	72	1	11	7	79	1.01
948616--948672	18	3.1	18	82	7	71	1	12	5	80	0.95
948589--948671	12	6.9	12	72	20	59	2	13	4	79	0.99
948624--948683	18	3.3	17	78	17	59	1	15	3	80	0.93
948622--948683	19	3.3	18	77	20	58	1	16	3	79	0.95
955279--955616	124	2.7	124	89	3	493	26	15	24	33	1.95
956383--956411	14	2.1	14	100	0	58	20	20	20	37	1.94
956386--956419	14	2.4	14	90	0	50	29	17	17	35	1.93
958932--958956	4	6.2	4	100	0	50	76	0	0	24	0.80
961462--961513	25	2.1	25	85	7	70	21	15	9	53	1.70
965986--966038	12	4.7	12	86	9	76	77	5	0	16	0.96
966033--966077	7	6.6	7	87	7	58	53	0	4	42	1.21
966196--966328	61	2.2	60	87	1	185	39	5	7	48	1.54
966235--966292	25	2.4	24	85	8	82	44	5	3	46	1.42
966280--966340	12	5.0	12	74	4	50	40	3	6	49	1.45
966257--966503	37	6.7	37	87	2	329	42	8	4	43	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
966187--966365	97	1.9	96	85	3	252	39	6	6	46	1.56
966257--966515	112	2.3	111	82	5	328	43	8	4	43	1.56
966257--966538	75	3.8	72	82	6	293	43	8	4	44	1.53
966288--966533	112	2.2	111	83	3	332	44	8	4	43	1.53
974979--975011	2	16.5	2	100	0	66	51	0	0	48	1.00
979470--979524	3	18.7	3	75	17	53	34	0	0	65	0.93
979475--979528	28	2.0	28	85	3	74	33	0	0	66	0.92
979477--979531	17	3.2	16	80	14	65	32	0	0	67	0.91
979470--979527	17	3.2	19	67	23	52	34	0	0	65	0.93
980461--980501	17	2.4	17	95	0	73	31	19	7	41	1.79
980830--980920	29	3.1	29	74	1	74	12	15	10	61	1.57
986834--986933	36	2.7	38	90	3	159	35	16	13	36	1.87
986908--987207	105	2.9	104	85	5	390	32	16	12	39	1.85
987359--987429	29	2.5	28	88	9	99	28	11	14	46	1.78
987419--987568	62	2.4	62	88	5	221	31	11	14	43	1.80
987537--987606	27	2.5	28	90	6	108	32	8	15	42	1.77
987478--987661	90	2.1	87	80	7	199	32	11	13	42	1.80
987557--987679	65	1.9	64	84	1	165	29	13	12	45	1.79
987381--987732	154	2.2	156	80	7	381	32	11	13	42	1.81
987885--988053	67	2.6	66	77	7	161	28	17	13	40	1.87
988434--988530	29	3.3	28	80	15	99	25	15	13	45	1.83
988640--988888	89	2.9	84	88	8	365	28	30	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
989036--989090	3	18.7	3	75	17	53	34	0	0	65	0.93
989041--989094	28	2.0	28	85	3	74	33	0	0	66	0.92
989043--989097	17	3.2	16	80	14	65	32	0	0	67	0.91
989036--989093	17	3.2	19	67	23	52	34	0	0	65	0.93
993661--993686	2	13.0	2	100	0	52	50	0	0	50	1.00
1001609--1001662	27	2.0	28	85	3	74	59	7	7	25	1.51
1001818--1001875	23	2.6	23	71	15	59	29	6	17	46	1.74
1006769--1006815	14	3.3	14	79	5	58	40	6	12	40	1.69
1006769--1006827	14	4.1	14	76	8	57	44	5	11	38	1.63
1006772--1006828	29	2.0	29	89	6	89	47	3	12	36	1.58
1011610--1011696	34	2.5	35	94	3	158	18	13	17	50	1.78
1018753--1018800	24	2.0	24	100	0	96	33	29	20	16	1.95
1026022--1026084	31	2.0	31	96	0	117	25	12	23	38	1.90
1041685--1041726	12	3.3	12	84	12	57	11	42	0	45	1.41
1041690--1041728	14	2.8	14	100	0	78	10	43	0	46	1.37
1046984--1047065	30	2.7	30	88	0	110	21	26	18	32	1.97
1047260--1047284	12	2.1	12	100	0	50	36	0	0	64	0.94
1048473--1048596	21	5.8	21	72	16	112	37	22	20	19	1.94
1048469--1048605	42	3.3	42	94	0	238	37	23	19	19	1.94
1048466--1048611	21	6.9	20	71	16	109	36	22	20	20	1.95
1061808--1063577	448	4.0	448	96	2	3289	45	3	5	45	1.43
1063387--1063449	32	1.9	33	84	9	85	52	4	1	41	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063534--1063582	23	2.2	21	85	10	62	51	2	2	44	1.24
1061821--1063577	882	2.0	892	96	2	3158	45	3	5	45	1.43
1066998--1067040	18	2.4	18	100	0	86	48	9	25	16	1.75
1077350--1077394	21	2.1	21	87	0	63	31	28	24	15	1.96
1079063--1079128	22	3.0	22	97	0	123	19	27	27	25	1.99
1082195--1082239	21	2.1	21	87	0	63	31	28	24	15	1.96
1082596--1082644	17	2.8	18	78	9	57	34	6	20	38	1.77
1083925--1083991	22	3.0	22	95	2	116	19	26	28	25	1.99
1091260--1091310	25	2.0	25	100	0	102	37	23	15	23	1.93
1098011--1098247	41	5.8	41	70	5	133	29	21	17	31	1.96
1098182--1098267	40	2.2	40	84	0	109	32	16	13	37	1.88
1098014--1098279	121	2.2	122	80	6	299	30	20	18	31	1.96
1101140--1101198	21	2.8	21	86	0	82	20	5	20	54	1.63
1101310--1101422	43	2.7	43	83	6	124	25	22	22	30	1.99
1101397--1101619	43	5.2	42	89	4	302	28	23	21	26	1.99
1101346--1101619	129	2.1	129	82	2	327	28	23	20	28	1.99
1105554--1105661	43	2.5	42	77	5	119	28	21	21	28	1.98
1107835--1107872	3	13.3	3	89	10	62	36	0	0	63	0.95
1107842--1107870	14	2.1	14	100	0	58	34	0	0	65	0.93
1107835--1107872	17	2.2	17	100	0	76	36	0	0	63	0.95
1108237--1108610	146	2.6	146	91	0	588	32	20	26	20	1.97
1110922--1111038	47	2.5	47	91	1	182	31	15	22	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111787--1111834	6	8.2	6	90	9	73	16	16	18	47	1.82
1111787--1111834	19	2.7	18	90	9	73	16	16	18	47	1.82
1114455--1114966	125	4.1	125	91	1	800	33	15	27	23	1.95
1116140--1116216	36	2.1	36	82	0	100	40	22	15	22	1.91
1116630--1117586	54	17.9	54	86	3	1260	33	19	26	21	1.97
1116632--1117586	266	3.6	264	87	3	1237	32	19	26	21	1.97
1117537--1118020	55	8.8	55	87	4	622	30	14	26	29	1.95
1116630--1118081	54	26.9	53	83	7	950	32	17	26	23	1.97
1117980--1118112	54	2.5	53	85	7	169	31	21	24	23	1.98
1118423--1118456	16	2.1	16	94	0	59	32	26	8	32	1.87
1122999--1123032	16	2.1	16	94	0	59	32	26	8	32	1.87
1123487--1123533	24	2.0	24	82	0	58	48	10	2	38	1.50
1130312--1130363	20	2.7	19	85	5	68	26	30	17	25	1.97
1131233--1131281	21	2.3	21	89	0	80	44	4	36	14	1.64
1133670--1134120	68	6.7	68	81	3	511	28	12	11	48	1.75
1133643--1134120	135	3.6	133	84	3	550	28	11	11	48	1.73
1136821--1136996	36	4.9	35	86	2	208	20	23	19	36	1.95
1143981--1144022	21	2.0	21	100	0	84	19	19	14	47	1.82

Tables:   1   2   3   4

The End!