genome.fa.s8981.2.7.7.80.10.50.1000.5.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: VEPZ01008981.1 Hibiscus syriacus cultivar Beakdansim tig00112343_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1473337

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 776 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)
961106--961162	8	7.0	8	72	4	51	15	3	1	78	0.96
961304--961460	78	2.0	78	98	0	305	21	13	19	46	1.83
963269--963328	30	2.0	30	96	0	111	51	11	20	16	1.75
969954--970063	55	2.0	53	87	3	157	33	6	20	39	1.78
970068--970135	33	2.1	33	88	0	100	35	7	25	32	1.83
977613--977659	13	3.6	13	78	21	62	36	0	8	55	1.31
977610--977661	26	2.0	26	100	0	104	38	0	7	53	1.30
984260--984289	15	2.0	15	93	0	51	16	20	33	30	1.94
989287--989361	31	2.4	31	90	0	123	28	8	14	49	1.71
989484--989566	27	3.2	26	77	16	75	50	1	3	44	1.27
989481--989566	24	3.3	24	77	11	73	50	1	3	45	1.26
994312--994355	12	3.8	12	90	3	63	11	9	47	31	1.71
994310--994355	24	2.0	24	91	4	76	10	10	47	30	1.73
994842--994867	5	5.2	5	100	0	52	0	19	61	19	1.35
1010093--1010117	13	1.9	13	100	0	50	8	4	24	64	1.38
1014768--1014884	61	1.9	61	87	3	173	37	14	15	32	1.88
1015127--1015183	27	2.1	27	81	12	64	42	1	0	56	1.10
1015567--1015605	20	2.0	20	90	5	62	35	0	0	64	0.94
1015578--1015623	21	2.2	20	84	3	56	39	0	0	60	0.97
1015707--1015741	14	2.5	14	90	9	54	42	2	14	40	1.60
1018895--1019035	64	2.2	63	82	7	169	31	17	24	26	1.97
1027312--1027360	20	2.5	19	90	9	73	30	30	20	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028274--1028328	23	2.4	21	77	16	56	52	3	0	43	1.18
1028477--1028530	22	2.5	20	80	16	63	46	0	1	51	1.11
1031124--1031277	33	4.6	33	78	4	130	48	12	35	4	1.61
1031750--1031880	69	1.9	69	87	0	190	38	12	25	22	1.90
1034116--1034146	14	2.2	14	94	0	53	38	3	16	41	1.64
1035834--1035870	12	3.0	12	92	4	56	18	48	21	10	1.78
1035883--1035971	40	2.3	40	87	9	125	49	0	0	50	1.00
1036013--1036050	20	1.9	20	88	0	58	5	42	18	34	1.73
1044741--1044821	7	11.7	7	79	12	69	46	38	0	14	1.45
1044748--1044815	20	3.3	21	75	17	70	47	36	0	16	1.47
1044741--1044821	15	5.9	14	74	11	69	46	38	0	14	1.45
1044741--1044813	27	2.7	26	76	18	76	47	35	0	16	1.47
1052212--1052251	19	2.1	19	90	4	62	47	2	0	50	1.14
1061817--1061863	20	2.3	21	81	3	60	55	8	8	27	1.59
1063629--1063683	24	2.2	25	90	3	85	58	3	3	34	1.33
1074073--1074142	32	2.2	32	82	10	81	48	0	10	41	1.36
1075111--1075137	2	13.5	2	100	0	54	51	0	0	48	1.00
1082662--1082712	25	2.1	23	85	7	66	35	3	1	58	1.28
1082830--1082950	54	2.2	54	95	0	215	38	19	7	34	1.79
1086629--1086875	123	2.0	123	100	0	494	39	14	21	24	1.91
1098037--1098069	2	16.5	2	100	0	66	48	0	0	51	1.00
1098242--1098270	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102399--1102427	2	15.0	2	92	7	51	48	0	0	51	1.00
1104561--1104594	16	2.1	16	94	0	59	32	8	26	32	1.87
1109537--1109571	18	1.9	18	88	0	52	48	0	0	51	1.00
1110647--1110681	17	2.1	17	89	5	54	20	14	14	51	1.76
1112236--1112269	6	5.7	6	96	0	50	73	8	17	0	1.08
1112229--1112269	12	3.3	12	86	3	55	73	7	19	0	1.07
1113542--1113575	16	2.1	16	88	0	50	20	17	11	50	1.77
1117977--1118033	27	2.1	27	93	0	96	42	3	17	36	1.67
1120657--1120712	16	3.6	16	78	9	62	35	7	14	42	1.73
1128854--1128914	28	2.3	26	83	13	79	50	3	4	40	1.40
1133657--1133740	26	3.3	27	67	25	65	35	2	1	60	1.17
1133701--1133749	21	2.4	19	86	10	62	42	0	2	55	1.11
1134590--1134682	21	4.6	20	79	4	105	39	18	23	18	1.92
1134587--1134682	41	2.3	41	96	0	174	40	17	22	18	1.91
1134609--1134743	41	3.3	41	81	6	123	38	20	20	20	1.94
1134671--1134764	20	4.7	20	80	2	89	34	24	18	23	1.96
1135286--1135352	19	3.5	19	83	2	80	49	23	16	10	1.77
1135348--1135512	19	9.1	19	73	15	134	13	24	19	43	1.87
1135353--1135487	33	3.9	33	87	5	144	12	24	20	42	1.87
1135466--1135512	20	2.3	20	75	13	51	14	25	12	46	1.80
1137513--1137635	42	2.9	42	80	2	122	22	36	17	22	1.95
1137569--1137635	21	3.2	21	66	6	55	23	35	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138993--1139028	14	2.6	14	90	0	54	27	2	25	44	1.68
1139207--1139324	19	6.7	19	66	19	76	13	23	20	42	1.88
1139211--1139304	33	2.8	33	98	0	179	12	24	19	43	1.85
1141598--1141622	12	2.1	12	100	0	50	0	28	0	72	0.86
1142419--1142455	14	2.6	14	86	0	56	48	21	0	29	1.50
1144323--1144440	19	6.5	19	80	10	124	41	23	22	12	1.88
1144324--1144397	39	1.9	38	88	2	112	37	22	24	14	1.92
1144398--1144454	14	3.8	14	78	17	69	47	26	17	8	1.77
1144379--1144459	32	2.5	32	100	0	162	48	24	18	8	1.76
1144466--1144560	19	5.6	17	70	24	69	11	20	23	45	1.83
1144488--1144544	14	3.9	14	77	18	62	8	17	26	47	1.77
1144471--1144560	32	2.8	33	93	5	157	11	18	23	46	1.81
1144545--1144599	20	2.8	19	83	8	65	16	23	23	36	1.94
1145072--1145116	18	2.5	18	85	0	63	15	15	42	26	1.87
1146436--1146473	20	1.9	20	88	0	58	50	21	15	13	1.78
1146736--1146779	22	2.0	22	95	0	79	18	15	45	20	1.85
1146967--1147060	20	4.7	20	80	2	89	23	18	24	34	1.96
1146987--1147122	41	3.3	42	78	5	118	20	20	20	38	1.94
1146947--1147061	20	5.7	20	78	5	88	23	17	23	35	1.95
1147050--1147142	21	4.6	20	79	4	105	18	23	18	39	1.92
1147050--1147145	41	2.3	41	96	0	174	18	22	17	40	1.91
1148562--1148610	21	2.3	21	79	6	55	46	2	0	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148589--1148656	26	2.7	24	82	10	91	57	0	0	42	0.98
1148608--1148670	26	2.5	25	80	15	67	63	0	0	36	0.95
1149403--1149605	76	2.7	77	85	5	263	22	24	30	23	1.99
1157984--1158184	76	2.6	77	89	1	289	21	24	29	23	1.99
1159989--1160032	21	2.1	21	87	8	63	4	75	0	20	0.98
1159986--1160034	25	1.9	25	91	4	80	6	71	0	22	1.08
1165651--1165723	22	3.3	22	100	0	146	32	23	16	27	1.96
1166509--1166562	19	2.8	19	94	2	90	44	14	11	29	1.80
1168026--1168345	161	2.0	161	98	0	613	22	16	18	41	1.89
1171575--1171667	21	4.5	21	78	4	100	39	18	24	17	1.91
1171656--1171770	20	5.7	20	80	6	106	32	26	17	24	1.97
1171575--1171667	41	2.3	41	100	0	186	39	18	24	17	1.91
1171958--1172001	22	2.0	22	95	0	79	20	45	15	18	1.85
1172262--1172320	20	3.0	20	87	0	73	16	18	22	42	1.89
1173638--1173682	18	2.5	18	88	0	72	26	44	15	13	1.83
1174164--1174230	20	3.4	20	81	2	73	38	23	22	14	1.92
1174219--1174276	14	3.9	14	77	16	62	48	22	17	12	1.80
1174203--1174293	32	2.8	33	93	3	157	47	20	18	13	1.82
1176120--1176155	14	2.6	14	90	0	54	30	0	22	47	1.52
1176262--1176315	14	3.5	14	73	22	54	48	18	20	12	1.81
1176272--1176308	19	1.9	19	88	0	56	51	13	21	13	1.75
1176243--1176320	33	2.4	33	86	0	111	42	20	23	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176339--1176376	20	1.9	20	88	0	58	18	21	21	39	1.93
1177688--1177746	19	3.4	19	73	22	74	45	18	22	13	1.84
1177873--1177909	14	2.6	14	91	0	65	45	24	0	29	1.53
1181414--1181450	14	2.6	14	95	0	65	40	24	24	10	1.87
1181390--1181483	47	2.0	48	89	2	145	38	25	24	11	1.89
1181474--1181544	19	3.7	19	90	3	115	46	22	19	11	1.81
1181427--1181539	33	3.2	33	81	7	109	44	24	20	10	1.83
1181365--1181544	20	10.1	19	75	16	120	43	22	22	12	1.86
1181540--1181606	19	3.5	19	75	2	71	10	16	20	52	1.73
1182122--1182174	20	2.7	20	93	0	88	26	20	28	24	1.99

Tables:   1   2   3   4   5   6   7