genome.fa.s8746.2.7.7.80.10.50.1000.6.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: VEPZ01008746.1 Hibiscus syriacus cultivar Beakdansim tig00111835_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2013901

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  6  of  10  ( 1164 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)
1021161--1021196	18	2.0	18	88	0	54	50	11	5	33	1.61
1021638--1021696	23	2.6	23	88	0	82	40	15	6	37	1.74
1022044--1022132	25	3.8	25	71	17	91	38	12	11	38	1.79
1022085--1022121	19	1.9	19	100	0	74	27	10	16	45	1.80
1024555--1025047	183	2.7	183	95	0	889	33	17	14	34	1.90
1025428--1025492	23	2.8	23	83	0	85	40	20	4	35	1.73
1027091--1027165	9	8.3	9	78	0	78	24	33	5	37	1.78
1027091--1027177	12	7.2	12	84	0	102	22	33	6	36	1.81
1027091--1027165	6	12.5	6	82	0	78	24	33	5	37	1.78
1027091--1027165	15	5.0	15	83	0	87	24	33	5	37	1.78
1027099--1027177	36	2.2	36	95	0	140	21	34	7	36	1.82
1027119--1027180	18	3.4	18	81	0	88	19	33	8	38	1.81
1027095--1027180	6	14.3	6	81	0	73	20	33	6	38	1.80
1028642--1029215	199	2.9	199	97	0	1060	30	17	15	36	1.90
1029334--1029382	19	2.6	19	93	0	80	57	10	2	30	1.43
1029962--1029990	4	7.2	4	100	0	58	48	27	0	24	1.51
1031186--1031251	33	2.0	33	90	0	105	22	48	0	28	1.51
1031285--1031325	21	2.0	21	90	0	64	17	31	12	39	1.86
1033543--1033585	20	2.3	18	85	14	61	20	16	11	51	1.75
1033548--1033594	20	2.4	19	82	10	67	19	17	10	53	1.72
1033729--1033774	20	2.3	19	89	10	74	17	15	10	56	1.67
1033824--1034542	227	3.1	227	94	2	1239	38	7	7	45	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040528--1040558	15	2.1	15	93	0	53	19	32	38	9	1.84
1042345--1042410	24	2.8	24	79	2	71	66	16	4	12	1.39
1042689--1042733	24	1.9	23	86	4	63	57	20	8	13	1.62
1042749--1042803	24	2.3	24	83	0	74	52	21	16	9	1.71
1042671--1042804	33	3.8	34	82	9	121	53	19	13	13	1.72
1042773--1042806	14	2.4	14	85	0	50	52	17	20	8	1.71
1049323--1049389	30	2.2	29	92	5	107	58	10	14	16	1.63
1051088--1051348	134	2.0	131	83	5	328	23	16	32	26	1.96
1051896--1051934	16	2.4	16	82	0	51	28	0	23	48	1.51
1051934--1053004	533	2.0	534	98	0	2081	26	18	15	38	1.91
1055960--1055997	18	2.1	18	95	0	67	50	10	18	21	1.76
1057797--1057884	30	3.0	29	83	1	104	63	7	10	18	1.49
1059346--1059397	3	17.7	3	96	4	97	67	0	0	32	0.91
1062889--1063252	131	2.8	131	79	2	356	36	10	13	39	1.79
1069426--1070126	133	5.3	134	85	2	883	30	22	17	30	1.96
1070916--1070954	2	20.0	2	94	5	71	48	0	0	51	1.00
1071084--1071479	81	4.9	81	90	2	564	30	22	11	36	1.89
1071084--1071467	161	2.4	162	89	0	581	30	22	11	36	1.89
1071419--1071695	68	4.1	68	90	0	421	31	24	14	29	1.94
1071911--1072056	58	2.5	58	88	0	220	34	20	10	34	1.87
1075094--1075329	131	1.8	131	88	1	366	36	11	11	40	1.77
1076403--1076578	54	3.3	54	84	3	237	24	27	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077968--1078038	36	2.0	36	94	0	124	43	4	32	19	1.70
1083056--1083119	20	3.2	20	93	0	110	40	20	18	20	1.91
1083106--1083152	20	2.3	20	92	0	76	31	27	19	21	1.97
1083031--1083132	40	2.5	40	73	14	102	35	22	18	23	1.96
1083994--1084047	24	2.2	24	93	0	90	20	18	20	40	1.91
1086480--1086568	20	4.5	19	86	8	106	35	22	21	20	1.96
1086480--1086568	40	2.2	40	88	4	126	35	22	21	20	1.96
1086563--1086638	33	2.3	34	93	2	136	44	18	25	11	1.83
1086650--1086734	33	2.5	33	92	1	134	14	23	17	44	1.85
1086851--1086887	14	2.6	14	86	0	56	48	21	0	29	1.50
1088286--1088378	42	2.2	42	80	3	107	22	17	39	20	1.92
1088858--1088986	20	6.4	20	90	0	159	38	21	16	23	1.92
1089029--1089167	20	7.6	20	71	23	110	17	20	20	41	1.90
1089051--1089144	33	2.8	34	79	6	102	15	20	20	43	1.88
1091040--1091126	20	4.4	20	83	1	95	45	21	16	16	1.84
1091451--1091524	22	3.4	22	88	0	103	21	14	39	24	1.91
1091712--1091764	20	2.7	20	93	0	88	18	18	22	39	1.92
1091761--1091806	21	2.2	21	92	0	74	39	17	26	17	1.91
1093533--1093630	42	2.4	42	98	1	189	30	16	24	28	1.96
1099975--1100084	29	3.8	29	86	0	157	26	23	14	35	1.93
1104832--1104902	21	3.5	21	86	3	92	22	12	29	35	1.91
1105591--1105656	24	2.8	24	88	4	89	22	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111472--1111526	23	2.4	23	81	3	67	18	21	23	36	1.95
1111462--1111560	24	4.3	23	76	6	83	21	23	22	33	1.97
1112811--1112847	19	1.9	19	94	0	65	32	29	16	21	1.95
1112957--1113004	20	2.4	20	92	0	78	27	27	16	29	1.97
1113466--1113511	22	2.1	22	87	0	65	19	8	8	63	1.49
1113752--1113818	20	3.3	20	93	2	116	31	20	25	22	1.98
1113880--1113925	19	2.4	19	88	3	65	23	17	28	30	1.97
1113889--1113927	19	2.1	19	95	0	69	23	15	28	33	1.95
1114651--1114688	19	2.0	20	94	5	69	31	13	5	50	1.63
1132560--1132596	2	19.0	2	94	5	67	51	0	0	48	1.00
1132560--1132602	8	5.9	7	89	10	52	51	0	0	48	1.00
1133078--1133159	2	41.5	2	97	2	157	50	0	0	50	1.00
1133175--1133208	15	2.2	16	94	5	61	11	5	0	82	0.83
1133184--1133257	9	7.2	10	77	11	53	12	4	4	79	1.01
1133182--1133232	23	2.2	24	89	3	77	9	5	1	82	0.91
1139392--1139452	20	2.9	22	78	9	74	11	24	36	27	1.90
1145667--1145700	17	2.1	16	94	5	59	23	0	0	76	0.79
1146185--1146225	21	2.0	21	85	0	55	41	7	34	17	1.77
1152587--1152624	18	2.1	18	85	9	51	81	2	15	0	0.80
1153559--1154101	121	4.4	123	89	1	781	34	25	15	24	1.94
1153803--1154016	66	3.4	66	66	18	184	35	24	15	24	1.94
1153559--1154101	245	2.2	245	88	1	804	34	25	15	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156063--1156134	2	38.0	2	89	10	116	51	0	0	48	1.00
1156063--1156134	35	2.1	35	94	5	130	51	0	0	48	1.00
1156165--1156363	4	48.5	4	71	18	76	18	5	2	73	1.14
1156176--1156223	11	4.3	11	84	10	62	20	0	0	79	0.74
1156248--1156357	9	12.7	9	71	19	56	14	7	2	75	1.13
1156264--1156367	14	7.4	14	70	19	65	14	5	0	78	0.98
1156282--1156405	8	16.6	7	70	19	65	15	7	0	76	1.04
1156264--1156373	23	4.7	23	76	10	107	14	6	0	78	1.00
1156295--1156367	5	14.4	5	72	13	51	13	4	1	80	0.92
1156286--1156382	31	3.2	30	77	10	106	13	6	1	79	0.97
1158022--1158055	12	2.8	12	95	0	59	82	2	5	8	0.93
1158637--1158683	18	2.6	18	93	0	58	44	34	10	10	1.74
1158643--1158683	18	2.3	18	100	0	82	43	31	12	12	1.79
1159309--1159357	3	14.7	3	84	16	53	67	0	4	28	1.09
1159316--1159360	14	3.3	13	90	9	72	68	0	2	28	1.01
1159309--1159357	14	3.1	16	80	16	66	67	0	4	28	1.09
1159308--1159360	17	3.1	17	84	10	72	67	0	3	28	1.07
1159449--1159497	3	14.7	3	84	16	53	67	0	4	28	1.09
1159456--1159500	14	3.3	13	90	9	72	68	0	2	28	1.01
1159449--1159497	14	3.1	16	80	16	66	67	0	4	28	1.09
1159448--1159500	17	3.1	17	84	10	72	67	0	3	28	1.07
1159258--1159540	140	2.0	143	97	2	545	52	8	8	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159534--1159558	13	1.9	13	100	0	50	48	0	0	52	1.00
1159570--1159655	30	2.7	31	91	7	138	46	5	2	45	1.40
1159523--1159914	38	10.6	37	76	15	302	45	6	3	44	1.48
1159633--1159879	74	3.3	72	85	9	295	43	7	4	44	1.52
1160496--1160763	84	3.2	85	78	6	312	23	21	24	31	1.98
1160462--1160763	83	3.6	83	79	7	274	24	20	23	31	1.98
1160632--1160897	135	2.0	135	90	0	415	22	19	25	32	1.98
1160764--1161251	84	5.9	82	79	3	489	25	18	24	32	1.97
1160828--1161251	164	2.6	162	84	4	519	25	18	24	32	1.97
1162365--1162631	101	2.7	99	83	6	315	33	15	16	35	1.90

Tables:   1   2   3   4   5   6   7   8   9   10