genome.fa.s9017.2.7.7.80.10.50.1000.5.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: VEPZ01009017.1 Hibiscus syriacus cultivar Beakdansim tig00112407_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1192163

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 626 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)
985759--985812	26	2.1	26	82	6	65	51	12	1	33	1.51
987252--987362	30	3.7	30	81	6	118	56	7	14	21	1.62
987238--987362	30	4.2	29	79	5	115	57	6	12	23	1.58
988847--988906	3	20.7	3	78	13	63	63	5	0	31	1.16
988847--988897	14	3.6	14	91	2	75	64	5	0	29	1.17
990079--990155	27	2.8	26	72	18	68	67	2	11	18	1.33
990185--990246	30	2.1	30	82	11	74	66	1	8	24	1.28
992310--992431	43	2.8	43	91	2	192	22	16	29	31	1.95
993437--993475	11	3.5	11	82	6	51	0	12	2	84	0.72
993440--993474	17	1.9	19	88	11	56	0	14	2	82	0.77
997762--997824	23	2.8	22	85	7	81	15	22	26	34	1.94
1003289--1003323	6	5.8	6	93	0	52	40	0	11	48	1.39
1020377--1020578	77	2.6	77	85	4	266	21	24	31	22	1.99
1023169--1023208	21	1.9	21	89	0	62	7	25	42	25	1.80
1028999--1029198	76	2.6	76	85	4	262	22	25	30	22	1.99
1031152--1031224	34	2.1	34	80	9	78	67	1	6	24	1.23
1031347--1031408	15	4.1	15	77	8	54	64	1	1	32	1.13
1031356--1031422	28	2.3	30	80	15	77	65	2	1	29	1.16
1031361--1031412	27	1.9	28	88	7	81	69	1	0	28	0.99
1033850--1033891	2	21.0	2	100	0	84	50	0	0	50	1.00
1043722--1043759	20	1.9	20	88	0	58	57	5	0	36	1.21
1044215--1044573	184	2.0	184	97	0	673	23	24	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046988--1047034	23	2.0	23	95	0	85	29	19	4	46	1.68
1057378--1057461	39	2.2	39	84	4	107	41	2	41	14	1.58
1066538--1066590	21	2.5	21	93	0	88	22	24	18	33	1.97
1066599--1066685	20	4.3	20	92	0	138	28	26	20	24	1.99
1066866--1066910	22	2.0	22	91	0	72	22	44	15	17	1.86
1066876--1066918	22	2.0	22	90	0	68	25	41	13	18	1.88
1067316--1067431	20	5.8	20	90	1	144	12	17	22	47	1.81
1069155--1069204	18	2.8	18	93	0	82	34	16	6	44	1.72
1069354--1069397	20	2.2	20	87	0	61	38	25	18	18	1.92
1069442--1069508	20	3.5	19	82	8	82	16	19	28	35	1.93
1069963--1070067	21	5.0	21	74	3	95	20	37	19	22	1.95
1069960--1070070	42	2.6	42	78	5	118	20	37	18	22	1.94
1071223--1071317	20	5.1	20	76	14	103	24	16	23	35	1.95
1071488--1071522	18	1.9	18	94	0	61	17	2	25	54	1.57
1073777--1073852	24	3.2	24	96	0	134	40	23	18	17	1.91
1074673--1074771	20	4.9	20	86	0	135	29	20	24	26	1.99
1074773--1074839	20	3.3	20	100	0	134	25	19	16	38	1.92
1074752--1074839	40	2.2	40	89	4	133	26	19	17	37	1.93
1074836--1074881	21	2.2	21	92	0	74	36	19	26	17	1.94
1075349--1075410	27	2.3	28	76	20	69	41	1	8	48	1.42
1075916--1076006	35	2.6	35	98	0	173	29	15	8	46	1.76
1083614--1083693	35	2.3	35	85	10	101	45	23	1	30	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083938--1084016	34	2.3	35	91	2	124	32	0	22	44	1.53
1086698--1086812	42	2.7	43	94	4	207	66	7	4	20	1.34
1089684--1089735	20	2.6	20	96	0	95	50	17	13	19	1.78
1089708--1090001	112	2.6	110	91	3	473	43	14	17	24	1.87
1089873--1090316	181	2.5	180	90	4	675	43	13	15	27	1.84
1093922--1094054	68	2.0	68	96	3	250	24	24	22	28	1.99
1094668--1095074	202	2.0	200	95	3	735	30	11	31	25	1.92
1098764--1098829	3	22.0	3	76	17	66	62	3	0	34	1.11
1099019--1099123	40	2.6	40	87	0	138	31	18	26	23	1.97
1099188--1099265	40	2.0	40	86	0	111	21	19	35	23	1.96
1099056--1099369	132	2.4	133	89	2	470	25	17	30	26	1.97
1099291--1099440	43	3.6	43	77	13	186	22	18	32	27	1.97
1099334--1099472	40	3.4	40	77	13	174	23	17	33	25	1.96
1099056--1099386	134	2.5	133	88	2	452	25	17	30	26	1.97
1099288--1099479	83	2.3	83	100	0	384	22	18	32	26	1.97
1099591--1099664	35	2.1	35	92	5	123	32	12	18	36	1.88
1099919--1100038	63	1.9	63	86	1	170	42	12	13	31	1.81
1100466--1100698	52	4.7	52	67	21	167	39	15	13	31	1.86
1100243--1100705	144	3.2	145	94	2	785	40	14	12	32	1.84
1100548--1100613	28	2.3	29	82	10	82	40	12	9	37	1.74
1100243--1100757	144	3.6	140	82	12	584	39	13	13	33	1.84
1100969--1101041	35	2.1	35	82	10	87	30	10	20	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101024--1101213	105	1.8	105	86	4	276	36	12	19	31	1.88
1104901--1104962	32	2.0	32	96	3	117	61	9	14	14	1.57
1106714--1106798	2	42.5	2	97	0	161	50	1	0	48	1.08
1108841--1108926	12	6.7	13	75	13	63	63	2	1	32	1.14
1108851--1108926	3	25.0	3	75	17	68	64	2	0	32	1.07
1111535--1111592	24	2.4	24	85	0	80	36	25	3	34	1.73
1114823--1114895	35	2.1	35	97	0	137	38	6	5	49	1.53
1119747--1119847	36	2.8	36	80	3	112	40	13	13	31	1.84
1120209--1120247	14	2.8	13	88	11	51	23	2	2	71	1.10
1120207--1120249	18	2.5	17	81	7	52	25	2	2	69	1.12
1120448--1120498	25	2.1	25	82	10	61	25	1	1	70	1.08
1120645--1120681	2	18.5	2	100	0	74	48	0	0	51	1.00
1120723--1120787	31	2.2	29	83	10	78	13	12	1	72	1.20
1123210--1123248	8	5.0	8	84	6	53	10	17	12	58	1.61
1124362--1124433	8	9.0	8	76	8	67	79	6	13	0	0.93
1124380--1124463	23	3.7	23	74	6	64	76	8	14	1	1.07
1125084--1125154	22	3.2	22	95	0	124	33	23	14	28	1.94
1125569--1125605	18	2.0	19	89	5	58	18	5	29	45	1.72
1126033--1126154	36	3.4	36	75	8	106	24	20	16	38	1.92
1126170--1126294	36	3.4	36	85	5	162	26	20	13	39	1.90
1126083--1126357	138	2.0	138	85	2	374	28	21	12	37	1.90
1126252--1126426	67	2.6	65	84	6	217	32	21	9	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126105--1126425	65	4.7	67	74	10	242	29	21	10	37	1.88
1127030--1127721	105	6.6	104	90	4	988	33	25	18	22	1.97
1127074--1127721	205	3.1	205	94	2	1082	33	25	18	22	1.97
1128342--1128442	36	2.8	36	80	3	112	40	13	13	31	1.84
1128804--1128842	14	2.8	13	88	11	51	23	2	2	71	1.10
1128802--1128844	18	2.5	17	81	7	52	25	2	2	69	1.12
1128842--1128903	2	31.5	2	93	3	108	46	0	1	51	1.10
1129038--1129095	3	19.0	3	86	10	82	31	0	3	65	1.09
1130808--1130850	19	2.3	19	83	0	50	25	4	9	60	1.47
1136855--1136898	4	11.8	4	81	13	58	50	25	0	25	1.50
1136855--1136881	14	1.9	14	100	0	54	51	25	0	22	1.48
1136855--1136898	18	2.4	18	88	11	63	50	25	0	25	1.50
1137236--1137365	36	3.7	35	78	10	115	33	20	13	33	1.92
1137617--1137711	28	3.5	27	83	9	113	28	9	14	47	1.76
1137612--1137726	54	2.1	55	79	9	128	29	8	13	47	1.73
1137814--1137882	29	2.4	29	90	7	106	33	7	15	43	1.75
1137861--1137981	37	3.5	37	69	15	121	33	11	10	43	1.76
1137832--1137981	67	2.3	66	96	2	282	32	10	12	44	1.76
1137842--1138001	67	2.3	69	93	2	279	33	11	11	43	1.76
1138104--1138226	63	2.0	62	88	1	183	30	15	11	43	1.82
1137816--1138307	252	1.9	251	81	8	579	30	14	11	43	1.81
1138374--1138448	36	2.1	36	82	9	91	25	17	12	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138367--1138486	63	1.9	63	85	11	165	29	17	11	41	1.85
1138566--1138982	46	9.7	45	73	15	269	24	31	18	25	1.98
1138620--1138982	40	8.6	40	71	17	247	25	31	18	24	1.97
1138574--1138961	128	3.0	128	98	0	740	24	31	18	24	1.97
1139154--1139211	3	19.0	3	86	10	82	31	0	3	65	1.09
1140898--1140940	19	2.3	19	83	0	50	25	4	9	60	1.47
1141856--1141985	26	4.8	26	65	13	66	30	3	2	63	1.24
1142137--1142183	2	23.5	2	100	0	94	48	0	0	51	1.00
1142236--1142269	9	3.8	9	92	7	52	20	2	0	76	0.92
1142236--1142270	13	2.6	14	90	4	54	20	2	0	77	0.90

Tables:   1   2   3   4   5   6