genome.fa.s7777.2.7.7.80.10.50.1000.6.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: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1720799

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

This is table  6  of  10  ( 1086 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)
1035003--1035059	6	9.5	6	82	0	60	35	8	33	22	1.85
1035019--1035072	3	18.0	3	84	0	72	37	3	33	25	1.74
1035003--1035072	18	3.9	18	84	0	77	35	7	32	24	1.83
1035003--1035072	12	5.8	12	93	0	86	35	7	32	24	1.83
1036495--1037378	183	4.8	183	96	0	1612	35	14	16	34	1.89
1036495--1037382	364	2.4	365	96	0	1634	35	14	16	34	1.89
1039847--1039911	25	2.6	25	80	0	85	35	9	13	41	1.77
1040134--1040180	21	2.2	22	77	11	53	38	12	10	38	1.78
1040198--1040261	23	2.8	23	87	0	92	35	6	20	37	1.78
1040198--1040270	23	3.2	23	82	7	85	34	5	20	39	1.76
1040456--1040506	25	2.0	25	92	0	84	33	7	19	39	1.81
1040890--1040926	18	2.1	18	89	0	56	32	5	10	51	1.60
1040882--1040928	24	2.0	24	86	0	67	34	4	14	46	1.64
1041184--1041270	39	2.2	39	95	0	156	48	20	13	17	1.81
1041670--1041742	23	3.2	23	88	0	101	34	4	21	39	1.73
1041785--1042449	335	2.0	329	96	1	1231	42	7	11	38	1.70
1043501--1043543	15	2.9	15	92	0	68	9	16	60	13	1.58
1044710--1044757	15	3.2	14	75	13	51	39	0	2	58	1.10
1045124--1045157	16	2.1	16	94	0	59	38	14	26	20	1.91
1047510--1047557	4	11.8	4	82	8	53	72	0	2	25	0.95
1047500--1047583	5	17.4	5	76	14	63	75	1	3	20	1.03
1047500--1047578	36	2.2	35	80	14	90	74	1	3	20	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047696--1047983	74	3.9	75	77	13	292	44	10	3	40	1.57
1047672--1047899	37	6.2	37	80	10	225	43	10	4	41	1.59
1056190--1056236	22	2.3	20	85	10	60	27	14	25	31	1.95
1056601--1057075	54	8.8	54	84	4	591	35	17	16	31	1.91
1056949--1057032	26	3.2	26	64	18	64	35	17	11	34	1.87
1057054--1057157	28	3.8	28	69	19	92	35	14	19	30	1.91
1057000--1057157	82	1.9	82	89	5	248	36	15	17	31	1.91
1057074--1057183	54	2.0	54	92	0	184	33	17	20	29	1.95
1056947--1057194	136	1.8	136	87	3	374	35	18	16	30	1.92
1063534--1063584	9	5.9	9	80	13	54	74	0	1	23	0.92
1063543--1063602	12	4.8	12	73	22	52	71	0	3	25	1.01
1063656--1063708	26	2.1	25	92	3	88	39	5	3	50	1.44
1063631--1063752	61	1.9	65	88	8	189	44	9	3	43	1.52
1063680--1063886	39	5.6	35	80	11	211	44	9	3	42	1.54
1063680--1063960	39	7.6	36	75	15	193	44	10	2	42	1.54
1063686--1063886	73	2.7	74	86	9	268	45	9	3	41	1.54
1063705--1063954	73	3.4	73	81	11	260	44	10	2	42	1.54
1078605--1078658	22	2.4	24	85	14	71	31	1	1	64	1.14
1078656--1078707	16	3.3	16	70	24	56	21	7	3	67	1.32
1078647--1078707	31	2.0	31	86	0	86	22	6	3	67	1.29
1084609--1084664	27	2.0	28	86	6	78	28	17	12	41	1.86
1102715--1103719	86	11.6	86	74	12	660	24	17	21	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103192--1103222	15	2.1	15	93	0	53	25	0	25	48	1.52
1103109--1103377	100	2.8	100	82	9	300	24	16	23	35	1.95
1102691--1103715	172	5.9	177	82	9	1123	24	17	21	36	1.95
1103209--1103720	84	6.0	85	85	5	678	25	16	21	36	1.94
1104904--1105087	93	2.0	88	88	5	269	29	17	19	33	1.95
1111029--1111054	2	13.0	2	100	0	52	50	0	0	50	1.00
1114182--1114248	32	2.1	32	86	2	91	31	7	14	46	1.73
1115342--1115441	33	3.0	33	98	0	191	31	24	20	25	1.98
1117566--1117674	42	2.8	39	76	13	107	52	2	0	44	1.21
1117646--1117688	8	5.8	8	78	15	56	62	0	0	37	0.95
1117648--1117688	14	2.8	15	81	7	57	63	0	0	36	0.95
1123771--1123821	20	2.5	20	84	9	59	47	0	0	52	1.00
1124122--1124152	2	15.5	2	100	0	62	51	0	0	48	1.00
1124454--1124498	2	23.0	2	95	4	83	0	51	0	48	1.00
1124498--1124560	2	31.5	2	100	0	126	49	0	0	50	1.00
1127390--1127443	27	1.9	27	85	7	72	40	11	7	40	1.69
1134417--1134574	75	2.1	75	96	0	289	24	9	34	31	1.88
1135813--1135837	2	12.5	2	100	0	50	48	0	0	52	1.00
1135883--1135997	56	2.1	55	85	6	155	35	9	2	52	1.48
1136254--1136298	11	4.2	11	82	5	56	51	0	4	44	1.21
1142091--1142131	10	3.8	11	81	12	50	48	2	0	48	1.14
1144505--1144555	25	2.0	25	96	0	93	70	0	11	17	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146498--1146632	67	2.0	68	95	4	247	32	19	16	31	1.94
1147092--1147236	61	2.3	64	83	8	190	28	27	14	29	1.95
1151081--1151128	15	3.1	15	73	8	51	18	25	33	22	1.97
1151326--1151356	16	1.9	16	93	0	53	19	22	35	22	1.96
1153122--1153155	16	2.1	16	94	0	59	41	29	20	8	1.82
1154869--1154929	29	2.1	29	96	0	113	21	26	9	42	1.84
1154923--1155242	68	4.7	68	87	3	432	29	25	14	30	1.95
1154923--1155242	136	2.3	135	88	3	482	29	25	14	30	1.95
1155610--1155678	23	3.1	23	89	10	117	24	27	8	39	1.85
1155609--1155868	20	11.7	20	70	20	153	21	25	10	43	1.84
1155672--1155894	26	9.6	25	67	22	137	21	23	10	44	1.82
1155596--1155895	46	6.6	46	86	6	407	21	24	10	44	1.82
1157889--1157921	12	2.8	12	90	0	57	57	0	12	30	1.35
1157926--1157979	6	9.0	6	93	0	81	27	0	18	53	1.45
1163393--1163455	23	2.7	23	95	0	108	20	28	25	25	1.99
1163985--1164028	21	2.1	21	91	0	70	27	22	25	25	2.00
1165365--1165405	2	20.5	2	100	0	82	51	0	0	48	1.00
1165789--1165842	22	2.6	20	80	11	63	27	25	14	31	1.95
1165836--1165877	18	2.3	18	95	0	75	19	40	16	23	1.91
1169859--1169909	25	2.0	25	84	3	66	33	5	1	58	1.33
1171840--1171891	21	2.5	21	96	0	95	36	0	15	48	1.45
1173836--1173880	14	3.4	14	73	20	51	4	13	6	75	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174607--1174670	3	21.3	3	100	0	128	65	0	0	34	0.93
1174872--1175415	134	4.1	134	87	1	741	32	19	18	29	1.96
1176020--1176369	45	7.8	45	81	5	334	42	17	17	22	1.89
1176019--1176369	90	3.9	90	82	3	390	41	17	17	23	1.89
1176008--1176369	135	2.7	133	83	4	408	42	17	17	22	1.89
1176296--1177147	38	22.0	38	81	7	941	40	16	18	24	1.90
1178951--1179042	7	12.7	7	72	11	60	2	23	0	73	0.94
1178948--1179044	21	4.6	21	75	14	83	2	23	0	74	0.93
1178965--1179044	6	12.5	6	75	17	56	2	23	0	73	0.95
1178974--1179055	38	2.2	37	83	12	98	4	23	0	71	1.04
1180142--1180180	19	2.1	19	95	0	69	71	10	17	0	1.12
1182097--1182148	18	2.8	18	97	2	95	50	15	17	17	1.79
1182097--1182149	6	8.7	6	80	2	61	49	15	18	16	1.80
1183191--1183285	43	2.2	43	98	0	181	36	36	10	15	1.82
1183401--1183519	24	5.0	24	87	4	159	39	20	14	26	1.90
1183435--1183537	48	2.1	48	82	3	118	41	19	13	25	1.88
1183401--1183537	72	1.9	72	82	5	170	40	19	13	25	1.89
1185556--1185593	17	2.2	17	100	0	76	42	23	0	34	1.55
1193031--1193125	43	2.2	43	98	0	181	36	36	10	15	1.82
1193241--1193359	24	5.0	24	88	4	168	39	20	14	26	1.90
1193224--1193377	48	3.2	47	81	4	164	42	18	12	25	1.86
1193241--1193377	72	1.9	72	85	5	188	40	19	14	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195881--1195921	18	2.3	18	91	0	64	9	19	48	21	1.77
1195899--1195936	13	2.9	13	88	0	58	15	21	47	15	1.82
1197602--1197636	18	1.9	18	94	0	61	11	25	48	14	1.77
1197613--1197637	13	1.9	13	100	0	50	12	24	48	16	1.79
1199300--1199332	13	2.5	13	95	0	57	15	24	42	18	1.88
1203632--1203699	3	23.0	3	96	3	129	66	0	0	33	0.92
1204380--1204431	21	2.4	22	83	6	79	11	7	9	71	1.32
1204711--1204759	25	2.0	25	91	0	80	34	40	10	14	1.79
1204813--1204847	2	17.5	2	100	0	70	48	0	0	51	1.00
1211585--1211683	43	2.2	45	82	8	130	21	15	27	36	1.93

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