genome.fa.s7894.2.7.7.80.10.50.1000.5.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: VEPZ01007894.1 Hibiscus syriacus cultivar Beakdansim tig00110279_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1425917

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 721 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)
975748--975790	22	2.0	22	100	0	86	51	13	0	34	1.42
975750--975798	22	2.2	22	88	3	71	55	14	0	30	1.40
975706--976002	134	2.2	132	88	6	467	53	11	0	35	1.37
975804--975878	22	3.2	22	75	14	69	56	16	0	28	1.41
975882--975924	22	2.0	22	95	0	77	51	11	0	37	1.39
975833--976013	54	3.5	54	83	10	236	52	10	0	37	1.36
975546--975902	170	2.1	168	94	3	630	52	13	0	33	1.43
975884--975932	22	2.2	22	85	3	62	55	12	0	32	1.37
975909--975965	18	3.4	18	69	18	59	54	12	0	33	1.38
975927--976099	15	11.5	15	71	20	121	52	3	0	44	1.18
976020--976097	39	2.0	39	97	0	147	52	0	0	47	1.00
977969--978007	20	2.0	19	90	5	60	35	7	33	23	1.83
978472--978578	21	5.2	21	69	4	92	17	18	25	38	1.93
978504--978570	20	3.3	20	75	4	80	14	22	23	38	1.92
978476--978586	41	2.7	41	95	0	195	20	19	23	36	1.95
978636--978701	19	3.3	19	68	12	60	18	18	21	42	1.89
978596--978708	41	2.8	41	87	5	149	20	18	20	40	1.91
978638--978702	22	3.1	22	68	14	57	18	16	21	43	1.88
978785--978820	6	6.2	6	96	3	65	36	47	16	0	1.47
979305--979348	6	7.3	6	100	0	88	0	15	50	34	1.45
979505--979749	20	12.4	20	67	17	127	40	22	20	17	1.92
979560--979628	19	3.5	19	71	11	66	40	20	18	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979578--979649	22	3.4	22	69	11	69	38	23	18	19	1.93
979560--979669	41	2.7	41	90	4	168	39	22	20	18	1.93
979440--979672	116	2.0	115	86	6	328	37	23	19	19	1.94
979638--979775	61	2.3	61	92	0	222	39	23	18	18	1.92
985977--986011	16	2.3	15	90	5	52	54	5	11	28	1.59
986175--986211	5	7.6	5	93	6	67	81	0	0	18	0.70
986165--986211	14	3.2	14	88	8	67	76	0	0	23	0.78
986072--986315	135	1.8	135	82	4	321	47	12	15	23	1.80
986200--986450	135	1.8	136	83	5	328	45	13	16	23	1.83
994237--994298	28	2.2	29	83	13	85	50	1	0	48	1.10
994223--994297	27	2.8	26	78	11	80	50	1	0	48	1.09
994292--994382	29	3.1	29	79	14	82	46	0	2	51	1.13
994329--994382	27	2.2	25	81	15	60	44	0	1	53	1.11
994701--994750	20	2.5	20	93	0	82	36	16	6	42	1.72
994734--994814	30	2.7	30	94	1	137	35	17	6	40	1.74
994734--994820	15	5.9	15	79	12	99	33	18	5	42	1.74
996070--996109	10	4.1	10	90	6	64	47	2	0	50	1.14
996060--996091	16	2.0	16	100	0	64	50	0	0	50	1.00
1007800--1007941	60	2.4	59	88	4	203	37	15	19	28	1.92
1010865--1010898	6	5.7	6	92	0	50	0	58	0	41	0.98
1010865--1010898	12	2.8	12	90	0	59	0	58	0	41	0.98
1021738--1021819	31	2.7	31	90	3	123	41	21	12	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027136--1027191	17	3.5	17	66	14	55	28	10	19	41	1.85
1027138--1027205	31	2.3	30	92	5	111	32	8	20	38	1.84
1027253--1027298	18	2.6	18	82	6	58	65	0	6	28	1.17
1028035--1028076	20	2.1	20	86	0	57	61	7	4	26	1.42
1028109--1028153	3	14.7	3	82	13	56	31	0	2	66	1.04
1028120--1028150	15	2.1	15	100	0	62	32	0	0	67	0.91
1029279--1029461	29	6.3	29	79	8	176	37	8	1	53	1.41
1029475--1029600	30	4.2	28	74	10	92	52	2	7	38	1.42
1029475--1029541	28	2.3	28	82	5	71	53	1	7	37	1.38
1038160--1038200	21	2.0	21	85	0	55	48	7	12	31	1.68
1039808--1039880	36	2.0	36	97	0	137	34	15	13	36	1.86
1040514--1040577	23	2.7	25	79	11	64	26	14	26	32	1.94
1042363--1042409	23	2.1	23	88	4	69	46	4	2	46	1.34
1044621--1044683	23	2.8	24	85	9	71	47	3	1	47	1.27
1044637--1044683	23	2.1	22	92	4	76	46	4	0	48	1.21
1045192--1045230	15	2.5	15	91	4	60	33	0	0	66	0.92
1049404--1049475	36	2.0	36	94	5	128	47	16	5	30	1.70
1051219--1051256	20	1.9	20	89	10	60	18	42	23	15	1.89
1057000--1057037	20	1.9	20	94	0	67	21	39	26	13	1.89
1079224--1079270	21	2.2	21	92	0	76	31	19	19	29	1.96
1080461--1080528	33	2.1	33	88	0	100	32	10	8	48	1.68
1081884--1081921	20	1.9	20	88	0	58	21	26	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082071--1082137	30	2.3	29	80	10	84	32	14	10	41	1.80
1083764--1083801	19	2.0	19	89	0	58	57	0	2	39	1.12
1087096--1087138	13	3.2	13	83	6	50	58	4	13	23	1.55
1087101--1087139	14	2.9	14	88	3	53	56	5	12	25	1.57
1095931--1096090	79	2.0	79	81	2	187	36	9	16	37	1.81
1096814--1096840	14	1.9	14	100	0	54	48	14	0	37	1.45
1098258--1098345	15	5.6	15	75	15	88	26	35	22	15	1.94
1098272--1098358	17	5.4	17	75	15	76	25	34	24	16	1.95
1098258--1098358	32	3.2	32	92	0	166	25	33	23	16	1.96
1098395--1098435	15	2.7	15	81	11	57	29	29	26	14	1.95
1099673--1099701	14	2.1	14	100	0	58	27	13	13	44	1.82
1100527--1100583	30	1.9	30	85	7	80	38	12	5	43	1.65
1101201--1101238	20	1.9	20	94	0	67	44	5	23	26	1.74
1101201--1101244	20	2.3	19	88	7	63	45	4	25	25	1.72
1101423--1101458	2	18.5	2	94	5	65	50	0	0	50	1.00
1103357--1103394	20	1.9	20	100	0	76	36	10	28	23	1.88
1104207--1104259	22	2.5	22	93	3	90	20	0	11	67	1.21
1105521--1105609	38	2.3	38	81	7	126	52	0	0	47	1.00
1111383--1111421	21	1.9	20	94	5	69	35	20	28	15	1.93
1111688--1112048	181	2.0	179	98	1	695	29	11	14	43	1.81
1113497--1113558	21	3.0	21	85	2	81	16	38	25	19	1.92
1114835--1114882	19	2.5	20	89	3	71	54	6	10	29	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116271--1116331	20	3.0	20	87	0	95	21	36	27	14	1.93
1123368--1123456	30	3.0	30	78	4	90	30	5	4	59	1.40
1123376--1123499	30	4.1	31	73	10	89	29	8	4	56	1.51
1136886--1137592	51	13.6	54	89	3	431	28	25	14	30	1.95
1136993--1137608	51	12.0	51	92	0	962	28	26	14	30	1.95
1137468--1137549	27	3.1	27	61	16	64	30	24	13	31	1.93
1138739--1138813	17	4.2	18	74	15	57	5	16	0	78	0.92
1138745--1138799	23	2.3	24	84	9	69	5	16	0	78	0.93
1138745--1138798	26	2.2	23	87	9	72	5	14	0	79	0.90
1138754--1138849	19	4.7	20	75	16	81	6	16	1	76	1.05
1138754--1138847	41	2.3	40	83	7	109	6	15	1	76	1.04
1158080--1158168	2	44.5	2	100	0	178	50	0	0	49	1.00
1159353--1159471	60	2.0	60	83	0	148	33	22	3	40	1.71
1159353--1159516	60	2.7	60	78	3	143	32	23	3	41	1.70
1161575--1161606	2	16.0	2	100	0	64	50	0	0	50	1.00
1162916--1162953	20	1.9	20	88	0	58	21	26	10	42	1.85
1166603--1166646	17	2.6	18	78	10	56	38	2	0	59	1.10
1167822--1167866	23	2.0	23	81	0	54	55	6	2	35	1.38
1170651--1170700	24	2.0	24	88	3	73	26	26	26	22	2.00
1178832--1178884	19	2.8	19	80	2	54	13	15	18	52	1.74
1178936--1178976	20	2.0	20	90	0	64	17	12	17	53	1.72
1179581--1179637	30	1.9	30	82	10	73	28	21	10	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184546--1184593	22	2.3	22	85	7	64	47	4	16	31	1.65
1186057--1186104	19	2.5	19	86	0	60	14	12	16	56	1.68
1186779--1186863	29	2.9	29	80	0	98	23	22	12	41	1.88
1186820--1186876	29	2.0	29	82	0	69	24	17	12	45	1.83
1190623--1190699	19	4.1	19	86	6	111	35	16	3	44	1.67
1190598--1190691	38	2.5	38	84	3	109	35	14	4	45	1.65
1192145--1192194	26	1.9	26	91	0	82	66	0	0	34	0.92
1194380--1194419	21	1.9	21	89	0	62	40	10	17	32	1.83
1198268--1198345	3	26.0	3	100	0	156	66	0	0	33	0.92
1199409--1199451	22	2.0	20	82	8	50	48	4	0	46	1.22

Tables:   1   2   3   4   5   6   7