genome.fa.s8129.2.7.7.80.10.50.1000.5.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: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2577775

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

This is table  5  of  10  ( 1095 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)
972223--972321	17	5.6	17	69	21	62	59	2	0	38	1.09
972248--972341	29	3.4	26	73	17	82	55	2	1	41	1.19
972219--972355	58	2.3	58	80	8	161	58	1	0	39	1.12
972482--972521	18	2.2	19	86	13	57	65	17	7	10	1.46
972833--972910	31	2.5	31	79	4	95	21	11	15	51	1.75
974121--974193	31	2.4	31	86	4	103	53	17	6	21	1.67
975203--975258	14	4.3	14	76	17	66	10	14	21	53	1.70
975204--975278	24	3.1	24	88	3	98	13	12	18	56	1.68
976422--976448	2	13.5	2	100	0	54	51	0	0	48	1.00
976448--976541	2	47.0	2	100	0	188	50	0	50	0	1.00
989212--989469	108	2.4	108	86	2	349	32	16	18	32	1.93
989382--989466	27	3.1	27	67	18	77	30	17	21	30	1.96
989212--989470	54	4.8	55	85	3	312	32	16	18	32	1.93
989274--989504	108	2.1	108	84	4	288	32	17	17	31	1.94
993983--994070	40	2.3	37	80	5	86	21	26	25	27	1.99
997864--998176	79	4.0	79	88	0	455	28	23	12	35	1.91
998439--998475	18	2.1	18	94	0	65	45	24	5	24	1.74
1005009--1005231	45	5.5	43	64	22	131	30	25	11	33	1.90
1004998--1005310	79	4.0	79	91	1	493	29	24	11	35	1.90
1005143--1005265	34	3.3	34	66	22	84	29	23	10	36	1.88
1005814--1005887	20	3.6	20	77	13	78	25	25	17	31	1.97
1008771--1009003	20	11.6	20	76	7	195	37	24	17	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008771--1008982	41	5.2	41	86	1	293	38	24	16	20	1.93
1009096--1009241	20	7.3	20	96	1	217	36	20	19	23	1.95
1009096--1009262	40	4.2	39	85	10	175	36	20	18	23	1.95
1010053--1010106	24	2.2	24	93	0	90	20	18	20	40	1.91
1012522--1012602	20	4.1	20	88	0	108	37	19	19	23	1.95
1012574--1012668	33	2.8	34	87	3	129	44	17	21	16	1.87
1012684--1012779	33	2.9	34	87	3	131	14	23	19	41	1.89
1012881--1012917	14	2.6	14	86	0	56	48	21	0	29	1.50
1014260--1014369	42	2.6	42	81	2	132	22	18	38	20	1.94
1014849--1014931	20	4.2	20	89	3	114	36	24	16	22	1.95
1014970--1015045	19	4.1	18	78	6	64	11	19	22	46	1.82
1015137--1015516	94	4.1	94	92	1	611	47	17	12	22	1.81
1017212--1017263	20	2.6	20	77	22	72	40	21	23	15	1.91
1017261--1017325	19	3.4	19	91	0	112	49	16	18	15	1.80
1017198--1017325	38	3.5	34	76	16	107	46	17	20	15	1.85
1017358--1017447	20	4.5	20	74	9	85	14	15	17	52	1.75
1018008--1018218	20	10.4	20	79	7	228	19	18	25	37	1.94
1018008--1018218	41	5.2	41	91	1	327	19	18	25	37	1.94
1018227--1018269	20	2.2	20	83	8	52	16	18	20	44	1.87
1018329--1018382	20	2.7	19	75	8	63	16	18	31	33	1.93
1021689--1021804	20	5.8	20	72	8	83	27	15	13	43	1.85
1021682--1021784	40	2.6	40	96	0	188	29	14	14	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021689--1021820	20	6.6	20	68	5	79	26	15	13	44	1.83
1028343--1028402	32	1.9	31	89	3	93	43	10	18	28	1.82
1031465--1031509	13	3.6	12	82	8	54	46	0	28	24	1.53
1031461--1031509	25	2.0	24	88	8	71	46	0	28	24	1.53
1031537--1031601	18	3.4	18	74	12	67	29	9	16	44	1.79
1031539--1031621	39	2.1	39	93	0	139	26	8	18	46	1.77
1031537--1031612	19	4.0	18	73	11	62	27	9	17	46	1.78
1033879--1033903	7	3.6	7	100	0	50	48	40	0	12	1.40
1034083--1034125	13	3.3	13	83	0	59	51	6	2	39	1.42
1034064--1034110	20	2.3	20	82	7	60	46	4	8	40	1.54
1034727--1034787	23	2.7	23	84	0	86	29	24	24	21	1.99
1041954--1041991	19	2.0	20	89	5	60	76	5	0	18	0.97
1043606--1043645	21	2.0	21	90	5	64	17	37	12	32	1.87
1044922--1044988	29	2.3	29	86	0	89	23	41	19	14	1.89
1063210--1063260	24	2.2	24	89	3	77	64	11	3	19	1.41
1063207--1063261	23	2.4	22	85	8	74	60	14	3	21	1.50
1064159--1064185	4	6.8	4	100	0	54	22	0	0	77	0.76
1067328--1067367	21	1.9	21	89	0	62	55	7	7	30	1.56
1076430--1076511	32	2.6	32	82	3	103	19	25	28	26	1.99
1088839--1088871	12	2.6	13	90	4	50	45	6	12	36	1.66
1091465--1091489	12	2.1	12	100	0	50	24	32	16	28	1.96
1101664--1101768	46	2.3	46	88	3	149	44	10	21	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101723--1101762	20	2.0	21	90	5	64	42	12	25	20	1.86
1104189--1104260	20	3.0	26	76	23	102	20	23	11	44	1.84
1104293--1104518	45	5.0	45	91	0	353	25	23	11	40	1.87
1104940--1105119	95	1.9	95	80	6	213	25	21	13	38	1.91
1109161--1109312	81	1.9	82	81	1	189	26	23	11	37	1.90
1109642--1109713	20	3.0	26	69	23	84	19	26	11	43	1.84
1109751--1110063	45	7.0	45	88	2	468	27	23	10	38	1.87
1109748--1110063	135	2.3	135	91	1	517	26	23	10	38	1.88
1110487--1110689	96	2.1	96	80	9	218	25	19	12	42	1.87
1112764--1112807	2	22.5	2	95	4	81	50	0	0	50	1.00
1138511--1138693	20	8.0	25	72	20	127	44	8	25	21	1.81
1138543--1138713	46	3.7	46	91	0	270	43	7	25	22	1.79
1138510--1138825	112	2.8	112	85	1	411	43	9	25	22	1.83
1138721--1138990	26	11.6	25	68	21	140	42	10	24	21	1.85
1138655--1138939	92	3.1	89	71	20	230	42	9	24	22	1.84
1138721--1138762	12	3.3	12	76	23	50	42	11	21	23	1.86
1138703--1139022	46	7.0	46	91	0	478	43	10	23	22	1.83
1138510--1138872	158	2.3	158	91	0	582	42	9	25	22	1.83
1151215--1151260	20	2.3	19	85	14	58	26	15	8	50	1.73
1154063--1154545	81	5.9	81	85	1	608	30	21	11	36	1.89
1155466--1155892	155	2.8	153	90	3	651	37	31	11	19	1.88
1155973--1156028	24	2.3	24	84	0	67	55	14	7	23	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157117--1157152	18	2.0	18	88	0	54	41	13	0	44	1.44
1160663--1160699	14	2.5	16	79	20	53	51	13	5	29	1.63
1163426--1163475	22	2.2	22	85	3	64	34	20	28	18	1.95
1167618--1167666	20	2.5	20	86	6	64	28	14	30	26	1.95
1168829--1168873	21	2.1	21	83	0	54	28	20	8	42	1.82
1169226--1169271	22	2.2	22	88	7	69	28	34	17	19	1.94
1169886--1169942	26	2.1	27	83	3	71	45	15	5	33	1.69
1169954--1170035	29	2.8	28	89	7	119	53	8	7	30	1.58
1178568--1178629	20	3.1	19	70	28	56	29	27	20	22	1.99
1179221--1179266	22	2.2	21	88	7	67	28	32	17	21	1.96
1180422--1180658	45	5.3	45	89	1	350	22	21	11	44	1.84
1180992--1181069	34	2.3	34	90	0	129	25	16	20	37	1.93
1182687--1182766	23	3.5	23	77	5	81	22	20	23	33	1.97
1182698--1182760	24	2.7	23	82	2	72	15	19	25	39	1.91
1188764--1188825	22	2.7	22	77	5	61	16	27	20	35	1.94
1190286--1190327	21	2.0	21	95	0	75	59	4	4	30	1.39
1198941--1198992	25	2.2	23	82	6	59	61	9	19	9	1.54
1203237--1203310	32	2.3	32	95	0	130	22	25	20	31	1.98
1206751--1206821	27	2.5	28	77	4	81	45	22	16	15	1.85
1207413--1207470	4	15.5	4	79	13	52	44	20	1	32	1.62
1207585--1208010	4	106.5	4	98	0	764	48	24	1	25	1.61
1210829--1210869	16	2.6	16	88	3	57	41	9	19	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211838--1211882	23	2.0	23	90	0	72	48	6	8	35	1.61
1211889--1212590	198	3.5	193	80	7	703	30	14	14	39	1.87
1214749--1215553	182	4.4	181	87	3	1050	27	15	12	44	1.83
1216365--1216413	3	16.7	3	87	4	73	0	26	0	73	0.83
1222499--1222617	62	1.9	63	91	1	195	35	16	13	34	1.88
1224312--1224374	32	2.0	32	90	0	99	53	4	15	25	1.61
1226628--1226681	6	8.8	6	77	22	51	75	0	7	16	1.01
1227536--1227811	109	2.5	108	89	1	410	44	16	15	23	1.85
1227822--1227851	4	7.8	4	92	7	53	76	0	0	23	0.78
1228654--1228678	13	1.9	13	100	0	50	72	0	24	4	1.02

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