genome.fa.s8075.2.7.7.80.10.50.1000.6.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: VEPZ01008075.1 Hibiscus syriacus cultivar Beakdansim tig00110577_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1947163

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

This is table  6  of  10  ( 1176 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)
1030541--1030585	18	2.5	18	88	0	72	13	15	44	26	1.83
1031902--1031975	20	3.8	20	81	1	69	43	22	17	16	1.88
1032209--1032252	22	2.0	22	95	0	79	18	15	45	20	1.85
1032441--1032513	20	3.7	20	92	0	119	26	19	28	26	1.98
1032441--1032555	20	5.7	20	80	6	106	24	17	26	32	1.97
1032421--1032556	41	3.3	41	78	6	150	24	16	25	33	1.96
1032544--1032619	21	3.7	21	80	3	100	14	25	18	42	1.88
1032544--1032632	41	2.2	41	95	0	133	15	24	16	42	1.88
1032563--1032629	20	3.3	20	79	4	89	14	23	17	43	1.87
1033845--1033897	23	2.3	23	93	0	88	30	28	24	16	1.97
1033853--1033905	23	2.3	23	96	0	97	26	32	24	16	1.97
1034543--1034679	67	2.1	66	94	1	238	14	28	26	30	1.95
1040739--1040798	23	2.6	23	97	0	111	23	31	26	18	1.97
1041412--1041564	68	2.3	67	93	2	252	14	28	28	29	1.95
1044218--1044262	22	2.0	20	84	16	54	75	2	0	22	0.91
1044218--1044262	23	2.0	21	87	8	63	75	2	0	22	0.91
1044323--1044371	24	2.1	23	84	3	62	57	12	4	26	1.53
1048792--1048817	2	13.0	2	100	0	52	50	0	0	50	1.00
1049064--1049107	2	22.0	2	95	0	79	50	2	0	47	1.13
1055611--1055635	13	1.9	13	100	0	50	40	0	0	60	0.97
1056525--1056660	30	4.6	29	77	6	130	41	8	1	49	1.41
1056532--1056655	59	2.1	58	82	8	144	40	8	1	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058948--1059051	30	3.5	30	84	2	129	40	8	0	50	1.33
1058971--1059008	13	3.0	13	84	3	51	47	2	0	50	1.15
1059075--1059116	19	2.2	20	95	4	77	45	4	0	50	1.23
1059172--1059305	29	4.6	29	76	6	110	52	1	8	38	1.41
1059290--1059343	25	2.1	27	83	13	69	51	0	7	40	1.30
1059290--1059343	27	2.1	27	86	6	76	51	0	7	40	1.30
1060153--1060209	27	2.1	27	87	6	80	36	14	3	45	1.61
1062654--1062679	4	6.5	4	100	0	52	26	0	0	73	0.84
1063821--1063875	19	2.9	19	76	10	51	63	1	3	30	1.22
1067315--1067377	31	2.2	27	75	21	74	36	12	22	28	1.91
1067322--1067385	31	2.1	31	100	0	128	39	9	20	31	1.84
1069423--1069475	27	1.9	28	85	11	74	75	3	5	15	1.13
1071721--1072347	252	2.5	252	91	2	983	24	19	23	32	1.98
1072634--1072833	110	1.8	106	84	6	267	26	18	21	34	1.96
1073140--1073335	95	2.1	94	85	3	268	33	17	16	32	1.93
1077408--1077460	27	2.2	23	78	21	63	69	3	11	15	1.31
1077591--1077649	18	3.3	18	79	13	77	77	1	3	16	0.98
1077719--1077745	2	13.5	2	100	0	54	51	0	0	48	1.00
1078003--1078049	2	24.5	2	87	8	71	48	0	0	51	1.00
1079412--1079522	40	2.8	40	87	1	159	30	21	12	35	1.91
1079390--1079523	20	6.6	21	72	17	97	31	23	11	34	1.90
1080458--1080525	24	2.8	24	86	0	91	25	17	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084607--1084687	42	1.9	42	92	0	135	24	17	35	22	1.95
1084607--1084678	21	3.4	21	75	7	74	23	18	34	23	1.96
1084857--1084906	21	2.4	21	79	0	55	34	30	14	22	1.93
1084812--1084906	42	2.3	42	81	7	113	31	31	13	23	1.93
1086833--1086890	22	2.6	22	86	0	89	18	15	41	24	1.89
1101276--1101350	31	2.5	30	80	2	87	42	9	8	40	1.66
1101436--1101488	20	2.7	19	91	2	70	30	18	1	49	1.59
1101436--1101481	20	2.3	20	96	0	83	32	21	2	43	1.65
1106238--1106478	51	4.6	53	77	5	177	48	12	10	28	1.73
1106622--1106649	12	2.3	12	100	0	56	50	0	7	42	1.30
1106935--1107004	35	2.0	35	91	0	113	40	24	1	34	1.64
1107410--1107657	130	1.9	130	91	0	406	36	15	13	35	1.86
1107424--1107688	130	2.0	129	80	4	291	39	13	13	33	1.84
1107979--1108041	28	2.3	27	78	8	63	46	1	3	49	1.27
1108118--1108149	15	2.0	17	88	11	50	62	6	3	28	1.34
1109206--1109314	34	3.2	33	69	21	82	27	8	11	52	1.66
1110580--1110635	16	3.2	16	71	28	51	67	1	3	26	1.16
1110580--1110650	37	1.9	37	83	11	92	69	1	4	25	1.15
1111853--1111911	24	2.5	24	79	17	70	50	0	0	49	1.00
1111870--1111936	3	22.0	3	76	8	55	56	0	0	43	0.99
1111864--1111936	18	4.1	17	77	22	78	54	0	0	45	0.99
1111853--1111922	21	3.3	21	82	9	72	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111876--1111936	15	3.8	16	87	10	81	55	0	0	44	0.99
1112082--1112489	76	5.4	76	95	2	714	35	22	19	23	1.96
1112082--1112489	153	2.7	151	95	1	712	35	22	19	23	1.96
1112614--1112977	76	4.8	76	96	1	676	34	23	19	22	1.96
1112128--1113162	488	2.1	489	96	1	1918	36	20	17	26	1.94
1113966--1114096	54	2.5	54	84	7	155	28	22	15	33	1.94
1114071--1114150	40	2.0	40	100	0	160	30	22	15	32	1.94
1116263--1116598	115	3.0	111	87	7	466	31	20	15	32	1.94
1118833--1118875	7	6.3	7	81	13	54	2	23	0	74	0.93
1118834--1118876	19	2.2	20	84	12	54	2	25	0	72	0.97
1118859--1118909	26	1.9	26	88	11	77	3	21	7	66	1.34
1119939--1119983	23	2.0	23	86	0	63	26	28	24	20	1.99
1119962--1120265	149	2.0	149	98	0	581	34	19	18	28	1.95
1121239--1121273	18	1.9	18	88	11	54	22	17	5	54	1.64
1121844--1121888	21	2.1	21	87	0	63	15	24	28	31	1.96
1125001--1125045	23	2.0	23	81	0	54	26	26	24	22	2.00
1125024--1125325	149	2.0	147	94	1	541	34	18	17	29	1.94
1126301--1126335	18	1.9	18	88	11	54	22	17	5	54	1.64
1126911--1126955	21	2.1	21	87	0	63	15	24	28	31	1.96
1129847--1129884	15	2.6	15	83	4	51	63	7	15	13	1.51
1133590--1133645	16	3.2	16	71	28	51	67	1	3	26	1.16
1133590--1133660	37	1.9	37	83	11	92	69	1	4	25	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134899--1134973	3	25.0	3	79	5	71	57	0	0	42	0.98
1138773--1138813	20	2.0	21	85	4	57	53	0	0	46	1.00
1145503--1145693	20	9.6	20	75	13	144	33	25	15	25	1.95
1148895--1148930	18	2.0	18	94	0	63	55	25	2	16	1.55
1149216--1149319	20	5.5	20	65	13	67	39	21	22	17	1.92
1149420--1149469	25	2.0	25	96	0	91	26	8	22	44	1.80
1149855--1149891	18	2.1	18	89	0	56	32	5	10	51	1.60
1149847--1149899	24	2.2	24	86	0	70	35	3	13	47	1.61
1150208--1150285	33	2.4	33	93	0	129	46	19	16	17	1.85
1150498--1150536	20	2.0	20	94	0	69	38	23	20	17	1.93
1150656--1150792	66	2.2	63	83	10	165	49	16	2	31	1.58
1152010--1152105	21	4.6	21	66	13	63	25	17	33	23	1.96
1152249--1152290	4	10.5	4	84	0	57	69	0	2	28	1.01
1154249--1154299	20	2.5	20	93	0	93	45	21	21	11	1.84
1154728--1154838	20	5.6	20	73	12	84	23	14	20	41	1.89
1154715--1154826	40	2.8	39	77	10	127	22	14	20	42	1.88
1154823--1154880	21	2.8	21	84	2	82	36	17	20	25	1.94
1154884--1154937	20	2.7	20	75	11	65	25	12	31	29	1.93
1155524--1155572	17	2.8	18	81	12	57	32	2	4	61	1.26
1155539--1155630	20	4.2	20	67	24	53	35	4	1	58	1.25
1155572--1155656	37	2.3	36	80	13	86	36	5	0	57	1.23
1161593--1161633	8	5.2	8	82	5	57	34	0	29	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161701--1162428	126	5.8	126	99	0	1422	22	26	18	32	1.97
1161701--1162428	251	2.9	252	98	0	1422	22	26	18	32	1.97
1162818--1162915	31	3.0	34	80	8	130	38	3	4	54	1.35
1163435--1163528	21	4.5	21	92	5	129	20	26	35	18	1.95
1163532--1163579	21	2.3	21	85	0	60	22	12	39	25	1.89
1165295--1165371	32	2.3	33	80	15	86	62	1	0	36	1.04
1169117--1169206	45	2.0	45	100	0	180	48	4	4	42	1.43
1171094--1171341	130	1.9	130	92	0	415	35	12	15	36	1.86
1171738--1171813	35	2.2	35	90	4	118	38	1	21	39	1.62
1174997--1175037	20	2.0	20	86	9	57	53	4	4	36	1.44

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