genome.fa.s8056.2.7.7.80.10.50.1000.6.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: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2370532

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1489 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)
976133--976190	26	2.2	27	90	3	91	29	27	5	37	1.78
982697--982734	16	2.3	17	86	4	51	21	10	2	65	1.35
986993--987047	24	2.3	25	84	15	80	61	7	18	12	1.53
991214--991280	30	2.3	29	94	2	116	31	19	16	32	1.94
992735--992777	3	14.3	3	90	9	70	67	0	0	32	0.91
995029--995068	5	8.2	5	89	10	57	57	0	22	20	1.41
995035--995066	11	3.1	11	91	8	50	62	0	18	18	1.33
995029--995068	16	2.4	17	91	8	64	57	0	22	20	1.41
1000035--1000098	24	2.7	24	80	2	76	50	21	7	20	1.73
1010609--1012442	134	13.6	134	77	4	1429	32	21	14	31	1.93
1010693--1012395	536	3.2	536	80	4	1733	32	21	14	31	1.93
1034265--1034467	84	2.4	84	85	8	268	32	20	18	29	1.96
1034503--1034554	2	26.5	2	96	3	97	50	0	0	50	1.00
1037888--1038013	63	2.0	64	95	3	229	34	22	13	30	1.92
1039315--1039347	2	17.0	2	93	6	59	48	0	0	51	1.00
1039525--1039551	2	13.5	2	100	0	54	51	48	0	0	1.00
1041902--1041946	19	2.4	18	85	10	63	17	15	8	57	1.63
1045641--1045671	14	2.2	14	94	0	53	32	0	16	51	1.44
1045643--1045673	16	1.9	16	100	0	62	32	0	16	51	1.44
1050711--1050741	2	16.0	2	93	6	55	48	0	0	51	1.00
1054246--1054272	11	2.5	11	100	0	54	25	7	29	37	1.83
1056084--1056127	18	2.4	18	88	7	63	70	0	9	20	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056086--1056178	43	2.2	43	84	0	123	67	1	11	19	1.27
1056909--1056948	19	2.0	20	85	4	55	60	5	2	32	1.32
1059667--1059705	21	1.9	21	94	5	71	51	0	0	48	1.00
1063429--1063934	256	2.0	251	95	4	906	36	19	23	20	1.95
1065250--1065384	20	6.7	20	80	7	121	33	24	17	24	1.96
1065247--1065384	61	2.3	61	85	0	195	34	23	17	23	1.96
1065552--1065595	22	2.0	22	91	8	72	22	45	13	18	1.84
1065552--1065603	22	2.5	21	84	12	63	23	44	11	21	1.84
1065855--1065913	20	3.0	20	87	0	73	16	18	22	42	1.89
1067230--1067267	18	2.1	18	90	0	58	26	39	15	18	1.91
1067754--1067830	20	3.9	20	87	1	102	36	22	25	15	1.93
1067803--1067898	19	5.6	19	64	25	70	45	20	20	12	1.83
1067805--1067893	32	2.7	33	89	3	144	47	21	20	11	1.81
1067910--1067986	14	4.9	14	82	14	55	11	18	22	48	1.80
1067926--1068044	19	6.5	18	77	15	111	15	21	20	43	1.87
1067888--1068022	51	2.6	52	88	4	184	14	20	22	42	1.87
1067987--1068042	20	2.8	19	86	7	76	17	25	21	35	1.95
1069906--1069941	14	2.6	14	90	0	54	30	0	22	47	1.52
1070074--1070122	19	2.6	19	100	0	98	48	16	20	14	1.80
1070074--1070141	19	3.9	18	81	14	81	48	17	20	13	1.80
1070160--1070213	20	2.7	20	94	0	81	14	22	24	38	1.91
1070429--1070520	20	4.6	20	73	2	76	20	18	21	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070505--1070556	20	2.5	21	87	3	70	21	23	17	38	1.93
1071463--1071496	11	3.0	11	95	4	59	73	0	26	0	0.83
1073785--1073915	19	7.7	19	66	23	94	42	19	22	14	1.88
1073785--1073911	33	3.8	33	88	4	202	42	19	22	14	1.88
1073786--1073918	66	2.0	66	97	0	248	41	19	22	16	1.90
1073940--1073977	19	2.0	19	100	0	76	10	21	21	47	1.80
1074093--1074128	13	2.6	14	82	8	56	44	25	0	30	1.54
1075496--1075661	21	7.9	21	65	7	77	23	19	35	21	1.96
1075482--1075687	42	4.9	41	75	9	182	23	18	36	21	1.95
1075512--1075687	84	2.1	84	98	0	343	23	17	37	21	1.94
1075906--1076090	91	2.0	90	89	6	282	47	17	11	22	1.80
1077713--1077834	20	6.8	19	67	20	75	42	20	24	12	1.86
1077738--1077834	33	2.9	33	92	1	158	40	22	25	11	1.87
1077835--1077900	18	3.5	19	79	4	62	12	15	24	48	1.78
1078419--1078548	20	6.4	20	84	5	136	24	17	25	32	1.97
1078419--1078573	81	1.9	81	80	2	177	23	18	24	33	1.97
1078623--1078663	21	2.0	21	85	0	55	34	31	17	17	1.93
1082474--1082521	3	15.3	3	87	8	69	35	0	0	64	0.94
1082474--1082521	13	3.8	12	84	10	69	35	0	0	64	0.94
1082593--1082627	12	2.8	12	87	12	52	40	45	14	0	1.45
1082892--1082942	3	16.3	3	84	8	66	33	0	1	64	1.05
1085117--1085484	131	2.8	131	86	2	551	32	10	16	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1087221--1087256	5	7.2	5	90	0	54	41	19	16	22	1.90
1098675--1098908	45	5.2	45	95	1	398	33	9	25	31	1.88
1104949--1105042	41	2.3	41	94	0	161	37	11	22	28	1.89
1104975--1105042	22	3.2	22	69	12	70	36	11	23	27	1.90
1105582--1105652	22	3.2	22	67	11	63	33	11	25	29	1.91
1105564--1105809	45	5.4	45	90	1	359	35	10	23	30	1.89
1106430--1106495	3	22.3	3	81	9	82	33	1	3	62	1.20
1116387--1116561	91	1.9	91	89	2	271	42	16	18	23	1.89
1116717--1116774	3	19.7	3	81	16	68	34	0	1	63	1.04
1116717--1116774	20	2.7	23	80	17	56	34	0	1	63	1.04
1116717--1116772	17	3.4	17	83	9	71	33	0	1	64	1.04
1116732--1116791	26	2.4	26	78	15	72	33	0	0	66	0.92
1116739--1116784	20	2.3	19	82	10	56	32	0	0	67	0.91
1118448--1118513	32	2.1	31	82	2	78	22	3	7	66	1.31
1119784--1119829	3	15.0	3	90	4	74	34	2	0	63	1.07
1119785--1119846	31	2.0	30	84	12	81	33	1	1	62	1.14
1121933--1122416	131	3.7	130	87	3	661	30	11	17	40	1.85
1123228--1123273	23	2.0	23	82	0	56	32	26	23	17	1.97
1123237--1123309	36	2.0	36	84	5	94	34	21	24	19	1.96
1123407--1123476	28	2.5	28	92	0	113	32	15	15	35	1.90
1132156--1132243	6	14.5	6	73	21	60	79	1	12	6	0.98
1132153--1132245	20	4.5	20	74	20	68	79	1	12	6	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132176--1132257	14	5.3	15	72	17	62	79	1	12	7	0.99
1132151--1132259	54	2.0	53	84	11	143	76	0	13	9	1.07
1132153--1132257	40	2.6	38	81	16	108	79	0	12	7	0.99
1133491--1134053	134	4.2	134	82	4	627	31	23	15	29	1.95
1133487--1134053	268	2.1	269	83	2	703	31	23	14	29	1.95
1137584--1137622	20	2.0	19	85	5	51	43	15	12	28	1.83
1138131--1138209	41	1.9	41	100	0	158	34	32	17	15	1.91
1138779--1138805	14	1.9	14	100	0	54	66	14	0	18	1.25
1145777--1145814	18	2.1	19	85	5	51	78	7	0	13	0.94
1146022--1146474	119	3.8	123	82	11	544	46	15	16	21	1.84
1146223--1146256	4	8.8	4	93	6	61	76	0	0	23	0.79
1146645--1146712	33	2.1	33	100	0	136	42	14	19	23	1.88
1147620--1147712	44	2.1	44	84	4	116	25	16	19	38	1.92
1147651--1147957	130	2.3	132	83	4	388	31	18	17	32	1.94
1148035--1148092	19	2.9	21	69	23	61	25	20	10	43	1.84
1148410--1148467	21	2.8	21	89	0	80	36	13	20	29	1.91
1148445--1148565	37	3.6	35	69	25	116	38	14	23	24	1.92
1148453--1148754	64	4.8	64	78	12	277	36	13	22	28	1.92
1148453--1148682	64	3.5	65	81	9	290	36	13	23	27	1.92
1148774--1148814	21	2.0	21	90	0	64	34	12	14	39	1.84
1148843--1148915	35	2.1	36	94	2	130	36	12	26	24	1.91
1149103--1149183	36	2.2	36	95	0	144	37	13	24	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150354--1150496	11	12.9	11	75	19	95	2	17	3	76	1.02
1150356--1150510	5	29.4	5	68	21	77	1	16	3	78	1.00
1150368--1150507	27	5.3	28	71	20	99	2	15	3	78	0.98
1150355--1150516	50	3.3	47	72	22	136	2	16	4	77	1.04
1150355--1150499	39	3.8	39	80	10	160	2	16	3	77	0.99
1150382--1150516	45	3.0	45	77	15	136	2	16	4	76	1.07
1150367--1150510	78	1.9	76	81	12	179	2	15	3	78	0.98
1158763--1158948	20	9.4	20	77	10	152	25	25	20	29	1.99
1158839--1158948	37	2.9	38	83	5	143	28	25	21	24	1.99
1158919--1159041	56	2.2	56	95	1	221	31	24	17	26	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13