genome.fa.s8280.2.7.7.80.10.50.1000.5.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  5  of  17  ( 1944 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)
1010407--1010481	24	3.1	24	88	3	98	56	21	10	12	1.66
1016036--1016134	21	4.8	20	75	6	81	37	23	18	21	1.94
1016101--1016255	40	3.8	40	82	4	186	37	26	18	18	1.93
1016101--1016254	20	7.7	20	80	7	168	37	26	18	18	1.93
1016637--1016707	33	2.2	33	92	0	115	11	22	18	47	1.80
1016787--1016896	21	5.8	20	74	17	108	45	18	24	11	1.83
1016780--1016896	41	3.1	38	81	14	145	46	17	25	11	1.81
1016847--1016903	14	3.7	14	75	20	60	43	22	24	8	1.81
1016839--1016919	33	2.5	33	95	0	144	46	22	22	8	1.78
1016915--1017012	19	5.7	19	70	22	90	11	22	22	43	1.84
1016937--1017026	14	5.7	14	69	23	63	10	23	23	43	1.83
1016920--1017034	33	3.5	33	95	0	212	10	22	20	46	1.81
1018730--1019470	93	8.1	93	97	2	1401	21	13	19	46	1.83
1019518--1019646	19	7.3	19	73	17	116	45	27	17	9	1.78
1019554--1019646	33	2.8	32	90	4	141	46	26	18	8	1.78
1019518--1019646	52	2.5	52	74	12	138	45	27	17	9	1.78
1019642--1019776	19	7.6	19	75	16	128	11	19	23	45	1.82
1019664--1019720	14	3.7	14	77	20	60	10	21	22	45	1.82
1019647--1019739	33	2.8	33	95	0	168	10	20	21	47	1.80
1020932--1020967	14	2.6	14	90	0	54	30	0	22	47	1.52
1021074--1021171	19	5.4	19	84	13	143	45	17	21	15	1.84
1021074--1021189	53	2.2	53	96	1	216	43	18	23	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021218--1021401	19	10.4	19	79	17	227	14	21	17	46	1.83
1021196--1021401	52	3.9	52	83	9	276	14	21	17	46	1.84
1021218--1021434	71	3.1	72	92	3	347	13	21	18	46	1.84
1021237--1021415	33	5.2	33	85	10	261	13	21	18	46	1.83
1024606--1024835	20	11.5	20	84	1	228	19	18	24	37	1.94
1024822--1024904	21	4.0	21	71	6	69	26	16	22	33	1.96
1028913--1028962	21	2.3	22	86	6	66	44	0	6	50	1.26
1029611--1029635	4	6.2	4	100	0	50	24	0	0	76	0.80
1036508--1036620	31	3.7	29	81	10	118	48	2	3	45	1.33
1038908--1039651	365	2.0	366	86	3	1019	28	17	21	32	1.96
1040306--1040338	2	16.5	2	100	0	66	48	0	0	51	1.00
1052643--1052673	14	2.2	14	94	0	53	35	9	19	35	1.85
1053446--1053575	56	2.3	56	85	0	161	30	13	14	40	1.85
1053815--1053996	56	3.2	56	82	9	210	31	11	13	43	1.79
1053894--1054012	56	2.1	56	84	1	159	32	15	10	41	1.81
1056743--1056788	22	2.2	20	84	7	56	60	2	8	28	1.38
1057689--1057740	21	2.5	21	84	3	70	40	19	23	17	1.91
1057729--1057843	20	5.7	20	83	6	124	32	25	19	23	1.97
1057708--1057857	61	2.5	61	85	2	194	35	24	18	22	1.96
1058031--1058074	22	2.0	22	90	0	70	22	45	13	18	1.84
1058318--1058381	20	3.2	20	86	0	83	15	18	21	43	1.87
1058518--1058572	25	2.2	24	78	15	58	20	9	18	52	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060203--1060269	20	3.4	20	81	2	73	38	23	22	14	1.92
1060258--1060315	14	3.9	14	75	16	62	48	22	17	12	1.80
1060242--1060332	32	2.8	33	91	3	157	47	20	18	13	1.82
1060356--1060455	33	3.1	33	91	1	166	15	19	20	46	1.85
1060440--1060495	20	2.8	19	86	7	76	16	25	23	35	1.94
1060526--1060594	25	2.7	26	73	8	70	21	11	14	52	1.73
1062365--1062400	14	2.6	14	90	0	54	30	0	22	47	1.52
1062527--1062580	14	3.5	14	77	22	63	48	20	20	11	1.80
1062646--1062699	20	2.7	20	91	0	81	18	20	22	38	1.93
1062913--1063004	20	4.6	20	71	2	67	21	18	20	39	1.93
1062989--1063038	20	2.4	21	86	3	66	20	24	16	40	1.91
1063237--1063271	12	2.9	12	86	0	52	17	40	5	37	1.73
1063825--1063879	24	2.3	24	90	0	83	23	16	20	40	1.91
1064054--1064089	6	6.0	6	86	0	54	77	0	22	0	0.76
1064057--1064089	12	2.8	12	100	0	66	75	0	24	0	0.80
1066367--1066493	33	3.8	33	78	4	157	43	18	22	16	1.88
1066375--1066501	66	1.9	66	91	0	209	42	18	22	17	1.89
1066493--1066568	19	4.3	19	77	16	90	13	22	21	43	1.86
1066675--1066711	14	2.6	14	91	0	65	45	24	0	29	1.53
1068082--1068247	21	7.9	21	65	7	77	22	20	36	21	1.96
1068068--1068273	42	4.9	41	73	9	164	22	18	36	21	1.95
1068098--1068273	84	2.1	84	98	0	343	22	18	38	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068492--1068676	91	2.0	93	89	6	288	47	18	11	22	1.80
1073075--1073112	20	1.9	20	88	0	58	42	21	23	13	1.88
1073083--1073167	33	2.5	33	96	1	152	38	23	25	11	1.89
1073075--1073214	19	7.8	19	72	16	120	43	21	22	12	1.85
1073083--1073214	33	3.8	33	84	7	138	42	22	22	12	1.87
1073777--1073829	20	2.7	20	93	0	88	26	20	28	24	1.99
1073860--1073915	21	2.7	21	97	0	103	14	26	19	39	1.90
1073798--1073892	41	2.3	41	80	3	102	21	20	23	35	1.96
1073860--1073932	21	3.5	21	88	1	85	16	26	19	38	1.92
1073963--1074003	21	2.0	21	85	0	55	34	29	17	19	1.94
1075712--1075756	20	2.4	19	85	7	65	26	17	4	51	1.65
1075719--1075756	20	1.9	20	94	0	67	26	18	5	50	1.68
1076567--1076624	28	2.2	26	87	6	80	50	0	0	50	1.00
1076596--1076625	15	1.9	16	93	6	53	50	0	0	50	1.00
1077276--1077328	22	2.4	22	93	0	88	37	32	24	5	1.79
1085030--1085070	19	2.2	19	100	0	82	34	21	9	34	1.87
1094368--1094449	41	2.0	40	90	2	128	40	12	18	29	1.87
1120828--1120922	48	2.0	48	97	0	181	46	21	11	21	1.82
1122740--1122808	23	3.0	23	82	0	84	26	23	27	23	2.00
1137567--1137599	15	2.2	15	94	0	57	54	0	0	45	0.99
1145335--1145437	31	3.3	31	67	18	88	38	16	22	22	1.92
1145325--1145446	63	1.9	63	94	0	217	36	17	22	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146607--1146648	20	2.1	20	86	0	57	38	19	19	23	1.93
1146706--1147761	105	10.0	105	95	0	1860	21	18	25	34	1.96
1146706--1147761	316	3.3	315	95	1	1898	21	18	25	34	1.96
1146706--1147761	421	2.5	420	96	0	1932	21	18	25	34	1.96
1148508--1148620	58	1.9	58	87	7	167	12	19	12	55	1.68
1159360--1159478	62	1.9	60	86	8	168	35	17	21	26	1.95
1164969--1165037	27	2.6	27	100	0	138	31	17	18	31	1.94
1165089--1165133	16	2.8	16	96	0	81	33	17	13	35	1.89
1167985--1168301	158	2.0	158	99	0	625	34	18	19	27	1.95
1192719--1193151	217	2.0	215	99	0	848	29	25	15	30	1.96
1201313--1201357	2	22.5	2	100	0	90	51	0	0	48	1.00
1201667--1201712	22	2.0	23	83	4	58	56	17	2	23	1.52
1229296--1229788	188	2.5	191	82	7	579	22	16	11	49	1.77
1234604--1234674	34	2.1	34	86	0	97	50	5	2	40	1.40
1235648--1235686	5	7.8	5	94	0	69	0	61	0	38	0.96
1243452--1243544	48	1.9	48	91	0	150	18	17	31	33	1.94
1254489--1254558	27	2.6	27	95	0	122	30	10	15	44	1.79
1258236--1258357	27	4.6	27	92	2	194	30	12	13	43	1.81
1265311--1265351	18	2.3	18	86	0	55	29	7	2	60	1.36
1265594--1265637	23	1.9	23	85	0	61	29	25	27	18	1.98
1267537--1267594	20	2.7	20	86	10	71	22	22	22	32	1.98
1271672--1271710	20	2.0	20	89	0	60	17	25	23	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274804--1274857	28	1.9	28	85	14	76	72	5	1	20	1.14
1278444--1278520	38	2.0	38	97	0	145	41	24	5	28	1.76
1280424--1280485	22	2.8	22	97	0	115	12	27	33	25	1.93
1282854--1282892	20	2.0	20	100	0	78	25	17	15	41	1.89
1283254--1283295	12	3.4	12	81	15	50	57	0	0	42	0.99
1283254--1283295	13	3.4	13	80	12	52	57	0	0	42	0.99
1283384--1283437	18	2.9	19	77	22	62	40	0	0	59	0.98
1283371--1283430	30	2.0	30	84	9	79	35	1	0	63	1.05
1290183--1290241	21	2.8	21	89	0	91	16	22	32	28	1.96
1290203--1290252	21	2.4	21	86	0	64	24	18	32	26	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17