genome.fa.s7790.2.7.7.80.10.50.1000.4.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: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2956777

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

This is table  4  of  11  ( 1250 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)
916307--916525	39	5.6	38	83	5	258	22	23	11	42	1.87
916307--916523	79	2.8	78	87	1	299	23	23	11	41	1.87
916307--916525	118	1.9	118	87	1	323	22	23	11	42	1.87
916567--916919	47	7.7	47	82	6	314	29	20	20	29	1.98
916560--916919	137	2.6	140	81	6	396	29	20	20	30	1.97
916567--916919	185	1.9	183	84	3	465	29	20	20	29	1.98
917571--917713	22	6.5	22	85	1	162	36	11	18	33	1.87
926275--926338	28	2.3	27	81	13	67	57	7	4	29	1.47
928305--928344	21	1.9	21	84	0	53	30	12	17	40	1.86
934323--934360	11	3.5	11	79	13	51	47	7	5	39	1.55
934863--934927	33	2.0	32	82	8	78	24	18	1	55	1.51
935783--935807	12	2.1	12	100	0	50	92	8	0	0	0.40
935805--935933	57	2.3	58	80	11	151	51	5	11	31	1.61
935827--936056	29	7.9	28	74	14	105	52	6	9	31	1.58
935805--935931	29	4.4	29	75	12	104	51	5	11	32	1.60
935919--936115	29	6.7	29	83	5	200	55	8	6	29	1.54
935936--936115	59	3.1	59	83	3	193	55	8	6	30	1.55
935919--936115	88	2.2	89	84	5	249	55	8	6	29	1.54
951284--951362	41	1.9	41	94	0	140	45	8	18	26	1.79
953243--953319	20	3.8	20	69	19	59	42	3	3	49	1.39
959934--960113	89	2.0	90	88	7	269	43	6	11	37	1.67
965561--965659	35	2.9	33	80	7	117	27	17	22	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
967826--967856	7	4.4	7	100	0	62	25	29	29	16	1.96
967874--967961	29	3.0	29	81	8	88	31	27	25	15	1.96
967874--967945	19	3.7	19	75	18	60	29	29	26	15	1.96
967892--967966	9	7.8	9	78	11	60	29	25	26	18	1.98
974869--974916	24	2.0	24	100	0	96	25	20	25	29	1.99
998460--998498	21	1.9	21	89	5	62	33	15	17	33	1.92
1003761--1003856	35	2.8	34	88	1	129	28	20	19	31	1.97
1003777--1003856	34	2.3	35	86	2	108	28	21	18	31	1.97
1004519--1004558	20	2.0	20	95	0	71	37	22	0	40	1.54
1009158--1009237	40	2.0	40	85	0	106	41	17	11	30	1.84
1010916--1010959	20	2.2	20	92	4	72	40	13	0	45	1.44
1012199--1012439	122	2.0	122	88	1	358	36	14	17	31	1.89
1013590--1013680	19	4.8	20	68	17	59	32	9	18	38	1.84
1013580--1013680	38	2.7	38	77	11	116	34	9	19	35	1.85
1013636--1013680	19	2.4	19	84	0	63	40	11	20	28	1.86
1017747--1017862	45	2.6	44	81	12	139	39	9	19	31	1.84
1018218--1018254	12	3.1	12	88	0	56	24	18	27	29	1.98
1018751--1018783	16	2.0	17	88	5	50	57	0	27	15	1.38
1028501--1028731	116	2.0	118	87	2	340	34	15	8	41	1.78
1029703--1029828	65	2.0	64	87	4	182	31	16	22	29	1.96
1030402--1030432	16	1.9	16	93	0	53	51	9	9	29	1.66
1030482--1030545	25	2.4	26	85	15	78	57	23	1	17	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030487--1030566	29	3.0	28	83	8	87	56	22	2	18	1.54
1031992--1032029	13	3.0	13	80	7	51	44	13	10	31	1.77
1035343--1035442	50	2.0	50	90	3	157	40	17	8	35	1.78
1039153--1039193	13	3.2	13	100	0	82	60	14	0	24	1.34
1041591--1041690	48	2.1	48	90	0	155	49	18	12	21	1.79
1042661--1043102	55	8.0	55	84	3	534	36	17	10	35	1.84
1059707--1060367	55	12.0	55	91	0	1056	35	18	11	35	1.86
1068300--1068399	48	2.1	48	94	0	173	48	21	10	21	1.79
1076817--1077802	81	12.2	80	86	3	1287	30	19	12	37	1.88
1077488--1077539	27	2.0	26	82	14	63	32	23	5	38	1.78
1101748--1101876	48	2.6	49	83	2	161	40	16	21	21	1.91
1103606--1103663	28	2.1	28	83	0	71	41	0	10	48	1.37
1103634--1103918	37	7.9	36	74	12	165	42	3	8	45	1.50
1103634--1103832	37	5.4	36	79	9	195	41	3	9	46	1.52
1103634--1103827	76	2.6	75	83	7	225	42	3	9	45	1.52
1103634--1103858	76	3.0	74	76	11	208	43	3	8	44	1.50
1103934--1103963	15	1.9	15	93	6	51	36	6	6	50	1.55
1103952--1103990	21	1.9	20	84	5	51	43	2	10	43	1.52
1103971--1104017	24	2.0	23	84	12	60	44	0	2	53	1.12
1104030--1104072	15	2.9	15	89	6	52	11	11	0	76	1.02
1104030--1104062	15	2.2	15	100	0	66	12	6	0	81	0.85
1105913--1105977	31	2.1	30	82	2	76	49	4	15	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110079--1110217	60	2.3	60	90	4	219	34	13	14	37	1.86
1110196--1110273	31	2.5	31	82	0	84	39	12	12	34	1.82
1114756--1114801	22	2.1	21	96	4	83	36	8	4	50	1.53
1117401--1117449	24	2.1	23	82	17	57	57	2	6	34	1.35
1118837--1118951	13	8.9	13	67	18	62	47	3	3	45	1.36
1118834--1118899	30	2.2	31	81	8	82	50	3	1	45	1.26
1118862--1118921	18	3.3	18	79	11	68	45	5	3	46	1.41
1118869--1118927	18	3.2	18	80	9	57	47	5	1	45	1.34
1118835--1118958	15	8.3	15	72	16	73	48	4	3	44	1.37
1119112--1119189	19	4.2	19	86	3	97	47	0	24	28	1.52
1119126--1119202	19	3.9	19	83	10	93	50	0	22	27	1.49
1119413--1119599	2	96.0	2	71	16	135	47	2	4	45	1.34
1119958--1120049	14	6.6	14	74	9	55	46	28	0	25	1.53
1119998--1120049	21	2.5	21	87	0	68	48	30	0	21	1.51
1120005--1120049	7	6.4	7	89	0	63	48	33	0	17	1.48
1120166--1120212	14	3.7	14	71	26	50	51	4	0	44	1.21
1120164--1120213	23	2.1	24	96	3	93	48	4	0	48	1.20
1120455--1120487	16	2.1	16	94	0	57	39	12	27	21	1.88
1124677--1124719	17	2.5	17	82	17	54	2	11	6	79	1.02
1125118--1125238	36	3.3	36	87	1	161	29	3	37	29	1.73
1128736--1128770	14	2.4	15	95	4	63	5	14	8	71	1.29
1129237--1129357	36	3.3	36	85	1	161	28	2	38	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132846--1132883	6	6.2	6	82	17	51	0	18	0	81	0.69
1132852--1132888	14	2.5	15	91	8	67	0	18	0	81	0.70
1133353--1133469	36	3.2	36	86	4	173	26	4	37	31	1.76
1134951--1135144	36	5.8	35	68	19	135	42	14	18	24	1.88
1134994--1135079	35	2.7	32	81	15	106	44	15	17	23	1.86
1134953--1135164	65	3.2	65	85	5	295	41	14	18	25	1.88
1136653--1136710	25	2.4	24	83	11	73	55	1	6	36	1.37
1141909--1142134	110	2.1	110	97	0	425	35	8	20	35	1.83
1142317--1142362	23	2.0	23	86	0	65	17	21	26	34	1.95
1151663--1151736	30	2.3	32	84	15	109	79	0	13	6	0.91
1151674--1151723	16	3.1	16	81	18	68	82	0	16	2	0.77
1152935--1153257	135	2.4	135	90	0	484	29	18	19	32	1.95
1159278--1159415	68	2.0	68	100	0	276	34	13	7	44	1.71
1160986--1161030	22	2.0	22	86	4	63	46	0	6	46	1.29
1163418--1163456	20	2.0	20	89	0	60	33	10	23	33	1.88
1165136--1165294	85	1.9	85	85	0	219	32	21	16	29	1.95
1173134--1173443	157	2.0	158	99	0	613	27	20	20	31	1.97
1188957--1188985	13	2.2	13	100	0	58	55	0	0	44	0.99
1201226--1201481	140	1.8	138	83	5	336	43	12	15	27	1.83
1203770--1203814	21	2.0	21	83	8	54	80	4	11	4	1.01
1203748--1203801	13	4.4	13	75	9	51	79	3	14	1	0.95
1203759--1203816	23	2.5	24	78	13	59	79	5	10	5	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205901--1205936	18	2.0	18	88	0	54	44	0	5	50	1.25
1210041--1210327	155	1.9	155	82	7	368	31	18	12	37	1.88
1213708--1213770	3	20.3	3	75	12	56	39	1	1	57	1.18
1214284--1214324	20	2.0	20	90	0	64	58	19	19	2	1.50
1214298--1214335	19	2.0	20	84	5	51	63	23	13	0	1.30
1215362--1215520	40	4.0	40	90	4	268	40	3	0	56	1.15
1215346--1215520	79	2.2	81	90	4	284	39	2	0	57	1.13
1215346--1215524	40	4.4	40	88	7	231	39	2	0	57	1.13
1215495--1215553	29	2.0	31	86	6	86	32	0	1	66	1.02
1215639--1215670	2	17.0	2	87	12	50	50	0	0	50	1.00

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