genome.fa.s7716.2.7.7.80.10.50.1000.5.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: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

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

This is table  5  of  17  ( 1966 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)
1016924--1016971	24	2.0	24	95	0	87	31	20	2	45	1.63
1022985--1023054	31	2.2	31	82	2	86	21	10	15	52	1.71
1024374--1024410	2	18.5	2	100	0	74	48	0	0	51	1.00
1025924--1025961	20	1.9	20	94	0	67	34	10	21	34	1.87
1026011--1026096	15	5.8	15	84	1	120	36	15	17	31	1.91
1026011--1026096	30	2.9	30	91	1	138	36	15	17	31	1.91
1031059--1031129	20	3.5	20	84	3	90	32	14	30	22	1.93
1031549--1031732	57	3.2	57	91	0	287	33	10	20	35	1.88
1037517--1037591	22	3.0	23	73	22	71	50	0	0	49	1.00
1037599--1037686	30	3.0	30	76	17	94	44	0	1	54	1.07
1037680--1037727	23	2.2	20	78	10	51	52	2	2	43	1.24
1038025--1038060	14	2.6	14	90	0	54	30	22	13	33	1.93
1038067--1038108	14	2.9	15	75	7	50	30	16	7	45	1.74
1038077--1038144	36	1.9	35	90	3	109	30	17	8	42	1.80
1039230--1039421	57	3.4	57	90	0	276	32	9	20	36	1.86
1044277--1044387	55	2.0	55	94	0	195	46	9	22	21	1.79
1046747--1046801	22	2.7	20	75	10	56	32	12	23	30	1.92
1050271--1050296	2	13.0	2	100	0	52	50	0	0	50	1.00
1051662--1051712	14	3.5	14	74	10	57	41	7	23	27	1.82
1051634--1051720	30	2.9	30	94	0	147	44	5	24	25	1.75
1054187--1054244	27	2.1	27	87	0	80	41	13	15	29	1.86
1056563--1056669	26	4.1	26	87	0	160	21	12	29	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057721--1057751	2	16.0	2	93	6	55	51	0	0	48	1.00
1069039--1069369	81	4.1	81	89	3	450	29	21	11	37	1.88
1069857--1069903	17	2.6	17	86	10	58	29	23	12	34	1.92
1071643--1071705	29	2.1	30	85	8	85	31	23	6	38	1.80
1078590--1078693	26	4.0	26	88	0	163	21	13	27	37	1.91
1080950--1081003	2	27.0	2	100	0	108	50	0	0	50	1.00
1081372--1081494	39	3.2	39	84	2	158	28	19	23	28	1.98
1083013--1083069	25	2.3	25	80	14	66	45	1	1	50	1.22
1089972--1090017	2	23.0	2	100	0	92	50	0	0	50	1.00
1090356--1090469	39	2.9	39	82	0	156	30	19	23	26	1.98
1091390--1092088	115	6.0	116	72	9	426	26	19	15	38	1.92
1092121--1092395	116	2.4	116	79	3	277	29	22	14	33	1.94
1092372--1092409	20	1.9	20	88	0	58	28	18	13	39	1.88
1108773--1109046	55	5.0	55	88	1	372	30	17	16	35	1.92
1110949--1110980	15	2.1	15	94	0	55	43	0	15	40	1.47
1112360--1112415	27	2.1	27	89	0	85	35	16	19	28	1.93
1113056--1113095	17	2.4	17	86	0	53	32	10	20	37	1.85
1117726--1117768	13	3.3	13	96	0	77	37	9	23	30	1.86
1117717--1117768	26	2.0	26	88	0	77	36	9	23	30	1.87
1119881--1119905	13	1.9	13	100	0	50	52	8	0	40	1.31
1130573--1130607	18	1.9	18	88	0	52	25	17	28	28	1.97
1137849--1137933	39	2.2	39	82	2	98	34	8	31	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139512--1139805	74	3.9	75	85	4	398	31	12	13	41	1.83
1139830--1139895	26	2.6	26	81	13	75	31	3	0	65	1.08
1141652--1141686	16	2.2	16	90	10	54	34	2	11	51	1.53
1145342--1145463	7	17.3	7	74	18	67	75	0	17	7	1.02
1145348--1145441	13	6.3	15	71	21	65	75	0	18	6	1.01
1145349--1145454	28	3.7	26	75	18	79	74	0	17	7	1.04
1145379--1145449	17	4.2	18	78	12	69	76	0	18	5	0.98
1147964--1147996	13	2.6	13	85	4	50	45	21	0	33	1.52
1148176--1148299	36	3.4	36	71	7	99	27	16	16	40	1.89
1148164--1148420	66	3.8	66	81	7	282	27	18	14	39	1.90
1148164--1148420	138	1.9	136	82	8	328	27	18	14	39	1.90
1148241--1148451	66	3.2	65	79	9	230	28	18	12	39	1.88
1148241--1148480	132	1.8	132	80	5	288	30	19	12	37	1.89
1148374--1148618	102	2.4	102	86	2	314	34	17	11	36	1.86
1151327--1151381	3	18.3	3	92	7	94	32	0	0	67	0.91
1152175--1152206	16	2.0	16	100	0	64	37	12	37	12	1.81
1159919--1159964	21	2.1	22	84	11	60	28	13	4	54	1.57
1163275--1163320	21	2.1	22	84	11	60	28	13	4	54	1.57
1167270--1167303	15	2.2	16	89	5	52	64	0	17	17	1.29
1167260--1167340	41	2.0	40	88	4	119	55	0	17	27	1.42
1167849--1167882	11	3.1	11	91	0	50	61	0	5	32	1.20
1170555--1170595	15	2.6	16	75	25	50	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175359--1175424	30	2.2	30	83	0	78	39	22	25	12	1.89
1176258--1176668	204	2.0	205	99	0	815	37	11	9	41	1.74
1178443--1178952	130	3.9	127	80	7	440	25	18	7	48	1.73
1178612--1178938	87	3.8	87	78	4	277	25	18	7	49	1.72
1178442--1178988	173	3.2	170	75	7	516	25	18	7	48	1.73
1178364--1178988	43	14.5	42	74	7	434	25	18	7	48	1.73
1179577--1180197	43	14.5	43	76	7	435	25	18	6	49	1.72
1179577--1180162	85	6.9	85	74	7	427	25	19	6	49	1.72
1179691--1180048	130	2.8	130	82	7	419	25	18	5	49	1.69
1179853--1180183	128	2.6	127	81	8	343	25	18	5	50	1.67
1182691--1182730	18	2.2	18	86	0	53	25	0	30	45	1.54
1182698--1182732	18	1.9	18	94	0	61	22	0	28	48	1.51
1186638--1186710	13	5.6	13	100	0	146	16	38	8	36	1.79
1192760--1192836	20	3.8	19	70	14	57	24	18	23	33	1.96
1199337--1199449	56	2.0	56	98	0	217	27	19	25	27	1.99
1201066--1201106	20	2.1	20	86	4	57	39	9	7	43	1.65
1203458--1203487	14	2.1	14	100	0	60	53	0	26	20	1.46
1212679--1212730	20	2.5	21	81	12	63	34	25	9	30	1.88
1213380--1213546	55	3.0	55	86	5	205	31	20	10	37	1.87
1213462--1213547	28	3.1	28	59	3	66	30	22	10	37	1.87
1215211--1215342	72	1.9	70	87	3	192	21	9	18	50	1.76
1220035--1220081	23	2.0	23	84	8	60	51	14	0	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220732--1220784	19	2.7	20	82	5	72	26	18	7	47	1.75
1223548--1223579	11	2.9	11	100	0	64	46	18	0	34	1.49
1227564--1227618	19	2.9	19	83	0	65	30	18	5	45	1.72
1235280--1235339	25	2.3	26	82	8	68	66	5	10	18	1.39
1237622--1238011	130	3.0	129	80	5	430	32	15	18	32	1.93
1239599--1239640	18	2.3	18	100	0	84	9	33	11	45	1.73
1240287--1240499	113	1.9	113	80	3	250	33	10	14	41	1.80
1242024--1242414	194	2.0	196	98	1	768	26	17	16	38	1.92
1244288--1244330	19	2.3	19	100	0	86	25	9	16	48	1.75
1244727--1244834	54	2.0	54	100	0	216	33	12	16	37	1.87
1245665--1245711	20	2.4	20	86	10	62	48	6	14	29	1.69
1247923--1247964	15	2.6	16	82	17	52	61	0	4	33	1.17
1250186--1250391	42	4.9	41	83	8	229	33	23	24	18	1.96
1250225--1250394	84	2.0	84	88	6	256	34	24	22	19	1.97
1251322--1251385	29	2.2	30	78	13	71	43	14	6	35	1.70
1257582--1257748	42	4.0	41	83	7	185	34	23	22	19	1.96
1257582--1257751	84	2.0	84	85	4	227	35	22	21	20	1.96
1260239--1260382	72	2.0	72	94	1	254	46	13	8	31	1.73
1261744--1261834	29	3.1	29	87	9	96	48	6	14	30	1.69
1261759--1261849	29	3.1	29	90	6	132	48	5	13	32	1.65
1268212--1268236	6	4.2	6	100	0	50	0	16	48	36	1.46
1275914--1275962	19	2.6	19	87	6	64	55	4	6	34	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286027--1286090	29	2.2	30	82	2	76	37	4	23	34	1.76
1287262--1287343	40	2.0	40	100	0	164	23	17	26	32	1.96
1297790--1297855	29	2.3	30	84	7	91	34	18	4	42	1.70
1297838--1297909	29	2.4	30	73	15	78	30	19	6	43	1.77
1300429--1300550	61	2.0	61	87	3	174	30	13	22	32	1.93
1306551--1306596	23	2.0	23	84	16	60	21	15	34	28	1.94
1314908--1314968	20	2.9	21	87	9	88	21	24	32	21	1.98
1328189--1328414	59	3.8	59	95	1	382	29	23	16	30	1.96
1328174--1328427	59	4.3	59	91	3	370	29	22	16	30	1.96
1333440--1333573	65	2.1	65	81	4	155	29	20	17	32	1.95

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