genome.fa.s402.2.7.7.80.10.50.1000.5.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: VEPZ01000402.1 Hibiscus syriacus cultivar Beakdansim tig00000738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1701760

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 816 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)
917373--917401	12	2.4	12	100	0	58	0	17	24	58	1.38
919420--919471	22	2.4	22	96	0	95	30	21	13	34	1.92
922082--922133	24	2.2	24	86	6	70	25	15	21	38	1.92
924615--925034	158	2.7	157	83	4	490	27	20	6	45	1.75
928747--928964	106	2.1	106	96	0	400	29	12	22	35	1.91
932893--933049	64	2.4	63	80	6	163	33	18	24	24	1.97
933037--933094	20	2.6	22	89	10	84	31	20	22	25	1.98
934533--934593	23	2.7	23	81	0	86	19	24	24	31	1.98
939699--939759	23	2.7	23	94	0	104	18	24	26	31	1.97
944184--944233	26	1.9	26	87	0	73	30	20	22	28	1.98
945071--945144	18	3.9	18	81	10	94	27	28	22	21	1.99
945071--945148	39	2.0	39	97	0	147	28	26	23	21	1.99
946700--946841	63	2.2	64	81	6	155	23	21	21	33	1.97
949084--949227	63	2.3	63	88	0	216	32	26	15	25	1.95
951375--951555	95	1.9	95	95	0	326	20	18	19	40	1.91
953533--953573	20	2.0	20	95	0	73	17	26	4	51	1.65
956394--956464	18	3.9	18	88	0	106	19	19	30	29	1.97
956385--956462	36	2.1	38	88	4	115	19	17	32	30	1.95
958812--958858	19	2.6	18	80	12	51	53	0	27	19	1.45
960659--960708	2	25.0	2	100	0	100	50	0	0	50	1.00
961663--961733	18	3.9	18	96	0	106	16	16	33	32	1.92
967066--967105	20	2.0	20	90	0	62	25	20	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
975497--975537	2	20.5	2	100	0	82	51	0	0	48	1.00
979338--979861	83	6.3	83	83	0	600	32	17	20	29	1.96
982195--982245	26	2.0	26	88	7	77	43	1	21	33	1.64
992997--993021	4	6.2	4	100	0	50	24	0	0	76	0.80
1002121--1002169	22	2.1	22	81	7	53	57	2	2	38	1.22
1003596--1003695	3	33.7	3	89	2	157	65	0	1	34	1.00
1003850--1004489	117	5.4	116	93	2	1037	29	20	15	34	1.93
1003850--1004489	235	2.7	232	93	3	1050	29	20	15	34	1.93
1005131--1005479	52	6.7	52	97	0	644	37	23	14	24	1.93
1006633--1006717	20	4.2	20	79	8	84	3	17	0	78	0.88
1006633--1006710	5	15.6	5	74	21	58	2	16	0	80	0.82
1006633--1006715	39	2.2	39	86	6	116	2	16	0	80	0.81
1006633--1006715	32	2.5	33	83	9	100	2	16	0	80	0.81
1006633--1006715	27	2.9	28	79	15	89	2	16	0	80	0.81
1018033--1018081	22	2.1	22	81	7	53	57	2	2	38	1.22
1019017--1019043	6	4.5	6	100	0	54	0	33	14	51	1.43
1019511--1019610	3	33.7	3	89	2	157	65	0	1	34	1.00
1025563--1025610	24	2.0	24	100	0	96	25	16	33	25	1.96
1034405--1034469	28	2.3	28	100	0	130	24	35	30	9	1.87
1035811--1035857	20	2.2	22	81	11	62	21	6	19	53	1.67
1042657--1042958	164	1.9	162	91	2	498	27	15	17	40	1.89
1057250--1057298	3	16.7	3	91	4	82	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062826--1062860	18	1.9	18	94	0	61	17	22	31	28	1.96
1068414--1068445	16	2.0	16	93	0	55	46	15	18	18	1.84
1068821--1068846	11	2.4	11	100	0	52	92	0	7	0	0.39
1073039--1073166	63	2.0	63	92	0	211	32	15	17	34	1.92
1074599--1074645	18	2.9	16	81	9	51	46	2	2	48	1.25
1079724--1079755	13	2.5	13	94	0	55	37	31	12	18	1.88
1084463--1084492	15	2.0	15	100	0	60	20	13	20	46	1.83
1090059--1090092	17	2.0	17	88	11	52	64	0	2	32	1.08
1091078--1091123	24	2.0	24	86	4	67	19	26	15	39	1.91
1094776--1094843	28	2.5	27	90	4	109	14	8	33	42	1.77
1094786--1094843	28	2.1	28	100	0	116	13	6	31	48	1.69
1094788--1094850	28	2.5	25	85	12	67	15	6	34	42	1.73
1095419--1095462	18	2.6	18	82	7	56	29	27	0	43	1.55
1100262--1100286	7	3.6	7	100	0	50	0	12	0	88	0.53
1105727--1105756	15	1.9	16	93	6	53	50	6	0	43	1.28
1119916--1119967	21	2.5	21	96	0	95	30	3	3	61	1.32
1119918--1119983	21	3.1	21	88	0	78	34	4	1	59	1.27
1121877--1121943	26	2.6	26	100	0	134	23	23	31	20	1.98
1123321--1123744	55	7.7	55	88	4	565	28	25	16	30	1.96
1123321--1123744	166	2.6	164	87	4	572	28	25	16	30	1.96
1124754--1124826	11	6.6	11	74	12	60	9	10	0	79	0.94
1124762--1124793	14	2.4	13	94	5	55	9	0	0	90	0.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124754--1124799	22	2.0	23	87	4	67	10	4	0	84	0.75
1124762--1124799	12	3.2	12	88	3	51	10	2	0	86	0.66
1136756--1136822	26	2.6	26	100	0	134	23	23	31	20	1.98
1139050--1139270	108	2.1	107	81	4	257	27	26	4	41	1.75
1139936--1139997	2	31.0	2	100	0	124	50	0	0	50	1.00
1141216--1141267	26	2.0	26	96	0	95	30	13	19	36	1.90
1144501--1144559	26	2.3	26	82	5	66	38	6	5	49	1.52
1144788--1144862	38	2.0	37	87	5	107	48	4	0	48	1.20
1154220--1154287	29	2.3	30	90	7	104	19	23	23	33	1.97
1155848--1155910	2	31.5	2	100	0	126	50	0	0	49	1.00
1156107--1156149	22	1.9	23	85	4	61	46	2	0	51	1.13
1157786--1157822	15	2.5	15	95	0	65	43	8	8	40	1.64
1158928--1158994	2	33.5	2	100	0	134	50	0	0	49	1.00
1159156--1159225	12	5.8	12	80	6	79	51	18	15	14	1.77
1159156--1159248	24	3.9	24	85	0	105	50	18	13	17	1.78
1159154--1159262	48	2.3	48	85	3	139	49	17	15	17	1.80
1159155--1159262	24	4.5	24	79	4	85	49	17	15	17	1.81
1161768--1161804	13	2.8	13	95	0	65	13	24	45	16	1.83
1163939--1164008	12	5.8	12	80	6	79	51	18	15	14	1.77
1163939--1164031	24	3.9	24	85	0	105	50	18	13	17	1.78
1163937--1164045	48	2.3	48	85	3	139	49	17	15	17	1.80
1163938--1164045	24	4.5	24	79	4	85	49	17	15	17	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166501--1166530	7	4.3	7	100	0	60	26	30	30	13	1.94
1166537--1166567	13	2.4	13	100	0	62	12	22	48	16	1.80
1168704--1168796	12	7.8	12	71	9	73	49	18	13	18	1.80
1168702--1168810	24	4.5	24	79	2	121	48	17	15	18	1.81
1168700--1168810	48	2.3	48	87	3	152	48	17	15	18	1.81
1178558--1178588	6	5.2	6	100	0	62	16	51	0	32	1.44
1187317--1187348	15	2.1	15	100	0	64	53	0	12	34	1.39
1187817--1187842	10	2.6	10	100	0	52	26	15	0	57	1.38
1188385--1188419	14	2.6	14	95	4	63	51	8	0	40	1.33
1191690--1191749	26	2.3	26	97	0	111	13	41	21	23	1.88
1192516--1192758	104	2.3	103	81	6	269	31	14	20	34	1.92
1196363--1196392	16	1.9	16	93	6	53	26	10	13	50	1.73
1198465--1198539	39	1.9	39	94	0	132	33	16	29	21	1.95
1201667--1201704	20	1.9	20	100	0	76	39	10	26	23	1.87
1205374--1205422	18	2.7	18	80	0	62	22	34	14	28	1.93
1207890--1207940	27	2.0	25	84	7	66	58	0	7	33	1.27
1207967--1208012	2	23.5	2	84	4	58	45	2	2	50	1.26
1209172--1209232	13	4.8	13	78	11	72	27	0	3	68	1.05
1211437--1211571	5	27.0	5	100	0	270	60	0	0	40	0.97
1211942--1211994	9	5.6	9	76	12	52	22	60	0	16	1.36
1211943--1211994	12	4.1	12	78	9	50	23	61	0	15	1.33
1212727--1212801	34	2.2	35	90	2	116	40	22	0	37	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213198--1213445	130	1.9	130	93	0	424	36	15	12	35	1.86
1213212--1213476	130	2.0	129	81	4	309	39	13	13	33	1.83
1213917--1213950	16	2.0	18	88	11	54	64	5	2	26	1.30
1216007--1216063	28	2.0	29	89	3	89	26	19	15	38	1.92
1220596--1220650	28	1.9	29	85	3	76	27	18	16	38	1.92
1233953--1234020	16	4.2	16	80	14	70	72	1	20	5	1.14
1234009--1234068	18	3.4	17	71	17	50	75	3	16	5	1.12
1233953--1234076	45	2.7	45	79	8	126	72	1	20	5	1.13
1233915--1234076	47	3.6	45	72	20	122	73	1	17	7	1.13
1234043--1234082	14	2.9	14	81	3	55	75	2	17	5	1.10

Tables:   1   2   3   4   5   6   7