genome.fa.s9021.2.7.7.80.10.50.1000.4.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: VEPZ01009021.1 Hibiscus syriacus cultivar Beakdansim tig00112411_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1242735

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 520 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)
889565--889589	13	1.9	13	100	0	50	48	20	32	0	1.50
897381--897431	19	2.6	20	90	3	77	43	23	17	15	1.88
897381--897618	20	11.6	20	74	10	104	39	19	22	17	1.92
897485--897618	43	3.2	42	83	10	184	36	17	26	19	1.94
897721--897927	6	34.5	6	100	0	414	33	50	16	0	1.46
898618--898661	6	7.5	6	94	5	81	0	15	50	34	1.45
898739--898782	20	2.2	20	91	0	70	11	18	15	54	1.70
898771--899001	40	5.7	40	88	3	282	20	25	17	36	1.94
898769--899022	83	3.1	83	86	2	336	20	25	18	36	1.94
898769--899126	20	17.6	20	78	6	227	18	22	18	39	1.92
900301--900372	15	4.9	15	82	3	101	41	6	19	31	1.78
900301--900372	30	2.4	30	97	2	137	41	6	19	31	1.78
900355--900424	20	3.5	20	96	0	131	40	10	14	35	1.79
900591--900654	27	2.3	26	82	12	74	50	1	1	46	1.20
900701--900775	21	3.5	22	75	8	66	52	0	0	48	1.00
900706--900760	9	5.6	10	78	16	53	54	0	0	45	0.99
900947--901066	42	2.9	42	92	0	204	44	18	20	16	1.87
904488--904540	13	4.0	13	73	4	52	39	5	3	50	1.44
904848--904909	28	2.2	28	94	0	106	54	17	12	14	1.70
904848--904920	28	2.7	26	85	8	69	58	16	12	12	1.62
904915--904972	23	2.6	23	80	2	55	51	12	17	18	1.75
904926--904972	23	2.0	23	87	0	67	51	8	19	21	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
905528--905647	63	1.9	63	84	6	163	43	7	6	42	1.59
906343--906402	21	2.9	21	75	5	59	75	3	5	16	1.12
910042--910074	13	2.6	13	90	4	50	33	15	24	27	1.95
922676--922745	12	5.8	12	74	12	54	17	12	17	52	1.74
922654--922740	24	3.7	24	78	1	86	21	11	16	50	1.76
924859--924893	15	2.3	15	90	0	52	17	17	34	31	1.93
925485--925524	15	2.7	15	100	0	80	52	7	12	27	1.66
926864--926940	25	3.1	25	64	17	70	25	24	11	37	1.90
936520--936559	20	2.0	20	100	0	80	25	30	10	35	1.88
940281--940318	20	1.9	20	100	0	76	31	21	23	23	1.98
941097--941161	31	2.1	31	88	5	96	23	21	21	33	1.97
941112--941191	30	2.6	30	82	5	81	21	18	26	33	1.96
941147--941218	29	2.4	30	88	2	101	16	18	30	34	1.93
946605--946967	187	2.0	186	91	3	597	42	3	8	45	1.52
954252--954311	18	3.3	18	72	9	59	6	13	25	55	1.62
973493--973546	24	2.2	24	93	0	90	20	18	20	40	1.91
975921--976007	20	4.4	20	79	5	106	36	24	20	18	1.95
976234--976288	14	3.6	14	73	21	56	14	23	20	41	1.89
976212--976326	33	3.5	33	90	5	173	14	24	18	42	1.88
976434--976470	14	2.6	14	86	0	56	48	21	0	29	1.50
977024--977065	20	2.1	20	100	0	84	40	23	9	26	1.85
977859--977940	42	2.0	42	82	4	103	20	17	40	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978427--978513	20	4.3	20	94	0	147	37	19	19	22	1.94
978540--978627	40	2.4	36	85	11	108	26	20	20	32	1.97
978558--978646	20	4.4	20	95	0	151	25	21	20	32	1.97
980558--980612	20	2.8	20	91	0	83	49	23	16	10	1.77
980560--980629	20	3.5	20	88	0	77	41	24	17	17	1.89
980671--980719	20	2.5	20	83	6	64	20	18	24	36	1.94
981051--981112	18	3.0	22	69	26	62	17	16	38	27	1.91
981309--981349	20	2.0	20	95	0	73	24	19	17	39	1.92
986048--986118	3	23.7	3	94	0	124	35	1	0	63	1.03
998897--998980	5	16.6	5	76	14	66	82	0	15	2	0.78
998895--998980	18	4.9	17	81	12	95	82	0	15	2	0.77
1000197--1000337	50	2.8	50	100	0	282	24	14	21	39	1.91
1000114--1001201	183	6.0	183	99	0	2160	26	14	21	37	1.92
1000380--1000520	50	2.8	50	100	0	282	24	14	21	39	1.91
1000563--1000703	50	2.8	50	100	0	282	24	14	21	39	1.91
1000746--1000886	50	2.8	50	98	0	273	25	14	21	39	1.91
1000929--1001068	50	2.8	50	98	1	273	25	14	22	38	1.91
1000979--1001417	133	3.3	133	97	0	835	27	13	21	37	1.91
1002054--1002827	113	6.8	113	97	0	1426	36	14	20	28	1.91
1003077--1003156	3	26.7	3	94	0	142	35	1	0	63	1.02
1008717--1008845	63	2.0	66	93	4	228	52	11	6	28	1.63
1008848--1008880	17	1.9	17	88	11	50	42	15	3	39	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013798--1013822	3	8.3	3	100	0	50	36	0	0	64	0.94
1014694--1014754	30	2.0	30	96	0	113	42	11	13	32	1.79
1014700--1014771	30	2.4	30	88	0	99	44	9	11	34	1.73
1019637--1019670	15	2.3	15	89	0	50	32	0	5	61	1.20
1021036--1021083	17	2.8	17	81	15	62	22	2	0	75	0.91
1021107--1021170	20	3.2	20	80	12	78	21	6	0	71	1.07
1024899--1025737	105	8.0	105	94	0	1435	33	25	18	23	1.97
1024899--1025737	316	2.7	316	95	0	1491	33	25	18	23	1.97
1025842--1026046	83	2.4	83	87	1	275	32	25	20	20	1.97
1026295--1026328	15	2.3	15	89	0	50	32	0	5	61	1.20
1027694--1027731	17	2.2	17	90	9	60	21	2	0	76	0.91
1027761--1027824	20	3.2	20	80	12	78	21	6	0	71	1.07
1048030--1048058	2	14.5	2	100	0	58	51	0	0	48	1.00
1060408--1060467	29	2.0	31	90	6	97	35	6	16	41	1.75
1060543--1060581	19	2.1	19	95	0	69	43	10	7	38	1.67
1060545--1060597	19	2.8	19	88	0	61	43	13	9	33	1.76
1064014--1064093	23	3.5	22	81	5	88	53	1	28	16	1.50
1074860--1074910	21	2.4	21	90	0	75	23	25	13	37	1.92
1075493--1075569	20	3.9	20	81	6	86	12	20	19	46	1.83
1075493--1075569	40	1.9	39	84	2	100	12	20	19	46	1.83
1077260--1077633	94	4.1	93	92	3	580	22	12	18	46	1.82
1077750--1077787	20	1.9	20	94	0	67	52	28	13	5	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077796--1077902	39	2.9	38	82	10	134	11	22	20	45	1.82
1077793--1077895	19	5.6	19	78	13	126	9	23	21	45	1.81
1078372--1078438	21	3.2	21	66	6	55	23	35	20	19	1.95
1078320--1078438	42	2.8	42	76	12	102	23	36	17	22	1.95
1081429--1081482	24	2.2	24	93	0	90	40	20	18	20	1.91
1081429--1081496	24	2.8	24	84	0	64	38	20	17	23	1.93
1082726--1082761	17	2.2	17	90	5	56	50	25	0	25	1.50
1085358--1085414	30	1.9	30	100	0	114	31	10	17	40	1.84
1085834--1085989	68	2.2	71	92	4	255	50	5	3	41	1.40
1085941--1085984	20	2.1	21	87	4	63	63	2	0	34	1.07
1086556--1086662	29	3.7	29	93	2	171	16	37	25	20	1.93
1086558--1086675	29	4.1	28	92	4	132	17	36	24	21	1.95
1086675--1086766	45	2.0	45	97	0	175	7	35	19	36	1.80
1086967--1087070	29	3.6	29	86	2	156	18	25	36	19	1.94
1087574--1087617	21	2.1	21	91	0	70	29	0	15	54	1.42
1088013--1088047	17	2.1	17	89	10	54	8	0	14	77	0.99
1088017--1088045	14	2.1	14	100	0	58	6	0	13	79	0.93
1088414--1088478	26	2.6	25	79	13	62	50	6	1	41	1.36
1089134--1089643	60	8.7	60	86	6	724	41	0	12	45	1.42
1089356--1089564	21	10.4	20	63	17	85	42	0	13	44	1.43
1089137--1089643	169	2.9	173	90	4	790	41	0	12	45	1.42
1089465--1089633	14	11.7	14	67	23	59	40	0	13	45	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089476--1089563	10	8.7	10	72	21	51	40	0	14	44	1.46
1089465--1089633	25	7.0	24	69	22	70	40	0	13	45	1.44
1089134--1089643	229	2.2	235	90	5	784	41	0	12	45	1.42
1091767--1091800	15	2.2	16	94	5	61	55	5	0	38	1.24
1091853--1091958	30	3.5	30	85	5	133	46	14	0	39	1.44
1092320--1092374	27	2.0	27	96	0	101	40	25	18	16	1.91
1092532--1092627	29	3.4	28	84	2	75	16	23	44	14	1.85
1092553--1092635	29	2.9	29	94	0	139	15	26	42	15	1.87
1096543--1096803	85	3.1	83	84	2	324	27	15	21	36	1.93
1096732--1096863	68	1.9	68	89	0	201	27	16	20	35	1.94

Tables:   1   2   3   4   5