genome.fa.s8187.2.7.7.80.10.50.1000.4.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: VEPZ01008187.1 Hibiscus syriacus cultivar Beakdansim tig00110794_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1300289

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 587 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)
940919--940955	16	2.2	17	90	9	58	40	0	8	51	1.32
940919--940950	16	2.0	16	100	0	64	43	0	6	50	1.27
945398--945432	18	1.9	18	94	0	61	54	25	2	17	1.57
945490--945772	140	2.0	140	97	0	530	27	13	15	43	1.84
945743--945833	20	4.8	20	76	15	104	32	23	19	24	1.97
945771--945868	34	2.9	35	86	4	137	36	23	19	20	1.95
945876--945913	20	1.9	20	88	0	58	7	18	26	47	1.76
945925--945964	16	2.5	16	100	0	80	7	35	32	25	1.84
947569--947615	22	2.1	22	92	0	76	19	12	44	23	1.85
947577--947622	22	2.1	22	91	0	74	17	13	47	21	1.81
947789--947844	21	2.8	20	71	15	60	26	17	25	30	1.97
947908--947950	19	2.2	19	87	4	59	23	18	27	30	1.98
947917--947955	19	2.1	19	90	0	60	25	15	25	33	1.95
948897--948964	2	35.5	2	74	14	54	39	1	0	58	1.07
948886--948964	36	2.2	36	84	6	99	39	2	1	56	1.21
948896--948981	36	2.3	38	92	4	140	37	2	0	60	1.10
949600--949635	15	2.4	15	90	0	54	41	2	0	55	1.14
950763--950791	2	14.5	2	100	0	58	51	0	0	48	1.00
961454--961503	3	16.7	3	100	0	100	68	0	32	0	0.90
968969--969000	16	2.0	16	100	0	64	31	25	18	25	1.98
991435--991469	16	2.1	17	89	5	54	28	22	0	48	1.51
995186--995246	32	1.9	32	93	0	104	36	1	21	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999858--999891	17	2.0	17	88	0	50	23	23	0	52	1.47
1009347--1009373	2	13.5	2	100	0	54	48	0	0	51	1.00
1011210--1011249	21	1.9	21	94	0	71	45	7	7	40	1.61
1013242--1013344	52	2.0	52	98	0	197	41	13	23	21	1.88
1019247--1019341	31	3.0	32	75	3	120	46	7	3	43	1.47
1027963--1027988	13	2.0	13	100	0	52	38	0	15	46	1.46
1035038--1035087	6	8.5	6	80	8	50	32	0	2	66	1.03
1035031--1035074	17	2.6	17	82	7	54	29	0	2	68	1.02
1035067--1035203	63	2.2	64	92	5	233	42	0	1	56	1.08
1035059--1035203	13	11.5	12	70	19	91	42	0	1	56	1.08
1035197--1035247	18	2.9	18	78	16	54	39	3	0	56	1.18
1035723--1035782	31	1.9	31	89	0	93	43	11	6	38	1.68
1037563--1037602	20	2.0	20	90	0	62	45	15	12	27	1.82
1037605--1037655	20	2.6	19	84	3	66	41	19	17	21	1.91
1037605--1037716	19	5.8	20	88	3	88	39	21	13	25	1.90
1037628--1037716	38	2.3	38	90	7	137	38	22	11	28	1.88
1037843--1037888	22	2.1	22	100	0	92	26	39	4	30	1.75
1037895--1037932	16	2.5	15	84	12	51	28	5	0	65	1.14
1041703--1041746	18	2.4	18	76	0	52	40	6	6	45	1.57
1041986--1042061	35	2.2	35	78	4	82	39	25	13	22	1.90
1042053--1042139	39	2.2	39	97	0	165	47	20	14	17	1.83
1042353--1042391	20	2.0	20	89	0	60	38	25	20	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042494--1042633	66	2.2	60	83	7	172	50	15	0	32	1.49
1044006--1044104	21	4.7	21	72	5	83	23	19	31	26	1.98
1046256--1046318	20	3.2	20	84	2	74	50	22	14	12	1.76
1046810--1046934	20	6.2	20	75	12	114	20	16	22	40	1.91
1046810--1046934	40	3.1	40	80	11	141	20	16	22	40	1.91
1048698--1048745	24	2.0	23	84	11	62	66	0	0	33	0.92
1050095--1050149	28	2.0	28	88	0	83	29	10	23	36	1.89
1061771--1061892	66	1.9	64	91	5	201	8	22	45	22	1.79
1072995--1073031	19	1.9	19	94	0	65	32	29	16	21	1.95
1073096--1073150	21	2.6	21	94	0	92	41	23	18	16	1.89
1073546--1073588	19	2.2	20	91	4	70	32	25	4	37	1.77
1073537--1073598	20	3.1	19	75	17	54	35	27	4	32	1.78
1076582--1076681	24	4.2	24	74	5	94	47	17	13	23	1.82
1076576--1076683	48	2.3	48	77	1	119	48	16	12	22	1.80
1079170--1079201	7	4.4	7	92	7	55	25	28	34	12	1.92
1079171--1079217	15	3.3	15	91	5	71	21	25	38	14	1.92
1079178--1079253	13	5.3	13	77	17	71	17	22	44	15	1.86
1079199--1079275	18	4.6	18	82	15	101	12	19	50	16	1.77
1079193--1079271	31	2.5	31	93	0	140	15	20	48	16	1.82
1079171--1079217	8	6.5	8	79	20	59	21	25	38	14	1.92
1081399--1081498	24	4.2	24	74	5	94	47	17	13	23	1.82
1081392--1081500	48	2.3	48	77	0	119	48	16	12	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083987--1084018	7	4.4	7	92	7	55	25	28	34	12	1.92
1083988--1084034	15	3.3	15	91	5	71	21	25	38	14	1.92
1083995--1084070	13	5.3	13	77	17	71	17	22	44	15	1.86
1084016--1084092	18	4.6	18	82	15	101	12	19	50	16	1.77
1084010--1084088	31	2.5	31	93	0	140	15	20	48	16	1.82
1083988--1084034	8	6.5	8	79	20	59	21	25	38	14	1.92
1085020--1085054	6	5.8	6	96	0	61	11	17	0	71	1.14
1085172--1085205	8	4.1	8	92	3	50	41	2	0	55	1.15
1085172--1085207	17	2.1	17	89	0	54	41	2	0	55	1.14
1093762--1093813	20	2.6	20	96	0	95	38	26	13	21	1.90
1093803--1093901	21	4.8	20	72	6	72	36	23	19	21	1.95
1093868--1094061	20	9.6	20	81	5	221	35	25	19	19	1.95
1093868--1094061	60	3.2	60	83	0	253	35	25	19	19	1.95
1094439--1094509	33	2.2	33	92	0	115	11	22	18	47	1.80
1094630--1094684	14	3.6	14	73	21	56	41	23	25	9	1.83
1094630--1094700	33	2.2	33	94	0	124	43	25	22	8	1.81
1094696--1094793	19	5.7	19	70	22	81	10	24	22	42	1.84
1094718--1094807	14	5.7	14	74	23	81	8	25	23	42	1.83
1094701--1094815	33	3.5	33	95	0	212	9	24	20	45	1.81
1096512--1096891	185	2.0	186	99	0	753	22	12	18	46	1.83
1096512--1096891	93	4.1	93	99	0	753	22	12	18	46	1.83
1096935--1097063	19	7.3	19	75	17	125	45	28	17	8	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096971--1097063	33	2.8	32	91	4	150	46	27	18	7	1.76
1096935--1097063	52	2.5	52	74	14	140	45	28	17	8	1.77
1097059--1097193	19	7.6	19	75	16	128	11	19	23	45	1.82
1097081--1097137	14	3.7	14	77	20	60	10	21	22	45	1.82
1097064--1097156	33	2.8	33	95	0	168	10	20	21	47	1.80
1099009--1099081	38	1.9	38	97	0	137	28	1	16	53	1.51
1099004--1099068	19	3.4	19	64	8	51	24	1	15	58	1.46
1099063--1099098	14	2.6	14	95	0	63	33	0	22	44	1.53
1099205--1099306	19	5.6	19	84	13	151	44	17	23	14	1.86
1099335--1099660	19	18.4	19	80	15	405	14	20	17	47	1.82
1099313--1099632	52	6.0	52	94	4	550	14	21	16	46	1.83
1099335--1099660	71	4.6	72	82	13	389	14	20	17	47	1.82
1099313--1099632	161	2.0	157	93	3	552	14	21	16	46	1.83
1099354--1099660	33	8.8	33	80	12	280	14	20	17	47	1.82
1101966--1101990	12	2.1	12	100	0	50	0	28	0	72	0.86
1102165--1102211	24	2.0	24	87	8	69	38	21	14	25	1.92
1102885--1103253	20	18.5	20	86	4	458	20	18	26	34	1.96
1110570--1110750	89	2.0	89	97	0	344	45	6	11	36	1.66
1110574--1110786	89	2.4	88	86	4	221	42	9	11	36	1.73
1112123--1112168	4	11.0	4	81	9	56	69	0	0	30	0.89
1112123--1112179	14	4.0	13	75	24	53	68	1	1	28	1.09
1115837--1115885	25	2.0	25	88	8	73	40	4	2	53	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125034--1125204	60	2.9	59	78	4	164	32	19	7	40	1.78
1148346--1148446	37	2.7	37	84	0	139	42	14	10	31	1.81
1148722--1148826	37	2.8	37	85	0	147	40	14	12	32	1.83
1148245--1149004	376	2.0	376	97	0	1448	35	17	14	32	1.90
1149176--1149224	21	2.4	22	80	13	59	28	4	4	63	1.31
1149355--1149413	19	3.1	19	79	11	59	30	5	0	64	1.15
1149563--1149598	12	2.8	13	83	8	56	5	0	11	83	0.80
1149673--1149761	4	21.5	4	72	13	56	17	7	0	74	1.05
1149708--1149756	25	2.0	23	88	7	71	16	6	0	77	0.96
1149681--1149764	16	5.1	16	72	16	64	16	7	0	76	1.00

Tables:   1   2   3   4   5