genome.fa.s8296.2.7.7.80.10.50.1000.6.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: VEPZ01008296.1 Hibiscus syriacus cultivar Beakdansim tig00110963_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1205179

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 780 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)
947638--947698	28	2.2	28	91	5	97	44	13	8	34	1.73
947945--948048	36	3.0	36	83	4	133	36	11	19	32	1.87
947946--948064	36	3.4	36	80	6	120	36	12	20	30	1.90
948016--948248	105	2.2	105	83	9	284	37	11	19	30	1.88
952500--952559	30	2.0	31	83	9	79	56	11	16	15	1.67
955833--955897	3	21.3	3	78	9	69	64	1	4	29	1.22
956728--956756	4	7.2	4	100	0	58	0	24	0	75	0.80
966143--966217	31	2.4	31	97	0	141	17	18	21	42	1.89
967969--968093	31	4.0	30	83	10	146	21	18	20	39	1.93
969796--969860	30	2.2	30	97	0	121	26	35	23	15	1.94
969955--969992	19	2.0	19	89	0	58	31	26	23	18	1.97
972958--973077	57	2.1	57	100	0	240	30	8	18	43	1.79
974458--974521	19	3.2	20	72	14	53	43	1	1	53	1.19
974467--974516	20	2.5	20	78	12	59	40	2	2	56	1.22
974434--974520	31	2.8	30	81	10	95	41	2	3	52	1.31
978370--978417	23	2.1	23	88	0	69	35	12	18	33	1.89
978831--978903	23	3.2	23	92	0	110	38	23	4	34	1.74
978484--979965	430	3.5	429	95	1	2645	38	12	7	41	1.70
979261--979333	23	3.2	23	84	7	94	39	20	4	35	1.72
979701--979763	23	2.7	23	87	0	90	38	19	4	38	1.73
980184--980270	39	2.2	39	95	0	156	17	13	20	48	1.81
980542--980578	18	2.1	18	89	0	56	51	10	5	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980962--981011	25	2.0	25	92	0	82	44	22	10	24	1.83
981287--981349	23	2.7	23	92	0	99	38	20	4	36	1.74
981690--981755	25	2.6	25	75	0	78	42	12	9	36	1.74
984226--984566	183	1.9	183	91	2	560	33	17	14	34	1.90
984911--984983	23	3.2	23	76	0	74	39	17	4	38	1.69
984569--985617	431	2.4	431	95	1	1903	39	10	7	42	1.69
985352--985414	23	2.7	23	92	0	99	38	20	4	36	1.74
987000--987044	3	15.0	3	85	0	63	26	33	2	37	1.69
987004--987092	12	7.4	12	81	0	79	21	33	7	37	1.82
987004--987095	18	5.1	18	75	5	69	20	33	7	38	1.81
987022--987091	36	1.9	36	91	0	113	20	32	10	37	1.85
987004--987095	6	15.3	6	76	4	60	20	33	7	38	1.81
988542--989796	195	6.6	194	91	6	1916	31	17	14	35	1.91
988542--989788	196	6.5	198	91	6	2006	31	17	14	35	1.90
989912--989959	19	2.6	18	90	3	69	56	10	2	31	1.45
991715--991774	32	1.9	31	86	3	84	23	46	0	30	1.52
991808--991851	21	2.1	21	91	0	70	15	31	11	40	1.83
994043--994089	20	2.4	19	79	10	58	21	17	8	53	1.70
994010--994483	180	2.6	178	86	4	662	27	16	13	42	1.86
994553--995027	228	2.1	227	93	2	819	41	7	6	44	1.59
997706--998177	200	2.4	197	81	7	560	31	14	14	39	1.86
1001478--1002237	200	3.8	199	78	6	817	32	16	13	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002535--1002587	25	2.1	25	100	0	106	49	11	3	35	1.57
1005602--1005644	21	2.0	21	95	0	77	20	39	18	20	1.93
1005678--1005739	23	2.7	23	92	0	106	22	30	19	27	1.98
1008626--1008703	21	3.7	21	98	0	147	20	39	19	20	1.92
1009122--1009191	34	2.1	32	86	5	95	31	12	30	25	1.93
1009433--1010001	200	2.8	200	93	0	967	34	15	12	37	1.85
1010269--1010313	19	2.4	19	96	0	81	55	8	2	33	1.43
1011867--1011941	18	4.2	18	92	0	114	2	38	0	58	1.12
1012125--1012196	33	2.2	33	92	0	117	22	47	1	29	1.60
1012225--1012268	21	2.1	21	100	0	88	13	34	9	43	1.76
1014606--1015824	182	6.7	182	90	1	1766	27	17	14	41	1.88
1016032--1016097	30	2.2	31	88	2	98	40	4	12	42	1.62
1018620--1018696	31	2.5	31	86	0	109	36	12	25	24	1.92
1020701--1020774	31	2.4	30	82	6	85	29	27	9	33	1.88
1021359--1021459	32	3.2	31	77	7	96	38	22	11	26	1.89
1021565--1021621	3	19.0	3	100	0	114	66	0	0	33	0.92
1025256--1025313	27	2.2	27	93	3	100	32	13	15	37	1.87
1027550--1027607	27	2.2	27	96	3	109	37	31	6	24	1.82
1027791--1027836	13	3.7	13	75	21	53	36	0	0	63	0.95
1033605--1033697	21	4.6	20	75	4	87	38	18	24	18	1.92
1033605--1033697	41	2.3	41	98	0	177	38	18	24	18	1.92
1033624--1033759	41	3.3	41	83	3	139	38	20	20	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033686--1033780	20	4.7	20	77	5	82	34	24	16	24	1.95
1034345--1034529	19	10.1	19	75	14	165	11	21	22	44	1.85
1034345--1034529	33	5.1	38	78	12	165	11	21	22	44	1.85
1034472--1034529	20	2.9	20	75	10	55	13	22	18	44	1.85
1036530--1036652	42	2.9	42	80	2	122	22	36	17	22	1.95
1036586--1036652	21	3.2	21	66	6	55	23	35	20	19	1.95
1038010--1038045	14	2.6	14	95	0	63	30	0	25	44	1.54
1038224--1038374	19	8.7	19	63	21	71	15	21	20	42	1.89
1038228--1038354	33	3.9	32	86	8	184	14	22	19	43	1.88
1038221--1038353	66	2.0	66	95	0	239	16	21	19	42	1.89
1040612--1040636	12	2.1	12	100	0	50	0	28	0	72	0.86
1043156--1043214	29	2.0	29	96	0	109	49	15	13	22	1.79
1047844--1047902	29	2.0	29	100	0	118	49	13	13	23	1.78
1049028--1049086	29	2.0	29	100	0	118	23	13	13	49	1.78
1053710--1053768	29	2.0	29	100	0	118	23	13	13	49	1.78
1063608--1063678	31	2.3	31	90	0	106	26	23	12	36	1.91
1065372--1065446	23	3.3	23	98	0	141	40	32	4	24	1.73
1065671--1065750	30	2.6	30	82	2	97	32	10	27	30	1.89
1072680--1072704	2	12.5	2	100	0	50	52	0	0	48	1.00
1074063--1074436	130	2.8	133	81	7	426	25	17	30	26	1.97
1075330--1075375	7	5.9	8	85	10	60	10	13	0	76	1.03
1075341--1075374	15	2.4	14	95	5	59	11	11	0	76	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075370--1075395	1	26.0	1	100	0	52	0	0	0	100	0.00
1075348--1075395	15	3.3	15	88	5	64	6	6	0	87	0.67
1075912--1076261	178	2.0	175	97	2	657	28	20	16	34	1.94
1077074--1077116	21	2.0	21	100	0	86	23	23	25	27	2.00
1085178--1085202	13	1.9	13	100	0	50	80	0	0	20	0.72
1095998--1096081	26	3.4	25	70	16	68	64	7	2	26	1.32
1102645--1102712	23	3.2	22	68	20	63	33	19	17	29	1.95
1102637--1102737	41	2.5	41	91	0	157	30	18	17	32	1.95
1104121--1104206	24	3.6	24	77	3	102	11	10	18	59	1.60
1105736--1105762	14	1.9	14	100	0	54	51	0	0	48	1.00
1105836--1105891	2	28.5	2	96	3	105	50	0	0	50	1.00
1108141--1108357	106	2.0	106	91	0	353	21	18	25	34	1.96
1108858--1108893	18	2.0	18	94	0	63	41	33	8	16	1.78
1109311--1109364	22	2.5	22	90	0	90	25	11	27	35	1.90
1110013--1110082	8	9.1	7	79	16	61	0	17	4	78	0.90
1110006--1110091	40	2.1	40	81	14	97	0	18	5	75	1.00
1110006--1110096	32	2.8	32	79	11	87	1	18	5	74	1.07
1113478--1113570	46	2.0	46	97	0	177	39	10	13	35	1.80
1125273--1125356	44	1.9	44	86	13	120	42	5	4	46	1.49
1137677--1137714	20	1.9	20	94	0	67	57	7	2	31	1.41
1142521--1142560	20	2.0	20	95	0	71	22	40	25	12	1.89
1148228--1148265	20	1.9	20	88	0	58	26	34	26	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153985--1154083	46	2.1	46	92	1	162	35	9	12	43	1.74
1154068--1154150	2	41.5	2	100	0	166	50	0	0	49	1.00
1154467--1154526	2	30.5	2	93	3	104	48	0	1	50	1.11
1154511--1154874	38	9.7	36	83	8	390	45	2	5	46	1.40
1154683--1154737	27	2.0	28	82	10	69	45	3	3	47	1.38
1154889--1154929	19	2.2	19	86	8	57	24	4	0	70	1.06
1155992--1156017	8	3.2	8	100	0	52	11	0	0	88	0.52
1156102--1156154	18	2.9	18	76	18	56	16	7	0	75	1.02
1156106--1156135	13	2.2	14	94	5	53	13	6	0	80	0.91
1156145--1156200	3	19.7	3	82	14	66	28	0	3	67	1.07

Tables:   1   2   3   4   5   6   7