genome.fa.s9617.2.7.7.80.10.50.1000.5.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

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

This is table  5  of  16  ( 1887 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)
886919--886966	23	2.1	23	84	0	60	35	10	18	35	1.85
887441--887509	21	3.3	21	91	0	111	37	23	5	33	1.79
887868--887926	23	2.6	23	80	0	73	37	20	5	37	1.75
887292--888754	424	3.5	423	93	3	2442	40	12	7	39	1.71
888283--888355	23	3.2	23	88	7	112	42	21	1	34	1.62
888837--889131	20	14.6	20	77	10	120	37	20	24	17	1.94
888878--888924	18	2.6	19	83	10	62	46	21	19	12	1.82
888938--889131	63	3.1	63	85	2	259	35	18	27	19	1.95
888959--889129	40	4.2	40	85	4	216	35	18	27	19	1.95
889118--889161	20	2.2	20	91	0	70	54	15	18	11	1.70
889955--890016	6	10.5	6	98	1	117	0	16	51	32	1.44
890094--890137	20	2.2	20	87	0	61	13	18	13	54	1.71
890129--890317	40	4.6	40	80	5	225	20	25	17	35	1.94
890134--890317	83	2.2	83	93	0	305	20	26	17	35	1.95
890129--890296	20	8.2	20	86	3	201	20	26	17	35	1.95
890124--890421	20	14.6	20	77	7	152	18	23	19	38	1.93
890371--890421	19	2.6	20	90	3	77	15	17	23	43	1.88
890885--890949	25	2.6	25	95	0	112	38	12	9	40	1.75
892002--893172	200	5.9	199	97	0	2195	31	17	14	36	1.90
892002--893169	597	2.0	597	97	0	2230	31	17	14	36	1.90
893291--893339	19	2.6	19	93	0	80	57	10	2	30	1.43
895132--895197	33	2.0	33	87	0	96	22	46	0	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
895231--895274	21	2.1	21	91	0	70	15	31	11	40	1.83
897301--897353	24	2.2	24	83	6	63	26	7	13	52	1.66
897493--897535	20	2.3	19	88	11	63	20	13	11	53	1.71
897498--897544	20	2.4	19	79	10	58	19	14	10	55	1.68
897679--897725	20	2.3	20	89	10	78	17	17	10	55	1.69
897465--897937	181	2.6	182	90	1	725	26	17	13	42	1.87
898004--898498	229	2.2	228	94	1	875	40	7	7	44	1.62
902414--902459	19	2.4	19	100	0	92	30	23	26	19	1.98
902447--902596	72	2.1	72	82	2	176	33	20	18	27	1.96
903939--903992	18	2.7	19	83	13	65	16	22	33	27	1.95
904057--904095	17	2.3	18	86	8	55	33	30	5	30	1.79
908875--908903	14	2.1	14	100	0	58	51	6	27	13	1.66
909106--909183	22	3.5	22	84	3	104	14	21	30	33	1.93
912957--913012	3	17.7	3	85	10	76	32	1	0	66	1.03
913804--913847	24	1.9	22	86	9	61	4	47	36	11	1.60
914156--914202	20	2.4	19	80	16	51	25	2	14	57	1.49
916708--916769	32	2.0	32	93	3	108	16	14	9	59	1.60
920899--920940	4	11.2	4	80	14	54	52	21	0	26	1.47
920903--920938	18	2.1	17	94	5	63	52	22	0	25	1.47
921282--921419	36	3.9	35	82	7	170	31	19	13	36	1.90
921285--921419	71	1.9	72	87	4	202	31	20	13	34	1.91
921920--922008	29	3.1	29	88	8	128	30	12	12	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
922091--922158	27	2.5	28	83	13	88	33	8	14	42	1.77
922092--922148	27	2.1	27	90	6	89	31	8	15	43	1.78
922137--922253	37	3.3	36	68	25	106	29	12	11	45	1.78
922110--922297	67	2.9	64	87	9	258	27	13	11	46	1.78
922496--922549	28	1.9	28	88	7	83	22	14	14	48	1.81
922578--923021	46	10.2	45	71	16	310	26	30	18	24	1.98
922578--922982	43	9.4	43	72	11	258	26	30	18	24	1.98
922653--923032	89	4.4	88	73	12	311	27	30	18	23	1.98
922568--923032	129	3.6	129	96	0	833	26	30	18	24	1.98
923180--923229	3	15.7	3	84	12	64	32	2	0	66	1.03
924021--924064	24	1.9	22	86	9	61	4	47	36	11	1.60
924373--924419	20	2.4	19	80	16	51	25	2	14	57	1.49
930282--930379	51	1.9	51	81	4	117	19	27	28	24	1.98
936434--936507	12	6.0	12	71	14	53	63	0	0	36	0.95
936447--936507	25	2.5	23	86	7	86	62	0	0	37	0.96
936444--936497	7	7.4	7	80	19	58	59	0	0	40	0.98
946036--946072	2	18.5	2	100	0	74	51	0	0	48	1.00
946148--946194	24	2.0	24	86	0	67	40	0	4	55	1.19
946550--946614	7	8.4	8	80	12	66	35	0	1	63	1.04
946561--946618	9	6.9	9	72	20	54	37	0	1	60	1.07
946554--946615	16	3.8	16	79	12	72	35	0	1	62	1.05
946550--946618	25	2.9	24	85	8	88	36	0	1	62	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
946550--946615	24	2.8	24	88	9	91	34	0	1	63	1.04
947329--947365	20	1.9	19	89	10	58	45	5	24	24	1.74
959531--959561	2	15.5	2	100	0	62	48	0	0	51	1.00
964031--964059	2	14.5	2	100	0	58	48	0	0	51	1.00
976448--976482	18	1.9	18	88	0	52	51	5	5	37	1.50
978710--978780	2	35.5	2	100	0	142	50	0	0	49	1.00
980530--980567	20	2.0	20	85	15	53	65	2	5	26	1.27
980605--980646	2	21.5	2	92	4	68	52	2	0	45	1.13
993809--993848	3	13.3	3	89	0	62	40	0	0	60	0.97
993798--993843	18	2.5	19	89	6	69	39	0	0	60	0.97
993805--993846	21	2.0	20	95	4	75	42	0	0	57	0.99
994067--994121	23	2.4	23	93	0	92	20	49	10	20	1.78
994080--994127	23	2.1	23	96	0	87	18	45	14	20	1.85
995166--995223	11	4.9	11	80	19	55	65	1	0	32	1.03
995166--995222	24	2.4	25	77	16	66	64	1	0	33	1.04
995459--995515	3	20.0	3	78	10	66	35	0	1	63	1.05
995455--995515	14	4.4	14	82	10	72	34	0	1	63	1.04
1000855--1000991	73	1.9	72	89	4	213	29	20	16	33	1.95
1005570--1005648	22	3.6	22	91	0	122	32	16	12	37	1.86
1006321--1006719	45	8.7	45	90	2	559	24	22	20	32	1.98
1006981--1007035	3	18.3	3	88	0	83	36	0	1	61	1.06
1008342--1008399	7	8.0	7	75	12	55	63	1	0	34	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008633--1008694	3	22.0	3	79	12	69	37	0	3	59	1.13
1008629--1008694	8	8.0	8	85	6	80	36	0	3	60	1.12
1008633--1008703	14	5.1	14	79	14	76	35	0	2	61	1.10
1014412--1014458	22	2.2	21	85	7	60	23	21	6	48	1.72
1017484--1017522	17	2.4	17	95	4	71	51	5	0	43	1.24
1025245--1025275	15	2.1	15	100	0	62	38	6	29	25	1.81
1028827--1028892	24	2.8	22	74	24	71	50	1	0	48	1.10
1028827--1028908	27	3.3	27	72	17	70	46	1	1	51	1.16
1029456--1029494	14	2.8	14	88	7	53	38	28	7	25	1.83
1031125--1031198	2	37.0	2	100	0	148	50	0	0	50	1.00
1031872--1031923	13	4.0	13	100	0	104	61	7	15	15	1.55
1033247--1033300	24	2.2	24	90	6	83	50	1	3	44	1.30
1035514--1035565	18	3.0	17	71	15	52	59	9	3	26	1.46
1036509--1036690	101	1.8	101	84	2	249	36	14	13	36	1.85
1037997--1038048	21	2.5	21	81	3	61	38	19	25	17	1.93
1038037--1038171	20	6.7	20	82	7	148	34	23	17	23	1.96
1038034--1038171	41	3.4	41	82	5	181	36	23	17	23	1.95
1038339--1038382	22	2.0	22	95	0	79	18	45	15	20	1.85
1038645--1038703	20	3.0	20	87	0	73	16	18	22	42	1.89
1040023--1040067	18	2.5	18	85	0	63	26	40	15	17	1.90
1040464--1040501	12	3.1	12	88	3	58	0	2	21	76	0.91
1040464--1040498	6	5.7	6	89	3	52	0	2	20	77	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040566--1040621	20	2.9	19	78	2	67	41	21	23	14	1.89
1040566--1040690	19	7.1	19	68	18	81	45	21	20	12	1.83
1040594--1040685	33	2.8	33	93	0	157	48	21	18	10	1.78
1040740--1040783	20	2.2	20	87	0	61	18	25	22	34	1.96
1042652--1042687	14	2.6	14	90	0	54	30	0	22	47	1.52
1042824--1042872	19	2.6	19	100	0	98	48	16	20	14	1.80
1042910--1042997	20	4.4	20	78	5	106	15	21	25	37	1.93
1042890--1042977	40	2.4	36	81	12	99	15	20	22	40	1.90
1043220--1043266	20	2.4	20	96	3	87	31	21	21	25	1.98
1043220--1043275	20	2.8	20	91	2	69	30	21	23	25	1.99

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