genome.fa.s8724.2.7.7.80.10.50.1000.3.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  3  of  23  ( 2733 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)
527085--527123	21	1.9	21	89	5	62	25	15	23	35	1.94
528834--528883	26	1.9	26	95	0	91	30	16	8	46	1.75
532218--532256	20	2.0	20	85	9	55	53	5	10	30	1.56
538546--538578	17	2.0	17	94	5	59	30	21	0	48	1.50
543092--543133	12	3.4	12	86	3	57	28	30	21	19	1.97
543348--544198	427	2.0	424	98	0	1639	32	12	22	33	1.91
558293--558351	31	1.9	31	86	6	84	38	18	20	22	1.93
577958--578009	23	2.3	23	96	0	95	38	7	19	34	1.80
581934--581986	16	3.3	16	76	15	56	73	1	1	22	1.03
594474--594513	21	1.9	21	85	10	55	35	7	2	55	1.42
596477--596521	20	2.2	20	96	0	81	20	24	40	15	1.91
600345--600385	15	2.7	15	96	0	73	51	0	7	41	1.30
602343--602765	54	7.8	54	87	1	578	34	10	16	38	1.84
610419--610503	22	3.8	22	80	11	93	21	23	29	25	1.99
613435--613550	60	1.9	60	94	0	205	35	14	12	37	1.84
617965--618505	54	10.1	54	87	3	745	32	10	17	39	1.84
625224--625261	19	2.0	19	100	0	76	36	5	21	36	1.76
625464--625507	22	2.0	22	82	8	54	45	22	2	29	1.65
625823--625887	31	2.1	30	88	2	94	36	24	29	9	1.86
629022--629165	59	2.5	58	86	3	191	28	21	26	23	1.99
629028--629224	59	3.4	59	80	3	157	30	22	24	22	1.99
631003--631049	20	2.3	20	78	7	51	40	0	21	38	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638772--638820	13	3.7	13	94	5	89	69	0	14	16	1.19
638772--638819	7	7.1	7	93	6	82	70	0	14	14	1.16
644605--644679	32	2.3	32	80	8	80	40	2	2	54	1.28
648382--648492	47	2.5	45	81	7	127	40	5	18	35	1.74
655201--655243	22	2.0	22	81	9	52	30	4	25	39	1.76
656299--656339	18	2.3	18	95	0	73	29	4	29	36	1.78
656716--656942	112	2.0	112	86	2	314	31	17	16	34	1.92
658680--658735	3	18.7	3	100	0	112	67	0	0	32	0.91
661667--661844	30	5.9	30	68	10	85	20	10	9	60	1.57
662127--662164	16	2.3	17	81	4	51	26	5	7	60	1.46
665783--665832	11	4.5	11	86	13	68	82	0	18	0	0.68
665783--665825	17	2.5	17	100	0	86	83	0	16	0	0.64
665783--665825	6	7.5	6	89	10	72	83	0	16	0	0.64
667201--667308	36	2.9	35	76	11	108	31	12	12	43	1.80
667200--667377	76	2.3	76	84	3	207	32	13	12	41	1.82
667380--668050	39	17.2	39	90	0	930	28	17	16	36	1.92
669891--669929	16	2.4	17	82	4	53	25	5	10	58	1.51
670777--671232	181	2.5	178	78	8	460	39	10	8	40	1.71
675436--675793	36	9.9	36	85	5	436	28	15	9	46	1.78
675436--675793	71	5.0	72	83	5	436	28	15	9	46	1.78
675820--675897	36	2.2	36	90	0	120	26	11	11	50	1.73
676053--676133	3	27.0	3	100	0	162	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
677501--677542	19	2.1	20	91	8	68	71	0	11	16	1.14
677606--677682	29	2.7	29	78	11	77	71	0	5	23	1.06
678676--678717	22	2.0	21	90	4	66	11	21	40	26	1.88
684656--684701	23	2.0	23	82	0	56	69	6	4	19	1.28
684719--684763	25	1.9	24	82	13	58	51	11	0	37	1.38
684742--684984	34	7.1	35	70	20	106	44	5	4	46	1.46
684779--684844	29	2.3	29	91	0	105	42	6	4	46	1.48
684808--684987	34	5.1	34	76	19	165	43	6	5	45	1.50
684817--684997	37	5.1	37	76	17	154	41	6	4	47	1.50
684808--684994	35	5.4	34	76	18	161	42	5	4	47	1.49
685077--685109	15	2.1	16	94	5	59	12	12	0	75	1.04
685082--685115	15	2.3	15	89	0	50	14	5	0	79	0.91
686504--687104	110	5.5	109	85	4	775	35	21	17	25	1.95
686504--687135	220	2.9	219	85	3	855	35	21	17	25	1.95
687253--687857	165	3.6	167	79	5	582	29	24	20	26	1.99
687249--687853	249	2.4	249	91	1	969	29	24	20	26	1.99
687240--687853	84	7.4	83	79	4	612	29	24	19	25	1.99
688428--688561	39	3.6	37	84	7	164	45	4	5	44	1.46
689823--689922	29	3.3	29	71	15	76	44	6	4	46	1.47
689854--690218	35	10.2	35	76	16	297	46	4	2	46	1.38
689854--690220	73	5.1	70	79	13	342	46	4	2	46	1.38
689926--689989	27	2.2	29	83	10	78	43	3	6	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690203--690248	2	23.5	2	95	4	85	50	0	0	50	1.00
691959--692026	32	2.1	32	86	0	91	29	4	5	60	1.40
692158--692230	31	2.3	32	80	2	85	13	15	27	43	1.84
701210--701496	143	2.0	144	96	0	531	41	19	13	25	1.89
702689--702715	5	5.4	5	100	0	54	81	0	0	18	0.69
704288--704505	26	8.5	26	86	4	194	33	12	27	25	1.92
704288--704499	77	2.7	77	82	7	236	34	11	27	25	1.91
704303--704499	52	3.8	51	87	2	227	33	10	29	26	1.90
704736--704765	7	4.3	7	91	0	51	50	13	20	16	1.78
705243--705368	47	2.8	45	83	7	157	30	20	7	41	1.79
709317--709367	24	2.1	24	82	13	61	1	15	3	78	0.99
709330--709380	15	3.4	15	80	20	54	3	13	5	76	1.11
711715--711759	21	2.1	21	87	0	63	42	6	26	24	1.79
711716--711747	14	2.3	14	94	0	55	46	6	25	21	1.74
712136--712259	47	2.8	44	84	8	162	31	21	7	39	1.81
717383--717430	23	2.1	23	96	0	87	39	6	20	33	1.78
721143--721321	78	2.3	78	78	1	180	34	11	22	30	1.90
721143--721321	26	6.9	25	80	3	151	34	11	22	30	1.90
727505--727554	26	1.9	26	88	8	75	16	10	4	70	1.30
735344--735426	23	3.7	22	79	7	87	24	32	26	16	1.96
735356--735428	21	3.3	21	85	9	92	21	34	26	17	1.96
737297--737335	17	2.2	18	86	4	53	25	0	23	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
745885--745936	26	2.0	26	84	0	68	23	19	28	28	1.98
746141--746205	25	2.6	25	85	2	94	18	10	6	64	1.45
749588--749644	24	2.3	25	91	8	91	35	31	14	19	1.91
752859--752901	22	2.0	22	86	9	61	32	18	4	44	1.71
756343--756457	41	2.7	43	79	14	114	45	2	6	46	1.42
758025--758079	27	2.2	25	83	9	67	69	5	5	20	1.29
770057--770112	28	2.0	29	85	3	78	58	7	5	28	1.46
770791--770867	29	2.6	30	81	4	84	42	6	18	32	1.75
773385--773432	16	3.0	16	100	0	96	37	12	0	50	1.41
781015--781101	35	2.5	34	80	12	97	55	10	8	26	1.61
781679--781713	18	1.9	18	94	0	61	25	20	28	25	1.99
783390--783430	18	2.3	18	87	4	57	60	2	7	29	1.36
789675--789885	45	4.7	44	85	4	242	26	25	11	36	1.90
796262--796531	45	6.0	45	85	0	344	27	22	12	38	1.90
796988--797261	54	5.1	54	85	0	332	34	19	16	29	1.94
797647--797700	20	2.7	20	94	2	90	40	35	0	24	1.55
811261--811466	54	3.8	54	81	3	254	32	16	17	33	1.92
811246--811472	108	2.1	108	83	4	296	32	15	18	33	1.92
816617--816761	75	1.9	75	94	2	256	27	16	22	33	1.96
831746--831802	7	8.3	7	84	5	64	56	1	0	42	1.10
831746--831801	15	3.6	16	81	11	64	57	1	0	41	1.09
831751--831802	2	28.0	2	75	21	51	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
831751--831802	9	5.6	10	75	22	51	53	1	0	44	1.11
831797--832056	37	6.9	37	82	10	285	45	5	3	45	1.43
831805--832056	76	3.3	75	90	5	391	45	5	3	45	1.42
831974--832032	26	2.2	27	84	3	75	45	1	1	50	1.21
834708--835314	54	11.3	54	85	3	697	27	18	21	33	1.96
837129--837177	20	2.6	18	78	12	53	30	10	26	32	1.89
837643--838157	46	11.2	46	89	0	762	40	14	22	22	1.90
840746--840780	12	2.9	12	95	0	61	37	22	0	40	1.55
840842--840937	23	4.9	20	66	26	71	51	1	5	42	1.31
840860--840940	12	7.0	12	69	16	55	54	1	4	39	1.30

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23