genome.fa.s9611.2.7.7.80.10.50.1000.23.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  23  of  27  ( 3214 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)
5833321--5833659	142	2.4	137	90	6	506	46	17	20	15	1.83
5833656--5833757	19	5.6	19	85	12	151	14	23	17	44	1.86
5833870--5833906	14	2.6	14	91	0	65	45	21	0	32	1.52
5833901--5833972	12	6.0	12	67	23	53	56	16	1	25	1.48
5833887--5833959	38	1.9	38	97	0	137	53	16	1	28	1.51
5835827--5835883	14	3.7	14	77	20	60	45	22	21	10	1.82
5835808--5835900	33	2.8	33	95	0	168	47	21	20	10	1.80
5835771--5835905	19	7.6	19	76	16	128	45	23	19	11	1.82
5835901--5836028	19	7.3	18	70	18	92	10	17	26	45	1.81
5835901--5835992	33	2.8	33	90	3	141	9	19	25	45	1.81
5836072--5836542	92	5.1	93	98	1	921	46	19	12	22	1.83
5836072--5836542	185	2.6	185	98	1	919	46	19	12	22	1.83
5838246--5838335	14	5.7	14	74	23	81	42	23	25	8	1.83
5838238--5838352	33	3.5	33	95	0	212	45	20	24	9	1.81
5838245--5838357	19	6.8	18	72	23	88	43	22	24	9	1.83
5838369--5838423	14	3.6	14	73	21	56	9	27	23	40	1.85
5838544--5838614	33	2.2	33	92	0	115	47	18	22	11	1.80
5838794--5838847	22	2.5	22	81	3	74	20	14	40	24	1.90
5838993--5839186	20	9.6	20	82	5	221	19	19	25	35	1.95
5838993--5839186	60	3.2	60	83	0	253	19	19	25	35	1.95
5839179--5839255	21	3.7	20	70	13	57	27	16	23	32	1.96
5839241--5839292	20	2.6	20	96	0	95	21	13	26	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5847841--5847872	5	6.8	5	96	3	50	0	21	12	65	1.25
5856267--5856300	16	2.1	16	100	0	68	58	0	11	29	1.33
5858145--5858181	3	12.3	3	100	0	74	32	0	0	67	0.91
5859629--5859715	34	2.6	33	91	7	140	29	10	4	55	1.54
5862122--5862186	28	2.3	28	97	0	121	29	36	13	20	1.91
5864694--5864730	15	2.4	16	82	17	51	59	5	0	35	1.20
5865078--5865198	59	2.0	60	88	1	181	39	13	18	28	1.88
5865954--5865997	19	2.4	19	88	3	63	45	0	0	54	0.99
5870226--5870276	24	2.0	26	85	7	70	43	5	3	47	1.46
5870262--5870311	23	2.2	22	86	10	66	24	8	8	60	1.52
5875503--5875552	23	2.2	24	79	13	61	22	6	10	62	1.48
5883644--5883694	21	2.4	21	77	6	59	33	13	5	47	1.67
5886161--5886185	12	2.1	12	100	0	50	32	8	16	44	1.76
5891027--5891066	20	1.9	21	85	10	55	40	12	17	30	1.86
5892286--5892356	22	3.4	22	73	11	85	18	18	25	38	1.93
5892306--5892374	19	3.5	19	73	11	75	18	20	21	39	1.93
5892286--5892374	41	2.2	41	100	0	178	19	19	23	38	1.93
5892985--5893009	6	4.2	6	100	0	50	32	0	32	36	1.58
5893141--5893192	20	2.6	20	93	0	86	46	21	23	9	1.80
5894951--5895006	21	2.7	21	88	0	85	17	25	17	39	1.92
5895536--5895645	19	5.6	20	84	7	127	49	20	18	11	1.79
5895536--5895645	40	2.8	38	78	10	123	49	20	18	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5895536--5895652	59	2.0	60	86	3	164	49	19	19	11	1.78
5895536--5895676	33	3.8	36	77	10	99	48	21	18	11	1.79
5895672--5895803	19	7.1	19	80	11	157	12	22	19	45	1.83
5897454--5897503	18	2.8	18	96	0	91	34	20	4	42	1.70
5897508--5897975	94	5.1	94	92	1	761	22	12	18	47	1.82
5898066--5898181	19	6.3	19	80	11	116	50	25	18	6	1.71
5898072--5898181	20	5.9	19	80	12	104	50	26	17	6	1.70
5898224--5898303	19	4.4	18	71	19	60	10	21	21	47	1.79
5898190--5898284	33	2.9	33	88	0	136	11	23	20	45	1.83
5898780--5898846	21	3.2	21	66	6	55	23	35	20	19	1.95
5898728--5898846	42	2.8	42	81	5	107	22	36	18	22	1.95
5900197--5900232	14	2.6	14	95	0	63	33	0	22	44	1.53
5900339--5900470	33	4.0	33	91	2	203	47	21	19	11	1.80
5900339--5900470	19	7.7	18	71	24	92	47	21	19	11	1.80
5900404--5900481	19	4.4	19	80	18	87	46	24	16	12	1.82
5900476--5900554	33	2.4	33	95	0	140	12	22	18	45	1.84
5900476--5900554	16	4.7	18	67	24	57	12	22	18	45	1.84
5900539--5900581	20	2.2	19	83	4	50	20	23	23	32	1.98
5900548--5900620	20	3.6	20	68	17	51	23	17	26	32	1.97
5903066--5903119	24	2.2	24	90	0	81	40	20	16	22	1.91
5903983--5904111	21	6.3	21	76	10	115	31	17	20	30	1.96
5903982--5904072	20	4.5	20	80	12	73	28	18	17	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5918305--5918329	2	12.5	2	100	0	50	52	0	0	48	1.00
5918501--5918539	20	1.9	21	89	5	62	56	2	15	25	1.52
5920757--5920786	2	15.0	2	100	0	60	50	0	0	50	1.00
5920755--5920822	22	3.1	22	75	12	59	50	0	0	50	1.00
5921717--5921751	17	2.1	17	100	0	70	48	11	0	40	1.39
5922769--5922844	29	2.5	30	79	12	75	30	0	3	65	1.10
5923415--5924357	467	2.0	468	95	1	1703	27	18	23	31	1.97
5929326--5929373	21	2.1	23	88	11	73	54	0	4	41	1.20
5937005--5937071	14	5.1	14	82	14	97	7	13	26	52	1.67
5937005--5937084	24	3.2	24	86	13	108	7	12	25	55	1.63
5937012--5937094	38	2.2	38	84	4	105	9	9	21	59	1.58
5937444--5937508	16	4.1	16	89	0	103	9	10	21	58	1.59
5937439--5937511	10	7.5	10	70	22	57	10	9	20	58	1.59
5937578--5937610	16	2.1	16	100	0	66	6	12	24	57	1.57
5940474--5940521	18	2.6	18	80	6	51	37	0	2	60	1.09
5940474--5940528	19	2.9	18	78	7	56	40	0	1	58	1.09
5948668--5949328	164	4.0	164	96	1	1209	37	18	19	23	1.94
5948672--5949326	327	2.0	329	96	1	1208	38	18	18	24	1.93
5958365--5958401	13	2.8	13	100	0	74	54	0	0	45	1.00
5959410--5959457	24	2.0	25	83	4	62	41	22	18	16	1.90
5960120--5960164	23	2.0	23	90	0	72	24	26	26	22	2.00
5961097--5961154	22	2.6	21	82	15	64	37	22	0	39	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5961097--5961140	22	2.0	23	87	12	67	36	20	0	43	1.52
5961197--5961231	18	1.9	18	88	11	54	22	17	5	54	1.64
5961723--5961883	64	2.5	63	84	8	191	27	21	18	33	1.96
5966685--5967236	54	10.2	54	83	5	589	24	27	25	22	2.00
5966685--5967232	108	5.1	107	86	2	652	24	27	25	22	2.00
5966685--5967241	162	3.4	162	86	2	706	24	26	25	22	2.00
5982244--5982293	24	2.1	24	92	0	82	24	4	24	48	1.68
5987029--5987072	18	2.5	17	85	10	61	34	0	2	63	1.07
5989534--5989691	21	7.8	20	72	7	86	38	25	17	18	1.92
5989658--5989907	20	12.5	20	84	3	261	38	24	18	18	1.93
5990590--5990636	24	2.0	24	87	8	69	25	14	21	38	1.92
5990811--5990835	12	2.1	12	100	0	50	72	0	28	0	0.86
5993172--5993227	20	2.8	20	100	0	112	14	23	14	48	1.80
5993244--5993298	14	3.6	14	73	21	56	45	20	23	10	1.82
5993226--5993317	33	2.8	33	98	1	175	44	18	23	13	1.85
5993258--5993374	52	2.2	52	95	0	207	44	17	21	16	1.87
5993381--5993480	19	5.5	19	84	12	147	15	23	17	45	1.85
5993364--5993480	53	2.2	53	95	1	209	14	24	17	43	1.86
5993587--5993623	14	2.6	14	91	0	65	45	21	0	32	1.52
5995602--5995658	14	3.7	14	77	20	60	45	22	21	10	1.82
5995583--5995675	33	2.8	33	95	0	168	47	21	20	10	1.80
5995546--5995680	19	7.6	19	76	16	128	45	23	19	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5995676--5995766	33	2.8	33	91	5	141	7	18	28	45	1.77
5995676--5995803	19	7.3	19	74	18	116	8	17	28	45	1.78
5995847--5996413	93	6.1	93	98	0	1107	46	18	12	22	1.83
5998118--5998207	14	5.7	14	74	23	81	41	24	25	8	1.84
5998110--5998224	33	3.5	33	95	0	203	44	21	24	9	1.82
5998117--5998229	19	6.8	18	72	23	88	42	23	24	9	1.84
5998241--5998297	14	3.7	14	72	20	51	8	22	24	43	1.81
5998225--5998305	33	2.5	33	89	0	117	8	19	25	45	1.79
5998281--5998358	41	1.9	41	94	0	138	12	25	17	43	1.85
5998282--5998357	21	3.7	21	85	3	109	11	25	18	44	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27