genome.fa.s8620.2.7.7.80.10.50.1000.48.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  48  of  64  ( 7674 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)
9595939--9595973	17	2.0	18	88	5	54	17	22	40	20	1.92
9600417--9600446	5	6.0	5	100	0	60	60	0	0	40	0.97
9605045--9605098	28	1.9	28	92	0	90	37	5	25	31	1.79
9613390--9613439	18	2.7	18	84	6	64	74	0	14	12	1.09
9613408--9613432	11	2.3	11	100	0	50	84	0	8	8	0.79
9619962--9619996	3	11.7	3	88	11	54	68	0	0	31	0.90
9620275--9620693	122	3.4	122	87	1	590	29	16	20	33	1.94
9623740--9623808	20	3.5	19	72	20	54	7	17	1	73	1.12
9623732--9623831	48	2.1	48	87	10	143	7	16	1	76	1.06
9625388--9625436	19	2.5	19	83	12	64	63	0	12	24	1.29
9627521--9628459	468	2.0	468	99	0	1860	40	17	15	25	1.89
9634220--9634866	245	2.6	244	86	4	881	24	16	19	40	1.91
9635339--9635393	24	2.4	24	85	11	71	14	10	3	70	1.28
9641896--9641945	24	2.1	24	92	0	82	22	20	30	28	1.98
9643735--9643858	41	3.0	40	81	4	124	31	18	16	33	1.94
9649674--9649765	23	4.0	23	86	0	139	32	26	25	16	1.96
9651331--9651408	20	3.8	20	75	18	70	24	25	19	30	1.98
9654854--9654922	23	3.0	23	76	0	75	33	24	23	18	1.97
9656024--9656073	18	2.6	19	74	25	52	34	20	0	46	1.51
9659047--9659136	43	2.1	43	97	2	173	34	17	20	27	1.95
9659857--9659963	52	2.0	54	90	3	173	19	22	15	42	1.89
9660214--9660277	21	3.0	21	84	8	85	20	3	18	57	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9660445--9660536	44	2.1	43	85	2	121	36	18	16	28	1.92
9662143--9662180	20	1.9	20	88	0	58	21	26	10	42	1.85
9668720--9668753	16	2.1	16	94	0	59	32	8	26	32	1.87
9673831--9673913	39	2.2	38	93	2	139	49	6	2	42	1.40
9676173--9676262	18	4.9	17	69	16	63	34	5	3	56	1.39
9676241--9676277	13	2.7	14	84	15	51	37	2	0	59	1.12
9677277--9677306	15	1.9	16	93	6	53	73	3	0	23	0.98
9677763--9677817	20	2.6	21	85	11	76	36	0	18	45	1.49
9679676--9679702	2	13.5	2	100	0	54	48	0	0	51	1.00
9686843--9686959	36	3.1	36	70	9	117	29	15	12	41	1.84
9686785--9686960	76	2.3	77	89	1	257	31	15	13	39	1.86
9687020--9687084	22	3.2	22	62	20	59	32	20	18	29	1.96
9687000--9687518	39	13.3	39	88	1	718	28	18	16	35	1.93
9690878--9691127	125	2.0	125	99	0	491	39	17	19	24	1.92
9693737--9693774	20	1.9	20	88	0	58	21	26	10	42	1.85
9697036--9697250	107	2.0	108	99	0	423	34	16	13	34	1.89
9697389--9697523	54	2.5	54	85	0	171	35	13	21	29	1.91
9698433--9698582	74	2.0	74	89	0	228	28	19	19	32	1.96
9698473--9698693	116	1.9	116	87	0	325	28	24	20	27	1.99
9698754--9699193	120	3.7	118	90	2	645	29	22	21	27	1.99
9699453--9699545	3	32.0	3	81	10	113	37	0	1	61	1.03
9699457--9699548	31	3.0	30	83	10	116	39	0	1	59	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9700005--9700045	21	2.0	20	90	4	64	53	19	24	2	1.57
9703355--9703422	13	5.5	13	79	10	88	16	45	22	16	1.85
9703351--9703422	36	2.0	36	91	5	119	16	47	20	15	1.83
9705428--9705464	13	2.8	13	83	0	56	16	45	21	16	1.84
9705426--9705488	31	2.0	31	87	6	92	15	46	22	15	1.84
9705446--9705482	18	2.1	18	94	0	65	16	45	24	13	1.83
9710383--9710428	20	2.2	21	92	3	76	34	0	17	47	1.48
9710837--9710964	64	2.0	64	98	0	247	32	24	25	18	1.97
9712747--9712778	16	2.0	17	88	11	50	53	3	0	43	1.16
9712937--9712974	3	12.7	3	100	0	76	65	0	0	34	0.93
9714347--9714411	6	10.8	6	76	12	53	47	0	1	50	1.10
9714377--9714443	3	23.0	3	78	6	75	59	0	0	40	0.97
9714702--9714763	20	3.2	20	63	28	51	19	22	6	51	1.69
9718225--9718307	24	3.3	24	68	6	67	33	8	15	42	1.77
9718236--9718336	50	2.0	50	100	0	202	32	9	15	41	1.81
9718242--9718328	24	3.5	24	76	11	104	31	9	16	43	1.79
9718246--9718325	26	3.2	26	62	13	67	31	8	15	45	1.76
9719363--9719653	111	2.6	111	83	5	345	29	17	15	37	1.91
9719577--9719730	76	2.0	77	98	1	301	26	18	12	41	1.87
9719475--9719842	187	2.0	188	86	3	519	27	19	14	39	1.90
9719649--9719992	112	3.1	111	90	1	492	26	19	15	38	1.92
9719363--9719954	299	2.0	301	85	5	806	27	19	15	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9733828--9733873	3	16.0	3	86	8	69	67	0	0	32	0.91
9733832--9733886	25	2.2	25	87	6	76	70	1	0	27	0.97
9733829--9733874	22	2.0	22	91	4	74	69	0	0	30	0.89
9743049--9743166	36	3.2	36	67	9	92	28	16	13	41	1.86
9742990--9743167	76	2.3	77	86	1	234	30	15	13	39	1.86
9743227--9743291	22	3.2	22	60	28	52	32	20	18	29	1.96
9743207--9743647	39	11.3	39	87	1	589	29	19	15	34	1.93
9743906--9744064	44	3.6	43	69	6	104	31	17	21	29	1.96
9748120--9748217	41	2.4	41	98	0	187	37	22	13	26	1.91
9749616--9749656	13	3.1	13	86	6	64	36	53	7	2	1.42
9755374--9755738	196	1.9	196	87	1	534	34	14	19	31	1.91
9761199--9761238	19	2.1	19	86	9	55	15	17	12	55	1.70
9765659--9765713	20	2.6	21	85	11	76	36	0	18	45	1.49
9771410--9771475	33	2.0	34	87	3	98	24	19	15	40	1.90
9772732--9772767	12	3.1	12	92	4	56	44	19	36	0	1.51
9776877--9776943	30	2.2	30	91	0	107	31	23	5	38	1.79
9780970--9781033	26	2.5	26	71	14	62	20	12	15	51	1.75
9785332--9785382	24	2.0	24	85	11	66	9	9	25	54	1.63
9786555--9786924	175	2.1	174	91	1	607	34	15	13	36	1.87
9786913--9787004	42	2.2	41	79	7	105	32	19	20	27	1.97
9787971--9788021	3	17.7	3	92	8	88	35	0	0	64	0.94
9788081--9788132	23	2.3	23	89	0	77	40	40	9	9	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9788081--9788150	23	3.0	23	81	8	72	40	41	7	11	1.69
9790656--9790699	19	2.2	21	88	8	65	34	0	15	50	1.45
9794837--9794898	25	2.5	25	84	5	72	74	3	4	17	1.13
9796655--9796977	39	8.3	39	90	0	470	36	15	17	30	1.90
9797458--9797657	52	3.5	59	74	13	154	42	20	10	28	1.84
9797458--9797670	59	3.8	56	74	13	186	42	19	9	28	1.83
9797516--9797669	52	2.8	52	78	15	177	42	20	10	27	1.84
9797460--9797669	110	1.9	112	86	5	302	41	19	10	28	1.83
9797401--9797689	58	5.1	57	75	12	209	40	18	9	31	1.83
9806819--9807785	510	1.9	510	90	0	1542	34	16	20	29	1.94
9822613--9822660	21	2.3	21	82	7	62	54	10	35	0	1.35
9826385--9826450	34	1.9	35	84	3	89	40	10	21	27	1.86
9830444--9830487	2	23.0	2	90	9	74	50	0	0	50	1.00
9833559--9833703	72	2.0	72	100	0	290	22	30	16	31	1.96
9835474--9835786	156	2.0	157	99	0	619	23	17	24	34	1.95
9839738--9839864	59	2.1	59	80	9	143	34	20	17	27	1.95
9842287--9842342	26	2.2	26	81	9	62	48	3	0	48	1.19
9842653--9842692	2	20.0	2	94	0	71	52	0	0	47	1.00
9843673--9843707	2	17.5	2	100	0	70	51	0	0	48	1.00
9844293--9844853	55	10.2	55	84	2	689	28	18	17	35	1.94
9851431--9851825	55	7.4	54	76	7	347	28	16	17	37	1.92
9851456--9851825	163	2.3	165	81	6	445	28	16	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9851823--9851847	9	2.8	9	100	0	50	32	20	24	24	1.98
9853958--9854056	40	2.4	41	85	5	121	30	20	16	33	1.94
9858663--9858705	18	2.4	18	88	0	68	13	41	9	34	1.77
9869696--9869784	32	2.8	32	85	8	112	34	17	16	30	1.93
9873882--9874006	59	2.1	58	80	4	144	37	20	17	24	1.93
9877006--9877125	63	1.9	62	81	5	143	52	4	4	39	1.40
9877714--9877810	44	2.2	44	83	7	117	25	21	20	31	1.98
9880486--9880606	60	2.0	60	100	0	242	33	23	20	23	1.98
9881384--9881461	31	2.5	31	91	0	129	17	17	21	42	1.89
9881384--9881475	31	3.0	31	87	3	96	20	17	21	40	1.92

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64