genome.fa.s9639.2.7.7.80.10.50.1000.60.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  60  of  62  ( 7398 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)
14457080--14457414	15	22.9	15	67	19	97	47	3	4	44	1.39
14457191--14457215	13	1.9	13	100	0	50	48	8	4	40	1.51
14457077--14457372	85	3.5	85	79	10	293	47	3	5	44	1.40
14457300--14457407	31	3.4	32	76	13	98	48	2	3	45	1.34
14457464--14457509	7	6.6	7	82	0	56	50	32	0	17	1.47
14457464--14457518	28	1.9	29	88	3	85	49	29	0	21	1.50
14457621--14457694	37	2.1	36	87	5	105	40	8	10	40	1.70
14457702--14457735	2	17.0	2	100	0	68	50	0	0	50	1.00
14457818--14457856	7	5.6	7	82	11	53	46	38	0	15	1.46
14458075--14458127	21	2.5	21	87	0	79	39	7	5	47	1.56
14458058--14458156	22	4.6	21	76	12	76	36	6	8	49	1.57
14458185--14458235	19	2.5	21	75	18	54	43	3	5	47	1.46
14458103--14458344	121	2.0	122	84	7	314	43	4	4	47	1.42
14458138--14458317	31	6.0	30	70	18	106	42	4	4	48	1.43
14458145--14458393	15	16.3	14	68	23	96	44	4	3	48	1.37
14458297--14458410	34	3.4	34	79	16	98	50	1	0	47	1.17
14458353--14458427	28	2.7	27	80	15	73	53	1	1	44	1.17
14458354--14458427	15	5.1	14	77	14	71	54	1	1	43	1.17
14459497--14459725	102	2.2	102	95	0	404	22	9	17	49	1.76
14462262--14462310	20	2.5	20	86	0	62	12	34	14	38	1.83
14462898--14462944	14	3.7	14	71	26	50	51	4	0	44	1.21
14462896--14462945	23	2.1	24	96	3	93	48	4	0	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14462984--14463010	13	2.1	13	100	0	54	44	0	0	55	0.99
14463217--14463260	16	2.8	16	92	0	70	43	15	25	15	1.87
14464929--14464957	3	10.0	3	92	7	51	31	0	0	68	0.89
14471349--14471378	2	15.5	2	93	6	53	53	0	0	46	1.00
14472680--14472977	60	4.8	61	80	6	305	36	20	17	25	1.94
14472680--14472977	121	2.4	123	84	5	359	36	20	17	25	1.94
14473374--14473481	48	2.2	48	86	3	146	24	27	20	27	1.99
14481716--14481760	20	2.2	20	84	7	56	31	15	17	35	1.92
14484160--14484207	17	2.6	20	84	15	68	25	22	18	33	1.97
14484073--14484315	100	2.4	100	93	2	396	27	22	18	31	1.97
14485070--14485112	20	2.1	20	83	12	52	27	9	25	37	1.87
14485085--14485156	20	3.6	20	80	10	67	26	16	26	30	1.97
14485461--14485486	9	2.9	9	100	0	52	53	34	0	11	1.37
14491324--14491378	20	2.8	20	94	0	92	25	12	25	36	1.91
14491325--14491389	20	3.2	20	88	0	67	27	15	21	35	1.94
14496070--14496137	32	2.2	32	86	7	95	44	2	5	47	1.42
14498775--14498823	6	8.2	6	95	0	80	30	48	16	4	1.64
14498821--14498874	5	10.8	5	93	0	72	16	37	40	5	1.72
14508337--14508395	31	1.9	31	89	0	91	40	5	10	44	1.60
14508420--14508484	22	3.0	22	100	0	130	50	13	0	35	1.42
14508410--14508762	80	4.4	80	89	5	543	52	13	0	33	1.41
14508500--14508573	22	3.4	22	68	17	55	56	16	0	27	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14508442--14508762	166	1.9	166	97	0	606	52	14	0	33	1.42
14508608--14508650	22	2.0	22	95	0	77	48	13	0	37	1.43
14508496--14509017	134	3.9	131	81	12	572	52	13	0	34	1.41
14508610--14508658	22	2.2	22	85	3	62	53	14	0	32	1.41
14508742--14508784	22	2.0	22	100	0	86	51	13	0	34	1.42
14508576--14508972	188	2.1	188	97	0	740	51	13	0	34	1.42
14508744--14508792	22	2.2	22	88	3	71	55	14	0	30	1.40
14508444--14508816	166	2.2	166	90	2	554	52	14	0	33	1.42
14508742--14509052	76	4.1	77	71	20	212	51	12	0	36	1.39
14508799--14509017	80	2.8	76	92	3	348	52	12	0	34	1.39
14508880--14509003	22	6.4	19	71	20	55	50	13	0	35	1.42
14508852--14508926	22	3.2	23	75	17	82	54	17	0	28	1.43
14508930--14509052	22	5.5	22	76	5	129	50	10	0	39	1.37
14508410--14509017	54	11.4	54	73	15	416	52	13	0	34	1.41
14508997--14509144	15	9.5	15	83	10	181	50	2	0	47	1.12
14513315--14513377	17	3.8	17	78	2	65	36	11	6	46	1.65
14514322--14514415	41	2.3	41	96	1	172	25	37	2	35	1.68
14514597--14514638	10	4.3	10	82	11	52	88	2	0	9	0.61
14514596--14514639	16	2.7	16	85	3	52	84	2	0	13	0.73
14514597--14514638	19	2.2	19	87	8	59	88	2	0	9	0.61
14518344--14518395	21	2.4	21	87	3	68	23	28	21	26	1.99
14519118--14519207	32	2.8	32	90	5	139	36	20	17	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14521609--14521662	23	2.2	25	83	6	67	61	14	16	7	1.55
14521618--14521668	25	2.1	23	82	7	57	60	13	19	5	1.53
14524694--14524875	91	2.0	90	86	1	256	21	28	21	28	1.99
14529991--14530040	25	2.0	25	100	0	100	48	8	0	44	1.32
14536200--14536244	14	3.1	14	87	3	63	40	0	2	57	1.11
14536200--14536244	5	9.4	5	85	9	67	40	0	2	57	1.11
14536326--14536351	12	2.2	12	100	0	52	42	0	7	50	1.31
14538901--14539082	5	35.6	5	90	8	287	40	0	0	58	1.02
14540206--14540332	53	2.4	53	79	16	129	18	7	3	70	1.23
14540301--14540340	20	2.0	20	85	0	53	22	2	2	72	1.09
14543877--14544071	99	2.0	98	82	3	239	33	14	18	33	1.92
14545315--14545677	201	1.8	201	87	3	543	32	19	21	27	1.97
14545315--14545769	201	2.3	201	83	6	530	33	19	19	27	1.96
14546761--14546819	29	2.0	31	90	6	95	35	5	16	42	1.71
14548669--14548739	22	3.5	22	80	16	73	30	14	22	32	1.93
14549174--14549374	45	4.5	45	85	6	225	39	9	21	29	1.85
14549185--14549374	90	2.1	90	89	0	290	39	9	20	30	1.84
14555902--14556049	80	1.9	77	82	9	183	45	5	8	40	1.56
14557045--14557115	19	3.5	21	83	9	85	30	15	22	30	1.95
14557528--14557896	45	8.2	44	92	1	558	38	10	21	28	1.87
14559042--14559100	21	2.8	21	84	5	66	15	5	1	77	1.01
14561605--14561704	21	4.7	21	78	11	114	22	36	20	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14561605--14561704	43	2.4	42	86	8	132	22	36	20	22	1.96
14561724--14561776	20	2.7	20	90	0	79	22	24	22	30	1.99
14564274--14564320	20	2.4	19	82	10	67	53	10	17	19	1.72
14564062--14564479	182	2.3	182	89	0	622	42	13	16	26	1.86
14566871--14566927	21	2.7	21	88	0	78	43	10	28	17	1.82
14566961--14567026	33	2.0	33	88	5	98	28	1	46	22	1.61
14567996--14568486	183	2.7	183	95	0	883	34	14	16	34	1.90
14568364--14568606	120	2.0	120	93	1	416	32	12	15	39	1.85
14568663--14568904	119	2.1	116	92	5	398	31	13	16	38	1.87
14568961--14569207	120	2.1	120	94	0	431	32	13	15	38	1.87
14568177--14569371	303	4.0	302	96	1	2168	34	14	16	35	1.89
14571852--14571924	23	3.2	23	90	0	110	32	4	21	41	1.72
14572332--14572403	23	3.2	23	88	2	101	36	5	19	38	1.75
14571666--14572800	479	2.4	483	94	2	2000	41	7	11	39	1.69
14576249--14576427	2	91.5	2	76	15	126	45	2	3	48	1.33
14576340--14576427	9	9.8	9	69	15	58	47	0	3	48	1.18
14576348--14576426	29	2.7	29	78	5	88	46	0	3	49	1.19
14578458--14578517	20	3.0	20	85	9	86	25	28	23	23	2.00
14578458--14578533	20	3.8	20	86	6	75	26	27	21	25	1.99
14578458--14578533	40	1.9	40	83	5	100	26	27	21	25	1.99
14580247--14580277	10	3.2	10	95	4	55	25	0	0	74	0.82
14583064--14583492	214	2.0	214	100	0	858	29	26	19	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14584672--14584774	33	3.1	33	82	8	129	34	23	26	15	1.94
14595735--14595767	17	1.9	17	93	0	57	30	24	12	33	1.91
14601764--14602118	177	2.0	177	100	0	710	30	16	17	35	1.92
14608423--14608463	21	2.0	21	85	0	55	48	14	4	31	1.65
14617138--14617212	31	2.5	31	77	12	84	45	2	0	52	1.15
14617212--14617257	20	2.3	21	85	14	62	47	0	2	50	1.13
14617453--14617506	26	2.1	26	89	0	81	22	20	16	40	1.91
14621286--14621373	33	2.6	33	83	7	106	20	2	13	63	1.40
14621368--14621448	35	2.3	32	77	20	83	25	6	9	58	1.54
14626064--14626088	13	1.9	13	100	0	50	40	16	12	32	1.84

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