genome.fa.s8527.2.7.7.80.10.50.1000.28.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  28  of  37  ( 4336 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)
6895066--6895132	16	4.5	15	76	16	61	77	7	11	2	1.08
6895106--6895148	22	1.9	23	85	4	61	79	2	16	2	0.95
6895071--6895145	28	2.7	26	78	13	78	77	5	14	2	1.06
6896947--6897018	37	1.9	37	88	0	108	26	18	12	43	1.85
6897637--6897956	106	3.0	106	91	0	514	35	23	18	22	1.96
6899394--6899450	12	4.9	11	93	2	51	43	0	1	54	1.10
6899406--6899450	2	22.5	2	100	0	90	48	0	0	51	1.00
6906177--6906223	18	2.5	19	78	18	53	42	25	4	27	1.73
6917180--6917213	17	2.0	17	88	0	50	50	2	2	44	1.32
6923873--6923915	2	21.5	2	95	0	77	48	0	0	51	1.00
6924070--6924149	40	2.0	40	97	0	151	22	18	7	51	1.71
6926990--6927031	2	21.0	2	100	0	84	50	0	0	50	1.00
6929045--6929084	7	5.4	7	85	11	53	72	2	2	22	1.09
6929522--6929600	31	2.5	31	91	0	122	32	6	15	45	1.71
6931506--6931548	10	4.7	10	78	21	58	58	20	11	9	1.61
6931510--6931542	16	2.1	16	100	0	66	57	24	12	6	1.57
6932635--6932696	10	5.4	10	73	26	52	56	22	11	9	1.63
6932635--6932696	24	2.6	24	94	0	106	56	22	11	9	1.63
6932642--6932697	14	4.3	14	76	17	57	55	23	12	8	1.65
6932635--6932722	24	3.6	25	84	6	94	52	21	14	11	1.73
6936918--6936991	38	2.0	38	89	2	114	13	10	33	41	1.79
6936956--6937046	28	3.2	28	96	0	164	14	8	30	46	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6937635--6937681	18	2.7	18	93	3	78	27	31	8	31	1.87
6940416--6940467	24	2.2	24	82	0	59	11	15	25	48	1.78
6940427--6940477	10	4.7	10	80	17	57	9	11	23	54	1.66
6940437--6940487	14	3.9	14	73	19	56	9	11	21	56	1.63
6940426--6940487	24	2.6	24	89	5	99	11	12	20	54	1.68
6941995--6942032	17	2.2	18	85	4	51	44	5	23	26	1.74
6943995--6944025	3	10.3	3	92	0	53	0	0	64	35	0.94
6945033--6945057	2	12.5	2	100	0	50	52	0	0	48	1.00
6945500--6945534	2	18.0	2	94	5	63	48	0	0	51	1.00
6946036--6946084	5	9.2	5	78	12	53	4	18	51	26	1.64
6947738--6947785	23	2.1	23	84	7	62	70	0	0	29	0.87
6947741--6947870	32	3.9	33	73	15	101	64	3	0	31	1.14
6947765--6947864	17	5.8	18	71	14	68	65	4	1	30	1.18
6947805--6947864	26	2.4	25	80	2	66	68	1	0	30	0.99
6948206--6948261	23	2.4	23	90	0	94	32	5	5	57	1.44
6950370--6950405	18	1.9	19	88	5	56	72	0	11	16	1.12
6953403--6953449	2	24.0	2	82	4	60	48	6	0	44	1.28
6953502--6953533	16	2.0	16	100	0	64	50	6	0	43	1.27
6953857--6953883	2	13.5	2	100	0	54	51	0	0	48	1.00
6954269--6954416	76	2.0	75	82	6	183	31	2	9	56	1.43
6955075--6955102	4	7.0	4	100	0	56	25	0	0	75	0.81
6955128--6955181	28	1.9	28	82	14	67	24	3	0	72	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6956294--6956527	28	8.3	29	81	7	126	40	3	14	41	1.63
6956341--6956650	55	5.6	56	88	6	425	40	3	14	41	1.62
6956342--6956665	29	11.5	29	86	7	420	39	3	14	42	1.63
6956342--6956665	28	11.5	29	85	8	395	39	3	14	42	1.63
6960757--6960822	29	2.3	29	86	2	98	36	4	16	42	1.69
6960814--6961071	28	9.2	28	89	4	351	38	3	14	43	1.61
6970073--6970185	56	2.0	56	93	5	192	46	10	15	27	1.79
6971228--6971312	42	2.0	42	97	0	161	41	14	17	27	1.88
6973321--6973418	2	48.5	2	68	13	58	51	3	6	39	1.43
6973321--6973407	39	2.2	39	91	0	138	51	2	6	39	1.41
6974055--6974085	16	1.9	16	100	0	62	32	16	19	32	1.94
6987651--6987763	51	2.2	51	96	1	210	47	5	15	31	1.67
6993751--6993795	17	2.6	17	76	10	56	66	2	0	31	1.04
6994089--6994115	6	4.5	6	100	0	54	70	0	0	29	0.88
6996123--6996162	18	2.4	16	87	8	53	52	0	2	45	1.14
6997749--6997812	23	2.8	23	70	0	56	35	18	3	42	1.66
7006161--7006257	48	2.0	48	97	0	185	32	14	26	25	1.94
7008722--7008852	68	1.9	68	98	0	253	29	10	4	54	1.54
7014599--7014660	26	2.3	27	75	16	65	53	4	1	40	1.32
7019038--7019143	56	1.9	55	88	1	158	36	8	6	48	1.60
7025988--7026064	31	2.5	31	78	2	82	14	25	31	28	1.95
7028041--7028084	3	14.0	3	90	9	54	0	29	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7028042--7028085	23	1.9	23	90	9	72	0	27	0	72	0.85
7029701--7029749	21	2.3	21	85	0	62	32	8	16	42	1.77
7043465--7043541	39	2.0	39	89	0	118	27	11	7	53	1.64
7055061--7055134	33	2.3	34	84	11	102	40	8	2	48	1.47
7057758--7057814	29	2.0	29	86	6	80	57	19	0	22	1.40
7059727--7060376	325	2.0	322	94	0	1147	35	17	16	30	1.92
7062896--7062952	2	28.5	2	100	0	114	49	0	0	50	1.00
7066213--7066307	22	4.5	22	72	17	85	44	1	2	52	1.19
7071175--7071199	5	5.0	5	100	0	50	0	20	0	80	0.72
7075481--7075509	12	2.5	12	94	5	51	17	6	6	68	1.34
7076100--7076126	13	2.1	13	100	0	54	14	22	29	33	1.94
7079159--7079235	31	2.5	31	78	2	82	14	23	31	31	1.94
7080813--7080870	2	29.0	2	89	0	89	50	5	0	44	1.24
7081201--7081269	31	2.2	31	86	0	93	24	18	2	53	1.58
7083993--7084051	26	2.3	26	100	0	118	27	23	0	49	1.51
7083993--7084064	26	2.8	26	87	6	67	27	23	1	47	1.60
7084413--7084487	14	5.1	14	69	15	53	38	1	4	56	1.27
7085482--7085530	24	2.0	24	92	0	80	32	18	14	34	1.91
7085503--7085573	31	2.3	32	76	14	76	38	18	9	33	1.84
7085994--7086076	2	41.0	2	97	2	157	49	1	0	49	1.08
7087296--7087446	66	2.3	67	85	2	214	29	27	26	15	1.96
7087748--7087819	29	2.5	29	95	0	126	40	9	11	38	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7087988--7088289	149	2.0	149	97	0	568	27	15	19	38	1.91
7088270--7088314	23	2.0	23	86	0	63	20	24	28	26	1.99
7091976--7092028	21	2.5	21	84	0	70	20	26	18	33	1.96
7092018--7092390	20	18.3	20	80	6	179	29	19	17	33	1.95
7092018--7092149	41	3.3	41	92	2	205	39	16	21	22	1.92
7092139--7092378	21	11.7	21	83	5	285	22	21	16	39	1.92
7092139--7092378	41	5.8	41	92	1	383	22	21	16	39	1.92
7092139--7092378	124	1.9	123	91	2	392	22	21	16	39	1.92
7094224--7094278	19	2.8	19	83	2	65	38	21	21	18	1.94
7094231--7094414	19	10.8	17	69	24	95	44	19	24	11	1.84
7094269--7094389	14	7.6	14	69	24	71	44	19	24	11	1.83
7094251--7094410	33	4.8	33	98	0	302	45	18	24	11	1.83
7094559--7094595	14	2.6	14	100	0	74	48	21	0	29	1.50
7095821--7095887	21	3.2	21	70	4	55	20	20	31	26	1.98
7096394--7096431	20	1.9	20	100	0	76	5	15	28	50	1.66
7096546--7096921	94	4.1	94	89	2	539	47	17	11	22	1.80
7098504--7098568	25	2.6	25	100	0	130	50	20	10	18	1.76
7098635--7098697	20	3.2	20	80	8	74	49	17	20	12	1.79
7098633--7098721	40	2.5	33	78	14	97	48	19	21	11	1.79
7099274--7099366	20	4.6	20	78	4	96	29	19	21	30	1.97
7099363--7099408	21	2.2	21	88	0	65	36	17	28	17	1.92
7099274--7099430	62	2.5	61	83	6	174	31	18	23	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7101086--7101127	20	2.3	19	80	15	52	33	28	2	35	1.70
7102290--7102331	2	21.0	2	100	0	84	50	0	0	50	1.00
7104287--7104333	24	2.0	24	95	0	85	29	6	21	42	1.77
7104311--7105580	324	3.9	324	84	4	1615	37	17	15	29	1.91
7104311--7105589	649	2.0	642	85	4	1703	37	17	15	29	1.91
7106793--7106845	27	2.0	26	82	10	63	45	9	13	32	1.75
7109477--7110643	315	3.7	319	83	5	1425	38	17	14	28	1.90
7111854--7111906	27	2.0	26	82	10	63	45	9	13	32	1.75
7114272--7114303	2	16.0	2	100	0	64	50	0	0	50	1.00
7115002--7115075	37	2.0	37	81	5	87	48	2	0	48	1.15

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