genome.fa.s851.2.7.7.80.10.50.1000.23.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  23  of  31  ( 3618 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)
5467112--5467137	2	13.0	2	100	0	52	50	0	0	50	1.00
5468642--5468684	18	2.5	17	85	7	61	67	2	4	25	1.22
5469833--5470970	105	11.0	105	92	2	1827	22	17	26	33	1.96
5469833--5470970	207	5.5	208	94	1	1874	22	17	26	33	1.96
5471613--5471770	68	2.4	66	84	4	201	35	8	22	32	1.85
5471614--5471796	65	2.7	67	81	4	183	37	8	22	31	1.85
5471746--5472026	36	8.0	35	77	12	272	40	14	19	25	1.90
5471694--5472007	138	2.3	137	84	1	414	39	13	20	26	1.89
5471783--5471970	102	1.8	102	88	2	288	40	14	19	26	1.89
5471883--5472060	36	5.0	36	84	4	173	38	16	20	24	1.92
5472930--5473027	22	4.5	22	93	0	169	22	14	26	36	1.92
5473627--5473684	9	6.2	9	88	7	89	0	10	3	86	0.69
5473616--5473658	17	2.4	18	84	3	52	0	13	4	81	0.84
5473633--5473693	29	2.1	29	84	3	79	0	13	4	81	0.83
5474870--5474908	8	5.0	8	84	6	53	58	12	17	10	1.61
5474870--5474908	15	2.5	15	87	4	51	58	12	17	10	1.61
5478026--5478068	18	2.5	17	85	7	61	67	2	4	25	1.22
5484262--5484312	25	2.0	25	96	0	93	33	13	11	41	1.81
5486392--5486419	14	2.0	14	100	0	56	28	0	0	71	0.86
5487043--5487326	143	2.0	137	87	4	397	27	23	14	34	1.94
5496023--5496087	32	2.0	32	100	0	130	30	27	9	32	1.88
5502342--5502383	21	2.0	21	100	0	84	42	0	9	47	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5509356--5509409	20	2.7	20	91	5	83	25	7	31	35	1.84
5516751--5517000	45	5.6	45	85	0	322	23	20	15	40	1.91
5519010--5519252	45	5.4	45	90	0	360	23	20	15	40	1.90
5519233--5519274	22	1.9	22	85	0	57	26	14	16	42	1.86
5521298--5521456	45	3.5	45	84	1	212	23	20	14	40	1.90
5521275--5521459	90	2.1	85	85	6	237	24	20	12	42	1.87
5521519--5521580	21	3.1	21	88	6	85	56	6	4	32	1.46
5521664--5521905	120	2.0	120	100	0	484	34	17	12	35	1.87
5523610--5523650	15	3.1	14	80	20	52	51	0	14	34	1.43
5523928--5524077	31	4.8	31	89	1	221	21	19	21	38	1.94
5528681--5528745	29	2.2	31	83	10	82	35	4	1	58	1.28
5529158--5529204	22	2.1	22	84	0	58	40	2	0	57	1.11
5534103--5534156	18	3.1	17	76	13	56	66	1	5	25	1.23
5538844--5538894	2	26.0	2	92	4	86	50	1	0	47	1.12
5541249--5541317	6	12.0	6	80	9	63	55	0	42	2	1.15
5541260--5541317	18	3.2	18	90	0	71	56	0	39	3	1.16
5542169--5542235	33	2.0	33	94	0	116	32	32	11	22	1.90
5546991--5547017	5	5.4	5	100	0	54	18	0	0	81	0.69
5546921--5547342	111	3.6	111	83	9	452	23	18	15	42	1.88
5547115--5547342	125	1.8	125	87	3	343	22	16	16	44	1.86
5547115--5547387	125	2.2	125	82	5	302	23	16	14	46	1.83
5547731--5547770	16	2.5	17	84	11	50	15	2	10	72	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5553005--5553037	16	2.1	16	100	0	66	30	18	12	39	1.87
5553005--5553052	16	3.0	16	87	6	53	35	16	12	35	1.87
5553223--5553328	46	2.3	47	83	4	126	33	21	10	34	1.88
5557077--5557208	60	2.2	60	81	9	153	36	22	3	37	1.73
5557381--5557518	60	2.3	60	82	7	163	39	2	23	34	1.70
5557410--5557555	59	2.5	60	80	5	172	40	3	22	33	1.71
5559917--5560031	54	2.1	54	80	3	133	30	13	14	41	1.84
5561090--5561118	2	14.5	2	100	0	58	48	0	0	51	1.00
5561324--5561359	2	18.0	2	100	0	72	50	0	0	50	1.00
5562219--5562263	21	2.1	21	84	8	56	22	31	26	20	1.98
5568871--5568929	31	1.9	31	89	0	91	40	5	10	44	1.60
5568952--5568994	22	2.0	22	100	0	86	51	13	0	34	1.42
5569154--5569384	22	10.0	22	72	20	177	48	12	0	38	1.42
5569036--5569762	124	6.1	122	69	24	367	51	13	0	35	1.41
5569152--5569216	20	3.1	21	86	6	96	49	12	0	38	1.41
5569152--5569253	20	4.5	20	70	24	69	50	10	0	39	1.38
5569278--5569328	20	2.7	18	82	11	66	45	15	0	39	1.47
5569227--5569384	69	2.3	69	84	7	196	48	13	0	37	1.42
5569293--5569415	49	2.5	51	90	5	189	49	12	0	38	1.40
5569005--5569668	48	13.7	46	69	22	239	50	13	0	35	1.42
5569110--5569610	247	2.0	240	85	10	671	49	12	0	37	1.41
5569474--5569577	21	5.0	21	70	28	71	50	10	0	38	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5569426--5570161	52	15.1	53	69	23	255	51	13	0	35	1.41
5569451--5569534	27	3.3	27	71	21	83	51	10	0	38	1.37
5569348--5569493	78	1.9	76	91	5	240	51	14	0	34	1.43
5568957--5569989	73	13.9	76	74	20	409	50	13	0	35	1.42
5569514--5569547	14	2.4	14	100	0	68	58	0	0	41	0.98
5569595--5569704	26	4.2	26	69	23	88	54	17	0	28	1.43
5569426--5569649	116	1.9	116	83	7	287	51	12	0	36	1.39
5569592--5569666	22	3.2	23	75	17	82	54	17	0	28	1.43
5569640--5569706	30	2.2	31	84	12	86	56	14	0	28	1.39
5569718--5569767	14	3.0	18	72	22	63	56	12	0	32	1.36
5569712--5569788	17	5.0	15	67	21	52	53	9	0	37	1.33
5569712--5569792	32	2.6	31	94	3	137	53	9	0	37	1.35
5569638--5569869	108	2.2	104	83	8	283	52	12	0	34	1.40
5569780--5569839	22	2.8	22	92	2	104	51	13	0	35	1.41
5569897--5570009	20	6.1	19	72	21	89	50	13	0	36	1.42
5569534--5570009	72	6.3	71	73	18	292	50	13	0	35	1.42
5569936--5570041	31	3.7	30	68	29	97	50	12	0	36	1.40
5569973--5570018	20	2.2	21	84	7	58	52	15	0	32	1.43
5569960--5570190	99	2.4	95	79	12	256	51	12	0	36	1.40
5570098--5570188	20	4.2	21	71	19	80	50	9	0	39	1.36
5570019--5570211	100	1.9	99	84	9	259	50	11	0	37	1.43
5570184--5570301	28	4.5	26	79	14	111	46	1	0	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5570090--5570238	64	2.3	64	81	12	164	50	6	0	42	1.32
5570190--5570265	14	5.3	14	86	13	102	48	0	1	50	1.09
5570209--5570318	28	4.1	27	68	18	79	48	1	0	50	1.11
5570713--5570741	2	15.0	2	92	7	51	51	0	0	48	1.00
5570909--5570936	2	14.0	2	100	0	56	50	0	0	50	1.00
5570547--5570939	195	2.0	195	98	1	770	42	10	12	34	1.76
5577102--5577471	55	6.7	55	90	1	562	37	10	16	35	1.83
5582551--5582594	18	2.4	18	100	0	88	29	29	11	29	1.92
5589361--5589405	21	2.1	21	100	0	90	22	35	4	37	1.74
5589370--5589413	21	2.2	20	84	8	54	20	40	2	36	1.65
5590657--5590705	3	17.0	3	87	8	75	30	0	2	67	1.02
5591951--5592007	29	1.9	30	82	10	73	28	8	3	59	1.44
5592935--5592995	28	2.3	27	85	5	79	36	4	0	59	1.19
5592919--5592995	26	2.8	26	77	12	75	37	3	0	58	1.17
5596253--5596284	15	2.1	15	94	0	55	25	21	6	46	1.74
5600062--5600092	9	3.6	9	91	8	55	22	22	0	54	1.44
5603624--5603679	6	9.7	6	82	7	71	76	0	12	10	1.01
5603622--5603680	18	3.3	18	93	6	95	77	0	11	10	0.98
5603625--5603692	18	3.5	19	81	18	70	75	0	13	11	1.06
5603617--5603693	34	2.3	32	82	12	102	74	0	14	11	1.08
5603622--5603686	34	1.9	33	90	9	105	76	0	12	10	1.01
5603699--5603723	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5604782--5605105	123	2.7	120	88	4	487	40	14	19	25	1.89
5605297--5605345	17	3.1	16	83	16	50	26	0	2	71	0.97
5605310--5605346	3	13.0	3	83	11	51	29	0	2	67	1.04
5606718--5606751	2	17.0	2	93	0	59	52	0	0	47	1.00
5624400--5624438	3	12.7	3	89	5	60	66	0	0	33	0.92
5624635--5624782	74	2.0	74	90	1	235	29	18	20	31	1.97
5624732--5624835	45	2.3	45	88	3	147	29	18	19	32	1.95
5624658--5624911	121	2.1	119	87	4	359	30	18	19	30	1.96
5624777--5624988	76	2.8	77	93	0	345	32	19	18	29	1.96
5624593--5625104	198	2.6	198	88	2	730	32	18	19	29	1.96

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