genome.fa.s8488.2.7.7.80.10.50.1000.34.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  34  of  54  ( 6450 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)
8198861--8198930	31	2.3	31	89	0	104	44	12	15	27	1.83
8201063--8201154	31	3.0	31	77	13	100	59	0	4	35	1.17
8201099--8201158	26	2.3	26	80	8	68	60	0	3	36	1.14
8201144--8201244	26	3.7	27	75	15	91	54	0	1	43	1.11
8202610--8202643	2	17.0	2	100	0	68	50	0	0	50	1.00
8203362--8203420	14	3.9	14	81	14	64	18	15	6	59	1.58
8203684--8203777	10	8.4	10	71	21	62	12	11	17	58	1.63
8203694--8203751	13	4.7	12	77	18	57	10	10	18	60	1.57
8203684--8203774	23	3.9	23	83	1	110	13	12	16	58	1.64
8203847--8203879	16	2.1	16	100	0	66	6	12	24	57	1.57
8206378--8206410	10	3.3	10	91	0	57	69	18	12	0	1.18
8208634--8208732	18	5.6	18	80	14	100	65	1	30	3	1.14
8208652--8208706	22	2.5	21	82	8	65	67	0	30	1	1.01
8208667--8208736	14	5.1	14	77	16	58	67	0	28	4	1.10
8208951--8209002	20	2.6	20	100	0	104	51	3	7	36	1.49
8220199--8220225	8	3.4	8	100	0	54	33	0	0	66	0.92
8224265--8224316	15	3.2	17	72	22	58	36	21	0	42	1.53
8225005--8225057	25	2.1	23	83	13	61	62	1	0	35	1.06
8225028--8225076	18	2.8	17	74	17	55	63	0	0	36	0.95
8225066--8225107	16	2.7	16	89	10	61	50	4	2	42	1.36
8229320--8229373	16	3.4	16	79	5	56	24	0	1	74	0.92
8229356--8229397	15	2.9	14	78	21	50	33	2	2	61	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8230221--8230268	23	2.1	23	92	7	80	45	2	0	52	1.12
8230226--8230278	23	2.3	23	81	12	63	49	1	1	47	1.23
8238530--8238640	22	5.0	22	92	0	186	28	25	20	25	1.99
8248033--8248070	17	2.3	17	86	4	51	18	2	26	52	1.58
8251238--8251271	17	1.9	17	88	5	50	35	2	2	58	1.28
8251255--8251291	14	2.6	14	86	0	56	51	0	0	48	1.00
8251860--8251904	13	3.4	13	77	17	56	64	4	2	28	1.25
8252741--8252783	16	2.5	17	85	7	52	39	2	2	55	1.25
8260368--8260496	29	4.4	29	75	9	111	37	12	23	27	1.90
8260362--8260507	58	2.5	58	76	10	147	39	10	23	26	1.88
8260368--8260516	29	5.1	29	72	12	94	38	10	24	26	1.88
8264983--8265033	25	1.9	27	88	11	79	52	5	3	37	1.44
8265443--8265852	55	7.5	55	89	0	624	35	19	11	33	1.88
8270634--8270967	164	2.0	168	97	2	631	25	12	13	47	1.78
8272616--8272736	59	2.1	59	85	0	161	25	15	22	36	1.94
8276790--8276823	14	2.4	14	95	0	59	23	0	32	44	1.54
8276798--8276828	14	2.2	14	94	0	53	22	0	29	48	1.51
8276790--8276828	14	2.8	13	85	14	51	23	0	30	46	1.53
8278402--8279049	54	12.0	54	87	0	947	33	20	18	27	1.96
8279794--8279953	80	2.0	80	100	0	320	31	20	20	28	1.97
8284926--8285468	54	10.1	54	84	3	578	33	18	17	31	1.93
8284920--8285468	108	5.1	107	84	2	645	33	18	16	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8286921--8286990	24	2.9	25	82	6	90	50	14	14	21	1.78
8291406--8291476	24	3.0	24	82	0	88	50	14	12	22	1.76
8293710--8293785	32	2.4	31	71	6	80	27	27	26	18	1.98
8298981--8299006	13	2.0	13	100	0	52	46	0	7	46	1.31
8310135--8310196	2	31.0	2	100	0	124	50	0	0	50	1.00
8313519--8313632	50	2.3	50	98	0	219	26	18	18	36	1.94
8317888--8317931	19	2.5	19	89	10	67	34	15	25	25	1.95
8318795--8318824	15	2.0	15	100	0	60	13	26	33	26	1.93
8325311--8325500	84	2.2	85	81	8	210	30	18	20	30	1.96
8338318--8338420	3	35.0	3	86	7	140	64	0	2	33	1.09
8343823--8343851	2	14.5	2	100	0	58	48	0	0	51	1.00
8346929--8346978	25	2.0	25	92	0	82	32	18	14	36	1.90
8347355--8347402	20	2.3	21	89	3	71	41	20	2	35	1.64
8350440--8350466	2	13.5	2	100	0	54	51	0	0	48	1.00
8365266--8365324	3	19.3	3	79	10	66	37	1	0	61	1.07
8366817--8366851	18	1.9	18	88	0	52	48	2	2	45	1.32
8367593--8367644	20	2.6	21	76	11	56	26	7	0	65	1.20
8369736--8369787	21	2.5	21	84	6	61	19	15	11	53	1.71
8372262--8372294	17	1.9	17	88	11	50	78	3	18	0	0.87
8374364--8374654	81	3.6	81	92	0	465	26	12	22	38	1.90
8376856--8377010	54	2.9	54	92	0	247	38	16	22	23	1.93
8377378--8377432	22	2.5	22	90	0	92	34	12	14	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8378107--8378904	76	10.5	76	97	0	1454	22	21	21	34	1.96
8379031--8379089	3	19.3	3	79	10	66	37	1	0	61	1.07
8379087--8379113	2	13.5	2	100	0	54	48	0	0	51	1.00
8381919--8381982	22	2.9	22	88	0	101	28	26	20	25	1.99
8385683--8385734	8	6.5	8	78	8	52	67	5	1	25	1.23
8385703--8385734	15	2.1	15	94	0	55	68	3	3	25	1.18
8389393--8389564	60	2.8	59	84	4	218	29	18	16	36	1.93
8389348--8389564	120	1.8	120	85	2	310	31	16	15	36	1.89
8392483--8392507	3	8.3	3	100	0	50	36	0	0	64	0.94
8392716--8392864	55	2.7	55	86	2	192	26	18	20	33	1.96
8392936--8393332	179	2.2	179	86	4	568	32	19	16	30	1.95
8392945--8393332	89	4.3	89	85	2	501	31	20	17	31	1.95
8408703--8408727	12	2.1	12	100	0	50	16	0	24	60	1.36
8413103--8413214	3	37.3	3	92	3	190	33	0	1	64	1.10
8413361--8413459	40	2.4	43	88	5	141	57	0	17	25	1.40
8414411--8414443	16	2.0	17	94	5	59	0	30	0	69	0.88
8417855--8417889	2	17.5	2	100	0	70	51	0	0	48	1.00
8418046--8418076	13	2.4	13	88	0	53	38	9	22	29	1.86
8419615--8419869	43	6.0	42	78	5	239	32	19	22	25	1.97
8423339--8423409	3	23.7	3	100	0	142	33	0	0	66	0.92
8440094--8440154	29	2.1	29	84	6	79	73	0	21	4	1.01
8440111--8440201	25	3.9	22	73	20	69	71	1	25	2	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8440113--8440154	6	7.0	6	78	10	50	78	0	19	2	0.86
8440096--8440165	18	4.1	17	76	10	63	74	0	21	4	0.99
8440113--8440177	24	2.8	23	76	19	64	75	1	21	1	0.97
8440111--8440166	23	2.5	22	77	11	60	75	0	23	1	0.90
8442221--8442604	54	7.1	53	83	4	430	29	8	20	41	1.82
8442221--8442604	162	2.4	162	85	3	497	29	8	20	41	1.82
8442221--8442604	108	3.6	108	87	2	495	29	8	20	41	1.82
8442862--8443051	95	2.0	94	98	1	371	36	12	18	32	1.89
8443421--8443457	18	2.1	18	94	0	65	32	21	18	27	1.97
8445817--8445988	20	7.7	20	72	21	128	41	12	25	20	1.87
8445805--8446046	46	5.3	46	95	0	412	44	11	22	21	1.84
8446905--8446975	35	2.1	34	86	7	99	73	12	2	11	1.21
8446915--8446983	35	2.0	35	85	5	95	72	13	2	11	1.23
8453164--8453198	18	1.9	18	88	0	52	28	17	0	54	1.43
8454488--8454541	7	7.3	7	88	12	81	25	25	33	14	1.95
8454487--8454541	15	3.7	15	95	0	101	25	25	34	14	1.94
8454487--8454544	8	7.6	8	84	11	86	24	25	34	15	1.95
8454478--8454541	30	2.1	31	94	5	112	25	25	34	15	1.95
8458152--8458186	18	1.9	18	88	0	52	28	17	0	54	1.43
8459473--8459526	7	7.3	7	88	12	81	25	25	33	14	1.95
8459472--8459526	15	3.7	15	95	0	101	25	25	34	14	1.94
8459472--8459529	8	7.6	8	84	11	86	24	25	34	15	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8459463--8459526	30	2.1	31	94	5	112	25	25	34	15	1.95
8462841--8462870	1	30.0	1	100	0	60	0	0	0	100	0.00
8467670--8467695	7	3.7	7	100	0	52	23	0	15	61	1.33
8468293--8468320	2	14.0	2	100	0	56	50	0	0	50	1.00
8475096--8475131	16	2.2	16	90	0	54	50	0	0	50	1.00
8490445--8490529	28	3.0	28	96	0	152	24	14	11	49	1.76
8491306--8491347	10	4.2	10	87	0	66	33	28	0	38	1.58
8491312--8491361	20	2.5	19	84	12	57	30	26	4	40	1.74
8499150--8499659	201	2.5	200	83	5	613	32	13	20	33	1.92
8503046--8503102	29	1.9	30	89	3	89	17	0	35	47	1.48

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