genome.fa.s7819.2.7.7.80.10.50.1000.15.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: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3855360

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  15  of  17  ( 2007 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)
3199722--3199749	5	5.6	5	100	0	56	0	21	57	21	1.41
3210546--3210582	14	2.6	14	91	0	65	18	13	29	37	1.90
3212748--3212774	11	2.5	11	100	0	54	59	0	0	40	0.98
3219236--3219311	35	2.1	37	87	9	111	39	17	6	36	1.75
3230430--3230499	34	2.1	32	84	5	86	32	15	28	22	1.95
3233177--3233236	29	2.0	31	90	6	97	35	6	16	41	1.75
3233306--3233347	19	2.2	19	95	0	75	40	9	11	38	1.75
3233453--3233494	21	2.0	21	90	0	66	26	21	26	26	1.99
3233523--3233562	21	1.9	21	85	10	55	40	32	10	17	1.83
3233777--3233846	34	2.1	32	84	5	86	32	15	28	22	1.95
3235644--3235715	2	36.0	2	97	0	135	48	0	1	50	1.09
3249373--3249425	2	26.5	2	100	0	106	50	0	0	49	1.00
3249603--3249649	2	23.5	2	100	0	94	51	0	0	48	1.00
3256649--3256799	78	2.0	74	89	5	230	32	7	9	49	1.65
3279664--3279783	42	2.9	42	98	0	231	15	20	19	44	1.87
3279961--3280021	22	2.8	23	82	7	65	47	0	0	52	1.00
3279972--3280120	31	5.1	31	71	25	96	45	0	1	52	1.14
3280049--3280095	24	2.0	23	83	4	58	40	0	2	57	1.11
3280037--3280139	29	3.5	29	76	17	95	43	0	1	53	1.18
3280074--3280137	28	2.2	28	86	8	85	43	1	1	53	1.19
3280304--3280385	15	5.5	15	88	2	121	37	7	19	35	1.80
3280304--3280385	30	2.8	30	94	1	139	37	7	19	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3280299--3280385	45	2.0	44	93	2	147	40	6	19	33	1.78
3280368--3280417	20	2.5	20	100	0	100	40	10	16	34	1.81
3280583--3280685	28	3.5	28	78	20	97	52	1	0	44	1.18
3280627--3280671	23	2.0	22	82	4	54	55	2	0	42	1.12
3280625--3280734	52	2.1	52	80	12	129	51	0	0	46	1.13
3280636--3280733	28	3.6	27	71	16	87	48	1	1	48	1.14
3280699--3280742	22	2.0	23	86	4	63	54	0	0	45	0.99
3280703--3280759	21	2.6	22	81	10	64	52	0	0	47	1.00
3280640--3280759	54	2.3	50	76	20	122	50	0	0	48	1.12
3280948--3281067	42	2.9	42	94	0	204	43	17	21	17	1.88
3281211--3281262	15	3.5	15	80	15	72	32	17	7	42	1.77
3281159--3281228	20	3.5	20	96	0	131	35	14	10	40	1.79
3281227--3281271	15	3.0	15	78	12	56	35	17	6	40	1.76
3281211--3281271	29	2.1	30	93	3	106	32	18	8	40	1.80
3281771--3281840	31	2.3	31	97	0	131	35	20	10	34	1.86
3286704--3286737	4	8.5	4	100	0	68	50	0	0	50	1.00
3286761--3286787	2	13.5	2	100	0	54	48	0	0	51	1.00
3291325--3291351	2	13.5	2	100	0	54	48	0	0	51	1.00
3293214--3293247	18	1.9	17	88	5	50	14	23	32	29	1.94
3293229--3293284	24	2.3	24	96	0	103	21	25	25	28	1.99
3304530--3304590	16	3.8	16	91	0	104	55	21	13	9	1.66
3305688--3305714	14	1.9	14	100	0	54	51	14	14	18	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3305665--3305715	24	2.1	24	89	7	77	54	15	11	17	1.70
3309238--3309262	13	1.9	13	100	0	50	44	0	0	56	0.99
3312351--3312396	20	2.3	20	92	0	74	54	4	0	41	1.20
3315623--3315661	2	19.5	2	100	0	78	51	0	0	48	1.00
3316359--3316402	22	2.0	22	100	0	88	13	27	31	27	1.94
3317411--3317447	16	2.3	16	100	0	74	21	0	18	59	1.38
3337662--3337774	60	1.9	60	85	7	158	37	13	14	35	1.85
3338896--3338943	2	24.0	2	100	0	96	50	0	0	50	1.00
3339615--3339651	18	2.2	17	90	9	58	32	0	10	56	1.34
3340190--3340338	41	3.7	41	80	4	144	30	19	19	30	1.96
3340190--3340339	20	7.4	20	81	5	135	31	19	19	30	1.96
3340254--3340328	21	3.7	21	85	5	93	22	21	18	37	1.94
3340191--3340338	60	2.4	61	80	7	167	30	19	19	30	1.97
3341178--3341231	24	2.2	24	93	0	90	20	18	20	40	1.91
3343755--3343904	19	8.7	18	70	21	108	45	19	24	11	1.83
3343773--3343827	14	3.6	14	73	21	56	45	20	23	10	1.82
3343755--3343881	33	3.8	33	95	0	218	44	18	24	11	1.83
3343900--3343974	19	4.2	19	70	19	63	14	21	21	42	1.88
3343910--3343975	19	3.7	19	75	19	79	12	22	19	45	1.83
3344082--3344120	14	2.8	13	88	11	60	46	17	0	35	1.49
3345453--3345519	21	3.2	21	72	4	64	17	20	37	23	1.94
3345492--3345575	42	2.0	42	83	0	105	22	15	39	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3345990--3346083	33	2.8	33	86	0	134	43	19	24	12	1.85
3346083--3346126	19	2.3	19	92	0	70	11	18	27	43	1.84
3346093--3346154	19	3.2	19	90	4	97	8	22	19	50	1.74
3346245--3346713	94	5.1	94	93	2	754	46	18	12	22	1.82
3348307--3348419	19	5.8	19	86	4	163	47	18	21	12	1.81
3348431--3348512	33	2.4	33	83	4	92	13	21	18	46	1.83
3348505--3348555	20	2.5	20	90	0	75	13	13	21	50	1.76
3349088--3349224	20	6.7	21	77	3	100	32	18	22	26	1.97
3349182--3349224	21	2.0	21	86	4	59	37	16	25	20	1.93
3358199--3358233	2	17.5	2	93	0	61	48	0	2	48	1.16
3359046--3359096	22	2.3	23	86	3	77	37	1	0	60	1.08
3361117--3361188	31	2.4	30	81	4	83	27	31	8	31	1.86
3361524--3361556	16	1.9	18	88	11	52	27	3	6	63	1.32
3362021--3362255	125	1.9	124	88	3	355	35	13	14	36	1.85
3362644--3362725	35	2.3	35	87	4	112	39	1	18	41	1.58
3366736--3366769	15	2.2	16	94	5	61	41	2	0	55	1.15
3372362--3372406	23	2.0	23	82	8	56	22	6	26	44	1.77
3373058--3373100	20	2.2	20	95	4	79	37	18	0	44	1.50
3375092--3375272	60	3.0	58	80	10	172	37	8	22	32	1.85
3376673--3376761	20	4.4	20	86	0	133	39	16	15	28	1.90
3376721--3376881	77	2.1	77	90	2	252	36	16	16	30	1.91
3376895--3376962	21	3.2	20	79	6	64	26	14	27	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3376895--3376986	40	2.2	40	84	5	112	25	14	28	32	1.94
3379289--3379444	21	7.7	20	71	7	73	37	24	17	19	1.93
3379412--3379605	20	9.6	20	76	8	76	35	25	19	19	1.95
3379412--3379605	40	4.8	39	82	3	199	35	25	19	19	1.95
3379412--3379604	60	3.2	60	83	0	251	35	25	19	19	1.95
3379986--3380056	33	2.2	33	92	0	115	12	22	16	47	1.80
3380177--3380231	14	3.6	14	73	21	56	41	23	25	9	1.83
3380177--3380247	33	2.2	33	94	0	124	43	25	22	8	1.81
3380243--3380340	19	5.7	19	70	22	81	10	24	22	42	1.84
3380265--3380354	14	5.7	14	74	23	81	8	25	23	42	1.83
3380248--3380362	33	3.5	33	95	0	212	9	24	20	45	1.81
3382056--3382710	92	7.1	92	98	1	1267	21	12	18	46	1.83
3382756--3382882	19	7.2	19	74	17	121	46	28	17	7	1.76
3382790--3382882	33	2.8	32	91	4	150	46	27	18	7	1.76
3382755--3382882	52	2.5	51	75	13	136	46	28	17	8	1.77
3382878--3383012	19	7.6	19	75	16	128	11	19	23	45	1.82
3382900--3382956	14	3.7	14	77	20	60	10	21	22	45	1.82
3382883--3382975	33	2.8	33	95	0	168	10	20	21	47	1.80
3384909--3384944	14	2.6	14	95	0	63	33	0	22	44	1.53
3385051--3385133	19	4.6	19	80	17	113	43	18	24	14	1.87
3385162--3385416	19	14.4	19	80	16	316	14	21	18	46	1.83
3385140--3385349	52	3.9	52	91	6	348	15	21	17	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3385181--3385416	33	6.8	33	89	6	276	13	21	18	46	1.83
3387695--3387719	12	2.1	12	100	0	50	0	28	0	72	0.86
3387894--3387940	24	2.0	24	87	8	69	38	21	14	25	1.92
3388616--3388966	20	17.5	20	83	7	408	20	18	25	35	1.96
3389576--3389602	3	9.0	3	100	0	54	66	0	0	33	0.92
3390253--3390369	60	2.0	60	84	0	153	38	13	11	36	1.81
3398918--3399114	94	2.1	94	91	3	335	47	2	10	39	1.51
3404167--3404236	15	4.5	15	80	7	86	18	24	34	22	1.96
3404181--3404251	32	2.2	32	89	0	106	19	22	32	25	1.98
3404472--3404527	28	2.0	28	92	0	94	17	28	39	14	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17