genome.fa.s7859.2.7.7.80.10.50.1000.17.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2075 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)
3324717--3325521	130	6.1	131	79	3	740	30	15	20	32	1.94
3325450--3325562	41	2.8	41	83	2	156	24	19	21	34	1.96
3325317--3325656	174	2.0	171	85	4	468	28	16	20	34	1.94
3327449--3327473	11	2.3	11	100	0	50	0	8	0	92	0.40
3329044--3329082	11	3.5	11	78	0	51	76	10	0	12	1.01
3330161--3330200	17	2.4	17	86	0	53	50	2	0	47	1.14
3332136--3332173	19	2.0	19	94	0	67	13	10	5	71	1.30
3332330--3332373	17	2.6	17	81	0	52	59	11	2	27	1.44
3332352--3332431	30	2.7	30	94	0	133	48	16	8	26	1.75
3332310--3332406	47	2.1	46	82	1	113	56	13	4	25	1.55
3332419--3332473	23	2.4	23	90	0	83	45	18	7	29	1.76
3332433--3332480	23	2.1	23	84	0	60	50	22	4	22	1.67
3341106--3341157	25	2.1	25	96	0	95	40	21	13	25	1.89
3349810--3349863	13	4.3	13	76	4	58	46	0	0	53	1.00
3349838--3349949	53	2.1	52	81	15	124	50	2	0	46	1.21
3349840--3349948	55	2.1	52	80	14	120	49	2	0	46	1.22
3350049--3350103	23	2.4	21	77	16	56	52	3	0	43	1.18
3350065--3350111	21	2.1	23	84	7	62	48	0	0	51	1.00
3350252--3350305	22	2.5	20	80	16	63	46	0	1	51	1.11
3351254--3351312	21	2.8	21	75	10	57	49	20	0	30	1.49
3358493--3358555	2	31.0	2	96	3	117	49	1	0	49	1.10
3359547--3359615	23	3.0	23	80	0	75	30	23	24	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3359555--3359619	23	2.8	23	80	0	76	30	23	24	21	1.99
3363323--3363360	19	2.0	19	94	0	67	23	57	7	10	1.58
3364172--3364212	17	2.4	17	100	0	82	39	4	21	34	1.75
3364250--3364318	23	3.0	23	84	0	93	27	26	27	18	1.98
3365918--3365957	21	1.9	21	84	0	53	15	20	32	32	1.93
3377938--3377995	2	29.0	2	100	0	116	50	0	0	50	1.00
3393580--3393625	20	2.2	21	88	3	67	54	0	0	45	0.99
3393580--3393625	21	2.2	20	85	11	58	54	0	0	45	0.99
3395006--3395148	36	3.8	38	87	8	193	44	2	8	44	1.48
3395006--3395281	38	7.8	36	73	17	181	43	3	7	46	1.47
3394987--3395281	36	8.2	38	72	17	186	42	3	7	47	1.46
3395337--3395364	5	5.6	5	100	0	56	39	0	0	60	0.97
3396697--3396725	11	2.6	11	100	0	58	17	0	0	82	0.66
3396677--3396734	11	5.3	11	81	6	55	18	5	1	74	1.10
3398574--3398619	19	2.4	19	96	0	83	10	13	10	65	1.48
3401685--3402646	165	5.9	165	83	6	1104	30	24	21	24	1.99
3402124--3402408	149	1.9	149	88	0	435	29	24	22	23	1.99
3402277--3402576	84	3.6	84	85	1	386	30	24	20	25	1.99
3402047--3402488	233	1.9	230	88	3	672	28	25	22	23	1.99
3403170--3403311	36	3.8	38	87	9	193	44	2	8	44	1.49
3403170--3403444	36	7.8	36	73	18	181	43	3	7	46	1.47
3403169--3403444	38	7.8	36	74	16	188	43	3	7	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3404853--3404881	11	2.6	11	100	0	58	17	0	0	82	0.66
3404833--3404890	11	5.3	11	81	6	55	18	5	1	74	1.10
3406427--3406545	38	3.1	38	77	11	143	49	5	5	39	1.49
3406532--3406625	40	2.5	39	83	11	108	39	3	8	48	1.50
3406532--3406610	39	2.1	38	88	7	115	36	2	7	53	1.43
3406532--3406643	34	3.1	35	82	12	120	38	3	8	50	1.49
3406689--3406737	16	3.1	16	82	11	57	30	0	2	67	1.02
3409114--3409164	19	2.6	19	87	3	66	39	25	13	21	1.90
3409074--3409164	40	2.3	39	83	5	103	36	26	10	26	1.90
3409074--3409164	20	4.6	19	75	6	83	36	26	10	26	1.90
3409909--3409942	12	2.8	12	90	0	50	55	29	0	14	1.40
3410068--3410121	24	2.2	24	90	0	81	22	18	18	40	1.91
3410671--3410736	22	3.0	22	93	0	105	24	13	39	22	1.90
3410871--3410970	20	5.0	20	78	9	114	19	18	24	39	1.92
3415359--3415402	21	2.1	21	86	0	61	29	6	27	36	1.83
3417219--3417284	29	2.3	29	100	0	132	31	12	24	31	1.92
3417858--3417900	18	2.4	18	88	7	61	48	0	0	51	1.00
3417857--3417902	19	2.3	20	75	21	51	45	0	0	54	0.99
3418123--3418166	23	1.9	23	85	0	61	47	2	0	50	1.13
3421946--3421978	16	2.1	16	94	0	57	24	18	9	48	1.76
3429139--3429221	14	5.8	15	75	16	79	80	0	18	1	0.77
3429159--3429218	6	10.7	6	82	13	58	85	0	15	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3429574--3429622	19	2.8	17	81	9	55	36	10	6	46	1.63
3429952--3430404	114	4.0	114	94	0	780	33	15	20	30	1.94
3431117--3432023	110	7.9	112	78	10	944	37	14	20	28	1.91
3431393--3431437	24	1.9	23	86	4	63	51	8	24	15	1.72
3431135--3432023	234	3.8	234	94	2	1498	37	14	20	28	1.91
3431588--3432089	223	2.3	223	87	1	706	39	13	19	27	1.90
3433704--3433732	14	2.0	15	93	6	51	34	0	3	62	1.12
3433710--3433755	14	3.5	13	77	22	51	34	0	0	65	0.93
3433740--3433803	22	2.8	22	70	13	58	46	0	0	53	1.00
3433879--3434071	102	1.9	102	83	4	244	41	8	6	43	1.60
3434011--3434054	23	1.9	23	85	0	61	47	0	0	52	1.00
3434038--3434072	2	17.5	2	93	0	61	51	0	0	48	1.00
3435241--3435291	18	2.9	18	72	19	54	64	1	0	33	1.05
3436181--3436221	13	2.8	15	78	17	50	43	0	0	56	0.99
3436166--3436237	29	2.6	28	81	14	80	47	0	0	52	1.00
3436262--3436337	8	9.8	8	69	21	54	52	1	0	46	1.08
3436387--3436441	14	4.1	14	77	13	71	38	0	0	61	0.96
3436406--3436440	17	2.1	17	88	0	52	34	0	0	65	0.93
3436393--3436441	25	2.0	25	88	8	73	36	0	0	63	0.95
3436389--3436525	42	3.5	39	77	13	122	43	0	2	54	1.18
3436447--3436535	42	2.1	43	81	6	101	49	1	1	48	1.16
3443704--3443753	21	2.4	21	83	3	57	46	8	2	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3446482--3446546	35	1.9	33	84	12	87	32	10	26	30	1.90
3448272--3448319	23	2.1	23	92	0	78	27	43	14	14	1.84
3449193--3449240	25	1.9	25	83	8	62	12	4	6	77	1.11
3449434--3449514	3	27.3	3	97	2	155	32	0	0	67	0.91
3449810--3449847	16	2.3	17	81	4	51	26	5	7	60	1.46
3450712--3450749	16	2.3	16	83	16	51	7	10	2	78	1.04
3452414--3452695	150	1.9	150	82	4	354	33	16	28	21	1.95
3453640--3453841	99	2.0	99	85	1	271	34	15	16	33	1.91
3455152--3455844	85	8.1	85	86	1	895	35	20	17	25	1.95
3457682--3457725	3	14.7	3	95	0	79	34	0	0	65	0.93
3457847--3457894	24	2.0	24	92	4	80	20	10	0	68	1.18
3458077--3458101	12	2.1	12	100	0	50	40	8	0	52	1.31
3466627--3466681	27	2.0	28	93	6	96	43	1	0	54	1.10
3466835--3466872	17	2.1	19	80	14	53	63	2	0	34	1.09
3471169--3471214	19	2.4	19	100	0	92	36	21	4	36	1.74
3472277--3472378	35	2.9	35	86	0	141	22	21	20	35	1.96
3474012--3474048	19	1.9	19	94	0	65	35	13	13	37	1.84
3475944--3475980	19	1.9	19	94	0	65	35	13	13	37	1.84
3477879--3477915	19	1.9	19	94	0	65	35	13	13	37	1.84
3478589--3478652	22	3.0	21	84	4	83	31	21	23	23	1.99
3481138--3481174	19	1.9	19	94	0	65	29	18	18	32	1.96
3481205--3481264	30	2.0	30	93	0	102	20	35	3	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481203--3481260	15	3.9	15	74	0	53	18	34	1	44	1.60
3482057--3482115	27	2.2	27	78	6	66	61	15	8	15	1.56
3492201--3492238	2	20.0	2	89	10	62	47	0	0	52	1.00
3494155--3494212	29	2.0	29	86	3	80	18	20	13	46	1.83
3494196--3494514	43	7.4	43	75	10	199	26	15	7	51	1.69
3494329--3494605	44	6.4	43	77	8	242	25	17	9	47	1.77
3494274--3494573	44	7.0	42	77	9	230	25	17	8	49	1.74
3494271--3494605	131	2.6	128	82	6	354	25	17	8	48	1.75
3494289--3494578	87	3.4	87	79	8	288	25	17	8	48	1.75
3499491--3499526	11	3.4	11	96	3	65	8	19	8	63	1.47

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18