genome.fa.s9604.2.7.7.80.10.50.1000.16.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

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

This is table  16  of  17  ( 1985 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)
3243973--3244229	10	26.2	10	85	3	272	0	59	0	40	0.97
3250994--3251031	10	3.9	10	89	3	51	36	34	2	26	1.71
3255431--3255459	5	6.0	5	92	8	51	0	17	0	82	0.66
3262453--3262498	24	1.9	25	82	8	60	21	15	6	56	1.61
3274443--3274506	21	3.1	21	79	2	58	26	21	18	32	1.97
3274480--3274563	20	4.2	20	83	3	107	41	23	13	21	1.88
3274696--3274737	22	1.9	22	90	0	66	28	40	7	23	1.81
3274955--3274986	13	2.5	13	94	0	55	3	3	15	78	1.01
3275055--3275095	20	2.0	20	85	0	55	14	19	21	43	1.87
3277243--3277340	42	2.3	42	79	10	110	25	31	18	24	1.97
3278670--3278809	65	2.2	65	83	7	173	31	1	16	50	1.54
3282248--3282298	19	2.7	19	87	6	59	31	9	21	37	1.86
3282286--3282355	20	3.5	20	82	7	88	22	17	22	37	1.94
3282286--3282365	40	2.0	40	85	0	106	22	20	21	36	1.95
3282289--3282377	40	2.2	40	79	0	97	24	20	21	33	1.97
3282401--3282453	19	2.7	21	80	11	67	24	16	28	30	1.97
3286472--3286527	24	2.2	25	84	9	69	66	1	5	26	1.23
3289311--3289471	44	3.6	44	90	2	225	34	22	6	36	1.79
3289546--3289964	59	7.1	59	74	11	322	30	21	10	37	1.87
3289615--3289934	116	2.7	118	80	8	339	29	20	10	38	1.87
3289946--3289992	21	2.2	21	96	0	85	40	21	12	25	1.89
3289887--3290044	80	2.0	80	93	0	271	32	22	11	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3289967--3290250	59	4.8	59	92	1	462	31	22	10	35	1.89
3289831--3290110	139	2.0	139	92	0	461	30	22	12	35	1.90
3289774--3290169	198	2.0	198	90	4	622	31	21	11	35	1.90
3294846--3294885	21	1.9	21	100	0	80	25	27	22	25	2.00
3295284--3295452	44	3.8	44	88	6	234	32	21	7	37	1.82
3295284--3295452	89	1.9	89	85	7	236	32	21	7	37	1.82
3295539--3296226	59	11.8	59	80	7	636	30	22	10	37	1.87
3295548--3296218	177	3.8	175	83	6	715	29	22	10	37	1.87
3297570--3297917	172	2.0	174	98	1	682	39	17	10	32	1.84
3304459--3304494	13	2.6	14	91	8	56	33	5	38	22	1.77
3311420--3311468	16	3.1	16	100	0	98	42	0	20	36	1.52
3311831--3311929	46	2.1	47	85	9	141	26	30	20	23	1.98
3311898--3311949	19	2.7	19	96	0	95	21	28	21	28	1.98
3315497--3315525	6	4.8	6	100	0	58	0	48	0	51	1.00
3316170--3316222	20	2.7	20	84	0	70	32	20	16	30	1.95
3336802--3336874	20	3.7	20	94	1	121	30	17	21	30	1.97
3337484--3338539	523	2.0	522	92	3	1760	34	12	18	35	1.88
3343987--3344041	21	2.6	21	91	0	92	34	16	25	23	1.95
3344137--3344230	40	2.3	40	90	0	143	30	15	21	31	1.95
3344137--3344213	20	3.8	20	94	0	136	31	16	20	31	1.95
3344760--3344814	22	2.5	22	90	0	83	16	25	27	30	1.96
3345641--3346173	267	2.0	267	99	0	1048	40	15	9	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346141--3346273	64	2.1	64	81	5	153	35	20	16	27	1.94
3346168--3346316	64	2.3	61	81	7	172	33	18	16	31	1.93
3367465--3367531	33	2.0	33	91	0	107	35	26	7	29	1.84
3369685--3369731	4	11.8	4	95	0	85	51	21	0	27	1.48
3373299--3373347	16	3.3	15	88	8	73	77	0	6	16	0.96
3373301--3373343	8	5.5	8	91	5	70	79	0	6	13	0.93
3374994--3375027	17	2.0	17	88	11	52	32	2	11	52	1.53
3379148--3379224	35	2.2	35	86	2	102	50	15	3	29	1.62
3379319--3379362	20	2.2	20	88	4	63	36	25	0	38	1.56
3381051--3381143	20	4.8	20	72	13	61	43	16	12	27	1.84
3381090--3381143	19	2.8	20	86	8	67	40	18	12	27	1.87
3381137--3381178	20	2.2	20	91	4	68	35	14	14	35	1.86
3381177--3381330	19	7.8	20	75	11	104	39	20	11	27	1.88
3381180--3381347	20	8.5	20	78	6	137	39	20	13	26	1.89
3381752--3381833	10	9.0	9	81	7	51	37	0	2	59	1.11
3381785--3381844	2	31.0	2	91	6	97	51	0	0	48	1.00
3383308--3383351	19	2.4	19	84	3	54	25	4	2	68	1.20
3389356--3389413	30	1.9	30	82	6	73	48	3	3	44	1.36
3389421--3389451	16	1.9	16	93	0	53	51	3	3	41	1.34
3389447--3389495	2	24.0	2	95	4	89	48	0	2	48	1.12
3393234--3393258	3	8.3	3	100	0	50	68	32	0	0	0.90
3393421--3393450	13	2.2	14	94	5	53	20	26	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3399558--3399611	23	2.5	21	82	11	65	29	16	18	35	1.93
3400107--3400139	12	2.6	13	90	4	50	36	15	6	42	1.71
3401437--3401495	23	2.5	24	76	13	61	13	0	27	59	1.35
3401895--3401931	19	2.1	18	90	10	58	40	8	5	45	1.56
3402083--3402138	20	2.8	20	91	0	94	32	25	12	30	1.92
3409012--3409078	12	5.2	12	75	18	55	20	1	1	76	0.95
3410258--3410425	60	2.8	60	81	5	187	28	19	14	37	1.91
3435289--3435313	4	6.2	4	100	0	50	76	0	0	24	0.80
3436420--3436557	68	2.0	68	98	0	267	42	15	8	32	1.78
3437120--3437208	30	3.0	29	77	11	99	33	15	7	42	1.76
3448410--3448478	20	3.4	20	70	18	70	18	24	24	31	1.98
3448401--3448488	41	2.1	41	100	0	176	20	23	27	28	1.99
3448601--3448669	20	3.4	20	70	18	70	18	24	24	31	1.98
3448592--3448679	41	2.1	41	100	0	176	20	23	27	28	1.99
3448354--3448738	191	2.0	191	100	0	770	23	22	24	30	1.99
3449442--3449478	6	6.5	6	96	3	60	0	16	54	29	1.43
3449556--3449689	41	3.3	41	97	2	252	30	27	20	21	1.98
3449556--3449834	145	1.9	144	97	0	522	30	27	20	21	1.98
3449578--3449793	104	2.1	103	97	0	405	30	29	19	20	1.97
3449681--3449954	41	6.6	41	94	0	467	32	26	20	20	1.98
3451480--3451513	2	17.0	2	100	0	68	50	0	0	50	1.00
3451677--3451705	14	2.0	15	93	6	51	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3459955--3459991	19	1.9	19	100	0	74	48	29	5	16	1.68
3462470--3462513	21	2.1	21	87	8	63	59	15	4	20	1.54
3464426--3464476	3	17.0	3	91	0	84	35	0	1	62	1.06
3464598--3464698	30	3.4	30	91	0	157	16	40	22	19	1.91
3466093--3466129	19	1.9	19	88	0	56	32	0	2	64	1.07
3466779--3466819	20	2.0	21	85	4	57	24	9	0	65	1.22
3466831--3466857	2	13.5	2	100	0	54	48	0	0	51	1.00
3468895--3468935	7	5.9	7	83	11	57	14	17	9	58	1.62
3475338--3475493	54	2.9	54	91	0	240	39	14	21	23	1.91
3476261--3476300	21	1.9	22	90	10	66	15	10	37	37	1.80
3476329--3476370	21	2.0	21	100	0	84	23	28	23	23	2.00
3476478--3476524	20	2.3	20	100	0	94	34	0	6	59	1.23
3476524--3476583	29	2.0	31	87	6	88	43	15	6	35	1.72
3477280--3477339	29	2.0	31	87	6	88	43	15	6	35	1.72
3477481--3477535	22	2.5	22	90	0	92	36	10	12	40	1.79
3478249--3478729	45	10.3	45	77	11	452	23	20	20	34	1.96
3478625--3480793	211	10.6	196	81	10	2199	23	21	20	34	1.97
3478747--3478950	45	4.5	45	93	1	336	23	21	21	34	1.97
3478747--3479227	90	5.2	90	71	12	351	23	21	20	34	1.97
3479034--3479227	45	4.3	45	93	0	325	22	23	20	33	1.97
3479246--3479366	52	2.5	45	77	19	134	22	23	20	33	1.97
3479249--3479352	52	2.0	52	96	0	190	20	24	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3479301--3479508	76	2.7	76	96	0	380	25	20	20	34	1.97
3479124--3479671	122	4.4	129	77	10	461	22	22	20	34	1.97
3479450--3479598	45	3.3	45	93	0	244	24	22	19	33	1.97
3479540--3480332	76	10.9	76	71	14	483	23	20	20	35	1.96
3479301--3481085	319	5.5	316	73	16	1470	23	21	20	34	1.96
3479769--3479962	45	4.3	45	94	1	327	24	20	20	35	1.96
3479980--3480182	45	4.5	45	92	2	327	22	21	21	34	1.97
3479980--3480459	90	5.2	90	71	13	342	22	21	20	34	1.97
3480266--3480459	45	4.3	45	93	0	325	22	23	20	33	1.97
3480478--3480598	52	2.5	45	77	19	134	22	23	20	33	1.97

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