genome.fa.s9175.2.7.7.80.10.50.1000.18.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  18  of  51  ( 6037 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)
3481745--3481787	18	2.4	17	77	11	50	51	0	34	13	1.42
3484007--3484065	28	2.2	27	82	14	70	57	1	27	13	1.46
3489688--3489729	20	2.1	20	86	0	57	35	11	19	33	1.88
3501193--3501231	20	2.0	20	89	0	60	23	25	10	41	1.86
3505244--3505329	31	2.8	31	78	0	100	54	9	6	29	1.58
3521746--3521778	2	17.0	2	93	6	59	48	0	0	51	1.00
3522053--3522091	19	2.1	19	100	0	78	35	10	20	33	1.86
3522410--3522463	20	2.6	22	72	19	62	33	14	25	25	1.95
3525519--3525617	47	2.1	48	86	1	137	28	11	19	41	1.85
3525506--3525607	24	4.3	24	81	5	100	28	11	18	41	1.86
3526934--3526967	3	11.3	3	100	0	68	32	0	0	67	0.91
3527739--3527787	22	2.2	22	85	7	64	30	22	24	22	1.99
3531056--3531140	24	3.3	24	76	12	73	45	3	0	50	1.18
3531071--3531147	27	3.0	24	78	15	84	46	1	0	51	1.09
3531176--3531216	22	1.9	21	85	14	57	58	0	2	39	1.11
3531209--3531314	31	3.4	30	78	12	115	60	0	3	35	1.15
3534386--3534782	204	1.9	204	89	1	607	35	20	21	23	1.96
3535784--3535835	11	4.8	11	72	13	54	34	1	0	63	1.06
3535791--3535843	15	3.4	15	80	16	63	32	1	0	66	1.03
3537220--3537271	24	2.2	24	86	6	70	76	7	13	1	1.07
3537217--3537275	11	5.4	11	74	13	50	72	10	15	1	1.18
3537226--3537271	11	3.6	13	80	14	51	73	8	15	2	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3538454--3538500	15	3.1	15	84	0	67	19	0	4	76	0.95
3538459--3538497	5	7.8	5	88	0	60	17	0	2	79	0.84
3547663--3547691	13	2.2	13	100	0	58	55	0	0	44	0.99
3549518--3549624	48	2.2	48	94	0	187	35	19	16	28	1.94
3559407--3559635	107	2.1	107	89	3	354	22	17	20	39	1.92
3562191--3562240	19	2.6	19	93	0	82	30	16	32	22	1.95
3563576--3563683	23	4.7	23	79	2	117	28	24	24	23	1.99
3563581--3563698	47	2.5	47	93	1	193	29	22	22	24	1.99
3563707--3563924	103	2.1	103	97	0	409	36	23	13	25	1.92
3569393--3569517	23	5.3	23	81	2	142	32	22	20	24	1.98
3569393--3569517	47	2.7	47	93	1	207	32	22	20	24	1.98
3569527--3569741	103	2.1	103	95	0	385	36	23	13	26	1.91
3577365--3577412	19	2.5	19	93	0	78	33	18	29	18	1.95
3578045--3578121	38	2.0	38	89	0	118	22	18	29	29	1.97
3578048--3578120	18	3.9	18	78	7	83	20	17	31	30	1.96
3591581--3591637	30	1.9	30	82	7	71	45	3	3	47	1.37
3593933--3594030	20	4.8	20	81	7	90	32	24	19	23	1.97
3598965--3599015	19	2.7	19	100	0	102	21	27	31	19	1.97
3599850--3600325	140	3.4	136	78	7	455	28	12	13	46	1.79
3607513--3607576	8	7.6	8	72	20	51	79	1	14	4	0.96
3607511--3607586	24	3.0	24	76	21	68	77	1	14	6	1.03
3607514--3607580	33	2.1	33	81	10	86	79	1	13	5	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3609454--3609515	20	3.1	20	82	17	60	35	1	1	61	1.16
3610953--3611290	133	2.5	134	79	2	367	29	19	21	29	1.97
3615248--3615286	20	2.0	20	89	0	60	33	10	23	33	1.88
3616121--3616159	21	1.9	20	84	5	51	10	0	20	69	1.17
3622370--3622540	31	5.5	31	93	4	274	39	21	18	21	1.92
3623743--3623767	3	8.3	3	100	0	50	68	32	0	0	0.90
3629296--3629336	19	2.2	19	86	0	55	24	24	34	17	1.96
3636482--3637152	182	3.7	182	91	0	1042	40	14	16	28	1.87
3636486--3637152	363	1.8	362	90	1	1068	40	14	16	28	1.87
3639492--3639535	21	2.1	21	100	0	88	38	13	34	13	1.84
3642365--3643060	200	3.5	198	83	6	851	39	14	15	30	1.88
3643730--3643776	22	2.2	22	84	3	60	46	2	8	42	1.46
3645051--3645264	105	2.0	107	90	8	339	37	15	7	38	1.77
3647731--3647803	36	2.0	36	97	0	137	26	15	24	34	1.94
3653872--3653913	19	2.4	19	84	11	54	21	26	11	40	1.88
3654280--3654428	77	1.9	77	86	5	212	40	9	16	33	1.81
3655272--3655436	75	2.2	75	81	9	185	35	15	12	37	1.84
3658119--3658172	21	2.6	21	93	0	90	14	24	18	42	1.88
3658190--3658277	20	4.3	20	80	7	97	39	25	15	19	1.91
3658244--3658334	19	4.7	19	95	2	155	36	23	12	28	1.90
3659081--3659114	12	2.8	12	90	0	50	55	29	0	14	1.40
3659235--3659281	24	2.0	24	95	0	85	27	21	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3659468--3659498	3	10.3	3	100	0	62	64	0	35	0	0.94
3661560--3661595	18	2.0	18	94	0	63	55	25	2	16	1.55
3661881--3661930	20	2.5	20	90	0	82	40	26	22	12	1.88
3661939--3661995	20	2.8	20	94	0	96	21	21	21	36	1.95
3662360--3662446	39	2.2	39	97	0	165	47	20	14	17	1.83
3662620--3662662	20	2.2	20	95	0	77	44	25	16	13	1.85
3666595--3666626	13	2.5	13	100	0	64	78	15	6	0	0.95
3666599--3666632	13	2.8	12	91	8	52	76	14	8	0	1.01
3667104--3667157	20	2.7	20	75	11	65	27	14	29	27	1.95
3670910--3670946	2	18.5	2	94	0	65	51	0	2	45	1.15
3670936--3671119	35	5.3	35	75	17	152	47	0	6	45	1.33
3670979--3671169	36	5.4	35	73	20	130	48	1	5	45	1.33
3672223--3672267	3	15.3	3	95	4	83	68	0	0	31	0.89
3673557--3673583	3	9.0	3	100	0	54	66	0	0	33	0.92
3673607--3673647	2	20.5	2	100	0	82	51	0	0	48	1.00
3673672--3673926	101	2.4	104	77	13	265	42	5	3	49	1.40
3673803--3673865	28	2.1	29	88	8	92	42	6	3	47	1.44
3673809--3673957	80	1.9	80	81	5	185	43	6	2	46	1.44
3673832--3673952	41	3.1	39	79	9	113	44	6	1	47	1.39
3676507--3676541	17	2.0	18	88	5	54	37	2	0	60	1.12
3679084--3679191	37	2.9	37	94	0	189	41	14	11	32	1.81
3679757--3679840	19	4.4	18	72	15	62	28	1	4	65	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3679737--3679873	42	3.2	42	79	13	129	27	1	3	67	1.16
3679780--3679877	39	2.6	37	81	12	101	28	2	2	67	1.13
3679821--3679871	24	2.1	24	82	13	61	25	1	0	72	0.95
3679784--3679922	33	4.3	32	75	13	94	24	3	0	71	1.07
3679784--3679907	34	3.5	35	77	14	105	25	4	0	70	1.10
3679821--3679923	34	3.0	33	72	20	88	22	3	0	73	0.99
3679892--3679934	20	2.2	20	83	8	52	23	4	0	72	1.04
3679898--3679969	32	2.2	32	80	4	74	19	11	1	68	1.28
3683066--3683096	10	3.0	10	95	4	53	77	3	19	0	0.90
3684962--3685024	19	3.3	19	95	0	117	15	25	38	20	1.92
3688369--3688463	32	2.9	32	84	4	129	28	10	23	37	1.88
3689682--3689790	37	3.0	37	89	2	175	25	22	12	38	1.90
3689677--3689921	36	6.9	36	76	11	220	25	20	12	41	1.88
3689984--3690239	83	3.1	84	83	4	286	33	22	18	24	1.97
3690732--3690843	37	3.0	37	97	0	206	40	14	15	30	1.86
3691406--3691499	33	2.9	31	76	13	84	28	2	3	65	1.19
3691385--3691488	37	2.6	39	78	14	115	28	1	3	65	1.21
3691454--3691537	31	2.7	32	80	12	95	22	4	0	72	1.03
3691457--3691545	24	3.7	23	70	19	65	22	4	0	73	1.02
3691480--3691579	32	3.2	31	79	14	107	19	7	1	73	1.12
3692573--3692647	20	3.7	20	92	1	123	37	5	29	28	1.79
3693505--3693545	13	3.1	13	89	3	55	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3693573--3693618	24	2.0	23	87	12	67	41	0	2	56	1.11
3694798--3695120	161	2.0	161	98	0	628	32	21	21	24	1.98
3695276--3695321	24	1.9	24	90	0	74	23	2	4	69	1.17
3695649--3695687	11	3.5	11	85	0	60	41	23	5	30	1.76
3697502--3697582	7	11.7	7	79	17	64	22	0	25	51	1.48
3697494--3697581	28	3.1	29	79	9	85	21	0	27	51	1.48
3698868--3699078	57	3.7	56	87	3	280	49	9	7	33	1.63
3699939--3699970	3	10.7	3	100	0	64	31	0	0	68	0.90
3703547--3703591	15	2.9	16	78	21	51	48	0	4	46	1.22
3704111--3704146	18	1.9	19	88	5	56	38	2	0	58	1.13

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