genome.fa.s9579.2.7.7.80.10.50.1000.19.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  19  of  29  ( 3390 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)
3527766--3527807	20	2.0	20	86	4	57	54	4	14	26	1.59
3537855--3537940	2	44.0	2	93	4	149	50	0	1	48	1.08
3540308--3540360	3	18.0	3	84	11	74	33	0	0	66	0.92
3540882--3540923	12	3.5	12	100	0	84	59	7	26	7	1.50
3542459--3542502	22	2.0	22	81	0	52	27	4	15	52	1.63
3544005--3544098	31	3.0	32	95	3	172	14	13	9	61	1.56
3546516--3546593	26	3.2	25	67	22	67	23	23	10	43	1.84
3546531--3546605	20	3.5	20	70	20	62	25	25	10	38	1.88
3547170--3547230	30	2.0	31	83	3	79	65	14	14	4	1.43
3547201--3547242	12	3.6	11	87	9	57	69	11	14	4	1.34
3548417--3548475	4	15.2	4	92	7	104	49	25	0	25	1.51
3548930--3549116	102	1.8	104	86	5	272	31	17	12	38	1.87
3549111--3549230	34	3.4	35	80	6	127	31	20	12	35	1.90
3549520--3549599	40	2.0	40	85	4	108	31	20	12	36	1.89
3549661--3549752	46	2.0	46	82	0	112	31	17	10	40	1.84
3549883--3549909	1	27.0	1	100	0	54	100	0	0	0	0.00
3550006--3550069	33	1.9	34	84	9	87	37	21	9	31	1.85
3550332--3550749	43	9.6	45	69	14	209	27	30	20	22	1.98
3550330--3550789	129	3.6	129	91	2	672	26	29	20	23	1.98
3551557--3551598	12	3.5	12	100	0	84	59	7	26	7	1.50
3551548--3551610	24	2.6	23	76	18	74	63	6	25	4	1.38
3552985--3553028	22	2.0	22	81	0	52	27	4	15	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559742--3559811	32	2.4	28	83	9	86	40	1	2	55	1.23
3560695--3560776	31	2.6	31	84	1	92	42	12	9	35	1.75
3561943--3562002	32	1.9	32	86	6	88	26	25	28	20	1.99
3562926--3563029	29	3.6	29	81	14	117	48	13	2	35	1.58
3570282--3570348	31	2.2	30	84	5	82	49	14	2	32	1.59
3570359--3570392	17	2.0	17	100	0	68	11	23	47	17	1.81
3580922--3580996	29	2.6	28	79	12	80	36	2	1	60	1.20
3582934--3582995	30	2.1	30	100	0	124	30	20	19	29	1.97
3594202--3594365	47	3.2	49	70	19	145	42	10	13	33	1.79
3595174--3595234	23	2.7	23	84	0	77	29	24	26	19	1.99
3595457--3595516	31	2.0	30	87	9	86	38	25	0	36	1.56
3598323--3598367	23	2.0	23	86	0	63	20	26	26	26	1.99
3604750--3604775	12	2.2	12	100	0	52	7	19	23	50	1.73
3605402--3605457	23	2.4	23	81	0	76	28	25	26	19	1.99
3605679--3605738	31	2.0	30	87	9	86	36	25	1	36	1.66
3606081--3606236	64	2.4	64	81	8	165	25	21	21	32	1.98
3613413--3613441	4	7.2	4	100	0	58	24	0	24	51	1.48
3616026--3616181	24	6.1	24	71	18	86	39	8	3	47	1.53
3616012--3616157	41	3.6	41	94	3	244	39	8	4	47	1.55
3616017--3616180	27	6.4	23	76	19	123	40	9	3	46	1.53
3616125--3616173	11	4.4	11	82	12	55	42	12	4	40	1.61
3616103--3616232	62	2.1	62	82	5	156	44	10	3	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3616509--3616582	10	7.8	10	72	22	52	44	13	1	40	1.52
3616615--3616686	24	3.1	25	77	18	75	48	9	0	41	1.36
3616602--3616663	14	4.8	13	75	20	60	50	9	0	40	1.35
3616637--3616683	21	2.2	22	88	11	71	53	8	0	38	1.32
3616484--3616722	59	4.1	60	88	4	303	47	8	0	43	1.37
3616719--3616745	14	1.9	14	100	0	54	44	7	3	44	1.49
3619660--3619719	26	2.3	26	80	5	68	45	1	8	45	1.43
3620045--3620071	14	1.9	14	100	0	54	74	14	3	7	1.18
3620100--3620135	10	3.5	10	92	3	54	0	25	2	72	0.98
3620465--3620515	21	2.2	23	76	20	61	50	15	0	33	1.44
3620931--3620998	29	2.4	28	94	0	109	23	27	35	13	1.92
3621810--3622141	160	2.0	170	91	8	560	45	6	9	38	1.62
3623222--3624175	318	3.0	318	99	0	1881	34	13	14	37	1.85
3628368--3628410	21	2.0	22	86	13	63	25	0	44	30	1.55
3628812--3628850	16	2.4	16	100	0	78	43	17	12	25	1.85
3629135--3629184	23	2.2	23	89	10	77	20	20	38	22	1.94
3634655--3634679	13	1.9	13	100	0	50	40	8	8	44	1.63
3638337--3638513	87	2.0	89	97	2	340	37	12	1	49	1.48
3645311--3645461	64	2.4	63	88	5	216	32	21	15	29	1.95
3645311--3645486	64	2.8	62	83	9	203	30	23	15	30	1.95
3645453--3645494	19	2.2	19	100	0	84	21	26	16	35	1.94
3645453--3645504	19	2.7	19	91	5	70	21	26	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3649689--3649730	17	2.5	17	96	0	75	40	14	30	14	1.85
3654039--3654382	169	2.0	169	99	0	679	43	21	14	21	1.88
3659498--3660097	299	2.0	301	98	0	1161	27	18	14	39	1.90
3675879--3675927	20	2.5	20	93	0	80	40	40	0	18	1.50
3678086--3678119	16	2.1	16	94	0	59	38	0	41	20	1.53
3679065--3679450	199	2.0	185	93	6	646	33	10	21	34	1.88
3682857--3682914	29	2.0	30	82	3	73	20	15	17	46	1.84
3688535--3688857	88	3.6	88	89	4	459	29	31	12	27	1.92
3689378--3689407	15	2.0	15	100	0	60	20	13	20	46	1.83
3690075--3690122	24	2.0	24	91	0	78	41	22	18	16	1.90
3690104--3690214	15	7.4	15	67	11	75	45	18	17	18	1.85
3690092--3690150	30	2.0	30	93	0	100	44	22	18	15	1.87
3690107--3690223	45	2.6	45	91	0	189	43	17	18	19	1.88
3692527--3692651	43	2.9	42	73	13	112	57	2	1	38	1.21
3693985--3694127	39	3.7	38	86	3	180	20	21	9	48	1.77
3694311--3694590	124	2.3	123	90	1	427	25	19	13	40	1.89
3694568--3695048	113	4.2	113	87	4	590	26	19	15	38	1.91
3695493--3695569	22	3.5	22	94	0	136	38	14	12	33	1.84
3700494--3700556	8	8.0	8	79	10	67	0	22	0	77	0.76
3700494--3700556	7	9.1	7	77	18	53	0	22	0	77	0.76
3700513--3700564	26	2.0	26	85	7	70	0	25	0	75	0.81
3700861--3700922	2	31.0	2	100	0	124	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3703026--3703054	12	2.3	13	94	5	51	55	6	13	24	1.63
3702998--3703053	27	2.0	28	82	3	69	60	7	12	19	1.55
3703113--3703185	7	10.3	7	91	2	119	57	12	16	13	1.65
3704677--3704711	16	2.1	17	89	10	54	82	0	2	14	0.77
3706823--3706879	3	20.0	3	79	16	59	64	1	1	31	1.13
3706823--3706874	19	2.7	19	84	0	68	65	1	0	32	1.04
3706801--3706880	22	3.6	21	78	9	70	61	1	1	36	1.12
3706823--3706886	22	2.9	21	81	9	74	65	3	1	29	1.17
3707237--3707294	13	4.5	13	80	0	71	29	8	13	48	1.73
3708648--3708697	26	1.9	26	91	0	82	30	32	6	32	1.82
3710709--3710805	20	4.8	20	80	9	108	50	19	19	10	1.76
3710770--3710812	19	2.3	19	91	0	68	51	23	16	9	1.73
3710817--3710871	20	2.8	19	91	5	92	10	21	16	50	1.75
3712121--3712167	18	2.6	18	100	0	94	31	48	6	12	1.66
3712635--3712842	94	2.2	93	94	1	371	20	11	19	48	1.79
3712933--3712987	20	2.8	19	91	5	92	50	16	21	10	1.75
3712992--3713029	20	1.9	20	100	0	76	50	28	15	5	1.66
3713035--3713161	19	6.8	19	73	12	111	13	20	18	47	1.82
3713064--3713144	39	2.1	39	90	0	126	13	20	17	48	1.81
3713620--3713680	21	3.0	20	71	7	59	24	37	18	19	1.94
3715034--3715067	14	2.4	14	95	0	59	35	0	20	44	1.52
3715177--3715280	19	5.7	19	83	13	114	46	24	19	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3715177--3715290	38	3.1	38	84	8	132	44	24	18	12	1.84
3715209--3715290	19	4.3	19	93	3	130	45	26	15	12	1.82
3715286--3715436	19	8.7	19	69	21	98	12	23	19	44	1.85
3715290--3715416	33	3.8	33	94	0	218	12	23	18	45	1.83
3715342--3715398	14	3.7	14	72	20	51	14	24	17	43	1.86
3717912--3717964	23	2.2	24	86	6	81	39	20	18	20	1.92
3718830--3719097	20	13.1	20	73	15	131	32	17	22	28	1.96
3718838--3718982	41	3.5	41	92	3	222	36	16	22	24	1.94
3718833--3719097	61	4.4	59	75	11	187	32	17	21	28	1.96
3718830--3719069	41	5.9	41	83	5	143	32	17	21	29	1.96

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