genome.fa.s8128.2.7.7.80.10.50.1000.14.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  14  of  20  ( 2387 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)
3245976--3246263	108	2.7	108	87	1	391	35	20	18	25	1.95
3252600--3252636	19	1.9	19	100	0	74	27	16	21	35	1.94
3252717--3253115	54	7.4	54	88	2	514	34	20	19	26	1.96
3255607--3256018	225	1.8	227	92	4	697	31	13	15	40	1.85
3259204--3259255	20	2.5	20	75	3	59	26	13	28	30	1.94
3259341--3259391	21	2.4	21	80	6	59	27	11	23	37	1.90
3259354--3259391	20	1.9	20	84	10	51	28	10	23	36	1.88
3261087--3261147	31	1.9	32	86	3	88	57	21	11	9	1.62
3261569--3261619	19	2.7	20	76	11	63	41	3	0	54	1.19
3263022--3263059	20	1.9	20	94	0	67	18	15	34	31	1.92
3265226--3265264	13	3.1	13	92	3	62	51	2	7	38	1.44
3269648--3269687	21	1.9	21	85	10	55	35	10	2	52	1.48
3270885--3270940	21	2.7	21	91	0	94	21	19	39	19	1.93
3271022--3271081	29	2.0	30	93	6	104	43	16	6	33	1.74
3271192--3271231	21	1.9	21	94	0	71	50	7	10	32	1.64
3272342--3272389	19	2.5	20	82	3	62	29	12	6	52	1.63
3273723--3273857	64	2.1	64	82	6	157	30	14	24	31	1.94
3275030--3275075	23	2.0	23	100	0	92	39	8	17	34	1.80
3279340--3279365	2	13.0	2	100	0	52	50	0	0	50	1.00
3280576--3280640	7	9.1	7	80	8	69	46	4	0	49	1.22
3280576--3280663	43	2.0	43	82	4	106	46	6	1	45	1.37
3281053--3281086	17	1.9	18	88	5	52	52	0	8	38	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3282802--3282845	15	3.0	14	77	9	52	27	0	4	68	1.09
3287697--3287764	31	2.3	30	84	5	84	32	22	10	35	1.88
3295122--3295187	29	2.3	29	81	5	71	33	15	7	43	1.74
3295871--3295932	30	2.0	31	90	3	99	37	35	4	22	1.76
3297273--3297308	18	2.0	18	100	0	72	22	16	33	27	1.95
3299717--3299786	28	2.6	27	76	12	72	57	12	4	25	1.54
3308780--3308814	14	2.5	14	95	0	61	34	5	11	48	1.63
3309088--3309134	23	2.1	23	84	7	62	51	0	0	48	1.00
3309088--3309150	23	2.8	22	77	13	58	47	0	3	49	1.17
3309335--3309391	23	2.4	23	85	5	69	49	0	1	49	1.11
3315167--3315205	15	2.5	15	83	4	51	61	0	2	35	1.10
3316207--3316264	15	3.9	15	81	4	64	46	10	0	43	1.38
3317487--3317518	10	3.4	10	87	12	50	34	0	0	65	0.93
3317517--3317549	2	17.0	2	93	6	59	51	0	0	48	1.00
3323851--3323886	3	12.0	3	88	11	56	66	0	0	33	0.92
3324244--3324343	42	2.4	41	73	6	103	35	23	20	22	1.96
3324033--3324643	258	2.4	258	87	3	838	35	17	16	30	1.92
3325964--3326104	73	1.9	73	85	5	196	22	22	29	24	1.99
3326696--3326739	17	2.6	17	89	7	63	59	27	0	13	1.35
3328504--3328589	20	4.1	20	75	10	64	16	25	36	22	1.94
3330356--3330656	150	2.0	151	98	1	579	25	20	17	36	1.94
3332480--3332519	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3334435--3334637	75	2.7	76	88	3	286	19	24	32	23	1.98
3341036--3341105	30	2.3	30	97	0	131	55	10	11	22	1.65
3342339--3342384	3	15.3	3	90	0	74	65	2	0	32	1.05
3342301--3342380	9	9.1	9	77	8	58	56	1	0	42	1.07
3351046--3351434	199	2.0	199	82	5	482	33	9	20	35	1.86
3358290--3358338	25	2.0	25	95	0	89	18	12	20	48	1.79
3358348--3358380	16	2.1	16	100	0	66	54	0	33	12	1.37
3368498--3368578	41	2.0	41	92	0	135	23	17	18	40	1.91
3372335--3372435	3	33.3	3	74	16	59	63	3	1	30	1.24
3372323--3372387	21	3.0	22	74	17	64	66	1	1	30	1.10
3372335--3372434	38	2.7	35	72	20	89	63	4	2	31	1.24
3372588--3372758	86	2.0	85	80	8	195	44	6	11	37	1.67
3382831--3382873	21	2.1	20	91	4	68	25	6	27	39	1.81
3382881--3382970	39	2.2	40	88	3	128	33	12	23	31	1.91
3387147--3387222	38	2.0	38	100	0	152	36	10	7	44	1.68
3388018--3388075	29	2.0	29	83	12	75	77	0	6	15	0.97
3388030--3388085	25	2.3	24	81	6	69	75	0	8	16	1.05
3397306--3397338	15	2.2	15	89	10	50	33	15	6	45	1.70
3417876--3417902	3	9.0	3	100	0	54	33	0	0	66	0.92
3420091--3420123	16	2.1	16	88	11	50	42	0	9	48	1.35
3420156--3420470	55	5.7	55	89	0	452	34	17	18	29	1.94
3420159--3420470	165	1.9	165	90	2	502	34	16	18	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3426654--3426724	22	3.5	21	83	9	85	32	14	21	32	1.93
3427057--3427261	55	3.7	55	86	1	259	34	17	19	28	1.94
3427057--3427261	110	1.9	110	85	2	286	34	17	19	28	1.94
3444700--3444749	24	2.1	24	85	7	66	28	2	12	58	1.45
3447912--3447957	14	2.8	17	84	12	53	10	0	6	82	0.83
3447919--3447958	14	2.7	15	88	7	64	15	0	5	80	0.88
3447916--3447963	23	2.1	23	84	7	62	16	0	4	79	0.89
3450262--3450311	24	2.1	24	85	7	66	28	2	12	58	1.45
3458431--3458474	21	2.1	21	82	0	52	9	43	15	31	1.79
3459120--3459176	28	2.0	29	96	3	107	40	0	21	38	1.53
3459575--3459734	65	2.5	63	84	6	205	30	23	19	26	1.98
3459706--3459754	19	2.6	19	84	9	57	24	28	20	26	1.99
3462936--3462985	24	2.1	23	82	10	57	56	2	4	38	1.30
3465574--3465665	48	1.9	48	90	0	148	22	18	30	28	1.97
3465667--3465809	65	2.2	65	86	2	198	41	12	20	25	1.87
3465752--3465859	50	2.2	50	87	0	153	43	12	19	25	1.85
3465687--3465913	115	2.0	115	87	1	330	42	11	19	25	1.86
3465948--3466062	38	3.0	37	86	6	158	39	9	18	33	1.83
3467231--3467298	10	6.1	10	74	19	55	1	14	5	77	1.02
3467233--3467299	33	2.0	33	88	8	100	1	14	7	76	1.08
3467238--3467303	17	3.9	17	80	11	75	1	16	7	74	1.12
3469877--3469934	23	2.5	23	94	2	98	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)
3472723--3472760	13	3.0	13	80	3	51	15	5	28	50	1.66
3475007--3475047	15	2.9	14	85	7	64	82	2	2	12	0.86
3475072--3475113	14	2.9	14	85	3	57	73	0	7	19	1.05
3476461--3476632	38	4.5	38	90	2	256	49	5	1	43	1.35
3476461--3476632	75	2.2	76	88	3	256	49	5	1	43	1.35
3476617--3476662	2	23.5	2	95	4	85	50	0	0	50	1.00
3476537--3476799	103	2.6	102	81	8	293	47	6	2	44	1.40
3476643--3476744	38	2.6	38	86	7	152	46	6	1	45	1.41
3476705--3476772	27	2.5	26	81	6	82	48	7	1	42	1.40
3476632--3476807	38	4.6	38	73	8	101	46	6	2	45	1.41
3476676--3476803	65	2.0	66	87	6	190	46	7	3	42	1.48
3477607--3478516	85	10.7	85	84	2	1053	26	18	20	34	1.95
3478584--3478743	86	1.9	86	89	0	248	23	21	25	30	1.99
3479795--3480057	95	2.7	95	85	3	339	31	16	17	33	1.93
3483639--3483718	39	2.0	41	85	7	110	75	5	7	12	1.18
3485131--3485239	37	2.9	38	89	5	152	48	6	2	42	1.43
3485088--3485225	73	1.9	73	90	3	224	50	5	2	41	1.38
3485113--3485239	36	3.5	36	89	3	182	47	5	3	43	1.45
3485205--3485264	25	2.4	25	80	5	68	45	8	5	41	1.56
3485228--3485336	38	2.9	38	81	6	132	45	6	2	44	1.43
3485169--3485304	62	2.1	62	84	6	166	46	7	2	43	1.46
3485281--3485367	42	2.0	45	82	10	110	43	8	3	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3485330--3485402	31	2.4	31	88	4	112	43	10	2	42	1.54
3486401--3486505	45	2.4	43	85	6	140	31	24	19	24	1.98
3486421--3486512	45	2.0	45	100	0	184	27	29	21	21	1.99
3486471--3486677	83	2.5	82	84	1	254	27	19	22	30	1.98
3486526--3486663	42	3.3	42	68	9	120	26	17	22	34	1.96
3487226--3487376	72	2.1	73	92	3	252	19	7	23	49	1.74
3488906--3489002	43	2.3	43	83	3	124	47	19	13	19	1.82
3493067--3493114	21	2.3	21	85	7	62	25	25	14	35	1.94
3495837--3495882	16	2.9	16	84	12	67	36	26	2	34	1.69
3500496--3500538	21	2.0	21	95	0	77	27	27	20	23	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20