genome.fa.s8527.2.7.7.80.10.50.1000.14.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  14  of  37  ( 4336 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)
3385204--3385530	153	2.1	153	98	0	627	39	14	21	25	1.90
3385086--3385647	266	2.1	266	91	2	912	38	13	20	26	1.90
3385357--3385643	113	2.5	113	90	2	425	39	13	20	26	1.89
3385890--3386011	3	40.7	3	85	6	158	36	0	0	62	1.07
3387242--3387277	19	1.9	19	94	5	65	22	0	5	72	1.05
3387331--3387363	15	2.3	15	89	5	50	54	3	0	42	1.15
3388244--3388316	2	36.5	2	100	0	146	50	0	0	49	1.00
3393349--3393394	21	2.2	21	96	0	83	23	17	30	28	1.97
3393591--3393767	21	8.6	21	72	3	144	37	24	16	21	1.94
3393612--3393771	41	3.9	41	90	0	257	38	23	17	20	1.93
3393568--3393685	62	1.9	62	92	0	200	36	24	17	21	1.95
3402780--3402857	39	2.0	39	92	0	129	44	17	14	23	1.85
3408414--3408451	20	2.0	20	89	5	60	60	0	0	39	0.97
3408709--3408747	18	2.2	18	100	0	78	25	10	43	20	1.83
3412254--3412326	36	2.0	36	100	0	146	46	10	5	36	1.62
3415346--3415398	23	2.3	23	80	0	61	15	13	13	58	1.64
3419435--3419464	7	4.3	7	95	0	51	16	3	30	50	1.62
3423010--3423510	249	2.0	249	93	0	858	34	18	16	29	1.93
3430552--3430614	32	2.0	33	93	6	112	26	3	17	52	1.60
3435880--3435941	23	2.7	22	80	11	63	64	11	6	17	1.46
3442704--3442751	23	2.1	23	84	0	60	35	10	18	35	1.85
3443185--3443243	23	2.6	23	88	0	82	40	16	5	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3442825--3443884	434	2.5	434	97	0	2024	39	12	7	40	1.72
3443615--3443677	23	2.7	23	92	0	99	38	20	4	36	1.74
3444092--3444177	39	2.2	39	93	0	145	18	13	18	48	1.80
3447429--3448238	183	4.4	183	97	0	1458	33	16	14	36	1.89
3449708--3449782	3	25.0	3	73	0	60	22	34	6	36	1.81
3449712--3449792	12	6.8	12	82	0	90	22	34	7	35	1.82
3449716--3449792	36	2.1	36	87	0	109	22	35	7	35	1.83
3451257--3453136	199	9.5	199	98	1	3630	32	16	15	35	1.90
3451257--3453136	396	4.7	398	98	0	3639	32	16	15	35	1.90
3453261--3453308	18	2.6	18	87	9	62	54	10	4	31	1.53
3455093--3455156	32	2.0	32	90	0	101	23	46	0	29	1.52
3455190--3455254	21	3.1	21	80	6	69	15	29	15	40	1.88
3457472--3457514	20	2.3	18	85	14	61	20	16	11	51	1.75
3457477--3457523	20	2.4	19	82	10	67	19	17	10	53	1.72
3457645--3457690	20	2.3	20	89	10	76	17	17	10	54	1.70
3462146--3462182	6	6.2	6	96	0	65	0	18	35	45	1.50
3466947--3467016	20	3.5	20	67	18	63	14	22	22	40	1.90
3466926--3467208	41	6.9	41	78	10	258	18	19	24	37	1.94
3466926--3467208	103	2.8	101	80	8	338	18	19	24	37	1.94
3466877--3467143	62	4.3	62	83	6	317	20	18	24	36	1.94
3468316--3468379	30	2.1	30	88	5	94	17	60	12	9	1.57
3468316--3468362	15	3.1	15	76	11	60	17	59	12	10	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3471047--3471083	2	18.5	2	100	0	74	48	0	0	51	1.00
3471837--3472019	43	4.3	43	89	0	222	29	23	20	26	1.99
3471913--3472045	43	3.1	43	86	3	117	29	22	18	29	1.98
3471858--3472045	86	2.2	87	78	3	211	28	21	20	29	1.98
3472215--3472273	21	2.8	21	84	0	73	55	20	5	18	1.61
3475449--3475957	41	12.3	41	80	3	500	33	17	19	29	1.95
3475449--3475973	125	4.2	124	78	6	506	34	17	19	29	1.95
3475453--3475932	166	2.9	165	89	1	719	35	17	18	28	1.94
3477766--3477804	15	2.6	15	83	0	51	74	2	2	20	1.06
3479425--3479514	31	2.9	30	87	8	119	46	5	20	27	1.72
3479438--3479491	17	3.4	17	70	15	60	50	5	16	27	1.68
3479435--3479514	15	5.2	15	71	15	65	50	5	16	28	1.66
3479426--3479532	31	3.5	31	82	7	101	48	4	17	28	1.67
3486339--3486480	21	6.8	20	78	10	124	49	26	1	22	1.58
3486339--3486480	7	20.3	7	71	13	51	49	26	1	22	1.58
3486358--3486480	14	8.8	14	74	3	77	49	26	1	21	1.59
3487240--3487315	11	6.6	11	69	8	53	26	21	23	28	1.99
3497282--3497675	200	2.0	191	86	6	540	27	22	22	27	1.99
3504078--3504129	26	2.0	26	92	0	86	30	26	3	38	1.74
3518825--3518860	2	18.0	2	100	0	72	50	0	0	50	1.00
3521716--3521749	15	2.3	15	94	0	59	38	20	0	41	1.53
3522162--3522234	23	3.2	23	92	0	119	38	21	5	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3522656--3522717	21	2.8	23	85	9	92	35	24	4	35	1.77
3522643--3522712	21	3.3	21	82	9	88	37	22	5	34	1.78
3523127--3523197	21	3.3	21	84	7	97	38	22	5	33	1.78
3523132--3523202	23	3.2	23	84	8	101	38	22	5	33	1.78
3521760--3523918	484	4.4	489	96	1	3898	39	10	7	41	1.69
3523617--3523689	23	3.2	23	92	0	119	38	21	5	34	1.77
3526471--3527775	183	7.1	183	96	0	2403	32	16	15	35	1.91
3528986--3529085	12	8.3	12	89	0	128	22	33	6	39	1.78
3528986--3529085	6	16.7	6	84	0	92	22	33	6	39	1.78
3530587--3531350	200	3.8	200	95	0	1350	30	18	14	36	1.91
3531451--3531511	19	3.3	18	88	2	59	52	11	1	34	1.47
3531463--3531511	19	2.6	19	96	0	89	55	10	2	32	1.45
3533065--3533118	26	2.2	24	83	6	63	3	38	0	57	1.17
3533302--3533367	33	2.0	33	90	0	105	22	48	0	28	1.51
3533401--3533465	21	3.1	21	93	0	103	16	30	10	41	1.83
3535866--3535912	20	2.3	20	89	10	78	17	17	10	55	1.69
3535652--3536124	181	2.6	182	89	1	698	27	16	13	42	1.85
3536550--3536631	42	2.0	42	95	0	146	57	3	8	30	1.46
3539919--3539962	23	1.9	23	95	0	79	15	29	27	27	1.96
3540075--3540165	24	3.8	25	78	15	95	23	24	24	28	1.99
3543068--3543135	29	2.4	28	78	11	75	51	2	0	45	1.16
3543286--3543335	22	2.3	22	100	0	100	64	18	10	8	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3545114--3545339	89	2.5	89	89	2	337	33	22	19	25	1.97
3545303--3545374	20	3.5	20	69	10	56	27	22	27	22	1.99
3545004--3545539	221	2.4	220	92	1	885	33	22	18	25	1.96
3545315--3545375	20	3.0	19	71	15	59	27	26	26	19	1.99
3545335--3545515	89	2.0	89	90	1	283	37	24	15	23	1.93
3546403--3546450	25	1.9	25	95	0	87	22	25	31	20	1.98
3550980--3551327	43	8.1	43	91	3	506	33	24	24	18	1.97
3552806--3552839	18	1.9	18	88	5	52	29	20	0	50	1.49
3555909--3555981	25	2.9	25	84	8	78	26	23	28	21	1.99
3555925--3555997	25	3.0	24	82	9	85	24	24	27	23	2.00
3555956--3556005	24	2.1	24	88	0	73	32	24	22	22	1.98
3555962--3556012	24	2.1	24	81	0	57	33	27	19	19	1.96
3558172--3558278	15	7.3	15	86	9	105	0	10	0	89	0.48
3558188--3558287	20	4.6	22	86	11	118	0	7	2	91	0.51
3558196--3558278	1	83.0	1	87	0	121	0	6	0	93	0.33
3562326--3562360	18	1.9	18	94	0	61	22	2	28	45	1.67
3563706--3563744	18	2.1	19	85	4	53	48	2	10	38	1.51
3575276--3575309	2	17.5	2	93	6	61	52	0	0	47	1.00
3575809--3575845	2	18.5	2	100	0	74	51	0	0	48	1.00
3575955--3575983	5	5.8	5	100	0	58	17	62	0	20	1.33
3601191--3601245	26	2.1	26	83	6	67	43	0	0	56	0.99
3621024--3621048	12	2.1	12	100	0	50	76	16	8	0	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3623181--3623220	19	2.0	19	85	9	53	37	5	2	55	1.35
3643264--3643323	18	3.2	18	82	15	77	28	26	20	25	1.99
3643777--3643845	19	3.6	19	100	0	138	21	30	17	30	1.96
3651600--3651647	23	2.1	23	88	0	69	47	10	6	35	1.63
3651727--3651768	20	2.1	20	100	0	84	35	19	9	35	1.84
3652239--3652282	18	2.5	18	81	3	54	34	4	6	54	1.47
3656895--3656944	23	2.2	23	88	0	73	42	12	6	40	1.67
3657025--3657066	20	2.1	20	100	0	84	35	19	9	35	1.84
3660092--3660118	2	13.5	2	100	0	54	48	0	0	51	1.00
3660233--3660291	2	31.5	2	74	19	56	52	3	0	44	1.17

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