genome.fa.s8185.2.7.7.80.10.50.1000.16.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

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

This is table  16  of  16  ( 1911 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)
3347880--3347922	19	2.1	20	83	12	52	55	4	11	27	1.55
3350727--3350870	41	3.5	40	70	5	119	29	20	19	29	1.97
3350561--3350857	82	3.7	82	85	7	383	27	18	19	34	1.95
3350701--3350834	41	3.3	41	69	4	126	30	20	18	30	1.96
3353471--3353497	12	2.2	12	100	0	54	0	40	14	44	1.46
3355347--3355617	147	1.8	147	80	4	323	23	23	18	33	1.97
3359350--3359394	23	2.0	23	90	0	72	24	26	26	22	2.00
3359362--3359677	150	2.1	149	94	1	553	34	21	17	26	1.95
3360536--3360565	11	2.6	11	94	5	51	50	23	0	26	1.50
3368251--3368301	25	2.0	25	100	0	102	33	11	15	39	1.84
3370626--3370855	119	1.9	119	82	8	290	35	11	22	30	1.89
3379496--3379750	20	12.5	21	74	14	153	39	18	23	19	1.92
3379575--3379735	63	2.6	63	88	2	238	36	17	25	21	1.95
3379555--3379750	83	2.4	82	80	9	231	38	17	24	19	1.93
3379737--3379780	20	2.2	20	91	0	70	54	15	18	11	1.70
3379858--3379959	6	18.5	6	94	3	132	28	53	16	0	1.49
3379874--3379962	5	16.6	5	96	1	115	26	53	19	0	1.45
3380653--3380798	6	24.7	6	94	2	161	2	16	40	40	1.63
3380870--3381020	20	7.4	20	79	7	160	20	25	16	37	1.93
3380870--3381022	40	3.8	40	82	5	189	20	25	16	37	1.93
3380868--3381039	83	2.1	83	91	0	272	19	26	16	37	1.93
3380868--3381125	20	12.6	20	73	9	108	18	23	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381075--3381125	19	2.6	20	90	3	77	15	17	23	43	1.88
3382368--3383580	300	4.0	300	98	1	2309	26	20	15	37	1.93
3385369--3385406	20	1.9	20	84	10	51	15	13	10	60	1.59
3385581--3385610	8	3.8	8	95	0	51	3	10	0	86	0.67
3386992--3387024	17	1.9	17	93	0	57	66	3	27	3	1.21
3393291--3393329	2	19.5	2	100	0	78	48	0	0	51	1.00
3395229--3395328	32	3.1	32	84	2	112	51	17	4	28	1.63
3395349--3395418	33	2.1	33	86	0	95	50	5	8	35	1.57
3395515--3395560	24	2.0	24	86	4	67	63	0	6	30	1.20
3396063--3396100	17	2.2	18	86	13	53	34	0	7	57	1.28
3403769--3403800	6	5.3	6	100	0	64	15	15	34	34	1.90
3405777--3406165	36	10.8	36	89	1	528	30	29	19	20	1.97
3405838--3405892	18	3.1	18	65	19	51	29	30	16	23	1.96
3444137--3444222	41	2.1	41	95	4	156	23	19	22	34	1.96
3445596--3445622	2	13.5	2	100	0	54	51	0	0	48	1.00
3446579--3446713	59	2.3	59	83	3	164	41	12	8	37	1.74
3452513--3452549	19	2.1	18	85	14	51	59	2	27	10	1.44
3456986--3457076	3	29.7	3	82	4	101	39	2	0	58	1.10
3457584--3457618	18	1.9	18	100	0	70	80	2	17	0	0.84
3460881--3460934	14	3.8	14	82	4	63	24	14	9	51	1.71
3466336--3466682	83	4.2	83	94	2	590	28	13	21	37	1.91
3466639--3466785	41	3.6	41	97	2	278	25	13	23	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3468869--3468944	40	1.9	40	91	0	125	31	14	23	30	1.94
3469336--3469390	22	2.5	22	90	0	92	34	12	14	38	1.84
3469792--3470563	113	6.9	113	89	3	1085	37	15	18	29	1.91
3470503--3470603	40	2.5	40	96	0	184	49	9	21	18	1.76
3470391--3470714	153	2.1	153	88	4	467	40	13	19	26	1.89
3470277--3470827	266	2.1	266	99	0	1084	39	14	19	27	1.90
3469829--3470563	226	3.3	226	93	1	1194	38	15	18	28	1.91
3470538--3470959	226	1.9	228	86	3	609	39	13	18	28	1.89
3470052--3470959	492	1.8	494	92	1	1536	38	14	18	28	1.90
3470539--3470959	113	3.7	113	84	5	526	38	13	18	28	1.89
3471182--3471275	3	30.7	3	80	4	98	39	3	0	57	1.15
3471782--3471818	19	1.9	19	100	0	74	81	2	16	0	0.81
3494569--3494624	28	2.0	28	82	0	67	25	7	23	44	1.78
3499322--3499347	2	13.0	2	100	0	52	50	0	50	0	1.00
3506526--3506572	22	2.1	23	88	4	69	40	10	4	44	1.59
3508190--3508242	21	2.5	21	81	6	72	20	26	18	33	1.96
3508275--3508359	20	4.2	20	87	0	116	30	29	14	25	1.95
3508553--3508596	22	2.0	22	90	0	70	20	43	15	20	1.88
3508859--3508917	20	3.0	20	87	0	73	15	18	22	44	1.87
3509054--3509108	25	2.2	24	78	15	58	20	9	18	52	1.71
3510237--3510284	18	2.7	18	93	0	87	27	45	12	14	1.81
3510819--3510864	20	2.3	20	84	0	56	41	23	17	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3510858--3510954	19	5.6	19	71	22	97	46	19	19	14	1.84
3510858--3510949	33	2.8	33	93	0	157	47	19	18	14	1.82
3510874--3510932	14	3.9	14	74	20	55	49	20	16	13	1.80
3510961--3511071	20	5.7	19	83	3	105	15	21	24	38	1.92
3511022--3511077	20	2.8	20	88	0	76	23	16	28	32	1.96
3511419--3511526	42	2.5	42	82	4	119	22	37	16	23	1.93
3511442--3511522	21	3.8	20	69	9	54	22	35	19	22	1.96
3513091--3513163	19	3.8	19	100	0	146	46	16	21	15	1.83
3513412--3513482	20	3.5	20	80	1	79	19	16	21	42	1.89
3515101--3515231	19	7.7	18	68	25	97	45	19	22	12	1.83
3515101--3515227	33	3.8	33	95	0	218	45	18	22	12	1.83
3515227--3515303	19	4.3	19	76	18	76	12	15	24	46	1.81
3515243--3515335	33	2.8	33	88	3	125	15	16	21	47	1.82
3515444--3515478	14	2.5	14	90	0	61	45	22	0	31	1.53
3517165--3517349	91	2.0	90	89	6	282	47	18	11	22	1.80
3519024--3519178	19	8.8	19	71	22	133	47	19	22	10	1.80
3519073--3519161	14	5.6	14	69	23	61	44	21	24	8	1.81
3519024--3519178	33	4.5	33	89	5	220	47	19	22	10	1.80
3519758--3520032	20	13.6	20	76	9	148	27	19	19	33	1.96
3519776--3520032	41	6.3	41	71	10	150	27	19	19	33	1.96
3519783--3519903	61	2.0	61	80	6	138	25	20	19	34	1.96
3520022--3520074	21	2.5	22	81	6	74	33	18	26	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3522036--3522092	24	2.2	27	78	15	66	50	5	7	36	1.52
3525919--3526010	42	2.2	42	86	0	121	21	14	16	47	1.81
3526316--3526401	27	3.1	27	71	18	70	47	1	2	48	1.22
3526429--3526598	89	1.9	87	81	11	202	49	3	0	46	1.23
3526555--3526608	21	2.6	20	76	5	54	55	0	0	44	0.99
3526795--3526841	15	3.2	15	71	17	53	31	21	6	40	1.78
3526796--3526847	14	3.6	14	76	5	59	34	21	7	36	1.82
3530041--3530107	31	2.2	31	86	0	89	55	11	1	31	1.45
3531635--3531751	59	2.0	59	91	0	189	36	11	15	36	1.83
3541166--3541229	5	12.8	5	94	0	83	6	40	37	15	1.73
3541227--3541287	6	10.2	6	96	0	104	3	16	49	31	1.62
3541409--3541463	22	2.5	22	75	0	56	29	9	23	38	1.85
3546992--3547050	5	11.8	5	94	0	73	6	40	37	15	1.74
3547048--3547102	6	9.2	6	95	0	92	3	16	49	30	1.63
3547377--3547431	22	2.5	22	75	0	56	29	9	23	38	1.85
3551516--3551597	27	3.0	27	96	0	146	12	45	7	35	1.69
3551529--3551599	13	5.3	13	68	18	56	11	47	7	33	1.66
3554525--3554573	20	2.5	20	93	0	80	44	4	20	30	1.70
3554525--3554581	20	3.0	20	87	5	73	47	3	19	29	1.66
3554576--3555820	645	1.9	640	84	4	1628	38	10	13	37	1.80
3555948--3556010	23	2.7	23	95	0	117	26	19	17	36	1.94
3557227--3557512	143	2.0	142	99	0	563	33	9	14	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3558031--3558086	24	2.3	24	100	0	112	23	30	14	32	1.94

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

The End!