genome.fa.s9579.2.7.7.80.10.50.1000.18.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: 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  18  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)
3383245--3383448	53	3.8	53	91	1	311	21	25	22	30	1.99
3383872--3384270	42	9.4	42	71	13	228	31	21	18	29	1.97
3384125--3384149	13	1.9	13	100	0	50	24	20	24	32	1.98
3384045--3384230	93	2.0	93	96	0	345	28	20	18	32	1.96
3384201--3384264	20	3.0	21	70	17	69	31	25	18	25	1.98
3384138--3384363	122	1.9	122	92	0	380	28	22	19	29	1.98
3392780--3392817	2	19.0	2	100	0	76	50	0	0	50	1.00
3393163--3393196	16	2.1	17	94	5	61	58	17	0	23	1.38
3395623--3395658	16	2.2	17	90	9	58	58	0	2	38	1.13
3397657--3397699	18	2.2	20	84	8	54	23	2	4	69	1.18
3398238--3398547	155	2.0	155	100	0	620	26	20	22	30	1.98
3411129--3411286	21	7.8	20	72	7	86	38	25	17	18	1.92
3411253--3411446	20	9.6	20	81	5	221	35	25	19	19	1.95
3411253--3411446	60	3.2	60	83	0	253	35	25	19	19	1.95
3411592--3411646	22	2.5	22	78	0	65	23	38	16	21	1.93
3411827--3411897	33	2.2	33	89	0	106	11	23	16	47	1.79
3411977--3412086	21	5.8	20	74	17	108	45	18	24	11	1.83
3411970--3412086	41	3.1	38	81	14	145	46	17	25	11	1.81
3412037--3412093	14	3.7	14	75	20	60	43	22	24	8	1.81
3412029--3412097	33	2.1	33	100	0	138	46	20	24	8	1.79
3413871--3414344	93	5.1	93	99	0	930	22	12	18	45	1.83
3414388--3414515	19	7.3	19	74	17	116	45	28	17	8	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414424--3414515	33	2.8	32	90	6	141	45	28	18	7	1.76
3414511--3414644	19	7.6	19	75	16	119	11	19	23	45	1.82
3414533--3414589	14	3.7	14	77	20	60	10	21	22	45	1.82
3414516--3414607	33	2.8	33	93	1	159	10	20	21	46	1.81
3414533--3414626	51	1.9	47	85	8	125	9	20	24	45	1.80
3416568--3416603	14	2.6	14	95	0	63	33	0	22	44	1.53
3416709--3416808	19	5.5	19	83	12	138	45	18	23	14	1.85
3416709--3416825	53	2.2	53	93	1	200	43	17	24	13	1.86
3416815--3416982	19	9.6	19	76	18	177	14	23	17	44	1.86
3416821--3416982	33	4.7	33	74	16	159	14	22	17	45	1.85
3416815--3416982	52	3.2	52	97	0	309	14	23	17	44	1.86
3417041--3417189	19	8.4	19	79	18	187	45	17	22	14	1.84
3417059--3417207	33	4.4	34	75	17	141	44	18	24	13	1.85
3417041--3417207	51	3.2	51	96	3	300	44	17	23	13	1.85
3419521--3419545	12	2.1	12	100	0	50	0	28	0	72	0.86
3419720--3419766	24	2.0	24	87	8	69	38	21	14	25	1.92
3420449--3420678	20	11.5	20	86	1	246	19	17	25	37	1.94
3420665--3420747	21	4.0	21	73	6	78	25	16	24	33	1.96
3420645--3420743	42	2.4	43	77	11	100	21	18	23	37	1.94
3423425--3423501	37	2.1	37	83	9	95	46	1	5	46	1.33
3424228--3424418	98	2.0	97	86	1	265	46	8	9	34	1.68
3424846--3424914	30	2.2	32	82	12	90	42	7	5	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3427557--3427597	21	2.0	21	95	4	75	34	0	9	56	1.32
3427576--3427668	45	2.1	42	86	5	123	41	1	7	49	1.38
3428246--3428288	2	21.5	2	100	0	86	48	0	0	51	1.00
3428345--3428393	2	24.5	2	100	0	98	48	0	0	51	1.00
3429019--3429181	59	2.8	58	86	5	213	31	12	22	33	1.92
3429541--3429645	32	3.2	32	66	24	90	30	14	22	32	1.94
3429517--3429769	68	3.7	68	91	1	373	32	14	21	31	1.93
3429739--3430005	80	3.3	80	89	2	419	35	10	24	29	1.88
3429739--3430037	80	3.8	80	87	1	413	36	10	24	28	1.88
3432687--3432747	31	2.0	31	90	0	95	31	24	21	22	1.98
3434389--3434545	64	2.5	64	82	6	176	33	20	17	28	1.96
3434863--3434898	18	2.0	18	88	0	54	30	8	16	44	1.77
3436055--3436124	18	3.7	18	80	14	86	20	24	31	24	1.98
3439826--3439861	18	2.0	18	88	0	54	30	8	16	44	1.77
3441018--3441087	18	3.7	18	80	14	86	20	24	31	24	1.98
3443454--3443495	14	2.7	17	79	20	56	57	4	0	38	1.20
3443459--3443495	14	2.5	15	91	8	58	56	5	0	37	1.22
3443471--3443517	23	2.0	24	83	4	60	59	2	0	38	1.09
3444710--3444763	10	5.3	10	84	4	72	77	9	0	12	0.98
3444710--3444766	21	2.8	20	86	2	69	77	8	0	14	0.99
3444716--3444766	21	2.4	21	90	0	84	78	9	0	11	0.97
3444784--3444828	10	4.8	10	76	15	51	35	2	0	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3446694--3446800	24	4.5	24	74	0	97	47	16	14	21	1.82
3446694--3446802	48	2.3	48	77	0	119	47	16	14	21	1.82
3447927--3447962	18	2.0	18	94	0	63	33	13	0	52	1.41
3449279--3449339	13	4.3	13	77	18	68	14	21	47	16	1.82
3449279--3449344	31	2.1	31	97	0	123	13	21	48	16	1.80
3449285--3449325	18	2.3	18	100	0	82	9	21	51	17	1.74
3451469--3451575	24	4.5	24	74	0	97	47	16	14	21	1.82
3451469--3451577	48	2.3	48	77	0	119	47	16	14	21	1.82
3452702--3452737	18	2.0	18	94	0	63	33	13	0	52	1.41
3454051--3454111	13	4.3	13	77	18	68	14	21	47	16	1.82
3454051--3454116	31	2.1	31	97	0	123	13	21	48	16	1.80
3454057--3454097	18	2.3	18	100	0	82	9	21	51	17	1.74
3455179--3455285	24	4.5	24	74	0	97	47	16	14	21	1.82
3455179--3455287	48	2.3	48	77	0	119	47	16	14	21	1.82
3456414--3456449	18	2.0	18	94	0	63	33	13	0	52	1.41
3457766--3457826	13	4.3	13	77	18	68	14	21	47	16	1.82
3457766--3457831	31	2.1	31	97	0	123	13	21	48	16	1.80
3457772--3457812	18	2.3	18	100	0	82	9	21	51	17	1.74
3459182--3459333	41	3.7	42	71	7	132	30	17	23	28	1.96
3459159--3459312	82	1.9	83	81	6	188	29	17	24	27	1.97
3459244--3459415	82	2.1	85	82	9	230	33	16	20	29	1.95
3459199--3459396	40	4.8	41	75	15	158	32	18	21	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3459257--3459436	42	4.3	42	72	10	138	35	17	19	27	1.94
3459427--3459581	41	3.8	41	83	5	197	34	13	19	32	1.91
3459404--3459581	82	2.2	82	82	5	216	34	12	19	33	1.90
3459422--3459581	82	2.0	82	86	5	225	36	13	18	31	1.89
3461008--3461127	42	2.9	42	81	8	131	30	15	20	34	1.93
3464515--3464617	21	4.9	21	83	2	109	45	18	33	2	1.64
3465037--3465238	43	4.7	43	83	2	192	38	25	15	21	1.92
3465037--3465239	86	2.4	85	86	5	266	37	25	15	21	1.92
3465041--3465266	43	5.3	43	82	3	168	38	25	14	21	1.91
3465037--3465264	86	2.7	86	83	4	246	38	25	14	21	1.91
3465244--3465284	20	2.0	20	95	0	73	48	29	7	14	1.71
3467280--3467381	52	2.0	52	90	0	159	44	10	7	37	1.69
3468227--3468256	3	10.0	3	92	0	51	30	0	3	66	1.07
3468905--3468969	31	2.3	28	74	23	64	38	4	6	50	1.48
3471563--3471587	11	2.3	11	100	0	50	72	0	0	28	0.86
3477727--3477766	17	2.3	18	86	4	55	17	17	5	60	1.54
3484846--3484891	23	2.0	24	91	4	76	21	45	2	30	1.64
3490003--3490056	24	2.2	24	96	0	99	18	48	3	29	1.65
3493893--3493923	2	15.5	2	100	0	62	48	0	0	51	1.00
3495139--3495207	21	3.2	21	75	17	70	20	0	17	62	1.33
3495159--3495204	14	3.1	15	78	15	51	21	0	13	65	1.26
3507412--3507438	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3509624--3509661	20	1.9	20	88	0	58	21	15	31	31	1.94
3511634--3511675	22	2.0	21	86	13	59	11	19	7	61	1.52
3514286--3514333	25	1.9	25	82	0	60	27	8	16	47	1.75
3515693--3515730	20	1.9	19	89	5	58	78	5	13	2	1.02
3522341--3522426	32	2.8	32	81	12	99	48	1	0	50	1.08
3522352--3522401	20	2.5	20	83	6	66	50	0	0	50	1.00
3524605--3524639	2	17.5	2	100	0	70	48	0	0	51	1.00
3524625--3524709	34	2.5	34	94	3	145	37	0	0	62	0.96
3524603--3524698	43	2.2	43	81	12	115	39	0	0	60	0.97
3524702--3524739	20	1.9	20	89	10	60	18	10	31	39	1.85

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