genome.fa.s8685.2.7.7.80.10.50.1000.18.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: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

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

This is table  18  of  19  ( 2244 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)
3324684--3324756	20	3.7	20	94	0	128	21	19	19	39	1.92
3324753--3324798	21	2.2	21	92	0	74	39	17	26	17	1.91
3325171--3325209	3	13.0	3	100	0	78	33	0	0	66	0.92
3325398--3325480	28	2.9	28	72	15	71	36	1	2	60	1.18
3327459--3327487	12	2.4	12	100	0	58	17	6	37	37	1.76
3335320--3335865	121	4.6	115	78	11	520	40	15	17	26	1.89
3335676--3335739	20	3.2	20	63	12	51	45	9	20	25	1.80
3335435--3335865	121	3.6	120	81	9	536	39	15	17	26	1.90
3336205--3336280	3	26.0	3	79	10	68	36	1	0	61	1.04
3336202--3336280	35	2.5	30	75	18	79	35	1	0	63	1.03
3336209--3336277	35	2.0	35	86	11	97	37	1	0	60	1.06
3341914--3342045	65	2.0	64	94	1	228	26	32	8	32	1.86
3344780--3344840	25	2.4	25	97	0	113	37	26	8	27	1.85
3348624--3348674	26	2.0	26	92	0	84	35	15	25	23	1.94
3349547--3349598	22	2.4	22	87	3	79	34	28	13	23	1.92
3353462--3353511	2	25.0	2	100	0	100	50	0	0	50	1.00
3353892--3354141	32	7.8	32	93	2	407	28	18	19	33	1.96
3354526--3354687	64	2.5	64	83	7	186	30	24	17	27	1.97
3363122--3363301	65	2.8	65	81	10	201	30	25	17	27	1.97
3367299--3367341	19	2.3	20	80	15	56	32	20	23	23	1.98
3368400--3368681	32	8.8	32	88	5	394	28	18	20	33	1.96
3369330--3369410	44	1.9	41	82	9	101	19	3	20	55	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3369964--3370012	24	2.0	24	100	0	98	20	24	22	32	1.98
3370017--3370092	21	3.6	21	85	0	89	32	23	15	27	1.95
3370017--3370111	42	2.3	42	87	3	129	31	26	15	26	1.96
3370017--3370111	21	4.5	21	73	12	79	31	26	15	26	1.96
3373142--3373200	24	2.5	24	94	0	100	38	15	0	45	1.46
3374785--3374824	17	2.4	17	100	0	80	22	12	15	50	1.77
3375244--3375302	20	2.9	21	76	2	66	33	25	18	22	1.96
3379632--3379663	16	2.1	15	94	5	55	56	0	0	43	0.99
3379632--3379667	17	2.1	17	90	10	56	52	0	0	47	1.00
3381479--3381517	19	2.1	19	100	0	78	38	20	15	25	1.92
3382844--3382873	15	2.0	15	93	0	51	10	20	63	6	1.47
3386936--3386973	16	2.4	16	82	8	51	39	0	0	60	0.97
3389799--3389864	22	3.0	23	80	8	82	65	4	0	30	1.13
3390050--3390087	15	2.5	15	87	8	51	60	0	2	36	1.11
3397854--3397896	17	2.6	16	78	10	50	62	9	4	23	1.44
3397830--3397896	34	1.9	36	84	6	93	58	10	7	23	1.57
3397989--3398208	117	1.9	117	100	0	440	52	8	15	23	1.69
3414219--3414257	16	2.4	17	91	4	62	25	0	2	71	0.98
3414238--3414299	26	2.6	23	75	24	65	25	3	0	70	1.02
3414240--3414300	25	2.5	25	82	12	74	24	3	0	72	1.00
3417042--3417080	18	2.2	18	100	0	78	17	20	12	48	1.80
3418778--3418860	24	3.5	24	70	9	73	37	12	33	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3430841--3430899	12	4.9	12	85	0	73	40	1	1	55	1.20
3430841--3430899	3	19.7	3	76	0	55	40	1	1	55	1.20
3431030--3431096	26	2.6	26	97	0	125	19	40	17	22	1.92
3433060--3433158	30	3.4	30	78	10	91	33	5	0	61	1.18
3435800--3435840	21	2.0	21	95	0	73	21	24	12	41	1.87
3435801--3435847	21	2.2	21	88	0	67	25	23	14	36	1.93
3435840--3435929	20	4.5	20	92	0	144	42	20	18	18	1.90
3435916--3436062	20	7.3	20	91	0	231	28	26	19	25	1.98
3436220--3436275	22	2.6	22	97	2	105	25	39	8	26	1.85
3436927--3436979	24	2.2	24	93	0	88	22	16	18	41	1.90
3437174--3437209	14	2.5	14	90	4	54	58	22	13	5	1.56
3439397--3439525	34	3.7	34	79	14	120	38	23	23	14	1.92
3439416--3439484	20	3.5	20	92	4	113	36	26	21	15	1.94
3439476--3439549	33	2.2	33	90	2	112	47	18	21	12	1.81
3439568--3439661	33	2.8	33	90	3	134	13	23	19	43	1.86
3439767--3439803	14	2.6	14	86	0	56	48	21	0	29	1.50
3441185--3441291	21	5.1	21	75	3	99	22	18	37	21	1.94
3441186--3441296	42	2.6	42	77	7	125	23	18	37	19	1.94
3441776--3441844	20	3.5	20	87	0	93	33	21	20	24	1.97
3441857--3442022	87	1.9	87	88	0	251	18	17	19	44	1.87
3441908--3441990	33	2.5	33	76	2	85	16	16	20	45	1.85
3441974--3442025	20	2.6	20	93	0	95	19	19	23	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3443908--3443950	20	2.2	20	86	0	59	53	23	11	11	1.69
3444333--3444386	22	2.5	22	84	0	72	25	11	38	24	1.88
3444584--3444796	20	10.6	20	92	0	354	22	19	17	40	1.91
3444793--3444833	21	2.0	21	90	0	64	41	14	24	19	1.89
3453624--3453778	54	2.9	53	82	1	175	38	16	21	23	1.92
3454146--3454185	21	1.9	21	100	0	80	42	17	10	30	1.82
3454869--3455785	74	12.4	74	87	5	1250	26	19	21	32	1.97
3454869--3455785	220	4.1	224	89	4	1326	26	19	21	32	1.97
3455962--3456012	3	17.0	3	84	8	68	39	0	0	60	0.97
3457430--3457469	18	2.1	20	86	9	57	45	0	2	52	1.14
3457432--3457480	26	1.9	25	83	4	62	42	2	2	53	1.24
3459317--3459380	20	3.2	20	77	4	67	35	1	14	48	1.53
3459449--3459503	21	2.8	20	86	8	76	36	5	16	41	1.71
3461334--3461398	14	4.7	14	78	3	69	55	16	13	13	1.70
3462460--3462549	23	3.9	23	75	2	81	40	15	17	26	1.90
3462460--3462561	23	4.4	23	75	2	78	43	15	16	24	1.87
3470095--3470166	37	1.9	37	100	0	144	25	13	29	31	1.94
3470552--3470596	18	2.6	18	89	3	65	40	0	6	53	1.27
3477348--3477435	45	2.0	45	100	0	176	31	22	35	10	1.88
3480996--3481028	17	1.9	17	88	11	50	18	9	6	66	1.40
3487068--3487123	27	2.1	27	100	0	112	17	26	10	44	1.82
3490949--3490995	20	2.2	22	81	11	62	21	6	19	53	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3508845--3508894	25	1.9	27	88	8	77	16	34	32	18	1.92
3520575--3520627	24	2.2	24	100	0	106	33	7	15	43	1.74
3526012--3526168	21	7.8	20	72	7	84	38	24	17	19	1.92
3526135--3526327	20	9.6	20	83	4	228	35	25	20	18	1.95
3526474--3526528	22	2.5	22	72	0	56	23	38	14	23	1.92
3526816--3526873	21	2.8	20	84	5	80	43	15	27	13	1.85
3526857--3526913	14	3.7	14	75	20	60	43	22	24	8	1.81
3526849--3526929	33	2.5	33	95	0	144	46	22	22	8	1.78
3526925--3527022	19	5.7	19	70	22	90	10	23	22	43	1.83
3526947--3527036	14	5.7	14	72	23	72	8	24	23	43	1.82
3526930--3527044	33	3.5	33	97	0	221	9	23	20	46	1.80
3528970--3529098	19	7.3	19	75	17	125	46	27	17	8	1.77
3529007--3529098	33	2.8	34	93	3	152	46	27	18	7	1.76
3528970--3529098	52	2.5	52	75	14	140	46	27	17	8	1.77
3529116--3529172	14	3.7	14	72	20	51	7	19	28	45	1.76
3529099--3529228	33	3.8	33	85	6	161	10	18	24	46	1.79
3529094--3529228	19	7.6	19	77	16	137	10	19	24	45	1.81
3531139--3531174	14	2.6	14	95	0	63	33	0	22	44	1.53
3531277--3531374	19	5.4	19	84	13	143	45	17	22	14	1.84
3531277--3531393	53	2.2	53	98	1	227	44	17	23	13	1.85
3531383--3531585	19	11.7	19	75	20	212	14	20	18	46	1.84
3531389--3531599	52	4.1	52	81	15	262	13	20	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531459--3531599	33	4.2	33	89	5	221	12	20	19	47	1.82
3533882--3533906	12	2.1	12	100	0	50	0	28	0	72	0.86
3534081--3534127	24	2.0	24	87	8	69	38	21	14	25	1.92
3534838--3535082	20	12.2	20	87	1	258	20	18	24	36	1.95
3535069--3535151	21	4.0	21	71	6	69	26	16	22	33	1.96
3536430--3536493	23	3.0	21	76	17	51	34	1	0	64	1.03
3537061--3537156	11	8.0	11	68	20	50	58	8	3	30	1.43
3537085--3537131	15	3.3	15	70	11	53	57	10	4	27	1.51
3537061--3537137	28	3.0	27	89	10	110	57	10	2	29	1.46
3537116--3537170	24	2.2	24	84	9	67	54	9	5	30	1.54

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