genome.fa.s8228.2.7.7.80.10.50.1000.19.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

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

This is table  19  of  20  ( 2363 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)
3348956--3349042	45	1.9	45	90	0	138	28	22	22	25	1.99
3351128--3351243	3	38.3	3	83	11	148	28	2	0	68	1.02
3351128--3351243	16	7.2	16	83	9	148	28	2	0	68	1.02
3351128--3351243	19	6.4	18	81	13	130	28	2	0	68	1.02
3351128--3351243	28	4.3	27	84	10	141	28	2	0	68	1.02
3352926--3352963	2	19.0	2	100	0	76	50	0	0	50	1.00
3355219--3355316	34	2.8	34	80	9	117	17	12	10	60	1.59
3357156--3357205	14	3.6	14	76	15	50	76	0	22	2	0.89
3358262--3358297	18	2.0	18	94	0	63	47	19	22	11	1.80
3358960--3359133	43	4.0	43	89	0	258	27	31	8	33	1.86
3360707--3360922	54	4.0	54	87	1	299	37	13	23	26	1.92
3361991--3362160	36	4.7	36	68	5	110	30	18	11	40	1.86
3361991--3362207	73	3.0	73	88	4	305	31	18	12	37	1.88
3362094--3362214	36	3.3	35	70	7	107	33	19	14	33	1.91
3362402--3362443	17	2.5	17	100	0	84	57	4	19	19	1.58
3362282--3362566	140	2.0	140	93	0	480	41	15	18	24	1.90
3362419--3362825	123	3.3	122	91	2	636	39	16	18	25	1.91
3363202--3363299	3	33.3	3	93	4	173	31	1	0	67	0.98
3363760--3363804	16	2.8	16	75	3	54	60	35	4	0	1.17
3364319--3364343	13	1.9	13	100	0	50	16	4	8	72	1.24
3365121--3365180	25	2.5	23	77	17	59	50	5	0	45	1.23
3375954--3376600	182	3.6	180	86	3	832	41	14	16	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3378861--3378905	9	5.0	9	80	0	54	26	6	53	13	1.64
3378873--3378916	18	2.4	18	88	7	63	25	6	50	18	1.71
3379096--3379227	66	2.0	66	81	0	156	28	1	43	26	1.64
3379331--3379388	18	3.2	18	92	0	98	55	0	39	5	1.22
3383597--3384666	199	5.4	199	87	3	1547	39	14	15	31	1.87
3383628--3384666	386	2.7	385	89	2	1569	38	14	15	31	1.88
3385862--3385971	47	2.4	45	82	10	125	33	20	6	39	1.78
3386422--3386932	255	2.0	255	98	0	995	36	18	10	34	1.84
3393890--3393969	23	3.8	21	83	8	90	23	32	26	17	1.97
3393890--3393951	23	2.8	23	90	4	92	22	32	25	19	1.97
3395023--3395053	15	2.0	16	93	6	55	41	6	25	25	1.79
3397764--3397810	15	2.9	15	82	14	58	27	38	2	31	1.69
3401774--3401804	15	2.1	15	100	0	62	48	19	6	25	1.72
3401914--3402453	199	2.7	199	89	1	787	40	13	14	32	1.84
3402273--3402631	177	2.0	177	86	2	506	41	13	14	30	1.84
3402438--3402849	198	2.1	199	87	3	600	40	14	13	31	1.84
3405145--3405194	23	2.2	23	85	0	64	32	16	10	42	1.81
3404999--3405855	158	5.4	158	93	1	1425	31	13	12	41	1.82
3405303--3405352	23	2.2	23	85	0	64	32	16	10	42	1.81
3405450--3405500	23	2.2	23	89	0	75	31	21	9	37	1.86
3405460--3405509	23	2.2	23	92	0	82	32	18	12	38	1.87
3405002--3405855	315	2.7	315	93	1	1426	31	13	12	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3405618--3405667	23	2.2	23	85	0	64	36	16	10	38	1.82
3405776--3405825	23	2.2	23	85	0	64	32	14	12	42	1.82
3405758--3405931	87	2.0	87	90	0	276	33	14	10	41	1.79
3407348--3407511	83	2.0	85	92	2	278	37	3	16	42	1.66
3407347--3407511	55	2.9	55	91	7	269	37	3	16	42	1.66
3407346--3407511	28	5.9	28	92	2	262	37	3	16	42	1.66
3407345--3407533	83	2.3	82	82	7	238	39	3	14	42	1.62
3415367--3415401	17	1.9	19	88	11	56	28	14	2	54	1.54
3421105--3421158	19	2.6	22	72	19	62	22	20	35	22	1.96
3423888--3423951	23	2.8	22	81	9	74	29	17	21	31	1.96
3432151--3432196	19	2.5	19	82	3	58	36	2	2	58	1.22
3432245--3432277	17	1.9	17	100	0	66	42	33	12	12	1.79
3432459--3432508	20	2.5	20	100	0	100	26	26	22	26	2.00
3445016--3445082	35	1.9	35	100	0	134	49	17	16	16	1.80
3452714--3452738	2	12.5	2	100	0	50	52	0	0	48	1.00
3454152--3454403	93	2.7	92	80	2	315	28	17	22	30	1.97
3454519--3454783	74	3.5	74	79	7	239	41	12	15	30	1.85
3454619--3454783	36	4.4	38	74	7	133	44	13	13	27	1.82
3454784--3455419	38	17.1	37	70	13	342	38	13	16	31	1.87
3454808--3455416	74	8.2	74	86	5	834	38	13	16	31	1.87
3454622--3455393	146	4.9	161	83	8	706	40	13	15	30	1.86
3454951--3455416	73	6.4	73	89	2	668	38	13	16	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3454794--3455417	146	4.2	146	86	4	811	39	13	15	31	1.87
3458177--3458234	29	1.9	31	86	6	84	56	8	12	22	1.62
3464403--3464467	31	2.1	31	94	2	114	32	24	6	36	1.80
3469488--3469530	22	2.0	22	85	0	59	39	13	18	27	1.89
3470136--3470214	23	3.4	22	70	16	70	34	26	20	18	1.96
3470462--3470526	31	2.1	31	94	2	114	32	24	6	36	1.80
3470926--3470979	20	2.7	20	100	0	108	25	29	16	27	1.97
3470967--3471046	31	2.6	31	95	0	142	21	25	20	33	1.97
3473130--3473167	15	2.5	15	95	0	67	42	15	5	36	1.70
3478101--3478138	19	2.0	19	90	10	60	39	0	0	60	0.97
3484365--3484400	18	2.0	19	89	10	58	36	0	0	63	0.94
3484979--3485108	29	4.5	29	94	0	224	56	3	4	35	1.35
3484979--3485105	58	2.2	58	100	0	254	55	3	4	36	1.36
3489502--3489578	39	2.0	39	92	0	127	24	19	9	46	1.79
3490605--3490657	20	2.7	20	79	5	63	32	15	26	26	1.95
3491160--3491197	15	2.5	15	91	0	58	23	7	23	44	1.79
3491839--3491863	13	1.9	13	100	0	50	40	4	8	48	1.51
3493185--3493290	40	2.7	40	96	0	194	35	16	17	29	1.93
3498881--3498914	3	11.0	3	93	6	59	32	2	0	64	1.08
3499552--3499582	11	2.8	11	90	0	53	0	0	9	90	0.46
3499551--3499585	17	2.1	17	88	0	52	0	0	14	85	0.59
3501460--3501616	70	2.2	69	76	6	154	45	6	11	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3502627--3502757	58	2.2	60	81	14	164	33	4	33	28	1.78
3507552--3507616	31	2.1	31	97	0	121	44	15	13	26	1.84
3508396--3508428	2	16.5	2	100	0	66	51	0	0	48	1.00
3515175--3515212	18	2.1	18	95	0	67	18	47	21	13	1.82
3515205--3515235	7	4.4	7	91	0	53	12	29	29	29	1.94
3515235--3515293	30	2.0	30	93	0	100	30	5	25	38	1.77
3515248--3515424	29	6.1	29	76	9	103	36	2	14	45	1.60
3516104--3516207	24	4.3	24	87	0	136	22	16	19	42	1.89
3522388--3522413	13	2.0	13	100	0	52	15	46	23	15	1.83
3522414--3522478	29	2.3	28	91	2	103	24	7	27	40	1.82
3522496--3522582	29	3.1	29	82	6	83	47	0	12	40	1.42
3522529--3522583	29	1.9	29	88	3	85	32	0	16	50	1.45
3523296--3523354	12	4.8	13	70	14	54	23	16	22	37	1.94
3523296--3523378	24	3.5	24	94	0	139	25	14	20	39	1.90
3523311--3523396	24	3.6	24	85	3	93	26	16	17	39	1.90
3523296--3523399	48	2.2	48	85	3	138	24	17	19	39	1.92
3526169--3526230	13	4.9	12	71	9	52	58	3	6	32	1.40
3526164--3526242	38	2.1	38	95	0	140	54	6	10	29	1.58
3538211--3538235	13	1.9	13	100	0	50	0	16	0	84	0.63
3542399--3542473	33	2.3	34	88	4	109	56	4	13	26	1.55
3544069--3544845	220	3.5	219	84	2	950	26	13	24	34	1.93
3547879--3547908	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553196--3553288	32	2.8	33	81	17	111	49	4	15	31	1.63
3554941--3555285	170	2.0	169	87	3	496	44	9	11	34	1.74
3560074--3560105	10	3.1	11	86	13	50	34	0	0	65	0.93
3561867--3561912	21	2.2	21	88	0	65	47	17	23	10	1.79
3561874--3561916	21	2.0	21	100	0	86	44	23	18	13	1.86
3565739--3565793	7	8.3	7	91	4	71	36	0	63	0	0.95
3565741--3565808	6	10.8	6	86	10	84	33	0	66	0	0.92
3567985--3568009	12	2.1	12	100	0	50	24	0	0	76	0.80
3568141--3568190	22	2.2	23	96	3	93	34	4	14	48	1.62
3571230--3571262	14	2.4	14	94	0	57	21	6	12	60	1.53

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