genome.fa.s7744.2.7.7.80.10.50.1000.14.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: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4276731

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

This is table  14  of  16  ( 1862 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)
3321573--3321616	14	3.1	14	83	6	52	27	0	29	43	1.55
3325805--3325843	13	2.9	13	92	3	60	0	20	2	76	0.90
3328139--3328490	2	173.0	2	67	19	106	40	5	3	50	1.43
3330518--3330584	31	2.2	31	83	0	80	20	23	5	49	1.71
3330556--3330634	40	2.0	40	87	0	113	18	18	8	53	1.70
3335825--3336169	138	2.5	138	83	0	424	45	14	13	26	1.83
3337244--3337283	20	2.0	21	90	5	64	27	0	30	42	1.56
3337901--3337960	23	2.5	23	81	13	68	11	13	0	75	1.06
3338276--3338393	44	2.7	44	76	2	121	29	18	22	29	1.97
3338585--3338727	66	2.2	66	79	0	160	38	9	14	37	1.78
3340814--3341405	91	6.5	91	84	4	709	25	20	15	38	1.92
3340814--3341425	182	3.4	181	85	3	797	25	20	15	38	1.92
3341725--3341990	39	7.0	38	87	2	234	37	16	18	27	1.92
3341797--3341990	39	5.0	39	90	0	280	36	18	18	27	1.93
3342345--3342406	13	4.6	13	80	11	72	40	14	22	22	1.90
3342350--3342406	7	8.6	7	74	18	59	40	14	24	21	1.90
3342905--3343030	47	2.8	45	85	8	166	30	20	7	40	1.81
3347964--3347990	13	2.1	13	100	0	54	37	22	7	33	1.82
3350002--3350102	47	2.2	46	89	3	150	31	22	5	39	1.78
3354694--3354730	13	2.6	15	79	16	51	48	8	27	16	1.74
3356782--3356829	22	2.1	23	84	7	62	43	2	2	52	1.24
3356757--3356810	23	2.2	24	78	18	58	48	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3356776--3356836	31	1.9	32	86	3	88	45	1	1	50	1.21
3356966--3357019	19	2.9	19	83	8	58	46	1	0	51	1.11
3357117--3357177	32	1.9	33	80	9	74	52	3	0	44	1.17
3357140--3357208	17	4.1	17	73	12	63	59	0	0	40	0.97
3357150--3357205	20	2.8	20	78	13	69	58	0	0	41	0.98
3357322--3357357	14	2.6	14	90	0	54	38	8	11	41	1.71
3358149--3358752	54	11.2	53	86	1	308	38	17	12	31	1.86
3358187--3358752	162	3.5	162	87	1	780	38	18	11	31	1.86
3358187--3358746	108	5.2	108	86	2	750	38	18	11	31	1.86
3359186--3359262	21	3.7	21	94	0	136	38	20	12	27	1.89
3361185--3361668	246	2.0	244	92	1	799	30	20	14	34	1.92
3364292--3364870	54	10.9	54	85	3	723	38	18	11	31	1.86
3365192--3365234	20	2.2	20	95	0	77	16	30	16	37	1.91
3366093--3366126	15	2.2	16	89	5	52	38	5	17	38	1.74
3368180--3368448	140	1.9	138	79	8	296	27	12	13	46	1.79
3374257--3374294	19	2.0	19	100	0	76	31	26	21	21	1.98
3374905--3375349	131	3.4	130	83	1	460	31	20	17	30	1.96
3375137--3375583	240	1.9	241	87	1	664	29	19	20	31	1.97
3375637--3375810	91	1.9	89	89	2	267	29	21	18	30	1.97
3375711--3376118	135	3.1	132	80	5	430	33	18	17	30	1.94
3390792--3390844	21	2.5	21	81	6	63	50	5	18	24	1.68
3399941--3399972	15	2.1	16	94	5	57	15	0	31	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3403106--3403158	21	2.5	21	81	6	63	50	5	18	24	1.68
3408359--3408817	227	2.0	227	100	0	918	35	12	21	30	1.90
3412694--3412747	23	2.4	23	90	3	83	24	35	22	18	1.96
3412688--3412748	23	2.7	22	82	5	77	24	31	24	19	1.98
3412731--3412765	18	1.9	18	88	0	52	25	31	28	14	1.95
3416574--3416618	19	2.4	19	81	7	56	53	8	20	17	1.70
3420709--3420755	18	2.6	19	86	10	71	61	4	6	27	1.39
3425480--3425513	13	2.8	12	86	8	50	82	2	2	11	0.89
3425480--3425518	19	2.1	19	90	0	60	82	2	2	12	0.89
3425480--3425518	6	6.2	6	82	11	51	82	2	2	12	0.89
3427014--3427552	55	9.8	55	88	2	762	36	10	16	36	1.83
3437025--3437063	20	1.9	21	84	5	53	56	10	5	28	1.54
3439691--3439739	11	4.5	11	84	5	73	16	2	20	61	1.44
3439691--3439739	21	2.3	22	89	3	73	16	2	20	61	1.44
3440954--3441002	11	4.5	11	74	5	55	18	4	18	59	1.53
3443234--3443262	11	2.5	12	88	11	51	65	0	6	27	1.18
3443965--3444007	18	2.5	17	85	7	61	30	37	16	16	1.91
3445957--3445988	2	16.0	2	100	0	64	50	0	0	50	1.00
3446056--3446082	14	1.9	14	100	0	54	37	11	14	37	1.82
3446065--3446102	20	1.9	20	88	0	58	31	15	13	39	1.86
3447740--3447842	35	2.9	34	88	5	143	35	19	24	20	1.95
3447753--3447852	35	2.9	35	92	0	155	35	20	22	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3447957--3447997	20	2.0	20	90	0	64	34	9	19	36	1.85
3449432--3449568	27	5.6	26	65	23	91	43	11	22	22	1.86
3449399--3449607	47	4.4	47	87	2	285	44	11	22	22	1.84
3449399--3449607	94	2.2	94	92	1	339	44	11	22	22	1.84
3450370--3450455	33	2.6	33	96	0	154	52	12	12	22	1.73
3450538--3450587	22	2.3	23	82	10	68	30	14	12	44	1.81
3453925--3454010	32	2.8	31	79	6	95	27	30	27	13	1.95
3457393--3457446	20	2.7	20	80	11	74	37	11	12	38	1.79
3458742--3458783	20	2.0	21	90	4	68	16	11	33	38	1.86
3459148--3459194	20	2.4	20	79	10	53	40	2	8	48	1.45
3459758--3459816	13	4.5	13	84	0	64	30	22	16	30	1.96
3459794--3460007	85	2.5	85	86	6	283	28	21	18	32	1.96
3459856--3460046	85	2.2	84	85	3	231	29	20	18	31	1.96
3460064--3460099	2	18.0	2	100	0	72	50	0	0	50	1.00
3462456--3462538	39	2.1	40	86	6	116	2	36	7	54	1.41
3466416--3466471	15	3.7	15	85	2	67	8	19	10	60	1.55
3467778--3467838	29	2.1	28	96	3	113	47	13	14	24	1.80
3470909--3470949	19	2.1	20	86	4	57	36	14	7	41	1.74
3471429--3471461	15	2.2	15	100	0	66	12	21	0	66	1.23
3471425--3471467	15	2.5	18	75	25	56	9	20	0	69	1.15
3473116--3473162	20	2.4	20	79	10	53	40	2	8	48	1.45
3473944--3473973	10	3.0	10	95	0	51	50	6	0	43	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473971--3473995	2	12.5	2	100	0	50	52	48	0	0	1.00
3473995--3474023	2	15.0	2	92	7	51	51	0	0	48	1.00
3480005--3480075	24	2.9	24	75	23	67	11	16	4	67	1.36
3480027--3480065	11	3.6	11	79	6	53	2	20	2	74	1.06
3480333--3480372	16	2.3	19	79	12	50	62	0	17	20	1.33
3481010--3481246	116	2.0	116	100	0	474	28	18	21	30	1.97
3483120--3483171	2	26.0	2	100	0	104	50	0	0	50	1.00
3485247--3485481	121	2.0	114	92	5	389	22	15	24	38	1.92
3491434--3491467	3	11.7	3	93	6	61	35	0	0	64	0.94
3492493--3492523	16	1.9	16	93	0	53	19	6	0	74	1.03
3493247--3493285	18	2.1	19	90	4	62	33	2	2	61	1.23
3498949--3498987	20	2.0	20	89	0	60	33	23	10	33	1.88
3505921--3506283	179	2.0	179	96	0	672	19	24	23	32	1.97
3508725--3508764	18	2.1	20	86	9	57	32	2	2	62	1.22
3514513--3514550	18	2.1	18	95	0	67	34	36	7	21	1.82
3520784--3520821	18	2.1	18	95	0	67	34	36	7	21	1.82
3521990--3522063	37	2.0	37	100	0	148	32	21	10	35	1.88
3526230--3526395	69	2.4	69	91	0	260	39	20	13	26	1.90
3528001--3528055	18	2.7	21	76	23	64	49	1	5	43	1.36
3528975--3529018	23	1.9	23	81	9	54	56	0	0	43	0.99
3529176--3529210	16	2.2	16	89	0	52	42	11	14	31	1.81
3529207--3529257	21	2.4	21	90	0	84	50	17	7	23	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531392--3531515	51	2.5	51	86	4	162	16	33	31	18	1.93
3531626--3531666	10	4.1	10	84	12	57	31	29	0	39	1.57
3531790--3531992	105	1.9	106	90	1	327	33	9	9	47	1.68
3533892--3533944	3	17.7	3	92	0	88	35	30	32	1	1.69
3537687--3537807	49	2.4	51	90	5	185	28	23	23	24	2.00
3537820--3537946	51	2.5	50	79	1	128	19	29	33	18	1.95
3542095--3542154	29	2.1	29	93	3	104	28	11	20	40	1.87
3543811--3543849	12	3.2	12	85	7	51	30	5	23	41	1.76
3543819--3544014	4	48.8	4	69	14	100	32	5	20	41	1.74
3544027--3544068	17	2.5	17	100	0	84	47	23	4	23	1.70

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