genome.fa.s9625.2.7.7.80.10.50.1000.10.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  10  of  25  ( 2922 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)
3149695--3149741	21	2.4	19	80	20	53	4	14	2	78	0.99
3151808--3151858	21	2.6	19	78	9	57	25	11	13	49	1.76
3156291--3156335	19	2.4	19	100	0	90	15	17	26	40	1.90
3163993--3164055	21	3.0	21	83	2	81	15	23	36	23	1.94
3172353--3172465	58	1.9	58	85	3	156	29	17	25	27	1.98
3191305--3191552	81	3.1	81	85	1	300	29	21	12	36	1.90
3191963--3192137	94	1.9	94	86	4	255	24	23	13	39	1.90
3198171--3198414	81	3.0	81	83	3	269	33	21	11	34	1.89
3198793--3198976	94	1.9	95	83	3	237	23	21	15	39	1.92
3199586--3199610	5	5.0	5	100	0	50	20	20	0	60	1.37
3200023--3200097	38	2.0	38	89	5	116	29	10	17	42	1.83
3214033--3214084	26	2.0	26	96	0	95	40	19	9	30	1.83
3214041--3214097	26	2.2	26	87	0	78	43	19	7	29	1.77
3217720--3217773	24	2.2	26	80	12	60	40	18	16	24	1.90
3218417--3218483	33	2.0	33	82	5	82	53	0	1	44	1.09
3218449--3218479	15	2.0	16	93	6	55	48	0	0	51	1.00
3225507--3225620	35	3.2	35	75	10	106	25	21	17	35	1.95
3225505--3225584	36	2.2	37	78	12	96	23	20	20	36	1.95
3229864--3229982	35	3.4	35	72	3	105	26	16	20	36	1.93
3232484--3232531	19	2.5	19	89	0	78	25	39	12	22	1.89
3232484--3232543	19	3.2	18	80	15	68	23	36	15	25	1.93
3236348--3236380	16	2.1	16	94	0	57	18	42	18	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3243908--3243934	2	13.5	2	100	0	54	48	0	0	51	1.00
3272684--3272725	19	2.3	18	80	8	50	52	0	2	45	1.13
3272962--3273003	19	2.3	18	80	8	50	52	0	2	45	1.13
3276452--3276499	19	2.6	18	80	9	53	29	16	25	29	1.97
3281793--3281827	18	1.9	18	88	0	52	34	25	20	20	1.96
3286709--3286746	20	1.9	20	94	0	67	21	23	23	31	1.98
3287724--3287948	58	3.9	58	74	7	177	37	9	22	30	1.86
3287724--3288072	59	6.0	59	70	10	198	37	9	22	30	1.87
3288190--3288223	17	1.9	18	88	5	52	38	8	17	35	1.81
3289552--3289622	36	2.0	36	91	0	115	28	22	18	30	1.97
3301052--3301122	36	2.0	36	91	0	115	26	23	19	29	1.98
3305027--3305177	44	3.4	44	91	0	248	44	11	20	23	1.84
3305026--3305211	44	4.2	44	86	4	232	43	11	20	24	1.84
3308089--3308299	54	3.9	53	88	2	269	31	18	16	34	1.92
3308143--3308671	55	9.7	55	83	4	553	33	18	17	30	1.95
3308957--3309092	46	2.9	46	81	3	139	50	6	19	24	1.71
3308971--3309092	46	2.6	46	84	1	154	50	6	18	24	1.70
3314838--3315114	44	6.3	44	93	0	437	41	14	22	20	1.89
3318954--3319022	13	5.5	13	71	10	54	27	2	42	27	1.70
3324658--3324726	13	5.5	13	71	10	54	27	2	42	27	1.70
3327728--3328132	58	7.0	57	87	5	530	35	20	10	34	1.86
3328491--3328530	19	2.1	19	85	0	53	22	17	15	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3328547--3328599	20	2.7	20	82	14	65	18	26	16	37	1.93
3329742--3329783	21	2.0	21	100	0	84	14	9	28	47	1.75
3332456--3332853	45	9.0	45	83	7	467	37	7	22	32	1.83
3332456--3332853	127	3.0	132	82	7	459	37	7	22	32	1.83
3332469--3332792	172	1.9	171	90	1	515	37	8	23	31	1.84
3346836--3346900	23	3.0	22	91	6	105	21	32	27	18	1.97
3349192--3349224	11	2.8	12	90	4	50	42	15	3	39	1.62
3351209--3351635	53	8.0	53	85	3	500	37	12	22	27	1.90
3351202--3351695	113	4.6	107	82	6	498	37	11	22	28	1.89
3351322--3351635	52	6.0	53	88	0	418	36	12	23	27	1.91
3351357--3351635	26	10.7	26	62	22	68	37	11	23	27	1.90
3351594--3351753	60	2.7	60	87	4	225	37	11	23	27	1.90
3356924--3357245	53	6.0	53	75	11	262	36	13	22	27	1.91
3356916--3357263	113	3.2	113	76	11	294	37	12	21	28	1.91
3357067--3357245	52	3.4	52	85	0	232	39	11	22	26	1.89
3357761--3358248	54	9.1	54	79	8	401	28	16	17	37	1.91
3357755--3358248	108	4.6	107	80	7	511	28	16	17	37	1.92
3357761--3358240	162	3.0	160	83	6	580	28	16	17	37	1.92
3363444--3363886	54	8.2	54	88	2	541	27	17	19	35	1.94
3363436--3363886	162	2.8	162	87	2	622	27	17	19	35	1.94
3367340--3367399	31	2.0	31	90	3	95	33	10	23	33	1.88
3370593--3370628	15	2.5	14	86	8	54	16	8	0	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3370593--3370640	24	2.1	22	88	7	69	18	8	0	72	1.08
3370920--3371005	31	2.8	31	90	0	109	24	15	23	37	1.93
3375919--3375969	22	2.4	21	80	6	57	29	13	33	23	1.93
3377216--3377267	24	2.1	25	89	3	79	44	13	3	38	1.62
3379238--3379284	23	2.0	25	83	8	62	48	6	6	38	1.54
3382671--3382729	23	2.6	22	78	5	57	27	28	23	20	1.99
3385166--3385203	20	1.9	20	94	0	67	31	34	15	18	1.92
3385214--3385372	65	2.5	64	85	5	205	30	22	18	29	1.97
3393780--3393834	24	2.3	24	77	0	65	50	3	21	23	1.64
3395516--3395568	17	3.2	16	74	15	54	69	3	7	18	1.28
3399531--3400199	226	3.0	225	86	1	955	39	12	15	32	1.85
3400380--3400833	201	2.3	199	84	3	572	35	13	12	38	1.83
3400380--3400922	201	2.7	198	81	7	526	35	13	12	37	1.83
3401238--3401292	26	2.3	23	84	12	67	45	12	16	25	1.83
3404089--3404132	20	2.1	21	91	4	72	47	9	15	27	1.76
3403783--3404224	201	2.2	199	82	4	550	34	13	12	39	1.82
3403787--3404313	201	2.6	200	80	7	493	33	13	14	38	1.85
3416595--3416628	17	1.9	17	88	5	50	50	5	5	38	1.51
3417693--3417732	18	2.2	18	86	0	53	30	17	25	27	1.97
3417699--3417741	18	2.4	18	96	0	77	32	9	32	25	1.88
3418333--3418372	21	1.9	21	94	0	71	30	10	20	40	1.85
3418333--3418389	21	2.7	21	86	0	69	26	8	19	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3418402--3419304	179	4.9	178	81	9	927	33	13	14	38	1.85
3418760--3419126	200	1.8	200	91	4	605	33	13	14	38	1.86
3422152--3422202	18	2.8	18	84	0	75	41	17	1	39	1.61
3424073--3424111	12	3.2	12	88	0	51	5	38	0	56	1.22
3425359--3425822	229	2.0	228	89	1	696	35	20	8	36	1.82
3426071--3426442	197	1.9	194	83	3	487	30	16	14	39	1.88
3428133--3428476	171	2.0	172	95	1	620	33	16	4	45	1.66
3428836--3428877	18	2.3	18	84	8	50	30	4	2	61	1.29
3438267--3438295	2	14.5	2	100	0	58	51	0	0	48	1.00
3445214--3445316	44	2.4	42	79	7	102	31	13	24	31	1.94
3445243--3445403	44	3.7	43	77	5	128	32	14	21	31	1.94
3450663--3450696	15	2.3	15	100	0	68	35	35	5	23	1.79
3454526--3454581	22	2.6	22	72	13	62	32	19	7	41	1.79
3468404--3468444	21	1.9	22	95	5	75	26	19	12	41	1.87
3476609--3476638	3	10.0	3	100	0	60	66	0	0	33	0.92
3482579--3482701	40	3.1	37	80	14	131	75	0	22	0	0.90
3482579--3482700	14	8.9	14	77	15	96	75	0	22	0	0.91
3482587--3482701	33	3.5	32	76	17	110	75	0	22	0	0.91
3482579--3482701	13	9.2	13	72	19	76	75	0	22	0	0.90
3484438--3485468	257	4.0	257	86	1	1379	32	15	16	34	1.91
3484952--3485069	42	2.9	41	81	7	141	22	23	23	30	1.99
3485216--3485305	42	2.2	41	81	2	99	21	22	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3485905--3486468	38	14.7	38	79	8	574	24	21	17	37	1.94
3486433--3486900	45	10.4	44	80	3	427	19	17	18	43	1.88
3487464--3488147	231	3.0	231	81	4	763	29	17	18	34	1.95
3491550--3491607	20	2.6	22	86	10	75	31	18	22	27	1.97
3492441--3492536	39	2.5	39	96	0	183	30	21	16	31	1.96
3492441--3492537	13	7.5	13	88	0	140	29	21	17	30	1.96
3495107--3495229	59	2.1	60	98	1	239	39	24	15	20	1.91
3498355--3498452	2	50.5	2	91	6	166	50	1	0	48	1.07
3498839--3498907	23	3.0	23	78	0	84	18	24	26	30	1.98
3500802--3500862	30	2.0	30	83	3	77	40	11	16	31	1.84

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