genome.fa.s9462.2.7.7.80.10.50.1000.17.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  17  of  91  ( 10815 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)
3341732--3341841	34	3.3	34	76	7	93	49	8	5	37	1.56
3350593--3350632	16	2.4	17	91	8	64	62	0	2	35	1.09
3351623--3351691	3	23.0	3	100	0	138	66	0	0	33	0.92
3354363--3354395	3	11.0	3	100	0	66	33	0	0	66	0.92
3356497--3356539	13	3.3	13	100	0	86	13	6	18	60	1.55
3358967--3359027	20	3.0	20	72	11	61	55	6	4	32	1.47
3359671--3359732	30	2.1	30	100	0	124	33	3	22	40	1.70
3360171--3360267	21	5.1	18	72	16	79	36	10	9	44	1.71
3360162--3360267	39	2.7	39	85	0	131	35	10	11	42	1.75
3360945--3361000	21	2.7	21	100	0	112	25	23	19	32	1.98
3361025--3361068	21	2.1	21	95	0	79	20	27	27	25	1.99
3361386--3361486	3	33.3	3	97	2	193	66	0	0	33	0.92
3363712--3363772	23	2.7	23	81	0	86	26	24	27	21	1.99
3363995--3364054	31	2.0	30	83	9	77	36	23	3	36	1.71
3364398--3364553	64	2.4	64	80	8	158	26	20	20	32	1.97
3370655--3370715	23	2.7	23	79	5	70	27	22	26	22	1.99
3370938--3370997	31	2.0	30	83	9	77	36	23	3	36	1.71
3371341--3371496	64	2.4	64	79	10	151	26	20	19	32	1.97
3380062--3380453	189	2.1	188	89	3	601	29	19	19	32	1.96
3380242--3381170	250	3.7	250	90	0	1403	31	18	18	32	1.95
3381049--3381141	42	2.2	40	77	7	105	23	21	23	31	1.99
3381167--3381257	38	2.4	38	83	0	119	24	17	15	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381218--3381443	124	1.8	124	88	3	348	28	22	14	34	1.94
3381218--3381444	62	3.7	62	85	5	307	28	22	14	34	1.93
3382007--3382050	3	14.7	3	83	9	54	59	0	0	40	0.98
3386109--3386266	84	1.9	84	86	2	228	34	15	12	37	1.85
3389568--3389617	18	2.8	17	80	19	57	42	12	0	46	1.41
3393919--3393958	19	2.0	20	85	4	55	72	0	0	27	0.85
3394612--3395072	230	2.0	230	95	0	832	20	26	23	29	1.99
3396644--3396729	22	3.9	22	95	0	154	31	31	23	13	1.94
3401695--3401763	22	3.0	22	81	6	75	31	20	24	23	1.98
3401695--3401758	24	2.8	23	83	6	76	29	21	26	21	1.99
3407021--3407075	24	2.4	22	84	6	65	27	23	25	23	2.00
3407021--3407081	22	2.6	24	87	5	81	27	22	27	21	1.99
3407767--3407800	16	2.1	17	88	5	52	38	2	17	41	1.65
3408892--3408986	31	3.0	32	81	4	120	40	7	18	33	1.79
3412930--3413031	34	2.8	37	77	8	120	42	11	13	32	1.81
3413437--3413479	2	21.5	2	100	0	86	48	0	0	51	1.00
3413542--3413579	20	1.9	20	88	0	58	26	5	2	65	1.27
3413522--3413609	37	2.4	36	79	11	90	22	7	1	68	1.23
3416807--3416850	18	2.4	18	88	7	63	79	6	13	0	0.92
3416805--3416863	19	3.3	18	83	6	75	79	6	11	1	0.99
3417465--3417541	22	3.5	22	84	7	111	41	24	10	23	1.85
3418275--3418408	37	3.7	35	79	7	142	27	20	14	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3418342--3418402	21	3.2	21	67	26	62	27	24	11	36	1.90
3418413--3420111	106	16.0	106	93	0	2740	33	25	18	22	1.96
3421412--3421449	20	1.9	20	88	0	58	26	7	2	63	1.35
3424722--3424781	16	3.5	17	77	11	61	75	0	3	21	0.95
3424722--3424790	30	2.3	30	78	7	79	75	0	2	21	0.93
3424744--3424808	25	2.6	25	80	7	60	70	0	3	26	1.01
3424739--3424807	31	2.2	30	82	5	75	71	0	2	26	1.00
3424882--3424933	2	26.5	2	86	11	72	51	0	3	44	1.19
3424882--3424947	14	4.8	14	80	15	66	56	0	3	40	1.15
3424898--3424948	25	2.0	27	84	7	70	58	0	3	37	1.16
3424886--3424956	19	4.1	17	79	17	58	57	0	2	39	1.13
3426800--3426847	19	2.5	20	82	3	62	52	6	12	29	1.63
3428195--3428248	18	3.0	18	100	0	108	16	50	22	11	1.77
3429570--3429604	18	1.9	18	88	0	52	54	0	17	28	1.43
3430726--3430764	12	3.3	12	82	7	53	15	17	20	46	1.84
3430730--3430765	11	3.2	11	84	7	54	13	16	19	50	1.79
3432918--3432965	18	2.7	18	93	0	78	18	45	22	12	1.83
3432993--3433022	12	2.5	12	94	0	51	36	20	10	33	1.86
3434299--3434333	18	1.9	18	88	0	52	54	0	17	28	1.43
3435432--3435523	12	7.8	12	72	16	57	19	13	18	48	1.80
3435456--3435527	24	3.0	23	82	6	81	20	9	18	51	1.74
3437654--3437700	18	2.6	18	89	0	76	17	46	23	12	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3437677--3437706	13	2.3	13	94	0	51	16	43	23	16	1.87
3437728--3437757	12	2.5	12	94	0	51	36	20	10	33	1.86
3439034--3439068	18	1.9	18	88	0	52	54	0	17	28	1.43
3441849--3441912	20	3.2	20	86	0	92	21	37	26	14	1.92
3442189--3442261	35	2.2	33	85	5	92	32	15	30	21	1.94
3443619--3443987	106	3.4	106	83	5	474	23	19	23	33	1.97
3444707--3445012	65	4.5	65	75	9	227	39	11	20	29	1.87
3444707--3444878	65	2.6	67	86	2	231	38	9	21	30	1.85
3444827--3445052	36	6.5	35	75	15	191	39	12	19	27	1.88
3444839--3444930	37	2.5	36	89	1	130	41	16	20	21	1.90
3444773--3445031	138	1.9	138	87	1	385	40	12	20	27	1.88
3444861--3445118	101	2.5	100	81	4	293	39	11	18	30	1.86
3445003--3445148	65	2.2	65	77	7	152	37	9	18	34	1.83
3445965--3446058	31	2.9	32	88	4	145	38	20	10	30	1.86
3446977--3447110	69	1.9	69	89	3	207	27	14	22	35	1.94
3450589--3450627	16	2.4	17	86	4	53	74	0	5	20	1.01
3450768--3450817	19	2.6	19	84	6	66	62	0	2	36	1.07
3450766--3450812	25	2.0	23	87	8	67	61	0	2	36	1.08
3450763--3450824	20	3.1	19	80	15	63	64	0	1	33	1.03
3450761--3450860	23	4.3	23	74	16	73	64	0	5	31	1.15
3452810--3452857	17	2.7	18	87	6	71	66	0	0	33	0.92
3461011--3461089	18	4.5	17	82	4	79	27	35	18	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3461011--3461092	36	2.4	35	84	10	98	28	35	18	18	1.94
3462380--3462413	17	1.9	18	88	5	52	11	35	0	52	1.38
3462798--3462867	30	2.3	30	82	0	86	28	30	24	17	1.97
3462851--3462891	19	2.2	19	86	0	55	31	21	34	12	1.91
3463158--3463263	45	2.4	45	86	0	140	43	9	6	40	1.63
3475060--3475107	23	2.1	23	92	0	78	37	6	18	37	1.76
3475795--3475835	19	2.2	19	100	0	82	34	14	9	41	1.79
3475814--3476382	182	3.1	182	90	1	917	28	16	11	43	1.83
3476253--3476716	112	4.1	112	93	0	750	26	15	12	45	1.82
3479013--3479079	27	2.7	24	78	15	73	59	0	1	38	1.06
3479273--3479326	23	2.3	25	78	18	71	33	1	0	64	1.04
3479269--3479316	14	3.4	15	78	16	50	31	2	0	66	1.03
3482160--3482208	23	2.1	23	88	0	71	53	18	2	26	1.56
3484124--3484148	2	12.5	2	100	0	50	52	0	0	48	1.00
3486061--3486099	21	1.9	20	89	5	60	20	5	5	69	1.28
3487895--3487957	29	2.2	29	100	0	126	41	6	17	34	1.75
3487895--3487973	29	2.7	29	90	2	95	41	5	18	34	1.73
3495177--3495234	2	29.0	2	100	0	116	50	0	0	50	1.00
3498612--3498653	21	2.0	21	90	0	66	40	16	40	2	1.62
3499153--3499282	43	3.0	43	87	0	179	31	16	19	32	1.94
3499168--3499366	43	4.6	42	81	2	164	28	22	17	31	1.96
3513432--3513482	20	2.5	20	90	0	84	27	27	5	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3516374--3516402	13	2.1	14	93	6	51	41	6	13	37	1.72
3517890--3517946	24	2.4	21	74	23	51	43	0	5	50	1.24
3524683--3524722	16	2.5	16	95	0	71	35	45	12	7	1.70
3528069--3528099	6	5.2	6	100	0	62	16	0	83	0	0.64
3546433--3546540	33	3.3	33	79	5	128	50	34	2	12	1.56
3557421--3557461	20	2.0	20	85	0	55	24	12	0	63	1.28
3559406--3559430	2	12.5	2	100	0	50	52	0	0	48	1.00
3561395--3561453	23	2.6	23	88	0	82	25	23	27	23	2.00
3565254--3565294	21	1.9	22	85	14	59	39	2	4	53	1.35
3568239--3568314	36	2.1	37	95	2	136	56	7	6	28	1.53

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91