genome.fa.s9462.2.7.7.80.10.50.1000.15.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  15  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)
2984122--2984315	41	4.7	41	76	8	169	25	19	19	36	1.95
2984446--2984608	42	3.9	41	75	13	143	33	20	17	29	1.95
2984354--2984588	85	2.8	82	80	6	267	33	19	16	30	1.94
2986069--2986108	21	2.0	20	85	5	53	32	15	7	45	1.74
2986111--2986148	20	1.9	20	100	0	76	42	15	10	31	1.81
2989946--2990054	30	3.6	30	78	9	98	61	25	10	2	1.41
2990332--2990377	22	2.1	22	95	0	83	30	15	4	50	1.63
2995694--2995932	120	2.0	120	97	0	451	34	24	16	24	1.95
3000680--3000733	24	2.2	25	93	6	101	35	20	14	29	1.93
3003832--3003934	20	5.1	20	75	2	89	41	11	19	27	1.86
3003842--3003919	41	1.9	41	89	0	120	41	12	19	26	1.87
3005387--3005425	16	2.4	16	86	0	60	30	5	20	43	1.73
3005126--3005657	280	1.9	280	97	0	1010	40	13	11	35	1.80
3005878--3005924	23	2.0	23	87	0	67	38	21	4	36	1.73
3006134--3006227	21	4.3	23	74	14	90	32	24	22	20	1.97
3006135--3006219	44	1.9	44	92	4	145	30	25	22	21	1.98
3009543--3009612	20	3.5	20	82	1	79	35	11	20	32	1.88
3011138--3011172	17	2.1	17	88	0	52	68	5	25	0	1.11
3012995--3013042	20	2.4	20	82	0	51	31	10	25	33	1.89
3018181--3018609	199	2.1	200	86	4	589	38	13	13	33	1.85
3021365--3021452	21	4.2	21	77	0	95	25	18	22	34	1.96
3021363--3021446	42	2.0	42	92	0	141	25	19	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3024995--3025103	21	5.2	21	77	4	103	24	16	22	36	1.94
3025006--3025103	42	2.3	42	82	0	124	26	15	20	37	1.92
3025114--3025181	23	3.0	23	89	4	102	17	30	25	26	1.97
3025956--3026567	193	3.1	196	80	8	704	36	13	14	35	1.86
3026902--3027510	226	2.7	225	87	1	844	30	15	13	40	1.86
3030882--3030950	32	2.2	32	91	0	111	27	28	21	21	1.99
3031965--3032145	90	2.0	90	94	0	317	23	15	26	34	1.95
3035660--3035704	2	22.5	2	100	0	90	48	0	0	51	1.00
3040563--3040648	39	2.2	39	79	4	93	31	18	24	25	1.98
3040584--3040670	39	2.2	39	79	4	95	28	16	26	28	1.97
3042199--3042431	110	2.1	109	87	2	324	29	9	18	42	1.82
3042199--3042436	52	4.4	54	73	10	182	29	9	18	42	1.82
3043856--3043970	24	4.8	24	87	4	160	40	19	15	24	1.90
3043832--3043987	48	3.2	49	79	3	156	44	19	12	23	1.84
3043832--3043987	72	2.2	72	79	4	181	44	19	12	23	1.84
3046397--3046438	13	3.2	13	100	0	84	14	21	47	16	1.82
3055725--3055802	21	3.7	21	73	0	66	28	15	16	39	1.89
3059056--3059109	20	2.7	20	91	0	90	31	24	22	22	1.98
3061327--3061367	21	2.0	21	90	0	64	34	9	7	48	1.64
3061505--3061551	14	3.3	14	77	14	51	36	6	2	55	1.37
3068582--3068757	54	3.3	54	86	0	235	28	20	26	25	1.99
3073187--3073338	78	2.0	77	81	3	180	36	11	15	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3076378--3076491	33	3.5	33	80	4	122	18	4	27	50	1.66
3077321--3077382	3	19.7	3	87	9	88	37	0	0	62	0.95
3077321--3077382	10	6.6	9	85	10	88	37	0	0	62	0.95
3077321--3077382	13	4.8	13	96	4	117	37	0	0	62	0.95
3077321--3077382	16	3.9	15	87	10	88	37	0	0	62	0.95
3079642--3079708	27	2.4	27	85	2	80	49	16	10	23	1.77
3082679--3082716	12	3.0	13	84	7	51	50	5	10	34	1.59
3083185--3083286	43	2.3	43	86	5	143	29	16	21	32	1.95
3083220--3083289	21	3.2	21	65	21	54	27	15	20	37	1.93
3093699--3093950	45	5.6	45	89	0	387	38	7	22	30	1.83
3094380--3094420	21	2.0	21	85	9	57	26	26	19	26	1.99
3096752--3096854	8	12.8	8	77	16	90	83	0	12	3	0.78
3096743--3096854	11	9.5	11	73	18	82	83	0	12	4	0.80
3096754--3096854	1	101.0	1	74	0	58	84	0	11	3	0.76
3100566--3100680	61	1.9	61	85	10	164	26	16	25	32	1.96
3100790--3100996	45	4.6	45	92	1	337	39	7	22	30	1.82
3101863--3101915	21	2.5	21	100	0	106	52	5	24	16	1.65
3104004--3104052	22	2.2	22	85	3	62	55	12	0	32	1.37
3103992--3104624	54	12.4	54	77	17	481	52	12	0	34	1.39
3104087--3104280	22	8.7	22	72	17	141	52	13	0	34	1.41
3104056--3104175	48	2.5	48	98	0	231	52	17	0	30	1.45
3104002--3104653	76	8.3	76	73	19	426	52	12	0	34	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3104290--3104380	22	4.1	21	76	14	94	52	15	0	31	1.43
3104396--3104451	18	3.4	18	67	23	59	53	14	0	32	1.41
3104454--3104547	22	4.0	22	81	17	116	51	12	0	36	1.40
3104507--3104555	22	2.2	22	85	3	62	55	12	0	32	1.37
3104559--3104601	22	2.0	22	100	0	86	51	9	0	39	1.34
3104561--3104609	22	2.2	22	88	3	71	55	10	0	34	1.34
3104604--3104732	15	8.5	15	75	15	122	48	2	1	47	1.24
3104653--3104732	29	2.7	30	86	3	108	47	0	2	50	1.14
3105033--3105111	10	8.4	9	84	5	79	83	1	6	8	0.86
3105011--3105122	30	3.9	28	79	14	106	81	0	8	9	0.93
3105024--3105136	20	5.8	18	80	10	75	81	0	11	6	0.91
3105067--3105114	10	4.8	10	100	0	96	81	0	10	8	0.88
3105024--3105135	6	17.7	6	74	20	50	81	0	11	6	0.91
3107186--3107238	12	4.4	12	97	0	97	33	16	13	35	1.88
3108969--3109012	22	2.0	22	91	8	72	18	25	25	31	1.97
3111879--3112028	65	2.3	65	87	5	207	28	22	18	30	1.97
3114952--3114989	18	2.2	18	85	4	51	23	5	5	65	1.34
3118014--3118052	18	2.2	18	100	0	78	41	20	10	28	1.85
3119714--3119760	6	7.5	6	86	9	67	17	6	0	76	0.98
3119714--3119760	13	3.8	12	83	10	67	17	6	0	76	0.98
3119717--3119760	19	2.3	19	96	0	79	15	6	0	77	0.97
3127552--3127611	23	2.8	21	75	9	75	30	21	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3130201--3130356	65	2.4	65	87	5	210	26	24	19	30	1.98
3134599--3134627	13	2.2	13	100	0	58	41	13	6	37	1.72
3138385--3138499	33	3.5	33	87	0	158	18	5	32	44	1.72
3139372--3139476	3	34.0	3	80	5	120	32	3	1	61	1.24
3146660--3147702	45	23.2	45	79	4	953	23	16	19	41	1.90
3148957--3149005	3	15.7	3	83	8	62	34	0	0	65	0.93
3148957--3149005	16	3.1	16	91	2	82	34	0	0	65	0.93
3153698--3153789	42	2.2	42	92	1	150	51	3	2	43	1.30
3153699--3153774	15	5.3	15	72	15	70	53	2	1	42	1.23
3156213--3156274	3	21.0	3	75	15	58	59	1	0	38	1.07
3156202--3156274	24	3.1	23	88	11	105	57	1	0	41	1.07
3156244--3156280	18	2.1	18	100	0	74	62	0	0	37	0.96
3156399--3157319	74	12.4	76	94	4	1591	35	22	20	21	1.96
3162995--3163035	15	2.8	15	92	3	66	0	17	0	82	0.66
3169854--3169919	3	22.0	3	79	11	73	60	1	0	37	1.06
3169843--3169919	24	3.0	25	92	7	120	58	1	0	40	1.06
3171884--3172021	69	2.0	69	97	0	258	47	20	10	21	1.79
3175756--3175800	13	3.5	13	81	0	63	17	44	20	17	1.87
3175733--3175778	18	2.6	18	96	0	83	17	52	19	10	1.74
3175737--3175792	18	3.4	18	72	23	59	17	48	19	14	1.81
3175787--3175833	10	5.5	8	82	14	51	14	34	27	23	1.94
3175790--3175823	15	2.1	16	89	10	52	11	35	29	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3177109--3177144	18	2.0	18	88	0	54	52	0	16	30	1.44
3178289--3178378	23	3.8	24	82	4	112	24	16	20	38	1.92
3180577--3180608	13	2.5	13	89	0	55	15	46	21	15	1.83
3180554--3180614	18	3.2	18	88	6	86	16	47	21	14	1.82
3180595--3180641	10	5.5	8	82	14	51	14	34	27	23	1.94
3180598--3180631	15	2.1	16	89	10	52	11	35	29	23	1.90
3181918--3181953	18	2.0	18	88	0	54	52	0	16	30	1.44
3183089--3183187	23	4.2	24	83	3	103	24	18	20	37	1.94
3183113--3183187	24	3.2	24	88	1	116	25	17	21	36	1.95
3185384--3185428	13	3.5	13	81	0	54	17	42	20	20	1.90

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