genome.fa.s9634.2.7.7.80.10.50.1000.65.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  65  of  78  ( 9351 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)
13095717--13095762	15	3.1	15	84	6	58	34	0	15	50	1.44
13095722--13095764	22	2.0	22	85	0	59	37	0	13	48	1.43
13096217--13096279	20	3.2	20	95	0	108	41	22	17	19	1.90
13096497--13096534	16	2.5	15	84	12	51	28	5	0	65	1.14
13097129--13097162	12	2.8	12	90	0	50	55	29	0	14	1.40
13098755--13098812	29	2.0	29	89	0	89	32	24	15	27	1.95
13098862--13098910	20	2.5	20	93	0	80	18	16	24	40	1.90
13098977--13099025	25	2.0	25	95	0	89	26	8	20	44	1.79
13099412--13099448	18	2.1	18	89	0	56	32	5	10	51	1.60
13099404--13099456	24	2.2	24	86	0	70	35	3	13	47	1.61
13100680--13100722	20	2.2	20	95	0	77	41	20	20	16	1.90
13100790--13100839	20	2.5	20	86	0	73	20	20	18	42	1.90
13100865--13100906	20	2.1	20	95	0	75	26	19	16	38	1.92
13100976--13101110	37	3.5	37	72	18	132	51	14	2	30	1.57
13101029--13101065	14	2.6	14	86	0	56	54	18	0	27	1.44
13100965--13101157	78	2.5	78	91	3	311	52	15	3	28	1.58
13102485--13102602	21	5.7	20	81	8	130	24	20	33	21	1.97
13102485--13102605	42	2.9	41	86	2	161	24	20	33	20	1.97
13104824--13104898	20	3.8	20	92	1	116	53	18	16	12	1.73
13104910--13104957	14	3.4	14	85	0	60	10	12	27	50	1.73
13104944--13104983	20	2.0	20	85	0	53	15	12	22	50	1.77
13105475--13105520	20	2.3	20	100	0	92	15	15	26	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13110870--13110908	20	2.0	19	90	5	60	25	20	10	43	1.83
13116765--13116820	22	2.6	22	88	8	80	48	7	16	28	1.72
13119348--13119544	63	3.1	63	83	2	243	23	19	14	42	1.88
13119538--13119899	131	2.7	133	82	7	459	26	30	18	24	1.98
13120084--13120134	3	17.0	3	91	0	84	31	1	1	64	1.15
13120882--13120920	18	2.2	18	90	4	62	28	12	15	43	1.83
13124095--13124177	34	2.4	34	76	4	87	26	15	14	43	1.85
13124185--13124237	17	3.1	17	91	0	88	39	13	5	41	1.68
13128457--13128520	3	22.0	3	87	6	96	68	0	0	31	0.90
13128456--13128514	20	2.9	21	92	5	95	66	0	0	33	0.92
13128457--13128520	26	2.5	26	94	0	110	68	0	0	31	0.90
13137491--13137905	45	9.2	45	82	1	465	25	20	12	42	1.86
13137503--13137902	135	3.0	135	85	2	534	25	20	12	41	1.87
13139400--13139432	17	1.9	17	93	0	57	42	9	6	42	1.61
13153468--13153686	45	4.9	45	86	8	277	39	5	22	32	1.78
13153468--13153685	44	4.8	46	85	8	263	39	5	22	32	1.78
13153468--13153685	89	2.4	92	85	8	288	39	5	22	32	1.78
13168522--13168558	2	18.5	2	100	0	74	51	0	0	48	1.00
13168546--13168697	37	4.1	37	74	8	119	44	4	9	40	1.58
13170018--13170044	4	6.8	4	100	0	54	22	0	0	77	0.76
13171639--13171697	29	2.0	29	83	0	73	57	10	13	18	1.64
13174224--13174376	45	3.4	45	89	0	243	39	6	22	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13174736--13174796	21	2.9	21	95	0	104	29	22	22	24	1.99
13186650--13186817	45	3.8	45	88	3	250	39	6	22	30	1.80
13188805--13189450	126	5.1	126	83	3	753	24	18	25	30	1.98
13189706--13189775	32	2.2	32	89	0	104	32	20	15	31	1.94
13190869--13190894	12	2.2	12	100	0	52	7	7	0	84	0.77
13194140--13194184	24	1.9	24	82	13	58	31	2	15	51	1.56
13194886--13194951	29	2.3	29	89	5	107	60	9	9	21	1.54
13194897--13194959	29	2.2	29	91	0	99	58	6	14	20	1.57
13196160--13196189	3	10.0	3	100	0	60	66	0	0	33	0.92
13219703--13219781	21	3.7	21	85	12	115	24	11	24	40	1.87
13219701--13219788	44	2.0	44	95	0	158	26	12	23	37	1.90
13221353--13221427	17	4.1	17	73	20	53	76	4	5	14	1.12
13221769--13221819	25	2.0	27	84	7	70	58	0	3	37	1.16
13221769--13221833	25	2.7	23	73	15	51	63	0	3	33	1.10
13223194--13223566	106	3.5	106	81	7	466	24	18	24	33	1.97
13224275--13224457	65	2.8	65	81	4	197	38	9	20	31	1.84
13224406--13224524	36	3.3	36	83	2	148	38	15	19	26	1.91
13224418--13224509	37	2.5	36	87	1	121	42	16	20	20	1.89
13225392--13225496	32	3.3	31	84	4	129	37	19	13	30	1.90
13225410--13225510	32	3.2	32	85	2	132	36	20	11	30	1.89
13226409--13226546	69	2.0	69	94	0	240	24	14	23	37	1.92
13226580--13226639	27	2.3	26	81	10	70	6	20	3	70	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13226593--13226640	13	3.7	13	84	15	64	2	18	4	75	1.07
13226593--13226642	27	1.9	25	92	8	82	2	18	4	76	1.04
13229728--13229770	9	4.6	9	85	8	59	76	2	2	18	1.00
13229964--13230019	16	3.2	17	77	10	60	73	0	3	23	0.99
13230125--13230175	25	2.0	27	84	7	70	58	0	3	37	1.16
13230125--13230190	25	2.7	23	73	13	51	63	0	3	33	1.10
13230155--13230228	24	3.4	21	75	14	69	68	0	5	25	1.10
13232960--13233000	17	2.3	19	91	8	68	26	0	4	68	1.10
13232960--13233012	17	3.1	18	85	15	53	30	0	3	66	1.10
13253112--13253154	21	2.0	21	81	0	50	25	13	16	44	1.85
13256156--13256197	2	21.0	2	100	0	84	50	0	0	50	1.00
13258920--13258946	14	1.9	14	100	0	54	18	0	0	81	0.69
13259950--13260028	27	2.9	26	71	23	65	24	7	8	59	1.53
13259938--13260063	51	2.4	53	82	5	166	20	8	7	62	1.49
13259949--13260050	54	1.9	53	88	5	154	21	7	8	61	1.50
13260732--13260850	59	2.0	61	95	3	215	31	8	16	42	1.78
13264665--13264739	35	2.1	35	92	4	125	22	0	9	68	1.18
13266240--13266303	30	2.1	30	97	0	119	25	12	17	45	1.83
13279520--13279557	18	2.2	18	85	4	51	23	7	5	63	1.42
13280346--13280455	41	2.7	40	77	9	123	29	1	8	60	1.35
13282110--13282172	29	2.2	29	80	5	74	41	15	0	42	1.47
13286465--13286629	45	3.7	45	83	1	215	40	7	19	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13289448--13289494	10	4.7	10	86	0	67	76	0	12	10	1.02
13290243--13290289	24	2.0	24	95	0	85	40	10	17	31	1.83
13293304--13293469	45	3.7	45	82	4	210	37	7	21	33	1.82
13300378--13300423	8	6.0	8	82	14	53	23	6	0	69	1.11
13307943--13307967	12	2.1	12	100	0	50	24	8	44	24	1.80
13320904--13320937	14	2.4	14	95	0	59	17	5	41	35	1.74
13320976--13321206	100	2.3	99	79	7	220	38	17	20	23	1.93
13322358--13322427	29	2.4	28	86	6	95	40	31	2	25	1.70
13323247--13323863	95	6.4	95	84	3	605	34	13	11	40	1.81
13324220--13324914	139	5.0	138	81	3	698	35	17	19	26	1.94
13324220--13324874	278	2.4	278	82	3	807	36	17	20	26	1.94
13325661--13325701	15	2.8	15	82	10	50	65	0	4	29	1.13
13328944--13330331	45	31.0	44	77	6	997	41	16	16	25	1.88
13328944--13330331	90	15.5	90	78	4	1203	41	16	16	25	1.88
13329007--13329633	179	3.5	180	81	4	572	42	16	15	25	1.88
13328989--13330244	224	5.6	224	76	4	659	41	16	16	25	1.88
13339021--13339063	20	2.2	20	86	0	59	18	4	18	58	1.56
13339060--13339169	47	2.4	45	85	7	150	38	5	22	33	1.77
13339615--13339652	20	1.9	20	88	0	58	36	28	15	18	1.92
13346327--13346369	20	2.2	20	86	0	59	18	4	18	58	1.56
13346366--13346475	47	2.4	45	85	7	150	36	5	22	35	1.78
13357961--13358006	20	2.3	21	89	10	71	36	30	17	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13365100--13365142	7	6.4	7	84	10	63	23	27	32	16	1.96
13365106--13365147	12	3.3	12	90	6	57	19	26	38	16	1.92
13365139--13365172	5	6.8	5	86	0	50	2	17	55	23	1.55
13367058--13367122	33	1.9	33	84	12	87	47	12	1	38	1.50
13367827--13367869	21	2.0	21	90	0	68	34	0	4	60	1.17
13369741--13369874	59	2.5	52	79	14	155	21	19	23	35	1.96
13369768--13369887	59	2.0	59	95	0	213	24	19	21	35	1.96
13374501--13374539	7	5.6	7	85	11	53	66	0	0	33	0.92
13375430--13375459	2	15.0	2	100	0	60	50	0	0	50	1.00
13375623--13375648	2	13.0	2	100	0	52	50	0	0	50	1.00

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