genome.fa.s8242.2.7.7.80.10.50.1000.45.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  45  of  73  ( 8740 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)
10799721--10799765	23	2.0	23	86	8	65	57	13	4	24	1.54
10799870--10799905	12	3.0	12	87	0	54	47	5	8	38	1.57
10805032--10805060	14	2.1	14	100	0	58	34	13	17	34	1.89
10805128--10805163	18	2.0	18	94	0	63	36	0	19	44	1.51
10815720--10815915	96	2.0	96	84	1	250	28	13	15	41	1.86
10817961--10817986	12	2.2	12	100	0	52	26	7	7	57	1.54
10823356--10823964	261	2.4	257	91	3	969	26	12	20	40	1.89
10824266--10824391	44	2.9	44	93	0	207	38	21	12	27	1.90
10824380--10824427	18	2.7	18	87	3	71	29	27	8	35	1.86
10825658--10825699	14	3.2	13	83	12	50	52	0	2	45	1.13
10826574--10826649	2	38.5	2	97	2	145	50	0	0	50	1.00
10827141--10827178	19	2.0	19	89	0	58	52	0	0	47	1.00
10827717--10827862	21	6.9	21	82	6	159	22	35	19	21	1.96
10830199--10830236	12	3.2	12	92	0	58	34	5	13	47	1.65
10830390--10830429	21	1.9	21	89	0	62	30	10	10	50	1.69
10830651--10830734	21	3.9	21	84	6	114	23	33	20	22	1.97
10837871--10837897	3	9.0	3	100	0	54	66	0	0	33	0.92
10837896--10837921	3	8.7	3	100	0	52	34	0	0	65	0.93
10845154--10845323	90	1.9	90	87	2	252	31	16	15	36	1.91
10847896--10848373	40	12.0	40	90	0	681	30	16	12	40	1.85
10848306--10848480	39	4.6	37	88	3	172	28	20	14	36	1.92
10848336--10848480	37	3.9	37	88	4	166	27	22	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10848491--10848553	21	3.3	20	69	26	64	25	23	11	39	1.88
10848486--10848644	36	4.6	36	75	12	161	26	20	14	38	1.91
10848384--10848644	102	2.6	101	88	1	378	27	21	13	37	1.91
10848514--10848682	66	2.6	63	85	6	221	27	19	15	37	1.92
10848615--10848667	15	3.7	15	77	10	56	32	16	16	33	1.92
10848644--10848809	74	2.3	73	81	2	206	26	21	13	38	1.91
10848790--10848830	15	2.7	15	80	0	55	26	24	19	29	1.98
10848820--10848940	61	2.0	61	85	3	163	33	19	10	36	1.86
10849306--10849470	91	1.8	90	84	3	224	38	12	21	27	1.89
10849629--10849803	91	1.9	92	92	1	298	40	15	20	24	1.91
10849298--10850046	332	2.3	330	87	4	1107	37	16	20	25	1.93
10852216--10852241	2	13.0	2	100	0	52	50	0	0	50	1.00
10854339--10854463	32	3.9	32	88	2	144	27	27	26	19	1.99
10858228--10858312	23	3.7	23	80	3	100	30	25	24	18	1.98
10858309--10858350	22	1.9	22	85	9	59	42	26	9	21	1.83
10864974--10865015	19	2.2	19	100	0	84	38	26	4	30	1.77
10865136--10865195	23	2.6	23	83	0	75	30	21	23	25	1.99
10874195--10874245	22	2.3	22	80	6	59	27	23	17	31	1.97
10882830--10882909	21	3.7	21	73	14	72	31	21	20	27	1.98
10882842--10882888	24	2.0	24	91	0	76	27	19	21	31	1.97
10884306--10884338	15	2.1	16	94	5	59	36	0	42	21	1.53
10886086--10886941	258	3.3	256	87	3	1171	34	16	14	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10886495--10886582	42	2.1	42	87	2	124	35	23	14	26	1.94
10893755--10893797	15	2.7	16	82	17	54	60	0	4	34	1.17
10895891--10895941	3	17.3	3	95	4	95	64	0	0	35	0.94
10896435--10896491	25	2.1	28	87	9	84	35	14	8	42	1.76
10902724--10902830	56	1.9	56	94	3	189	28	21	20	28	1.98
10909516--10909540	13	1.9	13	100	0	50	24	56	16	4	1.57
10910029--10910427	197	2.0	198	96	0	737	41	9	16	33	1.79
10911959--10912015	24	2.4	24	81	0	60	17	14	21	47	1.82
10911975--10912031	24	2.4	24	84	0	69	22	12	15	49	1.78
10911983--10912039	24	2.4	24	81	0	69	22	10	15	50	1.74
10916217--10916287	24	3.0	24	76	0	79	25	14	15	45	1.84
10916231--10916299	24	2.9	24	78	4	77	24	11	14	49	1.77
10918451--10918475	10	2.5	10	100	0	50	40	16	12	32	1.84
10921617--10921986	199	1.9	199	95	0	668	40	9	15	34	1.80
10922997--10923068	24	3.0	24	75	0	72	22	8	15	54	1.67
10927152--10927205	24	2.2	24	80	0	63	25	9	14	50	1.73
10929545--10929578	5	6.8	5	89	0	50	2	41	35	20	1.68
10935472--10935520	6	8.2	6	95	0	89	2	16	46	34	1.58
10935795--10935849	22	2.5	22	75	0	56	29	9	23	38	1.85
10941411--10941450	5	8.0	5	91	0	62	5	40	35	20	1.74
10941382--10941450	15	4.6	15	80	7	77	8	39	30	21	1.84
10941448--10941496	6	8.2	6	97	0	89	2	16	46	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10946817--10946873	2	28.5	2	100	0	114	50	0	0	49	1.00
10947225--10947401	57	3.1	55	78	8	187	34	6	14	44	1.71
10949862--10950024	83	2.0	83	90	2	256	39	3	10	47	1.53
10953211--10953254	17	2.6	17	100	0	88	59	0	22	18	1.38
10954712--10954759	13	3.7	13	100	0	96	37	20	8	33	1.83
10954750--10954779	13	2.3	13	94	0	51	23	16	16	43	1.87
10954751--10954916	85	2.0	85	81	4	201	31	19	18	30	1.96
10954942--10954966	2	12.5	2	100	0	50	48	0	0	52	1.00
10960123--10960160	20	1.9	20	88	0	58	23	18	15	42	1.89
10960137--10960255	61	2.0	61	80	6	134	27	12	21	37	1.90
10960239--10960289	20	2.5	20	72	12	50	37	11	17	33	1.86
10960286--10960350	21	3.1	21	78	8	69	32	21	16	29	1.96
10961845--10962147	46	6.6	46	85	3	367	22	24	8	43	1.82
10961845--10962147	138	2.2	139	85	2	414	22	24	8	43	1.82
10961976--10962413	26	18.7	26	66	21	211	22	22	10	44	1.82
10962016--10962264	118	2.1	117	87	0	363	22	22	10	44	1.83
10961925--10962413	209	2.3	209	85	2	658	22	23	9	44	1.82
10962207--10962330	20	5.6	20	71	20	77	24	25	10	39	1.87
10962136--10962351	46	4.7	46	85	1	299	23	23	10	43	1.84
10962272--10962413	72	2.0	72	91	0	230	23	23	7	44	1.79
10962816--10962898	42	2.0	41	83	2	103	30	21	10	37	1.88
10969189--10969470	66	4.2	65	78	15	306	18	26	10	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10969118--10969267	46	3.3	46	92	0	246	21	24	9	45	1.81
10969058--10969641	112	5.1	113	77	14	481	21	23	9	45	1.81
10969255--10969560	46	6.7	46	93	1	517	19	25	10	44	1.82
10969058--10969560	92	5.5	92	77	14	377	20	24	9	45	1.80
10969118--10969425	158	1.9	158	93	0	526	20	25	10	44	1.82
10969255--10969560	136	2.2	137	92	1	515	19	25	10	44	1.82
10969354--10969628	66	4.1	66	75	14	229	21	24	9	44	1.82
10969550--10969649	46	2.2	46	85	3	139	25	22	8	45	1.79
10974261--10974523	41	6.4	41	74	7	176	31	11	20	36	1.88
10974270--10974491	82	2.7	82	87	0	309	31	12	20	35	1.90
10974313--10974544	123	1.9	123	81	3	279	29	13	22	34	1.93
10982491--10982773	41	6.9	41	75	3	210	32	9	18	39	1.84
10982538--10982718	82	2.2	82	92	0	299	32	11	19	36	1.88
10986421--10986449	5	5.8	5	100	0	58	17	0	0	82	0.66
10989018--10989051	17	2.0	17	88	11	52	70	0	0	29	0.87
10990175--10990674	249	2.0	249	96	0	919	21	21	24	32	1.98
10990663--10991501	29	26.9	31	77	16	507	23	3	26	45	1.69
10990865--10990889	2	12.5	2	100	0	50	0	0	48	52	1.00
10990947--10991585	25	24.5	25	72	18	345	24	3	27	44	1.70
10991253--10991293	18	2.3	18	86	0	55	4	9	43	41	1.59
10991284--10991408	27	4.3	27	81	15	160	22	2	29	45	1.65
10991334--10991456	41	3.3	39	79	17	145	18	1	32	47	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10991394--10991422	14	2.1	14	100	0	58	6	0	41	51	1.28
10991408--10991505	33	3.1	33	86	5	141	28	3	22	45	1.67
10991513--10991622	31	3.7	31	78	14	142	20	4	30	44	1.72
10991521--10991616	25	3.6	25	75	15	102	21	5	29	43	1.74
10991642--10991688	18	2.6	18	86	0	58	6	14	42	36	1.72
10991602--10991672	6	11.8	6	89	0	106	0	12	47	39	1.42
10991707--10991751	2	22.5	2	86	0	54	2	4	40	53	1.33
10991727--10991821	39	2.4	39	98	0	181	17	2	29	50	1.58
10991924--10991963	16	2.5	16	83	0	53	50	7	2	40	1.44
10998397--10998460	33	1.9	33	96	0	119	45	9	0	45	1.36

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