genome.fa.s8356.2.7.7.80.10.50.1000.47.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  47  of  56  ( 6656 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)
10705448--10705516	33	2.1	34	81	8	79	53	5	0	40	1.25
10705446--10705505	26	2.2	28	82	11	81	51	6	0	41	1.28
10716393--10716423	14	2.2	14	100	0	62	38	19	22	19	1.93
10721870--10721966	27	3.2	32	74	16	80	54	3	3	39	1.32
10721896--10721965	5	13.2	5	71	11	50	54	4	2	38	1.35
10721900--10721965	27	2.4	27	97	0	123	53	4	3	39	1.37
10724947--10725046	28	3.7	28	84	9	129	42	0	1	57	1.05
10725205--10725254	23	2.1	25	88	7	77	32	0	4	64	1.12
10725217--10725271	24	2.2	26	80	6	69	27	0	1	70	0.97
10726673--10726724	27	2.0	27	85	11	72	30	3	7	57	1.45
10729083--10729112	13	2.3	13	100	0	60	26	30	13	30	1.94
10736620--10736690	31	2.3	30	78	7	81	35	16	9	38	1.82
10748413--10748452	20	2.0	20	85	0	53	32	0	20	47	1.50
10754850--10755175	45	7.3	45	83	2	343	29	19	10	40	1.84
10754855--10755170	134	2.4	135	82	3	379	29	19	10	40	1.85
10763756--10763789	17	2.0	17	100	0	68	35	11	11	41	1.78
10764467--10764491	2	12.5	2	100	0	50	52	0	0	48	1.00
10769194--10769575	139	2.7	137	77	8	385	45	11	12	30	1.77
10769807--10769873	29	2.3	29	80	7	75	58	2	11	26	1.48
10774863--10775101	45	5.3	44	88	2	325	24	23	11	41	1.87
10775443--10775481	20	2.0	20	89	0	60	33	23	10	33	1.88
10781606--10781888	45	6.3	45	90	0	397	24	22	10	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10786414--10786458	19	2.4	19	81	7	56	15	2	11	71	1.24
10786414--10786459	20	2.4	19	85	7	58	15	2	13	69	1.28
10790044--10791703	859	1.9	844	86	4	2370	28	16	12	42	1.84
10791709--10791746	20	1.9	20	88	0	58	2	28	0	68	1.03
10795468--10795493	8	3.2	8	100	0	52	69	0	0	30	0.89
10807450--10807487	20	1.9	20	94	0	67	26	0	26	47	1.52
10819350--10819376	2	13.5	2	100	0	54	48	0	0	51	1.00
10819376--10819410	2	17.5	2	100	0	70	0	0	48	51	1.00
10819512--10819551	15	2.7	15	84	0	53	47	7	0	45	1.31
10819514--10819573	15	4.0	15	77	12	52	46	6	1	45	1.39
10821870--10821900	15	2.1	15	100	0	62	41	19	6	32	1.77
10821973--10822319	140	2.5	138	85	3	464	46	10	12	30	1.76
10825281--10825306	2	13.0	2	100	0	52	50	0	0	50	1.00
10827468--10827526	31	1.9	31	82	6	75	42	6	8	42	1.61
10829623--10829648	2	13.0	2	100	0	52	50	0	0	50	1.00
10831078--10831121	21	2.1	21	86	0	61	29	0	18	52	1.46
10831098--10831160	28	2.2	30	94	5	112	30	0	12	57	1.36
10831884--10831943	26	2.3	25	80	11	68	48	8	0	43	1.33
10834752--10834790	15	2.6	15	91	0	60	30	0	5	64	1.15
10834822--10834866	21	2.1	22	84	12	58	37	2	8	51	1.46
10834843--10834916	14	5.6	13	78	15	55	41	4	12	41	1.61
10834947--10834988	23	1.9	23	90	9	70	35	7	9	47	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10835135--10835171	14	2.6	14	100	0	74	35	0	18	45	1.50
10835163--10835401	21	11.9	20	68	19	104	42	0	9	47	1.36
10835170--10835458	60	5.0	60	86	4	389	43	0	9	47	1.38
10835244--10835335	11	7.7	11	73	23	55	42	0	9	47	1.36
10835124--10835458	119	3.0	112	83	10	407	42	0	10	47	1.40
10835244--10835456	14	15.1	14	70	15	64	43	0	9	46	1.40
10835374--10835404	10	2.9	11	90	9	55	38	0	19	41	1.51
10835429--10835493	21	3.0	21	70	18	60	44	0	7	47	1.31
10835947--10836147	11	17.1	11	69	22	83	44	1	8	45	1.44
10835966--10836158	24	7.8	24	70	20	105	45	1	7	45	1.40
10836083--10836161	21	4.0	20	75	18	67	50	1	2	45	1.23
10836105--10836156	11	4.5	11	83	9	59	51	0	1	46	1.12
10838750--10838820	38	2.0	36	81	10	83	50	11	0	38	1.38
10838830--10838869	21	1.9	21	100	0	80	57	15	0	27	1.38
10838989--10839027	15	2.7	15	88	4	53	0	38	0	61	0.96
10839246--10839327	29	2.9	28	78	12	96	14	23	41	20	1.89
10839345--10839402	28	2.1	28	90	0	89	29	31	25	13	1.94
10839820--10839871	16	3.2	16	86	0	77	53	30	5	9	1.57
10840218--10840354	51	2.6	51	83	11	154	59	5	5	29	1.40
10840660--10840720	32	1.9	31	83	3	77	37	27	9	24	1.87
10840707--10840791	32	2.6	32	79	1	89	43	24	11	20	1.85
10840658--10840791	64	2.1	65	80	5	155	41	24	11	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10842330--10842360	2	15.5	2	100	0	62	48	0	0	51	1.00
10844429--10844574	55	2.6	54	87	4	202	26	26	15	32	1.96
10846911--10846954	16	2.8	16	100	0	88	38	0	4	56	1.20
10849706--10849750	19	2.4	19	100	0	90	33	4	20	42	1.72
10851835--10852022	100	1.9	101	95	1	342	23	18	29	28	1.98
10859853--10859894	2	21.0	2	100	0	84	50	0	0	50	1.00
10860266--10860319	24	2.3	23	87	9	81	31	27	5	35	1.80
10864374--10864407	2	17.0	2	100	0	68	50	0	0	50	1.00
10868426--10868462	18	2.1	18	94	0	65	37	18	10	32	1.86
10872273--10872298	12	2.2	12	100	0	52	23	53	0	23	1.46
10876823--10876922	2	50.0	2	100	0	200	50	0	0	50	1.00
10884464--10884620	81	2.0	80	87	1	224	37	19	10	33	1.85
10894784--10894823	21	1.9	21	89	0	62	40	17	10	32	1.83
10902928--10902962	15	2.3	15	85	0	52	42	2	0	54	1.15
10918336--10918376	22	1.9	21	85	5	55	39	0	12	48	1.41
10918719--10918744	13	2.0	13	100	0	52	15	0	23	61	1.33
10918712--10918753	20	2.1	20	86	0	57	19	2	21	57	1.52
10918774--10918852	24	3.4	24	66	24	62	36	10	20	32	1.86
10918798--10918872	21	3.5	20	68	18	60	36	6	21	36	1.80
10918773--10918891	45	2.6	45	97	0	220	35	9	21	34	1.85
10922258--10922298	15	2.7	15	85	7	57	63	0	2	34	1.08
10922258--10922304	21	2.2	21	85	7	60	59	0	4	36	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10922571--10922839	145	1.9	145	81	3	335	32	13	12	41	1.81
10923455--10924472	101	10.1	100	78	5	872	36	10	15	38	1.81
10923455--10924472	201	5.1	199	80	5	924	36	10	15	38	1.81
10924485--10924540	28	2.0	28	100	0	112	50	10	0	39	1.37
10931408--10931455	21	2.3	21	88	0	69	33	14	10	41	1.80
10934841--10934917	26	2.9	27	66	19	63	24	27	12	35	1.92
10934829--10935028	52	3.8	53	88	3	298	26	25	11	37	1.89
10934770--10935022	104	2.4	106	86	6	332	26	24	11	37	1.89
10934873--10935001	26	5.0	25	64	23	70	25	24	11	38	1.89
10934948--10935027	27	3.0	27	67	20	78	27	23	11	37	1.89
10945368--10945734	182	2.0	182	100	0	734	27	18	27	26	1.98
10946932--10947022	20	4.6	20	87	5	130	26	27	16	29	1.97
10949230--10949384	73	2.1	73	84	7	208	32	12	9	45	1.74
10949647--10949864	75	2.8	80	79	9	232	36	16	7	38	1.77
10949708--10949917	75	2.8	74	84	3	269	32	19	10	37	1.86
10956807--10956853	20	2.2	20	85	7	58	31	17	25	25	1.97
10956723--10956946	95	2.4	95	86	3	290	32	16	26	25	1.96
10957307--10957634	46	7.1	46	90	1	505	43	9	21	25	1.81
10963837--10964023	95	2.0	94	88	5	279	32	16	25	26	1.96
10963842--10964059	95	2.3	95	84	7	257	32	16	25	26	1.96
10964452--10964639	26	7.9	26	70	18	133	43	11	21	23	1.85
10964478--10964653	46	3.8	46	87	0	255	43	10	21	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10964511--10964583	20	3.3	20	71	20	56	42	9	26	21	1.83
10968763--10968841	30	2.6	31	81	4	97	59	5	5	30	1.40
10968813--10968876	18	3.4	18	84	4	74	62	3	3	31	1.26
10970078--10970107	14	2.1	14	100	0	60	43	0	0	56	0.99
10974222--10975316	559	1.9	564	89	2	1675	31	15	18	33	1.93
10978965--10978998	17	2.0	17	88	0	50	23	2	2	70	1.15
10979066--10979118	21	2.5	22	81	3	63	24	1	0	73	0.93
10982039--10982086	11	4.4	11	79	10	53	12	8	6	72	1.26
10995889--10995934	18	2.6	18	96	0	83	30	17	23	28	1.97
10996368--10996530	22	7.4	23	71	15	121	23	16	22	37	1.94

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