genome.fa.s8356.2.7.7.80.10.50.1000.48.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  48  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)
10996368--10996518	44	3.4	44	91	0	248	23	15	23	37	1.93
10996922--10996954	16	2.1	16	88	5	50	18	12	0	69	1.18
11004409--11004483	21	3.6	21	78	3	89	33	18	20	28	1.96
11004407--11004493	41	2.1	41	82	2	113	34	17	20	27	1.95
11004968--11005020	21	2.5	21	93	0	88	30	16	24	28	1.97
11013902--11014054	77	2.0	79	83	7	197	44	7	4	43	1.53
11017738--11017811	21	3.6	21	75	8	71	32	24	18	24	1.97
11019344--11019386	13	3.5	13	78	15	56	48	0	0	51	1.00
11019338--11019440	23	4.7	21	72	20	79	45	1	1	50	1.24
11019309--11019392	23	3.6	24	75	16	79	44	0	1	54	1.07
11021246--11021295	7	7.3	7	84	4	57	48	32	0	20	1.50
11021900--11021950	7	7.3	7	86	0	75	19	0	35	45	1.51
11026214--11026262	21	2.3	22	78	3	55	4	34	2	59	1.28
11027041--11027520	199	2.4	198	81	6	533	33	8	21	36	1.83
11034321--11034384	24	2.7	23	84	13	78	40	3	12	43	1.58
11035720--11035768	25	2.0	25	88	4	73	59	6	0	34	1.22
11035756--11035820	32	2.0	33	84	3	87	46	9	1	43	1.45
11039289--11039853	22	25.7	22	87	0	799	47	10	0	41	1.40
11040769--11040804	16	2.2	16	90	9	56	30	2	0	66	1.06
11040769--11040802	7	4.6	7	86	13	50	29	2	0	67	1.05
11047179--11047252	36	2.1	36	85	7	98	74	2	2	20	1.07
11047186--11047245	27	2.3	26	82	8	68	71	3	3	21	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11047294--11047340	24	2.0	25	91	8	80	80	4	4	10	0.98
11047370--11047438	18	4.2	18	67	27	62	73	7	4	14	1.20
11047507--11047538	3	10.7	3	100	0	64	68	0	0	31	0.90
11048466--11048502	17	2.2	17	95	0	65	10	16	48	24	1.77
11048473--11048514	17	2.6	16	85	7	57	9	19	45	26	1.80
11050437--11050475	18	2.1	19	90	4	62	5	15	0	79	0.90
11058262--11058304	22	2.0	22	81	9	52	44	9	11	34	1.73
11058390--11058700	36	8.4	36	79	7	250	44	3	8	44	1.50
11058434--11058671	36	6.5	36	83	4	269	44	4	7	43	1.53
11058390--11058712	73	4.4	72	81	6	328	43	3	8	44	1.50
11058650--11058761	59	1.9	59	83	7	147	47	3	8	40	1.52
11058686--11058745	23	2.6	23	97	0	111	46	3	8	41	1.50
11058390--11058717	148	2.2	145	80	5	336	44	3	8	43	1.50
11058725--11058758	13	2.5	13	90	4	50	47	2	8	41	1.50
11058726--11058791	31	2.2	31	91	2	107	43	3	9	43	1.51
11058755--11058847	42	2.3	40	77	15	104	41	2	7	48	1.43
11058845--11058908	26	2.6	25	74	16	60	32	0	3	64	1.10
11058877--11058942	28	2.4	27	75	25	66	27	0	4	68	1.09
11070786--11070831	23	2.0	22	83	4	56	34	10	4	50	1.57
11071156--11071224	23	3.0	23	84	0	93	33	20	24	21	1.97
11075236--11075275	17	2.6	16	85	14	57	17	15	0	67	1.23
11080521--11080762	36	6.7	36	80	2	252	42	3	9	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11080476--11080801	72	4.4	72	80	6	296	42	3	9	44	1.54
11080810--11080902	42	2.3	40	77	15	104	44	2	5	48	1.37
11080849--11080881	17	1.9	17	93	0	57	45	3	6	45	1.43
11080854--11080890	17	2.2	17	90	0	56	43	2	5	48	1.40
11080924--11081022	6	14.8	6	72	20	56	23	1	3	72	1.04
11080927--11080997	22	3.2	21	78	11	72	23	0	4	71	1.03
11080915--11081000	28	3.1	28	76	14	90	26	0	3	69	1.04
11080926--11081022	44	2.2	44	80	10	110	22	1	3	73	1.04
11080924--11081022	51	2.0	49	84	7	130	23	1	3	72	1.04
11085086--11085206	52	2.3	52	86	0	170	29	13	29	27	1.94
11098109--11098214	44	2.4	44	82	0	131	33	5	20	40	1.76
11098282--11098378	23	4.2	24	85	7	130	15	25	23	35	1.94
11100432--11100572	3	44.3	3	72	13	95	34	3	3	58	1.33
11100432--11100572	13	11.3	13	77	9	109	34	3	3	58	1.33
11100432--11100565	16	8.4	16	73	15	107	35	3	2	57	1.32
11101470--11101513	21	2.1	21	95	4	81	38	25	20	15	1.92
11101584--11101626	12	3.8	12	78	12	54	32	25	16	25	1.96
11101960--11102227	44	6.1	44	87	1	385	32	21	7	38	1.81
11101965--11102226	88	3.0	88	94	0	443	31	21	7	38	1.82
11104521--11104554	17	2.0	17	100	0	68	23	5	47	23	1.73
11105257--11105281	2	12.5	2	100	0	50	52	0	0	48	1.00
11105592--11105656	5	13.0	5	74	9	53	23	0	1	75	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11105592--11105655	11	5.8	11	72	18	53	21	0	1	76	0.87
11105589--11105656	16	4.1	16	81	5	82	23	0	1	75	0.89
11105586--11105640	27	2.0	27	86	13	78	25	0	0	74	0.82
11105591--11105645	13	4.2	13	73	15	51	20	0	1	78	0.85
11110255--11110292	20	1.9	19	89	5	58	34	0	7	57	1.28
11110277--11110332	25	2.2	25	78	6	60	41	1	7	50	1.40
11111775--11111804	14	2.1	14	93	0	51	50	6	0	43	1.28
11112200--11112227	13	2.2	13	100	0	56	21	0	35	42	1.53
11112213--11112362	42	3.5	42	83	8	162	26	1	28	44	1.63
11112251--11112348	28	3.5	27	77	12	101	25	0	29	44	1.54
11112199--11112428	7	32.6	7	65	24	67	26	1	27	44	1.62
11112337--11112464	57	2.2	59	90	2	206	27	2	24	46	1.65
11112433--11112474	15	2.8	15	89	7	59	26	0	26	47	1.52
11114388--11114500	11	9.9	11	72	11	68	30	23	21	23	1.99
11114408--11114486	12	6.8	12	78	5	81	34	26	18	20	1.96
11114399--11114451	23	2.3	23	96	0	97	28	24	22	24	2.00
11114408--11114486	35	2.3	35	93	0	131	34	26	18	20	1.96
11114443--11114497	23	2.4	23	84	0	65	34	25	18	21	1.96
11117045--11117988	415	2.3	416	91	2	1486	36	12	11	39	1.80
11118836--11118878	4	10.8	4	100	0	86	25	0	74	0	0.82
11119788--11119835	19	2.5	19	93	0	78	39	14	18	27	1.90
11125068--11126373	435	3.0	435	99	0	2587	34	4	22	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11127076--11127182	48	2.3	47	82	6	130	42	8	18	30	1.80
11127072--11127183	44	2.5	44	82	5	134	42	8	17	31	1.78
11128929--11128997	21	3.4	21	70	22	67	47	27	1	23	1.60
11129201--11129244	23	2.0	23	86	4	63	4	29	2	63	1.26
11130399--11130442	17	2.5	17	85	7	52	47	2	0	50	1.13
11130474--11130549	30	2.5	32	82	10	104	46	5	0	48	1.24
11138646--11138743	45	2.1	47	83	9	121	50	20	7	22	1.72
11141771--11142316	272	2.0	272	98	0	1056	32	12	22	32	1.91
11143519--11143570	24	2.2	24	89	0	77	28	28	23	19	1.98
11143539--11143612	23	3.2	24	79	9	73	31	25	21	21	1.98
11143561--11143624	23	2.8	23	79	9	69	34	25	20	20	1.96
11150355--11150432	24	3.3	24	82	10	99	35	23	20	20	1.96
11150366--11150437	23	3.1	23	84	9	85	33	27	20	18	1.96
11150398--11150445	23	2.1	23	88	0	69	35	29	16	18	1.93
11155882--11155921	20	2.0	20	85	9	55	67	0	0	32	0.91
11157126--11157160	18	1.9	18	88	0	52	0	42	2	54	1.15
11158244--11158277	17	2.1	16	88	5	50	76	0	8	14	1.01
11168456--11168489	17	2.1	16	88	5	50	76	0	8	14	1.01
11169733--11169761	10	2.9	10	100	0	58	41	20	10	27	1.85
11170154--11170746	36	17.6	36	69	16	280	39	14	18	28	1.89
11170088--11170601	66	7.8	66	82	7	632	39	13	18	28	1.89
11170124--11170233	30	3.5	30	70	18	87	39	10	18	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11170292--11170498	30	6.5	30	73	16	175	39	13	18	28	1.89
11170154--11170476	102	3.2	100	81	7	365	40	13	17	28	1.87
11170484--11170746	103	2.6	102	91	1	411	37	16	18	27	1.92
11170888--11170957	37	1.9	36	83	13	90	41	11	15	31	1.83
11176512--11176574	5	12.0	5	80	9	72	74	1	1	22	0.99
11176512--11176572	21	2.8	22	80	2	79	75	1	1	21	0.98
11176512--11176572	16	3.8	16	77	14	63	75	1	1	21	0.98
11176524--11176578	26	2.1	27	93	3	94	69	0	1	29	0.99
11178469--11178493	13	1.9	13	100	0	50	56	0	8	36	1.29
11178427--11178477	3	17.3	3	95	4	95	66	0	0	33	0.92

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