genome.fa.s8053.2.7.7.80.10.50.1000.30.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  30  of  32  ( 3749 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)
6266731--6266786	24	2.3	24	93	0	94	5	19	21	53	1.65
6268102--6268215	54	2.1	55	95	1	203	40	13	16	29	1.86
6269418--6269771	188	1.9	188	86	8	515	39	4	10	45	1.58
6270393--6270593	39	5.2	39	80	0	224	34	22	18	23	1.96
6276554--6276586	13	2.5	13	100	0	66	15	30	9	45	1.77
6281701--6281786	42	2.0	42	97	0	163	40	11	13	33	1.81
6285484--6285542	23	2.6	23	83	0	64	61	16	8	13	1.56
6290690--6290757	15	4.4	16	75	12	63	41	0	1	57	1.08
6291971--6292046	31	2.5	30	80	14	77	48	1	1	48	1.18
6294491--6294568	33	2.4	32	83	12	88	39	0	1	58	1.06
6294709--6294762	17	3.2	17	72	0	54	31	0	3	64	1.11
6297311--6297362	19	2.5	20	87	9	70	55	0	1	42	1.10
6310870--6310933	14	4.8	13	70	14	58	23	0	37	39	1.55
6310870--6310933	27	2.4	27	97	0	119	23	0	37	39	1.55
6312035--6312120	37	2.3	38	75	15	97	45	1	3	50	1.26
6313525--6313570	4	11.5	4	95	0	74	23	45	0	30	1.53
6314809--6314869	32	1.9	32	83	3	79	37	8	8	45	1.64
6314835--6314888	20	2.7	20	77	11	56	35	3	7	53	1.47
6318363--6318545	60	3.1	57	77	12	172	42	6	19	31	1.77
6319262--6319313	21	2.5	20	75	3	50	38	17	25	19	1.93
6319302--6319396	20	4.7	20	78	7	75	32	25	17	24	1.97
6319584--6319627	22	2.0	22	95	0	79	20	45	15	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6319890--6319948	20	3.0	20	87	0	73	16	18	22	42	1.89
6321268--6321312	18	2.5	18	88	0	72	26	44	15	13	1.83
6321794--6321839	20	2.3	20	88	0	65	36	26	21	15	1.93
6321849--6321906	14	3.9	14	79	16	71	48	24	17	10	1.78
6321833--6321922	32	2.8	33	89	3	137	47	24	16	11	1.79
6321940--6322030	14	5.9	14	70	20	65	10	15	23	50	1.75
6321923--6322046	33	3.8	33	93	2	214	12	16	21	49	1.78
6322031--6322086	20	2.8	19	86	7	76	17	25	23	33	1.96
6322452--6322539	41	2.1	41	85	2	122	21	43	14	20	1.88
6323954--6323989	14	2.6	14	90	0	54	30	0	22	47	1.52
6324126--6324193	19	3.8	19	85	14	101	47	17	22	13	1.82
6324224--6324287	20	3.2	20	69	8	67	17	21	21	39	1.93
6324200--6324289	40	2.4	36	80	12	94	17	20	18	43	1.88
6324501--6324550	20	2.5	20	80	0	73	22	18	22	38	1.94
6324804--6324837	12	2.9	12	86	4	52	17	41	5	35	1.74
6325620--6325656	12	3.1	12	100	0	74	72	0	27	0	0.84
6327948--6328074	33	3.8	33	84	4	184	44	19	21	14	1.87
6327949--6328081	66	2.0	66	94	0	230	42	19	21	16	1.89
6328103--6328149	19	2.5	19	89	0	76	12	19	21	46	1.82
6328256--6328292	14	2.6	14	91	0	65	45	24	0	29	1.53
6329669--6329784	21	5.5	21	67	11	58	23	21	32	22	1.98
6329688--6329851	42	3.9	41	81	1	184	23	17	37	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6329679--6329854	84	2.1	84	98	0	343	23	17	37	21	1.94
6330092--6330244	78	1.9	79	90	5	245	43	17	13	25	1.86
6331931--6332052	20	6.8	19	66	20	66	42	19	24	13	1.87
6331956--6332052	33	2.9	33	92	1	158	40	22	25	11	1.87
6332053--6332116	19	3.4	19	91	0	101	9	14	25	51	1.71
6332704--6332757	20	2.7	20	97	0	99	25	18	24	31	1.97
6332746--6332797	21	2.5	21	84	3	70	19	25	19	36	1.95
6332828--6332881	21	2.6	21	96	0	99	29	31	16	22	1.96
6333653--6333775	60	2.0	60	82	0	147	39	14	13	31	1.85
6342308--6342332	13	1.9	13	100	0	50	56	32	12	0	1.36
6355766--6355800	18	1.9	18	100	0	70	0	17	5	77	0.96
6356235--6356275	14	2.9	15	92	7	68	39	0	0	60	0.96
6356271--6356398	3	42.7	3	95	0	229	67	0	0	32	0.97
6356625--6357051	117	3.7	117	88	2	576	29	19	12	39	1.88
6357014--6357207	95	2.1	93	87	1	271	27	17	16	38	1.91
6357109--6357397	113	2.6	112	95	2	515	28	19	13	38	1.90
6358140--6358600	82	5.7	82	90	6	767	37	23	12	26	1.90
6359363--6359408	19	2.6	18	86	10	60	50	13	6	30	1.66
6371145--6371183	20	2.0	20	84	0	51	69	12	0	17	1.19
6371970--6372006	19	1.9	19	100	0	74	0	16	5	78	0.93
6372459--6372499	14	2.9	15	92	7	68	39	0	0	60	0.96
6372495--6372568	3	25.0	3	94	2	132	64	0	1	33	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6373032--6373100	32	2.2	31	84	10	86	18	26	30	24	1.98
6373045--6373100	15	3.6	15	72	9	58	17	26	32	23	1.97
6375839--6375913	21	3.7	20	81	3	78	28	25	17	29	1.97
6375901--6376053	20	7.7	20	88	3	75	33	27	19	18	1.96
6375897--6376052	40	3.9	40	87	3	136	33	28	19	19	1.96
6375901--6376053	60	2.6	59	86	3	207	33	27	19	18	1.96
6376432--6376502	33	2.2	33	94	0	124	11	23	16	47	1.79
6376581--6376687	21	5.6	20	73	17	102	46	18	21	13	1.83
6376642--6376698	14	3.7	14	75	20	60	43	22	24	8	1.81
6376635--6376714	33	2.4	33	95	0	142	47	22	21	8	1.78
6376710--6376837	19	7.1	19	71	19	87	10	25	18	45	1.82
6376732--6376788	14	3.7	14	75	20	60	8	24	22	43	1.81
6376715--6376837	33	3.5	33	88	10	165	10	24	18	46	1.81
6376773--6376837	21	3.1	21	82	4	96	10	26	15	47	1.78
6378841--6378885	21	2.1	21	87	0	63	31	28	24	15	1.96
6379635--6379772	31	4.6	31	85	7	203	20	20	22	36	1.95
6379635--6379768	28	4.5	28	82	11	160	20	20	22	36	1.95
6379637--6379785	61	2.5	58	85	6	192	21	20	22	36	1.95
6382740--6382784	21	2.1	21	87	0	63	31	28	24	15	1.96
6383539--6383670	31	4.3	31	93	0	221	21	21	21	36	1.95
6385071--6385097	14	1.9	14	100	0	54	48	29	14	7	1.71
6385004--6385113	52	2.1	53	84	1	141	48	26	16	9	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6385036--6385113	19	4.4	19	81	15	103	47	28	16	7	1.74
6385109--6385263	19	8.7	19	73	14	125	8	20	24	47	1.77
6385114--6385206	33	2.8	33	90	0	150	8	19	23	48	1.76
6385131--6385187	14	3.7	14	72	20	51	7	21	26	45	1.77
6385109--6385263	33	4.4	37	79	9	114	8	20	24	47	1.77
6385145--6385263	56	2.2	52	88	8	168	7	19	26	47	1.76
6385671--6385789	42	2.8	42	79	5	98	23	36	16	23	1.95
6387173--6387208	14	2.6	14	95	0	63	33	0	22	44	1.53
6387298--6387385	19	4.8	19	82	14	123	47	15	22	13	1.81
6387298--6387404	53	2.0	53	98	1	207	45	16	24	13	1.83
6387394--6387652	19	14.7	19	78	18	294	14	22	17	45	1.84
6387400--6387666	84	3.1	85	90	8	430	13	22	17	46	1.83
6387400--6387652	71	3.6	68	79	13	259	13	22	17	46	1.83
6387577--6387681	53	2.0	53	81	7	124	13	19	20	47	1.82
6389886--6389910	12	2.1	12	100	0	50	0	28	0	72	0.86
6390080--6390126	24	2.0	24	87	8	69	38	21	14	25	1.92
6390675--6390713	20	1.9	21	89	5	62	23	7	43	25	1.80
6390828--6390998	20	8.7	19	85	7	177	21	18	26	33	1.97
6390829--6390998	40	4.3	39	88	8	229	21	18	26	32	1.97
6390823--6390998	60	3.0	60	85	5	225	21	18	26	33	1.96
6390829--6391017	40	4.8	40	86	5	226	20	18	26	34	1.96
6390985--6391038	20	2.7	19	85	5	63	12	18	24	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6390849--6391095	78	3.1	78	80	10	238	19	18	26	36	1.94
6393133--6393246	57	2.0	57	100	0	228	47	8	8	35	1.66
6398832--6398939	39	2.7	39	84	8	121	30	3	7	58	1.43
6399110--6399136	2	13.5	2	100	0	54	51	0	0	48	1.00
6400403--6400455	21	2.4	21	81	6	52	58	0	0	41	0.98
6401658--6401691	9	3.6	9	88	11	50	41	2	0	55	1.15
6407247--6407325	39	2.1	38	81	11	90	22	12	11	53	1.71
6411615--6411730	59	2.0	59	86	1	162	39	15	11	33	1.83
6424023--6424223	50	4.0	50	92	0	285	37	5	27	29	1.79
6428151--6428222	31	2.3	32	88	7	112	41	12	6	38	1.70

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