genome.fa.s851.2.7.7.80.10.50.1000.22.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  22  of  31  ( 3618 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)
5186001--5186098	2	49.0	2	100	0	196	50	50	0	0	1.00
5186218--5186479	6	43.7	6	90	0	344	45	47	7	0	1.31
5186218--5186479	8	32.8	8	90	0	344	45	47	7	0	1.31
5185882--5186314	217	2.0	217	97	0	821	42	31	3	22	1.72
5186599--5186643	2	22.5	2	100	0	90	51	48	0	0	1.00
5186438--5186804	161	2.3	161	99	0	725	40	29	3	25	1.71
5186760--5187345	4	147.2	4	89	1	494	38	50	10	0	1.38
5187388--5187814	213	2.0	213	100	0	854	37	6	24	31	1.81
5196190--5196270	40	2.0	40	100	0	162	18	32	24	24	1.97
5200784--5200879	29	3.2	30	68	16	83	31	18	4	45	1.68
5200774--5200886	58	1.9	60	90	3	185	30	18	5	45	1.72
5200774--5200923	60	2.5	59	84	2	158	31	21	4	43	1.71
5203283--5203412	65	2.0	65	89	4	201	47	6	8	36	1.61
5205114--5205300	51	3.6	52	83	2	216	46	15	11	26	1.80
5212680--5212751	3	24.0	3	83	10	85	33	4	0	62	1.14
5212687--5212751	27	2.4	27	100	0	130	33	3	0	63	1.10
5215385--5215421	15	2.4	16	82	13	51	24	0	2	72	0.97
5216972--5217041	35	2.0	34	86	2	95	17	11	10	61	1.56
5217003--5217045	20	2.2	20	86	0	59	20	11	6	60	1.54
5217267--5217351	42	2.0	43	86	6	120	52	12	14	20	1.73
5227215--5227252	20	1.9	20	94	0	67	31	34	15	18	1.92
5227271--5227369	45	2.2	45	80	5	128	26	25	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5227214--5227428	110	2.0	110	82	7	267	28	25	17	28	1.98
5229492--5229535	21	2.1	21	86	0	61	29	27	27	15	1.96
5229561--5229605	22	2.0	22	86	4	63	31	33	26	8	1.87
5230972--5231189	103	2.1	103	99	0	427	25	13	23	37	1.92
5231201--5231273	23	3.3	23	80	3	87	23	23	23	30	1.99
5232230--5232599	123	3.0	121	93	1	614	31	14	19	34	1.92
5236521--5236654	54	2.5	55	81	3	164	35	12	21	30	1.91
5237022--5237076	22	2.5	22	93	0	92	32	18	10	38	1.85
5237754--5238190	123	3.7	120	80	10	535	38	16	21	23	1.92
5237526--5238190	235	2.9	234	88	5	947	37	16	20	24	1.93
5237526--5238190	112	5.8	112	81	9	724	37	16	20	24	1.93
5238394--5238436	22	2.0	21	86	4	59	4	2	11	81	0.93
5238394--5238436	21	2.0	22	86	13	63	4	2	11	81	0.93
5244108--5244152	21	2.1	21	100	0	90	46	26	17	8	1.78
5247230--5247273	21	2.1	21	91	0	70	20	29	22	27	1.99
5256080--5256110	12	2.6	12	100	0	62	25	19	48	6	1.72
5256378--5256427	3	16.7	3	100	0	100	66	0	0	34	0.92
5257543--5257583	20	2.2	19	86	8	57	39	12	14	34	1.84
5258597--5258976	43	8.7	41	75	11	219	25	20	6	48	1.72
5258607--5258933	86	3.8	86	73	10	274	25	20	6	47	1.73
5258811--5258976	45	3.7	44	78	10	158	22	19	6	50	1.71
5260791--5260852	32	1.9	32	96	0	115	27	35	14	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5261401--5261485	29	2.9	29	80	0	98	14	29	38	17	1.89
5262418--5262471	28	2.0	27	82	10	65	40	3	5	50	1.44
5263034--5263075	13	2.9	15	83	16	54	76	2	4	16	1.07
5263576--5263644	3	22.7	3	73	14	52	28	5	1	63	1.26
5267252--5267323	6	12.0	6	96	0	135	16	15	16	51	1.77
5268811--5268856	14	3.1	14	85	11	65	76	2	17	4	1.06
5269711--5269775	25	2.7	24	79	9	60	30	6	3	60	1.37
5271679--5271843	66	2.5	66	87	5	235	32	18	10	38	1.86
5271828--5272128	102	2.9	102	89	0	422	37	16	9	36	1.81
5272618--5272869	139	1.8	139	85	1	353	33	25	16	24	1.96
5272931--5273199	122	2.2	122	83	1	333	34	21	15	28	1.94
5273343--5273412	3	23.0	3	75	13	63	31	5	1	61	1.28
5281571--5281610	21	1.9	21	94	0	71	17	22	22	37	1.94
5282451--5282575	31	4.0	31	91	2	189	37	21	19	21	1.94
5285651--5285675	12	2.1	12	100	0	50	68	0	0	32	0.90
5287659--5287684	8	3.2	8	100	0	52	11	0	0	88	0.52
5292853--5292885	5	6.6	5	100	0	66	81	0	18	0	0.68
5304175--5304213	11	3.5	11	85	3	51	0	10	5	84	0.76
5309242--5309497	133	1.9	133	80	3	300	25	17	26	31	1.97
5309210--5309462	67	3.8	66	78	4	238	25	16	26	32	1.96
5309348--5309497	67	2.2	66	77	6	151	25	17	28	29	1.97
5309710--5309757	17	2.7	18	75	12	55	64	6	12	16	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5309766--5309798	17	2.0	17	88	5	50	69	12	9	9	1.36
5312574--5312607	6	5.7	6	92	0	50	44	0	5	50	1.26
5314965--5314998	5	6.8	5	100	0	68	38	20	0	41	1.53
5316335--5316378	23	1.9	23	86	9	63	65	4	0	29	1.12
5319689--5319750	2	31.0	2	100	0	124	50	0	0	50	1.00
5335872--5335918	24	2.0	24	83	8	60	34	4	17	44	1.68
5337411--5337510	32	3.1	32	81	2	112	26	8	26	40	1.83
5340541--5340686	32	4.6	32	81	5	143	27	12	23	36	1.90
5353045--5353099	2	27.5	2	92	0	92	47	1	1	49	1.23
5353959--5354038	20	4.0	20	78	3	88	28	26	13	31	1.94
5354173--5354216	22	2.0	22	95	0	79	27	25	4	43	1.74
5360138--5360198	23	2.7	23	84	0	77	29	24	27	18	1.98
5371211--5371262	19	2.6	21	90	6	81	46	7	13	32	1.72
5374450--5374503	17	3.3	16	80	19	67	1	16	5	75	1.07
5374435--5374490	28	2.0	27	83	10	69	5	16	5	73	1.21
5375206--5375257	19	2.6	21	90	6	81	46	7	13	32	1.72
5386090--5386232	71	2.0	71	98	0	277	28	15	25	30	1.96
5387419--5387460	17	2.5	17	84	0	57	64	0	0	35	0.94
5387411--5387470	32	2.0	29	81	15	68	58	1	0	40	1.08
5391165--5391211	2	23.5	2	100	0	94	51	0	0	48	1.00
5393871--5393930	23	2.7	23	86	2	86	50	1	13	35	1.52
5394470--5394517	6	8.3	6	82	13	57	14	0	0	85	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5394468--5394517	17	2.9	18	88	8	77	16	0	0	84	0.63
5395359--5395398	4	10.2	4	89	5	55	75	5	0	20	0.99
5399367--5399421	25	2.1	28	83	10	71	10	20	0	69	1.18
5401439--5401478	2	20.0	2	94	0	71	50	47	0	2	1.14
5401498--5401705	4	52.0	4	96	0	380	50	23	0	26	1.50
5401760--5401802	22	2.0	22	90	0	68	25	13	16	44	1.85
5407631--5407676	21	2.2	21	92	0	74	28	36	15	19	1.92
5410832--5410863	2	16.0	2	100	0	64	50	0	0	50	1.00
5411405--5411543	72	1.9	72	91	0	224	33	13	15	37	1.86
5411567--5411713	78	1.9	78	91	0	240	36	13	13	36	1.84
5411408--5411723	172	1.9	166	86	4	452	34	15	15	34	1.89
5412059--5412108	15	3.3	15	80	0	64	20	10	34	36	1.86
5412007--5412183	80	2.2	81	83	3	232	21	8	29	40	1.83
5414136--5414208	29	2.4	31	77	8	80	50	6	5	36	1.52
5414374--5414650	137	2.0	139	98	1	540	31	12	13	41	1.83
5415718--5415775	29	2.0	28	83	3	71	37	0	5	56	1.21
5428167--5428223	13	4.4	13	93	0	87	35	10	21	33	1.87
5428159--5428214	26	2.2	26	86	0	76	35	10	21	32	1.88
5433684--5433737	22	2.5	22	100	0	108	35	16	24	24	1.95
5435279--5435384	32	3.3	31	77	7	106	20	24	25	29	1.99
5436210--5436432	112	2.0	112	100	0	446	30	19	16	33	1.94
5438373--5438431	28	2.1	28	96	0	109	33	16	16	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5438820--5438882	27	2.3	28	83	2	74	46	20	9	23	1.80
5442345--5442370	13	2.0	13	100	0	52	46	23	7	23	1.78
5442393--5442418	13	2.0	13	100	0	52	46	15	0	38	1.46
5442629--5442676	17	3.0	15	77	14	51	56	27	2	14	1.50
5444643--5444724	21	3.8	21	78	10	67	17	24	34	24	1.96
5452258--5452325	2	34.0	2	100	0	136	50	0	0	50	1.00
5458316--5458363	20	2.4	19	83	13	53	41	22	0	35	1.54
5459518--5459581	31	2.1	31	82	5	76	29	17	4	48	1.67
5459537--5459605	30	2.3	31	85	5	88	28	17	7	46	1.75
5462070--5462123	2	27.0	2	100	0	108	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