genome.fa.s8027.2.7.7.80.10.50.1000.30.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  30  of  38  ( 4505 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)
6147070--6147146	39	2.1	37	82	7	93	46	3	1	48	1.28
6147277--6147347	31	2.3	31	95	4	126	67	1	5	25	1.20
6154545--6154615	29	2.4	29	83	2	88	42	5	21	30	1.76
6157803--6157921	3	38.7	3	81	8	114	63	2	5	28	1.28
6157797--6157916	59	2.1	57	89	6	179	62	2	5	30	1.29
6160838--6160867	15	2.1	15	93	6	53	36	16	13	33	1.88
6164820--6164881	25	2.5	26	79	7	67	27	25	19	27	1.99
6165275--6165342	34	2.0	34	91	0	109	13	7	32	47	1.70
6165220--6165471	134	1.9	132	82	8	314	20	7	26	45	1.78
6165345--6165402	30	1.9	30	85	0	80	17	10	25	46	1.79
6165355--6165428	31	2.4	30	80	6	76	18	8	22	50	1.74
6166010--6166056	18	2.8	16	83	6	58	31	27	6	34	1.82
6172686--6172719	8	4.2	8	96	0	59	23	2	11	61	1.43
6180393--6180436	20	2.2	20	87	0	61	45	15	15	22	1.85
6182833--6182870	20	2.0	19	85	10	51	47	15	5	31	1.68
6183680--6183721	19	2.2	19	100	0	84	35	28	19	16	1.93
6185088--6185122	2	17.5	2	100	0	70	51	0	0	48	1.00
6186510--6186600	3	29.7	3	91	4	146	67	2	0	30	1.03
6186508--6186600	34	2.7	34	93	3	152	66	2	0	31	1.03
6186510--6186600	40	2.3	40	96	0	164	67	2	0	30	1.03
6188025--6188083	24	2.4	24	78	18	68	38	1	20	38	1.63
6188025--6188082	25	2.4	25	80	16	68	39	1	18	39	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6189201--6189241	21	1.9	22	90	5	66	26	19	17	36	1.94
6191307--6191347	3	14.0	3	85	14	59	0	29	2	68	1.03
6191311--6191352	20	2.1	20	86	8	59	2	23	2	71	1.10
6196230--6196322	43	2.1	43	82	5	107	34	2	13	49	1.55
6197144--6197169	2	13.0	2	100	0	52	50	0	0	50	1.00
6198590--6198628	2	19.5	2	100	0	78	51	0	0	48	1.00
6198726--6198772	16	2.7	17	87	12	69	53	6	0	40	1.27
6198732--6198769	16	2.4	16	100	0	76	55	5	0	39	1.23
6203642--6203680	13	2.9	13	85	7	51	5	0	15	79	0.90
6209148--6209172	12	2.1	12	100	0	50	28	0	0	72	0.86
6211332--6211434	12	8.6	12	66	19	54	34	23	21	20	1.96
6211328--6211439	24	4.7	24	90	0	170	34	22	21	21	1.97
6213936--6213977	18	2.3	18	91	0	66	11	21	47	19	1.81
6216006--6216117	24	4.7	24	92	4	163	33	22	21	22	1.97
6216010--6216094	12	7.1	12	65	19	52	34	22	21	22	1.97
6218427--6218456	13	2.3	13	94	0	51	10	20	53	16	1.71
6224070--6224109	20	2.0	20	85	0	53	70	2	2	25	1.13
6224075--6224144	18	3.8	19	75	17	67	65	2	1	30	1.15
6224076--6224164	38	2.4	36	80	15	101	64	2	2	31	1.18
6224082--6224154	38	1.9	38	86	10	105	63	2	1	32	1.17
6225717--6225765	22	2.1	22	81	7	53	57	2	2	38	1.22
6227167--6227260	12	7.8	12	93	2	88	63	0	2	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6227242--6227273	15	2.1	15	100	0	64	62	0	12	25	1.30
6227160--6227248	3	29.7	3	95	0	160	64	0	0	35	0.94
6227554--6228194	113	5.7	113	97	0	1104	28	19	12	38	1.89
6228869--6229061	52	3.7	52	99	0	377	37	23	15	23	1.92
6228921--6229255	182	1.8	182	99	0	661	36	23	14	25	1.93
6229103--6229243	52	2.7	52	100	0	282	38	24	14	22	1.92
6228790--6229243	234	1.9	234	97	0	863	37	22	14	25	1.92
6230014--6230058	18	2.6	17	89	6	65	55	6	6	31	1.52
6241749--6241797	22	2.1	22	81	7	53	57	2	2	38	1.22
6243300--6243331	15	2.1	15	100	0	64	62	0	12	25	1.30
6243205--6243306	3	33.7	3	92	2	168	63	0	0	36	0.94
6244229--6244488	129	2.0	130	97	0	495	43	9	16	31	1.79
6245978--6246052	37	2.0	38	81	5	89	17	9	40	33	1.81
6254875--6254907	6	5.5	6	100	0	66	0	33	0	66	0.92
6255154--6255182	15	1.9	15	100	0	58	27	13	20	37	1.91
6256528--6256568	18	2.2	18	86	4	55	56	2	0	41	1.13
6256763--6256810	25	1.9	25	100	0	96	45	4	10	39	1.58
6260544--6260608	28	2.4	27	89	5	103	13	10	32	43	1.79
6260539--6260641	32	3.3	32	78	12	115	14	9	33	42	1.78
6261231--6261286	16	3.4	16	85	9	76	26	28	7	37	1.83
6263123--6263185	33	1.9	33	86	0	90	17	49	11	22	1.78
6267979--6268016	20	1.9	20	94	0	67	31	34	15	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6267979--6268188	65	3.2	66	80	9	227	33	23	16	26	1.96
6274007--6274066	23	2.7	21	76	19	52	30	20	21	28	1.98
6276763--6276920	65	2.4	66	84	7	209	31	17	18	32	1.94
6278979--6279048	35	2.0	35	86	5	97	37	15	8	38	1.78
6278979--6279048	18	4.0	17	80	9	79	37	15	8	38	1.78
6279462--6279516	25	2.2	25	96	0	101	32	21	20	25	1.97
6282513--6282582	18	4.0	18	80	9	74	37	17	8	37	1.80
6282996--6283075	25	3.2	25	94	0	142	33	21	18	26	1.96
6283378--6283421	21	2.0	22	82	4	54	38	22	9	29	1.85
6284473--6284518	24	1.9	24	95	0	83	32	13	21	32	1.92
6290115--6290150	16	2.2	17	90	5	56	47	0	2	50	1.15
6290333--6290389	24	2.3	23	80	16	62	68	0	3	28	1.06
6290593--6290635	21	2.0	21	90	0	68	30	16	34	18	1.93
6291333--6291377	20	2.3	20	80	3	56	46	4	2	46	1.35
6292478--6292513	18	1.9	19	94	5	65	0	13	61	25	1.33
6294567--6294661	47	2.0	47	89	4	147	32	18	20	28	1.96
6294574--6294692	47	2.5	47	82	5	134	31	20	21	26	1.97
6296350--6296471	47	2.6	47	77	3	138	26	21	22	30	1.99
6297162--6297198	19	2.1	19	90	10	60	78	0	0	21	0.75
6309329--6309395	3	22.0	3	81	3	62	40	1	1	56	1.17
6310811--6310915	53	2.0	53	81	9	124	27	4	3	63	1.32
6311604--6311668	20	3.3	20	77	10	62	24	7	0	67	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6316250--6316301	19	2.6	21	85	11	65	80	0	17	1	0.80
6318567--6318951	83	4.6	83	95	0	689	26	13	23	36	1.92
6321592--6321646	22	2.5	22	93	0	101	34	10	14	40	1.81
6322322--6323009	76	9.0	76	96	0	1196	22	21	21	34	1.96
6323165--6323228	3	21.0	3	83	3	74	39	0	1	59	1.07
6323165--6323237	18	4.2	16	80	11	67	41	0	1	57	1.07
6324645--6324749	53	2.0	53	81	9	124	27	4	3	63	1.32
6324701--6324776	35	2.2	35	79	9	84	35	3	1	59	1.24
6332782--6332882	29	3.5	29	97	0	193	46	7	6	38	1.60
6333387--6333444	28	2.1	28	100	0	116	37	13	10	37	1.79
6334034--6334213	44	4.1	44	87	0	252	30	21	26	21	1.99
6334289--6334367	24	3.3	24	74	0	68	58	17	6	17	1.59
6336281--6336324	23	1.9	23	95	0	79	27	27	29	15	1.96
6338132--6338175	20	2.1	22	87	8	65	40	22	0	36	1.54
6339480--6339525	22	2.1	22	88	8	67	19	32	21	26	1.97
6339488--6339557	22	3.2	22	81	0	77	15	32	28	22	1.95
6341394--6341431	18	2.1	19	85	5	51	26	5	10	57	1.53
6342072--6342156	30	2.8	29	75	5	80	41	12	9	36	1.76
6351271--6351330	23	2.6	23	97	0	111	38	13	18	30	1.89
6361100--6361226	60	2.1	60	80	4	139	36	10	6	47	1.63
6361144--6361256	60	1.9	60	81	3	138	32	16	6	44	1.73
6367812--6367871	31	1.9	31	96	0	111	41	8	16	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6369035--6369088	2	27.0	2	92	0	90	50	46	0	3	1.19
6369682--6369733	22	2.4	22	96	0	95	48	17	5	28	1.70
6369957--6370015	31	1.9	31	86	3	84	32	13	13	40	1.84
6370610--6370928	134	2.4	134	87	1	433	26	31	16	26	1.97
6371130--6371173	3	14.7	3	100	0	88	34	0	0	65	0.93
6372174--6372336	64	2.5	62	78	11	168	30	17	23	28	1.97
6372302--6372354	19	2.8	19	100	0	106	30	16	30	22	1.96
6373423--6373483	21	2.9	21	80	4	52	31	9	49	9	1.69
6375013--6375109	44	2.2	44	83	7	126	26	20	25	26	1.99
6380908--6381066	64	2.5	64	85	2	194	30	15	23	30	1.96

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