genome.fa.s8356.2.7.7.80.10.50.1000.44.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  44  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)
10150456--10150665	55	3.8	55	88	2	314	28	15	18	37	1.92
10150456--10150665	111	1.9	110	89	2	323	28	15	18	37	1.92
10154949--10154993	20	2.2	20	80	0	54	46	2	4	46	1.35
10166057--10166246	37	5.0	37	74	11	170	45	5	8	40	1.58
10166064--10166244	76	2.4	75	83	4	222	47	6	7	38	1.57
10166239--10166288	20	2.5	19	78	18	57	50	2	4	44	1.32
10166306--10166383	19	4.2	19	72	18	65	32	0	3	64	1.12
10166306--10166401	29	3.2	29	74	21	83	30	1	3	65	1.15
10166310--10166386	10	8.3	9	75	16	68	31	0	3	64	1.11
10166306--10166405	7	14.1	7	76	20	68	30	1	3	66	1.13
10173283--10175851	4	645.2	4	99	0	5054	50	0	24	25	1.50
10176074--10176166	32	2.9	32	76	12	102	24	13	24	36	1.92
10176074--10176164	31	2.9	31	79	11	96	25	14	25	35	1.93
10179385--10179470	27	3.8	24	66	26	69	75	0	10	13	1.04
10179406--10179466	14	4.2	15	74	14	56	77	0	8	14	0.99
10179394--10179484	27	3.2	29	77	14	82	76	0	9	13	1.01
10179360--10179484	30	4.1	30	67	19	80	74	0	8	16	1.10
10179444--10179593	50	2.9	51	73	15	130	71	0	8	20	1.15
10180910--10180946	7	5.3	7	96	0	65	62	0	13	24	1.31
10180897--10180955	21	2.9	21	82	2	75	67	1	8	22	1.26
10180897--10180950	7	7.9	7	91	2	56	66	1	9	22	1.30
10181009--10181328	37	8.6	36	80	12	310	41	7	5	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10181009--10181328	36	8.6	36	82	10	353	41	7	5	45	1.54
10185179--10185219	12	3.5	12	83	3	57	26	2	2	68	1.15
10185468--10185516	18	2.7	19	77	22	52	42	4	0	53	1.20
10186085--10186124	21	2.0	21	90	5	64	47	2	0	50	1.14
10186120--10186169	20	2.4	21	83	9	59	28	4	2	66	1.21
10188385--10188425	15	2.9	14	80	20	57	21	12	7	58	1.58
10195977--10196034	22	2.6	22	94	0	98	31	17	15	36	1.91
10196701--10196949	73	3.4	72	90	3	354	26	22	21	29	1.99
10197005--10197436	123	3.6	114	80	10	395	39	14	20	25	1.91
10197114--10197436	123	2.6	123	87	4	429	39	14	20	24	1.90
10197357--10197712	139	2.6	139	83	3	423	40	14	18	27	1.89
10197962--10198038	39	2.0	39	92	0	127	22	42	18	16	1.89
10199541--10199581	12	3.5	12	84	15	59	29	0	2	68	1.03
10199504--10199580	23	3.5	22	71	20	70	31	3	1	63	1.20
10199519--10199581	11	5.8	11	75	17	60	28	3	1	66	1.16
10199831--10199879	18	2.7	19	77	22	52	42	4	0	53	1.20
10206388--10206748	199	1.8	199	88	2	555	34	10	14	40	1.80
10207719--10207804	12	7.2	12	82	0	100	8	37	0	54	1.30
10207719--10207798	36	2.2	36	88	0	115	7	37	0	55	1.29
10207714--10207787	24	3.1	24	94	0	130	8	37	0	54	1.30
10210173--10210212	20	2.0	20	90	0	62	32	15	15	37	1.88
10209891--10211001	197	5.7	197	87	3	1465	31	15	13	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10209891--10211001	591	1.9	587	87	3	1651	31	15	13	39	1.86
10210959--10211036	20	3.8	20	78	8	77	26	16	14	42	1.86
10210983--10211036	21	2.6	21	83	13	76	22	16	14	46	1.84
10210962--10211077	20	5.7	21	70	18	66	27	14	13	43	1.83
10213400--10213428	2	14.5	2	100	0	58	51	0	0	48	1.00
10214017--10214090	20	3.7	20	80	3	94	40	18	22	17	1.91
10214034--10214104	21	3.4	21	80	3	99	42	18	23	15	1.88
10214017--10214106	41	2.2	41	100	0	180	40	17	24	17	1.91
10214095--10214172	41	1.9	41	83	0	102	39	19	16	24	1.91
10214140--10214192	20	2.7	20	87	0	79	28	26	18	26	1.98
10214380--10214423	22	2.0	22	86	0	61	20	40	15	22	1.90
10214673--10214710	20	1.9	20	88	0	58	13	15	21	50	1.78
10216030--10216074	18	2.5	18	88	0	72	26	44	15	13	1.83
10216547--10216592	20	2.3	20	85	7	58	36	26	19	17	1.94
10216602--10216659	14	3.9	14	79	16	71	48	24	17	10	1.78
10216586--10216676	32	2.8	33	94	3	166	47	21	18	12	1.81
10216693--10216750	14	3.9	14	79	16	71	8	17	25	48	1.75
10216688--10216766	32	2.4	33	95	2	142	10	18	24	46	1.80
10216707--10216824	20	6.4	19	77	11	95	13	20	24	41	1.88
10218819--10218886	19	3.8	19	85	14	101	47	17	22	13	1.82
10218905--10218962	20	2.9	20	94	0	98	17	22	22	37	1.93
10220022--10220075	24	2.2	24	90	0	81	24	16	20	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10220250--10220274	12	2.1	12	100	0	50	72	0	28	0	0.86
10222567--10222658	19	5.4	19	68	24	87	43	18	20	17	1.88
10222567--10222678	33	3.4	33	83	4	163	41	18	23	16	1.89
10222837--10222873	14	2.6	14	91	0	65	45	24	0	29	1.53
10224235--10224301	21	3.2	21	68	4	55	19	20	35	23	1.95
10224235--10224357	42	2.9	41	80	7	113	22	17	36	22	1.95
10226382--10226480	33	3.0	33	87	1	135	38	26	24	11	1.88
10226357--10226541	19	10.1	19	75	14	165	43	22	22	11	1.86
10226452--10226541	39	2.3	38	94	1	153	46	22	20	11	1.81
10226537--10226584	20	2.5	19	77	12	53	10	16	27	45	1.80
10227121--10227198	41	1.9	41	89	0	120	23	15	21	39	1.91
10227102--10227195	20	4.7	20	80	2	89	24	17	24	34	1.96
10227164--10227276	41	2.8	41	89	2	138	19	22	19	38	1.93
10227184--10227259	21	3.7	21	76	3	91	15	23	18	42	1.89
10227210--10227276	20	3.3	20	79	4	89	17	22	17	41	1.90
10227493--10227521	12	2.5	12	94	5	51	55	17	6	20	1.65
10228539--10228613	31	2.4	32	82	13	93	37	0	1	61	1.05
10228540--10228639	45	2.2	45	78	10	105	35	1	3	61	1.18
10230331--10230378	21	2.3	21	85	0	60	25	39	12	22	1.89
10230382--10230475	21	4.5	21	92	5	129	18	35	26	20	1.95
10230996--10231092	33	2.9	34	85	3	133	55	4	3	37	1.35
10230994--10231099	34	3.2	33	82	8	133	54	4	2	37	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10231478--10231956	126	3.8	126	98	0	922	32	20	26	21	1.97
10232024--10232064	8	5.2	8	82	5	57	36	29	0	34	1.58
10235058--10235097	13	3.2	13	89	7	64	45	0	0	55	0.99
10237006--10237082	31	2.6	28	80	10	82	22	22	5	50	1.68
10242795--10242829	12	2.9	12	86	0	52	31	0	0	68	0.90
10244869--10244906	19	2.0	19	89	0	58	36	7	2	52	1.45
10247898--10247947	8	5.7	9	81	15	52	40	0	2	58	1.10
10247901--10247933	2	16.5	2	87	12	50	45	0	3	51	1.16
10247978--10248014	17	2.1	18	90	5	58	13	0	5	81	0.86
10248396--10248470	33	2.3	32	77	11	80	12	8	5	74	1.20
10248464--10248495	4	8.5	4	86	13	50	25	0	0	75	0.81
10248448--10248501	10	5.3	10	76	12	56	24	1	0	74	0.92
10248448--10248495	18	2.6	19	90	3	71	22	2	0	75	0.91
10250240--10250281	17	2.5	16	88	11	66	0	23	0	76	0.79
10251041--10251303	95	2.7	95	85	6	316	34	15	17	32	1.91
10252919--10253537	84	7.3	84	83	2	706	33	24	19	22	1.97
10252919--10253546	252	2.5	252	85	2	821	33	24	19	22	1.97
10252919--10253546	168	3.7	168	86	1	819	33	24	19	22	1.97
10255176--10255231	29	2.0	28	82	10	69	19	5	0	75	1.00
10255198--10255296	21	4.8	21	72	10	62	24	5	1	69	1.14
10255251--10255331	6	13.2	6	74	23	71	17	2	2	77	0.98
10255225--10255378	56	2.8	55	71	11	136	24	3	3	68	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10255159--10255393	115	2.0	116	78	16	243	24	5	2	68	1.21
10255456--10255480	9	2.8	9	100	0	50	8	0	0	92	0.40
10256965--10257022	23	2.5	24	80	5	66	51	1	1	44	1.21
10259007--10259080	37	2.1	36	87	7	107	25	5	2	66	1.27
10259339--10259377	15	2.6	14	84	11	51	17	0	2	79	0.84
10262436--10262487	11	4.5	12	81	9	56	76	3	19	0	0.93
10264144--10264215	37	1.9	37	88	0	108	26	20	13	38	1.90
10264231--10264456	36	6.4	36	76	11	218	26	19	13	40	1.88
10264144--10264422	101	2.8	101	83	2	335	28	18	12	40	1.87
10264251--10264510	138	1.9	138	86	1	378	26	19	12	40	1.88

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