genome.fa.s1129.2.7.7.80.10.50.1000.41.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  41  of  89  ( 10573 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)
9084370--9084453	9	10.2	8	73	16	50	35	3	2	58	1.28
9086681--9086750	35	1.9	36	85	5	97	65	5	24	4	1.32
9086791--9086854	2	32.0	2	100	0	128	50	0	0	50	1.00
9087397--9087448	17	3.2	17	75	10	54	50	13	3	32	1.60
9087790--9087822	16	2.1	16	94	0	57	45	9	0	45	1.35
9088481--9088691	92	2.3	92	91	4	338	44	9	14	31	1.78
9089591--9089637	22	2.2	21	84	3	58	23	6	0	70	1.10
9090995--9091057	23	2.7	23	85	0	81	26	17	15	39	1.90
9103299--9103384	23	3.7	23	77	0	91	18	24	20	36	1.95
9103299--9103392	46	2.0	46	85	0	125	20	23	19	37	1.94
9104019--9104066	18	2.3	20	76	23	55	62	8	0	29	1.24
9104150--9104198	19	2.6	19	100	0	98	61	12	4	22	1.48
9107404--9107870	257	1.8	257	95	0	844	31	22	16	28	1.96
9108756--9108794	20	2.0	20	89	0	60	30	33	15	20	1.94
9108841--9108910	26	2.7	26	90	0	113	24	22	22	30	1.99
9117489--9117527	20	2.0	20	89	0	60	30	33	15	20	1.94
9125478--9125516	20	2.0	20	89	0	60	30	33	15	20	1.94
9125534--9125622	45	2.0	46	88	2	135	30	23	17	28	1.97
9131799--9131865	8	9.2	8	70	25	51	37	1	0	61	1.05
9131805--9131865	19	3.1	19	86	9	70	37	1	0	60	1.07
9133973--9134062	46	1.9	48	84	4	121	35	11	21	32	1.88
9140173--9140448	36	7.6	35	77	13	206	38	17	21	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9140205--9140488	36	7.7	36	78	9	252	40	17	20	22	1.92
9140196--9140530	151	2.2	151	92	1	544	39	17	20	23	1.92
9140709--9140770	16	3.9	16	75	17	58	40	1	0	58	1.08
9140715--9140770	7	8.1	7	75	15	55	41	1	0	57	1.09
9142693--9142752	31	1.9	31	93	0	102	40	6	10	43	1.64
9142779--9142839	22	2.8	22	100	0	122	52	14	0	32	1.42
9142801--9143190	80	4.8	80	76	12	393	52	14	0	33	1.44
9142766--9143430	54	12.4	51	75	15	215	51	13	0	34	1.44
9142797--9143085	134	2.2	134	98	0	551	51	13	0	34	1.45
9142931--9142973	22	2.0	22	100	0	86	51	13	0	34	1.42
9142933--9142981	22	2.2	22	88	3	71	55	14	0	30	1.40
9142904--9143430	112	4.8	112	78	13	446	52	13	0	33	1.45
9143038--9143094	18	3.4	18	69	18	59	54	12	0	33	1.38
9143016--9143385	134	2.8	132	85	8	432	52	13	0	33	1.45
9143262--9143430	54	3.1	54	97	0	320	52	11	0	35	1.42
9143313--9143361	22	2.2	22	85	3	62	55	12	0	32	1.37
9143365--9143465	22	4.5	22	71	7	94	51	9	0	38	1.35
9143410--9143542	15	8.5	15	83	11	169	51	2	0	45	1.13
9143356--9143512	69	2.3	67	86	5	210	51	6	0	42	1.27
9143384--9143542	45	3.3	46	82	13	196	50	4	0	44	1.21
9145269--9145306	14	2.7	15	84	12	53	28	2	28	39	1.70
9150690--9150760	18	3.9	18	88	0	106	26	30	19	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9151430--9151494	20	3.5	19	74	20	66	23	16	21	38	1.93
9151429--9151496	35	1.9	35	93	0	118	22	19	20	38	1.94
9156956--9156985	11	2.7	11	100	0	60	26	50	10	13	1.73
9158257--9158356	20	5.5	20	63	22	67	19	16	23	42	1.89
9158256--9158358	35	2.9	35	97	0	188	18	17	22	41	1.90
9159325--9159377	26	2.0	26	92	0	88	20	22	9	47	1.79
9159779--9159854	19	3.8	19	69	17	55	27	22	15	34	1.95
9166179--9166218	20	2.0	20	90	0	62	37	12	22	27	1.90
9173072--9173144	31	2.4	31	88	0	101	32	16	21	28	1.95
9173126--9173198	31	2.4	31	88	4	103	27	30	12	30	1.93
9173786--9173821	18	2.0	18	88	0	54	38	5	2	52	1.39
9174071--9174147	2	38.5	2	100	0	154	49	0	0	50	1.00
9178455--9178495	8	5.2	8	82	5	57	34	0	29	36	1.58
9178566--9179191	128	4.9	128	99	0	1243	22	25	19	32	1.97
9179284--9179338	23	2.4	23	81	6	58	49	0	18	32	1.48
9179595--9179694	34	3.0	33	83	2	128	39	2	4	55	1.30
9180213--9180306	21	4.5	21	90	5	120	21	26	34	18	1.96
9180269--9180319	21	2.4	21	83	6	59	29	21	29	19	1.98
9180310--9180357	21	2.3	21	85	0	60	22	12	39	25	1.89
9182065--9182151	32	2.7	30	79	12	93	62	2	0	35	1.08
9182063--9182174	34	3.3	33	77	9	91	64	3	0	32	1.11
9182065--9182142	33	2.4	32	81	12	97	64	1	0	34	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9183973--9184021	20	2.4	21	83	10	66	26	32	14	26	1.94
9184046--9184121	20	3.8	20	87	0	107	39	22	21	17	1.92
9184105--9184175	19	3.7	19	85	9	99	36	22	12	28	1.91
9185084--9185137	24	2.2	24	93	0	90	20	18	20	40	1.91
9187399--9187434	12	3.0	12	87	0	54	58	22	2	16	1.51
9187744--9187793	20	2.5	20	90	0	73	24	18	18	40	1.91
9187856--9187907	25	2.1	25	88	0	77	30	5	15	48	1.68
9188642--9188728	39	2.2	39	97	0	165	47	20	14	17	1.83
9189028--9189126	52	2.0	49	86	9	139	51	15	1	32	1.50
9190535--9190630	21	4.6	21	76	8	97	21	18	36	22	1.95
9190535--9190630	42	2.3	42	82	7	122	21	18	36	22	1.95
9193218--9193318	40	2.5	39	81	9	116	19	17	23	38	1.93
9193218--9193285	20	3.4	20	95	0	118	19	17	23	39	1.92
9193304--9193358	20	2.8	20	78	10	67	27	12	30	29	1.93
9195213--9195254	21	2.0	20	86	4	57	42	4	0	52	1.22
9195300--9195350	15	3.4	15	83	0	75	37	7	19	35	1.81
9195355--9195398	20	2.2	20	95	0	79	45	6	13	34	1.70
9195701--9195848	25	6.0	23	68	19	68	53	0	0	45	1.10
9195696--9195739	20	2.3	19	84	7	61	59	0	0	40	0.98
9195716--9195791	24	2.9	25	76	16	73	56	1	0	42	1.07
9195700--9195829	25	5.3	25	68	20	78	53	0	0	45	1.11
9195812--9195856	9	4.8	9	81	10	54	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9195808--9195869	29	2.1	29	82	11	74	54	0	0	45	0.99
9196030--9196082	19	2.8	18	88	5	70	41	15	16	26	1.88
9196771--9196814	13	3.3	13	79	17	54	40	9	2	47	1.48
9197063--9197117	19	2.9	18	74	15	58	41	0	29	29	1.56
9197420--9197465	9	5.3	9	80	19	62	32	2	0	65	1.05
9198225--9198285	20	3.0	20	87	4	86	67	0	29	3	1.07
9198233--9198294	27	2.3	27	81	13	67	67	0	29	3	1.06
9198610--9198644	17	2.1	17	94	5	63	48	0	0	51	1.00
9198811--9198844	17	1.9	18	94	5	61	32	0	8	58	1.29
9198935--9198986	20	2.5	21	87	3	70	46	0	0	53	1.00
9199990--9200042	14	3.9	14	80	9	56	33	3	1	60	1.26
9201984--9202067	37	2.3	37	85	0	105	21	17	13	47	1.81
9202913--9203052	70	2.0	70	83	2	174	40	7	6	46	1.57
9203288--9203325	2	19.0	2	94	0	67	47	0	2	50	1.15
9205160--9205257	43	2.2	43	77	12	110	29	6	4	60	1.40
9205223--9205740	43	12.1	43	76	11	379	25	18	5	50	1.69
9205223--9205740	130	4.0	124	79	10	438	25	18	5	50	1.69
9205479--9205551	21	3.4	21	63	17	51	23	19	4	53	1.62
9205223--9205740	173	3.0	172	78	10	524	25	18	5	50	1.69
9209262--9209298	19	1.9	19	88	0	56	35	29	13	21	1.92
9210027--9210071	20	2.2	20	84	0	54	22	17	24	35	1.95
9210039--9210094	20	2.8	20	91	0	85	12	16	21	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9210058--9210101	20	2.2	20	91	0	70	11	13	20	54	1.69
9212014--9212077	20	3.5	20	75	20	75	35	26	18	18	1.94
9212027--9212056	15	2.0	15	100	0	60	40	26	13	20	1.89
9212127--9212199	33	2.2	33	87	0	101	15	17	19	47	1.82
9212191--9212239	20	2.5	20	89	0	71	20	20	24	34	1.96
9212756--9212867	42	2.7	42	78	8	111	22	35	18	23	1.96
9214221--9214257	14	2.6	14	95	0	65	29	0	18	51	1.47
9214221--9214273	27	1.9	28	84	3	72	32	0	18	49	1.48
9214433--9214602	20	8.9	20	78	8	165	27	17	22	32	1.96
9217070--9217123	24	2.2	24	96	0	99	42	20	16	20	1.89

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89