genome.fa.s8242.2.7.7.80.10.50.1000.66.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  66  of  73  ( 8740 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)
15189922--15189965	19	2.3	20	81	18	58	0	15	2	81	0.78
15189949--15190097	17	8.9	16	69	15	97	4	18	3	73	1.13
15189952--15190073	33	3.6	33	75	10	129	4	18	4	72	1.20
15189944--15190079	38	3.8	37	71	24	121	4	19	3	72	1.16
15189942--15190097	69	2.4	65	88	9	235	3	18	3	74	1.11
15189946--15190099	7	19.6	8	66	24	62	3	18	3	74	1.12
15190056--15190098	12	3.4	12	81	18	52	2	13	0	83	0.74
15191209--15191298	38	2.4	38	83	5	103	0	17	7	74	1.05
15191225--15191276	23	2.2	24	83	10	63	0	15	7	76	0.99
15192943--15192980	13	2.9	13	92	0	58	34	7	13	44	1.72
15193557--15193585	12	2.4	12	100	0	58	0	41	31	27	1.56
15194580--15194617	20	1.9	20	88	0	58	13	26	36	23	1.91
15201587--15201636	27	1.9	25	84	8	64	58	6	22	14	1.58
15215901--15216007	50	2.1	52	82	6	130	42	14	11	31	1.82
15219080--15219181	54	1.9	53	95	2	186	17	20	24	37	1.94
15242591--15242672	31	2.6	31	83	9	105	47	3	1	47	1.27
15250041--15250228	80	2.4	80	86	7	242	42	17	18	21	1.89
15250569--15250663	41	2.3	42	83	8	115	31	15	22	30	1.95
15250486--15250749	38	6.8	38	73	10	117	33	15	21	30	1.94
15252108--15252539	200	2.2	200	92	2	706	30	17	16	35	1.93
15252887--15252926	3	13.0	3	89	5	53	40	0	0	60	0.97
15254024--15254141	58	2.0	58	100	0	236	27	10	14	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15258573--15258767	103	1.9	102	82	8	243	31	13	21	33	1.92
15261131--15261170	2	20.0	2	100	0	80	50	0	0	50	1.00
15265743--15265789	20	2.4	19	93	6	85	55	14	4	25	1.58
15267249--15267352	29	3.6	29	89	2	156	35	24	6	33	1.82
15274617--15274747	29	4.5	29	81	1	156	34	19	6	40	1.76
15282155--15282198	20	2.2	20	100	0	88	20	25	27	27	1.99
15290257--15290284	13	2.2	13	100	0	56	21	25	21	32	1.98
15291765--15291789	8	3.1	8	100	0	50	12	12	36	40	1.79
15295963--15296049	29	3.0	29	100	0	174	44	24	3	27	1.69
15308837--15308870	17	2.0	17	88	0	50	26	29	11	32	1.92
15314446--15314484	2	19.5	2	100	0	78	48	0	0	51	1.00
15322586--15322625	2	20.0	2	100	0	80	50	0	0	50	1.00
15326805--15328348	519	3.0	519	94	1	2730	38	10	15	35	1.81
15328829--15328868	20	2.0	20	100	0	80	20	20	25	35	1.96
15329600--15329639	21	1.9	21	100	0	80	42	10	10	37	1.72
15330332--15330388	20	2.8	20	73	24	57	47	10	15	26	1.78
15335436--15335486	22	2.3	22	100	0	102	23	37	13	25	1.92
15337162--15337194	16	2.0	17	94	5	59	36	21	6	36	1.78
15356503--15356535	17	1.9	17	100	0	66	27	24	12	36	1.91
15357214--15357238	10	2.5	10	100	0	50	52	0	0	48	1.00
15357478--15357545	31	2.2	31	89	0	100	29	10	22	38	1.87
15358095--15358135	2	21.5	2	90	9	68	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15358303--15358345	23	1.9	23	90	4	70	46	0	0	53	1.00
15358317--15358481	80	2.0	81	97	1	314	41	6	2	49	1.40
15358455--15358626	86	2.0	86	100	0	344	44	15	10	30	1.80
15358639--15358732	42	2.2	42	92	0	152	31	27	14	25	1.95
15364656--15364763	52	2.1	52	100	0	216	22	12	28	36	1.91
15366426--15366500	39	1.9	39	86	0	105	37	8	10	44	1.69
15366669--15366743	39	1.9	39	86	0	105	37	8	10	44	1.69
15366405--15366887	243	2.0	243	98	0	939	38	12	14	34	1.84
15367334--15367365	14	2.3	14	94	0	55	53	0	9	37	1.34
15372159--15372228	34	2.1	32	89	5	104	21	31	15	31	1.95
15372576--15372617	20	2.1	20	95	0	75	14	28	40	16	1.88
15375586--15375652	34	2.0	32	88	5	98	22	28	16	32	1.95
15376013--15376050	19	2.1	19	85	5	51	18	34	26	21	1.96
15378875--15380215	404	3.3	403	87	5	1942	33	16	10	39	1.83
15383417--15383443	2	13.5	2	100	0	54	51	0	0	48	1.00
15383793--15383818	3	8.7	3	100	0	52	0	34	0	65	0.93
15384838--15384885	21	2.3	21	92	0	78	20	12	29	37	1.90
15387673--15387715	2	21.5	2	100	0	86	51	0	0	48	1.00
15401336--15401375	7	5.6	7	84	3	53	67	2	2	27	1.16
15403264--15403517	125	2.0	125	86	0	355	38	17	11	32	1.85
15403820--15403882	31	2.0	31	96	0	117	46	12	11	30	1.77
15404064--15404091	14	2.0	14	100	0	56	64	21	0	14	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15407354--15407418	22	2.9	22	81	6	69	44	3	1	50	1.26
15407372--15407418	23	2.1	22	88	4	67	46	4	0	48	1.21
15407850--15408088	119	2.0	119	100	0	478	46	10	17	24	1.80
15411445--15411614	85	2.0	85	100	0	340	31	21	14	32	1.93
15418308--15418371	16	4.0	16	95	0	110	21	25	0	53	1.46
15419152--15419206	16	3.4	16	100	0	110	25	18	30	25	1.98
15419841--15419923	22	3.8	22	80	0	103	25	21	21	31	1.98
15425058--15425111	27	2.2	25	84	15	69	7	12	25	53	1.65
15434782--15434851	24	2.9	24	78	0	77	45	17	11	25	1.81
15434757--15434851	48	2.0	47	83	2	118	45	16	13	24	1.84
15435543--15435642	30	3.5	28	83	5	85	44	17	7	32	1.75
15435549--15435697	29	5.2	30	83	6	157	42	19	5	32	1.74
15435549--15435697	59	2.6	58	80	6	160	42	19	5	32	1.74
15438970--15439014	23	2.0	23	86	0	63	24	24	26	24	2.00
15439529--15439571	20	2.1	21	82	4	52	48	9	2	39	1.48
15440616--15440660	21	2.1	21	87	0	63	15	24	28	31	1.96
15445083--15445152	24	2.9	24	78	0	77	45	17	11	25	1.81
15445058--15445152	48	2.0	47	83	2	118	45	16	13	24	1.84
15445834--15445906	29	2.5	30	80	6	87	43	20	5	30	1.74
15445915--15446006	29	3.2	29	87	4	123	39	23	7	29	1.83
15451826--15451904	38	2.1	38	95	0	140	37	21	12	27	1.90
15453318--15453379	20	3.2	20	90	2	90	16	48	25	9	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15453303--15453362	15	3.7	15	74	23	59	15	46	26	11	1.79
15457074--15457111	18	2.1	18	90	9	60	15	26	23	34	1.95
15459802--15459873	3	24.0	3	91	0	117	36	1	0	62	1.04
15459895--15459930	3	12.7	3	94	5	58	72	0	0	27	0.85
15460354--15460395	15	2.8	15	89	7	59	76	2	21	0	0.90
15460354--15460395	20	2.1	20	86	8	59	76	2	21	0	0.90
15461950--15461992	19	2.3	19	84	8	61	23	2	0	74	0.93
15461949--15462013	16	4.0	15	78	13	67	26	1	0	72	0.94
15461949--15462012	17	3.6	19	82	14	66	26	1	0	71	0.94
15463429--15463470	15	3.0	14	83	10	50	19	19	7	54	1.66
15466714--15466758	23	2.0	23	95	0	81	66	13	15	4	1.39
15466753--15466820	8	7.6	9	76	15	52	82	1	14	1	0.82
15466748--15466821	17	4.1	18	81	10	89	81	1	16	1	0.84
15466744--15466816	21	3.3	21	72	12	58	79	1	17	1	0.88
15466753--15466821	10	6.5	10	73	18	52	82	1	14	1	0.81
15468868--15469100	114	2.0	114	91	0	376	33	15	21	30	1.94
15470054--15470284	73	3.2	73	97	0	435	31	18	21	29	1.97
15471626--15471702	22	3.5	22	87	0	109	31	14	15	38	1.87
15472103--15473580	115	13.0	114	90	3	1859	37	14	18	29	1.91
15473548--15473731	84	2.2	82	81	3	208	38	16	17	27	1.91
15473897--15473974	3	26.0	3	94	0	138	32	1	0	66	1.00
15473995--15474019	13	1.9	13	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15474452--15474493	15	2.8	15	89	7	59	76	2	21	0	0.90
15474452--15474493	20	2.1	20	86	8	59	76	2	21	0	0.90
15475300--15475341	14	2.8	15	82	7	50	19	4	7	69	1.31
15476560--15476632	31	2.4	30	88	2	101	26	24	12	36	1.91
15478133--15478209	31	2.5	31	87	2	102	25	23	11	38	1.89
15479200--15479242	21	2.0	23	86	9	63	27	20	16	34	1.94
15480342--15480390	20	2.4	21	76	10	57	36	14	18	30	1.90
15487275--15487356	34	2.4	33	78	8	83	73	2	8	15	1.18
15487400--15487504	38	2.7	37	73	16	97	64	2	5	26	1.30
15487400--15487494	47	2.1	45	82	7	111	66	2	6	25	1.26

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