genome.fa.s9462.2.7.7.80.10.50.1000.73.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  73  of  91  ( 10815 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)
16552932--16553190	112	2.3	109	86	3	340	34	18	11	34	1.88
16554844--16554921	2	39.0	2	100	0	156	50	0	0	50	1.00
16564493--16564540	19	2.6	18	83	9	60	37	14	16	31	1.89
16565008--16565054	18	2.7	18	93	3	78	31	8	31	27	1.87
16565460--16565967	268	1.9	265	87	5	753	40	20	11	26	1.86
16569121--16569150	13	2.3	13	94	0	51	36	0	10	53	1.35
16574122--16574730	305	2.0	302	93	1	1040	33	11	18	36	1.86
16578017--16578062	24	1.9	24	86	8	67	26	17	19	36	1.94
16590662--16590719	32	1.9	29	86	13	82	62	8	12	17	1.54
16592484--16592555	29	2.5	29	93	2	119	63	11	6	18	1.48
16594247--16594294	22	2.2	22	84	0	60	62	4	2	31	1.26
16594247--16594304	3	19.0	3	75	10	55	60	5	1	32	1.29
16594247--16594293	19	2.5	19	82	0	58	61	4	2	31	1.27
16594351--16594401	20	2.3	23	75	18	56	39	0	13	47	1.43
16595292--16595323	12	2.7	12	100	0	64	15	6	9	68	1.36
16599047--16599199	78	2.0	78	92	0	252	29	21	12	36	1.90
16601690--16601766	28	2.7	28	83	2	100	45	1	1	51	1.17
16601798--16601837	12	3.1	12	86	13	53	70	0	5	25	1.08
16601964--16602003	13	3.2	13	80	20	57	72	0	0	27	0.85
16601937--16601985	25	1.9	26	83	4	64	55	0	0	44	0.99
16601970--16602009	19	2.1	19	85	0	53	70	0	0	30	0.88
16601751--16602042	83	3.5	82	67	14	202	51	1	2	43	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16602384--16602477	49	1.9	49	86	4	136	17	13	20	48	1.80
16606494--16606784	43	6.8	43	90	2	444	17	27	24	30	1.97
16606494--16606784	85	3.4	85	88	4	435	17	27	24	30	1.97
16606494--16606784	128	2.3	128	91	2	460	17	27	24	30	1.97
16607586--16607622	2	18.5	2	100	0	74	51	0	0	48	1.00
16610239--16610309	2	37.0	2	78	13	69	52	0	1	46	1.09
16611034--16611282	110	2.3	106	86	4	338	23	19	23	33	1.97
16612550--16612589	21	1.9	21	94	0	71	20	22	32	25	1.98
16612866--16612938	35	2.2	33	85	5	92	32	15	28	23	1.95
16615265--16615304	20	2.0	20	90	9	64	17	35	30	17	1.93
16615434--16615473	21	1.9	21	94	0	71	20	22	32	25	1.98
16616433--16616466	11	3.1	11	86	0	50	0	5	5	88	0.64
16616431--16616470	12	3.4	12	86	13	57	0	10	5	85	0.75
16616425--16616473	16	3.1	15	80	8	53	0	12	4	83	0.77
16642741--16642776	11	3.3	11	100	0	72	8	27	0	63	1.23
16643271--16643328	31	1.9	30	85	3	80	34	8	20	36	1.84
16643872--16643920	24	2.0	24	88	0	71	32	14	12	40	1.83
16645827--16645943	40	3.2	40	61	30	96	47	15	3	33	1.62
16645803--16645948	70	2.1	70	97	0	274	47	14	4	33	1.63
16651912--16651950	19	2.0	20	85	5	53	33	12	20	33	1.91
16662972--16663066	29	3.2	29	67	15	77	38	11	10	38	1.76
16662978--16663090	60	1.9	60	90	0	181	41	11	9	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16666467--16666528	27	2.3	27	94	2	106	45	0	14	40	1.45
16666566--16666614	24	2.0	24	88	0	71	36	6	18	38	1.76
16667570--16667645	40	1.9	40	83	5	100	32	9	23	34	1.87
16667835--16667901	25	2.5	27	85	7	84	43	8	14	32	1.77
16668102--16668163	19	3.4	17	81	14	70	67	0	1	30	1.00
16674313--16674592	141	2.0	141	88	1	418	29	11	26	32	1.92
16676938--16677016	25	3.2	25	90	0	122	27	18	20	32	1.96
16677419--16677490	17	4.2	17	81	10	76	38	8	13	38	1.75
16677446--16677489	18	2.5	18	85	10	56	43	11	9	36	1.72
16677419--16677503	17	4.9	17	77	5	73	40	7	15	37	1.74
16677532--16677576	17	2.6	17	96	0	81	40	22	6	31	1.80
16683988--16684112	34	3.7	34	95	0	223	28	17	28	24	1.97
16685605--16685662	29	2.0	29	93	0	98	34	13	20	31	1.92
16687800--16687889	43	2.1	43	87	0	126	37	15	12	34	1.85
16693997--16694034	20	1.9	19	89	5	58	23	18	23	34	1.96
16697372--16697439	30	2.3	30	82	5	84	19	11	25	44	1.84
16697433--16697509	38	2.0	38	92	0	127	12	10	35	41	1.78
16697564--16697628	27	2.4	27	92	0	103	13	6	33	46	1.69
16698104--16698152	18	2.8	17	84	3	62	30	30	6	32	1.82
16706348--16706407	28	2.1	29	93	3	104	51	8	5	35	1.54
16707567--16707834	40	6.7	39	78	10	258	27	22	14	36	1.92
16707650--16707877	120	1.9	120	88	1	350	27	23	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16707564--16707796	80	2.9	80	88	1	342	27	22	14	35	1.93
16707566--16707834	80	3.4	79	83	8	298	27	22	14	36	1.92
16707564--16707877	40	7.9	39	76	12	228	27	21	14	36	1.92
16707913--16708085	19	8.7	19	72	14	111	35	17	10	36	1.84
16707945--16708085	40	3.5	39	84	3	165	37	18	9	34	1.83
16707945--16708075	20	6.6	20	71	12	99	38	18	9	33	1.82
16717462--16718073	306	2.0	306	98	0	1170	23	14	19	42	1.87
16720317--16720363	16	2.8	16	83	6	58	36	4	0	59	1.17
16720317--16720358	16	2.5	17	88	3	59	35	2	0	61	1.09
16726757--16726797	21	2.0	21	85	0	55	31	2	0	65	1.05
16726837--16726867	3	10.3	3	92	0	53	32	3	0	64	1.09
16727338--16727408	23	3.2	24	69	13	62	61	2	0	35	1.10
16727612--16727668	29	1.9	30	82	10	73	59	5	8	26	1.48
16728810--16728883	3	24.3	3	77	2	67	56	2	1	39	1.22
16729119--16729230	45	2.5	45	95	2	199	33	20	23	22	1.97
16729165--16729306	75	1.9	74	84	7	189	33	21	21	23	1.97
16729041--16729471	120	3.6	120	87	2	605	33	20	21	24	1.97
16729361--16729538	45	3.9	45	89	1	248	30	19	24	25	1.98
16730613--16730762	54	2.8	53	85	4	201	25	22	12	40	1.89
16731631--16731788	75	2.1	75	83	5	196	32	21	17	28	1.96
16733722--16733753	16	2.0	16	100	0	64	12	18	25	43	1.85
16733934--16733999	9	7.7	9	88	8	102	0	19	1	78	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16738208--16738642	85	5.1	84	78	12	381	22	22	21	33	1.97
16738208--16738642	128	3.4	126	84	6	504	22	22	21	33	1.97
16738208--16738642	43	10.2	42	80	8	398	22	22	21	33	1.97
16740466--16740498	16	2.1	16	88	11	50	54	9	6	30	1.56
16740600--16741002	177	2.3	176	79	7	397	38	11	8	41	1.72
16741063--16741092	15	1.9	16	93	6	53	40	13	6	40	1.71
16742516--16742562	24	2.0	24	100	0	94	12	44	12	29	1.80
16743617--16743662	19	2.4	19	77	0	56	15	26	6	52	1.67
16748365--16748400	2	18.5	2	94	5	65	50	0	0	50	1.00
16748832--16749028	40	4.9	40	73	13	163	28	20	14	36	1.92
16748843--16749025	80	2.3	80	90	3	280	27	21	15	35	1.94
16749120--16749174	20	2.7	21	77	5	60	40	7	12	40	1.71
16749092--16749187	19	4.9	19	76	9	86	38	14	9	37	1.79
16749113--16749217	40	2.6	40	80	1	111	40	17	8	33	1.80
16750373--16750408	16	2.2	16	95	0	63	52	13	0	33	1.41
16751136--16751204	16	3.9	17	79	9	59	34	15	10	39	1.82
16751147--16751206	16	3.5	17	82	11	68	33	15	13	38	1.86
16755619--16755671	24	2.2	24	96	0	97	43	9	3	43	1.55
16759141--16759346	105	2.0	105	87	1	297	40	16	17	25	1.90
16759373--16759421	18	2.8	16	77	17	53	46	12	22	18	1.82
16759334--16759545	114	1.8	117	89	5	342	39	14	22	23	1.91
16759690--16759722	3	10.7	3	93	6	57	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16759690--16759726	19	1.9	19	94	0	65	35	0	0	64	0.94
16760845--16760875	16	1.9	16	93	0	53	16	9	12	61	1.56
16768214--16768260	20	2.4	20	89	3	78	25	19	17	38	1.92
16768223--16768268	20	2.3	20	88	7	67	28	15	17	39	1.90
16768297--16768335	20	2.0	20	84	0	51	23	23	20	33	1.97
16769470--16769543	23	3.3	23	87	7	100	28	24	20	27	1.99
16769442--16769554	21	5.2	21	81	10	95	29	23	20	26	1.99
16770123--16770246	54	2.3	54	88	5	180	29	20	19	30	1.97
16783062--16783091	14	2.1	14	93	0	51	30	6	13	50	1.67
16785779--16785823	22	2.0	22	100	0	90	55	26	4	13	1.57

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   90   91