genome.fa.s1129.2.7.7.80.10.50.1000.68.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  68  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)
16184770--16184829	23	2.7	23	84	5	79	23	26	21	28	1.99
16187167--16187319	64	2.4	65	81	3	166	30	20	17	31	1.96
16188456--16188509	2	27.0	2	100	0	108	50	0	0	50	1.00
16197742--16198100	131	2.7	131	83	3	434	25	18	31	25	1.97
16198102--16198248	66	2.2	66	84	2	179	36	14	21	27	1.93
16198204--16198278	30	2.5	30	88	0	123	34	12	22	30	1.91
16198468--16198544	37	2.1	37	85	9	104	37	12	16	32	1.87
16198896--16198936	16	2.6	15	85	11	55	19	2	26	51	1.59
16199969--16199993	2	12.5	2	100	0	50	48	0	0	52	1.00
16206034--16206067	3	11.3	3	93	0	59	64	0	2	32	1.08
16209327--16209368	21	2.0	21	100	0	84	33	14	19	33	1.91
16210925--16210964	14	2.9	14	85	3	55	57	27	12	2	1.48
16211220--16211261	14	3.0	14	92	0	66	57	14	14	14	1.66
16212152--16212202	20	2.5	20	100	0	102	21	3	31	43	1.71
16212177--16212248	28	2.7	28	78	6	87	23	2	26	47	1.65
16212651--16212702	3	17.3	3	100	0	104	67	0	0	32	0.91
16217580--16217629	20	2.5	19	83	6	55	32	16	30	22	1.95
16217773--16217800	14	2.0	14	100	0	56	35	14	7	42	1.73
16218066--16218344	57	4.9	57	94	1	479	34	11	20	34	1.88
16218366--16218573	57	3.6	57	92	0	362	33	18	9	38	1.83
16218366--16218579	114	1.9	114	99	0	419	33	19	9	37	1.84
16218999--16219049	20	2.6	19	81	12	59	21	29	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16219044--16219092	21	2.3	21	92	0	89	28	18	18	34	1.94
16225690--16225758	21	3.3	21	97	0	129	36	18	15	28	1.92
16225754--16225804	20	2.5	21	81	15	63	33	15	29	21	1.94
16226217--16226443	57	4.0	57	91	0	355	35	11	19	33	1.88
16240957--16241007	23	2.3	22	80	10	59	41	15	0	43	1.47
16241458--16241581	61	2.0	61	85	3	169	27	29	16	25	1.97
16244117--16244741	55	11.4	55	87	0	829	27	19	18	35	1.95
16245068--16245137	19	3.5	21	77	11	67	31	21	15	31	1.95
16251338--16251901	55	10.3	55	86	2	355	28	18	17	35	1.94
16251365--16251901	219	2.5	218	87	2	729	27	18	17	35	1.94
16251365--16251904	274	2.0	272	87	2	778	27	18	17	35	1.94
16252248--16252301	19	2.6	22	75	21	62	29	16	16	37	1.91
16253838--16253894	30	1.9	30	85	0	78	26	26	7	40	1.81
16254574--16254606	2	16.5	2	100	0	66	51	0	0	48	1.00
16255983--16256063	39	2.1	39	97	0	153	37	17	7	38	1.78
16256937--16256991	24	2.2	26	90	6	87	49	10	7	32	1.65
16257501--16257569	32	2.2	32	94	0	120	23	20	33	23	1.97
16265305--16265466	81	2.0	81	95	0	288	37	20	18	22	1.94
16266042--16266162	59	2.1	59	85	0	161	25	14	23	36	1.93
16270108--16270151	20	2.2	20	88	4	63	54	2	4	38	1.33
16270243--16270278	12	2.8	13	87	8	56	38	5	8	47	1.57
16272553--16272599	21	2.1	23	84	7	62	40	19	14	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16275035--16275356	160	2.0	161	99	0	637	33	18	12	35	1.88
16278749--16278792	20	2.2	20	88	4	63	54	2	4	38	1.33
16283766--16283810	24	1.9	23	86	4	63	80	11	8	0	0.92
16295000--16295091	29	3.1	31	74	11	86	36	17	6	39	1.76
16299887--16299956	35	2.1	33	83	5	86	30	1	4	64	1.21
16301057--16301103	12	4.0	12	86	2	69	63	8	14	12	1.50
16305406--16305455	10	4.9	10	85	2	55	0	6	8	86	0.72
16305790--16305836	12	4.0	12	91	2	78	65	8	14	10	1.45
16305790--16305836	23	2.0	24	91	4	78	65	8	14	10	1.45
16309533--16309580	24	2.0	24	87	0	69	31	22	4	41	1.73
16314161--16314698	122	4.4	121	78	5	415	35	21	13	29	1.92
16314153--16314700	243	2.2	244	79	4	563	35	21	14	29	1.92
16323056--16323083	2	14.0	2	100	0	56	50	0	0	50	1.00
16323238--16323275	13	2.9	13	88	0	58	31	18	23	26	1.97
16325706--16325750	22	2.0	22	100	0	90	42	8	8	40	1.67
16325817--16325860	22	2.0	23	86	4	63	43	2	9	45	1.48
16328232--16328570	162	2.1	162	90	1	527	41	13	16	28	1.87
16328547--16328592	20	2.4	19	79	13	58	54	10	15	19	1.70
16330803--16330867	21	3.1	21	90	0	94	41	9	30	18	1.82
16330901--16330966	33	2.0	33	90	0	105	28	0	48	22	1.51
16332714--16332762	19	2.6	19	96	0	89	32	0	10	57	1.32
16332714--16332774	19	3.3	19	88	2	61	36	0	9	54	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16332996--16334154	200	5.8	200	93	1	1927	36	14	18	30	1.91
16335647--16335698	12	4.3	12	90	0	77	40	7	32	19	1.80
16335647--16335698	6	8.7	6	82	0	59	40	7	32	19	1.80
16346118--16346869	183	4.1	183	96	0	1364	35	14	16	33	1.90
16350219--16350381	87	1.9	87	93	0	281	33	14	9	41	1.79
16350303--16350347	23	2.0	23	86	0	63	37	15	8	37	1.79
16352290--16352560	136	2.0	135	94	2	481	48	12	14	25	1.78
16355874--16355900	3	9.0	3	100	0	54	33	0	0	66	0.92
16357009--16357045	18	2.1	18	94	0	65	5	18	0	75	0.99
16360461--16360598	37	3.7	38	73	12	108	30	19	10	39	1.85
16360461--16360598	39	3.8	36	71	13	111	30	19	10	39	1.85
16360683--16360772	36	2.5	36	78	1	101	23	24	10	42	1.84
16360839--16360993	71	2.2	70	82	6	186	32	18	10	39	1.84
16360892--16361026	71	1.9	71	80	8	159	34	15	11	39	1.83
16371805--16371859	21	2.6	21	100	0	110	34	12	21	30	1.91
16377034--16377058	11	2.3	11	100	0	50	28	28	0	44	1.55
16377959--16378003	17	2.6	17	85	0	72	35	15	6	42	1.73
16383673--16383734	22	2.8	22	72	0	61	24	14	19	41	1.88
16385926--16385989	17	3.6	17	73	21	60	76	4	15	3	1.08
16388851--16388893	2	21.5	2	95	0	77	48	2	0	48	1.14
16393650--16393716	30	2.2	30	94	0	116	41	7	4	46	1.52
16397567--16398022	82	5.6	82	85	2	594	33	17	13	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16397567--16398015	41	11.0	41	71	2	283	32	18	13	35	1.89
16399727--16399759	17	1.9	17	88	11	50	36	9	6	48	1.60
16405482--16405515	16	2.1	17	88	5	52	50	17	0	32	1.47
16405999--16406470	41	11.6	41	70	5	274	34	17	12	35	1.87
16406044--16406471	82	5.2	82	85	2	499	35	17	12	34	1.87
16413604--16413641	18	2.2	17	90	4	58	44	7	0	47	1.32
16413645--16413683	19	2.2	17	86	9	51	58	0	0	41	0.98
16414772--16414827	3	18.7	3	85	14	80	62	0	0	37	0.95
16415838--16415962	66	1.9	66	94	0	223	37	19	12	31	1.88
16421703--16421747	22	2.0	22	86	0	63	46	15	4	33	1.66
16421955--16422005	26	2.0	26	84	0	66	21	19	29	29	1.98
16422224--16422274	27	2.0	26	88	7	77	19	3	7	68	1.30
16431373--16431419	23	2.0	23	83	4	58	68	8	10	12	1.40
16435113--16435137	7	3.6	7	100	0	50	88	0	0	12	0.53
16436414--16436451	19	2.0	20	84	5	51	36	5	13	44	1.66
16437310--16437594	49	5.8	49	91	0	428	36	14	22	26	1.92
16455777--16455976	5	39.8	5	96	3	330	57	0	2	40	1.12
16458282--16458308	2	13.5	2	100	0	54	48	0	0	51	1.00
16458385--16458417	16	2.1	16	94	0	57	27	0	3	69	1.03
16458707--16458744	17	2.2	18	86	13	53	15	5	0	78	0.91
16458721--16458777	14	3.9	14	75	20	53	15	3	1	78	0.96
16458714--16458780	23	3.0	21	80	6	71	16	2	1	79	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16460603--16460664	4	15.0	4	75	18	56	20	4	1	72	1.12
16460598--16460660	25	2.5	26	80	15	69	20	6	1	71	1.16
16470678--16470711	17	1.9	17	88	5	50	88	5	0	5	0.64
16470677--16470711	18	1.9	18	88	0	52	88	5	0	5	0.63
16471908--16472272	110	3.4	110	88	2	506	34	22	18	24	1.96
16474633--16474680	8	6.0	8	85	9	53	20	2	0	77	0.88
16474631--16474676	13	3.7	13	74	11	51	19	2	0	78	0.86
16474633--16474680	16	3.0	16	81	0	60	20	2	0	77	0.88
16478841--16478910	2	36.0	2	77	11	65	45	1	1	51	1.18
16487472--16487532	31	2.0	30	84	12	79	42	13	3	40	1.60

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