genome.fa.s1129.2.7.7.80.10.50.1000.35.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  35  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)
7494295--7494338	22	2.0	21	83	12	54	65	2	2	29	1.16
7494515--7494593	17	4.4	17	75	12	68	20	3	2	73	1.11
7495320--7495378	21	2.8	21	89	0	82	22	20	18	38	1.93
7497302--7497340	21	1.9	20	84	5	51	56	28	0	15	1.40
7499306--7499354	23	2.2	22	79	10	55	22	26	26	24	2.00
7499315--7499378	23	2.8	23	85	4	76	21	21	31	25	1.98
7508518--7508819	111	2.7	112	88	5	441	35	18	9	35	1.84
7508518--7508819	57	5.4	57	90	4	463	35	18	9	35	1.84
7512047--7512087	22	1.9	21	90	5	64	34	36	2	26	1.70
7512402--7512459	5	10.6	5	75	17	53	79	1	17	1	0.90
7512402--7512459	11	5.3	10	82	13	53	79	1	17	1	0.90
7512401--7512459	29	2.0	29	83	6	75	79	1	16	1	0.89
7516653--7516693	22	1.9	21	90	5	64	34	36	2	26	1.70
7521215--7521275	19	3.4	19	69	17	58	72	0	3	24	1.00
7521346--7521388	18	2.4	18	88	0	59	74	0	6	18	1.04
7525664--7525711	20	2.4	20	89	0	69	68	0	8	22	1.16
7531263--7531329	18	3.7	18	71	11	57	71	0	2	25	1.00
7533472--7533542	19	3.7	19	83	3	81	23	16	36	22	1.94
7535421--7535510	31	2.9	31	85	8	112	56	10	15	17	1.66
7537214--7537274	13	4.7	13	89	4	79	29	21	14	34	1.93
7539379--7539416	20	1.9	20	100	0	76	44	23	5	26	1.74
7543999--7544042	18	2.3	20	84	7	56	63	13	2	20	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7544141--7544176	4	9.0	4	100	0	72	25	25	0	50	1.50
7548877--7548996	42	2.8	43	81	8	156	21	9	22	46	1.79
7554718--7554934	103	2.1	103	83	3	267	36	11	12	38	1.81
7560732--7560778	23	2.0	24	91	4	78	29	19	8	42	1.80
7564302--7564390	32	2.9	30	79	15	92	19	26	30	23	1.98
7564372--7564728	187	1.9	188	83	4	470	28	14	21	35	1.93
7565545--7565638	47	2.0	46	93	2	161	50	7	7	35	1.59
7569137--7569165	4	7.2	4	100	0	58	75	24	0	0	0.80
7581883--7581934	24	2.2	24	82	0	59	26	15	19	38	1.91
7581988--7582277	114	2.5	114	85	2	368	20	20	26	32	1.97
7581992--7582277	57	5.0	57	88	1	333	19	20	25	33	1.97
7583877--7583950	30	2.5	30	86	0	103	25	18	22	32	1.97
7583962--7583992	16	1.9	16	100	0	62	45	0	12	41	1.42
7593894--7593944	20	2.5	20	77	3	66	23	13	27	35	1.93
7593975--7594027	21	2.6	19	74	14	52	22	11	24	41	1.86
7597520--7597571	18	2.9	18	94	0	86	26	30	23	19	1.98
7598184--7598303	64	1.9	64	85	3	170	25	15	21	37	1.93
7604442--7604476	18	1.9	18	88	0	52	31	34	14	20	1.92
7605091--7605212	64	1.9	64	84	3	165	25	17	21	36	1.95
7611331--7611382	25	2.1	25	100	0	104	38	3	0	57	1.17
7611331--7611401	25	2.8	25	89	6	90	42	2	0	54	1.14
7619053--7619096	19	2.3	19	80	0	52	75	2	4	18	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7621477--7621505	2	14.5	2	100	0	58	48	0	0	51	1.00
7622249--7622286	14	2.7	14	91	0	58	39	13	21	26	1.89
7622357--7622556	95	2.1	95	86	3	278	34	16	24	24	1.95
7622541--7622601	28	2.2	27	85	2	77	36	9	26	27	1.88
7623006--7623189	79	2.3	79	92	0	296	35	11	26	27	1.90
7623204--7623279	26	3.2	25	65	27	65	43	11	23	21	1.85
7623064--7623237	79	2.2	79	82	4	190	38	11	24	25	1.89
7623220--7623390	20	7.7	20	69	20	99	43	9	24	22	1.83
7623204--7623448	46	5.4	46	88	1	350	46	9	21	22	1.80
7623204--7623448	91	2.7	91	86	1	339	46	9	21	22	1.80
7627600--7627661	23	2.7	23	83	14	74	24	30	25	19	1.98
7627644--7627683	21	1.9	21	89	0	62	25	40	25	10	1.86
7627600--7627686	23	3.9	22	77	17	72	25	32	25	17	1.97
7629250--7629290	18	2.3	18	91	0	64	43	26	26	2	1.67
7631444--7631483	2	21.0	2	90	10	66	50	0	0	50	1.00
7634870--7634906	14	2.5	15	91	4	58	70	2	5	21	1.20
7636542--7636715	49	3.6	49	93	0	276	26	21	14	37	1.92
7637337--7637383	18	2.6	18	100	0	94	34	29	12	23	1.92
7638637--7638734	24	3.6	27	78	14	94	43	7	1	47	1.37
7638715--7638756	19	2.3	18	76	11	50	45	7	0	47	1.30
7638718--7638772	21	2.8	20	77	5	58	47	3	1	47	1.30
7652530--7653586	34	30.8	34	91	1	1485	20	20	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7654744--7655120	125	3.0	125	88	0	540	23	26	17	31	1.97
7655328--7655650	124	2.6	123	84	3	434	24	23	14	37	1.93
7656570--7656632	15	4.1	15	79	6	63	11	14	0	74	1.07
7656576--7656619	16	2.9	15	86	3	52	13	11	0	75	1.06
7658960--7658996	6	6.2	6	90	9	58	48	18	16	16	1.81
7658960--7658993	13	2.8	13	91	8	54	44	20	17	17	1.87
7666582--7666657	31	2.4	32	77	14	95	39	17	19	23	1.92
7670547--7670580	16	2.1	16	94	0	59	50	8	5	35	1.58
7670762--7670796	5	6.8	5	93	6	61	80	0	0	20	0.72
7672513--7672606	42	2.3	42	87	5	129	31	18	21	28	1.96
7673056--7673137	42	2.0	42	90	4	130	34	21	18	25	1.96
7673073--7673138	20	3.2	20	66	16	53	36	21	18	24	1.95
7672495--7673387	265	3.4	266	90	4	1375	32	20	16	30	1.95
7675583--7675623	20	2.0	20	90	0	64	12	26	41	19	1.87
7678310--7678389	40	2.0	40	100	0	160	42	10	5	42	1.60
7684947--7684991	17	2.6	16	86	13	63	4	15	0	80	0.87
7684939--7684995	25	2.4	23	85	11	71	3	15	0	80	0.84
7684942--7684991	23	2.2	23	82	7	57	4	16	0	80	0.87
7684947--7684992	18	2.6	18	90	10	69	4	15	0	80	0.86
7685459--7685492	7	4.9	7	100	0	68	0	14	0	85	0.60
7685459--7685517	14	4.0	15	85	12	70	0	20	0	79	0.73
7685460--7685526	13	4.9	13	78	21	66	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7690233--7690272	19	2.1	19	100	0	80	42	17	0	40	1.49
7690263--7690297	12	3.0	12	95	4	63	57	25	0	17	1.40
7692557--7692594	20	1.9	20	88	0	58	13	26	36	23	1.91
7700051--7700084	16	2.1	16	94	0	59	50	2	5	41	1.42
7700267--7700296	11	2.6	11	94	5	51	80	0	0	20	0.72
7704375--7704412	15	2.3	17	86	13	53	23	7	10	57	1.58
7707690--7707729	2	20.0	2	94	0	71	50	0	2	47	1.14
7708304--7708393	3	29.7	3	82	12	96	40	0	0	60	0.97
7709572--7709610	13	2.9	13	88	3	51	35	0	2	61	1.10
7710497--7710554	24	2.4	24	77	11	57	31	5	1	62	1.27
7713833--7713864	15	2.1	15	94	0	55	25	18	9	46	1.79
7716345--7716464	17	6.5	18	77	17	106	78	0	13	8	0.96
7716347--7716428	8	9.9	8	79	11	78	76	0	13	9	1.01
7716365--7716462	32	3.2	31	77	21	100	77	0	14	8	0.98
7716345--7716463	8	14.2	8	70	20	75	78	0	13	8	0.97
7718018--7718639	112	5.6	112	92	1	998	37	14	19	28	1.91
7718018--7718639	222	2.8	221	92	2	976	37	14	19	28	1.91
7718018--7718639	334	1.9	336	90	2	1000	37	14	19	28	1.91
7718875--7718951	3	25.7	3	87	10	95	38	0	0	61	0.96
7718884--7718962	24	3.1	27	85	12	121	44	0	0	55	0.99
7718875--7718949	21	3.4	22	85	10	109	38	0	0	61	0.96
7720227--7720265	13	2.9	13	88	3	51	35	0	2	61	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7728068--7728131	27	2.4	27	80	12	62	56	1	3	39	1.25
7728143--7728280	37	3.8	35	66	17	84	53	0	0	44	1.10
7728228--7728283	29	1.9	29	85	7	78	53	0	0	46	1.00
7728226--7728289	29	2.2	29	80	5	76	53	0	0	46	1.00
7728265--7728318	9	5.8	10	72	16	53	48	0	0	51	1.00
7728287--7728355	31	2.2	31	77	7	77	50	1	0	47	1.09
7728268--7728403	71	1.9	72	82	11	172	47	1	0	50	1.10
7728974--7729018	22	2.0	22	95	0	81	48	8	28	13	1.72
7733223--7733288	18	3.4	18	67	18	51	53	12	0	34	1.38
7737987--7738091	53	2.0	53	90	0	165	27	15	20	36	1.93

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