genome.fa.s9639.2.7.7.80.10.50.1000.33.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  33  of  62  ( 7398 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)
7140913--7141077	88	1.9	86	85	5	224	34	15	22	27	1.94
7145943--7145982	16	2.5	16	95	0	71	10	30	25	35	1.88
7146086--7146157	35	2.1	35	100	0	144	25	15	11	48	1.77
7146845--7147096	125	2.0	125	100	0	504	30	15	32	21	1.94
7148237--7148359	41	3.0	39	74	9	111	34	15	17	33	1.91
7152428--7152769	171	2.0	171	100	0	684	30	15	25	28	1.95
7154925--7155038	45	2.5	45	84	2	131	38	10	19	31	1.86
7155685--7155753	27	2.7	26	70	18	63	73	4	1	20	1.07
7157064--7157105	3	13.7	3	80	14	50	61	0	0	38	0.96
7157358--7157397	16	2.4	17	84	16	57	20	22	5	52	1.65
7157441--7158118	114	6.0	114	93	1	1082	28	17	15	39	1.90
7159259--7159307	16	2.8	17	81	12	64	48	6	8	36	1.58
7165599--7167511	637	3.0	637	97	0	3603	24	20	17	37	1.94
7168135--7168166	15	2.1	15	94	0	55	46	9	18	25	1.79
7171468--7171540	26	2.7	28	78	8	71	57	1	8	32	1.37
7172228--7172255	3	9.3	3	100	0	56	67	0	0	32	0.91
7172239--7172303	27	2.4	26	82	12	78	69	4	1	24	1.16
7173641--7173679	6	6.7	6	91	2	62	56	0	0	43	0.99
7173630--7173674	18	2.5	18	85	0	63	60	0	0	40	0.97
7173617--7173685	12	5.6	13	80	11	58	57	0	0	42	0.98
7173714--7173922	45	4.7	45	86	1	251	38	9	21	30	1.85
7173788--7173952	89	1.9	88	81	7	199	41	8	18	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7176829--7176898	36	1.9	36	88	0	104	30	25	17	27	1.97
7178349--7178383	17	2.1	17	88	0	52	45	11	17	25	1.81
7180779--7180814	12	3.0	12	95	0	63	69	0	30	0	0.89
7199664--7199702	20	2.0	20	89	0	60	35	10	20	33	1.86
7202054--7202154	49	2.1	48	80	10	118	26	17	7	47	1.75
7202350--7202387	16	2.6	16	84	16	55	39	0	0	60	0.97
7203616--7203649	11	3.0	11	91	4	50	26	5	0	67	1.13
7209144--7209190	15	3.2	14	93	6	76	72	0	27	0	0.85
7209144--7209190	22	2.1	22	96	0	85	72	0	27	0	0.85
7209144--7209190	7	6.4	7	92	7	76	72	0	27	0	0.85
7211731--7211785	22	2.5	22	90	0	92	40	12	10	36	1.79
7212544--7212730	45	4.2	45	90	0	268	27	24	18	29	1.98
7212589--7212899	166	1.9	169	88	2	475	27	23	18	30	1.98
7212755--7212944	45	4.2	45	86	7	260	26	22	20	30	1.98
7212634--7212862	121	1.9	121	90	1	370	26	23	20	30	1.98
7212754--7212955	92	2.2	92	93	4	354	26	22	20	30	1.99
7212963--7213078	45	2.6	45	88	2	171	25	20	20	32	1.97
7213230--7213288	3	20.0	3	92	3	102	30	0	1	67	1.00
7214578--7214637	29	2.0	30	78	9	61	33	10	1	55	1.43
7214800--7215205	148	2.7	147	80	6	429	38	8	8	44	1.66
7216737--7216795	22	2.7	22	94	0	100	33	16	15	33	1.91
7217376--7217556	45	4.0	45	85	1	218	25	23	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7217564--7217667	45	2.3	45	86	0	136	27	21	18	32	1.96
7217443--7218143	121	5.7	121	74	10	646	25	22	18	33	1.97
7217685--7217878	45	4.3	45	87	0	262	26	22	16	35	1.95
7217564--7218044	211	2.3	211	90	0	766	25	22	18	33	1.96
7217398--7218133	166	4.4	166	79	5	858	25	22	18	34	1.96
7217896--7218044	45	3.3	45	83	0	190	26	22	18	32	1.97
7218062--7218151	45	2.0	45	87	8	130	27	23	17	31	1.97
7219368--7219457	41	2.2	41	95	0	162	33	10	30	26	1.89
7219977--7220799	81	10.1	80	87	2	1128	28	23	11	35	1.91
7219977--7220792	406	2.0	405	89	1	1260	28	23	11	35	1.90
7221084--7221228	55	2.6	55	90	2	220	33	17	12	36	1.88
7225624--7225768	46	3.1	46	83	4	164	26	21	6	45	1.75
7225820--7227015	81	14.8	81	87	2	1490	29	23	10	36	1.89
7227421--7227479	31	1.9	31	89	0	91	38	5	10	45	1.60
7227503--7227545	22	2.0	22	100	0	86	51	13	0	34	1.42
7227505--7227553	22	2.2	22	88	3	71	55	14	0	30	1.40
7227493--7227792	54	5.6	53	81	10	369	53	13	0	33	1.43
7227602--7227751	32	5.0	32	82	15	203	54	11	0	34	1.37
7227668--7227710	22	2.0	22	95	0	77	51	11	0	37	1.39
7227670--7227718	22	2.2	22	85	3	62	55	12	0	32	1.37
7227745--7227917	32	6.2	31	67	31	124	53	14	0	32	1.41
7227776--7227849	22	3.2	22	74	16	69	54	18	0	27	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7227803--7227917	54	2.1	54	98	0	221	53	13	0	33	1.40
7227852--7227952	22	4.5	22	71	7	94	51	9	0	38	1.35
7227897--7228014	15	7.5	15	81	13	139	51	2	0	45	1.14
7227846--7227999	69	2.3	67	86	5	204	51	6	0	42	1.28
7228258--7228444	53	3.4	55	82	6	211	33	17	11	37	1.86
7228801--7228852	19	2.5	21	84	9	63	28	21	19	30	1.97
7241053--7241092	20	2.0	20	90	0	62	32	12	37	17	1.87
7241218--7241260	17	2.5	17	82	14	52	34	0	2	62	1.08
7241650--7241683	2	17.5	2	93	6	61	50	0	0	50	1.00
7242319--7242364	14	3.1	14	81	6	56	52	0	0	47	1.00
7243239--7243263	13	1.9	13	100	0	50	20	8	0	72	1.10
7243261--7243612	42	8.2	41	75	10	248	26	16	6	50	1.70
7243261--7243612	84	4.1	85	76	8	317	26	16	6	50	1.70
7243435--7243501	21	3.2	21	65	23	50	25	14	8	50	1.72
7262813--7262842	15	2.0	15	93	0	51	16	0	23	60	1.36
7263035--7263063	2	14.5	2	100	0	58	48	0	0	51	1.00
7266671--7266741	36	2.0	35	86	5	97	16	18	22	42	1.89
7266719--7266850	66	2.0	66	100	0	264	21	15	24	39	1.91
7268835--7268859	3	8.3	3	100	0	50	0	32	0	68	0.90
7281786--7281850	13	5.0	13	83	7	87	27	23	20	29	1.98
7281786--7281850	26	2.5	26	90	5	96	27	23	20	29	1.98
7293325--7293367	19	2.3	19	95	0	77	27	16	16	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7298569--7298602	9	3.6	10	84	15	54	55	20	23	0	1.43
7300255--7300385	44	3.0	44	84	2	165	30	19	17	32	1.95
7303648--7303682	18	1.9	18	100	0	70	31	11	5	51	1.61
7304748--7304822	37	2.0	37	100	0	150	33	26	5	34	1.79
7309950--7310009	21	2.9	21	78	9	68	30	10	16	43	1.81
7309921--7310016	21	4.6	21	69	19	58	31	13	16	38	1.88
7311916--7311971	16	3.3	16	72	18	51	14	0	26	58	1.36
7312392--7312427	18	2.0	18	100	0	72	33	11	5	50	1.61
7312775--7312853	24	3.5	24	72	13	76	31	18	16	32	1.94
7312775--7312872	44	2.2	44	85	3	126	30	22	16	30	1.96
7313409--7313440	16	2.0	16	100	0	64	25	6	43	25	1.77
7317389--7317460	28	2.5	28	78	10	67	34	9	11	44	1.73
7322186--7322256	37	1.9	37	83	11	92	70	1	2	25	1.09
7323534--7323579	22	2.1	22	84	8	58	50	0	2	47	1.13
7323518--7323573	16	3.5	17	76	11	55	53	0	1	44	1.11
7324573--7324657	44	1.9	44	82	0	107	35	15	22	27	1.94
7326213--7326249	16	2.3	17	81	13	51	27	32	0	40	1.57
7326879--7326910	2	16.5	2	93	6	57	53	0	0	46	1.00
7328575--7328616	20	2.1	20	90	0	66	9	23	42	23	1.83
7330076--7330113	15	2.5	15	95	0	67	23	21	15	39	1.92
7331151--7331217	23	2.9	23	86	4	82	19	23	29	26	1.98
7331132--7331217	23	3.9	22	79	7	77	17	25	30	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7337015--7337054	19	2.0	20	95	4	73	10	25	42	22	1.84
7337014--7337059	19	2.5	17	80	16	56	13	26	36	23	1.91
7342725--7342824	24	4.5	22	69	22	59	33	17	19	31	1.94
7342905--7342960	24	2.5	23	86	11	73	30	17	21	30	1.96
7346483--7346678	98	2.0	98	100	0	392	24	10	15	50	1.75
7348797--7348839	20	2.2	20	91	0	68	27	23	4	44	1.73
7348823--7349041	45	4.9	45	96	1	370	31	20	7	41	1.79
7348823--7349041	89	2.4	90	93	2	370	31	20	7	41	1.79
7349862--7350210	174	2.0	174	100	0	698	38	19	6	35	1.77
7356049--7356109	20	3.0	20	80	2	68	31	13	29	26	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