genome.fa.s8243.2.7.7.80.10.50.1000.33.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  33  of  49  ( 5786 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)
6928165--6928234	32	2.2	33	92	2	115	11	24	17	47	1.80
6928314--6928387	21	3.5	20	80	8	94	47	17	20	14	1.83
6928375--6928431	14	3.7	14	70	20	51	45	22	22	8	1.80
6928368--6928436	33	2.1	33	97	0	129	49	20	21	8	1.76
6928373--6928447	33	2.3	33	92	0	123	46	24	20	9	1.79
6928465--6928521	14	3.7	14	75	20	60	8	22	22	45	1.80
6928450--6928570	33	3.4	33	85	11	152	10	23	19	46	1.81
6928506--6928570	21	3.1	21	82	4	96	10	26	15	47	1.78
6930254--6930569	93	3.4	93	99	0	623	22	13	18	45	1.85
6930667--6930790	33	3.7	33	89	1	176	45	26	17	9	1.79
6930685--6930774	14	5.7	14	73	23	54	45	25	20	8	1.79
6930732--6930796	19	3.7	19	76	19	77	44	27	16	10	1.81
6930786--6930939	19	8.6	19	72	14	130	11	20	22	45	1.83
6930791--6930921	33	3.8	33	82	9	172	10	21	21	46	1.81
6932518--6932553	14	2.6	14	95	0	63	33	0	22	44	1.53
6932660--6932757	19	5.4	19	84	13	143	45	17	22	14	1.84
6932660--6932776	53	2.2	53	98	1	227	44	17	23	13	1.85
6932810--6932864	14	3.6	14	73	21	56	10	23	20	45	1.82
6932766--6933074	53	5.9	52	85	10	375	14	22	17	45	1.84
6932790--6933074	33	8.2	33	77	16	292	13	22	17	46	1.83
6932766--6933074	105	2.9	106	85	11	456	14	22	17	45	1.84
6935554--6935600	24	2.0	24	87	8	69	38	21	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6936293--6936521	20	11.4	20	84	1	226	19	17	25	37	1.93
6936489--6936586	21	4.8	20	75	10	81	21	19	21	37	1.94
6936489--6936587	42	2.4	43	77	11	100	21	19	22	37	1.94
6940030--6940097	24	2.8	24	90	0	109	45	16	8	29	1.77
6940006--6940120	24	4.8	24	84	0	104	47	15	12	24	1.79
6940942--6941009	26	2.5	27	90	4	102	20	10	20	48	1.78
6942301--6942479	64	2.8	63	80	8	191	29	16	24	30	1.97
6950861--6950984	64	1.9	64	85	3	169	29	17	21	30	1.96
6952470--6952494	12	2.1	12	100	0	50	60	0	0	40	0.97
6953161--6953208	20	2.4	20	92	0	78	43	12	6	37	1.68
6957938--6957982	22	1.9	22	86	13	63	57	0	0	42	0.98
6958931--6958961	4	7.8	4	100	0	62	25	0	0	74	0.82
6959227--6959260	17	1.9	18	88	5	52	58	0	0	41	0.98
6959957--6959982	4	6.5	4	100	0	52	23	0	0	76	0.78
6960230--6960258	2	14.5	2	100	0	58	51	0	0	48	1.00
6961373--6961531	60	2.6	61	80	6	164	41	3	20	34	1.70
6961402--6961556	60	2.6	59	77	11	152	43	4	18	34	1.70
6962529--6962705	60	2.9	58	75	10	158	41	5	21	31	1.76
6963451--6963484	18	1.9	18	88	5	52	47	32	2	17	1.63
6963765--6963800	18	1.9	19	94	5	65	16	2	25	55	1.55
6967606--6967659	2	27.0	2	100	0	108	50	0	0	50	1.00
6971006--6971062	30	1.9	29	82	10	71	52	5	1	40	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6971306--6971337	2	16.0	2	100	0	64	50	0	0	50	1.00
6971610--6971676	21	3.2	20	71	12	64	28	4	7	59	1.44
6971612--6971678	20	3.3	19	69	10	53	28	4	7	59	1.44
6971605--6971960	89	4.2	81	77	9	216	25	15	6	52	1.67
6971604--6972063	43	10.8	43	73	13	260	25	15	7	50	1.70
6971717--6972049	83	3.9	84	76	8	275	25	18	8	47	1.76
6971757--6972049	132	2.3	131	82	8	343	26	18	8	47	1.76
6973519--6973905	183	2.1	184	92	2	638	45	7	3	43	1.48
6974023--6974051	15	1.9	15	100	0	58	17	6	27	48	1.72
6981477--6981544	29	2.3	29	80	5	84	27	5	11	54	1.60
6983011--6983053	2	21.5	2	100	0	86	48	0	0	51	1.00
6983137--6983162	11	2.4	11	100	0	52	38	0	0	61	0.96
6984698--6984768	34	2.1	34	84	12	92	52	15	11	21	1.74
6990147--6990187	18	2.2	18	86	8	55	53	4	7	34	1.50
6992003--6992035	12	2.6	13	90	4	50	45	6	12	36	1.66
6996278--6996324	21	2.3	21	78	14	53	29	17	6	46	1.72
6999943--7000095	29	5.5	27	73	12	130	32	9	9	49	1.67
6999936--7000150	56	3.8	54	79	9	173	33	9	7	49	1.65
6999943--7000150	27	7.4	28	77	13	185	33	10	8	48	1.67
6999970--7000127	84	1.9	87	89	4	250	33	10	7	48	1.65
7014845--7014902	25	2.3	25	90	0	89	20	10	25	43	1.84
7015025--7015089	32	2.0	32	94	5	114	47	4	7	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7015425--7015456	16	2.0	16	93	0	55	21	0	25	53	1.46
7017380--7017487	40	2.7	39	81	2	117	45	12	9	32	1.74
7023972--7024022	25	2.0	25	84	7	66	60	9	0	29	1.28
7029000--7029052	22	2.3	24	84	12	67	45	15	9	30	1.77
7029557--7029599	16	2.7	16	92	0	68	37	25	11	25	1.90
7030339--7030380	20	2.1	20	100	0	84	21	9	9	59	1.57
7033733--7033797	19	3.4	19	93	0	112	29	18	35	16	1.93
7034515--7034553	20	2.0	20	94	0	69	20	10	10	58	1.59
7036021--7036050	15	2.1	14	93	6	51	46	0	0	53	1.00
7037356--7037427	2	36.5	2	97	2	137	50	0	0	50	1.00
7039499--7039543	22	2.0	22	100	0	90	33	22	17	26	1.96
7040389--7040464	20	3.8	20	87	0	116	25	26	22	26	2.00
7040389--7040464	40	1.9	40	94	0	134	25	26	22	26	2.00
7040610--7040655	24	2.0	23	87	12	67	34	17	4	43	1.69
7043371--7043428	29	2.0	29	96	0	107	39	27	5	27	1.78
7044797--7044841	24	1.9	23	86	13	65	37	17	4	40	1.70
7048632--7048684	16	3.2	16	71	23	56	54	20	5	18	1.64
7048613--7048684	33	2.2	33	100	0	144	55	19	5	19	1.62
7049842--7049875	17	2.0	17	88	0	50	67	5	8	17	1.37
7051469--7051528	29	2.0	30	81	9	70	41	6	20	31	1.78
7052919--7052976	23	2.5	23	85	0	80	18	25	20	34	1.96
7058500--7058575	37	2.1	37	94	0	134	25	22	26	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7062133--7062304	85	2.0	85	100	0	344	24	18	17	39	1.92
7065070--7065139	30	2.3	29	81	15	81	35	5	27	31	1.80
7068393--7068462	20	3.5	20	74	20	65	34	1	15	48	1.54
7069704--7069733	2	15.0	2	100	0	60	50	0	0	50	1.00
7069917--7069967	25	2.0	25	84	0	66	50	1	3	43	1.31
7070710--7070749	16	2.4	17	88	12	57	50	0	0	50	1.00
7072469--7072518	22	2.2	24	89	7	77	68	6	2	24	1.23
7074203--7074304	7	14.7	7	70	13	50	41	26	0	32	1.56
7074238--7074317	27	2.9	28	77	7	74	45	26	0	28	1.54
7074409--7074448	21	2.0	21	85	5	55	42	22	0	35	1.54
7074258--7074568	151	2.1	151	89	0	478	40	23	3	31	1.72
7074679--7074717	14	2.8	14	88	0	60	41	20	0	38	1.53
7075369--7075448	7	11.3	7	95	2	70	43	30	0	26	1.55
7075373--7075508	21	6.5	21	78	12	136	44	25	0	28	1.59
7075382--7075467	7	12.3	7	93	0	136	44	25	1	29	1.62
7075772--7075828	29	2.0	29	85	0	78	38	24	1	35	1.66
7075956--7076106	7	21.9	7	73	15	86	43	26	1	27	1.66
7075959--7075990	6	5.2	6	96	3	55	46	31	0	21	1.52
7076061--7076129	28	2.5	28	86	9	88	44	23	1	30	1.62
7076446--7076478	2	16.5	2	100	0	66	48	0	0	51	1.00
7077275--7077333	3	19.7	3	80	19	70	37	0	0	62	0.95
7082858--7082894	15	2.5	15	90	0	56	29	21	5	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7090208--7090250	10	4.4	10	85	5	61	86	0	13	0	0.58
7090205--7090250	19	2.4	19	92	0	74	84	0	15	0	0.62
7091237--7091433	93	2.1	93	92	1	324	29	15	19	35	1.93
7092259--7092903	113	5.7	113	83	8	722	38	14	18	28	1.90
7093127--7093179	3	17.7	3	85	14	74	35	0	0	64	0.94
7093143--7093188	21	2.2	21	88	0	65	45	0	0	54	0.99
7094799--7094848	23	2.0	26	85	11	70	46	2	0	52	1.12
7095347--7095385	19	2.1	19	95	0	69	33	7	10	48	1.66
7096852--7096940	43	2.0	44	95	4	162	30	13	6	49	1.68
7099598--7099660	29	2.1	29	88	2	90	28	22	12	36	1.91

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