genome.fa.s9462.2.7.7.80.10.50.1000.34.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  34  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)
7307371--7307409	14	2.8	14	88	0	60	46	15	0	38	1.46
7308794--7308886	42	2.2	42	82	3	107	21	19	35	23	1.96
7308814--7308916	42	2.5	42	77	3	109	24	19	33	22	1.97
7309421--7309469	20	2.5	20	89	0	71	36	26	18	18	1.94
7309474--7309512	19	2.0	20	90	5	62	51	17	12	17	1.76
7309584--7309649	20	3.3	20	81	8	80	19	21	22	36	1.95
7311522--7311565	20	2.2	20	87	0	61	36	25	18	20	1.95
7311940--7311983	22	2.0	22	86	0	61	20	13	43	22	1.87
7312165--7312208	20	2.2	20	95	0	79	27	20	27	25	1.99
7312196--7312272	21	3.7	21	100	0	154	18	15	24	41	1.89
7312259--7312311	21	2.6	20	81	3	61	24	20	18	35	1.95
7315168--7315327	59	2.7	59	87	1	214	36	10	17	36	1.83
7315759--7316350	46	12.9	46	89	0	880	43	13	21	21	1.87
7316133--7316410	66	4.1	66	70	15	199	41	12	21	24	1.87
7316120--7316282	20	7.0	25	66	22	113	43	14	21	20	1.87
7316225--7316428	112	1.8	112	84	0	282	42	12	20	25	1.87
7318701--7318726	11	2.4	11	100	0	52	69	0	0	30	0.89
7337251--7337871	114	5.5	114	79	5	605	37	14	7	39	1.76
7337228--7337836	226	2.7	227	80	5	660	38	13	8	39	1.75
7345136--7345170	17	1.9	18	88	11	54	45	0	14	40	1.45
7346113--7346153	16	2.6	16	81	11	50	58	4	12	24	1.53
7346321--7346379	16	3.7	16	86	0	82	33	1	28	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7347888--7348430	139	3.9	139	81	4	585	27	17	25	30	1.97
7347910--7348433	278	1.9	277	84	3	696	27	17	25	30	1.97
7348648--7348783	67	2.0	68	85	4	186	34	11	21	33	1.88
7357649--7357710	21	3.0	21	78	2	63	41	6	3	48	1.45
7357893--7357937	11	4.5	11	76	21	53	55	11	0	33	1.35
7357903--7357937	18	1.9	18	100	0	70	57	11	0	31	1.34
7358383--7358455	21	3.5	21	75	0	83	23	20	34	21	1.97
7359966--7360011	23	2.0	23	100	0	92	21	17	47	13	1.81
7370918--7370984	20	3.4	20	83	4	100	62	0	0	37	0.95
7370908--7370984	39	1.9	41	92	5	131	62	0	0	37	0.96
7370982--7371063	19	4.2	18	74	21	58	63	7	3	25	1.37
7370992--7371063	18	3.7	18	72	22	65	62	6	2	27	1.35
7371996--7372039	16	2.8	16	85	0	61	34	2	29	34	1.70
7373449--7373567	60	2.0	60	96	0	220	31	11	24	31	1.91
7373526--7374167	139	4.6	139	80	3	693	27	17	25	30	1.97
7374427--7374608	102	1.8	100	82	9	226	34	10	18	36	1.85
7376756--7376819	24	2.7	23	77	11	67	54	3	9	32	1.48
7381572--7381655	13	6.3	13	81	15	109	16	45	22	15	1.85
7381572--7381655	25	3.2	25	82	14	114	16	45	22	15	1.85
7381597--7381636	17	2.4	17	87	8	55	17	47	22	12	1.81
7381572--7381663	42	2.1	42	88	9	68	16	44	22	16	1.86
7381631--7381687	8	7.5	8	74	22	52	17	36	22	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7381644--7381677	15	2.3	15	94	0	59	17	35	23	23	1.95
7384118--7384191	23	3.2	23	83	9	96	24	17	21	36	1.95
7384124--7384198	24	3.2	24	88	1	116	25	17	21	36	1.95
7385526--7385560	16	2.2	16	90	10	54	42	5	25	25	1.77
7387691--7387752	21	3.0	21	78	2	63	38	6	3	51	1.44
7387944--7387987	17	2.5	17	88	3	70	52	15	0	31	1.44
7388461--7388532	21	3.4	21	76	0	81	22	22	31	23	1.98
7390383--7390454	19	3.5	19	72	20	65	59	6	2	30	1.38
7391071--7391125	22	2.5	22	88	8	85	56	0	1	41	1.10
7394502--7394538	2	18.5	2	100	0	74	48	0	51	0	1.00
7394758--7394785	2	14.0	2	100	0	56	50	0	0	50	1.00
7396270--7396295	13	2.0	13	100	0	52	7	7	46	38	1.61
7397122--7397147	3	8.7	3	100	0	52	69	0	0	30	0.89
7397275--7398512	259	4.9	258	83	6	1504	35	16	14	33	1.89
7398255--7398333	41	1.9	42	84	2	106	34	24	22	18	1.97
7397852--7398337	239	2.0	240	87	3	703	34	16	15	33	1.90
7397594--7398512	498	1.8	497	86	3	1312	35	15	14	34	1.88
7398823--7398887	33	2.0	33	90	0	103	32	9	30	27	1.88
7406347--7406411	35	2.0	32	85	14	89	43	15	3	38	1.62
7409366--7409402	3	12.7	3	88	5	58	70	0	0	29	0.88
7409737--7409765	14	2.0	15	93	6	51	44	0	0	55	0.99
7409744--7409779	18	2.1	17	89	5	54	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7410942--7410992	24	2.2	24	86	10	70	29	0	3	66	1.09
7410957--7410990	17	2.1	16	88	5	50	29	0	5	64	1.17
7410941--7410997	23	2.5	22	75	8	60	29	0	3	66	1.08
7410950--7411022	27	2.5	28	82	8	76	28	0	2	68	1.03
7412721--7412773	27	2.0	27	84	0	70	15	37	18	28	1.91
7412731--7412788	27	2.1	27	87	12	84	12	39	20	27	1.88
7413086--7413120	3	11.7	3	87	0	52	34	0	37	28	1.58
7417518--7417637	23	5.3	23	93	2	215	35	1	31	30	1.68
7419708--7419891	85	2.2	83	85	6	239	30	1	11	55	1.45
7420196--7420230	18	1.9	18	88	0	52	45	20	0	34	1.51
7422036--7422089	21	2.6	21	84	0	63	40	22	20	16	1.91
7422054--7422106	21	2.5	21	87	0	70	41	26	16	15	1.88
7425726--7425783	29	2.0	29	100	0	116	13	31	10	44	1.78
7426303--7426340	20	1.9	20	100	0	76	10	31	34	23	1.89
7426983--7427062	15	5.3	15	100	0	160	13	25	33	27	1.93
7433933--7434057	15	8.3	15	92	0	205	13	21	34	30	1.92
7438140--7438258	59	2.0	59	100	0	238	39	10	18	31	1.84
7447156--7447191	17	2.1	18	89	5	56	44	0	0	55	0.99
7448841--7448955	3	40.0	3	81	11	143	64	0	0	33	1.06
7449159--7449885	124	5.9	123	91	1	1082	25	18	14	41	1.89
7451106--7451143	18	2.1	18	95	0	67	52	2	10	34	1.50
7454402--7454464	28	2.2	28	97	0	117	38	12	17	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7454457--7454486	9	3.3	9	95	0	51	40	23	16	20	1.91
7455226--7455275	23	2.2	23	88	0	73	24	6	16	54	1.64
7455243--7455312	23	3.0	23	78	0	77	25	10	18	45	1.80
7456222--7456568	161	2.2	161	88	2	500	27	22	12	36	1.90
7456222--7456568	81	4.3	81	87	4	486	27	22	12	36	1.90
7456540--7457000	68	6.8	68	88	1	618	30	24	13	32	1.93
7457367--7457510	48	2.7	56	73	19	162	34	22	11	31	1.90
7458052--7458096	21	2.1	21	87	0	63	20	26	13	40	1.89
7459511--7459542	2	16.0	2	100	0	64	50	50	0	0	1.00
7461736--7462083	80	4.3	81	88	2	499	28	23	11	36	1.90
7461736--7462103	161	2.3	160	87	3	515	29	23	11	35	1.90
7462053--7462512	68	6.8	68	86	0	589	30	24	13	32	1.93
7463553--7463605	21	2.6	20	74	11	54	24	28	15	32	1.95
7464252--7464292	20	2.0	20	95	0	73	46	12	7	34	1.69
7467796--7468125	164	2.0	164	100	0	660	30	11	25	32	1.91
7469860--7469903	21	2.0	23	82	8	56	52	4	9	34	1.54
7470987--7471055	20	3.5	20	91	0	102	53	30	4	11	1.56
7470984--7471023	11	3.8	11	75	24	50	55	32	2	10	1.47
7473987--7474014	2	14.0	2	100	0	56	50	0	0	50	1.00
7475643--7475690	25	1.9	25	100	0	96	14	29	27	29	1.95
7484726--7484761	2	18.0	2	100	0	72	50	0	0	50	1.00
7490869--7490931	31	2.0	31	90	0	99	36	36	1	25	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7493592--7493630	21	1.9	21	85	15	55	41	28	10	20	1.85
7501757--7501812	2	28.0	2	100	0	112	50	0	0	50	1.00
7520578--7520620	23	1.9	23	90	4	70	60	0	4	34	1.17
7520766--7520804	18	2.2	18	90	4	62	56	20	5	17	1.60
7522437--7522482	14	3.5	13	83	16	60	67	0	0	32	0.91
7522438--7522481	10	4.5	10	81	16	56	68	0	0	31	0.90
7522591--7522623	9	3.8	9	84	8	50	0	15	0	84	0.61
7522590--7522626	17	2.2	17	100	0	74	0	18	0	81	0.70
7522739--7522847	48	2.3	48	88	0	164	28	19	25	26	1.99
7522817--7523089	131	2.1	131	81	0	321	24	18	30	26	1.98

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