genome.fa.s9634.2.7.7.80.10.50.1000.37.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  37  of  78  ( 9351 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)
7412165--7412229	22	2.8	23	78	19	73	15	4	3	76	1.07
7412231--7412294	20	3.4	20	65	22	57	23	3	0	73	0.97
7412285--7412319	12	2.8	13	86	8	54	40	0	0	60	0.97
7412282--7412320	7	5.9	7	90	6	55	41	0	0	58	0.98
7417821--7419133	653	2.0	653	96	0	2421	40	17	14	27	1.88
7419704--7419785	6	13.8	6	94	2	139	70	0	12	17	1.16
7419678--7419833	6	26.2	6	88	3	127	71	0	7	20	1.13
7419791--7419831	3	13.7	3	89	0	64	68	0	2	29	1.03
7419773--7419833	9	6.8	9	81	7	61	73	1	1	22	1.01
7422580--7422708	66	2.0	66	87	3	188	34	20	21	23	1.97
7422579--7422700	31	3.8	30	69	18	77	35	20	21	22	1.96
7424902--7424937	18	2.0	18	94	0	63	25	19	5	50	1.69
7432698--7432741	18	2.4	18	81	7	54	38	4	6	50	1.50
7435624--7435691	30	2.2	30	97	2	127	35	13	2	48	1.57
7437063--7437115	21	2.5	21	81	6	72	20	26	18	33	1.96
7437146--7437238	41	2.3	41	79	7	100	24	22	18	34	1.96
7437166--7437238	21	3.5	21	79	3	76	23	21	17	36	1.94
7437228--7437321	41	2.3	41	85	1	118	41	19	19	20	1.91
7437228--7437339	20	5.6	20	79	4	118	39	20	18	21	1.93
7437917--7438081	19	9.1	19	73	15	143	12	22	18	46	1.83
7437925--7438056	33	3.8	33	87	6	156	12	22	19	45	1.83
7438035--7438081	20	2.3	20	79	13	60	12	25	14	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7438146--7438210	25	2.6	25	100	0	130	18	10	20	50	1.76
7440226--7440311	42	2.0	42	80	8	95	23	36	18	22	1.95
7440251--7440311	21	3.0	20	69	7	50	24	36	18	21	1.95
7441662--7441697	14	2.6	14	95	0	63	30	0	25	44	1.54
7441807--7441883	33	2.3	33	95	0	136	46	19	22	11	1.82
7441807--7441862	19	3.2	19	71	23	68	46	17	23	12	1.82
7441889--7442025	19	7.7	19	73	16	123	14	21	21	42	1.88
7441906--7442005	33	3.1	32	92	2	164	15	22	20	43	1.88
7442661--7442768	20	5.4	20	81	4	137	39	24	20	15	1.91
7442799--7442872	19	4.5	16	80	16	57	13	17	18	50	1.79
7442814--7442862	19	2.6	19	96	0	89	14	18	16	51	1.77
7442865--7442903	20	2.0	20	94	0	69	12	10	30	46	1.75
7445221--7445275	20	2.8	20	86	2	76	52	16	16	14	1.75
7445419--7445452	17	2.0	17	88	0	50	76	2	5	14	1.09
7445525--7445568	22	2.0	22	86	8	63	20	11	40	27	1.86
7445761--7445827	20	3.3	20	82	0	89	29	13	28	28	1.94
7445880--7445931	21	2.5	22	81	6	72	34	19	26	19	1.95
7446257--7446281	11	2.3	11	100	0	50	72	0	0	28	0.86
7450380--7450424	2	23.0	2	95	4	83	48	0	0	51	1.00
7450441--7450606	85	2.0	85	92	2	280	31	16	21	31	1.95
7450585--7450645	13	4.7	13	85	0	86	34	16	19	29	1.94
7450578--7450633	26	2.2	26	96	0	103	37	12	19	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7450585--7450645	26	2.3	26	94	0	104	34	16	19	29	1.94
7458737--7458762	11	2.4	11	100	0	52	19	0	0	80	0.71
7461566--7461647	14	6.1	13	71	19	53	76	0	19	3	0.93
7461574--7461654	30	2.7	30	76	14	87	76	0	20	2	0.90
7461574--7461654	29	2.7	29	75	21	78	76	0	20	2	0.90
7461592--7461654	15	3.9	16	80	19	62	77	0	20	1	0.85
7461574--7461647	10	7.7	9	76	16	51	77	0	20	2	0.90
7461566--7461647	43	1.9	42	82	5	101	76	0	19	3	0.93
7464114--7464900	55	14.3	55	86	5	1045	28	14	29	27	1.95
7464114--7464900	163	4.8	165	85	6	1049	28	14	29	27	1.95
7464380--7464892	108	4.7	108	91	1	794	28	14	29	27	1.95
7464114--7464956	108	7.6	108	83	9	785	29	14	28	27	1.95
7467993--7468017	13	1.9	13	100	0	50	72	8	0	20	1.10
7470330--7470363	17	1.9	18	88	5	52	64	5	0	29	1.17
7470377--7470418	20	2.1	20	86	0	57	35	0	33	30	1.58
7476849--7476923	10	7.7	10	67	21	52	57	22	10	9	1.61
7476853--7476917	16	4.1	16	93	0	112	56	24	10	7	1.59
7478005--7478076	10	6.4	10	72	22	54	55	25	11	8	1.62
7478012--7478084	14	5.8	14	73	23	81	56	24	10	8	1.61
7478005--7478090	24	3.6	24	95	0	154	56	23	11	8	1.61
7479808--7479857	24	2.1	24	85	7	66	58	8	18	16	1.62
7488841--7488866	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7488866--7488890	2	12.5	2	100	0	50	0	0	48	52	1.00
7494305--7494520	47	4.6	47	84	1	254	29	21	17	31	1.96
7494338--7494548	94	2.2	94	82	3	228	28	22	17	31	1.96
7494773--7494798	5	5.2	5	100	0	52	23	57	19	0	1.40
7498435--7498463	13	2.1	14	93	6	51	62	6	13	17	1.52
7509583--7509621	21	1.9	20	89	5	60	35	17	15	30	1.91
7518823--7518854	12	2.7	12	100	0	64	21	0	15	62	1.32
7531476--7531579	36	2.9	36	83	0	145	36	4	20	38	1.74
7536780--7536840	20	2.9	21	85	7	70	16	26	32	24	1.96
7540628--7540667	21	1.9	21	85	10	55	35	10	2	52	1.48
7543064--7543111	19	2.5	20	89	3	71	50	6	12	31	1.65
7545570--7545647	3	26.3	3	78	12	72	39	1	0	58	1.06
7545586--7545651	22	3.0	22	93	2	105	42	3	0	54	1.15
7549867--7550214	174	2.0	174	84	2	457	32	18	23	25	1.97
7550385--7550443	27	2.2	26	85	11	75	71	0	6	22	1.09
7550384--7550440	22	2.5	22	82	5	60	70	0	7	22	1.11
7551120--7551379	70	3.6	71	89	4	362	56	12	0	30	1.40
7551168--7551278	35	3.2	35	67	31	101	58	9	0	32	1.29
7551191--7551294	19	5.8	19	65	19	53	56	11	0	31	1.35
7551178--7551278	23	4.3	23	67	20	66	57	9	0	32	1.32
7551120--7551379	141	1.8	142	82	12	334	56	12	0	30	1.40
7551329--7551369	19	2.2	19	86	0	55	48	14	0	36	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7551120--7551415	70	4.1	73	82	9	327	56	11	1	31	1.42
7553057--7553169	5	21.8	5	75	13	104	72	0	5	21	1.10
7555320--7555384	13	5.0	13	88	0	85	27	21	16	33	1.95
7555356--7555516	85	1.9	85	84	5	218	29	19	18	32	1.96
7563484--7563536	24	2.2	23	83	12	63	71	1	5	20	1.16
7564045--7564079	17	2.1	17	100	0	70	48	22	11	17	1.79
7564228--7564452	76	3.1	75	80	10	216	56	12	2	29	1.47
7572432--7572521	29	3.1	29	96	0	162	23	21	10	45	1.81
7572919--7573025	47	2.3	47	86	0	142	19	18	13	48	1.80
7573016--7573080	34	1.9	34	93	6	114	27	24	9	38	1.86
7573219--7573263	13	3.5	13	87	0	72	28	22	17	31	1.97
7573219--7573270	26	2.0	26	96	0	95	28	23	15	32	1.95
7573228--7573270	13	3.3	13	86	0	59	30	23	11	34	1.90
7574493--7574662	90	1.9	88	95	2	304	39	10	6	44	1.64
7574627--7574696	22	3.3	21	70	16	63	50	2	4	42	1.37
7580906--7580962	20	2.8	20	94	0	87	38	3	26	31	1.73
7587150--7587220	3	24.0	3	79	13	67	39	2	0	57	1.13
7587154--7587218	11	6.1	11	81	13	73	40	3	0	56	1.15
7587151--7587220	21	3.4	20	80	16	81	40	2	0	57	1.14
7596778--7596840	23	2.6	24	78	19	60	50	1	0	47	1.10
7596812--7596858	22	2.1	23	88	4	69	44	2	0	53	1.12
7596806--7596885	32	2.5	32	80	14	92	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7599240--7599294	20	2.8	19	75	8	56	30	16	30	21	1.95
7600019--7600206	67	2.8	67	89	2	288	29	14	26	29	1.95
7600156--7600684	81	6.6	81	86	2	705	34	12	24	28	1.92
7600156--7600692	159	3.4	158	86	3	727	34	12	24	28	1.92
7600793--7601035	45	5.4	44	93	1	360	34	11	25	28	1.91
7600792--7601035	90	2.7	90	92	1	400	34	11	25	28	1.91
7600793--7601035	135	1.8	135	91	0	405	34	11	25	28	1.91
7606093--7606138	16	2.9	16	86	0	56	65	0	0	34	0.93
7606092--7606139	19	2.5	19	82	0	60	64	0	0	35	0.94
7606480--7606829	118	3.0	118	91	0	540	25	25	14	34	1.94

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