genome.fa.s1129.2.7.7.80.10.50.1000.57.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  57  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)
12962296--12962357	3	22.0	3	84	12	78	32	0	1	66	1.02
12963802--12964036	119	2.0	118	84	5	305	39	7	7	45	1.60
12966181--12966219	15	2.7	15	88	4	53	20	15	12	51	1.76
12971449--12971490	20	2.1	20	90	0	66	35	19	11	33	1.88
12972388--12972561	76	2.3	76	82	4	217	31	13	22	32	1.92
12973856--12973911	23	2.5	23	82	2	69	37	14	12	35	1.84
12974336--12975303	113	8.6	113	93	2	1535	36	15	21	27	1.93
12975572--12975640	3	24.0	3	88	8	99	31	0	1	66	1.00
12976260--12976321	30	2.1	30	100	0	124	17	12	30	38	1.88
12976889--12976923	15	2.3	15	90	0	52	25	2	0	71	1.00
12976932--12976995	12	5.2	12	79	7	65	28	4	1	65	1.21
12976960--12976995	16	2.3	16	90	4	56	25	5	0	69	1.10
12977086--12977316	120	1.9	120	82	6	290	37	7	8	46	1.63
12979417--12979465	20	2.5	20	93	0	89	16	28	24	30	1.96
12982250--12982274	12	2.1	12	100	0	50	52	8	0	40	1.31
12997871--12997963	30	3.1	30	95	0	159	32	8	12	46	1.73
12998521--12998644	37	3.3	36	67	13	99	35	7	14	42	1.73
12998533--12998729	95	2.0	96	84	7	254	34	8	17	40	1.79
12998362--12998834	160	2.9	162	88	7	701	38	6	15	39	1.75
12998634--12998794	65	2.4	67	88	5	229	36	7	16	39	1.77
12998755--12998923	82	2.1	80	92	2	275	39	5	15	39	1.71
12998770--12999036	94	3.1	83	78	14	256	37	7	16	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12998837--12999055	94	2.3	93	94	0	375	35	9	16	38	1.80
13001216--13001292	11	7.2	11	74	11	61	53	5	3	37	1.42
13001079--13001390	141	2.3	139	84	5	391	45	3	4	46	1.41
13001362--13001410	11	4.5	11	78	0	53	46	2	4	46	1.33
13001362--13001507	20	7.0	22	67	17	71	45	4	6	43	1.50
13001080--13001410	2	165.0	2	65	20	95	45	3	4	46	1.42
13001556--13001636	22	3.6	22	91	3	117	45	2	4	46	1.37
13001702--13001776	9	7.8	10	69	18	52	50	8	1	40	1.40
13001744--13001798	24	2.2	24	87	9	76	45	7	5	41	1.55
13001755--13001807	24	2.2	23	81	15	63	45	7	5	41	1.56
13001833--13001923	2	44.0	2	77	14	78	49	4	2	43	1.34
13001793--13001984	46	4.5	43	73	16	134	48	7	2	41	1.42
13001793--13001931	22	6.7	21	65	21	69	50	6	2	41	1.40
13001713--13001984	18	14.9	18	65	23	65	48	7	2	41	1.44
13001670--13002145	20	23.9	20	66	21	105	47	7	3	41	1.48
13001825--13001917	33	2.8	33	72	15	84	50	4	2	43	1.34
13001723--13001928	108	1.9	107	81	8	249	49	6	2	41	1.43
13002020--13002067	22	2.2	22	85	7	62	39	6	8	45	1.59
13002084--13002145	18	3.4	17	75	18	61	53	6	0	40	1.27
13002009--13002162	20	7.7	20	72	12	93	46	7	4	42	1.51
13002457--13002495	18	2.2	18	86	9	53	53	7	0	38	1.30
13002575--13002606	15	2.1	16	94	5	57	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13002786--13002848	16	3.9	16	85	0	81	44	15	17	22	1.86
13002789--13002849	32	1.9	32	89	0	95	47	14	16	21	1.82
13004977--13005014	19	2.0	19	89	0	58	23	23	34	18	1.96
13006880--13007149	142	1.9	142	84	0	362	29	15	12	42	1.84
13007799--13007860	30	2.1	30	90	0	97	29	20	19	30	1.97
13014054--13014234	53	3.3	55	82	8	201	28	27	14	29	1.95
13014179--13014943	104	7.4	103	89	3	1053	22	24	19	32	1.97
13014179--13014943	51	14.8	51	87	4	984	22	24	19	32	1.97
13015323--13015512	36	5.2	36	85	1	220	22	19	22	36	1.95
13027416--13027458	20	2.2	20	91	8	70	11	16	27	44	1.82
13032858--13032896	19	2.0	21	90	10	64	53	2	17	25	1.56
13034345--13034379	2	17.5	2	100	0	70	51	0	48	0	1.00
13034556--13034591	2	18.0	2	100	0	72	50	0	0	50	1.00
13040147--13040195	24	2.0	24	96	0	89	32	12	14	40	1.83
13047930--13047978	24	2.0	24	96	0	89	32	12	14	40	1.83
13051106--13051387	54	5.2	54	85	4	365	26	18	19	35	1.95
13051106--13051387	107	2.6	107	85	6	390	26	18	19	35	1.95
13058592--13058807	54	4.0	54	89	1	299	26	18	20	33	1.96
13058994--13059052	31	1.9	31	89	0	91	40	5	10	44	1.60
13059077--13059119	22	2.0	22	95	0	77	51	11	0	37	1.39
13059079--13059127	22	2.2	22	85	3	62	55	12	0	32	1.37
13059067--13059692	54	11.6	54	77	11	466	52	13	0	33	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13059082--13059638	80	6.9	80	79	14	503	53	13	0	33	1.42
13059067--13059826	134	5.6	134	79	11	719	52	13	0	33	1.42
13059243--13059285	22	2.0	22	100	0	86	51	13	0	34	1.42
13059245--13059293	22	2.2	22	88	3	71	55	14	0	30	1.40
13059430--13059472	22	2.0	22	100	0	86	51	13	0	34	1.42
13059432--13059480	22	2.2	22	88	3	71	55	14	0	30	1.40
13059488--13059561	22	3.2	22	70	16	60	55	17	0	27	1.42
13059564--13059606	22	2.0	22	100	0	86	51	13	0	34	1.42
13059566--13059614	22	2.2	22	88	3	71	55	14	0	30	1.40
13059618--13059660	22	2.0	22	100	0	86	51	13	0	34	1.42
13059211--13059881	188	3.6	188	97	0	1272	52	13	0	33	1.41
13059620--13059668	22	2.2	22	88	3	71	55	14	0	30	1.40
13059623--13059772	80	1.9	80	98	0	291	52	15	0	32	1.43
13059674--13059748	22	3.2	23	75	17	82	54	17	0	28	1.43
13059328--13059892	54	10.5	54	86	6	523	52	13	0	34	1.40
13059752--13059794	22	2.0	22	95	0	77	53	11	0	34	1.37
13059754--13059802	22	2.2	22	85	3	62	57	12	0	30	1.36
13059806--13059848	22	2.0	22	100	0	86	51	13	0	34	1.42
13059808--13059856	22	2.2	22	88	3	71	55	14	0	30	1.40
13059825--13059962	30	4.3	32	77	15	128	49	6	0	44	1.28
13059851--13059939	15	5.5	15	75	17	88	50	3	0	46	1.18
13059963--13060005	18	2.4	18	96	0	77	46	2	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13060191--13060419	54	4.2	54	94	1	397	25	17	21	35	1.95
13063265--13063290	7	3.7	7	100	0	52	69	0	0	30	0.89
13065808--13065834	2	13.5	2	100	0	54	48	0	0	51	1.00
13066085--13066328	119	2.0	120	89	2	375	27	10	14	48	1.76
13066621--13066652	15	2.1	15	100	0	64	18	40	15	25	1.90
13067033--13067076	2	22.0	2	100	0	88	50	0	0	50	1.00
13067528--13067807	58	4.8	58	92	0	470	35	19	11	33	1.88
13068136--13068180	22	2.1	21	84	8	56	31	22	15	31	1.95
13068490--13068550	21	3.0	21	85	9	90	19	36	29	14	1.92
13068490--13068550	20	3.0	20	88	7	88	19	36	29	14	1.92
13068516--13068601	34	2.5	35	92	1	147	19	36	25	18	1.95
13068714--13068755	21	2.0	21	95	0	75	23	21	28	26	1.99
13070053--13070083	12	2.6	12	94	0	53	70	6	22	0	1.09
13071172--13071484	156	2.0	155	99	0	617	40	11	8	39	1.71
13072165--13072225	21	3.0	21	83	9	81	18	36	31	14	1.91
13072165--13072247	20	4.3	20	72	21	79	19	34	32	13	1.90
13072191--13072275	34	2.5	35	92	1	136	18	34	28	18	1.95
13072169--13072258	20	4.8	20	70	21	70	18	34	30	16	1.94
13072388--13072430	22	2.0	21	86	4	59	23	18	30	27	1.98
13072459--13072498	20	1.9	21	85	10	55	37	37	10	15	1.80
13077224--13077292	23	3.0	24	80	6	88	33	24	24	17	1.96
13082178--13082243	23	2.9	23	79	4	80	28	24	24	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13082552--13082637	39	2.2	39	97	0	163	29	27	4	38	1.77
13083776--13084064	148	2.0	148	95	4	534	27	19	14	38	1.91
13087498--13087566	23	3.0	23	82	0	93	30	24	26	18	1.98
13087870--13087955	39	2.2	39	95	0	154	27	27	4	39	1.76
13092658--13092988	58	5.7	58	94	0	574	35	20	9	33	1.86
13096853--13097190	168	2.0	169	98	0	660	38	10	18	32	1.85
13108766--13108879	58	2.0	57	96	1	210	33	14	13	39	1.84
13109929--13109962	10	3.4	10	87	0	50	64	8	17	8	1.47
13110151--13110181	16	1.9	16	93	0	53	48	19	12	19	1.81
13110989--13111033	18	2.5	19	85	7	58	33	2	0	64	1.06

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