genome.fa.s9462.2.7.7.80.10.50.1000.11.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  11  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)
2259525--2259574	21	2.5	20	90	9	75	32	28	12	28	1.92
2262416--2262467	23	2.3	23	100	0	104	34	19	13	32	1.90
2262519--2262558	21	1.9	21	85	10	55	25	27	20	27	1.99
2266972--2267023	22	2.3	24	75	18	58	38	0	1	59	1.08
2267187--2267231	23	2.0	23	82	8	56	44	4	2	48	1.35
2268104--2268227	60	2.1	60	84	1	160	33	17	6	41	1.75
2280094--2280569	183	2.6	183	87	1	650	43	13	16	26	1.84
2280499--2280541	20	2.3	20	88	11	65	53	11	13	20	1.71
2282313--2282367	20	2.5	22	81	18	62	50	0	3	45	1.19
2282653--2282685	15	2.2	15	94	0	57	21	6	60	12	1.53
2282769--2282809	21	2.0	21	90	0	64	41	12	26	19	1.87
2282846--2282911	33	2.0	33	93	0	114	30	0	46	22	1.52
2286572--2286921	185	1.9	185	94	1	621	36	14	15	34	1.87
2289620--2291337	182	9.6	182	83	7	2182	42	12	16	28	1.85
2291473--2291634	87	1.9	86	89	1	252	34	13	9	42	1.76
2291546--2291606	23	2.7	23	84	0	77	36	13	4	45	1.64
2292713--2292749	2	19.5	2	89	10	60	48	0	0	51	1.00
2296026--2296124	41	2.4	41	96	0	180	31	17	12	39	1.86
2302863--2303164	163	1.9	163	90	0	487	31	12	12	43	1.80
2303020--2303419	182	2.2	182	89	2	588	29	13	12	44	1.80
2307744--2307848	50	2.1	51	98	1	203	35	8	15	40	1.78
2312349--2312389	16	2.5	16	92	4	64	43	0	2	53	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2315206--2315248	16	2.7	15	76	13	50	32	2	0	65	1.06
2326927--2327082	65	2.4	64	85	1	204	30	19	21	27	1.98
2327423--2327456	12	2.7	13	81	9	52	38	5	5	50	1.51
2329708--2329814	44	2.4	44	85	0	142	26	21	22	29	1.99
2333576--2333620	23	1.9	24	86	4	65	33	6	6	53	1.53
2335413--2335568	65	2.4	64	84	5	190	32	19	19	28	1.96
2336873--2336911	20	2.0	20	84	0	51	35	15	7	41	1.76
2337879--2337996	23	5.1	23	76	8	71	34	23	22	18	1.96
2337937--2338004	23	3.0	22	80	8	82	30	20	27	20	1.98
2343685--2343778	23	4.2	23	75	5	68	36	25	21	17	1.94
2343685--2343762	23	3.4	23	78	1	77	37	25	21	15	1.93
2344747--2344785	20	2.0	20	90	5	62	41	12	15	30	1.85
2345737--2345769	12	2.8	12	100	0	66	42	36	0	21	1.53
2349898--2349967	12	5.8	12	71	6	52	18	14	17	50	1.79
2349899--2349971	24	3.0	24	85	0	92	20	12	16	50	1.77
2349861--2349966	48	2.2	48	81	6	117	20	15	15	49	1.80
2352109--2352150	18	2.3	18	83	0	57	21	47	19	11	1.81
2352139--2352191	15	3.5	15	94	0	88	22	24	26	26	2.00
2352139--2352194	7	7.6	7	80	11	67	21	26	26	25	1.99
2354676--2354745	12	5.8	12	71	6	52	18	12	18	50	1.78
2354677--2354749	24	3.0	24	83	0	92	20	10	17	50	1.76
2354639--2354747	48	2.3	49	82	6	125	21	13	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2354908--2354958	2	25.5	2	100	0	102	49	0	0	50	1.00
2355977--2356043	19	3.3	19	76	12	53	53	0	2	43	1.16
2356201--2356248	21	2.3	21	96	0	87	43	25	4	27	1.72
2375817--2376106	43	6.8	43	86	3	390	17	25	23	33	1.96
2375817--2376106	84	3.4	84	85	4	375	17	25	23	33	1.96
2378104--2378142	18	2.2	18	100	0	78	17	51	20	10	1.74
2380917--2381250	43	7.8	43	90	1	474	17	25	23	33	1.96
2380917--2381250	85	3.9	86	88	1	492	17	25	23	33	1.96
2380917--2381229	128	2.4	128	92	0	527	16	25	23	33	1.96
2389716--2389740	2	12.5	2	100	0	50	52	0	0	48	1.00
2395246--2395317	30	2.4	30	85	0	99	47	1	5	45	1.34
2399319--2399391	30	2.4	31	81	2	85	43	5	16	34	1.71
2400834--2400873	21	2.0	20	85	5	53	30	0	17	52	1.45
2404776--2404845	29	2.4	29	86	9	97	50	1	4	44	1.30
2407029--2407076	23	2.1	23	88	0	69	35	12	18	33	1.89
2407552--2407624	23	3.2	23	90	0	110	38	20	5	35	1.76
2407991--2408063	23	3.2	23	94	0	119	39	21	4	34	1.73
2408479--2408551	23	3.2	23	92	0	119	38	21	5	34	1.77
2408569--2408613	22	2.0	22	86	0	63	42	11	4	42	1.60
2407885--2408838	488	2.0	490	97	0	1788	40	11	7	40	1.69
2410976--2411913	183	5.1	183	95	0	1698	33	16	14	35	1.90
2413123--2413213	3	30.3	3	77	0	92	24	32	6	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2413123--2413226	12	8.7	12	86	0	109	23	32	6	37	1.81
2414749--2415446	200	3.5	200	95	0	1216	30	18	15	35	1.92
2415569--2415629	19	3.3	18	88	2	59	52	11	1	34	1.47
2415581--2415629	19	2.6	19	96	0	89	55	10	2	32	1.45
2417420--2417477	25	2.3	25	87	0	80	22	46	0	31	1.52
2417511--2417575	21	3.1	21	93	0	103	16	30	10	41	1.83
2419792--2419834	20	2.3	18	85	14	61	20	16	11	51	1.75
2419797--2419843	20	2.4	19	82	10	67	19	17	10	53	1.72
2419978--2420024	20	2.3	20	89	10	78	17	17	10	55	1.69
2419764--2420236	181	2.6	181	88	2	707	27	16	13	42	1.86
2427821--2427872	7	7.6	7	77	12	54	82	0	13	3	0.80
2427821--2427872	14	3.8	13	80	16	61	82	0	13	3	0.80
2427826--2427878	14	3.6	16	82	12	53	81	0	15	3	0.83
2435783--2435832	26	2.0	25	84	4	64	30	8	4	58	1.45
2439186--2439238	15	3.5	15	79	5	54	77	0	7	15	0.98
2439194--2439366	12	14.7	11	66	20	52	73	1	4	19	1.09
2439302--2439365	5	12.8	5	80	12	69	79	1	3	15	0.93
2439300--2439375	14	5.7	13	79	11	57	80	1	3	14	0.92
2439276--2439355	26	3.0	26	80	8	81	75	2	3	18	1.07
2439302--2439360	31	1.9	31	86	6	84	79	1	3	15	0.94
2439422--2439446	13	1.9	13	100	0	50	88	0	0	12	0.53
2440634--2440704	3	23.0	3	76	18	58	64	0	2	32	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2440637--2440712	25	3.1	24	80	14	77	61	0	2	35	1.10
2440671--2440723	23	2.2	26	87	12	78	60	1	0	37	1.08
2440691--2441014	37	8.7	37	76	13	194	46	5	4	43	1.46
2440702--2440851	34	4.3	34	72	13	108	47	4	3	45	1.38
2440732--2441009	151	1.8	152	82	11	356	44	6	4	44	1.49
2440691--2441038	38	9.6	36	80	10	272	46	6	4	43	1.47
2441026--2441059	2	18.0	2	88	11	54	52	0	0	47	1.00
2441613--2442753	84	14.0	80	80	7	915	24	18	23	32	1.97
2441854--2441986	71	1.9	71	90	3	214	21	19	24	34	1.96
2441926--2442787	168	5.2	168	87	1	1116	24	18	24	32	1.97
2441590--2442787	252	4.9	249	79	7	1151	24	18	23	32	1.97
2443203--2443237	16	2.1	16	89	5	52	51	5	14	28	1.65
2443931--2444131	95	2.1	95	90	2	314	31	17	15	34	1.92
2447458--2447488	11	2.8	11	100	0	62	58	6	6	29	1.48
2447480--2447566	45	2.0	44	82	13	108	68	3	4	22	1.23
2447651--2447675	2	12.5	2	100	0	50	48	0	0	52	1.00
2448792--2448836	15	3.1	15	82	17	51	73	2	0	24	0.95
2448923--2449124	36	5.5	36	84	7	257	45	6	2	45	1.44
2448923--2449111	72	2.6	72	90	6	292	44	5	3	46	1.43
2450200--2450236	18	2.0	19	94	5	67	48	10	8	32	1.67
2453125--2453182	29	2.0	29	100	0	116	20	20	3	55	1.58
2456343--2456392	20	2.5	20	74	6	57	62	0	2	36	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2456359--2456403	23	2.0	22	87	12	65	60	0	4	35	1.17
2461103--2461151	20	2.5	20	77	12	64	32	24	18	24	1.97
2461228--2461265	20	1.9	20	88	0	58	26	15	15	42	1.87
2468973--2469170	104	1.9	104	83	2	254	36	11	11	40	1.77
2473414--2473464	3	17.0	3	83	0	57	29	5	37	27	1.80
2473416--2473467	18	2.9	18	97	0	95	26	5	40	26	1.79
2473414--2473469	21	2.7	21	88	0	76	26	5	39	28	1.78
2475547--2475670	36	3.5	35	84	5	160	24	21	19	34	1.96
2475550--2475689	36	3.9	35	82	6	149	21	22	18	37	1.94
2475550--2475694	72	2.0	71	86	6	204	20	22	17	39	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   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