genome.fa.s9462.2.7.7.80.10.50.1000.80.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  80  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)
18223851--18224715	84	10.5	83	81	6	809	30	25	20	23	1.98
18223851--18224704	252	3.4	248	84	4	929	30	25	20	23	1.98
18225445--18225647	36	5.8	36	77	13	176	45	5	4	44	1.46
18225458--18225619	73	2.2	72	84	7	204	46	5	4	43	1.48
18225547--18225690	31	4.5	32	80	10	145	45	4	5	44	1.46
18225542--18225706	61	2.6	63	74	15	171	45	3	5	45	1.44
18225545--18225703	30	5.0	32	71	17	98	45	3	5	45	1.45
18225547--18225706	35	5.1	29	73	18	94	45	3	5	45	1.45
18230932--18231010	33	2.4	34	93	2	142	26	11	21	40	1.87
18241744--18241773	11	2.7	11	89	0	51	23	3	33	40	1.71
18246121--18246168	2	24.0	2	100	0	96	50	0	0	50	1.00
18247306--18247361	13	4.1	14	84	13	64	57	0	0	42	0.99
18247326--18247370	5	8.8	5	88	11	65	60	2	0	37	1.09
18247369--18247400	16	2.0	16	100	0	64	50	18	12	18	1.78
18248183--18248347	87	1.9	87	87	2	242	31	8	22	37	1.84
18250794--18250832	20	2.0	20	89	0	60	35	0	25	38	1.56
18253441--18253494	27	2.0	27	92	0	90	29	9	18	42	1.81
18253671--18253713	21	2.0	21	90	0	68	37	18	2	41	1.63
18254654--18254848	97	2.0	97	100	0	390	24	24	15	35	1.94
18259235--18259280	20	2.3	19	85	14	58	26	15	8	50	1.73
18268964--18269005	21	2.2	19	87	12	59	26	14	7	52	1.67
18271551--18271622	14	4.9	14	75	13	56	70	0	2	26	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18271551--18271614	28	2.4	26	76	19	69	71	0	1	26	0.94
18271658--18271698	19	2.2	19	86	4	57	78	0	7	14	0.96
18272884--18272927	16	2.8	16	86	10	56	75	4	0	20	0.98
18272940--18273037	49	2.0	47	90	7	153	46	4	3	45	1.37
18272987--18273332	38	8.7	38	75	17	226	45	5	2	46	1.39
18273098--18273137	2	20.5	2	94	5	73	47	0	0	52	1.00
18273025--18273210	95	2.0	92	86	7	259	46	4	1	47	1.31
18273062--18273168	58	1.9	55	86	9	153	47	3	0	47	1.26
18272946--18273250	131	2.4	134	84	12	406	46	4	2	46	1.37
18273121--18273332	38	5.6	37	83	12	254	45	7	2	45	1.43
18273554--18273592	6	6.5	6	93	0	69	17	0	66	15	1.25
18274523--18274637	60	1.9	60	89	3	178	37	4	25	33	1.76
18274523--18274661	60	2.3	61	85	4	176	37	4	24	33	1.75
18277702--18277758	6	9.5	6	98	0	105	50	0	14	35	1.42
18281700--18281739	17	2.3	18	84	16	57	52	0	0	47	1.00
18282911--18283008	40	2.5	37	84	12	117	63	2	2	32	1.17
18282939--18283007	22	3.3	22	67	19	58	65	2	1	30	1.16
18284974--18285020	22	2.1	22	96	0	85	29	21	36	12	1.91
18285050--18285093	23	1.9	23	95	0	79	9	27	40	22	1.84
18285051--18285100	23	2.2	23	88	0	73	12	26	40	22	1.88
18285556--18285914	172	2.1	173	90	2	562	39	4	18	37	1.72
18287657--18287681	6	4.2	6	100	0	50	16	0	64	20	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18288181--18288574	8	52.8	8	71	20	239	50	6	3	40	1.43
18288195--18288639	76	6.3	72	79	12	391	50	5	3	40	1.44
18288212--18288500	115	2.5	111	92	3	470	50	6	3	40	1.45
18288414--18288604	37	5.2	37	93	2	255	49	5	4	39	1.48
18288181--18288651	14	33.9	14	71	14	227	50	5	3	40	1.43
18288269--18288640	23	16.6	22	73	17	177	50	5	4	40	1.46
18292010--18292056	18	2.6	18	100	0	94	23	36	14	25	1.93
18292325--18292541	110	2.0	110	96	0	398	28	28	25	17	1.97
18293949--18293986	17	2.2	17	95	0	67	50	23	10	15	1.75
18294415--18294469	20	2.8	19	81	13	58	27	32	10	29	1.91
18295290--18295334	18	2.5	18	81	0	54	31	13	2	53	1.52
18295581--18295623	22	1.9	23	90	4	70	34	23	13	27	1.93
18295892--18295917	2	13.0	2	100	0	52	50	0	0	50	1.00
18303772--18303812	19	2.2	19	86	0	55	26	12	31	29	1.92
18303813--18303861	14	3.5	13	81	13	53	24	12	30	32	1.92
18311827--18311870	22	2.0	22	81	0	52	65	0	2	31	1.05
18314854--18315006	31	5.0	31	86	5	215	36	21	20	20	1.95
18315217--18315262	23	2.0	23	87	8	67	32	21	0	45	1.52
18315877--18315919	21	2.2	20	83	8	52	13	25	30	30	1.94
18318818--18318972	30	5.1	31	88	4	226	37	21	20	20	1.95
18318820--18318972	61	2.5	61	89	4	229	37	20	20	20	1.95
18319818--18319860	20	2.2	20	86	0	59	16	20	30	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18322815--18322970	31	5.0	31	91	1	242	36	22	20	20	1.95
18323186--18323232	23	2.0	24	91	4	78	34	21	0	44	1.52
18323503--18323537	14	2.5	14	100	0	70	42	14	5	37	1.69
18323877--18323921	21	2.1	21	87	0	63	15	24	28	31	1.96
18325047--18325115	23	3.0	23	97	0	129	34	10	26	28	1.89
18330749--18330791	2	21.5	2	100	0	86	51	0	0	48	1.00
18331124--18331168	12	3.7	12	81	3	54	66	0	4	28	1.11
18331744--18331840	37	2.6	37	80	0	113	30	12	16	40	1.85
18332590--18333634	106	9.9	106	91	0	1676	23	17	24	34	1.96
18334595--18334671	22	3.5	22	89	0	118	23	14	24	37	1.92
18335276--18335351	26	3.0	26	75	12	86	2	14	5	77	1.05
18335289--18335330	18	2.3	18	91	4	66	0	14	4	80	0.86
18335289--18335358	8	8.1	9	78	9	67	1	14	5	78	1.00
18339829--18339872	19	2.2	20	88	4	63	72	4	6	15	1.22
18339839--18339892	22	2.7	20	83	13	58	75	7	1	14	1.09
18339902--18339932	2	15.5	2	100	0	62	51	0	0	48	1.00
18340198--18340232	2	17.5	2	100	0	70	51	0	0	48	1.00
18340290--18340330	17	2.4	17	84	16	57	60	0	7	31	1.24
18340447--18340487	11	3.6	11	87	6	55	65	4	4	24	1.32
18340506--18340601	12	7.8	13	68	24	57	66	1	5	27	1.19
18340503--18340550	22	2.2	22	88	7	71	68	2	0	29	1.01
18340567--18340611	12	3.7	12	81	3	54	66	0	4	28	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18341183--18341287	37	2.8	37	86	0	147	30	14	14	40	1.85
18344271--18344311	21	2.0	21	85	0	55	43	24	4	26	1.74
18347582--18347638	22	2.7	23	78	10	68	22	33	21	22	1.97
18347658--18347730	20	3.7	20	86	0	92	20	24	23	31	1.98
18347833--18347872	20	1.9	22	90	10	66	37	40	10	12	1.77
18348953--18349000	19	2.5	20	82	3	62	52	6	12	29	1.63
18349780--18349817	20	1.9	20	88	0	58	44	7	7	39	1.63
18350088--18350136	24	2.0	24	96	0	89	32	10	26	30	1.89
18350166--18350205	21	1.9	21	84	0	53	30	12	10	47	1.74
18350448--18350490	22	1.9	23	90	4	70	25	32	20	20	1.97
18350524--18350596	20	3.7	20	94	0	119	19	28	23	28	1.98
18355399--18355438	2	20.5	2	89	5	64	47	0	0	52	1.00
18356901--18356938	3	12.3	3	88	5	58	68	0	2	28	1.03
18357113--18357645	45	12.0	45	91	3	855	33	18	23	24	1.97
18357113--18357631	263	2.0	264	93	1	898	33	19	23	23	1.97
18357669--18357772	45	2.3	45	89	0	154	31	17	20	30	1.95
18357548--18357870	121	2.7	121	92	0	513	32	17	21	27	1.96
18358524--18358580	22	2.6	22	94	0	96	38	12	15	33	1.85
18359974--18360150	75	2.4	75	91	0	282	29	22	16	31	1.96
18363612--18363640	8	3.8	8	90	9	51	0	20	0	79	0.74
18366022--18366053	7	4.4	7	96	4	55	62	12	12	12	1.55
18366046--18366083	20	1.9	20	89	10	60	52	10	13	23	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18366738--18366809	36	2.0	36	88	0	108	27	11	19	41	1.85
18370061--18370139	3	25.0	3	85	10	88	67	0	2	30	1.04
18370062--18370139	16	4.9	16	77	16	81	67	0	2	29	1.03
18370061--18370133	19	3.8	19	77	21	80	67	0	2	30	1.05
18370061--18370139	32	2.5	32	84	10	108	67	0	2	30	1.04
18377583--18377627	21	2.1	21	87	0	63	31	28	24	15	1.96
18378558--18378713	31	5.0	31	94	1	260	19	19	23	37	1.95
18384728--18384770	22	2.0	22	86	9	61	58	6	0	34	1.25
18388255--18388321	31	2.2	31	84	10	84	47	10	20	20	1.79
18393161--18393227	33	2.0	33	97	0	125	35	13	11	38	1.82

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