genome.fa.s1129.2.7.7.80.10.50.1000.64.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  64  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)
15039354--15039389	17	2.1	17	90	10	56	77	2	19	0	0.88
15049164--15049208	21	2.1	21	100	0	90	46	8	17	26	1.78
15052560--15052599	14	2.9	14	92	3	64	22	45	0	32	1.53
15052989--15053026	20	1.9	20	89	10	60	86	2	10	0	0.66
15055250--15055411	83	2.0	83	89	0	252	37	12	17	32	1.87
15055516--15055609	45	2.1	44	84	5	118	32	20	18	28	1.96
15057118--15057143	13	2.0	13	100	0	52	23	46	0	30	1.53
15060991--15061104	23	4.8	23	68	12	79	11	17	11	59	1.60
15063866--15063899	17	2.0	18	88	11	54	14	23	0	61	1.33
15064144--15064198	19	2.8	20	83	10	69	76	3	14	5	1.10
15064350--15064395	24	2.0	22	84	16	58	15	28	2	54	1.53
15069139--15069197	24	2.5	23	78	10	75	15	15	13	55	1.69
15071959--15071992	17	2.0	18	88	11	54	14	23	0	61	1.33
15072236--15072291	19	2.8	20	84	10	71	76	3	14	5	1.09
15074606--15074651	24	1.9	24	86	0	65	34	17	30	17	1.93
15081232--15081276	23	2.0	22	83	12	56	55	11	2	31	1.47
15084139--15084182	23	1.9	23	90	0	70	20	0	43	36	1.52
15086025--15086064	19	2.0	20	90	4	64	20	15	0	65	1.28
15086329--15086389	11	6.2	10	80	19	51	78	1	19	0	0.83
15086340--15086384	8	5.6	8	97	0	72	80	0	20	0	0.72
15086326--15086390	19	3.5	18	83	10	78	80	1	18	0	0.80
15086335--15086389	16	3.4	16	85	9	76	80	0	20	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15086326--15086390	27	2.4	27	87	7	89	80	1	18	0	0.80
15089997--15090032	16	2.3	16	95	4	65	52	5	22	19	1.66
15090037--15090085	20	2.4	21	89	3	73	48	14	14	22	1.79
15095370--15095398	15	2.0	15	93	6	51	0	20	3	75	0.94
15107164--15107197	13	2.6	13	85	0	50	32	0	35	32	1.58
15111876--15111927	11	4.7	11	83	9	61	78	11	9	0	0.95
15111887--15111934	10	4.5	11	80	12	55	72	14	12	0	1.11
15130616--15130656	21	2.0	21	85	9	57	56	4	0	39	1.21
15130594--15130661	14	4.9	14	75	16	52	63	2	0	33	1.10
15131824--15131854	3	10.3	3	100	0	62	32	0	0	67	0.91
15133331--15133374	20	2.1	21	83	4	54	40	15	9	34	1.79
15148504--15148569	32	2.1	32	100	0	132	37	18	6	37	1.75
15150431--15150498	31	2.2	31	94	0	118	29	20	7	42	1.79
15158949--15159002	27	2.0	28	85	10	76	0	22	9	68	1.17
15158949--15159009	27	2.2	28	82	11	72	1	21	8	68	1.24
15161622--15161668	20	2.3	22	78	14	55	23	17	2	57	1.50
15163811--15163857	20	2.3	20	85	7	60	42	12	4	40	1.63
15170900--15171449	278	2.0	272	97	2	1030	18	18	17	45	1.86
15172944--15172977	13	2.6	13	100	0	68	0	20	5	73	1.04
15173738--15173843	50	2.3	48	84	14	134	50	13	1	33	1.52
15188012--15188113	35	2.9	35	97	0	186	46	23	19	10	1.81
15191600--15191652	28	2.0	27	85	10	74	73	1	3	20	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15191731--15191786	29	1.9	29	81	0	67	57	10	14	17	1.65
15191814--15191941	51	2.5	51	89	2	186	54	13	13	18	1.70
15193398--15193788	42	8.5	42	66	20	183	27	15	25	31	1.96
15193434--15193844	96	4.3	96	87	1	545	28	15	24	31	1.95
15193770--15193986	54	4.2	54	73	15	199	30	17	23	28	1.97
15193824--15194385	96	5.9	96	85	1	750	29	16	23	30	1.96
15193339--15194184	342	2.5	337	85	5	1077	29	15	24	30	1.96
15193674--15193986	150	2.1	150	88	0	473	29	16	23	30	1.97
15193578--15194090	246	2.1	246	86	0	722	30	16	23	29	1.96
15193347--15194324	438	2.3	426	82	6	1266	28	15	24	30	1.96
15194692--15195102	74	5.6	73	79	6	334	37	12	19	30	1.89
15200873--15200968	42	2.3	42	85	3	122	28	23	22	25	2.00
15203224--15203266	17	2.6	16	85	10	52	34	2	2	60	1.22
15203240--15203292	3	18.0	3	88	3	72	37	1	0	60	1.08
15204409--15204450	15	2.7	15	88	3	57	26	4	9	59	1.48
15208159--15208194	16	2.2	17	90	9	58	77	0	16	5	0.94
15210966--15211011	22	2.1	22	91	0	74	36	13	10	39	1.79
15212230--15212276	16	3.0	15	79	17	51	44	0	0	55	0.99
15213393--15213434	15	2.7	15	88	3	57	26	4	9	59	1.48
15220639--15220687	21	2.3	21	100	0	98	44	4	16	34	1.66
15227601--15228008	55	7.2	55	80	7	422	35	15	16	33	1.90
15227786--15227917	66	2.0	66	83	2	167	35	12	13	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15227676--15227999	176	1.8	176	88	5	494	34	15	16	33	1.90
15228408--15228459	24	2.2	24	100	0	104	36	13	7	42	1.73
15235471--15235507	12	2.8	14	80	16	51	43	5	8	43	1.57
15237332--15237377	21	2.2	22	88	7	69	67	13	0	19	1.23
15237793--15237847	23	2.5	22	82	8	76	36	18	20	25	1.94
15248400--15248424	13	1.9	13	100	0	50	44	16	8	32	1.76
15248894--15249287	54	7.3	54	91	1	556	31	12	17	39	1.86
15248894--15249371	54	8.9	54	89	2	548	31	13	16	37	1.88
15250008--15250032	2	12.5	2	100	0	50	52	0	0	48	1.00
15251505--15251805	59	5.1	59	90	0	476	37	12	23	26	1.90
15263503--15263602	50	2.0	50	100	0	200	38	8	16	38	1.78
15264440--15264483	2	22.0	2	100	0	88	50	0	0	50	1.00
15266072--15266137	3	22.0	3	100	0	132	33	0	0	66	0.92
15266258--15266302	19	2.4	18	78	10	54	33	4	28	33	1.77
15270728--15270778	20	2.6	19	81	9	66	31	3	29	35	1.76
15272135--15272242	35	3.1	35	77	10	112	28	34	2	34	1.72
15280191--15280216	11	2.4	11	100	0	52	0	0	7	92	0.39
15282829--15282937	35	3.1	35	86	5	141	26	37	3	32	1.74
15285359--15285403	22	2.0	22	100	0	90	68	13	4	13	1.35
15285561--15286632	535	2.0	536	99	0	2105	36	14	15	33	1.88
15291146--15291484	169	2.0	168	98	0	660	32	19	12	34	1.90
15293242--15293279	14	2.7	14	87	0	58	23	15	31	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15293703--15293885	45	4.2	44	80	8	198	33	8	17	39	1.81
15295718--15295760	13	3.3	13	96	0	77	39	13	27	18	1.89
15296914--15297564	81	8.0	81	87	1	860	28	24	11	35	1.91
15296914--15297553	243	2.6	243	88	1	951	28	24	11	35	1.90
15297773--15297823	19	2.5	21	84	9	61	29	15	15	39	1.89
15301407--15301726	111	2.9	111	92	0	532	25	20	8	46	1.78
15301633--15301730	49	2.1	49	80	5	112	26	18	9	45	1.79
15301857--15301982	65	1.9	65	85	0	171	32	22	12	32	1.91
15301924--15303182	81	15.6	81	85	1	1564	29	23	11	35	1.91
15301924--15303182	160	7.8	161	85	2	1546	29	23	11	35	1.91
15301924--15303182	241	5.2	242	85	2	1548	29	23	11	35	1.91
15303148--15303330	68	2.7	68	84	3	224	29	23	15	31	1.96
15304707--15304772	18	3.7	18	100	0	132	33	12	21	33	1.90
15304775--15304954	95	1.9	95	86	2	254	41	12	23	22	1.88
15305379--15305632	81	3.1	81	91	0	427	35	12	22	29	1.90
15317319--15317712	45	8.7	45	88	1	522	38	11	20	29	1.87
15323659--15323709	20	2.5	21	83	3	68	33	19	15	31	1.93
15323699--15323896	95	2.1	96	82	2	238	33	17	21	27	1.96
15323699--15323920	95	2.3	96	80	3	225	32	16	22	27	1.96
15324363--15324582	45	4.9	45	83	5	257	39	11	20	28	1.88
15324367--15324582	88	2.4	90	82	4	258	39	11	20	28	1.87
15339826--15340273	54	8.3	54	89	0	646	32	18	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15340293--15340343	2	26.0	2	84	11	70	50	1	0	47	1.12
15340658--15340846	95	2.0	95	88	2	281	27	23	14	33	1.94
15347389--15347790	54	7.4	54	84	1	527	33	20	17	28	1.95
15348135--15348332	95	2.1	94	85	0	279	26	24	15	33	1.95
15352926--15352968	22	2.0	21	86	8	61	37	11	9	41	1.74
15361846--15362020	90	2.0	89	93	1	296	37	10	6	45	1.65
15369542--15369804	90	2.9	90	91	0	420	45	6	10	37	1.65
15376314--15376483	86	2.0	84	84	9	218	45	7	11	36	1.67
15382815--15382980	90	1.9	89	93	3	289	36	10	6	46	1.64
15385174--15385349	89	2.0	88	93	2	298	38	10	6	44	1.66

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