genome.fa.s8242.2.7.7.80.10.50.1000.71.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  71  of  73  ( 8740 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)
16413904--16413938	6	6.0	6	86	6	54	17	2	0	80	0.84
16414351--16414415	28	2.3	29	83	2	96	29	33	4	32	1.78
16430400--16430788	197	2.0	198	99	0	771	33	7	15	43	1.75
16431086--16431215	65	2.0	65	100	0	260	24	9	15	50	1.73
16433201--16433242	21	2.0	22	90	4	68	26	23	19	30	1.98
16433777--16433842	24	2.8	24	72	19	66	31	25	22	19	1.98
16435122--16435147	8	3.2	8	100	0	52	15	38	0	46	1.46
16441026--16441102	37	2.1	37	85	0	100	15	10	42	31	1.81
16444324--16444376	3	17.3	3	92	3	88	35	0	0	64	0.94
16445245--16445287	14	2.9	15	75	6	52	23	11	11	53	1.69
16445303--16445373	30	2.4	29	77	11	72	18	15	11	54	1.69
16449892--16450063	61	2.8	61	88	2	245	34	21	14	29	1.93
16450457--16450578	36	3.4	36	83	0	145	22	22	14	40	1.90
16450557--16450639	31	2.7	31	80	10	91	36	21	10	31	1.88
16450623--16450741	36	3.5	36	68	17	108	23	24	15	36	1.93
16450595--16450943	66	5.2	66	78	12	273	27	20	13	38	1.90
16450786--16450898	33	3.3	33	72	12	104	32	16	12	38	1.86
16451048--16451143	46	2.2	44	83	5	113	28	32	15	23	1.95
16451071--16451164	46	2.0	46	87	0	134	26	37	12	23	1.91
16451084--16451198	46	2.7	41	78	10	108	23	37	16	22	1.94
16451364--16451400	3	12.3	3	94	0	65	32	2	0	64	1.07
16454344--16454429	28	2.9	30	91	6	149	31	19	11	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16455059--16455106	18	2.7	18	82	17	64	29	2	2	66	1.14
16455052--16455104	18	2.6	19	77	17	54	35	1	1	60	1.19
16455178--16455235	17	3.3	16	75	15	53	58	0	1	39	1.08
16455192--16455325	24	6.2	21	72	20	91	56	1	1	40	1.17
16455199--16455283	42	2.1	39	81	14	93	57	2	0	40	1.11
16455743--16455767	9	2.8	9	100	0	50	68	0	0	32	0.90
16456324--16456364	18	2.3	18	86	0	55	34	0	2	63	1.08
16457365--16457402	20	1.9	20	94	0	67	57	10	10	21	1.61
16460098--16460134	17	2.2	17	95	0	65	10	18	48	21	1.78
16460122--16460151	14	2.1	14	93	0	51	0	10	60	30	1.30
16460105--16460160	19	3.1	19	79	5	62	5	16	53	25	1.63
16460166--16460257	19	4.7	19	82	9	105	33	26	23	16	1.95
16460166--16460213	9	5.0	10	75	10	55	27	27	27	18	1.98
16467438--16467490	17	3.3	17	79	15	76	11	20	49	18	1.78
16467511--16467560	19	2.6	19	96	0	91	38	28	24	10	1.87
16469733--16469766	16	2.1	16	94	0	59	32	8	26	32	1.87
16479557--16479590	12	2.9	11	91	8	50	61	0	2	35	1.11
16479789--16479838	24	2.1	24	92	3	84	66	0	10	24	1.22
16481209--16481239	12	2.6	12	94	0	53	9	16	35	38	1.81
16481443--16481575	42	3.2	41	77	17	139	34	19	19	26	1.96
16481416--16481569	82	1.9	83	90	1	247	35	20	20	23	1.96
16481416--16481554	42	3.4	40	78	15	149	35	20	20	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16481539--16481690	83	1.9	81	81	10	184	38	14	15	31	1.88
16481589--16481699	41	2.7	40	83	4	132	35	12	16	36	1.86
16482257--16482544	83	3.5	81	79	6	308	28	20	19	32	1.96
16482240--16482544	41	7.4	41	77	5	247	29	20	19	31	1.97
16482257--16482565	166	1.9	165	79	6	356	27	19	19	33	1.95
16482515--16482605	43	2.2	42	90	4	139	30	12	20	36	1.89
16488711--16488755	21	2.1	21	87	0	63	31	28	24	15	1.96
16489354--16489400	23	2.0	24	91	4	78	44	0	21	34	1.52
16489616--16489771	31	5.0	31	89	1	233	21	20	21	36	1.95
16491151--16491197	23	2.0	24	91	4	78	44	0	21	34	1.52
16491413--16491568	31	5.0	31	89	1	233	21	20	21	36	1.95
16495342--16495388	23	2.0	24	91	4	78	44	0	21	34	1.52
16495604--16495759	31	5.0	31	89	1	233	21	20	21	36	1.95
16499824--16499884	21	2.9	21	82	0	68	45	19	31	3	1.66
16500326--16500660	43	7.7	43	78	6	228	35	21	14	28	1.92
16501058--16501115	29	2.0	29	89	0	89	13	36	27	22	1.92
16501155--16501205	10	4.7	10	74	25	50	23	39	27	9	1.86
16501158--16501224	14	4.4	14	77	20	71	23	38	29	7	1.82
16501154--16501242	34	2.5	36	90	5	137	23	35	30	10	1.88
16501172--16501205	10	3.4	10	84	15	52	23	38	29	8	1.85
16501206--16501286	33	2.5	33	87	4	110	25	27	38	8	1.85
16501292--16501347	29	1.9	29	92	0	94	21	30	35	12	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16501890--16501933	17	2.6	17	100	0	88	38	0	0	61	0.96
16510430--16510478	27	1.9	25	84	12	64	28	6	2	63	1.30
16510430--16510478	25	1.9	26	84	12	66	28	6	2	63	1.30
16510796--16510826	2	15.5	2	100	0	62	48	0	0	51	1.00
16511534--16511562	3	9.7	3	100	0	58	65	0	0	34	0.93
16512819--16512881	23	2.7	23	87	4	83	63	4	9	22	1.43
16520014--16520471	227	2.0	230	98	1	895	42	17	18	20	1.89
16524075--16524115	21	2.0	21	100	0	82	14	21	29	34	1.93
16524080--16524137	23	2.7	21	86	5	71	13	25	29	31	1.94
16528126--16528179	23	2.3	23	90	6	83	25	20	35	18	1.95
16528109--16528190	23	3.7	23	81	9	73	21	21	31	24	1.98
16528109--16528191	21	3.8	21	77	13	69	21	21	31	25	1.98
16535369--16535408	20	2.0	20	100	0	80	40	20	5	35	1.74
16538365--16538431	35	1.9	35	93	0	116	44	22	0	32	1.53
16538435--16538511	35	2.2	35	83	0	100	37	0	20	41	1.53
16539103--16539282	98	1.8	100	87	6	276	35	1	6	56	1.36
16539408--16539439	15	2.1	16	94	5	57	40	0	0	59	0.97
16543546--16543606	23	2.7	23	86	0	86	27	24	27	19	1.99
16551587--16551647	21	2.8	21	85	9	70	22	34	24	18	1.96
16553583--16553656	23	3.2	23	77	17	64	16	1	27	55	1.49
16558477--16558516	2	20.0	2	94	0	71	52	0	0	47	1.00
16563755--16563802	24	2.0	24	95	0	87	47	12	18	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16564410--16564482	36	2.0	36	84	10	96	47	4	1	46	1.30
16565530--16565680	75	2.0	75	93	0	257	33	8	10	47	1.69
16566423--16566468	2	23.5	2	95	4	85	52	0	0	47	1.00
16566769--16566855	38	2.2	40	86	11	119	50	0	0	49	1.00
16567775--16567807	16	2.1	16	88	11	50	42	6	6	45	1.53
16569312--16569430	59	2.0	61	86	3	170	53	10	6	28	1.61
16569376--16569453	39	2.0	39	84	0	102	42	12	6	38	1.69
16569422--16569567	58	2.6	57	82	6	172	41	11	5	41	1.64
16569536--16569679	38	3.8	38	77	8	150	42	9	6	40	1.65
16569612--16569831	97	2.3	95	81	12	247	45	9	7	38	1.65
16569846--16569973	58	2.2	58	88	2	186	48	9	6	35	1.61
16569883--16570180	58	5.1	58	81	3	305	40	12	8	38	1.73
16572627--16572754	58	2.2	58	85	2	168	49	9	5	35	1.58
16572682--16572960	115	2.4	115	82	3	301	41	11	8	37	1.73
16572664--16572960	58	5.1	58	80	4	278	42	11	8	38	1.71
16574440--16574480	21	2.0	21	85	9	57	41	7	14	36	1.74
16578536--16578640	55	1.9	55	86	3	149	44	13	21	20	1.85
16585227--16585287	20	2.9	21	85	7	79	19	26	32	21	1.97
16587536--16587604	31	2.2	31	100	0	138	34	5	13	46	1.67
16591693--16591726	3	11.3	3	87	12	52	67	2	29	0	1.05
16592997--16593030	10	3.4	10	87	0	50	88	0	8	2	0.62
16592997--16593071	9	7.4	11	75	20	58	78	0	13	8	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16592990--16593049	9	6.4	10	79	12	56	80	0	15	5	0.88
16593047--16593077	14	2.3	13	94	5	53	74	0	12	12	1.08
16594081--16594132	15	3.5	15	97	0	95	50	11	17	21	1.77
16594252--16595225	55	17.8	55	85	2	1054	30	19	22	27	1.98
16594252--16595225	164	5.9	165	83	3	1092	30	19	22	27	1.98
16594252--16595158	219	4.1	220	84	2	1081	31	19	22	27	1.98
16601961--16602036	30	2.5	30	82	6	82	43	5	14	36	1.68
16609761--16609796	19	1.9	19	88	5	56	55	5	0	38	1.23
16611110--16611167	22	2.6	22	94	0	98	27	13	41	17	1.87
16611458--16611504	14	3.5	13	83	11	60	65	4	0	29	1.11

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