genome.fa.s8620.2.7.7.80.10.50.1000.51.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  51  of  64  ( 7674 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)
10394140--10394189	25	2.0	25	100	0	100	60	4	0	36	1.16
10402159--10402216	26	2.2	28	78	12	68	37	3	1	56	1.26
10403781--10403809	14	2.0	15	93	6	51	37	0	0	62	0.96
10412220--10412261	20	2.1	20	90	0	66	35	11	16	35	1.86
10412091--10412719	177	3.3	195	80	9	751	39	11	16	32	1.85
10412999--10413407	125	3.2	127	84	5	502	41	13	13	32	1.82
10413405--10414014	226	2.7	226	86	2	812	33	12	12	41	1.81
10423807--10423847	2	20.5	2	100	0	82	51	0	48	0	1.00
10424241--10424280	20	2.0	20	90	0	62	42	5	10	42	1.60
10424300--10424342	20	2.4	17	80	11	50	37	0	18	44	1.50
10424984--10425013	15	2.0	15	93	0	51	40	13	10	36	1.78
10425036--10425083	20	2.4	20	92	0	78	43	8	8	39	1.65
10437139--10437200	32	1.9	32	86	0	88	24	22	8	45	1.79
10441035--10441176	61	2.3	61	87	2	196	38	9	2	48	1.51
10441228--10441337	33	3.5	33	72	20	128	42	7	7	42	1.60
10441258--10441306	25	2.0	25	87	0	71	40	8	8	42	1.64
10441288--10441377	43	2.1	43	93	2	155	41	6	7	44	1.59
10441231--10441450	101	2.4	87	83	10	251	41	7	7	43	1.61
10441331--10441438	18	6.2	18	71	14	91	38	8	7	45	1.62
10441402--10441433	9	3.6	9	95	0	55	37	6	9	46	1.61
10441492--10441558	2	32.0	2	74	14	55	49	2	4	43	1.38
10441492--10441558	20	3.4	19	85	6	89	49	2	4	43	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10441492--10441560	18	3.7	18	80	18	70	49	2	4	43	1.37
10441539--10441662	31	4.4	28	70	27	102	41	7	9	41	1.65
10441522--10441642	49	2.4	49	87	5	170	44	5	8	41	1.58
10441639--10441715	18	3.9	18	76	18	82	41	7	9	41	1.65
10441639--10441718	42	1.9	42	94	0	142	41	7	8	42	1.64
10441798--10441998	20	9.8	20	67	21	96	41	5	5	46	1.51
10441855--10441915	27	2.2	28	88	2	88	39	4	8	47	1.55
10441907--10442013	2	53.0	2	76	12	103	46	2	1	48	1.27
10442099--10442844	209	3.5	211	90	3	1128	29	11	8	50	1.67
10442733--10444743	666	3.0	667	98	0	3828	31	21	13	33	1.92
10444777--10444888	4	28.8	4	79	12	117	0	69	0	30	0.89
10444773--10444888	30	4.0	30	81	11	125	0	68	0	31	0.89
10444933--10445002	2	35.0	2	82	0	68	10	45	0	44	1.37
10444939--10445002	26	2.5	26	94	0	110	10	45	0	43	1.39
10444872--10444984	32	3.6	32	85	2	156	12	46	0	41	1.41
10445966--10446024	31	2.0	29	86	6	82	25	20	3	50	1.63
10446311--10446369	31	1.9	30	89	3	91	23	20	3	52	1.61
10446384--10446474	32	2.9	32	83	4	114	20	18	6	53	1.66
10454464--10454529	30	2.2	30	91	0	105	34	25	30	9	1.87
10456225--10456592	131	2.8	130	87	1	486	39	16	11	32	1.84
10457203--10457272	28	2.5	26	78	17	70	64	8	7	20	1.45
10458427--10458509	40	2.0	41	95	2	150	36	16	21	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10459301--10459621	103	3.1	103	95	0	579	26	13	23	36	1.91
10459638--10459703	23	2.9	23	90	0	96	22	25	25	25	2.00
10463617--10463966	174	2.0	176	98	1	686	38	6	22	32	1.81
10465472--10465689	103	2.1	103	95	0	391	26	12	23	37	1.91
10466803--10466828	2	13.0	2	100	0	52	50	0	0	50	1.00
10467662--10467704	22	1.9	23	85	4	61	4	13	44	37	1.65
10467793--10467821	3	9.7	3	100	0	58	65	0	0	34	0.93
10474216--10474287	3	24.0	3	80	10	67	37	4	1	56	1.27
10475521--10475559	20	2.0	20	85	10	53	41	0	5	53	1.23
10477782--10477816	6	6.0	6	93	6	63	34	17	0	48	1.47
10481911--10481956	22	2.1	22	95	0	83	34	13	13	39	1.83
10482602--10482655	20	2.7	20	88	0	72	25	24	22	27	2.00
10482502--10482873	119	3.1	119	94	0	645	31	16	19	32	1.94
10482622--10483091	218	2.2	218	94	0	814	32	15	19	32	1.93
10482750--10482972	99	2.3	99	93	0	383	32	15	19	32	1.93
10482946--10482987	20	2.1	20	86	0	57	26	26	19	28	1.98
10482840--10483121	119	2.4	119	93	0	483	31	16	18	32	1.94
10483058--10483111	20	2.7	20	88	0	72	25	24	22	27	2.00
10482478--10483121	337	1.9	337	94	1	1148	32	15	18	33	1.93
10483259--10483359	3	34.0	3	74	13	75	37	3	0	57	1.24
10483259--10483371	9	11.5	10	73	18	62	39	3	0	55	1.23
10486485--10486598	42	2.7	41	75	10	106	35	17	14	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10486609--10486725	41	2.9	41	79	6	130	29	18	21	29	1.97
10487077--10487303	82	2.8	81	82	2	242	31	16	16	35	1.91
10487010--10487278	82	3.3	82	78	3	265	31	17	17	34	1.93
10487152--10487278	41	3.1	41	65	10	107	34	16	16	32	1.92
10494371--10494472	51	2.0	50	88	1	150	16	33	31	18	1.94
10499602--10499814	110	1.9	111	90	0	338	45	9	7	37	1.65
10500096--10500219	51	2.5	50	86	1	176	16	30	36	16	1.91
10500674--10500708	17	2.1	17	88	0	52	40	0	11	48	1.39
10501003--10501125	52	2.4	50	79	8	122	39	19	13	26	1.89
10501968--10502066	7	14.9	7	90	5	145	60	0	39	0	0.97
10502320--10502357	2	19.0	2	100	0	76	50	0	0	50	1.00
10509141--10509253	30	3.7	30	72	16	81	45	1	0	52	1.17
10509157--10509288	52	2.6	51	73	11	128	46	1	0	50	1.15
10509221--10509265	22	2.0	22	86	0	63	48	0	0	51	1.00
10509250--10509301	22	2.3	23	80	12	63	50	0	1	48	1.12
10509145--10509319	82	2.1	81	80	11	189	46	2	1	49	1.21
10509480--10509536	16	3.0	20	69	21	59	40	0	0	59	0.97
10509478--10509543	19	3.5	18	73	22	64	43	0	1	54	1.09
10509923--10509965	19	2.3	19	91	0	68	46	13	16	23	1.83
10511311--10511340	4	7.2	4	92	7	51	23	0	0	76	0.78
10511314--10511356	9	4.8	9	88	11	54	25	0	0	74	0.82
10511311--10511349	13	3.1	13	89	10	55	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10512334--10512388	2	27.5	2	100	0	110	49	0	0	50	1.00
10513494--10513528	15	2.2	16	90	5	54	51	0	0	48	1.00
10515423--10515473	22	2.3	22	82	0	66	39	17	3	39	1.68
10516161--10516185	2	12.5	2	100	0	50	52	0	0	48	1.00
10521857--10521924	35	1.9	35	93	0	118	39	13	8	38	1.75
10524484--10524531	25	1.9	25	100	0	96	33	12	16	37	1.86
10525428--10525582	77	2.0	77	93	0	265	26	13	33	26	1.93
10533252--10533701	110	4.1	110	90	2	653	35	22	17	24	1.95
10533252--10533701	219	2.1	216	87	3	645	35	22	17	24	1.95
10533662--10533790	52	2.5	52	89	0	195	36	20	15	27	1.93
10533861--10534058	84	2.4	84	87	1	281	30	26	19	24	1.98
10533852--10534272	208	2.0	212	98	1	814	29	27	18	24	1.98
10534073--10534671	84	7.3	83	82	5	599	30	24	19	25	1.98
10534063--10534676	249	2.5	248	82	4	709	30	24	19	25	1.98
10534220--10534737	249	2.1	249	82	5	625	31	23	19	25	1.98
10535650--10535689	16	2.5	16	87	0	62	22	15	45	17	1.85
10536032--10536064	17	1.9	17	93	0	57	9	3	3	84	0.82
10545353--10545520	82	2.0	83	97	1	320	32	11	14	42	1.81
10546259--10546384	64	2.0	64	96	0	234	38	23	19	19	1.94
10553152--10553203	27	1.9	27	84	0	68	9	38	23	28	1.86
10553406--10553457	27	1.9	27	92	0	86	13	40	17	28	1.87
10553129--10553654	261	2.1	250	84	5	687	17	34	14	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10556283--10556309	4	6.8	4	100	0	54	77	0	0	22	0.76
10564286--10564321	2	18.0	2	100	0	72	50	0	0	50	1.00
10573443--10573475	16	2.1	16	100	0	66	45	18	12	24	1.83
10576003--10576038	18	1.9	19	94	5	65	55	5	30	8	1.52
10576130--10576177	22	2.2	22	85	3	62	16	6	2	75	1.11
10578049--10578148	47	2.1	47	88	3	148	37	31	22	10	1.87
10579077--10579133	21	2.7	21	88	0	60	49	26	1	22	1.60
10585289--10585328	21	1.9	21	89	0	62	22	25	40	12	1.89
10585638--10585715	41	1.9	41	89	0	120	29	20	21	28	1.98
10586020--10586109	42	2.1	43	81	2	101	37	18	11	32	1.86

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