genome.fa.s8620.2.7.7.80.10.50.1000.21.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  21  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)
4026348--4026387	21	1.9	21	89	0	62	25	40	25	10	1.86
4026307--4026392	20	4.1	20	74	14	57	24	33	26	15	1.95
4028346--4028379	17	2.0	17	88	0	50	14	2	29	52	1.56
4036501--4036548	2	24.0	2	100	0	96	50	0	0	50	1.00
4036828--4036855	2	14.0	2	100	0	56	50	0	0	50	1.00
4037621--4037657	19	2.0	20	84	10	51	45	2	10	40	1.53
4048379--4048409	16	1.9	16	93	0	53	25	6	0	67	1.14
4048475--4048518	16	2.8	16	81	18	56	18	2	11	68	1.30
4049335--4049373	20	2.0	20	89	0	60	35	5	7	51	1.53
4050108--4050161	23	2.4	23	90	3	83	20	11	0	68	1.19
4051865--4051909	19	2.4	19	85	10	58	66	0	20	13	1.24
4052067--4052150	41	2.0	42	93	2	143	65	8	0	26	1.21
4052787--4052811	9	2.8	9	100	0	50	8	0	0	92	0.40
4058648--4058697	24	2.1	24	85	7	66	24	2	14	60	1.45
4063156--4063192	16	2.2	18	85	9	51	13	5	2	78	1.03
4070581--4070617	16	2.3	16	95	0	65	21	27	21	29	1.99
4075104--4075275	89	1.9	89	91	2	283	43	7	11	37	1.69
4076055--4076115	2	30.5	2	96	0	113	49	0	1	49	1.10
4083749--4083819	20	3.5	20	98	0	133	38	18	19	23	1.93
4083749--4083829	40	2.0	40	90	0	126	35	18	20	24	1.95
4087123--4087161	14	2.8	14	96	0	69	35	30	25	7	1.84
4087151--4087239	20	4.4	20	82	2	108	35	21	22	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4087244--4087322	19	4.4	19	72	15	78	45	17	20	16	1.85
4087222--4087322	52	1.9	52	93	0	175	44	16	21	16	1.86
4087263--4087337	33	2.3	33	92	0	123	42	18	22	16	1.88
4087346--4087441	33	2.9	33	95	1	165	14	21	18	44	1.86
4087382--4087492	52	2.2	51	95	1	195	14	20	18	46	1.83
4087434--4087558	33	3.8	33	90	5	182	13	21	20	44	1.85
4087341--4087525	84	2.2	86	93	1	311	14	21	18	45	1.84
4087434--4087558	65	1.9	67	90	6	202	13	21	20	44	1.85
4087445--4087558	32	3.5	32	91	4	167	14	22	20	42	1.87
4089093--4089137	21	2.3	18	81	11	54	24	11	42	22	1.86
4089047--4089154	42	2.6	42	77	2	119	23	16	37	23	1.94
4089646--4089746	20	5.1	20	96	0	175	37	18	20	22	1.94
4089808--4089837	14	2.1	14	93	0	51	6	30	16	46	1.73
4089940--4090307	94	4.1	94	89	4	537	46	17	12	23	1.83
4090151--4090307	82	1.9	82	94	0	278	44	16	14	24	1.85
4092003--4092115	19	6.1	19	71	13	74	45	18	22	14	1.85
4092127--4092183	14	3.7	14	72	20	51	10	22	22	43	1.84
4092111--4092191	33	2.5	33	93	0	135	9	20	22	46	1.80
4092175--4092246	20	3.5	20	84	5	92	12	16	19	51	1.76
4092803--4093016	20	10.6	20	75	5	178	20	17	22	38	1.93
4092805--4093016	41	5.2	41	86	1	284	20	17	22	39	1.93
4093045--4093160	21	5.7	20	68	10	65	21	18	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4095737--4095940	75	2.7	75	82	7	227	50	14	5	29	1.66
4097643--4097671	12	2.5	12	94	5	51	27	0	10	62	1.28
4097605--4097805	75	2.7	75	79	6	218	27	4	14	52	1.63
4098192--4098345	41	3.7	41	85	1	200	33	19	19	27	1.96
4099256--4099340	32	2.8	30	77	10	91	62	7	4	25	1.41
4100878--4100907	13	2.3	13	100	0	60	16	46	23	13	1.82
4100979--4101086	28	3.8	28	80	1	90	41	0	11	46	1.46
4100918--4101103	29	6.5	29	78	3	117	36	4	15	44	1.66
4108251--4108320	29	2.4	29	87	0	104	24	4	25	45	1.71
4108318--4108390	28	2.8	25	80	10	74	39	2	8	49	1.47
4108257--4108421	29	5.8	29	75	11	85	33	2	15	47	1.59
4108608--4108633	6	4.3	6	100	0	52	19	19	15	46	1.85
4111136--4111390	46	5.5	46	92	0	438	43	12	22	21	1.86
4111260--4111507	118	2.1	118	90	0	388	45	10	22	21	1.82
4111214--4111555	164	2.1	165	88	1	499	45	10	22	22	1.82
4111378--4111587	46	4.6	46	90	0	294	47	9	21	21	1.78
4111144--4111434	92	3.2	89	82	9	338	43	12	22	21	1.85
4111148--4111434	138	2.1	135	85	8	384	43	12	22	21	1.85
4111168--4111587	72	6.0	72	71	19	323	45	10	21	21	1.83
4111168--4111587	210	2.0	209	88	1	626	45	10	21	21	1.83
4116541--4116609	29	2.4	29	97	0	129	37	15	14	31	1.88
4128666--4128737	23	3.3	22	74	5	74	40	23	16	19	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4132872--4132965	23	4.2	22	74	9	84	38	24	18	19	1.93
4133080--4133183	44	2.4	44	78	3	102	29	16	12	41	1.85
4141914--4142370	55	8.3	55	84	1	551	27	18	18	34	1.95
4141939--4142362	219	1.9	219	85	0	580	28	18	17	35	1.94
4142690--4142911	95	2.3	95	85	0	282	25	25	16	32	1.96
4143529--4143558	15	2.0	15	93	0	51	36	20	0	43	1.52
4145510--4145772	55	4.8	55	89	3	395	28	17	17	36	1.93
4145485--4145772	110	2.6	110	89	0	450	27	18	18	35	1.94
4146097--4146148	20	2.5	20	81	6	59	26	23	15	34	1.94
4146185--4146221	20	1.9	19	89	10	58	24	27	16	32	1.96
4146097--4146335	94	2.5	95	82	7	283	24	23	15	35	1.94
4156935--4156964	15	1.9	16	93	6	53	6	10	13	70	1.34
4170910--4171362	56	8.2	56	86	5	552	28	15	18	37	1.91
4172419--4172468	19	2.6	19	87	6	66	2	32	0	66	1.03
4173489--4173528	18	2.2	18	100	0	80	42	17	12	27	1.85
4177870--4178332	56	8.3	56	85	2	607	28	15	19	36	1.93
4192944--4193068	31	4.0	31	92	2	198	36	23	20	20	1.95
4193798--4193845	22	2.3	21	85	7	62	18	25	25	31	1.98
4196747--4196871	31	4.0	31	92	2	198	36	23	20	20	1.95
4197674--4197718	21	2.1	21	87	0	63	15	24	28	31	1.96
4198459--4199075	81	7.6	81	87	2	828	28	24	11	35	1.90
4199907--4199998	20	4.6	20	81	9	98	23	31	18	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4204098--4204644	81	6.6	81	83	6	632	27	23	11	37	1.90
4204249--4204591	173	2.0	173	89	3	530	27	23	11	37	1.90
4204164--4204644	254	1.9	254	87	2	716	27	23	12	36	1.91
4204925--4205067	55	2.6	54	83	5	173	34	18	13	33	1.90
4205506--4205561	20	2.8	20	84	10	78	23	30	16	30	1.96
4217001--4217138	63	2.2	63	84	2	179	31	21	16	30	1.95
4217917--4217960	21	2.1	21	83	8	54	75	2	0	22	0.92
4219555--4219581	13	2.1	13	100	0	54	51	7	18	22	1.70
4220134--4220211	31	2.5	31	100	0	156	32	14	3	50	1.61
4222262--4222305	17	2.4	19	85	7	56	68	0	0	31	0.90
4223411--4223446	18	2.0	18	100	0	72	38	38	11	11	1.76
4225100--4225258	64	2.5	64	87	6	225	29	13	23	33	1.92
4227935--4227964	14	2.1	14	93	0	51	33	10	16	40	1.82
4230703--4230745	22	1.9	22	85	4	59	18	23	39	18	1.92
4231736--4231776	18	2.3	18	86	0	55	2	29	24	43	1.67
4232405--4232581	88	2.0	88	100	0	354	28	6	36	28	1.83
4233517--4233694	90	2.0	90	90	0	284	36	11	7	44	1.68
4238534--4238573	21	1.9	21	85	10	55	35	10	2	52	1.48
4240847--4241228	210	1.8	210	84	4	518	37	15	20	26	1.92
4241034--4241240	115	1.8	115	85	6	294	41	13	19	26	1.88
4243940--4243982	22	2.0	22	85	0	59	37	4	11	46	1.61
4245090--4245569	116	4.2	115	78	9	439	38	12	23	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4245835--4245866	2	16.0	2	100	0	64	50	0	0	50	1.00
4251504--4251648	35	4.2	35	85	6	136	36	11	11	41	1.76
4251504--4251675	17	9.9	17	74	9	141	36	9	12	41	1.76
4251534--4251675	69	2.0	70	82	6	173	37	8	12	41	1.74
4255903--4255955	19	2.6	20	82	8	54	5	26	1	66	1.25
4256948--4256991	20	2.3	19	80	4	52	25	2	2	70	1.10
4259626--4259717	43	2.1	43	88	4	132	26	13	8	52	1.69
4260947--4261079	67	2.0	67	98	0	257	33	12	24	29	1.93
4264749--4264786	20	1.9	20	89	10	60	42	2	2	52	1.29
4264758--4264920	90	1.8	89	94	1	290	44	6	11	37	1.68

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