genome.fa.s8027.2.7.7.80.10.50.1000.27.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  27  of  38  ( 4505 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)
5597256--5597347	41	2.2	41	90	9	143	40	23	19	16	1.91
5613458--5613490	13	2.5	13	95	5	57	42	3	0	54	1.15
5619102--5619154	17	3.2	17	91	2	81	58	0	16	24	1.38
5622403--5622562	80	2.0	79	92	3	268	36	16	7	38	1.77
5622525--5622690	74	2.3	69	84	6	199	40	14	6	38	1.72
5622537--5622690	69	2.2	71	84	6	197	40	12	6	39	1.70
5622477--5622897	161	2.6	167	84	6	597	39	15	7	37	1.76
5622690--5622851	66	2.4	69	86	4	215	40	14	8	36	1.76
5624849--5624873	13	1.9	13	100	0	50	52	0	0	48	1.00
5625112--5625175	32	2.0	32	100	0	128	34	6	12	46	1.67
5626055--5626083	14	2.0	15	93	6	51	51	20	0	27	1.47
5633287--5633371	41	2.1	41	88	0	125	31	12	17	37	1.88
5633947--5633984	12	3.2	12	100	0	76	42	7	23	26	1.81
5634718--5634779	18	3.4	18	70	0	61	33	19	4	41	1.72
5634697--5634777	36	2.2	36	86	0	117	37	22	2	38	1.68
5635025--5635102	21	3.9	21	88	6	117	23	29	23	24	1.99
5635025--5635102	39	1.9	41	87	7	115	23	29	23	24	1.99
5636454--5636507	20	2.7	20	100	0	108	24	29	22	24	1.99
5638468--5638502	13	2.7	13	86	0	52	34	5	2	57	1.37
5638686--5638753	34	2.0	34	100	0	136	26	26	14	32	1.95
5639015--5639113	31	3.3	31	73	11	89	50	7	13	29	1.67
5645479--5645524	19	2.4	19	96	0	83	2	28	6	63	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5646126--5646220	3	31.0	3	82	8	111	63	2	1	33	1.13
5647087--5647130	17	2.6	17	89	7	63	45	0	0	54	0.99
5647599--5647748	63	2.5	60	78	12	162	32	13	18	36	1.90
5648397--5648425	2	15.0	2	92	7	51	48	0	0	51	1.00
5649260--5649386	60	2.1	61	82	8	154	37	14	16	32	1.89
5649704--5649740	4	9.8	4	82	11	51	24	0	24	51	1.49
5649702--5649740	14	2.9	14	88	7	55	25	0	23	51	1.49
5652177--5652213	19	1.9	19	94	0	65	32	29	16	21	1.95
5652239--5652310	20	3.6	20	70	7	65	30	19	20	29	1.97
5652389--5652439	22	2.3	22	96	0	93	25	45	9	19	1.81
5652805--5652887	39	2.1	40	88	2	123	20	19	22	37	1.94
5652805--5652887	20	4.2	20	79	3	96	20	19	22	37	1.94
5652816--5652910	20	4.8	20	85	1	102	14	17	22	45	1.85
5652874--5652917	20	2.2	20	91	0	70	11	13	20	54	1.69
5654903--5654952	19	2.6	19	81	6	57	18	18	22	42	1.90
5654915--5654953	19	2.0	20	90	5	62	12	15	20	51	1.76
5654993--5655036	20	2.2	20	91	0	70	15	13	20	50	1.78
5655517--5655628	42	2.7	42	84	2	136	22	35	18	23	1.96
5655511--5655628	21	5.6	21	74	2	103	22	35	18	23	1.96
5656961--5657070	36	3.3	36	68	21	112	25	3	16	54	1.58
5656933--5657070	63	2.2	64	93	3	235	26	4	15	53	1.61
5657147--5657192	20	2.3	20	92	0	83	45	30	8	15	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5657223--5657352	20	6.5	20	90	0	197	30	19	19	31	1.96
5657323--5657592	140	1.9	140	98	0	522	42	15	12	28	1.84
5657652--5657686	18	1.9	18	94	0	61	17	2	25	54	1.57
5660799--5660867	20	3.4	20	76	11	77	21	15	28	33	1.95
5660779--5660869	41	2.2	42	80	9	107	25	14	26	34	1.94
5660893--5660948	19	2.9	19	97	0	103	23	16	28	32	1.96
5664955--5665007	21	2.5	21	87	0	79	20	24	18	35	1.95
5664997--5665082	20	4.3	20	96	0	163	40	19	19	19	1.91
5665285--5665350	22	3.0	22	86	0	96	24	37	15	22	1.92
5665687--5665776	20	4.6	20	84	1	92	14	17	22	45	1.85
5665741--5665784	20	2.2	20	83	0	52	13	13	18	54	1.71
5667431--5667471	21	1.9	21	85	5	55	26	14	14	43	1.84
5667591--5667727	20	7.5	20	72	21	95	41	22	18	17	1.90
5667614--5667707	33	2.8	34	80	3	118	44	23	18	13	1.85
5667647--5667765	53	2.2	53	80	5	134	42	21	19	16	1.89
5667594--5667759	87	1.9	87	92	0	278	42	21	19	16	1.89
5667772--5667820	20	2.5	20	100	0	98	14	20	26	38	1.91
5667772--5667830	20	3.0	20	89	0	64	15	18	23	42	1.88
5668326--5668377	21	2.5	21	81	6	52	25	28	23	23	1.99
5669767--5669802	14	2.6	14	90	0	54	30	0	22	47	1.52
5669919--5670003	33	2.5	33	90	1	134	45	18	22	12	1.83
5670018--5670113	33	2.9	34	87	3	140	13	21	19	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5670085--5670173	20	4.4	20	88	2	126	16	20	25	37	1.93
5673535--5673757	20	11.1	20	93	0	383	21	18	18	41	1.90
5674404--5674489	31	2.7	31	92	1	136	39	18	0	41	1.51
5676171--5676252	39	2.1	39	95	0	146	46	15	6	31	1.71
5677864--5677996	68	2.0	68	93	0	230	27	9	25	37	1.87
5678112--5678165	28	1.9	28	100	0	108	29	7	11	51	1.64
5678115--5678175	28	2.2	28	88	5	88	26	9	14	49	1.75
5678188--5678431	29	8.5	28	86	6	330	30	5	16	46	1.71
5678195--5678419	57	3.9	57	90	1	344	31	6	16	46	1.71
5683857--5683921	29	2.2	29	86	0	85	49	13	20	16	1.80
5684739--5684803	34	1.9	34	81	12	80	40	3	4	52	1.38
5685115--5685156	21	2.0	20	86	4	57	23	0	28	47	1.52
5685288--5685314	14	1.9	14	100	0	54	44	7	3	44	1.49
5690666--5690731	31	2.1	31	85	0	87	43	10	6	39	1.64
5690675--5690789	31	3.8	30	75	3	97	40	9	6	44	1.62
5691157--5691190	17	2.1	17	94	5	61	50	5	0	44	1.26
5701583--5701632	21	2.4	21	93	0	82	22	16	32	30	1.95
5714417--5714472	19	2.9	19	89	0	76	33	21	5	39	1.76
5716575--5716613	20	2.0	20	90	10	62	33	5	10	51	1.58
5716752--5716833	43	1.9	43	85	5	112	23	17	7	52	1.69
5718453--5718502	16	3.3	14	83	13	55	22	4	2	72	1.12
5718466--5718504	15	2.6	15	84	11	53	20	7	0	71	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5719158--5719191	18	1.9	18	88	5	52	47	8	11	32	1.71
5720605--5720663	31	2.0	29	86	6	82	28	18	6	45	1.75
5725835--5725963	20	6.3	20	71	9	91	41	17	20	19	1.90
5725852--5725927	21	3.7	20	76	3	80	42	17	23	17	1.89
5725835--5725927	41	2.3	41	94	0	168	40	17	23	18	1.90
5725854--5725988	41	3.3	41	80	6	123	39	20	20	20	1.93
5725916--5726009	20	4.7	20	80	2	89	34	24	18	23	1.96
5726527--5726582	19	2.8	20	83	5	87	50	23	16	10	1.76
5726594--5726754	20	8.8	19	72	16	126	11	21	22	44	1.84
5726594--5726670	39	2.0	39	87	5	111	9	19	25	45	1.80
5726642--5726729	33	2.6	33	89	1	131	11	23	25	39	1.88
5728754--5728876	42	2.9	42	80	2	122	22	36	17	22	1.95
5728810--5728876	21	3.2	21	66	6	55	23	35	20	19	1.95
5730235--5730270	14	2.6	14	95	0	63	30	0	25	44	1.54
5730396--5730546	19	8.7	19	64	21	80	14	22	20	42	1.88
5730400--5730526	33	3.9	32	86	8	184	14	22	19	43	1.87
5730393--5730525	66	2.0	66	95	0	239	15	22	19	42	1.89
5732818--5732842	12	2.1	12	100	0	50	0	28	0	72	0.86
5733017--5733070	24	2.2	24	90	0	81	38	20	16	24	1.92
5734130--5734187	20	2.9	20	89	0	80	37	18	22	20	1.94
5734187--5734539	19	18.8	19	97	2	662	15	21	16	47	1.83
5736559--5736625	19	3.5	19	83	4	89	37	23	23	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5736614--5736671	14	3.9	14	75	16	62	48	24	17	10	1.78
5736598--5736676	32	2.4	33	91	2	133	46	22	18	11	1.81
5736705--5736762	14	3.9	14	77	16	62	12	17	22	48	1.80
5736688--5736778	32	2.8	33	93	3	157	13	18	20	47	1.82
5736762--5736817	20	2.8	19	78	7	58	17	23	21	37	1.94
5738654--5738691	20	1.9	20	88	0	58	50	21	15	13	1.78
5738955--5738998	22	2.0	22	95	0	79	18	15	45	20	1.85
5739187--5739280	20	4.7	20	80	2	89	23	18	24	34	1.96
5739207--5739284	41	1.9	41	86	0	111	21	16	21	39	1.92
5739167--5739281	20	5.7	20	78	5	88	23	17	23	35	1.95

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