genome.fa.s9587.2.7.7.80.10.50.1000.24.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  24  of  29  ( 3457 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)
5283955--5283991	18	2.1	18	100	0	74	56	10	16	16	1.66
5286760--5286916	65	2.4	64	80	10	160	31	22	17	28	1.96
5288757--5288918	84	2.0	81	90	8	260	38	4	20	35	1.73
5288879--5288918	21	1.9	21	90	10	64	52	0	10	37	1.35
5295535--5295638	45	2.3	45	85	5	129	28	20	21	29	1.98
5297188--5297228	17	2.3	19	83	8	50	36	2	2	58	1.24
5308399--5308486	12	7.3	12	78	0	104	12	18	14	54	1.71
5308397--5308486	24	3.8	24	89	0	144	14	17	14	53	1.73
5311393--5311445	5	10.6	5	84	11	65	20	54	20	3	1.60
5311399--5311452	27	2.0	26	92	3	90	20	51	20	7	1.70
5311442--5311472	7	4.4	7	95	0	53	19	29	25	25	1.99
5318689--5318738	18	2.8	18	75	9	57	22	52	22	4	1.64
5318703--5318744	22	1.9	22	100	0	84	21	50	19	9	1.75
5321672--5321765	24	3.9	24	83	2	118	17	17	11	54	1.71
5321688--5321766	12	6.6	12	73	11	63	16	17	12	53	1.73
5321672--5321765	48	2.0	48	91	0	152	17	17	11	54	1.71
5321909--5321983	31	2.4	30	76	10	80	14	20	30	34	1.92
5331697--5331721	2	12.5	2	100	0	50	0	48	0	52	1.00
5334812--5335132	103	3.1	103	98	0	615	25	13	23	36	1.92
5335139--5335237	47	2.1	47	98	0	189	24	23	22	30	1.99
5335139--5335212	24	3.1	24	76	3	96	25	21	21	31	1.98
5335142--5335263	23	5.3	23	75	3	104	23	22	23	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5340919--5341238	103	3.1	103	96	0	588	26	13	23	36	1.92
5341245--5341364	47	2.6	47	90	1	179	26	20	22	30	1.99
5341245--5341368	23	5.3	23	80	2	131	27	20	21	30	1.98
5342722--5342801	22	3.5	22	77	17	76	50	0	1	48	1.08
5343098--5343160	23	2.7	23	92	0	99	33	23	17	25	1.96
5344010--5344049	5	7.8	5	84	15	55	22	2	0	75	0.93
5352598--5352637	21	1.9	21	85	10	55	60	15	12	12	1.60
5352756--5352785	11	2.6	12	89	10	53	86	0	13	0	0.57
5353587--5353630	23	1.9	23	90	0	70	31	25	22	20	1.98
5356009--5356072	28	2.3	28	100	0	128	31	14	20	34	1.92
5357934--5358174	120	2.0	120	100	0	482	26	9	19	43	1.82
5361891--5362009	43	2.8	41	83	5	132	42	2	3	52	1.31
5361908--5362013	21	5.0	21	70	11	83	44	1	3	50	1.31
5369761--5370112	43	8.2	42	78	6	253	27	21	22	28	1.99
5369757--5370098	85	4.0	82	76	7	261	28	20	22	28	1.98
5377079--5377362	140	2.0	141	99	0	561	29	23	12	34	1.92
5380284--5380332	24	2.0	24	88	0	71	42	16	10	30	1.81
5384714--5384790	31	2.4	32	83	10	104	28	32	25	12	1.93
5387288--5387348	30	2.0	30	100	0	122	26	6	16	50	1.69
5389223--5389253	13	2.4	13	94	0	53	41	12	9	35	1.76
5390521--5390799	137	2.0	143	94	5	498	34	21	11	33	1.89
5392359--5392384	13	2.0	13	100	0	52	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5393688--5393783	29	3.2	28	66	17	77	34	13	13	38	1.84
5395782--5395828	24	2.0	24	83	8	60	55	12	2	29	1.49
5408273--5408300	8	3.5	8	100	0	56	14	10	28	46	1.78
5409579--5409655	16	4.8	16	81	0	91	16	22	20	40	1.91
5409585--5409655	32	2.2	32	94	0	124	18	22	19	39	1.92
5411035--5411079	23	2.0	23	90	0	72	15	8	46	28	1.76
5412910--5412977	8	8.8	8	71	9	52	70	0	7	22	1.11
5412950--5412990	15	2.7	15	82	17	50	65	0	7	26	1.18
5413720--5413869	42	3.6	41	75	12	160	56	12	2	28	1.47
5413683--5413953	85	3.2	84	90	4	397	53	13	2	29	1.54
5417204--5417270	23	2.9	23	90	0	107	19	23	26	29	1.98
5420921--5420948	2	14.0	2	100	0	56	50	0	0	50	1.00
5420840--5421068	121	1.9	124	89	3	365	31	15	4	48	1.64
5420852--5421099	121	2.1	118	79	7	257	34	14	6	44	1.71
5421951--5423569	405	3.9	405	82	8	2236	39	13	14	32	1.85
5421597--5423569	841	2.3	841	98	0	3829	39	13	14	32	1.85
5423222--5423910	344	2.0	344	98	0	1333	40	13	15	30	1.85
5424043--5424071	15	1.9	15	100	0	58	34	20	6	37	1.80
5430558--5430585	2	14.0	2	100	0	56	50	0	0	50	1.00
5431209--5431256	23	2.1	23	88	0	69	35	6	18	39	1.76
5431727--5432174	182	2.5	182	91	1	729	29	14	12	44	1.81
5432046--5432397	114	3.1	113	88	2	521	27	13	12	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5438149--5438211	23	2.7	23	90	0	99	22	22	4	50	1.67
5438147--5438223	23	3.4	21	75	13	64	19	20	7	51	1.71
5438650--5438708	9	6.8	9	73	13	52	77	1	1	18	0.93
5438723--5438817	4	22.8	4	71	16	68	74	2	6	16	1.12
5438722--5438818	9	11.4	9	72	12	80	75	2	6	16	1.10
5438730--5438813	33	2.5	33	96	1	150	73	2	7	16	1.15
5438875--5438909	18	2.0	17	88	5	52	54	2	17	25	1.57
5438910--5439070	80	2.0	80	83	8	193	60	4	16	19	1.52
5439122--5439167	19	2.4	19	86	13	60	76	2	8	13	1.11
5439157--5439182	5	5.2	5	100	0	52	80	0	0	19	0.71
5440563--5440614	17	3.1	17	91	0	86	17	46	25	11	1.81
5440610--5440739	29	4.8	29	81	13	168	38	6	20	35	1.77
5440647--5440690	22	2.0	22	100	0	88	45	0	22	31	1.53
5440620--5440716	51	1.9	51	97	0	185	43	4	20	31	1.71
5440672--5440763	29	3.1	29	85	3	112	41	5	19	33	1.74
5440678--5440765	31	2.9	31	80	5	83	38	5	19	36	1.75
5440743--5440791	25	2.0	25	83	0	62	38	4	24	32	1.74
5443058--5443389	36	9.4	36	73	14	212	42	7	5	44	1.54
5443073--5443129	29	2.0	29	92	0	96	42	7	7	43	1.58
5443095--5443386	36	8.2	35	76	14	242	43	7	4	43	1.54
5443167--5443268	31	3.2	29	76	14	78	43	7	5	43	1.57
5443079--5443295	102	2.1	102	81	11	250	43	7	5	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5443262--5443387	39	3.2	40	73	15	118	42	7	3	46	1.47
5455215--5455271	21	2.7	21	97	0	105	40	15	5	38	1.70
5457085--5457131	2	23.5	2	100	0	94	48	0	0	51	1.00
5458664--5458691	2	14.0	2	100	0	56	50	0	0	50	1.00
5459763--5459822	16	3.8	16	81	0	66	20	25	18	36	1.94
5463321--5463385	23	2.7	23	76	4	58	16	18	9	55	1.67
5463347--5463408	23	2.7	24	85	5	74	16	20	12	50	1.78
5465148--5465190	20	2.2	20	100	0	86	23	20	13	41	1.88
5470471--5470919	229	2.0	227	93	1	774	45	7	7	39	1.61
5470985--5471030	20	2.3	19	89	10	74	54	10	17	17	1.70
5471152--5471198	20	2.4	19	82	10	67	53	10	17	19	1.72
5471161--5471203	20	2.3	19	88	11	63	51	11	16	20	1.75
5473504--5473569	33	2.0	33	87	0	96	28	1	45	24	1.62
5475361--5475409	19	2.6	19	93	0	80	30	2	10	57	1.43
5475528--5477090	199	7.9	199	97	1	2953	36	15	16	31	1.90
5475528--5477090	394	3.9	397	97	1	2933	36	15	16	31	1.90
5478548--5478615	21	3.4	18	69	21	55	36	8	35	19	1.83
5478548--5478645	6	16.3	6	80	0	70	36	7	34	21	1.81
5478563--5478649	3	29.0	3	77	0	84	35	5	34	24	1.79
5478551--5478641	42	2.2	42	91	0	146	35	7	35	21	1.83
5478548--5478645	18	5.4	18	78	0	88	36	7	34	21	1.81
5480116--5480643	184	2.9	184	96	0	948	35	14	16	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5483209--5483272	23	2.8	23	87	0	92	35	6	20	37	1.78
5483209--5483281	23	3.2	23	82	7	85	34	5	20	39	1.76
5483638--5483698	21	2.8	22	85	5	79	36	6	21	36	1.79
5483643--5483712	21	3.3	21	80	9	70	34	5	21	38	1.77
5483110--5483942	426	1.9	429	97	1	1575	39	8	12	39	1.74
5483974--5484024	25	2.0	25	92	0	84	33	7	19	39	1.81
5484273--5484309	18	2.1	18	89	0	56	32	5	10	51	1.60
5484265--5484311	24	2.0	24	86	0	67	34	4	14	46	1.64
5484566--5484652	39	2.2	39	95	0	156	48	20	13	17	1.81
5485790--5485834	20	2.2	20	88	0	63	17	22	37	22	1.94

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