genome.fa.s8364.2.7.7.80.10.50.1000.18.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  18  of  27  ( 3136 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)
4137401--4137435	9	3.8	9	85	7	52	71	0	5	22	1.07
4137512--4137908	38	11.1	37	76	14	273	44	6	4	45	1.48
4137471--4137818	38	9.9	37	78	13	285	43	7	4	45	1.50
4137518--4137794	144	1.9	143	82	7	348	44	6	4	44	1.50
4137781--4137805	11	2.3	11	100	0	50	44	8	8	40	1.63
4139608--4139653	22	2.1	22	87	0	65	28	6	4	60	1.40
4139771--4139828	25	2.4	22	78	18	62	41	3	0	55	1.17
4139811--4139885	31	2.4	32	78	10	86	42	1	1	54	1.17
4139765--4139892	30	4.5	30	72	14	101	40	2	0	56	1.18
4139928--4140025	29	3.4	29	72	10	76	54	4	5	36	1.42
4142277--4142340	2	32.0	2	100	0	128	50	0	0	50	1.00
4146205--4146264	23	2.6	22	76	10	66	20	41	0	38	1.52
4147895--4147970	31	2.5	31	82	0	89	36	14	26	22	1.92
4149202--4149271	31	2.3	31	82	5	79	25	24	14	35	1.93
4149219--4149278	31	1.9	31	93	0	102	23	23	16	36	1.94
4149227--4149277	16	3.2	16	72	5	50	19	23	19	37	1.94
4156326--4156361	12	3.0	12	91	0	63	30	25	27	16	1.97
4156392--4156434	21	2.0	22	90	4	70	20	32	18	27	1.96
4156849--4156886	20	1.9	20	84	10	51	34	13	5	47	1.65
4157199--4157327	31	4.1	31	72	9	102	34	20	16	28	1.94
4162786--4162851	32	2.1	32	97	0	123	39	15	6	39	1.72
4169847--4169960	20	5.7	20	83	2	102	32	25	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4169844--4169960	61	1.9	61	83	0	153	34	24	17	23	1.96
4169847--4169940	41	2.3	40	83	1	107	35	24	17	23	1.95
4170493--4170537	19	2.4	19	88	0	63	48	24	15	11	1.77
4170533--4170717	19	10.1	19	75	14	165	11	21	22	44	1.85
4170533--4170717	33	5.1	38	78	12	165	11	21	22	44	1.85
4172705--4172827	42	2.9	42	80	2	122	22	36	17	22	1.95
4172761--4172827	21	3.2	21	66	6	55	23	35	20	19	1.95
4174187--4174222	14	2.6	14	95	0	63	30	0	25	44	1.54
4174401--4174551	19	8.7	19	64	21	80	15	22	20	41	1.89
4174405--4174531	33	3.9	32	87	8	193	14	22	19	42	1.88
4174398--4174530	66	2.0	66	97	0	248	16	22	19	41	1.90
4176824--4176848	12	2.1	12	100	0	50	0	28	0	72	0.86
4178137--4178214	20	3.9	20	91	0	129	38	23	21	16	1.93
4178238--4178291	14	3.5	14	77	22	63	11	20	20	48	1.80
4178220--4178290	33	2.2	33	84	0	88	19	19	21	39	1.93
4178233--4178310	33	2.4	33	91	0	120	12	23	21	42	1.87
4178398--4178434	14	2.6	14	86	0	56	48	21	0	29	1.50
4180228--4180294	19	3.5	19	75	4	71	37	20	23	17	1.94
4180342--4180399	14	3.9	14	79	16	71	10	17	24	48	1.78
4180325--4180415	32	2.8	33	94	3	166	12	18	21	47	1.81
4180400--4180454	20	2.8	19	83	8	65	16	23	23	36	1.94
4180936--4180980	18	2.5	18	88	0	72	13	15	44	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4182301--4182354	20	2.8	20	80	2	65	48	22	16	12	1.80
4182588--4182631	22	2.0	22	90	0	70	20	15	43	20	1.88
4182819--4182912	20	4.7	20	80	2	89	23	18	24	34	1.96
4182799--4182913	20	5.7	20	78	5	88	23	17	23	35	1.95
4182902--4182994	20	4.5	21	81	4	109	18	24	17	39	1.91
4182841--4182975	41	3.3	41	81	4	130	20	21	20	38	1.94
4182902--4182994	41	2.3	41	98	0	177	18	24	17	39	1.91
4182902--4183009	41	2.6	41	89	0	117	21	23	18	37	1.95
4186818--4186892	34	2.1	36	85	11	102	52	9	9	29	1.65
4189183--4189240	22	2.9	21	76	19	61	67	0	0	32	0.91
4198580--4198664	6	14.0	6	79	10	84	21	0	1	77	0.83
4198580--4198664	21	3.8	22	74	21	79	21	0	1	77	0.83
4198580--4198665	34	2.6	31	78	15	93	20	0	1	77	0.83
4199909--4199963	23	2.3	23	78	3	65	20	18	3	58	1.54
4200013--4200043	15	2.1	15	93	0	53	3	6	12	77	1.08
4200040--4200080	19	2.2	19	86	8	57	29	0	0	70	0.87
4205066--4205144	34	2.2	37	82	6	92	29	21	11	37	1.88
4205588--4205667	6	12.8	6	81	13	65	22	0	1	76	0.86
4206902--4206956	23	2.3	24	75	12	60	21	18	3	56	1.57
4207034--4207074	19	2.2	19	86	8	57	26	0	0	73	0.84
4216370--4216713	172	2.0	172	100	0	688	31	18	21	27	1.97
4219679--4219704	13	2.0	13	100	0	52	30	0	69	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4220600--4220627	2	14.0	2	100	0	56	50	0	50	0	1.00
4224157--4224192	8	4.5	8	92	0	63	41	25	8	25	1.83
4224157--4224197	16	2.5	16	92	4	64	41	26	7	24	1.81
4227343--4227405	30	2.1	30	90	0	99	38	4	23	33	1.76
4227657--4227731	23	3.2	22	68	17	62	18	25	25	30	1.98
4229519--4229639	51	2.4	50	83	1	134	18	35	27	19	1.94
4229814--4229842	14	2.1	14	93	6	51	27	6	0	65	1.18
4235295--4235417	45	2.6	45	85	7	147	19	30	33	17	1.95
4243366--4243427	18	3.2	20	78	19	62	61	0	1	37	1.06
4243422--4243581	64	2.6	64	86	8	242	56	1	0	41	1.10
4243443--4243526	40	2.2	37	83	10	98	53	1	0	45	1.08
4243477--4243550	24	3.0	25	81	13	73	54	0	0	45	1.00
4243539--4243589	12	4.3	12	76	18	54	66	1	0	31	1.03
4246298--4246367	32	2.2	32	82	2	88	52	11	11	24	1.70
4264460--4264581	61	2.0	61	98	0	235	33	11	23	31	1.90
4264953--4265100	74	2.0	74	100	0	296	37	9	16	36	1.81
4268830--4269074	76	3.1	76	63	19	192	49	3	6	40	1.44
4268787--4269108	162	2.0	163	99	0	637	49	3	6	40	1.45
4269053--4269116	19	3.2	21	76	10	71	64	0	6	29	1.18
4274788--4274837	24	2.2	23	86	10	68	22	44	20	14	1.86
4274796--4274830	17	2.1	17	94	0	61	20	48	20	11	1.79
4286652--4286695	20	2.2	20	84	4	63	65	0	15	18	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4292937--4292970	17	2.1	16	88	5	50	76	0	8	14	1.01
4293445--4293491	24	2.0	24	83	8	60	57	12	2	27	1.47
4296056--4296091	11	3.3	11	100	0	72	44	11	0	44	1.39
4296488--4296541	28	1.9	28	84	0	72	5	31	0	62	1.18
4297888--4298256	20	18.5	20	85	4	458	34	26	18	20	1.96
4298930--4298976	24	2.0	24	87	8	69	25	14	21	38	1.92
4299151--4299175	12	2.1	12	100	0	50	72	0	28	0	0.86
4301449--4301754	19	17.4	19	80	16	367	46	18	20	14	1.83
4301449--4301776	33	9.5	33	82	13	344	46	18	20	14	1.84
4301516--4301776	52	4.9	52	82	13	258	46	17	21	14	1.84
4301783--4301884	19	5.6	19	85	12	151	14	23	17	44	1.86
4301991--4302027	14	2.6	14	91	0	65	45	21	0	32	1.52
4304000--4304056	14	3.7	14	77	20	60	45	22	21	10	1.82
4303981--4304073	33	2.8	33	95	0	168	47	21	20	10	1.80
4303944--4304078	19	7.6	19	76	16	128	45	23	19	11	1.82
4304074--4304202	19	7.3	19	75	17	125	8	17	28	45	1.77
4304074--4304165	33	2.8	33	93	3	150	7	18	28	45	1.76
4304246--4304531	93	3.1	93	97	2	549	46	18	12	22	1.82
4306238--4306294	14	3.7	14	75	20	60	42	24	24	8	1.83
4306230--4306311	33	2.5	33	95	0	155	46	20	23	9	1.80
4306252--4306316	19	3.7	19	74	19	68	43	23	23	10	1.85
4306328--4306382	14	3.6	14	73	21	56	9	25	23	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4306312--4306382	33	2.2	33	94	0	124	8	22	25	43	1.81
4306323--4306404	33	2.5	33	89	2	119	9	25	21	42	1.84
4306335--4306423	20	4.8	20	72	19	75	12	24	19	43	1.85
4306503--4306573	33	2.2	33	92	0	115	47	18	22	11	1.80
4306755--4306809	22	2.5	22	81	0	74	20	16	40	23	1.91
4306955--4307147	20	9.6	20	82	5	219	19	19	25	35	1.95
4306955--4307147	60	3.2	60	83	0	251	19	19	25	35	1.95
4307203--4307254	20	2.6	20	96	0	95	21	13	26	38	1.90
4312323--4312380	30	2.0	30	83	10	75	24	5	10	60	1.49
4312314--4312387	29	2.6	27	76	17	69	24	4	9	62	1.43

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