genome.fa.s8527.2.7.7.80.10.50.1000.2.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  2  of  37  ( 4336 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)
196238--196313	31	2.5	31	85	6	93	40	19	19	19	1.91
197565--197723	64	2.5	63	81	8	173	26	23	16	33	1.96
200826--200908	30	2.8	30	78	5	89	40	30	13	15	1.85
202214--202351	64	2.2	63	81	6	154	26	24	15	32	1.96
206403--206432	11	2.7	11	94	0	51	76	0	0	23	0.78
207032--207065	17	1.9	18	88	5	52	26	0	0	73	0.83
210616--210641	2	13.0	2	100	0	52	50	0	0	50	1.00
211288--211334	20	2.3	20	92	0	76	17	10	19	53	1.72
214747--214802	19	2.9	19	81	2	67	17	25	35	21	1.95
220753--223264	504	5.0	504	97	1	4679	25	29	14	31	1.95
224527--224705	95	1.9	95	100	0	358	23	24	17	34	1.96
240714--240812	49	2.0	49	100	0	198	29	12	12	46	1.77
240765--240856	35	2.6	35	96	0	175	26	14	11	47	1.78
243588--244166	4	146.0	4	96	3	1075	0	24	49	25	1.50
244443--248385	4	1003.2	4	93	5	6926	25	0	25	49	1.51
254152--254200	19	2.7	19	78	15	59	55	0	2	42	1.11
254152--254203	21	2.6	20	82	8	61	55	0	1	42	1.10
254195--254281	14	6.7	14	65	25	57	54	1	1	43	1.15
254174--254322	64	2.4	64	88	4	223	55	1	0	42	1.13
254195--254278	40	2.2	37	83	10	98	53	1	1	44	1.16
254231--254310	24	3.2	26	81	13	96	56	1	0	42	1.07
254589--254639	20	2.5	20	96	0	93	47	11	21	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
254589--254646	20	3.0	18	85	14	80	48	10	22	18	1.78
254588--254652	20	3.6	16	81	18	58	46	10	21	21	1.82
255431--255470	2	20.0	2	89	0	62	50	0	0	50	1.00
256321--256378	28	2.1	28	90	0	89	22	20	8	48	1.77
256711--256808	31	3.2	30	75	7	90	45	19	13	21	1.84
256961--257008	13	3.9	13	72	25	50	41	8	2	47	1.45
256954--257001	23	2.1	23	100	0	96	35	8	4	52	1.51
260816--260851	2	18.5	2	94	5	65	50	0	0	50	1.00
260819--260851	17	1.9	17	100	0	66	48	0	0	51	1.00
263197--263242	24	2.0	23	86	4	65	47	4	6	41	1.49
264015--264041	4	6.8	4	100	0	54	77	0	0	22	0.76
264813--264859	20	2.3	21	82	14	62	65	0	8	25	1.20
266159--266537	6	64.2	6	95	3	698	16	0	33	49	1.49
270875--270920	22	2.1	22	95	0	83	50	4	21	23	1.67
271683--272637	479	2.0	476	99	0	1874	31	15	17	35	1.91
276416--276464	20	2.5	20	96	0	89	26	8	14	51	1.70
276837--276877	14	2.9	14	81	0	55	24	0	24	51	1.49
278458--278500	17	2.4	18	84	7	61	67	2	0	30	1.03
280732--280777	21	2.2	21	100	0	92	21	19	23	34	1.96
282464--282509	24	2.1	21	84	15	58	52	13	23	10	1.71
282651--282687	15	2.5	15	100	0	74	37	10	35	16	1.83
287297--287365	7	9.9	7	98	0	129	43	14	27	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298307--298357	2	25.5	2	100	0	102	50	0	0	49	1.00
298982--299093	57	2.0	57	98	0	215	20	25	19	33	1.96
309696--309730	16	2.2	16	94	0	61	37	54	8	0	1.31
315726--315767	15	2.6	16	88	7	59	35	19	11	33	1.88
315729--315773	15	2.9	16	83	12	58	33	20	11	35	1.88
318000--319990	663	3.0	664	95	0	3538	32	17	12	38	1.87
324604--324641	4	9.5	4	86	11	51	18	2	2	76	1.02
325116--325152	12	3.0	12	88	7	56	40	0	2	56	1.13
332201--332279	2	40.5	2	80	14	85	48	2	0	49	1.14
336985--337054	35	2.0	35	88	0	104	20	12	12	54	1.70
341356--341401	19	2.4	20	73	20	53	69	4	17	8	1.31
341458--341521	20	3.2	20	72	14	51	68	1	3	26	1.13
342737--342787	26	2.0	27	88	7	79	45	7	3	43	1.51
342746--343090	36	9.7	35	69	18	159	46	4	2	46	1.37
342803--342868	29	2.3	29	86	0	87	45	4	3	46	1.38
342771--342904	65	2.1	63	87	5	189	44	5	2	47	1.40
342939--343135	41	5.2	38	73	15	131	45	4	3	47	1.37
343022--343078	12	5.1	11	74	19	55	47	3	0	49	1.18
343137--343169	5	6.4	5	93	6	57	81	0	0	18	0.68
343648--343680	2	16.5	2	100	0	66	0	48	0	51	1.00
344216--344259	20	2.2	20	88	8	63	59	6	4	29	1.44
356935--356964	14	2.1	14	100	0	60	66	6	26	0	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357078--357149	37	1.9	38	83	10	96	69	1	6	22	1.20
357076--357140	15	4.3	15	76	14	53	72	0	6	21	1.06
357132--357187	21	2.5	21	82	11	58	62	3	8	25	1.41
358098--358134	19	1.9	19	94	0	65	27	29	24	18	1.98
358845--358914	12	5.8	12	80	6	70	50	20	15	14	1.78
358845--358914	24	2.9	24	84	0	95	50	20	15	14	1.78
362856--362902	3	15.3	3	91	4	76	65	0	0	34	0.93
362931--362989	25	2.3	26	91	2	93	44	6	3	45	1.47
362931--362998	25	2.7	25	86	4	75	47	5	2	44	1.42
362945--362999	26	2.2	25	83	3	65	50	5	1	41	1.36
363053--363160	37	2.8	38	86	10	148	46	5	3	44	1.44
364965--365120	84	1.9	84	86	0	222	33	12	7	46	1.69
383112--383149	18	2.1	18	85	9	51	18	34	23	23	1.96
391544--391697	78	2.0	78	98	0	299	33	16	18	31	1.93
393645--393681	17	2.1	19	85	10	51	54	8	5	32	1.53
410375--410437	18	3.5	18	86	0	81	17	42	20	19	1.89
413743--414044	149	2.0	149	96	0	550	35	20	16	27	1.94
414525--414676	67	2.3	67	92	1	250	14	25	28	31	1.95
417054--417098	23	2.0	23	81	0	54	28	28	22	20	1.98
417077--417380	149	2.0	149	96	0	554	36	20	16	26	1.93
417990--418293	149	2.0	149	97	0	572	27	16	20	35	1.94
418272--418316	23	2.0	23	86	0	63	20	24	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424082--424126	23	2.0	23	81	0	54	26	26	24	22	2.00
424105--424408	149	2.0	149	96	0	554	36	20	16	27	1.94
424886--425036	67	2.2	67	94	1	257	14	25	28	31	1.95
425517--425553	19	1.9	20	88	5	58	62	0	35	2	1.10
427088--427155	32	2.2	32	86	2	93	41	5	5	47	1.52
427120--427172	22	2.5	22	81	6	56	43	7	3	45	1.50
429254--429403	78	1.9	78	94	0	264	43	4	12	40	1.60
429515--429574	22	2.7	23	78	5	77	43	15	16	25	1.86
430269--430343	2	37.5	2	100	0	150	49	0	0	50	1.00
430323--430417	47	2.0	47	97	0	181	36	12	5	45	1.65
432024--432067	18	2.4	18	96	0	79	6	9	61	22	1.50
437225--437313	29	3.0	30	85	5	126	57	14	1	26	1.45
437826--437903	21	3.8	21	79	5	79	28	6	5	60	1.43
438164--438263	47	2.1	48	88	5	150	38	5	7	50	1.52
438868--438911	18	2.4	18	88	7	63	40	2	4	52	1.34
439158--439216	31	1.9	31	89	0	91	40	5	10	44	1.60
439241--439283	22	2.0	22	100	0	86	51	13	0	34	1.42
439243--439291	22	2.2	22	88	3	71	55	14	0	30	1.40
439231--439958	54	13.4	54	75	12	658	52	12	0	34	1.42
439263--439906	32	23.4	31	69	27	346	52	13	0	33	1.44
439246--439396	80	1.9	80	94	0	266	52	15	1	31	1.51
439246--439861	112	5.6	109	70	20	362	52	13	0	32	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439407--439874	80	5.8	80	76	13	347	52	13	0	33	1.42
439519--439561	22	2.0	22	100	0	86	51	13	0	34	1.42
439521--439569	22	2.2	22	88	3	71	55	14	0	30	1.40
439626--439682	18	3.4	18	67	18	59	54	14	0	31	1.40
439575--439649	22	3.2	23	71	17	73	54	16	1	28	1.50
439685--439775	22	4.0	22	83	10	128	51	15	0	32	1.44
439737--439784	22	2.4	19	78	18	53	52	14	0	33	1.42
439787--439829	22	2.0	22	95	0	77	53	11	0	34	1.37
439789--439837	22	2.2	22	85	3	62	57	12	0	30	1.36
439231--439861	134	4.6	134	86	6	935	52	13	0	33	1.44

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