genome.fa.s9624.2.7.7.80.10.50.1000.3.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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  3  of  38  ( 4514 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)
428833--429009	36	4.7	38	82	12	222	45	2	5	45	1.41
428833--429062	75	3.1	73	83	12	265	46	5	5	43	1.48
429035--429092	28	2.1	28	80	6	64	53	5	3	37	1.40
429081--429148	33	2.0	34	82	5	84	51	1	2	44	1.25
429156--429219	25	2.6	24	76	16	69	20	6	0	73	1.04
430428--430462	5	6.6	5	87	12	52	20	2	2	74	1.08
430513--430538	3	8.7	3	100	0	52	30	0	0	69	0.89
430573--430608	2	18.0	2	94	0	63	47	0	0	52	1.00
430648--430696	26	1.9	25	87	4	71	28	2	0	69	1.00
432378--432423	24	1.9	24	86	0	65	21	15	17	45	1.85
437047--437123	39	2.0	39	100	0	154	41	22	10	25	1.85
442626--442682	20	2.7	21	86	8	71	19	28	29	22	1.98
449125--449159	13	2.7	13	100	0	70	48	14	0	37	1.44
454908--454946	11	3.6	11	86	3	53	48	0	2	48	1.15
455765--455845	41	2.0	40	95	2	144	37	20	4	37	1.75
455898--455935	20	1.9	20	100	0	76	39	10	26	23	1.87
456568--456612	20	2.6	16	80	19	54	44	11	20	24	1.83
459392--459449	31	2.0	28	81	15	66	29	25	22	22	1.99
461508--461543	14	2.6	14	100	0	72	66	5	13	13	1.41
464361--464421	30	2.0	30	90	6	97	29	16	19	34	1.94
470524--470572	20	2.5	20	89	0	80	40	14	16	28	1.87
473850--473878	10	2.7	11	94	5	51	79	17	3	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474230--474302	14	5.4	14	68	17	55	58	5	13	21	1.55
484997--485088	32	2.9	32	83	3	96	44	14	7	33	1.73
485018--485078	32	1.9	32	93	0	104	49	9	6	34	1.62
485432--485463	2	16.0	2	100	0	64	50	0	0	50	1.00
494570--494613	14	3.1	14	93	3	70	61	0	2	36	1.09
502148--502886	134	5.5	133	83	3	811	33	18	17	30	1.94
502148--502867	267	2.7	267	84	4	905	33	18	18	30	1.95
503601--503836	45	5.2	44	78	7	217	43	17	16	21	1.88
503630--503836	90	2.3	90	88	0	297	41	18	17	22	1.90
503807--504246	38	11.4	38	83	3	513	38	18	17	25	1.92
503834--504187	194	1.8	194	87	2	523	39	18	18	23	1.92
503807--504247	232	1.9	232	87	1	652	38	18	18	24	1.92
506238--506375	13	9.9	13	69	25	54	5	21	0	73	1.07
506239--506371	15	9.1	15	67	22	54	5	20	0	73	1.07
507825--507904	14	5.1	15	70	26	60	37	5	20	37	1.74
507830--507905	21	3.3	21	68	25	64	38	3	19	38	1.71
507817--507923	48	2.2	48	98	0	205	39	3	21	35	1.71
507899--507934	14	2.5	15	86	4	56	47	0	19	33	1.50
511121--511170	3	16.7	3	83	8	66	68	0	4	28	1.08
511120--511166	22	2.1	22	92	0	76	68	0	4	27	1.08
512043--512080	20	1.9	20	88	0	58	44	10	15	28	1.80
512236--512266	15	2.1	15	93	0	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516099--516150	22	2.5	21	75	9	52	46	3	9	40	1.55
516233--516280	24	2.0	24	84	8	62	43	6	6	43	1.54
516292--516393	2	49.0	2	67	21	50	44	4	3	47	1.43
516304--516447	27	5.7	27	76	12	153	43	3	5	47	1.43
516314--516450	47	2.7	52	78	11	158	42	2	5	48	1.42
516553--516604	26	2.0	26	85	7	70	44	5	5	44	1.52
516601--516635	18	1.9	18	88	0	52	45	5	2	45	1.41
516612--516773	20	7.9	20	68	23	63	41	8	4	45	1.55
516612--516669	7	8.6	7	74	14	50	43	8	3	44	1.51
516613--516750	54	2.6	54	80	4	165	41	7	5	45	1.55
516601--516750	27	5.7	27	81	6	146	41	8	4	46	1.54
516719--516753	15	2.4	15	90	4	54	42	5	2	48	1.41
522981--523039	20	3.1	19	78	9	66	27	30	25	16	1.97
525731--525973	123	2.0	123	98	0	468	28	25	18	27	1.98
527392--527468	30	2.7	28	82	6	75	46	6	5	41	1.52
528105--528169	21	3.2	21	70	12	64	50	3	0	46	1.17
528113--528178	21	3.3	20	72	15	57	45	3	0	51	1.16
528744--528812	26	2.7	26	97	0	129	46	15	8	28	1.76
528875--528951	31	2.5	31	80	2	91	27	31	27	14	1.95
529611--529661	25	2.0	25	100	0	102	39	15	3	41	1.66
529861--530022	29	5.6	28	77	15	152	41	19	6	32	1.76
529861--530022	58	2.8	58	84	6	213	41	19	6	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535511--535579	26	2.7	26	100	0	138	44	15	10	28	1.79
536597--536761	58	2.8	58	76	13	203	40	20	6	33	1.77
536654--536716	30	2.1	30	85	5	83	46	14	6	33	1.70
536597--536761	29	5.7	28	73	16	131	40	20	6	33	1.77
540225--540287	27	2.3	27	72	0	63	36	31	12	19	1.89
541706--541758	22	2.5	21	87	3	70	54	1	1	41	1.22
552392--552418	13	2.1	13	100	0	54	44	7	22	25	1.79
554381--554886	54	9.4	54	87	1	683	25	17	20	35	1.95
555558--555601	20	2.1	21	83	4	54	45	29	2	22	1.65
557285--557324	21	1.9	21	89	0	62	27	2	22	47	1.64
558320--558389	33	2.1	33	100	0	140	60	8	2	28	1.41
558590--558620	2	15.5	2	100	0	62	48	0	0	51	1.00
560654--560736	36	2.3	36	91	0	139	31	15	34	18	1.92
561125--561381	132	1.9	135	89	6	405	44	21	18	15	1.87
561315--561705	54	7.2	54	86	1	480	42	24	23	10	1.85
561315--561738	162	2.6	162	83	3	541	42	23	23	10	1.85
561338--561776	108	4.1	105	77	9	370	41	23	23	11	1.87
567316--567352	15	2.5	15	90	0	56	8	16	67	8	1.40
569043--569106	31	2.1	31	82	5	78	62	1	0	35	1.05
569097--569155	17	3.3	17	71	26	50	44	5	5	45	1.47
569170--569196	13	2.1	13	100	0	54	40	7	7	44	1.60
569117--569202	31	2.7	32	80	12	106	40	8	5	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569085--569472	36	10.8	36	74	15	247	42	9	3	45	1.53
569087--569472	106	3.6	106	72	17	228	42	9	3	45	1.53
569423--569450	14	2.0	14	100	0	56	42	14	7	35	1.73
569232--569475	106	2.3	108	79	14	256	43	9	2	44	1.51
572937--572970	12	2.8	12	90	4	50	41	20	11	26	1.87
573233--573265	2	16.5	2	100	0	66	51	0	0	48	1.00
574393--574439	23	2.1	22	84	11	60	12	4	4	78	1.04
574385--574443	12	4.9	12	74	14	50	13	3	5	77	1.05
579895--580056	76	2.1	76	88	5	240	28	15	13	42	1.85
580059--580406	39	9.0	39	88	1	452	28	18	16	36	1.93
580059--580406	155	2.3	156	86	2	488	28	18	16	36	1.93
580357--580609	66	3.7	66	84	5	258	28	21	12	37	1.90
581020--581790	132	5.8	132	87	1	1040	29	19	19	30	1.97
581245--581632	44	8.8	44	69	4	199	29	19	20	30	1.97
581020--581953	264	3.6	264	84	6	1168	29	20	19	30	1.97
581678--581903	113	2.0	113	94	0	398	28	22	19	30	1.98
582702--582728	2	13.5	2	100	0	54	51	0	0	48	1.00
589275--589328	23	2.5	23	76	8	60	31	25	25	16	1.97
597065--597446	36	10.6	36	75	13	256	41	9	3	45	1.55
597065--597384	71	4.5	71	76	11	259	40	9	3	46	1.55
597065--597411	108	3.2	110	78	11	303	40	9	4	46	1.55
597918--597981	33	2.0	33	87	9	96	34	6	1	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598426--598672	118	2.0	121	89	3	383	40	5	6	47	1.53
604766--604827	12	5.1	12	72	18	56	41	0	1	56	1.09
604769--604838	12	5.7	12	75	11	52	41	0	1	57	1.08
616497--616533	16	2.3	16	90	0	56	37	5	2	54	1.38
617230--617766	83	6.5	83	94	1	936	27	13	21	37	1.91
618520--618930	113	3.6	113	98	0	779	38	14	18	28	1.90
619249--619362	3	38.7	3	92	3	196	33	1	0	64	1.04
619361--619405	20	2.3	19	84	3	54	62	2	0	35	1.08
620808--620870	12	5.1	12	72	14	56	42	0	1	55	1.09
620811--620881	12	5.7	12	72	8	52	42	0	1	56	1.08

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