genome.fa.s8524.2.7.7.80.10.50.1000.2.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: VEPZ01008524.1 Hibiscus syriacus cultivar Beakdansim tig00111393_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  760704

Tables:   1   2   3   

This is table  2  of  3  ( 294 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)
336846--336947	23	4.3	23	83	3	123	33	21	19	25	1.97
336849--336947	47	2.1	47	90	0	153	33	21	20	25	1.97
336954--337171	103	2.1	103	95	0	391	36	23	13	25	1.92
342017--342064	24	2.0	24	91	0	78	8	8	25	58	1.55
342025--342078	24	2.2	24	83	0	63	12	7	18	61	1.54
342535--342582	24	2.0	24	100	0	96	33	16	12	37	1.86
343178--343244	16	4.3	16	81	10	68	10	8	19	61	1.54
343306--343336	16	1.9	16	100	0	62	6	12	22	58	1.58
352688--352751	29	2.2	28	81	13	76	32	1	1	64	1.13
354787--354833	22	2.1	22	96	0	85	44	12	4	38	1.62
355840--355867	2	14.0	2	100	0	56	50	0	0	50	1.00
359980--360110	15	8.9	15	89	3	185	52	0	0	47	1.00
359980--360110	45	3.0	45	93	2	212	52	0	0	47	1.00
360113--360505	32	14.6	28	67	29	163	34	0	12	52	1.42
360098--360241	54	2.6	55	89	6	220	36	0	9	52	1.39
360136--360504	80	4.6	80	77	17	342	34	0	13	52	1.43
360138--360507	22	14.1	24	68	27	109	34	0	13	51	1.43
360098--360511	188	2.2	188	88	3	611	35	0	12	52	1.41
360216--360416	54	3.7	54	95	0	357	34	0	13	51	1.42
360122--360511	134	2.9	131	85	6	439	34	0	12	52	1.42
360890--360984	29	3.2	29	72	19	79	34	24	3	37	1.71
377189--377261	36	2.0	36	84	10	96	47	4	1	46	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378286--378413	59	2.2	58	84	10	163	43	6	16	33	1.73
378500--378547	25	2.0	24	88	8	71	56	0	6	37	1.25
381668--381706	19	2.1	19	85	0	51	64	23	5	7	1.40
396065--396104	15	2.9	14	85	10	55	55	0	0	45	0.99
397162--397194	17	1.9	17	93	0	57	30	12	12	45	1.78
398499--398540	19	2.2	19	95	0	75	40	7	9	42	1.65
399583--399619	2	19.0	2	94	5	67	51	0	0	48	1.00
403770--403802	14	2.4	14	90	10	50	33	3	6	57	1.38
414288--414373	38	2.3	38	97	0	163	38	23	11	26	1.89
418517--418570	20	2.7	20	80	8	65	16	22	27	33	1.95
420834--421011	89	2.0	89	95	0	320	24	11	20	43	1.85
427448--427472	12	2.1	12	100	0	50	48	8	0	44	1.32
427648--427680	17	1.9	17	93	0	57	51	0	0	48	1.00
427641--427681	17	2.5	16	80	7	55	48	0	0	51	1.00
435649--435674	2	13.0	2	100	0	52	50	0	0	50	1.00
442996--443090	42	2.3	42	100	0	190	27	14	11	46	1.79
446510--446537	3	9.3	3	100	0	56	64	0	35	0	0.94
448400--448476	27	2.8	28	94	6	138	53	6	0	40	1.27
449515--449583	34	2.0	34	100	0	138	59	8	14	17	1.60
449639--449670	16	2.0	16	93	0	55	71	0	6	21	1.07
452236--452584	137	2.5	138	87	2	470	29	10	13	46	1.78
457601--457633	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466726--466812	37	2.4	37	100	0	174	32	18	14	34	1.92
468999--469028	14	2.2	13	94	5	51	53	10	0	36	1.35
472655--472718	21	3.0	21	76	12	69	25	21	20	32	1.97
473587--473730	64	2.3	63	86	3	211	34	22	19	23	1.97
473559--473909	21	16.8	21	72	14	244	35	23	19	22	1.96
473926--473973	21	2.3	21	96	0	87	16	18	33	31	1.94
475190--475264	18	4.4	18	80	16	106	17	50	20	12	1.77
475194--475271	31	2.5	31	93	2	140	16	47	21	14	1.82
475212--475248	13	2.8	13	91	0	65	16	48	21	13	1.80
475261--475294	7	4.7	7	85	7	50	17	32	26	23	1.97
475263--475293	15	2.1	15	93	0	53	16	35	22	25	1.94
476583--476617	18	1.9	18	88	0	52	54	0	17	28	1.43
480385--480458	18	4.4	18	77	19	97	17	50	20	12	1.78
480389--480465	30	2.5	30	93	2	136	16	46	22	14	1.83
480407--480442	12	2.8	13	83	8	56	16	47	22	13	1.82
480437--480480	12	3.3	13	84	12	54	15	40	25	18	1.90
480455--480488	7	4.7	7	85	7	50	17	32	26	23	1.97
480457--480487	15	2.1	15	93	0	53	16	35	22	25	1.94
481771--481805	18	1.9	18	88	0	52	54	0	17	28	1.43
484764--484858	42	2.3	42	96	1	174	45	30	10	13	1.77
488059--488100	17	2.6	16	79	17	50	33	0	0	66	0.92
488372--488461	43	2.1	43	87	0	126	33	11	20	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493427--493454	2	14.0	2	100	0	56	50	0	0	50	1.00
495441--495547	52	2.0	53	90	3	171	42	14	22	21	1.88
506416--506466	21	2.5	21	81	12	70	50	1	0	47	1.12
511070--511258	95	2.0	95	95	0	342	31	13	17	37	1.89
513676--513769	2	47.0	2	100	0	188	50	0	0	50	1.00
526325--526372	17	2.7	18	93	3	80	31	10	27	31	1.90
526700--527308	254	2.4	250	88	6	886	40	20	12	26	1.88
532476--532584	35	3.0	36	91	5	175	44	19	5	30	1.73
532516--532576	21	3.2	21	65	29	64	42	21	4	31	1.74
532483--532611	35	3.6	36	85	9	142	41	18	6	32	1.77
536190--536302	35	3.2	36	88	5	167	43	17	4	34	1.69
536240--536300	21	3.2	21	63	29	55	42	19	4	32	1.73
536243--536369	34	3.7	34	85	5	141	38	17	8	35	1.80
544078--544125	23	2.1	21	85	11	60	4	20	0	75	0.97
549348--549400	27	2.0	27	100	0	106	33	9	18	37	1.83
550687--550724	16	2.4	16	86	8	51	57	0	0	42	0.98
553741--553816	36	2.1	36	85	7	100	47	1	3	47	1.29
559893--559922	15	2.0	15	93	0	51	36	0	56	6	1.26
561778--561868	39	2.4	39	94	1	157	41	6	6	45	1.56
563771--563814	21	2.0	22	91	4	72	25	6	25	43	1.79
569706--569749	18	2.5	17	82	10	52	54	9	0	36	1.32
577588--577625	19	2.0	20	84	5	51	47	2	5	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577948--578020	15	4.9	15	98	0	137	57	0	0	42	0.98
577963--578075	30	3.4	33	79	14	99	48	0	5	46	1.25
578052--578202	22	6.0	22	68	26	86	36	0	11	51	1.39
578078--578180	32	3.5	32	75	24	136	34	0	12	52	1.40
578008--578212	54	3.8	54	96	0	374	37	0	10	51	1.37
578227--578285	31	1.9	31	92	0	100	42	10	6	40	1.65
579130--579156	12	2.2	12	100	0	54	11	33	33	22	1.89
579661--579696	17	2.1	17	100	0	72	16	0	41	41	1.48
579834--579939	30	3.5	30	87	5	142	38	0	14	47	1.44
579881--579935	15	3.6	16	70	20	55	41	0	14	43	1.45
579992--580025	15	2.2	16	94	5	61	38	0	5	55	1.24
582159--582206	14	3.6	14	83	16	75	45	18	0	35	1.50
582158--582255	11	9.2	11	73	24	52	46	14	0	38	1.44
582174--582485	60	5.2	60	96	0	561	46	13	0	40	1.43
582253--583024	120	7.0	120	84	11	916	45	13	0	40	1.46
582356--583020	60	12.4	49	76	17	405	45	13	0	40	1.46
582479--582644	39	4.2	39	61	13	95	45	14	0	40	1.45
582468--582971	60	8.1	60	77	13	479	45	13	0	40	1.47
582468--582669	21	10.0	22	65	23	79	45	14	0	40	1.46
582174--583024	230	3.8	230	83	12	1082	45	13	0	40	1.46
582910--582992	21	3.6	22	67	26	64	48	10	0	40	1.38
582804--583024	109	2.0	109	95	0	397	45	13	0	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582175--583018	170	5.1	157	86	9	819	45	13	0	40	1.46
585852--585914	24	2.6	24	76	16	67	39	3	6	50	1.44
586172--586231	17	3.3	17	73	15	57	50	11	0	38	1.39
586719--586767	21	2.3	21	85	3	71	53	16	0	30	1.43
587272--587298	13	2.1	13	100	0	54	22	37	18	22	1.95
587278--587356	29	2.7	29	98	0	149	17	37	25	18	1.93
587277--587374	29	3.6	27	88	8	119	19	37	24	18	1.94
587593--587735	29	4.9	30	95	3	242	18	27	37	16	1.92
589411--589436	2	13.0	2	100	0	52	50	0	0	50	1.00
589848--589876	9	3.3	9	95	4	51	44	0	6	48	1.29

Tables:   1   2   3