genome.fa.s9638.2.7.7.80.10.50.1000.2.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: VEPZ01009638.1 Hibiscus syriacus cultivar Beakdansim tig00117047_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  894601

Tables:   1   2   3   4   

This is table  2  of  4  ( 386 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)
291800--291945	73	2.0	73	93	0	247	33	10	20	35	1.87
292967--293020	19	2.8	19	75	13	56	48	12	0	38	1.42
297660--297704	21	2.1	21	87	0	63	44	6	15	33	1.73
297726--298672	385	2.5	383	89	3	1386	36	12	12	38	1.82
300818--300851	16	2.1	16	100	0	68	11	17	35	35	1.87
300825--300860	16	2.2	16	90	0	54	16	19	30	33	1.94
305719--305844	30	4.2	30	72	11	87	31	19	20	27	1.97
305732--305803	30	2.4	30	90	0	108	31	20	22	25	1.98
311098--311130	15	2.2	15	89	10	50	18	3	0	78	0.87
314889--314991	52	2.0	52	98	0	197	21	23	13	41	1.88
319486--319588	52	2.0	52	98	0	197	21	23	13	41	1.88
323166--323276	59	1.9	58	83	1	141	43	9	13	34	1.76
324820--324992	60	2.9	61	74	12	144	42	6	20	29	1.78
325011--325039	2	14.5	2	100	0	58	51	0	0	48	1.00
328958--328986	15	2.0	15	93	6	51	37	0	0	62	0.96
329767--329810	21	2.3	18	85	14	61	52	9	0	38	1.33
329767--329810	19	2.2	21	88	11	67	52	9	0	38	1.33
331419--331447	2	14.5	2	100	0	58	51	0	0	48	1.00
331533--331608	39	1.9	39	100	0	152	40	19	13	26	1.88
332883--332970	22	4.2	20	68	19	54	55	2	2	39	1.25
333538--333569	17	1.9	16	93	6	55	31	3	6	59	1.38
334123--334164	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335445--335491	21	2.2	21	92	0	76	21	38	25	14	1.92
337057--337122	33	2.0	33	96	0	123	53	21	15	10	1.72
342827--343004	60	2.9	58	80	5	167	38	6	23	31	1.79
343108--343161	11	5.1	11	76	10	51	48	1	1	48	1.23
343100--343161	32	1.9	32	90	6	99	48	3	3	45	1.34
350210--350246	3	12.3	3	94	0	56	59	0	0	40	0.97
351797--351856	31	2.0	30	90	3	93	28	13	3	55	1.54
351824--351967	45	3.3	42	76	8	146	25	16	6	51	1.68
358522--358605	29	2.9	29	98	0	159	14	35	27	22	1.93
358645--358699	14	4.0	14	81	11	51	12	34	30	21	1.91
358654--358700	14	3.4	14	84	0	58	10	34	34	21	1.88
358762--358831	29	2.4	29	95	0	122	21	28	32	17	1.96
360676--360758	32	2.5	34	88	7	134	61	0	0	38	0.96
365578--365814	124	1.9	125	82	2	298	27	12	11	48	1.74
374963--374996	16	2.1	16	94	0	59	32	26	8	32	1.87
391541--391607	2	33.5	2	100	0	134	49	0	0	50	1.00
391893--391950	29	2.0	29	100	0	116	37	24	17	20	1.93
394125--394155	4	7.8	4	100	0	62	51	22	0	25	1.48
395973--396001	2	14.5	2	100	0	58	51	0	0	48	1.00
396009--396083	10	7.9	10	78	16	88	68	1	29	1	1.06
396026--396083	16	3.8	15	81	18	75	70	0	29	0	0.87
396024--396080	4	14.8	4	72	20	50	70	0	29	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396009--396083	18	3.9	19	83	13	84	68	1	29	1	1.06
396028--396083	6	9.7	6	81	14	73	69	0	30	0	0.89
398722--398781	22	2.8	21	80	14	61	18	35	15	31	1.91
400245--400316	29	2.4	30	90	2	110	20	38	26	13	1.90
400363--400423	23	2.7	23	86	0	86	9	36	27	26	1.88
401458--401795	141	2.4	141	84	2	428	34	14	13	38	1.84
403663--403728	31	2.1	31	88	0	96	45	4	15	34	1.66
403710--403748	20	2.0	20	94	0	69	43	5	17	33	1.72
403772--403799	2	14.0	2	100	0	56	50	0	0	50	1.00
411800--411912	60	1.9	59	82	10	140	37	11	13	38	1.81
413407--413450	12	3.6	12	78	6	52	45	0	0	54	0.99
428101--428148	21	2.2	22	82	10	64	31	4	12	52	1.58
429369--429402	17	2.0	17	88	0	50	58	23	11	5	1.55
432990--433059	31	2.2	32	89	2	106	37	27	7	28	1.83
433436--433492	28	2.0	29	86	13	82	49	1	0	49	1.11
438767--438840	30	2.5	30	97	2	141	50	6	14	28	1.69
439460--439505	23	2.0	23	83	8	58	41	0	0	58	0.98
442929--442967	11	3.5	11	80	13	53	35	7	0	56	1.28
442922--442967	22	2.1	22	95	0	83	32	10	0	56	1.34
444614--444649	2	18.0	2	100	0	72	50	0	0	50	1.00
448666--448784	59	2.0	59	90	0	184	18	22	33	25	1.97
448823--448903	33	2.6	31	84	9	94	22	3	11	62	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448967--449035	30	2.3	30	84	0	93	26	10	11	52	1.69
452169--452216	23	2.1	23	84	7	62	45	0	2	52	1.12
458984--459016	2	16.5	2	100	0	66	0	48	0	51	1.00
459078--459112	18	1.9	18	88	0	52	28	11	0	60	1.32
462405--462953	274	2.0	274	98	0	1071	43	10	9	37	1.70
463373--463444	34	2.2	32	85	5	99	20	33	15	30	1.94
465501--465555	20	2.7	20	91	5	83	18	23	40	18	1.91
465564--465598	18	1.9	18	88	0	52	28	17	31	22	1.96
467480--467523	2	22.0	2	100	0	88	50	0	0	50	1.00
472015--472161	60	2.5	60	83	8	183	35	21	4	39	1.72
475656--475700	21	2.1	21	100	0	90	37	22	15	24	1.93
482354--482457	28	3.6	28	80	11	111	40	8	10	40	1.70
484806--484881	2	38.0	2	100	0	152	50	0	0	50	1.00
485429--485510	29	2.8	29	94	1	137	32	14	9	42	1.79
490200--490281	29	2.8	29	94	1	137	32	14	9	42	1.79
500355--500384	2	15.0	2	100	0	60	50	0	0	50	1.00
503647--503686	2	20.0	2	100	0	80	50	0	0	50	1.00
504659--504701	21	2.0	22	86	9	61	58	18	0	23	1.40
507583--507660	29	2.7	29	91	2	120	30	16	10	42	1.82
508882--508932	24	2.1	24	82	7	59	29	11	45	13	1.79
512340--512417	29	2.7	29	91	2	120	33	15	8	42	1.78
513018--513051	14	2.4	14	90	5	50	47	8	0	44	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513163--513201	15	2.7	14	82	17	53	48	2	2	46	1.29
513361--513576	108	2.0	108	96	0	396	52	13	10	23	1.71
514942--515072	66	2.0	66	95	0	235	34	10	27	27	1.90
525126--525166	2	20.5	2	100	0	82	51	0	0	48	1.00
525511--525585	15	5.2	15	73	15	77	57	2	0	40	1.13
525514--525583	19	3.5	19	66	21	52	54	2	0	42	1.15
525520--525585	21	3.1	21	63	16	55	59	3	0	37	1.13
528833--528899	22	3.0	22	91	2	107	26	28	25	19	1.99
530562--530606	21	2.1	21	87	0	63	15	24	28	31	1.96
533684--533750	22	3.0	22	88	2	98	26	26	25	20	1.99
535396--535440	21	2.1	21	87	0	63	15	24	28	31	1.96
536345--536389	23	2.0	23	95	0	81	64	6	24	4	1.37
536817--536845	14	2.0	15	93	6	51	51	0	6	41	1.28
537164--537228	17	3.8	16	75	17	51	46	1	1	50	1.20
537306--537359	18	3.1	17	81	5	65	42	1	0	55	1.10
537299--537358	21	2.8	21	82	5	66	46	1	0	51	1.10
537315--537357	13	3.3	13	83	0	59	41	0	0	58	0.98
546804--546906	51	2.0	51	96	0	188	24	23	25	27	2.00
547516--547886	87	4.3	87	98	0	697	49	15	19	14	1.79
548815--548867	3	17.7	3	92	0	88	35	1	0	62	1.06
549284--549323	17	2.4	17	91	0	62	65	2	32	0	1.06
550252--550298	14	3.5	13	80	13	51	40	2	2	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561468--561520	1	53.0	1	80	0	61	90	0	9	0	0.45
561469--561520	10	5.5	10	84	13	74	90	0	9	0	0.46
561468--561520	18	2.9	18	91	2	88	90	0	9	0	0.45
561470--561520	9	5.6	9	84	11	68	90	0	9	0	0.46
562624--563082	248	1.8	249	90	3	746	27	13	22	37	1.91
562624--563082	83	5.5	83	93	1	737	27	13	22	37	1.91
563812--564364	113	4.9	109	88	5	668	37	13	21	28	1.91
563812--564364	226	2.5	224	86	7	766	37	13	21	28	1.91
564679--564722	3	14.7	3	90	0	70	36	2	0	61	1.09
566127--566173	14	3.5	13	80	13	51	40	2	2	55	1.24

Tables:   1   2   3   4