genome.fa.s1478.2.7.7.80.10.50.1000.5.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: VEPZ01001478.1 Hibiscus syriacus cultivar Beakdansim tig00002868_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  623040

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 580 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)
528922--528987	26	2.5	27	80	4	73	40	10	7	40	1.68
529192--529306	48	2.4	48	98	0	221	35	11	4	48	1.59
529436--529481	15	3.1	14	84	6	56	34	0	6	58	1.24
530208--530242	12	2.9	12	91	0	61	8	37	34	20	1.83
531841--531874	2	17.0	2	100	0	68	50	0	0	50	1.00
535781--535888	8	12.8	8	83	10	101	79	0	8	11	0.98
535778--535898	17	6.9	18	85	6	144	80	0	9	9	0.96
535780--535899	9	13.8	9	83	13	137	80	0	8	10	0.94
535780--535910	8	15.4	8	79	10	93	80	0	9	9	0.93
535807--535906	10	9.4	10	76	17	69	83	0	8	9	0.83
537416--537497	28	3.0	27	85	5	119	25	23	24	26	2.00
538747--539031	40	7.1	40	90	2	405	31	13	9	45	1.76
538762--538983	17	11.0	23	60	32	73	31	12	10	45	1.77
538932--539096	39	4.3	39	81	7	160	30	18	12	38	1.88
538986--539124	36	3.8	35	83	7	134	25	22	13	38	1.91
539067--539199	51	2.6	51	90	0	203	24	26	15	33	1.95
539105--539198	15	5.9	15	72	14	71	25	26	13	34	1.94
539169--539275	39	2.7	39	86	0	151	28	17	17	35	1.93
539312--539926	43	13.5	43	75	14	493	27	14	27	30	1.95
539424--539883	98	4.9	96	75	17	410	27	14	27	30	1.95
539739--539974	54	4.8	51	75	18	243	27	16	28	28	1.97
539704--539883	97	1.9	97	89	0	279	27	15	27	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539372--539963	141	4.2	141	96	0	1003	27	14	27	29	1.95
540099--540159	20	2.9	21	73	11	63	19	31	26	22	1.98
540010--540452	132	3.4	131	91	0	663	25	21	20	32	1.98
540468--540816	136	2.6	136	89	0	540	32	18	22	25	1.97
541782--541838	2	28.5	2	92	0	96	45	0	1	52	1.11
542265--542315	2	25.5	2	95	0	93	49	0	0	50	1.00
554617--554714	8	12.1	8	70	21	71	75	1	13	10	1.10
554640--554710	19	3.7	19	88	5	90	80	0	11	8	0.91
554650--554724	28	2.8	25	86	9	87	77	0	13	9	0.99
554617--554710	20	4.7	20	84	10	104	76	1	12	9	1.07
554617--554714	27	3.6	27	80	14	105	75	1	13	10	1.10
554650--554714	28	2.4	28	92	7	107	78	0	10	10	0.97
555597--555894	111	2.7	111	92	0	497	41	13	18	26	1.88
555830--556349	91	5.7	91	91	2	821	41	15	19	24	1.89
556015--556078	17	3.3	19	67	20	51	43	12	20	23	1.85
556199--556260	20	3.2	20	71	17	58	45	11	20	22	1.83
556503--556548	15	3.1	14	84	6	56	34	0	6	58	1.24
558033--558086	22	2.5	22	100	0	108	40	16	0	42	1.48
558495--558532	19	2.0	19	89	0	58	34	7	5	52	1.53
558938--559012	2	37.5	2	80	10	73	42	2	1	53	1.23
559048--559150	13	7.1	14	74	19	88	42	4	5	46	1.49
559049--559128	28	2.9	26	83	10	97	42	6	6	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559111--559169	18	3.3	18	81	11	59	49	1	3	45	1.28
560430--560497	34	2.0	35	82	8	86	55	5	0	38	1.24
561481--561515	8	4.4	8	92	0	52	11	0	37	51	1.38
561419--561612	96	2.0	96	97	0	370	22	17	28	31	1.97
561589--561676	2	45.0	2	93	4	153	0	1	50	48	1.08
561670--562096	20	20.5	20	75	10	243	0	23	49	26	1.53
561589--562130	8	66.5	8	76	9	258	0	19	49	30	1.52
561854--562131	4	69.5	4	77	0	61	1	18	48	31	1.55
561596--562078	62	7.7	62	71	11	86	0	19	50	30	1.50
561898--562131	62	3.6	62	81	10	247	1	18	48	31	1.56
561606--562128	68	7.6	68	73	10	330	0	19	49	29	1.53
561592--562131	10	54.4	10	72	12	195	0	19	49	30	1.52
561594--562131	28	18.8	28	80	10	274	0	19	49	30	1.52
564036--564103	27	2.5	28	77	15	70	72	2	10	14	1.23
564059--564111	14	3.8	14	75	7	54	75	0	11	13	1.05
564059--564113	29	1.9	28	85	3	74	72	0	12	14	1.12
564147--564200	9	6.0	9	82	6	56	81	0	7	11	0.87
564153--564200	19	2.6	19	80	6	55	83	0	8	8	0.82
565779--565914	39	3.5	38	79	12	134	42	6	2	47	1.44
565777--565953	76	2.3	75	79	13	182	42	7	3	46	1.48
568589--568904	41	7.6	41	82	3	355	27	20	17	34	1.95
568588--568904	125	2.5	122	82	5	382	27	20	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572215--572536	85	3.8	85	83	5	355	23	21	20	33	1.97
572215--572567	128	2.7	124	81	6	366	23	20	20	34	1.96
572215--572564	43	8.2	41	81	4	295	24	20	20	34	1.97
573552--573623	20	3.6	20	74	7	83	15	22	25	37	1.93
573527--573667	41	3.5	41	89	7	200	19	20	24	36	1.95
573615--573686	22	3.4	21	73	11	76	18	20	25	36	1.95
573636--573701	19	3.3	19	72	12	69	18	19	21	40	1.91
573534--573714	41	4.4	40	88	6	174	21	18	23	36	1.95
573786--573852	6	11.5	6	98	1	120	31	52	16	0	1.44
574355--574432	6	13.5	6	98	1	135	0	16	52	30	1.44
574532--574688	21	7.6	21	66	15	78	37	24	21	16	1.93
574526--574733	41	5.0	41	87	4	285	38	23	21	16	1.93
574532--574686	20	7.5	21	68	15	90	36	24	21	16	1.94
574766--574998	41	5.7	41	86	10	334	37	24	20	17	1.94
574775--574998	82	2.7	81	94	2	394	37	25	20	16	1.93
574551--574957	224	1.8	224	87	5	617	36	23	21	17	1.94
574526--575140	265	2.3	265	94	1	1074	36	23	21	18	1.95
575031--575136	20	5.2	20	67	12	63	35	26	19	17	1.95
574892--575169	142	2.0	142	92	2	470	34	23	22	19	1.96
575038--575140	41	2.5	41	93	0	170	37	26	19	16	1.92
575930--576030	46	2.2	46	94	0	175	17	23	30	27	1.97
578814--578870	26	2.2	26	90	9	91	14	14	15	56	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600356--600425	30	2.3	30	95	0	122	30	15	5	48	1.68
602448--602554	45	2.6	39	78	16	124	31	45	7	14	1.73
602466--602605	45	3.1	45	90	0	199	33	48	5	12	1.63
602802--602857	29	1.9	29	100	0	112	19	19	14	46	1.84
603992--604032	20	2.0	20	90	0	64	41	2	4	51	1.36
606880--606918	17	2.2	19	86	13	57	12	30	5	51	1.62
610037--610068	16	2.0	16	93	0	55	53	0	0	46	1.00
616255--616299	20	2.3	20	84	3	65	46	2	4	46	1.35
621467--621506	20	2.0	20	90	0	62	25	35	0	40	1.56
621461--621500	10	4.0	10	83	0	53	27	37	0	35	1.57
621512--621565	12	5.0	12	74	21	57	33	0	1	64	1.04
621516--621575	15	3.9	16	72	25	58	30	0	1	68	0.99

Tables:   1   2   3   4   5

The End!