genome.fa.s8421.2.7.7.80.10.50.1000.3.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: VEPZ01008421.1 Hibiscus syriacus cultivar Beakdansim tig00111201_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1159951

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 718 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)
459724--459784	31	2.0	31	87	6	88	47	16	3	32	1.63
459934--460011	23	3.4	23	85	3	77	37	26	17	17	1.93
459955--460011	23	2.5	23	91	5	89	35	28	17	19	1.94
462986--463116	35	3.9	34	87	6	187	36	19	17	25	1.94
467145--467191	19	2.5	19	86	10	62	31	19	23	25	1.98
467143--467322	65	2.8	64	85	9	242	28	18	23	29	1.98
467163--467362	65	3.1	64	82	10	239	27	17	23	31	1.97
467708--467767	24	2.5	24	100	0	120	20	41	0	38	1.52
467837--467885	2	24.5	2	100	0	98	51	0	0	48	1.00
470080--470159	21	3.7	21	77	5	88	25	23	25	26	2.00
470084--470178	21	4.4	21	75	9	77	25	21	25	28	1.99
475875--476034	65	2.5	65	81	7	184	29	17	21	31	1.96
479834--480412	71	8.2	70	74	7	327	35	25	19	19	1.95
480013--480127	35	3.3	35	71	7	124	33	24	22	20	1.97
480041--480148	36	3.0	36	68	8	112	31	28	20	19	1.97
480038--480375	140	2.4	141	80	8	352	34	25	20	19	1.96
480551--480675	3	40.3	3	73	12	85	35	3	2	59	1.27
480553--480683	13	10.3	12	70	12	66	37	3	2	57	1.27
484116--484179	27	2.4	27	86	5	94	40	12	14	32	1.83
484116--484179	9	7.1	9	72	13	51	40	12	14	32	1.83
487131--487173	22	2.0	21	90	4	68	41	18	13	25	1.88
489030--489731	350	2.0	349	91	0	1145	31	13	24	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491893--491929	19	1.9	19	100	0	74	32	0	10	56	1.34
492698--492755	26	2.2	26	88	8	91	34	3	6	55	1.44
492702--492766	26	2.5	24	83	16	85	33	6	6	53	1.50
492916--492988	30	2.5	31	80	8	80	38	15	2	43	1.61
493086--493193	30	3.6	30	82	2	83	35	12	7	45	1.69
493289--493336	23	2.1	23	88	7	71	37	0	2	60	1.09
493281--493337	22	2.6	22	83	5	71	38	0	3	57	1.16
493411--493440	14	2.2	14	94	5	53	53	3	0	43	1.17
496500--496529	15	2.0	15	100	0	60	20	20	26	33	1.97
496549--496607	23	2.6	23	81	5	75	30	27	23	18	1.98
497251--497391	65	2.2	64	81	9	155	25	18	21	34	1.96
500042--500101	3	19.3	3	77	13	59	41	0	0	58	0.98
500042--500097	21	2.6	21	94	5	94	41	0	0	58	0.98
508838--508896	20	3.0	20	92	0	100	25	20	20	33	1.97
508988--509300	36	8.6	36	88	3	328	34	17	22	25	1.96
509420--509481	3	20.3	3	90	9	99	35	0	0	64	0.94
515478--515502	12	2.1	12	100	0	50	24	16	44	16	1.86
515532--515666	29	4.5	29	76	7	126	23	34	25	16	1.95
516309--516352	21	2.1	21	91	0	70	29	0	15	54	1.42
516329--516382	28	1.9	28	96	0	99	29	0	12	57	1.36
519455--520209	60	13.2	59	85	9	913	41	0	12	46	1.45
519876--519989	48	2.3	49	95	1	203	42	0	12	44	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519973--520009	10	3.7	10	92	0	65	43	0	16	40	1.48
519924--520058	69	2.0	69	96	0	252	42	0	12	45	1.42
519993--520205	49	4.3	49	95	1	365	41	0	10	47	1.38
520177--520224	14	3.6	14	81	16	66	35	0	16	47	1.47
519756--520223	167	2.8	165	85	6	584	41	0	12	46	1.45
522446--522492	16	3.0	16	81	9	53	57	8	0	34	1.29
522534--522602	30	2.3	30	90	7	106	50	11	1	36	1.48
522534--522613	29	2.7	29	85	11	101	47	10	2	40	1.50
522811--522854	21	2.2	20	95	4	79	59	13	0	27	1.35
522878--522932	18	3.4	18	65	31	52	52	9	0	38	1.33
522952--523019	36	2.0	35	88	8	104	48	10	0	41	1.37
523046--523110	28	2.3	29	82	10	82	46	15	1	36	1.55
523192--523229	9	4.2	9	83	10	51	65	2	0	31	1.06
523512--523595	29	2.9	28	85	7	114	15	28	28	27	1.96
523621--523710	42	2.1	42	97	0	171	24	42	18	14	1.88
528020--528053	11	3.2	11	87	8	52	55	0	8	35	1.31
528364--528471	57	1.9	56	90	1	171	31	12	16	38	1.87
529394--529521	60	2.1	60	81	5	143	36	15	13	34	1.87
531934--532004	2	35.5	2	100	0	142	50	0	0	49	1.00
537702--537770	23	3.0	23	84	0	102	31	26	24	17	1.97
538000--538058	30	2.0	29	83	3	73	33	22	6	37	1.80
547855--547925	21	3.4	21	98	0	133	50	25	4	19	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554297--554425	42	3.0	42	79	2	159	37	17	14	30	1.89
554444--554641	82	2.4	82	78	1	220	35	18	19	26	1.95
554444--554614	41	4.2	41	77	4	157	36	19	18	25	1.94
557262--557308	19	2.5	19	83	10	62	25	17	31	25	1.97
557152--557360	65	3.2	62	81	11	215	27	17	25	30	1.97
558315--558358	21	2.1	21	91	0	70	40	15	36	6	1.74
559158--559221	21	3.0	21	77	4	67	29	6	42	21	1.78
563803--563842	21	1.9	21	85	10	55	35	10	2	52	1.48
565897--565943	19	2.5	19	83	10	62	25	17	31	25	1.97
565787--565995	65	3.2	62	81	11	215	27	17	25	30	1.97
566871--566910	21	1.9	21	90	10	64	55	5	7	32	1.50
570716--570767	23	2.3	22	83	9	77	23	32	19	25	1.97
571240--571280	13	3.1	13	92	3	64	36	14	7	41	1.74
573453--573505	21	2.5	21	93	0	97	22	33	20	22	1.97
574224--574379	82	1.9	82	89	2	242	33	18	14	33	1.92
574262--574387	41	3.1	41	69	13	105	35	21	11	30	1.90
575983--576010	2	14.0	2	100	0	56	50	0	0	50	1.00
577124--577184	27	2.3	27	94	0	104	16	11	9	62	1.54
577446--577558	9	12.4	9	79	6	68	30	1	0	68	1.00
577432--577529	34	3.0	33	89	4	153	38	0	0	61	0.96
577432--577529	32	3.0	31	84	15	126	38	0	0	61	0.96
578842--578897	21	2.7	21	94	0	94	26	21	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579165--579196	16	2.0	16	100	0	64	43	6	12	37	1.68
582471--582511	21	1.9	22	85	5	57	65	2	2	29	1.18
583081--583154	21	3.6	21	66	21	50	31	0	2	66	1.06
587473--587541	34	2.0	34	88	0	102	43	17	11	27	1.83
590119--590158	21	1.9	22	90	10	66	17	10	35	37	1.83
590276--590338	20	3.2	20	97	0	117	25	15	34	23	1.95
590411--590461	21	2.4	21	93	0	84	25	19	37	17	1.94
590541--590598	30	2.0	29	89	3	89	43	12	5	39	1.64
593742--593827	20	4.7	20	74	21	89	25	19	30	24	1.98
593743--593809	32	2.1	32	94	0	116	25	20	28	25	1.99
594006--594062	29	2.0	29	89	6	89	45	14	5	35	1.67
594006--594064	30	2.0	29	93	3	100	44	13	6	35	1.71
596731--596773	21	2.0	21	81	0	50	27	30	25	16	1.97
596801--596838	20	1.9	20	88	0	58	23	34	31	10	1.89
597317--597534	103	2.1	103	99	0	427	24	12	24	37	1.91
597551--597602	23	2.3	23	90	6	79	19	28	26	25	1.98
597550--597613	23	2.8	23	79	13	78	21	25	25	28	1.99
603720--603757	20	1.9	20	88	0	58	23	34	31	10	1.89
604230--604447	103	2.1	103	97	0	409	25	12	24	37	1.91
604463--604525	22	2.8	23	83	7	85	20	25	26	26	1.99
610956--611001	20	2.3	20	84	0	56	43	0	17	39	1.49
612511--612539	2	15.0	2	92	7	51	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)
612788--612875	43	2.0	44	93	2	151	52	14	7	25	1.69
613370--613435	3	22.0	3	82	0	60	10	54	0	34	1.35
613347--613445	30	3.3	30	82	2	92	14	48	2	35	1.55
613344--613435	6	15.3	6	78	4	78	13	50	1	35	1.48
614546--614582	2	18.5	2	100	0	74	51	0	0	48	1.00
615373--615403	14	2.2	14	94	0	53	61	6	0	32	1.21
615581--615624	15	3.0	14	78	12	52	65	4	2	27	1.23
615632--615676	16	2.9	15	80	6	54	68	0	2	28	1.01
617729--617774	16	2.9	16	93	0	83	54	23	13	8	1.66
617978--618035	24	2.4	24	100	0	116	31	24	22	22	1.99

Tables:   1   2   3   4   5   6