genome.fa.s8739.2.7.7.80.10.50.1000.3.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: VEPZ01008739.1 Hibiscus syriacus cultivar Beakdansim tig00111817_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  827959

Tables:   1   2   3   4   

This is table  3  of  4  ( 473 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)
413754--414265	80	6.6	76	82	9	579	25	18	16	39	1.91
413754--414357	118	5.1	118	83	8	683	26	18	16	38	1.91
414194--414786	45	13.3	45	80	6	418	24	18	17	40	1.91
414195--414786	90	6.6	90	79	6	474	23	18	17	40	1.91
414416--414786	135	2.8	134	84	6	471	22	18	17	42	1.90
414236--414849	135	4.5	131	78	8	450	24	18	17	39	1.91
414252--414856	90	6.7	90	79	5	420	24	18	17	39	1.91
414326--414856	45	11.8	45	78	7	357	23	18	17	40	1.91
415467--416000	134	4.0	135	86	2	709	30	18	18	32	1.95
417784--417841	19	3.0	19	89	2	80	39	20	0	39	1.53
417883--417909	2	13.5	2	100	0	54	48	0	0	51	1.00
422261--422336	15	5.0	15	76	11	57	69	0	3	26	1.05
422261--422344	20	4.3	18	68	21	53	69	0	4	26	1.08
422366--422398	17	2.0	16	94	5	57	84	0	6	9	0.76
423385--423914	124	4.3	124	71	16	407	27	16	23	33	1.95
423970--424829	110	7.3	110	68	17	488	26	18	21	32	1.97
423516--424892	240	5.7	240	89	1	1934	26	18	22	32	1.97
425708--425964	95	2.7	95	84	3	318	33	17	15	33	1.92
428651--428684	13	2.5	14	85	4	52	67	0	11	20	1.21
430621--430683	20	3.1	20	74	17	58	22	0	26	50	1.49
431263--431309	17	2.8	18	75	12	55	53	0	0	46	1.00
431264--431315	26	2.0	27	85	11	72	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431299--431342	18	2.5	18	82	14	56	56	2	2	38	1.24
431328--431412	26	3.3	26	73	16	79	49	0	2	48	1.14
431804--431857	21	2.5	21	75	3	54	35	12	5	46	1.66
437448--437499	13	3.9	14	82	12	56	75	7	11	5	1.19
437465--437499	12	2.8	12	95	4	61	77	8	8	5	1.13
437479--437517	18	2.2	18	86	9	53	79	2	12	5	1.00
438569--438632	32	2.0	32	87	0	92	28	14	28	29	1.95
439079--439189	37	3.2	37	62	29	89	28	13	14	43	1.83
438935--439200	132	2.0	132	92	4	448	30	12	15	41	1.84
438939--439200	67	4.0	67	91	3	433	30	11	16	41	1.84
439342--439418	32	2.5	31	85	10	95	31	18	10	40	1.84
439154--439445	160	1.8	162	79	8	344	31	15	13	39	1.87
439486--439866	133	2.9	128	81	7	390	26	31	17	24	1.97
439758--439877	40	2.9	41	81	5	143	25	30	19	25	1.98
440425--441362	468	2.0	470	97	0	1792	38	10	27	23	1.88
442436--442471	5	7.0	5	90	3	54	19	2	2	75	1.06
442414--442471	15	3.9	15	78	13	57	17	5	3	74	1.15
445800--446042	43	5.9	41	76	10	176	32	14	18	34	1.92
445799--445984	84	2.2	84	86	1	257	34	14	17	33	1.90
445799--446211	41	10.0	41	70	12	195	32	16	19	31	1.94
446129--446208	42	1.9	41	84	2	106	32	20	21	26	1.97
447447--447740	148	2.0	148	80	7	330	44	7	7	40	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448738--448790	3	18.3	3	80	7	65	58	0	1	39	1.09
449044--449708	116	5.7	116	91	1	1010	28	20	20	30	1.98
449044--449704	233	2.8	232	90	1	1011	28	20	20	30	1.98
449044--449708	349	1.9	349	90	2	1057	28	20	20	30	1.98
451063--451384	75	4.3	75	86	3	425	29	24	14	31	1.95
451359--451454	39	2.4	39	84	1	111	22	27	15	34	1.95
453503--453645	72	2.0	72	88	0	214	36	16	23	24	1.94
454701--454735	16	2.2	16	100	0	70	34	11	34	20	1.88
455335--455374	6	5.9	7	83	16	57	55	12	17	15	1.70
461774--461838	3	22.3	3	81	6	80	58	1	1	38	1.17
462565--462681	49	2.4	50	85	9	152	51	10	3	35	1.53
462565--462675	50	2.2	51	84	10	140	51	9	3	35	1.53
474385--474754	117	3.2	117	77	6	295	40	15	17	26	1.89
480240--480269	15	2.0	15	93	0	51	13	0	30	56	1.37
481421--481492	30	2.4	29	95	4	126	43	2	19	34	1.66
481421--481493	15	4.9	15	76	5	76	42	4	19	34	1.70
481822--481894	23	3.1	23	80	5	76	53	0	1	45	1.09
481854--481883	11	2.6	12	89	10	53	56	0	0	43	0.99
481861--481913	20	2.7	20	75	16	56	50	1	0	47	1.12
481869--481974	29	3.6	29	73	15	92	51	1	0	46	1.11
481869--481999	59	2.2	60	80	11	137	50	1	0	47	1.15
481941--482046	54	2.0	53	81	10	126	50	1	0	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482224--482341	42	2.8	42	89	1	184	47	17	16	17	1.83
482937--483026	43	2.1	43	91	2	146	43	3	3	50	1.35
482952--483025	15	5.1	15	68	12	55	44	2	1	51	1.24
484378--484450	29	2.5	29	73	10	76	16	13	2	67	1.35
484566--484608	20	2.2	20	87	8	61	27	6	4	60	1.43
485321--485411	46	2.0	46	82	4	112	42	3	9	43	1.54
486874--486914	17	2.4	17	84	8	57	70	0	0	29	0.87
487257--487425	33	5.2	32	80	8	200	46	0	9	43	1.40
487257--487425	64	2.6	64	87	1	232	46	0	9	43	1.40
487331--487404	31	2.7	26	75	18	76	45	0	12	41	1.41
494086--494482	148	2.7	145	80	8	410	44	7	8	39	1.65
494530--494570	12	3.5	12	83	3	57	68	2	2	26	1.15
494530--494589	11	5.5	11	73	15	54	68	1	3	26	1.15
496254--496313	26	2.3	26	82	0	66	18	18	45	18	1.86
496572--496627	18	3.1	18	79	5	69	69	1	0	28	0.98
503081--503119	15	2.6	15	87	0	51	64	10	12	12	1.51
503201--503284	43	1.9	44	87	2	125	33	25	10	30	1.90
505588--505628	12	3.5	12	83	3	57	68	2	2	26	1.15
505588--505647	11	5.5	11	73	15	54	68	1	3	26	1.15
507284--507338	26	2.1	26	82	0	65	18	18	47	16	1.83
507595--507661	3	23.0	3	73	11	59	68	1	0	29	0.98
507596--507657	18	3.4	18	80	6	72	69	1	0	29	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508021--508342	122	2.8	115	83	10	388	26	18	15	40	1.90
509794--509852	26	2.3	26	85	5	75	20	18	45	15	1.85
514093--514170	30	2.6	30	86	6	97	32	41	1	25	1.64
516995--517042	16	2.9	17	84	9	64	75	0	25	0	0.81
516995--517027	8	4.0	8	96	4	57	72	0	27	0	0.85
517021--517061	18	2.1	21	86	13	61	75	0	19	4	0.98
526819--526944	62	2.0	62	100	0	252	38	15	11	34	1.83
531290--531341	26	2.0	26	88	0	77	38	26	13	21	1.90
532247--532538	145	2.0	147	98	1	570	28	23	10	36	1.89
535425--535685	140	1.9	140	79	6	296	31	14	15	38	1.87
542404--542436	15	2.2	15	94	0	57	54	0	0	45	0.99
543418--543452	17	2.1	17	94	0	61	25	17	11	45	1.81
549091--549138	25	1.9	25	86	0	69	47	18	16	16	1.82
553687--553726	21	1.9	21	90	10	64	57	0	0	42	0.98
553685--553752	25	2.9	24	76	20	56	54	0	2	42	1.15
556835--556860	3	8.7	3	100	0	52	30	0	0	69	0.89
558631--558666	3	12.7	3	88	11	58	66	0	0	33	0.92
577777--578483	219	3.3	215	78	8	674	31	19	18	30	1.96
579421--579477	2	29.5	2	86	13	84	49	1	0	49	1.11
580645--580683	17	2.3	17	95	0	69	17	0	38	43	1.50
580943--580969	12	2.2	12	100	0	54	18	0	0	81	0.69
588944--588977	15	2.3	15	89	0	50	41	0	2	55	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592960--593019	30	2.0	30	86	0	84	28	30	23	18	1.98
593302--593335	18	1.9	18	88	5	52	38	0	2	58	1.13
593376--593430	23	2.4	23	93	3	94	27	0	16	56	1.40
593435--593542	35	3.2	34	90	3	121	44	0	8	47	1.33
596060--596106	18	2.9	17	84	15	64	48	4	4	42	1.42
597537--597631	31	3.1	32	77	6	106	35	21	16	26	1.94
598229--598376	64	2.3	64	84	5	192	28	16	21	33	1.95
601902--601934	15	2.1	16	94	5	59	21	18	48	12	1.80
601975--602073	26	3.9	24	73	19	76	42	1	3	53	1.23
601979--602167	11	15.2	11	68	24	51	42	2	7	48	1.43

Tables:   1   2   3   4