genome.fa.s8921.2.7.7.80.10.50.1000.2.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: VEPZ01008921.1 Hibiscus syriacus cultivar Beakdansim tig00112225_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  578760

Tables:   1   2   3   

This is table  2  of  3  ( 244 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)
303948--303981	17	2.0	17	100	0	68	17	5	29	47	1.71
307006--307059	22	2.3	23	81	12	65	35	0	1	62	1.06
312989--313037	24	2.0	24	96	0	89	24	26	8	40	1.83
313416--313447	15	2.1	15	94	0	55	6	25	15	53	1.65
314198--314235	16	2.2	18	86	13	62	44	15	0	39	1.47
316234--316301	28	2.4	28	92	2	109	38	27	16	17	1.91
316411--316462	15	3.6	16	76	23	53	30	21	5	42	1.76
317113--317150	20	1.9	20	94	0	67	21	23	23	31	1.98
320586--320625	21	1.9	21	89	0	62	10	25	40	25	1.86
320607--320669	21	2.9	21	83	4	81	20	25	33	20	1.97
326864--326935	19	3.8	19	98	0	135	22	33	16	27	1.95
328539--328690	60	2.5	60	82	4	191	32	23	5	38	1.77
328586--328684	31	3.3	31	68	21	91	32	25	4	38	1.75
329853--329892	3	13.3	3	83	0	53	0	40	0	60	0.97
329853--329892	12	3.3	12	89	0	62	0	40	0	60	0.97
330474--330499	13	2.0	13	100	0	52	30	0	30	38	1.58
331144--331173	14	2.1	14	100	0	60	40	0	0	60	0.97
334001--334078	40	1.9	39	85	10	104	38	10	21	29	1.87
335029--335107	41	2.0	41	94	2	142	45	6	17	30	1.73
335912--336373	235	2.0	237	95	1	840	40	17	25	16	1.90
339227--339373	60	2.4	59	83	8	172	31	16	17	34	1.92
349397--349526	61	2.2	60	90	4	210	17	27	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358737--359247	255	2.0	255	93	1	864	26	18	17	37	1.92
361740--362035	159	1.9	159	94	0	520	29	28	16	24	1.97
369493--369526	16	2.1	16	94	0	59	32	8	26	32	1.87
370276--370308	15	2.1	16	88	5	50	51	15	24	9	1.72
376369--376452	41	2.1	40	84	6	107	14	9	5	70	1.32
380350--380487	60	2.3	60	82	7	163	31	15	15	36	1.90
381532--381699	54	3.1	54	94	0	300	35	23	15	25	1.94
384261--384377	48	2.4	48	95	2	209	32	18	24	23	1.97
385664--385777	58	2.0	58	94	0	201	41	14	7	35	1.76
386228--386314	28	2.9	32	65	26	80	41	4	21	32	1.74
387900--387938	20	2.0	20	85	10	53	76	5	7	10	1.13
398366--398520	50	3.0	50	89	3	220	20	14	15	49	1.79
401350--401407	29	2.0	29	86	0	80	20	24	24	31	1.98
406052--406087	19	1.9	19	88	5	56	52	0	5	41	1.24
406052--406093	19	2.2	19	83	8	50	54	0	4	40	1.21
415155--415186	16	2.0	16	93	0	55	37	21	12	28	1.90
415241--415295	20	2.9	18	78	10	56	30	14	12	41	1.83
423353--423379	8	3.4	8	100	0	54	59	0	0	40	0.98
423740--423792	23	2.2	24	83	10	63	39	0	1	58	1.09
424088--424134	16	2.9	16	96	0	85	53	0	4	42	1.20
429931--430004	20	3.7	20	94	0	130	25	27	10	36	1.89
433303--433364	16	3.9	16	91	0	106	43	12	12	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433415--433479	23	2.8	23	88	2	85	26	21	18	33	1.96
434755--434915	63	2.6	63	88	2	225	29	20	32	18	1.96
436326--436381	24	2.2	26	78	6	62	41	3	16	39	1.65
440873--440899	13	2.1	13	100	0	54	29	0	0	70	0.88
441929--442069	64	2.2	64	82	6	162	31	17	24	26	1.97
442037--442088	19	2.7	19	88	5	70	25	13	32	28	1.93
441973--442151	83	2.2	83	97	0	349	30	16	25	26	1.97
445917--445961	21	2.1	21	87	0	63	31	28	24	15	1.96
447598--447687	45	2.0	45	93	4	155	18	26	28	25	1.98
447598--447687	23	4.0	23	97	1	157	18	26	28	25	1.98
450822--450866	21	2.1	21	87	0	63	31	28	24	15	1.96
452525--452591	22	3.0	22	95	2	116	19	26	28	25	1.99
454730--454765	18	2.0	18	100	0	72	44	11	16	27	1.82
457386--457430	21	2.1	21	91	0	72	33	11	4	51	1.58
460779--460813	18	1.9	19	88	11	56	48	5	11	34	1.63
462308--462367	31	1.9	32	86	3	86	45	10	3	41	1.54
466824--466854	2	15.5	2	100	0	62	51	0	0	48	1.00
469339--469442	37	2.8	37	89	0	154	42	14	13	29	1.84
470303--470359	9	6.7	9	76	15	50	19	7	0	73	1.05
470305--470390	30	2.9	28	77	17	77	17	9	0	73	1.09
473403--473451	23	2.2	22	88	3	71	79	6	14	0	0.91
473410--473475	22	3.0	21	82	6	69	74	9	15	1	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474101--474170	22	3.2	22	91	0	122	37	24	14	24	1.92
475000--476157	106	11.0	106	90	1	1733	34	24	18	23	1.96
476886--476990	37	2.8	37	83	0	138	40	15	13	30	1.85
477462--477599	20	7.2	19	74	16	88	38	2	1	57	1.19
477524--477589	2	33.5	2	90	3	107	45	0	0	54	0.99
477738--477791	23	2.3	23	83	0	72	18	0	9	72	1.11
477854--477888	2	17.5	2	100	0	70	48	0	0	51	1.00
477892--477967	4	18.2	4	75	22	59	18	3	0	77	0.92
477911--477957	17	2.8	17	96	3	87	12	4	0	82	0.80
477899--477969	12	6.2	11	76	18	65	16	2	0	80	0.83
477899--478001	17	6.2	17	81	13	85	16	5	0	77	0.95
477899--477992	23	4.0	23	77	15	79	17	5	0	77	0.94
483471--483557	42	2.1	42	100	0	174	24	13	21	40	1.90
491008--491117	54	2.0	54	100	0	220	48	24	9	18	1.77
493090--493463	183	2.0	183	89	2	572	22	18	21	37	1.94
497434--497469	2	18.0	2	100	0	72	50	0	0	50	1.00
497827--497869	2	21.5	2	100	0	86	51	0	0	48	1.00
498294--498347	27	2.0	27	92	0	90	24	24	12	38	1.90
509916--509948	15	2.2	15	100	0	66	27	12	39	21	1.88
514694--514765	33	2.2	33	87	4	103	23	8	33	34	1.85
516776--516802	2	13.5	2	100	0	54	48	0	0	51	1.00
517390--517421	2	16.0	2	93	0	55	46	0	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519029--519079	22	2.3	22	100	0	102	27	15	9	47	1.77
520266--520301	18	1.9	19	88	5	56	63	5	25	5	1.38
529947--529972	2	13.0	2	100	0	52	50	0	0	50	1.00
532545--532682	14	10.7	14	63	17	66	59	15	12	13	1.62
532545--532711	38	4.4	38	93	0	271	60	13	11	14	1.59
546278--546328	26	2.0	25	81	11	59	19	15	9	54	1.68
552981--553058	41	1.9	41	86	0	111	39	21	16	21	1.92
552984--553078	20	4.7	20	80	2	91	34	24	17	23	1.96
553266--553309	22	2.0	22	95	0	79	20	45	15	18	1.85
553588--553630	20	2.2	20	95	0	77	9	18	18	53	1.70
554949--554993	18	2.5	18	88	0	72	26	44	15	13	1.83
555469--555535	20	3.4	20	79	2	73	40	22	20	16	1.91
555524--555581	14	3.9	14	77	16	62	48	24	17	10	1.78
555508--555598	32	2.8	33	91	3	148	47	20	18	13	1.82
555599--555718	19	6.3	18	81	8	105	12	20	25	41	1.87
555610--555699	19	4.7	19	90	4	128	12	23	24	40	1.89
555610--555718	39	2.8	38	80	5	130	12	21	24	41	1.88
557561--557596	14	2.6	14	90	0	54	30	0	22	47	1.52
557703--557756	14	3.5	14	77	22	63	48	20	20	11	1.80
557684--557761	33	2.4	33	91	0	120	42	21	23	12	1.87
557780--557837	20	2.9	20	97	0	107	15	22	24	37	1.93
558887--558940	24	2.2	24	90	0	81	24	16	20	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559115--559139	12	2.1	12	100	0	50	72	0	28	0	0.86
561415--561507	33	2.8	33	96	1	170	43	19	24	12	1.86
561415--561512	19	5.8	18	70	22	86	42	19	24	13	1.87
561511--561582	19	4.1	18	73	20	71	13	20	19	45	1.84
561689--561725	14	2.6	14	91	0	65	45	24	0	29	1.53
563068--563190	42	2.9	42	80	9	117	22	17	36	23	1.94
565186--565278	33	2.9	33	84	4	111	41	23	22	11	1.87
565837--565889	20	2.7	20	93	0	88	26	20	28	24	1.99
565898--565951	20	2.7	20	97	0	99	25	18	24	31	1.97
565838--565954	61	1.9	61	85	0	162	23	17	24	33	1.97

Tables:   1   2   3