genome.fa.s8575.2.7.7.80.10.50.1000.2.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: VEPZ01008575.1 Hibiscus syriacus cultivar Beakdansim tig00111504_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  896659

Tables:   1   2   3   4   

This is table  2  of  4  ( 369 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)
253989--254045	24	2.4	24	93	0	96	26	10	42	21	1.85
253968--254046	18	4.1	18	74	17	68	31	8	36	22	1.85
258644--258677	3	11.0	3	93	6	59	32	0	64	2	1.08
263558--263624	3	22.3	3	100	0	134	32	0	0	67	0.91
265108--265314	102	2.0	104	94	1	364	36	9	17	37	1.82
276459--276493	16	2.2	16	94	0	61	34	22	28	14	1.93
276738--276772	2	18.0	2	94	5	63	51	0	0	48	1.00
301188--301218	2	15.5	2	100	0	62	51	0	0	48	1.00
319906--319980	30	2.5	30	91	0	123	36	18	32	13	1.90
325284--325318	17	2.1	17	100	0	70	22	5	31	40	1.78
342445--342619	60	2.9	59	86	3	217	32	12	16	38	1.86
346522--346630	21	4.2	26	72	23	61	53	0	0	44	1.13
346567--346638	25	2.8	25	83	6	74	54	0	2	43	1.15
346567--346652	27	3.3	25	80	11	75	55	0	2	41	1.12
347075--347130	27	2.1	27	89	0	85	50	3	10	35	1.55
349204--349238	7	5.0	7	100	0	70	28	0	57	14	1.38
349573--349636	17	4.1	17	67	29	52	59	1	1	37	1.16
362405--362442	20	1.9	20	94	0	67	44	10	23	21	1.83
362405--362448	20	2.3	19	88	7	63	45	9	25	20	1.80
372749--372800	20	2.6	20	78	0	59	59	7	30	1	1.36
376405--376486	28	2.7	31	72	12	82	47	6	14	31	1.69
376950--376995	23	2.0	22	84	12	58	63	2	2	32	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387559--387602	18	2.4	18	92	0	70	40	25	9	25	1.84
400796--400830	16	2.2	16	90	5	54	45	14	8	31	1.75
400796--400838	16	2.7	15	82	7	50	44	11	6	37	1.68
401351--401397	20	2.3	20	92	0	76	36	31	12	19	1.89
402456--402512	30	2.0	26	87	12	78	47	0	0	52	1.00
402467--402515	24	2.0	24	84	7	64	44	0	0	55	0.99
403347--403425	32	2.5	32	85	2	106	26	17	5	50	1.67
404662--404701	21	1.9	21	84	0	53	40	17	5	37	1.72
406755--406882	42	3.0	42	86	3	148	37	24	19	18	1.94
406860--406904	22	2.0	22	95	0	81	35	28	11	24	1.90
406818--406946	64	2.0	64	84	0	168	35	24	17	21	1.95
406774--406989	106	2.0	109	86	3	303	36	25	17	20	1.95
406879--407002	42	2.9	42	84	4	169	38	24	17	19	1.93
407922--408052	28	4.6	29	89	5	205	44	22	3	30	1.68
412720--412753	17	2.0	17	94	0	59	50	0	0	50	1.00
422987--423030	22	2.0	22	100	0	88	50	13	0	36	1.42
423745--423950	45	4.4	45	77	11	191	40	30	16	12	1.86
423822--423965	48	3.1	48	72	13	163	38	32	15	13	1.87
423784--424248	93	4.8	98	84	8	519	39	33	15	11	1.84
423880--424263	102	3.9	103	84	9	496	38	33	16	11	1.85
424077--424228	48	3.4	44	71	15	123	42	33	13	10	1.78
431056--431440	45	8.2	45	74	13	278	40	32	15	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431189--431476	93	2.9	101	83	10	398	40	33	14	11	1.82
431312--431665	48	7.1	47	72	14	145	38	32	15	13	1.87
431100--431476	195	2.0	191	87	4	551	40	32	14	11	1.83
431439--431534	30	3.3	29	69	19	83	40	35	13	10	1.79
431410--431553	57	2.5	57	87	3	211	40	35	12	11	1.80
431583--431662	27	3.2	27	62	20	64	32	27	21	18	1.97
432533--432568	2	18.0	2	100	0	72	50	0	0	50	1.00
445087--445146	31	1.9	31	86	6	86	46	8	8	36	1.64
445186--445362	59	3.0	59	75	9	155	30	20	6	41	1.78
448306--448655	6	59.0	6	97	2	672	50	16	0	33	1.46
456286--456316	16	1.9	16	93	0	53	29	25	6	38	1.81
456569--456651	41	2.0	41	100	0	166	40	14	19	25	1.89
459001--459072	36	2.0	36	84	7	94	50	4	0	45	1.21
459090--459118	14	2.1	14	100	0	58	44	0	0	55	0.99
460212--460252	22	1.9	22	85	5	57	36	2	2	58	1.24
469944--470024	31	2.6	31	92	3	128	43	3	19	33	1.69
483088--483119	12	2.6	12	95	5	55	18	40	21	18	1.91
483178--483217	2	20.5	2	84	5	55	52	0	0	47	1.00
483376--483421	22	2.1	22	100	0	92	15	50	17	17	1.79
484213--484239	2	13.5	2	100	0	54	48	0	0	51	1.00
488211--488243	10	3.5	10	92	8	52	57	33	0	9	1.30
495496--495941	227	2.0	226	93	2	770	45	8	7	39	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496008--496052	20	2.3	19	88	11	72	55	11	15	17	1.68
496174--496220	20	2.4	19	89	10	76	55	10	17	17	1.69
496178--496225	20	2.6	18	84	15	62	56	10	14	18	1.66
498450--498514	21	3.1	21	80	6	69	40	15	29	15	1.88
498548--498613	33	2.0	33	90	0	105	28	0	48	22	1.51
500398--500446	19	2.6	19	93	0	80	30	2	10	57	1.43
500562--501928	198	6.9	199	97	1	2575	36	15	16	31	1.90
500562--501928	397	3.4	398	97	1	2575	36	15	16	31	1.90
503383--503450	21	3.4	18	69	21	55	36	8	35	19	1.83
503383--503480	6	16.3	6	80	0	70	36	7	34	21	1.81
503398--503484	3	29.0	3	77	0	84	35	5	34	24	1.79
503386--503476	42	2.2	42	91	0	146	35	7	35	21	1.83
503383--503480	18	5.4	18	78	0	88	36	7	34	21	1.81
504598--504636	20	2.0	20	89	0	60	28	12	7	51	1.67
504889--504932	22	2.1	21	83	8	54	38	9	11	40	1.73
504939--505280	182	1.9	184	90	1	553	35	13	16	33	1.88
507745--507809	25	2.6	25	97	0	121	40	10	12	36	1.78
508095--508158	23	2.8	23	82	0	83	37	6	18	37	1.76
508095--508167	23	3.2	23	78	7	76	35	5	19	39	1.75
508436--508486	25	2.0	25	92	0	84	33	7	19	39	1.81
508781--508817	18	2.1	18	89	0	56	32	5	10	51	1.60
508773--508819	24	2.0	24	86	0	67	34	4	14	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509075--509161	39	2.2	39	95	0	156	48	20	13	17	1.81
509559--509622	23	2.8	23	87	0	92	35	6	20	37	1.78
509559--509631	23	3.2	23	82	7	85	34	5	20	39	1.76
513908--514064	31	5.0	31	76	10	133	33	19	17	29	1.94
513946--514066	63	1.9	63	94	0	215	33	18	17	31	1.94
515625--515685	27	2.3	27	94	0	104	27	18	6	47	1.73
516942--516979	12	3.3	12	82	10	53	47	13	0	39	1.42
518202--518298	32	3.1	32	74	14	110	31	19	16	31	1.94
518139--518300	63	2.6	61	85	6	209	33	19	16	31	1.93
518141--518290	31	4.8	31	72	9	126	33	18	17	30	1.94
522537--522832	63	4.7	63	91	3	456	43	12	26	17	1.84
527703--527761	28	2.1	28	83	0	73	37	8	11	42	1.72
528130--528158	12	2.4	12	100	0	58	55	0	0	44	0.99
533093--533155	2	31.5	2	100	0	126	50	0	0	49	1.00
535511--535600	40	2.2	40	88	0	135	24	13	10	52	1.71
536474--536521	20	2.5	20	83	12	64	54	2	2	41	1.24
536465--536521	9	5.9	10	76	17	50	52	1	1	43	1.21
537120--537149	9	3.3	9	100	0	60	26	0	0	73	0.84
545560--545603	19	2.4	18	80	3	52	22	0	27	50	1.50
546138--546224	30	2.9	30	75	13	72	28	17	17	36	1.92
546206--546267	22	2.7	23	78	9	65	27	16	22	33	1.95
550105--550148	19	2.4	18	84	3	61	22	0	25	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551858--551882	2	12.5	2	100	0	50	48	0	0	52	1.00
552509--552564	29	1.9	29	85	7	78	28	19	17	33	1.95
553732--553810	38	2.1	38	100	0	158	41	12	15	30	1.84
559773--567437	2	3886.0	2	70	6	2990	0	15	49	34	1.49
559776--567437	12	646.9	12	81	10	6738	0	15	49	34	1.49
559776--567437	18	431.3	18	80	10	6738	0	15	49	34	1.49
560766--560809	9	5.0	9	91	5	72	0	0	47	52	1.00
571920--572028	29	3.8	29	97	0	200	21	32	30	16	1.95
572642--572682	21	2.0	21	90	0	64	29	0	17	53	1.44
572659--572720	28	2.2	29	88	8	92	30	0	11	58	1.33

Tables:   1   2   3   4