genome.fa.s9586.2.7.7.80.10.50.1000.3.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: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3773412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  3  of  19  ( 2170 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)
328091--328187	48	2.0	48	97	0	185	15	22	12	49	1.78
330184--330209	2	13.0	2	100	0	52	50	0	0	50	1.00
331455--331549	6	15.2	6	76	16	86	17	3	3	75	1.06
331941--331969	10	2.7	11	89	10	51	82	0	17	0	0.66
332839--332873	13	2.7	13	90	0	52	80	0	17	2	0.84
334367--334407	16	2.7	15	85	7	55	58	24	0	17	1.38
336078--336117	21	1.9	21	89	0	62	10	25	40	25	1.86
336098--336160	20	2.9	21	79	9	65	15	25	34	23	1.95
339925--339964	21	1.9	21	85	10	55	35	10	2	52	1.48
345861--345979	60	2.0	60	100	0	238	31	26	14	26	1.95
349698--349746	13	3.5	13	88	8	62	59	2	0	38	1.09
350286--350340	27	2.0	27	82	7	65	16	3	27	52	1.60
351187--351234	23	2.1	23	88	0	69	35	12	18	33	1.89
351718--351776	23	2.6	23	88	0	82	40	16	5	37	1.71
351308--353073	481	3.7	481	96	1	3290	40	10	7	41	1.68
352190--352257	23	2.9	23	88	2	91	41	22	2	33	1.69
352275--352319	22	2.1	22	87	4	65	40	11	6	42	1.67
352670--352725	23	2.4	23	84	0	85	37	19	5	37	1.75
353073--353137	25	2.6	25	97	0	121	36	12	10	40	1.78
355440--355511	3	24.0	3	73	0	63	25	31	6	36	1.82
355447--355528	36	2.3	36	89	0	119	21	31	8	37	1.84
355441--355528	12	7.3	12	82	0	86	22	31	7	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355465--355528	18	3.6	18	70	8	58	20	31	9	39	1.84
357002--358534	200	7.8	200	93	3	2571	31	17	14	36	1.90
358653--358700	19	2.6	19	93	3	80	54	10	2	33	1.46
359280--359316	4	9.2	4	100	0	74	48	27	0	24	1.51
360507--360570	32	2.0	32	84	6	85	23	46	0	29	1.52
362918--362974	20	2.9	20	80	12	64	21	15	8	54	1.68
363100--363146	20	2.3	20	89	10	78	17	19	8	55	1.67
362888--363359	183	2.6	181	86	5	625	26	18	13	42	1.87
372821--372884	31	2.1	31	100	0	128	35	29	9	25	1.87
376885--376915	16	1.9	16	93	0	53	48	19	12	19	1.81
377474--377509	18	2.0	18	94	0	63	30	33	0	36	1.58
383639--384113	182	2.6	181	85	2	605	41	13	15	29	1.85
385872--386296	201	2.1	201	88	2	631	36	13	15	34	1.87
389094--389545	250	1.8	250	85	3	642	36	14	16	31	1.89
392169--392898	198	3.6	197	81	8	746	40	14	15	30	1.87
392969--393018	23	2.2	23	92	0	82	34	24	6	36	1.80
394142--394176	17	2.1	17	88	0	52	65	11	0	22	1.24
395162--395243	43	1.9	43	82	5	103	19	23	23	34	1.97
398223--398263	20	2.0	21	85	4	57	39	0	2	58	1.11
398958--398998	19	2.3	19	87	8	59	41	2	0	56	1.13
399395--399496	50	2.0	50	100	0	204	25	1	15	56	1.50
400073--400176	30	3.5	30	97	0	190	18	41	23	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402962--403010	20	2.5	20	86	0	71	34	20	16	28	1.94
404242--404275	16	2.2	16	89	5	52	52	0	11	35	1.38
405076--405146	35	2.0	36	94	2	126	16	30	30	21	1.95
405406--405474	27	2.7	25	78	12	68	46	2	17	33	1.63
405440--405477	20	1.9	20	84	10	51	42	2	18	36	1.64
409620--409656	18	2.0	19	94	5	67	24	21	32	21	1.98
417115--417140	4	6.5	4	100	0	52	26	0	23	50	1.50
417318--417413	31	3.1	30	71	12	79	27	19	20	32	1.97
417396--417588	30	6.4	30	97	0	359	23	19	23	32	1.98
421478--421670	30	6.4	30	97	0	359	23	19	23	32	1.98
426768--426836	34	2.0	35	97	2	131	17	30	31	20	1.95
427244--427285	20	2.0	20	86	9	57	50	4	14	30	1.63
452327--452625	160	1.8	163	91	5	498	13	17	21	47	1.82
453948--454044	44	2.2	44	80	8	101	68	5	1	25	1.17
453957--454037	26	3.1	25	75	16	67	66	6	1	25	1.22
453973--454058	45	1.9	44	83	2	109	66	4	1	27	1.19
463595--463624	3	10.0	3	92	0	51	66	0	30	3	1.07
467855--468426	285	2.0	285	99	0	1135	31	15	16	36	1.90
490402--490435	17	2.1	16	88	5	50	14	8	0	76	1.01
491157--491182	13	2.0	13	100	0	52	38	23	7	30	1.83
491152--491192	22	1.9	21	95	5	73	36	21	7	34	1.82
500655--500688	17	2.1	16	88	5	50	14	8	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504421--504464	21	2.1	21	95	0	79	27	20	25	27	1.99
510637--510666	12	2.5	12	100	0	60	50	0	26	23	1.50
524918--524989	30	2.4	31	77	9	78	51	8	1	38	1.41
527637--527692	26	2.2	26	100	0	112	33	10	12	42	1.77
528308--528338	14	2.2	14	100	0	62	19	12	32	35	1.90
531330--531358	3	9.7	3	100	0	58	31	0	0	68	0.89
531934--532032	47	2.1	47	81	3	110	30	14	24	31	1.94
538767--538845	42	1.9	41	84	2	104	24	21	21	32	1.98
538981--539204	42	5.1	42	70	13	164	29	18	20	31	1.96
538989--539258	135	2.0	135	94	0	477	31	18	20	29	1.96
539167--539379	80	2.7	80	96	0	390	29	18	21	30	1.97
539333--539419	42	2.1	41	87	4	122	26	17	22	33	1.96
539789--540088	50	5.8	52	88	5	380	30	21	26	22	1.98
539789--540032	102	2.4	103	89	6	372	30	21	27	20	1.98
541363--541391	13	2.2	13	100	0	58	17	0	17	65	1.27
541718--541842	3	41.0	3	96	3	232	34	0	0	65	0.93
541718--541867	21	6.8	22	93	4	218	35	0	1	62	1.08
542553--542588	15	2.4	15	100	0	72	33	8	19	38	1.82
543115--543229	52	2.2	52	89	7	180	29	11	16	42	1.83
543131--543272	52	2.7	52	81	10	155	30	9	14	45	1.77
544384--544449	2	33.0	2	100	0	132	50	0	0	50	1.00
544611--544673	30	2.1	30	90	0	99	31	7	12	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545007--545040	16	2.1	16	94	0	59	41	2	0	55	1.15
545046--545096	26	1.9	26	84	4	66	37	13	13	35	1.85
545193--545370	91	1.9	93	91	2	297	40	16	7	35	1.77
545402--545585	91	2.0	93	83	7	234	40	16	7	35	1.76
546592--546636	21	2.1	21	91	0	72	53	0	4	42	1.21
547468--547504	20	1.9	19	89	10	58	45	10	24	18	1.81
551962--552004	21	2.0	21	86	8	61	44	18	34	2	1.63
562375--562435	21	2.9	21	92	0	95	47	1	19	31	1.59
563051--563109	31	1.9	31	100	0	118	37	13	20	28	1.91
566008--566059	19	2.7	19	96	0	95	32	17	28	21	1.96
566327--567557	615	2.0	615	98	0	2354	34	6	22	36	1.81
572879--572918	3	13.3	3	100	0	80	67	0	0	32	0.91
578768--578956	56	3.4	56	84	0	261	39	15	15	29	1.88
582926--582970	16	2.8	16	89	0	72	60	22	11	6	1.54
583890--583937	10	4.4	10	78	19	51	54	25	12	8	1.65
583877--583938	24	2.6	24	94	0	106	54	22	12	9	1.67
583877--583927	14	3.9	14	73	19	56	56	21	11	9	1.63
583897--583938	14	3.3	14	75	25	56	52	26	14	7	1.67
588147--588198	25	2.1	24	82	3	59	50	0	1	48	1.12
589868--589921	23	2.3	23	96	0	99	24	38	14	22	1.91
590362--590735	186	2.0	187	97	2	709	25	17	13	42	1.86
592891--592935	21	2.1	21	87	0	63	37	17	20	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592913--593020	30	3.5	30	84	12	123	36	19	20	24	1.95
593159--593222	21	3.0	21	66	20	51	28	21	7	42	1.81
598674--598745	31	2.3	31	83	4	83	29	18	23	29	1.97
600416--600504	21	4.2	21	81	4	108	29	33	25	11	1.91
603226--603368	20	7.2	20	83	6	182	23	36	25	14	1.93
603226--603368	40	3.6	39	88	2	205	23	36	25	14	1.93
607982--608030	2	25.0	2	95	4	91	51	0	0	48	1.00
608635--608670	17	2.1	17	90	10	56	2	19	0	77	0.88
609262--609318	28	2.0	28	93	0	96	26	21	10	42	1.85
610644--610696	14	4.1	14	81	18	78	7	15	26	50	1.70

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19