genome.fa.s8312.2.7.7.80.10.50.1000.3.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: VEPZ01008312.1 Hibiscus syriacus cultivar Beakdansim tig00111005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1258310

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 670 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)
395722--396893	183	6.4	183	96	0	2145	36	13	16	33	1.89
399378--399431	23	2.3	23	93	0	90	37	5	16	40	1.72
399863--399899	18	2.1	18	89	0	56	32	5	10	51	1.60
399855--399901	24	2.0	24	86	0	67	34	4	14	46	1.64
400156--400242	39	2.2	39	91	0	147	48	19	13	18	1.81
400663--400735	23	3.2	23	88	0	101	34	4	21	39	1.73
401094--401166	23	3.2	23	88	0	101	34	4	21	39	1.73
400452--401515	431	2.5	432	98	0	2028	40	7	12	38	1.72
403074--403166	32	2.8	33	83	1	116	21	8	26	43	1.81
403165--403644	260	1.9	260	88	1	732	30	11	17	40	1.84
404002--404050	16	2.9	16	90	6	71	28	26	6	38	1.80
404710--404785	21	3.5	22	75	13	95	34	3	7	53	1.48
405447--405487	16	2.6	16	88	3	57	34	21	7	36	1.82
405632--405672	22	1.9	22	95	5	75	24	0	14	60	1.34
405831--405859	13	2.2	13	100	0	58	13	0	6	79	0.93
411419--411476	29	2.0	29	89	0	89	13	36	25	24	1.92
411519--411565	14	3.4	14	84	0	67	23	36	29	10	1.89
411547--411609	33	1.9	33	90	0	99	23	25	38	12	1.90
411599--411629	15	2.1	15	100	0	62	25	22	32	19	1.97
411665--411737	33	2.3	33	90	4	114	8	38	28	24	1.84
411679--411750	33	2.2	33	87	0	99	11	34	31	22	1.89
411764--411791	14	2.0	14	100	0	56	7	28	42	21	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411711--411794	23	3.7	23	71	16	68	10	27	36	25	1.89
416507--416576	35	1.9	37	83	11	92	51	2	1	44	1.25
416941--417000	30	2.0	30	93	0	102	40	3	30	26	1.72
417812--417968	20	7.8	20	73	6	93	38	25	17	19	1.93
417812--417968	41	3.9	41	70	11	126	38	25	17	19	1.93
417935--418144	20	10.5	20	78	6	183	36	25	18	19	1.94
418827--418873	24	2.0	24	87	8	69	25	14	21	38	1.92
419048--419072	12	2.1	12	100	0	50	72	0	28	0	0.86
424368--424420	12	4.3	12	77	13	54	18	3	3	73	1.14
424373--424421	13	3.9	13	77	20	59	20	4	4	71	1.19
430406--430439	13	2.7	13	90	4	52	50	14	0	35	1.44
445669--445787	59	2.0	59	88	0	175	31	8	17	42	1.79
445959--446037	26	2.8	28	84	13	108	43	21	1	34	1.61
445959--446011	17	3.3	17	70	24	60	43	20	1	33	1.63
445947--446042	31	3.3	31	74	14	103	41	19	3	35	1.68
452793--452818	2	13.0	2	100	0	52	50	0	0	50	1.00
453008--453128	51	2.5	48	84	10	147	25	23	22	28	1.99
454572--454656	41	2.1	40	95	2	152	49	2	14	34	1.56
458395--458468	31	2.4	30	80	8	87	51	5	2	40	1.39
459469--459495	3	9.0	3	100	0	54	66	33	0	0	0.92
463340--463411	35	2.0	36	91	2	119	22	16	16	44	1.86
467522--467636	59	1.9	60	86	8	164	37	8	13	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468112--468171	29	2.1	29	96	0	111	30	5	20	45	1.72
468265--468381	59	2.0	60	83	8	150	36	5	24	32	1.80
473567--473651	39	2.2	38	82	4	107	18	21	23	36	1.95
475202--475269	35	1.9	35	85	5	93	36	20	20	22	1.95
476659--476699	21	1.9	21	85	5	55	24	29	24	21	1.99
481465--481512	19	2.5	19	100	0	96	43	10	27	18	1.82
487329--487395	2	33.5	2	100	0	134	49	0	0	50	1.00
487983--488042	2	30.0	2	100	0	120	50	0	0	50	1.00
492064--492144	23	3.5	23	86	1	99	24	14	17	43	1.87
510808--510941	34	3.7	34	81	14	178	34	5	19	40	1.76
510865--510958	42	2.2	42	94	0	161	37	5	19	38	1.74
512934--512973	21	1.9	21	100	0	80	27	15	20	37	1.92
518035--518067	17	1.9	17	93	0	57	33	9	6	51	1.58
518169--518214	19	2.5	19	89	10	69	43	0	0	56	0.99
518174--518214	20	2.1	19	82	17	57	43	0	0	56	0.99
518435--518511	24	3.2	24	66	20	70	37	15	10	36	1.82
518430--518525	48	2.0	48	100	0	192	37	16	10	35	1.83
518444--518519	24	3.2	24	65	20	68	40	17	10	31	1.83
518744--518775	2	16.0	2	100	0	64	50	0	0	50	1.00
519230--519298	2	34.5	2	100	0	138	49	0	0	50	1.00
523555--523590	18	2.0	18	88	0	54	33	16	16	33	1.92
524267--524358	42	2.2	42	80	5	107	32	21	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524470--524570	41	2.4	43	75	6	109	33	19	21	24	1.97
524097--524755	237	2.7	238	87	3	921	35	17	17	30	1.93
526308--526438	28	4.7	28	84	3	138	25	3	29	41	1.70
526328--526439	28	4.0	28	86	0	152	23	3	32	41	1.71
527063--527118	21	2.7	21	81	10	53	5	19	5	69	1.28
527379--527429	2	25.5	2	100	0	102	50	0	0	49	1.00
533432--533797	131	2.8	131	88	1	511	34	10	16	38	1.82
538911--539087	97	1.8	97	95	0	318	42	6	8	42	1.60
542667--542772	24	4.5	24	77	7	117	56	18	14	10	1.66
542948--543013	14	5.1	13	74	20	66	60	18	9	12	1.57
542963--543015	24	2.2	24	89	0	79	60	16	9	13	1.58
542975--542999	10	2.5	10	100	0	50	60	12	12	16	1.60
562192--562223	14	2.4	14	90	10	50	6	37	0	56	1.25
566569--566820	77	3.2	77	83	1	315	36	10	19	33	1.86
566586--566811	77	2.9	76	85	3	317	36	9	19	34	1.85
567206--567249	22	2.0	22	90	0	70	29	13	11	45	1.79
568349--568398	3	16.7	3	100	0	100	66	0	0	34	0.92
571669--571693	2	12.5	2	100	0	50	52	0	0	48	1.00
582757--582803	6	7.8	6	97	0	76	51	12	31	4	1.59
584327--584361	2	17.5	2	100	0	70	51	0	0	48	1.00
584414--584496	25	2.9	29	79	17	102	48	3	4	43	1.41
587543--587604	3	20.7	3	83	6	81	32	4	0	62	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587533--587588	27	2.1	27	100	0	112	28	7	0	64	1.20
587600--587636	11	3.5	11	85	10	51	59	0	0	40	0.97
588051--588090	19	2.0	20	90	9	64	70	10	20	0	1.16
588107--588133	14	1.9	14	100	0	54	81	3	14	0	0.82
589072--589111	12	3.1	13	82	10	55	40	0	0	60	0.97
589768--589817	18	2.8	18	79	8	59	26	0	2	72	0.96
596903--596935	10	3.4	10	87	8	50	24	9	0	66	1.20
596898--596935	19	2.0	19	89	0	58	23	13	0	63	1.30
600454--600534	9	9.8	8	75	20	60	81	0	12	6	0.86
600465--600534	15	4.8	14	75	15	61	81	0	11	7	0.87
601687--601900	86	2.5	84	88	2	302	26	13	22	36	1.92
602552--603225	114	5.9	113	88	3	1003	38	12	18	29	1.88
602576--603226	231	2.9	228	95	2	1164	39	12	19	29	1.88
603544--603599	3	18.7	3	96	0	103	33	1	0	64	1.04
603595--603626	11	2.8	11	95	4	55	56	0	0	43	0.99
604039--604069	16	1.9	16	93	0	53	74	9	16	0	1.07
605060--605099	12	3.1	13	82	10	55	40	0	0	60	0.97
609102--609131	14	2.1	14	93	0	51	50	6	0	43	1.28
609209--609273	14	4.6	14	70	14	53	21	0	26	52	1.47
609213--609277	21	3.1	21	88	0	103	20	0	29	50	1.48
609213--609286	21	3.5	21	86	0	94	18	1	29	50	1.56
610250--610295	22	2.1	22	95	0	83	58	4	13	23	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618580--618622	23	1.9	22	85	4	59	60	0	4	34	1.17
620466--620503	18	2.1	18	100	0	76	10	10	31	47	1.72
623523--623668	34	4.3	34	92	5	251	24	7	17	50	1.72
623523--623668	67	2.2	68	92	5	251	24	7	17	50	1.72
640904--640995	34	2.7	34	78	9	98	11	30	2	55	1.48
642869--642945	32	2.4	32	84	4	93	32	11	20	35	1.89
644184--644232	23	2.1	23	88	7	73	28	2	10	59	1.41
648636--648663	11	2.5	11	100	0	56	92	0	7	0	0.37
649678--649799	40	3.0	40	96	0	226	33	26	16	23	1.96
653589--653677	17	5.2	17	76	14	69	5	20	1	73	1.10

Tables:   1   2   3   4   5   6