genome.fa.s6023.2.7.7.80.10.50.1000.4.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: VEPZ01006023.1 Hibiscus syriacus cultivar Beakdansim tig00014213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1315283

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 899 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)
535952--536196	20	12.9	20	77	10	226	24	17	22	35	1.95
535908--536094	74	2.5	74	85	1	241	24	19	20	35	1.96
535952--536196	94	2.6	94	88	0	355	24	17	22	35	1.95
536046--536184	74	1.9	74	93	0	242	21	16	24	37	1.93
539478--539625	20	7.3	20	80	8	183	24	20	27	28	1.99
539491--539605	41	2.8	41	97	0	212	23	20	26	29	1.99
539511--539585	21	3.6	21	75	10	82	22	21	24	32	1.98
539478--539625	61	2.4	61	85	6	185	24	20	27	28	1.99
539477--539665	61	3.1	61	74	11	154	26	20	23	29	1.99
539640--539686	21	2.2	21	84	0	58	36	17	17	29	1.92
539457--539706	102	2.5	102	75	7	249	28	18	23	30	1.98
543981--544022	17	2.5	17	85	11	59	21	4	2	71	1.16
544292--544490	67	3.0	67	98	0	380	32	10	14	42	1.80
545455--545803	60	5.8	60	86	3	488	39	13	30	16	1.86
545456--545819	120	3.0	120	92	0	577	39	13	29	16	1.87
547730--547756	2	13.5	2	100	0	54	48	0	0	51	1.00
548366--548418	21	2.5	21	81	6	72	20	26	18	33	1.96
548408--548459	21	2.5	21	87	3	70	38	17	23	21	1.93
548448--548521	20	3.7	20	72	3	58	32	25	17	24	1.97
548761--548830	34	2.1	32	86	5	95	22	30	15	31	1.95
549113--549154	21	2.0	21	90	0	66	26	26	21	26	1.99
549260--549326	19	3.5	19	85	4	82	34	13	11	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549382--549441	29	2.0	31	90	6	97	41	16	6	35	1.75
552239--552307	33	2.1	31	84	7	84	23	30	14	31	1.94
552591--552632	21	2.0	21	95	0	75	26	28	21	23	1.99
552857--552916	29	2.0	31	90	6	97	41	16	6	35	1.75
552950--552988	20	2.0	20	94	0	69	20	28	17	33	1.96
553358--553431	20	3.7	20	94	0	130	39	25	21	13	1.90
553438--553521	19	4.7	19	87	10	115	15	19	17	47	1.83
555539--555611	20	3.7	20	90	0	74	34	27	16	21	1.95
555545--555630	40	2.2	40	85	4	111	34	26	20	17	1.95
555565--555651	20	4.4	20	88	1	122	36	24	24	14	1.93
555640--555698	14	3.9	14	74	20	55	47	23	18	10	1.79
555624--555715	33	2.8	33	96	0	166	46	21	19	11	1.82
555727--555806	33	2.4	33	95	0	142	13	20	20	46	1.84
555748--555806	19	3.4	19	71	22	65	15	18	18	47	1.83
555734--555790	14	3.7	14	72	20	51	10	17	22	49	1.77
555791--555834	20	2.2	20	84	4	54	20	25	18	36	1.95
555800--555845	20	2.3	20	88	0	65	15	21	26	36	1.93
556386--556433	18	2.7	18	90	0	78	16	12	43	27	1.84
558074--558117	22	2.0	22	90	0	70	18	13	45	22	1.84
558284--558421	41	3.4	41	79	9	156	24	17	23	34	1.96
558304--558417	20	5.7	20	77	10	115	25	18	24	31	1.97
558344--558439	41	2.3	41	83	3	113	20	20	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558407--558458	20	2.5	21	87	3	70	19	25	17	38	1.93
558448--558500	21	2.5	22	78	6	65	35	18	24	20	1.95
558829--558890	27	2.3	27	80	0	70	25	11	20	41	1.86
559698--559742	16	2.9	16	87	6	58	33	0	26	40	1.57
559852--559975	62	2.0	62	93	0	212	48	12	7	31	1.69
562613--562669	27	2.1	27	83	3	69	8	21	0	70	1.14
568184--568222	19	2.1	19	100	0	78	28	41	5	25	1.77
569038--569063	3	8.7	3	100	0	52	0	30	0	69	0.89
570736--570806	2	36.5	2	84	10	94	47	1	1	49	1.18
573349--573392	2	23.0	2	90	9	74	50	0	0	50	1.00
573389--573430	21	1.9	21	85	9	57	42	2	4	50	1.36
573619--573662	22	2.0	22	86	4	63	59	2	0	38	1.10
575699--576969	237	5.4	236	95	1	2136	26	18	15	39	1.91
576760--576989	113	2.0	113	88	1	345	26	18	16	38	1.91
577342--577400	22	2.7	22	84	7	68	35	15	10	38	1.81
577772--577922	54	2.8	54	90	2	214	28	18	15	37	1.91
583172--583228	19	3.0	19	92	0	96	54	14	29	1	1.50
584757--584797	6	6.0	7	78	16	50	58	12	14	14	1.63
586343--586410	28	2.6	27	82	13	79	60	0	5	33	1.21
586353--586410	28	2.2	26	87	6	80	62	0	5	32	1.18
587145--587188	22	2.0	22	86	4	63	59	2	0	38	1.10
587294--587354	19	3.2	19	73	11	52	68	3	4	22	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592223--592298	31	2.4	31	80	2	89	26	31	27	14	1.95
592176--592298	63	2.0	63	80	6	142	25	28	28	17	1.98
593718--593999	141	2.0	141	100	0	564	26	21	9	41	1.84
594207--594239	16	2.1	16	100	0	66	36	18	6	39	1.75
595631--595722	20	4.6	19	76	12	87	38	22	10	28	1.88
595878--595914	16	2.4	16	86	8	51	29	5	0	64	1.15
598980--599015	18	2.0	18	94	0	63	55	22	2	19	1.56
599251--599364	49	2.3	49	84	0	138	30	21	17	30	1.96
599473--599522	25	2.0	25	92	0	82	28	8	20	44	1.79
599483--599523	11	3.2	13	74	19	50	26	7	21	43	1.79
599890--599953	24	2.7	23	78	4	65	37	4	10	46	1.60
600896--600931	18	2.0	18	88	0	54	55	22	2	19	1.56
601411--601568	64	2.5	64	94	3	273	50	16	1	31	1.56
602909--603026	21	5.7	20	76	7	101	22	18	34	23	1.96
602909--603029	42	2.9	41	83	4	161	23	19	33	23	1.97
603356--603476	63	1.9	63	81	6	147	30	37	13	19	1.89
605139--605272	20	6.8	20	87	0	162	47	19	17	14	1.82
605638--605686	22	2.3	21	80	16	57	28	14	36	20	1.92
605806--605843	20	2.0	20	84	5	51	44	13	15	26	1.83
605869--605915	20	2.3	20	96	0	85	21	19	23	36	1.95
607988--608084	41	2.6	36	79	17	115	40	18	4	37	1.70
609146--609209	26	2.4	25	80	15	67	34	0	4	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610420--610522	50	2.1	50	100	0	206	50	7	9	32	1.64
610553--610591	17	2.2	18	90	4	62	38	2	0	58	1.12
612107--612131	11	2.3	11	100	0	50	36	0	0	64	0.94
612955--613334	187	2.0	187	89	3	577	35	11	15	37	1.83
613441--613498	29	2.0	29	96	0	107	18	13	10	56	1.65
613842--613887	22	2.2	20	85	14	58	34	2	0	63	1.07
613808--613877	26	2.7	26	82	4	79	35	5	0	58	1.22
614081--614270	28	6.7	29	74	16	125	51	1	3	44	1.26
614106--614239	28	4.8	28	78	11	139	50	0	0	47	1.11
617437--617481	2	22.5	2	100	0	90	51	0	0	48	1.00
624322--624390	29	2.4	29	82	4	77	34	15	5	43	1.71
629255--629410	43	3.6	44	83	1	163	20	22	23	33	1.97
629255--629442	87	2.1	87	80	2	198	20	22	23	34	1.97
631582--631866	43	6.6	43	90	0	417	18	22	25	33	1.97
632897--632943	18	2.6	18	86	6	60	25	23	8	42	1.82
644792--644826	2	17.5	2	100	0	70	48	0	0	51	1.00
645054--645098	13	3.4	14	85	11	51	77	0	11	11	0.99
645079--645165	5	17.8	5	71	19	51	75	2	19	2	1.01
645064--645127	27	2.4	27	86	5	85	78	1	15	4	1.00
645064--645165	11	10.4	10	69	24	58	76	1	17	3	1.03
645079--645140	27	2.3	27	88	0	88	75	1	20	1	0.97
645091--645174	29	2.9	29	76	13	75	72	4	17	4	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
647116--647380	54	4.8	54	73	11	173	27	10	18	42	1.84
648868--649130	88	3.0	88	78	6	228	38	16	20	24	1.92
654386--654438	27	2.0	26	85	10	72	30	26	16	26	1.97
656128--656160	18	1.9	17	88	11	50	42	3	0	54	1.15
658049--658096	10	5.0	10	92	7	82	29	20	31	18	1.97
658049--658096	19	2.5	19	96	0	87	29	20	31	18	1.97
660710--660752	18	2.4	18	96	0	77	32	6	25	34	1.83
662811--662849	12	3.2	12	81	0	51	56	12	0	30	1.37
665164--665245	32	2.6	31	81	11	87	39	9	17	34	1.82
665422--665489	32	2.1	32	91	5	111	32	25	13	29	1.93

Tables:   1   2   3   4   5   6   7   8