genome.fa.s8674.2.7.7.80.10.50.1000.3.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: VEPZ01008674.1 Hibiscus syriacus cultivar Beakdansim tig00111689_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  899125

Tables:   1   2   3   4   

This is table  3  of  4  ( 396 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)
540281--540319	21	1.9	21	89	5	62	71	0	5	23	1.05
540280--540324	20	2.2	20	80	7	56	68	0	4	26	1.08
542150--542217	29	2.3	30	80	14	72	47	0	0	52	1.00
542178--542282	29	3.7	29	70	15	76	50	0	0	48	1.07
542312--542371	21	2.7	23	82	12	63	50	0	1	48	1.11
542332--542406	7	10.9	7	71	17	59	50	0	0	49	1.00
542336--542406	21	3.5	20	74	12	65	50	0	0	49	1.00
542304--542419	23	4.9	23	68	13	74	51	0	0	47	1.06
542519--542569	26	1.9	27	84	11	70	54	0	0	45	0.99
542522--542600	24	3.3	23	70	19	65	48	0	2	49	1.14
559379--559435	23	2.5	23	97	0	105	45	19	21	14	1.85
560354--560392	14	2.8	14	96	0	69	30	5	38	25	1.78
564038--564133	35	2.7	35	91	0	138	31	1	26	41	1.62
564748--564782	17	2.0	18	94	5	63	22	25	11	40	1.88
565526--565708	96	1.9	96	85	2	251	40	9	8	41	1.68
572704--572728	12	2.1	12	100	0	50	16	0	8	76	1.02
572638--572741	23	4.8	20	73	23	61	18	6	5	69	1.31
572759--572794	2	18.5	2	88	5	56	47	0	2	50	1.15
572859--572897	2	19.5	2	100	0	78	48	0	0	51	1.00
572935--572972	14	2.7	14	84	12	51	28	2	0	68	1.03
572921--572988	31	2.1	33	83	5	86	27	2	0	69	1.03
577209--577672	235	2.0	228	95	4	833	31	23	23	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584088--584653	105	5.4	105	94	1	964	33	24	18	23	1.97
585159--585229	2	36.0	2	97	2	135	49	0	0	50	1.00
586408--586432	12	2.1	12	100	0	50	16	0	8	76	1.02
586341--586445	23	4.8	20	73	23	63	18	6	5	69	1.31
586465--586503	2	19.5	2	83	0	51	43	0	5	51	1.24
586571--586650	2	40.0	2	100	0	160	50	0	0	50	1.00
586690--586727	14	2.7	14	84	12	51	28	2	0	68	1.03
589229--589272	18	2.4	19	85	11	56	52	0	2	45	1.13
595346--595428	35	2.4	35	88	4	116	53	2	0	44	1.13
595408--595437	15	1.9	16	93	6	53	60	0	0	40	0.97
598902--599008	34	3.1	34	86	0	151	37	3	3	55	1.36
599530--599617	21	4.2	21	85	5	124	25	26	30	18	1.98
599627--599674	21	2.3	21	88	0	69	20	12	41	25	1.87
601397--601485	32	2.6	33	79	10	92	58	2	0	39	1.11
601425--601491	20	3.7	19	73	18	54	59	2	0	37	1.13
601397--601476	35	2.3	35	81	12	96	60	1	0	38	1.05
601429--601506	34	2.3	35	82	10	92	62	5	0	32	1.17
614355--614419	26	2.4	26	82	5	67	41	10	3	44	1.55
615850--615884	15	2.4	14	86	13	52	31	20	0	48	1.50
617224--617261	17	2.2	18	90	9	62	36	2	0	60	1.11
617232--617271	15	2.6	16	84	15	57	47	2	0	50	1.14
617443--617493	22	2.3	22	76	6	59	33	0	25	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624820--624889	35	2.0	36	88	8	108	55	2	0	41	1.14
624966--625014	10	4.5	11	77	22	50	48	0	4	46	1.20
624965--625049	24	3.5	25	90	1	120	45	0	3	50	1.18
624976--625019	14	3.4	14	76	23	60	47	0	4	47	1.22
625147--625171	7	3.6	7	100	0	50	64	12	12	12	1.51
632114--632149	13	2.8	13	95	0	63	25	13	30	30	1.94
638253--638284	16	2.0	16	100	0	64	56	12	12	18	1.67
638942--639209	131	2.0	131	97	2	520	41	15	15	27	1.88
642095--642119	2	12.5	2	100	0	50	48	0	0	52	1.00
643016--643055	18	2.3	18	87	8	57	30	30	5	35	1.79
644887--644912	2	13.0	2	100	0	52	50	0	0	50	1.00
660300--660365	27	2.4	27	89	0	96	39	13	16	30	1.87
667333--667878	219	2.5	219	92	0	894	18	23	23	34	1.96
667333--667878	44	12.4	44	89	0	790	18	23	23	34	1.96
667326--667959	88	7.2	87	85	3	571	17	22	23	35	1.95
667851--667959	43	2.5	43	85	5	139	18	16	24	40	1.90
667326--667951	131	4.8	129	85	4	490	17	22	23	35	1.95
675042--675104	27	2.3	27	91	0	99	39	11	12	36	1.79
678301--678351	18	2.9	18	85	2	59	37	7	25	29	1.84
678713--679334	256	2.4	258	90	4	968	40	20	12	26	1.88
698000--698032	2	16.5	2	93	0	57	51	0	0	48	1.00
705588--705644	30	1.9	30	85	7	80	45	1	5	47	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706635--706904	142	1.9	142	95	2	488	29	17	17	36	1.92
722664--722932	45	6.0	45	88	1	378	29	28	18	23	1.98
733933--734007	31	2.5	31	84	6	91	18	9	22	49	1.76
733953--734015	31	2.1	30	87	3	90	20	7	17	53	1.68
734087--734225	71	1.9	72	87	9	205	28	7	8	54	1.59
734132--734192	29	2.1	29	87	0	86	26	6	11	55	1.59
734161--734242	42	2.0	42	82	4	103	35	8	6	50	1.58
741254--741310	20	2.9	19	85	10	80	49	10	19	21	1.78
742114--742163	25	2.0	25	88	3	75	38	10	2	50	1.48
743516--743575	27	2.2	27	93	0	102	38	16	16	28	1.91
743629--743682	15	3.5	15	84	2	63	33	22	7	37	1.82
744116--744151	17	2.0	19	89	10	58	52	0	0	47	1.00
745918--745953	18	2.0	18	100	0	72	16	11	27	44	1.82
746721--746762	22	2.0	22	82	13	54	42	4	9	42	1.58
754524--754583	23	2.6	25	89	7	83	56	16	11	15	1.67
754557--754593	10	3.7	10	92	0	56	54	24	10	10	1.67
754579--754608	14	2.1	14	93	0	51	46	26	16	10	1.78
754537--754607	34	2.1	34	86	2	99	53	21	12	12	1.71
766518--766576	31	1.9	31	85	0	82	30	16	5	47	1.69
766462--766929	237	2.0	231	95	5	834	31	14	12	41	1.83
767054--767094	2	20.5	2	100	0	82	48	0	0	51	1.00
768228--768259	3	10.7	3	100	0	64	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
771157--771191	14	2.6	14	90	4	54	42	0	5	51	1.25
771532--771574	23	2.0	22	86	9	61	48	2	0	48	1.14
771667--771704	20	1.9	19	89	5	58	52	0	2	44	1.14
781256--781322	34	2.0	34	94	5	120	41	8	8	40	1.68
782930--782961	2	16.0	2	100	0	64	0	50	0	50	1.00
782974--783001	14	2.0	14	100	0	56	57	14	0	28	1.38
783774--783823	20	2.5	20	100	0	100	40	18	22	20	1.92
785276--785325	20	2.4	21	86	3	66	40	24	4	32	1.73
795078--795127	15	3.3	15	85	0	64	12	66	14	8	1.45
798017--798076	23	2.6	23	89	2	93	36	5	0	58	1.20
800969--801017	25	2.0	25	83	0	62	65	6	6	22	1.38
811234--811279	22	2.0	22	87	8	65	36	8	4	50	1.53
811653--811730	36	2.1	38	88	4	115	64	0	2	33	1.08
811650--811713	18	3.5	18	68	18	51	67	0	3	29	1.06
819920--819946	5	5.4	5	100	0	54	18	0	0	81	0.69
829148--829194	20	2.4	19	89	10	76	55	10	17	17	1.69
829152--829199	20	2.6	18	84	15	62	56	10	14	18	1.66
831376--831440	21	3.1	21	80	6	69	40	15	29	15	1.88
833311--833357	19	2.6	19	90	6	71	29	2	10	57	1.44
833476--834832	198	6.9	198	96	2	2520	37	15	14	32	1.88
833476--834832	394	3.4	395	97	1	2532	37	15	14	32	1.88
833476--834832	592	2.3	590	96	2	2512	37	15	14	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
836283--836343	12	5.6	11	84	11	58	34	11	36	18	1.86
836280--836368	6	14.3	6	72	6	52	37	8	34	19	1.83
836301--836359	9	6.6	9	76	7	66	33	10	35	20	1.86
836291--836372	12	7.1	12	75	8	62	35	8	34	21	1.84
837831--838169	183	1.8	183	91	1	563	35	14	15	33	1.88
840636--840700	25	2.6	25	80	0	85	35	9	13	41	1.77
840991--841046	23	2.4	23	87	0	85	35	7	19	37	1.79
841004--841055	23	2.3	23	90	6	79	34	1	19	44	1.62
841412--841475	23	2.8	23	87	0	92	35	6	20	37	1.78
841412--841484	23	3.2	23	82	7	85	34	5	20	39	1.76

Tables:   1   2   3   4