genome.fa.s3744.2.7.7.80.10.50.1000.3.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: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457414

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1317 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)
460853--460940	49	1.9	47	84	13	121	25	5	3	65	1.30
460870--460941	26	3.0	24	68	27	62	26	6	4	62	1.39
466494--466543	19	2.6	19	78	6	57	66	0	2	32	1.03
466497--466565	24	3.0	23	76	16	70	63	1	2	31	1.18
468777--468802	2	13.0	2	100	0	52	50	0	0	50	1.00
470562--470603	20	2.0	22	86	9	61	38	2	4	54	1.34
491054--491128	22	3.4	21	75	14	62	54	14	1	29	1.48
491208--491277	35	2.0	35	88	0	104	48	2	10	38	1.51
491295--491330	18	1.9	19	88	5	56	41	11	5	41	1.64
493746--493781	18	2.0	18	100	0	72	27	0	33	38	1.57
495820--495860	17	2.4	17	91	0	64	36	17	21	24	1.94
499442--499513	20	3.5	20	77	7	65	30	8	25	36	1.85
499546--499590	17	2.6	18	85	7	65	22	6	40	31	1.80
500161--500218	24	2.4	24	80	5	64	20	18	24	36	1.95
506134--506179	2	23.5	2	91	4	76	47	0	2	50	1.13
517596--517626	16	1.9	16	93	0	53	51	32	12	3	1.56
518740--518777	20	1.9	20	88	0	58	31	13	13	42	1.82
519149--519195	3	16.0	3	86	4	69	29	0	0	70	0.88
520174--520289	56	2.1	56	93	0	196	32	10	26	30	1.90
525048--525300	65	3.8	64	73	13	195	38	13	19	28	1.90
525012--525327	138	2.3	138	82	3	359	40	13	19	26	1.88
525094--525531	37	12.6	37	68	18	255	37	13	19	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525150--525628	102	4.7	102	88	4	680	37	12	19	29	1.90
525603--525652	21	2.4	21	89	0	73	38	12	24	26	1.90
525673--525823	72	2.0	72	81	7	169	39	13	17	29	1.88
525773--525875	52	2.0	52	94	0	179	37	13	16	32	1.88
527049--527402	183	1.9	183	91	1	584	30	20	20	27	1.98
530380--530461	39	2.1	39	84	4	103	25	24	14	35	1.94
530508--530534	13	2.1	13	100	0	54	44	7	22	25	1.79
533204--533261	29	2.0	29	93	0	98	15	36	27	20	1.93
533499--533541	13	3.3	12	78	15	50	58	0	41	0	0.98
533499--533546	14	3.6	13	78	10	53	56	0	41	2	1.11
533997--534031	15	2.2	16	95	5	63	37	0	5	57	1.23
536294--536339	13	3.4	14	82	8	51	58	2	0	39	1.10
536258--536378	59	2.1	56	84	4	152	50	7	2	39	1.44
536269--536346	24	3.3	24	77	18	76	53	6	1	38	1.35
538934--539369	55	7.9	54	86	5	448	30	24	16	29	1.96
538924--539369	110	4.1	110	85	6	496	30	23	16	28	1.96
538945--539369	165	2.6	164	86	3	543	29	24	16	28	1.97
540733--540929	15	13.0	14	70	23	109	8	17	0	73	1.11
540771--540895	22	5.6	23	72	18	77	7	17	0	74	1.09
540733--540929	29	6.8	28	74	17	129	8	17	0	73	1.11
540733--540901	8	22.3	7	72	17	90	7	16	0	75	1.07
540771--540907	21	6.1	22	72	16	77	7	17	0	74	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550555--550737	41	4.5	41	95	0	330	18	19	24	38	1.93
550580--550734	20	7.6	20	68	4	112	16	20	23	39	1.92
550555--550774	82	2.7	81	87	5	282	19	19	23	37	1.94
551544--551609	21	3.2	21	65	4	62	42	27	13	16	1.86
552342--552781	12	33.3	14	69	20	263	43	9	2	45	1.47
552342--552720	26	15.2	26	81	9	396	43	9	2	45	1.49
552350--552720	98	3.7	99	80	8	414	43	9	2	45	1.49
552342--552781	150	3.0	149	84	7	531	43	9	2	45	1.47
552342--552782	26	17.8	25	77	12	292	43	9	2	45	1.47
556011--556057	25	2.0	23	87	8	67	31	2	10	55	1.46
556356--556385	16	1.9	16	93	6	53	46	10	0	43	1.37
556871--556933	28	2.2	30	94	5	112	57	12	0	30	1.36
556875--556940	28	2.4	28	87	10	107	56	12	0	31	1.36
556910--556958	21	2.3	21	85	3	71	53	16	0	30	1.43
557115--557149	6	5.8	6	100	0	70	14	17	17	51	1.77
557217--557265	21	2.2	23	82	7	57	40	10	16	32	1.82
558881--558970	26	3.5	25	68	19	69	25	42	15	16	1.88
558865--558969	52	2.0	52	96	0	192	24	42	15	17	1.87
558955--558987	11	3.2	11	83	16	52	24	48	9	18	1.76
558949--558987	20	2.0	20	94	0	69	28	48	7	15	1.72
558966--559026	31	2.0	31	96	0	113	19	44	11	24	1.84
559020--559083	29	2.2	29	85	0	83	14	34	25	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559368--559422	23	2.5	21	75	21	58	54	7	1	36	1.39
559421--559480	31	1.9	31	89	0	93	45	8	5	41	1.56
562464--562522	21	2.8	21	89	0	100	10	32	38	18	1.84
576841--576936	37	2.6	38	81	5	115	50	7	3	39	1.46
585405--585432	14	2.0	14	100	0	56	50	7	21	21	1.72
589375--589584	65	3.2	64	77	11	212	33	22	17	26	1.96
595409--595489	24	3.6	23	73	17	80	23	23	22	30	1.99
595410--595510	43	2.3	44	86	3	141	23	23	21	30	1.99
598160--598332	65	2.7	64	80	7	172	30	24	19	26	1.98
604774--604813	21	1.9	21	89	0	62	30	7	7	55	1.56
607814--607867	23	2.3	23	90	0	90	24	24	24	27	2.00
612393--612453	23	2.7	23	89	5	88	21	22	24	31	1.98
612393--612461	23	3.0	23	85	8	79	23	21	23	31	1.98
614247--614301	24	2.3	24	87	0	74	21	23	21	32	1.98
617064--617117	23	2.3	23	83	0	63	20	18	12	48	1.81
619035--619059	2	12.5	2	100	0	50	0	0	48	52	1.00
622849--622893	15	2.9	15	80	3	54	24	0	6	68	1.13
622855--622883	15	1.9	15	100	0	58	31	0	6	62	1.22
629363--629448	35	2.5	35	82	0	91	41	19	1	37	1.59
629417--629459	21	2.0	21	100	0	86	46	13	0	39	1.44
629582--629615	16	2.0	18	88	11	54	26	2	5	64	1.30
630082--630329	130	1.9	130	93	0	424	36	13	14	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635823--635874	24	2.2	22	78	15	59	63	0	3	32	1.12
635833--635881	24	2.0	24	96	0	89	65	0	0	34	0.93
635916--635957	19	2.3	19	83	4	50	59	4	2	33	1.31
643705--643739	17	2.1	17	89	5	54	54	0	2	42	1.15
644082--644139	20	2.8	20	72	15	55	44	1	5	48	1.35
644292--644337	21	2.1	21	88	4	65	58	0	0	41	0.98
644245--644343	50	2.0	49	80	11	112	52	0	1	46	1.07
644727--644832	34	3.1	34	93	2	185	47	5	9	37	1.60
645470--645503	18	1.9	17	88	5	50	35	2	0	61	1.11
646926--647063	69	2.0	69	91	0	222	44	11	7	36	1.68
648256--648426	38	4.6	38	83	3	195	47	5	4	43	1.45
648370--648432	18	3.4	17	70	18	54	46	4	6	42	1.50
648808--648832	13	1.9	13	100	0	50	64	8	16	12	1.49
657511--657547	18	2.1	18	89	0	56	18	16	16	48	1.81
658763--658802	20	2.0	21	90	5	64	82	2	12	2	0.87
659808--659970	32	5.1	32	90	1	245	30	14	22	33	1.93
660077--660232	34	4.6	34	88	4	224	31	21	12	34	1.91
660475--660620	36	4.1	36	91	0	220	25	22	14	37	1.92
660536--660600	21	3.4	21	68	24	70	24	26	12	36	1.91
660606--660682	39	2.0	39	81	0	91	31	20	12	35	1.91
660703--660888	43	4.3	43	90	0	291	27	12	30	29	1.93
660703--660894	86	2.2	86	95	0	348	28	13	29	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660976--661559	90	6.5	89	90	2	909	25	18	21	35	1.96
660976--661559	181	3.2	181	96	0	1039	25	18	21	35	1.96
660976--661559	271	2.2	269	90	2	920	25	18	21	35	1.96
661748--661781	3	11.7	3	87	6	52	38	0	0	61	0.96
664047--664073	2	13.5	2	100	0	54	51	0	0	48	1.00
674200--674235	18	2.0	18	89	10	56	63	27	5	2	1.30
674432--674529	51	1.9	51	93	0	169	55	12	8	24	1.64
676615--676703	44	2.0	44	97	0	169	21	13	17	47	1.82
678816--678879	16	3.9	16	77	6	56	60	4	3	31	1.32
678824--678878	16	3.4	16	80	7	67	61	5	3	29	1.35

Tables:   1   2   3   4   5   6   7   8   9   10   11