genome.fa.s9152.2.7.7.80.10.50.1000.3.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: VEPZ01009152.1 Hibiscus syriacus cultivar Beakdansim tig00112678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  885575

Tables:   1   2   3   4   

This is table  3  of  4  ( 366 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)
464708--464915	38	5.7	36	72	6	152	37	12	17	31	1.87
464787--464932	72	2.0	72	83	2	184	36	10	17	34	1.85
467150--467176	14	1.9	14	100	0	54	51	14	14	18	1.76
470451--470541	45	2.0	45	93	0	155	32	13	37	16	1.87
474682--474708	14	1.9	14	100	0	54	29	0	48	22	1.51
475320--475354	3	11.7	3	100	0	70	68	0	0	31	0.90
479909--479957	12	3.9	13	72	20	50	22	18	20	38	1.93
484086--484509	110	3.9	109	84	3	546	33	16	17	32	1.93
495464--495889	110	3.9	110	85	3	561	33	16	17	32	1.92
497827--497863	2	18.5	2	94	0	65	54	0	0	45	1.00
501933--502452	110	4.7	110	86	1	720	32	17	18	32	1.94
501933--502452	218	2.4	219	86	3	713	32	17	18	32	1.94
503435--503504	26	2.7	26	80	10	72	51	1	2	44	1.25
503417--503450	2	17.0	2	100	0	68	50	0	0	50	1.00
503461--503508	19	2.6	19	81	12	55	54	2	0	43	1.12
503468--503772	169	1.8	169	82	5	393	51	8	7	32	1.59
503468--503811	169	2.0	169	80	4	381	49	8	7	34	1.62
505205--505235	2	15.5	2	93	0	53	48	0	0	51	1.00
505396--505502	24	4.5	24	75	0	106	47	16	14	20	1.82
505396--505504	48	2.3	48	78	0	128	47	16	15	20	1.82
508866--508896	13	2.4	13	94	0	53	16	19	48	16	1.81
508909--508983	19	3.9	19	89	6	98	37	28	18	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508916--508982	10	6.8	10	80	10	84	38	26	19	14	1.91
516059--516090	7	4.4	7	92	7	55	25	28	34	12	1.92
516060--516106	8	6.5	8	79	20	59	21	25	38	14	1.92
516060--516106	15	3.3	15	91	5	71	21	25	38	14	1.92
516067--516124	13	4.3	13	88	4	80	18	22	43	15	1.88
518236--518335	24	4.2	24	75	5	94	47	17	15	21	1.83
518229--518337	48	2.3	48	77	0	119	47	16	14	21	1.82
520792--520830	18	2.2	18	100	0	78	10	20	51	17	1.74
522113--522216	53	2.0	51	90	7	165	32	8	0	58	1.28
547071--547109	19	2.1	18	86	13	53	43	5	7	43	1.55
554746--555488	290	2.6	291	82	4	842	34	14	16	33	1.90
556172--556247	39	2.0	38	82	7	91	38	15	15	30	1.89
558128--558273	73	2.0	73	98	0	283	30	10	11	46	1.75
558681--558832	59	2.5	59	81	4	162	43	5	19	32	1.73
567900--568011	24	4.7	24	92	4	163	23	18	21	36	1.95
577259--577300	21	2.0	21	86	4	59	21	16	26	35	1.94
588234--588269	6	5.8	6	87	6	54	13	2	2	80	0.93
590830--590896	33	2.0	33	97	0	125	55	8	11	23	1.64
598483--598534	27	1.9	27	100	0	104	32	15	26	25	1.95
605927--605956	13	2.3	13	100	0	60	13	36	13	36	1.84
608363--608438	3	25.7	3	89	7	120	67	0	0	32	0.91
608756--609389	112	5.5	113	78	9	627	29	19	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608671--609173	236	2.1	234	88	2	740	27	19	14	38	1.91
611035--611082	12	3.9	12	82	12	62	4	16	0	79	0.89
611035--611080	23	1.9	25	86	8	69	4	17	0	78	0.91
611007--611080	13	5.6	13	76	16	64	10	16	0	72	1.10
611016--611084	28	2.5	28	77	15	72	10	15	0	73	1.08
614600--614630	9	3.6	9	91	8	55	54	0	22	22	1.44
621316--621344	4	7.2	4	100	0	58	75	0	0	24	0.80
621588--621735	66	2.3	66	80	9	160	45	5	8	39	1.58
622748--622831	3	28.7	3	83	9	111	65	0	0	34	0.93
640027--640129	29	3.6	29	88	2	154	39	6	21	32	1.79
643412--643460	13	3.4	13	75	24	53	20	46	18	14	1.83
643412--643451	18	2.2	18	90	0	62	20	50	17	12	1.78
643393--643460	31	2.2	31	89	5	102	20	45	17	16	1.85
645900--646020	24	5.0	24	82	7	129	25	13	20	40	1.89
645897--646020	48	2.6	48	83	5	144	25	13	20	41	1.89
648149--648183	15	2.2	16	90	10	54	11	34	31	22	1.90
652557--652674	58	2.0	58	96	3	220	45	11	16	25	1.82
657295--657343	24	2.1	23	88	3	71	20	12	10	57	1.64
661599--661646	23	2.1	23	100	0	96	25	20	33	20	1.97
661599--661653	23	2.4	23	93	3	85	25	23	32	18	1.97
667000--667048	23	2.1	23	100	0	98	42	10	12	34	1.76
667267--668580	661	2.0	658	89	1	2008	37	10	18	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669379--669428	24	2.1	23	85	3	64	46	14	12	28	1.79
677730--677824	30	3.2	30	86	4	131	32	12	27	27	1.93
685498--685832	43	7.8	42	82	6	354	34	23	24	17	1.96
688618--688646	13	2.2	13	100	0	58	13	20	48	17	1.81
690614--690712	43	2.3	44	89	7	157	32	19	29	19	1.96
690724--690791	28	2.4	27	76	13	66	48	13	7	30	1.69
692866--692908	13	3.3	13	73	0	50	23	20	39	16	1.92
692898--692922	5	5.0	5	100	0	50	0	20	60	20	1.37
696730--696767	19	2.0	19	94	0	67	36	18	31	13	1.89
698363--698419	29	1.9	30	92	3	98	42	15	5	36	1.70
705505--705572	29	2.3	29	89	0	100	42	14	7	35	1.74
720946--720989	23	1.9	23	86	9	63	47	0	6	45	1.29
730855--730924	24	3.0	24	87	2	97	40	18	15	25	1.90
746912--746999	24	3.7	23	75	6	86	21	13	15	48	1.80
746902--747006	48	2.2	49	88	6	153	20	14	15	49	1.79
751370--751441	24	3.0	24	79	0	81	18	11	16	54	1.71
751349--751441	48	1.9	49	84	6	127	20	11	15	52	1.73
760492--760519	7	4.0	7	100	0	56	14	28	28	28	1.95
760600--760649	25	2.0	25	84	0	64	38	4	10	48	1.56
767731--767785	13	4.5	13	73	13	62	20	43	20	16	1.88
767733--767779	23	2.0	23	87	0	67	21	46	21	10	1.81
767854--767899	23	2.0	23	91	0	74	41	6	6	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
768722--768758	15	2.5	15	87	12	51	24	16	10	48	1.77
782042--782108	13	5.4	13	82	10	86	17	46	22	13	1.83
782055--782098	23	1.9	23	95	0	79	20	50	20	9	1.75
783042--783164	63	2.0	63	96	3	230	33	9	28	28	1.89
784656--784745	24	3.8	23	69	5	63	23	14	16	45	1.84
785514--785900	192	2.0	193	99	0	767	35	16	17	31	1.91
814638--814693	19	2.9	19	81	0	67	8	26	37	26	1.86
814750--814879	9	13.9	9	74	18	90	5	30	40	23	1.77
814791--814875	17	4.9	17	87	8	109	3	29	42	24	1.71
814713--814879	13	12.8	13	73	15	105	6	31	39	22	1.80
814713--814868	22	7.1	22	83	4	156	7	31	39	21	1.80
817396--817472	9	8.1	9	77	9	73	12	25	31	29	1.93
817373--817470	19	5.1	19	78	13	83	16	23	28	31	1.96
817373--817472	29	3.4	30	77	9	91	16	25	28	31	1.96
824669--824715	19	2.5	19	92	0	76	23	48	19	8	1.75
824688--824715	14	2.0	14	100	0	56	21	50	21	7	1.72
830384--830476	12	7.8	12	69	9	64	49	17	13	19	1.79
830389--830476	24	3.7	24	77	6	88	48	17	13	20	1.80
830380--830473	48	2.0	48	86	0	134	50	15	13	20	1.78
830434--830490	24	2.4	24	77	14	64	45	14	19	21	1.85
831617--831652	18	2.0	18	88	0	54	30	16	0	52	1.44
832951--832996	15	2.9	15	90	6	65	30	28	28	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
832962--833004	7	6.1	7	80	20	54	30	25	30	13	1.94
832962--833007	15	3.2	14	90	6	58	28	26	30	15	1.96
832989--833058	18	4.2	18	70	17	60	17	20	45	17	1.85
833000--833058	31	1.9	31	92	0	100	16	18	47	16	1.83
833007--833042	13	2.8	13	86	0	54	16	16	47	19	1.83
834939--834965	2	13.5	2	100	0	54	51	0	0	48	1.00
835137--835219	12	6.9	12	68	10	62	46	15	15	21	1.83
835130--835233	48	2.2	48	81	6	113	49	15	15	20	1.80
835126--835233	24	4.5	24	69	9	69	48	15	14	21	1.81
836338--836373	18	2.0	18	88	0	54	30	16	0	52	1.44

Tables:   1   2   3   4