genome.fa.s8356.2.7.7.80.10.50.1000.55.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  55  of  56  ( 6656 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)
12596058--12596128	35	2.0	35	100	0	142	30	16	25	26	1.97
12597133--12597188	17	3.2	17	69	14	51	17	10	12	58	1.61
12597141--12597208	35	1.9	35	93	0	118	17	11	11	58	1.62
12599885--12599956	17	4.2	17	82	3	81	40	9	12	37	1.76
12602070--12602108	12	3.1	12	85	7	51	10	15	0	74	1.07
12603436--12603477	19	2.3	19	87	4	59	73	0	2	23	0.94
12605877--12605931	5	10.8	5	76	18	51	74	0	5	20	1.01
12605877--12605930	14	3.9	14	80	7	58	74	0	5	20	1.02
12605877--12605931	9	5.4	10	78	14	51	74	0	5	20	1.01
12605874--12605939	34	1.9	34	84	9	89	71	1	9	18	1.20
12608930--12608973	19	2.4	19	88	3	63	72	0	6	20	1.07
12614139--12614192	17	3.1	17	78	10	56	66	0	0	33	0.92
12614879--12615009	65	2.0	64	82	7	158	58	11	0	29	1.38
12614918--12615058	76	1.9	75	84	1	192	58	12	1	27	1.43
12616723--12616764	14	2.9	14	82	3	57	73	0	7	19	1.05
12623311--12623373	19	3.2	19	75	4	54	55	12	0	31	1.37
12624126--12624178	17	3.1	17	76	10	54	39	9	11	39	1.74
12624889--12625326	217	2.0	219	99	0	862	36	15	9	38	1.80
12625552--12625587	16	2.2	17	90	5	56	50	2	0	47	1.15
12626439--12626507	36	1.9	36	100	0	138	36	20	18	24	1.95
12632016--12632088	30	2.4	29	76	10	76	39	4	15	41	1.66
12638904--12639238	81	4.1	81	79	6	331	29	21	11	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12639451--12640037	54	10.8	54	88	2	813	27	19	18	34	1.95
12639402--12640037	109	5.9	108	87	3	847	27	19	18	34	1.95
12639402--12640037	272	2.4	271	88	4	919	27	19	18	34	1.95
12640455--12640510	20	2.8	21	82	15	73	23	28	16	32	1.96
12641234--12641618	134	2.9	134	85	2	515	32	19	18	29	1.96
12642344--12642763	38	11.2	38	79	9	450	39	17	17	25	1.91
12642555--12642614	29	2.1	29	84	6	77	31	20	18	30	1.96
12642513--12642652	71	2.0	67	82	8	165	36	17	18	27	1.93
12642399--12642733	185	1.8	185	86	2	485	38	18	17	25	1.92
12645765--12645844	31	2.6	31	91	0	124	31	35	2	31	1.71
12654121--12654156	12	3.0	12	100	0	72	41	8	8	41	1.65
12654255--12654291	19	2.0	18	89	5	56	5	16	0	78	0.93
12654253--12654322	28	2.6	27	80	14	74	5	18	0	75	0.99
12654341--12654370	7	4.4	7	95	4	53	23	0	0	76	0.78
12654290--12654383	20	4.7	20	68	16	61	11	12	0	75	1.05
12659593--12659636	17	2.6	17	100	0	88	65	4	4	25	1.30
12662925--12664228	89	14.7	89	80	3	1243	31	19	17	31	1.95
12664326--12664843	62	8.6	61	78	9	467	31	13	25	29	1.94
12664466--12664843	116	3.2	114	81	6	335	31	12	25	29	1.93
12665876--12665958	43	1.9	43	82	7	105	33	15	13	37	1.86
12676288--12676338	25	2.0	25	92	0	84	43	7	7	41	1.63
12676361--12676711	22	19.1	20	61	31	87	52	13	0	34	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12676353--12676944	54	10.8	54	78	11	487	51	13	0	34	1.42
12676385--12676959	32	19.4	32	70	23	317	51	12	0	35	1.42
12676353--12676931	86	7.0	85	76	13	528	51	13	0	34	1.42
12676671--12676719	22	2.2	22	88	3	71	55	14	0	30	1.40
12676728--12676877	80	1.9	80	94	0	264	51	14	0	34	1.47
12676779--12676853	22	3.2	23	71	17	73	54	16	0	29	1.42
12676861--12676908	22	2.2	22	85	7	62	52	16	0	31	1.45
12676930--12677033	15	7.0	15	94	2	174	50	0	0	50	1.00
12679061--12679163	46	2.3	43	88	5	143	24	30	24	21	1.99
12679060--12679163	23	4.7	22	86	3	129	24	29	25	21	1.99
12680189--12680266	23	3.4	23	92	1	122	26	28	24	20	1.99
12684631--12684852	54	4.1	54	87	4	286	35	19	18	26	1.95
12684769--12684943	91	1.9	89	82	6	219	34	17	17	30	1.94
12684858--12685579	54	13.4	54	84	3	803	33	19	18	28	1.95
12687800--12687825	13	2.0	13	100	0	52	38	0	7	53	1.30
12690819--12690868	17	2.9	17	84	0	64	42	2	18	38	1.61
12690819--12690924	17	6.1	17	73	12	63	38	7	15	38	1.75
12690916--12690972	17	3.4	17	78	4	62	43	10	15	29	1.80
12690914--12690990	34	2.3	34	80	8	86	41	12	15	29	1.85
12692013--12692080	12	5.7	12	75	3	66	27	7	23	41	1.81
12692010--12692082	24	3.0	23	86	4	92	27	6	23	42	1.79
12698090--12698127	2	19.5	2	94	5	69	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12698184--12698209	13	2.0	13	100	0	52	46	7	7	38	1.61
12698239--12698277	2	20.0	2	85	15	55	48	0	2	48	1.15
12698352--12698444	36	2.5	37	86	8	118	46	0	24	29	1.53
12698354--12698444	20	4.8	19	72	18	75	46	0	24	29	1.53
12698649--12698736	8	11.5	8	83	9	112	26	7	23	42	1.82
12698752--12698785	9	3.9	9	84	7	52	55	5	0	38	1.24
12698859--12698930	21	3.4	21	83	11	94	50	29	0	20	1.49
12698865--12698930	14	4.7	14	81	7	80	50	27	0	22	1.50
12698859--12698930	7	10.3	7	78	0	63	50	29	0	20	1.49
12699296--12699338	15	2.8	15	89	3	59	48	9	2	39	1.48
12698761--12700709	556	3.4	566	88	5	2833	43	11	8	36	1.72
12699430--12699496	14	4.8	14	79	5	64	52	25	0	22	1.47
12699474--12699508	7	5.0	7	96	0	61	54	31	0	14	1.40
12698761--12700709	572	3.4	559	88	6	2751	43	11	8	36	1.72
12699865--12699927	19	3.3	19	78	12	67	49	6	0	44	1.28
12699849--12699945	46	2.1	47	84	9	128	47	7	3	42	1.46
12699867--12699918	27	2.0	26	92	3	86	48	5	0	46	1.26
12699860--12699918	27	2.2	26	88	8	75	47	5	1	45	1.34
12699860--12699914	15	3.8	15	77	22	55	47	5	1	45	1.36
12700439--12700483	23	1.9	24	95	4	83	51	4	2	42	1.34
12700558--12700603	21	2.2	21	96	0	83	47	30	0	21	1.51
12700564--12700623	21	2.9	21	84	0	66	55	23	0	21	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12700797--12700843	14	3.7	14	71	26	50	51	4	0	44	1.21
12700796--12700844	23	2.1	24	96	3	91	48	4	0	46	1.20
12701109--12701159	16	3.2	16	82	0	57	45	15	21	17	1.86
12712511--12712569	29	2.0	29	96	0	109	23	11	13	50	1.74
12717188--12717246	29	2.0	29	100	0	118	23	13	13	49	1.78
12725345--12725426	31	2.8	29	76	10	85	37	17	6	39	1.74
12730668--12730709	20	2.1	20	90	0	66	16	26	38	19	1.92
12731027--12731062	12	2.9	12	91	4	54	47	2	2	47	1.31
12733276--12733358	22	3.7	22	74	16	73	24	22	28	24	1.99
12733276--12733364	23	3.9	23	76	12	78	22	24	26	25	2.00
12737156--12737195	21	1.9	21	90	10	64	30	5	7	57	1.48
12739080--12739132	21	2.6	20	87	3	79	20	22	41	15	1.89
12739180--12739221	18	2.2	20	83	8	52	19	26	26	28	1.98
12749022--12749106	41	2.1	41	84	4	109	31	22	12	32	1.92
12750973--12751050	40	1.9	40	89	2	120	38	11	17	32	1.86
12757432--12757505	2	37.0	2	100	0	148	50	0	0	50	1.00
12757763--12757958	18	10.9	18	88	2	268	26	30	23	19	1.98
12761863--12761895	15	2.2	15	100	0	66	42	21	15	21	1.89
12769444--12769506	16	3.9	16	79	6	56	74	3	1	20	1.04
12769427--12769500	9	8.6	9	74	14	57	71	2	1	24	1.07
12769451--12769507	15	3.6	14	76	21	51	75	3	1	19	1.04
12769475--12769507	14	2.3	15	89	5	50	78	6	0	15	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12770733--12770762	14	2.1	15	93	6	53	0	3	6	90	0.56
12771453--12771558	42	2.6	41	79	5	115	32	17	22	27	1.97
12771560--12771717	59	2.7	59	85	1	208	27	12	28	31	1.93
12771907--12772151	109	2.3	106	88	7	365	42	19	10	28	1.84
12771907--12772173	52	5.1	51	78	13	256	43	19	9	27	1.82
12773869--12774029	65	2.5	65	86	5	211	28	18	23	29	1.98
12776143--12776206	3	20.0	3	90	9	76	39	0	0	60	0.97
12779935--12779976	7	6.0	7	81	8	50	14	16	14	54	1.71
12779935--12779976	15	3.0	14	83	10	50	14	16	14	54	1.71
12784104--12784673	114	5.0	115	93	1	939	34	15	19	30	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56