genome.fa.s9624.2.7.7.80.10.50.1000.29.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  29  of  38  ( 4514 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)
5826729--5826804	21	3.7	21	73	3	82	17	23	17	42	1.89
5826755--5826821	20	3.3	20	79	4	89	17	22	17	41	1.90
5827201--5827265	23	2.8	23	100	0	130	33	9	21	35	1.85
5827350--5827875	200	2.6	196	85	5	680	31	15	14	39	1.86
5828472--5828516	19	2.4	19	84	0	54	51	6	4	37	1.49
5830115--5831279	199	5.9	198	84	4	1407	32	16	13	37	1.88
5831280--5831319	15	2.7	15	100	0	80	35	7	20	37	1.81
5831625--5831690	30	2.2	30	100	0	132	46	15	7	30	1.73
5834547--5835158	182	3.4	182	88	2	892	27	16	14	41	1.87
5844382--5844525	19	7.7	19	85	9	199	15	21	16	45	1.85
5844627--5844663	14	2.6	14	86	0	56	48	21	0	29	1.50
5846005--5846127	42	2.9	42	80	4	115	23	18	35	21	1.95
5848106--5848157	20	2.6	20	87	0	86	46	21	19	13	1.84
5848155--5848246	19	5.4	19	66	24	78	46	21	20	10	1.81
5848093--5848246	33	4.5	33	84	6	191	46	20	20	11	1.82
5848146--5848230	14	5.4	14	67	24	53	45	22	22	9	1.80
5848242--5848321	19	4.1	19	73	9	61	11	16	21	51	1.75
5848265--5848336	20	3.5	20	79	9	83	13	13	18	54	1.72
5848898--5849111	20	10.6	20	77	5	205	18	18	24	38	1.93
5848900--5849111	41	5.2	41	88	1	311	18	18	24	39	1.92
5849120--5849172	20	2.7	20	85	5	72	13	16	24	45	1.83
5848900--5849172	40	6.8	39	81	7	187	18	17	24	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5849224--5849275	20	2.6	20	78	6	61	15	17	32	34	1.91
5851058--5851097	21	1.9	21	89	0	62	47	20	0	32	1.50
5853341--5853392	20	2.5	20	81	3	59	28	0	7	63	1.22
5853423--5853482	24	2.6	22	85	12	84	25	1	6	66	1.25
5853432--5853484	24	2.2	25	93	3	90	22	0	7	69	1.13
5853471--5853504	17	2.1	17	88	5	52	26	0	0	73	0.83
5853432--5853498	24	2.8	24	86	6	75	23	0	5	70	1.09
5853474--5853508	18	1.9	18	94	0	61	25	0	0	74	0.82
5853682--5853726	19	2.3	19	84	7	54	22	2	11	64	1.36
5856104--5856285	61	3.0	62	85	4	251	30	9	10	48	1.71
5857339--5857474	37	3.8	35	82	9	150	41	12	14	30	1.83
5857833--5857875	18	2.5	17	85	7	61	25	4	2	67	1.22
5857840--5857946	57	1.9	56	88	9	164	31	3	1	62	1.23
5857863--5857979	60	1.9	59	79	6	128	35	3	1	59	1.24
5858135--5858189	21	2.6	21	73	0	56	23	1	1	72	1.04
5861523--5861604	7	11.3	7	75	13	60	78	6	15	0	0.95
5861520--5861621	20	4.8	21	74	19	63	77	5	15	0	1.01
5861544--5861571	11	2.5	11	100	0	56	85	7	7	0	0.73
5861519--5861621	28	3.6	28	72	16	86	76	6	15	0	1.04
5861558--5861604	16	2.8	17	79	20	55	76	6	17	0	0.98
5861523--5861633	44	2.6	42	80	13	122	76	6	15	1	1.07
5861520--5861621	9	10.7	9	70	18	55	77	5	15	0	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5862254--5862308	22	2.5	22	96	0	101	38	25	12	23	1.90
5862712--5862747	18	2.0	18	88	0	54	19	8	30	41	1.81
5863169--5863431	36	7.4	36	76	9	245	27	19	12	39	1.88
5863110--5863494	138	2.8	138	81	1	441	30	19	11	38	1.88
5863211--5863395	102	1.8	102	84	2	255	29	17	12	40	1.87
5863387--5863546	65	2.4	67	86	3	207	33	21	8	36	1.83
5864203--5864623	105	4.0	106	90	4	627	33	25	18	21	1.96
5864180--5864622	211	2.1	211	87	4	642	33	25	19	21	1.97
5865170--5865271	34	2.8	37	89	10	167	43	14	14	27	1.85
5865170--5865305	37	3.8	35	84	9	168	41	13	14	29	1.85
5865664--5865706	18	2.5	17	85	7	61	25	4	2	67	1.22
5865671--5865790	58	2.0	61	87	7	176	31	3	1	63	1.20
5865966--5866020	21	2.6	21	73	0	56	23	1	1	72	1.04
5868618--5868751	20	6.6	20	76	3	142	16	21	23	38	1.92
5868593--5868691	41	2.4	41	98	0	189	20	20	23	36	1.95
5868618--5868752	61	2.2	61	97	0	252	17	21	22	38	1.93
5868618--5868773	61	2.5	61	91	4	206	16	21	23	38	1.93
5868593--5868793	102	2.0	101	87	5	289	19	19	22	38	1.94
5873610--5873643	17	2.0	17	100	0	68	35	29	11	23	1.90
5875521--5875569	24	2.0	24	92	0	80	34	14	10	40	1.79
5876663--5876765	54	1.9	54	89	0	161	22	26	11	39	1.88
5879850--5879936	32	2.7	32	78	0	93	36	16	12	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5881125--5881176	15	3.6	14	77	15	52	34	25	17	23	1.96
5881124--5881190	29	2.3	29	89	0	98	32	26	16	23	1.96
5881140--5881205	14	4.6	14	74	10	53	30	25	18	25	1.98
5881169--5881223	28	2.0	28	81	0	65	27	27	20	25	1.99
5883203--5883244	22	1.9	22	95	0	75	26	28	19	26	1.98
5885713--5885785	2	36.5	2	100	0	146	49	0	0	50	1.00
5885831--5885870	17	2.3	18	91	4	64	22	0	22	55	1.44
5887192--5887540	20	17.5	20	85	4	436	34	26	18	20	1.95
5888214--5888260	24	2.0	24	87	8	69	25	14	21	38	1.92
5888435--5888459	12	2.1	12	100	0	50	72	0	28	0	0.86
5890741--5891156	19	23.4	19	81	14	523	45	18	22	13	1.84
5890741--5891178	33	12.5	33	77	13	132	45	18	22	14	1.84
5890769--5891156	52	7.2	53	82	13	387	45	17	22	14	1.84
5890846--5890900	14	3.6	14	73	21	56	45	20	23	10	1.82
5890809--5891178	109	3.5	109	94	3	625	45	17	22	14	1.85
5890808--5891178	52	6.9	52	87	8	509	45	17	22	14	1.84
5891185--5891267	20	4.6	19	81	15	113	14	24	18	43	1.87
5891374--5891410	14	2.6	14	91	0	65	45	21	0	32	1.52
5893363--5893419	14	3.7	14	77	20	60	45	22	21	10	1.82
5893344--5893436	33	2.8	33	95	0	168	47	21	20	10	1.80
5893307--5893441	19	7.6	19	76	16	128	45	23	19	11	1.82
5893437--5893565	19	7.3	19	75	17	125	8	17	28	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5893437--5893528	33	2.8	33	93	3	150	7	18	28	45	1.76
5893609--5893987	92	4.1	93	98	0	726	46	18	12	22	1.83
5893609--5893987	185	2.0	185	97	1	724	46	18	12	22	1.83
5895693--5895782	14	5.7	14	74	23	81	42	23	25	8	1.83
5895685--5895799	33	3.5	33	95	0	212	45	20	24	9	1.81
5895692--5895804	19	6.8	18	72	23	88	43	22	24	9	1.83
5895816--5895870	14	3.6	14	73	21	56	9	27	23	40	1.85
5895991--5896061	33	2.2	33	92	0	115	47	18	22	11	1.80
5896242--5896296	22	2.5	22	81	0	74	20	16	40	23	1.91
5896442--5896635	20	9.6	20	82	5	221	19	19	25	35	1.95
5896442--5896635	60	3.2	60	83	0	253	19	19	25	35	1.95
5896628--5896704	21	3.7	20	70	13	57	27	16	23	32	1.96
5896690--5896741	20	2.6	20	96	0	95	21	13	26	38	1.90
5901047--5901086	2	20.5	2	94	5	73	50	0	0	50	1.00
5902989--5903202	74	2.9	74	87	1	322	30	24	15	29	1.96
5906003--5906054	24	2.2	24	82	0	59	50	17	11	21	1.77
5906023--5906141	24	5.0	24	88	6	161	40	19	17	22	1.91
5906059--5906159	48	2.1	48	87	3	141	41	19	15	22	1.90
5908627--5908669	18	2.4	18	80	0	50	18	18	44	18	1.87
5908620--5908685	31	2.1	31	85	0	87	18	16	46	18	1.84
5908645--5908681	13	2.8	13	87	0	56	13	18	48	18	1.80
5912534--5912559	13	2.0	13	100	0	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5913752--5913859	32	3.4	33	77	10	91	15	8	27	48	1.74
5913810--5913865	16	3.5	16	70	7	51	17	8	26	46	1.78
5915931--5915995	20	3.2	20	93	0	112	23	16	12	47	1.80
5928606--5928664	21	2.8	22	75	10	61	23	15	23	37	1.93
5928715--5928755	21	1.9	22	85	5	57	21	17	26	34	1.95
5928797--5928848	25	2.1	25	96	0	95	46	11	21	21	1.82
5932639--5932688	12	4.2	12	76	19	52	0	24	2	74	0.93
5932639--5932681	20	2.2	20	87	4	61	0	23	2	74	0.93
5933440--5933573	68	2.0	68	94	1	234	40	8	22	29	1.83
5934188--5934255	21	3.3	21	77	4	84	25	17	26	30	1.97

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