genome.fa.s8243.2.7.7.80.10.50.1000.31.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  31  of  49  ( 5786 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)
6526905--6526945	10	4.1	10	84	12	57	39	0	29	31	1.57
6527041--6527153	50	2.3	47	78	18	122	23	29	28	19	1.98
6527067--6527170	50	2.1	49	84	7	131	24	26	30	18	1.98
6535322--6535396	29	2.5	30	80	8	100	32	25	22	20	1.98
6540787--6540846	23	2.6	23	81	0	75	35	21	16	26	1.95
6540784--6540855	23	3.1	23	74	7	74	36	23	18	22	1.95
6540777--6540863	23	3.8	23	75	3	68	37	22	19	19	1.94
6541189--6541231	21	2.0	21	95	0	77	20	18	16	44	1.87
6543609--6543643	17	2.1	17	100	0	70	37	5	11	45	1.64
6547130--6547184	24	2.3	24	87	0	74	36	21	21	20	1.95
6547207--6547251	23	2.0	23	81	0	54	37	24	13	24	1.91
6550324--6550400	2	40.5	2	72	19	58	45	3	2	48	1.34
6550322--6550412	25	3.4	26	70	17	71	42	3	3	50	1.35
6550434--6550466	2	16.5	2	100	0	66	48	0	0	51	1.00
6550656--6550708	20	2.6	20	96	3	97	49	5	3	41	1.44
6552340--6552424	23	3.6	24	80	6	77	16	22	22	38	1.92
6552371--6552440	24	3.0	24	85	2	79	22	22	24	30	1.99
6559850--6559891	7	6.0	7	97	0	66	38	0	47	14	1.44
6560734--6560784	22	2.3	22	96	0	93	45	19	17	17	1.86
6562066--6562117	20	2.6	20	93	0	86	23	38	13	25	1.91
6562954--6563006	27	2.0	27	88	0	79	30	0	1	67	1.01
6563190--6563221	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6563295--6563360	17	4.1	15	76	16	53	50	1	1	46	1.20
6563296--6563366	34	2.0	37	84	13	96	47	1	2	47	1.25
6564374--6565166	398	2.0	398	90	2	1254	35	19	18	27	1.94
6565865--6565931	22	3.0	22	100	0	134	26	26	26	19	1.99
6566147--6566206	30	2.0	31	90	3	95	33	23	6	36	1.81
6566221--6566319	28	3.5	28	93	4	155	38	12	10	39	1.76
6566616--6566763	67	2.2	66	83	4	174	17	27	26	29	1.98
6569891--6569935	22	2.0	22	100	0	90	37	22	8	31	1.85
6574163--6574218	27	2.1	26	83	3	67	58	5	3	32	1.37
6575079--6575200	51	2.4	51	87	1	174	17	35	30	17	1.93
6578196--6578237	20	2.1	20	100	0	84	26	19	9	45	1.80
6578752--6578804	16	3.4	16	84	10	74	73	7	1	16	1.15
6578802--6579116	160	2.0	158	98	1	612	20	26	26	27	1.99
6579430--6579470	18	2.3	18	100	0	82	19	12	31	36	1.89
6580467--6580589	49	2.4	50	77	7	135	30	21	21	26	1.98
6580622--6580728	51	2.1	51	84	1	135	20	33	29	15	1.94
6581000--6581090	19	4.8	19	83	0	119	27	4	3	64	1.28
6581000--6581109	38	2.8	38	85	8	143	26	4	2	66	1.24
6580999--6581089	10	9.5	10	71	13	75	26	4	3	65	1.26
6582127--6582168	17	2.5	17	88	7	59	59	0	0	40	0.97
6582127--6582169	19	2.3	17	84	15	50	58	0	0	41	0.98
6582916--6582942	12	2.2	12	100	0	54	48	14	7	29	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6582912--6582948	12	2.7	15	76	24	53	48	13	5	32	1.65
6583996--6584038	12	3.6	12	80	0	50	76	2	0	20	0.89
6585568--6585629	32	1.9	32	83	6	81	51	0	4	43	1.23
6585743--6585772	8	3.8	8	100	0	60	50	0	0	50	1.00
6585839--6585886	20	2.5	20	80	6	55	43	2	0	54	1.12
6585859--6585939	29	2.5	33	78	13	89	49	1	1	48	1.17
6585884--6585943	21	2.8	22	80	5	61	53	1	1	43	1.20
6587038--6587090	21	2.5	21	87	9	72	26	22	16	33	1.96
6588763--6588839	35	2.2	35	90	4	120	31	11	38	18	1.86
6590148--6590188	14	2.9	14	88	0	64	9	2	17	70	1.25
6590369--6590405	14	2.6	14	91	0	56	8	13	18	59	1.58
6599810--6599839	14	2.1	14	93	0	51	63	0	0	36	0.95
6601592--6601616	3	8.3	3	100	0	50	68	32	0	0	0.90
6603330--6603377	18	2.7	18	80	9	62	41	0	4	54	1.20
6604705--6604754	3	16.7	3	95	0	73	62	0	32	6	1.20
6611455--6611610	36	4.3	36	94	1	276	37	13	21	26	1.91
6611291--6611610	101	3.1	101	82	8	317	39	11	20	27	1.88
6611455--6611610	73	2.2	72	95	1	276	37	13	21	26	1.91
6612056--6612158	43	2.4	43	95	1	181	16	16	26	40	1.89
6612099--6612422	101	3.2	101	94	0	560	20	18	24	36	1.95
6613619--6613842	95	2.5	89	83	9	280	29	20	20	29	1.98
6613675--6613856	95	1.9	95	90	2	294	29	19	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6619555--6619582	14	2.0	14	100	0	56	64	7	0	28	1.20
6619577--6619604	7	4.0	7	100	0	56	42	0	0	57	0.99
6620743--6620782	21	1.9	21	90	10	64	42	2	0	55	1.13
6622496--6622577	41	2.0	40	83	6	103	40	1	7	51	1.38
6622574--6622654	24	3.4	24	82	3	83	49	3	6	40	1.45
6622707--6622748	22	1.9	22	90	9	68	40	7	9	42	1.65
6622685--6622727	16	2.7	16	78	7	52	41	9	11	37	1.74
6623151--6623210	21	2.9	21	85	2	77	48	31	0	20	1.50
6623892--6623932	17	2.6	15	85	11	55	53	2	0	43	1.13
6623961--6624002	22	1.9	22	85	9	59	42	7	7	42	1.59
6624055--6624104	14	3.6	14	83	5	75	46	2	2	50	1.24
6624055--6624148	27	3.8	24	78	10	91	44	6	2	46	1.40
6624057--6624115	27	2.2	27	96	0	109	45	3	3	47	1.36
6628764--6628832	25	2.8	25	93	0	120	30	24	27	17	1.97
6630367--6630411	21	2.1	21	87	0	63	15	24	28	31	1.96
6633388--6633432	23	2.0	23	81	0	54	28	26	24	20	1.99
6633540--6633615	25	3.0	25	90	1	125	32	23	23	19	1.97
6635145--6635189	21	2.1	21	87	0	63	15	24	28	31	1.96
6636370--6636463	38	2.5	38	80	3	109	29	20	10	39	1.86
6636900--6636934	10	3.5	10	88	11	54	25	0	0	74	0.82
6643627--6643682	21	2.6	21	85	5	67	28	1	5	64	1.26
6646198--6646294	49	2.0	49	85	0	131	37	18	4	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6649426--6649474	25	2.0	24	84	11	64	57	8	0	34	1.29
6662283--6662341	27	2.2	27	81	0	73	28	1	13	55	1.48
6663815--6663850	18	2.0	18	89	10	56	36	0	2	61	1.11
6666061--6666123	31	2.0	31	100	0	126	41	0	12	46	1.42
6667867--6667911	21	2.1	21	87	0	63	53	2	6	37	1.40
6669614--6669677	31	2.1	31	90	0	101	26	10	7	54	1.62
6677143--6677184	18	2.3	19	84	12	61	11	4	7	76	1.15
6677304--6677328	7	3.6	7	100	0	50	36	16	0	48	1.46
6693351--6693525	60	2.9	58	76	9	165	48	4	13	33	1.61
6693643--6693690	23	2.1	23	96	0	87	29	31	14	25	1.95
6697557--6697716	65	2.5	65	86	9	213	26	19	24	29	1.98
6698439--6698477	20	2.0	20	89	0	60	53	28	5	12	1.60
6701046--6701088	3	14.3	3	95	0	77	34	0	2	62	1.08
6703259--6703324	30	2.2	30	78	5	71	18	7	9	65	1.45
6714721--6714783	8	7.6	9	74	13	55	79	1	11	7	1.00
6715665--6716150	136	3.6	136	92	1	796	35	18	21	24	1.95
6716063--6717034	332	2.9	331	91	1	1518	37	16	20	25	1.93
6716729--6716900	91	1.9	91	90	2	274	41	15	18	23	1.89
6717160--6717202	3	14.7	3	85	4	61	37	0	2	60	1.10
6719372--6719437	30	2.2	30	81	5	80	18	6	9	66	1.40
6723916--6724075	65	2.5	65	84	7	193	26	18	23	31	1.98
6727143--6727232	30	3.0	30	98	0	171	30	12	17	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6732380--6732419	2	20.5	2	94	5	73	50	0	0	50	1.00
6744332--6744416	43	2.0	43	97	0	161	41	20	11	27	1.87
6744426--6744537	31	3.6	31	92	0	188	25	12	27	34	1.92
6747466--6747504	14	2.6	15	84	12	53	61	0	0	38	0.96
6747653--6747679	8	3.4	8	100	0	54	44	0	0	55	0.99
6753498--6753527	13	2.3	13	100	0	60	16	16	13	53	1.73
6754418--6754460	20	2.0	22	86	8	63	30	6	2	60	1.35
6754446--6754490	13	3.5	13	81	6	56	24	0	4	71	1.05
6755353--6755395	20	2.0	22	91	8	72	32	4	2	60	1.30
6755544--6755581	17	2.1	19	85	9	53	65	0	0	34	0.93

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