genome.fa.s1465.2.7.7.80.10.50.1000.31.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  31  of  55  ( 6520 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)
6164968--6165021	24	2.2	24	77	9	56	57	0	11	31	1.34
6171402--6171520	9	12.3	9	72	15	78	76	0	21	2	0.90
6171418--6171511	9	9.9	9	75	14	82	79	0	18	2	0.82
6171402--6171520	30	4.0	29	79	10	116	76	0	21	2	0.90
6171416--6171520	19	5.4	20	79	13	87	78	0	20	1	0.85
6171416--6171520	39	2.7	38	84	8	124	78	0	20	1	0.85
6171439--6171508	11	5.8	12	83	11	65	80	0	20	0	0.72
6172438--6172504	24	2.9	22	77	14	64	31	7	4	56	1.47
6172648--6173589	257	3.7	257	88	0	1357	31	16	18	33	1.93
6173419--6173525	42	2.6	43	73	7	105	24	16	21	37	1.94
6174766--6174809	2	22.5	2	95	4	81	50	0	0	50	1.00
6174900--6175266	81	4.5	81	90	0	592	27	23	12	36	1.91
6175210--6175407	68	2.9	68	84	1	254	30	23	14	32	1.94
6175781--6175940	59	2.7	58	80	4	187	32	20	12	34	1.90
6176306--6176509	95	2.1	95	78	7	218	28	22	16	32	1.95
6180153--6180199	21	2.3	21	85	10	62	23	23	25	27	2.00
6180234--6180276	20	2.2	20	86	0	59	32	18	13	34	1.90
6180517--6180574	18	3.0	19	80	14	82	50	10	12	27	1.72
6183657--6183696	21	1.9	21	94	0	71	22	27	22	27	1.99
6184550--6184917	81	4.6	81	89	1	551	28	23	13	35	1.92
6184869--6185054	68	2.7	68	86	1	257	31	23	14	31	1.94
6185431--6185599	59	2.9	58	87	3	223	33	18	14	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6185971--6186045	22	3.8	18	75	15	60	24	30	16	29	1.96
6185919--6186098	95	1.9	96	86	4	256	25	26	16	31	1.96
6185941--6186119	95	1.9	95	83	4	236	26	26	16	30	1.97
6186931--6187158	38	5.8	38	78	9	199	25	18	18	37	1.93
6187087--6187187	45	2.3	45	84	5	125	19	20	18	40	1.92
6187125--6187379	45	5.8	45	76	9	213	20	14	21	43	1.87
6187131--6187343	86	2.4	88	82	3	268	21	14	22	41	1.89
6187910--6188636	134	5.4	134	89	1	983	29	20	19	29	1.97
6188827--6188888	3	20.7	3	100	0	124	33	0	0	66	0.92
6205542--6205589	25	1.9	25	82	0	60	52	20	0	27	1.47
6205558--6205596	18	2.1	19	85	4	53	56	20	0	23	1.42
6205558--6205599	19	2.2	19	83	8	50	54	21	0	23	1.44
6214569--6215112	43	12.8	43	76	6	430	25	18	6	49	1.71
6215350--6215738	43	9.1	43	77	9	316	27	18	4	49	1.67
6215362--6215726	129	2.8	127	82	5	412	27	18	4	49	1.67
6216553--6216580	2	14.0	2	100	0	56	50	0	0	50	1.00
6218361--6218408	24	1.9	24	83	8	60	45	2	2	50	1.25
6221631--6221657	2	13.5	2	100	0	54	48	0	0	51	1.00
6221767--6222295	140	3.8	140	76	10	453	27	21	17	34	1.95
6221745--6222296	211	2.6	210	76	9	527	27	21	17	33	1.96
6221733--6222316	70	8.4	70	75	9	392	26	22	17	33	1.96
6221722--6222325	140	4.3	138	74	12	450	26	22	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6221722--6222324	281	2.2	277	78	10	647	26	22	17	33	1.96
6222602--6222683	25	3.2	24	68	21	60	40	21	10	26	1.87
6222522--6222693	51	3.4	51	85	6	240	41	20	9	27	1.84
6226367--6226435	35	2.0	35	88	5	104	33	17	20	28	1.95
6228114--6228169	24	2.4	23	82	11	69	73	5	10	10	1.25
6232214--6232281	35	1.9	35	87	0	100	33	17	17	30	1.94
6234124--6234249	41	3.1	41	82	2	146	35	20	16	26	1.94
6234174--6234261	20	4.3	20	85	8	115	39	20	18	21	1.92
6234255--6234337	20	4.2	20	90	0	130	45	22	12	19	1.83
6234309--6234399	20	4.7	20	78	4	78	37	21	10	29	1.88
6234373--6234419	18	2.5	19	82	6	60	29	23	14	31	1.95
6235559--6235583	12	2.1	12	100	0	50	72	0	28	0	0.86
6237642--6237676	6	5.8	6	86	0	52	60	20	2	17	1.49
6237937--6237982	20	2.3	20	85	7	58	52	21	10	15	1.73
6237990--6238044	20	2.8	20	80	0	74	23	18	20	38	1.93
6238027--6238111	34	2.5	34	90	1	127	32	21	21	24	1.97
6239933--6240031	21	4.7	21	75	8	67	23	19	32	25	1.97
6239932--6240034	42	2.5	42	73	6	100	24	18	32	25	1.97
6240441--6240480	21	1.9	21	100	0	80	37	32	15	15	1.88
6242152--6242250	20	5.2	20	72	16	84	46	22	17	14	1.83
6242259--6242307	20	2.5	20	96	0	89	10	18	24	46	1.79
6242632--6242674	22	2.0	22	90	0	68	23	11	41	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6242833--6242918	20	4.3	20	92	0	145	18	10	24	46	1.80
6242833--6242918	40	2.2	40	97	0	163	18	10	24	46	1.80
6242912--6242954	20	2.2	20	91	0	68	25	16	18	39	1.91
6242833--6242938	40	2.7	40	86	5	99	20	12	22	44	1.85
6242912--6242999	20	4.3	20	65	11	54	29	15	20	34	1.94
6243585--6243641	22	2.6	22	80	5	62	40	1	0	57	1.09
6244119--6244171	22	2.4	22	74	3	52	54	1	3	39	1.29
6247141--6248166	510	2.0	510	94	0	1820	34	22	16	27	1.95
6249377--6249416	20	2.0	21	85	14	57	42	5	7	45	1.54
6249586--6249792	65	3.2	64	82	8	208	30	24	16	28	1.97
6249633--6249796	65	2.5	65	84	2	215	30	26	15	27	1.96
6256977--6257181	65	3.2	62	80	11	193	30	24	17	27	1.97
6260286--6260321	11	3.4	11	88	3	56	0	11	0	88	0.50
6260275--6260323	20	2.4	21	76	10	57	6	14	0	79	0.91
6260286--6260315	13	2.4	12	94	5	51	0	10	0	90	0.47
6260308--6260374	26	2.6	25	81	6	80	16	13	1	68	1.28
6263060--6263108	21	2.3	21	92	0	80	32	14	22	30	1.93
6271264--6271346	2	41.5	2	100	0	166	49	0	0	50	1.00
6274088--6274154	33	2.0	33	97	0	125	50	16	11	20	1.76
6274656--6274706	22	2.4	20	81	12	57	54	1	3	39	1.30
6275351--6275397	15	3.4	14	77	8	51	53	0	0	46	1.00
6278985--6279020	18	2.0	18	100	0	72	38	22	11	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6280526--6280858	156	2.1	156	89	2	510	27	19	11	40	1.86
6280680--6281053	116	3.2	115	80	6	382	26	20	13	39	1.90
6280725--6281053	115	2.8	115	82	3	376	26	20	14	38	1.91
6280789--6281116	116	2.8	116	81	5	319	24	21	14	39	1.91
6281583--6281750	7	23.7	7	84	9	191	9	14	0	76	1.02
6282404--6282451	20	2.5	19	80	13	53	8	14	0	77	0.99
6284364--6284402	20	2.0	20	100	0	78	30	5	15	48	1.66
6285834--6285912	40	1.9	42	89	5	126	39	12	3	44	1.61
6286508--6286552	20	2.2	20	96	0	81	17	33	4	44	1.69
6286591--6286624	2	17.0	2	100	0	68	50	0	0	50	1.00
6286829--6286877	22	2.2	22	92	0	80	24	22	42	10	1.84
6287346--6287378	13	2.5	13	95	0	57	24	27	30	18	1.98
6292300--6292342	17	2.5	17	92	0	68	32	6	32	27	1.84
6293258--6293308	27	1.9	26	84	11	68	29	15	5	49	1.68
6296714--6297787	84	12.9	83	82	3	1136	33	22	17	25	1.96
6296714--6297787	167	6.4	167	83	3	1169	33	22	17	25	1.96
6296850--6297871	251	4.1	245	82	5	956	34	22	17	25	1.96
6298277--6298319	20	2.2	20	100	0	86	18	30	4	46	1.69
6298976--6299042	29	2.4	28	78	9	73	20	7	13	58	1.59
6305049--6305087	12	3.5	11	83	16	53	12	0	2	84	0.72
6306056--6306086	16	1.9	16	100	0	62	87	0	12	0	0.55
6307746--6307790	18	2.4	19	82	14	58	15	11	4	68	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6310863--6311175	52	6.1	52	72	10	160	31	9	19	39	1.84
6310964--6311044	26	3.2	26	77	5	67	28	8	20	41	1.82
6310863--6311106	102	2.4	102	83	2	276	30	10	18	40	1.84
6311055--6311156	26	3.9	26	93	5	179	31	10	21	36	1.88
6311058--6311155	11	7.8	12	74	25	87	32	10	20	36	1.86
6311059--6311175	26	4.5	26	90	2	119	35	9	19	35	1.84
6311383--6311671	69	4.2	68	77	2	245	32	18	21	28	1.97
6311402--6311671	138	1.9	137	82	5	328	32	19	21	26	1.97
6315455--6315602	41	3.7	41	76	7	135	27	18	18	35	1.94
6316955--6317063	2	54.5	2	100	0	218	50	0	0	49	1.00

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