genome.fa.s7999.2.7.7.80.10.50.1000.24.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  24  of  50  ( 5918 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)
6039172--6039334	81	2.0	81	98	0	317	25	14	20	39	1.90
6040242--6040275	16	2.1	16	94	0	59	38	0	8	52	1.33
6051951--6052008	23	2.7	20	70	17	53	31	12	15	41	1.84
6053091--6053119	15	1.9	15	100	0	58	34	6	31	27	1.83
6054260--6054293	12	2.7	13	86	9	52	44	8	5	41	1.60
6055429--6055497	34	2.0	35	86	5	97	50	2	0	46	1.16
6055429--6055518	34	2.7	34	80	11	89	45	3	0	51	1.18
6061075--6061497	194	2.2	194	88	0	614	41	13	13	32	1.82
6061864--6061926	19	3.3	19	69	10	56	47	0	12	39	1.42
6061864--6061943	39	2.1	38	84	9	101	46	0	13	40	1.44
6061803--6062216	229	1.8	230	90	1	670	35	5	22	36	1.76
6065420--6065541	64	1.9	64	81	1	147	27	18	25	28	1.98
6065845--6066882	217	4.8	217	92	1	1594	50	7	12	29	1.67
6065802--6066882	433	2.5	430	90	2	1620	50	7	12	29	1.67
6066909--6066977	27	2.5	28	83	9	88	47	7	4	40	1.51
6067019--6067137	11	10.6	11	66	16	66	47	1	3	47	1.28
6066964--6067066	20	5.1	20	69	12	75	45	6	5	41	1.55
6066995--6067093	42	2.3	43	81	5	103	47	5	5	42	1.47
6067062--6067115	17	3.1	17	81	2	63	46	0	3	50	1.19
6067103--6067151	22	2.2	23	92	3	82	42	0	4	53	1.20
6067223--6067314	33	2.9	32	82	6	98	42	7	4	45	1.52
6067199--6067407	20	10.4	20	65	24	66	41	6	5	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6067333--6067398	18	3.6	18	80	11	71	40	6	4	48	1.48
6067371--6067411	13	3.2	13	93	6	66	43	2	0	53	1.13
6067371--6067411	2	21.0	2	80	14	50	43	2	0	53	1.13
6067330--6067411	18	4.8	17	76	16	64	42	4	3	48	1.42
6067356--6067410	20	2.8	20	83	5	67	43	3	1	50	1.30
6067370--6067410	7	6.1	7	86	8	59	41	2	0	56	1.13
6067468--6067675	33	6.4	33	77	14	200	44	6	7	41	1.58
6067548--6067605	17	3.5	17	69	21	59	41	6	6	44	1.58
6067468--6067675	58	3.2	66	81	13	209	44	6	7	41	1.58
6067491--6067620	18	7.4	18	70	19	105	44	6	7	41	1.58
6067597--6067645	25	2.0	25	91	0	80	44	6	8	40	1.59
6067732--6067836	50	2.1	50	87	3	149	51	4	8	35	1.54
6069131--6069229	18	5.2	19	72	20	73	67	3	2	27	1.16
6069130--6069206	3	26.7	3	77	15	74	68	2	2	25	1.15
6069267--6069353	32	2.7	31	84	10	113	47	3	3	45	1.36
6069331--6069531	36	5.5	36	78	8	208	45	5	3	45	1.43
6069331--6069521	74	2.6	70	80	12	213	45	5	3	45	1.43
6069483--6069557	25	2.9	25	84	7	80	46	5	2	45	1.40
6069495--6069557	25	2.4	25	92	5	99	46	4	3	46	1.40
6073986--6074138	31	5.1	31	71	10	93	21	15	18	44	1.86
6074103--6074169	31	2.2	31	83	0	80	22	19	16	41	1.90
6074747--6074792	19	2.5	19	85	3	58	32	8	0	58	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6074772--6074808	13	2.7	14	84	15	51	37	2	0	59	1.12
6077838--6078006	6	28.3	6	73	1	88	6	10	40	43	1.64
6077831--6078030	12	16.2	12	72	7	114	7	8	40	44	1.62
6077868--6078030	6	27.3	6	74	6	98	4	7	41	46	1.53
6078227--6078536	104	3.0	103	82	3	352	31	6	29	33	1.83
6078540--6078574	15	2.4	14	95	4	61	48	0	5	45	1.26
6078543--6078659	27	4.4	27	83	2	121	47	4	5	41	1.47
6078624--6078735	47	2.4	48	75	15	124	41	1	8	48	1.45
6078702--6078806	20	4.9	20	72	17	68	46	3	7	41	1.50
6078718--6079094	27	14.5	27	68	20	130	44	5	6	42	1.53
6078836--6078890	18	2.9	18	81	5	56	43	7	5	43	1.55
6078730--6079101	51	7.7	48	67	21	151	44	5	6	43	1.54
6078961--6079088	7	19.7	6	77	13	71	46	5	4	42	1.47
6078961--6079088	2	59.0	2	70	20	71	46	5	4	42	1.47
6078961--6079088	9	14.8	8	70	18	71	46	5	4	42	1.47
6079097--6079150	24	2.2	24	87	9	74	44	11	7	37	1.68
6078716--6079286	286	2.0	284	82	8	687	44	7	6	42	1.57
6079991--6080042	19	2.7	19	96	0	95	26	21	30	21	1.98
6082355--6082399	13	3.6	13	77	22	60	46	2	8	42	1.47
6082343--6082399	24	2.4	24	100	0	114	45	3	8	42	1.52
6082344--6082386	11	3.7	11	77	22	52	46	4	9	39	1.57
6082964--6083012	20	2.5	20	93	0	80	30	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6088625--6088676	19	2.7	19	90	0	77	26	23	28	21	1.99
6089053--6089124	11	6.8	11	72	19	55	47	4	1	47	1.30
6089053--6089124	31	2.3	33	88	7	105	47	4	1	47	1.30
6089087--6089142	22	2.7	21	88	5	78	44	3	3	48	1.37
6089194--6089236	2	21.5	2	81	9	52	46	2	2	48	1.27
6089178--6089221	20	2.2	20	91	0	70	40	4	9	45	1.56
6090905--6090939	18	1.9	18	88	0	52	51	0	11	37	1.38
6101909--6101946	20	1.9	20	94	0	67	23	31	10	34	1.89
6105280--6105323	22	1.9	22	86	9	61	43	20	2	34	1.64
6105514--6105574	23	2.7	23	97	0	113	26	27	26	19	1.99
6107229--6107298	19	3.7	19	77	11	90	24	27	17	31	1.97
6107229--6107312	19	4.6	17	75	12	69	25	25	17	32	1.97
6107229--6107312	37	2.3	37	95	2	152	25	25	17	32	1.97
6117698--6117794	46	2.0	47	88	5	142	45	6	23	24	1.76
6117703--6117809	46	2.4	42	80	14	110	46	6	23	23	1.75
6124819--6124893	10	7.7	10	68	21	52	57	20	12	10	1.64
6124823--6124887	16	4.1	16	93	0	112	56	21	12	9	1.63
6125638--6125707	14	5.3	14	85	13	94	48	27	14	10	1.75
6125631--6125707	38	2.0	38	94	0	136	49	25	14	10	1.75
6125652--6125706	24	2.3	24	93	0	92	50	27	12	9	1.70
6131310--6131376	19	3.5	18	76	11	62	50	7	5	35	1.55
6132819--6132926	38	2.9	38	84	4	123	28	25	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6132832--6132945	35	3.2	35	87	3	147	30	25	18	25	1.98
6132887--6132941	18	3.1	18	71	5	58	30	20	20	29	1.97
6133101--6133165	33	2.0	33	93	0	112	27	15	12	44	1.82
6133182--6133236	29	2.0	26	83	13	67	40	16	7	36	1.76
6136537--6136581	11	4.0	11	83	13	56	13	11	0	75	1.05
6136542--6136591	23	2.2	23	89	3	75	8	12	0	80	0.92
6136542--6136606	12	5.4	12	78	12	62	6	13	0	80	0.90
6136553--6136605	22	2.2	24	83	9	65	3	15	0	81	0.83
6139769--6139830	17	3.6	17	75	12	72	25	30	24	19	1.98
6139726--6139856	35	3.7	35	90	3	181	26	28	20	24	1.99
6139786--6139845	18	3.4	17	72	21	52	23	28	23	25	2.00
6140008--6140072	33	2.0	33	96	0	121	27	15	13	43	1.85
6151056--6151091	13	2.8	13	86	0	54	50	5	8	36	1.56
6151488--6151520	17	1.9	17	93	0	57	42	12	6	39	1.67
6155501--6155931	59	7.3	59	84	1	515	32	20	10	35	1.87
6155520--6155931	176	2.3	177	85	1	540	32	21	10	36	1.87
6156324--6156378	19	2.7	21	81	13	62	23	32	18	25	1.97
6162509--6162856	59	5.9	59	90	2	511	30	22	12	34	1.92
6163165--6163221	22	2.7	20	82	12	69	21	28	17	33	1.96
6167602--6167654	21	2.6	21	72	3	54	35	18	7	37	1.80
6169509--6169537	12	2.4	12	100	0	58	75	6	17	0	1.01
6172972--6173081	42	2.6	39	83	12	130	29	11	6	52	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6173017--6173506	86	5.7	86	78	10	438	25	18	7	48	1.74
6172973--6173496	44	12.3	42	75	12	355	25	17	6	49	1.71
6174329--6174405	17	4.4	17	95	4	136	16	49	23	10	1.77
6174329--6174405	35	2.2	35	95	4	138	16	49	23	10	1.77
6174365--6174410	13	3.2	13	78	21	56	17	45	23	13	1.83
6181553--6181610	3	19.3	3	100	0	116	34	0	0	65	0.93
6183704--6183744	16	2.6	16	88	3	57	39	4	19	36	1.73
6194970--6195007	16	2.4	16	86	8	51	23	15	18	42	1.89
6198016--6198632	305	2.0	312	89	2	951	33	14	15	36	1.88
6198042--6198658	308	2.0	309	88	3	911	34	14	15	36	1.87

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