genome.fa.s190.2.7.7.80.10.50.1000.38.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   57   58   59   60   61   62   

This is table  38  of  62  ( 7381 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)
9001301--9001496	56	3.3	56	68	21	166	17	21	16	44	1.87
9001293--9001539	122	2.0	122	100	0	494	19	19	17	44	1.87
9005462--9005500	20	2.0	20	89	0	60	33	10	23	33	1.88
9005796--9005892	32	3.0	32	76	0	104	26	30	17	24	1.97
9007528--9007571	22	1.9	23	81	9	54	27	34	2	36	1.70
9016418--9016528	32	3.5	32	81	2	125	24	27	19	28	1.99
9016444--9016547	32	3.2	32	81	5	120	25	24	19	30	1.98
9017458--9017503	15	3.1	15	93	0	83	28	21	26	23	1.99
9017721--9017751	16	2.0	15	93	6	53	25	32	0	41	1.56
9020465--9020534	16	4.4	16	87	0	104	38	0	35	25	1.56
9021406--9021457	20	2.6	20	93	0	86	61	11	13	13	1.57
9022855--9022905	20	2.5	21	87	6	70	33	9	25	31	1.88
9023596--9023692	23	4.2	23	92	2	142	26	18	24	29	1.98
9023580--9023692	46	2.5	46	88	2	156	24	18	25	30	1.98
9024484--9024538	28	2.0	28	92	0	92	38	10	14	36	1.81
9029523--9029561	20	2.0	20	85	10	53	25	12	12	48	1.77
9029904--9029950	23	2.0	24	87	4	69	29	8	25	36	1.86
9029827--9029994	21	7.9	21	74	7	124	26	12	25	36	1.91
9033768--9033811	23	2.0	22	86	4	61	45	2	6	45	1.42
9033841--9033897	22	2.5	24	80	11	82	45	1	5	47	1.35
9033870--9033923	29	1.9	27	92	7	90	44	0	7	48	1.31
9033934--9033992	19	3.2	18	77	18	59	37	0	1	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9033934--9033997	11	6.3	10	79	16	53	37	0	1	60	1.06
9033945--9033996	26	2.0	26	84	3	68	34	0	1	63	1.06
9034430--9034472	21	2.1	20	83	12	52	58	23	16	2	1.50
9035226--9035254	7	4.3	7	95	4	51	27	10	0	62	1.28
9039170--9039303	57	2.3	59	87	2	191	40	22	2	34	1.69
9039162--9039303	29	4.9	29	86	3	196	40	21	2	35	1.68
9039305--9039355	17	2.9	18	91	5	77	13	21	47	17	1.82
9039353--9039402	19	2.6	19	80	0	64	24	30	24	22	1.99
9046489--9046612	28	4.3	29	92	4	216	40	20	3	36	1.68
9046489--9046612	57	2.2	57	95	2	223	40	20	3	36	1.68
9050931--9050966	17	2.1	17	100	0	72	11	11	30	47	1.74
9051164--9051381	109	2.0	109	95	0	391	44	16	20	19	1.87
9054297--9054629	166	2.0	166	100	0	666	33	19	15	32	1.92
9055996--9056066	2	35.5	2	97	0	133	49	0	0	50	1.00
9057765--9057812	11	4.3	11	80	15	53	87	0	8	4	0.66
9058939--9058995	15	3.7	15	79	9	53	42	3	10	43	1.56
9059026--9059098	23	2.9	26	73	21	66	41	8	5	45	1.57
9059066--9059342	38	7.7	35	74	15	167	41	8	5	44	1.58
9059115--9059266	77	2.0	77	82	12	190	41	7	5	44	1.58
9059165--9059354	37	5.1	36	77	11	163	43	10	5	40	1.63
9062078--9062368	37	7.7	37	83	8	354	44	2	8	44	1.48
9062224--9062283	11	5.1	11	74	21	59	45	0	8	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9062382--9062441	24	2.6	24	89	5	88	46	0	5	48	1.24
9062349--9062395	2	24.5	2	91	8	80	51	0	0	48	1.00
9062360--9062442	24	3.5	23	79	9	78	46	0	3	49	1.19
9062455--9062514	20	3.0	20	75	15	63	20	5	0	75	0.99
9062464--9062523	5	12.2	5	74	22	56	16	5	1	76	1.04
9062610--9062670	25	2.4	25	86	0	77	39	32	19	8	1.81
9062631--9062678	25	1.9	25	86	0	69	39	37	16	6	1.74
9062630--9062684	25	2.2	25	80	0	65	40	38	16	5	1.72
9065178--9065219	19	2.2	19	91	0	66	23	38	21	16	1.93
9075993--9076053	22	2.7	22	87	7	79	31	21	21	26	1.98
9075984--9076053	23	3.1	22	84	10	79	30	25	18	25	1.98
9077983--9078020	16	2.4	16	90	0	58	15	0	26	57	1.38
9090813--9090920	46	2.3	46	90	0	180	30	28	21	19	1.97
9090878--9090913	18	2.0	18	94	0	63	19	33	25	22	1.97
9091421--9091470	25	2.0	25	92	0	82	24	20	12	44	1.85
9094898--9094979	18	5.0	18	68	27	74	26	30	20	21	1.98
9094879--9094986	46	2.3	46	95	0	198	30	28	21	19	1.97
9095080--9095127	20	2.4	20	89	0	69	29	20	12	37	1.90
9095511--9095560	25	2.0	25	96	0	91	24	22	12	42	1.87
9096547--9096628	40	2.0	40	95	4	148	32	26	15	24	1.95
9096897--9096921	7	3.6	7	100	0	50	16	12	0	72	1.13
9103220--9103301	40	2.0	40	93	4	139	32	23	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9106083--9106416	37	9.0	37	88	6	480	45	2	8	43	1.46
9106083--9106416	109	3.0	109	90	5	499	45	2	8	43	1.46
9106384--9106427	23	2.0	23	86	4	63	45	0	4	50	1.22
9106421--9106465	12	3.9	12	77	19	51	35	2	0	62	1.08
9106418--9106466	20	2.6	18	81	15	55	34	2	0	63	1.06
9106596--9106666	25	2.8	25	80	0	79	43	40	12	2	1.57
9109392--9109423	2	16.0	2	100	0	64	50	0	0	50	1.00
9109622--9109660	16	2.5	16	87	4	53	35	0	20	43	1.52
9116625--9116682	24	2.4	24	94	0	107	24	29	20	25	1.99
9117849--9117897	22	2.2	22	96	0	89	34	16	14	34	1.89
9118116--9118172	26	2.2	26	81	12	64	43	7	1	47	1.40
9118322--9118372	24	2.1	25	82	10	61	49	0	0	50	1.00
9118350--9118447	37	2.8	34	79	10	117	40	1	4	54	1.26
9124095--9124208	2	57.0	2	96	0	210	50	1	0	48	1.11
9136216--9136321	9	12.3	9	68	16	55	39	0	0	60	0.97
9136193--9136321	33	4.1	33	86	12	198	38	0	0	61	0.96
9136210--9136302	27	3.2	27	90	9	132	38	0	0	61	0.96
9136359--9136393	16	2.1	17	94	5	63	25	2	17	54	1.57
9146513--9146547	15	2.3	15	90	0	52	51	37	11	0	1.38
9148496--9148529	17	2.0	17	100	0	68	29	23	35	11	1.90
9152314--9152469	80	2.0	80	83	2	197	28	12	10	48	1.74
9152967--9153042	37	2.1	37	87	0	107	43	22	11	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9154002--9154043	18	2.3	18	95	0	75	30	19	21	28	1.97
9154783--9154838	3	18.7	3	100	0	112	67	0	0	32	0.91
9161557--9161616	21	2.9	21	69	0	57	25	16	20	38	1.93
9161557--9161639	42	2.0	42	85	0	112	25	14	19	40	1.89
9161654--9161706	23	2.4	21	84	6	61	18	16	28	35	1.93
9168096--9168129	16	2.1	16	100	0	68	44	17	0	38	1.49
9168424--9168468	18	2.5	18	85	0	63	28	11	2	57	1.45
9168712--9168783	28	2.6	28	90	0	117	36	30	12	20	1.90
9172873--9172933	6	10.2	6	98	0	113	50	31	0	18	1.47
9172944--9172978	18	1.9	18	88	0	52	25	11	2	60	1.45
9173988--9174157	79	2.2	79	95	0	313	21	18	20	40	1.92
9176670--9176736	23	2.9	23	80	8	75	41	17	13	26	1.87
9177882--9177923	22	1.9	22	95	0	75	9	4	35	50	1.56
9179158--9179240	23	3.7	23	85	1	96	37	26	18	18	1.93
9179167--9179263	23	4.3	23	82	1	97	36	26	16	20	1.94
9183447--9183552	23	4.7	23	82	3	117	34	25	21	17	1.96
9183518--9183654	21	6.4	21	79	5	105	40	20	14	24	1.90
9186978--9187034	25	2.2	25	81	12	62	36	0	5	57	1.21
9192005--9192072	2	34.5	2	97	2	129	0	50	0	50	1.00
9192268--9192382	2	58.0	2	98	1	223	0	49	0	50	1.00
9191801--9192338	267	2.0	270	96	3	998	24	24	13	37	1.92
9193089--9193119	16	1.9	16	100	0	62	25	6	32	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9195374--9195400	14	1.9	14	100	0	54	14	14	37	33	1.88
9220908--9220939	2	16.0	2	100	0	64	50	0	0	50	1.00
9228659--9228726	30	2.2	31	84	5	93	44	11	7	36	1.69
9236822--9236912	24	3.8	24	83	2	112	27	16	18	37	1.92
9236822--9236912	47	1.9	48	88	2	139	27	16	18	37	1.92
9239064--9239088	13	1.9	13	100	0	50	16	48	16	20	1.82
9241545--9241635	24	3.8	24	85	2	121	25	15	20	38	1.92
9241853--9241878	2	13.0	2	100	0	52	50	0	0	50	1.00
9243302--9243372	32	2.2	32	87	5	99	56	5	8	29	1.52
9245706--9245745	12	3.1	12	89	10	53	75	2	0	22	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   50   51   52   53   54   55   56   57   58   59   60   61   62