genome.fa.s8242.2.7.7.80.10.50.1000.54.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  54  of  73  ( 8740 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)
12811098--12811195	26	3.7	26	85	8	128	4	15	0	80	0.85
12824752--12824804	24	2.2	24	83	6	63	54	7	7	30	1.56
12825616--12825649	16	2.3	14	90	10	50	50	0	0	50	1.00
12825750--12825782	16	2.1	16	94	0	57	72	0	0	27	0.85
12825759--12825811	28	1.9	28	88	3	81	71	0	3	24	1.02
12827969--12828025	2	28.5	2	100	0	114	50	0	0	49	1.00
12828366--12828457	37	2.5	36	84	8	114	42	2	10	44	1.51
12828657--12828716	1	60.0	1	86	0	84	5	0	93	1	0.41
12828657--12828716	21	2.8	22	87	5	95	5	0	93	1	0.41
12828719--12829004	4	73.5	4	79	6	212	37	0	61	0	1.04
12828719--12829004	6	49.0	6	77	6	212	37	0	61	0	1.04
12830260--12830342	29	2.8	29	92	1	139	43	9	14	32	1.78
12834007--12834089	29	2.8	29	92	1	139	43	9	14	32	1.78
12835363--12835654	145	2.0	145	100	0	584	32	14	7	45	1.73
12837051--12837079	2	14.5	2	100	0	58	51	0	0	48	1.00
12838181--12838211	2	15.5	2	100	0	62	48	0	51	0	1.00
12839495--12839532	14	2.7	14	84	11	51	21	10	28	39	1.86
12840353--12840392	17	2.4	17	91	0	62	47	2	0	50	1.14
12840363--12840432	23	3.0	23	77	12	70	51	1	1	45	1.18
12840611--12840710	37	2.9	34	80	15	93	50	4	0	46	1.20
12840651--12840715	32	1.9	33	87	9	96	46	4	0	49	1.22
12840720--12840778	28	2.1	28	81	9	66	52	0	3	44	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12840898--12840956	14	3.7	14	74	25	55	49	1	1	47	1.21
12841158--12841241	29	3.0	28	72	8	80	46	4	5	42	1.49
12845834--12846143	155	2.0	155	98	1	595	40	7	11	40	1.71
12852717--12852762	21	2.2	21	96	0	83	52	23	4	19	1.64
12862390--12862519	42	3.1	42	78	2	125	43	16	11	28	1.83
12862404--12862525	43	2.9	43	80	1	120	41	17	12	28	1.85
12862512--12862652	41	3.5	41	81	3	151	36	14	21	28	1.92
12862512--12862614	40	2.5	40	87	1	143	37	15	19	27	1.92
12862518--12862676	41	3.9	41	80	3	133	37	15	20	26	1.92
12862517--12862697	41	4.4	41	78	5	118	36	14	21	27	1.93
12862786--12863214	83	5.2	83	83	3	436	36	17	13	32	1.89
12864809--12864893	30	2.9	29	81	10	91	44	9	16	29	1.79
12865817--12865880	30	2.1	30	85	5	85	34	7	21	35	1.83
12867783--12867915	45	3.0	45	95	1	232	39	6	21	32	1.79
12868639--12868736	23	4.3	22	84	5	115	37	23	20	18	1.94
12868635--12868729	46	2.0	47	85	2	129	37	25	18	17	1.93
12876328--12876423	23	4.2	23	74	10	90	37	23	20	17	1.94
12876332--12876424	46	2.0	45	84	12	118	37	24	20	17	1.93
12877095--12877164	35	2.0	35	83	10	90	31	18	17	32	1.94
12884194--12884221	2	14.0	2	100	0	56	50	0	0	50	1.00
12887268--12887300	12	2.8	12	95	0	57	24	27	21	27	1.99
12894209--12894264	26	2.2	26	96	0	103	7	46	28	17	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12900035--12900076	2	21.0	2	100	0	84	50	0	0	50	1.00
12901485--12901524	2	20.5	2	94	5	73	50	0	0	50	1.00
12901470--12901529	8	8.6	7	86	13	56	53	0	0	46	1.00
12901815--12902101	31	9.2	31	90	3	368	34	19	17	28	1.95
12901822--12902100	95	3.0	93	89	7	397	34	19	18	28	1.95
12901815--12902099	63	4.5	62	88	4	364	34	19	17	28	1.95
12902929--12902975	20	2.3	20	92	0	76	34	27	17	21	1.95
12903813--12903855	21	2.0	21	90	0	68	25	6	6	60	1.48
12904088--12904131	19	2.2	20	84	4	54	38	4	2	54	1.33
12904100--12904193	16	6.2	16	70	18	51	39	3	1	56	1.22
12907455--12907538	2	42.5	2	97	2	161	50	0	0	50	1.00
12915935--12915990	25	2.2	25	87	6	78	25	23	3	48	1.67
12933865--12933907	21	2.0	21	90	0	68	32	27	23	16	1.96
12934434--12934754	103	3.1	103	95	0	588	26	13	23	36	1.92
12934771--12934833	23	2.7	23	85	4	83	20	25	26	26	1.99
12940949--12940985	19	1.9	19	88	0	56	24	35	29	10	1.89
12941468--12941784	103	3.1	103	94	1	564	25	12	24	37	1.90
12941805--12941856	23	2.3	23	86	0	68	21	28	25	25	1.99
12941804--12941867	23	2.8	23	76	4	67	21	25	25	28	1.99
12947514--12947577	28	2.3	28	94	0	110	48	23	3	25	1.65
12961821--12961875	19	2.8	19	80	5	56	21	25	25	27	2.00
12961870--12961924	27	2.0	27	89	0	83	16	38	25	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12961878--12961949	27	2.6	27	80	6	63	16	44	23	15	1.86
12961950--12962056	29	3.7	29	87	2	144	34	5	22	37	1.78
12967489--12967540	20	2.6	20	96	0	95	38	26	13	21	1.90
12967530--12967628	21	4.8	20	72	6	72	36	23	19	21	1.95
12967595--12967788	20	9.6	20	81	5	221	35	25	19	19	1.95
12967595--12967788	60	3.2	60	83	0	253	35	25	19	19	1.95
12968170--12968240	33	2.2	33	92	0	115	11	22	18	47	1.80
12968361--12968415	14	3.6	14	73	21	56	40	23	27	9	1.85
12968361--12968431	33	2.2	33	92	0	115	42	25	23	8	1.82
12968427--12968524	19	5.7	19	70	22	81	11	23	22	42	1.85
12968449--12968538	14	5.7	14	72	23	72	10	24	23	42	1.84
12968432--12968546	33	3.5	33	92	0	203	10	23	20	45	1.82
12969786--12969857	38	1.9	38	94	2	128	29	1	16	52	1.52
12969839--12969874	14	2.6	14	95	0	63	33	0	22	44	1.53
12969981--12970082	19	5.6	19	84	13	151	44	17	23	14	1.86
12970111--12970417	19	17.4	19	79	16	358	14	20	18	47	1.83
12970111--12970350	71	3.4	71	83	11	355	15	20	17	47	1.83
12970079--12970417	142	2.4	136	89	6	504	14	20	18	46	1.83
12970111--12970389	52	5.2	52	90	6	354	14	20	17	47	1.83
12972921--12972967	24	2.0	24	87	8	69	38	21	14	25	1.92
12973640--12974007	20	18.5	20	85	5	440	20	18	26	34	1.96
12974077--12974113	13	2.7	14	91	8	67	8	18	27	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12977232--12977272	8	5.2	8	82	5	57	34	0	29	36	1.58
12977345--12978355	128	7.9	128	89	1	1578	22	25	19	32	1.98
12977350--12978355	256	3.9	256	95	0	1778	22	25	19	31	1.98
12978756--12978855	33	3.0	34	83	2	139	39	3	4	54	1.35
12981214--12981257	19	2.4	19	81	7	56	54	2	0	43	1.12
12981201--12981288	17	5.1	18	70	21	55	59	2	0	38	1.10
12981229--12981300	34	2.1	34	82	10	85	63	5	0	30	1.17
12987694--12987824	60	2.2	60	94	0	235	39	18	7	34	1.79
12989484--12989525	3	14.3	3	95	5	77	64	0	0	35	0.94
12990909--12990957	19	2.5	20	83	6	64	48	0	2	48	1.12
12991088--12991141	28	1.9	28	81	7	65	33	1	1	62	1.16
12991136--12991409	142	1.9	139	82	5	336	35	6	8	48	1.60
12991989--12992075	43	2.0	43	97	0	165	25	20	14	39	1.91
12996039--12996348	165	1.9	165	91	1	514	39	11	22	26	1.89
12996539--12996610	8	8.8	8	86	4	99	83	0	15	1	0.72
12996550--12996610	7	8.7	7	82	10	72	85	0	14	0	0.60
12996540--12996610	33	2.1	33	94	2	124	84	0	14	1	0.69
12996540--12996604	26	2.6	25	90	2	94	84	0	13	1	0.69
12996539--12996610	9	8.7	9	79	14	66	83	0	15	1	0.72
13000781--13000935	50	2.9	53	82	9	192	36	14	23	25	1.93
13001302--13001378	22	3.5	22	90	0	118	35	11	10	42	1.76
13002052--13002461	76	5.4	76	96	0	748	23	20	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13002613--13002654	3	14.3	3	95	5	77	64	0	0	35	0.94
13002653--13002680	3	9.3	3	100	0	56	35	0	0	64	0.94
13004019--13004067	19	2.5	20	83	6	64	48	0	2	48	1.12
13004229--13004483	141	1.8	141	81	6	320	36	7	7	47	1.62
13004452--13004510	30	2.0	30	83	6	75	42	1	0	55	1.09
13007094--13007220	44	3.2	41	67	28	103	25	3	12	58	1.49
13007091--13007252	76	2.1	76	90	1	252	28	2	11	57	1.47
13007238--13007268	9	3.4	9	90	0	53	38	0	0	61	0.96
13007238--13007279	18	2.3	18	91	0	66	35	0	0	64	0.94
13007917--13007960	18	2.4	19	84	3	54	22	4	0	72	1.02

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   63   64   
          65   66   67   68   69   70   71   72   73