genome.fa.s8242.2.7.7.80.10.50.1000.18.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  18  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)
3813758--3813865	21	5.1	21	75	4	101	19	37	19	24	1.94
3815152--3815227	29	2.6	28	87	6	80	30	2	15	51	1.57
3815164--3815227	29	2.2	30	91	8	114	28	3	14	54	1.55
3815371--3815665	20	15.9	20	75	15	222	22	19	22	35	1.96
3815359--3815637	53	5.1	54	77	13	200	20	20	22	36	1.95
3815390--3815489	52	1.9	52	93	0	173	22	19	25	34	1.96
3815481--3815637	53	2.9	54	89	1	217	19	21	22	36	1.95
3816058--3816244	91	2.0	91	92	5	293	26	18	26	28	1.98
3818048--3818101	24	2.3	23	90	6	90	38	20	18	22	1.93
3818905--3819052	20	7.3	20	80	8	174	22	20	27	29	1.99
3818922--3819032	41	2.7	41	97	0	204	20	21	27	29	1.98
3818905--3819073	61	2.8	61	83	7	184	21	20	27	29	1.98
3819062--3819114	20	2.7	20	93	0	88	20	18	18	41	1.91
3818905--3819093	61	3.1	61	76	11	183	22	20	26	30	1.98
3819119--3819167	21	2.4	20	83	10	55	38	22	20	18	1.93
3830842--3830873	17	1.9	16	93	6	55	25	18	9	46	1.79
3837682--3837766	10	8.0	11	78	15	74	80	0	18	1	0.79
3837697--3837751	19	2.8	19	84	13	76	83	0	16	0	0.64
3837681--3837765	23	3.8	22	79	20	88	81	0	17	1	0.76
3837697--3837758	20	3.2	19	86	13	90	82	0	17	0	0.67
3837681--3837765	25	3.4	25	80	9	93	81	0	17	1	0.76
3837693--3837766	14	5.6	14	82	10	86	81	0	18	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3839250--3839966	113	6.5	113	89	4	1057	38	15	19	27	1.91
3839250--3839966	326	2.2	334	90	3	1137	38	15	19	27	1.91
3840456--3840513	3	19.0	3	79	10	64	34	1	0	63	1.04
3840452--3840511	28	2.1	28	81	6	68	33	1	0	65	1.03
3840456--3840513	15	3.6	16	86	9	82	34	1	0	63	1.04
3841804--3841861	30	1.9	31	85	3	82	31	1	6	60	1.33
3842206--3842230	7	3.6	7	100	0	50	28	0	12	60	1.32
3843465--3843532	17	3.9	17	80	7	57	82	0	5	11	0.83
3843454--3843527	34	2.2	33	85	2	94	82	0	4	13	0.81
3843485--3843560	20	3.9	19	73	19	68	78	0	2	18	0.86
3843453--3843560	8	12.8	8	74	14	83	78	0	3	17	0.89
3843454--3843569	25	4.8	24	76	13	96	77	0	5	17	0.94
3843454--3843560	39	2.9	35	81	10	108	79	0	3	16	0.87
3843508--3843590	35	2.3	35	87	8	123	71	0	3	25	1.02
3843613--3843660	25	2.0	25	83	4	62	66	4	4	25	1.27
3843624--3843700	41	1.9	40	84	12	104	74	3	5	16	1.16
3843650--3843700	20	2.5	20	78	12	68	78	3	5	11	1.06
3843951--3844075	36	3.6	35	78	9	139	30	13	14	41	1.84
3843976--3844072	32	2.9	33	86	10	135	28	15	13	42	1.85
3844595--3845043	104	4.3	106	85	6	569	22	18	26	33	1.96
3844595--3844972	205	1.8	206	87	3	566	23	17	26	32	1.97
3845639--3845961	65	4.8	65	81	5	288	39	9	20	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3845857--3845918	21	3.2	21	65	25	64	45	11	17	25	1.82
3845840--3845978	36	3.8	36	94	0	233	41	12	20	25	1.87
3846832--3846882	22	2.3	22	96	0	93	25	11	27	35	1.91
3847509--3847596	8	11.7	7	73	17	70	0	15	6	77	0.97
3847500--3847596	23	4.2	23	72	18	76	0	16	7	76	1.00
3847498--3847564	30	2.2	32	86	7	95	0	17	7	74	1.04
3848736--3848765	7	4.3	7	91	0	51	60	13	16	10	1.59
3849277--3849312	17	2.1	17	100	0	72	33	8	33	25	1.86
3851305--3851334	15	2.0	15	100	0	60	60	0	20	20	1.37
3851308--3851342	15	2.3	15	90	0	52	65	0	17	17	1.27
3851422--3851540	6	18.3	6	72	24	59	76	0	4	18	1.00
3851427--3851535	23	4.4	23	74	15	60	76	0	4	18	1.01
3851489--3851596	33	3.1	35	75	15	107	65	0	3	29	1.16
3851461--3851535	19	3.8	19	76	15	64	73	1	2	22	1.04
3851494--3851562	29	2.2	31	85	10	88	66	0	4	28	1.10
3851578--3851646	25	2.6	27	80	15	65	68	4	2	24	1.22
3851972--3852073	34	2.9	36	85	11	156	28	14	13	43	1.84
3852667--3852691	12	2.1	12	100	0	50	28	16	24	32	1.96
3854427--3854474	2	24.5	2	95	4	89	50	0	50	0	1.00
3856774--3856835	2	31.0	2	100	0	124	50	0	0	50	1.00
3860413--3860446	13	2.6	13	85	0	50	82	2	14	0	0.79
3861840--3862081	118	2.1	117	84	2	306	31	16	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3864032--3864121	44	2.0	44	93	0	153	30	13	22	34	1.92
3864172--3864318	42	3.5	42	75	6	129	20	19	16	44	1.87
3864142--3864344	84	2.4	84	81	2	210	21	18	14	45	1.85
3864212--3864359	42	3.5	41	77	1	143	19	18	14	47	1.83
3864214--3864367	84	1.8	84	84	2	211	20	16	14	48	1.81
3864203--3864367	42	3.9	42	75	6	120	21	18	13	46	1.84
3866621--3866750	42	3.2	42	73	14	126	33	17	16	32	1.93
3866583--3866958	81	4.6	83	77	4	332	31	18	18	31	1.95
3870930--3870968	20	2.0	20	89	0	60	41	0	0	58	0.98
3872839--3872876	20	2.0	19	90	10	60	18	21	10	50	1.76
3873309--3873377	23	2.9	23	68	8	57	44	0	2	52	1.16
3873359--3873391	14	2.5	13	90	9	57	54	0	0	45	0.99
3873541--3873587	24	2.0	23	88	8	69	36	0	4	59	1.17
3873549--3873602	24	2.2	24	83	6	65	35	0	5	59	1.21
3873925--3873971	23	2.0	23	84	8	60	57	0	2	40	1.11
3874048--3874078	14	2.2	14	94	0	53	45	3	0	51	1.17
3874586--3874817	116	2.0	116	97	0	437	29	10	19	40	1.85
3875588--3875618	2	15.5	2	100	0	62	48	0	0	51	1.00
3877966--3878185	54	4.1	54	89	3	327	32	21	18	27	1.96
3878596--3878651	21	2.7	21	97	2	105	25	26	16	32	1.96
3879641--3879827	66	2.9	64	79	8	173	27	19	22	30	1.98
3879667--3879827	66	2.5	66	85	6	204	27	18	22	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3879838--3879875	20	1.9	20	94	0	67	18	15	34	31	1.92
3882518--3882598	23	3.6	22	76	8	83	27	23	24	24	2.00
3882518--3882579	21	2.8	22	80	4	72	24	24	24	27	2.00
3888244--3888468	72	3.2	72	70	14	245	28	17	23	30	1.97
3888312--3888609	64	4.5	64	75	12	262	28	17	22	31	1.97
3888244--3888529	136	2.1	136	99	0	563	28	18	22	30	1.97
3888449--3888609	66	2.5	66	87	6	222	27	18	22	31	1.97
3891983--3892067	41	2.1	41	100	0	170	24	27	11	36	1.90
3893174--3893219	2	23.0	2	100	0	92	50	0	0	50	1.00
3893312--3893605	54	5.5	54	81	5	285	32	18	18	29	1.95
3894776--3894935	65	2.5	65	82	7	184	28	16	23	31	1.96
3895150--3895191	21	1.9	23	85	9	61	47	9	4	38	1.57
3895916--3896236	160	2.0	159	99	0	633	30	19	22	27	1.98
3897406--3897430	13	1.9	13	100	0	50	52	8	8	32	1.60
3900284--3900329	21	2.2	21	88	0	65	36	28	15	19	1.92
3900291--3900330	21	1.9	21	94	0	71	32	30	15	22	1.94
3900356--3900394	19	2.1	19	95	0	69	20	33	15	30	1.94
3900291--3900458	64	2.6	64	81	6	187	32	24	15	27	1.95
3906228--3906350	44	2.8	43	72	10	106	26	27	21	25	1.99
3908870--3908915	21	2.2	21	88	0	65	39	26	15	19	1.91
3908877--3908916	21	1.9	21	94	0	71	35	27	15	22	1.94
3908930--3908980	19	2.7	19	80	19	63	25	29	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3908877--3909041	64	2.5	65	79	8	183	33	23	16	26	1.95
3909009--3909046	19	2.0	20	94	5	69	31	31	21	15	1.94
3908927--3909068	64	2.2	63	81	9	155	33	23	15	27	1.95
3912188--3912223	11	3.4	11	96	3	65	8	25	8	58	1.55
3914396--3914463	21	3.1	23	77	8	79	30	26	22	20	1.98
3917544--3917575	16	2.0	16	100	0	64	25	25	18	31	1.98
3925627--3925677	20	2.5	20	90	0	75	31	7	23	37	1.83
3928317--3928362	17	2.7	17	93	0	83	23	52	8	15	1.70
3928968--3929126	30	5.3	30	81	3	185	11	25	21	42	1.86
3929839--3929868	14	2.1	14	100	0	60	76	0	13	10	1.01

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