genome.fa.s8620.2.7.7.80.10.50.1000.30.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  30  of  64  ( 7674 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)
5995607--5996221	91	6.8	91	89	0	856	37	15	22	24	1.93
5995289--5995856	301	1.9	299	88	2	861	38	16	20	24	1.92
5998327--5998374	23	2.0	24	92	4	80	18	12	25	43	1.85
6001638--6001947	154	2.0	156	98	1	606	47	11	8	32	1.70
6003797--6003856	23	2.6	23	94	0	102	18	28	26	26	1.98
6009397--6009443	16	3.0	16	81	9	53	53	0	0	46	1.00
6009617--6009658	3	14.0	3	100	0	84	66	0	0	33	0.92
6011259--6011305	16	3.0	16	81	9	53	53	0	0	46	1.00
6011602--6011657	28	2.0	29	82	10	71	55	7	3	33	1.45
6012922--6012948	3	9.0	3	100	0	54	66	0	0	33	0.92
6013270--6013842	234	2.4	234	86	6	781	27	16	16	40	1.89
6013641--6013842	112	1.8	112	91	2	334	26	17	14	41	1.88
6015014--6015051	18	2.1	18	95	0	67	55	5	7	31	1.51
6015411--6015453	22	2.0	22	86	9	61	9	13	0	76	1.01
6015408--6015457	10	4.8	10	79	15	57	8	14	0	78	0.97
6025540--6025582	16	2.6	17	82	7	54	51	0	0	48	1.00
6027221--6027271	3	17.0	3	87	0	57	56	0	1	41	1.10
6028920--6028955	17	2.1	17	94	0	63	19	16	25	38	1.92
6029101--6029236	71	1.9	74	87	4	206	24	21	26	27	1.99
6031475--6031536	26	2.5	22	74	23	52	46	3	1	48	1.28
6036120--6036341	31	7.2	31	94	0	381	34	15	10	39	1.82
6036222--6036306	16	5.4	16	64	25	56	34	16	10	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6036851--6037073	64	3.5	65	80	6	195	29	19	18	32	1.96
6036915--6036959	19	2.4	19	85	10	58	26	26	17	28	1.98
6040243--6040555	31	10.2	31	94	1	549	33	15	11	39	1.83
6040240--6040554	92	3.4	93	96	0	562	34	14	11	39	1.83
6041064--6041271	64	3.2	64	80	4	197	28	19	19	32	1.96
6041149--6041288	64	2.2	64	79	5	158	29	20	18	31	1.97
6049862--6049902	22	1.9	22	90	5	66	73	0	0	26	0.84
6050023--6050067	14	2.8	17	74	19	51	62	0	2	35	1.08
6050179--6050221	22	2.0	21	86	8	61	74	0	0	25	0.82
6052203--6052266	32	2.0	32	93	0	110	26	10	6	56	1.57
6052204--6052258	16	3.4	16	67	18	51	27	5	5	61	1.40
6053907--6053967	30	2.0	31	87	3	88	22	39	16	21	1.92
6055548--6055613	23	2.9	23	86	0	69	39	42	9	9	1.68
6056818--6056860	6	7.2	6	82	10	52	18	0	0	81	0.69
6056818--6056887	17	4.0	17	72	10	61	20	0	2	77	0.90
6056828--6056881	13	4.0	13	81	9	63	18	0	3	77	0.91
6067359--6067945	139	4.2	139	88	0	829	35	17	20	27	1.94
6080583--6080637	28	2.0	28	88	0	83	27	10	23	38	1.88
6081446--6081484	17	2.2	18	90	4	62	43	2	0	53	1.14
6087854--6087883	12	2.4	12	94	5	51	40	0	0	60	0.97
6087838--6087886	14	3.5	13	81	15	53	36	2	0	61	1.08
6088437--6088500	12	5.3	12	72	12	51	15	1	9	73	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6088430--6088490	20	3.1	19	77	15	70	14	1	9	73	1.16
6088422--6088497	35	2.2	35	81	13	86	15	2	9	72	1.21
6089501--6089529	15	2.0	15	93	6	51	17	6	0	75	1.01
6090035--6090064	14	2.1	14	100	0	60	33	20	13	33	1.91
6090780--6090819	17	2.4	17	91	0	62	37	20	27	15	1.92
6092701--6092725	2	12.5	2	100	0	50	48	0	0	52	1.00
6092705--6092832	47	2.8	46	83	10	163	31	2	0	65	1.10
6092775--6092907	9	13.9	9	68	16	54	19	5	0	74	1.05
6092677--6092842	45	3.8	44	74	15	141	30	1	1	66	1.10
6092752--6092830	37	2.2	37	86	6	108	27	2	0	69	1.01
6092726--6092906	49	3.9	44	75	15	118	22	4	1	71	1.12
6100029--6100144	61	1.9	58	81	8	135	52	13	21	12	1.73
6100123--6100184	9	7.6	8	82	13	74	82	0	17	0	0.67
6100125--6100184	7	8.6	7	75	10	52	83	0	16	0	0.65
6100124--6100179	17	3.2	17	87	9	78	83	0	16	0	0.64
6100124--6100179	26	2.2	26	90	6	87	83	0	16	0	0.64
6100938--6101297	110	3.3	110	84	4	446	33	22	20	24	1.97
6102072--6102121	23	2.3	21	82	6	64	46	2	2	50	1.24
6103352--6103387	2	18.5	2	94	5	65	47	0	0	52	1.00
6103349--6103385	17	2.2	17	100	0	74	45	0	0	54	1.00
6103352--6103388	19	1.9	19	100	0	74	45	0	0	54	1.00
6103409--6103465	5	11.0	5	80	14	62	19	1	0	78	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6103409--6103465	26	2.2	26	87	6	80	19	1	0	78	0.83
6103460--6103504	21	2.2	20	80	11	54	24	4	6	64	1.37
6103822--6103995	13	12.5	13	69	21	79	17	3	5	73	1.16
6103823--6103871	19	2.6	18	83	6	53	22	2	2	73	1.04
6103808--6103994	8	22.2	8	65	15	74	17	3	5	73	1.16
6103915--6103993	4	19.0	4	76	12	70	17	1	5	75	1.04
6103917--6103993	33	2.3	33	84	4	102	16	1	5	76	1.03
6108540--6108586	18	2.6	18	80	10	51	46	6	0	46	1.28
6109315--6109440	35	3.6	35	87	1	180	57	15	5	22	1.59
6110188--6110271	14	5.7	15	72	17	68	38	7	10	44	1.67
6110186--6110269	29	2.8	30	75	15	93	38	7	10	44	1.67
6111485--6111521	20	1.9	19	89	10	58	45	10	24	18	1.81
6116877--6116993	27	4.3	27	78	3	119	20	14	0	64	1.34
6127984--6128045	5	12.0	5	76	19	56	82	0	14	3	0.80
6127992--6128045	16	3.2	16	80	15	65	83	0	12	3	0.78
6129527--6129568	18	2.3	18	88	8	59	33	2	4	59	1.31
6129582--6129665	14	5.7	14	76	10	71	38	8	9	44	1.67
6129583--6129649	29	2.3	30	89	2	100	38	8	8	43	1.68
6129597--6129663	15	4.5	15	74	12	57	38	7	10	43	1.67
6130359--6130395	18	2.0	19	94	5	67	83	0	10	5	0.79
6134465--6134856	85	4.6	84	79	7	380	39	18	6	36	1.76
6134456--6134856	170	2.4	170	84	4	522	39	17	6	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6134854--6135060	18	11.6	18	83	5	242	27	5	23	44	1.74
6134854--6135060	53	3.9	53	87	4	265	27	5	23	44	1.74
6136860--6136956	42	2.3	42	89	0	140	29	37	16	16	1.91
6137522--6137619	21	4.7	21	83	0	115	22	36	19	21	1.95
6137526--6137619	42	2.2	42	92	0	152	22	37	20	20	1.95
6139322--6139354	15	2.2	15	94	0	57	15	0	15	69	1.19
6139327--6139362	15	2.4	15	90	0	54	16	2	11	69	1.29
6141629--6141682	24	2.2	24	90	0	81	40	14	18	25	1.89
6141645--6141696	24	2.2	24	82	6	61	36	17	19	26	1.94
6142426--6142462	16	2.4	16	86	8	51	64	0	5	29	1.15
6142621--6142686	20	3.3	20	76	16	73	36	13	22	27	1.92
6142621--6142768	40	3.7	40	85	5	149	33	16	23	27	1.96
6142639--6142768	20	6.5	20	84	5	165	32	16	24	26	1.96
6142639--6142774	60	2.3	60	87	5	186	33	16	25	25	1.96
6143597--6143630	14	2.3	15	90	5	52	11	5	2	79	1.02
6145906--6145935	15	1.9	16	93	6	53	20	33	26	20	1.97
6149254--6149340	30	2.9	30	75	13	88	28	22	6	41	1.80
6150277--6150400	15	8.3	15	81	4	117	32	18	4	45	1.68
6150934--6151181	60	4.1	60	89	1	381	31	9	19	39	1.83
6154486--6154816	163	2.0	166	97	2	623	26	19	26	28	1.98
6160436--6160483	20	2.4	19	93	6	78	22	22	6	47	1.73
6160436--6160490	20	2.8	20	88	5	58	23	25	5	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6162028--6162085	28	2.1	28	90	0	89	36	10	15	37	1.82
6162666--6162721	28	2.0	28	82	6	69	25	17	25	32	1.97
6164808--6164846	20	2.0	20	94	0	69	53	15	10	20	1.70
6165073--6165131	29	2.0	29	100	0	118	40	16	16	25	1.90
6168377--6168418	19	2.2	19	100	0	84	9	7	30	52	1.61
6169801--6169865	16	4.1	16	89	0	103	9	10	21	58	1.59
6169933--6169965	16	2.1	16	94	0	57	9	12	24	54	1.66
6176680--6176714	18	1.9	18	100	0	70	60	11	5	22	1.52
6185461--6185495	14	2.4	15	90	4	54	80	0	2	17	0.84
6198664--6198718	22	2.6	22	85	5	78	38	10	25	25	1.88

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