genome.fa.s7984.2.7.7.80.10.50.1000.51.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  51  of  65  ( 7696 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)
10026180--10026339	70	2.4	67	92	6	261	43	7	4	45	1.52
10028336--10028461	33	3.7	33	89	10	200	42	7	3	46	1.52
10030454--10030572	33	3.5	34	89	6	172	45	7	4	42	1.52
10032566--10032684	33	3.5	34	89	6	172	45	7	4	42	1.52
10034687--10034805	33	3.5	34	90	6	181	43	8	5	42	1.56
10036804--10036892	33	2.7	33	96	3	162	42	7	4	44	1.53
10038883--10039002	34	3.5	34	89	7	174	44	8	5	42	1.56
10040330--10040367	9	4.2	9	83	12	51	42	0	2	55	1.14
10046859--10046888	16	1.9	15	93	6	51	50	0	0	50	1.00
10061865--10061940	31	2.5	30	78	4	80	31	1	2	64	1.15
10062091--10062144	22	2.4	23	93	6	101	16	31	20	31	1.95
10068616--10068679	27	2.4	26	77	12	67	34	4	3	57	1.35
10074491--10074538	17	3.0	15	77	14	51	56	27	2	14	1.50
10076520--10076580	20	2.9	20	82	7	50	16	24	32	26	1.96
10084016--10084050	16	2.2	16	100	0	70	17	25	25	31	1.97
10095636--10095677	16	2.6	16	88	0	57	45	23	7	23	1.78
10095735--10096033	35	8.5	35	87	1	393	39	19	23	18	1.92
10095724--10096033	105	2.9	105	89	0	440	38	19	22	18	1.93
10096192--10096290	3	34.3	3	77	11	100	36	4	0	59	1.16
10097590--10097653	27	2.4	26	77	12	67	34	4	3	57	1.35
10099380--10099422	6	7.2	6	91	0	68	13	62	2	20	1.42
10099376--10099422	24	2.0	24	95	0	85	12	63	4	19	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10099639--10099663	12	2.1	12	100	0	50	32	32	0	36	1.58
10099860--10099888	15	1.9	15	100	0	58	20	10	6	62	1.50
10104034--10104127	36	2.6	36	83	5	118	57	15	7	19	1.62
10104818--10105363	143	3.8	142	84	2	664	37	9	16	35	1.82
10104818--10105363	286	1.9	287	84	3	733	37	9	16	35	1.82
10105528--10105725	43	4.6	43	76	9	156	26	20	24	27	1.99
10105630--10105742	43	2.6	43	80	8	106	26	22	20	30	1.98
10106066--10106138	21	3.4	22	81	7	87	1	41	17	39	1.58
10106238--10106277	15	2.7	15	100	0	80	27	12	27	32	1.93
10114285--10114311	14	1.9	14	100	0	54	44	7	7	40	1.60
10115563--10115721	83	1.9	83	81	2	194	34	20	11	32	1.89
10118954--10119057	39	2.7	39	84	0	127	32	18	25	24	1.97
10118995--10119070	39	1.9	39	89	0	116	30	21	25	23	1.99
10119717--10119758	21	2.0	22	85	4	59	59	16	7	16	1.58
10121686--10121712	2	13.5	2	100	0	54	48	0	0	51	1.00
10123000--10123045	22	2.0	23	83	4	58	13	0	41	45	1.43
10127637--10127737	48	2.1	48	87	1	141	38	22	18	19	1.93
10133219--10133331	30	3.8	30	74	0	91	15	26	17	39	1.90
10137174--10137213	3	13.7	3	92	5	64	37	0	0	62	0.95
10137177--10137222	23	2.0	23	91	0	74	41	2	0	56	1.11
10137170--10137224	26	2.1	26	89	0	83	43	1	0	54	1.10
10146197--10146247	22	2.3	23	80	10	61	25	33	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10150439--10150478	19	2.1	19	90	4	62	2	7	7	82	0.92
10158151--10158212	24	2.5	25	94	2	108	20	37	11	30	1.88
10159616--10159705	47	1.9	47	100	0	180	23	24	15	36	1.94
10162203--10162227	2	12.5	2	100	0	50	48	0	0	52	1.00
10166743--10166777	8	4.4	8	92	0	52	71	0	28	0	0.86
10168035--10168074	15	2.6	15	96	4	71	15	27	30	27	1.96
10168123--10168179	15	3.7	15	81	9	78	15	28	35	21	1.94
10168113--10168179	32	2.1	32	94	0	116	16	26	34	22	1.95
10171889--10171944	10	5.6	10	76	16	62	76	0	5	17	0.96
10171889--10171936	16	3.0	16	79	11	53	77	0	6	16	0.97
10171889--10171936	22	2.3	20	89	7	69	77	0	6	16	0.97
10172250--10172317	2	37.0	2	76	16	58	54	1	1	42	1.18
10172253--10172329	37	2.1	37	85	9	104	55	1	3	38	1.26
10172788--10172892	37	2.8	37	88	0	156	30	14	15	40	1.87
10173623--10174686	106	10.0	106	90	1	1587	23	17	24	34	1.96
10174728--10174922	88	2.2	88	95	0	345	24	19	22	33	1.97
10176627--10176675	12	3.9	12	80	17	55	2	10	6	81	0.94
10176627--10176708	26	3.1	24	76	16	74	1	10	7	80	0.96
10176640--10176711	32	2.3	31	83	9	83	0	12	6	80	0.89
10176628--10176711	14	6.1	15	75	15	60	1	11	7	79	0.97
10181114--10181161	10	4.6	10	80	10	60	77	0	6	16	0.97
10181114--10181161	16	3.0	16	79	11	53	77	0	6	16	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10181114--10181161	22	2.3	20	89	7	69	77	0	6	16	0.97
10181458--10181521	34	1.9	32	87	6	92	57	1	3	37	1.24
10181998--10182083	37	2.3	37	87	0	118	30	16	11	41	1.83
10188853--10188905	24	2.3	23	74	6	54	39	1	5	52	1.36
10196026--10196067	22	1.9	22	90	9	68	14	11	4	69	1.34
10199684--10199756	38	1.9	38	94	0	128	42	6	10	39	1.67
10200981--10201034	18	3.0	18	86	5	56	33	12	31	22	1.92
10201000--10201038	9	4.3	9	100	0	78	30	10	33	25	1.89
10206314--10206347	16	2.1	16	94	0	59	32	26	8	32	1.87
10208715--10208823	36	3.0	36	73	7	96	35	17	18	28	1.93
10210322--10210364	12	2.8	17	67	32	51	58	11	6	23	1.57
10210494--10210549	20	2.8	20	83	0	76	44	17	14	23	1.85
10210787--10210827	21	2.0	21	86	13	59	58	26	0	14	1.37
10216698--10216725	13	2.2	13	100	0	56	21	17	0	60	1.36
10219177--10219681	5	103.0	5	92	7	860	59	0	0	40	0.97
10219177--10219937	8	84.8	10	70	23	396	55	2	1	41	1.20
10219796--10219937	14	10.0	14	72	13	78	47	4	3	43	1.41
10219804--10219869	13	5.2	13	83	1	64	43	3	4	48	1.38
10219925--10220097	53	3.1	55	86	8	235	42	4	4	48	1.42
10220085--10220120	17	2.2	17	90	5	56	41	0	5	52	1.24
10220774--10220975	53	3.8	54	78	10	211	22	33	2	41	1.67
10222322--10222379	30	1.9	31	89	3	91	29	3	3	63	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10232770--10232827	20	2.9	20	76	0	53	46	3	0	50	1.18
10232892--10232931	16	2.4	16	91	4	62	47	10	15	27	1.77
10239333--10239388	27	2.1	27	96	0	103	42	5	3	48	1.43
10240843--10240882	15	2.7	15	100	0	80	30	5	12	52	1.60
10241400--10241437	2	19.0	2	100	0	76	50	0	0	50	1.00
10241589--10241644	2	28.0	2	100	0	112	50	0	0	50	1.00
10245749--10245796	2	24.0	2	100	0	96	50	0	0	50	1.00
10249444--10249483	15	2.7	15	100	0	80	30	5	12	52	1.60
10253801--10254030	116	2.0	116	99	0	451	35	19	11	34	1.87
10254330--10254361	2	16.0	2	100	0	64	50	0	0	50	1.00
10257124--10257163	15	2.7	15	92	0	62	30	5	7	57	1.48
10257779--10257820	2	21.0	2	100	0	84	50	0	0	50	1.00
10259259--10259287	3	9.7	3	100	0	58	65	0	0	34	0.93
10261379--10261418	15	2.7	15	100	0	80	30	5	12	52	1.60
10261615--10261666	22	2.3	23	93	6	97	63	3	7	25	1.38
10268629--10268668	15	2.7	15	100	0	80	30	5	12	52	1.60
10268865--10268916	22	2.3	23	93	6	97	63	3	7	25	1.38
10272345--10272404	2	30.0	2	100	0	120	50	0	0	50	1.00
10275912--10275951	15	2.7	15	100	0	80	30	5	12	52	1.60
10276148--10276199	22	2.3	23	93	6	97	63	3	7	25	1.38
10279634--10279691	2	29.0	2	100	0	116	50	0	0	50	1.00
10283200--10283239	15	2.7	15	88	0	62	32	2	12	52	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10283834--10283861	2	14.0	2	100	0	56	50	0	0	50	1.00
10294507--10294550	2	22.0	2	100	0	88	50	0	0	50	1.00
10295980--10296014	3	11.7	3	100	0	70	65	0	0	34	0.93
10297070--10297105	16	2.2	16	90	0	54	38	30	27	2	1.71
10298861--10298921	26	2.3	26	100	0	122	31	18	14	36	1.91
10300749--10300855	54	2.0	55	92	1	180	44	12	21	21	1.84
10300760--10300878	55	2.2	54	85	7	152	44	15	21	18	1.87
10301540--10301762	72	3.1	72	94	0	383	37	12	26	23	1.90
10306526--10306639	37	3.1	37	91	2	185	34	23	16	25	1.95
10306526--10306665	37	3.8	36	83	4	165	33	22	19	24	1.97

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