genome.fa.s7.2.7.7.80.10.50.1000.16.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: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Length:  38743931

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   

This is table  16  of  144  ( 17169 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)
3934826--3935129	116	2.6	114	86	5	342	26	11	25	36	1.90
3941622--3941716	36	2.6	36	86	1	127	35	13	27	23	1.92
3942217--3942592	116	3.2	116	93	1	612	28	9	26	35	1.88
3944067--3944139	34	2.1	35	87	2	103	26	20	10	42	1.85
3946696--3946825	27	4.8	26	81	5	107	28	18	19	33	1.95
3946671--3946825	54	2.9	54	80	4	150	31	19	18	30	1.95
3951626--3951720	30	3.3	30	68	11	72	55	2	4	37	1.31
3952501--3952540	21	2.0	20	85	5	53	37	5	0	57	1.21
3954051--3954324	34	8.8	33	74	14	253	40	22	1	35	1.63
3954006--3954320	62	5.1	62	91	1	463	40	21	1	36	1.64
3957944--3957985	21	2.0	20	86	4	57	28	28	11	30	1.92
3965593--3965660	22	3.1	22	93	0	118	10	22	26	41	1.85
3965597--3965692	22	4.2	23	78	13	83	12	22	21	42	1.87
3966836--3966869	12	2.8	12	90	4	50	38	0	0	61	0.96
3978671--3978718	22	2.1	23	84	3	62	45	2	6	45	1.40
3979792--3979846	23	2.4	22	82	8	65	43	3	1	50	1.30
3979775--3979847	6	12.7	6	72	18	57	42	4	1	52	1.29
3979795--3979862	17	3.9	17	80	16	61	44	2	1	51	1.25
3979775--3979847	11	6.3	12	74	16	57	42	4	1	52	1.29
3979772--3979848	12	6.8	11	76	10	75	44	3	1	50	1.28
3981419--3981742	161	2.0	162	89	1	490	25	14	13	45	1.82
3981849--3982215	30	12.3	30	90	2	472	36	25	3	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3982197--3982363	29	5.7	27	70	13	109	31	26	6	35	1.82
3982197--3982384	58	3.2	58	88	1	279	31	26	5	36	1.80
3982226--3982384	29	5.4	29	69	16	105	32	26	5	35	1.80
3994314--3994962	68	9.5	68	94	0	1064	34	18	20	27	1.95
3995277--3995331	23	2.4	22	82	8	65	43	3	1	50	1.30
3995260--3995332	6	12.7	6	72	18	57	42	4	1	52	1.29
3995280--3995347	17	3.9	17	80	16	61	44	2	1	51	1.25
3995260--3995332	11	6.3	12	74	16	57	42	4	1	52	1.29
3995257--3995333	12	6.8	11	76	10	75	44	3	1	50	1.28
3996950--3997259	162	1.9	159	85	5	383	26	15	12	45	1.82
3997330--3997680	30	11.7	30	88	2	476	36	25	3	34	1.72
3997343--3997762	60	7.1	57	83	7	343	35	26	3	34	1.73
3997662--3997918	29	8.7	29	68	12	121	30	29	6	33	1.83
3997662--3997918	59	4.4	59	89	1	363	30	29	6	33	1.83
3997662--3997918	119	2.2	117	87	1	361	30	29	6	33	1.83
3997691--3997918	30	7.7	28	66	18	97	30	29	6	33	1.83
4007791--4007836	23	1.9	23	86	8	65	58	6	2	32	1.36
4009902--4009937	8	4.4	8	96	3	63	77	0	11	11	0.99
4009862--4009970	6	17.3	6	76	11	60	74	1	6	17	1.12
4010020--4010064	16	2.8	17	74	19	51	73	2	2	22	1.05
4013916--4013961	24	1.9	23	86	8	65	56	6	4	32	1.45
4014038--4014065	13	2.2	13	100	0	56	50	14	0	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4031086--4031170	25	3.4	25	90	1	116	21	21	23	34	1.97
4031328--4031373	23	2.0	23	86	0	65	32	13	19	34	1.90
4032052--4032162	52	2.1	51	80	12	120	20	7	9	63	1.48
4032668--4032738	30	2.4	30	92	0	115	23	18	15	42	1.88
4033255--4033288	17	2.0	17	88	0	50	35	2	5	55	1.39
4033937--4033999	30	2.1	30	91	5	101	26	3	14	55	1.54
4034676--4034732	29	1.9	30	89	3	89	29	10	14	45	1.78
4035253--4035295	19	2.3	18	84	11	52	58	2	0	39	1.11
4035253--4035339	9	9.7	9	69	10	54	57	1	0	41	1.06
4035454--4035484	16	1.9	16	93	0	53	29	6	16	48	1.70
4036425--4036466	17	2.4	17	84	11	50	16	7	2	73	1.15
4036496--4036559	27	2.6	25	85	9	78	21	3	6	68	1.26
4039119--4039147	2	14.5	2	100	0	58	0	48	0	51	1.00
4039162--4039202	17	2.4	17	100	0	82	34	7	19	39	1.80
4041134--4041178	21	2.1	22	87	4	65	64	0	26	8	1.23
4041134--4041171	11	3.5	11	82	7	51	65	0	23	10	1.23
4053614--4053644	16	1.9	16	93	0	53	38	0	25	35	1.56
4053883--4053936	28	2.0	28	85	3	74	46	7	14	31	1.73
4059918--4060016	50	2.0	50	95	0	180	31	16	32	20	1.94
4063399--4063453	23	2.5	21	79	8	56	49	5	0	45	1.25
4072080--4072167	23	3.9	23	82	4	81	9	29	14	46	1.76
4078160--4078366	41	5.0	41	70	15	122	23	17	26	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4080243--4080438	26	7.5	26	87	1	209	25	22	19	32	1.98
4080237--4080435	78	2.6	78	83	4	233	26	22	19	32	1.97
4085033--4085131	39	2.5	41	88	6	159	30	18	21	30	1.97
4089831--4090010	52	3.5	52	86	1	254	36	23	13	26	1.92
4104710--4104803	26	3.7	26	72	16	81	54	1	1	43	1.14
4105555--4105588	14	2.5	13	90	9	59	70	5	0	23	1.09
4107448--4107488	14	2.8	15	88	3	66	53	2	2	41	1.27
4108811--4108888	5	15.6	5	68	10	52	35	19	10	34	1.85
4108837--4108888	20	2.6	20	81	0	68	34	19	11	34	1.88
4124253--4124645	72	5.6	72	84	7	536	23	4	16	55	1.60
4124343--4124400	26	2.2	26	100	0	116	18	3	22	55	1.58
4124360--4124440	40	2.0	40	100	0	162	24	2	20	51	1.59
4124386--4124414	14	2.1	14	100	0	58	34	0	17	48	1.47
4124257--4124645	138	2.8	144	85	6	546	23	4	16	55	1.60
4126016--4126044	3	9.7	3	100	0	58	31	0	34	34	1.58
4127033--4127117	18	4.8	18	70	2	55	31	18	22	27	1.97
4132386--4132553	41	4.1	41	74	13	157	22	18	27	31	1.97
4134432--4134707	26	10.6	26	86	3	258	26	21	18	33	1.96
4134614--4134734	52	2.3	52	82	0	143	29	19	17	33	1.94
4135908--4135938	2	15.5	2	93	0	53	0	45	0	54	0.99
4139333--4139429	39	2.5	38	90	6	149	31	18	22	26	1.97
4143783--4143881	40	2.5	41	88	6	150	29	20	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145897--4145931	3	11.7	3	93	0	61	71	0	28	0	0.86
4146909--4146998	28	3.1	27	75	20	83	34	0	1	64	1.01
4148214--4148264	20	2.5	21	90	6	86	27	1	15	54	1.52
4148323--4148355	17	1.9	17	100	0	66	36	12	15	36	1.84
4148473--4148540	30	2.3	30	84	2	84	27	1	10	60	1.38
4153077--4153123	24	2.0	24	95	0	85	19	14	19	46	1.84
4153666--4153732	14	4.8	13	76	14	55	1	31	0	67	1.00
4155037--4155084	22	2.2	22	84	0	60	27	12	2	58	1.46
4156048--4156103	28	2.0	28	96	0	103	55	10	3	30	1.51
4156055--4156154	28	3.4	27	75	17	85	63	10	2	25	1.37
4156407--4156436	15	2.1	14	93	6	51	70	0	0	30	0.88
4159441--4159490	26	1.9	26	87	0	73	30	0	12	58	1.34
4159573--4159602	6	5.0	6	91	0	51	66	13	0	20	1.24
4159561--4159602	18	2.3	18	92	8	68	66	11	2	19	1.34
4160036--4160065	6	5.0	6	100	0	60	16	33	33	16	1.92
4162027--4162064	17	2.3	17	95	4	69	55	5	0	39	1.23
4162821--4162854	17	2.0	17	100	0	68	52	5	0	41	1.25
4162913--4162937	11	2.3	11	100	0	50	0	16	0	84	0.63
4184030--4184077	4	12.0	4	100	0	96	50	25	0	25	1.50
4193400--4193445	21	2.2	21	84	7	58	43	34	2	19	1.63
4195455--4195537	43	1.9	43	95	0	148	37	22	8	31	1.84
4198754--4198784	16	1.9	16	100	0	62	74	0	12	12	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4200874--4200898	6	4.2	6	100	0	50	0	32	0	68	0.90
4206569--4206636	34	2.1	33	81	10	79	27	7	7	57	1.53
4215296--4215336	21	2.0	21	85	0	55	12	14	0	73	1.11
4215311--4215365	23	2.4	22	79	11	56	5	20	0	74	1.01
4218414--4218481	3	22.7	3	84	0	91	26	1	69	2	1.12
4232887--4233935	263	4.0	263	86	3	1387	44	22	10	21	1.84
4234283--4234320	6	6.2	6	87	6	58	18	0	2	78	0.86
4234283--4234321	13	3.1	13	85	7	53	17	0	2	79	0.84
4238391--4238453	19	3.2	19	78	13	65	53	1	1	42	1.19
4238410--4238482	27	2.8	25	72	16	58	60	1	0	38	1.06

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144