genome.fa.s10.2.7.7.80.10.50.1000.12.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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   

This is table  12  of  135  ( 16099 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)
5433149--5433186	15	2.5	16	79	12	53	31	7	15	44	1.75
5440102--5440148	15	3.2	15	78	6	51	34	0	0	65	0.93
5441981--5442118	59	2.3	60	83	11	187	28	18	16	36	1.92
5442963--5443032	30	2.3	30	90	0	104	62	2	8	25	1.38
5442978--5443065	30	2.9	29	86	5	104	63	3	7	25	1.37
5443495--5443553	24	2.5	24	80	0	64	10	22	38	28	1.86
5444135--5444191	21	2.7	21	72	0	60	45	5	8	40	1.58
5445443--5445703	89	2.9	89	94	2	461	52	3	5	38	1.40
5449449--5449581	62	2.2	59	85	6	169	33	16	20	29	1.94
5449509--5450097	114	5.2	113	84	4	698	32	16	19	30	1.95
5449509--5450097	115	5.2	113	84	7	704	32	16	19	30	1.95
5450526--5450567	19	2.2	19	100	0	84	52	4	9	33	1.55
5466960--5467002	2	21.5	2	100	0	86	48	0	0	51	1.00
5479759--5479783	13	1.9	13	100	0	50	4	96	0	0	0.24
5482693--5482756	32	2.0	32	96	0	119	28	17	9	45	1.79
5486172--5486231	28	2.1	28	100	0	120	28	20	21	30	1.98
5485983--5486412	217	2.0	217	87	1	630	30	18	20	31	1.96
5492082--5492118	1	37.0	1	88	0	56	2	94	2	0	0.36
5499657--5499718	4	15.2	4	86	3	79	27	6	24	41	1.79
5499657--5499713	16	3.6	16	95	0	105	26	7	24	42	1.80
5510333--5510992	330	2.0	330	97	0	1257	27	23	20	28	1.99
5510987--5511352	182	2.0	182	100	0	732	19	23	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5511913--5511982	33	2.1	33	94	0	122	42	14	11	31	1.81
5512286--5512354	30	2.3	29	82	7	84	49	4	4	42	1.42
5520988--5521087	39	2.6	39	86	0	146	38	14	6	42	1.70
5527451--5527507	29	2.0	29	82	0	69	50	10	8	29	1.67
5527835--5527892	17	3.2	17	75	20	55	51	0	3	44	1.18
5532729--5532782	24	2.2	24	86	0	72	46	12	0	40	1.42
5534217--5534267	26	1.9	26	84	4	66	27	3	5	62	1.36
5534333--5534374	16	2.6	16	92	0	66	21	11	14	52	1.73
5538296--5538335	15	2.5	17	88	8	57	32	7	2	57	1.40
5563967--5564034	22	3.1	22	78	0	73	20	7	10	61	1.51
5564208--5564234	12	2.2	12	100	0	54	74	0	0	25	0.83
5594815--5594873	27	2.1	27	84	9	75	50	0	3	45	1.18
5595899--5595939	21	2.0	21	85	0	55	34	19	0	46	1.50
5618291--5618336	25	1.9	25	86	8	69	52	4	4	39	1.41
5638698--5638746	25	2.0	25	84	4	64	28	6	24	40	1.79
5646346--5646549	87	2.3	87	76	7	205	40	15	7	37	1.75
5652789--5653016	111	2.1	111	100	0	456	43	5	12	38	1.65
5653181--5653228	21	2.3	20	86	10	69	37	2	0	60	1.09
5653183--5653228	11	4.3	11	79	20	53	34	2	0	63	1.07
5654957--5655107	73	2.1	73	92	0	248	36	15	14	33	1.88
5672233--5672339	11	9.4	11	69	8	52	68	8	0	22	1.22
5672238--5672331	36	2.7	33	81	10	116	68	8	0	23	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5672280--5672333	3	19.3	3	76	14	53	70	5	0	24	1.08
5672232--5672339	22	4.7	22	70	20	87	67	8	0	23	1.23
5672680--5672716	18	2.2	16	90	9	56	45	18	0	35	1.50
5673223--5673266	19	2.4	19	80	3	54	68	2	4	25	1.20
5673234--5673273	19	2.1	19	85	4	53	62	5	7	25	1.42
5680751--5680798	18	2.6	18	80	3	60	39	0	2	58	1.10
5681131--5681308	74	2.4	75	88	1	268	45	19	13	21	1.84
5681407--5681446	17	2.4	17	91	0	62	35	0	5	60	1.19
5694352--5694390	17	2.3	17	90	0	60	46	25	12	15	1.81
5701201--5701239	16	2.4	16	83	8	53	71	0	2	25	0.98
5702626--5702670	22	2.0	22	91	0	72	33	2	2	62	1.20
5703015--5703061	17	2.8	17	83	3	60	23	0	2	74	0.93
5710505--5710555	19	2.7	18	75	19	50	37	1	5	54	1.36
5711041--5711093	28	2.0	26	85	7	70	64	0	0	35	0.94
5711234--5711263	2	15.0	2	100	0	60	50	0	0	50	1.00
5711302--5711357	28	2.0	28	82	6	69	39	3	0	57	1.16
5711341--5711374	15	2.3	15	89	0	50	26	0	0	73	0.83
5711484--5711515	13	2.5	13	95	5	57	43	21	6	28	1.77
5715651--5715689	16	2.4	16	87	8	53	25	17	0	56	1.41
5723056--5723092	14	2.5	15	87	12	51	27	0	0	72	0.84
5725261--5725398	25	5.5	25	80	3	109	42	25	5	26	1.75
5725329--5725446	57	2.1	57	85	3	157	49	21	0	28	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5725368--5725429	32	1.9	32	83	0	79	50	20	0	29	1.49
5725386--5725458	25	2.9	25	74	8	76	52	20	0	27	1.47
5725386--5725505	50	2.4	50	80	2	116	50	23	0	25	1.55
5725475--5725549	18	4.4	18	73	13	68	48	24	2	25	1.64
5725466--5725530	32	2.0	32	90	0	103	44	30	0	24	1.54
5725575--5725665	18	5.3	17	73	15	62	47	21	3	27	1.67
5725603--5725664	32	1.9	32	90	0	97	46	19	3	30	1.65
5725636--5726350	25	29.5	24	69	17	219	45	28	3	22	1.69
5725635--5725874	93	2.6	93	83	7	258	45	28	2	22	1.67
5725746--5725858	7	15.9	7	71	14	79	46	34	1	17	1.59
5725712--5725758	18	2.6	18	96	0	85	46	31	2	19	1.61
5725728--5725858	21	6.0	21	74	16	97	46	33	1	18	1.58
5725847--5725895	18	2.7	18	87	0	62	48	24	4	22	1.67
5725907--5726003	43	2.3	43	81	3	106	47	22	4	25	1.69
5725957--5726036	18	4.7	18	74	12	78	42	21	6	30	1.77
5726207--5726350	7	20.6	7	88	2	193	47	36	0	15	1.45
5749307--5749375	32	2.1	32	84	7	86	13	4	14	68	1.36
5752458--5752650	30	6.5	30	83	2	228	29	17	19	33	1.95
5752458--5752644	60	3.1	59	87	2	275	28	17	20	33	1.95
5754420--5754455	16	2.2	17	90	5	56	83	2	2	11	0.86
5754444--5754494	26	1.9	26	84	4	66	62	5	9	21	1.47
5755334--5755378	14	3.0	15	83	9	56	22	8	4	64	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5767149--5767412	39	6.8	39	76	10	117	20	30	21	27	1.98
5767188--5767421	78	3.0	78	85	4	319	20	30	22	26	1.98
5767230--5767430	39	5.2	39	77	13	189	19	30	22	26	1.98
5769538--5769892	28	12.5	28	76	9	256	34	24	3	38	1.72
5769537--5769903	85	4.3	86	82	6	392	34	25	3	37	1.73
5770025--5770059	14	2.4	14	90	4	52	22	5	0	71	1.07
5773165--5773365	23	9.0	23	78	9	209	44	20	20	14	1.86
5773208--5773377	71	2.4	69	82	5	198	45	20	20	13	1.84
5773212--5773398	94	2.0	94	84	4	243	45	19	21	13	1.85
5779228--5779428	23	9.0	23	77	11	202	44	19	20	14	1.86
5779271--5779440	71	2.4	70	80	5	191	45	19	20	14	1.84
5779275--5779461	94	2.0	94	83	4	234	45	18	21	14	1.85
5799186--5799221	18	2.0	18	100	0	72	55	33	5	5	1.46
5823333--5823381	25	2.0	25	100	0	80	44	12	16	26	1.82
5829739--5829818	39	2.1	39	100	0	160	31	33	15	20	1.93
5830777--5830879	37	2.6	38	74	7	91	30	28	18	23	1.98
5830984--5831040	6	9.5	6	92	0	87	21	31	0	47	1.51
5834764--5834805	21	2.0	21	85	0	57	38	16	21	23	1.93
5834816--5834937	23	5.3	23	84	3	140	40	21	20	17	1.91
5840263--5840477	111	1.9	111	85	6	301	54	8	6	30	1.55
5841363--5841424	32	1.9	32	87	6	90	27	16	6	50	1.69
5841367--5841444	30	2.5	32	78	12	90	26	15	8	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5843106--5843139	14	2.3	15	90	5	52	47	5	0	47	1.26
5845885--5846032	80	1.9	80	84	8	203	25	21	22	30	1.99
5861977--5862155	58	3.0	57	81	8	189	30	10	7	52	1.62
5862292--5862400	58	1.9	57	81	5	130	53	11	9	26	1.66
5862353--5862416	30	2.2	30	94	2	112	57	9	4	28	1.50
5862353--5862422	29	2.4	29	90	2	86	58	10	4	27	1.49
5887678--5887915	23	10.5	23	75	13	181	41	21	24	11	1.87
5887732--5887806	39	1.9	39	91	0	123	44	21	22	12	1.85
5887771--5887915	46	3.1	46	86	5	211	40	23	24	11	1.88
5887782--5887915	71	1.9	69	89	6	207	38	23	25	12	1.90

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