genome.fa.s2.2.7.7.80.10.50.1000.15.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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  15  of  135  ( 16151 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)
3986786--3986827	17	2.5	17	84	7	59	71	2	0	26	0.98
3987866--3988024	87	1.8	85	89	5	248	16	11	27	45	1.81
3990165--3990223	29	2.0	29	100	0	118	52	16	13	16	1.75
3991571--3991606	18	2.0	18	94	0	63	19	63	0	16	1.30
3991482--3991833	60	5.6	60	69	15	201	26	50	1	21	1.59
3991614--3991665	18	2.6	21	76	17	65	25	51	1	21	1.57
3991766--3991801	18	2.0	18	94	0	63	19	61	0	19	1.35
3991533--3991937	195	2.1	195	91	0	657	25	51	1	20	1.58
3991711--3991851	60	2.3	60	81	9	146	26	53	1	18	1.52
3992390--3992518	64	2.0	64	90	3	206	56	20	9	13	1.65
3993622--3993705	44	1.9	43	90	2	132	44	28	1	26	1.62
3993989--3994019	14	2.3	13	94	5	53	9	6	0	83	0.79
3994038--3994080	17	2.5	17	82	17	54	25	0	2	72	0.97
3998416--3998477	26	2.5	24	76	7	61	32	19	20	27	1.97
4008213--4008246	17	2.1	17	88	5	52	29	0	0	70	0.87
4011852--4011906	23	2.4	22	80	14	58	76	0	9	14	1.02
4018244--4018281	16	2.3	17	86	4	51	78	2	2	15	0.97
4024341--4024381	21	1.9	22	90	5	66	26	2	4	65	1.25
4026877--4026958	40	2.1	39	83	2	101	26	19	20	32	1.97
4029865--4029942	30	2.6	30	89	4	113	25	6	48	19	1.72
4030014--4030081	30	2.3	30	79	5	75	7	13	39	39	1.72
4033541--4033713	51	3.4	51	95	0	310	28	4	45	21	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4033630--4033783	69	2.2	69	94	0	263	29	3	46	20	1.68
4033541--4033885	171	2.0	171	94	0	609	28	3	46	21	1.69
4033699--4033924	51	4.4	51	96	0	398	28	3	46	21	1.67
4033540--4033866	102	3.2	102	80	11	282	28	3	45	21	1.69
4033579--4033834	120	2.1	120	94	0	449	29	3	46	21	1.68
4036669--4036721	26	2.0	26	82	7	63	18	13	5	62	1.50
4036756--4036849	35	2.6	36	80	8	95	22	21	2	54	1.55
4040903--4041077	30	5.6	30	74	12	156	28	5	48	18	1.69
4040931--4041114	96	1.9	96	93	0	314	28	4	45	20	1.72
4041889--4041943	27	2.0	27	86	6	76	21	20	10	47	1.80
4044656--4044717	28	2.3	27	86	8	81	27	12	30	29	1.93
4044726--4044976	28	8.7	29	69	20	136	34	1	28	35	1.65
4044702--4044976	58	4.7	58	86	3	401	34	1	28	34	1.67
4044668--4045035	58	6.4	57	80	9	347	33	3	28	34	1.75
4044702--4045035	116	2.9	115	82	4	386	34	2	27	35	1.71
4044949--4045032	29	2.9	27	74	11	69	32	5	25	36	1.80
4046060--4046110	25	2.0	25	88	7	77	43	11	0	45	1.40
4046931--4047024	6	15.8	6	70	17	63	55	3	2	39	1.28
4046932--4047011	17	4.9	17	81	9	94	57	2	2	37	1.26
4046938--4047017	11	6.9	11	72	10	52	57	2	2	37	1.26
4046932--4046990	31	1.9	31	92	0	100	55	1	3	38	1.26
4046970--4047025	28	2.0	29	89	3	87	57	3	1	37	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4047713--4047743	6	5.2	6	100	0	62	48	51	0	0	1.00
4047808--4047853	21	2.2	21	88	0	65	30	2	17	50	1.58
4049137--4049196	30	2.0	30	86	0	84	18	1	51	28	1.55
4049156--4049253	30	3.3	30	86	0	124	24	4	52	19	1.63
4049168--4049379	78	2.7	78	87	2	309	26	5	51	16	1.66
4049447--4049517	24	3.0	24	72	6	72	15	2	57	23	1.51
4049390--4049482	42	2.2	42	76	5	98	16	5	53	24	1.63
4051065--4051122	25	2.4	24	79	2	71	55	1	0	43	1.10
4053036--4053060	1	25.0	1	100	0	50	100	0	0	0	0.00
4053699--4053763	32	2.0	34	90	6	107	55	6	9	29	1.56
4053699--4053781	32	2.5	33	79	11	82	56	6	10	26	1.56
4068080--4068139	29	2.0	29	84	9	77	53	1	13	31	1.50
4077070--4077100	11	2.8	11	100	0	62	16	19	16	48	1.81
4087652--4087681	3	10.0	3	100	0	60	66	0	0	33	0.92
4094271--4094428	79	2.0	78	93	1	271	32	17	29	20	1.95
4106271--4106355	43	2.0	43	86	4	118	30	10	11	47	1.74
4107007--4107111	6	18.0	6	69	16	69	54	2	1	40	1.26
4107007--4107098	17	5.7	16	82	13	109	55	2	2	40	1.24
4107200--4107245	20	2.4	20	89	7	69	21	6	6	65	1.39
4108348--4108387	19	2.0	20	86	13	57	40	0	5	55	1.22
4108637--4108678	17	2.5	17	82	17	52	54	2	2	40	1.26
4117832--4117890	24	2.5	24	81	10	59	37	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4117873--4118010	58	2.3	59	85	8	183	46	0	2	50	1.21
4121314--4121348	3	11.3	3	93	6	61	0	34	0	65	0.93
4132725--4132750	2	13.0	2	100	0	52	50	0	0	50	1.00
4148889--4148950	27	2.3	27	100	0	124	16	41	22	19	1.89
4149832--4149875	23	2.0	21	82	8	52	50	13	0	36	1.42
4154036--4154068	17	1.9	18	88	11	52	21	6	0	72	1.05
4160873--4161135	79	3.2	79	67	14	229	43	19	12	24	1.85
4160764--4161235	172	2.7	172	97	0	881	44	18	11	25	1.83
4161994--4162024	2	15.5	2	100	0	62	0	0	48	51	1.00
4162879--4162908	2	15.0	2	100	0	60	50	0	50	0	1.00
4166771--4166813	21	2.0	21	90	4	68	13	6	4	74	1.19
4172342--4172397	12	4.5	12	75	18	53	17	3	0	78	0.89
4173932--4173977	19	2.4	19	82	7	58	36	0	4	58	1.18
4174796--4174838	21	2.0	21	90	4	68	13	6	4	74	1.19
4174786--4174840	22	2.4	24	79	17	71	12	10	3	72	1.24
4183013--4183065	24	2.2	24	82	0	70	3	7	58	30	1.43
4186982--4187045	30	2.1	30	82	5	76	59	0	3	37	1.13
4187006--4187052	24	2.0	24	87	8	69	65	0	0	34	0.93
4196073--4196109	16	2.2	16	90	4	56	86	2	2	8	0.76
4197139--4197177	7	5.6	7	100	0	78	46	0	0	53	1.00
4202290--4202333	22	2.0	22	82	8	54	65	11	2	20	1.35
4202441--4202465	13	1.9	13	100	0	50	16	8	4	72	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4203568--4203827	82	3.2	82	89	1	387	12	26	14	46	1.80
4210679--4210789	54	2.1	54	84	3	143	30	8	11	49	1.68
4215013--4215045	17	1.9	17	88	11	50	69	3	0	27	1.03
4226061--4226111	21	2.3	22	74	16	52	41	1	9	47	1.48
4227960--4228008	14	3.6	14	78	10	66	28	40	12	18	1.86
4227959--4228008	26	1.9	26	100	0	100	28	40	12	20	1.87
4231633--4231708	9	9.1	9	67	30	53	51	0	0	48	1.00
4231634--4231708	28	2.6	29	97	2	143	52	0	0	48	1.00
4231642--4231689	13	3.5	13	72	10	51	47	0	0	52	1.00
4231657--4231710	16	3.5	16	73	17	60	57	0	0	42	0.98
4232587--4232627	22	2.0	22	90	9	68	51	0	0	48	1.00
4232587--4232627	20	2.0	19	86	13	55	51	0	0	48	1.00
4233456--4233526	32	2.3	31	82	4	90	43	5	7	43	1.55
4249094--4249160	31	2.2	31	83	5	82	35	5	16	41	1.73
4254712--4254776	31	2.1	31	85	5	87	38	9	7	44	1.65
4260542--4260585	22	2.0	22	82	8	54	22	20	2	54	1.56
4260660--4260725	29	2.3	29	83	0	87	37	19	4	37	1.73
4261155--4261225	19	3.7	19	79	5	72	54	5	1	38	1.33
4261829--4261871	18	2.4	18	85	11	61	2	18	0	79	0.85
4261829--4261871	19	2.3	19	84	4	61	2	18	0	79	0.85
4264627--4264690	25	2.7	24	74	13	60	65	4	0	29	1.13
4272918--4272988	26	2.6	28	75	6	74	28	11	5	54	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4280543--4280588	23	2.0	23	95	0	83	32	17	8	41	1.80
4284811--4284887	24	3.1	24	75	14	57	49	32	10	7	1.66
4292756--4292799	22	2.0	22	95	0	79	43	18	6	31	1.76
4300318--4300376	31	1.9	31	82	0	73	32	25	8	33	1.86
4301236--4301291	30	1.9	28	82	13	69	53	1	1	42	1.21
4301291--4301349	16	3.5	16	74	19	57	23	1	5	69	1.18
4304219--4304246	4	7.0	4	100	0	56	0	0	75	25	0.81
4307168--4307205	17	2.4	16	84	16	53	39	0	0	60	0.97
4307173--4307205	17	2.0	16	94	5	57	33	0	0	66	0.92
4312251--4312364	53	2.2	53	86	0	156	19	12	36	31	1.89

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