genome.fa.s4.2.7.7.80.10.50.1000.10.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  10  of  193  ( 23090 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)
3631950--3631999	3	16.7	3	100	0	100	34	0	32	34	1.58
3638705--3638749	23	1.9	24	90	4	74	40	4	13	42	1.64
3646050--3646107	28	2.1	27	81	9	64	58	6	17	17	1.59
3646760--3646814	27	2.0	28	82	10	69	38	7	1	52	1.40
3647800--3647842	6	7.2	6	97	0	77	18	46	0	34	1.50
3654035--3654111	17	4.5	17	79	12	86	42	1	5	50	1.32
3654119--3654210	46	2.0	46	86	0	130	33	16	16	33	1.91
3654218--3654246	11	2.5	12	94	5	51	48	17	6	27	1.72
3654916--3654954	18	2.3	16	86	8	51	46	0	0	53	1.00
3656061--3656153	29	3.2	29	70	17	84	34	33	2	30	1.70
3655973--3656227	59	4.3	58	83	5	307	33	30	1	33	1.68
3656025--3656168	28	4.9	28	69	21	100	34	32	1	31	1.67
3655973--3656231	117	2.2	117	85	7	339	33	30	1	33	1.69
3661940--3661973	17	2.0	17	88	0	50	44	5	8	41	1.60
3662090--3662128	6	6.5	6	93	0	60	0	48	0	51	1.00
3672290--3672390	30	3.5	28	71	21	91	35	3	25	34	1.75
3672285--3672653	59	6.4	58	84	6	448	33	3	29	33	1.75
3672342--3672564	30	7.7	30	62	21	91	33	3	30	33	1.74
3672493--3672593	29	3.5	27	71	23	82	34	1	29	33	1.69
3672285--3672653	118	3.2	116	85	7	500	33	3	29	33	1.75
3672620--3672678	28	2.1	29	87	9	86	30	3	25	40	1.72
3673738--3673778	3	13.0	3	85	10	55	34	0	2	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3673739--3673778	16	2.5	16	84	11	55	35	0	2	62	1.09
3673742--3673785	13	3.4	13	78	9	54	38	0	2	59	1.10
3674973--3675389	38	11.4	37	66	20	173	31	19	15	33	1.93
3675087--3675199	31	3.4	31	67	15	91	27	20	16	35	1.94
3675042--3675391	153	2.4	135	81	12	328	30	19	16	34	1.94
3674970--3675391	69	5.7	75	86	6	503	31	19	15	33	1.93
3687496--3687712	29	7.5	28	66	17	113	35	3	27	33	1.75
3687496--3687861	58	6.3	59	83	5	424	35	3	27	33	1.72
3687496--3687861	117	3.1	117	86	5	501	35	3	27	33	1.72
3688947--3688987	3	13.0	3	85	10	55	34	0	2	63	1.08
3688948--3688987	16	2.5	16	84	11	55	35	0	2	62	1.09
3688951--3688994	13	3.4	13	78	9	54	38	0	2	59	1.10
3689755--3689842	6	15.0	6	67	17	51	52	2	1	44	1.21
3689773--3689842	11	5.9	11	73	15	59	55	1	1	41	1.17
3690049--3690096	2	25.0	2	80	16	57	52	0	2	45	1.12
3690050--3690103	28	1.9	28	100	0	108	51	0	3	44	1.19
3701047--3701323	92	2.9	94	74	8	247	30	11	13	43	1.80
3704347--3704795	195	2.3	195	79	5	505	31	12	12	44	1.79
3710358--3710388	16	1.9	16	100	0	62	58	16	0	25	1.38
3710862--3710903	16	2.6	16	80	0	57	50	0	0	50	1.00
3710949--3710984	14	2.6	14	86	4	56	80	5	2	11	0.98
3723837--3723895	29	2.0	30	83	3	75	33	6	6	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3725518--3725553	14	2.7	13	86	4	54	11	2	5	80	0.98
3725599--3725639	16	2.6	16	84	0	55	51	0	0	48	1.00
3726114--3726144	16	1.9	16	100	0	62	25	0	16	58	1.38
3737123--3737153	9	3.4	9	95	0	53	35	12	16	35	1.87
3745270--3745328	30	2.0	30	93	0	100	16	16	30	35	1.92
3747531--3747785	99	2.6	99	86	2	334	26	23	18	31	1.97
3748234--3748881	72	9.0	72	92	1	982	18	21	27	33	1.96
3758634--3758818	30	5.3	36	76	20	205	18	16	32	32	1.93
3758670--3758791	42	3.0	42	81	13	175	19	15	31	32	1.93
3758633--3758791	72	2.1	75	89	6	243	18	15	32	33	1.93
3765465--3765509	21	2.2	20	84	4	54	26	0	4	68	1.08
3768116--3768893	335	2.3	334	84	3	990	37	16	15	31	1.89
3771271--3771328	24	2.4	25	85	2	73	36	15	17	31	1.91
3771795--3771894	31	3.2	32	74	12	93	49	13	2	36	1.53
3777966--3777997	14	2.4	14	94	5	57	43	0	0	56	0.99
3779556--3779584	3	9.7	3	100	0	58	0	0	65	34	0.93
3784073--3784339	29	9.3	29	69	8	152	30	5	29	34	1.80
3784146--3784321	58	3.1	57	77	10	178	30	5	30	33	1.79
3784159--3784336	57	3.1	55	76	11	160	30	4	27	37	1.77
3784243--3784456	30	7.3	29	72	12	116	34	2	22	39	1.69
3786218--3786266	11	4.3	11	87	7	53	59	2	0	38	1.09
3786200--3786281	17	5.1	17	73	19	61	57	2	1	39	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3786650--3787325	209	3.2	209	85	1	908	22	21	18	36	1.95
3799476--3799540	29	2.3	29	81	5	80	26	10	33	29	1.90
3799520--3799744	29	7.7	28	70	18	115	34	4	26	35	1.77
3799520--3799836	30	10.8	28	74	13	141	35	4	24	35	1.76
3799520--3799802	60	4.8	58	75	12	183	36	4	24	35	1.76
3799520--3799742	59	3.8	57	74	15	181	34	4	26	34	1.77
3799560--3799836	30	9.3	30	74	13	191	36	4	23	36	1.75
3799964--3799989	12	2.2	12	100	0	52	46	7	7	38	1.61
3800733--3800787	28	2.0	27	82	10	67	12	14	47	25	1.80
3800977--3801054	17	4.6	17	87	3	104	58	2	1	37	1.20
3800994--3801066	6	12.7	6	75	8	71	58	2	0	38	1.12
3800988--3801068	28	3.3	23	69	17	63	61	2	0	35	1.09
3800990--3801067	11	7.4	11	72	21	60	61	2	0	35	1.10
3802559--3802629	28	2.4	30	88	4	110	52	0	0	47	1.00
3802559--3802629	30	2.5	28	86	9	99	52	0	0	47	1.00
3808484--3808517	16	2.1	16	100	0	68	26	23	14	35	1.94
3811331--3811377	2	23.5	2	100	0	94	48	0	0	51	1.00
3816566--3816616	21	2.5	20	75	15	52	54	9	29	5	1.56
3829207--3829288	4	20.5	4	76	0	65	43	7	4	43	1.53
3829207--3829288	6	13.7	6	76	0	65	43	7	4	43	1.53
3829235--3829287	14	3.9	14	75	9	65	45	7	5	41	1.56
3829219--3829288	26	2.7	26	88	0	95	44	7	5	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3829336--3829383	21	2.3	21	85	0	60	31	29	25	14	1.95
3833896--3833958	31	2.1	30	87	3	90	33	9	12	44	1.75
3855500--3855569	29	2.3	29	80	4	77	28	10	11	50	1.71
3860058--3860095	18	2.2	18	90	4	60	34	2	0	63	1.09
3860036--3860142	50	2.3	47	84	12	141	38	8	0	52	1.38
3861596--3862137	269	2.0	269	97	0	1030	28	13	20	37	1.90
3874507--3874553	12	3.5	13	80	11	51	34	0	0	65	0.93
3874496--3874574	26	3.0	27	79	13	78	36	0	0	63	0.95
3874497--3874574	28	2.9	28	80	12	76	37	0	0	62	0.95
3874497--3874553	15	4.1	14	79	20	66	35	0	0	64	0.93
3874496--3874565	27	2.7	26	79	14	72	37	0	0	62	0.95
3874531--3874572	15	2.6	16	85	7	50	38	0	0	61	0.96
3874540--3874572	17	1.9	17	93	0	57	42	0	0	57	0.98
3875530--3875559	14	2.1	14	93	0	51	46	3	0	50	1.18
3880533--3880557	13	1.9	13	100	0	50	48	4	0	48	1.20
3893960--3894012	22	2.3	24	83	6	74	30	9	22	37	1.86
3894599--3894637	19	2.0	20	90	5	62	41	12	7	38	1.72
3899338--3899366	3	9.7	3	100	0	58	34	0	0	65	0.93
3904619--3904680	30	2.1	30	84	6	81	69	3	1	25	1.13
3923053--3923088	6	6.0	6	96	0	54	0	44	0	55	0.99
3925166--3925236	33	2.2	33	94	0	124	26	35	15	22	1.94
3944040--3944084	23	2.0	23	82	8	56	57	6	4	31	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3945200--3945236	13	3.0	13	84	11	51	64	0	0	35	0.94
3948309--3948524	86	2.5	85	88	4	312	44	5	3	46	1.41
3948620--3948678	22	2.6	22	80	17	68	40	27	5	27	1.77
3949533--3949562	15	2.0	15	100	0	60	26	6	0	66	1.16
3949675--3949719	20	2.3	19	77	11	54	24	4	2	68	1.19
3949664--3949719	29	1.9	29	86	13	80	25	5	3	66	1.29
3949766--3949825	22	2.7	22	92	0	102	51	8	3	36	1.49
3950923--3951024	30	3.4	30	87	5	118	25	7	4	61	1.43
3950934--3951024	30	3.1	30	90	1	130	27	6	4	61	1.40
3950976--3951030	17	3.5	17	70	27	57	25	10	3	60	1.47

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   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193