genome.fa.s18.2.7.7.80.10.50.1000.9.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: Gbar_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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   194   195   196   197   198   199   

This is table  9  of  199  ( 23841 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)
3583274--3583401	45	3.0	44	83	8	149	18	19	22	39	1.93
3583243--3583402	39	4.0	39	80	10	160	19	20	21	38	1.93
3590181--3590253	32	2.4	31	81	9	78	32	10	0	56	1.34
3606092--3606238	64	2.3	65	90	6	230	40	15	17	26	1.89
3607844--3607878	17	2.0	17	88	5	52	22	5	0	71	1.07
3608048--3608083	16	2.2	16	95	0	63	27	0	33	38	1.57
3608299--3608353	15	3.4	16	80	16	53	54	1	0	43	1.10
3608305--3608353	16	2.9	18	80	20	61	55	0	0	44	0.99
3608206--3608676	156	3.0	156	93	0	789	43	3	5	47	1.44
3608475--3608509	18	2.0	17	88	5	52	54	0	0	45	0.99
3613049--3613096	23	2.1	23	96	0	87	58	8	29	4	1.46
3613049--3613108	23	2.8	21	82	9	75	61	6	28	3	1.37
3613963--3614096	40	3.4	39	74	7	128	26	17	23	32	1.97
3615784--3616049	103	2.6	104	90	3	419	19	20	29	29	1.97
3619280--3619496	46	4.6	48	85	8	261	34	13	22	29	1.92
3619460--3619605	37	4.0	37	91	1	233	36	15	22	24	1.93
3623216--3623253	20	1.9	20	88	0	58	42	7	5	44	1.56
3624028--3624057	15	2.0	15	100	0	60	86	0	13	0	0.57
3629247--3629281	12	2.9	12	86	0	52	48	5	5	40	1.51
3657844--3657911	29	2.3	29	79	5	73	48	2	4	44	1.38
3668961--3669004	19	2.3	19	96	0	79	31	0	0	68	0.90
3668942--3669005	17	3.6	17	75	8	65	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3668971--3669038	11	6.4	11	70	23	56	39	1	0	58	1.07
3668971--3669038	32	2.1	32	84	10	86	39	1	0	58	1.07
3668988--3669038	22	2.3	21	86	10	66	43	1	0	54	1.11
3669068--3669148	34	2.4	34	91	2	128	12	29	38	19	1.89
3671360--3671418	22	2.7	23	75	17	63	42	6	8	42	1.61
3696472--3696510	3	13.3	3	94	5	71	33	0	0	66	0.92
3699993--3700026	16	2.1	16	88	0	50	50	14	17	17	1.79
3702823--3702863	21	2.0	21	90	0	64	29	21	29	19	1.98
3704768--3704801	16	2.1	16	88	0	50	50	14	17	17	1.79
3710871--3710903	15	2.1	17	88	11	52	42	24	0	33	1.55
3712081--3712115	14	2.4	15	85	9	54	42	0	2	54	1.15
3717143--3717180	5	7.6	5	93	0	67	0	21	0	78	0.74
3720915--3721012	28	3.5	28	94	5	164	38	12	0	48	1.41
3721050--3721135	27	3.2	27	80	4	95	30	23	27	18	1.98
3721210--3721279	19	3.7	19	82	3	97	37	10	0	52	1.35
3721215--3721285	37	1.9	37	100	0	142	39	11	0	49	1.39
3721483--3721543	19	3.1	20	75	15	65	36	8	0	55	1.30
3721490--3721549	19	3.2	19	81	11	70	35	6	0	58	1.24
3721490--3721549	20	3.2	18	77	22	61	35	6	0	58	1.24
3721679--3721738	27	2.2	27	87	0	84	20	25	21	33	1.97
3721770--3721871	28	3.7	27	92	3	143	50	0	8	41	1.34
3721853--3721900	11	4.5	11	74	10	55	33	0	2	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3723120--3723160	6	6.8	6	100	0	82	31	34	17	17	1.93
3723396--3723454	30	1.9	30	89	3	91	37	5	0	57	1.21
3723383--3723454	31	2.4	31	84	6	96	34	4	1	59	1.25
3723383--3723474	30	3.1	29	74	13	89	34	4	1	59	1.24
3726033--3726075	11	3.8	12	82	17	56	25	23	2	48	1.62
3726069--3726166	51	1.9	51	83	4	126	28	22	3	45	1.67
3727300--3727332	7	4.7	7	100	0	66	27	0	15	57	1.38
3727908--3727967	27	2.2	27	90	0	93	26	31	16	25	1.96
3730100--3730175	23	3.3	23	94	0	134	21	19	26	32	1.97
3732620--3732912	126	2.3	125	83	5	378	30	21	19	29	1.97
3733739--3733823	31	2.7	31	81	1	98	41	3	1	54	1.25
3734184--3734208	2	12.5	2	100	0	50	48	0	0	52	1.00
3741755--3741816	30	2.1	28	88	5	88	30	4	16	48	1.67
3757770--3757805	18	1.9	19	88	5	56	75	11	2	11	1.16
3757892--3758002	6	19.0	6	74	17	74	53	1	44	0	1.17
3758279--3760110	159	11.6	159	89	4	2678	53	8	8	29	1.61
3758279--3760110	473	3.9	472	90	3	2708	53	8	8	29	1.61
3758279--3760110	632	2.9	628	90	3	2803	53	8	8	29	1.61
3763323--3763470	37	3.9	37	71	15	113	50	11	4	33	1.59
3763379--3763425	23	2.0	23	84	8	60	59	14	2	23	1.46
3763327--3763473	76	1.9	77	87	4	217	52	11	4	31	1.58
3764017--3764074	5	11.2	5	85	7	80	55	0	1	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3764770--3764798	14	2.0	15	93	6	51	37	0	0	62	0.96
3764828--3764857	5	6.0	5	92	0	51	76	0	3	20	0.92
3765145--3765247	22	4.4	23	80	12	104	15	24	20	39	1.91
3766054--3766094	13	3.3	13	76	13	50	2	34	0	63	1.08
3766120--3766164	16	3.1	15	84	15	67	0	28	0	71	0.87
3766756--3766804	18	2.7	18	81	9	55	34	14	10	40	1.79
3768867--3768904	20	1.9	20	100	0	76	65	0	5	28	1.14
3768867--3768904	11	3.6	11	79	13	53	65	0	5	28	1.14
3769301--3769335	18	1.9	18	100	0	70	11	28	0	60	1.32
3770590--3770617	7	4.0	7	100	0	56	42	14	14	28	1.84
3772294--3772487	61	3.2	61	71	11	191	43	2	5	48	1.38
3772254--3772518	120	2.2	118	93	2	440	43	1	4	49	1.33
3772462--3772496	18	2.0	17	88	5	52	45	0	0	54	0.99
3772644--3772748	44	2.5	40	76	15	113	31	29	4	34	1.78
3772642--3772751	45	2.6	44	81	8	131	31	29	5	33	1.80
3772730--3772762	16	2.1	16	94	0	57	30	36	0	33	1.58
3777314--3777434	8	14.4	8	65	16	57	50	13	0	35	1.47
3777340--3777466	27	4.8	27	75	21	117	53	11	0	34	1.38
3777353--3777456	16	6.1	16	70	16	50	54	11	0	33	1.36
3777375--3777461	22	3.7	22	85	14	129	54	13	0	32	1.40
3777367--3777466	49	2.0	49	96	0	182	54	13	0	33	1.39
3777517--3777765	134	1.9	134	96	0	462	33	1	14	51	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3777855--3777896	19	2.2	19	95	0	75	50	16	0	33	1.46
3777912--3777987	27	2.8	27	91	0	134	23	38	21	17	1.93
3782283--3782356	21	3.5	21	78	9	71	56	0	0	43	0.99
3797411--3797461	24	2.1	24	88	0	75	37	3	9	49	1.55
3801865--3801903	16	2.4	16	82	0	51	71	0	15	12	1.14
3802977--3803001	1	25.0	1	100	0	50	100	0	0	0	0.00
3809621--3809682	32	2.0	31	87	3	88	48	11	19	20	1.79
3810329--3810359	2	15.5	2	100	0	62	0	0	48	51	1.00
3813457--3813669	71	3.0	71	95	0	390	47	13	13	25	1.79
3813560--3813669	37	3.1	37	61	17	86	48	14	13	23	1.80
3820423--3820472	3	17.3	3	75	8	50	66	6	0	28	1.15
3821581--3821686	44	2.5	41	73	18	108	34	31	3	30	1.75
3821594--3821686	44	2.1	46	93	4	163	36	31	4	27	1.76
3821668--3821720	16	3.3	16	94	0	97	22	33	5	37	1.78
3824728--3824873	64	2.4	63	82	10	162	59	2	0	36	1.17
3825610--3825656	24	2.0	24	84	16	62	31	0	17	51	1.46
3833377--3833408	9	3.6	9	100	0	64	12	0	9	78	0.97
3837814--3837845	9	3.6	9	100	0	64	12	0	9	78	0.97
3848814--3848846	2	16.5	2	100	0	66	0	48	0	51	1.00
3867738--3867767	2	15.0	2	100	0	60	50	0	50	0	1.00
3868014--3868049	17	2.1	17	90	10	56	72	2	0	25	0.98
3890116--3890141	1	26.0	1	100	0	52	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3895897--3895947	2	25.5	2	100	0	102	49	0	50	0	1.00
3902879--3903072	67	2.9	67	92	0	325	28	32	15	22	1.95
3918275--3918402	67	1.9	67	83	0	166	21	26	16	35	1.94
3918709--3918744	17	2.1	18	89	5	56	52	2	2	41	1.30
3927269--3927372	22	4.4	23	80	9	104	38	19	25	16	1.92
3946162--3946195	17	1.9	18	88	5	52	55	0	5	38	1.24
3949324--3949437	60	1.9	60	85	5	149	22	14	14	47	1.82
3949842--3949870	14	2.0	15	93	6	51	58	20	6	13	1.58
3955776--3955838	30	2.1	30	93	0	108	25	3	14	57	1.52
3957108--3957171	2	32.0	2	96	0	119	50	48	0	1	1.10

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   194   195   196   197   198   199