genome.fa.s20.2.7.7.80.10.50.1000.11.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  11  of  189  ( 22580 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)
3663239--3663289	22	2.4	22	90	3	77	45	0	0	54	0.99
3663272--3663296	11	2.3	11	100	0	50	24	0	0	76	0.80
3663240--3663308	10	6.9	10	74	12	61	39	0	0	60	0.97
3664238--3664328	40	2.3	39	88	5	137	40	12	0	47	1.41
3669886--3669972	43	2.0	43	84	4	113	22	17	28	31	1.97
3672506--3672583	30	2.6	30	95	0	138	26	0	11	61	1.30
3701281--3701339	31	1.9	31	92	0	100	38	0	27	33	1.57
3704014--3704038	6	4.2	6	100	0	50	68	32	0	0	0.90
3705067--3705138	36	2.0	36	91	0	117	25	18	26	30	1.98
3704931--3705175	133	1.8	133	86	1	357	24	19	23	32	1.97
3710605--3710843	78	3.1	78	91	0	388	38	23	20	17	1.93
3716786--3716921	68	2.0	68	94	2	238	46	9	6	37	1.63
3716909--3716952	9	5.1	9	83	10	65	54	11	0	34	1.36
3716918--3716955	16	2.4	16	90	0	58	52	10	0	36	1.36
3716959--3717000	16	2.6	16	92	0	66	42	7	2	47	1.43
3718672--3718710	17	2.4	17	95	4	71	20	12	2	64	1.40
3721871--3721928	26	2.2	26	84	0	71	18	24	20	36	1.95
3734786--3734811	12	2.2	12	100	0	52	46	19	7	26	1.77
3741019--3741055	14	2.6	15	83	12	51	0	27	10	62	1.28
3744431--3744480	18	2.8	18	81	0	55	30	4	6	60	1.39
3751649--3751709	29	2.1	28	87	3	86	22	1	21	54	1.54
3754456--3754500	22	2.0	23	86	4	65	57	6	2	33	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3758913--3758970	30	1.9	30	89	0	89	41	3	24	31	1.71
3759181--3759211	13	2.4	13	94	0	53	32	0	12	54	1.38
3759306--3759548	50	4.8	50	92	0	387	25	23	30	20	1.98
3768796--3768832	2	19.0	2	88	5	58	48	0	0	51	1.00
3770538--3770573	17	2.1	17	94	0	63	47	11	13	27	1.77
3772577--3772601	6	4.2	6	100	0	50	16	0	0	84	0.63
3775592--3775637	22	2.1	22	87	0	65	54	13	10	21	1.69
3776459--3776536	28	2.8	28	82	7	79	62	5	3	28	1.34
3776472--3776550	10	8.1	10	74	5	63	63	3	5	27	1.33
3776489--3776564	20	3.9	19	73	13	66	61	2	5	30	1.31
3776855--3776910	20	2.8	20	79	17	62	51	1	5	41	1.35
3777173--3777253	37	2.3	35	78	18	94	29	3	2	64	1.24
3777785--3778350	303	1.9	303	86	1	821	38	11	9	40	1.73
3782264--3782366	46	2.1	48	83	13	124	53	4	2	38	1.37
3782614--3782699	40	2.3	38	76	9	95	54	2	3	39	1.30
3788589--3788671	42	1.9	42	80	9	96	43	0	4	51	1.23
3790457--3790549	42	2.2	42	94	0	159	29	18	21	31	1.97
3793164--3793216	21	2.5	21	84	0	70	30	7	33	28	1.85
3794882--3795171	146	2.0	146	97	0	544	26	20	16	36	1.93
3797432--3797484	27	2.0	27	88	0	79	47	9	13	30	1.74
3801707--3801765	27	2.1	27	84	6	73	45	1	10	42	1.48
3805543--3805579	4	9.2	4	100	0	74	51	24	0	24	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3806428--3806475	18	2.9	15	75	19	51	58	2	0	39	1.10
3806428--3806477	15	3.1	16	78	15	59	60	2	0	38	1.09
3806793--3807042	116	2.1	117	86	2	351	32	19	20	28	1.96
3816688--3816769	36	2.2	39	78	10	91	37	0	4	57	1.20
3816775--3816935	9	17.8	9	67	17	84	33	1	2	62	1.16
3816763--3816823	21	2.8	22	73	16	65	34	0	1	63	1.04
3816775--3816935	19	8.8	19	67	15	72	33	1	2	62	1.16
3816699--3816825	67	1.9	64	80	10	141	34	0	3	61	1.15
3816793--3816852	29	2.1	29	84	12	79	31	0	1	66	1.01
3816794--3816841	14	3.3	14	76	18	53	31	0	0	68	0.90
3828408--3828453	14	3.3	14	93	0	83	41	0	2	56	1.11
3829754--3829864	23	5.0	23	86	7	142	18	23	24	33	1.97
3829755--3829863	44	2.5	41	82	10	128	17	23	24	33	1.96
3830527--3830554	9	3.1	9	100	0	56	21	0	32	46	1.52
3836687--3836716	12	2.5	12	94	0	51	66	0	0	33	0.92
3843148--3843189	22	1.9	22	85	9	59	66	0	33	0	0.92
3844933--3844978	11	4.1	11	85	2	56	21	28	2	47	1.62
3844933--3844978	22	2.0	23	87	4	67	21	28	2	47	1.62
3844933--3844994	22	2.8	21	79	16	63	24	29	1	45	1.63
3846553--3846677	63	2.0	63	98	0	241	24	19	26	29	1.98
3846911--3846945	18	1.9	18	94	0	61	28	28	0	42	1.56
3847207--3847255	21	2.3	21	82	0	62	38	40	12	8	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3851132--3851196	28	2.4	27	90	7	98	29	3	0	67	1.05
3851132--3851207	28	2.9	28	82	7	79	26	2	3	67	1.22
3851465--3851578	40	2.9	38	74	22	110	22	27	25	24	2.00
3852948--3852982	14	2.5	14	95	0	61	34	20	5	40	1.76
3854296--3854326	16	2.0	15	93	6	53	25	35	25	12	1.92
3857950--3858008	24	2.5	24	88	0	91	44	0	25	30	1.55
3858074--3858138	20	3.4	19	69	14	62	35	4	15	44	1.67
3858049--3858161	37	3.1	37	94	1	192	32	4	15	47	1.65
3858061--3858155	17	5.2	17	65	14	55	33	3	13	49	1.58
3858162--3858280	9	12.6	9	87	7	157	21	9	31	36	1.85
3858386--3858451	29	2.3	27	78	16	71	28	12	27	31	1.92
3858670--3858788	49	2.4	49	91	1	195	42	10	12	34	1.76
3858716--3858898	64	2.9	63	78	13	196	47	9	8	33	1.68
3866819--3866876	30	1.9	30	85	0	80	41	1	24	32	1.65
3867088--3867119	13	2.5	13	94	0	55	31	0	12	56	1.37
3867214--3867455	50	4.7	50	86	4	297	26	24	29	19	1.99
3867214--3867463	100	2.4	103	88	6	364	26	24	29	20	1.99
3869265--3869299	17	2.0	18	88	5	54	17	2	2	77	1.02
3870527--3870574	21	2.3	20	80	13	53	20	39	20	18	1.92
3870570--3870609	21	1.9	21	84	0	53	22	40	15	22	1.91
3871946--3872022	33	2.3	32	84	6	100	24	23	19	32	1.97
3871967--3872232	105	2.5	105	88	2	383	28	22	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3879096--3879128	16	2.1	16	88	5	50	51	12	9	27	1.69
3879165--3879209	15	2.9	15	80	3	54	60	24	0	15	1.36
3879540--3879608	18	3.8	19	69	19	58	57	0	0	42	0.98
3882169--3882238	22	3.2	21	78	8	59	68	7	12	11	1.38
3883143--3883188	22	2.0	23	83	4	58	47	4	2	45	1.34
3899892--3899916	6	4.2	6	100	0	50	48	0	0	52	1.00
3903068--3903113	19	2.4	19	85	0	65	65	2	4	28	1.23
3903186--3903245	20	3.0	20	80	7	52	36	0	0	63	0.95
3903353--3903404	23	2.2	23	86	6	68	34	1	0	63	1.06
3910507--3910554	24	2.0	24	95	0	87	41	6	0	52	1.27
3910763--3910802	21	2.0	20	85	5	53	37	2	0	60	1.11
3910807--3910844	16	2.4	16	86	8	51	26	0	15	57	1.38
3911358--3911409	20	2.8	18	77	11	59	19	3	5	71	1.22
3913296--3913335	15	2.9	15	89	10	59	40	15	5	40	1.68
3913435--3913487	16	3.3	16	83	0	70	35	0	32	32	1.58
3913708--3913749	15	2.9	15	82	10	52	52	0	0	47	1.00
3917681--3917731	20	2.5	21	90	3	77	54	0	1	43	1.11
3917910--3917950	21	2.0	21	90	0	64	26	17	19	36	1.94
3918104--3918154	20	2.5	21	90	3	77	54	0	1	43	1.11
3918236--3918295	27	2.2	26	77	13	68	65	1	1	31	1.13
3918229--3918269	19	2.1	20	86	4	57	63	2	4	29	1.28
3925285--3925375	45	2.0	44	87	2	128	54	3	4	37	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928390--3928428	15	2.4	16	83	12	53	53	5	7	33	1.51
3937644--3937683	21	1.9	21	90	10	64	22	10	10	57	1.61
3943602--3943687	39	2.2	39	87	0	118	32	18	16	32	1.93
3949885--3949935	5	10.2	5	81	8	59	60	1	0	37	1.08
3958329--3958376	23	2.0	24	84	4	62	54	2	4	39	1.32
3960956--3960988	6	5.7	6	96	3	59	48	0	0	51	1.00
3961520--3961544	7	3.6	7	100	0	50	64	0	12	24	1.27
3962682--3962727	23	2.0	23	100	0	92	30	8	0	60	1.26
3966318--3966344	6	4.5	6	100	0	54	14	33	0	51	1.43
3966587--3966630	21	2.2	19	84	8	52	4	11	6	77	1.11

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