genome.fa.s23.2.7.7.80.10.50.1000.12.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: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   

This is table  12  of  218  ( 26060 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)
4474333--4474382	21	2.3	22	86	3	75	44	2	0	54	1.11
4474670--4474727	29	2.0	29	100	0	116	20	10	6	62	1.50
4474678--4474740	29	2.2	29	88	0	90	23	11	6	58	1.55
4475835--4475948	61	1.9	60	87	1	165	42	4	14	39	1.65
4481000--4481194	98	2.0	98	95	0	354	37	23	9	29	1.86
4481851--4481912	26	2.3	27	77	5	72	54	3	8	33	1.46
4482532--4482625	19	4.8	19	87	5	143	36	13	11	38	1.82
4482534--4482625	40	2.4	38	92	3	148	36	13	11	38	1.81
4482960--4483422	44	10.5	44	64	14	159	30	24	17	28	1.97
4482854--4483926	132	8.1	132	90	2	1496	29	23	18	28	1.98
4483690--4483877	44	4.3	42	66	18	96	32	22	18	26	1.97
4482871--4483926	398	2.7	393	88	3	1485	29	23	18	28	1.98
4482854--4483926	530	2.0	526	87	3	1521	29	23	18	28	1.98
4489153--4489284	19	6.8	19	91	3	210	35	15	11	37	1.83
4489146--4489283	59	2.4	59	90	4	212	36	14	10	38	1.81
4490313--4490356	5	9.0	5	85	5	63	77	2	0	20	0.88
4490328--4490362	15	2.3	15	90	0	52	77	0	5	17	0.96
4505265--4505290	11	2.4	11	100	0	52	38	0	0	61	0.96
4505263--4505294	11	2.6	13	80	19	50	34	0	0	65	0.93
4513749--4513778	15	1.9	16	93	6	53	36	0	0	63	0.95
4528450--4528505	17	3.2	17	79	2	58	16	5	1	76	1.05
4540198--4540226	2	14.5	2	100	0	58	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4541200--4541237	16	2.3	17	86	9	60	36	0	0	63	0.95
4541208--4541264	22	2.5	24	78	13	68	26	3	0	70	1.03
4541518--4541561	16	3.0	15	87	12	65	68	0	0	31	0.90
4541659--4541692	3	11.3	3	100	0	68	35	0	0	64	0.94
4541974--4542015	15	2.7	15	79	17	50	50	0	0	50	1.00
4542088--4542132	21	2.1	22	87	4	65	37	0	4	57	1.19
4542854--4542892	15	2.5	15	87	4	51	25	7	0	66	1.18
4550080--4550129	20	2.5	21	90	9	86	52	10	4	34	1.54
4553243--4553285	16	2.6	16	77	3	50	39	0	2	58	1.11
4555169--4555215	24	2.0	24	87	4	69	74	2	10	12	1.16
4560357--4560401	24	2.0	22	86	8	63	40	2	2	55	1.24
4560462--4560722	129	2.0	132	88	5	397	29	12	24	34	1.92
4564195--4564278	42	2.0	42	88	6	125	16	20	16	46	1.84
4565112--4565164	16	3.5	15	79	10	54	60	0	3	35	1.15
4565126--4565198	27	2.7	26	75	8	74	65	0	2	31	1.06
4566782--4566860	27	2.9	27	94	0	131	29	20	32	17	1.95
4566932--4567001	19	3.7	19	82	3	97	37	10	0	52	1.35
4566937--4567007	37	1.9	37	100	0	142	39	11	0	49	1.39
4567202--4567260	19	3.2	19	80	4	84	38	11	0	49	1.40
4567257--4567303	18	2.6	19	83	6	53	53	0	10	36	1.36
4567272--4567312	19	2.1	19	86	4	55	53	0	9	36	1.34
4567514--4567584	37	1.9	37	100	0	142	49	0	11	39	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4567520--4567588	19	3.7	19	82	5	97	52	0	10	37	1.36
4567664--4567741	27	2.9	27	90	0	120	16	30	21	30	1.96
4567816--4567867	25	2.0	26	88	11	79	53	0	11	34	1.37
4575985--4576036	27	2.0	26	84	3	68	36	0	7	55	1.29
4577308--4577356	17	2.6	20	78	21	61	57	2	0	40	1.10
4578328--4578368	18	2.3	18	87	8	57	46	0	0	53	1.00
4580248--4580785	269	2.0	269	100	0	1076	35	13	18	31	1.90
4594737--4594802	30	2.2	28	82	12	71	34	1	0	63	1.04
4594929--4595135	88	2.3	91	85	6	262	34	11	16	37	1.84
4594929--4595152	92	2.5	87	82	5	261	34	12	16	36	1.86
4595152--4595182	2	15.0	2	93	6	53	48	0	48	3	1.17
4597305--4597351	23	2.0	23	83	0	58	34	4	10	51	1.56
4604918--4605007	43	2.1	43	100	0	180	40	8	24	26	1.84
4608384--4608433	15	3.6	14	79	12	50	42	2	2	54	1.23
4613235--4613267	3	11.3	3	93	6	59	69	0	30	0	0.88
4619322--4619347	2	13.0	2	100	0	52	50	0	0	50	1.00
4633209--4633243	18	1.9	18	88	11	54	74	2	2	20	1.08
4649799--4649845	25	1.9	25	86	4	69	14	25	21	38	1.92
4649920--4649988	26	2.7	26	84	2	86	13	27	26	33	1.93
4650078--4650140	25	2.6	25	80	16	71	25	23	15	34	1.95
4650089--4650156	25	2.7	26	80	8	79	25	22	17	35	1.95
4653848--4654221	51	7.4	51	91	1	583	31	23	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4653848--4654221	101	3.7	101	90	0	579	31	23	12	32	1.92
4653848--4654221	152	2.5	152	91	0	597	31	23	12	32	1.92
4654295--4654327	17	1.9	17	88	11	50	45	21	0	33	1.52
4666914--4666956	20	2.2	20	86	0	59	76	4	13	4	1.10
4668433--4668648	83	2.6	84	89	0	326	42	9	12	36	1.75
4669512--4669544	17	1.9	17	88	11	50	27	0	6	66	1.15
4676252--4676401	80	1.9	79	92	1	255	27	18	16	38	1.92
4681664--4681705	21	2.0	21	90	9	68	30	4	4	59	1.39
4693759--4693787	14	2.0	15	93	6	51	68	3	0	27	1.05
4695548--4695572	6	4.2	6	100	0	50	84	0	0	16	0.63
4709508--4709658	57	2.7	56	80	5	178	49	11	5	33	1.64
4710159--4710238	21	3.7	21	71	3	52	37	7	2	52	1.43
4710829--4710855	2	13.5	2	100	0	54	0	51	0	48	1.00
4711281--4711318	18	2.2	18	85	4	51	13	23	2	60	1.45
4714477--4714785	166	1.9	165	84	5	417	33	5	16	45	1.69
4731728--4731757	15	2.1	15	93	6	53	23	20	3	53	1.60
4732491--4732531	22	1.9	21	85	5	55	53	0	0	46	1.00
4732520--4732572	23	2.3	23	83	0	61	37	1	7	52	1.41
4735961--4736023	9	7.4	8	75	18	56	58	1	7	31	1.36
4735983--4736024	3	13.7	3	80	14	50	64	0	4	30	1.14
4735964--4736021	15	3.9	15	76	14	59	58	1	8	31	1.38
4737834--4738219	87	4.4	88	73	10	283	28	22	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4737759--4738404	131	5.0	131	73	9	446	28	22	19	29	1.98
4737793--4738219	218	1.9	219	87	4	628	28	22	19	29	1.98
4737644--4738396	175	4.4	172	80	5	777	28	22	19	29	1.98
4737923--4738388	87	5.3	86	73	8	316	28	23	19	29	1.98
4737670--4738394	44	16.8	43	72	6	360	28	22	19	29	1.98
4739127--4739171	22	2.0	22	100	0	90	31	22	6	40	1.80
4739661--4739705	7	6.7	7	85	10	67	15	15	0	68	1.21
4739661--4739705	20	2.2	20	96	0	81	15	15	0	68	1.21
4739663--4739711	13	3.8	13	86	7	66	12	16	0	71	1.14
4740109--4740167	29	2.0	29	100	0	118	49	13	13	23	1.78
4740696--4740766	23	3.1	23	80	15	85	8	5	4	81	0.97
4740728--4740797	6	11.8	6	79	8	63	14	4	5	75	1.14
4740695--4740797	22	4.5	22	75	12	84	11	5	5	76	1.13
4742602--4742644	20	2.1	20	82	4	50	16	30	4	48	1.66
4745216--4745256	17	2.5	17	88	4	57	73	12	9	4	1.24
4751665--4751717	25	2.0	27	82	10	65	37	1	3	56	1.28
4751937--4752000	20	3.2	20	69	8	58	45	6	1	46	1.37
4756013--4756058	21	2.2	21	92	0	74	17	30	13	39	1.87
4759920--4759955	18	2.1	18	89	5	56	44	16	19	19	1.87
4788708--4788837	45	2.9	44	82	3	161	40	10	23	26	1.86
4788848--4789110	81	3.2	80	76	2	231	40	16	21	21	1.91
4788851--4789110	27	9.6	27	80	0	196	40	16	21	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4788853--4789120	54	5.0	54	81	0	248	39	16	22	21	1.92
4805935--4805996	31	2.0	31	100	0	124	22	12	32	32	1.92
4806201--4806261	30	2.0	30	96	0	113	55	13	4	26	1.57
4809587--4809657	30	2.4	29	80	2	79	30	2	12	53	1.53
4809767--4809825	31	1.9	31	83	13	77	37	8	16	37	1.80
4811945--4812098	50	3.0	52	83	8	172	27	20	27	23	1.99
4811954--4812133	50	3.5	50	80	4	162	30	21	25	23	1.99
4814202--4814287	38	2.2	39	85	6	120	34	26	13	24	1.93
4814202--4814328	39	3.3	38	83	3	128	33	25	14	26	1.94
4814241--4814361	39	3.1	39	85	1	145	35	19	12	33	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   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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218