genome.fa.s25.2.7.7.80.10.50.1000.185.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  185  of  214  ( 25680 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)
54333815--54333872	13	4.3	13	79	16	64	41	1	0	56	1.09
54333736--54333927	60	3.2	58	71	18	162	42	1	3	53	1.26
54334078--54334168	45	2.0	44	85	2	119	35	28	5	30	1.80
54334147--54334216	16	4.4	16	90	0	113	31	35	1	31	1.67
54341645--54341776	56	2.4	56	93	0	228	44	11	15	28	1.81
54349572--54349663	23	3.9	23	78	15	89	30	21	27	20	1.98
54349918--54349973	29	1.9	29	100	0	112	32	10	10	46	1.73
54356507--54356620	41	2.8	41	90	0	174	34	21	15	28	1.94
54358767--54358806	19	2.1	19	90	0	62	30	20	0	50	1.49
54359000--54359158	44	3.7	44	82	8	186	38	20	19	21	1.94
54358994--54359175	39	4.4	39	77	12	175	39	19	19	21	1.93
54358992--54359175	45	4.2	44	79	10	209	39	20	19	21	1.92
54362830--54362856	5	5.4	5	100	0	54	77	0	22	0	0.76
54367878--54367941	22	2.9	22	85	0	92	18	21	17	42	1.89
54379485--54379558	11	6.5	11	73	14	60	56	2	0	40	1.13
54379860--54379932	36	2.0	36	97	0	137	34	24	13	27	1.93
54381152--54381278	61	2.1	61	86	1	175	40	4	14	40	1.66
54383233--54383290	19	3.1	19	87	5	82	39	0	5	55	1.22
54383437--54383480	23	1.9	23	86	9	63	36	13	9	40	1.76
54384437--54384472	6	5.8	6	93	3	54	77	0	2	19	0.88
54385191--54385260	35	2.0	35	100	0	140	42	2	20	34	1.66
54388514--54388610	47	2.1	47	100	0	194	29	24	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54395568--54395601	16	2.0	17	88	11	52	70	0	0	29	0.87
54400728--54400776	16	3.1	16	74	8	55	42	6	8	42	1.59
54403301--54403354	4	13.5	4	100	0	108	25	0	24	50	1.50
54403482--54403514	17	1.9	17	100	0	66	36	12	27	24	1.91
54413076--54413113	19	2.1	19	90	5	60	57	5	7	28	1.49
54419448--54419485	2	19.0	2	88	0	58	0	2	44	52	1.14
54425030--54425057	3	9.3	3	100	0	56	32	0	0	67	0.91
54427510--54427546	16	2.2	17	90	4	58	37	2	54	5	1.38
54432634--54432685	24	2.2	24	85	0	68	38	3	7	50	1.50
54441696--54441733	3	12.7	3	100	0	76	31	0	0	68	0.90
54441734--54441892	73	2.2	73	98	0	309	27	5	26	41	1.76
54446120--54446151	3	10.7	3	100	0	64	31	0	0	68	0.90
54446152--54446310	73	2.2	73	98	0	309	27	5	26	41	1.76
54451718--54451742	9	2.8	9	100	0	50	12	12	12	64	1.51
54454716--54454783	33	2.1	33	94	0	118	36	25	16	22	1.94
54460113--54460173	12	5.4	12	73	23	53	18	3	0	78	0.88
54460113--54460181	22	3.2	20	80	13	75	18	4	0	76	0.94
54460116--54460173	17	3.5	15	82	13	62	17	3	0	79	0.87
54461195--54461233	20	2.0	20	89	0	60	84	2	7	5	0.84
54461195--54461237	10	4.0	10	82	11	50	83	2	6	6	0.88
54463777--54463801	10	2.5	10	100	0	50	8	0	0	92	0.40
54465336--54465402	23	3.0	21	76	19	66	26	4	1	67	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54465584--54465642	25	2.5	23	79	12	66	32	10	1	55	1.43
54465614--54465663	20	2.5	20	77	3	57	38	6	0	56	1.24
54474666--54474917	24	10.8	24	68	13	123	54	4	6	34	1.48
54476578--54476630	15	3.5	15	85	10	72	37	41	0	20	1.53
54477157--54477557	41	9.8	41	74	7	287	38	22	19	20	1.94
54484252--54484302	6	8.5	6	80	8	50	76	0	1	21	0.88
54505065--54505110	18	2.5	19	76	16	51	65	4	2	28	1.23
54519605--54519644	20	2.0	21	90	5	64	25	10	12	52	1.70
54523828--54523949	60	2.0	60	100	0	244	40	15	9	33	1.80
54524606--54524631	3	8.7	3	100	0	52	0	34	0	65	0.93
54535210--54535276	21	3.2	20	73	12	55	16	16	16	50	1.78
54535210--54535358	42	3.5	42	81	3	140	16	19	17	46	1.84
54535255--54535362	21	5.1	21	70	0	81	15	21	18	44	1.87
54540554--54540609	25	2.2	26	78	9	62	35	19	23	21	1.96
54540565--54540636	25	2.9	25	85	0	90	33	16	29	20	1.95
54542353--54542416	25	2.6	25	87	0	83	37	20	23	18	1.94
54544494--54544565	27	2.7	27	77	0	90	25	33	31	9	1.88
54544670--54544994	158	2.1	157	88	4	485	55	8	8	28	1.57
54545009--54545619	160	3.8	160	90	3	916	29	8	8	54	1.60
54545009--54545619	319	1.9	318	89	4	867	29	8	8	54	1.60
54546072--54546259	43	4.5	43	88	8	248	34	2	0	63	1.11
54546132--54546181	17	3.1	17	72	16	52	34	2	0	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54546176--54546224	17	3.0	17	74	14	50	32	2	0	65	1.04
54572815--54572844	15	2.0	15	93	0	51	56	0	6	36	1.26
54595545--54595583	20	2.0	19	90	5	60	0	25	0	74	0.82
54598133--54598245	41	2.8	41	94	2	192	23	29	19	28	1.98
54598740--54598783	5	8.6	5	80	14	54	40	0	0	59	0.98
54598745--54598774	8	3.8	8	90	0	51	40	0	0	60	0.97
54598739--54598783	16	2.9	16	90	3	74	40	0	0	60	0.97
54599505--54599534	15	2.1	15	93	6	53	33	0	0	66	0.92
54599880--54600013	22	5.6	25	78	10	115	17	23	20	39	1.92
54614865--54615106	85	2.8	85	83	3	261	27	26	15	30	1.96
54614871--54615106	43	5.5	43	80	4	208	28	26	13	30	1.94
54614921--54615106	86	2.2	85	84	2	230	31	26	12	29	1.93
54620667--54620697	7	4.4	7	95	0	53	61	22	0	16	1.34
54620764--54620805	16	2.5	17	92	7	68	45	0	0	54	0.99
54620935--54620999	28	2.3	26	78	19	69	35	38	0	26	1.57
54620992--54621058	21	3.2	21	80	0	89	44	29	4	20	1.71
54621013--54621115	7	14.4	7	73	3	53	44	33	0	21	1.59
54621018--54621128	14	7.9	14	75	2	96	47	30	0	20	1.56
54621437--54621556	42	2.9	41	93	2	204	27	32	21	18	1.97
54622396--54622489	19	4.9	19	89	0	152	39	17	8	35	1.80
54622373--54622489	38	3.0	38	91	5	180	40	17	7	35	1.78
54622646--54623050	64	6.3	64	92	0	659	39	16	10	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54622646--54623052	32	12.7	32	80	2	433	39	16	10	33	1.83
54625177--54625280	54	1.9	55	90	2	165	34	22	10	32	1.88
54628148--54628197	7	7.0	7	84	4	64	18	0	36	46	1.49
54628147--54628197	22	2.4	22	93	3	86	17	0	35	47	1.48
54628155--54628186	15	2.1	15	94	0	55	15	0	31	53	1.43
54630483--54630602	39	3.1	39	91	0	195	30	30	20	18	1.96
54632041--54632126	44	2.0	44	93	4	147	39	5	18	36	1.75
54633282--54633320	20	2.0	20	85	10	53	46	12	2	38	1.56
54633425--54633480	27	2.1	27	96	0	103	26	8	14	50	1.72
54633972--54634046	40	1.9	38	89	5	114	36	22	18	22	1.95
54633970--54634053	40	2.2	40	80	4	109	41	21	16	20	1.90
54634096--54634216	41	3.0	41	97	0	224	19	23	28	28	1.98
54634589--54634615	14	1.9	14	100	0	54	25	0	29	44	1.54
54634667--54634699	14	2.3	15	94	5	59	30	0	33	36	1.58
54634922--54634971	21	2.4	22	76	10	59	28	0	38	34	1.57
54639407--54639497	43	2.1	43	87	2	130	35	10	9	43	1.73
54639770--54639995	43	5.3	42	85	5	276	19	18	31	30	1.96
54640087--54640131	22	2.1	21	87	4	63	42	26	17	13	1.86
54640785--54640823	19	2.1	19	85	9	53	28	5	10	56	1.54
54641653--54641690	20	1.9	20	89	10	60	26	0	13	60	1.33
54642326--54642522	102	1.9	102	87	3	288	45	9	12	32	1.75
54645219--54645258	21	1.9	21	100	0	80	47	5	15	32	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54645488--54645524	19	2.0	19	89	5	58	32	0	10	56	1.34
54645493--54645531	18	2.0	20	85	9	55	38	0	10	51	1.36
54649610--54649958	27	13.0	26	77	6	232	41	18	13	26	1.87
54649628--54649963	54	6.2	53	79	9	333	41	17	13	26	1.87
54649612--54649945	81	4.1	80	80	7	372	41	18	13	26	1.88
54650100--54650196	26	3.7	26	77	2	79	21	23	19	35	1.96
54650125--54650227	26	4.0	26	76	2	100	22	23	20	33	1.97
54650125--54650225	52	1.9	52	82	4	123	22	22	19	34	1.96
54654424--54654469	21	2.1	22	88	4	67	21	6	2	69	1.22
54657390--54657428	19	2.0	20	90	5	62	48	2	7	41	1.45

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