genome.fa.s25.2.7.7.80.10.50.1000.18.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  18  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)
5009194--5009233	19	2.1	19	90	0	62	37	5	5	52	1.45
5012316--5012411	27	3.6	27	85	1	140	33	16	22	27	1.96
5012478--5012539	24	2.6	24	84	0	70	29	8	20	41	1.81
5012486--5012610	24	5.2	24	80	7	119	22	6	24	47	1.74
5012534--5012603	11	6.0	11	69	12	50	18	4	25	51	1.64
5012502--5012610	48	2.3	48	87	6	150	22	6	23	46	1.75
5012727--5012776	26	1.9	26	91	0	82	14	22	28	36	1.92
5012880--5012944	22	3.0	21	71	8	58	20	20	16	43	1.89
5017001--5017072	20	3.7	19	77	7	65	56	6	1	34	1.35
5017041--5017078	20	2.0	20	89	5	60	52	5	0	42	1.24
5017068--5017107	17	2.3	18	82	8	55	45	0	0	55	0.99
5017134--5017158	9	2.8	9	100	0	50	56	0	0	44	0.99
5017131--5017169	17	2.2	18	86	4	53	56	0	2	41	1.13
5017228--5017258	3	10.3	3	92	0	53	29	0	3	67	1.06
5019460--5019499	16	2.6	16	85	14	57	75	5	0	20	0.99
5020428--5020475	21	2.2	21	79	13	53	66	4	29	0	1.10
5027878--5027938	11	5.9	11	71	21	51	60	21	1	16	1.44
5027884--5027953	22	3.4	22	78	15	94	57	24	1	17	1.48
5027878--5027953	40	1.9	40	94	0	134	56	23	2	17	1.53
5030374--5030411	20	2.0	20	94	5	69	36	10	13	39	1.79
5040802--5040834	7	4.7	7	100	0	66	69	0	0	30	0.88
5044337--5044416	28	2.8	27	77	11	79	68	3	0	27	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5044338--5044427	13	7.3	12	71	19	53	66	3	0	30	1.07
5044357--5044401	19	2.4	19	85	3	56	66	4	0	28	1.11
5044387--5044417	16	2.0	15	93	6	53	77	0	0	22	0.77
5044368--5044417	22	2.3	22	86	6	66	72	2	0	26	0.96
5046445--5046519	36	2.1	36	89	0	114	30	17	20	32	1.95
5046397--5046570	87	2.0	87	82	0	213	29	20	17	32	1.96
5046622--5046735	51	2.2	51	80	0	129	28	20	15	35	1.93
5046698--5046771	36	2.1	36	84	0	94	31	20	20	28	1.97
5046733--5046884	51	3.0	51	84	0	205	26	26	17	28	1.98
5046653--5047134	138	3.6	137	77	9	526	26	24	18	30	1.98
5046172--5047197	261	4.0	261	84	3	1321	26	24	17	31	1.97
5046811--5046947	72	1.9	72	84	0	184	24	26	15	33	1.95
5046883--5046979	51	1.9	51	91	0	158	26	23	17	31	1.97
5046764--5047197	123	3.4	124	75	10	453	26	25	17	30	1.98
5046887--5046996	51	2.2	51	86	0	148	27	23	17	31	1.97
5046959--5047032	36	2.1	36	89	0	112	29	21	21	27	1.99
5046995--5047143	51	2.9	51	82	0	181	26	26	20	26	1.99
5046909--5047083	87	2.0	87	85	2	235	27	23	20	28	1.99
5062576--5062637	33	2.0	30	84	9	79	30	9	4	54	1.54
5063076--5063482	112	3.7	111	89	2	588	31	16	18	33	1.93
5066800--5066849	9	5.7	9	97	2	93	78	10	0	12	0.98
5068025--5068137	43	2.6	44	81	8	126	30	14	29	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5069270--5070872	50	32.2	50	69	7	700	32	25	19	21	1.97
5069260--5070860	100	16.1	100	83	2	1727	32	25	19	21	1.97
5069260--5070860	398	4.0	398	85	1	1918	32	25	19	21	1.97
5070880--5071044	85	1.9	85	80	9	194	30	21	19	28	1.98
5070856--5071210	129	2.8	129	83	0	451	31	19	20	28	1.97
5072937--5072998	33	2.0	30	84	9	79	30	9	4	54	1.54
5073146--5073190	25	1.9	23	82	13	56	35	13	2	48	1.54
5073436--5073952	112	4.7	110	91	2	747	31	15	18	34	1.92
5073436--5073889	223	2.0	220	92	2	757	32	14	18	34	1.91
5073439--5073952	223	2.3	220	89	3	750	32	15	18	33	1.92
5074990--5075028	19	2.1	19	85	0	51	33	2	0	64	1.08
5077646--5077690	21	2.0	21	87	8	63	64	2	0	33	1.06
5079422--5079452	16	1.9	16	93	0	53	16	3	22	58	1.52
5082817--5083028	52	4.3	47	84	5	192	30	28	15	25	1.96
5082831--5083012	52	3.6	51	84	6	230	28	29	17	24	1.97
5085523--5085603	15	5.5	15	83	1	101	60	13	16	9	1.58
5085523--5085607	45	1.9	44	85	2	116	58	16	15	9	1.61
5085535--5085612	15	5.2	15	77	9	70	57	15	15	11	1.65
5088815--5089026	52	4.3	47	84	5	192	30	28	15	25	1.96
5088829--5089010	52	3.6	51	84	6	230	28	29	17	24	1.97
5094595--5094702	54	2.1	51	81	11	121	62	0	2	33	1.15
5095211--5095270	30	2.0	30	93	0	102	20	10	13	56	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5104858--5104899	22	2.0	21	90	4	66	35	0	0	64	0.94
5104858--5104905	10	4.6	10	85	10	60	33	0	0	66	0.92
5118890--5118958	23	3.0	23	73	12	70	20	24	20	34	1.96
5125682--5125796	23	4.9	23	79	12	83	21	26	20	31	1.98
5127098--5127131	12	2.8	12	90	0	50	73	2	17	5	1.16
5132481--5132510	13	2.3	13	100	0	60	13	0	23	63	1.29
5132932--5132971	19	2.1	19	86	9	55	32	7	0	60	1.25
5134320--5134361	18	2.3	18	87	4	57	45	4	0	50	1.23
5138343--5138614	125	2.2	125	88	4	415	29	16	22	31	1.95
5141819--5142231	28	15.6	23	78	18	263	30	0	23	46	1.53
5141956--5141998	23	2.0	21	95	4	68	27	0	23	48	1.51
5142116--5142231	23	4.9	21	82	11	79	32	0	21	45	1.52
5141643--5142241	29	21.5	29	82	12	627	30	0	24	45	1.53
5142527--5142582	24	2.3	24	93	0	94	21	17	33	26	1.96
5144548--5144603	29	1.9	29	89	7	87	57	1	0	41	1.09
5144660--5144717	11	5.3	11	69	22	50	39	0	27	32	1.57
5144638--5144718	22	3.7	22	86	0	117	38	0	28	33	1.57
5147969--5147994	13	2.0	13	100	0	52	15	30	15	38	1.88
5149388--5149415	9	3.1	9	100	0	56	21	0	10	67	1.20
5149837--5149879	12	3.4	12	78	12	50	41	11	2	44	1.53
5149837--5149871	14	2.5	14	85	0	52	42	8	2	45	1.49
5152224--5152269	23	2.0	23	82	0	56	41	10	2	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5152237--5152297	31	2.0	31	83	6	79	39	13	3	44	1.60
5152366--5152396	14	2.1	15	94	5	55	16	6	3	74	1.16
5159011--5159045	16	2.2	16	100	0	70	37	0	0	62	0.95
5164508--5164550	18	2.2	20	88	8	63	25	2	6	65	1.30
5165831--5166688	300	2.9	297	78	7	885	37	13	8	40	1.76
5165527--5167387	840	2.2	834	79	7	1977	36	13	10	39	1.79
5168008--5168561	305	1.8	307	82	5	717	32	14	9	43	1.77
5173007--5173042	18	1.9	18	88	5	54	47	5	25	22	1.73
5178423--5178469	21	2.2	21	85	11	60	27	0	4	68	1.08
5178422--5178483	22	2.8	23	81	16	69	27	0	3	69	1.04
5179187--5179257	26	2.5	27	72	19	65	66	1	4	28	1.19
5179318--5179351	15	2.4	14	95	5	59	17	0	0	82	0.67
5179380--5179489	58	1.9	58	84	3	150	22	11	13	51	1.73
5179904--5179961	19	3.1	18	79	16	73	63	3	1	31	1.21
5179905--5179976	19	3.6	19	78	14	67	63	2	1	31	1.17
5179941--5180004	30	2.1	30	82	5	76	62	1	1	34	1.14
5181540--5181605	29	2.3	30	94	5	118	56	13	7	22	1.63
5183748--5183796	25	2.0	25	92	4	82	51	4	2	42	1.32
5190094--5190145	3	17.3	3	76	7	52	36	3	1	57	1.28
5190094--5190145	24	2.2	24	86	6	70	36	3	1	57	1.28
5192494--5192540	18	2.6	18	83	10	51	12	8	8	70	1.34
5192590--5192614	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5195329--5195376	24	2.0	24	100	0	96	45	12	12	29	1.78
5203136--5203170	18	1.9	18	94	0	61	17	5	5	71	1.25
5214888--5215019	69	1.9	69	93	3	230	35	16	12	34	1.87
5216905--5217023	10	12.3	9	75	19	75	69	0	30	0	0.88
5216905--5217056	4	38.2	4	72	21	76	69	0	29	0	0.93
5216904--5217013	38	3.0	37	85	10	138	69	0	30	0	0.89
5216918--5217056	38	3.7	39	78	16	127	69	0	29	0	0.93
5217392--5217909	158	3.3	156	74	15	547	51	9	10	29	1.67
5217385--5218144	318	2.4	318	90	4	1192	50	8	11	30	1.68
5222636--5222680	18	2.5	18	92	0	72	13	51	6	28	1.66

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