genome.fa.s25.2.7.7.80.10.50.1000.157.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  157  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)
46597425--46597460	3	12.0	3	100	0	72	66	0	0	33	0.92
46598624--46598679	19	2.9	20	72	20	64	1	8	42	46	1.45
46603935--46604049	50	2.3	50	86	5	153	20	29	18	31	1.96
46603935--46604058	25	5.0	25	72	9	92	20	29	17	32	1.96
46603943--46604074	50	2.6	50	80	4	124	21	27	19	31	1.98
46616810--46616855	6	7.7	6	100	0	92	50	34	15	0	1.44
46616949--46616984	2	18.0	2	100	0	72	0	50	0	50	1.00
46633678--46633954	90	3.1	90	82	2	333	29	23	14	31	1.95
46635846--46635875	8	3.8	8	90	0	51	60	0	0	40	0.97
46636460--46636516	27	2.1	27	84	9	73	31	1	8	57	1.39
46644180--46644475	50	5.8	50	79	6	267	24	27	20	28	1.99
46644229--46644467	99	2.3	103	81	9	274	24	28	20	26	1.99
46644180--46644475	49	5.8	50	80	6	276	24	27	20	28	1.99
46645897--46646116	37	6.0	37	94	1	372	24	21	16	37	1.93
46646080--46646296	52	4.2	52	84	8	284	27	23	14	35	1.93
46646130--46646302	46	3.7	46	84	9	231	28	22	14	34	1.93
46646079--46646302	98	2.3	98	91	0	358	28	23	14	34	1.93
46649197--46649256	28	2.1	28	81	9	68	60	3	3	33	1.30
46656588--46656617	13	2.2	14	94	5	53	36	0	0	63	0.95
46659827--46660204	190	2.0	190	91	1	605	32	21	14	32	1.93
46662858--46662911	26	2.1	26	100	0	108	24	7	11	57	1.58
46675015--46675071	10	6.0	10	78	12	57	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46675036--46675072	19	1.9	19	88	0	56	21	0	0	78	0.75
46682870--46682919	21	2.5	21	80	6	59	20	22	14	44	1.86
46687096--46687168	33	2.2	33	92	0	119	36	6	21	34	1.81
46692007--46692101	47	2.0	47	97	0	181	23	15	27	33	1.95
46694497--46694533	18	2.1	18	90	10	58	56	0	8	35	1.29
46707076--46707118	19	2.2	20	91	4	70	25	9	16	48	1.75
46707645--46707749	48	2.2	48	98	1	203	23	33	26	16	1.96
46707815--46707854	16	2.5	16	91	0	62	47	2	7	42	1.45
46708066--46708099	16	2.1	16	100	0	68	70	11	0	17	1.16
46713896--46713944	25	2.0	25	87	0	71	40	0	0	59	0.98
46715696--46715737	22	2.0	22	86	13	61	64	2	11	21	1.38
46716429--46716468	20	2.0	21	90	5	64	37	5	5	52	1.45
46717173--46718180	143	7.1	143	88	0	1392	27	21	20	30	1.98
46725860--46725902	22	2.0	21	86	13	61	62	2	11	23	1.40
46727397--46727429	16	2.0	17	94	5	59	42	15	0	42	1.46
46729083--46729129	20	2.3	21	74	3	51	48	6	2	42	1.40
46729124--46729164	15	2.6	16	81	11	50	46	0	0	53	1.00
46729138--46729228	23	3.9	22	73	15	85	41	2	2	53	1.25
46731571--46731628	26	2.2	26	84	6	73	56	5	10	27	1.54
46731875--46731907	14	2.3	15	94	5	59	30	0	33	36	1.58
46732133--46732192	14	4.3	13	83	8	66	21	0	45	33	1.52
46732133--46732185	7	7.6	7	78	0	61	20	0	47	32	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46732134--46732213	21	3.8	21	81	6	63	25	0	42	32	1.55
46732167--46732205	7	5.6	7	84	0	51	25	0	35	38	1.56
46732160--46732205	14	3.3	14	90	0	56	23	0	39	36	1.55
46732167--46732213	14	3.4	14	80	11	51	27	0	36	36	1.57
46740258--46740286	10	2.7	11	94	5	51	41	0	20	37	1.53
46740596--46740653	25	2.4	24	77	5	62	15	31	17	36	1.91
46747132--46747157	3	8.7	3	100	0	52	34	0	0	65	0.93
46747544--46747616	32	2.3	32	88	9	107	46	5	16	31	1.70
46749506--46749567	31	2.0	31	100	0	124	25	19	6	48	1.72
46755264--46755316	11	5.1	10	78	15	54	47	0	1	50	1.12
46755301--46755373	29	2.6	29	93	6	123	65	0	2	31	1.06
46755289--46755434	40	3.9	40	69	29	140	63	0	3	32	1.11
46755312--46755362	9	5.4	9	75	15	50	72	0	1	25	0.95
46755264--46755315	10	4.9	11	77	15	56	48	0	1	50	1.12
46755669--46755704	9	3.9	9	96	3	63	33	0	8	58	1.28
46755669--46755704	19	1.9	18	94	5	63	33	0	8	58	1.28
46755768--46755823	20	2.7	21	75	10	53	23	3	7	66	1.33
46756898--46756947	23	2.1	24	85	3	66	74	18	0	8	1.06
46757999--46758038	19	2.0	20	85	4	55	40	0	2	57	1.12
46759668--46759763	31	3.1	31	95	3	174	45	13	9	31	1.75
46760500--46760595	31	3.1	31	95	3	174	45	13	9	31	1.75
46759270--46760930	832	2.0	833	98	0	3207	41	18	13	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46773163--46773236	36	2.0	37	82	7	89	29	1	31	37	1.66
46777701--46777740	19	2.0	20	90	4	64	65	0	2	32	1.06
46777769--46777827	26	2.2	27	84	3	75	38	1	0	59	1.08
46779824--46779851	3	9.3	3	100	0	56	0	32	0	67	0.91
46785483--46785639	43	3.7	41	76	13	158	23	18	28	29	1.98
46785800--46785831	16	1.9	17	93	6	57	40	0	21	37	1.54
46793083--46793241	43	3.8	41	78	8	135	23	17	27	31	1.97
46793402--46793433	16	1.9	17	93	6	57	40	0	21	37	1.54
46796105--46796155	26	2.0	26	96	0	93	29	35	23	11	1.90
46795968--46796234	104	2.6	104	92	2	430	30	30	20	18	1.96
46796562--46796626	30	2.2	29	81	8	76	30	27	6	35	1.81
46796569--46796626	30	1.9	30	85	0	80	31	24	6	37	1.82
46801231--46801498	104	2.6	105	92	1	441	29	30	20	18	1.96
46801826--46801890	30	2.2	29	81	8	76	30	27	6	35	1.81
46801833--46801890	30	1.9	30	85	0	80	31	24	6	37	1.82
46806042--46806108	21	3.2	21	68	8	55	43	17	22	16	1.88
46813706--46813819	59	1.9	59	83	3	149	42	16	10	30	1.82
46814544--46814584	21	2.0	21	90	0	64	14	26	0	58	1.37
46815130--46815170	21	2.0	21	90	0	64	53	14	4	26	1.61
46816140--46816244	11	9.9	11	70	22	64	40	2	0	57	1.14
46816124--46816260	42	3.3	40	87	8	195	35	2	0	62	1.08
46816232--46816280	22	2.2	21	86	10	71	36	0	4	59	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46816773--46816814	20	2.1	20	86	8	59	38	0	4	57	1.20
46817168--46817192	12	2.1	12	100	0	50	52	16	0	32	1.44
46817775--46817845	3	23.7	3	81	11	83	32	2	1	63	1.18
46817785--46817874	24	3.9	22	75	18	69	27	5	3	63	1.33
46818492--46819003	109	4.7	109	91	0	792	30	13	19	36	1.91
46823070--46823258	42	4.5	42	86	3	224	26	23	20	29	1.99
46824228--46824267	4	10.0	4	100	0	80	50	25	0	25	1.50
46830069--46830112	14	3.2	13	84	12	52	29	2	2	65	1.16
46830376--46830417	10	4.2	10	79	11	50	42	4	0	52	1.22
46838106--46838163	30	1.9	30	89	0	89	41	3	24	31	1.71
46838376--46838406	13	2.4	13	94	0	53	32	0	12	54	1.38
46838501--46838692	50	3.8	50	86	2	260	28	23	28	19	1.98
46840249--46840296	19	2.5	19	83	10	53	60	10	0	29	1.30
46841699--46841732	17	2.1	17	94	5	61	20	5	26	47	1.73
46848992--46849024	16	2.1	16	94	0	57	39	6	33	21	1.78
46849352--46849398	16	3.0	16	81	12	62	53	0	0	46	1.00
46849237--46849771	120	4.5	120	94	0	887	50	5	2	42	1.39
46849471--46849517	16	3.0	16	78	12	53	51	2	0	46	1.13
46849616--46849650	18	2.0	17	88	5	52	54	0	0	45	0.99
46849237--46849776	239	2.3	239	92	2	890	50	5	2	41	1.38
46849642--46849671	16	1.9	15	93	6	51	46	10	3	40	1.54
46849753--46850011	47	5.7	46	69	19	184	47	3	3	45	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46849710--46850032	91	3.4	95	80	14	343	48	2	3	45	1.32
46849787--46850035	91	2.7	91	95	0	444	47	2	3	46	1.33
46850000--46850038	17	2.5	15	84	12	51	58	0	0	41	0.98
46861493--46861526	17	1.9	18	88	5	52	41	0	8	50	1.34
46861953--46862003	27	1.9	26	84	4	66	68	7	0	23	1.15
46862088--46862484	151	2.6	151	89	2	602	30	9	7	52	1.59
46863578--46864130	153	3.7	149	86	4	754	52	7	9	29	1.62
46863578--46864152	151	3.8	151	85	4	757	53	8	9	29	1.62
46863579--46864164	303	1.9	302	87	3	854	53	8	10	28	1.63
46864931--46864975	17	2.6	17	96	0	81	48	2	0	48	1.13

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