genome.fa.s18.2.7.7.80.10.50.1000.128.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  128  of  208  ( 24943 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)
42115600--42115644	18	2.6	16	89	10	63	75	2	17	4	1.07
42115610--42115644	6	5.8	6	86	0	52	77	2	17	2	1.02
42116848--42116916	27	2.5	27	81	6	77	15	14	18	50	1.78
42117968--42118002	13	2.7	13	95	0	61	71	0	22	5	1.07
42118416--42118469	25	2.2	25	86	6	74	18	42	11	27	1.84
42121264--42121317	27	2.0	27	85	7	74	29	11	12	46	1.77
42128099--42128153	20	2.8	20	85	0	83	38	16	21	23	1.93
42143833--42143883	23	2.2	23	92	0	84	27	9	21	41	1.84
42144884--42144913	11	2.7	11	94	0	51	46	0	26	26	1.53
42144911--42145534	320	1.9	324	87	5	917	35	9	17	37	1.83
42145887--42145914	10	2.8	10	100	0	56	21	7	0	71	1.09
42151423--42151475	23	2.4	22	76	20	56	9	18	1	69	1.25
42154490--42154647	41	3.9	41	82	0	154	22	18	24	34	1.96
42161422--42161493	27	2.7	27	93	0	126	29	25	19	26	1.99
42164069--42164128	20	3.0	20	85	0	84	15	30	20	35	1.93
42164081--42164140	20	3.0	21	76	13	65	18	28	16	36	1.93
42166166--42166241	33	2.3	33	77	4	82	35	15	23	25	1.94
42174854--42175091	43	5.6	43	77	9	254	34	25	16	23	1.96
42174809--42175131	85	3.8	85	87	0	423	34	25	16	24	1.96
42174809--42175130	170	1.9	169	87	1	466	34	25	16	23	1.96
42175107--42175157	26	2.0	26	96	0	93	31	31	19	17	1.95
42184122--42184149	8	3.5	8	100	0	56	0	10	0	89	0.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42187739--42187782	23	1.9	23	85	0	61	38	2	6	52	1.41
42192655--42192716	25	2.5	25	81	5	63	41	16	12	29	1.85
42192675--42192746	25	2.9	25	85	0	90	45	18	4	31	1.68
42209605--42209717	25	4.5	25	80	7	81	40	18	12	28	1.87
42211897--42211923	14	1.9	14	100	0	54	33	22	14	29	1.94
42212830--42212856	14	1.9	14	100	0	54	33	22	14	29	1.94
42214696--42214722	14	1.9	14	100	0	54	33	22	14	29	1.94
42215629--42215655	14	1.9	14	100	0	54	33	22	14	29	1.94
42216562--42216588	14	1.9	14	100	0	54	33	22	14	29	1.94
42217495--42217521	14	1.9	14	100	0	54	33	22	14	29	1.94
42218428--42218454	14	1.9	14	100	0	54	33	22	14	29	1.94
42219361--42219387	14	1.9	14	100	0	54	33	22	14	29	1.94
42220294--42220320	14	1.9	14	100	0	54	33	22	14	29	1.94
42221227--42221253	14	1.9	14	100	0	54	33	22	14	29	1.94
42222160--42222186	14	1.9	14	100	0	54	33	22	14	29	1.94
42223093--42223119	14	1.9	14	100	0	54	33	22	14	29	1.94
42211456--42225490	933	15.0	933	97	0	26501	38	15	17	28	1.91
42224025--42224051	14	1.9	14	100	0	54	33	22	14	29	1.94
42224958--42224985	14	2.0	14	100	0	56	35	21	14	28	1.92
42227029--42227252	40	5.6	40	91	1	317	25	20	27	26	1.99
42226991--42227252	120	2.2	119	83	3	321	24	20	27	26	1.99
42227029--42227287	80	3.3	80	85	3	256	25	20	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42229040--42229066	14	1.9	14	100	0	54	33	22	14	29	1.94
42229349--42229427	38	2.1	38	92	0	131	13	18	29	37	1.90
42234237--42234499	40	6.6	39	86	4	278	26	27	20	25	1.99
42234431--42234508	40	1.9	41	82	10	97	26	28	20	24	1.99
42241803--42242060	40	6.5	40	86	5	290	26	27	20	25	1.99
42249407--42249465	30	2.0	30	93	0	100	22	27	28	22	1.99
42258286--42258323	6	6.3	6	93	0	58	10	21	0	68	1.19
42258308--42258353	17	2.7	18	80	16	53	0	26	0	73	0.83
42265909--42265937	12	2.5	12	94	5	51	6	17	0	75	1.01
42272150--42272222	23	3.3	22	78	14	78	75	4	9	10	1.17
42272184--42272222	10	3.7	10	83	12	51	76	2	7	12	1.09
42272182--42272226	12	3.9	12	85	11	67	75	2	6	15	1.11
42279803--42279832	15	2.0	15	100	0	60	53	13	6	26	1.64
42280251--42280277	2	13.5	2	100	0	54	51	0	48	0	1.00
42283290--42283603	111	2.9	110	89	2	472	35	18	14	30	1.92
42283709--42283776	4	17.0	4	81	6	68	70	5	2	20	1.21
42284093--42284169	3	25.7	3	73	15	52	64	3	5	25	1.31
42285528--42285805	132	2.1	132	89	0	421	26	24	17	31	1.97
42285787--42286106	44	7.3	44	65	12	156	24	25	23	26	2.00
42285797--42286222	88	4.8	87	93	1	672	25	24	24	25	2.00
42287381--42287423	14	3.0	14	83	12	52	11	13	0	74	1.07
42288223--42288265	6	7.2	6	79	10	52	0	18	2	79	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42288223--42288264	17	2.3	20	80	19	56	0	19	2	78	0.86
42318162--42318187	13	2.0	13	100	0	52	46	7	0	46	1.31
42318576--42318614	20	1.9	21	89	5	62	35	12	28	23	1.91
42330371--42330509	50	2.8	50	78	4	145	23	28	21	27	1.99
42332973--42333149	46	3.8	46	93	0	282	36	0	10	52	1.40
42336543--42336645	41	2.5	41	85	1	134	32	20	13	33	1.91
42337895--42338282	23	16.5	23	74	4	308	42	16	14	26	1.87
42337838--42338282	71	6.3	70	88	2	613	41	17	13	26	1.87
42337853--42338282	141	3.0	141	93	1	718	42	17	13	26	1.87
42337915--42338284	48	7.8	49	72	13	195	41	16	14	27	1.87
42339008--42339105	28	3.5	28	87	0	133	31	24	12	31	1.92
42340313--42340751	235	1.9	235	92	0	743	30	12	22	34	1.92
42342853--42343115	40	6.6	40	88	3	325	24	20	27	26	1.99
42342892--42343150	80	3.3	80	85	3	256	25	20	27	25	1.99
42350204--42350268	33	2.0	33	90	0	103	38	7	13	40	1.74
42353330--42353621	81	3.6	81	81	5	347	42	20	17	18	1.89
42353315--42353619	27	11.3	27	83	0	295	43	20	17	18	1.88
42353980--42354093	28	4.0	28	81	8	140	28	25	18	28	1.98
42354030--42354092	30	2.1	30	90	0	99	28	28	17	25	1.97
42353986--42354093	58	1.9	56	84	7	146	27	25	19	27	1.99
42361165--42361488	162	2.0	161	93	0	549	37	21	7	33	1.81
42363273--42363367	41	2.3	41	88	0	136	31	17	16	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42364610--42364718	51	2.1	51	86	3	148	31	2	53	12	1.53
42364764--42364841	19	4.0	19	74	11	59	38	0	2	58	1.12
42364856--42364919	22	2.6	25	76	18	64	34	0	3	62	1.11
42365564--42365607	23	1.9	23	81	9	54	43	27	2	27	1.67
42367121--42367146	12	2.2	12	100	0	52	50	0	19	30	1.48
42367343--42367386	21	2.1	21	87	8	63	36	25	2	36	1.69
42368474--42368528	18	2.9	18	84	12	67	76	3	1	18	1.02
42368893--42368933	6	6.8	6	97	0	64	9	0	56	34	1.32
42369316--42369356	21	2.0	21	90	0	64	12	21	26	39	1.89
42369421--42369583	44	3.8	41	75	9	155	32	30	17	20	1.95
42369421--42369524	42	2.4	41	85	7	145	34	30	16	18	1.93
42369425--42369583	87	1.8	86	82	4	203	31	30	17	20	1.96
42369835--42370042	44	4.8	44	76	7	203	23	16	28	31	1.96
42369815--42370042	86	2.6	85	79	5	251	21	16	29	32	1.95
42370107--42370147	21	2.0	21	90	0	64	39	26	21	12	1.89
42370531--42370571	6	6.8	6	97	0	64	34	56	0	9	1.32
42370531--42370579	6	8.2	6	95	0	53	32	57	0	10	1.32
42372274--42372322	23	2.1	23	96	0	89	38	2	22	36	1.66
42372431--42372472	20	2.2	20	86	4	59	66	4	0	28	1.12
42372532--42372559	13	2.2	13	100	0	56	35	17	0	46	1.49
42374788--42374831	22	2.0	22	90	4	70	63	2	0	34	1.07
42374782--42374879	25	3.9	25	66	22	55	62	1	2	34	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42374854--42374898	19	2.4	19	80	0	54	66	2	0	31	1.04
42374974--42375082	51	2.1	51	86	3	148	12	53	2	31	1.53
42376326--42376420	41	2.3	41	88	0	136	33	16	17	31	1.93
42385523--42385635	28	4.0	28	78	11	131	27	18	25	28	1.98
42386012--42386273	27	9.7	27	78	6	244	18	18	19	43	1.88
42385990--42386297	55	5.6	54	80	5	298	18	17	20	43	1.88
42385991--42386282	82	3.6	81	80	4	318	18	18	20	43	1.89
42389294--42389368	33	2.2	34	90	2	116	42	12	6	38	1.68
42417566--42417598	14	2.4	14	100	0	66	36	27	6	30	1.81
42420039--42420076	20	1.9	20	94	0	67	23	7	0	68	1.16

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