genome.fa.s24.2.7.7.80.10.50.1000.11.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   

This is table  11  of  240  ( 28759 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)
4072833--4073075	50	4.8	50	89	0	351	26	21	30	21	1.98
4074183--4074239	30	1.9	30	82	3	71	43	3	22	29	1.70
4074577--4074836	50	4.8	50	68	17	171	25	21	31	21	1.98
4074655--4074689	17	2.1	17	94	0	61	20	22	31	25	1.98
4074604--4074731	67	1.9	67	93	0	220	24	20	32	23	1.98
4074671--4074836	50	3.3	50	87	0	233	25	21	31	21	1.98
4078331--4078452	60	2.0	60	90	3	192	54	12	0	31	1.43
4078445--4078486	21	2.0	21	100	0	84	57	14	0	28	1.38
4078620--4078649	4	7.5	4	100	0	60	0	23	0	76	0.78
4079378--4079456	21	3.8	21	74	14	58	49	5	1	44	1.32
4080684--4080712	9	3.2	9	100	0	58	10	68	0	20	1.18
4084610--4084635	13	2.0	13	100	0	52	46	23	7	23	1.78
4107400--4107441	21	2.0	21	90	0	66	30	11	50	7	1.66
4107406--4107446	21	2.0	21	95	0	73	26	12	56	4	1.56
4124349--4124402	13	4.2	13	74	21	51	72	0	27	0	0.85
4124452--4124609	60	2.6	59	83	5	165	31	0	12	55	1.37
4124480--4124609	60	2.2	60	92	0	215	31	0	12	56	1.36
4124920--4125032	55	2.1	54	89	1	172	32	13	10	43	1.78
4125007--4125058	20	2.5	22	70	20	56	40	0	1	57	1.10
4133072--4133110	17	2.2	17	86	13	53	56	0	0	43	0.99
4133081--4133117	17	2.1	19	85	10	51	56	0	0	43	0.99
4133508--4133556	25	2.0	25	95	0	89	28	14	12	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4136503--4136554	24	2.2	24	89	0	77	55	9	1	32	1.43
4148894--4148939	11	4.2	11	80	0	56	19	0	8	71	1.11
4148886--4148933	22	2.3	21	82	10	64	16	0	12	70	1.16
4148921--4148950	14	2.1	14	93	0	51	23	3	6	66	1.30
4156868--4156956	45	2.0	45	81	16	105	34	2	5	57	1.35
4157579--4157633	25	2.2	25	86	3	74	27	0	5	67	1.12
4164022--4164066	19	2.4	19	92	3	74	28	13	11	46	1.77
4167587--4167628	20	2.0	20	86	9	57	57	4	11	26	1.54
4175589--4175617	12	2.5	12	94	5	51	0	13	10	75	1.04
4177835--4177877	16	2.5	17	81	11	61	48	4	6	39	1.51
4177870--4177898	12	2.4	12	100	0	58	62	0	0	37	0.96
4183595--4183635	14	2.6	16	77	14	50	34	34	26	4	1.78
4188248--4188286	20	1.9	19	85	10	51	64	2	7	25	1.33
4188410--4188474	10	7.0	9	75	16	53	32	3	0	64	1.09
4189660--4189711	22	2.4	22	83	0	68	55	15	0	28	1.40
4194389--4194449	19	3.6	19	66	32	57	21	6	0	72	1.07
4194382--4194450	30	2.3	30	97	2	129	20	5	0	73	1.03
4194384--4194459	30	2.6	30	91	2	127	19	5	1	73	1.09
4194408--4194480	20	3.6	20	69	7	58	21	2	1	73	1.03
4194396--4194448	13	3.3	18	65	29	55	18	7	0	73	1.06
4194385--4194460	10	7.7	10	70	1	55	19	5	1	73	1.09
4196867--4196924	29	2.0	29	93	0	98	51	17	12	18	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4251193--4251371	23	7.7	23	82	5	171	44	18	10	26	1.82
4251193--4251371	48	3.8	46	85	3	216	44	18	10	26	1.82
4252312--4252433	42	2.9	42	81	4	147	32	23	16	27	1.96
4256310--4256570	51	5.3	51	93	4	421	29	22	14	33	1.94
4256467--4256571	44	2.4	44	90	3	158	30	20	14	34	1.93
4257635--4257668	11	2.8	12	91	8	52	35	8	11	44	1.72
4259913--4260064	41	3.7	41	98	0	286	20	29	20	29	1.98
4259917--4260092	41	4.3	41	91	2	255	22	27	19	29	1.98
4261852--4261876	13	1.9	13	100	0	50	40	24	4	32	1.73
4265261--4265298	19	2.0	19	94	0	67	36	39	7	15	1.77
4267496--4267529	17	2.0	17	94	0	59	44	50	0	5	1.26
4272135--4272168	17	2.0	17	94	0	59	44	50	0	5	1.26
4278553--4278613	31	2.0	31	87	6	88	49	0	4	45	1.23
4287442--4287472	11	2.8	11	95	0	53	29	3	48	19	1.64
4291526--4291618	18	5.2	18	88	0	132	31	13	24	30	1.94
4291526--4291618	36	2.6	36	89	0	150	31	13	24	30	1.94
4295761--4295795	8	4.4	8	88	0	52	37	20	2	40	1.67
4296579--4296621	9	5.0	8	81	10	50	2	23	0	74	0.93
4296579--4296621	13	3.3	14	87	6	56	2	23	0	74	0.93
4296579--4296621	4	10.0	4	80	14	50	2	23	0	74	0.93
4299662--4299692	10	3.0	10	90	9	53	67	0	3	29	1.06
4303112--4303148	16	2.3	17	86	13	60	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4304504--4304716	85	2.5	85	81	6	227	39	20	7	32	1.80
4304747--4304807	19	3.2	18	80	11	59	60	1	1	36	1.16
4305115--4305197	19	4.4	18	79	8	76	31	6	1	61	1.28
4305088--4305156	29	2.4	27	81	9	75	30	5	2	60	1.34
4307745--4307798	26	2.1	26	82	6	65	20	7	9	62	1.48
4311818--4311846	5	6.0	5	92	8	51	79	0	0	20	0.74
4312254--4312318	26	2.6	25	73	22	64	49	3	10	36	1.53
4313330--4313369	20	2.0	20	85	9	55	2	17	25	55	1.55
4313847--4314135	44	6.7	43	71	12	193	26	20	20	32	1.97
4314093--4314667	88	6.6	87	90	3	660	23	22	22	30	1.99
4314166--4314301	43	3.2	43	64	21	104	22	19	25	32	1.97
4314156--4314667	88	5.9	88	93	2	809	24	22	23	30	1.99
4314858--4314887	15	2.0	15	100	0	60	33	6	13	46	1.69
4316832--4316860	8	3.6	8	100	0	58	13	0	13	72	1.13
4321230--4321258	5	6.0	5	92	8	51	79	0	0	20	0.74
4321669--4321733	26	2.6	25	73	22	64	49	3	10	36	1.53
4322745--4322784	20	2.0	20	85	9	55	2	17	25	55	1.55
4332165--4332226	19	3.3	18	72	18	56	32	1	1	64	1.13
4332166--4332226	18	3.2	19	75	11	63	31	1	1	65	1.12
4332780--4332822	23	1.9	23	85	4	61	58	0	2	39	1.11
4333932--4333995	13	4.9	13	78	0	74	34	6	21	37	1.79
4333934--4333995	26	2.4	26	83	0	88	33	6	22	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4337026--4337059	17	1.9	18	88	5	52	41	20	11	26	1.87
4351386--4351431	2	23.0	2	95	0	83	47	0	52	0	1.00
4354556--4354609	24	2.2	25	83	6	65	48	1	3	46	1.30
4354591--4354630	16	2.5	16	91	0	62	47	2	7	42	1.45
4354633--4354663	16	2.0	15	93	6	53	32	0	9	58	1.31
4354633--4354780	59	2.5	59	96	1	271	39	4	8	47	1.53
4354762--4354789	9	3.1	9	100	0	56	32	0	10	57	1.33
4354883--4354931	24	2.0	26	84	15	68	57	2	0	40	1.10
4371180--4371230	26	2.0	26	84	7	68	41	7	3	47	1.51
4371233--4371291	26	2.2	27	85	8	77	44	1	5	49	1.34
4371686--4371732	23	2.0	23	100	0	94	12	21	27	38	1.90
4376444--4376479	16	2.2	16	90	0	54	41	2	0	55	1.14
4376487--4376529	16	2.7	15	82	10	50	76	2	9	11	1.10
4377229--4377269	3	13.7	3	100	0	82	34	0	0	65	0.93
4377416--4377475	23	2.7	21	76	19	59	45	0	25	30	1.54
4377415--4377479	27	2.6	26	81	13	82	43	0	24	32	1.55
4380243--4380276	13	2.5	13	90	4	50	47	14	0	38	1.45
4387424--4387455	16	2.0	16	93	0	55	37	0	9	53	1.34
4395847--4395904	19	3.1	18	80	7	62	63	0	1	34	1.04
4395891--4395938	19	2.5	20	82	6	62	54	0	2	43	1.12
4395874--4395926	26	2.1	26	89	3	81	56	0	1	41	1.10
4395841--4395927	45	1.9	45	81	9	106	60	0	2	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4396183--4396268	45	1.9	44	85	2	118	36	3	2	58	1.28
4396246--4396313	27	2.4	29	78	16	79	36	0	1	61	1.05
4398976--4399018	18	2.4	18	88	0	59	72	6	11	9	1.29
4403897--4403951	13	4.2	13	72	9	58	32	5	23	38	1.78
4404130--4404227	33	2.9	35	73	19	91	50	0	3	46	1.17
4406816--4406881	11	6.1	11	72	10	55	30	0	3	66	1.06
4413327--4413389	30	2.1	31	84	3	83	49	11	1	38	1.48
4413620--4413658	17	2.4	16	86	4	51	38	2	5	53	1.37
4421733--4421796	24	2.7	24	92	2	85	45	9	17	28	1.79
4421742--4421796	24	2.3	24	100	0	110	47	9	18	25	1.78

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   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240