genome.fa.s24.2.7.7.80.10.50.1000.29.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  29  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)
10146496--10146857	100	3.4	107	87	9	526	29	15	14	39	1.88
10146700--10147032	177	1.9	170	90	5	535	30	15	12	42	1.84
10165384--10165606	97	2.2	99	84	10	274	41	13	16	28	1.86
10165444--10165784	181	1.9	171	90	7	533	43	12	14	29	1.82
10165623--10165991	103	3.4	112	88	8	573	40	14	15	28	1.87
10166418--10166484	29	2.3	29	77	10	75	29	2	8	58	1.44
10169174--10169376	46	4.3	48	88	7	265	35	14	21	28	1.92
10169108--10169376	98	2.7	98	93	0	457	34	14	22	28	1.93
10169340--10169476	37	4.0	36	75	18	157	37	17	20	24	1.94
10169378--10169433	28	2.0	28	100	0	112	42	21	10	25	1.85
10170728--10170846	58	2.0	59	96	1	222	22	13	31	31	1.93
10170788--10170930	49	2.9	49	91	0	223	24	13	29	32	1.94
10174117--10174319	46	4.3	48	88	7	265	35	14	21	28	1.92
10174051--10174319	98	2.7	98	93	0	457	34	14	22	28	1.93
10174283--10174419	37	4.0	36	75	18	157	37	17	20	24	1.94
10174321--10174376	28	2.0	28	100	0	112	42	21	10	25	1.85
10175110--10175656	112	5.3	107	76	16	483	31	15	13	38	1.87
10175408--10175655	108	2.2	108	85	7	318	31	16	12	39	1.85
10175047--10175647	297	2.0	290	87	6	855	31	15	14	38	1.87
10175640--10175673	17	2.0	17	88	0	50	0	11	2	85	0.71
10176667--10176715	22	2.2	23	85	3	73	59	2	0	38	1.09
10183299--10183325	14	1.9	14	100	0	54	40	7	7	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10192724--10192773	17	3.1	16	80	11	57	70	0	30	0	0.88
10192834--10192921	45	2.0	45	90	2	142	28	11	18	42	1.85
10193960--10193994	18	1.9	18	100	0	70	11	17	8	62	1.52
10194234--10194341	50	2.2	50	88	3	155	46	14	11	27	1.79
10194736--10194770	18	1.9	18	94	0	61	25	11	22	40	1.88
10212355--10212395	21	2.0	21	90	0	64	21	29	19	29	1.98
10220216--10220264	23	2.2	22	79	13	55	46	0	2	51	1.12
10221580--10221621	16	2.6	16	84	0	57	59	0	0	40	0.97
10221649--10221705	15	3.5	15	73	17	60	49	3	0	47	1.18
10222153--10222195	14	3.1	14	83	3	61	41	16	4	37	1.69
10224316--10224362	20	2.3	20	81	0	58	29	34	12	23	1.92
10231320--10231384	32	2.0	33	82	8	80	63	0	0	36	0.95
10231598--10231628	8	3.9	8	100	0	62	87	0	0	12	0.55
10231878--10231908	14	2.2	14	100	0	62	41	12	12	32	1.81
10241559--10241633	39	1.9	39	86	5	107	38	5	0	56	1.22
10241637--10241666	14	2.1	14	93	0	51	46	10	0	43	1.37
10245232--10245260	14	2.1	14	100	0	58	0	13	27	58	1.36
10249327--10249378	24	2.1	26	82	7	63	3	17	3	75	1.11
10263924--10263950	14	1.9	14	100	0	54	22	3	0	74	0.98
10264711--10264791	3	26.0	3	75	16	67	32	3	1	62	1.20
10266766--10267091	46	7.6	46	81	15	394	28	22	14	34	1.93
10266901--10267055	36	4.0	36	79	15	175	28	20	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10266855--10267091	82	2.9	82	94	0	411	29	21	13	35	1.92
10266766--10267091	128	2.5	132	81	15	398	28	22	14	34	1.93
10268799--10268830	10	3.2	10	90	0	55	53	0	0	46	1.00
10269161--10269197	16	2.2	17	86	13	51	67	2	21	8	1.29
10274568--10274888	162	2.0	162	92	2	538	35	19	21	23	1.96
10288003--10288046	18	2.4	18	92	0	70	54	9	0	36	1.32
10288004--10288044	12	3.4	12	93	0	64	56	7	0	36	1.27
10288957--10288994	14	2.4	17	87	12	55	52	0	0	47	1.00
10288974--10289017	12	3.7	11	80	14	52	45	2	0	52	1.13
10288969--10289031	24	2.7	23	78	9	65	50	1	0	47	1.10
10288986--10289034	20	2.5	20	76	6	55	53	2	0	44	1.12
10290988--10291037	15	3.3	15	74	20	50	32	6	4	58	1.41
10299067--10299102	15	2.5	14	86	8	54	44	8	0	47	1.33
10300845--10300886	13	3.2	13	80	16	50	21	0	4	73	1.01
10303144--10303169	6	4.3	6	100	0	52	19	0	0	80	0.71
10303872--10303934	32	2.0	32	87	6	92	41	3	3	52	1.33
10304238--10304263	7	3.7	7	100	0	52	57	0	0	42	0.98
10304382--10304438	23	2.3	25	80	16	66	42	1	8	47	1.45
10312973--10313014	13	3.2	13	80	16	50	21	0	4	73	1.01
10313605--10313683	35	2.2	35	82	6	88	37	0	2	59	1.11
10316096--10316249	25	6.3	25	84	5	181	20	22	18	38	1.93
10318258--10318282	12	2.1	12	100	0	50	40	8	0	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10322992--10323021	15	2.0	15	93	0	51	76	10	0	13	1.01
10323110--10323140	15	2.1	15	93	0	53	54	6	0	38	1.26
10325703--10325755	23	2.4	22	76	20	56	9	18	1	69	1.25
10331106--10331304	106	1.9	107	88	5	305	34	19	19	26	1.96
10332735--10332796	6	10.7	6	76	11	58	79	1	4	14	0.98
10332735--10332796	11	5.3	12	74	11	58	79	1	4	14	0.98
10332735--10332796	24	2.6	24	84	2	72	79	1	4	14	0.98
10337531--10337620	42	2.1	42	89	0	135	25	28	30	15	1.96
10344460--10344501	2	21.0	2	100	0	84	0	50	0	50	1.00
10347602--10347649	3	16.0	3	100	0	96	66	0	33	0	0.92
10358956--10358998	17	2.6	16	75	10	50	44	0	4	51	1.22
10362134--10362175	22	2.0	21	85	4	57	69	0	7	23	1.13
10387677--10387719	18	2.4	18	100	0	86	20	18	13	46	1.83
10411485--10411524	21	2.0	21	90	5	64	22	0	22	55	1.44
10411904--10411953	21	2.4	22	77	19	61	38	6	14	42	1.70
10416751--10416800	24	2.0	26	84	11	68	54	10	10	26	1.65
10416819--10416859	16	2.5	16	88	11	57	70	2	9	17	1.25
10431224--10431264	13	3.2	13	92	0	73	24	9	29	36	1.87
10432643--10432687	22	2.1	22	84	12	58	57	0	2	40	1.11
10436008--10436051	21	2.1	21	86	0	61	56	9	11	22	1.62
10447447--10447496	17	2.7	20	78	18	70	10	0	44	46	1.37
10452085--10452134	17	2.7	20	78	18	70	10	0	44	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10468691--10468715	13	1.9	13	100	0	50	24	8	28	40	1.83
10470753--10470927	72	2.5	71	84	5	244	53	14	6	25	1.65
10472934--10473053	62	1.9	62	89	3	188	60	15	7	16	1.56
10474426--10474641	110	1.9	116	83	10	286	43	16	9	30	1.80
10478029--10478084	22	2.5	22	91	2	94	28	28	0	42	1.56
10478141--10478198	29	2.0	29	87	9	84	37	1	1	58	1.18
10478296--10478329	15	2.3	15	90	5	52	26	0	5	67	1.13
10479287--10479318	7	4.6	7	100	0	64	28	0	12	59	1.34
10480178--10480224	24	2.0	24	86	0	67	23	25	23	27	2.00
10480286--10480335	21	2.4	21	75	0	55	42	30	24	4	1.73
10480505--10480691	29	6.5	29	89	0	286	45	19	1	33	1.58
10481862--10481959	23	4.3	23	90	2	162	31	26	21	20	1.98
10481869--10481957	45	2.0	45	95	0	160	31	26	22	19	1.97
10482810--10483077	29	9.3	29	87	2	351	43	25	0	30	1.60
10482810--10483077	58	4.6	58	87	2	387	43	25	0	30	1.60
10482810--10483077	115	2.3	116	90	1	423	43	25	0	30	1.60
10496464--10496502	20	1.9	20	84	5	51	43	7	2	46	1.46
10498193--10498222	13	2.3	13	100	0	60	0	36	6	56	1.26
10498500--10498570	27	2.8	24	74	12	70	12	40	19	26	1.88
10510413--10510815	206	2.0	205	94	0	716	30	25	18	25	1.98
10520772--10520833	31	2.0	31	82	14	76	46	1	0	51	1.10
10520967--10521037	15	4.4	15	75	18	63	50	0	1	47	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10520967--10521037	34	2.2	31	85	7	97	50	0	1	47	1.09
10521527--10521584	26	2.2	26	85	11	75	31	5	5	58	1.42
10527710--10527748	17	2.3	17	90	0	60	46	2	2	48	1.29
10527786--10527852	17	3.8	17	80	5	80	55	1	4	38	1.29
10527786--10527853	18	3.8	18	80	3	84	55	1	4	38	1.29
10527745--10528078	178	1.9	181	84	4	462	50	2	6	40	1.43
10527985--10528014	10	3.1	10	95	4	53	73	6	0	20	1.05
10528053--10528097	18	2.5	19	82	10	60	48	2	0	48	1.13
10529912--10529952	20	2.0	20	100	0	82	29	24	34	12	1.91
10529968--10530088	59	2.0	60	96	1	226	28	20	14	36	1.92

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