genome.fa.s26.2.7.7.80.10.50.1000.9.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  9  of  221  ( 26413 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)
3084252--3084282	13	2.4	13	94	0	53	32	3	12	51	1.56
3093211--3093261	19	2.6	19	84	9	68	58	5	0	35	1.22
3094876--3094936	31	2.0	31	84	12	83	40	0	4	54	1.22
3099208--3099256	22	2.2	22	81	0	62	61	2	2	34	1.19
3100592--3100634	21	2.0	23	86	9	63	48	2	2	46	1.27
3116044--3116270	122	1.9	122	85	3	323	30	14	20	34	1.92
3116166--3116338	68	2.5	69	85	4	208	31	13	21	33	1.92
3116235--3116461	121	1.9	121	84	5	305	30	13	20	36	1.91
3116338--3116524	70	2.7	69	83	7	216	28	12	20	37	1.90
3116410--3116641	117	2.0	119	81	6	276	29	12	19	38	1.88
3115974--3117153	377	3.1	381	95	2	2138	29	13	20	36	1.91
3115974--3117153	191	6.2	192	95	2	2123	29	13	20	36	1.91
3117172--3117202	14	2.2	14	94	0	53	19	9	6	64	1.45
3117111--3117360	84	2.9	88	82	8	318	26	18	18	36	1.93
3117351--3117384	15	2.5	13	82	17	50	11	8	8	70	1.34
3117356--3117384	15	1.9	15	100	0	58	13	6	6	72	1.26
3117460--3117677	54	4.1	55	89	8	333	28	16	17	37	1.91
3117468--3117677	106	2.0	104	92	3	350	29	15	18	37	1.91
3117948--3118049	30	3.4	31	83	5	122	29	22	3	44	1.71
3118416--3118463	3	16.0	3	91	8	80	66	0	33	0	0.92
3118768--3118860	8	12.6	7	78	15	82	78	0	21	0	0.75
3118769--3118860	21	4.2	21	76	16	89	78	0	21	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3118769--3118855	14	6.3	14	71	20	67	78	0	21	0	0.76
3118768--3118860	15	6.3	14	76	17	82	78	0	21	0	0.75
3119402--3119445	23	2.0	22	86	8	63	54	11	4	29	1.56
3119441--3119601	17	9.4	17	78	11	159	30	11	10	47	1.74
3119441--3119601	35	4.7	34	80	8	175	30	11	10	47	1.74
3125377--3125470	41	2.3	41	87	1	127	34	22	17	26	1.96
3126306--3126373	10	6.3	10	76	18	57	2	19	4	73	1.13
3126306--3126375	12	5.8	11	74	21	52	2	18	4	74	1.11
3127065--3127117	21	2.5	21	87	3	70	69	0	0	30	0.88
3127065--3127157	23	4.3	22	85	8	84	65	0	0	34	0.93
3127079--3127157	23	3.5	23	89	5	117	64	0	0	35	0.94
3127606--3127645	13	2.7	16	74	22	50	45	0	0	55	0.99
3127664--3127704	13	2.9	15	79	20	52	58	0	0	41	0.98
3134668--3134709	16	2.7	16	88	3	59	35	2	4	57	1.33
3143940--3144014	32	2.3	32	86	8	100	41	28	14	16	1.87
3148586--3148629	20	2.2	20	84	8	54	65	0	4	29	1.12
3152730--3152754	12	2.1	12	100	0	50	16	20	16	48	1.82
3152692--3152797	55	1.9	56	90	5	171	31	21	19	27	1.98
3152742--3152929	43	4.4	42	89	5	263	29	20	25	25	1.99
3152746--3152909	85	1.9	86	90	3	260	31	20	24	23	1.98
3153395--3153462	21	3.2	21	82	0	82	2	41	19	36	1.66
3155278--3155600	113	2.8	113	89	2	486	23	19	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155509--3155653	73	2.0	73	86	4	204	25	20	22	32	1.98
3155774--3155803	10	3.0	10	95	0	51	63	0	6	30	1.20
3156106--3156156	21	2.4	21	86	0	75	13	1	43	41	1.55
3156677--3157132	115	4.0	114	82	2	459	27	17	23	31	1.97
3157171--3157482	115	2.7	115	92	1	511	25	16	18	38	1.92
3158133--3158181	19	2.8	17	79	14	55	42	0	30	26	1.55
3158430--3158486	29	1.9	30	89	3	89	36	0	45	17	1.49
3158618--3158648	9	3.4	9	90	0	53	38	22	12	25	1.90
3162361--3162387	12	2.2	12	100	0	54	40	18	40	0	1.51
3162825--3162906	42	2.0	42	92	0	137	25	20	19	34	1.96
3164156--3164660	18	26.2	18	68	22	187	45	11	11	31	1.76
3164154--3164765	17	32.1	17	67	21	147	46	11	11	30	1.76
3164227--3164775	34	14.6	34	67	19	202	46	12	10	30	1.75
3164321--3164379	21	3.1	18	79	15	73	42	11	6	38	1.68
3164174--3164580	152	2.7	149	91	4	649	45	11	10	32	1.75
3164529--3164775	17	13.2	18	70	18	150	47	12	11	28	1.76
3164645--3164693	25	2.0	25	87	0	71	44	16	12	26	1.82
3164699--3164765	16	3.9	16	76	11	55	50	11	8	28	1.69
3164699--3164775	33	2.3	34	80	11	86	49	12	9	28	1.72
3165440--3165481	17	2.4	18	88	4	59	2	7	16	73	1.15
3165433--3165498	18	3.7	17	82	11	71	1	7	18	72	1.15
3165591--3165644	10	5.1	10	78	17	56	0	31	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3165760--3165791	13	2.5	13	94	0	55	3	6	25	65	1.31
3165929--3165972	23	2.0	22	82	8	54	2	11	15	70	1.26
3166252--3166388	60	2.3	60	80	8	147	40	2	24	32	1.68
3166256--3166388	30	4.5	31	75	9	116	40	2	24	32	1.68
3166665--3166695	16	1.9	16	100	0	62	51	6	3	38	1.44
3167161--3167218	26	2.2	26	93	0	98	39	3	17	39	1.66
3169268--3169364	15	6.4	15	74	19	69	34	43	1	21	1.60
3169268--3169395	22	5.8	22	71	15	77	35	42	0	21	1.59
3169319--3169375	29	2.0	29	86	6	80	35	38	1	24	1.66
3169977--3170131	81	1.9	81	85	9	217	40	26	16	17	1.90
3169996--3170131	40	3.3	40	75	6	132	39	25	16	18	1.91
3170194--3170277	40	2.1	40	82	4	98	20	22	20	36	1.95
3171582--3171615	17	2.0	17	100	0	68	23	0	47	29	1.52
3175101--3175155	24	2.4	22	80	11	65	34	1	3	60	1.25
3175510--3175566	4	14.2	4	92	0	96	47	24	3	24	1.68
3181154--3181212	18	3.1	19	83	13	68	57	6	1	33	1.35
3183359--3183426	33	2.1	32	83	5	84	47	10	7	35	1.66
3183847--3183883	17	2.1	18	90	5	58	48	2	2	45	1.30
3191360--3191394	18	1.9	18	88	0	52	62	8	11	17	1.52
3194743--3194842	29	3.5	27	72	13	76	62	1	3	34	1.17
3194719--3194804	37	2.3	37	76	7	93	65	1	3	30	1.17
3194760--3194809	19	2.7	18	77	20	50	64	0	6	30	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3195041--3195099	19	3.0	20	79	18	61	25	8	0	66	1.20
3195119--3195177	19	3.1	19	72	13	57	30	3	3	62	1.28
3197193--3197291	21	4.7	21	70	9	76	16	20	19	44	1.87
3197163--3197317	42	3.7	42	78	3	132	14	20	18	45	1.85
3197281--3197321	21	2.0	21	90	0	64	12	17	21	48	1.79
3199227--3199256	3	9.7	3	92	7	51	33	0	0	66	0.92
3215433--3215485	24	2.2	24	86	0	70	35	3	9	50	1.53
3215440--3215496	24	2.4	24	79	5	62	35	5	10	49	1.60
3228569--3228655	28	3.1	28	79	9	90	56	0	4	39	1.20
3228648--3228683	17	2.0	19	89	10	58	72	2	0	25	0.98
3228578--3228673	28	3.4	29	74	8	92	59	0	3	37	1.13
3228939--3228982	22	2.0	22	86	0	61	29	4	2	63	1.26
3228978--3229016	18	2.3	18	86	8	55	35	2	0	61	1.10
3228959--3229029	27	2.6	27	73	13	72	29	2	1	66	1.15
3228956--3229032	19	4.2	18	67	9	57	29	2	1	66	1.13
3228898--3229038	56	2.4	58	79	18	143	31	4	0	63	1.18
3239118--3239187	36	1.9	36	88	0	104	37	17	25	20	1.94
3241630--3241661	15	2.1	16	94	5	57	40	0	0	59	0.97
3241618--3241677	25	2.4	25	80	8	68	45	1	0	53	1.10
3244389--3244461	36	2.0	36	100	0	146	32	2	13	50	1.56
3246023--3246080	29	2.0	29	83	6	73	50	3	1	44	1.29
3250391--3250436	18	2.6	18	82	3	58	47	2	10	39	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3253047--3253096	20	2.4	21	90	6	75	60	0	4	36	1.16
3253190--3253260	31	2.1	35	82	14	89	19	29	14	36	1.91
3255654--3255737	13	6.1	14	67	23	54	44	3	2	50	1.32
3258174--3258422	50	4.8	50	85	5	302	21	28	23	26	1.99
3258761--3258818	30	1.9	30	85	0	80	31	22	3	43	1.70
3264146--3264186	14	2.9	15	82	10	59	36	4	14	43	1.67
3264155--3264221	34	1.9	35	87	3	100	34	7	10	47	1.66
3264300--3264352	20	2.8	19	86	8	72	43	1	0	54	1.11
3264306--3264347	20	2.1	20	95	0	75	47	0	0	52	1.00
3268277--3268335	29	2.1	29	84	6	77	55	1	1	40	1.20

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