genome.fa.s24.2.7.7.80.10.50.1000.8.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  8  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)
3040549--3040580	16	2.0	16	100	0	64	43	12	6	37	1.68
3043534--3043602	28	2.4	28	82	2	75	53	4	2	39	1.36
3043798--3043831	14	2.4	14	95	0	59	26	0	14	58	1.36
3044023--3044060	20	2.0	19	85	10	51	42	2	0	55	1.14
3045086--3045151	29	2.3	30	76	12	75	37	4	3	54	1.36
3048141--3048175	18	1.9	18	88	11	54	60	0	0	40	0.97
3049414--3049459	19	2.3	20	88	3	67	71	4	0	23	1.03
3049414--3049478	9	6.8	9	75	13	58	69	3	1	26	1.12
3049428--3049488	19	3.2	19	85	2	68	68	3	1	26	1.14
3049503--3049542	21	1.9	21	85	10	55	62	7	0	30	1.23
3049989--3050041	20	2.7	18	76	23	54	28	3	3	64	1.28
3049999--3050041	10	4.4	9	82	11	50	30	2	2	65	1.18
3050038--3050084	20	2.3	20	78	10	51	23	6	2	68	1.24
3053365--3053469	18	5.7	18	72	22	92	36	3	6	53	1.45
3053363--3053490	43	3.2	43	72	22	152	35	4	6	53	1.47
3053383--3053472	32	3.1	30	82	14	100	36	3	6	53	1.44
3053406--3053471	32	2.0	33	94	2	116	37	1	6	54	1.34
3060406--3060437	12	2.4	14	85	15	50	59	0	0	40	0.97
3062854--3063105	123	2.0	123	100	0	504	44	4	8	41	1.56
3077059--3077086	14	2.0	14	100	0	56	28	14	7	50	1.69
3077451--3077481	4	7.8	4	100	0	62	51	22	0	25	1.48
3083626--3083657	8	4.0	8	91	0	55	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083620--3083656	16	2.3	16	95	0	65	40	0	0	59	0.97
3084712--3084870	25	6.6	25	82	8	174	16	24	20	38	1.93
3086824--3086995	56	3.1	56	100	0	344	46	8	7	37	1.63
3093380--3093527	74	2.0	74	95	0	269	25	13	16	44	1.84
3099916--3099951	19	1.9	18	94	5	63	0	8	0	91	0.41
3099919--3099948	12	2.5	12	100	0	60	0	6	0	93	0.35
3102597--3102652	26	2.2	26	81	12	62	60	3	0	35	1.14
3103801--3103880	21	3.8	21	79	0	88	25	56	8	10	1.61
3108601--3108653	26	2.0	26	82	7	63	45	20	20	13	1.84
3109675--3109702	13	2.2	13	100	0	56	14	14	0	71	1.15
3110537--3110579	19	2.3	18	84	15	52	32	16	6	44	1.74
3111427--3111558	67	2.0	67	93	0	228	28	31	18	21	1.97
3118193--3118318	61	2.1	61	100	0	252	33	7	11	46	1.70
3118192--3118286	28	3.1	31	66	19	90	36	8	10	44	1.69
3123466--3123533	16	4.2	16	90	0	100	29	0	33	36	1.58
3123516--3123608	45	2.1	44	85	2	123	35	5	25	33	1.79
3123770--3123804	18	2.0	17	88	5	52	54	0	0	45	0.99
3123728--3123800	27	2.7	27	76	8	76	52	2	0	45	1.15
3123917--3123951	18	2.0	17	88	5	52	54	0	0	45	0.99
3123689--3123963	147	1.9	149	95	1	500	46	3	2	46	1.35
3124010--3124065	15	3.8	15	73	19	55	60	0	0	39	0.97
3123730--3124043	147	2.1	147	81	7	345	48	4	2	44	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3124016--3124061	15	3.0	16	84	9	69	60	0	0	39	0.97
3123945--3124131	61	3.1	61	67	20	174	50	6	3	40	1.44
3123897--3124192	120	2.5	120	91	3	488	50	4	3	41	1.37
3124909--3124944	16	2.2	16	100	0	72	19	38	19	22	1.93
3127141--3127186	23	1.9	24	86	8	67	23	4	2	69	1.17
3140324--3140376	4	13.2	4	84	7	63	24	3	26	45	1.70
3140310--3140373	27	2.3	27	94	5	110	23	6	29	40	1.79
3144379--3144562	46	4.0	46	89	2	278	30	11	13	44	1.80
3145298--3145334	15	2.5	15	90	0	65	32	0	0	67	0.91
3146475--3146510	18	2.0	18	100	0	72	61	0	16	22	1.35
3148881--3148927	15	3.2	14	77	16	51	65	2	2	29	1.15
3151524--3151716	96	2.0	96	97	0	368	24	20	19	34	1.96
3156289--3156313	2	12.5	2	100	0	50	48	0	0	52	1.00
3160559--3160583	3	8.3	3	100	0	50	68	0	0	32	0.90
3184524--3184670	61	2.5	59	82	6	172	48	12	10	28	1.73
3212877--3212912	18	1.9	19	94	5	65	33	2	0	63	1.08
3212887--3212925	19	2.0	19	85	5	51	30	7	2	58	1.39
3216887--3216929	20	2.0	22	86	8	63	41	0	0	58	0.98
3217174--3217214	21	2.0	21	85	9	57	56	2	0	41	1.13
3221642--3221700	31	1.9	30	89	3	91	69	3	3	23	1.19
3222421--3222480	24	2.5	24	76	15	61	31	0	20	48	1.50
3222637--3222751	37	2.9	40	77	11	139	28	15	20	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3225323--3225364	16	2.6	16	82	14	50	28	0	2	69	1.01
3240264--3240310	21	2.2	22	92	3	78	21	19	38	21	1.94
3247242--3247278	14	2.6	15	79	12	51	62	21	0	16	1.33
3247992--3248026	11	3.0	11	91	8	52	85	0	14	0	0.59
3249250--3249293	20	2.3	20	84	7	65	34	9	0	56	1.31
3252005--3252035	13	2.5	12	94	5	53	87	12	0	0	0.55
3260399--3260431	9	3.7	9	91	0	57	45	21	9	24	1.80
3260437--3260499	17	3.5	17	69	12	54	49	12	3	34	1.57
3260431--3260502	37	1.9	37	94	0	126	47	15	2	34	1.60
3260632--3260746	39	3.0	39	89	3	180	19	2	26	51	1.60
3261536--3261630	44	2.2	44	94	3	167	55	5	7	31	1.50
3276864--3276904	16	2.6	16	82	17	50	2	26	2	68	1.15
3277593--3277622	6	5.0	6	95	0	51	36	0	0	63	0.95
3292614--3292773	46	3.5	44	90	5	178	35	13	21	29	1.92
3292555--3292822	144	1.9	144	92	0	455	34	13	22	29	1.92
3292561--3292823	98	2.7	97	83	10	338	34	13	22	28	1.92
3292786--3292896	37	3.0	37	93	1	188	36	15	22	25	1.93
3294160--3294216	16	3.4	16	81	13	69	31	0	3	64	1.10
3296125--3296174	23	2.0	26	85	11	70	30	0	8	62	1.24
3301992--3302682	345	2.0	345	100	0	1382	32	14	20	32	1.93
3311453--3311484	16	2.0	16	93	0	55	31	3	18	46	1.65
3313482--3313547	33	2.0	33	90	0	105	21	15	10	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3318429--3318453	3	8.3	3	100	0	50	0	32	0	68	0.90
3322381--3322405	8	3.1	8	100	0	50	36	0	0	64	0.94
3329386--3329436	23	2.2	24	80	16	63	25	0	5	68	1.12
3332835--3332970	40	3.5	39	76	7	141	31	25	17	25	1.97
3332835--3332970	41	3.5	40	73	12	129	31	25	17	25	1.97
3333920--3333973	5	10.8	5	92	7	92	59	0	1	38	1.08
3357467--3357521	27	2.0	27	100	0	110	29	18	10	41	1.84
3376740--3376767	9	3.1	9	100	0	56	10	21	0	67	1.20
3382125--3382180	28	2.0	28	100	0	112	46	10	32	10	1.73
3382952--3383021	35	2.0	35	100	0	140	31	17	11	40	1.85
3384625--3384663	12	3.2	12	82	13	53	25	2	0	71	0.98
3385549--3385608	30	2.0	31	90	3	95	38	0	41	20	1.52
3397032--3397091	31	1.9	31	96	0	111	33	5	6	55	1.48
3398365--3398403	19	2.1	18	85	4	51	43	0	5	51	1.24
3399493--3399561	30	2.2	30	84	5	84	36	5	15	42	1.72
3399935--3399997	29	2.1	30	82	8	74	58	6	11	23	1.55
3400622--3400655	16	2.1	16	100	0	68	17	23	0	58	1.38
3402024--3402093	23	3.2	23	62	15	58	17	32	27	22	1.96
3402000--3402108	42	2.6	42	89	0	173	18	31	26	23	1.97
3419470--3419556	30	2.9	30	76	10	97	26	13	28	31	1.94
3421010--3421503	127	3.9	125	90	4	712	30	26	15	27	1.96
3421008--3421504	211	2.4	211	93	1	834	30	26	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3421010--3421504	84	5.9	86	89	5	705	30	26	15	27	1.96
3421635--3421755	31	4.0	30	84	3	161	41	17	11	29	1.85
3421649--3421809	61	2.6	61	83	0	178	41	16	9	32	1.80
3421635--3421870	92	2.6	91	79	4	242	41	16	8	33	1.79
3431974--3432029	22	2.6	22	86	5	71	53	0	0	46	1.00
3435172--3435206	17	2.1	17	88	0	52	37	14	2	45	1.59
3442633--3442661	3	9.7	3	100	0	58	34	0	0	65	0.93
3446964--3447041	22	3.5	22	94	3	129	41	0	0	58	0.98
3448484--3448587	40	2.6	40	74	7	104	43	19	17	20	1.88
3448655--3448899	41	5.7	41	77	13	233	18	21	27	32	1.97

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