genome.fa.s23.2.7.7.80.10.50.1000.128.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   

This is table  128  of  228  ( 27298 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)
38081894--38081956	15	4.4	15	68	11	51	33	9	28	28	1.88
38081841--38082055	48	4.5	47	76	2	169	33	13	31	20	1.92
38081952--38082066	15	7.7	15	77	11	101	33	16	31	18	1.93
38081950--38082042	39	2.4	39	98	0	177	33	18	31	17	1.94
38081934--38082064	39	3.4	39	89	2	174	33	16	31	19	1.93
38081832--38082064	30	7.8	30	72	7	150	34	13	31	20	1.91
38084152--38084264	39	2.9	39	93	1	183	29	19	30	20	1.97
38084206--38084264	20	3.0	20	69	11	59	25	18	33	22	1.96
38088285--38088468	43	4.3	43	77	10	153	41	18	20	19	1.91
38093897--38094158	27	9.7	27	82	4	305	45	19	17	18	1.86
38093897--38094158	81	3.2	80	86	4	357	45	19	17	18	1.86
38094551--38094617	28	2.4	28	97	0	125	19	23	26	29	1.98
38097455--38097508	28	2.0	27	96	3	99	24	18	25	31	1.97
38099274--38099315	18	2.3	19	88	12	61	73	0	2	23	0.94
38100773--38100884	44	2.5	45	77	1	118	26	20	15	37	1.92
38100910--38101009	51	2.0	51	89	0	155	27	22	19	32	1.97
38101100--38101864	51	15.5	51	77	10	673	28	25	16	29	1.96
38101178--38101264	43	2.0	43	93	0	147	33	25	11	29	1.91
38101169--38101854	148	4.6	148	80	7	641	28	25	16	29	1.97
38101100--38101881	199	3.9	197	82	5	814	29	25	16	29	1.97
38101232--38101882	51	13.0	51	79	5	693	28	25	16	29	1.97
38102997--38103114	46	2.5	47	87	6	166	15	27	16	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38105549--38105584	15	2.5	14	86	8	54	0	19	0	80	0.71
38108097--38108139	19	2.3	19	84	8	52	41	6	20	30	1.79
38110549--38110615	3	22.7	3	71	14	50	62	1	4	31	1.24
38110545--38110598	15	3.9	13	80	15	56	64	1	5	27	1.26
38123780--38123839	27	2.2	27	96	0	111	55	18	3	23	1.58
38127561--38127595	9	3.9	9	88	11	54	34	2	0	62	1.10
38127561--38127596	17	2.1	18	94	5	65	36	2	0	61	1.11
38140228--38140450	40	5.7	40	80	12	246	26	26	21	25	2.00
38140228--38140450	77	2.8	80	86	6	312	26	26	21	25	2.00
38140228--38140450	117	1.9	118	81	9	269	26	26	21	25	2.00
38148105--38148329	79	2.8	80	87	5	305	25	26	22	25	2.00
38148105--38148329	40	5.7	40	81	12	241	25	26	22	25	2.00
38151879--38151965	45	1.9	45	92	0	147	34	22	16	26	1.95
38151976--38152162	51	3.7	50	77	8	182	31	27	16	24	1.96
38151973--38152160	101	1.9	101	84	3	234	31	28	16	23	1.96
38157946--38157990	23	2.0	23	82	8	56	48	15	0	35	1.45
38159329--38159490	87	1.9	87	89	2	254	27	27	13	30	1.94
38160193--38160221	15	1.9	15	100	0	58	20	0	3	75	0.94
38160247--38160276	9	3.4	9	90	9	53	56	0	0	43	0.99
38160226--38160276	17	3.1	17	79	20	56	56	0	0	43	0.99
38161522--38161561	20	2.0	20	90	0	62	27	10	12	50	1.72
38161507--38161573	34	1.9	35	90	3	109	31	8	13	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38161501--38161577	14	5.0	15	71	20	52	33	9	14	42	1.77
38167152--38167230	37	2.1	37	86	4	106	26	29	17	26	1.98
38167349--38167652	47	6.5	47	94	0	482	28	30	8	32	1.87
38167349--38167875	94	5.7	94	88	7	785	28	29	8	32	1.88
38167618--38167685	33	2.1	33	100	0	136	26	27	11	33	1.91
38167571--38167734	80	2.0	81	95	2	294	28	28	9	32	1.89
38167651--38167875	47	4.7	47	94	2	396	29	29	8	32	1.88
38167651--38167875	96	2.4	94	95	1	396	29	29	8	32	1.88
38167477--38167828	176	2.0	174	96	1	641	29	28	9	32	1.88
38167430--38167875	223	2.0	221	96	0	829	29	29	8	32	1.88
38184308--38184403	27	3.6	27	76	0	102	32	20	29	17	1.96
38184289--38184426	54	2.6	54	77	4	152	33	18	28	20	1.96
38190391--38190426	18	1.9	19	88	5	56	22	5	13	58	1.56
38194481--38194519	19	2.1	19	90	0	60	35	0	2	61	1.10
38196751--38196777	8	3.4	8	100	0	54	22	11	14	51	1.73
38204453--38204508	28	2.0	28	100	0	112	42	32	10	14	1.80
38222008--38222060	25	2.1	25	92	0	88	30	24	26	18	1.98
38244332--38244721	47	8.1	47	88	5	528	28	30	9	31	1.89
38244422--38244721	151	2.0	151	96	0	555	29	29	9	32	1.88
38256772--38256858	44	2.0	44	97	0	165	48	4	14	32	1.65
38269919--38269971	25	2.1	26	83	16	67	41	0	35	22	1.54
38269994--38270018	7	3.6	7	100	0	50	32	0	52	16	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38272583--38272654	30	2.4	30	100	0	144	29	22	30	18	1.97
38276474--38276499	13	2.0	13	100	0	52	15	7	7	69	1.35
38289877--38289914	17	2.3	17	90	4	60	57	13	0	28	1.36
38297812--38297841	9	3.3	9	100	0	60	33	20	33	13	1.91
38308754--38308793	18	2.2	19	86	4	55	7	20	5	67	1.34
38310856--38310937	25	3.3	24	80	11	78	31	21	23	23	1.98
38313337--38313383	18	2.6	19	73	10	53	8	14	0	76	1.01
38313977--38314016	3	13.0	3	89	5	62	35	2	0	62	1.09
38320009--38320125	51	2.2	54	86	6	159	23	36	17	22	1.95
38329238--38329423	80	2.3	80	83	9	220	28	27	20	23	1.99
38329203--38329423	40	5.6	40	80	9	195	27	27	20	24	1.99
38336734--38336901	80	2.1	80	83	5	207	27	26	20	25	1.99
38336771--38336901	40	3.3	40	89	2	201	28	27	20	23	1.99
38336780--38336947	80	2.1	80	81	10	193	29	25	20	23	1.99
38341037--38341134	27	3.5	28	90	2	135	26	13	28	31	1.94
38341065--38341147	27	3.0	27	87	5	96	30	12	25	32	1.92
38341037--38341148	28	4.0	27	83	6	98	28	12	25	33	1.92
38349068--38349165	28	3.5	28	88	2	108	27	13	28	30	1.94
38349068--38349165	27	3.5	28	88	2	126	27	13	28	30	1.94
38349096--38349178	27	3.0	27	87	5	96	30	12	25	32	1.92
38349068--38349179	28	4.0	27	82	6	98	29	12	25	32	1.93
38353633--38353678	21	2.2	21	92	0	74	30	13	19	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38355254--38355432	50	3.4	52	79	7	168	26	20	29	24	1.99
38355698--38355736	20	2.0	20	90	10	62	56	5	23	15	1.59
38367828--38367863	7	5.3	7	96	3	65	27	27	0	44	1.55
38369509--38369543	7	5.0	7	100	0	70	14	57	0	28	1.38
38375499--38375592	46	2.0	46	93	4	163	24	18	22	35	1.96
38375910--38375953	12	3.6	12	87	6	61	75	9	4	11	1.19
38375992--38376031	14	2.7	14	88	7	53	62	5	10	22	1.46
38379207--38379262	28	2.0	28	100	0	112	17	14	42	25	1.87
38392488--38392541	25	2.1	26	86	10	76	31	3	1	62	1.23
38397451--38397511	19	3.3	19	69	17	65	27	8	13	50	1.69
38397460--38397518	19	3.2	19	70	18	61	30	8	11	49	1.69
38401793--38401855	32	2.0	32	100	0	126	42	25	19	12	1.86
38406846--38406923	39	2.0	39	94	0	138	23	10	29	37	1.88
38408540--38409186	47	13.6	47	89	3	961	31	7	30	30	1.85
38408540--38409186	96	6.8	94	93	2	1015	31	7	30	30	1.85
38408540--38409186	191	3.4	189	93	1	1044	31	7	30	30	1.85
38409307--38409382	37	2.1	37	89	0	116	22	18	32	26	1.97
38411938--38412079	75	1.9	75	84	8	191	30	13	9	46	1.74
38415828--38415934	50	2.1	50	87	3	162	19	31	22	26	1.98
38415844--38415976	50	2.5	50	82	10	151	24	30	19	25	1.98
38420641--38420858	32	6.7	32	78	5	177	42	12	11	33	1.79
38428123--38428206	32	2.7	31	72	7	73	48	15	7	28	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38428170--38428345	30	5.9	29	70	17	121	43	12	9	34	1.75
38428127--38428245	62	2.0	60	83	3	148	44	14	9	31	1.76
38428147--38428330	92	2.1	85	84	7	242	42	13	9	34	1.77
38428133--38428283	30	4.8	32	80	6	141	41	15	11	31	1.82
38428170--38428341	58	3.0	58	76	11	167	42	12	9	34	1.76
38428262--38428309	24	2.0	24	87	0	69	43	12	6	37	1.68
38428283--38428387	34	3.2	31	79	14	88	48	12	6	32	1.67
38435659--38436515	436	2.0	436	87	2	1238	35	22	13	28	1.92
38438586--38438736	82	1.9	81	85	1	212	26	18	28	26	1.98
38438586--38438741	27	5.7	27	85	1	168	26	17	28	26	1.98

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