genome.fa.s15.2.7.7.80.10.50.1000.106.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   

This is table  106  of  222  ( 26535 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)
33794958--33794991	17	2.0	17	94	0	59	38	0	2	58	1.13
33794856--33795094	120	2.0	119	96	0	442	42	1	5	51	1.31
33794897--33795084	61	3.1	61	74	11	224	41	1	6	50	1.37
33794863--33795128	120	2.2	120	88	5	380	43	1	5	49	1.32
33795140--33795171	10	2.8	12	86	13	50	46	3	0	50	1.17
33799571--33799706	69	2.0	69	88	0	200	41	5	8	43	1.60
33805164--33805275	54	2.1	54	83	3	136	27	24	12	35	1.91
33805233--33805268	18	1.9	18	88	5	54	22	27	16	33	1.95
33805234--33805273	18	2.2	18	86	0	53	30	27	12	30	1.93
33812452--33812503	24	2.2	24	85	0	68	36	3	5	53	1.43
33814123--33814171	19	2.6	19	93	0	89	24	14	42	18	1.87
33814588--33814616	12	2.5	12	94	5	51	75	0	24	0	0.80
33817082--33817114	8	4.1	8	100	0	66	24	24	0	51	1.48
33820946--33821192	50	4.8	50	80	3	235	23	28	20	27	1.99
33820945--33821181	99	2.3	105	80	7	263	24	28	20	27	1.99
33826781--33826815	16	2.1	17	89	10	54	71	2	0	25	1.00
33833577--33833762	93	2.0	93	100	0	372	32	9	15	43	1.79
33840953--33840985	7	4.9	7	85	7	50	0	3	12	84	0.72
33840953--33840982	13	2.3	13	94	0	51	0	3	10	86	0.67
33844943--33844997	28	2.0	28	100	0	110	25	23	18	32	1.97
33857306--33857445	42	3.3	42	79	5	120	32	24	17	25	1.96
33861507--33861538	13	2.5	13	100	0	64	21	37	12	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33865498--33865539	21	2.0	21	86	9	59	14	11	33	40	1.82
33873573--33873658	24	3.5	24	82	7	102	22	23	23	31	1.98
33873587--33873678	25	3.8	24	78	13	80	21	25	23	29	1.99
33881512--33881551	7	5.6	7	96	3	71	0	12	0	87	0.54
33889122--33889278	37	4.0	37	82	14	199	26	21	15	36	1.93
33889195--33889561	46	7.6	46	86	7	437	29	22	14	34	1.93
33889238--33889555	52	6.3	52	86	7	417	28	22	13	34	1.93
33889195--33889547	196	1.8	196	92	0	598	28	22	14	34	1.93
33889195--33889561	98	3.7	97	84	9	492	29	22	14	34	1.93
33890915--33890947	13	2.5	13	100	0	66	42	18	24	15	1.88
33892699--33892940	49	4.9	49	95	0	421	29	30	16	23	1.96
33894196--33894352	37	4.0	37	82	14	199	26	21	15	36	1.93
33894269--33894635	46	7.6	46	86	7	437	29	22	14	34	1.93
33894312--33894629	52	6.3	52	86	7	417	28	22	13	34	1.93
33894269--33894621	196	1.8	196	92	0	598	28	22	14	34	1.93
33894269--33894635	98	3.7	97	84	9	492	29	22	14	34	1.93
33901238--33901324	36	2.4	36	100	0	174	43	20	9	26	1.82
33902465--33902546	41	2.0	42	90	2	130	47	8	3	40	1.52
33903302--33903335	6	5.7	6	85	0	50	79	0	0	20	0.73
33911707--33911747	21	2.0	21	90	0	64	19	29	21	29	1.98
33918527--33918612	42	2.0	42	97	0	163	38	26	6	27	1.82
33937225--33937733	251	2.0	252	99	0	1002	34	7	16	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33946402--33946463	32	1.9	32	87	6	90	24	19	25	30	1.98
33957269--33957293	10	2.5	10	100	0	50	16	32	0	52	1.44
33963955--33964356	27	14.9	27	84	0	491	41	21	18	18	1.91
33964707--33964909	28	7.3	28	89	0	273	23	26	23	26	2.00
33964816--33964942	28	4.1	34	81	14	91	21	28	25	24	1.99
33965650--33965761	9	12.4	9	83	7	147	40	21	12	25	1.88
33965806--33965849	20	2.2	20	84	8	54	25	0	6	68	1.14
33965863--33965906	18	2.4	18	88	0	61	13	2	43	40	1.57
33966365--33966512	75	2.0	75	88	5	219	45	10	13	31	1.77
33976645--33978009	683	2.0	682	89	2	2089	33	16	21	28	1.95
33983987--33984032	21	2.3	20	78	14	51	30	6	17	45	1.73
33985529--33985570	19	2.2	19	83	8	50	52	11	19	16	1.74
33985910--33986007	17	5.8	17	69	21	62	40	4	3	52	1.36
33985913--33986042	68	1.9	69	90	1	208	40	3	3	51	1.38
33986926--33986974	13	3.8	13	78	21	50	12	8	2	77	1.07
33986926--33986974	19	2.6	19	83	6	64	12	8	2	77	1.07
33989391--33989534	72	2.0	72	94	0	252	40	15	5	38	1.71
33991653--33991851	49	3.9	50	77	10	181	28	20	27	23	1.99
33995334--33995363	14	2.1	14	100	0	60	6	20	13	60	1.55
33999976--34000026	18	2.8	18	69	0	57	13	41	3	41	1.63
34002341--34002370	14	2.1	14	100	0	60	23	26	13	36	1.92
34003076--34003114	14	2.7	15	92	7	64	35	17	5	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34005740--34005825	40	2.1	41	80	8	95	58	2	5	33	1.35
34005803--34005873	29	2.6	27	71	10	72	61	2	0	35	1.10
34016673--34016699	9	3.0	9	100	0	54	44	0	0	55	0.99
34017900--34017954	28	2.0	28	88	0	83	29	16	14	40	1.88
34018816--34018855	21	1.9	21	84	0	53	52	22	5	20	1.65
34018844--34018991	68	2.2	68	92	3	248	39	14	14	31	1.87
34040626--34040705	25	3.2	25	79	10	92	23	26	21	28	1.99
34040626--34040739	50	2.3	50	81	6	124	25	25	21	28	1.99
34040676--34040743	25	2.7	25	72	17	68	29	26	17	26	1.98
34044755--34044781	13	2.1	13	100	0	54	29	7	14	48	1.71
34045632--34045784	43	3.6	43	70	11	125	37	18	19	24	1.94
34045658--34045943	86	3.4	85	79	1	279	35	18	18	27	1.94
34051002--34051071	34	2.1	34	97	0	131	21	0	28	50	1.49
34052743--34052778	18	2.0	18	88	0	54	33	0	0	66	0.92
34052807--34052837	15	2.1	15	100	0	62	32	0	25	41	1.56
34054247--34054330	42	2.0	42	97	0	159	26	25	22	26	2.00
34054929--34054978	25	2.0	25	100	0	100	40	16	12	32	1.84
34055006--34055235	126	1.8	126	91	0	379	29	19	14	36	1.91
34056864--34056961	50	1.9	51	89	2	153	39	14	15	30	1.87
34057459--34057554	31	3.1	31	95	3	174	45	13	9	31	1.75
34059393--34059516	35	3.6	35	77	1	115	37	16	29	16	1.92
34059462--34059598	35	3.9	35	75	3	96	32	16	32	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34059952--34059985	18	1.9	17	88	5	50	41	20	14	23	1.89
34062562--34062593	17	1.9	16	93	6	55	40	0	6	53	1.26
34063899--34063949	23	2.2	23	92	0	84	41	21	9	27	1.84
34070260--34070312	27	2.0	26	85	3	70	35	30	13	20	1.91
34070481--34070649	35	4.9	35	70	2	108	36	20	27	15	1.93
34074387--34074527	61	2.3	61	80	0	138	31	11	29	27	1.91
34074559--34074630	27	2.6	27	80	10	74	33	19	20	26	1.97
34077183--34077223	19	2.1	20	90	4	66	65	0	0	34	0.93
34077195--34077437	9	25.5	10	69	22	82	62	2	1	33	1.20
34077194--34077329	35	3.9	33	76	9	112	64	2	1	31	1.14
34077194--34077445	10	27.6	9	70	18	105	62	3	1	32	1.20
34077192--34077445	19	13.3	19	68	18	104	62	3	1	32	1.20
34077303--34077363	21	3.0	20	79	13	63	57	1	1	39	1.18
34077358--34077445	28	3.1	26	71	14	68	64	4	1	29	1.20
34077966--34077995	14	2.1	14	100	0	60	30	26	0	43	1.55
34078186--34078312	10	13.4	10	69	17	58	32	1	3	62	1.23
34078162--34078234	30	2.4	29	82	8	76	31	2	4	61	1.29
34078242--34078306	9	7.3	9	81	13	73	38	0	1	60	1.07
34078242--34078324	9	9.0	10	81	15	58	40	0	1	57	1.06
34078244--34078347	39	2.8	39	80	16	114	40	0	1	56	1.17
34088542--34088579	4	9.5	4	100	0	76	23	0	26	50	1.50
34093244--34093297	27	2.0	27	96	0	99	37	9	18	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34110066--34110195	50	2.6	49	86	4	163	31	21	23	23	1.98
34110059--34110244	50	3.8	49	80	7	155	31	21	23	23	1.98
34113442--34113480	19	2.1	19	100	0	78	38	10	20	30	1.86
34117358--34117513	50	3.1	49	77	5	161	28	21	28	21	1.99
34119401--34119430	15	2.0	15	100	0	60	0	60	33	6	1.23
34119433--34119472	20	1.9	20	85	10	53	67	5	2	25	1.23
34119459--34119483	9	2.8	9	100	0	50	88	0	0	12	0.53
34123739--34123796	28	2.1	28	84	9	75	18	0	34	46	1.50
34124591--34124633	5	8.6	5	100	0	86	81	0	0	18	0.69
34125521--34125563	13	3.5	13	75	18	56	48	13	0	37	1.43

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