genome.fa.s26.2.7.7.80.10.50.1000.22.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  22  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)
6201242--6201328	26	3.3	26	87	9	122	56	0	5	37	1.23
6206818--6206868	26	2.0	26	92	3	86	33	21	21	23	1.97
6206942--6206976	18	2.0	18	88	5	54	51	11	11	25	1.71
6207210--6207281	32	2.3	31	85	9	92	19	37	22	20	1.94
6219244--6219300	25	2.3	25	75	0	69	29	22	28	19	1.98
6219391--6219490	25	4.0	25	75	10	80	35	20	27	18	1.95
6221905--6221934	15	2.0	15	100	0	60	60	6	0	33	1.23
6225418--6225472	25	2.2	25	81	12	60	49	5	1	43	1.36
6226715--6226749	13	2.7	13	90	0	52	40	17	11	31	1.85
6229359--6229405	21	2.2	21	88	0	67	40	14	19	25	1.90
6241555--6241588	16	2.1	16	94	0	59	70	2	11	14	1.27
6243387--6243465	40	2.0	39	90	9	124	32	5	18	43	1.72
6243397--6243474	21	3.8	20	70	20	54	32	5	19	43	1.73
6243391--6243474	40	2.1	40	86	8	118	32	5	19	42	1.75
6243781--6243825	6	7.3	6	80	5	54	22	20	13	44	1.85
6243700--6243801	45	2.3	45	79	3	125	22	15	16	45	1.85
6250881--6250917	15	2.5	15	95	0	65	18	10	24	45	1.81
6256714--6256805	22	4.0	22	79	12	96	43	18	21	16	1.88
6256760--6256818	25	2.4	25	91	0	91	40	18	23	16	1.91
6272169--6272216	11	4.4	11	75	0	51	20	6	8	64	1.43
6273868--6273925	18	3.2	18	82	7	64	44	0	1	53	1.10
6275027--6275108	43	1.9	43	80	9	96	39	1	1	58	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6277987--6278031	22	2.0	22	95	0	81	44	8	28	17	1.79
6281694--6281718	12	2.1	12	100	0	50	56	0	0	44	0.99
6281844--6281873	15	1.9	16	93	6	53	63	0	0	36	0.95
6282845--6282879	15	2.2	16	90	5	54	14	0	20	65	1.26
6283745--6283814	31	2.3	31	80	9	83	38	10	11	40	1.75
6286169--6286208	3	13.7	3	94	5	73	30	0	0	70	0.88
6286599--6286652	24	2.3	23	84	9	65	46	11	3	38	1.57
6286609--6286657	24	2.0	24	96	0	89	44	14	4	36	1.64
6289806--6289856	15	3.5	15	74	15	52	1	23	0	74	0.92
6290377--6290404	13	2.2	13	100	0	56	0	21	0	78	0.75
6290488--6290572	36	2.3	38	80	13	99	1	30	0	68	0.97
6290513--6290582	12	5.8	12	82	1	86	0	27	0	72	0.84
6290513--6290578	6	10.7	7	71	23	51	0	27	0	72	0.85
6290532--6290582	5	10.0	5	83	12	50	0	25	0	74	0.82
6290674--6290737	24	2.9	21	73	24	60	6	9	14	70	1.33
6290970--6291069	28	3.4	29	83	8	114	47	3	16	34	1.62
6302865--6302913	20	2.4	20	79	3	53	61	12	6	20	1.52
6305319--6305548	114	2.0	114	96	0	424	39	18	20	21	1.93
6315966--6317034	516	2.1	505	87	4	1529	38	18	14	27	1.90
6316965--6317173	70	3.0	70	90	2	314	41	13	16	27	1.87
6319731--6319776	21	2.2	21	88	0	65	28	36	13	21	1.91
6321452--6321512	32	1.9	31	87	9	88	45	6	6	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6324127--6324212	25	3.3	27	73	12	81	30	6	27	34	1.83
6330769--6330814	3	15.3	3	81	0	56	30	34	0	34	1.58
6334081--6334105	13	1.9	13	100	0	50	80	0	12	8	0.92
6337130--6337282	43	3.6	43	82	0	182	31	16	25	26	1.97
6339380--6339438	25	2.4	25	94	0	109	40	32	6	20	1.78
6340843--6340946	43	2.4	43	86	1	136	31	23	17	27	1.97
6341065--6341192	31	4.1	31	85	4	168	44	17	8	28	1.79
6342733--6342804	26	2.8	24	74	12	72	38	22	23	15	1.92
6342741--6342804	26	2.5	25	79	2	74	40	21	23	14	1.90
6351738--6351813	26	2.9	27	80	7	68	35	21	21	22	1.96
6353053--6353086	11	3.0	11	91	4	50	76	0	23	0	0.79
6354102--6354126	11	2.3	11	100	0	50	52	0	20	28	1.47
6354812--6354866	23	2.4	23	87	0	74	23	20	21	34	1.97
6354848--6354907	21	2.8	21	87	5	84	15	25	28	31	1.95
6354859--6354921	21	3.0	21	86	2	83	15	22	26	34	1.94
6357420--6357444	13	1.9	13	100	0	50	36	16	0	48	1.46
6362560--6362649	45	2.0	45	88	0	135	24	23	20	32	1.98
6362848--6362886	19	2.1	19	100	0	78	38	30	10	20	1.86
6368200--6368253	28	1.9	28	100	0	108	38	11	20	29	1.87
6368196--6368273	28	2.6	29	84	12	104	38	7	23	30	1.83
6370570--6370602	12	2.6	13	90	9	59	57	0	0	42	0.98
6370579--6370627	16	3.2	16	69	19	50	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6374161--6374278	62	1.9	62	96	0	218	24	16	11	47	1.80
6380870--6380910	3	13.7	3	100	0	82	65	0	0	34	0.93
6382560--6382615	22	2.5	22	82	8	60	42	5	5	46	1.49
6383786--6383915	65	2.0	66	83	7	167	13	23	18	45	1.84
6392078--6392162	36	2.5	34	83	12	95	38	2	29	29	1.70
6398428--6398587	67	2.4	66	90	4	250	58	21	5	15	1.56
6398429--6398564	67	2.0	67	97	0	254	57	22	5	15	1.58
6401974--6402006	16	1.9	17	88	11	50	42	0	30	27	1.56
6402285--6402346	30	2.1	30	84	6	81	43	1	35	19	1.61
6402387--6402423	9	4.1	9	92	0	65	29	10	13	45	1.77
6402587--6402625	16	2.4	16	100	0	78	41	7	25	25	1.82
6403717--6403800	42	2.0	42	100	0	168	16	26	35	21	1.94
6403942--6404074	61	2.2	58	82	4	149	42	3	5	49	1.40
6404963--6405065	29	3.5	29	70	1	80	28	23	8	39	1.84
6405305--6405347	21	2.0	20	83	16	52	60	0	39	0	0.97
6405406--6405447	9	4.8	9	82	14	52	85	0	11	2	0.68
6405406--6405441	16	2.2	17	95	5	65	86	0	13	0	0.58
6405724--6405775	8	6.9	8	77	18	58	84	0	15	0	0.62
6405727--6405776	15	3.5	15	86	5	68	84	0	16	0	0.63
6405726--6405760	10	3.4	10	92	7	61	88	0	11	0	0.51
6405727--6405767	7	5.9	7	83	11	57	87	0	12	0	0.53
6418192--6419183	75	12.9	76	87	5	1082	26	16	19	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6418194--6419183	306	3.2	302	84	6	1158	26	16	20	37	1.93
6419379--6419497	29	4.1	29	75	5	123	29	21	9	40	1.84
6419630--6419669	18	2.1	20	86	9	57	65	5	15	15	1.44
6419787--6419811	13	1.9	13	100	0	50	64	0	36	0	0.94
6420088--6420122	11	3.4	11	92	7	56	88	0	11	0	0.51
6420088--6420129	10	4.3	10	85	11	52	85	0	14	0	0.59
6420264--6420306	22	1.9	23	86	13	63	23	4	2	69	1.18
6420602--6420717	29	4.0	29	75	1	115	33	22	6	37	1.79
6421071--6421110	3	13.7	3	85	15	57	70	0	30	0	0.88
6421071--6421110	11	3.4	12	87	12	57	70	0	30	0	0.88
6421070--6421117	21	2.3	21	82	7	62	72	0	27	0	0.84
6421398--6421445	8	6.1	8	86	13	73	87	0	12	0	0.54
6421410--6421444	7	4.9	7	93	6	61	88	0	11	0	0.51
6421588--6421630	22	1.9	23	86	13	63	23	4	2	69	1.18
6423223--6423280	26	2.3	26	85	8	75	31	12	10	46	1.74
6424872--6425023	53	2.9	53	85	2	207	36	8	13	41	1.76
6426645--6426669	2	12.5	2	100	0	50	0	48	0	52	1.00
6431167--6431212	22	2.1	22	88	8	67	69	0	15	15	1.19
6432558--6433978	132	10.9	131	86	4	1894	28	19	23	28	1.98
6434003--6434467	50	9.3	50	71	2	342	30	20	23	25	1.98
6433973--6434435	100	4.6	100	93	1	750	29	21	23	25	1.99
6435868--6435892	2	12.5	2	100	0	50	0	48	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6440811--6440848	12	3.0	13	80	7	51	81	0	18	0	0.69
6440809--6440847	19	2.1	19	90	4	62	84	0	15	0	0.62
6447462--6447492	15	2.1	14	94	5	53	54	19	6	19	1.65
6454464--6454493	15	1.9	16	93	6	53	23	10	0	66	1.21
6456823--6456895	38	1.9	37	86	8	103	31	21	1	45	1.61
6456883--6456926	23	1.9	22	82	17	54	38	22	0	38	1.55
6457025--6457140	23	5.3	23	81	12	163	31	24	22	21	1.98
6457073--6457108	17	2.1	17	100	0	72	27	19	27	25	1.99
6457050--6457131	40	2.0	40	92	0	137	31	21	24	21	1.98
6463220--6463288	34	2.0	34	100	0	138	37	14	11	36	1.83

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