genome.fa.s23.2.7.7.80.10.50.1000.133.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  133  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)
39813854--39813937	36	2.3	36	93	0	141	59	1	25	14	1.42
39813953--39814013	18	3.4	18	81	0	77	65	4	18	11	1.42
39815739--39815806	20	3.4	20	83	0	91	25	33	17	23	1.96
39818831--39818884	20	2.7	20	82	0	63	24	20	18	37	1.94
39818831--39818904	30	2.5	30	86	8	98	21	20	18	39	1.93
39818831--39818895	20	3.2	20	71	16	53	23	21	16	38	1.93
39830091--39830143	23	2.4	22	76	20	56	9	18	1	69	1.25
39834331--39834424	46	2.0	46	93	0	161	36	22	17	24	1.95
39839768--39839795	14	2.0	14	100	0	56	28	14	21	35	1.92
39845618--39845825	40	5.2	40	89	0	238	23	21	30	24	1.99
39845565--39845825	80	3.3	80	82	2	276	24	21	29	24	1.99
39845618--39845862	80	3.1	80	81	3	219	24	21	29	24	1.99
39856948--39856986	19	2.2	19	90	9	64	25	5	5	64	1.35
39858124--39858168	20	2.2	20	84	0	63	42	13	17	26	1.86
39859586--39859644	20	3.0	21	80	9	79	27	18	28	25	1.98
39860686--39860805	38	3.1	39	93	3	208	49	11	8	30	1.69
39864103--39864156	20	2.8	20	78	13	58	31	11	29	27	1.91
39864120--39864176	20	2.8	21	84	10	66	29	10	28	31	1.90
39864138--39864176	10	3.8	10	89	3	51	30	10	25	33	1.89
39865574--39865643	36	1.9	36	82	5	88	22	17	32	27	1.96
39865802--39865861	23	2.6	23	97	2	111	33	5	26	35	1.78
39870171--39870503	47	7.1	47	93	0	531	28	30	9	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39873690--39873741	25	2.1	25	82	7	61	30	28	7	32	1.85
39873903--39874019	40	2.9	40	85	0	153	25	25	21	27	1.99
39874406--39874484	29	2.7	29	84	5	97	27	31	15	25	1.95
39874466--39874611	43	3.4	43	97	0	274	28	35	13	22	1.92
39876623--39876955	47	7.1	47	93	0	531	28	30	9	31	1.88
39881225--39881409	79	2.3	81	84	7	236	24	22	27	25	2.00
39881226--39881409	40	4.6	40	83	9	216	24	22	27	25	2.00
39881226--39881442	79	2.7	79	81	7	201	25	22	27	24	2.00
39885990--39886187	50	3.8	50	82	4	216	22	29	21	25	1.99
39887484--39887526	3	14.3	3	100	0	86	67	0	0	32	0.91
39892143--39892220	37	2.1	37	86	9	106	26	30	16	25	1.97
39892341--39892451	47	2.4	47	95	0	204	32	29	7	30	1.84
39895913--39896068	40	3.9	40	82	3	163	24	26	23	25	2.00
39896374--39896452	29	2.7	29	86	5	106	27	32	15	24	1.95
39896434--39896579	43	3.4	43	99	0	283	27	35	14	22	1.93
39898447--39898525	37	2.1	37	86	4	106	26	30	17	25	1.97
39898646--39898756	47	2.4	47	93	0	195	32	28	7	31	1.84
39902430--39902455	13	2.0	13	100	0	52	46	7	0	46	1.31
39902845--39902883	20	1.9	21	89	5	62	35	12	28	23	1.91
39910710--39910736	14	1.9	14	100	0	54	33	22	14	29	1.94
39918338--39918392	15	3.8	15	85	2	69	1	21	1	74	1.01
39922577--39922657	12	6.8	12	69	17	53	12	24	1	61	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39922592--39922647	18	3.0	20	68	26	59	10	26	0	62	1.28
39922686--39922741	27	2.0	28	86	10	78	12	17	0	69	1.18
39922686--39922731	14	3.1	15	84	6	58	13	17	0	69	1.19
39923767--39923825	22	2.9	18	77	20	55	3	15	3	77	1.02
39925375--39925421	20	2.3	20	82	7	60	25	17	29	27	1.97
39926921--39926996	37	2.0	38	94	2	136	34	21	19	25	1.96
39933741--39933765	11	2.3	11	100	0	50	20	12	0	68	1.21
39935045--39935090	18	2.6	19	80	10	53	54	10	0	34	1.36
39938732--39938770	12	3.2	12	88	3	51	20	2	17	58	1.50
39939878--39939917	20	2.1	20	86	9	57	50	0	7	42	1.30
39953189--39953226	10	3.8	10	83	13	51	21	18	31	28	1.97
39953166--39953226	20	3.0	20	83	9	63	27	14	27	29	1.95
39953190--39953227	20	1.9	20	94	0	67	18	18	34	28	1.95
39955869--39955937	29	2.4	27	83	9	84	10	14	7	68	1.39
39955930--39955991	13	4.5	13	74	21	56	14	4	4	75	1.13
39955959--39955992	11	2.8	12	91	8	52	8	2	8	79	1.03
39955957--39955991	12	2.8	13	86	4	54	11	2	5	80	1.00
39957387--39957424	10	3.8	10	83	13	51	21	18	31	28	1.97
39957364--39957424	20	3.0	20	83	9	63	27	14	27	29	1.95
39957388--39957425	20	1.9	20	94	0	67	18	18	34	28	1.95
39957545--39957712	46	3.6	45	79	4	183	23	30	19	26	1.98
39959750--39959797	20	2.4	20	85	0	60	22	14	31	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39960395--39960455	12	5.1	12	83	0	77	59	0	24	16	1.37
39960384--39960467	36	2.5	33	79	11	96	63	0	23	13	1.30
39960384--39960455	24	3.1	24	78	5	78	61	0	23	15	1.34
39961148--39961187	14	2.9	14	88	0	53	50	10	32	7	1.64
39964137--39964181	14	3.3	14	84	6	65	37	0	13	48	1.42
39968404--39968500	30	3.2	31	73	5	101	27	28	15	27	1.96
39969150--39969192	20	2.0	22	82	8	54	4	27	0	67	1.10
39972822--39972874	23	2.4	22	76	20	56	9	18	1	69	1.25
39976439--39976486	15	3.3	14	80	8	60	4	18	0	77	0.93
39976439--39976497	21	2.8	21	87	5	75	6	22	0	71	1.09
39977406--39977458	13	3.9	13	71	9	52	7	15	1	75	1.11
39977509--39977540	12	2.6	12	95	5	55	21	6	0	71	1.07
39980486--39980519	9	3.9	9	88	7	52	8	8	11	70	1.34
39983373--39983439	34	2.0	34	100	0	134	26	19	23	29	1.98
39984636--39984684	16	3.0	16	77	13	55	59	4	28	8	1.45
39988739--39988772	16	2.1	17	89	10	54	58	0	11	29	1.33
39989661--39989790	43	3.1	42	77	9	131	25	19	25	30	1.98
39989675--39989790	41	2.7	42	80	9	119	26	19	25	28	1.99
39991855--39991896	17	2.4	18	84	11	52	23	0	33	42	1.55
39993429--39993460	16	2.0	16	100	0	64	50	25	12	12	1.75
39995497--39995556	18	3.2	18	75	11	66	6	16	3	73	1.18
39998053--39998080	12	2.3	12	100	0	56	14	0	7	78	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39999592--39999623	16	2.0	16	100	0	64	50	25	12	12	1.75
40004139--40004190	11	4.5	11	81	11	52	65	7	7	19	1.43
40004137--40004192	24	2.3	24	93	0	94	67	7	7	17	1.37
40004151--40004195	12	3.8	12	82	11	56	68	6	4	20	1.29
40009279--40009320	17	2.4	18	84	11	52	23	0	33	42	1.55
40015568--40015617	14	3.4	14	77	17	57	72	4	6	18	1.22
40015609--40015668	25	2.4	25	86	8	77	73	6	15	5	1.22
40016701--40016819	12	9.6	12	72	16	66	71	4	18	5	1.23
40016705--40016807	18	5.6	18	73	7	73	70	3	18	6	1.25
40016701--40016807	6	17.7	6	69	8	65	71	3	18	6	1.24
40016768--40016805	13	2.8	13	82	17	51	73	0	18	7	1.06
40016769--40016819	21	2.4	21	74	6	50	74	1	17	5	1.11
40016822--40016884	33	1.9	33	84	12	85	55	6	25	12	1.60
40020758--40020820	33	1.9	33	84	12	85	12	25	6	55	1.60
40020835--40020878	18	2.4	18	84	0	61	13	18	0	68	1.22
40020838--40020904	30	2.4	27	87	7	89	11	17	0	70	1.17
40020838--40020937	12	8.6	12	68	18	59	12	20	1	67	1.28
40020861--40020947	24	3.5	24	71	12	68	10	24	1	64	1.32
40024324--40024365	17	2.4	18	84	11	52	23	0	33	42	1.55
40026605--40026642	12	2.9	13	84	11	51	78	0	5	15	0.91
40029196--40029292	30	3.2	30	75	2	106	28	15	26	28	1.96
40030463--40030509	20	2.3	20	81	0	58	29	34	12	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40034841--40034887	20	2.3	20	85	0	67	21	12	36	29	1.91
40037927--40037960	18	1.9	18	88	5	52	8	35	2	52	1.47
40038660--40038708	14	3.5	13	86	8	53	14	10	2	73	1.18
40038659--40038708	15	3.5	14	86	10	66	14	10	2	74	1.16
40041707--40041812	48	2.2	48	85	9	137	14	24	1	59	1.45
40043752--40043805	20	2.7	20	82	0	63	24	20	18	37	1.94
40043752--40043825	30	2.5	30	86	8	98	21	20	18	39	1.93
40043752--40043816	20	3.2	20	71	16	53	23	21	16	38	1.93
40046413--40046444	15	2.1	16	94	5	57	71	0	21	6	1.07
40047825--40047878	20	2.7	20	82	0	63	24	20	18	37	1.94

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