genome.fa.s24.2.7.7.80.10.50.1000.129.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  129  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)
40096145--40096188	21	2.2	19	84	8	52	52	15	18	13	1.75
40096186--40096351	42	4.0	41	78	6	131	42	14	24	19	1.88
40096259--40096351	21	4.4	21	77	5	98	43	15	23	18	1.87
40096161--40096357	84	2.3	84	75	8	186	44	14	22	18	1.85
40099495--40099568	28	2.7	27	78	14	71	33	4	27	35	1.76
40106153--40106230	22	3.8	20	80	8	86	33	0	11	55	1.36
40106289--40106539	49	5.2	49	88	0	364	32	0	12	53	1.44
40106321--40106627	27	12.8	26	72	21	226	32	0	13	53	1.46
40106289--40106533	98	2.5	97	90	2	404	33	0	12	53	1.44
40106153--40106552	19	22.2	19	65	23	154	32	0	12	54	1.42
40106429--40106674	114	2.1	113	87	6	330	32	0	14	51	1.48
40106727--40106778	27	1.9	27	92	0	86	23	38	21	17	1.93
40108354--40108386	11	2.9	12	91	8	52	0	48	0	51	1.00
40108849--40108914	3	21.3	3	75	6	60	30	1	6	62	1.29
40108856--40108917	23	2.8	22	87	4	81	32	1	8	58	1.37
40108856--40108925	23	3.0	23	79	10	63	31	2	10	55	1.47
40133314--40133347	17	1.9	18	94	5	61	47	0	11	41	1.40
40135596--40135882	113	2.5	114	80	4	301	24	22	24	27	2.00
40135876--40136011	72	1.9	74	85	3	195	27	22	24	26	2.00
40136714--40136767	29	1.9	27	81	7	63	27	5	33	33	1.80
40137540--40137713	85	2.0	85	100	0	348	29	18	21	29	1.97
40137766--40138597	335	2.5	333	79	6	803	31	18	16	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40139707--40139740	9	3.8	9	88	0	50	14	0	0	85	0.60
40140093--40140125	17	1.9	17	88	11	50	39	6	0	54	1.25
40140184--40140304	31	4.0	30	70	15	88	52	10	2	34	1.50
40140218--40140315	27	3.3	29	68	25	87	53	12	3	31	1.54
40140229--40140322	29	3.2	29	67	21	86	54	12	2	30	1.50
40140310--40140773	9	52.7	9	83	4	554	48	17	0	33	1.51
40143474--40143593	61	1.9	63	96	3	226	34	19	17	29	1.94
40148564--40148798	36	6.5	35	80	7	186	52	11	2	33	1.51
40148588--40148798	27	7.5	27	82	9	242	51	11	2	34	1.52
40148566--40148776	54	3.9	53	85	4	262	51	11	2	34	1.51
40148588--40148798	54	3.7	54	82	10	278	51	11	2	34	1.52
40154352--40154412	12	5.3	12	75	11	65	40	19	39	0	1.52
40154333--40154415	33	2.5	33	92	5	134	39	19	39	1	1.59
40154819--40154911	42	2.2	43	90	1	143	26	18	23	31	1.97
40154856--40154982	67	1.9	66	83	4	166	19	20	21	38	1.94
40154916--40155064	42	3.5	42	93	0	253	21	21	21	35	1.96
40155154--40155196	21	2.0	21	86	0	59	46	27	11	13	1.78
40158820--40158898	37	2.1	37	88	4	115	25	30	18	25	1.98
40159017--40159510	47	10.5	47	93	0	790	29	29	8	32	1.87
40163501--40164069	47	12.3	47	91	5	910	32	8	30	29	1.87
40163555--40163678	37	3.1	37	78	20	149	30	9	33	26	1.89
40170711--40170737	12	2.2	12	100	0	54	18	7	7	66	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40171835--40171868	13	2.5	13	85	4	50	38	0	0	61	0.96
40177738--40177779	22	2.0	21	86	13	59	66	4	4	23	1.30
40207704--40207892	95	2.0	95	91	2	308	41	25	6	26	1.79
40217854--40217892	19	2.0	20	90	5	62	30	20	30	17	1.96
40223228--40223261	17	2.0	17	100	0	68	47	5	5	41	1.52
40227744--40227904	33	4.7	33	70	22	118	31	27	20	20	1.98
40232287--40232329	7	6.0	7	81	13	52	69	0	11	18	1.17
40233567--40233818	44	5.7	44	93	0	414	27	21	26	24	1.99
40233782--40234166	129	3.0	129	91	1	594	31	18	24	26	1.97
40243282--40243332	20	2.5	20	75	6	50	29	11	15	43	1.82
40245586--40245640	28	2.0	28	88	0	83	49	21	14	14	1.79
40248413--40248445	11	3.0	11	100	0	66	54	0	18	27	1.44
40254148--40254460	51	6.1	51	81	1	331	32	11	18	38	1.86
40254147--40254450	102	3.0	102	82	1	394	32	10	18	38	1.85
40254332--40254420	27	3.4	26	67	16	67	32	6	20	40	1.78
40254174--40254455	153	1.8	153	86	1	404	31	10	18	39	1.85
40269503--40269624	37	3.3	37	85	4	165	15	13	31	39	1.87
40270756--40270864	25	4.4	25	76	13	84	26	22	24	26	2.00
40271011--40271083	36	2.0	36	97	0	137	47	19	5	27	1.71
40271380--40271449	17	4.2	17	65	26	51	37	18	2	41	1.66
40272912--40272952	20	2.0	20	86	9	57	41	19	12	26	1.87
40274845--40274895	21	2.5	21	83	3	59	19	25	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40285263--40285310	23	2.3	20	75	21	53	29	16	8	45	1.76
40285269--40285313	23	2.0	23	95	0	81	28	13	8	48	1.72
40287776--40287965	49	3.7	50	80	5	202	25	21	28	24	1.99
40287776--40288006	49	4.5	50	78	7	173	27	21	27	23	1.99
40288216--40288254	12	3.2	12	85	0	51	51	5	23	20	1.67
40291519--40291593	23	3.3	23	90	0	114	32	25	20	22	1.98
40293484--40293516	14	2.4	14	90	10	50	15	0	30	54	1.41
40293501--40293610	33	3.3	33	75	6	114	35	0	14	49	1.50
40293501--40293621	34	3.6	34	78	3	129	34	0	14	50	1.48
40293694--40294089	126	3.1	126	88	1	571	36	17	17	27	1.93
40299723--40299987	103	2.6	104	90	3	417	29	29	20	19	1.97
40300315--40300378	29	2.2	29	81	10	76	31	26	6	35	1.81
40300322--40300378	29	1.9	30	85	3	80	31	22	7	38	1.81
40303160--40303211	25	2.1	24	86	10	70	69	0	1	28	0.99
40303809--40303938	50	2.6	50	88	2	181	33	16	13	37	1.87
40303805--40303977	50	3.4	50	81	7	163	32	15	14	36	1.88
40318330--40318534	101	2.0	101	94	0	356	43	4	16	35	1.70
40319795--40319835	18	2.2	19	86	4	57	7	19	41	31	1.79
40320728--40320907	89	2.0	89	97	0	342	38	16	16	28	1.90
40325564--40325597	4	8.5	4	86	0	50	23	0	52	23	1.47
40328814--40328869	28	2.0	28	96	0	103	46	19	14	19	1.84
40329044--40329086	18	2.4	18	92	0	68	0	58	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40331904--40331936	12	2.8	12	90	4	50	39	33	18	9	1.82
40332418--40332464	19	2.6	18	82	3	58	34	2	4	59	1.29
40335496--40335577	40	2.0	40	100	0	164	9	7	36	46	1.65
40335496--40335559	20	3.1	21	61	17	53	9	7	34	48	1.64
40336396--40336438	2	21.5	2	85	0	59	46	46	2	4	1.36
40339962--40340044	43	1.9	44	82	2	105	24	21	10	43	1.84
40341736--40341851	44	2.6	44	81	10	130	50	1	0	47	1.17
40343847--40343900	20	2.7	21	80	8	67	48	16	7	27	1.73
40345031--40345069	3	13.0	3	88	0	60	69	2	0	28	1.02
40346693--40346773	41	2.0	40	87	2	117	24	27	9	38	1.87
40346944--40346984	21	2.0	21	85	9	57	75	4	0	19	0.98
40347140--40347183	20	2.1	20	87	8	61	52	4	2	40	1.34
40347212--40347900	153	4.5	151	86	6	935	52	6	9	31	1.60
40347212--40347900	308	2.3	302	88	4	1021	52	6	9	31	1.60
40348554--40348606	20	2.5	20	84	6	61	30	3	5	60	1.37
40349927--40349966	19	2.0	19	85	9	53	65	5	0	30	1.14
40351289--40351330	20	2.1	20	100	0	84	38	26	14	21	1.91
40352037--40352077	15	2.5	17	88	7	59	39	0	4	56	1.21
40352749--40352834	3	28.7	3	100	0	172	67	0	0	32	0.91
40353242--40353301	28	2.1	28	84	6	77	25	15	10	50	1.74
40354935--40355162	40	5.7	40	96	0	402	21	26	20	32	1.98
40369339--40369371	17	1.9	17	93	0	57	12	9	18	60	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40372592--40372645	23	2.4	23	93	3	92	38	5	29	25	1.79
40387127--40387180	26	2.1	26	96	0	99	42	14	9	33	1.78
40391617--40391653	17	2.2	17	90	0	56	35	5	5	54	1.47
40394226--40394282	19	2.7	22	76	15	66	40	17	7	35	1.77
40394216--40394273	22	2.6	22	81	7	64	41	17	5	36	1.72
40395227--40395507	150	1.9	150	88	0	427	28	19	20	31	1.97
40395347--40395890	266	2.0	267	90	0	847	26	24	20	28	1.99
40395992--40396111	44	2.7	44	88	2	161	30	26	16	26	1.97
40398354--40398438	36	2.5	33	87	10	127	62	2	12	22	1.42
40398358--40398432	36	2.1	36	100	0	150	58	2	14	24	1.49

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