genome.fa.s23.2.7.7.80.10.50.1000.135.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  135  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)
40341664--40341931	40	6.7	40	95	0	455	21	26	20	30	1.98
40344908--40345095	51	3.7	49	80	12	186	22	15	28	32	1.95
40344913--40345112	102	2.0	101	83	4	251	24	15	27	33	1.95
40345102--40345190	45	2.0	45	90	0	142	25	16	24	32	1.96
40360074--40360121	20	2.4	20	89	0	69	27	33	14	25	1.94
40360073--40360123	10	5.1	10	77	15	52	27	31	13	27	1.94
40362816--40362846	13	2.3	14	94	5	55	74	0	19	6	1.03
40363771--40363842	33	2.2	33	87	0	99	34	20	12	31	1.90
40366578--40366845	40	6.7	40	95	0	455	30	20	26	21	1.98
40375373--40375640	40	6.7	40	95	0	455	21	26	20	30	1.98
40378383--40378454	33	2.2	33	87	0	99	31	12	20	34	1.90
40379363--40379414	14	3.3	15	84	12	61	5	17	3	73	1.19
40382110--40382160	10	5.1	10	75	17	52	27	13	31	27	1.94
40382112--40382160	20	2.5	20	86	0	71	26	14	32	26	1.94
40384117--40384191	33	2.2	34	88	6	109	69	1	25	4	1.14
40384176--40384214	20	2.0	20	90	10	62	66	0	28	5	1.12
40384149--40384208	25	2.4	23	73	26	59	68	0	26	5	1.10
40384252--40384285	13	2.7	12	90	9	50	70	0	17	11	1.16
40384265--40384320	18	3.2	17	75	12	51	67	3	21	7	1.30
40394561--40394626	23	2.9	23	86	0	96	18	12	27	42	1.85
40398264--40398354	35	2.6	35	84	3	103	24	13	18	43	1.85
40403596--40403661	10	6.8	9	80	16	69	33	15	27	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40403601--40403658	30	1.9	30	96	0	107	32	13	27	25	1.94
40404371--40404463	41	2.3	41	80	0	105	25	19	25	29	1.99
40411963--40412042	41	2.0	41	89	0	124	25	18	22	33	1.97
40411963--40412080	41	2.9	41	84	2	121	27	18	23	30	1.98
40412194--40412288	32	3.0	32	67	20	81	29	6	18	45	1.74
40413091--40413350	39	6.6	39	93	0	421	45	19	2	32	1.65
40417005--40417038	4	8.0	4	90	9	50	23	0	2	73	0.97
40416988--40417047	22	2.7	22	73	19	61	26	0	6	66	1.16
40421455--40421514	22	2.7	23	73	19	63	66	6	0	26	1.16
40421464--40421497	4	8.0	4	90	9	50	73	2	0	23	0.97
40421788--40421855	20	3.5	20	75	16	79	41	19	25	14	1.89
40421780--40421859	40	2.0	40	87	2	117	41	20	25	13	1.88
40425867--40425905	20	2.0	20	90	10	62	35	5	0	58	1.20
40425868--40425911	20	2.2	20	84	8	54	43	4	0	52	1.22
40437635--40437667	17	2.0	17	88	5	50	45	0	0	54	0.99
40442818--40442854	13	2.7	14	87	8	58	27	0	8	64	1.21
40447045--40447369	41	7.9	41	76	6	248	20	19	25	34	1.96
40447144--40447366	123	1.8	123	81	9	285	20	17	25	35	1.95
40453676--40453735	30	2.0	29	84	9	77	38	6	25	30	1.81
40454125--40454316	50	3.9	50	79	8	196	29	22	27	20	1.99
40463818--40463849	14	2.3	14	94	0	55	15	15	0	68	1.21
40486823--40486875	23	2.3	23	78	9	63	5	16	0	77	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40486834--40486874	17	2.4	17	83	0	55	4	12	0	82	0.81
40489572--40489610	20	2.0	20	90	10	62	15	23	5	56	1.59
40489873--40490000	50	2.4	52	81	10	136	23	31	18	26	1.98
40493128--40493171	16	2.8	16	80	12	56	54	9	4	31	1.52
40498901--40498925	11	2.3	11	100	0	50	28	0	8	64	1.22
40506372--40506396	12	2.1	12	100	0	50	40	36	0	24	1.55
40507890--40507949	31	1.9	31	83	6	77	5	21	0	73	1.02
40507902--40508009	6	18.0	6	69	17	64	4	20	0	74	1.06
40507892--40508001	43	2.6	41	83	12	125	6	20	0	71	1.13
40507902--40508009	24	4.5	23	75	11	85	4	20	0	74	1.06
40513052--40513134	35	2.3	36	85	6	107	36	28	3	31	1.75
40538366--40538495	39	3.3	39	84	7	167	25	27	22	24	2.00
40543004--40543028	11	2.3	11	100	0	50	16	32	16	36	1.90
40543898--40543964	10	6.6	10	73	10	55	35	10	22	31	1.88
40549043--40549081	20	2.0	21	85	10	55	43	15	12	28	1.83
40553034--40553366	47	7.1	47	93	0	549	32	9	30	28	1.88
40553485--40553563	37	2.1	37	88	4	115	25	18	30	25	1.98
40556092--40556140	20	2.7	18	79	14	55	26	2	0	71	0.97
40556094--40556135	20	2.2	19	86	4	57	23	2	0	73	0.94
40556093--40556149	25	2.3	24	82	8	69	24	1	1	71	1.04
40558355--40558447	47	2.0	45	95	4	168	43	15	12	29	1.83
40562500--40562631	50	2.6	51	78	3	149	38	12	13	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40573064--40573231	27	6.3	27	85	4	171	40	19	19	20	1.92
40573073--40573227	81	1.9	81	83	7	199	40	19	20	20	1.92
40573593--40573677	28	3.0	28	91	6	143	23	25	23	27	2.00
40573593--40573676	30	2.9	30	94	3	145	23	26	23	26	2.00
40577861--40577912	25	2.0	26	85	3	70	65	3	3	26	1.27
40580944--40581216	27	10.1	27	84	4	329	42	18	18	20	1.89
40580944--40581216	81	3.4	81	84	3	363	42	18	18	20	1.89
40580953--40581216	134	2.0	134	85	6	356	42	18	18	20	1.89
40581394--40581467	26	2.8	26	85	4	87	13	18	24	43	1.86
40584685--40584813	55	2.3	55	86	0	177	25	33	18	22	1.97
40591874--40591911	20	1.9	20	94	0	67	21	34	0	44	1.52
40591895--40591925	16	1.9	16	93	0	53	19	29	3	48	1.64
40594178--40594349	40	4.3	40	88	2	222	25	27	21	25	1.99
40594180--40594402	40	5.6	39	83	5	216	25	27	21	25	1.99
40594178--40594402	80	2.8	79	80	7	240	25	27	21	25	1.99
40594334--40594411	40	1.9	41	82	10	97	26	28	20	24	1.99
40604859--40604887	14	2.0	15	93	6	51	0	41	0	58	0.98
40610943--40611127	40	4.7	40	82	6	216	24	27	22	25	2.00
40610943--40611127	79	2.3	82	82	7	220	24	27	22	25	2.00
40613414--40613475	25	2.5	25	86	0	79	29	22	17	30	1.97
40613469--40613520	25	2.1	25	89	3	79	28	23	21	26	1.99
40623191--40623371	28	6.5	28	88	0	256	29	22	25	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40623465--40623539	26	2.8	26	81	2	87	37	24	21	17	1.94
40623695--40623828	27	5.0	27	76	0	115	17	19	20	42	1.89
40623704--40623828	54	2.3	54	81	2	144	16	20	18	44	1.87
40625038--40625062	11	2.3	11	100	0	50	32	32	0	36	1.58
40633263--40633301	20	2.0	20	84	0	51	53	7	12	25	1.65
40643762--40643823	30	2.1	30	93	0	106	27	30	3	38	1.72
40659415--40659479	4	16.2	4	100	0	130	24	0	26	49	1.51
40661314--40661493	28	6.6	27	94	2	279	30	28	14	26	1.95
40661314--40661493	55	3.3	54	92	3	279	30	28	14	26	1.95
40661314--40661493	83	2.2	82	91	1	288	30	28	14	26	1.95
40669179--40669357	28	6.6	27	93	3	279	30	29	13	26	1.94
40669179--40669357	55	3.3	54	92	3	279	30	29	13	26	1.94
40669202--40669382	55	3.3	54	83	8	222	30	29	13	26	1.94
40669179--40669357	82	2.2	83	91	2	272	30	29	13	26	1.94
40684073--40684099	10	2.7	10	100	0	54	51	11	0	37	1.37
40688787--40689283	255	1.9	259	83	7	654	33	12	10	43	1.77
40695046--40695082	13	2.7	14	87	8	58	27	0	2	70	1.01
40699844--40699891	22	2.2	22	96	0	87	37	6	27	29	1.81
40705587--40705611	3	8.3	3	100	0	50	36	0	0	64	0.94
40713711--40713754	23	1.9	22	82	17	54	36	25	0	38	1.56
40713801--40713892	45	2.0	45	85	0	121	31	20	20	27	1.98
40713889--40714082	51	3.8	50	81	2	228	29	28	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40713896--40714080	101	1.8	101	88	3	282	30	28	17	23	1.97
40715918--40715984	27	2.5	27	78	7	73	52	11	13	22	1.73
40719445--40719480	17	2.2	16	90	5	54	38	0	47	13	1.44
40725737--40725918	49	3.7	50	78	3	172	26	19	28	25	1.99
40727064--40727166	42	2.5	42	84	7	131	33	27	17	22	1.96
40736003--40736063	27	2.3	27	85	0	77	39	18	18	24	1.92
40736015--40736180	27	6.1	27	75	4	147	36	15	19	28	1.93
40736033--40736175	54	2.6	54	84	4	173	37	15	19	27	1.92
40736003--40736186	81	2.3	81	81	5	212	36	17	19	27	1.94
40736248--40736304	24	2.4	24	84	0	69	17	10	26	45	1.81

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