genome.fa.s9.2.7.7.80.10.50.1000.170.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   

This is table  170  of  259  ( 31025 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)
55200833--55200897	27	2.4	27	81	0	76	38	7	24	29	1.83
55202940--55203003	31	2.1	31	93	0	110	23	23	15	37	1.93
55203218--55203266	23	2.1	23	100	0	98	28	20	20	30	1.98
55203318--55203376	20	3.0	20	94	0	100	28	22	15	33	1.94
55210801--55210872	23	3.0	24	88	10	103	27	22	20	29	1.99
55210922--55210960	20	2.0	20	100	0	78	30	20	12	35	1.90
55213611--55213692	30	2.7	28	85	10	101	29	24	14	31	1.95
55213912--55213981	25	2.8	25	93	0	113	24	22	25	27	2.00
55214794--55214866	26	2.8	25	74	17	76	20	17	21	39	1.92
55214907--55215032	27	4.6	27	76	11	103	31	7	19	41	1.80
55214969--55215093	27	4.7	26	80	6	115	29	7	21	41	1.80
55216152--55216303	56	2.6	57	91	4	243	31	23	15	29	1.95
55236506--55236726	40	5.6	40	85	4	288	25	28	23	22	1.99
55240635--55240742	53	2.0	54	96	1	200	23	18	19	38	1.93
55245074--55245202	46	2.8	45	87	4	161	27	17	28	25	1.98
55245271--55245387	49	2.4	49	81	2	128	29	18	28	23	1.98
55246603--55246642	21	2.0	21	85	5	55	15	40	25	20	1.90
55247615--55247662	15	2.9	16	84	9	62	35	25	4	35	1.75
55247734--55247779	23	2.0	24	86	4	67	45	21	10	21	1.82
55248741--55248782	22	1.9	22	90	0	66	40	4	11	42	1.63
55259951--55260122	40	4.3	40	88	2	222	25	21	27	25	1.99
55259951--55260122	79	2.2	79	84	3	220	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55259978--55260155	79	2.2	80	80	3	191	25	21	28	24	1.99
55267896--55268067	40	4.3	40	88	2	222	25	21	27	25	1.99
55267896--55268067	79	2.2	79	84	3	220	25	21	27	25	1.99
55267923--55268100	79	2.2	80	80	3	191	25	21	28	24	1.99
55269876--55269999	48	2.5	48	84	2	149	23	29	20	25	1.99
55269868--55270137	46	5.7	48	76	9	195	23	30	19	26	1.98
55270489--55270549	30	2.1	30	84	3	79	36	19	13	31	1.90
55277543--55277757	48	4.6	46	78	12	158	24	28	18	27	1.98
55277683--55277857	46	3.8	44	82	11	174	22	29	19	28	1.98
55282225--55282486	40	6.6	40	94	1	411	24	21	27	26	2.00
55290393--55290633	39	6.4	39	87	9	342	25	21	26	25	2.00
55290414--55290556	40	4.0	32	85	13	117	24	21	27	25	1.99
55294555--55294649	29	3.3	28	85	7	120	25	33	14	26	1.94
55294580--55294667	29	3.0	29	86	0	104	27	30	15	26	1.96
55294883--55294925	16	2.7	16	88	0	68	6	16	20	55	1.64
55301741--55301783	16	2.7	16	96	0	77	11	20	16	51	1.75
55303022--55303053	16	2.0	16	100	0	64	18	6	25	50	1.70
55308084--55308149	34	1.9	34	84	6	89	31	25	21	21	1.98
55311586--55311699	44	2.5	46	76	9	117	47	28	0	22	1.57
55312477--55312578	7	14.3	7	80	12	102	61	0	0	38	0.96
55312471--55312551	15	5.4	15	84	10	60	67	0	0	32	0.91
55312478--55312578	8	13.0	8	80	12	113	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55312530--55312564	18	1.9	18	94	0	61	74	0	0	25	0.82
55312628--55312667	18	2.2	18	86	0	53	80	0	7	12	0.91
55312610--55312666	26	2.2	26	81	6	62	73	1	5	19	1.11
55312636--55312674	18	2.2	17	95	4	69	76	0	2	20	0.90
55318240--55318280	19	2.2	19	86	4	57	21	2	4	70	1.18
55318525--55318568	21	2.1	21	95	0	79	11	18	36	34	1.86
55319243--55319288	16	2.8	16	83	6	56	30	2	28	39	1.69
55327130--55327166	20	2.0	20	89	10	60	27	0	5	67	1.12
55338427--55338488	32	1.9	33	90	3	99	43	16	0	40	1.48
55338434--55338490	21	2.6	23	78	10	66	38	17	0	43	1.49
55338404--55338490	11	7.9	11	75	5	68	37	19	0	42	1.52
55344416--55344488	20	3.8	20	67	20	64	45	21	0	32	1.53
55348060--55348193	44	3.0	45	81	4	153	35	14	23	26	1.93
55354164--55354198	18	1.9	18	88	0	52	42	20	5	31	1.75
55355343--55355375	17	1.9	17	93	0	57	15	0	9	75	1.03
55359452--55359485	3	11.3	3	100	0	68	35	0	32	32	1.58
55361161--55361198	15	2.6	14	84	15	51	0	34	0	65	0.93
55374917--55375364	232	1.9	234	84	5	593	40	20	13	25	1.90
55376359--55376663	168	1.8	168	94	1	540	41	10	15	32	1.82
55378117--55378192	25	3.0	25	98	0	143	50	5	11	32	1.62
55380530--55380794	47	5.7	48	81	7	255	23	28	20	28	1.98
55380534--55380794	140	1.9	140	85	6	368	22	28	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55390870--55390938	21	3.4	21	67	15	63	36	2	7	53	1.44
55390925--55390955	15	2.1	14	94	5	53	35	3	6	54	1.42
55391270--55391302	14	2.4	14	85	15	50	72	15	12	0	1.12
55398468--55398566	26	3.8	26	80	5	128	31	27	19	22	1.98
55399438--55399483	23	2.0	23	100	0	92	34	17	8	39	1.80
55402321--55402586	46	6.0	46	83	7	325	22	24	13	39	1.91
55402503--55402575	38	1.9	38	97	0	137	24	26	15	34	1.94
55414032--55414058	13	2.1	13	100	0	54	22	25	29	22	1.99
55421495--55421625	47	2.8	47	85	0	172	32	28	15	23	1.95
55436116--55436162	23	2.0	23	83	0	58	23	31	8	36	1.85
55437397--55437449	23	2.3	23	80	3	63	20	1	3	73	1.08
55443911--55444074	49	3.4	49	80	6	160	23	28	19	28	1.98
55443949--55444086	49	2.9	47	85	3	170	23	28	19	28	1.98
55446466--55446500	17	2.1	16	94	5	61	42	25	5	25	1.77
55446501--55448940	999	2.4	999	97	0	4605	30	13	11	43	1.80
55451516--55451559	13	3.2	14	87	12	65	52	6	13	27	1.66
55452406--55452450	22	2.1	21	87	4	63	44	4	11	40	1.60
55455519--55455846	23	14.3	23	69	10	109	37	23	5	33	1.78
55455534--55455957	46	9.2	46	76	8	364	38	22	5	33	1.77
55455559--55456082	23	22.7	23	70	12	247	38	23	5	32	1.78
55456623--55456655	15	2.2	15	94	0	57	51	21	3	24	1.62
55458302--55458367	24	2.8	24	79	6	71	18	22	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55459118--55459173	18	3.2	16	76	16	58	66	17	1	14	1.34
55462241--55462424	40	4.6	40	81	6	212	25	22	26	25	2.00
55462241--55462423	80	2.3	80	84	3	235	25	21	26	25	2.00
55472395--55472454	23	2.6	23	94	0	111	20	18	21	40	1.92
55473398--55473441	21	2.1	21	83	8	54	34	15	0	50	1.45
55479040--55479197	43	3.7	44	77	9	173	25	19	24	29	1.98
55479037--55479197	86	1.9	85	82	6	200	25	19	24	31	1.98
55485730--55485881	43	3.5	43	78	9	159	24	16	25	33	1.96
55487155--55487200	23	2.0	23	91	8	76	32	10	21	34	1.88
55495795--55496100	46	6.6	47	71	15	158	27	19	28	24	1.98
55495843--55496100	138	1.9	139	81	4	324	27	19	28	24	1.98
55502539--55502563	9	2.8	9	100	0	50	24	40	24	12	1.88
55504027--55504093	32	2.1	32	81	10	75	50	1	5	41	1.36
55505034--55505117	25	3.4	25	84	0	114	19	23	20	36	1.95
55505048--55505164	22	5.0	22	77	7	83	19	23	17	38	1.93
55505248--55505310	31	2.0	31	96	0	117	49	0	25	25	1.51
55505251--55505305	18	3.3	18	65	29	50	50	0	25	23	1.49
55505820--55505858	19	2.1	19	85	4	53	38	0	15	46	1.46
55509439--55509777	183	1.9	183	96	0	624	35	13	10	41	1.78
55511365--55511701	183	1.8	183	97	0	638	40	10	13	35	1.78
55514129--55514313	40	4.7	40	79	7	191	23	22	28	25	1.99
55514129--55514311	79	2.3	81	81	7	205	24	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55514190--55514336	79	1.9	79	80	8	174	25	20	27	26	1.99
55521371--55521430	30	2.0	30	93	6	104	33	13	25	28	1.93
55521737--55521769	16	2.1	16	100	0	66	24	0	18	57	1.40
55533537--55533595	21	2.8	20	73	16	57	57	1	3	37	1.25
55536250--55536323	22	4.1	19	70	25	52	67	1	0	31	0.99
55536251--55536300	26	1.9	26	88	8	75	64	2	0	34	1.05
55536250--55536302	22	2.3	23	78	15	65	64	1	0	33	1.05
55537759--55538300	204	2.6	206	88	1	809	28	21	18	31	1.97
55559984--55560024	20	2.0	20	100	0	82	51	4	29	14	1.63
55560777--55560887	40	2.7	41	78	5	116	26	11	26	36	1.90

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259