genome.fa.s4.2.7.7.80.10.50.1000.172.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: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  172  of  253  ( 30316 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)
55831749--55831946	37	5.4	37	75	14	67	51	15	14	19	1.77
55831867--55831942	25	3.1	25	81	5	75	51	17	13	18	1.76
55832070--55832129	27	2.3	26	85	2	75	35	20	23	21	1.96
55832097--55832238	67	2.1	67	84	5	176	30	21	28	19	1.98
55832453--55832567	54	2.1	54	80	6	126	28	19	20	31	1.97
55832496--55832624	27	4.8	27	83	5	154	25	19	17	37	1.93
55832478--55832624	54	2.7	55	83	7	183	26	19	18	36	1.94
55832474--55832629	81	1.9	80	84	3	206	26	20	17	34	1.95
55832682--55832746	27	2.4	27	81	0	76	32	13	18	35	1.90
55832750--55833018	27	9.9	27	88	0	349	31	7	20	39	1.81
55835356--55835497	6	23.0	6	71	18	96	49	16	16	18	1.80
55835374--55835466	19	4.6	19	73	21	91	48	15	18	18	1.81
55835371--55835434	25	2.6	25	92	0	110	48	14	18	18	1.81
55835347--55835496	62	2.4	63	92	2	234	48	16	17	18	1.81
55835393--55835488	37	2.6	37	83	5	122	47	16	17	17	1.82
55835430--55835493	25	2.6	25	87	0	83	50	17	15	17	1.79
55835621--55835680	27	2.3	26	85	2	75	35	20	23	21	1.96
55836016--55836239	27	8.3	27	84	5	249	25	20	17	36	1.94
55836015--55836239	54	4.2	54	83	2	299	24	20	17	36	1.95
55836019--55836239	81	2.7	81	87	0	318	24	21	17	36	1.94
55836276--55836429	27	5.7	27	82	6	100	28	7	22	41	1.81
55836276--55836741	54	8.6	54	87	2	303	30	8	20	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55836329--55836757	27	15.9	27	85	1	538	31	7	20	40	1.80
55840484--55840594	33	3.4	33	84	0	141	15	12	33	38	1.85
55840531--55840606	33	2.3	33	81	0	80	15	14	34	35	1.88
55846756--55846810	26	2.1	26	100	0	110	32	3	21	41	1.71
55847755--55847791	18	2.2	18	90	9	60	45	0	5	48	1.25
55854255--55854280	6	4.3	6	100	0	52	15	38	15	30	1.88
55859162--55859392	117	2.0	118	91	0	374	32	14	17	35	1.90
55868619--55868643	13	1.9	13	100	0	50	0	28	0	72	0.86
55871202--55871268	21	3.2	21	91	0	98	16	23	35	23	1.95
55877098--55877280	79	2.3	81	84	7	232	24	22	27	25	2.00
55877099--55877282	40	4.6	40	83	9	216	23	22	28	25	2.00
55877151--55877305	79	2.0	79	84	7	208	25	21	27	25	1.99
55885269--55885451	79	2.3	81	84	7	232	24	22	27	25	2.00
55885270--55885453	40	4.6	40	83	9	216	23	22	28	25	2.00
55885322--55885486	79	2.1	79	84	6	210	25	21	27	25	1.99
55888373--55888501	46	2.8	46	93	0	213	30	28	21	19	1.98
55888385--55888520	46	3.0	45	88	4	132	27	29	21	21	1.98
55891511--55891664	26	5.9	25	86	7	166	21	12	31	35	1.90
55891506--55891652	52	2.8	52	87	4	190	22	12	29	34	1.92
55891511--55891664	78	2.0	78	82	7	188	21	12	31	35	1.90
55903878--55904009	45	2.9	45	93	2	230	21	22	28	26	1.99
55923599--55923643	24	1.9	23	95	0	72	48	24	2	24	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55923589--55923645	24	2.5	21	76	17	60	45	26	3	24	1.69
55924554--55924657	42	2.5	42	93	0	172	28	25	16	29	1.97
55927997--55928374	189	2.0	189	95	1	677	25	27	14	32	1.95
55935854--55935887	11	3.1	11	100	0	68	17	26	26	29	1.98
55939062--55939108	24	2.0	23	87	4	67	55	25	8	10	1.62
55942384--55942451	29	2.3	29	89	0	100	19	16	23	41	1.90
55942438--55942508	27	2.6	28	88	6	101	11	16	22	49	1.78
55946666--55946748	34	2.5	34	83	11	93	26	24	21	27	1.99
55949323--55949386	31	2.1	31	100	0	128	28	28	15	28	1.96
55951069--55951122	27	2.0	28	85	7	76	51	5	0	42	1.25
55951505--55951540	14	2.3	17	86	13	51	61	2	0	36	1.11
55952897--55953371	237	2.0	237	99	0	941	39	18	8	34	1.80
55956857--55957041	79	2.3	82	83	7	229	24	27	22	24	2.00
55956838--55957041	40	5.1	40	81	8	229	24	27	22	25	2.00
55964914--55965098	79	2.3	82	83	7	229	24	27	22	24	2.00
55964895--55965098	40	5.1	40	81	8	229	24	27	22	25	2.00
55967212--55967411	55	3.6	55	89	4	289	21	24	18	36	1.95
55969985--55970213	48	4.8	47	78	9	259	20	30	21	27	1.98
55969986--55970223	96	2.5	96	88	5	347	22	30	20	26	1.98
55979242--55979333	45	2.0	45	95	0	166	47	16	9	26	1.77
55988222--55988277	26	2.1	27	90	3	87	30	5	19	44	1.73
55992666--55992717	21	2.5	21	76	14	63	44	0	17	38	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55996355--55996519	43	3.8	43	77	7	165	30	26	16	27	1.97
55996355--55996519	86	1.9	86	82	4	208	30	26	16	27	1.97
56004077--56004183	43	2.5	43	84	3	144	32	24	16	26	1.96
56009744--56009801	23	2.5	22	78	10	71	18	12	18	50	1.78
56014203--56014351	43	3.5	44	78	11	157	31	25	16	26	1.97
56015444--56015468	13	1.9	13	100	0	50	40	16	4	40	1.67
56020426--56020545	43	2.8	43	76	9	120	33	26	15	24	1.95
56021879--56021906	13	2.2	13	100	0	56	28	0	14	57	1.38
56024656--56024806	43	3.5	42	72	12	119	33	25	15	25	1.95
56027505--56027533	14	2.0	15	93	6	51	27	0	20	51	1.47
56030392--56030420	14	2.0	15	93	6	51	27	0	20	51	1.47
56031837--56032011	46	3.8	46	76	10	185	29	28	20	22	1.98
56031845--56032015	93	1.8	93	91	0	279	28	28	21	22	1.99
56032435--56032494	30	2.0	30	90	0	93	30	25	8	36	1.85
56035545--56035652	26	4.2	26	92	0	180	33	7	23	36	1.83
56056961--56056985	13	1.9	13	100	0	50	44	0	8	48	1.32
56062335--56062401	17	3.8	17	70	20	57	17	4	1	76	1.04
56064711--56064888	27	6.6	27	74	6	119	28	16	26	29	1.97
56064708--56064888	82	2.2	81	81	4	204	28	16	25	29	1.97
56072738--56072807	27	2.6	27	82	8	81	32	17	27	22	1.96
56072712--56072867	82	1.9	81	83	6	199	28	16	26	28	1.97
56101967--56102054	46	1.9	46	90	0	131	28	30	21	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56115103--56115173	21	3.2	21	63	18	54	23	26	22	26	2.00
56115379--56115444	35	1.9	35	84	3	89	27	21	25	25	1.99
56115377--56115460	34	2.4	35	80	2	98	26	21	25	27	1.99
56118850--56119023	49	3.6	49	78	12	196	24	27	19	28	1.99
56118850--56119031	98	1.9	97	87	3	267	24	27	19	29	1.98
56118951--56119071	46	2.6	46	81	5	127	27	27	18	27	1.98
56120331--56120393	30	2.1	31	90	3	101	25	20	15	38	1.92
56120586--56120729	24	6.0	24	88	8	204	29	21	20	29	1.98
56120787--56120843	9	5.9	9	73	15	51	35	21	8	35	1.84
56120783--56120845	20	3.2	20	95	0	117	31	19	12	36	1.89
56120882--56120929	25	1.9	25	86	0	69	25	16	25	33	1.96
56122735--56122785	20	2.7	18	82	14	59	37	19	0	43	1.51
56126599--56126781	40	4.5	41	84	2	217	33	25	14	25	1.94
56129802--56130176	48	7.9	47	74	12	247	27	19	29	23	1.98
56129805--56130173	46	7.8	46	73	12	220	27	19	29	23	1.98
56140735--56140796	26	2.2	28	78	18	76	22	22	12	41	1.88
56143557--56143601	5	9.2	5	82	4	56	73	2	2	22	1.05
56149880--56150014	35	3.9	35	77	5	103	28	8	17	45	1.77
56157215--56157255	21	2.0	20	85	9	55	65	12	4	17	1.42
56157215--56157255	20	2.0	21	85	4	57	65	12	4	17	1.42
56157335--56157396	30	2.1	30	100	0	124	46	6	9	37	1.62
56169145--56169430	27	10.6	27	82	5	215	39	19	7	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56169155--56169385	54	4.3	53	85	6	279	41	18	7	32	1.79
56169149--56169385	81	2.9	81	86	3	327	40	18	7	32	1.79
56169150--56169432	81	3.5	80	84	4	295	39	19	7	32	1.80
56169180--56169468	27	10.7	27	79	7	214	39	20	7	32	1.81
56169452--56169593	27	5.3	27	79	3	151	35	19	19	26	1.95
56169452--56169594	54	2.6	54	84	2	171	36	18	18	25	1.94
56170206--56170380	67	2.6	67	97	0	332	17	28	22	30	1.97
56170562--56170661	6	16.3	6	72	15	62	22	18	11	49	1.78
56170568--56170626	25	2.4	25	85	0	73	23	20	10	45	1.81
56170612--56170661	18	2.8	18	87	6	75	18	14	14	54	1.72

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