genome.fa.s15.2.7.7.80.10.50.1000.169.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   

This is table  169  of  222  ( 26535 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)
54160102--54160159	26	2.2	26	84	6	73	17	20	25	36	1.94
54161833--54161875	12	3.6	12	75	12	52	20	37	30	11	1.89
54161834--54161886	24	2.2	24	100	0	106	22	37	28	11	1.89
54180574--54180625	25	2.1	25	96	0	95	34	7	19	38	1.80
54193902--54194135	50	4.7	50	87	1	308	20	30	22	26	1.98
54195552--54195737	26	7.2	26	75	7	135	19	15	29	35	1.93
54195574--54195737	52	3.2	52	86	3	206	19	14	29	36	1.92
54195567--54195737	78	2.2	78	82	2	200	19	14	28	38	1.90
54201492--54201558	26	2.6	26	79	11	75	43	2	17	35	1.65
54203983--54204318	102	3.3	100	87	3	426	28	14	25	30	1.95
54203983--54204318	51	6.6	50	83	5	365	28	14	25	30	1.95
54208396--54208535	41	3.4	42	83	6	162	32	15	29	22	1.95
54211767--54211820	19	2.8	19	94	0	99	37	16	9	37	1.81
54211744--54211820	38	1.9	40	87	10	113	38	16	7	36	1.78
54212370--54212493	45	2.8	45	86	7	164	24	23	23	29	1.99
54212502--54212839	44	7.8	43	68	10	152	28	21	19	30	1.98
54212461--54212854	217	1.8	217	89	0	626	27	22	20	29	1.98
54213203--54213309	44	2.4	44	90	6	164	27	28	15	28	1.96
54213203--54213324	44	2.8	44	83	12	153	28	26	18	27	1.98
54213324--54213724	88	4.6	88	91	0	649	18	23	29	28	1.98
54213324--54213720	44	9.0	44	60	7	124	18	23	29	28	1.98
54215891--54215951	26	2.3	26	83	5	70	57	4	14	22	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54231155--54231208	19	2.8	19	94	0	99	37	16	9	37	1.81
54236638--54236695	25	2.3	25	81	0	71	31	20	15	32	1.94
54248998--54249031	16	2.0	18	88	11	54	47	5	5	41	1.52
54250884--54250914	15	2.1	15	93	0	53	16	3	19	61	1.48
54253687--54253760	27	2.7	27	80	0	85	25	22	14	36	1.93
54259293--54259381	45	2.0	45	88	0	133	28	26	15	29	1.96
54259318--54259777	44	10.6	44	69	15	246	27	25	19	27	1.99
54259498--54259777	45	6.4	43	67	20	154	27	25	20	27	1.99
54259293--54259776	216	2.2	215	91	1	781	27	25	18	28	1.98
54259583--54259741	82	1.9	82	87	7	234	27	24	20	27	1.99
54272234--54272276	17	2.4	18	81	14	54	60	4	4	30	1.37
54273842--54273877	18	2.0	18	94	0	63	27	19	16	36	1.93
54288641--54288669	5	5.8	5	100	0	58	58	41	0	0	0.98
54291727--54291810	7	12.0	7	74	9	64	14	0	40	45	1.45
54291712--54291765	27	2.0	27	82	7	65	18	0	31	50	1.48
54291488--54291780	161	1.8	162	87	6	441	23	2	25	49	1.61
54291727--54291810	36	2.4	34	84	7	98	14	0	40	45	1.45
54294287--54294330	14	3.4	14	75	18	58	36	0	4	59	1.18
54294283--54294335	25	2.2	25	96	3	99	33	0	3	62	1.13
54295179--54295514	25	13.4	25	74	10	125	45	16	2	35	1.59
54295254--54295331	41	1.9	41	86	0	111	42	12	5	39	1.65
54295345--54295519	9	20.7	9	67	20	76	44	17	2	35	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54295295--54295414	59	2.0	59	82	9	147	45	15	2	36	1.59
54295383--54295506	16	8.0	16	67	22	59	46	16	0	36	1.52
54300884--54300931	21	2.3	20	86	10	69	31	14	47	6	1.69
54301341--54301442	44	2.3	45	82	1	116	31	13	23	31	1.93
54301341--54301518	43	4.1	44	74	1	135	30	15	24	29	1.96
54303732--54303764	16	2.1	16	88	5	50	36	3	0	60	1.12
54303851--54303943	47	2.0	47	95	0	168	38	8	3	49	1.50
54307977--54308017	5	7.6	5	84	15	55	41	53	0	4	1.22
54308169--54308218	9	5.6	9	82	0	64	28	10	22	40	1.86
54308169--54308218	18	2.8	18	87	0	73	28	10	22	40	1.86
54310917--54311108	62	3.1	59	79	15	210	50	4	3	42	1.39
54310898--54311101	65	3.2	67	79	14	216	48	4	3	42	1.43
54311007--54311108	17	6.2	17	70	16	56	51	3	0	43	1.26
54314710--54314769	11	5.0	11	79	16	66	40	6	1	51	1.38
54314711--54314763	26	2.0	26	92	0	88	41	5	1	50	1.36
54315292--54315316	3	8.3	3	100	0	50	64	0	0	36	0.94
54315991--54316046	22	2.5	23	94	2	96	46	1	0	51	1.11
54316007--54316053	6	8.0	6	83	4	51	42	0	0	57	0.98
54315976--54316017	16	2.6	16	96	0	75	50	4	0	45	1.23
54321119--54321156	19	2.0	20	89	5	60	68	2	0	28	1.03
54321123--54321151	15	1.9	15	100	0	58	68	3	0	27	1.05
54321594--54321652	28	2.0	30	81	15	70	45	1	22	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54322052--54322276	40	5.6	40	84	0	288	19	30	18	32	1.95
54322055--54322276	120	1.9	120	88	1	338	19	30	18	31	1.95
54326178--54326240	20	3.2	20	74	0	63	38	20	20	20	1.94
54327825--54327873	16	3.1	16	100	0	98	36	6	32	24	1.80
54327892--54327998	44	2.4	44	100	0	214	29	3	27	39	1.74
54328156--54328189	17	2.0	17	100	0	68	58	0	0	41	0.98
54328159--54328210	17	3.1	17	84	13	56	51	3	0	44	1.19
54343243--54343298	26	2.2	26	93	0	94	16	19	23	41	1.90
54353960--54354026	27	2.5	26	82	2	80	17	25	17	38	1.92
54357135--54357246	55	2.0	55	87	1	161	24	8	15	52	1.69
54362578--54362623	9	5.2	9	97	2	85	32	21	10	34	1.88
54363295--54363457	44	3.5	44	84	11	227	20	3	31	44	1.67
54363359--54363457	51	1.9	51	97	0	189	20	3	33	43	1.67
54365347--54365510	43	3.8	42	80	4	159	31	25	17	25	1.97
54366581--54366605	13	1.9	13	100	0	50	40	24	4	32	1.73
54374191--54374289	48	2.1	48	88	0	144	53	12	15	19	1.72
54382357--54382390	7	4.9	7	92	0	50	38	0	5	55	1.24
54386238--54386494	92	2.8	91	91	3	412	46	11	9	32	1.72
54392453--54392479	14	1.9	14	100	0	54	59	3	14	22	1.51
54397335--54397452	60	2.0	60	84	3	157	32	23	16	27	1.96
54411247--54411341	20	4.7	19	69	14	66	32	21	32	13	1.92
54411269--54411372	40	2.6	39	80	6	111	30	20	32	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54413149--54413213	16	4.1	16	91	0	103	40	4	33	21	1.74
54413406--54413475	27	2.6	27	80	11	81	51	2	0	45	1.16
54413432--54413479	15	2.9	17	81	15	64	54	0	0	45	0.99
54413460--54413650	61	3.2	61	72	11	221	50	4	1	43	1.30
54413426--54413710	120	2.4	120	95	1	502	50	4	0	44	1.26
54426484--54426592	27	4.0	27	84	7	150	36	20	19	23	1.95
54438338--54438396	21	2.8	21	76	7	57	54	6	6	32	1.53
54441866--54441985	42	2.9	42	82	2	134	45	20	19	15	1.86
54441951--54442006	21	2.7	22	83	8	64	41	17	16	25	1.89
54444329--54444405	34	2.2	35	88	6	113	33	23	16	25	1.96
54444329--54444430	34	3.0	33	84	5	96	37	22	15	24	1.93
54473364--54473388	13	1.9	13	100	0	50	32	20	16	32	1.94
54475070--54475433	47	7.6	48	87	3	484	32	7	29	29	1.86
54475070--54475433	49	7.6	49	87	3	501	32	7	29	29	1.86
54475070--54475433	96	3.8	96	88	2	534	32	7	29	29	1.86
54475552--54475630	37	2.1	37	85	0	104	24	18	31	25	1.98
54477446--54477874	40	10.8	40	92	2	666	24	20	28	26	1.99
54477446--54477874	199	2.2	200	90	2	675	24	20	28	26	1.99
54480343--54480367	13	1.9	13	100	0	50	32	20	16	32	1.94
54482051--54482413	49	7.6	49	89	3	537	32	8	30	28	1.86
54482051--54482413	191	1.9	191	90	2	577	32	8	30	28	1.86
54482532--54482610	37	2.1	37	88	0	113	22	18	32	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54487666--54487754	45	2.0	45	82	4	108	35	19	22	22	1.95
54487681--54487767	45	2.0	44	83	2	111	36	19	20	22	1.95
54489576--54489625	20	2.5	20	80	6	57	62	0	2	36	1.07
54489978--54490028	11	4.6	11	77	18	61	25	7	0	66	1.18
54489969--54490028	13	5.2	12	77	18	58	26	6	0	66	1.16
54489960--54490028	32	2.1	33	89	7	106	26	7	0	66	1.17
54489981--54490027	22	2.2	22	88	7	71	25	8	0	65	1.20
54491330--54491376	24	1.9	25	82	4	60	51	2	6	40	1.39
54499381--54499435	27	2.0	27	82	6	67	61	1	5	30	1.29
54505240--54505283	3	15.0	3	90	4	72	29	0	2	68	1.02

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