genome.fa.s24.2.7.7.80.10.50.1000.176.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  176  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)
54458595--54458668	22	3.3	21	73	5	58	16	18	20	44	1.87
54462017--54462059	19	2.4	17	84	7	59	76	0	0	23	0.78
54462012--54462059	17	2.8	17	82	14	55	70	0	0	29	0.87
54462348--54462414	29	2.3	30	82	12	79	58	5	4	31	1.42
54462588--54462635	21	2.2	22	85	7	71	47	8	22	20	1.77
54465234--54465283	20	2.4	21	83	6	66	54	2	8	36	1.42
54465626--54465651	3	8.7	3	100	0	52	34	0	30	34	1.58
54465650--54465695	3	15.7	3	95	4	85	65	0	0	34	0.93
54467214--54467370	85	1.8	85	81	10	196	27	22	21	28	1.99
54467391--54467632	43	5.6	43	74	7	238	23	24	23	28	1.99
54467405--54467857	87	5.2	87	79	7	481	23	24	22	29	1.99
54467391--54467850	44	10.6	44	71	9	237	24	25	21	29	1.99
54467408--54468038	174	3.5	175	77	9	589	23	23	22	30	1.99
54467883--54468082	44	4.6	44	77	6	190	25	24	21	29	1.99
54467743--54468184	232	1.9	233	92	1	753	23	23	21	31	1.98
54468466--54468545	24	3.3	24	85	0	97	25	26	13	35	1.93
54469387--54469438	13	3.8	13	81	18	70	0	21	0	78	0.74
54469397--54469429	8	4.2	8	96	3	59	0	21	0	78	0.75
54474328--54474377	20	2.4	21	83	6	66	54	2	8	36	1.42
54474778--54474827	3	16.7	3	95	0	82	66	4	0	30	1.10
54484577--54484618	21	2.0	21	100	0	84	23	23	23	28	2.00
54485744--54485803	30	2.0	31	86	3	86	40	0	40	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54486017--54486053	9	4.1	9	92	0	65	29	10	13	45	1.77
54486386--54486411	3	8.7	3	100	0	52	30	0	0	69	0.89
54486384--54486424	12	3.3	13	86	10	59	26	0	0	73	0.84
54488298--54488338	20	2.1	20	86	4	57	56	0	0	43	0.99
54506909--54506937	6	4.8	6	100	0	58	34	0	0	65	0.93
54515373--54515503	50	2.6	50	87	0	190	19	22	19	38	1.93
54515661--54515709	21	2.3	23	79	13	59	38	0	40	20	1.53
54516207--54516262	21	2.8	20	74	12	53	55	5	7	32	1.50
54518852--54518893	22	1.9	22	90	0	66	11	21	26	40	1.88
54519106--54519307	86	2.3	87	87	0	280	29	30	15	24	1.95
54519148--54519400	43	5.9	43	76	7	226	31	30	15	22	1.95
54519148--54519400	130	2.0	129	81	5	305	31	30	15	22	1.95
54519253--54519444	86	2.2	87	82	6	237	33	29	14	22	1.94
54519746--54519879	21	6.4	21	78	6	128	5	40	17	37	1.72
54519849--54519996	66	2.2	66	86	4	201	14	28	17	39	1.89
54519855--54520019	66	2.5	66	85	3	190	13	26	18	40	1.89
54525441--54525642	9	24.2	9	69	15	96	37	2	15	44	1.62
54525446--54525565	16	7.9	16	66	19	78	35	2	16	45	1.61
54525460--54525596	25	5.6	25	74	6	118	37	2	15	44	1.61
54525539--54525677	43	3.3	42	77	13	110	38	1	12	46	1.51
54525634--54525662	13	2.2	13	100	0	58	37	0	6	55	1.27
54525647--54525773	56	2.3	56	98	0	245	41	0	9	48	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54525555--54525773	34	6.8	33	74	16	192	40	0	10	47	1.45
54525698--54525748	22	2.4	22	90	3	86	41	0	9	49	1.36
54525838--54525874	13	2.8	13	95	0	65	35	0	21	43	1.53
54537971--54538004	16	2.1	17	88	5	52	52	5	0	41	1.25
54538500--54538545	3	15.3	3	100	0	92	32	0	0	67	0.91
54556821--54556933	23	5.0	23	75	5	97	42	21	19	16	1.89
54556864--54556941	23	3.5	21	73	19	68	42	20	19	17	1.90
54558206--54558248	21	2.2	19	83	8	50	20	30	2	46	1.63
54567671--54567728	25	2.3	25	93	0	98	29	25	24	20	1.99
54567683--54567813	25	5.3	25	76	12	110	35	20	24	19	1.96
54567650--54567817	49	3.4	50	72	16	127	35	21	23	20	1.96
54567721--54567815	24	3.9	25	80	12	108	36	17	25	20	1.94
54569123--54569166	20	2.2	20	87	0	61	31	9	9	50	1.65
54573569--54573612	20	2.2	20	91	0	70	31	9	9	50	1.65
54574021--54574070	19	2.7	18	78	6	55	32	0	0	68	0.90
54574028--54574070	21	2.1	20	86	4	59	30	0	0	69	0.88
54582415--54582462	25	1.9	25	91	0	78	37	16	10	35	1.83
54583646--54583695	20	2.4	21	93	3	84	8	22	0	70	1.13
54583657--54583702	20	2.2	20	88	3	65	10	21	2	65	1.35
54585452--54585485	17	2.0	17	94	0	59	44	50	0	5	1.26
54590091--54590124	17	2.0	17	94	0	59	44	50	0	5	1.26
54590890--54590916	14	1.9	14	100	0	54	29	7	0	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54592092--54592153	25	2.5	25	86	5	81	40	16	12	30	1.86
54597172--54597223	24	2.2	24	85	0	68	32	9	7	50	1.64
54598318--54598370	21	2.5	21	84	6	63	7	13	5	73	1.23
54603571--54603610	3	13.3	3	89	0	62	27	0	5	67	1.11
54614138--54614189	25	2.1	25	85	3	70	40	17	25	17	1.90
54614543--54614567	5	5.0	5	100	0	50	40	20	0	40	1.52
54620321--54620354	12	2.8	12	86	0	50	11	17	47	23	1.81
54620362--54620456	50	1.9	50	86	4	138	26	14	34	24	1.94
54635079--54635141	25	2.5	25	81	0	81	19	23	25	31	1.98
54636278--54636307	16	1.9	16	93	6	53	30	0	20	50	1.49
54637155--54637290	67	2.0	67	90	2	211	20	19	25	34	1.96
54642063--54642132	24	3.0	23	75	12	61	51	1	2	44	1.25
54644877--54644948	19	3.6	19	76	10	56	38	1	1	58	1.15
54644877--54644948	20	3.6	20	75	9	58	38	1	1	58	1.15
54648150--54648200	20	2.5	19	84	9	57	62	3	1	31	1.24
54648789--54648836	25	2.0	24	87	4	69	60	6	4	29	1.40
54648853--54648900	22	2.2	22	85	7	62	68	0	6	25	1.12
54648873--54648910	19	2.0	20	84	5	51	65	0	5	28	1.14
54649574--54649614	18	2.2	19	91	4	66	21	7	0	70	1.11
54651438--54651499	23	2.7	23	87	2	90	17	16	24	41	1.89
54653566--54654036	242	1.9	243	92	0	782	34	19	16	30	1.93
54656123--54656221	44	2.2	44	89	5	146	31	5	29	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54656359--54656796	120	3.7	120	94	0	759	48	4	2	43	1.37
54656493--54656527	18	2.0	17	88	5	52	54	0	0	45	0.99
54656359--54656755	59	6.6	59	64	18	144	49	4	3	43	1.37
54656762--54656808	15	3.3	15	72	22	55	46	10	0	42	1.38
54656764--54656809	12	3.3	14	74	20	51	45	10	0	43	1.39
54668400--54668767	26	14.2	25	72	13	205	59	3	7	29	1.42
54668502--54668550	22	2.3	21	86	10	64	63	4	4	28	1.31
54668476--54668577	47	2.2	47	85	3	134	65	4	2	26	1.27
54668554--54668617	32	2.1	29	83	11	76	65	6	3	25	1.31
54668707--54668775	29	2.3	30	75	9	79	66	1	4	27	1.19
54670179--54670273	50	1.9	50	84	4	129	57	8	1	32	1.35
54671687--54671763	24	3.1	24	71	12	66	48	0	11	40	1.40
54671575--54671864	152	1.9	149	87	4	422	41	3	9	46	1.52
54671790--54671830	20	2.0	20	90	0	64	36	4	7	51	1.51
54682746--54683015	143	1.9	143	81	1	326	29	18	13	38	1.89
54687061--54687226	43	3.9	43	80	4	194	31	26	13	27	1.94
54692221--54692256	17	2.1	18	89	5	56	63	5	22	8	1.43
54693587--54694192	205	3.0	200	82	8	708	28	12	16	41	1.86
54694274--54694355	39	2.1	40	93	2	139	56	8	18	17	1.65
54696541--54696633	32	2.9	32	91	0	150	25	4	17	52	1.62
54698474--54698512	19	2.1	19	85	4	53	53	5	0	41	1.23
54698527--54698680	59	2.7	57	79	7	159	40	4	15	39	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54698918--54698957	21	1.9	21	89	0	62	52	2	5	40	1.37
54703312--54703359	22	2.2	21	77	3	51	31	0	16	52	1.45
54703773--54703992	89	2.4	91	82	7	261	39	22	9	29	1.85
54704054--54704097	14	3.2	13	78	12	52	63	0	0	36	0.95
54704092--54704161	28	2.5	27	81	11	70	71	1	5	21	1.15
54704369--54704431	29	2.2	29	85	0	81	31	3	3	61	1.27
54704421--54704487	28	2.4	27	75	9	71	31	5	0	62	1.19
54704483--54704522	21	2.0	20	85	9	55	17	5	0	77	0.94
54704534--54704688	85	1.8	84	81	4	195	30	10	18	40	1.84
54705341--54705395	19	3.0	17	77	15	56	65	1	1	30	1.13

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