genome.fa.s24.2.7.7.80.10.50.1000.177.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_D11
Parameters: 2 7 7 80 10 50 1000
Length:  68311261

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   

This is table  177  of  226  ( 27070 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)
54213296--54213484	41	4.8	41	76	15	182	29	2	19	48	1.62
54213420--54213590	93	1.8	92	86	7	247	29	2	15	52	1.57
54213802--54213834	15	2.2	15	94	0	57	54	3	3	39	1.31
54215263--54215315	22	2.5	22	96	3	99	37	26	3	32	1.74
54215276--54215352	15	5.3	14	72	7	55	41	28	1	28	1.64
54215279--54215352	29	2.6	29	80	6	71	40	28	1	29	1.65
54216120--54216265	77	1.9	76	81	4	177	30	17	19	32	1.95
54215910--54216716	266	3.1	266	91	3	1319	29	19	18	31	1.96
54216684--54216961	113	2.4	115	77	6	258	31	20	21	27	1.98
54216759--54217052	113	2.6	114	83	2	369	30	18	22	28	1.97
54217410--54217442	11	2.8	12	86	4	50	33	3	12	51	1.54
54226477--54226530	21	2.6	21	82	5	65	38	3	0	57	1.17
54226477--54226561	21	4.2	20	71	14	50	36	3	1	58	1.23
54226501--54226561	21	3.0	20	76	9	61	32	3	1	62	1.21
54226569--54226606	20	1.9	20	89	10	60	39	5	5	50	1.48
54227149--54227278	61	2.1	60	83	7	154	46	16	2	34	1.59
54227516--54227557	19	2.2	19	87	8	59	69	4	2	23	1.20
54235087--54235131	23	2.0	23	95	4	83	4	0	24	71	1.05
54235080--54235131	23	2.2	25	89	6	81	5	0	25	69	1.10
54241175--54241366	104	1.8	105	82	4	251	23	18	11	46	1.81
54241840--54242986	44	26.2	44	77	5	1076	27	16	25	30	1.96
54241838--54242933	131	8.4	131	96	1	1937	28	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54242969--54243164	97	2.0	95	94	1	338	30	18	21	29	1.97
54243134--54243329	46	4.3	46	67	14	154	26	18	23	31	1.97
54243064--54243388	136	2.4	136	92	1	537	27	19	23	29	1.98
54243438--54243589	40	3.8	40	80	6	171	30	22	21	26	1.99
54243440--54243590	82	1.8	82	88	0	230	30	22	21	25	1.99
54244499--54244531	11	3.0	11	95	0	57	0	48	0	51	1.00
54244488--54244531	22	2.0	22	82	8	54	0	54	0	45	0.99
54244992--54245062	3	23.3	3	71	8	54	30	2	5	60	1.34
54245005--54245065	23	2.8	22	85	5	70	32	3	8	55	1.45
54245028--54245073	23	2.0	23	83	8	58	30	2	10	56	1.46
54245304--54245340	19	1.9	19	88	0	56	40	2	5	51	1.39
54247732--54247827	43	2.3	43	94	1	167	35	5	11	47	1.62
54257606--54257642	17	2.1	19	90	10	60	32	0	0	67	0.91
54258603--54258690	46	1.9	46	83	4	115	38	18	20	22	1.93
54258850--54258914	22	3.0	21	76	13	60	46	16	18	18	1.85
54259015--54259068	26	2.1	26	92	0	90	35	18	22	24	1.96
54259184--54259265	24	3.4	24	82	0	101	50	21	6	21	1.71
54259196--54259294	24	4.1	24	81	0	108	48	21	6	24	1.72
54259325--54259562	27	8.8	27	71	10	146	24	18	20	36	1.94
54259315--54259562	81	3.1	79	79	6	248	23	19	19	37	1.94
54264638--54264672	18	1.9	18	94	0	61	22	45	8	22	1.79
54266063--54266137	34	2.2	33	83	6	89	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54266074--54266138	33	2.0	33	87	6	96	56	0	0	43	0.99
54271539--54271607	15	4.6	15	85	0	75	11	17	13	57	1.64
54271533--54271617	45	1.9	44	85	2	116	9	15	16	58	1.61
54271532--54271615	30	2.8	30	83	1	98	9	15	16	58	1.62
54274371--54274420	17	2.8	18	85	8	59	34	4	4	58	1.36
54277031--54277056	2	13.0	2	100	0	52	50	0	0	50	1.00
54277478--54277513	16	2.3	15	90	4	54	61	0	5	33	1.19
54281503--54281543	21	2.0	21	90	0	64	46	12	2	39	1.54
54287900--54287940	21	2.0	21	95	0	73	43	9	2	43	1.50
54290674--54290741	30	2.4	28	81	16	77	54	4	0	41	1.20
54294000--54294035	16	2.4	14	86	13	54	30	5	8	55	1.52
54294593--54294621	14	2.1	14	100	0	58	55	13	6	24	1.63
54299836--54299932	32	3.0	32	88	7	142	53	0	8	38	1.31
54300704--54300760	29	2.0	29	86	13	82	47	0	5	47	1.24
54300711--54300773	30	2.1	31	85	8	85	46	3	4	46	1.40
54300749--54300906	43	3.6	43	74	14	153	47	8	3	40	1.51
54300738--54300927	43	4.3	44	71	18	146	47	7	4	40	1.52
54300736--54300936	88	2.3	89	91	3	327	47	6	4	40	1.52
54300912--54301006	32	3.0	32	93	4	165	48	0	8	43	1.33
54301735--54302010	33	8.0	33	84	5	291	27	33	14	23	1.94
54302726--54302814	45	2.0	45	95	0	160	25	28	16	29	1.97
54306998--54307026	6	4.8	6	100	0	58	48	0	17	34	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54306998--54307033	18	2.0	18	88	0	54	50	0	19	30	1.48
54307928--54307971	3	14.7	3	100	0	88	0	31	0	68	0.90
54320390--54320419	13	2.3	13	94	0	51	80	0	10	10	0.92
54323160--54323194	9	3.9	9	88	0	52	25	8	17	48	1.75
54323160--54323197	18	2.1	18	95	0	67	26	7	15	50	1.72
54323222--54323288	32	2.1	33	86	8	93	43	17	8	29	1.80
54325308--54325443	41	3.3	41	85	5	179	35	27	13	24	1.92
54329867--54330076	43	4.9	43	81	5	228	28	30	18	23	1.97
54330414--54330473	21	2.9	21	87	0	84	8	46	13	31	1.72
54330453--54330601	66	2.3	66	88	4	212	15	28	16	38	1.90
54330461--54330622	66	2.5	65	86	4	209	14	27	17	40	1.89
54336073--54336564	9	57.3	9	65	18	160	32	2	19	45	1.63
54336102--54336183	25	3.3	25	81	6	94	36	2	14	46	1.58
54336139--54336339	34	5.9	34	76	6	176	31	4	21	42	1.73
54336173--54336339	69	2.4	69	96	0	307	30	4	22	42	1.73
54336372--54336456	34	2.4	34	76	3	89	27	2	20	50	1.60
54336460--54336529	25	2.8	25	76	8	72	31	0	20	48	1.50
54336490--54336555	25	2.6	25	85	4	80	30	1	21	46	1.60
54336455--54336552	41	2.4	41	84	6	119	32	1	19	46	1.57
54336510--54336657	21	7.4	21	69	22	79	31	2	18	47	1.60
54336618--54336663	7	6.6	7	78	16	51	28	0	10	60	1.30
54336618--54336740	15	7.9	15	68	18	65	31	1	14	52	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54336660--54336717	21	2.8	21	84	7	82	36	3	17	43	1.66
54336886--54337030	61	2.4	62	86	1	211	50	5	4	40	1.45
54336964--54337002	16	2.5	16	95	4	71	51	5	0	43	1.24
54336934--54337052	31	3.9	30	72	12	98	52	5	5	36	1.48
54341373--54342135	308	2.4	309	90	3	1199	31	11	7	50	1.66
54342460--54342508	10	4.9	10	85	9	55	2	22	0	75	0.90
54342747--54343508	158	4.9	151	71	16	549	51	8	10	30	1.64
54342747--54343508	308	2.4	312	88	4	1174	51	8	10	30	1.64
54342879--54343340	149	3.0	148	66	23	378	51	7	10	29	1.65
54344727--54344778	25	2.0	28	88	11	83	51	3	11	32	1.56
54346681--54346825	41	3.5	41	88	0	218	25	20	28	24	1.99
54352113--54352149	10	3.6	10	89	7	56	0	27	0	72	0.84
54352232--54352328	27	3.6	27	83	8	99	22	25	31	19	1.98
54352665--54352736	31	2.4	30	84	11	85	41	8	6	43	1.62
54352910--54352968	29	2.0	30	90	3	93	49	15	8	27	1.73
54353091--54353168	26	3.0	27	79	9	90	26	3	0	69	1.06
54354645--54355089	222	2.0	222	98	0	863	36	14	11	37	1.83
54359576--54359641	33	2.0	33	93	0	114	36	19	40	3	1.67
54360055--54360171	42	2.7	43	84	5	139	29	21	23	26	1.99
54360068--54360378	42	7.4	42	85	5	353	26	19	22	31	1.98
54361127--54361235	40	2.8	40	87	4	150	37	25	20	16	1.93
54361274--54361472	41	4.9	41	87	2	274	24	22	23	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54361566--54361616	26	2.0	26	88	0	75	60	5	9	23	1.50
54361967--54362099	70	1.9	69	83	4	169	28	1	26	43	1.64
54362080--54362123	20	2.2	20	88	12	63	18	0	45	36	1.49
54362080--54362147	34	2.0	34	82	0	82	25	0	39	35	1.56
54362246--54362292	21	2.2	20	82	14	51	34	0	36	29	1.58
54367417--54367615	43	4.7	42	83	4	177	21	19	27	32	1.97
54367470--54367634	43	3.8	43	85	1	215	23	22	26	27	1.99
54367470--54367634	86	1.9	86	88	2	251	23	22	26	27	1.99
54367583--54367688	54	2.0	54	88	7	162	26	23	23	26	2.00
54367707--54367739	12	2.8	12	90	0	57	0	24	36	39	1.56

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