genome.fa.s24.2.7.7.80.10.50.1000.18.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  18  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)
6652024--6652119	21	4.6	21	76	10	99	42	2	1	54	1.19
6652001--6652095	39	2.4	39	89	0	154	38	2	0	58	1.10
6655220--6655254	18	1.9	18	88	0	52	37	5	5	51	1.50
6656019--6656058	20	2.0	21	85	14	57	50	0	5	45	1.23
6663817--6663868	23	2.5	19	82	17	59	53	3	3	38	1.37
6663910--6663990	3	26.3	3	72	14	58	60	3	4	30	1.35
6671337--6671365	12	2.3	13	94	5	51	20	0	20	58	1.39
6676111--6676409	119	2.5	119	91	3	494	43	2	4	50	1.33
6676241--6676296	15	3.5	18	75	24	63	42	0	0	57	0.99
6676361--6676395	18	2.0	17	88	5	52	45	0	0	54	0.99
6676349--6676623	147	1.9	149	94	1	491	47	2	3	45	1.35
6676508--6676542	18	2.0	18	88	5	54	48	0	0	51	1.00
6676704--6676798	45	2.1	45	86	1	129	33	26	5	34	1.79
6685904--6685954	23	2.2	23	89	0	75	31	7	17	43	1.78
6690279--6690315	9	4.1	9	92	0	65	45	13	10	29	1.77
6691182--6691794	303	2.0	303	95	1	1091	32	19	16	31	1.94
6700294--6700320	11	2.5	11	100	0	54	59	0	0	40	0.98
6701138--6701214	27	2.9	27	88	3	111	28	23	31	16	1.96
6701371--6701398	12	2.3	12	100	0	56	25	0	0	75	0.81
6701489--6701584	19	5.2	19	77	5	106	38	12	1	47	1.48
6701497--6701568	18	3.9	18	80	3	81	40	11	0	48	1.39
6701489--6701584	37	2.6	37	94	0	165	38	12	1	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6701783--6701892	37	2.7	41	68	16	95	45	0	7	46	1.37
6701807--6701872	19	3.5	19	79	4	89	50	1	10	37	1.47
6702277--6702330	27	2.0	27	92	7	92	35	0	9	55	1.32
6702699--6702723	12	2.1	12	100	0	50	0	60	0	40	0.97
6704567--6704770	101	2.0	101	99	0	399	31	14	20	33	1.92
6704870--6704942	28	2.8	26	76	10	67	46	0	1	52	1.09
6704896--6704950	19	2.9	19	81	10	60	41	0	1	56	1.10
6704896--6704951	9	6.1	9	75	19	53	42	0	1	55	1.10
6705036--6705084	14	3.0	17	69	19	50	32	32	4	30	1.77
6705078--6705122	21	2.1	21	100	0	90	35	26	13	24	1.92
6725099--6725167	35	2.0	35	100	0	138	17	50	11	20	1.76
6725116--6725195	34	2.3	35	84	2	99	22	51	10	16	1.74
6725689--6725722	11	3.1	11	88	12	52	0	52	0	47	1.00
6725679--6725722	22	2.0	22	86	8	63	0	56	0	43	0.99
6725687--6725724	11	3.4	11	83	16	51	0	52	0	47	1.00
6726201--6726234	3	11.3	3	100	0	68	32	0	0	67	0.91
6728166--6728203	10	3.9	10	86	6	51	28	0	2	68	1.03
6730126--6730311	59	3.2	59	89	0	273	35	4	8	51	1.54
6730126--6730351	59	3.8	58	84	3	256	35	6	8	49	1.58
6733196--6733283	29	3.0	29	77	6	81	31	19	3	45	1.67
6733216--6733283	29	2.3	29	84	2	82	27	19	2	50	1.62
6733332--6733396	27	2.4	27	84	2	76	40	18	0	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6745321--6745346	13	2.0	13	100	0	52	38	0	0	61	0.96
6754761--6754799	20	2.0	20	84	0	51	30	2	2	64	1.21
6763168--6763212	20	2.3	20	81	14	58	46	0	0	53	1.00
6771326--6771350	3	8.3	3	100	0	50	64	0	36	0	0.94
6779866--6779912	21	2.2	22	92	3	78	21	19	38	21	1.94
6783393--6783505	58	1.9	57	82	10	140	53	3	0	42	1.24
6785260--6785382	50	2.6	47	81	10	119	24	22	15	37	1.93
6785260--6785328	25	2.8	25	97	0	129	27	23	13	36	1.92
6785296--6785382	47	1.9	46	86	6	124	24	22	16	36	1.94
6790715--6790801	42	2.0	43	88	2	131	49	3	5	41	1.43
6790774--6790824	19	2.7	18	80	20	52	47	1	1	49	1.24
6803717--6803757	21	2.0	21	100	0	82	31	14	19	34	1.92
6809948--6810237	96	3.1	95	91	3	476	22	21	18	37	1.94
6813823--6815334	754	2.0	754	100	0	3024	34	16	17	31	1.93
6823268--6823298	3	10.7	3	93	6	55	70	0	0	29	0.87
6839998--6840050	28	1.9	26	85	11	70	45	0	1	52	1.11
6840060--6840090	16	1.9	16	100	0	62	45	3	0	51	1.17
6840238--6840308	22	3.6	20	72	27	71	23	0	4	71	1.03
6840262--6840306	15	3.0	15	76	0	54	20	0	2	77	0.87
6843330--6843528	51	3.9	51	78	5	206	33	25	14	27	1.94
6843334--6843528	102	1.9	102	86	4	277	32	25	14	27	1.94
6845952--6846051	50	2.0	50	84	3	130	31	15	15	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6846981--6847049	21	3.5	20	76	7	61	37	10	14	37	1.80
6854599--6854706	41	2.6	41	82	2	119	22	18	25	33	1.97
6858810--6858846	17	2.3	17	86	9	51	70	10	0	18	1.16
6860268--6860393	61	2.1	59	85	5	164	44	2	1	51	1.24
6868578--6868610	14	2.4	14	90	5	50	60	3	0	36	1.12
6871658--6871684	4	6.8	4	100	0	54	74	0	0	25	0.83
6875910--6875934	4	6.2	4	100	0	50	48	28	0	24	1.52
6878127--6878151	3	8.3	3	100	0	50	68	0	32	0	0.90
6882334--6882531	98	2.0	99	91	1	317	37	23	9	29	1.85
6886024--6886082	30	2.0	30	90	6	93	59	8	3	28	1.43
6886559--6886618	23	2.6	23	82	15	79	26	28	1	43	1.65
6886559--6886669	11	10.3	11	72	19	65	28	25	2	43	1.68
6886578--6886677	51	2.0	51	88	4	148	28	25	3	44	1.69
6886676--6886700	10	2.5	10	100	0	50	44	0	0	56	0.99
6893257--6893323	33	2.0	33	97	0	125	26	17	5	49	1.70
6899130--6899249	63	1.9	63	87	3	179	36	13	16	33	1.88
6903168--6903227	9	6.7	9	88	0	84	43	23	8	25	1.81
6903167--6903227	27	2.3	27	91	0	95	44	22	8	24	1.80
6903328--6903371	18	2.4	18	88	0	61	13	2	43	40	1.57
6905516--6905573	26	2.2	26	82	14	66	44	1	3	50	1.29
6906321--6906358	5	7.6	5	100	0	76	36	21	0	42	1.53
6912267--6912311	21	2.2	21	88	4	65	28	6	6	57	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6912966--6913493	262	2.0	262	100	0	1056	29	20	25	24	1.99
6917064--6917091	9	3.1	9	100	0	56	57	10	0	32	1.33
6917068--6917185	54	2.2	50	86	11	157	47	7	3	41	1.49
6917082--6917171	27	3.3	27	65	11	76	46	7	4	41	1.53
6917152--6917193	16	2.6	16	92	0	66	42	7	2	47	1.43
6917167--6917227	22	2.8	22	84	0	77	47	1	1	49	1.21
6918315--6918600	101	2.8	101	91	1	457	23	17	26	31	1.97
6918315--6918600	51	5.7	50	77	10	242	23	17	26	31	1.97
6918522--6918602	26	3.2	26	64	22	62	23	14	27	34	1.94
6918611--6918736	43	3.0	42	76	14	150	23	18	23	34	1.96
6928145--6928191	22	2.1	22	100	0	94	48	14	19	17	1.81
6935617--6935650	6	5.7	6	100	0	68	85	0	14	0	0.60
6940567--6940593	3	9.0	3	100	0	54	33	0	0	66	0.92
6943696--6943911	51	4.3	51	91	1	328	32	15	23	27	1.95
6944093--6944133	21	2.0	21	85	0	55	41	9	14	34	1.79
6945057--6945172	37	2.9	39	77	8	128	33	19	18	27	1.96
6946007--6946046	17	2.4	17	79	4	55	0	27	0	72	0.85
6946010--6946095	21	4.3	21	73	10	63	1	20	2	75	0.98
6946138--6946167	8	3.8	8	100	0	60	50	0	0	50	1.00
6946099--6946200	51	2.0	53	86	7	147	45	2	1	50	1.28
6951326--6951458	40	3.4	40	81	9	166	26	17	24	32	1.97
6951326--6951426	37	2.6	38	87	6	141	26	17	23	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6956217--6956463	136	1.8	138	83	3	338	45	21	11	21	1.83
6966663--6966800	68	2.0	68	94	2	242	25	21	15	38	1.92
6968531--6968603	26	2.8	26	77	2	76	21	27	17	32	1.96
6968688--6968747	25	2.4	26	86	10	81	25	30	21	23	1.99
6971709--6971902	105	1.9	101	81	6	237	29	21	13	35	1.92
6974805--6974878	9	8.1	9	75	14	71	36	0	20	43	1.52
6974991--6975081	30	3.0	30	90	0	146	45	1	10	42	1.46
6975083--6975148	20	3.2	20	80	16	89	39	9	4	46	1.56
6975154--6975236	40	2.1	40	90	0	130	31	6	19	43	1.75
6975364--6975460	35	2.8	35	89	9	112	48	0	5	46	1.24

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