genome.fa.s21.2.7.7.80.10.50.1000.34.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_D08
Parameters: 2 7 7 80 10 50 1000
Length:  65987480

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   

This is table  34  of  211  ( 25274 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)
9922212--9922332	48	2.5	48	97	0	224	30	25	7	36	1.84
9922306--9922361	29	1.9	29	100	0	112	30	28	7	33	1.84
9922258--9922409	77	2.0	77	96	0	277	30	26	7	34	1.84
9922335--9922505	48	3.6	48	93	1	281	30	25	7	35	1.84
9922080--9922458	125	3.0	127	92	2	627	30	26	7	35	1.83
9922901--9922941	20	2.0	21	85	4	57	48	4	2	43	1.37
9926974--9927013	20	2.0	20	85	0	53	37	10	0	52	1.35
9940414--9940465	24	2.2	24	89	0	77	53	9	3	32	1.51
9941018--9941052	16	2.2	16	89	0	52	68	2	2	25	1.17
9941579--9941671	37	2.5	37	94	0	159	34	17	6	41	1.75
9942268--9942317	22	2.1	25	82	10	61	62	2	0	36	1.07
9945884--9945910	13	2.1	13	100	0	54	37	22	25	14	1.93
9947384--9947424	20	2.0	20	86	9	57	51	4	2	41	1.36
9950334--9950392	30	2.0	29	87	12	84	3	54	1	40	1.27
9957621--9958044	216	2.0	216	99	0	839	32	16	11	39	1.85
9963501--9963535	16	2.1	17	94	5	63	45	8	0	45	1.34
9970934--9970985	26	2.0	26	82	10	63	55	7	1	34	1.39
9971145--9971231	44	2.0	44	86	4	122	28	13	2	55	1.51
9974032--9974058	2	13.5	2	100	0	54	51	0	48	0	1.00
9975895--9975966	35	2.0	36	84	7	94	40	2	16	40	1.63
9977404--9977473	25	2.8	25	77	14	72	32	20	18	28	1.96
9985276--9985317	5	8.4	5	89	0	66	76	2	2	19	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9988831--9988910	25	3.2	25	71	7	72	27	18	25	28	1.98
9988815--9988911	50	1.9	50	83	8	126	29	17	26	25	1.97
9988902--9988985	25	3.4	25	72	0	78	40	16	26	16	1.90
9991322--9991355	18	1.9	17	88	5	50	32	0	2	64	1.08
9994333--9994411	27	2.9	27	92	0	131	29	21	32	16	1.95
9994485--9994554	19	3.7	19	82	3	97	37	10	0	52	1.35
9994490--9994560	37	1.9	37	100	0	142	39	11	0	49	1.39
9994609--9994679	37	1.9	37	100	0	142	49	0	11	39	1.39
9994615--9994683	19	3.7	19	82	5	97	52	0	10	37	1.36
9994757--9994808	27	1.9	27	96	0	95	13	32	23	30	1.93
9994759--9994817	27	2.2	27	87	0	82	13	28	27	30	1.94
9994886--9994949	27	2.4	27	87	10	87	50	1	9	39	1.44
9995698--9995733	18	2.0	18	94	0	63	30	8	0	61	1.26
9997041--9997097	26	2.1	26	83	6	69	56	3	1	38	1.27
9997039--9997094	23	2.4	23	79	8	60	51	3	1	42	1.29
9999702--9999732	15	2.1	15	93	0	53	32	9	0	58	1.31
10000003--10000063	23	2.7	23	75	12	63	34	13	0	52	1.40
10000140--10000191	26	1.9	28	88	7	81	34	7	1	55	1.39
10006231--10006325	44	2.1	44	96	1	172	26	20	10	43	1.84
10011424--10011464	3	13.7	3	89	0	64	60	0	34	4	1.18
10015784--10015811	8	3.5	8	100	0	56	64	0	35	0	0.94
10016855--10016900	20	2.2	20	84	3	56	47	4	2	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10023443--10023563	17	7.1	17	79	4	109	15	14	29	39	1.88
10033134--10033326	50	3.7	50	80	4	197	26	21	29	22	1.99
10035070--10035131	15	4.1	15	73	19	65	43	0	3	53	1.17
10037453--10037495	2	21.5	2	95	0	77	0	48	2	48	1.14
10041130--10041181	22	2.4	22	90	0	86	55	23	0	21	1.43
10042718--10042852	42	3.2	42	82	0	171	5	41	15	37	1.72
10042718--10042872	63	2.5	63	80	0	166	6	40	15	37	1.73
10042718--10042852	21	6.4	21	85	0	153	5	41	15	37	1.72
10042843--10043008	66	2.5	66	82	3	183	13	28	17	40	1.88
10048439--10048482	16	2.8	16	85	0	61	36	0	15	47	1.46
10048450--10048522	25	2.7	25	81	10	74	34	2	16	46	1.61
10048507--10048877	9	43.7	9	67	20	76	39	1	13	45	1.53
10048509--10048559	16	3.1	16	85	5	66	29	1	23	45	1.64
10048572--10048813	74	3.3	74	80	13	322	42	1	11	44	1.49
10048657--10049444	127	6.7	116	70	22	339	40	2	11	45	1.52
10048627--10049450	34	24.7	34	75	16	694	40	2	11	45	1.51
10049017--10049262	9	27.7	9	71	20	96	37	2	14	45	1.58
10049036--10049073	7	5.1	7	87	12	58	28	0	26	44	1.54
10049018--10049078	16	3.8	16	87	12	90	31	0	24	44	1.54
10049018--10049078	23	2.5	25	89	10	108	31	0	24	44	1.54
10049099--10049262	22	7.7	22	67	25	77	39	3	12	45	1.57
10049274--10049450	72	2.5	72	99	0	345	41	1	8	48	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10048627--10049450	362	2.3	365	86	8	1271	40	2	11	45	1.51
10049491--10049526	16	2.2	16	90	0	54	30	2	22	44	1.67
10049477--10049523	23	2.0	23	95	0	85	31	2	21	44	1.64
10052450--10052542	17	5.6	16	68	19	50	36	45	1	17	1.56
10054376--10054807	41	10.8	42	83	6	180	33	25	24	15	1.95
10054490--10054579	35	2.6	35	98	0	171	26	25	27	20	1.99
10054564--10054806	82	3.0	82	95	0	423	34	27	23	13	1.92
10054560--10054806	123	2.0	123	89	1	379	34	27	23	13	1.93
10054864--10054960	40	2.5	40	77	13	101	21	26	21	29	1.99
10073353--10073398	21	2.3	19	88	11	65	45	2	0	52	1.13
10074229--10074262	17	1.9	17	88	5	50	38	0	8	52	1.33
10082581--10082610	14	2.1	14	100	0	60	20	13	6	60	1.55
10083956--10083997	22	1.9	22	90	0	66	42	14	4	38	1.66
10084110--10084142	17	1.9	17	88	11	50	39	0	9	51	1.34
10084966--10084990	9	2.8	9	100	0	50	92	0	8	0	0.40
10087430--10087510	40	2.0	40	100	0	162	32	12	17	38	1.87
10094446--10094653	91	2.3	91	86	2	274	45	4	3	46	1.41
10094683--10094714	16	1.9	17	93	6	57	53	0	0	46	1.00
10094707--10094919	61	3.4	63	69	17	194	41	2	6	49	1.41
10094669--10094961	120	2.4	120	92	2	482	42	2	5	50	1.36
10094790--10094824	18	2.0	17	88	5	52	40	0	0	60	0.97
10094910--10094944	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10094898--10095172	147	1.9	149	96	1	509	47	2	3	46	1.33
10095057--10095091	18	2.0	17	88	5	52	45	0	0	54	0.99
10095253--10095347	45	2.1	45	88	1	138	32	27	5	34	1.79
10095328--10095379	16	3.2	16	94	0	86	34	36	0	28	1.58
10104910--10104968	20	3.0	20	78	11	68	54	3	3	38	1.34
10112263--10112444	99	1.8	101	86	5	271	24	18	26	30	1.98
10112267--10112442	51	3.5	48	77	8	151	25	17	26	31	1.97
10116039--10116164	36	3.5	35	69	14	103	30	9	16	43	1.80
10116035--10116187	72	2.1	72	90	0	234	28	9	16	45	1.80
10123964--10124008	23	2.0	23	82	8	56	33	4	11	51	1.58
10124589--10124811	42	5.4	42	84	5	276	29	19	22	28	1.98
10131409--10131453	23	2.0	23	82	8	56	33	4	11	51	1.58
10132036--10132258	42	5.4	42	84	5	276	29	19	22	28	1.98
10135690--10135716	14	1.9	14	100	0	54	40	29	14	14	1.86
10139084--10139175	47	1.9	49	86	4	134	14	11	16	57	1.65
10148464--10148562	45	2.2	45	98	0	189	43	7	22	27	1.79
10149591--10149653	22	2.8	22	81	13	67	33	12	26	26	1.93
10153543--10153585	21	2.0	22	86	13	63	51	0	2	46	1.13
10154932--10154958	13	2.1	13	100	0	54	29	7	7	55	1.55
10159634--10159663	4	7.5	4	100	0	60	50	26	0	23	1.50
10159961--10159993	3	11.0	3	93	0	57	0	33	3	63	1.10
10164294--10164337	2	22.5	2	84	13	56	47	2	2	47	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10174107--10174262	45	3.6	44	78	11	158	19	20	20	39	1.92
10174268--10174342	24	3.2	24	61	11	57	21	16	18	44	1.87
10174252--10174340	45	2.0	45	84	0	115	20	17	16	44	1.86
10177642--10177676	6	5.8	6	96	0	52	57	0	25	17	1.40
10177641--10177678	12	3.2	12	88	0	58	60	0	23	15	1.35
10189873--10189920	17	2.8	17	90	0	78	16	22	35	25	1.95
10195126--10195397	138	2.0	137	80	5	307	33	25	21	19	1.97
10196414--10196447	17	1.9	18	88	5	52	47	14	0	38	1.45
10212872--10212964	18	5.2	18	82	0	114	29	19	15	36	1.92
10220211--10220299	44	2.0	44	100	0	178	48	6	11	33	1.65

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