genome.fa.s15.2.7.7.80.10.50.1000.12.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  12  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)
4080873--4080901	6	4.8	6	100	0	58	34	13	0	51	1.42
4085372--4085406	11	3.1	12	88	12	56	34	0	0	65	0.93
4085768--4085822	25	2.2	26	78	15	62	54	12	5	27	1.60
4085880--4085927	22	2.2	22	81	7	53	58	6	16	18	1.59
4085537--4086033	283	1.8	271	84	10	685	47	14	13	24	1.80
4088769--4088813	21	2.1	21	84	8	56	57	2	11	28	1.45
4093197--4093239	19	2.2	20	84	12	63	32	18	0	48	1.48
4093368--4093499	38	3.4	37	77	9	113	31	27	18	23	1.97
4093392--4093501	38	2.8	38	79	6	114	32	25	19	22	1.97
4094349--4094394	22	2.1	22	84	8	58	0	26	4	69	1.07
4094758--4094827	31	2.3	30	80	11	79	51	5	2	40	1.40
4104602--4105512	357	2.6	354	85	5	1166	34	17	24	23	1.96
4118715--4118820	53	2.0	53	98	0	203	38	9	12	39	1.75
4119118--4119175	29	1.9	31	89	6	93	56	5	13	24	1.57
4125016--4125046	10	3.1	10	95	0	53	16	19	12	51	1.76
4128613--4128693	29	2.7	30	84	5	119	34	14	14	35	1.88
4129023--4129067	23	2.0	23	82	8	56	20	8	13	57	1.62
4130459--4130515	24	2.4	24	94	5	98	33	43	10	12	1.76
4130398--4130692	120	2.6	115	85	4	364	27	47	8	17	1.76
4130851--4131158	12	25.8	12	70	9	155	16	26	17	39	1.91
4130899--4131160	6	43.8	6	69	7	113	16	25	17	40	1.90
4130903--4131160	18	14.4	18	70	11	136	17	25	17	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4130903--4130997	42	2.3	42	88	0	136	16	25	17	40	1.91
4130853--4131160	30	10.3	30	70	10	130	16	25	17	39	1.91
4132906--4132977	30	2.4	30	80	0	81	26	56	6	9	1.56
4132946--4132986	21	2.0	21	85	0	55	24	51	4	19	1.66
4135638--4135679	17	2.5	17	84	3	50	2	21	0	76	0.90
4136288--4136398	3	37.0	3	73	3	89	7	4	61	27	1.42
4136289--4136360	27	2.7	27	95	0	126	8	5	59	26	1.48
4136316--4136398	36	2.3	36	95	0	148	6	3	62	27	1.35
4136280--4136396	27	4.2	28	81	10	98	8	5	60	25	1.46
4137627--4137929	18	16.5	18	74	7	155	41	17	26	14	1.88
4137629--4137792	24	6.8	24	75	15	151	40	18	25	15	1.90
4137625--4137887	42	6.4	42	75	7	245	41	17	26	14	1.89
4137625--4137929	12	25.4	12	68	5	125	41	17	25	15	1.88
4137625--4137906	24	12.2	24	75	12	141	41	17	25	14	1.88
4138090--4138206	54	2.2	54	93	0	198	17	5	51	24	1.68
4138138--4138303	90	1.8	90	89	5	264	15	6	49	28	1.70
4138277--4138312	9	4.0	9	88	0	54	11	0	63	25	1.27
4138228--4138366	63	2.2	63	92	2	226	17	4	51	26	1.63
4140858--4140942	42	2.0	43	95	2	154	38	8	7	45	1.61
4143187--4143249	13	4.8	13	80	7	74	31	6	25	36	1.81
4144392--4144470	24	3.4	24	81	13	94	39	6	1	53	1.35
4148631--4148683	27	2.0	27	96	0	97	22	9	33	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4148851--4148875	2	12.5	2	100	0	50	0	48	0	52	1.00
4151914--4151954	21	2.0	21	90	0	64	34	53	0	12	1.38
4151977--4152104	12	10.7	12	79	6	143	2	26	23	47	1.64
4152047--4152128	6	13.7	6	72	0	56	7	28	23	41	1.81
4152047--4152128	12	6.8	12	80	0	92	7	28	23	41	1.81
4152254--4152493	6	40.0	6	73	5	108	17	23	15	44	1.86
4152196--4152275	12	6.7	12	77	5	72	6	26	20	47	1.73
4152254--4152485	42	5.5	42	82	3	234	16	23	15	44	1.86
4152472--4153015	156	3.5	156	96	0	998	20	34	7	37	1.80
4152776--4152813	18	2.1	18	90	0	58	15	34	7	42	1.76
4152957--4153069	54	2.1	53	91	1	181	16	32	5	45	1.70
4153143--4153177	12	2.9	12	86	0	52	20	22	5	51	1.68
4152806--4153699	210	4.3	210	89	0	1338	20	33	6	39	1.78
4153174--4153279	54	2.0	54	92	0	176	16	33	6	42	1.75
4153384--4153489	54	2.0	54	88	0	158	17	33	5	42	1.73
4153596--4153753	54	2.9	54	91	0	244	18	36	4	41	1.71
4153386--4153903	264	2.0	258	89	2	793	20	35	6	38	1.77
4155784--4155874	45	2.0	45	100	0	182	28	15	5	50	1.66
4159454--4159488	16	2.1	17	89	5	54	45	2	11	40	1.55
4162916--4163219	43	7.1	43	88	3	371	28	30	17	24	1.97
4162916--4163223	129	2.4	129	87	3	433	28	29	16	25	1.97
4163429--4163466	19	2.0	19	90	10	60	57	2	7	31	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4163583--4163707	66	1.9	66	83	6	164	20	24	14	40	1.89
4163605--4163731	66	1.9	66	84	6	168	18	25	14	41	1.88
4165340--4165364	10	2.5	10	100	0	50	64	0	0	36	0.94
4169151--4169232	25	3.3	25	84	6	112	35	1	15	47	1.54
4169176--4169557	34	11.8	34	71	16	221	30	1	20	46	1.61
4169192--4169462	120	2.3	117	89	5	418	31	2	20	46	1.63
4169431--4169560	25	5.5	24	66	19	78	30	0	22	46	1.57
4169548--4169700	12	14.1	12	65	24	65	34	2	13	49	1.56
4169544--4169688	42	3.2	42	73	19	146	35	2	13	48	1.57
4169590--4169635	7	6.6	7	78	16	51	28	0	10	60	1.30
4169590--4169635	15	3.3	15	79	17	62	28	0	10	60	1.30
4169122--4169560	9	51.7	9	68	17	235	31	1	20	46	1.60
4169544--4169716	95	1.8	95	86	6	253	35	2	13	47	1.58
4169819--4169851	15	2.3	15	89	5	50	57	3	0	39	1.14
4169900--4169999	45	2.2	45	92	1	164	49	6	4	41	1.46
4169965--4169992	13	2.2	13	100	0	56	46	7	7	39	1.59
4169933--4170057	17	7.2	17	71	21	100	51	5	4	38	1.47
4170289--4170329	22	1.9	22	90	5	66	19	14	24	41	1.89
4170533--4170584	20	2.5	21	81	9	61	46	21	7	25	1.77
4172056--4172090	15	2.2	16	95	5	63	51	11	0	37	1.38
4172445--4172557	19	5.8	19	85	4	163	38	10	15	34	1.83
4172446--4172552	40	2.7	40	92	2	173	39	11	14	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4173169--4173212	23	1.9	23	100	0	88	27	6	4	61	1.41
4173847--4174043	98	2.0	98	94	0	349	27	10	24	37	1.88
4177831--4177976	41	3.6	41	91	0	220	23	29	19	27	1.98
4177826--4178025	82	2.4	82	82	8	221	24	28	19	29	1.98
4179677--4179705	14	2.0	15	93	6	51	55	20	0	24	1.44
4181931--4181993	25	2.5	25	78	2	72	39	19	17	23	1.92
4183800--4183866	9	7.4	9	86	6	100	25	8	22	43	1.82
4188846--4188891	14	3.3	14	79	14	51	45	4	0	50	1.21
4189081--4189170	24	3.4	24	68	21	72	43	17	2	36	1.62
4189096--4189184	28	3.2	28	71	23	96	42	21	1	34	1.60
4189070--4189184	56	2.1	56	100	0	230	43	19	1	35	1.61
4190905--4190954	24	2.1	24	84	0	64	40	34	8	18	1.79
4190946--4191160	66	3.3	66	93	1	342	22	46	5	25	1.73
4191033--4191280	120	2.1	120	86	1	336	23	43	6	25	1.77
4191099--4191214	54	2.1	54	81	6	128	25	40	6	28	1.79
4191153--4191791	66	9.4	66	83	8	737	24	44	5	25	1.75
4190967--4191760	186	4.0	187	73	15	686	24	45	5	25	1.75
4191155--4191782	348	1.8	343	86	5	905	24	45	5	25	1.75
4191728--4191991	90	3.1	90	87	6	363	26	40	3	29	1.72
4198198--4198283	39	2.2	39	100	0	172	25	44	6	23	1.78
4198238--4198764	66	8.0	66	87	2	747	24	45	6	24	1.76
4207121--4207415	146	2.0	146	87	1	421	40	25	7	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4208703--4208746	23	2.0	22	81	4	52	29	2	11	56	1.46
4212277--4212325	22	2.3	21	86	13	66	26	0	4	69	1.06
4212733--4212776	22	2.0	23	86	4	63	65	4	2	27	1.23
4213206--4213259	27	2.0	27	85	7	74	35	0	1	62	1.06
4213498--4213529	15	2.1	15	94	0	55	25	6	3	65	1.31
4216441--4216492	17	3.1	17	80	2	52	46	5	3	44	1.45
4216467--4216515	25	1.9	26	83	4	64	48	4	0	46	1.20
4216617--4216663	24	2.0	24	91	0	76	31	10	12	44	1.77
4220741--4220780	21	2.0	21	90	5	64	55	0	0	45	0.99
4223940--4224015	9	7.7	10	68	12	50	61	2	2	32	1.23

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