genome.fa.s23.2.7.7.80.10.50.1000.10.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   

This is table  10  of  228  ( 27298 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)
3603873--3603935	20	3.3	18	81	14	65	65	1	1	31	1.12
3616290--3616356	33	2.0	33	91	5	109	8	25	22	43	1.82
3619530--3619564	17	2.1	17	94	5	63	40	0	5	54	1.24
3623258--3623307	17	2.7	20	78	18	70	10	0	44	46	1.37
3627897--3627946	17	2.7	20	78	18	70	10	0	44	46	1.37
3643535--3643600	30	2.2	31	81	5	73	50	7	1	40	1.40
3643590--3643649	18	3.3	18	79	11	68	41	0	0	58	0.98
3643612--3643659	18	2.9	16	76	11	51	37	0	2	60	1.09
3644227--3644260	17	2.0	17	94	0	59	44	50	0	5	1.26
3648866--3648899	17	2.0	17	94	0	59	44	50	0	5	1.26
3654932--3654978	20	2.3	21	85	7	62	72	4	6	17	1.22
3656977--3657024	23	2.2	22	85	7	62	39	2	10	47	1.49
3659772--3659841	33	2.2	32	82	5	79	22	11	10	55	1.65
3661111--3661141	15	2.1	15	93	0	53	35	9	6	48	1.62
3668876--3668935	27	2.2	27	78	0	66	70	0	1	28	0.97
3668890--3668933	21	2.2	20	91	4	70	77	0	0	22	0.77
3669390--3669421	14	2.3	14	94	0	55	50	9	21	18	1.75
3669904--3669944	21	2.0	20	90	4	64	34	21	21	21	1.97
3673123--3673185	29	2.2	28	82	5	72	25	12	14	47	1.79
3673433--3673474	13	3.3	13	78	18	52	59	0	2	38	1.10
3674904--3674962	29	2.0	30	86	3	84	28	6	15	49	1.70
3679068--3679135	16	4.2	16	94	0	118	27	0	36	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3679116--3679206	45	2.0	44	85	2	119	30	5	28	35	1.80
3679338--3679379	15	2.7	16	82	14	52	52	2	0	45	1.13
3679347--3679388	15	2.9	15	82	10	52	52	0	0	47	1.00
3679373--3679560	61	3.1	61	70	14	208	48	7	1	42	1.40
3679341--3679570	120	1.9	120	100	0	460	49	6	1	41	1.40
3679457--3679508	15	3.6	15	80	12	56	53	1	0	44	1.11
3679376--3679559	59	3.1	59	67	22	175	48	7	1	41	1.41
3684111--3684183	18	4.6	16	72	17	64	42	13	13	30	1.83
3684111--3684193	17	5.2	17	74	20	81	42	12	13	32	1.81
3684235--3684307	18	3.9	18	75	15	58	46	8	13	31	1.73
3684243--3684302	19	3.1	19	75	15	59	51	8	11	28	1.67
3684379--3684437	18	3.5	17	72	19	52	47	6	11	33	1.67
3685337--3685405	21	3.4	19	80	11	75	1	13	10	75	1.11
3685337--3685388	21	2.4	21	90	3	77	0	13	9	76	1.01
3685794--3685950	59	2.7	59	78	4	174	38	3	24	33	1.74
3685794--3685950	29	5.3	29	82	2	152	38	3	24	33	1.74
3687009--3687076	29	2.3	31	82	5	86	17	17	13	51	1.76
3687824--3687849	3	8.7	3	100	0	52	0	34	0	65	0.93
3711167--3711198	13	2.5	13	94	0	55	56	0	0	43	0.99
3716970--3717017	25	2.0	24	91	4	78	52	14	25	8	1.69
3718760--3718826	27	2.5	28	80	7	84	56	0	1	41	1.08
3721522--3721555	17	2.0	17	94	0	59	44	50	0	5	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3726162--3726195	17	2.0	17	94	0	59	44	50	0	5	1.26
3727465--3727504	15	2.7	14	85	11	53	0	2	17	80	0.83
3734417--3734475	28	2.1	28	81	9	66	54	0	3	42	1.17
3740170--3740198	6	4.8	6	100	0	58	0	0	13	86	0.58
3741356--3741474	43	2.8	42	89	7	177	26	27	16	28	1.97
3741820--3741955	66	2.1	66	91	2	220	14	27	17	40	1.89
3747316--3747805	9	54.0	9	78	5	495	31	2	17	47	1.63
3747330--3747419	37	2.5	36	88	1	126	33	3	17	45	1.65
3747859--3747928	12	6.0	12	80	6	81	31	2	17	48	1.61
3748021--3748077	9	6.7	9	76	9	57	43	1	12	42	1.52
3748023--3748054	16	2.0	16	93	0	55	40	0	12	46	1.42
3748206--3748263	29	2.0	29	100	0	116	41	3	24	31	1.71
3752372--3752412	22	1.9	21	85	14	57	56	24	0	19	1.42
3752429--3752503	23	3.2	23	72	10	71	50	21	1	26	1.56
3752439--3752514	23	3.3	23	73	23	77	48	21	1	28	1.58
3752956--3753140	41	4.5	41	91	2	300	38	28	17	15	1.90
3760449--3760492	21	2.1	21	91	0	70	70	2	0	27	0.99
3760452--3760492	16	2.7	15	81	7	55	70	2	0	26	0.99
3760584--3760624	3	13.7	3	89	0	64	0	39	0	60	0.96
3780570--3780727	78	2.0	78	96	0	289	36	19	12	31	1.89
3792122--3792197	34	2.3	33	88	4	109	31	5	9	53	1.55
3792173--3792309	47	2.9	47	95	0	238	31	8	11	48	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3792233--3792262	14	2.1	15	93	6	53	43	0	13	43	1.43
3792281--3792309	14	2.0	15	93	6	51	44	0	13	41	1.44
3792809--3792850	14	3.0	14	76	10	50	69	0	0	30	0.89
3814396--3814434	21	1.9	20	84	5	51	25	7	7	58	1.52
3815956--3815986	16	1.9	16	100	0	62	51	29	6	12	1.65
3820491--3820583	18	5.2	18	90	0	141	29	25	15	30	1.95
3820497--3820583	36	2.4	36	98	0	165	29	25	13	31	1.94
3826528--3826574	4	11.8	4	100	0	94	51	23	0	25	1.49
3831407--3831503	51	1.9	51	82	4	124	28	11	9	50	1.69
3836979--3837019	17	2.3	17	83	8	55	17	7	4	70	1.28
3839801--3839830	15	2.1	15	93	6	53	70	0	0	30	0.88
3841828--3841949	56	2.2	55	82	7	138	33	13	20	31	1.92
3842002--3842028	11	2.5	11	100	0	54	62	0	0	37	0.95
3842426--3842534	47	2.3	46	84	4	130	20	17	4	57	1.57
3842477--3842685	84	2.5	84	84	3	249	23	18	3	53	1.61
3843446--3843479	17	2.0	17	100	0	68	41	17	5	35	1.74
3844035--3844273	43	5.6	43	85	1	302	29	31	17	21	1.96
3844035--3844273	85	2.8	85	87	0	334	29	31	17	21	1.96
3846579--3846603	13	1.9	13	100	0	50	32	4	24	40	1.73
3847603--3847926	63	5.0	63	68	20	179	39	4	13	42	1.64
3847578--3847986	201	2.1	196	92	4	671	38	4	15	41	1.68
3848322--3848495	41	4.2	41	87	1	224	27	16	22	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3848488--3848584	41	2.4	41	89	0	149	30	21	25	21	1.98
3852137--3852279	36	3.8	37	81	15	147	34	2	15	46	1.60
3852157--3852279	36	3.4	38	87	8	186	34	1	16	47	1.56
3852157--3852278	9	13.6	9	64	13	54	34	1	16	47	1.56
3854355--3854399	23	2.0	23	100	0	90	42	8	22	26	1.83
3868568--3868630	28	2.3	27	91	5	108	33	19	11	36	1.87
3870631--3870660	13	2.3	13	94	0	51	53	26	13	6	1.64
3871003--3871038	19	1.9	18	88	5	54	63	2	13	19	1.41
3871337--3871378	11	3.8	11	87	0	57	61	11	16	9	1.55
3874844--3874872	12	2.5	12	94	5	51	37	6	0	55	1.27
3880242--3880290	22	2.2	21	82	13	55	24	6	8	61	1.47
3911446--3911479	14	2.5	14	95	4	61	14	0	35	50	1.44
3911783--3911833	15	3.5	15	69	15	52	52	15	9	21	1.71
3913291--3913398	15	7.2	15	67	12	78	44	7	22	25	1.79
3913285--3913408	30	4.1	30	93	1	203	43	6	24	25	1.78
3917829--3917936	15	7.2	15	65	12	60	45	7	20	26	1.77
3917823--3917946	30	4.1	30	89	1	185	44	6	22	26	1.77
3921011--3921042	12	2.8	12	86	13	50	56	0	15	28	1.40
3924782--3924826	23	2.0	22	83	12	56	40	2	4	53	1.33
3926861--3926936	25	3.0	26	82	7	102	27	17	18	36	1.93
3929137--3929183	15	2.9	16	84	12	60	40	19	14	25	1.90
3935350--3935407	24	2.4	24	76	0	62	60	5	1	32	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3935345--3935420	37	2.1	37	85	11	104	61	5	2	30	1.31
3937151--3937204	28	1.9	28	85	7	74	5	25	1	66	1.23
3937833--3937875	22	2.0	22	81	9	52	34	0	2	62	1.08
3947810--3948010	106	1.9	106	97	0	384	31	18	19	30	1.96
3948471--3948576	37	2.8	38	77	16	105	50	0	13	35	1.41
3948855--3948911	22	2.6	23	78	18	75	64	3	7	24	1.34
3949622--3949646	13	1.9	13	100	0	50	68	0	8	24	1.16
3954297--3954467	85	2.0	85	100	0	342	38	26	9	25	1.86
3955434--3955467	16	2.1	16	100	0	68	41	0	17	41	1.50
3959273--3959959	45	15.3	45	84	8	891	29	23	17	29	1.97

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