genome.fa.s19.2.7.7.80.10.50.1000.11.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_D06
Parameters: 2 7 7 80 10 50 1000
Length:  62964862

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   

This is table  11  of  207  ( 24831 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)
3732864--3733006	63	2.3	63	89	4	200	39	13	13	32	1.85
3732886--3733014	63	2.0	63	98	0	249	39	13	13	32	1.85
3736311--3736355	25	1.9	23	86	13	65	46	6	0	46	1.29
3738481--3738513	13	2.5	14	90	9	52	48	0	0	51	1.00
3739882--3739927	23	2.0	23	100	0	92	34	4	26	34	1.76
3742888--3742928	17	2.3	18	80	12	50	31	17	2	48	1.60
3745193--3745247	11	5.1	11	72	12	51	65	3	0	30	1.10
3745195--3745289	32	2.9	32	77	12	97	56	7	0	35	1.27
3747228--3747273	23	2.0	24	95	4	85	4	4	15	76	1.11
3747236--3747285	22	2.3	22	83	10	59	8	6	18	68	1.36
3750100--3750138	14	2.6	14	84	8	51	66	5	0	28	1.12
3757535--3757585	26	1.9	27	96	4	95	43	0	0	56	0.99
3764349--3764373	5	5.0	5	100	0	50	40	0	0	60	0.97
3765246--3765270	13	1.9	13	100	0	50	88	0	12	0	0.53
3777297--3777346	24	2.1	24	100	0	100	40	4	12	44	1.60
3782127--3782168	21	2.0	21	81	9	50	69	4	2	23	1.20
3782641--3782679	17	2.3	17	86	8	53	66	5	2	25	1.25
3782761--3782794	17	2.0	17	88	0	50	58	0	0	41	0.98
3782871--3782912	14	3.0	14	76	13	50	38	0	7	54	1.28
3792679--3793119	243	1.8	243	91	1	731	36	18	17	27	1.93
3804938--3805138	100	2.0	100	95	0	357	17	24	29	27	1.98
3806373--3806434	26	2.4	26	80	0	70	37	14	22	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3812293--3812363	19	3.8	18	74	20	58	35	0	7	57	1.26
3812313--3812354	21	2.1	20	91	8	68	33	0	2	64	1.07
3812319--3812361	21	2.2	19	91	8	68	32	0	4	62	1.15
3812446--3812485	9	4.4	9	83	0	53	32	7	10	50	1.64
3813942--3813984	18	2.2	20	88	8	63	25	0	6	67	1.15
3818556--3819802	358	3.6	336	81	9	1140	37	16	12	33	1.86
3818798--3819943	358	3.2	363	86	4	1482	38	15	12	34	1.85
3822080--3822115	16	2.2	17	90	5	56	0	16	0	83	0.65
3822080--3822127	16	3.1	16	76	14	55	2	18	0	79	0.84
3822081--3822133	15	3.5	15	79	7	54	3	20	0	75	0.96
3824019--3824060	18	2.4	18	80	4	50	38	2	21	38	1.67
3828142--3828190	21	2.3	22	80	13	59	42	4	0	53	1.20
3831796--3831860	20	3.2	20	76	8	60	32	3	3	61	1.27
3840879--3841132	127	2.0	127	93	2	438	38	9	12	38	1.76
3845867--3845909	20	2.2	20	83	8	52	34	0	6	58	1.25
3854267--3854539	142	1.9	142	99	0	537	23	19	17	39	1.92
3857451--3857532	31	2.7	31	86	5	114	28	4	15	51	1.64
3857908--3858000	30	3.1	28	76	11	78	25	4	2	67	1.20
3858013--3858096	10	8.9	9	72	12	53	33	1	8	57	1.36
3858013--3858076	19	3.4	18	77	12	58	35	0	6	57	1.24
3861345--3861440	31	2.9	34	76	20	94	62	4	0	33	1.14
3870338--3870388	23	2.3	22	79	3	57	41	3	5	49	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3876018--3876058	17	2.6	16	75	24	50	36	2	0	60	1.10
3878921--3878974	16	3.4	16	92	0	90	35	1	35	27	1.68
3879188--3879229	15	2.7	16	82	14	52	52	2	0	45	1.13
3879197--3879238	15	2.9	15	82	10	52	52	0	0	47	1.00
3879191--3879625	120	3.6	120	96	0	789	49	5	1	43	1.36
3879307--3879358	15	3.6	15	80	12	56	53	1	0	44	1.11
3886967--3887064	34	2.8	33	83	7	115	42	19	8	29	1.80
3887232--3887322	41	2.2	41	90	2	137	24	28	19	27	1.99
3889435--3889499	21	3.1	21	67	8	60	18	18	13	49	1.80
3889399--3889516	42	2.8	42	85	2	148	17	20	13	48	1.81
3889435--3889556	42	2.9	42	86	0	154	18	18	15	47	1.83
3889447--3889553	21	5.1	21	69	4	81	15	19	15	48	1.81
3890442--3890480	21	1.9	20	89	5	60	41	2	10	46	1.51
3891099--3891452	42	8.4	42	86	3	419	33	20	19	25	1.97
3891873--3891912	12	3.3	12	92	0	53	2	37	17	42	1.63
3891897--3891959	21	3.0	21	88	0	90	4	44	17	33	1.70
3894569--3894711	40	3.3	41	67	22	112	48	3	5	41	1.43
3894278--3894740	92	5.0	92	97	1	885	48	4	6	40	1.50
3895178--3895216	15	2.7	14	80	7	51	41	20	5	33	1.74
3896726--3896770	23	2.0	23	86	8	65	40	6	6	46	1.56
3897796--3897840	23	2.0	23	86	8	65	40	6	6	46	1.56
3905510--3905583	34	2.1	35	82	7	89	50	0	4	45	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3915102--3915152	24	2.1	23	82	10	57	19	37	5	37	1.76
3927798--3927871	35	2.1	35	87	0	103	48	4	4	43	1.40
3946828--3946880	5	10.4	5	82	11	63	35	16	24	22	1.95
3946828--3946879	26	2.0	26	85	7	70	36	15	25	23	1.93
3947253--3947300	19	2.6	19	78	18	57	60	0	2	37	1.09
3954631--3954670	19	2.0	20	85	4	55	25	20	7	47	1.75
3960019--3960933	44	20.8	44	67	12	295	29	18	24	28	1.98
3958890--3960948	529	3.9	529	94	1	3369	29	18	24	27	1.98
3958853--3960977	132	16.1	132	90	1	3251	29	18	24	28	1.98
3960969--3961064	43	2.2	44	90	1	149	35	11	23	29	1.90
3962581--3962614	17	1.9	18	88	5	52	20	2	2	73	1.09
3962620--3962679	3	19.7	3	76	10	50	28	3	1	66	1.17
3962620--3962682	21	3.1	21	75	11	69	28	3	1	66	1.16
3962620--3962683	9	6.8	9	76	13	58	28	3	1	67	1.15
3975944--3976004	29	2.1	28	84	3	77	24	14	18	42	1.88
3998959--3998994	3	12.0	3	87	0	54	66	0	2	30	1.06
3999089--3999142	23	2.4	23	84	6	67	57	7	3	31	1.44
3999092--3999153	3	20.0	3	73	6	52	58	6	3	32	1.40
3999720--3999758	10	3.8	10	96	3	69	10	2	0	87	0.65
3999722--3999758	11	3.5	11	92	3	58	8	2	0	89	0.58
4000771--4001002	42	5.6	42	73	8	179	23	21	24	31	1.98
4000740--4001006	82	3.3	82	89	0	399	23	19	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4001096--4001421	72	4.5	73	96	0	586	33	18	16	31	1.93
4001096--4001421	145	2.3	145	95	1	584	33	18	16	31	1.93
4001282--4001583	160	1.9	160	84	1	408	35	20	16	27	1.94
4001840--4001951	59	1.9	58	87	3	163	33	25	16	25	1.96
4001917--4002181	79	3.5	74	85	7	338	31	20	15	32	1.94
4002151--4002282	53	2.5	54	86	6	180	38	18	14	28	1.90
4002322--4003165	73	11.6	73	87	4	979	33	19	16	29	1.94
4002254--4003176	145	6.4	144	90	3	1051	34	19	16	29	1.94
4002322--4003165	218	3.9	216	86	5	1029	33	19	16	29	1.94
4005347--4005413	10	6.9	10	73	11	50	0	10	5	83	0.80
4005346--4005413	26	2.6	26	86	9	86	0	10	5	83	0.79
4005373--4005413	11	3.8	11	87	12	59	0	9	4	85	0.73
4006171--4006202	15	2.1	15	100	0	64	56	9	6	28	1.55
4010034--4010087	23	2.5	22	84	6	65	57	7	3	31	1.44
4010037--4010098	3	20.0	3	73	6	52	58	6	3	32	1.40
4010669--4010704	10	3.6	10	96	0	63	8	2	0	88	0.59
4014649--4014766	57	2.1	57	98	0	227	40	12	18	27	1.87
4015079--4015178	29	3.4	29	79	8	123	61	0	2	37	1.08
4015094--4015202	56	1.9	56	85	3	148	64	0	1	33	1.05
4015128--4015237	40	2.8	40	91	4	170	60	0	2	37	1.11
4026507--4026550	20	2.1	21	83	4	54	27	4	6	61	1.41
4032580--4032623	21	2.1	21	100	0	88	45	13	9	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4038345--4038390	17	2.7	17	82	0	56	39	0	0	60	0.97
4041576--4041683	43	2.5	43	83	4	130	43	22	15	18	1.87
4041576--4041703	43	3.0	43	80	7	111	45	20	15	18	1.86
4041814--4041948	49	2.8	49	93	5	229	27	13	14	45	1.82
4046557--4046606	20	2.5	20	83	0	55	10	18	24	48	1.78
4048241--4048311	27	2.8	25	81	8	74	30	25	0	43	1.55
4048242--4048314	23	2.9	25	80	10	69	32	26	0	41	1.56
4048455--4048501	3	16.0	3	77	4	51	59	4	0	36	1.17
4048455--4048501	12	4.0	12	86	5	60	59	4	0	36	1.17
4049099--4049141	21	2.0	21	81	0	50	58	6	0	34	1.25

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