genome.fa.s23.2.7.7.80.10.50.1000.18.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: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   

This is table  18  of  218  ( 26060 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)
6232352--6232379	14	2.0	14	100	0	56	28	28	7	35	1.84
6233279--6233343	30	2.1	31	91	2	105	35	18	4	41	1.71
6245166--6245217	24	2.2	24	85	0	68	53	9	3	32	1.51
6250692--6250738	21	2.2	22	92	3	78	21	19	38	21	1.94
6260083--6260123	14	2.9	14	85	14	57	43	2	0	53	1.13
6265258--6265476	51	4.3	50	76	10	194	25	15	27	30	1.96
6265307--6265437	50	2.6	51	86	3	176	22	16	29	32	1.95
6269207--6269295	43	2.1	43	100	0	178	6	7	24	60	1.49
6280160--6280203	21	2.1	21	100	0	88	47	4	27	20	1.69
6286874--6286911	20	1.9	20	88	0	58	39	15	7	36	1.77
6289618--6289650	7	4.7	7	96	0	57	42	9	30	18	1.81
6289574--6289694	58	2.1	58	93	0	206	33	13	24	28	1.93
6289632--6289740	44	2.5	44	95	0	191	34	14	22	28	1.93
6294574--6294638	19	3.3	19	68	16	60	30	21	1	46	1.61
6294576--6294669	13	7.0	13	74	10	73	35	20	1	43	1.59
6294607--6294669	27	2.3	27	89	7	101	36	19	0	44	1.51
6294576--6294668	40	2.3	40	87	5	125	34	20	1	44	1.59
6299802--6299830	14	2.0	15	93	6	51	55	3	20	20	1.58
6306420--6306534	10	10.7	11	65	28	52	61	1	1	34	1.16
6306406--6306592	9	19.7	9	68	19	96	59	3	2	33	1.29
6306432--6306610	10	18.3	10	67	15	56	62	3	2	31	1.26
6306385--6306592	20	10.9	19	66	15	99	60	3	2	32	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6311658--6311837	98	1.8	98	93	0	315	38	25	8	26	1.85
6317771--6317832	30	2.1	31	82	11	76	38	0	9	51	1.35
6318428--6318481	20	2.8	20	77	8	58	25	1	3	68	1.16
6319131--6319197	30	2.3	29	79	5	71	50	7	2	38	1.46
6322241--6322281	21	2.0	21	85	0	55	63	7	0	29	1.21
6329198--6329249	16	3.2	16	97	0	95	26	0	34	38	1.57
6329426--6329467	15	2.7	16	82	14	52	52	2	0	45	1.13
6329432--6329475	16	2.6	17	79	20	56	52	0	0	47	1.00
6329333--6329803	156	3.0	156	94	0	789	43	3	6	47	1.45
6329602--6329636	18	2.0	17	88	5	52	54	0	0	45	0.99
6334026--6334065	16	2.5	16	100	0	80	27	17	7	47	1.74
6336456--6336492	18	2.1	18	100	0	74	27	5	45	21	1.73
6339833--6339905	11	6.9	11	73	20	57	58	0	1	39	1.06
6339819--6339885	31	2.2	31	81	5	82	62	0	1	35	1.04
6339867--6339924	10	6.0	10	78	15	68	65	1	0	32	1.03
6339837--6339921	17	5.0	17	67	24	54	61	1	1	36	1.12
6339868--6339922	17	3.0	17	81	10	56	65	1	0	32	1.03
6339921--6339946	11	2.4	11	100	0	52	46	7	7	38	1.61
6342113--6342138	13	2.0	13	100	0	52	76	0	7	15	0.99
6344529--6344595	26	2.6	25	79	9	64	31	13	20	34	1.92
6347408--6347457	23	2.1	25	85	7	68	26	4	16	54	1.59
6348798--6348863	15	4.5	14	69	10	51	37	3	1	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6351483--6351511	3	9.7	3	100	0	58	34	34	0	31	1.58
6354660--6354730	29	2.4	29	80	4	79	23	11	15	49	1.77
6356050--6356084	2	17.5	2	100	0	70	0	48	0	51	1.00
6361722--6361873	77	2.0	77	97	0	286	42	9	8	39	1.67
6362201--6362243	18	2.3	20	80	15	56	39	0	0	60	0.97
6362234--6362266	11	3.0	11	91	8	50	42	0	0	57	0.98
6362364--6362517	45	3.6	44	88	8	212	32	27	6	33	1.82
6362497--6362533	16	2.3	16	95	0	65	21	32	5	40	1.76
6368303--6368372	30	2.3	30	87	7	97	60	2	2	34	1.26
6375423--6375471	24	2.0	25	84	4	64	48	8	14	28	1.72
6376322--6376348	12	2.2	12	100	0	54	33	40	0	25	1.56
6380667--6380731	7	8.4	7	75	20	51	44	1	1	52	1.19
6380685--6380744	30	1.9	32	83	6	79	46	1	3	48	1.28
6380767--6380796	15	1.9	15	93	6	51	66	10	16	6	1.41
6380754--6380796	16	2.8	16	82	13	54	69	9	16	4	1.31
6380771--6380837	25	2.5	25	79	16	64	70	4	23	1	1.14
6384395--6384512	58	2.0	58	100	0	236	41	15	10	33	1.80
6387097--6387189	43	2.2	43	86	3	125	25	26	19	27	1.99
6387105--6387203	43	2.3	43	82	3	119	30	25	15	29	1.95
6396039--6396089	6	8.2	6	87	8	66	60	0	1	37	1.08
6396032--6396089	18	3.1	18	80	9	71	58	1	1	37	1.18
6400183--6400216	16	2.1	16	88	0	50	76	2	8	11	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6401474--6402032	280	2.0	279	93	1	967	30	18	9	41	1.82
6405360--6406909	774	2.0	774	99	0	3082	36	18	9	35	1.83
6410087--6410124	3	12.7	3	83	10	51	60	0	0	39	0.97
6410089--6410125	11	3.2	11	85	14	56	59	0	0	40	0.97
6410090--6410130	13	3.3	13	77	22	52	56	0	0	43	0.99
6410287--6410323	16	2.3	17	81	13	51	48	0	0	51	1.00
6414635--6414723	26	3.4	26	85	3	117	15	23	24	35	1.94
6414770--6414822	24	2.2	24	82	0	70	20	24	16	37	1.93
6414803--6414849	25	1.9	25	86	4	69	19	25	17	38	1.92
6414836--6414893	25	2.3	25	84	0	80	22	27	15	34	1.94
6420355--6420406	24	2.2	24	85	0	68	53	9	3	32	1.51
6422118--6422164	21	2.2	22	92	3	78	21	38	19	21	1.94
6431328--6431607	140	2.0	138	86	4	384	32	20	18	28	1.96
6453295--6453390	23	4.2	23	89	0	147	22	20	27	29	1.99
6453295--6453390	46	2.1	46	94	0	165	22	20	27	29	1.99
6455918--6455996	23	3.5	23	86	5	90	43	21	17	17	1.89
6455945--6456000	23	2.4	23	93	0	94	42	19	17	19	1.89
6456685--6456711	13	2.1	13	100	0	54	55	0	0	44	0.99
6456847--6456914	28	2.3	30	85	12	88	54	4	1	39	1.30
6477883--6477967	32	2.6	32	83	1	89	22	34	17	25	1.96
6477899--6477967	32	2.1	32	86	2	93	24	34	13	27	1.92
6482215--6482262	16	3.2	15	88	5	71	70	0	2	27	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6482237--6482262	13	2.0	13	100	0	52	69	0	0	30	0.89
6482215--6482262	3	16.0	3	79	16	55	70	0	2	27	0.98
6485255--6485305	19	2.7	18	77	19	59	62	7	1	27	1.33
6485321--6485360	16	2.5	16	88	8	55	60	5	7	27	1.45
6485354--6485395	19	2.2	20	86	4	59	61	7	2	28	1.35
6485429--6485511	20	4.2	20	75	9	71	28	2	3	65	1.22
6485429--6485472	21	2.1	21	87	4	63	20	4	4	70	1.23
6485536--6485581	18	2.5	19	85	3	67	23	0	6	69	1.11
6486065--6486105	19	2.2	18	86	4	55	43	2	4	48	1.37
6494521--6494712	57	3.5	56	73	13	168	35	11	26	26	1.91
6494484--6494764	108	2.6	108	82	4	338	34	11	27	26	1.91
6497257--6497351	43	2.2	43	96	0	172	20	31	30	17	1.96
6499814--6499860	21	2.2	21	100	0	94	68	8	4	19	1.33
6500298--6500450	10	15.6	10	67	18	65	63	3	1	32	1.19
6500377--6500451	30	2.5	30	82	8	89	65	2	2	29	1.20
6500359--6500460	50	2.0	50	83	7	127	62	2	2	31	1.25
6500319--6500439	19	6.3	19	72	15	61	62	2	1	33	1.18
6500332--6500451	41	3.1	37	70	17	93	63	2	1	32	1.18
6500423--6500460	20	1.9	20	89	10	60	65	5	2	26	1.27
6500725--6500801	9	8.4	9	69	13	50	27	1	3	67	1.16
6515049--6515105	18	3.2	18	87	0	87	33	17	22	26	1.96
6523492--6523534	22	1.9	23	85	4	61	74	9	6	9	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6526848--6526913	30	2.2	30	97	0	123	22	25	19	31	1.98
6530262--6530300	18	2.3	18	86	8	55	43	12	5	38	1.65
6530457--6530487	15	2.1	15	100	0	62	22	32	6	38	1.80
6533846--6533875	15	2.0	15	93	0	51	23	46	6	23	1.75
6534617--6534655	18	2.3	18	86	8	55	43	12	5	38	1.65
6534812--6534842	15	2.1	15	100	0	62	22	32	6	38	1.80
6540522--6540553	2	16.0	2	100	0	64	50	0	0	50	1.00
6548325--6548364	19	2.1	19	85	0	53	65	0	0	35	0.93
6549011--6549071	20	3.0	20	90	0	95	9	45	14	29	1.77
6549210--6549330	60	2.0	61	90	1	190	33	0	9	56	1.38

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