genome.fa.s25.2.7.7.80.10.50.1000.129.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  129  of  196  ( 23409 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)
38640552--38640600	15	2.9	17	77	20	50	20	6	2	71	1.18
38653965--38654007	16	2.6	16	81	3	50	20	32	32	13	1.92
38654226--38654270	18	2.6	18	82	3	56	22	0	31	46	1.52
38655545--38655609	27	2.4	26	77	7	76	35	1	0	63	1.04
38655555--38655609	28	2.0	27	89	3	83	29	1	0	69	0.99
38656898--38656922	6	4.2	6	100	0	50	68	0	16	16	1.22
38659649--38659700	3	17.3	3	100	0	104	32	0	0	67	0.91
38659855--38659901	21	2.2	21	81	7	60	29	6	8	55	1.55
38660609--38660672	31	2.1	31	82	11	78	42	18	0	39	1.51
38661787--38661828	17	2.5	17	88	3	59	30	9	0	59	1.29
38662147--38662183	18	2.1	18	94	0	65	27	13	0	59	1.35
38665163--38665318	57	2.7	57	87	5	226	28	12	10	47	1.76
38667046--38667411	182	2.0	182	97	0	696	30	26	20	22	1.98
38668749--38668797	23	2.1	22	82	14	55	26	4	16	53	1.61
38668895--38668922	3	9.3	3	100	0	56	0	0	32	67	0.91
38669064--38669092	13	2.2	13	100	0	58	31	0	0	68	0.89
38670702--38670753	27	1.9	27	85	14	72	23	40	1	34	1.66
38682467--38682533	12	5.6	12	74	15	59	13	23	0	62	1.30
38691230--38691276	13	3.2	15	73	14	53	48	0	0	51	1.00
38691286--38691331	13	3.5	13	82	14	58	47	0	0	52	1.00
38696094--38696156	32	1.9	33	84	9	85	55	6	17	20	1.63
38696277--38696314	3	12.7	3	100	0	76	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38702491--38702536	22	2.1	22	83	0	56	15	10	13	60	1.58
38702502--38702544	22	2.0	22	90	0	68	20	9	9	60	1.55
38715867--38715929	31	2.0	31	90	0	99	36	6	7	49	1.58
38716343--38716415	28	2.6	28	95	0	128	35	2	6	54	1.41
38722884--38722923	19	2.1	19	86	9	55	10	17	0	72	1.11
38722929--38722969	8	5.0	8	94	5	73	60	0	0	39	0.96
38724453--38724498	23	2.0	23	86	0	65	26	8	26	39	1.85
38724619--38724718	43	2.3	43	84	3	121	42	27	13	18	1.86
38729662--38729720	28	2.1	28	84	6	75	33	25	20	20	1.97
38729669--38729728	28	2.1	28	84	6	77	35	23	21	20	1.96
38730110--38730371	81	3.2	81	81	5	296	22	19	16	41	1.89
38730110--38730401	54	5.4	54	79	2	293	21	19	16	42	1.89
38730066--38730401	27	12.5	27	76	2	255	21	19	16	42	1.89
38735602--38735637	18	2.1	18	89	5	56	16	25	11	47	1.79
38736408--38736518	28	4.0	28	87	0	150	31	25	22	20	1.98
38736835--38737099	27	9.8	26	76	11	160	21	18	19	40	1.92
38736849--38737099	54	4.6	54	82	3	290	21	19	18	41	1.91
38736849--38737099	81	3.1	81	82	5	292	21	19	18	41	1.91
38736892--38737100	109	1.9	109	93	1	357	20	18	19	41	1.91
38740306--38740345	3	13.3	3	100	0	80	67	0	0	32	0.91
38744919--38744960	21	2.0	20	86	4	57	14	11	23	50	1.76
38749745--38749788	21	2.1	21	86	0	61	47	4	6	40	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38749844--38749909	28	2.3	29	76	7	73	54	1	9	34	1.41
38749843--38749977	58	2.3	59	75	16	131	53	2	10	34	1.47
38751785--38752132	132	2.6	132	92	0	588	28	25	17	28	1.98
38751872--38752077	44	4.7	44	66	13	111	29	25	17	27	1.97
38752178--38752618	89	5.0	89	91	0	695	27	24	17	30	1.98
38752709--38752912	44	4.6	44	68	11	148	27	24	18	29	1.98
38752639--38752968	132	2.5	132	94	0	597	27	23	19	29	1.98
38753201--38753385	44	4.2	44	67	10	144	28	23	20	28	1.99
38753100--38753439	132	2.6	132	96	0	617	27	24	20	28	1.99
38753221--38753413	44	4.4	44	68	12	137	26	25	18	29	1.98
38752561--38753525	473	2.0	473	94	0	1716	27	24	20	28	1.99
38754595--38754635	14	3.0	13	89	7	55	14	19	0	65	1.26
38754595--38754638	21	2.1	21	91	0	70	15	20	0	63	1.31
38754605--38754638	7	4.9	7	86	13	52	14	17	0	67	1.23
38755559--38755602	18	2.4	18	88	0	61	61	6	18	13	1.54
38757417--38757456	19	2.0	20	85	4	55	47	7	20	25	1.75
38757489--38757514	13	2.0	13	100	0	52	46	15	7	30	1.74
38759275--38759318	21	2.1	21	82	0	52	45	4	6	43	1.51
38759717--38759769	25	2.1	26	83	13	67	50	3	7	37	1.49
38760643--38760896	44	5.8	44	71	9	189	30	24	16	28	1.97
38760891--38761481	128	4.6	128	89	1	923	24	24	20	30	1.99
38762724--38762757	7	5.0	7	85	7	52	17	14	0	67	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38762725--38762749	13	1.9	13	100	0	50	20	16	0	64	1.30
38763678--38763710	15	2.2	15	94	0	57	0	15	0	84	0.61
38768685--38768710	11	2.4	11	100	0	52	84	0	7	7	0.77
38768678--38768714	18	2.1	18	90	10	58	83	0	8	8	0.80
38778687--38778717	12	2.6	12	94	0	53	6	9	9	74	1.23
38780664--38780789	32	4.1	32	77	10	104	34	11	5	47	1.64
38781164--38781216	13	4.1	13	72	0	52	37	5	20	35	1.77
38782932--38783119	82	2.4	78	93	3	313	32	17	12	37	1.86
38783999--38784038	18	2.2	18	100	0	80	52	0	27	20	1.46
38789648--38789677	7	4.3	7	95	0	51	43	0	10	46	1.37
38789883--38789931	21	2.3	20	86	6	62	28	0	14	57	1.38
38791397--38791434	19	2.0	19	94	0	67	15	21	28	34	1.94
38791786--38791811	8	3.2	8	100	0	52	50	0	11	38	1.39
38798713--38798777	25	2.7	24	76	4	67	20	26	18	35	1.95
38798885--38798957	27	2.8	25	80	8	83	15	21	24	38	1.92
38799018--38799065	25	1.9	25	82	0	60	18	27	16	37	1.92
38801254--38801343	47	1.9	46	86	6	128	16	10	18	54	1.69
38805105--38805142	18	2.1	18	95	0	67	5	23	2	68	1.23
38805105--38805152	18	2.7	18	87	3	53	4	25	6	64	1.35
38805736--38806681	138	7.0	135	77	9	630	29	20	18	31	1.96
38805778--38806621	44	18.7	44	74	10	521	30	20	18	30	1.96
38806451--38806676	92	2.4	93	81	7	264	30	20	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38815075--38815115	19	2.1	20	95	4	75	51	0	0	48	1.00
38815189--38815383	101	1.9	101	86	2	275	30	14	24	30	1.94
38815189--38815414	101	2.2	101	83	1	256	30	14	24	29	1.95
38819589--38819635	19	2.4	20	86	10	62	42	4	21	31	1.72
38823457--38823481	13	1.9	13	100	0	50	84	0	0	16	0.63
38824632--38824669	18	2.1	18	95	0	67	5	18	5	71	1.25
38824650--38824709	24	2.5	25	76	15	63	1	16	8	73	1.16
38825589--38825626	20	1.9	20	88	0	58	65	13	0	21	1.26
38826655--38826695	21	2.0	21	95	0	73	39	4	21	34	1.75
38830179--38830205	5	5.4	5	100	0	54	22	0	0	77	0.76
38830312--38830343	8	4.0	8	91	0	55	15	0	0	84	0.63
38831800--38831855	25	2.2	24	78	9	58	17	30	17	33	1.94
38837918--38837964	22	2.2	21	88	11	69	65	8	4	21	1.37
38838798--38838931	25	5.3	25	69	23	75	20	24	20	33	1.97
38838924--38838980	24	2.4	24	75	0	60	17	26	19	36	1.94
38845258--38845352	25	3.9	24	73	14	70	20	24	20	35	1.95
38846380--38846405	11	2.4	11	100	0	52	0	23	38	38	1.55
38849648--38850316	27	24.9	26	79	7	483	42	19	17	19	1.89
38849649--38850316	81	8.3	80	81	5	633	42	19	17	19	1.89
38849649--38850316	54	12.4	53	79	9	581	42	19	17	19	1.89
38850658--38850747	28	3.1	28	89	6	144	25	25	21	27	1.99
38851028--38851096	32	2.2	32	91	0	111	40	7	18	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38853649--38853690	21	2.0	20	86	4	57	26	33	16	23	1.96
38856669--38856707	10	3.8	11	83	16	57	46	0	7	46	1.31
38856669--38856708	20	2.1	19	95	4	71	47	0	7	45	1.31
38860034--38860085	24	2.2	24	85	0	68	53	9	3	32	1.51
38863976--38864023	23	2.1	23	88	0	69	25	29	20	25	1.99
38866555--38866598	16	2.9	14	78	15	52	52	0	4	43	1.22
38869593--38869671	32	2.5	32	85	0	113	31	21	15	31	1.94
38869841--38869896	28	2.0	28	82	10	69	55	5	0	39	1.23
38869838--38869914	41	1.9	41	84	5	104	54	5	0	40	1.23
38870698--38870787	45	2.0	46	91	2	146	40	8	8	42	1.67

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