genome.fa.s25.2.7.7.80.10.50.1000.113.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  113  of  214  ( 25680 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)
34413728--34413800	34	2.1	34	80	9	78	36	5	2	54	1.38
34413972--34413996	4	6.2	4	100	0	50	76	0	24	0	0.80
34419123--34419174	25	2.1	25	96	0	95	28	15	15	40	1.88
34421368--34421581	85	2.5	85	95	0	376	33	25	18	22	1.97
34421368--34421579	43	5.0	43	81	7	272	33	25	18	22	1.97
34421591--34421882	51	5.8	51	76	10	294	31	27	17	23	1.97
34421589--34421874	101	2.8	101	93	1	475	31	27	17	23	1.97
34421585--34421907	152	2.1	151	79	7	343	30	28	16	24	1.96
34438707--34438736	14	2.1	15	93	6	53	63	0	0	36	0.95
34441901--34441968	22	3.1	22	87	2	93	30	4	45	19	1.70
34442864--34442930	14	4.7	15	72	17	54	38	38	1	20	1.62
34442939--34442967	15	1.9	15	100	0	58	44	34	0	20	1.52
34445907--34446069	61	2.7	58	72	9	159	41	0	3	53	1.23
34446013--34446098	28	3.1	28	75	13	79	40	0	1	58	1.06
34446212--34446305	44	2.1	44	88	4	134	35	28	6	29	1.82
34446287--34446322	16	2.2	16	95	0	63	25	33	2	38	1.70
34446527--34446615	35	2.5	36	81	3	126	31	40	2	25	1.68
34446566--34446624	28	2.1	28	87	0	82	35	40	0	23	1.55
34446550--34446603	21	2.6	21	85	5	74	31	40	1	25	1.66
34446575--34446638	14	4.6	14	77	9	51	37	39	0	23	1.55
34446595--34446675	21	3.8	21	69	11	58	39	35	0	24	1.56
34446622--34446668	15	3.3	15	85	5	62	40	31	0	27	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34446858--34446907	14	3.5	14	79	15	57	32	42	2	24	1.66
34446858--34446913	29	2.0	28	82	3	67	32	42	1	23	1.64
34446915--34446964	14	3.5	15	76	13	52	38	34	0	28	1.57
34447175--34447229	25	2.2	26	84	9	71	21	7	7	63	1.44
34447314--34447672	123	2.9	122	83	5	447	31	27	16	23	1.96
34447314--34447679	41	8.9	41	81	2	385	31	28	17	22	1.96
34447833--34447859	12	2.2	12	100	0	54	37	22	25	14	1.93
34461703--34462050	122	2.8	124	92	1	585	28	15	22	33	1.95
34465140--34465249	53	2.1	53	100	0	220	49	12	7	30	1.68
34465295--34465468	35	5.1	35	71	25	149	28	0	26	45	1.54
34465324--34465583	29	10.0	27	72	19	141	30	0	23	46	1.53
34465295--34465382	29	2.8	29	88	10	113	26	0	29	44	1.55
34465403--34465484	29	2.8	29	94	0	146	26	0	24	48	1.51
34465332--34465464	71	1.9	71	90	3	214	30	0	23	46	1.52
34465432--34465565	72	1.9	72	90	3	216	30	0	23	46	1.53
34465286--34465719	101	4.2	101	94	2	744	31	0	22	45	1.52
34465504--34465586	29	2.9	28	94	5	148	28	0	22	48	1.51
34465403--34465684	130	2.2	130	83	5	347	31	0	21	46	1.52
34465609--34465684	29	2.6	29	95	0	134	28	0	25	46	1.53
34466179--34466214	18	1.9	19	88	5	56	36	8	30	25	1.85
34466865--34466889	7	3.6	7	100	0	50	60	12	0	28	1.32
34467823--34467884	21	2.8	21	80	11	61	64	3	0	32	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34467966--34468029	31	2.1	31	97	2	121	65	0	0	34	0.93
34467973--34468030	10	5.7	10	73	4	53	63	0	0	36	0.94
34468032--34468143	51	2.2	51	91	0	179	42	1	26	28	1.65
34468120--34468165	22	2.1	22	100	0	92	41	0	32	26	1.56
34481043--34481080	18	2.1	18	85	9	51	44	0	0	55	0.99
34496261--34496618	177	2.0	177	94	0	626	27	12	22	37	1.90
34498683--34498720	15	2.5	15	80	16	51	60	2	5	31	1.33
34499288--34499328	21	2.0	21	86	13	59	48	7	12	31	1.68
34502891--34502920	16	1.9	16	93	6	53	50	20	0	30	1.49
34503381--34503410	16	1.9	16	93	6	53	20	23	0	56	1.42
34504348--34504372	2	12.5	2	100	0	50	52	0	0	48	1.00
34510258--34510300	21	2.0	21	100	0	86	20	23	23	32	1.98
34514875--34515212	115	2.9	114	88	2	516	40	17	21	20	1.91
34516553--34516724	45	3.9	45	82	7	208	23	15	25	36	1.93
34516548--34516724	90	2.0	88	84	4	230	23	15	25	36	1.94
34520025--34520053	15	1.9	15	100	0	58	13	6	13	65	1.45
34531438--34531475	20	1.9	20	88	0	58	13	23	23	39	1.90
34541340--34541379	19	2.1	19	100	0	80	37	20	15	27	1.92
34544014--34544055	16	2.6	16	88	0	66	57	2	7	33	1.39
34545787--34545828	6	6.8	6	86	13	59	19	2	0	78	0.86
34545787--34545828	13	3.4	12	84	15	59	19	2	0	78	0.86
34545843--34546443	299	2.0	299	97	0	1139	28	12	19	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34546872--34546934	2	31.5	2	100	0	126	50	0	49	0	1.00
34547150--34547189	21	1.9	21	85	10	55	47	20	7	25	1.75
34550310--34550354	22	2.0	22	83	12	56	31	15	4	48	1.65
34551303--34551439	68	2.0	68	95	0	247	35	22	16	25	1.95
34555723--34555769	25	2.0	24	83	8	60	59	2	2	36	1.21
34568250--34568281	15	2.1	15	100	0	64	31	6	0	62	1.20
34568958--34569030	37	2.0	37	86	5	103	20	23	26	30	1.99
34568959--34569042	18	4.6	18	74	4	69	21	22	26	29	1.99
34568959--34569064	55	1.9	56	88	1	160	21	22	25	30	1.99
34571082--34571120	16	2.3	19	79	20	50	43	5	5	46	1.48
34571368--34571542	75	2.3	76	83	5	228	47	8	10	33	1.68
34571550--34571597	24	2.0	24	88	4	71	35	10	8	45	1.68
34571433--34571944	77	6.8	77	74	15	333	42	8	9	38	1.68
34572364--34572497	17	7.9	17	69	14	89	30	0	3	65	1.10
34572348--34572508	49	3.2	49	90	3	232	31	0	3	64	1.13
34572387--34572469	21	3.6	23	68	17	64	30	0	2	67	1.03
34577710--34577858	75	2.0	77	80	5	169	46	8	10	34	1.68
34578062--34578094	16	2.1	16	94	0	57	54	0	0	45	0.99
34578356--34578380	2	12.5	2	100	0	50	52	0	0	48	1.00
34580321--34580543	69	3.3	69	87	2	299	40	5	20	33	1.77
34591024--34591093	20	3.6	19	73	9	61	40	0	1	58	1.07
34591127--34591173	24	2.0	24	82	0	58	46	4	8	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34592946--34592971	11	2.4	11	100	0	52	38	0	0	61	0.96
34592961--34593011	22	2.3	23	77	16	61	45	0	3	50	1.20
34592954--34593010	19	2.7	22	84	12	68	40	0	3	56	1.17
34592917--34592992	30	2.5	30	77	16	75	36	0	0	63	0.95
34597285--34597527	50	4.8	49	76	6	175	23	25	21	28	1.99
34601847--34601936	45	2.0	45	100	0	180	31	8	13	46	1.74
34603725--34603779	24	2.2	25	83	3	76	45	1	29	23	1.63
34604262--34604303	20	2.1	20	82	8	50	40	4	16	38	1.70
34608575--34608630	28	2.0	28	85	0	76	53	12	3	30	1.55
34624514--34624551	3	12.7	3	100	0	76	34	0	34	31	1.58
34628697--34628868	27	6.4	27	89	0	238	44	20	17	17	1.87
34629330--34629394	33	1.9	34	84	3	87	29	23	20	27	1.98
34631412--34631451	20	2.0	21	90	5	64	50	0	30	20	1.49
34631438--34631481	23	1.9	23	86	9	63	36	0	27	36	1.57
34631766--34631802	9	4.1	9	85	0	56	29	10	10	48	1.72
34640725--34640768	22	2.0	23	86	4	63	52	6	0	40	1.28
34642958--34643212	138	1.9	137	80	2	305	33	22	20	23	1.97
34655888--34655923	17	2.1	18	89	5	56	66	11	0	22	1.22
34670111--34670171	27	2.1	29	85	8	81	34	37	4	22	1.76
34671371--34671414	16	2.8	16	79	3	54	20	40	20	18	1.91
34678104--34678158	26	2.1	26	86	0	74	23	16	16	43	1.87
34679392--34679437	23	2.0	23	80	16	60	19	15	19	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34679400--34679451	23	2.3	23	93	0	86	19	17	23	40	1.91
34681119--34681166	20	2.4	20	82	0	60	33	16	31	18	1.94
34685418--34685456	6	6.3	6	82	5	51	61	2	20	15	1.45
34687085--34687160	23	3.3	23	86	0	116	46	21	17	15	1.84
34687077--34687166	46	2.0	46	90	0	144	44	23	16	15	1.86
34692869--34692931	31	2.0	31	96	0	117	33	14	15	36	1.88
34695612--34695651	22	1.9	22	90	10	66	50	15	10	25	1.74
34698919--34699067	48	3.1	49	83	5	180	22	30	20	26	1.98
34706498--34706694	48	4.1	48	83	2	243	22	29	20	27	1.99
34711030--34711127	6	16.8	6	74	13	62	71	12	4	12	1.28

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