genome.fa.s17.2.7.7.80.10.50.1000.33.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  33  of  185  ( 22116 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)
9090255--9090309	28	2.0	28	92	0	92	32	5	7	54	1.51
9090291--9090339	20	2.4	21	76	10	57	20	2	4	73	1.10
9091049--9091970	386	2.4	380	89	4	1387	41	23	4	29	1.75
9092510--9092853	111	3.1	113	85	5	448	32	26	18	23	1.97
9092772--9093039	84	3.2	84	92	0	437	38	27	17	16	1.90
9098839--9098883	18	2.5	19	89	7	67	68	2	0	28	1.01
9098845--9098884	19	2.2	18	90	4	62	70	2	0	27	1.01
9109026--9109075	24	2.1	24	100	0	100	20	14	42	24	1.88
9135701--9135835	47	2.9	47	84	11	161	19	20	24	35	1.96
9148795--9148845	21	2.5	21	81	9	61	70	1	9	17	1.24
9149019--9149076	28	2.0	28	86	3	80	72	3	1	22	1.09
9156930--9156972	3	14.3	3	90	0	68	34	4	0	60	1.17
9161261--9161306	17	2.8	18	84	15	64	28	41	30	0	1.56
9162334--9162364	14	2.2	14	100	0	62	35	0	48	16	1.46
9162536--9162582	24	2.0	24	82	0	58	59	2	12	25	1.45
9164740--9164781	17	2.6	16	88	7	66	26	0	21	52	1.47
9166013--9166196	46	4.0	46	94	1	307	34	9	28	28	1.88
9169060--9169168	36	3.0	36	95	0	191	30	20	11	37	1.88
9171306--9171874	287	2.0	286	97	0	1084	28	20	11	39	1.88
9174932--9174974	21	2.0	21	86	8	61	34	0	6	58	1.25
9174991--9175036	18	2.6	18	86	3	58	43	0	2	54	1.12
9174990--9175184	66	3.1	66	66	22	184	41	0	3	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9175013--9175201	59	3.2	59	71	11	195	39	0	3	56	1.19
9175124--9175167	18	2.5	17	92	7	70	36	0	0	63	0.95
9175006--9175167	18	9.3	18	65	22	69	40	0	3	55	1.20
9175123--9175188	21	3.3	20	79	10	64	36	0	0	63	0.95
9174957--9175260	64	5.1	58	68	21	234	41	0	4	52	1.28
9175142--9175366	102	2.2	102	96	1	427	39	1	4	54	1.29
9174939--9175259	120	2.7	120	97	0	601	41	0	4	53	1.28
9175533--9175624	44	2.1	44	86	10	125	36	26	4	32	1.76
9175613--9175661	16	3.1	16	84	0	71	26	30	4	38	1.75
9186780--9186805	6	4.3	6	100	0	52	15	30	0	53	1.42
9189497--9189602	3	33.3	3	77	11	70	28	5	3	62	1.35
9189500--9189602	29	3.6	28	68	27	81	28	5	3	62	1.36
9189809--9189854	22	2.0	23	87	4	67	32	8	0	58	1.28
9192037--9192072	17	2.1	17	94	0	63	30	13	27	27	1.94
9192855--9192920	30	2.2	30	88	0	96	51	6	16	25	1.67
9193522--9193580	29	2.0	29	83	0	73	33	27	10	28	1.89
9199848--9199900	18	3.1	18	69	23	51	50	1	3	43	1.30
9204526--9204559	9	3.7	9	88	4	50	55	2	0	41	1.15
9204719--9204791	37	2.0	37	83	5	94	34	2	1	61	1.19
9204746--9204791	19	2.5	18	85	3	56	34	0	0	65	0.93
9204746--9204794	18	2.7	18	81	18	57	34	0	0	65	0.93
9205478--9205546	29	2.3	29	82	9	77	21	11	17	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9210653--9210693	13	3.1	14	79	13	50	75	17	2	4	1.08
9214559--9214597	17	2.3	17	86	0	51	35	5	0	58	1.20
9215031--9215067	18	2.1	18	89	0	56	27	0	67	5	1.12
9215116--9215149	17	2.1	17	88	5	52	29	0	0	70	0.87
9218314--9218345	6	5.3	6	96	0	55	15	12	53	18	1.73
9223412--9223489	34	2.4	33	85	10	106	24	21	23	30	1.99
9232737--9232793	28	2.0	28	89	0	87	33	8	15	42	1.78
9243757--9243790	3	11.3	3	93	0	59	29	0	2	67	1.05
9251750--9251800	21	2.5	20	82	17	61	47	1	0	50	1.12
9252056--9252089	14	2.4	14	85	0	50	73	0	26	0	0.83
9252384--9252477	22	4.3	21	76	18	84	25	7	4	62	1.40
9252394--9252486	44	2.1	44	82	4	107	26	5	5	62	1.39
9256796--9256834	21	1.9	20	84	5	51	51	2	2	43	1.29
9257187--9257221	14	2.6	13	86	8	52	65	0	0	34	0.93
9257543--9257581	20	1.9	21	89	5	62	35	0	7	56	1.28
9274772--9274833	31	2.0	32	93	6	110	25	19	9	45	1.81
9275027--9275072	24	2.0	23	86	4	65	28	4	2	65	1.23
9275257--9275339	30	2.8	30	81	0	103	51	13	10	24	1.72
9278612--9278656	17	2.6	18	89	10	76	51	8	8	31	1.64
9279202--9279243	16	2.7	15	76	20	50	57	2	7	33	1.39
9279260--9279291	15	2.0	17	88	11	50	62	6	0	31	1.20
9279885--9279933	17	2.8	18	84	3	64	8	53	30	8	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9280302--9280352	19	2.7	19	81	0	75	3	0	41	54	1.19
9281253--9281467	74	2.9	73	80	4	241	30	19	16	34	1.93
9281246--9281487	75	3.2	75	79	5	249	33	17	16	33	1.92
9281148--9283835	240	11.3	233	77	14	1863	33	20	16	29	1.94
9281482--9282383	74	11.7	74	69	15	420	33	19	16	30	1.94
9281720--9281883	73	2.3	72	86	6	224	34	17	16	31	1.92
9281556--9282353	158	5.0	158	82	10	936	34	19	16	30	1.93
9281793--9282109	84	3.9	84	78	13	347	34	20	16	29	1.94
9281878--9282383	75	6.7	74	84	7	545	33	20	16	30	1.94
9282340--9282435	49	2.0	49	97	0	183	32	20	16	30	1.95
9282268--9282507	121	2.0	121	94	0	426	32	20	16	30	1.95
9282389--9282611	72	3.0	72	84	8	288	34	18	16	30	1.94
9282691--9282991	73	4.0	73	77	10	329	32	22	16	27	1.96
9282910--9283074	87	1.9	87	89	2	260	35	22	15	26	1.94
9283142--9283170	14	2.1	14	100	0	58	65	6	13	13	1.45
9283059--9283226	92	1.8	91	88	6	259	34	20	16	27	1.95
9283150--9283374	75	3.0	73	90	3	342	32	22	17	27	1.96
9283427--9283907	73	6.5	73	88	2	685	31	22	17	28	1.96
9302149--9302184	12	3.0	12	87	0	54	41	5	27	25	1.77
9302145--9302176	16	1.9	17	93	6	57	40	6	28	25	1.79
9303546--9303589	17	2.5	17	92	3	70	50	9	9	31	1.65
9303546--9303636	18	5.1	18	74	18	82	48	10	10	29	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9303546--9303636	17	5.1	17	71	21	69	48	10	10	29	1.73
9304187--9304218	15	2.0	17	88	11	50	62	6	0	31	1.20
9304911--9304948	11	3.5	11	79	13	51	81	5	13	0	0.85
9305227--9305279	19	2.7	20	82	5	81	3	0	45	50	1.19
9305237--9305277	17	2.3	18	91	8	66	4	0	46	48	1.23
9311230--9311293	18	3.6	17	77	12	51	29	4	6	59	1.42
9311254--9311304	3	17.3	3	76	11	52	29	3	3	62	1.31
9311256--9311305	21	2.5	20	76	23	59	28	4	4	64	1.30
9312152--9312455	107	2.8	107	86	4	407	29	16	18	34	1.93
9318102--9318346	44	5.6	44	80	5	262	29	22	17	29	1.97
9318102--9318346	132	1.9	132	84	3	332	29	22	17	29	1.97
9319251--9319373	44	2.8	44	81	3	142	31	29	16	22	1.96
9324825--9324981	78	2.0	78	100	0	314	45	7	14	33	1.73
9331861--9331898	18	2.1	18	85	9	51	26	2	10	60	1.43
9333508--9333592	26	3.5	24	76	14	75	29	4	9	56	1.51
9341262--9341375	44	2.6	44	88	0	147	28	25	14	32	1.94
9341461--9342184	44	16.6	44	65	13	259	27	24	18	29	1.98
9341391--9342372	132	7.5	132	91	1	1566	27	23	18	29	1.98
9350536--9350569	9	3.8	9	96	0	59	91	5	2	0	0.51
9350544--9350572	10	3.0	10	95	5	51	89	10	0	0	0.48
9357242--9357279	3	12.7	3	100	0	76	68	0	31	0	0.90
9360547--9360582	12	3.0	12	87	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9367677--9367733	20	2.8	20	81	5	62	63	0	3	33	1.12
9368194--9368266	5	14.6	5	88	0	110	23	36	0	39	1.55
9371455--9371507	27	1.9	28	84	3	72	75	7	7	9	1.19
9372009--9372038	16	1.9	15	93	6	51	33	0	6	60	1.23
9372113--9372191	35	2.2	35	97	2	149	45	2	5	46	1.38
9378285--9378428	45	3.2	44	76	14	150	27	13	22	36	1.92
9383692--9383868	47	3.7	47	84	4	212	25	21	32	20	1.98
9384791--9385035	73	3.4	73	84	0	339	27	24	24	23	2.00
9384935--9385493	114	4.9	114	91	0	879	26	22	25	25	2.00
9386855--9387048	106	1.8	105	85	1	271	53	9	10	26	1.66

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