genome.fa.s17.2.7.7.80.10.50.1000.162.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  162  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)
49918573--49918622	16	3.1	16	85	5	73	38	34	0	28	1.57
49922493--49922579	43	2.0	43	86	0	120	33	11	12	42	1.79
49922835--49923038	43	4.7	43	87	2	275	27	13	30	28	1.94
49927155--49927241	43	2.0	43	90	0	138	32	22	4	40	1.75
49928214--49928286	34	2.1	34	89	0	110	56	8	4	31	1.48
49930483--49930532	24	2.1	24	84	0	64	52	4	4	40	1.39
49943811--49943965	43	3.6	43	80	4	154	30	27	18	24	1.98
49944494--49944532	19	2.0	20	85	9	55	51	28	0	20	1.48
49947896--49947931	19	2.0	17	89	10	54	44	5	16	33	1.71
49947902--49947946	23	2.0	23	86	4	65	40	4	17	37	1.70
49948140--49948184	23	2.0	23	86	4	65	40	4	17	37	1.70
49947900--49948372	238	2.0	238	98	0	919	27	15	17	38	1.91
49955312--49955767	45	10.2	44	77	5	380	31	19	22	26	1.98
49955328--49955745	90	4.7	89	79	4	419	30	18	23	26	1.98
49955313--49955745	89	4.9	89	78	5	442	30	19	23	26	1.98
49956006--49956186	44	4.1	44	66	11	118	29	20	23	26	1.99
49955976--49956367	132	3.0	132	85	2	538	28	19	25	26	1.99
49955976--49956365	131	3.0	132	84	3	518	28	20	24	26	1.99
49956821--49956856	19	2.0	17	89	10	54	44	5	16	33	1.71
49956827--49956871	23	2.0	23	86	4	65	40	4	17	37	1.70
49956840--49956885	21	2.1	22	84	8	58	36	4	15	43	1.66
49956827--49956885	22	2.7	23	79	7	61	38	3	16	40	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49963178--49963299	45	2.7	45	89	0	181	32	16	26	24	1.96
49965304--49965460	48	3.1	49	64	21	117	50	19	3	26	1.64
49965288--49965447	44	3.1	53	63	24	133	50	18	3	26	1.64
49965288--49965490	101	2.0	101	95	0	361	49	20	4	25	1.68
49965687--49965733	20	2.3	20	82	7	60	29	8	0	61	1.25
49966676--49966717	18	2.4	17	84	4	57	42	7	4	45	1.52
49968945--49969006	31	2.0	31	93	3	108	40	12	6	40	1.69
49969864--49970167	123	2.4	124	82	8	350	33	14	23	27	1.94
49976445--49976475	13	2.4	13	94	0	53	25	22	19	32	1.97
49977749--49977776	6	4.7	6	100	0	56	32	0	0	67	0.91
49978311--49978335	11	2.3	11	100	0	50	44	0	16	40	1.47
49978423--49978504	34	2.4	34	97	2	155	39	13	8	39	1.75
49981874--49981977	54	1.9	54	82	7	131	58	10	21	9	1.59
49981969--49982058	28	3.2	28	83	9	103	42	11	27	18	1.84
49982003--49982050	13	3.5	13	72	10	51	37	12	31	18	1.88
49982007--49982086	30	2.8	28	81	7	97	45	12	25	17	1.83
49982007--49982116	58	1.9	58	83	7	143	45	10	25	19	1.81
49983706--49983806	51	2.0	51	96	0	184	27	7	8	55	1.59
49984784--49984856	21	3.4	21	70	9	67	47	19	20	12	1.81
49984755--49984883	42	3.1	41	81	8	136	44	19	19	16	1.86
49984870--49984919	21	2.4	21	80	6	57	52	16	16	16	1.76
49987995--49990583	862	3.0	862	98	0	4971	30	24	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49991654--49991688	13	2.6	13	95	4	61	34	14	20	31	1.92
49992657--49992813	43	3.7	43	81	7	169	28	28	20	23	1.99
49993691--49993841	49	3.0	51	76	14	195	43	9	3	43	1.52
49995787--49995860	21	3.5	21	71	14	62	50	16	20	13	1.78
49995750--49995861	42	2.6	42	80	6	120	46	16	22	14	1.83
50006550--50006644	24	4.0	24	72	20	72	31	22	14	31	1.94
50007467--50007529	31	2.0	31	100	0	126	41	6	12	39	1.69
50012894--50012925	2	16.0	2	100	0	64	0	50	0	50	1.00
50013955--50013980	11	2.4	11	100	0	52	38	7	0	53	1.30
50013936--50014041	42	2.6	42	85	12	136	35	2	0	60	1.18
50013995--50014024	11	2.6	11	94	5	51	50	3	0	46	1.18
50013938--50014050	38	2.8	41	79	16	121	35	2	0	61	1.16
50014019--50014069	20	2.5	20	74	0	57	25	0	1	72	0.95
50015174--50015216	22	2.0	22	86	9	61	62	0	4	32	1.15
50015187--50015228	22	2.0	21	85	4	57	66	0	7	26	1.17
50016152--50016287	41	3.5	39	76	12	127	22	16	27	33	1.95
50016153--50016292	40	3.5	40	76	8	135	24	17	26	32	1.97
50021403--50021530	43	3.0	41	81	13	134	31	28	16	23	1.96
50025805--50025944	25	5.6	25	64	17	60	37	20	22	20	1.95
50033723--50033771	24	2.0	24	88	7	73	55	4	26	14	1.57
50037022--50037058	16	2.3	16	90	0	56	48	0	5	45	1.25
50037082--50037152	35	2.0	35	100	0	142	38	11	11	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50042208--50042247	20	2.0	21	90	5	64	27	2	30	40	1.70
50047015--50047047	17	1.9	17	100	0	66	48	0	9	42	1.35
50052742--50052776	15	2.4	15	90	4	54	48	0	8	42	1.33
50054409--50054484	4	19.0	4	76	20	54	23	5	0	71	1.07
50055681--50055730	20	2.7	19	82	17	52	74	2	0	24	0.93
50055681--50055721	16	2.5	17	88	7	59	73	2	0	24	0.96
50056280--50056314	15	2.4	15	90	4	54	48	0	8	42	1.33
50057028--50057075	21	2.3	20	80	16	53	22	6	4	66	1.32
50061492--50061560	28	2.6	26	78	13	77	59	2	1	36	1.21
50061543--50061576	13	2.6	14	86	13	54	61	0	0	38	0.96
50061594--50061618	6	4.2	6	100	0	50	52	0	0	48	1.00
50061616--50061640	5	5.0	5	100	0	50	80	0	0	20	0.72
50065230--50065269	20	2.0	20	90	0	62	55	20	25	0	1.44
50065464--50065707	104	2.3	104	85	1	301	21	31	22	24	1.98
50065464--50065748	104	2.7	104	82	1	284	21	30	23	25	1.99
50065689--50065768	42	1.9	42	82	5	99	20	32	22	25	1.98
50065583--50065921	146	2.3	145	82	3	387	20	31	23	24	1.98
50065834--50065921	41	2.1	41	85	4	115	15	36	25	22	1.94
50068059--50068091	5	6.4	5	96	3	57	21	0	0	78	0.75
50069371--50069782	125	3.3	125	87	0	583	31	16	20	30	1.95
50072975--50073192	49	4.5	49	94	1	375	44	9	2	43	1.50
50073019--50073102	29	3.2	29	62	28	78	45	9	2	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50072975--50073192	97	2.2	98	95	0	393	44	9	2	43	1.50
50073592--50073634	18	2.4	18	84	0	50	46	9	25	18	1.79
50075467--50075520	11	4.9	11	78	15	58	42	0	29	27	1.56
50078229--50078313	27	3.1	27	86	0	116	20	21	35	23	1.96
50082110--50082288	27	6.6	27	83	5	191	29	27	15	27	1.96
50082136--50082286	82	1.9	81	87	4	223	28	27	15	27	1.96
50082836--50082860	13	1.9	13	100	0	50	32	16	20	32	1.94
50097032--50097157	33	3.8	33	76	8	114	28	11	42	17	1.85
50097034--50097157	66	1.9	66	83	9	164	28	12	41	17	1.85
50097106--50097199	33	2.9	33	75	12	88	21	11	44	22	1.84
50098244--50098279	18	2.1	17	89	5	54	63	5	0	30	1.17
50098248--50098306	28	2.2	26	82	14	68	67	8	0	23	1.17
50098285--50098540	102	2.5	102	91	3	417	53	16	0	29	1.44
50098285--50098573	103	2.8	103	88	5	419	53	16	0	29	1.46
50098768--50098889	60	2.0	60	95	0	217	54	12	0	32	1.37
50099044--50099078	17	2.1	17	94	0	61	0	20	0	80	0.72
50099043--50099105	27	2.4	25	78	14	65	0	28	0	71	0.86
50099048--50099105	13	4.5	12	73	14	53	0	31	0	68	0.89
50099226--50099334	27	4.0	27	90	0	155	18	33	29	18	1.95
50109927--50109987	27	2.3	26	86	5	79	60	1	0	37	1.07
50109971--50109996	11	2.4	11	100	0	52	65	0	0	34	0.93
50109981--50110035	27	2.0	28	89	3	85	65	5	1	27	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50117615--50117653	19	2.0	20	90	5	62	56	2	0	41	1.13
50122160--50122273	38	3.0	38	81	0	138	32	14	15	37	1.88
50122935--50123055	54	2.2	54	94	0	206	42	3	14	40	1.61
50132670--50132702	13	2.5	13	100	0	66	30	9	15	45	1.77
50132962--50132989	8	3.5	8	100	0	56	50	0	0	50	1.00
50135226--50135400	72	2.4	73	82	6	230	54	12	6	26	1.61
50138597--50138645	25	2.0	25	87	0	71	53	22	22	2	1.57
50143944--50143983	3	13.3	3	100	0	80	32	0	0	67	0.91
50151852--50151893	3	14.3	3	85	5	59	30	0	2	66	1.04
50153730--50154006	46	6.0	46	92	0	419	29	25	8	36	1.86

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