genome.fa.s16.2.7.7.80.10.50.1000.124.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  124  of  175  ( 20966 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)
38815024--38815068	24	1.9	23	86	4	63	64	4	2	28	1.25
38815835--38815886	27	1.9	27	88	0	77	34	1	17	46	1.59
38820417--38820453	18	2.1	18	94	0	65	51	13	5	29	1.63
38820666--38820725	30	2.0	31	86	3	86	20	36	0	43	1.52
38820803--38820860	17	3.2	17	76	16	55	24	25	0	50	1.50
38822485--38822534	17	2.7	19	82	14	61	36	12	0	52	1.39
38832846--38832967	25	4.9	24	76	12	86	30	13	20	36	1.91
38832820--38833012	100	1.9	100	84	2	253	30	12	21	35	1.91
38832835--38833018	50	3.7	50	81	4	210	29	12	19	38	1.88
38845458--38845484	12	2.2	12	100	0	54	7	7	25	59	1.51
38846398--38846525	67	1.9	67	84	3	170	36	7	4	50	1.52
38856224--38856258	15	2.4	15	90	4	54	34	8	0	57	1.29
38862443--38862782	87	3.9	87	88	0	527	30	22	23	24	1.99
38862443--38862783	174	2.0	174	93	0	583	29	22	23	24	1.99
38862754--38862806	23	2.3	23	96	0	97	22	32	13	32	1.92
38862778--38862997	88	2.5	87	91	1	341	30	26	21	20	1.98
38862817--38862954	44	3.2	43	67	15	120	28	25	23	21	1.99
38864877--38864911	15	2.4	15	90	4	54	34	8	0	57	1.29
38865600--38865803	107	1.9	107	90	0	327	31	19	15	33	1.93
38866565--38866589	13	1.9	13	100	0	50	60	0	0	40	0.97
38877072--38877136	18	3.5	17	75	19	58	26	9	1	63	1.34
38877011--38877135	6	21.7	6	70	15	52	24	7	1	67	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38878848--38878933	6	14.7	6	83	9	106	15	4	1	79	0.96
38878866--38878935	17	4.1	16	87	9	86	14	2	1	81	0.88
38882029--38882188	27	6.0	26	78	6	167	42	19	16	21	1.89
38882018--38882188	81	2.1	81	82	6	204	43	19	15	22	1.88
38882029--38882190	54	3.0	52	81	7	198	41	19	16	22	1.90
38892190--38892324	54	2.4	54	84	8	155	25	18	23	31	1.97
38909566--38909700	54	2.4	54	84	8	155	25	18	23	31	1.97
38928504--38928530	11	2.5	11	100	0	54	51	0	25	22	1.48
38928631--38928665	11	3.0	12	91	8	63	57	0	0	42	0.99
38932974--38933023	24	2.2	22	82	13	57	36	22	4	38	1.73
38939352--38939479	44	3.0	42	82	4	166	28	31	17	22	1.96
38939338--38939477	42	3.3	43	82	7	160	30	32	16	21	1.95
38939851--38939895	21	2.1	21	83	0	54	4	44	13	37	1.64
38939856--38939900	21	2.1	21	83	0	54	2	44	15	37	1.59
38942307--38942359	26	2.0	26	92	0	88	18	24	33	22	1.97
38942336--38942570	43	5.6	42	74	10	203	22	17	24	35	1.95
38942333--38942570	85	2.8	83	87	3	323	23	17	24	34	1.95
38948481--38948528	17	2.8	17	75	12	53	37	0	14	47	1.44
38951312--38951337	12	2.2	12	100	0	52	38	23	7	30	1.83
38951667--38951704	18	2.1	18	95	0	67	31	21	10	36	1.87
38958040--38958091	20	2.7	19	85	5	77	55	5	0	38	1.24
38958039--38958101	20	3.3	19	80	6	74	57	4	0	38	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38962996--38963036	16	2.5	17	80	11	50	41	2	0	56	1.13
38963079--38963129	22	2.4	22	80	12	61	35	9	0	54	1.33
38967873--38967936	32	2.0	32	96	0	119	48	18	12	20	1.80
38969746--38969770	13	1.9	13	100	0	50	32	4	24	40	1.73
38983726--38983789	32	2.0	32	96	0	119	48	18	12	20	1.80
38985594--38985618	13	1.9	13	100	0	50	32	4	24	40	1.73
38987452--38987596	41	3.5	41	98	0	272	27	20	28	22	1.99
38989534--38989570	19	1.9	19	100	0	74	37	45	10	5	1.62
38993807--38993916	23	5.0	23	81	9	106	18	20	24	36	1.95
38993829--38993915	20	4.1	21	80	10	88	16	22	25	35	1.94
38993843--38993902	21	2.8	21	87	7	86	13	26	28	31	1.94
38994159--38994196	19	2.0	19	85	10	51	47	5	10	36	1.61
38997655--38997693	14	2.8	13	81	11	51	61	7	5	25	1.44
38998733--38998765	13	2.3	15	90	10	52	81	0	3	15	0.80
38999101--38999141	20	2.1	21	86	13	61	2	2	26	68	1.15
39001302--39001327	9	2.9	9	100	0	52	92	7	0	0	0.39
39002652--39002688	18	2.1	18	100	0	74	35	5	5	54	1.47
39008840--39008880	6	6.8	6	100	0	82	0	0	48	51	1.00
39009292--39009327	16	2.2	16	90	0	54	41	5	27	25	1.77
39009560--39009594	18	2.0	17	88	5	52	54	2	0	42	1.15
39009569--39009885	61	5.3	61	69	11	258	47	5	3	43	1.43
39009546--39009954	59	6.8	59	69	11	278	48	4	3	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39009798--39009834	16	2.2	17	86	13	51	54	0	2	43	1.14
39009918--39009954	16	2.2	17	86	13	51	54	0	2	43	1.14
39009546--39009955	120	3.4	120	96	0	766	48	4	3	44	1.38
39009937--39010177	47	5.3	46	70	20	175	47	3	2	46	1.34
39009894--39010177	91	3.0	98	87	8	312	47	2	2	46	1.31
39009996--39010138	44	3.2	43	71	20	139	48	2	2	46	1.25
39009962--39010177	91	2.4	91	93	0	369	46	3	2	46	1.35
39018954--39019046	33	3.0	32	78	15	113	32	26	22	18	1.97
39018973--39019042	28	2.5	28	88	4	97	34	27	21	17	1.95
39019144--39019194	26	2.0	26	92	0	84	39	23	19	17	1.92
39019377--39019613	53	4.5	52	81	10	259	19	21	18	40	1.92
39019386--39019613	26	8.6	26	83	7	264	18	22	17	41	1.90
39019386--39019613	80	2.9	79	83	5	266	18	22	17	41	1.90
39019569--39019654	43	2.0	44	90	2	138	18	23	11	46	1.82
39025484--39025553	35	2.0	35	97	0	131	31	7	28	32	1.84
39037383--39037423	20	2.0	21	85	9	57	68	12	0	19	1.21
39037417--39037449	13	2.5	13	95	0	57	48	9	0	42	1.35
39043569--39043618	4	12.5	4	91	0	64	48	30	0	22	1.51
39052477--39052513	17	2.2	17	100	0	74	48	16	24	10	1.77
39058523--39058566	22	2.0	22	100	0	88	40	27	0	31	1.56
39061708--39061750	18	2.3	19	88	4	61	44	2	20	32	1.65
39066286--39066326	5	8.2	5	84	10	57	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39066285--39066327	16	2.8	15	80	13	52	41	0	0	58	0.98
39066331--39066376	14	3.1	14	84	6	56	73	4	17	4	1.15
39066339--39066396	25	2.3	25	77	16	66	67	5	24	3	1.27
39066934--39066991	30	1.9	30	89	0	89	41	3	24	31	1.71
39067324--39067438	44	2.6	44	85	2	149	35	13	22	27	1.92
39067324--39067457	46	3.0	45	82	4	153	35	14	23	26	1.93
39072518--39072558	5	8.2	5	84	10	57	41	0	0	58	0.98
39072517--39072559	16	2.8	15	80	13	52	41	0	0	58	0.98
39072563--39072608	14	3.1	14	84	6	56	73	4	17	4	1.15
39072571--39072628	25	2.3	25	77	16	66	67	5	24	3	1.27
39073165--39073222	30	1.9	30	89	0	89	41	3	24	31	1.71
39073555--39073669	44	2.6	44	85	2	149	34	13	23	27	1.93
39078057--39078090	16	2.0	17	88	11	52	79	2	17	0	0.86
39081192--39081571	188	2.0	192	89	2	588	38	17	11	32	1.85
39082128--39082185	15	4.0	15	78	13	59	56	5	0	37	1.21
39082193--39082219	5	5.4	5	100	0	54	77	0	0	22	0.76
39087084--39087151	29	2.3	30	82	5	84	48	5	0	45	1.26
39089492--39089522	15	2.1	15	94	5	55	45	0	9	45	1.36
39103856--39103889	16	2.0	17	88	11	52	79	2	17	0	0.86
39106985--39107364	188	2.0	192	89	2	588	38	17	11	32	1.85
39107920--39107977	15	4.0	15	78	13	59	56	5	0	37	1.21
39107985--39108011	5	5.4	5	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39112867--39112934	29	2.3	30	82	5	84	48	5	0	45	1.26
39118089--39118118	15	2.0	15	93	0	51	43	0	3	53	1.17
39120777--39120816	19	2.1	19	85	0	53	50	0	5	45	1.23
39127443--39127480	2	19.0	2	100	0	76	0	0	50	50	1.00
39128988--39129034	24	2.0	24	83	8	60	48	0	34	17	1.47
39130264--39130849	291	2.0	291	99	0	1154	32	20	16	29	1.95
39134040--39134472	78	5.6	78	93	1	726	38	4	13	42	1.65
39134045--39134472	155	2.8	156	93	0	725	38	4	13	42	1.65
39134040--39134472	233	1.9	234	93	1	744	38	4	13	42	1.65
39135167--39135323	41	3.8	41	90	4	228	28	19	28	24	1.98

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