genome.fa.s17.2.7.7.80.10.50.1000.145.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  145  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)
44766604--44766664	25	2.5	24	94	5	106	44	11	6	37	1.67
44767694--44767723	14	2.1	15	93	6	53	53	20	0	26	1.46
44773428--44773574	41	3.6	41	93	0	240	23	27	20	29	1.99
44774235--44774295	25	2.5	24	94	5	106	44	11	6	37	1.67
44775326--44775355	14	2.1	15	93	6	53	53	20	0	26	1.46
44781144--44781196	26	2.0	26	96	0	97	15	16	3	64	1.44
44788505--44788759	124	2.1	124	87	3	361	29	16	23	31	1.96
44789905--44791248	23	53.6	23	75	16	722	28	0	23	47	1.57
44789904--44791257	28	52.6	27	77	16	1056	28	0	23	47	1.57
44790278--44790364	18	4.3	18	67	25	57	28	2	22	45	1.65
44789904--44791261	51	26.4	51	80	13	961	28	0	23	47	1.57
44793405--44793438	15	2.3	15	90	5	52	67	5	0	26	1.13
44793635--44793676	22	1.9	22	90	0	66	33	0	33	33	1.58
44793678--44793769	22	4.2	22	78	10	107	42	0	28	29	1.56
44793626--44793728	52	2.0	51	81	9	120	36	0	32	31	1.58
44793678--44793769	44	2.1	44	85	4	123	42	0	28	29	1.56
44799313--44799355	22	2.0	22	85	0	59	46	16	25	11	1.80
44802380--44802454	19	3.8	19	86	6	114	34	17	12	36	1.87
44807369--44807415	20	2.3	20	82	7	51	21	2	6	70	1.20
44812939--44812985	22	2.1	21	84	7	58	61	19	0	19	1.34
44815061--44815252	29	6.6	29	81	7	131	33	24	16	25	1.96
44815060--44815247	58	3.2	57	79	5	207	34	23	16	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44815066--44815252	87	2.1	87	80	5	209	33	25	16	25	1.96
44816469--44816555	21	4.1	21	78	7	95	37	21	21	18	1.94
44816469--44816555	44	2.0	41	82	6	102	37	21	21	18	1.94
44817704--44817756	27	2.1	25	83	16	65	43	1	0	54	1.11
44828020--44828230	113	1.9	113	97	0	404	32	19	11	36	1.87
44828450--44828484	18	1.9	18	88	0	52	14	0	17	68	1.21
44834474--44834507	17	1.9	18	88	5	52	32	0	0	67	0.91
44837973--44838005	10	3.4	10	87	4	50	54	27	6	12	1.60
44843093--44843125	5	6.8	5	89	6	50	42	21	21	15	1.89
44845408--44845432	2	12.5	2	100	0	50	48	0	52	0	1.00
44849684--44850991	44	29.7	44	80	5	1234	30	25	15	28	1.96
44849684--44850993	264	5.0	263	87	3	1372	30	25	15	29	1.96
44851602--44851650	26	1.9	26	88	12	75	61	8	14	16	1.56
44877663--44877690	8	3.5	8	100	0	56	89	10	0	0	0.49
44878088--44878155	16	4.2	16	92	0	109	27	0	35	36	1.58
44878390--44878424	18	2.0	17	88	5	52	54	0	0	45	0.99
44878277--44878593	157	2.0	157	96	0	580	43	3	5	47	1.42
44878536--44878577	15	2.9	15	82	10	52	52	0	0	47	1.00
44878667--44878701	18	2.0	17	88	5	52	54	0	0	45	0.99
44878531--44878822	120	2.4	120	98	0	557	48	5	2	43	1.39
44878838--44879044	91	2.3	91	87	3	283	46	3	4	45	1.41
44878887--44879025	47	3.0	46	67	17	117	48	4	3	43	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44881690--44881766	33	2.3	33	100	0	154	33	5	18	42	1.72
44881743--44881784	18	2.3	18	100	0	84	23	0	26	50	1.50
44881710--44881813	51	2.0	51	98	0	199	30	3	20	45	1.69
44883063--44883204	71	2.0	69	86	5	196	42	25	8	23	1.82
44883793--44883924	36	3.6	37	83	6	160	54	12	26	6	1.61
44884245--44884279	5	7.0	5	86	0	52	80	0	17	2	0.84
44885525--44885920	50	7.9	50	66	8	198	31	21	21	25	1.98
44885533--44885930	100	4.0	99	86	1	528	30	21	21	25	1.98
44889750--44889847	28	3.5	27	81	9	117	31	12	27	28	1.93
44890820--44890925	22	4.7	23	76	10	101	27	13	16	42	1.86
44890820--44890947	22	5.5	23	73	18	97	27	14	15	42	1.85
44890820--44890967	47	3.2	47	86	5	187	28	14	16	41	1.87
44891603--44891856	128	2.0	128	91	1	411	34	20	19	25	1.96
44891916--44892001	44	2.0	44	86	4	120	33	18	20	26	1.96
44894969--44895009	20	2.0	21	95	4	75	29	34	9	26	1.88
44895436--44895460	9	2.8	9	100	0	50	80	0	8	12	0.92
44896967--44897107	43	3.3	42	80	3	147	26	27	19	26	1.99
44901312--44901345	18	1.9	18	88	5	52	44	5	0	50	1.26
44902032--44902070	14	2.7	15	84	8	53	41	30	0	28	1.57
44902031--44902090	21	2.8	21	78	16	70	40	33	0	26	1.57
44902194--44902256	29	2.2	30	80	13	78	39	34	1	23	1.65
44902196--44902300	7	14.6	7	73	12	52	37	42	1	18	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44902194--44902264	36	2.0	35	81	8	81	39	35	2	22	1.69
44902260--44902297	14	2.7	14	87	0	58	31	52	0	15	1.43
44902936--44903172	41	5.8	41	92	0	341	29	28	22	19	1.98
44903403--44903450	22	2.3	22	89	7	73	39	4	2	54	1.32
44909898--44909927	15	1.9	15	93	6	51	46	40	0	13	1.43
44909898--44909927	8	3.9	8	95	4	53	46	40	0	13	1.43
44909963--44910073	7	15.7	7	69	15	68	48	28	0	21	1.56
44910412--44910668	41	6.3	41	80	8	258	29	27	20	22	1.98
44910381--44910653	123	2.2	122	81	5	329	30	26	20	23	1.98
44910440--44910683	123	2.0	123	83	3	312	31	27	18	23	1.97
44910746--44910868	41	3.1	39	79	9	115	22	17	20	39	1.93
44910732--44910869	39	3.5	40	78	8	138	21	18	21	39	1.92
44912256--44912328	19	3.8	19	70	10	67	34	2	0	63	1.09
44912245--44912301	11	5.4	11	74	21	59	38	3	0	57	1.16
44912234--44912309	30	2.5	30	91	2	125	34	2	0	63	1.09
44912266--44912347	39	2.1	40	95	2	148	32	3	0	63	1.12
44915183--44915225	21	2.1	20	95	4	77	51	4	6	37	1.50
44916456--44916496	11	3.7	11	80	0	55	19	14	9	56	1.66
44916534--44916591	30	1.9	30	92	0	98	29	5	15	50	1.66
44916717--44916747	11	2.8	11	90	0	53	67	0	0	32	0.91
44926888--44926963	36	2.1	35	84	13	102	52	5	1	40	1.32
44934937--44935222	44	6.6	44	69	12	169	27	24	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44935213--44935825	128	4.8	128	90	0	913	25	24	19	30	1.98
44937069--44937106	7	5.4	7	81	12	51	13	15	0	71	1.16
44937958--44938018	32	1.9	32	86	6	88	13	8	9	68	1.38
44945548--44945954	209	2.0	208	91	2	656	41	15	8	34	1.78
44950242--44950406	51	3.3	49	90	2	240	27	25	15	32	1.95
44957937--44957970	15	2.3	15	100	0	68	55	8	5	29	1.54
44965783--44966064	50	5.6	50	77	5	210	24	28	19	27	1.98
44988692--44988772	33	2.6	31	86	5	101	41	1	18	38	1.58
44988948--44988983	18	2.0	18	100	0	72	27	0	33	38	1.57
44990665--44991094	212	2.0	211	94	1	754	40	16	9	33	1.81
44998028--44998086	19	3.1	19	87	4	84	77	8	1	11	1.05
44998039--44998079	13	3.1	14	89	6	59	80	9	0	9	0.91
44999749--45000248	87	5.7	87	92	0	775	30	23	21	24	1.99
45000539--45001004	142	3.3	142	91	0	736	32	18	20	28	1.96
45000782--45001031	44	5.5	44	68	16	118	31	17	21	29	1.96
45001070--45001619	50	11.0	50	73	6	414	31	23	20	24	1.98
45001066--45001628	100	5.6	99	89	2	743	31	23	20	24	1.98
45002617--45002645	14	2.1	14	100	0	58	13	0	0	86	0.58
45007260--45007293	16	2.1	16	88	5	50	8	0	14	76	1.01
45023324--45023417	45	2.1	45	89	0	143	30	23	20	25	1.98
45037157--45037196	19	2.0	20	85	4	55	65	15	5	15	1.44
45037157--45037196	20	2.0	20	85	9	55	65	15	5	15	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45047359--45047387	8	3.6	8	100	0	58	24	0	0	75	0.80
45051500--45051557	29	2.0	29	100	0	116	37	13	6	41	1.72
45055984--45056017	17	2.0	17	94	0	59	58	14	11	14	1.63
45064445--45064518	34	2.2	34	85	4	96	31	18	21	28	1.97
45064980--45065211	27	8.6	28	77	7	219	20	15	18	44	1.87
45064979--45065211	54	4.3	54	82	4	247	20	16	18	44	1.87
45064980--45065211	81	2.8	80	84	7	297	20	15	18	44	1.87
45066650--45066682	17	2.0	16	94	5	57	18	27	12	42	1.85
45067783--45068341	27	20.6	27	83	5	678	19	16	20	43	1.88
45080100--45080125	13	2.0	13	100	0	52	46	0	0	53	1.00

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