genome.fa.s17.2.7.7.80.10.50.1000.112.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  112  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)
35027337--35027448	50	2.2	50	80	4	127	27	23	18	30	1.98
35041618--35041651	18	2.0	16	88	11	50	47	0	8	44	1.34
35055731--35055755	13	1.9	13	100	0	50	24	16	28	32	1.96
35058968--35059007	17	2.4	16	83	4	53	22	12	5	60	1.52
35058965--35059006	16	2.4	18	88	7	61	21	14	4	59	1.53
35062335--35062404	20	3.6	18	81	12	68	47	1	1	50	1.19
35062350--35062417	20	3.4	19	90	8	100	50	1	1	47	1.19
35062726--35062777	7	7.6	7	79	12	54	67	0	21	11	1.22
35072507--35072557	23	2.1	24	82	7	59	31	1	13	52	1.51
35079230--35079262	17	1.9	17	100	0	66	24	24	12	39	1.89
35083311--35083335	11	2.3	11	100	0	50	24	0	8	68	1.16
35086830--35086885	26	2.2	26	96	3	105	16	0	64	19	1.29
35086891--35086949	30	2.0	30	90	6	93	40	0	38	20	1.53
35088370--35088630	129	2.0	129	98	0	504	33	14	18	33	1.92
35089377--35089463	43	2.0	43	100	0	174	37	16	9	36	1.80
35100330--35100533	103	2.0	103	94	0	354	25	18	25	29	1.98
35102277--35102476	44	4.5	44	66	18	119	31	18	26	24	1.97
35102176--35102565	132	3.0	132	93	0	663	30	20	24	24	1.98
35102176--35102487	44	7.1	44	64	18	112	30	19	24	25	1.98
35105686--35105742	26	2.2	26	84	12	73	26	21	5	47	1.71
35110059--35110091	16	2.1	16	88	5	50	12	12	0	75	1.04
35116164--35116214	6	8.5	6	100	0	102	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35120924--35120955	17	1.9	16	93	6	55	21	6	12	59	1.55
35125176--35125321	41	3.6	41	90	5	217	28	25	19	26	1.98
35132769--35132914	41	3.6	41	90	5	217	28	25	19	26	1.98
35136391--35136442	16	3.2	16	100	0	104	25	0	36	38	1.56
35136777--35136828	15	3.6	15	80	12	56	53	1	0	44	1.11
35136661--35136957	59	5.0	58	66	18	164	50	4	3	41	1.38
35136661--35136953	120	2.4	121	93	1	491	50	4	3	41	1.39
35139794--35139825	7	4.4	7	92	7	55	84	3	12	0	0.74
35139797--35139825	15	1.9	15	100	0	58	82	3	13	0	0.79
35140342--35140366	13	1.9	13	100	0	50	36	0	56	8	1.29
35149905--35149952	21	2.3	21	89	3	71	37	27	14	20	1.92
35149975--35150017	22	2.0	22	90	0	68	37	16	11	34	1.85
35164835--35164867	14	2.4	14	89	0	57	27	12	6	54	1.60
35170555--35170611	28	2.0	28	100	0	114	59	7	10	22	1.54
35170562--35170607	14	3.3	14	72	22	51	58	6	10	23	1.55
35176378--35176448	27	2.6	27	81	0	88	46	15	21	16	1.84
35180622--35180734	9	12.4	9	86	5	138	38	25	10	24	1.88
35181993--35182080	34	2.6	34	79	0	95	37	37	7	17	1.79
35194238--35194303	29	2.3	28	76	5	69	28	16	16	37	1.91
35194427--35194787	125	2.9	126	87	3	532	30	16	22	31	1.96
35199103--35199135	7	4.7	7	100	0	66	57	15	0	27	1.38
35199305--35199342	20	1.9	20	84	10	51	55	7	2	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35200372--35200448	11	6.9	11	76	19	72	44	1	29	24	1.62
35200372--35200448	33	2.3	33	82	10	102	44	1	29	24	1.62
35200393--35200447	22	2.4	23	87	6	85	45	1	29	23	1.63
35203145--35203253	40	2.7	39	80	9	105	39	20	21	19	1.93
35203408--35203570	73	2.2	73	91	4	258	29	19	23	27	1.98
35204116--35204163	21	2.2	22	85	10	64	22	6	22	47	1.73
35204131--35204170	21	1.9	21	84	0	53	25	5	20	50	1.68
35204484--35205256	147	5.3	145	73	8	532	26	17	21	34	1.96
35204731--35205261	292	1.8	295	84	2	730	25	16	22	35	1.95
35204700--35205329	147	4.3	145	69	11	347	24	16	22	35	1.95
35204692--35205329	292	2.2	294	78	5	716	25	16	22	35	1.95
35205779--35205808	14	2.1	14	93	0	51	20	6	10	63	1.47
35205808--35205832	11	2.3	11	100	0	50	0	8	36	56	1.29
35206899--35207040	69	2.1	69	93	0	239	45	4	3	45	1.42
35207147--35207396	9	27.2	9	70	19	135	46	18	2	33	1.60
35207136--35207338	34	5.8	34	74	13	148	46	18	2	32	1.64
35207197--35207342	25	6.0	25	65	22	53	45	19	2	31	1.65
35207308--35207413	25	4.2	25	78	15	96	48	17	0	33	1.48
35207256--35207396	16	7.9	17	72	20	94	47	17	0	34	1.53
35212912--35212960	21	2.3	21	89	0	71	30	16	48	4	1.64
35213177--35213234	26	2.2	26	87	6	82	31	3	1	63	1.21
35213342--35213625	43	6.6	43	89	0	370	26	19	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35220214--35220279	19	3.2	20	79	14	73	33	0	7	59	1.26
35223096--35223373	51	5.5	50	80	8	296	29	14	25	30	1.95
35223096--35223374	102	2.7	102	88	1	409	30	14	25	30	1.95
35223566--35223790	41	5.5	41	88	1	342	20	18	30	31	1.96
35224218--35224259	21	2.0	21	85	0	57	19	0	45	35	1.50
35224228--35224272	21	2.1	21	83	0	54	28	0	37	33	1.58
35228859--35228905	20	2.4	19	79	13	51	57	4	2	36	1.30
35228964--35229236	42	6.7	42	70	10	127	24	16	28	30	1.96
35229051--35229084	16	2.1	16	88	0	50	35	8	14	41	1.77
35229139--35229237	42	2.3	43	89	1	146	22	18	30	29	1.97
35235982--35236227	50	4.9	51	82	5	266	28	15	25	30	1.95
35235931--35236227	102	2.9	102	83	2	357	28	15	25	30	1.96
35235942--35236222	51	5.6	50	82	4	260	28	14	26	30	1.95
35237599--35237785	25	7.5	25	75	10	132	37	22	14	25	1.92
35237582--35237786	75	2.7	75	81	4	218	37	22	13	25	1.91
35237623--35237760	50	2.8	50	83	2	161	39	25	13	22	1.90
35241359--35241496	69	2.0	69	100	0	276	26	21	14	37	1.92
35244186--35244240	25	2.2	25	77	6	58	34	21	20	23	1.97
35244354--35244406	25	2.2	24	86	10	72	39	24	20	15	1.91
35251558--35251612	25	2.2	24	81	12	65	43	3	32	20	1.69
35251567--35251622	25	2.2	25	93	0	94	46	3	28	21	1.68
35251712--35251849	41	3.3	41	73	9	127	24	20	18	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35253281--35253357	14	5.0	15	71	20	52	42	14	9	33	1.77
35253297--35253336	20	2.0	20	90	0	62	50	12	10	27	1.72
35253285--35253351	34	1.9	35	90	3	109	46	13	8	31	1.74
35254801--35254840	21	1.9	21	85	10	55	15	32	10	42	1.79
35255419--35255477	18	3.2	18	78	2	64	22	8	25	44	1.81
35255435--35255477	9	4.8	9	91	0	59	23	6	27	41	1.80
35255637--35255661	12	2.1	12	100	0	50	16	24	36	24	1.94
35259975--35260147	10	17.0	10	72	19	94	68	0	30	0	0.94
35259969--35260205	24	10.0	24	73	15	149	69	0	30	0	0.92
35259980--35260039	5	12.4	5	77	5	61	65	0	35	0	0.93
35259975--35260109	29	4.6	29	79	10	148	68	0	31	0	0.95
35260039--35260138	6	17.2	6	72	13	50	72	0	27	1	0.92
35260011--35260152	50	2.8	51	90	5	216	69	0	29	0	0.93
35260053--35260176	36	3.2	40	73	17	118	71	0	27	0	0.91
35260131--35260201	19	3.5	19	80	17	65	70	0	29	0	0.88
35260886--35260932	8	5.8	8	78	14	51	61	0	0	38	0.96
35260539--35261307	319	2.4	311	94	2	1313	50	8	11	28	1.68
35260730--35261236	162	3.2	161	72	15	551	51	8	10	29	1.66
35266400--35266458	3	19.7	3	100	0	118	67	32	0	0	0.91
35266457--35266481	3	8.3	3	100	0	50	68	0	0	32	0.90
35266725--35266814	27	3.3	27	80	11	112	22	31	24	22	1.99
35269805--35270252	46	9.6	45	81	13	450	28	22	14	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35269896--35270014	36	3.0	36	75	21	130	29	21	13	36	1.91
35269850--35270014	82	2.0	82	95	0	294	29	21	13	35	1.92
35269978--35270246	52	5.2	52	86	6	370	27	23	14	34	1.94
35269932--35270252	98	3.3	98	87	7	438	28	22	14	34	1.94
35269946--35270238	150	2.0	150	93	0	505	28	22	15	34	1.94
35283316--35283414	42	2.4	42	91	0	153	25	27	28	19	1.98
35284217--35284328	38	2.9	39	83	2	154	37	8	9	44	1.67
35284219--35284339	39	3.1	38	77	5	127	36	8	9	45	1.68
35288476--35288527	27	1.9	27	81	14	63	51	3	1	42	1.31
35290308--35290356	20	2.7	18	77	22	57	51	4	2	42	1.32

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