genome.fa.s15.2.7.7.80.10.50.1000.107.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   

This is table  107  of  222  ( 26535 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)
34125521--34125572	23	2.3	23	100	0	104	48	13	0	38	1.43
34125521--34125585	23	2.8	23	88	4	60	50	12	0	36	1.40
34129903--34129951	20	2.5	19	77	9	53	71	4	4	20	1.19
34130777--34130819	13	3.5	13	81	18	65	48	16	0	34	1.46
34130775--34130821	23	2.0	23	100	0	94	46	17	0	36	1.48
34130779--34130828	23	2.2	23	92	0	82	52	14	0	34	1.42
34137935--34137989	3	18.3	3	100	0	110	67	0	32	0	0.91
34142626--34142764	72	1.9	72	89	2	217	30	15	11	43	1.82
34142698--34143195	89	5.7	89	81	5	498	35	13	10	40	1.79
34142698--34143195	178	2.8	175	83	6	571	35	13	10	40	1.79
34143141--34143465	167	2.0	165	87	2	472	34	10	8	46	1.70
34142697--34143544	89	9.9	84	79	7	479	34	11	10	43	1.75
34152943--34153116	40	4.3	40	81	1	179	21	29	16	31	1.96
34152958--34153120	80	2.0	80	85	2	220	20	28	17	33	1.95
34153010--34153117	20	5.4	20	67	8	67	24	32	16	26	1.96
34154632--34154894	40	6.6	40	88	3	316	26	27	20	24	1.99
34154826--34154903	40	1.9	41	82	10	97	26	28	21	23	1.99
34159674--34159763	25	3.6	25	81	11	103	28	22	21	27	1.99
34160637--34160688	20	2.7	20	72	16	56	28	9	1	59	1.40
34162596--34162628	16	2.1	16	94	0	57	36	6	12	45	1.66
34166615--34166750	40	3.4	40	92	0	209	19	33	16	30	1.94
34166655--34166720	20	3.3	20	66	8	62	15	34	18	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34166655--34166807	78	1.9	78	80	6	175	22	31	14	32	1.94
34182237--34182301	21	3.0	21	75	16	62	49	0	1	49	1.10
34182249--34182294	22	2.0	24	91	8	78	52	0	2	45	1.13
34191855--34191911	27	2.1	27	100	0	114	36	15	17	29	1.91
34205790--34205819	14	2.1	14	93	0	51	26	6	20	46	1.75
34206568--34206593	8	3.2	8	100	0	52	26	0	34	38	1.57
34209558--34209622	17	3.2	21	64	27	59	20	15	15	49	1.80
34213493--34213546	20	2.7	20	82	2	63	29	25	16	27	1.97
34213491--34213546	21	2.7	21	80	2	69	28	25	17	28	1.98
34217424--34217515	37	2.5	36	85	5	130	13	14	31	41	1.83
34218636--34218678	19	2.3	19	88	8	61	25	6	4	62	1.40
34219012--34219161	27	5.6	26	76	15	96	28	25	16	30	1.97
34219031--34219324	54	5.4	53	77	11	199	27	24	17	29	1.97
34219117--34219320	26	7.6	26	80	3	156	27	25	17	28	1.98
34219094--34219270	52	3.3	52	78	9	160	29	24	15	30	1.95
34221796--34221829	17	2.0	17	94	0	59	32	11	2	52	1.53
34221797--34221838	17	2.4	17	88	4	57	33	16	2	47	1.60
34223247--34223346	35	2.9	34	82	5	119	36	14	26	24	1.93
34223087--34223310	114	2.0	113	90	4	353	32	17	25	25	1.97
34224143--34224220	39	2.0	39	94	0	138	51	20	3	24	1.64
34231159--34231183	12	2.1	12	100	0	50	44	8	0	48	1.32
34231415--34231453	21	1.9	20	84	5	51	12	12	23	51	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34237183--34237404	40	5.6	39	81	4	196	26	28	20	24	1.99
34237336--34237413	40	1.9	41	82	10	97	26	28	20	24	1.99
34244716--34244887	40	4.3	40	87	1	202	26	27	21	24	1.99
34244718--34244940	40	5.6	39	81	3	196	26	27	21	25	1.99
34244716--34244940	80	2.8	78	79	6	218	26	27	21	24	1.99
34246532--34246572	18	2.3	18	80	12	50	24	0	2	73	0.96
34249657--34249713	28	2.0	28	83	6	71	54	1	7	36	1.38
34250631--34250748	60	2.0	60	81	8	143	38	4	15	42	1.66
34250749--34250952	63	3.3	61	83	8	220	32	7	17	42	1.78
34251082--34251185	41	2.5	41	79	3	111	21	20	25	32	1.97
34257777--34257805	14	2.0	15	93	6	51	27	0	20	51	1.47
34269733--34269904	40	4.3	40	87	1	202	26	27	21	24	1.99
34269735--34269957	40	5.6	39	81	3	196	26	27	21	25	1.99
34269733--34269957	80	2.8	78	79	6	218	26	27	21	24	1.99
34271551--34271591	18	2.3	18	80	12	50	24	0	2	73	0.96
34274679--34274735	28	2.0	28	83	6	71	54	1	7	36	1.38
34275695--34275737	21	2.0	22	86	13	63	44	0	13	41	1.44
34275695--34275738	20	2.1	21	84	12	56	45	0	13	40	1.44
34275659--34275778	61	2.0	61	83	8	156	39	4	15	41	1.66
34275779--34275985	64	3.3	63	84	9	239	32	7	17	42	1.78
34276118--34276221	41	2.5	41	79	3	111	21	20	25	32	1.97
34282967--34282995	14	2.0	15	93	6	51	27	0	20	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34283187--34283242	28	2.0	28	89	6	87	55	0	5	39	1.23
34289120--34289148	14	2.0	15	93	6	51	27	0	20	51	1.47
34290355--34290397	21	2.0	22	86	13	63	44	0	13	41	1.44
34290355--34290398	20	2.1	21	84	12	56	45	0	13	40	1.44
34290319--34290438	61	2.0	61	83	8	156	39	4	15	41	1.66
34290380--34290509	69	1.9	69	81	9	158	35	6	15	43	1.72
34295549--34295597	23	2.0	25	84	11	66	40	8	8	42	1.64
34295733--34295884	59	2.5	61	82	7	177	51	3	3	40	1.39
34297369--34297413	17	2.6	17	96	0	81	33	22	11	33	1.89
34298500--34298671	60	2.9	59	83	3	202	37	15	23	23	1.93
34303129--34303173	23	2.0	23	95	0	81	37	17	13	31	1.89
34308388--34308476	42	2.1	42	87	4	126	13	29	28	29	1.94
34309287--34309481	50	3.9	50	78	8	193	28	21	27	22	1.99
34317369--34317420	26	2.0	26	100	0	104	23	15	30	30	1.95
34323085--34323139	14	3.7	14	80	7	56	20	1	1	76	0.97
34326157--34326199	6	7.2	6	79	10	52	30	6	0	62	1.21
34327625--34327664	19	2.1	19	90	9	64	30	10	10	50	1.69
34333265--34333314	26	2.0	26	84	7	68	50	12	16	22	1.77
34334511--34334544	14	2.4	14	95	0	59	17	41	29	11	1.85
34334778--34334870	22	4.2	21	84	11	116	20	30	1	48	1.57
34334778--34334870	11	8.5	10	88	8	105	20	30	1	48	1.57
34334778--34334870	44	2.1	44	86	11	129	20	30	1	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34339227--34339281	21	2.6	21	82	0	56	32	45	14	7	1.72
34339396--34339494	34	3.0	33	74	14	98	41	9	6	43	1.61
34342495--34342911	126	3.3	126	92	0	690	25	22	18	32	1.97
34342950--34343225	96	2.9	96	81	4	326	40	15	2	40	1.63
34344359--34344390	5	6.4	5	100	0	64	62	18	0	18	1.33
34345429--34345457	6	4.8	6	100	0	58	17	0	0	82	0.66
34345860--34345898	13	3.2	12	86	13	53	15	2	7	74	1.15
34345906--34345938	15	2.2	15	94	0	57	24	0	12	63	1.28
34347475--34347511	9	4.1	9	92	0	65	45	13	10	29	1.77
34347725--34347782	30	1.9	30	89	0	89	18	37	0	43	1.51
34349657--34349694	19	2.0	19	89	0	58	34	23	7	34	1.84
34350384--34350501	41	2.8	41	85	5	157	34	0	0	63	1.06
34350419--34350482	30	2.1	29	88	11	94	34	1	0	64	1.03
34350408--34350478	11	6.6	11	73	22	53	38	1	0	60	1.06
34351421--34351480	29	2.1	28	81	6	68	30	8	8	53	1.60
34354986--34355046	18	3.4	17	80	11	59	8	19	3	68	1.29
34355970--34356010	13	3.0	14	92	7	75	21	14	0	63	1.30
34355970--34356028	27	2.2	27	81	3	66	22	16	1	59	1.46
34356043--34356082	13	3.2	13	89	7	64	12	5	10	72	1.26
34356043--34356086	12	3.6	12	81	6	52	13	6	13	65	1.44
34360558--34360689	43	3.1	43	83	1	167	28	14	25	31	1.95
34361589--34361925	169	2.0	169	96	0	620	29	19	15	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34362314--34362393	35	2.3	35	84	4	99	22	20	17	40	1.92
34362328--34362416	35	2.5	35	76	8	90	25	21	11	41	1.86
34365037--34365119	20	4.3	20	73	22	70	31	3	1	63	1.19
34367966--34368112	75	2.0	75	82	2	179	46	12	13	27	1.79
34369044--34369097	25	2.2	24	83	3	63	64	3	1	29	1.21
34370303--34370956	116	5.6	117	72	11	411	16	17	16	48	1.81
34377697--34377766	31	2.3	31	85	2	88	21	14	18	45	1.84
34378909--34378933	8	3.1	8	100	0	50	12	0	0	88	0.53
34378927--34378955	11	2.6	11	100	0	58	37	0	0	62	0.96
34378938--34378975	18	2.1	18	90	5	58	36	0	0	63	0.95

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222