genome.fa.s26.2.7.7.80.10.50.1000.99.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  99  of  221  ( 26413 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)
30312567--30312701	50	2.7	50	79	3	157	34	12	15	37	1.85
30314129--30314179	25	2.0	25	100	0	102	15	17	23	43	1.88
30314876--30314910	18	1.9	18	88	0	52	68	0	22	8	1.16
30314854--30314919	28	2.4	26	75	9	60	68	0	25	6	1.13
30317342--30317386	24	2.0	24	82	8	58	40	26	4	28	1.75
30333510--30333635	51	2.5	50	82	1	162	34	13	14	37	1.85
30335165--30335204	20	2.0	20	100	0	80	40	20	10	30	1.85
30337779--30337808	8	3.8	8	95	0	51	16	0	13	70	1.18
30343710--30343746	4	9.0	4	88	5	56	24	2	2	70	1.14
30343710--30343755	21	2.2	21	88	0	65	21	4	2	71	1.14
30343712--30343744	17	1.9	17	93	0	57	24	3	3	69	1.16
30345518--30345543	9	2.9	9	100	0	52	57	0	30	11	1.34
30367170--30367211	19	2.2	19	86	0	57	38	0	47	14	1.44
30367176--30367228	15	3.5	16	83	16	69	35	0	47	16	1.48
30369289--30369366	29	2.7	28	80	11	95	25	14	30	29	1.94
30369319--30369646	174	1.9	174	98	0	629	30	14	24	31	1.94
30373644--30373708	20	3.3	19	73	16	51	38	16	21	23	1.93
30374974--30375007	18	1.9	18	88	5	52	8	35	2	52	1.47
30376033--30376109	32	2.6	29	82	11	100	9	12	6	71	1.30
30376089--30376125	12	3.1	12	88	0	56	13	8	2	75	1.13
30377771--30377835	20	3.3	19	73	16	51	38	16	21	23	1.93
30382940--30382999	25	2.4	25	73	13	61	26	25	21	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30391030--30391207	27	6.6	27	83	3	205	26	15	28	29	1.96
30391031--30391186	82	1.9	81	88	3	233	26	15	28	29	1.96
30391027--30391207	82	2.2	81	83	2	229	27	15	27	29	1.96
30413458--30413513	14	3.5	16	85	14	80	19	10	5	64	1.44
30413553--30413583	11	2.8	11	100	0	62	9	0	6	83	0.79
30416331--30416370	15	2.9	13	86	13	62	25	15	2	57	1.50
30417937--30417962	13	2.0	13	100	0	52	23	23	30	23	1.99
30421373--30421438	22	3.0	22	80	8	64	19	10	25	43	1.83
30421390--30421482	48	1.9	48	82	4	116	16	12	26	44	1.84
30423361--30423453	23	4.0	23	78	2	89	45	23	15	16	1.85
30425729--30425767	20	1.9	21	89	5	62	23	28	12	35	1.91
30426157--30426182	13	2.0	13	100	0	52	46	0	7	46	1.31
30428770--30428919	55	2.8	54	80	4	149	26	15	29	28	1.96
30428742--30428919	27	6.6	27	77	6	146	25	15	28	30	1.96
30428743--30428898	82	1.9	81	81	6	190	25	16	28	30	1.96
30436773--30436922	55	2.8	54	80	4	149	26	15	29	28	1.96
30436745--30436922	27	6.6	27	77	6	146	25	15	28	30	1.96
30436746--30436901	82	1.9	81	81	6	190	25	16	28	30	1.96
30439144--30439480	39	8.6	39	84	5	421	28	4	20	45	1.71
30439144--30439480	79	4.3	78	87	4	432	28	4	20	45	1.71
30439144--30439480	118	2.9	114	84	4	431	28	4	20	45	1.71
30442774--30442960	49	3.8	49	87	0	248	31	26	19	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30448441--30448580	50	2.8	50	80	4	156	27	21	28	22	1.99
30456830--30456856	6	4.5	6	100	0	54	0	33	0	66	0.92
30462285--30462321	20	1.9	18	89	10	56	59	2	8	29	1.40
30466561--30466600	20	1.9	22	85	10	57	20	5	15	60	1.53
30470214--30470487	33	7.5	33	71	20	197	32	27	18	20	1.97
30470208--30470489	75	3.8	75	93	1	485	32	27	19	20	1.97
30470318--30470454	42	3.5	41	72	22	141	33	27	17	21	1.96
30477261--30477373	57	2.0	57	100	0	226	38	15	7	37	1.77
30477824--30477873	26	1.9	26	95	0	91	30	32	22	16	1.95
30477851--30477987	42	3.5	42	76	17	175	33	25	18	21	1.97
30477893--30478020	33	3.6	33	74	17	121	35	25	19	19	1.95
30477847--30478022	75	2.3	75	95	0	307	33	26	19	21	1.97
30484516--30484565	23	2.2	23	96	0	91	48	16	14	22	1.81
30484529--30484577	23	2.1	23	84	0	62	48	16	14	20	1.80
30484863--30484960	41	2.4	40	81	1	115	32	18	17	31	1.94
30487335--30487407	24	3.1	24	78	7	78	32	27	16	23	1.96
30499600--30499660	20	3.1	20	80	4	70	32	9	11	45	1.73
30502689--30502749	22	2.8	22	87	5	79	45	3	1	49	1.28
30502707--30502750	22	2.0	22	100	0	88	45	4	0	50	1.22
30504465--30504508	4	11.0	4	100	0	88	25	0	25	50	1.50
30519980--30520064	27	3.1	27	70	0	71	18	27	20	34	1.96
30521572--30521621	27	1.9	27	84	8	68	56	20	0	24	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30521952--30522013	30	2.1	30	96	0	115	58	14	3	24	1.51
30523695--30523736	20	2.1	20	95	0	75	50	23	7	19	1.72
30524225--30524294	24	2.8	25	73	16	65	55	2	1	40	1.23
30526559--30526639	41	2.0	41	95	0	144	30	4	14	49	1.65
30530419--30530501	41	2.0	41	85	0	112	32	8	10	48	1.68
30539940--30540016	39	2.0	39	100	0	154	31	12	6	49	1.67
30539953--30540016	21	3.2	21	62	20	55	31	14	6	48	1.68
30546053--30546118	33	2.0	33	100	0	132	30	18	12	39	1.87
30548809--30548889	40	2.0	40	100	0	162	46	2	17	33	1.61
30549273--30549313	20	2.0	20	86	9	57	46	2	0	51	1.14
30549399--30549447	23	2.1	23	85	7	64	42	0	8	48	1.32
30549532--30549569	18	2.2	17	95	4	67	52	0	0	47	1.00
30553500--30553637	51	2.7	51	84	3	172	31	17	26	25	1.97
30554471--30554539	26	2.7	26	80	6	70	27	26	20	26	1.99
30556216--30556259	23	1.9	24	90	9	74	36	9	11	43	1.72
30557146--30557499	27	12.9	27	72	13	186	19	17	19	43	1.88
30557146--30557433	54	5.4	54	75	8	255	20	17	19	43	1.89
30557159--30557433	81	3.4	80	75	12	251	20	16	20	42	1.89
30557405--30557473	35	2.0	35	91	0	111	17	17	20	44	1.86
30557378--30557501	62	2.0	62	87	0	176	17	17	20	44	1.87
30560985--30561163	27	6.6	27	92	2	268	26	13	28	30	1.95
30560985--30561163	55	3.3	54	94	1	295	26	13	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30560985--30561163	82	2.2	82	93	0	304	26	13	28	30	1.95
30569035--30569209	27	6.4	27	90	3	253	26	13	28	31	1.94
30569035--30569209	55	3.2	53	93	3	278	26	13	28	31	1.94
30569035--30569209	81	2.1	82	93	1	298	26	13	28	31	1.94
30587084--30587153	27	2.6	26	95	2	95	31	28	12	27	1.93
30587084--30587181	28	3.5	28	90	2	135	31	28	13	26	1.94
30599328--30599356	14	2.0	15	93	6	51	27	0	20	51	1.47
30600497--30600621	43	2.9	42	79	10	146	22	19	28	29	1.98
30601462--30601534	23	3.1	23	76	3	83	24	20	15	39	1.91
30601565--30601608	23	1.9	23	85	0	61	29	15	13	40	1.86
30601595--30601656	23	2.5	24	77	15	65	29	11	19	40	1.86
30601580--30601666	23	3.7	23	70	17	61	32	9	18	40	1.82
30603146--30603296	75	2.0	75	96	0	275	37	14	25	22	1.92
30607039--30607099	15	3.8	16	79	14	72	21	0	27	50	1.49
30610896--30610946	24	2.0	28	85	14	74	54	0	0	45	0.99
30612306--30612547	50	4.9	50	82	2	247	21	28	21	28	1.99
30622554--30622600	21	2.2	21	84	0	58	44	17	2	36	1.60
30622783--30622913	41	3.2	41	85	4	140	29	23	19	28	1.98
30624522--30624570	25	2.0	25	88	8	73	51	2	0	46	1.12
30627053--30627092	19	2.1	19	85	0	53	32	22	22	22	1.98
30639519--30639559	22	1.9	21	85	14	57	73	2	7	17	1.17
30642993--30643180	99	1.9	99	90	2	297	31	17	19	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30648728--30648842	37	3.1	36	76	7	97	35	13	13	36	1.85
30648755--30648860	37	2.8	37	81	4	115	30	14	16	38	1.89
30656825--30657092	40	6.7	40	94	0	464	22	26	20	30	1.98
30665374--30665623	38	6.7	39	84	12	314	23	25	20	30	1.98
30665374--30665619	74	3.3	75	89	7	360	22	25	20	30	1.98
30689246--30689279	7	4.5	8	92	7	54	70	0	17	11	1.16
30689247--30689289	14	3.1	14	86	6	52	65	0	20	13	1.27
30690646--30690932	44	6.5	44	72	9	210	31	18	20	29	1.97
30690646--30691045	219	1.8	219	90	1	649	33	17	20	29	1.95
30691069--30692233	50	23.3	50	69	8	639	31	24	21	23	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   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