genome.fa.s24.2.7.7.80.10.50.1000.130.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   

This is table  130  of  240  ( 28759 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)
40401364--40401690	110	3.0	110	93	2	539	33	20	16	29	1.95
40401998--40402072	39	1.9	39	86	0	105	53	4	8	34	1.49
40402000--40402082	39	2.1	39	81	0	94	54	6	7	32	1.52
40402123--40402187	25	2.7	25	77	13	73	53	3	9	33	1.48
40402152--40402197	23	2.0	23	82	0	56	56	4	4	34	1.39
40402209--40402254	3	15.3	3	90	0	74	65	2	2	30	1.16
40404698--40404793	19	4.6	22	86	11	100	37	14	9	38	1.79
40404688--40404745	22	2.6	22	81	7	64	41	13	5	39	1.67
40404726--40404798	19	3.7	19	91	7	119	35	16	10	36	1.84
40407623--40407656	17	2.0	17	100	0	68	64	0	0	35	0.94
40407561--40407657	11	8.6	11	70	22	69	61	0	2	36	1.07
40409192--40409345	50	3.0	50	81	5	146	22	28	22	26	1.99
40409214--40409349	56	2.6	52	86	6	168	22	28	21	27	1.99
40415365--40415657	50	5.8	50	77	4	223	24	26	19	28	1.99
40415415--40415654	100	2.3	104	84	4	299	24	28	19	27	1.98
40415472--40415657	50	3.6	51	85	5	232	23	29	20	26	1.99
40423528--40423563	18	2.0	18	88	0	54	41	0	8	50	1.33
40428026--40428063	20	1.9	20	88	0	58	36	26	28	7	1.84
40435019--40435082	33	1.9	33	84	12	87	34	0	15	50	1.45
40436566--40436603	16	2.3	17	95	4	69	34	7	15	42	1.76
40451909--40451943	18	1.9	18	100	0	70	51	2	0	45	1.16
40452363--40452387	13	1.9	13	100	0	50	56	8	28	8	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40455173--40455254	19	4.3	19	78	6	85	13	35	19	31	1.90
40455159--40455234	38	2.0	38	92	0	125	14	34	22	28	1.93
40455382--40455680	43	7.0	43	84	2	363	27	31	16	24	1.97
40455382--40455680	85	3.5	84	84	2	375	27	31	16	24	1.97
40470098--40470138	20	2.1	20	86	4	57	29	2	7	60	1.36
40474525--40474578	25	2.2	25	82	0	63	22	18	31	27	1.97
40475073--40475107	14	2.5	14	90	0	52	51	8	11	28	1.67
40477485--40477516	7	4.6	7	100	0	64	25	0	75	0	0.81
40479724--40479749	13	2.0	13	100	0	52	46	0	15	38	1.46
40479734--40479803	36	1.9	37	97	2	133	41	7	14	37	1.73
40480343--40480375	17	2.0	17	88	5	50	30	24	12	33	1.91
40481947--40482009	21	3.2	20	72	20	60	41	7	4	46	1.54
40503758--40503798	20	2.1	20	86	4	57	29	2	7	60	1.36
40508755--40508789	14	2.5	14	90	0	52	51	8	11	28	1.67
40511183--40511214	7	4.6	7	100	0	64	25	0	75	0	0.81
40513425--40513450	13	2.0	13	100	0	52	46	0	15	38	1.46
40513435--40513505	37	1.9	37	97	0	133	42	7	14	36	1.72
40514047--40514079	17	2.0	17	88	5	50	30	24	12	33	1.91
40524313--40524645	70	4.9	69	77	7	275	29	17	24	28	1.97
40524438--40524570	63	2.1	63	91	1	214	30	16	24	28	1.96
40524332--40524580	133	1.8	137	82	6	326	29	17	24	28	1.97
40524332--40524646	133	2.3	135	80	4	319	30	17	24	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40526144--40526191	20	2.4	20	82	0	60	39	14	18	27	1.90
40527920--40528070	9	16.6	9	68	16	62	65	3	2	27	1.24
40528094--40528137	22	2.0	22	90	0	70	56	9	0	34	1.31
40528315--40528349	3	12.0	3	87	6	54	31	2	0	65	1.07
40528635--40528702	23	3.1	22	70	23	54	29	5	1	63	1.27
40529540--40529577	3	12.7	3	100	0	76	65	0	0	34	0.93
40530803--40530843	22	2.0	21	90	9	66	63	4	4	26	1.35
40532400--40532930	87	6.1	87	92	0	875	24	23	23	28	2.00
40532944--40533166	44	5.1	44	65	4	162	21	25	25	27	2.00
40532864--40533231	88	4.2	88	88	2	508	21	23	25	29	1.99
40534430--40534490	5	12.0	5	75	16	54	1	1	13	83	0.79
40534445--40534486	7	5.7	7	83	10	57	0	0	11	88	0.53
40534427--40534489	15	4.2	15	86	9	85	1	1	11	85	0.73
40534566--40534598	14	2.3	15	89	5	50	27	33	12	27	1.92
40538832--40538872	22	2.0	21	90	9	66	63	4	4	26	1.35
40540240--40540264	3	8.3	3	100	0	50	68	32	0	0	0.90
40540416--40540462	18	2.6	18	86	3	58	40	4	6	48	1.48
40545185--40545231	18	2.6	18	86	6	69	74	4	0	21	0.99
40545185--40545233	6	8.2	6	76	0	53	75	4	0	20	0.96
40545201--40545249	24	2.0	24	84	7	64	69	4	0	26	1.06
40547804--40547883	30	2.7	30	84	3	99	35	21	13	30	1.92
40549838--40549879	21	2.0	21	86	9	59	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40550562--40550598	11	3.3	11	92	3	56	67	0	2	29	1.04
40551147--40551177	14	2.2	14	100	0	62	41	19	19	19	1.90
40551194--40551232	20	1.9	21	89	5	62	20	10	5	64	1.44
40555197--40555392	40	4.9	40	83	3	225	25	26	16	32	1.96
40560820--40560861	21	2.0	22	85	4	59	7	7	7	78	1.09
40571299--40571323	13	1.9	13	100	0	50	56	8	0	36	1.29
40579112--40579213	51	2.0	51	94	0	177	27	32	17	22	1.96
40581515--40581692	27	6.6	27	85	3	214	30	28	14	26	1.95
40581536--40581691	82	1.9	81	89	3	242	30	28	14	26	1.95
40589421--40589598	27	6.6	27	85	3	214	30	28	14	26	1.95
40589442--40589597	82	1.9	81	89	3	242	30	28	14	26	1.95
40592038--40592074	18	2.1	18	89	0	56	16	10	0	72	1.10
40594784--40594833	25	2.0	26	96	4	93	4	26	4	66	1.27
40600285--40600641	47	7.6	47	89	1	525	32	8	30	28	1.88
40600285--40600641	143	2.5	143	90	1	533	32	8	30	28	1.88
40600285--40600641	190	1.9	188	92	1	606	32	8	30	28	1.88
40602866--40603133	40	6.7	40	88	3	389	23	22	28	25	1.99
40603345--40603453	57	1.9	57	88	1	164	23	19	28	28	1.98
40607303--40607659	47	7.6	47	90	1	534	32	8	29	28	1.88
40607303--40607659	143	2.5	143	90	1	542	32	8	29	28	1.88
40607303--40607659	190	1.9	188	93	1	615	32	8	29	28	1.88
40609571--40609761	99	1.9	100	82	3	242	25	24	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40619092--40619138	24	1.9	24	86	4	67	36	0	38	25	1.56
40619799--40620022	81	2.8	81	87	0	304	42	18	16	21	1.89
40619799--40620024	27	8.4	27	83	1	265	42	18	16	22	1.89
40630314--40630402	37	2.5	35	85	7	110	33	25	12	28	1.92
40630587--40630787	41	4.9	41	80	8	160	25	27	17	28	1.98
40630629--40630781	82	1.9	82	82	8	186	25	28	18	27	1.98
40637502--40637734	54	4.1	54	74	14	234	42	1	7	47	1.42
40637517--40637602	28	3.1	27	65	24	63	46	2	8	43	1.46
40637604--40637655	15	3.6	15	80	12	56	44	0	1	53	1.11
40637556--40637771	120	1.8	120	100	0	432	42	1	6	49	1.38
40637733--40637774	15	2.7	16	82	14	52	45	0	2	52	1.13
40637724--40637765	15	2.9	15	82	10	52	47	0	0	52	1.00
40637990--40638025	16	2.2	16	100	0	72	38	36	0	25	1.56
40645977--40646007	11	2.8	11	100	0	62	19	25	6	48	1.72
40647218--40647243	7	3.7	7	100	0	52	26	0	15	57	1.38
40647885--40647927	18	2.4	19	84	7	54	20	30	9	39	1.84
40648410--40648448	7	5.7	7	85	14	55	46	0	0	53	1.00
40648477--40648522	21	2.2	21	92	0	74	43	28	0	28	1.55
40648484--40648531	21	2.4	21	86	6	64	45	22	0	31	1.53
40648596--40648711	22	5.4	22	78	15	127	46	30	0	23	1.52
40648596--40648714	43	2.8	43	83	3	170	45	31	0	23	1.53
40648778--40648901	59	2.1	58	93	1	212	41	11	8	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40652170--40652212	22	2.0	22	86	9	61	48	30	0	20	1.50
40653108--40653166	21	2.8	21	100	0	118	45	0	0	54	0.99
40653406--40653518	19	5.8	19	81	4	145	39	10	15	33	1.82
40653407--40653513	40	2.7	40	86	2	155	40	11	14	33	1.82
40654149--40654192	22	2.0	23	90	4	72	29	9	4	56	1.50
40654822--40655018	98	2.0	98	93	0	340	26	10	25	37	1.88
40656201--40656247	17	2.7	18	80	9	62	63	0	2	34	1.06
40656372--40656401	16	1.9	16	93	6	53	26	0	3	70	1.03
40668141--40668242	41	2.5	40	87	6	141	28	24	19	27	1.99
40674084--40674269	51	3.7	50	79	2	174	26	17	28	27	1.97

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240