genome.fa.s26.2.7.7.80.10.50.1000.123.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: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  96304692

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   

This is table  123  of  313  ( 37448 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)
39745092--39745123	13	2.5	13	94	0	55	56	12	0	31	1.37
39745335--39745392	30	1.9	30	89	0	89	31	24	3	41	1.71
39754734--39754767	11	3.1	11	91	0	59	17	32	2	47	1.63
39754830--39755043	112	1.9	112	93	0	365	45	7	7	39	1.59
39755413--39755443	11	2.8	11	95	0	53	48	3	29	19	1.64
39756829--39756878	23	2.0	24	85	11	66	54	0	8	38	1.30
39758396--39758471	30	2.5	31	89	6	118	56	6	3	32	1.43
39758690--39758747	24	2.4	24	82	0	71	56	6	3	32	1.42
39758754--39758815	23	2.8	19	76	21	52	54	3	1	40	1.26
39761178--39761746	103	5.5	103	84	3	698	35	15	18	30	1.92
39761178--39761746	308	1.8	310	90	2	930	35	15	18	30	1.92
39763341--39764073	106	7.0	106	91	2	1068	33	19	13	33	1.91
39764700--39765041	154	2.3	149	87	4	474	54	6	8	29	1.56
39770658--39770683	13	2.0	13	100	0	52	38	0	7	53	1.30
39771899--39771943	24	1.9	24	86	13	67	33	0	4	62	1.15
39774997--39775029	14	2.4	14	94	0	57	42	0	12	45	1.41
39788117--39788168	11	4.7	11	79	6	52	17	1	46	34	1.59
39790348--39790393	13	3.6	13	82	5	58	56	4	4	34	1.39
39790600--39790705	40	2.7	39	91	4	169	35	23	22	17	1.95
39790598--39790737	40	3.5	40	80	4	158	37	22	20	20	1.94
39790772--39790922	41	3.7	39	83	10	162	21	23	24	30	1.99
39790772--39790922	81	1.9	81	83	8	200	21	23	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39791180--39791216	14	2.6	14	91	0	56	27	0	27	45	1.54
39791391--39791547	81	1.9	83	90	2	255	27	0	28	43	1.60
39796588--39796618	15	2.1	15	93	0	53	48	0	32	19	1.49
39796861--39797131	43	6.3	43	80	3	262	19	16	31	31	1.95
39796861--39797129	86	3.2	86	80	4	294	20	17	31	31	1.95
39798517--39798571	15	3.4	16	80	16	53	50	1	0	47	1.11
39798537--39798571	18	2.0	17	88	5	52	54	0	0	45	0.99
39798625--39798706	26	3.0	27	75	12	87	52	2	1	43	1.22
39801746--39801809	33	1.9	33	96	0	119	32	7	17	42	1.78
39801834--39801873	18	2.2	18	95	0	71	22	2	25	50	1.62
39804931--39804972	6	7.0	6	100	0	84	0	50	0	50	1.00
39814218--39814316	49	2.0	49	98	0	189	28	14	25	32	1.94
39815285--39815323	19	2.1	19	85	0	51	64	12	7	15	1.49
39826794--39826831	19	2.0	19	100	0	76	42	10	31	15	1.81
39834547--39834635	45	2.0	45	84	4	117	42	12	31	13	1.81
39838481--39838506	13	2.0	13	100	0	52	84	0	0	15	0.62
39839160--39839185	7	3.7	7	100	0	52	84	0	15	0	0.62
39843753--39844060	43	7.4	42	75	12	244	28	28	19	23	1.98
39843727--39843986	86	3.1	86	83	7	288	26	29	18	25	1.98
39845986--39846019	7	4.9	7	96	0	59	29	52	0	17	1.45
39847726--39847937	107	2.0	107	95	1	381	23	31	20	25	1.98
39850864--39851046	40	4.6	39	81	6	179	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39850900--39851081	79	2.3	80	80	3	190	26	20	27	24	1.99
39852002--39852035	11	3.1	11	91	0	59	44	14	5	35	1.70
39852937--39852980	19	2.3	20	84	7	56	27	20	11	40	1.86
39855030--39855076	6	7.7	6	81	11	51	87	10	0	2	0.63
39855030--39855077	12	3.8	12	83	10	60	87	10	0	2	0.62
39855031--39855064	15	2.3	15	95	5	61	88	11	0	0	0.52
39855030--39855069	14	2.6	16	84	15	57	87	12	0	0	0.54
39855030--39855077	21	2.3	20	86	13	71	87	10	0	2	0.62
39855030--39855077	25	1.9	24	87	8	69	87	10	0	2	0.62
39855030--39855077	13	3.7	13	81	10	62	87	10	0	2	0.62
39857621--39858254	248	2.5	250	95	0	1110	35	19	18	26	1.95
39857621--39858254	125	5.1	125	96	0	1101	35	19	18	26	1.95
39863672--39863829	41	3.9	41	89	0	226	30	27	21	20	1.98
39864376--39864426	18	2.7	19	72	16	52	37	0	0	62	0.95
39867857--39868126	90	3.0	88	80	5	247	41	17	17	24	1.90
39867933--39868126	90	2.2	91	85	6	270	43	15	17	23	1.87
39875636--39875702	30	2.2	31	94	2	118	38	5	26	28	1.80
39880279--39880356	15	5.2	15	70	11	70	43	7	23	25	1.80
39880272--39880356	30	2.8	30	96	0	152	44	7	23	24	1.78
39883848--39883900	26	2.0	27	82	10	65	49	7	15	28	1.71
39885074--39885129	11	5.2	11	75	12	53	58	1	0	39	1.08
39894954--39894983	16	1.9	16	93	6	53	60	20	3	16	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39899158--39899201	21	2.1	21	100	0	88	25	27	13	34	1.93
39903901--39903932	3	10.7	3	100	0	64	34	0	0	65	0.93
39907019--39907082	31	2.2	28	83	13	76	25	26	4	43	1.74
39912368--39912438	24	2.9	25	80	2	90	30	18	22	28	1.97
39919081--39919121	21	2.0	21	90	0	64	29	21	29	19	1.98
39924085--39924126	10	4.1	10	80	14	50	61	0	2	35	1.09
39924086--39924126	11	3.7	11	81	12	57	63	0	2	34	1.08
39927688--39927741	23	2.4	23	87	6	76	59	7	1	31	1.36
39927691--39927761	3	23.3	3	74	8	63	61	5	1	30	1.27
39928228--39928265	11	3.2	12	88	11	60	47	0	52	0	1.00
39928376--39928403	1	28.0	1	100	0	56	0	0	0	100	0.00
39928763--39928787	8	3.1	8	100	0	50	24	12	52	12	1.72
39928922--39928952	14	2.2	14	94	0	53	64	0	9	25	1.24
39928944--39929035	13	6.9	13	71	18	73	39	4	21	34	1.73
39928930--39929035	40	2.7	40	95	2	187	41	3	20	33	1.70
39931532--39931601	9	7.8	8	75	23	52	22	1	2	72	1.05
39931533--39931601	16	3.7	19	78	19	67	23	1	2	72	1.06
39931555--39931592	11	3.5	11	82	3	51	23	2	2	71	1.12
39931607--39931669	18	3.4	19	79	14	60	44	0	3	52	1.17
39931612--39931671	20	3.0	20	78	9	61	43	0	3	53	1.17
39933740--39933765	3	8.7	3	100	0	52	65	0	0	34	0.93
39933891--39933924	17	2.0	17	94	0	59	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39934717--39934764	15	3.2	15	81	0	60	20	33	8	37	1.83
39939276--39939319	6	7.3	6	81	0	52	22	40	0	36	1.54
39944320--39944380	30	2.0	30	100	0	122	32	21	19	26	1.97
39944944--39945134	97	2.0	96	84	1	247	33	11	21	32	1.90
39953849--39953889	20	2.0	20	100	0	82	31	9	43	14	1.78
39959036--39959134	26	3.8	26	93	0	126	30	18	12	39	1.87
39965741--39965828	45	2.0	45	93	4	151	34	2	5	57	1.34
39966247--39966303	20	2.8	20	76	10	62	38	21	8	31	1.84
39969601--39969738	50	2.8	50	82	2	152	25	18	21	34	1.96
39969654--39970191	99	5.4	99	90	0	792	22	19	24	34	1.97
39969654--39970179	50	10.7	49	70	6	281	21	19	24	33	1.97
39981261--39981287	14	1.9	14	100	0	54	70	0	0	29	0.88
39991975--39992024	16	3.1	16	75	16	50	56	0	2	42	1.11
39993990--39994053	22	3.0	21	70	20	60	56	4	6	32	1.45
39994510--39994547	11	3.5	11	85	3	51	18	0	2	78	0.86
40000104--40000164	27	2.2	27	97	2	113	24	18	21	36	1.95
40000104--40000174	27	2.6	27	91	6	99	25	18	22	33	1.96
40004300--40004356	25	2.3	24	85	11	71	33	7	3	56	1.43
40010101--40010151	26	1.9	27	84	11	70	60	3	1	33	1.26
40011291--40011320	15	2.0	15	100	0	60	46	26	6	20	1.75
40016672--40016775	52	2.0	52	94	3	183	34	25	11	27	1.91
40040190--40040220	3	10.3	3	100	0	62	32	0	32	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40043596--40043625	11	2.9	10	90	9	51	76	0	23	0	0.78
40049389--40049444	25	2.2	25	90	6	87	33	19	7	39	1.79
40060346--40060386	22	2.0	20	85	9	55	46	4	0	48	1.23
40061917--40061993	31	2.6	30	77	22	83	68	6	1	23	1.20
40070078--40070205	49	2.6	50	82	5	143	38	21	4	35	1.74
40070440--40070556	59	1.9	61	81	11	143	41	10	9	39	1.71
40073866--40073890	13	1.9	13	100	0	50	16	0	4	80	0.87
40079820--40079859	20	2.0	20	85	0	53	32	20	2	45	1.64
40082740--40082772	3	11.0	3	100	0	66	0	33	0	66	0.92
40099208--40099317	45	2.6	43	80	9	129	33	5	29	31	1.80

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313