genome.fa.s26.2.7.7.80.10.50.1000.180.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  180  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)
55802575--55802605	16	1.9	16	93	0	53	32	3	6	58	1.40
55806953--55806996	2	22.0	2	100	0	88	50	0	50	0	1.00
55811804--55811849	23	2.0	23	95	0	83	36	34	15	13	1.86
55812203--55812290	42	2.1	41	85	4	115	42	10	11	36	1.75
55815483--55815509	9	3.0	9	100	0	54	55	11	0	33	1.35
55815790--55815829	21	1.9	21	89	0	62	32	40	0	27	1.57
55815852--55815889	14	2.7	15	88	12	62	42	31	0	26	1.56
55816041--55816100	24	2.5	24	86	2	86	61	0	0	38	0.96
55816048--55816089	12	3.5	12	78	12	50	61	0	0	38	0.96
55816053--55816099	13	3.8	12	78	13	51	65	0	0	34	0.93
55816583--55816827	41	5.8	41	83	9	312	30	33	19	17	1.94
55816605--55816705	51	2.0	51	92	0	166	30	36	18	13	1.90
55816879--55816990	40	2.8	39	76	11	111	25	24	16	33	1.95
55824789--55824841	18	3.0	17	91	5	79	39	1	1	56	1.21
55825001--55825093	44	2.1	46	91	4	154	37	30	4	27	1.76
55825075--55825127	16	3.3	16	91	0	88	24	33	3	37	1.74
55829494--55829521	14	2.0	14	100	0	56	71	14	0	14	1.15
55832587--55832631	12	3.8	11	91	5	54	64	0	2	33	1.06
55832950--55833121	88	2.0	87	82	3	211	25	25	22	26	2.00
55833089--55833779	132	5.2	132	88	0	999	25	22	20	31	1.98
55833177--55833645	44	10.7	44	64	12	167	27	23	18	30	1.98
55833089--55833779	263	2.6	264	88	1	1003	25	22	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55833105--55833864	395	1.9	394	85	2	1058	26	23	20	30	1.98
55833089--55833864	263	2.9	261	83	4	961	25	23	20	30	1.98
55842720--55842963	50	4.8	50	85	1	256	19	29	23	27	1.98
55851131--55851200	16	4.4	16	96	0	122	31	0	35	32	1.58
55851186--55851276	44	2.0	44	85	2	119	35	6	27	30	1.82
55851414--55851455	15	2.7	16	82	14	52	52	2	0	45	1.13
55851423--55851464	15	2.9	15	82	10	52	52	0	0	47	1.00
55851412--55851772	120	3.0	120	95	1	625	51	4	1	42	1.30
55851571--55851754	37	4.7	37	70	17	140	51	3	1	44	1.27
55851554--55851707	18	8.9	18	66	18	76	54	2	0	42	1.19
55867993--55868032	12	3.5	11	86	10	53	62	0	2	35	1.09
55867998--55868036	12	3.2	12	92	7	62	66	0	0	33	0.92
55873000--55873080	33	2.4	33	85	6	101	33	9	14	41	1.79
55873029--55873094	33	2.0	33	87	0	96	31	10	16	40	1.83
55875186--55875275	43	2.1	43	85	8	121	33	22	15	28	1.95
55877313--55877403	9	10.1	9	73	13	71	32	0	20	46	1.51
55877460--55877959	122	4.2	118	84	7	488	45	3	9	41	1.53
55877611--55877657	21	2.3	21	92	3	78	46	0	8	44	1.33
55877736--55877776	21	2.0	21	85	4	57	48	0	12	39	1.41
55877542--55877964	122	3.5	119	88	4	632	46	2	9	41	1.50
55877854--55878085	100	2.3	99	92	3	383	44	1	8	45	1.42
55879749--55880147	125	3.2	124	88	1	559	29	22	15	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55881106--55881165	30	2.0	30	83	3	75	41	0	38	20	1.52
55881379--55881415	9	4.1	9	92	0	65	29	10	13	45	1.77
55881468--55881502	18	1.9	18	100	0	70	37	17	11	34	1.85
55881517--55881541	10	2.5	10	100	0	50	12	12	12	64	1.51
55881639--55881752	7	16.6	7	76	3	97	46	33	0	19	1.56
55881980--55882017	19	2.0	19	100	0	76	36	10	5	47	1.61
55882040--55882197	76	2.1	76	83	2	192	28	24	18	28	1.98
55883623--55883652	6	5.0	6	100	0	60	50	0	0	50	1.00
55883744--55883786	23	2.0	23	86	9	63	51	0	2	46	1.13
55888741--55888786	23	2.0	23	100	0	92	30	17	17	34	1.93
55889126--55889172	4	11.0	4	82	13	58	4	21	2	72	1.12
55895965--55896009	20	2.3	20	88	3	65	42	11	11	35	1.76
55896784--55896823	20	2.0	20	95	0	71	47	10	7	35	1.65
55898296--55898332	15	2.3	17	86	9	51	54	0	0	45	1.00
55903639--55903702	30	2.1	30	88	5	94	56	0	0	43	0.99
55905848--55905885	20	1.9	19	89	5	58	39	0	18	42	1.50
55905810--55906004	58	3.4	56	78	9	187	36	2	13	48	1.54
55906101--55906202	40	2.5	39	82	10	116	33	20	12	33	1.90
55906182--55906279	38	2.6	38	81	4	117	42	17	6	33	1.74
55906810--55907009	80	2.5	81	86	2	258	35	14	14	36	1.86
55908162--55908186	13	1.9	13	100	0	50	32	4	24	40	1.73
55911985--55912114	41	3.2	42	80	8	151	21	27	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55912000--55912132	41	3.2	40	82	2	140	22	27	21	28	1.99
55920203--55920345	44	3.2	44	78	7	146	29	27	16	26	1.97
55920523--55921026	46	11.1	46	68	10	277	28	24	20	25	1.99
55920353--55921026	136	5.0	134	90	1	924	28	24	20	26	1.99
55920590--55920924	45	7.4	46	68	9	159	28	25	20	26	1.99
55920353--55921026	270	2.5	267	88	2	967	28	24	20	26	1.99
55921025--55922227	132	9.1	132	99	0	2325	29	26	16	27	1.97
55923692--55923740	24	2.2	23	85	10	66	6	6	8	79	1.05
55925048--55925172	62	2.0	62	92	0	205	34	6	19	40	1.77
55927077--55927107	16	1.9	16	93	0	53	67	0	0	32	0.91
55928504--55928565	31	2.0	31	96	0	115	35	27	9	27	1.88
55928792--55929047	82	3.1	82	90	3	365	22	28	21	27	1.99
55928750--55929032	41	6.9	41	86	2	327	21	28	21	28	1.99
55936048--55936080	17	2.0	16	94	5	57	54	3	0	42	1.15
55936048--55936093	22	2.0	23	83	4	58	50	2	0	47	1.13
55936162--55936204	19	2.4	18	76	7	52	60	0	0	39	0.97
55942207--55942245	14	2.7	14	84	4	51	58	2	2	35	1.25
55944185--55944223	14	2.7	14	84	4	51	58	2	2	35	1.25
55946596--55946673	39	2.0	39	100	0	156	25	23	20	30	1.98
55949305--55949369	29	2.2	29	86	0	85	18	29	29	23	1.98
55950800--55950906	23	4.6	25	73	22	83	47	0	0	51	1.07
55950843--55950888	19	2.4	19	85	7	58	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55951910--55952016	23	4.6	25	73	22	83	47	0	0	51	1.07
55951953--55951998	19	2.4	19	85	7	58	45	0	0	54	0.99
55954548--55954586	19	2.1	19	100	0	78	43	10	5	41	1.61
55960880--55960929	6	8.2	6	79	16	50	18	4	0	78	0.91
55968782--55969613	416	2.0	416	99	0	1655	26	25	13	34	1.93
55971652--55971772	57	2.1	57	87	0	179	49	13	5	31	1.65
55972311--55972349	20	2.0	20	85	5	53	58	7	5	28	1.47
55972593--55972641	24	2.0	24	96	0	89	38	26	0	34	1.57
55975601--55975808	46	4.6	46	91	1	323	33	15	21	29	1.95
55985872--55986194	160	2.0	161	96	0	603	42	7	18	32	1.78
55986389--55986522	50	2.6	51	80	5	139	27	19	24	28	1.99
55986955--55987141	95	2.0	95	95	0	338	31	9	22	36	1.85
55989550--55989626	37	2.1	37	95	0	136	24	24	0	50	1.49
55994246--55994280	17	2.1	17	89	5	54	48	0	2	48	1.16
56000415--56000451	19	1.9	19	94	0	65	37	29	18	13	1.90
56002595--56002864	137	2.0	137	85	1	371	28	8	23	39	1.83
56003368--56003409	10	4.2	10	80	20	52	61	0	38	0	0.96
56003361--56003409	6	8.3	6	84	8	57	63	2	34	0	1.06
56003547--56003610	23	2.6	25	82	4	78	46	23	7	21	1.77
56005380--56005444	28	2.3	28	92	5	105	38	10	1	49	1.47
56005440--56005484	9	5.0	9	86	8	65	86	8	2	2	0.73
56005515--56005592	27	2.9	27	85	11	97	28	25	29	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56005639--56005711	19	4.2	17	75	18	71	65	0	34	0	0.93
56005641--56005712	10	6.6	10	73	17	54	68	0	31	0	0.90
56005641--56005727	24	3.7	23	72	11	61	66	0	33	0	0.92
56005644--56005748	28	3.6	28	76	17	99	67	0	31	0	0.97
56005738--56005804	30	2.3	29	82	14	84	68	0	31	0	0.90
56005640--56005799	33	4.8	32	73	16	112	66	0	32	0	0.96
56006482--56006517	18	2.0	18	88	0	54	25	0	5	69	1.10
56006551--56006620	27	2.6	27	90	4	115	40	11	1	47	1.49
56006619--56006659	17	2.3	18	91	4	66	85	4	4	4	0.83
56010027--56010064	18	2.1	18	90	0	58	15	44	5	34	1.69

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