genome.fa.s26.2.7.7.80.10.50.1000.31.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  31  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)
10656725--10656750	11	2.4	11	100	0	52	65	7	0	26	1.20
10661075--10661100	11	2.4	11	100	0	52	65	7	0	26	1.20
10669092--10669180	44	2.0	44	97	0	169	49	6	16	26	1.71
10670342--10670489	65	2.3	63	87	4	197	21	25	31	22	1.98
10672419--10672508	27	3.2	27	74	13	76	33	24	23	18	1.97
10672614--10672734	28	4.3	28	93	0	197	31	8	26	33	1.86
10673802--10673834	12	2.6	13	85	9	50	45	0	45	9	1.35
10677251--10677568	159	2.0	159	97	0	600	28	22	21	27	1.99
10683392--10683559	40	4.2	40	83	4	106	25	27	23	23	2.00
10683415--10683559	40	3.6	40	85	4	193	23	26	24	25	2.00
10688802--10688849	24	2.0	24	100	0	96	33	16	20	29	1.95
10696172--10696370	81	2.5	82	82	6	253	26	27	22	24	1.99
10696172--10696356	41	4.6	41	83	4	225	26	27	22	24	2.00
10706705--10706850	77	1.9	77	82	2	186	22	15	26	35	1.94
10709385--10709416	17	1.9	16	93	6	55	18	18	21	40	1.91
10709389--10709423	17	2.1	17	89	5	54	17	20	28	34	1.95
10708394--10710959	786	3.3	785	88	2	3700	34	13	20	32	1.91
10713631--10713713	42	2.0	42	82	0	103	32	16	24	26	1.96
10728915--10728947	16	2.0	17	88	5	50	18	45	33	3	1.65
10729909--10729990	18	4.6	18	78	6	94	42	13	19	24	1.87
10730340--10730524	27	6.9	27	91	0	289	41	18	15	24	1.89
10743845--10743879	16	2.2	16	94	0	61	60	5	8	25	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10756028--10756059	12	2.7	12	90	0	55	15	0	9	75	1.05
10764383--10764442	30	2.0	30	83	6	77	20	31	25	23	1.98
10766980--10767035	27	2.1	27	83	6	69	41	25	5	28	1.77
10766994--10767116	54	2.3	54	82	2	149	30	24	7	37	1.83
10767024--10767149	27	4.7	27	89	1	182	27	22	10	39	1.86
10767024--10767175	54	2.8	54	85	1	153	30	21	9	38	1.85
10766983--10767188	80	2.6	81	77	2	209	33	23	8	34	1.85
10767195--10767295	27	3.8	27	85	5	134	41	20	7	29	1.81
10767281--10767419	27	5.1	27	84	0	170	35	18	20	25	1.96
10767622--10767691	25	2.8	25	91	0	104	27	27	22	22	1.99
10767621--10767718	25	4.0	23	80	10	88	28	24	22	24	1.99
10767622--10767716	50	1.9	50	80	8	113	28	25	23	23	1.99
10767841--10768742	40	22.6	40	97	0	1664	22	20	27	29	1.98
10768951--10769047	48	2.0	48	97	0	185	34	12	16	37	1.86
10777054--10777235	40	4.6	41	88	4	248	23	20	26	29	1.99
10779953--10779987	6	5.8	6	100	0	70	14	0	0	85	0.59
10783460--10783559	40	2.5	40	85	8	139	22	16	29	33	1.95
10789906--10790036	27	4.9	27	86	0	190	39	18	8	33	1.81
10790404--10790463	22	2.7	22	78	0	66	21	25	20	33	1.97
10791554--10791650	48	2.0	48	93	0	167	31	11	19	37	1.87
10792979--10793113	41	3.3	41	81	7	123	25	16	26	31	1.96
10794418--10794591	54	3.2	54	82	3	190	21	19	18	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10794420--10794591	27	6.4	26	87	4	164	20	19	19	40	1.91
10797504--10797544	14	2.9	14	88	3	55	29	2	17	51	1.58
10799618--10799736	47	2.5	47	83	0	148	28	30	8	32	1.87
10799961--10800052	39	2.3	39	88	5	132	25	28	22	23	2.00
10799942--10800102	40	4.1	40	79	10	170	24	27	22	25	2.00
10804593--10804671	3	26.3	3	70	10	54	59	5	3	31	1.37
10804616--10804650	18	1.9	18	94	0	61	62	5	5	25	1.40
10807671--10808257	40	14.6	40	95	1	1032	24	27	20	27	1.99
10812034--10812337	88	3.5	88	87	1	423	28	17	22	30	1.97
10811914--10812503	44	13.1	44	65	12	205	28	18	21	31	1.97
10812279--10812600	143	2.3	143	84	3	432	28	23	18	28	1.98
10812323--10812646	143	2.3	143	83	3	384	29	24	16	29	1.97
10812520--10812692	44	3.9	44	81	2	159	30	24	14	30	1.94
10815728--10815909	46	4.2	44	71	14	148	24	25	18	31	1.97
10815734--10815902	81	2.1	81	85	1	221	24	24	19	30	1.98
10816723--10816756	18	1.9	18	88	5	52	0	20	0	79	0.73
10817283--10817325	22	2.0	22	90	0	68	9	0	6	83	0.80
10817291--10817341	15	3.3	15	81	5	57	7	1	3	86	0.77
10817297--10817340	23	2.0	22	86	4	61	9	2	4	84	0.85
10817291--10817342	14	3.6	14	82	14	61	7	1	5	84	0.84
10822176--10822232	3	18.7	3	89	3	78	63	1	3	31	1.22
10822204--10822243	19	2.3	18	87	12	57	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10825636--10825663	14	2.0	14	100	0	56	64	0	7	28	1.20
10829110--10829192	43	1.9	43	95	0	148	36	20	20	22	1.95
10838356--10838396	20	2.0	20	95	0	73	17	36	29	17	1.92
10842866--10843083	40	5.5	40	91	1	332	21	22	28	26	1.99
10844832--10844901	24	2.8	25	84	4	88	22	27	18	31	1.97
10846805--10846878	29	2.6	28	82	4	94	28	28	13	29	1.94
10858272--10858381	26	4.2	26	95	0	175	33	4	24	37	1.76
10861033--10862544	714	2.1	710	88	1	2224	28	10	20	40	1.85
10863946--10863975	13	2.3	13	100	0	60	26	13	26	33	1.93
10863970--10864136	56	3.0	56	92	0	271	26	16	23	33	1.95
10864529--10864577	24	2.0	24	100	0	98	32	4	24	38	1.74
10867178--10867281	27	3.9	26	85	6	120	32	21	25	20	1.97
10867699--10867728	16	1.9	15	93	6	51	3	20	23	53	1.60
10868905--10869012	26	4.2	26	93	0	189	36	24	7	32	1.83
10869423--10872169	713	3.9	690	83	5	2865	28	10	20	40	1.86
10872135--10872202	33	2.1	33	100	0	136	32	8	22	36	1.85
10872630--10872685	23	2.3	26	80	17	68	51	0	7	41	1.29
10877801--10877853	16	3.5	16	66	23	51	37	11	18	32	1.87
10877794--10877853	29	2.1	29	96	0	111	38	10	20	31	1.85
10878212--10878296	42	2.0	42	100	0	170	24	23	16	35	1.95
10880090--10880212	20	6.2	20	72	4	61	21	15	6	56	1.61
10880180--10880221	21	2.0	20	90	4	66	23	16	0	59	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10880296--10880394	40	2.5	39	74	8	94	13	12	11	63	1.52
10880792--10880832	21	1.9	22	85	5	57	48	14	17	19	1.81
10880917--10880964	20	2.5	18	80	12	51	52	4	2	41	1.32
10880942--10880993	19	2.7	20	75	16	56	38	5	3	51	1.44
10881025--10881073	10	4.9	10	80	9	55	59	2	4	34	1.28
10881132--10881171	16	2.5	16	95	0	71	40	17	5	37	1.72
10890749--10890799	25	2.0	25	88	0	75	37	15	5	41	1.72
10894785--10894838	28	1.9	28	92	0	90	40	18	1	38	1.61
10894999--10895094	18	5.3	18	85	0	84	34	11	12	41	1.79
10894999--10895094	36	2.7	36	81	0	120	34	11	12	41	1.79
10895211--10895328	51	2.2	52	85	7	150	40	22	20	16	1.91
10895438--10895474	18	2.1	18	85	14	51	24	16	5	54	1.63
10895609--10895646	19	2.0	19	85	10	51	50	26	0	23	1.50
10895928--10895967	19	2.0	20	86	13	57	5	17	2	75	1.10
10895928--10895976	18	2.6	18	84	12	55	4	16	4	75	1.11
10896084--10896122	15	2.6	14	84	11	51	30	2	0	66	1.05
10899997--10900042	22	2.1	22	91	0	74	19	26	23	30	1.98
10900901--10901014	18	6.3	18	88	0	129	33	12	13	41	1.81
10901123--10901167	6	7.5	6	94	0	72	46	13	20	20	1.83
10901149--10901266	51	2.3	51	82	10	132	41	18	20	19	1.91
10901548--10901585	19	2.0	19	85	10	51	50	26	0	23	1.50
10901867--10901917	18	2.8	18	82	11	52	5	17	3	72	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10901958--10901996	19	2.1	19	85	9	53	33	5	10	51	1.58
10902021--10902059	15	2.6	14	84	11	51	28	2	0	69	1.02
10904106--10904193	44	2.0	44	93	4	151	11	25	7	55	1.62
10911302--10911396	18	5.3	18	74	2	75	35	13	11	38	1.81
10911292--10911396	36	3.0	36	79	5	99	37	14	10	38	1.80
10912894--10912926	13	2.3	15	90	10	52	54	0	0	45	0.99
10913043--10913088	15	3.1	15	81	15	51	56	2	0	41	1.11
10913398--10913432	18	2.0	18	88	5	54	14	20	45	20	1.85
10916154--10916331	27	6.6	27	84	3	205	29	28	15	26	1.96
10916175--10916330	82	1.9	81	88	3	233	29	28	15	26	1.96

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