genome.fa.s8.2.7.7.80.10.50.1000.186.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: At_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  186  of  279  ( 33431 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)
60999114--60999165	24	2.2	24	82	6	61	25	1	5	67	1.23
60999078--60999335	135	1.9	137	90	5	414	27	13	12	47	1.78
60999967--61000007	22	1.9	21	90	5	64	34	41	0	24	1.55
60999975--61000016	15	2.9	15	82	3	50	35	45	0	19	1.50
60999996--61000037	21	2.0	22	85	4	59	38	42	0	19	1.51
61000277--61000348	28	2.5	28	79	2	81	36	44	0	19	1.51
61000748--61000925	94	1.9	93	89	1	275	24	21	24	29	1.99
61000840--61001060	114	1.9	113	88	3	327	23	25	24	26	2.00
61000983--61001119	73	1.9	72	87	1	202	21	25	25	27	2.00
61003036--61003088	2	26.5	2	96	0	97	0	47	0	52	1.00
61004418--61004452	3	11.7	3	87	0	52	34	5	0	60	1.21
61004418--61004449	12	2.7	12	100	0	64	34	6	0	59	1.23
61004796--61004866	5	14.4	5	81	11	69	21	2	2	73	1.09
61004781--61004910	9	14.3	9	71	19	76	20	5	3	70	1.23
61004813--61004910	4	22.8	4	76	11	63	20	4	4	71	1.19
61004813--61004910	24	4.3	23	74	14	80	20	4	4	71	1.19
61005039--61005581	111	5.0	108	92	3	829	30	16	18	34	1.93
61009606--61009707	1	102.0	1	72	0	51	83	5	6	3	0.91
61009605--61009659	18	3.0	17	84	12	65	85	9	3	1	0.79
61009605--61009701	13	6.8	13	72	17	61	82	7	6	4	0.94
61009606--61009707	24	4.2	24	77	16	86	83	5	6	3	0.91
61010576--61010639	15	4.2	15	84	9	85	76	0	12	10	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61010565--61010632	8	8.6	8	81	15	88	75	0	13	11	1.06
61010566--61010641	7	10.0	7	77	17	64	72	0	14	13	1.13
61010565--61010639	23	3.2	22	85	10	96	74	0	13	12	1.07
61011911--61012966	86	13.0	78	93	4	1194	29	21	22	26	1.99
61012212--61013024	86	9.6	86	92	4	1248	30	21	22	25	1.99
61012974--61013293	44	7.3	43	61	9	126	26	24	23	25	2.00
61012373--61013336	86	11.1	85	92	3	991	28	21	23	26	1.99
61012884--61013347	176	2.7	176	87	3	598	26	22	24	26	2.00
61013325--61013413	45	2.0	45	88	0	133	28	17	25	28	1.98
61013419--61013553	44	3.1	44	76	0	162	28	18	25	27	1.98
61013392--61013553	88	1.8	88	90	0	261	29	16	26	28	1.97
61013461--61013703	132	1.8	132	84	1	335	30	20	25	23	1.99
61014360--61014394	3	11.7	3	87	0	52	34	5	0	60	1.21
61014360--61014391	12	2.7	12	100	0	64	34	6	0	59	1.23
61014755--61014851	4	22.8	4	76	13	63	21	4	3	71	1.17
61014980--61015524	111	5.0	111	94	2	888	31	17	17	33	1.93
61019261--61019318	28	2.1	28	96	0	107	24	8	22	44	1.80
61021168--61021261	46	2.0	46	91	0	152	39	12	26	21	1.89
61024014--61024149	50	2.7	51	83	8	163	25	17	26	30	1.97
61030896--61030974	27	2.9	27	80	12	92	64	1	0	34	1.02
61030896--61030952	9	6.3	9	76	8	62	66	1	0	31	1.02
61031133--61031173	19	2.2	19	86	4	57	31	2	4	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61034901--61034971	28	2.5	28	86	6	99	32	12	29	25	1.93
61035906--61036021	22	5.0	22	73	19	92	31	10	14	43	1.79
61035907--61036071	47	3.5	47	84	5	201	30	12	15	41	1.84
61035920--61036004	25	3.5	25	78	15	106	28	10	15	45	1.79
61035994--61036337	173	2.0	173	100	0	688	30	12	17	39	1.86
61039701--61040005	137	2.2	136	84	2	382	38	13	17	31	1.88
61039578--61040026	134	3.3	132	78	6	461	39	13	15	31	1.87
61039849--61040229	206	1.8	206	81	1	476	40	14	14	30	1.86
61040051--61040423	134	2.8	132	81	2	408	40	13	15	29	1.86
61040205--61040256	27	2.0	26	85	14	72	42	7	15	34	1.75
61039715--61040363	340	1.9	342	81	2	793	39	14	15	30	1.86
61044320--61044471	27	5.6	27	92	3	250	30	28	14	26	1.95
61044320--61044471	55	2.8	55	95	0	268	30	28	14	26	1.95
61058995--61059045	26	2.0	26	92	0	84	19	21	23	35	1.96
61065036--61065111	28	2.8	28	80	6	84	43	22	10	23	1.84
61065033--61065111	27	2.9	27	81	5	88	41	21	12	24	1.87
61075748--61075808	32	1.9	32	86	0	86	50	4	16	27	1.65
61080355--61080400	23	2.0	23	100	0	92	52	13	8	26	1.69
61080674--61080743	34	2.2	33	89	7	108	21	24	22	31	1.98
61081022--61081093	27	2.7	27	84	2	92	37	16	12	33	1.86
61082353--61082441	44	2.0	44	95	0	160	28	33	6	31	1.83
61088098--61088168	26	2.7	26	84	4	99	32	18	18	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61092713--61092761	25	2.0	24	88	11	73	30	20	26	22	1.98
61094213--61094300	44	2.0	44	93	0	149	34	15	21	28	1.94
61095740--61095777	20	1.9	20	88	0	58	50	2	7	39	1.46
61096870--61096947	29	2.7	29	80	9	97	35	12	20	30	1.90
61097896--61097996	51	2.0	51	88	0	148	33	11	20	33	1.89
61100244--61100286	21	2.0	21	100	0	86	13	9	20	55	1.66
61100397--61100427	16	1.9	16	100	0	62	48	6	0	45	1.28
61103808--61103855	24	2.0	24	87	0	69	20	50	6	22	1.71
61113797--61113849	22	2.5	21	82	14	65	15	5	0	79	0.91
61126253--61126341	44	2.0	44	97	0	169	26	16	31	24	1.97
61126677--61126719	22	2.0	22	85	0	59	46	2	9	41	1.48
61126739--61126892	39	3.9	40	94	0	258	48	3	18	29	1.65
61126739--61126892	79	2.0	80	92	2	258	48	3	18	29	1.65
61127360--61127461	48	2.1	48	100	0	204	38	7	5	48	1.57
61127360--61127497	48	2.8	48	90	6	190	39	6	5	49	1.51
61137604--61137802	99	2.0	99	99	0	389	43	8	19	28	1.79
61138222--61138310	46	2.0	45	91	4	144	32	13	25	28	1.94
61138215--61138348	46	3.0	45	81	4	126	35	14	23	26	1.93
61138363--61138451	46	1.9	46	97	0	169	30	22	19	28	1.98
61145657--61145745	46	2.0	45	91	4	144	32	13	25	28	1.94
61145650--61145783	46	3.0	45	81	4	126	35	14	23	26	1.93
61163743--61163773	15	2.1	15	100	0	62	54	0	38	6	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61171769--61171806	20	1.9	20	94	0	67	63	0	2	34	1.09
61177127--61177195	26	2.7	24	80	10	75	37	5	1	55	1.33
61181581--61181746	83	2.0	83	80	2	190	27	36	16	19	1.93
61191943--61192011	26	2.7	24	80	10	75	37	5	1	55	1.33
61197057--61197095	13	2.9	13	85	7	51	35	5	2	56	1.35
61197058--61197124	27	2.5	27	85	4	82	38	2	2	55	1.31
61197057--61197116	14	4.4	14	80	12	54	36	5	1	56	1.31
61197470--61197535	21	3.0	21	84	8	78	57	4	1	36	1.28
61197467--61197570	51	2.0	52	81	5	122	54	4	2	37	1.36
61197693--61197736	22	2.0	22	100	0	88	40	13	0	45	1.44
61197941--61197991	24	2.2	24	86	10	70	54	7	1	35	1.40
61198185--61198238	17	3.2	17	73	19	51	35	3	1	59	1.26
61198728--61201662	73	40.2	73	100	0	5870	30	26	23	20	1.99
61204790--61204848	30	1.9	30	82	3	73	49	1	22	27	1.59
61211430--61211462	12	2.5	13	85	14	50	54	0	3	42	1.15
61211965--61212020	29	1.9	29	88	0	85	26	23	5	44	1.74
61213882--61213922	17	2.3	18	83	12	57	36	19	14	29	1.92
61214218--61214255	20	1.9	20	84	10	51	36	7	26	28	1.84
61219595--61219626	5	6.4	5	100	0	64	0	18	0	81	0.70
61219580--61219622	15	2.9	15	82	6	52	2	18	4	74	1.10
61230355--61230410	6	9.5	6	83	9	53	78	0	16	5	0.92
61231885--61231996	49	2.3	50	76	7	122	34	27	14	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61237225--61237289	30	2.1	32	85	8	89	32	0	3	64	1.09
61239232--61239262	16	2.0	16	93	6	55	45	9	19	25	1.81
61241216--61241264	24	2.1	24	85	7	66	48	0	0	51	1.00
61241261--61241315	22	2.6	21	85	8	67	36	1	1	60	1.18
61241282--61241393	31	3.5	31	77	16	115	40	1	0	58	1.09
61241345--61241386	21	2.0	21	86	9	59	42	0	0	57	0.99
61241762--61241801	12	3.5	12	93	6	66	42	0	0	57	0.98
61241891--61241939	8	5.8	8	77	13	53	14	4	0	81	0.83
61241889--61241939	18	2.9	17	80	5	66	15	3	0	80	0.86
61241890--61241942	12	4.6	12	76	19	51	15	3	0	81	0.83

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