genome.fa.s8.2.7.7.80.10.50.1000.170.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  170  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)
56500425--56500501	39	2.0	39	97	0	145	36	24	20	18	1.95
56502295--56502343	21	2.3	21	89	0	71	26	8	38	26	1.84
56509420--56509494	34	2.3	32	78	15	82	53	2	1	42	1.23
56516903--56516951	5	9.8	5	90	0	71	42	16	20	20	1.89
56522480--56522510	15	2.1	15	93	0	53	64	19	6	9	1.45
56524584--56524697	29	3.8	29	69	13	81	52	2	0	43	1.21
56524967--56525020	26	2.1	26	100	0	108	37	3	14	44	1.63
56526892--56526943	23	2.3	23	96	0	95	46	15	0	38	1.46
56528419--56528479	27	2.3	26	77	2	68	55	4	3	36	1.38
56528443--56528499	30	1.9	30	89	7	89	57	3	3	35	1.33
56528662--56528705	17	2.6	17	85	3	63	47	0	11	40	1.39
56528833--56528857	3	8.3	3	100	0	50	68	0	0	32	0.90
56528881--56528910	7	4.4	7	91	8	53	73	0	0	26	0.84
56529221--56529246	12	2.2	12	100	0	52	42	15	7	34	1.75
56529791--56529863	37	2.0	37	91	0	119	31	24	20	23	1.98
56530338--56530407	35	2.0	35	86	5	97	28	25	21	24	1.99
56530373--56530538	44	3.8	43	83	4	208	27	26	19	27	1.99
56530373--56530537	88	1.9	88	88	2	251	27	26	18	27	1.98
56530549--56531113	88	6.4	88	90	0	896	21	24	26	26	1.99
56530571--56531066	44	11.3	44	62	6	171	22	25	26	26	2.00
56533256--56533309	26	2.1	26	82	3	65	59	5	12	22	1.54
56537185--56537235	23	2.2	23	85	0	66	54	5	3	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56537199--56537284	29	2.8	30	84	11	97	59	4	2	33	1.31
56537588--56537629	3	14.0	3	89	0	66	64	2	2	30	1.19
56544122--56544159	19	2.0	19	94	0	67	28	0	0	71	0.87
56544120--56544157	7	5.7	7	90	6	53	26	0	0	73	0.83
56544122--56544159	13	3.0	13	88	7	60	28	0	0	71	0.87
56544123--56544159	6	6.0	6	90	6	56	29	0	0	70	0.88
56544165--56544227	26	2.3	27	83	5	74	34	1	1	61	1.15
56545241--56545269	9	3.2	9	100	0	58	68	0	0	31	0.89
56545797--56545834	9	4.2	9	93	0	67	28	10	13	47	1.76
56550996--56551075	35	2.3	34	81	8	99	46	0	5	48	1.24
56551017--56551077	24	2.5	23	80	15	61	45	0	4	49	1.23
56551402--56551470	35	2.0	35	85	5	95	46	0	5	47	1.26
56551418--56551478	24	2.5	23	80	15	61	45	0	4	49	1.23
56552704--56552791	39	2.2	40	79	2	97	36	5	20	37	1.76
56552998--56553097	45	2.2	45	87	0	137	21	20	20	39	1.93
56555938--56555966	14	2.1	14	100	0	58	34	31	0	34	1.58
56563140--56563182	16	2.6	16	77	3	50	72	4	11	11	1.27
56567805--56567847	22	2.0	22	90	0	68	11	20	25	41	1.86
56568014--56568152	43	3.2	43	86	4	183	20	19	29	30	1.97
56568038--56568178	43	3.3	41	76	9	113	24	22	26	26	2.00
56568146--56568262	43	2.7	43	80	2	137	29	31	18	20	1.97
56568566--56568658	21	4.4	21	78	5	98	7	44	13	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56568634--56568677	21	2.1	21	86	0	61	2	40	18	38	1.63
56568649--56568795	66	2.2	66	85	4	190	13	28	18	39	1.89
56568688--56568818	66	2.0	66	87	3	192	15	25	19	40	1.90
56570143--56570570	9	49.8	9	66	23	203	31	0	22	45	1.59
56570143--56570316	43	4.2	42	78	13	148	31	1	21	45	1.62
56570159--56570542	53	7.0	56	73	17	180	32	1	21	44	1.60
56570180--56570570	25	15.1	26	78	15	274	32	0	21	45	1.58
56570261--56570288	13	2.2	13	100	0	56	35	0	25	39	1.56
56570252--56570341	22	4.1	22	74	21	82	34	1	21	43	1.60
56570316--56570466	19	8.5	19	62	25	62	33	0	21	45	1.57
56570490--56570573	43	2.0	43	85	0	114	26	0	25	48	1.51
56570693--56570773	12	7.5	11	68	28	50	51	2	0	45	1.14
56573087--56573118	16	2.0	16	100	0	64	43	25	6	25	1.77
56573331--56573416	39	2.2	39	85	6	113	39	39	2	18	1.64
56574475--56574537	7	8.7	7	86	6	81	47	38	1	12	1.51
56574475--56574537	29	2.2	29	88	5	92	47	38	1	12	1.51
56574475--56574537	22	2.9	22	92	0	99	47	38	1	12	1.51
56574820--56575084	114	2.3	113	94	1	476	31	26	20	22	1.98
56575017--56575126	40	2.7	41	83	8	134	31	27	21	19	1.97
56575096--56575239	74	1.9	74	81	6	175	26	23	25	25	2.00
56590127--56590191	26	2.6	25	83	9	80	41	4	3	50	1.38
56590127--56590185	24	2.4	24	85	5	82	40	3	3	52	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56592773--56592841	31	2.2	32	82	7	88	44	10	17	27	1.80
56594748--56594926	91	2.0	91	95	0	322	37	10	13	37	1.80
56597352--56597376	13	1.9	13	100	0	50	88	0	12	0	0.53
56597906--56597958	27	2.0	27	85	7	72	11	5	5	77	1.11
56601894--56601945	27	2.0	24	82	10	59	34	7	7	50	1.60
56610808--56610884	29	2.5	31	83	4	95	49	12	11	25	1.75
56613125--56613375	125	2.0	125	95	0	448	29	14	22	33	1.94
56614791--56614818	10	2.8	10	100	0	56	32	10	7	50	1.64
56617252--56617321	18	3.6	18	68	20	59	42	8	25	22	1.82
56621829--56621877	18	2.7	18	75	9	55	36	0	0	63	0.95
56622831--56622867	16	2.4	16	95	4	67	56	5	2	35	1.36
56622991--56623108	60	2.0	60	88	3	175	53	12	0	33	1.45
56623101--56623245	19	7.3	19	73	18	102	55	12	0	31	1.37
56623176--56623241	21	3.2	21	85	10	91	59	10	0	30	1.31
56623250--56623311	27	2.3	27	82	0	70	17	29	25	27	1.98
56623385--56623447	27	2.3	27	83	5	83	58	0	0	41	0.98
56629064--56629129	31	2.2	31	86	2	89	45	4	6	43	1.49
56630290--56630314	13	1.9	13	100	0	50	72	0	0	28	0.86
56636115--56636148	17	2.1	16	88	5	50	55	0	8	35	1.31
56636581--56636605	11	2.3	11	100	0	50	44	28	8	20	1.79
56640709--56640733	10	2.5	10	100	0	50	60	20	8	12	1.57
56642473--56642537	32	2.0	32	96	0	121	26	6	20	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56642629--56642747	40	3.0	38	82	4	130	38	19	21	20	1.93
56642784--56642940	41	3.8	42	83	4	169	21	19	26	33	1.97
56642784--56642940	83	1.9	83	83	7	203	21	19	26	33	1.97
56643564--56643598	15	2.4	15	90	4	54	17	0	42	40	1.49
56644789--56645089	82	3.7	81	73	7	221	28	15	20	34	1.94
56644234--56645568	448	3.0	449	92	2	2111	31	15	19	34	1.93
56645337--56645496	82	2.0	82	82	5	198	27	16	18	37	1.92
56645318--56645539	83	2.7	83	74	8	211	29	15	18	36	1.92
56645743--56645781	14	2.8	14	80	0	51	76	7	10	5	1.13
56646103--56646163	16	3.8	16	82	4	86	22	4	13	59	1.53
56646100--56646164	33	2.0	33	100	0	130	23	6	12	58	1.56
56646578--56646609	12	2.7	12	95	0	55	6	9	15	68	1.36
56647577--56647636	33	1.9	30	80	12	68	33	8	15	43	1.76
56647662--56647694	10	3.1	11	86	8	50	33	9	21	36	1.85
56647729--56647855	13	9.4	13	68	17	62	44	11	2	41	1.52
56647808--56647883	9	8.6	9	70	13	59	42	14	0	43	1.45
56647838--56647927	18	4.6	18	73	24	83	44	12	0	43	1.41
56648197--56648413	9	25.8	9	70	18	146	46	20	1	31	1.59
56648216--56648408	25	7.9	25	73	13	125	47	19	1	31	1.56
56648197--56648413	41	5.2	41	72	13	142	46	20	1	31	1.59
56648344--56648408	31	2.0	33	88	8	98	50	18	0	30	1.47
56653814--56653983	66	2.6	66	89	1	243	41	18	27	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56653954--56654045	21	4.4	21	78	5	69	36	16	41	5	1.71
56654381--56654602	43	5.1	43	85	6	261	27	17	29	25	1.97
56654354--56654602	87	2.9	87	81	7	258	28	16	28	26	1.97
56654394--56654673	43	6.3	43	81	8	210	25	19	27	27	1.99
56654370--56654646	130	2.1	130	79	4	299	28	18	27	25	1.98
56654354--56654646	86	3.4	84	77	11	268	27	17	27	26	1.98
56655659--56655784	28	4.5	28	88	0	180	31	12	25	30	1.93
56656495--56657063	70	8.1	70	87	3	754	25	15	15	42	1.87
56656495--56657063	210	2.7	210	89	2	838	25	15	15	42	1.87
56657284--56657424	72	2.0	72	98	0	273	36	1	19	41	1.61

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