genome.fa.s8.2.7.7.80.10.50.1000.127.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  127  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)
40414382--40414517	73	1.9	71	92	3	227	22	11	11	54	1.68
40416846--40416872	12	2.2	12	100	0	54	0	14	48	37	1.45
40424107--40424142	17	2.2	16	90	5	54	69	13	5	11	1.34
40426954--40427156	46	4.3	48	88	7	265	35	14	21	28	1.92
40426888--40427156	98	2.7	98	93	0	457	34	14	22	28	1.93
40427120--40427265	37	4.0	37	93	1	242	36	16	21	24	1.94
40430007--40430060	21	2.6	22	80	11	60	27	20	14	37	1.92
40429995--40430075	42	1.9	42	87	0	117	20	20	16	41	1.89
40430093--40430168	21	3.6	21	73	7	73	21	19	14	44	1.86
40440295--40440358	29	2.2	28	81	13	69	76	4	12	6	1.13
40457624--40457859	129	1.8	128	86	3	339	26	15	22	35	1.94
40459132--40459190	10	5.7	10	88	7	91	38	20	0	40	1.53
40459125--40459192	32	2.1	32	100	0	136	36	20	0	42	1.52
40461336--40461395	31	2.0	31	83	9	79	43	18	13	25	1.86
40473548--40473599	24	2.2	24	89	0	77	55	9	1	32	1.43
40475518--40475569	24	2.2	24	89	0	77	55	9	1	32	1.43
40501323--40501357	6	6.0	6	90	6	54	82	0	14	2	0.77
40515201--40515231	6	5.2	6	96	0	53	48	16	19	16	1.81
40515216--40515333	53	2.2	53	89	3	175	44	20	16	17	1.86
40516426--40516502	21	3.3	24	71	15	63	55	2	0	41	1.13
40526200--40526317	61	1.9	61	85	0	164	38	6	19	35	1.78
40527568--40527653	42	2.0	42	95	0	154	27	24	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40528004--40528061	29	2.0	29	100	0	116	24	6	13	55	1.63
40532109--40532243	39	3.4	39	74	11	116	28	27	20	23	1.99
40541859--40542059	89	2.3	89	82	0	242	30	20	21	27	1.98
40542141--40542292	41	3.7	41	93	0	259	34	17	19	28	1.95
40543115--40543156	9	4.7	9	85	8	50	4	11	0	83	0.79
40543117--40543159	22	1.9	23	85	4	61	4	11	0	83	0.78
40544064--40544163	3	31.7	3	77	13	87	29	5	4	62	1.35
40544454--40544499	21	2.1	22	84	4	58	30	4	2	63	1.26
40551374--40552072	44	16.5	42	66	17	227	20	22	21	35	1.96
40551326--40552029	86	8.3	87	84	7	733	20	22	21	36	1.96
40551482--40551979	79	6.0	79	81	9	378	19	23	20	36	1.95
40551657--40552072	86	4.8	85	82	8	416	21	23	21	33	1.97
40551326--40552065	173	4.3	172	76	11	431	20	22	21	36	1.96
40552940--40553053	52	2.2	53	91	1	185	55	9	13	21	1.66
40555049--40555103	23	2.2	27	78	18	66	38	0	10	50	1.37
40557416--40557554	60	2.3	59	84	8	174	27	20	25	26	1.99
40557554--40558574	510	2.0	510	99	0	1997	28	14	19	36	1.92
40567923--40567965	17	2.5	17	80	0	59	25	16	23	34	1.95
40573493--40573538	22	2.1	22	84	8	58	76	0	23	0	0.79
40573504--40573538	18	1.9	18	88	11	54	80	0	20	0	0.72
40573803--40573855	20	2.8	19	76	15	56	83	1	15	0	0.74
40573803--40573858	11	5.0	11	82	4	67	82	1	16	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40574181--40574314	17	7.5	18	70	18	75	31	14	8	45	1.75
40574181--40574272	34	2.7	34	86	5	114	28	16	8	46	1.76
40574204--40574257	16	3.2	16	75	14	56	35	14	9	40	1.78
40574505--40574731	17	13.4	17	74	10	144	33	9	10	47	1.70
40574692--40574820	39	3.4	38	73	15	124	36	10	12	41	1.77
40574657--40574823	73	2.3	72	81	3	181	36	10	11	41	1.76
40576402--40576448	21	2.2	22	84	3	60	48	4	0	46	1.21
40576394--40576457	30	2.1	30	82	8	76	48	3	0	48	1.17
40576663--40576693	16	1.9	16	100	0	62	38	22	0	38	1.54
40579090--40579122	17	1.9	18	88	11	52	42	0	3	54	1.15
40579105--40579155	21	2.3	22	80	12	61	39	1	5	52	1.37
40579471--40579505	15	2.3	15	90	9	54	42	25	0	31	1.55
40580185--40580216	12	2.7	12	100	0	64	53	0	15	31	1.43
40585573--40585740	85	2.0	85	98	0	327	31	5	3	59	1.37
40585873--40585912	21	1.9	21	84	0	53	27	2	15	55	1.53
40590565--40590608	22	2.0	22	100	0	88	36	18	13	31	1.90
40592160--40592294	68	2.0	68	100	0	270	27	8	26	37	1.86
40593351--40593473	54	2.4	49	77	12	138	35	13	9	41	1.77
40593370--40593475	54	2.0	54	88	0	158	36	13	9	40	1.77
40594516--40594599	23	3.7	23	85	4	125	42	26	19	11	1.85
40594516--40594612	23	4.2	23	85	0	122	41	27	20	10	1.85
40597497--40598382	69	12.8	69	99	0	1763	36	17	23	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40598312--40598406	46	2.1	46	100	0	190	37	14	23	24	1.92
40649059--40649096	19	2.0	19	85	10	51	31	2	2	63	1.22
40652827--40652869	18	2.4	18	88	7	61	48	2	0	48	1.14
40668196--40668552	126	2.8	127	86	2	500	24	21	21	33	1.97
40668865--40668920	28	2.0	28	96	0	103	42	12	14	30	1.82
40672411--40672458	25	1.9	25	87	8	71	33	4	6	56	1.44
40680594--40680665	5	14.8	5	74	21	64	38	0	4	56	1.18
40680623--40680665	19	2.3	19	92	8	70	41	0	0	58	0.98
40680670--40680710	19	2.2	19	90	0	64	80	2	14	2	0.92
40680675--40680720	15	3.1	15	84	9	58	76	2	17	4	1.06
40680770--40680797	4	7.0	4	100	0	56	75	0	25	0	0.81
40681584--40681717	44	3.0	45	83	4	162	35	13	23	27	1.93
40684348--40684430	40	2.1	40	93	0	139	40	8	8	42	1.65
40684358--40684421	18	3.3	18	68	16	56	39	7	9	43	1.66
40692564--40692656	18	5.2	18	89	0	132	33	16	22	27	1.95
40692564--40692656	36	2.6	36	91	0	150	33	16	22	27	1.95
40697634--40697688	27	2.0	27	100	0	110	38	18	3	40	1.68
40707255--40707294	21	2.0	20	85	14	55	2	62	2	32	1.22
40711009--40711118	55	2.0	55	98	0	211	24	27	19	29	1.98
40716713--40716826	57	2.0	57	98	0	219	26	15	18	39	1.91
40726951--40727000	18	2.8	18	80	14	68	34	8	0	58	1.28
40726948--40727005	20	2.9	19	82	12	64	34	6	0	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40730616--40730700	9	9.3	9	80	16	104	77	10	1	10	1.04
40730615--40730686	10	7.5	10	84	9	89	79	9	1	9	1.01
40730633--40730695	30	2.1	29	88	11	92	79	9	1	9	1.01
40730713--40730747	6	6.0	6	86	6	54	82	0	17	0	0.66
40730712--40730746	17	2.1	16	94	5	61	85	0	14	0	0.59
40731545--40731591	16	2.7	18	90	9	80	76	0	10	12	1.02
40731545--40731591	18	2.7	18	87	9	71	76	0	10	12	1.02
40731545--40731591	17	2.8	17	84	12	69	76	0	10	12	1.02
40731553--40731605	16	3.3	16	76	10	54	77	0	9	13	0.99
40731692--40731736	21	2.1	21	91	0	72	28	13	35	22	1.92
40732827--40732964	43	3.2	43	68	15	129	26	22	26	24	2.00
40732839--40732977	44	3.2	44	68	15	133	24	22	25	27	2.00
40732791--40733252	88	5.0	88	75	13	462	27	23	24	24	2.00
40732960--40732999	20	2.0	20	95	0	71	32	25	15	27	1.95
40732872--40733087	108	2.0	108	95	0	387	27	24	23	25	2.00
40733023--40733249	44	5.2	44	65	14	155	26	22	25	25	2.00
40735347--40735395	18	2.8	18	76	14	57	34	8	2	55	1.41
40745990--40746135	37	4.0	37	93	1	242	24	21	16	36	1.94
40746110--40746989	52	16.9	52	98	0	1679	27	22	15	34	1.94
40748451--40748741	147	2.0	147	93	0	501	20	24	11	42	1.85
40749733--40749781	24	2.0	24	88	0	71	20	16	30	32	1.94
40750065--40750090	9	2.9	9	100	0	52	7	0	34	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40750697--40751003	32	9.3	32	88	5	436	18	25	16	39	1.92
40750716--40751013	102	3.0	99	92	2	497	19	23	17	39	1.91
40750697--40751003	67	4.7	64	87	6	436	18	25	16	39	1.92
40753814--40753858	21	2.1	22	84	12	58	13	11	6	68	1.37
40755861--40756020	35	4.7	35	86	4	227	18	22	18	41	1.90
40755861--40756020	67	2.3	69	88	4	243	18	22	18	41	1.90
40760159--40760309	53	2.8	53	89	4	214	29	27	16	25	1.97
40762778--40762974	25	8.4	24	75	11	160	36	19	25	18	1.95
40762778--40762974	47	4.2	47	87	5	283	36	19	25	18	1.95
40762778--40762953	97	1.8	94	91	3	289	35	19	26	18	1.95

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