genome.fa.s8.2.7.7.80.10.50.1000.189.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  189  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)
61979163--61979192	16	1.9	15	93	6	51	13	10	16	60	1.59
61987996--61988021	8	3.2	8	100	0	52	42	0	23	34	1.54
62011600--62011650	24	2.1	24	100	0	102	33	13	23	29	1.93
62016570--62016612	21	2.0	21	90	0	68	37	11	30	20	1.89
62021964--62021997	11	3.1	11	86	0	50	32	0	0	67	0.91
62022873--62022921	18	2.8	17	81	6	62	28	0	0	71	0.86
62022873--62022923	16	2.9	18	77	14	61	29	0	0	70	0.87
62024806--62024870	32	2.0	32	100	0	130	27	21	15	35	1.94
62028352--62028432	39	2.1	39	97	0	153	32	1	9	56	1.40
62028424--62028462	20	1.9	21	84	5	53	17	2	5	74	1.12
62030536--62030587	18	2.9	18	83	11	79	28	9	3	57	1.48
62039697--62039759	31	2.0	31	96	0	117	20	15	15	47	1.82
62047588--62047642	25	2.2	26	87	9	78	67	1	20	10	1.30
62051405--62051452	25	1.9	25	86	0	69	20	25	18	35	1.95
62052883--62052949	34	2.0	34	100	0	134	44	7	11	35	1.70
62057734--62057825	24	3.8	24	89	2	96	19	27	23	29	1.98
62057748--62057825	24	3.2	24	96	0	147	19	26	24	29	1.98
62063868--62063893	2	13.0	2	100	0	52	50	0	50	0	1.00
62064160--62064211	24	2.2	23	89	3	77	7	21	13	57	1.61
62065737--62065770	6	5.7	6	92	0	50	23	38	20	17	1.93
62070794--62070850	29	2.0	29	82	0	69	38	7	14	40	1.73
62071430--62071484	29	1.9	28	85	3	74	40	9	14	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62072248--62072296	6	8.2	6	100	0	98	32	16	0	51	1.45
62075043--62075068	12	2.2	12	100	0	52	42	7	7	42	1.62
62076928--62077205	137	2.0	137	97	0	520	35	10	17	36	1.85
62080751--62080802	15	3.6	15	80	12	56	44	0	1	53	1.11
62080689--62080918	120	1.9	120	100	0	460	41	1	6	49	1.40
62080699--62080886	61	3.1	61	70	14	208	42	1	7	48	1.40
62080880--62080921	15	2.7	16	82	14	52	45	0	2	52	1.13
62080871--62080912	15	2.9	15	82	10	52	47	0	0	52	1.00
62081047--62081156	45	2.6	43	79	11	120	32	29	5	32	1.80
62081137--62081204	16	4.2	16	94	0	118	35	36	0	27	1.58
62081229--62081282	26	2.1	25	93	3	90	31	12	11	44	1.78
62092034--62092097	28	2.3	28	97	0	119	34	10	0	54	1.35
62092535--62092583	20	2.5	20	71	15	50	46	10	2	40	1.49
62092698--62092760	32	2.0	32	87	6	92	38	6	7	47	1.58
62092693--62092763	32	2.3	29	76	17	72	40	7	7	45	1.58
62092664--62092929	145	1.8	144	83	2	354	38	9	9	42	1.70
62094793--62095215	113	3.7	113	77	9	389	34	16	22	27	1.95
62094835--62095154	112	2.9	111	80	6	290	34	14	22	27	1.94
62095400--62095589	76	2.5	76	85	4	249	33	17	20	28	1.96
62095692--62095756	20	3.1	21	73	10	62	23	4	26	46	1.71
62098482--62098549	27	2.5	27	100	0	136	39	14	0	45	1.45
62098718--62098840	41	3.1	39	76	20	130	66	0	32	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62098745--62098849	23	4.8	23	73	20	75	66	0	33	0	0.92
62098752--62098805	26	2.1	26	82	0	63	68	0	31	0	0.90
62098729--62098855	43	3.1	42	81	12	142	64	0	35	0	0.94
62098863--62098901	19	2.0	20	85	5	53	30	0	7	61	1.24
62104866--62104896	12	2.6	12	94	0	53	61	19	0	19	1.35
62104902--62104954	26	2.0	26	85	7	72	47	7	1	43	1.42
62104878--62104998	62	2.0	61	85	9	165	52	12	0	34	1.45
62105128--62105159	3	10.7	3	100	0	64	68	31	0	0	0.90
62105222--62105260	20	2.0	21	85	10	55	66	7	0	25	1.18
62105499--62105594	27	3.5	28	92	5	153	48	0	11	39	1.39
62106040--62106098	31	1.9	31	82	6	75	40	0	6	52	1.28
62111760--62111825	31	2.1	31	88	5	98	39	21	4	34	1.74
62113031--62113065	13	2.7	13	90	0	52	37	17	2	42	1.64
62113168--62113284	21	5.2	21	73	17	85	50	3	3	42	1.36
62113256--62113286	16	1.9	16	100	0	62	51	0	3	45	1.17
62115787--62116052	104	2.6	104	93	2	462	18	20	30	30	1.96
62126046--62126087	21	2.0	21	81	9	50	59	0	28	11	1.33
62129159--62129340	60	3.0	60	100	0	364	40	12	19	28	1.87
62129647--62129693	23	2.0	23	91	0	76	19	27	17	36	1.93
62132450--62132542	40	2.3	38	84	12	123	31	20	24	23	1.98
62132619--62132836	83	2.7	83	79	7	207	21	17	28	33	1.96
62132589--62132839	41	6.1	42	77	11	207	19	17	29	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62132968--62133008	21	2.0	21	90	0	64	14	0	41	43	1.45
62132968--62133009	14	3.0	14	76	13	50	16	0	40	42	1.48
62133130--62133177	20	2.3	21	85	3	62	16	0	37	45	1.48
62133136--62133177	14	3.1	14	82	3	50	19	0	38	42	1.51
62133634--62134062	83	5.2	83	91	0	687	41	13	16	28	1.87
62134964--62135043	31	2.6	31	95	0	142	18	15	21	45	1.86
62135872--62135899	12	2.3	12	100	0	56	32	7	10	50	1.64
62140116--62140150	18	2.0	17	88	5	52	45	0	0	54	0.99
62140260--62140294	18	2.0	17	88	5	52	45	0	0	54	0.99
62140456--62140550	45	2.1	45	88	1	138	32	27	5	34	1.79
62140529--62140561	16	2.1	16	94	0	57	30	36	0	33	1.58
62140542--62140584	21	2.0	21	95	0	77	34	37	0	27	1.57
62143756--62143851	45	2.1	45	90	0	147	31	14	14	39	1.86
62147697--62147802	53	2.0	54	83	7	135	41	2	0	54	1.21
62154358--62154906	273	2.0	273	100	0	1098	38	11	16	33	1.84
62155664--62155762	44	2.4	39	75	15	108	19	19	21	40	1.92
62155631--62155814	45	4.1	45	84	3	212	20	17	20	40	1.91
62155795--62155835	6	6.7	6	83	5	55	17	19	17	46	1.85
62156327--62156358	15	2.3	15	89	10	50	40	0	18	40	1.51
62161226--62161278	27	2.0	27	85	7	74	37	15	15	32	1.88
62165189--62165245	18	3.1	18	82	2	60	33	1	1	63	1.15
62165150--62165271	46	2.6	46	83	11	151	33	3	0	62	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62165162--62165227	27	2.4	27	82	5	80	31	1	1	65	1.11
62166366--62166392	14	1.9	14	100	0	54	22	3	0	74	0.98
62167155--62167235	3	26.0	3	75	16	67	32	3	2	61	1.26
62172851--62172976	11	11.5	11	73	13	100	37	2	0	60	1.10
62172849--62172987	42	3.3	42	84	8	192	38	2	0	58	1.10
62172880--62172951	33	2.2	32	90	4	117	37	1	0	61	1.05
62176057--62176087	16	1.9	16	93	0	53	48	0	3	48	1.17
62176170--62176217	24	2.0	25	84	12	64	45	2	4	47	1.33
62176289--62176340	17	3.0	17	82	2	50	48	3	0	48	1.20
62176520--62176546	14	1.9	14	100	0	54	33	22	0	44	1.53
62176828--62176893	31	2.1	31	83	5	80	31	12	16	39	1.85
62176964--62177003	3	13.3	3	100	0	80	65	0	0	35	0.93
62185315--62185676	44	7.9	44	71	14	207	33	17	19	29	1.95
62188095--62188131	16	2.3	16	86	13	58	40	0	0	59	0.97
62188139--62188199	20	3.2	20	75	17	67	54	0	0	45	1.00
62188116--62188201	37	2.4	37	78	17	94	54	0	0	45	0.99
62189262--62189289	14	2.0	14	100	0	56	21	14	14	50	1.78
62190162--62190220	29	2.0	29	100	0	118	37	20	3	38	1.69
62197114--62197232	24	5.0	24	91	0	175	19	31	29	20	1.97
62200944--62200973	3	10.0	3	100	0	60	33	0	0	66	0.92
62223086--62223129	22	2.0	22	86	0	61	34	4	18	43	1.70
62227937--62227976	18	2.2	18	90	0	62	40	42	5	12	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62228126--62228192	9	7.4	9	84	0	80	26	8	23	40	1.84
62228126--62228192	27	2.5	27	90	0	107	26	8	23	40	1.84
62233247--62233295	21	2.3	21	78	0	53	10	36	20	32	1.86
62240662--62240709	3	16.0	3	91	0	78	0	37	0	62	0.95
62243103--62244143	421	2.5	419	90	2	1597	35	14	17	32	1.90
62256489--62256534	24	2.0	23	83	12	58	30	17	4	47	1.67
62257295--62257336	16	2.6	16	88	0	66	57	4	0	38	1.20
62261251--62261391	44	3.2	43	83	3	174	38	23	6	31	1.80
62265606--62265649	22	2.0	22	100	0	88	22	9	13	54	1.67
62270050--62270117	16	4.2	16	94	0	109	29	0	35	35	1.58

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