genome.fa.s4.2.7.7.80.10.50.1000.164.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  164  of  235  ( 28198 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)
55343440--55343610	93	1.8	93	96	0	315	21	21	28	28	1.99
55353063--55353168	25	4.2	25	78	4	115	18	21	21	37	1.94
55353062--55353167	50	2.1	50	87	3	151	19	20	21	37	1.94
55353062--55353201	50	2.8	50	81	6	133	22	20	22	35	1.96
55358251--55358506	40	6.4	40	93	2	394	26	28	22	23	1.99
55370202--55370482	48	5.9	48	77	1	249	27	25	17	29	1.97
55370202--55370482	96	2.9	96	89	1	411	27	25	17	29	1.97
55377190--55377416	48	4.7	48	83	2	285	28	26	15	29	1.96
55379705--55379882	27	6.6	27	83	3	205	26	15	28	29	1.96
55379706--55379861	82	1.9	81	88	3	233	26	15	28	29	1.96
55379702--55379882	82	2.2	81	83	2	229	27	15	27	29	1.96
55386565--55386624	25	2.4	25	82	0	84	20	30	20	30	1.97
55386744--55386837	44	2.2	44	98	1	181	36	11	13	38	1.82
55386748--55386818	22	3.2	22	66	15	65	33	11	15	39	1.83
55391465--55391578	33	3.5	32	77	11	97	31	11	23	33	1.90
55391489--55391580	33	2.8	33	80	8	116	32	10	23	32	1.90
55391819--55391876	31	2.0	29	87	12	84	34	6	17	41	1.76
55392157--55392273	24	5.2	24	61	22	74	28	2	20	48	1.62
55392140--55392273	44	3.0	44	100	0	268	29	2	20	47	1.62
55392161--55392274	22	5.3	20	64	15	66	29	2	19	48	1.62
55398103--55398133	15	2.1	15	100	0	62	32	38	6	22	1.80
55400700--55400746	22	2.1	22	100	0	94	23	0	23	53	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55405294--55405501	64	3.2	65	80	10	210	22	29	16	30	1.96
55406212--55406272	30	2.0	30	83	0	77	31	22	8	37	1.84
55413817--55414043	43	5.2	43	87	2	294	13	22	31	32	1.93
55413972--55414130	45	3.6	44	81	11	184	22	22	28	27	1.99
55416574--55416700	46	2.7	46	81	3	148	22	23	22	31	1.98
55418417--55418456	21	1.9	21	85	10	55	45	15	5	35	1.68
55418813--55418871	29	2.0	29	86	0	82	45	18	8	27	1.78
55427808--55427915	26	4.2	26	91	0	171	35	23	8	33	1.85
55438292--55438448	53	2.9	53	77	11	167	45	17	22	14	1.84
55439503--55440081	180	3.2	180	88	0	829	30	16	24	28	1.97
55440525--55440713	94	2.0	94	94	2	335	36	15	17	30	1.91
55442748--55442956	55	3.9	53	82	7	235	21	25	17	35	1.95
55442748--55442948	108	1.8	110	87	4	300	21	25	17	35	1.95
55443962--55444123	81	2.0	81	100	0	324	35	17	12	34	1.87
55446808--55447141	50	6.8	50	79	9	343	24	28	19	28	1.98
55468776--55468832	3	18.7	3	78	10	62	31	1	3	63	1.22
55474841--55475409	143	4.0	143	87	0	762	31	20	20	27	1.97
55475374--55475638	51	5.4	51	69	16	182	31	17	23	27	1.97
55475323--55475640	97	3.3	97	84	2	383	31	18	22	27	1.97
55477346--55477383	3	13.0	3	88	5	60	31	2	0	65	1.06
55486582--55486606	4	6.2	4	100	0	50	24	0	0	76	0.80
55495786--55495814	11	2.6	11	100	0	58	58	24	0	17	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55498396--55498487	47	2.0	47	97	0	175	41	17	9	31	1.82
55499992--55500629	41	15.5	41	75	6	497	39	25	16	18	1.92
55499992--55500614	82	7.6	82	78	3	590	39	25	16	19	1.91
55499992--55500614	123	5.1	124	85	3	643	39	25	16	19	1.91
55502725--55502824	44	2.3	44	96	0	182	47	8	25	20	1.77
55504472--55504694	47	4.7	47	90	1	322	31	8	31	27	1.88
55504813--55504891	37	2.1	37	90	0	122	24	18	31	25	1.98
55507316--55507351	13	2.8	13	87	4	56	19	22	8	50	1.74
55507393--55507463	36	2.0	36	88	0	106	15	14	36	33	1.87
55508316--55508347	17	1.9	16	93	6	55	18	18	37	25	1.94
55510708--55510822	43	2.7	42	80	6	133	31	24	17	26	1.97
55514166--55514210	21	2.1	21	87	0	63	28	13	37	20	1.90
55517462--55517500	5	8.0	5	94	5	71	79	0	0	20	0.73
55517462--55517501	14	2.8	14	96	3	71	77	0	0	22	0.77
55520893--55521255	47	7.7	48	71	12	209	26	19	29	23	1.98
55520933--55521258	96	3.4	96	81	5	364	26	19	30	23	1.98
55520893--55521258	142	2.6	142	82	3	443	26	19	29	23	1.98
55520933--55521249	95	3.3	96	81	6	337	27	18	30	23	1.98
55520937--55521302	47	7.8	47	76	10	261	25	19	30	24	1.98
55521675--55521794	59	2.0	59	100	0	240	41	10	16	31	1.81
55526606--55526926	47	6.8	47	76	8	278	26	18	30	24	1.98
55526599--55526944	94	3.7	93	76	10	312	26	18	30	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55526558--55526957	142	2.8	141	81	4	434	26	19	29	25	1.98
55527307--55527491	92	2.0	92	100	0	370	37	16	16	29	1.91
55532745--55533048	47	6.6	45	69	12	172	27	17	28	26	1.98
55532897--55533051	44	3.5	44	72	8	141	26	18	27	27	1.98
55532837--55533051	91	2.4	91	92	0	358	26	18	27	26	1.98
55534515--55534544	14	2.1	14	100	0	60	50	6	0	43	1.28
55535026--55535203	27	6.6	27	83	3	205	26	15	28	29	1.96
55535027--55535182	82	1.9	81	88	3	233	26	15	28	29	1.96
55535023--55535203	82	2.2	81	83	2	229	27	15	27	29	1.96
55537050--55537081	14	2.4	13	90	10	55	62	12	6	18	1.50
55544445--55544484	18	2.1	18	86	9	53	52	10	2	35	1.48
55545711--55545790	27	3.0	25	83	15	99	33	22	22	21	1.97
55545926--55546086	27	6.0	27	82	1	180	27	21	19	32	1.97
55549634--55549666	5	6.8	5	93	6	59	0	15	0	84	0.61
55552563--55552599	16	2.4	15	90	4	56	54	0	0	45	1.00
55560361--55560585	48	4.7	48	81	3	247	23	27	20	28	1.99
55560361--55560540	96	1.9	96	88	2	272	23	28	21	26	1.99
55560313--55560595	144	2.0	144	85	4	392	24	27	21	27	1.99
55565773--55565847	25	3.0	26	81	15	86	24	24	21	30	1.99
55565784--55565866	25	3.3	25	80	12	82	25	24	21	28	1.99
55576899--55577053	42	3.7	42	68	15	113	34	23	16	25	1.95
55579330--55579368	21	1.9	20	84	5	51	48	17	0	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55582911--55583085	27	6.4	27	82	3	190	30	27	14	27	1.95
55582929--55583084	82	1.9	81	86	3	224	30	28	14	26	1.95
55591083--55591260	27	6.6	27	84	3	205	29	28	15	26	1.96
55591104--55591259	82	1.9	81	88	3	233	29	28	15	26	1.96
55597436--55597744	27	11.4	27	88	0	447	31	12	17	38	1.87
55597736--55597797	27	2.3	27	85	0	79	41	16	19	22	1.89
55598141--55598199	18	3.3	18	79	9	75	23	20	16	38	1.92
55598183--55598279	35	2.8	35	82	1	124	32	17	19	29	1.95
55598189--55598309	34	3.5	34	81	1	116	29	19	21	29	1.97
55599549--55599710	42	3.8	43	75	11	129	32	24	17	25	1.97
55602188--55602221	18	2.0	17	88	11	52	41	0	5	52	1.25
55602566--55602617	26	2.1	24	89	7	77	53	5	7	32	1.53
55604669--55604712	6	7.3	6	84	0	52	56	0	27	15	1.40
55604671--55604711	18	2.3	18	100	0	82	56	0	26	17	1.41
55604669--55604711	12	3.6	12	93	0	59	55	0	27	16	1.41
55604883--55604944	26	2.4	26	86	0	79	43	9	12	33	1.76
55608399--55608473	37	2.0	37	92	0	123	32	20	22	25	1.98
55630823--55630957	48	2.8	48	83	0	171	24	17	27	31	1.97
55639416--55639446	16	1.9	16	93	0	53	35	22	0	41	1.54
55639413--55639452	20	2.0	20	85	0	53	37	22	0	40	1.54
55639639--55639892	53	4.8	54	77	8	229	22	24	15	37	1.93
55639698--55639892	55	3.6	53	77	8	153	22	24	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55645107--55645160	26	2.0	27	83	16	69	33	12	9	44	1.75
55649768--55649977	55	3.9	55	77	6	205	24	24	16	34	1.95
55656467--55656502	18	1.9	19	88	5	56	36	8	22	33	1.84
55663445--55663476	6	5.3	6	96	0	55	28	0	0	71	0.86
55671577--55671616	19	2.1	19	86	9	55	30	7	10	52	1.62
55673432--55673544	43	2.7	43	87	6	160	23	18	26	31	1.97
55675608--55675670	33	1.9	33	96	0	117	31	4	22	41	1.74
55681766--55681813	25	1.9	25	91	0	78	35	25	14	25	1.94
55681861--55681916	11	5.5	11	71	16	57	35	12	19	32	1.89
55681850--55681916	20	3.3	20	93	0	116	34	11	20	32	1.90

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