genome.fa.s4.2.7.7.80.10.50.1000.127.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_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  127  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)
43058589--43058615	11	2.5	11	100	0	54	18	0	11	70	1.16
43059155--43059183	2	14.5	2	100	0	58	48	0	0	51	1.00
43061426--43061461	8	4.5	8	100	0	72	77	0	0	22	0.76
43061436--43061488	16	3.3	16	81	5	54	69	0	11	18	1.17
43061426--43061477	24	2.2	24	85	0	68	75	0	5	19	1.01
43062979--43063016	3	12.7	3	100	0	76	0	0	65	34	0.93
43063710--43063749	21	2.0	21	90	5	64	42	0	0	57	0.98
43063709--43063758	21	2.3	22	80	16	59	40	0	2	58	1.10
43064371--43064428	28	2.1	28	96	0	107	25	8	18	46	1.78
43064766--43064852	43	2.0	43	95	0	156	48	8	13	29	1.71
43070004--43070169	53	3.1	53	88	6	221	25	15	28	30	1.96
43078967--43079170	48	4.2	48	80	1	203	28	21	17	32	1.96
43078967--43079170	96	2.1	96	83	0	255	28	21	17	32	1.96
43079811--43079931	55	2.2	55	86	0	161	23	23	28	25	2.00
43081191--43081260	24	2.9	24	89	4	97	17	22	7	52	1.68
43086406--43086537	45	2.9	45	89	0	192	34	14	20	30	1.92
43088989--43089233	122	2.0	123	95	2	440	37	18	18	25	1.94
43097811--43098027	113	1.9	113	97	0	407	48	12	23	14	1.78
43097907--43097952	21	2.2	21	96	3	85	67	0	21	10	1.21
43104799--43104847	15	3.3	15	78	13	57	40	0	0	59	0.98
43110741--43110975	83	2.8	83	100	0	470	21	7	25	45	1.78
43122297--43122337	20	2.0	21	86	13	59	56	0	2	41	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43122295--43122346	20	2.7	18	77	16	52	57	0	1	40	1.10
43126222--43126249	14	2.0	14	100	0	56	42	0	0	57	0.99
43126387--43126429	23	1.9	23	85	4	61	32	6	4	55	1.47
43126747--43126794	25	1.9	25	82	0	60	31	2	12	54	1.49
43127032--43127090	6	10.0	6	76	8	59	20	1	1	76	0.96
43127026--43127064	19	2.1	19	100	0	78	28	5	5	61	1.39
43127054--43127091	11	3.5	11	82	10	51	18	0	0	81	0.69
43127051--43127085	17	2.1	17	94	0	61	20	0	0	80	0.72
43135771--43135811	21	2.1	19	86	9	55	31	0	17	51	1.46
43139327--43139364	20	1.9	20	84	10	51	47	0	10	42	1.38
43140268--43140310	22	2.0	22	85	0	59	20	16	25	37	1.93
43143075--43143116	21	2.0	21	100	0	84	57	4	0	38	1.20
43146712--43146802	47	1.9	47	95	0	164	47	15	14	23	1.82
43155858--43155988	51	2.6	51	77	0	154	37	5	13	43	1.67
43160889--43161017	51	2.5	51	82	0	177	38	5	13	41	1.68
43163594--43163657	33	1.9	34	87	9	96	26	0	1	71	0.94
43163586--43163656	17	4.2	16	70	13	54	28	0	1	70	0.96
43163555--43163656	22	4.2	23	72	17	73	28	0	2	67	1.11
43165620--43165656	16	2.3	16	86	13	58	40	0	0	59	0.97
43171819--43171953	69	2.0	69	87	0	198	31	13	20	35	1.91
43175712--43175746	14	2.5	14	85	0	52	22	0	0	77	0.78
43176466--43176500	6	5.5	6	87	12	52	80	2	0	17	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43176469--43176495	14	1.9	14	100	0	54	74	3	0	22	0.98
43176443--43176501	21	2.6	22	82	15	68	72	3	0	23	0.99
43176466--43176500	14	2.8	12	84	16	52	80	2	0	17	0.84
43176520--43176596	27	2.9	27	94	3	129	31	7	18	42	1.78
43176520--43176596	18	4.3	18	81	0	82	31	7	18	42	1.78
43185886--43185924	3	13.0	3	100	0	78	66	0	0	33	0.92
43192253--43192294	22	1.9	22	85	9	59	38	11	2	47	1.53
43196123--43196154	16	2.0	16	93	0	55	40	6	12	40	1.68
43197392--43197418	12	2.2	12	100	0	54	22	44	25	7	1.79
43201091--43201184	30	3.1	30	93	1	152	25	25	6	42	1.78
43201101--43201178	15	5.2	15	70	11	70	25	23	7	43	1.80
43205754--43205877	30	4.1	30	93	1	203	25	24	6	43	1.78
43205764--43205871	15	7.2	15	67	12	78	25	22	7	44	1.79
43206469--43206499	5	6.2	5	100	0	62	80	0	0	19	0.71
43217206--43217252	22	2.3	20	79	13	51	25	8	2	63	1.34
43223165--43223232	34	2.0	34	100	0	136	50	8	14	26	1.72
43227542--43227617	39	2.0	38	84	7	100	46	13	2	38	1.57
43235095--43235141	23	2.0	22	84	12	58	23	2	4	70	1.16
43235103--43235149	23	2.0	24	84	12	62	27	0	4	68	1.08
43238308--43238373	32	2.0	34	82	8	82	39	0	0	60	0.97
43238341--43238401	27	2.2	28	83	11	74	34	0	1	63	1.04
43241118--43243057	970	2.0	970	100	0	3880	34	20	14	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43245705--43245757	25	2.1	25	89	0	79	39	0	5	54	1.24
43252220--43252268	25	1.9	26	84	12	66	71	2	16	10	1.22
43253779--43253865	21	4.0	23	80	10	92	14	21	25	37	1.92
43255188--43255230	19	2.3	19	80	8	52	58	0	0	41	0.98
43256243--43256277	4	8.8	4	100	0	70	22	0	25	51	1.48
43264922--43264975	21	2.5	21	84	3	72	61	1	0	37	1.07
43264973--43265034	30	2.0	31	87	9	92	58	3	11	27	1.48
43265486--43265536	21	2.4	22	86	6	77	50	0	0	49	1.00
43272210--43272252	22	1.9	23	81	13	54	48	4	0	46	1.22
43274609--43274680	19	3.8	17	74	18	54	62	5	2	29	1.32
43300510--43300564	22	2.5	22	80	11	60	32	3	1	61	1.24
43300523--43300582	22	2.8	22	80	12	54	31	3	3	61	1.28
43300655--43300752	35	2.9	35	72	20	91	38	1	5	55	1.29
43300695--43300731	12	2.9	12	92	8	56	43	0	5	51	1.24
43300915--43300998	14	6.1	14	65	14	50	34	8	3	53	1.48
43300925--43300997	27	2.8	25	83	8	83	35	8	4	52	1.51
43300925--43301030	27	4.2	24	74	16	74	35	7	4	51	1.51
43301008--43301061	26	2.0	27	86	10	76	37	3	1	57	1.27
43301117--43301228	58	1.9	59	83	8	149	34	7	7	50	1.57
43301292--43301353	23	2.8	23	83	7	76	32	3	4	59	1.34
43301420--43301475	24	2.5	22	78	16	60	35	5	1	57	1.32
43301489--43301666	25	7.4	25	67	19	112	32	8	5	53	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43305080--43305125	18	2.6	18	78	0	56	30	32	30	6	1.83
43307458--43307495	20	1.9	20	88	0	58	36	5	28	28	1.79
43310164--43310196	15	2.1	16	94	5	59	39	0	0	60	0.97
43320053--43320084	16	2.0	16	100	0	64	25	18	6	50	1.70
43331479--43331541	31	2.0	32	82	11	78	34	4	12	47	1.63
43332532--43332587	18	2.9	19	73	26	55	48	0	1	50	1.11
43332657--43332714	15	3.5	15	70	20	53	51	1	0	46	1.11
43333045--43333116	33	2.2	33	82	7	85	51	13	5	29	1.64
43338227--43338333	33	3.2	32	74	16	92	28	26	0	44	1.60
43338239--43338333	33	2.8	34	78	12	113	30	26	1	42	1.62
43338310--43338354	21	2.1	21	87	0	63	26	31	2	40	1.68
43338352--43338435	18	4.3	21	72	13	72	26	29	2	41	1.68
43338340--43338423	39	2.2	39	91	0	132	30	29	2	36	1.70
43338341--43338435	39	2.4	39	89	0	127	28	30	2	38	1.69
43346078--43346110	5	6.6	5	100	0	66	0	81	0	18	0.68
43347309--43347338	14	2.1	14	93	0	51	46	36	0	16	1.47
43348827--43348872	20	2.2	21	85	11	60	26	0	4	69	1.07
43350965--43351160	54	3.5	54	78	11	243	33	23	15	27	1.95
43351021--43351213	59	3.4	59	76	12	247	33	24	15	26	1.95
43350967--43351213	113	2.2	113	100	0	494	33	23	15	27	1.95
43360941--43360984	22	2.0	22	81	0	52	27	9	2	61	1.38
43361320--43361344	12	2.1	12	100	0	50	0	0	8	92	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43361472--43361516	23	2.0	22	82	4	54	48	2	6	42	1.41
43366496--43366533	17	2.2	17	90	0	58	60	2	2	34	1.24
43367228--43367266	19	2.0	19	85	5	51	41	28	10	20	1.85
43371348--43371379	4	8.0	4	100	0	64	25	50	0	25	1.50
43373175--43373336	80	2.0	82	87	2	238	46	11	9	32	1.73
43379594--43379623	15	1.9	16	93	6	53	46	0	0	53	1.00
43387526--43387559	14	2.4	14	86	13	52	41	0	0	58	0.98
43389697--43389732	19	1.9	19	94	5	65	50	5	2	41	1.40
43393337--43393405	31	2.3	30	87	5	102	46	11	8	33	1.71
43393386--43393444	31	2.0	29	83	6	73	40	13	10	35	1.78

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