genome.fa.s4.2.7.7.80.10.50.1000.15.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  15  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)
4226552--4226681	39	3.6	35	85	11	133	19	15	24	40	1.90
4226737--4226895	54	2.9	54	91	2	239	15	22	20	40	1.90
4230145--4230913	323	2.4	323	96	0	1405	34	19	14	31	1.92
4235764--4236093	51	6.5	51	99	0	651	11	30	15	43	1.82
4238930--4239215	4	73.5	4	83	5	354	49	27	0	22	1.55
4240913--4241040	44	3.0	44	81	12	124	21	17	27	33	1.96
4240913--4241070	42	3.7	43	75	13	148	22	18	27	31	1.97
4242313--4242340	1	28.0	1	100	0	56	100	0	0	0	0.00
4261896--4262032	47	2.9	48	78	8	172	23	29	18	28	1.97
4261896--4262073	94	1.9	94	84	2	241	24	28	17	29	1.98
4266797--4267357	286	2.0	286	90	1	883	26	16	22	34	1.95
4275289--4275402	60	1.9	60	85	3	158	23	12	15	48	1.79
4275588--4275663	31	2.4	32	76	4	84	48	13	5	32	1.64
4277214--4277256	22	2.0	22	90	0	68	23	13	6	55	1.62
4277473--4277503	11	2.8	11	90	0	53	67	0	0	32	0.91
4288965--4288998	17	2.0	17	94	0	59	44	50	0	5	1.26
4293605--4293638	17	2.0	17	94	0	59	44	50	0	5	1.26
4298578--4298704	50	2.5	51	88	1	193	35	15	22	25	1.94
4298684--4299486	31	25.9	31	100	0	1606	29	19	25	25	1.99
4299441--4299532	46	2.0	46	89	0	139	26	22	23	27	2.00
4299488--4299556	31	2.2	31	84	0	84	26	20	26	27	1.99
4299410--4299556	77	1.9	77	88	0	222	26	21	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4303182--4303243	30	2.1	30	90	0	97	27	14	17	40	1.89
4319231--4319362	39	3.4	39	89	2	185	31	19	24	25	1.98
4319355--4319560	39	5.3	39	92	2	342	19	21	29	29	1.98
4319238--4319570	78	4.3	78	82	7	313	23	21	27	27	1.99
4319306--4319572	117	2.3	119	84	3	371	22	22	28	27	1.99
4328661--4328724	31	2.1	31	100	0	128	45	18	6	29	1.74
4332227--4332303	40	1.9	40	86	0	109	28	23	14	33	1.94
4360595--4360733	40	3.5	38	76	7	125	24	26	23	25	2.00
4361039--4361117	29	2.7	29	86	5	106	27	32	15	24	1.95
4363011--4363089	37	2.1	37	90	0	122	25	31	18	24	1.98
4363208--4363351	47	3.1	47	86	2	200	26	31	10	31	1.90
4367858--4368133	143	1.9	143	86	0	390	30	18	21	29	1.97
4374398--4374473	3	25.7	3	93	2	127	2	30	0	67	1.05
4375647--4376992	448	3.0	448	99	0	2656	31	14	19	34	1.92
4379093--4379124	15	2.1	15	100	0	64	28	12	18	40	1.87
4380643--4380718	32	2.3	32	88	2	116	27	3	17	51	1.63
4382036--4382062	14	1.9	14	100	0	54	40	22	0	37	1.54
4382519--4382559	22	1.9	22	90	5	66	9	43	26	19	1.82
4384675--4384820	41	3.4	42	72	15	113	25	17	28	29	1.97
4384675--4384830	83	1.8	85	82	6	201	26	17	27	28	1.97
4392029--4392156	49	2.6	49	82	2	150	28	23	28	19	1.98
4392029--4392247	49	4.6	46	70	15	135	29	20	28	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4392387--4392442	16	3.5	16	87	0	85	33	5	30	30	1.80
4392424--4392517	44	2.1	46	88	4	138	32	5	26	35	1.79
4396994--4397065	27	2.6	27	78	10	74	68	4	1	26	1.16
4398600--4398636	13	2.6	14	91	8	58	45	0	40	13	1.43
4401527--4401611	17	4.9	17	71	24	54	75	1	3	20	1.02
4401524--4401616	36	2.6	35	77	15	102	74	1	4	20	1.05
4401541--4401611	22	3.3	22	75	11	65	74	1	4	19	1.06
4401556--4401610	4	13.8	4	74	14	51	76	0	3	20	0.94
4405279--4405337	22	2.6	22	78	2	64	76	8	1	13	1.09
4405314--4405340	6	4.5	6	100	0	54	81	0	0	18	0.69
4406389--4406446	30	1.9	30	86	13	84	12	25	34	27	1.91
4407227--4407271	23	2.0	23	90	0	72	24	11	26	37	1.89
4407228--4407277	23	2.2	23	85	0	64	28	10	24	38	1.87
4409776--4409826	12	4.2	12	82	0	57	11	15	49	23	1.78
4418084--4418115	15	2.1	15	100	0	64	28	40	12	18	1.87
4420815--4420871	16	3.6	16	90	0	87	38	3	35	22	1.72
4420810--4420879	16	4.4	16	87	0	86	35	2	32	28	1.72
4421212--4421257	15	3.0	16	81	9	60	52	2	0	45	1.13
4421250--4421289	12	3.5	11	90	6	62	27	2	2	67	1.16
4428008--4428071	29	2.2	29	82	2	74	34	9	18	37	1.83
4431296--4432212	115	8.0	115	100	0	1834	34	13	18	33	1.90
4438267--4438298	14	2.3	14	100	0	64	65	6	6	21	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4439797--4439872	38	2.0	38	97	0	143	40	10	14	34	1.80
4440975--4441030	15	3.7	15	85	0	67	28	14	3	53	1.57
4445933--4446187	64	4.0	64	73	7	194	31	23	31	13	1.93
4445948--4446185	128	1.9	128	78	5	266	31	22	31	13	1.93
4446775--4446841	28	2.4	27	78	7	71	62	0	7	29	1.22
4447505--4447551	20	2.3	20	92	0	76	29	31	12	25	1.93
4448441--4448506	23	2.8	24	78	17	68	24	4	1	69	1.15
4448614--4448663	24	2.1	23	96	3	91	8	8	4	80	1.03
4448614--4448675	24	2.6	24	87	7	74	8	8	6	77	1.13
4453276--4453428	44	3.4	45	81	12	177	33	24	15	26	1.95
4454884--4454918	16	2.2	16	89	0	52	34	20	2	42	1.66
4458368--4458449	26	3.2	26	94	0	137	36	21	7	34	1.82
4465636--4465667	6	5.3	6	100	0	64	0	34	15	50	1.45
4475975--4476172	39	5.1	39	92	0	333	24	29	24	21	1.99
4484112--4484201	6	15.0	6	92	0	108	27	1	21	50	1.56
4484491--4484556	22	3.3	22	68	24	72	33	0	13	53	1.41
4484490--4484570	38	2.2	38	97	2	155	34	0	13	51	1.41
4486596--4486636	16	2.5	16	88	4	55	26	2	14	56	1.51
4492548--4492600	19	2.8	20	83	11	67	39	0	1	58	1.09
4492548--4492587	20	2.1	19	90	4	62	37	0	0	62	0.95
4492555--4492600	9	4.7	10	76	13	51	36	0	2	60	1.09
4493916--4493959	17	2.6	17	92	0	79	27	0	18	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4508669--4508778	37	3.0	36	76	15	102	52	5	1	40	1.35
4518169--4518431	40	6.6	40	87	3	307	24	20	27	26	1.99
4518208--4518466	80	3.3	80	86	2	245	25	20	27	25	1.99
4519856--4520087	56	4.1	56	99	0	455	22	22	9	45	1.80
4528950--4528982	18	1.9	17	88	11	50	54	0	0	45	0.99
4536082--4536248	46	3.6	46	80	7	135	26	19	29	23	1.98
4545926--4546092	46	3.6	46	80	7	135	26	19	29	23	1.98
4551155--4551185	14	2.1	15	94	5	55	29	6	9	54	1.57
4553179--4553234	26	2.2	26	93	0	94	30	8	25	35	1.86
4557777--4557938	80	2.0	80	98	0	315	41	9	19	29	1.83
4558624--4558801	27	6.6	27	83	3	205	26	15	28	29	1.96
4558625--4558780	82	1.9	81	88	3	233	26	15	28	29	1.96
4558621--4558801	82	2.2	81	83	2	229	27	15	27	29	1.96
4572330--4572358	10	2.9	10	100	0	58	20	27	20	31	1.98
4575559--4575781	80	2.8	79	80	3	223	24	21	28	25	1.99
4575612--4575781	40	4.3	40	87	0	216	23	21	29	25	1.99
4575634--4575816	79	2.3	80	81	1	217	25	21	28	24	1.99
4579180--4579391	46	4.5	46	77	10	189	29	19	29	21	1.98
4579134--4579391	47	5.5	46	75	10	195	29	18	29	22	1.98
4594881--4594936	28	2.0	28	82	0	67	30	25	25	19	1.98
4595055--4595109	23	2.4	23	87	0	83	41	18	18	21	1.90
4598604--4598806	47	4.3	47	93	0	343	33	11	28	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4600366--4600439	29	2.6	29	86	4	96	27	16	31	25	1.96
4606823--4607242	229	1.8	229	100	0	840	32	15	21	30	1.94
4608737--4608807	29	2.4	29	86	4	90	28	15	29	26	1.96
4611978--4612114	37	3.7	37	89	3	204	26	18	30	24	1.98
4613384--4614175	40	19.8	40	94	0	1395	27	20	25	27	1.99
4613384--4614175	80	9.9	80	99	0	1539	27	20	25	27	1.99
4617846--4617963	47	2.5	47	90	0	173	33	11	28	27	1.91
4628937--4629019	31	2.7	31	96	3	152	27	26	16	28	1.97
4630099--4630172	27	2.7	27	82	12	89	18	17	22	40	1.91
4630259--4630383	27	4.7	26	83	8	144	28	6	21	43	1.77

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