genome.fa.s4.2.7.7.80.10.50.1000.130.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  130  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)
44067379--44067447	25	3.0	23	87	6	86	20	26	18	34	1.96
44077129--44077226	44	2.3	42	89	8	162	46	2	6	44	1.39
44077139--44077229	44	2.1	44	100	0	182	50	2	6	40	1.41
44077324--44077369	19	2.4	19	85	7	58	41	6	17	34	1.75
44077494--44077540	18	2.5	19	80	13	53	27	29	0	42	1.56
44081063--44081089	14	1.9	14	100	0	54	51	0	3	44	1.19
44081098--44081145	17	2.6	18	80	9	53	50	2	8	39	1.44
44082973--44083010	20	1.9	20	84	10	51	42	10	0	47	1.38
44082484--44083394	454	2.0	454	98	0	1750	38	18	8	33	1.82
44084062--44084135	36	2.1	36	97	0	139	31	20	10	37	1.87
44085097--44085155	23	2.6	23	81	7	75	67	3	0	28	1.06
44090577--44090781	94	2.2	94	95	0	365	20	30	26	22	1.98
44092577--44092650	22	3.4	22	96	0	130	17	24	40	17	1.91
44092665--44092729	30	2.2	30	82	0	76	33	21	26	18	1.96
44095030--44095086	18	3.3	18	71	14	66	49	19	10	21	1.78
44095023--44095097	33	2.3	33	97	0	141	49	17	9	24	1.75
44095080--44095140	31	2.0	31	87	9	90	59	9	4	26	1.50
44096017--44096064	19	2.5	19	96	0	87	20	22	0	56	1.43
44096017--44096064	9	5.0	10	85	10	73	20	22	0	56	1.43
44098729--44098907	39	4.6	39	93	0	286	12	26	23	37	1.90
44100921--44100945	13	1.9	13	100	0	50	8	0	24	68	1.16
44101893--44102181	41	7.0	41	99	0	569	28	22	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44102396--44102459	33	2.0	32	90	3	101	26	9	25	39	1.86
44102403--44102476	33	2.3	33	80	2	87	28	8	25	37	1.84
44116549--44116591	21	2.0	21	95	0	77	48	13	11	25	1.77
44118717--44118758	20	2.1	20	95	0	75	30	14	7	47	1.71
44125499--44125600	51	2.0	51	100	0	204	33	29	17	19	1.95
44125825--44125875	25	2.0	25	100	0	102	9	11	27	50	1.70
44137052--44137101	23	2.2	23	82	7	57	48	12	2	38	1.52
44138778--44138851	33	2.2	33	97	0	139	45	6	18	28	1.75
44140104--44140138	15	2.3	15	90	0	52	57	0	0	42	0.99
44141021--44141063	14	3.1	14	77	12	52	58	0	0	41	0.98
44144541--44144606	26	2.5	27	85	7	100	25	25	27	21	1.99
44155298--44155333	18	2.1	17	94	5	63	38	0	11	50	1.38
44155464--44155528	28	2.3	28	86	5	87	61	4	4	29	1.36
44155942--44156278	164	2.0	169	93	4	576	28	30	8	32	1.88
44156646--44156689	9	4.9	9	80	8	54	0	25	2	72	0.96
44157025--44157070	22	2.1	22	83	0	56	71	10	8	8	1.30
44161165--44161222	28	2.1	28	96	0	107	27	22	10	39	1.86
44172366--44172689	134	2.4	133	85	2	436	30	16	13	38	1.88
44172808--44172850	19	2.2	20	84	12	54	34	11	6	46	1.67
44172977--44173016	21	1.9	21	89	0	62	37	20	10	32	1.85
44173967--44174420	134	3.4	133	76	3	356	30	18	14	37	1.90
44177442--44177473	9	3.6	9	100	0	64	56	9	21	12	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44177734--44177796	26	2.4	26	78	5	74	44	6	14	34	1.70
44180522--44180699	27	6.6	27	84	3	205	29	28	15	26	1.96
44180543--44180698	82	1.9	81	88	3	233	29	28	15	26	1.96
44188585--44188762	27	6.6	27	84	3	205	29	28	15	26	1.96
44188606--44188761	82	1.9	81	88	3	233	29	28	15	26	1.96
44191463--44191531	29	2.4	29	95	0	120	36	11	28	23	1.90
44191592--44191660	33	2.1	33	91	0	111	37	10	20	31	1.86
44202023--44202227	102	2.0	102	98	0	392	37	19	8	34	1.82
44203836--44203937	48	2.1	48	87	1	141	47	7	21	23	1.77
44207521--44207552	3	10.7	3	100	0	64	0	31	0	68	0.90
44218579--44218608	14	2.1	14	93	0	51	50	13	6	30	1.67
44218966--44218998	11	3.0	11	100	0	66	63	0	9	27	1.24
44228618--44228720	52	2.0	52	98	0	197	24	18	7	49	1.73
44233175--44233229	21	2.7	21	82	2	67	56	0	3	40	1.17
44235022--44235108	26	3.4	25	74	13	79	25	17	22	34	1.96
44238157--44238216	24	2.7	21	74	10	57	45	3	0	51	1.17
44250563--44250732	84	2.0	84	97	0	322	25	27	14	32	1.95
44254649--44254681	16	2.1	15	94	5	57	6	3	6	84	0.84
44254740--44254774	17	1.9	19	88	11	56	20	2	11	65	1.37
44255590--44255614	3	8.3	3	100	0	50	32	0	68	0	0.90
44268720--44268744	7	3.6	7	100	0	50	88	0	0	12	0.53
44270632--44270676	21	2.0	23	87	8	67	33	22	8	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44272200--44272247	21	2.3	21	85	7	62	45	4	0	50	1.21
44272998--44273047	26	2.0	26	84	4	66	54	0	8	38	1.30
44273071--44273114	18	2.5	17	81	3	52	36	0	4	59	1.18
44273159--44273200	21	2.0	21	90	0	66	28	2	0	69	1.01
44288927--44289014	44	2.0	44	100	0	176	34	22	6	36	1.81
44298394--44298425	9	3.6	9	100	0	64	46	18	9	25	1.79
44298445--44298485	6	6.5	6	83	10	55	17	0	4	78	0.93
44298510--44298534	13	1.9	13	100	0	50	12	0	48	40	1.40
44303582--44303608	14	1.9	14	100	0	54	62	0	0	37	0.95
44303763--44303820	21	2.8	22	79	7	59	29	1	3	65	1.19
44303763--44303820	22	2.8	20	77	10	62	29	1	3	65	1.19
44308650--44308718	28	2.5	26	77	9	66	65	2	2	28	1.22
44310013--44310047	8	4.4	8	100	0	70	88	0	11	0	0.51
44313237--44313298	28	2.2	28	88	0	88	25	3	14	56	1.53
44315349--44315404	29	1.9	29	85	0	76	53	8	1	35	1.43
44322534--44322699	81	2.0	81	90	0	260	26	18	25	30	1.98
44324499--44324538	19	2.1	19	85	0	53	10	5	12	72	1.26
44328995--44329030	18	2.0	18	100	0	72	22	11	22	44	1.84
44332244--44332268	12	2.1	12	100	0	50	84	0	16	0	0.63
44338250--44338275	13	2.0	13	100	0	52	38	23	7	30	1.83
44344237--44344269	17	2.0	17	94	5	59	36	15	0	48	1.45
44356446--44356484	16	2.4	16	82	0	51	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44356513--44356553	17	2.4	18	88	8	59	7	17	0	75	1.02
44358153--44358186	16	2.1	16	100	0	68	5	23	11	58	1.55
44375313--44375794	161	3.0	162	95	1	896	35	20	16	27	1.94
44375313--44375798	162	3.0	162	96	1	904	34	20	16	27	1.94
44376893--44376985	18	5.2	18	90	0	150	27	24	16	31	1.96
44384275--44384309	3	11.7	3	100	0	70	65	0	34	0	0.93
44384838--44384863	4	6.5	4	100	0	52	23	0	0	76	0.78
44385754--44385971	111	2.0	111	88	0	328	36	8	15	40	1.77
44392997--44393054	28	2.0	28	83	9	73	25	18	13	41	1.88
44422462--44422521	30	2.0	30	96	0	111	26	18	18	36	1.94
44426763--44427128	46	8.0	46	87	0	491	41	13	22	22	1.88
44427409--44427441	17	2.0	17	94	5	59	48	0	15	36	1.45
44436372--44436409	19	2.0	20	89	5	60	50	2	0	47	1.15
44438341--44438399	30	2.0	30	87	9	86	40	3	0	55	1.16
44446324--44446515	88	2.2	86	79	7	201	40	14	8	35	1.77
44446549--44446588	17	2.2	18	86	8	55	52	0	2	45	1.14
44446670--44446717	20	2.4	19	76	10	51	64	2	8	25	1.32
44446833--44446922	9	9.5	10	69	15	50	28	4	2	64	1.25
44446833--44446922	19	4.8	19	72	15	80	28	4	2	64	1.25
44446780--44446901	56	2.2	55	82	7	140	30	6	1	61	1.31
44446872--44446938	17	3.8	17	76	19	66	25	2	2	68	1.18
44453307--44453374	18	3.8	18	80	3	75	35	16	13	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44453490--44453604	51	2.2	53	84	4	144	41	20	20	17	1.90
44454893--44454940	20	2.3	21	92	3	80	50	4	0	45	1.21
44462316--44462357	16	2.6	17	85	7	52	54	2	0	42	1.13
44463227--44463276	17	2.7	20	78	18	70	10	0	44	46	1.37
44467866--44467915	17	2.7	20	78	18	70	10	0	44	46	1.37
44469795--44469844	22	2.5	19	80	9	55	60	8	8	24	1.52
44469959--44470001	17	2.4	17	80	7	50	53	0	0	46	1.00
44474754--44474797	22	1.9	22	81	9	52	27	4	6	61	1.41
44483581--44483688	26	4.2	26	93	0	189	36	24	7	32	1.83
44489668--44489693	12	2.2	12	100	0	52	15	23	34	26	1.94

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