genome.fa.s23.2.7.7.80.10.50.1000.92.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  92  of  167  ( 19959 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)
30554726--30554781	28	2.0	29	82	3	69	16	21	41	21	1.90
30559445--30559882	47	9.3	47	92	2	700	33	8	29	28	1.87
30560338--30560912	286	2.0	285	99	0	1132	25	16	20	36	1.94
30561802--30561961	43	3.7	44	73	14	138	31	26	18	23	1.97
30563596--30563674	37	2.1	37	90	0	122	25	31	18	24	1.98
30563808--30563845	20	1.9	20	94	0	67	26	39	2	31	1.70
30563828--30563988	47	3.4	47	90	1	252	29	29	8	32	1.87
30572445--30572622	27	6.6	27	83	3	205	26	15	28	29	1.96
30572446--30572601	82	1.9	81	88	3	233	26	15	28	29	1.96
30572442--30572622	82	2.2	81	83	2	229	27	15	27	29	1.96
30576467--30576625	43	3.7	42	83	13	200	29	25	20	24	1.99
30576467--30576626	86	1.9	85	85	8	227	30	25	20	24	1.99
30583320--30583364	17	2.6	18	80	16	51	48	2	0	48	1.13
30584696--30584731	18	1.9	19	88	5	56	33	0	8	58	1.28
30584722--30584755	17	2.0	17	88	11	52	29	0	0	70	0.87
30584923--30584951	11	2.5	12	94	5	51	86	0	13	0	0.58
30587901--30587929	13	2.2	13	100	0	58	24	6	0	68	1.13
30588466--30588539	10	7.8	10	66	22	52	45	12	24	17	1.82
30588468--30588545	17	4.3	17	81	15	102	46	12	23	17	1.83
30589444--30589484	3	13.7	3	100	0	82	34	0	0	65	0.93
30594191--30594368	27	6.6	27	83	3	205	26	15	28	29	1.96
30594192--30594347	82	1.9	81	88	3	233	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30594188--30594368	82	2.2	81	83	2	229	27	15	27	29	1.96
30614203--30614341	44	3.2	44	72	10	122	28	23	20	28	1.99
30614175--30615905	88	19.7	88	93	0	2616	26	24	22	27	2.00
30616084--30616407	88	3.7	87	90	3	479	25	24	21	28	1.99
30615580--30616582	502	2.0	501	94	1	1778	28	22	21	27	1.99
30616480--30617022	44	11.8	45	72	12	361	30	19	23	26	1.98
30616480--30617034	140	4.0	140	86	1	774	30	19	23	26	1.98
30618693--30618726	11	3.2	10	84	15	50	11	2	0	85	0.71
30629692--30629803	56	2.0	56	94	0	197	32	16	23	27	1.96
30634042--30634248	53	3.8	53	74	3	180	38	17	22	20	1.93
30643745--30643812	16	4.3	15	77	17	57	29	8	16	45	1.77
30646053--30646108	26	2.2	26	83	6	69	60	5	0	33	1.19
30647802--30648566	220	3.5	219	91	0	1143	27	21	18	32	1.96
30656608--30656639	14	2.1	16	88	11	50	40	12	25	21	1.88
30660664--30661226	281	2.0	281	98	0	1092	27	17	15	39	1.90
30672038--30672207	48	3.5	47	81	3	196	28	24	17	29	1.97
30673946--30674005	30	2.0	30	100	0	120	30	3	20	46	1.66
30675395--30675880	122	4.0	122	97	0	893	29	14	17	38	1.90
30677538--30677609	31	2.3	32	88	4	103	36	5	8	50	1.56
30678315--30678347	9	3.7	9	91	0	57	24	12	24	39	1.89
30678313--30678347	18	1.9	18	100	0	70	28	11	22	37	1.89
30683168--30683296	65	2.0	64	93	1	222	47	3	30	19	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30683291--30683333	2	21.5	2	100	0	86	51	0	48	0	1.00
30685509--30685542	15	2.3	15	94	0	59	17	8	32	41	1.80
30691171--30691344	46	3.8	45	76	13	192	28	29	20	21	1.98
30691178--30691348	93	1.8	93	92	0	288	28	29	21	21	1.98
30695992--30696027	19	1.9	18	88	5	54	11	36	25	27	1.90
30700006--30700103	34	2.9	34	84	3	126	25	22	22	29	1.99
30700093--30700148	18	3.1	18	70	10	51	41	19	19	19	1.91
30700467--30700606	27	5.2	27	85	0	181	26	17	17	38	1.92
30718046--30718073	10	2.8	10	100	0	56	71	7	10	10	1.31
30721294--30721335	12	3.5	12	93	0	75	33	26	14	26	1.94
30738333--30738361	14	2.0	15	93	6	51	62	17	6	13	1.52
30744766--30744803	20	2.0	20	89	5	60	39	2	13	44	1.57
30744970--30745009	17	2.3	18	86	4	55	52	0	5	42	1.23
30745910--30745957	20	2.4	20	96	0	87	29	14	27	29	1.95
30750070--30750346	48	5.8	48	78	3	281	24	28	17	28	1.98
30750076--30750346	96	2.8	96	83	2	321	25	28	17	28	1.98
30753715--30754109	198	2.0	197	95	0	718	35	21	15	27	1.94
30754282--30754799	261	2.0	261	98	0	1009	34	20	12	32	1.90
30754803--30754881	37	2.1	37	90	0	122	25	31	18	24	1.98
30755000--30755467	47	9.9	47	93	3	766	29	29	8	32	1.87
30758728--30758773	24	1.9	24	86	8	67	60	4	4	30	1.35
30759865--30759961	47	2.1	47	86	0	131	32	15	2	49	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30765900--30766378	47	10.1	47	96	0	868	32	8	28	29	1.88
30766541--30766619	37	2.1	37	90	0	122	24	18	31	25	1.98
30771083--30771297	47	4.6	47	79	10	201	24	28	18	28	1.98
30771079--30771297	93	2.3	93	79	10	232	24	28	18	28	1.98
30772582--30772606	13	1.9	13	100	0	50	20	16	24	40	1.91
30774246--30774314	36	1.9	36	90	0	111	27	18	24	28	1.98
30781053--30781170	60	2.0	60	91	0	191	51	12	0	34	1.46
30781342--30781394	14	4.0	14	76	14	58	0	32	0	67	0.91
30784131--30784184	20	2.6	20	80	13	56	57	0	0	42	0.98
30784216--30784254	18	2.2	18	90	9	62	61	2	0	35	1.10
30801175--30801460	43	6.7	43	87	1	331	27	18	24	29	1.98
30801169--30801460	129	2.3	129	84	2	372	28	17	24	29	1.98
30808335--30808426	46	2.0	46	91	0	148	32	23	18	25	1.97
30808898--30809116	46	4.7	46	80	10	218	23	29	19	26	1.98
30808898--30809116	94	2.4	91	81	11	243	23	29	19	26	1.98
30810489--30810544	19	2.9	19	80	19	64	58	0	0	41	0.98
30815183--30815335	28	5.5	28	88	1	211	25	13	29	31	1.94
30815183--30815335	83	1.8	83	86	5	220	25	13	29	31	1.94
30820287--30820319	13	2.5	13	100	0	66	36	18	21	24	1.95
30820443--30820486	23	1.9	23	100	0	88	40	13	22	22	1.89
30822717--30822741	13	1.9	13	100	0	50	32	20	16	32	1.94
30823291--30823468	27	6.6	26	82	6	178	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30823292--30823447	82	1.9	81	86	3	224	26	16	28	28	1.97
30823288--30823468	82	2.2	81	82	2	220	27	16	27	29	1.97
30823373--30823479	27	3.9	27	85	1	70	26	14	28	30	1.95
30827018--30827248	44	5.2	45	72	4	155	32	18	20	29	1.96
30827161--30827340	97	1.8	99	83	2	238	33	15	19	31	1.92
30827260--30827367	43	2.5	43	82	7	123	32	15	18	33	1.93
30827391--30827498	44	2.5	44	84	3	128	32	22	16	28	1.96
30827528--30827772	44	5.5	44	72	6	129	31	16	20	31	1.94
30827534--30827773	132	1.8	133	81	6	299	31	16	20	32	1.94
30828294--30828321	3	9.3	3	100	0	56	67	0	0	32	0.91
30829320--30829396	24	3.2	24	88	0	109	35	3	40	20	1.71
30830827--30830938	27	4.2	26	85	7	143	16	24	23	36	1.94
30830827--30830938	54	2.1	54	89	3	172	16	24	23	36	1.94
30832459--30832512	27	2.0	27	85	0	72	38	7	14	38	1.75
30832761--30832896	49	2.7	51	86	2	195	27	18	25	29	1.98
30841672--30841737	31	2.1	31	97	0	123	36	7	22	33	1.83
30844625--30844680	9	6.4	9	82	10	55	82	0	16	1	0.76
30844623--30844682	20	2.8	20	82	9	66	83	0	15	1	0.73
30844623--30844683	22	2.9	21	80	17	65	81	0	14	3	0.80
30845552--30845733	44	4.1	44	75	8	181	29	17	24	28	1.97
30845723--30846435	119	6.0	119	95	0	1228	33	17	18	30	1.94
30846360--30847368	83	12.1	83	98	0	1901	32	19	20	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30852030--30852071	11	3.7	11	79	17	50	69	2	0	28	1.01
30853700--30853738	19	2.1	18	85	4	51	71	2	0	25	0.98
30857790--30858097	154	2.0	154	96	0	571	44	15	13	25	1.83
30860240--30860431	47	4.1	47	91	0	267	32	10	30	26	1.90
30860550--30860628	37	2.1	37	88	4	115	25	18	30	25	1.98
30862643--30862716	8	8.9	8	78	11	69	32	0	2	64	1.07
30862636--30862689	15	3.6	15	87	0	63	33	0	1	64	1.04
30862656--30862716	9	7.0	9	77	17	58	31	0	1	67	1.01
30862643--30862690	15	3.1	15	87	3	69	29	0	2	68	1.01
30862940--30862988	14	3.4	14	82	2	62	14	0	40	44	1.45

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