genome.fa.s5.2.7.7.80.10.50.1000.170.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  170  of  208  ( 24913 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)
51883440--51883516	29	2.6	29	79	4	82	49	15	12	22	1.78
51884028--51884067	19	2.0	19	85	9	53	65	5	0	30	1.14
51885470--51885539	22	3.1	23	77	8	72	15	11	12	60	1.60
51894375--51894409	5	7.0	5	93	0	61	77	0	22	0	0.78
51897506--51897562	29	2.0	28	82	3	69	31	5	8	54	1.53
51900279--51900318	15	2.6	15	88	4	53	10	7	7	75	1.20
51900295--51900343	17	3.1	16	85	8	64	18	2	2	77	0.96
51900412--51900511	23	4.5	22	87	9	141	42	0	0	58	0.98
51900413--51900511	43	2.2	44	89	8	148	42	0	0	57	0.98
51900423--51900512	22	4.3	19	76	22	74	42	0	0	57	0.98
51900584--51900623	20	2.1	18	86	9	53	42	0	0	57	0.98
51900616--51900664	22	2.3	22	85	3	64	36	2	4	57	1.30
51900559--51900672	32	3.5	31	75	14	88	39	0	2	57	1.19
51907121--51907205	27	3.1	27	89	0	134	25	29	29	15	1.96
51907121--51907221	27	3.7	25	77	15	94	25	27	28	17	1.98
51907355--51907393	19	2.0	21	85	10	55	23	0	10	66	1.22
51907470--51907501	3	10.7	3	100	0	64	0	0	31	68	0.90
51909640--51909740	39	2.6	39	83	12	136	0	28	0	70	0.94
51909671--51909767	4	24.0	4	84	12	119	0	27	0	72	0.85
51909612--51909768	57	2.9	54	79	10	146	1	29	0	68	0.97
51909810--51909876	27	2.5	27	87	0	98	16	25	28	29	1.97
51909943--51910015	28	2.7	26	84	14	94	46	1	9	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51910700--51910770	34	2.2	33	87	5	99	25	21	23	29	1.99
51912906--51912947	21	2.0	21	90	0	66	21	11	11	54	1.68
51912847--51912985	70	2.0	70	91	2	226	34	12	12	39	1.82
51913240--51913295	30	1.9	30	85	7	80	32	0	1	66	1.03
51913302--51913337	19	1.9	19	88	5	56	38	2	5	52	1.39
51913280--51913350	18	3.9	18	75	10	56	39	1	4	54	1.28
51913307--51913350	19	2.2	21	84	11	58	38	2	4	54	1.33
51917239--51917273	2	17.5	2	100	0	70	48	0	0	51	1.00
51918850--51918956	49	2.2	49	84	3	135	19	31	19	28	1.97
51918889--51918983	25	3.8	24	75	5	73	21	29	18	30	1.97
51918878--51918969	24	3.8	24	75	4	85	18	30	19	31	1.96
51919857--51919951	42	2.3	42	92	3	156	20	27	30	22	1.98
51925419--51925446	13	2.2	13	100	0	56	67	7	0	25	1.15
51925952--51925994	19	2.3	19	84	8	52	62	0	0	37	0.95
51925951--51925995	20	2.3	19	80	3	54	64	0	0	35	0.94
51927455--51927488	13	2.6	13	85	0	50	41	38	0	20	1.53
51927596--51927698	9	11.4	9	87	0	125	24	7	27	40	1.82
51930936--51930992	25	2.3	25	81	0	78	28	5	12	54	1.59
51952338--51952424	45	1.9	45	85	0	120	43	13	20	21	1.87
51963288--51963319	13	2.5	13	94	0	55	46	6	3	43	1.44
51963451--51963491	22	2.0	22	85	9	59	46	2	2	48	1.28
51964312--51964395	41	2.0	41	100	0	168	22	9	23	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51966300--51966401	51	2.0	51	100	0	204	31	21	13	33	1.92
51988309--51988349	5	8.6	5	80	20	52	0	17	0	82	0.66
51988302--51988349	23	2.1	23	88	7	71	0	18	0	81	0.70
51988314--51988349	18	2.0	18	89	10	56	0	16	0	83	0.65
51995368--51995413	20	2.3	20	92	0	74	32	36	21	8	1.84
51995489--51996149	138	4.8	137	79	5	627	31	22	16	28	1.96
51995496--51996118	276	2.3	276	82	4	740	31	22	17	29	1.96
51996971--51997019	23	2.1	23	96	0	89	24	38	12	24	1.90
52003728--52003757	2	15.0	2	100	0	60	0	0	50	50	1.00
52009322--52009399	39	2.0	39	97	0	147	52	7	17	21	1.70
52014253--52014300	22	2.2	22	100	0	96	16	52	18	12	1.75
52015407--52015471	25	2.5	25	90	5	94	27	4	7	60	1.44
52015408--52015494	25	3.3	26	84	7	79	28	6	5	58	1.47
52030122--52030245	44	2.8	44	81	1	131	34	18	16	30	1.93
52030154--52030239	45	1.9	44	83	2	109	32	17	16	33	1.92
52030173--52030682	94	5.4	95	82	3	503	32	17	20	29	1.96
52030263--52030401	44	2.9	49	69	22	141	30	17	25	25	1.97
52030080--52030682	188	3.2	188	79	3	522	33	17	20	28	1.95
52030991--52031023	15	2.2	15	89	10	50	57	27	3	12	1.49
52032678--52032864	93	2.0	93	98	0	365	33	19	13	33	1.91
52033293--52033336	20	2.1	21	83	8	54	61	11	6	20	1.52
52037727--52037978	42	6.0	41	90	3	310	32	22	21	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52037727--52037978	84	3.0	83	87	5	346	32	22	21	24	1.98
52038385--52038467	33	2.5	33	88	0	130	6	40	14	38	1.71
52038433--52038497	21	3.1	21	90	0	103	3	44	18	33	1.65
52040184--52040227	20	2.2	20	95	0	79	38	6	2	52	1.41
52040204--52040297	32	2.7	37	82	16	144	39	3	7	50	1.47
52041893--52041975	27	3.1	27	63	13	73	33	18	4	43	1.71
52041885--52041990	52	2.0	52	100	0	212	32	18	5	43	1.74
52041899--52041981	25	3.2	26	63	13	71	32	21	4	40	1.74
52042245--52042284	15	2.7	15	96	0	71	17	22	30	30	1.97
52045843--52045882	20	2.0	20	100	0	80	10	45	5	40	1.60
52047523--52047555	17	1.9	17	93	0	57	36	3	9	51	1.49
52047564--52047602	16	2.5	16	83	4	53	46	0	7	46	1.31
52047534--52047683	61	2.5	61	80	4	178	41	4	8	46	1.52
52047826--52048089	95	2.8	95	89	2	388	45	14	4	35	1.64
52047893--52048058	53	3.3	52	71	18	154	49	12	2	36	1.53
52047946--52048003	21	2.8	20	80	15	73	43	13	3	39	1.61
52048008--52048044	15	2.7	14	84	15	51	56	13	0	29	1.37
52048008--52048045	7	5.6	7	82	17	53	57	13	0	28	1.36
52047988--52048058	27	2.7	27	70	10	65	49	12	1	36	1.50
52048163--52048344	9	21.8	9	68	14	81	45	19	1	34	1.57
52048163--52048225	27	2.3	27	94	0	108	49	15	1	33	1.55
52048312--52048339	7	4.0	7	100	0	56	57	14	0	28	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52053825--52053875	21	2.4	21	83	0	66	33	15	49	1	1.56
52054182--52054385	42	4.9	42	87	0	293	35	18	22	23	1.95
52054182--52054385	84	2.4	83	91	2	327	35	18	22	23	1.95
52057028--52057127	31	3.2	31	100	0	200	42	8	18	32	1.79
52079600--52079632	16	2.1	16	94	0	57	27	0	0	72	0.85
52079695--52079837	9	15.9	9	65	18	66	32	0	4	61	1.22
52079750--52079801	20	2.6	21	73	11	56	25	1	3	69	1.16
52084260--52084510	30	8.4	30	76	9	167	37	14	26	21	1.91
52084251--52084512	89	2.9	89	86	1	355	37	15	26	20	1.92
52089890--52089919	2	15.0	2	100	0	60	50	0	0	50	1.00
52095669--52095700	15	2.1	15	94	0	55	15	6	9	68	1.36
52098247--52098450	98	2.0	100	95	2	367	49	7	8	34	1.62
52098641--52098716	4	18.8	4	78	8	64	72	3	0	23	1.01
52098646--52098716	25	2.7	27	80	6	83	73	4	0	22	1.01
52099092--52099130	19	2.0	21	85	10	55	69	5	10	15	1.34
52099291--52099348	22	2.6	22	84	7	73	43	17	3	36	1.66
52099304--52099374	21	3.4	19	84	11	70	40	15	7	36	1.74
52099338--52099381	21	2.1	21	95	0	79	38	15	9	36	1.80
52112403--52112606	42	4.9	42	92	1	338	36	19	22	21	1.95
52112403--52112603	83	2.4	83	93	1	339	37	19	21	21	1.95
52113087--52113145	21	2.7	21	86	5	73	38	38	3	18	1.68
52113364--52113584	115	1.9	113	89	3	345	26	27	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52113370--52113957	186	3.1	187	90	1	912	26	26	22	25	2.00
52113571--52113775	113	1.8	113	90	4	333	27	26	20	24	1.99
52113678--52113848	73	2.3	73	90	4	256	27	25	20	26	1.99
52113757--52114189	115	3.8	111	85	6	598	27	26	21	24	1.99
52113747--52114184	228	1.9	227	95	1	797	28	25	21	25	1.99
52113353--52114373	300	3.4	298	73	13	1003	27	25	21	25	1.99
52113971--52114343	186	2.0	187	91	2	599	27	24	20	27	1.99
52114107--52114257	71	2.1	74	87	3	218	27	25	21	25	1.99
52113560--52114350	414	1.9	415	91	1	1302	27	25	21	25	2.00
52118407--52118448	7	6.1	7	97	2	77	30	0	0	69	0.89

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