genome.fa.s9.2.7.7.80.10.50.1000.150.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   

This is table  150  of  226  ( 27023 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)
49226439--49226696	50	5.3	50	81	9	268	29	2	21	46	1.63
49226434--49226696	75	3.6	75	81	9	305	29	2	20	47	1.63
49226577--49226711	41	3.2	40	85	8	130	30	2	18	48	1.60
49226542--49226732	25	7.6	24	77	8	102	30	2	18	49	1.59
49226907--49227299	87	4.5	87	80	11	443	48	5	4	42	1.45
49226974--49227034	17	3.5	18	69	22	58	52	4	0	42	1.23
49227122--49227154	15	2.2	15	94	0	57	54	3	3	39	1.31
49227011--49227396	177	2.2	177	99	0	754	48	4	5	40	1.47
49227169--49227230	21	3.0	21	70	23	51	48	4	4	41	1.46
49227299--49227331	15	2.2	15	94	0	57	54	3	3	39	1.31
49228718--49228765	24	1.9	26	91	8	82	39	2	39	18	1.63
49229997--49230439	233	1.9	239	87	3	655	29	19	18	32	1.95
49231988--49232031	23	1.9	23	90	0	70	52	2	6	38	1.41
49232302--49232367	9	7.2	9	74	8	53	78	0	6	15	0.93
49233461--49233503	22	2.0	22	81	9	52	58	4	0	37	1.19
49233478--49233546	33	2.3	30	85	12	88	68	0	0	31	0.90
49233513--49233538	11	2.4	11	100	0	52	57	0	0	42	0.98
49239110--49239160	16	3.2	16	83	5	50	29	19	1	49	1.60
49247228--49247262	17	2.1	17	89	10	54	60	8	14	17	1.58
49247411--49247462	24	2.2	24	89	0	77	57	7	1	32	1.38
49253032--49253080	20	2.5	20	89	0	71	48	14	10	26	1.75
49259845--49259892	21	2.3	21	78	7	53	39	2	20	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49267518--49267554	19	2.1	17	90	10	56	24	16	2	56	1.53
49271622--49271661	21	1.9	21	89	0	62	52	10	12	25	1.70
49278600--49278669	35	2.0	35	100	0	140	42	17	14	25	1.86
49287007--49287043	15	2.5	15	100	0	74	13	21	21	43	1.87
49289788--49289862	18	4.2	18	73	11	64	48	1	1	49	1.18
49294558--49294595	18	2.1	18	90	5	58	39	5	34	21	1.76
49298334--49298993	113	5.8	112	77	6	585	31	18	23	26	1.98
49299432--49299598	81	2.1	79	81	9	187	25	1	27	46	1.60
49299568--49299609	19	2.2	19	86	0	57	9	0	47	42	1.36
49299996--49300037	15	2.9	15	89	3	50	2	0	47	50	1.14
49300003--49300037	7	4.9	7	93	6	61	0	0	54	45	0.99
49300003--49300049	14	3.3	14	84	3	58	2	0	46	51	1.13
49300762--49300848	44	2.0	44	86	0	120	27	18	19	34	1.95
49302299--49302334	16	2.2	16	95	0	63	27	11	5	55	1.57
49302727--49302763	13	2.8	13	91	0	56	40	8	2	48	1.47
49303556--49303602	21	2.2	21	92	0	76	36	19	42	2	1.63
49303922--49304167	42	5.8	42	92	0	402	32	23	21	21	1.98
49303922--49304167	85	2.9	84	92	1	402	32	23	21	21	1.98
49304538--49304572	17	2.1	17	89	10	54	60	8	14	17	1.58
49310679--49310860	50	3.6	50	71	12	158	26	18	20	34	1.96
49310615--49310896	100	2.8	100	85	3	363	25	20	21	32	1.97
49310729--49310891	50	3.3	50	75	6	177	27	20	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49310908--49311001	44	2.1	44	84	0	116	30	24	12	31	1.93
49310923--49311017	44	2.2	44	80	3	102	31	22	16	29	1.96
49311081--49311179	44	2.2	44	85	0	135	26	27	17	29	1.97
49310879--49311322	174	2.5	175	92	0	721	26	23	19	30	1.98
49311081--49311191	44	2.5	44	83	2	125	27	26	18	27	1.98
49311257--49311646	44	9.0	44	68	14	148	27	24	18	29	1.98
49311133--49311453	131	2.5	131	89	2	475	25	23	20	29	1.99
49311081--49311758	175	3.9	174	80	9	600	26	24	19	29	1.98
49311317--49311768	172	2.6	173	89	3	660	26	23	18	30	1.98
49310951--49311625	303	2.2	304	89	2	1034	26	24	19	29	1.98
49311577--49311669	44	2.1	44	82	7	109	31	24	16	27	1.96
49310951--49311758	303	2.7	303	84	4	810	26	24	19	30	1.98
49319660--49319699	21	1.9	21	84	0	53	22	30	0	47	1.52
49325689--49325777	5	17.8	5	83	0	115	40	20	1	38	1.60
49326280--49326437	49	3.2	48	73	10	149	25	31	20	22	1.98
49326278--49326492	98	2.2	98	83	0	268	27	31	21	20	1.98
49326312--49326461	49	3.1	48	72	7	131	30	30	20	19	1.97
49328828--49328921	31	3.2	29	73	15	77	41	11	9	37	1.74
49333040--49333090	20	2.5	22	81	12	63	31	27	13	27	1.94
49333468--49333517	17	3.1	16	75	19	50	30	0	2	68	1.01
49357717--49358005	44	6.6	44	68	8	169	32	19	19	28	1.96
49357706--49358080	175	2.1	174	91	0	597	32	19	19	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49358151--49358245	44	2.2	44	92	0	154	28	22	23	26	1.99
49360357--49360830	105	4.6	105	83	2	539	36	14	15	33	1.88
49360350--49360830	208	2.3	208	83	2	601	36	14	15	33	1.88
49360771--49361008	37	6.6	37	71	12	154	36	14	14	33	1.87
49360667--49361093	142	3.0	142	84	1	561	36	14	16	32	1.89
49361145--49361175	10	3.1	10	100	0	62	29	12	0	58	1.35
49371601--49371681	41	2.0	41	95	0	144	51	3	12	32	1.57
49376536--49376586	7	7.1	7	74	12	50	23	0	0	76	0.79
49376539--49376606	20	3.5	20	73	15	72	26	1	0	72	0.94
49376536--49376608	36	2.0	35	84	10	94	26	1	0	72	0.93
49384176--49384233	21	2.8	21	81	0	71	5	20	44	29	1.73
49385788--49385844	11	5.2	11	79	14	64	45	1	31	21	1.62
49385788--49385847	22	2.8	21	85	12	77	48	1	30	20	1.59
49386864--49386959	31	3.1	31	95	3	174	31	9	13	45	1.75
49387262--49387320	29	2.1	27	81	12	66	23	6	1	67	1.24
49398680--49398720	3	13.7	3	100	0	82	68	0	0	31	0.90
49403011--49403126	45	2.6	45	87	0	160	24	15	25	34	1.95
49414502--49414554	27	2.0	27	81	7	63	47	32	0	20	1.51
49417702--49417761	20	2.9	21	73	22	54	45	1	1	51	1.21
49417702--49417764	22	2.9	23	69	17	55	44	1	1	52	1.20
49417638--49417866	127	1.8	126	97	0	431	41	3	3	51	1.36
49420476--49420611	51	2.7	51	82	0	146	26	27	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49420590--49420632	21	2.0	21	95	0	77	23	34	4	37	1.76
49420757--49420853	45	2.2	45	84	0	122	27	25	17	28	1.98
49420937--49421138	44	4.6	44	70	9	133	25	26	21	27	1.99
49420832--49421188	132	2.7	129	90	1	543	24	25	20	29	1.99
49422083--49422121	7	5.6	7	100	0	78	87	0	0	12	0.55
49422199--49422233	18	1.9	18	94	0	61	57	11	5	25	1.56
49424318--49424443	30	4.2	28	75	15	103	36	16	5	41	1.72
49424318--49424464	59	2.5	59	82	7	172	34	16	6	42	1.74
49424911--49424946	19	1.9	19	88	5	56	75	8	11	5	1.19
49425144--49425180	13	2.9	13	80	19	51	78	0	21	0	0.75
49437565--49437604	14	2.9	15	88	7	50	45	25	5	25	1.73
49437581--49437611	14	2.2	14	94	0	53	48	29	6	16	1.70
49437732--49437785	20	2.7	20	80	5	65	38	46	9	5	1.59
49437602--49437878	138	2.0	139	92	0	466	41	36	6	16	1.73
49437901--49437951	13	3.8	13	82	7	57	39	33	9	17	1.83
49440950--49440991	5	8.6	5	92	5	59	61	4	0	33	1.17
49445753--49445789	19	2.0	19	85	15	51	32	16	5	45	1.70
49452652--49452702	21	2.4	21	83	6	68	17	43	5	33	1.73
49455927--49455995	33	2.1	33	97	0	129	36	5	8	49	1.58
49456273--49456323	25	2.1	25	82	7	61	52	1	1	43	1.23
49456428--49456491	22	2.8	24	80	17	82	54	1	3	40	1.25
49470994--49471024	3	10.3	3	92	0	53	32	3	0	64	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49471321--49471381	32	1.9	32	89	0	95	36	9	1	52	1.45
49475560--49475590	14	2.3	13	94	5	53	70	0	16	12	1.16
49475900--49475971	35	2.1	35	100	0	144	27	26	13	31	1.94
49476903--49477539	133	4.8	131	84	3	799	29	19	23	28	1.98
49476893--49477539	266	2.4	265	89	2	951	29	19	22	28	1.98
49477432--49477646	107	2.0	107	91	1	351	28	21	20	28	1.98
49477303--49477781	240	2.0	240	86	4	680	29	20	22	27	1.98
49477541--49478297	133	5.7	133	87	2	972	29	20	24	26	1.99
49477165--49478297	373	3.0	376	87	5	1471	29	19	23	27	1.98
49477037--49478038	506	2.0	506	89	2	1523	29	19	23	27	1.98

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