genome.fa.s11.2.7.7.80.10.50.1000.30.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  30  of  210  ( 25152 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)
9651054--9651087	16	2.0	18	88	11	54	0	38	0	61	0.96
9652268--9652678	126	3.3	126	88	2	641	27	20	17	35	1.95
9652714--9653144	193	2.2	192	88	2	650	38	19	2	39	1.63
9652715--9653144	96	4.5	96	89	2	657	38	19	2	40	1.63
9660375--9660579	43	4.8	43	82	6	188	17	22	16	43	1.87
9660473--9660590	42	2.8	42	85	8	136	16	27	16	39	1.90
9660468--9660579	21	5.3	21	64	6	64	16	25	16	42	1.87
9661188--9661252	30	2.2	30	94	0	112	58	15	4	21	1.55
9663862--9663979	36	3.3	36	78	11	125	16	15	28	39	1.88
9666616--9666652	16	2.3	16	95	0	65	40	8	16	35	1.78
9667364--9667389	10	2.6	10	100	0	52	19	0	23	57	1.40
9670007--9670075	35	1.9	36	97	2	131	26	2	18	52	1.60
9671368--9671454	33	2.7	32	79	13	106	44	17	10	27	1.81
9671445--9671484	20	2.0	20	90	0	62	50	12	10	27	1.72
9671434--9671499	34	1.9	34	87	6	98	46	12	9	31	1.72
9671468--9671507	14	2.9	14	84	0	53	42	17	7	32	1.77
9676221--9676274	22	2.4	23	84	12	76	64	1	0	33	1.04
9683491--9683538	9	5.3	9	82	0	51	25	0	43	31	1.55
9683488--9683538	18	2.8	18	75	0	57	25	0	43	31	1.55
9691421--9691445	2	12.5	2	100	0	50	48	0	0	52	1.00
9693999--9694037	4	9.8	4	94	0	60	51	0	28	20	1.48
9696350--9696600	132	1.9	132	90	1	405	33	21	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9699268--9699293	6	4.3	6	100	0	52	34	15	34	15	1.89
9705413--9705437	12	2.1	12	100	0	50	0	40	12	48	1.40
9730960--9730992	17	1.9	18	88	11	52	42	12	0	45	1.41
9731119--9731167	4	12.5	4	95	4	91	48	0	0	51	1.00
9733688--9734009	54	5.9	53	85	3	403	19	20	16	42	1.89
9733688--9734017	27	12.2	27	82	8	359	20	20	16	42	1.89
9736787--9736826	20	2.0	20	90	0	62	42	0	27	30	1.56
9751887--9751918	2	16.0	2	100	0	64	0	50	0	50	1.00
9759591--9759622	12	2.8	11	90	9	55	0	21	0	78	0.76
9760693--9760749	28	2.0	28	86	0	78	31	8	19	40	1.82
9760927--9760951	13	1.9	13	100	0	50	8	0	24	68	1.16
9764029--9764055	6	4.5	6	100	0	54	48	14	18	18	1.82
9766583--9766744	41	4.0	41	92	1	245	27	20	28	23	1.99
9766580--9766779	41	4.9	41	88	1	240	29	20	27	23	1.98
9789127--9789281	43	3.6	43	88	1	231	32	29	15	21	1.94
9793122--9793175	26	2.0	28	85	7	76	61	5	0	33	1.19
9793193--9793237	22	2.0	22	86	0	63	37	37	0	24	1.56
9793204--9793251	14	3.4	14	80	13	53	35	41	0	22	1.54
9793334--9793385	21	2.7	18	85	8	59	53	19	13	13	1.72
9793540--9793591	7	7.3	7	81	12	52	42	36	0	21	1.53
9793756--9793988	114	2.0	114	90	3	360	25	25	22	26	2.00
9802722--9802801	37	2.2	37	97	2	153	30	16	10	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9808056--9808087	13	2.5	13	94	0	55	59	0	3	37	1.13
9812518--9812596	22	3.6	21	81	5	86	59	13	12	13	1.62
9814762--9814803	21	2.0	21	86	4	59	57	4	2	35	1.33
9826080--9826118	15	2.7	15	84	4	53	20	10	7	61	1.52
9829593--9829630	20	1.9	20	88	0	58	21	21	15	42	1.89
9831541--9831569	13	2.1	14	93	6	51	58	6	0	34	1.25
9832677--9832714	17	2.3	17	90	4	60	57	2	0	39	1.12
9834086--9834362	94	3.0	93	85	1	383	40	24	13	21	1.90
9834604--9834632	6	5.0	6	95	4	51	17	51	17	13	1.76
9835647--9835787	33	4.2	33	87	2	185	38	34	9	17	1.83
9841471--9841584	42	2.7	44	84	9	150	44	15	20	19	1.86
9848221--9848307	42	2.1	42	93	0	147	45	14	8	31	1.74
9863932--9863991	25	2.3	26	88	5	95	23	25	25	26	2.00
9867140--9867187	15	3.1	15	79	5	51	64	2	18	14	1.38
9867199--9867239	15	2.7	14	85	14	55	70	0	29	0	0.87
9880096--9880367	136	2.0	136	92	1	456	36	15	20	27	1.93
9881360--9881410	23	2.2	23	79	6	59	45	31	1	21	1.63
9882227--9882371	46	3.2	46	79	6	143	22	20	11	44	1.84
9882351--9882508	45	3.5	45	85	3	212	23	21	17	37	1.93
9882387--9882595	45	4.6	45	80	9	151	20	22	19	38	1.94
9882345--9882555	90	2.3	89	78	4	219	22	21	18	38	1.93
9883486--9883550	23	2.8	24	80	13	73	36	0	1	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9883486--9883537	24	2.2	23	86	6	68	32	0	1	65	1.04
9892613--9892657	24	1.9	24	86	4	65	20	0	26	53	1.46
9897271--9897318	9	5.6	9	85	12	57	68	6	2	22	1.23
9897271--9897319	17	2.9	17	85	14	66	69	6	2	22	1.21
9914789--9914824	18	2.1	17	89	5	54	66	8	2	22	1.31
9915811--9915852	15	2.6	16	82	17	52	61	2	0	35	1.09
9915810--9915856	17	2.8	16	83	6	58	63	2	0	34	1.06
9926882--9926974	48	2.0	47	89	6	143	18	25	21	34	1.96
9929932--9929961	15	1.9	16	93	6	53	46	0	0	53	1.00
9937836--9937898	29	2.2	29	80	5	74	46	6	12	34	1.68
9938320--9938381	15	4.3	15	84	15	94	9	6	25	58	1.54
9939883--9939962	22	3.6	22	69	21	60	45	2	1	51	1.22
9939854--9939911	28	2.1	28	87	3	82	43	0	0	56	0.99
9939856--9939916	18	4.0	16	68	24	51	42	0	0	57	0.98
9940111--9940148	16	2.4	16	86	8	51	23	23	5	47	1.72
9949741--9949765	3	8.3	3	100	0	50	32	0	0	68	0.90
9950238--9950273	11	3.2	11	96	4	63	16	36	0	47	1.47
9950253--9950376	51	2.4	51	82	5	162	29	22	1	45	1.62
9951488--9951519	7	4.6	7	96	0	55	25	0	12	62	1.30
9951491--9951525	14	2.5	13	86	13	52	25	0	14	60	1.35
9952447--9952495	21	2.3	21	79	6	55	32	36	28	2	1.69
9952610--9953017	71	5.8	70	93	3	651	37	0	14	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9952610--9953016	141	2.9	141	92	4	678	37	0	14	47	1.47
9952833--9953168	96	3.5	95	76	14	393	40	0	14	45	1.45
9952623--9953016	212	1.9	212	95	2	711	38	0	14	47	1.47
9952903--9953162	121	2.1	121	97	0	493	41	0	14	44	1.45
9953161--9953277	23	5.1	23	92	0	189	47	21	4	26	1.69
9959902--9959962	29	2.0	32	84	15	85	55	6	9	27	1.57
9960392--9960447	10	5.2	10	77	14	58	21	30	0	48	1.51
9960392--9960462	22	3.2	22	84	7	83	22	29	0	47	1.51
9960488--9960538	22	2.3	22	93	0	93	27	31	0	41	1.56
9960408--9960572	73	2.3	73	92	1	269	27	26	0	46	1.58
9961711--9961739	7	4.1	7	100	0	58	27	0	13	58	1.36
9962398--9962433	18	2.0	18	94	0	63	22	30	5	41	1.76
9962939--9963424	29	16.6	29	89	4	679	45	30	0	23	1.53
9963434--9963659	37	6.1	37	94	3	375	40	10	2	46	1.52
9966697--9967039	124	2.8	123	93	1	571	34	21	15	29	1.94
9968131--9968179	9	5.4	9	87	0	62	38	22	12	26	1.89
9968187--9968249	17	3.5	17	71	12	63	49	14	3	33	1.59
9968182--9968252	37	1.9	37	97	0	133	46	16	2	33	1.62
9968384--9968490	39	2.8	39	94	1	180	19	2	27	50	1.61
9968487--9968520	13	2.8	12	86	8	50	14	0	44	41	1.45
9968494--9968522	13	2.2	13	100	0	58	13	0	48	37	1.43
9972395--9972730	110	3.1	109	89	2	514	34	17	16	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9975946--9975982	19	1.9	19	94	0	65	72	2	24	0	0.97
9976793--9976832	21	1.9	21	84	0	53	27	22	22	27	1.99
9977386--9977422	16	2.3	16	90	0	56	40	0	29	29	1.57
9977401--9977510	45	2.6	43	80	9	129	33	5	29	31	1.80
9977655--9977689	18	2.0	17	88	5	52	54	0	0	45	0.99
9982992--9983031	20	2.0	20	90	0	62	30	27	17	25	1.97
9986212--9986255	13	3.5	13	87	12	74	36	0	25	38	1.56
9986291--9986342	19	2.7	19	83	16	63	26	1	1	69	1.10
9986297--9986392	10	9.8	10	67	8	54	38	1	1	59	1.11
9986333--9986382	21	2.5	20	78	12	57	48	0	0	52	1.00

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