genome.fa.s11.2.7.7.80.10.50.1000.147.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  147  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)
44737230--44737363	25	5.3	25	69	4	72	32	21	13	32	1.92
44737246--44737340	50	1.9	50	83	12	124	31	23	14	30	1.94
44737276--44737422	76	1.9	76	84	2	197	32	19	12	34	1.90
44737352--44737472	50	2.4	50	83	2	145	36	18	10	34	1.85
44737384--44737439	25	2.2	26	78	9	62	35	17	12	33	1.88
44743484--44743636	43	3.6	43	75	8	161	36	23	18	20	1.95
44743446--44743680	42	5.6	43	77	8	214	34	23	18	23	1.96
44743446--44743645	85	2.4	85	90	2	314	34	24	18	23	1.96
44743446--44743681	85	2.8	83	85	3	303	34	23	18	23	1.96
44743659--44743709	26	2.0	26	88	7	77	23	31	25	19	1.98
44749296--44749346	25	2.0	26	84	3	68	43	11	5	39	1.66
44749452--44749496	11	4.1	11	77	11	56	48	0	0	51	1.00
44749453--44749496	17	2.7	17	82	6	56	50	0	0	50	1.00
44749669--44749720	23	2.3	23	89	0	77	25	36	23	15	1.93
44766279--44766475	32	6.2	32	78	1	153	36	22	21	19	1.95
44766273--44766455	64	2.9	64	81	3	199	36	21	21	20	1.95
44767967--44768194	53	4.3	52	76	10	196	26	13	18	41	1.87
44767926--44768194	80	3.4	80	81	6	298	26	13	17	42	1.87
44767940--44768194	27	9.6	27	78	5	218	26	12	18	42	1.86
44768973--44769014	21	2.0	21	95	0	75	38	21	14	26	1.91
44772924--44772977	28	1.9	28	85	7	74	31	20	27	20	1.97
44773169--44773235	32	2.1	32	86	2	91	38	20	20	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44773183--44773245	32	2.0	32	93	0	108	34	19	23	22	1.96
44773261--44773324	27	2.4	27	82	12	71	31	21	25	21	1.98
44773389--44773447	24	2.5	23	83	8	82	45	23	8	22	1.79
44773487--44773634	27	5.5	27	85	3	181	25	17	19	37	1.93
44773481--44773634	54	2.9	53	88	4	211	24	18	20	36	1.95
44773487--44773641	81	1.9	81	86	2	222	25	19	18	36	1.94
44774158--44774267	32	3.4	32	73	5	123	34	25	22	17	1.96
44774153--44774323	32	5.4	31	72	6	103	35	21	22	21	1.96
44774148--44774308	64	2.5	64	84	2	216	35	21	22	20	1.96
44775033--44775072	21	1.9	21	94	0	71	42	20	2	35	1.65
44785375--44785515	63	2.2	63	88	0	210	20	26	24	28	1.99
44786113--44786192	39	2.1	39	100	0	160	72	7	17	2	1.19
44796128--44796188	30	2.0	30	100	0	122	34	19	9	36	1.85
44797815--44797867	21	2.5	21	81	6	72	33	9	33	22	1.86
44803248--44803322	37	2.1	36	84	2	96	36	14	9	40	1.78
44809162--44809191	11	2.7	11	94	0	51	40	0	3	56	1.16
44817666--44817690	11	2.3	11	100	0	50	0	0	8	92	0.40
44818238--44818262	2	12.5	2	100	0	50	52	0	0	48	1.00
44819854--44819897	2	22.0	2	100	0	88	50	0	0	50	1.00
44828245--44828275	16	1.9	16	93	0	53	51	0	0	48	1.00
44830087--44830161	28	2.7	27	77	8	80	57	1	0	41	1.07
44830087--44830156	27	2.5	28	77	9	72	57	1	0	41	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44831200--44831255	22	2.7	21	81	13	62	28	3	3	64	1.27
44831229--44831292	3	22.0	3	81	12	80	32	3	0	64	1.10
44831222--44831290	14	4.3	16	81	17	81	31	2	0	65	1.08
44838838--44838891	24	2.3	23	81	12	65	24	16	0	59	1.37
44843623--44843958	89	3.8	89	79	1	271	28	21	24	26	1.99
44845733--44845784	22	2.4	21	81	9	59	26	3	7	61	1.41
44845791--44845834	21	2.0	23	86	8	65	40	2	0	56	1.11
44847809--44847850	16	2.6	16	96	0	75	45	7	0	47	1.30
44847824--44847884	22	2.8	22	87	0	86	49	1	0	49	1.10
44848619--44848655	19	1.9	19	94	0	65	62	0	0	37	0.96
44850959--44850991	12	2.6	13	85	9	50	30	3	0	66	1.06
44851738--44851773	16	2.2	16	95	0	63	55	0	2	41	1.14
44851829--44851867	15	2.7	14	84	7	51	74	0	2	23	0.94
44852381--44852432	24	2.1	24	82	7	59	32	3	5	57	1.40
44853297--44853343	24	2.0	24	83	8	60	70	2	17	10	1.26
44855646--44855703	3	19.3	3	92	0	98	32	0	3	63	1.11
44855750--44855852	17	5.9	18	76	16	85	39	1	0	58	1.09
44855749--44855852	8	14.2	8	77	17	75	39	1	0	58	1.09
44855802--44855851	2	25.5	2	95	4	93	48	0	0	52	1.00
44860645--44860673	6	4.8	6	100	0	58	86	0	0	13	0.58
44861179--44861224	14	3.2	15	78	9	51	76	0	10	13	1.03
44862421--44862499	27	3.1	27	63	26	73	34	13	17	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44862422--44862517	48	2.0	48	95	0	174	35	15	17	31	1.92
44862517--44863288	89	8.7	88	84	1	898	28	23	23	24	2.00
44862517--44863272	267	2.8	264	88	2	1023	28	23	23	24	2.00
44863528--44863690	50	3.3	51	72	3	161	30	21	22	25	1.98
44863473--44863735	100	2.6	100	83	4	316	31	20	20	26	1.98
44863748--44864122	44	8.6	44	73	9	200	30	20	22	27	1.98
44864616--44864646	10	3.0	10	95	4	53	29	0	0	70	0.87
44865436--44865499	3	21.3	3	93	0	110	34	0	1	64	1.03
44865617--44865652	2	18.5	2	94	5	65	47	0	0	52	1.00
44868665--44868754	42	2.1	42	81	4	101	18	30	23	27	1.98
44869367--44869408	22	2.0	21	90	9	68	42	14	16	26	1.86
44872521--44872584	17	3.5	17	79	14	58	9	3	10	76	1.12
44872521--44872570	18	2.6	19	79	17	59	12	4	8	76	1.15
44874868--44874906	21	1.9	21	85	15	55	64	5	0	30	1.15
44881112--44881142	11	2.8	11	100	0	62	35	9	19	35	1.85
44884973--44885042	3	23.3	3	97	0	131	32	1	0	65	1.01
44886598--44886642	2	22.5	2	100	0	90	51	0	0	48	1.00
44890035--44890071	19	1.9	19	94	0	65	62	0	0	37	0.96
44891459--44891498	21	1.9	21	84	0	53	52	5	12	30	1.60
44892557--44892625	23	2.9	24	82	10	79	33	15	27	23	1.95
44892557--44892642	25	3.5	24	82	10	77	32	16	25	25	1.96
44896218--44896309	34	2.7	34	81	6	114	31	5	16	46	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44897233--44897266	17	1.9	17	88	5	50	47	0	0	52	1.00
44901704--44901834	39	3.4	38	84	4	163	29	16	33	19	1.94
44901762--44901821	19	3.1	19	72	13	68	31	15	33	20	1.93
44903411--44903439	10	2.9	10	100	0	58	20	20	31	27	1.98
44903884--44903961	26	3.3	26	66	23	80	38	5	10	46	1.60
44903878--44903967	45	2.0	45	100	0	180	35	4	11	48	1.59
44905571--44905617	18	2.6	17	78	15	51	59	2	4	34	1.29
44905755--44905803	3	16.3	3	80	16	57	65	2	0	32	1.04
44907168--44907573	44	9.5	42	74	11	292	28	20	19	30	1.97
44907117--44907577	86	5.4	86	77	4	285	28	21	19	30	1.98
44907342--44907487	41	3.5	41	77	5	141	31	20	21	26	1.98
44907212--44907526	83	3.7	83	81	5	337	29	20	20	29	1.98
44919814--44919860	18	2.6	17	78	15	51	59	2	4	34	1.29
44920001--44920039	15	2.6	15	83	0	51	66	0	2	30	1.05
44920005--44920055	12	4.2	12	73	12	50	66	0	1	31	1.03
44925148--44925185	2	19.0	2	88	0	58	47	2	0	50	1.15
44935760--44935852	46	2.0	46	100	0	186	32	15	21	31	1.94
44937510--44937544	3	11.7	3	100	0	70	34	31	0	34	1.58
44939554--44939656	3	34.3	3	98	0	197	66	0	0	32	0.98
44940678--44940732	22	2.4	23	76	11	60	61	0	1	36	1.06
44940646--44940854	109	1.9	107	90	5	332	55	1	4	38	1.30
44941507--44941563	30	1.9	30	96	0	105	49	0	3	47	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44941512--44941568	17	3.6	17	72	18	68	52	0	1	45	1.11
44941819--44941852	12	2.8	12	95	4	59	26	17	14	41	1.88
44941819--44941866	25	1.9	25	82	0	60	29	16	16	37	1.91
44941886--44941925	14	2.9	14	92	3	64	10	27	17	45	1.80
44945923--44945986	14	4.7	13	73	21	51	29	32	0	37	1.58
44946851--44946885	18	1.9	18	88	0	52	51	8	34	5	1.56
44954433--44954567	68	2.0	68	94	1	234	42	3	4	49	1.40
44954467--44954570	32	3.1	32	69	13	84	41	2	6	49	1.44
44960668--44960697	2	15.0	2	100	0	60	50	0	0	50	1.00
44965708--44965777	28	2.5	28	88	0	104	38	22	2	35	1.69

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