genome.fa.s13.2.7.7.80.10.50.1000.120.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  120  of  199  ( 23770 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)
36539580--36539626	20	2.3	20	85	0	67	55	0	8	36	1.31
36539474--36539640	52	3.2	52	74	16	189	51	4	8	35	1.53
36539504--36539673	54	3.2	55	75	16	212	52	4	8	35	1.51
36551342--36551446	43	2.4	43	79	4	111	44	17	20	17	1.86
36552865--36553334	44	10.5	44	72	12	260	32	19	20	28	1.97
36552731--36553334	129	4.5	129	76	10	532	32	19	20	27	1.97
36555587--36555655	11	6.3	11	84	0	93	53	0	0	46	1.00
36555587--36555655	22	3.1	22	97	0	129	53	0	0	46	1.00
36565806--36565870	32	2.1	32	97	2	123	47	12	9	30	1.72
36572320--36572363	23	2.0	23	86	8	65	56	4	6	31	1.46
36578583--36578621	19	2.1	19	85	9	53	5	17	5	71	1.23
36579888--36580263	125	3.0	124	92	2	612	28	15	22	33	1.94
36583304--36583782	70	6.9	70	94	1	829	46	14	0	38	1.50
36583426--36583792	45	8.0	45	70	15	157	46	14	0	38	1.48
36583492--36583598	25	4.6	21	82	15	74	43	15	0	40	1.47
36584211--36584250	18	2.2	18	95	0	71	40	7	30	22	1.81
36585082--36585119	20	1.9	20	84	10	51	55	7	2	34	1.43
36585862--36585892	15	2.1	15	93	0	53	64	6	0	29	1.18
36586110--36586152	12	3.8	12	80	20	56	41	0	30	27	1.56
36587017--36587124	30	3.6	30	76	5	112	39	1	8	50	1.43
36594343--36594367	2	12.5	2	100	0	50	52	0	0	48	1.00
36596120--36596370	42	6.0	42	87	6	348	32	22	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36596120--36596370	127	2.0	127	88	4	375	32	22	19	25	1.98
36596790--36596829	12	3.3	12	92	0	53	2	37	17	42	1.63
36596814--36596882	21	3.3	21	81	0	84	1	40	21	36	1.63
36601918--36601978	18	3.4	18	83	0	77	39	1	19	39	1.62
36601918--36602009	27	3.4	27	87	3	78	40	2	16	41	1.60
36601927--36602265	36	9.4	36	72	16	159	37	2	12	47	1.56
36601935--36602265	27	11.6	27	80	15	364	37	2	12	48	1.54
36601956--36602265	63	5.2	61	78	17	330	36	2	11	48	1.54
36601956--36602265	90	3.6	87	85	9	413	36	2	11	48	1.54
36601935--36602265	117	2.8	117	92	2	524	37	2	12	48	1.54
36610844--36610871	3	9.3	3	100	0	56	67	0	0	32	0.91
36611504--36611537	2	17.0	2	100	0	68	50	0	0	50	1.00
36617293--36617339	2	23.5	2	95	0	85	48	0	2	48	1.13
36621451--36621492	19	2.2	19	86	0	57	42	2	9	45	1.49
36633400--36633670	27	10.2	27	81	4	255	44	19	19	16	1.87
36633400--36633673	53	5.2	52	83	5	275	44	19	18	16	1.87
36635750--36635847	47	2.0	48	81	14	114	36	8	4	51	1.51
36640719--36640762	22	2.0	22	86	8	63	70	0	15	13	1.17
36642019--36642773	44	17.2	43	64	15	181	26	24	24	24	2.00
36641917--36642862	88	10.8	88	90	0	1406	26	23	24	24	2.00
36644451--36644548	47	2.0	48	81	14	114	36	8	4	51	1.51
36649265--36649557	146	2.0	146	100	0	586	28	20	11	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36655890--36655937	21	2.3	21	86	10	64	47	10	16	25	1.78
36657870--36658077	90	2.3	90	85	5	287	27	23	14	34	1.94
36657935--36658076	45	3.1	44	68	17	110	27	25	15	31	1.96
36660012--36660049	14	2.4	17	87	12	55	47	0	0	52	1.00
36660268--36660299	17	2.0	17	88	11	50	62	15	21	0	1.32
36660966--36661049	6	14.0	6	93	0	114	38	0	2	59	1.10
36661193--36661263	27	2.8	27	81	10	69	45	0	25	29	1.54
36668519--36668593	3	25.0	3	88	0	105	38	0	1	60	1.06
36668737--36668807	27	2.8	27	81	10	69	45	0	25	29	1.54
36676653--36676752	50	2.0	50	100	0	200	30	20	18	32	1.96
36677226--36677342	45	2.6	45	86	2	155	34	17	8	40	1.80
36680824--36680864	13	3.1	14	75	10	50	19	12	17	51	1.76
36682461--36682571	31	3.5	31	77	13	102	31	27	2	38	1.71
36682567--36682628	32	1.9	33	83	3	81	41	30	0	27	1.56
36683000--36683038	6	6.8	6	88	11	64	12	0	15	71	1.14
36683002--36683034	11	3.0	11	100	0	66	9	0	18	72	1.10
36682995--36683038	17	2.6	16	89	7	61	11	2	13	72	1.21
36683910--36683953	21	2.1	21	100	0	88	31	4	4	59	1.38
36684757--36684806	16	3.0	16	78	18	57	66	2	2	30	1.14
36684757--36684807	17	3.0	16	76	21	50	66	1	1	29	1.13
36684930--36684966	10	3.8	10	85	7	58	51	0	0	48	1.00
36684929--36684968	9	4.3	9	84	6	53	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36684929--36684968	19	2.2	18	95	4	71	52	0	0	47	1.00
36685199--36685258	12	5.3	12	76	11	56	31	0	10	58	1.31
36689418--36689469	13	4.1	13	72	22	56	59	9	11	19	1.59
36689862--36689906	18	2.5	18	82	7	56	40	17	4	37	1.70
36692719--36692762	11	3.8	11	80	11	52	31	0	4	63	1.14
36694704--36694779	33	2.3	33	81	0	89	35	18	23	22	1.96
36695785--36696348	206	2.8	204	91	4	890	40	10	14	35	1.79
36696297--36696457	85	1.9	85	80	6	191	35	15	13	35	1.87
36710814--36710878	32	2.1	32	88	5	98	52	3	23	21	1.61
36718313--36718358	18	2.6	18	89	0	74	34	10	15	39	1.82
36720796--36720829	6	5.7	6	100	0	68	35	17	0	47	1.48
36723985--36724119	62	2.2	62	85	2	182	20	28	25	25	1.99
36724001--36724148	62	2.4	61	82	6	174	19	29	26	25	1.99
36725116--36725156	19	2.2	19	100	0	82	21	19	36	21	1.95
36730976--36731117	62	2.3	62	86	3	198	20	30	25	23	1.98
36734216--36734261	18	2.5	20	83	16	64	32	4	23	39	1.75
36735768--36735890	54	2.3	54	81	2	149	27	24	26	21	1.99
36737951--36738018	3	22.7	3	96	0	127	66	0	1	32	1.01
36742288--36742337	21	2.4	22	71	21	52	44	2	4	50	1.32
36743599--36743759	33	4.8	32	73	8	142	27	26	16	29	1.97
36743587--36743825	101	2.4	101	95	0	424	28	25	16	30	1.96
36743597--36743824	33	6.8	32	69	10	127	28	25	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36752536--36752682	37	4.2	36	75	23	163	38	2	0	59	1.09
36752554--36752679	63	2.0	64	92	4	211	38	2	0	59	1.10
36752591--36752657	26	2.6	26	95	4	118	35	1	0	62	1.04
36752544--36752695	10	16.1	10	67	23	71	40	1	0	57	1.10
36755648--36755684	9	4.1	9	92	0	65	45	13	10	29	1.77
36761696--36761747	2	26.0	2	100	0	104	50	0	0	50	1.00
36778263--36778294	16	2.0	16	100	0	64	50	31	6	12	1.65
36778489--36778545	17	3.4	17	97	0	105	43	0	43	12	1.41
36778482--36778548	20	3.3	20	87	0	89	46	0	43	10	1.38
36778516--36778560	20	2.2	20	84	0	54	46	0	46	6	1.29
36779215--36779260	23	2.0	24	91	4	76	26	23	4	45	1.71
36779670--36779732	21	3.0	22	83	6	85	17	12	39	30	1.87
36779730--36779781	21	2.5	21	81	6	61	9	13	42	34	1.77
36780047--36780072	2	13.0	2	100	0	52	50	50	0	0	1.00
36782055--36782188	62	2.2	62	90	2	207	49	20	7	23	1.74
36782493--36782528	16	2.2	17	95	5	65	58	22	0	19	1.40
36782675--36782779	43	2.6	42	82	7	110	38	29	3	28	1.75
36782794--36782825	17	1.9	17	93	6	57	25	28	3	43	1.69
36783726--36783789	29	2.2	31	75	16	73	45	1	6	46	1.37
36784533--36784692	72	2.2	71	81	4	178	27	16	22	33	1.96
36785984--36786013	9	3.3	9	95	0	51	36	10	13	40	1.78
36786653--36786697	22	2.0	22	87	8	65	53	20	0	26	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36799868--36799985	42	2.8	42	77	2	139	19	21	16	42	1.89
36816263--36816305	19	2.3	19	83	0	50	67	9	2	20	1.30
36817761--36817796	2	18.5	2	94	5	65	50	0	0	50	1.00
36818277--36818420	57	2.6	57	96	3	267	47	7	1	43	1.40
36818472--36818526	21	2.5	22	78	18	62	36	3	7	52	1.47
36819059--36819102	20	2.2	20	91	0	70	34	4	0	61	1.16
36819066--36819108	20	2.2	20	91	0	68	32	2	0	65	1.06
36821355--36821507	49	3.1	49	78	0	144	20	26	23	29	1.99
36825057--36825133	26	3.0	26	81	7	95	36	20	23	19	1.95
36830256--36830287	16	2.0	16	100	0	64	37	6	18	37	1.76

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