genome.fa.s13.2.7.7.80.10.50.1000.161.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  161  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)
47748398--47748539	74	1.9	73	85	5	196	36	16	17	29	1.92
47748891--47748930	20	2.0	21	85	14	57	70	0	12	17	1.18
47748946--47748997	18	2.9	17	85	8	59	53	0	5	40	1.25
47750530--47750567	2	19.5	2	86	5	51	52	5	0	42	1.24
47750530--47750559	13	2.4	13	94	5	53	53	6	0	40	1.27
47751244--47751273	11	2.7	11	89	0	51	46	3	0	50	1.18
47751219--47751303	42	2.0	43	86	4	120	34	2	0	63	1.07
47751734--47751770	16	2.3	16	90	0	56	29	5	0	64	1.15
47751922--47751966	18	2.5	18	88	0	63	33	4	2	60	1.29
47752293--47752434	71	2.0	71	94	0	248	27	17	19	35	1.94
47753607--47753664	9	6.4	9	81	0	71	43	20	8	27	1.81
47753615--47753664	18	2.8	18	87	0	82	44	18	10	28	1.81
47753607--47753664	27	2.1	27	90	0	89	43	20	8	27	1.81
47753684--47753731	19	2.4	20	86	6	62	27	4	8	60	1.44
47760179--47760341	40	4.0	41	88	6	226	1	30	0	68	1.02
47760181--47760340	81	2.0	81	87	7	236	1	29	0	68	1.02
47760208--47760341	10	13.5	10	67	22	52	1	29	0	67	1.04
47760391--47760457	27	2.5	27	90	0	98	17	34	25	22	1.96
47761499--47761945	156	2.9	155	85	7	644	29	9	8	52	1.63
47762969--47763135	39	4.3	37	65	18	97	28	5	10	55	1.55
47762883--47763197	118	2.6	120	88	6	454	26	7	11	55	1.61
47763366--47763484	53	2.1	54	82	11	143	62	9	3	25	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47763399--47763522	30	4.4	30	72	22	124	61	8	4	25	1.44
47763399--47763452	15	3.6	15	79	16	67	64	7	1	25	1.30
47763420--47763460	20	2.0	20	86	9	57	68	7	0	24	1.15
47763395--47763496	53	1.9	52	90	5	161	61	7	3	26	1.41
47763556--47763588	17	1.9	17	93	0	57	75	6	9	9	1.18
47767646--47767688	20	2.3	18	80	8	50	37	2	0	60	1.10
47768566--47768597	10	3.2	10	95	0	55	78	0	0	21	0.76
47768587--47768639	19	2.8	18	77	11	54	56	0	1	41	1.10
47768606--47768718	27	4.1	27	69	15	88	56	1	0	40	1.16
47768644--47768718	19	3.9	19	78	5	80	56	1	1	41	1.16
47768665--47768731	10	7.1	9	74	15	64	62	1	1	34	1.13
47768647--47768729	37	2.2	38	87	4	116	60	1	1	37	1.12
47768696--47768743	21	2.2	22	82	10	55	64	6	2	27	1.28
47768964--47769045	20	4.3	20	71	20	68	34	2	1	62	1.16
47768964--47769045	10	8.6	10	72	10	55	34	2	1	62	1.16
47768964--47769033	19	3.8	18	76	12	79	34	1	1	62	1.13
47769000--47769041	19	2.2	19	86	0	57	33	2	2	61	1.21
47768964--47769064	37	2.7	39	80	8	95	33	2	1	61	1.22
47770594--47770654	23	2.6	23	79	10	70	65	3	8	22	1.34
47772228--47772345	50	2.4	50	79	2	121	26	14	22	36	1.93
47772370--47772826	44	10.4	44	93	1	758	27	26	19	27	1.99
47773705--47773737	15	2.1	16	88	5	50	51	6	15	27	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47785277--47785337	23	2.6	23	84	10	79	67	3	6	22	1.29
47786490--47786531	13	3.3	12	83	16	50	7	2	16	73	1.15
47794874--47794987	40	2.9	40	88	5	169	33	22	23	20	1.97
47794873--47795009	40	3.4	40	81	8	163	36	22	22	18	1.95
47795025--47795237	41	5.2	41	88	2	329	21	22	26	29	1.99
47795505--47795537	15	2.3	15	89	5	50	36	0	30	33	1.58
47795637--47795699	21	3.0	21	76	2	63	17	0	46	36	1.49
47795640--47795691	7	7.4	7	84	0	59	15	0	48	36	1.45
47795804--47795874	7	10.1	7	79	0	70	21	1	50	26	1.57
47795641--47796012	183	2.0	183	94	0	654	27	1	33	37	1.68
47795839--47796132	144	2.0	144	80	7	326	29	2	29	39	1.68
47796422--47796506	39	2.2	39	87	4	118	38	16	21	23	1.92
47796546--47796627	40	2.0	40	88	2	119	25	17	19	37	1.93
47797298--47797379	38	2.2	38	88	0	119	20	14	8	56	1.65
47801677--47801969	43	6.8	43	92	0	426	22	18	28	31	1.97
47803423--47803727	152	2.0	152	100	0	610	38	17	16	27	1.91
47805873--47805903	2	15.5	2	100	0	62	51	0	0	48	1.00
47807868--47807918	24	2.1	24	85	0	66	54	9	3	31	1.51
47813122--47813205	35	2.4	35	85	0	105	34	33	15	16	1.91
47813433--47813474	22	1.9	22	95	0	75	47	16	7	28	1.73
47815101--47815174	37	2.0	37	84	7	96	52	14	6	25	1.66
47816952--47816993	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47816977--47817046	24	2.8	25	69	18	65	51	4	10	34	1.55
47817722--47817755	10	3.3	11	92	8	54	76	0	8	14	1.01
47818610--47818977	44	8.3	45	85	2	429	30	25	14	29	1.94
47818610--47818939	89	3.7	89	87	1	464	30	25	14	29	1.95
47818610--47818977	134	2.8	134	89	0	585	30	25	14	29	1.94
47827638--47827826	100	1.9	100	84	6	258	31	20	22	25	1.98
47827931--47828247	44	7.4	43	71	8	191	30	19	21	28	1.97
47827839--47828307	127	3.7	127	88	2	637	33	18	21	26	1.97
47832536--47832624	30	3.1	30	81	14	107	25	25	6	41	1.80
47832536--47832624	25	3.1	29	81	15	105	25	25	6	41	1.80
47832546--47832592	15	3.1	15	70	11	51	27	23	8	40	1.83
47837303--47837691	47	8.3	47	95	0	537	44	19	12	24	1.84
47838675--47838773	28	3.6	27	81	11	112	28	28	12	31	1.92
47840312--47840375	30	2.1	31	94	2	112	26	28	6	39	1.80
47840322--47840368	15	3.1	15	70	11	51	27	23	8	40	1.83
47841244--47841277	2	17.0	2	100	0	68	50	0	0	50	1.00
47842863--47843065	21	10.0	21	67	21	103	30	0	12	56	1.37
47842884--47843030	61	2.4	61	96	1	269	29	0	11	59	1.33
47843005--47843114	19	6.2	19	76	21	130	30	0	14	54	1.41
47843015--47843202	48	3.7	48	76	18	209	30	0	13	55	1.42
47843006--47843114	21	5.1	20	84	15	130	30	0	14	55	1.40
47842862--47843218	149	2.4	143	85	11	479	30	0	12	56	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47843195--47843316	60	2.0	60	88	3	183	31	0	13	54	1.45
47843434--47843470	16	2.4	16	95	4	67	35	2	5	56	1.36
47843535--47843619	27	3.1	27	77	3	82	27	32	18	21	1.97
47844143--47844194	26	2.0	26	82	17	63	38	25	7	28	1.83
47844997--47845064	34	2.0	34	85	0	91	19	11	14	54	1.70
47848365--47849629	330	3.8	330	90	2	1791	32	12	13	41	1.82
47848957--47849003	19	2.5	20	75	10	53	38	4	0	57	1.18
47849830--47849860	3	10.3	3	92	0	53	32	0	3	64	1.09
47850939--47850973	17	2.1	16	89	5	52	74	5	2	17	1.14
47851134--47851180	2	23.5	2	100	0	94	51	0	0	48	1.00
47851456--47851531	3	25.3	3	87	0	107	61	1	3	32	1.22
47853027--47853683	50	13.1	50	69	10	389	22	20	24	32	1.98
47853027--47853671	100	6.4	100	93	0	1074	22	20	25	32	1.98
47865943--47865981	2	19.5	2	100	0	78	51	0	0	48	1.00
47872014--47872044	14	2.2	14	94	0	53	58	3	0	38	1.15
47872177--47872246	3	23.3	3	86	0	95	61	1	4	32	1.24
47874143--47874293	29	5.1	29	80	7	162	31	28	2	37	1.71
47874143--47874293	59	2.6	58	81	5	169	31	28	2	37	1.71
47874267--47874323	30	1.9	29	86	10	80	31	24	3	40	1.72
47874697--47874740	20	2.1	21	87	4	63	75	4	20	0	0.98
47874839--47874912	33	2.5	28	81	14	78	70	0	25	4	1.05
47874865--47874911	19	2.4	20	89	3	69	74	0	23	2	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47874839--47874921	29	2.7	31	80	15	86	71	0	22	6	1.08
47875092--47875128	14	2.6	14	95	0	65	24	45	21	8	1.78
47875699--47875762	17	3.7	17	80	15	69	32	15	10	40	1.82
47876321--47876358	17	2.3	17	86	4	51	42	5	10	42	1.62
47876313--47876397	37	2.2	39	87	6	120	41	9	10	38	1.72
47876300--47876397	20	5.1	19	71	16	69	42	8	10	38	1.68
47877243--47877295	21	2.5	21	73	11	54	37	22	26	13	1.91
47895487--47895539	23	2.3	23	83	9	63	45	11	13	30	1.78
47897479--47897503	12	2.1	12	100	0	50	24	28	0	48	1.52
47900312--47900356	2	22.0	2	95	4	81	48	0	2	48	1.13

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