genome.fa.s13.2.7.7.80.10.50.1000.132.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  132  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)
39911053--39911105	13	3.9	14	85	4	65	47	28	0	24	1.52
39911068--39911126	21	2.9	21	82	14	70	45	30	3	20	1.67
39911479--39911543	2	32.5	2	100	0	130	49	0	0	50	1.00
39917992--39918025	16	2.2	16	89	5	52	26	8	14	50	1.72
39918271--39918303	7	4.9	7	92	7	59	12	0	0	87	0.53
39918270--39918303	13	2.4	15	85	14	54	11	0	0	88	0.52
39922069--39922105	18	2.1	18	94	0	65	37	18	16	27	1.92
39932594--39932632	12	3.2	13	82	14	55	69	0	17	12	1.19
39932784--39932838	28	2.0	27	89	6	85	60	9	9	21	1.55
39935452--39935524	32	2.3	32	92	0	119	34	16	13	35	1.88
39937685--39937729	20	2.2	20	80	7	56	48	0	6	44	1.29
39938105--39938140	18	1.9	18	88	5	54	75	2	16	5	1.12
39939065--39939125	23	2.8	20	76	11	59	16	21	21	40	1.91
39941131--39941235	41	2.6	41	81	1	131	35	15	29	20	1.93
39948960--39949011	27	2.0	27	88	3	79	13	13	0	73	1.11
39959147--39959195	21	2.4	21	86	6	66	73	6	2	18	1.14
39959243--39959305	27	2.3	27	97	0	117	11	31	34	22	1.89
39961065--39961113	21	2.4	21	86	6	66	20	2	4	73	1.10
39965815--39965865	17	3.0	17	76	0	57	31	9	21	37	1.86
39967911--39967965	24	2.2	24	87	3	74	21	20	3	54	1.59
39968091--39968297	36	5.6	36	70	10	119	32	21	20	25	1.97
39968079--39968297	75	2.9	75	86	1	294	31	21	21	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39968403--39968434	2	16.0	2	93	0	55	46	0	3	50	1.17
39972483--39972524	18	2.3	19	87	4	59	21	21	0	57	1.41
39972564--39972608	18	2.4	18	85	3	54	46	44	6	2	1.42
39973626--39973691	3	22.0	3	100	0	132	33	0	0	66	0.92
39975425--39975460	17	2.1	17	89	0	54	16	16	22	44	1.86
39975879--39975924	19	2.4	18	82	10	56	23	21	8	45	1.80
39983417--39983483	34	2.0	34	93	0	116	26	14	13	44	1.83
39986747--39986799	20	2.7	20	84	0	70	16	30	15	37	1.90
39989613--39989649	2	18.5	2	100	0	74	48	0	0	51	1.00
39989711--39989743	12	2.8	12	95	0	57	42	21	9	27	1.83
39993463--39993568	20	5.5	20	67	20	64	15	1	32	50	1.54
39993463--39993619	76	2.1	75	82	1	188	15	2	29	52	1.56
39993522--39993628	34	3.1	33	75	13	101	14	1	27	57	1.48
39993603--39993663	27	2.3	27	80	5	70	19	1	29	49	1.58
39993745--39993786	22	1.9	22	85	0	57	19	0	30	50	1.48
39993771--39993821	14	3.7	13	82	12	57	11	1	27	58	1.44
39993743--39993838	21	4.5	21	73	18	65	15	1	30	53	1.49
39993797--39993889	27	3.4	27	72	8	80	16	1	33	49	1.53
39993933--39994031	27	3.6	26	77	11	74	16	0	33	50	1.45
39993925--39994029	47	2.2	48	86	6	151	15	0	34	50	1.44
39993952--39994001	20	2.5	20	93	0	82	16	0	32	52	1.44
39993806--39994024	119	1.9	117	80	7	255	17	1	31	48	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40000749--40000940	95	2.0	95	94	0	339	28	8	19	43	1.81
40006619--40006661	21	2.0	21	86	0	59	51	13	0	34	1.42
40008231--40008275	22	2.0	22	83	8	56	55	13	0	31	1.38
40017289--40017322	16	2.1	16	100	0	68	38	5	17	38	1.74
40023674--40024030	76	4.7	76	79	4	330	24	22	22	31	1.99
40026867--40026896	3	10.0	3	92	0	51	30	33	3	33	1.74
40032620--40032695	36	2.1	36	80	11	84	51	1	9	38	1.42
40033208--40033265	22	2.6	22	81	7	64	41	17	5	36	1.72
40033740--40033849	41	2.6	43	76	15	113	31	22	18	27	1.97
40033953--40034071	44	2.7	44	84	5	134	27	26	18	27	1.98
40034036--40034221	34	4.9	34	75	19	138	28	26	20	24	1.99
40033992--40034149	78	2.0	78	85	4	212	27	27	18	25	1.98
40034067--40034350	44	6.7	43	81	11	329	28	26	18	26	1.98
40033954--40034302	121	2.9	122	91	5	548	27	26	18	26	1.98
40035616--40035660	16	2.8	16	86	0	54	8	13	0	77	0.98
40036459--40036524	25	2.6	25	83	9	71	56	6	18	19	1.62
40040679--40040754	36	2.1	36	80	11	84	51	1	9	38	1.42
40041280--40041382	21	4.8	23	84	10	114	38	15	8	36	1.79
40041270--40041327	22	2.6	22	81	7	64	41	17	5	36	1.72
40041306--40041382	21	3.7	21	93	6	131	37	14	10	37	1.80
40042076--40042535	157	3.0	156	82	9	531	40	10	5	44	1.61
40043584--40043621	13	2.8	13	81	18	51	52	15	15	15	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40049727--40049753	6	4.5	6	100	0	54	14	0	0	85	0.61
40058386--40058558	45	3.9	44	80	5	190	29	17	18	34	1.94
40058348--40058549	90	2.3	90	85	4	268	32	17	16	33	1.93
40060102--40060169	28	2.4	28	82	0	91	22	20	32	25	1.98
40071892--40071948	28	2.0	28	100	0	114	35	10	3	50	1.54
40072128--40072218	39	2.4	39	76	7	96	40	12	13	34	1.81
40090602--40090644	17	2.5	17	84	3	59	76	2	4	16	1.05
40098358--40098415	20	2.8	21	72	17	57	43	10	0	46	1.38
40099767--40099831	29	2.2	29	94	0	112	21	23	29	26	1.99
40103899--40103925	2	13.5	2	100	0	54	51	0	0	48	1.00
40104779--40104806	5	5.6	5	100	0	56	42	35	0	21	1.53
40105263--40105311	25	1.9	26	83	4	64	38	18	10	32	1.84
40113816--40113853	19	2.0	19	89	0	58	63	2	5	28	1.30
40113958--40114012	20	2.8	20	80	0	65	52	1	7	38	1.40
40114648--40114676	14	2.0	15	93	6	51	55	31	0	13	1.39
40117730--40117762	17	1.9	17	93	0	57	75	6	9	9	1.18
40117748--40118118	160	2.3	160	88	3	557	56	8	8	26	1.58
40118148--40118175	10	2.8	10	100	0	56	28	0	0	71	0.86
40118189--40118575	157	2.4	157	88	4	573	27	8	9	55	1.59
40118648--40118711	27	2.4	27	83	0	74	7	34	31	26	1.85
40122586--40122640	29	1.9	28	85	3	74	12	14	1	70	1.24
40126520--40126764	115	2.1	115	81	4	287	41	11	6	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40136732--40136770	18	2.1	19	85	4	53	43	2	2	51	1.29
40140421--40140449	5	5.8	5	100	0	58	0	0	79	20	0.74
40144163--40144201	20	2.0	20	94	0	69	33	17	17	30	1.94
40157824--40157855	13	2.5	13	94	0	55	34	6	3	56	1.40
40159915--40160013	29	3.5	29	73	10	80	33	4	2	60	1.27
40159915--40159971	28	2.0	28	80	12	64	31	5	1	61	1.28
40162929--40163468	104	5.2	104	82	4	599	35	15	19	30	1.93
40175338--40175362	7	3.6	7	100	0	50	12	0	0	88	0.53
40178187--40178381	56	3.5	54	82	4	255	32	23	14	28	1.94
40178346--40178451	55	1.9	54	90	1	167	33	19	21	25	1.97
40178172--40178436	110	2.4	102	73	15	242	35	20	16	27	1.94
40178355--40178499	51	2.8	52	81	7	161	35	20	21	22	1.96
40179425--40179504	31	2.5	31	80	6	81	61	5	6	27	1.41
40181489--40181643	53	2.9	53	84	2	202	29	14	17	38	1.89
40183407--40183483	23	3.5	22	79	11	79	58	1	3	36	1.25
40183499--40183547	25	2.0	24	92	4	80	57	0	2	40	1.10
40184252--40184512	86	3.0	88	87	2	373	45	6	10	37	1.65
40188838--40188886	25	2.0	25	95	0	89	16	14	20	48	1.80
40191766--40191829	26	2.5	26	89	5	94	71	0	3	25	1.00
40191775--40191832	13	4.7	12	76	14	55	70	0	3	25	1.03
40197635--40197729	38	2.6	37	83	5	120	30	22	13	33	1.93
40197829--40197885	24	2.4	24	84	0	69	21	21	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40203458--40203548	42	2.1	43	87	2	130	27	21	18	31	1.97
40208161--40208186	2	13.0	2	100	0	52	50	0	0	50	1.00
40210256--40210313	20	2.8	21	75	15	75	34	29	12	24	1.91
40210261--40210313	19	2.6	19	80	11	61	35	28	11	24	1.90
40210256--40210313	22	2.8	22	76	12	77	34	29	12	24	1.91
40214067--40214171	27	3.9	27	76	7	79	36	17	19	27	1.94
40219003--40219090	43	2.1	42	84	2	113	28	19	2	50	1.60
40219771--40219829	21	2.8	21	77	10	66	22	20	27	30	1.98
40220041--40220071	9	3.4	9	90	0	53	25	12	22	38	1.90
40220122--40220158	9	4.1	9	92	0	65	45	13	10	29	1.77

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