genome.fa.s10.2.7.7.80.10.50.1000.159.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  159  of  202  ( 24201 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)
49707818--49708362	27	20.2	27	82	6	545	43	17	15	22	1.88
49708556--49708662	52	2.1	52	92	3	180	18	23	24	33	1.97
49708557--49708659	26	4.0	26	85	2	145	16	24	25	33	1.96
49708765--49708841	28	2.7	29	84	10	95	24	18	20	36	1.95
49716355--49716739	81	4.8	80	87	3	483	18	17	20	44	1.87
49716355--49716739	27	14.4	27	82	8	369	18	17	20	44	1.87
49716355--49716741	54	7.2	53	82	6	442	18	17	20	44	1.87
49724301--49724331	16	2.0	15	93	6	53	77	0	22	0	0.77
49731154--49731198	18	2.4	19	78	14	58	24	6	6	62	1.44
49765788--49765815	13	2.2	13	100	0	56	0	25	14	60	1.34
49772375--49772413	19	2.2	17	86	9	51	10	10	2	76	1.10
49777567--49777610	23	1.9	23	85	0	61	43	6	4	45	1.51
49777585--49777614	15	2.0	15	93	0	51	36	6	3	53	1.44
49790292--49790336	14	3.2	15	78	15	60	0	28	0	71	0.87
49790286--49790346	25	2.4	27	81	8	65	0	24	3	72	1.00
49799216--49799375	83	1.9	83	94	0	284	44	11	8	35	1.71
49799353--49799381	15	1.9	15	100	0	58	44	6	6	41	1.58
49802657--49802856	45	4.5	45	76	5	138	33	25	14	26	1.94
49802780--49802875	45	2.1	45	80	3	104	30	23	13	32	1.93
49808804--49808848	17	2.6	17	79	6	56	75	8	13	2	1.13
49809768--49810296	44	11.3	44	69	17	275	27	21	18	32	1.97
49809718--49810287	142	4.0	142	95	0	1025	27	21	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49828643--49828715	29	2.6	28	89	8	98	50	9	17	21	1.74
49828658--49828715	29	2.0	29	100	0	116	51	10	17	20	1.74
49843102--49843132	16	1.9	16	100	0	62	19	12	16	51	1.76
49848744--49848783	15	2.7	15	88	0	53	30	0	20	50	1.49
49852408--49852451	17	2.6	17	92	0	70	54	15	15	13	1.71
49852446--49852492	23	2.1	22	88	4	67	68	0	0	31	0.90
49852446--49852499	21	2.7	20	79	2	63	66	0	0	33	0.92
49852939--49853007	20	3.5	20	91	0	93	56	7	7	28	1.53
49856858--49856903	24	2.0	23	86	4	65	65	2	0	32	1.05
49857358--49857398	20	2.0	20	90	0	64	53	4	7	34	1.50
49858636--49858667	14	2.4	14	90	10	50	65	0	6	28	1.16
49858677--49858717	12	3.4	12	93	0	64	70	12	2	14	1.26
49858630--49858705	34	2.2	34	81	4	82	69	5	3	21	1.24
49858677--49858717	18	2.3	18	91	0	64	70	12	2	14	1.26
49860617--49860771	66	2.3	66	95	2	274	50	10	6	32	1.63
49868637--49868699	25	2.6	23	73	9	54	17	25	20	36	1.94
49868789--49868858	24	2.8	24	78	4	68	20	22	22	34	1.97
49876072--49876152	24	3.3	24	76	10	83	35	18	27	18	1.94
49876236--49876284	25	2.0	25	88	4	73	38	16	24	20	1.92
49915033--49915112	27	3.0	27	81	5	99	37	23	22	16	1.93
49915139--49915403	27	9.9	27	80	4	268	34	16	21	26	1.95
49915138--49915403	54	4.9	54	83	2	311	34	16	21	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49915139--49915403	107	2.5	108	86	1	354	34	16	21	26	1.95
49915441--49915522	24	3.5	24	75	8	78	23	6	21	48	1.72
49915621--49915676	26	2.2	26	86	0	76	14	21	30	33	1.93
49915667--49915887	32	6.9	32	78	4	185	19	22	21	36	1.95
49915666--49915887	96	2.3	96	79	6	243	19	22	21	36	1.96
49915907--49915959	26	2.0	26	88	0	79	20	28	18	32	1.97
49917136--49917260	34	3.7	34	86	1	171	22	13	29	34	1.92
49919130--49919265	23	5.9	23	77	5	132	36	23	17	22	1.95
49926719--49926847	40	3.2	40	83	4	154	40	31	15	12	1.84
49931305--49931366	4	15.0	4	93	6	106	0	25	0	74	0.82
49931396--49931463	25	3.0	23	81	14	70	29	7	0	63	1.21
49939243--49939303	17	3.8	17	68	12	56	55	1	6	36	1.36
49950485--49950524	19	2.2	18	86	4	53	42	0	7	50	1.30
49961923--49962006	40	2.1	40	95	2	152	11	39	2	46	1.54
49963819--49963847	12	2.5	12	94	5	51	37	0	20	41	1.53
49971084--49971184	44	2.3	42	77	15	107	28	25	19	25	1.99
49978377--49978486	44	2.5	43	76	7	123	29	30	18	22	1.97
49990730--49990780	22	2.3	22	83	12	61	68	5	0	25	1.12
49992774--49993154	173	2.2	172	80	5	412	26	22	22	28	1.99
49993039--49993593	132	4.2	131	85	5	748	24	23	21	30	1.99
49993074--49993550	257	1.9	257	92	0	801	25	23	20	31	1.98
49998027--49998099	36	2.0	36	100	0	146	15	30	13	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49999725--49999753	12	2.4	12	100	0	58	20	41	6	31	1.79
50001677--50001722	24	1.9	24	86	0	65	10	23	17	47	1.79
50005848--50005901	26	2.0	27	85	3	74	57	7	1	33	1.37
50009183--50009240	3	19.3	3	96	0	107	65	0	1	32	1.03
50010589--50010639	10	5.2	10	77	11	52	74	1	0	23	0.92
50010589--50010649	30	2.0	29	84	12	79	72	1	0	26	0.94
50011912--50011955	23	1.9	23	85	0	61	13	27	15	43	1.85
50016743--50016776	6	5.7	6	85	0	50	32	0	20	47	1.51
50021773--50021845	38	1.9	38	97	0	137	41	17	12	28	1.86
50022877--50022956	34	2.4	34	95	0	142	43	32	11	12	1.78
50023587--50023616	16	1.9	16	93	6	53	50	20	0	30	1.49
50040804--50040828	12	2.1	12	100	0	50	36	16	32	16	1.90
50042503--50042725	91	2.4	92	83	4	281	37	21	9	30	1.86
50042749--50042862	10	12.4	9	71	16	83	64	1	1	31	1.13
50042749--50042851	26	3.8	25	78	10	80	64	1	1	32	1.16
50042781--50042825	16	2.7	17	82	6	65	73	0	0	26	0.84
50042759--50042818	27	2.1	30	84	9	81	66	0	0	33	0.92
50042818--50042873	29	1.9	29	82	7	69	62	5	3	28	1.34
50042928--50042987	29	2.1	28	84	3	75	20	5	3	71	1.19
50043093--50043287	89	2.2	89	82	3	234	35	8	16	38	1.80
50044977--50045113	15	9.1	15	65	20	54	49	4	1	44	1.31
50044968--50045009	15	2.7	16	82	14	52	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50045090--50045126	16	2.2	17	86	13	51	54	0	2	43	1.14
50045109--50045276	47	3.7	46	70	18	143	47	4	2	45	1.37
50045168--50045228	28	2.2	28	85	5	81	50	3	0	45	1.17
50045066--50045350	91	3.0	93	85	6	328	48	3	2	45	1.35
50045143--50045350	91	2.3	91	93	0	344	46	4	3	46	1.39
50045168--50045310	44	3.2	43	68	16	119	48	3	2	46	1.31
50045193--50045331	47	3.0	47	68	17	137	49	4	2	43	1.34
50048435--50048470	15	2.4	15	100	0	72	44	11	8	36	1.70
50048681--50048716	6	6.0	6	100	0	72	50	0	0	50	1.00
50049155--50049179	13	1.9	13	100	0	50	20	16	8	56	1.65
50049668--50049735	29	2.3	29	97	0	127	36	22	11	29	1.89
50050822--50050850	15	1.9	15	100	0	58	62	24	6	6	1.45
50053098--50053202	52	2.0	52	92	0	174	36	25	7	30	1.84
50053817--50053853	16	2.3	16	100	0	74	21	24	10	43	1.84
50055195--50055235	21	2.0	21	90	0	64	24	2	24	48	1.63
50066640--50066670	2	15.5	2	100	0	62	51	0	0	48	1.00
50067291--50067330	18	2.2	18	86	0	53	27	0	2	70	1.01
50067361--50067404	3	15.0	3	90	4	72	65	2	0	31	1.05
50071502--50071536	3	11.7	3	93	0	61	71	0	28	0	0.86
50073978--50074008	11	2.7	11	95	5	53	45	0	0	54	0.99
50088000--50088040	13	3.2	13	75	25	50	0	31	21	46	1.52
50091042--50091081	18	2.2	18	90	0	62	32	15	12	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50091510--50091746	72	3.3	72	86	4	313	24	7	13	54	1.64
50091510--50091771	142	1.8	142	81	4	323	25	6	13	54	1.63
50098173--50098219	22	2.1	23	88	4	69	17	4	31	46	1.67
50098277--50098344	28	2.4	29	87	2	93	45	0	11	42	1.40
50098366--50098420	28	2.0	27	85	3	74	38	1	18	41	1.61
50098492--50098760	125	2.2	127	85	6	363	40	13	16	28	1.87
50099674--50099805	59	2.2	59	85	7	171	53	5	5	36	1.47
50101930--50101968	12	3.6	11	86	13	55	58	0	15	25	1.37
50102228--50102288	29	2.1	30	81	9	72	37	14	18	29	1.90
50107130--50107155	1	26.0	1	100	0	52	0	0	0	100	0.00

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