genome.fa.s10.2.7.7.80.10.50.1000.172.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  172  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)
53668913--53668951	16	2.4	16	84	12	53	43	15	10	30	1.80
53670500--53670660	85	1.9	84	85	1	223	34	14	12	39	1.83
53674668--53674705	2	19.5	2	94	5	69	50	0	0	50	1.00
53689616--53689669	22	2.5	22	81	0	63	16	27	18	37	1.93
53692114--53692203	46	2.0	46	82	8	112	35	21	18	24	1.96
53694094--53694139	22	2.1	22	88	8	67	69	2	2	26	1.11
53699825--53699908	39	2.2	38	77	10	89	33	2	0	64	1.07
53699804--53699908	40	2.6	39	73	15	99	35	2	0	61	1.11
53699881--53699928	19	2.5	20	82	6	71	35	0	0	64	0.94
53710000--53710049	24	2.1	24	100	0	100	20	20	24	36	1.95
53714236--53714279	21	2.1	21	95	0	79	9	15	34	40	1.79
53720115--53720151	18	2.1	18	100	0	74	35	10	27	27	1.90
53726450--53726586	43	3.2	43	82	4	177	27	13	23	35	1.93
53727525--53727554	11	2.7	11	94	0	51	50	0	0	50	1.00
53728591--53728623	17	2.0	17	88	5	50	39	0	12	48	1.40
53729504--53729558	26	2.2	25	80	9	58	38	3	18	40	1.68
53736230--53736370	43	3.3	43	84	0	174	31	14	19	34	1.92
53741847--53741891	13	3.5	13	85	8	65	20	4	0	75	0.97
53742532--53742650	62	1.9	62	86	1	168	38	13	12	35	1.83
53758543--53758573	15	2.1	15	93	0	53	19	32	0	48	1.49
53759703--53759750	8	6.2	8	83	9	55	43	0	0	56	0.99
53763398--53763449	24	2.2	24	85	0	68	53	9	3	32	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53765579--53765603	2	12.5	2	100	0	50	48	0	0	52	1.00
53766526--53766572	23	2.0	23	100	0	94	17	21	40	21	1.91
53781061--53781214	73	2.1	73	90	1	238	40	17	5	36	1.72
53781209--53781235	7	3.9	7	100	0	54	14	40	0	44	1.46
53781620--53781718	45	2.2	45	77	13	105	26	23	12	38	1.90
53781696--53781809	45	2.6	44	84	2	156	22	21	15	39	1.92
53783576--53783625	26	2.0	27	88	11	79	44	6	4	46	1.47
53784001--53784044	23	1.9	23	86	9	63	43	0	2	54	1.12
53784034--53784069	6	6.0	6	100	0	72	50	0	0	50	1.00
53784202--53784277	39	2.0	38	85	12	102	44	1	1	52	1.17
53803149--53803190	18	2.5	17	85	11	59	33	14	16	35	1.89
53803234--53803272	16	2.5	16	87	4	53	38	15	7	38	1.76
53803316--53803368	26	2.0	26	100	0	106	39	15	11	33	1.83
53810492--53810523	2	16.0	2	100	0	64	50	0	0	50	1.00
53817742--53817814	17	4.4	16	71	13	58	61	4	2	31	1.29
53818162--53818231	21	3.3	21	75	16	63	22	1	8	67	1.26
53825193--53825460	92	2.9	91	86	3	369	34	24	16	24	1.95
53825193--53825460	91	2.9	90	86	4	367	34	24	16	24	1.95
53830010--53830058	22	2.1	24	81	7	57	57	18	10	14	1.65
53831290--53831523	109	2.2	107	86	6	330	23	19	26	30	1.98
53831169--53831410	76	3.2	75	88	8	373	23	18	26	31	1.97
53831364--53831756	151	2.7	147	90	4	487	23	19	27	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53831399--53831756	75	4.7	75	85	3	461	23	19	27	29	1.98
53831215--53831594	184	2.1	184	88	3	559	23	18	26	30	1.98
53831215--53831674	184	2.5	180	81	10	445	23	19	26	30	1.98
53833004--53833063	26	2.3	26	94	0	102	41	25	10	23	1.85
53835042--53835080	12	3.2	12	85	7	53	66	2	0	30	1.05
53835193--53835233	13	3.2	13	89	3	66	26	0	2	70	0.99
53836598--53836639	21	2.0	22	90	4	68	0	14	7	78	0.95
53840568--53840623	29	1.9	30	85	3	78	30	3	1	64	1.21
53841139--53841180	20	2.2	19	86	4	57	59	0	4	35	1.19
53841820--53841851	2	16.0	2	100	0	64	50	0	0	50	1.00
53844064--53844102	19	2.0	21	85	10	55	30	23	0	46	1.53
53846422--53846456	17	2.1	17	88	0	52	37	0	17	45	1.48
53854713--53854743	6	5.2	6	100	0	62	0	35	16	48	1.46
53856019--53856218	101	1.9	104	86	7	289	32	16	16	35	1.91
53859059--53859093	18	2.0	17	88	5	52	48	0	0	51	1.00
53859153--53859202	26	1.9	26	91	0	82	48	36	4	12	1.59
53869866--53869941	23	3.3	23	96	0	143	21	21	26	31	1.98
53881802--53881993	98	2.0	98	90	4	307	33	16	19	29	1.94
53881920--53882687	44	17.7	43	70	9	339	29	18	22	29	1.97
53881900--53882281	129	3.0	128	91	2	588	29	18	22	30	1.97
53882131--53882695	218	2.6	219	90	2	920	30	19	22	28	1.98
53882309--53882469	87	1.9	87	80	5	191	30	21	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53883509--53883706	41	4.8	41	91	0	306	33	26	19	20	1.97
53884866--53884897	16	1.9	17	93	6	57	37	21	0	40	1.54
53885059--53885213	41	3.7	41	80	10	163	29	29	18	22	1.98
53886052--53886110	28	2.0	31	83	9	79	49	3	1	45	1.28
53886649--53886698	26	2.0	25	96	4	91	50	34	4	12	1.58
53888315--53888340	7	3.7	7	100	0	52	15	11	11	61	1.57
53888309--53888347	14	2.7	14	80	4	51	20	7	7	64	1.45
53889715--53889791	2	38.5	2	92	0	127	48	2	0	49	1.15
53892165--53892288	40	3.1	40	77	5	117	38	17	18	25	1.92
53892354--53892382	13	2.2	13	100	0	58	41	27	20	10	1.85
53892368--53892478	41	2.7	40	91	2	177	25	22	28	23	1.99
53892616--53892642	14	1.9	14	100	0	54	0	44	0	55	0.99
53896646--53896738	43	2.2	43	88	0	132	21	18	30	30	1.97
53896710--53896763	25	2.2	25	93	0	90	22	22	25	29	1.99
53896667--53896806	68	2.1	68	91	2	228	23	20	27	28	1.99
53896906--53896948	22	2.0	22	95	0	77	41	27	20	9	1.83
53898158--53898224	31	2.2	31	84	7	84	37	7	10	44	1.67
53898923--53898956	16	2.1	16	89	10	52	41	0	8	50	1.34
53898966--53899145	68	2.9	61	90	8	274	40	5	8	45	1.57
53898948--53899115	68	2.5	68	97	1	313	40	4	8	47	1.53
53899029--53899056	9	3.1	9	100	0	56	32	0	10	57	1.33
53899209--53899252	24	1.9	24	90	9	74	61	2	0	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53899802--53900103	95	3.0	95	80	15	347	42	14	17	25	1.87
53900124--53900266	47	3.0	47	92	5	236	37	14	12	35	1.84
53901000--53901041	19	2.2	19	86	0	57	52	14	4	28	1.62
53901925--53902054	40	3.3	39	80	7	147	36	23	21	19	1.95
53902099--53902255	41	3.8	42	88	4	248	21	23	23	31	1.98
53903538--53903600	20	3.1	20	77	11	74	50	0	4	44	1.23
53903541--53903600	10	5.8	10	78	11	59	48	0	5	46	1.24
53908419--53908733	43	7.3	43	80	1	290	23	16	29	29	1.96
53908798--53908839	22	1.9	22	90	0	66	42	26	21	9	1.83
53915475--53915530	15	3.9	14	76	23	62	30	12	0	57	1.36
53915475--53915511	14	2.6	14	91	4	56	27	13	0	59	1.35
53915663--53915702	3	13.3	3	100	0	80	32	0	0	67	0.91
53915755--53915793	15	2.6	15	91	0	60	28	12	2	56	1.50
53922944--53922978	18	1.9	18	88	0	52	28	5	11	54	1.59
53923458--53923582	59	2.1	59	83	2	153	39	2	15	43	1.59
53930017--53930080	17	3.8	17	95	0	101	32	14	12	40	1.83
53930784--53930868	21	3.9	23	80	11	108	36	24	22	16	1.94
53930784--53930868	44	2.0	41	86	6	116	36	24	22	16	1.94
53931572--53931609	13	3.0	13	92	3	60	5	23	5	65	1.34
53931628--53931655	8	3.5	8	100	0	56	60	0	0	39	0.97
53932404--53932451	18	2.7	18	83	6	53	18	33	0	47	1.49
53932790--53932838	25	2.0	25	96	4	91	36	12	4	46	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53934383--53934416	2	17.0	2	87	0	50	47	2	2	47	1.32
53935570--53935603	14	2.4	14	90	0	50	52	8	2	35	1.47
53936517--53936575	10	6.0	10	80	9	59	50	3	0	45	1.18
53936520--53936581	30	2.0	31	90	3	99	51	3	0	45	1.17
53936522--53936582	10	6.2	9	76	14	50	50	3	0	45	1.17
53936614--53936696	25	3.4	25	81	6	116	46	0	0	53	1.00
53936630--53936709	15	5.1	15	73	16	65	45	0	0	55	0.99
53937015--53937053	2	19.5	2	94	0	69	0	46	2	51	1.14
53940251--53940349	37	2.7	37	83	0	126	35	27	17	20	1.94
53948716--53948754	17	2.4	16	84	16	53	56	0	12	30	1.37

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