genome.fa.s10.2.7.7.80.10.50.1000.124.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  124  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)
38430649--38431042	81	5.0	77	62	19	195	45	3	4	46	1.38
38430970--38431042	28	2.6	28	73	2	65	52	2	0	45	1.15
38435122--38435182	2	30.5	2	96	0	113	47	0	0	52	1.00
38437662--38437697	18	2.0	18	94	0	63	8	30	11	50	1.67
38439430--38439462	10	3.4	10	95	4	59	0	0	15	84	0.61
38439430--38439473	15	3.1	14	84	12	63	0	0	18	81	0.68
38440184--38440228	19	2.4	18	85	7	54	75	2	4	17	1.07
38440191--38440258	31	2.3	28	75	20	66	73	0	7	19	1.06
38442489--38442521	16	2.1	16	100	0	66	51	6	24	18	1.68
38446015--38446054	16	2.5	16	87	0	53	50	2	5	42	1.37
38446042--38446188	75	2.1	70	88	11	221	40	5	9	44	1.60
38446127--38446161	9	4.1	9	85	14	56	31	0	11	57	1.34
38446124--38446162	16	2.4	16	95	0	69	33	0	10	56	1.33
38446598--38446641	12	3.7	12	84	0	61	9	36	22	31	1.86
38446608--38446632	9	2.8	9	100	0	50	8	36	24	32	1.84
38448787--38448973	92	2.0	92	98	0	365	38	10	12	39	1.77
38456225--38456272	21	2.3	20	78	3	51	22	4	4	68	1.24
38456576--38456924	43	8.2	42	82	4	376	25	29	19	25	1.98
38456576--38456890	129	2.5	128	85	0	423	24	29	20	25	1.99
38457466--38457638	23	7.6	23	72	14	110	39	24	4	31	1.74
38457489--38457545	22	2.5	23	77	8	64	45	24	1	28	1.63
38457464--38457638	46	3.8	46	76	6	151	40	24	4	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38458000--38458073	29	2.6	29	97	0	139	43	22	6	27	1.78
38458696--38458732	15	2.5	15	90	0	56	29	0	5	64	1.15
38459368--38459461	7	13.1	7	76	4	53	35	38	0	26	1.57
38459469--38459517	22	2.3	22	86	10	66	46	30	0	22	1.52
38459541--38459585	14	3.2	14	80	0	54	48	24	0	26	1.51
38459632--38459811	7	24.6	7	71	15	53	48	33	1	17	1.54
38459632--38459709	7	10.9	7	73	13	61	47	35	0	16	1.47
38459632--38459709	29	2.7	29	82	9	88	47	35	0	16	1.47
38459632--38459805	15	12.4	14	69	18	103	47	33	1	17	1.56
38460179--38460395	41	5.3	41	89	0	290	31	25	22	20	1.98
38460445--38460554	39	2.8	40	81	2	132	22	20	20	37	1.95
38462200--38462234	18	2.0	18	94	5	63	40	11	0	48	1.39
38465792--38465903	28	4.2	26	71	18	79	50	16	14	18	1.79
38468182--38468212	16	1.9	16	93	0	53	48	3	0	48	1.17
38468337--38468376	21	2.0	21	85	5	55	50	0	12	37	1.41
38468303--38468474	88	2.0	88	97	0	326	59	4	7	28	1.45
38468304--38468445	43	3.3	42	71	22	139	58	4	7	28	1.47
38469046--38469095	15	3.2	16	75	11	50	24	0	2	74	0.93
38469382--38469410	13	2.1	14	93	6	51	65	0	0	34	0.93
38470318--38470369	14	3.4	15	76	10	52	38	0	3	57	1.17
38483210--38483248	20	2.0	20	94	0	69	38	12	20	28	1.89
38485656--38485707	28	1.9	26	88	7	77	48	0	7	44	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38486609--38486732	41	3.0	41	87	0	185	20	21	24	33	1.97
38491616--38491669	22	2.5	22	87	6	74	44	12	5	37	1.66
38494504--38494539	19	1.9	18	88	5	54	75	2	0	22	0.94
38497605--38497656	25	2.1	25	89	7	79	46	0	0	53	1.00
38497605--38497667	25	2.5	25	83	16	78	49	0	0	50	1.00
38498473--38498522	26	1.9	26	87	0	73	28	4	14	54	1.58
38504174--38504237	29	2.2	29	85	2	83	39	29	20	10	1.87
38505148--38505237	44	2.0	44	93	0	153	27	17	20	34	1.95
38509154--38509182	2	14.5	2	100	0	58	48	0	0	51	1.00
38509675--38509859	41	4.5	41	95	1	327	27	19	28	24	1.98
38509675--38509859	81	2.3	82	96	0	336	27	19	28	24	1.98
38516537--38516826	65	4.4	66	70	15	215	40	3	15	41	1.65
38516563--38516975	201	2.1	192	88	7	607	38	4	15	41	1.67
38517391--38517529	41	3.4	41	93	0	233	28	19	27	24	1.98
38520631--38520691	26	2.4	26	91	2	97	31	22	19	26	1.98
38520764--38520952	76	2.5	75	86	1	254	30	26	19	23	1.98
38522528--38522972	125	3.5	125	89	1	649	29	20	16	33	1.95
38524638--38524681	17	2.5	17	85	3	52	86	6	2	4	0.77
38525400--38525495	18	5.3	18	70	22	51	66	5	0	28	1.13
38525444--38525505	28	2.2	29	80	11	67	66	3	0	30	1.08
38525462--38525544	39	2.2	38	84	6	105	57	3	1	37	1.24
38530106--38530154	20	2.4	20	79	3	53	24	20	4	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38533643--38533686	23	2.0	22	82	13	54	45	4	4	45	1.44
38533678--38533726	3	16.3	3	91	8	82	67	0	0	32	0.91
38538575--38538720	65	2.2	65	81	0	166	26	19	19	33	1.96
38542950--38542975	5	5.2	5	100	0	52	42	19	19	19	1.90
38544043--38544079	9	4.1	9	86	13	58	32	10	10	45	1.74
38544131--38544161	9	3.4	9	90	0	53	38	22	12	25	1.90
38555380--38555437	26	2.2	26	87	0	80	27	17	15	39	1.90
38555486--38555542	26	2.2	26	87	6	80	14	17	24	43	1.86
38560318--38560467	44	3.4	43	73	5	131	36	9	18	36	1.83
38566958--38567002	13	3.5	13	81	6	56	42	20	2	35	1.64
38570113--38570204	47	2.0	46	89	2	139	35	21	10	31	1.88
38570250--38570290	20	2.0	21	90	4	66	36	12	0	51	1.40
38576866--38576929	30	2.2	29	81	10	76	29	28	6	35	1.82
38576873--38576929	30	1.9	30	85	3	80	29	24	7	38	1.82
38581729--38581767	10	3.8	10	86	6	51	30	2	2	64	1.21
38587976--38588014	18	2.2	18	90	0	60	41	2	7	48	1.45
38591836--38591881	16	2.9	16	81	12	58	19	4	4	71	1.20
38593250--38593282	17	1.9	17	100	0	66	21	18	12	48	1.80
38601937--38602111	92	2.0	87	92	5	287	46	14	13	25	1.81
38603800--38603860	20	3.1	19	80	4	59	31	3	3	62	1.27
38606685--38606721	14	2.6	14	86	4	56	64	0	8	27	1.21
38606680--38606731	26	2.0	25	85	3	68	61	0	9	28	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38607229--38607268	6	6.5	6	82	5	53	17	5	0	77	0.94
38608384--38608435	24	2.3	22	86	6	68	13	3	9	73	1.23
38608531--38608572	21	2.0	22	85	4	59	11	9	4	73	1.22
38613889--38613982	47	2.0	48	85	6	129	32	28	15	22	1.95
38619787--38619827	10	4.3	10	90	9	68	60	0	0	39	0.96
38633951--38633981	5	6.0	5	92	7	53	19	3	0	77	0.90
38633951--38633986	10	3.5	11	92	7	51	19	5	0	75	1.00
38635104--38635142	20	2.0	20	90	10	62	51	30	5	12	1.62
38637824--38637873	25	2.0	25	88	0	73	34	26	4	36	1.75
38638229--38638282	26	2.1	26	100	0	108	46	11	14	27	1.79
38641910--38641951	15	2.7	16	82	14	52	52	2	0	45	1.13
38641919--38641960	15	2.9	15	82	10	52	52	0	0	47	1.00
38641908--38642333	120	3.5	120	94	0	728	49	6	2	42	1.41
38642170--38642204	18	2.0	17	88	5	52	54	0	0	45	0.99
38642290--38642324	18	2.0	17	88	5	52	54	0	0	45	0.99
38642224--38642415	83	2.3	84	87	8	281	51	3	3	41	1.35
38642284--38642409	29	4.5	28	66	15	82	51	1	2	44	1.24
38644726--38644782	28	2.0	28	96	0	105	49	14	33	3	1.60
38656858--38656924	25	2.7	25	80	0	71	31	16	26	25	1.96
38656996--38657121	26	5.0	26	72	13	93	33	23	25	18	1.97
38657562--38657595	15	2.2	15	89	5	50	26	20	8	44	1.81
38660619--38660666	24	2.0	24	100	0	96	20	29	29	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38670905--38670961	24	2.4	24	87	0	87	31	10	26	31	1.90
38671321--38671581	44	6.1	41	74	8	157	31	22	20	26	1.98
38673065--38673091	14	1.9	14	100	0	54	22	7	3	66	1.33
38675247--38675306	27	2.2	27	82	11	70	25	0	8	66	1.19
38679847--38679906	28	2.1	28	81	6	68	26	10	13	50	1.73
38679846--38679906	29	2.1	28	82	8	70	26	9	13	50	1.72
38680103--38680226	51	2.4	51	90	4	196	29	27	0	42	1.56
38680227--38680293	31	2.2	31	89	5	100	35	1	0	62	1.04
38681375--38681399	7	3.6	7	100	0	50	28	0	12	60	1.32
38682477--38682661	71	2.6	71	94	0	325	37	3	14	45	1.61

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