genome.fa.s10.2.7.7.80.10.50.1000.130.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  130  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)
40249845--40249882	5	7.6	5	100	0	76	0	18	0	81	0.69
40250134--40250430	51	5.9	50	79	4	312	25	17	27	29	1.98
40250138--40250423	101	2.8	100	91	1	428	25	17	26	30	1.98
40250937--40250977	21	2.0	21	90	0	64	65	0	2	31	1.05
40257894--40257972	20	3.8	20	71	23	74	60	7	0	31	1.24
40266757--40266804	9	4.6	10	80	17	53	77	6	0	16	0.97
40266757--40266795	19	2.0	19	85	5	51	76	5	0	17	0.96
40267039--40267691	149	4.3	152	86	6	901	51	8	10	29	1.65
40268253--40268303	12	4.2	13	76	16	56	15	0	7	76	1.00
40268253--40268303	22	2.3	22	83	6	59	15	0	7	76	1.00
40268581--40268689	10	11.1	10	72	7	71	59	3	0	35	1.21
40268597--40268689	39	2.4	39	78	5	98	58	4	1	36	1.25
40269351--40269546	87	2.2	88	84	7	256	38	20	9	31	1.84
40269667--40269699	16	2.0	17	88	5	50	72	0	6	21	1.05
40273444--40273471	10	2.8	10	100	0	56	42	0	10	46	1.38
40275626--40275675	20	2.4	20	81	15	57	36	8	6	50	1.57
40278270--40278392	30	4.1	31	76	11	89	32	22	4	40	1.73
40278300--40278392	30	3.1	29	77	11	100	33	24	4	37	1.75
40278916--40278960	23	2.0	23	86	0	63	75	8	11	4	1.17
40279103--40279160	13	4.4	13	82	4	80	79	0	18	1	0.82
40279097--40279160	7	9.6	7	71	10	53	79	0	17	3	0.85
40279094--40279160	13	5.1	14	80	10	79	79	0	17	2	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40279879--40279923	17	2.6	17	83	13	56	28	13	11	46	1.77
40279903--40279954	27	1.9	27	96	0	95	44	13	7	34	1.72
40279976--40280021	17	2.7	17	81	18	60	23	15	8	52	1.70
40280030--40280085	19	3.0	18	87	7	76	35	12	10	41	1.78
40283293--40283592	147	2.0	147	99	0	591	31	19	26	23	1.98
40283952--40283976	9	2.8	9	100	0	50	48	0	44	8	1.32
40291252--40291353	1	102.0	1	68	0	60	84	8	5	0	0.82
40291253--40291347	8	11.6	8	78	16	81	84	9	5	1	0.82
40291254--40291324	7	9.6	7	84	7	79	84	11	4	0	0.75
40291252--40291353	29	3.5	28	77	19	86	84	8	5	0	0.82
40292206--40292847	76	8.4	76	82	7	757	30	14	19	35	1.92
40292228--40292846	227	2.7	228	85	6	782	30	14	20	33	1.93
40293284--40293415	30	4.4	30	82	3	151	35	21	2	40	1.66
40293282--40293415	59	2.2	60	81	7	166	35	20	2	41	1.65
40293282--40293454	30	5.8	29	79	5	150	35	21	2	39	1.68
40294118--40294191	20	3.6	21	78	12	66	77	0	18	4	0.93
40294114--40294156	18	2.4	18	81	11	52	76	0	16	6	0.99
40294152--40294188	13	2.8	13	87	0	56	78	0	21	0	0.75
40294895--40294938	18	2.4	18	85	7	54	29	15	9	45	1.77
40295005--40295046	18	2.4	18	84	4	59	28	11	7	52	1.64
40294991--40295045	17	3.3	16	78	12	58	27	14	7	50	1.69
40295068--40295128	20	3.0	20	88	9	81	40	4	11	42	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40295613--40295677	13	5.0	13	76	0	67	30	7	21	40	1.81
40300913--40300949	16	2.2	17	90	4	58	72	10	0	16	1.10
40315132--40315184	20	2.5	21	75	6	54	54	3	5	35	1.42
40316795--40316867	35	2.0	35	82	10	85	54	1	19	24	1.52
40318654--40318950	28	10.5	28	81	3	292	33	18	23	24	1.97
40326599--40326683	29	2.9	29	86	6	100	31	18	22	27	1.97
40326616--40326709	29	3.2	28	86	5	116	30	22	20	26	1.98
40326753--40326807	28	1.9	28	85	3	74	36	16	21	25	1.94
40326819--40326954	28	4.8	27	77	9	101	36	20	17	25	1.94
40326819--40326978	57	2.8	55	81	8	187	38	20	17	23	1.93
40326859--40326978	29	4.2	28	78	5	116	39	19	19	22	1.93
40329689--40329728	3	13.3	3	100	0	80	0	0	32	67	0.91
40330045--40330090	3	15.3	3	100	0	92	0	0	32	67	0.91
40329660--40330361	362	2.0	355	95	2	1269	31	14	18	35	1.91
40338245--40338301	26	2.2	26	96	0	105	45	7	28	19	1.76
40345706--40345798	25	3.8	24	72	18	75	30	22	31	16	1.95
40345730--40345865	25	5.5	24	74	9	87	30	21	30	16	1.96
40345976--40346023	25	2.0	25	87	4	71	37	16	27	18	1.92
40366685--40366784	39	2.6	37	79	7	110	48	7	4	41	1.49
40372593--40372628	18	1.9	19	94	5	65	63	0	2	33	1.08
40387794--40387877	9	9.4	9	84	2	116	38	25	13	23	1.91
40387901--40387952	6	7.7	7	91	8	58	23	1	13	61	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40387909--40387945	6	6.0	6	96	3	65	18	0	16	64	1.29
40387901--40387958	18	3.0	20	85	12	75	22	1	12	63	1.37
40390509--40390581	30	2.4	30	77	4	76	28	38	17	15	1.90
40390663--40390697	18	1.9	18	88	0	52	17	28	11	42	1.83
40391111--40391332	49	4.5	49	95	0	390	42	2	8	46	1.47
40391114--40391480	98	3.6	98	86	9	527	42	2	7	47	1.45
40391317--40391345	14	2.1	14	100	0	58	51	0	6	41	1.28
40391272--40391395	63	2.0	63	91	3	205	42	2	7	47	1.44
40391223--40391444	112	2.0	112	95	1	401	42	2	6	48	1.42
40391174--40391480	161	1.9	161	93	1	535	41	2	6	49	1.42
40391335--40391480	49	3.0	49	90	2	231	41	2	6	50	1.42
40394436--40394845	124	3.3	124	93	2	682	29	20	18	31	1.96
40396596--40396630	11	3.4	11	92	7	56	42	5	0	51	1.25
40396587--40396711	40	3.3	39	76	18	147	34	3	0	62	1.11
40396648--40396709	29	2.1	29	82	5	72	32	3	0	64	1.09
40404102--40404126	2	12.5	2	100	0	50	52	0	0	48	1.00
40411888--40411915	13	2.2	13	100	0	56	50	7	0	42	1.30
40413930--40413975	11	4.2	11	78	10	58	60	0	0	39	0.97
40417383--40417413	15	2.1	15	100	0	62	41	0	19	38	1.51
40419316--40419364	6	8.2	6	88	6	73	32	0	67	0	0.91
40431646--40431705	30	2.0	31	83	3	77	38	1	41	18	1.60
40431919--40431956	9	4.2	9	93	0	67	31	10	13	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40435522--40435573	18	2.9	18	78	16	56	21	0	26	51	1.47
40441036--40441085	18	2.8	18	78	0	55	26	6	4	64	1.35
40441859--40441932	23	3.1	26	70	22	88	32	1	5	60	1.27
40441865--40441938	8	9.5	8	71	20	50	31	1	4	63	1.21
40441873--40441950	16	5.1	15	72	21	63	32	3	3	60	1.33
40441854--40441952	46	2.2	46	96	0	180	33	4	4	58	1.35
40441960--40442008	20	2.5	20	75	0	62	34	10	0	55	1.34
40443883--40443999	44	2.6	45	82	4	148	41	7	4	46	1.52
40447790--40447904	40	2.9	39	85	10	162	31	20	26	22	1.98
40447962--40448072	41	2.7	41	97	0	204	16	24	30	28	1.96
40448060--40448084	12	2.1	12	100	0	50	24	32	32	12	1.91
40448019--40448125	53	2.0	53	94	0	187	19	26	31	22	1.98
40448248--40448383	66	2.0	67	95	2	247	46	5	7	41	1.54
40448386--40448537	68	2.4	65	81	12	172	18	4	31	45	1.70
40448509--40448576	7	9.6	7	83	3	73	19	0	32	48	1.49
40448514--40448576	14	4.4	14	85	2	81	17	0	34	47	1.48
40448564--40448603	21	1.9	21	89	0	62	20	0	37	42	1.52
40449302--40449372	29	2.4	29	83	6	90	43	2	5	47	1.41
40452833--40452885	22	2.2	25	83	9	67	49	7	0	43	1.31
40452916--40453261	42	8.2	43	91	3	515	22	19	32	25	1.97
40452916--40453261	85	4.1	85	90	3	520	22	19	32	25	1.97
40461360--40461390	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40467118--40467249	69	1.9	67	86	6	185	44	13	10	31	1.78
40470739--40470769	2	15.5	2	100	0	62	51	0	0	48	1.00
40483898--40484268	104	3.6	103	94	1	618	30	29	20	19	1.97
40493256--40493293	17	2.3	17	86	4	51	26	52	0	21	1.47
40495147--40495180	17	1.9	18	88	5	52	50	0	0	50	1.00
40495373--40495407	7	5.1	7	93	3	54	31	28	11	28	1.92
40495413--40495484	33	2.1	34	82	7	85	20	2	33	43	1.67
40495534--40495580	7	6.9	7	80	4	51	8	0	40	51	1.33
40495534--40495588	27	2.0	28	89	3	85	10	0	38	50	1.37
40495534--40495606	28	2.7	27	84	2	83	13	0	36	49	1.43

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