genome.fa.s7.2.7.7.80.10.50.1000.154.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   203   204   

This is table  154  of  204  ( 24458 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)
46308483--46308790	127	2.4	126	85	3	420	26	19	20	33	1.96
46310466--46310625	45	3.6	44	80	3	167	42	13	18	25	1.87
46310466--46310646	45	4.0	44	75	9	150	41	13	19	24	1.88
46310502--46310667	90	1.8	90	83	5	219	42	14	19	22	1.88
46311107--46311131	10	2.5	10	100	0	50	44	12	0	44	1.41
46312628--46312767	40	3.5	40	87	0	190	31	16	32	20	1.94
46312561--46312711	60	2.5	60	76	7	139	33	17	31	17	1.93
46322157--46322300	63	2.3	63	81	8	161	25	29	20	25	1.99
46323095--46323134	21	2.0	21	90	5	64	52	22	5	20	1.65
46325820--46325866	14	3.4	14	77	16	53	0	19	4	76	0.95
46334228--46334271	20	2.2	20	95	0	79	56	9	6	27	1.55
46337004--46337035	16	2.0	16	100	0	64	31	0	31	37	1.58
46339920--46340129	74	2.8	75	91	0	332	30	28	20	20	1.98
46340030--46340262	104	2.3	102	91	2	369	28	29	21	21	1.98
46347032--46347238	33	5.7	33	69	19	128	29	28	21	20	1.98
46347033--46347242	74	2.8	73	90	3	314	29	28	20	20	1.98
46347033--46347242	75	2.8	74	90	2	323	29	28	20	20	1.98
46347143--46347376	105	2.3	102	88	4	346	29	27	21	21	1.99
46349224--46349268	23	2.0	23	81	0	54	60	0	6	33	1.23
46349319--46349347	14	2.0	15	93	6	51	41	6	0	51	1.28
46355211--46355254	11	3.9	11	80	14	54	63	0	2	34	1.07
46355299--46355351	21	2.2	26	75	25	71	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46355305--46355351	21	2.1	23	92	7	80	27	0	0	72	0.85
46356863--46356892	8	3.8	8	90	0	51	60	0	40	0	0.97
46358334--46358358	11	2.3	11	100	0	50	52	8	0	40	1.31
46384928--46385027	43	2.3	43	83	10	132	20	19	29	32	1.96
46390969--46391017	22	2.2	22	85	0	62	36	18	16	28	1.92
46391656--46391693	18	2.2	18	86	9	53	34	0	2	63	1.09
46391982--46392013	15	2.0	17	88	11	50	40	0	3	56	1.15
46394438--46394479	22	1.9	22	90	9	68	21	7	4	66	1.35
46403859--46403932	36	2.1	36	100	0	148	36	27	2	33	1.71
46407479--46407508	3	10.0	3	100	0	60	66	0	0	33	0.92
46408535--46408588	22	2.5	22	68	0	54	5	16	3	74	1.16
46409104--46409149	22	2.1	22	83	0	56	71	2	13	13	1.23
46412326--46412372	24	1.9	24	86	4	67	36	0	40	23	1.55
46413457--46413632	27	6.5	27	86	2	255	42	18	19	19	1.90
46413457--46413658	54	3.7	53	82	5	235	41	17	19	21	1.91
46413867--46413943	26	3.0	26	77	7	84	18	23	22	36	1.95
46422172--46422209	19	2.0	19	94	0	67	23	0	13	63	1.30
46427758--46427825	30	2.4	29	83	9	95	58	1	2	36	1.22
46428091--46428115	12	2.1	12	100	0	50	52	0	0	48	1.00
46428607--46428662	29	1.9	29	88	0	85	26	5	10	57	1.54
46431601--46431649	25	2.0	25	84	8	64	63	6	4	26	1.36
46431924--46431966	17	2.5	18	77	11	54	0	23	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46433481--46433510	2	15.0	2	92	0	51	50	3	0	46	1.18
46435848--46435899	24	2.2	24	85	0	68	38	3	7	50	1.50
46440238--46440289	24	2.2	24	89	0	77	38	1	7	51	1.42
46440898--46440957	31	1.9	31	100	0	120	38	6	13	41	1.70
46454944--46454981	19	2.0	20	89	5	60	13	7	5	73	1.22
46469239--46469267	14	2.0	15	93	6	51	27	0	20	51	1.47
46470424--46470548	43	2.9	43	78	13	130	20	19	31	28	1.97
46471391--46471561	23	7.3	23	66	11	96	28	16	13	41	1.86
46471414--46471585	24	7.3	24	67	11	113	27	18	13	40	1.88
46471391--46471610	47	4.7	47	93	0	359	26	17	14	41	1.88
46471391--46471644	94	2.7	94	88	1	303	27	16	15	40	1.88
46471391--46471652	141	1.9	141	85	1	364	27	17	15	40	1.89
46471627--46471676	23	2.2	23	85	0	64	30	18	16	36	1.92
46471635--46471678	23	1.9	23	90	0	70	27	15	15	40	1.88
46471569--46471748	71	2.5	73	79	7	192	29	13	17	39	1.88
46478057--46478110	25	2.2	25	86	6	74	22	14	5	57	1.58
46479231--46479323	13	7.3	13	73	4	57	78	3	7	10	1.06
46479237--46479336	12	8.3	11	71	19	58	79	2	10	9	1.03
46479271--46479312	21	2.1	19	86	8	57	83	4	2	9	0.88
46479230--46479310	25	3.2	25	74	8	67	76	4	6	12	1.13
46479295--46479337	22	2.0	22	85	0	59	81	2	16	0	0.79
46481539--46482047	216	2.3	217	88	2	763	31	19	22	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46481981--46482406	44	9.8	44	74	4	290	26	20	26	26	1.99
46481970--46482421	87	5.2	87	83	1	528	28	19	24	26	1.99
46482160--46482381	43	5.1	43	68	9	137	26	24	24	24	2.00
46482578--46482721	50	2.9	51	80	8	170	33	20	16	29	1.95
46484474--46484525	3	17.3	3	76	7	52	32	7	0	59	1.26
46487708--46488012	68	4.6	67	78	10	295	33	15	21	28	1.95
46487781--46487900	61	2.0	61	86	3	170	35	15	20	29	1.93
46487713--46487962	129	1.9	129	84	3	333	33	16	21	28	1.95
46492372--46492539	26	6.5	25	76	5	138	23	16	25	35	1.94
46492371--46492539	52	3.3	50	73	12	153	23	15	24	36	1.94
46498802--46498918	9	12.7	9	69	17	62	42	0	3	52	1.23
46498806--46498932	9	13.6	9	67	14	53	38	0	3	56	1.23
46498860--46498931	20	3.7	19	88	7	83	37	0	5	56	1.22
46498879--46498931	20	2.7	19	94	2	88	33	0	5	60	1.20
46506789--46507226	51	8.6	51	76	5	420	28	14	27	28	1.95
46506793--46507230	102	4.3	102	94	0	750	28	14	28	29	1.95
46512129--46512263	39	3.5	39	91	0	216	45	25	3	25	1.69
46517013--46517171	45	3.4	45	80	10	165	40	19	18	20	1.91
46517009--46517171	51	3.3	50	80	14	194	41	19	19	20	1.91
46517375--46517460	39	2.2	40	83	6	104	39	18	5	36	1.75
46518393--46518433	13	3.2	13	86	6	57	0	29	0	70	0.87
46518634--46518696	8	7.8	8	79	10	74	61	1	0	36	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46519572--46519669	48	2.0	48	94	0	169	29	16	21	32	1.95
46521856--46521899	11	3.9	11	82	5	52	34	0	2	63	1.07
46525375--46525440	31	2.2	31	78	5	73	28	19	6	45	1.74
46526009--46526034	12	2.2	12	100	0	52	46	0	15	38	1.46
46527343--46527373	6	5.2	6	92	0	53	51	3	0	45	1.17
46534256--46534322	27	2.5	26	76	21	68	28	13	13	44	1.81
46534267--46534325	27	2.2	27	88	11	86	25	13	11	49	1.76
46539758--46539930	45	4.2	39	81	11	159	19	20	20	39	1.93
46539785--46539984	45	4.4	45	89	0	283	20	19	20	41	1.91
46542045--46542114	32	2.2	32	86	0	95	42	12	1	42	1.52
46544071--46544288	45	4.8	44	82	5	152	22	16	15	45	1.84
46544119--46544289	90	1.9	90	90	0	270	22	15	15	46	1.83
46548933--46548968	18	2.1	17	89	5	54	30	0	22	47	1.52
46557798--46557832	15	2.3	15	100	0	70	5	20	14	60	1.54
46559994--46560049	29	1.9	29	85	7	78	25	7	25	42	1.80
46560764--46560835	31	2.4	30	86	4	92	45	9	8	36	1.67
46564640--46564727	3	29.3	3	92	0	149	67	0	29	3	1.07
46567835--46568053	80	2.7	80	78	2	233	36	25	16	21	1.94
46582505--46582544	2	20.0	2	89	0	62	52	2	0	45	1.14
46583541--46583581	21	2.0	21	85	9	57	36	4	7	51	1.51
46584292--46584337	24	2.0	23	87	8	67	67	0	0	32	0.91
46584760--46584821	24	2.6	23	80	12	63	24	6	0	69	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46584773--46584814	13	3.2	13	80	6	50	23	9	0	66	1.21
46584772--46584875	29	3.7	29	76	13	92	28	5	0	64	1.23
46585255--46585384	59	2.2	57	85	5	172	33	15	10	40	1.82
46585255--46585405	59	2.6	58	79	9	146	31	15	9	42	1.80
46588804--46588876	25	3.0	24	82	13	87	35	20	24	19	1.95
46588805--46588998	24	7.8	24	76	6	124	35	19	26	19	1.95
46588903--46589009	24	4.3	26	82	5	107	31	20	28	19	1.97
46612102--46612146	7	6.0	8	84	10	60	13	0	37	48	1.42
46612102--46612148	21	2.2	21	88	3	67	14	0	38	46	1.45
46616462--46616563	27	3.8	26	71	12	80	23	19	16	40	1.91

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   203   204