genome.fa.s9.2.7.7.80.10.50.1000.84.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  84  of  226  ( 27023 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)
30025164--30025250	43	2.1	43	89	4	133	27	11	10	50	1.71
30026254--30026313	17	3.5	17	74	19	61	63	1	1	33	1.14
30030514--30030558	19	2.4	19	96	3	83	28	15	8	46	1.76
30035396--30035441	24	1.9	24	86	8	67	28	0	4	67	1.10
30038329--30038377	21	2.2	22	85	7	64	22	6	8	63	1.44
30038409--30038448	21	2.0	20	90	5	62	17	10	2	70	1.27
30039860--30039911	24	2.2	24	85	0	68	53	9	3	32	1.51
30041806--30041858	24	2.2	24	89	0	79	54	9	1	33	1.43
30042311--30042335	12	2.1	12	100	0	50	32	8	24	36	1.84
30046310--30046404	45	2.3	42	77	15	106	38	6	6	48	1.54
30048073--30048152	41	2.0	41	94	0	142	27	2	13	56	1.51
30051359--30051390	2	16.0	2	93	0	55	50	3	0	46	1.17
30051777--30051818	22	2.0	21	90	4	66	59	14	11	14	1.61
30051773--30051910	62	2.3	60	81	9	165	50	10	10	27	1.71
30052246--30052278	10	3.0	11	86	13	50	45	9	3	42	1.51
30052351--30052400	20	2.6	19	81	6	55	40	0	0	60	0.97
30052359--30052400	20	2.1	20	86	0	57	40	0	0	59	0.97
30052351--30052406	20	2.8	20	78	8	51	41	3	0	55	1.17
30057766--30057817	14	3.6	14	82	10	52	69	1	9	19	1.26
30062394--30062421	14	2.0	14	100	0	56	14	0	35	50	1.43
30062547--30062594	24	2.0	25	83	4	62	68	4	6	20	1.28
30067797--30067833	17	2.2	17	90	0	56	43	2	2	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30067807--30067851	17	2.5	18	85	7	56	33	2	2	62	1.20
30067982--30068033	27	1.9	27	81	14	63	57	1	1	38	1.21
30068115--30068163	23	2.0	23	84	7	62	36	2	0	61	1.08
30069538--30069568	9	3.4	9	90	0	53	25	12	22	38	1.90
30069625--30069658	9	3.8	9	96	0	59	44	17	11	26	1.83
30070655--30070680	5	5.2	5	100	0	52	19	19	19	42	1.90
30074548--30074581	16	2.1	16	100	0	68	11	5	32	50	1.63
30075131--30075172	21	2.0	21	95	0	75	30	16	19	33	1.94
30075699--30075801	51	2.0	51	94	0	179	20	11	26	41	1.86
30076221--30076289	32	2.2	32	94	0	120	30	18	13	37	1.89
30078498--30078625	64	2.0	64	93	0	220	52	14	13	20	1.74
30081527--30081648	43	2.8	43	81	14	144	29	30	19	20	1.97
30083457--30083522	9	7.3	9	87	0	78	39	24	9	27	1.85
30083462--30083522	18	3.4	18	86	0	86	40	24	9	24	1.85
30083584--30083625	21	2.0	21	100	0	84	33	0	4	61	1.17
30086985--30087014	13	2.3	13	94	0	51	46	13	16	23	1.82
30088773--30088853	40	2.0	40	100	0	162	22	27	17	33	1.96
30094006--30094048	20	2.2	20	100	0	86	32	9	13	44	1.76
30103187--30103239	21	2.3	24	81	12	67	41	0	0	58	0.98
30111551--30111585	18	1.9	18	88	0	52	34	5	2	57	1.37
30111632--30111695	20	3.2	20	82	2	67	35	3	1	59	1.23
30116975--30117036	26	2.4	26	89	2	90	40	14	16	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30120145--30120212	31	2.2	32	94	2	120	29	10	14	45	1.78
30127154--30127249	31	3.1	31	95	3	174	31	9	13	45	1.75
30130836--30131076	69	3.4	68	74	7	223	30	23	25	20	1.98
30132940--30132993	20	2.8	18	81	13	63	46	0	0	53	1.00
30133214--30133267	27	2.1	27	82	6	67	33	5	1	59	1.31
30140790--30140915	63	2.0	63	93	0	216	31	13	24	30	1.93
30141817--30141860	20	2.2	20	95	0	79	36	15	27	20	1.93
30141817--30141872	20	2.8	20	89	2	69	33	14	26	25	1.94
30148463--30148495	18	1.9	18	88	11	52	54	12	0	33	1.37
30153949--30154425	124	3.8	124	91	1	742	23	21	24	30	1.99
30162494--30162542	25	2.0	25	95	0	89	20	10	24	44	1.82
30165432--30165488	28	2.0	28	96	0	105	29	28	5	36	1.79
30168708--30168760	18	2.9	17	81	10	61	41	3	18	35	1.69
30177247--30177272	2	13.0	2	100	0	52	50	0	0	50	1.00
30186709--30186801	27	3.4	27	87	0	132	46	18	15	20	1.84
30186755--30186837	27	3.1	27	81	10	73	36	16	19	27	1.93
30188202--30188422	105	2.1	105	91	4	358	19	19	30	31	1.96
30195231--30195567	105	3.2	104	94	2	563	19	20	29	31	1.97
30195517--30195594	27	2.9	27	98	0	147	11	25	33	29	1.91
30199514--30199930	225	1.9	222	89	2	656	36	16	13	32	1.88
30201308--30201355	26	1.9	25	83	8	62	31	0	8	60	1.26
30228556--30228591	15	2.5	14	86	8	54	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30236827--30236995	82	2.1	81	85	3	223	19	18	21	40	1.92
30236828--30236995	27	6.2	27	86	4	221	19	18	21	40	1.92
30237624--30237670	24	1.9	25	86	4	69	25	36	0	38	1.56
30240422--30240563	50	2.8	50	84	0	185	27	21	29	21	1.98
30245359--30245409	17	3.1	17	80	2	50	47	19	5	27	1.73
30257234--30257274	3	13.7	3	100	0	82	34	0	0	65	0.93
30257402--30257456	2	28.0	2	82	10	60	49	1	1	47	1.23
30257471--30257527	27	2.2	25	78	6	60	31	8	3	56	1.47
30259224--30259273	21	2.3	21	93	3	82	56	2	0	42	1.11
30263415--30263608	74	2.6	74	76	6	187	36	21	25	17	1.94
30263382--30263616	25	9.5	25	69	11	135	34	21	25	18	1.96
30265235--30265278	13	3.3	14	87	6	65	50	15	13	20	1.78
30272360--30272492	24	5.4	24	70	13	99	35	21	25	17	1.95
30272336--30272516	24	7.3	25	70	13	88	35	21	25	17	1.95
30272504--30272566	25	2.5	25	89	0	90	26	22	28	22	1.99
30274652--30274693	17	2.4	18	84	11	52	47	14	0	38	1.44
30277388--30277461	34	2.2	34	97	0	139	47	14	8	29	1.73
30278582--30278648	9	7.4	9	87	0	98	25	11	22	40	1.88
30279001--30279036	16	2.2	16	90	9	56	19	5	0	75	1.00
30281466--30281505	20	2.0	20	85	0	53	52	0	10	37	1.35
30281569--30281647	3	26.3	3	79	14	83	68	0	2	29	1.03
30282407--30282444	20	1.9	20	89	10	60	73	5	2	18	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30283403--30283891	50	9.8	50	74	4	353	24	20	22	32	1.98
30283403--30283902	100	5.0	99	85	3	567	25	20	22	31	1.98
30285807--30285845	14	2.8	14	88	7	53	2	15	0	82	0.79
30285832--30285886	20	2.7	20	82	5	65	12	5	5	76	1.13
30285869--30285922	17	3.2	16	84	7	63	12	1	1	83	0.81
30285853--30285924	9	8.0	9	77	11	67	13	1	2	81	0.86
30285853--30285922	37	2.0	37	91	8	119	14	1	2	81	0.88
30289845--30289884	20	2.0	20	85	0	53	52	0	10	37	1.35
30289947--30290025	3	26.3	3	81	14	92	67	0	3	29	1.08
30289964--30290071	9	11.8	9	75	14	60	66	1	5	25	1.23
30290781--30290832	20	2.7	20	85	11	65	76	1	1	19	0.97
30291997--30292139	39	3.6	40	77	16	147	68	0	30	0	1.00
30292226--30292279	28	2.0	28	85	3	74	44	5	7	42	1.55
30295133--30295159	11	2.5	11	100	0	54	37	7	14	40	1.74
30297787--30297817	9	3.4	9	95	0	53	58	0	0	41	0.98
30297960--30298008	3	16.7	3	95	4	91	67	0	0	32	0.91
30298235--30298323	27	3.3	27	88	0	133	16	33	32	16	1.92
30316243--30316338	45	2.1	45	82	3	113	31	26	14	28	1.95
30317787--30317940	28	5.5	28	92	0	236	30	11	26	31	1.91
30318721--30319114	23	17.0	23	74	10	300	26	14	18	40	1.89
30318689--30319114	93	4.6	93	96	0	766	26	14	19	40	1.89
30319109--30319145	2	18.5	2	100	0	74	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30319607--30319840	50	4.8	48	81	10	237	21	31	20	26	1.98
30319649--30319831	50	3.7	49	86	5	255	19	32	21	26	1.97
30319649--30319831	97	1.9	99	87	5	273	19	32	21	26	1.97
30323279--30323315	19	1.9	19	88	0	56	62	18	2	16	1.45
30323548--30323599	20	2.7	19	85	5	61	30	0	7	61	1.24
30323555--30323599	18	2.3	20	85	7	58	35	0	6	57	1.25
30326343--30326416	29	2.6	30	77	12	84	59	0	5	35	1.20
30332641--30332668	6	4.7	6	100	0	56	0	0	50	50	1.00
30335453--30335497	23	1.9	24	86	4	65	35	0	0	64	0.94
30335461--30335503	23	1.9	22	86	13	61	30	0	0	69	0.88

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226