genome.fa.s9.2.7.7.80.10.50.1000.88.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  88  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)
31089619--31089657	18	2.2	17	86	13	53	46	20	0	33	1.51
31107815--31107841	6	4.5	6	100	0	54	70	14	14	0	1.17
31111673--31111728	28	2.0	29	89	6	89	44	5	0	50	1.25
31112239--31112301	19	3.3	19	68	0	63	46	3	9	41	1.52
31113072--31113137	30	2.3	30	92	5	109	50	3	16	30	1.61
31113297--31113327	9	3.4	9	90	0	53	25	12	22	38	1.90
31113381--31113417	9	4.1	9	92	0	65	45	13	10	29	1.77
31114799--31114836	20	1.9	19	94	5	67	39	2	0	57	1.12
31115770--31115998	104	2.3	96	79	10	248	43	8	22	25	1.82
31115797--31116004	103	2.0	105	86	1	294	44	9	21	25	1.81
31116241--31116381	74	1.9	74	82	5	178	41	12	16	30	1.84
31116315--31116447	60	2.2	60	86	2	187	42	15	17	24	1.88
31116402--31116494	47	2.0	47	86	0	132	39	13	20	25	1.90
31132737--31132874	57	2.3	60	83	12	169	21	25	21	31	1.98
31136094--31136131	20	1.9	20	84	10	51	42	21	23	13	1.88
31140060--31140139	33	2.5	32	80	10	90	13	38	26	21	1.90
31141787--31141965	50	3.6	51	88	3	265	19	29	23	27	1.98
31146749--31146778	15	2.0	15	93	0	51	23	3	6	66	1.30
31148391--31148429	19	2.1	19	100	0	78	38	30	0	30	1.58
31148951--31149021	22	3.2	22	65	31	60	22	21	14	42	1.88
31148835--31149102	45	5.9	45	86	3	288	21	19	15	44	1.87
31148842--31149170	45	7.3	44	81	8	224	22	19	15	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31153593--31153631	19	2.1	19	85	9	53	35	7	7	48	1.61
31154895--31155027	60	2.2	61	80	7	146	41	12	5	41	1.64
31155668--31155877	52	4.0	52	87	1	267	25	14	20	40	1.90
31155668--31155877	107	2.0	104	83	2	267	25	14	20	40	1.90
31161185--31161289	6	17.7	6	82	3	124	49	0	15	34	1.51
31161523--31161562	17	2.4	17	95	0	71	57	0	5	37	1.21
31161536--31161574	18	2.2	17	86	4	51	64	0	5	30	1.15
31161957--31162002	23	2.0	23	91	0	74	41	21	8	28	1.83
31166188--31166393	93	2.3	92	84	4	265	57	11	5	25	1.55
31166217--31166393	93	1.9	93	91	0	291	57	12	5	24	1.55
31173410--31173456	3	15.7	3	100	0	94	65	0	0	34	0.93
31174349--31174373	13	1.9	13	100	0	50	80	0	8	12	0.92
31174415--31174481	17	4.0	17	74	12	59	55	0	4	40	1.20
31174418--31174476	17	3.4	17	75	9	64	55	0	3	40	1.16
31174577--31174623	20	2.3	20	85	0	67	55	0	8	36	1.31
31174466--31174639	54	3.2	53	71	21	164	51	3	9	35	1.52
31175655--31175690	18	2.0	18	100	0	72	16	11	11	61	1.57
31175656--31175699	18	2.4	18	92	0	70	15	13	9	61	1.56
31176258--31176395	44	3.1	45	89	3	183	26	23	20	28	1.99
31176280--31176395	44	2.6	44	94	0	196	26	27	18	27	1.98
31176347--31176999	132	4.9	131	88	1	925	28	22	18	29	1.98
31177054--31177197	44	3.3	44	70	3	119	20	23	31	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31176982--31177209	88	2.6	88	89	2	348	19	24	26	29	1.99
31185610--31185650	20	2.0	20	85	9	55	36	0	2	60	1.10
31185641--31185701	29	2.1	29	87	6	88	54	3	0	42	1.17
31187885--31188156	43	6.4	43	85	4	356	33	21	22	22	1.98
31187887--31188156	85	3.2	84	87	4	391	32	21	22	22	1.98
31188612--31188683	21	3.4	21	90	0	108	1	44	19	34	1.59
31204777--31205027	9	28.8	9	70	15	170	30	2	20	45	1.65
31204766--31204870	25	4.2	26	74	16	78	32	3	19	44	1.68
31204904--31205021	16	7.3	16	73	17	86	28	0	20	50	1.54
31204804--31204957	62	2.6	58	81	7	173	31	2	20	44	1.65
31204781--31204998	25	8.5	25	74	12	149	30	2	20	45	1.65
31205101--31205155	16	3.7	16	69	18	55	34	1	18	45	1.60
31205103--31205172	28	2.5	28	88	2	104	35	2	17	44	1.63
31205359--31205400	13	3.2	13	86	0	57	47	2	9	40	1.49
31208988--31209021	2	17.0	2	100	0	68	50	0	0	50	1.00
31209909--31210003	41	2.3	41	81	1	111	38	25	15	20	1.92
31210748--31210807	30	2.0	31	83	3	77	20	38	1	40	1.62
31210891--31210921	16	1.9	16	93	0	53	29	29	0	41	1.56
31214822--31214855	2	17.0	2	100	0	68	50	0	0	50	1.00
31217853--31217885	12	2.8	12	90	0	57	39	0	6	54	1.25
31219255--31219279	8	3.1	8	100	0	50	24	12	0	64	1.27
31219394--31219418	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31242073--31242129	30	1.9	30	89	3	89	40	3	24	31	1.72
31242342--31242372	13	2.4	13	94	0	53	32	0	12	54	1.38
31242467--31242708	50	4.7	50	86	3	286	27	23	28	19	1.99
31242467--31242716	100	2.4	103	87	5	353	26	23	28	20	1.99
31252469--31252654	50	3.7	50	87	0	255	26	25	30	17	1.97
31257989--31258038	24	2.2	22	82	13	57	68	0	12	20	1.21
31259004--31259069	26	2.6	26	82	2	80	19	24	19	36	1.95
31261329--31261371	16	2.9	15	86	13	54	46	0	2	51	1.13
31267983--31268027	17	2.6	17	92	0	72	13	51	22	13	1.75
31269250--31269304	21	2.6	21	76	0	65	45	14	18	21	1.85
31271236--31271296	30	2.0	30	93	6	106	29	0	49	21	1.50
31272877--31272936	27	2.2	27	96	0	111	31	20	20	28	1.97
31282232--31282272	20	2.1	20	86	4	57	48	0	7	43	1.30
31289715--31289743	2	14.5	2	100	0	58	51	0	0	48	1.00
31289864--31289915	12	4.2	13	76	16	56	46	1	5	46	1.38
31289860--31289920	24	2.3	27	83	13	83	45	1	4	47	1.34
31290686--31290730	21	2.1	21	87	0	63	53	13	2	31	1.52
31295895--31295924	12	2.5	12	94	0	51	10	43	20	26	1.83
31301926--31301966	20	2.0	21	95	4	75	53	0	2	43	1.13
31306387--31306430	19	2.3	19	80	0	52	25	6	4	63	1.38
31312870--31312928	29	2.0	30	86	3	84	57	13	1	27	1.46
31315844--31315875	15	2.1	15	94	0	55	75	3	15	6	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31319580--31319633	26	2.0	29	85	10	78	9	14	11	64	1.48
31320379--31320450	25	2.9	25	87	2	92	18	23	20	37	1.94
31324155--31324186	16	2.1	16	94	5	57	78	3	12	6	1.06
31327235--31327266	6	5.3	6	100	0	64	68	0	0	31	0.90
31327345--31327392	25	1.9	25	83	8	62	52	0	0	47	1.00
31329537--31329577	22	1.9	22	85	5	57	43	4	7	43	1.53
31336748--31336803	22	2.5	23	82	2	69	51	1	1	44	1.22
31336779--31336818	16	2.5	16	91	0	62	47	2	7	42	1.45
31336891--31336918	9	3.1	9	100	0	56	32	0	10	57	1.33
31336807--31337016	68	3.1	68	96	1	379	40	5	8	45	1.57
31336959--31336986	9	3.1	9	100	0	56	32	0	10	57	1.33
31337083--31337128	24	1.9	24	91	8	76	60	2	0	36	1.09
31337825--31337898	33	2.3	31	82	13	87	24	31	1	43	1.63
31337825--31337900	11	7.0	11	76	19	72	25	30	1	43	1.63
31339135--31339160	7	3.7	7	100	0	52	26	0	15	57	1.38
31339516--31339551	17	2.1	17	94	0	63	25	22	25	27	2.00
31340341--31340596	25	10.8	25	71	17	197	38	0	13	48	1.42
31340296--31340637	70	4.9	70	81	9	444	37	0	12	49	1.41
31340366--31340584	116	1.9	116	95	0	395	36	0	13	49	1.42
31340279--31340500	45	4.8	45	85	8	313	36	0	13	50	1.41
31343813--31344190	125	3.0	125	86	3	589	29	22	17	29	1.97
31347039--31347240	42	4.8	43	88	7	281	23	19	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31347546--31347616	21	3.4	21	86	0	97	2	47	18	30	1.63
31349326--31349368	21	2.0	21	100	0	86	39	13	23	23	1.90
31353172--31353598	51	8.3	51	93	1	705	33	0	20	45	1.51
31353172--31353605	205	2.1	203	93	2	760	33	0	20	45	1.51
31354736--31354821	31	2.7	32	85	5	113	40	23	17	18	1.91
31356695--31356756	22	2.7	23	83	14	67	38	1	3	56	1.25
31357553--31357629	39	2.0	40	85	12	106	38	37	2	20	1.67
31358374--31358591	114	1.9	112	80	8	253	23	24	24	26	2.00
31358535--31358714	72	2.5	71	81	8	215	21	22	25	30	1.99
31358535--31358729	71	2.7	72	81	9	222	22	23	24	29	1.99

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