genome.fa.s11.2.7.7.80.10.50.1000.203.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  203  of  210  ( 25152 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)
59853248--59853527	124	2.3	124	86	3	393	30	15	22	31	1.95
59858180--59858213	15	2.3	15	90	5	52	67	5	0	26	1.13
59858453--59858501	22	2.2	22	92	0	80	36	0	28	34	1.58
59860841--59860898	26	2.2	26	81	3	71	63	13	12	10	1.51
59862521--59862554	17	2.0	17	88	0	50	47	2	0	50	1.16
59865859--59865904	18	2.5	18	82	3	56	36	0	2	60	1.09
59871469--59871520	16	3.2	16	76	10	52	36	23	3	36	1.73
59872737--59872778	13	2.9	15	82	13	52	14	7	2	76	1.10
59873436--59873474	20	2.0	20	84	0	51	30	12	12	43	1.81
59875821--59875858	3	12.7	3	100	0	76	34	0	0	65	0.93
59883739--59883789	25	2.0	25	92	0	84	21	15	15	47	1.83
59885678--59885790	47	2.4	45	80	11	120	26	25	3	44	1.70
59888250--59888291	21	2.0	21	86	4	59	28	2	7	61	1.35
59890173--59890219	25	2.0	25	84	16	64	25	2	12	59	1.45
59890922--59890960	16	2.4	16	83	8	53	5	7	41	46	1.55
59895172--59895207	16	2.2	16	90	0	54	30	19	16	33	1.94
59895566--59895604	15	2.6	15	84	8	53	66	2	2	28	1.18
59900373--59900404	4	8.2	4	93	6	57	50	0	0	50	1.00
59901072--59901105	9	3.7	9	96	4	59	23	8	20	47	1.78
59901528--59901560	16	2.1	16	100	0	66	36	0	27	36	1.57
59905612--59905668	30	1.9	30	100	0	114	49	15	7	28	1.71
59907750--59907792	12	3.6	12	87	0	59	65	16	0	18	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59909244--59909274	14	2.3	14	94	5	55	16	0	6	77	0.97
59910166--59910196	11	2.8	11	95	0	53	41	9	25	22	1.84
59912686--59912718	17	1.9	17	100	0	66	42	9	0	48	1.35
59913734--59913760	2	13.5	2	100	0	54	51	0	0	48	1.00
59913923--59914015	33	2.8	33	95	0	168	44	26	0	29	1.55
59916175--59916369	107	1.8	107	92	0	327	31	23	14	31	1.94
59918738--59918789	3	18.7	3	74	21	51	67	0	0	32	0.91
59918742--59918782	5	8.2	5	80	20	50	63	0	0	36	0.95
59918735--59918789	16	3.7	15	80	20	71	67	0	0	32	0.91
59918735--59918768	8	4.4	8	96	3	61	64	0	0	35	0.94
59921079--59921117	18	2.2	17	86	13	53	33	0	20	46	1.51
59921343--59921395	23	2.3	23	80	0	70	22	16	24	35	1.95
59924245--59924335	45	2.0	45	93	4	157	23	24	5	47	1.72
59927549--59927577	2	14.5	2	100	0	58	51	0	0	48	1.00
59927883--59927923	17	2.5	17	80	11	50	34	0	0	65	0.93
59928803--59928907	34	3.1	34	80	5	115	30	20	19	30	1.96
59929342--59929401	10	6.6	9	71	17	52	71	8	5	15	1.27
59929342--59929382	18	2.3	19	83	8	59	70	9	4	14	1.30
59929342--59929401	27	2.2	28	85	8	79	71	8	5	15	1.27
59929422--59929482	3	20.3	3	100	0	122	67	0	0	32	0.91
59929480--59929529	22	2.3	22	89	3	75	54	0	0	46	1.00
59930623--59930672	16	3.3	15	76	20	50	38	2	8	52	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59941772--59941843	19	3.7	19	76	12	67	27	4	2	65	1.25
59941783--59941859	28	2.8	26	73	9	66	22	6	3	67	1.30
59942314--59942343	12	2.5	12	94	0	51	20	0	0	80	0.72
59949317--59949346	15	1.9	16	93	6	53	63	0	0	36	0.95
59950087--59950232	73	2.0	73	98	0	283	46	13	8	32	1.72
59956414--59956475	30	2.1	30	84	0	79	46	9	4	38	1.58
59960829--59960886	2	28.5	2	96	3	107	48	0	1	50	1.11
59962384--59962437	23	2.3	23	78	12	58	12	11	25	50	1.74
59965373--59965461	44	2.0	44	100	0	178	22	22	11	43	1.84
59966044--59966102	29	2.0	29	86	0	82	23	8	10	57	1.59
59969628--59969664	12	3.0	12	88	4	56	67	0	0	32	0.91
59970000--59970085	41	2.1	41	100	0	172	45	13	20	19	1.85
59976877--59976925	24	2.0	24	84	0	62	65	2	10	22	1.34
59976985--59977055	34	2.0	36	91	5	119	32	11	5	50	1.61
59983547--59983591	19	2.5	19	82	7	58	51	2	0	46	1.13
59983563--59983602	15	2.8	14	81	7	53	47	5	2	45	1.38
59985647--59985693	17	2.7	18	83	9	53	74	2	0	23	0.93
59985632--59985694	13	4.8	13	75	21	53	73	1	0	25	0.93
59988521--59988558	19	2.0	20	89	5	60	44	0	0	55	0.99
59997145--59997178	9	3.7	9	84	7	50	64	0	0	35	0.94
60000078--60000109	7	4.6	7	92	0	55	78	0	0	21	0.76
60000078--60000112	14	2.5	14	95	0	61	77	0	0	22	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60000514--60000579	28	2.4	28	85	10	82	37	9	3	50	1.50
60001026--60001092	18	3.6	19	78	8	66	52	1	10	35	1.45
60001061--60001101	19	2.1	19	86	4	55	53	0	9	36	1.34
60001426--60001496	37	1.9	37	100	0	142	49	0	11	39	1.39
60001432--60001500	19	3.7	19	82	5	97	52	0	10	37	1.36
60001575--60001653	27	2.9	27	90	3	124	17	31	21	29	1.96
60001943--60002003	32	2.0	32	83	6	81	39	4	4	50	1.45
60002183--60002223	14	3.1	14	80	20	61	41	9	0	48	1.36
60005827--60005858	6	5.3	6	100	0	64	46	34	18	0	1.49
60029910--60029957	20	2.3	20	89	10	71	62	2	0	35	1.07
60031956--60032011	20	2.8	21	74	15	55	25	3	5	66	1.29
60034801--60034853	2	26.5	2	96	0	97	50	0	0	49	1.00
60038241--60038292	15	3.5	15	89	0	77	34	3	1	59	1.27
60038240--60038296	5	11.4	5	80	0	69	35	3	1	59	1.25
60038483--60038529	22	2.1	22	85	14	62	68	8	23	0	1.17
60039608--60039690	21	4.0	19	77	13	67	16	22	25	34	1.95
60048992--60049018	2	13.5	2	100	0	54	51	0	0	48	1.00
60052969--60053078	55	2.0	55	100	0	220	38	21	10	29	1.88
60056075--60056119	3	15.0	3	100	0	90	66	0	0	33	0.92
60057092--60057133	20	2.0	21	86	4	59	52	9	2	35	1.47
60057899--60057965	34	1.9	35	87	3	100	44	14	8	31	1.76
60059992--60060031	19	2.1	19	85	4	53	67	0	2	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60065921--60065987	33	2.0	33	91	0	107	28	13	11	46	1.79
60066487--60066542	21	2.7	21	91	0	94	25	8	37	28	1.86
60078706--60078757	18	3.0	17	76	18	54	50	5	9	34	1.59
60082347--60082403	28	2.0	28	100	0	114	57	14	7	21	1.60
60085344--60085377	16	2.1	16	88	0	50	58	2	0	38	1.13
60089707--60089769	18	3.6	18	82	4	83	25	31	19	23	1.98
60089709--60089763	17	3.2	16	84	7	65	25	30	18	25	1.98
60089697--60089769	35	2.2	33	85	9	94	24	30	20	24	1.99
60089802--60089863	18	3.6	18	77	16	76	24	32	20	22	1.98
60089906--60090002	18	5.6	18	77	11	112	23	29	20	25	1.99
60089837--60090066	70	3.3	70	71	15	249	24	28	19	27	1.98
60089912--60090002	34	2.6	35	82	8	123	23	28	20	27	1.99
60089771--60090187	121	3.4	121	81	8	510	24	27	19	28	1.98
60090046--60090123	34	2.3	35	93	2	131	24	30	19	25	1.98
60090045--60090123	17	4.6	18	78	9	101	24	31	18	25	1.98
60090166--60090211	18	2.6	18	89	0	74	23	32	21	21	1.98
60090080--60090253	88	2.0	87	95	1	312	24	28	18	28	1.98
60091302--60091339	6	6.3	6	93	0	67	2	0	50	47	1.15
60105541--60105589	18	2.7	18	87	9	73	63	0	0	36	0.95
60108459--60108486	3	9.3	3	100	0	56	32	32	0	35	1.58
60108527--60108570	4	11.0	4	100	0	88	25	0	25	50	1.50
60116945--60116989	18	2.7	17	77	22	51	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60116993--60117191	92	2.2	93	94	1	357	44	3	6	46	1.43
60116896--60117322	214	2.0	214	95	0	766	45	3	5	45	1.43
60117285--60117608	29	10.8	29	64	23	102	49	3	4	43	1.39
60117280--60117324	18	2.7	17	77	22	51	55	0	0	44	0.99
60117084--60117695	122	5.0	122	96	0	1046	47	3	5	43	1.44
60118423--60118485	21	3.0	21	83	2	74	36	23	23	15	1.94
60118457--60118531	23	3.4	22	78	7	80	36	18	21	24	1.95
60118873--60118904	16	1.9	17	93	6	57	25	21	0	53	1.46
60119936--60119973	18	2.0	19	90	10	60	47	5	0	47	1.24
60119936--60119982	19	2.5	20	80	16	55	44	4	2	48	1.34

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