genome.fa.s5.2.7.7.80.10.50.1000.90.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  90  of  208  ( 24913 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)
26593561--26593609	18	2.6	19	81	9	57	46	0	0	53	1.00
26594435--26594500	13	5.0	12	72	18	51	46	1	9	42	1.44
26594435--26594514	41	2.0	41	100	0	160	48	2	7	41	1.45
26595705--26595737	11	3.1	11	86	4	50	90	0	9	0	0.44
26597380--26597420	20	2.0	20	100	0	82	29	21	14	34	1.93
26599737--26599788	20	2.6	20	93	0	95	21	26	0	51	1.47
26614592--26614945	33	10.5	33	70	23	172	31	28	20	19	1.97
26614694--26614745	27	1.9	27	96	0	95	28	32	25	13	1.93
26614619--26614950	102	3.3	102	92	0	540	31	28	20	20	1.97
26621621--26621941	33	9.7	33	69	21	167	31	27	21	19	1.98
26621658--26621881	101	2.2	102	89	1	351	31	27	21	20	1.98
26621833--26621943	27	3.9	27	83	13	150	30	27	24	17	1.97
26621802--26621941	60	2.3	60	93	0	235	32	25	23	17	1.97
26627699--26627979	93	3.0	91	89	3	420	44	4	12	38	1.63
26628127--26628167	21	2.0	21	100	0	82	29	21	14	34	1.93
26632042--26633321	645	2.0	646	91	1	2055	36	13	18	31	1.89
26653580--26653641	30	2.1	30	87	6	90	48	11	8	32	1.68
26662382--26662418	18	2.0	19	89	5	58	51	0	43	5	1.24
26668605--26668709	4	26.2	4	76	14	85	72	2	4	20	1.16
26668731--26668853	3	40.7	3	69	15	67	61	4	4	29	1.35
26668731--26668845	11	10.6	10	71	16	56	62	5	3	28	1.33
26668921--26668979	15	4.2	14	77	12	59	69	1	5	23	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26670560--26670661	51	2.0	51	82	0	123	27	19	18	34	1.95
26670472--26671038	194	2.9	194	86	1	751	28	21	20	30	1.98
26670752--26672167	51	28.8	51	76	9	1054	29	24	16	29	1.97
26670953--26672167	97	12.3	99	79	7	852	30	24	16	29	1.96
26670953--26672167	290	4.1	288	79	8	1083	30	24	16	29	1.96
26670966--26672137	148	8.0	149	75	9	528	29	24	16	29	1.96
26672498--26672574	24	3.2	24	92	0	127	32	24	9	33	1.87
26673431--26673606	46	3.7	46	77	7	158	14	24	19	41	1.89
26674032--26674123	15	6.1	14	75	13	78	1	3	15	80	0.90
26674043--26674120	7	10.7	7	85	10	95	1	2	14	82	0.85
26674062--26674106	9	5.3	9	84	15	51	0	4	15	80	0.87
26674033--26674124	23	4.0	23	82	10	100	1	4	14	80	0.92
26679492--26679571	12	6.4	12	75	15	56	63	5	2	28	1.28
26685384--26685443	31	1.9	32	90	6	97	10	25	3	61	1.43
26686815--26686876	28	2.2	28	94	2	108	38	22	24	14	1.91
26687037--26687101	27	2.4	27	92	2	105	33	24	23	18	1.96
26687340--26687429	27	3.3	27	84	0	108	30	13	23	33	1.93
26687407--26687506	27	3.7	27	74	10	89	32	10	22	36	1.87
26687380--26687506	54	2.4	54	75	10	125	30	11	22	35	1.89
26692675--26692744	25	2.8	26	84	6	99	24	22	24	28	1.99
26702299--26702528	43	5.5	41	81	9	250	34	27	15	21	1.94
26702292--26702528	85	2.8	85	90	1	370	34	27	16	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26702299--26702525	42	5.4	42	82	9	266	35	27	15	21	1.94
26707219--26707285	26	2.6	26	85	4	91	31	28	25	14	1.95
26707457--26707892	27	16.2	26	78	11	373	16	17	20	45	1.85
26707457--26707892	54	8.1	53	80	6	416	16	17	20	45	1.85
26707445--26707892	81	5.6	80	80	9	416	17	16	20	45	1.86
26714785--26714843	28	2.1	28	90	0	91	28	25	22	23	1.99
26714899--26714959	26	2.3	26	88	5	88	26	26	29	18	1.98
26715121--26715178	27	2.2	26	81	3	62	20	15	25	37	1.92
26715128--26715432	27	11.3	26	77	12	244	18	17	20	44	1.87
26715128--26715432	54	5.7	54	80	10	295	18	17	20	44	1.87
26715129--26715432	81	3.8	79	82	7	362	18	16	20	44	1.87
26719705--26719769	28	2.3	27	82	7	76	33	23	24	18	1.96
26719933--26719989	22	2.5	22	80	2	60	43	19	21	15	1.87
26720004--26720270	32	8.4	31	78	4	200	36	23	20	19	1.95
26720004--26720270	96	2.8	95	81	5	297	36	23	20	19	1.95
26720563--26720852	81	3.6	80	87	5	397	25	21	18	35	1.95
26720548--26720861	27	11.7	27	82	4	341	25	21	18	34	1.96
26738106--26738297	40	4.8	40	81	3	210	32	27	23	17	1.96
26744593--26744622	12	2.5	12	94	0	51	26	40	23	10	1.86
26747103--26747131	9	3.2	9	100	0	58	44	0	34	20	1.52
26755204--26755504	40	7.6	40	86	0	399	36	29	18	15	1.92
26767253--26767339	43	2.0	43	88	0	129	26	19	1	52	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26767805--26767829	8	3.1	8	100	0	50	36	40	12	12	1.79
26768513--26768547	12	3.0	12	87	4	54	28	8	0	62	1.24
26770275--26770394	59	2.0	60	98	1	233	41	26	5	26	1.76
26775255--26775302	23	2.1	23	92	0	78	25	4	16	54	1.60
26776352--26776391	15	2.8	15	82	17	50	35	0	0	65	0.93
26789990--26790122	50	2.6	51	82	5	171	32	27	15	24	1.96
26789990--26790177	51	3.7	50	81	3	198	30	26	16	26	1.97
26793469--26793515	22	2.1	22	92	0	76	27	29	23	19	1.98
26794818--26794885	27	2.5	27	80	0	73	29	26	14	29	1.95
26794844--26794886	18	2.4	18	88	7	61	27	32	13	25	1.94
26796177--26796216	12	3.6	12	77	19	50	67	0	5	27	1.11
26796177--26796219	11	3.9	11	81	9	52	69	0	4	25	1.07
26797884--26797966	41	2.0	41	83	0	103	31	12	13	43	1.80
26803853--26804393	140	3.9	136	86	5	710	46	5	8	39	1.58
26804371--26804519	76	1.9	77	91	1	246	29	15	8	46	1.76
26811229--26811495	51	5.3	49	75	10	182	26	15	27	30	1.96
26811263--26811513	101	2.5	102	83	5	321	27	16	25	30	1.97
26817226--26817782	138	4.0	138	86	1	796	45	5	8	40	1.59
26817760--26817921	75	2.1	77	82	3	195	29	13	8	48	1.71
26824714--26824765	24	2.2	24	89	0	77	36	3	9	50	1.54
26829863--26829932	25	2.8	25	95	0	122	22	21	21	34	1.97
26830557--26830592	15	2.3	16	90	4	56	61	2	19	16	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26838159--26838206	21	2.3	21	85	0	60	47	0	2	50	1.12
26843116--26843143	6	4.7	6	100	0	56	71	14	0	14	1.15
26843108--26843157	18	2.7	18	78	6	55	74	12	4	10	1.21
26844846--26845246	87	4.6	87	92	0	676	27	22	25	23	1.99
26845254--26845577	128	2.5	128	93	0	549	32	19	23	24	1.98
26847484--26847531	21	2.3	21	85	0	60	47	0	2	50	1.12
26853001--26853035	10	3.4	10	84	7	52	51	0	0	48	1.00
26853428--26853469	20	2.1	20	86	0	57	40	7	0	52	1.29
26854127--26854180	4	13.5	4	88	0	81	48	25	1	24	1.61
26854617--26854657	2	20.5	2	100	0	82	51	0	48	0	1.00
26864038--26864104	33	2.0	34	85	2	91	31	22	20	25	1.98
26864076--26864131	28	2.0	28	100	0	112	28	21	25	25	1.99
26864049--26864131	28	2.7	30	85	9	98	27	22	24	25	2.00
26864244--26864311	26	2.6	26	81	6	84	33	23	20	22	1.97
26868420--26868516	22	4.5	22	74	14	76	28	5	25	40	1.77
26872717--26872767	17	3.1	17	74	23	54	7	25	0	66	1.18
26877250--26877298	23	2.1	23	81	7	55	4	20	2	73	1.10
26877842--26878017	50	3.5	49	76	4	174	22	18	23	35	1.96
26877858--26878046	100	1.9	100	87	4	283	23	19	23	34	1.96
26878144--26878523	44	8.2	44	71	16	223	27	20	17	33	1.96
26878094--26878365	142	1.9	142	94	0	481	28	19	18	33	1.95
26878248--26878522	86	3.0	86	74	16	223	28	20	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26878149--26878523	184	2.0	185	90	1	590	27	20	18	33	1.96
26878336--26878516	98	1.9	96	83	4	238	28	19	17	34	1.95
26878640--26878961	87	3.7	87	91	1	520	23	23	21	31	1.98
26878763--26878899	43	3.2	42	65	13	98	24	20	24	31	1.98
26878644--26878860	45	5.0	43	62	14	122	23	23	22	30	1.99
26881066--26881163	30	3.3	29	82	5	115	13	8	6	72	1.27
26887597--26887939	171	2.0	171	100	0	686	34	15	17	32	1.91
26889757--26889787	15	2.0	16	93	6	55	70	12	6	9	1.31
26895658--26896176	173	3.0	173	97	0	968	30	20	11	36	1.88
26910086--26910140	27	2.0	27	86	6	76	45	0	3	50	1.19

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