genome.fa.s8.2.7.7.80.10.50.1000.45.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  45  of  190  ( 22705 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)
12489721--12489777	26	2.2	26	93	0	96	42	10	17	29	1.83
12492374--12492398	12	2.1	12	100	0	50	24	16	8	52	1.70
12501779--12501948	73	2.3	73	90	0	268	28	21	24	25	1.99
12501667--12502362	187	3.8	188	82	7	847	28	21	24	25	1.99
12501848--12502053	114	1.8	114	91	2	342	26	20	25	26	1.99
12502137--12502314	73	2.4	73	92	1	286	28	21	25	25	1.99
12502272--12502593	104	3.0	104	82	8	373	27	21	26	25	1.99
12502375--12502648	115	2.4	116	90	1	435	24	20	28	26	1.99
12502547--12502710	74	2.2	73	92	1	265	25	21	25	27	2.00
12502720--12502771	8	6.0	9	84	15	74	32	0	0	67	0.91
12502706--12502759	25	2.2	25	89	0	81	31	1	1	64	1.14
12502720--12502772	17	3.1	16	89	10	79	33	0	0	66	0.92
12502720--12502764	4	10.8	4	86	9	63	31	0	0	68	0.89
12503123--12503155	14	2.3	15	94	5	59	30	0	33	36	1.58
12503647--12503674	13	2.2	13	100	0	56	57	0	7	35	1.26
12507478--12507764	43	6.7	43	87	1	380	23	20	29	26	1.99
12513127--12513308	50	3.6	50	87	0	256	21	31	22	24	1.98
12515385--12515526	75	1.9	75	94	0	248	21	17	23	38	1.93
12521379--12521404	12	2.2	12	100	0	52	53	7	0	38	1.30
12524356--12524418	32	1.9	33	93	3	110	44	19	3	33	1.66
12526977--12527164	68	2.8	68	88	2	261	27	23	12	36	1.91
12529417--12529460	22	2.0	23	90	4	72	6	31	40	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12529926--12530038	51	2.2	51	98	1	219	37	18	7	36	1.80
12541293--12541326	17	2.1	16	89	10	52	11	32	0	55	1.36
12542538--12542713	87	2.0	87	93	0	298	18	31	14	35	1.91
12543121--12543190	16	4.4	16	92	0	95	32	0	34	32	1.58
12543169--12543278	45	2.6	45	80	9	133	34	5	28	31	1.80
12543400--12543454	25	2.2	25	84	9	69	52	1	0	45	1.11
12554637--12554673	16	2.2	17	90	4	58	13	2	0	83	0.74
12557303--12557331	8	3.6	8	100	0	58	37	27	0	34	1.57
12558512--12558550	17	2.3	17	86	8	53	41	15	5	38	1.69
12562854--12562907	15	3.4	15	73	14	54	42	18	1	37	1.61
12562849--12562915	33	2.0	33	94	0	116	43	17	2	35	1.65
12562848--12562895	15	2.9	16	75	12	53	41	16	4	37	1.68
12565525--12565559	16	2.2	16	94	0	61	40	0	2	57	1.14
12569612--12569731	59	2.0	59	100	0	240	30	15	20	33	1.94
12572817--12572946	59	2.2	60	80	6	158	47	3	23	24	1.68
12573260--12573303	21	2.1	21	95	0	79	50	34	15	0	1.45
12583208--12583256	3	16.3	3	100	0	98	32	0	0	67	0.91
12586857--12586916	15	4.1	15	73	18	63	46	5	0	48	1.24
12595466--12595493	12	2.3	12	100	0	56	39	14	0	46	1.44
12600224--12600416	50	3.8	50	90	0	296	20	31	22	24	1.98
12600754--12600811	30	1.9	30	85	0	80	27	25	10	36	1.89
12603539--12603604	22	3.0	22	93	0	105	33	15	25	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12610926--12611028	54	1.9	54	89	0	161	30	17	26	26	1.97
12610951--12611064	56	2.1	54	81	3	129	33	19	21	25	1.97
12611730--12611777	18	2.7	18	93	0	69	33	25	27	14	1.94
12613988--12614047	25	2.2	27	80	17	79	46	1	8	43	1.43
12613998--12614046	25	1.9	26	95	4	91	44	0	10	44	1.37
12614224--12614413	18	9.8	17	75	18	103	64	2	11	21	1.38
12614219--12614416	39	5.0	39	85	10	221	65	2	11	21	1.36
12614168--12614422	5	49.2	5	69	22	95	63	1	12	22	1.39
12614419--12614444	7	3.7	7	100	0	52	57	0	0	42	0.98
12614241--12614457	102	2.1	100	85	7	285	63	2	10	23	1.37
12615064--12615103	20	2.0	20	95	0	71	45	15	2	37	1.59
12626582--12626615	17	2.0	17	94	0	59	41	2	29	26	1.70
12630830--12630867	17	2.2	17	100	0	76	39	5	28	26	1.78
12631854--12631948	45	2.2	43	86	3	127	58	4	2	34	1.29
12638460--12638524	32	2.1	32	97	2	123	30	9	12	47	1.72
12638825--12638884	30	2.1	27	81	9	66	26	6	0	66	1.16
12641803--12641827	12	2.1	12	100	0	50	64	16	0	20	1.30
12655920--12655970	25	2.0	25	84	0	66	43	19	3	33	1.70
12659887--12659925	17	2.3	17	86	0	51	41	15	0	43	1.46
12661277--12661371	20	4.8	20	77	7	88	36	7	15	40	1.76
12661247--12661405	59	2.7	58	82	4	169	33	8	17	40	1.79
12661278--12661371	40	2.4	38	81	10	100	37	7	14	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12661277--12661405	57	2.2	60	84	4	165	37	6	16	39	1.75
12661300--12661440	57	2.4	58	81	7	151	38	8	16	36	1.79
12662689--12662736	24	2.0	24	91	0	78	25	20	8	45	1.79
12663729--12663767	20	2.0	20	89	0	60	30	12	12	43	1.81
12668922--12668954	2	16.5	2	100	0	66	51	0	48	0	1.00
12671860--12671886	13	2.1	13	100	0	54	44	7	22	25	1.79
12680559--12680615	23	2.5	23	79	0	69	56	15	12	15	1.68
12689071--12689097	8	3.4	8	100	0	54	66	0	0	33	0.92
12689020--12689090	29	2.4	30	79	6	74	61	5	5	26	1.40
12695391--12695462	32	2.3	32	85	2	92	45	9	9	34	1.70
12701782--12701825	20	2.3	18	84	7	52	43	4	4	47	1.44
12702941--12702966	13	2.0	13	100	0	52	38	0	0	61	0.96
12703920--12703962	21	2.0	21	81	4	50	32	30	2	34	1.71
12706021--12706208	92	2.0	92	97	0	358	29	25	14	30	1.95
12710713--12710762	25	2.0	26	88	4	75	64	12	10	14	1.51
12711471--12711509	20	2.0	20	100	0	78	46	5	0	48	1.24
12720161--12720187	3	9.0	3	100	0	54	33	33	0	33	1.58
12720918--12720949	2	16.0	2	100	0	64	50	0	0	50	1.00
12725679--12725741	24	2.7	24	83	11	78	42	1	3	52	1.27
12725731--12725763	17	2.0	17	88	5	50	36	0	6	57	1.23
12731502--12731551	24	2.1	24	81	7	57	40	8	8	44	1.63
12740847--12740916	36	2.0	35	85	2	95	47	11	20	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12741666--12741714	22	2.3	21	82	3	53	42	2	2	53	1.24
12742958--12742994	19	1.9	19	88	0	56	45	8	5	40	1.56
12744324--12744386	9	7.8	8	77	13	58	12	0	31	55	1.37
12744341--12744386	9	5.2	9	92	2	76	13	0	30	56	1.37
12747214--12747275	16	4.0	16	76	14	58	3	24	0	72	0.99
12749018--12749099	27	3.0	27	77	7	83	24	8	3	63	1.39
12757599--12757630	12	2.8	12	95	4	57	31	6	0	62	1.20
12762749--12762819	36	2.0	36	97	0	133	35	8	16	39	1.79
12764124--12764162	19	2.1	19	100	0	78	66	5	23	5	1.32
12767793--12767873	3	27.0	3	97	0	153	67	0	32	0	0.91
12768039--12768085	23	2.0	23	100	0	94	44	8	4	42	1.54
12775317--12775381	34	1.9	34	90	0	103	36	3	3	56	1.30
12777688--12777815	22	5.9	22	77	0	114	28	14	25	31	1.94
12778175--12778272	48	2.0	48	94	0	169	29	17	22	30	1.96
12782688--12782755	35	2.0	35	82	8	86	25	10	14	50	1.74
12796743--12796781	21	1.9	19	85	10	51	25	17	23	33	1.96
12799250--12799274	12	2.1	12	100	0	50	36	8	16	40	1.77
12806785--12806816	14	2.3	14	100	0	64	43	25	6	25	1.77
12812537--12812594	24	2.2	25	79	14	64	70	3	12	13	1.28
12812552--12812604	24	2.2	24	96	3	99	67	7	13	11	1.40
12812552--12812616	24	2.8	24	90	4	89	67	7	10	13	1.41
12813133--12813185	24	2.1	26	83	13	67	67	11	9	11	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12814188--12814260	31	2.4	31	88	0	101	42	30	5	21	1.76
12817577--12817631	27	2.0	27	86	6	76	9	16	14	60	1.59
12822726--12822765	2	20.0	2	94	0	71	47	0	0	52	1.00
12844647--12844689	5	8.6	5	80	10	52	20	0	2	76	0.89
12850055--12850149	48	2.0	48	85	0	127	43	20	14	22	1.88
12850447--12850518	36	2.0	36	89	2	110	31	26	8	33	1.86
12855244--12855338	48	2.0	48	87	0	136	45	22	13	18	1.85
12855636--12855707	36	2.0	36	89	2	110	31	26	8	33	1.86
12857448--12857489	20	2.1	20	100	0	84	33	14	0	52	1.42
12861845--12861962	61	1.9	61	96	0	218	43	16	16	24	1.87

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