genome.fa.s2.2.7.7.80.10.50.1000.192.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  192  of  206  ( 24623 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)
58140911--58140950	20	2.0	21	85	14	57	62	0	2	35	1.09
58141487--58141529	21	2.0	21	90	0	68	39	4	18	37	1.72
58142517--58142554	2	19.0	2	100	0	76	50	0	0	50	1.00
58147286--58147325	2	20.0	2	94	0	71	52	0	0	47	1.00
58147985--58148042	22	2.6	22	81	7	64	41	17	5	36	1.72
58149074--58149105	16	2.0	16	93	0	55	28	0	15	56	1.40
58155017--58155071	2	27.5	2	100	0	110	50	0	0	49	1.00
58171854--58171891	18	2.1	18	85	9	51	13	15	10	60	1.59
58176923--58176953	15	2.1	15	100	0	62	32	12	12	41	1.81
58177263--58177626	181	2.0	181	95	0	647	28	23	20	27	1.99
58180438--58180548	19	5.8	19	93	0	168	36	18	10	35	1.85
58182374--58182401	13	2.2	13	100	0	56	46	0	0	53	1.00
58184712--58184746	17	2.1	17	94	0	61	45	34	2	17	1.63
58188112--58188141	11	2.7	11	94	0	51	60	10	0	30	1.30
58197764--58198043	94	2.9	97	79	11	238	29	11	7	51	1.67
58197867--58198043	94	1.9	95	91	2	295	30	12	9	46	1.74
58200277--58200328	23	2.2	24	82	6	61	38	19	3	38	1.70
58200377--58200416	2	20.0	2	89	0	62	50	5	0	45	1.23
58200439--58200492	26	2.1	26	82	0	63	42	7	3	46	1.49
58207392--58207490	23	4.3	23	90	0	153	32	27	20	20	1.97
58210078--58210128	10	5.1	10	79	9	59	84	3	11	0	0.75
58210077--58210128	6	8.0	6	80	16	50	82	3	13	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58210077--58210120	16	2.6	17	82	7	54	81	4	13	0	0.83
58210077--58210128	14	3.9	13	79	20	63	82	3	13	0	0.80
58211078--58211803	45	16.3	45	79	7	712	27	16	25	30	1.97
58213679--58213730	23	2.2	24	82	6	61	36	19	5	38	1.76
58213892--58213941	26	1.9	26	83	0	64	44	8	2	46	1.44
58216815--58216851	8	4.8	8	83	16	51	0	0	13	86	0.57
58228298--58228465	10	17.1	9	75	15	68	61	0	0	38	1.01
58228297--58228496	11	19.9	11	73	16	134	61	0	1	37	1.03
58228356--58228477	9	12.6	9	70	17	66	65	0	0	34	0.93
58228303--58228456	60	2.6	59	91	4	238	62	0	0	36	1.00
58228374--58228506	38	3.4	39	88	8	189	63	0	0	36	1.00
58231114--58231160	6	7.5	6	90	9	76	68	0	17	14	1.22
58247979--58248166	41	4.6	41	89	0	286	31	16	23	28	1.96
58248673--58248708	2	18.0	2	100	0	72	50	0	0	50	1.00
58254881--58254936	26	2.2	26	96	0	103	33	12	25	28	1.92
58259408--58259467	2	30.0	2	96	0	111	1	0	48	50	1.11
58261624--58261695	22	3.3	22	94	0	117	30	16	27	25	1.97
58261755--58262007	46	5.6	46	92	2	415	33	14	22	29	1.94
58261755--58262007	91	2.8	91	92	1	420	33	14	22	29	1.94
58274522--58274579	3	19.0	3	80	16	66	32	1	3	62	1.22
58274494--58274578	22	3.8	22	79	14	84	31	2	4	61	1.29
58274519--58274593	11	6.5	11	77	22	59	33	4	2	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58274519--58274580	14	4.4	14	76	17	65	33	1	3	61	1.22
58274672--58274711	2	20.0	2	100	0	80	50	0	0	50	1.00
58275968--58276027	30	2.0	30	83	3	75	41	0	38	20	1.52
58291248--58291320	25	2.9	25	82	8	76	21	21	19	36	1.95
58296547--58296574	13	2.2	13	100	0	56	53	25	14	7	1.66
58298884--58298915	15	2.1	15	94	5	55	62	6	0	31	1.20
58299476--58299517	15	2.8	15	88	0	57	30	2	14	52	1.54
58303554--58303610	28	2.0	28	96	0	105	43	28	10	17	1.82
58320754--58320796	18	2.4	18	88	0	59	46	0	2	51	1.13
58324364--58324399	5	7.2	5	100	0	72	38	22	0	38	1.54
58327588--58327624	18	2.1	18	89	0	56	21	5	13	59	1.54
58329858--58329888	16	2.0	15	93	6	53	12	9	12	64	1.50
58333227--58333260	3	11.3	3	100	0	68	32	0	0	67	0.91
58334463--58334527	32	2.0	32	87	0	94	38	9	20	32	1.84
58336964--58336990	1	27.0	1	100	0	54	100	0	0	0	0.00
58336988--58337017	4	7.8	4	92	7	53	76	0	23	0	0.78
58352779--58352812	9	3.8	9	92	0	59	73	0	14	11	1.10
58357240--58357266	3	9.0	3	100	0	54	33	0	33	33	1.58
58358346--58358376	5	6.2	5	100	0	62	41	0	58	0	0.98
58363016--58363325	156	2.0	156	90	0	494	40	13	12	33	1.83
58363364--58363399	12	3.1	11	88	11	54	33	19	2	44	1.65
58364067--58364116	16	3.2	16	88	5	84	34	26	6	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58364066--58364111	15	3.0	15	90	3	74	34	30	6	28	1.82
58366984--58367011	14	2.0	14	100	0	56	35	14	21	28	1.92
58374432--58374482	23	2.2	23	92	0	84	45	21	5	27	1.75
58378985--58379295	33	8.7	33	70	23	186	21	19	27	31	1.97
58379018--58379154	42	3.5	42	75	17	166	21	16	27	34	1.95
58378980--58379156	75	2.4	75	95	0	327	20	18	28	32	1.96
58379055--58379259	102	2.0	104	94	1	360	20	19	27	31	1.97
58389283--58389313	14	2.2	14	94	0	53	48	12	0	38	1.42
58392004--58392054	5	9.6	5	91	8	75	76	5	0	17	0.98
58392846--58392983	69	2.0	69	98	0	267	31	27	22	18	1.97
58393782--58393858	20	3.9	20	73	19	72	74	5	1	19	1.08
58396800--58396862	31	2.0	31	100	0	126	38	19	9	33	1.84
58401186--58401216	14	2.2	14	94	0	53	48	12	0	38	1.42
58402043--58402153	30	3.7	30	87	0	150	12	27	39	19	1.88
58402829--58402872	22	2.0	23	86	8	65	40	20	4	34	1.73
58402828--58402875	21	2.2	21	82	13	62	41	18	4	35	1.70
58403465--58403507	22	2.0	22	90	0	68	11	20	25	41	1.86
58403711--58403765	9	6.1	9	86	0	74	3	29	41	25	1.72
58403711--58403765	27	2.0	27	93	6	94	3	29	41	25	1.72
58409446--58409514	16	4.1	16	85	5	84	31	0	20	47	1.50
58409446--58409499	9	6.4	9	81	14	71	29	0	22	48	1.51
58409551--58409592	22	1.9	22	85	0	57	33	7	14	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58409573--58409667	9	10.6	9	73	17	81	34	1	17	46	1.56
58409573--58409667	16	5.3	18	74	15	81	34	1	17	46	1.56
58409618--58409692	22	3.6	21	76	23	79	36	1	17	45	1.57
58409694--58409830	69	2.0	69	95	0	247	48	4	5	42	1.45
58409732--58409782	21	2.3	23	80	16	54	54	0	5	39	1.24
58411142--58411178	13	2.8	13	100	0	74	37	0	8	54	1.30
58411924--58411967	24	1.9	22	90	9	70	20	0	43	36	1.52
58412687--58412727	19	2.1	20	82	13	50	46	0	4	48	1.23
58413140--58413246	22	4.6	22	81	14	117	35	44	0	19	1.51
58413140--58413198	7	7.9	7	78	14	64	32	50	0	16	1.46
58413794--58413948	41	3.8	41	72	17	117	39	28	16	16	1.89
58413817--58413948	41	3.2	41	72	13	119	38	27	17	16	1.91
58425283--58425355	5	14.6	5	78	15	55	19	5	0	75	0.99
58433040--58433123	20	4.2	20	84	3	98	42	22	26	8	1.81
58433286--58433322	2	18.0	2	94	5	65	48	2	0	48	1.15
58433413--58433437	2	12.5	2	100	0	50	52	0	0	48	1.00
58440956--58440995	15	2.7	15	84	0	53	17	0	7	75	1.03
58446608--58446751	47	3.1	47	67	16	129	44	1	4	49	1.32
58446578--58446783	91	2.3	91	92	0	331	45	2	4	47	1.37
58446698--58446758	28	2.2	28	85	5	81	45	0	3	50	1.17
58446616--58446758	44	3.2	43	69	20	121	46	1	4	48	1.30
58446788--58447000	56	3.6	57	69	20	152	40	3	4	51	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58446837--58447037	66	3.2	64	68	19	188	40	3	6	48	1.47
58446937--58446977	15	2.8	15	82	10	50	43	0	2	53	1.13
58446799--58447098	122	2.5	121	91	3	498	42	2	5	49	1.40
58447042--58447076	18	2.0	17	88	5	52	45	0	0	54	0.99
58447309--58447347	16	2.4	16	86	0	51	28	33	2	35	1.71
58447322--58447378	16	3.6	16	95	0	87	33	36	0	29	1.58
58449582--58449755	44	3.9	44	86	0	213	27	24	17	30	1.97
58449848--58450110	50	5.3	50	78	3	271	27	19	19	33	1.96
58449848--58450145	50	6.0	50	77	2	258	27	20	20	31	1.97
58449848--58450145	100	3.0	100	87	2	420	27	20	20	31	1.97

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