genome.fa.s6.2.7.7.80.10.50.1000.155.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  155  of  168  ( 20060 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)
46094806--46094876	31	2.3	31	88	9	101	59	1	1	38	1.15
46094826--46094863	18	2.1	19	95	5	69	63	0	0	36	0.95
46094821--46094864	18	2.2	20	84	15	65	65	0	0	34	0.93
46094816--46094895	42	2.0	40	90	5	124	61	0	1	37	1.04
46094805--46094876	30	2.3	30	86	9	101	58	1	1	38	1.15
46101110--46101294	46	4.0	46	89	2	264	36	8	26	29	1.85
46103945--46104134	46	4.0	46	84	8	229	28	25	8	37	1.85
46125578--46125650	30	2.4	30	84	8	87	39	0	0	60	0.97
46125905--46125981	36	2.2	35	82	11	95	58	0	0	41	0.98
46126517--46126556	21	1.9	21	85	10	55	47	0	0	52	1.00
46126865--46126907	19	2.1	21	87	8	63	23	9	9	58	1.58
46128379--46128434	28	1.9	29	82	13	71	39	0	1	58	1.08
46138530--46138593	19	3.5	18	77	14	60	23	3	3	70	1.16
46138950--46138978	15	1.9	15	100	0	58	82	6	0	10	0.83
46142090--46142132	2	21.5	2	100	0	86	48	0	0	51	1.00
46142878--46143031	25	6.2	25	78	13	167	50	5	7	37	1.52
46142871--46143005	48	2.8	48	100	0	270	50	5	7	36	1.55
46142871--46142988	23	5.0	23	78	13	132	50	6	8	33	1.59
46143431--46143518	37	2.4	37	85	9	117	38	14	12	34	1.84
46148427--46148478	15	3.6	15	80	12	56	44	0	1	53	1.11
46148310--46148599	120	2.4	120	92	5	480	43	2	4	49	1.38
46148556--46148597	15	2.7	16	82	14	52	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46148547--46148588	15	2.9	15	82	10	52	47	0	0	52	1.00
46148542--46148846	156	2.0	156	95	1	549	47	5	2	43	1.42
46148689--46148733	18	2.4	18	85	10	56	46	0	2	51	1.13
46151447--46151483	16	2.3	16	90	0	56	27	2	16	54	1.56
46154815--46154871	30	1.9	30	85	0	78	28	12	8	50	1.69
46161651--46161687	18	2.0	19	89	5	58	45	0	8	45	1.32
46162229--46162281	16	3.4	15	70	10	52	50	0	1	47	1.12
46163434--46163474	18	2.3	18	80	12	50	24	0	2	73	0.96
46163812--46163868	26	2.2	25	81	15	62	73	3	7	15	1.18
46176973--46177042	22	3.1	22	73	18	63	42	0	1	55	1.08
46177104--46177140	19	1.9	19	94	0	65	37	0	0	62	0.96
46177124--46177162	17	2.6	14	84	15	51	38	2	2	56	1.27
46178599--46178703	26	4.1	26	70	23	80	62	0	3	33	1.13
46178680--46178720	3	13.7	3	94	0	73	63	0	2	34	1.08
46189556--46189599	24	1.9	22	86	9	61	43	2	4	50	1.35
46192699--46192725	13	2.1	13	100	0	54	59	0	0	40	0.98
46197896--46197938	23	1.9	22	85	4	59	55	4	0	39	1.20
46199394--46199482	45	2.0	45	91	6	146	34	12	8	43	1.74
46203195--46203231	15	2.5	15	91	4	58	32	8	2	56	1.43
46203419--46203461	21	2.0	22	86	13	63	65	2	2	30	1.18
46206807--46206837	16	1.9	16	93	0	53	35	3	22	38	1.71
46216855--46216919	26	2.4	28	80	12	73	52	3	3	41	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46239479--46239520	17	2.5	17	80	7	50	42	0	0	57	0.99
46239646--46239714	29	2.3	30	82	9	79	33	8	10	47	1.68
46246232--46246279	18	3.1	14	76	23	51	45	0	0	54	0.99
46246232--46246310	32	2.5	31	81	8	79	39	1	2	56	1.21
46271669--46271730	18	3.6	16	73	26	56	62	4	8	24	1.42
46282347--46282398	27	2.0	26	88	3	77	65	1	1	30	1.14
46287874--46288148	147	1.9	147	86	1	390	20	32	8	38	1.83
46296502--46296559	30	1.9	30	86	6	82	50	1	3	44	1.29
46297654--46297720	28	2.4	29	92	5	111	40	7	1	50	1.39
46297720--46297745	8	3.2	8	100	0	52	88	0	0	11	0.52
46297776--46297882	27	4.0	27	92	0	151	26	29	28	14	1.95
46301350--46301393	3	14.7	3	100	0	88	65	0	0	34	0.93
46301746--46301852	27	4.0	27	88	0	151	14	28	27	29	1.96
46301878--46301913	9	3.9	9	88	3	54	0	2	13	83	0.76
46301913--46301982	27	2.5	29	86	6	101	50	1	7	41	1.39
46306731--46308384	549	3.0	548	89	0	2407	20	25	14	38	1.91
46313618--46313903	117	2.4	117	86	1	394	22	29	15	32	1.94
46313589--46313957	117	3.2	117	83	1	373	21	27	14	35	1.93
46316697--46316765	35	2.0	35	88	0	102	31	26	5	36	1.80
46326718--46326767	23	2.2	23	82	13	59	44	10	0	46	1.37
46327196--46327256	31	2.0	31	83	6	79	29	13	11	45	1.78
46331777--46332741	308	3.1	306	88	4	1430	30	10	8	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46331781--46332741	152	6.3	152	87	5	1330	30	9	8	51	1.64
46331780--46332742	460	2.1	458	88	5	1457	30	9	7	51	1.64
46334757--46334815	27	2.2	27	81	6	66	62	5	3	28	1.32
46334775--46334832	27	2.1	27	75	6	55	62	10	1	25	1.37
46336442--46336495	17	3.0	17	80	19	65	64	0	0	35	0.94
46336442--46336495	19	3.0	18	80	15	67	64	0	0	35	0.94
46336443--46336494	9	5.8	9	77	8	61	65	0	0	34	0.93
46337057--46337108	21	2.5	21	100	0	104	42	0	7	50	1.31
46337136--46337181	24	1.9	24	86	0	65	45	0	2	52	1.13
46337377--46337409	13	2.5	13	100	0	66	21	36	6	36	1.78
46337851--46337875	12	2.1	12	100	0	50	44	16	8	32	1.76
46341695--46341807	60	1.9	58	85	3	154	39	5	14	40	1.68
46342072--46342142	30	2.4	29	79	11	74	54	2	0	42	1.14
46344732--46344766	16	2.2	16	90	5	54	65	2	0	31	1.07
46348029--46348123	30	3.2	30	85	10	133	62	0	2	35	1.07
46348069--46348102	17	2.0	17	94	0	59	61	0	0	38	0.96
46353797--46353831	12	2.9	12	86	0	52	74	11	2	11	1.18
46353796--46353847	21	2.5	22	84	9	65	71	15	5	7	1.29
46354332--46354382	24	2.1	24	85	10	68	27	9	1	60	1.39
46354472--46354504	11	2.9	11	95	4	57	45	0	33	21	1.52
46366422--46366539	56	2.0	56	85	6	155	44	0	4	50	1.27
46366464--46366539	19	4.1	19	70	10	66	43	0	3	52	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46366459--46366505	16	2.7	18	78	12	53	46	0	2	51	1.13
46366547--46366579	11	3.1	11	86	4	50	42	0	0	57	0.98
46368685--46368713	3	9.7	3	100	0	58	0	68	31	0	0.89
46377896--46377922	2	13.5	2	100	0	54	48	0	0	51	1.00
46388264--46388328	28	2.3	29	87	12	91	50	4	0	44	1.22
46395899--46395943	23	2.0	23	86	0	63	37	2	11	48	1.51
46395900--46395978	35	2.2	35	81	4	86	44	3	7	44	1.50
46395930--46395963	2	17.5	2	93	6	61	50	0	0	50	1.00
46397847--46397943	23	4.2	23	97	0	176	34	26	21	17	1.96
46400175--46400262	30	3.0	29	77	12	99	37	1	4	56	1.27
46400644--46400687	20	2.1	21	87	4	63	34	0	0	65	0.93
46400655--46400688	10	3.4	10	87	0	50	32	0	0	67	0.91
46405018--46405172	61	2.6	60	85	4	204	24	16	9	50	1.73
46405818--46405853	18	1.9	18	88	5	54	41	5	2	50	1.40
46414001--46414089	44	2.0	44	100	0	178	38	13	11	37	1.81
46419947--46419972	2	13.0	2	100	0	52	50	0	0	50	1.00
46428966--46428995	3	10.0	3	92	0	51	36	0	33	30	1.58
46431315--46431380	19	3.5	19	79	4	89	37	10	1	50	1.47
46431612--46431705	19	5.1	19	76	5	102	47	0	15	36	1.46
46431612--46431705	37	2.5	37	94	0	161	47	0	15	36	1.46
46434765--46434807	21	2.1	20	86	4	59	69	0	0	30	0.88
46435014--46435052	3	13.0	3	100	0	78	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46452672--46452721	17	2.7	18	78	12	57	46	2	0	52	1.12
46454250--46454309	19	3.1	18	81	11	66	40	1	1	56	1.19
46460107--46460146	21	2.0	20	85	5	53	40	2	5	52	1.37
46466563--46466601	3	13.0	3	100	0	78	33	0	0	66	0.92
46467812--46467837	6	4.3	6	100	0	52	69	0	0	30	0.89
46474300--46474350	17	3.1	17	72	13	52	47	17	1	33	1.59
46489251--46489360	33	3.3	33	75	8	82	23	25	19	31	1.98
46491029--46491062	9	3.8	9	88	0	50	61	0	0	38	0.96
46491124--46491167	20	2.1	21	83	4	54	61	2	0	36	1.09
46501488--46501545	21	2.8	21	94	0	98	3	46	18	31	1.66

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