genome.fa.s8.2.7.7.80.10.50.1000.122.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  122  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)
36651078--36651118	6	6.8	6	97	0	73	53	0	12	34	1.38
36658890--36659180	45	6.5	45	91	0	447	18	20	20	39	1.92
36660679--36660720	22	1.9	22	85	0	57	52	7	4	35	1.50
36660977--36661030	26	2.0	27	85	3	74	38	1	0	59	1.08
36667477--36667541	32	2.0	32	90	0	103	35	9	18	36	1.83
36671221--36671352	67	2.0	67	84	0	174	36	9	3	50	1.54
36672154--36672224	16	4.4	16	76	13	74	43	5	19	30	1.74
36672153--36672224	32	2.2	32	80	4	83	44	5	19	30	1.73
36672206--36672296	44	2.0	46	85	12	127	32	5	25	36	1.79
36672402--36672525	58	2.1	58	88	2	178	53	3	0	43	1.17
36676459--36676550	47	2.0	47	97	0	175	48	6	4	40	1.49
36683373--36683406	17	1.9	18	94	5	61	52	0	2	44	1.16
36685268--36685409	45	3.2	44	75	4	124	22	17	19	40	1.91
36686875--36686945	30	2.4	29	79	11	81	28	2	7	61	1.36
36687370--36687413	23	1.9	23	85	0	61	45	13	4	36	1.64
36687372--36687419	23	2.1	23	84	0	60	45	14	4	35	1.64
36690342--36690424	43	1.9	43	92	0	139	32	9	19	38	1.84
36691289--36691345	27	2.1	27	81	15	66	45	3	3	47	1.37
36692008--36692060	24	2.2	25	77	16	58	43	3	5	47	1.45
36693384--36693546	30	5.5	29	76	7	134	31	25	4	38	1.77
36693384--36693540	59	2.6	57	76	7	152	32	24	4	38	1.75
36694086--36694175	12	7.7	11	75	10	72	80	0	15	4	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36694086--36694151	21	3.4	19	76	14	71	80	0	19	0	0.72
36694078--36694157	27	3.0	27	73	12	76	78	0	20	1	0.81
36694093--36694175	23	3.6	22	78	13	78	80	0	14	4	0.86
36694090--36694175	35	2.5	35	79	7	95	80	0	15	4	0.87
36694755--36694788	16	2.1	17	88	5	52	38	5	11	44	1.65
36694765--36694825	16	3.7	17	76	8	63	31	6	11	50	1.64
36694838--36694931	18	5.2	17	71	19	57	36	12	7	43	1.71
36694837--36694931	36	2.7	35	79	9	102	35	12	7	44	1.71
36694879--36694944	17	3.7	18	80	8	82	27	13	6	53	1.63
36695001--36695138	18	7.8	18	73	11	99	31	13	10	44	1.77
36695001--36695138	17	7.8	17	73	8	75	31	13	10	44	1.77
36695069--36695141	20	3.9	19	82	8	78	32	10	10	45	1.74
36700933--36700988	17	3.2	17	80	7	60	85	7	3	3	0.81
36700933--36700994	24	2.5	24	87	7	81	85	6	4	3	0.82
36701819--36701877	30	2.0	30	86	0	82	30	11	8	49	1.69
36701875--36702861	70	13.5	72	91	4	1438	25	15	20	38	1.92
36701875--36703197	212	5.9	216	85	7	1479	26	15	20	38	1.92
36704092--36704516	74	5.4	78	78	14	367	25	16	22	35	1.95
36704144--36704545	75	5.2	73	77	9	299	25	17	21	36	1.94
36704727--36704805	30	2.7	31	88	7	112	34	20	2	43	1.65
36705465--36705552	11	8.2	11	70	17	51	75	0	21	3	0.95
36705478--36705531	14	3.9	14	71	28	53	74	0	25	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36705474--36705540	13	4.9	13	72	15	55	76	0	22	1	0.87
36705479--36705557	23	3.3	23	75	14	61	77	0	17	5	0.95
36705479--36705541	19	3.2	18	74	17	54	76	0	22	1	0.88
36706128--36706169	20	2.0	22	90	9	70	47	2	9	40	1.49
36706164--36706207	16	2.6	17	85	7	63	27	9	11	52	1.67
36706221--36706326	17	6.0	17	73	16	90	32	13	8	46	1.73
36706219--36706313	36	2.7	35	85	7	129	35	12	8	43	1.73
36706428--36706505	19	4.1	20	81	8	74	37	12	8	41	1.75
36706447--36706505	19	3.3	18	83	13	77	38	13	10	37	1.79
36706448--36706523	36	2.1	37	85	7	102	35	11	10	42	1.76
36706220--36706505	18	15.3	18	66	22	92	35	12	9	42	1.75
36707128--36707168	21	1.9	22	90	5	66	51	0	7	41	1.30
36708123--36708167	20	2.2	20	84	7	56	62	4	8	24	1.43
36714432--36714505	27	2.8	27	72	14	64	52	1	2	43	1.23
36716781--36716845	32	2.2	28	83	10	76	55	3	7	33	1.44
36717224--36717265	2	21.0	2	100	0	84	50	50	0	0	1.00
36731541--36731575	18	1.9	18	100	0	70	51	11	8	28	1.67
36735243--36735363	19	6.3	18	68	12	55	61	1	1	35	1.16
36735285--36735364	29	2.8	27	83	11	81	63	1	2	32	1.15
36735312--36735363	19	2.7	19	78	0	59	67	1	1	28	1.12
36735548--36735716	9	17.9	9	68	16	67	29	4	1	63	1.24
36735559--36735704	19	7.7	19	69	11	68	28	5	2	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36735605--36735745	29	4.9	28	72	14	94	32	2	1	63	1.15
36735672--36735760	9	9.4	9	71	14	56	28	0	1	70	0.94
36735672--36735763	20	4.9	19	72	17	59	29	0	1	69	0.95
36741432--36741475	21	2.1	21	95	0	79	20	4	11	63	1.44
36746801--36746869	2	35.5	2	88	11	108	47	0	1	50	1.09
36746970--36747082	33	3.2	34	82	14	133	37	2	0	60	1.11
36747008--36747063	24	2.3	23	80	14	60	39	1	0	58	1.08
36750788--36750837	14	3.5	14	74	15	57	54	10	0	36	1.34
36752271--36752309	20	2.0	20	89	0	60	43	7	20	28	1.79
36753853--36753895	19	2.3	19	80	8	52	13	11	0	74	1.07
36754446--36754475	3	10.0	3	92	0	51	33	3	0	63	1.11
36761865--36762000	45	3.1	45	70	4	132	29	25	23	21	1.99
36762202--36762704	44	11.4	44	67	11	181	28	19	25	26	1.99
36761948--36762786	132	6.3	132	90	4	1187	28	19	24	27	1.99
36762143--36762615	44	10.8	43	64	12	154	27	19	26	26	1.99
36763594--36763635	18	2.3	19	80	12	52	11	11	2	73	1.18
36764186--36764222	3	12.3	3	88	0	56	32	5	0	62	1.18
36766451--36766530	39	2.1	39	80	4	90	37	12	20	30	1.89
36778445--36778556	54	2.1	54	86	0	152	22	24	31	22	1.99
36779358--36779493	23	6.0	22	78	9	105	19	4	33	43	1.71
36779366--36779491	48	2.7	46	84	8	141	18	4	33	43	1.71
36780697--36780768	24	3.0	24	100	0	144	29	4	8	58	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36782647--36782779	4	32.2	4	85	8	160	45	24	4	25	1.71
36782687--36782876	56	3.4	56	94	2	321	42	24	8	24	1.83
36782858--36782889	2	16.0	2	100	0	64	50	50	0	0	1.00
36791485--36791546	29	2.1	29	100	0	124	12	30	29	27	1.93
36795561--36795595	7	5.0	7	86	13	54	68	0	17	14	1.21
36797355--36797542	44	4.3	44	67	15	136	28	17	25	28	1.98
36796877--36798047	132	8.9	132	92	2	1894	27	19	24	28	1.98
36798063--36798298	44	5.3	44	72	10	160	32	15	23	28	1.95
36798022--36798299	89	3.1	89	76	6	222	31	16	22	29	1.96
36798016--36798269	133	1.9	134	86	2	359	31	16	22	28	1.96
36800055--36800152	3	32.3	3	91	6	162	31	2	0	66	1.03
36803458--36803495	18	2.1	18	95	0	67	52	13	5	28	1.61
36804516--36804549	17	2.0	17	88	0	50	70	2	0	26	1.01
36809315--36809371	26	2.2	27	78	15	66	33	1	1	63	1.15
36809311--36809377	18	3.8	19	72	16	56	37	1	1	59	1.16
36814368--36814426	31	1.9	31	92	0	100	49	13	6	30	1.68
36819188--36819215	3	9.3	3	100	0	56	0	35	0	64	0.94
36819825--36819856	3	10.7	3	100	0	64	34	31	0	34	1.58
36820113--36820137	7	3.6	7	100	0	50	12	12	16	60	1.60
36820180--36820208	2	14.5	2	100	0	58	48	0	0	51	1.00
36829119--36829345	121	1.9	120	86	2	323	26	20	15	37	1.93
36833556--36833597	18	2.3	18	81	18	52	28	4	0	66	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36846665--36846797	24	5.4	25	81	8	78	32	20	27	19	1.97
36846683--36846849	24	6.8	24	78	6	122	33	18	28	19	1.96
36846683--36846849	73	2.3	74	80	8	189	33	18	28	19	1.96
36853352--36853471	50	2.4	50	78	8	136	38	17	23	20	1.93
36853395--36853466	25	2.9	25	71	8	65	34	19	26	19	1.96
36859584--36859637	18	2.9	18	83	2	63	40	44	3	11	1.58
36868195--36868234	13	2.9	15	79	20	52	0	27	0	72	0.85
36873455--36873522	31	2.2	32	84	5	86	33	8	14	42	1.77
36876826--36876857	2	16.0	2	100	0	64	50	0	0	50	1.00
36895101--36895539	107	4.1	108	86	2	575	29	20	19	30	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