genome.fa.s8.2.7.7.80.10.50.1000.149.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  149  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)
43744525--43744549	3	8.3	3	100	0	50	0	32	0	68	0.90
43745636--43745664	9	3.3	9	90	9	51	10	0	0	89	0.48
43745636--43745665	8	3.6	8	95	4	51	13	0	0	86	0.57
43748889--43748918	2	15.0	2	100	0	60	50	0	0	50	1.00
43749582--43749725	25	5.8	25	72	12	109	36	20	24	18	1.95
43751227--43751332	51	2.1	51	100	0	212	43	18	3	33	1.68
43753291--43753341	26	2.0	26	88	0	75	41	21	19	17	1.91
43760847--43760879	17	1.9	17	100	0	66	42	9	0	48	1.35
43763432--43763473	18	2.3	19	80	12	52	23	23	2	50	1.61
43764528--43764648	23	5.3	23	78	8	124	31	25	19	23	1.98
43764537--43764648	46	2.4	46	93	0	188	30	25	20	23	1.98
43764866--43764904	18	2.2	17	86	13	53	46	20	2	30	1.64
43766030--43766054	12	2.1	12	100	0	50	44	0	8	48	1.32
43766389--43766427	20	1.9	21	89	5	62	38	7	10	43	1.67
43766857--43766967	41	2.7	41	91	0	186	26	19	27	27	1.99
43766857--43767006	41	3.6	41	86	0	183	26	20	26	27	1.99
43770945--43770986	12	3.5	12	84	12	59	35	9	0	54	1.33
43771279--43771313	18	2.1	17	89	10	54	42	11	2	42	1.55
43773150--43773189	17	2.5	16	84	8	55	77	0	0	22	0.77
43774586--43774719	58	2.3	58	92	2	216	24	23	17	34	1.96
43775214--43775337	45	2.8	45	82	2	151	25	25	20	27	1.99
43775309--43775422	44	2.7	41	74	6	104	28	24	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43775427--43775634	82	2.5	84	84	5	276	27	25	19	27	1.98
43775409--43775634	44	5.3	44	82	6	284	28	23	20	27	1.99
43775645--43776127	88	5.5	88	93	0	768	19	23	28	28	1.98
43782018--43782084	34	2.0	34	82	11	84	73	2	2	20	1.10
43783757--43783817	29	2.1	29	100	0	122	24	13	13	49	1.77
43784226--43784261	17	2.1	17	89	0	54	16	16	22	44	1.86
43786992--43787033	7	6.0	7	81	18	52	69	0	16	14	1.20
43786992--43787033	21	2.0	21	86	9	59	69	0	16	14	1.20
43788310--43788944	44	14.4	44	80	7	610	30	15	23	31	1.95
43788310--43788944	132	4.8	132	83	5	676	30	15	23	31	1.95
43788472--43788967	266	1.9	266	84	2	674	30	15	23	30	1.95
43790470--43790531	31	2.0	31	81	6	72	33	8	1	56	1.38
43790534--43790575	12	3.5	12	84	12	59	35	9	0	54	1.33
43794338--43794401	2	32.0	2	96	0	119	50	0	1	48	1.10
43794999--43795050	26	2.0	26	100	0	104	19	26	15	38	1.91
43799197--43799300	48	2.2	47	86	6	138	48	7	10	33	1.66
43808137--43808205	22	3.1	22	89	0	111	42	17	23	17	1.89
43808199--43808236	19	2.0	19	89	0	58	31	15	31	21	1.94
43808141--43808438	25	12.4	24	83	10	267	36	20	24	18	1.94
43808141--43808438	50	6.2	49	82	11	300	36	20	24	18	1.94
43810055--43810116	21	3.0	21	68	0	52	41	19	20	17	1.90
43809997--43810126	42	3.1	41	78	4	125	44	18	20	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43811543--43811582	11	3.6	11	96	0	71	67	0	0	32	0.91
43811612--43811650	17	2.2	18	86	4	53	61	15	0	23	1.33
43811599--43811647	19	2.5	20	78	18	59	63	18	0	18	1.32
43811541--43811744	113	1.8	113	89	2	320	59	11	1	26	1.41
43813707--43813739	17	1.9	17	100	0	66	48	0	9	42	1.35
43814698--43814727	2	15.0	2	100	0	60	50	0	0	50	1.00
43817692--43817771	34	2.3	34	80	6	90	28	21	23	26	1.99
43818313--43818562	134	1.9	134	84	1	340	22	18	18	41	1.91
43818221--43818562	107	3.2	105	82	4	409	22	17	19	40	1.91
43818221--43818562	27	12.7	27	78	7	320	22	17	19	40	1.91
43819563--43819637	33	2.3	33	83	0	96	42	13	25	18	1.87
43822396--43822536	74	1.9	72	92	2	237	34	23	10	31	1.89
43823664--43823755	39	2.5	38	79	11	93	75	3	16	5	1.13
43824613--43824668	27	2.1	26	93	3	94	42	7	0	50	1.30
43824727--43824830	27	3.9	27	96	0	181	26	28	30	13	1.94
43825117--43825152	3	12.0	3	100	0	72	33	0	0	66	0.92
43825884--43825928	18	2.5	18	77	0	54	28	6	46	17	1.73
43828188--43828228	21	2.0	21	85	9	57	14	0	7	78	0.96
43828224--43828290	28	2.4	28	87	7	91	49	1	10	38	1.46
43828356--43828453	5	20.2	5	72	14	53	2	34	0	63	1.06
43828358--43828476	10	12.5	10	67	17	58	1	32	0	65	1.03
43828357--43828466	38	2.8	38	87	2	148	1	32	0	65	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43828533--43828601	27	2.5	28	81	6	79	20	26	28	24	1.99
43828558--43828609	27	1.9	27	88	7	79	15	28	25	30	1.96
43828658--43828727	28	2.5	28	95	2	124	48	0	10	41	1.36
43835411--43835472	25	2.5	26	73	26	62	41	1	3	53	1.27
43835488--43835579	12	7.8	12	73	20	70	70	3	21	4	1.19
43835509--43835579	13	5.6	13	73	15	51	69	4	22	4	1.24
43844121--43844173	25	2.2	25	78	18	60	52	7	3	35	1.48
43847409--43847662	43	5.7	43	82	11	321	20	17	31	30	1.96
43847536--43847640	55	1.9	55	94	0	183	24	19	30	25	1.98
43849587--43849644	18	3.0	18	75	10	53	34	22	17	25	1.96
43849744--43849851	45	2.4	45	82	4	137	44	18	15	21	1.87
43849820--43849869	24	2.1	24	96	0	91	46	16	16	22	1.84
43849993--43850057	34	1.9	34	87	0	94	30	13	13	41	1.84
43850590--43850614	8	3.1	8	100	0	50	24	0	0	76	0.80
43857112--43857149	18	2.1	18	95	0	67	21	7	15	55	1.66
43869965--43870003	19	2.0	21	90	10	64	43	0	5	51	1.24
43869953--43870012	19	3.2	19	75	17	61	38	1	3	56	1.26
43874498--43874541	22	2.0	22	100	0	88	54	13	9	22	1.67
43881877--43882017	43	3.3	43	82	3	176	28	15	23	32	1.95
43882325--43882349	12	2.1	12	100	0	50	8	32	16	44	1.76
43884003--43884061	29	2.0	30	86	6	84	42	6	11	38	1.68
43884009--43884072	31	2.2	27	76	15	65	42	9	10	37	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43884756--43884800	14	3.4	14	90	6	67	37	15	24	22	1.93
43888206--43888257	24	2.2	24	86	6	70	57	1	3	36	1.28
43888206--43888257	3	17.3	3	76	7	52	57	1	3	36	1.28
43889923--43890018	44	2.2	45	80	1	113	29	22	15	32	1.95
43890022--43890560	132	4.1	132	91	1	848	29	24	18	28	1.98
43890040--43890554	265	1.9	264	92	1	872	29	23	18	28	1.98
43890542--43891048	50	10.1	50	68	0	267	26	24	19	30	1.98
43890542--43891052	100	5.1	100	88	0	729	26	23	19	30	1.98
43892550--43892584	7	5.0	7	86	13	54	14	17	0	68	1.21
43892550--43892584	13	2.5	15	86	13	56	14	17	0	68	1.21
43898561--43898604	19	2.3	20	80	11	56	31	0	4	63	1.14
43898594--43898645	18	2.7	19	82	11	54	30	3	0	65	1.10
43908448--43908503	18	2.8	20	74	12	53	60	1	0	37	1.07
43909494--43909540	10	4.5	11	77	17	55	36	2	0	61	1.08
43909635--43909676	22	2.0	21	85	4	57	42	2	0	54	1.13
43916733--43916759	7	3.9	7	100	0	54	14	0	0	85	0.61
43925049--43925093	20	2.3	20	80	3	56	46	17	2	33	1.61
43933317--43933350	3	11.7	3	93	6	61	32	0	0	67	0.91
43937292--43937400	57	1.9	57	86	3	157	30	18	26	24	1.98
43943034--43943082	19	2.6	17	79	17	53	71	4	0	24	1.03
43944400--43945109	89	8.0	89	85	1	876	26	26	24	23	2.00
43946679--43946736	22	2.6	24	76	20	63	41	6	0	51	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43948193--43948251	30	2.0	29	80	6	66	37	22	8	32	1.84
43948202--43948259	30	2.0	30	93	3	100	29	22	8	39	1.84
43948925--43948978	25	2.2	25	83	6	65	75	0	18	5	0.98
43948957--43948992	18	2.1	17	90	10	56	80	0	5	13	0.88
43949111--43949146	19	2.0	18	89	10	56	77	13	8	0	0.98
43949746--43949791	17	2.6	17	83	12	58	30	15	8	45	1.76
43949883--43949933	17	2.9	17	80	11	59	31	11	7	49	1.68
43949883--43950331	18	23.8	18	65	20	104	32	12	9	45	1.74
43950077--43950156	19	3.9	19	67	20	54	30	11	10	48	1.71
43950196--43950331	17	7.9	16	71	18	87	30	13	11	44	1.79

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