genome.fa.s8.2.7.7.80.10.50.1000.145.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  145  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)
42734677--42736069	459	3.0	454	87	8	1936	26	16	21	35	1.94
42736170--42736731	78	7.3	77	86	6	664	28	16	20	34	1.95
42736944--42737061	29	4.0	30	82	5	134	34	23	4	37	1.75
42737406--42737472	10	6.4	10	72	14	55	74	4	19	1	1.07
42737581--42737672	4	22.8	4	78	14	100	76	0	22	1	0.86
42737588--42737672	23	3.5	26	78	18	110	77	0	22	0	0.77
42737589--42737679	30	3.1	29	76	19	73	78	0	21	0	0.76
42737705--42737733	10	2.7	11	94	5	51	17	58	20	3	1.53
42738002--42738037	17	2.2	16	90	9	56	27	11	11	50	1.72
42738236--42738336	21	5.1	21	68	24	76	34	12	7	44	1.72
42738153--42738297	56	2.6	56	78	8	150	32	13	10	43	1.78
42738237--42738458	39	5.6	39	73	17	181	33	12	9	45	1.74
42738152--42738371	18	11.8	17	71	17	127	31	14	10	43	1.79
42738218--42738375	78	2.1	76	87	7	223	34	13	9	43	1.76
42738218--42738386	39	4.4	38	78	14	188	31	14	10	43	1.79
42738420--42738455	17	2.2	17	90	5	56	36	5	11	47	1.63
42739855--42740190	29	11.7	29	87	2	473	32	0	23	44	1.58
42739855--42740190	86	3.9	87	92	2	545	32	0	23	44	1.58
42740292--42740366	29	2.6	29	95	2	134	34	1	18	45	1.58
42740646--42740701	24	2.3	24	93	0	94	19	16	37	26	1.92
42742529--42742562	15	2.3	15	95	5	61	64	5	0	29	1.17
42742660--42742716	28	2.0	28	90	6	89	56	1	0	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42742750--42742800	22	2.3	21	83	9	66	33	0	33	33	1.58
42742753--42742852	52	1.9	52	91	0	164	38	0	32	30	1.58
42742805--42742860	22	2.5	22	97	2	103	41	0	30	28	1.57
42743574--42743639	34	1.9	34	87	6	98	31	7	15	45	1.74
42745027--42745062	15	2.5	15	90	4	56	77	0	22	0	0.76
42748672--42748711	21	1.9	21	89	0	62	25	15	10	50	1.74
42752384--42752433	3	16.7	3	95	0	91	66	2	0	32	1.03
42752878--42752929	24	2.2	24	85	0	68	48	9	5	36	1.60
42757260--42757306	24	2.0	24	87	8	69	48	6	6	38	1.54
42757272--42757323	24	2.2	24	82	0	59	50	5	3	40	1.45
42769782--42769831	25	2.0	25	96	0	91	24	18	16	42	1.89
42771298--42771325	4	7.0	4	100	0	56	50	0	0	50	1.00
42774167--42774194	8	3.5	8	100	0	56	25	0	0	75	0.81
42775140--42775177	19	2.0	19	94	0	67	39	10	13	36	1.79
42794371--42794410	9	4.4	9	93	0	71	25	12	22	40	1.89
42794464--42794500	9	4.1	9	92	0	65	45	13	10	29	1.77
42795523--42795548	5	5.2	5	100	0	52	19	19	19	42	1.90
42800981--42801014	3	11.3	3	100	0	68	67	0	32	0	0.91
42802754--42802826	3	24.7	3	76	8	69	1	31	0	67	1.00
42802754--42802826	20	3.7	20	78	5	67	1	31	0	67	1.00
42804151--42804193	18	2.4	16	82	17	50	41	13	0	44	1.44
42807866--42807913	21	2.2	22	88	3	71	25	18	41	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42809658--42809716	31	1.9	31	92	0	100	49	3	1	45	1.28
42810699--42810736	17	2.3	17	86	4	51	31	5	5	57	1.43
42829391--42829416	3	8.7	3	100	0	52	69	0	30	0	0.89
42831380--42831409	2	15.0	2	100	0	60	50	0	50	0	1.00
42837949--42838006	30	1.9	30	96	0	107	29	34	0	36	1.58
42837978--42838028	22	2.3	22	93	6	86	29	35	0	35	1.58
42838063--42838127	31	2.1	31	91	5	105	32	0	1	66	1.01
42840439--42841014	29	19.9	29	88	5	846	45	25	0	29	1.55
42840439--42841012	88	6.6	89	89	4	863	45	24	0	29	1.55
42840439--42841014	59	9.9	59	91	4	872	45	25	0	29	1.55
42844152--42844430	124	2.3	123	95	1	497	33	21	15	29	1.94
42845639--42845686	25	2.0	24	84	12	62	35	0	0	64	0.94
42852448--42852485	20	2.0	20	85	10	53	44	0	2	52	1.14
42852586--42852613	9	3.1	9	100	0	56	57	10	0	32	1.33
42852556--42852697	68	2.1	66	94	2	248	45	9	4	40	1.58
42852686--42852727	16	2.6	16	92	0	66	42	7	2	47	1.43
42852701--42852762	23	2.7	23	82	2	72	48	1	1	48	1.21
42852556--42852719	68	2.5	66	86	10	216	45	9	4	40	1.55
42854094--42854213	51	2.4	51	85	0	168	54	5	3	37	1.39
42855157--42855190	13	2.7	12	90	9	50	76	0	5	17	0.98
42855157--42855190	6	5.3	6	89	10	50	76	0	5	17	0.98
42859471--42859496	3	8.7	3	100	0	52	0	34	30	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42862370--42862419	17	2.9	17	87	0	73	26	22	6	46	1.74
42871482--42871528	26	2.0	24	84	16	62	44	14	25	14	1.84
42875273--42875315	21	2.0	21	86	8	61	34	0	6	58	1.25
42880570--42880603	18	1.9	18	88	5	52	35	2	5	55	1.39
42880571--42880660	44	2.0	44	91	0	144	37	7	3	51	1.48
42885035--42885096	32	1.9	32	90	0	97	64	1	1	32	1.13
42889389--42889436	21	2.5	18	86	10	60	62	0	6	31	1.20
42890280--42890360	25	3.3	25	72	13	62	71	3	22	2	1.14
42890324--42890360	14	2.9	13	85	14	51	72	0	27	0	0.84
42890324--42890360	13	2.9	14	88	11	53	72	0	27	0	0.84
42893147--42893182	9	3.9	9	92	3	54	27	0	19	52	1.46
42893644--42893678	13	2.7	13	95	0	61	51	0	2	45	1.16
42894791--42894824	16	2.1	16	88	0	50	41	2	20	35	1.68
42897088--42897118	12	2.5	13	94	5	55	38	0	3	58	1.15
42905703--42905830	49	2.8	44	71	15	114	33	17	17	31	1.93
42905703--42906315	94	6.6	94	79	5	586	32	18	20	28	1.96
42905703--42906444	44	16.1	44	71	13	384	31	18	20	29	1.96
42906192--42906855	94	7.1	94	80	5	604	31	18	20	29	1.96
42908373--42908414	12	3.2	12	84	15	57	21	2	2	73	1.06
42908514--42908564	25	2.0	25	92	0	84	29	5	7	56	1.51
42914683--42914707	13	1.9	13	100	0	50	44	0	8	48	1.32
42919309--42919360	24	2.2	24	82	0	59	51	5	5	36	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42921281--42921332	24	2.2	24	89	0	77	53	7	3	34	1.48
42922961--42923016	22	2.7	20	73	24	53	32	8	8	50	1.65
42924240--42924293	17	3.3	17	79	10	76	59	0	3	37	1.15
42924243--42924312	13	4.8	13	70	21	50	62	1	2	32	1.18
42924247--42924310	15	4.2	15	79	13	69	64	1	3	31	1.19
42924272--42924310	14	2.9	14	84	3	53	64	2	2	30	1.21
42925245--42925299	27	2.1	26	80	16	60	20	14	5	60	1.54
42925260--42925301	13	3.2	13	86	0	57	19	11	7	61	1.52
42925260--42925362	12	8.3	12	72	10	73	24	14	8	52	1.70
42925279--42925362	25	3.4	24	77	9	80	27	14	9	48	1.74
42940341--42940366	12	2.2	12	100	0	52	23	15	0	61	1.33
42943540--42943583	24	1.9	24	86	9	65	38	0	2	59	1.10
42943680--42943707	9	3.1	9	100	0	56	57	10	0	32	1.33
42943650--42943859	68	3.1	68	97	1	388	45	9	4	40	1.57
42943748--42943775	9	3.1	9	100	0	56	57	10	0	32	1.33
42943848--42943887	16	2.5	15	84	11	53	40	7	2	50	1.44
42943863--42943923	22	2.7	23	80	7	63	44	1	1	52	1.20
42946199--42946258	4	14.0	4	84	10	50	20	0	10	70	1.16
42946206--42946237	5	6.8	5	96	3	50	21	0	12	65	1.25
42946206--42946257	13	3.9	13	78	14	61	19	0	9	71	1.13
42948180--42948211	10	3.2	10	100	0	64	37	31	0	31	1.58
42948261--42948417	42	3.7	42	76	0	116	43	14	23	19	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42955328--42955511	37	5.0	37	93	1	318	24	22	16	36	1.94
42955474--42955801	52	6.6	46	73	19	248	27	23	14	34	1.94
42955474--42955795	46	6.2	52	85	9	389	27	23	14	34	1.94
42955517--42955643	59	2.2	58	94	2	218	25	24	12	37	1.91
42971508--42971532	11	2.3	11	100	0	50	56	8	0	36	1.29
42972239--42972285	21	2.2	21	84	0	58	0	29	6	63	1.19
42974072--42974113	20	2.2	19	83	12	50	61	0	4	33	1.17
42975368--42975401	18	1.9	18	88	5	52	70	8	5	14	1.31
42980000--42980065	34	1.9	34	87	6	98	37	3	1	57	1.23
42981208--42981535	48	7.0	48	80	4	294	32	17	21	28	1.96

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