genome.fa.s8.2.7.7.80.10.50.1000.38.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  38  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)
10738495--10738628	44	3.0	44	90	0	214	28	18	25	27	1.98
10738495--10738834	87	3.9	87	82	3	299	27	21	25	25	1.99
10738618--10738834	44	5.0	44	78	3	224	29	22	24	24	1.99
10738589--10738834	87	2.8	88	86	1	316	28	21	25	24	1.99
10738627--10738858	43	5.4	42	74	3	176	28	23	22	25	1.99
10738761--10739397	216	2.9	214	86	2	830	29	20	23	27	1.99
10741025--10741061	8	4.8	8	86	6	58	13	0	2	83	0.74
10741025--10741061	15	2.4	16	90	4	58	13	0	2	83	0.74
10743042--10743104	29	2.1	30	82	8	76	30	17	6	46	1.73
10744777--10744814	19	2.0	19	94	0	67	28	10	28	31	1.90
10747253--10747305	26	2.0	26	100	0	106	32	7	7	52	1.58
10747317--10747364	21	2.3	20	78	3	51	29	20	8	41	1.81
10750296--10750348	3	17.7	3	100	0	106	66	0	0	33	0.92
10752389--10752424	17	2.1	18	89	5	56	30	0	5	63	1.17
10756005--10756037	16	2.1	16	94	0	57	51	18	9	21	1.73
10759755--10759819	33	2.0	33	93	0	112	26	20	15	38	1.92
10761921--10761948	9	3.1	9	100	0	56	14	10	10	64	1.50
10763954--10764043	25	3.6	25	86	3	128	32	20	27	20	1.97
10764184--10764217	17	2.0	17	88	11	52	47	29	11	11	1.76
10766174--10766203	14	2.1	14	93	0	51	16	0	3	80	0.85
10775229--10775258	13	2.2	14	94	5	53	73	0	6	20	1.05
10775724--10775768	3	15.0	3	100	0	90	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10779866--10779891	2	13.0	2	100	0	52	50	0	0	50	1.00
10782168--10782250	42	2.0	42	97	0	157	39	15	9	34	1.80
10786706--10786753	26	1.9	24	83	8	60	56	10	0	33	1.34
10786895--10786936	4	10.0	4	80	19	50	2	23	2	71	1.10
10788254--10788312	21	2.8	20	80	14	57	54	3	1	40	1.27
10788279--10788339	22	3.0	20	77	13	70	59	0	1	39	1.08
10788294--10788331	11	3.4	11	96	3	67	57	0	2	39	1.12
10788279--10788344	21	3.1	21	76	8	71	59	0	1	39	1.07
10790052--10790087	17	2.0	19	89	10	58	66	11	2	19	1.35
10792159--10792244	44	2.0	44	88	2	129	47	11	10	30	1.73
10809690--10809943	128	2.0	128	91	0	409	29	19	18	33	1.95
10815943--10816033	44	2.1	44	89	0	137	47	4	9	38	1.57
10817312--10817345	17	2.1	17	88	5	52	38	0	0	61	0.96
10823853--10823917	29	2.3	29	94	2	114	46	23	3	27	1.67
10824285--10824341	30	1.9	30	89	7	89	38	10	12	38	1.77
10836484--10836537	26	2.1	26	86	10	76	31	1	3	62	1.23
10836496--10836550	26	2.2	25	84	12	69	30	3	5	60	1.37
10840696--10840750	24	2.3	24	84	6	67	41	20	25	12	1.87
10848906--10849016	45	2.5	46	81	14	142	27	20	24	27	1.99
10848906--10849975	44	24.6	45	68	16	289	29	19	22	27	1.98
10849119--10849975	44	19.7	42	69	13	327	29	20	22	27	1.98
10848817--10849838	217	4.7	216	90	1	1539	29	19	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10849731--10849887	40	3.8	40	72	15	129	29	23	21	26	1.99
10849731--10849893	85	1.9	84	86	3	229	30	23	20	25	1.99
10849944--10850051	44	2.5	44	81	6	121	26	20	21	31	1.98
10849514--10850070	302	1.8	302	92	0	934	29	20	22	27	1.99
10850503--10850534	5	6.4	5	92	0	55	59	18	3	18	1.51
10851284--10851329	24	1.9	24	90	0	74	26	8	0	65	1.21
10851499--10851533	18	1.9	18	88	0	52	40	0	2	57	1.14
10853382--10853438	28	2.0	28	96	0	105	14	15	10	59	1.60
10853384--10853445	28	2.2	28	91	2	97	14	17	8	59	1.58
10854373--10854410	19	2.0	19	85	10	51	76	0	7	15	1.01
10854650--10854742	42	2.3	40	78	10	100	23	21	23	31	1.99
10854665--10854850	42	4.4	42	71	6	135	24	19	20	35	1.96
10855232--10855282	21	2.4	21	90	0	75	1	45	17	35	1.60
10860765--10860890	7	16.0	7	84	11	99	31	1	18	48	1.57
10860772--10861322	9	63.4	9	78	11	507	33	0	16	49	1.51
10864710--10864744	14	2.6	13	90	4	52	40	17	0	42	1.49
10864662--10864730	2	35.5	2	76	16	65	47	5	0	46	1.26
10864951--10864984	14	2.4	14	90	5	50	44	32	0	23	1.54
10865676--10865708	16	2.1	16	88	11	50	57	0	0	42	0.98
10865725--10865809	21	4.0	21	75	3	62	45	31	1	21	1.59
10865733--10865812	14	5.6	14	70	14	56	47	31	0	21	1.51
10865867--10866424	115	4.9	112	72	12	418	26	24	18	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10866139--10866226	45	2.0	45	100	0	176	37	22	14	25	1.92
10866189--10866411	113	2.0	113	81	6	263	23	25	18	32	1.97
10866486--10866759	112	2.4	113	81	7	317	26	22	19	30	1.98
10870967--10871383	110	3.8	110	87	4	583	33	17	18	30	1.94
10871904--10871998	23	4.2	23	67	16	63	49	1	9	40	1.42
10871871--10871931	2	30.5	2	77	6	52	45	1	6	45	1.39
10872034--10872080	18	2.6	18	86	0	67	61	6	6	25	1.44
10873798--10873991	104	1.9	104	90	0	307	30	18	18	32	1.95
10884032--10884066	16	2.2	16	94	0	61	42	20	17	20	1.89
10884982--10885399	110	3.8	110	85	4	540	34	17	17	30	1.93
10885867--10885895	8	3.6	8	100	0	58	37	0	10	51	1.36
10886042--10886083	18	2.3	18	83	0	57	61	7	7	23	1.47
10886502--10886557	22	2.5	23	82	2	69	51	1	1	44	1.22
10886533--10886572	16	2.5	16	91	0	62	47	2	7	42	1.45
10886561--10886703	68	2.1	67	94	2	261	41	4	9	45	1.55
10886645--10886672	9	3.1	9	100	0	56	32	0	10	57	1.33
10886769--10886815	24	1.9	25	91	4	78	61	0	0	38	0.96
10889005--10889148	7	20.4	7	69	12	62	21	0	38	39	1.59
10889008--10889081	21	3.5	22	83	5	89	20	0	44	35	1.52
10889955--10889982	14	2.0	14	100	0	56	0	35	7	57	1.26
10893043--10893159	9	13.0	9	80	12	107	46	17	0	36	1.48
10893027--10893159	47	2.7	52	90	6	213	45	15	0	38	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10893053--10893159	52	2.2	47	90	8	160	46	16	0	36	1.48
10897297--10897407	43	2.6	43	85	1	152	28	15	24	31	1.95
10903700--10903741	22	1.9	22	85	0	57	42	4	9	42	1.58
10908277--10908301	2	12.5	2	100	0	50	48	0	0	52	1.00
10908786--10908837	27	1.9	27	92	0	86	25	26	9	38	1.86
10916913--10916969	30	1.9	30	82	13	73	61	8	1	28	1.36
10931101--10931153	14	3.6	14	73	9	52	50	0	5	43	1.25
10942104--10942175	34	2.1	34	97	0	135	34	20	6	37	1.80
10948011--10948047	18	2.0	19	89	5	58	29	0	2	67	1.04
10952920--10953029	27	4.1	27	88	2	150	19	23	32	24	1.97
10956531--10956575	6	7.5	6	84	0	54	2	44	28	24	1.66
10956525--10956581	24	2.4	24	84	0	69	1	43	26	28	1.65
10956525--10956581	12	4.8	12	74	8	53	1	43	26	28	1.65
10958159--10958197	16	2.4	16	100	0	78	58	5	0	35	1.20
10958314--10958431	60	2.0	60	89	0	182	53	13	0	33	1.40
10958424--10958485	19	3.2	19	88	8	97	53	14	1	30	1.51
10958419--10958484	21	3.2	21	87	10	100	56	15	1	27	1.48
10958957--10958994	17	2.2	18	86	13	53	55	0	0	44	0.99
10962264--10962312	21	2.4	21	86	10	66	18	28	10	42	1.83
10962488--10962546	21	2.9	21	82	5	68	44	16	23	15	1.86
10962693--10962770	39	2.0	39	97	0	147	48	19	2	29	1.62
10966392--10966508	44	2.6	44	84	1	153	22	18	11	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10968493--10968622	43	3.0	43	74	12	122	20	20	28	30	1.97
10972539--10972604	29	2.3	29	81	0	78	9	27	31	31	1.88
10980813--10980849	9	4.1	9	92	0	65	29	10	13	45	1.77
10988820--10988852	17	1.9	17	93	0	57	42	9	27	21	1.83
11008599--11008686	24	3.7	24	76	1	97	7	21	25	45	1.79
11008584--11008704	24	5.4	23	74	11	65	9	20	23	46	1.80
11017697--11017737	19	2.1	20	86	4	57	31	9	2	56	1.45
11018144--11018209	27	2.4	28	80	14	84	3	19	4	72	1.15
11018219--11018306	43	2.1	40	81	10	97	46	3	2	47	1.31
11020457--11020519	3	21.0	3	100	0	126	33	0	0	66	0.92

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