genome.fa.s8.2.7.7.80.10.50.1000.119.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  119  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)
35915305--35915385	36	2.2	36	80	0	90	32	25	23	18	1.97
35915397--35915456	29	2.1	29	96	0	111	21	38	11	28	1.89
35926390--35926574	101	1.8	102	91	3	311	23	18	27	30	1.98
35926386--35926572	51	3.7	51	80	5	211	24	18	27	30	1.98
35926496--35926576	26	3.2	26	62	28	64	23	14	28	33	1.94
35926578--35926672	45	2.1	45	86	0	136	27	18	23	30	1.98
35926901--35926944	23	2.0	22	82	13	54	43	4	20	31	1.72
35940621--35940674	27	2.0	27	100	0	108	59	14	14	11	1.62
35944490--35944518	2	14.5	2	100	0	58	0	48	0	51	1.00
35945393--35945516	65	1.9	64	83	9	162	23	15	8	53	1.68
35946053--35946103	20	2.7	19	77	17	52	31	1	3	62	1.24
35947645--35947678	2	17.0	2	100	0	68	50	0	0	50	1.00
35947922--35947957	16	2.2	16	90	0	54	36	2	0	61	1.11
35949855--35949907	20	2.6	21	79	11	56	50	3	3	41	1.38
35954464--35954499	16	2.2	16	90	0	54	36	2	0	61	1.11
35954696--35954751	28	2.0	28	100	0	112	32	7	17	42	1.77
35955719--35955749	9	3.4	9	90	0	53	25	12	22	38	1.90
35955806--35955839	9	3.8	9	96	0	59	44	17	11	26	1.83
35956613--35957132	267	1.9	268	98	0	997	39	12	15	32	1.85
35957122--35957147	5	5.2	5	100	0	52	19	19	19	42	1.90
35959858--35959905	15	3.0	16	78	9	53	58	4	0	37	1.18
35962835--35963010	50	3.5	50	91	0	271	20	29	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35963348--35963405	30	1.9	30	86	6	82	29	24	5	41	1.76
35965512--35965555	22	2.0	22	82	8	54	34	9	15	40	1.79
35968297--35968425	61	2.2	58	83	6	152	44	0	3	51	1.25
35970140--35970197	22	2.6	22	81	7	64	41	17	5	36	1.72
35970751--35970962	44	4.9	44	75	9	159	26	21	21	30	1.99
35970964--35971587	45	13.9	45	84	1	723	30	21	16	31	1.95
35978725--35978782	22	2.6	22	81	7	64	41	17	5	36	1.72
35978761--35978834	19	3.8	19	92	7	130	36	14	10	37	1.82
35980738--35980779	19	2.0	21	86	13	61	38	4	4	52	1.44
35982203--35982385	94	2.0	87	86	7	249	28	18	8	43	1.80
35982230--35982403	94	1.9	94	86	4	253	29	16	8	45	1.76
35985232--35985291	31	1.9	31	100	0	120	16	13	36	33	1.88
35996863--35996897	2	17.5	2	100	0	70	51	0	0	48	1.00
36000450--36000483	2	17.0	2	100	0	68	50	0	0	50	1.00
36003559--36003605	25	1.9	24	87	12	69	46	6	14	31	1.70
36008642--36008688	17	2.9	17	84	6	53	70	4	0	25	1.05
36008659--36008688	15	2.0	15	93	0	51	76	6	0	16	0.99
36010736--36010851	59	2.0	58	83	8	146	36	16	6	41	1.73
36010941--36011011	29	2.4	30	90	4	110	22	9	21	46	1.80
36016775--36016882	44	2.5	43	76	7	110	21	28	21	28	1.98
36017043--36017265	44	5.0	44	72	12	188	21	24	26	28	1.99
36017018--36017147	44	2.9	45	77	5	147	21	23	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36017164--36017408	44	5.5	43	66	15	133	22	23	27	26	1.99
36017018--36017420	178	2.3	178	84	4	501	22	22	27	28	1.99
36017018--36017420	89	4.5	90	84	6	448	22	22	27	28	1.99
36017584--36017621	16	2.5	15	87	8	58	36	5	18	39	1.73
36019706--36019792	37	2.4	37	100	0	174	12	12	36	37	1.82
36025383--36025407	12	2.1	12	100	0	50	48	24	0	28	1.52
36043218--36043257	18	2.2	18	86	0	53	30	2	2	65	1.19
36045431--36045464	6	5.7	6	85	0	50	79	2	2	14	0.97
36051343--36051438	40	2.4	40	85	3	131	51	12	9	27	1.70
36055302--36055344	21	2.0	21	82	8	52	32	0	2	65	1.06
36058547--36058571	7	3.6	7	100	0	50	32	0	0	68	0.90
36063186--36063215	2	15.0	2	100	0	60	50	0	0	50	1.00
36063849--36064045	98	2.0	98	94	0	349	37	23	10	28	1.88
36065177--36065253	19	4.1	19	89	0	118	36	14	10	38	1.80
36065162--36065253	38	2.6	36	84	10	109	35	13	10	40	1.79
36065565--36065963	44	9.1	44	70	7	170	24	26	19	29	1.99
36065517--36065856	132	2.6	132	92	0	581	24	25	20	30	1.99
36065977--36066988	44	23.0	44	93	1	1598	23	31	23	20	1.98
36071947--36072143	98	2.0	98	94	0	349	37	23	10	28	1.87
36073215--36073289	19	3.9	19	87	0	105	38	10	9	41	1.72
36073181--36073290	38	3.1	33	76	17	103	39	12	9	39	1.75
36073215--36073289	38	2.0	38	91	0	123	38	10	9	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36081797--36081884	11	8.4	11	74	20	73	57	0	3	38	1.15
36081788--36081861	38	1.9	39	89	8	116	63	0	1	35	1.03
36081788--36081861	39	1.9	38	91	8	123	63	0	1	35	1.03
36092969--36092999	15	2.0	15	93	6	53	12	0	6	80	0.89
36098851--36098985	61	2.2	60	85	6	175	34	20	11	32	1.89
36099165--36099291	60	2.1	60	83	2	157	37	8	16	37	1.80
36102523--36102577	28	1.9	29	85	3	76	49	0	5	45	1.25
36102956--36103019	18	3.3	20	63	20	55	39	4	7	48	1.53
36102954--36103031	37	2.1	37	97	0	147	35	5	8	50	1.56
36102969--36103031	20	3.3	20	66	20	62	34	4	11	49	1.59
36110524--36110557	9	3.8	9	88	0	50	67	2	0	29	1.05
36123112--36123153	2	21.0	2	95	0	75	2	0	47	50	1.14
36129386--36129437	13	3.8	13	75	25	54	65	0	0	34	0.93
36129992--36130027	17	2.1	18	89	5	56	36	0	0	63	0.94
36130039--36130094	21	2.7	21	77	2	69	35	0	1	62	1.06
36130039--36130099	20	3.0	20	79	6	63	39	0	1	59	1.08
36131368--36131425	25	2.3	25	82	5	64	63	6	0	29	1.20
36131759--36131803	9	5.0	9	84	10	56	60	0	2	37	1.09
36134539--36134583	2	22.5	2	95	0	81	48	0	2	48	1.13
36134685--36134726	2	21.0	2	100	0	84	50	0	0	50	1.00
36137208--36137237	2	15.0	2	92	0	51	50	0	3	46	1.18
36142479--36142521	19	2.3	19	84	4	52	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36143789--36143823	19	1.9	18	88	11	54	60	2	2	34	1.26
36143793--36143879	25	3.5	25	75	17	99	51	4	6	36	1.49
36143909--36143958	15	3.5	13	80	15	55	64	4	2	30	1.23
36143926--36143974	18	2.7	18	90	6	73	63	0	4	32	1.13
36147590--36147832	82	3.0	81	86	3	317	47	9	12	31	1.72
36149361--36149536	64	2.8	64	87	1	237	19	20	23	36	1.95
36149525--36149576	25	2.1	24	82	3	59	19	25	19	36	1.95
36155612--36155654	18	2.3	19	80	4	52	25	4	0	69	1.07
36158425--36158593	24	6.8	25	71	8	87	32	21	27	18	1.97
36158528--36158593	26	2.6	25	80	7	69	36	22	24	16	1.94
36163590--36163655	28	2.2	31	84	7	84	43	6	3	46	1.43
36164369--36164408	20	2.0	20	100	0	80	40	15	5	40	1.68
36164791--36164833	2	21.5	2	95	0	77	51	2	0	46	1.13
36165693--36165753	31	2.1	28	81	9	68	37	1	8	52	1.41
36166986--36167014	2	14.5	2	100	0	58	48	0	0	51	1.00
36172934--36172967	14	2.4	14	85	0	50	64	0	5	29	1.17
36173140--36173239	29	3.4	29	76	14	98	26	19	12	43	1.85
36173110--36173221	31	3.7	30	76	10	111	22	18	11	47	1.81
36173450--36173483	6	5.7	6	96	0	59	47	0	2	50	1.16
36173425--36173480	18	3.1	19	72	12	55	53	0	1	44	1.11
36173783--36173833	6	9.2	6	83	10	56	43	0	0	56	0.99
36173786--36173841	28	2.0	27	89	3	85	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36173843--36173880	17	2.2	18	85	4	51	31	0	13	55	1.38
36174159--36174220	31	2.0	32	84	9	83	45	6	14	33	1.71
36189899--36189993	26	3.8	25	75	9	77	32	22	24	21	1.98
36197293--36197357	25	2.5	26	80	14	71	33	24	23	18	1.96
36197834--36197881	19	2.9	16	75	19	53	58	4	14	22	1.54
36208285--36208427	24	5.8	25	77	10	100	18	26	23	30	1.98
36210685--36210726	21	2.0	21	95	0	75	16	28	35	19	1.93
36211033--36211058	5	5.2	5	100	0	52	38	19	19	23	1.93
36219349--36219394	3	16.3	3	84	13	62	63	0	36	0	0.95
36219337--36219395	17	3.5	16	81	9	73	62	0	37	0	0.95

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