genome.fa.s8.2.7.7.80.10.50.1000.170.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  170  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)
49638528--49638575	19	2.5	19	93	0	78	54	8	4	33	1.50
49641153--49641310	42	3.8	42	77	5	151	18	20	17	43	1.89
49645724--49645835	25	4.6	25	71	3	93	32	20	27	19	1.97
49645787--49645866	24	3.3	24	70	15	65	37	20	23	18	1.94
49648018--49648050	18	1.9	17	88	11	50	30	9	0	60	1.27
49654709--49654850	71	2.0	71	97	0	266	22	12	16	48	1.79
49662962--49663005	23	1.9	23	86	9	63	22	6	68	2	1.25
49662956--49663013	29	2.0	28	90	3	89	20	6	68	3	1.27
49666803--49666906	55	1.9	55	85	0	145	51	14	8	25	1.70
49672992--49673032	20	2.0	20	90	0	64	19	2	26	51	1.59
49674906--49674960	22	2.3	24	75	9	60	10	14	7	67	1.41
49686606--49686809	82	2.5	80	88	3	286	38	9	14	37	1.78
49686692--49686953	141	1.8	146	82	7	349	43	10	12	33	1.77
49690667--49690704	3	12.7	3	100	0	76	34	0	0	65	0.93
49690909--49691555	160	4.1	160	88	5	848	38	14	9	37	1.79
49690922--49691557	81	8.0	80	87	3	801	37	14	9	38	1.79
49691693--49691736	18	2.4	18	81	11	54	34	2	4	59	1.30
49694620--49694666	22	2.2	22	85	11	62	55	0	4	40	1.19
49696060--49696112	27	2.0	27	92	0	88	24	15	13	47	1.81
49698068--49698094	7	3.9	7	100	0	54	44	14	0	40	1.46
49700836--49700888	21	2.5	21	81	0	52	35	35	3	24	1.74
49701675--49701716	20	2.0	21	86	13	61	54	19	2	23	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49701804--49701869	32	2.1	32	94	0	114	36	7	7	48	1.60
49710899--49710972	9	8.0	9	77	5	58	29	1	9	59	1.37
49710893--49710971	19	4.3	18	75	4	77	30	1	8	59	1.36
49720274--49720300	6	4.5	6	100	0	54	55	0	0	44	0.99
49721718--49721742	5	5.0	5	100	0	50	20	0	80	0	0.72
49721841--49721877	9	4.1	9	89	0	56	32	10	10	45	1.74
49723172--49723301	40	3.3	40	78	7	140	36	25	14	23	1.93
49728691--49728773	29	2.9	29	92	0	130	25	12	27	34	1.91
49729203--49729260	19	3.1	19	80	7	64	46	6	3	43	1.47
49735034--49735222	105	1.8	105	95	0	342	26	8	27	36	1.87
49738177--49738202	12	2.2	12	100	0	52	42	7	7	42	1.62
49742886--49742947	27	2.3	27	97	0	115	29	22	33	14	1.94
49743108--49743166	22	2.6	22	84	10	75	67	0	1	30	1.00
49743658--49743829	22	7.1	24	76	17	162	33	0	12	53	1.43
49743693--49743805	8	13.4	8	66	17	59	35	0	12	51	1.46
49743661--49743832	49	3.6	49	86	6	244	32	0	12	54	1.43
49743660--49743781	27	5.0	25	83	15	157	33	0	12	54	1.38
49743875--49743912	19	2.0	19	89	0	58	36	5	7	50	1.54
49746266--49746334	34	2.0	34	100	0	138	31	20	11	36	1.88
49748215--49748512	108	2.8	108	91	0	488	35	18	16	29	1.93
49749050--49749098	3	16.3	3	87	8	73	65	0	2	32	1.04
49750674--49751120	129	3.5	129	91	1	664	29	20	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49750956--49751295	175	1.9	175	89	0	527	28	21	19	31	1.97
49750827--49751592	304	2.5	304	93	0	1273	28	21	18	31	1.97
49751131--49751424	129	2.3	129	94	0	507	28	21	19	30	1.97
49751264--49751547	85	3.3	85	70	12	243	28	20	19	31	1.97
49751214--49751683	175	2.7	175	88	1	703	28	21	18	31	1.97
49750781--49751592	44	18.7	44	67	12	304	28	21	18	31	1.97
49750674--49751584	433	2.1	429	82	4	1132	28	21	18	31	1.97
49751759--49751896	44	3.2	44	65	15	106	31	24	18	24	1.98
49751706--49752216	88	5.8	88	88	2	626	26	23	22	27	1.99
49751890--49752204	44	7.2	44	65	16	186	24	23	24	27	2.00
49753296--49753342	21	2.2	21	88	0	67	25	38	10	25	1.88
49754288--49754354	11	6.0	11	80	16	68	0	19	0	80	0.71
49754302--49754359	8	7.2	8	78	16	50	0	18	0	81	0.70
49754290--49754356	19	3.6	18	88	9	91	0	17	0	82	0.68
49754289--49754364	7	10.7	7	80	10	68	1	17	0	81	0.76
49757880--49758177	108	2.8	108	95	0	533	34	19	16	29	1.94
49759929--49759987	17	3.5	17	82	15	77	37	1	0	61	1.07
49759929--49759989	8	7.4	8	78	10	61	37	1	0	60	1.07
49760840--49760886	24	2.0	23	84	12	60	51	4	14	29	1.62
49763109--49763197	22	4.0	22	83	0	115	40	16	23	19	1.91
49763113--49763211	44	2.2	44	81	5	117	38	17	25	19	1.93
49764335--49764475	70	2.0	72	90	2	223	35	19	15	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49765091--49765142	26	2.0	27	88	3	79	63	3	1	30	1.23
49766038--49766073	17	2.2	17	90	5	56	75	0	11	13	1.06
49767917--49768020	39	2.7	39	92	1	174	53	26	1	17	1.54
49770459--49770518	27	2.2	28	85	5	79	60	1	0	38	1.07
49770459--49770518	26	2.2	26	85	5	75	60	1	0	38	1.07
49770823--49770885	17	3.5	17	71	12	54	38	3	7	50	1.47
49770893--49770923	9	3.4	9	95	0	53	25	9	22	41	1.84
49775821--49775866	11	4.3	10	82	15	56	23	32	0	43	1.54
49777665--49777707	18	2.4	18	92	0	68	20	27	6	44	1.77
49780160--49780444	124	2.3	124	91	1	455	29	20	18	31	1.96
49785646--49785677	3	10.7	3	100	0	64	0	31	0	68	0.90
49803353--49803395	18	2.4	18	88	7	61	41	44	2	11	1.53
49806865--49806901	17	2.1	18	90	5	58	43	5	5	45	1.49
49813503--49814931	100	14.3	100	86	1	1844	33	22	20	23	1.97
49816586--49816620	17	2.0	18	88	5	54	45	5	5	42	1.51
49819302--49819702	26	15.2	25	74	15	251	59	3	6	29	1.41
49819404--49819452	22	2.3	23	86	10	68	63	4	2	30	1.24
49819352--49819588	75	3.1	74	74	16	185	62	4	4	29	1.33
49819639--49819706	29	2.3	29	78	14	77	66	1	4	27	1.20
49820501--49820536	19	1.9	18	88	5	54	80	8	11	0	0.90
49825896--49826182	124	2.3	124	90	0	448	32	17	20	29	1.96
49829280--49829400	49	2.5	49	95	0	215	45	8	3	42	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49829539--49829578	21	1.9	21	85	10	55	12	17	37	32	1.87
49831288--49831417	50	2.6	50	92	0	215	30	24	10	34	1.89
49831388--49831434	7	6.7	7	100	0	94	27	29	0	42	1.56
49831449--49831521	37	2.0	37	97	0	137	36	23	15	24	1.93
49840212--49840277	28	2.4	27	80	14	73	68	3	0	28	1.05
49840207--49840269	26	2.5	26	75	14	69	69	3	0	26	1.03
49840898--49840939	20	2.1	21	86	8	61	52	0	2	45	1.13
49846876--49846910	7	5.0	7	100	0	70	85	0	14	0	0.59
49859513--49859557	21	2.1	21	84	8	56	60	2	8	28	1.39
49859734--49859773	19	2.1	19	85	0	53	42	2	0	55	1.13
49859866--49860070	90	2.2	91	80	7	216	34	7	20	37	1.81
49863414--49863608	37	5.0	37	83	10	255	35	15	22	27	1.94
49863378--49863608	74	2.9	78	83	11	272	35	14	22	28	1.93
49863525--49863648	46	2.8	46	91	3	200	33	16	22	27	1.96
49868935--49868972	19	2.0	20	84	5	51	47	2	0	50	1.15
49877394--49877435	21	2.0	21	95	0	75	45	16	23	14	1.84
49878849--49878912	10	6.4	10	77	15	62	67	0	1	31	1.00
49878843--49878917	30	2.5	31	82	8	84	60	0	2	37	1.11
49878849--49878965	11	11.2	11	76	13	70	58	0	1	40	1.08
49878843--49878984	9	14.2	10	72	20	59	57	0	1	40	1.07
49878843--49878954	41	2.7	41	82	9	136	57	0	1	41	1.09
49878931--49878993	17	3.6	16	79	12	63	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49879403--49879438	18	1.9	18	88	5	54	58	0	0	41	0.98
49879554--49879587	17	2.0	17	88	0	50	26	0	5	67	1.13
49879917--49879975	7	8.6	7	86	1	75	38	5	1	54	1.33
49882079--49882135	28	2.0	28	100	0	114	50	7	7	35	1.56
49883963--49884063	22	4.3	24	83	3	93	15	23	20	39	1.91
49885742--49885863	52	2.4	51	85	1	163	36	18	15	29	1.92
49886130--49886162	17	1.9	17	93	0	57	51	12	18	18	1.76
49892425--49892476	15	3.2	15	73	19	50	44	0	1	53	1.11
49892568--49892616	25	2.1	24	85	11	66	44	0	0	55	0.99
49892582--49892616	16	2.3	16	90	9	56	40	0	0	60	0.97

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