genome.fa.s5.2.7.7.80.10.50.1000.196.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  196  of  208  ( 24913 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)
59706952--59706978	3	9.0	3	100	0	54	33	0	33	33	1.58
59717380--59717416	5	7.0	5	88	11	56	37	0	40	21	1.54
59723377--59723401	7	3.6	7	100	0	50	88	0	0	12	0.53
59726827--59726884	28	2.1	28	100	0	116	37	17	13	31	1.89
59729093--59729140	23	2.1	23	88	0	69	50	10	0	39	1.37
59736821--59736861	18	2.1	18	86	13	55	70	0	2	26	0.99
59737008--59737067	30	2.0	30	96	0	111	41	15	13	30	1.85
59740461--59740546	42	2.0	42	100	0	172	38	20	12	27	1.90
59748173--59748207	2	17.5	2	93	0	61	48	0	2	48	1.16
59748423--59748479	29	2.1	26	83	9	69	49	5	8	36	1.57
59748717--59748796	3	26.7	3	80	9	92	62	2	2	32	1.22
59750397--59750622	50	4.5	48	74	8	166	23	21	22	33	1.97
59750347--59751168	100	8.3	99	80	7	695	26	20	20	31	1.98
59750614--59751163	50	11.1	50	79	7	586	27	20	20	30	1.98
59750647--59751117	245	1.9	245	86	4	673	27	20	20	32	1.97
59750457--59751174	100	7.2	101	80	8	778	26	20	20	31	1.98
59751275--59751423	49	3.0	50	70	11	160	20	23	26	29	1.99
59751275--59751475	100	2.0	101	98	0	386	21	22	25	29	1.99
59751283--59751463	51	3.6	51	73	8	190	20	24	25	29	1.99
59752557--59752658	43	2.4	42	79	12	109	27	24	15	32	1.96
59753884--59753943	6	10.0	6	100	0	120	16	0	0	83	0.65
59753977--59754010	6	5.7	6	96	0	59	2	0	11	85	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59758688--59758741	26	2.1	26	82	6	65	50	5	9	35	1.58
59763219--59763507	50	5.7	50	85	3	303	26	21	28	22	1.99
59763222--59763507	149	1.9	152	81	6	355	26	21	29	22	1.99
59765069--59765162	9	10.4	9	82	0	107	40	24	9	25	1.85
59770230--59770254	12	2.1	12	100	0	50	60	16	0	24	1.36
59772710--59772770	29	2.1	30	85	14	83	31	14	1	52	1.52
59774957--59775004	19	2.4	20	83	16	64	56	4	4	35	1.38
59782372--59782396	13	1.9	13	100	0	50	72	4	8	16	1.24
59785347--59785389	21	2.1	21	86	4	61	48	16	11	23	1.78
59787033--59787099	33	2.0	32	82	5	80	37	8	4	49	1.55
59787282--59787319	19	2.1	19	90	5	60	28	5	5	60	1.40
59788387--59788439	2	26.0	2	92	3	88	49	3	0	47	1.19
59790743--59790823	34	2.4	34	83	8	94	29	17	25	27	1.97
59793258--59793427	92	1.8	92	82	0	214	39	15	13	31	1.86
59798606--59798658	14	3.5	15	76	7	54	26	1	1	69	1.09
59798606--59798663	30	1.9	30	86	6	82	27	1	1	68	1.08
59803425--59803456	3	10.7	3	100	0	64	34	0	0	65	0.93
59807242--59807283	3	14.0	3	100	0	84	33	0	0	66	0.92
59808341--59808378	18	2.1	18	90	0	58	26	7	23	42	1.81
59814197--59814265	34	2.0	34	100	0	138	40	17	11	30	1.85
59816854--59816888	13	2.6	14	90	4	54	48	0	2	48	1.16
59818009--59818042	17	1.9	18	88	5	52	73	2	2	20	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59819430--59819459	2	15.0	2	100	0	60	50	0	0	50	1.00
59820014--59820288	86	3.2	86	73	9	272	37	15	12	34	1.85
59835310--59835355	23	2.0	23	100	0	92	30	17	21	30	1.96
59835823--59835896	23	3.3	23	64	17	64	37	6	9	45	1.63
59835801--59835948	45	3.3	45	96	0	269	38	6	6	47	1.56
59835806--59835926	13	8.2	13	69	21	62	38	7	5	48	1.55
59837768--59837910	18	8.0	18	73	9	96	46	11	12	30	1.77
59837771--59837851	35	2.2	37	82	8	96	49	13	11	25	1.75
59837775--59838066	17	16.1	17	69	19	128	43	11	14	30	1.80
59837935--59838066	35	3.8	34	78	6	140	41	11	15	31	1.83
59838364--59838420	10	5.8	10	78	8	55	1	21	0	77	0.86
59838371--59838419	21	2.4	21	76	10	57	2	22	0	75	0.90
59838441--59838495	24	2.3	23	82	14	76	3	30	43	21	1.70
59838441--59838505	25	2.6	25	87	4	96	3	30	44	21	1.67
59838514--59838584	24	3.0	24	82	13	92	0	22	7	70	1.11
59838518--59838575	28	2.1	28	87	6	82	0	22	5	72	1.04
59838683--59838753	7	9.4	7	74	10	52	0	22	0	77	0.77
59838696--59838767	24	3.0	24	86	7	103	0	27	0	72	0.85
59838686--59838776	4	23.5	4	74	16	77	0	25	0	74	0.82
59838688--59838777	35	2.7	33	84	10	112	0	26	0	73	0.84
59838873--59838916	21	2.0	22	86	4	63	0	15	4	79	0.89
59838873--59838907	11	3.1	11	87	4	52	0	14	0	85	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59838872--59838934	9	6.9	9	77	10	56	0	15	4	79	0.90
59838873--59838939	26	2.7	26	80	11	79	0	16	5	77	0.95
59839314--59839427	59	1.9	60	89	1	176	37	2	24	35	1.70
59839286--59839434	30	5.0	30	84	4	167	38	4	23	32	1.76
59839620--59840373	77	9.8	76	89	4	992	36	19	16	27	1.94
59839620--59840373	155	4.9	153	89	5	996	36	19	16	27	1.94
59841251--59841308	11	5.1	11	86	12	73	1	3	13	81	0.91
59841253--59841298	24	1.9	24	91	8	76	2	4	15	78	1.01
59841243--59841303	8	7.6	8	74	7	52	1	4	11	81	0.90
59846192--59846216	2	12.5	2	100	0	50	52	0	0	48	1.00
59846825--59846949	18	6.8	18	70	7	90	44	12	11	32	1.77
59847434--59847492	10	6.2	10	79	12	63	1	18	0	79	0.81
59847434--59847492	21	2.9	20	80	11	75	1	18	0	79	0.81
59847512--59847562	24	2.2	25	86	10	72	3	29	45	21	1.70
59847594--59847663	25	3.0	23	84	10	88	0	24	7	68	1.14
59847593--59847658	23	2.7	24	80	19	82	0	25	7	66	1.18
59847770--59847849	4	21.5	4	73	16	66	0	27	0	72	0.85
59847785--59847851	14	4.8	14	74	18	50	0	31	0	68	0.90
59847772--59847837	25	2.6	26	86	9	84	0	27	0	72	0.85
59847946--59847989	21	2.0	22	86	4	63	0	15	4	79	0.89
59847946--59847980	11	3.1	11	87	4	52	0	14	0	85	0.59
59847945--59848007	9	6.9	9	77	10	56	0	15	4	79	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59847946--59848012	26	2.7	26	80	11	79	0	16	5	77	0.95
59848389--59848502	59	1.9	60	87	1	167	36	2	25	35	1.70
59848360--59848509	30	5.0	30	80	3	160	38	4	24	32	1.76
59851543--59851595	13	4.1	13	77	0	61	35	28	7	28	1.84
59852799--59852827	2	14.5	2	100	0	58	51	0	0	48	1.00
59853832--59853899	31	2.2	31	84	5	84	44	10	13	32	1.77
59866198--59866429	9	25.3	9	63	20	63	62	3	3	30	1.29
59866450--59866486	18	2.1	17	90	5	56	64	5	2	27	1.28
59866690--59866794	9	11.6	9	69	17	58	25	0	3	69	1.11
59866691--59866786	28	3.5	27	78	13	90	26	1	4	68	1.14
59866775--59866813	8	4.6	8	81	12	51	23	2	2	71	1.10
59870040--59870073	13	2.8	12	86	4	50	29	0	0	70	0.87
59870253--59870288	11	3.3	11	88	0	54	61	8	8	22	1.51
59870829--59870948	41	2.9	41	83	4	161	41	17	24	16	1.89
59871056--59871085	14	2.1	14	93	0	51	43	36	3	16	1.65
59871147--59871206	25	2.4	25	82	0	75	15	41	18	25	1.89
59871813--59871871	28	2.1	28	93	0	100	44	6	11	37	1.68
59873984--59874158	21	8.3	21	80	4	192	44	16	23	16	1.86
59873984--59874159	42	4.2	42	84	1	228	44	16	23	15	1.86
59875753--59876011	43	6.0	42	80	4	250	23	15	28	31	1.96
59885764--59885789	3	8.7	3	100	0	52	34	0	34	30	1.58
59888859--59888919	29	2.1	28	84	3	77	31	13	14	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59889327--59889396	22	3.2	22	87	4	97	41	0	25	32	1.56
59892148--59892176	2	14.5	2	100	0	58	51	0	0	48	1.00
59892289--59892348	3	21.0	3	80	10	63	60	0	5	35	1.19
59898266--59898416	33	4.5	33	80	6	162	18	9	33	39	1.83
59899914--59899958	22	2.0	24	86	8	67	44	11	4	40	1.60
59902702--59902729	14	2.0	14	100	0	56	0	7	0	92	0.37
59914202--59914244	21	2.0	22	95	4	79	74	2	0	23	0.93
59919690--59919749	29	2.1	28	81	6	68	46	18	11	23	1.81
59924214--59924278	32	2.0	32	100	0	130	43	6	0	50	1.27
59925035--59925083	24	2.1	23	85	11	64	55	6	16	22	1.63

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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208