genome.fa.s11.2.7.7.80.10.50.1000.164.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  164  of  210  ( 25152 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)
49372810--49372846	19	2.0	18	89	5	56	78	0	0	21	0.75
49372889--49372968	39	2.1	39	97	0	151	20	21	21	37	1.94
49375597--49375646	23	2.2	22	82	10	57	46	36	4	14	1.63
49377280--49377306	5	5.4	5	100	0	54	18	0	0	81	0.69
49378237--49378355	41	2.9	41	91	0	175	20	21	31	27	1.98
49378439--49378486	25	1.9	25	83	8	62	60	8	10	20	1.55
49378998--49379046	14	3.4	14	88	2	71	22	0	38	38	1.54
49378630--49379496	283	3.0	286	87	6	1151	28	2	27	41	1.67
49379283--49379329	14	3.3	15	88	8	71	25	0	34	40	1.56
49379276--49379393	21	5.5	21	70	11	71	25	0	36	38	1.56
49379326--49379399	14	5.1	15	75	16	59	24	0	37	37	1.56
49384157--49384220	22	2.9	22	92	0	101	23	26	15	34	1.95
49389237--49389548	85	3.7	86	82	3	328	26	17	28	27	1.98
49389237--49389546	43	7.3	43	83	4	333	26	17	28	27	1.98
49397067--49397130	32	2.0	32	100	0	128	25	25	9	40	1.85
49400965--49401406	45	9.7	45	75	10	335	32	16	20	30	1.95
49403157--49403191	3	11.7	3	93	0	61	28	0	2	68	1.04
49403157--49403213	15	3.7	15	80	13	62	29	3	3	63	1.28
49407950--49408021	33	2.2	33	85	7	92	16	5	4	73	1.18
49415025--49415085	24	2.5	24	83	0	86	34	9	24	31	1.88
49415390--49415673	88	3.2	88	85	0	406	29	19	23	28	1.98
49415616--49416248	132	4.8	132	87	0	883	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49416330--49416468	51	2.7	51	82	4	165	30	15	27	25	1.96
49416528--49416688	44	3.7	43	78	10	155	29	18	22	30	1.97
49416528--49416688	88	1.8	88	84	5	218	29	18	22	30	1.97
49416528--49416726	44	4.5	44	74	12	124	29	17	21	31	1.96
49417088--49417135	24	2.0	24	88	8	71	39	33	10	16	1.83
49418974--49419042	35	2.0	35	100	0	138	24	5	11	57	1.55
49424193--49424468	43	6.4	43	82	5	310	31	30	16	22	1.95
49424193--49424469	129	2.2	129	84	4	364	31	30	16	22	1.95
49427340--49427378	16	2.4	17	87	12	55	66	2	0	30	1.05
49428833--49428889	16	3.6	16	95	0	87	29	0	36	33	1.58
49429135--49429169	18	2.0	17	88	5	52	54	0	0	45	0.99
49429022--49429338	157	2.0	157	96	0	589	45	3	4	47	1.40
49429272--49429313	15	2.7	16	82	14	52	52	2	0	45	1.13
49429281--49429322	15	2.9	15	82	10	52	52	0	0	47	1.00
49429270--49429566	120	2.5	121	90	6	453	50	5	3	41	1.41
49429391--49429442	15	3.6	15	80	12	56	53	1	0	44	1.11
49429310--49429493	59	3.1	59	65	21	148	48	7	2	41	1.44
49429527--49429565	17	2.5	15	80	15	51	51	0	5	43	1.24
49429532--49429565	17	2.0	17	94	0	59	50	0	5	44	1.26
49429611--49429790	93	2.0	91	86	8	258	48	5	3	42	1.41
49437257--49437344	14	6.1	15	75	13	62	35	43	0	21	1.53
49437272--49437320	7	6.9	7	76	4	53	32	46	0	20	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49437283--49437344	22	2.9	22	82	2	63	37	45	0	17	1.49
49437570--49437655	15	5.9	15	72	15	54	34	44	0	20	1.52
49437906--49438015	41	2.7	41	86	0	148	26	30	21	20	1.98
49437988--49438159	72	2.4	72	87	1	229	25	25	23	25	2.00
49438060--49438271	113	1.9	113	94	0	379	28	26	21	23	1.99
49438396--49438431	17	2.1	18	90	10	58	58	0	2	38	1.13
49438557--49438619	29	2.2	29	82	0	81	30	12	15	41	1.85
49438877--49438993	22	5.2	22	81	10	71	37	23	1	36	1.66
49438889--49438998	22	5.0	21	80	10	114	33	26	1	38	1.67
49439036--49439099	29	2.2	29	83	5	85	40	0	1	57	1.08
49439190--49439223	15	2.3	15	90	5	52	26	0	5	67	1.13
49441368--49441577	28	7.9	28	80	11	262	47	20	0	31	1.54
49441373--49441577	50	3.9	51	88	7	313	47	20	0	31	1.51
49442139--49442394	125	2.1	124	87	2	361	30	22	16	30	1.96
49442169--49442405	125	1.9	127	88	3	363	30	23	15	30	1.95
49442465--49442537	7	10.1	7	79	5	83	46	35	2	15	1.60
49445450--49445493	16	2.6	17	82	10	54	29	0	9	61	1.27
49445638--49445690	28	1.9	27	88	3	79	49	1	1	47	1.23
49447451--49447644	94	2.1	94	97	0	363	42	18	7	31	1.78
49449408--49449438	16	1.9	16	93	0	53	61	0	0	38	0.96
49460937--49460970	7	4.9	7	92	0	59	85	2	11	0	0.71
49462494--49462528	4	8.8	4	100	0	70	51	0	22	25	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49467244--49467312	29	2.4	28	77	20	70	42	5	1	50	1.35
49469582--49469624	18	2.4	18	84	7	52	51	4	0	44	1.22
49469725--49469770	22	2.2	22	88	11	71	36	8	0	54	1.32
49470336--49470360	13	1.9	13	100	0	50	28	0	0	72	0.86
49470568--49470603	14	2.7	13	87	8	54	75	0	0	25	0.81
49471252--49471288	9	4.1	9	92	0	65	45	13	10	29	1.77
49472285--49472309	5	5.0	5	100	0	50	20	20	20	40	1.92
49475136--49475302	68	2.5	68	85	0	226	26	20	15	37	1.92
49478164--49478334	89	1.9	89	86	0	243	29	20	18	31	1.96
49478297--49478527	95	2.5	93	78	4	252	28	19	18	34	1.95
49478625--49479333	89	7.9	89	77	7	603	29	19	16	34	1.94
49478133--49479333	44	26.6	44	73	10	669	29	19	17	33	1.95
49487464--49487514	19	2.7	19	88	8	70	43	5	19	31	1.75
49489281--49489327	9	5.8	8	82	9	51	59	2	4	34	1.29
49502355--49502386	2	16.0	2	100	0	64	50	0	0	50	1.00
49505065--49505099	18	1.9	18	100	0	70	57	17	2	22	1.53
49520840--49521139	152	2.0	147	96	3	546	35	12	20	32	1.89
49521334--49521384	26	2.0	26	84	7	68	27	11	11	49	1.74
49526417--49526606	102	1.9	102	84	0	254	40	15	12	32	1.84
49528787--49528825	14	2.8	14	84	0	60	12	17	0	69	1.19
49532128--49532162	4	8.8	4	93	0	61	45	0	25	28	1.54
49533499--49533567	16	4.3	16	79	0	75	44	4	27	23	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49533682--49533770	35	2.5	35	80	10	92	51	2	1	44	1.21
49533738--49533844	55	1.9	56	81	11	130	51	2	1	43	1.27
49537611--49537655	19	2.5	18	82	17	58	66	0	26	6	1.16
49545662--49545788	67	1.9	67	96	0	236	37	19	9	33	1.84
49546455--49546484	15	2.1	15	93	6	53	53	26	0	20	1.46
49549538--49549594	19	2.7	22	84	10	66	36	8	15	38	1.79
49551420--49551459	14	2.9	14	84	0	53	32	7	17	42	1.77
49551443--49551482	20	2.0	20	90	0	62	27	10	12	50	1.72
49551428--49551494	34	1.9	35	90	3	109	31	8	13	46	1.74
49551648--49551702	25	2.4	25	80	20	66	60	5	0	34	1.20
49553814--49553862	6	8.2	6	93	0	71	38	0	61	0	0.96
49555692--49555746	17	2.8	20	76	21	62	49	5	1	43	1.36
49562701--49562814	48	2.4	48	81	1	147	60	0	3	35	1.20
49562716--49562839	38	3.3	38	80	14	134	60	0	4	34	1.18
49562758--49562788	12	2.6	12	100	0	62	54	0	6	38	1.26
49563838--49565083	630	2.0	630	87	2	1807	35	15	10	37	1.83
49568696--49568742	4	11.8	4	90	0	76	25	2	21	51	1.59
49577981--49578106	59	2.2	58	86	1	171	26	19	11	42	1.85
49589222--49589259	18	2.1	18	95	0	67	21	15	34	28	1.94
49598476--49598601	64	2.0	64	88	0	189	22	19	23	34	1.96
49598584--49598642	23	2.5	23	86	5	73	20	25	18	35	1.95
49598694--49598744	26	2.0	26	84	0	66	27	15	19	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49598782--49598840	23	2.6	24	79	15	63	20	16	18	44	1.87
49598824--49598875	26	2.0	26	85	7	70	13	15	23	48	1.80
49602084--49602187	51	2.0	51	100	0	208	39	17	9	33	1.82
49603076--49603136	29	2.1	29	84	3	77	42	0	36	21	1.53
49603427--49603457	9	3.4	9	90	0	53	38	22	12	25	1.90
49603517--49603551	16	2.2	16	89	0	52	25	31	22	20	1.98
49604635--49604678	21	2.1	21	100	0	88	40	40	9	9	1.68
49609085--49609130	18	2.5	18	85	3	56	34	15	15	34	1.89
49609170--49609206	9	4.1	9	92	0	65	45	13	10	29	1.77
49610449--49610496	24	2.0	24	88	4	71	33	20	29	16	1.95

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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210