genome.fa.s5.2.7.7.80.10.50.1000.155.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  155  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)
47230258--47230311	16	3.3	16	87	10	74	79	1	1	16	0.91
47234480--47234673	43	4.5	43	73	7	169	34	21	16	27	1.95
47234480--47234675	86	2.3	86	76	7	200	33	21	16	27	1.95
47249011--47249057	21	2.2	22	88	3	69	21	17	38	23	1.93
47252388--47252416	2	15.0	2	92	7	51	51	0	0	48	1.00
47254944--47255062	62	2.0	60	86	6	168	34	5	7	52	1.51
47256192--47256272	43	1.9	42	89	2	126	25	20	1	51	1.55
47262904--47263387	126	3.9	125	82	4	528	28	15	14	40	1.87
47269105--47269145	18	2.3	18	95	0	73	60	9	0	29	1.28
47270194--47270237	17	2.6	17	88	0	61	45	4	2	47	1.35
47281587--47281703	3	39.0	3	86	0	108	32	10	0	56	1.39
47285209--47285241	14	2.4	14	100	0	66	18	18	30	33	1.94
47285569--47285682	44	2.6	44	76	4	104	27	25	16	30	1.97
47300797--47300829	14	2.4	14	100	0	66	18	18	30	33	1.94
47306864--47306925	25	2.5	24	74	7	61	53	9	1	35	1.44
47311508--47311534	7	3.9	7	100	0	54	40	0	0	59	0.98
47316439--47316476	20	2.0	20	84	5	51	42	2	2	52	1.29
47317668--47317975	43	7.2	43	87	2	368	30	29	18	21	1.97
47317668--47317975	86	3.6	86	87	0	427	30	29	18	21	1.97
47317668--47318016	129	2.7	128	80	4	389	31	28	17	22	1.97
47318910--47318993	40	2.1	40	84	4	107	48	14	5	30	1.67
47319005--47319175	88	2.0	88	82	2	211	45	16	5	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47323878--47323918	21	1.9	22	90	5	66	46	21	0	31	1.52
47324168--47324322	41	3.8	41	86	0	202	30	23	20	25	1.99
47324354--47324448	39	2.4	40	77	10	104	20	22	21	36	1.95
47324353--47324489	40	3.4	41	79	3	118	20	21	21	37	1.95
47325949--47325978	14	2.1	14	100	0	60	43	6	16	33	1.74
47331034--47331250	108	2.0	108	93	1	373	37	29	15	17	1.91
47337190--47337220	13	2.4	13	100	0	62	93	6	0	0	0.35
47339570--47339614	2	22.5	2	90	0	72	0	48	0	51	1.00
47340764--47340811	15	3.1	15	77	14	53	31	0	0	68	0.90
47344325--47344420	44	2.2	44	82	0	120	27	25	19	28	1.99
47344433--47344758	132	2.5	132	86	4	444	24	23	21	30	1.99
47344566--47344750	44	4.2	44	64	15	112	22	21	22	32	1.98
47345585--47345622	17	2.2	18	85	4	51	60	10	2	26	1.43
47353314--47353368	25	2.2	24	83	3	65	20	23	25	30	1.98
47356695--47356729	17	2.1	17	88	0	52	51	0	8	40	1.33
47358429--47358483	27	2.0	25	80	19	58	41	5	9	43	1.59
47360942--47360993	23	2.3	23	93	0	86	34	0	15	50	1.45
47360951--47360993	13	3.5	13	81	18	65	34	0	16	48	1.46
47360949--47360995	23	2.0	23	100	0	94	36	0	17	46	1.48
47368379--47368416	18	2.1	18	100	0	76	34	23	21	21	1.97
47375361--47375397	17	2.1	18	95	5	67	70	0	0	29	0.88
47381141--47381311	10	16.8	10	72	17	81	58	0	1	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47381146--47381311	11	15.2	11	69	19	73	60	0	1	37	1.08
47381140--47381204	32	2.1	31	91	2	103	52	0	0	47	1.00
47381142--47381355	38	5.5	39	86	9	251	59	0	1	38	1.08
47381295--47381352	17	3.4	17	73	17	66	62	0	1	36	1.06
47381297--47381361	34	1.9	34	96	0	121	64	0	1	33	1.03
47386670--47386940	55	4.9	56	83	4	273	33	16	15	34	1.91
47386662--47386940	110	2.5	109	81	8	303	33	16	15	34	1.91
47390016--47390518	250	2.0	250	99	0	988	16	20	32	31	1.95
47398190--47398271	23	3.4	23	83	8	85	24	20	21	32	1.98
47398212--47398289	23	3.2	23	79	12	75	28	21	23	26	1.99
47398230--47398289	26	2.4	25	81	8	68	30	23	23	23	1.99
47399081--47399107	11	2.5	11	100	0	54	59	0	0	40	0.98
47399104--47399203	51	2.0	51	88	4	148	45	2	27	26	1.65
47399163--47399231	22	3.0	23	80	18	81	42	1	33	23	1.63
47399128--47399227	11	9.4	11	69	17	68	43	2	31	24	1.65
47400283--47400325	19	2.3	19	80	4	52	62	2	2	32	1.20
47400664--47400756	20	4.8	21	75	15	74	45	0	1	53	1.07
47400683--47400773	37	2.6	35	72	19	82	47	0	0	52	1.00
47400706--47400763	20	3.0	20	85	9	68	50	0	0	50	1.00
47400706--47400763	19	3.0	20	85	9	77	50	0	0	50	1.00
47401728--47401774	25	1.9	24	83	12	60	31	0	17	51	1.46
47407535--47407566	16	1.9	17	93	6	57	37	21	0	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47407727--47407885	84	1.9	84	87	5	232	32	28	17	22	1.96
47407727--47407897	43	4.0	42	79	13	188	33	28	16	21	1.95
47414895--47414957	21	2.7	24	80	14	78	9	7	7	74	1.22
47418699--47418876	9	19.2	9	66	21	57	34	4	1	60	1.24
47418762--47418876	19	6.3	19	68	15	55	37	2	0	59	1.18
47418810--47418869	27	2.1	29	82	14	81	38	0	1	60	1.07
47418822--47418876	19	2.9	19	89	5	60	34	0	0	65	0.93
47421034--47421070	10	3.7	10	92	0	56	72	5	0	21	1.04
47421034--47421073	11	3.6	11	86	10	55	70	5	0	25	1.08
47421034--47421074	21	1.9	22	90	5	66	68	7	0	24	1.15
47422217--47422279	17	3.6	18	73	16	60	58	3	23	14	1.50
47422219--47422292	34	2.2	35	90	4	116	58	4	25	12	1.52
47441569--47441628	2	31.0	2	74	12	54	48	3	3	45	1.35
47448671--47448761	41	2.2	41	92	0	146	28	23	19	28	1.98
47448671--47448776	41	2.6	41	82	5	108	29	23	20	26	1.99
47449166--47449233	2	35.0	2	77	11	70	48	2	2	45	1.32
47450384--47450408	13	1.9	13	100	0	50	68	24	0	8	1.16
47456350--47456440	41	2.2	41	92	0	146	28	23	19	28	1.98
47456350--47456455	41	2.6	41	82	5	108	29	23	20	26	1.99
47456841--47456900	2	31.0	2	74	12	54	48	3	3	45	1.35
47466129--47466171	22	2.0	22	100	0	86	37	13	25	23	1.92
47468929--47468972	23	1.9	23	85	0	61	63	2	2	31	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47473156--47473208	21	2.5	20	82	8	70	30	33	7	28	1.85
47475058--47475123	21	3.1	21	78	6	71	16	16	7	59	1.59
47482069--47482138	36	1.9	37	91	2	115	48	2	1	47	1.25
47482415--47482439	13	1.9	13	100	0	50	48	16	4	32	1.64
47484520--47484610	3	30.7	3	78	10	98	31	2	3	62	1.23
47486536--47486938	109	3.7	109	90	2	607	33	19	17	29	1.95
47487668--47487716	12	4.1	12	83	0	53	53	2	10	34	1.47
47487681--47487733	21	2.5	21	84	0	61	52	1	9	35	1.45
47487721--47487760	15	2.7	16	81	14	50	65	5	2	27	1.27
47489556--47489911	45	7.9	45	82	1	410	28	24	17	29	1.97
47492565--47492597	16	2.1	16	100	0	66	24	18	18	39	1.92
47493454--47493496	19	2.3	17	78	21	50	41	11	23	23	1.87
47494894--47495096	106	1.9	107	83	1	264	35	18	15	30	1.92
47495920--47496118	106	1.9	107	89	3	312	27	17	20	35	1.94
47498155--47498295	57	2.5	56	84	6	180	51	2	1	43	1.25
47498578--47498631	21	2.6	21	80	8	65	9	18	12	59	1.60
47499558--47499599	13	2.9	14	79	13	50	61	14	2	21	1.43
47499696--47499747	16	3.4	16	81	5	54	76	9	1	11	1.09
47499880--47499923	18	2.4	18	81	7	54	52	4	6	36	1.49
47501575--47502159	132	4.4	132	92	0	954	25	24	19	30	1.98
47505293--47505472	41	4.4	41	86	4	213	20	28	21	29	1.98
47505327--47505485	41	3.9	41	88	3	221	20	28	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47513197--47513242	24	1.9	24	86	8	67	10	23	17	47	1.79
47517209--47517256	16	2.9	16	87	9	69	52	6	4	37	1.46
47522017--47522061	22	2.0	22	100	0	90	37	4	17	40	1.70
47528570--47528694	31	4.1	31	66	19	91	20	24	20	34	1.96
47528516--47528694	91	2.0	91	88	0	268	21	22	20	35	1.96
47536178--47536304	43	3.0	43	75	4	114	29	21	20	28	1.98
47536691--47536739	21	2.3	21	92	0	80	4	40	20	34	1.71
47538710--47538741	7	4.6	7	92	0	55	75	9	12	3	1.16
47538698--47538741	21	2.1	21	91	8	72	70	11	13	4	1.31
47538717--47538756	14	2.8	14	88	3	53	75	7	10	7	1.20

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