genome.fa.s11.2.7.7.80.10.50.1000.186.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  186  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)
55035226--55035620	50	7.9	50	70	5	233	32	22	21	24	1.98
55035226--55035620	100	4.0	100	88	0	540	32	22	21	24	1.98
55035639--55035756	44	2.6	45	84	6	143	29	20	21	28	1.98
55036633--55036680	22	2.2	22	96	0	87	4	20	22	52	1.64
55037546--55037636	34	2.7	34	85	8	123	36	2	3	58	1.27
55037703--55037742	3	13.3	3	100	0	80	35	0	0	65	0.93
55039992--55040140	47	3.0	48	82	7	183	24	14	24	36	1.93
55061277--55061317	20	2.0	21	85	4	57	19	0	34	46	1.50
55061307--55061384	14	5.4	15	70	11	56	25	1	34	38	1.64
55066650--55066683	11	3.1	11	82	0	50	20	32	2	44	1.67
55066650--55066699	22	2.3	22	89	6	75	24	32	2	42	1.66
55066661--55066760	51	2.0	51	86	7	141	26	28	2	44	1.65
55067738--55067890	78	2.0	78	96	2	281	30	18	15	34	1.93
55067970--55067995	7	3.7	7	100	0	52	26	0	15	57	1.38
55068641--55068683	18	2.4	18	80	0	50	18	30	9	41	1.82
55068924--55068971	21	2.3	21	78	7	53	37	35	16	10	1.83
55069178--55069217	7	5.9	7	83	16	57	42	0	0	57	0.98
55069178--55069220	12	3.3	12	90	9	59	41	0	0	58	0.98
55069243--55069302	27	2.2	27	100	0	120	40	35	0	25	1.56
55069282--55069314	15	2.2	15	94	0	57	48	24	0	27	1.51
55069299--55069362	21	3.1	21	78	17	71	43	35	3	17	1.65
55069318--55069394	33	2.3	33	81	0	91	44	33	2	19	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55069329--55069367	21	1.9	21	89	5	62	43	33	5	17	1.72
55069364--55069415	27	1.9	27	88	0	77	42	32	0	25	1.55
55069438--55069469	6	5.3	6	92	0	55	37	43	0	18	1.51
55069484--55069645	35	4.4	36	70	10	114	46	9	4	38	1.59
55069467--55069705	111	2.1	112	93	2	401	44	7	6	41	1.60
55069700--55069741	16	2.6	16	96	0	75	45	4	2	47	1.36
55086847--55086907	28	2.2	28	100	0	122	29	13	18	39	1.88
55088794--55088819	6	4.3	6	100	0	52	15	15	38	30	1.88
55091731--55091830	53	1.9	50	82	9	121	57	10	7	26	1.57
55091673--55091873	92	2.2	92	85	7	268	55	9	7	26	1.59
55094854--55094909	28	2.0	28	96	0	103	33	25	12	28	1.92
55100552--55100590	3	13.0	3	100	0	78	33	0	0	66	0.92
55100589--55100620	3	10.7	3	100	0	64	34	31	0	34	1.58
55101721--55102115	138	2.9	138	90	1	598	42	7	5	45	1.54
55101847--55102062	68	3.1	68	63	15	147	40	7	4	47	1.53
55117439--55117488	18	2.6	19	84	12	59	40	4	0	56	1.18
55117615--55117651	19	1.9	19	94	0	65	27	5	0	67	1.12
55118115--55118197	40	2.0	41	86	6	116	37	0	7	55	1.28
55120775--55120812	9	4.2	9	89	0	58	34	10	10	44	1.73
55120869--55120914	9	5.1	9	89	0	74	36	21	10	30	1.88
55120866--55120914	18	2.7	18	100	0	98	38	20	12	28	1.89
55121095--55121119	13	1.9	13	100	0	50	20	40	8	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55122659--55122692	12	2.8	12	100	0	68	0	23	14	61	1.33
55123131--55123214	32	2.6	32	94	0	141	41	11	5	40	1.66
55123329--55123606	64	4.4	64	96	0	474	50	7	10	31	1.64
55123329--55123606	126	2.2	127	92	2	472	50	7	10	31	1.64
55123889--55123997	44	2.6	41	74	17	98	44	0	4	50	1.29
55123922--55123985	28	2.4	28	86	5	87	43	0	0	56	0.99
55123835--55124077	100	2.3	106	84	13	310	43	1	4	50	1.31
55124027--55124081	26	2.2	25	76	17	60	45	3	1	49	1.30
55124228--55124318	46	2.0	46	89	4	141	39	28	4	27	1.76
55124298--55124334	16	2.3	16	95	0	65	24	32	5	37	1.78
55130463--55130493	15	2.0	16	93	6	55	35	25	19	19	1.95
55132123--55132223	52	1.9	52	85	0	139	32	22	17	26	1.97
55136591--55136678	15	5.7	16	82	6	110	32	22	3	40	1.71
55136591--55136695	15	6.9	15	78	10	97	31	23	4	40	1.76
55136591--55136695	30	3.4	30	82	10	115	31	23	4	40	1.76
55139310--55139342	2	16.5	2	100	0	66	51	0	0	48	1.00
55141796--55141846	26	1.9	27	92	4	86	37	13	1	47	1.55
55143531--55143565	18	1.9	18	94	0	61	54	2	5	37	1.39
55144018--55144074	3	19.0	3	100	0	114	66	0	0	33	0.92
55144668--55144699	16	1.9	16	93	6	55	81	0	6	12	0.87
55145315--55145369	23	2.4	23	82	11	76	25	25	5	43	1.76
55145876--55146013	74	1.9	74	98	0	267	43	2	2	50	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55145876--55145993	37	3.2	37	70	13	125	42	3	2	51	1.32
55145983--55146016	15	2.2	16	89	5	52	41	0	2	55	1.15
55148683--55148801	54	2.2	54	80	0	139	26	20	25	28	1.99
55151825--55151887	3	22.0	3	76	20	64	1	33	3	61	1.21
55153212--55153253	20	2.2	19	86	4	57	26	7	9	57	1.56
55158062--55158086	7	3.6	7	100	0	50	0	12	0	88	0.53
55160769--55160812	18	2.5	17	82	10	52	40	0	2	56	1.11
55160731--55160845	20	5.6	20	77	15	101	42	0	2	54	1.14
55160731--55160837	45	2.6	39	80	14	101	43	0	1	54	1.11
55161911--55161947	20	1.9	18	89	10	56	51	0	0	48	1.00
55163989--55164029	21	2.0	21	85	4	57	58	0	2	39	1.11
55164646--55164708	31	2.0	31	81	6	74	47	7	11	33	1.68
55169964--55170000	2	18.5	2	100	0	74	51	0	0	48	1.00
55193052--55193128	41	1.9	41	83	2	102	29	15	24	29	1.96
55193044--55193309	114	2.3	114	75	6	263	25	21	26	27	1.99
55194683--55195148	147	3.2	146	80	5	399	27	15	21	36	1.93
55197670--55197791	36	3.6	36	71	23	129	41	8	7	42	1.62
55197627--55197799	63	2.7	63	100	0	346	42	8	7	42	1.62
55197798--55197841	23	1.9	23	95	0	79	43	18	0	38	1.50
55197899--55198326	9	48.0	9	77	13	413	44	19	1	34	1.58
55198104--55198154	12	3.9	12	76	18	57	43	15	5	35	1.71
55200589--55200792	29	7.0	28	84	9	207	33	22	6	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55200589--55200793	59	3.5	57	80	11	211	33	22	6	37	1.80
55201329--55201387	12	5.2	11	80	13	66	71	0	28	0	0.87
55201350--55201388	13	2.9	13	82	17	53	74	0	25	0	0.82
55201344--55201401	7	8.3	7	77	11	57	79	0	20	0	0.74
55201326--55201396	34	2.1	33	87	7	99	73	0	26	0	0.84
55201335--55201394	12	5.5	11	83	13	70	76	0	23	0	0.78
55201344--55201401	15	3.6	16	76	19	66	79	0	20	0	0.74
55202304--55202354	16	3.1	16	80	20	61	29	13	5	50	1.65
55202305--55202356	19	3.0	17	82	17	63	30	15	5	48	1.68
55202417--55202572	17	8.4	17	73	18	91	31	13	11	43	1.80
55202418--55202569	34	4.1	34	71	18	106	30	13	11	43	1.81
55202507--55202570	19	3.5	18	81	14	78	34	14	10	40	1.80
55204313--55204341	4	7.2	4	100	0	58	24	24	0	51	1.48
55208385--55208455	19	3.7	19	81	9	65	84	5	7	2	0.85
55208382--55208449	14	4.6	15	78	12	61	85	5	5	2	0.83
55208383--55208455	11	6.5	11	75	13	60	84	5	6	2	0.84
55208382--55208455	33	2.3	31	82	15	87	85	5	6	2	0.83
55209339--55209876	77	7.1	75	87	6	628	27	16	19	36	1.94
55210065--55210212	30	5.0	29	82	4	152	33	20	5	40	1.76
55210782--55210855	12	6.9	10	81	15	78	77	0	22	0	0.78
55210785--55210854	10	6.2	12	72	23	55	78	0	21	0	0.75
55210785--55210854	24	3.2	20	84	15	86	78	0	21	0	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55210948--55210990	14	2.9	14	86	6	50	74	9	13	2	1.16
55210975--55211018	21	2.1	21	91	4	72	65	11	22	0	1.24
55211106--55211164	15	4.1	14	80	8	66	79	1	18	0	0.81
55211108--55211163	11	4.9	11	85	12	60	82	1	16	0	0.76
55211116--55211164	17	2.8	18	80	20	59	79	2	18	0	0.83
55211106--55211161	26	2.2	26	90	6	87	80	1	17	0	0.80
55211725--55211761	19	1.9	19	88	0	56	24	16	10	48	1.77
55211827--55211863	17	2.1	18	90	10	58	51	13	0	35	1.41
55211827--55211864	18	2.1	19	90	5	60	52	13	0	34	1.40
55211932--55211973	21	2.0	22	90	4	68	40	14	2	42	1.58

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