genome.fa.s17.2.7.7.80.10.50.1000.39.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  39  of  185  ( 22116 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)
10950589--10950655	22	3.1	21	78	6	64	68	2	2	25	1.18
10950589--10950646	11	5.5	11	75	6	57	68	1	3	25	1.14
10950938--10951054	27	4.3	27	65	13	69	33	1	2	62	1.19
10951008--10951060	17	3.1	17	76	13	54	22	3	3	69	1.20
10964096--10964206	27	4.1	27	76	2	89	32	14	28	24	1.94
10966977--10967067	45	2.0	45	91	0	146	31	23	17	27	1.97
10967069--10967207	51	2.7	50	80	3	161	33	28	15	23	1.95
10980797--10980958	76	2.1	76	80	4	193	24	27	19	28	1.99
10983032--10983216	101	1.8	102	90	3	302	24	16	26	32	1.96
10983024--10983218	51	3.8	52	81	9	242	24	15	27	32	1.96
10983037--10983221	102	1.8	101	89	3	273	24	16	26	32	1.96
10983381--10983446	33	2.0	33	100	0	132	33	3	21	42	1.68
10983475--10983506	16	2.0	16	93	0	55	59	0	15	25	1.36
11001455--11001493	20	2.1	19	90	9	62	64	0	0	35	0.94
11001431--11001542	10	11.5	10	63	16	56	65	2	1	30	1.17
11001527--11001574	25	2.0	24	87	4	69	60	2	0	37	1.09
11001573--11001621	25	2.0	24	92	4	80	55	2	0	42	1.11
11009750--11009782	15	2.1	17	88	11	52	36	6	39	18	1.75
11026514--11026549	16	2.2	16	90	9	56	55	2	0	41	1.14
11035958--11036005	25	1.9	25	86	0	69	33	14	16	35	1.89
11044444--11044559	57	2.0	59	86	10	166	30	23	22	24	1.99
11044611--11044742	67	2.0	67	95	0	237	19	19	33	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11063520--11063573	28	1.9	28	85	7	74	37	20	9	33	1.84
11068823--11068876	27	2.0	27	81	0	63	42	9	7	40	1.65
11075338--11075382	2	23.0	2	81	4	56	2	46	0	51	1.13
11076698--11076723	5	5.2	5	100	0	52	38	19	0	42	1.51
11077345--11077479	66	2.0	66	100	0	270	22	18	26	32	1.97
11081765--11081810	4	11.5	4	100	0	92	50	23	0	26	1.50
11090304--11090342	13	3.0	13	89	10	62	25	0	0	74	0.82
11090305--11090337	16	2.1	16	94	0	57	27	0	0	72	0.85
11093225--11093343	57	2.1	58	91	1	195	45	6	21	26	1.76
11095846--11096213	184	2.0	184	95	1	657	33	12	14	38	1.84
11096374--11096410	6	6.2	6	100	0	74	67	16	0	16	1.23
11097625--11097667	19	2.2	20	80	12	54	32	18	2	46	1.62
11098859--11099092	41	5.7	41	92	1	378	22	28	21	27	1.99
11101325--11101413	45	2.0	45	86	4	126	39	20	19	21	1.93
11107231--11107295	31	2.1	30	83	8	78	56	4	0	38	1.20
11110809--11110846	14	2.7	14	92	8	60	42	7	13	36	1.73
11113272--11113371	48	2.1	48	100	0	200	35	11	12	42	1.77
11113463--11113524	30	2.1	30	100	0	124	35	6	19	38	1.77
11117111--11117161	24	2.1	24	88	0	75	37	3	9	49	1.55
11119056--11119112	3	18.7	3	85	10	80	31	1	0	66	1.02
11119206--11119329	52	2.4	50	79	10	119	38	9	2	49	1.49
11119324--11119379	26	2.1	27	83	3	69	41	8	1	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11126544--11126591	14	3.9	14	70	30	54	37	6	0	56	1.25
11126547--11126614	22	3.0	23	81	12	88	38	7	0	54	1.28
11126532--11126602	22	3.0	24	82	12	85	36	8	0	54	1.31
11126712--11126767	30	1.9	30	88	3	87	32	12	1	53	1.49
11128102--11128418	132	2.4	131	87	1	438	29	20	23	27	1.99
11128233--11128857	219	2.8	220	91	0	1002	28	20	24	25	1.99
11128676--11128989	132	2.4	132	91	2	497	28	21	24	25	1.99
11128453--11129299	352	2.4	351	91	1	1344	28	20	24	25	1.99
11129024--11129299	131	2.1	131	91	1	437	28	20	24	27	1.99
11129073--11129362	44	6.7	43	69	13	119	28	20	24	26	1.99
11128106--11129256	571	2.0	570	89	2	1765	28	20	24	26	1.99
11129062--11129328	131	2.0	131	87	1	383	29	19	25	25	1.98
11129091--11129490	131	3.1	131	80	8	358	29	19	24	26	1.99
11129326--11129970	44	15.1	42	67	16	263	32	20	20	26	1.98
11129466--11129966	85	5.9	81	71	14	280	31	21	20	25	1.98
11129289--11129974	129	5.3	129	89	1	921	32	20	20	25	1.98
11131179--11131444	103	2.6	104	90	0	417	19	21	30	29	1.97
11138669--11138934	103	2.6	104	90	0	417	19	20	30	30	1.97
11140385--11140497	44	2.6	44	84	0	145	30	23	19	27	1.98
11142151--11142198	24	2.0	25	87	4	71	41	12	4	41	1.62
11142328--11142383	26	2.1	27	83	3	69	41	8	1	48	1.45
11142946--11143148	107	1.9	106	87	3	300	29	17	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11152139--11152189	24	2.1	24	88	0	75	37	3	9	49	1.55
11154917--11155012	17	5.3	17	74	17	70	61	3	1	34	1.19
11154949--11155012	9	7.0	9	81	15	78	62	1	0	35	1.05
11154926--11155022	30	3.4	28	77	11	99	61	2	2	34	1.19
11155085--11155158	18	4.4	17	71	21	59	56	2	0	40	1.13
11155096--11155162	7	8.6	7	87	12	71	58	1	0	40	1.07
11155159--11155365	9	21.8	9	67	22	70	57	4	1	35	1.29
11155323--11155398	18	4.4	16	75	18	64	65	2	2	28	1.19
11155313--11155407	27	3.6	25	76	18	70	65	3	3	28	1.23
11155646--11155693	22	2.3	21	85	7	62	31	0	8	60	1.26
11155636--11155693	20	2.8	20	81	5	62	32	0	6	60	1.23
11155689--11155813	28	4.5	26	72	20	78	32	1	2	63	1.17
11155709--11155804	18	5.2	18	72	17	72	31	2	3	63	1.21
11155709--11155825	9	12.6	9	68	20	55	29	2	3	64	1.23
11165336--11165399	31	2.0	32	90	3	103	39	18	9	32	1.83
11166148--11166189	10	4.1	10	87	3	57	47	19	0	33	1.49
11167055--11167102	22	2.2	22	85	7	62	6	14	8	70	1.31
11167590--11167646	27	2.1	28	86	3	80	40	7	7	45	1.58
11169314--11169345	5	6.4	5	92	0	55	81	3	0	15	0.82
11169314--11169359	15	3.0	15	87	3	56	76	4	6	13	1.14
11171840--11171892	27	1.9	28	84	3	72	49	0	5	45	1.26
11171840--11171899	27	2.2	28	81	3	68	48	0	6	45	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11172659--11172685	3	9.0	3	100	0	54	66	0	0	33	0.92
11172659--11172714	9	5.9	10	78	19	50	69	0	3	26	1.04
11174141--11174235	47	2.0	47	100	0	190	27	16	14	41	1.88
11176393--11176462	31	2.3	30	76	13	72	47	0	0	52	1.00
11192477--11192525	25	1.9	25	84	12	64	71	6	8	14	1.29
11192971--11193004	3	11.3	3	87	12	52	70	0	0	29	0.87
11203681--11203720	20	2.0	21	90	5	64	42	2	0	55	1.13
11209454--11209506	20	2.7	19	77	16	54	33	0	5	60	1.20
11214529--11214587	29	2.0	29	90	0	91	45	1	8	44	1.44
11215166--11215243	30	2.7	30	86	9	101	52	2	25	19	1.58
11215613--11215987	199	1.9	199	82	4	470	34	10	15	39	1.83
11218661--11218758	23	4.3	23	90	2	162	31	26	21	20	1.98
11218668--11218756	45	2.0	45	95	0	160	31	26	22	19	1.97
11225560--11225657	23	4.3	23	90	2	162	31	26	21	20	1.98
11225567--11225655	45	2.0	45	95	0	160	31	26	22	19	1.97
11227640--11227683	21	2.1	21	91	0	70	36	40	9	13	1.76
11229746--11229776	11	2.8	11	95	0	53	32	6	12	48	1.67
11231609--11231635	14	1.9	14	100	0	54	37	14	11	37	1.82
11232782--11233004	62	3.6	62	96	1	396	47	11	7	34	1.67
11232782--11233004	123	1.8	124	94	2	396	47	11	7	34	1.67
11236688--11236754	21	3.2	21	73	0	62	46	19	20	13	1.83
11236693--11236798	42	2.5	42	83	4	124	45	18	21	14	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11236900--11236946	24	2.0	24	95	0	85	19	27	8	44	1.79
11238942--11238977	6	6.0	6	93	0	63	80	2	0	16	0.83
11239099--11239155	27	2.1	27	86	0	78	26	26	28	19	1.99
11242458--11242498	6	6.8	6	97	0	73	51	46	0	2	1.14
11244430--11244480	18	2.6	20	75	15	61	47	5	0	47	1.26
11244654--11244749	33	2.7	36	84	12	144	57	11	9	21	1.62
11244626--11244770	34	4.2	34	78	8	123	54	15	9	20	1.69
11244901--11245162	72	3.6	72	81	4	287	23	22	25	29	1.99
11245905--11245947	22	2.0	21	86	4	59	41	16	4	37	1.69
11262164--11262199	4	9.0	4	90	0	54	69	2	2	25	1.15

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