genome.fa.s16.2.7.7.80.10.50.1000.135.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  135  of  175  ( 20966 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)
41870476--41870539	29	2.2	30	86	8	87	34	7	3	54	1.45
41874175--41874208	16	2.2	15	89	5	50	35	0	2	61	1.11
41874627--41874651	3	8.3	3	100	0	50	32	0	0	68	0.90
41883278--41883304	7	3.9	7	100	0	54	14	0	0	85	0.61
41888570--41888645	38	2.0	38	100	0	152	23	13	7	55	1.64
41926492--41926581	44	2.1	43	85	4	119	36	7	4	51	1.51
41926921--41926970	26	1.9	26	84	8	66	12	6	44	38	1.66
41928999--41929035	18	2.1	18	89	0	56	13	0	18	67	1.23
41931450--41931525	25	2.7	29	88	11	115	44	6	23	25	1.77
41936106--41936194	30	3.1	30	84	12	116	41	5	25	26	1.77
41939798--41939847	25	2.0	26	88	4	75	40	10	6	44	1.63
41942616--41942708	43	2.2	43	94	0	159	33	31	15	20	1.93
41943177--41943234	21	2.8	20	89	10	82	67	0	3	29	1.07
41944927--41944960	13	2.6	13	95	0	59	29	14	32	23	1.94
41946679--41946708	14	2.1	14	100	0	60	43	36	0	20	1.52
41946594--41946708	21	5.4	21	70	12	63	43	30	1	24	1.64
41951673--41951730	14	4.1	14	78	6	64	36	41	0	22	1.54
41951653--41951738	21	4.0	22	75	10	70	40	38	0	20	1.53
41951634--41951712	36	2.2	37	79	6	90	36	43	0	20	1.52
41951732--41951773	14	2.9	14	82	6	57	47	30	0	21	1.51
41952067--41952105	20	2.0	20	84	0	51	61	7	7	23	1.49
41952955--41953004	7	7.0	7	82	17	59	72	0	14	14	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41952955--41953004	15	3.5	14	84	15	59	72	0	14	14	1.14
41952955--41953004	22	2.3	22	86	10	68	72	0	14	14	1.14
41952961--41953006	15	3.1	15	87	12	60	69	0	17	13	1.19
41954379--41955370	50	19.7	50	65	2	352	28	20	24	26	1.99
41954364--41955375	101	10.0	100	86	1	1304	28	20	24	26	1.99
41954364--41955375	404	2.5	403	90	0	1551	28	20	24	26	1.99
41956802--41956852	24	2.1	25	82	10	61	29	0	3	66	1.09
41956937--41956979	11	3.7	11	81	9	50	30	2	0	67	1.03
41956988--41957127	75	1.9	73	82	8	176	31	6	4	57	1.43
41966547--41966606	31	1.9	30	83	12	77	50	11	13	25	1.75
41969850--41969886	6	6.2	6	96	0	65	29	51	18	0	1.47
41970205--41970234	3	10.0	3	100	0	60	33	0	0	66	0.92
41973888--41973951	33	1.9	33	83	0	83	32	9	34	23	1.87
41977384--41977469	9	9.0	9	78	16	93	62	3	0	33	1.12
41977385--41977457	10	7.3	11	69	17	52	64	2	0	32	1.08
41977384--41977469	21	4.5	18	78	16	93	62	3	0	33	1.12
41981079--41981118	20	2.0	20	95	0	71	57	5	22	15	1.57
41988743--41988789	18	2.7	18	76	3	51	63	0	4	31	1.13
41993049--41993090	11	3.7	12	79	20	54	28	30	0	40	1.57
41996226--41996260	15	2.3	15	95	0	61	22	0	14	62	1.31
41996234--41996267	15	2.3	15	89	0	50	20	2	14	61	1.46
42008095--42008584	267	1.8	267	88	0	755	27	20	25	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42008578--42008685	44	2.5	44	77	7	116	28	19	19	32	1.96
42010645--42010677	15	2.2	15	94	0	57	24	0	12	63	1.28
42012504--42013589	21	50.9	20	77	9	702	47	26	0	24	1.58
42012504--42013593	42	25.5	42	77	8	920	47	26	0	25	1.58
42012496--42013589	63	17.1	63	78	8	976	47	26	0	24	1.58
42013212--42013275	27	2.3	29	84	13	89	46	29	1	21	1.61
42013597--42013857	104	2.4	110	91	7	408	40	11	8	40	1.70
42014096--42014941	21	39.9	21	82	6	911	46	28	0	25	1.57
42014747--42014800	27	2.0	27	92	0	90	50	25	1	22	1.59
42014741--42014821	27	3.2	27	70	24	77	48	28	1	22	1.58
42014953--42015322	114	3.3	114	87	6	578	40	10	8	40	1.70
42015107--42015317	105	2.0	106	94	0	370	41	10	9	38	1.72
42015574--42016535	21	45.9	21	83	3	1010	47	26	0	25	1.57
42015552--42015605	27	2.0	27	88	0	81	50	35	0	14	1.44
42016599--42016649	27	1.9	26	84	4	66	41	35	1	21	1.65
42016617--42016787	21	8.2	21	81	3	184	45	27	0	26	1.58
42016626--42016783	82	1.9	83	86	1	228	45	25	0	28	1.54
42016795--42017055	104	2.4	110	90	7	399	40	11	7	40	1.69
42017915--42017967	26	2.0	27	88	3	81	49	26	1	22	1.60
42017298--42018108	289	2.7	287	84	8	877	45	27	0	25	1.58
42017286--42018108	21	38.9	21	79	6	815	46	27	0	25	1.58
42018116--42018501	114	3.4	114	93	0	637	40	10	7	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42018733--42018785	27	2.0	27	85	3	72	43	35	1	18	1.62
42018753--42021329	21	121.2	21	78	7	2148	47	25	0	26	1.57
42019381--42019434	27	2.0	27	85	0	72	46	33	0	20	1.51
42021341--42021597	114	2.3	114	87	7	354	42	10	7	39	1.67
42021836--42022767	21	43.9	20	79	8	734	46	27	0	25	1.54
42021828--42022767	42	22.1	42	82	6	1013	47	27	0	25	1.54
42021847--42022767	63	14.5	62	82	8	932	47	27	0	25	1.54
42025918--42026449	125	4.3	124	92	0	857	30	22	18	28	1.97
42025919--42026449	249	2.1	249	91	1	859	30	22	18	28	1.97
42033328--42033435	44	2.4	44	85	3	135	29	23	14	32	1.94
42034312--42034346	9	3.9	9	84	0	52	2	17	0	80	0.84
42034312--42034351	18	2.2	19	90	4	64	2	15	2	80	0.93
42034355--42034427	5	14.6	5	76	20	64	56	4	0	39	1.19
42034356--42034398	19	2.3	19	92	8	70	58	0	0	41	0.98
42034362--42034426	24	2.6	25	80	9	71	58	4	0	36	1.19
42039478--42039585	44	2.4	44	85	3	135	29	23	14	32	1.94
42040462--42040496	9	3.9	9	84	0	52	2	17	0	80	0.84
42040462--42040501	18	2.2	19	90	4	64	2	15	2	80	0.93
42040505--42040577	5	14.6	5	76	20	64	56	4	0	39	1.19
42040506--42040548	19	2.3	19	92	8	70	58	0	0	41	0.98
42040512--42040576	24	2.6	25	80	9	71	58	4	0	36	1.19
42045637--42045697	30	2.0	30	93	0	104	37	3	8	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42045622--42045694	30	2.3	34	72	18	82	32	2	6	57	1.39
42046324--42046375	20	2.6	21	81	9	63	55	0	1	42	1.10
42046341--42046380	20	2.0	20	85	9	55	62	0	5	32	1.17
42046634--42046676	22	2.0	22	90	4	70	72	0	0	27	0.85
42047221--42047322	30	3.4	30	83	5	127	29	21	3	45	1.70
42047841--42047906	11	5.8	11	73	18	55	69	0	30	0	0.88
42048336--42048373	20	1.9	20	88	0	58	36	13	7	42	1.73
42048488--42048531	17	2.6	16	79	10	52	27	18	11	43	1.84
42048543--42048586	20	2.1	21	87	8	63	22	9	11	56	1.62
42048659--42048729	16	3.9	17	76	21	65	25	12	12	49	1.76
42048813--42048870	17	3.5	17	88	4	82	31	13	10	44	1.78
42048763--42048886	33	3.9	33	77	12	118	29	12	11	46	1.77
42048806--42048903	16	5.9	17	75	15	82	28	12	12	46	1.77
42048806--42048905	34	3.0	34	81	7	89	30	12	12	46	1.77
42052271--42052301	15	2.0	16	93	6	55	25	25	6	41	1.79
42060586--42060760	70	2.5	70	85	6	210	32	17	21	29	1.96
42060657--42060979	127	2.5	127	85	6	407	28	17	22	30	1.97
42060861--42060979	59	2.0	60	86	4	170	26	18	23	31	1.97
42061095--42061771	72	9.5	71	95	1	1151	31	16	18	33	1.93
42061717--42062143	54	8.0	54	90	5	658	29	15	17	37	1.91
42061717--42062143	212	2.0	212	95	1	775	29	15	17	37	1.91
42061722--42062143	158	2.7	158	91	4	649	29	16	18	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42062412--42062531	30	4.1	29	75	13	104	31	20	3	44	1.68
42063034--42063098	29	2.3	29	78	7	71	70	0	29	0	0.87
42063032--42063097	11	5.8	11	73	18	55	69	0	30	0	0.88
42063527--42063564	20	1.9	20	88	0	58	36	13	7	42	1.73
42063681--42063728	17	2.8	17	76	23	55	31	16	10	41	1.82
42063818--42063899	16	4.9	16	77	12	76	29	12	10	47	1.75
42063816--42064089	17	15.3	19	71	16	142	32	12	10	44	1.77
42063779--42063884	35	3.1	35	79	6	119	34	12	11	41	1.78
42063834--42063872	19	2.1	19	90	0	60	41	12	10	35	1.77
42063783--42064089	17	17.3	19	71	16	130	33	13	10	42	1.78

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