genome.fa.s16.2.7.7.80.10.50.1000.127.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  127  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)
39711001--39711085	25	3.4	25	77	6	75	35	20	27	17	1.95
39718057--39718262	71	2.9	71	80	2	234	31	30	21	17	1.96
39721161--39721198	10	3.8	10	96	0	58	60	5	0	34	1.19
39726746--39727086	102	3.4	101	87	2	472	28	14	26	29	1.95
39726746--39727082	51	6.7	50	82	5	383	28	14	26	29	1.95
39730270--39730316	25	2.0	23	84	16	60	61	2	27	8	1.36
39732783--39732809	13	2.1	13	100	0	54	40	22	0	37	1.54
39733452--39733515	31	2.1	31	84	0	83	29	1	21	46	1.61
39738837--39738899	31	2.0	31	96	0	117	34	15	23	25	1.95
39742195--39742234	20	2.0	20	85	9	55	27	15	15	42	1.86
39742196--39742243	20	2.4	20	82	6	53	29	14	14	41	1.85
39743162--39743205	22	2.0	22	82	8	54	50	0	4	45	1.22
39743698--39743730	17	2.0	17	88	5	50	39	0	0	60	0.97
39743668--39743727	25	2.5	24	78	10	68	40	0	1	58	1.08
39753768--39753819	21	2.6	20	85	11	63	57	0	3	38	1.17
39758055--39758969	113	8.3	111	84	7	1063	38	12	15	33	1.85
39758043--39758971	225	4.2	221	83	8	1119	37	12	15	34	1.85
39758964--39759268	113	2.7	112	83	7	354	31	15	13	39	1.86
39759651--39760078	213	2.0	214	97	0	804	26	16	24	32	1.96
39769608--39769654	20	2.3	20	85	0	58	55	8	8	27	1.59
39769620--39769660	20	2.1	20	86	4	57	51	9	12	26	1.70
39770933--39770994	24	2.6	24	84	0	70	16	38	3	41	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39770940--39771001	24	2.6	24	84	0	70	16	38	3	41	1.64
39773641--39773694	22	2.5	22	93	0	99	18	24	27	29	1.98
39779215--39779686	126	3.8	126	93	1	815	28	16	22	32	1.96
39781800--39782039	116	2.1	116	95	0	426	42	10	8	38	1.69
39782064--39782125	21	3.0	20	90	9	81	29	0	33	37	1.58
39782074--39782133	21	2.8	22	92	5	97	31	0	28	40	1.57
39782112--39782488	29	13.4	29	71	17	269	28	0	26	44	1.57
39782190--39782488	58	5.1	58	75	8	311	28	0	26	45	1.57
39782182--39782366	87	2.1	88	92	1	309	27	0	27	44	1.58
39782112--39782488	116	3.4	115	81	14	377	28	0	26	44	1.57
39782371--39782434	20	3.2	20	78	10	69	28	0	26	45	1.54
39782379--39782432	20	2.5	22	85	5	76	22	0	31	46	1.52
39782168--39782508	116	2.9	116	79	6	386	28	0	26	45	1.56
39782504--39782665	25	6.7	25	83	11	221	43	14	0	42	1.45
39782539--39782710	69	2.5	69	94	1	290	45	13	0	40	1.43
39782633--39782720	45	2.0	45	88	4	133	48	12	0	38	1.41
39783143--39783177	18	1.9	18	94	0	61	34	8	31	25	1.86
39783829--39783853	7	3.6	7	100	0	50	60	12	0	28	1.32
39784024--39784061	20	1.9	20	84	10	51	57	2	5	34	1.35
39784998--39785086	29	3.3	29	65	26	86	46	0	24	29	1.53
39784990--39785101	51	2.2	51	93	4	199	47	0	24	28	1.52
39791999--39792039	19	2.2	19	86	8	57	31	9	4	53	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39792564--39792626	30	2.0	32	87	12	94	22	7	12	57	1.61
39799099--39799395	50	5.8	50	77	2	218	23	26	20	29	1.99
39799148--39799387	100	2.3	102	80	8	254	23	27	20	28	1.99
39802362--39802396	16	2.1	17	89	10	54	68	8	0	22	1.16
39803090--39803133	22	2.0	22	91	4	72	81	4	11	2	0.92
39803102--39803135	17	2.0	17	88	0	50	76	5	11	5	1.14
39803863--39803967	44	2.4	44	84	6	124	25	22	22	28	1.99
39804029--39804288	143	1.8	143	88	1	396	26	23	20	29	1.99
39814051--39814089	12	3.2	13	85	10	55	20	0	15	64	1.30
39841477--39841502	13	2.0	13	100	0	52	69	7	7	15	1.35
39864264--39864303	21	1.9	21	100	0	80	62	0	0	37	0.95
39864277--39864403	41	3.1	42	88	7	188	62	0	1	36	1.05
39864265--39864394	11	12.4	11	70	21	75	60	0	1	38	1.07
39864293--39864383	30	3.0	30	82	6	87	60	0	1	38	1.04
39864296--39864369	19	4.0	17	70	23	60	62	0	0	37	0.96
39866020--39866063	19	2.2	19	84	8	52	56	4	4	34	1.40
39871565--39871597	16	2.2	15	89	10	50	18	0	24	57	1.40
39878500--39878554	15	3.6	14	83	11	65	69	0	16	14	1.20
39879824--39880045	88	2.5	88	91	1	356	29	21	25	24	1.99
39880243--39880672	50	8.6	50	72	3	292	31	22	23	23	1.98
39880244--39880738	200	2.5	199	82	3	559	30	22	23	24	1.99
39880244--39880738	100	5.0	100	82	3	505	30	22	23	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39886785--39886857	9	8.1	9	73	11	51	47	0	26	26	1.52
39886788--39886839	18	2.9	18	94	0	86	48	0	26	25	1.52
39886794--39886877	18	4.7	18	80	5	91	47	0	27	25	1.52
39896333--39896488	43	3.7	43	76	10	160	30	28	16	23	1.96
39896333--39896488	84	1.9	84	81	10	194	30	28	16	23	1.96
39907671--39907903	82	2.8	82	99	0	457	36	29	9	24	1.88
39925273--39925404	40	3.3	39	82	9	151	30	20	26	22	1.98
39925291--39925406	40	2.9	41	85	5	166	31	22	25	21	1.98
39925504--39925758	41	6.2	41	78	8	225	21	18	27	32	1.97
39925680--39925756	40	1.9	40	82	15	97	23	20	20	35	1.96
39925940--39926093	7	21.7	7	75	9	116	20	0	32	47	1.50
39925940--39926093	14	10.9	14	78	8	141	20	0	32	47	1.50
39926341--39926378	14	2.7	15	88	12	62	26	0	31	42	1.56
39926365--39926439	21	3.5	21	78	10	73	24	0	38	37	1.55
39926396--39926428	15	2.3	15	89	5	50	24	0	33	42	1.55
39926404--39926436	15	2.2	15	94	0	57	24	0	33	42	1.55
39926347--39926463	7	16.7	7	71	18	66	22	0	38	39	1.54
39930433--39930489	27	2.2	26	81	9	62	26	8	1	63	1.34
39930695--39930859	43	3.8	43	84	1	188	21	15	31	30	1.95
39930695--39930859	86	1.9	86	87	2	242	21	15	31	30	1.95
39937161--39937266	26	3.9	26	70	11	77	40	7	16	34	1.77
39937170--39937266	28	3.5	26	74	16	70	43	7	16	32	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39938158--39938227	33	2.1	33	89	0	104	34	14	32	18	1.91
39938158--39938235	33	2.4	33	84	4	86	35	14	29	20	1.92
39939137--39939213	19	4.1	18	71	17	57	38	1	3	55	1.26
39939145--39939272	20	6.4	18	69	24	64	37	0	4	57	1.25
39939980--39940296	96	3.3	96	88	1	467	38	2	17	40	1.65
39940331--39940598	126	2.1	126	88	0	383	33	17	20	27	1.96
39943735--39943837	34	3.2	33	82	10	124	50	4	3	40	1.42
39943576--39943774	111	1.8	108	91	2	317	48	5	5	41	1.47
39943759--39943837	34	2.2	36	93	4	135	51	5	3	39	1.42
39944244--39944286	18	2.4	18	88	0	59	44	9	27	18	1.80
39946089--39946147	11	5.4	11	73	15	50	44	3	33	18	1.67
39946093--39946150	23	2.7	21	79	10	71	46	3	31	18	1.66
39949978--39950012	18	2.0	17	88	5	52	45	0	0	54	0.99
39950098--39950132	18	2.0	17	88	5	52	45	0	0	54	0.99
39949973--39950989	120	8.5	120	99	0	1998	44	2	4	48	1.37
39950218--39950252	18	2.0	17	88	5	52	45	0	0	54	0.99
39950338--39950372	18	2.0	17	88	5	52	45	0	0	54	0.99
39950458--39950492	18	2.0	17	88	5	52	45	0	0	54	0.99
39950551--39950882	44	8.1	42	64	16	124	44	2	3	48	1.34
39950578--39950612	18	2.0	17	88	5	52	45	0	0	54	0.99
39950698--39950732	18	2.0	17	88	5	52	45	0	0	54	0.99
39950938--39950972	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39951208--39951275	16	4.2	16	96	0	127	38	35	0	26	1.57
39959372--39959406	18	2.0	17	88	5	52	54	0	0	45	0.99
39963015--39963053	20	2.0	20	100	0	78	41	25	7	25	1.82
39970886--39970928	18	2.3	19	84	11	54	46	6	0	46	1.30
39973360--39973451	43	2.1	43	95	0	166	42	9	5	42	1.61
39973444--39973507	16	3.9	16	78	13	60	6	10	3	79	1.02
39974486--39974535	25	2.0	25	84	0	64	76	6	0	18	0.99
39981040--39981405	154	2.3	163	84	9	475	28	20	17	32	1.96
39981244--39981619	44	8.9	42	70	12	180	28	19	18	32	1.96
39981253--39981534	129	2.2	130	87	1	397	29	18	19	32	1.96

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