genome.fa.s16.2.7.7.80.10.50.1000.173.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  173  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)
52181584--52181619	18	2.0	18	94	0	63	41	16	19	22	1.90
52184717--52185022	110	2.8	110	92	1	501	33	19	16	30	1.94
52185192--52185225	12	2.8	12	90	0	50	76	0	0	23	0.79
52185518--52185550	17	1.9	17	88	11	50	57	0	3	39	1.14
52187899--52188121	47	4.7	47	91	1	331	32	8	30	27	1.88
52187946--52188024	25	3.3	25	61	10	65	32	5	29	32	1.79
52188240--52188318	37	2.1	37	90	0	122	24	18	31	25	1.98
52190174--52190555	40	9.6	40	84	4	339	24	22	27	25	2.00
52193448--52193717	47	5.7	47	92	0	416	32	8	30	28	1.88
52193836--52193914	37	2.1	37	90	0	122	24	18	31	25	1.98
52196813--52197164	44	8.0	44	72	6	219	26	23	20	29	1.99
52196813--52197161	90	3.9	90	77	4	327	26	23	20	29	1.99
52209536--52209568	17	1.9	17	88	11	50	57	0	3	39	1.14
52215712--52215819	24	4.3	24	84	5	135	33	0	4	61	1.23
52222443--52222534	47	2.0	47	89	2	141	21	11	9	56	1.64
52227139--52227205	31	2.2	31	100	0	134	28	16	11	43	1.83
52227247--52227482	115	2.0	116	84	4	305	39	9	12	38	1.76
52231091--52231134	21	2.1	21	86	0	61	56	13	9	20	1.64
52231797--52231847	26	2.0	26	81	14	61	23	0	5	70	1.09
52239352--52239408	26	2.1	27	96	3	107	35	22	3	38	1.72
52266432--52266725	156	1.9	156	92	0	498	44	21	7	27	1.78
52269255--52269313	22	2.6	24	81	7	70	71	1	0	27	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52269255--52269302	11	4.2	12	81	7	57	70	0	0	29	0.87
52271564--52271589	3	8.7	3	100	0	52	65	0	34	0	0.93
52277922--52278121	72	2.8	72	93	0	346	37	13	17	32	1.88
52278223--52278311	29	3.1	29	66	6	72	46	8	6	38	1.62
52280557--52280603	16	2.8	16	76	20	51	42	0	4	53	1.20
52280557--52280611	15	3.5	16	79	16	53	45	0	3	50	1.19
52281225--52281271	25	1.9	25	83	12	62	51	4	2	42	1.33
52282587--52282675	44	2.0	44	86	4	126	29	11	24	34	1.90
52290243--52290292	16	3.1	16	79	2	55	58	8	2	32	1.39
52291909--52291964	23	2.4	23	78	0	67	14	12	37	35	1.84
52316096--52316139	23	1.9	23	90	0	70	63	4	0	31	1.14
52320302--52320598	157	1.9	155	86	3	425	37	11	12	38	1.79
52323592--52323704	57	2.0	57	87	0	163	40	11	11	36	1.78
52335645--52335720	27	2.8	27	93	0	134	30	21	5	43	1.74
52337129--52337240	43	2.6	43	82	10	131	27	19	26	25	1.99
52339751--52339863	42	2.7	42	80	0	127	40	15	19	23	1.90
52339701--52339863	84	1.9	84	80	4	186	39	16	22	21	1.92
52346673--52346710	18	2.2	18	90	4	60	57	2	0	39	1.12
52356419--52356491	31	2.4	29	82	8	92	42	5	9	42	1.60
52356419--52356500	30	2.7	31	79	9	96	42	6	9	41	1.62
52356602--52356635	8	4.4	8	88	7	52	70	0	2	26	1.01
52356602--52356633	15	2.1	15	94	0	55	71	0	3	25	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52357872--52358285	220	1.9	220	82	3	519	25	22	28	23	1.99
52367581--52367640	31	1.9	32	83	16	81	38	1	1	58	1.18
52376965--52377028	27	2.4	27	86	0	83	35	12	1	50	1.50
52377034--52377063	14	2.1	15	93	6	53	70	16	6	6	1.31
52377095--52377169	27	2.8	27	89	4	107	34	22	26	16	1.95
52377097--52377180	27	3.1	27	81	10	100	33	22	26	17	1.96
52377845--52377907	19	3.3	19	68	0	63	41	9	3	46	1.52
52378467--52378528	26	2.4	26	88	0	88	46	1	12	38	1.52
52385641--52385709	15	4.6	14	75	18	50	63	0	0	36	0.94
52385644--52385728	44	2.0	44	82	8	106	61	0	0	38	0.96
52390679--52390723	21	2.1	21	83	0	54	53	0	6	40	1.27
52398924--52398986	32	2.0	32	83	0	81	25	11	19	44	1.83
52400389--52400438	16	3.2	16	83	13	68	60	20	2	18	1.46
52400878--52400974	47	2.1	47	98	0	185	20	9	23	46	1.79
52409163--52409215	16	3.2	16	78	19	56	30	1	13	54	1.49
52413778--52413815	18	2.1	18	85	9	51	57	0	0	42	0.98
52418665--52418704	19	2.1	19	85	0	53	42	2	0	55	1.13
52430363--52430652	104	2.8	104	87	2	399	24	25	30	20	1.98
52430574--52430726	80	1.9	80	89	5	238	20	25	29	24	1.99
52430471--52430832	184	2.0	184	83	2	467	23	24	29	22	1.99
52430669--52430870	104	1.9	104	88	0	305	25	21	29	24	1.99
52431691--52431750	10	6.0	10	78	7	50	3	26	16	53	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52431694--52431747	15	3.6	15	75	9	56	3	25	16	53	1.59
52431744--52431786	15	2.9	15	82	0	50	16	27	6	48	1.71
52431719--52431750	5	6.4	5	96	0	55	0	25	18	56	1.42
52432376--52432417	22	1.9	22	100	0	84	45	9	0	45	1.36
52432438--52432487	14	3.7	13	79	15	57	40	2	0	58	1.10
52435086--52435193	15	7.2	15	69	12	87	43	7	23	25	1.79
52435079--52435193	30	3.8	30	97	0	203	44	6	23	25	1.78
52439775--52439882	15	7.2	15	69	12	87	43	7	23	25	1.79
52439768--52439882	30	3.8	30	97	0	203	44	6	23	25	1.78
52442224--52442266	23	2.0	22	90	9	70	55	0	2	41	1.12
52442270--52442317	22	2.2	22	92	0	78	39	10	2	47	1.49
52442338--52442384	13	3.5	13	80	13	60	40	0	0	59	0.97
52448706--52448835	26	4.9	28	71	15	80	50	3	6	39	1.45
52448706--52448808	28	3.9	25	73	16	75	49	2	6	40	1.44
52448821--52448931	58	1.9	59	88	5	172	47	4	11	36	1.60
52449016--52449067	22	2.4	22	78	9	54	51	3	7	36	1.49
52450608--52450652	23	1.9	24	86	4	65	6	17	11	64	1.46
52451801--52451838	6	6.8	6	91	8	55	15	0	0	84	0.63
52451801--52451837	11	3.4	11	88	0	56	13	0	0	86	0.57
52465271--52465313	12	3.6	12	77	22	54	30	13	23	32	1.93
52465270--52465325	24	2.3	24	100	0	112	30	17	21	30	1.96
52465283--52465325	12	3.6	12	77	22	54	30	18	20	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52472265--52472304	20	2.0	20	90	0	62	40	12	2	45	1.56
52473472--52473628	31	5.0	30	74	9	100	39	15	2	42	1.61
52475207--52475243	12	3.1	12	88	0	56	10	45	16	27	1.80
52476545--52476593	23	2.1	24	96	3	91	20	8	10	61	1.53
52482782--52482868	42	2.1	42	97	0	165	27	28	13	29	1.94
52483606--52483661	28	2.0	28	89	0	85	16	42	5	35	1.70
52491283--52491460	95	1.8	94	85	7	248	45	3	3	47	1.38
52491403--52491445	19	2.2	19	87	8	59	39	2	0	58	1.11
52494544--52494582	18	2.2	18	86	9	53	17	5	7	69	1.32
52497499--52497548	23	2.2	23	100	0	100	30	0	12	58	1.34
52499386--52499466	39	2.1	39	97	0	153	41	13	4	39	1.66
52499898--52499929	16	2.1	16	94	5	57	37	0	0	62	0.95
52501845--52501895	22	2.3	22	80	6	59	39	0	1	58	1.09
52507317--52507345	3	9.7	3	100	0	58	34	34	0	31	1.58
52511214--52511375	87	1.9	87	84	2	218	25	24	20	29	1.99
52511175--52511642	214	2.2	214	87	3	652	26	22	20	30	1.98
52511226--52511595	44	8.6	43	73	8	236	27	22	20	30	1.98
52523791--52523824	13	2.7	12	90	9	50	79	0	2	17	0.86
52523898--52523987	46	2.0	46	80	12	105	53	3	7	35	1.46
52524113--52524194	12	6.6	12	76	13	76	58	2	8	30	1.41
52524113--52524199	3	29.3	3	73	11	63	59	2	8	29	1.38
52540129--52540187	31	1.9	31	82	3	75	32	1	10	55	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52541013--52541058	23	2.0	23	100	0	92	8	4	30	56	1.49
52548075--52548365	120	2.4	122	89	4	462	43	2	4	49	1.35
52548082--52548365	59	4.7	58	67	18	150	43	2	4	49	1.36
52548309--52548345	19	2.0	19	85	15	51	45	0	0	54	1.00
52548581--52548649	16	4.2	16	94	3	120	39	36	0	24	1.56
52548581--52548649	33	2.1	32	94	2	120	39	36	0	24	1.56
52549851--52550275	104	4.1	104	91	0	663	31	11	16	40	1.83
52552182--52552389	91	2.3	91	92	0	335	45	3	4	46	1.39
52552304--52552364	28	2.2	28	85	5	81	45	0	3	50	1.17
52552222--52552364	44	3.2	43	69	20	121	46	2	3	48	1.31

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