genome.fa.s16.2.7.7.80.10.50.1000.174.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  174  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)
52552416--52552604	59	3.2	57	68	19	152	41	3	4	50	1.37
52552443--52552641	66	3.2	64	68	19	186	41	3	6	49	1.44
52552405--52552702	120	2.5	120	93	1	517	42	2	5	49	1.37
52552478--52552665	61	3.1	61	69	17	192	42	1	6	48	1.39
52552530--52552581	15	3.6	15	80	12	56	44	0	1	53	1.11
52552646--52552680	18	2.0	17	88	5	52	45	0	0	54	0.99
52552845--52552935	45	2.0	45	85	2	121	37	28	6	27	1.82
52552916--52552984	16	4.2	16	96	3	129	37	37	0	24	1.56
52552916--52552984	33	2.1	32	97	2	129	37	37	0	24	1.56
52569018--52569063	24	2.0	23	82	4	56	23	2	2	71	1.08
52569060--52569088	13	2.3	13	94	5	51	17	0	13	68	1.20
52579422--52579446	12	2.1	12	100	0	50	24	16	0	60	1.36
52590006--52590034	15	1.9	15	100	0	58	13	6	27	51	1.66
52596931--52596982	27	1.9	27	84	7	70	34	5	11	48	1.63
52600376--52600645	146	1.9	143	86	5	391	43	8	10	37	1.69
52601467--52601515	25	1.9	25	84	12	64	75	12	2	10	1.13
52602652--52602727	29	2.6	28	80	10	82	32	7	1	57	1.36
52603737--52603795	31	1.9	31	89	0	91	37	11	5	45	1.63
52612011--52612108	6	16.7	6	95	4	182	50	33	0	16	1.46
52612094--52612217	56	2.2	56	95	1	223	48	19	9	22	1.78
52614824--52614857	12	2.8	12	95	0	59	20	0	29	50	1.49
52614842--52615136	145	2.0	145	90	1	457	28	11	22	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52617691--52617723	17	2.0	17	88	5	50	15	3	3	78	0.99
52619988--52620047	29	2.1	29	84	6	77	23	13	8	55	1.65
52624750--52624805	24	2.3	24	84	6	69	30	57	5	7	1.48
52624825--52624903	30	2.6	30	86	7	108	18	53	6	21	1.67
52624884--52624913	12	2.5	12	88	0	51	23	63	0	13	1.29
52625034--52625065	3	10.7	3	93	0	55	31	65	0	3	1.08
52625046--52625714	135	5.0	134	88	5	854	21	53	9	14	1.70
52625001--52625215	48	4.4	47	65	22	122	22	54	8	14	1.67
52625342--52625384	18	2.4	18	92	0	77	20	55	11	11	1.66
52625465--52625507	18	2.4	18	92	0	77	20	55	11	11	1.66
52625193--52625702	258	2.0	258	90	2	810	21	52	10	15	1.71
52625473--52625697	69	3.3	69	68	8	190	22	53	9	14	1.69
52625514--52625732	69	3.2	69	68	8	187	23	53	8	15	1.68
52627613--52627650	20	2.0	20	89	5	60	57	2	0	39	1.12
52633291--52633345	26	2.1	26	86	6	76	49	7	0	43	1.30
52633929--52633959	3	10.3	3	100	0	62	32	67	0	0	0.91
52634055--52634129	18	4.2	18	71	6	53	21	52	4	22	1.64
52634289--52634506	42	5.3	42	69	10	135	22	53	7	16	1.68
52634536--52634574	18	2.2	18	85	0	51	28	61	0	10	1.28
52634052--52634555	123	4.0	123	78	10	411	22	51	8	17	1.72
52634601--52634647	24	2.0	24	83	8	60	31	48	6	12	1.66
52644469--52644550	38	2.2	37	86	4	110	32	1	0	65	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52644517--52644557	20	1.9	22	85	14	59	39	0	0	60	0.96
52649760--52649787	5	5.6	5	100	0	56	17	0	60	21	1.36
52658509--52658554	18	2.5	19	82	7	58	54	4	6	34	1.46
52664728--52664769	19	2.2	20	86	4	59	35	2	2	59	1.23
52665971--52666051	31	2.7	29	82	5	90	29	6	12	51	1.63
52678438--52678508	27	2.6	27	93	0	124	30	23	28	16	1.97
52678513--52679016	19	25.3	19	69	23	176	29	0	14	55	1.41
52678516--52678997	101	4.6	101	81	14	509	29	0	14	56	1.41
52678732--52678779	8	5.6	8	81	13	60	27	0	14	58	1.37
52678718--52678793	27	2.8	27	100	0	152	30	0	14	55	1.40
52678652--52678859	115	1.8	115	96	0	389	29	0	12	57	1.35
52678770--52678951	80	2.3	80	93	0	312	29	0	14	56	1.39
52678911--52679013	18	5.2	18	83	15	98	28	0	19	52	1.46
52678933--52679015	22	3.8	23	86	12	122	30	0	18	51	1.46
52679010--52679128	60	2.0	60	88	3	177	32	1	13	52	1.51
52679248--52679284	16	2.4	16	90	4	58	32	2	5	59	1.34
52680638--52680685	25	2.0	24	87	4	69	72	4	10	12	1.24
52685203--52685241	19	2.1	19	85	0	51	61	23	5	10	1.48
52688408--52688569	81	2.0	81	83	4	202	47	20	10	21	1.80
52691605--52691633	11	2.6	11	100	0	58	51	0	0	48	1.00
52691576--52691622	19	2.4	19	89	3	76	59	2	0	38	1.09
52706107--52706132	4	6.5	4	100	0	52	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52710836--52710861	11	2.4	11	100	0	52	92	0	0	7	0.39
52715203--52715289	6	14.5	6	100	0	174	33	0	16	50	1.45
52727128--52727189	32	2.0	32	84	6	83	54	8	6	30	1.55
52727667--52727763	35	2.8	35	91	0	158	15	48	11	24	1.78
52728403--52728470	26	2.6	26	95	2	118	55	0	27	16	1.41
52729353--52729414	3	20.7	3	93	0	106	32	1	0	66	1.02
52729612--52729747	20	6.5	20	66	21	66	35	5	2	56	1.36
52729716--52729775	29	2.1	30	82	14	74	33	5	6	55	1.48
52753920--52754758	44	19.1	45	79	6	835	28	16	25	29	1.97
52753920--52754758	132	6.4	132	89	3	1018	28	16	25	29	1.97
52753915--52754758	351	2.4	351	86	4	1132	28	16	25	29	1.97
52753920--52754758	219	3.8	221	84	4	880	28	16	25	29	1.97
52756861--52756904	18	2.3	20	81	18	58	31	15	0	52	1.44
52757400--52757600	106	1.9	106	94	0	357	29	20	19	30	1.97
52780783--52780819	12	3.1	12	84	0	56	29	5	16	48	1.68
52781111--52781146	6	6.0	6	100	0	72	33	0	16	50	1.46
52791942--52791971	15	1.9	16	93	6	53	50	0	3	46	1.18
52791940--52791993	22	2.5	21	79	5	63	48	0	1	50	1.11
52792010--52792048	16	2.4	16	86	0	51	58	2	2	35	1.25
52792916--52792984	31	2.2	30	85	7	93	53	7	2	36	1.44
52805926--52806012	25	3.3	25	67	14	75	48	10	13	27	1.75
52805903--52806012	55	2.0	55	100	0	220	49	10	14	25	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52811486--52811541	29	1.9	29	85	7	78	37	14	7	41	1.73
52813763--52813787	7	3.6	7	100	0	50	40	0	12	48	1.40
52814622--52814983	93	3.9	94	84	6	461	21	11	15	51	1.75
52814813--52814855	20	2.0	20	82	8	50	18	6	13	60	1.55
52814627--52814983	184	1.9	184	86	1	509	21	12	15	50	1.76
52820775--52820800	13	2.0	13	100	0	52	46	0	15	38	1.46
52824563--52824622	28	2.3	26	78	18	70	40	0	1	58	1.08
52826008--52826056	25	2.0	25	84	4	64	26	2	6	65	1.27
52831207--52831254	20	2.3	20	82	10	53	41	0	0	58	0.98
52840961--52840998	12	3.3	12	82	10	53	34	5	0	60	1.19
52841108--52841137	3	10.0	3	100	0	60	33	0	0	66	0.92
52841301--52841325	12	2.1	12	100	0	50	32	16	0	52	1.44
52855500--52855554	29	1.9	28	82	10	67	30	14	7	47	1.71
52875129--52875158	16	1.9	15	93	6	51	33	3	0	63	1.11
52875129--52875172	18	2.5	17	82	13	54	34	2	0	63	1.07
52877903--52877947	20	2.3	19	84	7	54	51	0	2	46	1.13
52878150--52878190	3	13.7	3	100	0	82	65	0	0	34	0.93
52886669--52886708	20	2.0	20	85	5	53	35	2	2	60	1.24
52905615--52905652	16	2.3	17	90	4	60	31	7	0	60	1.25
52905735--52905792	29	2.0	29	100	0	116	58	3	0	37	1.15
52912972--52913110	67	2.1	67	97	0	260	27	10	17	44	1.81
52922270--52922632	181	2.0	181	95	0	654	34	18	17	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52925309--52925378	23	3.0	23	82	2	86	27	8	18	45	1.78
52925327--52925394	23	2.9	23	80	6	66	30	5	17	45	1.72
52926490--52926572	43	2.0	42	97	2	157	34	27	9	27	1.88
52928775--52928813	20	2.1	18	85	9	51	53	5	17	23	1.63
52938996--52939041	24	1.9	24	90	0	74	34	8	8	47	1.65
52953106--52953161	29	1.9	29	85	7	78	35	14	8	41	1.77
52956236--52956502	95	2.9	93	89	2	412	21	14	15	48	1.80
52959221--52959268	15	3.4	14	81	13	55	54	4	0	41	1.20
52962008--52962041	16	2.1	16	88	0	50	82	8	8	0	0.85
52965857--52965897	11	3.7	11	80	0	55	19	14	9	56	1.66

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