genome.fa.s20.2.7.7.80.10.50.1000.182.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  182  of  199  ( 23844 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)
52898709--52898784	23	3.3	23	83	5	100	28	25	22	23	1.99
52899010--52899048	18	2.2	17	86	13	53	46	20	0	33	1.51
52919774--52919804	15	2.1	15	100	0	62	32	16	19	32	1.94
52921263--52921303	15	2.5	17	80	11	50	41	0	0	58	0.98
52923841--52923906	29	2.3	29	84	5	80	28	28	12	30	1.93
52923728--52924055	174	1.9	174	96	0	611	31	24	13	30	1.94
52924015--52924086	29	2.5	30	82	13	96	30	29	12	27	1.93
52933269--52933299	9	3.4	9	90	0	53	25	12	22	38	1.90
52933417--52933459	21	2.0	21	82	8	52	23	34	0	41	1.55
52935578--52935614	18	2.1	18	90	5	58	27	0	5	67	1.12
52941995--52942188	105	1.9	101	86	4	271	32	16	22	28	1.96
52942024--52942220	105	1.9	105	83	2	261	33	17	22	26	1.96
52942952--52943138	72	2.6	72	88	1	268	20	28	25	25	1.99
52943558--52943610	24	2.2	25	89	3	81	43	22	1	32	1.64
52947459--52947565	51	2.1	51	89	0	169	34	26	9	29	1.88
52948418--52948628	117	1.8	117	92	2	361	42	24	10	22	1.85
52948815--52948859	16	2.8	16	82	3	54	35	0	22	42	1.54
52949791--52949853	20	3.2	20	75	8	65	71	1	19	7	1.19
52950092--52950120	6	5.0	6	95	4	51	48	0	0	51	1.00
52950095--52950128	12	2.8	13	86	13	54	50	0	0	50	1.00
52950092--52950142	17	2.9	17	76	18	50	47	0	0	52	1.00
52953032--52953073	20	2.1	20	100	0	84	40	9	16	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52957317--52957458	43	3.3	43	83	0	149	24	14	27	33	1.95
52961359--52961538	45	4.0	45	80	6	206	27	13	23	34	1.93
52961363--52961536	90	1.9	89	85	5	235	28	13	22	35	1.93
52967339--52967372	15	2.3	15	94	0	59	20	14	14	50	1.78
52967764--52967806	18	2.5	17	82	14	52	62	2	2	32	1.20
52968340--52968396	29	1.9	30	89	3	89	52	5	1	40	1.34
52976898--52977278	190	2.0	190	96	0	699	34	22	17	25	1.96
52978594--52978676	22	3.6	22	73	17	60	61	8	1	28	1.33
52978617--52978667	25	2.0	25	84	7	66	58	9	0	31	1.30
52985253--52985321	21	3.3	21	72	0	66	37	14	28	18	1.91
52985312--52985397	42	2.0	42	82	8	104	52	15	17	15	1.75
52985331--52985411	42	1.9	43	80	12	96	51	13	17	17	1.76
52987403--52987458	11	5.1	11	72	8	51	69	5	0	25	1.09
52991412--52991447	6	6.2	6	87	6	56	0	16	0	83	0.65
53003443--53003494	15	3.4	15	77	17	54	40	0	0	59	0.97
53006531--53006573	23	1.9	22	86	13	61	46	9	16	27	1.77
53006531--53006573	22	1.9	23	86	13	63	46	9	16	27	1.77
53006747--53006793	20	2.3	20	96	0	85	53	10	14	21	1.71
53006927--53006977	3	17.0	3	76	15	52	64	1	0	33	1.05
53006927--53006977	15	3.4	15	89	5	68	64	1	0	33	1.05
53008146--53008177	16	2.0	16	93	0	55	12	6	40	40	1.68
53008379--53008417	17	2.3	18	86	8	55	61	0	5	33	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53020792--53020841	20	2.5	20	80	0	55	50	4	2	44	1.32
53032958--53032987	7	4.3	7	100	0	60	60	13	0	26	1.34
53033810--53033848	20	1.9	21	84	5	53	30	15	2	51	1.57
53033921--53034060	43	3.3	42	77	6	138	36	20	21	21	1.95
53033921--53034147	42	5.3	41	75	6	141	38	19	19	22	1.93
53034044--53034160	42	2.7	42	77	7	119	41	17	16	24	1.90
53036131--53036169	20	1.9	21	94	5	71	35	10	7	46	1.67
53039845--53039887	9	4.8	9	91	0	59	25	9	25	39	1.85
53053936--53053977	11	3.4	12	84	15	59	4	7	4	83	0.91
53056188--53056518	178	1.9	179	90	0	529	40	10	14	34	1.80
53057743--53057781	14	2.8	13	81	11	51	41	0	0	58	0.98
53060446--53060493	19	2.5	20	82	3	62	35	0	2	62	1.07
53062666--53062702	9	4.1	9	92	0	65	45	13	10	29	1.77
53067422--53067459	20	1.9	20	94	0	67	47	2	0	50	1.15
53073647--53073686	20	2.1	19	85	4	53	77	2	10	10	1.08
53079239--53079269	10	3.2	10	95	4	55	93	0	6	0	0.35
53079241--53079271	15	2.1	15	93	0	53	90	0	9	0	0.46
53081193--53081261	24	2.9	24	76	4	77	18	4	20	56	1.58
53086017--53086066	11	4.6	11	75	20	52	72	18	6	4	1.22
53086677--53086708	13	2.5	13	100	0	64	6	50	37	6	1.53
53086894--53086955	25	2.3	26	83	8	72	35	0	1	62	1.05
53097152--53097219	29	2.3	29	90	5	102	11	8	47	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53100742--53100774	17	1.9	17	88	11	50	24	27	24	24	2.00
53104521--53104590	34	2.1	34	83	5	88	30	12	14	42	1.83
53105713--53105747	4	9.0	4	93	6	63	74	0	0	25	0.82
53106056--53106151	31	3.1	31	95	3	174	45	13	9	31	1.75
53109206--53109265	31	1.9	32	93	3	104	3	13	11	71	1.26
53109228--53109295	22	3.2	20	73	20	59	4	14	10	70	1.30
53109208--53109286	33	2.5	31	82	12	81	5	15	11	68	1.36
53109853--53109946	31	3.0	31	93	3	161	46	13	7	31	1.71
53112857--53112906	24	2.0	25	84	3	66	52	4	8	36	1.50
53134269--53134363	39	2.3	40	85	10	131	56	6	1	35	1.31
53135071--53135108	20	1.9	20	94	0	67	42	2	0	55	1.14
53135144--53135177	11	2.9	12	91	8	52	26	0	8	64	1.22
53144852--53144892	3	13.7	3	84	0	55	63	2	0	34	1.08
53145689--53145723	5	7.0	5	93	0	61	60	2	0	37	1.12
53145843--53145869	13	2.1	13	100	0	54	37	7	0	55	1.28
53153855--53153887	6	5.3	6	92	7	57	66	0	0	33	0.92
53153857--53153884	13	2.2	13	100	0	56	71	0	0	28	0.86
53158265--53158292	7	4.0	7	100	0	56	0	71	0	28	0.86
53159203--53159244	6	7.0	6	91	0	66	0	16	33	50	1.46
53164957--53164990	17	2.1	16	88	5	50	76	0	0	23	0.79
53164967--53165071	19	5.7	19	67	11	58	67	1	0	29	1.07
53164958--53165047	26	3.3	26	73	16	67	67	1	0	31	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53164970--53165041	28	2.6	27	80	12	83	66	1	0	31	1.00
53164970--53165047	27	2.8	29	79	15	99	66	1	0	32	1.00
53172134--53172206	36	2.0	36	91	0	119	45	2	17	34	1.63
53175054--53175082	14	2.0	15	93	6	51	10	13	0	75	1.04
53178046--53178324	144	2.0	138	87	9	401	45	17	4	31	1.69
53178204--53178235	12	2.7	12	95	0	55	43	21	0	34	1.53
53180906--53180963	23	2.5	23	85	0	80	51	25	6	15	1.68
53183249--53183302	21	2.5	21	76	8	56	72	9	1	16	1.19
53184525--53184571	22	2.2	22	85	11	62	40	4	0	55	1.19
53186061--53186184	12	9.8	12	68	13	61	50	8	15	25	1.71
53186066--53186112	25	1.9	24	86	4	67	48	6	14	29	1.69
53186180--53186218	20	2.0	20	85	10	53	64	7	12	15	1.49
53188413--53188438	11	2.4	11	100	0	52	76	7	0	15	0.99
53192353--53192387	2	18.0	2	94	5	63	51	0	48	0	1.00
53197847--53197898	24	2.2	24	89	0	77	55	9	1	32	1.43
53199817--53199868	24	2.2	24	89	0	77	55	9	1	32	1.43
53217329--53217369	21	1.9	22	85	5	57	26	0	4	68	1.10
53219393--53219580	45	4.2	45	86	4	247	34	27	16	21	1.95
53243189--53243250	20	3.0	21	77	13	67	59	0	8	32	1.26
53243269--53243318	10	5.4	9	75	20	50	26	2	4	68	1.18
53243435--53243574	9	14.7	10	67	25	56	34	2	1	62	1.16
53243436--53243536	19	5.3	19	74	10	89	31	2	0	64	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53243435--53243574	19	7.4	19	68	15	58	34	2	1	62	1.16
53243436--53243574	10	14.6	10	68	21	68	33	2	1	62	1.16
53243557--53243587	16	2.0	16	93	6	55	35	0	0	64	0.94
53243501--53243588	26	3.3	27	83	10	92	36	0	2	61	1.09
53252218--53252286	25	2.8	25	77	0	75	34	15	23	26	1.95
53252271--53252359	24	3.7	24	71	11	65	35	21	24	17	1.95
53252409--53252483	26	2.9	26	86	4	98	38	22	20	18	1.93
53258360--53258400	13	3.2	13	83	13	50	73	0	7	19	1.07
53259941--53259969	4	7.5	4	92	7	51	48	0	24	27	1.51
53262448--53262562	59	1.9	59	98	0	221	37	26	7	28	1.84

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199