genome.fa.s16.2.7.7.80.10.50.1000.172.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  172  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)
51748513--51748553	21	2.0	21	81	18	50	21	26	19	31	1.97
51755779--51755831	27	2.0	26	82	14	63	9	28	1	60	1.38
51760926--51761023	47	2.1	46	87	7	137	45	12	11	30	1.76
51765994--51766222	55	4.2	55	84	1	262	26	9	17	46	1.78
51765994--51766224	110	2.1	110	83	1	293	26	9	16	46	1.78
51767269--51767325	28	2.0	29	93	3	98	28	26	8	36	1.86
51767440--51767579	55	2.5	55	85	3	201	22	9	17	50	1.74
51768317--51768366	17	2.7	20	78	18	70	10	0	44	46	1.37
51772954--51773003	17	2.7	20	78	18	70	10	0	44	46	1.37
51774001--51774058	20	2.8	21	76	10	57	65	0	1	32	1.03
51774754--51774947	74	2.6	74	90	1	298	38	26	8	26	1.85
51775000--51775136	42	3.3	42	92	0	211	14	27	13	43	1.84
51800091--51800305	55	3.9	55	83	2	261	27	10	15	46	1.78
51801449--51801560	56	2.0	56	100	0	224	26	12	16	44	1.83
51801979--51802187	74	2.8	74	84	2	265	41	26	8	23	1.82
51802240--51802376	42	3.3	42	92	0	211	14	27	13	43	1.84
51809368--51809409	21	2.0	21	90	4	68	52	4	0	42	1.22
51824283--51824399	58	2.0	58	100	0	234	40	15	13	30	1.86
51828237--51828263	4	6.8	4	100	0	54	22	0	0	77	0.76
51835002--51835088	34	2.5	35	81	7	97	27	21	20	29	1.98
51839860--51839993	42	3.2	42	89	2	189	44	10	30	14	1.78
51840050--51840378	76	4.3	76	96	0	604	23	6	27	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51847749--51847822	36	2.1	36	100	0	148	24	27	20	28	1.99
51848635--51848697	30	2.1	30	90	0	99	26	3	12	57	1.51
51850233--51850276	9	4.7	9	81	10	52	25	0	2	72	0.96
51850243--51850270	11	2.5	11	100	0	56	25	0	0	75	0.81
51850241--51850288	20	2.4	20	85	0	60	29	0	0	70	0.87
51854068--51854158	28	3.1	28	66	28	71	48	9	12	29	1.73
51861690--51861725	3	12.0	3	87	0	54	36	2	33	27	1.72
51862351--51862392	21	1.9	22	85	9	59	45	7	4	42	1.52
51869242--51869275	14	2.4	14	90	0	50	35	0	0	64	0.94
51872418--51872488	33	2.2	33	92	0	115	56	5	2	35	1.38
51872436--51872490	17	3.3	17	70	14	60	58	5	3	32	1.38
51879053--51879123	31	2.3	31	82	4	81	28	15	14	42	1.86
51897840--51897902	29	2.2	29	80	5	74	46	6	12	34	1.68
51899901--51900061	26	6.5	25	66	21	81	42	0	3	53	1.23
51899987--51900032	18	2.6	19	80	13	53	41	0	2	56	1.11
51900049--51900100	22	2.4	21	79	17	54	38	0	5	55	1.24
51900090--51900125	16	2.3	16	95	4	65	47	0	5	47	1.25
51899882--51900174	122	2.4	122	95	1	527	42	0	4	52	1.23
51900302--51900402	44	2.4	42	79	11	109	30	29	4	34	1.79
51900320--51900407	45	2.0	45	86	2	124	32	28	5	32	1.81
51904126--51904167	6	7.0	6	100	0	84	33	0	16	50	1.46
51913277--51913382	45	2.4	45	85	1	142	18	2	22	55	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51913298--51913400	45	2.3	45	81	6	122	17	2	29	50	1.60
51915327--51915351	10	2.5	10	100	0	50	0	0	36	64	0.94
51916081--51916128	25	1.9	25	86	0	69	22	8	6	62	1.46
51932139--51932191	4	13.2	4	100	0	106	49	26	0	24	1.51
51943277--51943355	39	2.0	39	100	0	158	32	10	27	29	1.89
51953146--51953196	18	2.7	19	76	14	52	50	13	3	31	1.60
51958255--51958297	12	3.3	13	90	9	70	60	0	0	39	0.97
51958255--51958307	26	2.0	25	85	7	70	62	0	0	37	0.96
51970537--51970699	81	2.0	80	82	3	193	36	22	14	25	1.93
51973973--51974022	22	2.3	22	82	0	64	62	8	0	30	1.24
51974005--51974048	18	2.3	19	84	11	63	54	4	0	40	1.21
51974006--51974053	18	2.7	18	87	6	62	54	4	0	41	1.20
51974059--51974114	10	5.5	10	76	14	53	67	1	3	26	1.16
51974058--51974114	21	2.8	20	76	19	64	66	1	3	28	1.18
51979217--51979309	18	5.2	18	90	0	150	27	24	16	31	1.96
51979217--51979309	36	2.6	36	96	0	168	27	24	16	31	1.96
51991096--51991134	18	2.2	18	85	0	51	33	12	23	30	1.92
51993753--51993797	23	2.0	22	82	4	54	40	4	17	37	1.70
52003195--52003291	3	32.7	3	73	10	83	60	5	2	31	1.30
52005044--52005286	44	5.5	43	69	16	167	25	25	21	26	2.00
52004981--52005324	88	3.9	88	89	2	496	25	25	22	26	2.00
52004981--52005324	176	2.0	176	90	1	546	25	25	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52010395--52010451	25	2.4	24	79	5	71	54	3	1	40	1.28
52012789--52012837	20	2.7	17	77	17	53	67	2	6	24	1.24
52012825--52012849	12	2.1	12	100	0	50	76	0	8	16	1.02
52013049--52013086	20	1.9	19	89	5	58	47	5	23	23	1.72
52028677--52028734	19	3.2	19	83	9	68	36	0	1	62	1.06
52035854--52035920	24	2.8	24	69	15	66	17	8	43	29	1.80
52038544--52038591	23	2.0	24	81	18	57	39	0	6	54	1.26
52039590--52039640	21	2.4	21	83	3	66	33	0	1	64	1.05
52041818--52041858	6	6.8	6	91	0	55	36	2	43	17	1.62
52042256--52042419	69	2.4	69	89	1	247	30	15	17	36	1.91
52042326--52042966	342	1.9	333	84	4	847	26	19	23	31	1.98
52047081--52047123	4	10.8	4	84	0	59	27	4	23	44	1.73
52047081--52047123	16	2.7	16	92	0	77	27	4	23	44	1.73
52053584--52053620	12	3.0	13	84	11	51	29	40	18	10	1.85
52055523--52055580	3	19.0	3	77	22	59	67	1	3	27	1.17
52060005--52060126	23	5.3	23	89	0	199	30	27	21	21	1.98
52060005--52060126	46	2.7	46	97	0	226	30	27	21	21	1.98
52060352--52060390	18	2.2	17	86	13	53	46	20	0	33	1.51
52065224--52065307	42	2.0	43	90	2	134	34	20	9	35	1.85
52087819--52087858	13	3.1	12	83	16	53	77	0	5	17	0.94
52089447--52089517	29	2.4	28	86	4	88	46	2	14	36	1.59
52091269--52091302	13	2.6	13	100	0	68	41	0	44	14	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52091269--52091302	7	5.1	7	86	13	54	41	0	44	14	1.45
52091304--52091372	17	4.3	16	70	17	54	33	5	52	8	1.56
52091292--52091358	30	2.2	32	89	5	102	32	4	55	7	1.48
52091404--52091645	30	8.2	29	93	3	405	51	0	9	38	1.40
52091404--52091645	59	4.1	59	95	2	416	51	0	9	38	1.40
52092450--52092506	16	3.6	16	75	17	64	38	12	1	47	1.51
52092444--52092508	32	2.0	32	100	0	130	41	12	3	43	1.58
52092590--52092642	21	2.5	21	93	0	88	30	39	9	20	1.84
52095504--52095561	29	2.0	29	80	12	66	39	10	1	48	1.48
52100419--52100728	159	2.0	156	84	3	406	25	17	15	41	1.89
52110718--52110750	17	1.9	17	93	0	57	36	6	3	54	1.41
52115956--52115981	12	2.2	12	100	0	52	46	0	0	53	1.00
52126192--52126216	12	2.1	12	100	0	50	36	0	8	56	1.29
52128594--52128651	26	2.2	26	87	3	80	37	20	6	34	1.80
52130903--52130980	28	2.8	28	94	0	129	25	26	14	33	1.94
52133118--52133142	9	2.8	9	100	0	50	68	0	0	32	0.90
52140625--52140706	35	2.4	33	78	17	87	67	13	1	18	1.30
52140646--52140703	16	3.4	16	77	13	71	68	10	1	18	1.26
52140671--52140700	6	4.8	6	92	8	51	70	13	0	16	1.18
52142881--52142909	14	2.0	15	93	6	51	68	0	3	27	1.05
52145296--52145356	31	2.0	30	83	3	77	34	0	8	57	1.29
52156578--52156651	18	4.1	18	89	0	103	29	18	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52165174--52165466	144	2.1	144	85	3	398	34	27	8	29	1.86
52170319--52170412	48	1.9	49	95	2	172	25	8	9	56	1.60
52170321--52170424	48	2.1	49	91	1	165	26	8	8	55	1.59
52170761--52170867	8	11.8	9	69	18	62	54	1	3	40	1.29
52170770--52170819	19	2.7	19	90	3	75	60	0	4	36	1.16
52170761--52170827	18	3.7	18	84	5	82	58	0	2	38	1.14
52170890--52170938	17	2.9	16	76	11	53	63	2	2	32	1.17
52171642--52171680	18	2.1	19	85	4	53	33	0	2	64	1.08
52171641--52171683	19	2.3	19	80	8	52	34	0	2	62	1.08
52174054--52174098	18	2.5	19	82	10	58	44	2	0	53	1.13

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