genome.fa.s20.2.7.7.80.10.50.1000.109.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  109  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)
30860299--30860332	17	2.0	17	88	0	50	35	17	11	35	1.87
30860993--30861074	24	3.5	24	91	5	125	41	21	21	14	1.89
30862210--30862281	5	14.4	5	75	20	62	56	4	0	38	1.18
30862211--30862253	19	2.3	19	92	8	70	58	0	0	41	0.98
30862217--30862282	24	2.7	25	81	9	73	59	4	0	36	1.18
30866259--30866306	24	2.0	24	84	4	62	22	12	22	41	1.88
30868230--30868413	45	3.8	53	82	13	186	21	15	26	35	1.94
30868278--30868456	45	4.0	45	90	1	263	21	16	27	34	1.94
30868624--30868655	16	2.0	16	93	0	55	59	0	15	25	1.36
30877657--30877877	68	3.2	68	91	0	343	39	16	16	27	1.90
30880772--30880807	19	1.9	18	88	5	54	66	8	0	25	1.19
30880750--30880814	19	3.3	19	72	14	51	64	4	0	30	1.14
30880791--30880839	21	2.3	21	82	10	55	63	4	2	30	1.24
30881532--30881599	34	2.0	34	85	2	93	36	2	4	55	1.35
30881593--30881654	29	2.1	29	82	11	74	35	4	1	58	1.29
30881640--30881679	20	2.0	20	85	9	55	30	7	2	60	1.38
30905182--30905256	5	14.2	5	90	6	105	40	0	0	60	0.97
30905185--30905248	3	24.0	3	75	23	63	39	0	0	60	0.97
30905265--30905379	39	2.9	39	83	7	137	66	6	26	0	1.16
30918183--30918226	11	4.2	11	82	8	56	34	25	0	40	1.56
30919704--30919777	29	2.5	29	78	8	78	32	1	1	64	1.10
30919692--30919767	39	1.9	40	89	2	118	30	1	0	68	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30919867--30919896	10	3.0	10	100	0	60	0	30	60	10	1.30
30920207--30920653	23	19.2	23	72	16	260	40	18	13	27	1.88
30920152--30920676	93	5.6	93	96	0	933	40	18	13	28	1.88
30921371--30921489	28	4.2	28	89	0	166	34	25	9	31	1.87
30922146--30922180	17	2.1	17	89	10	54	65	11	2	20	1.37
30924514--30924550	11	3.4	11	88	0	56	24	5	21	48	1.71
30924540--30924612	9	8.2	9	86	8	96	24	9	23	42	1.84
30924545--30924612	27	2.6	26	90	2	109	26	8	22	42	1.82
30927415--30928854	70	20.6	70	84	1	1630	28	28	19	23	1.98
30932732--30932768	17	2.1	18	90	5	58	29	5	5	59	1.42
30935654--30935696	21	2.0	23	81	9	54	44	6	0	48	1.29
30936764--30936805	20	2.1	20	100	0	84	42	0	9	47	1.36
30938168--30938200	15	2.2	15	94	0	57	15	15	0	69	1.19
30940082--30940160	27	2.9	27	79	7	72	31	21	13	32	1.93
30942187--30942226	20	2.0	20	86	13	57	52	2	5	40	1.37
30943460--30943484	12	2.1	12	100	0	50	24	36	24	16	1.94
30943645--30943711	9	7.4	9	86	0	98	41	23	10	23	1.85
30946506--30946618	54	2.1	54	96	0	208	44	1	8	45	1.45
30946521--30946606	28	3.1	27	65	24	63	46	2	8	43	1.46
30946617--30946658	15	2.7	16	82	14	52	45	0	2	52	1.13
30946608--30946649	15	2.9	15	82	10	52	47	0	0	52	1.00
30946875--30946910	16	2.2	16	100	0	72	38	36	0	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30946970--30947013	18	2.4	18	88	0	61	13	2	43	40	1.57
30961095--30961151	22	2.6	23	83	8	73	43	19	26	10	1.83
30961143--30961200	25	2.3	24	85	8	80	32	22	25	18	1.97
30962172--30962203	13	2.5	13	94	0	55	56	0	3	40	1.15
30973517--30973542	3	8.7	3	100	0	52	65	0	0	34	0.93
30977963--30978020	23	2.5	22	80	2	62	31	10	15	43	1.80
30980373--30980428	28	2.0	28	100	0	112	28	17	10	42	1.83
30985048--30985095	18	2.7	18	93	0	78	33	12	14	39	1.84
30985524--30985761	72	3.3	72	91	2	365	23	6	14	55	1.63
30987140--30987172	15	2.2	15	100	0	66	27	6	39	27	1.80
30994159--30994249	41	2.2	41	88	2	128	30	19	27	21	1.98
30994436--30994525	38	2.3	39	83	7	103	33	7	20	38	1.81
30998554--30999004	119	3.8	119	88	2	629	50	12	2	34	1.55
30999037--30999113	16	4.5	16	70	24	50	51	12	0	35	1.40
31008017--31008092	31	2.5	31	88	0	116	42	17	13	27	1.86
31008495--31008594	40	2.5	40	93	0	173	34	24	18	24	1.96
31023962--31024203	28	8.6	28	87	1	270	23	21	14	40	1.90
31028139--31028172	18	1.9	17	88	5	50	58	0	5	35	1.22
31030100--31030132	16	2.1	16	100	0	66	36	6	36	21	1.78
31030114--31030208	44	2.1	45	86	5	131	33	5	28	32	1.80
31041281--31041369	27	3.3	27	87	3	117	24	20	31	23	1.98
31042395--31042437	19	2.2	20	84	12	63	32	18	0	48	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31045414--31045465	26	2.0	26	92	0	86	28	34	21	15	1.94
31045426--31045576	72	2.1	71	90	2	232	30	29	16	23	1.96
31045495--31045718	104	2.2	104	92	1	369	31	31	19	18	1.95
31046047--31046110	30	2.2	29	81	10	76	29	28	6	35	1.82
31046054--31046110	30	1.9	30	85	3	80	29	24	7	38	1.82
31050394--31050494	40	2.6	38	80	10	123	37	3	8	49	1.53
31054455--31054481	12	2.2	12	100	0	54	0	40	0	59	0.98
31054796--31055020	124	1.8	124	90	1	362	23	19	19	38	1.94
31056261--31056306	17	2.6	18	79	6	58	39	6	0	54	1.26
31058571--31058620	20	2.6	19	82	14	59	64	2	0	34	1.05
31059416--31059475	30	2.0	30	100	0	120	20	13	20	46	1.83
31062722--31062889	81	2.0	85	89	5	263	19	10	18	51	1.74
31065121--31065226	53	2.0	53	100	0	212	41	15	9	33	1.79
31065814--31065844	16	1.9	16	93	0	53	9	9	9	70	1.33
31082678--31082711	18	1.9	17	88	5	50	55	2	0	41	1.15
31082796--31082832	16	2.2	17	86	13	51	54	0	0	45	1.00
31082658--31083076	120	3.5	119	94	1	714	48	5	2	44	1.38
31083035--31083071	16	2.2	17	86	13	51	54	0	2	43	1.14
31083015--31083071	15	3.6	16	80	20	50	50	0	1	47	1.11
31083088--31083476	91	4.3	91	96	0	706	47	3	3	46	1.35
31083135--31083461	47	7.1	47	70	18	269	48	3	2	45	1.34
31092271--31092313	22	2.0	22	86	9	61	62	6	0	30	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31092419--31092455	18	2.0	19	89	5	58	48	8	5	37	1.56
31093695--31093733	15	2.6	15	100	0	78	25	7	25	41	1.82
31093729--31093969	120	2.0	120	99	0	473	24	15	17	41	1.89
31102833--31103371	69	7.8	69	86	0	639	35	24	19	20	1.96
31102839--31103371	207	2.6	207	85	0	715	35	24	19	19	1.96
31106734--31106792	22	2.7	22	86	0	82	40	10	25	23	1.86
31128298--31128388	29	3.2	29	68	14	71	38	14	23	24	1.91
31128276--31128406	57	2.3	57	86	4	183	34	15	23	26	1.94
31128955--31129080	63	2.0	63	98	0	243	31	13	23	30	1.93
31136501--31136642	50	2.8	50	83	0	176	21	30	21	26	1.98
31136925--31137235	155	2.0	155	95	0	559	35	20	7	36	1.81
31144169--31144402	100	2.3	100	84	2	292	22	27	20	29	1.99
31144130--31144411	50	5.7	50	81	1	262	22	26	20	30	1.98
31147158--31147548	202	1.9	202	87	0	575	33	16	17	32	1.92
31156126--31156163	20	1.9	20	88	0	58	57	2	5	34	1.35
31157063--31157151	7	12.1	7	92	7	142	13	0	40	46	1.43
31157063--31157151	15	6.1	14	92	7	142	13	0	40	46	1.43
31157063--31157157	22	4.2	23	93	6	160	13	1	40	45	1.51
31172046--31172074	2	14.5	2	100	0	58	48	0	51	0	1.00
31172490--31172519	15	1.9	16	93	6	53	23	0	13	63	1.29
31173785--31173913	40	3.3	38	74	10	102	30	21	22	25	1.99
31173947--31174180	40	5.8	40	73	10	188	29	22	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31175315--31175353	20	2.0	20	94	0	69	17	25	0	56	1.41
31177899--31178042	47	3.1	47	85	6	186	45	16	0	37	1.53
31177926--31178042	56	2.1	56	90	3	182	45	17	0	35	1.55
31177774--31178042	9	28.6	9	72	14	134	45	16	1	36	1.58
31183713--31183954	43	5.5	43	78	10	249	26	16	26	30	1.97
31183723--31183898	92	1.9	92	88	4	266	26	16	26	30	1.97
31185376--31185619	92	2.6	92	84	3	287	27	20	22	30	1.98
31185376--31185623	46	5.4	46	77	7	202	27	20	21	30	1.98
31185377--31185643	138	1.9	138	80	3	304	29	19	20	30	1.97
31196220--31196259	20	2.0	20	85	9	55	22	30	0	47	1.52

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