genome.fa.s5.2.7.7.80.10.50.1000.173.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   200   201   202   203   204   205   206   207   208   

This is table  173  of  208  ( 24913 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)
52702336--52702378	19	2.2	20	91	4	70	39	0	0	60	0.97
52705765--52705979	21	10.3	21	75	5	177	46	16	21	15	1.84
52705784--52705976	42	4.6	42	84	2	235	44	17	21	16	1.86
52705782--52705976	84	2.3	84	84	0	273	44	16	21	16	1.86
52707844--52707886	19	2.2	20	83	8	52	51	9	4	34	1.55
52709299--52709584	147	1.9	147	93	1	493	33	8	18	39	1.82
52711246--52711287	22	1.9	22	90	9	68	35	2	0	61	1.09
52728715--52728762	2	24.0	2	100	0	96	50	50	0	0	1.00
52729388--52729494	40	2.7	40	75	8	101	37	15	28	17	1.91
52731572--52732082	257	2.0	256	97	0	959	28	15	17	38	1.91
52735333--52735385	27	2.0	27	84	0	70	16	26	18	37	1.93
52735631--52735745	45	2.6	45	80	6	117	24	22	10	42	1.85
52746383--52746519	72	1.9	72	80	0	157	41	13	17	27	1.87
52746976--52747019	19	2.3	19	84	7	54	9	9	2	79	1.02
52757323--52757383	3	20.3	3	100	0	122	32	0	0	67	0.91
52760103--52760188	45	1.9	45	92	0	145	33	23	16	26	1.95
52760199--52760385	51	3.7	50	79	4	214	31	26	17	24	1.97
52760197--52760381	101	1.8	101	87	3	273	31	26	17	24	1.97
52761658--52761697	3	13.3	3	100	0	80	65	0	0	35	0.93
52763493--52763541	19	2.5	19	83	9	64	53	6	0	40	1.26
52763493--52763531	18	2.1	18	90	4	60	53	5	0	41	1.23
52763516--52763571	25	2.3	24	76	11	62	57	1	0	41	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52772375--52772786	204	2.0	201	82	3	506	24	19	13	42	1.87
52773228--52773271	13	3.5	12	79	11	52	27	2	31	38	1.69
52775835--52775906	34	2.1	34	82	14	87	51	2	5	40	1.40
52776756--52776784	6	4.8	6	100	0	58	86	0	0	13	0.58
52777602--52778797	132	8.9	132	88	4	1638	28	24	18	28	1.98
52777610--52778797	529	2.2	532	88	4	1775	28	24	18	28	1.98
52784578--52784663	3	29.7	3	88	4	124	63	0	3	32	1.11
52788253--52788322	27	2.6	27	93	0	122	45	11	20	22	1.82
52791846--52791897	24	2.2	24	86	6	70	34	1	7	55	1.39
52800119--52800179	18	3.4	17	84	8	68	37	22	22	16	1.93
52803877--52803940	3	21.3	3	100	0	128	65	0	0	34	0.93
52804549--52804582	15	2.2	16	89	5	52	73	2	8	14	1.19
52807386--52807443	29	2.0	29	96	0	107	37	8	17	36	1.80
52808474--52808554	31	2.7	29	79	11	83	45	11	9	33	1.73
52813709--52813813	55	1.9	55	82	3	131	37	9	11	41	1.74
52817082--52817142	27	2.3	27	85	5	79	29	27	18	24	1.98
52817135--52817260	27	4.7	27	74	3	74	26	22	14	37	1.92
52817108--52817260	54	2.8	55	77	8	145	26	23	14	35	1.93
52817196--52817325	65	2.0	65	100	0	260	26	21	12	40	1.88
52821414--52821481	29	2.3	30	80	7	77	22	16	19	42	1.89
52822962--52823086	63	2.0	63	84	3	162	42	17	10	29	1.83
52831450--52831493	20	2.2	20	84	11	56	15	4	0	79	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52831446--52831496	15	3.3	15	75	20	50	17	3	0	78	0.90
52831750--52831789	19	2.1	19	95	0	71	12	10	12	65	1.49
52836018--52836271	45	5.7	44	78	5	240	20	16	16	46	1.84
52836021--52836271	135	1.9	135	82	5	319	20	16	15	47	1.83
52836018--52836280	90	2.9	90	82	6	273	19	17	15	47	1.83
52844453--52844560	42	2.6	42	90	0	171	23	25	28	22	1.99
52844537--52844600	30	2.1	30	85	5	85	28	20	28	23	1.99
52847240--52847303	27	2.4	27	89	2	94	51	4	4	39	1.44
52849299--52849414	45	2.6	45	79	2	126	20	16	13	49	1.80
52849502--52849532	5	6.2	5	96	0	53	58	0	0	41	0.98
52850258--52850292	17	2.1	17	100	0	70	48	17	0	34	1.47
52858108--52858152	13	3.4	13	78	3	54	60	13	11	15	1.60
52859389--52859519	69	1.9	69	96	3	246	35	16	14	33	1.90
52860795--52860856	31	2.0	32	83	3	81	41	9	11	37	1.74
52861251--52861312	27	2.2	28	80	2	72	46	0	3	50	1.17
52862484--52862746	129	2.0	129	97	0	490	35	5	25	33	1.80
52866095--52866133	20	2.0	20	85	10	53	79	2	5	12	1.00
52882897--52882964	33	2.1	31	81	10	75	66	7	7	19	1.40
52904873--52904926	25	2.2	25	86	0	72	16	31	38	12	1.87
52906742--52906796	27	2.0	27	86	6	76	23	27	1	47	1.62
52906762--52906811	18	2.6	19	81	6	57	24	28	0	48	1.52
52906785--52906869	43	2.0	43	95	0	152	22	25	2	49	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52907191--52907235	24	2.0	24	86	8	67	40	13	0	46	1.43
52916144--52916174	13	2.3	14	94	5	55	29	19	16	35	1.93
52916265--52916323	31	2.0	29	86	6	82	45	8	3	42	1.51
52924524--52924582	29	2.0	30	83	3	75	28	5	15	50	1.65
52931556--52931596	22	2.0	22	85	9	59	65	0	9	24	1.22
52935028--52935073	3	14.7	3	91	8	74	0	34	0	65	0.93
52938815--52938866	24	2.2	24	89	0	77	36	3	9	50	1.54
52943257--52943294	10	3.9	10	89	6	60	44	0	5	50	1.24
52943257--52943296	19	2.1	19	95	0	71	42	0	5	52	1.23
52944369--52944686	120	2.7	120	78	5	324	30	14	22	32	1.94
52962243--52962327	7	11.4	7	78	9	53	64	10	0	24	1.25
52962275--52962323	25	2.0	25	88	8	73	61	10	0	28	1.29
52969303--52969342	20	2.0	20	90	0	62	50	0	10	40	1.36
52969350--52969390	7	5.9	7	94	0	73	0	29	2	68	1.03
52969350--52969400	21	2.3	22	90	6	77	1	27	3	66	1.20
52979730--52979845	57	2.1	56	86	4	162	25	6	18	50	1.71
52980752--52980803	26	2.0	26	88	3	79	50	3	0	46	1.20
52980961--52981004	16	2.8	16	78	0	52	31	27	2	38	1.69
52985730--52985776	16	2.9	16	69	12	51	53	14	4	27	1.60
52985695--52985776	32	2.6	32	90	0	119	52	17	2	28	1.57
52989325--52989350	5	5.2	5	100	0	52	19	38	0	42	1.51
53010926--53010970	21	2.2	21	84	4	56	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53014274--53014314	21	2.0	21	85	9	57	26	2	4	65	1.25
53022362--53022475	44	2.6	44	78	2	122	28	21	20	29	1.98
53022594--53022863	44	6.2	44	74	8	201	29	24	19	26	1.98
53022602--53022936	175	1.9	175	80	3	397	26	25	20	27	1.99
53022902--53023040	44	3.2	44	65	4	127	23	25	25	25	2.00
53022875--53023088	88	2.4	88	96	0	401	20	25	27	26	1.99
53022946--53023084	44	3.2	44	64	4	118	20	23	30	25	1.98
53026634--53026671	19	2.0	20	84	5	51	39	10	5	44	1.61
53030660--53030716	25	2.3	24	84	6	69	73	1	1	22	1.02
53037817--53037844	2	14.0	2	100	0	56	50	0	0	50	1.00
53045404--53045434	14	2.2	14	94	0	53	64	3	6	25	1.33
53052131--53052171	20	2.0	20	86	9	57	65	0	0	34	0.93
53052150--53052213	17	3.7	19	67	28	54	46	0	0	53	1.00
53054998--53055045	19	2.5	19	90	6	71	47	0	29	22	1.51
53055130--53055188	30	2.0	30	83	6	75	40	11	15	32	1.83
53055964--53056044	42	1.9	42	87	5	119	27	16	29	27	1.97
53082225--53082262	17	2.2	17	90	0	58	26	5	10	57	1.53
53087615--53087654	21	1.9	21	89	0	62	67	2	2	27	1.16
53098667--53098739	36	2.1	36	94	2	130	43	19	5	31	1.73
53113931--53113963	16	2.1	16	100	0	66	24	6	18	51	1.68
53125168--53125192	13	1.9	13	100	0	50	32	4	24	40	1.73
53126326--53126442	43	2.7	43	78	3	121	26	19	23	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53130152--53130286	40	3.4	39	74	9	114	31	25	17	25	1.97
53130445--53130501	24	2.3	24	80	17	64	49	17	0	33	1.47
53131161--53131200	8	4.8	9	79	17	50	7	20	0	72	1.08
53131165--53131213	24	2.0	24	92	7	82	6	20	0	73	1.04
53131169--53131244	31	2.4	32	80	10	86	7	17	2	72	1.20
53135160--53135218	28	2.1	28	100	0	118	25	8	16	49	1.74
53137255--53137439	101	1.8	102	88	3	284	24	18	26	30	1.98
53137255--53137437	51	3.6	50	78	5	172	24	18	26	30	1.98
53137449--53137576	42	3.0	43	76	11	163	25	17	23	32	1.97
53137445--53137575	43	3.1	43	77	10	169	25	19	23	31	1.98

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   200   201   202   203   204   205   206   207   208