genome.fa.s7.2.7.7.80.10.50.1000.32.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  32  of  204  ( 24458 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)
11718996--11719029	8	4.4	8	88	7	52	29	0	0	70	0.87
11718996--11719029	15	2.2	15	89	5	50	29	0	0	70	0.87
11718985--11719093	10	10.5	10	70	14	60	26	1	2	68	1.13
11719032--11719074	18	2.3	19	88	4	61	27	4	2	65	1.25
11719038--11719106	28	2.3	29	78	14	79	28	4	2	63	1.28
11719082--11719122	18	2.3	18	83	12	57	24	7	4	63	1.40
11719409--11719442	16	2.2	15	89	5	50	14	8	0	76	1.01
11723524--11723555	13	2.5	13	89	0	55	50	25	15	9	1.74
11737847--11737873	2	13.5	2	100	0	54	48	0	0	51	1.00
11740031--11740075	9	5.0	9	83	0	54	33	13	37	15	1.86
11740668--11740739	37	1.9	37	97	0	135	38	4	15	41	1.66
11742078--11742120	5	8.4	5	97	2	77	79	0	0	20	0.74
11746190--11746292	49	2.1	49	89	3	154	32	9	8	49	1.66
11747682--11748360	120	5.7	120	92	4	1113	41	1	4	51	1.34
11748090--11748140	18	2.9	18	85	8	61	39	1	0	58	1.09
11748243--11748482	102	2.4	102	94	0	417	43	2	5	49	1.36
11748623--11748718	45	2.2	44	88	5	140	37	27	5	30	1.78
11754415--11754444	3	10.0	3	100	0	60	33	33	0	33	1.58
11758541--11758565	2	12.5	2	100	0	50	52	0	0	48	1.00
11769026--11769220	41	4.8	41	97	0	363	26	28	20	24	1.99
11769736--11769818	2	41.5	2	87	9	107	46	4	1	46	1.31
11769892--11769916	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11773397--11773457	2	30.5	2	100	0	122	50	0	0	49	1.00
11774349--11774391	22	2.0	22	90	0	68	18	20	18	41	1.90
11779474--11779513	14	2.8	13	85	14	53	75	0	22	2	0.93
11779473--11779515	15	2.9	15	82	10	61	74	0	23	2	0.93
11781198--11781231	15	2.3	15	94	0	59	32	35	23	8	1.86
11782335--11782401	25	2.7	25	88	0	89	31	20	26	20	1.98
11786655--11786708	28	1.9	28	88	0	81	42	0	16	40	1.48
11797494--11797599	4	26.8	4	74	7	65	65	0	9	24	1.29
11798562--11798612	23	2.2	24	89	10	79	7	7	5	78	1.09
11800326--11800377	27	1.9	27	88	0	77	51	7	15	25	1.69
11809671--11809733	29	2.2	28	85	5	81	23	14	15	46	1.83
11811167--11811200	16	2.1	17	88	5	52	88	8	2	0	0.62
11813435--11813466	7	4.6	7	96	0	55	40	0	0	59	0.97
11821246--11821313	31	2.2	31	83	0	82	38	10	7	44	1.67
11823798--11823856	30	1.9	32	86	6	86	57	11	3	27	1.50
11824212--11824246	2	17.5	2	100	0	70	48	0	0	51	1.00
11826919--11827026	40	2.7	39	78	2	117	20	25	16	37	1.93
11828708--11828744	2	17.5	2	89	10	56	45	0	5	48	1.25
11830950--11830991	20	2.1	21	91	8	70	52	28	9	9	1.65
11848910--11848943	15	2.3	15	95	5	61	67	0	14	17	1.23
11874561--11874597	2	18.5	2	100	0	74	51	0	48	0	1.00
11884321--11884351	16	2.0	15	93	6	53	0	9	0	90	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11884324--11884361	20	2.0	20	89	5	60	0	10	2	86	0.66
11888224--11888266	22	1.9	23	85	4	61	32	2	4	60	1.30
11888224--11888275	22	2.4	22	80	6	52	34	1	7	55	1.39
11895014--11895057	18	2.4	18	88	7	63	47	0	0	52	1.00
11900923--11900979	28	2.0	28	96	0	105	31	19	0	49	1.49
11909971--11910018	18	2.7	18	77	6	53	72	4	10	12	1.24
11920916--11920960	22	2.1	21	83	4	54	33	11	0	55	1.35
11920952--11920984	10	3.3	10	91	8	50	51	3	0	45	1.16
11920957--11920989	10	3.3	10	91	8	50	39	6	0	54	1.25
11921014--11921068	29	1.9	29	88	3	85	34	3	0	61	1.13
11921000--11921066	20	3.5	20	68	13	59	43	2	0	53	1.16
11929997--11930065	34	2.0	34	100	0	138	23	31	11	33	1.90
11930680--11930729	24	2.1	24	84	0	64	50	6	4	40	1.46
11932565--11932720	42	3.7	42	80	2	170	42	16	23	17	1.89
11932558--11932715	84	1.9	84	85	2	219	42	15	23	18	1.89
11945295--11945335	20	2.0	22	85	9	59	34	0	9	56	1.32
11948240--11948324	42	2.0	42	97	0	161	34	21	15	29	1.94
11954945--11955150	90	2.3	89	81	4	252	37	22	8	31	1.84
11955149--11955293	44	3.2	44	74	9	125	57	1	3	37	1.24
11955244--11955314	36	1.9	37	82	2	90	59	2	2	35	1.27
11955485--11955524	21	2.0	21	85	5	55	37	7	0	55	1.29
11955576--11955631	21	2.7	21	70	10	60	28	0	3	67	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11955567--11955637	21	3.3	22	71	16	58	30	1	2	64	1.16
11957551--11957602	24	2.2	24	89	0	77	36	3	9	50	1.54
11961622--11961697	38	2.0	38	97	0	143	40	13	15	30	1.86
11964187--11964286	3	33.7	3	86	6	141	30	1	2	67	1.09
11964486--11964554	26	2.8	24	75	14	68	36	14	1	47	1.53
11964708--11964793	43	2.0	43	100	0	172	23	9	2	65	1.34
11969194--11969284	47	1.9	47	90	0	146	47	16	24	12	1.80
11970500--11970649	50	3.0	50	71	3	158	28	20	24	26	1.99
11971710--11971769	3	19.7	3	74	16	52	61	3	3	31	1.28
11973037--11973091	3	18.7	3	74	10	51	27	1	3	67	1.17
11973287--11973355	26	2.8	24	75	14	68	36	14	1	47	1.53
11974615--11974658	19	2.3	19	88	4	61	29	4	0	65	1.12
11974617--11974692	9	9.1	8	70	23	50	35	2	0	61	1.10
11979332--11979379	25	1.9	25	100	0	96	29	16	14	39	1.88
11985368--11985437	26	2.7	26	80	8	70	44	1	1	52	1.18
11995110--11995149	21	2.0	20	90	5	62	65	5	0	30	1.14
11996677--11996930	125	2.0	125	92	0	420	36	12	18	32	1.89
12004597--12004681	9	9.4	9	87	5	118	24	10	23	41	1.86
12009783--12009820	6	6.3	6	100	0	76	34	15	0	50	1.45
12011481--12011843	200	1.8	199	85	4	507	37	17	22	22	1.94
12011737--12011941	48	4.2	49	82	4	245	33	17	25	23	1.96
12011737--12011941	98	2.1	97	84	4	261	33	17	25	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12013800--12013849	19	2.6	19	84	9	57	48	16	8	28	1.74
12013812--12013849	19	2.0	20	89	5	60	44	15	7	31	1.75
12015514--12015540	13	2.1	13	100	0	54	29	7	22	40	1.81
12016970--12016995	11	2.4	11	100	0	52	46	0	11	42	1.40
12018219--12018267	20	2.5	20	76	6	55	55	0	0	44	0.99
12023351--12023396	18	2.5	18	96	3	83	17	21	15	45	1.85
12040140--12040266	46	2.8	46	86	4	193	31	24	7	36	1.84
12061170--12061204	17	2.0	17	88	5	52	54	14	2	28	1.54
12061762--12061874	42	2.7	42	80	4	120	30	30	17	22	1.97
12061762--12061918	43	3.7	42	77	7	138	31	28	17	22	1.97
12066244--12066287	23	2.0	23	86	4	63	56	0	4	38	1.20
12067032--12067073	22	1.9	22	85	0	57	40	2	16	40	1.62
12070874--12070999	28	4.5	28	86	2	164	31	11	24	31	1.91
12071710--12071871	23	7.0	23	76	11	125	28	13	17	40	1.88
12071696--12071924	46	4.9	47	78	2	246	30	13	17	38	1.88
12071696--12071924	93	2.5	93	94	0	395	30	13	17	38	1.88
12071696--12071906	23	9.1	23	71	15	103	30	14	16	38	1.89
12072078--12072104	2	13.5	2	100	0	54	51	0	0	48	1.00
12073242--12073349	25	4.6	25	72	16	97	25	25	6	43	1.78
12073291--12073325	18	1.9	18	94	0	61	28	25	5	40	1.78
12073267--12073349	43	1.9	43	92	0	139	25	24	6	44	1.76
12081378--12081423	17	2.7	18	78	18	53	50	4	0	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12086842--12086927	30	2.8	32	77	7	97	53	0	1	45	1.07
12086855--12086900	22	2.1	22	84	8	58	56	0	2	41	1.11
12087436--12087924	117	4.2	116	87	7	676	41	13	15	28	1.86
12092181--12092217	18	2.0	19	89	5	58	35	2	0	62	1.10
12092793--12092934	43	3.3	40	74	14	117	27	30	19	23	1.98
12092814--12092957	43	3.4	42	78	7	146	31	28	16	22	1.96
12097694--12098074	9	45.6	9	66	18	198	32	2	19	45	1.63
12097716--12098072	16	21.9	16	67	16	121	32	1	19	45	1.61
12097774--12097978	25	8.1	25	77	7	118	32	1	19	46	1.61
12097757--12097977	118	1.9	118	93	0	379	32	1	19	46	1.61

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