genome.fa.s7.2.7.7.80.10.50.1000.99.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  99  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)
30035400--30035466	18	3.7	18	78	4	73	34	11	23	29	1.91
30039477--30039502	12	2.2	12	100	0	52	23	7	23	46	1.78
30045669--30045722	27	2.0	28	85	3	74	46	1	5	46	1.37
30050786--30050906	45	2.7	45	85	0	152	41	13	22	23	1.88
30051067--30051152	27	3.2	27	84	0	118	34	18	27	18	1.95
30052607--30052632	2	13.0	2	100	0	52	0	50	0	50	1.00
30058184--30058224	22	1.9	21	90	5	64	51	2	7	39	1.43
30061514--30061762	50	4.8	50	86	3	318	26	22	29	20	1.99
30064646--30064706	32	1.9	31	87	9	88	31	0	3	65	1.09
30064646--30064696	18	3.1	17	81	18	63	33	0	3	62	1.13
30076163--30076235	36	2.1	35	86	2	101	24	15	17	42	1.88
30081452--30081579	58	2.2	58	88	0	184	27	10	26	35	1.89
30096145--30096202	29	2.0	29	93	0	98	25	1	25	46	1.62
30098190--30098254	21	3.0	21	88	2	94	30	15	27	26	1.96
30103780--30103861	41	2.0	43	87	4	123	53	4	19	21	1.63
30115231--30115279	19	2.5	19	80	9	55	63	6	4	26	1.36
30115296--30115362	35	1.9	34	82	11	82	74	1	2	20	1.03
30117881--30117937	13	4.7	12	77	10	62	35	7	3	54	1.45
30119225--30119277	18	3.0	17	77	5	61	47	0	0	52	1.00
30119229--30119344	17	6.9	17	67	21	57	43	3	0	52	1.18
30122382--30122428	23	2.0	23	91	0	76	48	10	0	40	1.38
30123011--30123042	12	2.6	12	95	5	55	3	0	6	90	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30127897--30127966	23	3.0	23	87	0	86	45	12	2	38	1.57
30127915--30127973	23	2.6	23	86	0	82	52	11	0	35	1.38
30130897--30130921	2	12.5	2	100	0	50	48	0	0	52	1.00
30134105--30134143	12	3.2	12	85	0	51	20	23	5	51	1.67
30134396--30134584	50	3.7	50	78	6	182	25	26	20	27	1.99
30136244--30136283	9	4.4	9	84	12	55	17	2	0	80	0.83
30139351--30139390	4	10.8	4	79	15	50	0	20	0	80	0.72
30147747--30147838	36	2.5	37	80	5	116	26	28	20	25	1.99
30154808--30154906	29	3.3	29	65	13	74	30	17	26	26	1.97
30154799--30155062	61	4.3	61	80	3	282	36	14	23	25	1.93
30154897--30154998	32	3.3	32	68	13	86	32	13	25	28	1.94
30154951--30155095	32	4.6	32	70	7	100	34	14	24	26	1.94
30154951--30155153	93	2.2	93	84	0	262	34	13	23	28	1.93
30166905--30166938	16	2.1	16	100	0	68	29	5	32	32	1.81
30167331--30167440	39	2.8	39	88	0	157	45	12	11	30	1.78
30170707--30170751	19	2.4	19	100	0	90	11	6	31	51	1.63
30171020--30171168	76	2.0	76	97	1	282	41	12	8	37	1.73
30187642--30187666	2	12.5	2	100	0	50	48	0	0	52	1.00
30194744--30194780	11	3.6	11	79	20	53	59	0	0	40	0.97
30205965--30206023	28	2.1	29	93	3	102	76	10	5	8	1.15
30205964--30206054	26	3.4	26	76	13	94	74	8	4	12	1.19
30206009--30206052	20	2.2	20	91	0	70	72	6	2	18	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30205975--30206023	6	8.5	6	80	17	50	73	12	4	10	1.22
30206936--30207028	44	2.1	44	82	4	107	32	21	20	25	1.98
30206952--30207247	128	2.3	129	85	4	400	30	20	24	24	1.99
30207235--30207739	44	11.6	44	70	13	280	30	20	21	28	1.98
30207280--30207739	85	5.3	84	70	15	335	30	20	21	28	1.98
30207222--30207769	175	3.1	175	93	0	927	30	19	20	28	1.97
30208057--30208094	14	2.7	14	95	0	67	21	36	15	26	1.93
30209314--30209360	3	15.7	3	100	0	94	31	0	0	68	0.90
30209505--30209529	13	1.9	13	100	0	50	24	0	4	72	1.02
30213863--30213982	44	2.7	44	88	0	177	29	20	20	30	1.98
30214310--30214757	130	3.4	129	75	12	483	29	22	16	30	1.96
30214232--30214789	270	2.1	270	94	0	974	30	22	16	29	1.96
30214914--30215051	50	2.7	51	90	1	206	26	24	18	29	1.98
30214925--30215196	51	5.4	51	79	4	262	27	24	18	29	1.98
30214968--30215196	102	2.3	101	80	5	291	28	23	18	29	1.98
30215536--30215587	24	2.2	24	92	0	86	30	21	9	38	1.85
30230305--30230340	14	2.6	14	90	0	54	63	0	0	36	0.94
30239015--30239522	151	3.4	149	86	4	698	28	15	21	33	1.95
30239015--30239522	76	6.7	76	87	1	691	28	15	21	33	1.95
30239712--30239797	29	3.0	29	86	5	111	39	23	1	36	1.62
30240714--30240785	29	2.5	30	84	10	107	31	26	4	37	1.75
30241872--30242179	76	4.0	76	78	4	273	27	16	19	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30241872--30242179	154	2.0	152	79	9	333	27	16	19	36	1.93
30242334--30242461	30	4.4	29	87	2	150	34	23	1	40	1.64
30242968--30243033	15	4.5	15	72	16	57	72	1	25	0	0.93
30242957--30243044	26	3.4	26	78	12	83	76	1	21	1	0.92
30242970--30243038	23	3.1	23	84	12	90	75	1	23	0	0.89
30242980--30243022	19	2.2	20	91	4	70	74	0	25	0	0.82
30242960--30243038	11	6.6	12	69	22	51	75	1	22	0	0.87
30252184--30254153	75	26.2	76	86	3	2587	28	16	20	33	1.95
30252184--30254125	302	6.5	301	86	3	2563	28	16	20	33	1.95
30255818--30255854	2	18.5	2	100	0	74	51	0	0	48	1.00
30259265--30259401	30	4.6	30	83	3	152	40	23	1	35	1.64
30259261--30259401	59	2.4	59	78	9	151	39	24	1	35	1.64
30259764--30259817	28	1.9	27	85	14	74	59	0	40	0	0.98
30259893--30259965	4	19.5	4	75	13	75	75	0	24	0	0.81
30259899--30259952	15	3.7	15	95	2	92	72	0	27	0	0.85
30259900--30259965	11	6.0	11	79	11	64	74	0	25	0	0.82
30259896--30259963	7	9.9	7	69	15	52	76	0	23	0	0.79
30259925--30259982	10	6.1	9	78	11	53	77	1	20	0	0.86
30259939--30259990	18	2.8	18	76	2	59	80	1	15	1	0.88
30262975--30263040	33	2.0	33	93	0	114	24	21	6	48	1.72
30271380--30271414	16	2.2	16	100	0	70	57	5	5	31	1.46
30272501--30272531	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30293740--30293783	22	2.0	21	83	12	54	40	0	0	59	0.98
30297027--30297273	50	4.8	50	78	8	214	27	20	28	23	1.99
30300259--30300288	5	6.0	5	92	0	51	16	0	3	80	0.85
30302320--30302366	24	1.9	24	86	4	67	36	0	38	25	1.56
30302777--30302926	27	5.6	27	86	3	214	42	22	17	18	1.89
30306277--30306324	21	2.3	20	82	3	51	58	0	25	16	1.38
30307176--30307234	10	5.8	10	82	4	55	59	1	3	35	1.24
30308296--30308344	20	2.4	21	80	10	57	40	2	4	53	1.32
30308444--30308503	10	6.4	9	72	12	50	33	3	1	61	1.22
30308444--30308489	10	4.7	10	83	2	58	34	4	0	60	1.16
30308444--30308489	20	2.4	19	85	3	65	34	4	0	60	1.16
30308829--30308867	16	2.4	16	86	4	51	56	0	5	38	1.22
30311754--30311792	19	2.0	20	90	5	62	53	2	0	43	1.14
30318040--30318145	43	2.5	44	79	11	130	31	30	16	21	1.96
30319301--30319328	11	2.5	11	100	0	56	67	0	0	32	0.91
30334033--30334277	127	1.9	127	98	0	472	41	2	4	51	1.35
30334259--30334311	18	3.0	17	91	5	79	39	3	1	54	1.29
30337876--30338011	68	2.0	68	98	0	263	33	13	21	32	1.92
30338503--30338556	19	3.1	17	82	17	67	31	1	0	66	1.02
30341971--30342067	21	4.6	21	80	0	104	18	19	15	46	1.84
30344309--30344354	20	2.3	19	85	11	56	69	8	0	21	1.15
30344335--30344378	16	2.9	15	89	3	61	77	4	0	18	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30350105--30350138	9	3.7	9	84	7	50	67	0	5	26	1.13
30354815--30354959	65	2.2	65	91	2	229	42	28	11	17	1.84
30359623--30359675	27	2.0	27	96	0	97	41	13	26	18	1.87
30360714--30360813	27	3.7	27	86	0	128	35	14	20	31	1.92
30367141--30367196	24	2.3	24	93	0	94	12	37	10	39	1.78
30369524--30369586	29	2.2	29	97	0	117	36	11	15	36	1.84
30376218--30376276	22	2.6	22	76	10	57	28	0	5	66	1.13
30393193--30393313	50	2.4	50	84	0	143	23	24	23	28	1.99
30414128--30414163	18	1.9	19	88	5	56	47	0	13	38	1.44
30438226--30438414	45	4.2	45	92	0	270	27	20	15	36	1.93

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