genome.fa.s7.2.7.7.80.10.50.1000.160.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  160  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)
48004373--48004401	13	2.2	13	100	0	58	37	6	6	48	1.57
48017282--48017344	7	8.9	7	86	10	92	42	41	0	15	1.47
48024708--48024737	5	6.0	5	92	0	51	0	0	56	43	0.99
48035079--48035169	39	2.3	40	81	7	114	51	7	2	38	1.43
48035856--48035896	18	2.2	20	86	8	59	56	0	0	43	0.99
48037805--48037943	46	3.0	46	93	0	233	35	10	25	28	1.88
48046737--48046808	3	25.0	3	78	18	66	70	1	1	26	1.03
48046741--48046808	14	4.7	14	79	16	77	70	1	1	26	1.04
48047658--48047716	21	2.9	21	84	2	66	71	8	10	10	1.32
48047871--48048310	89	5.0	89	86	3	595	27	23	24	24	2.00
48047874--48048336	173	2.6	175	88	3	653	27	22	24	25	2.00
48048492--48048851	51	7.4	50	73	12	291	29	19	24	26	1.98
48048531--48048857	46	6.8	46	74	10	251	29	20	23	25	1.99
48048492--48048857	97	3.8	97	87	0	491	29	20	24	26	1.99
48051328--48051416	23	4.0	22	73	17	78	17	7	22	51	1.71
48052880--48052905	6	4.3	6	100	0	52	50	0	0	50	1.00
48056218--48056545	47	7.2	47	69	17	242	45	2	3	48	1.35
48056201--48056666	91	5.0	95	91	3	581	45	3	3	47	1.35
48056274--48056608	47	7.3	45	67	20	214	45	2	3	47	1.35
48056201--48056589	91	4.3	91	97	0	706	46	3	3	46	1.37
48056605--48056901	120	2.5	121	92	1	499	43	2	5	49	1.37
48056851--48056892	15	2.9	15	82	10	52	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48057114--48057162	16	3.1	16	96	0	89	22	36	4	36	1.73
48058306--48058387	22	3.7	23	77	11	89	39	6	1	53	1.34
48058307--48058406	45	2.2	45	78	3	103	42	7	1	50	1.36
48061453--48061489	19	1.9	19	100	0	74	32	10	13	43	1.79
48061457--48061499	19	2.3	19	83	0	50	27	18	9	44	1.80
48068356--48068390	18	1.9	18	94	0	61	57	8	2	31	1.44
48069901--48069948	24	2.0	24	83	0	60	22	20	12	43	1.86
48074499--48074677	61	2.9	62	76	10	143	40	15	3	39	1.66
48075095--48075223	61	2.1	62	82	7	156	40	3	14	41	1.64
48080204--48080260	28	2.0	28	100	0	114	40	28	21	10	1.86
48080330--48080420	40	2.3	40	86	3	130	45	8	20	25	1.80
48081025--48081082	19	2.7	22	84	10	68	36	8	17	37	1.80
48092481--48092523	24	1.9	22	86	13	61	37	4	2	55	1.33
48093952--48094012	30	2.0	30	96	0	113	42	4	13	39	1.65
48096203--48096327	44	2.9	43	79	13	139	30	28	17	23	1.97
48096830--48096889	32	2.0	32	84	12	83	33	15	3	48	1.61
48100017--48100043	3	9.0	3	100	0	54	0	33	0	66	0.92
48104905--48104938	17	1.9	18	88	5	52	55	0	5	38	1.24
48105863--48105915	25	2.1	25	85	0	70	69	7	3	18	1.28
48109422--48109473	23	2.4	22	84	9	70	17	23	46	13	1.83
48113330--48113392	3	21.0	3	100	0	126	33	0	0	66	0.92
48123538--48123623	42	2.0	42	84	4	111	43	15	23	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48124905--48125037	45	3.0	44	65	14	110	25	27	24	22	2.00
48124865--48125037	89	1.9	89	94	0	301	26	24	24	24	2.00
48125029--48125129	44	2.3	44	81	8	116	30	20	22	25	1.98
48125057--48125531	44	10.6	44	70	13	218	30	19	21	28	1.97
48125419--48125527	43	2.5	44	80	4	114	28	18	21	32	1.96
48125463--48125553	44	2.1	44	82	0	110	28	19	21	29	1.98
48125893--48125945	27	2.0	27	100	0	106	18	18	32	30	1.96
48127324--48127362	3	13.0	3	83	0	51	30	5	2	61	1.31
48127324--48127371	15	3.3	15	88	2	71	29	6	2	62	1.31
48133547--48133580	7	4.9	7	100	0	68	14	55	0	29	1.40
48135712--48135792	25	3.2	24	75	19	85	22	27	18	32	1.97
48150585--48150631	17	2.7	17	81	12	60	68	2	4	25	1.19
48150578--48150633	26	2.1	27	78	15	64	66	1	3	28	1.19
48151920--48151977	27	2.1	26	84	9	71	31	1	3	63	1.21
48153871--48153999	40	3.2	40	81	5	136	48	12	13	26	1.77
48159971--48160008	9	4.2	9	80	12	51	47	10	10	31	1.72
48160095--48160154	19	3.2	19	80	2	68	56	3	1	38	1.26
48166863--48167059	101	2.0	101	87	0	286	23	27	15	33	1.95
48169307--48169410	50	2.1	50	92	0	172	29	30	16	23	1.96
48171469--48171515	14	3.8	13	78	18	55	42	0	0	57	0.98
48172009--48172056	22	2.2	22	82	14	55	62	8	0	29	1.24
48179863--48179921	17	3.4	17	84	15	84	64	1	0	33	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48179863--48179938	18	4.3	18	81	16	81	63	1	0	35	1.03
48179863--48179940	17	4.4	18	83	13	83	62	1	0	35	1.03
48182362--48182441	40	2.0	40	100	0	160	35	25	15	25	1.94
48188153--48188337	46	4.0	46	95	0	325	29	26	8	35	1.86
48194271--48194455	46	4.0	46	95	0	325	28	26	8	36	1.86
48200062--48200122	31	2.0	31	90	6	97	40	1	19	37	1.62
48200070--48200139	31	2.3	30	80	9	79	41	0	17	41	1.49
48202544--48202601	30	1.9	30	96	0	107	20	13	18	46	1.83
48204416--48204518	43	2.5	41	93	6	188	26	13	17	42	1.86
48220422--48220487	25	2.5	29	74	18	72	48	0	31	19	1.49
48222021--48222137	40	3.0	40	84	2	148	36	20	21	21	1.95
48222023--48222157	40	3.4	39	82	5	112	37	21	21	19	1.94
48223047--48223078	15	2.1	16	94	5	57	21	0	31	46	1.52
48223045--48223376	125	2.7	123	78	11	312	27	1	28	42	1.66
48223137--48223208	33	2.2	33	87	0	99	18	4	43	34	1.69
48228897--48228987	43	2.1	43	86	6	123	35	10	9	43	1.73
48229285--48229640	43	8.3	43	86	2	457	19	18	32	30	1.95
48229285--48229648	171	2.1	171	86	3	498	20	17	31	30	1.96
48232865--48232986	63	1.9	64	81	1	147	36	7	4	52	1.49
48235845--48235884	3	13.3	3	100	0	80	67	0	0	32	0.91
48237556--48238164	44	13.6	44	68	8	273	26	23	19	30	1.98
48237669--48237845	89	2.0	89	86	2	248	25	23	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48237692--48237996	133	2.3	133	81	1	304	27	23	18	30	1.97
48237564--48238088	222	2.3	222	87	2	710	26	24	18	30	1.98
48237707--48237907	89	2.3	89	83	3	244	25	24	18	31	1.98
48237742--48238029	133	2.2	133	83	1	371	27	23	18	30	1.98
48237850--48238165	89	3.5	92	88	2	437	25	24	18	31	1.98
48246173--48246212	20	2.0	20	90	0	62	35	15	20	30	1.93
48260501--48260553	24	2.3	25	75	15	60	52	7	5	33	1.53
48261511--48261581	31	2.2	32	82	9	92	47	18	18	15	1.82
48262705--48262743	6	6.3	6	82	5	51	38	0	0	61	0.96
48271238--48271304	26	2.6	24	81	6	71	40	20	20	17	1.92
48271238--48271311	25	2.9	26	82	6	80	39	21	20	18	1.93
48272025--48272086	25	2.4	26	84	7	74	19	24	19	37	1.94
48275123--48275155	6	5.7	6	92	7	59	84	0	0	15	0.61
48287432--48287473	18	2.3	18	100	0	84	35	19	21	23	1.96
48291254--48291306	24	2.2	24	86	6	72	49	7	5	37	1.55
48291576--48291615	21	1.9	21	84	0	53	45	22	0	32	1.53
48292322--48292370	13	3.8	13	91	5	64	32	0	10	57	1.32
48299913--48300040	58	2.2	58	87	2	177	51	6	0	42	1.27
48301045--48301085	21	2.0	21	100	0	82	68	9	9	12	1.40
48319412--48319448	17	2.1	18	90	5	58	43	5	5	45	1.49
48323955--48323980	13	2.0	13	100	0	52	84	0	15	0	0.62
48324795--48324832	7	5.6	7	84	15	53	71	0	13	15	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48324782--48324823	10	3.4	13	78	21	54	76	0	9	14	1.02
48326088--48326611	100	5.3	99	83	4	660	34	21	20	23	1.97
48326088--48326611	50	10.6	49	71	7	340	34	21	20	23	1.97
48327151--48327176	12	2.2	12	100	0	52	0	26	0	73	0.84
48328266--48328299	17	2.1	16	88	5	50	44	5	8	41	1.60
48332071--48332103	10	3.1	11	86	8	50	51	0	0	48	1.00
48332513--48332555	16	2.8	16	83	16	56	74	2	9	13	1.16
48332678--48332756	29	2.7	28	80	11	88	46	13	12	26	1.79
48332706--48332767	29	2.1	29	81	0	70	56	11	9	22	1.63
48333422--48333642	43	5.2	43	78	4	189	21	15	22	40	1.90

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