genome.fa.s7.2.7.7.80.10.50.1000.140.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  140  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)
42395687--42395780	12	7.7	12	75	17	68	22	6	2	69	1.22
42397736--42397783	24	2.0	24	84	12	62	18	6	6	68	1.32
42398412--42398447	17	2.1	17	100	0	72	27	16	16	38	1.90
42399000--42399075	36	2.1	36	100	0	152	32	14	17	35	1.90
42399016--42399084	20	3.7	20	73	15	83	31	13	17	37	1.88
42401276--42401392	55	2.1	55	92	1	191	44	5	22	27	1.76
42409216--42409245	15	2.1	14	93	6	51	76	0	23	0	0.78
42415441--42415479	16	2.4	16	100	0	78	20	25	5	48	1.70
42424832--42424884	8	7.0	8	74	20	51	26	16	0	56	1.41
42434913--42434971	29	2.2	26	84	9	73	18	28	22	30	1.97
42435501--42435544	19	2.3	19	88	7	63	36	22	4	36	1.75
42437126--42437175	22	2.3	22	78	0	55	30	0	2	68	1.01
42439734--42439925	27	7.2	27	86	4	246	44	19	15	21	1.87
42439734--42439925	80	2.4	80	88	3	271	44	19	15	21	1.87
42439734--42439925	53	3.6	54	84	6	248	44	19	15	21	1.87
42439734--42439953	80	2.8	80	84	4	212	43	19	15	21	1.87
42440286--42440316	16	1.9	16	93	0	53	58	12	16	12	1.64
42440263--42440311	24	2.1	24	92	3	82	57	14	12	16	1.66
42447184--42447223	16	2.5	16	91	0	71	37	37	5	20	1.74
42447698--42447745	3	16.0	3	100	0	96	33	0	0	66	0.92
42448230--42448280	9	5.8	9	88	4	77	23	9	33	33	1.88
42448230--42448277	17	2.8	17	90	3	69	22	10	35	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42448260--42448330	35	2.0	35	97	0	133	39	11	18	30	1.86
42451641--42451707	22	3.0	21	76	8	62	43	26	1	28	1.64
42457682--42457729	18	2.6	18	86	3	60	33	4	8	54	1.50
42457696--42457734	18	2.2	18	95	0	69	28	2	10	58	1.44
42458621--42458653	12	2.8	12	95	4	59	30	6	0	63	1.18
42459200--42459247	17	2.7	18	83	9	62	64	2	6	27	1.28
42461699--42461886	50	3.8	49	80	5	202	27	21	27	23	1.99
42465325--42465368	19	2.2	20	80	4	54	52	2	15	29	1.55
42467941--42468008	25	2.8	24	76	10	57	45	1	5	47	1.36
42468947--42468980	8	4.1	8	92	7	59	26	0	0	73	0.83
42468947--42468980	17	2.1	16	94	5	59	26	0	0	73	0.83
42470654--42470776	64	1.9	64	86	3	176	24	20	20	34	1.96
42475080--42475129	18	2.7	18	93	3	82	18	28	8	46	1.77
42476539--42476595	28	2.0	28	96	0	105	22	12	19	45	1.83
42477068--42477108	20	2.0	20	85	0	55	43	2	0	53	1.13
42479136--42479206	35	2.0	37	88	5	110	28	2	15	53	1.56
42480515--42480581	34	1.9	35	84	3	91	47	11	7	32	1.68
42481978--42482013	3	12.0	3	93	0	63	30	0	0	69	0.89
42490563--42490624	30	2.1	30	90	0	97	25	4	12	56	1.56
42502530--42502698	63	2.7	63	81	5	191	25	26	20	28	1.99
42503694--42503747	10	5.7	9	80	10	63	62	0	0	37	0.95
42503692--42503746	19	2.9	18	81	7	65	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)
42503696--42503753	29	2.0	29	83	9	75	60	0	1	37	1.07
42509444--42509469	13	2.0	13	100	0	52	38	15	7	38	1.76
42516535--42516560	13	2.0	13	100	0	52	38	15	7	38	1.76
42516878--42516931	23	2.3	23	100	0	108	27	51	3	16	1.61
42520933--42520988	24	2.3	23	80	14	60	62	0	1	35	1.06
42520970--42521005	18	2.0	18	88	0	54	61	0	0	38	0.96
42521273--42521331	9	6.6	9	78	14	52	27	3	1	67	1.16
42521273--42521343	28	2.6	27	82	6	72	26	4	1	67	1.17
42521430--42521656	91	2.6	88	81	7	280	33	8	20	37	1.84
42533874--42533936	19	3.4	19	89	4	67	36	9	14	39	1.78
42533885--42533961	19	3.8	19	83	11	100	36	6	16	40	1.75
42533885--42533961	42	1.9	40	84	10	104	36	6	16	40	1.75
42534381--42534414	2	17.5	2	93	6	61	50	0	0	50	1.00
42534442--42534476	17	2.1	17	88	0	52	37	8	0	54	1.31
42534640--42534697	31	1.9	31	89	3	91	34	3	5	56	1.38
42536451--42536475	8	3.1	8	100	0	50	64	0	0	36	0.94
42538577--42538602	9	2.9	9	100	0	52	53	0	23	23	1.46
42541185--42541218	2	17.0	2	100	0	68	50	0	50	0	1.00
42547565--42547631	35	1.9	35	93	0	116	34	11	14	38	1.84
42562715--42563157	218	2.0	219	86	3	608	30	12	19	37	1.89
42564950--42564975	2	13.0	2	100	0	52	50	0	0	50	1.00
42570997--42571029	13	2.4	14	90	5	50	33	3	18	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42573248--42573305	3	19.3	3	85	7	82	67	1	1	29	1.11
42574453--42574714	44	6.0	44	90	1	364	26	25	19	28	1.98
42574481--42574744	132	2.0	132	79	3	282	26	26	19	28	1.99
42574799--42574992	88	2.2	88	81	2	210	25	24	21	28	1.99
42578672--42578705	11	3.0	11	91	4	50	76	0	23	0	0.79
42583161--42583214	25	2.2	25	100	0	108	35	18	16	29	1.93
42584337--42584438	46	2.2	45	82	1	114	47	17	7	27	1.75
42587444--42587948	84	6.0	84	92	0	803	17	19	28	34	1.95
42587977--42588142	84	2.0	84	93	2	289	18	19	26	36	1.94
42587780--42588308	197	2.7	198	91	0	853	21	19	25	32	1.97
42590674--42590720	21	2.2	21	84	0	58	23	0	40	36	1.55
42590687--42590726	21	1.9	21	84	0	53	25	2	37	35	1.69
42595747--42595817	21	3.4	21	84	7	99	33	19	43	2	1.66
42599388--42599456	33	2.1	34	83	8	88	57	0	1	40	1.07
42599376--42599456	35	2.4	35	81	8	96	55	0	2	41	1.13
42600205--42600254	17	2.9	17	77	11	57	54	6	4	36	1.44
42600477--42600523	22	2.1	22	92	7	78	25	10	8	55	1.62
42602719--42602744	11	2.4	11	100	0	52	69	0	0	30	0.89
42608359--42608411	25	2.1	26	82	10	65	37	13	9	39	1.77
42614092--42614188	3	30.3	3	80	13	81	59	3	5	31	1.35
42616109--42616400	132	2.2	132	92	0	476	25	25	18	30	1.98
42616396--42616829	89	4.9	89	84	2	541	23	23	24	28	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42616663--42616799	44	3.1	43	68	19	120	17	24	29	28	1.97
42621177--42621305	29	4.4	29	83	4	143	34	24	3	37	1.72
42621177--42621335	29	5.4	29	75	11	78	33	23	3	39	1.73
42621898--42621958	11	5.9	10	83	12	79	80	0	19	0	0.72
42621886--42621958	20	3.7	20	87	3	94	78	0	21	0	0.76
42622247--42622275	14	2.0	15	93	6	51	82	0	17	0	0.66
42622567--42622603	19	1.9	20	88	5	58	35	13	10	40	1.80
42622767--42623005	18	13.3	18	71	11	177	29	12	11	46	1.77
42632936--42633035	50	2.0	50	94	0	173	35	16	27	22	1.94
42634132--42634221	18	4.9	17	81	12	99	86	7	3	2	0.75
42634134--42634230	26	3.8	25	81	9	88	85	7	5	2	0.80
42634133--42634230	37	2.7	35	85	6	115	85	7	5	2	0.80
42634132--42634221	1	90.0	1	75	0	72	86	7	3	2	0.75
42635246--42635747	75	6.8	73	86	7	674	26	16	21	35	1.94
42635246--42635747	148	3.4	148	91	3	751	26	16	21	35	1.94
42636086--42636195	29	3.8	28	77	10	105	35	22	2	39	1.69
42636170--42636225	29	1.9	29	85	7	78	30	16	5	48	1.68
42636772--42636833	11	5.9	11	75	17	69	79	0	20	0	0.74
42636779--42636833	7	8.0	7	79	4	58	78	0	21	0	0.76
42636917--42636966	22	2.2	23	89	3	75	60	22	14	4	1.51
42637591--42637882	18	16.3	17	71	17	157	32	12	11	43	1.79
42637799--42637881	17	4.7	17	73	18	80	24	12	14	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42639733--42639778	18	2.3	21	75	21	62	56	0	15	28	1.39
42639740--42639775	18	2.0	18	94	0	63	58	0	13	27	1.36
42639744--42639790	18	2.6	17	83	9	58	61	2	8	27	1.36
42649715--42649843	29	4.8	28	69	20	87	34	0	3	62	1.17
42649752--42649849	48	2.1	45	83	9	117	31	1	4	63	1.20
42650196--42650238	18	2.3	18	84	4	59	60	2	0	37	1.10
42650203--42650281	19	3.8	19	73	20	61	53	3	0	43	1.19
42650343--42650419	35	2.2	35	97	2	145	45	5	5	44	1.48
42650640--42650892	126	2.0	123	88	5	375	30	14	12	42	1.83
42654852--42654902	24	2.2	24	89	3	77	58	7	3	29	1.44

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