genome.fa.s6.2.7.7.80.10.50.1000.22.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  22  of  168  ( 20060 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)
5700044--5700209	29	5.6	29	74	5	120	37	6	20	36	1.77
5700407--5701072	78	8.7	78	85	5	839	37	20	16	25	1.93
5700407--5701072	228	2.9	228	91	2	1052	37	20	16	25	1.93
5702218--5702252	14	2.5	14	95	0	61	20	34	11	34	1.88
5712863--5712936	25	2.9	25	78	7	78	55	9	8	27	1.60
5713361--5713415	11	5.4	10	76	18	51	0	21	0	78	0.76
5713352--5713416	31	2.2	31	86	10	91	1	21	0	76	0.86
5713371--5713422	24	2.2	24	86	6	70	0	21	0	78	0.74
5713369--5713422	11	4.7	11	77	6	54	0	20	0	79	0.73
5713580--5713624	6	7.0	6	82	12	54	0	22	0	77	0.76
5713705--5713754	20	2.5	20	81	12	57	0	32	0	68	0.90
5713709--5713755	21	2.2	22	84	3	60	0	29	0	70	0.88
5714006--5714140	58	2.3	59	80	1	155	40	5	19	34	1.76
5714006--5714140	29	4.6	29	78	0	135	40	5	19	34	1.76
5714137--5714170	8	4.1	8	85	7	50	11	0	5	82	0.83
5715563--5715621	29	2.0	30	83	9	77	52	6	3	37	1.45
5716228--5716263	14	2.6	14	90	0	54	22	19	0	58	1.40
5719069--5719137	34	2.0	34	85	0	93	37	18	17	26	1.93
5726995--5727051	27	2.1	27	96	0	105	31	5	10	52	1.58
5742077--5742717	89	7.2	89	91	1	1007	27	23	17	31	1.97
5742839--5743171	44	7.5	44	73	6	303	27	22	18	31	1.97
5742823--5743161	89	3.8	89	93	0	561	27	23	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5744037--5744061	13	1.9	13	100	0	50	56	8	24	12	1.62
5745396--5745436	18	2.3	18	87	4	57	60	4	19	14	1.51
5747280--5747321	19	2.2	19	83	8	50	40	9	21	28	1.84
5747351--5747376	13	2.0	13	100	0	52	46	15	7	30	1.74
5751808--5752493	45	15.3	45	72	4	483	25	23	18	31	1.97
5751789--5752519	89	8.2	89	91	1	1086	26	23	18	31	1.98
5757637--5757688	18	2.7	20	79	11	63	34	0	3	61	1.14
5762150--5762318	18	9.4	18	77	12	134	39	10	11	38	1.76
5762150--5762324	37	4.8	36	76	8	160	40	10	11	38	1.75
5762169--5762337	55	3.1	53	78	9	171	39	10	11	38	1.77
5762267--5762326	17	3.1	21	79	20	85	41	11	11	35	1.78
5762988--5763035	17	2.8	17	77	0	60	6	16	16	60	1.55
5763117--5763191	7	11.1	7	69	17	52	1	28	0	70	0.95
5763113--5763188	11	6.9	11	72	19	61	1	26	0	72	0.93
5763710--5763844	30	4.6	29	68	15	73	40	5	21	32	1.75
5764155--5765207	76	13.7	74	86	5	1236	34	20	15	30	1.93
5764185--5765207	229	4.4	228	87	3	1381	34	19	15	30	1.93
5764189--5765078	381	2.3	382	91	1	1435	33	20	15	30	1.93
5766057--5766106	1	50.0	1	79	0	55	0	2	8	90	0.54
5766067--5766106	7	5.9	7	88	5	64	0	0	10	90	0.47
5766066--5766106	21	2.0	21	95	0	73	0	0	9	90	0.46
5771259--5771295	4	9.2	4	93	0	65	48	2	24	24	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5773402--5773616	18	12.1	17	71	20	113	42	11	11	34	1.77
5773402--5773616	35	6.1	35	75	13	142	42	11	11	34	1.77
5773455--5773641	53	3.5	52	72	14	148	43	10	10	35	1.74
5773453--5773641	36	5.3	36	78	11	162	43	10	10	34	1.74
5773521--5773642	37	3.3	36	82	10	124	45	10	10	33	1.74
5774314--5774361	17	3.0	15	77	14	51	10	12	12	64	1.50
5774442--5774502	7	8.1	7	75	12	50	1	24	0	73	0.92
5774447--5774502	11	4.9	11	77	18	53	1	25	0	73	0.93
5774462--5774494	14	2.4	14	94	0	57	0	24	0	75	0.80
5774617--5774652	13	2.7	13	91	4	54	5	16	2	75	1.12
5781144--5781291	72	2.1	72	96	0	269	35	13	23	27	1.93
5781280--5781587	144	2.1	144	96	1	564	30	18	24	26	1.97
5786888--5786954	32	2.1	32	100	0	134	40	25	2	31	1.71
5787096--5787205	41	2.7	41	89	0	175	24	29	18	28	1.98
5787098--5787260	41	4.0	41	83	3	132	28	27	19	25	1.98
5787096--5787246	82	1.8	82	80	5	180	26	28	18	26	1.98
5792366--5792413	19	2.5	20	83	12	64	16	14	12	56	1.68
5793209--5793237	15	1.9	15	100	0	58	44	6	34	13	1.71
5797158--5797325	42	4.0	42	88	1	237	25	20	19	34	1.96
5797158--5797325	85	2.0	84	88	1	246	25	20	19	34	1.96
5797386--5797419	14	2.4	14	95	0	59	58	20	8	11	1.59
5797643--5797713	21	3.4	21	84	0	88	4	47	16	30	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5803229--5803801	51	11.1	50	93	3	779	32	0	20	46	1.56
5803690--5803816	9	14.4	9	70	27	78	33	0	20	46	1.51
5803229--5803824	25	23.1	26	84	10	492	32	0	20	46	1.56
5803977--5804089	34	3.2	34	67	22	97	41	6	2	49	1.42
5803960--5804104	72	2.0	72	98	0	281	40	6	2	50	1.41
5804763--5804829	31	2.1	32	91	5	109	43	22	16	17	1.88
5805430--5805467	17	2.2	17	100	0	76	5	50	13	31	1.63
5806761--5806822	32	1.9	31	81	12	72	37	35	3	24	1.72
5806767--5806844	39	2.0	40	87	2	113	37	38	2	21	1.68
5807988--5808539	114	4.9	114	80	6	570	26	25	23	25	2.00
5808992--5809026	4	8.8	4	100	0	70	48	0	0	51	1.00
5810368--5810416	20	2.5	20	83	3	55	63	6	2	28	1.30
5810783--5810821	8	4.9	8	96	0	69	51	25	10	12	1.71
5817906--5818536	324	1.9	324	89	1	987	32	14	22	30	1.94
5839919--5839947	5	5.8	5	100	0	58	0	17	0	82	0.66
5847253--5847312	18	3.5	18	75	11	54	30	0	1	68	0.99
5850576--5850638	26	2.4	26	77	12	67	61	1	4	31	1.26
5850700--5850731	4	8.0	4	100	0	64	50	0	25	25	1.50
5850736--5850838	3	34.7	3	93	1	172	66	0	0	31	1.04
5851298--5851338	19	2.1	20	90	4	66	80	2	9	7	0.99
5856838--5857213	111	3.4	110	88	0	556	34	19	16	30	1.94
5857778--5857824	3	15.7	3	90	0	76	63	2	2	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5858750--5858795	24	2.0	23	84	12	60	4	17	19	58	1.55
5859427--5860794	129	10.6	129	89	2	2043	25	21	21	31	1.98
5859480--5860836	44	31.5	44	69	10	261	25	21	22	31	1.98
5860814--5861097	85	3.3	82	75	12	275	28	22	19	29	1.98
5860900--5861189	44	6.7	44	74	9	204	26	22	20	30	1.98
5860639--5861191	173	3.2	172	84	6	658	26	22	20	30	1.98
5862553--5862598	21	2.2	21	92	0	74	13	2	4	80	0.95
5865981--5866377	109	3.6	109	90	1	614	33	21	16	28	1.95
5865978--5866377	219	1.8	220	91	2	660	34	21	16	28	1.95
5866869--5866930	3	20.7	3	93	0	106	64	1	1	32	1.13
5867853--5867898	24	2.0	23	84	12	60	4	17	19	58	1.55
5871551--5871580	2	15.5	2	93	6	53	50	0	0	50	1.00
5874797--5875068	86	3.2	86	75	4	235	26	27	23	23	2.00
5874926--5875067	43	3.3	41	75	13	126	27	30	19	23	1.98
5874864--5875068	87	2.4	87	81	2	234	25	28	22	23	1.99
5875178--5875265	21	4.2	21	82	2	106	6	44	14	34	1.72
5875178--5875269	42	2.2	42	92	0	148	6	43	15	34	1.72
5875281--5875430	66	2.3	66	89	2	221	14	24	19	41	1.89
5880809--5881163	9	42.6	9	65	17	151	32	2	20	44	1.65
5880831--5880865	16	2.3	15	90	5	52	28	0	20	51	1.47
5880938--5881034	16	5.8	16	70	7	59	30	2	20	46	1.62
5880869--5881021	25	6.1	25	72	5	112	33	2	20	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5880887--5881131	118	2.1	115	88	2	355	33	2	20	44	1.64
5881006--5881207	25	8.1	25	73	7	133	34	2	18	44	1.63
5881005--5881207	74	2.7	75	91	0	327	34	2	18	44	1.63
5881378--5881420	16	2.7	16	92	0	68	30	0	18	51	1.47
5881479--5881763	27	11.1	27	75	17	225	47	4	7	40	1.54
5881506--5881911	175	2.3	175	99	0	794	46	5	8	40	1.57
5881708--5882032	148	2.2	147	98	0	551	44	6	8	40	1.59
5881425--5881807	202	1.9	202	90	3	596	46	5	8	40	1.57
5881856--5881911	27	2.1	27	100	0	112	48	3	7	41	1.48
5881883--5882106	121	1.9	121	91	1	369	44	7	8	39	1.62

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