genome.fa.s13.2.7.7.80.10.50.1000.51.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  51  of  199  ( 23770 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)
14931906--14932484	265	2.2	265	88	1	865	19	22	27	29	1.98
14933706--14933762	27	2.1	27	80	6	62	1	14	8	75	1.11
14939534--14939582	3	16.3	3	87	8	73	67	0	0	32	0.91
14939998--14940075	21	3.7	22	75	17	76	38	16	10	34	1.83
14939988--14940044	22	2.6	22	81	8	62	42	17	7	33	1.76
14943094--14943153	29	2.1	29	81	6	68	30	6	15	48	1.70
14949653--14949698	20	2.3	20	92	0	74	28	4	15	52	1.61
14952415--14952456	18	2.3	18	88	8	59	38	47	4	9	1.57
14954145--14954190	20	2.3	20	85	7	58	28	6	13	52	1.65
14957483--14957545	8	7.6	8	72	24	51	41	1	0	57	1.08
14957447--14957586	35	4.1	34	83	11	164	36	2	0	60	1.11
14957497--14957601	32	3.2	33	82	5	106	36	1	1	60	1.19
14960192--14960355	86	1.9	85	82	6	206	30	26	18	24	1.98
14960191--14960365	43	4.0	43	78	10	162	32	26	17	24	1.97
14961353--14961379	13	2.1	13	100	0	54	48	22	0	29	1.51
14967645--14967689	4	11.2	4	100	0	90	24	0	24	51	1.49
14975456--14975514	21	2.8	21	76	0	73	30	13	22	33	1.92
14978396--14978587	42	4.6	42	82	5	201	47	16	18	17	1.83
14978391--14978586	21	9.4	21	68	7	121	46	16	18	17	1.84
14978396--14978586	83	2.3	83	84	2	240	47	16	18	17	1.83
14980022--14980477	232	2.0	232	89	1	700	35	18	17	28	1.94
14986320--14986381	19	3.1	21	88	8	87	41	9	12	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14986366--14986411	23	2.1	23	88	8	69	39	4	13	43	1.63
14986601--14986645	23	2.0	23	81	0	54	22	0	15	62	1.33
14987323--14987352	3	10.0	3	100	0	60	33	0	0	66	0.92
15015671--15015703	16	2.1	16	94	0	57	36	6	33	24	1.80
15015935--15015969	18	2.0	17	88	5	52	54	0	0	45	0.99
15016053--15016089	16	2.2	17	86	13	51	54	0	2	43	1.14
15015915--15016315	120	3.4	119	90	3	626	49	4	2	44	1.34
15016172--15016208	16	2.2	17	86	13	51	54	0	2	43	1.14
15019986--15020029	23	2.0	22	82	13	54	31	20	4	43	1.72
15020103--15020189	37	2.3	37	83	13	108	32	21	1	44	1.60
15020259--15020351	45	2.1	44	89	2	141	30	23	19	26	1.98
15020346--15020538	51	3.9	48	79	8	181	28	27	19	24	1.99
15020353--15020540	100	1.9	101	84	4	245	29	28	19	22	1.98
15020964--15021032	35	2.0	35	100	0	138	39	14	11	34	1.82
15020964--15021021	20	3.2	20	64	31	56	37	13	12	36	1.82
15022779--15022829	17	2.7	19	79	17	61	25	15	17	41	1.89
15023580--15023623	19	2.5	19	85	10	58	65	9	2	22	1.32
15027437--15027471	18	2.0	17	88	5	52	45	0	0	54	0.99
15027701--15027770	16	4.4	16	96	0	113	25	35	2	35	1.71
15041966--15042006	13	3.4	13	77	19	52	48	12	0	39	1.41
15041966--15042017	23	2.3	23	89	0	77	51	11	0	36	1.38
15049129--15049191	26	2.4	26	82	10	67	71	3	4	20	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15050053--15050095	13	3.5	13	75	18	56	51	11	0	37	1.39
15050054--15050098	23	2.0	23	100	0	90	51	8	0	40	1.33
15053298--15053331	12	2.7	13	81	9	52	44	2	0	52	1.16
15060754--15060841	40	2.2	41	81	4	106	27	4	10	57	1.51
15060888--15060953	34	1.9	34	93	0	114	18	9	9	63	1.49
15064393--15064432	20	2.0	21	90	5	64	37	0	0	62	0.95
15067421--15067507	3	29.0	3	100	0	174	33	0	0	66	0.92
15076392--15076531	68	2.1	68	80	2	156	24	25	20	30	1.99
15076486--15076553	22	3.0	22	66	19	59	27	20	19	32	1.97
15076436--15076570	23	6.0	23	66	16	75	23	22	20	32	1.98
15076447--15076589	45	3.2	45	85	1	207	21	20	23	34	1.97
15080841--15080984	42	3.4	42	86	0	198	27	15	25	31	1.96
15080848--15081006	84	1.9	84	82	6	189	27	16	24	32	1.96
15083637--15083736	20	5.1	20	77	2	112	8	26	23	43	1.81
15083637--15083736	40	2.5	39	85	1	128	8	26	23	43	1.81
15087973--15088008	18	1.9	19	88	5	56	66	5	0	27	1.13
15090177--15090281	45	2.4	44	78	15	103	26	22	7	42	1.80
15101165--15101208	22	2.0	23	86	13	65	13	4	13	68	1.36
15107344--15107384	6	6.5	6	89	10	64	14	19	0	65	1.26
15110430--15110490	21	3.0	20	72	11	61	22	31	14	31	1.94
15110428--15110559	41	3.2	41	85	1	176	22	29	16	31	1.96
15110680--15110712	12	2.8	12	95	0	57	15	0	27	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15119196--15119312	48	2.5	48	98	1	227	37	12	27	22	1.90
15119396--15119445	16	3.4	16	73	21	63	68	0	0	32	0.90
15120174--15120199	13	2.0	13	100	0	52	23	7	15	53	1.67
15122846--15122880	15	2.4	15	90	4	54	48	0	8	42	1.33
15122905--15122952	10	4.9	10	76	2	53	25	6	2	66	1.26
15128232--15128269	18	2.2	17	86	13	51	73	2	18	5	1.14
15128236--15128277	18	2.3	19	84	12	52	78	2	16	2	0.96
15139248--15139347	11	9.4	11	69	17	68	24	31	2	43	1.65
15139248--15139312	22	2.9	22	84	11	80	24	32	1	41	1.64
15139272--15139371	51	2.0	51	88	4	148	26	27	2	45	1.65
15144914--15145290	124	3.0	124	91	3	596	32	22	15	29	1.95
15154579--15154634	24	2.4	23	84	3	67	44	3	0	51	1.18
15154579--15154651	12	6.0	12	70	19	53	42	4	0	53	1.20
15154972--15155026	2	27.5	2	92	0	92	49	3	0	47	1.19
15154965--15155026	14	4.5	14	91	2	90	50	4	0	45	1.23
15155659--15155703	23	2.0	22	82	4	54	40	4	17	37	1.70
15165071--15165171	40	2.5	40	93	0	166	25	20	23	29	1.99
15166828--15166866	21	2.0	20	85	14	55	69	2	0	28	1.02
15167039--15167215	84	2.1	85	87	5	250	40	12	14	32	1.83
15170269--15170430	67	2.4	68	92	2	274	25	11	5	56	1.56
15175455--15175916	27	17.5	27	75	11	318	36	18	21	23	1.95
15175456--15175897	54	8.4	54	79	9	351	37	18	20	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15175508--15175916	81	5.2	81	80	6	419	36	18	21	23	1.95
15175720--15175916	107	1.8	106	87	5	290	34	18	23	22	1.96
15176191--15176399	32	6.5	31	79	5	195	17	20	24	37	1.94
15176223--15176425	96	2.1	95	83	2	246	18	20	23	37	1.94
15178243--15178292	25	2.0	25	100	0	100	36	12	20	32	1.89
15181847--15181882	6	6.2	6	90	6	56	19	11	0	69	1.18
15181847--15181882	17	2.1	18	89	5	56	19	11	0	69	1.18
15199349--15199468	64	1.9	64	87	0	177	33	24	21	20	1.97
15208437--15208465	2	15.0	2	92	7	51	48	0	0	51	1.00
15211952--15212036	24	3.5	24	69	15	68	20	15	38	25	1.91
15219610--15219657	7	7.0	7	80	20	57	68	0	14	16	1.21
15220761--15220871	45	2.6	41	78	7	105	31	18	20	29	1.96
15232335--15232391	2	28.5	2	100	0	114	0	0	49	50	1.00
15240106--15240352	127	1.9	127	94	0	431	48	13	19	18	1.80
15243183--15243222	2	20.0	2	100	0	80	50	0	0	50	1.00
15246114--15246441	75	4.5	73	72	8	245	33	22	20	23	1.97
15249750--15249948	40	5.0	39	80	4	211	35	16	27	21	1.94
15249759--15249946	80	2.4	80	84	2	236	36	15	27	20	1.93
15256342--15256555	40	5.4	40	83	4	263	31	17	29	21	1.96
15256317--15256552	79	3.0	80	81	5	255	33	16	27	22	1.96
15256317--15256553	40	6.0	41	81	8	195	32	16	28	21	1.96
15256327--15256553	119	1.9	118	86	0	319	33	17	28	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15258754--15258934	42	4.3	42	77	2	141	37	17	19	25	1.93
15261166--15261215	22	2.3	22	79	6	57	46	10	8	36	1.67
15262112--15262350	119	2.0	121	82	5	279	39	7	9	43	1.66
15272240--15272287	22	2.1	22	85	14	62	47	0	4	47	1.21
15280976--15281052	11	6.9	11	72	20	63	24	28	1	45	1.61
15281012--15281111	51	2.0	51	86	4	139	26	26	3	45	1.68
15282252--15282277	7	3.7	7	100	0	52	26	0	15	57	1.38
15282928--15282967	18	2.2	18	86	0	53	17	30	7	45	1.76
15283508--15284037	22	24.3	22	80	7	555	45	28	0	25	1.55
15283508--15284034	43	12.1	43	81	10	547	45	28	0	25	1.55

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