genome.fa.s13.2.7.7.80.10.50.1000.107.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  107  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)
32632829--32632872	9	4.9	9	88	0	61	20	34	0	45	1.51
32632825--32632863	18	2.2	18	95	0	69	23	38	0	38	1.55
32633065--32633100	17	2.1	18	89	5	56	25	0	0	75	0.81
32637808--32638041	51	4.6	51	80	6	251	27	16	27	28	1.97
32637808--32638041	102	2.3	101	83	5	285	27	16	27	28	1.97
32638242--32638314	37	1.9	37	88	2	110	43	1	23	31	1.62
32640984--32641061	27	3.0	25	74	9	75	38	12	16	32	1.87
32643149--32643311	42	3.9	42	79	1	130	31	22	17	28	1.96
32643169--32643311	42	3.4	42	78	1	135	32	21	16	29	1.96
32659069--32659121	11	4.7	12	76	19	60	28	30	1	39	1.67
32659084--32659181	51	1.9	51	83	8	119	27	23	4	44	1.71
32660943--32660982	18	2.2	18	95	0	71	22	30	7	40	1.81
32661238--32661286	21	2.3	21	86	13	66	32	36	28	2	1.69
32669617--32669663	14	3.5	14	75	18	55	6	4	17	72	1.22
32673557--32673622	29	2.2	30	81	2	71	43	7	19	28	1.78
32677545--32677577	15	2.3	15	90	10	52	33	0	3	63	1.10
32678670--32679041	126	3.0	126	89	1	568	31	17	23	27	1.97
32679047--32679600	21	25.5	22	77	11	495	24	0	29	45	1.58
32679545--32679593	15	3.5	15	67	16	50	24	0	32	42	1.55
32679541--32679592	27	1.9	27	96	0	95	23	0	34	42	1.54
32679837--32679882	21	2.2	21	84	7	58	6	23	34	34	1.81
32680821--32680853	7	4.7	7	100	0	66	57	15	0	27	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32681022--32681059	20	1.9	20	84	10	51	55	7	2	34	1.43
32681995--32682070	11	6.8	12	82	10	90	50	1	25	23	1.57
32683953--32684022	26	2.7	26	70	12	63	60	4	2	32	1.31
32686631--32686658	2	14.0	2	100	0	56	0	50	0	50	1.00
32690188--32690360	46	3.8	46	88	0	258	38	8	24	28	1.85
32699699--32699919	29	7.6	29	92	0	343	23	0	31	44	1.54
32701063--32701088	7	3.7	7	100	0	52	57	15	0	26	1.38
32702211--32702339	22	5.5	22	75	13	123	42	0	28	28	1.56
32702175--32702341	73	2.3	73	95	1	300	44	0	28	26	1.59
32702324--32702356	10	3.0	11	86	13	50	45	0	36	18	1.49
32711396--32711489	46	2.0	48	95	4	174	31	14	22	30	1.94
32715705--32715743	20	1.9	21	89	5	62	43	12	0	43	1.42
32718962--32719023	31	2.0	31	93	0	106	32	8	16	43	1.77
32724539--32724600	31	2.0	31	96	0	115	32	8	17	41	1.79
32733075--32733110	2	18.0	2	100	0	72	50	0	50	0	1.00
32750729--32750763	3	11.7	3	100	0	70	68	31	0	0	0.90
32750974--32751093	62	2.0	61	81	5	143	52	13	20	13	1.73
32752320--32752441	44	2.8	41	77	10	109	23	21	21	33	1.97
32752346--32752673	44	7.3	44	77	8	293	29	19	19	32	1.96
32765024--32765049	3	8.7	3	100	0	52	69	30	0	0	0.89
32765253--32765371	61	2.0	61	86	6	170	47	15	21	15	1.81
32767369--32767411	21	2.0	22	82	13	54	72	4	13	9	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32768129--32768573	50	8.9	50	71	4	313	24	19	22	33	1.97
32768122--32768573	101	4.5	101	92	1	723	24	19	22	33	1.97
32768689--32769093	44	8.8	44	68	18	119	28	20	18	33	1.96
32768638--32769066	142	3.0	142	93	0	725	27	19	17	34	1.95
32768977--32769095	44	2.7	44	87	5	152	26	21	19	31	1.97
32782477--32782706	94	2.4	94	83	0	289	33	19	10	36	1.87
32787409--32787440	6	5.3	6	96	0	55	15	0	28	56	1.40
32795053--32795103	25	2.0	26	88	3	77	50	0	17	31	1.46
32796887--32796957	28	2.5	28	76	15	67	39	2	4	53	1.35
32798036--32798127	17	5.4	18	71	23	58	53	2	3	41	1.29
32800537--32800635	23	4.3	23	86	0	135	23	19	24	33	1.97
32800537--32800635	46	2.2	46	90	7	157	23	19	24	33	1.97
32801795--32801909	49	2.4	47	81	7	126	31	14	24	29	1.95
32802915--32802983	23	3.0	23	82	2	77	40	18	20	20	1.92
32807199--32807226	14	2.0	14	100	0	56	28	7	35	28	1.84
32813750--32813802	25	2.1	26	89	3	81	11	7	11	69	1.35
32819452--32819616	90	1.9	88	88	2	249	37	21	9	31	1.86
32819688--32819731	19	2.4	19	85	11	56	65	4	6	22	1.35
32819937--32820012	40	1.9	40	83	5	100	32	3	2	60	1.29
32819976--32820088	47	2.3	49	79	11	117	37	1	3	57	1.26
32820066--32820090	11	2.3	11	100	0	50	16	0	8	76	1.02
32820542--32820602	31	2.0	31	96	0	113	44	4	14	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32822361--32822408	19	2.5	20	83	6	64	22	2	2	72	1.05
32824619--32824652	8	4.1	8	96	3	59	82	2	0	14	0.79
32825107--32825138	15	2.2	14	94	5	55	3	6	6	84	0.86
32825160--32825200	15	2.6	15	88	7	55	24	2	0	73	0.96
32825183--32825230	11	4.3	11	86	7	53	6	0	10	83	0.81
32825198--32825257	6	9.7	6	79	13	68	1	5	13	80	0.96
32826288--32826338	7	7.4	7	93	4	86	86	0	13	0	0.58
32832148--32832195	18	2.6	18	86	6	60	52	0	27	20	1.47
32836246--32836359	40	2.9	40	82	3	133	34	19	22	23	1.97
32836419--32836617	41	4.9	41	92	1	319	18	20	29	31	1.96
32836787--32836898	14	7.4	14	69	20	64	20	1	29	48	1.60
32836850--32836898	14	3.4	14	88	5	71	20	0	32	46	1.51
32836845--32836898	7	7.6	7	77	4	54	22	0	29	48	1.51
32836999--32837031	16	2.1	16	88	11	50	42	0	0	57	0.98
32837655--32837702	24	2.0	25	83	4	62	35	4	2	58	1.29
32841194--32841475	42	6.7	42	87	3	343	24	20	30	25	1.99
32861176--32861200	13	1.9	13	100	0	50	28	16	0	56	1.41
32861580--32861620	19	2.2	19	86	0	55	87	4	2	4	0.72
32864263--32864300	16	2.4	16	100	0	76	42	13	5	39	1.66
32864493--32864571	20	4.0	20	70	15	65	32	18	34	13	1.91
32865112--32865144	18	1.9	17	88	11	50	42	21	12	24	1.86
32875440--32875712	126	2.2	126	95	0	492	31	20	22	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32879320--32879362	18	2.4	18	88	0	59	41	9	30	18	1.82
32880017--32880042	7	3.7	7	100	0	52	57	15	0	26	1.38
32881219--32881258	11	3.6	11	86	6	55	42	2	32	22	1.67
32884019--32884161	67	2.1	68	85	3	191	41	18	18	21	1.91
32885938--32885993	26	2.2	26	90	0	85	37	10	17	33	1.85
32885951--32886007	26	2.2	26	83	0	69	42	12	14	31	1.82
32887683--32887716	17	2.0	17	94	0	59	35	35	8	20	1.84
32887748--32887790	20	2.4	17	79	20	59	39	9	20	30	1.84
32887753--32887792	20	2.0	20	100	0	80	35	10	20	35	1.86
32893823--32893875	22	2.4	22	80	0	61	54	15	13	16	1.71
32894237--32894438	110	1.8	110	84	4	253	28	11	22	37	1.89
32894237--32894474	110	2.2	109	78	8	243	28	12	21	37	1.89
32894320--32894609	138	2.1	139	83	3	363	29	11	22	37	1.88
32897725--32897788	12	5.4	12	76	10	69	1	3	29	65	1.17
32897725--32897799	25	3.2	24	80	9	84	2	2	28	66	1.18
32898109--32898188	22	3.6	22	86	0	115	30	13	26	30	1.94
32905971--32906020	6	8.3	6	97	0	91	16	2	14	68	1.31
32913856--32913901	20	2.4	20	82	7	51	60	10	4	23	1.47
32913978--32914023	23	2.0	23	91	0	74	63	15	4	17	1.47
32914049--32914113	3	23.3	3	74	12	50	67	30	0	1	1.00
32914058--32914121	12	5.4	12	88	3	103	67	32	0	0	0.91
32918693--32918744	22	2.4	21	79	17	54	38	0	5	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32918585--32918818	121	1.9	120	95	0	423	42	1	5	51	1.32
32919033--32919086	16	3.4	16	92	0	90	24	35	3	37	1.73
32924525--32924679	41	3.8	41	94	0	265	26	20	22	30	1.98
32931804--32931956	74	2.1	75	81	3	175	32	6	18	41	1.77
32932261--32932406	41	3.6	41	91	0	231	25	21	23	30	1.99
32939057--32939084	3	9.3	3	100	0	56	0	35	0	64	0.94
32941501--32941548	18	2.6	19	77	9	55	43	0	0	56	0.99
32942494--32942560	28	2.4	30	78	14	79	37	0	7	55	1.28
32947385--32947444	26	2.3	26	82	2	66	38	5	1	55	1.32
32947402--32947457	26	2.2	26	83	6	69	33	5	3	57	1.39

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