genome.fa.s13.2.7.7.80.10.50.1000.144.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  144  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)
43259802--43259847	7	6.4	7	80	5	56	19	2	45	32	1.62
43260054--43260101	7	6.7	7	79	11	53	29	0	33	37	1.58
43260046--43260101	14	3.9	14	90	2	85	28	0	35	35	1.58
43260585--43260624	21	1.9	21	89	0	62	47	5	5	42	1.47
43264280--43264307	12	2.3	12	100	0	56	32	7	10	50	1.64
43269452--43269490	20	2.0	19	85	14	53	51	2	25	20	1.60
43282234--43282296	3	22.0	3	73	15	53	65	0	30	4	1.13
43282234--43282301	17	4.0	17	75	7	75	66	0	29	4	1.11
43282234--43282288	20	2.8	20	83	5	67	65	0	30	3	1.10
43282234--43282299	14	5.1	14	71	14	52	65	0	30	4	1.13
43282236--43282296	11	5.3	12	72	21	51	65	0	29	4	1.13
43292962--43292998	16	2.3	16	90	0	56	37	2	27	32	1.71
43293264--43293306	22	2.0	22	85	0	59	44	2	0	53	1.13
43296201--43296364	84	2.0	84	90	0	256	34	27	12	25	1.92
43298298--43298353	27	2.1	27	96	0	103	39	23	7	30	1.81
43299303--43299345	10	4.3	10	82	8	52	39	0	2	58	1.11
43299297--43299345	20	2.4	20	83	10	64	40	0	2	57	1.10
43302494--43302779	28	10.2	28	78	4	263	31	20	19	27	1.97
43302786--43302828	20	2.2	20	100	0	86	30	13	20	34	1.92
43302806--43302982	29	6.1	29	88	0	264	32	22	16	28	1.96
43308116--43308303	68	2.8	69	89	1	272	27	23	14	34	1.94
43311472--43311572	41	2.5	40	84	6	125	63	0	3	32	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43311532--43311557	11	2.4	11	100	0	52	53	0	7	38	1.30
43312744--43312777	17	1.9	18	94	5	61	11	11	2	73	1.20
43317400--43317451	26	2.2	23	86	13	70	36	0	7	55	1.29
43318851--43318890	19	2.1	19	86	9	55	60	32	0	7	1.25
43320160--43320189	2	15.0	2	100	0	60	50	0	0	50	1.00
43322349--43322374	6	4.3	6	100	0	52	61	0	19	19	1.35
43322662--43322877	113	2.0	108	88	4	324	34	17	16	32	1.92
43325388--43325501	45	2.5	44	81	6	131	29	21	19	28	1.98
43325628--43325948	89	3.6	89	84	0	399	21	19	26	32	1.97
43327451--43327475	3	8.3	3	100	0	50	0	32	0	68	0.90
43329531--43329583	24	2.2	25	86	3	72	43	7	22	26	1.80
43331006--43331220	112	2.0	108	90	3	340	33	17	16	33	1.92
43337615--43337675	30	2.1	29	84	9	79	24	4	6	63	1.38
43347694--43347748	24	2.2	25	78	15	62	25	3	14	56	1.55
43357544--43357577	7	4.9	7	100	0	68	44	0	0	55	0.99
43357625--43357678	26	2.2	23	87	9	72	68	0	1	29	1.00
43360957--43361251	146	2.0	146	99	0	581	33	20	19	26	1.96
43362979--43363004	3	8.7	3	100	0	52	69	0	0	30	0.89
43365450--43365515	20	3.2	20	80	4	78	74	4	4	16	1.16
43365466--43365515	17	2.9	17	87	3	64	78	6	2	14	1.03
43365472--43365520	18	2.8	18	87	3	64	77	6	2	14	1.05
43376174--43376267	48	2.0	48	95	0	170	37	1	9	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43386279--43386309	16	1.9	16	93	0	53	45	3	6	45	1.45
43394164--43394222	21	3.0	20	83	9	68	67	3	5	23	1.26
43395904--43396005	22	4.6	22	87	0	132	27	26	14	31	1.95
43403529--43403580	12	3.4	17	68	26	53	23	9	7	59	1.54
43406161--43406320	37	4.7	33	72	14	121	43	4	2	50	1.35
43406941--43406998	30	1.9	30	89	6	91	27	31	29	12	1.92
43409524--43409832	43	7.3	43	86	4	385	27	28	17	26	1.98
43409524--43409832	84	3.6	84	85	3	395	27	28	17	26	1.98
43411718--43411961	122	2.0	122	89	1	373	30	15	20	33	1.94
43412649--43413199	253	2.2	253	90	1	881	28	17	15	38	1.91
43412979--43413374	213	1.9	214	91	0	650	26	15	15	42	1.87
43413454--43413484	13	2.5	13	94	5	55	41	0	0	58	0.98
43413886--43413925	21	1.9	21	84	0	53	52	15	7	25	1.68
43414007--43414038	14	2.3	14	100	0	64	40	40	0	18	1.51
43414033--43414334	161	1.9	158	94	3	534	49	25	1	23	1.58
43414455--43414650	41	4.8	41	92	1	288	28	31	20	19	1.97
43416593--43416629	2	18.5	2	94	0	65	0	48	2	48	1.15
43417509--43417548	20	2.0	20	90	0	62	27	10	12	50	1.72
43417495--43417560	35	1.9	34	87	6	98	33	7	12	46	1.69
43420132--43420180	6	8.2	6	88	0	53	38	0	8	53	1.31
43420132--43420180	12	4.1	12	86	0	62	38	0	8	53	1.31
43420331--43420394	27	2.5	27	80	12	73	39	0	26	34	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43421693--43421727	17	2.1	17	100	0	70	28	11	22	37	1.89
43423327--43423367	21	2.0	21	85	0	55	39	21	12	26	1.89
43429258--43429326	29	2.3	29	85	5	84	47	15	14	21	1.81
43432713--43432789	27	2.9	26	76	3	82	29	16	10	42	1.82
43435936--43435963	2	14.0	2	100	0	56	50	0	0	50	1.00
43440421--43440484	22	2.9	22	86	6	76	12	10	1	75	1.13
43440429--43440486	11	5.6	10	75	13	55	10	12	1	75	1.11
43441644--43441712	29	2.3	30	80	12	79	50	11	13	24	1.74
43441836--43441868	16	2.1	16	94	0	57	60	3	0	36	1.12
43442735--43442775	21	1.9	22	85	5	57	17	14	14	53	1.73
43462154--43462184	16	1.9	16	100	0	62	22	6	12	58	1.58
43464732--43465055	120	2.7	120	97	0	612	42	0	4	51	1.27
43465839--43465873	18	1.9	19	88	11	56	22	2	0	74	0.95
43467289--43468113	298	2.8	299	80	6	816	41	9	11	37	1.74
43467560--43468113	300	1.8	302	82	3	713	42	9	11	37	1.72
43474374--43474411	18	2.1	18	85	9	51	52	0	7	39	1.31
43475354--43475403	16	3.1	16	75	21	50	48	4	16	32	1.64
43475361--43475404	17	2.5	17	82	10	54	50	2	15	31	1.57
43479482--43479506	3	8.3	3	100	0	50	0	32	0	68	0.90
43481022--43481055	16	2.2	15	89	5	50	55	0	0	44	0.99
43482909--43482945	18	2.1	18	100	0	74	35	27	21	16	1.94
43485878--43486264	47	8.2	47	92	1	497	42	20	12	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43485878--43486264	190	2.1	188	84	2	499	42	20	12	24	1.86
43486023--43486247	25	9.6	23	71	20	162	43	19	14	23	1.87
43487211--43487309	28	3.6	27	78	11	103	27	29	12	31	1.92
43495152--43495191	21	1.9	21	100	0	80	47	10	17	25	1.78
43501223--43501278	16	3.5	16	87	0	85	39	7	26	26	1.82
43501260--43501352	45	2.1	44	90	6	143	33	3	24	38	1.72
43501459--43501587	56	2.3	56	78	9	136	51	4	0	42	1.28
43502899--43502976	38	2.0	39	92	2	131	46	20	16	16	1.85
43503969--43504009	19	2.2	19	86	8	57	58	34	0	7	1.26
43504499--43504531	16	2.0	17	88	5	50	15	0	3	81	0.80
43507305--43507349	19	2.4	19	88	7	65	31	22	8	37	1.85
43510099--43510141	10	4.3	10	77	11	52	83	9	6	0	0.80
43510949--43511130	97	1.9	93	86	6	258	27	15	9	47	1.76
43511603--43511660	24	2.4	24	91	0	89	32	8	25	32	1.86
43511940--43512806	100	8.7	100	88	1	1211	31	22	21	24	1.98
43512860--43513267	82	5.0	82	97	0	762	30	26	20	22	1.98
43513598--43513638	19	2.2	19	86	8	57	58	34	0	7	1.26
43517987--43518235	43	5.8	43	83	1	322	27	26	19	26	1.99
43517987--43518235	85	2.9	86	86	1	331	27	26	19	26	1.99
43517991--43518235	128	1.9	128	88	1	375	26	26	20	27	1.99
43519486--43519515	13	2.3	13	100	0	60	56	13	13	16	1.67
43519524--43519566	20	2.2	20	100	0	86	41	20	4	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43520432--43520480	9	5.4	9	85	9	64	30	6	0	63	1.19
43520420--43520480	9	7.1	9	73	15	58	31	4	0	63	1.15
43520577--43520802	76	2.9	76	85	5	276	44	25	1	29	1.62
43520794--43520827	7	4.9	7	88	0	50	29	50	0	20	1.49
43520794--43520833	14	2.9	14	84	0	53	30	47	0	22	1.52
43520929--43520998	14	5.1	14	82	3	81	32	42	1	22	1.63
43520795--43521118	164	2.0	165	93	0	551	37	33	1	27	1.65
43521158--43521190	14	2.3	15	94	5	59	36	33	0	30	1.58
43521923--43522294	113	3.3	115	85	5	508	25	25	23	26	2.00
43522361--43522386	12	2.2	12	100	0	52	46	30	15	7	1.74

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