genome.fa.s13.2.7.7.80.10.50.1000.138.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  138  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)
41823419--41823490	35	2.1	35	83	0	90	30	20	23	25	1.99
41825089--41825136	25	1.9	25	100	0	96	29	22	25	22	1.99
41825091--41825182	25	3.7	25	80	8	91	29	25	22	22	1.99
41830427--41830477	7	7.4	7	82	4	68	41	37	0	21	1.54
41836345--41836424	42	2.0	40	82	7	99	45	2	3	48	1.33
41839024--41839086	26	2.4	26	89	0	99	23	11	23	41	1.87
41840385--41840432	21	2.2	22	88	3	71	22	25	37	14	1.92
41840956--41840980	13	1.9	13	100	0	50	16	0	20	64	1.30
41848985--41849028	18	2.5	17	82	10	61	38	18	4	38	1.71
41852187--41852265	39	2.0	39	92	0	131	27	16	11	44	1.82
41856420--41856495	37	2.0	38	94	2	136	31	19	6	42	1.77
41864134--41864243	23	5.0	23	75	6	104	33	21	23	20	1.97
41865233--41865262	13	2.3	13	94	0	51	0	16	0	83	0.65
41865473--41865510	14	2.4	17	87	12	55	52	0	0	47	1.00
41874550--41874664	25	4.6	26	69	15	73	32	13	20	33	1.92
41878409--41878448	14	2.9	14	84	0	53	32	7	17	42	1.77
41878432--41878471	20	2.0	20	90	0	62	27	10	12	50	1.72
41878417--41878483	34	1.9	35	90	3	109	31	8	13	46	1.74
41878411--41878487	14	5.0	15	71	20	52	32	9	15	42	1.78
41878464--41878549	33	2.6	32	75	12	93	26	9	17	46	1.78
41881005--41881049	6	7.5	6	97	0	63	40	0	60	0	0.97
41881014--41881052	17	2.3	17	86	0	51	46	0	53	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41893227--41893289	29	2.1	31	82	5	76	34	6	14	44	1.70
41894194--41894266	27	2.7	27	87	4	103	19	32	24	23	1.97
41896217--41896377	62	2.6	62	81	3	207	30	27	19	22	1.98
41896313--41896414	50	2.1	50	83	1	125	26	26	20	26	1.99
41913460--41914364	44	20.8	43	70	14	377	27	20	23	28	1.99
41913374--41914364	217	4.6	217	91	1	1504	27	20	23	28	1.99
41915651--41915691	18	2.3	18	95	0	73	29	12	9	48	1.72
41916043--41916084	19	2.2	20	82	4	50	30	7	11	50	1.66
41917467--41917497	5	6.2	5	100	0	62	80	0	0	19	0.71
41917582--41917630	18	2.8	18	77	17	59	69	0	6	24	1.11
41919003--41919209	44	4.7	44	74	12	149	30	19	16	33	1.94
41919032--41919209	89	2.0	89	81	4	207	29	20	15	34	1.93
41919080--41919209	45	2.9	44	79	7	154	28	19	17	34	1.95
41919266--41919821	44	11.9	44	68	12	268	30	18	15	35	1.92
41919250--41919916	95	7.0	95	86	1	876	30	18	16	34	1.93
41919264--41919916	283	2.3	285	87	2	929	30	18	15	34	1.93
41930781--41930843	21	3.0	22	82	8	71	66	0	4	28	1.12
41935737--41935778	21	2.0	21	90	0	66	11	9	23	54	1.66
41938882--41938918	19	1.9	19	100	0	74	37	24	5	32	1.78
41942330--41942560	75	3.1	75	86	3	304	54	9	7	27	1.61
41944864--41944893	16	1.9	15	93	6	51	53	6	0	40	1.27
41944895--41945209	104	3.1	97	77	12	328	54	15	1	28	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41944895--41945209	98	3.1	98	79	13	327	54	15	1	28	1.50
41945180--41945404	72	3.1	72	96	0	405	54	15	1	29	1.49
41945230--41945348	41	3.1	41	60	22	96	55	14	1	28	1.49
41945180--41945359	34	5.1	34	66	14	112	53	16	1	28	1.52
41945203--41945399	38	5.4	37	67	14	140	55	14	1	28	1.45
41945429--41945612	60	3.1	60	98	0	350	54	12	0	33	1.38
41945774--41945813	3	13.3	3	100	0	80	0	32	0	67	0.91
41945771--41945830	9	7.0	8	87	10	59	0	33	0	66	0.92
41947436--41947484	19	2.5	20	77	6	57	59	4	0	36	1.17
41952169--41952205	18	2.1	18	100	0	74	56	0	10	32	1.34
41953504--41953601	25	4.0	25	81	1	99	19	30	20	29	1.97
41955079--41955320	50	4.9	50	82	1	245	21	28	21	28	1.99
41956780--41956819	17	2.4	17	91	0	62	15	17	40	27	1.89
41956841--41956886	22	2.1	22	91	0	74	10	30	15	43	1.81
41960430--41960516	25	3.5	25	80	0	93	34	19	26	19	1.96
41966866--41966924	25	2.4	25	88	5	84	22	28	16	32	1.96
41968215--41968240	4	6.5	4	100	0	52	76	0	0	23	0.78
41977098--41977268	43	4.0	43	74	8	168	23	16	29	29	1.97
41982875--41982924	22	2.2	23	89	10	77	30	18	2	50	1.58
41986479--41986512	3	11.3	3	100	0	68	67	0	0	32	0.91
41990018--41990042	2	12.5	2	100	0	50	48	0	0	52	1.00
41991382--41991503	57	2.1	58	86	1	165	24	18	7	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42003859--42004002	49	3.0	48	80	7	164	28	24	20	26	1.99
42005678--42005714	18	2.1	18	89	0	56	40	5	40	13	1.67
42007592--42007840	56	4.7	53	80	5	249	27	20	26	24	1.99
42007592--42007889	56	5.7	50	76	9	224	28	20	26	24	1.99
42014083--42014148	26	2.5	26	80	4	71	66	12	7	13	1.43
42015393--42015432	19	2.1	19	85	0	53	32	2	5	60	1.32
42016461--42016520	25	2.4	25	94	0	102	21	23	15	40	1.91
42016446--42016525	25	3.2	25	85	0	97	18	23	16	41	1.90
42016610--42016678	27	2.7	25	80	8	84	17	23	21	37	1.94
42016586--42016732	24	6.0	23	71	16	82	18	24	20	36	1.94
42021222--42021268	16	2.9	16	75	9	51	57	2	0	40	1.11
42021253--42021302	18	2.8	18	84	6	66	58	2	2	38	1.21
42023611--42023709	17	5.8	17	67	21	64	38	3	5	53	1.38
42032760--42032811	24	2.2	24	85	0	68	17	19	21	42	1.89
42037101--42037151	21	2.4	21	80	3	57	21	5	3	68	1.27
42039759--42040012	42	6.0	42	85	3	314	33	20	20	25	1.97
42039769--42040012	127	1.9	126	87	2	355	33	20	20	25	1.97
42039771--42040081	85	3.7	85	82	7	348	32	21	20	26	1.97
42039790--42040059	127	2.1	127	82	4	321	30	21	22	26	1.99
42040448--42040496	12	4.3	12	70	15	50	2	40	20	36	1.64
42040460--42040508	21	2.3	21	92	0	80	4	40	20	34	1.71
42040493--42040578	35	2.5	35	96	0	154	4	37	20	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42040493--42040597	35	3.0	35	83	5	106	5	38	20	36	1.76
42046207--42046391	9	20.4	9	70	17	100	34	2	18	44	1.64
42046196--42046300	25	4.2	25	78	11	124	34	2	18	44	1.64
42046196--42046300	51	2.1	50	87	1	147	34	2	18	44	1.64
42046207--42046334	16	7.5	18	68	13	65	34	3	19	42	1.67
42046555--42046712	13	12.0	13	73	10	115	44	4	10	40	1.58
42046546--42046695	53	2.8	53	95	0	264	45	3	10	40	1.55
42047374--42047452	4	19.8	4	100	0	158	50	24	0	25	1.49
42047589--42047617	6	4.8	6	100	0	58	51	13	0	34	1.42
42048838--42048936	47	2.1	48	84	1	128	45	2	9	43	1.47
42048968--42049010	9	4.7	9	83	16	61	32	9	0	58	1.30
42048982--42049015	8	4.2	8	89	10	52	35	8	0	55	1.31
42048971--42049015	17	2.5	19	82	17	69	33	8	0	57	1.30
42049004--42049058	21	2.7	20	71	23	51	41	7	1	49	1.41
42049231--42049305	7	11.0	7	76	11	57	34	46	1	17	1.56
42049231--42049305	13	5.5	14	69	12	57	34	46	1	17	1.56
42049107--42049277	89	1.9	89	85	4	238	43	28	1	26	1.65
42049265--42049308	21	2.1	21	91	0	70	31	45	0	22	1.53
42049402--42049453	7	8.0	7	81	16	67	30	51	0	17	1.45
42049181--42049412	110	2.1	110	84	6	292	41	30	0	27	1.59
42049402--42049445	12	4.1	12	72	27	53	31	52	0	15	1.44
42049402--42049452	19	2.7	19	96	0	93	31	50	0	17	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42049487--42049520	15	2.3	15	90	5	52	35	29	0	35	1.58
42050066--42050850	113	6.9	113	89	2	1009	28	24	23	24	2.00
42051056--42051102	25	1.9	24	86	4	67	63	2	8	25	1.34
42052060--42052111	10	4.8	10	76	17	50	75	1	7	15	1.12
42052862--42053164	44	6.8	44	70	11	177	30	21	18	29	1.97
42053028--42053754	143	5.0	142	82	5	855	27	21	20	30	1.98
42053618--42053733	45	2.6	44	79	4	117	23	24	20	31	1.98
42065795--42065828	15	2.3	15	89	0	50	58	29	2	8	1.43
42066111--42066158	21	2.3	21	88	0	69	4	45	18	31	1.68
42070176--42070356	90	2.0	90	97	0	344	33	23	18	24	1.97

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