genome.fa.s13.2.7.7.80.10.50.1000.123.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  123  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)
37322344--37322423	13	5.7	14	76	16	60	58	7	0	33	1.26
37322359--37322424	13	4.9	13	78	14	80	57	7	0	34	1.27
37322344--37322424	41	2.0	41	100	0	162	58	7	0	34	1.26
37325394--37325658	33	8.0	33	83	2	318	29	18	20	31	1.97
37329612--37329668	29	2.0	29	96	0	105	22	28	8	40	1.84
37331401--37331434	5	6.8	5	100	0	68	20	58	0	20	1.39
37333812--37333955	27	5.3	26	89	6	171	38	20	20	20	1.94
37333812--37333955	54	2.7	54	87	2	191	38	20	20	20	1.94
37340308--37340758	27	16.7	27	82	6	423	45	19	17	17	1.86
37340308--37340757	81	5.6	80	83	5	521	45	20	17	17	1.86
37345847--37345900	20	2.7	20	88	0	72	16	20	3	59	1.52
37346589--37346857	138	2.0	137	82	5	337	35	26	18	20	1.95
37349708--37349758	23	2.2	23	89	0	75	27	11	21	39	1.88
37352045--37352104	27	2.3	26	88	2	84	35	16	25	23	1.95
37352177--37352226	24	2.1	24	85	7	66	22	10	20	48	1.79
37352372--37352474	26	4.0	26	87	2	136	14	22	25	37	1.92
37358516--37358653	67	2.1	67	87	0	195	22	36	22	18	1.95
37358523--37358674	67	2.3	67	84	2	189	21	36	23	19	1.95
37361812--37361853	20	2.2	19	87	12	59	16	21	7	54	1.65
37363361--37363402	20	2.2	19	87	12	59	16	21	4	57	1.58
37364907--37364950	20	2.2	20	88	8	63	18	20	6	54	1.66
37365925--37365969	23	2.0	23	82	8	56	42	15	2	40	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37366506--37366547	20	2.2	19	87	12	59	16	21	4	57	1.58
37368118--37368155	20	1.9	20	89	10	60	15	18	7	57	1.62
37369595--37369628	17	1.9	18	88	5	52	26	11	35	26	1.91
37369778--37370184	27	15.1	27	81	1	449	41	22	18	18	1.91
37372352--37372393	12	3.5	12	75	12	50	33	0	42	23	1.55
37373008--37373470	27	17.2	27	76	2	410	43	22	16	18	1.88
37373871--37373930	29	2.0	32	87	9	90	30	15	13	41	1.85
37375074--37375098	8	3.1	8	100	0	50	52	24	12	12	1.72
37379223--37379264	20	2.2	19	87	12	59	16	21	4	57	1.58
37380160--37380198	2	19.5	2	100	0	78	51	0	0	48	1.00
37384928--37384997	16	4.3	16	72	3	59	48	11	17	22	1.79
37386917--37386946	15	1.9	16	93	6	53	10	13	0	76	1.01
37391018--37391156	45	3.1	45	78	0	143	28	13	23	34	1.93
37400185--37400266	41	2.0	41	100	0	164	24	7	24	43	1.79
37400946--37401003	18	3.3	18	79	13	57	37	10	15	36	1.82
37405887--37405928	12	3.5	12	77	9	50	78	2	11	7	1.04
37408844--37408868	13	1.9	13	100	0	50	32	32	16	20	1.94
37411914--37411942	11	2.6	11	100	0	58	48	0	0	51	1.00
37412570--37412616	17	2.7	18	87	6	62	23	36	4	36	1.75
37417303--37417428	63	2.0	63	98	0	243	26	14	21	38	1.91
37423190--37423237	24	1.9	26	87	8	73	27	18	6	47	1.72
37426859--37426912	27	2.0	27	85	0	72	20	20	24	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37426868--37427079	27	7.9	27	82	2	264	22	18	18	41	1.91
37426868--37427079	82	2.6	82	83	1	266	22	18	18	41	1.91
37435975--37436013	21	1.9	20	84	5	51	15	12	20	51	1.76
37436175--37436200	10	2.6	10	100	0	52	11	34	7	46	1.69
37457202--37457272	35	2.0	35	97	0	133	25	12	30	30	1.93
37461216--37461288	25	2.9	24	77	6	65	17	24	21	35	1.95
37461265--37461332	25	2.7	25	75	8	75	27	20	19	32	1.97
37469874--37469922	19	2.6	19	83	6	64	61	8	2	28	1.36
37469874--37469922	18	2.6	17	81	12	53	61	8	2	28	1.36
37470128--37470238	19	5.7	18	68	20	64	32	3	4	59	1.35
37470128--37470238	18	5.7	19	73	11	91	32	3	4	59	1.35
37475907--37475961	21	2.6	21	91	0	92	21	9	40	29	1.84
37482224--37482260	19	1.9	19	88	0	56	51	18	27	2	1.60
37484170--37484234	28	2.3	28	89	2	94	38	3	0	58	1.14
37484592--37484638	21	2.1	23	84	7	62	40	0	0	59	0.97
37485163--37485205	15	2.7	16	82	10	52	67	4	0	27	1.10
37486985--37487064	23	3.4	23	89	1	115	23	25	7	43	1.79
37487270--37487319	9	5.6	9	90	0	73	44	22	8	26	1.80
37487270--37487327	18	3.2	18	87	0	80	41	22	8	27	1.83
37487270--37487327	9	6.5	8	86	7	53	41	22	8	27	1.83
37487532--37487607	38	2.0	39	92	2	127	21	2	22	53	1.57
37487556--37487666	52	2.2	52	93	1	188	18	1	32	47	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37487646--37487681	17	2.1	18	94	5	65	11	0	50	38	1.38
37487661--37487693	12	2.8	12	95	0	57	15	0	42	42	1.46
37488973--37489348	35	10.4	35	76	10	287	39	14	20	25	1.91
37488973--37489354	144	2.6	143	79	8	391	38	14	20	26	1.91
37488973--37489354	72	5.3	73	77	7	309	38	14	20	26	1.91
37489787--37489837	24	2.2	24	85	3	68	50	11	1	35	1.50
37495262--37495309	24	2.0	24	87	0	69	14	20	8	56	1.64
37495276--37495417	40	3.5	40	87	5	189	21	22	5	50	1.70
37498453--37498518	12	5.5	12	77	0	78	18	33	37	10	1.85
37498453--37498527	24	3.1	24	100	0	150	18	33	36	12	1.88
37500423--37500459	11	3.5	11	92	3	58	18	0	5	75	0.99
37500667--37500772	52	2.0	52	94	0	185	56	8	8	26	1.58
37501204--37501335	63	2.1	63	79	0	138	28	9	31	30	1.89
37503239--37503301	25	2.5	25	86	0	90	26	23	22	26	2.00
37503219--37503310	25	3.7	24	75	8	85	26	21	22	29	1.99
37505886--37505915	15	2.0	15	93	0	51	56	0	23	20	1.42
37505932--37505981	22	2.3	22	82	0	64	54	0	10	36	1.34
37505987--37506027	7	5.9	7	97	0	64	34	0	29	36	1.58
37506464--37506498	12	2.8	12	86	4	52	2	14	0	82	0.77
37507096--37507197	40	2.5	40	93	0	177	36	23	17	22	1.95
37507736--37507788	26	1.9	28	88	11	83	20	11	13	54	1.69
37508444--37508486	19	2.3	19	83	0	50	32	2	9	55	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37512607--37512648	19	2.2	19	86	0	57	28	7	0	64	1.20
37512708--37512758	23	2.3	23	82	3	59	33	0	0	66	0.92
37513937--37513965	3	9.7	3	100	0	58	31	0	0	68	0.89
37516857--37516954	40	2.5	40	91	0	160	27	23	19	29	1.98
37519073--37519138	24	2.8	24	78	0	69	53	28	1	16	1.52
37532749--37532808	30	2.0	30	93	0	102	56	16	3	23	1.55
37557610--37557645	18	2.1	18	89	5	56	22	2	5	69	1.22
37562258--37562292	12	2.7	13	86	13	54	48	0	17	34	1.47
37562005--37562318	159	2.0	154	88	7	459	39	6	18	36	1.76
37563248--37563296	16	3.1	16	81	18	59	65	0	2	32	1.04
37563684--37563720	15	2.5	15	86	0	56	75	0	2	21	0.92
37568540--37568616	26	3.0	26	88	0	118	38	22	22	16	1.93
37568757--37568815	27	2.2	27	84	0	73	23	16	22	37	1.94
37568767--37568826	27	2.2	27	93	0	102	16	16	21	45	1.86
37569043--37569097	20	2.8	20	97	0	101	16	36	23	23	1.94
37571253--37571290	20	1.9	20	88	0	58	52	0	10	36	1.36
37573043--37573414	23	15.7	23	77	5	321	25	14	19	40	1.90
37573043--37573406	70	5.1	71	87	3	403	25	14	19	40	1.90
37573085--37573414	118	2.8	117	85	2	365	26	14	19	40	1.89
37573043--37573415	47	7.9	46	78	4	314	26	14	19	40	1.90
37573684--37573730	2	23.5	2	100	0	94	48	0	0	51	1.00
37575707--37575732	12	2.2	12	100	0	52	11	7	7	73	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37577714--37577826	37	3.1	38	75	15	105	50	3	3	42	1.36
37581051--37581094	23	2.0	22	86	4	61	25	0	9	65	1.21
37588776--37588840	9	6.9	9	77	10	51	58	1	0	40	1.07
37588833--37588872	9	4.2	9	84	9	53	30	2	2	65	1.19
37590509--37590542	18	1.9	17	88	5	50	67	2	0	29	1.05
37591971--37592012	19	2.3	19	80	15	52	50	2	2	45	1.27
37594715--37594781	34	1.9	35	87	3	100	44	14	8	31	1.76
37597900--37598155	68	3.8	68	83	1	289	23	22	17	36	1.95
37598060--37598330	122	2.2	122	88	1	400	26	25	16	32	1.96
37598751--37598831	38	2.1	38	95	0	144	45	27	12	14	1.81

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