genome.fa.s13.2.7.7.80.10.50.1000.125.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  125  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)
37984168--37984354	100	1.8	105	83	6	258	24	28	20	25	1.99
37996694--37996959	40	6.7	39	79	5	264	37	17	27	17	1.92
37996760--37996902	20	7.2	20	66	3	81	39	16	28	15	1.89
37996694--37996958	120	2.2	121	83	5	322	38	17	27	17	1.92
38013372--38013439	34	2.0	34	82	5	84	22	22	23	32	1.98
38013958--38013993	16	2.2	16	100	0	72	25	11	13	50	1.75
38013965--38014000	16	2.2	16	90	0	54	27	19	8	44	1.79
38016013--38016050	19	2.0	19	100	0	76	42	21	5	31	1.75
38021920--38021950	15	2.1	15	100	0	62	35	12	25	25	1.92
38023293--38023330	18	2.1	18	85	9	51	39	0	2	57	1.12
38032135--38032186	15	3.5	15	80	15	63	48	1	1	48	1.24
38033414--38033456	20	2.2	20	86	0	59	30	2	9	58	1.42
38033414--38033460	21	2.3	20	85	3	58	29	2	10	57	1.44
38033621--38033677	29	2.1	26	84	15	71	36	3	3	56	1.34
38033621--38033677	26	2.1	29	81	15	68	36	3	3	56	1.34
38034624--38034809	93	2.0	93	80	10	211	36	13	20	28	1.92
38035537--38035578	19	2.3	19	91	4	68	38	14	2	45	1.58
38036545--38036738	96	2.0	97	98	1	381	37	7	19	36	1.80
38040559--38040622	23	2.7	23	83	7	67	34	4	6	54	1.46
38041757--38041792	18	2.0	18	88	0	54	61	0	0	38	0.96
38045311--38045347	2	18.5	2	100	0	74	51	0	0	48	1.00
38045656--38045712	23	2.5	24	77	13	66	66	7	0	26	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38045746--38045797	21	2.5	21	84	3	70	67	3	3	25	1.25
38048405--38048434	13	2.4	13	94	5	53	40	0	26	33	1.57
38049887--38049923	11	3.4	11	88	0	56	54	0	0	45	1.00
38049892--38050057	25	6.4	26	85	8	214	59	0	2	37	1.15
38049892--38050057	52	3.2	51	90	3	244	59	0	2	37	1.15
38050151--38050186	18	2.0	18	88	0	54	75	2	0	22	0.94
38050195--38050257	31	2.0	32	84	3	83	36	17	15	30	1.91
38052586--38052647	30	2.1	29	82	11	72	50	3	0	46	1.17
38052816--38052866	13	3.9	13	78	0	57	39	23	0	37	1.55
38057397--38057453	21	2.6	22	77	8	71	38	5	3	52	1.41
38065288--38065370	35	2.4	34	88	8	114	22	20	24	32	1.98
38065976--38066007	15	2.1	15	100	0	64	46	6	18	28	1.73
38075848--38075886	20	2.0	20	85	10	53	51	10	0	38	1.36
38093046--38093117	30	2.4	30	72	9	74	25	26	12	36	1.91
38094672--38094773	35	2.9	36	78	11	113	23	28	19	28	1.98
38094601--38094761	70	2.2	73	83	5	195	21	31	18	27	1.97
38094783--38094875	36	2.6	36	78	0	114	20	31	19	29	1.97
38094786--38094984	107	1.9	107	80	6	233	22	28	18	30	1.97
38100548--38100587	19	2.1	19	100	0	80	45	10	10	35	1.71
38102038--38102068	10	3.1	10	95	0	53	51	0	9	38	1.35
38103691--38103735	7	6.7	7	87	10	67	13	46	0	40	1.43
38103691--38103735	19	2.3	19	88	7	63	13	46	0	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38110561--38110598	20	1.9	20	89	10	60	34	0	5	60	1.19
38114173--38114208	16	2.2	17	90	5	56	11	52	0	36	1.37
38117884--38117926	22	2.0	22	85	0	59	27	4	13	53	1.60
38130361--38130569	88	2.4	85	84	7	271	47	8	9	34	1.66
38130361--38130567	87	2.4	87	86	6	287	47	8	9	34	1.66
38139794--38139834	18	2.3	19	83	8	59	46	17	0	36	1.48
38140347--38140391	23	1.9	24	86	4	65	26	51	2	20	1.59
38143767--38143828	24	2.5	24	78	2	61	22	24	14	38	1.91
38143825--38143904	25	3.2	24	74	10	63	26	30	18	25	1.98
38148586--38148623	18	2.2	18	85	4	51	65	2	0	31	1.06
38149071--38149119	20	2.5	20	82	0	53	55	6	8	30	1.54
38150174--38150208	17	2.1	17	94	0	61	25	25	11	37	1.90
38155198--38155376	83	2.2	80	80	7	204	45	14	13	25	1.82
38155318--38155608	88	3.4	84	82	4	300	47	10	10	30	1.72
38155318--38155651	88	3.9	85	77	10	288	46	11	11	31	1.75
38155781--38155820	20	2.1	19	85	4	53	67	0	0	32	0.91
38157424--38157459	2	18.0	2	100	0	72	0	50	0	50	1.00
38169130--38169154	5	5.0	5	100	0	50	0	80	0	20	0.72
38171567--38171613	10	4.9	10	89	7	62	61	4	0	34	1.15
38171569--38171613	19	2.4	19	84	0	63	62	4	0	33	1.15
38186089--38186123	15	2.2	16	95	5	63	37	0	11	51	1.38
38186987--38187020	14	2.3	15	90	5	52	17	26	2	52	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38187446--38187505	2	30.0	2	93	0	102	51	1	0	46	1.10
38188765--38188857	17	5.9	17	71	14	74	38	4	4	52	1.41
38188758--38188814	30	1.9	30	92	0	96	33	7	3	56	1.43
38188758--38188810	13	3.8	13	77	18	52	33	7	3	54	1.46
38188806--38188845	16	2.6	15	92	7	71	42	0	5	52	1.23
38188884--38189006	15	7.9	15	66	20	65	52	14	1	31	1.52
38188907--38188964	21	2.8	20	84	7	80	43	17	3	36	1.66
38188961--38189006	7	6.6	7	78	16	51	60	10	0	28	1.30
38189002--38189078	21	3.7	21	79	10	68	44	20	2	32	1.66
38188881--38189500	9	71.6	9	66	20	204	45	19	2	32	1.63
38189069--38189494	16	25.1	17	65	21	107	45	19	2	31	1.65
38189115--38189486	34	10.7	34	68	16	137	45	19	2	31	1.65
38189066--38189336	25	10.7	26	68	17	126	46	19	2	31	1.62
38189274--38189458	69	2.7	69	91	0	289	42	21	4	31	1.72
38189430--38189511	25	3.3	25	82	0	101	47	15	2	34	1.59
38195552--38195721	66	2.6	65	84	3	198	39	18	28	14	1.89
38195692--38195741	21	2.4	21	86	0	64	34	16	44	6	1.72
38196075--38196222	43	3.4	43	85	7	194	19	18	32	29	1.96
38198179--38198312	7	18.9	7	89	6	164	45	0	9	44	1.36
38198204--38198312	28	3.9	28	96	2	193	47	0	8	44	1.33
38198556--38198624	5	13.8	5	77	6	59	40	2	14	42	1.61
38205424--38205471	22	2.3	20	86	13	62	37	0	16	45	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38205424--38205471	7	6.9	7	77	17	55	37	0	16	45	1.48
38205427--38205471	20	2.1	22	80	15	51	37	0	15	46	1.46
38205424--38205471	15	3.4	14	81	13	55	37	0	16	45	1.48
38214525--38214573	19	2.5	20	77	12	57	14	36	20	28	1.92
38215508--38215543	18	2.0	18	89	10	56	38	27	22	11	1.88
38224354--38224410	25	2.3	25	81	0	78	31	15	21	31	1.94
38228690--38228741	19	2.7	19	93	3	86	61	5	0	32	1.20
38228690--38228771	19	4.2	19	81	6	83	64	3	1	30	1.18
38228785--38228812	10	2.8	10	100	0	56	50	7	0	42	1.30
38228784--38228855	10	7.6	9	78	6	54	50	4	0	45	1.21
38228689--38228835	19	7.6	19	70	11	59	60	4	0	34	1.21
38228778--38228856	9	8.6	8	76	19	50	51	3	0	44	1.19
38235466--38235544	29	2.6	29	80	6	77	31	11	11	45	1.76
38237586--38237652	33	2.1	31	81	10	73	59	0	0	40	0.97
38238205--38238241	20	1.9	19	89	10	58	59	0	0	40	0.97
38239892--38240289	42	9.4	42	87	3	471	31	20	22	26	1.98
38244556--38244713	9	17.4	9	76	6	140	31	2	16	49	1.59
38248974--38249189	114	1.9	114	80	3	256	31	21	22	24	1.99
38249311--38249986	114	5.9	114	93	0	1120	26	25	15	32	1.95
38252629--38252705	39	2.0	37	82	9	93	53	1	2	42	1.23
38260339--38260372	17	2.0	17	88	0	50	32	14	14	38	1.87
38260638--38261218	114	5.1	114	74	11	535	33	16	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38260638--38261236	227	2.6	226	88	3	853	34	16	19	29	1.94
38261153--38261292	74	1.9	75	86	4	203	31	17	22	29	1.96
38261035--38261421	188	2.1	188	91	0	621	33	15	20	29	1.94
38261153--38261311	74	2.1	75	82	4	196	34	16	20	27	1.95
38261849--38261929	7	11.9	7	76	10	78	17	0	49	33	1.47
38261875--38261929	19	2.8	20	80	5	67	20	0	47	32	1.50
38261868--38261921	26	2.1	26	85	0	72	20	0	48	31	1.50
38262015--38262058	14	3.2	14	80	3	54	22	0	47	29	1.51
38262015--38262089	21	3.7	21	74	15	68	21	0	44	34	1.53
38262015--38262074	14	4.5	13	76	12	50	21	0	46	31	1.52

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