genome.fa.s13.2.7.7.80.10.50.1000.111.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  111  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)
33708838--33708895	22	2.6	22	81	7	64	41	17	5	36	1.72
33708874--33708927	19	2.8	19	88	0	90	37	14	9	38	1.79
33709157--33709184	2	14.0	2	100	0	56	50	0	0	50	1.00
33710923--33711340	212	2.0	212	98	0	809	38	12	14	34	1.84
33711405--33711431	7	3.9	7	100	0	54	59	0	11	29	1.32
33712172--33712268	3	32.0	3	85	6	124	67	1	2	29	1.09
33713270--33713347	20	3.9	20	89	0	111	7	21	24	46	1.77
33719106--33719140	13	2.8	13	86	4	54	80	0	20	0	0.72
33721994--33722039	20	2.3	20	88	0	65	23	23	32	19	1.97
33722815--33722876	24	2.6	24	86	0	79	37	1	25	35	1.66
33731527--33731639	32	3.7	31	70	17	94	50	3	3	42	1.36
33731529--33731656	57	2.2	58	90	4	197	50	3	3	42	1.36
33735895--33736101	40	5.2	40	80	0	234	22	28	17	31	1.96
33742759--33742846	40	2.2	40	87	0	122	23	23	19	32	1.97
33747023--33747054	6	5.3	6	100	0	64	0	53	0	46	1.00
33748345--33748397	22	2.5	20	72	19	54	64	0	0	35	0.94
33751238--33751264	12	2.2	12	100	0	54	22	0	0	77	0.76
33753350--33753381	2	16.0	2	100	0	64	50	0	50	0	1.00
33755369--33755408	12	3.5	12	83	13	57	27	2	0	70	1.01
33757024--33757219	19	10.2	19	66	23	72	29	1	13	56	1.46
33757026--33757093	23	3.1	23	81	14	90	26	1	10	61	1.36
33757129--33757219	23	3.9	23	84	11	105	27	2	15	54	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33757258--33757343	25	3.4	23	73	20	66	34	0	9	55	1.32
33757405--33757485	37	2.2	38	93	2	137	51	2	2	43	1.28
33757519--33757560	16	2.7	15	85	7	57	38	2	2	57	1.25
33759354--33759420	27	2.4	27	92	2	116	37	0	8	53	1.32
33762392--33762471	21	3.6	22	88	5	101	2	28	2	66	1.18
33762523--33762588	27	2.4	27	80	5	80	21	36	22	19	1.95
33767009--33767056	19	2.7	18	76	20	55	52	4	2	41	1.32
33767519--33767559	10	4.3	10	90	3	59	39	0	2	58	1.11
33769154--33769178	9	2.8	9	100	0	50	12	40	36	12	1.79
33773305--33773342	20	2.0	19	85	10	51	71	5	23	0	1.07
33774186--33774223	3	12.7	3	83	10	51	28	2	2	65	1.19
33774240--33774286	16	2.8	16	78	12	51	31	4	4	59	1.36
33774416--33774441	11	2.4	11	100	0	52	92	7	0	0	0.39
33774476--33774517	16	2.7	16	85	3	59	35	0	4	59	1.19
33774476--33774517	14	3.1	13	78	21	50	35	0	4	59	1.19
33774562--33774614	21	2.5	21	81	6	54	32	1	9	56	1.42
33781198--33781227	15	2.0	15	93	0	51	73	10	6	10	1.25
33781857--33781912	21	2.8	21	80	20	66	46	10	0	42	1.38
33800678--33800723	23	2.0	23	95	0	83	36	0	0	63	0.95
33801518--33801555	19	2.0	19	100	0	76	26	31	10	31	1.90
33802069--33802111	15	2.7	15	79	10	50	65	0	0	34	0.93
33803583--33803688	54	2.0	54	80	0	122	38	16	5	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33807683--33807936	50	4.8	50	82	10	274	25	22	31	20	1.98
33807713--33807828	61	1.9	61	98	0	223	24	21	35	18	1.96
33807683--33807883	111	1.8	112	91	1	332	24	21	32	20	1.97
33811228--33811289	3	20.7	3	89	0	88	25	0	6	67	1.14
33811231--33811293	21	3.0	21	90	2	101	23	0	7	68	1.16
33813071--33813112	16	2.6	16	96	3	75	26	26	23	23	2.00
33817881--33817939	24	2.5	24	81	15	77	35	13	32	18	1.90
33820886--33821062	71	2.5	71	86	1	248	28	23	20	27	1.99
33829144--33829188	16	2.8	17	78	21	53	37	4	0	57	1.19
33831496--33831539	22	1.9	24	86	9	65	45	2	9	43	1.48
33831638--33831679	20	2.1	20	86	8	59	45	7	7	40	1.59
33831909--33831972	13	4.9	13	82	0	83	28	9	28	34	1.88
33841756--33841786	2	15.5	2	100	0	62	48	0	0	51	1.00
33845479--33845757	154	1.8	154	97	0	531	41	11	8	38	1.72
33846815--33846874	26	2.3	26	85	2	77	53	5	1	40	1.33
33846980--33847008	11	2.5	12	94	5	51	79	3	0	17	0.87
33848630--33849012	174	2.2	172	85	5	495	27	21	20	30	1.98
33848810--33848928	45	2.7	46	81	16	135	26	27	19	26	1.99
33848717--33849007	89	3.4	83	73	13	266	27	22	20	28	1.99
33848774--33849056	44	6.5	44	75	8	213	26	21	21	30	1.98
33849079--33849328	50	5.0	50	66	5	164	26	21	22	30	1.99
33849071--33849385	100	3.2	100	86	0	434	25	21	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33849576--33849737	88	1.8	88	93	0	279	27	26	18	27	1.98
33849598--33849741	44	3.3	44	72	3	146	29	24	18	27	1.98
33861659--33861723	24	2.5	26	74	18	64	70	7	6	15	1.30
33861943--33862047	30	3.6	29	76	14	115	60	3	0	34	1.21
33862014--33862059	26	2.0	24	80	20	53	60	6	0	32	1.22
33862124--33862152	11	2.5	12	94	5	51	79	3	0	17	0.87
33863323--33863362	17	2.5	15	81	14	53	5	17	35	42	1.71
33863587--33863620	17	2.0	17	88	11	52	32	17	2	47	1.63
33863791--33863834	2	22.0	2	100	0	88	50	0	0	50	1.00
33864824--33864940	43	2.7	43	78	2	119	30	26	20	22	1.98
33866528--33866571	22	1.9	24	86	9	65	43	2	13	40	1.57
33866671--33866712	20	2.1	20	90	0	66	50	4	7	38	1.51
33868700--33868744	23	2.0	23	82	4	56	28	11	11	48	1.73
33874560--33874607	23	2.1	23	96	3	89	45	0	0	54	0.99
33874561--33874606	22	2.1	21	92	8	74	47	0	0	52	1.00
33875094--33875124	9	3.4	9	90	0	53	25	12	22	38	1.90
33883344--33883380	15	2.5	15	84	16	51	37	8	2	51	1.46
33885401--33885491	37	2.4	37	80	12	96	41	3	4	50	1.38
33885486--33885598	58	1.9	59	83	1	147	46	3	2	46	1.33
33888004--33888300	50	5.8	50	80	5	258	23	26	22	27	1.99
33905887--33905965	13	6.1	13	85	5	97	29	7	29	34	1.85
33906434--33906465	15	2.1	15	100	0	64	18	12	18	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33916461--33916490	4	7.5	4	100	0	60	76	0	0	23	0.78
33916543--33916583	15	2.4	18	80	11	52	65	7	7	19	1.41
33916588--33916633	20	2.3	20	85	3	58	76	0	4	19	0.96
33916563--33916634	9	7.8	9	76	11	65	72	2	2	22	1.11
33922379--33922487	54	2.0	54	96	0	200	31	17	12	38	1.87
33924280--33924328	19	2.7	18	84	12	64	22	0	2	75	0.90
33927405--33927495	45	2.0	44	89	6	139	29	5	28	36	1.80
33927408--33927502	44	2.1	45	86	5	131	30	5	30	33	1.80
33927639--33927761	2	62.5	2	83	15	159	51	1	2	44	1.24
33929331--33930048	182	4.0	180	79	8	726	34	20	11	33	1.88
33930706--33930736	11	2.8	11	90	0	53	32	22	25	19	1.97
33938163--33938192	14	2.1	14	100	0	60	56	0	16	26	1.40
33938570--33938619	18	2.7	19	87	9	77	32	16	38	14	1.88
33939920--33940114	27	7.2	27	79	2	194	20	14	21	43	1.87
33939930--33940114	81	2.3	81	86	1	264	20	15	20	44	1.86
33943162--33943192	2	15.5	2	100	0	62	51	0	0	48	1.00
33947894--33947918	11	2.3	11	100	0	50	56	8	0	36	1.29
33948727--33948763	8	4.4	8	87	12	56	59	0	0	40	0.97
33948727--33948763	13	2.8	13	84	15	58	59	0	0	40	0.97
33950062--33950109	20	2.4	21	82	10	73	43	6	10	39	1.64
33950306--33950353	19	2.6	19	83	3	62	35	2	12	50	1.52
33954942--33954981	19	2.2	18	95	4	71	40	2	15	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33956354--33956401	19	2.5	20	86	6	64	50	4	8	37	1.52
33956364--33956402	20	2.0	20	95	5	71	51	2	5	41	1.38
33957210--33957256	24	2.0	24	84	16	62	34	0	14	51	1.43
33957393--33957524	40	3.4	39	74	7	133	26	17	22	33	1.96
33964458--33964522	33	2.0	33	100	0	130	35	15	6	43	1.72
33972433--33972481	19	2.6	20	81	18	61	36	2	0	61	1.08
33980570--33980629	30	2.0	31	86	3	86	26	21	6	45	1.77
33985836--33985953	50	2.4	50	85	2	148	27	22	27	22	1.99
33997299--33997844	27	20.2	27	86	1	619	43	22	17	17	1.88
34006617--34006658	15	2.8	15	82	7	50	11	0	33	54	1.37

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