genome.fa.s13.2.7.7.80.10.50.1000.102.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  102  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)
31037793--31037975	51	3.6	50	79	10	169	23	18	27	30	1.98
31043344--31043377	12	2.9	12	95	4	61	26	17	0	55	1.42
31043347--31043387	15	3.1	13	89	10	57	24	17	0	58	1.38
31045325--31045389	27	2.4	27	76	0	67	26	23	10	40	1.87
31045473--31045526	27	2.0	27	85	10	74	35	22	12	29	1.91
31046024--31046061	18	2.1	18	90	0	58	10	13	0	76	1.02
31046035--31046069	18	1.9	18	88	0	52	5	20	0	74	1.02
31046778--31046891	3	38.7	3	73	13	76	32	6	2	58	1.36
31046756--31046808	24	2.2	24	86	0	70	33	1	5	58	1.32
31046760--31046817	21	2.6	23	82	15	68	36	1	5	56	1.32
31050746--31050792	15	3.2	14	80	14	51	87	8	0	4	0.67
31050749--31050778	8	3.6	8	95	4	51	86	10	0	3	0.67
31050760--31050838	20	3.5	23	75	21	60	79	6	10	3	1.03
31051669--31051697	8	3.6	8	100	0	58	79	0	10	10	0.94
31051668--31051704	16	2.3	16	85	0	56	78	0	10	10	0.97
31052838--31053643	88	9.2	88	91	1	1065	27	21	24	25	1.99
31053506--31053645	44	3.2	44	65	13	126	30	22	21	25	1.99
31053615--31053734	55	2.2	56	93	1	215	32	16	26	24	1.96
31053528--31053822	142	2.1	142	90	1	466	31	18	24	25	1.98
31053868--31055212	50	27.1	50	77	5	1106	32	20	19	26	1.97
31053868--31055197	100	13.4	100	88	2	1810	32	20	19	26	1.97
31055913--31055950	18	2.1	18	90	0	58	10	13	0	76	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31055924--31055958	18	1.9	18	88	0	52	5	20	0	74	1.02
31056670--31056783	3	38.7	3	73	13	76	32	6	2	58	1.36
31056648--31056700	24	2.2	24	86	0	70	33	1	5	58	1.32
31056652--31056709	21	2.6	23	82	15	68	36	1	5	56	1.32
31057123--31057156	2	17.0	2	100	0	68	50	0	0	50	1.00
31060497--31060560	30	2.1	30	82	5	76	34	20	18	26	1.96
31060509--31060671	30	4.9	35	66	23	93	33	16	22	28	1.95
31060509--31060684	66	2.7	66	80	3	212	34	15	22	27	1.95
31089697--31089793	27	3.6	27	91	0	158	38	20	19	21	1.94
31089697--31090034	54	6.1	55	81	8	355	41	21	17	20	1.90
31089797--31090035	27	8.9	27	83	1	282	42	21	16	19	1.89
31090968--31091022	28	2.0	28	92	7	94	25	23	25	25	2.00
31091119--31091189	26	2.7	26	84	0	88	40	23	21	14	1.89
31091358--31091617	27	9.7	25	75	13	117	22	18	20	38	1.93
31091369--31091617	54	4.6	53	83	5	268	21	19	20	38	1.93
31091453--31091597	53	2.7	54	91	2	229	24	22	15	38	1.92
31091396--31091597	80	2.5	80	85	2	262	23	20	17	38	1.93
31093584--31093670	43	2.0	43	95	0	156	20	42	20	16	1.89
31097795--31097850	28	2.0	28	89	6	87	26	17	25	30	1.97
31097966--31098036	26	2.7	26	80	0	79	39	19	19	21	1.93
31098213--31098548	27	12.5	27	86	3	340	22	19	16	40	1.91
31098240--31098548	81	3.8	79	83	3	386	22	20	16	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31111744--31111786	20	2.2	19	87	4	59	76	9	2	11	1.10
31120121--31120197	25	2.9	27	83	9	88	28	22	19	29	1.98
31123266--31123308	22	2.0	22	100	0	86	39	4	13	41	1.66
31138934--31139066	39	3.4	39	82	0	167	13	28	20	37	1.90
31144369--31144485	54	2.2	54	85	0	171	24	21	33	20	1.97
31149990--31150082	44	2.1	44	86	6	125	33	3	27	35	1.73
31157298--31157390	41	2.3	41	90	0	141	40	24	16	18	1.90
31162479--31162527	7	6.8	8	80	17	54	24	0	0	75	0.80
31162479--31162520	14	3.1	14	83	16	61	21	0	0	78	0.75
31162479--31162520	21	2.0	21	90	9	68	21	0	0	78	0.75
31163032--31163071	13	3.1	13	86	10	55	35	7	7	50	1.59
31165875--31166969	220	5.0	220	97	1	2056	28	16	18	36	1.93
31185396--31185492	28	3.4	28	81	8	115	29	21	23	24	1.99
31185597--31185673	26	3.0	26	82	0	91	38	22	20	18	1.93
31185848--31186293	27	16.7	26	75	15	235	19	20	17	42	1.90
31185848--31186289	54	8.2	54	80	4	457	19	20	17	42	1.90
31185836--31186289	81	5.6	81	81	5	460	20	20	18	41	1.90
31189597--31189639	13	3.3	13	81	18	54	51	18	13	16	1.77
31190163--31190197	17	2.0	17	88	5	52	14	45	28	11	1.79
31192590--31192630	18	2.3	18	91	0	64	9	12	4	73	1.24
31193864--31193926	28	2.3	28	91	2	101	34	12	3	49	1.57
31202036--31202069	17	1.9	18	94	5	61	52	0	5	41	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31206097--31206169	13	5.7	13	86	1	85	30	9	23	36	1.87
31209453--31209510	25	2.3	26	82	11	68	48	5	1	44	1.35
31211772--31211814	18	2.6	16	77	7	50	25	18	4	51	1.66
31214501--31214551	14	3.4	14	80	15	57	49	1	1	47	1.24
31214480--31214558	16	5.0	16	72	20	60	48	1	1	49	1.17
31215138--31215182	22	2.2	20	92	8	72	37	4	4	53	1.41
31216683--31216811	60	2.2	60	82	0	159	32	20	10	36	1.86
31222256--31222288	15	2.1	16	88	5	50	24	15	0	60	1.35
31224014--31224130	62	1.9	62	82	5	150	50	3	4	41	1.38
31225514--31225698	51	3.6	51	78	3	169	24	16	28	30	1.97
31225702--31225796	45	2.1	45	90	0	145	29	17	21	31	1.96
31226910--31226943	13	2.6	13	95	0	59	8	14	35	41	1.77
31229400--31229445	7	6.0	7	81	18	56	54	4	2	39	1.32
31229392--31229428	15	2.5	15	90	0	56	54	0	0	45	1.00
31229400--31229470	31	2.2	32	80	2	81	53	4	1	40	1.29
31230901--31231014	60	1.9	60	87	0	165	18	14	28	38	1.90
31230923--31231014	22	4.5	22	72	15	79	18	15	30	35	1.92
31232851--31232891	19	2.1	20	86	4	57	31	9	2	56	1.45
31233305--31233365	26	2.7	21	68	22	50	4	21	3	70	1.21
31233388--31233462	37	2.3	34	80	17	79	41	4	2	52	1.34
31237049--31237094	20	2.2	20	80	3	56	41	17	0	41	1.49
31238257--31238297	19	2.1	19	86	4	55	31	9	0	58	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31238701--31238750	17	2.7	19	82	11	61	0	28	0	72	0.86
31240842--31240903	26	2.3	26	86	2	79	61	4	12	20	1.50
31240857--31240910	26	2.1	26	96	0	99	55	3	12	27	1.54
31242053--31242157	8	11.7	9	69	17	58	55	4	0	40	1.21
31248626--31248663	20	2.0	20	89	5	60	57	7	2	31	1.41
31249292--31249340	2	24.5	2	95	0	89	51	0	0	48	1.00
31252179--31252290	40	2.8	40	77	5	120	37	22	20	19	1.94
31252350--31252509	41	3.9	41	90	0	230	24	23	23	28	1.99
31254459--31254724	133	2.0	134	89	5	414	38	13	13	34	1.84
31254736--31254782	22	2.1	22	84	0	58	23	51	0	25	1.49
31257458--31257749	43	6.8	43	82	6	281	22	18	29	28	1.98
31257458--31257749	129	2.3	127	81	7	320	22	18	29	28	1.98
31261979--31262308	42	7.8	42	91	3	529	21	21	21	35	1.96
31262627--31262678	21	2.5	21	87	6	70	3	44	21	30	1.70
31266897--31267121	9	26.0	9	74	12	186	30	3	19	46	1.66
31266899--31266971	16	4.4	17	80	13	73	30	4	16	49	1.64
31266897--31267121	25	8.7	26	74	13	164	30	3	19	46	1.66
31267230--31267365	53	2.6	53	89	4	220	44	3	11	40	1.59
31267295--31267384	13	6.8	13	76	12	85	45	2	10	42	1.50
31267692--31267846	13	11.8	13	71	10	91	43	4	10	40	1.60
31267692--31267827	53	2.6	53	90	0	218	44	4	11	39	1.61
31267105--31268019	462	2.0	462	97	0	1724	44	5	10	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31268000--31268083	44	1.9	44	88	9	127	47	2	4	45	1.36
31268421--31268476	7	7.9	7	82	11	69	71	12	12	3	1.27
31268421--31268476	21	2.6	21	83	13	78	71	12	12	3	1.27
31268760--31269360	303	2.0	305	90	2	956	40	11	13	35	1.80
31270294--31270385	47	2.0	47	84	0	121	46	3	7	42	1.48
31270374--31270415	13	3.3	12	84	15	50	14	2	2	80	0.90
31270705--31270773	7	9.9	7	78	6	68	31	47	1	18	1.58
31270708--31270769	21	3.0	21	83	9	81	32	46	1	19	1.59
31270873--31270905	7	5.0	7	85	14	52	30	54	0	15	1.41
31270873--31270897	12	2.1	12	100	0	50	32	52	0	16	1.44

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