genome.fa.s13.2.7.7.80.10.50.1000.174.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  174  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)
50641069--50641101	15	2.2	15	89	10	50	3	0	12	84	0.72
50645810--50645857	12	4.0	12	78	7	53	64	8	4	22	1.38
50646002--50646030	3	9.7	3	100	0	58	34	0	31	34	1.58
50646350--50646384	15	2.4	15	90	4	54	48	0	8	42	1.33
50650313--50650393	5	16.4	5	79	14	80	22	2	0	75	0.92
50650313--50650408	24	4.1	25	75	15	98	22	3	0	73	0.97
50650314--50650408	35	2.7	37	80	15	114	23	3	0	73	0.97
50651712--50651763	15	3.4	15	81	2	50	76	3	5	13	1.10
50651712--50651758	16	3.0	16	84	3	51	78	4	6	10	1.06
50652316--50652350	15	2.4	15	90	4	54	48	0	8	42	1.33
50654881--50654913	2	17.0	2	93	6	59	51	0	0	48	1.00
50658980--50659101	58	2.1	58	96	1	228	28	7	10	53	1.62
50660047--50660089	20	2.3	18	80	8	50	37	2	0	60	1.10
50660657--50660814	76	2.1	74	86	9	212	32	18	8	40	1.81
50660879--50660936	18	3.2	18	82	4	73	53	0	1	44	1.10
50660916--50661014	29	3.4	29	79	8	85	62	1	4	32	1.20
50660916--50660996	19	4.2	19	71	12	67	60	0	4	34	1.18
50660988--50661027	19	2.1	19	90	4	62	67	7	0	25	1.16
50660924--50661014	10	9.3	10	72	4	69	63	1	4	30	1.21
50661247--50661316	30	2.4	30	88	7	99	31	4	2	61	1.30
50665359--50665625	43	6.2	43	90	2	349	27	32	18	20	1.96
50665939--50666001	24	2.6	24	89	2	99	60	17	11	11	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50668162--50668333	68	2.5	68	98	0	326	45	19	12	22	1.83
50669608--50669633	5	5.2	5	100	0	52	42	19	19	19	1.90
50670394--50670453	30	2.0	30	83	3	75	41	0	38	20	1.52
50670668--50670704	9	4.1	9	85	0	56	29	13	13	43	1.82
50670758--50670788	9	3.4	9	90	0	53	38	22	12	25	1.90
50672680--50672720	21	1.9	22	85	5	57	41	48	0	9	1.36
50672759--50672825	33	2.1	32	85	2	89	35	38	2	22	1.70
50672942--50672971	14	2.1	14	93	0	51	46	26	0	26	1.53
50676403--50676680	41	6.8	41	87	2	364	31	25	23	20	1.98
50676403--50676685	82	3.5	82	91	1	426	31	25	22	20	1.98
50676749--50676855	40	2.7	41	82	4	139	21	18	21	38	1.94
50676862--50676887	12	2.2	12	100	0	52	46	30	15	7	1.74
50677533--50677719	86	2.2	86	83	0	230	30	27	16	25	1.96
50677513--50677719	43	4.8	42	80	5	173	28	28	16	26	1.97
50678025--50678117	21	4.4	21	81	0	105	7	45	15	32	1.74
50678128--50678278	66	2.3	65	85	7	198	15	25	17	41	1.89
50683768--50684127	9	42.8	9	70	16	238	30	2	20	46	1.64
50683774--50684127	25	14.0	25	75	12	143	30	2	20	46	1.64
50683790--50684121	16	20.8	16	72	17	155	30	2	20	46	1.62
50683768--50684102	143	2.4	140	92	3	546	30	2	20	46	1.64
50683773--50684153	34	11.3	34	70	17	155	30	2	19	46	1.62
50683790--50684153	59	6.2	59	73	17	147	31	2	19	46	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50684541--50684631	13	6.9	13	70	27	68	42	1	9	46	1.44
50684572--50684634	24	2.3	29	74	20	73	44	0	11	44	1.39
50684524--50684631	39	2.7	40	88	4	157	41	1	11	45	1.50
50687856--50687885	2	15.5	2	93	6	53	46	0	0	53	1.00
50688285--50688398	7	15.4	7	73	12	68	32	45	0	21	1.58
50688286--50688388	15	6.9	15	80	8	111	32	44	0	22	1.59
50688286--50688396	22	5.0	22	78	7	116	32	45	0	21	1.58
50688288--50688398	45	2.5	45	82	5	145	32	45	0	21	1.58
50688339--50688413	29	2.6	29	85	4	89	32	44	0	24	1.54
50689403--50689614	41	5.1	41	71	10	130	33	27	18	21	1.96
50689416--50689598	82	2.2	81	80	10	210	35	25	16	22	1.95
50694207--50694265	31	1.9	31	82	6	75	45	1	16	35	1.58
50694915--50694955	22	2.0	20	90	9	64	0	36	0	63	0.95
50700048--50700077	2	15.0	2	100	0	60	50	0	0	50	1.00
50700702--50700803	24	4.2	25	75	9	84	17	25	21	35	1.95
50703380--50703419	20	2.1	19	90	4	62	17	10	2	70	1.27
50708287--50708373	39	2.2	41	87	4	124	28	29	20	20	1.98
50716244--50716273	2	15.0	2	100	0	60	50	0	0	50	1.00
50716494--50716638	41	3.5	41	94	0	236	27	20	28	23	1.99
50719250--50719274	8	3.1	8	100	0	50	76	0	0	24	0.80
50720619--50720649	15	2.1	15	100	0	62	38	6	32	22	1.80
50724886--50724916	15	2.1	15	100	0	62	38	6	32	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50730353--50730424	30	2.4	29	77	9	81	48	9	2	38	1.51
50732275--50732335	22	2.7	22	87	2	77	49	1	1	47	1.21
50732311--50732350	16	2.5	16	91	0	62	47	2	7	42	1.45
50732368--50732537	59	2.9	59	97	0	313	41	4	9	44	1.57
50732604--50732647	24	1.9	24	90	9	74	61	2	0	36	1.09
50735340--50735373	17	2.0	17	100	0	68	47	0	11	41	1.40
50736813--50736881	20	3.7	19	70	12	54	68	2	2	26	1.18
50736736--50736884	73	2.0	73	79	7	160	62	2	2	32	1.23
50736892--50736917	10	2.6	10	100	0	52	53	0	0	46	1.00
50737150--50737190	20	2.0	20	86	9	57	26	2	7	63	1.33
50737172--50737242	37	1.9	37	82	5	90	32	5	1	60	1.29
50737300--50737501	89	2.2	94	83	9	265	33	8	18	40	1.81
50738266--50738326	31	1.9	32	86	3	88	31	14	14	39	1.87
50738596--50738675	2	40.0	2	100	0	160	50	0	0	50	1.00
50738803--50738851	24	2.0	24	84	0	62	14	0	46	38	1.44
50739988--50740030	6	7.0	6	80	15	52	0	20	0	79	0.74
50739999--50740064	4	18.0	4	75	17	63	0	25	0	74	0.82
50740000--50740061	17	3.7	16	76	16	63	0	25	0	74	0.82
50739993--50740064	25	2.8	25	93	6	119	0	25	0	75	0.81
50739993--50740062	36	2.0	35	86	8	97	0	24	0	75	0.80
50740004--50740047	14	3.4	14	71	28	51	0	25	0	75	0.81
50739993--50740056	11	5.6	11	75	12	58	0	25	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50740002--50740070	22	3.0	22	83	10	59	1	27	0	71	0.95
50740819--50740896	30	2.5	30	83	8	95	46	7	16	29	1.75
50741206--50741823	151	4.1	150	84	3	758	34	19	17	28	1.94
50741206--50741823	75	8.2	74	84	3	727	34	19	17	28	1.94
50747164--50747212	20	2.3	20	86	6	62	46	16	2	34	1.58
50750050--50750246	98	2.0	98	86	6	270	19	19	27	33	1.96
50750505--50750557	23	2.3	23	93	3	88	45	1	20	32	1.62
50750515--50750565	23	2.2	23	89	0	75	45	3	19	31	1.69
50751533--50751571	18	2.2	18	85	0	51	64	5	5	25	1.35
50754908--50754964	22	2.5	24	77	13	66	40	3	3	52	1.35
50757685--50757726	21	2.0	21	95	0	75	30	23	4	40	1.75
50763182--50763590	46	9.6	45	84	11	453	34	14	21	29	1.93
50763218--50763408	36	5.0	36	81	12	229	37	13	19	29	1.90
50763182--50763571	82	4.6	86	84	10	438	34	14	20	30	1.93
50763216--50763571	118	2.8	120	85	8	446	34	15	20	30	1.93
50765037--50765085	20	2.5	18	84	15	62	24	28	0	46	1.53
50768193--50768219	11	2.5	11	100	0	54	62	18	7	11	1.50
50777654--50777699	22	2.1	22	100	0	92	36	30	6	26	1.82
50782615--50782753	59	2.4	59	93	3	239	36	13	10	39	1.79
50782622--50782754	19	6.8	19	88	4	203	36	14	10	39	1.80
50782958--50783152	44	4.4	44	69	10	112	31	24	15	27	1.96
50782983--50783654	132	5.1	132	92	1	1082	30	23	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50783221--50783545	44	7.4	44	65	14	152	28	24	17	29	1.97
50782983--50783654	262	2.6	263	91	1	1082	30	23	18	27	1.98
50783667--50783953	44	6.7	44	71	13	211	27	22	21	28	1.99
50782958--50783782	262	3.1	262	83	5	945	29	24	18	27	1.98
50786596--50786643	26	2.0	25	88	12	73	60	6	10	22	1.52
50791271--50791383	19	5.8	19	86	4	163	37	14	9	38	1.79
50791271--50791382	59	1.9	59	94	0	197	37	13	9	39	1.78
50795232--50795269	19	2.0	19	100	0	76	21	15	21	42	1.89
50796250--50796306	2	28.5	2	100	0	114	49	0	0	50	1.00
50796421--50796495	2	39.0	2	75	17	61	50	0	6	42	1.28

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