genome.fa.s13.2.7.7.80.10.50.1000.190.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  190  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)
55469839--55469914	36	2.1	36	85	5	98	27	18	15	38	1.91
55470156--55470189	16	2.1	17	94	5	61	79	2	0	17	0.86
55474585--55474706	51	2.4	51	84	0	145	18	24	15	40	1.90
55477373--55477564	69	2.8	69	80	4	199	41	8	16	32	1.79
55477815--55477921	55	2.0	55	90	5	173	31	11	14	42	1.80
55492271--55492305	17	2.1	17	94	0	61	77	5	14	2	1.07
55493000--55493055	3	18.7	3	100	0	112	33	0	0	66	0.92
55493367--55493451	21	4.0	22	81	7	95	16	23	25	34	1.95
55503923--55503969	13	3.6	13	94	0	85	40	25	8	25	1.84
55504045--55504135	47	1.9	47	93	0	155	32	6	15	45	1.72
55510649--55510833	68	2.7	69	77	3	203	44	8	12	34	1.73
55513422--55513543	47	2.6	47	89	0	181	33	4	12	49	1.62
55515941--55516150	69	3.0	68	82	2	258	41	13	15	29	1.85
55515941--55516185	69	3.6	69	78	5	244	42	13	14	29	1.84
55515939--55516196	138	1.9	138	86	3	367	41	13	15	29	1.85
55517918--55517951	17	1.9	18	88	5	52	79	8	8	2	1.03
55522023--55522070	9	4.8	10	78	17	55	66	2	2	29	1.14
55522023--55522073	20	2.5	22	76	20	58	66	1	1	29	1.13
55527531--55527629	44	2.3	44	78	1	119	41	9	2	47	1.47
55537403--55537437	18	1.9	18	88	0	52	40	5	0	54	1.24
55551212--55551236	2	12.5	2	100	0	50	52	0	0	48	1.00
55551849--55551915	34	1.9	35	87	3	100	31	8	11	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55551864--55551903	20	2.0	20	95	0	71	27	10	10	52	1.66
55552943--55553006	23	2.8	22	76	6	65	43	6	4	45	1.50
55553521--55553562	2	21.0	2	95	0	75	47	0	2	50	1.14
55559708--55559736	10	3.0	10	95	5	51	62	17	20	0	1.33
55560355--55560398	18	2.2	20	84	11	56	63	2	6	27	1.31
55564630--55564752	25	5.0	25	76	5	81	24	20	20	34	1.96
55567617--55567892	45	6.4	45	79	11	306	40	19	18	21	1.91
55567669--55567753	35	2.3	36	84	8	109	35	18	22	23	1.96
55567618--55567846	125	1.8	125	89	0	359	40	19	18	21	1.92
55572667--55572732	33	1.9	36	85	11	95	45	4	0	50	1.22
55574461--55574543	38	2.3	38	85	6	109	38	3	4	53	1.40
55580649--55580693	24	2.0	22	82	8	54	51	4	0	44	1.21
55597573--55597616	20	2.2	19	84	15	54	18	2	18	61	1.45
55600643--55600783	40	3.6	40	73	10	119	26	17	23	32	1.97
55608806--55608867	27	2.3	27	97	0	115	29	22	33	14	1.94
55609509--55609652	49	3.0	49	82	8	188	32	1	13	52	1.49
55609509--55609599	27	3.6	27	82	14	138	35	1	12	51	1.46
55609695--55609732	19	2.0	19	89	0	58	36	5	7	50	1.54
55617015--55617049	9	3.9	9	100	0	70	31	0	45	22	1.53
55628008--55628061	27	2.0	27	100	0	108	40	22	7	29	1.81
55628010--55628068	27	2.2	27	93	0	100	42	20	8	28	1.81
55636368--55636408	18	2.2	19	86	4	57	73	2	21	2	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55641889--55641984	49	2.0	48	81	4	113	48	2	10	38	1.49
55644185--55644209	12	2.1	12	100	0	50	52	8	0	40	1.31
55651609--55651645	17	2.1	18	85	14	51	35	0	0	64	0.94
55651691--55651755	31	2.1	32	82	8	80	33	4	1	60	1.27
55658787--55658828	12	3.6	11	87	6	57	78	0	4	16	0.91
55666592--55666634	17	2.6	17	85	10	54	74	4	0	20	1.00
55666823--55666884	3	20.7	3	76	0	52	59	1	8	30	1.36
55668605--55669111	100	5.1	100	91	2	763	24	21	23	29	1.99
55669121--55669258	45	3.1	45	78	2	170	23	25	22	28	1.99
55669116--55669251	44	3.0	45	78	2	166	23	24	25	27	2.00
55675218--55675259	21	2.0	21	86	9	59	47	4	14	33	1.65
55675527--55675565	3	13.0	3	100	0	78	66	0	0	33	0.92
55677500--55677696	44	4.5	44	69	12	136	26	23	18	30	1.98
55677493--55677954	122	3.6	125	86	5	597	26	23	19	30	1.98
55688932--55688979	23	2.1	23	96	0	87	41	25	12	20	1.87
55689186--55689216	15	2.1	15	93	0	53	64	6	9	19	1.45
55689468--55689497	3	10.0	3	100	0	60	66	0	0	33	0.92
55692501--55692634	64	2.1	64	91	0	214	29	11	17	41	1.84
55693604--55693657	5	10.8	5	84	11	67	81	1	3	12	0.91
55693610--55693659	25	2.0	26	88	11	77	80	2	6	12	0.98
55694391--55694471	40	2.0	40	100	0	162	45	12	12	29	1.78
55696397--55696449	26	2.0	26	85	0	70	56	16	5	20	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55710244--55710303	13	4.5	13	78	12	59	15	8	5	71	1.27
55714476--55714666	36	5.0	36	83	12	229	36	12	20	29	1.90
55714440--55714630	82	2.3	82	93	0	328	36	11	21	29	1.89
55714586--55714651	21	3.5	20	63	25	52	34	12	19	33	1.89
55714483--55714704	118	1.9	118	95	0	399	36	13	20	29	1.91
55716007--55716199	49	3.9	49	93	0	305	24	15	29	31	1.95
55718644--55718671	3	9.3	3	100	0	56	67	0	0	32	0.91
55719290--55719709	44	9.4	44	70	13	180	27	19	20	32	1.97
55719222--55719723	226	2.2	226	84	1	673	27	19	20	32	1.97
55719548--55719803	44	5.7	45	77	6	209	28	19	19	32	1.97
55719639--55719808	91	1.9	90	83	3	225	26	19	20	33	1.96
55719893--55720098	44	4.6	45	82	3	238	28	22	21	28	1.99
55719893--55720099	90	2.3	88	82	3	236	28	22	21	28	1.99
55719893--55720143	44	5.7	45	79	6	212	26	22	21	29	1.99
55719893--55720143	90	2.8	87	76	10	224	26	22	21	29	1.99
55720129--55720197	36	1.9	36	85	5	95	30	21	17	30	1.96
55720180--55720409	123	1.9	122	85	4	320	28	24	15	30	1.96
55720439--55720731	88	3.3	88	88	0	408	30	25	17	25	1.97
55723014--55723113	47	2.1	47	79	3	112	24	17	28	31	1.97
55723043--55723159	49	2.4	47	83	8	130	24	13	28	33	1.93
55726286--55726420	44	3.1	43	62	6	101	25	23	20	30	1.99
55726281--55726620	88	3.9	88	93	1	547	27	22	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55726934--55726991	24	2.4	24	88	0	80	29	27	12	31	1.92
55738544--55738573	4	7.5	4	92	0	51	23	3	0	73	0.98
55738641--55738706	15	4.5	14	72	10	51	21	3	3	72	1.11
55741458--55741532	23	2.9	26	73	17	75	69	4	2	24	1.19
55741466--55741522	23	2.4	23	88	2	78	68	1	1	28	1.09
55741551--55741668	25	4.8	24	76	6	94	58	2	5	33	1.33
55743892--55743929	17	2.3	17	86	4	51	52	2	13	31	1.54
55744049--55744076	13	2.2	13	100	0	56	46	0	32	21	1.52
55744052--55744085	13	2.5	13	90	4	50	52	0	20	26	1.46
55744190--55744214	11	2.3	11	100	0	50	8	0	8	84	0.79
55746035--55746204	44	3.9	44	83	0	223	27	21	21	29	1.99
55747487--55747539	27	2.0	26	92	3	88	13	22	33	30	1.92
55747409--55747780	105	3.6	104	92	1	577	18	20	30	29	1.97
55752835--55752910	3	25.0	3	76	12	66	34	3	2	59	1.30
55753067--55753152	33	2.5	34	81	7	102	37	9	2	51	1.47
55757777--55757820	22	2.0	22	86	8	63	52	0	2	45	1.13
55759768--55759812	20	2.2	21	84	11	58	55	4	13	26	1.57
55760043--55760073	16	2.0	15	93	6	53	64	0	6	29	1.18
55760008--55760071	30	2.1	30	82	5	76	59	1	4	34	1.28
55760421--55760465	3	15.0	3	80	0	54	62	4	0	33	1.15
55760425--55760474	24	2.1	24	88	0	73	56	4	0	40	1.18
55760422--55760488	27	2.5	27	85	0	80	56	2	0	40	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55760923--55760973	2	25.5	2	100	0	102	0	50	0	49	1.00
55762200--55762318	63	1.9	63	92	0	202	42	17	10	29	1.84
55762633--55762670	3	12.7	3	100	0	76	65	0	0	34	0.93
55762671--55762704	3	11.3	3	100	0	68	32	0	0	67	0.91
55763981--55764027	21	2.2	22	85	11	62	25	2	25	46	1.64
55765789--55765818	14	2.1	14	100	0	60	23	23	40	13	1.90
55768361--55768408	13	3.6	13	80	8	53	56	0	2	41	1.11
55770828--55770867	13	2.9	14	81	11	55	70	0	0	30	0.88
55772946--55772971	9	2.9	9	100	0	52	65	0	11	23	1.25
55775812--55775849	13	2.9	13	88	7	51	2	15	0	81	0.80

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