genome.fa.s17.2.7.7.80.10.50.1000.44.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  44  of  173  ( 20651 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)
11988988--11989081	41	2.3	41	83	3	127	20	25	24	29	1.99
11989052--11989359	41	7.5	41	82	6	336	33	21	24	21	1.97
11989052--11989358	124	2.5	122	82	6	350	32	21	24	21	1.98
11989473--11989563	41	2.2	41	80	7	105	15	24	24	36	1.94
11989555--11989579	12	2.1	12	100	0	50	32	36	24	8	1.84
11997916--11997991	31	2.4	32	87	8	104	32	2	0	64	1.07
11999791--11999965	58	3.0	59	89	3	255	33	6	9	50	1.60
12002232--12002279	22	2.2	22	100	0	96	29	31	0	39	1.57
12003455--12003479	7	3.6	7	100	0	50	28	0	12	60	1.32
12004597--12004717	25	5.0	25	73	15	110	42	0	13	44	1.43
12004576--12004743	71	2.4	67	86	8	239	39	0	13	47	1.43
12004764--12005443	23	28.0	23	81	10	616	50	21	4	23	1.66
12004774--12005443	51	13.8	46	83	8	712	50	21	4	23	1.66
12005356--12005466	23	4.9	20	83	10	71	50	26	1	21	1.59
12004773--12005443	74	9.2	69	81	8	678	50	21	4	23	1.66
12005440--12005471	16	1.9	17	93	6	57	43	37	0	18	1.51
12005485--12005700	115	1.9	115	88	6	330	40	10	6	42	1.67
12008617--12008980	123	2.9	124	89	1	568	33	20	15	30	1.93
12014022--12014078	22	2.8	20	73	21	57	50	1	5	42	1.35
12014099--12014139	20	2.0	20	85	0	55	46	0	0	53	1.00
12014251--12014287	13	2.6	15	87	12	60	62	0	10	27	1.28
12014732--12014800	4	17.2	4	100	0	138	24	0	24	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12016689--12016719	16	1.9	16	93	0	53	22	0	35	41	1.54
12017330--12017368	21	1.9	20	89	5	60	25	7	2	64	1.33
12017787--12017876	33	2.6	35	77	15	89	55	0	0	44	0.99
12018722--12018762	4	10.2	4	100	0	82	24	24	0	51	1.49
12020991--12021042	19	2.7	19	96	0	95	46	3	19	30	1.68
12027068--12027116	18	3.1	15	78	18	55	26	4	2	67	1.19
12032177--12032402	42	5.4	42	86	3	289	27	22	19	30	1.98
12032917--12032951	2	17.5	2	100	0	70	51	48	0	0	1.00
12034339--12034427	25	3.6	24	82	7	99	16	28	17	37	1.92
12053725--12053854	22	5.9	22	82	8	133	15	14	21	48	1.80
12053773--12053899	68	1.9	67	84	9	170	15	14	22	48	1.81
12053846--12053895	22	2.3	22	86	13	68	20	18	16	46	1.85
12053859--12053919	20	2.9	21	82	4	70	16	18	22	42	1.89
12053751--12053920	88	1.9	86	81	9	200	15	15	22	46	1.83
12056067--12056538	64	7.2	63	68	14	224	34	14	15	35	1.88
12056067--12056807	131	5.7	131	86	3	877	34	14	15	34	1.88
12062765--12062797	15	2.2	15	94	0	57	24	30	27	18	1.98
12065511--12065544	17	1.9	18	88	5	52	47	11	8	32	1.71
12071791--12071824	5	6.6	5	96	3	59	76	0	0	23	0.79
12076985--12077033	20	2.4	20	93	3	80	38	16	0	44	1.48
12078808--12078925	58	2.0	58	91	0	191	60	9	9	21	1.55
12081986--12082010	12	2.1	12	100	0	50	84	0	16	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12082036--12082060	13	1.9	13	100	0	50	80	0	4	16	0.87
12088147--12088193	23	2.0	23	87	0	67	40	6	10	42	1.65
12089201--12089310	22	4.6	25	75	15	108	19	25	18	37	1.94
12089201--12089277	25	3.2	25	85	5	88	19	25	18	36	1.94
12092278--12092310	18	1.9	18	88	11	52	75	18	6	0	1.00
12094754--12094808	26	2.1	26	100	0	110	29	7	23	40	1.81
12095590--12095636	23	2.0	23	91	0	76	42	4	10	42	1.59
12095727--12095791	26	2.4	27	82	14	80	66	3	29	1	1.16
12098337--12098371	16	2.2	16	89	0	52	17	17	22	42	1.88
12100954--12101004	6	8.2	6	81	16	59	66	0	19	13	1.24
12102243--12102268	7	3.7	7	100	0	52	11	0	0	88	0.52
12103174--12104031	45	19.1	45	84	0	1045	29	16	23	30	1.96
12104115--12104294	44	4.1	44	68	8	114	28	18	26	26	1.98
12104039--12104442	132	3.1	132	89	1	587	30	19	23	26	1.98
12104539--12104696	44	3.6	43	77	7	147	25	17	25	31	1.97
12105077--12105130	19	2.8	19	94	0	90	38	9	16	35	1.81
12105077--12105153	19	3.7	22	84	6	67	38	7	16	36	1.78
12106424--12106560	25	5.7	24	82	10	149	18	24	18	37	1.94
12107501--12107588	26	3.4	26	75	4	88	27	21	15	35	1.94
12107596--12107795	28	7.1	27	70	5	96	30	17	19	32	1.95
12110853--12110924	28	2.6	28	90	0	108	29	27	13	29	1.95
12125676--12126018	95	3.7	94	74	15	235	29	15	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12125676--12126049	190	2.0	187	80	5	416	29	15	17	37	1.91
12129069--12129099	13	2.4	13	94	0	53	0	25	0	74	0.82
12130481--12130508	2	14.0	2	100	0	56	50	0	50	0	1.00
12131411--12131437	2	13.5	2	100	0	54	0	48	0	51	1.00
12135966--12136034	27	2.6	27	86	4	95	26	18	26	28	1.98
12138836--12138884	20	2.3	22	75	17	57	42	26	14	16	1.86
12138844--12138884	20	2.0	20	90	0	64	41	26	17	14	1.88
12143730--12143777	6	8.0	6	83	0	60	16	35	4	43	1.67
12145884--12145917	17	2.0	17	94	0	59	47	0	26	26	1.53
12150658--12150770	9	11.6	10	67	20	53	61	0	6	31	1.20
12150658--12150770	10	11.7	9	71	17	52	61	0	6	31	1.20
12150985--12151083	28	3.5	28	76	13	80	33	4	0	62	1.14
12151020--12151083	28	2.2	28	86	8	85	35	1	0	62	1.05
12165529--12165618	45	2.0	45	93	0	153	31	21	23	24	1.98
12187413--12187446	16	2.1	16	94	0	59	20	29	5	44	1.75
12189796--12189865	30	2.4	28	83	7	77	41	11	5	41	1.65
12196319--12196365	19	2.5	19	82	0	58	63	0	0	36	0.94
12216591--12217341	44	16.9	44	73	8	439	28	20	18	32	1.96
12216498--12217210	226	3.2	224	80	8	747	29	21	18	31	1.97
12216591--12217343	88	8.5	88	74	8	574	28	20	18	32	1.96
12216599--12217341	133	5.6	132	76	8	529	28	20	18	32	1.97
12216830--12217341	177	2.9	176	84	4	636	28	19	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12218598--12218662	31	2.1	30	82	2	76	18	20	20	41	1.91
12220515--12220613	48	2.1	48	98	0	189	51	4	19	25	1.64
12220529--12220602	23	3.1	23	64	21	62	52	2	20	24	1.59
12220533--12220612	25	3.3	25	67	19	78	53	5	18	22	1.63
12225340--12225375	4	9.0	4	93	0	63	52	0	0	47	1.00
12227707--12227746	19	2.1	19	90	0	62	37	2	0	60	1.11
12227711--12227753	19	2.2	19	83	4	50	34	2	4	58	1.32
12232969--12233008	4	10.2	4	89	5	64	77	20	0	2	0.88
12234294--12234339	24	1.9	24	95	0	83	43	8	0	47	1.34
12234380--12234432	27	2.0	27	92	0	88	33	16	26	22	1.96
12234383--12234463	27	3.0	28	82	5	87	33	20	27	18	1.96
12234524--12234598	19	4.0	19	82	3	98	34	12	0	53	1.38
12234537--12234607	37	1.9	37	94	0	124	42	9	0	47	1.36
12234590--12234628	17	2.4	17	95	4	71	56	0	5	38	1.22
12234926--12234981	27	2.1	27	86	0	76	19	26	21	32	1.97
12239051--12239075	5	5.0	5	100	0	50	60	0	0	40	0.97
12240461--12240554	38	2.6	36	82	3	125	24	9	25	40	1.85
12241294--12241323	16	1.9	15	93	6	51	46	16	10	26	1.78
12244943--12245052	55	2.0	55	100	0	220	38	14	25	21	1.92
12247243--12247295	27	2.0	27	88	0	79	30	5	9	54	1.55
12254004--12254131	45	2.8	45	84	5	168	38	21	13	27	1.90
12254890--12255005	43	2.7	43	86	5	146	37	22	12	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12257315--12257360	17	2.7	18	74	12	53	39	0	0	60	0.97
12258825--12258854	12	2.5	12	94	0	51	30	33	16	20	1.94
12274058--12274086	6	4.8	6	100	0	58	13	0	0	86	0.58
12275808--12275862	16	3.4	16	73	14	51	45	23	12	18	1.83
12275857--12275940	16	5.4	16	70	16	50	48	15	13	22	1.79
12275842--12275945	32	3.3	32	72	9	97	46	19	13	21	1.84
12279204--12279253	23	2.2	23	82	7	57	50	4	12	34	1.58
12283382--12283424	2	21.5	2	100	0	86	0	48	0	51	1.00
12295307--12295341	12	3.0	11	91	8	52	77	0	22	0	0.78
12296498--12296588	23	4.1	23	78	7	89	21	16	20	40	1.91

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