genome.fa.s20.2.7.7.80.10.50.1000.38.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  38  of  189  ( 22580 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)
11628477--11628523	24	1.9	24	82	4	58	55	8	0	36	1.31
11631919--11631946	12	2.3	12	100	0	56	50	32	0	17	1.47
11632785--11632994	53	4.0	52	76	10	185	49	10	10	29	1.71
11632728--11633228	35	14.0	36	70	15	254	44	10	11	33	1.75
11632781--11633228	35	12.6	34	73	11	305	45	10	11	32	1.75
11632781--11633228	18	25.1	17	71	13	224	45	10	11	32	1.75
11633318--11633367	17	2.8	18	77	14	59	46	8	14	32	1.73
11634043--11634106	30	2.2	30	81	13	71	39	7	20	32	1.81
11634064--11634195	30	4.4	30	72	7	108	42	5	17	34	1.72
11637243--11637289	10	4.4	10	80	15	58	74	0	2	23	0.93
11637193--11637277	41	2.0	44	93	6	149	63	1	2	32	1.15
11637260--11637300	13	3.3	13	73	13	50	65	0	4	29	1.13
11637250--11637300	24	2.2	24	96	3	95	68	0	3	27	1.07
11637250--11637310	23	2.6	24	87	5	81	70	0	3	26	1.02
11637250--11637310	24	2.7	23	87	7	88	70	0	3	26	1.02
11655996--11656037	2	21.0	2	100	0	84	50	0	50	0	1.00
11661281--11661581	75	4.0	75	98	0	584	36	13	15	34	1.87
11661775--11661809	18	2.0	17	88	5	52	45	0	0	54	0.99
11661930--11661964	18	2.0	17	88	5	52	45	0	0	54	0.99
11661763--11662070	155	2.0	155	97	1	580	47	4	2	44	1.39
11662129--11662219	45	2.0	44	85	2	119	35	28	5	30	1.80
11662198--11662267	16	4.4	16	94	0	113	37	34	0	28	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11664433--11664502	31	2.3	31	82	0	86	41	8	12	37	1.74
11666919--11666943	10	2.5	10	100	0	50	76	0	0	24	0.80
11666907--11667046	41	3.6	41	74	22	140	58	0	3	37	1.15
11666930--11667025	30	3.1	29	91	5	138	58	0	4	37	1.18
11666907--11667036	11	12.4	11	67	28	61	57	0	3	38	1.17
11666907--11667046	71	1.9	73	89	2	221	58	0	3	37	1.15
11670635--11670708	20	4.0	20	73	20	79	28	9	13	48	1.73
11670620--11670720	34	2.9	34	95	1	175	30	8	13	46	1.74
11670615--11670724	14	6.9	15	68	23	57	30	9	15	44	1.77
11670807--11670845	20	2.0	20	94	0	69	48	2	0	48	1.15
11673129--11673154	11	2.4	11	100	0	52	61	15	0	23	1.33
11673342--11673391	25	2.0	25	88	0	73	58	4	34	4	1.36
11673451--11673502	24	2.2	24	82	0	59	42	0	55	1	1.10
11673851--11673927	37	2.1	37	92	0	127	33	15	16	33	1.91
11683436--11683495	30	2.0	31	86	3	86	40	0	40	20	1.52
11683789--11683818	9	3.3	9	90	0	51	36	23	13	26	1.92
11684357--11684404	18	2.6	19	80	9	55	72	4	4	18	1.17
11684381--11684478	49	1.9	52	84	12	132	60	10	8	21	1.55
11684768--11684829	3	20.7	3	89	0	97	64	0	1	33	1.03
11684776--11684841	15	4.4	15	88	0	69	62	1	3	33	1.20
11687251--11687288	3	12.7	3	100	0	76	34	0	31	34	1.58
11688168--11688272	40	2.7	40	77	5	106	32	18	27	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11688330--11688731	41	9.8	41	80	3	362	15	23	24	35	1.94
11689208--11689245	15	2.5	15	86	0	58	21	0	42	36	1.53
11689507--11689533	14	1.9	14	100	0	54	37	3	14	44	1.63
11690562--11690633	37	1.9	38	86	8	103	18	1	44	36	1.58
11690586--11690654	14	4.7	15	72	13	54	17	1	43	37	1.58
11693676--11693706	6	5.0	6	96	4	53	64	0	3	32	1.09
11693705--11694490	31	26.8	31	75	16	671	46	10	2	40	1.51
11693754--11693798	22	2.1	21	95	4	81	46	11	0	42	1.39
11693810--11693854	22	2.0	22	95	0	81	46	11	0	42	1.39
11693707--11694358	56	11.2	56	86	8	789	47	10	2	39	1.51
11693739--11693847	25	4.3	25	76	14	107	44	11	1	42	1.50
11693865--11693972	22	5.1	22	70	22	88	49	11	0	38	1.45
11693984--11694028	22	2.0	22	95	0	81	46	11	0	42	1.39
11694227--11694271	22	2.0	22	95	0	81	46	11	0	42	1.39
11694267--11694320	22	2.3	22	87	9	72	46	11	1	40	1.50
11694282--11694416	22	6.1	22	69	22	86	47	11	1	40	1.48
11694428--11694472	22	2.0	22	95	0	81	46	11	0	42	1.39
11694323--11694505	56	3.2	56	96	1	330	45	11	2	40	1.52
11694493--11694595	9	12.3	9	68	19	62	43	16	0	38	1.55
11694450--11694525	34	2.2	33	81	9	82	43	13	1	42	1.52
11694505--11694590	34	2.6	34	81	3	95	45	13	1	39	1.52
11694563--11694595	16	2.1	16	94	0	57	51	18	0	30	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11700014--11700140	66	1.9	66	88	6	195	40	17	25	15	1.89
11700016--11700160	66	2.2	66	84	7	188	42	16	27	13	1.86
11700143--11700203	21	2.9	21	77	0	68	37	18	39	4	1.72
11700186--11700243	21	2.8	21	94	0	107	39	13	43	3	1.61
11700598--11700866	43	6.3	41	76	14	192	24	16	29	29	1.96
11700598--11700854	85	3.0	83	73	17	238	25	16	29	29	1.97
11700872--11700972	43	2.4	43	83	1	114	28	28	21	20	1.98
11701131--11701173	22	2.0	22	95	0	77	41	27	20	9	1.83
11702660--11702703	21	2.1	21	83	8	54	25	29	27	18	1.98
11713272--11713313	15	2.7	15	88	3	57	4	19	2	73	1.12
11713322--11713366	5	9.0	5	83	16	58	57	0	0	42	0.98
11713323--11713365	19	2.3	19	92	8	70	58	0	0	41	0.98
11713329--11713391	24	2.6	25	82	7	67	58	4	0	36	1.19
11715436--11715664	42	5.5	41	85	3	298	28	22	19	28	1.98
11715447--11715664	83	2.6	82	86	4	294	29	21	19	29	1.98
11715393--11715680	125	2.3	126	85	4	406	28	23	20	28	1.99
11717237--11717272	18	2.0	18	94	0	63	8	2	0	88	0.59
11719478--11719509	4	8.0	4	100	0	64	50	25	0	25	1.50
11721421--11721468	6	8.2	6	81	2	53	18	2	31	47	1.60
11728322--11728464	58	2.5	58	89	2	218	27	18	13	41	1.87
11736796--11736866	30	2.4	30	80	4	81	54	1	0	43	1.08
11746578--11746617	19	2.1	19	95	0	71	0	45	7	47	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11749261--11749358	41	2.4	41	87	3	135	28	19	25	26	1.99
11751951--11752152	109	1.9	109	93	2	352	33	19	17	29	1.95
11752136--11752177	18	2.4	17	84	7	57	38	9	4	47	1.57
11752458--11752546	44	2.1	40	81	8	97	48	2	11	38	1.51
11752575--11752666	12	7.8	12	67	18	50	50	1	9	39	1.43
11752748--11752798	22	2.3	22	93	0	84	50	0	9	39	1.35
11752750--11752808	22	2.8	21	85	10	68	52	1	8	37	1.42
11754439--11754589	44	3.4	44	83	1	151	31	24	17	26	1.97
11754720--11754953	125	1.9	125	88	0	360	24	18	21	35	1.96
11755074--11755212	45	3.1	45	74	12	124	21	23	24	30	1.99
11755149--11755641	88	5.6	89	86	3	644	25	24	22	26	2.00
11755149--11755641	175	2.8	175	86	1	666	25	24	22	26	2.00
11755466--11755607	44	3.3	42	66	18	119	24	25	21	28	1.99
11756880--11756939	14	4.3	14	81	10	61	13	23	0	63	1.29
11756896--11756940	7	6.4	7	82	7	56	13	20	0	66	1.24
11757270--11757311	6	7.0	6	84	10	59	0	19	0	80	0.70
11757271--11757320	24	2.1	23	92	3	82	2	16	0	82	0.77
11757324--11757356	15	2.2	15	100	0	66	12	0	6	81	0.85
11759932--11759980	19	2.5	20	80	6	57	42	12	18	26	1.85
11761711--11761787	14	5.0	15	71	20	52	42	15	9	32	1.78
11761727--11761766	20	2.0	20	90	0	62	50	12	10	27	1.72
11761715--11761781	34	1.9	35	90	3	109	46	13	8	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11764598--11764641	22	2.0	23	86	4	63	36	6	13	43	1.71
11765860--11765912	22	2.4	21	78	9	61	62	0	5	32	1.19
11768459--11768504	18	2.6	17	83	6	56	65	2	2	30	1.16
11770039--11770082	16	2.8	16	85	0	61	22	13	18	45	1.84
11771393--11771418	4	6.5	4	100	0	52	26	23	23	26	2.00
11775880--11775954	36	2.1	36	82	12	91	29	0	4	66	1.09
11777461--11777512	14	3.8	14	79	5	61	34	0	1	63	1.06
11777452--11777515	27	2.7	23	78	19	76	35	0	1	62	1.05
11777459--11777513	27	2.0	27	92	0	92	38	0	1	60	1.08
11783312--11783361	3	16.7	3	79	8	57	30	6	2	62	1.31

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