genome.fa.s16.2.7.7.80.10.50.1000.33.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_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  33  of  170  ( 20315 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)
9087597--9087698	24	4.3	23	71	11	73	66	0	33	0	0.92
9087600--9087679	34	2.8	28	75	24	85	67	0	32	0	0.91
9087615--9087772	38	4.3	36	82	12	164	67	0	32	0	0.96
9087617--9087717	10	10.5	10	72	16	79	65	0	33	0	1.00
9088449--9088484	18	2.0	18	88	0	54	25	0	5	69	1.10
9088516--9088580	26	2.7	23	85	7	85	43	7	0	49	1.31
9093326--9093363	18	2.1	18	90	0	58	15	44	5	34	1.69
9093329--9093370	18	2.3	18	83	0	57	21	47	2	28	1.63
9094257--9094329	24	3.0	24	87	0	110	10	46	5	36	1.62
9095128--9095152	8	3.1	8	100	0	50	0	16	24	60	1.36
9099370--9099446	33	2.4	32	82	8	93	46	16	9	27	1.77
9099541--9099575	3	11.7	3	100	0	70	65	0	0	34	0.93
9099889--9099965	27	2.9	27	92	0	118	15	31	27	25	1.96
9100033--9100098	28	2.3	29	89	5	100	51	1	7	39	1.40
9102245--9102280	16	2.2	16	90	0	54	50	5	5	38	1.49
9102433--9102466	7	4.9	7	100	0	68	70	0	29	0	0.87
9105818--9105898	39	2.1	39	97	0	153	23	17	25	33	1.96
9119714--9119751	4	10.0	4	83	11	53	73	2	0	23	0.95
9120111--9120199	38	2.3	40	74	16	91	61	3	1	33	1.20
9121936--9122517	44	13.1	45	76	3	471	30	24	15	30	1.95
9121936--9122517	89	6.6	89	82	3	503	30	24	15	30	1.95
9122477--9122552	37	2.0	38	87	2	109	34	25	14	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9123406--9123454	26	1.9	26	88	12	75	61	8	14	16	1.56
9134826--9134922	40	2.4	42	77	3	99	56	4	5	34	1.40
9135370--9135397	11	2.5	11	100	0	56	7	17	57	17	1.62
9142782--9142821	19	2.0	20	86	13	57	35	0	15	50	1.44
9143114--9143186	27	2.8	25	76	8	74	16	26	23	34	1.95
9143221--9143268	25	1.9	25	95	0	87	18	20	20	39	1.92
9143223--9143280	25	2.3	25	88	5	82	20	22	22	34	1.97
9143472--9143569	27	3.3	27	65	26	72	26	11	17	44	1.82
9143477--9143580	37	3.1	37	65	32	106	25	11	17	46	1.81
9145648--9145691	20	2.2	20	91	0	70	36	2	2	59	1.23
9153489--9153536	21	2.3	21	96	0	87	45	20	6	27	1.75
9154787--9154870	29	2.8	30	78	10	100	29	14	21	34	1.93
9180155--9180187	12	2.6	13	85	9	50	72	0	9	18	1.10
9180525--9180646	5	24.4	5	100	0	244	39	0	0	60	0.97
9180663--9180723	6	9.8	6	89	7	95	0	3	14	81	0.80
9180645--9180734	18	4.9	18	76	10	67	4	6	11	77	1.09
9180663--9180723	32	1.9	32	96	0	113	0	3	14	81	0.80
9180663--9180724	26	2.5	25	89	7	99	0	3	14	82	0.80
9189573--9189610	20	1.9	20	94	0	67	36	10	7	44	1.68
9194369--9194412	21	2.0	22	86	4	63	40	13	0	45	1.44
9195150--9195212	26	2.5	26	78	21	71	52	3	3	41	1.33
9201000--9201032	9	3.6	9	95	4	57	24	0	18	57	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9201000--9201045	19	2.4	19	85	0	56	23	0	19	56	1.42
9204009--9204041	15	2.2	15	94	0	57	21	12	9	57	1.62
9205375--9205430	28	1.9	28	82	13	69	33	0	3	62	1.12
9216345--9216391	24	1.9	25	86	4	69	21	6	25	46	1.74
9218041--9218180	44	3.0	48	73	8	135	32	5	22	39	1.76
9223848--9223894	23	2.0	23	95	0	85	23	10	23	42	1.85
9226370--9226407	17	2.2	17	86	9	51	34	13	2	50	1.55
9234955--9235052	29	3.5	28	77	10	94	41	22	15	20	1.89
9242131--9242168	19	2.0	19	94	0	67	65	5	7	21	1.38
9253851--9253928	35	2.3	35	97	2	149	33	16	5	44	1.70
9254605--9254761	77	2.0	77	98	0	305	29	14	26	29	1.95
9256252--9256520	28	9.8	28	79	3	251	24	14	24	36	1.93
9256252--9256531	84	3.4	84	82	4	322	25	14	23	36	1.93
9256321--9256549	111	2.1	112	81	0	262	24	14	24	36	1.93
9259865--9259923	23	2.5	24	86	8	84	13	18	28	38	1.89
9267104--9267467	132	2.8	132	92	1	597	27	17	24	30	1.97
9268650--9268703	3	17.7	3	92	3	90	31	0	1	66	1.02
9273689--9273733	23	2.0	23	86	4	65	37	6	17	37	1.76
9276296--9276353	12	4.8	12	76	14	57	60	3	5	31	1.35
9278425--9278473	22	2.2	22	83	16	66	48	0	2	48	1.12
9278768--9278807	11	3.5	11	80	12	53	30	0	0	70	0.88
9278767--9278817	24	2.1	25	92	3	86	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9283018--9283079	27	2.3	27	81	10	72	62	0	4	32	1.16
9286800--9286839	16	2.5	16	87	0	62	45	2	27	25	1.66
9286815--9286911	45	2.2	44	88	5	142	31	4	27	36	1.76
9287071--9287264	56	3.3	55	70	18	174	51	4	1	42	1.32
9287051--9287291	122	2.0	120	93	1	410	50	5	1	42	1.33
9287071--9287276	61	3.5	60	70	15	187	50	5	1	42	1.34
9290676--9290727	14	3.7	14	92	0	68	51	7	5	34	1.54
9291267--9291303	16	2.3	16	86	13	58	40	0	0	59	0.97
9291274--9291369	33	2.9	34	76	13	101	51	0	1	47	1.07
9291315--9291357	20	2.0	22	86	8	63	55	0	0	44	0.99
9291421--9291449	9	3.2	9	100	0	58	48	0	0	51	1.00
9294532--9294570	15	2.6	15	100	0	78	5	25	23	46	1.73
9295750--9295804	27	2.0	27	82	7	65	30	10	3	54	1.52
9296185--9296471	111	2.6	110	89	5	413	30	15	21	33	1.94
9308197--9308873	50	13.7	50	78	5	622	33	23	19	24	1.97
9308134--9308903	99	7.8	100	88	4	914	33	22	20	24	1.97
9310684--9310738	27	2.0	27	82	7	65	30	10	3	54	1.52
9311119--9311424	111	2.8	109	88	3	429	30	15	19	34	1.93
9313134--9313163	15	1.9	16	93	6	53	40	6	10	43	1.64
9317651--9317684	16	2.1	16	88	0	50	20	14	20	44	1.87
9327803--9327827	12	2.1	12	100	0	50	24	32	8	36	1.84
9328329--9328896	44	12.9	44	63	20	152	29	19	24	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9328329--9329016	132	5.2	132	92	0	1126	29	19	23	27	1.98
9329030--9329077	6	8.0	6	78	0	51	29	4	6	60	1.40
9329030--9329077	9	5.3	9	79	0	51	29	4	6	60	1.40
9331599--9331664	20	3.3	20	79	8	82	33	12	19	34	1.89
9331806--9331873	20	3.4	20	80	8	75	36	5	16	41	1.72
9331846--9331883	20	1.9	20	88	0	58	34	2	13	50	1.55
9332790--9332887	11	9.3	11	70	16	73	24	30	1	43	1.61
9332790--9332852	33	1.9	33	87	12	94	23	31	1	42	1.64
9332812--9332911	51	2.0	51	84	4	130	28	27	1	44	1.61
9332907--9332958	10	5.1	10	81	4	50	32	1	0	65	1.04
9332929--9332958	11	2.8	11	95	5	53	26	0	0	73	0.84
9332908--9332946	20	2.0	20	89	0	60	35	2	0	61	1.10
9334719--9334761	18	2.4	18	88	0	59	18	27	9	44	1.80
9335000--9335048	21	2.3	21	75	0	53	42	34	14	8	1.75
9335258--9335294	7	5.4	7	84	15	51	43	0	2	54	1.14
9335326--9335373	21	2.3	21	96	0	87	39	37	0	22	1.55
9335353--9335385	15	2.2	15	100	0	66	48	27	0	24	1.51
9335415--9335447	15	2.2	15	94	0	57	48	24	0	27	1.51
9335347--9335577	62	3.4	62	81	13	255	46	34	0	18	1.55
9335473--9335646	27	6.7	26	69	22	116	43	35	0	20	1.52
9335437--9335582	74	1.9	74	86	10	204	47	35	1	15	1.55
9335551--9335612	21	3.0	21	90	4	90	43	32	0	24	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9335368--9335607	68	3.5	67	75	21	253	47	34	0	17	1.54
9335545--9335849	54	5.8	52	71	17	184	44	32	0	21	1.57
9335629--9335655	6	4.5	6	100	0	54	29	51	0	18	1.46
9335572--9335670	39	2.7	39	80	9	120	40	33	0	26	1.56
9335653--9335681	15	1.9	15	100	0	58	48	20	0	31	1.50
9335752--9335784	15	2.2	15	100	0	66	48	27	0	24	1.51
9335632--9335852	102	2.2	101	91	1	361	45	33	0	19	1.57
9335799--9335885	27	2.8	32	75	20	94	41	36	1	20	1.60
9335810--9335879	27	2.6	27	90	0	113	40	37	0	22	1.55
9335866--9335897	6	5.3	6	92	0	55	34	46	0	18	1.49

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