genome.fa.s22.2.7.7.80.10.50.1000.17.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_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  17  of  172  ( 20605 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)
4396465--4396833	134	2.7	134	94	0	639	28	19	22	29	1.98
4396601--4397030	228	1.9	229	92	0	727	28	19	22	29	1.98
4396106--4397032	362	2.6	361	94	1	1617	27	20	22	29	1.98
4397040--4397705	132	5.1	132	93	0	1032	28	16	24	30	1.96
4398464--4398502	16	2.4	17	86	4	53	79	7	0	12	0.93
4398592--4398638	22	2.1	22	84	7	60	0	53	0	46	1.00
4398605--4398638	11	3.1	11	95	0	59	0	50	0	50	1.00
4399122--4399155	6	5.5	6	93	6	59	32	0	14	52	1.42
4399269--4399304	3	12.0	3	87	0	54	30	2	0	66	1.06
4399505--4399630	20	6.2	18	69	25	58	37	4	1	56	1.30
4399508--4399637	63	2.1	63	83	11	160	37	4	2	55	1.33
4399985--4400079	38	2.5	37	78	13	97	36	12	1	49	1.48
4405935--4406004	35	2.0	35	97	0	131	41	2	27	28	1.70
4409763--4409790	5	5.6	5	100	0	56	82	0	0	17	0.68
4414653--4414782	23	5.7	23	80	5	147	48	32	2	16	1.59
4414653--4414783	45	2.9	45	87	4	174	48	32	2	16	1.59
4414656--4414782	68	1.9	68	86	3	184	48	32	2	17	1.60
4414869--4414962	41	2.3	41	81	7	102	40	22	1	36	1.61
4415198--4415254	20	2.7	19	75	17	51	57	12	0	29	1.35
4416039--4416110	30	2.5	29	77	6	74	38	15	0	45	1.46
4419573--4419747	23	7.7	23	77	6	171	50	33	2	13	1.55
4419573--4419748	46	3.9	45	83	8	198	50	34	2	13	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4424709--4424733	12	2.1	12	100	0	50	0	24	0	76	0.80
4431138--4431361	27	8.4	26	85	6	279	43	20	17	18	1.88
4434101--4434193	29	3.2	29	95	0	159	19	22	16	41	1.89
4434100--4434213	29	3.9	29	89	0	147	22	24	13	39	1.90
4436856--4436919	30	2.1	30	91	0	101	29	34	20	15	1.94
4437995--4438036	18	2.4	18	92	4	68	42	2	9	45	1.49
4439159--4439430	141	1.9	141	91	4	451	23	13	22	40	1.89
4441171--4441211	17	2.4	17	91	0	64	34	12	29	24	1.91
4443252--4443294	19	2.4	19	84	7	54	37	16	13	32	1.88
4444267--4444319	23	2.3	23	78	15	56	26	3	9	60	1.45
4457350--4457621	43	6.3	43	76	3	242	33	23	16	26	1.96
4457438--4457637	87	2.3	86	77	7	217	28	24	17	30	1.97
4457500--4457644	43	3.4	42	78	11	109	26	24	17	31	1.97
4461633--4461711	28	2.8	29	77	11	99	55	1	11	31	1.43
4464613--4464668	19	2.9	19	91	0	85	37	10	17	33	1.85
4466129--4466184	22	2.5	22	88	2	76	32	5	1	60	1.29
4466168--4466221	18	2.9	18	76	13	56	27	7	1	62	1.32
4467094--4467300	109	1.9	108	90	1	333	32	15	15	35	1.90
4471722--4471793	18	3.9	18	82	7	92	80	0	19	0	0.71
4471721--4471794	7	10.6	7	75	18	66	81	0	18	0	0.70
4471719--4471795	30	2.6	30	84	10	97	80	0	19	0	0.71
4473004--4473964	89	10.8	89	88	0	1294	30	24	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4473002--4474022	444	2.3	445	85	0	1364	30	23	22	22	1.99
4474021--4474324	132	2.3	131	84	3	389	32	20	22	24	1.98
4478531--4478564	16	2.1	17	88	5	52	26	0	5	67	1.13
4480119--4480203	19	4.4	18	73	16	64	29	4	3	62	1.32
4480110--4480221	20	5.3	21	71	16	63	31	4	3	60	1.33
4480077--4480224	12	12.4	12	68	16	51	32	5	2	59	1.34
4489867--4489913	24	2.0	23	84	12	60	29	12	4	53	1.58
4490604--4490642	14	2.7	15	84	4	53	17	10	0	71	1.12
4490795--4490831	5	7.6	5	82	17	51	56	0	0	43	0.99
4500613--4500666	27	2.0	28	82	10	67	68	3	3	24	1.22
4501847--4501876	14	2.1	14	93	0	51	40	13	3	43	1.60
4510458--4510501	21	2.0	22	91	4	72	38	15	22	22	1.92
4512491--4512534	18	2.6	16	80	16	52	56	0	6	36	1.26
4515527--4515579	23	2.3	22	75	12	52	33	0	3	62	1.13
4517395--4517504	30	3.7	30	91	0	175	25	20	5	48	1.71
4517450--4517500	15	3.4	15	68	10	50	23	19	7	49	1.74
4521047--4521093	21	2.2	22	92	3	78	21	19	38	21	1.94
4523747--4523784	19	2.0	19	85	10	51	18	28	47	5	1.70
4525831--4525891	17	3.7	17	72	12	56	32	0	0	67	0.91
4527259--4527301	19	2.3	20	80	15	56	32	4	13	48	1.63
4528037--4528066	14	2.1	14	100	0	60	50	6	0	43	1.28
4533995--4534078	42	2.0	42	97	0	159	39	16	16	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4534523--4534684	72	2.2	72	86	4	245	33	24	11	30	1.91
4535193--4535240	22	2.2	22	100	0	96	45	22	20	10	1.81
4543019--4543069	16	3.1	16	82	5	57	31	0	1	66	1.03
4551125--4551363	44	5.4	44	79	2	289	28	26	16	28	1.97
4551092--4551363	44	6.1	45	79	2	280	27	26	16	30	1.97
4551092--4551363	89	3.1	89	89	0	427	27	26	16	30	1.97
4552603--4552642	14	2.9	15	85	10	50	15	20	2	62	1.43
4553553--4553595	18	2.4	19	84	11	63	67	6	16	9	1.40
4555484--4555528	19	2.4	19	85	7	56	44	8	20	26	1.80
4555554--4555580	13	2.1	13	100	0	54	44	25	7	22	1.79
4558351--4558406	29	1.9	29	85	7	78	41	10	8	39	1.71
4561007--4561062	20	2.7	20	73	15	60	57	7	0	35	1.26
4561020--4561090	19	3.7	19	84	5	90	56	8	0	35	1.30
4561104--4561147	20	2.3	19	84	11	54	65	2	6	25	1.28
4561103--4561151	21	2.5	19	78	15	55	65	2	6	26	1.27
4566989--4567055	34	1.9	35	87	3	100	31	8	11	47	1.71
4568292--4568377	36	2.5	35	81	12	90	45	3	2	48	1.32
4572494--4572526	16	1.9	18	88	11	52	30	6	9	54	1.56
4573097--4573164	35	1.9	36	90	3	111	29	8	10	51	1.66
4579782--4579840	29	2.0	31	86	6	86	20	40	0	38	1.53
4581870--4581930	22	2.7	23	75	9	63	34	11	0	54	1.37
4581961--4582006	24	2.0	22	83	8	56	36	8	2	52	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4581995--4582049	26	2.1	26	83	6	67	34	7	1	56	1.38
4582310--4582627	107	3.0	106	86	5	453	31	18	18	31	1.95
4586111--4586219	3	36.7	3	68	18	50	58	2	8	30	1.41
4586114--4586173	18	3.3	18	93	4	95	65	0	10	25	1.24
4586114--4586175	27	2.3	28	88	8	101	64	0	9	25	1.24
4587749--4587927	40	4.3	41	73	13	150	26	20	23	30	1.98
4587942--4588970	86	12.0	86	92	1	1632	23	23	22	30	1.99
4588180--4588401	43	5.2	42	63	16	114	22	22	25	29	1.99
4587942--4588970	345	3.0	344	92	1	1704	23	23	22	30	1.99
4590216--4590249	7	5.0	7	92	7	61	14	14	0	70	1.17
4590216--4590249	13	2.5	13	95	4	59	14	14	0	70	1.17
4595841--4595949	3	36.7	3	68	18	50	58	2	8	30	1.41
4595844--4595903	18	3.3	18	93	4	95	65	0	10	25	1.24
4595844--4595905	27	2.3	28	88	8	101	64	0	9	25	1.24
4597458--4597496	15	2.7	14	88	11	53	46	2	0	51	1.14
4597598--4597633	18	2.1	18	89	5	56	61	0	0	38	0.96
4597461--4597755	120	2.5	119	93	2	495	49	5	2	42	1.38
4597556--4597744	59	3.2	58	66	11	157	50	4	3	41	1.39
4597771--4597907	73	1.9	73	92	0	229	45	3	2	48	1.35
4597772--4597885	34	3.2	34	71	16	104	42	4	3	49	1.39
4597867--4598011	44	3.2	44	73	16	161	48	2	2	46	1.28
4597821--4598050	91	2.5	91	95	0	406	46	3	3	46	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597821--4598050	47	5.0	46	70	17	183	46	3	3	46	1.35
4600873--4601035	51	3.2	50	66	20	138	47	18	16	17	1.82
4600909--4601067	50	3.1	50	65	19	139	52	16	16	13	1.75
4600884--4601091	102	2.0	102	98	0	398	48	16	17	17	1.82
4600911--4601067	52	3.1	52	62	20	130	52	17	16	14	1.75
4605405--4605492	36	2.4	36	79	7	90	37	6	2	53	1.40
4608083--4608121	20	2.0	20	90	10	62	23	0	12	64	1.28
4608091--4608128	14	2.8	13	88	11	58	21	0	13	65	1.26
4611754--4611788	13	2.8	12	91	8	52	80	0	17	2	0.84
4611752--4611800	17	2.9	17	87	3	64	77	2	18	2	0.96

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