genome.fa.s16.2.7.7.80.10.50.1000.21.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  21  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)
5536817--5536912	45	2.2	43	84	3	120	28	21	17	32	1.96
5538179--5538218	13	3.0	13	89	10	55	15	17	0	67	1.23
5538179--5538219	21	2.0	20	90	4	64	14	17	0	68	1.22
5538179--5538219	6	6.0	7	78	16	50	14	17	0	68	1.22
5542391--5542432	9	4.6	9	77	16	50	85	4	0	9	0.72
5542390--5542433	18	2.6	18	82	10	56	81	6	0	11	0.86
5542391--5542432	19	2.2	19	86	0	57	85	4	0	9	0.72
5542390--5542433	16	2.6	17	82	17	56	81	6	0	11	0.86
5542477--5542530	25	2.2	25	80	6	58	48	3	7	40	1.49
5562185--5562365	96	1.9	96	86	4	258	44	20	20	14	1.87
5585715--5585832	50	2.3	52	86	2	168	38	13	15	33	1.86
5589663--5589747	34	2.5	34	84	3	100	38	23	5	31	1.79
5591901--5592066	86	1.9	91	86	6	243	41	15	10	31	1.82
5592162--5592217	10	5.8	10	72	6	53	62	0	1	35	1.06
5592162--5592286	19	6.3	20	69	15	73	64	0	3	32	1.10
5592204--5592258	10	5.3	10	79	16	67	70	0	3	25	1.03
5592170--5592225	29	1.9	29	82	7	69	57	0	3	39	1.16
5592204--5592263	22	2.8	21	87	9	86	70	0	3	26	1.03
5592194--5592263	22	3.2	23	82	13	85	67	0	2	30	1.05
5592274--5592347	20	3.7	20	73	12	62	58	2	9	29	1.44
5592600--5592654	9	6.0	9	87	6	58	27	1	3	67	1.17
5592760--5592985	89	2.5	89	83	3	276	34	10	18	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5597373--5597399	14	1.9	14	100	0	54	88	0	11	0	0.50
5600998--5601058	31	2.0	31	86	0	86	39	11	18	31	1.86
5609347--5609440	25	3.8	24	74	16	84	20	12	18	48	1.80
5610633--5610671	20	1.9	21	89	5	62	41	5	12	41	1.65
5610846--5610903	20	2.9	20	81	0	71	32	10	10	46	1.72
5617248--5617327	12	7.0	11	73	18	65	30	5	1	63	1.23
5617248--5617299	27	1.9	27	100	0	104	32	3	0	63	1.12
5617248--5617296	3	16.3	3	83	8	64	32	4	0	63	1.13
5623590--5623623	17	2.0	17	88	0	50	38	8	20	32	1.84
5627387--5627497	37	3.0	37	89	2	170	37	14	19	27	1.91
5629019--5629443	44	9.5	44	79	5	406	33	18	18	30	1.95
5631231--5631287	3	19.0	3	81	0	69	31	3	3	61	1.30
5635448--5635500	20	2.7	20	75	0	52	32	5	18	43	1.74
5647784--5647827	21	2.0	22	86	4	63	36	4	18	40	1.71
5647784--5648082	73	4.2	73	79	11	296	35	7	17	38	1.79
5648034--5648782	422	1.8	410	92	4	1099	39	7	11	41	1.70
5653457--5653620	43	3.9	43	77	7	156	30	26	15	28	1.96
5654880--5654919	15	2.6	15	92	4	62	25	25	25	25	2.00
5654915--5654986	28	2.6	28	80	4	74	27	30	20	20	1.98
5657629--5657698	25	2.9	23	74	14	61	17	21	18	42	1.89
5663876--5663900	12	2.1	12	100	0	50	76	0	24	0	0.80
5664821--5664889	30	2.3	30	94	0	120	18	8	20	52	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5668889--5668975	29	3.0	29	91	0	147	29	14	18	36	1.91
5674888--5674945	17	3.4	18	76	9	59	62	1	0	36	1.06
5674894--5674942	18	2.8	19	76	17	52	67	2	0	30	1.02
5681417--5681446	16	1.9	16	93	6	53	23	6	0	70	1.11
5684241--5684313	29	2.5	28	86	4	92	19	20	38	21	1.94
5684241--5684304	29	2.2	29	91	0	101	18	21	37	21	1.94
5684788--5684900	5	22.4	5	81	5	93	33	2	20	43	1.66
5684790--5684866	40	1.9	40	97	0	145	31	1	19	48	1.57
5687125--5687175	25	2.0	25	88	7	77	58	11	3	25	1.50
5690757--5690806	21	2.3	22	86	3	66	32	0	0	68	0.90
5691130--5691177	21	2.3	21	85	3	62	56	10	0	33	1.34
5701627--5701813	94	2.0	94	97	0	356	30	10	33	26	1.89
5717026--5717107	43	1.9	43	87	0	119	21	34	19	24	1.97
5723279--5723320	17	2.5	17	88	0	57	14	0	9	76	1.02
5724811--5724835	13	1.9	13	100	0	50	20	32	0	48	1.50
5725269--5725300	12	2.6	13	85	14	50	56	6	0	37	1.25
5732130--5732166	14	2.4	16	86	8	51	54	2	2	40	1.29
5749182--5749227	4	11.5	4	100	0	92	26	0	23	50	1.50
5749342--5749411	4	17.5	4	100	0	140	25	0	24	50	1.50
5749448--5749493	23	2.0	23	91	0	74	23	10	21	43	1.84
5751157--5751408	125	2.0	124	95	0	450	28	20	12	38	1.89
5756175--5756208	14	2.4	14	85	0	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5762001--5762071	35	2.0	35	100	0	142	22	23	19	33	1.97
5767707--5767803	49	2.0	49	83	4	124	44	9	16	29	1.79
5769785--5769809	6	4.2	6	100	0	50	52	48	0	0	1.00
5770002--5770100	28	3.5	28	91	5	155	38	11	0	50	1.38
5770172--5770243	27	2.7	27	93	0	126	23	29	26	20	1.99
5770270--5770325	29	1.9	29	85	0	76	71	5	17	5	1.24
5770382--5770432	21	2.4	20	84	15	59	25	0	7	66	1.18
5770382--5770420	19	2.0	21	85	10	55	25	0	7	66	1.18
5770498--5770526	3	9.7	3	100	0	58	0	0	31	68	0.89
5770705--5770768	12	5.1	13	75	9	53	25	0	15	59	1.36
5770696--5770754	26	2.3	26	80	13	77	25	0	15	59	1.36
5771314--5771358	18	2.5	18	77	0	54	28	8	46	15	1.76
5775807--5775869	18	3.4	18	75	12	74	61	4	3	30	1.32
5775807--5775884	37	2.1	37	100	0	156	62	5	2	29	1.30
5775807--5775900	37	2.5	37	91	3	127	60	6	2	30	1.33
5775986--5776159	39	4.6	38	79	12	151	0	33	0	66	0.92
5776008--5776159	18	9.1	17	70	23	76	0	34	0	65	0.93
5776018--5776159	35	4.0	35	73	17	114	0	33	0	66	0.92
5775972--5776159	74	2.6	76	78	16	186	0	34	0	65	0.93
5775981--5776114	19	6.9	19	74	20	82	0	32	0	67	0.91
5776014--5776145	22	6.4	22	70	23	83	0	34	0	65	0.93
5776274--5776372	28	3.5	28	93	4	155	49	0	11	39	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5780324--5780372	25	2.0	25	83	0	62	36	12	18	32	1.88
5792022--5792061	21	1.9	21	84	0	53	67	2	2	27	1.16
5796701--5796780	40	2.0	40	100	0	160	40	12	15	32	1.84
5799032--5799057	13	2.0	13	100	0	52	53	15	0	30	1.42
5800281--5800319	17	2.3	17	86	0	51	20	30	35	12	1.90
5806608--5806675	31	2.2	31	86	0	91	32	13	13	41	1.83
5819509--5819543	9	4.0	9	96	3	63	34	0	0	65	0.93
5822862--5822948	28	3.1	28	69	17	74	43	1	2	52	1.21
5823005--5823269	137	1.9	137	91	1	433	47	4	3	44	1.40
5823153--5823187	18	2.0	17	88	5	52	45	0	0	54	0.99
5823129--5823455	155	2.1	156	97	0	611	46	6	3	43	1.46
5823308--5823356	15	2.9	18	80	20	61	44	0	0	55	0.99
5823308--5823362	15	3.4	16	80	16	53	43	0	1	54	1.10
5823507--5823597	45	2.0	45	85	6	123	37	27	6	28	1.82
5823578--5823646	16	4.2	16	96	3	129	37	37	0	24	1.56
5823578--5823646	33	2.1	32	97	2	129	37	37	0	24	1.56
5827717--5827757	21	2.0	21	90	0	64	29	21	29	19	1.98
5835626--5835708	30	2.8	30	88	0	130	27	27	9	34	1.88
5835538--5835757	89	2.5	89	84	1	271	24	27	12	36	1.91
5836551--5836580	16	1.9	15	93	6	51	40	13	0	46	1.43
5844138--5844177	18	2.3	18	86	4	55	35	0	2	62	1.09
5850666--5850698	2	16.5	2	93	0	57	48	3	0	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5852986--5853024	21	1.9	20	84	5	51	69	2	2	25	1.14
5853161--5853189	14	2.1	14	100	0	58	27	0	0	72	0.85
5853146--5853209	32	2.0	32	82	11	78	29	0	4	65	1.13
5854659--5854700	22	1.9	23	85	9	61	33	2	4	59	1.31
5857792--5857851	30	2.0	30	84	12	79	33	1	5	60	1.29
5864304--5864475	44	3.9	44	86	3	229	26	16	25	31	1.97
5864618--5864769	51	3.0	51	74	0	142	28	15	26	28	1.96
5865009--5865105	51	1.9	51	84	0	131	28	15	25	29	1.96
5864540--5865268	169	4.3	169	88	2	1016	29	16	26	27	1.96
5867006--5867065	30	2.0	30	84	12	79	33	1	5	60	1.29

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