genome.fa.s22.2.7.7.80.10.50.1000.22.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  22  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)
5382217--5382243	13	2.1	13	100	0	54	44	25	7	22	1.79
5384185--5384228	4	11.5	4	88	9	65	27	0	20	52	1.47
5384685--5384738	3	17.7	3	88	3	81	62	0	3	33	1.12
5385723--5385769	18	2.6	18	86	0	67	10	10	31	46	1.73
5385874--5385930	16	3.4	16	68	17	53	5	28	15	50	1.65
5386100--5386347	128	1.9	129	89	2	383	26	23	20	29	1.99
5386103--5386390	44	6.6	44	73	8	198	25	23	19	31	1.98
5386401--5386930	44	12.0	44	83	4	586	30	24	13	31	1.94
5386399--5386926	221	2.4	219	86	3	702	30	24	13	31	1.93
5386401--5386930	133	4.0	131	82	6	568	30	24	13	31	1.94
5388166--5388208	7	6.0	7	84	13	52	13	16	2	67	1.33
5388166--5388207	15	2.9	15	82	13	52	14	16	2	66	1.35
5388804--5388848	18	2.5	18	92	0	72	6	11	35	46	1.66
5389999--5390051	23	2.3	22	75	12	52	33	0	3	62	1.13
5391307--5392092	112	7.3	110	76	11	657	30	17	19	32	1.94
5391311--5392053	220	3.5	211	80	9	692	31	17	18	32	1.94
5391700--5391882	56	3.2	56	67	12	138	28	18	19	32	1.96
5391318--5391995	109	6.3	103	78	10	363	31	17	18	32	1.94
5391739--5392008	101	2.6	103	79	7	285	26	18	18	36	1.94
5392694--5392792	51	1.9	51	93	4	173	34	5	2	58	1.31
5393609--5393929	107	2.9	110	83	11	408	31	18	18	32	1.95
5393548--5393988	102	4.2	104	79	9	415	30	18	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5393706--5393877	53	3.3	53	67	13	140	28	18	17	35	1.94
5395031--5395121	25	3.7	24	77	13	96	36	7	4	51	1.51
5395031--5395121	24	3.7	23	76	12	83	36	7	4	51	1.51
5401429--5402628	132	9.2	132	89	2	1737	28	18	24	28	1.98
5404079--5404169	24	3.7	23	75	15	85	36	7	4	51	1.51
5405767--5405792	13	2.0	13	100	0	52	46	0	0	53	1.00
5405576--5405881	168	1.8	167	87	3	454	34	21	15	28	1.94
5405682--5405811	57	2.2	57	86	5	179	26	23	16	33	1.96
5405594--5405935	168	2.0	165	82	5	402	35	20	14	30	1.92
5410907--5410944	19	2.0	19	89	0	58	68	5	2	23	1.23
5424023--5424049	14	1.9	14	100	0	54	33	0	7	59	1.25
5425189--5425218	5	6.0	5	100	0	60	40	0	0	60	0.97
5425911--5425941	5	6.2	5	100	0	62	38	0	0	61	0.96
5425082--5426496	720	2.0	722	99	0	2807	36	15	12	34	1.86
5428184--5428231	19	2.6	19	93	3	80	18	0	8	72	1.08
5428372--5428422	21	2.4	21	80	9	59	21	0	9	68	1.18
5428416--5428449	15	2.3	15	94	0	59	20	14	5	58	1.57
5431146--5431194	24	2.1	24	88	3	73	30	2	2	65	1.15
5436278--5436308	3	10.3	3	100	0	62	32	0	0	67	0.91
5440392--5440430	21	1.9	20	89	5	60	69	2	0	28	1.02
5442259--5442706	44	10.2	44	66	10	209	25	22	20	32	1.98
5442213--5442805	263	2.2	264	93	0	983	24	22	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5442213--5442805	132	4.5	132	91	0	965	24	22	20	32	1.98
5453859--5453899	20	2.0	20	86	13	57	58	2	2	36	1.24
5455773--5456496	132	5.5	132	93	1	1213	24	23	20	31	1.98
5455773--5456496	263	2.8	264	93	1	1229	24	23	20	31	1.98
5461635--5461668	18	1.9	17	88	5	50	5	32	2	58	1.37
5472223--5472268	21	2.2	21	84	7	58	39	0	17	43	1.49
5473802--5473939	63	2.2	63	84	5	172	28	6	31	34	1.83
5473802--5473963	63	2.6	63	81	3	157	29	6	29	34	1.83
5475700--5475804	7	15.0	7	81	0	93	40	0	30	29	1.57
5490549--5490583	16	2.1	18	89	10	56	42	0	0	57	0.99
5493377--5493538	72	2.2	72	86	4	245	33	24	11	30	1.91
5493382--5493576	72	2.7	72	80	3	178	30	24	13	31	1.93
5499548--5499588	16	2.5	17	84	11	50	29	2	2	65	1.18
5500620--5500668	24	2.0	24	96	0	89	30	26	24	18	1.98
5501862--5502007	10	15.0	9	68	15	53	59	2	4	34	1.28
5501883--5501951	31	2.3	31	87	5	97	56	1	2	39	1.23
5501883--5501951	30	2.3	29	85	7	93	56	1	2	39	1.23
5502626--5502701	40	1.9	40	86	0	107	35	22	21	21	1.96
5502648--5502731	40	2.1	40	82	6	100	33	25	22	19	1.97
5502800--5503068	41	6.6	41	91	0	405	21	23	27	28	1.99
5503511--5503560	13	3.7	13	80	20	50	16	0	46	38	1.47
5503602--5503675	14	5.3	14	83	0	67	16	0	51	32	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5503602--5503667	7	9.4	7	84	0	78	13	0	53	33	1.41
5508206--5508347	43	3.3	42	86	2	185	21	19	33	26	1.97
5508226--5508347	43	2.8	43	91	0	190	21	19	33	25	1.97
5515371--5515452	7	11.7	7	86	0	83	39	0	31	29	1.57
5515371--5515447	21	3.7	21	82	3	93	40	0	32	27	1.57
5516050--5516087	18	2.1	19	90	9	62	44	39	5	10	1.61
5517449--5517494	20	2.3	20	88	7	67	30	4	2	63	1.26
5521998--5522039	16	2.7	16	85	3	50	76	0	11	11	1.03
5522014--5522061	22	2.2	20	82	14	51	72	0	20	6	1.05
5522140--5522258	42	2.8	41	82	5	130	29	11	29	29	1.92
5523393--5523599	44	4.7	44	71	9	170	27	20	26	26	1.99
5523338--5523867	132	4.0	132	90	1	825	29	19	24	26	1.98
5523338--5523867	261	2.0	263	90	1	841	29	19	24	26	1.98
5523945--5523984	21	1.9	21	89	0	62	37	5	32	25	1.77
5525796--5525839	23	1.9	23	85	0	61	31	6	4	56	1.46
5530764--5530891	63	2.1	62	94	2	222	29	5	19	45	1.73
5537888--5537937	3	16.7	3	100	0	100	66	0	0	34	0.92
5538794--5538831	16	2.4	16	90	0	58	50	2	5	42	1.39
5539346--5539410	25	2.6	24	85	9	85	20	24	16	38	1.93
5540861--5540948	25	3.5	24	76	16	72	54	2	2	40	1.25
5547690--5547839	34	4.4	34	73	11	144	38	18	10	33	1.84
5547690--5547879	103	1.8	103	88	0	290	35	16	10	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5551473--5551555	41	2.0	41	95	0	148	31	20	18	30	1.96
5552405--5552434	14	2.1	14	100	0	60	33	16	13	36	1.88
5553502--5553673	89	1.9	89	89	1	265	47	4	21	26	1.70
5564688--5564712	12	2.1	12	100	0	50	72	0	0	28	0.86
5565093--5565410	164	1.9	165	85	1	442	30	13	17	37	1.89
5566698--5566746	25	2.0	25	84	4	64	46	2	4	46	1.33
5569446--5569488	3	14.3	3	85	0	50	32	6	2	58	1.38
5572432--5572735	144	2.1	144	85	2	396	27	19	15	37	1.92
5587747--5587781	17	2.1	16	89	5	52	45	2	0	51	1.16
5588289--5588332	10	4.6	10	86	8	56	20	4	9	65	1.38
5588891--5588947	3	19.0	3	100	0	114	66	0	0	33	0.92
5589179--5589210	5	6.4	5	92	0	55	59	18	3	18	1.51
5590341--5590407	35	1.9	35	87	0	98	43	2	2	50	1.32
5590636--5590719	19	4.2	21	73	22	67	27	2	7	63	1.33
5602572--5603020	44	10.2	44	62	17	135	29	20	24	25	1.99
5603100--5603416	44	7.2	44	63	12	121	29	20	24	26	1.99
5602522--5603578	132	8.0	132	92	1	1688	29	20	24	25	1.99
5604054--5604085	5	6.4	5	92	0	55	59	18	3	18	1.51
5604623--5604664	22	2.0	21	86	13	59	28	0	9	61	1.27
5605196--5605279	35	2.4	35	77	13	93	40	3	3	52	1.36
5605512--5605595	19	4.2	21	73	22	67	26	2	8	63	1.35
5606346--5606373	3	9.3	3	100	0	56	67	32	0	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5606584--5606718	70	2.0	67	82	7	164	43	14	11	31	1.80
5608781--5608846	20	3.4	19	81	8	71	45	0	0	54	0.99
5608813--5608850	15	2.3	16	82	17	51	39	0	0	60	0.97
5611164--5611230	31	2.2	31	83	0	80	47	13	7	31	1.70
5611178--5611253	31	2.5	31	80	4	82	46	17	6	30	1.73
5611258--5611420	31	5.4	28	69	15	85	41	18	4	35	1.72
5611214--5611459	92	2.7	92	83	0	294	41	18	4	35	1.72
5619081--5619129	24	2.0	24	84	7	64	61	2	4	32	1.26
5619095--5619129	12	2.9	12	86	0	52	60	0	2	37	1.12
5622086--5622143	24	2.6	21	82	15	80	65	0	3	31	1.09

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