genome.fa.s16.2.7.7.80.10.50.1000.108.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  108  of  175  ( 20966 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)
34273154--34273339	59	3.1	57	68	19	146	42	2	3	51	1.31
34273147--34273437	120	2.4	121	89	2	460	43	1	4	49	1.33
34273580--34273670	45	2.0	45	85	2	121	37	28	6	27	1.82
34273651--34273719	16	4.2	16	96	3	129	37	37	0	24	1.56
34273651--34273719	33	2.1	32	97	2	129	37	37	0	24	1.56
34273737--34274229	261	1.9	261	94	1	864	27	16	20	34	1.95
34274767--34274806	21	1.9	21	94	0	71	40	12	10	37	1.77
34274780--34274857	34	2.3	34	93	4	131	29	12	14	43	1.82
34276346--34276371	12	2.2	12	100	0	52	30	15	0	53	1.42
34276390--34276777	34	10.7	34	69	21	211	35	7	2	54	1.42
34276358--34276787	77	5.3	77	76	15	399	35	7	2	54	1.41
34276512--34276537	12	2.2	12	100	0	52	30	15	0	53	1.42
34276530--34276577	9	5.2	9	90	9	62	37	0	0	62	0.95
34276444--34276654	98	2.2	95	91	7	338	35	6	1	56	1.36
34276521--34276653	28	4.6	29	66	25	77	35	6	1	57	1.33
34276323--34276731	175	2.4	172	90	6	645	35	7	2	55	1.40
34276752--34276810	23	2.4	25	83	11	86	33	6	1	57	1.35
34277016--34277087	9	8.0	9	80	0	90	47	16	0	36	1.47
34277004--34277108	18	5.8	18	76	2	86	49	12	0	37	1.47
34277004--34277092	27	3.3	27	100	0	178	49	13	0	37	1.42
34282589--34282657	21	3.3	21	83	0	84	36	21	40	1	1.63
34282643--34282747	12	9.2	12	74	15	98	41	20	37	0	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34282625--34282735	33	3.4	33	91	0	186	40	20	38	0	1.53
34282684--34282750	21	3.0	21	73	12	71	41	17	38	1	1.59
34283166--34283437	42	6.4	42	83	6	293	26	20	21	31	1.98
34283168--34283415	84	2.9	84	86	4	331	25	20	21	31	1.98
34283509--34283551	22	2.0	22	90	0	68	48	27	13	9	1.73
34284276--34284311	13	2.8	13	95	0	63	27	8	25	38	1.84
34284901--34284944	22	2.0	22	91	4	72	45	4	9	40	1.56
34288001--34288036	18	2.0	18	94	0	63	47	22	2	27	1.65
34288974--34289076	52	2.0	52	92	1	172	45	15	0	37	1.53
34295338--34295401	21	3.0	22	84	9	87	0	29	17	53	1.44
34297901--34298350	30	14.9	30	93	4	757	52	0	9	37	1.38
34297901--34298350	121	3.7	121	92	5	768	52	0	9	37	1.38
34297901--34298350	151	3.0	151	93	4	784	52	0	9	37	1.38
34301963--34302018	21	2.7	21	94	0	94	28	33	8	28	1.87
34304840--34304882	18	2.4	18	80	0	59	30	0	0	69	0.88
34306620--34306729	58	1.9	58	94	0	193	29	14	30	25	1.95
34306923--34306953	9	3.4	9	90	0	53	25	12	22	38	1.90
34307007--34307043	9	4.1	9	92	0	65	45	13	10	29	1.77
34307821--34307921	50	2.0	50	98	0	193	60	0	9	29	1.29
34314622--34314696	19	3.8	19	91	6	123	36	14	10	38	1.81
34315236--34315441	44	4.8	44	71	11	165	26	23	22	28	1.99
34315449--34316124	45	15.0	45	86	0	859	30	21	16	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34317360--34317449	46	2.0	45	86	2	126	16	21	18	43	1.88
34319051--34319075	11	2.3	11	100	0	50	64	12	8	16	1.49
34319337--34319376	19	2.1	19	100	0	80	30	27	10	32	1.89
34323365--34323504	59	2.4	59	83	7	160	27	12	12	48	1.76
34325977--34326160	39	4.7	40	81	8	207	26	27	21	24	1.99
34327296--34327415	56	2.1	56	98	0	231	22	23	9	45	1.81
34328515--34328591	28	2.8	28	79	0	91	24	22	12	40	1.89
34332345--34333026	341	2.0	341	97	0	1301	32	14	13	40	1.84
34336410--34336449	19	2.0	20	85	9	55	32	2	0	65	1.06
34336827--34336871	22	2.0	24	82	8	58	44	4	11	40	1.60
34343230--34343423	97	2.0	97	93	0	334	32	21	18	27	1.96
34346260--34346300	21	2.0	21	85	9	57	29	7	17	46	1.74
34350290--34350337	24	2.0	24	91	0	78	35	14	18	31	1.91
34358841--34358869	3	9.7	3	100	0	58	31	0	0	68	0.89
34359223--34359257	3	11.7	3	100	0	70	31	0	0	68	0.90
34360295--34360346	23	2.2	22	81	18	61	53	1	1	42	1.23
34360301--34360345	23	2.0	24	86	8	67	57	2	2	37	1.23
34364117--34364155	20	2.0	20	89	0	60	48	7	17	25	1.74
34368419--34368453	4	9.0	4	93	6	63	51	0	0	48	1.00
34370135--34370220	3	28.7	3	73	13	52	56	2	6	33	1.39
34370124--34370220	14	6.5	15	71	15	67	57	2	6	34	1.35
34370181--34370220	17	2.4	17	87	8	55	62	0	2	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34374038--34374088	25	2.0	25	100	0	102	45	23	7	23	1.79
34377719--34377806	30	2.8	30	72	17	81	56	3	6	32	1.42
34377786--34377820	14	2.5	14	90	0	52	62	0	5	31	1.18
34381635--34381673	19	2.1	19	95	0	69	28	20	10	41	1.85
34386949--34386997	17	3.0	16	82	11	55	55	0	0	44	0.99
34387457--34387484	6	4.7	6	100	0	56	85	0	0	14	0.59
34390363--34390453	45	2.0	44	82	2	110	42	9	21	25	1.84
34392305--34392391	27	3.3	26	81	10	97	35	16	26	21	1.94
34398341--34398612	45	6.1	45	87	0	359	35	24	14	25	1.93
34403710--34403900	49	3.9	50	79	6	180	28	20	27	23	1.99
34408466--34408522	25	2.3	25	93	0	96	26	24	22	26	2.00
34408489--34408592	25	4.2	25	81	3	104	31	15	25	26	1.96
34411362--34411630	40	6.7	40	93	0	441	21	26	20	31	1.98
34419901--34420169	40	6.7	40	93	0	441	21	26	20	31	1.98
34428446--34428501	25	2.2	25	83	0	67	26	23	23	26	2.00
34428456--34428512	25	2.3	25	87	0	78	29	15	26	28	1.96
34442188--34442225	19	2.0	19	85	10	51	21	42	0	36	1.53
34444962--34445022	19	3.0	20	79	18	72	72	1	21	4	1.13
34444992--34445028	18	2.2	16	90	9	56	70	2	21	5	1.20
34447932--34447988	20	2.8	20	75	0	60	29	24	14	31	1.94
34451960--34451989	15	1.9	16	93	6	53	56	0	0	43	0.99
34454718--34454809	25	3.7	25	82	0	112	28	22	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34455956--34456237	140	2.0	140	99	0	555	23	21	34	20	1.97
34465491--34465524	16	2.0	18	88	11	54	41	17	0	41	1.50
34467972--34468016	22	2.0	24	82	8	58	37	6	24	31	1.81
34474561--34474590	9	3.2	9	95	4	51	10	13	0	76	1.01
34492907--34492968	31	2.0	31	100	0	124	32	9	16	41	1.80
34493482--34493595	44	2.6	43	93	2	192	65	11	14	8	1.46
34499143--34499235	31	3.0	31	98	0	177	33	9	16	40	1.81
34501479--34501508	11	2.6	12	89	10	53	43	0	0	56	0.99
34502459--34502510	22	2.5	20	85	11	77	23	11	15	50	1.76
34503019--34503161	71	2.0	71	95	0	259	51	6	9	32	1.60
34503486--34503521	18	2.0	18	88	0	54	25	2	13	58	1.49
34505026--34505070	21	2.1	22	84	12	58	53	13	2	31	1.52
34519478--34519506	14	2.1	14	93	6	51	62	0	0	37	0.96
34519533--34519573	17	2.5	17	77	18	50	26	0	0	73	0.84
34523496--34523613	25	4.6	25	77	5	112	35	22	24	16	1.95
34523554--34523613	26	2.3	26	85	0	84	38	21	23	16	1.93
34526645--34526678	12	2.8	12	86	0	50	11	20	5	61	1.50
34538786--34538834	20	2.5	20	82	0	62	26	12	20	40	1.87
34544290--34544323	16	2.1	17	88	5	52	11	0	11	76	1.02
34549391--34549447	24	2.4	24	93	0	105	40	22	15	21	1.91
34556886--34556942	3	19.0	3	100	0	114	33	33	0	33	1.58
34567173--34567225	25	2.2	25	82	3	63	24	22	24	28	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34576550--34576608	31	1.9	30	83	10	75	40	6	15	37	1.74
34579725--34579786	25	2.5	25	82	10	72	29	19	19	32	1.96
34594099--34594192	35	2.7	35	83	0	116	22	15	27	34	1.95
34600438--34600481	18	2.4	18	88	7	63	29	2	0	68	1.02
34600446--34600482	18	2.0	19	94	5	67	29	0	0	70	0.88
34606450--34606499	24	2.1	23	82	10	57	36	4	2	58	1.29
34606484--34606626	61	2.5	58	83	11	170	41	0	2	55	1.19
34606541--34606609	35	1.9	36	85	5	95	42	0	2	55	1.15
34606685--34606773	46	2.0	46	84	8	121	42	23	2	31	1.66
34606759--34606797	16	2.4	16	86	0	51	33	17	7	41	1.79

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