genome.fa.s25.2.7.7.80.10.50.1000.183.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  183  of  214  ( 25680 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)
53745856--53745894	17	2.2	18	86	4	53	53	20	10	15	1.70
53748120--53748199	33	2.4	32	78	10	90	35	18	22	23	1.96
53749741--53749807	27	2.6	25	79	11	71	53	0	4	41	1.21
53749946--53750003	26	2.2	26	84	6	73	32	8	12	46	1.71
53752511--53752540	6	4.8	6	92	8	51	50	0	0	50	1.00
53752885--53752909	8	3.1	8	100	0	50	24	0	12	64	1.27
53758753--53758791	20	1.9	21	84	5	53	46	0	5	48	1.24
53763288--53763336	16	3.0	16	85	5	62	28	4	8	59	1.45
53765562--53765587	12	2.2	12	100	0	52	23	30	26	19	1.98
53772464--53772520	15	3.8	14	73	13	51	38	8	22	29	1.85
53772457--53772520	30	2.1	31	91	2	103	39	7	25	28	1.83
53774518--53774545	4	7.0	4	100	0	56	25	0	25	50	1.50
53775593--53775848	85	3.0	85	86	1	341	31	20	15	32	1.94
53775599--53775857	86	3.0	85	85	0	329	30	20	16	32	1.95
53776346--53776676	28	11.7	27	76	10	213	54	6	18	21	1.66
53776338--53776678	58	6.0	56	79	8	284	53	6	17	21	1.66
53777351--53777408	24	2.4	24	88	2	89	60	8	12	18	1.57
53781231--53781279	13	3.8	14	79	15	52	65	8	0	26	1.20
53782697--53782743	24	2.0	24	83	8	60	48	0	34	17	1.47
53787369--53787415	24	1.9	25	82	4	60	68	6	6	19	1.34
53787957--53787995	19	2.1	18	85	4	51	38	0	0	61	0.96
53788971--53789031	23	2.7	22	89	2	86	49	1	1	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53788976--53789031	22	2.5	23	91	2	87	51	1	1	44	1.22
53789005--53789061	16	3.6	16	92	0	96	45	3	5	45	1.43
53789185--53789258	33	2.2	34	87	4	105	37	1	9	51	1.43
53789633--53789668	9	4.0	9	88	0	54	13	41	11	33	1.80
53792108--53792361	110	2.4	102	93	5	427	42	13	5	38	1.67
53792879--53792986	53	2.0	53	100	0	216	32	22	7	37	1.82
53794628--53794665	7	5.9	7	87	12	55	63	13	0	23	1.30
53794653--53794696	22	2.0	22	86	8	63	54	4	0	40	1.21
53794844--53794869	5	5.2	5	100	0	52	0	42	57	0	0.98
53796504--53796646	42	3.4	40	77	12	137	16	26	16	39	1.90
53797506--53797697	41	4.7	38	71	21	122	32	0	12	54	1.38
53797506--53797600	19	4.8	19	79	8	91	33	0	11	54	1.36
53797637--53797756	19	6.4	19	68	22	92	31	0	13	54	1.45
53797646--53797765	52	2.3	53	84	5	167	32	0	12	54	1.44
53797708--53797753	23	2.0	23	95	0	83	26	2	13	58	1.46
53800430--53800463	17	2.1	17	88	5	52	47	0	8	44	1.34
53800944--53801103	42	3.8	42	81	6	173	17	26	16	40	1.90
53800962--53801098	21	6.5	21	69	3	78	16	24	17	41	1.89
53805996--53806076	43	1.9	41	85	9	110	32	1	0	66	0.99
53812262--53812470	92	2.3	91	85	5	269	45	3	4	46	1.39
53812398--53812445	26	1.9	25	84	16	64	45	0	2	52	1.12
53812595--53812911	157	2.0	157	95	0	571	47	5	2	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53812764--53812798	18	2.0	17	88	5	52	45	0	0	54	0.99
53813034--53813069	16	2.2	16	90	0	54	41	30	0	27	1.56
53823765--53823800	14	2.6	14	95	0	63	41	0	2	55	1.14
53823760--53823811	11	4.4	12	75	20	56	46	0	1	51	1.12
53823962--53823997	17	2.1	18	89	5	56	75	5	13	5	1.17
53837064--53837111	21	2.2	22	78	10	55	31	0	10	58	1.32
53844118--53844638	126	4.1	126	88	1	749	27	16	18	37	1.92
53844700--53844804	34	3.1	33	86	4	147	42	12	0	43	1.48
53860513--53860547	15	2.3	15	100	0	70	17	0	8	74	1.06
53861571--53861660	45	2.0	45	97	0	171	34	15	14	35	1.88
53864039--53864078	5	8.0	5	97	0	71	40	2	0	57	1.12
53864142--53864204	33	1.9	33	96	0	117	42	1	0	55	1.09
53865647--53865701	12	4.6	12	83	0	56	3	12	58	25	1.51
53865660--53865689	6	5.0	6	91	0	51	0	13	66	20	1.24
53865648--53865704	18	3.2	18	76	0	69	3	12	59	24	1.48
53866956--53867002	24	2.0	24	82	0	58	27	12	40	19	1.88
53866962--53867015	18	3.0	18	84	7	65	31	9	38	20	1.84
53879052--53879081	10	3.0	10	100	0	60	50	20	10	20	1.76
53886332--53886381	25	2.0	25	100	0	100	44	20	8	28	1.79
53886800--53886901	34	3.0	34	97	0	195	39	10	17	32	1.84
53887983--53888098	33	3.5	33	90	0	160	13	23	49	13	1.78
53888006--53888121	33	3.6	31	87	3	90	12	18	52	15	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53888198--53888353	39	4.2	39	75	15	118	22	10	51	16	1.74
53888514--53888542	3	9.7	3	100	0	58	0	0	68	31	0.89
53888933--53888985	3	17.7	3	80	7	63	24	0	73	1	0.93
53904562--53904645	26	3.0	25	69	19	60	48	3	0	47	1.19
53904546--53904683	58	2.4	56	80	7	127	53	4	0	42	1.20
53904663--53904729	21	3.0	21	75	12	71	59	5	0	34	1.22
53904643--53904729	45	1.9	44	81	9	104	57	6	0	35	1.26
53906187--53906214	6	4.7	6	100	0	56	67	17	14	0	1.22
53906187--53906234	15	3.5	15	86	10	59	66	16	16	0	1.25
53906192--53906238	21	2.2	21	85	7	60	68	17	14	0	1.22
53914416--53914485	28	2.5	28	79	9	88	54	4	21	20	1.61
53919461--53919490	15	2.0	15	93	0	51	43	13	10	33	1.77
53928616--53928664	9	5.4	9	82	0	62	26	10	18	44	1.81
53928795--53928819	12	2.1	12	100	0	50	16	24	36	24	1.94
53931579--53931617	20	2.0	20	90	10	62	30	0	10	58	1.31
53931607--53931657	20	2.6	20	78	3	59	37	1	5	54	1.36
53933494--53933588	26	3.8	25	72	15	70	50	3	10	35	1.53
53933821--53933861	3	13.7	3	94	0	73	65	2	0	31	1.05
53935366--53935582	44	5.0	43	84	3	220	23	25	21	29	1.99
53935342--53935582	88	2.8	87	77	3	304	24	24	22	29	1.99
53935579--53935976	87	4.6	87	93	0	665	23	24	22	29	1.99
53935579--53935976	173	2.3	173	95	0	697	23	24	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53937634--53937729	49	2.0	49	87	0	138	8	9	5	77	1.13
53937689--53937730	22	1.9	22	85	0	57	4	14	2	78	1.01
53942581--53942675	26	3.8	25	72	15	70	50	3	10	35	1.53
53942908--53942939	3	10.7	3	93	0	55	65	3	0	31	1.08
53944938--53944968	15	2.1	15	100	0	62	19	32	29	19	1.96
53952938--53952963	3	8.7	3	100	0	52	69	0	30	0	0.89
53957069--53957121	18	3.1	18	84	10	58	62	5	0	32	1.19
53964746--53964793	20	2.3	20	86	13	62	54	2	2	41	1.24
53965893--53965924	3	10.7	3	100	0	64	34	0	0	65	0.93
53976634--53976675	18	2.2	20	84	12	54	54	0	9	35	1.33
53978413--53978455	10	4.4	11	78	21	51	65	0	0	34	0.93
53978416--53978457	19	2.3	19	91	4	68	61	0	0	38	0.96
53978701--53978759	28	2.1	28	96	0	109	45	10	11	32	1.74
53988437--53988480	22	2.0	23	86	4	63	40	4	4	50	1.43
53996420--53996496	35	2.2	35	86	11	106	42	10	3	42	1.57
54003448--54003500	22	2.4	22	77	0	61	28	15	26	30	1.96
54003528--54003595	27	2.5	27	85	0	91	36	16	25	22	1.94
54003562--54003718	54	2.9	55	73	11	130	35	13	23	27	1.92
54005127--54005152	11	2.4	11	100	0	52	38	7	0	53	1.30
54005113--54005242	39	3.3	40	89	4	201	33	2	0	63	1.13
54005216--54005255	21	1.9	21	89	0	62	42	0	0	57	0.98
54005215--54005262	21	2.2	20	79	13	51	37	0	4	58	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54006089--54006155	29	2.4	28	80	11	75	61	1	1	35	1.15
54006402--54006452	20	2.5	21	84	9	61	50	1	3	43	1.31
54025544--54025600	29	2.0	29	83	10	73	57	7	0	35	1.26
54025640--54025687	21	2.3	21	78	7	53	56	2	4	37	1.30
54026813--54026892	40	2.0	40	97	0	151	25	16	17	41	1.89
54034264--54034314	22	2.3	23	83	13	70	41	0	3	54	1.19
54034278--54034314	12	3.2	12	81	11	51	40	0	5	54	1.24
54034351--54034395	23	2.0	23	83	16	58	46	0	0	53	1.00
54035106--54035153	20	2.4	19	76	10	51	47	2	0	50	1.12
54035445--54035514	29	2.4	29	80	4	70	34	7	15	42	1.74

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   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214