genome.fa.s13.2.7.7.80.10.50.1000.110.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  110  of  199  ( 23770 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)
33429488--33430619	331	3.4	327	80	7	1175	29	16	19	35	1.93
33429487--33430619	223	5.1	221	81	5	1141	29	16	19	35	1.93
33430430--33430636	115	1.8	115	83	0	279	30	16	19	33	1.94
33433510--33433628	56	2.2	55	83	5	152	56	2	12	28	1.49
33437772--33437839	33	2.1	33	94	0	118	32	26	26	14	1.95
33441218--33441272	28	2.0	28	92	7	94	32	0	14	52	1.42
33441804--33441858	28	2.0	28	96	0	101	40	9	18	32	1.82
33452745--33452809	32	2.0	32	93	0	112	26	3	16	53	1.58
33454063--33454112	20	2.5	20	83	0	55	48	0	2	50	1.12
33458247--33458286	18	2.2	18	86	8	55	20	0	12	67	1.22
33461460--33461563	37	2.8	33	72	17	82	50	4	2	41	1.38
33461466--33461520	25	2.2	25	81	12	60	49	5	1	43	1.36
33462418--33462476	21	2.8	20	80	14	57	54	3	3	38	1.34
33462468--33462594	17	7.7	17	66	26	60	59	0	0	39	1.03
33462456--33462574	41	2.9	41	87	0	175	61	0	1	36	1.06
33462458--33462566	11	10.4	11	68	21	65	59	0	1	38	1.08
33462550--33462587	16	2.3	17	86	4	51	65	0	0	34	0.93
33462456--33462595	41	3.4	41	83	5	174	60	0	1	37	1.06
33462554--33462595	16	2.7	16	77	3	50	61	0	0	38	0.96
33463931--33463973	20	2.2	20	95	0	77	23	27	20	27	1.99
33479835--33479893	14	4.1	14	79	14	66	62	0	1	35	1.05
33480161--33480212	26	2.0	27	96	3	97	40	3	0	55	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33480161--33480230	26	2.5	29	84	15	87	44	4	0	51	1.21
33480291--33480342	27	1.9	27	92	7	88	26	28	30	13	1.94
33480381--33480445	34	1.9	34	96	3	123	30	1	61	6	1.29
33480438--33480470	13	2.4	14	85	5	50	63	0	36	0	0.95
33480456--33480564	30	3.5	30	71	19	89	61	0	36	1	1.07
33480431--33480556	64	2.0	64	86	9	177	60	0	38	1	1.07
33480505--33480597	40	2.3	40	89	5	136	66	0	31	2	1.03
33480430--33480625	40	5.8	35	72	19	116	62	0	36	1	1.02
33480549--33480599	17	2.9	18	80	11	54	68	0	31	0	0.90
33480562--33480626	31	2.1	31	86	8	89	67	0	32	0	0.91
33480577--33480632	28	2.0	29	89	3	87	66	0	33	0	0.92
33480640--33480669	15	2.0	15	100	0	60	26	0	0	73	0.84
33480651--33480687	19	2.0	18	89	5	56	32	0	2	64	1.07
33480642--33480677	15	2.4	15	90	0	54	27	0	0	72	0.85
33489049--33489172	3	41.7	3	80	10	130	65	26	0	8	1.20
33489171--33489204	3	11.3	3	100	0	68	67	0	0	32	0.91
33489322--33489350	10	2.7	11	89	10	51	0	27	0	72	0.85
33489450--33489535	27	3.2	27	86	0	109	11	30	31	26	1.92
33489582--33489652	27	2.6	27	88	8	99	46	0	9	43	1.37
33492306--33492359	19	2.7	19	80	5	63	57	7	0	35	1.27
33492511--33492545	3	11.7	3	100	0	70	31	0	0	68	0.90
33495860--33495948	30	3.0	30	83	0	106	14	28	32	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33496755--33496780	11	2.4	11	100	0	52	7	0	0	92	0.39
33497699--33497806	6	18.0	6	93	3	146	79	4	0	14	0.94
33499421--33499548	15	8.9	15	72	22	64	71	5	3	20	1.20
33499459--33499554	34	2.8	34	84	7	106	72	3	3	20	1.12
33499479--33499555	15	4.6	17	77	18	65	72	2	1	23	1.04
33499442--33499555	12	9.2	12	74	15	65	72	3	2	21	1.11
33503349--33503390	5	8.4	5	100	0	84	80	0	0	19	0.70
33507989--33508030	19	2.2	19	87	8	59	38	0	2	59	1.10
33508562--33508594	12	2.6	13	90	4	50	18	6	0	75	1.00
33518339--33518376	18	2.0	21	85	15	55	28	0	15	55	1.41
33527087--33527339	27	9.4	27	85	2	321	42	20	17	20	1.90
33534355--33534504	59	2.5	59	84	4	194	30	22	11	36	1.89
33538329--33538371	21	2.1	21	87	8	63	16	4	23	55	1.59
33560645--33560692	25	2.0	25	88	12	73	16	10	2	70	1.24
33560672--33560706	12	3.0	12	87	4	54	28	8	0	62	1.24
33561663--33561832	85	2.0	85	100	0	340	41	11	16	30	1.84
33577050--33577093	20	2.2	20	88	4	63	75	2	2	20	1.03
33582460--33582574	50	2.3	49	82	7	151	25	24	20	30	1.98
33582462--33582574	25	4.6	24	74	13	104	24	23	20	30	1.98
33585270--33585304	18	1.9	18	88	11	54	51	0	5	42	1.25
33590932--33591001	25	2.8	25	86	0	104	24	24	24	27	2.00
33599507--33599637	41	3.2	41	78	4	158	35	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33601079--33601277	29	6.8	29	84	2	220	36	15	26	22	1.93
33604616--33604751	40	3.4	40	88	0	173	27	13	27	31	1.94
33606701--33606908	45	4.6	44	75	7	141	19	22	15	42	1.89
33606870--33606942	24	3.2	24	67	11	62	21	15	16	46	1.83
33612343--33612469	41	3.1	41	85	2	130	34	26	21	17	1.95
33612447--33612484	16	2.4	16	95	0	67	31	31	21	15	1.94
33612718--33612879	45	3.6	45	78	7	161	22	19	15	42	1.88
33612844--33612969	45	2.8	44	84	2	144	20	19	16	43	1.88
33621969--33622116	74	2.0	74	88	4	217	41	14	8	35	1.75
33624573--33624606	6	5.7	6	92	0	59	17	26	0	55	1.42
33632352--33632391	13	3.1	13	85	0	53	70	2	27	0	1.01
33633484--33633569	43	2.0	43	93	0	145	51	3	25	19	1.63
33633542--33633592	18	2.7	19	87	6	68	52	1	25	19	1.56
33633557--33633611	27	2.0	27	82	6	67	49	1	25	23	1.60
33633544--33633592	19	2.6	19	87	6	64	53	2	24	20	1.56
33634075--33634119	23	1.9	22	86	13	63	22	11	28	37	1.88
33634434--33634553	54	2.2	54	83	2	152	25	24	31	18	1.97
33644003--33644067	34	1.9	34	93	0	112	41	21	13	23	1.89
33646041--33646131	42	2.2	42	92	2	148	37	17	19	25	1.94
33649319--33649449	28	4.7	28	83	0	127	32	25	21	21	1.98
33649323--33649456	56	2.4	56	84	0	160	33	24	20	21	1.97
33649351--33649458	56	1.9	56	88	0	162	36	24	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33649566--33649645	26	3.1	26	85	3	117	42	23	13	20	1.88
33649791--33650202	27	15.3	27	77	8	286	17	18	21	42	1.89
33656643--33656676	18	1.9	18	94	5	61	8	41	32	17	1.80
33658487--33658636	43	3.5	43	79	3	160	32	22	15	30	1.94
33658598--33658731	48	3.0	44	80	8	169	31	23	17	27	1.97
33664833--33664980	43	3.4	43	86	1	199	31	23	14	30	1.95
33664833--33664992	85	1.9	87	82	2	207	31	23	14	30	1.94
33664950--33665130	48	3.8	48	80	2	202	29	20	17	32	1.96
33664950--33665129	96	1.9	96	84	2	245	30	20	17	32	1.95
33665125--33665219	32	3.1	30	76	7	109	47	16	6	29	1.71
33674634--33674662	9	3.0	10	90	10	51	58	0	20	20	1.39
33675369--33675417	24	2.0	24	88	0	71	46	10	12	30	1.74
33678406--33678450	19	2.3	19	84	3	54	53	6	4	35	1.47
33679920--33680009	25	3.6	25	83	1	110	31	21	25	22	1.98
33681257--33681338	22	3.7	22	86	0	119	28	14	28	29	1.95
33687464--33687512	15	3.2	15	77	11	55	65	0	6	28	1.16
33687913--33688002	3	29.3	3	73	12	67	62	3	4	30	1.31
33688880--33688918	20	2.0	20	89	0	60	12	15	48	23	1.79
33694874--33695016	70	2.0	70	98	0	277	47	4	1	46	1.32
33694883--33694994	35	3.2	35	68	14	113	43	6	0	49	1.34
33697322--33697373	26	2.0	27	85	11	72	34	7	23	34	1.83
33697585--33697653	27	2.4	29	80	17	74	49	0	1	49	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33697584--33697660	31	2.5	30	78	15	79	48	0	1	50	1.09
33700472--33700540	24	2.9	24	85	8	88	52	7	4	36	1.49
33702841--33702884	20	2.2	20	83	0	52	61	9	20	9	1.53
33702971--33703027	29	2.0	29	89	6	89	38	14	36	10	1.80
33703447--33703532	9	9.4	9	88	7	120	39	27	10	22	1.87
33703672--33703701	13	2.3	13	94	0	51	20	0	40	40	1.52
33708223--33708273	23	2.3	22	80	6	66	54	7	5	31	1.53
33708310--33708370	3	20.7	3	84	3	79	70	0	1	27	0.97
33708369--33708403	3	11.7	3	100	0	70	34	0	31	34	1.58
33708838--33708914	19	3.7	21	76	13	68	41	15	5	37	1.70

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