genome.fa.s22.2.7.7.80.10.50.1000.12.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  12  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)
3308319--3308367	23	2.4	21	78	21	59	51	0	4	44	1.20
3308568--3308673	38	2.8	37	83	12	101	39	40	1	17	1.61
3308601--3308673	21	3.7	20	73	15	80	38	39	2	19	1.66
3308585--3308673	38	2.4	38	90	5	137	38	40	2	19	1.64
3308909--3309572	114	5.9	113	82	6	733	25	24	22	27	1.99
3311878--3312106	43	5.4	42	70	8	151	29	28	18	23	1.98
3314894--3315115	118	1.9	119	84	6	299	25	27	22	24	2.00
3314892--3315115	40	5.7	40	85	7	287	25	27	22	24	2.00
3322797--3323018	118	1.9	119	84	6	299	25	27	22	24	2.00
3322795--3323018	40	5.7	40	85	7	287	25	27	22	24	2.00
3328719--3328761	13	3.3	13	80	0	50	37	2	4	55	1.33
3331756--3331814	21	2.8	21	75	10	66	32	45	1	20	1.61
3331961--3331994	14	2.3	15	90	5	52	35	32	0	32	1.58
3332042--3332078	14	2.6	14	91	0	56	51	29	0	18	1.47
3332213--3332254	20	2.2	19	86	4	57	66	4	4	23	1.30
3332267--3332412	41	3.6	41	90	0	222	28	28	19	23	1.98
3332455--3332585	40	3.3	41	81	10	155	23	23	20	32	1.98
3333183--3333398	96	2.2	97	87	8	321	40	6	6	47	1.53
3333296--3333382	42	2.0	43	82	2	104	40	1	8	50	1.39
3333371--3333429	31	1.9	31	96	0	109	45	10	0	44	1.37
3333341--3333557	115	1.9	116	86	1	294	40	8	5	46	1.57
3333888--3333953	14	4.8	14	79	3	71	36	28	6	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3333918--3333953	13	2.6	14	95	4	65	38	30	5	25	1.78
3334042--3334074	7	4.7	7	92	0	57	42	27	3	27	1.70
3334634--3334679	19	2.4	19	75	17	51	39	0	0	60	0.97
3334616--3334666	18	2.9	18	77	14	61	37	0	1	60	1.08
3335043--3335100	21	2.8	22	71	21	54	44	0	5	50	1.24
3338026--3338220	96	2.0	96	84	2	248	32	22	21	24	1.98
3339291--3339445	42	3.5	43	68	15	116	40	5	7	45	1.57
3339275--3339448	93	1.9	93	91	0	285	40	6	6	45	1.56
3339440--3339502	32	2.0	32	87	0	90	34	11	1	52	1.47
3339728--3339772	14	3.3	14	82	17	67	44	24	0	31	1.54
3339737--3339774	20	1.9	20	88	0	58	47	26	0	26	1.52
3339847--3339901	27	2.0	27	83	13	69	41	20	3	34	1.69
3339890--3339940	14	3.6	14	75	15	52	41	19	5	33	1.76
3339867--3339913	21	2.3	20	75	13	51	40	19	4	36	1.71
3339941--3339983	14	3.1	14	89	0	68	30	51	0	18	1.47
3339941--3339983	21	2.0	21	86	0	59	30	51	0	18	1.47
3339950--3339983	7	4.9	7	96	0	59	29	52	0	17	1.45
3340668--3340726	29	2.1	27	81	9	66	25	11	15	47	1.79
3341018--3341043	12	2.2	12	100	0	52	30	30	0	38	1.58
3341016--3341136	51	2.4	51	92	4	199	28	28	0	42	1.56
3341137--3341203	31	2.2	30	91	2	107	34	1	0	64	1.03
3342283--3342307	7	3.6	7	100	0	50	28	0	12	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3343397--3343582	25	7.7	25	63	20	83	38	2	13	44	1.59
3343395--3343579	71	2.6	71	93	0	316	37	2	14	45	1.59
3343455--3343573	35	3.4	36	65	12	93	37	1	13	47	1.53
3343585--3343796	29	7.3	29	93	3	354	44	25	0	29	1.54
3343585--3343796	59	3.6	59	92	1	365	44	25	0	29	1.54
3343791--3343913	55	2.3	52	89	8	201	36	11	5	46	1.64
3344629--3344673	19	2.4	19	92	0	72	44	26	22	6	1.77
3347052--3347397	123	2.8	123	93	0	602	33	21	15	29	1.94
3348124--3348469	123	2.8	123	93	0	593	32	21	15	30	1.94
3349195--3349540	123	2.8	123	95	0	620	32	21	15	30	1.95
3356111--3356357	121	2.0	121	96	0	458	25	18	18	37	1.93
3359610--3359643	16	2.1	16	88	0	50	41	8	0	50	1.34
3361464--3361504	19	2.1	19	86	9	55	60	0	7	31	1.24
3362287--3362320	13	2.6	13	95	0	59	82	0	8	8	0.85
3362939--3363042	45	2.3	45	78	1	111	26	17	23	32	1.96
3363059--3363171	44	2.6	44	77	13	124	32	19	18	29	1.96
3363176--3363630	88	5.2	88	92	1	709	29	25	12	33	1.92
3363176--3364004	44	18.9	44	76	7	587	30	24	13	31	1.94
3363563--3364004	126	3.4	126	83	7	505	30	25	15	29	1.95
3376436--3376476	19	2.1	19	86	9	55	60	0	7	31	1.24
3377685--3377717	3	11.0	3	100	0	66	33	0	33	33	1.58
3378717--3378761	13	3.5	13	78	0	54	44	20	0	35	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379420--3379471	27	1.9	27	84	7	70	57	15	7	19	1.62
3380242--3380626	115	3.4	114	79	6	379	21	21	28	29	1.98
3381896--3381941	21	2.2	21	84	0	56	32	13	47	6	1.68
3382259--3382545	42	6.8	42	91	1	405	34	21	20	23	1.97
3382265--3382545	127	2.2	126	90	0	436	33	21	20	23	1.97
3382513--3382593	42	1.9	42	92	0	135	27	20	18	33	1.96
3382265--3382588	84	3.8	84	85	3	339	32	21	20	25	1.98
3383722--3383824	55	1.9	53	81	15	122	20	2	33	43	1.67
3383871--3383896	7	3.7	7	100	0	52	38	0	15	46	1.46
3383864--3383897	14	2.4	14	85	0	50	32	0	23	44	1.54
3383892--3383938	14	3.4	14	75	13	53	19	6	29	44	1.75
3384164--3384206	15	2.9	15	89	3	61	6	6	32	53	1.55
3384164--3384209	14	3.2	14	87	6	65	6	6	30	56	1.50
3384226--3384344	28	4.3	27	73	12	89	17	4	26	51	1.64
3384248--3384299	21	2.5	21	81	6	61	19	1	21	57	1.50
3384305--3384403	49	2.0	49	81	14	116	18	5	25	51	1.66
3384834--3384888	28	1.9	29	88	3	85	34	3	16	45	1.65
3385362--3385420	29	2.0	29	83	0	73	33	8	10	47	1.68
3385753--3385793	17	2.3	18	87	4	57	68	4	0	26	1.10
3386075--3386130	22	2.5	23	82	2	69	51	1	1	44	1.22
3386106--3386145	16	2.5	16	91	0	62	47	2	7	42	1.45
3386155--3386334	68	2.9	61	89	8	265	40	5	9	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3386218--3386245	9	3.1	9	100	0	56	32	0	10	57	1.33
3386134--3386304	68	2.5	68	97	1	319	39	4	8	47	1.54
3386401--3386444	24	1.9	24	90	9	74	61	2	0	36	1.09
3387467--3387539	20	3.7	19	78	8	76	32	1	2	63	1.17
3390188--3390285	28	3.5	28	93	4	155	39	9	1	50	1.41
3390439--3390596	18	9.4	17	71	19	77	66	0	32	1	1.00
3390441--3390512	10	6.6	10	73	17	54	68	0	31	0	0.90
3390441--3390542	24	4.3	23	71	11	73	66	0	33	0	0.92
3390459--3390581	38	3.4	38	86	6	168	67	0	31	0	0.96
3390444--3390523	34	2.8	28	75	24	85	67	0	32	0	0.91
3390461--3390585	10	12.7	10	71	16	82	67	0	32	0	0.97
3391296--3391346	18	2.8	18	87	3	66	27	0	5	66	1.14
3391382--3391446	27	2.4	27	87	7	96	41	10	0	47	1.38
3392777--3392813	17	2.2	17	100	0	74	29	16	8	45	1.76
3393763--3393791	14	2.1	14	100	0	58	37	6	0	55	1.27
3396177--3396209	17	1.9	17	93	0	57	15	45	3	36	1.61
3396966--3396991	3	8.7	3	100	0	52	65	0	0	34	0.93
3397162--3397197	10	3.5	11	82	17	51	0	25	0	75	0.81
3397301--3397381	27	3.0	27	90	0	117	9	40	23	25	1.85
3397425--3397462	8	4.6	8	90	3	58	10	0	5	84	0.77
3397465--3397521	27	2.1	27	87	6	80	49	0	10	40	1.37
3397469--3397529	28	2.2	27	85	8	79	45	1	11	40	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3400003--3400042	16	2.6	15	80	4	53	40	0	0	60	0.97
3413023--3413076	18	2.9	18	86	8	65	51	5	1	40	1.36
3413691--3413728	19	2.0	19	94	0	67	15	18	10	55	1.68
3413952--3413984	17	1.9	17	93	0	57	27	15	21	36	1.93
3416989--3417025	19	1.9	19	89	10	58	56	16	0	27	1.40
3419834--3419864	12	2.6	12	100	0	62	70	0	16	12	1.16
3420818--3420865	24	2.0	24	87	0	69	25	22	4	47	1.69
3424960--3425004	22	2.0	22	83	8	56	48	2	2	46	1.26
3435603--3435694	40	2.3	40	81	3	96	16	17	26	40	1.90
3439678--3439763	29	3.0	29	77	6	102	38	19	19	22	1.94

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