genome.fa.s25.2.7.7.80.10.50.1000.43.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  43  of  196  ( 23409 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)
11879793--11880016	88	2.5	87	85	4	236	33	17	23	26	1.96
11880181--11880302	44	2.8	44	81	3	131	27	22	23	26	2.00
11880639--11880702	19	3.3	19	89	8	101	39	9	14	37	1.78
11880640--11880715	21	3.7	21	92	3	120	40	10	11	36	1.76
11881161--11881198	15	2.6	15	83	4	51	26	0	2	71	1.00
11881155--11881214	12	4.6	13	80	16	54	30	1	1	66	1.11
11881473--11881584	51	2.2	52	80	6	131	32	6	6	55	1.50
11883184--11883227	6	7.2	6	84	2	52	36	0	61	2	1.09
11884853--11884948	10	10.2	10	73	13	62	33	0	4	62	1.14
11884829--11884946	38	3.2	37	73	12	107	33	0	4	61	1.22
11884849--11884907	27	2.2	27	81	0	73	28	0	3	67	1.06
11884864--11884912	18	2.8	17	76	11	55	26	0	4	69	1.06
11884882--11884961	29	2.9	27	75	15	72	31	1	5	62	1.24
11884881--11884938	30	2.0	30	89	3	91	31	0	3	65	1.09
11884893--11884961	29	2.5	27	82	13	86	33	1	5	59	1.30
11889501--11889605	10	10.9	9	71	17	68	60	0	0	40	0.97
11889504--11889630	11	12.3	11	73	20	98	60	0	0	38	1.02
11889501--11889606	9	11.0	9	76	15	72	60	0	0	39	0.97
11894527--11894595	27	2.5	26	83	4	75	20	34	27	17	1.95
11894651--11894837	39	4.8	38	74	13	146	66	0	33	0	0.92
11894634--11894802	42	4.1	40	78	17	145	66	0	33	0	0.92
11894648--11894782	53	2.6	50	80	12	146	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11894672--11894780	14	7.9	14	70	11	82	65	0	34	0	0.93
11894650--11894823	45	3.9	44	68	18	117	65	0	34	0	0.93
11895203--11895779	286	2.0	285	93	2	989	50	6	10	31	1.63
11898916--11898953	17	2.1	19	90	9	62	68	15	0	15	1.22
11899477--11899542	27	2.4	27	92	0	105	15	30	33	21	1.94
11904676--11904721	4	11.0	4	90	9	74	23	4	0	71	1.03
11904678--11904734	26	2.2	26	81	6	62	29	7	1	61	1.32
11933979--11934115	63	2.2	63	95	0	247	35	16	12	35	1.87
11937108--11937152	3	15.0	3	100	0	90	33	33	0	33	1.58
11940595--11940673	26	3.0	24	70	15	68	58	5	1	35	1.28
11944112--11944148	18	2.0	19	89	5	58	35	0	43	21	1.53
11947225--11947351	40	3.2	40	80	8	127	37	18	24	19	1.94
11947683--11948645	325	3.0	323	94	1	1640	35	19	5	39	1.75
11953214--11953247	16	2.1	16	88	0	50	26	2	0	70	1.01
11954221--11954258	20	2.0	20	89	5	60	47	7	0	44	1.32
11954276--11954319	20	2.4	18	82	14	54	50	2	4	43	1.35
11954235--11954365	68	1.9	68	85	3	183	51	4	2	41	1.35
11955484--11955526	16	2.7	16	88	0	68	51	9	20	18	1.74
11963461--11963640	51	3.6	50	81	6	186	23	16	27	32	1.96
11963562--11963642	26	3.2	26	65	28	73	22	13	29	34	1.92
11963647--11963736	46	2.0	44	80	8	101	25	16	24	33	1.96
11963866--11963897	16	2.0	16	100	0	64	56	0	18	25	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11968744--11968828	25	3.5	23	73	19	66	23	15	28	32	1.95
11968731--11968880	49	3.0	49	82	3	158	26	12	26	34	1.92
11976870--11977248	146	2.6	147	84	5	482	41	4	10	43	1.60
11976870--11977332	146	3.2	144	80	10	480	41	4	10	42	1.60
11979713--11979762	25	2.0	25	96	0	91	22	28	4	46	1.70
11989107--11989155	4	12.2	4	82	0	53	20	32	2	44	1.63
11994170--11994298	42	3.1	42	86	0	168	20	19	23	36	1.95
11994305--11994335	16	1.9	16	93	0	53	22	19	6	51	1.69
11994613--11994642	15	2.0	15	93	0	51	3	13	0	83	0.77
11995074--11995681	150	4.1	149	88	4	827	42	5	9	42	1.60
11995074--11995681	299	2.0	297	87	5	868	42	5	9	42	1.60
11995552--11995596	20	2.2	20	88	0	63	46	2	8	42	1.47
11996096--11996143	6	7.3	6	90	9	60	20	0	14	64	1.28
11996098--11996143	7	6.9	7	92	4	69	21	0	15	63	1.31
11998043--11998093	16	2.8	19	67	27	56	50	11	0	37	1.39
11998035--11998599	112	5.1	112	96	0	1008	44	7	7	40	1.62
11998035--11998599	223	2.5	223	95	0	997	44	7	7	40	1.62
11998609--11998670	22	2.7	23	87	5	81	46	3	0	50	1.17
11998594--11998626	16	2.1	16	100	0	66	48	6	0	45	1.27
11999017--11999063	24	1.9	24	83	12	60	31	6	6	55	1.51
11999087--11999143	21	2.6	22	86	8	73	21	5	1	71	1.14
11999087--11999143	10	5.4	10	78	12	60	21	5	1	71	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12000857--12000899	20	2.2	20	84	12	54	16	23	18	41	1.89
12000962--12001000	19	2.1	19	85	9	53	30	2	5	61	1.31
12001780--12001824	3	15.0	3	90	0	72	28	0	4	66	1.11
12002774--12002841	22	3.1	21	73	12	66	16	26	17	39	1.90
12002931--12002989	31	1.9	31	89	0	91	52	3	20	23	1.61
12005712--12005754	19	2.2	20	87	4	61	53	6	0	39	1.28
12005743--12005827	17	4.8	18	72	16	70	52	1	1	44	1.16
12008646--12008748	50	2.1	50	92	3	172	26	13	33	26	1.93
12022385--12022435	11	4.8	11	75	18	54	39	31	0	29	1.57
12022374--12022435	20	2.9	22	79	13	67	38	30	0	30	1.58
12022373--12022442	11	6.7	10	76	14	52	34	31	0	34	1.58
12027188--12027221	13	2.6	14	90	9	54	41	32	0	26	1.56
12027617--12027687	31	2.3	31	100	0	142	25	28	5	40	1.78
12038184--12038256	38	1.9	37	86	8	103	31	21	1	45	1.61
12038244--12038287	23	1.9	22	82	17	54	38	22	0	38	1.55
12038386--12038438	23	2.3	23	90	0	88	32	24	20	22	1.98
12040071--12040134	25	2.5	25	78	12	69	20	15	3	60	1.48
12044926--12045408	50	9.7	50	70	2	288	28	22	25	22	1.99
12044947--12045535	100	5.9	100	88	1	752	28	21	25	24	1.99
12044998--12045470	50	9.5	49	68	4	246	29	22	25	23	1.99
12044947--12045535	299	2.0	300	85	2	808	28	21	25	24	1.99
12048049--12048127	13	6.1	13	82	5	88	40	24	3	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12049470--12049518	24	2.0	24	96	0	89	40	10	12	36	1.77
12050146--12050217	36	2.0	36	100	0	144	44	5	8	41	1.58
12055104--12055144	20	2.0	21	85	4	57	36	12	7	43	1.70
12060125--12060165	20	2.0	21	85	4	57	36	12	7	43	1.70
12079140--12079380	41	5.9	41	85	4	335	19	23	26	30	1.98
12080413--12080447	15	2.4	14	86	9	52	22	2	37	37	1.69
12081063--12081092	15	2.0	15	100	0	60	60	0	0	40	0.97
12081075--12081453	111	3.5	111	87	5	533	49	10	12	27	1.73
12081147--12081514	104	3.5	104	82	9	383	46	11	13	28	1.78
12081525--12081573	26	2.0	24	88	11	73	69	8	0	22	1.14
12082211--12082265	27	2.0	27	100	0	110	10	32	3	52	1.54
12085160--12085621	23	20.3	23	74	13	312	29	5	24	40	1.78
12085192--12085538	68	5.1	68	74	10	348	29	4	23	41	1.75
12085162--12085569	136	3.0	137	96	0	755	29	5	24	40	1.77
12085168--12085613	91	4.9	89	79	6	423	29	5	23	41	1.77
12086607--12086654	13	4.0	13	71	20	50	37	27	25	10	1.88
12086615--12086658	22	2.0	22	95	0	79	38	27	20	13	1.90
12087734--12087758	7	3.6	7	100	0	50	12	0	0	88	0.53
12092223--12092254	16	1.9	17	93	6	57	87	0	9	3	0.64
12095004--12095703	346	2.0	346	98	0	1355	38	13	14	33	1.85
12098148--12098244	44	2.2	44	81	7	117	29	23	12	34	1.92
12100640--12100668	13	2.1	14	93	6	51	37	3	0	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12105201--12105247	16	3.1	15	85	14	53	85	2	8	4	0.81
12105831--12105912	42	2.0	42	97	0	155	30	14	32	21	1.94
12105834--12105934	42	2.4	42	89	0	148	28	14	30	25	1.95
12107244--12107708	50	9.3	50	70	4	337	29	24	25	20	1.99
12107233--12107828	100	5.9	100	88	2	793	29	23	24	21	1.99
12112155--12112233	27	2.9	27	85	7	115	31	20	12	35	1.90
12114561--12114623	29	2.2	28	83	10	76	68	0	1	30	0.99
12114637--12114674	20	1.9	20	89	10	60	65	7	2	23	1.32
12114670--12114720	26	2.0	26	96	0	93	45	21	0	33	1.52
12114866--12114944	37	2.1	37	81	9	90	27	7	2	62	1.36

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