genome.fa.s22.2.7.7.80.10.50.1000.3.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  3  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)
681688--681735	21	2.3	21	81	0	60	31	37	25	6	1.81
685508--685761	46	5.6	46	92	1	415	31	16	22	28	1.96
687020--687433	125	3.3	125	94	0	711	26	19	21	32	1.97
687621--687661	21	2.0	21	90	0	64	48	41	0	9	1.36
687621--687661	14	2.9	14	81	0	55	48	41	0	9	1.36
689494--689742	50	4.8	50	85	4	284	20	29	24	26	1.99
689493--689742	100	2.4	104	88	6	357	20	29	24	26	1.99
689837--689868	13	2.5	13	94	0	55	56	12	0	31	1.37
690080--690137	30	1.9	30	89	0	89	31	24	3	41	1.71
697088--697336	50	4.8	50	85	4	284	20	29	24	26	1.99
697087--697336	100	2.4	104	88	6	357	20	29	24	26	1.99
697431--697462	13	2.5	13	94	0	55	56	12	0	31	1.37
697674--697731	30	1.9	30	89	0	89	31	24	3	41	1.71
698601--698650	25	2.0	25	88	0	73	62	2	0	36	1.07
717651--717721	31	2.3	31	85	0	97	35	16	21	26	1.95
722795--722950	41	3.8	41	96	1	278	26	19	23	30	1.98
722795--722992	82	2.4	82	87	5	285	27	20	24	28	1.99
730368--730523	41	3.8	41	96	1	278	26	19	23	30	1.98
730368--730565	82	2.4	82	87	5	285	27	20	24	28	1.99
731566--731638	28	2.7	28	76	4	78	24	19	26	30	1.98
731736--731809	24	3.1	24	76	7	62	39	12	14	33	1.84
731705--731809	23	4.4	24	70	15	76	35	13	19	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731871--731930	23	2.6	22	80	12	59	30	13	21	35	1.92
734713--734857	69	2.1	66	87	7	202	31	28	16	23	1.96
734780--734995	103	2.1	102	88	5	323	31	31	19	17	1.95
734780--734995	100	2.1	99	86	9	294	31	31	19	17	1.95
735321--735384	30	2.2	29	81	10	76	29	28	6	35	1.82
735328--735384	30	1.9	30	85	3	80	29	24	7	38	1.82
742242--742293	26	2.0	26	92	0	86	28	34	21	15	1.94
742254--742403	70	2.1	71	92	1	248	30	30	16	23	1.96
742323--742544	104	2.2	103	92	3	367	31	31	18	18	1.95
742872--742935	30	2.2	29	81	10	76	29	28	6	35	1.82
742879--742935	30	1.9	30	85	3	80	29	24	7	38	1.82
744196--744276	23	3.4	23	76	6	99	27	18	17	37	1.93
744196--744304	48	2.2	49	93	4	184	25	18	15	40	1.90
744266--744332	28	2.4	28	97	0	125	22	17	13	46	1.83
744218--744380	79	2.1	74	87	8	231	24	16	14	44	1.85
744294--744427	48	2.7	48	83	5	162	23	17	16	42	1.88
745607--745692	43	2.0	43	97	0	163	33	4	13	47	1.64
759374--759398	12	2.1	12	100	0	50	56	8	0	36	1.29
772871--772938	25	2.7	25	80	8	93	33	5	2	57	1.38
773261--773301	20	2.0	21	85	4	57	26	7	2	63	1.33
776739--776798	22	2.7	23	86	2	77	60	0	0	40	0.97
776747--776799	23	2.4	21	81	12	61	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
777519--777590	37	1.9	37	97	0	135	8	19	20	51	1.72
778078--778127	19	2.6	19	81	9	66	32	8	0	60	1.26
778083--778128	10	4.8	10	78	7	51	32	8	0	58	1.28
778077--778146	31	2.4	29	77	20	74	32	7	1	58	1.34
782973--783012	17	2.3	18	86	4	55	57	0	0	42	0.98
790697--790765	25	2.8	25	77	4	68	31	20	28	18	1.96
790723--790786	24	2.6	25	82	2	67	34	20	29	15	1.94
822211--822316	46	2.3	46	81	3	133	23	34	22	18	1.96
824467--824506	17	2.4	17	86	0	53	72	10	12	5	1.26
825862--825898	19	1.9	19	94	0	65	56	18	0	24	1.41
828903--828970	31	2.2	31	78	5	75	33	5	14	45	1.69
830498--830554	28	2.0	28	100	0	114	43	21	0	35	1.52
832853--832907	28	2.0	28	82	7	67	45	1	0	52	1.11
840639--840679	21	1.9	21	85	5	55	41	9	14	34	1.79
841455--841484	13	2.3	13	94	0	51	60	6	3	30	1.39
843627--843670	16	2.9	15	83	10	54	52	0	0	47	1.00
845375--845434	21	2.9	21	84	0	75	35	1	3	60	1.23
847157--847200	22	2.0	22	90	0	70	11	6	13	68	1.39
850056--850082	3	9.0	3	100	0	54	0	33	0	66	0.92
852554--852608	13	4.2	14	71	15	55	78	5	0	16	0.93
852720--853664	153	6.2	152	87	5	1321	30	9	7	52	1.61
852720--853664	462	2.1	457	87	4	1357	30	9	7	52	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
857228--857263	7	5.1	7	93	6	56	72	2	25	0	0.98
860131--860373	50	4.7	50	85	3	279	26	21	28	23	1.99
860494--860532	12	3.2	12	85	0	51	51	5	23	20	1.67
863425--863523	50	2.0	50	89	0	153	31	21	14	33	1.93
863455--864148	51	13.6	51	75	7	579	29	26	14	29	1.95
863489--864148	102	6.5	102	96	0	1189	28	26	14	29	1.95
874619--874649	15	2.1	15	100	0	62	19	12	16	51	1.76
876011--876069	30	2.0	30	96	0	109	16	20	18	44	1.87
886990--887026	16	2.3	16	90	0	56	40	2	32	24	1.69
887008--887100	44	2.1	46	89	4	145	27	4	30	37	1.76
887008--887113	39	2.5	44	83	11	132	29	3	31	35	1.75
887258--887325	17	4.2	17	74	22	67	57	1	0	41	1.08
887251--887290	14	2.9	15	82	14	50	52	0	0	47	1.00
887257--887323	16	4.3	15	71	25	50	56	1	0	41	1.08
889580--889646	29	2.3	29	94	0	116	37	23	23	14	1.93
891084--891126	19	2.2	20	83	4	52	27	4	2	65	1.25
893657--893698	21	2.0	21	95	0	75	38	11	14	35	1.83
903741--903781	7	5.9	7	97	0	64	19	14	29	36	1.92
903740--903784	14	3.2	14	90	0	72	22	13	26	37	1.91
905329--905374	9	5.2	9	84	5	67	63	2	0	34	1.07
906176--906205	10	3.0	10	95	0	51	43	10	10	36	1.72
906402--906536	72	1.9	71	80	11	159	52	5	3	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
906930--906954	9	2.8	9	100	0	50	40	0	0	60	0.97
912514--912710	98	2.0	98	95	0	358	28	9	23	38	1.86
917924--918000	31	2.6	29	76	13	75	35	11	12	40	1.80
921679--921716	19	2.0	20	84	5	51	68	0	2	28	1.03
923466--923499	16	2.1	16	88	0	50	41	2	20	35	1.68
927563--927623	21	3.0	21	84	11	74	22	3	1	72	1.09
928316--928363	7	6.4	7	79	13	51	70	10	16	2	1.24
937270--937340	28	2.5	28	86	0	88	52	12	9	25	1.70
948345--948388	21	2.0	22	86	8	63	47	0	0	52	1.00
948376--948404	12	2.4	12	100	0	58	68	0	0	31	0.89
948373--948437	31	2.1	31	82	5	78	64	0	0	35	0.94
949940--950001	31	2.0	31	87	6	90	62	4	4	27	1.36
964948--964978	5	6.2	5	96	0	53	22	22	35	19	1.96
968230--968260	16	1.9	16	93	0	53	9	9	9	70	1.33
969346--969370	13	1.9	13	100	0	50	48	0	12	40	1.40
969956--970015	16	3.7	16	69	8	50	45	6	0	48	1.29
969970--970010	21	2.0	20	85	4	55	43	7	0	48	1.30
969879--970010	59	2.2	60	82	15	159	41	4	4	49	1.43
969968--970014	11	4.3	12	75	20	50	42	6	0	51	1.27
971199--971342	54	2.7	52	75	9	139	21	30	24	23	1.99
972097--972636	40	13.4	40	80	2	571	35	16	26	21	1.95
976727--976848	23	5.3	23	88	3	183	31	26	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
976727--976848	46	2.7	46	93	0	208	31	26	20	22	1.98
977074--977112	18	2.2	17	86	13	53	46	20	0	33	1.51
978185--978255	24	2.9	24	81	10	81	43	0	0	56	0.99
978185--978257	5	14.4	5	78	18	71	43	0	0	56	0.99
978190--978258	36	1.9	36	85	5	95	44	0	0	55	0.99
985205--985255	25	2.0	25	84	0	66	11	5	23	58	1.55
989992--990027	19	1.9	19	94	5	65	44	13	2	38	1.59
993878--993914	19	1.9	19	94	0	65	43	16	0	40	1.48
1004604--1004773	63	2.7	63	81	4	180	55	1	2	39	1.25
1004669--1004693	12	2.1	12	100	0	50	68	0	0	32	0.90

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