genome.fa.s16.2.7.7.80.10.50.1000.35.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  35  of  175  ( 20966 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)
9496230--9496266	7	5.4	7	96	3	67	75	0	24	0	0.80
9499617--9499697	39	2.1	39	97	0	153	23	17	25	33	1.96
9513487--9513524	4	10.0	4	83	11	53	73	2	0	23	0.95
9515621--9516202	44	13.1	44	72	9	351	30	24	15	30	1.95
9515621--9516242	89	7.1	89	81	5	565	30	24	15	30	1.95
9515680--9516244	132	4.3	130	82	4	500	31	24	14	29	1.95
9516162--9516239	37	2.1	38	87	2	113	33	25	14	26	1.94
9517091--9517139	26	1.9	26	88	12	75	61	8	14	16	1.56
9528379--9528423	24	2.0	23	83	16	58	60	0	4	35	1.17
9528501--9528639	38	3.5	40	72	16	94	61	2	2	33	1.26
9529052--9529083	11	2.9	11	90	0	55	6	15	56	21	1.62
9536503--9536542	19	2.0	20	86	13	57	35	0	15	50	1.44
9536824--9536933	25	4.4	25	72	11	82	18	26	20	34	1.96
9536942--9536989	25	1.9	25	86	0	69	20	22	18	37	1.94
9537193--9537290	27	3.3	27	65	26	72	26	11	17	44	1.82
9537198--9537301	37	3.1	37	65	32	106	25	11	17	46	1.81
9539370--9539413	20	2.2	20	91	0	70	36	2	2	59	1.23
9547197--9547244	21	2.3	21	96	0	87	45	20	6	27	1.75
9548495--9548578	29	2.8	30	78	10	100	29	14	21	34	1.93
9574233--9574293	5	12.4	5	96	3	115	39	0	0	60	0.97
9574316--9574363	6	7.7	6	86	9	69	0	4	14	81	0.84
9574292--9574375	18	4.6	18	77	11	64	5	8	9	76	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9574321--9574364	14	3.4	14	84	15	67	0	4	13	81	0.83
9574316--9574365	26	1.9	26	91	0	82	0	4	14	82	0.82
9586806--9586861	23	2.6	21	78	13	60	41	10	0	48	1.38
9586820--9586875	21	2.5	22	82	11	69	41	12	0	46	1.42
9587619--9587676	27	2.2	27	84	9	75	43	5	3	48	1.42
9587657--9587713	20	2.8	21	76	7	55	45	8	1	43	1.45
9593455--9593487	9	3.6	9	95	4	57	24	0	18	57	1.40
9593455--9593500	19	2.4	19	85	0	56	23	0	19	56	1.42
9596462--9596494	15	2.2	15	94	0	57	21	12	9	57	1.62
9597828--9597883	28	1.9	28	82	13	69	33	0	3	62	1.12
9605171--9605205	16	2.1	16	94	5	61	54	0	0	45	0.99
9608794--9608840	24	1.9	25	86	4	69	21	6	25	46	1.74
9609693--9609725	2	16.5	2	100	0	66	48	0	51	0	1.00
9610508--9610647	44	3.0	48	73	8	135	32	5	22	39	1.76
9615695--9615741	23	2.0	23	95	0	85	23	10	23	42	1.85
9618217--9618254	17	2.2	17	86	9	51	34	13	2	50	1.55
9626817--9626914	29	3.5	29	78	10	89	39	25	14	20	1.90
9633970--9634007	19	2.0	19	94	0	67	65	5	7	21	1.38
9646389--9646545	77	2.0	77	97	0	296	30	15	24	29	1.95
9648037--9648310	84	3.3	84	82	4	319	25	14	24	36	1.93
9648037--9648305	28	9.8	28	79	3	251	24	14	24	36	1.93
9648106--9648334	111	2.1	112	82	0	271	23	14	25	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9651660--9651718	23	2.5	24	86	8	84	13	18	28	38	1.89
9653610--9653664	3	18.7	3	96	3	103	32	0	0	67	0.91
9654297--9654338	15	2.8	15	81	0	57	30	0	9	59	1.29
9659920--9660283	132	2.8	131	92	1	595	28	17	24	29	1.98
9661469--9661519	3	16.7	3	91	4	84	31	0	1	66	1.03
9661762--9661806	19	2.4	19	85	7	56	31	2	0	66	1.04
9666503--9666547	23	2.0	23	86	4	65	37	6	17	37	1.76
9671250--9671298	22	2.2	22	83	16	66	48	0	2	48	1.12
9671592--9671637	23	2.0	23	91	0	74	30	0	0	69	0.89
9675845--9675906	27	2.3	27	81	10	72	62	0	4	32	1.16
9679627--9679666	16	2.5	16	87	0	62	45	2	27	25	1.66
9679642--9679738	45	2.2	44	88	5	142	31	4	27	36	1.76
9679897--9680090	56	3.3	55	70	18	174	51	4	1	42	1.32
9679877--9680117	122	2.0	120	93	1	410	50	5	1	42	1.33
9679897--9680102	61	3.5	60	70	15	187	50	5	1	42	1.34
9681681--9681837	37	4.0	37	82	14	199	26	21	15	36	1.93
9681754--9682120	46	7.6	46	86	7	437	29	22	14	34	1.93
9681797--9682114	52	6.3	52	86	7	417	28	22	13	34	1.93
9681754--9682106	196	1.8	196	92	0	598	28	22	14	34	1.93
9681754--9682120	98	3.7	97	84	9	492	29	22	14	34	1.93
9686555--9686588	14	2.4	14	90	0	50	50	8	11	29	1.69
9687133--9687169	16	2.3	16	86	13	58	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9687140--9687235	33	2.9	34	76	13	101	51	0	1	47	1.07
9687181--9687223	20	2.0	22	86	8	63	55	0	0	44	0.99
9687287--9687315	9	3.2	9	100	0	58	48	0	0	51	1.00
9692024--9692329	111	2.8	110	90	2	458	29	15	20	34	1.93
9704117--9704793	50	13.7	50	78	5	613	33	22	19	24	1.97
9704054--9704790	99	7.4	99	88	3	887	33	22	19	24	1.97
9704106--9704823	149	4.8	148	76	5	599	33	22	20	23	1.97
9706606--9706660	27	2.0	27	82	7	65	30	10	3	54	1.52
9707041--9707346	111	2.8	109	89	3	447	29	16	20	34	1.94
9708999--9709028	15	1.9	16	93	6	53	40	6	10	43	1.64
9710381--9710560	88	2.0	89	86	1	254	33	12	20	33	1.90
9712158--9712214	24	2.4	24	77	16	64	31	3	7	57	1.42
9712158--9712211	12	4.5	12	77	9	56	31	3	7	57	1.44
9713529--9713562	16	2.1	16	88	0	50	20	14	20	44	1.87
9718996--9719035	16	2.4	18	76	20	50	50	2	40	7	1.44
9723682--9723706	12	2.1	12	100	0	50	24	32	8	36	1.84
9724208--9724892	132	5.2	132	90	1	1004	30	18	24	27	1.98
9724309--9724777	44	10.7	44	64	18	181	29	18	23	27	1.98
9724906--9724962	6	9.5	6	82	0	69	29	3	5	61	1.35
9724906--9724962	9	6.3	9	83	0	69	29	3	5	61	1.35
9727482--9727547	20	3.3	20	79	8	82	33	12	19	34	1.89
9727689--9727756	20	3.4	20	76	8	66	35	5	17	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9727729--9727766	20	1.9	20	88	0	58	34	2	13	50	1.55
9728262--9728297	17	2.2	16	90	5	54	27	0	2	69	1.02
9728683--9728780	11	9.3	11	69	16	64	24	29	1	44	1.60
9728683--9728743	22	2.8	22	80	9	72	22	31	1	44	1.63
9728705--9728804	51	2.0	51	82	4	121	28	26	1	45	1.60
9728801--9728838	19	1.9	19	89	5	58	36	2	0	60	1.11
9728800--9728850	10	5.1	10	81	9	50	33	1	0	64	1.05
9730611--9730653	18	2.4	18	88	0	59	18	27	9	44	1.80
9731218--9731291	21	3.6	21	77	13	82	44	36	0	18	1.50
9731298--9731330	15	2.2	15	94	0	57	48	24	0	27	1.51
9731193--9731383	68	2.7	70	90	4	278	46	33	1	19	1.57
9731313--9731490	86	2.1	86	89	2	268	43	34	1	19	1.61
9731467--9731523	6	9.0	6	78	17	62	36	43	0	19	1.51
9731434--9731523	39	2.3	39	96	0	162	36	41	1	21	1.60
9731491--9731550	15	4.2	15	70	20	56	43	30	1	25	1.64
9731479--9731534	27	2.1	27	100	0	112	42	35	0	21	1.53
9731620--9731652	15	2.2	15	94	0	57	48	24	0	27	1.51
9731483--9731726	102	2.4	103	84	10	315	43	34	1	20	1.60
9731682--9731806	27	4.7	27	84	7	175	42	36	0	20	1.58
9731670--9731699	6	5.0	6	91	0	51	30	50	3	16	1.62
9731789--9731814	6	4.3	6	100	0	52	38	46	0	15	1.46
9731769--9731803	18	1.9	18	88	0	52	48	34	2	14	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9731829--9731991	35	4.4	36	69	11	107	46	9	5	38	1.60
9732028--9732077	22	2.2	23	89	3	75	46	2	2	50	1.24
9733101--9733134	17	1.9	17	88	5	50	32	8	0	58	1.29
9734025--9734067	19	2.3	19	95	0	77	48	11	13	25	1.77
9735171--9735209	19	2.0	20	85	14	55	43	0	2	53	1.14
9735310--9735337	9	3.1	9	100	0	56	57	10	0	32	1.33
9735280--9735421	68	2.1	66	93	2	239	45	9	4	40	1.55
9735410--9735451	16	2.6	16	92	0	66	42	7	2	47	1.43
9735425--9735480	23	2.5	23	82	2	69	44	1	1	51	1.22
9736719--9736761	22	1.9	22	85	4	59	48	2	13	34	1.56

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