genome.fa.s16.2.7.7.80.10.50.1000.10.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  10  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)
3001381--3001461	31	2.6	31	82	5	94	50	14	6	28	1.67
3005239--3005301	14	4.6	14	71	13	51	38	1	0	60	1.07
3005298--3005334	16	2.3	17	81	13	51	54	0	2	43	1.14
3006822--3006884	4	15.8	4	80	6	56	22	0	4	73	1.02
3015537--3015603	32	2.0	35	83	13	88	47	5	2	43	1.43
3018438--3018463	6	4.3	6	100	0	52	15	0	0	84	0.62
3021861--3021901	3	14.0	3	89	5	66	34	0	0	65	0.93
3023055--3023168	60	1.9	60	82	8	142	44	11	6	37	1.65
3035543--3035577	12	2.9	12	91	0	52	25	14	25	34	1.94
3040103--3040152	18	2.6	19	78	15	59	44	0	0	56	0.99
3046548--3046591	21	2.1	21	87	8	63	40	0	0	59	0.98
3048455--3048506	16	3.2	16	91	0	77	28	0	34	36	1.58
3048487--3048581	45	2.1	44	86	1	127	34	5	26	33	1.79
3048743--3048777	18	2.0	17	88	5	52	54	0	0	45	0.99
3048701--3048773	27	2.7	27	76	8	76	52	2	0	45	1.15
3048680--3048981	147	2.0	147	81	5	329	46	4	3	45	1.41
3048991--3049043	16	3.4	17	73	21	53	56	0	0	43	0.99
3048899--3049090	56	3.2	58	68	24	157	50	5	2	42	1.36
3048920--3049103	60	3.1	59	67	14	151	49	5	2	41	1.41
3048876--3049162	59	4.8	58	66	16	169	50	3	2	43	1.33
3048870--3049163	119	2.5	120	91	3	477	50	4	2	43	1.34
3054378--3054451	38	2.1	36	85	10	98	56	1	1	40	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3054656--3054699	22	2.0	22	90	0	70	9	9	13	68	1.40
3058434--3058964	265	2.0	265	98	0	1035	24	13	16	45	1.83
3060112--3060144	3	11.0	3	100	0	66	33	66	0	0	0.92
3069162--3069208	22	2.1	22	84	7	60	36	2	4	57	1.30
3069257--3069437	93	2.0	93	94	1	319	48	7	4	39	1.51
3069269--3069472	93	2.2	92	87	7	281	48	6	5	39	1.53
3069468--3069508	16	2.6	16	88	0	64	43	4	4	46	1.46
3069482--3069543	22	2.7	23	87	5	81	46	1	3	48	1.28
3069657--3069694	20	1.9	20	94	0	67	36	26	0	36	1.57
3069858--3069900	23	1.9	22	86	13	61	39	4	4	51	1.44
3074782--3074831	24	2.1	24	100	0	100	30	10	32	28	1.89
3081010--3081054	22	2.0	22	95	0	81	40	0	8	51	1.33
3080976--3081117	63	2.3	61	81	11	162	42	3	13	40	1.61
3081326--3081357	3	10.7	3	100	0	64	68	0	0	31	0.90
3090832--3090896	31	2.1	31	88	0	94	23	40	21	15	1.91
3098338--3098411	29	2.5	30	82	2	105	50	12	4	33	1.59
3099178--3099239	29	2.1	31	81	6	74	19	6	12	61	1.53
3102173--3102217	23	2.0	23	86	8	65	46	6	6	40	1.56
3104222--3104366	41	3.3	41	68	20	121	41	5	3	49	1.43
3104238--3104385	42	3.1	51	63	25	140	39	6	3	50	1.46
3104193--3104386	92	2.1	92	100	0	388	39	7	4	48	1.50
3104383--3104766	9	44.9	9	67	15	129	45	19	4	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3104193--3104442	92	2.7	90	88	7	272	41	9	4	45	1.56
3104502--3104608	37	2.9	37	94	2	182	49	18	2	28	1.62
3104586--3104706	16	8.0	16	66	22	73	46	18	5	29	1.72
3104572--3104647	40	1.9	40	86	0	107	47	22	3	26	1.68
3104611--3104767	25	6.2	25	70	7	111	43	21	4	30	1.72
3104595--3104736	49	2.9	46	72	14	133	44	19	5	30	1.74
3108917--3109025	21	5.2	21	84	0	119	33	17	43	5	1.72
3109381--3109779	43	9.3	42	72	9	216	23	19	29	28	1.98
3109381--3109779	86	4.6	85	76	6	293	23	19	29	28	1.98
3109381--3109637	130	2.0	129	81	5	304	22	16	30	29	1.96
3109381--3109779	130	3.1	129	72	9	292	23	19	29	28	1.98
3110162--3110191	3	10.0	3	100	0	60	66	0	0	33	0.92
3111887--3111942	21	2.9	21	75	21	59	3	37	23	35	1.72
3113731--3113791	9	6.8	9	92	0	95	22	9	27	39	1.86
3113952--3113976	12	2.1	12	100	0	50	16	24	36	24	1.94
3114954--3115001	18	2.7	18	96	0	87	35	12	12	39	1.81
3117245--3117292	8	5.6	8	80	7	51	79	2	4	14	0.98
3129331--3129386	24	2.3	24	75	6	60	51	5	7	35	1.52
3129415--3129449	18	1.9	18	94	0	61	54	2	5	37	1.39
3129670--3129759	36	2.5	37	80	12	98	55	2	7	34	1.41
3129884--3129921	3	12.7	3	100	0	76	34	31	0	34	1.58
3131253--3131339	44	2.0	42	82	4	102	27	22	16	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3131246--3132068	132	6.2	132	93	1	1283	27	21	18	32	1.97
3131405--3132005	44	13.7	44	64	14	193	26	23	18	31	1.98
3132041--3132343	46	6.6	46	88	2	423	30	26	16	26	1.96
3132058--3132466	138	3.1	134	83	10	525	30	26	15	27	1.96
3132311--3132376	33	2.0	33	93	0	114	37	18	19	24	1.93
3132344--3132464	46	2.6	46	89	0	179	33	23	16	26	1.96
3133526--3133572	21	2.2	21	88	0	67	25	38	10	25	1.88
3136547--3136694	57	2.5	57	84	9	190	31	21	25	22	1.98
3136813--3136941	66	2.0	66	98	0	249	17	17	37	27	1.92
3137542--3137589	6	7.3	6	78	17	51	0	20	0	79	0.74
3137543--3137590	21	2.3	21	92	3	80	0	20	0	79	0.74
3137546--3137589	13	3.8	12	80	20	58	0	20	0	79	0.73
3137602--3137648	16	2.9	15	82	17	51	14	0	8	76	1.01
3137610--3137650	12	3.4	12	81	18	50	17	0	9	73	1.09
3141928--3142004	13	5.9	13	74	6	75	35	25	6	32	1.82
3144885--3144969	42	2.0	42	95	0	152	34	21	21	23	1.97
3144946--3144992	23	2.0	23	100	0	94	23	17	25	34	1.96
3144904--3145026	65	1.9	65	98	0	237	29	20	23	26	1.99
3144965--3145296	42	7.9	42	80	6	300	31	20	20	27	1.98
3144965--3145300	84	4.0	84	79	5	331	31	20	20	27	1.97
3145607--3145677	21	3.4	21	80	0	79	2	45	18	33	1.64
3148748--3148823	23	3.3	23	96	0	143	31	26	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153694--3154228	7	62.0	9	62	33	84	32	0	20	46	1.53
3153739--3154238	26	20.1	25	88	8	659	32	0	20	47	1.52
3153702--3154238	197	2.7	196	93	4	908	32	0	20	46	1.52
3154292--3154404	34	3.2	34	68	22	106	42	6	1	49	1.38
3154275--3154419	72	2.0	72	100	0	290	41	6	1	50	1.38
3154307--3154422	38	3.2	38	65	22	111	37	7	1	53	1.40
3154570--3154640	13	5.5	13	86	0	106	50	2	7	39	1.44
3154569--3154640	26	2.8	26	100	0	144	50	2	6	40	1.44
3154612--3154755	40	3.5	40	87	7	216	46	2	9	40	1.51
3154729--3154926	17	10.6	17	71	23	132	41	1	12	44	1.51
3154685--3154809	57	2.1	57	88	5	178	42	1	12	44	1.51
3154746--3154852	40	2.7	40	94	2	189	43	1	11	42	1.51
3154645--3154906	97	2.6	99	95	3	458	43	1	11	43	1.51
3154786--3154935	57	2.6	57	95	2	266	42	1	11	44	1.48
3156268--3156307	11	3.7	11	93	3	64	27	27	10	35	1.89
3157291--3157491	84	2.4	83	93	2	330	29	17	19	32	1.95
3157877--3157902	12	2.2	12	100	0	52	19	34	7	38	1.80
3158515--3159215	112	6.3	112	94	0	1183	26	28	19	25	1.98
3158515--3159215	223	3.1	224	93	1	1192	26	28	19	25	1.98
3159163--3159279	40	2.9	40	93	0	189	20	30	15	33	1.94
3160505--3160538	18	2.0	16	88	11	50	52	5	0	41	1.25
3168466--3168589	51	2.4	51	91	0	203	26	25	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3189056--3189094	18	2.1	19	85	4	53	28	2	7	61	1.37
3189065--3189100	18	2.0	17	89	10	54	27	0	8	63	1.23
3189089--3189113	6	4.2	6	100	0	50	36	0	0	64	0.94
3189483--3189507	7	3.6	7	100	0	50	12	0	0	88	0.53
3193988--3194161	63	2.8	63	83	1	224	28	23	17	30	1.97
3194733--3194770	12	2.9	13	88	11	60	78	0	21	0	0.74
3195973--3196030	28	2.1	28	100	0	116	32	13	18	34	1.91
3202099--3202468	122	3.0	125	83	7	458	30	14	20	33	1.93
3210391--3210421	15	2.1	15	100	0	62	38	25	12	22	1.90
3210430--3210471	20	2.1	20	86	0	57	28	16	14	40	1.88

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