genome.fa.s17.2.7.7.80.10.50.1000.10.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  10  of  185  ( 22116 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)
2830286--2830532	123	2.0	123	87	0	359	28	11	37	22	1.89
2846105--2846325	110	2.0	110	86	0	307	31	23	16	28	1.96
2856950--2857006	28	2.0	28	96	0	105	22	14	22	40	1.90
2858312--2858452	56	2.5	55	89	2	212	25	14	14	44	1.84
2859361--2859407	7	6.7	7	92	0	76	46	27	0	25	1.53
2883344--2883393	23	2.2	23	92	0	82	64	2	4	30	1.23
2883350--2883398	23	2.1	23	100	0	98	57	4	4	34	1.37
2887558--2887582	13	1.9	13	100	0	50	16	0	20	64	1.30
2898781--2898856	19	4.2	20	69	20	67	57	6	0	35	1.25
2901986--2902119	40	3.4	39	71	11	103	30	25	17	26	1.97
2902249--2902273	11	2.3	11	100	0	50	56	8	0	36	1.29
2902981--2903032	19	2.6	20	85	11	63	1	28	3	65	1.21
2903052--2903130	27	2.8	31	76	20	91	48	2	2	46	1.29
2904783--2904824	7	6.1	7	81	13	52	42	33	0	23	1.55
2904779--2904815	13	2.7	14	87	8	58	45	32	0	21	1.52
2908343--2908474	40	3.3	40	87	2	176	27	28	20	23	1.99
2908343--2908527	40	4.7	40	81	6	144	27	28	20	24	1.99
2908459--2908536	40	1.9	41	82	10	97	26	28	21	23	1.99
2916205--2916336	40	3.3	40	87	2	176	27	28	20	23	1.99
2916205--2916389	40	4.7	40	81	6	144	27	28	20	24	1.99
2916321--2916398	40	1.9	41	82	10	97	26	28	21	23	1.99
2919408--2919498	22	4.1	22	78	2	83	30	14	16	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2919413--2919498	45	1.9	45	87	0	127	32	13	15	38	1.87
2919698--2919733	16	2.2	16	90	0	54	33	19	22	25	1.97
2921986--2922027	8	5.5	8	86	8	61	0	9	0	90	0.45
2921993--2922027	9	4.1	9	89	10	56	0	8	0	91	0.42
2921986--2922027	15	2.8	16	89	7	61	0	9	0	90	0.45
2930711--2930748	16	2.2	18	86	9	53	26	21	2	50	1.62
2934285--2934383	42	2.4	42	87	3	146	38	12	28	21	1.89
2938135--2938177	15	2.9	15	82	0	59	32	18	34	13	1.90
2939163--2939197	3	11.7	3	100	0	70	31	0	0	68	0.90
2957012--2957052	20	2.1	19	90	4	64	46	12	4	36	1.63
2961715--2961751	18	2.0	19	89	5	58	56	13	0	29	1.37
2961777--2961878	51	2.0	51	100	0	204	41	15	23	19	1.90
2962311--2962355	17	2.6	18	86	6	58	48	4	0	46	1.22
2963221--2963262	4	10.8	4	94	5	77	23	0	26	50	1.50
2965658--2965725	2	34.0	2	100	0	136	0	50	0	50	1.00
2966111--2966164	27	2.0	27	88	0	81	37	7	0	55	1.28
2966918--2966967	20	2.5	20	90	9	75	12	6	34	48	1.65
2966935--2966979	20	2.2	20	84	0	54	11	6	44	37	1.66
2967508--2967570	30	2.1	30	93	0	108	57	14	3	25	1.52
2973831--2973880	25	2.0	25	100	0	100	24	4	20	52	1.63
2974004--2974051	17	2.8	17	79	17	55	39	0	14	45	1.45
2974471--2974518	25	2.0	25	87	4	71	16	25	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2974582--2974673	26	3.6	25	75	13	89	13	27	22	36	1.91
2975239--2975288	20	2.5	20	87	6	66	38	14	16	32	1.88
2975274--2975330	19	3.2	19	83	14	68	45	8	5	40	1.58
2975274--2975332	17	3.4	17	80	17	68	45	8	6	38	1.61
2975280--2975337	19	3.2	18	81	13	57	53	8	5	32	1.54
2975341--2975590	17	14.0	18	67	18	89	42	10	16	30	1.82
2975341--2975589	35	7.0	35	75	11	179	42	10	16	30	1.82
2975340--2975539	73	2.8	72	82	6	226	41	11	18	30	1.84
2975340--2975539	71	2.8	73	81	8	221	41	11	18	30	1.84
2975497--2975542	20	2.4	20	85	7	60	45	8	13	32	1.73
2976288--2976325	13	2.9	14	88	11	62	0	18	0	81	0.69
2976417--2976464	19	2.5	19	79	0	51	8	20	43	27	1.80
2976635--2976688	13	4.7	11	84	10	65	0	22	0	77	0.76
2976636--2976694	11	4.8	13	76	23	58	0	23	0	76	0.79
2976639--2976697	6	9.3	6	76	10	55	0	23	0	76	0.79
2976776--2976824	14	3.4	15	81	16	59	0	32	0	67	0.91
2977277--2977403	29	4.3	29	82	7	132	37	2	24	35	1.69
2977931--2977978	15	3.1	15	82	8	60	47	0	18	33	1.49
2979607--2979644	20	1.9	20	100	0	76	21	18	26	34	1.96
2981945--2981991	25	2.0	25	83	8	62	27	4	2	65	1.22
2981957--2982004	25	1.9	25	83	8	62	29	8	0	62	1.24
2987484--2987533	21	2.4	21	100	0	100	48	10	28	14	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2996153--2996222	31	2.3	31	94	0	122	38	14	20	27	1.91
2996452--2996509	27	2.1	28	81	15	68	62	3	0	34	1.12
2996714--2996780	23	2.7	24	82	13	66	44	2	4	47	1.38
2997206--2997242	20	1.9	20	88	5	58	72	2	2	21	1.09
3001614--3001891	93	3.0	92	84	6	344	28	11	10	48	1.73
3002012--3002180	90	1.9	90	87	4	252	35	11	15	37	1.84
3002458--3002494	19	1.9	19	100	0	74	62	0	0	37	0.96
3002461--3002524	30	2.1	30	82	0	74	64	0	1	34	1.03
3004732--3004776	22	2.0	22	91	0	72	33	2	15	48	1.57
3008508--3008552	22	2.0	22	91	0	72	33	2	15	48	1.57
3009747--3009780	16	2.1	17	88	5	52	52	0	0	47	1.00
3009835--3009876	20	2.1	20	95	0	75	40	2	16	40	1.62
3010071--3010114	21	2.1	21	100	0	88	9	59	27	4	1.48
3010124--3010164	18	2.3	18	95	0	73	41	0	0	58	0.98
3010131--3010170	18	2.2	18	86	0	53	35	0	2	62	1.09
3013239--3013305	9	7.4	9	81	6	82	43	17	10	28	1.82
3013239--3013305	27	2.5	27	85	4	91	43	17	10	28	1.82
3014248--3014293	20	2.3	20	85	7	58	73	0	2	23	0.94
3014269--3014302	17	1.9	17	94	5	59	70	0	0	29	0.87
3014248--3014303	19	2.9	19	79	7	60	71	0	1	26	0.96
3016467--3016744	138	2.0	138	96	0	511	26	10	15	47	1.77
3027762--3027811	26	1.9	26	84	8	66	30	14	10	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3027916--3027975	29	2.1	29	87	0	84	23	21	23	31	1.98
3055626--3055654	11	2.5	12	88	11	51	55	6	13	24	1.63
3066461--3066645	50	3.7	50	83	5	225	22	28	23	25	1.99
3068983--3069021	21	1.9	20	94	5	53	23	25	28	23	1.99
3074633--3074716	14	5.9	14	71	9	62	23	29	22	23	1.99
3074824--3074889	15	4.5	15	82	1	80	30	21	19	28	1.98
3074824--3074890	30	2.3	30	84	2	91	31	20	19	28	1.97
3077512--3077542	16	1.9	16	93	0	53	38	3	3	54	1.32
3083528--3083567	20	2.0	20	85	5	53	62	0	2	35	1.09
3083524--3083578	21	2.6	21	77	8	58	61	0	1	36	1.06
3088367--3088391	12	2.1	12	100	0	50	72	0	8	20	1.10
3090397--3090513	44	2.7	44	76	11	123	23	23	24	28	2.00
3090651--3091517	88	9.9	88	93	1	1279	24	24	23	27	2.00
3092580--3092626	21	2.2	21	88	0	67	25	38	10	25	1.88
3097660--3097684	12	2.1	12	100	0	50	72	0	8	20	1.10
3103012--3103038	12	2.2	12	100	0	54	0	25	14	59	1.36
3106755--3106785	3	10.3	3	100	0	62	32	0	0	67	0.91
3106945--3107056	47	2.3	47	80	11	131	39	13	1	45	1.54
3107058--3107109	24	2.1	24	85	7	68	40	5	1	51	1.37
3107159--3107199	12	3.4	13	80	16	52	21	0	4	73	1.02
3109057--3109091	19	1.9	19	88	11	56	17	17	42	22	1.88
3109111--3109174	25	2.6	25	90	5	94	40	31	20	7	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3109633--3109689	28	2.0	28	100	0	114	31	29	3	35	1.75
3114475--3114516	16	2.6	16	77	11	50	45	4	0	50	1.23
3114502--3114537	18	1.9	18	88	5	54	58	2	0	38	1.13
3116057--3116142	38	2.2	39	80	12	97	32	2	1	63	1.14
3116088--3116145	26	2.2	27	87	6	84	37	0	1	60	1.07
3116590--3116659	29	2.3	30	87	4	97	25	12	12	48	1.77
3119364--3119419	29	1.9	29	85	7	78	55	0	3	41	1.17
3122786--3122818	15	2.3	15	94	5	59	27	0	0	72	0.85
3123485--3123518	16	2.0	17	88	11	52	82	2	14	0	0.79
3123485--3123518	10	3.1	11	91	8	52	82	2	14	0	0.79

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