genome.fa.s21.2.7.7.80.10.50.1000.180.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: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  55873576

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   

This is table  180  of  182  ( 21791 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)
54831078--54831114	19	1.9	19	100	0	74	35	27	5	32	1.79
54834012--54834083	31	2.3	31	74	9	74	44	13	13	27	1.82
54841348--54841372	2	12.5	2	100	0	50	48	0	0	52	1.00
54842908--54842934	6	4.5	6	100	0	54	51	0	14	33	1.43
54852337--54852474	62	2.3	60	81	7	179	34	11	18	35	1.87
54866253--54866393	70	2.0	70	100	0	282	40	11	2	45	1.55
54868809--54868857	23	2.2	22	81	3	53	65	6	4	24	1.33
54883737--54883801	31	2.1	31	100	0	130	30	10	16	41	1.83
54889940--54889990	27	2.0	26	88	7	77	70	1	1	25	1.08
54890521--54890578	30	1.9	30	86	6	82	43	12	10	34	1.76
54903289--54903333	22	2.0	22	83	8	56	42	4	17	35	1.70
54908424--54908474	19	2.7	18	80	14	59	45	1	3	49	1.32
54909330--54909368	14	2.7	15	84	4	53	56	2	5	35	1.35
54911221--54911249	12	2.3	13	94	5	51	75	3	0	20	0.94
54913054--54913105	15	3.5	15	70	0	50	25	40	17	17	1.90
54913051--54913117	30	2.2	30	89	0	98	28	32	17	20	1.96
54913100--54913185	29	3.0	29	81	6	86	31	26	19	22	1.98
54913149--54913205	30	1.9	29	85	3	78	26	26	21	26	1.99
54913303--54913410	45	2.4	45	84	3	128	33	23	12	30	1.92
54913320--54913404	23	3.7	23	69	3	73	37	24	11	25	1.90
54913325--54913433	45	2.4	45	86	3	139	33	21	12	33	1.91
54914153--54914192	3	13.3	3	100	0	80	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54916872--54916959	29	3.0	29	81	6	115	25	27	23	23	2.00
54917100--54917156	23	2.5	23	88	0	87	33	26	14	26	1.94
54917768--54917829	30	2.1	30	88	8	92	27	4	11	56	1.54
54921315--54921376	30	2.1	30	93	0	106	51	12	9	25	1.70
54934756--54934809	18	3.1	18	72	15	51	42	0	0	57	0.98
54948824--54948895	37	2.0	35	81	13	83	51	0	0	48	1.00
54948917--54948998	42	1.9	43	90	2	130	40	3	8	47	1.52
54949182--54949240	31	2.0	30	80	12	68	33	1	13	50	1.52
54949438--54949496	29	2.0	30	90	3	93	50	13	5	30	1.63
54958090--54958238	2	74.5	2	100	0	298	50	49	0	0	1.00
54958450--54958580	39	3.3	39	84	1	172	22	25	19	32	1.98
54966969--54967066	23	4.3	23	93	2	171	30	26	22	20	1.98
54966976--54967064	45	2.0	45	97	0	169	30	26	23	19	1.98
54973545--54973597	23	2.3	23	100	0	106	30	26	20	22	1.98
54974542--54974641	50	2.0	50	98	0	191	25	20	8	47	1.77
54986489--54986536	19	2.5	19	80	10	53	22	16	2	58	1.49
54994692--54994783	43	2.1	43	80	7	98	27	27	27	18	1.98
54994960--54994984	11	2.3	11	100	0	50	28	0	24	48	1.52
55004448--55004481	17	2.0	17	94	0	59	26	2	23	47	1.66
55007180--55007227	19	2.5	19	80	10	53	22	16	2	58	1.49
55016467--55016906	125	3.4	125	81	9	508	48	22	10	18	1.79
55025404--55025462	31	1.9	31	89	6	93	47	6	18	27	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55025695--55025746	2	26.5	2	80	3	61	46	5	0	48	1.26
55029522--55029549	14	2.0	14	100	0	56	64	7	0	28	1.20
55047210--55047235	3	8.7	3	100	0	52	65	0	0	34	0.93
55054694--55054732	20	2.0	20	85	10	53	25	2	7	64	1.33
55056861--55056891	4	7.8	4	100	0	62	22	0	51	25	1.48
55067395--55067468	31	2.4	30	84	2	94	41	8	1	48	1.41
55067636--55067710	5	15.0	5	97	0	141	40	18	0	41	1.51
55068747--55068785	9	4.2	9	87	6	51	74	2	23	0	0.94
55073029--55073079	26	1.9	27	92	4	86	68	0	11	19	1.20
55093247--55093305	31	1.9	31	89	0	91	44	22	10	23	1.83
55094690--55094755	21	3.1	22	78	6	64	40	34	1	22	1.63
55096044--55096114	31	2.3	31	83	7	92	45	4	19	30	1.70
55105804--55105830	12	2.2	12	100	0	54	25	0	40	33	1.56
55118186--55118232	3	15.7	3	90	0	76	27	68	2	2	1.13
55118354--55118396	9	4.8	9	79	0	50	20	44	0	34	1.52
55118357--55118385	6	4.8	6	100	0	58	17	48	0	34	1.47
55118349--55118396	12	4.1	12	86	2	53	20	45	0	33	1.52
55129346--55129393	3	16.0	3	100	0	96	66	0	0	33	0.92
55131775--55131807	3	11.0	3	100	0	66	66	0	0	33	0.92
55138101--55138160	31	1.9	32	93	3	104	51	1	5	41	1.33
55138837--55138891	6	9.2	6	86	7	76	61	3	1	32	1.24
55143120--55143206	45	1.9	45	100	0	174	24	5	27	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55143866--55143917	25	2.1	25	85	7	70	46	3	7	42	1.51
55145850--55145922	22	3.4	22	65	1	58	46	10	5	36	1.62
55148398--55148422	13	1.9	13	100	0	50	36	24	8	32	1.84
55151093--55151132	16	2.4	17	83	4	55	37	10	0	52	1.35
55152356--55152450	46	2.1	46	82	7	113	49	14	10	25	1.75
55162213--55162260	3	16.0	3	86	0	60	58	0	41	0	0.98
55162212--55162260	18	2.7	18	93	0	80	57	0	42	0	0.99
55162216--55162255	15	2.7	15	96	0	71	57	0	42	0	0.98
55162521--55162570	21	2.5	19	81	15	57	42	4	0	54	1.19
55162762--55162805	15	2.9	15	80	6	52	52	6	0	40	1.28
55175166--55175248	10	8.3	10	87	0	112	36	19	18	26	1.94
55177009--55177058	20	2.5	20	96	0	91	24	18	24	34	1.96
55186529--55186575	22	2.1	23	84	4	60	36	0	0	63	0.94
55188555--55188602	25	2.0	24	88	12	71	29	12	4	54	1.56
55195528--55195573	19	2.3	20	88	3	67	34	34	10	19	1.87
55196419--55196514	31	3.1	31	95	3	174	31	9	13	45	1.75
55197885--55197920	3	12.0	3	100	0	72	66	0	33	0	0.92
55199427--55199474	16	2.9	16	85	11	62	54	0	0	45	0.99
55201050--55201108	27	2.3	25	80	13	66	35	6	6	50	1.55
55201284--55201341	29	2.1	27	81	9	64	67	5	1	25	1.21
55201293--55201350	29	2.0	29	83	9	75	60	5	5	29	1.40
55204671--55204777	54	2.0	54	98	0	205	30	12	13	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55218116--55218157	16	2.7	16	86	13	61	59	0	0	40	0.97
55220717--55220749	2	16.5	2	100	0	66	51	0	48	0	1.00
55220988--55221039	20	2.6	20	78	0	59	42	36	1	19	1.62
55222641--55222670	3	10.0	3	100	0	60	66	0	33	0	0.92
55224662--55224721	24	2.4	24	86	10	77	68	6	3	21	1.28
55225115--55225157	21	2.0	23	82	17	56	48	9	0	41	1.35
55225312--55225361	17	2.7	20	78	18	70	10	0	44	46	1.37
55229951--55230000	17	2.7	20	78	18	70	10	0	44	46	1.37
55232226--55232265	16	2.5	16	88	11	64	60	0	0	40	0.97
55232334--55232395	18	3.3	18	75	16	63	51	3	0	45	1.17
55232625--55232657	12	2.6	13	90	4	50	57	0	0	42	0.98
55232718--55232750	15	2.1	16	88	5	50	42	9	0	48	1.35
55238638--55238684	16	2.9	16	81	12	51	55	2	0	42	1.12
55240038--55240230	101	1.9	101	98	0	377	18	23	22	34	1.96
55240508--55240556	18	2.8	18	79	14	66	34	8	0	57	1.29
55240697--55240753	30	1.9	29	89	3	87	33	14	1	50	1.52
55244783--55244812	5	5.8	5	92	7	51	76	0	3	20	0.92
55245709--55245748	15	2.9	14	85	10	55	37	35	7	20	1.81
55247108--55247387	41	6.8	41	93	0	479	24	28	24	22	2.00
55251809--55251841	16	2.1	17	88	11	52	30	0	6	63	1.18
55254483--55254577	43	2.2	43	79	1	102	20	17	32	29	1.96
55254571--55254754	43	4.3	43	83	3	219	27	30	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55254588--55254750	86	1.9	86	89	2	256	28	31	20	19	1.97
55254738--55254797	30	2.0	29	83	6	75	23	28	23	25	2.00
55254768--55254890	43	2.8	44	80	2	133	27	27	17	27	1.97
55255196--55255307	21	5.3	21	78	0	89	6	40	18	34	1.76
55255196--55255297	42	2.4	42	83	3	116	5	40	18	35	1.75
55255284--55255421	64	2.1	65	88	6	208	13	28	18	39	1.89
55260873--55260908	18	2.0	18	94	0	63	33	0	13	52	1.41
55261053--55261097	16	2.8	16	93	6	74	31	0	24	44	1.54
55261052--55261097	9	5.6	9	75	19	55	32	0	23	43	1.54
55261085--55261416	34	10.1	34	79	8	375	42	2	9	44	1.51

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