genome.fa.s15.2.7.7.80.10.50.1000.10.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   

This is table  10  of  222  ( 26535 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)
3363651--3363702	18	3.3	15	76	21	52	69	0	1	28	0.99
3364209--3364266	29	2.0	29	100	0	116	34	10	10	44	1.73
3365864--3365911	20	2.5	20	86	3	62	64	2	6	27	1.28
3365935--3365964	15	2.0	15	93	0	51	40	10	0	50	1.36
3367543--3367615	5	13.8	5	79	15	60	73	1	2	21	1.03
3367564--3367614	16	3.2	16	81	15	52	72	0	1	25	0.95
3373384--3373446	27	2.3	26	76	10	63	50	11	0	38	1.38
3373413--3373442	15	2.0	15	93	0	51	40	10	0	50	1.36
3376441--3376545	44	2.5	42	80	9	106	26	19	23	30	1.98
3378661--3378689	14	2.1	14	100	0	58	20	6	20	51	1.70
3379751--3379873	51	2.4	51	87	5	169	40	12	20	26	1.87
3386539--3386588	16	3.1	17	80	8	59	42	0	0	58	0.98
3387436--3387558	51	2.4	51	89	2	176	39	12	21	26	1.88
3392324--3392363	13	3.2	13	80	19	50	25	25	0	50	1.50
3392304--3392363	26	2.4	25	81	13	61	26	23	0	50	1.50
3392311--3392351	18	2.2	19	87	12	59	29	24	0	46	1.53
3392748--3392788	10	4.3	10	81	12	50	31	24	0	43	1.54
3392975--3392999	11	2.3	11	100	0	50	48	0	0	52	1.00
3392996--3393045	15	3.3	15	82	0	73	50	12	2	36	1.51
3393999--3394055	21	2.6	22	73	15	64	66	5	0	28	1.13
3399861--3399920	21	3.0	22	76	13	67	23	3	5	68	1.24
3399868--3399919	25	2.0	26	82	10	63	25	3	3	67	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3400011--3400058	20	2.6	18	78	12	51	22	4	0	72	1.01
3403360--3403410	22	2.3	22	100	0	102	35	3	9	50	1.54
3419099--3419141	19	2.3	18	81	18	52	27	2	2	67	1.15
3431232--3431294	30	2.1	29	85	5	81	65	1	1	31	1.12
3431385--3431427	19	2.3	19	91	0	68	32	25	16	25	1.96
3433701--3433731	16	1.9	16	93	0	53	48	0	3	48	1.17
3443406--3443430	10	2.5	10	100	0	50	92	0	8	0	0.40
3443615--3443655	20	2.0	20	95	0	73	51	7	7	34	1.58
3447633--3447666	17	2.0	17	94	0	59	44	50	0	5	1.26
3452274--3452307	17	2.0	17	94	0	59	44	50	0	5	1.26
3454621--3454683	18	3.5	19	72	12	53	31	1	1	65	1.12
3455950--3455984	18	1.9	19	88	11	56	45	5	2	45	1.41
3460502--3460571	3	23.3	3	100	0	140	32	32	0	34	1.58
3467716--3467928	34	6.2	33	79	8	196	23	7	17	51	1.71
3467722--3467915	35	5.7	34	77	10	130	25	8	17	49	1.74
3467716--3467927	68	3.1	67	81	8	232	24	7	17	50	1.71
3469102--3469129	14	2.0	14	100	0	56	28	21	28	21	1.99
3469711--3469753	18	2.4	18	84	0	50	53	11	6	27	1.63
3471771--3471811	17	2.6	16	88	7	57	39	0	0	60	0.96
3471780--3471816	17	2.1	18	95	5	67	37	2	0	59	1.12
3472226--3472292	22	2.8	25	80	15	88	50	0	0	49	1.00
3472231--3472296	12	5.5	12	74	18	57	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473677--3473767	32	2.8	32	81	13	96	58	4	4	32	1.38
3473723--3473759	14	2.6	14	82	0	56	59	8	2	29	1.40
3475402--3475673	44	6.1	45	74	4	174	26	25	18	29	1.98
3475398--3475656	133	1.9	133	88	0	383	27	25	18	28	1.98
3487369--3487441	3	24.3	3	85	0	101	61	4	2	31	1.29
3493912--3494022	35	3.2	34	75	16	120	21	6	18	54	1.65
3493905--3494081	70	2.5	70	80	5	187	19	9	16	54	1.68
3494487--3494523	13	2.7	14	87	8	58	64	0	5	29	1.15
3495445--3495500	29	1.9	29	85	7	78	25	16	19	39	1.91
3496401--3496467	29	2.3	29	76	5	73	41	19	14	23	1.89
3496527--3496575	21	2.3	22	89	3	73	38	2	0	59	1.09
3496526--3496583	29	1.9	31	86	13	86	39	1	0	58	1.08
3498023--3498068	24	1.9	24	82	8	58	76	8	13	2	1.11
3512178--3512253	21	3.5	21	77	15	66	50	1	7	40	1.40
3512375--3512413	20	2.0	20	84	0	51	51	2	10	35	1.50
3513017--3513117	50	2.0	50	100	0	202	11	41	19	26	1.86
3513027--3513131	50	2.1	50	89	3	158	12	40	24	22	1.89
3514789--3514846	28	2.1	28	93	3	100	32	20	13	32	1.92
3516452--3516520	31	2.3	31	85	7	88	46	23	7	23	1.77
3517253--3517306	3	19.0	3	74	11	51	3	31	0	64	1.11
3527219--3527658	240	1.8	241	90	0	702	38	14	11	35	1.82
3531518--3531558	21	2.0	21	90	0	64	29	21	29	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3535117--3535175	31	2.0	30	86	6	84	35	0	10	54	1.34
3539048--3539151	50	2.1	50	81	3	120	29	8	2	58	1.43
3539054--3539146	24	3.8	24	75	8	80	26	6	3	63	1.34
3539054--3539150	25	3.9	25	76	6	90	28	6	3	61	1.35
3546416--3546467	19	2.8	18	83	13	61	28	9	1	59	1.40
3558831--3558998	91	1.8	91	93	0	291	38	27	11	22	1.89
3569267--3569310	22	2.0	22	86	8	63	56	0	2	40	1.11
3569267--3569325	22	2.6	22	77	17	59	55	1	1	40	1.20
3572031--3572105	25	3.0	25	74	14	73	32	5	1	61	1.27
3572007--3572062	27	2.1	26	83	3	67	21	1	5	71	1.15
3572171--3572225	23	2.3	24	75	3	58	25	5	3	65	1.31
3572277--3572311	17	2.0	18	94	5	63	34	5	2	57	1.37
3573303--3573332	12	2.5	12	100	0	60	26	0	0	73	0.84
3573440--3573481	19	2.3	19	87	4	59	38	21	14	26	1.91
3575615--3575676	3	20.7	3	86	0	79	59	1	6	32	1.32
3581416--3581444	9	3.3	9	95	4	51	44	6	0	48	1.29
3585313--3585414	35	2.9	34	81	4	123	24	7	15	51	1.70
3586785--3586930	73	2.0	74	94	1	258	27	15	17	39	1.90
3591451--3591517	31	2.2	31	83	0	80	38	14	7	38	1.75
3599883--3599948	28	2.4	28	94	0	114	31	22	12	33	1.91
3602790--3602822	3	11.0	3	100	0	66	66	0	0	33	0.92
3607673--3607721	24	2.1	24	85	7	66	48	6	12	32	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3612105--3612180	25	2.6	31	73	25	85	50	5	7	36	1.54
3618601--3618635	11	3.2	11	88	11	54	0	54	0	45	0.99
3619114--3619159	23	2.0	23	82	0	56	30	2	13	54	1.50
3619391--3619427	19	1.9	19	88	0	56	40	2	5	51	1.39
3631453--3632487	44	23.2	44	70	12	476	28	15	26	29	1.96
3631617--3631911	156	1.9	157	95	2	540	28	15	26	29	1.96
3631778--3632495	43	16.5	44	73	11	536	27	16	27	29	1.97
3631488--3632041	287	1.9	285	95	2	995	28	15	26	29	1.96
3631774--3632441	129	5.1	131	95	2	1143	26	16	27	29	1.96
3632381--3632502	45	2.7	46	80	7	135	30	16	25	27	1.97
3633579--3633613	11	3.2	11	88	11	54	0	54	0	45	0.99
3634090--3634135	23	2.0	23	82	0	56	30	2	13	54	1.50
3634366--3634402	19	1.9	19	88	0	56	40	2	5	51	1.39
3636104--3636145	18	2.3	19	91	4	68	33	23	16	26	1.96
3643611--3645000	704	2.0	701	92	0	2341	35	19	16	28	1.93
3645467--3645568	35	2.9	34	81	4	123	24	7	15	51	1.70
3646942--3647085	72	2.0	73	94	1	254	27	15	18	38	1.91
3651605--3651671	31	2.2	31	83	0	80	38	14	7	38	1.75
3664178--3664225	3	16.0	3	100	0	96	66	0	0	33	0.92
3669073--3669121	24	2.1	24	85	7	66	48	6	12	32	1.65
3679815--3679857	19	2.3	19	95	0	77	34	23	16	25	1.95
3684565--3684607	19	2.3	18	81	18	52	27	2	2	67	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3688094--3688195	35	2.9	34	81	4	123	24	7	15	51	1.70
3689441--3689486	22	2.1	22	84	8	58	56	2	4	36	1.31
3697848--3697894	21	2.2	22	92	3	78	21	19	38	21	1.94
3705634--3705795	84	1.9	84	96	0	297	38	28	12	20	1.89
3707622--3707670	24	2.0	24	96	0	89	40	20	22	16	1.91
3717135--3717228	26	3.7	26	77	9	77	28	4	2	64	1.23
3717398--3717432	17	2.0	18	94	5	63	34	5	2	57	1.37
3720374--3720447	3	24.7	3	83	0	76	56	1	9	32	1.40
3720376--3720442	18	3.7	18	85	0	89	55	1	8	34	1.40
3720374--3720440	15	4.5	15	88	0	98	56	1	8	32	1.39

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222