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: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Length:  67659327

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   

This is table  10  of  216  ( 25871 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)
3290480--3290508	9	3.3	9	95	4	51	44	6	0	48	1.29
3290885--3290927	19	2.3	18	81	18	52	27	2	2	67	1.15
3294848--3294949	35	2.9	34	81	4	123	24	7	15	51	1.70
3296326--3296472	73	2.0	74	93	2	251	27	16	17	38	1.91
3301008--3301069	31	2.0	31	87	0	88	40	14	6	38	1.72
3310203--3310232	3	10.0	3	100	0	60	66	0	0	33	0.92
3312565--3312613	24	2.1	24	85	7	66	48	6	12	32	1.65
3315527--3315602	25	2.6	31	73	25	85	50	5	7	36	1.54
3321832--3321874	19	2.3	19	95	0	77	34	23	16	25	1.95
3336475--3336538	28	2.3	28	91	0	101	32	20	14	32	1.92
3337251--3337359	35	3.2	34	76	8	98	22	8	13	55	1.64
3337249--3337386	69	2.0	67	83	2	168	21	8	15	54	1.68
3337678--3337800	35	3.6	33	76	8	106	26	7	13	52	1.65
3337673--3337787	35	3.3	35	78	6	110	24	7	13	53	1.66
3344064--3344134	34	2.1	34	100	0	142	43	11	8	36	1.71
3352399--3352469	34	2.1	34	100	0	142	36	8	11	43	1.71
3352406--3352480	34	2.4	29	78	19	96	36	8	10	45	1.68
3352697--3352741	18	2.5	17	79	10	54	53	2	2	42	1.25
3358670--3358795	34	3.7	33	76	9	101	53	14	7	24	1.67
3359082--3359214	70	1.9	68	83	3	167	54	15	9	21	1.67
3359946--3360011	28	2.4	28	89	0	105	33	15	19	31	1.93
3363477--3363517	21	2.0	21	90	0	64	19	29	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3369389--3369417	9	3.3	9	95	4	51	48	0	6	44	1.29
3374271--3374313	19	2.3	19	95	0	77	25	16	23	34	1.95
3379773--3379826	22	2.5	22	84	3	65	50	7	7	35	1.59
3384897--3384945	24	2.1	24	85	7	66	32	12	6	48	1.65
3387706--3387731	7	3.7	7	100	0	52	15	0	0	84	0.62
3388122--3388178	24	2.4	24	88	5	80	54	0	0	45	0.99
3388753--3388786	10	3.3	10	84	8	50	29	0	0	70	0.87
3388763--3388818	25	2.2	25	77	0	58	32	3	0	64	1.11
3395682--3395766	31	2.8	31	80	1	100	31	18	12	36	1.89
3400355--3400381	7	3.9	7	100	0	54	44	40	0	14	1.46
3401814--3401856	21	2.0	21	95	0	77	27	0	37	34	1.57
3401837--3401869	16	2.1	16	94	0	57	33	0	36	30	1.58
3401848--3401942	45	2.1	44	88	1	136	34	5	27	32	1.79
3402104--3402138	18	2.0	17	88	5	52	54	0	0	45	0.99
3402062--3402134	27	2.7	27	76	8	76	52	2	0	45	1.15
3402247--3402281	18	2.0	17	88	5	52	54	0	0	45	0.99
3402023--3402293	143	1.9	147	92	4	460	46	2	3	46	1.35
3407242--3407291	16	3.1	16	91	0	82	38	4	34	24	1.74
3407273--3407365	44	2.1	44	89	4	141	29	4	30	36	1.77
3407523--3407556	16	2.1	16	100	0	68	64	0	0	35	0.94
3407482--3407558	26	3.0	26	71	3	66	54	2	0	42	1.14
3407538--3407633	38	2.6	36	74	14	88	54	4	1	40	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3410391--3410427	19	1.9	19	94	0	65	37	24	10	27	1.88
3411289--3411319	11	2.7	11	95	5	53	70	3	19	6	1.22
3426530--3426568	19	2.1	19	85	0	51	48	5	5	41	1.47
3432556--3432619	27	2.4	27	78	12	71	57	15	12	14	1.65
3436200--3436242	21	2.0	21	82	8	52	23	34	0	41	1.55
3441708--3441753	24	1.9	24	91	8	76	36	0	2	60	1.09
3441820--3441989	59	2.9	59	94	0	295	44	10	5	39	1.62
3442000--3442041	16	2.6	16	88	0	57	42	4	2	50	1.36
3444075--3444116	16	2.6	16	80	0	57	47	16	0	35	1.47
3450438--3450491	27	2.0	27	100	0	108	37	14	18	29	1.91
3458654--3458688	17	2.1	16	89	5	52	60	0	0	40	0.97
3459779--3459829	18	2.9	18	78	13	54	49	0	7	43	1.32
3459891--3459919	14	2.1	14	93	6	51	58	0	0	41	0.98
3477448--3477524	36	2.1	37	85	2	102	38	1	0	59	1.06
3489422--3489526	52	2.0	52	100	0	210	28	7	11	52	1.65
3494813--3494873	22	2.7	22	87	2	77	47	1	1	49	1.21
3494847--3494888	16	2.6	16	96	0	75	47	2	4	45	1.36
3494899--3495068	59	2.9	59	95	0	304	40	5	9	44	1.61
3495135--3495193	24	2.5	24	100	0	118	64	3	0	32	1.10
3498905--3498943	13	2.8	13	88	7	51	25	25	20	28	1.99
3502204--3502286	29	2.8	30	75	17	84	56	4	10	27	1.54
3506094--3506173	39	2.0	41	82	4	101	46	7	1	45	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3506691--3506719	13	2.1	14	93	6	51	65	0	0	34	0.93
3506700--3506747	24	2.0	24	88	8	71	56	0	6	37	1.25
3511632--3511669	18	2.2	18	86	9	53	50	2	15	31	1.58
3516889--3516942	28	1.9	28	85	14	76	50	5	1	42	1.36
3524106--3524148	19	2.3	19	95	0	77	34	23	16	25	1.95
3526468--3526523	11	4.9	11	81	12	51	67	3	0	28	1.07
3532657--3532696	17	2.3	18	82	4	55	25	27	5	42	1.75
3535530--3535564	16	2.2	16	100	0	70	28	5	11	54	1.59
3537538--3537590	23	2.3	23	84	12	65	43	7	7	41	1.61
3537538--3537591	22	2.3	23	78	15	58	42	7	7	42	1.61
3546626--3546663	11	3.2	12	78	14	51	21	2	2	73	1.07
3547469--3547516	19	2.6	18	81	18	62	27	2	2	68	1.11
3550580--3550671	35	2.6	34	78	8	87	26	6	14	53	1.65
3552209--3552272	21	2.7	24	86	11	80	31	6	1	60	1.30
3552215--3552272	25	2.6	21	86	10	71	31	6	1	60	1.33
3556660--3556728	28	2.7	26	80	14	81	76	7	5	10	1.14
3557110--3557149	20	2.0	20	85	9	55	72	0	15	12	1.12
3557119--3557149	7	4.6	7	92	8	55	67	0	16	16	1.23
3557119--3557146	13	2.2	13	100	0	56	71	0	14	14	1.15
3558350--3558472	43	2.9	43	88	1	176	32	21	22	22	1.98
3558350--3558489	43	3.3	43	85	4	169	31	23	21	23	1.98
3558608--3558852	129	1.9	130	87	3	361	31	21	21	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3558782--3559064	84	3.4	83	75	13	317	30	22	23	23	1.99
3558821--3559046	44	5.3	44	66	13	132	30	23	21	24	1.99
3558518--3559219	169	4.1	171	83	4	731	32	22	21	23	1.98
3558518--3559153	84	7.4	85	71	13	315	33	21	21	23	1.98
3558689--3559219	173	3.1	173	87	3	741	33	22	20	23	1.97
3559205--3559477	142	1.9	142	86	4	390	30	16	21	30	1.96
3561061--3561124	21	2.7	24	86	11	80	31	6	1	60	1.30
3561067--3561124	25	2.6	21	86	10	71	31	6	1	60	1.33
3565344--3565388	21	2.2	20	84	7	56	33	24	15	26	1.95
3575963--3576038	21	3.5	21	77	15	66	50	1	7	40	1.40
3576158--3576196	20	2.0	20	84	0	51	51	2	10	35	1.50
3580084--3580151	30	2.3	30	84	5	84	47	23	7	22	1.76
3580884--3580929	3	16.0	3	82	8	60	2	34	0	63	1.07
3582062--3582281	105	2.0	104	90	8	343	35	15	27	21	1.94
3583404--3583430	7	3.9	7	100	0	54	85	0	14	0	0.61
3589073--3589114	17	2.4	18	92	8	77	28	0	0	71	0.86
3590428--3590470	21	2.0	21	81	0	50	72	2	9	16	1.21
3591770--3592232	240	1.9	242	88	3	700	37	14	12	35	1.84
3594331--3594390	31	2.0	29	87	6	84	36	0	10	53	1.35
3594331--3594411	29	2.7	30	84	7	94	37	0	9	53	1.35
3598996--3599073	3	24.7	3	80	7	84	60	1	5	33	1.27
3602035--3602077	19	2.3	19	95	0	77	34	23	16	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3620126--3620165	19	2.1	19	100	0	80	37	25	5	32	1.77
3624479--3624549	34	2.1	34	100	0	142	43	11	8	36	1.71
3629623--3629665	19	2.3	19	91	0	68	34	20	18	25	1.96
3630459--3630539	30	2.7	30	92	1	126	27	24	6	41	1.78
3630469--3630515	15	3.1	15	70	11	51	27	23	8	40	1.83
3635116--3635227	30	3.7	30	93	0	188	25	20	7	47	1.75
3635143--3635223	15	5.4	15	68	11	67	24	20	7	46	1.76
3641683--3641797	35	3.3	34	81	3	131	23	7	14	53	1.67
3641688--3641824	70	2.0	70	81	2	161	22	8	15	54	1.67
3642327--3642372	22	2.1	22	84	8	58	56	2	4	36	1.31

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