genome.fa.s329.2.7.7.80.10.50.1000.22.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: Scaffold329
Parameters: 2 7 7 80 10 50 1000
Length:  4121247

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   

This is table  22  of  25  ( 2930 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)
3486289--3486523	120	2.0	116	81	8	278	22	35	15	27	1.94
3486322--3486523	62	3.5	58	78	7	214	23	34	14	27	1.94
3486385--3486552	89	1.9	89	81	4	205	22	34	14	28	1.94
3486491--3486584	33	2.8	34	78	3	100	20	30	15	32	1.94
3486570--3486756	33	5.7	33	96	2	342	28	33	18	18	1.95
3486570--3486756	98	1.9	99	95	3	342	28	33	18	18	1.95
3486761--3487352	49	12.6	49	85	7	688	25	25	18	30	1.98
3486802--3487308	43	11.1	43	81	12	573	24	25	18	30	1.98
3486761--3487308	92	6.0	92	87	8	733	25	25	18	30	1.98
3487263--3487383	52	2.3	53	82	4	154	25	23	14	36	1.93
3487365--3487491	67	1.9	68	83	4	168	24	25	11	38	1.88
3487796--3487915	52	2.3	52	95	0	213	35	18	16	29	1.93
3497359--3497386	10	2.8	10	100	0	56	28	10	42	17	1.83
3497849--3497973	20	5.7	20	73	18	106	40	12	17	30	1.86
3503739--3503836	36	2.9	35	83	8	125	28	27	13	30	1.94
3504273--3504347	20	3.7	20	74	13	80	37	16	14	32	1.89
3504274--3504358	42	2.0	42	95	0	152	37	15	16	30	1.90
3504294--3504358	20	3.0	22	72	17	73	38	15	18	27	1.91
3504386--3504410	13	1.9	13	100	0	50	36	16	16	32	1.90
3507724--3507783	21	2.9	21	76	20	63	21	25	1	51	1.57
3507747--3507790	21	2.1	21	83	8	54	20	27	0	52	1.47
3509368--3509460	36	2.7	36	82	14	126	32	25	11	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3512670--3512699	13	2.3	13	94	0	51	83	16	0	0	0.65
3513415--3513439	13	1.9	13	100	0	50	36	16	16	32	1.90
3513512--3513562	20	2.5	20	87	6	68	37	13	17	31	1.89
3518089--3518117	10	2.9	10	100	0	58	41	10	0	48	1.37
3519709--3519748	13	3.1	13	81	0	53	30	12	17	40	1.86
3519835--3519878	21	2.0	22	95	4	81	31	18	0	50	1.47
3519835--3519872	10	3.5	11	82	10	51	31	15	0	52	1.43
3519839--3519882	10	4.4	10	83	8	54	27	20	0	52	1.47
3521929--3522022	20	4.7	20	85	15	124	34	19	14	31	1.92
3521929--3522022	40	2.3	40	100	0	188	34	19	14	31	1.92
3522052--3522106	19	2.8	19	86	2	74	36	14	16	32	1.89
3522091--3522117	13	2.1	13	100	0	54	40	14	14	29	1.86
3523397--3523421	13	1.9	13	100	0	50	36	16	16	32	1.90
3523376--3523440	33	2.0	32	88	8	96	30	15	15	38	1.88
3523358--3523441	20	4.7	18	72	23	70	29	15	15	39	1.88
3523406--3523464	19	3.1	19	82	2	73	40	15	13	30	1.86
3526400--3526458	20	3.0	19	73	14	57	33	0	1	64	1.04
3536848--3536920	22	3.3	22	82	5	85	72	1	4	21	1.09
3536877--3536936	7	8.3	7	71	14	50	71	1	0	26	0.95
3536877--3536936	15	4.1	15	77	16	56	71	1	0	26	0.95
3537846--3538286	221	2.0	221	91	0	720	36	11	22	29	1.89
3540895--3540929	18	1.9	18	88	11	54	17	17	0	65	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3543316--3543367	22	2.4	21	78	9	59	19	1	7	71	1.20
3544030--3544055	13	2.0	13	100	0	52	69	0	23	7	1.14
3547243--3547382	53	2.7	53	80	6	169	29	14	14	42	1.85
3548804--3548887	19	4.7	19	80	18	99	34	11	16	36	1.86
3548844--3548868	13	1.9	13	100	0	50	36	16	16	32	1.90
3548825--3548892	32	2.1	32	97	0	127	33	11	17	36	1.86
3548950--3549078	52	2.5	52	98	0	249	34	18	18	27	1.95
3555981--3556024	8	5.5	8	92	7	72	90	9	0	0	0.44
3555980--3556021	17	2.5	17	100	0	84	90	9	0	0	0.45
3555979--3556024	1	46.0	1	82	0	56	91	8	0	0	0.43
3555979--3556026	12	3.9	12	84	15	71	89	10	0	0	0.48
3556273--3556306	17	2.0	17	88	0	50	82	8	8	0	0.85
3557312--3557426	61	1.9	61	92	1	196	22	34	13	28	1.93
3557316--3558125	34	24.6	33	74	13	543	20	33	12	33	1.90
3557312--3557759	95	4.7	95	79	10	402	20	33	12	33	1.90
3557405--3557643	61	3.8	61	86	7	291	20	33	12	33	1.90
3557522--3557913	137	2.9	136	88	3	542	20	33	11	33	1.89
3557725--3558112	198	2.0	198	95	0	704	20	33	12	33	1.90
3557475--3558120	101	6.5	99	80	7	636	20	33	12	33	1.90
3558134--3558389	32	8.0	33	87	6	368	29	32	17	19	1.95
3558389--3558661	43	5.8	48	80	11	305	26	24	17	30	1.97
3558384--3558670	92	3.1	92	91	3	448	26	25	16	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3558570--3558724	53	2.9	53	79	6	177	25	23	14	35	1.94
3559538--3559621	19	4.7	19	81	18	108	33	11	17	36	1.87
3559578--3559602	13	1.9	13	100	0	50	36	16	16	32	1.90
3559559--3559626	32	2.1	32	97	0	127	33	11	17	36	1.86
3559664--3559688	13	1.9	13	100	0	50	32	16	16	36	1.90
3562775--3562905	52	2.5	52	93	0	226	30	16	19	33	1.94
3562775--3562925	52	2.9	51	88	3	214	31	16	19	32	1.94
3562914--3562938	13	1.9	13	100	0	50	36	16	16	32	1.90
3562981--3563078	19	5.8	18	71	28	90	36	17	12	33	1.87
3563000--3563056	13	3.9	13	76	24	60	33	17	14	35	1.90
3562979--3563076	32	3.0	32	96	1	178	35	17	12	34	1.87
3563380--3563502	52	2.4	52	92	0	210	36	17	18	26	1.94
3569536--3569580	15	2.9	15	86	3	63	51	2	0	46	1.13
3569648--3569714	12	5.7	12	77	13	59	47	1	0	50	1.10
3571229--3571300	28	2.6	28	86	0	90	25	19	33	22	1.97
3571290--3571458	52	3.3	51	79	6	153	31	13	26	29	1.93
3571432--3571516	27	3.1	27	86	8	111	25	21	30	22	1.98
3571224--3571623	212	1.9	212	87	3	599	31	13	26	28	1.94
3573988--3574013	13	2.0	13	100	0	52	38	15	15	30	1.88
3574053--3574120	19	3.9	18	75	23	74	38	14	10	36	1.81
3574075--3574099	13	1.9	13	100	0	50	32	16	16	36	1.90
3574056--3574118	32	2.0	32	93	0	108	36	15	11	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574156--3574233	21	3.8	21	86	8	115	32	12	16	38	1.87
3574156--3574237	41	2.0	40	88	6	121	32	12	17	37	1.86
3574826--3576328	55	27.3	55	91	3	2304	20	20	31	28	1.97
3575206--3575676	26	17.2	26	60	22	83	19	19	32	28	1.97
3575973--3576113	28	5.1	27	62	15	65	21	19	31	28	1.97
3576196--3576281	26	3.2	26	65	20	68	18	18	33	29	1.95
3577311--3577367	1	57.0	1	78	0	60	0	5	5	89	0.59
3577295--3577364	9	7.7	9	77	15	56	0	10	4	85	0.72
3577311--3577367	15	4.3	14	82	13	68	0	5	5	89	0.59
3577326--3577365	21	1.9	21	94	0	71	0	5	2	92	0.45
3577296--3577365	10	6.9	10	79	8	70	0	10	4	85	0.72
3589847--3589918	28	2.6	28	86	0	90	25	19	33	22	1.97
3589960--3590076	52	2.2	52	80	5	130	31	14	25	28	1.95
3590059--3590134	27	2.8	28	89	2	109	21	21	34	23	1.97
3589842--3590241	212	1.9	212	88	3	608	31	13	27	28	1.94
3590122--3590240	51	2.3	53	85	7	154	33	11	22	31	1.90
3592607--3592632	13	2.0	13	100	0	52	38	15	15	30	1.88
3592586--3592652	33	2.0	33	88	0	98	43	16	14	25	1.86
3592672--3592739	19	3.9	18	75	23	74	38	13	11	36	1.81
3592694--3592718	13	1.9	13	100	0	50	32	16	16	36	1.90
3592675--3592737	32	2.0	32	93	0	108	36	14	12	36	1.84
3592775--3592852	21	3.8	21	86	8	115	32	12	16	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3592775--3592856	41	2.0	40	88	6	121	32	12	17	37	1.86
3606329--3606594	52	5.1	53	80	6	226	30	13	27	28	1.94
3608092--3608130	19	2.1	19	100	0	78	35	33	10	20	1.86
3616088--3616166	40	2.0	40	80	9	90	44	5	1	49	1.32
3617069--3617118	25	2.0	25	88	11	75	68	0	0	32	0.90
3617857--3617969	16	7.3	15	69	19	54	27	0	7	63	1.28
3617857--3617891	15	2.3	15	90	5	52	28	0	2	68	1.04
3618150--3618183	16	2.1	16	89	10	52	58	0	0	41	0.98
3618551--3618584	2	17.0	2	100	0	68	50	0	0	50	1.00
3618710--3618746	19	1.9	19	94	0	65	45	0	13	40	1.43

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