genome.fa.s196.2.7.7.80.10.50.1000.37.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   

This is table  37  of  47  ( 5587 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)
6029423--6029478	25	2.3	25	85	11	73	48	0	5	46	1.25
6029423--6029463	2	21.0	2	90	5	57	46	0	4	48	1.23
6032410--6032553	74	1.9	74	97	0	270	28	3	15	52	1.60
6035199--6035248	21	2.3	21	82	3	55	42	0	0	58	0.98
6035250--6035291	12	3.6	12	87	9	52	54	0	0	45	0.99
6035203--6035294	48	1.9	48	80	8	107	48	0	0	51	1.00
6035329--6035378	23	2.1	25	85	7	68	58	2	2	38	1.21
6037775--6037855	29	2.8	29	100	0	162	38	18	9	33	1.84
6043469--6043498	14	2.2	13	94	5	51	0	10	0	90	0.47
6046143--6046179	6	6.2	6	100	0	74	32	0	67	0	0.91
6046435--6046468	3	11.3	3	100	0	68	67	0	0	32	0.91
6049382--6049411	7	4.3	7	95	0	51	13	16	23	46	1.82
6049454--6049480	4	6.8	4	100	0	54	74	0	0	25	0.83
6049808--6049852	21	2.1	21	87	0	63	40	2	0	57	1.11
6050342--6050420	23	3.5	23	80	19	94	41	0	0	58	0.98
6050341--6050443	46	2.2	48	85	5	138	40	0	2	56	1.14
6058640--6058669	6	5.2	6	92	8	53	33	0	16	50	1.46
6058731--6058870	70	2.0	70	90	1	219	43	6	9	40	1.62
6059473--6059732	130	2.0	130	93	0	450	42	8	5	43	1.57
6059626--6059893	147	1.8	148	82	4	353	44	5	5	44	1.52
6060797--6060836	14	2.6	15	84	15	55	35	0	0	65	0.93
6060783--6060841	14	4.0	14	74	22	50	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6060782--6060841	23	2.7	23	76	10	70	41	0	0	58	0.98
6065085--6065127	21	2.1	21	87	12	63	46	0	0	53	1.00
6065086--6065151	20	3.3	22	73	23	58	53	0	0	46	1.00
6065131--6065164	17	2.0	18	88	11	54	52	0	0	47	1.00
6065120--6065171	17	3.1	16	76	17	52	51	0	0	48	1.00
6065347--6065394	20	2.4	19	80	10	51	39	2	2	56	1.23
6065627--6065674	26	1.9	25	87	8	71	35	2	2	60	1.20
6065656--6065694	20	1.9	19	85	10	51	28	2	5	64	1.28
6065720--6065829	29	3.7	29	73	9	89	50	0	1	46	1.18
6065772--6065844	23	3.3	22	67	19	53	50	0	1	47	1.09
6065959--6066003	21	2.1	21	83	4	54	42	11	0	46	1.39
6070935--6070977	18	2.2	21	88	12	65	37	23	0	39	1.55
6072418--6072480	29	2.2	30	83	8	78	53	0	3	42	1.16
6072963--6072997	3	11.7	3	100	0	70	0	31	0	68	0.90
6082291--6082340	25	2.0	25	88	7	75	26	6	4	64	1.35
6085431--6085464	10	3.2	10	84	15	50	70	0	0	29	0.87
6086249--6086289	21	2.0	21	85	0	55	58	0	0	41	0.98
6086750--6086802	19	2.7	20	85	2	81	33	11	15	39	1.83
6086845--6086869	13	1.9	13	100	0	50	32	16	16	36	1.90
6086878--6087006	52	2.5	52	97	0	240	34	17	17	29	1.94
6091462--6091534	20	3.6	20	81	3	101	35	13	19	31	1.91
6091480--6091555	21	3.7	21	78	3	91	40	11	17	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6091462--6091555	41	2.3	41	96	0	170	38	12	18	30	1.88
6091594--6091619	13	2.0	13	100	0	52	38	15	15	30	1.88
6096724--6096796	20	3.6	20	81	3	101	35	13	19	31	1.91
6096742--6096817	21	3.7	21	78	3	91	40	11	17	30	1.85
6096724--6096817	41	2.3	41	96	0	170	38	12	18	30	1.88
6096856--6096881	13	2.0	13	100	0	52	38	15	15	30	1.88
6100995--6101069	20	3.8	20	80	3	80	40	12	13	34	1.81
6100992--6101069	40	2.0	39	87	2	111	39	12	12	34	1.82
6101677--6102459	28	27.3	28	82	9	827	21	18	32	28	1.96
6101677--6103116	145	10.0	141	83	8	1120	22	17	33	27	1.96
6101678--6103061	257	5.3	256	82	8	1324	22	17	33	27	1.96
6102462--6103452	27	35.4	27	88	5	899	26	15	33	25	1.95
6102715--6103453	27	27.0	27	91	1	1091	28	14	33	23	1.93
6102715--6103453	137	5.4	135	90	1	1091	28	14	33	23	1.93
6110921--6110975	22	2.5	22	100	0	110	61	9	10	18	1.54
6111890--6111964	20	3.8	20	80	3	80	40	12	13	34	1.81
6111887--6111964	40	2.0	39	87	2	111	39	12	12	34	1.82
6112180--6112320	75	1.9	74	86	4	203	26	21	29	23	1.99
6112180--6112353	75	2.3	75	82	4	201	26	20	28	24	1.99
6113019--6113139	51	2.4	51	81	1	134	28	15	26	29	1.96
6113064--6113195	52	2.6	52	83	8	146	29	15	27	28	1.96
6113257--6113380	26	4.8	26	70	13	94	25	16	35	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6113123--6113519	78	5.1	77	81	5	435	25	15	34	24	1.95
6113336--6113386	26	2.0	26	84	0	66	27	15	37	19	1.92
6113432--6113554	52	2.3	53	83	4	151	23	19	34	22	1.97
6113354--6113649	130	2.3	130	86	0	403	25	16	33	24	1.96
6113283--6113783	208	2.4	208	82	5	618	26	17	32	23	1.96
6113482--6113709	78	2.9	76	79	5	233	26	17	31	24	1.97
6113617--6113667	26	2.0	26	88	0	75	29	15	33	21	1.94
6113519--6113714	78	2.5	78	83	1	241	27	17	30	23	1.97
6113646--6113764	52	2.3	52	88	0	166	28	18	31	21	1.97
6113735--6113783	26	2.0	24	88	8	71	22	16	38	22	1.92
6113769--6113818	26	1.9	26	83	0	64	22	18	36	24	1.95
6115165--6115338	74	2.3	75	86	1	233	25	16	28	29	1.96
6115354--6115496	75	1.9	75	80	4	164	27	18	25	28	1.98
6115163--6115482	148	2.2	149	77	7	330	26	17	27	29	1.98
6115500--6115551	22	2.7	19	76	21	54	55	0	0	44	0.99
6117191--6117228	18	2.1	18	85	9	51	42	0	2	55	1.14
6121808--6121863	19	2.8	19	75	19	51	46	1	0	51	1.11
6122117--6122170	23	2.2	25	78	12	60	59	0	0	40	0.98
6122678--6122743	23	2.8	25	77	13	68	57	0	0	42	0.98
6123273--6123306	17	2.0	17	94	0	59	26	11	20	41	1.87
6126705--6126754	23	2.2	23	96	3	93	20	14	18	48	1.82
6130140--6130180	21	2.0	21	95	4	75	34	2	0	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6130175--6130235	23	2.7	23	89	5	88	36	0	0	63	0.94
6130171--6130228	22	2.7	22	82	10	75	37	0	0	62	0.96
6130193--6130257	30	2.2	30	91	0	103	36	1	0	61	1.05
6130232--6130272	17	2.3	19	79	12	50	41	2	0	56	1.13
6130170--6130282	22	5.0	22	71	17	63	41	0	0	57	1.05
6130250--6130300	18	2.9	18	85	2	68	49	0	0	50	1.00
6130521--6130545	1	25.0	1	100	0	50	0	0	100	0	0.00
6130740--6130776	13	2.8	13	91	0	56	62	0	0	37	0.96
6132073--6132116	22	2.0	21	87	12	63	38	0	0	61	0.96
6132367--6132402	2	18.0	2	100	0	72	50	0	0	50	1.00
6132872--6132903	3	10.7	3	100	0	64	65	0	0	34	0.93
6133385--6133417	2	16.5	2	100	0	66	51	0	0	48	1.00
6133641--6133689	23	2.0	24	84	7	64	51	2	0	46	1.12
6134664--6134719	16	3.6	16	79	11	71	39	19	17	23	1.92
6137961--6138025	23	2.8	23	86	9	89	43	1	9	46	1.45
6137961--6138015	22	2.5	21	88	5	74	45	0	7	47	1.30
6138049--6138088	21	1.9	21	85	10	55	37	15	7	40	1.75
6139563--6139673	53	2.1	53	94	0	195	41	18	15	25	1.89
6140422--6140475	22	2.4	23	73	14	58	48	3	3	44	1.38
6143897--6143922	3	8.7	3	100	0	52	30	0	0	69	0.89
6144376--6144401	13	2.0	13	100	0	52	69	0	0	30	0.89
6148111--6148173	31	2.0	31	81	6	74	47	15	15	20	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6150086--6150294	58	3.6	58	78	3	206	45	15	14	23	1.83
6150086--6150314	115	2.0	116	85	0	307	45	15	13	24	1.83
6150423--6150652	58	3.9	58	74	9	182	47	12	10	29	1.75
6150533--6150643	29	3.8	29	73	15	86	51	13	4	30	1.61
6156155--6156479	118	2.8	116	81	6	350	45	12	13	28	1.80
6156173--6156526	58	6.1	57	75	9	259	45	13	13	27	1.81
6156155--6156526	116	3.2	117	80	6	305	45	13	13	28	1.81
6156570--6156780	59	3.6	59	76	8	182	47	12	12	27	1.77
6156689--6156792	29	3.6	29	70	12	86	50	11	9	27	1.69
6158569--6158601	11	3.0	11	95	0	57	63	0	12	24	1.28

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