genome.fa.s64.2.7.7.80.10.50.1000.37.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   

This is table  37  of  45  ( 5312 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)
6497909--6497957	21	2.5	19	75	15	55	34	2	0	63	1.06
6498216--6498247	2	16.0	2	100	0	64	50	0	0	50	1.00
6499069--6499241	85	2.0	85	94	0	301	31	12	15	40	1.84
6499699--6499735	18	2.1	18	100	0	74	43	21	21	13	1.87
6506633--6506690	21	2.9	21	80	14	68	53	0	0	46	1.00
6508329--6508473	72	2.0	72	94	0	254	31	10	15	42	1.81
6511549--6511587	19	2.2	18	86	9	53	35	2	12	48	1.55
6516050--6516093	19	2.4	19	92	3	72	2	22	4	70	1.17
6518015--6518063	18	2.5	20	77	12	66	59	18	10	12	1.60
6518713--6518743	16	2.0	16	93	6	55	32	0	0	67	0.91
6520269--6520293	3	8.3	3	100	0	50	68	32	0	0	0.90
6528924--6528974	23	2.2	24	86	10	79	33	0	0	66	0.92
6529605--6529660	2	28.0	2	88	0	85	50	1	1	46	1.22
6531805--6531853	2	24.5	2	100	0	98	48	0	51	0	1.00
6533646--6533671	13	2.0	13	100	0	52	38	15	15	30	1.88
6533626--6533691	33	2.0	32	88	8	98	31	16	16	34	1.92
6533813--6533839	13	2.1	13	100	0	54	40	14	14	29	1.86
6533908--6533932	13	1.9	13	100	0	50	36	16	16	32	1.90
6534712--6534747	18	1.9	19	88	5	56	47	2	0	50	1.15
6535802--6535851	18	2.8	18	87	3	66	70	0	0	30	0.88
6535810--6535853	11	3.8	12	82	17	58	68	0	0	31	0.90
6536117--6536180	28	2.2	29	81	10	69	59	0	1	39	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6536152--6536232	15	5.4	16	68	21	59	54	0	0	45	0.99
6536217--6536265	11	4.7	11	76	19	52	59	0	2	38	1.09
6536154--6536301	19	7.6	19	71	22	64	53	0	0	45	1.05
6538009--6538390	127	3.0	127	92	0	629	37	18	10	33	1.86
6543329--6543555	79	2.9	79	80	2	251	33	12	25	27	1.93
6543416--6543686	130	2.1	130	85	1	355	33	12	25	28	1.93
6543486--6543603	51	2.3	51	80	0	137	33	12	25	28	1.93
6543988--6544019	10	3.2	10	90	0	55	50	9	12	28	1.71
6546020--6546074	20	2.8	20	94	0	92	45	14	14	25	1.83
6546702--6547729	61	16.8	61	86	3	1216	28	19	26	25	1.99
6546702--6547729	306	3.4	303	87	3	1339	28	19	26	25	1.99
6547675--6547865	100	2.0	93	82	9	231	25	17	31	25	1.97
6548784--6548835	12	4.5	11	80	7	59	0	5	9	84	0.77
6548801--6548833	17	1.9	17	88	11	50	0	0	15	84	0.61
6559121--6559266	79	1.8	79	81	8	181	28	12	30	28	1.93
6559198--6559315	51	2.3	51	88	0	164	31	11	27	29	1.91
6559067--6559397	130	2.5	128	83	8	393	32	12	27	28	1.93
6559243--6559394	79	1.9	77	84	5	198	34	13	25	26	1.93
6561394--6561470	21	3.7	21	89	3	111	35	12	16	35	1.88
6561506--6561573	19	3.9	19	78	21	85	35	11	14	38	1.83
6561527--6561551	13	1.9	13	100	0	50	36	16	16	32	1.90
6561508--6561570	32	2.0	32	96	0	117	34	12	15	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6561592--6561647	20	2.8	20	83	0	76	26	14	14	44	1.83
6563991--6564323	51	6.4	51	69	11	199	30	26	12	31	1.92
6564306--6564387	28	2.9	28	83	7	96	24	32	17	25	1.96
6563991--6564412	210	2.0	212	86	3	584	29	27	12	31	1.92
6576786--6576848	6	10.7	6	78	21	71	85	14	0	0	0.59
6576786--6576848	14	3.9	17	82	18	89	85	14	0	0	0.59
6576786--6576854	28	2.4	28	90	7	102	85	13	1	0	0.66
6576786--6576848	17	3.9	16	84	12	85	85	14	0	0	0.59
6576787--6576854	1	68.0	1	73	0	55	86	11	1	0	0.63
6577838--6578536	55	12.3	59	85	7	662	26	28	21	24	1.99
6577838--6578536	118	6.2	118	82	8	662	26	28	21	24	1.99
6578189--6578276	26	3.3	26	63	20	63	27	34	18	20	1.96
6578165--6578249	28	3.1	28	62	21	70	28	31	20	20	1.97
6578172--6578259	29	3.1	29	59	15	67	26	34	19	20	1.96
6580173--6580342	52	3.3	50	78	6	178	31	24	11	32	1.91
6580332--6580406	28	2.7	28	85	4	98	25	33	13	28	1.93
6581760--6581789	13	2.3	13	94	0	51	36	13	20	30	1.90
6583931--6583983	26	2.0	26	96	0	97	33	3	16	45	1.66
6584692--6585196	252	2.0	255	83	6	648	32	9	23	33	1.88
6586127--6586158	2	16.0	2	100	0	64	50	0	50	0	1.00
6586472--6586518	21	2.2	21	81	7	60	55	2	2	40	1.24
6588017--6588061	19	2.4	18	85	3	54	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)
6588017--6588068	18	2.8	18	75	13	52	50	0	0	50	1.00
6590782--6590819	18	2.1	19	85	5	51	2	18	21	57	1.52
6591100--6591290	98	1.9	98	91	0	310	12	28	16	42	1.84
6591730--6591778	19	2.7	18	90	6	80	48	10	20	20	1.78
6591890--6591924	14	2.4	15	90	9	63	25	0	0	74	0.82
6591894--6591942	22	2.2	23	82	10	57	24	0	2	73	0.94
6592750--6593155	62	6.6	63	73	5	255	37	14	23	24	1.92
6592750--6593098	121	2.8	123	75	3	344	37	14	23	24	1.92
6593235--6593378	32	4.5	30	76	14	92	18	15	31	33	1.93
6593154--6593378	31	7.1	31	76	4	189	21	16	29	32	1.95
6593356--6594548	62	19.4	62	81	3	1191	31	16	24	27	1.97
6593356--6594548	247	4.9	246	82	3	1248	31	16	24	27	1.97
6600731--6600772	19	2.2	19	83	8	50	0	9	26	64	1.24
6601049--6601245	98	2.0	97	94	1	340	9	26	19	44	1.81
6601718--6601766	19	2.7	18	87	6	71	48	8	20	22	1.75
6602505--6602568	32	2.0	32	82	11	78	46	0	4	48	1.23
6602588--6602625	16	2.4	16	86	8	51	55	0	0	44	0.99
6606738--6606796	27	2.2	26	79	8	64	54	0	1	44	1.10
6610586--6610639	20	2.6	21	70	21	51	61	0	3	35	1.14
6611714--6611775	29	2.1	31	93	6	110	48	0	0	51	1.00
6611843--6611952	32	3.4	32	82	5	123	39	17	3	40	1.67
6612202--6612293	38	2.4	38	80	3	96	36	5	5	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6612252--6612363	54	2.1	55	85	8	149	37	6	8	47	1.60
6612403--6612447	17	2.6	18	82	7	65	33	0	4	62	1.15
6612403--6612457	17	3.2	16	77	12	56	34	0	7	58	1.26
6612493--6612588	39	2.5	38	80	9	115	52	3	3	41	1.33
6613621--6613679	31	1.9	31	85	0	82	28	18	11	40	1.86
6615705--6615730	13	2.0	13	100	0	52	30	15	15	38	1.88
6616628--6616677	20	2.5	20	86	0	64	30	16	16	38	1.90
6616731--6616759	15	1.9	15	100	0	58	31	20	13	34	1.92
6622950--6622985	13	2.8	13	95	0	63	38	19	8	33	1.82
6623118--6623158	22	2.0	20	86	13	57	31	21	4	41	1.74
6625421--6625470	20	2.5	20	86	0	64	30	16	16	38	1.90
6626481--6626570	20	4.6	19	77	13	85	35	12	18	33	1.88
6626481--6626570	39	2.3	39	84	9	112	35	12	18	33	1.88
6627056--6627207	74	2.1	74	92	3	254	32	21	7	38	1.81
6631159--6631231	24	3.3	24	67	21	68	42	2	42	12	1.56
6631159--6631269	42	2.6	42	88	0	159	43	2	42	11	1.55
6641043--6641067	13	1.9	13	100	0	50	32	16	16	36	1.90
6641023--6641085	33	1.9	33	83	6	83	33	15	14	36	1.88
6641117--6641169	19	2.7	20	85	2	72	35	15	16	32	1.90
6643706--6643854	71	2.1	71	87	0	208	30	13	17	38	1.88
6651025--6651068	18	2.4	18	76	3	52	52	11	0	36	1.38
6654037--6654062	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6654633--6654662	2	15.0	2	100	0	60	50	0	0	50	1.00
6664057--6664082	13	2.0	13	100	0	52	30	15	15	38	1.88
6669183--6669208	13	2.0	13	100	0	52	30	15	15	38	1.88
6671665--6671690	13	2.0	13	100	0	52	38	15	15	30	1.88
6673770--6673800	15	2.1	15	93	0	53	12	22	16	48	1.80
6675604--6675648	21	2.1	21	84	8	56	22	20	4	53	1.63
6677867--6677892	13	2.0	13	100	0	52	30	15	15	38	1.88
6682255--6682775	258	2.0	258	100	0	1042	34	17	19	29	1.94
6683349--6683387	20	2.0	19	90	5	60	35	17	12	33	1.88
6683397--6683421	13	1.9	13	100	0	50	32	16	16	36	1.90

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