genome.fa.s1.2.7.7.80.10.50.1000.51.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: Scaffold1
Parameters: 2 7 7 80 10 50 1000
Length:  8764944

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   

This is table  51  of  52  ( 6211 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)
8249641--8249665	13	1.9	13	100	0	50	40	4	0	56	1.18
8249633--8249706	20	3.9	20	65	24	52	41	1	0	56	1.07
8249717--8249772	18	3.1	18	74	23	55	37	1	1	58	1.19
8249711--8249768	30	2.0	29	83	10	73	36	1	1	60	1.17
8250502--8250540	8	5.1	8	81	12	55	84	0	15	0	0.62
8250501--8250548	14	3.5	13	78	16	53	81	0	18	0	0.70
8250548--8250576	14	2.0	15	93	6	51	27	0	6	65	1.18
8250592--8250632	19	2.2	19	86	8	57	31	2	0	65	1.05
8250573--8250659	32	2.7	31	76	13	86	34	1	1	63	1.10
8250685--8250736	27	2.0	27	84	3	70	34	0	3	61	1.14
8250695--8250736	13	3.2	13	78	18	50	35	0	2	61	1.09
8250887--8250941	11	4.7	11	80	10	65	23	0	1	74	0.91
8250872--8250951	23	3.5	23	86	3	99	22	1	3	72	1.08
8250885--8250952	17	3.9	18	73	19	56	23	0	2	73	0.97
8251149--8251181	16	2.0	17	94	5	59	72	0	0	27	0.85
8251444--8251477	17	2.1	16	88	5	50	35	2	8	52	1.47
8251859--8251901	16	2.7	16	82	13	61	44	0	0	55	0.99
8251856--8251901	17	2.8	17	80	12	60	43	0	0	56	0.99
8252620--8252695	35	2.2	34	81	11	91	56	0	0	43	0.99
8252619--8252695	24	3.3	21	74	22	66	57	0	0	42	0.99
8268676--8268715	2	20.0	2	100	0	80	50	0	0	50	1.00
8268717--8268757	2	20.5	2	100	0	82	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8269094--8269133	20	2.0	20	100	0	80	20	5	25	50	1.68
8269353--8269401	20	2.5	20	82	0	62	55	2	0	42	1.11
8274693--8274740	22	2.2	22	88	0	69	41	0	0	58	0.98
8275803--8275890	33	2.7	31	81	10	97	48	0	0	51	1.00
8275854--8275909	18	3.2	17	73	9	51	41	0	1	57	1.09
8276587--8276636	15	3.4	15	71	23	52	66	0	0	34	0.92
8276591--8276668	25	3.0	26	83	9	79	62	0	2	34	1.09
8276969--8277017	23	2.1	22	85	14	64	2	14	14	69	1.28
8276975--8277023	23	2.1	23	82	14	57	4	12	14	69	1.33
8277554--8277594	2	20.5	2	94	0	73	2	0	46	51	1.14
8302010--8302046	1	37.0	1	94	0	56	0	0	94	5	0.30
8302008--8302039	16	2.0	16	100	0	64	0	0	87	12	0.54
8310735--8310766	2	16.0	2	93	0	55	50	3	0	46	1.17
8311078--8311117	19	2.2	19	90	4	64	67	2	0	30	1.04
8311787--8311862	29	2.6	28	80	10	82	36	7	2	52	1.45
8313345--8313390	20	2.2	20	80	3	56	54	0	2	43	1.12
8318575--8318607	17	1.9	17	100	0	66	12	21	12	54	1.69
8320297--8320349	21	2.5	22	88	8	76	50	0	0	49	1.00
8326185--8326212	2	14.0	2	100	0	56	50	50	0	0	1.00
8326436--8326471	17	2.1	17	89	0	54	41	0	5	52	1.24
8334723--8334806	15	5.7	15	71	16	61	39	0	0	60	0.97
8335694--8335736	15	2.9	15	78	0	50	11	4	58	25	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8335661--8335736	30	2.5	30	80	0	80	10	6	59	23	1.54
8335696--8335765	24	2.9	24	78	0	68	17	4	55	22	1.59
8335708--8335872	48	3.6	48	76	7	144	21	3	53	20	1.60
8335769--8336645	18	46.9	18	65	18	204	22	2	54	20	1.57
8335738--8336467	42	18.0	42	74	11	510	23	2	53	20	1.57
8335958--8336385	162	2.7	159	99	0	784	23	2	54	19	1.56
8335985--8336547	66	8.8	63	71	15	275	23	2	54	19	1.56
8335775--8336116	96	3.5	96	82	8	467	23	2	53	20	1.57
8335689--8336232	96	5.5	95	74	12	370	22	3	54	20	1.59
8336459--8336590	42	3.2	40	71	15	126	20	3	56	20	1.56
8335859--8336332	81	5.6	81	70	14	255	22	2	54	20	1.57
8336456--8336613	81	2.0	81	91	3	259	22	3	54	19	1.58
8336230--8336556	66	5.1	65	74	16	290	23	2	54	20	1.56
8336405--8336664	66	3.9	64	74	8	180	22	2	55	20	1.54
8336516--8336627	27	4.1	27	69	13	77	22	2	55	19	1.56
8336483--8336610	42	3.1	42	75	6	154	24	2	54	18	1.55
8336540--8336664	54	2.3	54	97	0	232	22	2	56	19	1.54
8336054--8336644	12	44.2	12	63	18	102	22	2	54	20	1.56
8336023--8336529	54	8.7	54	73	14	237	23	2	54	19	1.56
8337250--8337286	3	12.3	3	100	0	74	32	0	0	67	0.91
8343340--8343367	2	14.0	2	100	0	56	50	0	0	50	1.00
8350276--8350336	32	1.9	32	86	6	88	9	16	18	55	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8353030--8353061	2	16.0	2	100	0	64	50	0	0	50	1.00
8353097--8353149	23	2.3	23	90	3	90	64	0	5	30	1.17
8359696--8359730	18	1.9	18	88	0	52	17	0	31	51	1.45
8360486--8360511	1	26.0	1	100	0	52	0	100	0	0	0.00
8361791--8361836	21	2.3	21	88	7	69	26	2	2	69	1.11
8361789--8361835	19	2.2	23	75	21	57	23	2	2	72	1.06
8362695--8362724	2	15.5	2	93	6	53	53	0	0	46	1.00
8362829--8362913	37	2.3	37	76	17	86	49	1	2	47	1.22
8362712--8363091	200	1.9	200	90	3	604	46	4	4	44	1.44
8363557--8363610	22	2.4	21	82	17	65	44	0	0	55	0.99
8365683--8365711	10	3.0	10	95	5	51	68	0	0	31	0.89
8366380--8366420	19	2.1	20	82	13	50	53	2	2	41	1.27
8366355--8366416	31	2.0	30	81	9	72	46	1	1	50	1.20
8367274--8367307	12	2.9	12	86	4	52	29	0	2	67	1.05
8367932--8367965	15	2.3	15	89	0	50	47	0	0	52	1.00
8370666--8370695	2	15.0	2	100	0	60	50	0	0	50	1.00
8376290--8376325	2	18.0	2	94	0	63	50	2	0	47	1.15
8376394--8376431	2	19.0	2	94	0	58	44	0	5	50	1.24
8379273--8379308	3	12.0	3	93	0	63	30	0	0	69	0.89
8381622--8381665	22	2.0	23	81	4	54	50	0	2	47	1.13
8382642--8382669	2	14.0	2	100	0	56	50	0	0	50	1.00
8383504--8383530	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8386912--8386951	17	2.4	17	86	0	53	57	0	0	42	0.98
8397927--8397961	2	17.5	2	100	0	70	48	0	0	51	1.00
8399461--8399516	6	9.8	6	75	11	55	42	0	1	55	1.10
8399461--8399522	11	5.5	11	79	11	72	45	0	1	53	1.10
8399572--8399619	12	3.7	13	77	8	53	33	0	4	62	1.14
8399575--8399628	26	2.1	25	86	3	72	35	0	3	61	1.14
8399716--8399755	21	1.9	21	84	0	53	42	2	0	55	1.13
8400145--8400184	6	6.7	6	100	0	80	0	67	0	32	0.91
8403979--8404010	2	17.0	2	87	12	50	50	0	0	50	1.00
8403979--8404009	13	2.4	13	94	0	53	51	0	0	48	1.00
8405458--8405494	2	19.0	2	94	5	67	48	0	0	51	1.00
8405814--8405849	3	12.0	3	100	0	72	66	0	0	33	0.92
8406023--8406064	16	2.6	17	81	11	61	54	2	4	38	1.34
8406633--8406657	2	12.5	2	100	0	50	52	0	0	48	1.00
8406766--8406803	18	2.0	20	85	10	53	44	0	0	55	0.99
8412630--8412666	3	12.3	3	100	0	74	64	0	0	35	0.94
8414941--8414987	2	23.5	2	86	0	58	53	4	2	40	1.32
8415238--8415277	21	1.9	21	90	10	64	60	0	0	40	0.97
8424343--8424466	30	4.1	30	80	7	126	35	12	19	32	1.90
8429699--8429726	2	14.0	2	100	0	56	50	0	0	50	1.00
8430894--8430921	2	14.0	2	100	0	56	50	0	0	50	1.00
8433137--8433215	4	19.8	4	89	0	104	48	6	1	44	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8435267--8435307	20	2.0	20	95	0	73	36	17	31	14	1.90
8435922--8435955	2	17.0	2	93	0	59	47	0	2	50	1.16
8441857--8441909	27	2.0	27	92	0	88	45	9	16	28	1.79
8457023--8457077	26	2.0	27	86	10	76	56	0	1	41	1.10
8457147--8457213	35	1.9	35	85	11	93	41	1	2	53	1.25
8457266--8457312	23	2.2	20	88	11	67	53	4	4	38	1.40
8458220--8458244	2	12.5	2	100	0	50	48	0	0	52	1.00
8461879--8461903	13	1.9	13	100	0	50	84	0	0	16	0.63
8464819--8464855	3	12.3	3	100	0	74	32	0	0	67	0.91
8465551--8465612	23	2.8	23	73	16	67	38	1	1	58	1.18

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