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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

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  10  of  25  ( 2909 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)
1530871--1530896	13	2.0	13	100	0	52	30	23	15	30	1.95
1530928--1530983	21	2.6	22	88	5	87	39	8	23	28	1.85
1531025--1531161	53	2.6	53	95	1	247	27	17	18	37	1.93
1531131--1531201	20	3.5	20	77	11	74	29	12	16	40	1.86
1532088--1532190	46	2.2	46	100	0	206	31	35	3	29	1.75
1538611--1538635	13	1.9	13	100	0	50	32	16	16	36	1.90
1538590--1538669	34	2.4	34	95	0	142	28	12	12	46	1.78
1538590--1538688	34	3.0	34	91	2	130	28	13	13	45	1.80
1539975--1540434	28	16.5	28	79	7	465	28	30	17	23	1.97
1539975--1540434	57	8.3	56	79	8	467	28	30	17	23	1.97
1539979--1540434	85	5.5	84	79	9	504	28	30	17	23	1.97
1540108--1540145	19	2.0	19	94	0	67	26	23	15	34	1.95
1540141--1540484	114	3.0	111	83	6	393	28	29	17	24	1.98
1540127--1540479	28	12.2	32	79	10	222	28	28	17	25	1.98
1541373--1541449	20	3.8	20	82	0	100	31	16	14	37	1.89
1545106--1545198	30	3.1	30	84	0	132	29	15	25	30	1.95
1550251--1550326	27	2.8	26	88	5	107	27	15	31	25	1.96
1552642--1552805	51	3.2	51	82	3	206	42	14	15	27	1.86
1552845--1552889	20	2.2	20	88	0	63	35	20	11	33	1.88
1558088--1558144	13	3.9	13	76	24	60	35	14	15	35	1.88
1558066--1558163	19	5.7	19	71	27	94	33	12	16	37	1.86
1558068--1558165	32	3.0	32	96	1	178	34	12	16	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558206--1558230	13	1.9	13	100	0	50	32	16	16	36	1.90
1558219--1558367	52	2.9	51	88	4	217	35	17	17	29	1.93
1572172--1572253	37	2.2	37	95	0	146	28	17	12	42	1.84
1572619--1573030	28	14.5	28	79	10	428	32	29	17	20	1.95
1572612--1573030	57	7.3	58	82	8	488	32	29	17	20	1.96
1572612--1573030	85	4.9	85	85	5	531	32	29	17	20	1.96
1572623--1573030	113	3.6	113	86	6	574	32	29	17	19	1.95
1573052--1573133	42	1.9	43	85	2	112	25	25	19	29	1.99
1573052--1573328	49	5.7	49	76	5	190	25	25	17	31	1.97
1573092--1573337	49	5.0	49	77	4	217	24	25	16	32	1.96
1573836--1573864	13	2.2	13	100	0	58	31	20	24	24	1.98
1577298--1577381	19	4.7	19	76	18	90	34	13	16	35	1.88
1577338--1577362	13	1.9	13	100	0	50	36	16	16	32	1.90
1577319--1577383	32	2.0	32	93	0	112	33	13	16	35	1.89
1577424--1577448	13	1.9	13	100	0	50	32	16	16	36	1.90
1577457--1577585	52	2.5	52	97	0	240	34	17	18	28	1.94
1580352--1580998	324	2.0	325	91	0	1055	27	26	20	25	1.99
1586798--1586836	14	2.6	14	88	8	51	41	0	7	51	1.31
1589879--1589905	13	2.1	13	100	0	54	40	14	14	29	1.86
1590532--1590594	21	2.9	21	88	4	90	30	26	0	42	1.56
1593203--1593229	13	2.1	13	100	0	54	29	14	14	40	1.86
1593213--1593269	19	2.9	19	89	2	87	31	15	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1595650--1595675	13	2.0	13	100	0	52	30	15	15	38	1.88
1595748--1595813	20	3.7	20	67	26	65	34	18	16	30	1.93
1595748--1595811	33	1.9	33	93	0	110	34	18	17	29	1.94
1596322--1596590	139	1.9	139	96	0	493	27	27	4	40	1.74
1596367--1596588	68	3.2	68	67	17	186	27	27	4	40	1.76
1598175--1598228	22	2.5	23	80	19	64	44	3	22	29	1.70
1598182--1598228	21	2.3	21	85	10	62	44	4	19	31	1.70
1598543--1598576	8	4.2	8	88	0	50	61	17	0	20	1.34
1598543--1598576	16	2.1	16	100	0	68	61	17	0	20	1.34
1604535--1604560	13	2.0	13	100	0	52	30	15	15	38	1.88
1604515--1604578	33	2.0	32	87	3	92	28	14	18	39	1.90
1604651--1604675	13	1.9	13	100	0	50	36	16	16	32	1.90
1604633--1604698	33	2.0	33	93	0	114	36	18	16	28	1.93
1605598--1605646	21	2.3	20	80	16	55	55	6	16	22	1.63
1605598--1605646	20	2.3	21	80	13	57	55	6	16	22	1.63
1609273--1609316	10	4.3	10	83	16	63	34	13	0	52	1.41
1609279--1609319	21	2.0	20	95	4	73	34	17	0	48	1.47
1611060--1611115	22	2.5	22	94	0	94	39	3	33	23	1.72
1611668--1611724	19	2.9	19	84	2	78	33	15	17	33	1.92
1611769--1611799	13	2.4	13	94	0	53	35	16	12	35	1.87
1614574--1614639	34	1.9	34	96	0	123	27	22	21	28	1.99
1616159--1616455	130	2.3	129	80	7	325	34	14	24	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1616311--1616407	51	1.9	51	91	0	158	35	10	23	30	1.88
1616411--1616485	28	2.7	27	85	6	80	26	21	30	21	1.98
1616431--1616486	28	2.0	28	92	0	94	30	17	28	23	1.97
1616470--1616614	51	2.9	51	81	5	163	37	9	21	31	1.86
1616568--1616739	76	2.3	76	90	7	271	31	15	26	26	1.95
1616723--1616888	51	3.3	51	83	6	185	32	10	27	29	1.90
1619210--1619279	33	2.1	33	100	0	140	40	14	18	27	1.89
1619190--1619296	53	2.0	53	85	7	146	41	13	16	28	1.86
1619190--1619296	20	5.7	19	77	18	100	41	13	16	28	1.86
1619229--1619259	13	2.4	13	100	0	62	38	16	16	29	1.90
1619312--1619374	13	5.3	13	75	21	66	42	12	14	30	1.82
1619323--1619412	20	4.8	20	75	18	95	46	15	12	25	1.80
1619316--1619394	33	2.4	33	95	0	140	44	15	12	27	1.82
1626491--1626553	20	3.0	20	93	4	99	15	12	25	46	1.82
1627463--1627565	47	2.2	47	91	1	161	27	16	19	36	1.93
1629048--1629117	33	2.1	33	84	7	88	37	8	18	35	1.82
1635178--1635206	13	2.2	13	100	0	58	27	13	17	41	1.87
1637677--1637750	20	3.8	19	84	8	87	31	16	16	36	1.91
1637778--1637847	33	2.1	34	84	7	90	32	12	20	34	1.90
1642332--1642406	20	3.8	20	87	0	114	40	13	14	32	1.85
1645363--1645610	127	2.0	126	87	1	361	41	12	12	33	1.79
1645806--1645860	19	2.8	19	88	2	74	32	20	10	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1653302--1653345	21	2.1	21	91	8	72	22	20	2	54	1.56
1655451--1655493	20	2.0	22	86	8	63	39	27	0	32	1.57
1655463--1655547	42	2.0	42	95	0	152	45	21	2	30	1.64
1656920--1656961	20	2.0	20	86	4	57	7	14	50	28	1.69
1657393--1657430	13	2.9	13	96	0	67	34	18	15	31	1.92
1657418--1657515	47	2.0	50	84	9	132	29	17	17	35	1.93
1657633--1657658	8	3.2	8	100	0	52	61	23	0	15	1.33
1663584--1663640	13	4.8	13	70	24	54	35	7	21	36	1.80
1663563--1663659	33	3.0	33	90	4	153	32	8	20	38	1.82
1663703--1663755	20	2.6	21	84	3	72	28	16	15	39	1.89
1663743--1663767	13	1.9	13	100	0	50	36	16	16	32	1.90
1665205--1665243	20	2.0	20	94	0	69	48	2	20	28	1.62
1665855--1665927	20	3.7	19	85	7	85	28	16	15	39	1.89
1667519--1667590	28	2.6	28	88	0	99	23	19	34	22	1.96
1667579--1667916	52	6.4	52	68	18	180	31	12	26	30	1.93
1667731--1667806	27	2.8	28	88	9	104	21	19	34	25	1.96
1670270--1670295	13	2.0	13	100	0	52	38	15	15	30	1.88
1670249--1670315	33	2.0	33	88	0	98	43	16	14	25	1.86
1670823--1671610	55	14.3	55	90	4	1134	21	20	29	29	1.98
1671093--1671178	26	3.2	26	67	20	77	17	18	34	29	1.94
1671420--1671560	27	5.1	27	59	16	65	22	19	29	28	1.98
1672592--1672657	1	66.0	1	76	0	60	0	4	7	87	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672599--1672643	8	5.8	8	97	2	83	0	0	8	91	0.43
1672592--1672654	16	3.9	16	87	4	74	0	4	7	87	0.67
1672600--1672658	14	4.0	15	91	4	77	0	3	10	86	0.68
1685138--1685209	28	2.6	28	88	0	99	23	19	34	22	1.96
1685198--1685535	52	6.4	52	68	18	180	31	12	26	30	1.93
1685350--1685425	27	2.8	28	88	9	104	21	19	34	25	1.96
1687889--1687914	13	2.0	13	100	0	52	38	15	15	30	1.88
1687868--1687934	33	2.0	33	88	0	98	43	16	14	25	1.86
1695289--1695314	13	2.0	13	100	0	52	38	15	15	30	1.88
1697537--1697581	21	2.1	21	84	8	56	53	4	20	22	1.63

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