genome.fa.s75.2.7.7.80.10.50.1000.10.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: Scaffold75
Parameters: 2 7 7 80 10 50 1000
Length:  1998514

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  10  of  12  ( 1375 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)
1505069--1505105	2	18.5	2	94	0	65	51	2	0	45	1.15
1505532--1505567	18	2.0	18	89	10	56	63	0	0	36	0.94
1505531--1505570	17	2.3	17	84	16	55	67	0	0	32	0.91
1505938--1505983	13	3.5	13	82	11	58	43	0	0	56	0.99
1506724--1506764	19	2.2	19	86	8	57	26	0	4	68	1.10
1508226--1508270	19	2.4	19	85	14	58	80	8	2	8	1.00
1508219--1508267	24	2.0	26	84	8	66	79	8	2	10	1.01
1508304--1508344	13	3.3	13	83	16	52	36	0	0	63	0.95
1508304--1508347	18	2.4	18	92	3	70	36	0	0	63	0.95
1508337--1508368	16	1.9	17	93	6	57	43	0	3	53	1.16
1509636--1509669	17	2.0	17	94	0	59	0	8	0	91	0.43
1511289--1511356	11	6.2	11	70	11	50	33	0	0	66	0.92
1511280--1511338	21	2.9	19	73	11	55	35	0	1	62	1.05
1511239--1511345	2	56.0	2	77	12	100	42	0	0	56	1.05
1511254--1511402	27	5.5	27	72	18	89	39	0	2	58	1.10
1512517--1512562	16	2.9	16	75	12	51	13	17	26	43	1.85
1517341--1517547	95	2.2	95	92	0	342	34	14	23	26	1.94
1521743--1521788	24	2.0	23	82	4	56	19	32	8	39	1.82
1528352--1528379	2	14.0	2	100	0	56	50	0	0	50	1.00
1528917--1528960	23	2.0	23	90	4	72	25	9	27	38	1.86
1528954--1528993	19	2.0	21	85	9	57	30	7	22	40	1.81
1529711--1529762	16	3.2	16	83	0	68	23	15	19	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530119--1530164	17	2.6	17	80	16	58	43	0	0	56	0.99
1541035--1541094	30	2.1	30	84	6	79	38	3	0	58	1.15
1541285--1541324	11	3.5	11	86	3	53	30	0	0	70	0.88
1541513--1541554	8	5.1	8	82	5	57	28	0	0	71	0.86
1544918--1545174	129	2.0	129	86	3	356	25	11	19	42	1.85
1546868--1546901	13	2.8	12	90	4	50	11	0	2	85	0.71
1547741--1547826	45	1.9	45	92	2	147	67	6	3	22	1.30
1549960--1550005	24	2.0	23	82	4	56	54	17	0	28	1.43
1554191--1554278	22	4.5	20	72	22	62	45	1	1	52	1.15
1554259--1554294	17	2.1	17	94	0	63	50	0	0	50	1.00
1554230--1554297	30	2.3	30	84	2	84	52	0	0	47	1.00
1554229--1554319	47	2.0	46	84	6	121	50	1	2	46	1.20
1559268--1559408	50	2.7	50	73	18	128	49	0	0	48	1.11
1559729--1559783	23	2.4	23	78	6	58	32	0	7	60	1.24
1560024--1560131	53	2.0	53	98	0	207	25	9	10	54	1.63
1562722--1562808	16	5.7	16	72	9	56	42	0	4	52	1.21
1562845--1562913	34	2.0	33	81	15	79	49	0	0	50	1.00
1568462--1568704	121	2.0	121	99	0	477	27	21	13	37	1.91
1572495--1572529	1	35.0	1	88	0	52	0	5	0	94	0.32
1572495--1572529	11	3.3	11	96	4	63	0	5	0	94	0.32
1572494--1572529	18	1.9	19	94	5	65	0	8	0	91	0.41
1572805--1572838	16	2.1	16	88	0	50	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574721--1574776	21	2.5	23	80	16	73	35	14	16	33	1.88
1576548--1577001	240	1.9	238	89	0	701	37	12	16	33	1.87
1577977--1578137	67	2.4	68	87	3	236	36	18	19	26	1.94
1585744--1585811	34	2.0	34	97	0	127	29	13	23	33	1.93
1586233--1586268	2	18.0	2	100	0	72	50	0	0	50	1.00
1588659--1588683	13	1.9	13	100	0	50	36	16	16	32	1.90
1588636--1588703	33	2.1	33	88	2	102	32	14	17	35	1.91
1591232--1591268	13	2.8	13	91	0	56	37	13	16	32	1.87
1600433--1600482	15	3.4	14	81	8	64	84	2	10	4	0.84
1600433--1600482	7	6.9	7	78	19	50	84	2	10	4	0.84
1606667--1606779	38	3.0	37	78	7	95	32	10	15	40	1.82
1606925--1606963	17	2.4	17	91	4	62	46	5	5	43	1.48
1612248--1612277	6	5.0	6	100	0	60	0	33	0	66	0.92
1612621--1612665	18	2.5	18	85	0	63	35	15	2	46	1.58
1612671--1612708	20	2.0	20	89	5	60	23	0	5	71	1.07
1613494--1613555	25	2.6	23	78	14	63	51	6	0	41	1.27
1613494--1613546	23	2.2	25	83	10	65	52	5	0	41	1.25
1614517--1614595	20	3.8	20	83	3	95	39	11	10	39	1.75
1618704--1618751	24	2.0	24	100	0	96	45	16	12	25	1.82
1618802--1618929	63	2.0	63	100	0	256	45	4	6	43	1.50
1619475--1619533	22	2.8	21	82	10	66	40	8	15	35	1.77
1619857--1619882	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)
1632078--1632112	17	2.1	17	94	0	61	77	0	20	2	0.90
1632743--1632855	58	1.9	58	83	3	147	30	10	8	49	1.68
1633043--1633307	76	3.5	75	73	11	202	33	11	18	36	1.87
1633092--1633519	76	5.6	76	77	6	310	35	13	17	33	1.89
1635190--1635233	19	2.5	17	81	7	52	61	2	2	34	1.21
1635736--1635786	26	1.9	26	84	4	66	60	1	1	35	1.19
1635905--1635947	20	2.1	21	95	4	79	62	0	0	37	0.95
1643506--1643555	3	16.7	3	100	0	100	68	0	32	0	0.90
1644827--1644865	3	13.3	3	94	5	71	69	0	0	30	0.89
1647258--1647339	34	2.4	34	83	0	101	42	26	7	23	1.80
1647315--1647361	22	2.1	22	88	0	67	46	27	10	14	1.78
1653394--1653437	11	3.9	11	80	13	54	2	27	0	70	0.99
1654304--1654361	18	3.2	19	79	16	77	31	15	22	31	1.95
1654304--1654378	37	2.1	36	87	7	107	32	18	21	28	1.97
1654663--1654811	34	4.4	34	83	1	201	42	28	7	22	1.80
1654663--1654811	67	2.2	68	92	1	255	42	28	7	22	1.80
1654787--1654833	22	2.1	22	96	0	85	48	29	8	12	1.71
1658623--1658811	57	3.3	57	74	5	139	23	13	20	42	1.87
1659169--1659208	22	1.9	20	85	10	53	12	10	22	55	1.67
1666292--1666724	57	7.6	57	81	2	413	30	12	21	35	1.90
1666292--1666724	113	3.8	111	81	5	454	30	12	21	35	1.90
1666308--1666724	170	2.5	171	80	2	437	30	11	22	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667493--1667519	13	2.1	13	100	0	54	29	14	14	40	1.86
1667588--1667637	13	4.3	13	72	27	58	32	12	18	38	1.87
1667569--1667637	33	2.1	33	89	5	104	31	10	18	39	1.84
1669470--1669598	64	2.0	64	100	0	258	34	17	26	21	1.96
1674026--1674050	13	1.9	13	100	0	50	16	52	8	24	1.70
1675011--1675052	22	1.9	22	90	0	66	40	4	33	21	1.74
1675720--1675773	20	2.7	20	88	5	74	35	12	16	35	1.87
1682009--1682132	63	2.0	64	91	1	205	28	16	26	28	1.97
1683791--1683831	22	1.9	21	85	5	55	34	4	21	39	1.75
1686727--1686764	19	2.0	19	85	10	51	44	7	7	39	1.63
1687470--1687657	84	2.2	85	86	0	252	32	20	10	37	1.86
1687500--1687709	85	2.5	85	82	5	239	33	20	10	35	1.86
1691836--1691867	16	2.0	16	100	0	64	43	31	0	25	1.55
1700125--1700149	13	1.9	13	100	0	50	32	16	16	36	1.90
1700198--1700306	19	5.9	19	72	18	97	35	15	15	33	1.89
1700239--1700263	13	1.9	13	100	0	50	36	16	16	32	1.90
1700200--1700317	52	2.3	52	90	0	191	37	15	15	32	1.88
1700291--1700317	13	2.1	13	100	0	54	40	14	14	29	1.86
1700272--1700336	32	2.0	33	93	3	114	41	15	15	27	1.87
1700200--1700336	52	2.6	52	87	2	159	37	15	15	31	1.88
1709126--1709181	19	2.8	20	79	12	71	33	16	14	35	1.88
1710030--1710067	18	2.1	18	95	0	67	31	18	18	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712683--1712720	20	1.9	20	88	0	58	42	10	15	31	1.81
1717154--1717244	36	2.4	38	80	10	100	41	1	1	56	1.14
1717205--1717255	11	4.8	11	78	9	61	39	0	0	60	0.97
1717234--1717299	29	2.2	31	82	15	86	34	0	0	65	0.93
1720816--1720859	13	3.2	15	75	18	51	59	0	0	40	0.98
1720818--1720877	15	3.9	15	78	8	59	56	0	0	43	0.99
1723729--1723792	29	2.2	29	94	0	110	42	21	4	31	1.74
1723743--1723805	29	2.4	25	82	12	65	36	25	4	33	1.77
1731400--1731470	22	3.4	21	74	12	56	43	1	0	54	1.08
1731961--1732145	96	1.9	96	92	0	307	25	29	17	27	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12