genome.fa.s2.2.7.7.80.10.50.1000.10.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   

This is table  10  of  38  ( 4457 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)
1543386--1543460	34	2.2	34	90	6	118	28	34	16	21	1.94
1543460--1544575	49	23.7	49	84	9	1405	25	25	18	30	1.98
1543555--1544584	92	11.0	92	95	1	1641	25	25	18	30	1.98
1544589--1544715	67	1.9	68	85	1	175	24	25	11	37	1.90
1545502--1545526	13	1.9	13	100	0	50	36	16	16	32	1.90
1545482--1545548	33	2.0	33	88	0	98	34	11	13	40	1.81
1545591--1545615	13	1.9	13	100	0	50	32	16	16	36	1.90
1545624--1545744	52	2.3	52	97	0	224	34	18	18	28	1.94
1549153--1549177	13	1.9	13	100	0	50	32	16	16	36	1.90
1549205--1549333	32	4.0	32	94	0	204	27	23	9	39	1.85
1549373--1549416	20	2.2	20	84	8	54	34	9	22	34	1.86
1553670--1553726	20	2.8	20	89	0	78	40	14	12	33	1.83
1553625--1553756	71	1.9	71	88	4	196	40	13	15	30	1.85
1554516--1554798	131	2.2	132	86	1	399	40	14	22	21	1.90
1554659--1554845	88	2.1	88	84	2	232	40	14	21	22	1.90
1554431--1554801	44	8.5	43	67	17	140	39	15	23	21	1.91
1554691--1554855	44	3.8	44	74	4	154	41	15	20	21	1.89
1554516--1554846	131	2.5	131	83	3	344	40	15	22	21	1.90
1554688--1554874	44	4.3	42	72	10	135	41	14	21	21	1.89
1554861--1554963	48	2.2	47	91	1	161	39	19	22	18	1.92
1554953--1555226	35	7.8	35	87	0	350	40	10	24	24	1.86
1555345--1555525	93	2.0	92	86	7	260	29	13	27	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557130--1557160	15	2.1	15	93	0	53	0	25	3	70	1.02
1559992--1560018	13	2.1	13	100	0	54	40	14	14	29	1.86
1560854--1560879	13	2.0	13	100	0	52	38	15	15	30	1.88
1560832--1560899	33	2.1	32	91	8	111	32	16	16	35	1.91
1563074--1563493	156	2.7	155	80	5	431	37	20	17	24	1.93
1563047--1563493	155	2.9	155	79	4	474	38	19	17	24	1.93
1564414--1564450	19	1.9	19	89	10	58	21	0	2	75	0.92
1566099--1566579	167	2.9	167	84	2	599	51	9	13	24	1.71
1573647--1573684	13	3.0	12	88	11	58	31	18	18	31	1.95
1575746--1575776	15	2.1	15	93	0	53	12	22	16	48	1.80
1581467--1581492	13	2.0	13	100	0	52	30	15	15	38	1.88
1581447--1581510	32	2.0	33	90	3	103	28	14	15	42	1.86
1582210--1582245	17	2.1	17	89	0	54	61	8	2	27	1.39
1588886--1588932	20	2.3	21	85	10	62	17	23	12	46	1.82
1590542--1590593	27	1.9	27	88	0	77	28	28	13	28	1.94
1590369--1590596	103	2.2	103	78	5	237	28	25	11	33	1.91
1591683--1591722	21	1.9	21	90	10	64	27	0	5	67	1.11
1591683--1591732	21	2.3	21	83	10	57	28	0	4	68	1.08
1593253--1593291	16	2.4	16	83	8	53	17	12	15	53	1.72
1599458--1599502	14	3.3	14	84	3	65	46	0	0	53	1.00
1599443--1599502	27	2.2	27	85	5	77	45	0	0	55	0.99
1600525--1600563	20	1.9	21	89	5	62	69	0	7	23	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602154--1602178	6	4.2	6	100	0	50	84	0	0	16	0.63
1603615--1603663	16	3.2	15	83	16	57	59	0	0	40	0.98
1603612--1603670	29	2.0	29	81	12	68	61	1	0	37	1.07
1603658--1603759	41	2.5	39	80	12	100	57	1	1	38	1.21
1604481--1604559	23	3.2	26	79	18	89	62	0	0	37	0.96
1604529--1604575	18	2.6	17	86	6	58	51	0	0	48	1.00
1605710--1605734	10	2.5	10	100	0	50	16	0	0	84	0.63
1607649--1607677	10	3.0	10	95	5	51	72	0	0	27	0.85
1609018--1609105	22	4.0	22	98	1	169	36	12	23	27	1.91
1609093--1609123	10	3.1	10	90	0	53	41	6	29	22	1.78
1611661--1611942	102	2.8	102	85	5	374	29	25	12	33	1.92
1611661--1611948	153	1.9	153	82	4	366	28	26	12	32	1.92
1611662--1611948	51	5.6	50	83	4	317	28	25	12	33	1.92
1611880--1612032	79	2.0	78	88	3	229	24	26	14	33	1.94
1624497--1624559	1	63.0	1	77	0	54	87	4	7	0	0.67
1625517--1627019	55	26.4	55	84	8	1640	27	28	19	24	1.99
1625523--1627027	170	8.8	166	88	6	1718	27	28	19	24	1.99
1625896--1626094	28	7.2	29	63	22	97	28	29	19	23	1.98
1625525--1627020	225	6.6	225	86	6	1895	27	28	19	24	1.99
1626346--1626489	28	5.2	29	62	19	83	29	27	18	25	1.98
1630011--1630292	102	2.8	102	84	6	365	29	25	12	32	1.92
1630011--1630298	153	1.9	153	82	5	359	28	26	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630012--1630298	51	5.6	50	83	4	308	28	26	12	32	1.92
1630230--1630379	79	1.9	78	86	4	214	25	26	14	34	1.94
1641421--1641482	1	62.0	1	77	0	52	87	4	8	0	0.68
1642440--1643997	55	27.4	55	84	8	1732	27	28	19	24	1.99
1642819--1643017	28	7.2	29	63	22	97	28	29	19	23	1.98
1642446--1643997	280	5.5	278	90	5	1983	27	28	19	24	1.99
1643269--1643414	29	5.2	29	65	18	94	28	28	18	23	1.98
1642448--1643998	450	3.4	448	92	3	2380	27	28	19	24	1.99
1646988--1647269	102	2.8	102	84	6	365	29	25	12	32	1.92
1646988--1647275	153	1.9	153	82	5	359	28	26	12	32	1.92
1646989--1647275	51	5.6	50	83	4	308	28	26	12	32	1.92
1648465--1648535	20	3.5	20	75	11	65	28	14	18	39	1.89
1650614--1650776	79	2.1	79	87	2	229	32	12	25	29	1.93
1650732--1650807	28	2.7	28	79	0	89	28	19	28	22	1.98
1650839--1650899	28	2.2	28	93	0	104	24	16	34	24	1.95
1650762--1651128	165	2.3	156	86	7	479	31	16	26	25	1.96
1650900--1651128	79	2.9	79	87	2	327	32	16	24	26	1.96
1651035--1651306	127	2.1	129	81	3	316	32	14	24	28	1.94
1650956--1651381	206	2.1	206	90	0	665	32	14	25	27	1.94
1651162--1651381	79	2.8	78	81	3	257	30	14	26	28	1.95
1653678--1653772	20	4.8	19	87	10	129	44	12	14	28	1.82
1653678--1653772	40	2.4	40	90	0	145	44	12	14	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654423--1654781	61	6.1	59	82	12	382	27	20	26	25	1.99
1654490--1654802	55	5.5	55	85	8	369	24	20	27	27	1.99
1654423--1654782	116	3.1	116	86	4	447	27	20	26	25	1.99
1654824--1655102	55	4.9	57	83	6	250	25	19	25	29	1.99
1654890--1655117	55	4.1	55	87	2	307	25	20	24	29	1.99
1654617--1655012	210	1.9	210	92	2	670	25	19	28	27	1.98
1654556--1655070	265	1.9	262	85	4	712	25	20	27	27	1.99
1654821--1655117	110	2.6	110	83	5	328	24	20	25	29	1.99
1662246--1662300	19	2.8	20	83	5	76	34	16	14	34	1.89
1664844--1664868	13	1.9	13	100	0	50	36	16	16	32	1.90
1669990--1670052	19	3.7	18	74	24	64	33	11	17	38	1.85
1670009--1670066	13	4.0	13	74	23	53	34	15	15	34	1.89
1669988--1670065	32	2.4	32	93	0	129	34	12	16	35	1.87
1672144--1672219	27	2.8	27	89	2	107	23	31	21	23	1.98
1672171--1672454	79	3.6	79	91	0	444	25	25	16	32	1.96
1672095--1672295	106	1.9	107	83	2	260	27	27	15	28	1.96
1672171--1672535	158	2.3	158	84	4	461	26	25	15	32	1.96
1672175--1672587	79	5.2	79	81	5	383	26	25	15	32	1.96
1675022--1675075	19	2.8	20	91	2	83	37	18	14	29	1.91
1681137--1681163	13	2.1	13	100	0	54	40	14	14	29	1.86
1681216--1681297	19	4.6	19	78	17	86	39	17	9	34	1.82
1681237--1681297	32	1.9	32	96	0	113	37	18	9	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1681746--1681797	19	2.7	20	84	6	70	40	17	13	28	1.87
1687883--1687936	20	2.7	20	91	5	83	22	12	14	50	1.77
1687922--1687947	13	2.0	13	100	0	52	30	15	15	38	1.88
1688068--1688113	21	2.2	20	81	11	58	32	19	4	43	1.71
1690467--1690518	19	2.7	20	84	6	70	40	17	13	28	1.87
1694795--1695438	167	3.9	166	78	4	633	52	8	12	27	1.67
1695963--1696036	20	3.7	20	81	3	103	35	13	20	31	1.91
1695981--1696052	21	3.5	21	80	3	101	40	11	19	29	1.86
1695963--1696052	41	2.2	41	100	0	180	37	12	20	30	1.89
1696095--1696120	13	2.0	13	100	0	52	38	15	15	30	1.88

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