genome.fa.s320.2.7.7.80.10.50.1000.10.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: Scaffold320
Parameters: 2 7 7 80 10 50 1000
Length:  2598547

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  10  of  17  ( 1971 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)
1412158--1412187	12	2.4	13	94	5	53	43	16	6	33	1.74
1412897--1412940	23	2.0	23	95	4	81	31	13	13	40	1.84
1419303--1419333	3	10.3	3	92	0	53	32	29	0	38	1.57
1419305--1419334	15	2.0	15	100	0	60	33	26	0	40	1.57
1432856--1433183	79	4.1	78	81	7	288	32	16	24	26	1.96
1435589--1435717	62	2.1	63	86	1	179	43	16	13	26	1.85
1436322--1436481	41	3.9	41	80	10	150	45	9	21	23	1.80
1436368--1436500	41	3.2	42	77	11	114	45	10	19	24	1.81
1436629--1436764	61	2.2	61	85	5	175	33	18	27	20	1.96
1437008--1437167	41	3.9	41	80	10	150	45	9	21	23	1.80
1437054--1437186	41	3.2	42	77	11	114	45	10	19	24	1.81
1437315--1437448	61	2.2	62	82	6	164	34	18	26	20	1.96
1436209--1437585	686	2.0	686	98	0	2691	37	13	26	22	1.91
1437569--1437921	45	8.1	45	77	7	300	42	13	24	19	1.88
1437465--1437925	44	10.8	41	75	10	232	41	13	24	19	1.88
1437465--1437921	130	3.5	127	78	9	424	41	13	24	20	1.88
1437931--1438910	124	7.9	124	83	4	1113	30	19	25	25	1.98
1437931--1438910	61	15.9	62	84	3	1104	30	19	25	25	1.98
1438937--1439170	79	3.0	79	82	2	290	32	14	26	26	1.94
1441553--1441602	20	2.5	20	86	0	73	44	14	14	28	1.83
1454860--1454897	19	2.0	20	89	5	60	42	0	0	57	0.98
1455407--1455469	16	3.9	16	77	8	74	30	3	3	63	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455409--1455471	32	2.0	32	87	0	90	30	1	4	63	1.24
1455774--1455803	12	2.4	13	94	5	53	23	13	23	40	1.90
1456296--1456338	22	2.0	22	90	0	68	55	4	0	39	1.20
1456980--1457013	16	2.1	16	88	0	50	14	26	20	38	1.91
1458953--1458978	12	2.2	12	100	0	52	42	0	7	50	1.31
1459865--1459907	22	2.0	21	90	4	68	58	6	4	30	1.45
1464755--1464990	116	2.0	116	92	0	391	35	13	13	37	1.84
1466506--1466657	82	1.9	82	81	2	189	42	11	13	31	1.81
1476901--1476925	2	12.5	2	100	0	50	0	48	0	52	1.00
1477942--1477993	19	2.8	18	75	13	52	38	7	0	53	1.30
1477943--1478004	18	3.4	18	76	10	54	41	4	0	53	1.22
1478371--1478424	18	2.9	19	81	10	67	40	0	0	59	0.98
1479273--1479315	15	2.9	15	79	3	52	25	0	0	74	0.82
1479542--1479602	24	2.4	25	78	8	70	42	0	1	55	1.09
1479985--1480090	48	2.2	47	78	8	115	25	14	2	57	1.51
1485359--1485396	17	2.2	17	90	9	60	23	5	0	71	1.07
1485597--1485647	25	2.2	22	83	16	59	66	3	0	29	1.09
1491632--1491666	18	2.0	17	94	5	61	62	0	0	37	0.95
1492052--1492093	21	2.0	22	90	4	68	14	4	9	71	1.28
1492745--1492786	13	3.4	13	74	12	52	71	4	0	23	1.05
1492745--1492801	22	2.5	23	86	11	73	66	5	0	28	1.13
1492745--1492801	24	2.5	23	88	11	82	66	5	0	28	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492893--1492928	11	3.3	11	88	11	56	72	0	0	27	0.85
1492891--1492962	22	3.3	21	73	19	60	66	2	0	30	1.06
1494259--1494400	51	2.8	49	83	10	160	37	0	4	57	1.26
1494264--1494420	51	3.1	51	81	9	146	38	1	5	55	1.30
1494816--1494867	14	3.8	13	73	12	50	57	1	0	40	1.10
1494784--1494864	28	2.9	27	77	16	85	54	2	2	40	1.27
1497299--1497339	17	2.3	19	84	16	52	41	0	2	56	1.13
1498430--1498454	2	12.5	2	100	0	50	52	0	48	0	1.00
1500775--1500810	14	2.6	14	95	0	63	27	25	22	25	2.00
1501545--1501573	14	2.0	15	93	6	51	62	0	0	37	0.96
1501782--1501865	39	2.2	39	82	6	100	47	2	2	47	1.28
1501980--1502027	15	3.5	14	83	13	55	45	4	0	50	1.21
1502000--1502039	20	2.0	20	90	0	62	42	2	2	52	1.28
1502051--1502103	15	3.3	17	76	15	67	50	0	0	49	1.00
1502057--1502145	32	2.8	32	84	1	108	47	0	3	49	1.18
1503595--1503624	15	1.9	16	93	6	53	63	0	0	36	0.95
1503664--1503715	24	2.1	25	82	10	63	48	1	0	50	1.12
1503674--1503720	24	1.9	24	86	4	67	46	2	2	48	1.25
1506383--1506424	21	2.0	22	85	4	59	35	0	7	57	1.26
1510668--1510711	23	1.9	23	85	0	61	36	2	4	56	1.32
1510700--1510747	23	2.1	23	84	3	62	45	4	10	39	1.58
1512102--1512132	2	15.5	2	100	0	62	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)
1512343--1512379	19	1.9	19	88	0	56	56	0	0	43	0.99
1512624--1513079	154	3.0	153	93	2	779	42	18	8	30	1.80
1513419--1513467	21	2.3	22	82	3	55	38	2	2	57	1.22
1513489--1513536	24	2.0	24	88	8	71	47	0	0	52	1.00
1514594--1514684	43	2.2	41	82	11	105	50	3	2	43	1.30
1514614--1514694	10	7.8	10	71	24	53	51	1	2	44	1.22
1514594--1514670	22	3.6	22	80	14	74	51	3	2	41	1.34
1514677--1514898	21	10.4	21	69	11	85	54	7	2	35	1.41
1515244--1515469	21	10.9	22	66	18	94	51	5	7	35	1.52
1515317--1515373	12	4.5	12	72	20	53	57	3	1	36	1.26
1515354--1515475	42	2.9	41	75	13	113	52	5	8	33	1.55
1515922--1516128	21	10.1	20	73	12	152	52	8	5	33	1.55
1515986--1516125	11	13.4	11	67	17	75	54	7	4	34	1.47
1516344--1516413	21	3.4	21	80	2	79	55	10	4	30	1.52
1516355--1516424	21	3.3	21	82	4	70	55	11	4	28	1.54
1517153--1517177	2	12.5	2	100	0	50	48	0	0	52	1.00
1526110--1526166	29	2.1	28	84	15	77	43	0	0	56	0.99
1526905--1526944	18	2.2	18	86	4	53	47	0	0	52	1.00
1527499--1527531	2	16.5	2	100	0	66	0	48	0	51	1.00
1527531--1527559	2	14.5	2	100	0	58	48	0	0	51	1.00
1532618--1532646	12	2.3	13	94	5	51	86	0	13	0	0.58
1533684--1533722	19	2.1	18	85	4	51	35	5	2	56	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534097--1534133	14	2.4	16	86	8	51	51	0	0	48	1.00
1534694--1534734	2	20.5	2	100	0	82	51	0	0	48	1.00
1536090--1536159	24	2.8	25	87	6	90	44	24	8	22	1.81
1536149--1536214	27	2.4	27	90	7	98	46	22	7	22	1.77
1536092--1536217	24	4.9	24	75	12	83	46	24	7	22	1.77
1538094--1538139	21	2.1	22	88	4	67	19	28	19	32	1.96
1540684--1540753	24	2.8	25	87	6	90	44	24	8	22	1.81
1540743--1540808	27	2.4	27	90	7	98	46	22	7	22	1.77
1540686--1540811	24	4.9	24	75	12	83	46	24	7	22	1.77
1543021--1543077	29	2.0	27	83	12	71	49	0	0	50	1.00
1543208--1543284	11	7.1	11	71	21	56	61	1	1	36	1.13
1543240--1543280	18	2.4	16	84	8	55	70	0	0	29	0.87
1543240--1543284	17	2.6	16	86	10	54	68	0	0	31	0.89
1543312--1543368	15	3.6	17	76	21	61	61	0	0	38	0.96
1545489--1545678	101	1.9	101	88	2	292	44	15	8	31	1.77
1549448--1549482	2	17.5	2	100	0	70	48	0	51	0	1.00
1549750--1549791	2	21.0	2	100	0	84	50	0	0	50	1.00
1553691--1553739	2	24.5	2	91	0	80	2	48	0	48	1.12
1554265--1554335	23	3.1	24	74	13	69	43	0	0	56	0.99
1554261--1554345	42	2.1	40	85	12	111	38	0	0	61	0.96
1554274--1554343	18	4.0	18	72	22	60	38	0	0	61	0.96
1554391--1554424	15	2.2	16	89	5	52	32	5	0	61	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554389--1554426	15	2.5	15	80	16	51	34	10	0	55	1.34
1554798--1554831	16	2.2	16	94	5	61	32	0	0	67	0.91
1557535--1557584	24	2.0	25	96	3	93	30	8	4	58	1.45
1557854--1557976	29	4.2	29	95	0	219	52	0	0	47	1.00
1557870--1557976	16	7.2	17	73	26	93	52	0	0	47	1.00
1558255--1558298	19	2.4	19	92	3	72	56	0	4	38	1.20
1558255--1558305	19	2.8	19	88	5	61	56	1	3	37	1.29
1558383--1558428	14	3.4	14	73	8	51	43	0	2	54	1.12
1558494--1558539	23	2.0	22	87	4	65	45	2	0	52	1.13
1561218--1561262	16	2.8	17	86	6	58	73	4	4	17	1.17

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17