genome.fa.s128.2.7.7.80.10.50.1000.9.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: Scaffold128
Parameters: 2 7 7 80 10 50 1000
Length:  1835488

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

This is table  9  of  11  ( 1217 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)
1537276--1537647	163	2.3	163	84	4	430	31	11	9	48	1.70
1538014--1538039	12	2.2	12	100	0	52	92	0	7	0	0.39
1539807--1540252	151	3.0	148	81	4	486	27	20	17	34	1.95
1541462--1541512	26	2.0	26	96	0	93	43	11	13	31	1.80
1543934--1543973	20	1.9	22	90	10	66	27	17	0	55	1.43
1555079--1555128	17	2.8	17	85	8	64	30	12	18	40	1.86
1561370--1561451	32	2.6	31	88	7	114	25	15	30	28	1.96
1561433--1562073	28	22.5	28	85	3	787	23	16	30	29	1.96
1561371--1562073	57	12.2	57	86	3	808	24	16	30	29	1.96
1561371--1562073	85	8.2	86	85	4	875	24	16	30	29	1.96
1563315--1563378	7	9.1	7	83	14	71	1	0	12	85	0.66
1563293--1563367	11	6.6	11	84	9	89	1	2	10	85	0.76
1563291--1563378	43	2.0	43	85	8	117	2	2	12	82	0.85
1563322--1563371	18	2.8	18	90	3	84	0	0	12	88	0.53
1563315--1563377	24	2.6	25	85	9	78	1	0	11	87	0.62
1563316--1563369	1	54.0	1	81	0	63	0	0	9	90	0.45
1568545--1568617	19	3.7	19	83	5	92	35	16	13	34	1.88
1573074--1573099	13	2.0	13	100	0	52	30	15	15	38	1.88
1573807--1573850	21	2.1	21	83	8	54	25	31	4	38	1.76
1575652--1575690	13	3.0	13	96	0	69	35	15	17	30	1.91
1575677--1575754	20	3.6	21	76	15	70	41	16	15	26	1.88
1577762--1577799	15	2.5	15	91	0	58	13	21	15	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579602--1579646	21	2.1	21	84	8	56	22	20	4	53	1.63
1581861--1581886	13	2.0	13	100	0	52	30	15	15	38	1.88
1581925--1581980	21	2.7	21	100	0	112	26	17	10	44	1.82
1590787--1590942	20	7.7	19	72	13	125	38	12	17	32	1.86
1590787--1590942	40	3.8	40	75	9	181	38	12	17	32	1.86
1594557--1594623	28	2.4	28	89	0	98	26	20	31	20	1.98
1594606--1594724	51	2.3	51	80	0	139	31	12	26	29	1.93
1594580--1595065	131	3.7	131	90	1	728	33	12	25	27	1.93
1594868--1594984	51	2.3	50	82	4	144	33	11	23	31	1.90
1600339--1600430	20	4.7	19	81	10	80	31	16	15	36	1.90
1601529--1601607	18	4.6	18	81	9	74	31	2	30	35	1.71
1606434--1606554	52	2.3	52	95	0	215	28	17	19	34	1.94
1606434--1606574	52	2.7	51	87	4	203	30	17	19	33	1.94
1606563--1606587	13	1.9	13	100	0	50	36	16	16	32	1.90
1606652--1606676	13	1.9	13	100	0	50	32	16	16	36	1.90
1606630--1606696	33	2.0	33	88	0	98	40	13	11	34	1.81
1608746--1608773	3	9.3	3	100	0	56	67	0	0	32	0.91
1609090--1609142	23	2.4	22	78	12	63	69	3	0	26	1.05
1609060--1609138	31	2.7	30	77	11	92	68	6	0	25	1.13
1609118--1609159	19	2.2	20	86	4	59	66	0	0	33	0.92
1609269--1609337	23	2.8	24	91	8	113	59	0	0	40	0.97
1609270--1609349	23	3.3	23	84	8	106	55	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609376--1609578	106	1.9	106	94	0	361	25	42	3	28	1.73
1610055--1610091	11	3.2	11	92	7	56	2	2	16	78	0.98
1610055--1610097	17	2.5	17	84	3	59	6	2	16	74	1.14
1613344--1613371	13	2.2	13	100	0	56	39	17	14	28	1.89
1613424--1613476	21	2.6	21	88	5	74	33	16	11	37	1.85
1614197--1614740	39	11.9	48	74	13	363	30	18	25	25	1.98
1614197--1614740	87	6.0	96	78	13	368	30	18	25	25	1.98
1614427--1614677	126	2.0	126	94	0	439	25	21	25	27	1.99
1614775--1615113	57	5.8	58	85	6	420	19	15	33	31	1.93
1614795--1615105	144	2.1	146	91	1	500	19	16	32	31	1.94
1614730--1615116	87	4.4	87	85	6	480	20	16	32	31	1.94
1614795--1615112	29	11.0	29	82	6	358	19	16	33	31	1.94
1616534--1616614	1	81.0	1	70	0	54	2	1	11	85	0.76
1616522--1616619	18	5.8	17	76	9	85	3	1	13	82	0.84
1616534--1616618	25	3.5	24	80	16	86	2	1	11	84	0.77
1616534--1616618	44	1.9	44	87	2	125	2	1	11	84	0.77
1616522--1616619	23	4.3	23	78	14	87	3	1	13	82	0.84
1616523--1616618	48	2.0	49	87	8	142	3	1	12	83	0.82
1625053--1625108	28	1.9	28	85	7	76	37	19	21	21	1.94
1625142--1625218	28	2.8	28	88	4	102	24	18	32	24	1.97
1625201--1625387	52	3.6	49	78	12	185	34	10	24	30	1.89
1625091--1625593	266	1.9	262	86	4	715	31	13	26	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625202--1625591	51	7.4	51	70	16	208	31	12	25	30	1.92
1627945--1627970	13	2.0	13	100	0	52	38	15	15	30	1.88
1627924--1627990	33	2.0	33	88	0	98	43	16	14	25	1.86
1628032--1628056	13	1.9	13	100	0	50	32	16	16	36	1.90
1628013--1628075	32	2.0	32	93	0	108	36	14	12	36	1.84
1628010--1628077	19	3.9	19	76	21	76	38	13	11	36	1.81
1628133--1628210	21	3.7	21	98	0	147	37	20	10	32	1.86
1628222--1628247	13	2.0	13	100	0	52	15	7	0	76	0.99
1628840--1630617	55	32.3	55	91	3	2725	20	19	30	29	1.97
1629165--1629525	26	13.2	26	61	18	72	19	18	31	29	1.96
1629715--1629800	26	3.2	26	67	20	77	17	18	34	29	1.94
1629876--1630020	26	5.3	26	63	21	73	20	17	32	28	1.96
1631586--1631656	34	2.0	37	84	13	96	0	11	7	81	0.86
1631623--1631654	12	2.7	12	95	0	55	0	9	3	87	0.64
1631623--1631656	13	2.7	13	90	4	52	0	8	5	85	0.75
1637322--1637355	17	2.0	17	88	0	50	5	29	14	50	1.67
1644142--1644197	28	1.9	28	89	7	85	35	19	23	21	1.96
1644234--1644307	28	2.6	29	82	4	80	25	16	32	25	1.96
1644326--1644468	52	2.7	52	81	8	164	34	12	24	28	1.92
1644299--1644476	52	3.4	52	78	11	159	35	11	23	29	1.90
1644333--1644514	52	3.5	52	80	4	145	34	13	24	27	1.93
1644180--1644682	266	1.9	262	88	4	760	31	13	26	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644291--1644677	51	7.3	52	69	16	183	32	12	25	29	1.93
1645641--1645708	19	3.9	18	76	23	83	38	14	11	35	1.83
1645663--1645687	13	1.9	13	100	0	50	32	16	16	36	1.90
1645644--1645706	32	2.0	32	96	0	117	36	15	12	34	1.86
1645764--1645820	21	2.7	21	97	0	105	36	19	10	33	1.86
1652446--1652499	20	2.7	20	100	0	108	38	11	14	35	1.82
1652603--1652674	19	3.7	19	92	3	108	34	18	12	34	1.88
1653900--1653929	15	1.9	16	93	6	53	26	6	0	66	1.16
1655039--1655085	22	2.1	22	88	0	67	31	21	14	31	1.94
1662866--1663097	78	2.9	78	77	8	245	32	14	27	26	1.94
1663053--1663124	28	2.6	28	84	10	94	23	18	34	23	1.96
1663112--1663295	53	3.5	52	78	11	189	34	10	23	31	1.89
1663112--1663334	104	2.1	104	80	6	238	34	11	22	31	1.90
1663204--1663334	51	2.5	53	85	2	176	37	13	20	28	1.91
1663317--1663389	27	2.6	28	77	14	80	21	21	32	23	1.98
1663376--1663506	51	2.5	51	81	9	156	32	9	25	32	1.89
1663002--1663498	264	1.9	264	86	3	723	32	12	25	29	1.93
1663112--1663498	53	7.4	51	69	13	180	33	11	24	31	1.91
1663820--1663874	24	2.2	25	93	6	94	54	14	9	21	1.68
1663859--1663883	12	2.1	12	100	0	50	52	16	8	24	1.70
1665776--1665801	13	2.0	13	100	0	52	38	15	15	30	1.88
1665755--1665821	33	2.0	33	88	0	98	43	16	14	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1665841--1665910	19	4.1	18	77	22	87	37	15	11	35	1.84
1665863--1665887	13	1.9	13	100	0	50	32	16	16	36	1.90
1665844--1665906	32	2.0	32	96	0	117	36	15	12	34	1.86
1666718--1667275	55	9.9	55	82	8	635	23	21	29	25	1.99
1666720--1667272	223	2.4	224	86	5	774	23	21	28	25	1.99
1668262--1668334	36	2.0	36	84	7	94	0	10	8	80	0.89
1668257--1668321	10	6.7	10	73	3	53	0	12	6	81	0.86
1668302--1668332	16	1.9	16	93	0	53	0	12	3	83	0.75
1668282--1668334	13	4.4	12	79	13	56	0	7	9	83	0.83
1670135--1670265	51	2.5	53	82	9	160	33	9	24	32	1.88

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