genome.fa.s373.2.7.7.80.10.50.1000.11.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: Scaffold373
Parameters: 2 7 7 80 10 50 1000
Length:  3053563

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  11  of  20  ( 2389 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)
1547415--1547445	10	3.1	10	90	0	53	22	29	6	41	1.78
1547433--1547488	21	2.6	22	94	5	105	26	25	10	37	1.88
1547423--1547606	53	3.3	54	73	19	164	29	23	9	37	1.86
1547455--1547570	34	3.6	34	72	18	115	28	22	9	39	1.85
1552441--1552535	19	5.6	19	69	27	88	27	15	16	40	1.89
1552443--1552535	32	2.9	32	96	0	168	27	16	16	39	1.89
1552492--1552517	13	2.0	13	100	0	52	30	15	15	38	1.88
1552617--1552641	13	1.9	13	100	0	50	36	16	16	32	1.90
1553010--1553090	42	1.9	42	87	5	119	43	17	22	17	1.88
1553141--1554346	42	28.5	42	71	8	208	41	16	24	17	1.89
1553123--1561648	84	100.2	84	71	9	3231	42	16	23	17	1.89
1553081--1553477	218	1.8	218	84	2	546	39	16	24	18	1.91
1553398--1561291	42	185.8	42	70	9	1220	42	16	23	17	1.89
1553155--1561648	126	66.5	124	70	11	2030	42	16	23	17	1.89
1554302--1554395	49	1.9	49	80	4	109	38	14	27	19	1.91
1556053--1556167	43	2.7	42	85	5	151	46	16	21	15	1.84
1556629--1557093	174	2.7	174	78	5	429	43	17	23	16	1.88
1557284--1557689	173	2.3	173	81	2	494	42	16	23	16	1.88
1558722--1559107	173	2.2	173	80	5	440	42	17	23	17	1.89
1559490--1559593	43	2.5	42	82	1	127	45	13	24	17	1.84
1559477--1559777	165	1.8	166	79	5	358	42	16	23	16	1.88
1559974--1560378	216	1.9	216	80	3	474	41	16	23	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559958--1560459	258	1.9	258	83	4	638	42	16	23	17	1.88
1559980--1560661	258	2.6	258	78	6	558	42	16	23	17	1.89
1560744--1560908	90	1.8	90	81	0	204	43	17	22	16	1.88
1561217--1561330	43	2.7	42	80	4	104	42	20	21	14	1.88
1561388--1561634	42	5.7	42	76	8	153	41	19	22	16	1.90
1562738--1562809	28	2.6	27	84	8	83	22	18	36	23	1.95
1562797--1562982	51	3.6	50	78	10	196	32	9	25	32	1.87
1565338--1565378	21	2.0	21	90	0	64	31	17	9	41	1.82
1565395--1565467	32	2.3	32	92	0	119	36	19	10	32	1.86
1565422--1565446	13	1.9	13	100	0	50	32	16	16	36	1.90
1565434--1565495	19	3.2	19	71	13	54	27	17	14	40	1.89
1565764--1568070	42	54.8	42	69	11	404	41	16	24	17	1.89
1565775--1565964	83	2.3	84	80	2	204	44	16	22	16	1.87
1565764--1568098	84	27.7	84	71	9	997	41	16	24	17	1.89
1567038--1567087	24	2.1	24	88	0	73	40	8	28	24	1.83
1567780--1568030	133	1.9	132	82	8	321	39	14	25	19	1.90
1568218--1568632	44	9.4	44	71	9	213	42	14	21	21	1.89
1568260--1568705	132	3.4	127	79	7	439	42	14	20	22	1.88
1568218--1568691	44	10.8	44	69	10	202	42	14	21	21	1.88
1568218--1568705	88	5.6	89	74	9	322	42	14	21	21	1.88
1569490--1569515	13	2.0	13	100	0	52	30	15	15	38	1.88
1569469--1569533	32	2.0	34	90	6	107	27	12	15	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570266--1570316	23	2.2	23	96	0	93	45	13	1	39	1.55
1578278--1578303	13	2.0	13	100	0	52	30	15	15	38	1.88
1595620--1595694	20	3.8	19	84	7	96	30	16	10	42	1.81
1598065--1598233	51	3.3	51	93	0	277	30	28	11	29	1.91
1598167--1598471	78	3.9	78	77	3	283	28	26	13	31	1.93
1598167--1598471	157	1.9	157	80	3	346	28	26	13	31	1.93
1603282--1603356	12	6.2	12	75	9	80	4	8	22	65	1.36
1603305--1603353	25	2.0	25	95	0	89	0	6	26	67	1.14
1603906--1603930	13	1.9	13	100	0	50	36	16	16	32	1.90
1603886--1603952	33	2.0	33	88	0	98	32	11	14	40	1.83
1607222--1607261	20	2.0	21	90	5	64	0	7	7	85	0.76
1608756--1609573	42	19.5	42	75	5	508	34	18	28	18	1.95
1608804--1609513	126	5.7	126	77	4	576	33	18	29	18	1.95
1609130--1609573	209	2.1	209	81	2	525	34	19	29	17	1.95
1609554--1609588	18	1.9	18	88	11	54	31	20	25	22	1.98
1609483--1609675	102	1.9	102	81	2	235	33	18	28	19	1.96
1609581--1610330	42	17.9	42	73	7	344	33	18	30	17	1.94
1609441--1609713	144	1.9	144	83	1	359	32	19	29	19	1.96
1609861--1610330	84	5.6	84	80	3	496	34	18	30	17	1.94
1609650--1610253	126	4.8	126	73	9	453	33	18	31	17	1.94
1609862--1610329	168	2.8	168	81	3	573	34	18	29	17	1.94
1610458--1610609	44	3.5	44	83	6	177	40	13	23	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612038--1612082	15	2.9	16	83	9	58	4	11	0	84	0.76
1612048--1612081	9	3.6	9	92	8	50	5	8	0	85	0.75
1624295--1624339	12	3.7	12	76	5	54	0	11	26	62	1.29
1625248--1625281	12	2.8	12	86	0	50	41	11	26	20	1.87
1625319--1625359	13	3.0	14	76	16	50	46	14	19	19	1.84
1625319--1625362	15	3.1	15	81	12	58	45	13	20	20	1.85
1625583--1625622	16	2.4	17	87	4	55	22	0	2	75	0.93
1625588--1625626	19	2.1	18	95	4	69	23	0	0	76	0.78
1625581--1625640	25	2.3	27	85	8	79	20	0	5	75	0.99
1625582--1625643	24	2.7	23	80	9	72	19	0	4	75	0.97
1625582--1625651	25	2.9	24	78	14	65	20	0	5	74	1.02
1627935--1628000	31	2.1	31	88	0	96	22	12	12	53	1.71
1627951--1628018	31	2.2	31	81	5	75	23	11	11	52	1.70
1632674--1632715	21	2.0	21	100	0	84	19	0	52	28	1.46
1633713--1633742	14	2.1	15	93	6	53	0	26	0	73	0.84
1636358--1636409	22	2.3	23	80	3	61	59	1	1	36	1.19
1637820--1637844	2	12.5	2	100	0	50	48	0	0	52	1.00
1638548--1638605	28	2.1	28	93	6	100	46	6	13	32	1.70
1640655--1640842	95	2.0	96	87	5	274	38	12	20	28	1.89
1644085--1644125	16	2.5	16	81	18	57	36	0	0	63	0.95
1646972--1647029	21	2.5	23	83	10	66	44	0	1	53	1.10
1646989--1647036	25	2.0	23	84	8	60	50	4	0	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1647668--1647698	16	1.9	16	93	0	53	41	19	0	38	1.51
1649748--1649899	50	3.0	50	90	0	232	30	18	20	30	1.96
1651180--1651269	44	2.0	44	100	0	180	36	15	17	30	1.91
1651283--1651411	31	4.3	31	69	21	96	26	20	8	44	1.80
1651276--1651441	40	3.9	40	69	23	124	27	20	9	43	1.82
1651295--1651487	14	14.9	14	67	20	75	26	21	8	43	1.81
1651309--1651468	25	6.8	25	66	21	98	27	20	8	43	1.80
1651319--1651530	114	1.8	115	95	4	392	28	21	8	41	1.82
1651673--1651879	86	2.4	86	84	4	263	58	11	19	9	1.60
1652477--1652517	21	2.0	20	85	4	55	19	7	7	65	1.41
1654596--1654798	50	4.1	50	90	1	309	31	19	19	29	1.96
1654596--1654798	99	2.0	100	89	0	309	31	19	19	29	1.96
1656410--1656439	2	15.5	2	93	6	53	50	0	0	50	1.00
1660347--1660381	2	17.5	2	100	0	70	51	0	0	48	1.00
1663528--1663739	106	2.0	106	100	0	424	26	11	10	51	1.69
1664462--1664742	79	3.5	80	80	5	268	33	12	25	28	1.92
1666988--1667042	20	2.8	20	91	0	92	41	9	16	32	1.80
1667032--1667141	50	2.2	50	90	0	175	41	15	18	24	1.89
1669519--1669604	8	10.0	8	71	20	50	6	10	1	81	0.93
1669513--1669546	15	2.3	15	94	0	59	8	14	0	76	1.01
1669535--1669604	8	8.9	8	72	20	58	5	8	1	84	0.84
1669508--1669570	21	2.7	23	90	9	94	7	12	0	79	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669558--1669605	17	2.8	17	78	12	53	8	6	2	83	0.88
1669535--1669572	11	3.5	11	78	7	51	0	10	0	89	0.49
1671477--1671502	2	13.0	2	100	0	52	50	0	0	50	1.00
1672681--1672730	24	2.1	24	84	0	64	30	12	16	42	1.84
1672718--1672742	13	1.9	13	100	0	50	32	16	16	36	1.90
1672834--1672858	13	1.9	13	100	0	50	36	16	16	32	1.90
1672816--1672881	33	2.0	33	93	0	114	36	18	16	28	1.93
1684051--1684081	12	2.6	12	94	0	53	54	0	0	45	0.99
1687393--1687418	2	13.0	2	100	0	52	50	0	0	50	1.00
1687487--1687517	2	15.5	2	100	0	62	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20