genome.fa.s92.2.7.7.80.10.50.1000.12.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

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

This is table  12  of  19  ( 2187 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)
1474832--1474892	13	4.4	13	70	13	50	60	0	0	39	0.97
1474837--1474911	8	10.0	8	76	13	63	64	1	0	34	1.02
1474840--1474989	29	5.2	29	74	18	109	62	0	0	36	1.05
1475241--1475267	14	1.9	14	100	0	54	66	0	7	25	1.17
1479668--1479704	19	1.9	20	88	5	58	59	2	0	37	1.12
1479648--1479711	31	2.1	29	86	11	85	56	1	3	39	1.25
1479827--1479879	10	5.2	10	78	10	54	30	0	1	67	1.01
1479819--1479867	25	2.0	25	84	8	64	28	0	2	69	1.00
1479819--1479884	27	2.5	25	81	13	78	31	0	1	66	1.01
1480354--1480519	5	34.4	5	67	22	61	59	0	0	40	0.98
1480353--1480532	11	14.2	12	68	19	82	58	0	0	40	1.02
1480394--1480487	21	4.8	20	65	28	51	52	0	0	47	1.00
1480635--1480735	28	3.5	28	78	10	98	54	0	0	45	0.99
1481632--1481674	20	2.2	20	91	0	68	60	2	4	32	1.30
1482145--1482190	22	2.2	22	88	7	69	60	0	0	39	0.97
1483352--1483381	2	15.0	2	100	0	60	50	0	0	50	1.00
1483617--1483652	19	1.9	18	88	5	54	33	0	0	66	0.92
1483909--1483953	21	2.1	22	84	12	58	44	0	0	55	0.99
1485506--1485545	2	20.0	2	100	0	80	50	0	0	50	1.00
1486012--1486079	33	2.0	34	83	8	86	50	0	0	50	1.00
1486294--1486339	11	4.4	11	75	10	51	28	2	2	67	1.14
1486885--1486929	2	23.0	2	95	4	83	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1490398--1490489	49	1.9	47	93	4	157	42	4	2	51	1.34
1490620--1490675	4	14.0	4	86	0	58	50	8	1	39	1.44
1490620--1490675	6	9.3	6	84	0	58	50	8	1	39	1.44
1490611--1490674	10	6.5	10	83	1	67	50	10	1	37	1.47
1493344--1493601	90	2.9	89	81	5	288	32	15	5	45	1.71
1493827--1493852	8	3.2	8	100	0	52	57	0	0	42	0.98
1494158--1494197	20	2.1	18	86	9	53	47	0	0	52	1.00
1494922--1494951	15	2.0	15	93	0	51	50	26	0	23	1.50
1495165--1495207	19	2.3	18	77	14	52	32	0	2	65	1.06
1496685--1496739	22	2.5	20	78	16	56	47	0	0	52	1.00
1498303--1498356	22	2.4	22	84	6	63	40	0	0	59	0.98
1499541--1499603	23	2.6	24	73	12	67	44	0	0	55	0.99
1499598--1499641	20	2.1	21	84	12	56	52	2	0	45	1.13
1499922--1499988	15	3.9	18	71	26	56	47	0	0	52	1.00
1499905--1499977	18	4.4	17	70	21	57	47	0	0	52	1.00
1499947--1499993	25	1.9	24	86	4	67	51	0	0	48	1.00
1500243--1500272	2	15.0	2	92	0	51	50	3	0	46	1.18
1502919--1503014	33	2.9	32	79	11	95	53	1	3	42	1.23
1502971--1503038	27	2.5	27	81	9	77	51	1	4	42	1.31
1503672--1503727	21	2.7	21	77	5	60	57	5	0	37	1.22
1504749--1504783	17	2.1	17	88	0	52	57	2	0	40	1.14
1505189--1505245	24	2.4	23	82	11	62	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505189--1505233	13	3.6	13	79	11	58	44	0	0	55	0.99
1505246--1505298	21	2.5	21	81	6	63	37	0	0	62	0.96
1505565--1505602	19	1.9	19	89	5	58	71	2	0	26	1.00
1505698--1505736	15	2.6	15	83	0	51	38	0	0	61	0.96
1507115--1507335	34	6.5	33	81	9	257	40	25	7	25	1.82
1507117--1507335	68	3.2	68	85	1	298	40	25	7	26	1.82
1507115--1507335	102	2.2	101	87	1	334	40	25	7	25	1.82
1511743--1511962	34	6.5	33	81	9	255	40	26	7	25	1.82
1511745--1511962	68	3.2	67	84	3	285	40	26	7	25	1.82
1511743--1511962	102	2.2	101	88	1	341	40	26	7	25	1.82
1512665--1512736	28	2.5	31	74	21	75	48	0	0	51	1.00
1513693--1513719	2	13.5	2	100	0	54	51	0	0	48	1.00
1515611--1515694	27	3.0	28	81	13	77	53	0	1	45	1.08
1517531--1517560	13	2.3	13	94	0	51	23	10	0	66	1.21
1517670--1517714	21	2.2	21	96	4	83	57	0	0	42	0.98
1519166--1519210	20	2.4	18	82	10	56	33	2	4	60	1.29
1522402--1522426	5	5.0	5	100	0	50	80	0	0	20	0.72
1525942--1525971	14	2.1	14	100	0	60	50	6	0	43	1.28
1529595--1529667	28	2.6	27	82	10	76	64	1	0	34	1.02
1529595--1529657	14	4.3	15	78	15	69	63	1	0	34	1.04
1529615--1529697	33	2.5	32	81	12	89	66	3	0	30	1.09
1529844--1529868	12	2.1	12	100	0	50	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530238--1530297	22	3.1	18	75	15	57	43	0	0	56	0.99
1530224--1530339	41	2.6	45	80	13	125	44	0	0	54	1.06
1530238--1530299	19	3.1	19	71	17	54	43	0	0	56	0.99
1531168--1531217	20	2.6	20	84	6	59	58	2	2	38	1.21
1531189--1531227	19	2.0	20	85	5	53	61	0	0	38	0.96
1531302--1531343	15	2.6	17	82	17	63	40	0	0	59	0.97
1531306--1531378	15	4.5	17	80	15	59	41	0	0	58	0.98
1532141--1532192	22	2.3	23	83	9	63	53	1	0	44	1.11
1532163--1532211	16	3.3	15	80	13	57	51	2	0	46	1.12
1532179--1532248	24	2.9	23	71	28	56	48	4	0	47	1.21
1532163--1532221	29	2.0	30	83	9	77	50	1	0	47	1.11
1532441--1532493	11	4.5	11	77	15	52	58	1	0	39	1.09
1532441--1532493	25	2.2	23	90	6	79	58	1	0	39	1.09
1532521--1532573	23	2.4	21	76	14	54	62	0	1	35	1.06
1533518--1533564	2	23.5	2	100	0	94	51	0	0	48	1.00
1534435--1534465	2	15.5	2	100	0	62	0	48	0	51	1.00
1548120--1548146	2	13.5	2	100	0	54	48	0	0	51	1.00
1548406--1548449	23	1.9	23	86	9	63	52	4	0	43	1.22
1548906--1548950	2	22.5	2	100	0	90	51	0	0	48	1.00
1549189--1549216	2	14.0	2	100	0	56	50	0	0	50	1.00
1550670--1550710	21	1.9	22	85	5	57	41	0	0	58	0.98
1550667--1550729	26	2.4	25	79	7	72	34	1	1	61	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550780--1550843	27	2.3	28	80	15	71	39	3	0	57	1.14
1552415--1552439	2	12.5	2	100	0	50	48	0	0	52	1.00
1552618--1552659	21	2.0	22	85	4	59	47	0	0	52	1.00
1552611--1552667	28	2.0	27	83	10	69	47	0	0	52	1.00
1552651--1552701	24	2.0	25	82	14	61	52	1	0	45	1.12
1553220--1553296	27	2.9	27	80	3	93	42	12	7	36	1.72
1553210--1553302	14	6.8	14	69	4	64	40	10	8	39	1.71
1553587--1553654	29	2.3	28	82	12	82	50	1	1	47	1.19
1553734--1553773	21	1.9	21	94	0	71	52	0	5	42	1.23
1553732--1553778	21	2.3	21	85	3	69	51	0	4	44	1.21
1555082--1555139	29	2.0	30	86	3	82	34	3	1	60	1.24
1555671--1555799	30	4.4	29	76	13	115	40	3	1	55	1.25
1555776--1555827	18	2.9	18	78	16	63	42	1	0	55	1.10
1555695--1555795	30	3.4	29	81	9	125	38	1	1	57	1.21
1560452--1560494	17	2.5	17	80	0	59	27	9	0	62	1.25
1561544--1561598	21	2.7	21	83	10	78	56	0	0	43	0.99
1563098--1563132	7	5.0	7	85	0	52	20	0	0	80	0.72
1563395--1563423	15	2.0	15	93	6	51	55	0	6	37	1.27
1564548--1564825	140	2.0	140	94	0	493	45	11	9	33	1.73
1570170--1570215	24	1.9	24	81	0	56	54	0	10	34	1.36
1571247--1571276	2	15.0	2	92	0	51	50	3	0	46	1.18
1576180--1576225	22	2.1	22	91	0	74	34	4	23	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576532--1576558	2	13.5	2	100	0	54	51	0	0	48	1.00
1577549--1577577	14	2.0	15	93	6	51	34	0	0	65	0.93
1577890--1577928	5	7.4	5	83	11	51	48	0	0	51	1.00
1577889--1577928	11	3.7	11	90	6	64	50	0	0	50	1.00
1577889--1577928	16	2.5	16	91	0	71	50	0	0	50	1.00
1579137--1579276	53	2.7	51	75	10	131	44	10	7	37	1.68
1579254--1579297	16	2.8	16	92	0	79	56	0	0	43	0.99
1579245--1579311	31	2.2	31	86	5	91	55	0	0	44	0.99
1581104--1581185	41	2.0	40	86	9	114	46	0	0	53	1.00
1582521--1582576	3	18.7	3	100	0	112	33	32	0	33	1.58

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