genome.fa.s409.2.7.7.80.10.50.1000.10.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

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   

This is table  10  of  25  ( 2882 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)
1395781--1395849	28	2.5	28	87	0	93	24	18	33	23	1.97
1395313--1396175	51	16.6	51	72	6	519	33	11	25	29	1.91
1398512--1398558	13	4.0	13	69	25	50	36	17	17	29	1.92
1398511--1398555	21	2.1	21	95	0	81	33	15	20	31	1.93
1399881--1399935	20	2.8	19	83	5	65	40	16	14	29	1.88
1399995--1400020	13	2.0	13	100	0	52	38	15	15	30	1.88
1404083--1404113	15	2.1	15	93	0	53	48	16	22	12	1.80
1406341--1406386	21	2.2	20	81	11	58	32	19	4	43	1.71
1408771--1408796	13	2.0	13	100	0	52	38	15	15	30	1.88
1412053--1412124	20	3.7	19	72	7	56	38	12	15	33	1.85
1413439--1413511	20	3.6	20	81	3	101	35	13	19	31	1.91
1413457--1413532	21	3.7	21	80	3	100	42	11	17	28	1.84
1413439--1413532	41	2.3	41	98	0	179	39	12	18	29	1.88
1413571--1413596	13	2.0	13	100	0	52	38	15	15	30	1.88
1413553--1413616	32	2.0	33	87	3	94	40	17	14	28	1.88
1417658--1417688	15	2.1	15	93	0	53	48	16	22	12	1.80
1419768--1419805	13	2.9	13	96	0	67	34	18	15	31	1.92
1422248--1422320	20	3.6	20	81	3	101	35	13	19	31	1.91
1422266--1422341	21	3.7	21	80	3	100	42	11	17	28	1.84
1422248--1422341	41	2.3	41	98	0	179	39	12	18	29	1.88
1422380--1422405	13	2.0	13	100	0	52	38	15	15	30	1.88
1423246--1423437	93	2.1	93	92	0	321	34	15	13	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427421--1427445	13	1.9	13	100	0	50	32	16	16	36	1.90
1428083--1428146	32	1.9	33	87	9	94	28	12	25	34	1.92
1429268--1429292	13	1.9	13	100	0	50	36	16	16	32	1.90
1429281--1429334	20	2.8	19	83	5	72	33	12	16	37	1.87
1431019--1431049	3	10.3	3	92	0	53	35	0	35	29	1.58
1437997--1438053	20	3.0	20	82	7	73	33	14	17	35	1.90
1447098--1447128	13	2.4	13	94	0	53	35	16	9	38	1.81
1448024--1448634	81	7.6	80	74	6	421	27	27	11	33	1.91
1448063--1448634	161	3.6	162	77	6	486	27	27	10	34	1.90
1453350--1453455	20	4.8	20	76	22	95	41	11	17	29	1.85
1454274--1454944	28	23.5	28	84	4	772	23	16	30	29	1.96
1454274--1454944	57	11.7	57	86	4	906	23	16	30	29	1.96
1454256--1454944	85	8.0	85	85	4	868	23	16	30	29	1.96
1456151--1456236	9	9.1	9	76	11	66	5	2	10	81	0.95
1456153--1456237	10	8.5	10	72	12	50	5	2	9	82	0.92
1456153--1456210	20	2.8	22	82	10	77	5	3	10	81	0.97
1456151--1456239	39	2.3	38	82	9	99	5	2	10	82	0.93
1469268--1469344	20	3.8	20	79	6	93	36	12	19	31	1.90
1470837--1470913	32	2.4	32	83	10	104	28	14	15	41	1.86
1473880--1473963	43	2.0	43	97	0	159	33	15	19	32	1.93
1479182--1479238	22	2.5	24	72	18	59	33	3	3	59	1.31
1488131--1488203	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488149--1488224	21	3.7	21	78	3	91	40	11	17	30	1.85
1488131--1488224	41	2.3	41	96	0	170	38	12	18	30	1.88
1488263--1488288	13	2.0	13	100	0	52	38	15	15	30	1.88
1492348--1492378	15	2.1	15	93	0	53	48	16	22	12	1.80
1494386--1494463	20	3.7	20	74	15	75	26	15	15	42	1.87
1494452--1494489	13	2.9	13	96	0	67	34	18	15	31	1.92
1496280--1496321	21	2.0	21	100	0	84	23	4	19	52	1.65
1496956--1497028	20	3.6	20	79	3	92	35	12	19	32	1.89
1496974--1497049	21	3.7	21	75	3	82	40	10	17	31	1.83
1496956--1497049	41	2.3	41	94	0	161	38	11	18	31	1.86
1497088--1497113	13	2.0	13	100	0	52	38	15	15	30	1.88
1498303--1498601	79	3.8	78	82	5	314	34	13	24	28	1.93
1498538--1498654	51	2.3	52	87	1	173	31	11	25	31	1.91
1498622--1498870	110	2.3	110	83	2	317	34	14	23	27	1.94
1498747--1498820	28	2.7	27	87	8	96	27	20	29	22	1.98
1498807--1498974	51	3.3	50	76	7	160	35	13	22	28	1.92
1501275--1501395	20	6.8	19	69	25	86	43	13	14	28	1.82
1501295--1501395	33	3.1	33	95	0	184	44	13	13	27	1.82
1501314--1501377	13	5.4	13	70	21	59	42	14	14	29	1.84
1501949--1502130	41	4.5	41	89	4	237	43	10	26	19	1.84
1501949--1502257	82	3.8	83	75	16	249	42	12	26	18	1.86
1502120--1502277	42	3.8	43	79	14	165	39	16	25	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502182--1502277	38	2.4	40	84	10	117	36	18	26	18	1.94
1502247--1502434	61	3.1	62	89	3	274	32	19	25	23	1.97
1502502--1502638	56	2.5	55	92	1	229	25	21	24	28	1.99
1502322--1502607	150	1.9	152	84	4	387	27	20	26	25	1.99
1503644--1503694	20	2.6	19	82	14	59	0	7	5	86	0.71
1503644--1503694	11	4.7	11	78	4	50	0	7	5	86	0.71
1510693--1511224	264	2.0	264	99	0	1046	24	21	21	31	1.98
1516364--1516584	79	2.8	78	85	8	270	35	13	23	27	1.92
1516519--1516686	51	3.3	51	83	0	219	31	9	26	32	1.88
1516671--1516744	28	2.6	28	86	0	103	25	22	31	20	1.98
1516813--1516991	51	3.5	51	76	2	173	35	10	23	30	1.89
1519279--1519374	20	4.8	20	91	5	133	42	13	16	27	1.86
1519280--1519374	40	2.4	40	91	3	147	42	13	16	27	1.86
1522593--1522617	13	1.9	13	100	0	50	32	16	16	36	1.90
1523357--1523417	22	2.8	22	92	5	97	32	27	0	39	1.57
1525369--1525402	13	2.6	13	100	0	68	41	8	14	35	1.77
1529896--1530790	28	31.1	29	87	6	1209	22	17	31	27	1.97
1529896--1530790	57	15.5	57	89	5	1218	22	17	31	27	1.97
1534460--1534588	52	2.5	52	93	0	222	29	17	18	34	1.94
1534634--1534733	32	3.2	32	87	8	150	37	17	10	36	1.83
1535634--1535707	1	74.0	1	78	0	76	1	1	8	89	0.61
1535620--1535689	20	3.5	20	80	3	77	4	1	8	85	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535634--1535707	9	8.7	9	81	12	86	1	1	8	89	0.61
1535634--1535708	16	4.5	17	85	9	93	1	1	9	88	0.65
1549623--1549747	20	5.7	20	73	18	106	41	12	16	29	1.85
1552337--1552388	19	2.7	20	87	6	79	28	13	15	42	1.85
1555979--1556009	15	2.1	15	93	0	53	12	22	16	48	1.80
1560038--1560089	19	2.7	20	87	6	79	28	13	15	42	1.85
1568513--1568546	17	2.0	17	88	0	50	67	17	14	0	1.23
1573695--1573748	15	3.4	15	79	7	54	14	12	0	72	1.13
1573712--1573768	24	2.4	25	82	5	64	15	14	0	70	1.18
1573929--1573978	22	2.3	22	86	10	68	54	2	10	34	1.45
1575499--1575551	19	2.7	20	88	2	72	37	16	16	28	1.91
1575540--1575564	13	1.9	13	100	0	50	32	16	20	32	1.94
1575521--1575584	32	2.0	32	87	9	94	39	15	17	28	1.90
1577435--1577885	27	16.4	27	83	2	524	23	31	15	30	1.95
1577435--1577885	137	3.3	137	86	2	586	23	31	15	30	1.95
1577435--1577885	82	5.5	81	85	3	508	23	31	15	30	1.95
1577449--1578567	28	38.9	28	79	7	362	27	30	16	25	1.96
1577435--1577885	110	4.1	110	86	2	557	23	31	15	30	1.95
1577964--1578596	32	21.1	32	79	8	460	30	30	17	21	1.96
1577854--1578556	85	8.0	83	78	10	441	30	30	17	22	1.96
1577840--1578567	113	6.2	113	80	8	561	30	30	16	22	1.96
1585385--1585449	33	2.0	33	84	0	85	35	16	12	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587902--1587951	21	2.4	21	83	9	59	48	0	20	32	1.50
1587909--1587951	21	2.0	22	86	4	61	51	0	20	27	1.48
1588060--1588095	13	2.8	13	91	0	63	38	5	16	38	1.72
1589268--1589898	317	2.0	317	88	1	944	32	19	11	35	1.88
1592925--1592965	3	13.7	3	89	0	64	29	31	0	39	1.57
1595273--1595327	21	2.5	22	94	5	103	36	10	25	27	1.89
1595315--1595345	10	3.1	10	90	0	53	41	6	29	22	1.78
1595369--1595505	53	2.6	53	95	1	247	27	17	18	37	1.93
1595475--1595545	20	3.5	20	77	11	74	29	12	16	40	1.86
1595585--1595625	21	2.0	21	85	9	57	39	9	12	39	1.76

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