genome.fa.s82.2.7.7.80.10.50.1000.11.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: Scaffold82
Parameters: 2 7 7 80 10 50 1000
Length:  2626005

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

This is table  11  of  17  ( 2012 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)
1441459--1441524	20	3.1	22	85	8	75	72	0	22	4	1.02
1441471--1441509	13	3.0	13	88	7	53	74	0	23	2	0.94
1442432--1442750	164	2.0	159	86	4	444	34	10	15	39	1.82
1446925--1446960	19	1.9	19	94	5	65	80	0	8	11	0.90
1446918--1446959	19	2.2	19	87	8	59	80	0	11	7	0.88
1446945--1447006	31	1.9	31	83	9	79	75	4	3	16	1.10
1448141--1448386	40	6.1	40	75	6	174	20	17	11	50	1.77
1448385--1448477	41	2.3	41	86	3	125	17	19	13	49	1.79
1450198--1450248	24	2.2	22	82	6	57	23	3	0	72	1.01
1450416--1450456	13	3.1	13	86	6	55	80	0	9	9	0.91
1450995--1451020	13	2.0	13	100	0	52	30	15	15	38	1.88
1451006--1451060	19	2.8	20	83	2	76	29	20	16	34	1.94
1451091--1451161	20	3.6	19	84	7	88	39	12	16	30	1.86
1459838--1459863	13	2.0	13	100	0	52	30	15	15	38	1.88
1459848--1459902	19	2.8	19	94	2	92	32	21	10	34	1.89
1461235--1462087	424	2.0	423	99	0	1670	36	9	15	38	1.79
1462305--1462487	29	6.3	29	82	0	177	37	3	21	37	1.70
1462326--1462486	87	1.9	87	83	0	214	37	3	21	37	1.72
1462588--1462879	156	1.9	154	80	7	340	23	16	18	41	1.89
1465391--1465444	20	2.6	21	82	11	76	40	9	18	31	1.82
1470808--1470887	16	5.0	16	79	11	76	41	30	15	13	1.85
1470808--1470887	32	2.5	32	82	11	101	41	30	15	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1471702--1471743	16	2.6	16	88	7	59	42	26	11	19	1.85
1471713--1471770	16	3.6	16	76	6	55	43	27	13	15	1.85
1471730--1471781	16	3.2	16	76	10	52	44	25	15	15	1.85
1473279--1473330	23	2.3	22	83	9	68	40	3	1	53	1.30
1473282--1473323	12	3.5	12	80	9	50	40	4	2	52	1.35
1473570--1473620	21	2.4	21	77	9	50	50	0	7	41	1.31
1473695--1473770	37	2.1	36	87	2	107	40	7	2	48	1.46
1473695--1473747	18	2.8	20	73	23	60	33	7	3	54	1.46
1475807--1475861	17	3.3	15	75	20	56	40	1	7	50	1.40
1475790--1475861	35	2.1	34	82	14	87	38	1	6	52	1.37
1475812--1475861	18	2.9	17	79	5	64	38	2	8	52	1.43
1475862--1475907	20	2.3	20	85	10	60	63	2	2	32	1.19
1477256--1477332	39	2.0	40	82	7	95	50	0	1	48	1.09
1483901--1483965	33	2.0	32	88	8	96	36	15	15	32	1.89
1486056--1486106	21	2.5	20	84	9	66	60	1	19	17	1.45
1486056--1486114	21	2.8	21	84	0	64	61	1	20	16	1.44
1489865--1489889	13	1.9	13	100	0	50	32	16	16	36	1.90
1489978--1490003	13	2.0	13	100	0	52	30	15	15	38	1.88
1489958--1490025	33	2.1	33	86	8	95	33	14	17	33	1.91
1492954--1493032	1	79.0	1	79	0	68	0	8	3	87	0.66
1492965--1493032	21	3.2	21	91	6	102	0	10	2	86	0.67
1492954--1493033	28	2.9	27	78	12	99	0	10	3	86	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502046--1502120	20	3.8	20	76	0	78	37	13	9	40	1.77
1502046--1502123	40	2.0	39	84	2	102	37	12	10	39	1.78
1509166--1509243	34	2.3	34	82	4	95	71	11	12	3	1.26
1510561--1511079	27	19.0	27	91	2	815	23	35	14	26	1.93
1510566--1511077	82	6.3	82	92	3	802	24	35	14	26	1.93
1511062--1512478	64	23.7	61	85	7	1279	28	33	18	19	1.95
1511062--1512478	96	15.8	89	85	6	1291	28	33	18	19	1.95
1510570--1512478	28	65.4	28	88	5	1433	27	33	17	21	1.95
1510599--1512478	145	12.9	143	85	7	1357	27	33	17	21	1.95
1512424--1512499	30	2.5	30	84	2	98	30	31	13	25	1.93
1513108--1513182	20	3.8	20	76	0	78	37	13	9	40	1.77
1513108--1513185	40	2.0	39	84	2	102	37	12	10	39	1.78
1519609--1519732	61	2.0	62	85	4	171	41	12	15	30	1.83
1519796--1519838	20	2.2	20	87	8	61	30	18	9	41	1.82
1521854--1521962	52	2.1	52	82	0	128	31	14	14	39	1.87
1525481--1525555	39	1.9	39	91	5	125	50	17	5	26	1.67
1526920--1526979	19	3.2	19	92	0	102	15	26	8	50	1.72
1532422--1532511	27	3.3	27	93	0	144	25	26	20	27	1.99
1534607--1534659	21	2.6	20	76	8	54	28	7	16	47	1.74
1534514--1534713	92	2.2	92	85	0	267	30	12	18	39	1.86
1537756--1537932	88	2.0	88	87	0	255	42	16	14	25	1.86
1539499--1539539	3	13.7	3	100	0	82	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540601--1540633	16	2.0	17	94	5	59	45	6	0	48	1.27
1545502--1545541	22	1.9	22	85	10	57	65	2	2	30	1.19
1547525--1547564	21	1.9	21	90	10	64	32	27	5	35	1.79
1553109--1553257	52	2.9	51	87	4	217	30	18	18	33	1.94
1553246--1553270	13	1.9	13	100	0	50	36	16	16	32	1.90
1553311--1553377	33	2.0	33	88	0	98	40	13	11	34	1.81
1553333--1553357	13	1.9	13	100	0	50	32	16	16	36	1.90
1554240--1554530	96	3.0	94	83	8	365	33	16	23	26	1.96
1554251--1554531	48	5.9	47	83	7	318	32	17	23	26	1.97
1554549--1554672	28	4.3	28	81	5	124	18	15	29	36	1.92
1554575--1554890	29	10.6	30	73	12	168	27	15	28	29	1.96
1554646--1554734	34	2.6	34	77	8	85	38	12	28	21	1.89
1554779--1554890	60	1.9	59	87	3	163	25	16	25	32	1.97
1563417--1563565	52	2.9	51	85	4	199	30	18	18	32	1.95
1563554--1563578	13	1.9	13	100	0	50	36	16	16	32	1.90
1563641--1563665	13	1.9	13	100	0	50	32	16	16	36	1.90
1564548--1564838	96	3.0	94	83	8	365	33	16	23	26	1.96
1564559--1564839	48	5.9	47	83	7	318	32	17	23	26	1.97
1564857--1564980	28	4.3	28	81	5	124	18	15	29	36	1.92
1564954--1565042	34	2.6	34	77	8	85	38	12	28	21	1.89
1565023--1565196	29	5.9	29	78	9	156	26	16	29	27	1.97
1567067--1567107	13	2.9	14	82	10	57	19	2	2	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1568027--1568165	51	2.7	50	69	13	122	10	20	15	53	1.70
1568289--1568380	45	2.0	46	82	4	114	9	23	13	53	1.69
1568919--1568965	24	1.9	24	86	4	67	8	4	10	76	1.13
1568952--1568999	19	2.7	17	78	12	60	16	4	2	77	1.03
1569555--1569663	44	2.5	42	75	8	103	45	11	24	17	1.82
1569963--1570107	31	4.6	32	87	6	197	24	19	28	26	1.98
1570099--1570345	31	8.1	31	75	8	209	20	26	27	25	1.99
1570102--1570368	62	4.4	62	81	3	308	20	25	26	27	1.99
1570099--1570368	121	2.2	122	83	3	310	20	25	26	27	1.99
1570464--1570578	31	3.7	30	80	11	124	17	18	33	30	1.94
1570463--1570592	62	2.1	64	88	2	192	19	16	32	31	1.94
1570475--1570606	62	2.1	62	85	4	158	19	17	31	31	1.95
1570729--1570830	29	3.5	29	84	9	120	33	10	28	27	1.90
1570775--1570867	29	3.0	32	80	9	102	43	9	22	24	1.83
1570725--1571561	30	27.4	30	68	14	255	33	12	29	24	1.92
1570842--1571171	152	2.2	152	80	8	343	35	12	29	22	1.91
1570751--1571074	122	2.7	123	80	4	329	34	12	28	24	1.92
1570632--1571070	62	7.2	61	70	11	242	33	12	28	25	1.92
1570950--1571228	154	1.8	153	85	4	393	35	13	29	21	1.92
1571064--1571331	124	2.2	122	87	2	367	34	13	29	22	1.92
1570962--1571293	154	2.2	150	78	9	332	34	12	30	21	1.91
1571064--1571380	122	2.6	123	85	2	399	35	12	29	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570915--1571410	276	1.8	273	86	3	728	33	12	30	22	1.92
1571119--1571478	122	2.9	119	83	5	373	33	11	30	23	1.91
1571220--1571560	185	1.9	182	88	1	511	32	13	30	23	1.93
1570874--1571571	276	2.5	274	80	9	703	33	13	30	23	1.93
1577767--1577795	8	3.6	8	100	0	58	13	0	13	72	1.13
1582556--1582617	18	3.2	18	77	6	52	58	3	0	38	1.15
1582885--1582925	20	2.0	20	86	9	57	36	0	0	63	0.95
1582907--1582959	22	2.4	23	79	17	60	45	0	1	52	1.11
1582861--1582966	19	5.4	19	70	19	67	44	0	0	54	1.06
1583190--1583224	16	2.1	16	89	10	52	37	5	0	57	1.23

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